Multiple sequence alignment - TraesCS5B01G210200

Loading Multiple Alignment...

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 TraesCS5B01G210200 chr5B 100.000 3723 0 0 1 3723 380320655 380324377 0.000000e+00 6876.0
1 TraesCS5B01G210200 chr5B 92.970 1778 116 7 956 2728 380651400 380653173 0.000000e+00 2582.0
2 TraesCS5B01G210200 chr5B 90.186 377 24 6 2840 3213 619081444 619081078 2.600000e-131 479.0
3 TraesCS5B01G210200 chr5B 89.773 264 24 3 3334 3595 700920087 700919825 5.960000e-88 335.0
4 TraesCS5B01G210200 chr5B 89.956 229 12 4 2986 3213 619117916 619117698 6.090000e-73 285.0
5 TraesCS5B01G210200 chr5B 81.016 374 25 24 3210 3540 619080471 619080101 4.770000e-64 255.0
6 TraesCS5B01G210200 chr5B 80.914 372 27 21 3210 3540 619117093 619116725 1.720000e-63 254.0
7 TraesCS5B01G210200 chr5B 100.000 108 0 0 3594 3701 598082858 598082965 2.270000e-47 200.0
8 TraesCS5B01G210200 chr5B 93.651 63 4 0 893 955 380670751 380670813 1.100000e-15 95.3
9 TraesCS5B01G210200 chr6B 97.031 2290 58 5 929 3213 232741505 232739221 0.000000e+00 3843.0
10 TraesCS5B01G210200 chr6B 91.211 1263 92 8 1476 2728 232870228 232868975 0.000000e+00 1700.0
11 TraesCS5B01G210200 chr6B 90.042 713 20 11 1 664 531797945 531797235 0.000000e+00 876.0
12 TraesCS5B01G210200 chr6B 88.249 417 18 14 3210 3595 232738612 232738196 1.570000e-128 470.0
13 TraesCS5B01G210200 chr6B 75.936 561 81 30 1 523 95322212 95322756 4.810000e-59 239.0
14 TraesCS5B01G210200 chr6B 95.968 124 4 1 3594 3717 447114662 447114540 2.270000e-47 200.0
15 TraesCS5B01G210200 chr6B 73.256 516 79 40 153 620 682124160 682123656 2.330000e-27 134.0
16 TraesCS5B01G210200 chr6B 79.856 139 16 9 1 127 456248805 456248943 1.420000e-14 91.6
17 TraesCS5B01G210200 chr7D 95.362 1768 53 10 966 2728 241091575 241093318 0.000000e+00 2784.0
18 TraesCS5B01G210200 chr7D 80.022 1787 300 33 954 2727 394387546 394385804 0.000000e+00 1269.0
19 TraesCS5B01G210200 chr7B 94.994 1778 58 16 956 2728 216674957 216676708 0.000000e+00 2761.0
20 TraesCS5B01G210200 chr7B 80.343 1109 173 24 1627 2727 223664713 223663642 0.000000e+00 798.0
21 TraesCS5B01G210200 chr7A 94.629 1750 65 9 983 2727 257364088 257362363 0.000000e+00 2684.0
22 TraesCS5B01G210200 chr1A 79.698 1059 168 26 1678 2727 143283616 143282596 0.000000e+00 721.0
23 TraesCS5B01G210200 chr1A 84.331 568 37 17 1 541 502686978 502686436 3.320000e-140 508.0
24 TraesCS5B01G210200 chr1A 97.345 113 3 0 3592 3704 535313741 535313853 3.790000e-45 193.0
25 TraesCS5B01G210200 chr1A 84.112 107 3 5 572 664 502686435 502686329 1.420000e-14 91.6
26 TraesCS5B01G210200 chr2A 84.756 656 55 20 1 626 176571677 176571037 1.900000e-172 616.0
27 TraesCS5B01G210200 chr2A 88.973 263 18 4 3334 3595 582965865 582965613 7.760000e-82 315.0
28 TraesCS5B01G210200 chr4D 92.819 376 24 2 2840 3213 485659344 485659718 3.270000e-150 542.0
29 TraesCS5B01G210200 chr4D 90.909 264 22 2 3334 3595 485660398 485660661 1.640000e-93 353.0
30 TraesCS5B01G210200 chr4D 88.550 131 7 4 3210 3334 485660241 485660369 6.440000e-33 152.0
31 TraesCS5B01G210200 chr2B 84.158 606 47 22 1 569 175419047 175418454 3.270000e-150 542.0
32 TraesCS5B01G210200 chr2B 93.396 106 5 1 553 658 175418437 175418334 4.980000e-34 156.0
33 TraesCS5B01G210200 chr6A 84.872 509 44 18 185 665 605057399 605057902 2.010000e-132 483.0
34 TraesCS5B01G210200 chr6A 98.198 111 2 0 3590 3700 52322109 52322219 1.060000e-45 195.0
35 TraesCS5B01G210200 chr4B 85.942 377 28 7 2840 3213 521215547 521215901 2.710000e-101 379.0
36 TraesCS5B01G210200 chr4B 84.069 408 47 14 721 1122 270658093 270657698 9.760000e-101 377.0
37 TraesCS5B01G210200 chr4B 86.486 222 30 0 1393 1614 637287780 637288001 1.030000e-60 244.0
38 TraesCS5B01G210200 chr4B 75.314 478 58 43 169 604 460793799 460794258 1.370000e-39 174.0
39 TraesCS5B01G210200 chr4B 97.674 43 0 1 2672 2713 270658208 270658166 5.160000e-09 73.1
40 TraesCS5B01G210200 chr3D 75.962 728 96 42 1 665 13928340 13929051 6.040000e-78 302.0
41 TraesCS5B01G210200 chr3D 77.064 327 41 16 1 296 356929647 356929970 1.380000e-34 158.0
42 TraesCS5B01G210200 chr6D 79.289 478 55 27 1 445 319752934 319752468 1.010000e-75 294.0
43 TraesCS5B01G210200 chr6D 93.333 105 3 2 904 1008 126845656 126845756 6.440000e-33 152.0
44 TraesCS5B01G210200 chr3A 99.174 121 0 1 3591 3710 32195744 32195624 2.250000e-52 217.0
45 TraesCS5B01G210200 chr4A 98.230 113 1 1 3591 3702 468214151 468214039 2.930000e-46 196.0
46 TraesCS5B01G210200 chr4A 99.074 108 1 0 3594 3701 176868199 176868306 1.060000e-45 195.0
47 TraesCS5B01G210200 chr4A 78.924 223 32 11 389 604 596544764 596544550 1.800000e-28 137.0
48 TraesCS5B01G210200 chr3B 99.074 108 1 0 3593 3700 86092799 86092692 1.060000e-45 195.0
49 TraesCS5B01G210200 chr3B 96.491 114 4 0 3588 3701 582278237 582278350 4.910000e-44 189.0
50 TraesCS5B01G210200 chr5D 75.336 446 66 27 167 604 346037912 346038321 1.370000e-39 174.0
51 TraesCS5B01G210200 chr2D 79.263 217 21 18 396 604 357444236 357444036 3.020000e-26 130.0
52 TraesCS5B01G210200 chr2D 78.571 196 29 13 412 602 398417184 398416997 2.350000e-22 117.0
53 TraesCS5B01G210200 chr1D 77.027 222 33 12 1 210 317111631 317111416 1.090000e-20 111.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5B01G210200 chr5B 380320655 380324377 3722 False 6876.00 6876 100.000000 1 3723 1 chr5B.!!$F1 3722
