Multiple sequence alignment - TraesCS2B01G524500

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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 TraesCS2B01G524500 chr2B 100.000 3362 0 0 1 3362 718971344 718967983 0.000000e+00 6209.0
1 TraesCS2B01G524500 chr2B 79.002 481 86 13 1820 2291 719293457 719292983 7.000000e-82 315.0
2 TraesCS2B01G524500 chr2A 95.057 1659 60 12 727 2373 727246000 727244352 0.000000e+00 2590.0
3 TraesCS2B01G524500 chr2A 93.321 524 16 4 2855 3362 727243540 727243020 0.000000e+00 756.0
4 TraesCS2B01G524500 chr2A 79.466 487 88 12 1820 2300 727917769 727917289 5.370000e-88 335.0
5 TraesCS2B01G524500 chr2A 85.202 223 25 5 2424 2644 727244004 727243788 4.370000e-54 222.0
6 TraesCS2B01G524500 chr2A 90.164 122 8 4 2658 2776 727243641 727243521 4.490000e-34 156.0
7 TraesCS2B01G524500 chr2D 95.420 1572 49 9 818 2373 592792038 592790474 0.000000e+00 2483.0
8 TraesCS2B01G524500 chr2D 92.706 521 23 5 2855 3362 592789390 592788872 0.000000e+00 737.0
9 TraesCS2B01G524500 chr2D 91.960 398 16 7 2 395 592792778 592792393 8.200000e-151 544.0
10 TraesCS2B01G524500 chr2D 85.778 225 26 5 2424 2644 592790022 592789800 2.020000e-57 233.0
11 TraesCS2B01G524500 chr2D 93.548 93 5 1 2670 2762 592789479 592789388 1.630000e-28 137.0
12 TraesCS2B01G524500 chr2D 94.118 34 2 0 492 525 78690705 78690672 6.000000e-03 52.8
13 TraesCS2B01G524500 chr7D 79.234 496 89 14 1810 2300 416237841 416237355 1.930000e-87 333.0
14 TraesCS2B01G524500 chr7D 80.662 393 70 6 1094 1483 416238591 416238202 1.960000e-77 300.0
15 TraesCS2B01G524500 chr7B 78.672 497 90 16 1810 2300 431662987 431662501 1.950000e-82 316.0
16 TraesCS2B01G524500 chr7B 77.165 381 67 14 1121 1483 431663726 431663348 1.580000e-48 204.0
17 TraesCS2B01G524500 chr7B 97.059 102 3 0 2755 2856 40404564 40404463 4.460000e-39 172.0
18 TraesCS2B01G524500 chr7B 96.970 99 3 0 2760 2858 181033686 181033588 2.070000e-37 167.0
19 TraesCS2B01G524500 chr7A 78.226 496 94 14 1810 2300 478502748 478502262 4.210000e-79 305.0
20 TraesCS2B01G524500 chr7A 79.337 392 77 4 1094 1483 478503498 478503109 4.270000e-69 272.0
21 TraesCS2B01G524500 chr4B 92.623 122 6 3 2736 2856 29586891 29586772 4.460000e-39 172.0
22 TraesCS2B01G524500 chr4A 94.595 111 5 1 2746 2856 665601249 665601140 1.600000e-38 171.0
23 TraesCS2B01G524500 chr4A 92.920 113 7 1 2750 2862 703218554 703218665 2.680000e-36 163.0
24 TraesCS2B01G524500 chr3B 96.154 104 4 0 2760 2863 5951331 5951434 1.600000e-38 171.0
25 TraesCS2B01G524500 chr6D 95.283 106 5 0 2759 2864 52011184 52011289 5.770000e-38 169.0
26 TraesCS2B01G524500 chr6D 97.059 34 1 0 492 525 455101270 455101237 1.300000e-04 58.4
27 TraesCS2B01G524500 chr5B 93.694 111 6 1 2750 2860 701174652 701174761 7.460000e-37 165.0
28 TraesCS2B01G524500 chr6A 90.551 127 7 4 2735 2858 228534759 228534635 2.680000e-36 163.0
29 TraesCS2B01G524500 chr6B 100.000 38 0 0 70 107 608190161 608190198 1.670000e-08 71.3
30 TraesCS2B01G524500 chr3D 89.796 49 2 1 477 525 167036989 167037034 3.620000e-05 60.2


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 TraesCS2B01G524500 chr2B 718967983 718971344 3361 True 6209.0 6209 100.0000 1 3362 1 chr2B.!!$R1 3361
1 TraesCS2B01G524500 chr2A 727243020 727246000 2980 True 931.0 2590 90.9360 727 3362 4 chr2A.!!$R2 2635
2 TraesCS2B01G524500 chr2D 592788872 592792778 3906 True 826.8 2483 91.8824 2 3362 5 chr2D.!!$R2 3360
3 TraesCS2B01G524500 chr7D 416237355 416238591 1236 True 316.5 333 79.9480 1094 2300 2 chr7D.!!$R1 1206
4 TraesCS2B01G524500 chr7B 431662501 431663726 1225 True 260.0 316 77.9185 1121 2300 2 chr7B.!!$R3 1179
5 TraesCS2B01G524500 chr7A 478502262 478503498 1236 True 288.5 305 78.7815 1094 2300 2 chr7A.!!$R1 1206

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
376 381 0.034863 GTCCCTACATCGCCCCAAAA 60.035 55.0 0.0 0.0 0.00 2.44 F
790 922 0.042448 GCCTCGAAACACAACGTGTC 60.042 55.0 0.0 0.0 46.79 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1251 1396 0.107508 CGATGGACTTCATGGGCTGT 60.108 55.0 0.0 0.0 35.97 4.4 R
2674 3637 0.322456 TGCAGGCCTCCACATGTAAC 60.322 55.0 0.0 0.0 0.00 2.5 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
17 18 3.431055 ATGTTGCCCGTGTGTGTG 58.569 55.556 0.00 0.00 0.00 3.82
20 21 1.090625 TGTTGCCCGTGTGTGTGTAC 61.091 55.000 0.00 0.00 0.00 2.90
68 69 0.689623 AGGAATCCCAGATCGATGCC 59.310 55.000 0.54 0.00 35.83 4.40
83 84 1.599518 TGCCGACGCAAACAATCCT 60.600 52.632 0.00 0.00 43.74 3.24
135 136 0.468226 TGGTCACTCCCAACAGACAC 59.532 55.000 0.00 0.00 34.77 3.67
189 194 2.609459 CGTATCCTTGGATGTGCAGTTC 59.391 50.000 12.08 0.00 0.00 3.01
210 215 1.202245 GCCACGCAACTTCAAAAGTCA 60.202 47.619 0.00 0.00 41.91 3.41
216 221 3.115554 GCAACTTCAAAAGTCATTGCGT 58.884 40.909 0.00 0.00 41.91 5.24
290 295 5.580691 TGTAGGCTGTCTATTTTCGTTCATG 59.419 40.000 0.00 0.00 0.00 3.07
291 296 3.375299 AGGCTGTCTATTTTCGTTCATGC 59.625 43.478 0.00 0.00 0.00 4.06
292 297 3.126858 GGCTGTCTATTTTCGTTCATGCA 59.873 43.478 0.00 0.00 0.00 3.96
293 298 4.201950 GGCTGTCTATTTTCGTTCATGCAT 60.202 41.667 0.00 0.00 0.00 3.96
304 309 1.089112 TTCATGCATGTTCTCGCCTG 58.911 50.000 25.43 0.00 0.00 4.85
313 318 4.555511 GCATGTTCTCGCCTGAATATTTCC 60.556 45.833 0.00 0.00 0.00 3.13
321 326 6.590292 TCTCGCCTGAATATTTCCGATATTTC 59.410 38.462 0.00 0.00 0.00 2.17
324 329 7.444183 TCGCCTGAATATTTCCGATATTTCTTT 59.556 33.333 0.00 0.00 0.00 2.52
