Multiple sequence alignment - TraesCS6D01G407700

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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 TraesCS6D01G407700 chr6D 100.000 2426 0 0 1 2426 473105225 473102800 0.000000e+00 4481.0
1 TraesCS6D01G407700 chr7B 82.990 1311 94 45 1 1223 661725538 661724269 0.000000e+00 1066.0
2 TraesCS6D01G407700 chr7B 83.168 404 49 10 992 1385 661720536 661720142 3.840000e-93 351.0
3 TraesCS6D01G407700 chr7B 89.831 177 8 3 1219 1385 661724237 661724061 4.060000e-53 219.0
4 TraesCS6D01G407700 chr6B 93.429 700 21 12 1658 2334 718476584 718475887 0.000000e+00 1014.0
5 TraesCS6D01G407700 chr6B 77.746 355 21 14 648 967 103288457 103288788 5.370000e-37 165.0
6 TraesCS6D01G407700 chr6B 94.805 77 3 1 920 996 103288776 103288851 4.240000e-23 119.0
7 TraesCS6D01G407700 chr6B 92.105 76 6 0 2351 2426 718475900 718475825 9.170000e-20 108.0
8 TraesCS6D01G407700 chr6A 81.466 464 51 15 266 719 616809090 616809528 4.960000e-92 348.0
9 TraesCS6D01G407700 chr5D 88.362 232 27 0 992 1223 47531059 47531290 1.840000e-71 279.0
10 TraesCS6D01G407700 chr5D 77.333 225 32 15 266 479 47530352 47530568 5.480000e-22 115.0
11 TraesCS6D01G407700 chr5D 90.000 70 1 2 2335 2404 515834739 515834802 4.300000e-13 86.1
12 TraesCS6D01G407700 chr4B 82.006 339 20 13 648 967 645444165 645443849 1.440000e-62 250.0
13 TraesCS6D01G407700 chr4B 78.310 355 19 16 648 967 139808871 139809202 2.480000e-40 176.0
14 TraesCS6D01G407700 chr4B 77.684 354 22 17 648 967 139799392 139799062 1.930000e-36 163.0
15 TraesCS6D01G407700 chr4B 96.104 77 2 1 920 996 139799074 139798999 9.110000e-25 124.0
16 TraesCS6D01G407700 chr4B 96.104 77 2 1 920 996 139809190 139809265 9.110000e-25 124.0
17 TraesCS6D01G407700 chr4B 94.737 76 3 1 920 995 645443861 645443787 1.520000e-22 117.0
18 TraesCS6D01G407700 chr5A 80.488 328 43 15 900 1223 37935033 37935343 5.220000e-57 231.0
19 TraesCS6D01G407700 chr5A 88.136 177 11 2 1219 1385 37935375 37935551 4.090000e-48 202.0
20 TraesCS6D01G407700 chr7A 87.778 180 9 3 1219 1385 674140339 674140160 5.290000e-47 198.0
21 TraesCS6D01G407700 chr3B 74.847 489 94 22 1854 2322 822879961 822880440 6.840000e-46 195.0
22 TraesCS6D01G407700 chr3B 78.028 355 20 16 648 967 263282680 263282349 1.150000e-38 171.0
23 TraesCS6D01G407700 chr3B 76.056 355 28 22 648 967 467380315 467379983 5.440000e-27 132.0
24 TraesCS6D01G407700 chr3B 94.805 77 3 1 920 996 467379995 467379920 4.240000e-23 119.0
25 TraesCS6D01G407700 chr3B 87.500 72 3 1 2333 2404 746987658 746987723 7.190000e-11 78.7
26 TraesCS6D01G407700 chr3B 95.745 47 2 0 1996 2042 498367073 498367119 2.590000e-10 76.8
27 TraesCS6D01G407700 chr3A 73.975 488 89 26 1963 2426 749328903 749329376 1.930000e-36 163.0
28 TraesCS6D01G407700 chr3D 73.673 490 95 26 1854 2317 613692392 613692873 2.500000e-35 159.0
29 TraesCS6D01G407700 chr3D 90.110 91 3 2 2333 2423 537652601 537652685 1.970000e-21 113.0
30 TraesCS6D01G407700 chr3D 89.011 91 4 2 2333 2423 537647415 537647499 9.170000e-20 108.0
31 TraesCS6D01G407700 chr3D 92.000 50 4 0 1994 2043 175402165 175402116 1.200000e-08 71.3
32 TraesCS6D01G407700 chr3D 91.111 45 4 0 1999 2043 143460180 143460136 7.240000e-06 62.1
33 TraesCS6D01G407700 chr1A 93.878 98 5 1 899 996 588668572 588668668 1.940000e-31 147.0
34 TraesCS6D01G407700 chr1A 75.843 356 26 17 648 967 65254244 65254575 2.530000e-25 126.0
35 TraesCS6D01G407700 chr1A 78.541 233 9 13 648 862 65252595 65252386 5.480000e-22 115.0
36 TraesCS6D01G407700 chr1A 93.506 77 4 1 920 996 65254563 65254638 1.970000e-21 113.0
37 TraesCS6D01G407700 chr4D 91.837 49 4 0 1995 2043 84545682 84545730 4.330000e-08 69.4
38 TraesCS6D01G407700 chr4A 91.837 49 4 0 1995 2043 497440514 497440562 4.330000e-08 69.4


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 TraesCS6D01G407700 chr6D 473102800 473105225 2425 True 4481.000000 4481 100.000000 1 2426 1 chr6D.!!$R1 2425
1 TraesCS6D01G407700 chr7B 661720142 661725538 5396 True 545.333333 1066 85.329667 1 1385 3 chr7B.!!$R1 1384
2 TraesCS6D01G407700 chr6B 718475825 718476584 759 True 561.000000 1014 92.767000 1658 2426 2 chr6B.!!$R1 768
