Multiple sequence alignment - TraesCS2B01G202200

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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 TraesCS2B01G202200 chr2B 100.000 5660 0 0 1 5660 182005885 182000226 0.000000e+00 10453.0
1 TraesCS2B01G202200 chr2B 77.961 667 82 31 14 634 182006821 182006174 1.940000e-94 357.0
2 TraesCS2B01G202200 chr2B 85.542 166 22 2 4357 4521 182001487 182001323 7.540000e-39 172.0
3 TraesCS2B01G202200 chr2B 85.542 166 22 2 4399 4563 182001529 182001365 7.540000e-39 172.0
4 TraesCS2B01G202200 chr2A 93.320 4955 238 36 83 4989 135202605 135207514 0.000000e+00 7230.0
5 TraesCS2B01G202200 chr2A 89.074 540 38 7 925 1444 425822107 425822645 0.000000e+00 651.0
6 TraesCS2B01G202200 chr2A 79.865 591 79 23 73 631 135201654 135202236 4.110000e-106 396.0
7 TraesCS2B01G202200 chr2A 86.747 166 20 2 4390 4554 135206868 135207032 3.480000e-42 183.0
8 TraesCS2B01G202200 chr2A 87.898 157 17 2 4357 4512 135206919 135207074 3.480000e-42 183.0
9 TraesCS2B01G202200 chr2D 97.378 3280 73 7 1723 4989 128407213 128410492 0.000000e+00 5568.0
10 TraesCS2B01G202200 chr2D 90.610 1672 92 17 13 1652 128405555 128407193 0.000000e+00 2158.0
11 TraesCS2B01G202200 chr2D 93.905 525 21 3 5139 5654 128410755 128411277 0.000000e+00 782.0
12 TraesCS2B01G202200 chr2D 80.678 590 80 19 73 631 128404646 128405232 1.460000e-115 427.0
13 TraesCS2B01G202200 chr2D 88.535 157 16 2 4357 4512 128409897 128410052 7.490000e-44 189.0
14 TraesCS2B01G202200 chr2D 86.145 166 21 2 4390 4554 128409846 128410010 1.620000e-40 178.0
15 TraesCS2B01G202200 chr2D 97.222 36 1 0 4988 5023 128410625 128410660 1.700000e-05 62.1
16 TraesCS2B01G202200 chr2D 97.222 36 0 1 5074 5109 128410716 128410750 6.120000e-05 60.2
17 TraesCS2B01G202200 chr6A 80.952 609 87 16 1859 2461 617648832 617649417 6.680000e-124 455.0
18 TraesCS2B01G202200 chr6A 93.617 47 3 0 2415 2461 617595402 617595356 2.830000e-08 71.3
19 TraesCS2B01G202200 chr7D 81.203 266 42 6 1037 1296 532369841 532369578 2.070000e-49 207.0
20 TraesCS2B01G202200 chr7D 87.013 154 19 1 2797 2949 34463475 34463322 7.540000e-39 172.0
21 TraesCS2B01G202200 chr7D 89.583 48 5 0 3732 3779 621646410 621646363 1.700000e-05 62.1


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 TraesCS2B01G202200 chr2B 182000226 182005885 5659 True 10453.0000 10453 100.000000 1 5660 1 chr2B.!!$R1 5659
1 TraesCS2B01G202200 chr2B 182006174 182006821 647 True 357.0000 357 77.961000 14 634 1 chr2B.!!$R2 620
2 TraesCS2B01G202200 chr2A 135201654 135207514 5860 False 1998.0000 7230 86.957500 73 4989 4 chr2A.!!$F2 4916
3 TraesCS2B01G202200 chr2A 425822107 425822645 538 False 651.0000 651 89.074000 925 1444 1 chr2A.!!$F1 519
4 TraesCS2B01G202200 chr2D 128404646 128411277 6631 False 1178.0375 5568 91.461875 13 5654 8 chr2D.!!$F1 5641
5 TraesCS2B01G202200 chr6A 617648832 617649417 585 False 455.0000 455 80.952000 1859 2461 1 chr6A.!!$F1 602

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
137 1119 0.325933 ATCAACAGCCTAGCACTGCA 59.674 50.000 3.30 0.00 38.79 4.41 F
250 1232 0.538584 CACCCTGCTGCAGACATCTA 59.461 55.000 30.10 0.00 32.44 1.98 F
1519 2539 1.005097 TGATCATCAGGCTGCTTTGGT 59.995 47.619 10.34 3.41 0.00 3.67 F
1712 2733 1.334556 GCGCATGCCATTATGTTCTGA 59.665 47.619 13.15 0.00 33.98 3.27 F
3577 4636 0.674895 AAACGAGGTGAGCTGCATCC 60.675 55.000 1.02 0.84 0.00 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1158 2168 0.807667 GACATGCTCTGGCGACGAAT 60.808 55.000 0.00 0.00 42.25 3.34 R
2125 3167 1.750399 AATGGCATCTCCGGCACAC 60.750 57.895 0.00 0.00 45.13 3.82 R
2615 3659 1.152830 TGGGGGAAACTGCAGGAAC 59.847 57.895 19.93 8.15 0.00 3.62 R
3639 4698 1.537202 GACATGTCCACCTGTGAAAGC 59.463 52.381 15.31 0.00 0.00 3.51 R
5050 6249 0.107703 ATACCCAGCCACACATGACG 60.108 55.000 0.00 0.00 0.00 4.35 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
28 29 7.804843 TTATGTAATGGGGTTTACGTAATGG 57.195 36.000 9.18 0.00 38.06 3.16
