Multiple sequence alignment - TraesCS1B01G376400

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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 TraesCS1B01G376400 chr1B 100.000 2498 0 0 1 2498 608043819 608041322 0.000000e+00 4614.0
1 TraesCS1B01G376400 chr1B 87.331 1034 73 27 787 1792 607317042 607316039 0.000000e+00 1131.0
2 TraesCS1B01G376400 chr1B 87.147 1027 85 27 787 1791 610892989 610893990 0.000000e+00 1122.0
3 TraesCS1B01G376400 chr1B 86.944 1034 77 27 787 1792 607137909 607136906 0.000000e+00 1109.0
4 TraesCS1B01G376400 chr1B 86.871 1013 68 31 787 1792 608335904 608334950 0.000000e+00 1074.0
5 TraesCS1B01G376400 chr1B 97.535 568 12 2 1 566 608336494 608335927 0.000000e+00 970.0
6 TraesCS1B01G376400 chr1B 92.403 566 39 2 1 566 607317626 607317065 0.000000e+00 804.0
7 TraesCS1B01G376400 chr1B 92.226 566 37 2 1 566 607138490 607137932 0.000000e+00 795.0
8 TraesCS1B01G376400 chr1B 92.444 225 15 2 564 787 676078531 676078308 1.110000e-83 320.0
9 TraesCS1B01G376400 chr1B 92.035 226 16 1 555 780 640451231 640451454 1.440000e-82 316.0
10 TraesCS1B01G376400 chr1B 92.035 226 17 1 561 786 654508407 654508631 1.440000e-82 316.0
11 TraesCS1B01G376400 chr3D 88.299 1017 87 16 793 1792 114880995 114879994 0.000000e+00 1190.0
12 TraesCS1B01G376400 chr3D 93.665 221 13 1 564 784 108291061 108290842 1.850000e-86 329.0
13 TraesCS1B01G376400 chr3D 90.751 173 16 0 2190 2362 114879107 114878935 5.370000e-57 231.0
14 TraesCS1B01G376400 chr3D 87.333 150 17 2 19 167 485230486 485230634 1.190000e-38 171.0
15 TraesCS1B01G376400 chr1D 87.992 1016 87 26 797 1792 445367078 445366078 0.000000e+00 1168.0
16 TraesCS1B01G376400 chr1D 91.535 697 47 6 787 1479 446475900 446476588 0.000000e+00 950.0
17 TraesCS1B01G376400 chr1D 94.585 591 28 1 787 1377 355827813 355828399 0.000000e+00 911.0
18 TraesCS1B01G376400 chr1D 86.534 802 74 20 793 1584 388603363 388604140 0.000000e+00 852.0
19 TraesCS1B01G376400 chr1D 82.256 789 99 25 793 1570 63682350 63681592 0.000000e+00 643.0
20 TraesCS1B01G376400 chr1D 92.952 227 14 2 557 783 46331042 46330818 1.850000e-86 329.0
21 TraesCS1B01G376400 chr1D 88.439 173 19 1 2190 2362 445365667 445365496 9.060000e-50 207.0
22 TraesCS1B01G376400 chr1D 86.986 146 19 0 24 169 387422535 387422390 5.530000e-37 165.0
23 TraesCS1B01G376400 chr1D 87.903 124 12 3 2377 2498 445365431 445365309 2.590000e-30 143.0
24 TraesCS1B01G376400 chr1D 79.245 159 25 6 1412 1570 394490842 394490692 1.220000e-18 104.0
25 TraesCS1B01G376400 chr1D 83.908 87 8 3 2094 2180 446477321 446477401 7.410000e-11 78.7