3 TraesCS6D01G407700 chr5A 37935033 37935551 518 False 216.500000 231 84.312000 900 1385 2 chr5A.!!$F1 485

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
852 922 0.026285 CGCCGCAAACTCTATTTCCG 59.974 55.0 0.0 0.0 0.0 4.3 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2364 5556 0.689412 CACCTCTTCCTCCCTCTCCC 60.689 65.0 0.0 0.0 0.0 4.3 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
57 59 9.825972 TTTGCGATTTTAACAAATTTTCACAAA 57.174 22.222 0.00 0.00 32.35 2.83
59 61 9.994432 TGCGATTTTAACAAATTTTCACAAATT 57.006 22.222 0.00 0.00 43.29 1.82
106 110 4.320870 TCCCGTATTTCAAGGAGTTTCAC 58.679 43.478 0.00 0.00 0.00 3.18
107 111 3.124636 CCCGTATTTCAAGGAGTTTCACG 59.875 47.826 0.00 0.00 0.00 4.35
113 117 7.686938 CGTATTTCAAGGAGTTTCACGAATTAC 59.313 37.037 0.00 0.00 0.00 1.89
116 120 6.928979 TCAAGGAGTTTCACGAATTACAAA 57.071 33.333 0.00 0.00 0.00 2.83
268 283 4.323417 CACAGTAAAGTGTTGGCCTATGA 58.677 43.478 3.32 0.00 34.83 2.15
270 285 6.112734 CACAGTAAAGTGTTGGCCTATGATA 58.887 40.000 3.32 0.00 34.83 2.15
284 322 2.729383 ATGATAGGAGGATGAGGGCA 57.271 50.000 0.00 0.00 0.00 5.36
288 326 0.636647 TAGGAGGATGAGGGCAGACA 59.363 55.000 0.00 0.00 0.00 3.41
295 333 0.994247 ATGAGGGCAGACAATGGTGA 59.006 50.000 0.00 0.00 0.00 4.02
321 359 2.029307 GAGAGGCGGGCGGAAAGTAT 62.029 60.000 0.00 0.00 0.00 2.12
333 371 3.982058 GCGGAAAGTATCTTGACCTATCG 59.018 47.826 0.00 0.00 0.00 2.92
384 422 6.808212 GTGAGTTCATGAAAATACAATGGTGG 59.192 38.462 10.35 0.00 0.00 4.61
385 423 6.493115 TGAGTTCATGAAAATACAATGGTGGT 59.507 34.615 10.35 0.00 0.00 4.16
450 488 4.574013 TCATTCAATTTGTGTTTTGGCACC 59.426 37.500 0.00 0.00 38.52 5.01
460 498 2.025887 TGTTTTGGCACCCCACAAAATT 60.026 40.909 5.95 0.00 45.09 1.82
466 504 1.070601 GCACCCCACAAAATTCAGCTT 59.929 47.619 0.00 0.00 0.00 3.74
501 543 0.749049 AACCCGGCTCGACTTATACC 59.251 55.000 0.00 0.00 0.00 2.73
504 546 0.664761 CCGGCTCGACTTATACCGAA 59.335 55.000 0.54 0.00 46.71 4.30
546 588 6.648725 CTTATGCCGAATAAGTAGTATGCC 57.351 41.667 8.77 0.00 41.96 4.40
547 589 3.396260 TGCCGAATAAGTAGTATGCCC 57.604 47.619 0.00 0.00 0.00 5.36
548 590 2.969950 TGCCGAATAAGTAGTATGCCCT 59.030 45.455 0.00 0.00 0.00 5.19
549 591 3.006537 TGCCGAATAAGTAGTATGCCCTC 59.993 47.826 0.00 0.00 0.00 4.30
550 592 3.258622 GCCGAATAAGTAGTATGCCCTCT 59.741 47.826 0.00 0.00 0.00 3.69
551 593 4.461781 GCCGAATAAGTAGTATGCCCTCTA 59.538 45.833 0.00 0.00 0.00 2.43
552 594 5.127356 GCCGAATAAGTAGTATGCCCTCTAT 59.873 44.000 0.00 0.00 0.00 1.98
553 595 6.351117 GCCGAATAAGTAGTATGCCCTCTATT 60.351 42.308 0.00 0.00 0.00 1.73
554 596 7.612677 CCGAATAAGTAGTATGCCCTCTATTT 58.387 38.462 0.00 0.00 0.00 1.40
555 597 8.095169 CCGAATAAGTAGTATGCCCTCTATTTT 58.905 37.037 0.00 0.00 0.00 1.82
559 601 6.561519 AGTAGTATGCCCTCTATTTTGTGT 57.438 37.500 0.00 0.00 0.00 3.72
583 625 1.572085 CTTTGCAGCTGGTGGACTCG 61.572 60.000 17.12 0.00 0.00 4.18
593 635 0.105039 GGTGGACTCGAGCCCAATAG 59.895 60.000 23.00 0.00 33.69 1.73
594 636 0.530870 GTGGACTCGAGCCCAATAGC 60.531 60.000 23.00 6.18 33.69 2.97
595 637 0.975556 TGGACTCGAGCCCAATAGCA 60.976 55.000 19.08 0.00 34.23 3.49
596 638 0.178068 GGACTCGAGCCCAATAGCAA 59.822 55.000 13.56 0.00 34.23 3.91
597 639 1.406887 GGACTCGAGCCCAATAGCAAA 60.407 52.381 13.56 0.00 34.23 3.68
598 640 1.666189 GACTCGAGCCCAATAGCAAAC 59.334 52.381 13.61 0.00 34.23 2.93
599 641 0.652592 CTCGAGCCCAATAGCAAACG 59.347 55.000 0.00 0.00 34.23 3.60
600 642 0.036765 TCGAGCCCAATAGCAAACGT 60.037 50.000 0.00 0.00 34.23 3.99
601 643 0.096976 CGAGCCCAATAGCAAACGTG 59.903 55.000 0.00 0.00 34.23 4.49
602 644 0.451783 GAGCCCAATAGCAAACGTGG 59.548 55.000 0.00 0.00 34.23 4.94
603 645 0.251165 AGCCCAATAGCAAACGTGGT 60.251 50.000 0.00 0.00 39.33 4.16
604 646 0.109319 GCCCAATAGCAAACGTGGTG 60.109 55.000 0.00 0.00 36.66 4.17
605 647 1.529226 CCCAATAGCAAACGTGGTGA 58.471 50.000 3.76 0.00 36.66 4.02
606 648 1.468520 CCCAATAGCAAACGTGGTGAG 59.531 52.381 3.76 0.00 36.66 3.51
607 649 2.151202 CCAATAGCAAACGTGGTGAGT 58.849 47.619 3.76 0.00 36.66 3.41
608 650 2.552315 CCAATAGCAAACGTGGTGAGTT 59.448 45.455 3.76 0.00 36.66 3.01
609 651 3.554524 CAATAGCAAACGTGGTGAGTTG 58.445 45.455 3.76 0.00 36.66 3.16
610 652 2.319136 TAGCAAACGTGGTGAGTTGT 57.681 45.000 3.76 0.00 36.66 3.32
