Multiple sequence alignment - TraesCS1B01G148800

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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 TraesCS1B01G148800 chr1B 100.000 2339 0 0 1 2339 218375756 218378094 0 4320
1 TraesCS1B01G148800 chr1B 94.320 757 42 1 1583 2339 218398516 218399271 0 1158
2 TraesCS1B01G148800 chr1B 94.297 754 41 2 1586 2339 255784392 255783641 0 1153
3 TraesCS1B01G148800 chr6D 94.057 1363 78 3 1 1363 132391909 132393268 0 2065
4 TraesCS1B01G148800 chr6D 93.837 1363 81 2 1 1363 60313491 60314850 0 2049
5 TraesCS1B01G148800 chr6D 93.634 754 45 1 1585 2338 219416435 219417185 0 1123
6 TraesCS1B01G148800 chr2D 93.988 1364 80 2 1 1363 126957132 126958494 0 2063
7 TraesCS1B01G148800 chr1D 94.048 1361 80 1 1 1361 360147455 360146096 0 2063
8 TraesCS1B01G148800 chr1D 93.438 762 46 2 1579 2338 164635935 164635176 0 1127
9 TraesCS1B01G148800 chr5B 93.906 1362 82 1 1 1362 521394996 521396356 0 2054
10 TraesCS1B01G148800 chr4D 93.617 1363 85 2 1 1363 28465758 28464398 0 2034
11 TraesCS1B01G148800 chr4D 93.617 1363 86 1 1 1363 337468978 337467617 0 2034
12 TraesCS1B01G148800 chr3D 93.539 1362 86 2 1 1362 264599487 264600846 0 2026
13 TraesCS1B01G148800 chr3D 93.475 1364 87 2 1 1363 569380484 569381846 0 2025
14 TraesCS1B01G148800 chr3D 93.775 755 40 3 1584 2338 336889639 336888892 0 1127
15 TraesCS1B01G148800 chr7D 94.172 755 44 0 1584 2338 339163249 339162495 0 1151
16 TraesCS1B01G148800 chr7D 93.775 755 45 1 1584 2338 324051575 324052327 0 1133
17 TraesCS1B01G148800 chr7D 93.642 755 44 1 1584 2338 339535415 339534665 0 1125
18 TraesCS1B01G148800 chr5D 93.907 755 43 2 1585 2338 193251961 193251209 0 1136


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 TraesCS1B01G148800 chr1B 218375756 218378094 2338 False 4320 4320 100.000 1 2339 1 chr1B.!!$F1 2338
1 TraesCS1B01G148800 chr1B 218398516 218399271 755 False 1158 1158 94.320 1583 2339 1 chr1B.!!$F2 756
2 TraesCS1B01G148800 chr1B 255783641 255784392 751 True 1153 1153 94.297 1586 2339 1 chr1B.!!$R1 753
3 TraesCS1B01G148800 chr6D 132391909 132393268 1359 False 2065 2065 94.057 1 1363 1 chr6D.!!$F2 1362
4 TraesCS1B01G148800 chr6D 60313491 60314850 1359 False 2049 2049 93.837 1 1363 1 chr6D.!!$F1 1362
5 TraesCS1B01G148800 chr6D 219416435 219417185 750 False 1123 1123 93.634 1585 2338 1 chr6D.!!$F3 753
6 TraesCS1B01G148800 chr2D 126957132 126958494 1362 False 2063 2063 93.988 1 1363 1 chr2D.!!$F1 1362
7 TraesCS1B01G148800 chr1D 360146096 360147455 1359 True 2063 2063 94.048 1 1361 1 chr1D.!!$R2 1360
8 TraesCS1B01G148800 chr1D 164635176 164635935 759 True 1127 1127 93.438 1579 2338 1 chr1D.!!$R1 759
9 TraesCS1B01G148800 chr5B 521394996 521396356 1360 False 2054 2054 93.906 1 1362 1 chr5B.!!$F1 1361
10 TraesCS1B01G148800 chr4D 28464398 28465758 1360 True 2034 2034 93.617 1 1363 1 chr4D.!!$R1 1362
11 TraesCS1B01G148800 chr4D 337467617 337468978 1361 True 2034 2034 93.617 1 1363 1 chr4D.!!$R2 1362
12 TraesCS1B01G148800 chr3D 264599487 264600846 1359 False 2026 2026 93.539 1 1362 1 chr3D.!!$F1 1361
13 TraesCS1B01G148800 chr3D 569380484 569381846 1362 False 2025 2025 93.475 1 1363 1 chr3D.!!$F2 1362
14 TraesCS1B01G148800 chr3D 336888892 336889639 747 True 1127 1127 93.775 1584 2338 1 chr3D.!!$R1 754
15 TraesCS1B01G148800 chr7D 339162495 339163249 754 True 1151 1151 94.172 1584 2338 1 chr7D.!!$R1 754
16 TraesCS1B01G148800 chr7D 324051575 324052327 752 False 1133 1133 93.775 1584 2338 1 chr7D.!!$F1 754
17 TraesCS1B01G148800 chr7D 339534665 339535415 750 True 1125 1125 93.642 1584 2338 1 chr7D.!!$R2 754
18 TraesCS1B01G148800 chr5D 193251209 193251961 752 True 1136 1136 93.907 1585 2338 1 chr5D.!!$R1 753

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
609 612 0.036388 GTGAGGTTGATCTTGCCGGA 60.036 55.0 5.05 0.0 0.0 5.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1428 1432 0.037232 CCTCCGTCTTCCTTGTGTCC 60.037 60.0 0.0 0.0 0.0 4.02 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
