Multiple sequence alignment - TraesCS6D01G106600

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 TraesCS6D01G106600 chr6D 100.000 2447 0 0 1 2447 69906412 69903966 0.000000e+00 4519
1 TraesCS6D01G106600 chr6D 84.965 858 82 19 806 1638 69788557 69787722 0.000000e+00 826
2 TraesCS6D01G106600 chr6D 86.802 591 57 11 1064 1638 69824657 69824072 7.380000e-180 640
3 TraesCS6D01G106600 chr6D 84.735 642 67 15 1021 1638 69750356 69749722 4.470000e-172 614
4 TraesCS6D01G106600 chr6D 89.024 328 29 5 1312 1638 69785332 69785011 1.360000e-107 399
5 TraesCS6D01G106600 chr6D 88.415 328 31 5 1312 1638 69821690 69821369 2.950000e-104 388
6 TraesCS6D01G106600 chr6D 86.158 354 26 9 912 1247 69820767 69820419 6.430000e-96 361
7 TraesCS6D01G106600 chr6D 91.600 250 20 1 1289 1538 69725057 69724809 6.480000e-91 344
8 TraesCS6D01G106600 chr6D 83.908 348 31 11 916 1247 69725338 69725000 2.360000e-80 309
9 TraesCS6D01G106600 chr6D 82.958 311 28 10 918 1214 69785790 69785491 8.680000e-65 257
10 TraesCS6D01G106600 chr6D 92.174 115 8 1 1525 1638 69747525 69747411 7.000000e-36 161
11 TraesCS6D01G106600 chr6A 92.950 766 25 5 778 1530 87645333 87644584 0.000000e+00 1088
12 TraesCS6D01G106600 chr6A 87.172 647 29 32 1 640 583687344 583687943 0.000000e+00 686
13 TraesCS6D01G106600 chr6A 81.720 558 80 18 1901 2445 591826816 591826268 1.730000e-121 446
14 TraesCS6D01G106600 chr6B 89.897 871 42 18 788 1638 144796734 144795890 0.000000e+00 1079
15 TraesCS6D01G106600 chr6B 83.066 874 85 31 808 1638 144751689 144750836 0.000000e+00 736
16 TraesCS6D01G106600 chr6B 85.373 335 29 11 805 1122 144915708 144915377 1.810000e-86 329
17 TraesCS6D01G106600 chr6B 90.164 122 11 1 1519 1639 144729156 144729035 9.060000e-35 158
18 TraesCS6D01G106600 chr6B 90.909 77 7 0 1 77 560626636 560626712 1.200000e-18 104
19 TraesCS6D01G106600 chr5B 89.905 634 45 9 1 632 570342164 570342780 0.000000e+00 798
20 TraesCS6D01G106600 chr5A 96.092 435 10 3 1 430 34839704 34839272 0.000000e+00 702
21 TraesCS6D01G106600 chr1A 95.862 435 11 4 1 430 2990789 2990357 0.000000e+00 697
22 TraesCS6D01G106600 chr1A 84.831 178 18 7 460 633 568527019 568527191 1.160000e-38 171
23 TraesCS6D01G106600 chr1A 90.076 131 10 3 399 529 541158845 541158972 1.510000e-37 167
24 TraesCS6D01G106600 chr1A 87.143 140 13 4 494 633 19431707 19431841 1.170000e-33 154
25 TraesCS6D01G106600 chr1A 87.143 140 13 4 494 633 19434635 19434769 1.170000e-33 154
26 TraesCS6D01G106600 chr4A 94.432 449 22 2 1 448 713745524 713745970 0.000000e+00 688
27 TraesCS6D01G106600 chr7D 92.434 489 18 8 146 632 259388676 259388205 0.000000e+00 680
28 TraesCS6D01G106600 chr7D 97.977 346 7 0 1 346 528062179 528061834 3.480000e-168 601
29 TraesCS6D01G106600 chr7D 82.923 568 72 19 1893 2447 484368529 484369084 2.830000e-134 488
30 TraesCS6D01G106600 chr7D 82.832 565 73 17 1892 2447 1599801 1600350 3.660000e-133 484
31 TraesCS6D01G106600 chr7D 81.883 563 79 16 1892 2446 1604110 1604657 1.030000e-123 453
32 TraesCS6D01G106600 chr7D 92.827 237 10 7 358 591 528061854 528061622 1.080000e-88 337
33 TraesCS6D01G106600 chr5D 91.446 491 12 9 146 635 394785619 394785158 0.000000e+00 647
34 TraesCS6D01G106600 chr2B 94.444 378 19 1 1 378 657935424 657935799 4.540000e-162 580
35 TraesCS6D01G106600 chr2B 80.851 188 22 14 453 634 257920000 257919821 4.240000e-28 135
36 TraesCS6D01G106600 chr2B 93.151 73 3 2 378 448 657935831 657935903 3.330000e-19 106
37 TraesCS6D01G106600 chr3A 83.627 568 68 19 1894 2447 165339993 165340549 6.040000e-141 510
38 TraesCS6D01G106600 chr3A 84.127 189 18 9 449 633 628891700 628891520 3.230000e-39 172
39 TraesCS6D01G106600 chr7B 82.238 563 77 19 1895 2446 79070307 79070857 4.770000e-127 464
40 TraesCS6D01G106600 chr1D 82.500 560 69 18 1889 2436 475956209 475956751 4.770000e-127 464
41 TraesCS6D01G106600 chr3D 81.979 566 75 21 1895 2447 584343108 584342557 2.870000e-124 455
42 TraesCS6D01G106600 chr2A 81.105 561 87 14 1897 2447 80200551 80200000 4.830000e-117 431
43 TraesCS6D01G106600 chr2A 81.818 187 18 13 460 633 18166029 18165846 2.540000e-30 143
44 TraesCS6D01G106600 chr2D 90.647 139 7 5 503 638 553263691 553263556 1.930000e-41 180
45 TraesCS6D01G106600 chrUn 87.143 140 13 4 494 633 252251093 252250959 1.170000e-33 154
46 TraesCS6D01G106600 chrUn 87.143 140 13 4 494 633 362469830 362469964 1.170000e-33 154
47 TraesCS6D01G106600 chrUn 90.000 80 8 0 1 80 49381679 49381600 1.200000e-18 104


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 TraesCS6D01G106600 chr6D 69903966 69906412 2446 True 4519.0 4519 100.0000 1 2447 1 chr6D.!!$R1 2446
1 TraesCS6D01G106600 chr6D 69785011 69788557 3546 True 494.0 826 85.6490 806 1638 3 chr6D.!!$R4 832
2 TraesCS6D01G106600 chr6D 69820419 69824657 4238 True 463.0 640 87.1250 912 1638 3 chr6D.!!$R5 726
3 TraesCS6D01G106600 chr6D 69747411 69750356 2945 True 387.5 614 88.4545 1021 1638 2 chr6D.!!$R3 617