611 653 1.014352 AGCAAACGTGGTGAGTTGTC 58.986 50.000 3.76 0.00 33.11 3.18
612 654 0.028902 GCAAACGTGGTGAGTTGTCC 59.971 55.000 3.76 0.00 31.43 4.02
613 655 1.663695 CAAACGTGGTGAGTTGTCCT 58.336 50.000 0.00 0.00 31.43 3.85
614 656 2.014128 CAAACGTGGTGAGTTGTCCTT 58.986 47.619 0.00 0.00 31.43 3.36
615 657 3.199677 CAAACGTGGTGAGTTGTCCTTA 58.800 45.455 0.00 0.00 31.43 2.69
618 660 2.140717 CGTGGTGAGTTGTCCTTAACC 58.859 52.381 0.00 0.00 33.09 2.85
633 675 2.942604 TAACCAACCCTAGGAGAGCT 57.057 50.000 11.48 0.00 0.00 4.09
641 683 1.909700 CCTAGGAGAGCTCTAGGCAG 58.090 60.000 18.25 11.24 44.87 4.85
642 684 1.547675 CCTAGGAGAGCTCTAGGCAGG 60.548 61.905 18.25 16.25 44.87 4.85
643 685 0.178975 TAGGAGAGCTCTAGGCAGGC 60.179 60.000 18.25 1.52 44.79 4.85
644 686 2.506957 GGAGAGCTCTAGGCAGGCC 61.507 68.421 18.25 7.99 44.79 5.19
646 688 2.765807 GAGCTCTAGGCAGGCCCA 60.766 66.667 6.43 0.00 44.79 5.36
651 712 3.854669 CTAGGCAGGCCCAGGACG 61.855 72.222 6.70 0.00 36.58 4.79
733 803 2.993840 AGGAGCGAGTGAGCAGCA 60.994 61.111 0.00 0.00 40.15 4.41
734 804 2.508887 GGAGCGAGTGAGCAGCAG 60.509 66.667 0.00 0.00 40.15 4.24
743 813 4.385405 GAGCAGCAGCCACTCCGT 62.385 66.667 0.00 0.00 43.56 4.69
744 814 4.694233 AGCAGCAGCCACTCCGTG 62.694 66.667 0.00 0.00 43.56 4.94
749 819 3.716006 CAGCCACTCCGTGCGTTG 61.716 66.667 0.00 0.00 31.34 4.10
852 922 0.026285 CGCCGCAAACTCTATTTCCG 59.974 55.000 0.00 0.00 0.00 4.30
932 1020 3.004106 CCAGCTCCAAACTCTGAAACTTG 59.996 47.826 0.00 0.00 0.00 3.16
1128 1236 2.740826 GGCTACTCGCGCACCAAA 60.741 61.111 8.75 0.00 40.44 3.28
1146 1254 2.514824 GAGCTGATTCCCACCGGC 60.515 66.667 0.00 0.00 35.01 6.13
1282 1426 1.771255 AGGTCAGGTTCAGTTTCAGCT 59.229 47.619 0.00 0.00 0.00 4.24
1284 1428 2.291741 GGTCAGGTTCAGTTTCAGCTTG 59.708 50.000 0.00 0.00 0.00 4.01
1287 1431 2.033801 CAGGTTCAGTTTCAGCTTGGTG 59.966 50.000 0.00 0.00 0.00 4.17
1311 1455 1.452833 GGTGGAGAAGCAGATGCCC 60.453 63.158 0.14 0.00 43.38 5.36
1382 1544 3.500680 GGCAACGACAGGTTTATCAGAAA 59.499 43.478 0.00 0.00 36.49 2.52
1383 1545 4.378459 GGCAACGACAGGTTTATCAGAAAG 60.378 45.833 0.00 0.00 36.49 2.62
1384 1546 4.451096 GCAACGACAGGTTTATCAGAAAGA 59.549 41.667 0.00 0.00 36.49 2.52
1387 3030 3.304559 CGACAGGTTTATCAGAAAGAGCG 59.695 47.826 0.00 0.00 0.00 5.03
1391 3034 5.582665 ACAGGTTTATCAGAAAGAGCGATTC 59.417 40.000 0.00 0.00 0.00 2.52
1393 3036 6.259608 CAGGTTTATCAGAAAGAGCGATTCAT 59.740 38.462 0.00 0.00 0.00 2.57
1395 3038 7.011857 AGGTTTATCAGAAAGAGCGATTCATTC 59.988 37.037 0.00 0.00 34.51 2.67
1396 3039 6.851222 TTATCAGAAAGAGCGATTCATTCC 57.149 37.500 0.00 0.00 34.77 3.01
1398 3041 4.186926 TCAGAAAGAGCGATTCATTCCTG 58.813 43.478 0.00 0.00 34.77 3.86
1402 3045 6.481313 CAGAAAGAGCGATTCATTCCTGATAA 59.519 38.462 0.00 0.00 34.77 1.75
1403 3046 7.011763 CAGAAAGAGCGATTCATTCCTGATAAA 59.988 37.037 0.00 0.00 34.77 1.40
1404 3047 7.554118 AGAAAGAGCGATTCATTCCTGATAAAA 59.446 33.333 0.00 0.00 34.77 1.52
1409 3052 6.774656 AGCGATTCATTCCTGATAAAATCCTT 59.225 34.615 0.00 0.00 0.00 3.36
1410 3053 7.939039 AGCGATTCATTCCTGATAAAATCCTTA 59.061 33.333 0.00 0.00 0.00 2.69
1432 3075 9.930693 CCTTATGTTCTATACCATAAGAGAACC 57.069 37.037 16.85 0.00 44.67 3.62
1438 3081 8.795513 GTTCTATACCATAAGAGAACCTACCTC 58.204 40.741 2.84 0.00 41.18 3.85
1439 3082 8.053776 TCTATACCATAAGAGAACCTACCTCA 57.946 38.462 0.00 0.00 33.25 3.86
1440 3083 8.508601 TCTATACCATAAGAGAACCTACCTCAA 58.491 37.037 0.00 0.00 33.25 3.02
1441 3084 5.941555 ACCATAAGAGAACCTACCTCAAG 57.058 43.478 0.00 0.00 33.25 3.02
1443 3086 4.443598 CCATAAGAGAACCTACCTCAAGGC 60.444 50.000 0.00 0.00 40.62 4.35
1444 3087 1.574263 AGAGAACCTACCTCAAGGCC 58.426 55.000 0.00 0.00 40.62 5.19
1445 3088 1.203313 AGAGAACCTACCTCAAGGCCA 60.203 52.381 5.01 0.00 40.62 5.36
1448 3091 1.073284 GAACCTACCTCAAGGCCAACA 59.927 52.381 5.01 0.00 40.62 3.33
1449 3092 0.400594 ACCTACCTCAAGGCCAACAC 59.599 55.000 5.01 0.00 40.62 3.32
1454 3097 1.515521 CCTCAAGGCCAACACGTTCC 61.516 60.000 5.01 0.00 0.00 3.62
1455 3098 1.515521 CTCAAGGCCAACACGTTCCC 61.516 60.000 5.01 0.00 0.00 3.97
1457 3100 0.250553 CAAGGCCAACACGTTCCCTA 60.251 55.000 5.01 0.00 0.00 3.53
1458 3101 0.036306 AAGGCCAACACGTTCCCTAG 59.964 55.000 5.01 0.00 0.00 3.02