325 330 8.717821 CGCCTGAATATTTCCGATATTTCTTTA 58.282 33.333 0.00 0.00 0.00 1.85
376 381 0.034863 GTCCCTACATCGCCCCAAAA 60.035 55.000 0.00 0.00 0.00 2.44
395 400 3.525800 AAGTCAAACCAGCATACCCTT 57.474 42.857 0.00 0.00 0.00 3.95
397 402 2.375174 AGTCAAACCAGCATACCCTTCA 59.625 45.455 0.00 0.00 0.00 3.02
399 404 2.642311 TCAAACCAGCATACCCTTCAGA 59.358 45.455 0.00 0.00 0.00 3.27
400 405 3.266772 TCAAACCAGCATACCCTTCAGAT 59.733 43.478 0.00 0.00 0.00 2.90
401 406 4.473196 TCAAACCAGCATACCCTTCAGATA 59.527 41.667 0.00 0.00 0.00 1.98
402 407 5.132648 TCAAACCAGCATACCCTTCAGATAT 59.867 40.000 0.00 0.00 0.00 1.63
404 477 6.959606 AACCAGCATACCCTTCAGATATAT 57.040 37.500 0.00 0.00 0.00 0.86
406 479 6.951971 ACCAGCATACCCTTCAGATATATTC 58.048 40.000 0.00 0.00 0.00 1.75
411 484 9.678260 AGCATACCCTTCAGATATATTCATTTC 57.322 33.333 0.00 0.00 0.00 2.17
415 488 7.390027 ACCCTTCAGATATATTCATTTCTCCG 58.610 38.462 0.00 0.00 0.00 4.63
416 489 7.235606 ACCCTTCAGATATATTCATTTCTCCGA 59.764 37.037 0.00 0.00 0.00 4.55
417 490 7.547370 CCCTTCAGATATATTCATTTCTCCGAC 59.453 40.741 0.00 0.00 0.00 4.79
433 506 8.662781 TTTCTCCGACAAATAATTCTAGATGG 57.337 34.615 0.00 0.00 0.00 3.51
435 508 8.018537 TCTCCGACAAATAATTCTAGATGGAA 57.981 34.615 0.00 0.00 0.00 3.53
525 654 7.918536 AAGACGCTCTTATATTATAGGACGA 57.081 36.000 16.71 2.03 34.42 4.20
526 655 8.508883 AAGACGCTCTTATATTATAGGACGAT 57.491 34.615 16.71 8.24 34.42 3.73
527 656 8.508883 AGACGCTCTTATATTATAGGACGATT 57.491 34.615 16.71 7.84 0.00 3.34
603 735 9.927668 ACATTTAAATTATTGGAAGTGTGGAAG 57.072 29.630 0.00 0.00 0.00 3.46
615 747 1.131638 TGTGGAAGTCTTGCTCCTGT 58.868 50.000 5.63 0.00 0.00 4.00
621 753 1.818642 AGTCTTGCTCCTGTTGCATC 58.181 50.000 0.00 0.00 40.34 3.91
622 754 0.445436 GTCTTGCTCCTGTTGCATCG 59.555 55.000 0.00 0.00 40.34 3.84
623 755 0.321346 TCTTGCTCCTGTTGCATCGA 59.679 50.000 0.00 0.00 40.34 3.59
624 756 1.065926 TCTTGCTCCTGTTGCATCGAT 60.066 47.619 0.00 0.00 40.34 3.59
625 757 1.329906 CTTGCTCCTGTTGCATCGATC 59.670 52.381 0.00 0.00 40.34 3.69
626 758 0.462581 TGCTCCTGTTGCATCGATCC 60.463 55.000 0.00 0.00 35.31 3.36
627 759 1.493950 GCTCCTGTTGCATCGATCCG 61.494 60.000 0.00 0.00 0.00 4.18
628 760 1.493950 CTCCTGTTGCATCGATCCGC 61.494 60.000 0.00 0.00 0.00 5.54
629 761 2.622629 CTGTTGCATCGATCCGCG 59.377 61.111 0.00 0.00 42.69 6.46
637 769 4.923710 TCGATCCGCGACATGCCG 62.924 66.667 8.23 0.00 45.59 5.69
639 771 3.630148 GATCCGCGACATGCCGTG 61.630 66.667 8.23 8.09 42.08 4.94
640 772 4.141965 ATCCGCGACATGCCGTGA 62.142 61.111 16.88 7.36 42.05 4.35
641 773 3.657448 ATCCGCGACATGCCGTGAA 62.657 57.895 16.88 0.00 42.05 3.18
642 774 2.923426 ATCCGCGACATGCCGTGAAT 62.923 55.000 16.88 0.00 42.05 2.57
643 775 1.880796 CCGCGACATGCCGTGAATA 60.881 57.895 16.88 0.00 42.05 1.75
644 776 1.425267 CCGCGACATGCCGTGAATAA 61.425 55.000 16.88 0.00 42.05 1.40
645 777 0.371989 CGCGACATGCCGTGAATAAA 59.628 50.000 9.53 0.00 42.05 1.40
646 778 1.592110 CGCGACATGCCGTGAATAAAG 60.592 52.381 9.53 0.00 42.05 1.85
647 779 1.856014 GCGACATGCCGTGAATAAAGC 60.856 52.381 2.68 0.00 37.76 3.51
648 780 1.665679 CGACATGCCGTGAATAAAGCT 59.334 47.619 0.00 0.00 0.00 3.74
649 781 2.285834 CGACATGCCGTGAATAAAGCTC 60.286 50.000 0.00 0.00 0.00 4.09
650 782 1.665679 ACATGCCGTGAATAAAGCTCG 59.334 47.619 0.00 0.00 0.00 5.03
651 783 1.665679 CATGCCGTGAATAAAGCTCGT 59.334 47.619 0.00 0.00 0.00 4.18
652 784 1.803334 TGCCGTGAATAAAGCTCGTT 58.197 45.000 0.00 0.00 0.00 3.85
653 785 1.463056 TGCCGTGAATAAAGCTCGTTG 59.537 47.619 0.00 0.00 0.00 4.10
654 786 1.463444 GCCGTGAATAAAGCTCGTTGT 59.537 47.619 0.00 0.00 0.00 3.32
655 787 2.474032 GCCGTGAATAAAGCTCGTTGTC 60.474 50.000 0.00 0.00 0.00 3.18
656 788 2.993899 CCGTGAATAAAGCTCGTTGTCT 59.006 45.455 0.00 0.00 0.00 3.41
657 789 3.060895 CCGTGAATAAAGCTCGTTGTCTC 59.939 47.826 0.00 0.00 0.00 3.36
658 790 3.060895 CGTGAATAAAGCTCGTTGTCTCC 59.939 47.826 0.00 0.00 0.00 3.71
659 791 4.246458 GTGAATAAAGCTCGTTGTCTCCT 58.754 43.478 0.00 0.00 0.00 3.69
660 792 4.327627 GTGAATAAAGCTCGTTGTCTCCTC 59.672 45.833 0.00 0.00 0.00 3.71
661 793 4.220821 TGAATAAAGCTCGTTGTCTCCTCT 59.779 41.667 0.00 0.00 0.00 3.69
662 794 5.417894 TGAATAAAGCTCGTTGTCTCCTCTA 59.582 40.000 0.00 0.00 0.00 2.43
663 795 5.916661 ATAAAGCTCGTTGTCTCCTCTAA 57.083 39.130 0.00 0.00 0.00 2.10
664 796 4.602340 AAAGCTCGTTGTCTCCTCTAAA 57.398 40.909 0.00 0.00 0.00 1.85
665 797 4.602340 AAGCTCGTTGTCTCCTCTAAAA 57.398 40.909 0.00 0.00 0.00 1.52
666 798 3.915536 AGCTCGTTGTCTCCTCTAAAAC 58.084 45.455 0.00 0.00 0.00 2.43
667 799 3.574826 AGCTCGTTGTCTCCTCTAAAACT 59.425 43.478 0.00 0.00 0.00 2.66
668 800 3.921630 GCTCGTTGTCTCCTCTAAAACTC 59.078 47.826 0.00 0.00 0.00 3.01
669 801 4.487019 CTCGTTGTCTCCTCTAAAACTCC 58.513 47.826 0.00 0.00 0.00 3.85
670 802 3.893200 TCGTTGTCTCCTCTAAAACTCCA 59.107 43.478 0.00 0.00 0.00 3.86
671 803 4.527038 TCGTTGTCTCCTCTAAAACTCCAT 59.473 41.667 0.00 0.00 0.00 3.41
672 804 4.865365 CGTTGTCTCCTCTAAAACTCCATC 59.135 45.833 0.00 0.00 0.00 3.51
673 805 5.336849 CGTTGTCTCCTCTAAAACTCCATCT 60.337 44.000 0.00 0.00 0.00 2.90
674 806 5.923733 TGTCTCCTCTAAAACTCCATCTC 57.076 43.478 0.00 0.00 0.00 2.75
675 807 5.333581 TGTCTCCTCTAAAACTCCATCTCA 58.666 41.667 0.00 0.00 0.00 3.27
676 808 5.780282 TGTCTCCTCTAAAACTCCATCTCAA 59.220 40.000 0.00 0.00 0.00 3.02
677 809 6.103330 GTCTCCTCTAAAACTCCATCTCAAC 58.897 44.000 0.00 0.00 0.00 3.18
