Multiple sequence alignment - TraesCS2B01G324000

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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 TraesCS2B01G324000 chr2B 100.000 3422 0 0 1 3422 462954885 462951464 0.000000e+00 6320
1 TraesCS2B01G324000 chr2B 88.785 856 73 7 1469 2321 464603822 464604657 0.000000e+00 1027
2 TraesCS2B01G324000 chr2B 92.210 552 43 0 1 552 34258740 34259291 0.000000e+00 782
3 TraesCS2B01G324000 chr2B 93.296 179 10 2 588 764 9109393 9109215 2.620000e-66 263
4 TraesCS2B01G324000 chr2D 92.940 1813 102 11 990 2787 391396445 391394644 0.000000e+00 2615
5 TraesCS2B01G324000 chr2D 88.920 1426 116 17 1128 2550 392683881 392685267 0.000000e+00 1720
6 TraesCS2B01G324000 chr2D 93.333 645 31 8 2783 3422 391394541 391393904 0.000000e+00 942
7 TraesCS2B01G324000 chr2D 82.130 554 96 3 1 552 562348952 562348400 4.000000e-129 472
8 TraesCS2B01G324000 chr2D 93.889 180 6 5 588 764 2767212 2767035 2.020000e-67 267
9 TraesCS2B01G324000 chr2D 87.342 237 14 7 764 991 391396716 391396487 1.220000e-64 257
10 TraesCS2B01G324000 chr2A 89.221 1540 126 21 1128 2642 530675855 530677379 0.000000e+00 1888
11 TraesCS2B01G324000 chr2A 91.994 1324 82 15 998 2311 528126414 528125105 0.000000e+00 1836
12 TraesCS2B01G324000 chr2A 84.632 475 40 10 2324 2787 528125063 528124611 3.130000e-120 442
13 TraesCS2B01G324000 chr2A 90.780 282 17 5 3147 3422 528123951 528123673 5.400000e-98 368
14 TraesCS2B01G324000 chr2A 86.562 320 31 6 2782 3094 528124504 528124190 3.270000e-90 342
15 TraesCS2B01G324000 chr2A 82.621 351 61 0 16 366 535397583 535397233 9.220000e-81 311
16 TraesCS2B01G324000 chr2A 94.915 177 7 2 589 763 139979834 139980010 3.360000e-70 276
17 TraesCS2B01G324000 chr2A 93.296 179 9 3 588 763 1502581 1502759 9.420000e-66 261
18 TraesCS2B01G324000 chr2A 93.431 137 8 1 727 863 528136737 528136602 5.790000e-48 202
19 TraesCS2B01G324000 chr2A 90.625 128 7 2 870 992 528127407 528127280 7.600000e-37 165
20 TraesCS2B01G324000 chr3D 84.080 1206 153 22 1065 2247 484730499 484729310 0.000000e+00 1127
21 TraesCS2B01G324000 chr3D 92.391 184 9 4 588 766 163878111 163877928 1.220000e-64 257
22 TraesCS2B01G324000 chr3B 83.252 1230 159 23 1047 2247 647477668 647476457 0.000000e+00 1086
23 TraesCS2B01G324000 chr1D 82.098 553 98 1 1 552 493053222 493053774 4.000000e-129 472
24 TraesCS2B01G324000 chr1D 93.258 178 11 1 588 764 451076632 451076809 9.420000e-66 261
25 TraesCS2B01G324000 chr1B 80.146 549 99 8 1 543 176821390 176821934 5.320000e-108 401
26 TraesCS2B01G324000 chr6B 88.298 282 32 1 1 281 293116467 293116186 1.520000e-88 337
27 TraesCS2B01G324000 chr6B 89.552 134 13 1 420 552 293116188 293116055 5.870000e-38 169
28 TraesCS2B01G324000 chr1A 94.054 185 9 2 588 770 532241681 532241865 2.600000e-71 279
29 TraesCS2B01G324000 chr1A 93.923 181 9 2 588 766 464114289 464114469 4.350000e-69 272
30 TraesCS2B01G324000 chr7D 94.350 177 9 1 588 763 587414123 587413947 1.570000e-68 270


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 TraesCS2B01G324000 chr2B 462951464 462954885 3421 True 6320.000000 6320 100.0000 1 3422 1 chr2B.!!$R2 3421
1 TraesCS2B01G324000 chr2B 464603822 464604657 835 False 1027.000000 1027 88.7850 1469 2321 1 chr2B.!!$F2 852
2 TraesCS2B01G324000 chr2B 34258740 34259291 551 False 782.000000 782 92.2100 1 552 1 chr2B.!!$F1 551
3 TraesCS2B01G324000 chr2D 392683881 392685267 1386 False 1720.000000 1720 88.9200 1128 2550 1 chr2D.!!$F1 1422
4 TraesCS2B01G324000 chr2D 391393904 391396716 2812 True 1271.333333 2615 91.2050 764 3422 3 chr2D.!!$R3 2658
5 TraesCS2B01G324000 chr2D 562348400 562348952 552 True 472.000000 472 82.1300 1 552 1 chr2D.!!$R2 551
6 TraesCS2B01G324000 chr2A 530675855 530677379 1524 False 1888.000000 1888 89.2210 1128 2642 1 chr2A.!!$F3 1514
7 TraesCS2B01G324000 chr2A 528123673 528127407 3734 True 630.600000 1836 88.9186 870 3422 5 chr2A.!!$R3 2552
8 TraesCS2B01G324000 chr3D 484729310 484730499 1189 True 1127.000000 1127 84.0800 1065 2247 1 chr3D.!!$R2 1182
9 TraesCS2B01G324000 chr3B 647476457 647477668 1211 True 1086.000000 1086 83.2520 1047 2247 1 chr3B.!!$R1 1200
10 TraesCS2B01G324000 chr1D 493053222 493053774 552 False 472.000000 472 82.0980 1 552 1 chr1D.!!$F2 551
11 TraesCS2B01G324000 chr1B 176821390 176821934 544 False 401.000000 401 80.1460 1 543 1 chr1B.!!$F1 542

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
585 586 0.035056 CTCCAAAGGAATCTGCCGGT 60.035 55.0 1.90 0.0 0.00 5.28 F
2007 2980 1.030457 GTCGATCCTAGAGGCCGAAA 58.970 55.0 12.35 0.0 39.95 3.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2018 2991 0.319813 GCAGCGTGCTTTCCCATTTT 60.320 50.0 0.0 0.0 40.96 1.82 R
