Multiple sequence alignment - TraesCS7D01G048700

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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 TraesCS7D01G048700 chr7D 100.000 2948 0 0 1 2948 25130218 25133165 0.000000e+00 5445.0
1 TraesCS7D01G048700 chr7D 87.931 348 29 3 1 338 25057091 25057435 5.920000e-107 398.0
2 TraesCS7D01G048700 chr7D 86.377 345 42 4 759 1102 25057634 25057974 3.590000e-99 372.0
3 TraesCS7D01G048700 chr7D 77.731 238 45 6 2704 2935 25116128 25116363 3.960000e-29 139.0
4 TraesCS7D01G048700 chr4A 95.200 2104 90 9 852 2948 708466357 708464258 0.000000e+00 3315.0
5 TraesCS7D01G048700 chr4A 96.481 341 8 2 1 338 708466932 708466593 7.140000e-156 560.0
6 TraesCS7D01G048700 chr4A 86.391 338 41 4 766 1102 708540885 708540552 6.000000e-97 364.0
7 TraesCS7D01G048700 chr4A 90.873 252 21 2 495 745 96723239 96723489 1.310000e-88 337.0
8 TraesCS7D01G048700 chr4A 83.258 221 24 3 127 336 708541254 708541036 1.080000e-44 191.0
9 TraesCS7D01G048700 chr4A 86.806 144 18 1 1 143 708542118 708541975 3.040000e-35 159.0
10 TraesCS7D01G048700 chr4A 73.333 285 53 16 960 1229 708460892 708460616 1.880000e-12 84.2
11 TraesCS7D01G048700 chr7A 95.913 1150 37 9 1406 2551 25958267 25959410 0.000000e+00 1855.0
12 TraesCS7D01G048700 chr7A 95.156 640 31 0 759 1398 25957452 25958091 0.000000e+00 1011.0
13 TraesCS7D01G048700 chr7A 95.652 345 7 2 1 338 25956902 25957245 5.560000e-152 547.0
14 TraesCS7D01G048700 chr7A 87.143 350 31 4 1 340 25941741 25942086 4.610000e-103 385.0
15 TraesCS7D01G048700 chr7A 89.823 226 21 1 877 1102 25942375 25942598 3.720000e-74 289.0
16 TraesCS7D01G048700 chr7A 85.769 260 29 7 493 745 89282139 89281881 4.840000e-68 268.0
17 TraesCS7D01G048700 chr7A 89.130 138 5 6 362 498 25957326 25957454 2.350000e-36 163.0
18 TraesCS7D01G048700 chr7A 97.059 34 0 1 1088 1121 25962206 25962238 4.100000e-04 56.5
19 TraesCS7D01G048700 chr3D 90.079 252 18 7 493 742 606736190 606736436 1.320000e-83 320.0
20 TraesCS7D01G048700 chr2B 88.583 254 27 2 493 745 51700015 51700267 1.030000e-79 307.0
21 TraesCS7D01G048700 chr3B 88.571 245 26 2 499 742 32001170 32001413 2.220000e-76 296.0
22 TraesCS7D01G048700 chr1D 86.111 252 30 3 495 742 282293997 282294247 1.740000e-67 267.0
23 TraesCS7D01G048700 chr3A 85.600 250 34 2 494 742 725101547 725101795 8.100000e-66 261.0
24 TraesCS7D01G048700 chr7B 85.317 252 29 5 495 743 443134534 443134780 1.360000e-63 254.0
25 TraesCS7D01G048700 chr6D 84.921 252 27 6 497 745 470955895 470955652 8.160000e-61 244.0


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 TraesCS7D01G048700 chr7D 25130218 25133165 2947 False 5445.000000 5445 100.000 1 2948 1 chr7D.!!$F2 2947
1 TraesCS7D01G048700 chr7D 25057091 25057974 883 False 385.000000 398 87.154 1 1102 2 chr7D.!!$F3 1101
2 TraesCS7D01G048700 chr4A 708460616 708466932 6316 True 1319.733333 3315 88.338 1 2948 3 chr4A.!!$R1 2947
3 TraesCS7D01G048700 chr4A 708540552 708542118 1566 True 238.000000 364 85.485 1 1102 3 chr4A.!!$R2 1101
4 TraesCS7D01G048700 chr7A 25956902 25962238 5336 False 726.500000 1855 94.582 1 2551 5 chr7A.!!$F2 2550
5 TraesCS7D01G048700 chr7A 25941741 25942598 857 False 337.000000 385 88.483 1 1102 2 chr7A.!!$F1 1101

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
590 1431 0.032416 AGAAGGGAAGCGGGCTACTA 60.032 55.0 0.0 0.0 0.0 1.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2557 3711 2.57229 GGGCACATATGTAAGGACACC 58.428 52.381 8.32 1.99 38.76 4.16 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
342 1121 8.633075 ATTTGCCGACATACAAAGATTATTTG 57.367 30.769 2.31 2.31 39.01 2.32
344 1123 4.976116 GCCGACATACAAAGATTATTTGCC 59.024 41.667 3.74 0.00 32.93 4.52
345 1124 5.204833 CCGACATACAAAGATTATTTGCCG 58.795 41.667 3.74 1.40 32.93 5.69
347 1126 5.901884 CGACATACAAAGATTATTTGCCGAC 59.098 40.000 3.74 0.00 32.93 4.79
348 1127 6.456315 CGACATACAAAGATTATTTGCCGACA 60.456 38.462 3.74 0.00 32.93 4.35
349 1128 7.333528 ACATACAAAGATTATTTGCCGACAT 57.666 32.000 3.74 0.00 32.93 3.06
350 1129 8.445275 ACATACAAAGATTATTTGCCGACATA 57.555 30.769 3.74 0.00 32.93 2.29
351 1130 8.342634 ACATACAAAGATTATTTGCCGACATAC 58.657 33.333 3.74 0.00 32.93 2.39
352 1131 6.751514 ACAAAGATTATTTGCCGACATACA 57.248 33.333 3.74 0.00 32.93 2.29
353 1132 7.151999 ACAAAGATTATTTGCCGACATACAA 57.848 32.000 3.74 0.00 32.93 2.41
357 1136 7.807977 AGATTATTTGCCGACATACAAAGAT 57.192 32.000 0.00 0.00 39.01 2.40
359 1138 9.337396 AGATTATTTGCCGACATACAAAGATTA 57.663 29.630 0.00 0.00 39.01 1.75
366 1203 5.449862 GCCGACATACAAAGATTATTTGCCA 60.450 40.000 3.74 0.00 32.93 4.92
393 1233 4.035091 CAGAGACGAATGTGTTTGTTTGGA 59.965 41.667 0.00 0.00 32.00 3.53
434 1275 2.424302 GGTACACCACAGCACCGT 59.576 61.111 0.00 0.00 35.64 4.83
436 1277 1.366366 GTACACCACAGCACCGTCT 59.634 57.895 0.00 0.00 0.00 4.18
438 1279 1.000060 GTACACCACAGCACCGTCTTA 60.000 52.381 0.00 0.00 0.00 2.10