30 31 5.568392 TGTAATGGGGTTTACGTAATGGTT 58.432 37.500 9.18 2.23 35.30 3.67
32 33 5.394224 AATGGGGTTTACGTAATGGTTTG 57.606 39.130 9.18 0.00 0.00 2.93
34 35 4.978099 TGGGGTTTACGTAATGGTTTGTA 58.022 39.130 9.18 0.00 0.00 2.41
35 36 5.568392 TGGGGTTTACGTAATGGTTTGTAT 58.432 37.500 9.18 0.00 0.00 2.29
36 37 5.415077 TGGGGTTTACGTAATGGTTTGTATG 59.585 40.000 9.18 0.00 0.00 2.39
40 45 8.245491 GGGTTTACGTAATGGTTTGTATGAAAT 58.755 33.333 9.18 0.00 0.00 2.17
45 50 7.018826 ACGTAATGGTTTGTATGAAATTGTCG 58.981 34.615 0.00 0.00 0.00 4.35
46 51 6.021782 CGTAATGGTTTGTATGAAATTGTCGC 60.022 38.462 0.00 0.00 0.00 5.19
62 67 9.865484 GAAATTGTCGCCTTTATTTATCTAGAC 57.135 33.333 0.00 0.00 0.00 2.59
64 69 8.594881 ATTGTCGCCTTTATTTATCTAGACAG 57.405 34.615 0.00 0.00 37.39 3.51
65 70 7.342769 TGTCGCCTTTATTTATCTAGACAGA 57.657 36.000 0.00 0.00 33.07 3.41
68 73 8.566260 GTCGCCTTTATTTATCTAGACAGACTA 58.434 37.037 0.00 0.00 32.25 2.59
81 86 3.625764 AGACAGACTAGATTCTCAGTCGC 59.374 47.826 0.00 9.41 44.77 5.19
98 1080 7.491372 TCTCAGTCGCTATTAAACTAATGTTGG 59.509 37.037 0.00 0.00 36.39 3.77
137 1119 0.325933 ATCAACAGCCTAGCACTGCA 59.674 50.000 3.30 0.00 38.79 4.41
141 1123 1.457346 ACAGCCTAGCACTGCAAATC 58.543 50.000 3.30 0.00 38.79 2.17
201 1183 6.412362 AGGTAGCTTATGAGTCTTGTATGG 57.588 41.667 0.00 0.00 0.00 2.74
219 1201 3.320610 TGGTTTCAGATTTTGGTGGGA 57.679 42.857 0.00 0.00 0.00 4.37
234 1216 0.539438 TGGGAGTGTTTCATGGCACC 60.539 55.000 10.73 0.00 36.35 5.01
235 1217 1.250840 GGGAGTGTTTCATGGCACCC 61.251 60.000 10.73 11.02 36.35 4.61
248 1230 2.404995 GCACCCTGCTGCAGACATC 61.405 63.158 30.10 12.71 40.96 3.06
250 1232 0.538584 CACCCTGCTGCAGACATCTA 59.461 55.000 30.10 0.00 32.44 1.98
257 1239 4.202192 CCTGCTGCAGACATCTAGTATTGA 60.202 45.833 30.10 0.00 32.44 2.57
266 1248 7.201767 GCAGACATCTAGTATTGATTTTGCCTT 60.202 37.037 0.00 0.00 0.00 4.35
290 1272 3.986572 TGGAACATAGTTTTTGCAATGCG 59.013 39.130 0.00 0.00 0.00 4.73
296 1278 5.125417 ACATAGTTTTTGCAATGCGATAGGT 59.875 36.000 0.00 0.00 0.00 3.08
299 1281 4.685628 AGTTTTTGCAATGCGATAGGTTTG 59.314 37.500 0.00 0.00 0.00 2.93
306 1288 1.598882 TGCGATAGGTTTGTGTGCAA 58.401 45.000 0.00 0.00 0.00 4.08
318 1300 4.344359 TTGTGTGCAACTGGTATAGTGA 57.656 40.909 0.00 0.00 40.26 3.41
331 1313 5.487433 TGGTATAGTGAGTGGTTTGATGTG 58.513 41.667 0.00 0.00 0.00 3.21
362 1344 9.944663 TTGTTCATTTTGTTAGCTAGTTTACTG 57.055 29.630 0.00 0.00 0.00 2.74
432 1414 7.786178 TTCTATATGGACGTCAATTTTCCTG 57.214 36.000 18.91 0.47 0.00 3.86
435 1417 2.925724 TGGACGTCAATTTTCCTGTGT 58.074 42.857 18.91 0.00 0.00 3.72
454 1436 7.663905 TCCTGTGTAGAAAGCAATTAAAGCTAA 59.336 33.333 6.25 0.00 42.53 3.09
468 1450 9.260002 CAATTAAAGCTAACTTTTGTGATGGTT 57.740 29.630 0.00 0.00 43.74 3.67
469 1451 9.830975 AATTAAAGCTAACTTTTGTGATGGTTT 57.169 25.926 0.00 0.00 43.74 3.27
470 1452 8.641499 TTAAAGCTAACTTTTGTGATGGTTTG 57.359 30.769 0.00 0.00 43.74 2.93
471 1453 5.852282 AGCTAACTTTTGTGATGGTTTGT 57.148 34.783 0.00 0.00 0.00 2.83
472 1454 6.220726 AGCTAACTTTTGTGATGGTTTGTT 57.779 33.333 0.00 0.00 0.00 2.83
473 1455 6.639563 AGCTAACTTTTGTGATGGTTTGTTT 58.360 32.000 0.00 0.00 0.00 2.83
474 1456 7.102993 AGCTAACTTTTGTGATGGTTTGTTTT 58.897 30.769 0.00 0.00 0.00 2.43
475 1457 8.254508 AGCTAACTTTTGTGATGGTTTGTTTTA 58.745 29.630 0.00 0.00 0.00 1.52
495 1477 8.250332 TGTTTTATTTCCAATGTTGATAGGCTC 58.750 33.333 0.00 0.00 0.00 4.70
500 1482 3.266772 TCCAATGTTGATAGGCTCAGGTT 59.733 43.478 0.00 0.00 34.68 3.50
543 1525 7.462109 TTTATTGTTTTATGCGATGATTGGC 57.538 32.000 0.00 0.00 0.00 4.52
555 1537 3.130869 CGATGATTGGCAGAAATTTGGGA 59.869 43.478 0.00 0.00 0.00 4.37
590 1572 6.165577 AGTTCAAATGCCAATTGTTGTATCC 58.834 36.000 4.43 0.00 0.00 2.59
591 1573 5.735285 TCAAATGCCAATTGTTGTATCCA 57.265 34.783 4.43 0.00 0.00 3.41
672 1654 7.542477 GTGGCTACAGTGATATATGTGATACAC 59.458 40.741 0.00 0.00 34.56 2.90
673 1655 7.451566 TGGCTACAGTGATATATGTGATACACT 59.548 37.037 0.00 0.00 38.79 3.55
753 1735 3.076621 TGATGGACAAAGATCACTGTGC 58.923 45.455 2.12 10.54 34.91 4.57
