One-to-n alignments

Command: compare-matrices  -v 1 -mode matches -format1 transfac -file1 $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.022353_2026-04-21.022353_CcghX5/results/discovered_motifs/peak-motifs_motifs_discovered.tf -format2 tf -file2 $RSAT/public_html/motif_databases/cisBP2/cisBP_Caenorhabditis_elegans_2019.tf -mode matches -strand DR -uth offset_rank 1 -lth w 5 -lth Wr 0.3 -lth cor 0.7 -lth Ncor 0.4 -return matrix_name,matrix_id,cor,Ncor,width,strand,offset,alignments_1ton -sort Ncor -quick -o $RSAT/public_html/tmp/www-data/2026/04/21/peak-motifs.2026-04-21.022353_2026-04-21.022353_CcghX5/results/discovered_vs_db/peak-motifs_motifs_vs_db_cisBP_Caenorhabditis_elegans.tab

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m5_shift4 ; 30 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m5_shift4 (oligos_7nt_mkv2_m5)
; oligos_7nt_mkv2_m5; m=0 (reference); ncol1=11; shift=4; ncol=15; ----aaACGACACvm ; Alignment reference a 0 0 0 0 67 49 111 16 1 95 0 94 0 33 46 c 0 0 0 0 16 26 0 94 0 0 98 16 98 32 36 g 0 0 0 0 16 19 0 0 108 0 0 0 0 40 12 t 0 0 0 0 12 17 0 1 2 16 13 1 13 6 17

M04690_2.00_rc_shift4 (M04690_2.00_rc)
; oligos_7nt_mkv2_m5 versus M04690_2.00_rc; m=1/29; ncol2=10; w=0; offset=0; strand=R; shift=4; score=0.70252; ----rAACGATACr- ; cor=; Ncor= a 0 0 0 0 36.8653 91.6996 100 0 3.73444 100 1.2766 100 0 54.8463 0 c 0 0 0 0 3.75276 0.395257 0 75.817 0 0 0 0 100 7.56501 0 g 0 0 0 0 51.2141 2.7668 0 0 96.2656 0 0 0 0 37.5887 0 t 0 0 0 0 8.16777 5.13834 0 24.183 0 0 98.7234 0 0 0 0

M04688_2.00_rc_shift4 (M04688_2.00_rc)
; oligos_7nt_mkv2_m5 versus M04688_2.00_rc; m=2/29; ncol2=10; w=0; offset=0; strand=R; shift=4; score=0.67739; ----GAACGATACA- ; cor=; Ncor= a 0 0 0 0 14.7145 96.2857 99.0206 1.49648 0.391389 96.8391 1.06693 99.1176 0.295567 69.1518 0 c 0 0 0 0 7.32064 1.33333 0 88.9965 0.391389 0 0.872939 0 99.6059 12.3119 0 g 0 0 0 0 74.0117 0.666667 0.195886 0 98.9237 0.574713 0 0.392157 0.0985222 17.4419 0 t 0 0 0 0 3.95315 1.71429 0.783546 9.50704 0.293542 2.58621 98.0601 0.490196 0 1.09439 0

M04940_2.00_rc_shift5 (ceh-33,unc-39_rc)
; oligos_7nt_mkv2_m5 versus M04940_2.00_rc (ceh-33,unc-39_rc); m=3/29; ncol2=10; w=0; offset=1; strand=R; shift=5; score=0.64966; -----mayGaTACgg ; cor=; Ncor= a 0 0 0 0 0 33.3333 51.7407 0 6.45161 63.8519 0 77.102 1.54639 21.6216 16.9374 c 0 0 0 0 0 26.1574 11.7647 40.1266 11.7647 5.62963 22.2997 19.8569 74.055 15.5727 21.3457 g 0 0 0 0 0 21.0648 22.0888 5.31646 81.7837 10.0741 2.61324 3.04114 8.41924 55.4698 39.6752 t 0 0 0 0 0 19.4444 14.4058 54.557 0 20.4444 75.0871 0 15.9794 7.33591 22.0418

M00595_2.00_rc_shift4 (atf-7_rc)
; oligos_7nt_mkv2_m5 versus M00595_2.00_rc (atf-7_rc); m=4/29; ncol2=10; w=0; offset=0; strand=R; shift=4; score=0.639273; ----tsACGTCAyy- ; cor=; Ncor= a 0 0 0 0 20.5381 11.42 99.9855 0 0 0 0 99.9855 4.46669 22.8181 0 c 0 0 0 0 20.5381 31.8861 0.00482325 99.9855 0.00482325 0.00482325 99.9855 0.00482325 28.2551 36.0715 0 g 0 0 0 0 20.5381 36.247 0.00482325 0.00482325 99.9855 0.00482325 0.00482325 0.00482325 4.46669 13.5848 0 t 0 0 0 0 38.3856 20.4469 0.00482325 0.00482325 0.00482325 99.9855 0.00482325 0.00482325 62.8116 27.5256 0

M04259_2.00_rc_shift5 (crh-1_rc)
; oligos_7nt_mkv2_m5 versus M04259_2.00_rc (crh-1_rc); m=5/29; ncol2=9; w=0; offset=1; strand=R; shift=5; score=0.620283; -----yACGTCAys- ; cor=; Ncor= a 0 0 0 0 0 8.21114 77.1868 0 0 0 1.84663 99.229 1.75685 24.0616 0 c 0 0 0 0 0 33.9003 0 100 0 1.87437 96.1517 0 60.9276 31.6129 0 g 0 0 0 0 0 7.8739 22.3718 0 100 0.529403 1.24048 0.771021 2.37526 26.2317 0 t 0 0 0 0 0 50.0147 0.441326 0 0 97.5962 0.761207 0 34.9403 18.0938 0

M04263_2.00_rc_shift5 (crh-1_rc)
; oligos_7nt_mkv2_m5 versus M04263_2.00_rc (crh-1_rc); m=6/29; ncol2=9; w=0; offset=1; strand=R; shift=5; score=0.593299; -----yrCGTCAyv- ; cor=; Ncor= a 0 0 0 0 0 6.25877 60.6742 0 15.3242 0 0 100 0 27.2242 0 c 0 0 0 0 0 27.3365 0 97.6171 0 0 100 0 65.8056 30.7045 0 g 0 0 0 0 0 23.6598 38.7811 0 84.6758 0 0 0 1 27.1681 0 t 0 0 0 0 0 42.7449 0.544774 2.38291 0 100 0 0 33.1944 14.9032 0

M02390_2.00_rc_shift7 (nhr-134,nhr-18,nhr-96_rc)
; oligos_7nt_mkv2_m5 versus M02390_2.00_rc (nhr-134,nhr-18,nhr-96_rc); m=7/29; ncol2=8; w=0; offset=3; strand=R; shift=7; score=0.556027; -------rGwCACAm ; cor=; Ncor= a 0 0 0 0 0 0 0 33.3149 12.9188 51.5786 0.0322165 99.9034 0.0322165 93.4601 41.6389 c 0 0 0 0 0 0 0 16.6851 6.47552 0.0322165 99.9034 0.0322165 99.9034 0.0322165 33.3195 g 0 0 0 0 0 0 0 44.4013 80.5735 0.0322165 0.0322165 0.0322165 0.0322165 6.47552 20.8403 t 0 0 0 0 0 0 0 5.59867 0.0322165 48.357 0.0322165 0.0322165 0.0322165 0.0322165 4.20133

M02391_2.00_rc_shift8 (WBGene00003673,nhr-130,nhr-133,nhr-179,nhr-183,nhr-184,nhr-190,nhr-212_rc)
; oligos_7nt_mkv2_m5 versus M02391_2.00_rc (WBGene00003673,nhr-130,nhr-133,nhr-179,nhr-183,nhr-184,nhr-190,nhr-212_rc); m=8/29; ncol2=8; w=0; offset=4; strand=R; shift=8; score=0.54144; --------GACACrr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 9.10536 77.55 0.0153752 99.9539 0.0153752 36.9157 35.1776 c 0 0 0 0 0 0 0 0 2.29337 0.0172295 99.9539 0.0153752 99.9539 0.0153752 16.6728 g 0 0 0 0 0 0 0 0 86.3079 15.5238 0.0153752 0.0153752 0.0153752 63.0535 46.2805 t 0 0 0 0 0 0 0 0 2.29337 6.90903 0.0153752 0.0153752 0.0153752 0.0153752 1.86899

M04023_2.00_rc_shift3 (crh-1_rc)
; oligos_7nt_mkv2_m5 versus M04023_2.00_rc (crh-1_rc); m=9/29; ncol2=10; w=-1; offset=-1; strand=R; shift=3; score=0.530696; ---cyTACGTCAy-- ; cor=; Ncor= a 0 0 0 20.9302 19.6084 4.5512 94.0516 0 0.0580383 2.38789 0.916497 98.2415 0 0 0 c 0 0 0 52.5939 45.5806 11.968 1.73962 99.348 2.61172 0 85.336 0.468933 48.0881 0 0 g 0 0 0 14.4305 7.83247 12.8529 3.64759 0 97.2722 0 13.6456 1.28957 2.89687 0 0 t 0 0 0 12.0453 26.9785 70.6279 0.561167 0.652045 0.0580383 97.6121 0.101833 0 49.0151 0 0

M09948_2.00_rc_shift4 (crh-1_rc)
; oligos_7nt_mkv2_m5 versus M09948_2.00_rc (crh-1_rc); m=10/29; ncol2=8; w=0; offset=0; strand=R; shift=4; score=0.521425; ----tkACGTCA--- ; cor=; Ncor= a 0 0 0 0 24.1379 0 93.1034 0 0 0 3.44828 100 0 0 0 c 0 0 0 0 13.7931 3.44828 3.44828 96.5517 0 0 96.5517 0 0 0 0 g 0 0 0 0 3.44828 55.1724 3.44828 3.44828 100 0 0 0 0 0 0 t 0 0 0 0 58.6207 41.3793 0 0 0 100 0 0 0 0 0