678 810 5.073311 TCCTCTAAAACTCCATCTCAACG 57.927 43.478 0.00 0.00 0.00 4.10
679 811 4.081642 TCCTCTAAAACTCCATCTCAACGG 60.082 45.833 0.00 0.00 0.00 4.44
680 812 4.081642 CCTCTAAAACTCCATCTCAACGGA 60.082 45.833 0.00 0.00 0.00 4.69
684 816 3.840831 CTCCATCTCAACGGAGCAA 57.159 52.632 0.00 0.00 42.30 3.91
685 817 2.099141 CTCCATCTCAACGGAGCAAA 57.901 50.000 0.00 0.00 42.30 3.68
686 818 1.734465 CTCCATCTCAACGGAGCAAAC 59.266 52.381 0.00 0.00 42.30 2.93
687 819 1.347707 TCCATCTCAACGGAGCAAACT 59.652 47.619 0.00 0.00 41.13 2.66
688 820 2.154462 CCATCTCAACGGAGCAAACTT 58.846 47.619 0.00 0.00 41.13 2.66
689 821 3.007506 TCCATCTCAACGGAGCAAACTTA 59.992 43.478 0.00 0.00 41.13 2.24
690 822 3.941483 CCATCTCAACGGAGCAAACTTAT 59.059 43.478 0.00 0.00 41.13 1.73
691 823 4.396166 CCATCTCAACGGAGCAAACTTATT 59.604 41.667 0.00 0.00 41.13 1.40
692 824 5.584649 CCATCTCAACGGAGCAAACTTATTA 59.415 40.000 0.00 0.00 41.13 0.98
693 825 6.260936 CCATCTCAACGGAGCAAACTTATTAT 59.739 38.462 0.00 0.00 41.13 1.28
694 826 6.662414 TCTCAACGGAGCAAACTTATTATG 57.338 37.500 0.00 0.00 41.13 1.90
695 827 5.584649 TCTCAACGGAGCAAACTTATTATGG 59.415 40.000 0.00 0.00 41.13 2.74
696 828 4.095782 TCAACGGAGCAAACTTATTATGGC 59.904 41.667 0.00 0.00 0.00 4.40
697 829 2.949644 ACGGAGCAAACTTATTATGGCC 59.050 45.455 0.00 0.00 0.00 5.36
698 830 2.032030 CGGAGCAAACTTATTATGGCCG 60.032 50.000 0.00 0.00 0.00 6.13
699 831 3.211045 GGAGCAAACTTATTATGGCCGA 58.789 45.455 0.00 0.00 0.00 5.54
700 832 3.630312 GGAGCAAACTTATTATGGCCGAA 59.370 43.478 0.00 0.00 0.00 4.30
701 833 4.097286 GGAGCAAACTTATTATGGCCGAAA 59.903 41.667 0.00 0.00 0.00 3.46
702 834 5.393678 GGAGCAAACTTATTATGGCCGAAAA 60.394 40.000 0.00 0.00 0.00 2.29
703 835 5.650543 AGCAAACTTATTATGGCCGAAAAG 58.349 37.500 0.00 0.00 0.00 2.27
704 836 5.185056 AGCAAACTTATTATGGCCGAAAAGT 59.815 36.000 0.00 0.35 0.00 2.66
705 837 5.288472 GCAAACTTATTATGGCCGAAAAGTG 59.712 40.000 0.00 0.00 0.00 3.16
706 838 6.386654 CAAACTTATTATGGCCGAAAAGTGT 58.613 36.000 0.00 0.00 0.00 3.55
707 839 5.560966 ACTTATTATGGCCGAAAAGTGTG 57.439 39.130 0.00 0.00 0.00 3.82
708 840 4.398044 ACTTATTATGGCCGAAAAGTGTGG 59.602 41.667 0.00 0.00 0.00 4.17
709 841 2.570415 TTATGGCCGAAAAGTGTGGA 57.430 45.000 0.00 0.00 0.00 4.02
710 842 2.799126 TATGGCCGAAAAGTGTGGAT 57.201 45.000 0.00 0.00 0.00 3.41
711 843 1.176527 ATGGCCGAAAAGTGTGGATG 58.823 50.000 0.00 0.00 0.00 3.51
712 844 0.179004 TGGCCGAAAAGTGTGGATGT 60.179 50.000 0.00 0.00 0.00 3.06
713 845 1.072489 TGGCCGAAAAGTGTGGATGTA 59.928 47.619 0.00 0.00 0.00 2.29
714 846 1.737793 GGCCGAAAAGTGTGGATGTAG 59.262 52.381 0.00 0.00 0.00 2.74
715 847 2.614481 GGCCGAAAAGTGTGGATGTAGA 60.614 50.000 0.00 0.00 0.00 2.59
716 848 2.415512 GCCGAAAAGTGTGGATGTAGAC 59.584 50.000 0.00 0.00 0.00 2.59
717 849 3.864921 GCCGAAAAGTGTGGATGTAGACT 60.865 47.826 0.00 0.00 0.00 3.24
718 850 4.619863 GCCGAAAAGTGTGGATGTAGACTA 60.620 45.833 0.00 0.00 0.00 2.59
719 851 5.103000 CCGAAAAGTGTGGATGTAGACTAG 58.897 45.833 0.00 0.00 0.00 2.57
720 852 5.105877 CCGAAAAGTGTGGATGTAGACTAGA 60.106 44.000 0.00 0.00 0.00 2.43
721 853 6.387465 CGAAAAGTGTGGATGTAGACTAGAA 58.613 40.000 0.00 0.00 0.00 2.10
722 854 6.308282 CGAAAAGTGTGGATGTAGACTAGAAC 59.692 42.308 0.00 0.00 0.00 3.01
723 855 6.665992 AAAGTGTGGATGTAGACTAGAACA 57.334 37.500 0.00 0.00 0.00 3.18
724 856 6.859112 AAGTGTGGATGTAGACTAGAACAT 57.141 37.500 0.00 3.25 39.00 2.71
744 876 9.057089 AGAACATCTAGAAACAACTTGGTAAAG 57.943 33.333 0.00 0.00 39.49 1.85
747 879 9.220767 ACATCTAGAAACAACTTGGTAAAGATC 57.779 33.333 0.00 0.00 36.84 2.75
748 880 8.669243 CATCTAGAAACAACTTGGTAAAGATCC 58.331 37.037 0.00 0.00 36.84 3.36
750 882 8.383175 TCTAGAAACAACTTGGTAAAGATCCAT 58.617 33.333 0.00 0.00 36.84 3.41
752 884 7.886338 AGAAACAACTTGGTAAAGATCCATTC 58.114 34.615 0.00 0.00 36.84 2.67
755 887 5.711976 ACAACTTGGTAAAGATCCATTCAGG 59.288 40.000 0.00 0.00 36.84 3.86
756 888 4.273318 ACTTGGTAAAGATCCATTCAGGC 58.727 43.478 0.00 0.00 36.84 4.85
757 889 2.917933 TGGTAAAGATCCATTCAGGCG 58.082 47.619 0.00 0.00 37.29 5.52
758 890 2.503765 TGGTAAAGATCCATTCAGGCGA 59.496 45.455 0.00 0.00 37.29 5.54
759 891 3.054728 TGGTAAAGATCCATTCAGGCGAA 60.055 43.478 0.00 0.00 37.29 4.70
781 913 4.599047 AAAAATCCAATGCCTCGAAACA 57.401 36.364 0.00 0.00 0.00 2.83
783 915 2.198827 ATCCAATGCCTCGAAACACA 57.801 45.000 0.00 0.00 0.00 3.72
785 917 1.606668 TCCAATGCCTCGAAACACAAC 59.393 47.619 0.00 0.00 0.00 3.32
786 918 1.662876 CCAATGCCTCGAAACACAACG 60.663 52.381 0.00 0.00 0.00 4.10
787 919 1.002900 CAATGCCTCGAAACACAACGT 60.003 47.619 0.00 0.00 0.00 3.99
788 920 0.586319 ATGCCTCGAAACACAACGTG 59.414 50.000 0.00 0.00 39.75 4.49
790 922 0.042448 GCCTCGAAACACAACGTGTC 60.042 55.000 0.00 0.00 46.79 3.67
791 923 0.580104 CCTCGAAACACAACGTGTCC 59.420 55.000 0.00 0.00 46.79 4.02
792 924 1.567504 CTCGAAACACAACGTGTCCT 58.432 50.000 0.00 0.00 46.79 3.85
793 925 1.521423 CTCGAAACACAACGTGTCCTC 59.479 52.381 0.00 0.49 46.79 3.71
796 928 0.253610 AAACACAACGTGTCCTCCCA 59.746 50.000 0.00 0.00 46.79 4.37
806 938 2.430694 CGTGTCCTCCCAATATCTGACA 59.569 50.000 0.00 0.00 0.00 3.58
820 952 7.360861 CCAATATCTGACAAAGTTGCGTTTAGA 60.361 37.037 0.00 0.00 0.00 2.10
824 956 6.791303 TCTGACAAAGTTGCGTTTAGAAAAT 58.209 32.000 0.00 0.00 0.00 1.82
888 1020 3.877801 CGCTAAGCAACAATCGGAC 57.122 52.632 0.00 0.00 0.00 4.79
894 1034 1.296867 GCAACAATCGGACGCATCG 60.297 57.895 0.00 0.00 0.00 3.84