1459 3102 1.125711 AGGCCAACACGTTCCCTAGT 61.126 55.000 5.01 0.00 0.00 2.57
1460 3103 0.953960 GGCCAACACGTTCCCTAGTG 60.954 60.000 0.00 0.00 43.46 2.74
1462 3105 0.682852 CCAACACGTTCCCTAGTGGA 59.317 55.000 0.00 0.00 42.25 4.02
1487 3146 7.812690 AAATGATGCTGATGCTTGTTCTATA 57.187 32.000 0.00 0.00 40.48 1.31
1488 3147 6.798315 ATGATGCTGATGCTTGTTCTATAC 57.202 37.500 0.00 0.00 40.48 1.47
1489 3148 5.922053 TGATGCTGATGCTTGTTCTATACT 58.078 37.500 0.00 0.00 40.48 2.12
1490 3149 7.054491 TGATGCTGATGCTTGTTCTATACTA 57.946 36.000 0.00 0.00 40.48 1.82
1491 3150 7.674120 TGATGCTGATGCTTGTTCTATACTAT 58.326 34.615 0.00 0.00 40.48 2.12
1494 3153 8.992835 TGCTGATGCTTGTTCTATACTATATG 57.007 34.615 0.00 0.00 40.48 1.78
1495 3154 8.588472 TGCTGATGCTTGTTCTATACTATATGT 58.412 33.333 0.00 0.00 40.48 2.29
1496 3155 9.429359 GCTGATGCTTGTTCTATACTATATGTT 57.571 33.333 0.00 0.00 36.03 2.71
1498 3157 9.710900 TGATGCTTGTTCTATACTATATGTTGG 57.289 33.333 0.00 0.00 0.00 3.77
1499 3158 9.712305 GATGCTTGTTCTATACTATATGTTGGT 57.288 33.333 0.00 0.00 0.00 3.67
1500 3159 8.887036 TGCTTGTTCTATACTATATGTTGGTG 57.113 34.615 0.00 0.00 0.00 4.17
1501 3160 8.700973 TGCTTGTTCTATACTATATGTTGGTGA 58.299 33.333 0.00 0.00 0.00 4.02
1505 3164 8.646900 TGTTCTATACTATATGTTGGTGATGCA 58.353 33.333 0.00 0.00 0.00 3.96
1508 3167 9.875691 TCTATACTATATGTTGGTGATGCATTC 57.124 33.333 0.00 0.00 0.00 2.67
1511 3170 7.886629 ACTATATGTTGGTGATGCATTCTTT 57.113 32.000 0.00 0.00 0.00 2.52
1512 3171 7.934457 ACTATATGTTGGTGATGCATTCTTTC 58.066 34.615 0.00 0.00 0.00 2.62
1513 3172 6.778834 ATATGTTGGTGATGCATTCTTTCA 57.221 33.333 0.00 0.00 0.00 2.69
1514 3173 4.508461 TGTTGGTGATGCATTCTTTCAG 57.492 40.909 0.00 0.00 0.00 3.02
1525 3184 3.677700 GCATTCTTTCAGCATTGCCATGA 60.678 43.478 4.70 0.35 31.07 3.07
1532 3208 0.752009 AGCATTGCCATGAGCCTCTG 60.752 55.000 4.70 0.00 42.71 3.35
1538 3214 1.074405 TGCCATGAGCCTCTGTTTTCT 59.926 47.619 0.00 0.00 42.71 2.52
1539 3215 2.165998 GCCATGAGCCTCTGTTTTCTT 58.834 47.619 0.00 0.00 34.35 2.52
1540 3216 2.560105 GCCATGAGCCTCTGTTTTCTTT 59.440 45.455 0.00 0.00 34.35 2.52
1541 3217 3.366781 GCCATGAGCCTCTGTTTTCTTTC 60.367 47.826 0.00 0.00 34.35 2.62
1542 3218 4.077822 CCATGAGCCTCTGTTTTCTTTCT 58.922 43.478 0.00 0.00 0.00 2.52
1544 3220 5.123027 CCATGAGCCTCTGTTTTCTTTCTAC 59.877 44.000 0.00 0.00 0.00 2.59
1545 3221 5.552870 TGAGCCTCTGTTTTCTTTCTACT 57.447 39.130 0.00 0.00 0.00 2.57
1546 3222 5.542779 TGAGCCTCTGTTTTCTTTCTACTC 58.457 41.667 0.00 0.00 0.00 2.59
1547 3223 4.900684 AGCCTCTGTTTTCTTTCTACTCC 58.099 43.478 0.00 0.00 0.00 3.85
1548 3224 4.595350 AGCCTCTGTTTTCTTTCTACTCCT 59.405 41.667 0.00 0.00 0.00 3.69
1549 3225 4.932799 GCCTCTGTTTTCTTTCTACTCCTC 59.067 45.833 0.00 0.00 0.00 3.71
1550 3226 5.279758 GCCTCTGTTTTCTTTCTACTCCTCT 60.280 44.000 0.00 0.00 0.00 3.69
1551 3227 6.162777 CCTCTGTTTTCTTTCTACTCCTCTG 58.837 44.000 0.00 0.00 0.00 3.35
1552 3228 6.239458 CCTCTGTTTTCTTTCTACTCCTCTGT 60.239 42.308 0.00 0.00 0.00 3.41
1555 3231 8.047310 TCTGTTTTCTTTCTACTCCTCTGTTTT 58.953 33.333 0.00 0.00 0.00 2.43
1556 3232 8.209917 TGTTTTCTTTCTACTCCTCTGTTTTC 57.790 34.615 0.00 0.00 0.00 2.29
1558 3234 8.894731 GTTTTCTTTCTACTCCTCTGTTTTCTT 58.105 33.333 0.00 0.00 0.00 2.52
1560 3236 9.765795 TTTCTTTCTACTCCTCTGTTTTCTTAG 57.234 33.333 0.00 0.00 0.00 2.18
1563 3239 9.549078 CTTTCTACTCCTCTGTTTTCTTAGTTT 57.451 33.333 0.00 0.00 0.00 2.66
1564 3240 9.901172 TTTCTACTCCTCTGTTTTCTTAGTTTT 57.099 29.630 0.00 0.00 0.00 2.43
1565 3241 9.901172 TTCTACTCCTCTGTTTTCTTAGTTTTT 57.099 29.630 0.00 0.00 0.00 1.94
1605 3281 3.338249 TCTTTCAGTGGAAGCACTATGC 58.662 45.455 6.26 0.00 45.46 3.14
1618 3294 4.536364 GCACTATGCATGTTTACGTCAT 57.464 40.909 10.16 0.00 44.26 3.06
1619 3295 4.908736 GCACTATGCATGTTTACGTCATT 58.091 39.130 10.16 0.00 44.26 2.57
1620 3296 4.963953 GCACTATGCATGTTTACGTCATTC 59.036 41.667 10.16 0.00 44.26 2.67
1622 3298 6.718388 CACTATGCATGTTTACGTCATTCAT 58.282 36.000 10.16 0.00 34.65 2.57
1623 3299 7.188834 CACTATGCATGTTTACGTCATTCATT 58.811 34.615 10.16 0.00 33.09 2.57
1624 3300 7.374228 CACTATGCATGTTTACGTCATTCATTC 59.626 37.037 10.16 0.00 33.09 2.67
1636 3768 4.974275 CGTCATTCATTCATTCATTCCTGC 59.026 41.667 0.00 0.00 0.00 4.85
