Multiple sequence alignment - TraesCS6B01G084300

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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 TraesCS6B01G084300 chr6B 100.000 2312 0 0 1 2312 61489505 61491816 0.000000e+00 4270.0
1 TraesCS6B01G084300 chr6B 84.283 948 93 25 791 1715 59588527 59587613 0.000000e+00 874.0
2 TraesCS6B01G084300 chr6B 88.468 633 59 10 734 1359 58320000 58319375 0.000000e+00 752.0
3 TraesCS6B01G084300 chr6B 86.421 707 55 17 791 1477 58807793 58807108 0.000000e+00 736.0
4 TraesCS6B01G084300 chr6B 83.038 790 97 23 729 1504 78151555 78150789 0.000000e+00 682.0
5 TraesCS6B01G084300 chr6B 80.715 783 117 27 729 1504 77958153 77957398 1.540000e-161 579.0
6 TraesCS6B01G084300 chr6B 78.058 278 43 13 1776 2047 58315195 58314930 2.380000e-35 159.0
7 TraesCS6B01G084300 chr6B 78.058 278 43 12 1776 2047 58316973 58316708 2.380000e-35 159.0
8 TraesCS6B01G084300 chr6D 89.542 1004 69 19 672 1667 28708402 28707427 0.000000e+00 1240.0
9 TraesCS6B01G084300 chr6D 94.147 598 29 4 1 596 28708990 28708397 0.000000e+00 905.0
10 TraesCS6B01G084300 chr6D 86.515 749 69 17 730 1471 29384560 29385283 0.000000e+00 795.0
11 TraesCS6B01G084300 chr6D 85.176 398 45 8 1775 2169 28707215 28706829 1.660000e-106 396.0
12 TraesCS6B01G084300 chr6D 81.944 144 16 4 1990 2126 28991636 28991496 1.880000e-21 113.0
13 TraesCS6B01G084300 chr6D 92.857 56 1 2 1718 1773 28707306 28707254 6.850000e-11 78.7
14 TraesCS6B01G084300 chr6A 87.472 894 60 31 761 1646 33008830 33007981 0.000000e+00 983.0
15 TraesCS6B01G084300 chr6A 86.699 827 70 25 690 1513 33948970 33949759 0.000000e+00 881.0
16 TraesCS6B01G084300 chr6A 85.130 269 25 8 1786 2047 33950186 33950446 6.340000e-66 261.0
17 TraesCS6B01G084300 chrUn 87.363 546 48 14 789 1330 27335136 27335664 7.060000e-170 606.0
18 TraesCS6B01G084300 chr2D 86.301 73 8 2 2187 2258 589699254 589699183 6.850000e-11 78.7
19 TraesCS6B01G084300 chr3A 92.157 51 4 0 592 642 100344029 100344079 3.190000e-09 73.1
20 TraesCS6B01G084300 chr2A 81.395 86 12 3 592 674 8755193 8755277 1.480000e-07 67.6


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 TraesCS6B01G084300 chr6B 61489505 61491816 2311 False 4270.000000 4270 100.0000 1 2312 1 chr6B.!!$F1 2311
1 TraesCS6B01G084300 chr6B 59587613 59588527 914 True 874.000000 874 84.2830 791 1715 1 chr6B.!!$R2 924
2 TraesCS6B01G084300 chr6B 58807108 58807793 685 True 736.000000 736 86.4210 791 1477 1 chr6B.!!$R1 686
3 TraesCS6B01G084300 chr6B 78150789 78151555 766 True 682.000000 682 83.0380 729 1504 1 chr6B.!!$R4 775
4 TraesCS6B01G084300 chr6B 77957398 77958153 755 True 579.000000 579 80.7150 729 1504 1 chr6B.!!$R3 775
5 TraesCS6B01G084300 chr6B 58314930 58320000 5070 True 356.666667 752 81.5280 734 2047 3 chr6B.!!$R5 1313
6 TraesCS6B01G084300 chr6D 29384560 29385283 723 False 795.000000 795 86.5150 730 1471 1 chr6D.!!$F1 741
7 TraesCS6B01G084300 chr6D 28706829 28708990 2161 True 654.925000 1240 90.4305 1 2169 4 chr6D.!!$R2 2168
8 TraesCS6B01G084300 chr6A 33007981 33008830 849 True 983.000000 983 87.4720 761 1646 1 chr6A.!!$R1 885
9 TraesCS6B01G084300 chr6A 33948970 33950446 1476 False 571.000000 881 85.9145 690 2047 2 chr6A.!!$F1 1357
10 TraesCS6B01G084300 chrUn 27335136 27335664 528 False 606.000000 606 87.3630 789 1330 1 chrUn.!!$F1 541

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
752 761 0.239347 CTCGCTTGGAACCAGCAAAG 59.761 55.0 12.77 2.31 0.0 2.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1657 1759 0.099791 CGCCGCCGGTTATGAATTTT 59.9 50.0 4.45 0.0 0.0 1.82 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
29 30 4.098416 GCAATTTGGAAGAGTCGTAATGC 58.902 43.478 0.00 0.00 0.00 3.56
67 68 7.609532 AGCATAAAATCTACAAGGATCCTATGC 59.390 37.037 22.69 22.69 41.00 3.14
119 120 3.592059 TGGCGTGGTCTATTTTGTAGAC 58.408 45.455 6.66 6.66 42.28 2.59
165 166 2.165998 GAGCTGGGATCAAAGTTGCTT 58.834 47.619 0.00 0.00 0.00 3.91
175 176 4.789095 TCAAAGTTGCTTGAACGAGTAC 57.211 40.909 0.00 0.00 39.80 2.73
216 217 1.056660 CGCAGGGGTGGAGGTATAAT 58.943 55.000 0.00 0.00 0.00 1.28
246 247 5.048364 GCGACTAGAAGACTGATGGATATGT 60.048 44.000 0.00 0.00 0.00 2.29
260 261 2.423373 GGATATGTGTGGTGGCATCCTT 60.423 50.000 0.00 0.00 31.23 3.36
377 378 3.038788 TGTGTGTCGTTGTAGCATGAT 57.961 42.857 0.00 0.00 0.00 2.45
381 382 3.431912 TGTGTCGTTGTAGCATGATTGTC 59.568 43.478 0.00 0.00 0.00 3.18
385 386 3.743911 TCGTTGTAGCATGATTGTCGTTT 59.256 39.130 0.00 0.00 0.00 3.60
388 389 5.164292 CGTTGTAGCATGATTGTCGTTTTTG 60.164 40.000 0.00 0.00 0.00 2.44
392 393 4.681744 AGCATGATTGTCGTTTTTGTTGT 58.318 34.783 0.00 0.00 0.00 3.32
399 400 2.557056 TGTCGTTTTTGTTGTGGGTGAA 59.443 40.909 0.00 0.00 0.00 3.18
404 405 5.348997 TCGTTTTTGTTGTGGGTGAAATTTC 59.651 36.000 11.41 11.41 0.00 2.17
405 406 5.350091 CGTTTTTGTTGTGGGTGAAATTTCT 59.650 36.000 18.64 0.00 0.00 2.52
406 407 6.454981 CGTTTTTGTTGTGGGTGAAATTTCTC 60.455 38.462 18.64 14.74 0.00 2.87
448 449 1.491670 CTAGCTATGATGCGTTGCGT 58.508 50.000 0.00 0.00 38.13 5.24
449 450 1.190984 CTAGCTATGATGCGTTGCGTG 59.809 52.381 0.00 0.00 38.13 5.34
488 489 5.360999 GCTTTTGGGCCTTCTATCTTTGTAT 59.639 40.000 4.53 0.00 0.00 2.29