757 1739 3.003480 GGACAAAGATCACTGTGCTACC 58.997 50.000 2.12 0.91 34.91 3.18
773 1755 4.091509 GTGCTACCGAGTTGTTGATAGTTG 59.908 45.833 0.00 0.00 0.00 3.16
817 1816 4.467082 TGATAAATGGTTGCTCAGCCAATT 59.533 37.500 9.45 9.88 44.85 2.32
825 1824 5.123227 GGTTGCTCAGCCAATTACTGTATA 58.877 41.667 0.00 0.00 36.50 1.47
852 1851 4.799564 TTGAGGCAACAGTTTGTTTTCT 57.200 36.364 0.00 0.00 38.77 2.52
883 1882 7.646130 ACAATGTTTACAATTTACTGTGAACCG 59.354 33.333 8.37 1.91 42.26 4.44
900 1899 7.262772 TGTGAACCGTTCTGATTAACTATAGG 58.737 38.462 12.43 0.00 0.00 2.57
940 1939 1.477105 TTTATGCTGCTCGATCGTCG 58.523 50.000 15.94 8.81 42.10 5.12
967 1968 6.753279 ACAATATTCATTCGCCTCAAAACATG 59.247 34.615 0.00 0.00 0.00 3.21
984 1985 8.590204 TCAAAACATGAGGTACTAATCAGTGTA 58.410 33.333 0.00 0.00 41.55 2.90
989 1990 8.417106 ACATGAGGTACTAATCAGTGTAATCTG 58.583 37.037 0.00 0.00 41.55 2.90
1008 2009 1.530720 TGTTGTGCAGCAATGTCTACG 59.469 47.619 0.00 0.00 39.55 3.51
1022 2023 2.568062 TGTCTACGCCAACTGGGAATTA 59.432 45.455 0.00 0.00 40.01 1.40
1035 2045 2.207590 GGGAATTACGTTCATCCGGAC 58.792 52.381 6.12 0.00 38.64 4.79
1059 2069 5.238650 CGTGGTACTGTTTTTCTCCATCTTT 59.761 40.000 0.00 0.00 0.00 2.52
1158 2168 7.497579 TGCTCAACAATACTACAGAGTTTTGAA 59.502 33.333 13.06 1.37 43.47 2.69
1165 2175 5.824243 ACTACAGAGTTTTGAATTCGTCG 57.176 39.130 0.04 0.00 28.61 5.12
1421 2439 7.129457 TGCTATTGATGGACTTCACTTCTAT 57.871 36.000 0.00 0.00 0.00 1.98
1479 2498 8.909923 ACAAATAACAGCTAGTTTGTTTAAGGT 58.090 29.630 16.40 9.89 40.70 3.50
1519 2539 1.005097 TGATCATCAGGCTGCTTTGGT 59.995 47.619 10.34 3.41 0.00 3.67
1524 2544 2.203538 AGGCTGCTTTGGTGTGGG 60.204 61.111 0.00 0.00 0.00 4.61
1565 2585 2.385013 TCCATGTTCTCATGTGGTCG 57.615 50.000 7.30 0.00 46.99 4.79
1672 2693 3.181510 GGCCACACGTATTGATGAAAGTC 60.182 47.826 0.00 0.00 0.00 3.01
1682 2703 7.494625 ACGTATTGATGAAAGTCGGTTGATTAT 59.505 33.333 0.00 0.00 0.00 1.28
1693 2714 2.223377 CGGTTGATTATCTAAAGGGCGC 59.777 50.000 0.00 0.00 0.00 6.53
1712 2733 1.334556 GCGCATGCCATTATGTTCTGA 59.665 47.619 13.15 0.00 33.98 3.27
1724 2745 7.489113 GCCATTATGTTCTGAAGGTAATGTTTG 59.511 37.037 21.18 13.50 33.21 2.93
1726 2747 9.912634 CATTATGTTCTGAAGGTAATGTTTGTT 57.087 29.630 17.87 0.00 31.45 2.83
1730 2751 9.965824 ATGTTCTGAAGGTAATGTTTGTTAAAG 57.034 29.630 0.00 0.00 0.00 1.85
1845 2885 8.327941 ACATGGTCATATCACTTTATACATGC 57.672 34.615 0.00 0.00 36.40 4.06
1862 2902 5.505173 ACATGCTACTTGTTTATCCATGC 57.495 39.130 0.00 0.00 33.72 4.06
1985 3027 8.247562 CAGTTAGATAATGTAGATACTCAGCCC 58.752 40.741 0.00 0.00 0.00 5.19
2125 3167 4.161333 GTTTTGAATGATGTGCTTCGAGG 58.839 43.478 0.00 0.00 0.00 4.63
2295 3339 5.756195 TTTGACCAGAAACATCTGTCAAG 57.244 39.130 16.06 2.89 38.12 3.02
2302 3346 2.376808 AACATCTGTCAAGGAGAGCG 57.623 50.000 0.00 0.00 0.00 5.03
2472 3516 7.283580 TCTGTAGAGAGTATTTCTAGCAAGGAC 59.716 40.741 0.00 0.00 35.87 3.85
2615 3659 4.482386 TCGATCGTAAGTTTCCTCTTGTG 58.518 43.478 15.94 0.00 39.48 3.33
3265 4318 1.680735 TGCAGCAATCGAGGTTTGTTT 59.319 42.857 0.00 0.00 0.00 2.83
3284 4337 7.411486 TTGTTTTCCCAGTGTATTTTCTCAA 57.589 32.000 0.00 0.00 0.00 3.02
3358 4411 7.439655 TGTTTCAGTTTGTGCAACTTTAAGTTT 59.560 29.630 7.71 0.00 43.89 2.66
3399 4452 7.048512 GCTACATTGTCTAAAATAGTGGAGGT 58.951 38.462 0.00 0.00 0.00 3.85
3429 4485 1.985159 ACTTGGCCTACTTGTCCATCA 59.015 47.619 3.32 0.00 0.00 3.07
3577 4636 0.674895 AAACGAGGTGAGCTGCATCC 60.675 55.000 1.02 0.84 0.00 3.51
3639 4698 7.549488 ACGATTTCTTCCATAGTTTTAGTCCAG 59.451 37.037 0.00 0.00 0.00 3.86
3753 4812 7.172532 TGAACAACTTTGTACTAAATCAGCGAT 59.827 33.333 0.00 0.00 41.31 4.58
3769 4828 5.334319 TCAGCGATACTTAATTTCGAACGA 58.666 37.500 0.00 0.00 34.92 3.85
3804 4864 5.604231 AGATAGCATCTGGATGGTTAGAACA 59.396 40.000 18.26 2.60 46.20 3.18
4170 5230 0.401395 ACAACTTCAGGGGTCAGGGA 60.401 55.000 0.00 0.00 0.00 4.20
4171 5231 0.326264 CAACTTCAGGGGTCAGGGAG 59.674 60.000 0.00 0.00 0.00 4.30
4181 5241 1.004440 GTCAGGGAGCGAGCTTTGT 60.004 57.895 0.00 0.00 0.00 2.83