26 TraesCS1B01G376400 chr1A 88.317 1010 70 20 793 1794 541461053 541460084 0.000000e+00 1168.0
27 TraesCS1B01G376400 chr1A 92.506 774 49 6 793 1563 541343554 541344321 0.000000e+00 1099.0
28 TraesCS1B01G376400 chr1A 91.704 675 43 5 801 1467 456653436 456654105 0.000000e+00 924.0
29 TraesCS1B01G376400 chr1A 88.425 527 47 10 859 1377 62794691 62794171 7.590000e-175 623.0
30 TraesCS1B01G376400 chr1A 85.185 270 26 8 1808 2074 541459888 541459630 5.300000e-67 265.0
31 TraesCS1B01G376400 chr1A 88.439 173 19 1 2190 2362 541459175 541459004 9.060000e-50 207.0
32 TraesCS1B01G376400 chr1A 91.129 124 9 2 2377 2498 541458920 541458797 1.540000e-37 167.0
33 TraesCS1B01G376400 chr1A 84.800 125 14 4 2377 2498 456372914 456373036 1.210000e-23 121.0
34 TraesCS1B01G376400 chr1A 90.323 93 8 1 471 562 456653271 456653363 1.210000e-23 121.0
35 TraesCS1B01G376400 chr1A 82.927 82 8 3 2099 2180 541344967 541345042 4.460000e-08 69.4
36 TraesCS1B01G376400 chr6B 83.985 793 84 27 794 1570 679983692 679982927 0.000000e+00 721.0
37 TraesCS1B01G376400 chr6D 92.760 221 14 1 563 783 3320134 3319916 4.010000e-83 318.0
38 TraesCS1B01G376400 chr7D 92.727 220 15 1 564 783 326052763 326052545 1.440000e-82 316.0
39 TraesCS1B01G376400 chr7D 85.714 63 9 0 9 71 26519947 26520009 1.600000e-07 67.6
40 TraesCS1B01G376400 chr5D 92.035 226 17 1 558 783 369716883 369716659 1.440000e-82 316.0
41 TraesCS1B01G376400 chr5A 91.304 230 19 1 562 791 549412443 549412671 1.870000e-81 313.0
42 TraesCS1B01G376400 chr5A 86.709 158 21 0 9 166 539071600 539071757 2.550000e-40 176.0
43 TraesCS1B01G376400 chr3A 81.788 302 34 13 1783 2071 111103168 111102875 1.490000e-57 233.0
44 TraesCS1B01G376400 chr3B 80.000 225 19 17 1851 2074 168137273 168137074 2.590000e-30 143.0
45 TraesCS1B01G376400 chr7A 79.375 160 22 3 9 168 485514509 485514657 4.400000e-18 102.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1B01G376400 chr1B 608041322 608043819 2497 True 4614.00 4614 100.000000 1 2498 1 chr1B.!!$R1 2497
1 TraesCS1B01G376400 chr1B 610892989 610893990 1001 False 1122.00 1122 87.147000 787 1791 1 chr1B.!!$F1 1004
2 TraesCS1B01G376400 chr1B 608334950 608336494 1544 True 1022.00 1074 92.203000 1 1792 2 chr1B.!!$R5 1791
3 TraesCS1B01G376400 chr1B 607316039 607317626 1587 True 967.50 1131 89.867000 1 1792 2 chr1B.!!$R4 1791
4 TraesCS1B01G376400 chr1B 607136906 607138490 1584 True 952.00 1109 89.585000 1 1792 2 chr1B.!!$R3 1791
5 TraesCS1B01G376400 chr3D 114878935 114880995 2060 True 710.50 1190 89.525000 793 2362 2 chr3D.!!$R2 1569
