Multiple sequence alignment - TraesCS7A01G400700

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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 TraesCS7A01G400700 chr7A 100.000 3056 0 0 1 3056 580515151 580512096 0.000000e+00 5644
1 TraesCS7A01G400700 chr7A 94.419 663 37 0 1831 2493 267260924 267260262 0.000000e+00 1020
2 TraesCS7A01G400700 chr7D 95.122 2214 73 11 847 3056 509619468 509617286 0.000000e+00 3458
3 TraesCS7A01G400700 chr7D 86.364 374 47 4 1 374 509621036 509620667 3.670000e-109 405
4 TraesCS7A01G400700 chr7D 92.063 126 6 4 472 596 509619587 509619465 1.130000e-39 174
5 TraesCS7A01G400700 chr7B 94.585 1662 67 6 896 2536 537838115 537836456 0.000000e+00 2549
6 TraesCS7A01G400700 chr7B 96.398 472 14 1 2588 3056 537836252 537835781 0.000000e+00 774
7 TraesCS7A01G400700 chr2A 89.734 263 22 4 583 844 636904429 636904687 6.320000e-87 331
8 TraesCS7A01G400700 chr2A 88.550 262 25 4 584 844 232387130 232387387 2.290000e-81 313
9 TraesCS7A01G400700 chr2D 89.354 263 23 4 583 844 491802611 491802869 2.940000e-85 326
10 TraesCS7A01G400700 chr2D 87.938 257 25 5 590 845 82205465 82205214 6.410000e-77 298
11 TraesCS7A01G400700 chr2B 88.550 262 24 5 589 848 339115884 339115627 2.290000e-81 313
12 TraesCS7A01G400700 chr2B 87.938 257 26 4 590 845 413085069 413084817 6.410000e-77 298
13 TraesCS7A01G400700 chr5A 89.020 255 23 4 589 842 675961027 675961277 8.230000e-81 311
14 TraesCS7A01G400700 chr3A 87.687 268 25 7 590 853 694985087 694985350 3.830000e-79 305
15 TraesCS7A01G400700 chr5D 87.037 270 28 6 580 847 135656966 135656702 6.410000e-77 298


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 TraesCS7A01G400700 chr7A 580512096 580515151 3055 True 5644.000000 5644 100.0000 1 3056 1 chr7A.!!$R2 3055
1 TraesCS7A01G400700 chr7A 267260262 267260924 662 True 1020.000000 1020 94.4190 1831 2493 1 chr7A.!!$R1 662
2 TraesCS7A01G400700 chr7D 509617286 509621036 3750 True 1345.666667 3458 91.1830 1 3056 3 chr7D.!!$R1 3055
3 TraesCS7A01G400700 chr7B 537835781 537838115 2334 True 1661.500000 2549 95.4915 896 3056 2 chr7B.!!$R1 2160

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
432 489 0.036765 AACGCGCCAGGTATTTCTCA 60.037 50.0 5.73 0.0 0.0 3.27 F
1197 2213 0.040499 ACGCCTTCTTCCTCCTCTCT 59.960 55.0 0.00 0.0 0.0 3.10 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1762 2781 0.706433 ACCCATCCCACTGCTTCATT 59.294 50.000 0.0 0.0 0.0 2.57 R
2556 3575 2.203773 CCCCCACCCACCCAAAAG 60.204 66.667 0.0 0.0 0.0 2.27 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
32 33 6.982852 TCCGCATGGTTTTTCTTAATTAACA 58.017 32.000 0.00 0.00 36.30 2.41
34 35 6.310224 CCGCATGGTTTTTCTTAATTAACAGG 59.690 38.462 0.00 0.00 0.00 4.00
37 38 6.732896 TGGTTTTTCTTAATTAACAGGGCA 57.267 33.333 0.00 0.00 0.00 5.36
47 48 9.702253 TCTTAATTAACAGGGCAATATGGTTTA 57.298 29.630 0.00 0.00 0.00 2.01
54 55 1.263217 GGCAATATGGTTTACGCTCGG 59.737 52.381 0.00 0.00 0.00 4.63
60 61 2.243602 TGGTTTACGCTCGGTTTTCT 57.756 45.000 0.00 0.00 0.00 2.52
69 70 9.333497 GTTTACGCTCGGTTTTCTTTAATTAAT 57.667 29.630 0.00 0.00 0.00 1.40
71 72 7.136289 ACGCTCGGTTTTCTTTAATTAATCA 57.864 32.000 0.00 0.00 0.00 2.57
74 75 7.253321 CGCTCGGTTTTCTTTAATTAATCAAGC 60.253 37.037 0.00 0.00 0.00 4.01
95 96 7.754924 TCAAGCAACTTTGTTTTCTTAGTGAAG 59.245 33.333 0.00 0.00 35.89 3.02
96 97 6.564328 AGCAACTTTGTTTTCTTAGTGAAGG 58.436 36.000 0.00 0.00 35.89 3.46
100 101 5.067805 ACTTTGTTTTCTTAGTGAAGGCAGG 59.932 40.000 0.00 0.00 35.89 4.85
107 108 5.804446 TTTCTTAGTGAAGGCAGGAATCCTG 60.804 44.000 24.33 24.33 43.82 3.86
142 143 1.878953 AAATGCGTCGAGTTGGTTCT 58.121 45.000 0.00 0.00 0.00 3.01
153 154 5.573669 GTCGAGTTGGTTCTAGTCAATTCTC 59.426 44.000 12.57 8.78 30.62 2.87
162 163 2.638556 AGTCAATTCTCTCGACCACG 57.361 50.000 0.00 0.00 41.26 4.94
173 174 2.159379 TCTCGACCACGTTCATGAGATG 60.159 50.000 0.00 0.00 40.69 2.90
174 175 1.135112 TCGACCACGTTCATGAGATGG 60.135 52.381 16.44 16.44 40.69 3.51
176 177 0.324614 ACCACGTTCATGAGATGGCA 59.675 50.000 17.47 0.00 33.46 4.92
182 183 0.106868 TTCATGAGATGGCAGGCTGG 60.107 55.000 17.64 0.00 0.00 4.85
184 185 1.101635 CATGAGATGGCAGGCTGGTG 61.102 60.000 17.64 0.00 0.00 4.17
187 188 1.992519 GAGATGGCAGGCTGGTGGAT 61.993 60.000 17.64 0.00 0.00 3.41
193 194 4.052518 AGGCTGGTGGATGTGGGC 62.053 66.667 0.00 0.00 0.00 5.36
212 213 3.942115 GGGCCTGACTAAGAAATCAAGTC 59.058 47.826 0.84 8.28 40.05 3.01
226 227 7.591165 AGAAATCAAGTCATGTGTCATTCTTG 58.409 34.615 13.15 13.15 35.21 3.02