4190 5250 1.949525 AGCGAGCTTTGTGAACAACAT 59.050 42.857 0.00 0.00 38.99 2.71
4325 5385 2.284625 AGGCCATGGTCGAGGACA 60.285 61.111 14.67 0.00 34.45 4.02
4354 5414 1.262417 TGACTACCGCCAGAATGACA 58.738 50.000 0.00 0.00 39.69 3.58
4434 5494 0.617820 ACTACCGCCAGAACAGGGAT 60.618 55.000 0.00 0.00 0.00 3.85
4676 5736 1.812235 TAGTGTGTGCAATCCAGCAG 58.188 50.000 0.00 0.00 46.69 4.24
4683 5743 0.543277 TGCAATCCAGCAGAGTAGGG 59.457 55.000 0.00 0.00 40.11 3.53
4722 5782 0.390603 TGATACTGTTTCGCACCCCG 60.391 55.000 0.00 0.00 38.61 5.73
4736 5796 2.395619 CACCCCGTACTCCTTTAGGAT 58.604 52.381 0.00 0.00 44.46 3.24
4737 5797 2.364647 CACCCCGTACTCCTTTAGGATC 59.635 54.545 0.00 0.00 44.46 3.36
4784 5849 4.386867 TCAACCTGATGATACCTCGTTC 57.613 45.455 0.00 0.00 0.00 3.95
4815 5880 2.229792 CTCTTTTGTGGCTGGTTGCTA 58.770 47.619 0.00 0.00 42.39 3.49
5017 6216 7.593825 ACAGCTAAAAATTCGCTATTTCACTT 58.406 30.769 0.00 0.00 35.39 3.16
5018 6217 8.726988 ACAGCTAAAAATTCGCTATTTCACTTA 58.273 29.630 0.00 0.00 35.39 2.24
5019 6218 9.722056 CAGCTAAAAATTCGCTATTTCACTTAT 57.278 29.630 0.00 0.00 35.39 1.73
5020 6219 9.722056 AGCTAAAAATTCGCTATTTCACTTATG 57.278 29.630 0.00 0.00 35.39 1.90
5021 6220 9.503427 GCTAAAAATTCGCTATTTCACTTATGT 57.497 29.630 0.00 0.00 35.39 2.29
5073 6272 3.386726 GTCATGTGTGGCTGGGTATACTA 59.613 47.826 2.25 0.00 0.00 1.82
5074 6273 3.386726 TCATGTGTGGCTGGGTATACTAC 59.613 47.826 2.25 0.00 0.00 2.73
5075 6274 3.110293 TGTGTGGCTGGGTATACTACT 57.890 47.619 2.25 0.00 0.00 2.57
5109 6336 5.526506 AAAGACCTGAAGTGTTAGTACGT 57.473 39.130 0.00 0.00 30.34 3.57
5110 6337 4.762956 AGACCTGAAGTGTTAGTACGTC 57.237 45.455 0.00 0.00 0.00 4.34
5112 6339 5.555017 AGACCTGAAGTGTTAGTACGTCTA 58.445 41.667 0.00 0.00 31.58 2.59
5113 6340 5.642919 AGACCTGAAGTGTTAGTACGTCTAG 59.357 44.000 0.00 0.00 31.58 2.43
5114 6341 5.312079 ACCTGAAGTGTTAGTACGTCTAGT 58.688 41.667 0.00 0.00 31.58 2.57
5115 6342 5.411053 ACCTGAAGTGTTAGTACGTCTAGTC 59.589 44.000 0.00 0.00 31.58 2.59
5116 6343 5.642919 CCTGAAGTGTTAGTACGTCTAGTCT 59.357 44.000 0.00 0.00 31.58 3.24
5117 6344 6.149142 CCTGAAGTGTTAGTACGTCTAGTCTT 59.851 42.308 0.00 0.76 31.58 3.01
5118 6345 7.308469 CCTGAAGTGTTAGTACGTCTAGTCTTT 60.308 40.741 0.00 0.00 31.58 2.52
5119 6346 7.579726 TGAAGTGTTAGTACGTCTAGTCTTTC 58.420 38.462 0.00 0.00 31.58 2.62
5120 6347 7.227314 TGAAGTGTTAGTACGTCTAGTCTTTCA 59.773 37.037 0.00 1.77 31.58 2.69
5121 6348 7.502120 AGTGTTAGTACGTCTAGTCTTTCAA 57.498 36.000 0.00 0.00 0.00 2.69
5122 6349 7.934457 AGTGTTAGTACGTCTAGTCTTTCAAA 58.066 34.615 0.00 0.00 0.00 2.69
5123 6350 8.574737 AGTGTTAGTACGTCTAGTCTTTCAAAT 58.425 33.333 0.00 0.00 0.00 2.32
5124 6351 8.636843 GTGTTAGTACGTCTAGTCTTTCAAATG 58.363 37.037 0.00 0.00 0.00 2.32
5125 6352 7.327761 TGTTAGTACGTCTAGTCTTTCAAATGC 59.672 37.037 0.00 0.00 0.00 3.56
5126 6353 5.779922 AGTACGTCTAGTCTTTCAAATGCA 58.220 37.500 0.00 0.00 0.00 3.96
5127 6354 6.398918 AGTACGTCTAGTCTTTCAAATGCAT 58.601 36.000 0.00 0.00 0.00 3.96
5128 6355 5.786401 ACGTCTAGTCTTTCAAATGCATC 57.214 39.130 0.00 0.00 0.00 3.91
5129 6356 5.237815 ACGTCTAGTCTTTCAAATGCATCA 58.762 37.500 0.00 0.00 0.00 3.07
5130 6357 5.700832 ACGTCTAGTCTTTCAAATGCATCAA 59.299 36.000 0.00 0.00 0.00 2.57
5131 6358 6.017933 CGTCTAGTCTTTCAAATGCATCAAC 58.982 40.000 0.00 0.00 0.00 3.18
5132 6359 6.347644 CGTCTAGTCTTTCAAATGCATCAACA 60.348 38.462 0.00 0.00 0.00 3.33
5133 6360 6.798959 GTCTAGTCTTTCAAATGCATCAACAC 59.201 38.462 0.00 0.00 0.00 3.32
5134 6361 5.518848 AGTCTTTCAAATGCATCAACACA 57.481 34.783 0.00 0.00 0.00 3.72
5135 6362 5.904941 AGTCTTTCAAATGCATCAACACAA 58.095 33.333 0.00 0.00 0.00 3.33
5136 6363 6.339730 AGTCTTTCAAATGCATCAACACAAA 58.660 32.000 0.00 0.00 0.00 2.83
5137 6364 6.817641 AGTCTTTCAAATGCATCAACACAAAA 59.182 30.769 0.00 0.00 0.00 2.44
5146 6373 4.634883 TGCATCAACACAAAACAAAGCATT 59.365 33.333 0.00 0.00 0.00 3.56
5151 6378 7.840342 TCAACACAAAACAAAGCATTATTGT 57.160 28.000 0.00 0.00 42.56 2.71