6 TraesCS1B01G376400 chr1D 355827813 355828399 586 False 911.00 911 94.585000 787 1377 1 chr1D.!!$F1 590
7 TraesCS1B01G376400 chr1D 388603363 388604140 777 False 852.00 852 86.534000 793 1584 1 chr1D.!!$F2 791
8 TraesCS1B01G376400 chr1D 63681592 63682350 758 True 643.00 643 82.256000 793 1570 1 chr1D.!!$R2 777
9 TraesCS1B01G376400 chr1D 446475900 446477401 1501 False 514.35 950 87.721500 787 2180 2 chr1D.!!$F3 1393
10 TraesCS1B01G376400 chr1D 445365309 445367078 1769 True 506.00 1168 88.111333 797 2498 3 chr1D.!!$R5 1701
11 TraesCS1B01G376400 chr1A 62794171 62794691 520 True 623.00 623 88.425000 859 1377 1 chr1A.!!$R1 518
12 TraesCS1B01G376400 chr1A 541343554 541345042 1488 False 584.20 1099 87.716500 793 2180 2 chr1A.!!$F3 1387
13 TraesCS1B01G376400 chr1A 456653271 456654105 834 False 522.50 924 91.013500 471 1467 2 chr1A.!!$F2 996
14 TraesCS1B01G376400 chr1A 541458797 541461053 2256 True 451.75 1168 88.267500 793 2498 4 chr1A.!!$R2 1705
15 TraesCS1B01G376400 chr6B 679982927 679983692 765 True 721.00 721 83.985000 794 1570 1 chr6B.!!$R1 776

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
593 597 0.038892 TCTCGGTTTACAGGACGTGC 60.039 55.0 0.0 0.0 0.0 5.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1581 1705 0.036952 CCACCTCAAGCTCACACGAT 60.037 55.0 0.0 0.0 0.0 3.73 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
35 36 4.452733 AGTGCCGCCCTTACGAGC 62.453 66.667 0.00 0.00 34.06 5.03
239 240 7.611467 TGATTTGTAGGATGCTTAACTGAATGT 59.389 33.333 0.00 0.00 0.00 2.71
303 304 9.627123 AAATTATTGGCATAGCAACTCTAACTA 57.373 29.630 0.00 0.00 0.00 2.24
447 450 4.103153 AGGTTCTCAACAAGAATGTCCTCA 59.897 41.667 0.00 0.00 45.57 3.86
448 451 4.214332 GGTTCTCAACAAGAATGTCCTCAC 59.786 45.833 0.00 0.00 45.57 3.51
574 578 9.495382 ACTCTACATTTTAATTACTCCCTCTCT 57.505 33.333 0.00 0.00 0.00 3.10
575 579 9.974980 CTCTACATTTTAATTACTCCCTCTCTC 57.025 37.037 0.00 0.00 0.00 3.20
576 580 9.716556 TCTACATTTTAATTACTCCCTCTCTCT 57.283 33.333 0.00 0.00 0.00 3.10
577 581 9.974980 CTACATTTTAATTACTCCCTCTCTCTC 57.025 37.037 0.00 0.00 0.00 3.20
578 582 7.493367 ACATTTTAATTACTCCCTCTCTCTCG 58.507 38.462 0.00 0.00 0.00 4.04
579 583 6.466885 TTTTAATTACTCCCTCTCTCTCGG 57.533 41.667 0.00 0.00 0.00 4.63
581 585 3.673543 ATTACTCCCTCTCTCTCGGTT 57.326 47.619 0.00 0.00 0.00 4.44
583 587 4.581309 TTACTCCCTCTCTCTCGGTTTA 57.419 45.455 0.00 0.00 0.00 2.01
584 588 2.725637 ACTCCCTCTCTCTCGGTTTAC 58.274 52.381 0.00 0.00 0.00 2.01
