Multiple sequence alignment - TraesCS6A01G109300

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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 TraesCS6A01G109300 chr6A 100.000 2577 0 0 1 2577 78477377 78479953 0.000000e+00 4759.0
1 TraesCS6A01G109300 chr6A 82.736 753 73 32 1569 2303 77888459 77889172 3.640000e-173 617.0
2 TraesCS6A01G109300 chr6A 89.091 110 9 3 2304 2411 77894630 77894738 1.610000e-27 134.0
3 TraesCS6A01G109300 chr6A 84.962 133 14 5 2304 2432 78029039 78029169 2.080000e-26 130.0
4 TraesCS6A01G109300 chr6D 93.502 831 23 13 743 1546 61345248 61346074 0.000000e+00 1206.0
5 TraesCS6A01G109300 chr6D 90.164 549 32 8 1 540 61344721 61345256 0.000000e+00 695.0
6 TraesCS6A01G109300 chr6D 92.371 485 27 6 1796 2272 61346278 61346760 0.000000e+00 682.0
7 TraesCS6A01G109300 chr6D 92.593 162 10 1 1556 1717 61346119 61346278 5.550000e-57 231.0
8 TraesCS6A01G109300 chr6D 97.222 36 1 0 242 277 61344886 61344921 7.700000e-06 62.1
9 TraesCS6A01G109300 chr6B 92.671 805 35 10 743 1546 135311855 135312636 0.000000e+00 1138.0
10 TraesCS6A01G109300 chr6B 86.223 842 49 24 1743 2577 135312837 135313618 0.000000e+00 850.0
11 TraesCS6A01G109300 chr6B 90.954 409 24 8 2 405 135310422 135310822 2.920000e-149 538.0
12 TraesCS6A01G109300 chr6B 91.515 165 7 3 1556 1717 135312681 135312841 1.200000e-53 220.0
13 TraesCS6A01G109300 chr2A 94.118 204 11 1 539 742 576447533 576447331 2.490000e-80 309.0
14 TraesCS6A01G109300 chr2A 91.787 207 15 2 536 742 35678508 35678304 1.170000e-73 287.0
15 TraesCS6A01G109300 chr2A 92.118 203 15 1 540 742 519404000 519403799 4.200000e-73 285.0
16 TraesCS6A01G109300 chr7A 93.103 203 13 1 540 742 172916034 172915833 1.940000e-76 296.0
17 TraesCS6A01G109300 chr7A 95.833 48 2 0 4 51 167627501 167627548 7.650000e-11 78.7
18 TraesCS6A01G109300 chr7A 95.652 46 2 0 5 50 427281388 427281343 9.890000e-10 75.0
19 TraesCS6A01G109300 chr7A 92.157 51 3 1 5 55 8793090 8793041 1.280000e-08 71.3
20 TraesCS6A01G109300 chr5A 92.157 204 13 3 540 742 512630170 512630371 4.200000e-73 285.0
21 TraesCS6A01G109300 chr5A 92.118 203 12 3 540 742 330283902 330283704 1.510000e-72 283.0
22 TraesCS6A01G109300 chr3A 92.079 202 14 2 541 742 76343631 76343830 1.510000e-72 283.0
23 TraesCS6A01G109300 chr3A 90.995 211 15 3 533 742 651189521 651189314 5.430000e-72 281.0
24 TraesCS6A01G109300 chr1A 92.118 203 13 3 540 742 102989593 102989394 1.510000e-72 283.0
25 TraesCS6A01G109300 chr7B 78.030 132 28 1 228 358 73211657 73211788 5.910000e-12 82.4
26 TraesCS6A01G109300 chr5D 96.000 50 2 0 2 51 379807541 379807492 5.910000e-12 82.4
27 TraesCS6A01G109300 chrUn 95.745 47 2 0 4 50 91756400 91756354 2.750000e-10 76.8
28 TraesCS6A01G109300 chr7D 95.745 47 2 0 4 50 137681649 137681603 2.750000e-10 76.8
29 TraesCS6A01G109300 chr4D 95.556 45 2 0 5 49 469327549 469327593 3.560000e-09 73.1
30 TraesCS6A01G109300 chr3D 84.615 78 7 4 235 308 12122167 12122243 3.560000e-09 73.1
31 TraesCS6A01G109300 chr2D 96.875 32 1 0 1614 1645 417187341 417187372 1.000000e-03 54.7
32 TraesCS6A01G109300 chr2B 96.875 32 1 0 1614 1645 489028414 489028445 1.000000e-03 54.7


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 TraesCS6A01G109300 chr6A 78477377 78479953 2576 False 4759.00 4759 100.00000 1 2577 1 chr6A.!!$F4 2576
1 TraesCS6A01G109300 chr6A 77888459 77889172 713 False 617.00 617 82.73600 1569 2303 1 chr6A.!!$F1 734
2 TraesCS6A01G109300 chr6D 61344721 61346760 2039 False 575.22 1206 93.17040 1 2272 5 chr6D.!!$F1 2271
3 TraesCS6A01G109300 chr6B 135310422 135313618 3196 False 686.50 1138 90.34075 2 2577 4 chr6B.!!$F1 2575

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
704 1627 0.036022 TGAATGCCACGTGTCATCCA 59.964 50.0 13.12 2.86 0.0 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2531 3550 0.59117 CGCAATTCGTGGACAACCTT 59.409 50.0 0.0 0.0 37.04 3.5 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
213 225 4.759516 TTTTCAGGTCCGCTAAATCAAC 57.240 40.909 0.00 0.00 0.00 3.18
220 232 0.373716 CCGCTAAATCAACGGTGAGC 59.626 55.000 9.97 5.75 42.01 4.26
320 334 8.754230 ACAGTTTTATAGGTTTACGAGAACTC 57.246 34.615 0.00 0.00 0.00 3.01
364 378 6.349897 ACTTCCCCTAAATTTTAGGCCATA 57.650 37.500 24.21 11.43 33.41 2.74
373 387 8.635328 CCTAAATTTTAGGCCATACCGTAAATT 58.365 33.333 19.62 3.37 46.52 1.82