5233 6460 0.251608 ATCCAACAAAAGTCCGGGGG 60.252 55.000 0.00 0.00 0.00 5.40
5246 6473 0.251608 CCGGGGGAACTGAAAACCAT 60.252 55.000 0.00 0.00 0.00 3.55
5250 6477 2.089201 GGGGAACTGAAAACCATACCG 58.911 52.381 0.00 0.00 0.00 4.02
5282 6518 5.605534 TCATCTCCTCTAGCAAACTTATGC 58.394 41.667 0.00 0.00 46.78 3.14
5291 6527 0.109781 CAAACTTATGCGCGGCAACT 60.110 50.000 8.83 0.00 43.62 3.16
5339 6575 5.692781 AGCCTTTACCTCAACAAAGGATTGA 60.693 40.000 15.48 0.00 45.75 2.57
5343 6579 4.568152 ACCTCAACAAAGGATTGAAACG 57.432 40.909 0.00 0.00 38.87 3.60
5345 6581 4.401202 ACCTCAACAAAGGATTGAAACGTT 59.599 37.500 0.00 0.00 38.87 3.99
5358 6594 7.665974 AGGATTGAAACGTTTCCTTAATCTCTT 59.334 33.333 30.91 21.73 34.98 2.85
5373 6609 2.440247 CTTCAATCCACGGCCCCC 60.440 66.667 0.00 0.00 0.00 5.40
5472 6708 3.618690 ACATTTCTCTCCTGTGCTACC 57.381 47.619 0.00 0.00 0.00 3.18
5502 6738 1.002430 CTTCTGCAAGCCAGTACCTCA 59.998 52.381 0.00 0.00 42.38 3.86
5587 6823 1.473278 GGTCACGGAGAACTAGACCTG 59.527 57.143 0.00 0.00 44.10 4.00
5627 6863 0.666913 TTCGTAGTAGCTCCATCGGC 59.333 55.000 0.00 0.00 0.00 5.54
5654 6890 0.038166 TTGATCCACCCCTCAACAGC 59.962 55.000 0.00 0.00 0.00 4.40
5655 6891 1.133181 TGATCCACCCCTCAACAGCA 61.133 55.000 0.00 0.00 0.00 4.41
5656 6892 0.393537 GATCCACCCCTCAACAGCAG 60.394 60.000 0.00 0.00 0.00 4.24
5657 6893 1.136329 ATCCACCCCTCAACAGCAGT 61.136 55.000 0.00 0.00 0.00 4.40
5658 6894 1.601759 CCACCCCTCAACAGCAGTG 60.602 63.158 0.00 0.00 0.00 3.66
5659 6895 1.601759 CACCCCTCAACAGCAGTGG 60.602 63.158 0.00 0.00 0.00 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.949238 ACGTAAACCCCATTACATAAACCC 59.051 41.667 0.00 0.00 35.89 4.11
1 2 7.622893 TTACGTAAACCCCATTACATAAACC 57.377 36.000 5.31 0.00 35.89 3.27
2 3 8.130469 CCATTACGTAAACCCCATTACATAAAC 58.870 37.037 12.81 0.00 35.89 2.01
3 4 7.833183 ACCATTACGTAAACCCCATTACATAAA 59.167 33.333 12.81 0.00 35.89 1.40
4 5 7.344913 ACCATTACGTAAACCCCATTACATAA 58.655 34.615 12.81 0.00 35.89 1.90
5 6 6.897986 ACCATTACGTAAACCCCATTACATA 58.102 36.000 12.81 0.00 35.89 2.29
6 7 5.757988 ACCATTACGTAAACCCCATTACAT 58.242 37.500 12.81 0.00 35.89 2.29
7 8 5.176741 ACCATTACGTAAACCCCATTACA 57.823 39.130 12.81 0.00 35.89 2.41
8 9 6.072008 ACAAACCATTACGTAAACCCCATTAC 60.072 38.462 12.81 0.00 33.40 1.89
9 10 6.008960 ACAAACCATTACGTAAACCCCATTA 58.991 36.000 12.81 0.00 0.00 1.90
10 11 4.833938 ACAAACCATTACGTAAACCCCATT 59.166 37.500 12.81 0.87 0.00 3.16
11 12 4.409187 ACAAACCATTACGTAAACCCCAT 58.591 39.130 12.81 0.00 0.00 4.00
12 13 3.830121 ACAAACCATTACGTAAACCCCA 58.170 40.909 12.81 0.00 0.00 4.96
28 29 8.460831 AATAAAGGCGACAATTTCATACAAAC 57.539 30.769 0.00 0.00 0.00 2.93
35 36 9.607988 TCTAGATAAATAAAGGCGACAATTTCA 57.392 29.630 0.00 0.00 0.00 2.69
36 37 9.865484 GTCTAGATAAATAAAGGCGACAATTTC 57.135 33.333 0.00 0.00 0.00 2.17
40 45 7.705325 GTCTGTCTAGATAAATAAAGGCGACAA 59.295 37.037 0.00 0.00 34.94 3.18
60 65 3.625764 AGCGACTGAGAATCTAGTCTGTC 59.374 47.826 13.75 7.59 39.49 3.51
62 67 5.940192 ATAGCGACTGAGAATCTAGTCTG 57.060 43.478 13.75 10.15 39.49 3.51
64 69 8.347035 AGTTTAATAGCGACTGAGAATCTAGTC 58.653 37.037 8.73 8.73 38.80 2.59
65 70 8.228035 AGTTTAATAGCGACTGAGAATCTAGT 57.772 34.615 0.00 0.00 34.92 2.57
68 73 9.469807 CATTAGTTTAATAGCGACTGAGAATCT 57.530 33.333 0.00 0.00 34.92 2.40
69 74 9.250624 ACATTAGTTTAATAGCGACTGAGAATC 57.749 33.333 0.00 0.00 0.00 2.52
72 77 7.491372 CCAACATTAGTTTAATAGCGACTGAGA 59.509 37.037 0.00 0.00 35.28 3.27
73 78 7.621991 CCAACATTAGTTTAATAGCGACTGAG 58.378 38.462 0.00 0.00 35.28 3.35
74 79 6.036735 GCCAACATTAGTTTAATAGCGACTGA 59.963 38.462 0.00 0.00 35.28 3.41
75 80 6.037172 AGCCAACATTAGTTTAATAGCGACTG 59.963 38.462 0.00 0.00 35.28 3.51
77 82 6.183360 ACAGCCAACATTAGTTTAATAGCGAC 60.183 38.462 0.00 0.00 35.28 5.19
79 84 6.119144 ACAGCCAACATTAGTTTAATAGCG 57.881 37.500 0.00 0.00 35.28 4.26
80 85 7.484959 GTCAACAGCCAACATTAGTTTAATAGC 59.515 37.037 0.00 0.00 35.28 2.97
81 86 8.730680 AGTCAACAGCCAACATTAGTTTAATAG 58.269 33.333 0.00 0.00 35.28 1.73
