Multiple sequence alignment - TraesCS7D01G468900

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS7D01G468900 chr7D 100.000 4437 0 0 1 4437 582297801 582302237 0.000000e+00 8194
1 TraesCS7D01G468900 chr7D 90.210 143 14 0 4246 4388 205134705 205134563 2.110000e-43 187
2 TraesCS7D01G468900 chr7D 86.620 142 16 2 4248 4389 82902981 82902843 2.140000e-33 154
3 TraesCS7D01G468900 chr7B 91.167 3419 222 37 213 3583 650124038 650127424 0.000000e+00 4567
4 TraesCS7D01G468900 chr7B 87.250 800 73 22 3600 4390 650127492 650128271 0.000000e+00 885
5 TraesCS7D01G468900 chr7B 85.517 145 18 2 4245 4389 32332834 32332693 9.940000e-32 148
6 TraesCS7D01G468900 chr7A 90.035 3141 206 48 481 3583 674269595 674272666 0.000000e+00 3967
7 TraesCS7D01G468900 chr7A 88.889 468 44 6 3582 4042 674272709 674273175 1.790000e-158 569
8 TraesCS7D01G468900 chr7A 91.584 202 17 0 1 202 674265762 674265963 3.380000e-71 279
9 TraesCS7D01G468900 chr7A 90.050 201 18 2 4155 4354 674273166 674273365 4.400000e-65 259
10 TraesCS7D01G468900 chr7A 90.210 143 14 0 4246 4388 217205682 217205540 2.110000e-43 187


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7D01G468900 chr7D 582297801 582302237 4436 False 8194.0 8194 100.0000 1 4437 1 chr7D.!!$F1 4436
1 TraesCS7D01G468900 chr7B 650124038 650128271 4233 False 2726.0 4567 89.2085 213 4390 2 chr7B.!!$F1 4177
2 TraesCS7D01G468900 chr7A 674265762 674273365 7603 False 1268.5 3967 90.1395 1 4354 4 chr7A.!!$F1 4353

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
486 3851 0.030092 TCCCTGGTATCCCCCTTCAG 60.030 60.0 0.0 0.0 0.00 3.02 F
1854 5258 0.233332 GCGAGCCATTTAGCTTAGCG 59.767 55.0 0.0 0.0 45.15 4.26 F
2664 6090 0.043183 TCATGAGAGGGCTGAGGGAA 59.957 55.0 0.0 0.0 0.00 3.97 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2210 5631 0.960364 CCACAGTAACCAGCCGCAAT 60.960 55.0 0.0 0.0 0.0 3.56 R
3337 6764 0.178995 TGGCCACATTCAGCAGTCAA 60.179 50.0 0.0 0.0 0.0 3.18 R
4415 7925 0.036306 TCCTTCTCGCCCTTCCAAAC 59.964 55.0 0.0 0.0 0.0 2.93 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 1.687123 GCCCCTTCACGAATCTAGCTA 59.313 52.381 0.00 0.00 0.00 3.32
27 28 5.368989 CCCCTTCACGAATCTAGCTATTTT 58.631 41.667 0.00 0.00 0.00 1.82
32 33 7.254590 CCTTCACGAATCTAGCTATTTTCCTTG 60.255 40.741 0.00 0.83 0.00 3.61
56 57 1.645710 AGTCCCACCTTCTGATTCGT 58.354 50.000 0.00 0.00 0.00 3.85
61 62 1.026718 CACCTTCTGATTCGTGGCCC 61.027 60.000 0.00 0.00 0.00 5.80
90 91 2.482494 CCCTTCCTCTTCCTACACCAT 58.518 52.381 0.00 0.00 0.00 3.55
95 96 5.482175 CCTTCCTCTTCCTACACCATATAGG 59.518 48.000 0.00 0.00 45.67 2.57
101 102 2.181419 TCCTACACCATATAGGCCACCT 59.819 50.000 5.01 0.00 43.14 4.00
107 108 5.631119 ACACCATATAGGCCACCTAAAATC 58.369 41.667 5.01 0.00 39.77 2.17
128 129 4.806330 TCTTCTACCACAAGTCGTTGATC 58.194 43.478 0.00 0.00 37.10 2.92
142 143 1.097232 TTGATCTGCCTTTGCCATCG 58.903 50.000 0.00 0.00 36.33 3.84
160 161 4.806247 CCATCGTTCTAAAGGTCACTGATC 59.194 45.833 0.00 0.00 0.00 2.92
176 177 3.244353 ACTGATCTAATCTTGGATGGCGG 60.244 47.826 0.00 0.00 0.00 6.13
177 178 2.705658 TGATCTAATCTTGGATGGCGGT 59.294 45.455 0.00 0.00 0.00 5.68
185 186 0.406361 TTGGATGGCGGTAACCCTTT 59.594 50.000 0.00 0.00 0.00 3.11
189 190 1.743394 GATGGCGGTAACCCTTTCTTG 59.257 52.381 0.00 0.00 0.00 3.02
202 203 0.693049 TTTCTTGTGGCCTCCCTCTC 59.307 55.000 3.32 0.00 0.00 3.20
209 305 4.890306 GCCTCCCTCTCCCCCTCC 62.890 77.778 0.00 0.00 0.00 4.30
243 339 7.042335 CCAACTTAACGAGAATGGAGTAGAAT 58.958 38.462 0.00 0.00 37.79 2.40
307 409 9.838339 AGTATTAAAGAGTAAGATGATGTTGGG 57.162 33.333 0.00 0.00 0.00 4.12
320 422 0.888736 TGTTGGGTGAAGATGCCACG 60.889 55.000 0.00 0.00 35.48 4.94
340 444 2.223525 CGGTAGATGAAGGAGTCGAACC 60.224 54.545 2.14 2.14 0.00 3.62
345 449 0.601558 TGAAGGAGTCGAACCGGAAG 59.398 55.000 9.46 0.00 0.00 3.46
366 471 5.461032 AGGAGAGCGGAAGAGTAAATATG 57.539 43.478 0.00 0.00 0.00 1.78
419 525 1.833630 TGGGATGTCTAGCCTCAACTG 59.166 52.381 0.00 0.00 31.41 3.16
439 545 4.180057 CTGATGCACACTCTTCTTCTACC 58.820 47.826 0.00 0.00 0.00 3.18
440 546 3.578282 TGATGCACACTCTTCTTCTACCA 59.422 43.478 0.00 0.00 0.00 3.25
486 3851 0.030092 TCCCTGGTATCCCCCTTCAG 60.030 60.000 0.00 0.00 0.00 3.02
511 3876 7.625682 AGGAATATGGTTCTTTCTCCTAACTCT 59.374 37.037 0.00 0.00 30.01 3.24