2941 4275 0.249398 AGCTACGAACAAGGCGGAAT 59.751 50.0 0.0 0.0 0.00 3.01 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
49 50 3.500680 GTGATCGTAGATCACCTCCTCTC 59.499 52.174 24.75 5.03 45.12 3.20
73 74 1.013596 CTTGTGGTTTGTCACGCTGA 58.986 50.000 0.00 0.00 40.31 4.26
83 84 1.872952 TGTCACGCTGATGTTTCCTTG 59.127 47.619 0.00 0.00 0.00 3.61
87 88 1.537202 ACGCTGATGTTTCCTTGCTTC 59.463 47.619 0.00 0.00 0.00 3.86
148 149 1.340889 TGGCATGGAAGAAAGTTGTGC 59.659 47.619 0.00 0.00 0.00 4.57
156 157 2.418368 AGAAAGTTGTGCTGGTGTCA 57.582 45.000 0.00 0.00 0.00 3.58
160 161 2.203139 TTGTGCTGGTGTCACCCG 60.203 61.111 19.57 14.19 37.50 5.28
165 166 3.000819 CTGGTGTCACCCGCCCTA 61.001 66.667 19.57 0.00 43.57 3.53
183 184 2.554032 CCTAAGCCAATTTATGCGGGAG 59.446 50.000 0.00 0.00 0.00 4.30
198 199 1.736612 GGGAGCTCTGCTTCTTTCTG 58.263 55.000 14.64 0.00 39.88 3.02
214 215 4.713735 TGGCCCGCTCAATCGCAA 62.714 61.111 0.00 0.00 0.00 4.85
289 290 1.539869 AGAGCCCTGCTTTCCTGGA 60.540 57.895 0.00 0.00 39.88 3.86
300 301 1.613925 CTTTCCTGGACTGTGTCGAGA 59.386 52.381 10.51 0.00 40.06 4.04
324 325 2.879026 CAGGATGATCTCTTGTGCCATG 59.121 50.000 0.00 0.00 39.69 3.66
372 373 1.332195 GCCCTTTGCTCCAACTCTTT 58.668 50.000 0.00 0.00 36.87 2.52
399 400 2.173382 GCCGTACGTTGCAGCTTG 59.827 61.111 15.21 0.00 0.00 4.01
423 424 0.534652 GCAGGGAGAGGATCATGCAC 60.535 60.000 0.00 0.00 40.25 4.57
432 433 3.327172 AGAGGATCATGCACCTAGATTGG 59.673 47.826 9.82 0.00 37.82 3.16
434 435 3.915073 AGGATCATGCACCTAGATTGGAT 59.085 43.478 8.41 0.00 34.47 3.41
436 437 4.458295 GGATCATGCACCTAGATTGGATTG 59.542 45.833 0.00 0.00 0.00 2.67
454 455 0.040058 TGGCCTCATCCAAGCATTGT 59.960 50.000 3.32 0.00 46.99 2.71
465 466 2.880268 CCAAGCATTGTTGACAGTCTCA 59.120 45.455 1.31 0.00 46.99 3.27
471 472 4.614535 GCATTGTTGACAGTCTCATGGAAC 60.615 45.833 1.31 0.00 0.00 3.62
489 490 0.104725 ACCCTGGGAATTTTGGCCAA 60.105 50.000 22.23 16.05 0.00 4.52
494 495 3.434882 CCTGGGAATTTTGGCCAAAAAGT 60.435 43.478 39.45 31.05 42.71 2.66
501 502 7.093354 GGAATTTTGGCCAAAAAGTTTCAAAA 58.907 30.769 39.45 19.13 42.71 2.44
548 549 2.690786 GCTTGCATTTGCCAGAATCAA 58.309 42.857 7.74 0.00 41.18 2.57
552 553 1.826720 GCATTTGCCAGAATCAAGGGA 59.173 47.619 0.00 0.00 34.31 4.20
553 554 2.417787 GCATTTGCCAGAATCAAGGGAC 60.418 50.000 0.00 0.00 34.31 4.46
554 555 2.673775 TTTGCCAGAATCAAGGGACA 57.326 45.000 0.00 0.00 0.00 4.02
555 556 2.205022 TTGCCAGAATCAAGGGACAG 57.795 50.000 0.00 0.00 0.00 3.51
556 557 1.361204 TGCCAGAATCAAGGGACAGA 58.639 50.000 0.00 0.00 0.00 3.41
557 558 1.918262 TGCCAGAATCAAGGGACAGAT 59.082 47.619 0.00 0.00 0.00 2.90
558 559 2.309755 TGCCAGAATCAAGGGACAGATT 59.690 45.455 0.00 0.00 37.89 2.40
559 560 2.948315 GCCAGAATCAAGGGACAGATTC 59.052 50.000 6.97 6.97 45.75 2.52
563 564 3.600388 GAATCAAGGGACAGATTCGTGT 58.400 45.455 0.00 0.00 40.36 4.49
564 565 3.703001 ATCAAGGGACAGATTCGTGTT 57.297 42.857 0.00 0.00 0.00 3.32
565 566 3.040147 TCAAGGGACAGATTCGTGTTC 57.960 47.619 0.00 0.00 0.00 3.18
566 567 2.076863 CAAGGGACAGATTCGTGTTCC 58.923 52.381 5.78 5.78 45.65 3.62
568 569 2.011540 GGGACAGATTCGTGTTCCTC 57.988 55.000 6.41 0.00 42.35 3.71
569 570 1.405661 GGGACAGATTCGTGTTCCTCC 60.406 57.143 6.41 0.00 42.35 4.30
570 571 1.275291 GGACAGATTCGTGTTCCTCCA 59.725 52.381 0.00 0.00 0.00 3.86
571 572 2.289444 GGACAGATTCGTGTTCCTCCAA 60.289 50.000 0.00 0.00 0.00 3.53
572 573 3.399330 GACAGATTCGTGTTCCTCCAAA 58.601 45.455 0.00 0.00 0.00 3.28
573 574 3.403038 ACAGATTCGTGTTCCTCCAAAG 58.597 45.455 0.00 0.00 0.00 2.77
574 575 2.744202 CAGATTCGTGTTCCTCCAAAGG 59.256 50.000 0.00 0.00 44.89 3.11
583 584 2.785868 CCTCCAAAGGAATCTGCCG 58.214 57.895 0.00 0.00 46.67 5.69
584 585 0.749454 CCTCCAAAGGAATCTGCCGG 60.749 60.000 0.00 0.00 46.67 6.13
585 586 0.035056 CTCCAAAGGAATCTGCCGGT 60.035 55.000 1.90 0.00 0.00 5.28
586 587 1.209504 CTCCAAAGGAATCTGCCGGTA 59.790 52.381 1.90 0.00 0.00 4.02
587 588 1.843851 TCCAAAGGAATCTGCCGGTAT 59.156 47.619 1.90 0.00 0.00 2.73
588 589 2.241176 TCCAAAGGAATCTGCCGGTATT 59.759 45.455 1.90 0.31 0.00 1.89
589 590 2.618709 CCAAAGGAATCTGCCGGTATTC 59.381 50.000 1.90 10.29 0.00 1.75
590 591 3.278574 CAAAGGAATCTGCCGGTATTCA 58.721 45.455 20.58 4.41 34.44 2.57
591 592 3.864789 AAGGAATCTGCCGGTATTCAT 57.135 42.857 20.58 14.55 34.44 2.57
592 593 3.864789 AGGAATCTGCCGGTATTCATT 57.135 42.857 20.58 9.09 34.44 2.57
593 594 4.170468 AGGAATCTGCCGGTATTCATTT 57.830 40.909 20.58 8.78 34.44 2.32
594 595 3.885297 AGGAATCTGCCGGTATTCATTTG 59.115 43.478 20.58 0.00 34.44 2.32
595 596 3.632145 GGAATCTGCCGGTATTCATTTGT 59.368 43.478 20.58 0.00 34.44 2.83
596 597 4.498009 GGAATCTGCCGGTATTCATTTGTG 60.498 45.833 20.58 0.00 34.44 3.33
