Multiple sequence alignment - TraesCS3D01G455900

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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 TraesCS3D01G455900 chr3D 100.000 3710 0 0 1 3710 562177438 562181147 0.000000e+00 6852.0
1 TraesCS3D01G455900 chr3D 79.171 893 118 38 1253 2111 562204808 562205666 1.160000e-154 556.0
2 TraesCS3D01G455900 chr3D 88.489 417 46 2 2105 2520 562206739 562207154 1.540000e-138 503.0
3 TraesCS3D01G455900 chr3B 92.386 2167 118 29 702 2852 749484628 749486763 0.000000e+00 3044.0
4 TraesCS3D01G455900 chr3B 83.666 1702 216 40 979 2629 749490796 749492486 0.000000e+00 1546.0
5 TraesCS3D01G455900 chr3B 84.801 704 51 22 2845 3534 749487454 749488115 0.000000e+00 656.0
6 TraesCS3D01G455900 chr3A 90.294 1803 110 23 853 2629 697507030 697508793 0.000000e+00 2300.0
7 TraesCS3D01G455900 chr3A 99.840 625 1 0 1 625 690943086 690942462 0.000000e+00 1149.0
8 TraesCS3D01G455900 chr3A 99.040 625 6 0 1 625 639229338 639229962 0.000000e+00 1122.0
9 TraesCS3D01G455900 chr3A 99.040 625 6 0 1 625 640754887 640754263 0.000000e+00 1122.0
10 TraesCS3D01G455900 chr3A 79.098 244 17 14 627 868 697500965 697501176 1.800000e-28 137.0
11 TraesCS3D01G455900 chr6D 83.217 1722 222 39 952 2645 100346041 100347723 0.000000e+00 1517.0
12 TraesCS3D01G455900 chr6D 72.331 1536 327 73 1111 2595 409493388 409491900 3.470000e-105 392.0
13 TraesCS3D01G455900 chr4D 99.840 626 1 0 1 626 505350442 505351067 0.000000e+00 1151.0
14 TraesCS3D01G455900 chr7D 99.840 625 1 0 1 625 64827739 64828363 0.000000e+00 1149.0
15 TraesCS3D01G455900 chr7D 73.936 376 57 32 3092 3437 102904697 102904333 3.030000e-21 113.0
16 TraesCS3D01G455900 chr7D 85.185 81 9 3 3313 3393 450255782 450255859 3.070000e-11 80.5
17 TraesCS3D01G455900 chr5D 99.840 625 1 0 1 625 468181030 468181654 0.000000e+00 1149.0
18 TraesCS3D01G455900 chr4B 99.682 628 2 0 1 628 42254181 42253554 0.000000e+00 1149.0
19 TraesCS3D01G455900 chr7B 99.520 625 3 0 1 625 505223315 505223939 0.000000e+00 1138.0
20 TraesCS3D01G455900 chr5A 99.200 625 5 0 1 625 457098009 457097385 0.000000e+00 1127.0
21 TraesCS3D01G455900 chr5A 92.857 42 1 2 3357 3396 480295513 480295554 4.000000e-05 60.2
22 TraesCS3D01G455900 chr1B 75.075 1665 344 46 999 2632 456433756 456432132 0.000000e+00 710.0
23 TraesCS3D01G455900 chr1B 74.566 1498 294 67 1112 2579 603744943 603746383 3.210000e-160 575.0
24 TraesCS3D01G455900 chr1B 74.478 1485 294 65 1121 2579 604201191 604199766 6.960000e-157 564.0
25 TraesCS3D01G455900 chr1B 74.262 711 149 26 1121 1822 604204546 604203861 6.110000e-68 268.0
26 TraesCS3D01G455900 chr1A 74.880 1668 343 50 999 2632 440669716 440668091 0.000000e+00 689.0
27 TraesCS3D01G455900 chr1D 74.612 1674 339 57 999 2632 340983879 340982252 0.000000e+00 658.0
28 TraesCS3D01G455900 chr1D 74.716 1495 297 66 1112 2579 443960985 443962425 3.190000e-165 592.0
29 TraesCS3D01G455900 chr1D 73.058 605 123 30 999 1595 341021192 341020620 1.060000e-40 178.0
30 TraesCS3D01G455900 chr1D 79.279 111 15 8 3298 3405 462269656 462269551 1.850000e-08 71.3
31 TraesCS3D01G455900 chr2B 71.987 1535 325 72 1112 2595 549249202 549247722 4.560000e-94 355.0
32 TraesCS3D01G455900 chr2D 74.684 711 151 22 1112 1815 470240300 470239612 4.690000e-74 289.0
33 TraesCS3D01G455900 chr2A 72.917 720 156 28 1112 1815 612079831 612079135 2.900000e-51 213.0
34 TraesCS3D01G455900 chr2A 77.045 379 49 23 3158 3515 55962135 55962496 2.280000e-42 183.0
35 TraesCS3D01G455900 chr2A 83.636 110 13 5 3298 3405 35581742 35581636 8.480000e-17 99.0
36 TraesCS3D01G455900 chrUn 84.615 78 8 3 3310 3383 42093705 42093782 1.430000e-09 75.0
37 TraesCS3D01G455900 chr6B 93.878 49 3 0 3357 3405 47431945 47431897 1.430000e-09 75.0
38 TraesCS3D01G455900 chr7A 91.667 48 4 0 2944 2991 152339345 152339392 2.390000e-07 67.6


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 TraesCS3D01G455900 chr3D 562177438 562181147 3709 False 6852.000000 6852 100.000 1 3710 1 chr3D.!!$F1 3709
1 TraesCS3D01G455900 chr3D 562204808 562207154 2346 False 529.500000 556 83.830 1253 2520 2 chr3D.!!$F2 1267
2 TraesCS3D01G455900 chr3B 749484628 749492486 7858 False 1748.666667 3044 86.951 702 3534 3 chr3B.!!$F1 2832
3 TraesCS3D01G455900 chr3A 697507030 697508793 1763 False 2300.000000 2300 90.294 853 2629 1 chr3A.!!$F3 1776
4 TraesCS3D01G455900 chr3A 690942462 690943086 624 True 1149.000000 1149 99.840 1 625 1 chr3A.!!$R2 624
5 TraesCS3D01G455900 chr3A 639229338 639229962 624 False 1122.000000 1122 99.040 1 625 1 chr3A.!!$F1 624
6 TraesCS3D01G455900 chr3A 640754263 640754887 624 True 1122.000000 1122 99.040 1 625 1 chr3A.!!$R1 624
7 TraesCS3D01G455900 chr6D 100346041 100347723 1682 False 1517.000000 1517 83.217 952 2645 1 chr6D.!!$F1 1693
8 TraesCS3D01G455900 chr6D 409491900 409493388 1488 True 392.000000 392 72.331 1111 2595 1 chr6D.!!$R1 1484
9 TraesCS3D01G455900 chr4D 505350442 505351067 625 False 1151.000000 1151 99.840 1 626 1 chr4D.!!$F1 625
10 TraesCS3D01G455900 chr7D 64827739 64828363 624 False 1149.000000 1149 99.840 1 625 1 chr7D.!!$F1 624
11 TraesCS3D01G455900 chr5D 468181030 468181654 624 False 1149.000000 1149 99.840 1 625 1 chr5D.!!$F1 624