4 TraesCS6D01G106600 chr6D 69724809 69725338 529 True 326.5 344 87.7540 916 1538 2 chr6D.!!$R2 622
5 TraesCS6D01G106600 chr6A 87644584 87645333 749 True 1088.0 1088 92.9500 778 1530 1 chr6A.!!$R1 752
6 TraesCS6D01G106600 chr6A 583687344 583687943 599 False 686.0 686 87.1720 1 640 1 chr6A.!!$F1 639
7 TraesCS6D01G106600 chr6A 591826268 591826816 548 True 446.0 446 81.7200 1901 2445 1 chr6A.!!$R2 544
8 TraesCS6D01G106600 chr6B 144795890 144796734 844 True 1079.0 1079 89.8970 788 1638 1 chr6B.!!$R3 850
9 TraesCS6D01G106600 chr6B 144750836 144751689 853 True 736.0 736 83.0660 808 1638 1 chr6B.!!$R2 830
10 TraesCS6D01G106600 chr5B 570342164 570342780 616 False 798.0 798 89.9050 1 632 1 chr5B.!!$F1 631
11 TraesCS6D01G106600 chr7D 484368529 484369084 555 False 488.0 488 82.9230 1893 2447 1 chr7D.!!$F1 554
12 TraesCS6D01G106600 chr7D 528061622 528062179 557 True 469.0 601 95.4020 1 591 2 chr7D.!!$R2 590
13 TraesCS6D01G106600 chr7D 1599801 1604657 4856 False 468.5 484 82.3575 1892 2447 2 chr7D.!!$F2 555
14 TraesCS6D01G106600 chr3A 165339993 165340549 556 False 510.0 510 83.6270 1894 2447 1 chr3A.!!$F1 553
15 TraesCS6D01G106600 chr7B 79070307 79070857 550 False 464.0 464 82.2380 1895 2446 1 chr7B.!!$F1 551
16 TraesCS6D01G106600 chr1D 475956209 475956751 542 False 464.0 464 82.5000 1889 2436 1 chr1D.!!$F1 547
17 TraesCS6D01G106600 chr3D 584342557 584343108 551 True 455.0 455 81.9790 1895 2447 1 chr3D.!!$R1 552
18 TraesCS6D01G106600 chr2A 80200000 80200551 551 True 431.0 431 81.1050 1897 2447 1 chr2A.!!$R2 550


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
471 478 0.173708 GATCGAGAGGAGCGGTGTTT 59.826 55.0 0.0 0.0 0.0 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1882 5981 0.035056 AGTTGCTCCCACATACAGGC 60.035 55.0 0.0 0.0 0.0 4.85 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
442 448 1.498865 GCGACGGTGCCAGGAATATG 61.499 60.000 0.00 0.00 0.00 1.78
471 478 0.173708 GATCGAGAGGAGCGGTGTTT 59.826 55.000 0.00 0.00 0.00 2.83
472 479 0.608640 ATCGAGAGGAGCGGTGTTTT 59.391 50.000 0.00 0.00 0.00 2.43
473 480 0.319555 TCGAGAGGAGCGGTGTTTTG 60.320 55.000 0.00 0.00 0.00 2.44
474 481 0.600255 CGAGAGGAGCGGTGTTTTGT 60.600 55.000 0.00 0.00 0.00 2.83
475 482 0.868406 GAGAGGAGCGGTGTTTTGTG 59.132 55.000 0.00 0.00 0.00 3.33
476 483 1.166531 AGAGGAGCGGTGTTTTGTGC 61.167 55.000 0.00 0.00 0.00 4.57
477 484 2.051345 GGAGCGGTGTTTTGTGCG 60.051 61.111 0.00 0.00 0.00 5.34
478 485 2.713154 GAGCGGTGTTTTGTGCGT 59.287 55.556 0.00 0.00 0.00 5.24
479 486 1.654137 GAGCGGTGTTTTGTGCGTG 60.654 57.895 0.00 0.00 0.00 5.34
480 487 2.653766 GCGGTGTTTTGTGCGTGG 60.654 61.111 0.00 0.00 0.00 4.94
482 489 1.585002 CGGTGTTTTGTGCGTGGTG 60.585 57.895 0.00 0.00 0.00 4.17
484 491 1.876263 GTGTTTTGTGCGTGGTGGC 60.876 57.895 0.00 0.00 0.00 5.01
521 528 4.410400 GGGGTGGGGTGCGAGAAG 62.410 72.222 0.00 0.00 0.00 2.85
522 529 4.410400 GGGTGGGGTGCGAGAAGG 62.410 72.222 0.00 0.00 0.00 3.46
523 530 4.410400 GGTGGGGTGCGAGAAGGG 62.410 72.222 0.00 0.00 0.00 3.95
525 532 4.649705 TGGGGTGCGAGAAGGGGA 62.650 66.667 0.00 0.00 0.00 4.81
528 535 4.452733 GGTGCGAGAAGGGGACGG 62.453 72.222 0.00 0.00 0.00 4.79
591 598 4.841443 AAGTGGTGGGACGAAAATAAAC 57.159 40.909 0.00 0.00 0.00 2.01
594 601 1.469703 GGTGGGACGAAAATAAACCCG 59.530 52.381 0.00 0.00 43.04 5.28
596 603 1.350351 TGGGACGAAAATAAACCCGGA 59.650 47.619 0.73 0.00 43.04 5.14
598 605 2.162208 GGGACGAAAATAAACCCGGAAC 59.838 50.000 0.73 0.00 0.00 3.62
633 641 7.721842 CCAACTGAGACATTAGGAGTAGAGATA 59.278 40.741 0.00 0.00 0.00 1.98
640 648 9.184523 AGACATTAGGAGTAGAGATATATGTGC 57.815 37.037 0.00 0.00 0.00 4.57
641 649 7.990917 ACATTAGGAGTAGAGATATATGTGCG 58.009 38.462 0.00 0.00 0.00 5.34
642 650 7.612244 ACATTAGGAGTAGAGATATATGTGCGT 59.388 37.037 0.00 0.00 0.00 5.24
643 651 5.888691 AGGAGTAGAGATATATGTGCGTG 57.111 43.478 0.00 0.00 0.00 5.34
644 652 5.317808 AGGAGTAGAGATATATGTGCGTGT 58.682 41.667 0.00 0.00 0.00 4.49
645 653 6.473758 AGGAGTAGAGATATATGTGCGTGTA 58.526 40.000 0.00 0.00 0.00 2.90
646 654 7.113437 AGGAGTAGAGATATATGTGCGTGTAT 58.887 38.462 0.00 0.00 0.00 2.29
647 655 7.281324 AGGAGTAGAGATATATGTGCGTGTATC 59.719 40.741 0.00 1.47 0.00 2.24
648 656 7.065923 GGAGTAGAGATATATGTGCGTGTATCA 59.934 40.741 9.67 0.00 0.00 2.15
649 657 7.753659 AGTAGAGATATATGTGCGTGTATCAC 58.246 38.462 9.67 4.90 35.14 3.06
650 658 6.575162 AGAGATATATGTGCGTGTATCACA 57.425 37.500 9.67 0.00 46.86 3.58
651 659 6.981722 AGAGATATATGTGCGTGTATCACAA 58.018 36.000 9.67 0.00 46.07 3.33
652 660 7.606349 AGAGATATATGTGCGTGTATCACAAT 58.394 34.615 9.67 0.00 46.07 2.71
653 661 8.739972 AGAGATATATGTGCGTGTATCACAATA 58.260 33.333 9.67 1.69 46.07 1.90
654 662 9.521503 GAGATATATGTGCGTGTATCACAATAT 57.478 33.333 9.67 5.59 46.07 1.28
706 714 9.755064 AAACATCTATATCTTTGTTTTTCGACG 57.245 29.630 0.00 0.00 38.72 5.12
707 715 7.906160 ACATCTATATCTTTGTTTTTCGACGG 58.094 34.615 0.00 0.00 0.00 4.79
708 716 6.340537 TCTATATCTTTGTTTTTCGACGGC 57.659 37.500 0.00 0.00 0.00 5.68