513 3878 7.979786 ATATGGTTCTTTCTCCTAACTCTGA 57.020 36.000 0.00 0.00 0.00 3.27
555 3920 3.182996 AAACCCGCCACTTCCCCT 61.183 61.111 0.00 0.00 0.00 4.79
559 3924 2.045926 CCGCCACTTCCCCTTCTG 60.046 66.667 0.00 0.00 0.00 3.02
603 3968 1.013596 TTGACTTGTTGCACGACCAG 58.986 50.000 0.00 0.00 0.00 4.00
606 3971 0.814010 ACTTGTTGCACGACCAGTCC 60.814 55.000 0.00 0.00 0.00 3.85
613 3978 1.890894 CACGACCAGTCCGATCCTT 59.109 57.895 0.00 0.00 0.00 3.36
666 4037 5.166398 GTCTCCGAAAGAAATAACCGAAGA 58.834 41.667 0.00 0.00 35.21 2.87
747 4130 3.797353 TCATCGCCCTTGCTCCCC 61.797 66.667 0.00 0.00 34.43 4.81
756 4141 3.628646 CTTGCTCCCCCTCCAACGG 62.629 68.421 0.00 0.00 0.00 4.44
770 4155 3.691575 TCCAACGGCATTTATCTTTCCA 58.308 40.909 0.00 0.00 0.00 3.53
808 4193 1.192757 TGTCCACATTTCGTTTACGCG 59.807 47.619 3.53 3.53 39.60 6.01
811 4196 0.791610 CACATTTCGTTTACGCGGCC 60.792 55.000 12.47 0.00 39.60 6.13
823 4208 0.519961 ACGCGGCCATTACAAACTTC 59.480 50.000 12.47 0.00 0.00 3.01
838 4223 4.096382 ACAAACTTCACCACAAAGCACTAG 59.904 41.667 0.00 0.00 0.00 2.57
850 4235 4.702131 ACAAAGCACTAGCCTTTTCTATGG 59.298 41.667 6.32 0.00 43.56 2.74
1113 4502 2.787601 TACTTTATAGCCGGCGACAG 57.212 50.000 23.20 15.14 0.00 3.51
1144 4533 0.258774 AAATCCCATCTCCCAACCCG 59.741 55.000 0.00 0.00 0.00 5.28
1158 4547 0.845102 AACCCGGAAATCCTCCCACT 60.845 55.000 0.73 0.00 41.87 4.00
1162 4551 1.527370 GGAAATCCTCCCACTCCCG 59.473 63.158 0.00 0.00 38.44 5.14
1240 4629 0.249398 CGACTTCCACCGGAATCCTT 59.751 55.000 9.46 0.00 41.23 3.36
1255 4644 2.367202 CCTTCCCTCCTAGCCGCAA 61.367 63.158 0.00 0.00 0.00 4.85
1257 4646 1.899437 CTTCCCTCCTAGCCGCAACA 61.899 60.000 0.00 0.00 0.00 3.33
1267 4656 3.640000 CCGCAACATCGCCGGATC 61.640 66.667 5.05 0.00 44.55 3.36
1276 4665 1.464376 ATCGCCGGATCGATTCAGGT 61.464 55.000 5.05 0.00 45.81 4.00
1299 4688 5.707298 GTGGTGGTATATCTGGATTGGATTG 59.293 44.000 0.00 0.00 0.00 2.67
1383 4772 2.107141 CGTCCCTGATTCCTCGGC 59.893 66.667 0.00 0.00 0.00 5.54
1384 4773 2.506472 GTCCCTGATTCCTCGGCC 59.494 66.667 0.00 0.00 0.00 6.13
1443 4832 1.544314 GCAGTCTTTGGTCCTCTGCTT 60.544 52.381 7.98 0.00 45.14 3.91
1475 4864 3.428045 GCAGCGGATAAGATTTGCTTTGT 60.428 43.478 0.00 0.00 38.05 2.83
1476 4865 4.100529 CAGCGGATAAGATTTGCTTTGTG 58.899 43.478 0.00 0.00 38.05 3.33
1555 4951 0.603707 TCTTGCTTTGAGCCGACCTG 60.604 55.000 0.00 0.00 41.51 4.00
1608 5006 8.562892 GGGGATCTAAATCAATATTATCATGCG 58.437 37.037 0.00 0.00 33.21 4.73
1712 5115 2.875933 CGAAACTCTGTTTTGTGGGCTA 59.124 45.455 0.00 0.00 0.00 3.93
1726 5129 1.497286 TGGGCTATTGTCCCCATTACC 59.503 52.381 0.00 0.00 46.14 2.85
1735 5138 2.158871 TGTCCCCATTACCGTATTCAGC 60.159 50.000 0.00 0.00 0.00 4.26
1738 5141 2.289444 CCCCATTACCGTATTCAGCGAT 60.289 50.000 0.00 0.00 0.00 4.58
1739 5142 3.056393 CCCCATTACCGTATTCAGCGATA 60.056 47.826 0.00 0.00 0.00 2.92
1741 5144 5.175859 CCCATTACCGTATTCAGCGATAAT 58.824 41.667 0.00 0.00 28.97 1.28
1742 5145 5.063438 CCCATTACCGTATTCAGCGATAATG 59.937 44.000 5.19 5.19 42.39 1.90
1743 5146 5.637810 CCATTACCGTATTCAGCGATAATGT 59.362 40.000 9.88 0.00 41.64 2.71
1744 5147 6.401047 CCATTACCGTATTCAGCGATAATGTG 60.401 42.308 9.88 0.78 41.64 3.21
1749 5152 5.163953 CCGTATTCAGCGATAATGTGGATTC 60.164 44.000 0.00 0.00 0.00 2.52
1854 5258 0.233332 GCGAGCCATTTAGCTTAGCG 59.767 55.000 0.00 0.00 45.15 4.26
1877 5281 4.333649 GCTGTGAATCTGTATGCTTGCTTA 59.666 41.667 0.00 0.00 0.00 3.09
1895 5299 8.162245 GCTTGCTTATTCCTTTAAAATTTGTCG 58.838 33.333 0.00 0.00 0.00 4.35
1906 5310 7.060174 CCTTTAAAATTTGTCGTGTTACATCCG 59.940 37.037 0.00 0.00 0.00 4.18
1910 5314 2.797074 TGTCGTGTTACATCCGTTGA 57.203 45.000 0.00 0.00 0.00 3.18
1912 5316 2.034939 TGTCGTGTTACATCCGTTGACT 59.965 45.455 0.00 0.00 0.00 3.41
1916 5320 3.121126 CGTGTTACATCCGTTGACTGTTC 60.121 47.826 0.00 0.00 0.00 3.18
1992 5396 6.262049 TGTTAGTGCAAGTTTGATTTCTGCTA 59.738 34.615 0.00 0.00 0.00 3.49
2041 5445 6.942532 TTCCTTTCATGCATGTTATCTACC 57.057 37.500 25.43 0.00 0.00 3.18
2042 5446 5.376625 TCCTTTCATGCATGTTATCTACCC 58.623 41.667 25.43 0.00 0.00 3.69
2050 5460 7.560991 TCATGCATGTTATCTACCCAAAATCTT 59.439 33.333 25.43 0.00 0.00 2.40
2093 5504 9.804758 AGTTAATTAGATACTACTCAAGTGCAC 57.195 33.333 9.40 9.40 39.39 4.57