1 TraesCS5B01G210200 chr5B 380651400 380653173 1773 False 2582.00 2582 92.970000 956 2728 1 chr5B.!!$F2 1772
2 TraesCS5B01G210200 chr5B 619080101 619081444 1343 True 367.00 479 85.601000 2840 3540 2 chr5B.!!$R2 700
3 TraesCS5B01G210200 chr5B 619116725 619117916 1191 True 269.50 285 85.435000 2986 3540 2 chr5B.!!$R3 554
4 TraesCS5B01G210200 chr6B 232738196 232741505 3309 True 2156.50 3843 92.640000 929 3595 2 chr6B.!!$R5 2666
5 TraesCS5B01G210200 chr6B 232868975 232870228 1253 True 1700.00 1700 91.211000 1476 2728 1 chr6B.!!$R1 1252
6 TraesCS5B01G210200 chr6B 531797235 531797945 710 True 876.00 876 90.042000 1 664 1 chr6B.!!$R3 663
7 TraesCS5B01G210200 chr6B 95322212 95322756 544 False 239.00 239 75.936000 1 523 1 chr6B.!!$F1 522
8 TraesCS5B01G210200 chr7D 241091575 241093318 1743 False 2784.00 2784 95.362000 966 2728 1 chr7D.!!$F1 1762
9 TraesCS5B01G210200 chr7D 394385804 394387546 1742 True 1269.00 1269 80.022000 954 2727 1 chr7D.!!$R1 1773
10 TraesCS5B01G210200 chr7B 216674957 216676708 1751 False 2761.00 2761 94.994000 956 2728 1 chr7B.!!$F1 1772
11 TraesCS5B01G210200 chr7B 223663642 223664713 1071 True 798.00 798 80.343000 1627 2727 1 chr7B.!!$R1 1100
12 TraesCS5B01G210200 chr7A 257362363 257364088 1725 True 2684.00 2684 94.629000 983 2727 1 chr7A.!!$R1 1744
13 TraesCS5B01G210200 chr1A 143282596 143283616 1020 True 721.00 721 79.698000 1678 2727 1 chr1A.!!$R1 1049
14 TraesCS5B01G210200 chr1A 502686329 502686978 649 True 299.80 508 84.221500 1 664 2 chr1A.!!$R2 663
15 TraesCS5B01G210200 chr2A 176571037 176571677 640 True 616.00 616 84.756000 1 626 1 chr2A.!!$R1 625
16 TraesCS5B01G210200 chr4D 485659344 485660661 1317 False 349.00 542 90.759333 2840 3595 3 chr4D.!!$F1 755
17 TraesCS5B01G210200 chr2B 175418334 175419047 713 True 349.00 542 88.777000 1 658 2 chr2B.!!$R1 657
18 TraesCS5B01G210200 chr6A 605057399 605057902 503 False 483.00 483 84.872000 185 665 1 chr6A.!!$F2 480
19 TraesCS5B01G210200 chr4B 270657698 270658208 510 True 225.05 377 90.871500 721 2713 2 chr4B.!!$R1 1992
20 TraesCS5B01G210200 chr3D 13928340 13929051 711 False 302.00 302 75.962000 1 665 1 chr3D.!!$F1 664

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
692 737 0.034337 GTACAGGCTCGTTCCACCAA 59.966 55.0 0.0 0.0 0.0 3.67 F
693 738 0.320374 TACAGGCTCGTTCCACCAAG 59.680 55.0 0.0 0.0 0.0 3.61 F
912 957 0.397941 TGAACCAGTTGAGAGGGCAG 59.602 55.0 0.0 0.0 0.0 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1495 1544 0.033405 TGGTAGTCGAAGGAGGGGAG 60.033 60.000 0.00 0.00 0.00 4.30 R
2309 2380 1.022982 CGCTTCTGCAGATCCAGCAA 61.023 55.000 29.13 10.12 42.17 3.91 R
2780 3122 1.079127 CAACTCCGCCTTCGTCCAT 60.079 57.895 0.00 0.00 0.00 3.41 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
355 393 9.838975 ACCAAATTTGAAAACTTTGAACAATTC 57.161 25.926 19.86 0.00 32.83 2.17
474 519 9.554395 AAACAGAAACAGAAAAAGGAAGAAAAA 57.446 25.926 0.00 0.00 0.00 1.94
530 575 2.971660 AAACCAGGAAAAACCGGTTG 57.028 45.000 23.08 7.78 46.44 3.77
531 576 2.146920 AACCAGGAAAAACCGGTTGA 57.853 45.000 23.08 0.00 45.89 3.18
532 577 1.687563 ACCAGGAAAAACCGGTTGAG 58.312 50.000 23.08 7.24 44.74 3.02
533 578 1.213430 ACCAGGAAAAACCGGTTGAGA 59.787 47.619 23.08 0.00 44.74 3.27
534 579 1.880027 CCAGGAAAAACCGGTTGAGAG 59.120 52.381 23.08 9.05 44.74 3.20
535 580 2.486548 CCAGGAAAAACCGGTTGAGAGA 60.487 50.000 23.08 0.00 44.74 3.10
536 581 3.211045 CAGGAAAAACCGGTTGAGAGAA 58.789 45.455 23.08 0.00 44.74 2.87
537 582 3.003378 CAGGAAAAACCGGTTGAGAGAAC 59.997 47.826 23.08 7.97 44.74 3.01
538 583 2.292569 GGAAAAACCGGTTGAGAGAACC 59.707 50.000 23.08 13.40 36.96 3.62
539 584 3.211865 GAAAAACCGGTTGAGAGAACCT 58.788 45.455 23.08 0.00 38.15 3.50
540 585 3.292492 AAAACCGGTTGAGAGAACCTT 57.708 42.857 23.08 4.80 38.15 3.50
541 586 2.545537 AACCGGTTGAGAGAACCTTC 57.454 50.000 21.56 0.00 38.15 3.46
542 587 1.718280 ACCGGTTGAGAGAACCTTCT 58.282 50.000 0.00 0.00 41.00 2.85
543 588 2.885616 ACCGGTTGAGAGAACCTTCTA 58.114 47.619 0.00 0.00 37.73 2.10
544 589 2.826725 ACCGGTTGAGAGAACCTTCTAG 59.173 50.000 0.00 0.00 37.73 2.43
545 590 3.090037 CCGGTTGAGAGAACCTTCTAGA 58.910 50.000 0.00 0.00 37.73 2.43
546 591 3.510360 CCGGTTGAGAGAACCTTCTAGAA 59.490 47.826 4.81 4.81 37.73 2.10
547 592 4.381079 CCGGTTGAGAGAACCTTCTAGAAG 60.381 50.000 23.31 23.31 37.73 2.85
560 605 3.412237 TCTAGAAGGTTCCCAAAACCG 57.588 47.619 0.00 0.00 44.82 4.44
561 606 2.039348 TCTAGAAGGTTCCCAAAACCGG 59.961 50.000 0.00 0.00 44.82 5.28
562 607 0.554305 AGAAGGTTCCCAAAACCGGT 59.446 50.000 0.00 0.00 44.82 5.28
563 608 1.063492 AGAAGGTTCCCAAAACCGGTT 60.063 47.619 15.86 15.86 44.82 4.44
564 609 1.758280 GAAGGTTCCCAAAACCGGTTT 59.242 47.619 26.87 26.87 44.82 3.27
565 610 1.116308 AGGTTCCCAAAACCGGTTTG 58.884 50.000 32.23 23.60 45.36 2.93
566 611 0.531090 GGTTCCCAAAACCGGTTTGC 60.531 55.000 32.23 17.05 44.57 3.68
567 612 0.531090 GTTCCCAAAACCGGTTTGCC 60.531 55.000 32.23 13.01 44.57 4.52
568 613 0.688087 TTCCCAAAACCGGTTTGCCT 60.688 50.000 32.23 15.08 44.57 4.75
569 614 1.068921 CCCAAAACCGGTTTGCCTG 59.931 57.895 32.23 24.88 44.57 4.85
570 615 1.068921 CCAAAACCGGTTTGCCTGG 59.931 57.895 32.23 29.13 44.57 4.45
571 616 1.395826 CCAAAACCGGTTTGCCTGGA 61.396 55.000 32.33 0.00 44.57 3.86
572 617 0.461961 CAAAACCGGTTTGCCTGGAA 59.538 50.000 32.23 0.00 40.25 3.53