709 717 5.870433 TCTATATCTTTGTTTTTCGACGGCA 59.130 36.000 0.00 0.00 0.00 5.69
710 718 3.701532 ATCTTTGTTTTTCGACGGCAA 57.298 38.095 0.00 0.00 0.00 4.52
711 719 2.788030 TCTTTGTTTTTCGACGGCAAC 58.212 42.857 0.00 0.00 0.00 4.17
712 720 2.161808 TCTTTGTTTTTCGACGGCAACA 59.838 40.909 0.00 0.00 0.00 3.33
713 721 1.897641 TTGTTTTTCGACGGCAACAC 58.102 45.000 0.00 0.00 0.00 3.32
714 722 0.803117 TGTTTTTCGACGGCAACACA 59.197 45.000 0.00 0.00 0.00 3.72
715 723 1.199327 TGTTTTTCGACGGCAACACAA 59.801 42.857 0.00 0.00 0.00 3.33
716 724 1.843753 GTTTTTCGACGGCAACACAAG 59.156 47.619 0.00 0.00 0.00 3.16
717 725 0.378962 TTTTCGACGGCAACACAAGG 59.621 50.000 0.00 0.00 0.00 3.61
718 726 0.462225 TTTCGACGGCAACACAAGGA 60.462 50.000 0.00 0.00 0.00 3.36
719 727 1.155424 TTCGACGGCAACACAAGGAC 61.155 55.000 0.00 0.00 0.00 3.85
720 728 1.885388 CGACGGCAACACAAGGACA 60.885 57.895 0.00 0.00 0.00 4.02
721 729 1.227999 CGACGGCAACACAAGGACAT 61.228 55.000 0.00 0.00 0.00 3.06
722 730 0.951558 GACGGCAACACAAGGACATT 59.048 50.000 0.00 0.00 0.00 2.71
723 731 0.951558 ACGGCAACACAAGGACATTC 59.048 50.000 0.00 0.00 0.00 2.67
724 732 0.950836 CGGCAACACAAGGACATTCA 59.049 50.000 0.00 0.00 0.00 2.57
725 733 1.541147 CGGCAACACAAGGACATTCAT 59.459 47.619 0.00 0.00 0.00 2.57
726 734 2.414559 CGGCAACACAAGGACATTCATC 60.415 50.000 0.00 0.00 0.00 2.92
727 735 2.821969 GGCAACACAAGGACATTCATCT 59.178 45.455 0.00 0.00 0.00 2.90
728 736 4.009675 GGCAACACAAGGACATTCATCTA 58.990 43.478 0.00 0.00 0.00 1.98
729 737 4.095483 GGCAACACAAGGACATTCATCTAG 59.905 45.833 0.00 0.00 0.00 2.43
730 738 4.697352 GCAACACAAGGACATTCATCTAGT 59.303 41.667 0.00 0.00 0.00 2.57
731 739 5.391310 GCAACACAAGGACATTCATCTAGTG 60.391 44.000 0.00 0.00 0.00 2.74
732 740 5.745312 ACACAAGGACATTCATCTAGTGA 57.255 39.130 0.00 0.00 34.25 3.41
733 741 6.305272 ACACAAGGACATTCATCTAGTGAT 57.695 37.500 0.00 0.00 36.54 3.06
734 742 7.423844 ACACAAGGACATTCATCTAGTGATA 57.576 36.000 0.00 0.00 36.54 2.15
735 743 7.851228 ACACAAGGACATTCATCTAGTGATAA 58.149 34.615 0.00 0.00 36.54 1.75
736 744 8.321353 ACACAAGGACATTCATCTAGTGATAAA 58.679 33.333 0.00 0.00 36.54 1.40
737 745 8.607459 CACAAGGACATTCATCTAGTGATAAAC 58.393 37.037 0.00 0.00 36.54 2.01
738 746 8.321353 ACAAGGACATTCATCTAGTGATAAACA 58.679 33.333 0.00 0.00 36.54 2.83
739 747 9.166173 CAAGGACATTCATCTAGTGATAAACAA 57.834 33.333 0.00 0.00 36.54 2.83
740 748 9.739276 AAGGACATTCATCTAGTGATAAACAAA 57.261 29.630 0.00 0.00 36.54 2.83
741 749 9.167311 AGGACATTCATCTAGTGATAAACAAAC 57.833 33.333 0.00 0.00 36.54 2.93
742 750 8.946085 GGACATTCATCTAGTGATAAACAAACA 58.054 33.333 0.00 0.00 36.54 2.83
769 777 9.449719 TTTCTCATATCTATATCTACTCGTGCA 57.550 33.333 0.00 0.00 0.00 4.57
770 778 9.620259 TTCTCATATCTATATCTACTCGTGCAT 57.380 33.333 0.00 0.00 0.00 3.96
934 945 3.489355 AGAACACACAAAGCATCCATCA 58.511 40.909 0.00 0.00 0.00 3.07
1077 1108 2.296792 TGCAATGCCAAGCGTATGTAT 58.703 42.857 1.53 0.00 0.00 2.29
1127 1162 7.866393 GCTTCATTCTTCCATTCTTTCATATGG 59.134 37.037 2.13 0.00 42.18 2.74
1248 1283 2.821969 GAGACAGGTGCATGATTTTGGT 59.178 45.455 0.00 0.00 0.00 3.67
1368 1418 1.299089 GCGCAAGTGCCGAAACTTT 60.299 52.632 0.30 0.00 38.34 2.66
1506 1563 5.430886 TGATGCTTGTCATGTGCTACTTAT 58.569 37.500 0.00 0.00 35.05 1.73
1540 1609 4.727475 TGTTTGTGTATGTGTGTGTGTTG 58.273 39.130 0.00 0.00 0.00 3.33
1543 1612 4.809815 TGTGTATGTGTGTGTGTTGATG 57.190 40.909 0.00 0.00 0.00 3.07
1580 5459 7.414222 AATAACCAAAGCAGTTCATCATGAT 57.586 32.000 1.18 1.18 0.00 2.45
1606 5486 4.412199 TCCGTGGAATAAGATGATTTCCCT 59.588 41.667 0.00 0.00 38.51 4.20
1680 5561 5.485209 AAAGTCCCCTAAACACTCTACAG 57.515 43.478 0.00 0.00 0.00 2.74
1681 5562 4.399483 AGTCCCCTAAACACTCTACAGA 57.601 45.455 0.00 0.00 0.00 3.41
1702 5583 5.241506 CAGAGTTCCTGGAAAGTTTTATGCA 59.758 40.000 11.40 0.00 39.23 3.96
1704 5585 5.140454 AGTTCCTGGAAAGTTTTATGCAGT 58.860 37.500 11.40 0.00 33.64 4.40
1707 5588 6.478512 TCCTGGAAAGTTTTATGCAGTTTT 57.521 33.333 0.00 0.00 33.64 2.43
1710 5591 7.504238 TCCTGGAAAGTTTTATGCAGTTTTCTA 59.496 33.333 0.00 0.00 33.64 2.10
1711 5592 8.141268 CCTGGAAAGTTTTATGCAGTTTTCTAA 58.859 33.333 0.00 0.00 33.64 2.10
1712 5593 9.528018 CTGGAAAGTTTTATGCAGTTTTCTAAA 57.472 29.630 0.00 0.00 31.20 1.85
1781 5880 8.776470 TCTTTGTTATTTAGGACAGTAAAACCG 58.224 33.333 0.00 0.00 0.00 4.44
1782 5881 8.674263 TTTGTTATTTAGGACAGTAAAACCGA 57.326 30.769 0.00 0.00 0.00 4.69
1783 5882 7.894376 TGTTATTTAGGACAGTAAAACCGAG 57.106 36.000 0.00 0.00 0.00 4.63
1784 5883 6.369615 TGTTATTTAGGACAGTAAAACCGAGC 59.630 38.462 0.00 0.00 0.00 5.03
1785 5884 3.323751 TTAGGACAGTAAAACCGAGCC 57.676 47.619 0.00 0.00 0.00 4.70
1786 5885 1.053424 AGGACAGTAAAACCGAGCCA 58.947 50.000 0.00 0.00 0.00 4.75
1787 5886 1.154197 GGACAGTAAAACCGAGCCAC 58.846 55.000 0.00 0.00 0.00 5.01
1788 5887 1.270678 GGACAGTAAAACCGAGCCACT 60.271 52.381 0.00 0.00 0.00 4.00
1789 5888 2.490991 GACAGTAAAACCGAGCCACTT 58.509 47.619 0.00 0.00 0.00 3.16
1790 5889 2.479275 GACAGTAAAACCGAGCCACTTC 59.521 50.000 0.00 0.00 0.00 3.01