M05150_2.00_shift0 (ceh-27)
; oligos_7nt_mkv2_m5 versus M05150_2.00 (ceh-27); m=11/29; ncol2=14; w=-4; offset=-4; strand=D; shift=0; score=0.49525; GCArTAACGACATC- ; cor=; Ncor= a 7.08661 2.66876 81.0743 51.6903 0.875753 99.4961 99.8877 0 0 99.6065 0 89.17 3.58043 7.37198 0 c 4.66817 90.3715 2.96185 1.85387 9.79748 0 0 99.2737 1.77482 0 91.4826 0 15.2295 68.7113 0 g 73.0596 2.61643 11.998 45.2017 0.985222 0.503919 0.112296 0.446927 97.9479 0.0562114 0.788644 4.75709 0.907716 14.0124 0 t 15.1856 4.34328 3.96586 1.25409 88.3415 0 0 0.27933 0.277316 0.337268 7.72871 6.07287 80.2824 9.90433 0

M00701_2.00_rc_shift7 (WBGene00003673,nhr-123,nhr-130,nhr-133,nhr-179,nhr-182,nhr-183,nhr-184,nhr-190,nhr-201,nhr-202,nhr-212,nhr-44,nhr-59,nhr-98,nhr-99_rc)
; oligos_7nt_mkv2_m5 versus M00701_2.00_rc (WBGene00003673,nhr-123,nhr-130,nhr-133,nhr-179,nhr-182,nhr-183,nhr-184,nhr-190,nhr-201,nhr-202,nhr-212,nhr-44,nhr-59,nhr-98,nhr-99_rc); m=12/29; ncol2=10; w=0; offset=3; strand=R; shift=7; score=0.492185; -------gGaCACra ; cor=; Ncor= a 0 0 0 0 0 0 0 18.5351 18.7679 64.9477 0.0478044 99.0691 0.322642 62.5219 43.7037 c 0 0 0 0 0 0 0 8.32837 0.699177 5.27819 99.4209 0.603999 96.4272 0.172997 23.5102 g 0 0 0 0 0 0 0 54.0369 80.0097 10.2122 0.00433672 0.0581818 0.0320259 36.8007 23.5102 t 0 0 0 0 0 0 0 19.0996 0.523169 19.5619 0.526956 0.268694 3.21809 0.504351 9.27602

M00702_2.00_rc_shift7 (WBGene00003673,nhr-123,nhr-130,nhr-133,nhr-179,nhr-182,nhr-183,nhr-184,nhr-190,nhr-201,nhr-202,nhr-212,nhr-44,nhr-59,nhr-98,nhr-99_rc)
; oligos_7nt_mkv2_m5 versus M00702_2.00_rc (WBGene00003673,nhr-123,nhr-130,nhr-133,nhr-179,nhr-182,nhr-183,nhr-184,nhr-190,nhr-201,nhr-202,nhr-212,nhr-44,nhr-59,nhr-98,nhr-99_rc); m=13/29; ncol2=10; w=0; offset=3; strand=R; shift=7; score=0.467605; -------grwcAcrv ; cor=; Ncor= a 0 0 0 0 0 0 0 20.5026 29.6655 37.2746 8.22399 83.1297 10.4723 40.4445 27.4299 c 0 0 0 0 0 0 0 22.2102 10.0743 18.1435 67.8335 0.259345 63.9903 7.09884 25.8325 g 0 0 0 0 0 0 0 33.4667 46.5247 17.7842 0.675066 8.76181 4.65868 34.4646 26.6192 t 0 0 0 0 0 0 0 23.8206 13.7355 26.7976 23.2675 7.84913 20.8787 17.9921 20.1184

M00928_2.00_rc_shift8 (HLH27,hlh-27_rc)
; oligos_7nt_mkv2_m5 versus M00928_2.00_rc (HLH27,hlh-27_rc); m=14/29; ncol2=8; w=0; offset=4; strand=R; shift=8; score=0.463447; --------GMCAyGC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 13.6364 69.697 0 97.561 0 9.7561 0 c 0 0 0 0 0 0 0 0 13.6364 27.2727 100 0 63.4146 0 89.4737 g 0 0 0 0 0 0 0 0 72.7273 3.0303 0 2.43902 0 90.2439 0 t 0 0 0 0 0 0 0 0 0 0 0 0 36.5854 0 10.5263

M05000_2.00_shift3 (mab-5,nob-1,php-3)
; oligos_7nt_mkv2_m5 versus M05000_2.00 (mab-5,nob-1,php-3); m=15/29; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.462886; ---wTAAYGAy---- ; cor=; Ncor= a 0 0 0 31.0935 15.5845 84.8121 98.7847 1.0587 12.6667 71.6536 1.48669 0 0 0 0 c 0 0 0 21.8683 5.8688 0 0 69.3898 7.99503 4.66679 63.0413 0 0 0 0 g 0 0 0 9.98206 1.73702 1.71979 1.21528 0 74.9015 16.0496 9.83462 0 0 0 0 t 0 0 0 37.0562 76.8097 13.4681 0 29.5515 4.43679 7.62998 25.6374 0 0 0 0

M05409_2.00_shift3 (mab-5,nob-1)
; oligos_7nt_mkv2_m5 versus M05409_2.00 (mab-5,nob-1); m=16/29; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.453205; ---wTAAyGAy---- ; cor=; Ncor= a 0 0 0 26.473 7.94923 79.6431 92.6923 0 4.19332 72.2422 1.53173 0 0 0 0 c 0 0 0 18.2573 7.01403 3.76735 0 64.8547 7.9602 4.61631 60.248 0 0 0 0 g 0 0 0 13.527 4.54242 1.65235 6.07692 0 85.6432 15.7674 10.5762 0 0 0 0 t 0 0 0 41.7427 80.4943 14.9372 1.23077 35.1453 2.20327 7.3741 27.6441 0 0 0 0

M00932_2.00_rc_shift8 (hlh-25,hlh-27_rc)
; oligos_7nt_mkv2_m5 versus M00932_2.00_rc (hlh-25,hlh-27_rc); m=17/29; ncol2=8; w=0; offset=4; strand=R; shift=8; score=0.452928; --------saCAYGC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 16.6667 63.7255 0 96.6102 0 12.7119 1.78571 c 0 0 0 0 0 0 0 0 27.7778 21.5686 92.3729 0 69.4915 0 78.5714 g 0 0 0 0 0 0 0 0 51.3889 8.82353 0.847458 3.38983 0 87.2881 1.78571 t 0 0 0 0 0 0 0 0 4.16667 5.88235 6.77966 0 30.5085 0 17.8571

M05312_2.00_shift3 (mab-5,nob-1,php-3)
; oligos_7nt_mkv2_m5 versus M05312_2.00 (mab-5,nob-1,php-3); m=18/29; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.448224; ---wTAAyGay---- ; cor=; Ncor= a 0 0 0 30.2345 8.95475 71.7339 94.3204 0 7.52033 67.3929 1.93813 0 0 0 0 c 0 0 0 17.7477 10.0064 1.06093 0.318852 64.7912 8.28252 3.36039 50.7641 0 0 0 0 g 0 0 0 20.0718 5.6246 4.39527 3.6668 0.588638 80.166 17.5708 9.85837 0 0 0 0 t 0 0 0 31.9459 75.4143 22.8099 1.6939 34.6201 4.03117 11.6759 37.4394 0 0 0 0

M05050_2.00_shift3 (mab-5,nob-1,php-3)
; oligos_7nt_mkv2_m5 versus M05050_2.00 (mab-5,nob-1,php-3); m=19/29; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.441997; ---wTAAyGay---- ; cor=; Ncor= a 0 0 0 31.0956 12.1352 73.6723 92.0615 0 11.3567 66.6742 2.65552 0 0 0 0 c 0 0 0 18.504 8.42467 0.828625 2.40038 62.4056 9.03234 6.94239 52.7876 0 0 0 0 g 0 0 0 15.7437 1.95431 3.51538 1.72576 1.68031 74.1283 16.4072 11.2529 0 0 0 0 t 0 0 0 34.6567 77.4858 21.9837 3.81236 35.9141 5.48257 9.97614 33.304 0 0 0 0

M04976_2.00_shift3 (mab-5,nob-1,php-3)
; oligos_7nt_mkv2_m5 versus M04976_2.00 (mab-5,nob-1,php-3); m=20/29; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.441048; ---wTAAyGay---- ; cor=; Ncor= a 0 0 0 28.8972 12.085 74.5585 95.9798 0 5.58003 62.5 2.14793 0 0 0 0 c 0 0 0 18.132 9.61155 0.555919 0.652494 59.2439 5.21292 7.34649 49.7198 0 0 0 0 g 0 0 0 16.9919 2.60624 5.16678 2.90465 0.649604 83.7004 18.3799 12.6821 0 0 0 0 t 0 0 0 35.979 75.6972 19.7188 0.46306 40.1065 5.50661 11.7736 35.4501 0 0 0 0

M05406_2.00_shift3 (mab-5,nob-1)
; oligos_7nt_mkv2_m5 versus M05406_2.00 (mab-5,nob-1); m=21/29; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.440914; ---tTAAyGAy---- ; cor=; Ncor= a 0 0 0 22.3458 4.6747 85.9126 96.5454 0 3.04333 78.4546 2.27059 0 0 0 0 c 0 0 0 19.8784 1.63855 0.417848 0 62.5421 1.24049 0.844917 61.9793 0 0 0 0 g 0 0 0 13.1538 1.20482 1.56693 2.14657 0 95.22 12.8373 7.57908 0 0 0 0 t 0 0 0 44.6221 92.4819 12.1027 1.30807 37.4579 0.496196 7.86318 28.171 0 0 0 0