573 618 0.462375 AAAACCGGTTTGCCTGGAAC 59.538 50.000 32.23 0.00 34.21 3.62
574 619 0.396556 AAACCGGTTTGCCTGGAACT 60.397 50.000 31.17 3.09 34.21 3.01
575 620 1.106944 AACCGGTTTGCCTGGAACTG 61.107 55.000 15.86 0.00 34.21 3.16
576 621 2.644992 CGGTTTGCCTGGAACTGC 59.355 61.111 0.00 0.00 0.00 4.40
577 622 1.898574 CGGTTTGCCTGGAACTGCT 60.899 57.895 0.00 0.00 0.00 4.24
578 623 1.856265 CGGTTTGCCTGGAACTGCTC 61.856 60.000 0.00 0.00 0.00 4.26
579 624 0.538287 GGTTTGCCTGGAACTGCTCT 60.538 55.000 0.00 0.00 0.00 4.09
580 625 1.271379 GGTTTGCCTGGAACTGCTCTA 60.271 52.381 0.00 0.00 0.00 2.43
581 626 2.504367 GTTTGCCTGGAACTGCTCTAA 58.496 47.619 0.00 0.00 0.00 2.10
582 627 2.884639 GTTTGCCTGGAACTGCTCTAAA 59.115 45.455 0.00 0.00 0.00 1.85
583 628 2.479566 TGCCTGGAACTGCTCTAAAG 57.520 50.000 0.00 0.00 0.00 1.85
594 639 1.646189 GCTCTAAAGCTCGAAGTGGG 58.354 55.000 0.00 0.00 45.55 4.61
595 640 1.646189 CTCTAAAGCTCGAAGTGGGC 58.354 55.000 0.00 0.00 0.00 5.36
596 641 0.249398 TCTAAAGCTCGAAGTGGGCC 59.751 55.000 0.00 0.00 0.00 5.80
597 642 1.079405 TAAAGCTCGAAGTGGGCCG 60.079 57.895 0.00 0.00 0.00 6.13
598 643 1.537814 TAAAGCTCGAAGTGGGCCGA 61.538 55.000 0.00 0.00 0.00 5.54
599 644 3.591254 AAGCTCGAAGTGGGCCGAC 62.591 63.158 10.38 10.38 0.00 4.79
610 655 3.666253 GGCCGACCCGTTTTGTGG 61.666 66.667 0.00 0.00 0.00 4.17
611 656 2.903350 GCCGACCCGTTTTGTGGT 60.903 61.111 0.00 0.00 37.64 4.16
612 657 3.027292 CCGACCCGTTTTGTGGTG 58.973 61.111 0.00 0.00 34.20 4.17
613 658 2.330041 CGACCCGTTTTGTGGTGC 59.670 61.111 0.00 0.00 34.20 5.01
614 659 2.184167 CGACCCGTTTTGTGGTGCT 61.184 57.895 0.00 0.00 34.20 4.40
615 660 1.652563 GACCCGTTTTGTGGTGCTC 59.347 57.895 0.00 0.00 34.20 4.26
616 661 2.113131 GACCCGTTTTGTGGTGCTCG 62.113 60.000 0.00 0.00 34.20 5.03
617 662 2.051345 CCGTTTTGTGGTGCTCGC 60.051 61.111 0.00 0.00 0.00 5.03
618 663 2.542907 CCGTTTTGTGGTGCTCGCT 61.543 57.895 0.00 0.00 0.00 4.93
619 664 1.082756 CGTTTTGTGGTGCTCGCTC 60.083 57.895 0.00 0.00 0.00 5.03
620 665 1.282875 GTTTTGTGGTGCTCGCTCC 59.717 57.895 3.17 3.17 0.00 4.70
621 666 1.153066 TTTTGTGGTGCTCGCTCCA 60.153 52.632 8.49 8.49 37.27 3.86
622 667 1.165907 TTTTGTGGTGCTCGCTCCAG 61.166 55.000 12.50 0.00 39.82 3.86
623 668 4.687215 TGTGGTGCTCGCTCCAGC 62.687 66.667 12.50 8.66 39.82 4.85
654 699 3.688136 GCTCGCGAGCGTCAAATA 58.312 55.556 41.53 0.18 45.29 1.40
655 700 1.555538 GCTCGCGAGCGTCAAATAG 59.444 57.895 41.53 12.81 45.29 1.73
656 701 1.812214 GCTCGCGAGCGTCAAATAGG 61.812 60.000 41.53 12.25 45.29 2.57
657 702 1.209275 CTCGCGAGCGTCAAATAGGG 61.209 60.000 25.07 0.00 40.74 3.53
658 703 1.226859 CGCGAGCGTCAAATAGGGA 60.227 57.895 0.00 0.00 34.35 4.20
659 704 0.597637 CGCGAGCGTCAAATAGGGAT 60.598 55.000 0.00 0.00 34.35 3.85
660 705 1.140816 GCGAGCGTCAAATAGGGATC 58.859 55.000 0.00 0.00 0.00 3.36
661 706 1.409412 CGAGCGTCAAATAGGGATCG 58.591 55.000 0.00 0.00 0.00 3.69
662 707 1.140816 GAGCGTCAAATAGGGATCGC 58.859 55.000 0.54 0.54 43.16 4.58
663 708 0.249911 AGCGTCAAATAGGGATCGCC 60.250 55.000 6.09 0.00 43.73 5.54
664 709 1.557443 GCGTCAAATAGGGATCGCCG 61.557 60.000 6.09 2.21 38.16 6.46
665 710 0.249322 CGTCAAATAGGGATCGCCGT 60.249 55.000 6.09 0.00 36.08 5.68
666 711 1.001048 CGTCAAATAGGGATCGCCGTA 60.001 52.381 6.09 0.00 38.76 4.02
667 712 2.673833 GTCAAATAGGGATCGCCGTAG 58.326 52.381 6.09 0.00 37.89 3.51
668 713 1.000506 TCAAATAGGGATCGCCGTAGC 59.999 52.381 6.09 0.00 37.89 3.58
669 714 1.000955 CAAATAGGGATCGCCGTAGCT 59.999 52.381 6.09 0.00 37.89 3.32
670 715 0.889306 AATAGGGATCGCCGTAGCTC 59.111 55.000 6.09 0.00 37.89 4.09
671 716 0.038455 ATAGGGATCGCCGTAGCTCT 59.962 55.000 6.09 0.00 37.89 4.09
672 717 0.605860 TAGGGATCGCCGTAGCTCTC 60.606 60.000 6.09 0.00 36.60 3.20
673 718 2.252855 GGATCGCCGTAGCTCTCG 59.747 66.667 0.00 0.00 36.60 4.04
674 719 2.544698 GGATCGCCGTAGCTCTCGT 61.545 63.158 9.69 0.00 36.60 4.18
675 720 1.226686 GGATCGCCGTAGCTCTCGTA 61.227 60.000 9.69 0.00 36.60 3.43
676 721 0.110733 GATCGCCGTAGCTCTCGTAC 60.111 60.000 9.69 0.00 36.60 3.67
677 722 0.812811 ATCGCCGTAGCTCTCGTACA 60.813 55.000 9.69 0.00 36.60 2.90
678 723 1.011019 CGCCGTAGCTCTCGTACAG 60.011 63.158 9.69 0.00 36.60 2.74
679 724 1.355916 GCCGTAGCTCTCGTACAGG 59.644 63.158 9.69 1.62 35.50 4.00
680 725 1.355916 CCGTAGCTCTCGTACAGGC 59.644 63.158 9.69 0.00 0.00 4.85
681 726 1.096386 CCGTAGCTCTCGTACAGGCT 61.096 60.000 9.69 4.16 38.62 4.58
682 727 0.305313 CGTAGCTCTCGTACAGGCTC 59.695 60.000 0.00 0.00 36.40 4.70
683 728 0.305313 GTAGCTCTCGTACAGGCTCG 59.695 60.000 0.00 0.00 36.40 5.03
684 729 0.107800 TAGCTCTCGTACAGGCTCGT 60.108 55.000 0.00 0.00 36.40 4.18
685 730 0.961358 AGCTCTCGTACAGGCTCGTT 60.961 55.000 0.00 0.00 0.00 3.85
686 731 0.523757 GCTCTCGTACAGGCTCGTTC 60.524 60.000 0.00 0.00 0.00 3.95
687 732 0.099082 CTCTCGTACAGGCTCGTTCC 59.901 60.000 0.00 0.00 0.00 3.62
688 733 0.607217 TCTCGTACAGGCTCGTTCCA 60.607 55.000 0.00 0.00 0.00 3.53
689 734 0.456312 CTCGTACAGGCTCGTTCCAC 60.456 60.000 0.00 0.00 0.00 4.02
690 735 1.445582 CGTACAGGCTCGTTCCACC 60.446 63.158 0.00 0.00 0.00 4.61
691 736 1.669440 GTACAGGCTCGTTCCACCA 59.331 57.895 0.00 0.00 0.00 4.17
692 737 0.034337 GTACAGGCTCGTTCCACCAA 59.966 55.000 0.00 0.00 0.00 3.67
693 738 0.320374 TACAGGCTCGTTCCACCAAG 59.680 55.000 0.00 0.00 0.00 3.61
694 739 2.032681 AGGCTCGTTCCACCAAGC 59.967 61.111 0.00 0.00 0.00 4.01
695 740 3.423154 GGCTCGTTCCACCAAGCG 61.423 66.667 0.00 0.00 35.58 4.68