1791 5890 1.804748 CAGTAAAACCGAGCCACTTCC 59.195 52.381 0.00 0.00 0.00 3.46
1792 5891 0.794473 GTAAAACCGAGCCACTTCCG 59.206 55.000 0.00 0.00 0.00 4.30
1793 5892 0.680618 TAAAACCGAGCCACTTCCGA 59.319 50.000 0.00 0.00 0.00 4.55
1795 5894 3.591254 AACCGAGCCACTTCCGAGC 62.591 63.158 0.00 0.00 0.00 5.03
1796 5895 4.821589 CCGAGCCACTTCCGAGCC 62.822 72.222 0.00 0.00 0.00 4.70
1797 5896 4.069232 CGAGCCACTTCCGAGCCA 62.069 66.667 0.00 0.00 0.00 4.75
1798 5897 2.586792 GAGCCACTTCCGAGCCAT 59.413 61.111 0.00 0.00 0.00 4.40
1799 5898 1.522580 GAGCCACTTCCGAGCCATC 60.523 63.158 0.00 0.00 0.00 3.51
1800 5899 1.965754 GAGCCACTTCCGAGCCATCT 61.966 60.000 0.00 0.00 0.00 2.90
1801 5900 1.522580 GCCACTTCCGAGCCATCTC 60.523 63.158 0.00 0.00 35.99 2.75
1802 5901 1.900351 CCACTTCCGAGCCATCTCA 59.100 57.895 0.00 0.00 39.30 3.27
1803 5902 0.460987 CCACTTCCGAGCCATCTCAC 60.461 60.000 0.00 0.00 39.30 3.51
1804 5903 0.803768 CACTTCCGAGCCATCTCACG 60.804 60.000 0.00 0.00 39.30 4.35
1805 5904 0.965866 ACTTCCGAGCCATCTCACGA 60.966 55.000 0.00 0.00 39.30 4.35
1806 5905 0.387202 CTTCCGAGCCATCTCACGAT 59.613 55.000 0.00 0.00 39.30 3.73
1807 5906 0.824109 TTCCGAGCCATCTCACGATT 59.176 50.000 0.00 0.00 39.30 3.34
1808 5907 0.824109 TCCGAGCCATCTCACGATTT 59.176 50.000 0.00 0.00 39.30 2.17
1809 5908 0.933097 CCGAGCCATCTCACGATTTG 59.067 55.000 0.00 0.00 39.30 2.32
1810 5909 0.933097 CGAGCCATCTCACGATTTGG 59.067 55.000 0.00 0.00 39.30 3.28
1811 5910 1.303309 GAGCCATCTCACGATTTGGG 58.697 55.000 0.00 0.00 39.16 4.12
1812 5911 0.620556 AGCCATCTCACGATTTGGGT 59.379 50.000 0.00 0.00 0.00 4.51
1813 5912 1.837439 AGCCATCTCACGATTTGGGTA 59.163 47.619 0.00 0.00 0.00 3.69
1814 5913 2.238646 AGCCATCTCACGATTTGGGTAA 59.761 45.455 0.00 0.00 0.00 2.85
1815 5914 3.117888 AGCCATCTCACGATTTGGGTAAT 60.118 43.478 0.00 0.00 0.00 1.89
1816 5915 3.632145 GCCATCTCACGATTTGGGTAATT 59.368 43.478 0.00 0.00 0.00 1.40
1817 5916 4.097892 GCCATCTCACGATTTGGGTAATTT 59.902 41.667 0.00 0.00 0.00 1.82
1818 5917 5.394115 GCCATCTCACGATTTGGGTAATTTT 60.394 40.000 0.00 0.00 0.00 1.82
1819 5918 6.035843 CCATCTCACGATTTGGGTAATTTTG 58.964 40.000 0.00 0.00 0.00 2.44
1820 5919 5.637006 TCTCACGATTTGGGTAATTTTGG 57.363 39.130 0.00 0.00 0.00 3.28
1821 5920 4.082463 TCTCACGATTTGGGTAATTTTGGC 60.082 41.667 0.00 0.00 0.00 4.52
1822 5921 2.920490 CACGATTTGGGTAATTTTGGCG 59.080 45.455 0.00 0.00 0.00 5.69
1823 5922 2.094442 ACGATTTGGGTAATTTTGGCGG 60.094 45.455 0.00 0.00 0.00 6.13
1824 5923 2.094442 CGATTTGGGTAATTTTGGCGGT 60.094 45.455 0.00 0.00 0.00 5.68
1825 5924 3.517602 GATTTGGGTAATTTTGGCGGTC 58.482 45.455 0.00 0.00 0.00 4.79
1826 5925 1.996798 TTGGGTAATTTTGGCGGTCA 58.003 45.000 0.00 0.00 0.00 4.02
1827 5926 1.540267 TGGGTAATTTTGGCGGTCAG 58.460 50.000 0.00 0.00 0.00 3.51
1828 5927 1.074084 TGGGTAATTTTGGCGGTCAGA 59.926 47.619 0.00 0.00 0.00 3.27
1829 5928 2.291282 TGGGTAATTTTGGCGGTCAGAT 60.291 45.455 0.00 0.00 0.00 2.90
1830 5929 2.357952 GGGTAATTTTGGCGGTCAGATC 59.642 50.000 0.00 0.00 0.00 2.75
1831 5930 3.013921 GGTAATTTTGGCGGTCAGATCA 58.986 45.455 0.00 0.00 0.00 2.92
1832 5931 3.181500 GGTAATTTTGGCGGTCAGATCAC 60.181 47.826 0.00 0.00 0.00 3.06
1833 5932 2.198827 ATTTTGGCGGTCAGATCACA 57.801 45.000 0.00 0.00 0.00 3.58
1834 5933 1.522668 TTTTGGCGGTCAGATCACAG 58.477 50.000 0.00 0.00 0.00 3.66
1835 5934 0.321564 TTTGGCGGTCAGATCACAGG 60.322 55.000 0.00 0.00 0.00 4.00
1836 5935 1.480212 TTGGCGGTCAGATCACAGGT 61.480 55.000 0.00 0.00 0.00 4.00
1837 5936 1.296715 GGCGGTCAGATCACAGGTT 59.703 57.895 0.00 0.00 0.00 3.50
1838 5937 0.321653 GGCGGTCAGATCACAGGTTT 60.322 55.000 0.00 0.00 0.00 3.27
1839 5938 0.798776 GCGGTCAGATCACAGGTTTG 59.201 55.000 0.00 0.00 0.00 2.93
1840 5939 1.608025 GCGGTCAGATCACAGGTTTGA 60.608 52.381 0.00 0.00 0.00 2.69
1841 5940 2.341257 CGGTCAGATCACAGGTTTGAG 58.659 52.381 0.00 0.00 0.00 3.02
1842 5941 2.079925 GGTCAGATCACAGGTTTGAGC 58.920 52.381 0.00 0.00 31.76 4.26
1843 5942 2.550855 GGTCAGATCACAGGTTTGAGCA 60.551 50.000 0.00 0.00 34.19 4.26
1844 5943 3.341823 GTCAGATCACAGGTTTGAGCAT 58.658 45.455 0.00 0.00 34.19 3.79
1845 5944 3.373439 GTCAGATCACAGGTTTGAGCATC 59.627 47.826 0.00 0.00 34.19 3.91
1846 5945 2.681848 CAGATCACAGGTTTGAGCATCC 59.318 50.000 0.00 0.00 34.19 3.51
1847 5946 2.575279 AGATCACAGGTTTGAGCATCCT 59.425 45.455 0.00 0.00 34.19 3.24
1848 5947 2.479566 TCACAGGTTTGAGCATCCTC 57.520 50.000 0.00 0.00 38.62 3.71
1849 5948 1.081892 CACAGGTTTGAGCATCCTCG 58.918 55.000 0.00 0.00 41.13 4.63
1850 5949 0.036010 ACAGGTTTGAGCATCCTCGG 60.036 55.000 0.00 0.00 41.13 4.63
1851 5950 1.078143 AGGTTTGAGCATCCTCGGC 60.078 57.895 0.00 0.00 41.13 5.54
1852 5951 2.464459 GGTTTGAGCATCCTCGGCG 61.464 63.158 0.00 0.00 41.13 6.46
1853 5952 2.125147 TTTGAGCATCCTCGGCGG 60.125 61.111 7.21 0.00 41.13 6.13
1854 5953 2.954684 TTTGAGCATCCTCGGCGGT 61.955 57.895 7.21 0.00 41.13 5.68
1855 5954 2.852495 TTTGAGCATCCTCGGCGGTC 62.852 60.000 7.21 0.00 41.13 4.79
1856 5955 3.532155 GAGCATCCTCGGCGGTCT 61.532 66.667 7.21 0.00 36.08 3.85