441 1282 0.250166 ACCACAGCACCGTCTTAACC 60.250 55.000 0.00 0.00 0.00 2.85
442 1283 1.289109 CCACAGCACCGTCTTAACCG 61.289 60.000 0.00 0.00 0.00 4.44
444 1285 0.319297 ACAGCACCGTCTTAACCGAC 60.319 55.000 0.00 0.00 0.00 4.79
445 1286 0.319211 CAGCACCGTCTTAACCGACA 60.319 55.000 0.00 0.00 33.54 4.35
446 1287 0.319297 AGCACCGTCTTAACCGACAC 60.319 55.000 0.00 0.00 33.54 3.67
447 1288 1.611592 GCACCGTCTTAACCGACACG 61.612 60.000 0.00 0.00 33.54 4.49
492 1333 0.112995 TGCTTTGAAGGGTGATGGCT 59.887 50.000 0.00 0.00 0.00 4.75
495 1336 2.800250 CTTTGAAGGGTGATGGCTCTT 58.200 47.619 0.00 0.00 0.00 2.85
496 1337 3.873801 GCTTTGAAGGGTGATGGCTCTTA 60.874 47.826 0.00 0.00 0.00 2.10
497 1338 3.634397 TTGAAGGGTGATGGCTCTTAG 57.366 47.619 0.00 0.00 0.00 2.18
498 1339 2.832838 TGAAGGGTGATGGCTCTTAGA 58.167 47.619 0.00 0.00 0.00 2.10
499 1340 2.768527 TGAAGGGTGATGGCTCTTAGAG 59.231 50.000 4.63 4.63 0.00 2.43
516 1357 8.586570 CTCTTAGAGCAAGTACAATAAGGATG 57.413 38.462 0.00 0.00 35.58 3.51
517 1358 8.306313 TCTTAGAGCAAGTACAATAAGGATGA 57.694 34.615 0.00 0.00 35.58 2.92
518 1359 8.198109 TCTTAGAGCAAGTACAATAAGGATGAC 58.802 37.037 0.00 0.00 35.58 3.06
519 1360 6.552445 AGAGCAAGTACAATAAGGATGACT 57.448 37.500 0.00 0.00 0.00 3.41
520 1361 7.661536 AGAGCAAGTACAATAAGGATGACTA 57.338 36.000 0.00 0.00 0.00 2.59
521 1362 7.721402 AGAGCAAGTACAATAAGGATGACTAG 58.279 38.462 0.00 0.00 0.00 2.57
522 1363 6.821388 AGCAAGTACAATAAGGATGACTAGG 58.179 40.000 0.00 0.00 0.00 3.02
523 1364 5.467063 GCAAGTACAATAAGGATGACTAGGC 59.533 44.000 0.00 0.00 0.00 3.93
524 1365 5.455056 AGTACAATAAGGATGACTAGGCG 57.545 43.478 0.00 0.00 0.00 5.52
525 1366 3.753294 ACAATAAGGATGACTAGGCGG 57.247 47.619 0.00 0.00 0.00 6.13
526 1367 2.368875 ACAATAAGGATGACTAGGCGGG 59.631 50.000 0.00 0.00 0.00 6.13
527 1368 0.977395 ATAAGGATGACTAGGCGGGC 59.023 55.000 0.00 0.00 0.00 6.13
528 1369 0.105658 TAAGGATGACTAGGCGGGCT 60.106 55.000 9.68 9.68 0.00 5.19
529 1370 1.690219 AAGGATGACTAGGCGGGCTG 61.690 60.000 15.11 6.88 0.00 4.85
530 1371 2.435693 GGATGACTAGGCGGGCTGT 61.436 63.158 15.11 10.11 0.00 4.40
531 1372 1.113517 GGATGACTAGGCGGGCTGTA 61.114 60.000 15.11 0.00 0.00 2.74
532 1373 0.750850 GATGACTAGGCGGGCTGTAA 59.249 55.000 15.11 4.14 0.00 2.41
533 1374 0.753262 ATGACTAGGCGGGCTGTAAG 59.247 55.000 15.11 6.30 0.00 2.34
570 1411 9.618890 TTATATTTTTGATGAGTTGGAGGAGAG 57.381 33.333 0.00 0.00 0.00 3.20
571 1412 5.567037 TTTTTGATGAGTTGGAGGAGAGA 57.433 39.130 0.00 0.00 0.00 3.10
572 1413 4.815533 TTTGATGAGTTGGAGGAGAGAG 57.184 45.455 0.00 0.00 0.00 3.20
573 1414 3.746792 TGATGAGTTGGAGGAGAGAGA 57.253 47.619 0.00 0.00 0.00 3.10
574 1415 4.053009 TGATGAGTTGGAGGAGAGAGAA 57.947 45.455 0.00 0.00 0.00 2.87
575 1416 4.022603 TGATGAGTTGGAGGAGAGAGAAG 58.977 47.826 0.00 0.00 0.00 2.85
576 1417 2.813907 TGAGTTGGAGGAGAGAGAAGG 58.186 52.381 0.00 0.00 0.00 3.46
577 1418 2.107366 GAGTTGGAGGAGAGAGAAGGG 58.893 57.143 0.00 0.00 0.00 3.95
578 1419 1.719378 AGTTGGAGGAGAGAGAAGGGA 59.281 52.381 0.00 0.00 0.00 4.20
579 1420 2.112691 AGTTGGAGGAGAGAGAAGGGAA 59.887 50.000 0.00 0.00 0.00 3.97
580 1421 2.499693 GTTGGAGGAGAGAGAAGGGAAG 59.500 54.545 0.00 0.00 0.00 3.46
581 1422 1.119684 GGAGGAGAGAGAAGGGAAGC 58.880 60.000 0.00 0.00 0.00 3.86
582 1423 0.744281 GAGGAGAGAGAAGGGAAGCG 59.256 60.000 0.00 0.00 0.00 4.68
583 1424 0.686112 AGGAGAGAGAAGGGAAGCGG 60.686 60.000 0.00 0.00 0.00 5.52
584 1425 1.681486 GGAGAGAGAAGGGAAGCGGG 61.681 65.000 0.00 0.00 0.00 6.13
585 1426 2.188207 GAGAGAAGGGAAGCGGGC 59.812 66.667 0.00 0.00 0.00 6.13
586 1427 2.284995 AGAGAAGGGAAGCGGGCT 60.285 61.111 0.00 0.00 0.00 5.19
587 1428 1.001760 AGAGAAGGGAAGCGGGCTA 59.998 57.895 0.00 0.00 0.00 3.93
588 1429 1.144276 GAGAAGGGAAGCGGGCTAC 59.856 63.158 0.00 0.00 0.00 3.58
589 1430 1.306226 AGAAGGGAAGCGGGCTACT 60.306 57.895 0.00 0.00 0.00 2.57
590 1431 0.032416 AGAAGGGAAGCGGGCTACTA 60.032 55.000 0.00 0.00 0.00 1.82
591 1432 0.828677 GAAGGGAAGCGGGCTACTAA 59.171 55.000 0.00 0.00 0.00 2.24
592 1433 1.416772 GAAGGGAAGCGGGCTACTAAT 59.583 52.381 0.00 0.00 0.00 1.73
593 1434 1.508256 AGGGAAGCGGGCTACTAATT 58.492 50.000 0.00 0.00 0.00 1.40
594 1435 2.686119 AGGGAAGCGGGCTACTAATTA 58.314 47.619 0.00 0.00 0.00 1.40
595 1436 3.043418 AGGGAAGCGGGCTACTAATTAA 58.957 45.455 0.00 0.00 0.00 1.40
596 1437 3.136763 GGGAAGCGGGCTACTAATTAAC 58.863 50.000 0.00 0.00 0.00 2.01
597 1438 3.432608 GGGAAGCGGGCTACTAATTAACA 60.433 47.826 0.00 0.00 0.00 2.41
598 1439 3.808174 GGAAGCGGGCTACTAATTAACAG 59.192 47.826 0.00 0.00 0.00 3.16
599 1440 4.439968 GAAGCGGGCTACTAATTAACAGT 58.560 43.478 0.00 0.00 0.00 3.55
600 1441 4.056092 AGCGGGCTACTAATTAACAGTC 57.944 45.455 0.00 0.00 0.00 3.51
601 1442 2.793232 GCGGGCTACTAATTAACAGTCG 59.207 50.000 0.00 0.00 0.00 4.18
602 1443 3.489738 GCGGGCTACTAATTAACAGTCGA 60.490 47.826 11.36 0.00 0.00 4.20
603 1444 4.040376 CGGGCTACTAATTAACAGTCGAC 58.960 47.826 7.70 7.70 0.00 4.20