47 48 2.624029 GGAAGATGCCTGGATCCCAAAA 60.624 50.000 9.90 0.00 30.80 2.44
61 62 4.286297 TCCCAAAATGTGTCACTAGGAG 57.714 45.455 4.27 0.00 0.00 3.69
76 77 2.182516 AGGAGGATTGTGACCCCTAG 57.817 55.000 0.00 0.00 0.00 3.02
110 112 5.738619 TGCTATCAAAAGTGAGTGACCTA 57.261 39.130 0.00 0.00 37.14 3.08
116 118 9.388506 CTATCAAAAGTGAGTGACCTAATTGAT 57.611 33.333 0.00 0.00 37.14 2.57
270 272 4.788679 TGGTATGTTCTCGATGAGGTCTA 58.211 43.478 0.00 0.00 0.00 2.59
278 280 5.354842 TCTCGATGAGGTCTACTTACTCA 57.645 43.478 0.00 0.00 44.44 3.41
337 339 1.444933 TCTAATGGGATGGGGCGAAT 58.555 50.000 0.00 0.00 0.00 3.34
340 342 0.468029 AATGGGATGGGGCGAATCAC 60.468 55.000 0.00 0.00 0.00 3.06
351 353 1.133025 GGCGAATCACACCAAATCCTG 59.867 52.381 0.00 0.00 0.00 3.86
391 393 2.171003 GTTATCCTGCCCAGCAAAAGT 58.829 47.619 0.00 0.00 38.41 2.66
460 463 4.033684 GGTAACACTCGCTAATAGACACG 58.966 47.826 0.00 0.00 0.00 4.49
471 474 4.142447 GCTAATAGACACGTGAAGGTCTCA 60.142 45.833 25.01 4.34 43.02 3.27
501 504 0.602905 CGACTTGCTCTCGGGGTTTT 60.603 55.000 0.00 0.00 0.00 2.43
510 513 3.618997 GCTCTCGGGGTTTTGAAGATACA 60.619 47.826 0.00 0.00 0.00 2.29
580 583 8.180165 AGAGACTAGGGATGGATGTGATTATTA 58.820 37.037 0.00 0.00 0.00 0.98
609 612 0.036388 GTGAGGTTGATCTTGCCGGA 60.036 55.000 5.05 0.00 0.00 5.14
779 782 3.255149 GCAAATCAGATAGCAATGGGGAG 59.745 47.826 3.47 0.00 0.00 4.30
780 783 4.467769 CAAATCAGATAGCAATGGGGAGT 58.532 43.478 0.00 0.00 0.00 3.85
790 793 2.353208 GCAATGGGGAGTATAGCTCTCG 60.353 54.545 0.00 0.00 45.69 4.04
792 795 0.889638 TGGGGAGTATAGCTCTCGCG 60.890 60.000 0.00 0.00 45.69 5.87
798 801 2.226912 GAGTATAGCTCTCGCGTCCAAT 59.773 50.000 5.77 0.00 40.98 3.16
806 809 3.725010 GCTCTCGCGTCCAATTTTGTAAG 60.725 47.826 5.77 0.00 0.00 2.34
815 818 6.550843 CGTCCAATTTTGTAAGTGCATCATA 58.449 36.000 0.00 0.00 0.00 2.15
826 829 1.267806 GTGCATCATATCCAAAGGCGG 59.732 52.381 0.00 0.00 0.00 6.13
903 907 3.002791 TGACGCCTCTTTTGATCATGAC 58.997 45.455 0.00 0.00 0.00 3.06
912 916 7.372714 CCTCTTTTGATCATGACATGTTGAAA 58.627 34.615 14.98 10.55 0.00 2.69
917 921 7.943079 TTGATCATGACATGTTGAAAGGTAT 57.057 32.000 14.98 0.00 0.00 2.73
926 930 2.922955 TGTTGAAAGGTATGATGGGGGA 59.077 45.455 0.00 0.00 0.00 4.81
930 934 3.202151 TGAAAGGTATGATGGGGGAAGTC 59.798 47.826 0.00 0.00 0.00 3.01
932 936 2.695585 AGGTATGATGGGGGAAGTCTC 58.304 52.381 0.00 0.00 0.00 3.36
964 968 5.048713 CACAAAGGTAGGTTCATTGAAGGAC 60.049 44.000 0.00 0.00 0.00 3.85
1038 1042 4.379918 GCTCTCAAGTTTGGCCTAACAATC 60.380 45.833 28.04 5.11 0.00 2.67
1050 1054 1.237954 TAACAATCGCGCAAAGGGCA 61.238 50.000 8.75 0.00 45.17 5.36
1078 1082 6.653320 GTGTAACCACCTAATCATCAACTCAA 59.347 38.462 0.00 0.00 35.44 3.02
1123 1127 1.280133 TGCAGGAAGGAGGACAATCAG 59.720 52.381 0.00 0.00 0.00 2.90
1131 1135 4.424711 GGACAATCAGCGGGGGCA 62.425 66.667 0.00 0.00 0.00 5.36
1152 1156 2.677979 GGCGGCAGTTTTCGAGGAC 61.678 63.158 3.07 0.00 0.00 3.85
1158 1162 3.335579 GGCAGTTTTCGAGGACTGTTAT 58.664 45.455 23.00 0.00 43.94 1.89
1169 1173 4.519350 CGAGGACTGTTATCACTATGCCTA 59.481 45.833 0.00 0.00 0.00 3.93
1211 1215 7.012989 TCGATTCGAACATTGTAATAGAGAGGA 59.987 37.037 6.24 0.00 31.06 3.71
1263 1267 9.220767 ACATTAGCTAAATTTTCTTCGACTTCT 57.779 29.630 10.85 0.00 0.00 2.85
1312 1316 8.175925 TGAAATTGTAATGATCCTCACAAACA 57.824 30.769 7.06 6.03 34.79 2.83
1318 1322 8.806429 TGTAATGATCCTCACAAACAATGTAT 57.194 30.769 0.00 0.00 41.46 2.29
1391 1395 2.594131 GGTAAACCCCACAAAGAAGCT 58.406 47.619 0.00 0.00 0.00 3.74
1392 1396 3.758425 GGTAAACCCCACAAAGAAGCTA 58.242 45.455 0.00 0.00 0.00 3.32
1393 1397 4.146564 GGTAAACCCCACAAAGAAGCTAA 58.853 43.478 0.00 0.00 0.00 3.09
1394 1398 4.217767 GGTAAACCCCACAAAGAAGCTAAG 59.782 45.833 0.00 0.00 0.00 2.18
1395 1399 2.586648 ACCCCACAAAGAAGCTAAGG 57.413 50.000 0.00 0.00 0.00 2.69
1396 1400 2.062636 ACCCCACAAAGAAGCTAAGGA 58.937 47.619 0.00 0.00 0.00 3.36
1397 1401 2.445525 ACCCCACAAAGAAGCTAAGGAA 59.554 45.455 0.00 0.00 0.00 3.36