1857 5956 3.781770 GAGCATCCTCGGCGGTCTG 62.782 68.421 7.21 0.99 36.08 3.51
1858 5957 3.838271 GCATCCTCGGCGGTCTGA 61.838 66.667 7.21 0.00 0.00 3.27
1859 5958 3.133014 CATCCTCGGCGGTCTGAT 58.867 61.111 7.21 1.16 0.00 2.90
1860 5959 1.006805 CATCCTCGGCGGTCTGATC 60.007 63.158 7.21 0.00 0.00 2.92
1861 5960 2.203771 ATCCTCGGCGGTCTGATCC 61.204 63.158 7.21 0.00 0.00 3.36
1862 5961 2.928988 ATCCTCGGCGGTCTGATCCA 62.929 60.000 7.21 0.00 0.00 3.41
1863 5962 2.502492 CCTCGGCGGTCTGATCCAT 61.502 63.158 7.21 0.00 0.00 3.41
1864 5963 1.006805 CTCGGCGGTCTGATCCATC 60.007 63.158 7.21 0.00 0.00 3.51
1865 5964 1.455773 TCGGCGGTCTGATCCATCT 60.456 57.895 7.21 0.00 0.00 2.90
1866 5965 1.043116 TCGGCGGTCTGATCCATCTT 61.043 55.000 7.21 0.00 0.00 2.40
1867 5966 0.598680 CGGCGGTCTGATCCATCTTC 60.599 60.000 0.00 0.00 0.00 2.87
1868 5967 0.465705 GGCGGTCTGATCCATCTTCA 59.534 55.000 0.00 0.00 0.00 3.02
1869 5968 1.134401 GGCGGTCTGATCCATCTTCAA 60.134 52.381 0.00 0.00 0.00 2.69
1870 5969 2.486191 GGCGGTCTGATCCATCTTCAAT 60.486 50.000 0.00 0.00 0.00 2.57
1871 5970 3.209410 GCGGTCTGATCCATCTTCAATT 58.791 45.455 0.00 0.00 0.00 2.32
1872 5971 3.629398 GCGGTCTGATCCATCTTCAATTT 59.371 43.478 0.00 0.00 0.00 1.82
1873 5972 4.497006 GCGGTCTGATCCATCTTCAATTTG 60.497 45.833 0.00 0.00 0.00 2.32
1874 5973 4.497006 CGGTCTGATCCATCTTCAATTTGC 60.497 45.833 0.00 0.00 0.00 3.68
1875 5974 4.497006 GGTCTGATCCATCTTCAATTTGCG 60.497 45.833 0.00 0.00 0.00 4.85
1876 5975 4.333649 GTCTGATCCATCTTCAATTTGCGA 59.666 41.667 0.00 0.00 0.00 5.10
1877 5976 4.943093 TCTGATCCATCTTCAATTTGCGAA 59.057 37.500 0.00 0.00 0.00 4.70
1878 5977 4.985413 TGATCCATCTTCAATTTGCGAAC 58.015 39.130 0.00 0.00 0.00 3.95
1879 5978 4.701651 TGATCCATCTTCAATTTGCGAACT 59.298 37.500 0.00 0.00 0.00 3.01
1880 5979 5.879777 TGATCCATCTTCAATTTGCGAACTA 59.120 36.000 0.00 0.00 0.00 2.24
1881 5980 5.801350 TCCATCTTCAATTTGCGAACTAG 57.199 39.130 0.00 0.00 0.00 2.57
1882 5981 4.635765 TCCATCTTCAATTTGCGAACTAGG 59.364 41.667 0.00 0.00 0.00 3.02
1883 5982 4.346129 CATCTTCAATTTGCGAACTAGGC 58.654 43.478 0.00 0.00 0.00 3.93
1884 5983 2.747446 TCTTCAATTTGCGAACTAGGCC 59.253 45.455 0.00 0.00 0.00 5.19
1885 5984 2.489938 TCAATTTGCGAACTAGGCCT 57.510 45.000 11.78 11.78 0.00 5.19
1886 5985 2.083774 TCAATTTGCGAACTAGGCCTG 58.916 47.619 17.99 8.18 0.00 4.85
1887 5986 1.812571 CAATTTGCGAACTAGGCCTGT 59.187 47.619 17.99 8.92 0.00 4.00
1888 5987 3.006940 CAATTTGCGAACTAGGCCTGTA 58.993 45.455 17.99 0.00 0.00 2.74
1889 5988 3.560636 ATTTGCGAACTAGGCCTGTAT 57.439 42.857 17.99 0.00 0.00 2.29
1890 5989 2.309528 TTGCGAACTAGGCCTGTATG 57.690 50.000 17.99 8.66 0.00 2.39
1891 5990 1.191535 TGCGAACTAGGCCTGTATGT 58.808 50.000 17.99 6.10 0.00 2.29
1921 6020 1.080434 GTTGACGAGCGCTCCTTCT 60.080 57.895 30.66 11.36 0.00 2.85
1940 6039 3.031013 TCTGGAGCCTCATAACGATCAA 58.969 45.455 0.00 0.00 0.00 2.57
2093 6254 1.897802 TCTTCCACCGGTCTTCCTTAC 59.102 52.381 2.59 0.00 0.00 2.34
2095 6256 0.906282 TCCACCGGTCTTCCTTACCC 60.906 60.000 2.59 0.00 33.10 3.69
2099 6260 1.350019 ACCGGTCTTCCTTACCCTTTG 59.650 52.381 0.00 0.00 33.10 2.77
2179 6603 0.387622 CCGCGAGAGTCACGGTTTTA 60.388 55.000 8.23 0.00 42.01 1.52
2181 6605 1.665161 CGCGAGAGTCACGGTTTTACT 60.665 52.381 11.95 0.00 0.00 2.24
2206 6717 2.030805 GTCAGAGGCACGATTTTGCTTT 60.031 45.455 0.00 0.00 42.56 3.51
2208 6719 1.541588 AGAGGCACGATTTTGCTTTCC 59.458 47.619 0.00 0.00 42.56 3.13
2218 6729 2.859165 TTTGCTTTCCCGAGAGTCAT 57.141 45.000 0.00 0.00 0.00 3.06
2220 6731 1.266178 TGCTTTCCCGAGAGTCATGA 58.734 50.000 0.00 0.00 0.00 3.07
2226 6737 1.313091 CCCGAGAGTCATGACCGTGA 61.313 60.000 22.21 0.00 0.00 4.35
2285 10909 2.765250 TTCTTCCGCGAGAGGCACAC 62.765 60.000 8.23 0.00 43.84 3.82
2399 11142 0.179067 TTTCACGAGAGGCACGGTTT 60.179 50.000 0.00 0.00 34.93 3.27
2437 11181 1.301716 GCTGTGCCTCTCGGAAACA 60.302 57.895 0.00 0.00 0.00 2.83
2438 11182 0.884704 GCTGTGCCTCTCGGAAACAA 60.885 55.000 0.00 0.00 30.80 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 3.924013 ATGTCCCCTCCGCACCTCA 62.924 63.158 0.00 0.00 0.00 3.86
326 331 2.363147 GTCGCTCCCTCTCCCAGT 60.363 66.667 0.00 0.00 0.00 4.00
439 445 1.203174 TCTCGATCCCCTGATGCCATA 60.203 52.381 0.00 0.00 0.00 2.74
442 448 1.670590 CTCTCGATCCCCTGATGCC 59.329 63.158 0.00 0.00 0.00 4.40
471 478 1.893786 AAAAAGCCACCACGCACAA 59.106 47.368 0.00 0.00 0.00 3.33
472 479 3.609703 AAAAAGCCACCACGCACA 58.390 50.000 0.00 0.00 0.00 4.57
508 515 4.649705 TCCCCTTCTCGCACCCCA 62.650 66.667 0.00 0.00 0.00 4.96
509 516 4.097361 GTCCCCTTCTCGCACCCC 62.097 72.222 0.00 0.00 0.00 4.95
510 517 4.452733 CGTCCCCTTCTCGCACCC 62.453 72.222 0.00 0.00 0.00 4.61
511 518 4.452733 CCGTCCCCTTCTCGCACC 62.453 72.222 0.00 0.00 0.00 5.01
512 519 2.444700 TTTCCGTCCCCTTCTCGCAC 62.445 60.000 0.00 0.00 0.00 5.34
513 520 1.760479 TTTTCCGTCCCCTTCTCGCA 61.760 55.000 0.00 0.00 0.00 5.10
514 521 0.604511 TTTTTCCGTCCCCTTCTCGC 60.605 55.000 0.00 0.00 0.00 5.03