435 1358 7.850935 TTAGGGAGAGAAGTTTACAAGAGAA 57.149 36.000 0.00 0.00 0.00 2.87
439 1362 8.221251 AGGGAGAGAAGTTTACAAGAGAATTTT 58.779 33.333 0.00 0.00 0.00 1.82
474 1397 3.183754 GAGAGGTTTTCTAAGAGAGCGC 58.816 50.000 0.00 0.00 35.87 5.92
523 1446 4.141981 TGCTTTGTCCGTTAATCCCGTATA 60.142 41.667 0.00 0.00 0.00 1.47
524 1447 4.992951 GCTTTGTCCGTTAATCCCGTATAT 59.007 41.667 0.00 0.00 0.00 0.86
525 1448 5.119743 GCTTTGTCCGTTAATCCCGTATATC 59.880 44.000 0.00 0.00 0.00 1.63
527 1450 5.787953 TGTCCGTTAATCCCGTATATCAA 57.212 39.130 0.00 0.00 0.00 2.57
528 1451 6.159299 TGTCCGTTAATCCCGTATATCAAA 57.841 37.500 0.00 0.00 0.00 2.69
529 1452 6.761312 TGTCCGTTAATCCCGTATATCAAAT 58.239 36.000 0.00 0.00 0.00 2.32
530 1453 6.869913 TGTCCGTTAATCCCGTATATCAAATC 59.130 38.462 0.00 0.00 0.00 2.17
531 1454 7.095270 GTCCGTTAATCCCGTATATCAAATCT 58.905 38.462 0.00 0.00 0.00 2.40
532 1455 7.275123 GTCCGTTAATCCCGTATATCAAATCTC 59.725 40.741 0.00 0.00 0.00 2.75
533 1456 6.534079 CCGTTAATCCCGTATATCAAATCTCC 59.466 42.308 0.00 0.00 0.00 3.71
534 1457 6.534079 CGTTAATCCCGTATATCAAATCTCCC 59.466 42.308 0.00 0.00 0.00 4.30
535 1458 7.391620 GTTAATCCCGTATATCAAATCTCCCA 58.608 38.462 0.00 0.00 0.00 4.37
536 1459 5.683876 ATCCCGTATATCAAATCTCCCAG 57.316 43.478 0.00 0.00 0.00 4.45
537 1460 4.747583 TCCCGTATATCAAATCTCCCAGA 58.252 43.478 0.00 0.00 0.00 3.86
538 1461 4.772624 TCCCGTATATCAAATCTCCCAGAG 59.227 45.833 0.00 0.00 0.00 3.35
539 1462 4.081420 CCCGTATATCAAATCTCCCAGAGG 60.081 50.000 0.00 0.00 0.00 3.69
540 1463 4.081420 CCGTATATCAAATCTCCCAGAGGG 60.081 50.000 0.00 0.00 46.11 4.30
572 1495 4.621269 AGACCAGGTCTCACGGTT 57.379 55.556 17.31 0.00 38.71 4.44
573 1496 3.759865 AGACCAGGTCTCACGGTTA 57.240 52.632 17.31 0.00 38.71 2.85
574 1497 1.546961 AGACCAGGTCTCACGGTTAG 58.453 55.000 17.31 0.00 38.71 2.34
575 1498 0.108756 GACCAGGTCTCACGGTTAGC 60.109 60.000 12.94 0.00 31.63 3.09
576 1499 0.830444 ACCAGGTCTCACGGTTAGCA 60.830 55.000 0.00 0.00 0.00 3.49
577 1500 0.108615 CCAGGTCTCACGGTTAGCAG 60.109 60.000 0.00 0.00 0.00 4.24
578 1501 0.108615 CAGGTCTCACGGTTAGCAGG 60.109 60.000 0.00 0.00 0.00 4.85
579 1502 0.542232 AGGTCTCACGGTTAGCAGGT 60.542 55.000 0.00 0.00 0.00 4.00
580 1503 0.389948 GGTCTCACGGTTAGCAGGTG 60.390 60.000 0.00 0.00 0.00 4.00
581 1504 0.601558 GTCTCACGGTTAGCAGGTGA 59.398 55.000 3.41 3.41 38.29 4.02
583 1506 3.045518 TCACGGTTAGCAGGTGAGA 57.954 52.632 0.00 0.00 35.89 3.27
584 1507 0.601558 TCACGGTTAGCAGGTGAGAC 59.398 55.000 0.00 0.00 35.89 3.36
585 1508 0.389948 CACGGTTAGCAGGTGAGACC 60.390 60.000 0.00 0.00 38.99 3.85
586 1509 1.218316 CGGTTAGCAGGTGAGACCC 59.782 63.158 0.00 0.00 39.75 4.46
587 1510 1.218316 GGTTAGCAGGTGAGACCCG 59.782 63.158 0.00 0.00 39.75 5.28
588 1511 1.542187 GGTTAGCAGGTGAGACCCGT 61.542 60.000 0.00 0.00 39.75 5.28
589 1512 0.108756 GTTAGCAGGTGAGACCCGTC 60.109 60.000 0.00 0.00 39.75 4.79
590 1513 1.255667 TTAGCAGGTGAGACCCGTCC 61.256 60.000 0.00 0.00 39.75 4.79
591 1514 2.151307 TAGCAGGTGAGACCCGTCCT 62.151 60.000 0.00 0.00 39.75 3.85
592 1515 2.973899 CAGGTGAGACCCGTCCTG 59.026 66.667 0.00 0.00 39.75 3.86
593 1516 2.851801 AGGTGAGACCCGTCCTGA 59.148 61.111 0.00 0.00 39.75 3.86
594 1517 1.388531 AGGTGAGACCCGTCCTGAT 59.611 57.895 0.00 0.00 39.75 2.90
595 1518 0.629596 AGGTGAGACCCGTCCTGATA 59.370 55.000 0.00 0.00 39.75 2.15
596 1519 1.033574 GGTGAGACCCGTCCTGATAG 58.966 60.000 0.00 0.00 30.04 2.08
597 1520 1.409802 GGTGAGACCCGTCCTGATAGA 60.410 57.143 0.00 0.00 30.04 1.98
598 1521 2.588620 GTGAGACCCGTCCTGATAGAT 58.411 52.381 0.00 0.00 0.00 1.98
599 1522 2.294791 GTGAGACCCGTCCTGATAGATG 59.705 54.545 0.00 0.00 0.00 2.90
600 1523 2.174854 TGAGACCCGTCCTGATAGATGA 59.825 50.000 0.00 0.00 0.00 2.92
601 1524 2.554893 GAGACCCGTCCTGATAGATGAC 59.445 54.545 0.00 0.00 0.00 3.06
602 1525 2.091830 AGACCCGTCCTGATAGATGACA 60.092 50.000 0.00 0.00 0.00 3.58
603 1526 2.032620 ACCCGTCCTGATAGATGACAC 58.967 52.381 0.00 0.00 0.00 3.67
604 1527 1.001268 CCCGTCCTGATAGATGACACG 60.001 57.143 0.00 0.00 0.00 4.49
605 1528 1.676529 CCGTCCTGATAGATGACACGT 59.323 52.381 0.00 0.00 0.00 4.49
606 1529 2.541794 CCGTCCTGATAGATGACACGTG 60.542 54.545 15.48 15.48 0.00 4.49
607 1530 2.354821 CGTCCTGATAGATGACACGTGA 59.645 50.000 25.01 0.00 0.00 4.35
608 1531 3.696898 GTCCTGATAGATGACACGTGAC 58.303 50.000 25.01 17.68 0.00 3.67