1637 3769 5.220989 CGTCATTCATTCATTCATTCCTGCT 60.221 40.000 0.00 0.00 0.00 4.24
1638 3770 6.017687 CGTCATTCATTCATTCATTCCTGCTA 60.018 38.462 0.00 0.00 0.00 3.49
1639 3771 7.361127 GTCATTCATTCATTCATTCCTGCTAG 58.639 38.462 0.00 0.00 0.00 3.42
1640 3772 7.228108 GTCATTCATTCATTCATTCCTGCTAGA 59.772 37.037 0.00 0.00 0.00 2.43
1642 3774 6.244552 TCATTCATTCATTCCTGCTAGAGT 57.755 37.500 0.00 0.00 0.00 3.24
1643 3775 7.365497 TCATTCATTCATTCCTGCTAGAGTA 57.635 36.000 0.00 0.00 0.00 2.59
1644 3776 7.440198 TCATTCATTCATTCCTGCTAGAGTAG 58.560 38.462 0.00 0.00 0.00 2.57
1645 3777 7.288621 TCATTCATTCATTCCTGCTAGAGTAGA 59.711 37.037 0.00 0.00 0.00 2.59
1646 3778 7.423844 TTCATTCATTCCTGCTAGAGTAGAA 57.576 36.000 0.00 0.00 0.00 2.10
1649 3781 8.489489 TCATTCATTCCTGCTAGAGTAGAATTT 58.511 33.333 0.00 0.00 0.00 1.82
1650 3782 8.557864 CATTCATTCCTGCTAGAGTAGAATTTG 58.442 37.037 0.00 0.00 0.00 2.32
1652 3784 7.851228 TCATTCCTGCTAGAGTAGAATTTGAA 58.149 34.615 0.00 0.00 0.00 2.69
1653 3785 8.489489 TCATTCCTGCTAGAGTAGAATTTGAAT 58.511 33.333 0.00 0.00 0.00 2.57
1654 3786 9.118300 CATTCCTGCTAGAGTAGAATTTGAATT 57.882 33.333 0.00 0.00 0.00 2.17
1656 3788 8.723942 TCCTGCTAGAGTAGAATTTGAATTTC 57.276 34.615 0.00 0.00 0.00 2.17
1657 3789 8.321353 TCCTGCTAGAGTAGAATTTGAATTTCA 58.679 33.333 0.00 0.00 0.00 2.69
1737 4648 3.104766 CACGATGATGGGCTGCAC 58.895 61.111 0.50 0.00 0.00 4.57
1802 4728 1.445582 GGTGACGTCCGACATGGTC 60.446 63.158 14.12 0.00 39.52 4.02
1928 4854 1.708027 GTACATCTTGCGCACGTCC 59.292 57.895 11.12 0.00 0.00 4.79
2189 5121 2.355363 TTGGCGGTGAAGTCGTCG 60.355 61.111 0.00 0.00 34.67 5.12
2334 5526 2.676471 GCCGGTCACCATTGCCTT 60.676 61.111 1.90 0.00 0.00 4.35
2335 5527 2.993471 GCCGGTCACCATTGCCTTG 61.993 63.158 1.90 0.00 0.00 3.61
2337 5529 2.342650 CGGTCACCATTGCCTTGGG 61.343 63.158 0.00 0.00 41.35 4.12
2349 5541 4.033776 CTTGGGCTTGGGCGGAGA 62.034 66.667 0.00 0.00 39.81 3.71
2350 5542 3.984193 CTTGGGCTTGGGCGGAGAG 62.984 68.421 0.00 0.00 39.81 3.20
2354 5546 4.821589 GCTTGGGCGGAGAGGTCG 62.822 72.222 0.00 0.00 0.00 4.79
2362 5554 2.514824 GGAGAGGTCGCCATTGGC 60.515 66.667 18.10 18.10 46.75 4.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
77 81 8.411991 AACTCCTTGAAATACGGGATTTAAAA 57.588 30.769 0.00 0.00 37.90 1.52
80 84 7.120138 GTGAAACTCCTTGAAATACGGGATTTA 59.880 37.037 0.00 0.00 37.90 1.40
86 90 3.991773 TCGTGAAACTCCTTGAAATACGG 59.008 43.478 0.00 0.00 31.75 4.02
92 96 6.928979 TTGTAATTCGTGAAACTCCTTGAA 57.071 33.333 0.00 0.00 31.75 2.69
97 101 8.500773 TGTAATCTTTGTAATTCGTGAAACTCC 58.499 33.333 0.00 0.00 31.75 3.85
106 110 9.658475 TGAAGTTTGTGTAATCTTTGTAATTCG 57.342 29.630 0.00 0.00 0.00 3.34
113 117 9.311916 TCCATTTTGAAGTTTGTGTAATCTTTG 57.688 29.630 0.00 0.00 0.00 2.77
116 120 9.883142 TTTTCCATTTTGAAGTTTGTGTAATCT 57.117 25.926 0.00 0.00 0.00 2.40
168 173 9.892130 TTTGTGGGTGTGTTTTTATATTTCTTT 57.108 25.926 0.00 0.00 0.00 2.52
169 174 9.892130 TTTTGTGGGTGTGTTTTTATATTTCTT 57.108 25.926 0.00 0.00 0.00 2.52
170 175 9.892130 TTTTTGTGGGTGTGTTTTTATATTTCT 57.108 25.926 0.00 0.00 0.00 2.52
235 250 3.067601 CACTTTACTGTGTTTGGGGTTCC 59.932 47.826 0.00 0.00 33.61 3.62
259 274 3.567441 CCTCATCCTCCTATCATAGGCCA 60.567 52.174 5.01 0.00 45.82 5.36
261 276 3.037549 CCCTCATCCTCCTATCATAGGC 58.962 54.545 5.74 0.00 45.82 3.93
263 278 3.705579 CTGCCCTCATCCTCCTATCATAG 59.294 52.174 0.00 0.00 0.00 2.23
264 279 3.337909 TCTGCCCTCATCCTCCTATCATA 59.662 47.826 0.00 0.00 0.00 2.15
265 280 2.113233 TCTGCCCTCATCCTCCTATCAT 59.887 50.000 0.00 0.00 0.00 2.45
266 281 1.505098 TCTGCCCTCATCCTCCTATCA 59.495 52.381 0.00 0.00 0.00 2.15
268 283 1.221523 TGTCTGCCCTCATCCTCCTAT 59.778 52.381 0.00 0.00 0.00 2.57
270 285 0.252881 TTGTCTGCCCTCATCCTCCT 60.253 55.000 0.00 0.00 0.00 3.69
283 321 0.254178 CCTCCCCTCACCATTGTCTG 59.746 60.000 0.00 0.00 0.00 3.51
284 322 0.119155 TCCTCCCCTCACCATTGTCT 59.881 55.000 0.00 0.00 0.00 3.41
288 326 0.327000 CCTCTCCTCCCCTCACCATT 60.327 60.000 0.00 0.00 0.00 3.16
346 384 0.737715 AACTCACGGCTGATCTTCGC 60.738 55.000 0.00 0.00 0.00 4.70
426 464 5.239087 GGTGCCAAAACACAAATTGAATGAT 59.761 36.000 0.00 0.00 42.55 2.45
431 469 2.420687 GGGGTGCCAAAACACAAATTGA 60.421 45.455 0.00 0.00 42.55 2.57