489 490 6.546034 GCTTTTGGGCCTTCTATCTTTGTATA 59.454 38.462 4.53 0.00 0.00 1.47
523 524 4.705337 TTCGTAGTTTGCTGTTGGTTTT 57.295 36.364 0.00 0.00 0.00 2.43
524 525 4.705337 TCGTAGTTTGCTGTTGGTTTTT 57.295 36.364 0.00 0.00 0.00 1.94
527 528 5.099575 CGTAGTTTGCTGTTGGTTTTTCTT 58.900 37.500 0.00 0.00 0.00 2.52
543 544 7.291182 TGGTTTTTCTTAATGGAAATTGGAGGA 59.709 33.333 0.00 0.00 35.51 3.71
589 592 6.476243 AATAAAGGTGTGATCGTGTTACAC 57.524 37.500 5.27 5.27 44.25 2.90
602 605 4.234530 GTGTTACACGTACTTCCTCTGT 57.765 45.455 0.00 0.00 0.00 3.41
603 606 5.362556 GTGTTACACGTACTTCCTCTGTA 57.637 43.478 0.00 0.00 0.00 2.74
604 607 5.762045 GTGTTACACGTACTTCCTCTGTAA 58.238 41.667 0.00 0.00 0.00 2.41
605 608 6.208644 GTGTTACACGTACTTCCTCTGTAAA 58.791 40.000 0.00 0.00 31.00 2.01
606 609 6.361748 GTGTTACACGTACTTCCTCTGTAAAG 59.638 42.308 0.00 0.00 31.00 1.85
607 610 6.039717 TGTTACACGTACTTCCTCTGTAAAGT 59.960 38.462 0.00 0.00 39.07 2.66
608 611 7.228507 TGTTACACGTACTTCCTCTGTAAAGTA 59.771 37.037 0.00 0.00 37.02 2.24
609 612 6.639632 ACACGTACTTCCTCTGTAAAGTAA 57.360 37.500 0.00 0.00 39.11 2.24
610 613 7.224522 ACACGTACTTCCTCTGTAAAGTAAT 57.775 36.000 0.00 0.00 39.11 1.89
611 614 8.340618 ACACGTACTTCCTCTGTAAAGTAATA 57.659 34.615 0.00 0.00 39.11 0.98
612 615 8.964772 ACACGTACTTCCTCTGTAAAGTAATAT 58.035 33.333 0.00 0.00 39.11 1.28
688 691 4.759782 AGAGAGTAATTCCATCCGTTGTG 58.240 43.478 0.00 0.00 0.00 3.33
711 715 3.181178 GTGTACTCAAGTTTCGAACGGAC 59.819 47.826 0.00 0.00 36.23 4.79
746 755 0.960364 GAATGGCTCGCTTGGAACCA 60.960 55.000 0.00 0.00 44.69 3.67
752 761 0.239347 CTCGCTTGGAACCAGCAAAG 59.761 55.000 12.77 2.31 0.00 2.77
771 783 2.318908 AGTCCAAAATTTGAGCTGCCA 58.681 42.857 7.37 0.00 0.00 4.92
811 823 2.254546 AATTTGAGAGCCACGTCACA 57.745 45.000 0.00 0.00 0.00 3.58
921 943 1.692749 CCCCCTTCGATTCCTCCCA 60.693 63.158 0.00 0.00 0.00 4.37
922 944 1.279025 CCCCCTTCGATTCCTCCCAA 61.279 60.000 0.00 0.00 0.00 4.12
923 945 0.623723 CCCCTTCGATTCCTCCCAAA 59.376 55.000 0.00 0.00 0.00 3.28
924 946 1.215423 CCCCTTCGATTCCTCCCAAAT 59.785 52.381 0.00 0.00 0.00 2.32
963 988 3.625897 CACCACCACCGCTCCTCA 61.626 66.667 0.00 0.00 0.00 3.86
1167 1204 0.835276 TCATCTACGAGGAGACCCGA 59.165 55.000 0.00 0.00 37.58 5.14
1359 1401 0.810823 GACTCTGCTGGATGCTGCTC 60.811 60.000 16.59 2.84 43.37 4.26
1374 1419 0.243907 TGCTCCTGTTCTCGTGCTAC 59.756 55.000 0.00 0.00 0.00 3.58
1396 1445 1.591158 GTTTCGTTTCTGAGTGCGTGA 59.409 47.619 0.00 0.00 0.00 4.35
1401 1454 1.261619 GTTTCTGAGTGCGTGAGTTGG 59.738 52.381 0.00 0.00 0.00 3.77
1407 1460 0.178068 AGTGCGTGAGTTGGTGTTCT 59.822 50.000 0.00 0.00 0.00 3.01
1422 1475 2.034305 GTGTTCTGTCGGTCTGTGTAGT 59.966 50.000 0.00 0.00 0.00 2.73
1423 1476 2.292569 TGTTCTGTCGGTCTGTGTAGTC 59.707 50.000 0.00 0.00 0.00 2.59
1425 1478 2.152016 TCTGTCGGTCTGTGTAGTCTG 58.848 52.381 0.00 0.00 0.00 3.51
1426 1479 1.880675 CTGTCGGTCTGTGTAGTCTGT 59.119 52.381 0.00 0.00 0.00 3.41
1428 1481 0.596577 TCGGTCTGTGTAGTCTGTGC 59.403 55.000 0.00 0.00 0.00 4.57
1429 1482 0.388649 CGGTCTGTGTAGTCTGTGCC 60.389 60.000 0.00 0.00 0.00 5.01
1432 1485 2.224305 GGTCTGTGTAGTCTGTGCCTTT 60.224 50.000 0.00 0.00 0.00 3.11
1447 1501 2.183409 CTTTGTGGAAGGCGATGGG 58.817 57.895 0.00 0.00 0.00 4.00
1499 1569 5.636121 TGCAAGAAATGAATCTGAATGCAAC 59.364 36.000 0.00 0.00 37.61 4.17
1505 1602 4.844998 TGAATCTGAATGCAACGGAAAA 57.155 36.364 9.29 0.00 0.00 2.29
1506 1603 5.193663 TGAATCTGAATGCAACGGAAAAA 57.806 34.783 9.29 0.00 0.00 1.94
1507 1604 5.782047 TGAATCTGAATGCAACGGAAAAAT 58.218 33.333 9.29 0.00 0.00 1.82
1508 1605 6.222389 TGAATCTGAATGCAACGGAAAAATT 58.778 32.000 9.29 1.13 0.00 1.82
1509 1606 6.145858 TGAATCTGAATGCAACGGAAAAATTG 59.854 34.615 9.29 0.00 0.00 2.32
1510 1607 4.942852 TCTGAATGCAACGGAAAAATTGT 58.057 34.783 0.00 0.00 0.00 2.71
1511 1608 6.078202 TCTGAATGCAACGGAAAAATTGTA 57.922 33.333 0.00 0.00 0.00 2.41
1512 1609 5.918011 TCTGAATGCAACGGAAAAATTGTAC 59.082 36.000 0.00 0.00 0.00 2.90
1513 1610 5.837437 TGAATGCAACGGAAAAATTGTACT 58.163 33.333 0.00 0.00 0.00 2.73
1514 1611 5.689514 TGAATGCAACGGAAAAATTGTACTG 59.310 36.000 0.00 0.00 0.00 2.74
1515 1612 3.376540 TGCAACGGAAAAATTGTACTGC 58.623 40.909 0.00 0.00 0.00 4.40
1516 1613 3.181486 TGCAACGGAAAAATTGTACTGCA 60.181 39.130 0.00 0.00 35.08 4.41
1517 1614 3.987220 GCAACGGAAAAATTGTACTGCAT 59.013 39.130 0.00 0.00 0.00 3.96
1518 1615 4.089923 GCAACGGAAAAATTGTACTGCATC 59.910 41.667 0.00 0.00 0.00 3.91
1519 1616 5.460646 CAACGGAAAAATTGTACTGCATCT 58.539 37.500 0.00 0.00 0.00 2.90
1520 1617 5.296813 ACGGAAAAATTGTACTGCATCTC 57.703 39.130 0.00 0.00 0.00 2.75
1521 1618 5.003804 ACGGAAAAATTGTACTGCATCTCT 58.996 37.500 0.00 0.00 0.00 3.10
1522 1619 5.122396 ACGGAAAAATTGTACTGCATCTCTC 59.878 40.000 0.00 0.00 0.00 3.20
1523 1620 5.563842 GGAAAAATTGTACTGCATCTCTCG 58.436 41.667 0.00 0.00 0.00 4.04
1524 1621 5.351465 GGAAAAATTGTACTGCATCTCTCGA 59.649 40.000 0.00 0.00 0.00 4.04
1525 1622 6.128282 GGAAAAATTGTACTGCATCTCTCGAA 60.128 38.462 0.00 0.00 0.00 3.71
1526 1623 6.992063 AAAATTGTACTGCATCTCTCGAAT 57.008 33.333 0.00 0.00 0.00 3.34
1527 1624 6.595772 AAATTGTACTGCATCTCTCGAATC 57.404 37.500 0.00 0.00 0.00 2.52
1528 1625 4.991153 TTGTACTGCATCTCTCGAATCT 57.009 40.909 0.00 0.00 0.00 2.40
