Multiple sequence alignment - TraesCS3B01G330900

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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 TraesCS3B01G330900 chr3B 100.000 2418 0 0 1 2418 536048044 536050461 0.000000e+00 4466.0
1 TraesCS3B01G330900 chr3D 90.677 1684 100 28 1 1648 410299298 410300960 0.000000e+00 2187.0
2 TraesCS3B01G330900 chr3D 89.840 561 40 5 1753 2297 410301704 410302263 0.000000e+00 704.0
3 TraesCS3B01G330900 chr3A 86.680 1554 132 53 117 1649 541483873 541482374 0.000000e+00 1653.0
4 TraesCS3B01G330900 chr3A 96.629 89 3 0 1753 1841 541482227 541482139 5.390000e-32 148.0
5 TraesCS3B01G330900 chr2B 98.113 212 4 0 1209 1420 614644240 614644451 1.060000e-98 370.0
6 TraesCS3B01G330900 chr2B 97.642 212 5 0 1209 1420 109887974 109888185 4.910000e-97 364.0
7 TraesCS3B01G330900 chr2B 100.000 32 0 0 2369 2400 34805924 34805893 2.600000e-05 60.2
8 TraesCS3B01G330900 chr1D 97.196 214 6 0 1207 1420 288859574 288859787 1.770000e-96 363.0
9 TraesCS3B01G330900 chr1D 94.545 220 10 2 990 1208 288859307 288859525 2.980000e-89 339.0
10 TraesCS3B01G330900 chr1D 95.506 89 4 0 1753 1841 379472678 379472590 2.510000e-30 143.0
11 TraesCS3B01G330900 chr1D 100.000 30 0 0 4 33 457950626 457950655 3.360000e-04 56.5
12 TraesCS3B01G330900 chr1D 96.875 32 1 0 1 32 199952133 199952164 1.000000e-03 54.7
13 TraesCS3B01G330900 chr2A 96.698 212 7 0 1209 1420 354530187 354530398 1.060000e-93 353.0
14 TraesCS3B01G330900 chr2A 94.091 220 11 2 990 1208 354529918 354530136 1.390000e-87 333.0
15 TraesCS3B01G330900 chr1B 96.698 212 7 0 1209 1420 126922659 126922870 1.060000e-93 353.0
16 TraesCS3B01G330900 chr1B 93.182 220 13 2 990 1208 126922390 126922608 3.000000e-84 322.0
17 TraesCS3B01G330900 chr1B 96.629 89 2 1 1753 1841 551040417 551040504 1.940000e-31 147.0
18 TraesCS3B01G330900 chr1B 90.476 63 5 1 2302 2364 137616777 137616716 5.540000e-12 82.4
19 TraesCS3B01G330900 chr1B 100.000 29 0 0 4 32 636860174 636860202 1.000000e-03 54.7
20 TraesCS3B01G330900 chr7D 96.262 214 8 0 1207 1420 61522959 61522746 3.820000e-93 351.0
21 TraesCS3B01G330900 chr7D 93.636 220 11 3 990 1208 61523225 61523008 2.320000e-85 326.0
22 TraesCS3B01G330900 chr7D 84.337 83 10 2 2295 2377 4736920 4736841 7.170000e-11 78.7
23 TraesCS3B01G330900 chr7D 100.000 29 0 0 4 32 3273420 3273448 1.000000e-03 54.7
24 TraesCS3B01G330900 chr7D 100.000 29 0 0 4 32 25009560 25009532 1.000000e-03 54.7
25 TraesCS3B01G330900 chr1A 96.226 212 8 0 1209 1420 408632294 408632505 4.950000e-92 348.0
26 TraesCS3B01G330900 chr1A 92.727 220 14 2 990 1208 408632025 408632243 1.400000e-82 316.0
27 TraesCS3B01G330900 chr4D 94.545 220 10 2 990 1208 382848085 382847867 2.980000e-89 339.0
28 TraesCS3B01G330900 chr4D 95.506 89 4 0 1753 1841 30897372 30897284 2.510000e-30 143.0
29 TraesCS3B01G330900 chr4D 95.506 89 4 0 1753 1841 472487532 472487444 2.510000e-30 143.0
30 TraesCS3B01G330900 chr5B 93.636 220 12 2 990 1208 525549057 525548839 6.450000e-86 327.0
31 TraesCS3B01G330900 chr4A 96.629 89 3 0 1753 1841 17385863 17385951 5.390000e-32 148.0
32 TraesCS3B01G330900 chr4A 97.674 86 2 0 1753 1838 17386889 17386974 5.390000e-32 148.0
33 TraesCS3B01G330900 chr4A 88.732 71 7 1 2296 2366 64953533 64953464 4.280000e-13 86.1
34 TraesCS3B01G330900 chr7A 95.506 89 4 0 1753 1841 474737310 474737222 2.510000e-30 143.0
35 TraesCS3B01G330900 chr7A 100.000 36 0 0 2296 2331 253808147 253808182 1.550000e-07 67.6
36 TraesCS3B01G330900 chr6B 82.524 103 9 5 2296 2392 707161202 707161301 5.540000e-12 82.4
37 TraesCS3B01G330900 chr6B 97.500 40 1 0 2296 2335 8763519 8763558 4.310000e-08 69.4
38 TraesCS3B01G330900 chr7B 90.566 53 5 0 2298 2350 573266819 573266871 1.200000e-08 71.3
39 TraesCS3B01G330900 chr4B 88.525 61 4 3 2295 2353 440335014 440335073 1.200000e-08 71.3
40 TraesCS3B01G330900 chr4B 96.875 32 1 0 1 32 605173180 605173211 1.000000e-03 54.7
41 TraesCS3B01G330900 chr2D 84.058 69 11 0 2298 2366 193290999 193291067 1.550000e-07 67.6
42 TraesCS3B01G330900 chr2D 100.000 29 0 0 4 32 54584834 54584862 1.000000e-03 54.7
43 TraesCS3B01G330900 chr2D 100.000 29 0 0 4 32 471441069 471441097 1.000000e-03 54.7
44 TraesCS3B01G330900 chrUn 100.000 32 0 0 2369 2400 240837031 240837000 2.600000e-05 60.2