609 1532 3.128764 GTCCTGATAGATGACACGTGACA 59.871 47.826 25.01 23.44 0.00 3.58
610 1533 3.954258 TCCTGATAGATGACACGTGACAT 59.046 43.478 28.93 28.93 33.43 3.06
611 1534 4.402474 TCCTGATAGATGACACGTGACATT 59.598 41.667 29.08 21.26 31.08 2.71
612 1535 5.105351 TCCTGATAGATGACACGTGACATTT 60.105 40.000 29.08 25.84 31.08 2.32
613 1536 6.096282 TCCTGATAGATGACACGTGACATTTA 59.904 38.462 29.08 26.90 31.08 1.40
614 1537 6.199154 CCTGATAGATGACACGTGACATTTAC 59.801 42.308 29.08 21.20 31.08 2.01
615 1538 6.626302 TGATAGATGACACGTGACATTTACA 58.374 36.000 29.08 22.84 31.08 2.41
616 1539 7.093992 TGATAGATGACACGTGACATTTACAA 58.906 34.615 29.08 18.05 31.08 2.41
617 1540 7.600752 TGATAGATGACACGTGACATTTACAAA 59.399 33.333 29.08 16.11 31.08 2.83
618 1541 6.801539 AGATGACACGTGACATTTACAAAT 57.198 33.333 29.08 10.11 31.08 2.32
619 1542 6.831769 AGATGACACGTGACATTTACAAATC 58.168 36.000 29.08 17.26 31.08 2.17
620 1543 5.993106 TGACACGTGACATTTACAAATCA 57.007 34.783 25.01 7.79 0.00 2.57
621 1544 5.743467 TGACACGTGACATTTACAAATCAC 58.257 37.500 25.01 0.00 0.00 3.06
622 1545 5.294552 TGACACGTGACATTTACAAATCACA 59.705 36.000 25.01 0.00 0.00 3.58
623 1546 6.125327 ACACGTGACATTTACAAATCACAA 57.875 33.333 25.01 0.00 0.00 3.33
624 1547 6.556212 ACACGTGACATTTACAAATCACAAA 58.444 32.000 25.01 0.00 0.00 2.83
625 1548 6.690957 ACACGTGACATTTACAAATCACAAAG 59.309 34.615 25.01 0.00 0.00 2.77
626 1549 5.685511 ACGTGACATTTACAAATCACAAAGC 59.314 36.000 8.41 0.00 0.00 3.51
627 1550 5.685068 CGTGACATTTACAAATCACAAAGCA 59.315 36.000 8.41 0.00 0.00 3.91
628 1551 6.363088 CGTGACATTTACAAATCACAAAGCAT 59.637 34.615 8.41 0.00 0.00 3.79
629 1552 7.409661 CGTGACATTTACAAATCACAAAGCATC 60.410 37.037 8.41 0.00 0.00 3.91
630 1553 7.596248 GTGACATTTACAAATCACAAAGCATCT 59.404 33.333 0.00 0.00 0.00 2.90
631 1554 8.791675 TGACATTTACAAATCACAAAGCATCTA 58.208 29.630 0.00 0.00 0.00 1.98
632 1555 9.624697 GACATTTACAAATCACAAAGCATCTAA 57.375 29.630 0.00 0.00 0.00 2.10
638 1561 8.976986 ACAAATCACAAAGCATCTAATTTCTC 57.023 30.769 0.00 0.00 0.00 2.87
639 1562 8.800332 ACAAATCACAAAGCATCTAATTTCTCT 58.200 29.630 0.00 0.00 0.00 3.10
640 1563 9.286946 CAAATCACAAAGCATCTAATTTCTCTC 57.713 33.333 0.00 0.00 0.00 3.20
641 1564 6.992063 TCACAAAGCATCTAATTTCTCTCC 57.008 37.500 0.00 0.00 0.00 3.71
642 1565 5.882557 TCACAAAGCATCTAATTTCTCTCCC 59.117 40.000 0.00 0.00 0.00 4.30
643 1566 5.067023 CACAAAGCATCTAATTTCTCTCCCC 59.933 44.000 0.00 0.00 0.00 4.81
644 1567 5.044550 ACAAAGCATCTAATTTCTCTCCCCT 60.045 40.000 0.00 0.00 0.00 4.79
645 1568 5.723860 AAGCATCTAATTTCTCTCCCCTT 57.276 39.130 0.00 0.00 0.00 3.95
646 1569 5.303259 AGCATCTAATTTCTCTCCCCTTC 57.697 43.478 0.00 0.00 0.00 3.46
647 1570 4.974501 AGCATCTAATTTCTCTCCCCTTCT 59.025 41.667 0.00 0.00 0.00 2.85
648 1571 6.146760 AGCATCTAATTTCTCTCCCCTTCTA 58.853 40.000 0.00 0.00 0.00 2.10
649 1572 6.617371 AGCATCTAATTTCTCTCCCCTTCTAA 59.383 38.462 0.00 0.00 0.00 2.10
650 1573 7.294482 AGCATCTAATTTCTCTCCCCTTCTAAT 59.706 37.037 0.00 0.00 0.00 1.73
651 1574 7.941790 GCATCTAATTTCTCTCCCCTTCTAATT 59.058 37.037 0.00 0.00 0.00 1.40
652 1575 9.859152 CATCTAATTTCTCTCCCCTTCTAATTT 57.141 33.333 0.00 0.00 0.00 1.82
658 1581 8.863872 TTTCTCTCCCCTTCTAATTTTAACTG 57.136 34.615 0.00 0.00 0.00 3.16
659 1582 6.958767 TCTCTCCCCTTCTAATTTTAACTGG 58.041 40.000 0.00 0.00 0.00 4.00
660 1583 6.069615 TCTCTCCCCTTCTAATTTTAACTGGG 60.070 42.308 0.00 0.00 0.00 4.45
662 1585 4.286707 CCCCTTCTAATTTTAACTGGGGG 58.713 47.826 0.00 0.00 46.89 5.40
678 1601 1.560505 GGGGGTGAATGATGCTTTGT 58.439 50.000 0.00 0.00 0.00 2.83
679 1602 1.205417 GGGGGTGAATGATGCTTTGTG 59.795 52.381 0.00 0.00 0.00 3.33
680 1603 2.170166 GGGGTGAATGATGCTTTGTGA 58.830 47.619 0.00 0.00 0.00 3.58
681 1604 2.762327 GGGGTGAATGATGCTTTGTGAT 59.238 45.455 0.00 0.00 0.00 3.06
682 1605 3.196254 GGGGTGAATGATGCTTTGTGATT 59.804 43.478 0.00 0.00 0.00 2.57
683 1606 4.322953 GGGGTGAATGATGCTTTGTGATTT 60.323 41.667 0.00 0.00 0.00 2.17
684 1607 4.628333 GGGTGAATGATGCTTTGTGATTTG 59.372 41.667 0.00 0.00 0.00 2.32
685 1608 5.232463 GGTGAATGATGCTTTGTGATTTGT 58.768 37.500 0.00 0.00 0.00 2.83
686 1609 5.119588 GGTGAATGATGCTTTGTGATTTGTG 59.880 40.000 0.00 0.00 0.00 3.33
687 1610 5.921976 GTGAATGATGCTTTGTGATTTGTGA 59.078 36.000 0.00 0.00 0.00 3.58
688 1611 6.421501 GTGAATGATGCTTTGTGATTTGTGAA 59.578 34.615 0.00 0.00 0.00 3.18