250 251 9.522804 TTGTGTTATTTCTTTTTCGCATTAACT 57.477 25.926 0.00 0.00 0.00 2.24
251 252 9.522804 TGTGTTATTTCTTTTTCGCATTAACTT 57.477 25.926 0.00 0.00 0.00 2.66
270 271 2.743636 TTTTGTTTGGCCACGAAACA 57.256 40.000 15.91 15.91 40.65 2.83
272 273 2.969628 TTGTTTGGCCACGAAACAAT 57.030 40.000 24.00 0.00 44.46 2.71
283 284 4.979197 GCCACGAAACAATTTATGTGTTGA 59.021 37.500 0.00 0.00 42.99 3.18
301 302 1.063031 GAACGCTTGGAGCAATTTGC 58.937 50.000 13.55 13.55 42.58 3.68
315 316 2.169769 CAATTTGCAGCCCATCCTTCAT 59.830 45.455 0.00 0.00 0.00 2.57
316 317 1.941377 TTTGCAGCCCATCCTTCATT 58.059 45.000 0.00 0.00 0.00 2.57
317 318 1.941377 TTGCAGCCCATCCTTCATTT 58.059 45.000 0.00 0.00 0.00 2.32
365 421 6.085555 TGTTCACACACCTTGTTTGTTTTA 57.914 33.333 0.00 0.00 35.67 1.52
370 426 7.199766 TCACACACCTTGTTTGTTTTATCATC 58.800 34.615 0.00 0.00 35.67 2.92
400 456 9.511144 AGCACCTATTTACGCATTTATTTTAAC 57.489 29.630 0.00 0.00 0.00 2.01
401 457 9.291664 GCACCTATTTACGCATTTATTTTAACA 57.708 29.630 0.00 0.00 0.00 2.41
409 465 9.798885 TTACGCATTTATTTTAACACAATTTGC 57.201 25.926 0.00 0.00 0.00 3.68
410 466 7.855545 ACGCATTTATTTTAACACAATTTGCA 58.144 26.923 0.00 0.00 0.00 4.08
412 468 7.268023 CGCATTTATTTTAACACAATTTGCACC 59.732 33.333 0.00 0.00 0.00 5.01
413 469 8.072567 GCATTTATTTTAACACAATTTGCACCA 58.927 29.630 0.00 0.00 0.00 4.17
414 470 9.941664 CATTTATTTTAACACAATTTGCACCAA 57.058 25.926 0.00 0.00 0.00 3.67
415 471 9.943163 ATTTATTTTAACACAATTTGCACCAAC 57.057 25.926 0.00 0.00 0.00 3.77
416 472 5.456192 TTTTAACACAATTTGCACCAACG 57.544 34.783 0.00 0.00 0.00 4.10
420 477 2.355718 AATTTGCACCAACGCGCC 60.356 55.556 5.73 0.00 33.35 6.53
432 489 0.036765 AACGCGCCAGGTATTTCTCA 60.037 50.000 5.73 0.00 0.00 3.27
433 490 0.178068 ACGCGCCAGGTATTTCTCAT 59.822 50.000 5.73 0.00 0.00 2.90
435 492 2.061773 CGCGCCAGGTATTTCTCATAG 58.938 52.381 0.00 0.00 0.00 2.23
467 524 4.025647 CGATAGAGAAATCCGAAAACTGCC 60.026 45.833 0.00 0.00 39.76 4.85
468 525 3.425162 AGAGAAATCCGAAAACTGCCT 57.575 42.857 0.00 0.00 0.00 4.75
469 526 4.553330 AGAGAAATCCGAAAACTGCCTA 57.447 40.909 0.00 0.00 0.00 3.93
470 527 4.906618 AGAGAAATCCGAAAACTGCCTAA 58.093 39.130 0.00 0.00 0.00 2.69
476 1459 8.581578 AGAAATCCGAAAACTGCCTAAATTTAA 58.418 29.630 0.00 0.00 0.00 1.52
507 1491 9.293404 CACCCTATTCTTGATAATGTGAATCAT 57.707 33.333 0.00 0.00 38.57 2.45
549 1533 4.154375 GGTCGTGGAATTTCTCTCTTTTCC 59.846 45.833 0.00 0.00 38.48 3.13
555 1539 7.148641 GTGGAATTTCTCTCTTTTCCCTTTTC 58.851 38.462 0.00 0.00 37.43 2.29
571 1555 7.232552 TCCCTTTTCATATGATTTTCCCCTA 57.767 36.000 6.17 0.00 0.00 3.53
628 1612 5.885449 AAAAACCCAAATGGACAGATTCA 57.115 34.783 0.00 0.00 37.39 2.57
629 1613 5.885449 AAAACCCAAATGGACAGATTCAA 57.115 34.783 0.00 0.00 37.39 2.69
630 1614 4.871933 AACCCAAATGGACAGATTCAAC 57.128 40.909 0.00 0.00 37.39 3.18
631 1615 3.843422 ACCCAAATGGACAGATTCAACA 58.157 40.909 0.00 0.00 37.39 3.33
632 1616 4.222336 ACCCAAATGGACAGATTCAACAA 58.778 39.130 0.00 0.00 37.39 2.83
633 1617 4.653341 ACCCAAATGGACAGATTCAACAAA 59.347 37.500 0.00 0.00 37.39 2.83
634 1618 5.307716 ACCCAAATGGACAGATTCAACAAAT 59.692 36.000 0.00 0.00 37.39 2.32
635 1619 5.870978 CCCAAATGGACAGATTCAACAAATC 59.129 40.000 0.00 0.00 39.94 2.17
636 1620 5.870978 CCAAATGGACAGATTCAACAAATCC 59.129 40.000 0.00 0.00 40.25 3.01
637 1621 5.665916 AATGGACAGATTCAACAAATCCC 57.334 39.130 0.00 0.00 44.20 3.85
638 1622 3.081061 TGGACAGATTCAACAAATCCCG 58.919 45.455 0.00 0.00 44.20 5.14
639 1623 3.244735 TGGACAGATTCAACAAATCCCGA 60.245 43.478 0.00 0.00 44.20 5.14
640 1624 3.127030 GGACAGATTCAACAAATCCCGAC 59.873 47.826 0.00 0.00 44.20 4.79
641 1625 3.081804 ACAGATTCAACAAATCCCGACC 58.918 45.455 0.00 0.00 44.20 4.79
642 1626 3.081061 CAGATTCAACAAATCCCGACCA 58.919 45.455 0.00 0.00 44.20 4.02
643 1627 3.696051 CAGATTCAACAAATCCCGACCAT 59.304 43.478 0.00 0.00 44.20 3.55
644 1628 3.947834 AGATTCAACAAATCCCGACCATC 59.052 43.478 0.00 0.00 44.20 3.51
645 1629 2.869101 TCAACAAATCCCGACCATCA 57.131 45.000 0.00 0.00 0.00 3.07
646 1630 3.147553 TCAACAAATCCCGACCATCAA 57.852 42.857 0.00 0.00 0.00 2.57
647 1631 3.491342 TCAACAAATCCCGACCATCAAA 58.509 40.909 0.00 0.00 0.00 2.69
648 1632 4.085733 TCAACAAATCCCGACCATCAAAT 58.914 39.130 0.00 0.00 0.00 2.32
649 1633 4.157656 TCAACAAATCCCGACCATCAAATC 59.842 41.667 0.00 0.00 0.00 2.17
650 1634 3.968265 ACAAATCCCGACCATCAAATCT 58.032 40.909 0.00 0.00 0.00 2.40
651 1635 3.696051 ACAAATCCCGACCATCAAATCTG 59.304 43.478 0.00 0.00 0.00 2.90