696 741 4.090057 GCTCGTTCCACCAAGCGC 62.090 66.667 0.00 0.00 0.00 5.92
697 742 3.423154 CTCGTTCCACCAAGCGCC 61.423 66.667 2.29 0.00 0.00 6.53
715 760 4.681978 GCCGTGCCCTCGTCAACT 62.682 66.667 0.00 0.00 0.00 3.16
716 761 2.432628 CCGTGCCCTCGTCAACTC 60.433 66.667 0.00 0.00 0.00 3.01
717 762 2.432628 CGTGCCCTCGTCAACTCC 60.433 66.667 0.00 0.00 0.00 3.85
718 763 2.432628 GTGCCCTCGTCAACTCCG 60.433 66.667 0.00 0.00 0.00 4.63
719 764 4.373116 TGCCCTCGTCAACTCCGC 62.373 66.667 0.00 0.00 0.00 5.54
721 766 4.796231 CCCTCGTCAACTCCGCCG 62.796 72.222 0.00 0.00 0.00 6.46
797 842 4.090057 GCCCTTGTCAAGCGACGC 62.090 66.667 13.03 13.03 45.80 5.19
798 843 3.423154 CCCTTGTCAAGCGACGCC 61.423 66.667 17.79 0.92 45.80 5.68
799 844 3.777925 CCTTGTCAAGCGACGCCG 61.778 66.667 17.79 8.50 45.80 6.46
897 942 3.110178 CCTCGTTCGCCCGTGAAC 61.110 66.667 10.43 10.43 43.76 3.18
898 943 3.110178 CTCGTTCGCCCGTGAACC 61.110 66.667 13.89 0.00 44.22 3.62
900 945 3.411351 CGTTCGCCCGTGAACCAG 61.411 66.667 13.89 0.00 44.22 4.00
912 957 0.397941 TGAACCAGTTGAGAGGGCAG 59.602 55.000 0.00 0.00 0.00 4.85
923 968 0.480252 AGAGGGCAGCACTTCCTTTT 59.520 50.000 0.00 0.00 0.00 2.27
1625 1674 1.194781 TTTCTCCTCCGCTGCTCCTT 61.195 55.000 0.00 0.00 0.00 3.36
2233 2304 2.289882 TGGATGGATTCGCTGGATGATC 60.290 50.000 0.00 0.00 0.00 2.92
2309 2380 0.175073 GCACCTCCTCCGTCGTTTAT 59.825 55.000 0.00 0.00 0.00 1.40
2584 2776 4.304939 AGAAGAAACGTAAAAGAGACCCG 58.695 43.478 0.00 0.00 0.00 5.28
2731 3073 3.367025 GTGGAGACAGATAAAAACCGTCG 59.633 47.826 0.00 0.00 44.46 5.12
2746 3088 1.134788 CCGTCGCCTTCTCCACTTATT 60.135 52.381 0.00 0.00 0.00 1.40
2770 3112 2.172930 GGTGATAAACTCCCCCTTCTCC 59.827 54.545 0.00 0.00 0.00 3.71
2780 3122 1.284785 CCCCCTTCTCCACTTATTGCA 59.715 52.381 0.00 0.00 0.00 4.08
2806 3148 0.613260 AAGGCGGAGTTGCATGTCTA 59.387 50.000 0.00 0.00 36.28 2.59
2807 3149 0.613260 AGGCGGAGTTGCATGTCTAA 59.387 50.000 0.00 0.00 36.28 2.10
2835 3177 4.085357 TGACCAAGTTAGTTGCATGTCT 57.915 40.909 0.00 0.00 34.45 3.41
2843 3185 4.037923 AGTTAGTTGCATGTCTTTGTTGGG 59.962 41.667 0.00 0.00 0.00 4.12
2903 3245 6.417635 ACTTGATTTTCGTGTGTTGCTAAATG 59.582 34.615 0.00 0.00 0.00 2.32
2929 3271 9.298250 GTCTAACTTGGTCATATACTCAGGATA 57.702 37.037 0.00 0.00 0.00 2.59
2963 3305 2.851102 AGGCTGGCAGTCACCTGT 60.851 61.111 22.82 0.00 41.02 4.00
3028 3372 2.170187 GACTGCAGGAGGACATGAAGAT 59.830 50.000 19.93 0.00 35.69 2.40
3037 3381 1.802960 GGACATGAAGATATGCGCTGG 59.197 52.381 9.73 0.00 0.00 4.85
3053 3397 1.141053 GCTGGTTTAGATCCACCCGAT 59.859 52.381 4.31 0.00 31.24 4.18
3372 4371 2.530701 AGTGTGATTCGGAGGAGACTT 58.469 47.619 0.00 0.00 44.43 3.01
3431 4436 4.254492 GGCTTCACTATTTTTCCTCTCGT 58.746 43.478 0.00 0.00 0.00 4.18
3599 4607 8.519799 TTGGATTTTTGTTCAGATATACTCCC 57.480 34.615 0.00 0.00 0.00 4.30
3600 4608 7.872138 TGGATTTTTGTTCAGATATACTCCCT 58.128 34.615 0.00 0.00 0.00 4.20
3601 4609 7.993183 TGGATTTTTGTTCAGATATACTCCCTC 59.007 37.037 0.00 0.00 0.00 4.30
3602 4610 8.214364 GGATTTTTGTTCAGATATACTCCCTCT 58.786 37.037 0.00 0.00 0.00 3.69
3603 4611 8.970859 ATTTTTGTTCAGATATACTCCCTCTG 57.029 34.615 0.00 0.00 38.18 3.35
3604 4612 7.496346 TTTTGTTCAGATATACTCCCTCTGT 57.504 36.000 0.00 0.00 38.05 3.41
3605 4613 7.496346 TTTGTTCAGATATACTCCCTCTGTT 57.504 36.000 0.00 0.00 38.05 3.16
3606 4614 6.716934 TGTTCAGATATACTCCCTCTGTTC 57.283 41.667 0.00 0.00 38.05 3.18
3607 4615 5.598830 TGTTCAGATATACTCCCTCTGTTCC 59.401 44.000 0.00 0.00 38.05 3.62
3608 4616 4.399219 TCAGATATACTCCCTCTGTTCCG 58.601 47.826 0.00 0.00 38.05 4.30
3609 4617 4.104261 TCAGATATACTCCCTCTGTTCCGA 59.896 45.833 0.00 0.00 38.05 4.55
3610 4618 4.827835 CAGATATACTCCCTCTGTTCCGAA 59.172 45.833 0.00 0.00 33.34 4.30
3611 4619 5.478679 CAGATATACTCCCTCTGTTCCGAAT 59.521 44.000 0.00 0.00 33.34 3.34
3612 4620 6.015010 CAGATATACTCCCTCTGTTCCGAATT 60.015 42.308 0.00 0.00 33.34 2.17
3613 4621 7.176865 CAGATATACTCCCTCTGTTCCGAATTA 59.823 40.741 0.00 0.00 33.34 1.40
3614 4622 3.889520 ACTCCCTCTGTTCCGAATTAC 57.110 47.619 0.00 0.00 0.00 1.89
3615 4623 3.442076 ACTCCCTCTGTTCCGAATTACT 58.558 45.455 0.00 0.00 0.00 2.24
3616 4624 3.838903 ACTCCCTCTGTTCCGAATTACTT 59.161 43.478 0.00 0.00 0.00 2.24
3617 4625 4.184629 CTCCCTCTGTTCCGAATTACTTG 58.815 47.826 0.00 0.00 0.00 3.16
3618 4626 3.581332 TCCCTCTGTTCCGAATTACTTGT 59.419 43.478 0.00 0.00 0.00 3.16
3619 4627 3.933332 CCCTCTGTTCCGAATTACTTGTC 59.067 47.826 0.00 0.00 0.00 3.18
3620 4628 4.322801 CCCTCTGTTCCGAATTACTTGTCT 60.323 45.833 0.00 0.00 0.00 3.41
3621 4629 4.865365 CCTCTGTTCCGAATTACTTGTCTC 59.135 45.833 0.00 0.00 0.00 3.36
3622 4630 4.482386 TCTGTTCCGAATTACTTGTCTCG 58.518 43.478 0.00 0.00 0.00 4.04
3630 4638 5.769367 CGAATTACTTGTCTCGGATATGGA 58.231 41.667 0.00 0.00 0.00 3.41
3631 4639 6.390721 CGAATTACTTGTCTCGGATATGGAT 58.609 40.000 0.00 0.00 0.00 3.41
3632 4640 6.309009 CGAATTACTTGTCTCGGATATGGATG 59.691 42.308 0.00 0.00 0.00 3.51
3633 4641 6.672266 ATTACTTGTCTCGGATATGGATGT 57.328 37.500 0.00 0.00 0.00 3.06
3634 4642 7.776618 ATTACTTGTCTCGGATATGGATGTA 57.223 36.000 0.00 0.00 0.00 2.29
3635 4643 7.776618 TTACTTGTCTCGGATATGGATGTAT 57.223 36.000 0.00 0.00 0.00 2.29
3636 4644 6.274157 ACTTGTCTCGGATATGGATGTATC 57.726 41.667 0.00 0.00 0.00 2.24
3637 4645 6.013379 ACTTGTCTCGGATATGGATGTATCT 58.987 40.000 0.00 0.00 32.78 1.98