2124 5539 5.588246 TGTGTGAATTGTCGGTTATGCATAT 59.412 36.000 7.36 0.00 0.00 1.78
2127 5542 6.094742 TGTGAATTGTCGGTTATGCATATTGT 59.905 34.615 7.36 0.00 0.00 2.71
2143 5558 6.424812 TGCATATTGTCCTGATTCTCGTTATG 59.575 38.462 0.00 0.00 0.00 1.90
2210 5631 2.159240 AGACATGTCGCTGCTATCGAAA 60.159 45.455 19.85 0.00 37.73 3.46
2213 5634 3.001634 ACATGTCGCTGCTATCGAAATTG 59.998 43.478 0.00 0.46 37.73 2.32
2217 5638 3.444657 CTGCTATCGAAATTGCGGC 57.555 52.632 5.87 2.08 36.56 6.53
2222 5643 1.670811 CTATCGAAATTGCGGCTGGTT 59.329 47.619 5.87 0.00 0.00 3.67
2498 5924 2.552315 TCAGGAATTTGCGTTGACCTTC 59.448 45.455 0.00 0.00 0.00 3.46
2544 5970 3.554934 TCAATTTATACTGCAGGCTGGG 58.445 45.455 19.93 0.00 0.00 4.45
2571 5997 8.843885 ATGATTACGATGATGAGACATTTGAT 57.156 30.769 0.00 0.00 0.00 2.57
2586 6012 6.204688 AGACATTTGATAAAGTGTTCAAGCGA 59.795 34.615 0.00 0.00 33.68 4.93
2601 6027 3.442273 TCAAGCGAATTTATTCCGCCTTT 59.558 39.130 5.00 0.00 37.17 3.11
2622 6048 1.743321 GCTCCTCTGCGCCATACTCT 61.743 60.000 4.18 0.00 0.00 3.24
2625 6051 0.176680 CCTCTGCGCCATACTCTGTT 59.823 55.000 4.18 0.00 0.00 3.16
2664 6090 0.043183 TCATGAGAGGGCTGAGGGAA 59.957 55.000 0.00 0.00 0.00 3.97
2670 6096 2.216782 GAGGGCTGAGGGAAAAGGGG 62.217 65.000 0.00 0.00 0.00 4.79
2682 6108 2.225017 GGAAAAGGGGATCACAGTTGGA 60.225 50.000 0.00 0.00 0.00 3.53
2706 6132 0.108186 TCAGCAATGCAGAGTACCGG 60.108 55.000 8.35 0.00 0.00 5.28
2765 6191 6.811253 TCAGGTTTGATAACATTACACACC 57.189 37.500 0.00 0.00 35.92 4.16
2790 6216 3.319122 AGTCACAACCTTTTCAGCCATTC 59.681 43.478 0.00 0.00 0.00 2.67
2791 6217 3.068024 GTCACAACCTTTTCAGCCATTCA 59.932 43.478 0.00 0.00 0.00 2.57
2794 6220 3.896888 ACAACCTTTTCAGCCATTCATCA 59.103 39.130 0.00 0.00 0.00 3.07
2797 6223 3.703052 ACCTTTTCAGCCATTCATCATCC 59.297 43.478 0.00 0.00 0.00 3.51
2811 6237 7.360691 CCATTCATCATCCTATAAAAGCAGTCG 60.361 40.741 0.00 0.00 0.00 4.18
2846 6272 1.279496 AGTTGTGCATCTAGGGCTCA 58.721 50.000 8.45 8.02 33.44 4.26
2882 6308 1.215647 GTTCTCAGGCATCGTCGGT 59.784 57.895 0.00 0.00 0.00 4.69
3095 6521 1.667154 CGGTGCTCCCTGATCTCGAA 61.667 60.000 0.00 0.00 0.00 3.71
3101 6527 2.496341 CCTGATCTCGAAGCCGCA 59.504 61.111 0.00 0.00 35.37 5.69
3208 6635 1.072159 GAATCTCGCCCCTGGGATG 59.928 63.158 16.20 6.03 37.50 3.51
3267 6694 2.237392 AGGAGAAGGGATGTGTTGTAGC 59.763 50.000 0.00 0.00 0.00 3.58
3327 6754 2.921834 ACTCTGGTAGTAGGCTTCCA 57.078 50.000 0.00 0.00 39.42 3.53
3337 6764 0.764890 TAGGCTTCCAGTGCTGTTGT 59.235 50.000 0.00 0.00 0.00 3.32
3355 6782 0.242017 GTTGACTGCTGAATGTGGCC 59.758 55.000 0.00 0.00 0.00 5.36
3376 6803 2.027073 GTGATTCAGCCGTGCGACA 61.027 57.895 0.00 0.00 0.00 4.35
3425 6852 5.443185 AATCATGTTTCGCATAATGGAGG 57.557 39.130 0.00 0.00 35.74 4.30
3448 6875 6.319658 AGGAATTTAACATGATTCTGCATCGT 59.680 34.615 0.00 0.00 34.08 3.73
3480 6907 0.916086 TAGGATTGCGATGTTGGGGT 59.084 50.000 0.00 0.00 0.00 4.95
3487 6914 3.859411 TGCGATGTTGGGGTTATTTTC 57.141 42.857 0.00 0.00 0.00 2.29
3498 6925 4.345547 TGGGGTTATTTTCAAACTCCCAAC 59.654 41.667 10.76 0.00 45.42 3.77
3519 6946 6.427974 CAACATGAATGTGATATCTCAGCAC 58.572 40.000 12.61 7.39 44.07 4.40
3585 7073 0.467290 TCCCTGGTTCTGTTGTTGGC 60.467 55.000 0.00 0.00 0.00 4.52
3597 7085 4.451096 TCTGTTGTTGGCGAGTAAAGATTC 59.549 41.667 0.00 0.00 0.00 2.52
3607 7102 3.245519 CGAGTAAAGATTCGCTAAAGGCC 59.754 47.826 0.00 0.00 37.74 5.19
3608 7103 4.443621 GAGTAAAGATTCGCTAAAGGCCT 58.556 43.478 0.00 0.00 37.74 5.19
3617 7112 1.090728 GCTAAAGGCCTCTTCAGTGC 58.909 55.000 5.23 0.00 34.27 4.40
3735 7230 4.116113 ACCATCAACAGAGGGGGTAATTA 58.884 43.478 1.07 0.00 37.53 1.40
3751 7246 6.438425 GGGGTAATTATGTCGAGTATTCCCTA 59.562 42.308 0.00 0.00 0.00 3.53
3780 7277 5.445964 AGGAAATATGGCGAGTATTTGGTT 58.554 37.500 6.96 0.00 33.23 3.67
3784 7281 7.201750 GGAAATATGGCGAGTATTTGGTTTGTA 60.202 37.037 6.96 0.00 33.23 2.41
3836 7333 4.148891 CGCCTTTCGTTACATTTCAGAAC 58.851 43.478 0.00 0.00 0.00 3.01
3841 7338 7.017645 CCTTTCGTTACATTTCAGAACATCTG 58.982 38.462 0.88 0.88 45.59 2.90
3854 7351 3.755378 AGAACATCTGTTGTGGCAAGATC 59.245 43.478 0.00 0.00 38.99 2.75
3855 7352 3.144657 ACATCTGTTGTGGCAAGATCA 57.855 42.857 0.00 0.00 37.11 2.92
3857 7354 4.084287 ACATCTGTTGTGGCAAGATCAAT 58.916 39.130 0.00 0.00 37.11 2.57