45 TraesCS3B01G330900 chrUn 100.000 32 0 0 2369 2400 477719459 477719428 2.600000e-05 60.2


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 TraesCS3B01G330900 chr3B 536048044 536050461 2417 False 4466.0 4466 100.0000 1 2418 1 chr3B.!!$F1 2417
1 TraesCS3B01G330900 chr3D 410299298 410302263 2965 False 1445.5 2187 90.2585 1 2297 2 chr3D.!!$F1 2296
2 TraesCS3B01G330900 chr3A 541482139 541483873 1734 True 900.5 1653 91.6545 117 1841 2 chr3A.!!$R1 1724

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
570 584 0.249238 ATCGATCGAGCCAGCAGAAC 60.249 55.0 23.84 0.0 0.0 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2353 3078 0.105593 CATCCATCAGACTGGTCCCG 59.894 60.0 1.81 0.0 37.57 5.14 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
59 60 7.722728 ACTCTTATATTATACTCACACCGTCCA 59.277 37.037 0.00 0.00 0.00 4.02
66 67 8.974060 ATTATACTCACACCGTCCAAAAATAT 57.026 30.769 0.00 0.00 0.00 1.28
67 68 8.795842 TTATACTCACACCGTCCAAAAATATT 57.204 30.769 0.00 0.00 0.00 1.28
69 70 8.795842 ATACTCACACCGTCCAAAAATATTTA 57.204 30.769 0.01 0.00 0.00 1.40
72 73 7.392113 ACTCACACCGTCCAAAAATATTTATCA 59.608 33.333 0.01 0.00 0.00 2.15
135 136 3.317993 ACCTTTTTGACACATGTACTGCC 59.682 43.478 0.00 0.00 0.00 4.85
315 316 0.882927 TCCGTTTCTGCTTGTTCCGG 60.883 55.000 0.00 0.00 35.41 5.14
329 330 3.605634 TGTTCCGGTCCAAGAATACATG 58.394 45.455 0.00 0.00 0.00 3.21
330 331 3.262151 TGTTCCGGTCCAAGAATACATGA 59.738 43.478 0.00 0.00 0.00 3.07
355 359 0.541392 TGGACCACGAGGATGGATTG 59.459 55.000 5.68 0.00 43.02 2.67
356 360 0.830648 GGACCACGAGGATGGATTGA 59.169 55.000 5.68 0.00 43.02 2.57
357 361 1.209504 GGACCACGAGGATGGATTGAA 59.790 52.381 5.68 0.00 43.02 2.69
358 362 2.280628 GACCACGAGGATGGATTGAAC 58.719 52.381 5.68 0.00 43.02 3.18
359 363 1.628340 ACCACGAGGATGGATTGAACA 59.372 47.619 5.68 0.00 43.02 3.18
360 364 2.283298 CCACGAGGATGGATTGAACAG 58.717 52.381 0.00 0.00 43.02 3.16
386 390 1.890876 TCACTGTAACCCACACATGC 58.109 50.000 0.00 0.00 32.33 4.06
397 401 6.709018 AACCCACACATGCCTTAATAATAC 57.291 37.500 0.00 0.00 0.00 1.89
398 402 4.819630 ACCCACACATGCCTTAATAATACG 59.180 41.667 0.00 0.00 0.00 3.06
399 403 4.819630 CCCACACATGCCTTAATAATACGT 59.180 41.667 0.00 0.00 0.00 3.57
400 404 5.992829 CCCACACATGCCTTAATAATACGTA 59.007 40.000 0.00 0.00 0.00 3.57
401 405 6.483974 CCCACACATGCCTTAATAATACGTAA 59.516 38.462 0.00 0.00 0.00 3.18
402 406 7.174253 CCCACACATGCCTTAATAATACGTAAT 59.826 37.037 0.00 0.00 0.00 1.89
403 407 9.210329 CCACACATGCCTTAATAATACGTAATA 57.790 33.333 0.00 0.00 0.00 0.98
423 427 8.917218 CGTAATAATGAAAGTAGTAAAAACGCG 58.083 33.333 3.53 3.53 0.00 6.01
427 431 3.059461 TGAAAGTAGTAAAAACGCGGCTG 60.059 43.478 12.47 0.00 0.00 4.85
564 578 5.200454 CAACAAAAATATCGATCGAGCCAG 58.800 41.667 23.84 11.23 0.00 4.85
570 584 0.249238 ATCGATCGAGCCAGCAGAAC 60.249 55.000 23.84 0.00 0.00 3.01
571 585 1.140589 CGATCGAGCCAGCAGAACT 59.859 57.895 10.26 0.00 0.00 3.01
572 586 0.382158 CGATCGAGCCAGCAGAACTA 59.618 55.000 10.26 0.00 0.00 2.24
573 587 1.846541 GATCGAGCCAGCAGAACTAC 58.153 55.000 0.00 0.00 0.00 2.73
625 639 5.347364 ACGCCAACCATTTTAAATTCAATCG 59.653 36.000 0.00 0.00 0.00 3.34
640 654 8.803201 AAATTCAATCGAAAGGAGAAAAGAAC 57.197 30.769 0.00 0.00 34.01 3.01
658 675 0.882042 ACGAACTCAGCAGGCAACAG 60.882 55.000 0.00 0.00 41.41 3.16
678 695 4.174009 CAGCAGCATCTCCATTTTCAAAG 58.826 43.478 0.00 0.00 0.00 2.77
765 789 0.537188 CTGGAGGTGGTCGTTAGCAT 59.463 55.000 0.00 0.00 35.16 3.79
845 873 1.945394 GTGAACTCCGTAGCTATCCGA 59.055 52.381 5.39 0.00 0.00 4.55
981 1024 1.067516 GAGCAGAGCTTCTAGCAGAGG 59.932 57.143 1.09 0.00 45.56 3.69
1171 1216 1.158007 AATCCCGCCCCCAAATCTAT 58.842 50.000 0.00 0.00 0.00 1.98
1174 1219 1.702957 TCCCGCCCCCAAATCTATAAG 59.297 52.381 0.00 0.00 0.00 1.73
1175 1220 1.534729 CCGCCCCCAAATCTATAAGC 58.465 55.000 0.00 0.00 0.00 3.09
1177 1222 2.154462 CGCCCCCAAATCTATAAGCTG 58.846 52.381 0.00 0.00 0.00 4.24
1402 1448 2.829914 GGCATGGCGGATGAGCAA 60.830 61.111 2.41 0.00 39.27 3.91
1424 1470 4.819761 TGCCGTGCTGATCCGCTC 62.820 66.667 10.62 5.92 0.00 5.03
1444 1494 1.727467 GCGCATATTTTCACGGCCT 59.273 52.632 0.30 0.00 0.00 5.19
1445 1495 0.592247 GCGCATATTTTCACGGCCTG 60.592 55.000 0.30 0.00 0.00 4.85
1446 1496 0.592247 CGCATATTTTCACGGCCTGC 60.592 55.000 0.00 0.00 0.00 4.85