3638 4646 7.175797 ACTTGTCTCGGATATGGATGTATCTA 58.824 38.462 0.00 0.00 32.78 1.98
3639 4647 7.338196 ACTTGTCTCGGATATGGATGTATCTAG 59.662 40.741 0.00 0.00 32.78 2.43
3640 4648 6.958767 TGTCTCGGATATGGATGTATCTAGA 58.041 40.000 0.00 0.00 32.78 2.43
3641 4649 7.402862 TGTCTCGGATATGGATGTATCTAGAA 58.597 38.462 0.00 0.00 31.35 2.10
3642 4650 7.337184 TGTCTCGGATATGGATGTATCTAGAAC 59.663 40.741 0.00 0.00 31.35 3.01
3643 4651 7.554835 GTCTCGGATATGGATGTATCTAGAACT 59.445 40.741 0.00 0.00 31.35 3.01
3644 4652 8.769359 TCTCGGATATGGATGTATCTAGAACTA 58.231 37.037 0.00 0.00 32.78 2.24
3645 4653 9.397280 CTCGGATATGGATGTATCTAGAACTAA 57.603 37.037 0.00 0.00 32.78 2.24
3646 4654 9.175312 TCGGATATGGATGTATCTAGAACTAAC 57.825 37.037 0.00 0.00 32.78 2.34
3647 4655 8.957466 CGGATATGGATGTATCTAGAACTAACA 58.043 37.037 0.00 0.00 32.78 2.41
3674 4682 8.637196 ACATCTAGATACATCCATTTCTACGA 57.363 34.615 4.54 0.00 0.00 3.43
3675 4683 8.516234 ACATCTAGATACATCCATTTCTACGAC 58.484 37.037 4.54 0.00 0.00 4.34
3676 4684 8.515414 CATCTAGATACATCCATTTCTACGACA 58.485 37.037 4.54 0.00 0.00 4.35
3677 4685 8.459911 TCTAGATACATCCATTTCTACGACAA 57.540 34.615 0.00 0.00 0.00 3.18
3678 4686 8.568794 TCTAGATACATCCATTTCTACGACAAG 58.431 37.037 0.00 0.00 0.00 3.16
3679 4687 7.113658 AGATACATCCATTTCTACGACAAGT 57.886 36.000 0.00 0.00 0.00 3.16
3680 4688 8.234136 AGATACATCCATTTCTACGACAAGTA 57.766 34.615 0.00 0.00 0.00 2.24
3681 4689 8.692710 AGATACATCCATTTCTACGACAAGTAA 58.307 33.333 0.00 0.00 34.45 2.24
3682 4690 9.477484 GATACATCCATTTCTACGACAAGTAAT 57.523 33.333 0.00 0.00 34.45 1.89
3683 4691 9.832445 ATACATCCATTTCTACGACAAGTAATT 57.168 29.630 0.00 0.00 34.45 1.40
3684 4692 8.197988 ACATCCATTTCTACGACAAGTAATTC 57.802 34.615 0.00 0.00 34.45 2.17
3685 4693 7.280205 ACATCCATTTCTACGACAAGTAATTCC 59.720 37.037 0.00 0.00 34.45 3.01
3686 4694 5.808540 TCCATTTCTACGACAAGTAATTCCG 59.191 40.000 0.00 0.00 34.45 4.30
3687 4695 5.808540 CCATTTCTACGACAAGTAATTCCGA 59.191 40.000 0.00 0.00 34.45 4.55
3688 4696 6.311935 CCATTTCTACGACAAGTAATTCCGAA 59.688 38.462 0.00 0.00 34.45 4.30
3689 4697 6.695292 TTTCTACGACAAGTAATTCCGAAC 57.305 37.500 0.00 0.00 34.45 3.95
3690 4698 4.406069 TCTACGACAAGTAATTCCGAACG 58.594 43.478 0.00 0.00 34.45 3.95
3691 4699 2.331194 ACGACAAGTAATTCCGAACGG 58.669 47.619 6.94 6.94 0.00 4.44
3692 4700 2.030007 ACGACAAGTAATTCCGAACGGA 60.030 45.455 12.04 12.04 43.52 4.69
3693 4701 2.597305 CGACAAGTAATTCCGAACGGAG 59.403 50.000 15.34 5.60 46.06 4.63
3694 4702 2.928116 GACAAGTAATTCCGAACGGAGG 59.072 50.000 15.34 4.52 46.06 4.30
3695 4703 2.277084 CAAGTAATTCCGAACGGAGGG 58.723 52.381 15.34 0.00 46.06 4.30
3696 4704 1.856629 AGTAATTCCGAACGGAGGGA 58.143 50.000 15.34 2.49 46.06 4.20
3697 4705 1.755380 AGTAATTCCGAACGGAGGGAG 59.245 52.381 15.34 0.00 46.06 4.30
3698 4706 1.479730 GTAATTCCGAACGGAGGGAGT 59.520 52.381 15.34 4.12 46.06 3.85
3699 4707 1.856629 AATTCCGAACGGAGGGAGTA 58.143 50.000 15.34 1.05 46.06 2.59
3700 4708 1.400737 ATTCCGAACGGAGGGAGTAG 58.599 55.000 15.34 0.00 46.06 2.57
3701 4709 0.038744 TTCCGAACGGAGGGAGTAGT 59.961 55.000 15.34 0.00 46.06 2.73
3702 4710 0.038744 TCCGAACGGAGGGAGTAGTT 59.961 55.000 12.04 0.00 39.76 2.24
3703 4711 0.893447 CCGAACGGAGGGAGTAGTTT 59.107 55.000 7.53 0.00 37.50 2.66
3704 4712 1.135170 CCGAACGGAGGGAGTAGTTTC 60.135 57.143 7.53 0.00 37.50 2.78
3705 4713 1.542915 CGAACGGAGGGAGTAGTTTCA 59.457 52.381 0.00 0.00 0.00 2.69
3706 4714 2.029649 CGAACGGAGGGAGTAGTTTCAA 60.030 50.000 0.00 0.00 0.00 2.69
3707 4715 3.324117 GAACGGAGGGAGTAGTTTCAAC 58.676 50.000 0.00 0.00 0.00 3.18
3708 4716 2.322658 ACGGAGGGAGTAGTTTCAACA 58.677 47.619 0.00 0.00 0.00 3.33
3709 4717 2.701951 ACGGAGGGAGTAGTTTCAACAA 59.298 45.455 0.00 0.00 0.00 2.83
3710 4718 3.244112 ACGGAGGGAGTAGTTTCAACAAG 60.244 47.826 0.00 0.00 0.00 3.16
3711 4719 3.244112 CGGAGGGAGTAGTTTCAACAAGT 60.244 47.826 0.00 0.00 0.00 3.16
3712 4720 4.065789 GGAGGGAGTAGTTTCAACAAGTG 58.934 47.826 0.00 0.00 0.00 3.16
3713 4721 4.202326 GGAGGGAGTAGTTTCAACAAGTGA 60.202 45.833 0.00 0.00 0.00 3.41
3714 4722 5.365619 GAGGGAGTAGTTTCAACAAGTGAA 58.634 41.667 0.00 0.00 44.74 3.18
3715 4723 5.941788 AGGGAGTAGTTTCAACAAGTGAAT 58.058 37.500 0.00 0.00 45.71 2.57
3716 4724 5.998363 AGGGAGTAGTTTCAACAAGTGAATC 59.002 40.000 0.00 0.00 45.71 2.52
3717 4725 5.998363 GGGAGTAGTTTCAACAAGTGAATCT 59.002 40.000 5.32 5.32 45.71 2.40
3718 4726 6.486993 GGGAGTAGTTTCAACAAGTGAATCTT 59.513 38.462 5.29 0.00 45.71 2.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
277 313 9.781834 TTCAAAAATTGTTCATCGTATATCACC 57.218 29.630 0.00 0.00 0.00 4.02
447 485 8.757164 TTTCTTCCTTTTTCTGTTTCTGTTTC 57.243 30.769 0.00 0.00 0.00 2.78
509 554 3.261137 TCAACCGGTTTTTCCTGGTTTTT 59.739 39.130 19.55 0.00 44.36 1.94
510 555 2.832733 TCAACCGGTTTTTCCTGGTTTT 59.167 40.909 19.55 0.00 44.36 2.43
511 556 2.429250 CTCAACCGGTTTTTCCTGGTTT 59.571 45.455 19.55 0.00 44.36 3.27
512 557 2.028876 CTCAACCGGTTTTTCCTGGTT 58.971 47.619 19.55 0.00 46.09 3.67
513 558 1.213430 TCTCAACCGGTTTTTCCTGGT 59.787 47.619 19.55 0.00 41.99 4.00
514 559 1.880027 CTCTCAACCGGTTTTTCCTGG 59.120 52.381 19.55 4.46 36.47 4.45
515 560 2.846193 TCTCTCAACCGGTTTTTCCTG 58.154 47.619 19.55 6.18 0.00 3.86
516 561 3.211865 GTTCTCTCAACCGGTTTTTCCT 58.788 45.455 19.55 0.00 0.00 3.36
517 562 2.292569 GGTTCTCTCAACCGGTTTTTCC 59.707 50.000 19.55 9.59 0.00 3.13