930 1070 0.739462 CAAATCTCGCACGCCACCTA 60.739 55.000 0.00 0.00 0.00 3.08
951 1091 3.393687 ACCCATTTCTATACTCAGCCCA 58.606 45.455 0.00 0.00 0.00 5.36
961 1101 2.772191 TCAGCCCACACCCACAGT 60.772 61.111 0.00 0.00 0.00 3.55
1251 1396 2.852075 GGGATCCCCATGCCCGTA 60.852 66.667 21.42 0.00 44.65 4.02
1299 1444 3.764466 CTCTCCTCCGCGCACCTT 61.764 66.667 8.75 0.00 0.00 3.50
1494 1655 2.492090 CAGGACTTCTCCCGCTCG 59.508 66.667 0.00 0.00 37.25 5.03
1591 1752 3.625632 ATCCTCCTCACCACCGGCT 62.626 63.158 0.00 0.00 0.00 5.52
1785 2000 3.620488 GCTGGTGAAGATAACATGGGAA 58.380 45.455 0.00 0.00 0.00 3.97
1945 2160 1.685224 GTGGGGCTCATGAACCTGA 59.315 57.895 14.69 0.00 0.00 3.86
1947 2162 0.548031 TGGGGCTCATGAACCTGATC 59.452 55.000 14.69 0.00 0.00 2.92
2052 2267 2.040544 CGTGGTGTTCCTGGCCATC 61.041 63.158 5.51 0.00 34.52 3.51
2373 2588 7.122055 CCCTGGTTGCTGTAAATTACTGAATTA 59.878 37.037 13.13 0.00 34.01 1.40
2374 2589 7.968405 CCTGGTTGCTGTAAATTACTGAATTAC 59.032 37.037 13.13 0.45 34.01 1.89
2429 3094 5.407407 AGGAAAGTTCACGTCTGTATCAT 57.593 39.130 0.00 0.00 0.00 2.45
2461 3126 0.325933 TGGAGATGTCTGGGCTTGTG 59.674 55.000 0.00 0.00 0.00 3.33
2466 3131 1.174712 ATGTCTGGGCTTGTGTGTGC 61.175 55.000 0.00 0.00 0.00 4.57
2469 3134 2.591429 TGGGCTTGTGTGTGCTCG 60.591 61.111 0.00 0.00 31.17 5.03
2479 3144 2.036604 TGTGTGTGCTCGGATACTGAAA 59.963 45.455 0.00 0.00 0.00 2.69
2480 3145 3.262420 GTGTGTGCTCGGATACTGAAAT 58.738 45.455 0.00 0.00 0.00 2.17
2481 3146 4.081917 TGTGTGTGCTCGGATACTGAAATA 60.082 41.667 0.00 0.00 0.00 1.40
2482 3147 4.267928 GTGTGTGCTCGGATACTGAAATAC 59.732 45.833 0.00 0.00 0.00 1.89
2484 3149 4.267928 GTGTGCTCGGATACTGAAATACAC 59.732 45.833 0.00 0.00 0.00 2.90
2495 3160 7.223971 GGATACTGAAATACACGTAGCATTCAA 59.776 37.037 0.00 0.00 0.00 2.69
2502 3167 2.416547 ACACGTAGCATTCAATCAGCAC 59.583 45.455 0.00 0.00 0.00 4.40
2522 3187 2.229543 ACGTTGCACATCAGCATCATTT 59.770 40.909 0.00 0.00 45.19 2.32
2523 3188 2.850060 CGTTGCACATCAGCATCATTTC 59.150 45.455 0.00 0.00 45.19 2.17
2544 3210 5.194473 TCTCTACCATCCAACTACTGACT 57.806 43.478 0.00 0.00 0.00 3.41
2545 3211 4.950475 TCTCTACCATCCAACTACTGACTG 59.050 45.833 0.00 0.00 0.00 3.51
2551 3217 1.968493 TCCAACTACTGACTGACCCAC 59.032 52.381 0.00 0.00 0.00 4.61
2617 3285 2.531522 GTGCAACCAATCTGCCTTTT 57.468 45.000 0.00 0.00 39.13 2.27
2619 3287 1.344114 TGCAACCAATCTGCCTTTTCC 59.656 47.619 0.00 0.00 39.13 3.13
2644 3312 0.888736 CATTCGAGGCCACCACAACA 60.889 55.000 5.01 0.00 0.00 3.33
2645 3313 0.889186 ATTCGAGGCCACCACAACAC 60.889 55.000 5.01 0.00 0.00 3.32
2646 3314 2.203139 CGAGGCCACCACAACACA 60.203 61.111 5.01 0.00 0.00 3.72
2647 3315 1.600636 CGAGGCCACCACAACACAT 60.601 57.895 5.01 0.00 0.00 3.21
2648 3316 1.172180 CGAGGCCACCACAACACATT 61.172 55.000 5.01 0.00 0.00 2.71
2650 3318 1.412343 GAGGCCACCACAACACATTTT 59.588 47.619 5.01 0.00 0.00 1.82
2651 3319 2.625790 GAGGCCACCACAACACATTTTA 59.374 45.455 5.01 0.00 0.00 1.52
2652 3320 2.627699 AGGCCACCACAACACATTTTAG 59.372 45.455 5.01 0.00 0.00 1.85
2653 3321 2.403259 GCCACCACAACACATTTTAGC 58.597 47.619 0.00 0.00 0.00 3.09
2655 3323 2.034053 CCACCACAACACATTTTAGCGT 59.966 45.455 0.00 0.00 0.00 5.07
2656 3324 3.042189 CACCACAACACATTTTAGCGTG 58.958 45.455 0.00 0.00 39.10 5.34
2663 3464 4.939509 ACACATTTTAGCGTGTCCATAC 57.060 40.909 0.00 0.00 42.61 2.39
2666 3467 3.615496 ACATTTTAGCGTGTCCATACGAC 59.385 43.478 2.14 0.00 46.46 4.34
2703 3666 1.070601 GGAGGCCTGCAACACATTTTT 59.929 47.619 20.97 0.00 0.00 1.94
2708 3671 1.605202 CCTGCAACACATTTTTCCCGG 60.605 52.381 0.00 0.00 0.00 5.73
2730 3693 6.414732 CGGCCTAATTATGATTCAGGGATAA 58.585 40.000 0.00 0.00 0.00 1.75
2770 3733 7.696992 AACAATACAAAATTACTCCATCCGT 57.303 32.000 0.00 0.00 0.00 4.69
2771 3734 7.316544 ACAATACAAAATTACTCCATCCGTC 57.683 36.000 0.00 0.00 0.00 4.79
2772 3735 6.317893 ACAATACAAAATTACTCCATCCGTCC 59.682 38.462 0.00 0.00 0.00 4.79
2773 3736 3.617284 ACAAAATTACTCCATCCGTCCC 58.383 45.455 0.00 0.00 0.00 4.46
2774 3737 3.009695 ACAAAATTACTCCATCCGTCCCA 59.990 43.478 0.00 0.00 0.00 4.37
2775 3738 4.013728 CAAAATTACTCCATCCGTCCCAA 58.986 43.478 0.00 0.00 0.00 4.12
2776 3739 4.310022 AAATTACTCCATCCGTCCCAAA 57.690 40.909 0.00 0.00 0.00 3.28
2777 3740 4.310022 AATTACTCCATCCGTCCCAAAA 57.690 40.909 0.00 0.00 0.00 2.44
2778 3741 4.519906 ATTACTCCATCCGTCCCAAAAT 57.480 40.909 0.00 0.00 0.00 1.82
2779 3742 5.640158 ATTACTCCATCCGTCCCAAAATA 57.360 39.130 0.00 0.00 0.00 1.40
2780 3743 5.438698 TTACTCCATCCGTCCCAAAATAA 57.561 39.130 0.00 0.00 0.00 1.40
2781 3744 3.886123 ACTCCATCCGTCCCAAAATAAG 58.114 45.455 0.00 0.00 0.00 1.73
2782 3745 3.265995 ACTCCATCCGTCCCAAAATAAGT 59.734 43.478 0.00 0.00 0.00 2.24
2783 3746 3.616219 TCCATCCGTCCCAAAATAAGTG 58.384 45.455 0.00 0.00 0.00 3.16
2784 3747 3.009695 TCCATCCGTCCCAAAATAAGTGT 59.990 43.478 0.00 0.00 0.00 3.55
2785 3748 3.377172 CCATCCGTCCCAAAATAAGTGTC 59.623 47.826 0.00 0.00 0.00 3.67
2786 3749 4.261801 CATCCGTCCCAAAATAAGTGTCT 58.738 43.478 0.00 0.00 0.00 3.41
2787 3750 4.360951 TCCGTCCCAAAATAAGTGTCTT 57.639 40.909 0.00 0.00 0.00 3.01
2788 3751 4.069304 TCCGTCCCAAAATAAGTGTCTTG 58.931 43.478 0.00 0.00 0.00 3.02
2789 3752 4.069304 CCGTCCCAAAATAAGTGTCTTGA 58.931 43.478 0.00 0.00 0.00 3.02
2790 3753 4.154195 CCGTCCCAAAATAAGTGTCTTGAG 59.846 45.833 0.00 0.00 0.00 3.02
2791 3754 4.378459 CGTCCCAAAATAAGTGTCTTGAGC 60.378 45.833 0.00 0.00 0.00 4.26