1456 1506 1.000019 ACGGCCTGCTGGACTACTA 60.000 57.895 14.77 0.00 39.94 1.82
1457 1507 1.321074 ACGGCCTGCTGGACTACTAC 61.321 60.000 14.77 0.00 39.94 2.73
1458 1508 1.038130 CGGCCTGCTGGACTACTACT 61.038 60.000 14.77 0.00 39.94 2.57
1474 1524 2.632136 TACTTGATTACGGGGCGGCG 62.632 60.000 0.51 0.51 0.00 6.46
1484 1541 4.587189 GGGCGGCGGCTAGTAGTG 62.587 72.222 32.30 0.00 39.81 2.74
1515 1572 2.296752 TCCATGAAATGCGCCAATATGG 59.703 45.455 16.81 16.81 44.97 2.74
1516 1573 2.296752 CCATGAAATGCGCCAATATGGA 59.703 45.455 17.59 0.00 44.97 3.41
1517 1574 3.056393 CCATGAAATGCGCCAATATGGAT 60.056 43.478 17.59 0.00 44.97 3.41
1518 1575 4.158209 CCATGAAATGCGCCAATATGGATA 59.842 41.667 17.59 0.00 44.97 2.59
1519 1576 5.336610 CCATGAAATGCGCCAATATGGATAA 60.337 40.000 17.59 0.00 44.97 1.75
1520 1577 5.375417 TGAAATGCGCCAATATGGATAAG 57.625 39.130 4.18 0.00 40.96 1.73
1521 1578 5.069318 TGAAATGCGCCAATATGGATAAGA 58.931 37.500 4.18 0.00 40.96 2.10
1522 1579 5.711506 TGAAATGCGCCAATATGGATAAGAT 59.288 36.000 4.18 0.00 40.96 2.40
1523 1580 5.571784 AATGCGCCAATATGGATAAGATG 57.428 39.130 4.18 0.00 40.96 2.90
1524 1581 4.019792 TGCGCCAATATGGATAAGATGT 57.980 40.909 4.18 0.00 40.96 3.06
1526 1583 5.555966 TGCGCCAATATGGATAAGATGTAA 58.444 37.500 4.18 0.00 40.96 2.41
1527 1584 5.643348 TGCGCCAATATGGATAAGATGTAAG 59.357 40.000 4.18 0.00 40.96 2.34
1528 1585 5.447818 GCGCCAATATGGATAAGATGTAAGC 60.448 44.000 0.00 0.00 40.96 3.09
1529 1586 5.877012 CGCCAATATGGATAAGATGTAAGCT 59.123 40.000 0.00 0.00 40.96 3.74
1558 1623 1.990799 CAATTCGCGAGTGTGGTCTA 58.009 50.000 9.59 0.00 0.00 2.59
1577 1643 5.049680 GGTCTAAAACTCTGAATGCGTTGAA 60.050 40.000 0.00 0.00 0.00 2.69
1579 1646 6.521133 GTCTAAAACTCTGAATGCGTTGAATG 59.479 38.462 0.00 0.00 0.00 2.67
1598 1665 7.484993 TGAATGGTGGAATTGATCTTCAAAT 57.515 32.000 0.00 0.00 40.12 2.32
1609 1676 9.390795 GAATTGATCTTCAAATATGATGTTCCG 57.609 33.333 0.00 0.00 40.12 4.30
1611 1678 5.239306 TGATCTTCAAATATGATGTTCCGCC 59.761 40.000 0.00 0.00 34.96 6.13
1622 1690 1.808411 TGTTCCGCCTTGATTCAGAC 58.192 50.000 0.00 0.00 0.00 3.51
1668 2360 3.915437 TTTTTGGTCGAAAGATGCTCC 57.085 42.857 0.00 0.00 45.19 4.70
1671 2364 3.526931 TTGGTCGAAAGATGCTCCTAG 57.473 47.619 0.00 0.00 45.19 3.02
1679 2372 5.163642 TCGAAAGATGCTCCTAGTGTAACTC 60.164 44.000 0.00 0.00 41.24 3.01
1691 2384 3.293311 GTGTAACTCGCCTGTAAGTGA 57.707 47.619 0.00 0.00 0.00 3.41
1692 2385 2.985139 GTGTAACTCGCCTGTAAGTGAC 59.015 50.000 0.00 0.00 0.00 3.67
1694 2387 4.074259 TGTAACTCGCCTGTAAGTGACTA 58.926 43.478 0.00 0.00 29.53 2.59
1695 2388 4.520111 TGTAACTCGCCTGTAAGTGACTAA 59.480 41.667 0.00 0.00 29.53 2.24
1702 2395 4.567159 CGCCTGTAAGTGACTAATCCTTTC 59.433 45.833 0.00 0.00 0.00 2.62
1703 2396 5.624738 CGCCTGTAAGTGACTAATCCTTTCT 60.625 44.000 0.00 0.00 0.00 2.52
1711 2404 3.587061 TGACTAATCCTTTCTGGCTGGAA 59.413 43.478 0.00 0.00 33.20 3.53
1715 2408 4.328118 AATCCTTTCTGGCTGGAAGAAT 57.672 40.909 13.53 0.00 33.79 2.40
1716 2409 5.456921 AATCCTTTCTGGCTGGAAGAATA 57.543 39.130 13.53 0.20 33.79 1.75
1718 2411 5.255397 TCCTTTCTGGCTGGAAGAATAAA 57.745 39.130 13.53 0.00 33.79 1.40
1719 2412 5.010282 TCCTTTCTGGCTGGAAGAATAAAC 58.990 41.667 13.53 0.00 33.79 2.01
1720 2413 4.766891 CCTTTCTGGCTGGAAGAATAAACA 59.233 41.667 13.53 0.00 34.07 2.83
1789 2498 3.581332 TCGAACCAGTGACCTAAGGATTT 59.419 43.478 0.00 0.00 0.00 2.17
1795 2504 5.726793 ACCAGTGACCTAAGGATTTATCTGT 59.273 40.000 0.00 0.00 0.00 3.41
1841 2550 2.226962 ACTGAGCTAAGGTCGGGTTA 57.773 50.000 2.29 0.00 40.31 2.85
1842 2551 1.823610 ACTGAGCTAAGGTCGGGTTAC 59.176 52.381 2.29 0.00 40.31 2.50
1843 2552 1.822990 CTGAGCTAAGGTCGGGTTACA 59.177 52.381 0.00 0.00 33.36 2.41
1850 2571 6.519382 AGCTAAGGTCGGGTTACATATTAAC 58.481 40.000 0.00 0.00 0.00 2.01
1853 2574 7.117379 GCTAAGGTCGGGTTACATATTAACATC 59.883 40.741 8.87 2.74 0.00 3.06
1854 2575 6.742559 AGGTCGGGTTACATATTAACATCT 57.257 37.500 8.87 0.00 0.00 2.90
1896 2617 4.479786 TTGTGTTGGTGATATCCATCGA 57.520 40.909 0.00 0.00 37.33 3.59
1906 2627 5.463724 GGTGATATCCATCGAGTCAAACTTC 59.536 44.000 0.00 0.00 33.51 3.01
1923 2644 7.167468 GTCAAACTTCACATTAACATGAACACC 59.833 37.037 0.00 0.00 34.11 4.16
1957 2678 9.606631 TTCAATTGGTTAAACTTGTTTTATGCT 57.393 25.926 5.42 0.00 29.47 3.79
