Multiple sequence alignment - TraesCS7B01G090100

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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 TraesCS7B01G090100 chr7B 100.000 3779 0 0 1 3779 104477881 104474103 0.000000e+00 6979.0
1 TraesCS7B01G090100 chr7B 92.648 2013 105 14 1789 3778 104308128 104306136 0.000000e+00 2857.0
2 TraesCS7B01G090100 chr7B 92.629 719 40 3 1038 1749 104308849 104308137 0.000000e+00 1022.0
3 TraesCS7B01G090100 chr7B 90.909 55 3 2 821 873 104308891 104308837 5.240000e-09 73.1
4 TraesCS7B01G090100 chr7B 79.208 101 14 5 295 393 193716769 193716674 3.150000e-06 63.9
5 TraesCS7B01G090100 chr7B 100.000 29 0 0 296 324 84115147 84115175 2.000000e-03 54.7
6 TraesCS7B01G090100 chr7D 96.218 2882 84 7 920 3779 139094152 139091274 0.000000e+00 4695.0
7 TraesCS7B01G090100 chr7D 89.558 498 40 11 1 492 139095114 139094623 4.150000e-174 621.0
8 TraesCS7B01G090100 chr7D 77.532 316 58 11 532 843 55218133 55218439 1.080000e-40 178.0
9 TraesCS7B01G090100 chr7A 95.211 2443 76 6 920 3346 139128312 139125895 0.000000e+00 3825.0
10 TraesCS7B01G090100 chr7A 86.179 369 26 14 3418 3779 139125899 139125549 3.560000e-100 375.0
11 TraesCS7B01G090100 chr5D 79.101 378 72 6 532 907 508163413 508163785 1.740000e-63 254.0
12 TraesCS7B01G090100 chr5D 82.390 159 25 3 533 690 481938095 481937939 6.580000e-28 135.0
13 TraesCS7B01G090100 chr2B 76.280 371 68 17 532 892 738493326 738492966 3.000000e-41 180.0
14 TraesCS7B01G090100 chr2B 75.749 367 74 14 533 892 106206591 106206949 1.800000e-38 171.0
15 TraesCS7B01G090100 chr2B 97.059 34 0 1 294 327 39703919 39703951 5.270000e-04 56.5
16 TraesCS7B01G090100 chr5B 75.946 370 69 15 532 892 61158612 61158254 5.020000e-39 172.0
17 TraesCS7B01G090100 chr4D 75.287 348 73 12 532 874 28226404 28226743 1.820000e-33 154.0
18 TraesCS7B01G090100 chr3B 82.911 158 22 5 533 687 77704882 77705037 1.830000e-28 137.0
19 TraesCS7B01G090100 chr3B 82.468 154 24 3 533 684 668117555 668117403 8.520000e-27 132.0
20 TraesCS7B01G090100 chr4A 89.130 46 5 0 279 324 726069254 726069299 1.470000e-04 58.4
21 TraesCS7B01G090100 chr6D 97.059 34 0 1 295 327 457134506 457134539 5.270000e-04 56.5
22 TraesCS7B01G090100 chr6B 100.000 30 0 0 295 324 564655301 564655330 5.270000e-04 56.5
23 TraesCS7B01G090100 chr6A 82.090 67 11 1 297 362 53853229 53853163 5.270000e-04 56.5
24 TraesCS7B01G090100 chr5A 97.059 34 0 1 295 327 531486671 531486638 5.270000e-04 56.5


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 TraesCS7B01G090100 chr7B 104474103 104477881 3778 True 6979.000000 6979 100.000 1 3779 1 chr7B.!!$R1 3778
1 TraesCS7B01G090100 chr7B 104306136 104308891 2755 True 1317.366667 2857 92.062 821 3778 3 chr7B.!!$R3 2957
2 TraesCS7B01G090100 chr7D 139091274 139095114 3840 True 2658.000000 4695 92.888 1 3779 2 chr7D.!!$R1 3778
3 TraesCS7B01G090100 chr7A 139125549 139128312 2763 True 2100.000000 3825 90.695 920 3779 2 chr7A.!!$R1 2859

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
663 971 0.040204 ATTTGCTAGCTTGTGGGCCT 59.960 50.0 17.23 0.0 0.00 5.19 F
1087 1447 0.034059 CCTGACCACACTCTCACACC 59.966 60.0 0.00 0.0 0.00 4.16 F
1744 2117 0.599558 CTCGTTACAGGACGGGTTGA 59.400 55.0 0.00 0.0 42.98 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1524 1897 1.153353 TTTCATCGAACACCTTCCGC 58.847 50.000 0.0 0.0 0.00 5.54 R
2364 2737 1.200716 ACTTTCCGCACATCATTGCTG 59.799 47.619 0.0 0.0 40.62 4.41 R
3108 3497 1.318886 CCACACACACCTGGTTGCAA 61.319 55.000 0.0 0.0 0.00 4.08 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
24 25 4.927978 ATACATGAGCAGGAGTAGTGAC 57.072 45.455 0.00 0.00 0.00 3.67
62 63 7.596995 GGAGATATGAACCTCTTCGTAAATCTG 59.403 40.741 0.00 0.00 32.66 2.90
67 68 5.477291 TGAACCTCTTCGTAAATCTGTCTCT 59.523 40.000 0.00 0.00 0.00 3.10
74 75 7.434492 TCTTCGTAAATCTGTCTCTTGTTTCT 58.566 34.615 0.00 0.00 0.00 2.52
78 79 6.309251 CGTAAATCTGTCTCTTGTTTCTCCTC 59.691 42.308 0.00 0.00 0.00 3.71
96 98 1.141881 CTGACCTAATCGCCACGCT 59.858 57.895 0.00 0.00 0.00 5.07
147 149 4.625972 TCTTTTCCGACACACCTTTTTC 57.374 40.909 0.00 0.00 0.00 2.29
240 243 8.651391 TGAATTCATGGACATATTCAAATTGC 57.349 30.769 3.38 0.00 34.92 3.56
289 293 8.370940 TGGAATTCACAGGCATTTACAAAAATA 58.629 29.630 7.93 0.00 33.45 1.40
295 299 7.877097 TCACAGGCATTTACAAAAATAGCAAAT 59.123 29.630 0.00 0.00 33.45 2.32
340 344 4.702247 TTGAATTCGCGGACATATTACG 57.298 40.909 6.13 0.00 0.00 3.18
345 349 4.959631 TTCGCGGACATATTACGAATTC 57.040 40.909 6.13 0.00 37.78 2.17
351 355 5.107453 GCGGACATATTACGAATTCCTGAAG 60.107 44.000 0.00 0.00 0.00 3.02
432 438 7.606858 TTTTTCATTTTGTGCACATTTCTGA 57.393 28.000 22.39 17.33 0.00 3.27
433 439 7.789273 TTTTCATTTTGTGCACATTTCTGAT 57.211 28.000 22.39 5.89 0.00 2.90
435 441 8.883954 TTTCATTTTGTGCACATTTCTGATAA 57.116 26.923 22.39 6.28 0.00 1.75
441 447 3.125146 GTGCACATTTCTGATAAGCACGA 59.875 43.478 13.17 0.00 40.94 4.35
448 454 5.591643 TTTCTGATAAGCACGAACACTTC 57.408 39.130 0.00 0.00 0.00 3.01
452 458 6.631016 TCTGATAAGCACGAACACTTCTTAT 58.369 36.000 0.00 0.00 33.95 1.73
494 802 9.483062 GATATCACTGAAAACAAGAAATCGAAG 57.517 33.333 0.00 0.00 0.00 3.79
537 845 9.787435 AAAAAGACCGATATAACATATAGGCAA 57.213 29.630 5.52 0.00 0.00 4.52
538 846 9.787435 AAAAGACCGATATAACATATAGGCAAA 57.213 29.630 5.52 0.00 0.00 3.68