1529 1626 4.560136 TGTACTGCATCTCTCGAATCTC 57.440 45.455 0.00 0.00 0.00 2.75
1530 1627 2.772568 ACTGCATCTCTCGAATCTCG 57.227 50.000 0.00 0.00 42.10 4.04
1566 1663 3.585289 TCCTGGCTTGTTCCTGTACATTA 59.415 43.478 0.00 0.00 0.00 1.90
1590 1687 4.489679 AAATTTCTCAGCAAGAACGTCC 57.510 40.909 1.38 0.00 43.75 4.79
1597 1694 1.399440 CAGCAAGAACGTCCATGATGG 59.601 52.381 4.74 4.74 39.43 3.51
1621 1718 6.695713 GGCTCTTTCAGTAATTTTCGTTTTGT 59.304 34.615 0.00 0.00 0.00 2.83
1649 1751 3.072768 TGCTGAATGGGCTCCAAAATTTT 59.927 39.130 0.00 0.00 36.95 1.82
1650 1752 4.074259 GCTGAATGGGCTCCAAAATTTTT 58.926 39.130 0.00 0.00 36.95 1.94
1655 1757 2.975489 TGGGCTCCAAAATTTTTGCCTA 59.025 40.909 25.54 21.13 40.15 3.93
1657 1759 4.141390 TGGGCTCCAAAATTTTTGCCTAAA 60.141 37.500 25.54 15.72 40.15 1.85
1714 2044 0.035056 AAAGGAGTCGGGGATTGCAG 60.035 55.000 0.00 0.00 0.00 4.41
1715 2045 1.915078 AAGGAGTCGGGGATTGCAGG 61.915 60.000 0.00 0.00 0.00 4.85
1764 2095 3.815856 AGATATGTGCCACTGTCTCTG 57.184 47.619 0.00 0.00 0.00 3.35
1773 2104 2.036475 GCCACTGTCTCTGTCTGAAGAA 59.964 50.000 0.00 0.00 0.00 2.52
1803 2176 7.512130 TGTTATCTCTGATGCCTTGATGTATT 58.488 34.615 0.00 0.00 0.00 1.89
1850 4221 2.553602 TCAGTACTACTTTTCGGCGTCA 59.446 45.455 6.85 0.00 0.00 4.35
1854 4225 3.314541 ACTACTTTTCGGCGTCAGAAT 57.685 42.857 6.85 0.00 0.00 2.40
1859 4230 0.602638 TTTCGGCGTCAGAATGCTGT 60.603 50.000 6.85 0.00 43.21 4.40
1860 4231 1.291184 TTCGGCGTCAGAATGCTGTG 61.291 55.000 6.85 0.00 43.21 3.66
1925 6076 3.810310 GAGTGATCCTCCTGTTAGTGG 57.190 52.381 0.00 0.00 33.79 4.00
1963 6116 7.202016 TGCAGAAACGTTCTCTGAATTTAAT 57.798 32.000 28.81 2.99 42.51 1.40
1965 6118 8.779303 TGCAGAAACGTTCTCTGAATTTAATTA 58.221 29.630 28.81 11.09 42.51 1.40
1993 6151 4.445453 TCATCATTCATACTCACCTGTGC 58.555 43.478 0.00 0.00 0.00 4.57
2008 6166 3.244700 ACCTGTGCTCTAAAACTCTGCAT 60.245 43.478 0.00 0.00 36.04 3.96
2036 6194 6.089954 GGCAGAATTTTAGTTCAGTCAAATGC 59.910 38.462 0.00 0.00 0.00 3.56
2079 6237 6.012658 TCAACATAAAAGCTGGCTAACTTG 57.987 37.500 0.00 0.00 0.00 3.16
2080 6238 5.534654 TCAACATAAAAGCTGGCTAACTTGT 59.465 36.000 0.00 0.00 0.00 3.16
2081 6239 5.376854 ACATAAAAGCTGGCTAACTTGTG 57.623 39.130 0.00 2.22 0.00 3.33
2090 6248 2.224499 TGGCTAACTTGTGCTGACATGA 60.224 45.455 0.00 0.00 32.72 3.07
2135 6295 8.565896 ACAATCATCTTGTGCTATTACTTTGA 57.434 30.769 0.00 0.00 0.00 2.69
2153 6313 5.241506 ACTTTGACAGCTGCTATTTTGCTAA 59.758 36.000 15.27 0.00 35.05 3.09
2154 6314 4.685169 TGACAGCTGCTATTTTGCTAAC 57.315 40.909 15.27 0.00 35.05 2.34
2155 6315 4.071423 TGACAGCTGCTATTTTGCTAACA 58.929 39.130 15.27 0.00 35.05 2.41
2162 6322 5.393461 GCTGCTATTTTGCTAACAGGACATT 60.393 40.000 0.00 0.00 0.00 2.71
2163 6323 5.953183 TGCTATTTTGCTAACAGGACATTG 58.047 37.500 0.00 0.00 0.00 2.82
2168 6328 9.260002 CTATTTTGCTAACAGGACATTGTTTTT 57.740 29.630 0.00 0.00 41.31 1.94
2169 6329 6.900568 TTTGCTAACAGGACATTGTTTTTG 57.099 33.333 0.00 0.00 41.31 2.44
2170 6330 5.590530 TGCTAACAGGACATTGTTTTTGT 57.409 34.783 0.00 0.00 41.31 2.83
2171 6331 6.701145 TGCTAACAGGACATTGTTTTTGTA 57.299 33.333 0.00 0.00 41.31 2.41
2172 6332 6.500041 TGCTAACAGGACATTGTTTTTGTAC 58.500 36.000 0.00 0.00 41.31 2.90
2173 6333 6.320164 TGCTAACAGGACATTGTTTTTGTACT 59.680 34.615 0.00 0.00 38.86 2.73
2174 6334 6.856426 GCTAACAGGACATTGTTTTTGTACTC 59.144 38.462 0.00 0.00 36.08 2.59
2175 6335 7.255139 GCTAACAGGACATTGTTTTTGTACTCT 60.255 37.037 0.00 0.00 36.08 3.24
2176 6336 9.268268 CTAACAGGACATTGTTTTTGTACTCTA 57.732 33.333 0.00 0.00 36.08 2.43
2177 6337 8.514330 AACAGGACATTGTTTTTGTACTCTAA 57.486 30.769 0.00 0.00 36.08 2.10
2178 6338 8.514330 ACAGGACATTGTTTTTGTACTCTAAA 57.486 30.769 0.00 0.00 36.08 1.85
2179 6339 8.621286 ACAGGACATTGTTTTTGTACTCTAAAG 58.379 33.333 0.00 0.00 36.08 1.85
2180 6340 8.621286 CAGGACATTGTTTTTGTACTCTAAAGT 58.379 33.333 0.00 0.00 36.08 2.66
2181 6341 9.185680 AGGACATTGTTTTTGTACTCTAAAGTT 57.814 29.630 0.00 0.00 32.70 2.66
2182 6342 9.447040 GGACATTGTTTTTGTACTCTAAAGTTC 57.553 33.333 0.00 0.00 36.92 3.01
2187 6347 8.905103 TGTTTTTGTACTCTAAAGTTCTTTGC 57.095 30.769 7.90 0.00 36.92 3.68
2188 6348 8.516234 TGTTTTTGTACTCTAAAGTTCTTTGCA 58.484 29.630 7.90 0.00 36.92 4.08
2189 6349 9.516314 GTTTTTGTACTCTAAAGTTCTTTGCAT 57.484 29.630 7.90 0.00 36.92 3.96
2190 6350 9.730420 TTTTTGTACTCTAAAGTTCTTTGCATC 57.270 29.630 7.90 0.00 36.92 3.91
2191 6351 6.706055 TGTACTCTAAAGTTCTTTGCATCG 57.294 37.500 7.90 0.00 36.92 3.84
2192 6352 6.220930 TGTACTCTAAAGTTCTTTGCATCGT 58.779 36.000 7.90 2.09 36.92 3.73
2193 6353 5.847670 ACTCTAAAGTTCTTTGCATCGTC 57.152 39.130 7.90 0.00 28.74 4.20
2194 6354 5.297547 ACTCTAAAGTTCTTTGCATCGTCA 58.702 37.500 7.90 0.00 28.74 4.35
2195 6355 5.758296 ACTCTAAAGTTCTTTGCATCGTCAA 59.242 36.000 7.90 0.00 28.74 3.18
2196 6356 6.260050 ACTCTAAAGTTCTTTGCATCGTCAAA 59.740 34.615 7.90 0.00 31.67 2.69
2197 6357 7.022055 TCTAAAGTTCTTTGCATCGTCAAAA 57.978 32.000 7.90 0.00 35.75 2.44
2198 6358 7.476667 TCTAAAGTTCTTTGCATCGTCAAAAA 58.523 30.769 7.90 0.00 35.75 1.94
2199 6359 8.134895 TCTAAAGTTCTTTGCATCGTCAAAAAT 58.865 29.630 7.90 0.00 35.75 1.82
2200 6360 9.393249 CTAAAGTTCTTTGCATCGTCAAAAATA 57.607 29.630 7.90 0.00 35.75 1.40