1398 1402 2.820197 CCCCACAAAGAAGCTAAGGAAC 59.180 50.000 0.00 0.00 0.00 3.62
1399 1403 3.486383 CCCACAAAGAAGCTAAGGAACA 58.514 45.455 0.00 0.00 0.00 3.18
1400 1404 4.082125 CCCACAAAGAAGCTAAGGAACAT 58.918 43.478 0.00 0.00 0.00 2.71
1401 1405 4.156739 CCCACAAAGAAGCTAAGGAACATC 59.843 45.833 0.00 0.00 0.00 3.06
1402 1406 5.006386 CCACAAAGAAGCTAAGGAACATCT 58.994 41.667 0.00 0.00 0.00 2.90
1403 1407 5.123027 CCACAAAGAAGCTAAGGAACATCTC 59.877 44.000 0.00 0.00 0.00 2.75
1404 1408 5.123027 CACAAAGAAGCTAAGGAACATCTCC 59.877 44.000 0.00 0.00 45.81 3.71
1414 1418 3.703001 GGAACATCTCCAAGGACAAGA 57.297 47.619 0.00 0.00 44.67 3.02
1415 1419 3.604582 GGAACATCTCCAAGGACAAGAG 58.395 50.000 0.00 0.00 44.67 2.85
1416 1420 3.604582 GAACATCTCCAAGGACAAGAGG 58.395 50.000 0.00 0.00 0.00 3.69
1417 1421 2.907892 ACATCTCCAAGGACAAGAGGA 58.092 47.619 0.00 0.00 0.00 3.71
1418 1422 3.251484 ACATCTCCAAGGACAAGAGGAA 58.749 45.455 0.00 0.00 0.00 3.36
1419 1423 3.262915 ACATCTCCAAGGACAAGAGGAAG 59.737 47.826 0.00 0.00 0.00 3.46
1420 1424 2.260822 TCTCCAAGGACAAGAGGAAGG 58.739 52.381 0.00 0.00 0.00 3.46
1421 1425 2.158158 TCTCCAAGGACAAGAGGAAGGA 60.158 50.000 0.00 0.00 0.00 3.36
1422 1426 1.978580 TCCAAGGACAAGAGGAAGGAC 59.021 52.381 0.00 0.00 0.00 3.85
1423 1427 1.699634 CCAAGGACAAGAGGAAGGACA 59.300 52.381 0.00 0.00 0.00 4.02
1424 1428 2.551071 CCAAGGACAAGAGGAAGGACAC 60.551 54.545 0.00 0.00 0.00 3.67
1425 1429 1.353091 AGGACAAGAGGAAGGACACC 58.647 55.000 0.00 0.00 0.00 4.16
1426 1430 1.056660 GGACAAGAGGAAGGACACCA 58.943 55.000 0.00 0.00 0.00 4.17
1427 1431 1.420138 GGACAAGAGGAAGGACACCAA 59.580 52.381 0.00 0.00 0.00 3.67
1428 1432 2.551071 GGACAAGAGGAAGGACACCAAG 60.551 54.545 0.00 0.00 0.00 3.61
1429 1433 1.421646 ACAAGAGGAAGGACACCAAGG 59.578 52.381 0.00 0.00 0.00 3.61
1430 1434 1.699634 CAAGAGGAAGGACACCAAGGA 59.300 52.381 0.00 0.00 0.00 3.36
1431 1435 1.353091 AGAGGAAGGACACCAAGGAC 58.647 55.000 0.00 0.00 0.00 3.85
1432 1436 1.056660 GAGGAAGGACACCAAGGACA 58.943 55.000 0.00 0.00 0.00 4.02
1433 1437 0.765510 AGGAAGGACACCAAGGACAC 59.234 55.000 0.00 0.00 0.00 3.67
1434 1438 0.472471 GGAAGGACACCAAGGACACA 59.528 55.000 0.00 0.00 0.00 3.72
1435 1439 1.133915 GGAAGGACACCAAGGACACAA 60.134 52.381 0.00 0.00 0.00 3.33
1436 1440 2.222027 GAAGGACACCAAGGACACAAG 58.778 52.381 0.00 0.00 0.00 3.16
1437 1441 0.474184 AGGACACCAAGGACACAAGG 59.526 55.000 0.00 0.00 0.00 3.61
1438 1442 0.472471 GGACACCAAGGACACAAGGA 59.528 55.000 0.00 0.00 0.00 3.36
1439 1443 1.133915 GGACACCAAGGACACAAGGAA 60.134 52.381 0.00 0.00 0.00 3.36
1440 1444 2.222027 GACACCAAGGACACAAGGAAG 58.778 52.381 0.00 0.00 0.00 3.46
1441 1445 1.843851 ACACCAAGGACACAAGGAAGA 59.156 47.619 0.00 0.00 0.00 2.87
1442 1446 2.222027 CACCAAGGACACAAGGAAGAC 58.778 52.381 0.00 0.00 0.00 3.01
1443 1447 1.202651 ACCAAGGACACAAGGAAGACG 60.203 52.381 0.00 0.00 0.00 4.18
1444 1448 1.512926 CAAGGACACAAGGAAGACGG 58.487 55.000 0.00 0.00 0.00 4.79
1445 1449 1.070134 CAAGGACACAAGGAAGACGGA 59.930 52.381 0.00 0.00 0.00 4.69
1446 1450 0.969894 AGGACACAAGGAAGACGGAG 59.030 55.000 0.00 0.00 0.00 4.63
1447 1451 0.037232 GGACACAAGGAAGACGGAGG 60.037 60.000 0.00 0.00 0.00 4.30
1448 1452 0.670854 GACACAAGGAAGACGGAGGC 60.671 60.000 0.00 0.00 0.00 4.70
1449 1453 1.376037 CACAAGGAAGACGGAGGCC 60.376 63.158 0.00 0.00 0.00 5.19
1464 1468 3.793144 GCCGGCAGCACGAAGAAG 61.793 66.667 24.80 0.00 42.97 2.85
1465 1469 3.121030 CCGGCAGCACGAAGAAGG 61.121 66.667 4.99 0.00 35.47 3.46
1466 1470 3.121030 CGGCAGCACGAAGAAGGG 61.121 66.667 0.00 0.00 35.47 3.95
1467 1471 2.347490 GGCAGCACGAAGAAGGGA 59.653 61.111 0.00 0.00 0.00 4.20
1468 1472 1.743252 GGCAGCACGAAGAAGGGAG 60.743 63.158 0.00 0.00 0.00 4.30
1469 1473 1.743252 GCAGCACGAAGAAGGGAGG 60.743 63.158 0.00 0.00 0.00 4.30
1470 1474 1.975327 CAGCACGAAGAAGGGAGGA 59.025 57.895 0.00 0.00 0.00 3.71
1471 1475 0.390472 CAGCACGAAGAAGGGAGGAC 60.390 60.000 0.00 0.00 0.00 3.85