652 1636 2.645838 ATCCCGACCATCAAATCTGG 57.354 50.000 0.00 0.00 39.80 3.86
662 1646 6.029346 ACCATCAAATCTGGTCAATCAAAC 57.971 37.500 0.00 0.00 43.59 2.93
663 1647 5.097529 CCATCAAATCTGGTCAATCAAACG 58.902 41.667 0.00 0.00 0.00 3.60
664 1648 5.106197 CCATCAAATCTGGTCAATCAAACGA 60.106 40.000 0.00 0.00 0.00 3.85
665 1649 5.356882 TCAAATCTGGTCAATCAAACGAC 57.643 39.130 0.00 0.00 0.00 4.34
666 1650 5.063204 TCAAATCTGGTCAATCAAACGACT 58.937 37.500 0.00 0.00 32.57 4.18
667 1651 5.049474 TCAAATCTGGTCAATCAAACGACTG 60.049 40.000 0.00 0.00 32.57 3.51
668 1652 3.744238 TCTGGTCAATCAAACGACTGA 57.256 42.857 0.00 0.00 32.57 3.41
669 1653 3.653344 TCTGGTCAATCAAACGACTGAG 58.347 45.455 0.00 0.00 32.57 3.35
670 1654 3.320826 TCTGGTCAATCAAACGACTGAGA 59.679 43.478 0.00 0.00 32.57 3.27
671 1655 3.390135 TGGTCAATCAAACGACTGAGAC 58.610 45.455 0.00 0.00 32.57 3.36
672 1656 3.069586 TGGTCAATCAAACGACTGAGACT 59.930 43.478 0.00 0.00 32.57 3.24
673 1657 3.430218 GGTCAATCAAACGACTGAGACTG 59.570 47.826 0.00 0.00 32.57 3.51
674 1658 3.059884 TCAATCAAACGACTGAGACTGC 58.940 45.455 0.00 0.00 0.00 4.40
675 1659 3.062763 CAATCAAACGACTGAGACTGCT 58.937 45.455 0.00 0.00 0.00 4.24
676 1660 2.423926 TCAAACGACTGAGACTGCTC 57.576 50.000 0.00 0.00 41.67 4.26
677 1661 1.000163 TCAAACGACTGAGACTGCTCC 60.000 52.381 0.00 0.00 40.55 4.70
678 1662 1.040646 AAACGACTGAGACTGCTCCA 58.959 50.000 0.00 0.00 40.55 3.86
679 1663 1.040646 AACGACTGAGACTGCTCCAA 58.959 50.000 0.00 0.00 40.55 3.53
680 1664 1.261480 ACGACTGAGACTGCTCCAAT 58.739 50.000 0.00 0.00 40.55 3.16
681 1665 1.067283 ACGACTGAGACTGCTCCAATG 60.067 52.381 0.00 0.00 40.55 2.82
682 1666 1.203287 CGACTGAGACTGCTCCAATGA 59.797 52.381 0.00 0.00 40.55 2.57
683 1667 2.159128 CGACTGAGACTGCTCCAATGAT 60.159 50.000 0.00 0.00 40.55 2.45
684 1668 3.196463 GACTGAGACTGCTCCAATGATG 58.804 50.000 0.00 0.00 40.55 3.07
685 1669 2.836372 ACTGAGACTGCTCCAATGATGA 59.164 45.455 0.00 0.00 40.55 2.92
686 1670 3.118702 ACTGAGACTGCTCCAATGATGAG 60.119 47.826 0.00 0.00 40.55 2.90
690 1674 4.137879 GCTCCAATGATGAGCGCT 57.862 55.556 11.27 11.27 45.05 5.92
691 1675 1.940334 GCTCCAATGATGAGCGCTC 59.060 57.895 30.42 30.42 45.05 5.03
692 1676 0.812811 GCTCCAATGATGAGCGCTCA 60.813 55.000 39.63 39.63 45.05 4.26
693 1677 1.660167 CTCCAATGATGAGCGCTCAA 58.340 50.000 40.83 27.59 43.58 3.02
694 1678 1.329906 CTCCAATGATGAGCGCTCAAC 59.670 52.381 40.83 36.83 43.58 3.18
695 1679 1.089112 CCAATGATGAGCGCTCAACA 58.911 50.000 40.56 40.56 44.50 3.33
698 1682 2.034104 ATGATGAGCGCTCAACATGT 57.966 45.000 43.63 30.83 46.67 3.21
699 1683 1.812235 TGATGAGCGCTCAACATGTT 58.188 45.000 40.83 25.29 43.58 2.71
700 1684 2.153645 TGATGAGCGCTCAACATGTTT 58.846 42.857 40.83 24.53 43.58 2.83
701 1685 3.333804 TGATGAGCGCTCAACATGTTTA 58.666 40.909 40.83 20.01 43.58 2.01
702 1686 3.371898 TGATGAGCGCTCAACATGTTTAG 59.628 43.478 40.83 14.27 43.58 1.85
703 1687 2.766313 TGAGCGCTCAACATGTTTAGT 58.234 42.857 36.62 0.00 36.53 2.24
704 1688 2.480037 TGAGCGCTCAACATGTTTAGTG 59.520 45.455 36.62 23.06 36.53 2.74
705 1689 2.480419 GAGCGCTCAACATGTTTAGTGT 59.520 45.455 31.91 16.75 29.68 3.55
706 1690 3.659786 AGCGCTCAACATGTTTAGTGTA 58.340 40.909 26.06 3.66 29.68 2.90
707 1691 3.432252 AGCGCTCAACATGTTTAGTGTAC 59.568 43.478 26.06 15.23 29.68 2.90
708 1692 3.185594 GCGCTCAACATGTTTAGTGTACA 59.814 43.478 26.06 0.00 29.68 2.90
709 1693 4.666655 GCGCTCAACATGTTTAGTGTACAG 60.667 45.833 26.06 7.58 29.68 2.74
710 1694 4.447724 CGCTCAACATGTTTAGTGTACAGT 59.552 41.667 20.34 8.55 0.00 3.55
711 1695 5.050363 CGCTCAACATGTTTAGTGTACAGTT 60.050 40.000 20.34 0.00 0.00 3.16
712 1696 6.144886 CGCTCAACATGTTTAGTGTACAGTTA 59.855 38.462 20.34 0.00 0.00 2.24
713 1697 7.306925 CGCTCAACATGTTTAGTGTACAGTTAA 60.307 37.037 20.34 3.01 0.00 2.01
714 1698 8.504005 GCTCAACATGTTTAGTGTACAGTTAAT 58.496 33.333 18.53 0.00 0.00 1.40
740 1724 7.922505 TCATACAAAATATTAACGCCAATGC 57.077 32.000 0.00 0.00 0.00 3.56
741 1725 7.711846 TCATACAAAATATTAACGCCAATGCT 58.288 30.769 0.00 0.00 34.43 3.79
742 1726 8.841300 TCATACAAAATATTAACGCCAATGCTA 58.159 29.630 0.00 0.00 34.43 3.49
743 1727 9.457110 CATACAAAATATTAACGCCAATGCTAA 57.543 29.630 0.00 0.00 34.43 3.09
745 1729 8.574196 ACAAAATATTAACGCCAATGCTAATC 57.426 30.769 0.00 0.00 34.43 1.75
746 1730 8.194104 ACAAAATATTAACGCCAATGCTAATCA 58.806 29.630 0.00 0.00 34.43 2.57
747 1731 8.479280 CAAAATATTAACGCCAATGCTAATCAC 58.521 33.333 0.00 0.00 34.43 3.06
748 1732 6.875948 ATATTAACGCCAATGCTAATCACA 57.124 33.333 0.00 0.00 34.43 3.58