M04914_2.00_shift3 (mab-5,nob-1,php-3)
; oligos_7nt_mkv2_m5 versus M04914_2.00 (mab-5,nob-1,php-3); m=22/29; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.439433; ---wTAAyGay---- ; cor=; Ncor= a 0 0 0 28.4389 11.5765 72.3514 97.2538 1.77817 7.33837 67.7816 1.13233 0 0 0 0 c 0 0 0 16.4179 5.24426 0.661543 0 59.3015 3.97273 5.41378 52.6936 0 0 0 0 g 0 0 0 14.5489 2.26308 2.54889 2.70694 0.645882 79.2097 18.1371 13.8053 0 0 0 0 t 0 0 0 40.5943 80.9161 24.4382 0.0392311 38.2745 9.47918 8.66752 32.3688 0 0 0 0

M05071_2.00_shift3 (mab-5,nob-1)
; oligos_7nt_mkv2_m5 versus M05071_2.00 (mab-5,nob-1); m=23/29; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.438089; ---wTAAyGAy---- ; cor=; Ncor= a 0 0 0 27.9897 6.461 74.9956 95.7009 0 3.19214 71.2452 0.514192 0 0 0 0 c 0 0 0 20.4306 8.42064 1.93016 1.23153 59.287 5.11561 6.91782 52.7766 0 0 0 0 g 0 0 0 18.7456 2.19247 5.33427 1.09718 0 87.4565 13.4522 11.5796 0 0 0 0 t 0 0 0 32.8341 82.9259 17.74 1.97044 40.713 4.23573 8.38473 35.1296 0 0 0 0

M05411_2.00_shift3 (alr-1,ceh-12,ceh-14,ceh-17,ceh-43,ceh-8,lin-11,mec-3,ttx-3,unc-4,unc-42,vab-15)
; oligos_7nt_mkv2_m5 versus M05411_2.00 (alr-1,ceh-12,ceh-14,ceh-17,ceh-43,ceh-8,lin-11,mec-3,ttx-3,unc-4,unc-42,vab-15); m=24/29; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.436626; ---rtaAYGab---- ; cor=; Ncor= a 0 0 0 25.8223 15.3523 62.3363 92.2931 0 2.39098 47.4109 21.1066 0 0 0 0 c 0 0 0 24.5619 15.2949 6.38692 0 70.1301 0 22.1996 25.543 0 0 0 0 g 0 0 0 30.0133 7.17926 21.9327 6.47754 0 95.6394 9.23443 27.3156 0 0 0 0 t 0 0 0 19.6024 62.1735 9.34406 1.22931 29.8699 1.96962 21.1552 26.0348 0 0 0 0

M05279_2.00_shift2 (php-3)
; oligos_7nt_mkv2_m5 versus M05279_2.00 (php-3); m=25/29; ncol2=10; w=-2; offset=-2; strand=D; shift=2; score=0.435882; --dtTwACGAys--- ; cor=; Ncor= a 0 0 26.6962 15.3721 4.30275 34.5303 100 0 2.9309 97.3046 0.893487 18.2548 0 0 0 c 0 0 15.9236 3.55853 0 0 0 88.8287 0 0.242588 56.7364 36.3158 0 0 0 g 0 0 31.3764 15.8598 2.12545 0 0 0 97.0691 1.61725 14.2253 28.615 0 0 0 t 0 0 26.0039 65.2095 93.5718 65.4697 0 11.1713 0 0.83558 28.1448 16.8144 0 0 0

M05100_2.00_shift3 (ceh-1,ceh-12,ceh-13,ceh-16,ceh-43,tab-1,vab-15)
; oligos_7nt_mkv2_m5 versus M05100_2.00 (ceh-1,ceh-12,ceh-13,ceh-16,ceh-43,tab-1,vab-15); m=26/29; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.423304; ---kTaAyGAy---- ; cor=; Ncor= a 0 0 0 18.1525 5.04348 61.2903 87.8302 0 0.834202 83.7984 4.26877 0 0 0 0 c 0 0 0 23.2009 9.91304 5.13496 0.188679 51.9821 0 1.71017 37.3913 0 0 0 0 g 0 0 0 27.4973 4.08696 14.0224 6.41509 0.390843 97.0803 3.06031 22.0553 0 0 0 0 t 0 0 0 31.1493 80.9565 19.5523 5.56604 47.627 2.08551 11.4311 36.2846 0 0 0 0

M05044_2.00_shift2 (ceh-27)
; oligos_7nt_mkv2_m5 versus M05044_2.00 (ceh-27); m=27/29; ncol2=9; w=-2; offset=-2; strand=D; shift=2; score=0.41564; --ctyAACGay---- ; cor=; Ncor= a 0 0 11.1465 21.3889 2.91345 96.467 88.2022 0 2.16509 47.9024 0 0 0 0 0 c 0 0 53.8217 2.68519 53.8132 1.38249 3.23034 90.8828 12.7199 24.1037 55.8029 0 0 0 0 g 0 0 22.6115 17.7778 10.1114 2.15054 1.1236 3.61795 84.9797 11.9756 18.9189 0 0 0 0 t 0 0 12.4204 58.1481 33.162 0 7.44382 5.49928 0.135318 16.0183 25.2782 0 0 0 0

M05152_2.00_shift2 (ceh-27)
; oligos_7nt_mkv2_m5 versus M05152_2.00 (ceh-27); m=28/29; ncol2=9; w=-2; offset=-2; strand=D; shift=2; score=0.414218; --yTcAACGAs---- ; cor=; Ncor= a 0 0 6.61331 13.964 4.7351 85.833 94.3959 0 4.69228 72.0352 1.47368 0 0 0 0 c 0 0 35.1306 2.02703 55 2.52982 2.58347 90.4417 11.6967 11.4953 31.6632 0 0 0 0 g 0 0 22.9149 7.59331 23.6424 8.70979 1.94754 5.06474 80.7548 4.4586 45.6842 0 0 0 0 t 0 0 35.3412 76.4157 16.6225 2.92736 1.07313 4.49353 2.85617 12.0109 21.1789 0 0 0 0

M05348_2.00_shift2 (ceh-27)
; oligos_7nt_mkv2_m5 versus M05348_2.00 (ceh-27); m=29/29; ncol2=9; w=-2; offset=-2; strand=D; shift=2; score=0.406996; --sTcAACGAs---- ; cor=; Ncor= a 0 0 6.25 10.0604 3.7234 89.0722 91.1392 0 0 69.5652 0 0 0 0 0 c 0 0 48.3796 2.41449 57.4468 0 3.37553 95.5752 16.4151 11.7552 33.3333 0 0 0 0 g 0 0 26.3889 0.603622 14.2287 4.53608 1.47679 0 81.5094 7.72947 46.2963 0 0 0 0 t 0 0 18.9815 86.9215 24.6011 6.39175 4.00844 4.42478 2.07547 10.9501 20.3704 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m3_shift0 ; 8 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m3_shift0 (oligos_7nt_mkv2_m3)
; oligos_7nt_mkv2_m3; m=0 (reference); ncol1=11; shift=0; ncol=11; mhGCACTCCGy ; Alignment reference a 32 19 16 0 72 16 0 0 0 4 18 c 33 32 0 75 3 54 0 75 75 3 19 g 3 1 59 0 0 3 0 0 0 52 3 t 7 23 0 0 0 2 75 0 0 16 35

M05824_2.00_rc_shift1 (egl-44_rc)
; oligos_7nt_mkv2_m3 versus M05824_2.00_rc (egl-44_rc); m=1/7; ncol2=10; w=0; offset=1; strand=R; shift=1; score=0.684183; -crCATTCCaw ; cor=; Ncor= a 0 8.59961 49.0702 0 99.8326 0 17.1059 0 0 57.1327 28.37 c 0 59.5661 0.216472 100 0.118145 0 0 99.5582 96.8112 0.797347 24.6524 g 0 10.9467 50.7134 0 0.0492271 0 0.921584 0.441826 0.496467 19.1442 16.0536 t 0 20.8876 0 0 0 100 81.9725 0 2.69238 22.9257 30.924

M03995_2.00_rc_shift0 (egl-44_rc)
; oligos_7nt_mkv2_m3 versus M03995_2.00_rc (egl-44_rc); m=2/7; ncol2=10; w=0; offset=0; strand=R; shift=0; score=0.673047; ccrCATTCCw- ; cor=; Ncor= a 18.4925 11.5686 46.7626 8.40052 99.1037 0 20.5274 0.112786 0 54.5111 0 c 41.1324 55.3848 0.406392 90.8234 0 0 0 99.1582 99.0574 2.75232 0 g 18.9281 12.1484 52.2187 0.776053 0.896294 0 2.38039 0.321853 0.104427 16.0557 0 t 21.447 20.8983 0.612335 0 0 100 77.0922 0.40713 0.838165 26.6809 0

M03996_2.00_rc_shift0 (egl-44_rc)
; oligos_7nt_mkv2_m3 versus M03996_2.00_rc (egl-44_rc); m=3/7; ncol2=12; w=0; offset=0; strand=R; shift=0; score=0.672893; ycrCATTCCww ; cor=; Ncor= a 18.7614 11.2376 49.4598 5.73884 99.5802 0.0210194 12.9367 0.370561 0 63.2431 32.0922 c 37.8144 52.5275 0.561093 94.1058 0.174905 0.115607 0.252131 97.6737 99.3335 1.35742 19.7134 g 18.094 11.5748 49.7491 0.155372 0.244867 0.136626 1.36571 0.408303 0.279154 9.40416 10.6541 t 25.3302 24.6601 0.230013 0 0 99.7267 85.4454 1.54744 0.380348 25.9953 37.5404