1976 2697 5.431420 TGCTCGAAAAATTTACTGCTTCA 57.569 34.783 0.00 0.00 0.00 3.02
2037 2758 4.281688 AGGCTAAACGAGTACCTAACACAA 59.718 41.667 0.00 0.00 0.00 3.33
2050 2772 6.909550 ACCTAACACAAAGGCAATTCAATA 57.090 33.333 0.00 0.00 37.67 1.90
2060 2782 5.717119 AGGCAATTCAATAAGGACCTACT 57.283 39.130 0.00 0.00 0.00 2.57
2061 2783 6.824958 AGGCAATTCAATAAGGACCTACTA 57.175 37.500 0.00 0.00 0.00 1.82
2062 2784 7.394144 AGGCAATTCAATAAGGACCTACTAT 57.606 36.000 0.00 0.00 0.00 2.12
2153 2876 7.404671 TTCTAGAAAAGGCAAAGTTCAACTT 57.595 32.000 1.68 0.00 40.80 2.66
2222 2947 3.463704 ACCCAAAACCTTCTTCCTCTTCT 59.536 43.478 0.00 0.00 0.00 2.85
2225 2950 3.797559 AAACCTTCTTCCTCTTCTGGG 57.202 47.619 0.00 0.00 0.00 4.45
2230 2955 1.645710 TCTTCCTCTTCTGGGGACAC 58.354 55.000 0.00 0.00 35.60 3.67
2240 2965 2.338809 TCTGGGGACACAGAGTGAAAT 58.661 47.619 0.00 0.00 42.26 2.17
2253 2978 7.492344 ACACAGAGTGAAATTGTTTGGAATTTC 59.508 33.333 3.88 10.45 46.14 2.17
2271 2996 2.582978 GGGAACCGGCCTGTAGAC 59.417 66.667 0.00 0.00 40.86 2.59
2274 2999 1.153881 GAACCGGCCTGTAGACGAC 60.154 63.158 0.00 0.00 0.00 4.34
2289 3014 2.032302 AGACGACGAGATGCTCATGTAC 59.968 50.000 0.00 0.00 0.00 2.90
2297 3022 5.241728 ACGAGATGCTCATGTACTATGCTTA 59.758 40.000 0.00 0.00 0.00 3.09
2298 3023 5.799435 CGAGATGCTCATGTACTATGCTTAG 59.201 44.000 5.13 5.13 0.00 2.18
2299 3024 6.035368 AGATGCTCATGTACTATGCTTAGG 57.965 41.667 11.03 0.00 0.00 2.69
2300 3025 4.607293 TGCTCATGTACTATGCTTAGGG 57.393 45.455 11.03 0.00 0.00 3.53
2301 3026 3.244215 TGCTCATGTACTATGCTTAGGGC 60.244 47.826 11.03 4.22 42.22 5.19
2312 3037 1.017387 GCTTAGGGCATCTTCAACGG 58.983 55.000 0.00 0.00 41.35 4.44
2313 3038 1.017387 CTTAGGGCATCTTCAACGGC 58.983 55.000 0.00 0.00 0.00 5.68
2314 3039 0.742990 TTAGGGCATCTTCAACGGCG 60.743 55.000 4.80 4.80 0.00 6.46
2315 3040 1.609635 TAGGGCATCTTCAACGGCGA 61.610 55.000 16.62 0.00 0.00 5.54
2316 3041 2.750888 GGGCATCTTCAACGGCGAC 61.751 63.158 16.62 0.00 0.00 5.19
2317 3042 2.750888 GGCATCTTCAACGGCGACC 61.751 63.158 16.62 0.00 0.00 4.79
2318 3043 2.750888 GCATCTTCAACGGCGACCC 61.751 63.158 16.62 0.00 0.00 4.46
2331 3056 3.694889 CGACCCGCAAATTTTCTCC 57.305 52.632 0.00 0.00 0.00 3.71
2332 3057 0.170339 CGACCCGCAAATTTTCTCCC 59.830 55.000 0.00 0.00 0.00 4.30
2333 3058 0.170339 GACCCGCAAATTTTCTCCCG 59.830 55.000 0.00 0.00 0.00 5.14
2334 3059 1.153842 CCCGCAAATTTTCTCCCGC 60.154 57.895 0.00 0.00 0.00 6.13
2335 3060 1.514014 CCGCAAATTTTCTCCCGCG 60.514 57.895 10.39 10.39 42.21 6.46
2336 3061 1.209127 CGCAAATTTTCTCCCGCGT 59.791 52.632 4.92 0.00 38.03 6.01
2337 3062 0.386731 CGCAAATTTTCTCCCGCGTT 60.387 50.000 4.92 0.00 38.03 4.84
2338 3063 1.336877 GCAAATTTTCTCCCGCGTTC 58.663 50.000 4.92 0.00 0.00 3.95
2339 3064 1.602191 CAAATTTTCTCCCGCGTTCG 58.398 50.000 4.92 0.00 0.00 3.95
2340 3065 1.069500 CAAATTTTCTCCCGCGTTCGT 60.069 47.619 4.92 0.00 0.00 3.85
2341 3066 0.794473 AATTTTCTCCCGCGTTCGTC 59.206 50.000 4.92 0.00 0.00 4.20
2342 3067 1.017701 ATTTTCTCCCGCGTTCGTCC 61.018 55.000 4.92 0.00 0.00 4.79
2343 3068 3.902162 TTTCTCCCGCGTTCGTCCG 62.902 63.158 4.92 0.00 0.00 4.79
2351 3076 2.805353 CGTTCGTCCGCAGACAGG 60.805 66.667 0.20 0.00 43.73 4.00
2352 3077 2.649034 GTTCGTCCGCAGACAGGA 59.351 61.111 0.20 0.00 43.73 3.86
2357 3082 4.671590 TCCGCAGACAGGACGGGA 62.672 66.667 0.30 0.00 46.87 5.14
2358 3083 4.436998 CCGCAGACAGGACGGGAC 62.437 72.222 0.00 0.00 43.23 4.46
2359 3084 4.436998 CGCAGACAGGACGGGACC 62.437 72.222 0.00 0.00 0.00 4.46
2360 3085 3.311110 GCAGACAGGACGGGACCA 61.311 66.667 0.00 0.00 0.00 4.02
2361 3086 2.973899 CAGACAGGACGGGACCAG 59.026 66.667 0.00 0.00 0.00 4.00
2362 3087 1.908793 CAGACAGGACGGGACCAGT 60.909 63.158 0.00 0.00 32.50 4.00
2363 3088 1.606889 AGACAGGACGGGACCAGTC 60.607 63.158 15.71 15.71 43.59 3.51
2364 3089 1.606889 GACAGGACGGGACCAGTCT 60.607 63.158 21.92 4.84 41.25 3.24
2365 3090 1.878656 GACAGGACGGGACCAGTCTG 61.879 65.000 21.92 18.89 41.25 3.51
2366 3091 1.606601 CAGGACGGGACCAGTCTGA 60.607 63.158 21.92 0.00 38.58 3.27
2367 3092 0.972983 CAGGACGGGACCAGTCTGAT 60.973 60.000 21.92 8.00 38.58 2.90
2368 3093 0.972983 AGGACGGGACCAGTCTGATG 60.973 60.000 21.92 0.00 38.58 3.07
2369 3094 1.517832 GACGGGACCAGTCTGATGG 59.482 63.158 16.61 5.06 46.47 3.51
2370 3095 0.970937 GACGGGACCAGTCTGATGGA 60.971 60.000 16.61 0.00 43.57 3.41