749 1733 5.772825 ATTAACGCCAATGCTAATCACAT 57.227 34.783 0.00 0.00 34.43 3.21
750 1734 6.875948 ATTAACGCCAATGCTAATCACATA 57.124 33.333 0.00 0.00 34.43 2.29
751 1735 4.552166 AACGCCAATGCTAATCACATAC 57.448 40.909 0.00 0.00 34.43 2.39
752 1736 3.808728 ACGCCAATGCTAATCACATACT 58.191 40.909 0.00 0.00 34.43 2.12
753 1737 4.199310 ACGCCAATGCTAATCACATACTT 58.801 39.130 0.00 0.00 34.43 2.24
754 1738 5.364778 ACGCCAATGCTAATCACATACTTA 58.635 37.500 0.00 0.00 34.43 2.24
755 1739 5.820423 ACGCCAATGCTAATCACATACTTAA 59.180 36.000 0.00 0.00 34.43 1.85
756 1740 6.486657 ACGCCAATGCTAATCACATACTTAAT 59.513 34.615 0.00 0.00 34.43 1.40
757 1741 7.659799 ACGCCAATGCTAATCACATACTTAATA 59.340 33.333 0.00 0.00 34.43 0.98
758 1742 7.957484 CGCCAATGCTAATCACATACTTAATAC 59.043 37.037 0.00 0.00 34.43 1.89
759 1743 7.957484 GCCAATGCTAATCACATACTTAATACG 59.043 37.037 0.00 0.00 33.53 3.06
760 1744 7.957484 CCAATGCTAATCACATACTTAATACGC 59.043 37.037 0.00 0.00 0.00 4.42
761 1745 8.495148 CAATGCTAATCACATACTTAATACGCA 58.505 33.333 0.00 0.00 0.00 5.24
762 1746 8.601845 ATGCTAATCACATACTTAATACGCAA 57.398 30.769 0.00 0.00 0.00 4.85
763 1747 8.426881 TGCTAATCACATACTTAATACGCAAA 57.573 30.769 0.00 0.00 0.00 3.68
764 1748 9.051679 TGCTAATCACATACTTAATACGCAAAT 57.948 29.630 0.00 0.00 0.00 2.32
776 1760 9.918630 ACTTAATACGCAAATAATATCGTACCT 57.081 29.630 0.00 0.00 39.71 3.08
826 1810 7.745620 ACCTATTAGTATTAAGGTGCATTGC 57.254 36.000 0.46 0.46 40.83 3.56
827 1811 7.287061 ACCTATTAGTATTAAGGTGCATTGCA 58.713 34.615 7.38 7.38 40.83 4.08
828 1812 7.445402 ACCTATTAGTATTAAGGTGCATTGCAG 59.555 37.037 12.53 0.00 40.83 4.41
829 1813 6.639632 ATTAGTATTAAGGTGCATTGCAGG 57.360 37.500 12.53 0.00 40.08 4.85
830 1814 3.968265 AGTATTAAGGTGCATTGCAGGT 58.032 40.909 12.53 2.75 40.08 4.00
831 1815 5.110814 AGTATTAAGGTGCATTGCAGGTA 57.889 39.130 12.53 1.73 40.08 3.08
832 1816 4.881850 AGTATTAAGGTGCATTGCAGGTAC 59.118 41.667 12.53 8.76 40.08 3.34
833 1817 2.869101 TAAGGTGCATTGCAGGTACA 57.131 45.000 12.53 0.00 40.08 2.90
834 1818 1.247567 AAGGTGCATTGCAGGTACAC 58.752 50.000 12.53 0.00 40.08 2.90
835 1819 0.110295 AGGTGCATTGCAGGTACACA 59.890 50.000 12.53 0.00 40.08 3.72
836 1820 0.240945 GGTGCATTGCAGGTACACAC 59.759 55.000 12.53 0.00 40.08 3.82
837 1821 1.238439 GTGCATTGCAGGTACACACT 58.762 50.000 12.53 0.00 40.08 3.55
838 1822 2.422597 GTGCATTGCAGGTACACACTA 58.577 47.619 12.53 0.00 40.08 2.74
839 1823 2.159627 GTGCATTGCAGGTACACACTAC 59.840 50.000 12.53 0.00 40.08 2.73
840 1824 2.038426 TGCATTGCAGGTACACACTACT 59.962 45.455 7.38 0.00 33.32 2.57
841 1825 3.259625 TGCATTGCAGGTACACACTACTA 59.740 43.478 7.38 0.00 33.32 1.82
842 1826 3.865745 GCATTGCAGGTACACACTACTAG 59.134 47.826 3.15 0.00 0.00 2.57
843 1827 4.620803 GCATTGCAGGTACACACTACTAGT 60.621 45.833 3.15 0.00 0.00 2.57
844 1828 5.479306 CATTGCAGGTACACACTACTAGTT 58.521 41.667 0.00 0.00 0.00 2.24
845 1829 5.540400 TTGCAGGTACACACTACTAGTTT 57.460 39.130 0.00 0.00 0.00 2.66
846 1830 5.540400 TGCAGGTACACACTACTAGTTTT 57.460 39.130 0.00 0.00 0.00 2.43
847 1831 6.653526 TGCAGGTACACACTACTAGTTTTA 57.346 37.500 0.00 0.00 0.00 1.52
848 1832 7.235935 TGCAGGTACACACTACTAGTTTTAT 57.764 36.000 0.00 0.00 0.00 1.40
849 1833 8.352137 TGCAGGTACACACTACTAGTTTTATA 57.648 34.615 0.00 0.00 0.00 0.98
850 1834 8.974238 TGCAGGTACACACTACTAGTTTTATAT 58.026 33.333 0.00 0.00 0.00 0.86
892 1876 2.418083 GCCTACATGCCAACCAGCC 61.418 63.158 0.00 0.00 0.00 4.85
912 1897 3.115556 CCTTCTCGCTCCTCCTCG 58.884 66.667 0.00 0.00 0.00 4.63
1197 2213 0.040499 ACGCCTTCTTCCTCCTCTCT 59.960 55.000 0.00 0.00 0.00 3.10
1282 2298 2.507944 CATCTTGCCCTCCCCTCG 59.492 66.667 0.00 0.00 0.00 4.63
1396 2415 2.122729 CACCCTCACCCTCCTCCA 59.877 66.667 0.00 0.00 0.00 3.86
1397 2416 2.122954 ACCCTCACCCTCCTCCAC 59.877 66.667 0.00 0.00 0.00 4.02
1398 2417 2.689034 CCCTCACCCTCCTCCACC 60.689 72.222 0.00 0.00 0.00 4.61
1530 2549 1.358046 GCTGCCATTTGCGATCCTC 59.642 57.895 0.00 0.00 45.60 3.71
1550 2569 4.465512 CAATGCTGCGGTCGCCAC 62.466 66.667 12.94 5.42 41.09 5.01
1653 2672 2.703798 GCCAGTTGTGATGCCGCAT 61.704 57.895 5.28 5.28 32.17 4.73
1704 2723 2.499693 TGATGATCGGCTGTTCTTGGTA 59.500 45.455 5.25 0.00 0.00 3.25
1762 2781 1.034838 GGTGTGGCAGTTGGACAACA 61.035 55.000 16.58 0.00 43.47 3.33
1764 2783 1.408702 GTGTGGCAGTTGGACAACAAT 59.591 47.619 16.58 0.00 43.47 2.71
1767 2786 2.100584 GTGGCAGTTGGACAACAATGAA 59.899 45.455 16.58 0.00 43.47 2.57
2025 3044 3.138798 GAGCCAGGCGTCGACCTA 61.139 66.667 10.58 0.00 38.26 3.08