1472 1476 1.079057 GCACGAAGAAGGGAGGACC 60.079 63.158 0.00 0.00 40.67 4.46
1484 1488 2.279408 AGGACCTCCTAGGCGACC 59.721 66.667 2.96 6.50 46.48 4.79
1485 1489 2.838693 GGACCTCCTAGGCGACCC 60.839 72.222 2.96 0.00 39.63 4.46
1486 1490 2.043248 GACCTCCTAGGCGACCCA 60.043 66.667 2.96 0.00 39.63 4.51
1487 1491 2.042843 ACCTCCTAGGCGACCCAG 60.043 66.667 2.96 0.00 39.63 4.45
1488 1492 2.042843 CCTCCTAGGCGACCCAGT 60.043 66.667 2.96 0.00 0.00 4.00
1489 1493 2.427245 CCTCCTAGGCGACCCAGTG 61.427 68.421 2.96 0.00 0.00 3.66
1490 1494 3.075005 TCCTAGGCGACCCAGTGC 61.075 66.667 2.96 0.00 0.00 4.40
1491 1495 4.514577 CCTAGGCGACCCAGTGCG 62.515 72.222 0.00 0.00 0.00 5.34
1513 1517 3.499737 GGCTTCGCCGACACCATG 61.500 66.667 0.00 0.00 39.62 3.66
1514 1518 4.166011 GCTTCGCCGACACCATGC 62.166 66.667 0.00 0.00 0.00 4.06
1515 1519 3.499737 CTTCGCCGACACCATGCC 61.500 66.667 0.00 0.00 0.00 4.40
1521 1525 4.386951 CGACACCATGCCCACGGA 62.387 66.667 0.00 0.00 0.00 4.69
1522 1526 2.746277 GACACCATGCCCACGGAC 60.746 66.667 0.00 0.00 0.00 4.79
1523 1527 3.249189 ACACCATGCCCACGGACT 61.249 61.111 0.00 0.00 0.00 3.85
1524 1528 1.895020 GACACCATGCCCACGGACTA 61.895 60.000 0.00 0.00 0.00 2.59
1525 1529 1.449601 CACCATGCCCACGGACTAC 60.450 63.158 0.00 0.00 0.00 2.73
1526 1530 2.189521 CCATGCCCACGGACTACC 59.810 66.667 0.00 0.00 0.00 3.18
1527 1531 2.189521 CATGCCCACGGACTACCC 59.810 66.667 0.00 0.00 0.00 3.69
1528 1532 2.285069 ATGCCCACGGACTACCCA 60.285 61.111 0.00 0.00 34.14 4.51
1529 1533 2.367202 ATGCCCACGGACTACCCAG 61.367 63.158 0.00 0.00 34.14 4.45
1530 1534 2.682494 GCCCACGGACTACCCAGA 60.682 66.667 0.00 0.00 34.14 3.86
1531 1535 2.722201 GCCCACGGACTACCCAGAG 61.722 68.421 0.00 0.00 34.14 3.35
1532 1536 1.000019 CCCACGGACTACCCAGAGA 60.000 63.158 0.00 0.00 34.14 3.10
1533 1537 1.038130 CCCACGGACTACCCAGAGAG 61.038 65.000 0.00 0.00 34.14 3.20
1534 1538 1.668101 CCACGGACTACCCAGAGAGC 61.668 65.000 0.00 0.00 34.14 4.09
1535 1539 0.681564 CACGGACTACCCAGAGAGCT 60.682 60.000 0.00 0.00 34.14 4.09
1536 1540 0.917533 ACGGACTACCCAGAGAGCTA 59.082 55.000 0.00 0.00 34.14 3.32
1537 1541 1.495574 ACGGACTACCCAGAGAGCTAT 59.504 52.381 0.00 0.00 34.14 2.97
1538 1542 2.156098 CGGACTACCCAGAGAGCTATC 58.844 57.143 0.00 0.00 34.14 2.08
1539 1543 2.156098 GGACTACCCAGAGAGCTATCG 58.844 57.143 2.03 0.00 34.14 2.92
1540 1544 2.224572 GGACTACCCAGAGAGCTATCGA 60.225 54.545 2.03 0.00 34.14 3.59
1541 1545 3.478509 GACTACCCAGAGAGCTATCGAA 58.521 50.000 2.03 0.00 0.00 3.71
1542 1546 3.884091 GACTACCCAGAGAGCTATCGAAA 59.116 47.826 2.03 0.00 0.00 3.46
1543 1547 3.886505 ACTACCCAGAGAGCTATCGAAAG 59.113 47.826 2.03 0.78 0.00 2.62
1544 1548 2.741145 ACCCAGAGAGCTATCGAAAGT 58.259 47.619 2.03 0.00 0.00 2.66
1545 1549 2.428890 ACCCAGAGAGCTATCGAAAGTG 59.571 50.000 2.03 0.00 0.00 3.16
1546 1550 2.690497 CCCAGAGAGCTATCGAAAGTGA 59.310 50.000 2.03 0.00 0.00 3.41
1547 1551 3.131223 CCCAGAGAGCTATCGAAAGTGAA 59.869 47.826 2.03 0.00 0.00 3.18
1548 1552 4.358851 CCAGAGAGCTATCGAAAGTGAAG 58.641 47.826 2.03 0.00 0.00 3.02
1549 1553 4.097135 CCAGAGAGCTATCGAAAGTGAAGA 59.903 45.833 2.03 0.00 0.00 2.87
1550 1554 5.034152 CAGAGAGCTATCGAAAGTGAAGAC 58.966 45.833 2.03 0.00 0.00 3.01
1551 1555 4.022464 AGAGCTATCGAAAGTGAAGACG 57.978 45.455 0.00 0.00 0.00 4.18
1552 1556 2.531206 AGCTATCGAAAGTGAAGACGC 58.469 47.619 0.00 0.00 0.00 5.19
1553 1557 2.094700 AGCTATCGAAAGTGAAGACGCA 60.095 45.455 0.00 0.00 0.00 5.24
1554 1558 2.028165 GCTATCGAAAGTGAAGACGCAC 59.972 50.000 0.00 0.00 39.05 5.34
1555 1559 2.148916 ATCGAAAGTGAAGACGCACA 57.851 45.000 0.00 0.00 41.19 4.57
1556 1560 1.205657 TCGAAAGTGAAGACGCACAC 58.794 50.000 0.00 0.00 41.19 3.82
1557 1561 0.232303 CGAAAGTGAAGACGCACACC 59.768 55.000 0.00 0.00 41.19 4.16
1558 1562 0.586802 GAAAGTGAAGACGCACACCC 59.413 55.000 0.00 0.00 41.19 4.61
1559 1563 0.818040 AAAGTGAAGACGCACACCCC 60.818 55.000 0.00 0.00 41.19 4.95
1560 1564 1.978455 AAGTGAAGACGCACACCCCA 61.978 55.000 0.00 0.00 41.19 4.96
1561 1565 1.525077 GTGAAGACGCACACCCCAA 60.525 57.895 0.00 0.00 38.63 4.12