3860 7357 3.890756 TCTGTTGTGGCAAGATCAATTGT 59.109 39.130 5.13 0.00 32.56 2.71
3861 7358 3.979948 TGTTGTGGCAAGATCAATTGTG 58.020 40.909 5.13 0.00 32.56 3.33
3914 7412 1.614051 CCAGTGCTGCTAATTGTCCCA 60.614 52.381 0.00 0.00 0.00 4.37
3923 7421 2.879756 GCTAATTGTCCCAGGTTGCTGA 60.880 50.000 0.00 0.00 0.00 4.26
3945 7444 7.429374 TGAGTAGAGAGATTCCATGAAATGT 57.571 36.000 0.00 0.00 44.81 2.71
3946 7445 7.495901 TGAGTAGAGAGATTCCATGAAATGTC 58.504 38.462 0.00 0.00 44.81 3.06
3947 7446 7.344093 TGAGTAGAGAGATTCCATGAAATGTCT 59.656 37.037 3.87 3.87 44.81 3.41
3948 7447 7.499292 AGTAGAGAGATTCCATGAAATGTCTG 58.501 38.462 9.13 0.00 44.81 3.51
3949 7448 6.310764 AGAGAGATTCCATGAAATGTCTGT 57.689 37.500 9.13 2.25 44.81 3.41
3950 7449 6.719301 AGAGAGATTCCATGAAATGTCTGTT 58.281 36.000 9.13 0.00 44.81 3.16
3952 7451 8.492782 AGAGAGATTCCATGAAATGTCTGTTAT 58.507 33.333 9.13 0.00 44.81 1.89
3953 7452 8.447924 AGAGATTCCATGAAATGTCTGTTATG 57.552 34.615 3.39 0.00 44.81 1.90
3954 7453 8.270030 AGAGATTCCATGAAATGTCTGTTATGA 58.730 33.333 3.39 0.00 44.81 2.15
3955 7454 8.991783 AGATTCCATGAAATGTCTGTTATGAT 57.008 30.769 0.00 0.00 44.81 2.45
3983 7492 0.032540 AAGGAAAAAGCTTGCTGCCG 59.967 50.000 0.00 0.00 44.23 5.69
4052 7561 5.878116 AGTTCTACACAACTAAAGCACACAA 59.122 36.000 0.00 0.00 34.70 3.33
4053 7562 5.984233 TCTACACAACTAAAGCACACAAG 57.016 39.130 0.00 0.00 0.00 3.16
4054 7563 3.420839 ACACAACTAAAGCACACAAGC 57.579 42.857 0.00 0.00 0.00 4.01
4091 7600 7.874528 AGCATGGTCTAAGAAAATTTGGAAAAG 59.125 33.333 0.00 0.00 0.00 2.27
4148 7657 7.395772 TGGCATAAGAATGACCATCTTACAAAA 59.604 33.333 0.00 0.00 40.97 2.44
4149 7658 8.416329 GGCATAAGAATGACCATCTTACAAAAT 58.584 33.333 0.00 0.00 40.97 1.82
4150 7659 9.241317 GCATAAGAATGACCATCTTACAAAATG 57.759 33.333 0.00 0.00 40.97 2.32
4151 7660 9.241317 CATAAGAATGACCATCTTACAAAATGC 57.759 33.333 0.00 0.00 40.97 3.56
4152 7661 7.472334 AAGAATGACCATCTTACAAAATGCT 57.528 32.000 0.00 0.00 35.43 3.79
4153 7662 6.860080 AGAATGACCATCTTACAAAATGCTG 58.140 36.000 0.00 0.00 0.00 4.41
4154 7663 4.439305 TGACCATCTTACAAAATGCTGC 57.561 40.909 0.00 0.00 0.00 5.25
4155 7664 4.081406 TGACCATCTTACAAAATGCTGCT 58.919 39.130 0.00 0.00 0.00 4.24
4156 7665 5.252547 TGACCATCTTACAAAATGCTGCTA 58.747 37.500 0.00 0.00 0.00 3.49
4157 7666 5.355071 TGACCATCTTACAAAATGCTGCTAG 59.645 40.000 0.00 0.00 0.00 3.42
4159 7668 5.587844 ACCATCTTACAAAATGCTGCTAGAG 59.412 40.000 0.00 0.00 0.00 2.43
4169 7678 6.976636 AAATGCTGCTAGAGAACTTCTAAC 57.023 37.500 0.00 0.00 37.93 2.34
4179 7688 8.800031 GCTAGAGAACTTCTAACTTTTACATCG 58.200 37.037 0.00 0.00 37.93 3.84
4224 7734 3.855858 CTTCTCTCTTTCTTCGGGGAAG 58.144 50.000 0.00 0.00 40.65 3.46
4237 7747 3.343617 TCGGGGAAGCAGAGTTTTATTG 58.656 45.455 0.00 0.00 0.00 1.90
4241 7751 4.035675 GGGGAAGCAGAGTTTTATTGATCG 59.964 45.833 0.00 0.00 0.00 3.69
4254 7764 7.875041 AGTTTTATTGATCGATGGTGATCTAGG 59.125 37.037 0.54 0.00 44.12 3.02
4259 7769 5.821097 TGATCGATGGTGATCTAGGTCTAT 58.179 41.667 0.54 0.00 44.12 1.98
4278 7788 0.401738 TTCCAGGAGAGGCTTGGTTG 59.598 55.000 3.02 0.00 43.85 3.77
4379 7889 3.056393 TGAAAAGCTCAGCATTTCCCATG 60.056 43.478 21.54 0.00 42.93 3.66
4381 7891 3.370840 AAGCTCAGCATTTCCCATGTA 57.629 42.857 0.00 0.00 0.00 2.29
4384 7894 4.284178 AGCTCAGCATTTCCCATGTAAAT 58.716 39.130 0.00 0.00 0.00 1.40
4408 7918 9.480053 AATAACATGTCTGAAATCAAACAAAGG 57.520 29.630 0.00 0.00 0.00 3.11
4409 7919 6.469782 ACATGTCTGAAATCAAACAAAGGT 57.530 33.333 0.00 0.00 0.00 3.50
4410 7920 6.275335 ACATGTCTGAAATCAAACAAAGGTG 58.725 36.000 0.00 0.00 0.00 4.00
4411 7921 5.913137 TGTCTGAAATCAAACAAAGGTGT 57.087 34.783 0.00 0.00 40.75 4.16
4412 7922 5.649557 TGTCTGAAATCAAACAAAGGTGTG 58.350 37.500 0.00 0.00 38.27 3.82
4413 7923 5.417266 TGTCTGAAATCAAACAAAGGTGTGA 59.583 36.000 0.00 0.00 45.12 3.58
4414 7924 6.071672 TGTCTGAAATCAAACAAAGGTGTGAA 60.072 34.615 0.00 0.00 44.25 3.18
4415 7925 6.473455 GTCTGAAATCAAACAAAGGTGTGAAG 59.527 38.462 0.00 0.00 44.25 3.02
4416 7926 6.152661 TCTGAAATCAAACAAAGGTGTGAAGT 59.847 34.615 0.00 0.00 44.25 3.01
4417 7927 6.696411 TGAAATCAAACAAAGGTGTGAAGTT 58.304 32.000 0.00 0.00 44.25 2.66
4418 7928 7.158021 TGAAATCAAACAAAGGTGTGAAGTTT 58.842 30.769 0.00 0.00 44.25 2.66
4419 7929 6.966435 AATCAAACAAAGGTGTGAAGTTTG 57.034 33.333 9.37 9.37 44.25 2.93