539 847 8.773404 AAGACCGATATAACATATAGGCAAAC 57.227 34.615 5.52 0.00 0.00 2.93
540 848 8.135382 AGACCGATATAACATATAGGCAAACT 57.865 34.615 5.52 0.00 0.00 2.66
541 849 8.251721 AGACCGATATAACATATAGGCAAACTC 58.748 37.037 5.52 0.00 0.00 3.01
542 850 7.903145 ACCGATATAACATATAGGCAAACTCA 58.097 34.615 5.52 0.00 0.00 3.41
543 851 7.817962 ACCGATATAACATATAGGCAAACTCAC 59.182 37.037 5.52 0.00 0.00 3.51
544 852 7.817478 CCGATATAACATATAGGCAAACTCACA 59.183 37.037 0.00 0.00 0.00 3.58
545 853 9.203421 CGATATAACATATAGGCAAACTCACAA 57.797 33.333 0.00 0.00 0.00 3.33
548 856 5.567138 ACATATAGGCAAACTCACAAAGC 57.433 39.130 0.00 0.00 0.00 3.51
549 857 5.256474 ACATATAGGCAAACTCACAAAGCT 58.744 37.500 0.00 0.00 0.00 3.74
550 858 5.711976 ACATATAGGCAAACTCACAAAGCTT 59.288 36.000 0.00 0.00 0.00 3.74
551 859 6.209391 ACATATAGGCAAACTCACAAAGCTTT 59.791 34.615 5.69 5.69 0.00 3.51
552 860 3.893326 AGGCAAACTCACAAAGCTTTT 57.107 38.095 9.53 0.00 0.00 2.27
553 861 6.648879 ATAGGCAAACTCACAAAGCTTTTA 57.351 33.333 9.53 0.00 0.00 1.52
554 862 5.535753 AGGCAAACTCACAAAGCTTTTAT 57.464 34.783 9.53 0.00 0.00 1.40
555 863 5.917462 AGGCAAACTCACAAAGCTTTTATT 58.083 33.333 9.53 0.00 0.00 1.40
556 864 5.985530 AGGCAAACTCACAAAGCTTTTATTC 59.014 36.000 9.53 0.00 0.00 1.75
557 865 5.752955 GGCAAACTCACAAAGCTTTTATTCA 59.247 36.000 9.53 0.00 0.00 2.57
558 866 6.257630 GGCAAACTCACAAAGCTTTTATTCAA 59.742 34.615 9.53 0.00 0.00 2.69
559 867 7.119360 GCAAACTCACAAAGCTTTTATTCAAC 58.881 34.615 9.53 0.00 0.00 3.18
560 868 7.621102 CAAACTCACAAAGCTTTTATTCAACC 58.379 34.615 9.53 0.00 0.00 3.77
561 869 5.519722 ACTCACAAAGCTTTTATTCAACCG 58.480 37.500 9.53 0.00 0.00 4.44
562 870 5.067283 ACTCACAAAGCTTTTATTCAACCGT 59.933 36.000 9.53 0.00 0.00 4.83
563 871 5.516090 TCACAAAGCTTTTATTCAACCGTC 58.484 37.500 9.53 0.00 0.00 4.79
564 872 4.679654 CACAAAGCTTTTATTCAACCGTCC 59.320 41.667 9.53 0.00 0.00 4.79
565 873 4.234574 CAAAGCTTTTATTCAACCGTCCC 58.765 43.478 9.53 0.00 0.00 4.46
566 874 3.149005 AGCTTTTATTCAACCGTCCCA 57.851 42.857 0.00 0.00 0.00 4.37
567 875 2.817844 AGCTTTTATTCAACCGTCCCAC 59.182 45.455 0.00 0.00 0.00 4.61
568 876 2.554893 GCTTTTATTCAACCGTCCCACA 59.445 45.455 0.00 0.00 0.00 4.17
569 877 3.365969 GCTTTTATTCAACCGTCCCACAG 60.366 47.826 0.00 0.00 0.00 3.66
570 878 3.495434 TTTATTCAACCGTCCCACAGT 57.505 42.857 0.00 0.00 0.00 3.55
571 879 3.495434 TTATTCAACCGTCCCACAGTT 57.505 42.857 0.00 0.00 0.00 3.16
572 880 2.358322 ATTCAACCGTCCCACAGTTT 57.642 45.000 0.00 0.00 0.00 2.66
573 881 3.495434 ATTCAACCGTCCCACAGTTTA 57.505 42.857 0.00 0.00 0.00 2.01
574 882 2.536761 TCAACCGTCCCACAGTTTAG 57.463 50.000 0.00 0.00 0.00 1.85
575 883 2.040939 TCAACCGTCCCACAGTTTAGA 58.959 47.619 0.00 0.00 0.00 2.10
576 884 2.036733 TCAACCGTCCCACAGTTTAGAG 59.963 50.000 0.00 0.00 0.00 2.43
577 885 0.974383 ACCGTCCCACAGTTTAGAGG 59.026 55.000 0.00 0.00 0.00 3.69
578 886 1.263356 CCGTCCCACAGTTTAGAGGA 58.737 55.000 0.00 0.00 0.00 3.71
579 887 1.067071 CCGTCCCACAGTTTAGAGGAC 60.067 57.143 0.00 0.00 42.94 3.85
580 888 2.365408 GTCCCACAGTTTAGAGGACG 57.635 55.000 0.00 0.00 37.83 4.79
581 889 1.891150 GTCCCACAGTTTAGAGGACGA 59.109 52.381 0.00 0.00 37.83 4.20
582 890 2.298163 GTCCCACAGTTTAGAGGACGAA 59.702 50.000 0.00 0.00 37.83 3.85
583 891 2.967201 TCCCACAGTTTAGAGGACGAAA 59.033 45.455 0.00 0.00 0.00 3.46
584 892 3.388676 TCCCACAGTTTAGAGGACGAAAA 59.611 43.478 0.00 0.00 0.00 2.29
585 893 4.131596 CCCACAGTTTAGAGGACGAAAAA 58.868 43.478 0.00 0.00 0.00 1.94
619 927 1.510844 GGCCTAACCAAACATGGCG 59.489 57.895 0.00 0.00 44.07 5.69
620 928 1.510844 GCCTAACCAAACATGGCGG 59.489 57.895 0.00 0.00 33.96 6.13
621 929 1.510844 CCTAACCAAACATGGCGGC 59.489 57.895 0.00 0.00 0.00 6.53
622 930 1.510844 CTAACCAAACATGGCGGCC 59.489 57.895 13.32 13.32 0.00 6.13
623 931 2.265073 CTAACCAAACATGGCGGCCG 62.265 60.000 24.05 24.05 0.00 6.13
626 934 4.114997 CAAACATGGCGGCCGGTC 62.115 66.667 29.38 11.26 0.00 4.79
635 943 2.838225 CGGCCGGTCCCTAGTCAT 60.838 66.667 20.10 0.00 0.00 3.06
636 944 1.529948 CGGCCGGTCCCTAGTCATA 60.530 63.158 20.10 0.00 0.00 2.15
637 945 1.111116 CGGCCGGTCCCTAGTCATAA 61.111 60.000 20.10 0.00 0.00 1.90
638 946 1.349067 GGCCGGTCCCTAGTCATAAT 58.651 55.000 1.90 0.00 0.00 1.28
639 947 1.002087 GGCCGGTCCCTAGTCATAATG 59.998 57.143 1.90 0.00 0.00 1.90
640 948 1.692519 GCCGGTCCCTAGTCATAATGT 59.307 52.381 1.90 0.00 0.00 2.71
641 949 2.895404 GCCGGTCCCTAGTCATAATGTA 59.105 50.000 1.90 0.00 0.00 2.29
642 950 3.514309 GCCGGTCCCTAGTCATAATGTAT 59.486 47.826 1.90 0.00 0.00 2.29
643 951 4.620803 GCCGGTCCCTAGTCATAATGTATG 60.621 50.000 1.90 0.00 37.52 2.39
644 952 4.770531 CCGGTCCCTAGTCATAATGTATGA 59.229 45.833 0.00 0.00 42.56 2.15
645 953 5.422331 CCGGTCCCTAGTCATAATGTATGAT 59.578 44.000 0.00 0.00 45.96 2.45
646 954 6.070767 CCGGTCCCTAGTCATAATGTATGATT 60.071 42.308 0.00 0.67 45.96 2.57
647 955 7.386851 CGGTCCCTAGTCATAATGTATGATTT 58.613 38.462 1.51 0.00 45.96 2.17
648 956 7.331934 CGGTCCCTAGTCATAATGTATGATTTG 59.668 40.741 1.51 0.00 45.96 2.32
649 957 7.119846 GGTCCCTAGTCATAATGTATGATTTGC 59.880 40.741 1.51 0.00 45.96 3.68
650 958 7.880195 GTCCCTAGTCATAATGTATGATTTGCT 59.120 37.037 1.51 0.00 45.96 3.91
651 959 9.100197 TCCCTAGTCATAATGTATGATTTGCTA 57.900 33.333 1.51 0.00 45.96 3.49