515 522 3.618171 TTTTTCCGTCCCCTTCTCG 57.382 52.632 0.00 0.00 0.00 4.04
559 566 1.018910 CCACCACTTTCGTCCGTTTT 58.981 50.000 0.00 0.00 0.00 2.43
561 568 1.227734 CCCACCACTTTCGTCCGTT 60.228 57.895 0.00 0.00 0.00 4.44
562 569 2.135581 TCCCACCACTTTCGTCCGT 61.136 57.895 0.00 0.00 0.00 4.69
563 570 1.666872 GTCCCACCACTTTCGTCCG 60.667 63.158 0.00 0.00 0.00 4.79
572 579 2.229543 GGGTTTATTTTCGTCCCACCAC 59.770 50.000 0.00 0.00 38.15 4.16
594 601 1.891150 TCAGTTGGTAGTCTCCGTTCC 59.109 52.381 0.00 0.00 0.00 3.62
596 603 2.557490 GTCTCAGTTGGTAGTCTCCGTT 59.443 50.000 0.00 0.00 0.00 4.44
598 605 2.160205 TGTCTCAGTTGGTAGTCTCCG 58.840 52.381 0.00 0.00 0.00 4.63
599 606 4.810191 AATGTCTCAGTTGGTAGTCTCC 57.190 45.455 0.00 0.00 0.00 3.71
601 608 5.580998 TCCTAATGTCTCAGTTGGTAGTCT 58.419 41.667 0.00 0.00 0.00 3.24
680 688 9.755064 CGTCGAAAAACAAAGATATAGATGTTT 57.245 29.630 6.46 6.46 45.17 2.83
681 689 8.388103 CCGTCGAAAAACAAAGATATAGATGTT 58.612 33.333 0.00 0.00 37.59 2.71
682 690 7.465513 GCCGTCGAAAAACAAAGATATAGATGT 60.466 37.037 0.00 0.00 0.00 3.06
683 691 6.846283 GCCGTCGAAAAACAAAGATATAGATG 59.154 38.462 0.00 0.00 0.00 2.90
684 692 6.537301 TGCCGTCGAAAAACAAAGATATAGAT 59.463 34.615 0.00 0.00 0.00 1.98
685 693 5.870433 TGCCGTCGAAAAACAAAGATATAGA 59.130 36.000 0.00 0.00 0.00 1.98
686 694 6.102006 TGCCGTCGAAAAACAAAGATATAG 57.898 37.500 0.00 0.00 0.00 1.31
687 695 6.073167 TGTTGCCGTCGAAAAACAAAGATATA 60.073 34.615 0.00 0.00 29.96 0.86
688 696 5.151389 GTTGCCGTCGAAAAACAAAGATAT 58.849 37.500 0.00 0.00 0.00 1.63
689 697 4.035324 TGTTGCCGTCGAAAAACAAAGATA 59.965 37.500 0.00 0.00 29.96 1.98
690 698 3.181495 TGTTGCCGTCGAAAAACAAAGAT 60.181 39.130 0.00 0.00 29.96 2.40
691 699 2.161808 TGTTGCCGTCGAAAAACAAAGA 59.838 40.909 0.00 0.00 29.96 2.52
692 700 2.277834 GTGTTGCCGTCGAAAAACAAAG 59.722 45.455 8.33 0.00 34.54 2.77
693 701 2.251893 GTGTTGCCGTCGAAAAACAAA 58.748 42.857 8.33 0.00 34.54 2.83
694 702 1.199327 TGTGTTGCCGTCGAAAAACAA 59.801 42.857 8.33 0.00 34.54 2.83
695 703 0.803117 TGTGTTGCCGTCGAAAAACA 59.197 45.000 0.00 0.00 0.00 2.83
696 704 1.843753 CTTGTGTTGCCGTCGAAAAAC 59.156 47.619 0.00 0.00 0.00 2.43
697 705 1.202200 CCTTGTGTTGCCGTCGAAAAA 60.202 47.619 0.00 0.00 0.00 1.94
698 706 0.378962 CCTTGTGTTGCCGTCGAAAA 59.621 50.000 0.00 0.00 0.00 2.29
699 707 0.462225 TCCTTGTGTTGCCGTCGAAA 60.462 50.000 0.00 0.00 0.00 3.46
700 708 1.144276 TCCTTGTGTTGCCGTCGAA 59.856 52.632 0.00 0.00 0.00 3.71
701 709 1.593209 GTCCTTGTGTTGCCGTCGA 60.593 57.895 0.00 0.00 0.00 4.20
702 710 1.227999 ATGTCCTTGTGTTGCCGTCG 61.228 55.000 0.00 0.00 0.00 5.12
703 711 0.951558 AATGTCCTTGTGTTGCCGTC 59.048 50.000 0.00 0.00 0.00 4.79
704 712 0.951558 GAATGTCCTTGTGTTGCCGT 59.048 50.000 0.00 0.00 0.00 5.68
705 713 0.950836 TGAATGTCCTTGTGTTGCCG 59.049 50.000 0.00 0.00 0.00 5.69
706 714 2.821969 AGATGAATGTCCTTGTGTTGCC 59.178 45.455 0.00 0.00 0.00 4.52
707 715 4.697352 ACTAGATGAATGTCCTTGTGTTGC 59.303 41.667 0.00 0.00 0.00 4.17
708 716 5.934043 TCACTAGATGAATGTCCTTGTGTTG 59.066 40.000 0.00 0.00 35.93 3.33
709 717 6.114187 TCACTAGATGAATGTCCTTGTGTT 57.886 37.500 0.00 0.00 35.93 3.32
710 718 5.745312 TCACTAGATGAATGTCCTTGTGT 57.255 39.130 0.00 0.00 35.93 3.72
711 719 8.607459 GTTTATCACTAGATGAATGTCCTTGTG 58.393 37.037 0.00 0.00 41.93 3.33
712 720 8.321353 TGTTTATCACTAGATGAATGTCCTTGT 58.679 33.333 0.00 0.00 41.93 3.16
713 721 8.722480 TGTTTATCACTAGATGAATGTCCTTG 57.278 34.615 0.00 0.00 41.93 3.61
714 722 9.739276 TTTGTTTATCACTAGATGAATGTCCTT 57.261 29.630 0.00 0.00 41.93 3.36
715 723 9.167311 GTTTGTTTATCACTAGATGAATGTCCT 57.833 33.333 0.00 0.00 41.93 3.85
716 724 8.946085 TGTTTGTTTATCACTAGATGAATGTCC 58.054 33.333 0.00 0.00 41.93 4.02
743 751 9.449719 TGCACGAGTAGATATAGATATGAGAAA 57.550 33.333 0.00 0.00 0.00 2.52
744 752 9.620259 ATGCACGAGTAGATATAGATATGAGAA 57.380 33.333 0.00 0.00 0.00 2.87
785 793 9.518906 CACGAGTAGATATAGATATCACTACGT 57.481 37.037 5.32 15.74 41.21 3.57
786 794 8.481641 GCACGAGTAGATATAGATATCACTACG 58.518 40.741 5.32 15.34 41.21 3.51
895 905 6.151480 TGTGTTCTATGATGGTGTTCGTAGTA 59.849 38.462 0.00 0.00 36.82 1.82
934 945 3.086282 AGACGGTGTTGTCTTTTTGGTT 58.914 40.909 0.00 0.00 46.85 3.67
1127 1162 6.884187 ACGAACAATTAGTATGTGTGTGTTC 58.116 36.000 0.00 0.00 39.81 3.18
1137 1172 9.498176 ACAAAAGGAACTACGAACAATTAGTAT 57.502 29.630 0.00 0.00 38.49 2.12
1506 1563 9.496873 ACACATACACAAACAACTATAGCTTTA 57.503 29.630 0.00 0.00 0.00 1.85
1540 1609 7.581213 TTGGTTATTACAATGGGATGACATC 57.419 36.000 6.91 6.91 0.00 3.06
1543 1612 6.127479 TGCTTTGGTTATTACAATGGGATGAC 60.127 38.462 0.00 0.00 0.00 3.06
1580 5459 5.588648 GGAAATCATCTTATTCCACGGACAA 59.411 40.000 0.00 0.00 41.80 3.18
1656 5537 6.100714 TCTGTAGAGTGTTTAGGGGACTTTTT 59.899 38.462 0.00 0.00 43.67 1.94
1657 5538 5.605488 TCTGTAGAGTGTTTAGGGGACTTTT 59.395 40.000 0.00 0.00 43.67 2.27
1658 5539 5.152934 TCTGTAGAGTGTTTAGGGGACTTT 58.847 41.667 0.00 0.00 43.67 2.66
1660 5541 4.345854 CTCTGTAGAGTGTTTAGGGGACT 58.654 47.826 0.68 0.00 39.93 3.85