597 598 1.742831 TCTGCCGGTATTCATTTGTGC 59.257 47.619 1.90 0.00 0.00 4.57
598 599 1.472082 CTGCCGGTATTCATTTGTGCA 59.528 47.619 1.90 0.00 0.00 4.57
599 600 2.098614 TGCCGGTATTCATTTGTGCAT 58.901 42.857 1.90 0.00 0.00 3.96
600 601 2.495270 TGCCGGTATTCATTTGTGCATT 59.505 40.909 1.90 0.00 0.00 3.56
601 602 2.859538 GCCGGTATTCATTTGTGCATTG 59.140 45.455 1.90 0.00 0.00 2.82
602 603 3.675775 GCCGGTATTCATTTGTGCATTGT 60.676 43.478 1.90 0.00 0.00 2.71
603 604 4.493547 CCGGTATTCATTTGTGCATTGTT 58.506 39.130 0.00 0.00 0.00 2.83
604 605 4.928615 CCGGTATTCATTTGTGCATTGTTT 59.071 37.500 0.00 0.00 0.00 2.83
605 606 5.407995 CCGGTATTCATTTGTGCATTGTTTT 59.592 36.000 0.00 0.00 0.00 2.43
606 607 6.400940 CCGGTATTCATTTGTGCATTGTTTTC 60.401 38.462 0.00 0.00 0.00 2.29
607 608 6.524490 GGTATTCATTTGTGCATTGTTTTCG 58.476 36.000 0.00 0.00 0.00 3.46
608 609 6.145371 GGTATTCATTTGTGCATTGTTTTCGT 59.855 34.615 0.00 0.00 0.00 3.85
609 610 5.386810 TTCATTTGTGCATTGTTTTCGTG 57.613 34.783 0.00 0.00 0.00 4.35
610 611 4.676546 TCATTTGTGCATTGTTTTCGTGA 58.323 34.783 0.00 0.00 0.00 4.35
611 612 5.105063 TCATTTGTGCATTGTTTTCGTGAA 58.895 33.333 0.00 0.00 0.00 3.18
612 613 5.231779 TCATTTGTGCATTGTTTTCGTGAAG 59.768 36.000 0.00 0.00 0.00 3.02
613 614 2.458951 TGTGCATTGTTTTCGTGAAGC 58.541 42.857 0.00 0.00 0.00 3.86
614 615 1.447938 GTGCATTGTTTTCGTGAAGCG 59.552 47.619 0.00 0.00 43.01 4.68
625 626 2.279582 CGTGAAGCGAATGAGGTAGT 57.720 50.000 0.00 0.00 44.77 2.73
626 627 3.416119 CGTGAAGCGAATGAGGTAGTA 57.584 47.619 0.00 0.00 44.77 1.82
627 628 3.364062 CGTGAAGCGAATGAGGTAGTAG 58.636 50.000 0.00 0.00 44.77 2.57
628 629 3.064958 CGTGAAGCGAATGAGGTAGTAGA 59.935 47.826 0.00 0.00 44.77 2.59
629 630 4.261238 CGTGAAGCGAATGAGGTAGTAGAT 60.261 45.833 0.00 0.00 44.77 1.98
630 631 5.049612 CGTGAAGCGAATGAGGTAGTAGATA 60.050 44.000 0.00 0.00 44.77 1.98
631 632 6.375377 GTGAAGCGAATGAGGTAGTAGATAG 58.625 44.000 0.00 0.00 0.00 2.08
632 633 5.048643 TGAAGCGAATGAGGTAGTAGATAGC 60.049 44.000 0.00 0.00 0.00 2.97
633 634 3.759618 AGCGAATGAGGTAGTAGATAGCC 59.240 47.826 0.00 0.00 31.94 3.93
634 635 3.759618 GCGAATGAGGTAGTAGATAGCCT 59.240 47.826 0.00 0.00 31.94 4.58
635 636 4.942483 GCGAATGAGGTAGTAGATAGCCTA 59.058 45.833 0.00 0.00 31.94 3.93
636 637 5.065474 GCGAATGAGGTAGTAGATAGCCTAG 59.935 48.000 0.00 0.00 31.94 3.02
637 638 5.065474 CGAATGAGGTAGTAGATAGCCTAGC 59.935 48.000 0.00 0.00 31.94 3.42
638 639 5.789574 ATGAGGTAGTAGATAGCCTAGCT 57.210 43.478 0.00 0.00 42.86 3.32
639 640 6.894735 ATGAGGTAGTAGATAGCCTAGCTA 57.105 41.667 0.00 0.00 45.55 3.32
640 641 6.302535 TGAGGTAGTAGATAGCCTAGCTAG 57.697 45.833 14.20 14.20 44.66 3.42
641 642 6.024247 TGAGGTAGTAGATAGCCTAGCTAGA 58.976 44.000 22.70 2.39 44.66 2.43
642 643 6.501102 TGAGGTAGTAGATAGCCTAGCTAGAA 59.499 42.308 22.70 7.55 44.66 2.10
643 644 7.017353 TGAGGTAGTAGATAGCCTAGCTAGAAA 59.983 40.741 22.70 7.18 44.66 2.52
644 645 7.935405 AGGTAGTAGATAGCCTAGCTAGAAAT 58.065 38.462 22.70 11.63 44.66 2.17
645 646 8.395605 AGGTAGTAGATAGCCTAGCTAGAAATT 58.604 37.037 22.70 6.88 44.66 1.82
646 647 8.680001 GGTAGTAGATAGCCTAGCTAGAAATTC 58.320 40.741 22.70 12.74 44.66 2.17
647 648 9.457436 GTAGTAGATAGCCTAGCTAGAAATTCT 57.543 37.037 22.70 18.32 44.66 2.40
648 649 8.575649 AGTAGATAGCCTAGCTAGAAATTCTC 57.424 38.462 22.70 10.33 44.66 2.87
649 650 8.390921 AGTAGATAGCCTAGCTAGAAATTCTCT 58.609 37.037 22.70 16.07 44.66 3.10
650 651 9.020731 GTAGATAGCCTAGCTAGAAATTCTCTT 57.979 37.037 22.70 2.20 44.66 2.85
652 653 9.020731 AGATAGCCTAGCTAGAAATTCTCTTAC 57.979 37.037 22.70 2.09 44.66 2.34
653 654 6.413783 AGCCTAGCTAGAAATTCTCTTACC 57.586 41.667 22.70 0.00 36.99 2.85
654 655 5.900123 AGCCTAGCTAGAAATTCTCTTACCA 59.100 40.000 22.70 0.00 36.99 3.25
655 656 6.556874 AGCCTAGCTAGAAATTCTCTTACCAT 59.443 38.462 22.70 0.00 36.99 3.55
656 657 7.071824 AGCCTAGCTAGAAATTCTCTTACCATT 59.928 37.037 22.70 0.00 36.99 3.16
657 658 8.368668 GCCTAGCTAGAAATTCTCTTACCATTA 58.631 37.037 22.70 0.00 35.41 1.90
658 659 9.921637 CCTAGCTAGAAATTCTCTTACCATTAG 57.078 37.037 22.70 0.00 35.41 1.73
665 666 9.844257 AGAAATTCTCTTACCATTAGATCTTGG 57.156 33.333 11.29 11.29 39.02 3.61
666 667 8.986929 AAATTCTCTTACCATTAGATCTTGGG 57.013 34.615 16.24 10.92 37.32 4.12
667 668 6.500589 TTCTCTTACCATTAGATCTTGGGG 57.499 41.667 16.24 10.60 37.32 4.96
668 669 5.788430 TCTCTTACCATTAGATCTTGGGGA 58.212 41.667 16.24 10.51 37.32 4.81
669 670 6.393897 TCTCTTACCATTAGATCTTGGGGAT 58.606 40.000 16.24 0.42 37.32 3.85
670 671 6.851836 TCTCTTACCATTAGATCTTGGGGATT 59.148 38.462 16.24 0.11 37.32 3.01
671 672 7.350921 TCTCTTACCATTAGATCTTGGGGATTT 59.649 37.037 16.24 0.00 37.32 2.17
672 673 7.882755 TCTTACCATTAGATCTTGGGGATTTT 58.117 34.615 16.24 0.00 37.32 1.82