689 1612 7.117236 GTGAATGATGCTTTGTGATTTGTGAAT 59.883 33.333 0.00 0.00 0.00 2.57
690 1613 6.961359 ATGATGCTTTGTGATTTGTGAATG 57.039 33.333 0.00 0.00 0.00 2.67
691 1614 4.687018 TGATGCTTTGTGATTTGTGAATGC 59.313 37.500 0.00 0.00 0.00 3.56
692 1615 3.391965 TGCTTTGTGATTTGTGAATGCC 58.608 40.909 0.00 0.00 0.00 4.40
693 1616 3.181468 TGCTTTGTGATTTGTGAATGCCA 60.181 39.130 0.00 0.00 0.00 4.92
694 1617 3.184986 GCTTTGTGATTTGTGAATGCCAC 59.815 43.478 0.00 0.00 45.88 5.01
702 1625 3.975992 GTGAATGCCACGTGTCATC 57.024 52.632 13.12 7.23 35.86 2.92
703 1626 0.447801 GTGAATGCCACGTGTCATCC 59.552 55.000 13.12 0.00 35.86 3.51
704 1627 0.036022 TGAATGCCACGTGTCATCCA 59.964 50.000 13.12 2.86 0.00 3.41
705 1628 1.339920 TGAATGCCACGTGTCATCCAT 60.340 47.619 13.12 0.00 0.00 3.41
706 1629 1.331756 GAATGCCACGTGTCATCCATC 59.668 52.381 13.12 3.25 0.00 3.51
707 1630 0.252761 ATGCCACGTGTCATCCATCA 59.747 50.000 15.65 0.00 0.00 3.07
708 1631 0.036022 TGCCACGTGTCATCCATCAA 59.964 50.000 15.65 0.00 0.00 2.57
709 1632 0.729116 GCCACGTGTCATCCATCAAG 59.271 55.000 15.65 0.00 0.00 3.02
710 1633 1.675714 GCCACGTGTCATCCATCAAGA 60.676 52.381 15.65 0.00 0.00 3.02
711 1634 2.910199 CCACGTGTCATCCATCAAGAT 58.090 47.619 15.65 0.00 0.00 2.40
712 1635 2.610833 CCACGTGTCATCCATCAAGATG 59.389 50.000 15.65 3.07 44.21 2.90
721 1644 3.766644 CATCAAGATGGGTCTCGCA 57.233 52.632 2.09 0.00 35.24 5.10
722 1645 2.251409 CATCAAGATGGGTCTCGCAT 57.749 50.000 2.09 0.00 39.69 4.73
723 1646 1.871676 CATCAAGATGGGTCTCGCATG 59.128 52.381 2.09 0.00 37.16 4.06
724 1647 1.194218 TCAAGATGGGTCTCGCATGA 58.806 50.000 0.00 0.00 37.16 3.07
725 1648 1.137675 TCAAGATGGGTCTCGCATGAG 59.862 52.381 0.00 0.00 43.99 2.90
726 1649 6.535745 CATCAAGATGGGTCTCGCATGAGA 62.536 50.000 0.00 0.00 40.67 3.27
732 1655 4.442038 TCTCGCATGAGACCTGGT 57.558 55.556 0.00 0.00 46.25 4.00
733 1656 2.193532 TCTCGCATGAGACCTGGTC 58.806 57.895 19.20 19.20 46.25 4.02
734 1657 0.323816 TCTCGCATGAGACCTGGTCT 60.324 55.000 28.70 28.70 46.25 3.85
781 1704 7.574217 GCATTAATCGTGGTGGAGTAAAAAGAA 60.574 37.037 0.00 0.00 31.26 2.52
794 1717 4.739716 AGTAAAAAGAAAGCGTGTGCAATG 59.260 37.500 0.00 0.00 46.23 2.82
857 1780 2.292569 TCGTCTCGGGCATCTGTATAAC 59.707 50.000 0.00 0.00 0.00 1.89
867 1790 4.515567 GGCATCTGTATAACTAAACCAGCC 59.484 45.833 0.00 0.00 0.00 4.85
920 1843 4.021456 ACCACCTCCCGAAAAATGAAAATC 60.021 41.667 0.00 0.00 0.00 2.17
922 1845 5.163513 CACCTCCCGAAAAATGAAAATCAG 58.836 41.667 0.00 0.00 0.00 2.90
999 1946 2.111251 GGGATTCGCTAGTGCCCC 59.889 66.667 10.92 10.92 35.36 5.80
1160 2108 2.167281 CCATGTCGTCTCTCATGTCCTT 59.833 50.000 0.00 0.00 39.53 3.36
1211 2159 0.446616 CTCCTTCGCCCGCTAAAAAC 59.553 55.000 0.00 0.00 0.00 2.43
1217 2165 0.872388 CGCCCGCTAAAAACTTCAGT 59.128 50.000 0.00 0.00 0.00 3.41
1227 2175 5.177696 GCTAAAAACTTCAGTCGATCTGTGT 59.822 40.000 12.62 10.55 43.97 3.72
1502 2453 2.540361 GGATGATTGAGCATGCAACGTC 60.540 50.000 21.98 14.89 36.71 4.34
1544 2503 6.976472 ATACGGCTGTATCTCCTTTGATAGGA 60.976 42.308 12.62 0.00 43.05 2.94
1559 2545 4.269183 TGATAGGACATTGATTTTGCGGT 58.731 39.130 0.00 0.00 0.00 5.68
1595 2584 5.809051 GGATCAATAAAGCTTTTCTTGCTGG 59.191 40.000 18.47 0.79 41.03 4.85
1666 2655 3.373748 CACTTGCCGATTATTGTGTGCTA 59.626 43.478 0.00 0.00 0.00 3.49
1667 2656 4.035558 CACTTGCCGATTATTGTGTGCTAT 59.964 41.667 0.00 0.00 0.00 2.97
1697 2686 5.523552 CCTATGACAACGCAAAGATACATCA 59.476 40.000 0.00 0.00 0.00 3.07
1716 2705 6.189859 ACATCAGTGAACATGGGTTGATATT 58.810 36.000 0.00 0.00 37.36 1.28
1913 2917 5.885912 TCTTTTTGCCTAGAATACCATGGAC 59.114 40.000 21.47 6.81 0.00 4.02
1914 2918 3.469008 TTGCCTAGAATACCATGGACG 57.531 47.619 21.47 0.00 0.00 4.79
1942 2946 0.041312 CGTGAAACTTTGCACCTCGG 60.041 55.000 0.00 0.00 31.75 4.63
1956 2960 2.156891 CACCTCGGTCATGTTTGTTACG 59.843 50.000 0.00 0.00 0.00 3.18
2136 3145 5.957798 TGCAATTTCTCAATTAGCTTCTGG 58.042 37.500 0.00 0.00 30.90 3.86
2148 3157 0.036388 GCTTCTGGACCGTTGGATCA 60.036 55.000 0.00 0.00 0.00 2.92
2192 3205 3.528597 TTTCCTTTTTGGGGTTTCACG 57.471 42.857 0.00 0.00 36.20 4.35
2207 3220 7.014422 TGGGGTTTCACGTTTCATTTTTAGTAT 59.986 33.333 0.00 0.00 0.00 2.12
2285 3304 3.353029 TTGCACGCCCACATGTCG 61.353 61.111 0.00 0.00 0.00 4.35
2314 3333 5.830000 ACTATAGTTATGTGTGCAGACGA 57.170 39.130 9.70 0.00 0.00 4.20
2325 3344 1.299926 GCAGACGACGGACACACTT 60.300 57.895 0.00 0.00 0.00 3.16