652 960 9.376075 CCCTAGTCATAATGTATGATTTGCTAG 57.624 37.037 1.51 7.21 45.96 3.42
653 961 8.877779 CCTAGTCATAATGTATGATTTGCTAGC 58.122 37.037 8.10 8.10 45.96 3.42
654 962 9.650539 CTAGTCATAATGTATGATTTGCTAGCT 57.349 33.333 17.23 0.00 45.96 3.32
655 963 8.915057 AGTCATAATGTATGATTTGCTAGCTT 57.085 30.769 17.23 0.21 45.96 3.74
656 964 8.781196 AGTCATAATGTATGATTTGCTAGCTTG 58.219 33.333 17.23 0.00 45.96 4.01
657 965 8.562892 GTCATAATGTATGATTTGCTAGCTTGT 58.437 33.333 17.23 0.80 45.96 3.16
658 966 8.562052 TCATAATGTATGATTTGCTAGCTTGTG 58.438 33.333 17.23 6.38 40.09 3.33
659 967 5.762825 ATGTATGATTTGCTAGCTTGTGG 57.237 39.130 17.23 0.00 0.00 4.17
660 968 3.947196 TGTATGATTTGCTAGCTTGTGGG 59.053 43.478 17.23 0.00 0.00 4.61
661 969 1.176527 TGATTTGCTAGCTTGTGGGC 58.823 50.000 17.23 0.00 0.00 5.36
662 970 0.457443 GATTTGCTAGCTTGTGGGCC 59.543 55.000 17.23 0.00 0.00 5.80
663 971 0.040204 ATTTGCTAGCTTGTGGGCCT 59.960 50.000 17.23 0.00 0.00 5.19
664 972 0.609131 TTTGCTAGCTTGTGGGCCTC 60.609 55.000 17.23 0.49 0.00 4.70
665 973 1.492133 TTGCTAGCTTGTGGGCCTCT 61.492 55.000 17.23 0.00 0.00 3.69
666 974 0.617535 TGCTAGCTTGTGGGCCTCTA 60.618 55.000 17.23 0.00 0.00 2.43
667 975 0.761802 GCTAGCTTGTGGGCCTCTAT 59.238 55.000 7.70 0.00 0.00 1.98
668 976 1.971357 GCTAGCTTGTGGGCCTCTATA 59.029 52.381 7.70 0.00 0.00 1.31
669 977 2.569404 GCTAGCTTGTGGGCCTCTATAT 59.431 50.000 7.70 0.00 0.00 0.86
670 978 3.008485 GCTAGCTTGTGGGCCTCTATATT 59.992 47.826 7.70 0.00 0.00 1.28
671 979 3.778954 AGCTTGTGGGCCTCTATATTC 57.221 47.619 4.53 0.00 0.00 1.75
672 980 2.037772 AGCTTGTGGGCCTCTATATTCG 59.962 50.000 4.53 0.00 0.00 3.34
673 981 2.037251 GCTTGTGGGCCTCTATATTCGA 59.963 50.000 4.53 0.00 0.00 3.71
674 982 3.862642 GCTTGTGGGCCTCTATATTCGAG 60.863 52.174 4.53 0.00 0.00 4.04
686 994 8.167605 CCTCTATATTCGAGGTTCTAAACTCA 57.832 38.462 8.41 0.00 42.47 3.41
687 995 8.077386 CCTCTATATTCGAGGTTCTAAACTCAC 58.923 40.741 8.41 0.00 42.47 3.51
688 996 7.637229 TCTATATTCGAGGTTCTAAACTCACG 58.363 38.462 8.41 0.00 33.36 4.35
722 1030 7.814264 ATGCAGGAAATAAAAGACCTAGATG 57.186 36.000 0.00 0.00 0.00 2.90
723 1031 6.957631 TGCAGGAAATAAAAGACCTAGATGA 58.042 36.000 0.00 0.00 0.00 2.92
724 1032 6.823689 TGCAGGAAATAAAAGACCTAGATGAC 59.176 38.462 0.00 0.00 0.00 3.06
725 1033 7.051000 GCAGGAAATAAAAGACCTAGATGACT 58.949 38.462 0.00 0.00 0.00 3.41
726 1034 7.225734 GCAGGAAATAAAAGACCTAGATGACTC 59.774 40.741 0.00 0.00 0.00 3.36
727 1035 7.713073 CAGGAAATAAAAGACCTAGATGACTCC 59.287 40.741 0.00 0.00 0.00 3.85
728 1036 7.625682 AGGAAATAAAAGACCTAGATGACTCCT 59.374 37.037 0.00 0.00 0.00 3.69
729 1037 8.268605 GGAAATAAAAGACCTAGATGACTCCTT 58.731 37.037 0.00 0.00 0.00 3.36
735 1043 7.833285 AAGACCTAGATGACTCCTTAATCTC 57.167 40.000 0.00 0.00 32.92 2.75
736 1044 6.916909 AGACCTAGATGACTCCTTAATCTCA 58.083 40.000 0.00 0.00 32.92 3.27
737 1045 7.358263 AGACCTAGATGACTCCTTAATCTCAA 58.642 38.462 0.00 0.00 32.92 3.02
738 1046 7.505585 AGACCTAGATGACTCCTTAATCTCAAG 59.494 40.741 0.00 0.00 32.92 3.02
739 1047 6.041523 ACCTAGATGACTCCTTAATCTCAAGC 59.958 42.308 0.00 0.00 32.92 4.01
741 1049 5.669477 AGATGACTCCTTAATCTCAAGCAC 58.331 41.667 0.00 0.00 0.00 4.40
743 1051 5.227569 TGACTCCTTAATCTCAAGCACAA 57.772 39.130 0.00 0.00 0.00 3.33
744 1052 4.997395 TGACTCCTTAATCTCAAGCACAAC 59.003 41.667 0.00 0.00 0.00 3.32
745 1053 5.221722 TGACTCCTTAATCTCAAGCACAACT 60.222 40.000 0.00 0.00 0.00 3.16
746 1054 4.999950 ACTCCTTAATCTCAAGCACAACTG 59.000 41.667 0.00 0.00 0.00 3.16
747 1055 3.753272 TCCTTAATCTCAAGCACAACTGC 59.247 43.478 0.00 0.00 44.63 4.40
758 1066 3.687572 GCACAACTGCTCCATAAGATG 57.312 47.619 0.00 0.00 40.63 2.90
759 1067 3.273434 GCACAACTGCTCCATAAGATGA 58.727 45.455 0.00 0.00 40.63 2.92
760 1068 3.691118 GCACAACTGCTCCATAAGATGAA 59.309 43.478 0.00 0.00 40.63 2.57
761 1069 4.201891 GCACAACTGCTCCATAAGATGAAG 60.202 45.833 0.00 0.00 40.63 3.02
762 1070 5.181009 CACAACTGCTCCATAAGATGAAGA 58.819 41.667 0.00 0.00 0.00 2.87
763 1071 5.293814 CACAACTGCTCCATAAGATGAAGAG 59.706 44.000 0.00 0.00 0.00 2.85
764 1072 4.686191 ACTGCTCCATAAGATGAAGAGG 57.314 45.455 0.00 0.00 0.00 3.69
765 1073 4.036518 ACTGCTCCATAAGATGAAGAGGT 58.963 43.478 0.00 0.00 0.00 3.85
766 1074 4.472833 ACTGCTCCATAAGATGAAGAGGTT 59.527 41.667 0.00 0.00 0.00 3.50
767 1075 5.028549 TGCTCCATAAGATGAAGAGGTTC 57.971 43.478 0.00 0.00 0.00 3.62
768 1076 4.141620 TGCTCCATAAGATGAAGAGGTTCC 60.142 45.833 0.00 0.00 0.00 3.62
769 1077 4.745172 GCTCCATAAGATGAAGAGGTTCCC 60.745 50.000 0.00 0.00 0.00 3.97
770 1078 4.635473 TCCATAAGATGAAGAGGTTCCCT 58.365 43.478 0.00 0.00 36.03 4.20
771 1079 5.039645 TCCATAAGATGAAGAGGTTCCCTT 58.960 41.667 0.00 0.00 31.76 3.95
772 1080 5.492524 TCCATAAGATGAAGAGGTTCCCTTT 59.507 40.000 0.00 0.00 31.76 3.11
773 1081 5.825151 CCATAAGATGAAGAGGTTCCCTTTC 59.175 44.000 0.00 0.00 31.76 2.62
774 1082 6.353429 CCATAAGATGAAGAGGTTCCCTTTCT 60.353 42.308 0.00 0.00 31.76 2.52
775 1083 5.590976 AAGATGAAGAGGTTCCCTTTCTT 57.409 39.130 0.00 0.00 31.76 2.52
776 1084 5.172687 AGATGAAGAGGTTCCCTTTCTTC 57.827 43.478 10.47 10.47 44.39 2.87
777 1085 4.849235 AGATGAAGAGGTTCCCTTTCTTCT 59.151 41.667 15.40 13.48 44.43 2.85
778 1086 5.311913 AGATGAAGAGGTTCCCTTTCTTCTT 59.688 40.000 15.40 11.34 44.43 2.52