M05823_2.00_rc_shift1 (egl-44_rc)
; oligos_7nt_mkv2_m3 versus M05823_2.00_rc (egl-44_rc); m=4/7; ncol2=10; w=0; offset=1; strand=R; shift=1; score=0.671161; -crCATTCCww ; cor=; Ncor= a 0 10.6867 50.811 7.11351 99.9705 0 16.1711 0 0 58.3822 26.7682 c 0 55.685 0 92.8865 0 0 0 100 95.4624 0.642463 24.6547 g 0 11.4732 49.189 0 0.029484 0 0.625741 0 0 11.6376 16.9673 t 0 22.155 0 0 0 100 83.2031 0 4.53756 29.3377 31.6097

M05826_2.00_rc_shift1 (egl-44_rc)
; oligos_7nt_mkv2_m3 versus M05826_2.00_rc (egl-44_rc); m=5/7; ncol2=9; w=0; offset=1; strand=R; shift=1; score=0.58862; -crCATwCCd- ; cor=; Ncor= a 0 13.0974 46.3913 2.60955 100 0 39.0024 0.796432 1.32194 41.007 0 c 0 50.1898 1.6542 97.3905 0 0 0 95.1152 89.0269 8.02724 0 g 0 14.1469 47.9823 0 0 0 10.2865 4.08835 0 25.935 0 t 0 22.5659 3.97218 0 0 100 50.7111 0 9.65113 25.0307 0

M05825_2.00_rc_shift1 (egl-44_rc)
; oligos_7nt_mkv2_m3 versus M05825_2.00_rc (egl-44_rc); m=6/7; ncol2=9; w=0; offset=1; strand=R; shift=1; score=0.587413; -crCATwCCr- ; cor=; Ncor= a 0 13.1722 40.6114 1.16064 92.5142 0 39.9864 0.743938 0 41.7801 0 c 0 45.4563 3.11259 98.8394 0 0 0 93.0749 92.0854 4.92402 0 g 0 17.849 52.9879 0 7.48585 0 13.5988 6.18112 0.417992 29.1889 0 t 0 23.5224 3.28808 0 0 100 46.4149 0 7.49659 24.107 0

M03576_2.00_rc_shift2 (egl-44_rc)
; oligos_7nt_mkv2_m3 versus M03576_2.00_rc (egl-44_rc); m=7/7; ncol2=8; w=0; offset=2; strand=R; shift=2; score=0.534359; --rCATTCCw- ; cor=; Ncor= a 0 0 55.3984 11.533 100 0 20.3512 0 0 47.8661 0 c 0 0 0.291803 86.4519 0 0 0.102514 100 99.9814 2.3192 0 g 0 0 39.4067 2.01508 0 0 4.31895 0 0 19.317 0 t 0 0 4.90317 0 0 100 75.2273 0 0.0186498 30.4978 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m4_shift0 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m4_shift0 (oligos_7nt_mkv2_m4)
; oligos_7nt_mkv2_m4; m=0 (reference); ncol1=12; shift=0; ncol=12; TCTGGCTTCAym ; Alignment reference a 11 1 0 0 0 0 0 0 0 48 0 28 c 0 44 0 0 0 57 11 0 59 9 31 19 g 0 13 0 59 59 0 0 0 0 0 1 0 t 48 1 59 0 0 2 48 59 0 2 27 12

M00609_2.00_rc_shift0 (che-1_rc)
; oligos_7nt_mkv2_m4 versus M00609_2.00_rc (che-1_rc); m=1/4; ncol2=10; w=0; offset=0; strand=R; shift=0; score=0.657888; wagGGcTTCm-- ; cor=; Ncor= a 25.4183 47.4945 22.8171 7.68239 8.90882 14.5768 3.05199 0.728178 2.1474 28.5277 0 0 c 16.0462 13.6074 11.7931 2.50661 0.0088004 64.0352 0.79915 0.0136065 86.8567 33.4776 0 0 g 13.1375 21.7718 41.1618 77.3957 77.2496 2.48291 0.0100096 4.36139 2.95725 14.1664 0 0 t 45.3981 17.1263 24.228 12.4153 13.8328 18.9051 96.1389 94.8968 8.03864 23.8283 0 0

M01867_2.00_shift2 (ztf-28)
; oligos_7nt_mkv2_m4 versus M01867_2.00 (ztf-28); m=2/4; ncol2=10; w=0; offset=2; strand=D; shift=2; score= 0.6178; --rrGCTTcwtc ; cor=; Ncor= a 0 0 37.7203 39.8642 2.69874 4.31048 5.72006 1.71209 21.6595 50.6966 21.8415 18.2303 c 0 0 20.9094 6.02235 1.94019 92.8559 0.0207332 1.62859 48.6887 8.3801 24.3811 47.1383 g 0 0 30.8827 41.491 93.9522 0.896774 0.194754 1.29397 11.1948 5.90536 19.1789 21.3935 t 0 0 10.4876 12.6225 1.40887 1.93682 94.0644 95.3653 18.457 35.0179 34.5985 13.2379

M00624_2.00_shift2 (lsy-27)
; oligos_7nt_mkv2_m4 versus M00624_2.00 (lsy-27); m=3/4; ncol2=10; w=0; offset=2; strand=D; shift=2; score=0.600999; --rrGCTTcwsc ; cor=; Ncor= a 0 0 34.2803 38.5544 5.78911 0.318041 1.89381 0.95431 18.6879 44.7311 22.6935 22.0752 c 0 0 23.6786 9.2264 0.0559094 98.9312 0.0184736 0.0489593 45.9648 11.0305 28.2778 37.8813 g 0 0 26.1689 30.6327 93.3147 0.627774 0.710767 0.183275 11.1103 7.24759 27.4421 24.6421 t 0 0 15.8722 21.5865 0.840278 0.122999 97.377 98.8135 24.2369 36.9908 21.5867 15.4014

M08451_2.00_shift3 (che-1)
; oligos_7nt_mkv2_m4 versus M08451_2.00 (che-1); m=4/4; ncol2=6; w=0; offset=3; strand=D; shift=3; score=0.455367; ---SGyTTC--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 c 0 0 0 29.7297 0 48.6486 0 0 100 0 0 0 g 0 0 0 70.2703 100 0 0 0 0 0 0 0 t 0 0 0 0 0 51.3514 100 100 0 0 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m1_shift1 ; 2 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m1_shift1 (oligos_7nt_mkv2_m1)
; oligos_7nt_mkv2_m1; m=0 (reference); ncol1=11; shift=1; ncol=12; -bmGCAAGACdr ; Alignment reference a 0 2 43 0 19 115 116 0 132 3 51 64 c 0 38 48 0 113 0 0 16 0 113 2 20 g 0 56 17 116 0 1 16 111 0 16 41 48 t 0 36 24 16 0 16 0 5 0 0 38 0

M00591_2.00_shift0 (Y48G1C.6)
; oligos_7nt_mkv2_m1 versus M00591_2.00 (Y48G1C.6); m=1/1; ncol2=10; w=-1; offset=-1; strand=D; shift=0; score=0.55986; svyGCAAkwt-- ; cor=; Ncor= a 24.1923 28.552 12.639 9.25583 6.43456 83.0881 78.5091 14.4739 31.88 24.2259 0 0 c 26.7367 31.872 28.1286 2.11315e-05 84.0728 12.1813 6.84292 13.6311 16.6428 23.7462 0 0 g 27.8278 31.872 7.97879 88.6994 1.06362 0.158802 5.94895 45.2567 18.9533 22.1408 0 0 t 21.2432 7.70391 51.2536 2.04471 8.42904 4.57178 8.69905 26.6383 32.524 29.887 0 0

One-to-n matrix alignment; reference matrix: oligos_7nt_mkv2_m2_shift1 ; 5 matrices ; sort_field=Ncor

Matrix name Aligned logos cor Ncor Aligned matrices
oligos_7nt_mkv2_m2_shift1 (oligos_7nt_mkv2_m2)
; oligos_7nt_mkv2_m2; m=0 (reference); ncol1=11; shift=1; ncol=12; -TtTGGTGAAck ; Alignment reference a 0 19 29 3 16 3 0 0 136 151 32 21 c 0 4 22 3 0 3 0 0 0 0 101 8 g 0 18 4 0 131 147 5 150 16 2 10 83 t 0 112 98 147 6 0 148 3 1 0 10 41

M00629_2.00_shift0 (ztf-27)
; oligos_7nt_mkv2_m2 versus M00629_2.00 (ztf-27); m=1/4; ncol2=8; w=-1; offset=-1; strand=D; shift=0; score=0.505418; bwwkGGyG---- ; cor=; Ncor= a 22.932 26.9109 34.237 5.87054 0.294779 2.59287 0.0100182 2.27366 0 0 0 0 c 25.5984 24.35 10.626 0.522018 0.0705432 0.0737382 36.1129 0.0293457 0 0 0 0 g 26.378 23.3953 18.4176 34.4651 92.6167 93.0155 0.0197748 97.65 0 0 0 0 t 25.0916 25.3438 36.7194 59.1423 7.01794 4.31789 63.8573 0.0469529 0 0 0 0

M08195_2.00_rc_shift4 (blmp-1_rc)
; oligos_7nt_mkv2_m2 versus M08195_2.00_rc (blmp-1_rc); m=2/4; ncol2=10; w=0; offset=3; strand=R; shift=4; score=0.460651; ----RGtGAAAG ; cor=; Ncor= a 0 0 0 0 68.6047 0 17.4419 3.4884 97.093 92.4418 96.5116 0 c 0 0 0 0 0 0 22.6744 0 2.907 0 3.4884 0 g 0 0 0 0 31.3953 90.6977 6.9767 96.5116 0 2.907 0 94.7674 t 0 0 0 0 0 9.3023 52.907 0 0 4.6512 0 5.2326