604 1445 4.201990 CGGGCTACTAATTAACAGTCGACT 60.202 45.833 13.58 13.58 0.00 4.18
605 1446 5.008019 CGGGCTACTAATTAACAGTCGACTA 59.992 44.000 19.57 2.37 0.00 2.59
606 1447 6.205071 GGGCTACTAATTAACAGTCGACTAC 58.795 44.000 19.57 0.00 0.00 2.73
607 1448 6.183360 GGGCTACTAATTAACAGTCGACTACA 60.183 42.308 19.57 3.10 0.00 2.74
608 1449 7.253422 GGCTACTAATTAACAGTCGACTACAA 58.747 38.462 19.57 12.50 0.00 2.41
609 1450 7.219726 GGCTACTAATTAACAGTCGACTACAAC 59.780 40.741 19.57 0.00 0.00 3.32
610 1451 7.752239 GCTACTAATTAACAGTCGACTACAACA 59.248 37.037 19.57 1.79 0.00 3.33
611 1452 7.864307 ACTAATTAACAGTCGACTACAACAC 57.136 36.000 19.57 0.00 0.00 3.32
612 1453 5.817616 AATTAACAGTCGACTACAACACG 57.182 39.130 19.57 6.51 0.00 4.49
613 1454 4.550577 TTAACAGTCGACTACAACACGA 57.449 40.909 19.57 0.00 0.00 4.35
614 1455 2.682952 ACAGTCGACTACAACACGAG 57.317 50.000 19.57 4.92 36.74 4.18
615 1456 1.328439 CAGTCGACTACAACACGAGC 58.672 55.000 19.57 0.00 36.74 5.03
616 1457 1.069159 CAGTCGACTACAACACGAGCT 60.069 52.381 19.57 0.00 36.74 4.09
617 1458 1.607628 AGTCGACTACAACACGAGCTT 59.392 47.619 18.46 0.00 36.74 3.74
618 1459 1.977412 GTCGACTACAACACGAGCTTC 59.023 52.381 8.70 0.00 36.74 3.86
619 1460 1.878088 TCGACTACAACACGAGCTTCT 59.122 47.619 0.00 0.00 0.00 2.85
620 1461 3.069289 TCGACTACAACACGAGCTTCTA 58.931 45.455 0.00 0.00 0.00 2.10
621 1462 3.124806 TCGACTACAACACGAGCTTCTAG 59.875 47.826 0.00 0.00 0.00 2.43
622 1463 3.124806 CGACTACAACACGAGCTTCTAGA 59.875 47.826 0.00 0.00 0.00 2.43
623 1464 4.405196 GACTACAACACGAGCTTCTAGAC 58.595 47.826 0.00 0.00 0.00 2.59
624 1465 3.819337 ACTACAACACGAGCTTCTAGACA 59.181 43.478 0.00 0.00 0.00 3.41
625 1466 3.944055 ACAACACGAGCTTCTAGACAT 57.056 42.857 0.00 0.00 0.00 3.06
626 1467 3.579709 ACAACACGAGCTTCTAGACATG 58.420 45.455 0.00 0.00 0.00 3.21
627 1468 3.005897 ACAACACGAGCTTCTAGACATGT 59.994 43.478 0.00 0.00 0.00 3.21
628 1469 3.944055 ACACGAGCTTCTAGACATGTT 57.056 42.857 0.00 0.00 0.00 2.71
629 1470 3.579709 ACACGAGCTTCTAGACATGTTG 58.420 45.455 0.00 0.00 0.00 3.33
630 1471 3.005897 ACACGAGCTTCTAGACATGTTGT 59.994 43.478 0.00 0.00 0.00 3.32
631 1472 3.366121 CACGAGCTTCTAGACATGTTGTG 59.634 47.826 0.00 0.00 0.00 3.33
632 1473 3.255888 ACGAGCTTCTAGACATGTTGTGA 59.744 43.478 0.00 0.00 0.00 3.58
633 1474 3.856521 CGAGCTTCTAGACATGTTGTGAG 59.143 47.826 0.00 0.00 0.00 3.51
634 1475 4.379918 CGAGCTTCTAGACATGTTGTGAGA 60.380 45.833 0.00 0.00 0.00 3.27
635 1476 5.070770 AGCTTCTAGACATGTTGTGAGAG 57.929 43.478 0.00 0.00 0.00 3.20
636 1477 4.769488 AGCTTCTAGACATGTTGTGAGAGA 59.231 41.667 0.00 0.00 0.00 3.10
637 1478 5.101628 GCTTCTAGACATGTTGTGAGAGAG 58.898 45.833 0.00 3.39 0.00 3.20
638 1479 5.336372 GCTTCTAGACATGTTGTGAGAGAGT 60.336 44.000 0.00 0.00 0.00 3.24
639 1480 5.635417 TCTAGACATGTTGTGAGAGAGTG 57.365 43.478 0.00 0.00 0.00 3.51
640 1481 5.316987 TCTAGACATGTTGTGAGAGAGTGA 58.683 41.667 0.00 0.00 0.00 3.41
641 1482 4.517952 AGACATGTTGTGAGAGAGTGAG 57.482 45.455 0.00 0.00 0.00 3.51
642 1483 3.257873 AGACATGTTGTGAGAGAGTGAGG 59.742 47.826 0.00 0.00 0.00 3.86
643 1484 2.968574 ACATGTTGTGAGAGAGTGAGGT 59.031 45.455 0.00 0.00 0.00 3.85
644 1485 3.244009 ACATGTTGTGAGAGAGTGAGGTG 60.244 47.826 0.00 0.00 0.00 4.00
645 1486 1.688735 TGTTGTGAGAGAGTGAGGTGG 59.311 52.381 0.00 0.00 0.00 4.61
646 1487 1.964223 GTTGTGAGAGAGTGAGGTGGA 59.036 52.381 0.00 0.00 0.00 4.02
647 1488 1.621992 TGTGAGAGAGTGAGGTGGAC 58.378 55.000 0.00 0.00 0.00 4.02
648 1489 0.892063 GTGAGAGAGTGAGGTGGACC 59.108 60.000 0.00 0.00 0.00 4.46
649 1490 0.482887 TGAGAGAGTGAGGTGGACCA 59.517 55.000 0.00 0.00 38.89 4.02
650 1491 1.077828 TGAGAGAGTGAGGTGGACCAT 59.922 52.381 0.00 0.00 38.89 3.55
651 1492 1.480137 GAGAGAGTGAGGTGGACCATG 59.520 57.143 0.00 0.00 38.89 3.66
652 1493 1.203237 AGAGAGTGAGGTGGACCATGT 60.203 52.381 0.00 0.00 38.89 3.21
653 1494 2.043115 AGAGAGTGAGGTGGACCATGTA 59.957 50.000 0.00 0.00 38.89 2.29
654 1495 3.034635 GAGAGTGAGGTGGACCATGTAT 58.965 50.000 0.00 0.00 38.89 2.29
655 1496 2.768527 AGAGTGAGGTGGACCATGTATG 59.231 50.000 0.00 0.00 38.89 2.39
656 1497 2.766263 GAGTGAGGTGGACCATGTATGA 59.234 50.000 0.00 0.00 38.89 2.15
657 1498 3.181329 AGTGAGGTGGACCATGTATGAA 58.819 45.455 0.00 0.00 38.89 2.57
658 1499 3.587061 AGTGAGGTGGACCATGTATGAAA 59.413 43.478 0.00 0.00 38.89 2.69
659 1500 4.042809 AGTGAGGTGGACCATGTATGAAAA 59.957 41.667 0.00 0.00 38.89 2.29
660 1501 4.764823 GTGAGGTGGACCATGTATGAAAAA 59.235 41.667 0.00 0.00 38.89 1.94
699 1540 9.692749 TTATATGCTACTATTGTACTTGTCAGC 57.307 33.333 0.00 0.00 0.00 4.26
700 1541 5.661056 TGCTACTATTGTACTTGTCAGCT 57.339 39.130 0.00 0.00 0.00 4.24
701 1542 5.410924 TGCTACTATTGTACTTGTCAGCTG 58.589 41.667 7.63 7.63 0.00 4.24
702 1543 5.047306 TGCTACTATTGTACTTGTCAGCTGT 60.047 40.000 14.67 0.00 0.00 4.40
703 1544 6.152154 TGCTACTATTGTACTTGTCAGCTGTA 59.848 38.462 14.67 1.04 0.00 2.74
704 1545 7.033791 GCTACTATTGTACTTGTCAGCTGTAA 58.966 38.462 14.67 9.58 0.00 2.41