673 674 7.779798 TCTTACCATTAGATCTTGGGGATTTTG 59.220 37.037 16.24 2.07 37.32 2.44
674 675 5.211201 ACCATTAGATCTTGGGGATTTTGG 58.789 41.667 16.24 6.67 37.32 3.28
675 676 4.590222 CCATTAGATCTTGGGGATTTTGGG 59.410 45.833 0.00 0.00 34.33 4.12
676 677 5.457686 CATTAGATCTTGGGGATTTTGGGA 58.542 41.667 0.00 0.00 34.33 4.37
677 678 5.749422 TTAGATCTTGGGGATTTTGGGAT 57.251 39.130 0.00 0.00 34.33 3.85
678 679 6.857083 TTAGATCTTGGGGATTTTGGGATA 57.143 37.500 0.00 0.00 34.33 2.59
679 680 5.330648 AGATCTTGGGGATTTTGGGATAG 57.669 43.478 0.00 0.00 34.33 2.08
680 681 4.733988 AGATCTTGGGGATTTTGGGATAGT 59.266 41.667 0.00 0.00 34.33 2.12
681 682 4.965283 TCTTGGGGATTTTGGGATAGTT 57.035 40.909 0.00 0.00 0.00 2.24
682 683 4.867086 TCTTGGGGATTTTGGGATAGTTC 58.133 43.478 0.00 0.00 0.00 3.01
683 684 4.544152 TCTTGGGGATTTTGGGATAGTTCT 59.456 41.667 0.00 0.00 0.00 3.01
684 685 5.734140 TCTTGGGGATTTTGGGATAGTTCTA 59.266 40.000 0.00 0.00 0.00 2.10
685 686 6.392842 TCTTGGGGATTTTGGGATAGTTCTAT 59.607 38.462 0.00 0.00 0.00 1.98
686 687 6.200878 TGGGGATTTTGGGATAGTTCTATC 57.799 41.667 10.37 10.37 0.00 2.08
687 688 5.074515 TGGGGATTTTGGGATAGTTCTATCC 59.925 44.000 23.34 23.34 44.07 2.59
688 689 5.313506 GGGGATTTTGGGATAGTTCTATCCT 59.686 44.000 27.47 14.60 44.20 3.24
689 690 6.241645 GGGATTTTGGGATAGTTCTATCCTG 58.758 44.000 27.47 0.00 44.20 3.86
690 691 6.044404 GGGATTTTGGGATAGTTCTATCCTGA 59.956 42.308 27.47 18.09 44.20 3.86
691 692 6.937465 GGATTTTGGGATAGTTCTATCCTGAC 59.063 42.308 27.47 17.10 44.20 3.51
692 693 7.202139 GGATTTTGGGATAGTTCTATCCTGACT 60.202 40.741 27.47 15.03 44.20 3.41
693 694 7.510675 TTTTGGGATAGTTCTATCCTGACTT 57.489 36.000 27.47 0.00 44.20 3.01
694 695 7.510675 TTTGGGATAGTTCTATCCTGACTTT 57.489 36.000 27.47 0.00 44.20 2.66
695 696 8.618240 TTTGGGATAGTTCTATCCTGACTTTA 57.382 34.615 27.47 11.54 44.20 1.85
696 697 8.798975 TTGGGATAGTTCTATCCTGACTTTAT 57.201 34.615 27.47 0.00 44.20 1.40
697 698 8.798975 TGGGATAGTTCTATCCTGACTTTATT 57.201 34.615 27.47 0.00 44.20 1.40
698 699 9.225682 TGGGATAGTTCTATCCTGACTTTATTT 57.774 33.333 27.47 0.00 44.20 1.40
699 700 9.713713 GGGATAGTTCTATCCTGACTTTATTTC 57.286 37.037 27.47 11.01 44.20 2.17
703 704 8.616799 AGTTCTATCCTGACTTTATTTCTCCT 57.383 34.615 0.00 0.00 0.00 3.69
704 705 8.700973 AGTTCTATCCTGACTTTATTTCTCCTC 58.299 37.037 0.00 0.00 0.00 3.71
705 706 8.700973 GTTCTATCCTGACTTTATTTCTCCTCT 58.299 37.037 0.00 0.00 0.00 3.69
706 707 8.846423 TCTATCCTGACTTTATTTCTCCTCTT 57.154 34.615 0.00 0.00 0.00 2.85
707 708 9.273137 TCTATCCTGACTTTATTTCTCCTCTTT 57.727 33.333 0.00 0.00 0.00 2.52
708 709 9.898152 CTATCCTGACTTTATTTCTCCTCTTTT 57.102 33.333 0.00 0.00 0.00 2.27
710 711 9.898152 ATCCTGACTTTATTTCTCCTCTTTTAG 57.102 33.333 0.00 0.00 0.00 1.85
711 712 8.881262 TCCTGACTTTATTTCTCCTCTTTTAGT 58.119 33.333 0.00 0.00 0.00 2.24
722 723 9.847224 TTTCTCCTCTTTTAGTAAATGACTTGT 57.153 29.630 7.03 0.00 39.81 3.16
723 724 9.490379 TTCTCCTCTTTTAGTAAATGACTTGTC 57.510 33.333 7.03 0.00 39.81 3.18
724 725 8.871125 TCTCCTCTTTTAGTAAATGACTTGTCT 58.129 33.333 7.03 0.00 39.81 3.41
735 736 9.823647 AGTAAATGACTTGTCTATTATGTGAGG 57.176 33.333 2.35 0.00 33.13 3.86
736 737 9.817809 GTAAATGACTTGTCTATTATGTGAGGA 57.182 33.333 2.35 0.00 0.00 3.71
738 739 9.911788 AAATGACTTGTCTATTATGTGAGGAAT 57.088 29.630 2.35 0.00 0.00 3.01
752 753 9.905713 TTATGTGAGGAATAAAGTCTATTTGCT 57.094 29.630 0.00 0.00 0.00 3.91
753 754 7.615582 TGTGAGGAATAAAGTCTATTTGCTG 57.384 36.000 0.00 0.00 0.00 4.41
754 755 7.168219 TGTGAGGAATAAAGTCTATTTGCTGT 58.832 34.615 0.00 0.00 0.00 4.40
755 756 8.318412 TGTGAGGAATAAAGTCTATTTGCTGTA 58.682 33.333 0.00 0.00 0.00 2.74
756 757 9.162764 GTGAGGAATAAAGTCTATTTGCTGTAA 57.837 33.333 0.00 0.00 0.00 2.41
757 758 9.733556 TGAGGAATAAAGTCTATTTGCTGTAAA 57.266 29.630 0.00 0.00 0.00 2.01
803 804 6.486941 AGGGTTCCTTTGGAAATAATCGTTA 58.513 36.000 0.12 0.00 43.86 3.18
832 833 5.079689 TGGTGCTACGTGATTCTAATTCA 57.920 39.130 0.00 0.00 0.00 2.57
833 834 5.670485 TGGTGCTACGTGATTCTAATTCAT 58.330 37.500 0.00 0.00 0.00 2.57
834 835 6.112734 TGGTGCTACGTGATTCTAATTCATT 58.887 36.000 0.00 0.00 0.00 2.57
835 836 6.597672 TGGTGCTACGTGATTCTAATTCATTT 59.402 34.615 0.00 0.00 0.00 2.32
836 837 7.766738 TGGTGCTACGTGATTCTAATTCATTTA 59.233 33.333 0.00 0.00 0.00 1.40
837 838 8.062448 GGTGCTACGTGATTCTAATTCATTTAC 58.938 37.037 0.00 0.00 0.00 2.01
838 839 8.600625 GTGCTACGTGATTCTAATTCATTTACA 58.399 33.333 0.00 0.00 0.00 2.41
839 840 9.157104 TGCTACGTGATTCTAATTCATTTACAA 57.843 29.630 0.00 0.00 0.00 2.41
840 841 9.638300 GCTACGTGATTCTAATTCATTTACAAG 57.362 33.333 0.00 0.00 0.00 3.16
890 911 2.322658 AGAACTACTTTCCCCACGACA 58.677 47.619 0.00 0.00 34.32 4.35
1013 1945 6.071560 CCAACAGGGCTACTATATATTGACGA 60.072 42.308 0.95 0.00 0.00 4.20