2371 3096 0.325671 ACGGGACCAGTCTGATGGAT 60.326 55.000 0.00 0.00 43.57 3.41
2372 3097 0.105593 CGGGACCAGTCTGATGGATG 59.894 60.000 0.00 0.00 43.57 3.51
2373 3098 0.179034 GGGACCAGTCTGATGGATGC 60.179 60.000 0.00 3.82 43.57 3.91
2374 3099 0.531532 GGACCAGTCTGATGGATGCG 60.532 60.000 0.00 0.00 43.57 4.73
2375 3100 0.531532 GACCAGTCTGATGGATGCGG 60.532 60.000 0.00 0.00 43.57 5.69
2376 3101 0.977627 ACCAGTCTGATGGATGCGGA 60.978 55.000 0.00 0.00 43.57 5.54
2377 3102 0.178767 CCAGTCTGATGGATGCGGAA 59.821 55.000 0.00 0.00 43.57 4.30
2378 3103 1.579698 CAGTCTGATGGATGCGGAAG 58.420 55.000 0.00 0.00 0.00 3.46
2379 3104 0.467384 AGTCTGATGGATGCGGAAGG 59.533 55.000 0.00 0.00 0.00 3.46
2380 3105 1.146930 TCTGATGGATGCGGAAGGC 59.853 57.895 0.00 0.00 43.96 4.35
2381 3106 1.895707 CTGATGGATGCGGAAGGCC 60.896 63.158 0.00 0.00 42.61 5.19
2391 3116 3.905249 GGAAGGCCGTCATCCAAC 58.095 61.111 20.72 0.00 33.30 3.77
2392 3117 1.749258 GGAAGGCCGTCATCCAACC 60.749 63.158 20.72 0.00 33.30 3.77
2393 3118 2.046314 AAGGCCGTCATCCAACCG 60.046 61.111 0.00 0.00 0.00 4.44
2394 3119 2.798148 GAAGGCCGTCATCCAACCGT 62.798 60.000 14.36 0.00 0.00 4.83
2395 3120 1.546589 AAGGCCGTCATCCAACCGTA 61.547 55.000 0.00 0.00 0.00 4.02
2396 3121 1.520787 GGCCGTCATCCAACCGTAG 60.521 63.158 0.00 0.00 0.00 3.51
2397 3122 2.171725 GCCGTCATCCAACCGTAGC 61.172 63.158 0.00 0.00 0.00 3.58
2398 3123 1.520787 CCGTCATCCAACCGTAGCC 60.521 63.158 0.00 0.00 0.00 3.93
2399 3124 1.216977 CGTCATCCAACCGTAGCCA 59.783 57.895 0.00 0.00 0.00 4.75
2400 3125 0.179084 CGTCATCCAACCGTAGCCAT 60.179 55.000 0.00 0.00 0.00 4.40
2401 3126 1.067974 CGTCATCCAACCGTAGCCATA 59.932 52.381 0.00 0.00 0.00 2.74
2402 3127 2.482316 CGTCATCCAACCGTAGCCATAA 60.482 50.000 0.00 0.00 0.00 1.90
2403 3128 3.537580 GTCATCCAACCGTAGCCATAAA 58.462 45.455 0.00 0.00 0.00 1.40
2404 3129 4.134563 GTCATCCAACCGTAGCCATAAAT 58.865 43.478 0.00 0.00 0.00 1.40
2405 3130 4.024048 GTCATCCAACCGTAGCCATAAATG 60.024 45.833 0.00 0.00 0.00 2.32
2406 3131 3.637911 TCCAACCGTAGCCATAAATGT 57.362 42.857 0.00 0.00 0.00 2.71
2407 3132 3.958018 TCCAACCGTAGCCATAAATGTT 58.042 40.909 0.00 0.00 0.00 2.71
2408 3133 3.942748 TCCAACCGTAGCCATAAATGTTC 59.057 43.478 0.00 0.00 0.00 3.18
2409 3134 3.242608 CCAACCGTAGCCATAAATGTTCG 60.243 47.826 0.00 0.00 0.00 3.95
2410 3135 3.255969 ACCGTAGCCATAAATGTTCGT 57.744 42.857 0.00 0.00 0.00 3.85
2411 3136 3.192466 ACCGTAGCCATAAATGTTCGTC 58.808 45.455 0.00 0.00 0.00 4.20
2412 3137 3.118884 ACCGTAGCCATAAATGTTCGTCT 60.119 43.478 0.00 0.00 0.00 4.18
2413 3138 3.489785 CCGTAGCCATAAATGTTCGTCTC 59.510 47.826 0.00 0.00 0.00 3.36
2414 3139 4.360563 CGTAGCCATAAATGTTCGTCTCT 58.639 43.478 0.00 0.00 0.00 3.10
2415 3140 4.207224 CGTAGCCATAAATGTTCGTCTCTG 59.793 45.833 0.00 0.00 0.00 3.35
2416 3141 2.939103 AGCCATAAATGTTCGTCTCTGC 59.061 45.455 0.00 0.00 0.00 4.26
2417 3142 2.939103 GCCATAAATGTTCGTCTCTGCT 59.061 45.455 0.00 0.00 0.00 4.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 34 7.722728 TGGACGGTGTGAGTATAATATAAGAGT 59.277 37.037 0.00 0.00 0.00 3.24
36 37 9.537192 TTTTGGACGGTGTGAGTATAATATAAG 57.463 33.333 0.00 0.00 0.00 1.73
43 44 8.795842 AAATATTTTTGGACGGTGTGAGTATA 57.204 30.769 0.00 0.00 0.00 1.47
47 48 7.757526 TGATAAATATTTTTGGACGGTGTGAG 58.242 34.615 5.91 0.00 0.00 3.51
100 101 7.558444 TGTGTCAAAAAGGTGGTACTAGAATTT 59.442 33.333 0.00 0.00 0.00 1.82
135 136 3.687102 TCCAGCCGTGGTGTACCG 61.687 66.667 0.00 0.00 45.28 4.02
202 203 1.298953 TTTTCTGGAGCTATGGCCCT 58.701 50.000 0.00 0.00 39.73 5.19
315 316 6.037610 GTCCAGTCATTCATGTATTCTTGGAC 59.962 42.308 16.30 16.30 33.89 4.02
329 330 0.895530 TCCTCGTGGTCCAGTCATTC 59.104 55.000 2.99 0.00 34.23 2.67
330 331 1.208052 CATCCTCGTGGTCCAGTCATT 59.792 52.381 2.99 0.00 34.23 2.57
355 359 4.497507 GGGTTACAGTGAACTTTGCTGTTC 60.498 45.833 0.00 9.67 44.60 3.18
356 360 3.380320 GGGTTACAGTGAACTTTGCTGTT 59.620 43.478 0.00 0.00 42.60 3.16
357 361 2.949644 GGGTTACAGTGAACTTTGCTGT 59.050 45.455 0.00 0.00 44.49 4.40
358 362 2.948979 TGGGTTACAGTGAACTTTGCTG 59.051 45.455 0.00 0.00 36.41 4.41
359 363 2.949644 GTGGGTTACAGTGAACTTTGCT 59.050 45.455 0.00 0.00 0.00 3.91
360 364 2.685897 TGTGGGTTACAGTGAACTTTGC 59.314 45.455 0.00 0.00 33.42 3.68
397 401 8.917218 CGCGTTTTTACTACTTTCATTATTACG 58.083 33.333 0.00 0.00 0.00 3.18