2201 6361 8.641499 AAAGTTCTTTGCATCGTCAAAAATAA 57.359 26.923 0.00 0.00 35.75 1.40
2202 6362 7.623268 AGTTCTTTGCATCGTCAAAAATAAC 57.377 32.000 0.00 0.00 35.75 1.89
2203 6363 7.199766 AGTTCTTTGCATCGTCAAAAATAACA 58.800 30.769 0.00 0.00 35.75 2.41
2204 6364 7.704472 AGTTCTTTGCATCGTCAAAAATAACAA 59.296 29.630 0.00 0.00 35.75 2.83
2205 6365 7.388290 TCTTTGCATCGTCAAAAATAACAAC 57.612 32.000 0.00 0.00 35.75 3.32
2206 6366 7.199766 TCTTTGCATCGTCAAAAATAACAACT 58.800 30.769 0.00 0.00 35.75 3.16
2207 6367 7.704472 TCTTTGCATCGTCAAAAATAACAACTT 59.296 29.630 0.00 0.00 35.75 2.66
2208 6368 7.763172 TTGCATCGTCAAAAATAACAACTTT 57.237 28.000 0.00 0.00 0.00 2.66
2209 6369 8.858003 TTGCATCGTCAAAAATAACAACTTTA 57.142 26.923 0.00 0.00 0.00 1.85
2210 6370 8.858003 TGCATCGTCAAAAATAACAACTTTAA 57.142 26.923 0.00 0.00 0.00 1.52
2211 6371 9.469807 TGCATCGTCAAAAATAACAACTTTAAT 57.530 25.926 0.00 0.00 0.00 1.40
2226 6386 8.887036 ACAACTTTAATTTTTGGGTCATCTTC 57.113 30.769 0.00 0.00 0.00 2.87
2227 6387 8.482128 ACAACTTTAATTTTTGGGTCATCTTCA 58.518 29.630 0.00 0.00 0.00 3.02
2228 6388 9.492973 CAACTTTAATTTTTGGGTCATCTTCAT 57.507 29.630 0.00 0.00 0.00 2.57
2229 6389 9.710900 AACTTTAATTTTTGGGTCATCTTCATC 57.289 29.630 0.00 0.00 0.00 2.92
2230 6390 8.314021 ACTTTAATTTTTGGGTCATCTTCATCC 58.686 33.333 0.00 0.00 0.00 3.51
2231 6391 7.789202 TTAATTTTTGGGTCATCTTCATCCA 57.211 32.000 0.00 0.00 0.00 3.41
2232 6392 6.684897 AATTTTTGGGTCATCTTCATCCAA 57.315 33.333 0.00 0.00 35.91 3.53
2233 6393 5.726980 TTTTTGGGTCATCTTCATCCAAG 57.273 39.130 0.00 0.00 38.51 3.61
2234 6394 3.370840 TTGGGTCATCTTCATCCAAGG 57.629 47.619 0.00 0.00 33.15 3.61
2235 6395 2.278245 TGGGTCATCTTCATCCAAGGT 58.722 47.619 0.00 0.00 32.22 3.50
2236 6396 2.239654 TGGGTCATCTTCATCCAAGGTC 59.760 50.000 0.00 0.00 32.22 3.85
2237 6397 2.239654 GGGTCATCTTCATCCAAGGTCA 59.760 50.000 0.00 0.00 32.22 4.02
2238 6398 3.117738 GGGTCATCTTCATCCAAGGTCAT 60.118 47.826 0.00 0.00 32.22 3.06
2239 6399 3.881688 GGTCATCTTCATCCAAGGTCATG 59.118 47.826 0.00 0.00 32.22 3.07
2240 6400 4.521146 GTCATCTTCATCCAAGGTCATGT 58.479 43.478 0.00 0.00 32.22 3.21
2241 6401 4.334759 GTCATCTTCATCCAAGGTCATGTG 59.665 45.833 0.00 0.00 32.22 3.21
2242 6402 2.715046 TCTTCATCCAAGGTCATGTGC 58.285 47.619 0.00 0.00 32.22 4.57
2243 6403 2.040145 TCTTCATCCAAGGTCATGTGCA 59.960 45.455 0.00 0.00 32.22 4.57
2244 6404 2.583024 TCATCCAAGGTCATGTGCAA 57.417 45.000 0.00 0.00 0.00 4.08
2245 6405 2.161855 TCATCCAAGGTCATGTGCAAC 58.838 47.619 0.00 0.00 37.35 4.17
2246 6406 2.165167 CATCCAAGGTCATGTGCAACT 58.835 47.619 0.00 0.00 38.04 3.16
2247 6407 3.008923 TCATCCAAGGTCATGTGCAACTA 59.991 43.478 0.00 0.00 38.04 2.24
2248 6408 2.778299 TCCAAGGTCATGTGCAACTAC 58.222 47.619 0.00 0.00 38.04 2.73
2249 6409 1.464608 CCAAGGTCATGTGCAACTACG 59.535 52.381 0.00 0.00 38.04 3.51
2250 6410 1.464608 CAAGGTCATGTGCAACTACGG 59.535 52.381 0.00 0.00 38.04 4.02
2251 6411 0.973632 AGGTCATGTGCAACTACGGA 59.026 50.000 0.00 0.00 38.04 4.69
2252 6412 1.346395 AGGTCATGTGCAACTACGGAA 59.654 47.619 0.00 0.00 38.04 4.30
2253 6413 1.732259 GGTCATGTGCAACTACGGAAG 59.268 52.381 0.00 0.00 38.04 3.46
2254 6414 1.128692 GTCATGTGCAACTACGGAAGC 59.871 52.381 0.00 0.00 38.04 3.86
2255 6415 1.001974 TCATGTGCAACTACGGAAGCT 59.998 47.619 0.00 0.00 38.04 3.74
2256 6416 2.232696 TCATGTGCAACTACGGAAGCTA 59.767 45.455 0.00 0.00 38.04 3.32
2257 6417 2.823924 TGTGCAACTACGGAAGCTAA 57.176 45.000 0.00 0.00 38.04 3.09
2258 6418 3.114668 TGTGCAACTACGGAAGCTAAA 57.885 42.857 0.00 0.00 38.04 1.85
2259 6419 3.468770 TGTGCAACTACGGAAGCTAAAA 58.531 40.909 0.00 0.00 38.04 1.52
2260 6420 3.249080 TGTGCAACTACGGAAGCTAAAAC 59.751 43.478 0.00 0.00 38.04 2.43
2261 6421 3.249080 GTGCAACTACGGAAGCTAAAACA 59.751 43.478 0.00 0.00 0.00 2.83
2262 6422 3.878103 TGCAACTACGGAAGCTAAAACAA 59.122 39.130 0.00 0.00 0.00 2.83
2263 6423 4.517453 TGCAACTACGGAAGCTAAAACAAT 59.483 37.500 0.00 0.00 0.00 2.71
2264 6424 5.701750 TGCAACTACGGAAGCTAAAACAATA 59.298 36.000 0.00 0.00 0.00 1.90
2265 6425 6.373216 TGCAACTACGGAAGCTAAAACAATAT 59.627 34.615 0.00 0.00 0.00 1.28
2266 6426 6.687105 GCAACTACGGAAGCTAAAACAATATG 59.313 38.462 0.00 0.00 0.00 1.78
2267 6427 6.359480 ACTACGGAAGCTAAAACAATATGC 57.641 37.500 0.00 0.00 0.00 3.14
2268 6428 6.113411 ACTACGGAAGCTAAAACAATATGCT 58.887 36.000 0.00 0.00 35.30 3.79
2269 6429 5.235305 ACGGAAGCTAAAACAATATGCTG 57.765 39.130 0.00 0.00 33.96 4.41
2270 6430 4.037690 CGGAAGCTAAAACAATATGCTGC 58.962 43.478 0.00 0.00 33.96 5.25
2271 6431 4.438608 CGGAAGCTAAAACAATATGCTGCA 60.439 41.667 4.13 4.13 33.96 4.41
2272 6432 5.410067 GGAAGCTAAAACAATATGCTGCAA 58.590 37.500 6.36 0.00 33.96 4.08
2273 6433 5.868801 GGAAGCTAAAACAATATGCTGCAAA 59.131 36.000 6.36 0.00 33.96 3.68
2274 6434 6.368516 GGAAGCTAAAACAATATGCTGCAAAA 59.631 34.615 6.36 0.00 33.96 2.44
2275 6435 7.095271 GGAAGCTAAAACAATATGCTGCAAAAA 60.095 33.333 6.36 0.00 33.96 1.94
2276 6436 7.910441 AGCTAAAACAATATGCTGCAAAAAT 57.090 28.000 6.36 0.00 32.32 1.82
2277 6437 8.326680 AGCTAAAACAATATGCTGCAAAAATT 57.673 26.923 6.36 4.44 32.32 1.82
2278 6438 8.785946 AGCTAAAACAATATGCTGCAAAAATTT 58.214 25.926 6.36 6.58 32.32 1.82
2279 6439 9.054191 GCTAAAACAATATGCTGCAAAAATTTC 57.946 29.630 6.36 0.00 0.00 2.17