12 TraesCS3D01G455900 chr4B 42253554 42254181 627 True 1149.000000 1149 99.682 1 628 1 chr4B.!!$R1 627
13 TraesCS3D01G455900 chr7B 505223315 505223939 624 False 1138.000000 1138 99.520 1 625 1 chr7B.!!$F1 624
14 TraesCS3D01G455900 chr5A 457097385 457098009 624 True 1127.000000 1127 99.200 1 625 1 chr5A.!!$R1 624
15 TraesCS3D01G455900 chr1B 456432132 456433756 1624 True 710.000000 710 75.075 999 2632 1 chr1B.!!$R1 1633
16 TraesCS3D01G455900 chr1B 603744943 603746383 1440 False 575.000000 575 74.566 1112 2579 1 chr1B.!!$F1 1467
17 TraesCS3D01G455900 chr1B 604199766 604204546 4780 True 416.000000 564 74.370 1121 2579 2 chr1B.!!$R2 1458
18 TraesCS3D01G455900 chr1A 440668091 440669716 1625 True 689.000000 689 74.880 999 2632 1 chr1A.!!$R1 1633
19 TraesCS3D01G455900 chr1D 340982252 340983879 1627 True 658.000000 658 74.612 999 2632 1 chr1D.!!$R1 1633
20 TraesCS3D01G455900 chr1D 443960985 443962425 1440 False 592.000000 592 74.716 1112 2579 1 chr1D.!!$F1 1467
21 TraesCS3D01G455900 chr2B 549247722 549249202 1480 True 355.000000 355 71.987 1112 2595 1 chr2B.!!$R1 1483
22 TraesCS3D01G455900 chr2D 470239612 470240300 688 True 289.000000 289 74.684 1112 1815 1 chr2D.!!$R1 703
23 TraesCS3D01G455900 chr2A 612079135 612079831 696 True 213.000000 213 72.917 1112 1815 1 chr2A.!!$R2 703

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
641 642 0.746563 CCCGAAGCGCCAAATAGGAA 60.747 55.0 2.29 0.0 41.22 3.36 F
1419 3672 0.459585 GCGCCTTGAACAGATCCGTA 60.460 55.0 0.00 0.0 0.00 4.02 F
2031 4361 0.250901 ACAACTTCGCCCTGCATCTT 60.251 50.0 0.00 0.0 0.00 2.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1955 4264 0.107654 GACCAGTGTACCTCCCATGC 60.108 60.0 0.0 0.0 0.00 4.06 R
2672 6146 0.109597 CACAAAGCATCAAGTCCGCC 60.110 55.0 0.0 0.0 0.00 6.13 R
3611 7918 0.179129 CAATGGAACCAATCGGCTGC 60.179 55.0 0.0 0.0 34.57 5.25 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
629 630 1.678970 ATCCAAACAGCCCCGAAGC 60.679 57.895 0.00 0.00 0.00 3.86
637 638 2.826738 GCCCCGAAGCGCCAAATA 60.827 61.111 2.29 0.00 0.00 1.40
639 640 2.186826 CCCCGAAGCGCCAAATAGG 61.187 63.158 2.29 0.00 41.84 2.57
640 641 1.153249 CCCGAAGCGCCAAATAGGA 60.153 57.895 2.29 0.00 41.22 2.94
641 642 0.746563 CCCGAAGCGCCAAATAGGAA 60.747 55.000 2.29 0.00 41.22 3.36
642 643 1.091537 CCGAAGCGCCAAATAGGAAA 58.908 50.000 2.29 0.00 41.22 3.13
643 644 1.676006 CCGAAGCGCCAAATAGGAAAT 59.324 47.619 2.29 0.00 41.22 2.17
644 645 2.541588 CCGAAGCGCCAAATAGGAAATG 60.542 50.000 2.29 0.00 41.22 2.32
645 646 2.463876 GAAGCGCCAAATAGGAAATGC 58.536 47.619 2.29 0.00 41.22 3.56
648 649 1.402787 CGCCAAATAGGAAATGCCCT 58.597 50.000 0.00 0.00 41.22 5.19
649 650 1.756538 CGCCAAATAGGAAATGCCCTT 59.243 47.619 0.00 0.00 41.22 3.95
650 651 2.168313 CGCCAAATAGGAAATGCCCTTT 59.832 45.455 0.00 0.00 41.22 3.11
651 652 3.369366 CGCCAAATAGGAAATGCCCTTTT 60.369 43.478 0.00 0.00 41.22 2.27
652 653 4.588899 GCCAAATAGGAAATGCCCTTTTT 58.411 39.130 0.00 0.00 41.22 1.94
655 656 6.108687 CCAAATAGGAAATGCCCTTTTTCTC 58.891 40.000 0.00 0.00 41.22 2.87
657 658 3.549898 AGGAAATGCCCTTTTTCTCCT 57.450 42.857 0.00 0.00 37.37 3.69
658 659 3.435275 AGGAAATGCCCTTTTTCTCCTC 58.565 45.455 0.00 0.00 37.37 3.71
659 660 3.076634 AGGAAATGCCCTTTTTCTCCTCT 59.923 43.478 0.00 0.00 37.37 3.69
660 661 3.445450 GGAAATGCCCTTTTTCTCCTCTC 59.555 47.826 0.00 0.00 34.29 3.20
662 663 1.348064 TGCCCTTTTTCTCCTCTCGA 58.652 50.000 0.00 0.00 0.00 4.04
663 664 1.697432 TGCCCTTTTTCTCCTCTCGAA 59.303 47.619 0.00 0.00 0.00 3.71
664 665 2.105821 TGCCCTTTTTCTCCTCTCGAAA 59.894 45.455 0.00 0.00 0.00 3.46
665 666 3.146847 GCCCTTTTTCTCCTCTCGAAAA 58.853 45.455 0.00 0.00 38.26 2.29
666 667 3.759086 GCCCTTTTTCTCCTCTCGAAAAT 59.241 43.478 0.00 0.00 39.34 1.82
667 668 4.218635 GCCCTTTTTCTCCTCTCGAAAATT 59.781 41.667 0.00 0.00 39.34 1.82
671 672 6.401581 CCTTTTTCTCCTCTCGAAAATTCTCG 60.402 42.308 0.00 0.00 39.34 4.04
673 674 5.386958 TTCTCCTCTCGAAAATTCTCGAA 57.613 39.130 5.25 0.00 46.53 3.71
674 675 4.987832 TCTCCTCTCGAAAATTCTCGAAG 58.012 43.478 5.25 5.99 46.53 3.79
675 676 4.109050 CTCCTCTCGAAAATTCTCGAAGG 58.891 47.826 18.53 18.53 46.53 3.46
676 677 3.762288 TCCTCTCGAAAATTCTCGAAGGA 59.238 43.478 21.17 21.17 46.53 3.36
677 678 4.109050 CCTCTCGAAAATTCTCGAAGGAG 58.891 47.826 19.29 15.65 46.53 3.69
678 679 4.381079 CCTCTCGAAAATTCTCGAAGGAGT 60.381 45.833 19.29 0.00 46.53 3.85
679 680 4.486090 TCTCGAAAATTCTCGAAGGAGTG 58.514 43.478 5.25 0.00 46.53 3.51
680 681 4.217767 TCTCGAAAATTCTCGAAGGAGTGA 59.782 41.667 5.25 0.00 46.53 3.41
681 682 4.486090 TCGAAAATTCTCGAAGGAGTGAG 58.514 43.478 0.34 0.00 44.49 3.51
682 683 3.614616 CGAAAATTCTCGAAGGAGTGAGG 59.385 47.826 0.00 0.00 41.44 3.86
683 684 2.682155 AATTCTCGAAGGAGTGAGGC 57.318 50.000 0.00 0.00 41.26 4.70
684 685 0.827368 ATTCTCGAAGGAGTGAGGCC 59.173 55.000 0.00 0.00 41.26 5.19
685 686 1.595993 TTCTCGAAGGAGTGAGGCCG 61.596 60.000 0.00 0.00 41.26 6.13
686 687 2.035155 TCGAAGGAGTGAGGCCGA 59.965 61.111 0.00 0.00 0.00 5.54
688 689 2.896443 GAAGGAGTGAGGCCGAGG 59.104 66.667 0.00 0.00 0.00 4.63
689 690 1.682684 GAAGGAGTGAGGCCGAGGA 60.683 63.158 0.00 0.00 0.00 3.71
690 691 1.229209 AAGGAGTGAGGCCGAGGAA 60.229 57.895 0.00 0.00 0.00 3.36
691 692 1.261238 AAGGAGTGAGGCCGAGGAAG 61.261 60.000 0.00 0.00 0.00 3.46