2335 3354 2.281070 ACACACTTGCGGCTGAGG 60.281 61.111 0.00 0.00 0.00 3.86
2353 3372 3.132289 TGAGGGCAACTATAGCTACACAC 59.868 47.826 0.00 0.00 0.00 3.82
2355 3374 2.100252 GGGCAACTATAGCTACACACGA 59.900 50.000 0.00 0.00 0.00 4.35
2356 3375 3.429822 GGGCAACTATAGCTACACACGAA 60.430 47.826 0.00 0.00 0.00 3.85
2357 3376 3.797256 GGCAACTATAGCTACACACGAAG 59.203 47.826 0.00 0.00 0.00 3.79
2359 3378 4.499758 GCAACTATAGCTACACACGAAGTC 59.500 45.833 0.00 0.00 41.61 3.01
2360 3379 4.533225 ACTATAGCTACACACGAAGTCG 57.467 45.455 0.00 0.00 41.61 4.18
2361 3380 2.846039 ATAGCTACACACGAAGTCGG 57.154 50.000 5.60 0.00 41.61 4.79
2393 3412 0.041663 CTGTACACGTTTGTTGGCCG 60.042 55.000 0.00 0.00 37.15 6.13
2408 3427 1.954651 GCCGGGCGCAACTATAGTC 60.955 63.158 10.83 0.00 37.47 2.59
2409 3428 1.740285 CCGGGCGCAACTATAGTCT 59.260 57.895 10.83 0.00 0.00 3.24
2410 3429 0.956633 CCGGGCGCAACTATAGTCTA 59.043 55.000 10.83 0.00 0.00 2.59
2411 3430 1.335689 CCGGGCGCAACTATAGTCTAC 60.336 57.143 10.83 0.00 0.00 2.59
2412 3431 1.335810 CGGGCGCAACTATAGTCTACA 59.664 52.381 10.83 0.00 0.00 2.74
2413 3432 2.604855 CGGGCGCAACTATAGTCTACAG 60.605 54.545 10.83 0.00 0.00 2.74
2416 3435 3.046390 GCGCAACTATAGTCTACAGCTG 58.954 50.000 13.48 13.48 0.00 4.24
2419 3438 3.799420 GCAACTATAGTCTACAGCTGCAC 59.201 47.826 15.27 8.33 32.85 4.57
2433 3452 3.122850 GCACTTGCACACCTGCTT 58.877 55.556 0.00 0.00 44.57 3.91
2451 3470 2.351726 GCTTCCCGCATACAACTACAAG 59.648 50.000 0.00 0.00 38.92 3.16
2460 3479 5.460646 GCATACAACTACAAGTGCACATTT 58.539 37.500 21.04 2.15 33.09 2.32
2484 3503 3.788766 GGGCACGCGCAACTACAG 61.789 66.667 5.73 0.00 41.24 2.74
2485 3504 3.041940 GGCACGCGCAACTACAGT 61.042 61.111 5.73 0.00 41.24 3.55
2497 3516 3.735746 GCAACTACAGTTTTGCACATTCC 59.264 43.478 12.62 0.00 46.13 3.01
2498 3517 4.298332 CAACTACAGTTTTGCACATTCCC 58.702 43.478 0.00 0.00 35.83 3.97
2527 3546 2.239654 CCATCAGTCACCCAACACCTAT 59.760 50.000 0.00 0.00 0.00 2.57
2528 3547 3.454447 CCATCAGTCACCCAACACCTATA 59.546 47.826 0.00 0.00 0.00 1.31
2529 3548 4.443457 CCATCAGTCACCCAACACCTATAG 60.443 50.000 0.00 0.00 0.00 1.31
2530 3549 3.786553 TCAGTCACCCAACACCTATAGT 58.213 45.455 0.00 0.00 0.00 2.12
2531 3550 4.938028 TCAGTCACCCAACACCTATAGTA 58.062 43.478 0.00 0.00 0.00 1.82
2532 3551 5.335261 TCAGTCACCCAACACCTATAGTAA 58.665 41.667 0.00 0.00 0.00 2.24
2533 3552 5.421056 TCAGTCACCCAACACCTATAGTAAG 59.579 44.000 0.00 0.00 0.00 2.34
2546 3565 6.158023 CCTATAGTAAGGTTGTCCACGAAT 57.842 41.667 0.00 0.00 35.89 3.34
2549 3568 2.812011 AGTAAGGTTGTCCACGAATTGC 59.188 45.455 0.00 0.00 35.89 3.56
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
136 145 4.486090 CGAGAGCAGTTACTGTTGTACAT 58.514 43.478 14.23 0.00 33.43 2.29
137 146 3.305131 CCGAGAGCAGTTACTGTTGTACA 60.305 47.826 14.23 0.00 33.43 2.90
145 154 2.029828 CACAAGTCCGAGAGCAGTTACT 60.030 50.000 0.00 0.00 0.00 2.24
150 159 1.079543 CCCACAAGTCCGAGAGCAG 60.080 63.158 0.00 0.00 0.00 4.24
220 232 1.299850 TGACAAGTGTGACGAGCCG 60.300 57.895 0.00 0.00 0.00 5.52
293 307 9.551734 AGTTCTCGTAAACCTATAAAACTGTTT 57.448 29.630 0.00 0.00 35.32 2.83
294 308 9.201127 GAGTTCTCGTAAACCTATAAAACTGTT 57.799 33.333 0.00 0.00 0.00 3.16
295 309 8.362639 TGAGTTCTCGTAAACCTATAAAACTGT 58.637 33.333 0.00 0.00 0.00 3.55
305 319 5.425630 ACTTTTGTGAGTTCTCGTAAACCT 58.574 37.500 0.00 0.00 0.00 3.50
336 350 6.014070 GGCCTAAAATTTAGGGGAAGTTTTCA 60.014 38.462 27.45 0.00 37.86 2.69
364 378 4.818005 GGGATTTGATACGGAATTTACGGT 59.182 41.667 5.91 0.00 35.23 4.83
373 387 2.910319 CCTATGGGGGATTTGATACGGA 59.090 50.000 0.00 0.00 0.00 4.69
445 1368 4.532521 TCTTAGAAAACCTCTCCCCTCAAG 59.467 45.833 0.00 0.00 35.41 3.02
492 1415 1.027792 ACGGACAAAGCAACGTTGGT 61.028 50.000 26.30 26.30 41.27 3.67
555 1478 1.546961 CTAACCGTGAGACCTGGTCT 58.453 55.000 28.70 28.70 46.42 3.85
556 1479 0.108756 GCTAACCGTGAGACCTGGTC 60.109 60.000 19.20 19.20 34.11 4.02
557 1480 0.830444 TGCTAACCGTGAGACCTGGT 60.830 55.000 0.00 0.00 37.68 4.00
558 1481 0.108615 CTGCTAACCGTGAGACCTGG 60.109 60.000 0.00 0.00 0.00 4.45
559 1482 0.108615 CCTGCTAACCGTGAGACCTG 60.109 60.000 0.00 0.00 0.00 4.00
560 1483 0.542232 ACCTGCTAACCGTGAGACCT 60.542 55.000 0.00 0.00 0.00 3.85
561 1484 0.389948 CACCTGCTAACCGTGAGACC 60.390 60.000 0.00 0.00 0.00 3.85
562 1485 0.601558 TCACCTGCTAACCGTGAGAC 59.398 55.000 0.00 0.00 32.85 3.36