2280 6440 9.545611 CTAAAACAATATGCTGCAAAAATTTCC 57.454 29.630 6.36 0.00 0.00 3.13
2281 6441 6.499234 AACAATATGCTGCAAAAATTTCCC 57.501 33.333 6.36 0.00 0.00 3.97
2282 6442 5.807909 ACAATATGCTGCAAAAATTTCCCT 58.192 33.333 6.36 0.00 0.00 4.20
2283 6443 6.240145 ACAATATGCTGCAAAAATTTCCCTT 58.760 32.000 6.36 0.00 0.00 3.95
2284 6444 6.716173 ACAATATGCTGCAAAAATTTCCCTTT 59.284 30.769 6.36 0.00 0.00 3.11
2285 6445 7.882271 ACAATATGCTGCAAAAATTTCCCTTTA 59.118 29.630 6.36 0.00 0.00 1.85
2286 6446 8.728833 CAATATGCTGCAAAAATTTCCCTTTAA 58.271 29.630 6.36 0.00 0.00 1.52
2287 6447 8.860780 ATATGCTGCAAAAATTTCCCTTTAAA 57.139 26.923 6.36 0.00 0.00 1.52
2288 6448 6.616774 TGCTGCAAAAATTTCCCTTTAAAG 57.383 33.333 8.32 8.32 0.00 1.85
2289 6449 6.118852 TGCTGCAAAAATTTCCCTTTAAAGT 58.881 32.000 14.03 0.00 0.00 2.66
2290 6450 6.601217 TGCTGCAAAAATTTCCCTTTAAAGTT 59.399 30.769 14.03 0.00 0.00 2.66
2291 6451 7.121907 TGCTGCAAAAATTTCCCTTTAAAGTTT 59.878 29.630 14.03 4.92 38.02 2.66
2292 6452 7.973388 GCTGCAAAAATTTCCCTTTAAAGTTTT 59.027 29.630 14.03 10.23 43.46 2.43
2296 6456 6.952773 AAATTTCCCTTTAAAGTTTTGGGC 57.047 33.333 14.03 0.00 37.83 5.36
2297 6457 5.904984 ATTTCCCTTTAAAGTTTTGGGCT 57.095 34.783 14.03 0.00 37.83 5.19
2298 6458 7.381789 AATTTCCCTTTAAAGTTTTGGGCTA 57.618 32.000 14.03 1.22 37.83 3.93
2299 6459 5.794726 TTCCCTTTAAAGTTTTGGGCTAC 57.205 39.130 14.03 0.00 37.83 3.58
2300 6460 5.069518 TCCCTTTAAAGTTTTGGGCTACT 57.930 39.130 14.03 0.00 37.83 2.57
2301 6461 5.460416 TCCCTTTAAAGTTTTGGGCTACTT 58.540 37.500 14.03 0.00 37.83 2.24
2302 6462 5.537295 TCCCTTTAAAGTTTTGGGCTACTTC 59.463 40.000 14.03 0.00 37.83 3.01
2303 6463 5.303333 CCCTTTAAAGTTTTGGGCTACTTCA 59.697 40.000 14.03 0.00 33.66 3.02
2304 6464 6.183360 CCCTTTAAAGTTTTGGGCTACTTCAA 60.183 38.462 14.03 0.00 33.66 2.69
2305 6465 6.923508 CCTTTAAAGTTTTGGGCTACTTCAAG 59.076 38.462 14.03 0.00 33.66 3.02
2306 6466 4.937201 AAAGTTTTGGGCTACTTCAAGG 57.063 40.909 0.00 0.00 33.66 3.61
2307 6467 2.876581 AGTTTTGGGCTACTTCAAGGG 58.123 47.619 0.00 0.00 0.00 3.95
2308 6468 2.177016 AGTTTTGGGCTACTTCAAGGGT 59.823 45.455 0.00 0.00 0.00 4.34
2309 6469 3.396611 AGTTTTGGGCTACTTCAAGGGTA 59.603 43.478 0.00 0.00 0.00 3.69
2310 6470 4.141111 AGTTTTGGGCTACTTCAAGGGTAA 60.141 41.667 0.00 0.00 0.00 2.85
2311 6471 3.428413 TTGGGCTACTTCAAGGGTAAC 57.572 47.619 0.00 0.00 0.00 2.50
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
54 55 6.550938 TGTATCTATGGCATAGGATCCTTG 57.449 41.667 29.11 17.99 33.64 3.61
92 93 3.558931 AAATAGACCACGCCATGATCA 57.441 42.857 0.00 0.00 0.00 2.92
119 120 4.379339 TCCTTTTTGTTTCGGTCCTTTG 57.621 40.909 0.00 0.00 0.00 2.77
165 166 4.395959 AACTTCACTTGGTACTCGTTCA 57.604 40.909 0.00 0.00 0.00 3.18
175 176 3.251004 GCAGACCTGTAAACTTCACTTGG 59.749 47.826 0.00 0.00 0.00 3.61
216 217 1.211969 GTCTTCTAGTCGCGGCACA 59.788 57.895 15.58 0.00 0.00 4.57
246 247 0.478072 AAGTGAAGGATGCCACCACA 59.522 50.000 0.00 0.00 33.03 4.17
260 261 1.134128 TCTGCCACTGCTTTGAAGTGA 60.134 47.619 7.23 0.00 46.55 3.41
301 302 3.830755 AGAAACATCCAGAGCAAAAGCAT 59.169 39.130 0.00 0.00 0.00 3.79
346 347 2.124903 ACGACACACAAACTAAGAGCG 58.875 47.619 0.00 0.00 0.00 5.03
377 378 2.557056 TCACCCACAACAAAAACGACAA 59.443 40.909 0.00 0.00 0.00 3.18
381 382 5.350091 AGAAATTTCACCCACAACAAAAACG 59.650 36.000 19.99 0.00 0.00 3.60
385 386 5.163457 GGAGAGAAATTTCACCCACAACAAA 60.163 40.000 19.99 0.00 0.00 2.83
388 389 4.145052 AGGAGAGAAATTTCACCCACAAC 58.855 43.478 19.99 2.55 0.00 3.32
392 393 5.514834 CCAACTAGGAGAGAAATTTCACCCA 60.515 44.000 19.99 8.53 41.22 4.51
399 400 5.243954 GCAAAACCCAACTAGGAGAGAAATT 59.756 40.000 0.00 0.00 41.22 1.82
404 405 2.076863 CGCAAAACCCAACTAGGAGAG 58.923 52.381 0.00 0.00 41.22 3.20
405 406 1.880646 GCGCAAAACCCAACTAGGAGA 60.881 52.381 0.30 0.00 41.22 3.71
406 407 0.521735 GCGCAAAACCCAACTAGGAG 59.478 55.000 0.30 0.00 41.22 3.69
448 449 5.187186 CCCAAAAGCTACTAGAACTACCTCA 59.813 44.000 0.00 0.00 0.00 3.86
449 450 5.662456 CCCAAAAGCTACTAGAACTACCTC 58.338 45.833 0.00 0.00 0.00 3.85
488 489 6.366877 GCAAACTACGAATACCAGTTCACTTA 59.633 38.462 0.00 0.00 31.43 2.24
489 490 5.178809 GCAAACTACGAATACCAGTTCACTT 59.821 40.000 0.00 0.00 31.43 3.16
523 524 6.401537 TCCTCCTCCAATTTCCATTAAGAA 57.598 37.500 0.00 0.00 0.00 2.52
524 525 6.401537 TTCCTCCTCCAATTTCCATTAAGA 57.598 37.500 0.00 0.00 0.00 2.10
527 528 5.269189 GGTTTCCTCCTCCAATTTCCATTA 58.731 41.667 0.00 0.00 0.00 1.90
655 658 9.877178 GATGGAATTACTCTCTCTGTAAAGAAA 57.123 33.333 0.00 0.00 34.20 2.52
656 659 8.478877 GGATGGAATTACTCTCTCTGTAAAGAA 58.521 37.037 0.00 0.00 34.20 2.52
657 660 7.201830 CGGATGGAATTACTCTCTCTGTAAAGA 60.202 40.741 0.00 0.00 34.20 2.52
658 661 6.920758 CGGATGGAATTACTCTCTCTGTAAAG 59.079 42.308 0.00 0.00 34.20 1.85
659 662 6.380274 ACGGATGGAATTACTCTCTCTGTAAA 59.620 38.462 0.00 0.00 34.20 2.01
660 663 5.892119 ACGGATGGAATTACTCTCTCTGTAA 59.108 40.000 0.00 0.00 34.87 2.41
661 664 5.446860 ACGGATGGAATTACTCTCTCTGTA 58.553 41.667 0.00 0.00 0.00 2.74
662 665 4.282496 ACGGATGGAATTACTCTCTCTGT 58.718 43.478 0.00 0.00 0.00 3.41
663 666 4.927978 ACGGATGGAATTACTCTCTCTG 57.072 45.455 0.00 0.00 0.00 3.35
664 667 4.712337 ACAACGGATGGAATTACTCTCTCT 59.288 41.667 0.00 0.00 0.00 3.10