440 478 2.340210 ATTTTGTGGGGTGCCAAAAC 57.660 45.000 0.00 0.00 41.72 2.43
446 484 0.681175 AGCTGAATTTTGTGGGGTGC 59.319 50.000 0.00 0.00 0.00 5.01
450 488 4.634199 ACAATCAAGCTGAATTTTGTGGG 58.366 39.130 0.00 0.00 29.15 4.61
504 546 8.992073 GGCATAAGTTTGTCTCAAAATCAAAAT 58.008 29.630 0.00 0.00 33.80 1.82
528 570 3.258622 AGAGGGCATACTACTTATTCGGC 59.741 47.826 0.00 0.00 0.00 5.54
537 579 6.038271 CCAACACAAAATAGAGGGCATACTAC 59.962 42.308 0.00 0.00 0.00 2.73
538 580 6.119536 CCAACACAAAATAGAGGGCATACTA 58.880 40.000 0.00 0.00 0.00 1.82
539 581 4.949856 CCAACACAAAATAGAGGGCATACT 59.050 41.667 0.00 0.00 0.00 2.12
540 582 4.097892 CCCAACACAAAATAGAGGGCATAC 59.902 45.833 0.00 0.00 0.00 2.39
542 584 3.099141 CCCAACACAAAATAGAGGGCAT 58.901 45.455 0.00 0.00 0.00 4.40
543 585 2.524306 CCCAACACAAAATAGAGGGCA 58.476 47.619 0.00 0.00 0.00 5.36
545 587 2.807676 AGCCCAACACAAAATAGAGGG 58.192 47.619 0.00 0.00 37.87 4.30
546 588 4.559153 CAAAGCCCAACACAAAATAGAGG 58.441 43.478 0.00 0.00 0.00 3.69
547 589 3.989817 GCAAAGCCCAACACAAAATAGAG 59.010 43.478 0.00 0.00 0.00 2.43
548 590 3.386078 TGCAAAGCCCAACACAAAATAGA 59.614 39.130 0.00 0.00 0.00 1.98
549 591 3.726607 TGCAAAGCCCAACACAAAATAG 58.273 40.909 0.00 0.00 0.00 1.73
550 592 3.726607 CTGCAAAGCCCAACACAAAATA 58.273 40.909 0.00 0.00 0.00 1.40
551 593 2.563702 CTGCAAAGCCCAACACAAAAT 58.436 42.857 0.00 0.00 0.00 1.82
552 594 2.011046 GCTGCAAAGCCCAACACAAAA 61.011 47.619 0.00 0.00 0.00 2.44
553 595 0.461693 GCTGCAAAGCCCAACACAAA 60.462 50.000 0.00 0.00 0.00 2.83
554 596 1.143620 GCTGCAAAGCCCAACACAA 59.856 52.632 0.00 0.00 0.00 3.33
555 597 1.757731 AGCTGCAAAGCCCAACACA 60.758 52.632 1.02 0.00 34.90 3.72
559 601 2.123338 ACCAGCTGCAAAGCCCAA 60.123 55.556 8.66 0.00 34.90 4.12
583 625 0.451783 CCACGTTTGCTATTGGGCTC 59.548 55.000 0.00 0.00 0.00 4.70
593 635 0.028902 GGACAACTCACCACGTTTGC 59.971 55.000 0.00 0.00 0.00 3.68
594 636 1.663695 AGGACAACTCACCACGTTTG 58.336 50.000 0.00 0.00 0.00 2.93
595 637 2.413310 AAGGACAACTCACCACGTTT 57.587 45.000 0.00 0.00 0.00 3.60
596 638 3.200483 GTTAAGGACAACTCACCACGTT 58.800 45.455 0.00 0.00 0.00 3.99
597 639 2.484241 GGTTAAGGACAACTCACCACGT 60.484 50.000 0.00 0.00 34.16 4.49
598 640 2.140717 GGTTAAGGACAACTCACCACG 58.859 52.381 0.00 0.00 34.16 4.94
599 641 3.202829 TGGTTAAGGACAACTCACCAC 57.797 47.619 0.00 0.00 37.47 4.16
600 642 3.547746 GTTGGTTAAGGACAACTCACCA 58.452 45.455 9.26 0.00 42.67 4.17
601 643 2.882761 GGTTGGTTAAGGACAACTCACC 59.117 50.000 13.89 0.00 44.71 4.02
602 644 2.882761 GGGTTGGTTAAGGACAACTCAC 59.117 50.000 13.89 5.38 45.17 3.51
603 645 3.217681 GGGTTGGTTAAGGACAACTCA 57.782 47.619 13.89 0.00 45.17 3.41
604 646 3.503800 AGGGTTGGTTAAGGACAACTC 57.496 47.619 13.89 11.41 45.97 3.01
605 647 3.329814 CCTAGGGTTGGTTAAGGACAACT 59.670 47.826 0.00 2.84 44.71 3.16
606 648 3.328637 TCCTAGGGTTGGTTAAGGACAAC 59.671 47.826 9.46 8.39 44.62 3.32
607 649 3.585732 CTCCTAGGGTTGGTTAAGGACAA 59.414 47.826 9.46 0.00 32.93 3.18
608 650 3.178865 CTCCTAGGGTTGGTTAAGGACA 58.821 50.000 9.46 0.00 32.93 4.02
609 651 3.447950 TCTCCTAGGGTTGGTTAAGGAC 58.552 50.000 9.46 0.00 32.93 3.85
610 652 3.721021 CTCTCCTAGGGTTGGTTAAGGA 58.279 50.000 9.46 0.00 35.14 3.36
611 653 2.170817 GCTCTCCTAGGGTTGGTTAAGG 59.829 54.545 9.46 0.00 0.00 2.69
612 654 3.108376 AGCTCTCCTAGGGTTGGTTAAG 58.892 50.000 9.46 0.00 0.00 1.85
613 655 3.105283 GAGCTCTCCTAGGGTTGGTTAA 58.895 50.000 9.46 0.00 0.00 2.01
614 656 2.315155 AGAGCTCTCCTAGGGTTGGTTA 59.685 50.000 11.45 0.00 0.00 2.85
615 657 1.079658 AGAGCTCTCCTAGGGTTGGTT 59.920 52.381 11.45 0.00 0.00 3.67
618 660 2.593026 CCTAGAGCTCTCCTAGGGTTG 58.407 57.143 22.17 0.00 45.98 3.77
633 675 2.365635 GTCCTGGGCCTGCCTAGA 60.366 66.667 21.68 7.11 46.11 2.43
893 963 3.219198 GGATGGATGGGGTTGCGC 61.219 66.667 0.00 0.00 0.00 6.09
894 964 2.519302 GGGATGGATGGGGTTGCG 60.519 66.667 0.00 0.00 0.00 4.85
939 1027 7.557719 AGTTTCAGAGGTCATTTCAGAAAAGAA 59.442 33.333 2.38 0.00 33.66 2.52
940 1028 7.056635 AGTTTCAGAGGTCATTTCAGAAAAGA 58.943 34.615 0.00 0.00 33.66 2.52
941 1029 7.269477 AGTTTCAGAGGTCATTTCAGAAAAG 57.731 36.000 0.00 0.00 33.66 2.27
942 1030 7.645058 AAGTTTCAGAGGTCATTTCAGAAAA 57.355 32.000 0.00 0.00 33.66 2.29