M02403_2.00_rc_shift5 (nhr-91_rc)
; oligos_7nt_mkv2_m2 versus M02403_2.00_rc (nhr-91_rc); m=3/4; ncol2=7; w=0; offset=4; strand=R; shift=5; score=0.446984; -----ryGamCy ; cor=; Ncor= a 0 0 0 0 0 34.3482 1.82241 19.6315 63.745 50.8264 15.3486 10.9046 c 0 0 0 0 0 15.7454 35.1688 0.261097 11.1886 42.4538 68.7876 45.5669 g 0 0 0 0 0 25.7015 0.195961 75.727 8.54111 0.495799 6.36633 7.68432 t 0 0 0 0 0 24.2048 62.8128 4.38038 16.5253 6.22402 9.49745 35.8442

M05877_2.00_rc_shift6 (nhr-91_rc)
; oligos_7nt_mkv2_m2 versus M05877_2.00_rc (nhr-91_rc); m=4/4; ncol2=8; w=0; offset=5; strand=R; shift=6; score=0.405098; ------TGAACy ; cor=; Ncor= a 0 0 0 0 0 0 1.9 17.4 82.7 89 3.2 3.4 c 0 0 0 0 0 0 7.6 2.8 8.2 7 91.9 38.6 g 0 0 0 0 0 0 1.9 74.3 3.1 2.3 2.5 2.4 t 0 0 0 0 0 0 88.6 5.5 6.1 1.7 2.4 55.5