705 1546 7.221067 GCTACTATTGTACTTGTCAGCTGTAAG 59.779 40.741 22.87 22.87 0.00 2.34
722 1563 6.964741 CTGTAAGCTTGGCTATAGATGATG 57.035 41.667 9.86 0.00 38.25 3.07
723 1564 6.425210 TGTAAGCTTGGCTATAGATGATGT 57.575 37.500 9.86 0.00 38.25 3.06
724 1565 6.226052 TGTAAGCTTGGCTATAGATGATGTG 58.774 40.000 9.86 0.00 38.25 3.21
725 1566 4.283363 AGCTTGGCTATAGATGATGTGG 57.717 45.455 3.21 0.00 36.99 4.17
726 1567 2.746362 GCTTGGCTATAGATGATGTGGC 59.254 50.000 3.21 0.00 0.00 5.01
727 1568 3.808265 GCTTGGCTATAGATGATGTGGCA 60.808 47.826 3.21 0.00 0.00 4.92
728 1569 4.392047 CTTGGCTATAGATGATGTGGCAA 58.608 43.478 3.21 0.00 36.85 4.52
729 1570 4.011966 TGGCTATAGATGATGTGGCAAG 57.988 45.455 3.21 0.00 0.00 4.01
730 1571 3.647590 TGGCTATAGATGATGTGGCAAGA 59.352 43.478 3.21 0.00 0.00 3.02
731 1572 4.287845 TGGCTATAGATGATGTGGCAAGAT 59.712 41.667 3.21 0.00 0.00 2.40
732 1573 4.874966 GGCTATAGATGATGTGGCAAGATC 59.125 45.833 3.21 0.00 0.00 2.75
733 1574 5.485620 GCTATAGATGATGTGGCAAGATCA 58.514 41.667 2.93 2.93 40.12 2.92
734 1575 6.114089 GCTATAGATGATGTGGCAAGATCAT 58.886 40.000 13.39 13.39 46.53 2.45
735 1576 7.270779 GCTATAGATGATGTGGCAAGATCATA 58.729 38.462 13.48 0.10 44.54 2.15
736 1577 7.932491 GCTATAGATGATGTGGCAAGATCATAT 59.068 37.037 13.48 12.97 44.54 1.78
739 1580 6.114089 AGATGATGTGGCAAGATCATATAGC 58.886 40.000 13.48 2.07 44.54 2.97
740 1581 4.582869 TGATGTGGCAAGATCATATAGCC 58.417 43.478 0.00 0.00 45.41 3.93
744 1585 3.063510 GGCAAGATCATATAGCCAGCA 57.936 47.619 0.00 0.00 44.59 4.41
745 1586 3.618351 GGCAAGATCATATAGCCAGCAT 58.382 45.455 0.00 0.00 44.59 3.79
746 1587 4.015084 GGCAAGATCATATAGCCAGCATT 58.985 43.478 0.00 0.00 44.59 3.56
747 1588 5.188434 GGCAAGATCATATAGCCAGCATTA 58.812 41.667 0.00 0.00 44.59 1.90
748 1589 5.649395 GGCAAGATCATATAGCCAGCATTAA 59.351 40.000 0.00 0.00 44.59 1.40
749 1590 6.404074 GGCAAGATCATATAGCCAGCATTAAC 60.404 42.308 0.00 0.00 44.59 2.01
750 1591 6.404074 GCAAGATCATATAGCCAGCATTAACC 60.404 42.308 0.00 0.00 0.00 2.85
751 1592 6.378661 AGATCATATAGCCAGCATTAACCA 57.621 37.500 0.00 0.00 0.00 3.67
752 1593 6.966751 AGATCATATAGCCAGCATTAACCAT 58.033 36.000 0.00 0.00 0.00 3.55
753 1594 8.094284 AGATCATATAGCCAGCATTAACCATA 57.906 34.615 0.00 0.00 0.00 2.74
754 1595 7.989741 AGATCATATAGCCAGCATTAACCATAC 59.010 37.037 0.00 0.00 0.00 2.39
755 1596 7.257790 TCATATAGCCAGCATTAACCATACT 57.742 36.000 0.00 0.00 0.00 2.12
756 1597 7.331026 TCATATAGCCAGCATTAACCATACTC 58.669 38.462 0.00 0.00 0.00 2.59
757 1598 3.931907 AGCCAGCATTAACCATACTCA 57.068 42.857 0.00 0.00 0.00 3.41
760 1601 5.940617 AGCCAGCATTAACCATACTCATAA 58.059 37.500 0.00 0.00 0.00 1.90
816 1657 4.255510 AGGACCATGTGGCTAAATCATT 57.744 40.909 0.00 0.00 39.32 2.57
826 1667 7.110043 TGTGGCTAAATCATTCATAAATGCA 57.890 32.000 0.00 0.00 41.76 3.96
941 1915 5.276254 GCTACTATTTAAGCAAAGACCGACG 60.276 44.000 0.00 0.00 38.63 5.12
945 1920 0.034337 TAAGCAAAGACCGACGCCTT 59.966 50.000 0.00 0.00 0.00 4.35
946 1921 1.228657 AAGCAAAGACCGACGCCTTC 61.229 55.000 0.00 0.00 0.00 3.46
988 1965 6.018098 CCTCAGCATATACTTCTTTTGAGCTG 60.018 42.308 0.00 0.00 45.96 4.24
1105 2083 4.261801 TCCATGTAAGCAAGCCTCTTAAC 58.738 43.478 0.00 0.00 0.00 2.01
1117 2095 3.755378 AGCCTCTTAACTGCATGACTTTG 59.245 43.478 0.00 0.00 0.00 2.77
1173 2151 3.363575 CGAACCATGTTTCGTTGTGTAGG 60.364 47.826 16.36 0.00 42.78 3.18
1240 2221 9.627123 TTATTAACCTTGCTAATGTGAAGCTAT 57.373 29.630 0.00 0.00 40.73 2.97
1244 2225 5.928839 ACCTTGCTAATGTGAAGCTATATCG 59.071 40.000 0.00 0.00 40.73 2.92
1279 2260 8.076781 TCGTCTCTATGTATGCTTTGAGTAATC 58.923 37.037 7.66 0.00 0.00 1.75
1287 2268 9.630098 ATGTATGCTTTGAGTAATCAAAAAGTG 57.370 29.630 18.03 8.62 38.87 3.16
1336 2317 2.196742 AGCATCCAGGAGGGTATCAA 57.803 50.000 3.37 0.00 38.11 2.57
1372 2353 1.674764 CCGTGAGCTGATCTGCCTCT 61.675 60.000 19.74 2.80 0.00 3.69
1443 2592 2.156343 GCCCTTTCTAGGCGTATCAG 57.844 55.000 0.00 0.00 41.41 2.90
1464 2613 4.580167 CAGGACCAAAATTCAGTTGAGACA 59.420 41.667 0.00 0.00 0.00 3.41
1644 2794 8.244113 ACTTCAGTTCAAAAGTAAGTTCCAAAG 58.756 33.333 0.00 0.00 34.05 2.77
2013 3165 8.092687 TGTAAAGTATGAAAACTCACTAGGGTC 58.907 37.037 0.00 0.00 0.00 4.46
2093 3245 7.599998 GTAGAAACGTTTACTTCTATGGGACAA 59.400 37.037 14.65 0.00 36.72 3.18
2256 3408 6.427853 CGAGTCAATGGATGCTATTGGAATAA 59.572 38.462 0.00 0.00 36.44 1.40
2355 3507 6.702716 TTTGGGAAGTTCTACACGAATTTT 57.297 33.333 2.25 0.00 32.46 1.82
2419 3572 4.580167 CGGTTTCCATATCACATCCACATT 59.420 41.667 0.00 0.00 0.00 2.71
2450 3603 7.883311 ACTGGCATAAACATAGTTAGTTTGACT 59.117 33.333 0.00 0.00 39.36 3.41
2557 3711 1.228533 GGTTGCCTGCACCATTTTTG 58.771 50.000 0.00 0.00 0.00 2.44
2575 3729 5.637006 TTTTGGTGTCCTTACATATGTGC 57.363 39.130 18.81 4.31 38.08 4.57
2704 3858 1.697284 TTGGTTGCAAGCATGTGGTA 58.303 45.000 30.05 12.91 36.16 3.25
2706 3860 0.243636 GGTTGCAAGCATGTGGTACC 59.756 55.000 23.18 4.43 0.00 3.34
2709 3863 0.608856 TGCAAGCATGTGGTACCCAG 60.609 55.000 10.07 0.00 32.34 4.45