665 668 4.806247 CACAACGGATGGAATTACTCTCTC 59.194 45.833 0.00 0.00 0.00 3.20
666 669 4.383118 CCACAACGGATGGAATTACTCTCT 60.383 45.833 0.00 0.00 39.87 3.10
667 670 3.871594 CCACAACGGATGGAATTACTCTC 59.128 47.826 0.00 0.00 39.87 3.20
668 671 3.263425 ACCACAACGGATGGAATTACTCT 59.737 43.478 8.66 0.00 39.87 3.24
669 672 3.374058 CACCACAACGGATGGAATTACTC 59.626 47.826 8.66 0.00 39.87 2.59
670 673 3.244770 ACACCACAACGGATGGAATTACT 60.245 43.478 8.66 0.00 39.87 2.24
677 680 1.001520 TGAGTACACCACAACGGATGG 59.998 52.381 0.00 0.70 43.43 3.51
688 691 2.473984 CCGTTCGAAACTTGAGTACACC 59.526 50.000 0.00 0.00 0.00 4.16
711 715 0.365523 ATTCGTGCGTTCGTTCATCG 59.634 50.000 1.99 0.00 41.41 3.84
746 755 4.374399 CAGCTCAAATTTTGGACTTTGCT 58.626 39.130 9.18 6.95 33.40 3.91
752 761 2.407090 GTGGCAGCTCAAATTTTGGAC 58.593 47.619 9.18 2.35 0.00 4.02
771 783 1.890510 GTTGTTCGTTCAGGCGGGT 60.891 57.895 0.00 0.00 0.00 5.28
811 823 1.523154 GAGAGAGATGGCGCGGATCT 61.523 60.000 17.77 17.77 32.63 2.75
921 943 2.762327 GCTGGTGGGATGATTGTGATTT 59.238 45.455 0.00 0.00 0.00 2.17
922 944 2.381911 GCTGGTGGGATGATTGTGATT 58.618 47.619 0.00 0.00 0.00 2.57
923 945 1.410648 GGCTGGTGGGATGATTGTGAT 60.411 52.381 0.00 0.00 0.00 3.06
924 946 0.034186 GGCTGGTGGGATGATTGTGA 60.034 55.000 0.00 0.00 0.00 3.58
963 988 2.419297 GCTGACTGAGATGGAAACGGAT 60.419 50.000 0.00 0.00 0.00 4.18
1167 1204 0.107945 GGAAGATCTTGAGCACGCCT 60.108 55.000 14.00 0.00 0.00 5.52
1359 1401 0.038526 AACCGTAGCACGAGAACAGG 60.039 55.000 9.75 0.00 46.05 4.00
1374 1419 0.111266 CGCACTCAGAAACGAAACCG 60.111 55.000 0.00 0.00 0.00 4.44
1396 1445 1.120530 AGACCGACAGAACACCAACT 58.879 50.000 0.00 0.00 0.00 3.16
1401 1454 2.034305 ACTACACAGACCGACAGAACAC 59.966 50.000 0.00 0.00 0.00 3.32
1407 1460 1.607148 CACAGACTACACAGACCGACA 59.393 52.381 0.00 0.00 0.00 4.35
1429 1482 0.609131 ACCCATCGCCTTCCACAAAG 60.609 55.000 0.00 0.00 34.52 2.77
1432 1485 1.918293 AGACCCATCGCCTTCCACA 60.918 57.895 0.00 0.00 0.00 4.17
1447 1501 6.924111 ACCAACAATTCCATTACATTCAGAC 58.076 36.000 0.00 0.00 0.00 3.51
1499 1569 5.551760 AGAGATGCAGTACAATTTTTCCG 57.448 39.130 0.00 0.00 0.00 4.30
1505 1602 5.911752 AGATTCGAGAGATGCAGTACAATT 58.088 37.500 0.00 0.00 41.60 2.32
1506 1603 5.527951 GAGATTCGAGAGATGCAGTACAAT 58.472 41.667 0.00 0.00 41.60 2.71
1507 1604 4.496507 CGAGATTCGAGAGATGCAGTACAA 60.497 45.833 0.00 0.00 43.74 2.41
1508 1605 3.002759 CGAGATTCGAGAGATGCAGTACA 59.997 47.826 0.00 0.00 43.74 2.90
1509 1606 3.248841 TCGAGATTCGAGAGATGCAGTAC 59.751 47.826 0.00 0.00 44.82 2.73
1510 1607 3.467803 TCGAGATTCGAGAGATGCAGTA 58.532 45.455 0.00 0.00 44.82 2.74
1511 1608 2.293170 TCGAGATTCGAGAGATGCAGT 58.707 47.619 0.00 0.00 44.82 4.40
1523 1620 4.396519 GAGATACGGTCGAATCGAGATTC 58.603 47.826 5.25 14.10 42.76 2.52
1524 1621 3.188873 GGAGATACGGTCGAATCGAGATT 59.811 47.826 5.25 0.00 36.23 2.40
1525 1622 2.743126 GGAGATACGGTCGAATCGAGAT 59.257 50.000 5.25 0.00 36.23 2.75
1526 1623 2.141517 GGAGATACGGTCGAATCGAGA 58.858 52.381 5.25 0.00 36.23 4.04
1527 1624 2.096169 CAGGAGATACGGTCGAATCGAG 60.096 54.545 5.25 0.00 36.23 4.04
1528 1625 1.871676 CAGGAGATACGGTCGAATCGA 59.128 52.381 14.96 0.00 0.00 3.59
1529 1626 1.069159 CCAGGAGATACGGTCGAATCG 60.069 57.143 0.00 0.00 0.00 3.34
1530 1627 1.336056 GCCAGGAGATACGGTCGAATC 60.336 57.143 0.00 0.00 0.00 2.52
1531 1628 0.674534 GCCAGGAGATACGGTCGAAT 59.325 55.000 0.00 0.00 0.00 3.34
1532 1629 0.395311 AGCCAGGAGATACGGTCGAA 60.395 55.000 0.00 0.00 0.00 3.71
1533 1630 0.395311 AAGCCAGGAGATACGGTCGA 60.395 55.000 0.00 0.00 0.00 4.20
1534 1631 0.249073 CAAGCCAGGAGATACGGTCG 60.249 60.000 0.00 0.00 0.00 4.79
1535 1632 0.824759 ACAAGCCAGGAGATACGGTC 59.175 55.000 0.00 0.00 0.00 4.79
1536 1633 1.207329 GAACAAGCCAGGAGATACGGT 59.793 52.381 0.00 0.00 0.00 4.83
1537 1634 1.473434 GGAACAAGCCAGGAGATACGG 60.473 57.143 0.00 0.00 0.00 4.02
1538 1635 1.482593 AGGAACAAGCCAGGAGATACG 59.517 52.381 0.00 0.00 0.00 3.06
1542 1639 1.623811 GTACAGGAACAAGCCAGGAGA 59.376 52.381 0.00 0.00 0.00 3.71
1566 1663 6.206634 TGGACGTTCTTGCTGAGAAATTTTAT 59.793 34.615 0.00 0.00 45.59 1.40
1590 1687 6.690098 CGAAAATTACTGAAAGAGCCATCATG 59.310 38.462 0.00 0.00 37.43 3.07
1597 1694 7.679659 ACAAAACGAAAATTACTGAAAGAGC 57.320 32.000 0.00 0.00 37.43 4.09
1657 1759 0.099791 CGCCGCCGGTTATGAATTTT 59.900 50.000 4.45 0.00 0.00 1.82
1661 1763 4.460683 AGCGCCGCCGGTTATGAA 62.461 61.111 4.98 0.00 43.57 2.57
1773 2104 7.550597 TCAAGGCATCAGAGATAACATCTAT 57.449 36.000 0.00 0.00 40.38 1.98
1803 2176 9.890629 AAAGCAGTATTACAGAACAGAATCATA 57.109 29.630 0.00 0.00 0.00 2.15
1825 2931 3.181533 CGCCGAAAAGTAGTACTGAAAGC 60.182 47.826 5.39 3.38 37.60 3.51
1836 2947 1.730064 GCATTCTGACGCCGAAAAGTA 59.270 47.619 0.00 0.00 0.00 2.24
1843 4214 0.735978 TACACAGCATTCTGACGCCG 60.736 55.000 0.00 0.00 42.95 6.46
1850 4221 5.243954 TCAGACACTAAGTACACAGCATTCT 59.756 40.000 0.00 0.00 0.00 2.40
1854 4225 4.522789 TGATCAGACACTAAGTACACAGCA 59.477 41.667 0.00 0.00 0.00 4.41
1859 4230 7.888250 AGATCATGATCAGACACTAAGTACA 57.112 36.000 31.99 0.00 40.22 2.90
1860 4231 8.409371 TGAAGATCATGATCAGACACTAAGTAC 58.591 37.037 31.99 5.90 40.22 2.73
1985 6143 2.481952 GCAGAGTTTTAGAGCACAGGTG 59.518 50.000 0.00 0.00 0.00 4.00