692 693 2.726351 GGAGTGAGGCCGAGGAAGG 61.726 68.421 0.00 0.00 0.00 3.46
693 694 1.682684 GAGTGAGGCCGAGGAAGGA 60.683 63.158 0.00 0.00 0.00 3.36
694 695 1.229209 AGTGAGGCCGAGGAAGGAA 60.229 57.895 0.00 0.00 0.00 3.36
698 699 0.973496 GAGGCCGAGGAAGGAAGACT 60.973 60.000 0.00 0.00 0.00 3.24
699 700 0.973496 AGGCCGAGGAAGGAAGACTC 60.973 60.000 0.00 0.00 0.00 3.36
700 701 0.973496 GGCCGAGGAAGGAAGACTCT 60.973 60.000 0.00 0.00 0.00 3.24
708 709 2.499693 GGAAGGAAGACTCTGGAAGGAG 59.500 54.545 0.00 0.00 39.09 3.69
737 738 2.367202 ACTCGGGCCCATTCATCGT 61.367 57.895 24.92 4.11 0.00 3.73
738 739 1.889105 CTCGGGCCCATTCATCGTG 60.889 63.158 24.92 1.11 0.00 4.35
739 740 3.585990 CGGGCCCATTCATCGTGC 61.586 66.667 24.92 0.00 0.00 5.34
740 741 3.585990 GGGCCCATTCATCGTGCG 61.586 66.667 19.95 0.00 0.00 5.34
741 742 2.513666 GGCCCATTCATCGTGCGA 60.514 61.111 0.00 0.00 0.00 5.10
743 744 2.823829 GCCCATTCATCGTGCGACC 61.824 63.158 0.00 0.00 0.00 4.79
746 747 1.154205 CCATTCATCGTGCGACCTCC 61.154 60.000 0.00 0.00 0.00 4.30
749 750 1.945354 TTCATCGTGCGACCTCCTCC 61.945 60.000 0.00 0.00 0.00 4.30
783 784 1.481871 CCTAGGAGGCTGTTTCCGTA 58.518 55.000 1.05 0.00 39.77 4.02
784 785 1.829222 CCTAGGAGGCTGTTTCCGTAA 59.171 52.381 1.05 0.00 39.77 3.18
785 786 2.434702 CCTAGGAGGCTGTTTCCGTAAT 59.565 50.000 1.05 0.00 39.77 1.89
787 788 2.987232 AGGAGGCTGTTTCCGTAATTC 58.013 47.619 0.00 0.00 39.77 2.17
789 790 3.773119 AGGAGGCTGTTTCCGTAATTCTA 59.227 43.478 0.00 0.00 39.77 2.10
790 791 4.120589 GGAGGCTGTTTCCGTAATTCTAG 58.879 47.826 0.00 0.00 0.00 2.43
791 792 4.382793 GGAGGCTGTTTCCGTAATTCTAGT 60.383 45.833 0.00 0.00 0.00 2.57
797 798 4.386652 TGTTTCCGTAATTCTAGTGCGTTC 59.613 41.667 0.00 0.00 0.00 3.95
810 811 3.048602 CGTTCCCTCACTGTCCGT 58.951 61.111 0.00 0.00 0.00 4.69
888 895 2.434331 CCCAAACCCCTTCTCGCA 59.566 61.111 0.00 0.00 0.00 5.10
989 996 4.683721 TTTAAGCGCGACCCGGCA 62.684 61.111 12.10 0.00 37.44 5.69
1001 1008 2.887568 CCGGCAACTGCTCGCTAG 60.888 66.667 1.06 0.00 41.70 3.42
1140 3376 0.879400 GCGACCTCTCCGACGATCTA 60.879 60.000 0.00 0.00 0.00 1.98
1419 3672 0.459585 GCGCCTTGAACAGATCCGTA 60.460 55.000 0.00 0.00 0.00 4.02
1773 4068 1.153823 CGCCTACGAGGGTGTCTTG 60.154 63.158 0.00 0.00 43.93 3.02
1893 4199 4.771577 TCAGAGATCAGAGAGCTTGTCTTT 59.228 41.667 0.00 0.00 34.71 2.52
1955 4264 0.749818 TGTCTCGAGAGCCTAGCCTG 60.750 60.000 17.22 0.00 0.00 4.85
1957 4266 2.043953 TCGAGAGCCTAGCCTGCA 60.044 61.111 0.00 0.00 0.00 4.41
1963 4272 2.112718 GCCTAGCCTGCATGGGAG 59.887 66.667 0.00 0.00 36.00 4.30
1964 4273 2.834688 CCTAGCCTGCATGGGAGG 59.165 66.667 0.00 0.00 36.00 4.30
1965 4274 2.074948 CCTAGCCTGCATGGGAGGT 61.075 63.158 5.67 0.00 36.00 3.85
2027 4351 1.164411 CAATACAACTTCGCCCTGCA 58.836 50.000 0.00 0.00 0.00 4.41
2028 4352 1.745087 CAATACAACTTCGCCCTGCAT 59.255 47.619 0.00 0.00 0.00 3.96
2031 4361 0.250901 ACAACTTCGCCCTGCATCTT 60.251 50.000 0.00 0.00 0.00 2.40
2037 4367 1.973281 CGCCCTGCATCTTGGTGTT 60.973 57.895 0.00 0.00 0.00 3.32
2052 4391 2.669569 GTTGCTCTGGAAGGCGCA 60.670 61.111 10.83 0.00 38.60 6.09
2625 6097 9.308318 GTTCAACTAGTTTTTGGCTGAATTTTA 57.692 29.630 5.07 0.00 0.00 1.52
2647 6121 2.012673 CATGTCTTACAGGCTTCTGGC 58.987 52.381 0.00 0.00 42.60 4.85
2656 6130 0.912486 AGGCTTCTGGCGTTCCTTAT 59.088 50.000 0.00 0.00 44.18 1.73
2663 6137 5.568825 GCTTCTGGCGTTCCTTATCCATATA 60.569 44.000 0.00 0.00 0.00 0.86
2672 6146 7.651304 GCGTTCCTTATCCATATATGATCTCTG 59.349 40.741 14.54 0.00 0.00 3.35
2674 6148 7.609097 TCCTTATCCATATATGATCTCTGGC 57.391 40.000 14.54 0.00 0.00 4.85
2686 6160 1.220206 CTCTGGCGGACTTGATGCT 59.780 57.895 0.00 0.00 0.00 3.79
2700 6174 4.588528 ACTTGATGCTTTGTGTGGGTATTT 59.411 37.500 0.00 0.00 0.00 1.40
2747 6222 4.974645 AGTTAAGTTCTCCATGTCCACA 57.025 40.909 0.00 0.00 0.00 4.17
2753 6228 1.951209 TCTCCATGTCCACAGCCTAA 58.049 50.000 0.00 0.00 0.00 2.69
2755 6230 1.556911 CTCCATGTCCACAGCCTAAGT 59.443 52.381 0.00 0.00 0.00 2.24
2759 6234 3.191371 CCATGTCCACAGCCTAAGTTTTC 59.809 47.826 0.00 0.00 0.00 2.29
2768 6243 3.441572 CAGCCTAAGTTTTCCATGTCCAG 59.558 47.826 0.00 0.00 0.00 3.86
2771 6246 1.247567 AAGTTTTCCATGTCCAGCGG 58.752 50.000 0.00 0.00 0.00 5.52
2772 6247 1.212751 GTTTTCCATGTCCAGCGGC 59.787 57.895 0.00 0.00 0.00 6.53
2773 6248 1.228398 TTTTCCATGTCCAGCGGCA 60.228 52.632 1.45 0.00 0.00 5.69
2775 6250 4.783621 TCCATGTCCAGCGGCAGC 62.784 66.667 0.00 0.00 45.58 5.25
2843 6319 8.357796 TGAGAATTAGCATCATCTAACTTTCG 57.642 34.615 0.00 0.00 32.02 3.46
2852 7031 6.489675 CATCATCTAACTTTCGGACCATTTG 58.510 40.000 0.00 0.00 0.00 2.32
2867 7046 5.105917 GGACCATTTGATTTTAAGCGGAGAA 60.106 40.000 0.00 0.00 0.00 2.87
2930 7112 7.397476 TGAAGGATGTAAGTGTTAGATGAGACT 59.603 37.037 0.00 0.00 0.00 3.24
2947 7129 6.656632 TGAGACTTTGTTCTCATCTACACT 57.343 37.500 0.00 0.00 45.79 3.55
3109 7291 7.700656 CAGACAACTTTTTAGTCCGTTGATTTT 59.299 33.333 7.85 0.00 39.14 1.82
3110 7292 7.700656 AGACAACTTTTTAGTCCGTTGATTTTG 59.299 33.333 7.85 0.00 39.14 2.44
3111 7293 6.254804 ACAACTTTTTAGTCCGTTGATTTTGC 59.745 34.615 7.85 0.00 39.14 3.68
3112 7294 6.144078 ACTTTTTAGTCCGTTGATTTTGCT 57.856 33.333 0.00 0.00 0.00 3.91
3122 7305 6.089417 GTCCGTTGATTTTGCTTTAGGATTTG 59.911 38.462 0.00 0.00 0.00 2.32