2801 3955 2.992593 ACCAACACACACACATACACA 58.007 42.857 0.00 0.00 0.00 3.72
2821 3975 7.934855 ACACAGAGAGCATAGAAAATTGAAT 57.065 32.000 0.00 0.00 0.00 2.57
2830 3984 8.792831 AGCATAGAAAATTGAATAAGCATTCG 57.207 30.769 0.00 0.00 43.06 3.34
2858 4012 6.377327 ACATTATAGGCACTGCATTAACAC 57.623 37.500 2.82 0.00 41.52 3.32
2859 4013 5.885352 ACATTATAGGCACTGCATTAACACA 59.115 36.000 2.82 0.00 41.52 3.72
2918 4072 6.744550 GTAGTCATAATAACTACACACGCC 57.255 41.667 8.21 0.00 45.46 5.68
2920 4074 4.096833 AGTCATAATAACTACACACGCCGA 59.903 41.667 0.00 0.00 0.00 5.54
2935 4089 1.123756 CGCCGACAGACTAACGAAAAC 59.876 52.381 0.00 0.00 0.00 2.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
181 927 8.716909 CGTAAAAATGTTCTTGGCCATAAAATT 58.283 29.630 6.09 8.61 0.00 1.82
186 932 5.124776 CCTCGTAAAAATGTTCTTGGCCATA 59.875 40.000 6.09 0.00 0.00 2.74
187 933 4.082245 CCTCGTAAAAATGTTCTTGGCCAT 60.082 41.667 6.09 0.00 0.00 4.40
340 1119 6.033341 GCAAATAATCTTTGTATGTCGGCAA 58.967 36.000 0.00 0.00 0.00 4.52
341 1120 5.449862 GGCAAATAATCTTTGTATGTCGGCA 60.450 40.000 0.00 0.00 0.00 5.69
342 1121 4.976116 GGCAAATAATCTTTGTATGTCGGC 59.024 41.667 0.29 0.00 0.00 5.54
344 1123 7.250569 ACTTGGCAAATAATCTTTGTATGTCG 58.749 34.615 0.00 0.00 0.00 4.35
345 1124 8.243426 TGACTTGGCAAATAATCTTTGTATGTC 58.757 33.333 0.00 0.62 0.00 3.06
347 1126 8.461222 TCTGACTTGGCAAATAATCTTTGTATG 58.539 33.333 0.00 0.00 0.00 2.39
348 1127 8.579850 TCTGACTTGGCAAATAATCTTTGTAT 57.420 30.769 0.00 0.00 0.00 2.29
349 1128 7.882791 TCTCTGACTTGGCAAATAATCTTTGTA 59.117 33.333 0.00 0.00 0.00 2.41
350 1129 6.716628 TCTCTGACTTGGCAAATAATCTTTGT 59.283 34.615 0.00 0.00 0.00 2.83
351 1130 7.025963 GTCTCTGACTTGGCAAATAATCTTTG 58.974 38.462 0.00 0.00 0.00 2.77
352 1131 6.128172 CGTCTCTGACTTGGCAAATAATCTTT 60.128 38.462 0.00 0.00 0.00 2.52
353 1132 5.352569 CGTCTCTGACTTGGCAAATAATCTT 59.647 40.000 0.00 0.00 0.00 2.40
357 1136 4.265904 TCGTCTCTGACTTGGCAAATAA 57.734 40.909 0.00 0.00 0.00 1.40
359 1138 2.839486 TCGTCTCTGACTTGGCAAAT 57.161 45.000 0.00 0.00 0.00 2.32
360 1139 2.613026 TTCGTCTCTGACTTGGCAAA 57.387 45.000 0.00 0.00 0.00 3.68
366 1203 4.442706 ACAAACACATTCGTCTCTGACTT 58.557 39.130 0.00 0.00 0.00 3.01
393 1233 0.955178 CTCGTGATGACTCCGGCTAT 59.045 55.000 0.00 0.00 0.00 2.97
441 1282 3.478394 CATCACCGCACCGTGTCG 61.478 66.667 0.00 4.55 35.18 4.35
442 1283 3.118454 CCATCACCGCACCGTGTC 61.118 66.667 0.00 0.00 35.18 3.67
444 1285 2.358125 TTCCATCACCGCACCGTG 60.358 61.111 0.00 0.00 34.93 4.94
445 1286 2.358247 GTTCCATCACCGCACCGT 60.358 61.111 0.00 0.00 0.00 4.83
446 1287 3.124921 GGTTCCATCACCGCACCG 61.125 66.667 0.00 0.00 0.00 4.94
447 1288 0.107410 TATGGTTCCATCACCGCACC 60.107 55.000 7.67 0.00 40.09 5.01
492 1333 8.198109 GTCATCCTTATTGTACTTGCTCTAAGA 58.802 37.037 0.00 0.00 39.76 2.10
495 1336 7.661536 AGTCATCCTTATTGTACTTGCTCTA 57.338 36.000 0.00 0.00 0.00 2.43
496 1337 6.552445 AGTCATCCTTATTGTACTTGCTCT 57.448 37.500 0.00 0.00 0.00 4.09
497 1338 6.926272 CCTAGTCATCCTTATTGTACTTGCTC 59.074 42.308 0.00 0.00 0.00 4.26
498 1339 6.686632 GCCTAGTCATCCTTATTGTACTTGCT 60.687 42.308 0.00 0.00 0.00 3.91
499 1340 5.467063 GCCTAGTCATCCTTATTGTACTTGC 59.533 44.000 0.00 0.00 0.00 4.01
500 1341 5.692204 CGCCTAGTCATCCTTATTGTACTTG 59.308 44.000 0.00 0.00 0.00 3.16
501 1342 5.221461 CCGCCTAGTCATCCTTATTGTACTT 60.221 44.000 0.00 0.00 0.00 2.24
502 1343 4.281182 CCGCCTAGTCATCCTTATTGTACT 59.719 45.833 0.00 0.00 0.00 2.73
503 1344 4.557205 CCGCCTAGTCATCCTTATTGTAC 58.443 47.826 0.00 0.00 0.00 2.90
504 1345 3.576982 CCCGCCTAGTCATCCTTATTGTA 59.423 47.826 0.00 0.00 0.00 2.41
505 1346 2.368875 CCCGCCTAGTCATCCTTATTGT 59.631 50.000 0.00 0.00 0.00 2.71
506 1347 2.872038 GCCCGCCTAGTCATCCTTATTG 60.872 54.545 0.00 0.00 0.00 1.90
507 1348 1.348036 GCCCGCCTAGTCATCCTTATT 59.652 52.381 0.00 0.00 0.00 1.40
508 1349 0.977395 GCCCGCCTAGTCATCCTTAT 59.023 55.000 0.00 0.00 0.00 1.73
509 1350 0.105658 AGCCCGCCTAGTCATCCTTA 60.106 55.000 0.00 0.00 0.00 2.69
510 1351 1.383248 AGCCCGCCTAGTCATCCTT 60.383 57.895 0.00 0.00 0.00 3.36
511 1352 2.136878 CAGCCCGCCTAGTCATCCT 61.137 63.158 0.00 0.00 0.00 3.24
512 1353 1.113517 TACAGCCCGCCTAGTCATCC 61.114 60.000 0.00 0.00 0.00 3.51
513 1354 0.750850 TTACAGCCCGCCTAGTCATC 59.249 55.000 0.00 0.00 0.00 2.92
514 1355 0.753262 CTTACAGCCCGCCTAGTCAT 59.247 55.000 0.00 0.00 0.00 3.06
515 1356 1.956629 GCTTACAGCCCGCCTAGTCA 61.957 60.000 0.00 0.00 34.48 3.41
516 1357 1.227292 GCTTACAGCCCGCCTAGTC 60.227 63.158 0.00 0.00 34.48 2.59
517 1358 2.901042 GCTTACAGCCCGCCTAGT 59.099 61.111 0.00 0.00 34.48 2.57
544 1385 9.618890 CTCTCCTCCAACTCATCAAAAATATAA 57.381 33.333 0.00 0.00 0.00 0.98
545 1386 8.992349 TCTCTCCTCCAACTCATCAAAAATATA 58.008 33.333 0.00 0.00 0.00 0.86
546 1387 7.865820 TCTCTCCTCCAACTCATCAAAAATAT 58.134 34.615 0.00 0.00 0.00 1.28
547 1388 7.180946 TCTCTCTCCTCCAACTCATCAAAAATA 59.819 37.037 0.00 0.00 0.00 1.40