586 590 2.685897 CTCCCTCTCTCTCGGTTTACAG 59.314 54.545 0.00 0.00 0.00 2.74
588 592 2.620886 CCCTCTCTCTCGGTTTACAGGA 60.621 54.545 0.00 0.00 0.00 3.86
589 593 2.424246 CCTCTCTCTCGGTTTACAGGAC 59.576 54.545 0.00 0.00 0.00 3.85
590 594 2.082231 TCTCTCTCGGTTTACAGGACG 58.918 52.381 0.00 0.00 0.00 4.79
591 595 1.811359 CTCTCTCGGTTTACAGGACGT 59.189 52.381 0.00 0.00 0.00 4.34
592 596 1.538512 TCTCTCGGTTTACAGGACGTG 59.461 52.381 0.00 0.00 0.00 4.49
593 597 0.038892 TCTCGGTTTACAGGACGTGC 60.039 55.000 0.00 0.00 0.00 5.34
594 598 1.342082 CTCGGTTTACAGGACGTGCG 61.342 60.000 0.00 0.00 0.00 5.34
595 599 2.858158 GGTTTACAGGACGTGCGC 59.142 61.111 0.00 0.00 0.00 6.09
596 600 2.468532 GTTTACAGGACGTGCGCG 59.531 61.111 19.78 19.78 44.93 6.86
606 610 2.581409 CGTGCGCGTACCCTTAGG 60.581 66.667 21.71 2.39 40.04 2.69
690 694 9.971922 AACTTCAGATGTTCTATTTTCAAAAGG 57.028 29.630 0.00 0.00 0.00 3.11
691 695 9.136323 ACTTCAGATGTTCTATTTTCAAAAGGT 57.864 29.630 0.00 0.00 0.00 3.50
744 748 6.187682 AGGGTGATAAAATTGACAACCTAGG 58.812 40.000 7.41 7.41 46.75 3.02
745 749 5.949952 GGGTGATAAAATTGACAACCTAGGT 59.050 40.000 9.21 9.21 37.18 3.08
746 750 7.037153 AGGGTGATAAAATTGACAACCTAGGTA 60.037 37.037 16.67 0.00 46.75 3.08
747 751 7.778382 GGGTGATAAAATTGACAACCTAGGTAT 59.222 37.037 16.67 6.57 37.18 2.73
748 752 9.841295 GGTGATAAAATTGACAACCTAGGTATA 57.159 33.333 16.67 0.00 0.00 1.47
750 754 9.537192 TGATAAAATTGACAACCTAGGTATACG 57.463 33.333 16.67 6.92 0.00 3.06
751 755 6.673154 AAAATTGACAACCTAGGTATACGC 57.327 37.500 16.67 4.11 0.00 4.42
752 756 3.425577 TTGACAACCTAGGTATACGCG 57.574 47.619 16.67 3.53 0.00 6.01
753 757 2.368439 TGACAACCTAGGTATACGCGT 58.632 47.619 19.17 19.17 0.00 6.01
754 758 3.540617 TGACAACCTAGGTATACGCGTA 58.459 45.455 22.94 22.94 0.00 4.42
755 759 4.136796 TGACAACCTAGGTATACGCGTAT 58.863 43.478 32.13 32.13 0.00 3.06
756 760 4.023792 TGACAACCTAGGTATACGCGTATG 60.024 45.833 35.61 22.39 0.00 2.39
757 761 4.136796 ACAACCTAGGTATACGCGTATGA 58.863 43.478 35.61 19.66 0.00 2.15
758 762 4.023707 ACAACCTAGGTATACGCGTATGAC 60.024 45.833 35.61 27.43 0.00 3.06
759 763 4.013267 ACCTAGGTATACGCGTATGACT 57.987 45.455 35.61 31.42 0.00 3.41
760 764 4.392940 ACCTAGGTATACGCGTATGACTT 58.607 43.478 35.61 25.99 0.00 3.01
761 765 4.214971 ACCTAGGTATACGCGTATGACTTG 59.785 45.833 35.61 29.13 0.00 3.16
762 766 4.214971 CCTAGGTATACGCGTATGACTTGT 59.785 45.833 35.61 15.75 0.00 3.16
763 767 5.409520 CCTAGGTATACGCGTATGACTTGTA 59.590 44.000 35.61 18.97 0.00 2.41
764 768 5.756195 AGGTATACGCGTATGACTTGTAA 57.244 39.130 35.61 15.01 0.00 2.41