4420 7930 4.815269 TCAAACAAAGGTGTGAAGTTTGG 58.185 39.130 14.09 0.11 45.38 3.28
4421 7931 4.524714 TCAAACAAAGGTGTGAAGTTTGGA 59.475 37.500 14.09 2.04 45.38 3.53
4422 7932 5.011125 TCAAACAAAGGTGTGAAGTTTGGAA 59.989 36.000 14.09 0.00 45.38 3.53
4423 7933 4.718940 ACAAAGGTGTGAAGTTTGGAAG 57.281 40.909 0.00 0.00 36.31 3.46
4424 7934 3.447229 ACAAAGGTGTGAAGTTTGGAAGG 59.553 43.478 0.00 0.00 36.31 3.46
4425 7935 2.364972 AGGTGTGAAGTTTGGAAGGG 57.635 50.000 0.00 0.00 0.00 3.95
4426 7936 0.673985 GGTGTGAAGTTTGGAAGGGC 59.326 55.000 0.00 0.00 0.00 5.19
4427 7937 0.310854 GTGTGAAGTTTGGAAGGGCG 59.689 55.000 0.00 0.00 0.00 6.13
4428 7938 0.181587 TGTGAAGTTTGGAAGGGCGA 59.818 50.000 0.00 0.00 0.00 5.54
4429 7939 0.875059 GTGAAGTTTGGAAGGGCGAG 59.125 55.000 0.00 0.00 0.00 5.03
4430 7940 0.762418 TGAAGTTTGGAAGGGCGAGA 59.238 50.000 0.00 0.00 0.00 4.04
4431 7941 1.142060 TGAAGTTTGGAAGGGCGAGAA 59.858 47.619 0.00 0.00 0.00 2.87
4432 7942 1.807142 GAAGTTTGGAAGGGCGAGAAG 59.193 52.381 0.00 0.00 0.00 2.85
4433 7943 0.036875 AGTTTGGAAGGGCGAGAAGG 59.963 55.000 0.00 0.00 0.00 3.46
4434 7944 0.036306 GTTTGGAAGGGCGAGAAGGA 59.964 55.000 0.00 0.00 0.00 3.36
4435 7945 0.768622 TTTGGAAGGGCGAGAAGGAA 59.231 50.000 0.00 0.00 0.00 3.36
4436 7946 0.991920 TTGGAAGGGCGAGAAGGAAT 59.008 50.000 0.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 7.625553 CAAGGAAAATAGCTAGATTCGTGAAG 58.374 38.462 13.87 6.92 0.00 3.02
23 24 1.132881 TGGGACTTGGGCAAGGAAAAT 60.133 47.619 0.00 0.00 42.53 1.82
27 28 2.840753 GGTGGGACTTGGGCAAGGA 61.841 63.158 0.00 0.00 42.53 3.36
32 33 1.303643 CAGAAGGTGGGACTTGGGC 60.304 63.158 0.00 0.00 0.00 5.36
56 57 0.544120 GAAGGGGTGAATTTGGGCCA 60.544 55.000 0.00 0.00 0.00 5.36
61 62 3.092301 GGAAGAGGAAGGGGTGAATTTG 58.908 50.000 0.00 0.00 0.00 2.32
90 91 6.847567 TGGTAGAAGATTTTAGGTGGCCTATA 59.152 38.462 3.32 0.00 35.87 1.31
95 96 4.585879 TGTGGTAGAAGATTTTAGGTGGC 58.414 43.478 0.00 0.00 0.00 5.01
101 102 7.211573 TCAACGACTTGTGGTAGAAGATTTTA 58.788 34.615 0.00 0.00 0.00 1.52
107 108 4.623167 CAGATCAACGACTTGTGGTAGAAG 59.377 45.833 0.00 0.00 0.00 2.85
128 129 1.737838 TAGAACGATGGCAAAGGCAG 58.262 50.000 0.00 0.00 42.43 4.85
142 143 9.092876 CAAGATTAGATCAGTGACCTTTAGAAC 57.907 37.037 0.00 0.00 0.00 3.01
160 161 3.139077 GGTTACCGCCATCCAAGATTAG 58.861 50.000 0.00 0.00 0.00 1.73
176 177 2.160205 GAGGCCACAAGAAAGGGTTAC 58.840 52.381 5.01 0.00 0.00 2.50
177 178 1.074889 GGAGGCCACAAGAAAGGGTTA 59.925 52.381 5.01 0.00 0.00 2.85
185 186 1.613630 GGAGAGGGAGGCCACAAGA 60.614 63.158 5.01 0.00 0.00 3.02
207 303 0.545787 TTAAGTTGGAGGAGGCGGGA 60.546 55.000 0.00 0.00 0.00 5.14
209 305 0.739813 CGTTAAGTTGGAGGAGGCGG 60.740 60.000 0.00 0.00 0.00 6.13
282 378 9.614792 ACCCAACATCATCTTACTCTTTAATAC 57.385 33.333 0.00 0.00 0.00 1.89
303 405 1.303236 CCGTGGCATCTTCACCCAA 60.303 57.895 0.00 0.00 0.00 4.12
307 409 2.159099 TCATCTACCGTGGCATCTTCAC 60.159 50.000 0.00 0.00 0.00 3.18
320 422 2.223525 CGGTTCGACTCCTTCATCTACC 60.224 54.545 4.63 0.00 0.00 3.18
340 444 1.316706 ACTCTTCCGCTCTCCTTCCG 61.317 60.000 0.00 0.00 0.00 4.30
345 449 5.203060 ACATATTTACTCTTCCGCTCTCC 57.797 43.478 0.00 0.00 0.00 3.71
383 488 5.088730 ACATCCCACAGTTGTTACCTACTA 58.911 41.667 0.00 0.00 0.00 1.82
419 525 3.929610 GTGGTAGAAGAAGAGTGTGCATC 59.070 47.826 0.00 0.00 0.00 3.91
439 545 4.181010 CGGGGAGGAGGGCATGTG 62.181 72.222 0.00 0.00 0.00 3.21
486 3851 7.713073 CAGAGTTAGGAGAAAGAACCATATTCC 59.287 40.741 0.00 0.00 0.00 3.01
511 3876 2.478292 GGAAAGTAGGAGGTGGGATCA 58.522 52.381 0.00 0.00 0.00 2.92
513 3878 1.894699 GGGAAAGTAGGAGGTGGGAT 58.105 55.000 0.00 0.00 0.00 3.85
555 3920 4.415332 GGTCGACGAGCGCCAGAA 62.415 66.667 11.74 0.00 40.61 3.02
603 3968 2.202892 GGCGACCAAGGATCGGAC 60.203 66.667 11.19 0.00 39.99 4.79
606 3971 4.143333 ACCGGCGACCAAGGATCG 62.143 66.667 9.30 0.00 42.55 3.69
613 3978 4.682334 TAGGGACACCGGCGACCA 62.682 66.667 9.30 0.00 43.47 4.02
666 4037 1.219935 CTAAGGGGTTTAGCGGCGT 59.780 57.895 9.37 0.00 32.89 5.68
717 4092 1.220749 CGATGACCCGGGTGACATT 59.779 57.895 36.01 7.93 0.00 2.71
747 4130 3.066760 GGAAAGATAAATGCCGTTGGAGG 59.933 47.826 0.00 0.00 0.00 4.30
808 4193 2.625790 TGTGGTGAAGTTTGTAATGGCC 59.374 45.455 0.00 0.00 0.00 5.36
811 4196 5.231991 GTGCTTTGTGGTGAAGTTTGTAATG 59.768 40.000 0.00 0.00 0.00 1.90