548 1389 6.013032 TCTCTCTCCTCCAACTCATCAAAAAT 60.013 38.462 0.00 0.00 0.00 1.82
549 1390 5.307976 TCTCTCTCCTCCAACTCATCAAAAA 59.692 40.000 0.00 0.00 0.00 1.94
550 1391 4.840680 TCTCTCTCCTCCAACTCATCAAAA 59.159 41.667 0.00 0.00 0.00 2.44
551 1392 4.420206 TCTCTCTCCTCCAACTCATCAAA 58.580 43.478 0.00 0.00 0.00 2.69
552 1393 4.053009 TCTCTCTCCTCCAACTCATCAA 57.947 45.455 0.00 0.00 0.00 2.57
553 1394 3.746792 TCTCTCTCCTCCAACTCATCA 57.253 47.619 0.00 0.00 0.00 3.07
554 1395 3.384467 CCTTCTCTCTCCTCCAACTCATC 59.616 52.174 0.00 0.00 0.00 2.92
555 1396 3.373830 CCTTCTCTCTCCTCCAACTCAT 58.626 50.000 0.00 0.00 0.00 2.90
556 1397 2.558575 CCCTTCTCTCTCCTCCAACTCA 60.559 54.545 0.00 0.00 0.00 3.41
557 1398 2.107366 CCCTTCTCTCTCCTCCAACTC 58.893 57.143 0.00 0.00 0.00 3.01
558 1399 1.719378 TCCCTTCTCTCTCCTCCAACT 59.281 52.381 0.00 0.00 0.00 3.16
559 1400 2.239681 TCCCTTCTCTCTCCTCCAAC 57.760 55.000 0.00 0.00 0.00 3.77
560 1401 2.826488 CTTCCCTTCTCTCTCCTCCAA 58.174 52.381 0.00 0.00 0.00 3.53
561 1402 1.621072 GCTTCCCTTCTCTCTCCTCCA 60.621 57.143 0.00 0.00 0.00 3.86
562 1403 1.119684 GCTTCCCTTCTCTCTCCTCC 58.880 60.000 0.00 0.00 0.00 4.30
563 1404 0.744281 CGCTTCCCTTCTCTCTCCTC 59.256 60.000 0.00 0.00 0.00 3.71
564 1405 0.686112 CCGCTTCCCTTCTCTCTCCT 60.686 60.000 0.00 0.00 0.00 3.69
565 1406 1.681486 CCCGCTTCCCTTCTCTCTCC 61.681 65.000 0.00 0.00 0.00 3.71
566 1407 1.819905 CCCGCTTCCCTTCTCTCTC 59.180 63.158 0.00 0.00 0.00 3.20
567 1408 2.363172 GCCCGCTTCCCTTCTCTCT 61.363 63.158 0.00 0.00 0.00 3.10
568 1409 1.043673 TAGCCCGCTTCCCTTCTCTC 61.044 60.000 0.00 0.00 0.00 3.20
569 1410 1.001760 TAGCCCGCTTCCCTTCTCT 59.998 57.895 0.00 0.00 0.00 3.10
570 1411 1.144276 GTAGCCCGCTTCCCTTCTC 59.856 63.158 0.00 0.00 0.00 2.87
571 1412 0.032416 TAGTAGCCCGCTTCCCTTCT 60.032 55.000 0.00 0.00 0.00 2.85
572 1413 0.828677 TTAGTAGCCCGCTTCCCTTC 59.171 55.000 0.00 0.00 0.00 3.46
573 1414 1.508256 ATTAGTAGCCCGCTTCCCTT 58.492 50.000 0.00 0.00 0.00 3.95
574 1415 1.508256 AATTAGTAGCCCGCTTCCCT 58.492 50.000 0.00 0.00 0.00 4.20
575 1416 3.136763 GTTAATTAGTAGCCCGCTTCCC 58.863 50.000 0.00 0.00 0.00 3.97
576 1417 3.800531 TGTTAATTAGTAGCCCGCTTCC 58.199 45.455 0.00 0.00 0.00 3.46
577 1418 4.439968 ACTGTTAATTAGTAGCCCGCTTC 58.560 43.478 0.00 0.00 0.00 3.86
578 1419 4.439968 GACTGTTAATTAGTAGCCCGCTT 58.560 43.478 0.00 0.00 0.00 4.68
579 1420 3.490419 CGACTGTTAATTAGTAGCCCGCT 60.490 47.826 0.00 0.00 0.00 5.52
580 1421 2.793232 CGACTGTTAATTAGTAGCCCGC 59.207 50.000 0.00 0.00 0.00 6.13
581 1422 4.040376 GTCGACTGTTAATTAGTAGCCCG 58.960 47.826 8.70 0.00 0.00 6.13
582 1423 5.259832 AGTCGACTGTTAATTAGTAGCCC 57.740 43.478 19.30 0.00 0.00 5.19
583 1424 6.789262 TGTAGTCGACTGTTAATTAGTAGCC 58.211 40.000 28.12 0.00 0.00 3.93
584 1425 7.752239 TGTTGTAGTCGACTGTTAATTAGTAGC 59.248 37.037 28.12 6.99 0.00 3.58
585 1426 9.059485 GTGTTGTAGTCGACTGTTAATTAGTAG 57.941 37.037 28.12 0.00 0.00 2.57
586 1427 7.746034 CGTGTTGTAGTCGACTGTTAATTAGTA 59.254 37.037 28.12 0.23 0.00 1.82
587 1428 6.580041 CGTGTTGTAGTCGACTGTTAATTAGT 59.420 38.462 28.12 0.00 0.00 2.24
588 1429 6.798476 TCGTGTTGTAGTCGACTGTTAATTAG 59.202 38.462 28.12 12.57 0.00 1.73
589 1430 6.667370 TCGTGTTGTAGTCGACTGTTAATTA 58.333 36.000 28.12 2.72 0.00 1.40
590 1431 5.522456 TCGTGTTGTAGTCGACTGTTAATT 58.478 37.500 28.12 2.06 0.00 1.40
591 1432 5.112220 TCGTGTTGTAGTCGACTGTTAAT 57.888 39.130 28.12 2.87 0.00 1.40
592 1433 4.530388 CTCGTGTTGTAGTCGACTGTTAA 58.470 43.478 28.12 16.11 0.00 2.01
593 1434 3.607775 GCTCGTGTTGTAGTCGACTGTTA 60.608 47.826 28.12 10.97 0.00 2.41
594 1435 2.857489 GCTCGTGTTGTAGTCGACTGTT 60.857 50.000 28.12 4.51 0.00 3.16
595 1436 1.334779 GCTCGTGTTGTAGTCGACTGT 60.335 52.381 28.12 5.33 0.00 3.55
596 1437 1.069159 AGCTCGTGTTGTAGTCGACTG 60.069 52.381 28.12 9.38 0.00 3.51
597 1438 1.236628 AGCTCGTGTTGTAGTCGACT 58.763 50.000 23.66 23.66 0.00 4.18
598 1439 1.977412 GAAGCTCGTGTTGTAGTCGAC 59.023 52.381 7.70 7.70 0.00 4.20
599 1440 1.878088 AGAAGCTCGTGTTGTAGTCGA 59.122 47.619 0.00 0.00 0.00 4.20
600 1441 2.333389 AGAAGCTCGTGTTGTAGTCG 57.667 50.000 0.00 0.00 0.00 4.18
601 1442 4.083431 TGTCTAGAAGCTCGTGTTGTAGTC 60.083 45.833 0.00 0.00 0.00 2.59
602 1443 3.819337 TGTCTAGAAGCTCGTGTTGTAGT 59.181 43.478 0.00 0.00 0.00 2.73
603 1444 4.421033 TGTCTAGAAGCTCGTGTTGTAG 57.579 45.455 0.00 0.00 0.00 2.74
604 1445 4.217767 ACATGTCTAGAAGCTCGTGTTGTA 59.782 41.667 0.00 0.00 0.00 2.41
605 1446 3.005897 ACATGTCTAGAAGCTCGTGTTGT 59.994 43.478 0.00 0.00 0.00 3.32
606 1447 3.579709 ACATGTCTAGAAGCTCGTGTTG 58.420 45.455 0.00 0.00 0.00 3.33
607 1448 3.944055 ACATGTCTAGAAGCTCGTGTT 57.056 42.857 0.00 0.00 0.00 3.32
608 1449 3.005897 ACAACATGTCTAGAAGCTCGTGT 59.994 43.478 0.00 0.00 0.00 4.49
609 1450 3.366121 CACAACATGTCTAGAAGCTCGTG 59.634 47.826 0.00 0.00 0.00 4.35
610 1451 3.255888 TCACAACATGTCTAGAAGCTCGT 59.744 43.478 0.00 0.00 0.00 4.18
611 1452 3.838120 TCACAACATGTCTAGAAGCTCG 58.162 45.455 0.00 0.00 0.00 5.03