3156 7339 7.921786 TTTTATCTGGTCTATTTGGTGACTG 57.078 36.000 0.00 0.00 34.01 3.51
3157 7340 6.620877 TTATCTGGTCTATTTGGTGACTGT 57.379 37.500 0.00 0.00 34.01 3.55
3158 7341 4.271696 TCTGGTCTATTTGGTGACTGTG 57.728 45.455 0.00 0.00 34.01 3.66
3159 7342 3.007940 TCTGGTCTATTTGGTGACTGTGG 59.992 47.826 0.00 0.00 34.01 4.17
3160 7343 2.039746 TGGTCTATTTGGTGACTGTGGG 59.960 50.000 0.00 0.00 34.01 4.61
3161 7344 2.084546 GTCTATTTGGTGACTGTGGGC 58.915 52.381 0.00 0.00 0.00 5.36
3199 7382 2.097466 GGCCACATATTTTGGTCAGTCG 59.903 50.000 0.00 0.00 38.72 4.18
3201 7384 3.627577 GCCACATATTTTGGTCAGTCGAT 59.372 43.478 0.00 0.00 36.40 3.59
3202 7385 4.096382 GCCACATATTTTGGTCAGTCGATT 59.904 41.667 0.00 0.00 36.40 3.34
3209 7392 2.010145 TGGTCAGTCGATTTGCTAGC 57.990 50.000 8.10 8.10 0.00 3.42
3215 7398 1.521457 TCGATTTGCTAGCGGGCTG 60.521 57.895 10.77 0.00 0.00 4.85
3238 7421 1.042559 CCCATTACATGTGCCACCCC 61.043 60.000 9.11 0.00 0.00 4.95
3240 7423 1.105457 CATTACATGTGCCACCCCAG 58.895 55.000 9.11 0.00 0.00 4.45
3241 7424 0.684153 ATTACATGTGCCACCCCAGC 60.684 55.000 9.11 0.00 0.00 4.85
3242 7425 2.779742 TTACATGTGCCACCCCAGCC 62.780 60.000 9.11 0.00 0.00 4.85
3410 7596 9.853555 ATGAAATATGTGAGAAAATTACGCAAA 57.146 25.926 0.00 0.00 0.00 3.68
3418 7608 9.469807 TGTGAGAAAATTACGCAAAAATATGTT 57.530 25.926 0.00 0.00 0.00 2.71
3460 7650 7.712797 AGGTGTAATTTTAGTGGAAAGTTGTG 58.287 34.615 0.00 0.00 30.36 3.33
3465 7655 5.590530 TTTTAGTGGAAAGTTGTGTGCAT 57.409 34.783 0.00 0.00 0.00 3.96
3552 7859 6.419484 TTTTCTCTTGATTTTTCCTTCCCC 57.581 37.500 0.00 0.00 0.00 4.81
3553 7860 4.047627 TCTCTTGATTTTTCCTTCCCCC 57.952 45.455 0.00 0.00 0.00 5.40
3571 7878 4.526438 CCCCCTCCAAGTATGAAAAGAT 57.474 45.455 0.00 0.00 0.00 2.40
3572 7879 4.464947 CCCCCTCCAAGTATGAAAAGATC 58.535 47.826 0.00 0.00 0.00 2.75
3588 7895 8.110860 TGAAAAGATCATGAACTTAGGGTTTC 57.889 34.615 17.51 16.09 33.68 2.78
3589 7896 7.723616 TGAAAAGATCATGAACTTAGGGTTTCA 59.276 33.333 17.51 18.05 33.68 2.69
3590 7897 7.454260 AAAGATCATGAACTTAGGGTTTCAC 57.546 36.000 17.51 0.00 38.41 3.18
3605 7912 3.751698 GGTTTCACCCTACATCAGTTCAC 59.248 47.826 0.00 0.00 30.04 3.18
3606 7913 3.695830 TTCACCCTACATCAGTTCACC 57.304 47.619 0.00 0.00 0.00 4.02
3607 7914 2.902608 TCACCCTACATCAGTTCACCT 58.097 47.619 0.00 0.00 0.00 4.00
3608 7915 2.832129 TCACCCTACATCAGTTCACCTC 59.168 50.000 0.00 0.00 0.00 3.85
3609 7916 2.567169 CACCCTACATCAGTTCACCTCA 59.433 50.000 0.00 0.00 0.00 3.86
3610 7917 3.007940 CACCCTACATCAGTTCACCTCAA 59.992 47.826 0.00 0.00 0.00 3.02
3611 7918 3.261897 ACCCTACATCAGTTCACCTCAAG 59.738 47.826 0.00 0.00 0.00 3.02
3612 7919 3.265791 CCTACATCAGTTCACCTCAAGC 58.734 50.000 0.00 0.00 0.00 4.01
3613 7920 2.936919 ACATCAGTTCACCTCAAGCA 57.063 45.000 0.00 0.00 0.00 3.91
3614 7921 2.775890 ACATCAGTTCACCTCAAGCAG 58.224 47.619 0.00 0.00 0.00 4.24
3615 7922 1.467734 CATCAGTTCACCTCAAGCAGC 59.532 52.381 0.00 0.00 0.00 5.25
3616 7923 0.250467 TCAGTTCACCTCAAGCAGCC 60.250 55.000 0.00 0.00 0.00 4.85
3617 7924 1.302033 AGTTCACCTCAAGCAGCCG 60.302 57.895 0.00 0.00 0.00 5.52
3618 7925 1.301716 GTTCACCTCAAGCAGCCGA 60.302 57.895 0.00 0.00 0.00 5.54
3620 7927 0.036732 TTCACCTCAAGCAGCCGATT 59.963 50.000 0.00 0.00 0.00 3.34
3621 7928 0.674581 TCACCTCAAGCAGCCGATTG 60.675 55.000 0.00 0.00 39.95 2.67
3622 7929 1.377725 ACCTCAAGCAGCCGATTGG 60.378 57.895 0.00 0.00 39.06 3.16
3625 7932 0.449388 CTCAAGCAGCCGATTGGTTC 59.551 55.000 0.00 0.00 39.06 3.62
3626 7933 0.960364 TCAAGCAGCCGATTGGTTCC 60.960 55.000 0.00 0.00 39.06 3.62
3627 7934 1.074775 AAGCAGCCGATTGGTTCCA 59.925 52.632 0.00 0.00 33.85 3.53
3629 7936 0.323725 AGCAGCCGATTGGTTCCATT 60.324 50.000 0.00 0.00 37.67 3.16
3630 7937 0.179129 GCAGCCGATTGGTTCCATTG 60.179 55.000 0.00 0.00 37.67 2.82
3631 7938 0.179129 CAGCCGATTGGTTCCATTGC 60.179 55.000 0.00 0.00 37.67 3.56
3632 7939 0.611618 AGCCGATTGGTTCCATTGCA 60.612 50.000 0.00 0.00 37.67 4.08
3633 7940 0.179129 GCCGATTGGTTCCATTGCAG 60.179 55.000 0.00 0.00 37.67 4.41
3635 7942 1.135315 CCGATTGGTTCCATTGCAGTG 60.135 52.381 1.49 1.49 0.00 3.66
3636 7943 1.541147 CGATTGGTTCCATTGCAGTGT 59.459 47.619 8.53 0.00 0.00 3.55
3637 7944 2.414559 CGATTGGTTCCATTGCAGTGTC 60.415 50.000 8.53 0.00 0.00 3.67
3638 7945 1.327303 TTGGTTCCATTGCAGTGTCC 58.673 50.000 8.53 8.13 0.00 4.02
3639 7946 0.539438 TGGTTCCATTGCAGTGTCCC 60.539 55.000 8.53 5.43 0.00 4.46
3640 7947 0.251341 GGTTCCATTGCAGTGTCCCT 60.251 55.000 8.53 0.00 0.00 4.20
3641 7948 0.883833 GTTCCATTGCAGTGTCCCTG 59.116 55.000 8.53 0.00 44.53 4.45
3642 7949 0.251297 TTCCATTGCAGTGTCCCTGG 60.251 55.000 8.53 0.00 41.81 4.45
3643 7950 1.679977 CCATTGCAGTGTCCCTGGG 60.680 63.158 6.33 6.33 41.81 4.45
3644 7951 1.379916 CATTGCAGTGTCCCTGGGA 59.620 57.895 12.53 12.53 41.81 4.37
3645 7952 0.251297 CATTGCAGTGTCCCTGGGAA 60.251 55.000 19.06 5.21 41.81 3.97
3646 7953 0.706433 ATTGCAGTGTCCCTGGGAAT 59.294 50.000 19.06 2.05 41.81 3.01
3647 7954 0.038166 TTGCAGTGTCCCTGGGAATC 59.962 55.000 19.06 13.33 41.81 2.52
3648 7955 1.077429 GCAGTGTCCCTGGGAATCC 60.077 63.158 19.06 5.88 41.81 3.01
3649 7956 1.852157 GCAGTGTCCCTGGGAATCCA 61.852 60.000 19.06 8.87 41.81 3.41
3650 7957 0.698238 CAGTGTCCCTGGGAATCCAA 59.302 55.000 19.06 0.00 43.51 3.53