823 4208 1.609208 AAGGCTAGTGCTTTGTGGTG 58.391 50.000 0.00 0.00 37.11 4.17
960 4349 3.055385 CGATAGGGTGTTTTGGGAGAGAA 60.055 47.826 0.00 0.00 0.00 2.87
966 4355 1.035385 GGGCGATAGGGTGTTTTGGG 61.035 60.000 0.00 0.00 0.00 4.12
1113 4502 1.078918 GGGATTTTGCTGGGCTTGC 60.079 57.895 0.00 0.00 0.00 4.01
1117 4506 0.749049 GAGATGGGATTTTGCTGGGC 59.251 55.000 0.00 0.00 0.00 5.36
1144 4533 1.527370 CGGGAGTGGGAGGATTTCC 59.473 63.158 0.00 0.00 46.00 3.13
1158 4547 0.918983 AAGCTGATTCATTCCCGGGA 59.081 50.000 22.63 22.63 0.00 5.14
1164 4553 2.954989 GGAAGGGGAAGCTGATTCATTC 59.045 50.000 8.03 8.13 39.91 2.67
1240 4629 1.686325 GATGTTGCGGCTAGGAGGGA 61.686 60.000 0.00 0.00 0.00 4.20
1267 4656 4.560128 CAGATATACCACCACCTGAATCG 58.440 47.826 0.00 0.00 0.00 3.34
1276 4665 5.372363 ACAATCCAATCCAGATATACCACCA 59.628 40.000 0.00 0.00 0.00 4.17
1299 4688 7.326063 CGACAGGAACCAAGAAATAAATGAAAC 59.674 37.037 0.00 0.00 0.00 2.78
1443 4832 1.419381 TATCCGCTGCCATTACCTCA 58.581 50.000 0.00 0.00 0.00 3.86
1495 4890 4.632688 GCCGTGCCTTTATACTGTCTTTAA 59.367 41.667 0.00 0.00 0.00 1.52
1608 5006 8.764524 AATATGCTAGTAGTAGTTAATGCAGC 57.235 34.615 6.47 0.00 32.65 5.25
1645 5046 9.474920 CAGTTTGCACTCCATTAAAATTTTCTA 57.525 29.630 6.72 0.00 0.00 2.10
1648 5049 6.958255 GCAGTTTGCACTCCATTAAAATTTT 58.042 32.000 8.75 8.75 44.26 1.82
1666 5067 7.519970 CGACCTAAATAGAACACTTTGCAGTTT 60.520 37.037 0.00 0.00 0.00 2.66
1673 5074 8.148999 AGAGTTTCGACCTAAATAGAACACTTT 58.851 33.333 0.00 0.00 0.00 2.66
1726 5129 5.635280 AGAATCCACATTATCGCTGAATACG 59.365 40.000 0.00 0.00 0.00 3.06
1735 5138 6.851222 ACTGCTAAAGAATCCACATTATCG 57.149 37.500 0.00 0.00 0.00 2.92
1738 5141 7.067372 CCATGAACTGCTAAAGAATCCACATTA 59.933 37.037 0.00 0.00 0.00 1.90
1739 5142 6.127535 CCATGAACTGCTAAAGAATCCACATT 60.128 38.462 0.00 0.00 0.00 2.71
1741 5144 4.701651 CCATGAACTGCTAAAGAATCCACA 59.298 41.667 0.00 0.00 0.00 4.17
1742 5145 4.439289 GCCATGAACTGCTAAAGAATCCAC 60.439 45.833 0.00 0.00 0.00 4.02
1743 5146 3.696051 GCCATGAACTGCTAAAGAATCCA 59.304 43.478 0.00 0.00 0.00 3.41
1744 5147 3.067320 GGCCATGAACTGCTAAAGAATCC 59.933 47.826 0.00 0.00 0.00 3.01
1749 5152 2.019984 GGAGGCCATGAACTGCTAAAG 58.980 52.381 5.01 0.00 0.00 1.85
1854 5258 2.681848 AGCAAGCATACAGATTCACAGC 59.318 45.455 0.00 0.00 0.00 4.40
1877 5281 9.974980 ATGTAACACGACAAATTTTAAAGGAAT 57.025 25.926 0.00 0.00 31.83 3.01
1895 5299 3.185797 GGAACAGTCAACGGATGTAACAC 59.814 47.826 0.00 0.00 0.00 3.32
2016 5420 7.196331 GGTAGATAACATGCATGAAAGGAAAC 58.804 38.462 32.75 19.24 0.00 2.78
2041 5445 6.375455 ACTCCTGCATACAACTAAGATTTTGG 59.625 38.462 0.00 0.00 0.00 3.28
2042 5446 7.383102 ACTCCTGCATACAACTAAGATTTTG 57.617 36.000 0.00 0.00 0.00 2.44
2093 5504 2.286359 CCGACAATTCACACATATGGCG 60.286 50.000 7.80 0.02 42.00 5.69
2109 5520 4.126437 CAGGACAATATGCATAACCGACA 58.874 43.478 11.13 0.00 0.00 4.35
2124 5539 4.503910 CCACATAACGAGAATCAGGACAA 58.496 43.478 0.00 0.00 33.17 3.18
2127 5542 2.766263 AGCCACATAACGAGAATCAGGA 59.234 45.455 0.00 0.00 33.17 3.86
2143 5558 1.597742 TCTTCTGTCAGCAAAGCCAC 58.402 50.000 0.00 0.00 0.00 5.01
2210 5631 0.960364 CCACAGTAACCAGCCGCAAT 60.960 55.000 0.00 0.00 0.00 3.56
2213 5634 1.078426 ATCCACAGTAACCAGCCGC 60.078 57.895 0.00 0.00 0.00 6.53
2217 5638 3.329386 CAGTCACATCCACAGTAACCAG 58.671 50.000 0.00 0.00 0.00 4.00
2222 5643 3.762288 GAGTACCAGTCACATCCACAGTA 59.238 47.826 0.00 0.00 0.00 2.74
2486 5912 2.552315 GGAAAATGAGAAGGTCAACGCA 59.448 45.455 0.00 0.00 39.19 5.24
2498 5924 6.766944 AGCAATCAGATCACTAGGAAAATGAG 59.233 38.462 0.00 0.00 0.00 2.90
2544 5970 9.196552 TCAAATGTCTCATCATCGTAATCATAC 57.803 33.333 0.00 0.00 0.00 2.39
2571 5997 7.018826 CGGAATAAATTCGCTTGAACACTTTA 58.981 34.615 0.00 0.00 37.67 1.85
2622 6048 1.340889 GGCTGTGCATCAGGAAAAACA 59.659 47.619 15.16 0.00 43.78 2.83
2625 6051 0.112995 AGGGCTGTGCATCAGGAAAA 59.887 50.000 15.16 0.00 43.78 2.29
2664 6090 3.701664 GATTCCAACTGTGATCCCCTTT 58.298 45.455 0.00 0.00 0.00 3.11
2670 6096 2.349886 GCTGACGATTCCAACTGTGATC 59.650 50.000 0.00 0.00 0.00 2.92
2682 6108 2.105006 ACTCTGCATTGCTGACGATT 57.895 45.000 13.50 0.00 33.27 3.34
2706 6132 3.686726 CAGGCAAGATGACCTCTTTGTAC 59.313 47.826 0.00 0.00 41.60 2.90