563 1486 3.045518 TCACCTGCTAACCGTGAGA 57.954 52.632 0.00 0.00 32.85 3.27
564 1487 3.425578 CTCACCTGCTAACCGTGAG 57.574 57.895 2.35 2.35 45.33 3.51
565 1488 0.601558 GTCTCACCTGCTAACCGTGA 59.398 55.000 0.00 0.00 35.34 4.35
566 1489 0.389948 GGTCTCACCTGCTAACCGTG 60.390 60.000 0.00 0.00 34.73 4.94
567 1490 1.542187 GGGTCTCACCTGCTAACCGT 61.542 60.000 0.00 0.00 38.64 4.83
568 1491 1.218316 GGGTCTCACCTGCTAACCG 59.782 63.158 0.00 0.00 38.64 4.44
569 1492 1.218316 CGGGTCTCACCTGCTAACC 59.782 63.158 0.00 0.00 37.90 2.85
570 1493 4.913126 CGGGTCTCACCTGCTAAC 57.087 61.111 0.00 0.00 37.90 2.34
576 1499 0.629596 TATCAGGACGGGTCTCACCT 59.370 55.000 0.00 0.00 38.64 4.00
577 1500 1.033574 CTATCAGGACGGGTCTCACC 58.966 60.000 0.00 0.00 37.60 4.02
578 1501 2.054232 TCTATCAGGACGGGTCTCAC 57.946 55.000 0.00 0.00 0.00 3.51
579 1502 2.174854 TCATCTATCAGGACGGGTCTCA 59.825 50.000 0.00 0.00 0.00 3.27
580 1503 2.554893 GTCATCTATCAGGACGGGTCTC 59.445 54.545 0.00 0.00 0.00 3.36
581 1504 2.091830 TGTCATCTATCAGGACGGGTCT 60.092 50.000 0.00 0.00 34.32 3.85
582 1505 2.034812 GTGTCATCTATCAGGACGGGTC 59.965 54.545 0.00 0.00 34.32 4.46
583 1506 2.032620 GTGTCATCTATCAGGACGGGT 58.967 52.381 0.00 0.00 34.32 5.28
584 1507 1.001268 CGTGTCATCTATCAGGACGGG 60.001 57.143 0.00 0.00 34.32 5.28
585 1508 1.676529 ACGTGTCATCTATCAGGACGG 59.323 52.381 0.00 0.00 34.32 4.79
586 1509 2.354821 TCACGTGTCATCTATCAGGACG 59.645 50.000 16.51 0.00 34.32 4.79
587 1510 3.128764 TGTCACGTGTCATCTATCAGGAC 59.871 47.826 16.51 1.75 0.00 3.85
588 1511 3.352648 TGTCACGTGTCATCTATCAGGA 58.647 45.455 16.51 0.00 0.00 3.86
589 1512 3.782889 TGTCACGTGTCATCTATCAGG 57.217 47.619 16.51 0.00 0.00 3.86
590 1513 6.751888 TGTAAATGTCACGTGTCATCTATCAG 59.248 38.462 24.84 0.00 0.00 2.90
591 1514 6.626302 TGTAAATGTCACGTGTCATCTATCA 58.374 36.000 24.84 18.27 0.00 2.15
592 1515 7.520119 TTGTAAATGTCACGTGTCATCTATC 57.480 36.000 24.84 16.46 0.00 2.08
593 1516 7.899178 TTTGTAAATGTCACGTGTCATCTAT 57.101 32.000 24.84 17.19 0.00 1.98
594 1517 7.600752 TGATTTGTAAATGTCACGTGTCATCTA 59.399 33.333 24.84 15.23 0.00 1.98
595 1518 6.426633 TGATTTGTAAATGTCACGTGTCATCT 59.573 34.615 24.84 16.19 0.00 2.90
596 1519 6.519761 GTGATTTGTAAATGTCACGTGTCATC 59.480 38.462 24.84 14.97 33.96 2.92
597 1520 6.017523 TGTGATTTGTAAATGTCACGTGTCAT 60.018 34.615 20.34 20.34 41.73 3.06
598 1521 5.294552 TGTGATTTGTAAATGTCACGTGTCA 59.705 36.000 17.50 17.50 41.73 3.58
599 1522 5.743467 TGTGATTTGTAAATGTCACGTGTC 58.257 37.500 16.51 10.98 41.73 3.67
600 1523 5.743026 TGTGATTTGTAAATGTCACGTGT 57.257 34.783 16.51 0.00 41.73 4.49
601 1524 6.344936 GCTTTGTGATTTGTAAATGTCACGTG 60.345 38.462 9.94 9.94 41.73 4.49
602 1525 5.685511 GCTTTGTGATTTGTAAATGTCACGT 59.314 36.000 0.00 0.00 41.73 4.49
603 1526 5.685068 TGCTTTGTGATTTGTAAATGTCACG 59.315 36.000 0.00 0.00 41.73 4.35
604 1527 7.596248 AGATGCTTTGTGATTTGTAAATGTCAC 59.404 33.333 0.00 0.16 40.26 3.67
605 1528 7.660112 AGATGCTTTGTGATTTGTAAATGTCA 58.340 30.769 0.00 0.00 0.00 3.58
606 1529 9.624697 TTAGATGCTTTGTGATTTGTAAATGTC 57.375 29.630 0.00 0.00 0.00 3.06
613 1536 8.800332 AGAGAAATTAGATGCTTTGTGATTTGT 58.200 29.630 0.00 0.00 0.00 2.83
614 1537 9.286946 GAGAGAAATTAGATGCTTTGTGATTTG 57.713 33.333 0.00 0.00 0.00 2.32
615 1538 8.465201 GGAGAGAAATTAGATGCTTTGTGATTT 58.535 33.333 0.00 0.00 0.00 2.17
616 1539 7.067981 GGGAGAGAAATTAGATGCTTTGTGATT 59.932 37.037 0.00 0.00 0.00 2.57
617 1540 6.545298 GGGAGAGAAATTAGATGCTTTGTGAT 59.455 38.462 0.00 0.00 0.00 3.06
618 1541 5.882557 GGGAGAGAAATTAGATGCTTTGTGA 59.117 40.000 0.00 0.00 0.00 3.58
619 1542 5.067023 GGGGAGAGAAATTAGATGCTTTGTG 59.933 44.000 0.00 0.00 0.00 3.33
620 1543 5.044550 AGGGGAGAGAAATTAGATGCTTTGT 60.045 40.000 0.00 0.00 0.00 2.83
621 1544 5.444176 AGGGGAGAGAAATTAGATGCTTTG 58.556 41.667 0.00 0.00 0.00 2.77
622 1545 5.723860 AGGGGAGAGAAATTAGATGCTTT 57.276 39.130 0.00 0.00 0.00 3.51
623 1546 5.431402 AGAAGGGGAGAGAAATTAGATGCTT 59.569 40.000 0.00 0.00 0.00 3.91
624 1547 4.974501 AGAAGGGGAGAGAAATTAGATGCT 59.025 41.667 0.00 0.00 0.00 3.79
625 1548 5.303259 AGAAGGGGAGAGAAATTAGATGC 57.697 43.478 0.00 0.00 0.00 3.91
626 1549 9.859152 AAATTAGAAGGGGAGAGAAATTAGATG 57.141 33.333 0.00 0.00 0.00 2.90
632 1555 9.467796 CAGTTAAAATTAGAAGGGGAGAGAAAT 57.532 33.333 0.00 0.00 0.00 2.17