2792 3755 4.762251 GTCCCAAAATAAGTGTCTTGAGCT 59.238 41.667 0.00 0.00 0.00 4.09
2793 3756 5.241728 GTCCCAAAATAAGTGTCTTGAGCTT 59.758 40.000 0.00 0.00 0.00 3.74
2794 3757 6.430000 GTCCCAAAATAAGTGTCTTGAGCTTA 59.570 38.462 0.00 0.00 0.00 3.09
2795 3758 6.655003 TCCCAAAATAAGTGTCTTGAGCTTAG 59.345 38.462 0.00 0.00 0.00 2.18
2796 3759 6.431234 CCCAAAATAAGTGTCTTGAGCTTAGT 59.569 38.462 0.00 0.00 0.00 2.24
2797 3760 7.606456 CCCAAAATAAGTGTCTTGAGCTTAGTA 59.394 37.037 0.00 0.00 0.00 1.82
2798 3761 9.167311 CCAAAATAAGTGTCTTGAGCTTAGTAT 57.833 33.333 0.00 0.00 0.00 2.12
2806 3769 9.726438 AGTGTCTTGAGCTTAGTATAAATTTGT 57.274 29.630 0.00 0.00 0.00 2.83
2833 3796 8.895737 ACTAGAGCTAGTATAAAGTTGAGACAC 58.104 37.037 8.35 0.00 43.98 3.67
2834 3797 7.948034 AGAGCTAGTATAAAGTTGAGACACT 57.052 36.000 0.00 0.00 0.00 3.55
2835 3798 8.356000 AGAGCTAGTATAAAGTTGAGACACTT 57.644 34.615 0.00 0.00 38.74 3.16
2836 3799 9.463902 AGAGCTAGTATAAAGTTGAGACACTTA 57.536 33.333 0.00 0.00 35.87 2.24
2844 3807 8.934023 ATAAAGTTGAGACACTTATTTTGGGA 57.066 30.769 0.00 0.00 35.87 4.37
2845 3808 6.635030 AAGTTGAGACACTTATTTTGGGAC 57.365 37.500 0.00 0.00 35.10 4.46
2846 3809 4.755123 AGTTGAGACACTTATTTTGGGACG 59.245 41.667 0.00 0.00 0.00 4.79
2847 3810 3.670625 TGAGACACTTATTTTGGGACGG 58.329 45.455 0.00 0.00 0.00 4.79
2848 3811 3.325425 TGAGACACTTATTTTGGGACGGA 59.675 43.478 0.00 0.00 0.00 4.69
2849 3812 3.933332 GAGACACTTATTTTGGGACGGAG 59.067 47.826 0.00 0.00 0.00 4.63
2850 3813 3.007635 GACACTTATTTTGGGACGGAGG 58.992 50.000 0.00 0.00 0.00 4.30
2851 3814 2.290705 ACACTTATTTTGGGACGGAGGG 60.291 50.000 0.00 0.00 0.00 4.30
2852 3815 2.026636 CACTTATTTTGGGACGGAGGGA 60.027 50.000 0.00 0.00 0.00 4.20
2853 3816 2.238898 ACTTATTTTGGGACGGAGGGAG 59.761 50.000 0.00 0.00 0.00 4.30
2931 3899 5.256474 ACATGACCCCAAGAGAAAATACAG 58.744 41.667 0.00 0.00 0.00 2.74
2991 3959 4.919774 TTATGAAGTCCCCTGCTTGTAA 57.080 40.909 0.00 0.00 0.00 2.41
2992 3960 2.561478 TGAAGTCCCCTGCTTGTAAC 57.439 50.000 0.00 0.00 0.00 2.50
3094 4062 3.429141 TGAGTCGTCGAGGCGTCC 61.429 66.667 0.00 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.179043 TACACACACACGGGCAACAT 60.179 50.000 0.00 0.00 39.74 2.71
14 15 3.550820 ACAGAAATTGGCACTGTACACA 58.449 40.909 6.69 0.00 42.01 3.72
17 18 5.941948 AGTAACAGAAATTGGCACTGTAC 57.058 39.130 8.66 7.73 42.81 2.90
20 21 5.050837 GCAAAAGTAACAGAAATTGGCACTG 60.051 40.000 1.65 1.65 37.62 3.66
68 69 0.179250 CGACAGGATTGTTTGCGTCG 60.179 55.000 0.00 0.00 37.76 5.12
83 84 0.453793 CACTTGTTTGTTGGGCGACA 59.546 50.000 0.00 0.00 0.00 4.35
135 136 0.038159 GACGTCAGGACAGGGTCAAG 60.038 60.000 11.55 0.00 33.68 3.02
168 169 2.315925 ACTGCACATCCAAGGATACG 57.684 50.000 0.40 0.00 46.39 3.06
169 170 2.609459 CGAACTGCACATCCAAGGATAC 59.391 50.000 0.40 0.00 32.93 2.24
189 194 0.248458 ACTTTTGAAGTTGCGTGGCG 60.248 50.000 0.00 0.00 39.04 5.69
216 221 5.972973 AGAATATCGTTTCGTTGCACGTATA 59.027 36.000 8.22 0.00 43.14 1.47
267 272 5.502544 GCATGAACGAAAATAGACAGCCTAC 60.503 44.000 0.00 0.00 0.00 3.18
273 278 5.878332 ACATGCATGAACGAAAATAGACA 57.122 34.783 32.75 0.00 0.00 3.41
290 295 4.531332 GAAATATTCAGGCGAGAACATGC 58.469 43.478 0.00 0.00 0.00 4.06
291 296 4.319046 CGGAAATATTCAGGCGAGAACATG 60.319 45.833 0.00 0.00 0.00 3.21
292 297 3.809832 CGGAAATATTCAGGCGAGAACAT 59.190 43.478 0.00 0.00 0.00 2.71
293 298 3.118920 TCGGAAATATTCAGGCGAGAACA 60.119 43.478 0.00 0.00 0.00 3.18
321 326 9.658799 TCAGATTCTCTAGGTGAATTGTTAAAG 57.341 33.333 11.34 0.00 34.67 1.85
324 329 8.367660 ACTCAGATTCTCTAGGTGAATTGTTA 57.632 34.615 11.34 1.73 34.67 2.41
325 330 7.251321 ACTCAGATTCTCTAGGTGAATTGTT 57.749 36.000 11.34 2.11 34.67 2.83
327 332 7.605691 ACAAACTCAGATTCTCTAGGTGAATTG 59.394 37.037 11.34 11.10 34.67 2.32
328 333 7.684529 ACAAACTCAGATTCTCTAGGTGAATT 58.315 34.615 11.34 0.00 34.67 2.17
329 334 7.251321 ACAAACTCAGATTCTCTAGGTGAAT 57.749 36.000 10.29 10.29 36.91 2.57
330 335 6.672266 ACAAACTCAGATTCTCTAGGTGAA 57.328 37.500 0.00 0.00 0.00 3.18
331 336 6.672266 AACAAACTCAGATTCTCTAGGTGA 57.328 37.500 0.00 0.00 0.00 4.02
332 337 6.090088 CGAAACAAACTCAGATTCTCTAGGTG 59.910 42.308 0.00 0.00 0.00 4.00
333 338 6.159988 CGAAACAAACTCAGATTCTCTAGGT 58.840 40.000 0.00 0.00 0.00 3.08
334 339 6.159988 ACGAAACAAACTCAGATTCTCTAGG 58.840 40.000 0.00 0.00 0.00 3.02
376 381 2.375174 TGAAGGGTATGCTGGTTTGACT 59.625 45.455 0.00 0.00 0.00 3.41
404 477 9.884636 TCTAGAATTATTTGTCGGAGAAATGAA 57.115 29.630 19.84 11.85 39.69 2.57
411 484 7.928706 ACTTCCATCTAGAATTATTTGTCGGAG 59.071 37.037 0.00 0.00 0.00 4.63
413 486 9.712305 ATACTTCCATCTAGAATTATTTGTCGG 57.288 33.333 0.00 0.00 0.00 4.79
483 588 7.321153 AGCGTCTTTGACACTACATTATTAGT 58.679 34.615 0.00 0.00 32.16 2.24
487 616 5.967088 AGAGCGTCTTTGACACTACATTAT 58.033 37.500 0.00 0.00 32.09 1.28
503 632 9.866936 CTAATCGTCCTATAATATAAGAGCGTC 57.133 37.037 0.00 0.00 0.00 5.19
585 717 5.183904 GCAAGACTTCCACACTTCCAATAAT 59.816 40.000 0.00 0.00 0.00 1.28
603 735 0.445436 CGATGCAACAGGAGCAAGAC 59.555 55.000 0.00 0.00 46.27 3.01
622 754 3.630148 CACGGCATGTCGCGGATC 61.630 66.667 21.60 0.00 43.37 3.36
623 755 2.923426 ATTCACGGCATGTCGCGGAT 62.923 55.000 21.60 7.85 43.37 4.18
624 756 2.286127 TATTCACGGCATGTCGCGGA 62.286 55.000 21.60 15.23 43.37 5.54
625 757 1.425267 TTATTCACGGCATGTCGCGG 61.425 55.000 21.60 12.86 45.98 6.46
626 758 0.371989 TTTATTCACGGCATGTCGCG 59.628 50.000 21.60 11.22 43.84 5.87