3653 7960 3.053693 CAGTGTCCCTGGGAATCCAATTA 60.054 47.826 19.06 0.00 43.51 1.40
3655 7962 3.891366 GTGTCCCTGGGAATCCAATTATG 59.109 47.826 19.06 0.00 43.51 1.90
3656 7963 3.531397 TGTCCCTGGGAATCCAATTATGT 59.469 43.478 19.06 0.00 43.51 2.29
3657 7964 3.891366 GTCCCTGGGAATCCAATTATGTG 59.109 47.826 19.06 0.00 43.51 3.21
3659 7966 3.891366 CCCTGGGAATCCAATTATGTGAC 59.109 47.826 7.01 0.00 43.51 3.67
3660 7967 3.891366 CCTGGGAATCCAATTATGTGACC 59.109 47.826 0.09 0.00 43.51 4.02
3664 7971 6.862225 TGGGAATCCAATTATGTGACCATAT 58.138 36.000 0.09 0.00 40.73 1.78
3665 7972 6.720748 TGGGAATCCAATTATGTGACCATATG 59.279 38.462 0.09 0.00 40.73 1.78
3666 7973 6.721208 GGGAATCCAATTATGTGACCATATGT 59.279 38.462 0.09 0.00 33.63 2.29
3667 7974 7.309377 GGGAATCCAATTATGTGACCATATGTG 60.309 40.741 0.09 0.00 33.63 3.21
3669 7976 4.514816 TCCAATTATGTGACCATATGTGCG 59.485 41.667 1.24 0.00 33.63 5.34
3670 7977 4.275689 CCAATTATGTGACCATATGTGCGT 59.724 41.667 1.24 0.00 33.63 5.24
3671 7978 5.207033 CAATTATGTGACCATATGTGCGTG 58.793 41.667 1.24 0.00 33.63 5.34
3673 7980 0.610687 TGTGACCATATGTGCGTGGA 59.389 50.000 1.24 0.00 38.86 4.02
3674 7981 1.002544 TGTGACCATATGTGCGTGGAA 59.997 47.619 1.24 0.00 38.86 3.53
3675 7982 1.396996 GTGACCATATGTGCGTGGAAC 59.603 52.381 1.24 0.00 38.86 3.62
3676 7983 1.277842 TGACCATATGTGCGTGGAACT 59.722 47.619 1.24 0.00 38.86 3.01
3678 7985 2.351726 GACCATATGTGCGTGGAACTTC 59.648 50.000 1.24 0.00 38.86 3.01
3679 7986 1.670811 CCATATGTGCGTGGAACTTCC 59.329 52.381 1.24 0.20 37.72 3.46
3680 7987 2.355197 CATATGTGCGTGGAACTTCCA 58.645 47.619 6.39 6.39 45.98 3.53
3693 8000 4.656112 TGGAACTTCCATCTCCTATCCTTC 59.344 45.833 6.39 0.00 42.67 3.46
3697 8004 5.151454 ACTTCCATCTCCTATCCTTCGAAT 58.849 41.667 0.00 0.00 0.00 3.34
3698 8005 5.011533 ACTTCCATCTCCTATCCTTCGAATG 59.988 44.000 0.00 0.00 0.00 2.67
3699 8006 4.740902 TCCATCTCCTATCCTTCGAATGA 58.259 43.478 5.57 5.57 0.00 2.57
3700 8007 4.769488 TCCATCTCCTATCCTTCGAATGAG 59.231 45.833 9.06 4.51 0.00 2.90
3701 8008 4.081752 CCATCTCCTATCCTTCGAATGAGG 60.082 50.000 9.06 8.44 0.00 3.86
3703 8010 1.971357 TCCTATCCTTCGAATGAGGCC 59.029 52.381 9.06 0.00 0.00 5.19
3706 8013 2.338577 ATCCTTCGAATGAGGCCTTG 57.661 50.000 6.77 0.00 0.00 3.61
3707 8014 1.275666 TCCTTCGAATGAGGCCTTGA 58.724 50.000 6.77 0.00 0.00 3.02
3708 8015 1.208052 TCCTTCGAATGAGGCCTTGAG 59.792 52.381 6.77 0.00 0.00 3.02
3709 8016 1.012841 CTTCGAATGAGGCCTTGAGC 58.987 55.000 6.77 0.00 42.60 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
629 630 1.402787 AGGGCATTTCCTATTTGGCG 58.597 50.000 0.00 0.00 36.84 5.69
632 633 6.070596 AGGAGAAAAAGGGCATTTCCTATTTG 60.071 38.462 1.22 0.00 37.47 2.32
633 634 6.025539 AGGAGAAAAAGGGCATTTCCTATTT 58.974 36.000 1.22 0.00 37.47 1.40
634 635 5.593786 AGGAGAAAAAGGGCATTTCCTATT 58.406 37.500 1.22 0.00 37.47 1.73
635 636 5.043806 AGAGGAGAAAAAGGGCATTTCCTAT 60.044 40.000 3.06 0.00 37.47 2.57
637 638 3.076634 AGAGGAGAAAAAGGGCATTTCCT 59.923 43.478 2.70 2.70 37.47 3.36
639 640 3.127721 CGAGAGGAGAAAAAGGGCATTTC 59.872 47.826 0.00 0.00 37.11 2.17
640 641 3.084786 CGAGAGGAGAAAAAGGGCATTT 58.915 45.455 0.00 0.00 0.00 2.32
641 642 2.305927 TCGAGAGGAGAAAAAGGGCATT 59.694 45.455 0.00 0.00 0.00 3.56
642 643 1.909302 TCGAGAGGAGAAAAAGGGCAT 59.091 47.619 0.00 0.00 0.00 4.40
643 644 1.348064 TCGAGAGGAGAAAAAGGGCA 58.652 50.000 0.00 0.00 0.00 5.36
644 645 2.474410 TTCGAGAGGAGAAAAAGGGC 57.526 50.000 0.00 0.00 0.00 5.19
645 646 5.707764 AGAATTTTCGAGAGGAGAAAAAGGG 59.292 40.000 7.97 0.00 46.45 3.95
648 649 6.220930 TCGAGAATTTTCGAGAGGAGAAAAA 58.779 36.000 16.32 0.00 46.45 1.94
650 651 5.386958 TCGAGAATTTTCGAGAGGAGAAA 57.613 39.130 16.32 0.00 44.00 2.52
659 660 4.486090 CTCACTCCTTCGAGAATTTTCGA 58.514 43.478 16.32 16.32 46.86 3.71
660 661 3.614616 CCTCACTCCTTCGAGAATTTTCG 59.385 47.826 11.91 11.91 38.52 3.46
662 663 3.339141 GCCTCACTCCTTCGAGAATTTT 58.661 45.455 0.00 0.00 38.52 1.82
663 664 2.355209 GGCCTCACTCCTTCGAGAATTT 60.355 50.000 0.00 0.00 38.52 1.82
664 665 1.208293 GGCCTCACTCCTTCGAGAATT 59.792 52.381 0.00 0.00 38.52 2.17
665 666 0.827368 GGCCTCACTCCTTCGAGAAT 59.173 55.000 0.00 0.00 38.52 2.40
666 667 1.595993 CGGCCTCACTCCTTCGAGAA 61.596 60.000 0.00 0.00 38.52 2.87
667 668 2.046864 CGGCCTCACTCCTTCGAGA 61.047 63.158 0.00 0.00 38.52 4.04
671 672 1.258445 TTCCTCGGCCTCACTCCTTC 61.258 60.000 0.00 0.00 0.00 3.46
673 674 1.684049 CTTCCTCGGCCTCACTCCT 60.684 63.158 0.00 0.00 0.00 3.69
674 675 2.726351 CCTTCCTCGGCCTCACTCC 61.726 68.421 0.00 0.00 0.00 3.85
675 676 1.258445 TTCCTTCCTCGGCCTCACTC 61.258 60.000 0.00 0.00 0.00 3.51
676 677 1.229209 TTCCTTCCTCGGCCTCACT 60.229 57.895 0.00 0.00 0.00 3.41
677 678 1.219393 CTTCCTTCCTCGGCCTCAC 59.781 63.158 0.00 0.00 0.00 3.51
678 679 1.078528 TCTTCCTTCCTCGGCCTCA 59.921 57.895 0.00 0.00 0.00 3.86
679 680 0.973496 AGTCTTCCTTCCTCGGCCTC 60.973 60.000 0.00 0.00 0.00 4.70
680 681 0.973496 GAGTCTTCCTTCCTCGGCCT 60.973 60.000 0.00 0.00 0.00 5.19
681 682 0.973496 AGAGTCTTCCTTCCTCGGCC 60.973 60.000 0.00 0.00 0.00 6.13
682 683 0.174617 CAGAGTCTTCCTTCCTCGGC 59.825 60.000 0.00 0.00 0.00 5.54
683 684 0.820871 CCAGAGTCTTCCTTCCTCGG 59.179 60.000 0.00 0.00 0.00 4.63
684 685 1.840737 TCCAGAGTCTTCCTTCCTCG 58.159 55.000 0.00 0.00 0.00 4.63