1562 1566 1.227823 TGAAGACGCACACCCCAAG 60.228 57.895 0.00 0.00 0.00 3.61
1563 1567 2.594592 AAGACGCACACCCCAAGC 60.595 61.111 0.00 0.00 0.00 4.01
1637 1641 5.841237 CCATAGCCCCTACTGCTACATATAT 59.159 44.000 0.00 0.00 43.59 0.86
1663 1667 2.398498 CAATTACTAGAGCTCGCGCAT 58.602 47.619 8.75 0.00 39.10 4.73
1740 1744 9.622004 CATGAGAATATGATGTTGCCTAAATTC 57.378 33.333 0.00 0.00 0.00 2.17
1870 1874 4.625742 ACGGAGTTACAAGTGATGATTTCG 59.374 41.667 0.00 0.00 37.78 3.46
1899 1903 1.755179 AGCCACCATAATGAGTGCAC 58.245 50.000 9.40 9.40 32.48 4.57
1961 1965 7.200434 AGTTTCATCCAAAGGCTATTCTAGA 57.800 36.000 0.00 0.00 0.00 2.43
2099 2103 0.254747 CCCCAAGGGCTACGAAATCA 59.745 55.000 0.00 0.00 35.35 2.57
2194 2202 1.908344 TTGCCATAGCTGCAACTTCA 58.092 45.000 5.88 0.00 43.36 3.02
2228 2236 3.496884 TGTATTCAACGACCAGACAAAGC 59.503 43.478 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 5.793817 TCCCAGATATTGATGTTATGTCCG 58.206 41.667 0.00 0.00 0.00 4.79
47 48 4.096681 TCACAATCCTCCTAGTGACACAT 58.903 43.478 8.59 0.00 36.20 3.21
110 112 5.484715 CAATTGTTGGAAGCAGGATCAATT 58.515 37.500 0.00 0.00 35.40 2.32
261 263 5.194473 TCCACTGAGTAAGTAGACCTCAT 57.806 43.478 0.00 0.00 36.83 2.90
263 265 5.163499 CCATTCCACTGAGTAAGTAGACCTC 60.163 48.000 0.00 0.00 36.83 3.85
270 272 7.861629 TGATAATTCCATTCCACTGAGTAAGT 58.138 34.615 0.00 0.00 40.93 2.24
278 280 6.332635 TCCCATACTGATAATTCCATTCCACT 59.667 38.462 0.00 0.00 0.00 4.00
351 353 3.270877 ACTTCCATATCTGACGCCAAAC 58.729 45.455 0.00 0.00 0.00 2.93
400 403 5.943416 TGCCATGTAATGTAGGCCATATAAC 59.057 40.000 5.01 0.00 44.81 1.89
410 413 3.134623 TGGGAGAGTGCCATGTAATGTAG 59.865 47.826 0.00 0.00 44.81 2.74
436 439 4.018490 TGTCTATTAGCGAGTGTTACCCA 58.982 43.478 0.00 0.00 0.00 4.51
471 474 2.750350 CAAGTCGGGCAAGAGGGT 59.250 61.111 0.00 0.00 0.00 4.34
501 504 6.922957 GGAAAAGCATGTGTTTTGTATCTTCA 59.077 34.615 11.30 0.00 0.00 3.02
510 513 5.594317 ACTACAGAGGAAAAGCATGTGTTTT 59.406 36.000 7.42 7.42 36.19 2.43
552 555 4.624913 TCACATCCATCCCTAGTCTCTTT 58.375 43.478 0.00 0.00 0.00 2.52
580 583 6.571150 GCAAGATCAACCTCACAAGCTTTATT 60.571 38.462 0.00 0.00 0.00 1.40
609 612 6.521527 AGAAGGTATTCCAATATTGCCTCT 57.478 37.500 10.11 7.32 35.94 3.69
641 644 6.326583 CCCCATAATACTCAAGTCTTGGTCTA 59.673 42.308 12.66 5.84 0.00 2.59
700 703 2.953093 TCCCACCATAGGTACCAAGA 57.047 50.000 15.94 0.00 32.11 3.02
790 793 3.006659 TGCACTTACAAAATTGGACGC 57.993 42.857 0.00 0.00 0.00 5.19
792 795 7.649306 GGATATGATGCACTTACAAAATTGGAC 59.351 37.037 0.00 0.00 0.00 4.02
798 801 7.546358 CCTTTGGATATGATGCACTTACAAAA 58.454 34.615 0.00 0.00 0.00 2.44
806 809 1.267806 CCGCCTTTGGATATGATGCAC 59.732 52.381 0.00 0.00 0.00 4.57
815 818 0.679640 TTTCATCGCCGCCTTTGGAT 60.680 50.000 0.00 0.00 0.00 3.41
843 846 5.864198 AACCCCTAGGAGGATAGTACTAG 57.136 47.826 19.81 0.00 37.67 2.57
845 848 5.217400 CAAAACCCCTAGGAGGATAGTACT 58.783 45.833 19.81 0.00 37.67 2.73
903 907 3.638160 CCCCCATCATACCTTTCAACATG 59.362 47.826 0.00 0.00 0.00 3.21
912 916 2.022035 TGAGACTTCCCCCATCATACCT 60.022 50.000 0.00 0.00 0.00 3.08
917 921 2.191400 CTCTTGAGACTTCCCCCATCA 58.809 52.381 0.00 0.00 0.00 3.07
926 930 4.078639 CCTTTGTGGTCTCTTGAGACTT 57.921 45.455 24.37 0.00 38.74 3.01
959 963 5.316987 AGTCAATCTTTCCATTTCGTCCTT 58.683 37.500 0.00 0.00 0.00 3.36
964 968 6.470235 GCACAATAGTCAATCTTTCCATTTCG 59.530 38.462 0.00 0.00 0.00 3.46
1061 1065 7.309377 CCATGTTGTTTGAGTTGATGATTAGGT 60.309 37.037 0.00 0.00 0.00 3.08
1078 1082 2.174639 TCTCAACCACCTCCATGTTGTT 59.825 45.455 0.00 0.00 40.13 2.83
1131 1135 4.980805 TCGAAAACTGCCGCCGCT 62.981 61.111 0.00 0.00 35.36 5.52
1137 1141 1.594331 AACAGTCCTCGAAAACTGCC 58.406 50.000 20.91 0.00 45.41 4.85
1186 1190 7.139392 TCCTCTCTATTACAATGTTCGAATCG 58.861 38.462 0.00 0.00 0.00 3.34
1211 1215 8.115490 AGCAAGTTCATGAGCTACTTTATTTT 57.885 30.769 12.88 0.00 35.19 1.82
1238 1242 9.483062 CAGAAGTCGAAGAAAATTTAGCTAATG 57.517 33.333 7.08 0.00 39.69 1.90