779 1087 4.718961 TGAAGAGGTTCCCTTTCTTCTTG 58.281 43.478 15.40 0.00 44.43 3.02
780 1088 3.147553 AGAGGTTCCCTTTCTTCTTGC 57.852 47.619 0.00 0.00 31.76 4.01
781 1089 2.713708 AGAGGTTCCCTTTCTTCTTGCT 59.286 45.455 0.00 0.00 31.76 3.91
782 1090 3.139211 AGAGGTTCCCTTTCTTCTTGCTT 59.861 43.478 0.00 0.00 31.76 3.91
783 1091 3.491342 AGGTTCCCTTTCTTCTTGCTTC 58.509 45.455 0.00 0.00 0.00 3.86
784 1092 3.139211 AGGTTCCCTTTCTTCTTGCTTCT 59.861 43.478 0.00 0.00 0.00 2.85
785 1093 4.351111 AGGTTCCCTTTCTTCTTGCTTCTA 59.649 41.667 0.00 0.00 0.00 2.10
786 1094 4.456222 GGTTCCCTTTCTTCTTGCTTCTAC 59.544 45.833 0.00 0.00 0.00 2.59
787 1095 4.287766 TCCCTTTCTTCTTGCTTCTACC 57.712 45.455 0.00 0.00 0.00 3.18
788 1096 3.003480 CCCTTTCTTCTTGCTTCTACCG 58.997 50.000 0.00 0.00 0.00 4.02
789 1097 2.416893 CCTTTCTTCTTGCTTCTACCGC 59.583 50.000 0.00 0.00 0.00 5.68
790 1098 2.831685 TTCTTCTTGCTTCTACCGCA 57.168 45.000 0.00 0.00 35.22 5.69
791 1099 3.334583 TTCTTCTTGCTTCTACCGCAT 57.665 42.857 0.00 0.00 37.22 4.73
792 1100 3.334583 TCTTCTTGCTTCTACCGCATT 57.665 42.857 0.00 0.00 37.22 3.56
793 1101 3.262420 TCTTCTTGCTTCTACCGCATTC 58.738 45.455 0.00 0.00 37.22 2.67
794 1102 3.055819 TCTTCTTGCTTCTACCGCATTCT 60.056 43.478 0.00 0.00 37.22 2.40
795 1103 3.334583 TCTTGCTTCTACCGCATTCTT 57.665 42.857 0.00 0.00 37.22 2.52
796 1104 3.002791 TCTTGCTTCTACCGCATTCTTG 58.997 45.455 0.00 0.00 37.22 3.02
797 1105 1.086696 TGCTTCTACCGCATTCTTGC 58.913 50.000 0.00 0.00 45.78 4.01
808 1116 2.129823 CATTCTTGCAATCCGATGCC 57.870 50.000 0.00 0.00 45.83 4.40
809 1117 1.406180 CATTCTTGCAATCCGATGCCA 59.594 47.619 0.00 0.00 45.83 4.92
810 1118 0.810648 TTCTTGCAATCCGATGCCAC 59.189 50.000 0.00 0.00 45.83 5.01
811 1119 1.031571 TCTTGCAATCCGATGCCACC 61.032 55.000 0.00 0.00 45.83 4.61
812 1120 2.327002 CTTGCAATCCGATGCCACCG 62.327 60.000 0.00 0.00 45.83 4.94
813 1121 2.513666 GCAATCCGATGCCACCGA 60.514 61.111 0.00 0.00 40.49 4.69
814 1122 2.537560 GCAATCCGATGCCACCGAG 61.538 63.158 0.00 0.00 40.49 4.63
815 1123 1.143838 CAATCCGATGCCACCGAGA 59.856 57.895 0.00 0.00 0.00 4.04
816 1124 1.144057 AATCCGATGCCACCGAGAC 59.856 57.895 0.00 0.00 0.00 3.36
817 1125 1.330655 AATCCGATGCCACCGAGACT 61.331 55.000 0.00 0.00 0.00 3.24
818 1126 1.330655 ATCCGATGCCACCGAGACTT 61.331 55.000 0.00 0.00 0.00 3.01
819 1127 1.079127 CCGATGCCACCGAGACTTT 60.079 57.895 0.00 0.00 0.00 2.66
825 1133 1.202758 TGCCACCGAGACTTTGTGAAT 60.203 47.619 6.83 0.00 31.66 2.57
864 1172 1.427435 GCAATAGCCTCTCTGATCGC 58.573 55.000 0.00 0.00 33.58 4.58
865 1173 1.938926 GCAATAGCCTCTCTGATCGCC 60.939 57.143 0.00 0.00 33.58 5.54
866 1174 1.342496 CAATAGCCTCTCTGATCGCCA 59.658 52.381 0.00 0.00 0.00 5.69
867 1175 1.255882 ATAGCCTCTCTGATCGCCAG 58.744 55.000 0.00 0.00 44.27 4.85
868 1176 1.459455 TAGCCTCTCTGATCGCCAGC 61.459 60.000 0.53 0.00 42.62 4.85
869 1177 3.086391 GCCTCTCTGATCGCCAGCA 62.086 63.158 0.00 0.00 42.62 4.41
870 1178 1.227205 CCTCTCTGATCGCCAGCAC 60.227 63.158 0.00 0.00 42.62 4.40
871 1179 1.674764 CCTCTCTGATCGCCAGCACT 61.675 60.000 0.00 0.00 42.62 4.40
872 1180 0.175302 CTCTCTGATCGCCAGCACTT 59.825 55.000 0.00 0.00 42.62 3.16
873 1181 0.174389 TCTCTGATCGCCAGCACTTC 59.826 55.000 0.00 0.00 42.62 3.01
874 1182 0.809241 CTCTGATCGCCAGCACTTCC 60.809 60.000 0.00 0.00 42.62 3.46
875 1183 1.078918 CTGATCGCCAGCACTTCCA 60.079 57.895 0.00 0.00 35.89 3.53
876 1184 1.078918 TGATCGCCAGCACTTCCAG 60.079 57.895 0.00 0.00 0.00 3.86
877 1185 1.219124 GATCGCCAGCACTTCCAGA 59.781 57.895 0.00 0.00 0.00 3.86
878 1186 0.809241 GATCGCCAGCACTTCCAGAG 60.809 60.000 0.00 0.00 0.00 3.35
879 1187 1.548357 ATCGCCAGCACTTCCAGAGT 61.548 55.000 0.00 0.00 39.89 3.24
880 1188 1.739562 CGCCAGCACTTCCAGAGTC 60.740 63.158 0.00 0.00 36.10 3.36
881 1189 1.676384 GCCAGCACTTCCAGAGTCT 59.324 57.895 0.00 0.00 36.10 3.24
882 1190 0.390998 GCCAGCACTTCCAGAGTCTC 60.391 60.000 0.00 0.00 36.10 3.36
883 1191 0.248843 CCAGCACTTCCAGAGTCTCC 59.751 60.000 0.00 0.00 36.10 3.71
884 1192 0.108898 CAGCACTTCCAGAGTCTCCG 60.109 60.000 0.00 0.00 36.10 4.63
885 1193 1.216710 GCACTTCCAGAGTCTCCGG 59.783 63.158 0.00 0.00 36.10 5.14
886 1194 1.893786 CACTTCCAGAGTCTCCGGG 59.106 63.158 0.00 2.26 36.10 5.73
887 1195 0.900647 CACTTCCAGAGTCTCCGGGT 60.901 60.000 0.00 0.00 36.10 5.28
888 1196 0.612453 ACTTCCAGAGTCTCCGGGTC 60.612 60.000 0.00 0.00 31.20 4.46
889 1197 0.323908 CTTCCAGAGTCTCCGGGTCT 60.324 60.000 0.00 0.00 0.00 3.85
890 1198 0.114560 TTCCAGAGTCTCCGGGTCTT 59.885 55.000 0.00 0.00 0.00 3.01
891 1199 0.323542 TCCAGAGTCTCCGGGTCTTC 60.324 60.000 0.00 0.00 0.00 2.87
892 1200 0.323908 CCAGAGTCTCCGGGTCTTCT 60.324 60.000 0.00 0.00 0.00 2.85
893 1201 0.814457 CAGAGTCTCCGGGTCTTCTG 59.186 60.000 0.00 7.07 0.00 3.02
894 1202 0.406361 AGAGTCTCCGGGTCTTCTGT 59.594 55.000 0.00 0.00 0.00 3.41
895 1203 1.634459 AGAGTCTCCGGGTCTTCTGTA 59.366 52.381 0.00 0.00 0.00 2.74
896 1204 2.242708 AGAGTCTCCGGGTCTTCTGTAT 59.757 50.000 0.00 0.00 0.00 2.29
897 1205 3.025262 GAGTCTCCGGGTCTTCTGTATT 58.975 50.000 0.00 0.00 0.00 1.89
898 1206 3.442076 AGTCTCCGGGTCTTCTGTATTT 58.558 45.455 0.00 0.00 0.00 1.40
909 1217 7.043656 CGGGTCTTCTGTATTTTTGAACAAAAC 60.044 37.037 11.46 3.60 39.70 2.43
910 1218 7.223971 GGGTCTTCTGTATTTTTGAACAAAACC 59.776 37.037 11.46 6.95 39.70 3.27
911 1219 7.762159 GGTCTTCTGTATTTTTGAACAAAACCA 59.238 33.333 11.46 8.40 39.70 3.67