2079 3098 4.038642 GGTTGTTTTCTTGGCCTTCATGTA 59.961 41.667 3.32 0.00 0.00 2.29
2191 3210 4.001618 TGCTCCAAAAATAAAGCAACCC 57.998 40.909 0.00 0.00 41.50 4.11
2346 3365 5.726397 CAAATTTCTGCATCAATCTTCCCA 58.274 37.500 0.00 0.00 0.00 4.37
2537 3556 7.243604 TCACATAAGCTCAAAATTTCCCAAT 57.756 32.000 0.00 0.00 0.00 3.16
2556 3575 8.770438 TCCCAATAATTTTATGTGCAGTTTTC 57.230 30.769 0.00 0.00 0.00 2.29
2563 3582 6.917217 TTTTATGTGCAGTTTTCTTTTGGG 57.083 33.333 0.00 0.00 0.00 4.12
2564 3583 5.606348 TTATGTGCAGTTTTCTTTTGGGT 57.394 34.783 0.00 0.00 0.00 4.51
2565 3584 3.244033 TGTGCAGTTTTCTTTTGGGTG 57.756 42.857 0.00 0.00 0.00 4.61
2566 3585 2.093764 TGTGCAGTTTTCTTTTGGGTGG 60.094 45.455 0.00 0.00 0.00 4.61
2567 3586 1.484240 TGCAGTTTTCTTTTGGGTGGG 59.516 47.619 0.00 0.00 0.00 4.61
2568 3587 1.484653 GCAGTTTTCTTTTGGGTGGGT 59.515 47.619 0.00 0.00 0.00 4.51
2569 3588 2.741553 GCAGTTTTCTTTTGGGTGGGTG 60.742 50.000 0.00 0.00 0.00 4.61
2570 3589 2.115427 AGTTTTCTTTTGGGTGGGTGG 58.885 47.619 0.00 0.00 0.00 4.61
2571 3590 1.140052 GTTTTCTTTTGGGTGGGTGGG 59.860 52.381 0.00 0.00 0.00 4.61
2572 3591 0.399233 TTTCTTTTGGGTGGGTGGGG 60.399 55.000 0.00 0.00 0.00 4.96
2573 3592 2.203773 CTTTTGGGTGGGTGGGGG 60.204 66.667 0.00 0.00 0.00 5.40
2574 3593 3.036959 TTTTGGGTGGGTGGGGGT 61.037 61.111 0.00 0.00 0.00 4.95
2575 3594 3.396822 TTTTGGGTGGGTGGGGGTG 62.397 63.158 0.00 0.00 0.00 4.61
2650 3821 2.621407 CCCTCAACATTAGGTGGCACAT 60.621 50.000 20.82 15.91 44.52 3.21
2765 3939 8.642020 GTTTCTTCATGTATTTTTGCTGATGTC 58.358 33.333 0.00 0.00 0.00 3.06
2812 3986 9.905713 TCTATATAATGGGCCATTTAGTCATTC 57.094 33.333 34.78 0.00 35.54 2.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 6.982852 TGTTAATTAAGAAAAACCATGCGGA 58.017 32.000 0.00 0.00 35.59 5.54
11 12 6.092122 GCCCTGTTAATTAAGAAAAACCATGC 59.908 38.462 0.00 0.00 0.00 4.06
14 15 6.732896 TGCCCTGTTAATTAAGAAAAACCA 57.267 33.333 0.00 0.00 0.00 3.67
32 33 2.572290 GAGCGTAAACCATATTGCCCT 58.428 47.619 0.00 0.00 0.00 5.19
34 35 1.263217 CCGAGCGTAAACCATATTGCC 59.737 52.381 0.00 0.00 0.00 4.52
37 38 4.939439 AGAAAACCGAGCGTAAACCATATT 59.061 37.500 0.00 0.00 0.00 1.28
47 48 7.136289 TGATTAATTAAAGAAAACCGAGCGT 57.864 32.000 1.21 0.00 0.00 5.07
69 70 7.151999 TCACTAAGAAAACAAAGTTGCTTGA 57.848 32.000 7.90 0.00 0.00 3.02
71 72 7.035612 CCTTCACTAAGAAAACAAAGTTGCTT 58.964 34.615 0.00 0.00 35.40 3.91
74 75 6.329496 TGCCTTCACTAAGAAAACAAAGTTG 58.671 36.000 0.00 0.00 35.40 3.16
79 80 4.787551 TCCTGCCTTCACTAAGAAAACAA 58.212 39.130 0.00 0.00 35.40 2.83
81 82 5.106118 GGATTCCTGCCTTCACTAAGAAAAC 60.106 44.000 0.00 0.00 35.40 2.43
125 126 1.544691 ACTAGAACCAACTCGACGCAT 59.455 47.619 0.00 0.00 0.00 4.73
126 127 0.956633 ACTAGAACCAACTCGACGCA 59.043 50.000 0.00 0.00 0.00 5.24
127 128 1.068748 TGACTAGAACCAACTCGACGC 60.069 52.381 0.00 0.00 0.00 5.19
128 129 2.983402 TGACTAGAACCAACTCGACG 57.017 50.000 0.00 0.00 0.00 5.12
129 130 5.471257 AGAATTGACTAGAACCAACTCGAC 58.529 41.667 0.00 0.00 0.00 4.20
131 132 5.715070 AGAGAATTGACTAGAACCAACTCG 58.285 41.667 0.00 0.00 0.00 4.18
132 133 5.802956 CGAGAGAATTGACTAGAACCAACTC 59.197 44.000 0.00 0.00 0.00 3.01
133 134 5.477291 TCGAGAGAATTGACTAGAACCAACT 59.523 40.000 0.00 0.00 37.03 3.16
142 143 3.079578 ACGTGGTCGAGAGAATTGACTA 58.920 45.455 0.00 0.00 45.01 2.59
153 154 2.188524 CATCTCATGAACGTGGTCGAG 58.811 52.381 0.00 0.00 40.62 4.04
162 163 1.022735 CAGCCTGCCATCTCATGAAC 58.977 55.000 0.00 0.00 0.00 3.18
173 174 2.753043 CACATCCACCAGCCTGCC 60.753 66.667 0.00 0.00 0.00 4.85
174 175 2.753043 CCACATCCACCAGCCTGC 60.753 66.667 0.00 0.00 0.00 4.85
176 177 4.052518 GCCCACATCCACCAGCCT 62.053 66.667 0.00 0.00 0.00 4.58
182 183 0.618458 TTAGTCAGGCCCACATCCAC 59.382 55.000 0.00 0.00 0.00 4.02
184 185 1.204146 TCTTAGTCAGGCCCACATCC 58.796 55.000 0.00 0.00 0.00 3.51
187 188 2.642311 TGATTTCTTAGTCAGGCCCACA 59.358 45.455 0.00 0.00 0.00 4.17
212 213 9.467258 AAAGAAATAACACAAGAATGACACATG 57.533 29.630 0.00 0.00 0.00 3.21
241 242 3.557595 TGGCCAAACAAAAAGTTAATGCG 59.442 39.130 0.61 0.00 40.26 4.73
250 251 3.040147 TGTTTCGTGGCCAAACAAAAA 57.960 38.095 17.24 5.24 40.08 1.94
251 252 2.743636 TGTTTCGTGGCCAAACAAAA 57.256 40.000 17.24 8.61 40.08 2.44
270 271 5.446143 TCCAAGCGTTCAACACATAAATT 57.554 34.783 0.00 0.00 0.00 1.82
272 273 3.304391 GCTCCAAGCGTTCAACACATAAA 60.304 43.478 0.00 0.00 0.00 1.40
283 284 0.388659 TGCAAATTGCTCCAAGCGTT 59.611 45.000 19.34 0.00 46.26 4.84
327 328 8.952278 GGTGTGTGAACAACAGGATATATAAAA 58.048 33.333 0.00 0.00 40.26 1.52