1661 5542 4.722361 CTCTGTAGAGTGTTTAGGGGAC 57.278 50.000 0.68 0.00 37.40 4.46
1674 5555 5.888982 AAACTTTCCAGGAACTCTGTAGA 57.111 39.130 0.00 0.00 41.83 2.59
1675 5556 7.361286 GCATAAAACTTTCCAGGAACTCTGTAG 60.361 40.741 0.00 0.00 41.83 2.74
1676 5557 6.430000 GCATAAAACTTTCCAGGAACTCTGTA 59.570 38.462 0.00 0.00 41.83 2.74
1678 5559 5.241506 TGCATAAAACTTTCCAGGAACTCTG 59.758 40.000 0.00 0.00 43.00 3.35
1680 5561 5.241728 ACTGCATAAAACTTTCCAGGAACTC 59.758 40.000 0.00 0.00 34.60 3.01
1681 5562 5.140454 ACTGCATAAAACTTTCCAGGAACT 58.860 37.500 0.00 0.00 43.88 3.01
1682 5563 5.453567 ACTGCATAAAACTTTCCAGGAAC 57.546 39.130 0.00 0.00 0.00 3.62
1683 5564 6.478512 AAACTGCATAAAACTTTCCAGGAA 57.521 33.333 0.00 0.00 0.00 3.36
1684 5565 6.323739 AGAAAACTGCATAAAACTTTCCAGGA 59.676 34.615 0.00 0.00 0.00 3.86
1685 5566 6.515832 AGAAAACTGCATAAAACTTTCCAGG 58.484 36.000 0.00 0.00 0.00 4.45
1756 5855 8.776470 TCGGTTTTACTGTCCTAAATAACAAAG 58.224 33.333 0.00 0.00 0.00 2.77
1760 5859 6.183360 GGCTCGGTTTTACTGTCCTAAATAAC 60.183 42.308 0.00 0.00 0.00 1.89
1763 5862 4.259356 GGCTCGGTTTTACTGTCCTAAAT 58.741 43.478 0.00 0.00 0.00 1.40
1765 5864 2.633967 TGGCTCGGTTTTACTGTCCTAA 59.366 45.455 0.00 0.00 0.00 2.69
1768 5867 1.154197 GTGGCTCGGTTTTACTGTCC 58.846 55.000 0.00 0.00 0.00 4.02
1769 5868 2.165319 AGTGGCTCGGTTTTACTGTC 57.835 50.000 0.00 0.00 0.00 3.51
1771 5870 1.804748 GGAAGTGGCTCGGTTTTACTG 59.195 52.381 0.00 0.00 0.00 2.74
1773 5872 0.794473 CGGAAGTGGCTCGGTTTTAC 59.206 55.000 0.00 0.00 0.00 2.01
1774 5873 0.680618 TCGGAAGTGGCTCGGTTTTA 59.319 50.000 0.00 0.00 0.00 1.52
1779 5878 4.821589 GGCTCGGAAGTGGCTCGG 62.822 72.222 0.00 0.00 45.32 4.63
1784 5883 0.460987 GTGAGATGGCTCGGAAGTGG 60.461 60.000 0.00 0.00 44.33 4.00
1785 5884 0.803768 CGTGAGATGGCTCGGAAGTG 60.804 60.000 0.00 0.00 44.33 3.16
1786 5885 0.965866 TCGTGAGATGGCTCGGAAGT 60.966 55.000 0.00 0.00 44.33 3.01
1787 5886 1.809869 TCGTGAGATGGCTCGGAAG 59.190 57.895 0.00 0.00 44.33 3.46
1788 5887 4.012138 TCGTGAGATGGCTCGGAA 57.988 55.556 0.00 0.00 44.33 4.30
1799 5898 4.173256 GCCAAAATTACCCAAATCGTGAG 58.827 43.478 0.00 0.00 0.00 3.51
1800 5899 3.366476 CGCCAAAATTACCCAAATCGTGA 60.366 43.478 0.00 0.00 0.00 4.35
1801 5900 2.920490 CGCCAAAATTACCCAAATCGTG 59.080 45.455 0.00 0.00 0.00 4.35
1802 5901 2.094442 CCGCCAAAATTACCCAAATCGT 60.094 45.455 0.00 0.00 0.00 3.73
1803 5902 2.094442 ACCGCCAAAATTACCCAAATCG 60.094 45.455 0.00 0.00 0.00 3.34
1804 5903 3.056465 TGACCGCCAAAATTACCCAAATC 60.056 43.478 0.00 0.00 0.00 2.17
1805 5904 2.900546 TGACCGCCAAAATTACCCAAAT 59.099 40.909 0.00 0.00 0.00 2.32
1806 5905 2.297597 CTGACCGCCAAAATTACCCAAA 59.702 45.455 0.00 0.00 0.00 3.28
1807 5906 1.889829 CTGACCGCCAAAATTACCCAA 59.110 47.619 0.00 0.00 0.00 4.12
1808 5907 1.074084 TCTGACCGCCAAAATTACCCA 59.926 47.619 0.00 0.00 0.00 4.51
1809 5908 1.828979 TCTGACCGCCAAAATTACCC 58.171 50.000 0.00 0.00 0.00 3.69
1810 5909 3.013921 TGATCTGACCGCCAAAATTACC 58.986 45.455 0.00 0.00 0.00 2.85
1811 5910 3.438781 TGTGATCTGACCGCCAAAATTAC 59.561 43.478 0.00 0.00 0.00 1.89
1812 5911 3.680490 TGTGATCTGACCGCCAAAATTA 58.320 40.909 0.00 0.00 0.00 1.40
1813 5912 2.489329 CTGTGATCTGACCGCCAAAATT 59.511 45.455 0.00 0.00 0.00 1.82
1814 5913 2.086869 CTGTGATCTGACCGCCAAAAT 58.913 47.619 0.00 0.00 0.00 1.82
1815 5914 1.522668 CTGTGATCTGACCGCCAAAA 58.477 50.000 0.00 0.00 0.00 2.44
1816 5915 0.321564 CCTGTGATCTGACCGCCAAA 60.322 55.000 0.00 0.00 0.00 3.28
1817 5916 1.296392 CCTGTGATCTGACCGCCAA 59.704 57.895 0.00 0.00 0.00 4.52
1818 5917 1.480212 AACCTGTGATCTGACCGCCA 61.480 55.000 0.00 0.00 0.00 5.69
1819 5918 0.321653 AAACCTGTGATCTGACCGCC 60.322 55.000 0.00 0.00 0.00 6.13
1820 5919 0.798776 CAAACCTGTGATCTGACCGC 59.201 55.000 0.00 0.00 0.00 5.68
1821 5920 2.341257 CTCAAACCTGTGATCTGACCG 58.659 52.381 0.00 0.00 0.00 4.79
1822 5921 2.079925 GCTCAAACCTGTGATCTGACC 58.920 52.381 0.00 0.00 0.00 4.02
1823 5922 2.771089 TGCTCAAACCTGTGATCTGAC 58.229 47.619 0.00 0.00 0.00 3.51
1824 5923 3.603532 GATGCTCAAACCTGTGATCTGA 58.396 45.455 0.00 0.00 0.00 3.27
1825 5924 2.681848 GGATGCTCAAACCTGTGATCTG 59.318 50.000 0.00 0.00 0.00 2.90
1826 5925 2.575279 AGGATGCTCAAACCTGTGATCT 59.425 45.455 0.00 0.00 32.39 2.75
1827 5926 2.941720 GAGGATGCTCAAACCTGTGATC 59.058 50.000 9.69 0.00 33.89 2.92
1828 5927 2.679059 CGAGGATGCTCAAACCTGTGAT 60.679 50.000 15.10 0.00 33.89 3.06
1829 5928 1.338105 CGAGGATGCTCAAACCTGTGA 60.338 52.381 15.10 0.00 33.89 3.58
1830 5929 1.081892 CGAGGATGCTCAAACCTGTG 58.918 55.000 15.10 0.00 33.89 3.66
1831 5930 0.036010 CCGAGGATGCTCAAACCTGT 60.036 55.000 15.10 0.00 33.89 4.00
1832 5931 1.372087 GCCGAGGATGCTCAAACCTG 61.372 60.000 15.10 0.00 33.89 4.00
1833 5932 1.078143 GCCGAGGATGCTCAAACCT 60.078 57.895 15.10 0.00 36.68 3.50
1834 5933 2.464459 CGCCGAGGATGCTCAAACC 61.464 63.158 15.10 0.00 0.00 3.27
1835 5934 2.464459 CCGCCGAGGATGCTCAAAC 61.464 63.158 15.10 1.75 45.00 2.93
1836 5935 2.125147 CCGCCGAGGATGCTCAAA 60.125 61.111 15.10 0.00 45.00 2.69