518 563 3.211865 AGGTTCTCTCAACCGGTTTTTC 58.788 45.455 19.55 4.13 44.82 2.29
519 564 3.292492 AGGTTCTCTCAACCGGTTTTT 57.708 42.857 19.55 0.00 44.82 1.94
520 565 3.118000 AGAAGGTTCTCTCAACCGGTTTT 60.118 43.478 19.55 5.89 44.82 2.43
521 566 2.438392 AGAAGGTTCTCTCAACCGGTTT 59.562 45.455 19.55 0.00 44.82 3.27
522 567 2.047830 AGAAGGTTCTCTCAACCGGTT 58.952 47.619 15.86 15.86 44.82 4.44
523 568 1.718280 AGAAGGTTCTCTCAACCGGT 58.282 50.000 0.00 0.00 44.82 5.28
524 569 3.090037 TCTAGAAGGTTCTCTCAACCGG 58.910 50.000 0.00 0.00 44.82 5.28
525 570 4.739195 CTTCTAGAAGGTTCTCTCAACCG 58.261 47.826 22.67 0.00 44.82 4.44
548 593 0.531090 GGCAAACCGGTTTTGGGAAC 60.531 55.000 29.74 14.15 44.34 3.62
549 594 0.688087 AGGCAAACCGGTTTTGGGAA 60.688 50.000 29.74 0.00 44.34 3.97
550 595 1.075896 AGGCAAACCGGTTTTGGGA 60.076 52.632 29.74 0.00 44.34 4.37
551 596 1.068921 CAGGCAAACCGGTTTTGGG 59.931 57.895 29.74 19.35 44.34 4.12
552 597 1.068921 CCAGGCAAACCGGTTTTGG 59.931 57.895 29.74 28.04 44.34 3.28
553 598 0.461961 TTCCAGGCAAACCGGTTTTG 59.538 50.000 29.74 23.68 46.57 2.44
554 599 0.462375 GTTCCAGGCAAACCGGTTTT 59.538 50.000 29.74 13.47 42.76 2.43
555 600 0.396556 AGTTCCAGGCAAACCGGTTT 60.397 50.000 26.87 26.87 42.76 3.27
556 601 1.106944 CAGTTCCAGGCAAACCGGTT 61.107 55.000 15.86 15.86 42.76 4.44
557 602 1.528309 CAGTTCCAGGCAAACCGGT 60.528 57.895 0.00 0.00 42.76 5.28
558 603 2.919494 GCAGTTCCAGGCAAACCGG 61.919 63.158 0.00 0.00 42.76 5.28
559 604 1.856265 GAGCAGTTCCAGGCAAACCG 61.856 60.000 0.00 0.00 42.76 4.44
560 605 0.538287 AGAGCAGTTCCAGGCAAACC 60.538 55.000 0.00 0.00 0.00 3.27
561 606 2.185004 TAGAGCAGTTCCAGGCAAAC 57.815 50.000 0.00 0.00 0.00 2.93
562 607 2.949177 TTAGAGCAGTTCCAGGCAAA 57.051 45.000 0.00 0.00 0.00 3.68
563 608 2.783135 CTTTAGAGCAGTTCCAGGCAA 58.217 47.619 0.00 0.00 0.00 4.52
564 609 2.479566 CTTTAGAGCAGTTCCAGGCA 57.520 50.000 0.00 0.00 0.00 4.75
576 621 1.646189 GCCCACTTCGAGCTTTAGAG 58.354 55.000 0.00 0.00 0.00 2.43
577 622 0.249398 GGCCCACTTCGAGCTTTAGA 59.751 55.000 0.00 0.00 0.00 2.10
578 623 1.084370 CGGCCCACTTCGAGCTTTAG 61.084 60.000 0.00 0.00 0.00 1.85
579 624 1.079405 CGGCCCACTTCGAGCTTTA 60.079 57.895 0.00 0.00 0.00 1.85
580 625 2.358737 CGGCCCACTTCGAGCTTT 60.359 61.111 0.00 0.00 0.00 3.51
581 626 3.311110 TCGGCCCACTTCGAGCTT 61.311 61.111 0.00 0.00 0.00 3.74
582 627 4.070552 GTCGGCCCACTTCGAGCT 62.071 66.667 0.00 0.00 36.00 4.09
593 638 3.666253 CCACAAAACGGGTCGGCC 61.666 66.667 0.00 0.00 0.00 6.13
594 639 2.903350 ACCACAAAACGGGTCGGC 60.903 61.111 0.00 0.00 29.34 5.54
595 640 3.027292 CACCACAAAACGGGTCGG 58.973 61.111 0.00 0.00 34.45 4.79
596 641 2.113131 GAGCACCACAAAACGGGTCG 62.113 60.000 0.00 0.00 34.45 4.79
597 642 1.652563 GAGCACCACAAAACGGGTC 59.347 57.895 0.00 0.00 34.45 4.46
598 643 2.184167 CGAGCACCACAAAACGGGT 61.184 57.895 0.00 0.00 38.10 5.28
599 644 2.637025 CGAGCACCACAAAACGGG 59.363 61.111 0.00 0.00 0.00 5.28
600 645 2.051345 GCGAGCACCACAAAACGG 60.051 61.111 0.00 0.00 0.00 4.44
601 646 1.082756 GAGCGAGCACCACAAAACG 60.083 57.895 0.00 0.00 0.00 3.60
602 647 1.282875 GGAGCGAGCACCACAAAAC 59.717 57.895 6.67 0.00 0.00 2.43
603 648 1.153066 TGGAGCGAGCACCACAAAA 60.153 52.632 10.11 0.00 31.92 2.44
604 649 1.597854 CTGGAGCGAGCACCACAAA 60.598 57.895 10.11 0.00 33.32 2.83
605 650 2.031012 CTGGAGCGAGCACCACAA 59.969 61.111 10.11 0.00 33.32 3.33
606 651 4.687215 GCTGGAGCGAGCACCACA 62.687 66.667 10.11 0.00 38.95 4.17
638 683 1.209275 CCCTATTTGACGCTCGCGAG 61.209 60.000 31.37 31.37 42.83 5.03
639 684 1.226859 CCCTATTTGACGCTCGCGA 60.227 57.895 18.98 9.26 42.83 5.87
640 685 0.597637 ATCCCTATTTGACGCTCGCG 60.598 55.000 10.06 10.06 46.03 5.87
641 686 1.140816 GATCCCTATTTGACGCTCGC 58.859 55.000 0.00 0.00 0.00 5.03
642 687 1.409412 CGATCCCTATTTGACGCTCG 58.591 55.000 0.00 0.00 0.00 5.03
643 688 1.140816 GCGATCCCTATTTGACGCTC 58.859 55.000 0.00 0.00 42.19 5.03
644 689 0.249911 GGCGATCCCTATTTGACGCT 60.250 55.000 0.00 0.00 44.31 5.07
645 690 1.557443 CGGCGATCCCTATTTGACGC 61.557 60.000 0.00 0.00 44.18 5.19
646 691 0.249322 ACGGCGATCCCTATTTGACG 60.249 55.000 16.62 0.00 0.00 4.35
647 692 2.673833 CTACGGCGATCCCTATTTGAC 58.326 52.381 16.62 0.00 0.00 3.18
648 693 1.000506 GCTACGGCGATCCCTATTTGA 59.999 52.381 16.62 0.00 0.00 2.69
649 694 1.000955 AGCTACGGCGATCCCTATTTG 59.999 52.381 16.62 0.00 44.37 2.32
650 695 1.272769 GAGCTACGGCGATCCCTATTT 59.727 52.381 16.62 0.00 44.37 1.40
651 696 0.889306 GAGCTACGGCGATCCCTATT 59.111 55.000 16.62 0.00 44.37 1.73
652 697 0.038455 AGAGCTACGGCGATCCCTAT 59.962 55.000 16.62 0.00 44.37 2.57
653 698 0.605860 GAGAGCTACGGCGATCCCTA 60.606 60.000 16.62 0.00 44.37 3.53
654 699 1.899534 GAGAGCTACGGCGATCCCT 60.900 63.158 16.62 3.62 44.37 4.20
655 700 2.646143 GAGAGCTACGGCGATCCC 59.354 66.667 16.62 0.00 44.37 3.85
656 701 1.226686 TACGAGAGCTACGGCGATCC 61.227 60.000 16.62 0.00 44.37 3.36
657 702 0.110733 GTACGAGAGCTACGGCGATC 60.111 60.000 16.62 5.96 44.37 3.69
658 703 0.812811 TGTACGAGAGCTACGGCGAT 60.813 55.000 16.62 0.00 44.37 4.58
659 704 1.426816 CTGTACGAGAGCTACGGCGA 61.427 60.000 16.62 0.00 44.37 5.54
660 705 1.011019 CTGTACGAGAGCTACGGCG 60.011 63.158 4.80 4.80 44.37 6.46
661 706 1.355916 CCTGTACGAGAGCTACGGC 59.644 63.158 15.34 9.22 39.06 5.68
662 707 1.096386 AGCCTGTACGAGAGCTACGG 61.096 60.000 15.34 2.03 32.73 4.02
663 708 0.305313 GAGCCTGTACGAGAGCTACG 59.695 60.000 10.54 10.54 35.23 3.51