633 1556 7.888546 CCAGTTAAAATTAGAAGGGGAGAGAAA 59.111 37.037 0.00 0.00 0.00 2.52
634 1557 7.402862 CCAGTTAAAATTAGAAGGGGAGAGAA 58.597 38.462 0.00 0.00 0.00 2.87
635 1558 6.069615 CCCAGTTAAAATTAGAAGGGGAGAGA 60.070 42.308 0.00 0.00 34.97 3.10
636 1559 6.122964 CCCAGTTAAAATTAGAAGGGGAGAG 58.877 44.000 0.00 0.00 34.97 3.20
637 1560 6.074698 CCCAGTTAAAATTAGAAGGGGAGA 57.925 41.667 0.00 0.00 34.97 3.71
659 1582 1.205417 CACAAAGCATCATTCACCCCC 59.795 52.381 0.00 0.00 0.00 5.40
660 1583 2.170166 TCACAAAGCATCATTCACCCC 58.830 47.619 0.00 0.00 0.00 4.95
661 1584 4.460948 AATCACAAAGCATCATTCACCC 57.539 40.909 0.00 0.00 0.00 4.61
662 1585 5.119588 CACAAATCACAAAGCATCATTCACC 59.880 40.000 0.00 0.00 0.00 4.02
663 1586 5.921976 TCACAAATCACAAAGCATCATTCAC 59.078 36.000 0.00 0.00 0.00 3.18
664 1587 6.086785 TCACAAATCACAAAGCATCATTCA 57.913 33.333 0.00 0.00 0.00 2.57
665 1588 7.453034 CATTCACAAATCACAAAGCATCATTC 58.547 34.615 0.00 0.00 0.00 2.67
666 1589 6.128391 GCATTCACAAATCACAAAGCATCATT 60.128 34.615 0.00 0.00 0.00 2.57
667 1590 5.350365 GCATTCACAAATCACAAAGCATCAT 59.650 36.000 0.00 0.00 0.00 2.45
668 1591 4.687018 GCATTCACAAATCACAAAGCATCA 59.313 37.500 0.00 0.00 0.00 3.07
669 1592 4.092383 GGCATTCACAAATCACAAAGCATC 59.908 41.667 0.00 0.00 0.00 3.91
670 1593 3.998341 GGCATTCACAAATCACAAAGCAT 59.002 39.130 0.00 0.00 0.00 3.79
671 1594 3.181468 TGGCATTCACAAATCACAAAGCA 60.181 39.130 0.00 0.00 0.00 3.91
672 1595 3.184986 GTGGCATTCACAAATCACAAAGC 59.815 43.478 0.00 0.00 45.39 3.51
673 1596 3.426191 CGTGGCATTCACAAATCACAAAG 59.574 43.478 0.00 0.00 46.36 2.77
674 1597 3.181482 ACGTGGCATTCACAAATCACAAA 60.181 39.130 0.00 0.00 46.36 2.83
675 1598 2.360483 ACGTGGCATTCACAAATCACAA 59.640 40.909 0.00 0.00 46.36 3.33
676 1599 1.952990 ACGTGGCATTCACAAATCACA 59.047 42.857 0.00 0.00 46.36 3.58
677 1600 2.287547 ACACGTGGCATTCACAAATCAC 60.288 45.455 21.57 0.00 46.36 3.06
678 1601 1.952990 ACACGTGGCATTCACAAATCA 59.047 42.857 21.57 0.00 46.36 2.57
679 1602 2.031245 TGACACGTGGCATTCACAAATC 60.031 45.455 23.03 3.54 46.36 2.17
680 1603 1.952990 TGACACGTGGCATTCACAAAT 59.047 42.857 23.03 0.00 46.36 2.32
681 1604 1.383523 TGACACGTGGCATTCACAAA 58.616 45.000 23.03 0.00 46.36 2.83
682 1605 1.535028 GATGACACGTGGCATTCACAA 59.465 47.619 36.07 8.22 45.42 3.33
683 1606 1.155889 GATGACACGTGGCATTCACA 58.844 50.000 36.07 9.07 45.42 3.58
684 1607 0.447801 GGATGACACGTGGCATTCAC 59.552 55.000 36.07 24.74 45.42 3.18
685 1608 0.036022 TGGATGACACGTGGCATTCA 59.964 50.000 36.64 36.64 46.54 2.57
686 1609 1.331756 GATGGATGACACGTGGCATTC 59.668 52.381 36.07 34.16 45.42 2.67
687 1610 1.339920 TGATGGATGACACGTGGCATT 60.340 47.619 36.07 22.11 45.42 3.56
689 1612 0.036022 TTGATGGATGACACGTGGCA 59.964 50.000 29.28 29.28 37.54 4.92
690 1613 0.729116 CTTGATGGATGACACGTGGC 59.271 55.000 21.57 19.24 0.00 5.01
691 1614 2.385013 TCTTGATGGATGACACGTGG 57.615 50.000 21.57 1.66 0.00 4.94
692 1615 2.610833 CCATCTTGATGGATGACACGTG 59.389 50.000 21.56 15.48 44.01 4.49
693 1616 2.420547 CCCATCTTGATGGATGACACGT 60.421 50.000 26.19 0.00 44.01 4.49
694 1617 2.216046 CCCATCTTGATGGATGACACG 58.784 52.381 26.19 7.99 44.01 4.49
695 1618 3.118112 AGACCCATCTTGATGGATGACAC 60.118 47.826 26.19 12.60 44.01 3.67
696 1619 3.117745 AGACCCATCTTGATGGATGACA 58.882 45.455 26.19 0.00 44.01 3.58
697 1620 3.737850 GAGACCCATCTTGATGGATGAC 58.262 50.000 26.19 13.34 44.01 3.06
698 1621 2.366590 CGAGACCCATCTTGATGGATGA 59.633 50.000 26.19 0.00 44.01 2.92
699 1622 2.763933 CGAGACCCATCTTGATGGATG 58.236 52.381 26.19 15.20 44.39 3.51
700 1623 1.071385 GCGAGACCCATCTTGATGGAT 59.929 52.381 26.19 13.41 44.39 3.41
701 1624 0.465705 GCGAGACCCATCTTGATGGA 59.534 55.000 26.19 0.00 44.39 3.41
702 1625 0.178767 TGCGAGACCCATCTTGATGG 59.821 55.000 19.73 19.73 38.51 3.51
703 1626 1.871676 CATGCGAGACCCATCTTGATG 59.128 52.381 3.77 3.77 38.51 3.07
704 1627 1.764723 TCATGCGAGACCCATCTTGAT 59.235 47.619 0.00 0.00 38.51 2.57
705 1628 1.137675 CTCATGCGAGACCCATCTTGA 59.862 52.381 0.00 0.00 42.34 3.02
706 1629 1.137675 TCTCATGCGAGACCCATCTTG 59.862 52.381 0.00 0.00 43.55 3.02
707 1630 1.489481 TCTCATGCGAGACCCATCTT 58.511 50.000 0.00 0.00 43.55 2.40
708 1631 3.214023 TCTCATGCGAGACCCATCT 57.786 52.632 0.00 0.00 43.55 2.90
715 1638 0.323816 AGACCAGGTCTCATGCGAGA 60.324 55.000 17.31 0.00 46.28 4.04
716 1639 2.197250 AGACCAGGTCTCATGCGAG 58.803 57.895 17.31 0.00 38.71 5.03