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv2_m5_shift4 (oligos_7nt_mkv2_m5)				; oligos_7nt_mkv2_m5; m=0 (reference); ncol1=11; shift=4; ncol=15; ----aaACGACACvm ; Alignment reference a 0 0 0 0 67 49 111 16 1 95 0 94 0 33 46 c 0 0 0 0 16 26 0 94 0 0 98 16 98 32 36 g 0 0 0 0 16 19 0 0 108 0 0 0 0 40 12 t 0 0 0 0 12 17 0 1 2 16 13 1 13 6 17
M04690_2.00_rc_shift4 (M04690_2.00_rc)				; oligos_7nt_mkv2_m5 versus M04690_2.00_rc; m=1/29; ncol2=10; w=0; offset=0; strand=R; shift=4; score=0.70252; ----rAACGATACr- ; cor=; Ncor= a 0 0 0 0 36.8653 91.6996 100 0 3.73444 100 1.2766 100 0 54.8463 0 c 0 0 0 0 3.75276 0.395257 0 75.817 0 0 0 0 100 7.56501 0 g 0 0 0 0 51.2141 2.7668 0 0 96.2656 0 0 0 0 37.5887 0 t 0 0 0 0 8.16777 5.13834 0 24.183 0 0 98.7234 0 0 0 0
M04688_2.00_rc_shift4 (M04688_2.00_rc)				; oligos_7nt_mkv2_m5 versus M04688_2.00_rc; m=2/29; ncol2=10; w=0; offset=0; strand=R; shift=4; score=0.67739; ----GAACGATACA- ; cor=; Ncor= a 0 0 0 0 14.7145 96.2857 99.0206 1.49648 0.391389 96.8391 1.06693 99.1176 0.295567 69.1518 0 c 0 0 0 0 7.32064 1.33333 0 88.9965 0.391389 0 0.872939 0 99.6059 12.3119 0 g 0 0 0 0 74.0117 0.666667 0.195886 0 98.9237 0.574713 0 0.392157 0.0985222 17.4419 0 t 0 0 0 0 3.95315 1.71429 0.783546 9.50704 0.293542 2.58621 98.0601 0.490196 0 1.09439 0
M04940_2.00_rc_shift5 (ceh-33,unc-39_rc)				; oligos_7nt_mkv2_m5 versus M04940_2.00_rc (ceh-33,unc-39_rc); m=3/29; ncol2=10; w=0; offset=1; strand=R; shift=5; score=0.64966; -----mayGaTACgg ; cor=; Ncor= a 0 0 0 0 0 33.3333 51.7407 0 6.45161 63.8519 0 77.102 1.54639 21.6216 16.9374 c 0 0 0 0 0 26.1574 11.7647 40.1266 11.7647 5.62963 22.2997 19.8569 74.055 15.5727 21.3457 g 0 0 0 0 0 21.0648 22.0888 5.31646 81.7837 10.0741 2.61324 3.04114 8.41924 55.4698 39.6752 t 0 0 0 0 0 19.4444 14.4058 54.557 0 20.4444 75.0871 0 15.9794 7.33591 22.0418
M00595_2.00_rc_shift4 (atf-7_rc)				; oligos_7nt_mkv2_m5 versus M00595_2.00_rc (atf-7_rc); m=4/29; ncol2=10; w=0; offset=0; strand=R; shift=4; score=0.639273; ----tsACGTCAyy- ; cor=; Ncor= a 0 0 0 0 20.5381 11.42 99.9855 0 0 0 0 99.9855 4.46669 22.8181 0 c 0 0 0 0 20.5381 31.8861 0.00482325 99.9855 0.00482325 0.00482325 99.9855 0.00482325 28.2551 36.0715 0 g 0 0 0 0 20.5381 36.247 0.00482325 0.00482325 99.9855 0.00482325 0.00482325 0.00482325 4.46669 13.5848 0 t 0 0 0 0 38.3856 20.4469 0.00482325 0.00482325 0.00482325 99.9855 0.00482325 0.00482325 62.8116 27.5256 0
M04259_2.00_rc_shift5 (crh-1_rc)				; oligos_7nt_mkv2_m5 versus M04259_2.00_rc (crh-1_rc); m=5/29; ncol2=9; w=0; offset=1; strand=R; shift=5; score=0.620283; -----yACGTCAys- ; cor=; Ncor= a 0 0 0 0 0 8.21114 77.1868 0 0 0 1.84663 99.229 1.75685 24.0616 0 c 0 0 0 0 0 33.9003 0 100 0 1.87437 96.1517 0 60.9276 31.6129 0 g 0 0 0 0 0 7.8739 22.3718 0 100 0.529403 1.24048 0.771021 2.37526 26.2317 0 t 0 0 0 0 0 50.0147 0.441326 0 0 97.5962 0.761207 0 34.9403 18.0938 0
M04263_2.00_rc_shift5 (crh-1_rc)				; oligos_7nt_mkv2_m5 versus M04263_2.00_rc (crh-1_rc); m=6/29; ncol2=9; w=0; offset=1; strand=R; shift=5; score=0.593299; -----yrCGTCAyv- ; cor=; Ncor= a 0 0 0 0 0 6.25877 60.6742 0 15.3242 0 0 100 0 27.2242 0 c 0 0 0 0 0 27.3365 0 97.6171 0 0 100 0 65.8056 30.7045 0 g 0 0 0 0 0 23.6598 38.7811 0 84.6758 0 0 0 1 27.1681 0 t 0 0 0 0 0 42.7449 0.544774 2.38291 0 100 0 0 33.1944 14.9032 0
M02390_2.00_rc_shift7 (nhr-134,nhr-18,nhr-96_rc)				; oligos_7nt_mkv2_m5 versus M02390_2.00_rc (nhr-134,nhr-18,nhr-96_rc); m=7/29; ncol2=8; w=0; offset=3; strand=R; shift=7; score=0.556027; -------rGwCACAm ; cor=; Ncor= a 0 0 0 0 0 0 0 33.3149 12.9188 51.5786 0.0322165 99.9034 0.0322165 93.4601 41.6389 c 0 0 0 0 0 0 0 16.6851 6.47552 0.0322165 99.9034 0.0322165 99.9034 0.0322165 33.3195 g 0 0 0 0 0 0 0 44.4013 80.5735 0.0322165 0.0322165 0.0322165 0.0322165 6.47552 20.8403 t 0 0 0 0 0 0 0 5.59867 0.0322165 48.357 0.0322165 0.0322165 0.0322165 0.0322165 4.20133
M02391_2.00_rc_shift8 (WBGene00003673,nhr-130,nhr-133,nhr-179,nhr-183,nhr-184,nhr-190,nhr-212_rc)				; oligos_7nt_mkv2_m5 versus M02391_2.00_rc (WBGene00003673,nhr-130,nhr-133,nhr-179,nhr-183,nhr-184,nhr-190,nhr-212_rc); m=8/29; ncol2=8; w=0; offset=4; strand=R; shift=8; score=0.54144; --------GACACrr ; cor=; Ncor= a 0 0 0 0 0 0 0 0 9.10536 77.55 0.0153752 99.9539 0.0153752 36.9157 35.1776 c 0 0 0 0 0 0 0 0 2.29337 0.0172295 99.9539 0.0153752 99.9539 0.0153752 16.6728 g 0 0 0 0 0 0 0 0 86.3079 15.5238 0.0153752 0.0153752 0.0153752 63.0535 46.2805 t 0 0 0 0 0 0 0 0 2.29337 6.90903 0.0153752 0.0153752 0.0153752 0.0153752 1.86899
M04023_2.00_rc_shift3 (crh-1_rc)				; oligos_7nt_mkv2_m5 versus M04023_2.00_rc (crh-1_rc); m=9/29; ncol2=10; w=-1; offset=-1; strand=R; shift=3; score=0.530696; ---cyTACGTCAy-- ; cor=; Ncor= a 0 0 0 20.9302 19.6084 4.5512 94.0516 0 0.0580383 2.38789 0.916497 98.2415 0 0 0 c 0 0 0 52.5939 45.5806 11.968 1.73962 99.348 2.61172 0 85.336 0.468933 48.0881 0 0 g 0 0 0 14.4305 7.83247 12.8529 3.64759 0 97.2722 0 13.6456 1.28957 2.89687 0 0 t 0 0 0 12.0453 26.9785 70.6279 0.561167 0.652045 0.0580383 97.6121 0.101833 0 49.0151 0 0
M09948_2.00_rc_shift4 (crh-1_rc)				; oligos_7nt_mkv2_m5 versus M09948_2.00_rc (crh-1_rc); m=10/29; ncol2=8; w=0; offset=0; strand=R; shift=4; score=0.521425; ----tkACGTCA--- ; cor=; Ncor= a 0 0 0 0 24.1379 0 93.1034 0 0 0 3.44828 100 0 0 0 c 0 0 0 0 13.7931 3.44828 3.44828 96.5517 0 0 96.5517 0 0 0 0 g 0 0 0 0 3.44828 55.1724 3.44828 3.44828 100 0 0 0 0 0 0 t 0 0 0 0 58.6207 41.3793 0 0 0 100 0 0 0 0 0
M05150_2.00_shift0 (ceh-27)				; oligos_7nt_mkv2_m5 versus M05150_2.00 (ceh-27); m=11/29; ncol2=14; w=-4; offset=-4; strand=D; shift=0; score=0.49525; GCArTAACGACATC- ; cor=; Ncor= a 7.08661 2.66876 81.0743 51.6903 0.875753 99.4961 99.8877 0 0 99.6065 0 89.17 3.58043 7.37198 0 c 4.66817 90.3715 2.96185 1.85387 9.79748 0 0 99.2737 1.77482 0 91.4826 0 15.2295 68.7113 0 g 73.0596 2.61643 11.998 45.2017 0.985222 0.503919 0.112296 0.446927 97.9479 0.0562114 0.788644 4.75709 0.907716 14.0124 0 t 15.1856 4.34328 3.96586 1.25409 88.3415 0 0 0.27933 0.277316 0.337268 7.72871 6.07287 80.2824 9.90433 0
M00701_2.00_rc_shift7 (WBGene00003673,nhr-123,nhr-130,nhr-133,nhr-179,nhr-182,nhr-183,nhr-184,nhr-190,nhr-201,nhr-202,nhr-212,nhr-44,nhr-59,nhr-98,nhr-99_rc)				; oligos_7nt_mkv2_m5 versus M00701_2.00_rc (WBGene00003673,nhr-123,nhr-130,nhr-133,nhr-179,nhr-182,nhr-183,nhr-184,nhr-190,nhr-201,nhr-202,nhr-212,nhr-44,nhr-59,nhr-98,nhr-99_rc); m=12/29; ncol2=10; w=0; offset=3; strand=R; shift=7; score=0.492185; -------gGaCACra ; cor=; Ncor= a 0 0 0 0 0 0 0 18.5351 18.7679 64.9477 0.0478044 99.0691 0.322642 62.5219 43.7037 c 0 0 0 0 0 0 0 8.32837 0.699177 5.27819 99.4209 0.603999 96.4272 0.172997 23.5102 g 0 0 0 0 0 0 0 54.0369 80.0097 10.2122 0.00433672 0.0581818 0.0320259 36.8007 23.5102 t 0 0 0 0 0 0 0 19.0996 0.523169 19.5619 0.526956 0.268694 3.21809 0.504351 9.27602
M00702_2.00_rc_shift7 (WBGene00003673,nhr-123,nhr-130,nhr-133,nhr-179,nhr-182,nhr-183,nhr-184,nhr-190,nhr-201,nhr-202,nhr-212,nhr-44,nhr-59,nhr-98,nhr-99_rc)				; oligos_7nt_mkv2_m5 versus M00702_2.00_rc (WBGene00003673,nhr-123,nhr-130,nhr-133,nhr-179,nhr-182,nhr-183,nhr-184,nhr-190,nhr-201,nhr-202,nhr-212,nhr-44,nhr-59,nhr-98,nhr-99_rc); m=13/29; ncol2=10; w=0; offset=3; strand=R; shift=7; score=0.467605; -------grwcAcrv ; cor=; Ncor= a 0 0 0 0 0 0 0 20.5026 29.6655 37.2746 8.22399 83.1297 10.4723 40.4445 27.4299 c 0 0 0 0 0 0 0 22.2102 10.0743 18.1435 67.8335 0.259345 63.9903 7.09884 25.8325 g 0 0 0 0 0 0 0 33.4667 46.5247 17.7842 0.675066 8.76181 4.65868 34.4646 26.6192 t 0 0 0 0 0 0 0 23.8206 13.7355 26.7976 23.2675 7.84913 20.8787 17.9921 20.1184
M00928_2.00_rc_shift8 (HLH27,hlh-27_rc)				; oligos_7nt_mkv2_m5 versus M00928_2.00_rc (HLH27,hlh-27_rc); m=14/29; ncol2=8; w=0; offset=4; strand=R; shift=8; score=0.463447; --------GMCAyGC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 13.6364 69.697 0 97.561 0 9.7561 0 c 0 0 0 0 0 0 0 0 13.6364 27.2727 100 0 63.4146 0 89.4737 g 0 0 0 0 0 0 0 0 72.7273 3.0303 0 2.43902 0 90.2439 0 t 0 0 0 0 0 0 0 0 0 0 0 0 36.5854 0 10.5263
M05000_2.00_shift3 (mab-5,nob-1,php-3)				; oligos_7nt_mkv2_m5 versus M05000_2.00 (mab-5,nob-1,php-3); m=15/29; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.462886; ---wTAAYGAy---- ; cor=; Ncor= a 0 0 0 31.0935 15.5845 84.8121 98.7847 1.0587 12.6667 71.6536 1.48669 0 0 0 0 c 0 0 0 21.8683 5.8688 0 0 69.3898 7.99503 4.66679 63.0413 0 0 0 0 g 0 0 0 9.98206 1.73702 1.71979 1.21528 0 74.9015 16.0496 9.83462 0 0 0 0 t 0 0 0 37.0562 76.8097 13.4681 0 29.5515 4.43679 7.62998 25.6374 0 0 0 0
M05409_2.00_shift3 (mab-5,nob-1)				; oligos_7nt_mkv2_m5 versus M05409_2.00 (mab-5,nob-1); m=16/29; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.453205; ---wTAAyGAy---- ; cor=; Ncor= a 0 0 0 26.473 7.94923 79.6431 92.6923 0 4.19332 72.2422 1.53173 0 0 0 0 c 0 0 0 18.2573 7.01403 3.76735 0 64.8547 7.9602 4.61631 60.248 0 0 0 0 g 0 0 0 13.527 4.54242 1.65235 6.07692 0 85.6432 15.7674 10.5762 0 0 0 0 t 0 0 0 41.7427 80.4943 14.9372 1.23077 35.1453 2.20327 7.3741 27.6441 0 0 0 0
M00932_2.00_rc_shift8 (hlh-25,hlh-27_rc)				; oligos_7nt_mkv2_m5 versus M00932_2.00_rc (hlh-25,hlh-27_rc); m=17/29; ncol2=8; w=0; offset=4; strand=R; shift=8; score=0.452928; --------saCAYGC ; cor=; Ncor= a 0 0 0 0 0 0 0 0 16.6667 63.7255 0 96.6102 0 12.7119 1.78571 c 0 0 0 0 0 0 0 0 27.7778 21.5686 92.3729 0 69.4915 0 78.5714 g 0 0 0 0 0 0 0 0 51.3889 8.82353 0.847458 3.38983 0 87.2881 1.78571 t 0 0 0 0 0 0 0 0 4.16667 5.88235 6.77966 0 30.5085 0 17.8571
M05312_2.00_shift3 (mab-5,nob-1,php-3)				; oligos_7nt_mkv2_m5 versus M05312_2.00 (mab-5,nob-1,php-3); m=18/29; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.448224; ---wTAAyGay---- ; cor=; Ncor= a 0 0 0 30.2345 8.95475 71.7339 94.3204 0 7.52033 67.3929 1.93813 0 0 0 0 c 0 0 0 17.7477 10.0064 1.06093 0.318852 64.7912 8.28252 3.36039 50.7641 0 0 0 0 g 0 0 0 20.0718 5.6246 4.39527 3.6668 0.588638 80.166 17.5708 9.85837 0 0 0 0 t 0 0 0 31.9459 75.4143 22.8099 1.6939 34.6201 4.03117 11.6759 37.4394 0 0 0 0
M05050_2.00_shift3 (mab-5,nob-1,php-3)				; oligos_7nt_mkv2_m5 versus M05050_2.00 (mab-5,nob-1,php-3); m=19/29; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.441997; ---wTAAyGay---- ; cor=; Ncor= a 0 0 0 31.0956 12.1352 73.6723 92.0615 0 11.3567 66.6742 2.65552 0 0 0 0 c 0 0 0 18.504 8.42467 0.828625 2.40038 62.4056 9.03234 6.94239 52.7876 0 0 0 0 g 0 0 0 15.7437 1.95431 3.51538 1.72576 1.68031 74.1283 16.4072 11.2529 0 0 0 0 t 0 0 0 34.6567 77.4858 21.9837 3.81236 35.9141 5.48257 9.97614 33.304 0 0 0 0