664 709 0.305313 CGAGCCTGTACGAGAGCTAC 59.695 60.000 0.00 0.00 35.23 3.58
665 710 0.107800 ACGAGCCTGTACGAGAGCTA 60.108 55.000 0.00 0.00 35.23 3.32
666 711 0.961358 AACGAGCCTGTACGAGAGCT 60.961 55.000 0.00 0.00 38.56 4.09
667 712 0.523757 GAACGAGCCTGTACGAGAGC 60.524 60.000 0.00 0.00 0.00 4.09
668 713 0.099082 GGAACGAGCCTGTACGAGAG 59.901 60.000 0.00 0.00 0.00 3.20
669 714 0.607217 TGGAACGAGCCTGTACGAGA 60.607 55.000 0.00 0.00 0.00 4.04
670 715 0.456312 GTGGAACGAGCCTGTACGAG 60.456 60.000 0.00 0.00 0.00 4.18
671 716 1.582968 GTGGAACGAGCCTGTACGA 59.417 57.895 0.00 0.00 0.00 3.43
672 717 1.445582 GGTGGAACGAGCCTGTACG 60.446 63.158 0.00 0.00 38.12 3.67
673 718 0.034337 TTGGTGGAACGAGCCTGTAC 59.966 55.000 0.00 0.00 38.12 2.90
674 719 0.320374 CTTGGTGGAACGAGCCTGTA 59.680 55.000 0.00 0.00 38.12 2.74
675 720 1.071471 CTTGGTGGAACGAGCCTGT 59.929 57.895 0.00 0.00 38.12 4.00
676 721 2.328099 GCTTGGTGGAACGAGCCTG 61.328 63.158 0.00 0.00 39.74 4.85
677 722 2.032681 GCTTGGTGGAACGAGCCT 59.967 61.111 0.00 0.00 39.74 4.58
678 723 3.423154 CGCTTGGTGGAACGAGCC 61.423 66.667 0.00 0.00 41.73 4.70
679 724 4.090057 GCGCTTGGTGGAACGAGC 62.090 66.667 0.00 0.00 41.45 5.03
680 725 3.423154 GGCGCTTGGTGGAACGAG 61.423 66.667 7.64 0.00 38.12 4.18
698 743 4.681978 AGTTGACGAGGGCACGGC 62.682 66.667 8.04 5.37 42.12 5.68
699 744 2.432628 GAGTTGACGAGGGCACGG 60.433 66.667 8.04 0.00 37.61 4.94
700 745 2.432628 GGAGTTGACGAGGGCACG 60.433 66.667 0.00 2.09 39.31 5.34
701 746 2.432628 CGGAGTTGACGAGGGCAC 60.433 66.667 0.00 0.00 0.00 5.01
702 747 4.373116 GCGGAGTTGACGAGGGCA 62.373 66.667 0.00 0.00 0.00 5.36
704 749 4.796231 CGGCGGAGTTGACGAGGG 62.796 72.222 0.00 0.00 0.00 4.30
804 849 3.479269 GACTTTGACGAGGGCGCG 61.479 66.667 0.00 0.00 42.48 6.86
805 850 3.119096 GGACTTTGACGAGGGCGC 61.119 66.667 0.00 0.00 42.48 6.53
806 851 2.809601 CGGACTTTGACGAGGGCG 60.810 66.667 0.00 0.00 44.79 6.13
807 852 3.119096 GCGGACTTTGACGAGGGC 61.119 66.667 0.00 0.00 0.00 5.19
808 853 2.434359 GGCGGACTTTGACGAGGG 60.434 66.667 0.00 0.00 0.00 4.30
809 854 2.809601 CGGCGGACTTTGACGAGG 60.810 66.667 0.00 0.00 0.00 4.63
810 855 3.479269 GCGGCGGACTTTGACGAG 61.479 66.667 9.78 0.00 0.00 4.18
878 923 3.562779 TTCACGGGCGAACGAGGAC 62.563 63.158 6.19 0.00 37.61 3.85
879 924 3.296836 TTCACGGGCGAACGAGGA 61.297 61.111 6.19 1.13 37.61 3.71
882 927 3.851845 CTGGTTCACGGGCGAACGA 62.852 63.158 6.19 4.51 45.12 3.85
883 928 3.411351 CTGGTTCACGGGCGAACG 61.411 66.667 8.07 0.00 45.12 3.95
884 929 1.890510 AACTGGTTCACGGGCGAAC 60.891 57.895 6.19 6.19 43.75 3.95
885 930 1.890041 CAACTGGTTCACGGGCGAA 60.890 57.895 0.00 0.00 0.00 4.70
886 931 2.280524 CAACTGGTTCACGGGCGA 60.281 61.111 0.00 0.00 0.00 5.54
887 932 2.280524 TCAACTGGTTCACGGGCG 60.281 61.111 0.00 0.00 0.00 6.13
888 933 0.951040 CTCTCAACTGGTTCACGGGC 60.951 60.000 0.00 0.00 0.00 6.13
889 934 0.320771 CCTCTCAACTGGTTCACGGG 60.321 60.000 0.00 0.00 0.00 5.28
890 935 0.320771 CCCTCTCAACTGGTTCACGG 60.321 60.000 0.00 0.00 0.00 4.94
897 942 1.673665 GTGCTGCCCTCTCAACTGG 60.674 63.158 0.00 0.00 0.00 4.00
898 943 0.250640 AAGTGCTGCCCTCTCAACTG 60.251 55.000 0.00 0.00 0.00 3.16
900 945 0.957888 GGAAGTGCTGCCCTCTCAAC 60.958 60.000 0.00 0.00 0.00 3.18
912 957 4.516698 TCTCAATCAGACAAAAGGAAGTGC 59.483 41.667 0.00 0.00 0.00 4.40
923 968 3.196469 CCTGGCTACTTCTCAATCAGACA 59.804 47.826 0.00 0.00 0.00 3.41
1495 1544 0.033405 TGGTAGTCGAAGGAGGGGAG 60.033 60.000 0.00 0.00 0.00 4.30
1569 1618 2.031258 TCGCTCTCGTCTTCTCATCT 57.969 50.000 0.00 0.00 36.96 2.90
1824 1873 3.185299 ATTGACGTCGGCACCCCAA 62.185 57.895 11.62 0.00 0.00 4.12
1911 1960 2.734079 GCTCTCAAGAAACAGTTCCGAG 59.266 50.000 0.00 0.00 36.09 4.63
2233 2304 2.711311 CATGCGCTTGGTCCGATG 59.289 61.111 15.12 0.45 0.00 3.84
2309 2380 1.022982 CGCTTCTGCAGATCCAGCAA 61.023 55.000 29.13 10.12 42.17 3.91
2584 2776 3.627395 TCCCAGTCAATACCATCACAC 57.373 47.619 0.00 0.00 0.00 3.82
2731 3073 3.118884 TCACCGTAATAAGTGGAGAAGGC 60.119 47.826 0.00 0.00 34.67 4.35
2770 3112 2.223340 GCCTTCGTCCATGCAATAAGTG 60.223 50.000 0.00 0.00 0.00 3.16
2780 3122 1.079127 CAACTCCGCCTTCGTCCAT 60.079 57.895 0.00 0.00 0.00 3.41
2806 3148 8.677300 CATGCAACTAACTTGGTCATATACTTT 58.323 33.333 0.00 0.00 0.00 2.66
2807 3149 7.829211 ACATGCAACTAACTTGGTCATATACTT 59.171 33.333 0.00 0.00 0.00 2.24
2835 3177 9.535170 TTCTTATCCAATTATACACCCAACAAA 57.465 29.630 0.00 0.00 0.00 2.83
2903 3245 7.584122 TCCTGAGTATATGACCAAGTTAGAC 57.416 40.000 0.00 0.00 0.00 2.59
2929 3271 2.607750 TGGAGGAAGAAGGCGGCT 60.608 61.111 5.25 5.25 0.00 5.52
2963 3305 1.338674 CGTCACCTTCACATTGGCCTA 60.339 52.381 3.32 0.00 0.00 3.93
3028 3372 2.484770 GGTGGATCTAAACCAGCGCATA 60.485 50.000 11.47 0.00 44.02 3.14
3037 3381 4.515567 GGAATGAATCGGGTGGATCTAAAC 59.484 45.833 0.00 0.00 33.02 2.01
3053 3397 5.096443 ACCTTGCAAAAACTTGGAATGAA 57.904 34.783 0.00 0.00 31.96 2.57
3283 4251 6.317857 GCTCAAAGCTAACAGATCGAAAATT 58.682 36.000 0.00 0.00 38.45 1.82
3296 4264 4.207165 ACAAGTCAAAGGCTCAAAGCTAA 58.793 39.130 0.00 0.00 41.99 3.09
3393 4393 0.981183 AGCCGACCTGAACAATACCA 59.019 50.000 0.00 0.00 0.00 3.25
3489 4497 9.959749 TGGTCATCACTTTGAAAAATTAAGTAC 57.040 29.630 0.00 0.00 31.30 2.73
3595 4603 4.184629 CAAGTAATTCGGAACAGAGGGAG 58.815 47.826 0.00 0.00 0.00 4.30
3596 4604 3.581332 ACAAGTAATTCGGAACAGAGGGA 59.419 43.478 0.00 0.00 0.00 4.20