914 1222 9.971744 CTTCTGTATTTTTGAACAAAACCAAAG 57.028 29.630 11.46 7.65 39.70 2.77
915 1223 9.712305 TTCTGTATTTTTGAACAAAACCAAAGA 57.288 25.926 11.46 9.40 39.70 2.52
916 1224 9.364989 TCTGTATTTTTGAACAAAACCAAAGAG 57.635 29.630 11.46 6.57 39.70 2.85
918 1226 9.145865 TGTATTTTTGAACAAAACCAAAGAGAC 57.854 29.630 11.46 5.47 39.70 3.36
1087 1447 0.034059 CCTGACCACACTCTCACACC 59.966 60.000 0.00 0.00 0.00 4.16
1497 1870 1.863880 CACGCTGCTCGACTCGTAC 60.864 63.158 5.98 0.00 41.67 3.67
1635 2008 0.607489 CCCTGAAGCTGTTCCACAGG 60.607 60.000 6.05 0.00 46.01 4.00
1744 2117 0.599558 CTCGTTACAGGACGGGTTGA 59.400 55.000 0.00 0.00 42.98 3.18
2121 2494 3.056328 GTGGACCTTCTTGGCCGC 61.056 66.667 0.00 0.00 40.22 6.53
2364 2737 1.215655 GAGTCCGTGATACCATGCGC 61.216 60.000 0.00 0.00 0.00 6.09
2498 2871 3.188460 GCGCTAGAGGAAATTGTGTCAAA 59.812 43.478 0.00 0.00 0.00 2.69
2664 3053 1.450312 CCGAATCTGTGGGGACTGC 60.450 63.158 0.00 0.00 0.00 4.40
2817 3206 2.785269 TGATTTACAGGGGCTGATGGAT 59.215 45.455 0.00 0.00 35.18 3.41
2865 3254 4.003648 GGATCAACAGACTACAGGTTTGG 58.996 47.826 0.00 0.00 34.75 3.28
2866 3255 4.505039 GGATCAACAGACTACAGGTTTGGT 60.505 45.833 0.00 0.00 34.75 3.67
2964 3353 1.242076 CTCAACCCCACAAGCTTGAG 58.758 55.000 32.50 24.08 35.12 3.02
3005 3394 7.497579 TGTGTTACTACATGAGTGTTCACAATT 59.502 33.333 0.00 0.00 39.26 2.32
3020 3409 7.862372 GTGTTCACAATTCATCAAAGTGTATGT 59.138 33.333 0.00 0.00 43.91 2.29
3108 3497 9.680315 GCGTTATTCTAGTGTGTTATTAGAGAT 57.320 33.333 0.00 0.00 30.43 2.75
3161 3550 5.174037 TGATATTTTTCCGTTCTGGGAGT 57.826 39.130 0.00 0.00 37.40 3.85
3227 3616 3.244561 TGCTTTCTAGTTCCTCCCAACAG 60.245 47.826 0.00 0.00 0.00 3.16
3310 3700 7.500227 TCATCTGATATCAAAATGTCCAACCTC 59.500 37.037 19.63 0.00 0.00 3.85
3311 3701 5.817296 TCTGATATCAAAATGTCCAACCTCG 59.183 40.000 6.90 0.00 0.00 4.63
3470 3865 6.127083 ACCTTTTGCTTCTTTCTCCATTTTGA 60.127 34.615 0.00 0.00 0.00 2.69
3481 3876 2.624838 CTCCATTTTGACCTGCACAGTT 59.375 45.455 0.00 0.00 0.00 3.16
3536 3932 6.609237 TTTCTCAGAAATGTCACTGTTGAG 57.391 37.500 0.00 0.00 35.84 3.02
3598 3994 6.680810 TGAGTTTTCACTATGCAAAATGGAG 58.319 36.000 0.00 0.00 31.22 3.86
3599 3995 5.473039 AGTTTTCACTATGCAAAATGGAGC 58.527 37.500 0.00 0.00 0.00 4.70
3600 3996 3.763097 TTCACTATGCAAAATGGAGCG 57.237 42.857 0.00 0.00 0.00 5.03
3729 4128 9.535170 TTATTTTTCCTATGTATGTTCCAACCA 57.465 29.630 0.00 0.00 0.00 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 3.497332 TCATATCTCCTTACGGGGTGAG 58.503 50.000 0.00 0.00 33.26 3.51
30 31 5.563085 CGAAGAGGTTCATATCTCCTTACGG 60.563 48.000 0.00 0.00 32.36 4.02
41 42 7.339721 AGAGACAGATTTACGAAGAGGTTCATA 59.660 37.037 0.00 0.00 32.36 2.15
42 43 6.153680 AGAGACAGATTTACGAAGAGGTTCAT 59.846 38.462 0.00 0.00 32.36 2.57
48 49 7.596995 AGAAACAAGAGACAGATTTACGAAGAG 59.403 37.037 0.00 0.00 0.00 2.85
49 50 7.434492 AGAAACAAGAGACAGATTTACGAAGA 58.566 34.615 0.00 0.00 0.00 2.87
52 53 6.015350 AGGAGAAACAAGAGACAGATTTACGA 60.015 38.462 0.00 0.00 0.00 3.43
62 63 3.576550 AGGTCAGAGGAGAAACAAGAGAC 59.423 47.826 0.00 0.00 0.00 3.36
67 68 4.620803 GCGATTAGGTCAGAGGAGAAACAA 60.621 45.833 0.00 0.00 0.00 2.83
74 75 1.112113 GTGGCGATTAGGTCAGAGGA 58.888 55.000 0.00 0.00 0.00 3.71
78 79 1.141881 AGCGTGGCGATTAGGTCAG 59.858 57.895 0.00 0.00 0.00 3.51
109 111 2.461300 AGATTCCGACAGATCCCTCA 57.539 50.000 0.00 0.00 0.00 3.86
263 267 5.798125 TTTGTAAATGCCTGTGAATTCCA 57.202 34.783 2.27 0.00 0.00 3.53
264 268 7.671495 ATTTTTGTAAATGCCTGTGAATTCC 57.329 32.000 2.27 0.00 32.79 3.01
327 331 4.304110 TCAGGAATTCGTAATATGTCCGC 58.696 43.478 0.00 0.00 0.00 5.54
328 332 6.213677 TCTTCAGGAATTCGTAATATGTCCG 58.786 40.000 0.00 0.00 0.00 4.79
399 404 7.065443 TGTGCACAAAATGAAAAATTGATCACA 59.935 29.630 19.28 0.00 37.42 3.58
472 478 5.588648 ACCTTCGATTTCTTGTTTTCAGTGA 59.411 36.000 0.00 0.00 0.00 3.41
522 830 8.836413 GCTTTGTGAGTTTGCCTATATGTTATA 58.164 33.333 0.00 0.00 0.00 0.98
526 834 5.256474 AGCTTTGTGAGTTTGCCTATATGT 58.744 37.500 0.00 0.00 0.00 2.29
527 835 5.824904 AGCTTTGTGAGTTTGCCTATATG 57.175 39.130 0.00 0.00 0.00 1.78
528 836 6.840780 AAAGCTTTGTGAGTTTGCCTATAT 57.159 33.333 11.80 0.00 0.00 0.86
529 837 6.648879 AAAAGCTTTGTGAGTTTGCCTATA 57.351 33.333 13.54 0.00 0.00 1.31
530 838 5.535753 AAAAGCTTTGTGAGTTTGCCTAT 57.464 34.783 13.54 0.00 0.00 2.57
532 840 3.893326 AAAAGCTTTGTGAGTTTGCCT 57.107 38.095 13.54 0.00 0.00 4.75
533 841 5.752955 TGAATAAAAGCTTTGTGAGTTTGCC 59.247 36.000 13.54 0.00 0.00 4.52
534 842 6.826893 TGAATAAAAGCTTTGTGAGTTTGC 57.173 33.333 13.54 0.00 0.00 3.68
535 843 7.515059 CGGTTGAATAAAAGCTTTGTGAGTTTG 60.515 37.037 13.54 0.00 0.00 2.93
536 844 6.475402 CGGTTGAATAAAAGCTTTGTGAGTTT 59.525 34.615 13.54 0.00 0.00 2.66
537 845 5.977129 CGGTTGAATAAAAGCTTTGTGAGTT 59.023 36.000 13.54 3.67 0.00 3.01
538 846 5.067283 ACGGTTGAATAAAAGCTTTGTGAGT 59.933 36.000 13.54 0.28 0.00 3.41
539 847 5.519722 ACGGTTGAATAAAAGCTTTGTGAG 58.480 37.500 13.54 0.86 0.00 3.51
540 848 5.506649 GGACGGTTGAATAAAAGCTTTGTGA 60.507 40.000 13.54 1.60 0.00 3.58
541 849 4.679654 GGACGGTTGAATAAAAGCTTTGTG 59.320 41.667 13.54 0.00 0.00 3.33
542 850 4.261867 GGGACGGTTGAATAAAAGCTTTGT 60.262 41.667 13.54 2.41 0.00 2.83
543 851 4.234574 GGGACGGTTGAATAAAAGCTTTG 58.765 43.478 13.54 0.00 0.00 2.77