685 686 2.499693 CCTTCCAGAGTCTTCCTTCCTC 59.500 54.545 0.00 0.00 0.00 3.71
686 687 2.112691 TCCTTCCAGAGTCTTCCTTCCT 59.887 50.000 0.00 0.00 0.00 3.36
688 689 2.499693 CCTCCTTCCAGAGTCTTCCTTC 59.500 54.545 0.00 0.00 31.53 3.46
689 690 2.545810 CCTCCTTCCAGAGTCTTCCTT 58.454 52.381 0.00 0.00 31.53 3.36
690 691 1.899438 GCCTCCTTCCAGAGTCTTCCT 60.899 57.143 0.00 0.00 31.53 3.36
691 692 0.539518 GCCTCCTTCCAGAGTCTTCC 59.460 60.000 0.00 0.00 31.53 3.46
692 693 1.206849 CAGCCTCCTTCCAGAGTCTTC 59.793 57.143 0.00 0.00 31.53 2.87
693 694 1.274712 CAGCCTCCTTCCAGAGTCTT 58.725 55.000 0.00 0.00 31.53 3.01
694 695 0.617249 CCAGCCTCCTTCCAGAGTCT 60.617 60.000 0.00 0.00 31.53 3.24
698 699 1.992277 GCTCCAGCCTCCTTCCAGA 60.992 63.158 0.00 0.00 34.31 3.86
699 700 2.588989 GCTCCAGCCTCCTTCCAG 59.411 66.667 0.00 0.00 34.31 3.86
725 726 2.709475 GTCGCACGATGAATGGGC 59.291 61.111 0.00 0.00 0.00 5.36
737 738 3.071206 GCTGAGGAGGAGGTCGCA 61.071 66.667 0.00 0.00 0.00 5.10
738 739 3.844090 GGCTGAGGAGGAGGTCGC 61.844 72.222 0.00 0.00 0.00 5.19
739 740 2.363018 TGGCTGAGGAGGAGGTCG 60.363 66.667 0.00 0.00 0.00 4.79
740 741 2.063378 CCTGGCTGAGGAGGAGGTC 61.063 68.421 0.00 0.00 46.33 3.85
741 742 2.040278 CCTGGCTGAGGAGGAGGT 59.960 66.667 0.00 0.00 46.33 3.85
743 744 2.365370 AGCCTGGCTGAGGAGGAG 60.365 66.667 22.71 0.00 46.33 3.69
780 781 3.114065 GAGGGAACGCACTAGAATTACG 58.886 50.000 0.00 0.00 0.00 3.18
791 792 2.741092 GGACAGTGAGGGAACGCA 59.259 61.111 0.00 0.00 38.03 5.24
797 798 1.878656 GAGTGGACGGACAGTGAGGG 61.879 65.000 0.00 0.00 0.00 4.30
810 811 1.314867 GGGAGAGATGGGGAGTGGA 59.685 63.158 0.00 0.00 0.00 4.02
1106 1116 4.812476 CGCTCATCCGGTCGGCAA 62.812 66.667 0.00 0.00 34.68 4.52
1419 3672 0.036199 CTTGCTGCAAGAGGCTCTCT 60.036 55.000 32.99 5.43 43.42 3.10
1893 4199 3.509184 TCCATCGGAATTTGCAATTGTCA 59.491 39.130 7.40 2.90 0.00 3.58
1899 4205 3.961477 CGTATCCATCGGAATTTGCAA 57.039 42.857 0.00 0.00 34.34 4.08
1955 4264 0.107654 GACCAGTGTACCTCCCATGC 60.108 60.000 0.00 0.00 0.00 4.06
1957 4266 2.188817 GAAGACCAGTGTACCTCCCAT 58.811 52.381 0.00 0.00 0.00 4.00
1963 4272 2.557490 ACTCGAAGAAGACCAGTGTACC 59.443 50.000 0.00 0.00 34.09 3.34
1964 4273 3.919223 ACTCGAAGAAGACCAGTGTAC 57.081 47.619 0.00 0.00 34.09 2.90
1965 4274 6.883217 AGTTATACTCGAAGAAGACCAGTGTA 59.117 38.462 0.00 0.00 34.09 2.90
2027 4351 2.553904 CCTTCCAGAGCAACACCAAGAT 60.554 50.000 0.00 0.00 0.00 2.40
2028 4352 1.202806 CCTTCCAGAGCAACACCAAGA 60.203 52.381 0.00 0.00 0.00 3.02
2031 4361 1.228245 GCCTTCCAGAGCAACACCA 60.228 57.895 0.00 0.00 0.00 4.17
2234 5661 2.268920 GAGGCCACGAAGCATCCA 59.731 61.111 5.01 0.00 37.59 3.41
2548 6014 2.610727 GCTTCAGCGTGTAGTCCTTCTT 60.611 50.000 0.00 0.00 0.00 2.52
2625 6097 3.683847 GCCAGAAGCCTGTAAGACATGAT 60.684 47.826 0.00 0.00 38.74 2.45
2647 6121 8.140628 CCAGAGATCATATATGGATAAGGAACG 58.859 40.741 12.78 0.00 32.55 3.95
2656 6130 3.701542 GTCCGCCAGAGATCATATATGGA 59.298 47.826 12.78 0.57 32.55 3.41
2663 6137 1.489481 TCAAGTCCGCCAGAGATCAT 58.511 50.000 0.00 0.00 0.00 2.45
2672 6146 0.109597 CACAAAGCATCAAGTCCGCC 60.110 55.000 0.00 0.00 0.00 6.13
2674 6148 1.069022 CCACACAAAGCATCAAGTCCG 60.069 52.381 0.00 0.00 0.00 4.79
2686 6160 9.535878 GAGTTTATTGAAAAATACCCACACAAA 57.464 29.630 0.00 0.00 0.00 2.83
2721 6195 7.103641 GTGGACATGGAGAACTTAACTAATCA 58.896 38.462 0.00 0.00 0.00 2.57
2726 6200 4.804261 GCTGTGGACATGGAGAACTTAACT 60.804 45.833 0.00 0.00 0.00 2.24
2727 6201 3.437049 GCTGTGGACATGGAGAACTTAAC 59.563 47.826 0.00 0.00 0.00 2.01
2747 6222 3.690460 CTGGACATGGAAAACTTAGGCT 58.310 45.455 0.00 0.00 0.00 4.58
2753 6228 1.244019 GCCGCTGGACATGGAAAACT 61.244 55.000 0.00 0.00 0.00 2.66
2755 6230 1.228398 TGCCGCTGGACATGGAAAA 60.228 52.632 0.00 0.00 0.00 2.29
2759 6234 4.790962 AGCTGCCGCTGGACATGG 62.791 66.667 0.21 0.00 46.86 3.66
2768 6243 0.673644 TTTGTTCCTAGAGCTGCCGC 60.674 55.000 0.00 0.00 0.00 6.53
2771 6246 5.819901 ACATCTTATTTGTTCCTAGAGCTGC 59.180 40.000 0.00 0.00 0.00 5.25
2772 6247 6.259608 CCACATCTTATTTGTTCCTAGAGCTG 59.740 42.308 0.00 0.00 0.00 4.24
2773 6248 6.352516 CCACATCTTATTTGTTCCTAGAGCT 58.647 40.000 0.00 0.00 0.00 4.09
2775 6250 6.352516 AGCCACATCTTATTTGTTCCTAGAG 58.647 40.000 0.00 0.00 0.00 2.43
2776 6251 6.313519 AGCCACATCTTATTTGTTCCTAGA 57.686 37.500 0.00 0.00 0.00 2.43
2777 6252 6.203723 GCTAGCCACATCTTATTTGTTCCTAG 59.796 42.308 2.29 0.00 33.05 3.02
2778 6253 6.055588 GCTAGCCACATCTTATTTGTTCCTA 58.944 40.000 2.29 0.00 0.00 2.94
2779 6254 4.884164 GCTAGCCACATCTTATTTGTTCCT 59.116 41.667 2.29 0.00 0.00 3.36
2780 6255 4.884164 AGCTAGCCACATCTTATTTGTTCC 59.116 41.667 12.13 0.00 0.00 3.62
2827 6303 3.531538 TGGTCCGAAAGTTAGATGATGC 58.468 45.455 0.00 0.00 0.00 3.91
2829 6305 6.414732 TCAAATGGTCCGAAAGTTAGATGAT 58.585 36.000 0.00 0.00 0.00 2.45
2830 6306 5.800296 TCAAATGGTCCGAAAGTTAGATGA 58.200 37.500 0.00 0.00 0.00 2.92
2831 6307 6.683974 ATCAAATGGTCCGAAAGTTAGATG 57.316 37.500 0.00 0.00 0.00 2.90
2832 6308 7.703058 AAATCAAATGGTCCGAAAGTTAGAT 57.297 32.000 0.00 0.00 0.00 1.98
2836 6312 6.645003 GCTTAAAATCAAATGGTCCGAAAGTT 59.355 34.615 0.00 0.00 0.00 2.66
2838 6314 5.286082 CGCTTAAAATCAAATGGTCCGAAAG 59.714 40.000 0.00 0.00 0.00 2.62
2839 6315 5.157781 CGCTTAAAATCAAATGGTCCGAAA 58.842 37.500 0.00 0.00 0.00 3.46