1247 1251 5.368989 ACCAGTCAGAAGTCGAAGAAAATT 58.631 37.500 0.00 0.00 39.69 1.82
1371 1375 2.594131 AGCTTCTTTGTGGGGTTTACC 58.406 47.619 0.00 0.00 39.11 2.85
1372 1376 4.217767 CCTTAGCTTCTTTGTGGGGTTTAC 59.782 45.833 0.00 0.00 0.00 2.01
1373 1377 4.105057 TCCTTAGCTTCTTTGTGGGGTTTA 59.895 41.667 0.00 0.00 0.00 2.01
1374 1378 3.117284 TCCTTAGCTTCTTTGTGGGGTTT 60.117 43.478 0.00 0.00 0.00 3.27
1375 1379 2.445525 TCCTTAGCTTCTTTGTGGGGTT 59.554 45.455 0.00 0.00 0.00 4.11
1376 1380 2.062636 TCCTTAGCTTCTTTGTGGGGT 58.937 47.619 0.00 0.00 0.00 4.95
1377 1381 2.820197 GTTCCTTAGCTTCTTTGTGGGG 59.180 50.000 0.00 0.00 0.00 4.96
1378 1382 3.486383 TGTTCCTTAGCTTCTTTGTGGG 58.514 45.455 0.00 0.00 0.00 4.61
1379 1383 5.006386 AGATGTTCCTTAGCTTCTTTGTGG 58.994 41.667 0.00 0.00 0.00 4.17
1380 1384 5.123027 GGAGATGTTCCTTAGCTTCTTTGTG 59.877 44.000 0.00 0.00 43.16 3.33
1381 1385 5.221925 TGGAGATGTTCCTTAGCTTCTTTGT 60.222 40.000 0.00 0.00 46.92 2.83
1382 1386 5.248640 TGGAGATGTTCCTTAGCTTCTTTG 58.751 41.667 0.00 0.00 46.92 2.77
1383 1387 5.505181 TGGAGATGTTCCTTAGCTTCTTT 57.495 39.130 0.00 0.00 46.92 2.52
1384 1388 5.495640 CTTGGAGATGTTCCTTAGCTTCTT 58.504 41.667 0.00 0.00 46.92 2.52
1385 1389 4.080638 CCTTGGAGATGTTCCTTAGCTTCT 60.081 45.833 0.00 0.00 46.92 2.85
1386 1390 4.080863 TCCTTGGAGATGTTCCTTAGCTTC 60.081 45.833 0.00 0.00 46.92 3.86
1387 1391 3.846588 TCCTTGGAGATGTTCCTTAGCTT 59.153 43.478 0.00 0.00 46.92 3.74
1388 1392 3.198853 GTCCTTGGAGATGTTCCTTAGCT 59.801 47.826 0.00 0.00 46.92 3.32
1389 1393 3.055094 TGTCCTTGGAGATGTTCCTTAGC 60.055 47.826 0.00 0.00 46.92 3.09
1390 1394 4.826274 TGTCCTTGGAGATGTTCCTTAG 57.174 45.455 0.00 0.00 46.92 2.18
1391 1395 4.844085 TCTTGTCCTTGGAGATGTTCCTTA 59.156 41.667 0.00 0.00 46.92 2.69
1392 1396 3.652869 TCTTGTCCTTGGAGATGTTCCTT 59.347 43.478 0.00 0.00 46.92 3.36
1393 1397 3.251484 TCTTGTCCTTGGAGATGTTCCT 58.749 45.455 0.00 0.00 46.92 3.36
1394 1398 3.604582 CTCTTGTCCTTGGAGATGTTCC 58.395 50.000 0.00 0.00 46.98 3.62
1395 1399 3.261897 TCCTCTTGTCCTTGGAGATGTTC 59.738 47.826 0.00 0.00 0.00 3.18
1396 1400 3.251484 TCCTCTTGTCCTTGGAGATGTT 58.749 45.455 0.00 0.00 0.00 2.71
1397 1401 2.907892 TCCTCTTGTCCTTGGAGATGT 58.092 47.619 0.00 0.00 0.00 3.06
1398 1402 3.370315 CCTTCCTCTTGTCCTTGGAGATG 60.370 52.174 0.00 0.00 0.00 2.90
1399 1403 2.843113 CCTTCCTCTTGTCCTTGGAGAT 59.157 50.000 0.00 0.00 0.00 2.75
1400 1404 2.158158 TCCTTCCTCTTGTCCTTGGAGA 60.158 50.000 0.00 0.00 0.00 3.71
1401 1405 2.027653 GTCCTTCCTCTTGTCCTTGGAG 60.028 54.545 0.00 0.00 0.00 3.86
1402 1406 1.978580 GTCCTTCCTCTTGTCCTTGGA 59.021 52.381 0.00 0.00 0.00 3.53
1403 1407 1.699634 TGTCCTTCCTCTTGTCCTTGG 59.300 52.381 0.00 0.00 0.00 3.61
1404 1408 2.551071 GGTGTCCTTCCTCTTGTCCTTG 60.551 54.545 0.00 0.00 0.00 3.61
1405 1409 1.700186 GGTGTCCTTCCTCTTGTCCTT 59.300 52.381 0.00 0.00 0.00 3.36
1406 1410 1.353091 GGTGTCCTTCCTCTTGTCCT 58.647 55.000 0.00 0.00 0.00 3.85
1407 1411 1.056660 TGGTGTCCTTCCTCTTGTCC 58.943 55.000 0.00 0.00 0.00 4.02
1408 1412 2.551071 CCTTGGTGTCCTTCCTCTTGTC 60.551 54.545 0.00 0.00 0.00 3.18
1409 1413 1.421646 CCTTGGTGTCCTTCCTCTTGT 59.578 52.381 0.00 0.00 0.00 3.16
1410 1414 1.699634 TCCTTGGTGTCCTTCCTCTTG 59.300 52.381 0.00 0.00 0.00 3.02
1411 1415 1.700186 GTCCTTGGTGTCCTTCCTCTT 59.300 52.381 0.00 0.00 0.00 2.85
1412 1416 1.353091 GTCCTTGGTGTCCTTCCTCT 58.647 55.000 0.00 0.00 0.00 3.69
1413 1417 1.056660 TGTCCTTGGTGTCCTTCCTC 58.943 55.000 0.00 0.00 0.00 3.71
1414 1418 0.765510 GTGTCCTTGGTGTCCTTCCT 59.234 55.000 0.00 0.00 0.00 3.36
1415 1419 0.472471 TGTGTCCTTGGTGTCCTTCC 59.528 55.000 0.00 0.00 0.00 3.46
1416 1420 2.222027 CTTGTGTCCTTGGTGTCCTTC 58.778 52.381 0.00 0.00 0.00 3.46
1417 1421 1.133792 CCTTGTGTCCTTGGTGTCCTT 60.134 52.381 0.00 0.00 0.00 3.36
1418 1422 0.474184 CCTTGTGTCCTTGGTGTCCT 59.526 55.000 0.00 0.00 0.00 3.85
1419 1423 0.472471 TCCTTGTGTCCTTGGTGTCC 59.528 55.000 0.00 0.00 0.00 4.02
1420 1424 2.158813 TCTTCCTTGTGTCCTTGGTGTC 60.159 50.000 0.00 0.00 0.00 3.67