544 852 3.892588 TGGGACGGTTGAATAAAAGCTTT 59.107 39.130 5.69 5.69 0.00 3.51
545 853 3.254903 GTGGGACGGTTGAATAAAAGCTT 59.745 43.478 0.00 0.00 0.00 3.74
546 854 2.817844 GTGGGACGGTTGAATAAAAGCT 59.182 45.455 0.00 0.00 0.00 3.74
547 855 2.554893 TGTGGGACGGTTGAATAAAAGC 59.445 45.455 0.00 0.00 0.00 3.51
548 856 3.818773 ACTGTGGGACGGTTGAATAAAAG 59.181 43.478 0.00 0.00 32.95 2.27
549 857 3.822940 ACTGTGGGACGGTTGAATAAAA 58.177 40.909 0.00 0.00 32.95 1.52
550 858 3.495434 ACTGTGGGACGGTTGAATAAA 57.505 42.857 0.00 0.00 32.95 1.40
551 859 3.495434 AACTGTGGGACGGTTGAATAA 57.505 42.857 0.08 0.00 45.28 1.40
552 860 3.495434 AAACTGTGGGACGGTTGAATA 57.505 42.857 1.75 0.00 46.22 1.75
553 861 2.358322 AAACTGTGGGACGGTTGAAT 57.642 45.000 1.75 0.00 46.22 2.57
554 862 2.435069 TCTAAACTGTGGGACGGTTGAA 59.565 45.455 1.75 0.00 46.22 2.69
555 863 2.036733 CTCTAAACTGTGGGACGGTTGA 59.963 50.000 1.75 0.00 46.22 3.18
556 864 2.413837 CTCTAAACTGTGGGACGGTTG 58.586 52.381 1.75 0.00 46.22 3.77
558 866 0.974383 CCTCTAAACTGTGGGACGGT 59.026 55.000 0.00 0.00 39.91 4.83
559 867 1.067071 GTCCTCTAAACTGTGGGACGG 60.067 57.143 0.00 0.00 37.34 4.79
560 868 2.365408 GTCCTCTAAACTGTGGGACG 57.635 55.000 0.00 0.00 37.34 4.79
561 869 1.891150 TCGTCCTCTAAACTGTGGGAC 59.109 52.381 0.00 0.00 41.92 4.46
562 870 2.297698 TCGTCCTCTAAACTGTGGGA 57.702 50.000 0.00 0.00 0.00 4.37
563 871 3.396260 TTTCGTCCTCTAAACTGTGGG 57.604 47.619 0.00 0.00 0.00 4.61
600 908 1.247419 CGCCATGTTTGGTTAGGCCA 61.247 55.000 5.01 0.00 45.57 5.36
601 909 1.510844 CGCCATGTTTGGTTAGGCC 59.489 57.895 0.00 0.00 45.57 5.19
602 910 1.510844 CCGCCATGTTTGGTTAGGC 59.489 57.895 0.00 0.00 45.57 3.93
603 911 1.510844 GCCGCCATGTTTGGTTAGG 59.489 57.895 0.00 0.00 45.57 2.69
604 912 1.510844 GGCCGCCATGTTTGGTTAG 59.489 57.895 3.91 0.00 45.57 2.34
605 913 2.336478 CGGCCGCCATGTTTGGTTA 61.336 57.895 14.67 0.00 45.57 2.85
606 914 3.679738 CGGCCGCCATGTTTGGTT 61.680 61.111 14.67 0.00 45.57 3.67
609 917 4.114997 GACCGGCCGCCATGTTTG 62.115 66.667 22.85 5.83 0.00 2.93
618 926 1.111116 TTATGACTAGGGACCGGCCG 61.111 60.000 21.04 21.04 37.63 6.13
619 927 1.002087 CATTATGACTAGGGACCGGCC 59.998 57.143 0.00 3.33 0.00 6.13
620 928 1.692519 ACATTATGACTAGGGACCGGC 59.307 52.381 0.00 0.00 0.00 6.13
621 929 4.770531 TCATACATTATGACTAGGGACCGG 59.229 45.833 0.00 0.00 40.09 5.28
622 930 5.977489 TCATACATTATGACTAGGGACCG 57.023 43.478 0.00 0.00 40.09 4.79
623 931 7.119846 GCAAATCATACATTATGACTAGGGACC 59.880 40.741 0.00 0.00 46.94 4.46
624 932 7.880195 AGCAAATCATACATTATGACTAGGGAC 59.120 37.037 0.00 0.00 46.94 4.46
625 933 7.977818 AGCAAATCATACATTATGACTAGGGA 58.022 34.615 0.00 0.00 46.94 4.20
626 934 9.376075 CTAGCAAATCATACATTATGACTAGGG 57.624 37.037 0.00 0.00 46.94 3.53
627 935 8.877779 GCTAGCAAATCATACATTATGACTAGG 58.122 37.037 10.63 0.00 46.94 3.02
628 936 9.650539 AGCTAGCAAATCATACATTATGACTAG 57.349 33.333 18.83 11.03 46.94 2.57
630 938 8.781196 CAAGCTAGCAAATCATACATTATGACT 58.219 33.333 18.83 0.00 46.94 3.41
631 939 8.562892 ACAAGCTAGCAAATCATACATTATGAC 58.437 33.333 18.83 0.00 46.94 3.06
633 941 7.806487 CCACAAGCTAGCAAATCATACATTATG 59.194 37.037 18.83 0.00 37.52 1.90
634 942 7.040201 CCCACAAGCTAGCAAATCATACATTAT 60.040 37.037 18.83 0.00 0.00 1.28
635 943 6.262944 CCCACAAGCTAGCAAATCATACATTA 59.737 38.462 18.83 0.00 0.00 1.90
636 944 5.068198 CCCACAAGCTAGCAAATCATACATT 59.932 40.000 18.83 0.00 0.00 2.71
637 945 4.581824 CCCACAAGCTAGCAAATCATACAT 59.418 41.667 18.83 0.00 0.00 2.29
638 946 3.947196 CCCACAAGCTAGCAAATCATACA 59.053 43.478 18.83 0.00 0.00 2.29
639 947 3.243201 GCCCACAAGCTAGCAAATCATAC 60.243 47.826 18.83 0.00 0.00 2.39
640 948 2.951642 GCCCACAAGCTAGCAAATCATA 59.048 45.455 18.83 0.00 0.00 2.15
641 949 1.753073 GCCCACAAGCTAGCAAATCAT 59.247 47.619 18.83 0.00 0.00 2.45
642 950 1.176527 GCCCACAAGCTAGCAAATCA 58.823 50.000 18.83 0.00 0.00 2.57
643 951 0.457443 GGCCCACAAGCTAGCAAATC 59.543 55.000 18.83 0.00 0.00 2.17
644 952 0.040204 AGGCCCACAAGCTAGCAAAT 59.960 50.000 18.83 0.00 0.00 2.32
645 953 0.609131 GAGGCCCACAAGCTAGCAAA 60.609 55.000 18.83 0.00 0.00 3.68
646 954 1.002134 GAGGCCCACAAGCTAGCAA 60.002 57.895 18.83 0.00 0.00 3.91
647 955 0.617535 TAGAGGCCCACAAGCTAGCA 60.618 55.000 18.83 0.00 0.00 3.49
648 956 0.761802 ATAGAGGCCCACAAGCTAGC 59.238 55.000 6.62 6.62 0.00 3.42
649 957 4.619394 CGAATATAGAGGCCCACAAGCTAG 60.619 50.000 0.00 0.00 0.00 3.42
650 958 3.258372 CGAATATAGAGGCCCACAAGCTA 59.742 47.826 0.00 0.00 0.00 3.32
651 959 2.037772 CGAATATAGAGGCCCACAAGCT 59.962 50.000 0.00 0.00 0.00 3.74
652 960 2.037251 TCGAATATAGAGGCCCACAAGC 59.963 50.000 0.00 0.00 0.00 4.01
653 961 3.919216 CTCGAATATAGAGGCCCACAAG 58.081 50.000 0.00 0.00 32.38 3.16
662 970 7.799447 CGTGAGTTTAGAACCTCGAATATAGAG 59.201 40.741 0.00 2.13 35.60 2.43
663 971 7.281774 ACGTGAGTTTAGAACCTCGAATATAGA 59.718 37.037 0.00 0.00 46.40 1.98
664 972 7.416022 ACGTGAGTTTAGAACCTCGAATATAG 58.584 38.462 0.00 0.00 46.40 1.31
665 973 7.325660 ACGTGAGTTTAGAACCTCGAATATA 57.674 36.000 0.00 0.00 46.40 0.86
666 974 6.205101 ACGTGAGTTTAGAACCTCGAATAT 57.795 37.500 0.00 0.00 46.40 1.28
667 975 5.633830 ACGTGAGTTTAGAACCTCGAATA 57.366 39.130 0.00 0.00 46.40 1.75
668 976 4.516365 ACGTGAGTTTAGAACCTCGAAT 57.484 40.909 0.00 0.00 46.40 3.34