98 1080 1.680338 ACTCCAAACCAGTCAACAGC 58.320 50.000 0.00 0.00 0.00 4.40
171 1153 9.422681 ACAAGACTCATAAGCTACCTATCTAAA 57.577 33.333 0.00 0.00 0.00 1.85
172 1154 8.998277 ACAAGACTCATAAGCTACCTATCTAA 57.002 34.615 0.00 0.00 0.00 2.10
174 1156 9.019656 CATACAAGACTCATAAGCTACCTATCT 57.980 37.037 0.00 0.00 0.00 1.98
183 1165 6.818644 TCTGAAACCATACAAGACTCATAAGC 59.181 38.462 0.00 0.00 0.00 3.09
199 1181 3.230134 CTCCCACCAAAATCTGAAACCA 58.770 45.455 0.00 0.00 0.00 3.67
201 1183 3.636764 ACACTCCCACCAAAATCTGAAAC 59.363 43.478 0.00 0.00 0.00 2.78
219 1201 1.181098 GCAGGGTGCCATGAAACACT 61.181 55.000 7.09 5.33 37.42 3.55
234 1216 4.056740 CAATACTAGATGTCTGCAGCAGG 58.943 47.826 22.62 6.79 32.61 4.85
235 1217 4.941657 TCAATACTAGATGTCTGCAGCAG 58.058 43.478 17.10 17.10 32.61 4.24
248 1230 6.757897 TCCACAAGGCAAAATCAATACTAG 57.242 37.500 0.00 0.00 33.74 2.57
250 1232 5.304101 TGTTCCACAAGGCAAAATCAATACT 59.696 36.000 0.00 0.00 33.74 2.12
257 1239 5.806654 AACTATGTTCCACAAGGCAAAAT 57.193 34.783 0.00 0.00 33.74 1.82
266 1248 4.749099 GCATTGCAAAAACTATGTTCCACA 59.251 37.500 1.71 0.00 0.00 4.17
276 1258 4.519540 AACCTATCGCATTGCAAAAACT 57.480 36.364 1.71 0.00 0.00 2.66
277 1259 4.447389 ACAAACCTATCGCATTGCAAAAAC 59.553 37.500 1.71 0.00 0.00 2.43
290 1272 2.884639 ACCAGTTGCACACAAACCTATC 59.115 45.455 0.00 0.00 37.58 2.08
296 1278 4.709250 TCACTATACCAGTTGCACACAAA 58.291 39.130 0.00 0.00 37.58 2.83
299 1281 3.679980 CACTCACTATACCAGTTGCACAC 59.320 47.826 0.00 0.00 34.26 3.82
306 1288 5.248477 ACATCAAACCACTCACTATACCAGT 59.752 40.000 0.00 0.00 38.32 4.00
318 1300 5.650266 TGAACAAACTACACATCAAACCACT 59.350 36.000 0.00 0.00 0.00 4.00
331 1313 9.946165 AACTAGCTAACAAAATGAACAAACTAC 57.054 29.630 0.00 0.00 0.00 2.73
432 1414 9.678941 AAAGTTAGCTTTAATTGCTTTCTACAC 57.321 29.630 2.31 0.00 42.60 2.90
454 1436 8.888716 GGAAATAAAACAAACCATCACAAAAGT 58.111 29.630 0.00 0.00 0.00 2.66
468 1450 8.592809 AGCCTATCAACATTGGAAATAAAACAA 58.407 29.630 0.00 0.00 0.00 2.83
469 1451 8.133024 AGCCTATCAACATTGGAAATAAAACA 57.867 30.769 0.00 0.00 0.00 2.83
470 1452 8.250332 TGAGCCTATCAACATTGGAAATAAAAC 58.750 33.333 0.00 0.00 34.02 2.43
471 1453 8.359875 TGAGCCTATCAACATTGGAAATAAAA 57.640 30.769 0.00 0.00 34.02 1.52
472 1454 7.068593 CCTGAGCCTATCAACATTGGAAATAAA 59.931 37.037 0.00 0.00 37.52 1.40
473 1455 6.547141 CCTGAGCCTATCAACATTGGAAATAA 59.453 38.462 0.00 0.00 37.52 1.40
474 1456 6.064060 CCTGAGCCTATCAACATTGGAAATA 58.936 40.000 0.00 0.00 37.52 1.40
475 1457 4.891756 CCTGAGCCTATCAACATTGGAAAT 59.108 41.667 0.00 0.00 37.52 2.17
495 1477 6.506500 AATTTATTCAGCAGACTCAACCTG 57.493 37.500 0.00 0.00 34.88 4.00
533 1515 3.130869 TCCCAAATTTCTGCCAATCATCG 59.869 43.478 0.00 0.00 0.00 3.84
543 1525 8.059798 ACTCATAATTGTCTCCCAAATTTCTG 57.940 34.615 0.00 0.00 36.44 3.02
555 1537 6.839124 TGGCATTTGAACTCATAATTGTCT 57.161 33.333 0.00 0.00 0.00 3.41
672 1654 6.293081 GGCACAACTTACATAGCATGTATCAG 60.293 42.308 9.00 7.63 44.51 2.90
673 1655 5.527214 GGCACAACTTACATAGCATGTATCA 59.473 40.000 9.00 0.00 44.51 2.15
674 1656 5.527214 TGGCACAACTTACATAGCATGTATC 59.473 40.000 9.00 0.00 39.79 2.24
675 1657 5.436175 TGGCACAACTTACATAGCATGTAT 58.564 37.500 9.00 0.00 39.79 2.29
676 1658 4.837972 TGGCACAACTTACATAGCATGTA 58.162 39.130 0.00 5.28 39.34 2.29
677 1659 3.684908 TGGCACAACTTACATAGCATGT 58.315 40.909 6.93 6.93 41.19 3.21
745 1727 1.037493 ACAACTCGGTAGCACAGTGA 58.963 50.000 4.15 0.00 0.00 3.41
753 1735 6.590357 CAAACAACTATCAACAACTCGGTAG 58.410 40.000 0.00 0.00 0.00 3.18
757 1739 4.219033 GGCAAACAACTATCAACAACTCG 58.781 43.478 0.00 0.00 0.00 4.18
795 1777 4.660789 ATTGGCTGAGCAACCATTTATC 57.339 40.909 6.82 0.00 35.42 1.75
799 1798 3.194116 CAGTAATTGGCTGAGCAACCATT 59.806 43.478 6.82 0.00 35.42 3.16
817 1816 6.953101 TGTTGCCTCAAAGGAATATACAGTA 58.047 36.000 0.00 0.00 37.67 2.74
825 1824 3.706086 ACAAACTGTTGCCTCAAAGGAAT 59.294 39.130 0.00 0.00 36.40 3.01
852 1851 8.598924 CACAGTAAATTGTAAACATTGTTGCAA 58.401 29.630 16.74 16.74 37.47 4.08