612 1453 5.065704 TCTCACAACATGTCTAGAAGCTC 57.934 43.478 0.00 0.00 0.00 4.09
613 1454 4.769488 TCTCTCACAACATGTCTAGAAGCT 59.231 41.667 0.00 0.00 0.00 3.74
614 1455 5.065704 TCTCTCACAACATGTCTAGAAGC 57.934 43.478 0.00 0.00 0.00 3.86
615 1456 6.072230 TCACTCTCTCACAACATGTCTAGAAG 60.072 42.308 0.00 3.88 0.00 2.85
616 1457 5.770162 TCACTCTCTCACAACATGTCTAGAA 59.230 40.000 0.00 0.00 0.00 2.10
617 1458 5.316987 TCACTCTCTCACAACATGTCTAGA 58.683 41.667 0.00 0.00 0.00 2.43
618 1459 5.392919 CCTCACTCTCTCACAACATGTCTAG 60.393 48.000 0.00 0.00 0.00 2.43
619 1460 4.460731 CCTCACTCTCTCACAACATGTCTA 59.539 45.833 0.00 0.00 0.00 2.59
620 1461 3.257873 CCTCACTCTCTCACAACATGTCT 59.742 47.826 0.00 0.00 0.00 3.41
621 1462 3.006323 ACCTCACTCTCTCACAACATGTC 59.994 47.826 0.00 0.00 0.00 3.06
622 1463 2.968574 ACCTCACTCTCTCACAACATGT 59.031 45.455 0.00 0.00 0.00 3.21
623 1464 3.324117 CACCTCACTCTCTCACAACATG 58.676 50.000 0.00 0.00 0.00 3.21
624 1465 2.301296 CCACCTCACTCTCTCACAACAT 59.699 50.000 0.00 0.00 0.00 2.71
625 1466 1.688735 CCACCTCACTCTCTCACAACA 59.311 52.381 0.00 0.00 0.00 3.33
626 1467 1.964223 TCCACCTCACTCTCTCACAAC 59.036 52.381 0.00 0.00 0.00 3.32
627 1468 1.964223 GTCCACCTCACTCTCTCACAA 59.036 52.381 0.00 0.00 0.00 3.33
628 1469 1.621992 GTCCACCTCACTCTCTCACA 58.378 55.000 0.00 0.00 0.00 3.58
629 1470 0.892063 GGTCCACCTCACTCTCTCAC 59.108 60.000 0.00 0.00 0.00 3.51
630 1471 0.482887 TGGTCCACCTCACTCTCTCA 59.517 55.000 0.00 0.00 36.82 3.27
631 1472 1.480137 CATGGTCCACCTCACTCTCTC 59.520 57.143 0.00 0.00 36.82 3.20
632 1473 1.203237 ACATGGTCCACCTCACTCTCT 60.203 52.381 0.00 0.00 36.82 3.10
633 1474 1.270907 ACATGGTCCACCTCACTCTC 58.729 55.000 0.00 0.00 36.82 3.20
634 1475 2.623418 TACATGGTCCACCTCACTCT 57.377 50.000 0.00 0.00 36.82 3.24
635 1476 2.766263 TCATACATGGTCCACCTCACTC 59.234 50.000 0.00 0.00 36.82 3.51
636 1477 2.832838 TCATACATGGTCCACCTCACT 58.167 47.619 0.00 0.00 36.82 3.41
637 1478 3.627395 TTCATACATGGTCCACCTCAC 57.373 47.619 0.00 0.00 36.82 3.51
638 1479 4.649267 TTTTCATACATGGTCCACCTCA 57.351 40.909 0.00 0.00 36.82 3.86
673 1514 9.692749 GCTGACAAGTACAATAGTAGCATATAA 57.307 33.333 0.00 0.00 0.00 0.98
674 1515 9.078990 AGCTGACAAGTACAATAGTAGCATATA 57.921 33.333 0.00 0.00 0.00 0.86
675 1516 7.869937 CAGCTGACAAGTACAATAGTAGCATAT 59.130 37.037 8.42 0.00 0.00 1.78
676 1517 7.147897 ACAGCTGACAAGTACAATAGTAGCATA 60.148 37.037 23.35 0.00 0.00 3.14
677 1518 6.045318 CAGCTGACAAGTACAATAGTAGCAT 58.955 40.000 8.42 0.00 0.00 3.79
678 1519 5.047306 ACAGCTGACAAGTACAATAGTAGCA 60.047 40.000 23.35 0.00 0.00 3.49
679 1520 5.411781 ACAGCTGACAAGTACAATAGTAGC 58.588 41.667 23.35 0.00 0.00 3.58
680 1521 7.221067 GCTTACAGCTGACAAGTACAATAGTAG 59.779 40.741 23.35 0.00 38.45 2.57
681 1522 7.033791 GCTTACAGCTGACAAGTACAATAGTA 58.966 38.462 23.35 0.00 38.45 1.82
682 1523 5.869888 GCTTACAGCTGACAAGTACAATAGT 59.130 40.000 23.35 0.00 38.45 2.12
683 1524 6.337853 GCTTACAGCTGACAAGTACAATAG 57.662 41.667 23.35 0.69 38.45 1.73
698 1539 4.887748 TCATCTATAGCCAAGCTTACAGC 58.112 43.478 0.00 2.58 40.44 4.40
699 1540 6.368243 CACATCATCTATAGCCAAGCTTACAG 59.632 42.308 0.00 0.00 40.44 2.74
700 1541 6.226052 CACATCATCTATAGCCAAGCTTACA 58.774 40.000 0.00 0.00 40.44 2.41
701 1542 5.641209 CCACATCATCTATAGCCAAGCTTAC 59.359 44.000 0.00 0.00 40.44 2.34
702 1543 5.798132 CCACATCATCTATAGCCAAGCTTA 58.202 41.667 0.00 0.00 40.44 3.09
703 1544 4.649692 CCACATCATCTATAGCCAAGCTT 58.350 43.478 0.00 0.00 40.44 3.74
704 1545 3.558746 GCCACATCATCTATAGCCAAGCT 60.559 47.826 0.00 0.00 43.41 3.74
705 1546 2.746362 GCCACATCATCTATAGCCAAGC 59.254 50.000 0.00 0.00 0.00 4.01
706 1547 4.011966 TGCCACATCATCTATAGCCAAG 57.988 45.455 0.00 0.00 0.00 3.61
707 1548 4.102996 TCTTGCCACATCATCTATAGCCAA 59.897 41.667 0.00 0.00 0.00 4.52
708 1549 3.647590 TCTTGCCACATCATCTATAGCCA 59.352 43.478 0.00 0.00 0.00 4.75
709 1550 4.277515 TCTTGCCACATCATCTATAGCC 57.722 45.455 0.00 0.00 0.00 3.93
710 1551 5.485620 TGATCTTGCCACATCATCTATAGC 58.514 41.667 0.00 0.00 0.00 2.97
713 1554 7.932491 GCTATATGATCTTGCCACATCATCTAT 59.068 37.037 2.29 0.00 39.83 1.98
714 1555 7.270779 GCTATATGATCTTGCCACATCATCTA 58.729 38.462 2.29 0.00 39.83 1.98
715 1556 6.114089 GCTATATGATCTTGCCACATCATCT 58.886 40.000 2.29 0.00 39.83 2.90
716 1557 5.296283 GGCTATATGATCTTGCCACATCATC 59.704 44.000 2.29 0.00 42.79 2.92
717 1558 5.191426 GGCTATATGATCTTGCCACATCAT 58.809 41.667 0.00 4.23 42.79 2.45
718 1559 4.582869 GGCTATATGATCTTGCCACATCA 58.417 43.478 0.00 0.00 42.79 3.07
724 1565 3.063510 TGCTGGCTATATGATCTTGCC 57.936 47.619 0.00 0.00 43.49 4.52
725 1566 6.404074 GGTTAATGCTGGCTATATGATCTTGC 60.404 42.308 0.00 0.00 0.00 4.01
726 1567 6.656270 TGGTTAATGCTGGCTATATGATCTTG 59.344 38.462 0.00 0.00 0.00 3.02
727 1568 6.782986 TGGTTAATGCTGGCTATATGATCTT 58.217 36.000 0.00 0.00 0.00 2.40
728 1569 6.378661 TGGTTAATGCTGGCTATATGATCT 57.621 37.500 0.00 0.00 0.00 2.75