M04976_2.00_shift3 (mab-5,nob-1,php-3)				; oligos_7nt_mkv2_m5 versus M04976_2.00 (mab-5,nob-1,php-3); m=20/29; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.441048; ---wTAAyGay---- ; cor=; Ncor= a 0 0 0 28.8972 12.085 74.5585 95.9798 0 5.58003 62.5 2.14793 0 0 0 0 c 0 0 0 18.132 9.61155 0.555919 0.652494 59.2439 5.21292 7.34649 49.7198 0 0 0 0 g 0 0 0 16.9919 2.60624 5.16678 2.90465 0.649604 83.7004 18.3799 12.6821 0 0 0 0 t 0 0 0 35.979 75.6972 19.7188 0.46306 40.1065 5.50661 11.7736 35.4501 0 0 0 0
M05406_2.00_shift3 (mab-5,nob-1)				; oligos_7nt_mkv2_m5 versus M05406_2.00 (mab-5,nob-1); m=21/29; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.440914; ---tTAAyGAy---- ; cor=; Ncor= a 0 0 0 22.3458 4.6747 85.9126 96.5454 0 3.04333 78.4546 2.27059 0 0 0 0 c 0 0 0 19.8784 1.63855 0.417848 0 62.5421 1.24049 0.844917 61.9793 0 0 0 0 g 0 0 0 13.1538 1.20482 1.56693 2.14657 0 95.22 12.8373 7.57908 0 0 0 0 t 0 0 0 44.6221 92.4819 12.1027 1.30807 37.4579 0.496196 7.86318 28.171 0 0 0 0
M04914_2.00_shift3 (mab-5,nob-1,php-3)				; oligos_7nt_mkv2_m5 versus M04914_2.00 (mab-5,nob-1,php-3); m=22/29; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.439433; ---wTAAyGay---- ; cor=; Ncor= a 0 0 0 28.4389 11.5765 72.3514 97.2538 1.77817 7.33837 67.7816 1.13233 0 0 0 0 c 0 0 0 16.4179 5.24426 0.661543 0 59.3015 3.97273 5.41378 52.6936 0 0 0 0 g 0 0 0 14.5489 2.26308 2.54889 2.70694 0.645882 79.2097 18.1371 13.8053 0 0 0 0 t 0 0 0 40.5943 80.9161 24.4382 0.0392311 38.2745 9.47918 8.66752 32.3688 0 0 0 0
M05071_2.00_shift3 (mab-5,nob-1)				; oligos_7nt_mkv2_m5 versus M05071_2.00 (mab-5,nob-1); m=23/29; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.438089; ---wTAAyGAy---- ; cor=; Ncor= a 0 0 0 27.9897 6.461 74.9956 95.7009 0 3.19214 71.2452 0.514192 0 0 0 0 c 0 0 0 20.4306 8.42064 1.93016 1.23153 59.287 5.11561 6.91782 52.7766 0 0 0 0 g 0 0 0 18.7456 2.19247 5.33427 1.09718 0 87.4565 13.4522 11.5796 0 0 0 0 t 0 0 0 32.8341 82.9259 17.74 1.97044 40.713 4.23573 8.38473 35.1296 0 0 0 0
M05411_2.00_shift3 (alr-1,ceh-12,ceh-14,ceh-17,ceh-43,ceh-8,lin-11,mec-3,ttx-3,unc-4,unc-42,vab-15)				; oligos_7nt_mkv2_m5 versus M05411_2.00 (alr-1,ceh-12,ceh-14,ceh-17,ceh-43,ceh-8,lin-11,mec-3,ttx-3,unc-4,unc-42,vab-15); m=24/29; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.436626; ---rtaAYGab---- ; cor=; Ncor= a 0 0 0 25.8223 15.3523 62.3363 92.2931 0 2.39098 47.4109 21.1066 0 0 0 0 c 0 0 0 24.5619 15.2949 6.38692 0 70.1301 0 22.1996 25.543 0 0 0 0 g 0 0 0 30.0133 7.17926 21.9327 6.47754 0 95.6394 9.23443 27.3156 0 0 0 0 t 0 0 0 19.6024 62.1735 9.34406 1.22931 29.8699 1.96962 21.1552 26.0348 0 0 0 0
M05279_2.00_shift2 (php-3)				; oligos_7nt_mkv2_m5 versus M05279_2.00 (php-3); m=25/29; ncol2=10; w=-2; offset=-2; strand=D; shift=2; score=0.435882; --dtTwACGAys--- ; cor=; Ncor= a 0 0 26.6962 15.3721 4.30275 34.5303 100 0 2.9309 97.3046 0.893487 18.2548 0 0 0 c 0 0 15.9236 3.55853 0 0 0 88.8287 0 0.242588 56.7364 36.3158 0 0 0 g 0 0 31.3764 15.8598 2.12545 0 0 0 97.0691 1.61725 14.2253 28.615 0 0 0 t 0 0 26.0039 65.2095 93.5718 65.4697 0 11.1713 0 0.83558 28.1448 16.8144 0 0 0
M05100_2.00_shift3 (ceh-1,ceh-12,ceh-13,ceh-16,ceh-43,tab-1,vab-15)				; oligos_7nt_mkv2_m5 versus M05100_2.00 (ceh-1,ceh-12,ceh-13,ceh-16,ceh-43,tab-1,vab-15); m=26/29; ncol2=8; w=-1; offset=-1; strand=D; shift=3; score=0.423304; ---kTaAyGAy---- ; cor=; Ncor= a 0 0 0 18.1525 5.04348 61.2903 87.8302 0 0.834202 83.7984 4.26877 0 0 0 0 c 0 0 0 23.2009 9.91304 5.13496 0.188679 51.9821 0 1.71017 37.3913 0 0 0 0 g 0 0 0 27.4973 4.08696 14.0224 6.41509 0.390843 97.0803 3.06031 22.0553 0 0 0 0 t 0 0 0 31.1493 80.9565 19.5523 5.56604 47.627 2.08551 11.4311 36.2846 0 0 0 0
M05044_2.00_shift2 (ceh-27)				; oligos_7nt_mkv2_m5 versus M05044_2.00 (ceh-27); m=27/29; ncol2=9; w=-2; offset=-2; strand=D; shift=2; score=0.41564; --ctyAACGay---- ; cor=; Ncor= a 0 0 11.1465 21.3889 2.91345 96.467 88.2022 0 2.16509 47.9024 0 0 0 0 0 c 0 0 53.8217 2.68519 53.8132 1.38249 3.23034 90.8828 12.7199 24.1037 55.8029 0 0 0 0 g 0 0 22.6115 17.7778 10.1114 2.15054 1.1236 3.61795 84.9797 11.9756 18.9189 0 0 0 0 t 0 0 12.4204 58.1481 33.162 0 7.44382 5.49928 0.135318 16.0183 25.2782 0 0 0 0
M05152_2.00_shift2 (ceh-27)				; oligos_7nt_mkv2_m5 versus M05152_2.00 (ceh-27); m=28/29; ncol2=9; w=-2; offset=-2; strand=D; shift=2; score=0.414218; --yTcAACGAs---- ; cor=; Ncor= a 0 0 6.61331 13.964 4.7351 85.833 94.3959 0 4.69228 72.0352 1.47368 0 0 0 0 c 0 0 35.1306 2.02703 55 2.52982 2.58347 90.4417 11.6967 11.4953 31.6632 0 0 0 0 g 0 0 22.9149 7.59331 23.6424 8.70979 1.94754 5.06474 80.7548 4.4586 45.6842 0 0 0 0 t 0 0 35.3412 76.4157 16.6225 2.92736 1.07313 4.49353 2.85617 12.0109 21.1789 0 0 0 0
M05348_2.00_shift2 (ceh-27)				; oligos_7nt_mkv2_m5 versus M05348_2.00 (ceh-27); m=29/29; ncol2=9; w=-2; offset=-2; strand=D; shift=2; score=0.406996; --sTcAACGAs---- ; cor=; Ncor= a 0 0 6.25 10.0604 3.7234 89.0722 91.1392 0 0 69.5652 0 0 0 0 0 c 0 0 48.3796 2.41449 57.4468 0 3.37553 95.5752 16.4151 11.7552 33.3333 0 0 0 0 g 0 0 26.3889 0.603622 14.2287 4.53608 1.47679 0 81.5094 7.72947 46.2963 0 0 0 0 t 0 0 18.9815 86.9215 24.6011 6.39175 4.00844 4.42478 2.07547 10.9501 20.3704 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv2_m3_shift0 (oligos_7nt_mkv2_m3)				; oligos_7nt_mkv2_m3; m=0 (reference); ncol1=11; shift=0; ncol=11; mhGCACTCCGy ; Alignment reference a 32 19 16 0 72 16 0 0 0 4 18 c 33 32 0 75 3 54 0 75 75 3 19 g 3 1 59 0 0 3 0 0 0 52 3 t 7 23 0 0 0 2 75 0 0 16 35
M05824_2.00_rc_shift1 (egl-44_rc)				; oligos_7nt_mkv2_m3 versus M05824_2.00_rc (egl-44_rc); m=1/7; ncol2=10; w=0; offset=1; strand=R; shift=1; score=0.684183; -crCATTCCaw ; cor=; Ncor= a 0 8.59961 49.0702 0 99.8326 0 17.1059 0 0 57.1327 28.37 c 0 59.5661 0.216472 100 0.118145 0 0 99.5582 96.8112 0.797347 24.6524 g 0 10.9467 50.7134 0 0.0492271 0 0.921584 0.441826 0.496467 19.1442 16.0536 t 0 20.8876 0 0 0 100 81.9725 0 2.69238 22.9257 30.924
M03995_2.00_rc_shift0 (egl-44_rc)				; oligos_7nt_mkv2_m3 versus M03995_2.00_rc (egl-44_rc); m=2/7; ncol2=10; w=0; offset=0; strand=R; shift=0; score=0.673047; ccrCATTCCw- ; cor=; Ncor= a 18.4925 11.5686 46.7626 8.40052 99.1037 0 20.5274 0.112786 0 54.5111 0 c 41.1324 55.3848 0.406392 90.8234 0 0 0 99.1582 99.0574 2.75232 0 g 18.9281 12.1484 52.2187 0.776053 0.896294 0 2.38039 0.321853 0.104427 16.0557 0 t 21.447 20.8983 0.612335 0 0 100 77.0922 0.40713 0.838165 26.6809 0
M03996_2.00_rc_shift0 (egl-44_rc)				; oligos_7nt_mkv2_m3 versus M03996_2.00_rc (egl-44_rc); m=3/7; ncol2=12; w=0; offset=0; strand=R; shift=0; score=0.672893; ycrCATTCCww ; cor=; Ncor= a 18.7614 11.2376 49.4598 5.73884 99.5802 0.0210194 12.9367 0.370561 0 63.2431 32.0922 c 37.8144 52.5275 0.561093 94.1058 0.174905 0.115607 0.252131 97.6737 99.3335 1.35742 19.7134 g 18.094 11.5748 49.7491 0.155372 0.244867 0.136626 1.36571 0.408303 0.279154 9.40416 10.6541 t 25.3302 24.6601 0.230013 0 0 99.7267 85.4454 1.54744 0.380348 25.9953 37.5404
M05823_2.00_rc_shift1 (egl-44_rc)				; oligos_7nt_mkv2_m3 versus M05823_2.00_rc (egl-44_rc); m=4/7; ncol2=10; w=0; offset=1; strand=R; shift=1; score=0.671161; -crCATTCCww ; cor=; Ncor= a 0 10.6867 50.811 7.11351 99.9705 0 16.1711 0 0 58.3822 26.7682 c 0 55.685 0 92.8865 0 0 0 100 95.4624 0.642463 24.6547 g 0 11.4732 49.189 0 0.029484 0 0.625741 0 0 11.6376 16.9673 t 0 22.155 0 0 0 100 83.2031 0 4.53756 29.3377 31.6097
M05826_2.00_rc_shift1 (egl-44_rc)				; oligos_7nt_mkv2_m3 versus M05826_2.00_rc (egl-44_rc); m=5/7; ncol2=9; w=0; offset=1; strand=R; shift=1; score=0.58862; -crCATwCCd- ; cor=; Ncor= a 0 13.0974 46.3913 2.60955 100 0 39.0024 0.796432 1.32194 41.007 0 c 0 50.1898 1.6542 97.3905 0 0 0 95.1152 89.0269 8.02724 0 g 0 14.1469 47.9823 0 0 0 10.2865 4.08835 0 25.935 0 t 0 22.5659 3.97218 0 0 100 50.7111 0 9.65113 25.0307 0
M05825_2.00_rc_shift1 (egl-44_rc)				; oligos_7nt_mkv2_m3 versus M05825_2.00_rc (egl-44_rc); m=6/7; ncol2=9; w=0; offset=1; strand=R; shift=1; score=0.587413; -crCATwCCr- ; cor=; Ncor= a 0 13.1722 40.6114 1.16064 92.5142 0 39.9864 0.743938 0 41.7801 0 c 0 45.4563 3.11259 98.8394 0 0 0 93.0749 92.0854 4.92402 0 g 0 17.849 52.9879 0 7.48585 0 13.5988 6.18112 0.417992 29.1889 0 t 0 23.5224 3.28808 0 0 100 46.4149 0 7.49659 24.107 0
M03576_2.00_rc_shift2 (egl-44_rc)				; oligos_7nt_mkv2_m3 versus M03576_2.00_rc (egl-44_rc); m=7/7; ncol2=8; w=0; offset=2; strand=R; shift=2; score=0.534359; --rCATTCCw- ; cor=; Ncor= a 0 0 55.3984 11.533 100 0 20.3512 0 0 47.8661 0 c 0 0 0.291803 86.4519 0 0 0.102514 100 99.9814 2.3192 0 g 0 0 39.4067 2.01508 0 0 4.31895 0 0 19.317 0 t 0 0 4.90317 0 0 100 75.2273 0 0.0186498 30.4978 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv2_m4_shift0 (oligos_7nt_mkv2_m4)				; oligos_7nt_mkv2_m4; m=0 (reference); ncol1=12; shift=0; ncol=12; TCTGGCTTCAym ; Alignment reference a 11 1 0 0 0 0 0 0 0 48 0 28 c 0 44 0 0 0 57 11 0 59 9 31 19 g 0 13 0 59 59 0 0 0 0 0 1 0 t 48 1 59 0 0 2 48 59 0 2 27 12
M00609_2.00_rc_shift0 (che-1_rc)				; oligos_7nt_mkv2_m4 versus M00609_2.00_rc (che-1_rc); m=1/4; ncol2=10; w=0; offset=0; strand=R; shift=0; score=0.657888; wagGGcTTCm-- ; cor=; Ncor= a 25.4183 47.4945 22.8171 7.68239 8.90882 14.5768 3.05199 0.728178 2.1474 28.5277 0 0 c 16.0462 13.6074 11.7931 2.50661 0.0088004 64.0352 0.79915 0.0136065 86.8567 33.4776 0 0 g 13.1375 21.7718 41.1618 77.3957 77.2496 2.48291 0.0100096 4.36139 2.95725 14.1664 0 0 t 45.3981 17.1263 24.228 12.4153 13.8328 18.9051 96.1389 94.8968 8.03864 23.8283 0 0
M01867_2.00_shift2 (ztf-28)				; oligos_7nt_mkv2_m4 versus M01867_2.00 (ztf-28); m=2/4; ncol2=10; w=0; offset=2; strand=D; shift=2; score= 0.6178; --rrGCTTcwtc ; cor=; Ncor= a 0 0 37.7203 39.8642 2.69874 4.31048 5.72006 1.71209 21.6595 50.6966 21.8415 18.2303 c 0 0 20.9094 6.02235 1.94019 92.8559 0.0207332 1.62859 48.6887 8.3801 24.3811 47.1383 g 0 0 30.8827 41.491 93.9522 0.896774 0.194754 1.29397 11.1948 5.90536 19.1789 21.3935 t 0 0 10.4876 12.6225 1.40887 1.93682 94.0644 95.3653 18.457 35.0179 34.5985 13.2379
M00624_2.00_shift2 (lsy-27)				; oligos_7nt_mkv2_m4 versus M00624_2.00 (lsy-27); m=3/4; ncol2=10; w=0; offset=2; strand=D; shift=2; score=0.600999; --rrGCTTcwsc ; cor=; Ncor= a 0 0 34.2803 38.5544 5.78911 0.318041 1.89381 0.95431 18.6879 44.7311 22.6935 22.0752 c 0 0 23.6786 9.2264 0.0559094 98.9312 0.0184736 0.0489593 45.9648 11.0305 28.2778 37.8813 g 0 0 26.1689 30.6327 93.3147 0.627774 0.710767 0.183275 11.1103 7.24759 27.4421 24.6421 t 0 0 15.8722 21.5865 0.840278 0.122999 97.377 98.8135 24.2369 36.9908 21.5867 15.4014
M08451_2.00_shift3 (che-1)				; oligos_7nt_mkv2_m4 versus M08451_2.00 (che-1); m=4/4; ncol2=6; w=0; offset=3; strand=D; shift=3; score=0.455367; ---SGyTTC--- ; cor=; Ncor= a 0 0 0 0 0 0 0 0 0 0 0 0 c 0 0 0 29.7297 0 48.6486 0 0 100 0 0 0 g 0 0 0 70.2703 100 0 0 0 0 0 0 0 t 0 0 0 0 0 51.3514 100 100 0 0 0 0