1038 1970 1.401409 CGGTGCATGACCAAACATCAC 60.401 52.381 12.80 0.00 46.55 3.06
1039 1971 1.612950 GGTGCATGACCAAACATCACA 59.387 47.619 0.00 0.00 45.34 3.58
1040 1972 2.231964 GGTGCATGACCAAACATCACAT 59.768 45.455 0.00 0.00 45.34 3.21
1041 1973 3.443329 GGTGCATGACCAAACATCACATA 59.557 43.478 0.00 0.00 45.34 2.29
1049 1981 3.309682 ACCAAACATCACATAATCTCGCG 59.690 43.478 0.00 0.00 0.00 5.87
1087 2020 1.574428 CACCAGGCGTTTCTTTCCG 59.426 57.895 0.00 0.00 0.00 4.30
1132 2067 3.556513 CGATACTAGAGTCCAACATCGC 58.443 50.000 0.00 0.00 28.90 4.58
1177 2124 2.262915 CTCCGGCGAAGACAAGCT 59.737 61.111 9.30 0.00 27.25 3.74
1205 2161 1.620323 CCATCAGATATGTCCGGCAGA 59.380 52.381 0.00 0.00 0.00 4.26
1242 2201 4.120331 GGGCTGTGGCGAACATGC 62.120 66.667 0.00 0.00 38.39 4.06
1281 2240 4.704103 AGGGCTCAGGTCTCGGCA 62.704 66.667 0.00 0.00 0.00 5.69
1283 2242 3.386237 GGCTCAGGTCTCGGCACT 61.386 66.667 0.00 0.00 0.00 4.40
1517 2482 1.213926 GACATGAGGCTTCAAGGGGAT 59.786 52.381 1.33 0.00 36.78 3.85
1577 2548 1.204113 AGTCCAAGAAGGGGCTCCAG 61.204 60.000 4.79 0.00 39.03 3.86
1622 2593 1.787462 AAGCCAGGCTGCCTTCTTCT 61.787 55.000 20.79 10.48 39.62 2.85
1767 2738 1.284198 ACTTACCCGAGAGCCTCTACA 59.716 52.381 0.00 0.00 0.00 2.74
1772 2744 1.134037 CCCGAGAGCCTCTACAGTACT 60.134 57.143 0.00 0.00 0.00 2.73
2007 2980 1.030457 GTCGATCCTAGAGGCCGAAA 58.970 55.000 12.35 0.00 39.95 3.46
2018 2991 5.183140 CCTAGAGGCCGAAAAATTCTTTGAA 59.817 40.000 0.00 0.00 0.00 2.69
2028 3001 8.401709 CCGAAAAATTCTTTGAAAAATGGGAAA 58.598 29.630 0.00 0.00 0.00 3.13
2031 3004 7.878547 AAATTCTTTGAAAAATGGGAAAGCA 57.121 28.000 0.00 0.00 0.00 3.91
2080 3059 3.411517 CTCGTTGGGGGAGGCCAT 61.412 66.667 5.01 0.00 0.00 4.40
2192 3171 1.739466 GTCGATCCTGCAATGCAAGAA 59.261 47.619 10.81 0.00 38.41 2.52
2278 3420 9.725019 ATTTCTGTTGTAAAGATGTAGTCATGA 57.275 29.630 0.00 0.00 34.06 3.07
2367 3561 7.724287 TCATCAGAGACATTGGAGATTAAGAG 58.276 38.462 0.00 0.00 0.00 2.85
2470 3666 6.446781 AATTTGCAGGAGACATAATCACAG 57.553 37.500 0.00 0.00 0.00 3.66
2499 3695 9.069082 AGATGTGTATCCTAGTGTATTGTAGTC 57.931 37.037 0.00 0.00 33.64 2.59
2611 3819 3.750371 TCCAGACAACCACTTATGTTGG 58.250 45.455 7.89 0.00 45.72 3.77
2616 3824 2.882137 ACAACCACTTATGTTGGGAACG 59.118 45.455 7.89 0.00 45.72 3.95
2630 3838 4.130286 TGGGAACGCTTGAACAATTTTT 57.870 36.364 0.00 0.00 0.00 1.94
2718 3927 2.753989 TGGCGCGTGAAAATATCATG 57.246 45.000 8.43 0.00 46.09 3.07
2735 3944 4.046938 TCATGGTCGATTCTTCAGTAGC 57.953 45.455 0.00 0.00 0.00 3.58
2955 4289 3.282831 AGAAAAATTCCGCCTTGTTCG 57.717 42.857 0.00 0.00 0.00 3.95
2995 4329 9.539825 CATTGTATATAGCAGATCAGTTATCCC 57.460 37.037 0.00 0.00 34.90 3.85
2999 4333 9.409918 GTATATAGCAGATCAGTTATCCCTGTA 57.590 37.037 0.00 0.00 34.90 2.74
3045 4379 8.181573 TCACTTTTGCTTGTAAACTCTTGTAAG 58.818 33.333 0.00 0.00 0.00 2.34
3062 4396 8.357290 TCTTGTAAGAGTGCTAAGGTTATGTA 57.643 34.615 0.00 0.00 0.00 2.29
3066 4400 8.537016 TGTAAGAGTGCTAAGGTTATGTATGTT 58.463 33.333 0.00 0.00 0.00 2.71
3068 4402 8.943909 AAGAGTGCTAAGGTTATGTATGTTAC 57.056 34.615 0.00 0.00 0.00 2.50
3072 4406 9.198475 AGTGCTAAGGTTATGTATGTTACTAGT 57.802 33.333 0.00 0.00 0.00 2.57
3090 4424 6.365970 ACTAGTTTGGAACATGAGAGATGT 57.634 37.500 0.00 0.00 39.30 3.06
3103 4437 4.640364 TGAGAGATGTGTGCATGTTTGTA 58.360 39.130 0.00 0.00 35.07 2.41
3136 4470 6.976934 ACCAATCCAACAAATTAGTCAGTT 57.023 33.333 0.00 0.00 0.00 3.16
3138 4472 8.472007 ACCAATCCAACAAATTAGTCAGTTAA 57.528 30.769 0.00 0.00 0.00 2.01
3304 4849 5.898174 TGAATACCACACGACTACAATAGG 58.102 41.667 0.00 0.00 0.00 2.57
3355 4900 4.697352 CCAATTTTCAGTAGTCACTCCAGG 59.303 45.833 0.00 0.00 30.46 4.45
3361 4906 3.964688 TCAGTAGTCACTCCAGGAAACAA 59.035 43.478 0.00 0.00 30.46 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
49 50 2.794631 GCGTGACAAACCACAAGGAAAG 60.795 50.000 0.00 0.00 38.69 2.62
73 74 1.896220 TCGCTGAAGCAAGGAAACAT 58.104 45.000 2.79 0.00 42.21 2.71
103 104 2.030363 TCAATGCAAGACGGCGAAATTT 60.030 40.909 16.62 0.00 36.28 1.82
104 105 1.539388 TCAATGCAAGACGGCGAAATT 59.461 42.857 16.62 1.47 36.28 1.82
105 106 1.164411 TCAATGCAAGACGGCGAAAT 58.836 45.000 16.62 0.00 36.28 2.17
148 149 2.521958 CTTAGGGCGGGTGACACCAG 62.522 65.000 25.75 22.49 41.02 4.00
156 157 0.626916 TAAATTGGCTTAGGGCGGGT 59.373 50.000 0.00 0.00 42.94 5.28
160 161 1.000274 CCGCATAAATTGGCTTAGGGC 60.000 52.381 0.00 0.00 40.90 5.19
165 166 0.746659 GCTCCCGCATAAATTGGCTT 59.253 50.000 0.00 0.00 35.78 4.35
183 184 1.311651 GGGCCAGAAAGAAGCAGAGC 61.312 60.000 4.39 0.00 0.00 4.09
188 189 2.360475 AGCGGGCCAGAAAGAAGC 60.360 61.111 7.23 0.00 0.00 3.86
198 199 4.179579 GTTGCGATTGAGCGGGCC 62.180 66.667 0.00 0.00 40.67 5.80