729 1570 7.989741 AGTATGGTTAATGCTGGCTATATGATC 59.010 37.037 0.00 0.00 28.82 2.92
730 1571 7.865820 AGTATGGTTAATGCTGGCTATATGAT 58.134 34.615 0.00 0.00 28.82 2.45
731 1572 7.038373 TGAGTATGGTTAATGCTGGCTATATGA 60.038 37.037 0.00 0.00 30.34 2.15
732 1573 7.105588 TGAGTATGGTTAATGCTGGCTATATG 58.894 38.462 0.00 0.00 30.34 1.78
733 1574 7.257790 TGAGTATGGTTAATGCTGGCTATAT 57.742 36.000 0.00 0.00 30.34 0.86
734 1575 6.680148 TGAGTATGGTTAATGCTGGCTATA 57.320 37.500 0.00 0.00 30.34 1.31
735 1576 5.567037 TGAGTATGGTTAATGCTGGCTAT 57.433 39.130 0.00 0.00 30.34 2.97
736 1577 5.567037 ATGAGTATGGTTAATGCTGGCTA 57.433 39.130 0.00 0.00 30.34 3.93
737 1578 3.931907 TGAGTATGGTTAATGCTGGCT 57.068 42.857 0.00 0.00 30.34 4.75
738 1579 5.182001 CCTTATGAGTATGGTTAATGCTGGC 59.818 44.000 0.00 0.00 30.34 4.85
739 1580 5.707298 CCCTTATGAGTATGGTTAATGCTGG 59.293 44.000 0.00 0.00 30.34 4.85
740 1581 6.299141 ACCCTTATGAGTATGGTTAATGCTG 58.701 40.000 0.00 0.00 30.34 4.41
741 1582 6.515512 ACCCTTATGAGTATGGTTAATGCT 57.484 37.500 0.00 0.00 33.31 3.79
742 1583 8.685838 TTAACCCTTATGAGTATGGTTAATGC 57.314 34.615 10.57 0.00 0.00 3.56
745 1586 9.675464 CACTTTAACCCTTATGAGTATGGTTAA 57.325 33.333 10.57 10.57 0.00 2.01
746 1587 8.828751 ACACTTTAACCCTTATGAGTATGGTTA 58.171 33.333 0.00 0.00 0.00 2.85
747 1588 7.696017 ACACTTTAACCCTTATGAGTATGGTT 58.304 34.615 0.00 0.00 0.00 3.67
748 1589 7.266905 ACACTTTAACCCTTATGAGTATGGT 57.733 36.000 0.00 0.00 0.00 3.55
749 1590 7.931948 CCTACACTTTAACCCTTATGAGTATGG 59.068 40.741 0.00 0.00 0.00 2.74
750 1591 7.931948 CCCTACACTTTAACCCTTATGAGTATG 59.068 40.741 0.00 0.00 0.00 2.39
751 1592 7.847848 TCCCTACACTTTAACCCTTATGAGTAT 59.152 37.037 0.00 0.00 0.00 2.12
752 1593 7.191210 TCCCTACACTTTAACCCTTATGAGTA 58.809 38.462 0.00 0.00 0.00 2.59
753 1594 6.027482 TCCCTACACTTTAACCCTTATGAGT 58.973 40.000 0.00 0.00 0.00 3.41
754 1595 6.383147 TCTCCCTACACTTTAACCCTTATGAG 59.617 42.308 0.00 0.00 0.00 2.90
755 1596 6.266080 TCTCCCTACACTTTAACCCTTATGA 58.734 40.000 0.00 0.00 0.00 2.15
756 1597 6.555463 TCTCCCTACACTTTAACCCTTATG 57.445 41.667 0.00 0.00 0.00 1.90
757 1598 7.578458 TTTCTCCCTACACTTTAACCCTTAT 57.422 36.000 0.00 0.00 0.00 1.73
760 1601 4.263374 GCTTTCTCCCTACACTTTAACCCT 60.263 45.833 0.00 0.00 0.00 4.34
816 1657 6.925610 GACAATGTAGTCCTGCATTTATGA 57.074 37.500 7.74 0.00 41.92 2.15
945 1920 1.918262 AGGCACTCAATGAGGGATTGA 59.082 47.619 17.93 0.00 46.85 2.57
946 1921 2.431954 AGGCACTCAATGAGGGATTG 57.568 50.000 17.93 5.45 42.68 2.67
988 1965 4.848299 GCTTGTCGACATCTTCAAAATCAC 59.152 41.667 20.80 0.00 0.00 3.06
1105 2083 9.533804 ACAAAGAGTTGTAGCAAAGTCATGCAG 62.534 40.741 1.82 0.00 46.33 4.41
1173 2151 5.186409 TGGACTGACCCTTGTAACTATGTAC 59.814 44.000 0.00 0.00 38.00 2.90
1240 2221 3.404224 AGAGACGATGCCTAGACGATA 57.596 47.619 0.00 0.00 0.00 2.92
1244 2225 5.675071 GCATACATAGAGACGATGCCTAGAC 60.675 48.000 0.00 0.00 37.52 2.59
1303 2284 2.167281 TGGATGCTAGTTGAGAGAGTGC 59.833 50.000 0.00 0.00 0.00 4.40
1336 2317 5.733373 GCTCACGGTTCAAAATCTCAAGTTT 60.733 40.000 0.00 0.00 0.00 2.66
1443 2592 4.557496 GCTGTCTCAACTGAATTTTGGTCC 60.557 45.833 0.00 0.00 0.00 4.46
1464 2613 7.592885 AATTGCTTCTATTTGATATGGTGCT 57.407 32.000 0.00 0.00 0.00 4.40
1669 2819 3.300388 TCTCACAGTTGTCTGGAGAAGT 58.700 45.455 11.16 0.00 45.14 3.01
1713 2863 3.255149 AGACTACGTTGATCTTCACGGTT 59.745 43.478 3.44 1.91 0.00 4.44
1785 2937 6.984474 TGAAAAGAGTAGTAAGACAACTGGTG 59.016 38.462 0.00 0.00 0.00 4.17
1995 3147 5.520748 AATGGACCCTAGTGAGTTTTCAT 57.479 39.130 0.00 0.00 35.39 2.57
1997 3149 5.768164 TCAAAATGGACCCTAGTGAGTTTTC 59.232 40.000 0.00 0.00 0.00 2.29
2001 3153 3.306780 CGTCAAAATGGACCCTAGTGAGT 60.307 47.826 0.00 0.00 34.24 3.41
2013 3165 5.105797 TGGATTCAGAATTCCGTCAAAATGG 60.106 40.000 0.65 0.00 0.00 3.16
2105 3257 4.991776 TCCCAAGGTAAATCAATGTGTCA 58.008 39.130 0.00 0.00 0.00 3.58
2163 3315 3.475566 TTGTAGTTGCTGCTGAAGACT 57.524 42.857 0.00 0.35 0.00 3.24
2256 3408 5.071519 AGAGCTAAGTCCAAGTCATATGCAT 59.928 40.000 3.79 3.79 0.00 3.96
2419 3572 4.665833 ACTATGTTTATGCCAGTCGCTA 57.334 40.909 0.00 0.00 38.78 4.26
2508 3662 3.072184 CCCCTAGAGATGCTACAATTGCT 59.928 47.826 5.05 0.00 0.00 3.91
2557 3711 2.572290 GGGCACATATGTAAGGACACC 58.428 52.381 8.32 1.99 38.76 4.16
2704 3858 2.892852 CAACAACATGTTCCATCTGGGT 59.107 45.455 8.48 0.00 38.77 4.51
2706 3860 4.589216 AACAACAACATGTTCCATCTGG 57.411 40.909 8.48 0.00 38.77 3.86
2709 3863 4.692228 ACCAAACAACAACATGTTCCATC 58.308 39.130 8.48 0.00 42.49 3.51
2801 3955 8.743085 TGCTTATTCAATTTTCTATGCTCTCT 57.257 30.769 0.00 0.00 0.00 3.10
2821 3975 5.637810 GCCTATAATGTAGTGCGAATGCTTA 59.362 40.000 0.00 0.00 43.34 3.09
2830 3984 3.466836 TGCAGTGCCTATAATGTAGTGC 58.533 45.455 13.72 10.86 38.00 4.40
2918 4072 4.966850 ATGTGTTTTCGTTAGTCTGTCG 57.033 40.909 0.00 0.00 0.00 4.35
2920 4074 6.482308 AGCTTAATGTGTTTTCGTTAGTCTGT 59.518 34.615 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.