337 338 2.091541 ACAAGGTGTGTGAACAACAGG 58.908 47.619 0.00 0.00 40.26 4.00
365 421 6.288294 TGCGTAAATAGGTGCTAAAGATGAT 58.712 36.000 0.00 0.00 0.00 2.45
370 426 9.730420 AAATAAATGCGTAAATAGGTGCTAAAG 57.270 29.630 0.00 0.00 0.00 1.85
397 453 2.464865 GCGTTGGTGCAAATTGTGTTA 58.535 42.857 0.00 0.00 34.15 2.41
398 454 1.285578 GCGTTGGTGCAAATTGTGTT 58.714 45.000 0.00 0.00 34.15 3.32
400 456 1.845324 CGCGTTGGTGCAAATTGTG 59.155 52.632 0.00 0.00 34.15 3.33
401 457 4.317529 CGCGTTGGTGCAAATTGT 57.682 50.000 0.00 0.00 34.15 2.71
409 465 1.582610 AAATACCTGGCGCGTTGGTG 61.583 55.000 22.98 6.65 35.48 4.17
410 466 1.302993 AAATACCTGGCGCGTTGGT 60.303 52.632 19.75 19.75 37.83 3.67
412 468 0.373716 GAGAAATACCTGGCGCGTTG 59.626 55.000 8.43 0.00 0.00 4.10
413 469 0.036765 TGAGAAATACCTGGCGCGTT 60.037 50.000 8.43 0.00 0.00 4.84
414 470 0.178068 ATGAGAAATACCTGGCGCGT 59.822 50.000 8.43 0.00 0.00 6.01
415 471 2.061773 CTATGAGAAATACCTGGCGCG 58.938 52.381 0.00 0.00 0.00 6.86
416 472 2.802816 CACTATGAGAAATACCTGGCGC 59.197 50.000 0.00 0.00 0.00 6.53
420 477 7.867909 TCGATAAAGCACTATGAGAAATACCTG 59.132 37.037 0.00 0.00 0.00 4.00
432 489 7.971168 CGGATTTCTCTATCGATAAAGCACTAT 59.029 37.037 6.58 0.00 0.00 2.12
433 490 7.174426 TCGGATTTCTCTATCGATAAAGCACTA 59.826 37.037 6.58 0.00 0.00 2.74
435 492 6.150318 TCGGATTTCTCTATCGATAAAGCAC 58.850 40.000 6.58 0.00 0.00 4.40
456 513 8.983724 TGAATTTTAAATTTAGGCAGTTTTCGG 58.016 29.630 4.32 0.00 0.00 4.30
459 516 9.062524 GGGTGAATTTTAAATTTAGGCAGTTTT 57.937 29.630 4.32 0.00 0.00 2.43
460 517 8.436778 AGGGTGAATTTTAAATTTAGGCAGTTT 58.563 29.630 4.32 0.00 0.00 2.66
461 518 7.973402 AGGGTGAATTTTAAATTTAGGCAGTT 58.027 30.769 4.32 0.00 0.00 3.16
462 519 7.553504 AGGGTGAATTTTAAATTTAGGCAGT 57.446 32.000 4.32 0.00 0.00 4.40
476 1459 9.699410 TCACATTATCAAGAATAGGGTGAATTT 57.301 29.630 0.00 0.00 34.47 1.82
606 1590 5.885449 TGAATCTGTCCATTTGGGTTTTT 57.115 34.783 0.00 0.00 38.11 1.94
607 1591 5.130145 TGTTGAATCTGTCCATTTGGGTTTT 59.870 36.000 0.00 0.00 38.11 2.43
608 1592 4.653341 TGTTGAATCTGTCCATTTGGGTTT 59.347 37.500 0.00 0.00 38.11 3.27
609 1593 4.222336 TGTTGAATCTGTCCATTTGGGTT 58.778 39.130 0.00 0.00 38.11 4.11
610 1594 3.843422 TGTTGAATCTGTCCATTTGGGT 58.157 40.909 0.00 0.00 38.11 4.51
611 1595 4.870123 TTGTTGAATCTGTCCATTTGGG 57.130 40.909 0.00 0.00 35.41 4.12
612 1596 5.870978 GGATTTGTTGAATCTGTCCATTTGG 59.129 40.000 0.00 0.00 43.08 3.28
613 1597 5.870978 GGGATTTGTTGAATCTGTCCATTTG 59.129 40.000 0.00 0.00 43.08 2.32
614 1598 5.336690 CGGGATTTGTTGAATCTGTCCATTT 60.337 40.000 0.00 0.00 43.08 2.32
615 1599 4.158394 CGGGATTTGTTGAATCTGTCCATT 59.842 41.667 0.00 0.00 43.08 3.16
616 1600 3.696051 CGGGATTTGTTGAATCTGTCCAT 59.304 43.478 0.00 0.00 43.08 3.41
617 1601 3.081061 CGGGATTTGTTGAATCTGTCCA 58.919 45.455 0.00 0.00 43.08 4.02
618 1602 3.127030 GTCGGGATTTGTTGAATCTGTCC 59.873 47.826 0.00 0.00 43.08 4.02
619 1603 3.127030 GGTCGGGATTTGTTGAATCTGTC 59.873 47.826 0.00 0.00 43.08 3.51
620 1604 3.081804 GGTCGGGATTTGTTGAATCTGT 58.918 45.455 0.00 0.00 43.08 3.41
621 1605 3.081061 TGGTCGGGATTTGTTGAATCTG 58.919 45.455 0.00 0.00 43.08 2.90
622 1606 3.433306 TGGTCGGGATTTGTTGAATCT 57.567 42.857 0.00 0.00 43.08 2.40
623 1607 3.694072 TGATGGTCGGGATTTGTTGAATC 59.306 43.478 0.00 0.00 42.84 2.52
624 1608 3.696045 TGATGGTCGGGATTTGTTGAAT 58.304 40.909 0.00 0.00 0.00 2.57
625 1609 3.147553 TGATGGTCGGGATTTGTTGAA 57.852 42.857 0.00 0.00 0.00 2.69
626 1610 2.869101 TGATGGTCGGGATTTGTTGA 57.131 45.000 0.00 0.00 0.00 3.18
627 1611 3.932545 TTTGATGGTCGGGATTTGTTG 57.067 42.857 0.00 0.00 0.00 3.33
628 1612 4.158394 CAGATTTGATGGTCGGGATTTGTT 59.842 41.667 0.00 0.00 0.00 2.83
629 1613 3.696051 CAGATTTGATGGTCGGGATTTGT 59.304 43.478 0.00 0.00 0.00 2.83
630 1614 3.067180 CCAGATTTGATGGTCGGGATTTG 59.933 47.826 0.00 0.00 32.30 2.32
631 1615 3.290710 CCAGATTTGATGGTCGGGATTT 58.709 45.455 0.00 0.00 32.30 2.17
632 1616 2.936202 CCAGATTTGATGGTCGGGATT 58.064 47.619 0.00 0.00 32.30 3.01
633 1617 2.645838 CCAGATTTGATGGTCGGGAT 57.354 50.000 0.00 0.00 32.30 3.85
640 1624 5.097529 CGTTTGATTGACCAGATTTGATGG 58.902 41.667 0.00 0.00 43.87 3.51
641 1625 5.796935 GTCGTTTGATTGACCAGATTTGATG 59.203 40.000 0.00 0.00 0.00 3.07
642 1626 5.707298 AGTCGTTTGATTGACCAGATTTGAT 59.293 36.000 0.00 0.00 35.71 2.57
643 1627 5.049474 CAGTCGTTTGATTGACCAGATTTGA 60.049 40.000 0.00 0.00 33.95 2.69
644 1628 5.049474 TCAGTCGTTTGATTGACCAGATTTG 60.049 40.000 0.00 0.00 36.10 2.32