1987 6145 2.771089 TGCAGAGTTTTAGAGCACAGG 58.229 47.619 0.00 0.00 0.00 4.00
2008 6166 7.994425 TTGACTGAACTAAAATTCTGCCATA 57.006 32.000 0.00 0.00 32.39 2.74
2047 6205 6.460676 GCCAGCTTTTATGTTGAGCATTCTAT 60.461 38.462 0.00 0.00 38.85 1.98
2048 6206 5.163622 GCCAGCTTTTATGTTGAGCATTCTA 60.164 40.000 0.00 0.00 38.85 2.10
2049 6207 4.381292 GCCAGCTTTTATGTTGAGCATTCT 60.381 41.667 0.00 0.00 38.85 2.40
2050 6208 3.861689 GCCAGCTTTTATGTTGAGCATTC 59.138 43.478 0.00 0.00 38.85 2.67
2051 6209 3.512724 AGCCAGCTTTTATGTTGAGCATT 59.487 39.130 0.00 0.00 38.85 3.56
2052 6210 3.094572 AGCCAGCTTTTATGTTGAGCAT 58.905 40.909 0.00 0.00 38.85 3.79
2064 6222 1.610522 CAGCACAAGTTAGCCAGCTTT 59.389 47.619 0.00 0.00 0.00 3.51
2118 6278 5.625251 CAGCTGTCAAAGTAATAGCACAAG 58.375 41.667 5.25 0.00 36.87 3.16
2127 6287 5.241506 AGCAAAATAGCAGCTGTCAAAGTAA 59.758 36.000 16.64 0.00 37.20 2.24
2128 6288 4.761739 AGCAAAATAGCAGCTGTCAAAGTA 59.238 37.500 16.64 0.00 37.20 2.24
2135 6295 3.441572 CCTGTTAGCAAAATAGCAGCTGT 59.558 43.478 16.64 4.79 39.30 4.40
2153 6313 8.514330 TTTAGAGTACAAAAACAATGTCCTGT 57.486 30.769 0.00 0.00 32.27 4.00
2154 6314 8.621286 ACTTTAGAGTACAAAAACAATGTCCTG 58.379 33.333 0.00 0.00 33.32 3.86
2155 6315 8.747538 ACTTTAGAGTACAAAAACAATGTCCT 57.252 30.769 0.00 0.00 33.32 3.85
2162 6322 8.516234 TGCAAAGAACTTTAGAGTACAAAAACA 58.484 29.630 0.00 0.00 34.21 2.83
2163 6323 8.905103 TGCAAAGAACTTTAGAGTACAAAAAC 57.095 30.769 0.00 0.00 34.21 2.43
2168 6328 6.220930 ACGATGCAAAGAACTTTAGAGTACA 58.779 36.000 0.00 0.00 34.21 2.90
2169 6329 6.365247 TGACGATGCAAAGAACTTTAGAGTAC 59.635 38.462 0.00 0.00 34.21 2.73
2170 6330 6.452242 TGACGATGCAAAGAACTTTAGAGTA 58.548 36.000 0.00 0.00 34.21 2.59
2171 6331 5.297547 TGACGATGCAAAGAACTTTAGAGT 58.702 37.500 0.00 0.00 37.87 3.24
2172 6332 5.845985 TGACGATGCAAAGAACTTTAGAG 57.154 39.130 0.00 0.00 0.00 2.43
2173 6333 6.612247 TTTGACGATGCAAAGAACTTTAGA 57.388 33.333 0.00 0.00 33.16 2.10
2174 6334 7.678194 TTTTTGACGATGCAAAGAACTTTAG 57.322 32.000 0.00 0.00 38.80 1.85
2175 6335 9.737427 TTATTTTTGACGATGCAAAGAACTTTA 57.263 25.926 0.00 0.00 38.80 1.85
2176 6336 8.539674 GTTATTTTTGACGATGCAAAGAACTTT 58.460 29.630 0.00 0.00 38.80 2.66
2177 6337 7.704472 TGTTATTTTTGACGATGCAAAGAACTT 59.296 29.630 0.00 0.00 38.80 2.66
2178 6338 7.199766 TGTTATTTTTGACGATGCAAAGAACT 58.800 30.769 0.00 0.00 38.80 3.01
2179 6339 7.388290 TGTTATTTTTGACGATGCAAAGAAC 57.612 32.000 0.00 0.00 38.80 3.01
2180 6340 7.704472 AGTTGTTATTTTTGACGATGCAAAGAA 59.296 29.630 0.00 0.00 38.80 2.52
2181 6341 7.199766 AGTTGTTATTTTTGACGATGCAAAGA 58.800 30.769 0.00 0.00 38.80 2.52
2182 6342 7.393551 AGTTGTTATTTTTGACGATGCAAAG 57.606 32.000 0.00 0.00 38.80 2.77
2183 6343 7.763172 AAGTTGTTATTTTTGACGATGCAAA 57.237 28.000 0.00 0.00 36.08 3.68
2184 6344 7.763172 AAAGTTGTTATTTTTGACGATGCAA 57.237 28.000 0.00 0.00 0.00 4.08
2185 6345 8.858003 TTAAAGTTGTTATTTTTGACGATGCA 57.142 26.923 0.00 0.00 0.00 3.96
2200 6360 9.325198 GAAGATGACCCAAAAATTAAAGTTGTT 57.675 29.630 0.00 0.00 0.00 2.83
2201 6361 8.482128 TGAAGATGACCCAAAAATTAAAGTTGT 58.518 29.630 0.00 0.00 0.00 3.32
2202 6362 8.885494 TGAAGATGACCCAAAAATTAAAGTTG 57.115 30.769 0.00 0.00 0.00 3.16
2203 6363 9.710900 GATGAAGATGACCCAAAAATTAAAGTT 57.289 29.630 0.00 0.00 0.00 2.66
2204 6364 8.314021 GGATGAAGATGACCCAAAAATTAAAGT 58.686 33.333 0.00 0.00 0.00 2.66
2205 6365 8.313292 TGGATGAAGATGACCCAAAAATTAAAG 58.687 33.333 0.00 0.00 0.00 1.85
2206 6366 8.200024 TGGATGAAGATGACCCAAAAATTAAA 57.800 30.769 0.00 0.00 0.00 1.52
2207 6367 7.789202 TGGATGAAGATGACCCAAAAATTAA 57.211 32.000 0.00 0.00 0.00 1.40
2208 6368 7.093377 CCTTGGATGAAGATGACCCAAAAATTA 60.093 37.037 0.00 0.00 36.57 1.40
2209 6369 6.296030 CCTTGGATGAAGATGACCCAAAAATT 60.296 38.462 0.00 0.00 36.57 1.82
2210 6370 5.188359 CCTTGGATGAAGATGACCCAAAAAT 59.812 40.000 0.00 0.00 36.57 1.82
2211 6371 4.527816 CCTTGGATGAAGATGACCCAAAAA 59.472 41.667 0.00 0.00 36.57 1.94
2212 6372 4.088634 CCTTGGATGAAGATGACCCAAAA 58.911 43.478 0.00 0.00 36.57 2.44
2213 6373 3.075882 ACCTTGGATGAAGATGACCCAAA 59.924 43.478 0.00 0.00 36.57 3.28
2214 6374 2.649312 ACCTTGGATGAAGATGACCCAA 59.351 45.455 0.00 0.00 35.77 4.12
2215 6375 2.239654 GACCTTGGATGAAGATGACCCA 59.760 50.000 0.00 0.00 32.82 4.51
2216 6376 2.239654 TGACCTTGGATGAAGATGACCC 59.760 50.000 0.00 0.00 32.82 4.46
2217 6377 3.634397 TGACCTTGGATGAAGATGACC 57.366 47.619 0.00 0.00 32.82 4.02
2218 6378 4.334759 CACATGACCTTGGATGAAGATGAC 59.665 45.833 0.00 0.00 32.82 3.06
2219 6379 4.520179 CACATGACCTTGGATGAAGATGA 58.480 43.478 0.00 0.00 32.82 2.92
2220 6380 3.066342 GCACATGACCTTGGATGAAGATG 59.934 47.826 0.00 0.00 32.82 2.90
2221 6381 3.285484 GCACATGACCTTGGATGAAGAT 58.715 45.455 0.00 0.00 32.82 2.40
2222 6382 2.040145 TGCACATGACCTTGGATGAAGA 59.960 45.455 0.00 0.00 32.82 2.87
2223 6383 2.439409 TGCACATGACCTTGGATGAAG 58.561 47.619 0.00 0.00 0.00 3.02
2224 6384 2.557924 GTTGCACATGACCTTGGATGAA 59.442 45.455 0.00 0.00 0.00 2.57
2225 6385 2.161855 GTTGCACATGACCTTGGATGA 58.838 47.619 0.00 0.00 0.00 2.92
2226 6386 2.165167 AGTTGCACATGACCTTGGATG 58.835 47.619 0.00 0.00 0.00 3.51
2227 6387 2.592102 AGTTGCACATGACCTTGGAT 57.408 45.000 0.00 0.00 0.00 3.41
2228 6388 2.778299 GTAGTTGCACATGACCTTGGA 58.222 47.619 0.00 0.00 0.00 3.53