214 215 2.303549 CTGCGGCTGCTAGGCTTAGT 62.304 60.000 20.27 0.00 43.34 2.24
244 245 0.744414 GCTGAATGGGAGCTACGCAA 60.744 55.000 6.93 0.00 44.22 4.85
257 258 1.134159 GGGCTCTGTCTGATGCTGAAT 60.134 52.381 0.00 0.00 0.00 2.57
289 290 1.244697 ATCCTGCGTCTCGACACAGT 61.245 55.000 12.49 0.00 39.22 3.55
300 301 1.741732 GCACAAGAGATCATCCTGCGT 60.742 52.381 0.00 0.00 0.00 5.24
324 325 5.686847 GTGAAGCAAAGCTGCAGTTCCTC 62.687 52.174 16.64 2.52 45.87 3.71
388 389 2.425773 GCACGTCAAGCTGCAACG 60.426 61.111 16.86 16.86 41.93 4.10
399 400 1.323271 TGATCCTCTCCCTGCACGTC 61.323 60.000 0.00 0.00 0.00 4.34
407 408 1.622811 CTAGGTGCATGATCCTCTCCC 59.377 57.143 11.49 0.00 35.51 4.30
423 424 3.560882 GGATGAGGCCAATCCAATCTAGG 60.561 52.174 25.38 0.00 37.29 3.02
432 433 1.700955 ATGCTTGGATGAGGCCAATC 58.299 50.000 5.01 7.80 46.19 2.67
434 435 1.187974 CAATGCTTGGATGAGGCCAA 58.812 50.000 5.01 0.00 45.28 4.52
436 437 1.134907 CAACAATGCTTGGATGAGGCC 60.135 52.381 0.00 0.00 34.12 5.19
453 454 2.039084 AGGGTTCCATGAGACTGTCAAC 59.961 50.000 10.88 4.40 39.19 3.18
454 455 2.038952 CAGGGTTCCATGAGACTGTCAA 59.961 50.000 10.88 0.00 39.19 3.18
465 466 2.550175 CCAAAATTCCCAGGGTTCCAT 58.450 47.619 5.01 0.00 0.00 3.41
471 472 1.063183 TTTGGCCAAAATTCCCAGGG 58.937 50.000 28.57 0.00 0.00 4.45
548 549 1.550976 GAGGAACACGAATCTGTCCCT 59.449 52.381 0.00 0.00 0.00 4.20
552 553 3.403038 CTTTGGAGGAACACGAATCTGT 58.597 45.455 0.00 0.00 0.00 3.41
553 554 2.744202 CCTTTGGAGGAACACGAATCTG 59.256 50.000 0.00 0.00 46.74 2.90
554 555 3.059352 CCTTTGGAGGAACACGAATCT 57.941 47.619 0.00 0.00 46.74 2.40
565 566 0.749454 CCGGCAGATTCCTTTGGAGG 60.749 60.000 0.00 0.00 45.02 4.30
566 567 0.035056 ACCGGCAGATTCCTTTGGAG 60.035 55.000 0.00 0.00 31.21 3.86
567 568 1.281419 TACCGGCAGATTCCTTTGGA 58.719 50.000 0.00 0.00 0.00 3.53
568 569 2.348411 ATACCGGCAGATTCCTTTGG 57.652 50.000 0.00 0.00 0.00 3.28
569 570 3.278574 TGAATACCGGCAGATTCCTTTG 58.721 45.455 17.24 0.00 32.13 2.77
570 571 3.644966 TGAATACCGGCAGATTCCTTT 57.355 42.857 17.24 0.00 32.13 3.11
571 572 3.864789 ATGAATACCGGCAGATTCCTT 57.135 42.857 17.24 6.51 32.13 3.36
572 573 3.864789 AATGAATACCGGCAGATTCCT 57.135 42.857 17.24 8.42 32.13 3.36
573 574 3.632145 ACAAATGAATACCGGCAGATTCC 59.368 43.478 17.24 5.06 32.13 3.01
574 575 4.601019 CACAAATGAATACCGGCAGATTC 58.399 43.478 0.00 9.39 33.48 2.52
575 576 3.181487 GCACAAATGAATACCGGCAGATT 60.181 43.478 0.00 0.00 0.00 2.40
576 577 2.358898 GCACAAATGAATACCGGCAGAT 59.641 45.455 0.00 0.00 0.00 2.90
577 578 1.742831 GCACAAATGAATACCGGCAGA 59.257 47.619 0.00 0.00 0.00 4.26
578 579 1.472082 TGCACAAATGAATACCGGCAG 59.528 47.619 0.00 0.00 0.00 4.85
579 580 1.539157 TGCACAAATGAATACCGGCA 58.461 45.000 0.00 0.00 0.00 5.69
580 581 2.859538 CAATGCACAAATGAATACCGGC 59.140 45.455 0.00 0.00 0.00 6.13
581 582 4.108699 ACAATGCACAAATGAATACCGG 57.891 40.909 0.00 0.00 0.00 5.28
582 583 6.464895 AAAACAATGCACAAATGAATACCG 57.535 33.333 0.00 0.00 0.00 4.02
583 584 6.145371 ACGAAAACAATGCACAAATGAATACC 59.855 34.615 0.00 0.00 0.00 2.73
584 585 7.003072 CACGAAAACAATGCACAAATGAATAC 58.997 34.615 0.00 0.00 0.00 1.89
585 586 6.920210 TCACGAAAACAATGCACAAATGAATA 59.080 30.769 0.00 0.00 0.00 1.75
586 587 5.752472 TCACGAAAACAATGCACAAATGAAT 59.248 32.000 0.00 0.00 0.00 2.57
587 588 5.105063 TCACGAAAACAATGCACAAATGAA 58.895 33.333 0.00 0.00 0.00 2.57
588 589 4.676546 TCACGAAAACAATGCACAAATGA 58.323 34.783 0.00 0.00 0.00 2.57
589 590 5.386810 TTCACGAAAACAATGCACAAATG 57.613 34.783 0.00 0.00 0.00 2.32
590 591 4.025813 GCTTCACGAAAACAATGCACAAAT 60.026 37.500 0.00 0.00 0.00 2.32
591 592 3.305629 GCTTCACGAAAACAATGCACAAA 59.694 39.130 0.00 0.00 0.00 2.83
592 593 2.857152 GCTTCACGAAAACAATGCACAA 59.143 40.909 0.00 0.00 0.00 3.33
593 594 2.458951 GCTTCACGAAAACAATGCACA 58.541 42.857 0.00 0.00 0.00 4.57
606 607 2.279582 ACTACCTCATTCGCTTCACG 57.720 50.000 0.00 0.00 45.62 4.35
607 608 4.634184 TCTACTACCTCATTCGCTTCAC 57.366 45.455 0.00 0.00 0.00 3.18
608 609 5.048643 GCTATCTACTACCTCATTCGCTTCA 60.049 44.000 0.00 0.00 0.00 3.02
609 610 5.395642 GCTATCTACTACCTCATTCGCTTC 58.604 45.833 0.00 0.00 0.00 3.86
610 611 4.218852 GGCTATCTACTACCTCATTCGCTT 59.781 45.833 0.00 0.00 0.00 4.68
611 612 3.759618 GGCTATCTACTACCTCATTCGCT 59.240 47.826 0.00 0.00 0.00 4.93
612 613 3.759618 AGGCTATCTACTACCTCATTCGC 59.240 47.826 0.00 0.00 0.00 4.70
613 614 5.065474 GCTAGGCTATCTACTACCTCATTCG 59.935 48.000 0.00 0.00 33.60 3.34
614 615 6.184789 AGCTAGGCTATCTACTACCTCATTC 58.815 44.000 0.00 0.00 36.99 2.67
615 616 6.147437 AGCTAGGCTATCTACTACCTCATT 57.853 41.667 0.00 0.00 36.99 2.57
616 617 5.789574 AGCTAGGCTATCTACTACCTCAT 57.210 43.478 0.00 0.00 36.99 2.90