1837 5936 3.371097 GACCGCCGAGGATGCTCAA 62.371 63.158 15.10 0.00 45.00 3.02
1838 5937 3.838271 GACCGCCGAGGATGCTCA 61.838 66.667 15.10 0.00 45.00 4.26
1839 5938 3.532155 AGACCGCCGAGGATGCTC 61.532 66.667 3.74 3.74 45.00 4.26
1840 5939 3.842923 CAGACCGCCGAGGATGCT 61.843 66.667 3.89 0.00 45.00 3.79
1841 5940 3.157217 ATCAGACCGCCGAGGATGC 62.157 63.158 3.89 0.00 45.00 3.91
1842 5941 1.006805 GATCAGACCGCCGAGGATG 60.007 63.158 3.89 3.02 45.00 3.51
1843 5942 2.203771 GGATCAGACCGCCGAGGAT 61.204 63.158 3.89 0.00 45.00 3.24
1844 5943 2.833582 GGATCAGACCGCCGAGGA 60.834 66.667 3.89 0.00 45.00 3.71
1846 5945 1.006805 GATGGATCAGACCGCCGAG 60.007 63.158 0.00 0.00 0.00 4.63
1847 5946 1.043116 AAGATGGATCAGACCGCCGA 61.043 55.000 0.00 0.00 0.00 5.54
1848 5947 0.598680 GAAGATGGATCAGACCGCCG 60.599 60.000 0.00 0.00 0.00 6.46
1849 5948 0.465705 TGAAGATGGATCAGACCGCC 59.534 55.000 0.00 0.00 0.00 6.13
1850 5949 2.315925 TTGAAGATGGATCAGACCGC 57.684 50.000 0.00 0.00 0.00 5.68
1851 5950 4.497006 GCAAATTGAAGATGGATCAGACCG 60.497 45.833 0.00 0.00 0.00 4.79
1852 5951 4.497006 CGCAAATTGAAGATGGATCAGACC 60.497 45.833 0.00 0.00 0.00 3.85
1853 5952 4.333649 TCGCAAATTGAAGATGGATCAGAC 59.666 41.667 0.00 0.00 0.00 3.51
1854 5953 4.516323 TCGCAAATTGAAGATGGATCAGA 58.484 39.130 0.00 0.00 0.00 3.27
1855 5954 4.888038 TCGCAAATTGAAGATGGATCAG 57.112 40.909 0.00 0.00 0.00 2.90
1856 5955 4.701651 AGTTCGCAAATTGAAGATGGATCA 59.298 37.500 0.00 0.00 0.00 2.92
1857 5956 5.240713 AGTTCGCAAATTGAAGATGGATC 57.759 39.130 0.00 0.00 0.00 3.36
1858 5957 5.297776 CCTAGTTCGCAAATTGAAGATGGAT 59.702 40.000 0.00 0.00 0.00 3.41
1859 5958 4.635765 CCTAGTTCGCAAATTGAAGATGGA 59.364 41.667 0.00 0.00 0.00 3.41
1860 5959 4.731773 GCCTAGTTCGCAAATTGAAGATGG 60.732 45.833 0.00 0.00 0.00 3.51
1861 5960 4.346129 GCCTAGTTCGCAAATTGAAGATG 58.654 43.478 0.00 0.00 0.00 2.90
1862 5961 3.378427 GGCCTAGTTCGCAAATTGAAGAT 59.622 43.478 0.00 0.00 0.00 2.40
1863 5962 2.747446 GGCCTAGTTCGCAAATTGAAGA 59.253 45.455 0.00 0.00 0.00 2.87
1864 5963 2.749621 AGGCCTAGTTCGCAAATTGAAG 59.250 45.455 1.29 0.00 0.00 3.02
1865 5964 2.487762 CAGGCCTAGTTCGCAAATTGAA 59.512 45.455 3.98 0.00 0.00 2.69
1866 5965 2.083774 CAGGCCTAGTTCGCAAATTGA 58.916 47.619 3.98 0.00 0.00 2.57
1867 5966 1.812571 ACAGGCCTAGTTCGCAAATTG 59.187 47.619 3.98 0.00 0.00 2.32
1868 5967 2.200373 ACAGGCCTAGTTCGCAAATT 57.800 45.000 3.98 0.00 0.00 1.82
1869 5968 3.206150 CATACAGGCCTAGTTCGCAAAT 58.794 45.455 3.98 0.00 0.00 2.32
1870 5969 2.027561 ACATACAGGCCTAGTTCGCAAA 60.028 45.455 3.98 0.00 0.00 3.68
1871 5970 1.553248 ACATACAGGCCTAGTTCGCAA 59.447 47.619 3.98 0.00 0.00 4.85
1872 5971 1.134818 CACATACAGGCCTAGTTCGCA 60.135 52.381 3.98 0.00 0.00 5.10
1873 5972 1.571919 CACATACAGGCCTAGTTCGC 58.428 55.000 3.98 0.00 0.00 4.70
1874 5973 1.202533 CCCACATACAGGCCTAGTTCG 60.203 57.143 3.98 0.00 0.00 3.95
1875 5974 2.103263 CTCCCACATACAGGCCTAGTTC 59.897 54.545 3.98 0.00 0.00 3.01
1876 5975 2.119495 CTCCCACATACAGGCCTAGTT 58.881 52.381 3.98 0.00 0.00 2.24
1877 5976 1.794714 CTCCCACATACAGGCCTAGT 58.205 55.000 3.98 9.15 0.00 2.57
1878 5977 0.394565 GCTCCCACATACAGGCCTAG 59.605 60.000 3.98 2.19 0.00 3.02
1879 5978 0.326143 TGCTCCCACATACAGGCCTA 60.326 55.000 3.98 0.00 0.00 3.93
1880 5979 1.207488 TTGCTCCCACATACAGGCCT 61.207 55.000 0.00 0.00 0.00 5.19
1881 5980 1.032114 GTTGCTCCCACATACAGGCC 61.032 60.000 0.00 0.00 0.00 5.19
1882 5981 0.035056 AGTTGCTCCCACATACAGGC 60.035 55.000 0.00 0.00 0.00 4.85
1883 5982 2.501723 ACTAGTTGCTCCCACATACAGG 59.498 50.000 0.00 0.00 0.00 4.00
1884 5983 3.895232 ACTAGTTGCTCCCACATACAG 57.105 47.619 0.00 0.00 0.00 2.74
1885 5984 3.580895 TCAACTAGTTGCTCCCACATACA 59.419 43.478 27.49 5.99 40.24 2.29
1886 5985 3.933332 GTCAACTAGTTGCTCCCACATAC 59.067 47.826 27.49 14.79 40.24 2.39
1887 5986 3.368013 CGTCAACTAGTTGCTCCCACATA 60.368 47.826 27.49 7.19 40.24 2.29
1888 5987 2.612972 CGTCAACTAGTTGCTCCCACAT 60.613 50.000 27.49 0.00 40.24 3.21
1889 5988 1.270094 CGTCAACTAGTTGCTCCCACA 60.270 52.381 27.49 8.59 40.24 4.17
1890 5989 1.000506 TCGTCAACTAGTTGCTCCCAC 59.999 52.381 27.49 19.19 40.24 4.61
1891 5990 1.272490 CTCGTCAACTAGTTGCTCCCA 59.728 52.381 27.49 10.00 40.24 4.37
1921 6020 2.481276 CGTTGATCGTTATGAGGCTCCA 60.481 50.000 12.86 0.18 34.52 3.86
1930 6029 2.006888 CCAAGTGGCGTTGATCGTTAT 58.993 47.619 1.19 0.00 42.13 1.89
2074 6235 1.066358 GGTAAGGAAGACCGGTGGAAG 60.066 57.143 14.63 0.00 41.83 3.46
2181 6605 0.320374 AAATCGTGCCTCTGACGGAA 59.680 50.000 0.00 0.00 37.43 4.30
2185 6609 1.160137 AGCAAAATCGTGCCTCTGAC 58.840 50.000 0.00 0.00 46.14 3.51
2187 6611 2.589014 GAAAGCAAAATCGTGCCTCTG 58.411 47.619 0.00 0.00 46.14 3.35
2206 6717 1.001269 ACGGTCATGACTCTCGGGA 60.001 57.895 24.50 0.00 0.00 5.14
2208 6719 0.179161 GTCACGGTCATGACTCTCGG 60.179 60.000 24.50 13.35 44.71 4.63
2271 6888 3.114616 CAAGTGTGCCTCTCGCGG 61.115 66.667 6.13 0.00 42.08 6.46



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

AutoCloner maintained by Alex Coulton.