2841 6317 3.127895 CCGCTTAAAATCAAATGGTCCGA 59.872 43.478 0.00 0.00 0.00 4.55
2842 6318 3.127895 TCCGCTTAAAATCAAATGGTCCG 59.872 43.478 0.00 0.00 0.00 4.79
2843 6319 4.398044 TCTCCGCTTAAAATCAAATGGTCC 59.602 41.667 0.00 0.00 0.00 4.46
2905 7087 7.777095 AGTCTCATCTAACACTTACATCCTTC 58.223 38.462 0.00 0.00 0.00 3.46
2930 7112 6.223852 GGAACAGAGTGTAGATGAGAACAAA 58.776 40.000 0.00 0.00 0.00 2.83
2946 7128 9.708222 CAAAACATCTTATATTTCGGAACAGAG 57.292 33.333 0.00 0.00 0.00 3.35
2947 7129 9.443323 TCAAAACATCTTATATTTCGGAACAGA 57.557 29.630 0.00 0.00 0.00 3.41
3000 7182 9.179909 TGTTTCTACAGTTCAAATGTTCCTAAA 57.820 29.630 0.00 0.00 32.02 1.85
3001 7183 8.740123 TGTTTCTACAGTTCAAATGTTCCTAA 57.260 30.769 0.00 0.00 32.02 2.69
3057 7239 8.110860 GCCTAAAATTAATATCAGGCAGCTTA 57.889 34.615 20.92 0.00 46.27 3.09
3058 7240 6.986250 GCCTAAAATTAATATCAGGCAGCTT 58.014 36.000 20.92 0.00 46.27 3.74
3059 7241 6.581171 GCCTAAAATTAATATCAGGCAGCT 57.419 37.500 20.92 0.00 46.27 4.24
3063 7245 6.490040 TGTCTGGCCTAAAATTAATATCAGGC 59.510 38.462 18.97 18.97 46.28 4.85
3064 7246 8.352942 GTTGTCTGGCCTAAAATTAATATCAGG 58.647 37.037 3.32 5.25 0.00 3.86
3065 7247 9.125026 AGTTGTCTGGCCTAAAATTAATATCAG 57.875 33.333 3.32 0.00 0.00 2.90
3066 7248 9.474313 AAGTTGTCTGGCCTAAAATTAATATCA 57.526 29.630 3.32 0.00 0.00 2.15
3078 7260 4.648651 GGACTAAAAAGTTGTCTGGCCTA 58.351 43.478 3.32 0.00 0.00 3.93
3082 7264 4.573201 TCAACGGACTAAAAAGTTGTCTGG 59.427 41.667 6.99 0.00 43.00 3.86
3109 7291 3.754965 ACAGAGCACAAATCCTAAAGCA 58.245 40.909 0.00 0.00 0.00 3.91
3110 7292 4.773323 AACAGAGCACAAATCCTAAAGC 57.227 40.909 0.00 0.00 0.00 3.51
3136 7319 4.323792 CCACAGTCACCAAATAGACCAGAT 60.324 45.833 0.00 0.00 35.38 2.90
3142 7325 1.985159 AGCCCACAGTCACCAAATAGA 59.015 47.619 0.00 0.00 0.00 1.98
3152 7335 2.959507 AAAACAAACAGCCCACAGTC 57.040 45.000 0.00 0.00 0.00 3.51
3173 7356 3.088532 GACCAAAATATGTGGCCAGTCA 58.911 45.455 5.11 0.60 40.02 3.41
3191 7374 0.924090 CGCTAGCAAATCGACTGACC 59.076 55.000 16.45 0.00 0.00 4.02
3199 7382 1.153168 TCCAGCCCGCTAGCAAATC 60.153 57.895 16.45 0.22 34.23 2.17
3201 7384 2.268920 CTCCAGCCCGCTAGCAAA 59.731 61.111 16.45 0.00 34.23 3.68
3202 7385 4.473520 GCTCCAGCCCGCTAGCAA 62.474 66.667 16.45 0.00 35.05 3.91
3238 7421 2.445654 GAGAGAGGGGGAGGGCTG 60.446 72.222 0.00 0.00 0.00 4.85
3240 7423 4.890306 GGGAGAGAGGGGGAGGGC 62.890 77.778 0.00 0.00 0.00 5.19
3241 7424 2.201734 AAAGGGAGAGAGGGGGAGGG 62.202 65.000 0.00 0.00 0.00 4.30
3242 7425 0.985490 CAAAGGGAGAGAGGGGGAGG 60.985 65.000 0.00 0.00 0.00 4.30
3243 7426 0.252927 ACAAAGGGAGAGAGGGGGAG 60.253 60.000 0.00 0.00 0.00 4.30
3244 7427 0.196118 AACAAAGGGAGAGAGGGGGA 59.804 55.000 0.00 0.00 0.00 4.81
3268 7451 8.502387 CAAAAGGAGAAACACATGAAAACAAAA 58.498 29.630 0.00 0.00 0.00 2.44
3269 7452 7.118971 CCAAAAGGAGAAACACATGAAAACAAA 59.881 33.333 0.00 0.00 0.00 2.83
3270 7453 6.593382 CCAAAAGGAGAAACACATGAAAACAA 59.407 34.615 0.00 0.00 0.00 2.83
3277 7460 6.752168 AGAAATCCAAAAGGAGAAACACATG 58.248 36.000 0.00 0.00 0.00 3.21
3347 7533 8.941977 TGTATACATTTACACTCAACCAACATC 58.058 33.333 0.08 0.00 0.00 3.06
3392 7578 9.469807 AACATATTTTTGCGTAATTTTCTCACA 57.530 25.926 0.00 0.00 0.00 3.58
3433 7623 8.755028 ACAACTTTCCACTAAAATTACACCTTT 58.245 29.630 0.00 0.00 0.00 3.11
3436 7626 7.434013 CACACAACTTTCCACTAAAATTACACC 59.566 37.037 0.00 0.00 0.00 4.16
3443 7633 5.590530 ATGCACACAACTTTCCACTAAAA 57.409 34.783 0.00 0.00 0.00 1.52
3529 7836 5.306937 GGGGGAAGGAAAAATCAAGAGAAAA 59.693 40.000 0.00 0.00 0.00 2.29
3550 7857 4.079787 TGATCTTTTCATACTTGGAGGGGG 60.080 45.833 0.00 0.00 0.00 5.40
3551 7858 5.116084 TGATCTTTTCATACTTGGAGGGG 57.884 43.478 0.00 0.00 0.00 4.79
3552 7859 6.359804 TCATGATCTTTTCATACTTGGAGGG 58.640 40.000 0.00 0.00 43.40 4.30
3553 7860 7.555554 AGTTCATGATCTTTTCATACTTGGAGG 59.444 37.037 0.00 0.00 43.40 4.30
3554 7861 8.503458 AGTTCATGATCTTTTCATACTTGGAG 57.497 34.615 0.00 0.00 43.40 3.86
3555 7862 8.868522 AAGTTCATGATCTTTTCATACTTGGA 57.131 30.769 12.37 0.00 43.40 3.53
3558 7865 9.401058 CCCTAAGTTCATGATCTTTTCATACTT 57.599 33.333 21.06 14.39 43.40 2.24
3559 7866 8.552296 ACCCTAAGTTCATGATCTTTTCATACT 58.448 33.333 21.06 4.89 43.40 2.12
3560 7867 8.738645 ACCCTAAGTTCATGATCTTTTCATAC 57.261 34.615 21.06 2.64 43.40 2.39
3562 7869 8.655935 AAACCCTAAGTTCATGATCTTTTCAT 57.344 30.769 21.06 5.98 41.09 2.57
3564 7871 8.023706 GTGAAACCCTAAGTTCATGATCTTTTC 58.976 37.037 21.06 17.61 37.88 2.29
3584 7891 3.751698 GGTGAACTGATGTAGGGTGAAAC 59.248 47.826 0.00 0.00 0.00 2.78
3585 7892 3.650942 AGGTGAACTGATGTAGGGTGAAA 59.349 43.478 0.00 0.00 0.00 2.69
3586 7893 3.248024 AGGTGAACTGATGTAGGGTGAA 58.752 45.455 0.00 0.00 0.00 3.18
3587 7894 2.832129 GAGGTGAACTGATGTAGGGTGA 59.168 50.000 0.00 0.00 0.00 4.02
3588 7895 2.567169 TGAGGTGAACTGATGTAGGGTG 59.433 50.000 0.00 0.00 0.00 4.61
3589 7896 2.902608 TGAGGTGAACTGATGTAGGGT 58.097 47.619 0.00 0.00 0.00 4.34
3590 7897 3.866651 CTTGAGGTGAACTGATGTAGGG 58.133 50.000 0.00 0.00 0.00 3.53
3592 7899 3.930336 TGCTTGAGGTGAACTGATGTAG 58.070 45.455 0.00 0.00 0.00 2.74
3594 7901 2.775890 CTGCTTGAGGTGAACTGATGT 58.224 47.619 0.00 0.00 0.00 3.06
3596 7903 1.612726 GGCTGCTTGAGGTGAACTGAT 60.613 52.381 0.00 0.00 0.00 2.90