617 618 6.024247 TCTAGCTAGGCTATCTACTACCTCA 58.976 44.000 20.58 0.00 40.54 3.86
618 619 6.549433 TCTAGCTAGGCTATCTACTACCTC 57.451 45.833 20.58 0.00 40.54 3.85
619 620 6.956102 TTCTAGCTAGGCTATCTACTACCT 57.044 41.667 20.58 0.00 40.54 3.08
620 621 8.584063 AATTTCTAGCTAGGCTATCTACTACC 57.416 38.462 20.58 0.00 40.54 3.18
621 622 9.457436 AGAATTTCTAGCTAGGCTATCTACTAC 57.543 37.037 20.58 2.03 40.54 2.73
622 623 9.675464 GAGAATTTCTAGCTAGGCTATCTACTA 57.325 37.037 20.58 0.00 40.54 1.82
623 624 8.390921 AGAGAATTTCTAGCTAGGCTATCTACT 58.609 37.037 20.58 13.72 40.54 2.57
624 625 8.575649 AGAGAATTTCTAGCTAGGCTATCTAC 57.424 38.462 20.58 12.20 40.54 2.59
626 627 9.020731 GTAAGAGAATTTCTAGCTAGGCTATCT 57.979 37.037 20.58 17.45 40.54 1.98
627 628 8.248253 GGTAAGAGAATTTCTAGCTAGGCTATC 58.752 40.741 20.58 13.52 40.54 2.08
628 629 7.730784 TGGTAAGAGAATTTCTAGCTAGGCTAT 59.269 37.037 20.58 8.79 40.54 2.97
629 630 7.067421 TGGTAAGAGAATTTCTAGCTAGGCTA 58.933 38.462 20.58 6.85 40.44 3.93
630 631 5.900123 TGGTAAGAGAATTTCTAGCTAGGCT 59.100 40.000 20.58 10.13 43.41 4.58
631 632 6.163135 TGGTAAGAGAATTTCTAGCTAGGC 57.837 41.667 20.58 5.78 34.14 3.93
632 633 9.921637 CTAATGGTAAGAGAATTTCTAGCTAGG 57.078 37.037 20.58 2.51 34.14 3.02
639 640 9.844257 CCAAGATCTAATGGTAAGAGAATTTCT 57.156 33.333 5.40 0.00 32.78 2.52
640 641 9.061435 CCCAAGATCTAATGGTAAGAGAATTTC 57.939 37.037 11.67 0.00 34.79 2.17
641 642 8.001292 CCCCAAGATCTAATGGTAAGAGAATTT 58.999 37.037 11.67 0.00 34.79 1.82
642 643 7.350921 TCCCCAAGATCTAATGGTAAGAGAATT 59.649 37.037 11.67 0.00 34.79 2.17
643 644 6.851836 TCCCCAAGATCTAATGGTAAGAGAAT 59.148 38.462 11.67 0.00 34.79 2.40
644 645 6.209774 TCCCCAAGATCTAATGGTAAGAGAA 58.790 40.000 11.67 0.00 34.79 2.87
645 646 5.788430 TCCCCAAGATCTAATGGTAAGAGA 58.212 41.667 11.67 0.00 34.79 3.10
646 647 6.694445 ATCCCCAAGATCTAATGGTAAGAG 57.306 41.667 11.67 0.00 34.79 2.85
647 648 7.465900 AAATCCCCAAGATCTAATGGTAAGA 57.534 36.000 11.67 6.61 32.47 2.10
648 649 7.014615 CCAAAATCCCCAAGATCTAATGGTAAG 59.985 40.741 11.67 2.04 32.47 2.34
649 650 6.838612 CCAAAATCCCCAAGATCTAATGGTAA 59.161 38.462 11.67 1.22 32.47 2.85
650 651 6.372931 CCAAAATCCCCAAGATCTAATGGTA 58.627 40.000 11.67 1.50 32.47 3.25
651 652 5.211201 CCAAAATCCCCAAGATCTAATGGT 58.789 41.667 11.67 0.00 32.47 3.55
652 653 4.590222 CCCAAAATCCCCAAGATCTAATGG 59.410 45.833 6.48 6.48 32.47 3.16
653 654 5.457686 TCCCAAAATCCCCAAGATCTAATG 58.542 41.667 0.00 0.00 32.47 1.90
654 655 5.749422 TCCCAAAATCCCCAAGATCTAAT 57.251 39.130 0.00 0.00 32.47 1.73
655 656 5.749422 ATCCCAAAATCCCCAAGATCTAA 57.251 39.130 0.00 0.00 32.47 2.10
656 657 5.917087 ACTATCCCAAAATCCCCAAGATCTA 59.083 40.000 0.00 0.00 32.47 1.98
657 658 4.733988 ACTATCCCAAAATCCCCAAGATCT 59.266 41.667 0.00 0.00 32.47 2.75
658 659 5.066913 ACTATCCCAAAATCCCCAAGATC 57.933 43.478 0.00 0.00 32.47 2.75
659 660 5.196574 AGAACTATCCCAAAATCCCCAAGAT 59.803 40.000 0.00 0.00 36.48 2.40
660 661 4.544152 AGAACTATCCCAAAATCCCCAAGA 59.456 41.667 0.00 0.00 0.00 3.02
661 662 4.871822 AGAACTATCCCAAAATCCCCAAG 58.128 43.478 0.00 0.00 0.00 3.61
662 663 4.965283 AGAACTATCCCAAAATCCCCAA 57.035 40.909 0.00 0.00 0.00 4.12
663 664 6.200878 GATAGAACTATCCCAAAATCCCCA 57.799 41.667 9.84 0.00 36.75 4.96
677 678 9.716556 AGGAGAAATAAAGTCAGGATAGAACTA 57.283 33.333 0.00 0.00 0.00 2.24
678 679 8.616799 AGGAGAAATAAAGTCAGGATAGAACT 57.383 34.615 0.00 0.00 0.00 3.01
679 680 8.700973 AGAGGAGAAATAAAGTCAGGATAGAAC 58.299 37.037 0.00 0.00 0.00 3.01
680 681 8.846423 AGAGGAGAAATAAAGTCAGGATAGAA 57.154 34.615 0.00 0.00 0.00 2.10
681 682 8.846423 AAGAGGAGAAATAAAGTCAGGATAGA 57.154 34.615 0.00 0.00 0.00 1.98
682 683 9.898152 AAAAGAGGAGAAATAAAGTCAGGATAG 57.102 33.333 0.00 0.00 0.00 2.08
684 685 9.898152 CTAAAAGAGGAGAAATAAAGTCAGGAT 57.102 33.333 0.00 0.00 0.00 3.24
685 686 8.881262 ACTAAAAGAGGAGAAATAAAGTCAGGA 58.119 33.333 0.00 0.00 0.00 3.86
696 697 9.847224 ACAAGTCATTTACTAAAAGAGGAGAAA 57.153 29.630 0.00 0.00 37.50 2.52
697 698 9.490379 GACAAGTCATTTACTAAAAGAGGAGAA 57.510 33.333 0.00 0.00 37.50 2.87
698 699 8.871125 AGACAAGTCATTTACTAAAAGAGGAGA 58.129 33.333 2.72 0.00 37.50 3.71
709 710 9.823647 CCTCACATAATAGACAAGTCATTTACT 57.176 33.333 2.72 0.00 41.49 2.24
710 711 9.817809 TCCTCACATAATAGACAAGTCATTTAC 57.182 33.333 2.72 0.00 0.00 2.01
712 713 9.911788 ATTCCTCACATAATAGACAAGTCATTT 57.088 29.630 2.72 0.00 0.00 2.32
726 727 9.905713 AGCAAATAGACTTTATTCCTCACATAA 57.094 29.630 0.00 0.00 0.00 1.90
727 728 9.330063 CAGCAAATAGACTTTATTCCTCACATA 57.670 33.333 0.00 0.00 0.00 2.29
728 729 7.831193 ACAGCAAATAGACTTTATTCCTCACAT 59.169 33.333 0.00 0.00 0.00 3.21
729 730 7.168219 ACAGCAAATAGACTTTATTCCTCACA 58.832 34.615 0.00 0.00 0.00 3.58
730 731 7.617041 ACAGCAAATAGACTTTATTCCTCAC 57.383 36.000 0.00 0.00 0.00 3.51