669 977 3.996150 ACGTGAGTTTAGAACCTCGAA 57.004 42.857 0.00 0.00 46.40 3.71
670 978 5.437289 TTTACGTGAGTTTAGAACCTCGA 57.563 39.130 0.00 0.00 46.40 4.04
671 979 6.515043 TTTTTACGTGAGTTTAGAACCTCG 57.485 37.500 0.00 0.00 46.40 4.63
699 1007 6.823689 GTCATCTAGGTCTTTTATTTCCTGCA 59.176 38.462 0.00 0.00 0.00 4.41
700 1008 7.051000 AGTCATCTAGGTCTTTTATTTCCTGC 58.949 38.462 0.00 0.00 0.00 4.85
701 1009 7.713073 GGAGTCATCTAGGTCTTTTATTTCCTG 59.287 40.741 0.00 0.00 0.00 3.86
703 1011 7.797062 AGGAGTCATCTAGGTCTTTTATTTCC 58.203 38.462 0.00 0.00 0.00 3.13
708 1016 9.716556 AGATTAAGGAGTCATCTAGGTCTTTTA 57.283 33.333 0.00 0.00 0.00 1.52
710 1018 7.841729 TGAGATTAAGGAGTCATCTAGGTCTTT 59.158 37.037 0.00 0.00 0.00 2.52
711 1019 7.358263 TGAGATTAAGGAGTCATCTAGGTCTT 58.642 38.462 0.00 0.00 0.00 3.01
713 1021 7.589958 TTGAGATTAAGGAGTCATCTAGGTC 57.410 40.000 0.00 0.00 0.00 3.85
714 1022 6.041523 GCTTGAGATTAAGGAGTCATCTAGGT 59.958 42.308 0.00 0.00 0.00 3.08
715 1023 6.041409 TGCTTGAGATTAAGGAGTCATCTAGG 59.959 42.308 0.00 0.00 0.00 3.02
716 1024 6.922957 GTGCTTGAGATTAAGGAGTCATCTAG 59.077 42.308 0.00 0.00 0.00 2.43
717 1025 6.381133 TGTGCTTGAGATTAAGGAGTCATCTA 59.619 38.462 0.00 0.00 0.00 1.98
718 1026 5.188555 TGTGCTTGAGATTAAGGAGTCATCT 59.811 40.000 0.00 0.00 0.00 2.90
719 1027 5.423015 TGTGCTTGAGATTAAGGAGTCATC 58.577 41.667 0.00 0.00 0.00 2.92
721 1029 4.890158 TGTGCTTGAGATTAAGGAGTCA 57.110 40.909 0.00 0.00 0.00 3.41
722 1030 5.121454 CAGTTGTGCTTGAGATTAAGGAGTC 59.879 44.000 0.00 0.00 0.00 3.36
723 1031 4.999950 CAGTTGTGCTTGAGATTAAGGAGT 59.000 41.667 0.00 0.00 0.00 3.85
724 1032 5.542616 CAGTTGTGCTTGAGATTAAGGAG 57.457 43.478 0.00 0.00 0.00 3.69
739 1047 5.181009 TCTTCATCTTATGGAGCAGTTGTG 58.819 41.667 0.00 0.00 35.77 3.33
741 1049 4.815308 CCTCTTCATCTTATGGAGCAGTTG 59.185 45.833 0.00 0.00 35.77 3.16
743 1051 4.036518 ACCTCTTCATCTTATGGAGCAGT 58.963 43.478 0.00 0.00 35.77 4.40
744 1052 4.686191 ACCTCTTCATCTTATGGAGCAG 57.314 45.455 0.00 0.00 35.77 4.24
745 1053 4.141620 GGAACCTCTTCATCTTATGGAGCA 60.142 45.833 0.00 0.00 35.77 4.26
746 1054 4.384940 GGAACCTCTTCATCTTATGGAGC 58.615 47.826 0.00 0.00 35.77 4.70
764 1072 4.456222 GGTAGAAGCAAGAAGAAAGGGAAC 59.544 45.833 0.00 0.00 0.00 3.62
765 1073 4.652822 GGTAGAAGCAAGAAGAAAGGGAA 58.347 43.478 0.00 0.00 0.00 3.97
766 1074 3.306780 CGGTAGAAGCAAGAAGAAAGGGA 60.307 47.826 0.00 0.00 0.00 4.20
767 1075 3.003480 CGGTAGAAGCAAGAAGAAAGGG 58.997 50.000 0.00 0.00 0.00 3.95
768 1076 2.416893 GCGGTAGAAGCAAGAAGAAAGG 59.583 50.000 0.00 0.00 34.19 3.11
769 1077 3.067106 TGCGGTAGAAGCAAGAAGAAAG 58.933 45.455 0.00 0.00 42.18 2.62
770 1078 3.120321 TGCGGTAGAAGCAAGAAGAAA 57.880 42.857 0.00 0.00 42.18 2.52
771 1079 2.831685 TGCGGTAGAAGCAAGAAGAA 57.168 45.000 0.00 0.00 42.18 2.52
779 1087 3.905900 GCAAGAATGCGGTAGAAGC 57.094 52.632 0.00 0.00 43.83 3.86
789 1097 1.406180 TGGCATCGGATTGCAAGAATG 59.594 47.619 4.94 6.99 44.59 2.67
790 1098 1.406539 GTGGCATCGGATTGCAAGAAT 59.593 47.619 4.94 0.00 44.59 2.40
791 1099 0.810648 GTGGCATCGGATTGCAAGAA 59.189 50.000 4.94 0.00 44.59 2.52
792 1100 1.031571 GGTGGCATCGGATTGCAAGA 61.032 55.000 4.94 0.00 44.59 3.02
793 1101 1.434696 GGTGGCATCGGATTGCAAG 59.565 57.895 4.94 0.00 44.59 4.01
794 1102 2.405805 CGGTGGCATCGGATTGCAA 61.406 57.895 13.41 0.00 44.59 4.08
795 1103 2.823593 CGGTGGCATCGGATTGCA 60.824 61.111 13.41 0.00 44.59 4.08
796 1104 2.513666 TCGGTGGCATCGGATTGC 60.514 61.111 21.45 0.00 42.01 3.56
797 1105 1.143838 TCTCGGTGGCATCGGATTG 59.856 57.895 21.45 8.51 0.00 2.67
798 1106 1.144057 GTCTCGGTGGCATCGGATT 59.856 57.895 21.45 0.00 0.00 3.01
799 1107 1.330655 AAGTCTCGGTGGCATCGGAT 61.331 55.000 21.45 0.69 0.00 4.18
800 1108 1.541310 AAAGTCTCGGTGGCATCGGA 61.541 55.000 21.45 13.50 0.00 4.55
801 1109 1.079127 AAAGTCTCGGTGGCATCGG 60.079 57.895 21.45 11.22 0.00 4.18
802 1110 0.670546 ACAAAGTCTCGGTGGCATCG 60.671 55.000 15.31 15.31 0.00 3.84
803 1111 0.798776 CACAAAGTCTCGGTGGCATC 59.201 55.000 0.00 0.00 0.00 3.91
804 1112 0.396435 TCACAAAGTCTCGGTGGCAT 59.604 50.000 0.00 0.00 33.45 4.40
805 1113 0.179234 TTCACAAAGTCTCGGTGGCA 59.821 50.000 4.54 0.00 33.45 4.92
806 1114 1.523758 ATTCACAAAGTCTCGGTGGC 58.476 50.000 4.54 0.00 33.45 5.01
807 1115 7.658261 TCTATATATTCACAAAGTCTCGGTGG 58.342 38.462 0.00 0.00 33.45 4.61
808 1116 9.347934 GATCTATATATTCACAAAGTCTCGGTG 57.652 37.037 0.00 0.00 0.00 4.94
809 1117 8.237949 CGATCTATATATTCACAAAGTCTCGGT 58.762 37.037 0.00 0.00 0.00 4.69
810 1118 8.237949 ACGATCTATATATTCACAAAGTCTCGG 58.762 37.037 0.00 0.00 0.00 4.63
811 1119 9.613957 AACGATCTATATATTCACAAAGTCTCG 57.386 33.333 0.00 0.00 0.00 4.04
814 1122 9.798885 GCAAACGATCTATATATTCACAAAGTC 57.201 33.333 0.00 0.00 0.00 3.01
815 1123 9.547753 AGCAAACGATCTATATATTCACAAAGT 57.452 29.630 0.00 0.00 0.00 2.66
819 1127 9.639601 CCTTAGCAAACGATCTATATATTCACA 57.360 33.333 0.00 0.00 0.00 3.58
858 1166 1.078918 CTGGAAGTGCTGGCGATCA 60.079 57.895 0.00 0.00 0.00 2.92
862 1170 1.739562 GACTCTGGAAGTGCTGGCG 60.740 63.158 0.00 0.00 38.74 5.69
863 1171 0.390998 GAGACTCTGGAAGTGCTGGC 60.391 60.000 0.00 0.00 38.74 4.85
864 1172 0.248843 GGAGACTCTGGAAGTGCTGG 59.751 60.000 1.74 0.00 38.74 4.85
865 1173 0.108898 CGGAGACTCTGGAAGTGCTG 60.109 60.000 3.07 0.00 38.74 4.41