398 402 9.202545 CCGCGTTTTTACTACTTTCATTATTAC 57.797 33.333 4.92 0.00 0.00 1.89
399 403 7.904461 GCCGCGTTTTTACTACTTTCATTATTA 59.096 33.333 4.92 0.00 0.00 0.98
400 404 6.744082 GCCGCGTTTTTACTACTTTCATTATT 59.256 34.615 4.92 0.00 0.00 1.40
401 405 6.093082 AGCCGCGTTTTTACTACTTTCATTAT 59.907 34.615 4.92 0.00 0.00 1.28
402 406 5.409214 AGCCGCGTTTTTACTACTTTCATTA 59.591 36.000 4.92 0.00 0.00 1.90
403 407 4.214758 AGCCGCGTTTTTACTACTTTCATT 59.785 37.500 4.92 0.00 0.00 2.57
423 427 0.177141 TATAAGTGCGGTCACCAGCC 59.823 55.000 8.00 0.98 44.16 4.85
427 431 2.688958 AGAGAGTATAAGTGCGGTCACC 59.311 50.000 0.00 0.00 44.16 4.02
538 552 5.220777 GGCTCGATCGATATTTTTGTTGGAA 60.221 40.000 19.78 0.00 0.00 3.53
564 578 1.404851 GCCTGTCCTGAGTAGTTCTGC 60.405 57.143 0.00 0.00 0.00 4.26
570 584 2.496817 GGCGCCTGTCCTGAGTAG 59.503 66.667 22.15 0.00 0.00 2.57
571 585 3.075005 GGGCGCCTGTCCTGAGTA 61.075 66.667 28.56 0.00 36.72 2.59
573 587 4.463879 CTGGGCGCCTGTCCTGAG 62.464 72.222 28.56 7.13 41.01 3.35
592 606 3.365265 GGTTGGCGTTCTGGCTGG 61.365 66.667 0.00 0.00 45.14 4.85
625 639 5.559225 GCTGAGTTCGTTCTTTTCTCCTTTC 60.559 44.000 0.00 0.00 0.00 2.62
640 654 1.864862 CTGTTGCCTGCTGAGTTCG 59.135 57.895 0.00 0.00 0.00 3.95
658 675 2.928116 GCTTTGAAAATGGAGATGCTGC 59.072 45.455 0.00 0.00 0.00 5.25
698 722 1.892819 TAGAGCACCTGAGGCACAGC 61.893 60.000 6.40 0.00 44.52 4.40
709 733 2.217510 TCCCGGATAGATAGAGCACC 57.782 55.000 0.73 0.00 0.00 5.01
746 770 0.537188 ATGCTAACGACCACCTCCAG 59.463 55.000 0.00 0.00 0.00 3.86
748 772 0.249398 ACATGCTAACGACCACCTCC 59.751 55.000 0.00 0.00 0.00 4.30
765 789 4.394920 AGCTCGAAAGAAAACAACTTGACA 59.605 37.500 0.00 0.00 41.32 3.58
845 873 0.394352 CCCTTTTGTAGGCGGATGCT 60.394 55.000 0.00 0.00 43.27 3.79
981 1024 4.214327 CCGCTCGCTCCTTCCCTC 62.214 72.222 0.00 0.00 0.00 4.30
1171 1216 3.063510 ACTTGCAGATTCAGCAGCTTA 57.936 42.857 3.87 0.00 43.75 3.09
1174 1219 2.485426 TGTTACTTGCAGATTCAGCAGC 59.515 45.455 3.87 0.00 43.75 5.25
1175 1220 4.720090 CTTGTTACTTGCAGATTCAGCAG 58.280 43.478 3.87 2.27 43.75 4.24
1177 1222 3.190118 AGCTTGTTACTTGCAGATTCAGC 59.810 43.478 0.00 0.00 0.00 4.26
1428 1474 0.740737 AGCAGGCCGTGAAAATATGC 59.259 50.000 0.00 0.00 0.00 3.14
1430 1480 1.064758 TCCAGCAGGCCGTGAAAATAT 60.065 47.619 0.00 0.00 33.74 1.28
1432 1482 1.074775 TCCAGCAGGCCGTGAAAAT 59.925 52.632 0.00 0.00 33.74 1.82
1437 1487 1.320344 TAGTAGTCCAGCAGGCCGTG 61.320 60.000 0.00 0.00 33.74 4.94
1444 1494 4.097437 CCGTAATCAAGTAGTAGTCCAGCA 59.903 45.833 0.00 0.00 0.00 4.41
1445 1495 4.499357 CCCGTAATCAAGTAGTAGTCCAGC 60.499 50.000 0.00 0.00 0.00 4.85
1446 1496 4.037684 CCCCGTAATCAAGTAGTAGTCCAG 59.962 50.000 0.00 0.00 0.00 3.86
1456 1506 2.124860 GCCGCCCCGTAATCAAGT 60.125 61.111 0.00 0.00 0.00 3.16
1457 1507 3.269347 CGCCGCCCCGTAATCAAG 61.269 66.667 0.00 0.00 0.00 3.02
1458 1508 4.841861 CCGCCGCCCCGTAATCAA 62.842 66.667 0.00 0.00 0.00 2.57
1474 1524 3.995048 GGAACTGTTTCACACTACTAGCC 59.005 47.826 0.00 0.00 32.80 3.93
1479 1536 6.371809 TTTCATGGAACTGTTTCACACTAC 57.628 37.500 3.09 0.00 32.80 2.73
1484 1541 3.670055 CGCATTTCATGGAACTGTTTCAC 59.330 43.478 3.09 0.00 32.80 3.18
1497 1554 5.711506 TCTTATCCATATTGGCGCATTTCAT 59.288 36.000 10.83 0.00 37.47 2.57
1515 1572 5.622856 GCGATGCAAAAGCTTACATCTTATC 59.377 40.000 23.66 12.07 37.39 1.75
1516 1573 5.066375 TGCGATGCAAAAGCTTACATCTTAT 59.934 36.000 23.66 6.39 37.39 1.73
1517 1574 4.394610 TGCGATGCAAAAGCTTACATCTTA 59.605 37.500 23.66 14.96 37.39 2.10
1518 1575 3.191162 TGCGATGCAAAAGCTTACATCTT 59.809 39.130 23.66 5.30 37.39 2.40
1519 1576 2.749076 TGCGATGCAAAAGCTTACATCT 59.251 40.909 23.66 3.76 37.39 2.90
1520 1577 3.135414 TGCGATGCAAAAGCTTACATC 57.865 42.857 19.61 19.61 34.76 3.06
1521 1578 3.574284 TTGCGATGCAAAAGCTTACAT 57.426 38.095 0.00 4.18 45.96 2.29
1558 1623 4.037923 ACCATTCAACGCATTCAGAGTTTT 59.962 37.500 0.00 0.00 38.23 2.43
1577 1643 8.771521 TCATATTTGAAGATCAATTCCACCAT 57.228 30.769 0.00 0.00 36.11 3.55
1579 1646 8.636213 ACATCATATTTGAAGATCAATTCCACC 58.364 33.333 0.00 0.00 36.11 4.61
1598 1665 4.129380 CTGAATCAAGGCGGAACATCATA 58.871 43.478 0.00 0.00 0.00 2.15
1609 1676 4.433615 TCTGTATTCGTCTGAATCAAGGC 58.566 43.478 0.00 0.00 43.70 4.35
1655 2347 4.705507 AGTTACACTAGGAGCATCTTTCGA 59.294 41.667 0.00 0.00 33.73 3.71