916 1915 2.866156 CGATCGAGCAGCATAAAAAGGA 59.134 45.455 10.26 0.00 0.00 3.36
917 1916 2.609459 ACGATCGAGCAGCATAAAAAGG 59.391 45.455 24.34 0.00 0.00 3.11
940 1939 3.969117 TGAGGCGAATGAATATTGTGC 57.031 42.857 0.00 0.00 0.00 4.57
967 1968 8.251721 ACAACAGATTACACTGATTAGTACCTC 58.748 37.037 0.00 0.00 40.63 3.85
970 1971 7.330946 TGCACAACAGATTACACTGATTAGTAC 59.669 37.037 0.00 0.00 40.63 2.73
989 1990 1.725931 GCGTAGACATTGCTGCACAAC 60.726 52.381 0.00 0.00 42.27 3.32
1008 2009 2.156098 TGAACGTAATTCCCAGTTGGC 58.844 47.619 0.00 0.00 36.36 4.52
1022 2023 1.243342 TACCACGTCCGGATGAACGT 61.243 55.000 30.28 21.30 39.55 3.99
1035 2045 4.315803 AGATGGAGAAAAACAGTACCACG 58.684 43.478 0.00 0.00 0.00 4.94
1158 2168 0.807667 GACATGCTCTGGCGACGAAT 60.808 55.000 0.00 0.00 42.25 3.34
1165 2175 2.338577 ACTTATGGACATGCTCTGGC 57.661 50.000 0.00 0.00 39.26 4.85
1266 2284 4.657436 AGAATACTACTGCTGTACTGCC 57.343 45.455 20.46 5.00 0.00 4.85
1311 2329 7.383029 CCACCTAATCGCGTTTAATCTATACAA 59.617 37.037 5.77 0.00 0.00 2.41
1327 2345 6.480320 CCTGAATTCTAGTTTCCACCTAATCG 59.520 42.308 7.05 0.00 0.00 3.34
1421 2439 8.840321 GCTATTCTAATTCTAAGTGGCAAATCA 58.160 33.333 0.00 0.00 0.00 2.57
1479 2498 5.956068 TCACAACATGCTAGCAAAATGTA 57.044 34.783 23.54 11.73 33.48 2.29
1480 2499 4.852134 TCACAACATGCTAGCAAAATGT 57.148 36.364 23.54 21.63 36.10 2.71
1481 2500 5.404096 TGATCACAACATGCTAGCAAAATG 58.596 37.500 23.54 21.00 0.00 2.32
1519 2539 3.524095 ATCCTGTTGTGAATTCCCACA 57.476 42.857 2.27 0.00 44.45 4.17
1524 2544 7.103641 TGGAAGTAGTATCCTGTTGTGAATTC 58.896 38.462 0.00 0.00 37.85 2.17
1535 2555 7.060383 CATGAGAACATGGAAGTAGTATCCT 57.940 40.000 0.00 0.00 46.95 3.24
1672 2693 2.223377 GCGCCCTTTAGATAATCAACCG 59.777 50.000 0.00 0.00 0.00 4.44
1682 2703 3.202001 GCATGCGCGCCCTTTAGA 61.202 61.111 30.77 8.32 0.00 2.10
1693 2714 3.549423 CCTTCAGAACATAATGGCATGCG 60.549 47.826 12.44 0.00 0.00 4.73
1712 2733 9.308000 TGGATGATCTTTAACAAACATTACCTT 57.692 29.630 0.00 0.00 0.00 3.50
1729 2750 8.114102 AGGCAAATGATATTACATGGATGATCT 58.886 33.333 0.00 0.00 0.00 2.75
1730 2751 8.188799 CAGGCAAATGATATTACATGGATGATC 58.811 37.037 0.00 0.00 0.00 2.92
1732 2753 6.071784 GCAGGCAAATGATATTACATGGATGA 60.072 38.462 0.00 0.00 0.00 2.92
1733 2754 6.097356 GCAGGCAAATGATATTACATGGATG 58.903 40.000 0.00 0.00 0.00 3.51
1845 2885 6.480320 GTGACTAGGCATGGATAAACAAGTAG 59.520 42.308 0.00 0.00 0.00 2.57
1862 2902 8.258007 TCAGTTATAACAAATCAGGTGACTAGG 58.742 37.037 17.65 0.00 40.21 3.02
2125 3167 1.750399 AATGGCATCTCCGGCACAC 60.750 57.895 0.00 0.00 45.13 3.82
2295 3339 2.680352 TCTGGGTCCACGCTCTCC 60.680 66.667 0.00 0.00 0.00 3.71
2302 3346 0.107459 GATGGAAGCTCTGGGTCCAC 60.107 60.000 6.22 0.00 32.85 4.02
2598 3642 4.211374 CAGGAACACAAGAGGAAACTTACG 59.789 45.833 0.00 0.00 44.43 3.18
2615 3659 1.152830 TGGGGGAAACTGCAGGAAC 59.847 57.895 19.93 8.15 0.00 3.62
2684 3728 4.568359 AGTAAGCAAGCATAACAGATCGTG 59.432 41.667 0.00 0.00 0.00 4.35
2685 3729 4.568359 CAGTAAGCAAGCATAACAGATCGT 59.432 41.667 0.00 0.00 0.00 3.73
2700 3745 1.694150 AGTCACAGAAGCCAGTAAGCA 59.306 47.619 0.00 0.00 34.23 3.91
3265 4318 5.106317 GCGAATTGAGAAAATACACTGGGAA 60.106 40.000 0.00 0.00 0.00 3.97
3399 4452 6.775708 ACAAGTAGGCCAAGTTACAATTAGA 58.224 36.000 5.01 0.00 0.00 2.10
3429 4485 8.689061 TGCAGATACTTAAAATGCTGAAATGAT 58.311 29.630 0.00 0.00 37.76 2.45
3577 4636 5.987347 TGCATATATGATGTGCCGATATCAG 59.013 40.000 17.10 0.00 45.45 2.90
3614 4673 7.466050 GCTGGACTAAAACTATGGAAGAAATCG 60.466 40.741 0.00 0.00 0.00 3.34
3639 4698 1.537202 GACATGTCCACCTGTGAAAGC 59.463 52.381 15.31 0.00 0.00 3.51
3769 4828 8.976353 CATCCAGATGCTATCTTATACTACCTT 58.024 37.037 0.00 0.00 37.58 3.50
4170 5230 1.378531 TGTTGTTCACAAAGCTCGCT 58.621 45.000 0.00 0.00 37.63 4.93
4171 5231 2.405892 ATGTTGTTCACAAAGCTCGC 57.594 45.000 0.00 0.00 39.50 5.03
4181 5241 5.410132 CCATCACGGTAGTTAATGTTGTTCA 59.590 40.000 0.00 0.00 0.00 3.18
4325 5385 1.972660 GCGGTAGTCATTCCCCTGCT 61.973 60.000 0.00 0.00 0.00 4.24