717 1640 4.442038 AGACCAGGTCTCATGCGA 57.558 55.556 17.31 0.00 38.71 5.10
724 1647 2.627217 GGGGTTCTATGAGACCAGGTCT 60.627 54.545 23.18 23.18 46.42 3.85
725 1648 1.763545 GGGGTTCTATGAGACCAGGTC 59.236 57.143 12.25 12.25 0.00 3.85
726 1649 1.080498 TGGGGTTCTATGAGACCAGGT 59.920 52.381 0.00 0.00 0.00 4.00
727 1650 1.879575 TGGGGTTCTATGAGACCAGG 58.120 55.000 0.00 0.00 0.00 4.45
728 1651 3.580458 CCTATGGGGTTCTATGAGACCAG 59.420 52.174 0.00 0.00 0.00 4.00
729 1652 3.587498 CCTATGGGGTTCTATGAGACCA 58.413 50.000 0.00 0.00 0.00 4.02
760 1683 5.278315 GCTTTCTTTTTACTCCACCACGATT 60.278 40.000 0.00 0.00 0.00 3.34
781 1704 1.317613 TTCCTTCATTGCACACGCTT 58.682 45.000 0.00 0.00 39.64 4.68
857 1780 7.924412 TGAGTATATTTCTTACGGCTGGTTTAG 59.076 37.037 0.00 0.00 0.00 1.85
920 1843 6.933521 AGGAAATCTCGAATGGTATGATTCTG 59.066 38.462 0.00 0.00 31.19 3.02
922 1845 7.095017 GGAAGGAAATCTCGAATGGTATGATTC 60.095 40.741 0.00 0.00 0.00 2.52
999 1946 2.475111 CGCGTGCTGGTGTTTATATAGG 59.525 50.000 0.00 0.00 0.00 2.57
1160 2108 3.185299 TTTCTTCCGGCCGCCTGAA 62.185 57.895 22.85 19.09 0.00 3.02
1217 2165 0.673333 ATGGCGCAAACACAGATCGA 60.673 50.000 10.83 0.00 0.00 3.59
1227 2175 0.461870 AGCTCATCGTATGGCGCAAA 60.462 50.000 10.83 0.00 41.07 3.68
1502 2453 5.296780 AGCCGTATTAAGAATCCAACATGTG 59.703 40.000 0.00 0.00 0.00 3.21
1544 2503 1.606668 ACACGACCGCAAAATCAATGT 59.393 42.857 0.00 0.00 0.00 2.71
1559 2545 5.679894 GCTTTATTGATCCTCAGAGACACGA 60.680 44.000 0.00 0.00 0.00 4.35
1622 2611 4.022935 TGTGGTGAGCAATCTTCAAATCAC 60.023 41.667 0.00 0.00 37.04 3.06
1666 2655 3.751479 TGCGTTGTCATAGGCTCATAT 57.249 42.857 0.00 0.00 0.00 1.78
1667 2656 3.535280 TTGCGTTGTCATAGGCTCATA 57.465 42.857 0.00 0.00 0.00 2.15
1697 2686 5.829924 GGATGAATATCAACCCATGTTCACT 59.170 40.000 0.00 0.00 36.90 3.41
1774 2764 9.035607 ACTACAGTCGATCATAATTGCTAAAAG 57.964 33.333 0.00 0.00 0.00 2.27
1874 2877 7.611770 AGGCAAAAAGATAAAATTAGACCCAC 58.388 34.615 0.00 0.00 0.00 4.61
1913 2917 3.239712 GCAAAGTTTCACGAAAAAGGACG 59.760 43.478 0.00 0.00 31.33 4.79
1914 2918 4.031314 GTGCAAAGTTTCACGAAAAAGGAC 59.969 41.667 0.00 0.00 31.33 3.85
2099 3108 7.118723 TGAGAAATTGCAATCCCAGTAATAGT 58.881 34.615 13.38 0.00 0.00 2.12
2136 3145 1.234821 TGTTTGCTGATCCAACGGTC 58.765 50.000 0.00 0.00 0.00 4.79
2148 3157 1.269726 CCGCACAAATCCTTGTTTGCT 60.270 47.619 0.00 0.00 43.45 3.91
2285 3304 6.042777 TGCACACATAACTATAGTTGCTCTC 58.957 40.000 25.27 10.47 38.90 3.20
2314 3333 4.235762 AGCCGCAAGTGTGTCCGT 62.236 61.111 0.00 0.00 0.00 4.69
2325 3344 1.334384 TATAGTTGCCCTCAGCCGCA 61.334 55.000 0.00 0.00 42.71 5.69
2335 3354 3.431922 TCGTGTGTAGCTATAGTTGCC 57.568 47.619 0.00 0.00 0.00 4.52
2338 3357 4.201891 CCGACTTCGTGTGTAGCTATAGTT 60.202 45.833 0.00 0.00 37.74 2.24
2363 3382 1.487231 GTGTACAGTTGCGTGCTCG 59.513 57.895 3.31 3.31 40.37 5.03
2393 3412 2.862921 GCTGTAGACTATAGTTGCGCCC 60.863 54.545 6.88 0.00 0.00 6.13
2433 3452 2.933492 GCACTTGTAGTTGTATGCGGGA 60.933 50.000 0.00 0.00 0.00 5.14
2447 3466 3.493002 CCCAATGACAAATGTGCACTTGT 60.493 43.478 20.71 20.71 38.46 3.16
2451 3470 1.270199 TGCCCAATGACAAATGTGCAC 60.270 47.619 10.75 10.75 0.00 4.57
2484 3503 3.130633 GGAAACAGGGAATGTGCAAAAC 58.869 45.455 0.00 0.00 43.00 2.43
2485 3504 2.103941 GGGAAACAGGGAATGTGCAAAA 59.896 45.455 0.00 0.00 43.00 2.44
2497 3516 1.614317 GGTGACTGATGGGGAAACAGG 60.614 57.143 0.00 0.00 36.17 4.00
2498 3517 1.614317 GGGTGACTGATGGGGAAACAG 60.614 57.143 0.00 0.00 37.62 3.16
2527 3546 3.998341 GCAATTCGTGGACAACCTTACTA 59.002 43.478 0.00 0.00 37.04 1.82
2528 3547 2.812011 GCAATTCGTGGACAACCTTACT 59.188 45.455 0.00 0.00 37.04 2.24
2529 3548 2.412325 CGCAATTCGTGGACAACCTTAC 60.412 50.000 0.00 0.00 37.04 2.34
2530 3549 1.801771 CGCAATTCGTGGACAACCTTA 59.198 47.619 0.00 0.00 37.04 2.69
2531 3550 0.591170 CGCAATTCGTGGACAACCTT 59.409 50.000 0.00 0.00 37.04 3.50
2532 3551 1.852067 GCGCAATTCGTGGACAACCT 61.852 55.000 0.30 0.00 41.07 3.50
2533 3552 1.442017 GCGCAATTCGTGGACAACC 60.442 57.895 0.30 0.00 41.07 3.77
2535 3554 2.553770 CGCGCAATTCGTGGACAA 59.446 55.556 8.75 0.00 44.36 3.18
2546 3565 2.745281 ACTTAAAAATCTAGCCGCGCAA 59.255 40.909 8.75 0.00 0.00 4.85
2549 3568 4.336532 ACAACTTAAAAATCTAGCCGCG 57.663 40.909 0.00 0.00 0.00 6.46


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

AutoCloner maintained by Alex Coulton.