627 759 1.856014 GCTTTATTCACGGCATGTCGC 60.856 52.381 21.60 0.00 41.28 5.19
628 760 1.665679 AGCTTTATTCACGGCATGTCG 59.334 47.619 19.93 19.93 0.00 4.35
629 761 2.285834 CGAGCTTTATTCACGGCATGTC 60.286 50.000 0.00 0.00 0.00 3.06
630 762 1.665679 CGAGCTTTATTCACGGCATGT 59.334 47.619 0.00 0.00 0.00 3.21
631 763 1.665679 ACGAGCTTTATTCACGGCATG 59.334 47.619 0.00 0.00 0.00 4.06
632 764 2.024176 ACGAGCTTTATTCACGGCAT 57.976 45.000 0.00 0.00 0.00 4.40
633 765 1.463056 CAACGAGCTTTATTCACGGCA 59.537 47.619 0.00 0.00 0.00 5.69
634 766 1.463444 ACAACGAGCTTTATTCACGGC 59.537 47.619 0.00 0.00 0.00 5.68
635 767 2.993899 AGACAACGAGCTTTATTCACGG 59.006 45.455 0.00 0.00 0.00 4.94
636 768 3.060895 GGAGACAACGAGCTTTATTCACG 59.939 47.826 0.00 0.00 0.00 4.35
637 769 4.246458 AGGAGACAACGAGCTTTATTCAC 58.754 43.478 0.00 0.00 0.00 3.18
638 770 4.220821 AGAGGAGACAACGAGCTTTATTCA 59.779 41.667 0.00 0.00 0.00 2.57
639 771 4.749976 AGAGGAGACAACGAGCTTTATTC 58.250 43.478 0.00 0.00 0.00 1.75
640 772 4.810191 AGAGGAGACAACGAGCTTTATT 57.190 40.909 0.00 0.00 0.00 1.40
641 773 5.916661 TTAGAGGAGACAACGAGCTTTAT 57.083 39.130 0.00 0.00 0.00 1.40
642 774 5.717078 TTTAGAGGAGACAACGAGCTTTA 57.283 39.130 0.00 0.00 0.00 1.85
643 775 4.602340 TTTAGAGGAGACAACGAGCTTT 57.398 40.909 0.00 0.00 0.00 3.51
644 776 4.039366 AGTTTTAGAGGAGACAACGAGCTT 59.961 41.667 0.00 0.00 0.00 3.74
645 777 3.574826 AGTTTTAGAGGAGACAACGAGCT 59.425 43.478 0.00 0.00 0.00 4.09
646 778 3.915536 AGTTTTAGAGGAGACAACGAGC 58.084 45.455 0.00 0.00 0.00 5.03
647 779 4.022242 TGGAGTTTTAGAGGAGACAACGAG 60.022 45.833 0.00 0.00 0.00 4.18
648 780 3.893200 TGGAGTTTTAGAGGAGACAACGA 59.107 43.478 0.00 0.00 0.00 3.85
649 781 4.252971 TGGAGTTTTAGAGGAGACAACG 57.747 45.455 0.00 0.00 0.00 4.10
650 782 6.043854 AGATGGAGTTTTAGAGGAGACAAC 57.956 41.667 0.00 0.00 0.00 3.32
651 783 5.780282 TGAGATGGAGTTTTAGAGGAGACAA 59.220 40.000 0.00 0.00 0.00 3.18
652 784 5.333581 TGAGATGGAGTTTTAGAGGAGACA 58.666 41.667 0.00 0.00 0.00 3.41
653 785 5.923733 TGAGATGGAGTTTTAGAGGAGAC 57.076 43.478 0.00 0.00 0.00 3.36
654 786 5.105716 CGTTGAGATGGAGTTTTAGAGGAGA 60.106 44.000 0.00 0.00 0.00 3.71
655 787 5.105752 CGTTGAGATGGAGTTTTAGAGGAG 58.894 45.833 0.00 0.00 0.00 3.69
656 788 4.081642 CCGTTGAGATGGAGTTTTAGAGGA 60.082 45.833 0.00 0.00 33.44 3.71
657 789 4.081642 TCCGTTGAGATGGAGTTTTAGAGG 60.082 45.833 0.00 0.00 36.01 3.69
658 790 5.073311 TCCGTTGAGATGGAGTTTTAGAG 57.927 43.478 0.00 0.00 36.01 2.43
667 799 1.347707 AGTTTGCTCCGTTGAGATGGA 59.652 47.619 0.00 0.00 41.42 3.41
668 800 1.813513 AGTTTGCTCCGTTGAGATGG 58.186 50.000 0.00 0.00 41.42 3.51
669 801 5.551760 AATAAGTTTGCTCCGTTGAGATG 57.448 39.130 0.00 0.00 41.42 2.90
670 802 6.260936 CCATAATAAGTTTGCTCCGTTGAGAT 59.739 38.462 0.00 0.00 41.42 2.75
671 803 5.584649 CCATAATAAGTTTGCTCCGTTGAGA 59.415 40.000 0.00 0.00 41.42 3.27
672 804 5.730568 GCCATAATAAGTTTGCTCCGTTGAG 60.731 44.000 0.00 0.00 41.84 3.02
673 805 4.095782 GCCATAATAAGTTTGCTCCGTTGA 59.904 41.667 0.00 0.00 0.00 3.18
674 806 4.351192 GCCATAATAAGTTTGCTCCGTTG 58.649 43.478 0.00 0.00 0.00 4.10
675 807 3.380320 GGCCATAATAAGTTTGCTCCGTT 59.620 43.478 0.00 0.00 0.00 4.44
676 808 2.949644 GGCCATAATAAGTTTGCTCCGT 59.050 45.455 0.00 0.00 0.00 4.69
677 809 2.032030 CGGCCATAATAAGTTTGCTCCG 60.032 50.000 2.24 0.00 0.00 4.63
678 810 3.211045 TCGGCCATAATAAGTTTGCTCC 58.789 45.455 2.24 0.00 0.00 4.70
679 811 4.893424 TTCGGCCATAATAAGTTTGCTC 57.107 40.909 2.24 0.00 0.00 4.26
680 812 5.185056 ACTTTTCGGCCATAATAAGTTTGCT 59.815 36.000 2.24 0.00 0.00 3.91
681 813 5.288472 CACTTTTCGGCCATAATAAGTTTGC 59.712 40.000 2.24 0.00 0.00 3.68
682 814 6.307800 CACACTTTTCGGCCATAATAAGTTTG 59.692 38.462 2.24 8.51 0.00 2.93
683 815 6.386654 CACACTTTTCGGCCATAATAAGTTT 58.613 36.000 2.24 0.73 0.00 2.66
684 816 5.105917 CCACACTTTTCGGCCATAATAAGTT 60.106 40.000 2.24 0.00 0.00 2.66
685 817 4.398044 CCACACTTTTCGGCCATAATAAGT 59.602 41.667 2.24 6.57 0.00 2.24
686 818 4.638421 TCCACACTTTTCGGCCATAATAAG 59.362 41.667 2.24 6.00 0.00 1.73
687 819 4.590918 TCCACACTTTTCGGCCATAATAA 58.409 39.130 2.24 0.00 0.00 1.40
688 820 4.223556 TCCACACTTTTCGGCCATAATA 57.776 40.909 2.24 0.00 0.00 0.98
689 821 3.080300 TCCACACTTTTCGGCCATAAT 57.920 42.857 2.24 0.00 0.00 1.28
690 822 2.570415 TCCACACTTTTCGGCCATAA 57.430 45.000 2.24 0.00 0.00 1.90
691 823 2.290641 ACATCCACACTTTTCGGCCATA 60.291 45.455 2.24 0.00 0.00 2.74
692 824 1.176527 CATCCACACTTTTCGGCCAT 58.823 50.000 2.24 0.00 0.00 4.40
693 825 0.179004 ACATCCACACTTTTCGGCCA 60.179 50.000 2.24 0.00 0.00 5.36
694 826 1.737793 CTACATCCACACTTTTCGGCC 59.262 52.381 0.00 0.00 0.00 6.13
695 827 2.415512 GTCTACATCCACACTTTTCGGC 59.584 50.000 0.00 0.00 0.00 5.54
696 828 3.926616 AGTCTACATCCACACTTTTCGG 58.073 45.455 0.00 0.00 0.00 4.30
697 829 5.950883 TCTAGTCTACATCCACACTTTTCG 58.049 41.667 0.00 0.00 0.00 3.46
698 830 7.152645 TGTTCTAGTCTACATCCACACTTTTC 58.847 38.462 0.00 0.00 0.00 2.29
699 831 7.062749 TGTTCTAGTCTACATCCACACTTTT 57.937 36.000 0.00 0.00 0.00 2.27
700 832 6.665992 TGTTCTAGTCTACATCCACACTTT 57.334 37.500 0.00 0.00 0.00 2.66
701 833 6.859112 ATGTTCTAGTCTACATCCACACTT 57.141 37.500 0.00 0.00 29.23 3.16
702 834 6.458232 GATGTTCTAGTCTACATCCACACT 57.542 41.667 17.18 0.00 42.97 3.55
710 842 9.298250 AGTTGTTTCTAGATGTTCTAGTCTACA 57.702 33.333 10.49 10.03 45.11 2.74
713 845 8.091449 CCAAGTTGTTTCTAGATGTTCTAGTCT 58.909 37.037 10.49 0.00 45.11 3.24