3597 4605 3.933332 GACAAGTAATTCGGAACAGAGGG 59.067 47.826 0.00 0.00 0.00 4.30
3598 4606 4.822026 AGACAAGTAATTCGGAACAGAGG 58.178 43.478 0.00 0.00 0.00 3.69
3599 4607 4.559251 CGAGACAAGTAATTCGGAACAGAG 59.441 45.833 0.00 0.00 0.00 3.35
3600 4608 4.482386 CGAGACAAGTAATTCGGAACAGA 58.518 43.478 0.00 0.00 0.00 3.41
3601 4609 4.824848 CGAGACAAGTAATTCGGAACAG 57.175 45.455 0.00 0.00 0.00 3.16
3607 4615 5.769367 TCCATATCCGAGACAAGTAATTCG 58.231 41.667 0.00 0.00 0.00 3.34
3608 4616 7.155328 ACATCCATATCCGAGACAAGTAATTC 58.845 38.462 0.00 0.00 0.00 2.17
3609 4617 7.067496 ACATCCATATCCGAGACAAGTAATT 57.933 36.000 0.00 0.00 0.00 1.40
3610 4618 6.672266 ACATCCATATCCGAGACAAGTAAT 57.328 37.500 0.00 0.00 0.00 1.89
3611 4619 7.670140 AGATACATCCATATCCGAGACAAGTAA 59.330 37.037 0.00 0.00 32.76 2.24
3612 4620 7.175797 AGATACATCCATATCCGAGACAAGTA 58.824 38.462 0.00 0.00 32.76 2.24
3613 4621 6.013379 AGATACATCCATATCCGAGACAAGT 58.987 40.000 0.00 0.00 32.76 3.16
3614 4622 6.522625 AGATACATCCATATCCGAGACAAG 57.477 41.667 0.00 0.00 32.76 3.16
3615 4623 7.402862 TCTAGATACATCCATATCCGAGACAA 58.597 38.462 0.00 0.00 32.76 3.18
3616 4624 6.958767 TCTAGATACATCCATATCCGAGACA 58.041 40.000 0.00 0.00 32.76 3.41
3617 4625 7.554835 AGTTCTAGATACATCCATATCCGAGAC 59.445 40.741 0.00 0.00 32.76 3.36
3618 4626 7.634718 AGTTCTAGATACATCCATATCCGAGA 58.365 38.462 0.00 0.00 32.76 4.04
3619 4627 7.873719 AGTTCTAGATACATCCATATCCGAG 57.126 40.000 0.00 0.00 32.76 4.63
3620 4628 9.175312 GTTAGTTCTAGATACATCCATATCCGA 57.825 37.037 0.00 0.00 32.76 4.55
3621 4629 8.957466 TGTTAGTTCTAGATACATCCATATCCG 58.043 37.037 0.00 0.00 32.76 4.18
3648 4656 9.734984 TCGTAGAAATGGATGTATCTAGATGTA 57.265 33.333 15.79 4.44 0.00 2.29
3649 4657 8.516234 GTCGTAGAAATGGATGTATCTAGATGT 58.484 37.037 15.79 1.25 39.69 3.06
3650 4658 8.515414 TGTCGTAGAAATGGATGTATCTAGATG 58.485 37.037 15.79 0.00 39.69 2.90
3651 4659 8.637196 TGTCGTAGAAATGGATGTATCTAGAT 57.363 34.615 10.73 10.73 39.69 1.98
3652 4660 8.459911 TTGTCGTAGAAATGGATGTATCTAGA 57.540 34.615 0.00 0.00 39.69 2.43
3653 4661 8.353684 ACTTGTCGTAGAAATGGATGTATCTAG 58.646 37.037 0.00 0.00 39.69 2.43
3654 4662 8.234136 ACTTGTCGTAGAAATGGATGTATCTA 57.766 34.615 0.00 0.00 39.69 1.98
3655 4663 7.113658 ACTTGTCGTAGAAATGGATGTATCT 57.886 36.000 0.00 0.00 39.69 1.98
3656 4664 8.867112 TTACTTGTCGTAGAAATGGATGTATC 57.133 34.615 0.00 0.00 39.69 2.24
3657 4665 9.832445 AATTACTTGTCGTAGAAATGGATGTAT 57.168 29.630 0.00 0.00 39.69 2.29
3658 4666 9.309516 GAATTACTTGTCGTAGAAATGGATGTA 57.690 33.333 0.00 0.00 39.69 2.29
3659 4667 7.280205 GGAATTACTTGTCGTAGAAATGGATGT 59.720 37.037 0.00 0.00 39.69 3.06
3660 4668 7.516785 CGGAATTACTTGTCGTAGAAATGGATG 60.517 40.741 0.00 0.00 39.69 3.51
3661 4669 6.479001 CGGAATTACTTGTCGTAGAAATGGAT 59.521 38.462 0.00 0.00 39.69 3.41
3662 4670 5.808540 CGGAATTACTTGTCGTAGAAATGGA 59.191 40.000 0.00 0.00 39.69 3.41
3663 4671 5.808540 TCGGAATTACTTGTCGTAGAAATGG 59.191 40.000 0.00 0.00 39.69 3.16
3664 4672 6.880822 TCGGAATTACTTGTCGTAGAAATG 57.119 37.500 0.00 0.00 39.69 2.32
3665 4673 6.034256 CGTTCGGAATTACTTGTCGTAGAAAT 59.966 38.462 0.00 0.00 39.69 2.17
3666 4674 5.343058 CGTTCGGAATTACTTGTCGTAGAAA 59.657 40.000 0.00 0.00 39.69 2.52
3667 4675 4.853196 CGTTCGGAATTACTTGTCGTAGAA 59.147 41.667 0.00 0.00 39.69 2.10
3668 4676 4.406069 CGTTCGGAATTACTTGTCGTAGA 58.594 43.478 0.00 0.00 0.00 2.59
3669 4677 3.545078 CCGTTCGGAATTACTTGTCGTAG 59.455 47.826 5.19 0.00 0.00 3.51
3670 4678 3.190327 TCCGTTCGGAATTACTTGTCGTA 59.810 43.478 11.66 0.00 0.00 3.43
3671 4679 2.030007 TCCGTTCGGAATTACTTGTCGT 60.030 45.455 11.66 0.00 0.00 4.34
3672 4680 2.597305 CTCCGTTCGGAATTACTTGTCG 59.403 50.000 14.79 0.00 33.41 4.35
3673 4681 2.928116 CCTCCGTTCGGAATTACTTGTC 59.072 50.000 14.79 0.00 33.41 3.18
3674 4682 2.354403 CCCTCCGTTCGGAATTACTTGT 60.354 50.000 14.79 0.00 33.41 3.16
3675 4683 2.093869 TCCCTCCGTTCGGAATTACTTG 60.094 50.000 14.79 1.97 33.41 3.16
3676 4684 2.167900 CTCCCTCCGTTCGGAATTACTT 59.832 50.000 14.79 0.00 33.41 2.24
3677 4685 1.755380 CTCCCTCCGTTCGGAATTACT 59.245 52.381 14.79 0.00 33.41 2.24
3678 4686 1.479730 ACTCCCTCCGTTCGGAATTAC 59.520 52.381 14.79 0.00 33.41 1.89
3679 4687 1.856629 ACTCCCTCCGTTCGGAATTA 58.143 50.000 14.79 2.82 33.41 1.40
3680 4688 1.755380 CTACTCCCTCCGTTCGGAATT 59.245 52.381 14.79 0.00 33.41 2.17
3681 4689 1.341778 ACTACTCCCTCCGTTCGGAAT 60.342 52.381 14.79 2.09 33.41 3.01
3682 4690 0.038744 ACTACTCCCTCCGTTCGGAA 59.961 55.000 14.79 0.04 33.41 4.30
3683 4691 0.038744 AACTACTCCCTCCGTTCGGA 59.961 55.000 13.34 13.34 0.00 4.55
3684 4692 0.893447 AAACTACTCCCTCCGTTCGG 59.107 55.000 4.74 4.74 0.00 4.30
3685 4693 1.542915 TGAAACTACTCCCTCCGTTCG 59.457 52.381 0.00 0.00 0.00 3.95
3686 4694 3.243975 TGTTGAAACTACTCCCTCCGTTC 60.244 47.826 0.00 0.00 0.00 3.95
3687 4695 2.701951 TGTTGAAACTACTCCCTCCGTT 59.298 45.455 0.00 0.00 0.00 4.44
3688 4696 2.322658 TGTTGAAACTACTCCCTCCGT 58.677 47.619 0.00 0.00 0.00 4.69
3689 4697 3.244112 ACTTGTTGAAACTACTCCCTCCG 60.244 47.826 0.00 0.00 0.00 4.63
3690 4698 4.065789 CACTTGTTGAAACTACTCCCTCC 58.934 47.826 0.00 0.00 0.00 4.30
3691 4699 4.957296 TCACTTGTTGAAACTACTCCCTC 58.043 43.478 0.00 0.00 0.00 4.30
3692 4700 5.367945 TTCACTTGTTGAAACTACTCCCT 57.632 39.130 0.00 0.00 41.51 4.20


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

AutoCloner maintained by Alex Coulton.