955 1043 6.817765 TTAACCATTGCTAAGTTTCAGAGG 57.182 37.500 0.00 0.00 0.00 3.69
1128 1236 3.036429 GCCGGTGGGAATCAGCTCT 62.036 63.158 1.90 0.00 41.41 4.09
1146 1254 2.046023 TTGGCGGTGATGCTCTGG 60.046 61.111 0.00 0.00 34.52 3.86
1234 1378 1.134075 CTTCGTCGTCGTCATCGGT 59.866 57.895 1.33 0.00 38.33 4.69
1282 1426 0.696143 TTCTCCACCTGGTCCACCAA 60.696 55.000 0.00 0.00 46.97 3.67
1284 1428 1.679898 CTTCTCCACCTGGTCCACC 59.320 63.158 0.00 0.00 36.34 4.61
1287 1431 1.194781 TCTGCTTCTCCACCTGGTCC 61.195 60.000 0.00 0.00 36.34 4.46
1311 1455 1.202020 CGGGTTGCACGAATGTACATG 60.202 52.381 9.63 0.00 0.00 3.21
1382 1544 6.429385 GGATTTTATCAGGAATGAATCGCTCT 59.571 38.462 0.00 0.00 0.00 4.09
1383 1545 6.429385 AGGATTTTATCAGGAATGAATCGCTC 59.571 38.462 0.00 0.00 0.00 5.03
1384 1546 6.302269 AGGATTTTATCAGGAATGAATCGCT 58.698 36.000 0.00 0.00 0.00 4.93
1410 3053 9.091220 GGTAGGTTCTCTTATGGTATAGAACAT 57.909 37.037 14.06 10.39 46.18 2.71
1413 3056 8.508601 TGAGGTAGGTTCTCTTATGGTATAGAA 58.491 37.037 0.00 0.00 32.78 2.10
1415 3058 8.707796 TTGAGGTAGGTTCTCTTATGGTATAG 57.292 38.462 0.00 0.00 32.78 1.31
1417 3060 6.555360 CCTTGAGGTAGGTTCTCTTATGGTAT 59.445 42.308 0.00 0.00 32.78 2.73
1418 3061 5.897824 CCTTGAGGTAGGTTCTCTTATGGTA 59.102 44.000 0.00 0.00 32.78 3.25
1419 3062 4.717280 CCTTGAGGTAGGTTCTCTTATGGT 59.283 45.833 0.00 0.00 32.78 3.55
1420 3063 4.443598 GCCTTGAGGTAGGTTCTCTTATGG 60.444 50.000 0.00 0.00 37.63 2.74
1421 3064 4.443598 GGCCTTGAGGTAGGTTCTCTTATG 60.444 50.000 0.00 0.00 37.63 1.90
1422 3065 3.712218 GGCCTTGAGGTAGGTTCTCTTAT 59.288 47.826 0.00 0.00 37.63 1.73
1423 3066 3.105283 GGCCTTGAGGTAGGTTCTCTTA 58.895 50.000 0.00 0.00 37.63 2.10
1424 3067 1.909986 GGCCTTGAGGTAGGTTCTCTT 59.090 52.381 0.00 0.00 37.63 2.85
1427 3070 1.351350 GTTGGCCTTGAGGTAGGTTCT 59.649 52.381 3.32 0.00 37.63 3.01
1428 3071 1.073284 TGTTGGCCTTGAGGTAGGTTC 59.927 52.381 3.32 0.00 37.63 3.62
1430 3073 0.400594 GTGTTGGCCTTGAGGTAGGT 59.599 55.000 3.32 0.00 37.63 3.08
1431 3074 0.673644 CGTGTTGGCCTTGAGGTAGG 60.674 60.000 3.32 0.00 38.40 3.18
1432 3075 0.034896 ACGTGTTGGCCTTGAGGTAG 59.965 55.000 3.32 0.00 37.57 3.18
1433 3076 0.470766 AACGTGTTGGCCTTGAGGTA 59.529 50.000 3.32 0.00 37.57 3.08
1434 3077 0.818040 GAACGTGTTGGCCTTGAGGT 60.818 55.000 3.32 0.00 37.57 3.85
1435 3078 1.515521 GGAACGTGTTGGCCTTGAGG 61.516 60.000 3.32 0.00 38.53 3.86
1438 3081 0.250553 TAGGGAACGTGTTGGCCTTG 60.251 55.000 3.32 0.00 0.00 3.61
1439 3082 0.036306 CTAGGGAACGTGTTGGCCTT 59.964 55.000 3.32 0.00 0.00 4.35
1440 3083 1.125711 ACTAGGGAACGTGTTGGCCT 61.126 55.000 3.32 0.00 0.00 5.19
1441 3084 0.953960 CACTAGGGAACGTGTTGGCC 60.954 60.000 0.00 0.00 0.00 5.36
1443 3086 0.682852 TCCACTAGGGAACGTGTTGG 59.317 55.000 0.00 0.00 44.80 3.77
1454 3097 4.261489 GCATCAGCATCATTTTCCACTAGG 60.261 45.833 0.00 0.00 41.58 3.02
1455 3098 4.579340 AGCATCAGCATCATTTTCCACTAG 59.421 41.667 0.00 0.00 45.49 2.57
1457 3100 3.362706 AGCATCAGCATCATTTTCCACT 58.637 40.909 0.00 0.00 45.49 4.00
1458 3101 3.795623 AGCATCAGCATCATTTTCCAC 57.204 42.857 0.00 0.00 45.49 4.02
1459 3102 3.512329 ACAAGCATCAGCATCATTTTCCA 59.488 39.130 0.00 0.00 45.49 3.53
1460 3103 4.119442 ACAAGCATCAGCATCATTTTCC 57.881 40.909 0.00 0.00 45.49 3.13
1462 3105 5.401531 AGAACAAGCATCAGCATCATTTT 57.598 34.783 0.00 0.00 45.49 1.82
1463 3106 6.710597 ATAGAACAAGCATCAGCATCATTT 57.289 33.333 0.00 0.00 45.49 2.32
1464 3107 6.996879 AGTATAGAACAAGCATCAGCATCATT 59.003 34.615 0.00 0.00 45.49 2.57
1465 3108 6.531923 AGTATAGAACAAGCATCAGCATCAT 58.468 36.000 0.00 0.00 45.49 2.45
1466 3109 5.922053 AGTATAGAACAAGCATCAGCATCA 58.078 37.500 0.00 0.00 45.49 3.07
1467 3110 9.814899 ATATAGTATAGAACAAGCATCAGCATC 57.185 33.333 0.00 0.00 45.49 3.91
1487 3146 7.557358 TGAAAGAATGCATCACCAACATATAGT 59.443 33.333 0.00 0.00 0.00 2.12
1488 3147 7.933396 TGAAAGAATGCATCACCAACATATAG 58.067 34.615 0.00 0.00 0.00 1.31
1489 3148 7.469043 GCTGAAAGAATGCATCACCAACATATA 60.469 37.037 0.00 0.00 34.07 0.86
1490 3149 6.682113 GCTGAAAGAATGCATCACCAACATAT 60.682 38.462 0.00 0.00 34.07 1.78
1491 3150 5.393352 GCTGAAAGAATGCATCACCAACATA 60.393 40.000 0.00 0.00 34.07 2.29
1494 3153 3.248266 GCTGAAAGAATGCATCACCAAC 58.752 45.455 0.00 0.00 34.07 3.77