645 1629 5.063204 TCAGTCGTTTGATTGACCAGATTT 58.937 37.500 0.00 0.00 36.10 2.17
646 1630 4.641396 TCAGTCGTTTGATTGACCAGATT 58.359 39.130 0.00 0.00 36.10 2.40
647 1631 4.021104 TCTCAGTCGTTTGATTGACCAGAT 60.021 41.667 0.00 0.00 36.10 2.90
648 1632 3.320826 TCTCAGTCGTTTGATTGACCAGA 59.679 43.478 0.00 0.00 36.10 3.86
649 1633 3.430218 GTCTCAGTCGTTTGATTGACCAG 59.570 47.826 0.00 0.00 36.10 4.00
650 1634 3.069586 AGTCTCAGTCGTTTGATTGACCA 59.930 43.478 0.00 0.00 36.10 4.02
651 1635 3.430218 CAGTCTCAGTCGTTTGATTGACC 59.570 47.826 0.00 0.00 36.10 4.02
652 1636 3.120854 GCAGTCTCAGTCGTTTGATTGAC 60.121 47.826 0.00 0.00 36.10 3.18
653 1637 3.059884 GCAGTCTCAGTCGTTTGATTGA 58.940 45.455 0.00 0.00 38.39 2.57
654 1638 3.062763 AGCAGTCTCAGTCGTTTGATTG 58.937 45.455 0.00 0.00 33.41 2.67
655 1639 3.321497 GAGCAGTCTCAGTCGTTTGATT 58.679 45.455 0.00 0.00 39.16 2.57
656 1640 2.353208 GGAGCAGTCTCAGTCGTTTGAT 60.353 50.000 0.00 0.00 41.13 2.57
657 1641 1.000163 GGAGCAGTCTCAGTCGTTTGA 60.000 52.381 0.00 0.00 41.13 2.69
658 1642 1.269778 TGGAGCAGTCTCAGTCGTTTG 60.270 52.381 0.00 0.00 41.13 2.93
659 1643 1.040646 TGGAGCAGTCTCAGTCGTTT 58.959 50.000 0.00 0.00 41.13 3.60
660 1644 1.040646 TTGGAGCAGTCTCAGTCGTT 58.959 50.000 0.00 0.00 41.13 3.85
661 1645 1.067283 CATTGGAGCAGTCTCAGTCGT 60.067 52.381 0.00 0.00 41.13 4.34
662 1646 1.203287 TCATTGGAGCAGTCTCAGTCG 59.797 52.381 0.00 0.00 41.13 4.18
663 1647 3.118847 TCATCATTGGAGCAGTCTCAGTC 60.119 47.826 0.00 0.00 41.13 3.51
664 1648 2.836372 TCATCATTGGAGCAGTCTCAGT 59.164 45.455 0.00 0.00 41.13 3.41
665 1649 3.459145 CTCATCATTGGAGCAGTCTCAG 58.541 50.000 0.00 0.00 41.13 3.35
666 1650 3.538634 CTCATCATTGGAGCAGTCTCA 57.461 47.619 0.00 0.00 41.13 3.27
674 1658 1.329906 GTTGAGCGCTCATCATTGGAG 59.670 52.381 38.40 0.00 39.64 3.86
675 1659 1.338960 TGTTGAGCGCTCATCATTGGA 60.339 47.619 35.70 21.35 39.64 3.53
676 1660 1.089112 TGTTGAGCGCTCATCATTGG 58.911 50.000 35.70 0.00 39.64 3.16
677 1661 2.096980 ACATGTTGAGCGCTCATCATTG 59.903 45.455 41.19 35.95 43.58 2.82
678 1662 2.362736 ACATGTTGAGCGCTCATCATT 58.637 42.857 41.19 32.20 43.58 2.57
679 1663 2.034104 ACATGTTGAGCGCTCATCAT 57.966 45.000 39.45 39.45 45.64 2.45
680 1664 1.812235 AACATGTTGAGCGCTCATCA 58.188 45.000 38.92 38.92 41.71 3.07
681 1665 2.907910 AAACATGTTGAGCGCTCATC 57.092 45.000 38.40 34.90 39.64 2.92
682 1666 3.125829 CACTAAACATGTTGAGCGCTCAT 59.874 43.478 38.40 24.45 39.64 2.90
683 1667 2.480037 CACTAAACATGTTGAGCGCTCA 59.520 45.455 35.30 35.30 37.91 4.26
684 1668 2.480419 ACACTAAACATGTTGAGCGCTC 59.520 45.455 30.42 30.42 0.00 5.03
685 1669 2.494059 ACACTAAACATGTTGAGCGCT 58.506 42.857 21.12 11.27 0.00 5.92
686 1670 2.969443 ACACTAAACATGTTGAGCGC 57.031 45.000 21.12 0.00 0.00 5.92
687 1671 4.447724 ACTGTACACTAAACATGTTGAGCG 59.552 41.667 21.12 15.10 0.00 5.03
688 1672 5.924475 ACTGTACACTAAACATGTTGAGC 57.076 39.130 21.12 7.04 0.00 4.26
714 1698 9.619316 GCATTGGCGTTAATATTTTGTATGATA 57.381 29.630 0.00 0.00 0.00 2.15
715 1699 8.519492 GCATTGGCGTTAATATTTTGTATGAT 57.481 30.769 0.00 0.00 0.00 2.45
716 1700 7.922505 GCATTGGCGTTAATATTTTGTATGA 57.077 32.000 0.00 0.00 0.00 2.15
733 1717 7.957484 CGTATTAAGTATGTGATTAGCATTGGC 59.043 37.037 0.00 0.00 41.61 4.52
734 1718 7.957484 GCGTATTAAGTATGTGATTAGCATTGG 59.043 37.037 0.00 0.00 0.00 3.16
735 1719 8.495148 TGCGTATTAAGTATGTGATTAGCATTG 58.505 33.333 0.00 0.00 0.00 2.82
736 1720 8.601845 TGCGTATTAAGTATGTGATTAGCATT 57.398 30.769 0.00 0.00 0.00 3.56
737 1721 8.601845 TTGCGTATTAAGTATGTGATTAGCAT 57.398 30.769 0.00 0.00 0.00 3.79
738 1722 8.426881 TTTGCGTATTAAGTATGTGATTAGCA 57.573 30.769 0.00 0.00 0.00 3.49
750 1734 9.918630 AGGTACGATATTATTTGCGTATTAAGT 57.081 29.630 0.00 0.00 40.69 2.24
800 1784 9.280174 GCAATGCACCTTAATACTAATAGGTAA 57.720 33.333 0.00 0.00 38.93 2.85
801 1785 8.433599 TGCAATGCACCTTAATACTAATAGGTA 58.566 33.333 2.72 0.00 38.93 3.08
802 1786 7.287061 TGCAATGCACCTTAATACTAATAGGT 58.713 34.615 2.72 0.00 41.58 3.08
803 1787 7.094634 CCTGCAATGCACCTTAATACTAATAGG 60.095 40.741 2.72 0.00 33.79 2.57
804 1788 7.445402 ACCTGCAATGCACCTTAATACTAATAG 59.555 37.037 2.72 0.00 33.79 1.73
805 1789 7.287061 ACCTGCAATGCACCTTAATACTAATA 58.713 34.615 2.72 0.00 33.79 0.98
806 1790 6.129179 ACCTGCAATGCACCTTAATACTAAT 58.871 36.000 2.72 0.00 33.79 1.73
807 1791 5.505780 ACCTGCAATGCACCTTAATACTAA 58.494 37.500 2.72 0.00 33.79 2.24
808 1792 5.110814 ACCTGCAATGCACCTTAATACTA 57.889 39.130 2.72 0.00 33.79 1.82
809 1793 3.968265 ACCTGCAATGCACCTTAATACT 58.032 40.909 2.72 0.00 33.79 2.12