4434 5494 3.521605 CCGATCTGACGGTAGCCA 58.478 61.111 9.54 0.00 46.70 4.75
4467 5527 3.607163 CGGTAGCCGTCCCTGTTA 58.393 61.111 0.00 0.00 42.73 2.41
4676 5736 3.181498 GCGAACACTCTAGTTCCCTACTC 60.181 52.174 0.00 0.00 43.82 2.59
4683 5743 2.673368 CAATGGGCGAACACTCTAGTTC 59.327 50.000 0.00 0.00 43.39 3.01
4736 5796 3.126073 CGAGAGAATGCGGATGATTTGA 58.874 45.455 0.00 0.00 0.00 2.69
4737 5797 2.349249 GCGAGAGAATGCGGATGATTTG 60.349 50.000 0.00 0.00 0.00 2.32
5038 6237 2.102252 ACACATGACGGCCAACATTTTT 59.898 40.909 2.24 0.00 0.00 1.94
5039 6238 1.686052 ACACATGACGGCCAACATTTT 59.314 42.857 2.24 0.00 0.00 1.82
5040 6239 1.000385 CACACATGACGGCCAACATTT 60.000 47.619 2.24 0.00 0.00 2.32
5050 6249 0.107703 ATACCCAGCCACACATGACG 60.108 55.000 0.00 0.00 0.00 4.35
5073 6272 9.965902 ACTTCAGGTCTTTATTGATTGAATAGT 57.034 29.630 0.00 0.00 0.00 2.12
5075 6274 9.739276 ACACTTCAGGTCTTTATTGATTGAATA 57.261 29.630 0.00 0.00 0.00 1.75
5109 6336 6.486320 TGTGTTGATGCATTTGAAAGACTAGA 59.514 34.615 0.00 0.00 0.00 2.43
5110 6337 6.671190 TGTGTTGATGCATTTGAAAGACTAG 58.329 36.000 0.00 0.00 0.00 2.57
5112 6339 5.518848 TGTGTTGATGCATTTGAAAGACT 57.481 34.783 0.00 0.00 0.00 3.24
5113 6340 6.586868 TTTGTGTTGATGCATTTGAAAGAC 57.413 33.333 0.00 3.46 0.00 3.01
5114 6341 6.592994 TGTTTTGTGTTGATGCATTTGAAAGA 59.407 30.769 0.00 0.00 0.00 2.52
5115 6342 6.773080 TGTTTTGTGTTGATGCATTTGAAAG 58.227 32.000 0.00 0.00 0.00 2.62
5116 6343 6.732531 TGTTTTGTGTTGATGCATTTGAAA 57.267 29.167 0.00 0.00 0.00 2.69
5117 6344 6.732531 TTGTTTTGTGTTGATGCATTTGAA 57.267 29.167 0.00 0.00 0.00 2.69
5118 6345 6.675002 GCTTTGTTTTGTGTTGATGCATTTGA 60.675 34.615 0.00 0.00 0.00 2.69
5119 6346 5.452944 GCTTTGTTTTGTGTTGATGCATTTG 59.547 36.000 0.00 0.00 0.00 2.32
5120 6347 5.123502 TGCTTTGTTTTGTGTTGATGCATTT 59.876 32.000 0.00 0.00 0.00 2.32
5121 6348 4.634883 TGCTTTGTTTTGTGTTGATGCATT 59.365 33.333 0.00 0.00 0.00 3.56
5122 6349 4.190001 TGCTTTGTTTTGTGTTGATGCAT 58.810 34.783 0.00 0.00 0.00 3.96
5123 6350 3.593096 TGCTTTGTTTTGTGTTGATGCA 58.407 36.364 0.00 0.00 0.00 3.96
5124 6351 4.799419 ATGCTTTGTTTTGTGTTGATGC 57.201 36.364 0.00 0.00 0.00 3.91
5125 6352 8.336806 ACAATAATGCTTTGTTTTGTGTTGATG 58.663 29.630 8.39 0.00 33.64 3.07
5126 6353 8.436046 ACAATAATGCTTTGTTTTGTGTTGAT 57.564 26.923 8.39 0.00 33.64 2.57
5127 6354 7.840342 ACAATAATGCTTTGTTTTGTGTTGA 57.160 28.000 8.39 0.00 33.64 3.18
5172 6399 9.965748 CACCCAAACATTTAATTAAATAAAGCG 57.034 29.630 20.32 11.83 34.36 4.68
5189 6416 4.927978 ATTTCGAATGAACACCCAAACA 57.072 36.364 0.00 0.00 32.71 2.83
5204 6431 6.566942 CGGACTTTTGTTGGATGTAATTTCGA 60.567 38.462 0.00 0.00 0.00 3.71
5205 6432 5.567534 CGGACTTTTGTTGGATGTAATTTCG 59.432 40.000 0.00 0.00 0.00 3.46
5233 6460 5.927954 TTGTACGGTATGGTTTTCAGTTC 57.072 39.130 0.00 0.00 0.00 3.01
5246 6473 5.446860 AGAGGAGATGATCTTTGTACGGTA 58.553 41.667 0.00 0.00 0.00 4.02
5250 6477 6.398234 TGCTAGAGGAGATGATCTTTGTAC 57.602 41.667 0.00 0.00 0.00 2.90
5282 6518 2.673114 TTCCGCTAAAGTTGCCGCG 61.673 57.895 0.00 0.00 44.69 6.46
5286 6522 0.179258 CGACGTTCCGCTAAAGTTGC 60.179 55.000 0.00 0.00 29.28 4.17
5291 6527 0.109319 GGGTACGACGTTCCGCTAAA 60.109 55.000 16.23 0.00 0.00 1.85
5312 6548 3.435671 CCTTTGTTGAGGTAAAGGCTACG 59.564 47.826 0.00 0.00 44.40 3.51
5339 6575 7.447238 TGGATTGAAGAGATTAAGGAAACGTTT 59.553 33.333 14.57 14.57 0.00 3.60
5343 6579 6.183360 CCGTGGATTGAAGAGATTAAGGAAAC 60.183 42.308 0.00 0.00 0.00 2.78
5345 6581 5.428253 CCGTGGATTGAAGAGATTAAGGAA 58.572 41.667 0.00 0.00 0.00 3.36
5358 6594 3.727258 CTGGGGGCCGTGGATTGA 61.727 66.667 0.00 0.00 0.00 2.57
5373 6609 4.397417 CCAGGGAAGAATTTTAGCTCACTG 59.603 45.833 0.00 0.00 0.00 3.66
5472 6708 1.197264 GCTTGCAGAAGAGCAGTTCAG 59.803 52.381 3.21 0.00 46.54 3.02
5587 6823 0.673022 CAAGCTGACAGAGGTGGAGC 60.673 60.000 6.65 0.00 34.79 4.70
5627 6863 1.103398 GGGGTGGATCAAGGCGAATG 61.103 60.000 0.00 0.00 0.00 2.67


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

AutoCloner maintained by Alex Coulton.