714 846 7.873505 ACCAAGTTGTTTCTAGATGTTCTAGTC 59.126 37.037 10.49 5.02 45.11 2.59
715 847 7.736893 ACCAAGTTGTTTCTAGATGTTCTAGT 58.263 34.615 10.49 0.00 45.11 2.57
716 848 9.706691 TTACCAAGTTGTTTCTAGATGTTCTAG 57.293 33.333 1.45 5.38 45.99 2.43
718 850 8.974060 TTTACCAAGTTGTTTCTAGATGTTCT 57.026 30.769 1.45 0.00 0.00 3.01
719 851 9.052759 TCTTTACCAAGTTGTTTCTAGATGTTC 57.947 33.333 1.45 0.00 0.00 3.18
720 852 8.974060 TCTTTACCAAGTTGTTTCTAGATGTT 57.026 30.769 1.45 0.00 0.00 2.71
721 853 9.220767 GATCTTTACCAAGTTGTTTCTAGATGT 57.779 33.333 1.45 0.00 0.00 3.06
722 854 8.669243 GGATCTTTACCAAGTTGTTTCTAGATG 58.331 37.037 1.45 0.00 0.00 2.90
723 855 8.383175 TGGATCTTTACCAAGTTGTTTCTAGAT 58.617 33.333 1.45 3.75 34.25 1.98
724 856 7.741785 TGGATCTTTACCAAGTTGTTTCTAGA 58.258 34.615 1.45 0.00 34.25 2.43
725 857 7.979444 TGGATCTTTACCAAGTTGTTTCTAG 57.021 36.000 1.45 0.00 34.25 2.43
734 866 4.273318 GCCTGAATGGATCTTTACCAAGT 58.727 43.478 0.00 0.00 40.93 3.16
780 912 2.465860 TATTGGGAGGACACGTTGTG 57.534 50.000 0.00 0.00 39.75 3.33
781 913 2.838202 AGATATTGGGAGGACACGTTGT 59.162 45.455 0.00 0.00 0.00 3.32
783 915 3.104512 TCAGATATTGGGAGGACACGTT 58.895 45.455 0.00 0.00 0.00 3.99
785 917 2.430694 TGTCAGATATTGGGAGGACACG 59.569 50.000 0.00 0.00 30.99 4.49
786 918 4.487714 TTGTCAGATATTGGGAGGACAC 57.512 45.455 0.00 0.00 35.25 3.67
787 919 4.536090 ACTTTGTCAGATATTGGGAGGACA 59.464 41.667 0.00 0.00 33.84 4.02
788 920 5.104259 ACTTTGTCAGATATTGGGAGGAC 57.896 43.478 0.00 0.00 0.00 3.85
789 921 5.500234 CAACTTTGTCAGATATTGGGAGGA 58.500 41.667 0.00 0.00 0.00 3.71
790 922 4.096984 GCAACTTTGTCAGATATTGGGAGG 59.903 45.833 0.00 0.00 0.00 4.30
791 923 4.201851 CGCAACTTTGTCAGATATTGGGAG 60.202 45.833 0.00 0.00 33.28 4.30
792 924 3.689161 CGCAACTTTGTCAGATATTGGGA 59.311 43.478 0.00 0.00 33.28 4.37
793 925 3.440173 ACGCAACTTTGTCAGATATTGGG 59.560 43.478 0.00 0.00 36.42 4.12
796 928 7.667043 TCTAAACGCAACTTTGTCAGATATT 57.333 32.000 0.00 0.00 0.00 1.28
806 938 6.861572 GCTTCCTATTTTCTAAACGCAACTTT 59.138 34.615 0.00 0.00 0.00 2.66
820 952 4.642429 ACTCAGTGAACGCTTCCTATTTT 58.358 39.130 0.00 0.00 0.00 1.82
824 956 7.997773 ATATATACTCAGTGAACGCTTCCTA 57.002 36.000 0.00 0.00 0.00 2.94
876 1008 1.296867 CGATGCGTCCGATTGTTGC 60.297 57.895 0.00 0.00 0.00 4.17
888 1020 3.305361 CAGTGATTATAGATGGCGATGCG 59.695 47.826 0.00 0.00 0.00 4.73
894 1034 6.401903 CGAGATTTGCAGTGATTATAGATGGC 60.402 42.308 0.00 0.00 0.00 4.40
930 1070 3.136626 GTGGGCTGAGTATAGAAATGGGT 59.863 47.826 0.00 0.00 0.00 4.51
951 1091 4.159879 GCAGAGTACTATTACTGTGGGTGT 59.840 45.833 16.11 0.00 45.60 4.16
961 1101 3.945921 ACGACTGCTGCAGAGTACTATTA 59.054 43.478 34.28 0.00 35.18 0.98
1251 1396 0.107508 CGATGGACTTCATGGGCTGT 60.108 55.000 0.00 0.00 35.97 4.40
1494 1655 3.462678 GAGGTGGAGGCGGAGGAC 61.463 72.222 0.00 0.00 0.00 3.85
1569 1730 0.108138 CGGTGGTGAGGAGGATGAAC 60.108 60.000 0.00 0.00 0.00 3.18
1785 2000 3.878778 CCAGAACCCGATCTTGAAATCT 58.121 45.455 0.00 0.00 0.00 2.40
1945 2160 4.778143 GCCGAACCAGCACCCGAT 62.778 66.667 0.00 0.00 0.00 4.18
2028 2243 4.309950 AGGAACACCACGGACGCC 62.310 66.667 0.00 0.00 0.00 5.68
2063 2278 4.680237 CGAACACCAGCCCGAGCA 62.680 66.667 0.00 0.00 43.56 4.26
2373 2588 4.012374 CAGGATAATCACCTGTTTGCTGT 58.988 43.478 0.00 0.00 46.71 4.40
2374 2589 4.627611 CAGGATAATCACCTGTTTGCTG 57.372 45.455 0.00 0.00 46.71 4.41
2382 2597 4.161189 CAGATATCGCCAGGATAATCACCT 59.839 45.833 0.00 0.00 40.87 4.00
2383 2598 4.081420 ACAGATATCGCCAGGATAATCACC 60.081 45.833 0.00 0.00 40.87 4.02
2385 2600 5.360999 CCTACAGATATCGCCAGGATAATCA 59.639 44.000 11.89 0.00 40.87 2.57
2387 2602 5.519808 TCCTACAGATATCGCCAGGATAAT 58.480 41.667 14.60 0.00 40.87 1.28
2389 2604 4.586306 TCCTACAGATATCGCCAGGATA 57.414 45.455 14.60 0.00 41.71 2.59
2390 2605 3.458044 TCCTACAGATATCGCCAGGAT 57.542 47.619 14.60 0.00 39.25 3.24
2391 2606 2.971901 TCCTACAGATATCGCCAGGA 57.028 50.000 14.60 14.60 0.00 3.86
2392 2607 3.322254 ACTTTCCTACAGATATCGCCAGG 59.678 47.826 11.32 11.32 0.00 4.45
2394 2609 4.404394 TGAACTTTCCTACAGATATCGCCA 59.596 41.667 0.00 0.00 0.00 5.69
2395 2610 4.745620 GTGAACTTTCCTACAGATATCGCC 59.254 45.833 0.00 0.00 0.00 5.54
2397 2612 5.579718 ACGTGAACTTTCCTACAGATATCG 58.420 41.667 0.00 0.00 0.00 2.92
2398 2613 6.693545 CAGACGTGAACTTTCCTACAGATATC 59.306 42.308 0.00 0.00 0.00 1.63
2429 3094 2.306805 ACATCTCCAACTGCCTCATCAA 59.693 45.455 0.00 0.00 0.00 2.57
2461 3126 4.267928 GTGTATTTCAGTATCCGAGCACAC 59.732 45.833 0.00 0.00 0.00 3.82
2466 3131 4.910456 GCTACGTGTATTTCAGTATCCGAG 59.090 45.833 0.00 0.00 0.00 4.63
2469 3134 6.700081 TGAATGCTACGTGTATTTCAGTATCC 59.300 38.462 0.00 0.00 31.17 2.59
2479 3144 4.271049 GTGCTGATTGAATGCTACGTGTAT 59.729 41.667 0.00 0.00 0.00 2.29
2480 3145 3.616821 GTGCTGATTGAATGCTACGTGTA 59.383 43.478 0.00 0.00 0.00 2.90
2481 3146 2.416547 GTGCTGATTGAATGCTACGTGT 59.583 45.455 0.00 0.00 0.00 4.49
2482 3147 2.535534 CGTGCTGATTGAATGCTACGTG 60.536 50.000 0.00 0.00 31.79 4.49
2484 3149 1.660607 ACGTGCTGATTGAATGCTACG 59.339 47.619 0.00 0.00 37.31 3.51
2495 3160 0.800631 CTGATGTGCAACGTGCTGAT 59.199 50.000 10.54 3.73 45.31 2.90
2502 3167 2.554806 AATGATGCTGATGTGCAACG 57.445 45.000 0.00 0.00 46.61 4.10
2522 3187 4.950475 CAGTCAGTAGTTGGATGGTAGAGA 59.050 45.833 0.00 0.00 0.00 3.10
2523 3188 4.950475 TCAGTCAGTAGTTGGATGGTAGAG 59.050 45.833 0.00 0.00 0.00 2.43