810 1794 4.638421 TGTACCTGCAATGCACCTTAATAC 59.362 41.667 2.72 1.80 33.79 1.89
811 1795 4.638421 GTGTACCTGCAATGCACCTTAATA 59.362 41.667 2.72 0.00 33.79 0.98
812 1796 3.443681 GTGTACCTGCAATGCACCTTAAT 59.556 43.478 2.72 0.00 33.79 1.40
813 1797 2.817258 GTGTACCTGCAATGCACCTTAA 59.183 45.455 2.72 0.00 33.79 1.85
814 1798 2.224646 TGTGTACCTGCAATGCACCTTA 60.225 45.455 2.72 0.00 33.79 2.69
815 1799 1.247567 GTGTACCTGCAATGCACCTT 58.752 50.000 2.72 0.00 33.79 3.50
816 1800 0.110295 TGTGTACCTGCAATGCACCT 59.890 50.000 2.72 0.00 33.79 4.00
817 1801 0.240945 GTGTGTACCTGCAATGCACC 59.759 55.000 2.72 0.00 33.79 5.01
818 1802 1.238439 AGTGTGTACCTGCAATGCAC 58.762 50.000 2.72 10.74 33.79 4.57
819 1803 2.038426 AGTAGTGTGTACCTGCAATGCA 59.962 45.455 7.99 7.99 36.92 3.96
820 1804 2.699954 AGTAGTGTGTACCTGCAATGC 58.300 47.619 0.00 0.00 0.00 3.56
821 1805 5.073311 ACTAGTAGTGTGTACCTGCAATG 57.927 43.478 0.85 0.00 0.00 2.82
822 1806 5.740290 AACTAGTAGTGTGTACCTGCAAT 57.260 39.130 2.90 0.00 0.00 3.56
823 1807 5.540400 AAACTAGTAGTGTGTACCTGCAA 57.460 39.130 2.90 0.00 0.00 4.08
824 1808 5.540400 AAAACTAGTAGTGTGTACCTGCA 57.460 39.130 2.90 0.00 0.00 4.41
839 1823 9.798885 GCTCGATTTGCAGTTATATAAAACTAG 57.201 33.333 0.00 0.00 37.61 2.57
840 1824 8.770828 GGCTCGATTTGCAGTTATATAAAACTA 58.229 33.333 0.00 0.00 37.61 2.24
841 1825 7.499232 AGGCTCGATTTGCAGTTATATAAAACT 59.501 33.333 0.00 0.00 40.33 2.66
842 1826 7.639945 AGGCTCGATTTGCAGTTATATAAAAC 58.360 34.615 0.00 0.00 0.00 2.43
843 1827 7.801716 AGGCTCGATTTGCAGTTATATAAAA 57.198 32.000 0.00 0.00 0.00 1.52
844 1828 7.041372 GGAAGGCTCGATTTGCAGTTATATAAA 60.041 37.037 0.00 0.00 0.00 1.40
845 1829 6.426937 GGAAGGCTCGATTTGCAGTTATATAA 59.573 38.462 0.00 0.00 0.00 0.98
846 1830 5.932303 GGAAGGCTCGATTTGCAGTTATATA 59.068 40.000 0.00 0.00 0.00 0.86
847 1831 4.757149 GGAAGGCTCGATTTGCAGTTATAT 59.243 41.667 0.00 0.00 0.00 0.86
848 1832 4.127171 GGAAGGCTCGATTTGCAGTTATA 58.873 43.478 0.00 0.00 0.00 0.98
849 1833 2.945668 GGAAGGCTCGATTTGCAGTTAT 59.054 45.455 0.00 0.00 0.00 1.89
850 1834 2.356135 GGAAGGCTCGATTTGCAGTTA 58.644 47.619 0.00 0.00 0.00 2.24
851 1835 1.168714 GGAAGGCTCGATTTGCAGTT 58.831 50.000 0.00 0.00 0.00 3.16
852 1836 0.678048 GGGAAGGCTCGATTTGCAGT 60.678 55.000 0.00 0.00 0.00 4.40
853 1837 1.709147 CGGGAAGGCTCGATTTGCAG 61.709 60.000 0.00 0.00 41.67 4.41
854 1838 1.745115 CGGGAAGGCTCGATTTGCA 60.745 57.895 0.00 0.00 41.67 4.08
855 1839 2.472909 CCGGGAAGGCTCGATTTGC 61.473 63.158 0.00 0.00 41.67 3.68
856 1840 1.819632 CCCGGGAAGGCTCGATTTG 60.820 63.158 18.48 0.00 41.67 2.32
857 1841 2.590092 CCCGGGAAGGCTCGATTT 59.410 61.111 18.48 0.00 41.67 2.17
886 1870 4.400961 GCGAGAAGGCTGGCTGGT 62.401 66.667 3.84 0.00 41.95 4.00
890 1874 3.731653 GAGGAGCGAGAAGGCTGGC 62.732 68.421 0.00 0.00 44.93 4.85
892 1876 2.015227 GAGGAGGAGCGAGAAGGCTG 62.015 65.000 0.00 0.00 44.93 4.85
912 1897 2.184579 CGCGAGAAAGGGGAGGAC 59.815 66.667 0.00 0.00 0.00 3.85
1419 2438 3.851128 TTGGTGGTGACGGCGACA 61.851 61.111 16.62 12.05 0.00 4.35
1668 2687 4.378770 CGATCATCAAGAACAAACAGGTGG 60.379 45.833 0.00 0.00 0.00 4.61
1704 2723 3.933542 GAGCCTCTCCACCCCACCT 62.934 68.421 0.00 0.00 0.00 4.00
1762 2781 0.706433 ACCCATCCCACTGCTTCATT 59.294 50.000 0.00 0.00 0.00 2.57
1764 2783 1.379916 CACCCATCCCACTGCTTCA 59.620 57.895 0.00 0.00 0.00 3.02
1767 2786 2.204136 TCCACCCATCCCACTGCT 60.204 61.111 0.00 0.00 0.00 4.24
1839 2858 2.106511 AGCCTGAAAGTGCCAGAAACTA 59.893 45.455 0.00 0.00 33.65 2.24
2025 3044 3.672293 CTGCGTTGTCCCAGCAAT 58.328 55.556 0.00 0.00 40.63 3.56
2079 3098 3.575256 TGAAGCTTCAGAATTGCACCAAT 59.425 39.130 25.16 0.00 32.47 3.16
2191 3210 4.261322 GCATTATGCCACATACAAGGACAG 60.261 45.833 5.80 0.00 37.42 3.51
2346 3365 5.598417 AGGAATAAAACAGCACAGAACCTTT 59.402 36.000 0.00 0.00 0.00 3.11
2537 3556 9.050601 CCCAAAAGAAAACTGCACATAAAATTA 57.949 29.630 0.00 0.00 0.00 1.40
2556 3575 2.203773 CCCCCACCCACCCAAAAG 60.204 66.667 0.00 0.00 0.00 2.27
2586 3605 4.944048 ACAAACAGTAGCAAAAATCACCC 58.056 39.130 0.00 0.00 0.00 4.61
2650 3821 6.920817 ACAGACACTTCGACAGTAATTATGA 58.079 36.000 0.00 0.00 32.76 2.15
2686 3857 5.065474 TGGTTGAGTTACTTGTTTGCAGTAC 59.935 40.000 0.00 0.00 0.00 2.73
2841 4015 7.683437 AGCATGATCGATAATTCAATGTCAT 57.317 32.000 0.00 0.00 0.00 3.06
2854 4028 6.765036 AGAAAACACTGATAAGCATGATCGAT 59.235 34.615 0.00 0.00 0.00 3.59


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

AutoCloner maintained by Alex Coulton.