731 732 9.733556 TTTACAGCAAATAGACTTTATTCCTCA 57.266 29.630 0.00 0.00 0.00 3.86
758 759 4.755123 CCTCGTATGTGTTGGACTCTTTTT 59.245 41.667 0.00 0.00 0.00 1.94
759 760 4.315803 CCTCGTATGTGTTGGACTCTTTT 58.684 43.478 0.00 0.00 0.00 2.27
760 761 3.306780 CCCTCGTATGTGTTGGACTCTTT 60.307 47.826 0.00 0.00 0.00 2.52
761 762 2.233922 CCCTCGTATGTGTTGGACTCTT 59.766 50.000 0.00 0.00 0.00 2.85
762 763 1.825474 CCCTCGTATGTGTTGGACTCT 59.175 52.381 0.00 0.00 0.00 3.24
890 911 1.133009 ACCGATTCTCTATGGCCTCCT 60.133 52.381 3.32 0.00 0.00 3.69
1021 1953 5.653330 AGATTATGTGATGTTTGGTCATGCA 59.347 36.000 0.00 0.00 0.00 3.96
1023 1955 6.424683 CGAGATTATGTGATGTTTGGTCATG 58.575 40.000 0.00 0.00 0.00 3.07
1027 1959 3.309682 CGCGAGATTATGTGATGTTTGGT 59.690 43.478 0.00 0.00 0.00 3.67
1038 1970 1.299541 AAACCTGGCGCGAGATTATG 58.700 50.000 21.98 6.03 0.00 1.90
1039 1971 1.940613 GAAAACCTGGCGCGAGATTAT 59.059 47.619 21.98 4.23 0.00 1.28
1040 1972 1.365699 GAAAACCTGGCGCGAGATTA 58.634 50.000 21.98 0.00 0.00 1.75
1041 1973 1.305930 GGAAAACCTGGCGCGAGATT 61.306 55.000 21.98 7.21 0.00 2.40
1087 2020 0.453449 GCAGACTACGCAGCAAAAGC 60.453 55.000 0.00 0.00 0.00 3.51
1177 2124 4.562143 CGGACATATCTGATGGATTGAGCA 60.562 45.833 0.00 0.00 35.98 4.26
1205 2161 1.299976 GCTGGGGAGGAACACGAAT 59.700 57.895 0.00 0.00 0.00 3.34
1229 2188 3.725459 CGCAGCATGTTCGCCACA 61.725 61.111 0.00 0.00 40.71 4.17
1242 2201 1.883084 GGTAGTTCCATCGCCGCAG 60.883 63.158 0.00 0.00 35.97 5.18
1281 2240 2.370445 CGATCCCTTGCCCCTGAGT 61.370 63.158 0.00 0.00 0.00 3.41
1283 2242 2.285368 ACGATCCCTTGCCCCTGA 60.285 61.111 0.00 0.00 0.00 3.86
1517 2482 2.643272 GTCGTCTCCACGCTGTCA 59.357 61.111 0.00 0.00 46.28 3.58
1588 2559 1.359459 GGCTTTCAACGTCCCTAGCG 61.359 60.000 0.00 0.00 0.00 4.26
1767 2738 3.435275 TGATCTTGCTCTCCACAGTACT 58.565 45.455 0.00 0.00 0.00 2.73
1772 2744 1.942776 TCCTGATCTTGCTCTCCACA 58.057 50.000 0.00 0.00 0.00 4.17
1838 2810 1.148273 GAAGGTGTCCCACTGCACA 59.852 57.895 0.00 0.00 37.35 4.57
2007 2980 7.467131 CGTGCTTTCCCATTTTTCAAAGAATTT 60.467 33.333 0.00 0.00 40.26 1.82
2018 2991 0.319813 GCAGCGTGCTTTCCCATTTT 60.320 50.000 0.00 0.00 40.96 1.82
2192 3171 6.038271 ACAAATTGCTAAAAAGACTGTCGAGT 59.962 34.615 1.52 0.00 33.98 4.18
2321 3503 9.809096 TGATGAAACTTATAGCTACTTGAGAAG 57.191 33.333 0.00 0.00 0.00 2.85
2322 3504 9.809096 CTGATGAAACTTATAGCTACTTGAGAA 57.191 33.333 0.00 0.00 0.00 2.87
2367 3561 3.759086 GGACTCCCAAGAAAAGGAACATC 59.241 47.826 0.00 0.00 0.00 3.06
2437 3632 5.298276 TGTCTCCTGCAAATTAAACGAACTT 59.702 36.000 0.00 0.00 0.00 2.66
2438 3633 4.819630 TGTCTCCTGCAAATTAAACGAACT 59.180 37.500 0.00 0.00 0.00 3.01
2442 3637 7.429340 GTGATTATGTCTCCTGCAAATTAAACG 59.571 37.037 0.00 0.00 0.00 3.60
2470 3666 7.717568 ACAATACACTAGGATACACATCTGTC 58.282 38.462 0.00 0.00 41.41 3.51
2484 3680 5.585445 ACTCCGACAGACTACAATACACTAG 59.415 44.000 0.00 0.00 0.00 2.57
2630 3838 1.588082 GACCGCGTACCCAGAAGAA 59.412 57.895 4.92 0.00 0.00 2.52
2632 3840 2.202570 CGACCGCGTACCCAGAAG 60.203 66.667 4.92 0.00 0.00 2.85
2686 3895 1.135699 CGCGCCATCACTGCATTTTC 61.136 55.000 0.00 0.00 0.00 2.29
2718 3927 2.197577 GCTGCTACTGAAGAATCGACC 58.802 52.381 0.00 0.00 0.00 4.79
2852 4179 5.936372 GCTCCATCATCATCATAAACAGCTA 59.064 40.000 0.00 0.00 0.00 3.32
2923 4256 6.592220 GGCGGAATTTTTCTAAAATAAGCCAA 59.408 34.615 20.59 0.00 36.14 4.52
2940 4274 1.084289 GCTACGAACAAGGCGGAATT 58.916 50.000 0.00 0.00 0.00 2.17
2941 4275 0.249398 AGCTACGAACAAGGCGGAAT 59.751 50.000 0.00 0.00 0.00 3.01
2955 4289 8.704234 GCTATATACAATGTTCAGTTGAGCTAC 58.296 37.037 0.00 0.00 0.00 3.58
2995 4329 7.753580 TGATAAAGTGAGACGTACATGTTACAG 59.246 37.037 2.30 0.00 0.00 2.74
2999 4333 6.688578 AGTGATAAAGTGAGACGTACATGTT 58.311 36.000 2.30 0.00 0.00 2.71
3045 4379 9.680315 CTAGTAACATACATAACCTTAGCACTC 57.320 37.037 0.00 0.00 0.00 3.51
3062 4396 7.907389 TCTCTCATGTTCCAAACTAGTAACAT 58.093 34.615 13.59 13.59 41.87 2.71
3066 4400 7.039011 ACACATCTCTCATGTTCCAAACTAGTA 60.039 37.037 0.00 0.00 0.00 1.82
3067 4401 6.169094 CACATCTCTCATGTTCCAAACTAGT 58.831 40.000 0.00 0.00 0.00 2.57
3068 4402 6.091849 CACACATCTCTCATGTTCCAAACTAG 59.908 42.308 0.00 0.00 0.00 2.57
3072 4406 3.503363 GCACACATCTCTCATGTTCCAAA 59.497 43.478 0.00 0.00 0.00 3.28
3090 4424 5.963176 ATCAGACATTACAAACATGCACA 57.037 34.783 0.00 0.00 0.00 4.57
3103 4437 7.722949 ATTTGTTGGATTGGTATCAGACATT 57.277 32.000 0.00 0.00 31.49 2.71
3136 4470 8.226819 TGTTTGGTTGTCAGTTTATGTCATTA 57.773 30.769 0.00 0.00 0.00 1.90
3138 4472 6.707440 TGTTTGGTTGTCAGTTTATGTCAT 57.293 33.333 0.00 0.00 0.00 3.06


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

AutoCloner maintained by Alex Coulton.