1495 3154 2.892215 TGCTGAAAGAATGCATCACCAA 59.108 40.909 0.00 0.00 34.07 3.67
1496 3155 2.516906 TGCTGAAAGAATGCATCACCA 58.483 42.857 0.00 0.00 34.07 4.17
1497 3156 3.795623 ATGCTGAAAGAATGCATCACC 57.204 42.857 0.00 0.00 42.92 4.02
1498 3157 3.306166 GCAATGCTGAAAGAATGCATCAC 59.694 43.478 0.00 0.00 45.29 3.06
1499 3158 3.517602 GCAATGCTGAAAGAATGCATCA 58.482 40.909 0.00 0.00 45.29 3.07
1500 3159 2.864343 GGCAATGCTGAAAGAATGCATC 59.136 45.455 4.82 0.00 45.29 3.91
1505 3164 3.430374 GCTCATGGCAATGCTGAAAGAAT 60.430 43.478 4.82 0.00 41.35 2.40
1507 3166 1.475280 GCTCATGGCAATGCTGAAAGA 59.525 47.619 4.82 0.00 41.35 2.52
1508 3167 1.470979 GGCTCATGGCAATGCTGAAAG 60.471 52.381 4.82 0.00 44.01 2.62
1510 3169 0.323999 AGGCTCATGGCAATGCTGAA 60.324 50.000 4.82 0.00 44.01 3.02
1511 3170 0.750546 GAGGCTCATGGCAATGCTGA 60.751 55.000 10.25 0.62 44.01 4.26
1512 3171 0.752009 AGAGGCTCATGGCAATGCTG 60.752 55.000 18.26 0.00 44.01 4.41
1513 3172 0.752009 CAGAGGCTCATGGCAATGCT 60.752 55.000 18.26 0.00 44.01 3.79
1514 3173 1.035932 ACAGAGGCTCATGGCAATGC 61.036 55.000 18.26 0.00 44.01 3.56
1517 3176 1.888512 GAAAACAGAGGCTCATGGCAA 59.111 47.619 18.26 0.00 44.01 4.52
1519 3178 1.831580 AGAAAACAGAGGCTCATGGC 58.168 50.000 18.26 0.74 40.90 4.40
1520 3179 4.077822 AGAAAGAAAACAGAGGCTCATGG 58.922 43.478 18.26 8.25 0.00 3.66
1525 3184 4.595350 AGGAGTAGAAAGAAAACAGAGGCT 59.405 41.667 0.00 0.00 0.00 4.58
1532 3208 8.439993 AGAAAACAGAGGAGTAGAAAGAAAAC 57.560 34.615 0.00 0.00 0.00 2.43
1538 3214 9.901172 AAAACTAAGAAAACAGAGGAGTAGAAA 57.099 29.630 0.00 0.00 0.00 2.52
1539 3215 9.901172 AAAAACTAAGAAAACAGAGGAGTAGAA 57.099 29.630 0.00 0.00 0.00 2.10
1572 3248 7.255277 GCTTCCACTGAAAGAAACATACTCTTT 60.255 37.037 0.00 0.00 44.02 2.52
1573 3249 6.205658 GCTTCCACTGAAAGAAACATACTCTT 59.794 38.462 0.00 0.00 37.43 2.85
1574 3250 5.703130 GCTTCCACTGAAAGAAACATACTCT 59.297 40.000 0.00 0.00 37.43 3.24
1575 3251 5.470098 TGCTTCCACTGAAAGAAACATACTC 59.530 40.000 0.00 0.00 37.43 2.59
1576 3252 5.239525 GTGCTTCCACTGAAAGAAACATACT 59.760 40.000 0.00 0.00 38.93 2.12
1577 3253 5.452777 GTGCTTCCACTGAAAGAAACATAC 58.547 41.667 0.00 0.00 38.93 2.39
1591 3267 3.855689 AAACATGCATAGTGCTTCCAC 57.144 42.857 0.00 0.00 45.31 4.02
1592 3268 3.373748 CGTAAACATGCATAGTGCTTCCA 59.626 43.478 0.00 0.00 45.31 3.53
1605 3281 8.845942 ATGAATGAATGAATGACGTAAACATG 57.154 30.769 0.00 0.00 0.00 3.21
1606 3282 9.507280 GAATGAATGAATGAATGACGTAAACAT 57.493 29.630 0.00 0.00 0.00 2.71
1607 3283 7.967854 GGAATGAATGAATGAATGACGTAAACA 59.032 33.333 0.00 0.00 0.00 2.83
1608 3284 8.184192 AGGAATGAATGAATGAATGACGTAAAC 58.816 33.333 0.00 0.00 0.00 2.01
1618 3294 6.656902 ACTCTAGCAGGAATGAATGAATGAA 58.343 36.000 0.00 0.00 0.00 2.57
1619 3295 6.244552 ACTCTAGCAGGAATGAATGAATGA 57.755 37.500 0.00 0.00 0.00 2.57
1620 3296 7.440198 TCTACTCTAGCAGGAATGAATGAATG 58.560 38.462 0.00 0.00 0.00 2.67
1622 3298 7.423844 TTCTACTCTAGCAGGAATGAATGAA 57.576 36.000 0.00 0.00 0.00 2.57
1623 3299 7.609097 ATTCTACTCTAGCAGGAATGAATGA 57.391 36.000 0.00 0.00 0.00 2.57
1624 3300 8.557864 CAAATTCTACTCTAGCAGGAATGAATG 58.442 37.037 0.00 0.00 0.00 2.67
1700 4176 2.757314 TGCCAAATCGTGCCAAATATGA 59.243 40.909 0.00 0.00 0.00 2.15
1747 4673 3.818787 CATCGCAGCCCTGGCAAC 61.819 66.667 11.38 0.50 44.88 4.17
2178 5110 2.432628 CCTGGCCGACGACTTCAC 60.433 66.667 0.00 0.00 0.00 3.18
2189 5121 1.077429 GTCCAACATCCTCCTGGCC 60.077 63.158 0.00 0.00 0.00 5.36
2337 5529 4.821589 CGACCTCTCCGCCCAAGC 62.822 72.222 0.00 0.00 0.00 4.01
2345 5537 2.514824 GCCAATGGCGACCTCTCC 60.515 66.667 9.14 0.00 39.62 3.71
2354 5546 4.883354 CCTCTCCCCGCCAATGGC 62.883 72.222 15.52 15.52 46.75 4.40
2356 5548 3.089874 TCCCTCTCCCCGCCAATG 61.090 66.667 0.00 0.00 0.00 2.82
2357 5549 2.770048 CTCCCTCTCCCCGCCAAT 60.770 66.667 0.00 0.00 0.00 3.16
2362 5554 1.456705 CTCTTCCTCCCTCTCCCCG 60.457 68.421 0.00 0.00 0.00 5.73
2363 5555 1.074850 CCTCTTCCTCCCTCTCCCC 60.075 68.421 0.00 0.00 0.00 4.81
2364 5556 0.689412 CACCTCTTCCTCCCTCTCCC 60.689 65.000 0.00 0.00 0.00 4.30
2369 5561 2.285743 GCCCACCTCTTCCTCCCT 60.286 66.667 0.00 0.00 0.00 4.20


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

AutoCloner maintained by Alex Coulton.