2544 3210 4.036971 CGTTTTGTCCTTAATTGTGGGTCA 59.963 41.667 0.00 0.00 0.00 4.02
2545 3211 4.037089 ACGTTTTGTCCTTAATTGTGGGTC 59.963 41.667 0.00 0.00 0.00 4.46
2644 3312 3.615496 GTCGTATGGACACGCTAAAATGT 59.385 43.478 0.00 0.00 45.36 2.71
2645 3313 4.178156 GTCGTATGGACACGCTAAAATG 57.822 45.455 0.00 0.00 45.36 2.32
2656 3324 7.277098 ACATGTAACTTGTATTGTCGTATGGAC 59.723 37.037 0.00 0.00 46.27 4.02
2663 3464 5.063438 CCTCCACATGTAACTTGTATTGTCG 59.937 44.000 0.00 0.00 0.00 4.35
2666 3467 4.096382 GGCCTCCACATGTAACTTGTATTG 59.904 45.833 0.00 0.00 0.00 1.90
2674 3637 0.322456 TGCAGGCCTCCACATGTAAC 60.322 55.000 0.00 0.00 0.00 2.50
2703 3666 3.009033 CCTGAATCATAATTAGGCCGGGA 59.991 47.826 2.18 0.00 0.00 5.14
2708 3671 6.037610 CGCTTATCCCTGAATCATAATTAGGC 59.962 42.308 0.00 0.00 0.00 3.93
2730 3693 9.435688 TTTGTATTGTTATATATGCTCATCGCT 57.564 29.630 0.00 0.00 40.11 4.93
2759 3722 4.472108 ACTTATTTTGGGACGGATGGAGTA 59.528 41.667 0.00 0.00 0.00 2.59
2760 3723 3.265995 ACTTATTTTGGGACGGATGGAGT 59.734 43.478 0.00 0.00 0.00 3.85
2761 3724 3.627577 CACTTATTTTGGGACGGATGGAG 59.372 47.826 0.00 0.00 0.00 3.86
2762 3725 3.009695 ACACTTATTTTGGGACGGATGGA 59.990 43.478 0.00 0.00 0.00 3.41
2763 3726 3.352648 ACACTTATTTTGGGACGGATGG 58.647 45.455 0.00 0.00 0.00 3.51
2764 3727 4.261801 AGACACTTATTTTGGGACGGATG 58.738 43.478 0.00 0.00 0.00 3.51
2765 3728 4.569719 AGACACTTATTTTGGGACGGAT 57.430 40.909 0.00 0.00 0.00 4.18
2766 3729 4.069304 CAAGACACTTATTTTGGGACGGA 58.931 43.478 0.00 0.00 0.00 4.69
2767 3730 4.069304 TCAAGACACTTATTTTGGGACGG 58.931 43.478 0.00 0.00 0.00 4.79
2768 3731 4.378459 GCTCAAGACACTTATTTTGGGACG 60.378 45.833 0.00 0.00 0.00 4.79
2769 3732 4.762251 AGCTCAAGACACTTATTTTGGGAC 59.238 41.667 0.00 0.00 0.00 4.46
2770 3733 4.985538 AGCTCAAGACACTTATTTTGGGA 58.014 39.130 0.00 0.00 0.00 4.37
2771 3734 5.712152 AAGCTCAAGACACTTATTTTGGG 57.288 39.130 0.00 0.00 0.00 4.12
2772 3735 7.440523 ACTAAGCTCAAGACACTTATTTTGG 57.559 36.000 3.19 0.00 0.00 3.28
2780 3743 9.726438 ACAAATTTATACTAAGCTCAAGACACT 57.274 29.630 3.19 0.00 0.00 3.55
2808 3771 9.116067 AGTGTCTCAACTTTATACTAGCTCTAG 57.884 37.037 0.00 2.55 39.04 2.43
2809 3772 9.463902 AAGTGTCTCAACTTTATACTAGCTCTA 57.536 33.333 0.00 0.00 37.05 2.43
2810 3773 7.948034 AGTGTCTCAACTTTATACTAGCTCT 57.052 36.000 0.00 0.00 0.00 4.09
2819 3782 8.793592 GTCCCAAAATAAGTGTCTCAACTTTAT 58.206 33.333 0.00 0.00 40.77 1.40
2820 3783 7.041644 CGTCCCAAAATAAGTGTCTCAACTTTA 60.042 37.037 0.00 0.00 40.77 1.85
2821 3784 6.238648 CGTCCCAAAATAAGTGTCTCAACTTT 60.239 38.462 0.00 0.00 40.77 2.66
2822 3785 5.238650 CGTCCCAAAATAAGTGTCTCAACTT 59.761 40.000 0.00 0.00 42.89 2.66
2823 3786 4.755123 CGTCCCAAAATAAGTGTCTCAACT 59.245 41.667 0.00 0.00 0.00 3.16
2824 3787 4.083484 CCGTCCCAAAATAAGTGTCTCAAC 60.083 45.833 0.00 0.00 0.00 3.18
2825 3788 4.069304 CCGTCCCAAAATAAGTGTCTCAA 58.931 43.478 0.00 0.00 0.00 3.02
2826 3789 3.325425 TCCGTCCCAAAATAAGTGTCTCA 59.675 43.478 0.00 0.00 0.00 3.27
2827 3790 3.933332 CTCCGTCCCAAAATAAGTGTCTC 59.067 47.826 0.00 0.00 0.00 3.36
2828 3791 3.307480 CCTCCGTCCCAAAATAAGTGTCT 60.307 47.826 0.00 0.00 0.00 3.41
2829 3792 3.007635 CCTCCGTCCCAAAATAAGTGTC 58.992 50.000 0.00 0.00 0.00 3.67
2830 3793 2.290705 CCCTCCGTCCCAAAATAAGTGT 60.291 50.000 0.00 0.00 0.00 3.55
2831 3794 2.026636 TCCCTCCGTCCCAAAATAAGTG 60.027 50.000 0.00 0.00 0.00 3.16
2832 3795 2.238898 CTCCCTCCGTCCCAAAATAAGT 59.761 50.000 0.00 0.00 0.00 2.24
2833 3796 2.238898 ACTCCCTCCGTCCCAAAATAAG 59.761 50.000 0.00 0.00 0.00 1.73
2834 3797 2.271777 ACTCCCTCCGTCCCAAAATAA 58.728 47.619 0.00 0.00 0.00 1.40
2835 3798 1.961133 ACTCCCTCCGTCCCAAAATA 58.039 50.000 0.00 0.00 0.00 1.40
2836 3799 1.558294 GTACTCCCTCCGTCCCAAAAT 59.442 52.381 0.00 0.00 0.00 1.82
2837 3800 0.978907 GTACTCCCTCCGTCCCAAAA 59.021 55.000 0.00 0.00 0.00 2.44
2838 3801 0.178926 TGTACTCCCTCCGTCCCAAA 60.179 55.000 0.00 0.00 0.00 3.28
2839 3802 0.042131 ATGTACTCCCTCCGTCCCAA 59.958 55.000 0.00 0.00 0.00 4.12
2840 3803 0.396695 GATGTACTCCCTCCGTCCCA 60.397 60.000 0.00 0.00 0.00 4.37
2841 3804 1.453762 CGATGTACTCCCTCCGTCCC 61.454 65.000 0.00 0.00 0.00 4.46
2842 3805 2.031360 CGATGTACTCCCTCCGTCC 58.969 63.158 0.00 0.00 0.00 4.79
2843 3806 1.359475 GCGATGTACTCCCTCCGTC 59.641 63.158 0.00 0.00 0.00 4.79
2844 3807 1.379443 TGCGATGTACTCCCTCCGT 60.379 57.895 0.00 0.00 0.00 4.69
2845 3808 1.360551 CTGCGATGTACTCCCTCCG 59.639 63.158 0.00 0.00 0.00 4.63
2846 3809 1.068250 GCTGCGATGTACTCCCTCC 59.932 63.158 0.00 0.00 0.00 4.30
2847 3810 0.390860 ATGCTGCGATGTACTCCCTC 59.609 55.000 0.00 0.00 0.00 4.30
2848 3811 0.105593 CATGCTGCGATGTACTCCCT 59.894 55.000 0.00 0.00 0.00 4.20
2849 3812 0.179073 ACATGCTGCGATGTACTCCC 60.179 55.000 13.49 0.00 34.69 4.30
2850 3813 1.212616 GACATGCTGCGATGTACTCC 58.787 55.000 14.60 3.20 36.67 3.85
2851 3814 1.212616 GGACATGCTGCGATGTACTC 58.787 55.000 15.62 6.87 36.67 2.59
2852 3815 0.179073 GGGACATGCTGCGATGTACT 60.179 55.000 19.61 2.15 37.34 2.73
2853 3816 0.461870 TGGGACATGCTGCGATGTAC 60.462 55.000 14.95 14.95 36.67 2.90
2931 3899 9.507280 GCGTCCCTTTTTAACTATTTTATTACC 57.493 33.333 0.00 0.00 0.00 2.85
3089 4057 1.971695 CCTCCAACAAAGGGGACGC 60.972 63.158 0.00 0.00 0.00 5.19
3094 4062 2.422093 GGATCTAGCCTCCAACAAAGGG 60.422 54.545 6.36 0.00 34.26 3.95


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

AutoCloner maintained by Alex Coulton.