2229 6389 1.464608 CGTAGTTGCACATGACCTTGG 59.535 52.381 0.00 0.00 0.00 3.61
2230 6390 1.464608 CCGTAGTTGCACATGACCTTG 59.535 52.381 0.00 0.00 0.00 3.61
2231 6391 1.346395 TCCGTAGTTGCACATGACCTT 59.654 47.619 0.00 0.00 0.00 3.50
2232 6392 0.973632 TCCGTAGTTGCACATGACCT 59.026 50.000 0.00 0.00 0.00 3.85
2233 6393 1.732259 CTTCCGTAGTTGCACATGACC 59.268 52.381 0.00 0.00 0.00 4.02
2234 6394 1.128692 GCTTCCGTAGTTGCACATGAC 59.871 52.381 0.00 0.00 0.00 3.06
2235 6395 1.001974 AGCTTCCGTAGTTGCACATGA 59.998 47.619 0.00 0.00 0.00 3.07
2236 6396 1.442769 AGCTTCCGTAGTTGCACATG 58.557 50.000 0.00 0.00 0.00 3.21
2237 6397 3.328382 TTAGCTTCCGTAGTTGCACAT 57.672 42.857 0.00 0.00 0.00 3.21
2238 6398 2.823924 TTAGCTTCCGTAGTTGCACA 57.176 45.000 0.00 0.00 0.00 4.57
2239 6399 3.249080 TGTTTTAGCTTCCGTAGTTGCAC 59.751 43.478 0.00 0.00 0.00 4.57
2240 6400 3.468770 TGTTTTAGCTTCCGTAGTTGCA 58.531 40.909 0.00 0.00 0.00 4.08
2241 6401 4.477302 TTGTTTTAGCTTCCGTAGTTGC 57.523 40.909 0.00 0.00 0.00 4.17
2242 6402 6.687105 GCATATTGTTTTAGCTTCCGTAGTTG 59.313 38.462 0.00 0.00 0.00 3.16
2243 6403 6.598064 AGCATATTGTTTTAGCTTCCGTAGTT 59.402 34.615 0.00 0.00 29.98 2.24
2244 6404 6.037172 CAGCATATTGTTTTAGCTTCCGTAGT 59.963 38.462 0.00 0.00 32.35 2.73
2245 6405 6.422223 CAGCATATTGTTTTAGCTTCCGTAG 58.578 40.000 0.00 0.00 32.35 3.51
2246 6406 5.220777 GCAGCATATTGTTTTAGCTTCCGTA 60.221 40.000 0.00 0.00 32.35 4.02
2247 6407 4.438744 GCAGCATATTGTTTTAGCTTCCGT 60.439 41.667 0.00 0.00 32.35 4.69
2248 6408 4.037690 GCAGCATATTGTTTTAGCTTCCG 58.962 43.478 0.00 0.00 32.35 4.30
2249 6409 4.997565 TGCAGCATATTGTTTTAGCTTCC 58.002 39.130 0.00 0.00 32.35 3.46
2250 6410 6.949578 TTTGCAGCATATTGTTTTAGCTTC 57.050 33.333 0.00 0.00 32.35 3.86
2251 6411 7.727331 TTTTTGCAGCATATTGTTTTAGCTT 57.273 28.000 0.00 0.00 32.35 3.74
2252 6412 7.910441 ATTTTTGCAGCATATTGTTTTAGCT 57.090 28.000 0.00 0.00 35.63 3.32
2253 6413 8.953507 AAATTTTTGCAGCATATTGTTTTAGC 57.046 26.923 0.00 0.00 0.00 3.09
2254 6414 9.545611 GGAAATTTTTGCAGCATATTGTTTTAG 57.454 29.630 0.00 0.00 0.00 1.85
2255 6415 8.510505 GGGAAATTTTTGCAGCATATTGTTTTA 58.489 29.630 0.00 0.00 0.00 1.52
2256 6416 7.231115 AGGGAAATTTTTGCAGCATATTGTTTT 59.769 29.630 0.00 0.00 0.00 2.43
2257 6417 6.716173 AGGGAAATTTTTGCAGCATATTGTTT 59.284 30.769 0.00 0.00 0.00 2.83
2258 6418 6.240145 AGGGAAATTTTTGCAGCATATTGTT 58.760 32.000 0.00 0.00 0.00 2.83
2259 6419 5.807909 AGGGAAATTTTTGCAGCATATTGT 58.192 33.333 0.00 0.00 0.00 2.71
2260 6420 6.746745 AAGGGAAATTTTTGCAGCATATTG 57.253 33.333 0.00 0.00 0.00 1.90
2261 6421 8.860780 TTAAAGGGAAATTTTTGCAGCATATT 57.139 26.923 0.00 0.00 0.00 1.28
2262 6422 8.860780 TTTAAAGGGAAATTTTTGCAGCATAT 57.139 26.923 0.00 0.00 0.00 1.78
2263 6423 7.936301 ACTTTAAAGGGAAATTTTTGCAGCATA 59.064 29.630 19.14 0.00 0.00 3.14
2264 6424 6.772233 ACTTTAAAGGGAAATTTTTGCAGCAT 59.228 30.769 19.14 0.00 0.00 3.79
2265 6425 6.118852 ACTTTAAAGGGAAATTTTTGCAGCA 58.881 32.000 19.14 0.00 0.00 4.41
2266 6426 6.618287 ACTTTAAAGGGAAATTTTTGCAGC 57.382 33.333 19.14 0.00 0.00 5.25
2267 6427 9.288124 CAAAACTTTAAAGGGAAATTTTTGCAG 57.712 29.630 19.14 2.18 39.72 4.41
2268 6428 8.246871 CCAAAACTTTAAAGGGAAATTTTTGCA 58.753 29.630 22.04 0.00 42.12 4.08
2269 6429 7.704472 CCCAAAACTTTAAAGGGAAATTTTTGC 59.296 33.333 22.04 0.00 42.12 3.68
2270 6430 7.704472 GCCCAAAACTTTAAAGGGAAATTTTTG 59.296 33.333 21.22 21.22 42.58 2.44
2271 6431 7.617723 AGCCCAAAACTTTAAAGGGAAATTTTT 59.382 29.630 19.14 11.87 42.25 1.94
2272 6432 7.122715 AGCCCAAAACTTTAAAGGGAAATTTT 58.877 30.769 19.14 12.49 42.25 1.82
2273 6433 6.668645 AGCCCAAAACTTTAAAGGGAAATTT 58.331 32.000 19.14 7.43 42.25 1.82
2274 6434 6.260700 AGCCCAAAACTTTAAAGGGAAATT 57.739 33.333 19.14 1.42 42.25 1.82
2275 6435 5.904984 AGCCCAAAACTTTAAAGGGAAAT 57.095 34.783 19.14 0.00 42.25 2.17
2276 6436 5.900699 AGTAGCCCAAAACTTTAAAGGGAAA 59.099 36.000 19.14 1.01 42.25 3.13
2277 6437 5.460416 AGTAGCCCAAAACTTTAAAGGGAA 58.540 37.500 19.14 1.34 42.25 3.97
2278 6438 5.069518 AGTAGCCCAAAACTTTAAAGGGA 57.930 39.130 19.14 0.00 42.25 4.20
2279 6439 5.303333 TGAAGTAGCCCAAAACTTTAAAGGG 59.697 40.000 19.14 11.98 42.55 3.95
2280 6440 6.399639 TGAAGTAGCCCAAAACTTTAAAGG 57.600 37.500 19.14 2.51 36.10 3.11
2281 6441 6.923508 CCTTGAAGTAGCCCAAAACTTTAAAG 59.076 38.462 13.76 13.76 36.10 1.85
2282 6442 6.183360 CCCTTGAAGTAGCCCAAAACTTTAAA 60.183 38.462 0.00 0.00 36.10 1.52
2283 6443 5.303333 CCCTTGAAGTAGCCCAAAACTTTAA 59.697 40.000 0.00 0.00 36.10 1.52
2284 6444 4.830600 CCCTTGAAGTAGCCCAAAACTTTA 59.169 41.667 0.00 0.00 36.10 1.85
2285 6445 3.641436 CCCTTGAAGTAGCCCAAAACTTT 59.359 43.478 0.00 0.00 36.10 2.66
2286 6446 3.230976 CCCTTGAAGTAGCCCAAAACTT 58.769 45.455 0.00 0.00 38.62 2.66
2287 6447 2.177016 ACCCTTGAAGTAGCCCAAAACT 59.823 45.455 0.00 0.00 0.00 2.66
2288 6448 2.594131 ACCCTTGAAGTAGCCCAAAAC 58.406 47.619 0.00 0.00 0.00 2.43
2289 6449 4.146564 GTTACCCTTGAAGTAGCCCAAAA 58.853 43.478 0.00 0.00 0.00 2.44
2290 6450 3.758425 GTTACCCTTGAAGTAGCCCAAA 58.242 45.455 0.00 0.00 0.00 3.28
2291 6451 3.428413 GTTACCCTTGAAGTAGCCCAA 57.572 47.619 0.00 0.00 0.00 4.12


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

AutoCloner maintained by Alex Coulton.