3598 7905 1.572085 CGGCTGCTTGAGGTGAACTG 61.572 60.000 0.00 0.00 0.00 3.16
3599 7906 1.302033 CGGCTGCTTGAGGTGAACT 60.302 57.895 0.00 0.00 0.00 3.01
3600 7907 0.674895 ATCGGCTGCTTGAGGTGAAC 60.675 55.000 0.00 0.00 0.00 3.18
3602 7909 0.674581 CAATCGGCTGCTTGAGGTGA 60.675 55.000 2.87 0.00 0.00 4.02
3603 7910 1.651240 CCAATCGGCTGCTTGAGGTG 61.651 60.000 10.68 1.51 0.00 4.00
3605 7912 0.962356 AACCAATCGGCTGCTTGAGG 60.962 55.000 10.68 0.00 34.57 3.86
3606 7913 0.449388 GAACCAATCGGCTGCTTGAG 59.551 55.000 10.68 3.78 34.57 3.02
3607 7914 0.960364 GGAACCAATCGGCTGCTTGA 60.960 55.000 10.68 0.00 34.57 3.02
3608 7915 1.243342 TGGAACCAATCGGCTGCTTG 61.243 55.000 1.98 1.98 34.57 4.01
3609 7916 0.323725 ATGGAACCAATCGGCTGCTT 60.324 50.000 0.00 0.00 34.57 3.91
3610 7917 0.323725 AATGGAACCAATCGGCTGCT 60.324 50.000 0.00 0.00 34.57 4.24
3611 7918 0.179129 CAATGGAACCAATCGGCTGC 60.179 55.000 0.00 0.00 34.57 5.25
3612 7919 0.179129 GCAATGGAACCAATCGGCTG 60.179 55.000 0.00 0.00 34.57 4.85
3613 7920 0.611618 TGCAATGGAACCAATCGGCT 60.612 50.000 0.00 0.00 34.57 5.52
3614 7921 0.179129 CTGCAATGGAACCAATCGGC 60.179 55.000 0.00 0.69 34.57 5.54
3615 7922 1.135315 CACTGCAATGGAACCAATCGG 60.135 52.381 0.00 0.00 38.77 4.18
3616 7923 1.541147 ACACTGCAATGGAACCAATCG 59.459 47.619 0.00 0.00 0.00 3.34
3617 7924 2.094545 GGACACTGCAATGGAACCAATC 60.095 50.000 0.00 0.00 0.00 2.67
3618 7925 1.895131 GGACACTGCAATGGAACCAAT 59.105 47.619 0.00 0.00 0.00 3.16
3620 7927 0.539438 GGGACACTGCAATGGAACCA 60.539 55.000 0.00 0.00 0.00 3.67
3621 7928 0.251341 AGGGACACTGCAATGGAACC 60.251 55.000 0.00 0.00 0.00 3.62
3622 7929 0.883833 CAGGGACACTGCAATGGAAC 59.116 55.000 0.00 0.00 40.97 3.62
3625 7932 1.679977 CCCAGGGACACTGCAATGG 60.680 63.158 0.00 0.00 46.14 3.16
3626 7933 0.251297 TTCCCAGGGACACTGCAATG 60.251 55.000 8.12 0.00 46.14 2.82
3627 7934 0.706433 ATTCCCAGGGACACTGCAAT 59.294 50.000 8.12 0.00 46.14 3.56
3629 7936 1.685224 GATTCCCAGGGACACTGCA 59.315 57.895 8.12 0.00 46.14 4.41
3630 7937 1.077429 GGATTCCCAGGGACACTGC 60.077 63.158 8.12 0.00 46.14 4.40
3631 7938 0.698238 TTGGATTCCCAGGGACACTG 59.302 55.000 8.12 0.00 44.60 3.66
3632 7939 1.686236 ATTGGATTCCCAGGGACACT 58.314 50.000 8.12 0.00 44.60 3.55
3633 7940 2.532250 AATTGGATTCCCAGGGACAC 57.468 50.000 8.12 5.02 44.60 3.67
3635 7942 3.891366 CACATAATTGGATTCCCAGGGAC 59.109 47.826 8.12 0.00 44.60 4.46
3636 7943 3.790976 TCACATAATTGGATTCCCAGGGA 59.209 43.478 3.01 3.01 44.60 4.20
3637 7944 3.891366 GTCACATAATTGGATTCCCAGGG 59.109 47.826 0.00 0.00 44.60 4.45
3638 7945 3.891366 GGTCACATAATTGGATTCCCAGG 59.109 47.826 0.00 0.00 44.60 4.45
3639 7946 4.535781 TGGTCACATAATTGGATTCCCAG 58.464 43.478 0.00 0.00 44.60 4.45
3640 7947 4.599720 TGGTCACATAATTGGATTCCCA 57.400 40.909 0.00 0.00 41.64 4.37
3641 7948 6.721208 ACATATGGTCACATAATTGGATTCCC 59.279 38.462 7.80 0.00 42.49 3.97
3642 7949 7.596494 CACATATGGTCACATAATTGGATTCC 58.404 38.462 7.80 0.00 42.49 3.01
3643 7950 7.086376 GCACATATGGTCACATAATTGGATTC 58.914 38.462 7.80 0.00 42.49 2.52
3644 7951 6.294120 CGCACATATGGTCACATAATTGGATT 60.294 38.462 7.80 0.00 42.49 3.01
3645 7952 5.181811 CGCACATATGGTCACATAATTGGAT 59.818 40.000 7.80 0.00 42.49 3.41
3646 7953 4.514816 CGCACATATGGTCACATAATTGGA 59.485 41.667 7.80 0.00 42.49 3.53
3647 7954 4.275689 ACGCACATATGGTCACATAATTGG 59.724 41.667 7.80 0.00 42.49 3.16
3648 7955 5.207033 CACGCACATATGGTCACATAATTG 58.793 41.667 7.80 0.00 42.49 2.32
3649 7956 4.275689 CCACGCACATATGGTCACATAATT 59.724 41.667 7.80 0.00 42.49 1.40
3650 7957 3.814842 CCACGCACATATGGTCACATAAT 59.185 43.478 7.80 0.00 42.49 1.28
3653 7960 1.209261 TCCACGCACATATGGTCACAT 59.791 47.619 7.80 0.00 41.13 3.21
3655 7962 1.396996 GTTCCACGCACATATGGTCAC 59.603 52.381 7.80 0.00 37.27 3.67
3656 7963 1.277842 AGTTCCACGCACATATGGTCA 59.722 47.619 7.80 0.00 37.27 4.02
3657 7964 2.024176 AGTTCCACGCACATATGGTC 57.976 50.000 7.80 0.00 37.27 4.02
3659 7966 1.670811 GGAAGTTCCACGCACATATGG 59.329 52.381 17.44 0.00 36.28 2.74
3660 7967 2.355197 TGGAAGTTCCACGCACATATG 58.645 47.619 21.05 0.00 42.67 1.78
3671 7978 4.262249 CGAAGGATAGGAGATGGAAGTTCC 60.262 50.000 15.50 15.50 36.96 3.62
3673 7980 4.547671 TCGAAGGATAGGAGATGGAAGTT 58.452 43.478 0.00 0.00 0.00 2.66
3674 7981 4.186077 TCGAAGGATAGGAGATGGAAGT 57.814 45.455 0.00 0.00 0.00 3.01
3675 7982 5.244851 TCATTCGAAGGATAGGAGATGGAAG 59.755 44.000 8.70 0.00 0.00 3.46
3676 7983 5.147767 TCATTCGAAGGATAGGAGATGGAA 58.852 41.667 8.70 0.00 0.00 3.53
3678 7985 4.081752 CCTCATTCGAAGGATAGGAGATGG 60.082 50.000 13.55 4.59 0.00 3.51
3679 7986 4.620332 GCCTCATTCGAAGGATAGGAGATG 60.620 50.000 18.92 3.86 0.00 2.90
3680 7987 3.513515 GCCTCATTCGAAGGATAGGAGAT 59.486 47.826 18.92 0.00 0.00 2.75
3683 7990 1.971357 GGCCTCATTCGAAGGATAGGA 59.029 52.381 18.92 0.00 0.00 2.94
3684 7991 1.974236 AGGCCTCATTCGAAGGATAGG 59.026 52.381 13.55 12.86 0.00 2.57
3685 7992 3.070159 TCAAGGCCTCATTCGAAGGATAG 59.930 47.826 13.55 9.10 0.00 2.08
3686 7993 3.038280 TCAAGGCCTCATTCGAAGGATA 58.962 45.455 13.55 0.00 0.00 2.59
3687 7994 1.839994 TCAAGGCCTCATTCGAAGGAT 59.160 47.619 13.55 0.00 0.00 3.24
3689 7996 1.661341 CTCAAGGCCTCATTCGAAGG 58.339 55.000 5.23 2.79 0.00 3.46


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

AutoCloner maintained by Alex Coulton.