2765 6191 2.223572 GGCTGAAAAGGTTGTGACTGTG 60.224 50.000 0.00 0.00 0.00 3.66
2790 6216 4.153117 GGCGACTGCTTTTATAGGATGATG 59.847 45.833 0.00 0.00 42.25 3.07
2791 6217 4.040952 AGGCGACTGCTTTTATAGGATGAT 59.959 41.667 0.00 0.00 41.13 2.45
2811 6237 3.012518 ACAACTAAGACATGCATCAGGC 58.987 45.455 0.00 0.00 45.13 4.85
2846 6272 1.913762 CACCCCGAAGTCCCACTCT 60.914 63.158 0.00 0.00 0.00 3.24
2882 6308 1.124780 TTGGGTCAGGTTTCTCGACA 58.875 50.000 0.00 0.00 0.00 4.35
3101 6527 1.303888 CTTGGTGAGCCATGCCTGT 60.304 57.895 0.00 0.00 45.56 4.00
3208 6635 0.312102 GCAAGAGCACAACAGGAACC 59.688 55.000 0.00 0.00 41.58 3.62
3267 6694 0.606401 AACTGGCCAGTGAACCATCG 60.606 55.000 38.35 9.62 41.58 3.84
3327 6754 1.019673 CAGCAGTCAACAACAGCACT 58.980 50.000 0.00 0.00 42.50 4.40
3337 6764 0.178995 TGGCCACATTCAGCAGTCAA 60.179 50.000 0.00 0.00 0.00 3.18
3355 6782 1.133253 CGCACGGCTGAATCACTTG 59.867 57.895 0.00 0.00 0.00 3.16
3376 6803 8.246180 AGAATTATTCGTCATTGCAAGATGTTT 58.754 29.630 4.94 3.84 34.02 2.83
3425 6852 6.968904 ACACGATGCAGAATCATGTTAAATTC 59.031 34.615 0.00 0.00 38.53 2.17
3448 6875 4.343814 TCGCAATCCTATCAACCTCATACA 59.656 41.667 0.00 0.00 0.00 2.29
3480 6907 8.428063 ACATTCATGTTGGGAGTTTGAAAATAA 58.572 29.630 0.00 0.00 37.90 1.40
3487 6914 4.852134 TCACATTCATGTTGGGAGTTTG 57.148 40.909 0.00 0.00 39.39 2.93
3498 6925 6.613755 TTGTGCTGAGATATCACATTCATG 57.386 37.500 5.32 0.00 40.00 3.07
3519 6946 3.987404 GCCCACACAGTAGGCTTG 58.013 61.111 0.00 0.00 43.62 4.01
3585 7073 3.245519 GGCCTTTAGCGAATCTTTACTCG 59.754 47.826 0.00 0.00 45.17 4.18
3597 7085 1.363744 CACTGAAGAGGCCTTTAGCG 58.636 55.000 6.77 0.00 45.17 4.26
3607 7102 0.879765 CTGGCAAAGGCACTGAAGAG 59.120 55.000 0.00 0.00 40.86 2.85
3608 7103 0.183492 ACTGGCAAAGGCACTGAAGA 59.817 50.000 0.00 0.00 40.86 2.87
3617 7112 2.712057 GTGATTGACACTGGCAAAGG 57.288 50.000 0.18 0.00 45.13 3.11
3767 7264 9.257651 ACTATTATCTACAAACCAAATACTCGC 57.742 33.333 0.00 0.00 0.00 5.03
3798 7295 4.657436 AAGGCGGAGAATACTTAGACAG 57.343 45.455 0.00 0.00 0.00 3.51
3803 7300 4.460948 AACGAAAGGCGGAGAATACTTA 57.539 40.909 0.00 0.00 46.49 2.24
3836 7333 4.713824 ATTGATCTTGCCACAACAGATG 57.286 40.909 0.00 0.00 0.00 2.90
3841 7338 3.737266 CACACAATTGATCTTGCCACAAC 59.263 43.478 13.59 0.00 0.00 3.32
3854 7351 4.786507 CACACTACACATCCACACAATTG 58.213 43.478 3.24 3.24 0.00 2.32
3855 7352 3.253188 GCACACTACACATCCACACAATT 59.747 43.478 0.00 0.00 0.00 2.32
3857 7354 2.217750 GCACACTACACATCCACACAA 58.782 47.619 0.00 0.00 0.00 3.33
3860 7357 2.857186 ATGCACACTACACATCCACA 57.143 45.000 0.00 0.00 0.00 4.17
3861 7358 2.420022 GGAATGCACACTACACATCCAC 59.580 50.000 0.00 0.00 0.00 4.02
3888 7385 5.125417 GGACAATTAGCAGCACTGGAAATTA 59.875 40.000 0.00 0.00 0.00 1.40
3914 7412 3.704061 GGAATCTCTCTACTCAGCAACCT 59.296 47.826 0.00 0.00 0.00 3.50
3923 7421 7.125507 ACAGACATTTCATGGAATCTCTCTACT 59.874 37.037 1.69 0.00 33.60 2.57
3952 7451 9.369904 GCAAGCTTTTTCCTTTGATATTTATCA 57.630 29.630 0.00 0.00 40.69 2.15
3953 7452 9.591792 AGCAAGCTTTTTCCTTTGATATTTATC 57.408 29.630 0.00 0.00 0.00 1.75
3954 7453 9.374838 CAGCAAGCTTTTTCCTTTGATATTTAT 57.625 29.630 0.00 0.00 0.00 1.40
3955 7454 7.331687 GCAGCAAGCTTTTTCCTTTGATATTTA 59.668 33.333 0.00 0.00 41.15 1.40
3983 7492 0.445436 CCGTTGTCTCTCAGCATTGC 59.555 55.000 0.00 0.00 0.00 3.56
3989 7498 2.049156 TGCGCCGTTGTCTCTCAG 60.049 61.111 4.18 0.00 0.00 3.35
4012 7521 3.944087 AGAACTAGAAGGAAATGCGCTT 58.056 40.909 9.73 0.00 0.00 4.68
4013 7522 3.618690 AGAACTAGAAGGAAATGCGCT 57.381 42.857 9.73 0.00 0.00 5.92
4052 7561 2.184830 CATGCTATGCAGTGGCGCT 61.185 57.895 7.64 0.00 43.65 5.92
4053 7562 2.330393 CATGCTATGCAGTGGCGC 59.670 61.111 0.00 0.00 43.65 6.53
4054 7563 1.779025 GACCATGCTATGCAGTGGCG 61.779 60.000 15.56 0.00 43.65 5.69
4113 7622 6.608405 TGGTCATTCTTATGCCATCATTTCTT 59.392 34.615 0.00 0.00 34.88 2.52
4114 7623 6.131264 TGGTCATTCTTATGCCATCATTTCT 58.869 36.000 0.00 0.00 34.88 2.52
4115 7624 6.395426 TGGTCATTCTTATGCCATCATTTC 57.605 37.500 0.00 0.00 34.88 2.17
4128 7637 7.318141 CAGCATTTTGTAAGATGGTCATTCTT 58.682 34.615 0.00 0.00 32.13 2.52
4148 7657 5.930837 AGTTAGAAGTTCTCTAGCAGCAT 57.069 39.130 9.12 0.00 39.64 3.79
4149 7658 5.730296 AAGTTAGAAGTTCTCTAGCAGCA 57.270 39.130 9.12 0.00 39.64 4.41