866 1174 1.254284 CCGGAGACTCTGGAAGTGCT 61.254 60.000 24.13 0.00 45.95 4.40
867 1175 1.216710 CCGGAGACTCTGGAAGTGC 59.783 63.158 24.13 0.00 45.95 4.40
868 1176 0.900647 ACCCGGAGACTCTGGAAGTG 60.901 60.000 29.05 15.73 45.95 3.16
869 1177 0.612453 GACCCGGAGACTCTGGAAGT 60.612 60.000 29.05 19.64 45.95 3.01
870 1178 0.323908 AGACCCGGAGACTCTGGAAG 60.324 60.000 29.05 16.73 45.95 3.46
871 1179 0.114560 AAGACCCGGAGACTCTGGAA 59.885 55.000 29.05 0.00 45.95 3.53
872 1180 0.323542 GAAGACCCGGAGACTCTGGA 60.324 60.000 29.05 0.00 45.95 3.86
873 1181 0.323908 AGAAGACCCGGAGACTCTGG 60.324 60.000 21.91 21.91 42.66 3.86
874 1182 0.814457 CAGAAGACCCGGAGACTCTG 59.186 60.000 0.73 6.09 0.00 3.35
875 1183 0.406361 ACAGAAGACCCGGAGACTCT 59.594 55.000 0.73 0.00 0.00 3.24
876 1184 2.125773 TACAGAAGACCCGGAGACTC 57.874 55.000 0.73 0.00 0.00 3.36
877 1185 2.830651 ATACAGAAGACCCGGAGACT 57.169 50.000 0.73 0.00 0.00 3.24
878 1186 3.889520 AAATACAGAAGACCCGGAGAC 57.110 47.619 0.73 0.00 0.00 3.36
879 1187 4.285003 TCAAAAATACAGAAGACCCGGAGA 59.715 41.667 0.73 0.00 0.00 3.71
880 1188 4.575885 TCAAAAATACAGAAGACCCGGAG 58.424 43.478 0.73 0.00 0.00 4.63
881 1189 4.627284 TCAAAAATACAGAAGACCCGGA 57.373 40.909 0.73 0.00 0.00 5.14
882 1190 4.517453 TGTTCAAAAATACAGAAGACCCGG 59.483 41.667 0.00 0.00 0.00 5.73
883 1191 5.682943 TGTTCAAAAATACAGAAGACCCG 57.317 39.130 0.00 0.00 0.00 5.28
884 1192 7.223971 GGTTTTGTTCAAAAATACAGAAGACCC 59.776 37.037 11.47 2.45 0.00 4.46
885 1193 7.762159 TGGTTTTGTTCAAAAATACAGAAGACC 59.238 33.333 11.47 6.82 0.00 3.85
886 1194 8.696410 TGGTTTTGTTCAAAAATACAGAAGAC 57.304 30.769 11.47 0.00 0.00 3.01
887 1195 9.712305 TTTGGTTTTGTTCAAAAATACAGAAGA 57.288 25.926 11.47 0.00 30.96 2.87
888 1196 9.971744 CTTTGGTTTTGTTCAAAAATACAGAAG 57.028 29.630 11.47 11.83 33.24 2.85
889 1197 9.712305 TCTTTGGTTTTGTTCAAAAATACAGAA 57.288 25.926 11.47 8.13 33.24 3.02
890 1198 9.364989 CTCTTTGGTTTTGTTCAAAAATACAGA 57.635 29.630 11.47 10.10 33.24 3.41
891 1199 9.364989 TCTCTTTGGTTTTGTTCAAAAATACAG 57.635 29.630 11.47 7.19 33.24 2.74
892 1200 9.145865 GTCTCTTTGGTTTTGTTCAAAAATACA 57.854 29.630 11.47 8.89 33.24 2.29
893 1201 8.600625 GGTCTCTTTGGTTTTGTTCAAAAATAC 58.399 33.333 11.47 6.88 33.24 1.89
894 1202 7.489757 CGGTCTCTTTGGTTTTGTTCAAAAATA 59.510 33.333 11.47 2.82 33.24 1.40
895 1203 6.312672 CGGTCTCTTTGGTTTTGTTCAAAAAT 59.687 34.615 11.47 0.00 33.24 1.82
896 1204 5.635700 CGGTCTCTTTGGTTTTGTTCAAAAA 59.364 36.000 11.47 0.00 33.24 1.94
897 1205 5.164954 CGGTCTCTTTGGTTTTGTTCAAAA 58.835 37.500 6.61 6.61 33.24 2.44
898 1206 4.218852 ACGGTCTCTTTGGTTTTGTTCAAA 59.781 37.500 0.00 0.00 0.00 2.69
909 1217 1.006102 AGTCGCACGGTCTCTTTGG 60.006 57.895 0.00 0.00 0.00 3.28
910 1218 1.337817 CGAGTCGCACGGTCTCTTTG 61.338 60.000 0.00 0.00 0.00 2.77
911 1219 1.081376 CGAGTCGCACGGTCTCTTT 60.081 57.895 0.00 0.00 0.00 2.52
914 1222 2.098680 CTCGAGTCGCACGGTCTC 59.901 66.667 7.92 0.00 0.00 3.36
915 1223 4.104417 GCTCGAGTCGCACGGTCT 62.104 66.667 15.13 0.00 0.00 3.85
916 1224 4.104417 AGCTCGAGTCGCACGGTC 62.104 66.667 15.13 0.00 0.00 4.79
1065 1425 1.832608 TGAGAGTGTGGTCAGGCGT 60.833 57.895 0.00 0.00 0.00 5.68
1087 1447 2.249309 CGCGTGGAACTGCTTGTG 59.751 61.111 0.00 0.00 34.94 3.33
1234 1601 4.309950 GAGGTCGTTGGTGGCGGT 62.310 66.667 0.00 0.00 0.00 5.68
1420 1793 2.105128 GAGCGCGTGGAGCTGTAT 59.895 61.111 8.43 0.00 46.13 2.29
1524 1897 1.153353 TTTCATCGAACACCTTCCGC 58.847 50.000 0.00 0.00 0.00 5.54
1635 2008 2.501610 CGGAAGCTCCCTACCAGC 59.498 66.667 0.00 0.00 37.12 4.85
1744 2117 2.034432 TGCGAACAAACTCATGCACATT 59.966 40.909 0.00 0.00 0.00 2.71
2130 2503 7.268416 AATGGTATCATATGCCTCGGCAAGA 62.268 44.000 15.43 13.16 42.96 3.02
2364 2737 1.200716 ACTTTCCGCACATCATTGCTG 59.799 47.619 0.00 0.00 40.62 4.41
2498 2871 4.263243 GCTCATATCCCAGCTCACCTATTT 60.263 45.833 0.00 0.00 32.48 1.40
2817 3206 5.412594 GTGAAGTCAGTGGCTCATTATCAAA 59.587 40.000 0.00 0.00 0.00 2.69
2865 3254 3.081804 CTGGGTTTGTATGAACTCCCAC 58.918 50.000 0.00 0.00 37.06 4.61
2866 3255 2.554344 GCTGGGTTTGTATGAACTCCCA 60.554 50.000 0.00 0.00 38.44 4.37
2964 3353 6.359480 AGTAACACAAACACAGAGTAAAGC 57.641 37.500 0.00 0.00 0.00 3.51
3020 3409 1.942776 TCTGATGGCCTCTCAGTGAA 58.057 50.000 25.63 11.63 40.79 3.18
3098 3487 5.647658 CACACCTGGTTGCAATCTCTAATAA 59.352 40.000 11.73 0.00 0.00 1.40
3108 3497 1.318886 CCACACACACCTGGTTGCAA 61.319 55.000 0.00 0.00 0.00 4.08
3109 3498 1.752310 CCACACACACCTGGTTGCA 60.752 57.895 0.00 0.00 0.00 4.08
3161 3550 5.391523 CCGCAAATACGAAAATTTCTCTGGA 60.392 40.000 4.09 0.00 34.06 3.86
3227 3616 9.144747 CATGAGTATAATATGGCACTGTAAGAC 57.855 37.037 0.00 0.00 37.43 3.01
3269 3658 8.991783 ATATCAGATGAAGTCAATGGACATTT 57.008 30.769 2.34 0.00 46.80 2.32
3310 3700 8.567948 ACCTTATAAAATAATTGCATCCTCACG 58.432 33.333 0.00 0.00 0.00 4.35
3311 3701 9.899226 GACCTTATAAAATAATTGCATCCTCAC 57.101 33.333 0.00 0.00 0.00 3.51
3455 3850 3.569701 GTGCAGGTCAAAATGGAGAAAGA 59.430 43.478 0.00 0.00 0.00 2.52
3598 3994 4.156008 AGAAAACAATATCTTGTGGGTCGC 59.844 41.667 0.00 0.00 44.83 5.19
3599 3995 5.880054 AGAAAACAATATCTTGTGGGTCG 57.120 39.130 0.00 0.00 44.83 4.79
3600 3996 7.657336 TCAAAGAAAACAATATCTTGTGGGTC 58.343 34.615 0.00 0.00 44.83 4.46


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

AutoCloner maintained by Alex Coulton.