1421 1425 1.843851 TCTTCCTTGTGTCCTTGGTGT 59.156 47.619 0.00 0.00 0.00 4.16
1422 1426 2.222027 GTCTTCCTTGTGTCCTTGGTG 58.778 52.381 0.00 0.00 0.00 4.17
1423 1427 1.202651 CGTCTTCCTTGTGTCCTTGGT 60.203 52.381 0.00 0.00 0.00 3.67
1424 1428 1.512926 CGTCTTCCTTGTGTCCTTGG 58.487 55.000 0.00 0.00 0.00 3.61
1425 1429 1.070134 TCCGTCTTCCTTGTGTCCTTG 59.930 52.381 0.00 0.00 0.00 3.61
1426 1430 1.344763 CTCCGTCTTCCTTGTGTCCTT 59.655 52.381 0.00 0.00 0.00 3.36
1427 1431 0.969894 CTCCGTCTTCCTTGTGTCCT 59.030 55.000 0.00 0.00 0.00 3.85
1428 1432 0.037232 CCTCCGTCTTCCTTGTGTCC 60.037 60.000 0.00 0.00 0.00 4.02
1429 1433 0.670854 GCCTCCGTCTTCCTTGTGTC 60.671 60.000 0.00 0.00 0.00 3.67
1430 1434 1.371558 GCCTCCGTCTTCCTTGTGT 59.628 57.895 0.00 0.00 0.00 3.72
1431 1435 1.376037 GGCCTCCGTCTTCCTTGTG 60.376 63.158 0.00 0.00 0.00 3.33
1432 1436 2.943978 CGGCCTCCGTCTTCCTTGT 61.944 63.158 0.00 0.00 42.73 3.16
1433 1437 2.125512 CGGCCTCCGTCTTCCTTG 60.126 66.667 0.00 0.00 42.73 3.61
1434 1438 3.391382 CCGGCCTCCGTCTTCCTT 61.391 66.667 0.00 0.00 46.80 3.36
1437 1441 4.821589 CTGCCGGCCTCCGTCTTC 62.822 72.222 26.77 0.00 46.80 2.87
1447 1451 3.793144 CTTCTTCGTGCTGCCGGC 61.793 66.667 22.73 22.73 42.22 6.13
1448 1452 3.121030 CCTTCTTCGTGCTGCCGG 61.121 66.667 0.00 0.00 0.00 6.13
1449 1453 3.121030 CCCTTCTTCGTGCTGCCG 61.121 66.667 0.00 0.19 0.00 5.69
1450 1454 1.743252 CTCCCTTCTTCGTGCTGCC 60.743 63.158 0.00 0.00 0.00 4.85
1451 1455 1.743252 CCTCCCTTCTTCGTGCTGC 60.743 63.158 0.00 0.00 0.00 5.25
1452 1456 0.390472 GTCCTCCCTTCTTCGTGCTG 60.390 60.000 0.00 0.00 0.00 4.41
1453 1457 1.545706 GGTCCTCCCTTCTTCGTGCT 61.546 60.000 0.00 0.00 0.00 4.40
1454 1458 1.079057 GGTCCTCCCTTCTTCGTGC 60.079 63.158 0.00 0.00 0.00 5.34
1455 1459 0.533032 GAGGTCCTCCCTTCTTCGTG 59.467 60.000 7.78 0.00 46.51 4.35
1456 1460 0.615261 GGAGGTCCTCCCTTCTTCGT 60.615 60.000 25.89 0.00 46.51 3.85
1457 1461 2.203806 GGAGGTCCTCCCTTCTTCG 58.796 63.158 25.89 0.00 46.51 3.79
1466 1470 1.829096 GGTCGCCTAGGAGGTCCTC 60.829 68.421 14.75 10.78 44.77 3.71
1468 1472 2.838693 GGGTCGCCTAGGAGGTCC 60.839 72.222 14.75 15.12 37.80 4.46
1469 1473 2.043248 TGGGTCGCCTAGGAGGTC 60.043 66.667 14.75 6.52 37.80 3.85
1470 1474 2.042843 CTGGGTCGCCTAGGAGGT 60.043 66.667 14.75 0.00 37.80 3.85
1471 1475 2.042843 ACTGGGTCGCCTAGGAGG 60.043 66.667 14.75 3.05 36.37 4.30
1472 1476 3.082579 GCACTGGGTCGCCTAGGAG 62.083 68.421 14.75 10.25 36.37 3.69
1473 1477 3.075005 GCACTGGGTCGCCTAGGA 61.075 66.667 14.75 0.00 36.37 2.94
1474 1478 4.514577 CGCACTGGGTCGCCTAGG 62.515 72.222 3.67 3.67 36.37 3.02
1498 1502 3.499737 GGCATGGTGTCGGCGAAG 61.500 66.667 12.92 0.00 0.00 3.79
1504 1508 4.386951 TCCGTGGGCATGGTGTCG 62.387 66.667 0.00 0.00 38.61 4.35
1505 1509 1.895020 TAGTCCGTGGGCATGGTGTC 61.895 60.000 0.00 0.00 38.61 3.67
1506 1510 1.916273 TAGTCCGTGGGCATGGTGT 60.916 57.895 0.00 0.00 38.61 4.16
1507 1511 1.449601 GTAGTCCGTGGGCATGGTG 60.450 63.158 0.00 0.00 38.61 4.17
1508 1512 2.666098 GGTAGTCCGTGGGCATGGT 61.666 63.158 0.00 0.00 38.61 3.55
1509 1513 2.189521 GGTAGTCCGTGGGCATGG 59.810 66.667 0.00 0.00 38.85 3.66
1510 1514 2.189521 GGGTAGTCCGTGGGCATG 59.810 66.667 0.00 0.00 33.83 4.06
1511 1515 2.285069 TGGGTAGTCCGTGGGCAT 60.285 61.111 0.00 0.00 38.76 4.40
1512 1516 3.000819 CTGGGTAGTCCGTGGGCA 61.001 66.667 0.00 0.00 38.76 5.36
1513 1517 2.682494 TCTGGGTAGTCCGTGGGC 60.682 66.667 0.00 0.00 38.76 5.36
1514 1518 1.000019 TCTCTGGGTAGTCCGTGGG 60.000 63.158 0.00 0.00 38.76 4.61
1515 1519 1.668101 GCTCTCTGGGTAGTCCGTGG 61.668 65.000 0.00 0.00 38.76 4.94
1516 1520 0.681564 AGCTCTCTGGGTAGTCCGTG 60.682 60.000 0.00 0.00 38.76 4.94
1517 1521 0.917533 TAGCTCTCTGGGTAGTCCGT 59.082 55.000 0.00 0.00 38.76 4.69
1518 1522 2.156098 GATAGCTCTCTGGGTAGTCCG 58.844 57.143 0.00 0.00 38.76 4.79
1519 1523 2.156098 CGATAGCTCTCTGGGTAGTCC 58.844 57.143 0.00 0.00 0.00 3.85
1520 1524 3.128852 TCGATAGCTCTCTGGGTAGTC 57.871 52.381 0.00 0.00 0.00 2.59