1668 2360 4.155462 TCACTTACAGGCGAGTTACACTAG 59.845 45.833 0.00 0.00 0.00 2.57
1671 2364 2.985139 GTCACTTACAGGCGAGTTACAC 59.015 50.000 0.00 0.00 0.00 2.90
1679 2372 3.802948 AGGATTAGTCACTTACAGGCG 57.197 47.619 0.00 0.00 0.00 5.52
1688 2381 3.055094 TCCAGCCAGAAAGGATTAGTCAC 60.055 47.826 0.00 0.00 41.22 3.67
1689 2382 3.181329 TCCAGCCAGAAAGGATTAGTCA 58.819 45.455 0.00 0.00 41.22 3.41
1691 2384 3.846588 TCTTCCAGCCAGAAAGGATTAGT 59.153 43.478 0.00 0.00 41.22 2.24
1692 2385 4.494091 TCTTCCAGCCAGAAAGGATTAG 57.506 45.455 0.00 0.00 41.22 1.73
1694 2387 3.814504 TTCTTCCAGCCAGAAAGGATT 57.185 42.857 0.00 0.00 41.22 3.01
1695 2388 5.456921 TTATTCTTCCAGCCAGAAAGGAT 57.543 39.130 0.00 0.00 41.22 3.24
1789 2498 6.206243 GCGGAGGACTGTAGTATTTACAGATA 59.794 42.308 18.28 0.00 45.69 1.98
1795 2504 4.789807 AGAGCGGAGGACTGTAGTATTTA 58.210 43.478 0.00 0.00 0.00 1.40
1850 2571 4.394920 ACTGGTGTTGCCGTTAATAAGATG 59.605 41.667 0.00 0.00 41.21 2.90
1853 2574 4.759516 AACTGGTGTTGCCGTTAATAAG 57.240 40.909 0.00 0.00 41.21 1.73
1854 2575 5.163540 ACAAAACTGGTGTTGCCGTTAATAA 60.164 36.000 3.79 0.00 41.21 1.40
1882 2603 4.950050 AGTTTGACTCGATGGATATCACC 58.050 43.478 4.83 0.00 32.67 4.02
1883 2604 6.019479 GTGAAGTTTGACTCGATGGATATCAC 60.019 42.308 4.83 0.00 32.67 3.06
1896 2617 7.915397 GTGTTCATGTTAATGTGAAGTTTGACT 59.085 33.333 5.92 0.00 35.22 3.41
1906 2627 6.070897 TCAGTTGGTGTTCATGTTAATGTG 57.929 37.500 0.00 0.00 35.15 3.21
1923 2644 7.759433 ACAAGTTTAACCAATTGAACTCAGTTG 59.241 33.333 7.12 9.38 42.21 3.16
1982 2703 4.130118 CACCCTCCCATCGAATAAAAGAG 58.870 47.826 0.00 0.00 0.00 2.85
1997 2718 1.680249 GCCTCTTCATCAACACCCTCC 60.680 57.143 0.00 0.00 0.00 4.30
2037 2758 6.079712 AGTAGGTCCTTATTGAATTGCCTT 57.920 37.500 0.00 0.00 0.00 4.35
2050 2772 6.155737 ACGGTTTGTTATGATAGTAGGTCCTT 59.844 38.462 0.00 0.00 0.00 3.36
2060 2782 5.785243 TCAGTGTCACGGTTTGTTATGATA 58.215 37.500 2.95 0.00 0.00 2.15
2061 2783 4.637276 TCAGTGTCACGGTTTGTTATGAT 58.363 39.130 2.95 0.00 0.00 2.45
2062 2784 4.061357 TCAGTGTCACGGTTTGTTATGA 57.939 40.909 2.95 0.00 0.00 2.15
2099 2821 2.505819 CAACCTAGGTATGTCCTTGCCT 59.494 50.000 16.67 0.00 45.67 4.75
2100 2822 2.504175 TCAACCTAGGTATGTCCTTGCC 59.496 50.000 16.67 0.00 45.67 4.52
2125 2848 7.346751 TGAACTTTGCCTTTTCTAGAATTGT 57.653 32.000 5.89 0.00 0.00 2.71
2126 2849 7.922811 AGTTGAACTTTGCCTTTTCTAGAATTG 59.077 33.333 5.89 2.32 0.00 2.32
2153 2876 0.762418 TGCGGGAAGAGAGGAAACAA 59.238 50.000 0.00 0.00 0.00 2.83
2213 2938 1.132849 TCTGTGTCCCCAGAAGAGGAA 60.133 52.381 0.00 0.00 38.49 3.36
2222 2947 2.174639 ACAATTTCACTCTGTGTCCCCA 59.825 45.455 0.00 0.00 34.79 4.96
2225 2950 4.338118 TCCAAACAATTTCACTCTGTGTCC 59.662 41.667 0.00 0.00 34.79 4.02
2230 2955 6.144402 CCGAAATTCCAAACAATTTCACTCTG 59.856 38.462 15.44 3.05 46.56 3.35
2240 2965 3.737032 GGTTCCCGAAATTCCAAACAA 57.263 42.857 0.00 0.00 0.00 2.83
2267 2992 2.289565 ACATGAGCATCTCGTCGTCTA 58.710 47.619 0.00 0.00 34.92 2.59
2271 2996 2.765108 AGTACATGAGCATCTCGTCG 57.235 50.000 0.00 0.00 34.92 5.12
2274 2999 4.171663 AGCATAGTACATGAGCATCTCG 57.828 45.455 0.00 0.00 34.92 4.04
2297 3022 2.436646 CGCCGTTGAAGATGCCCT 60.437 61.111 0.00 0.00 0.00 5.19
2298 3023 2.435938 TCGCCGTTGAAGATGCCC 60.436 61.111 0.00 0.00 0.00 5.36
2299 3024 2.750888 GGTCGCCGTTGAAGATGCC 61.751 63.158 0.00 0.00 0.00 4.40
2300 3025 2.750888 GGGTCGCCGTTGAAGATGC 61.751 63.158 0.00 0.00 0.00 3.91
2301 3026 2.452813 CGGGTCGCCGTTGAAGATG 61.453 63.158 0.00 0.00 0.00 2.90
2302 3027 2.125673 CGGGTCGCCGTTGAAGAT 60.126 61.111 0.00 0.00 0.00 2.40
2313 3038 0.170339 GGGAGAAAATTTGCGGGTCG 59.830 55.000 0.00 0.00 0.00 4.79
2314 3039 0.170339 CGGGAGAAAATTTGCGGGTC 59.830 55.000 0.00 0.00 0.00 4.46
2315 3040 1.873270 GCGGGAGAAAATTTGCGGGT 61.873 55.000 0.00 0.00 0.00 5.28
2316 3041 1.153842 GCGGGAGAAAATTTGCGGG 60.154 57.895 0.00 0.00 0.00 6.13
2317 3042 1.514014 CGCGGGAGAAAATTTGCGG 60.514 57.895 9.69 0.00 41.69 5.69
2318 3043 4.056097 CGCGGGAGAAAATTTGCG 57.944 55.556 0.00 4.27 39.57 4.85
2319 3044 1.336877 GAACGCGGGAGAAAATTTGC 58.663 50.000 12.47 0.00 0.00 3.68
2320 3045 1.069500 ACGAACGCGGGAGAAAATTTG 60.069 47.619 12.47 0.00 43.17 2.32
2321 3046 1.196127 GACGAACGCGGGAGAAAATTT 59.804 47.619 12.47 0.00 43.17 1.82