4150 7659 7.599245 TGTAAAAGTTAGAAGTTCTCTAGCAGC 59.401 37.037 9.12 0.00 39.64 5.25
4151 7660 9.646427 ATGTAAAAGTTAGAAGTTCTCTAGCAG 57.354 33.333 9.12 0.00 39.64 4.24
4152 7661 9.640963 GATGTAAAAGTTAGAAGTTCTCTAGCA 57.359 33.333 9.12 0.22 39.64 3.49
4153 7662 8.800031 CGATGTAAAAGTTAGAAGTTCTCTAGC 58.200 37.037 9.12 0.00 37.93 3.42
4154 7663 9.291664 CCGATGTAAAAGTTAGAAGTTCTCTAG 57.708 37.037 9.12 0.00 37.93 2.43
4155 7664 7.758528 GCCGATGTAAAAGTTAGAAGTTCTCTA 59.241 37.037 9.12 0.00 35.41 2.43
4156 7665 6.590677 GCCGATGTAAAAGTTAGAAGTTCTCT 59.409 38.462 9.12 0.00 38.28 3.10
4157 7666 6.453922 CGCCGATGTAAAAGTTAGAAGTTCTC 60.454 42.308 9.12 0.00 0.00 2.87
4159 7668 5.548250 CGCCGATGTAAAAGTTAGAAGTTC 58.452 41.667 0.00 0.00 0.00 3.01
4169 7678 0.519519 TTGTGGCGCCGATGTAAAAG 59.480 50.000 23.90 0.00 0.00 2.27
4191 7700 7.301868 AGAAAGAGAGAAGCATATCCCTAAG 57.698 40.000 0.00 0.00 0.00 2.18
4192 7701 7.470702 CGAAGAAAGAGAGAAGCATATCCCTAA 60.471 40.741 0.00 0.00 0.00 2.69
4193 7702 6.015856 CGAAGAAAGAGAGAAGCATATCCCTA 60.016 42.308 0.00 0.00 0.00 3.53
4194 7703 5.221422 CGAAGAAAGAGAGAAGCATATCCCT 60.221 44.000 0.00 0.00 0.00 4.20
4195 7704 4.987912 CGAAGAAAGAGAGAAGCATATCCC 59.012 45.833 0.00 0.00 0.00 3.85
4198 7707 4.202305 CCCCGAAGAAAGAGAGAAGCATAT 60.202 45.833 0.00 0.00 0.00 1.78
4199 7708 3.133003 CCCCGAAGAAAGAGAGAAGCATA 59.867 47.826 0.00 0.00 0.00 3.14
4224 7734 5.294306 TCACCATCGATCAATAAAACTCTGC 59.706 40.000 0.00 0.00 0.00 4.26
4237 7747 6.183360 GGAATAGACCTAGATCACCATCGATC 60.183 46.154 0.00 0.00 41.85 3.69
4241 7751 5.186797 CCTGGAATAGACCTAGATCACCATC 59.813 48.000 0.00 0.00 0.00 3.51
4254 7764 2.103941 CCAAGCCTCTCCTGGAATAGAC 59.896 54.545 0.00 0.00 0.00 2.59
4259 7769 0.401738 CAACCAAGCCTCTCCTGGAA 59.598 55.000 0.00 0.00 0.00 3.53
4339 7849 5.682234 TTTCACCTTGCTCATCTCTCATA 57.318 39.130 0.00 0.00 0.00 2.15
4384 7894 7.920151 CACCTTTGTTTGATTTCAGACATGTTA 59.080 33.333 0.00 0.00 40.08 2.41
4390 7900 5.890334 TCACACCTTTGTTTGATTTCAGAC 58.110 37.500 0.00 0.00 31.66 3.51
4391 7901 6.152661 ACTTCACACCTTTGTTTGATTTCAGA 59.847 34.615 0.00 0.00 31.59 3.27
4392 7902 6.332630 ACTTCACACCTTTGTTTGATTTCAG 58.667 36.000 0.00 0.00 31.59 3.02
4393 7903 6.279513 ACTTCACACCTTTGTTTGATTTCA 57.720 33.333 0.00 0.00 31.59 2.69
4394 7904 7.412891 CCAAACTTCACACCTTTGTTTGATTTC 60.413 37.037 15.55 0.00 45.75 2.17
4395 7905 6.371271 CCAAACTTCACACCTTTGTTTGATTT 59.629 34.615 15.55 0.00 45.75 2.17
4396 7906 5.874261 CCAAACTTCACACCTTTGTTTGATT 59.126 36.000 15.55 0.00 45.75 2.57
4397 7907 5.186797 TCCAAACTTCACACCTTTGTTTGAT 59.813 36.000 15.55 0.00 45.75 2.57
4398 7908 4.524714 TCCAAACTTCACACCTTTGTTTGA 59.475 37.500 15.55 3.05 45.75 2.69
4399 7909 4.815269 TCCAAACTTCACACCTTTGTTTG 58.185 39.130 0.00 0.00 43.83 2.93
4400 7910 5.476091 TTCCAAACTTCACACCTTTGTTT 57.524 34.783 0.00 0.00 31.66 2.83
4401 7911 4.081697 CCTTCCAAACTTCACACCTTTGTT 60.082 41.667 0.00 0.00 31.66 2.83
4402 7912 3.447229 CCTTCCAAACTTCACACCTTTGT 59.553 43.478 0.00 0.00 35.84 2.83
4403 7913 3.181476 CCCTTCCAAACTTCACACCTTTG 60.181 47.826 0.00 0.00 0.00 2.77
4404 7914 3.031013 CCCTTCCAAACTTCACACCTTT 58.969 45.455 0.00 0.00 0.00 3.11
4405 7915 2.666317 CCCTTCCAAACTTCACACCTT 58.334 47.619 0.00 0.00 0.00 3.50
4406 7916 1.754201 GCCCTTCCAAACTTCACACCT 60.754 52.381 0.00 0.00 0.00 4.00
4407 7917 0.673985 GCCCTTCCAAACTTCACACC 59.326 55.000 0.00 0.00 0.00 4.16
4408 7918 0.310854 CGCCCTTCCAAACTTCACAC 59.689 55.000 0.00 0.00 0.00 3.82
4409 7919 0.181587 TCGCCCTTCCAAACTTCACA 59.818 50.000 0.00 0.00 0.00 3.58
4410 7920 0.875059 CTCGCCCTTCCAAACTTCAC 59.125 55.000 0.00 0.00 0.00 3.18
4411 7921 0.762418 TCTCGCCCTTCCAAACTTCA 59.238 50.000 0.00 0.00 0.00 3.02
4412 7922 1.807142 CTTCTCGCCCTTCCAAACTTC 59.193 52.381 0.00 0.00 0.00 3.01
4413 7923 1.545651 CCTTCTCGCCCTTCCAAACTT 60.546 52.381 0.00 0.00 0.00 2.66
4414 7924 0.036875 CCTTCTCGCCCTTCCAAACT 59.963 55.000 0.00 0.00 0.00 2.66
4415 7925 0.036306 TCCTTCTCGCCCTTCCAAAC 59.964 55.000 0.00 0.00 0.00 2.93
4416 7926 0.768622 TTCCTTCTCGCCCTTCCAAA 59.231 50.000 0.00 0.00 0.00 3.28
4417 7927 0.991920 ATTCCTTCTCGCCCTTCCAA 59.008 50.000 0.00 0.00 0.00 3.53
4418 7928 2.696864 ATTCCTTCTCGCCCTTCCA 58.303 52.632 0.00 0.00 0.00 3.53


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.