1521 1525 3.579534 TTCGATAGCTCTCTGGGTAGT 57.420 47.619 0.00 0.00 0.00 2.73
1522 1526 3.886505 ACTTTCGATAGCTCTCTGGGTAG 59.113 47.826 2.50 0.00 0.00 3.18
1523 1527 3.632604 CACTTTCGATAGCTCTCTGGGTA 59.367 47.826 2.50 0.00 0.00 3.69
1524 1528 2.428890 CACTTTCGATAGCTCTCTGGGT 59.571 50.000 2.50 0.00 0.00 4.51
1525 1529 2.690497 TCACTTTCGATAGCTCTCTGGG 59.310 50.000 2.50 0.00 0.00 4.45
1526 1530 4.097135 TCTTCACTTTCGATAGCTCTCTGG 59.903 45.833 2.50 0.00 0.00 3.86
1527 1531 5.034152 GTCTTCACTTTCGATAGCTCTCTG 58.966 45.833 2.50 0.00 0.00 3.35
1528 1532 4.201871 CGTCTTCACTTTCGATAGCTCTCT 60.202 45.833 2.50 0.00 0.00 3.10
1529 1533 4.032355 CGTCTTCACTTTCGATAGCTCTC 58.968 47.826 2.50 0.00 0.00 3.20
1530 1534 3.732471 GCGTCTTCACTTTCGATAGCTCT 60.732 47.826 2.50 0.00 0.00 4.09
1531 1535 2.532317 GCGTCTTCACTTTCGATAGCTC 59.468 50.000 2.50 0.00 0.00 4.09
1532 1536 2.094700 TGCGTCTTCACTTTCGATAGCT 60.095 45.455 2.50 0.00 0.00 3.32
1533 1537 2.028165 GTGCGTCTTCACTTTCGATAGC 59.972 50.000 2.50 0.00 34.29 2.97
1534 1538 3.059570 GTGTGCGTCTTCACTTTCGATAG 59.940 47.826 0.92 0.92 37.81 2.08
1535 1539 2.984471 GTGTGCGTCTTCACTTTCGATA 59.016 45.455 0.00 0.00 37.81 2.92
1536 1540 1.792949 GTGTGCGTCTTCACTTTCGAT 59.207 47.619 0.00 0.00 37.81 3.59
1537 1541 1.205657 GTGTGCGTCTTCACTTTCGA 58.794 50.000 0.00 0.00 37.81 3.71
1538 1542 0.232303 GGTGTGCGTCTTCACTTTCG 59.768 55.000 0.00 0.00 37.81 3.46
1539 1543 0.586802 GGGTGTGCGTCTTCACTTTC 59.413 55.000 0.00 0.00 37.81 2.62
1540 1544 0.818040 GGGGTGTGCGTCTTCACTTT 60.818 55.000 0.00 0.00 37.81 2.66
1541 1545 1.227853 GGGGTGTGCGTCTTCACTT 60.228 57.895 0.00 0.00 37.81 3.16
1542 1546 1.978455 TTGGGGTGTGCGTCTTCACT 61.978 55.000 0.00 0.00 37.81 3.41
1543 1547 1.507141 CTTGGGGTGTGCGTCTTCAC 61.507 60.000 0.00 0.00 37.48 3.18
1544 1548 1.227823 CTTGGGGTGTGCGTCTTCA 60.228 57.895 0.00 0.00 0.00 3.02
1545 1549 2.617274 GCTTGGGGTGTGCGTCTTC 61.617 63.158 0.00 0.00 0.00 2.87
1546 1550 2.594592 GCTTGGGGTGTGCGTCTT 60.595 61.111 0.00 0.00 0.00 3.01
1547 1551 4.988598 CGCTTGGGGTGTGCGTCT 62.989 66.667 0.00 0.00 44.00 4.18
1565 1569 4.410400 GGGGTCAAGAGGCCCGTG 62.410 72.222 0.00 0.00 45.74 4.94
1566 1570 4.974438 TGGGGTCAAGAGGCCCGT 62.974 66.667 0.00 0.00 45.74 5.28
1567 1571 3.411517 ATGGGGTCAAGAGGCCCG 61.412 66.667 0.00 0.00 45.74 6.13
1568 1572 1.649271 ATCATGGGGTCAAGAGGCCC 61.649 60.000 0.00 0.00 44.09 5.80
1569 1573 0.466922 CATCATGGGGTCAAGAGGCC 60.467 60.000 0.00 0.00 0.00 5.19
1570 1574 0.548031 TCATCATGGGGTCAAGAGGC 59.452 55.000 0.00 0.00 0.00 4.70
1571 1575 1.142465 CCTCATCATGGGGTCAAGAGG 59.858 57.143 0.00 0.00 31.83 3.69
1572 1576 2.121948 TCCTCATCATGGGGTCAAGAG 58.878 52.381 2.56 0.00 39.64 2.85
1573 1577 1.839994 GTCCTCATCATGGGGTCAAGA 59.160 52.381 2.56 0.00 39.64 3.02
1574 1578 1.561076 TGTCCTCATCATGGGGTCAAG 59.439 52.381 2.56 0.00 39.64 3.02
1575 1579 1.667595 TGTCCTCATCATGGGGTCAA 58.332 50.000 2.56 0.00 39.64 3.18
1576 1580 1.770658 GATGTCCTCATCATGGGGTCA 59.229 52.381 5.90 5.90 46.78 4.02
1577 1581 2.557920 GATGTCCTCATCATGGGGTC 57.442 55.000 2.56 0.00 46.78 4.46
1637 1641 3.430374 GCGAGCTCTAGTAATTGGTCCAA 60.430 47.826 12.85 6.80 0.00 3.53
1663 1667 9.868277 CAAAAGTACCTGATAATTTAATTGGCA 57.132 29.630 0.00 0.00 30.99 4.92
1870 1874 2.507407 TATGGTGGCTTCAAAGTCCC 57.493 50.000 0.00 0.00 0.00 4.46
1899 1903 4.116961 TGTATATTTCGTCCAAGGCTTCG 58.883 43.478 0.00 0.00 0.00 3.79
1938 1942 7.500559 ACATCTAGAATAGCCTTTGGATGAAAC 59.499 37.037 0.00 0.00 38.99 2.78
1961 1965 4.338118 CCCAATAATAAGGTGACGCAACAT 59.662 41.667 0.00 0.00 0.00 2.71
2154 2161 8.041323 TGGCAAACTTTAATCTAAACAAAACCA 58.959 29.630 0.00 0.00 0.00 3.67
2209 2217 1.880027 GGCTTTGTCTGGTCGTTGAAT 59.120 47.619 0.00 0.00 0.00 2.57
2228 2236 0.250727 AACATGGGGTTCTGTGACGG 60.251 55.000 0.00 0.00 33.35 4.79
2257 2265 7.174080 GGATATTGTGAATAGAAGAGGAAAGCC 59.826 40.741 0.00 0.00 0.00 4.35


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

AutoCloner maintained by Alex Coulton.