2322 3047 0.794473 GACGAACGCGGGAGAAAATT 59.206 50.000 12.47 0.00 43.17 1.82
2323 3048 1.017701 GGACGAACGCGGGAGAAAAT 61.018 55.000 12.47 0.00 43.17 1.82
2324 3049 1.665599 GGACGAACGCGGGAGAAAA 60.666 57.895 12.47 0.00 43.17 2.29
2325 3050 2.048877 GGACGAACGCGGGAGAAA 60.049 61.111 12.47 0.00 43.17 2.52
2326 3051 4.409218 CGGACGAACGCGGGAGAA 62.409 66.667 12.47 0.00 43.17 2.87
2334 3059 2.805353 CCTGTCTGCGGACGAACG 60.805 66.667 20.49 8.81 44.83 3.95
2335 3060 1.733399 GTCCTGTCTGCGGACGAAC 60.733 63.158 20.49 13.89 44.83 3.95
2336 3061 2.649034 GTCCTGTCTGCGGACGAA 59.351 61.111 20.49 5.81 44.83 3.85
2341 3066 4.436998 GTCCCGTCCTGTCTGCGG 62.437 72.222 0.00 0.00 44.55 5.69
2342 3067 4.436998 GGTCCCGTCCTGTCTGCG 62.437 72.222 0.00 0.00 0.00 5.18
2343 3068 3.302347 CTGGTCCCGTCCTGTCTGC 62.302 68.421 0.00 0.00 0.00 4.26
2344 3069 1.878656 GACTGGTCCCGTCCTGTCTG 61.879 65.000 15.65 0.00 46.09 3.51
2345 3070 1.606889 GACTGGTCCCGTCCTGTCT 60.607 63.158 15.65 0.00 46.09 3.41
2346 3071 2.971452 GACTGGTCCCGTCCTGTC 59.029 66.667 2.05 10.74 44.58 3.51
2347 3072 1.908793 CAGACTGGTCCCGTCCTGT 60.909 63.158 9.64 0.00 41.21 4.00
2348 3073 0.972983 ATCAGACTGGTCCCGTCCTG 60.973 60.000 9.64 7.84 31.83 3.86
2349 3074 0.972983 CATCAGACTGGTCCCGTCCT 60.973 60.000 9.64 0.00 31.83 3.85
2350 3075 1.517832 CATCAGACTGGTCCCGTCC 59.482 63.158 9.64 0.00 31.83 4.79
2351 3076 0.970937 TCCATCAGACTGGTCCCGTC 60.971 60.000 5.32 5.32 37.57 4.79
2352 3077 0.325671 ATCCATCAGACTGGTCCCGT 60.326 55.000 1.81 0.00 37.57 5.28
2353 3078 0.105593 CATCCATCAGACTGGTCCCG 59.894 60.000 1.81 0.00 37.57 5.14
2354 3079 0.179034 GCATCCATCAGACTGGTCCC 60.179 60.000 1.81 0.00 37.57 4.46
2355 3080 0.531532 CGCATCCATCAGACTGGTCC 60.532 60.000 1.81 0.00 37.57 4.46
2356 3081 0.531532 CCGCATCCATCAGACTGGTC 60.532 60.000 1.81 0.00 37.57 4.02
2357 3082 0.977627 TCCGCATCCATCAGACTGGT 60.978 55.000 1.81 0.00 37.57 4.00
2358 3083 0.178767 TTCCGCATCCATCAGACTGG 59.821 55.000 1.81 0.00 37.66 4.00
2359 3084 1.579698 CTTCCGCATCCATCAGACTG 58.420 55.000 0.00 0.00 0.00 3.51
2360 3085 0.467384 CCTTCCGCATCCATCAGACT 59.533 55.000 0.00 0.00 0.00 3.24
2361 3086 1.162800 GCCTTCCGCATCCATCAGAC 61.163 60.000 0.00 0.00 37.47 3.51
2362 3087 1.146930 GCCTTCCGCATCCATCAGA 59.853 57.895 0.00 0.00 37.47 3.27
2363 3088 1.895707 GGCCTTCCGCATCCATCAG 60.896 63.158 0.00 0.00 40.31 2.90
2364 3089 2.192979 GGCCTTCCGCATCCATCA 59.807 61.111 0.00 0.00 40.31 3.07
2374 3099 1.749258 GGTTGGATGACGGCCTTCC 60.749 63.158 6.80 5.43 39.03 3.46
2375 3100 2.106683 CGGTTGGATGACGGCCTTC 61.107 63.158 1.37 1.37 0.00 3.46
2376 3101 1.546589 TACGGTTGGATGACGGCCTT 61.547 55.000 0.00 0.00 0.00 4.35
2377 3102 1.956629 CTACGGTTGGATGACGGCCT 61.957 60.000 0.00 0.00 0.00 5.19
2378 3103 1.520787 CTACGGTTGGATGACGGCC 60.521 63.158 0.00 0.00 0.00 6.13
2379 3104 2.171725 GCTACGGTTGGATGACGGC 61.172 63.158 0.00 0.00 0.00 5.68
2380 3105 1.520787 GGCTACGGTTGGATGACGG 60.521 63.158 0.00 0.00 0.00 4.79
2381 3106 0.179084 ATGGCTACGGTTGGATGACG 60.179 55.000 0.00 0.00 0.00 4.35
2382 3107 2.902705 TATGGCTACGGTTGGATGAC 57.097 50.000 0.00 0.00 0.00 3.06
2383 3108 3.916359 TTTATGGCTACGGTTGGATGA 57.084 42.857 0.00 0.00 0.00 2.92
2384 3109 3.882888 ACATTTATGGCTACGGTTGGATG 59.117 43.478 0.00 0.00 0.00 3.51
2385 3110 4.164843 ACATTTATGGCTACGGTTGGAT 57.835 40.909 0.00 0.00 0.00 3.41
2386 3111 3.637911 ACATTTATGGCTACGGTTGGA 57.362 42.857 0.00 0.00 0.00 3.53
2387 3112 3.242608 CGAACATTTATGGCTACGGTTGG 60.243 47.826 0.00 0.00 0.00 3.77
2388 3113 3.372822 ACGAACATTTATGGCTACGGTTG 59.627 43.478 0.00 0.00 0.00 3.77
2389 3114 3.602483 ACGAACATTTATGGCTACGGTT 58.398 40.909 0.00 0.00 0.00 4.44
2390 3115 3.118884 AGACGAACATTTATGGCTACGGT 60.119 43.478 0.00 0.00 0.00 4.83
2391 3116 3.454375 AGACGAACATTTATGGCTACGG 58.546 45.455 0.00 0.00 0.00 4.02
2392 3117 4.207224 CAGAGACGAACATTTATGGCTACG 59.793 45.833 0.00 0.00 0.00 3.51
2393 3118 4.025647 GCAGAGACGAACATTTATGGCTAC 60.026 45.833 0.00 0.00 0.00 3.58
2394 3119 4.119862 GCAGAGACGAACATTTATGGCTA 58.880 43.478 0.00 0.00 0.00 3.93
2395 3120 2.939103 GCAGAGACGAACATTTATGGCT 59.061 45.455 0.00 0.00 0.00 4.75
2396 3121 2.939103 AGCAGAGACGAACATTTATGGC 59.061 45.455 0.00 0.00 0.00 4.40


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

AutoCloner maintained by Alex Coulton.