Matrix name	Aligned logos	cor	Ncor	Aligned matrices
oligos_7nt_mkv2_m2_shift1 (oligos_7nt_mkv2_m2)				; oligos_7nt_mkv2_m2; m=0 (reference); ncol1=11; shift=1; ncol=12; -TtTGGTGAAck ; Alignment reference a 0 19 29 3 16 3 0 0 136 151 32 21 c 0 4 22 3 0 3 0 0 0 0 101 8 g 0 18 4 0 131 147 5 150 16 2 10 83 t 0 112 98 147 6 0 148 3 1 0 10 41
M00629_2.00_shift0 (ztf-27)				; oligos_7nt_mkv2_m2 versus M00629_2.00 (ztf-27); m=1/4; ncol2=8; w=-1; offset=-1; strand=D; shift=0; score=0.505418; bwwkGGyG---- ; cor=; Ncor= a 22.932 26.9109 34.237 5.87054 0.294779 2.59287 0.0100182 2.27366 0 0 0 0 c 25.5984 24.35 10.626 0.522018 0.0705432 0.0737382 36.1129 0.0293457 0 0 0 0 g 26.378 23.3953 18.4176 34.4651 92.6167 93.0155 0.0197748 97.65 0 0 0 0 t 25.0916 25.3438 36.7194 59.1423 7.01794 4.31789 63.8573 0.0469529 0 0 0 0
M08195_2.00_rc_shift4 (blmp-1_rc)				; oligos_7nt_mkv2_m2 versus M08195_2.00_rc (blmp-1_rc); m=2/4; ncol2=10; w=0; offset=3; strand=R; shift=4; score=0.460651; ----RGtGAAAG ; cor=; Ncor= a 0 0 0 0 68.6047 0 17.4419 3.4884 97.093 92.4418 96.5116 0 c 0 0 0 0 0 0 22.6744 0 2.907 0 3.4884 0 g 0 0 0 0 31.3953 90.6977 6.9767 96.5116 0 2.907 0 94.7674 t 0 0 0 0 0 9.3023 52.907 0 0 4.6512 0 5.2326
M02403_2.00_rc_shift5 (nhr-91_rc)				; oligos_7nt_mkv2_m2 versus M02403_2.00_rc (nhr-91_rc); m=3/4; ncol2=7; w=0; offset=4; strand=R; shift=5; score=0.446984; -----ryGamCy ; cor=; Ncor= a 0 0 0 0 0 34.3482 1.82241 19.6315 63.745 50.8264 15.3486 10.9046 c 0 0 0 0 0 15.7454 35.1688 0.261097 11.1886 42.4538 68.7876 45.5669 g 0 0 0 0 0 25.7015 0.195961 75.727 8.54111 0.495799 6.36633 7.68432 t 0 0 0 0 0 24.2048 62.8128 4.38038 16.5253 6.22402 9.49745 35.8442
M05877_2.00_rc_shift6 (nhr-91_rc)				; oligos_7nt_mkv2_m2 versus M05877_2.00_rc (nhr-91_rc); m=4/4; ncol2=8; w=0; offset=5; strand=R; shift=6; score=0.405098; ------TGAACy ; cor=; Ncor= a 0 0 0 0 0 0 1.9 17.4 82.7 89 3.2 3.4 c 0 0 0 0 0 0 7.6 2.8 8.2 7 91.9 38.6 g 0 0 0 0 0 0 1.9 74.3 3.1 2.3 2.5 2.4 t 0 0 0 0 0 0 88.6 5.5 6.1 1.7 2.4 55.5