765 769 6.135290 AGGTATACGCGTATGACTTGTAAA 57.865 37.500 35.61 14.31 0.00 2.01
766 770 5.973565 AGGTATACGCGTATGACTTGTAAAC 59.026 40.000 35.61 23.32 0.00 2.01
767 771 5.973565 GGTATACGCGTATGACTTGTAAACT 59.026 40.000 35.61 12.94 0.00 2.66
768 772 6.473455 GGTATACGCGTATGACTTGTAAACTT 59.527 38.462 35.61 12.52 0.00 2.66
769 773 7.643764 GGTATACGCGTATGACTTGTAAACTTA 59.356 37.037 35.61 12.50 0.00 2.24
770 774 7.675270 ATACGCGTATGACTTGTAAACTTAG 57.325 36.000 29.77 0.00 0.00 2.18
771 775 5.702865 ACGCGTATGACTTGTAAACTTAGA 58.297 37.500 11.67 0.00 0.00 2.10
772 776 5.570589 ACGCGTATGACTTGTAAACTTAGAC 59.429 40.000 11.67 0.00 0.00 2.59
773 777 5.275142 CGCGTATGACTTGTAAACTTAGACG 60.275 44.000 0.00 0.00 0.00 4.18
774 778 5.796935 GCGTATGACTTGTAAACTTAGACGA 59.203 40.000 0.00 0.00 0.00 4.20
775 779 6.306356 GCGTATGACTTGTAAACTTAGACGAA 59.694 38.462 0.00 0.00 0.00 3.85
776 780 7.461156 GCGTATGACTTGTAAACTTAGACGAAG 60.461 40.741 0.00 0.00 41.37 3.79
777 781 7.008086 CGTATGACTTGTAAACTTAGACGAAGG 59.992 40.741 0.21 0.00 39.74 3.46
778 782 5.535333 TGACTTGTAAACTTAGACGAAGGG 58.465 41.667 0.21 0.00 39.74 3.95
779 783 5.302568 TGACTTGTAAACTTAGACGAAGGGA 59.697 40.000 0.21 0.00 39.74 4.20
780 784 6.165700 ACTTGTAAACTTAGACGAAGGGAA 57.834 37.500 0.21 0.00 39.74 3.97
781 785 6.766429 ACTTGTAAACTTAGACGAAGGGAAT 58.234 36.000 0.21 0.00 39.74 3.01
782 786 7.899973 ACTTGTAAACTTAGACGAAGGGAATA 58.100 34.615 0.21 0.00 39.74 1.75
783 787 7.816513 ACTTGTAAACTTAGACGAAGGGAATAC 59.183 37.037 0.21 0.00 39.74 1.89
784 788 7.230849 TGTAAACTTAGACGAAGGGAATACA 57.769 36.000 0.21 1.83 39.74 2.29
785 789 7.844009 TGTAAACTTAGACGAAGGGAATACAT 58.156 34.615 0.21 0.00 39.74 2.29
1096 1198 1.246737 GCAAAGGAGGCAAGGGACTG 61.247 60.000 0.00 0.00 40.86 3.51
1285 1387 2.960170 GACGCCGTCACCTACACT 59.040 61.111 13.23 0.00 32.09 3.55
1406 1518 1.289380 GTCCTCGGTCTTTGTCGCT 59.711 57.895 0.00 0.00 0.00 4.93
1410 1522 1.344942 CTCGGTCTTTGTCGCTTCCG 61.345 60.000 0.00 0.00 39.40 4.30
1422 1536 1.709147 CGCTTCCGGCAGATTCCAAG 61.709 60.000 4.87 0.00 41.91 3.61
1454 1570 2.595238 ACCCTGACTTGTCTAGTTCGT 58.405 47.619 2.35 0.00 37.17 3.85
1469 1591 4.931661 AGTTCGTTGTTTCCTCTGTCTA 57.068 40.909 0.00 0.00 0.00 2.59
1502 1624 6.510478 CGAACTGAATCGTGGAACAAAGTTAA 60.510 38.462 0.00 0.00 44.16 2.01
1508 1631 3.059461 TCGTGGAACAAAGTTAATCGCAC 60.059 43.478 0.00 0.00 44.16 5.34
1533 1657 6.522625 TCTTGTTGGAAATGAAACTTGTCA 57.477 33.333 0.00 0.00 0.00 3.58
1581 1705 1.070758 GTCTTGCTGGTTGGTCTCTGA 59.929 52.381 0.00 0.00 0.00 3.27
1583 1707 2.027745 TCTTGCTGGTTGGTCTCTGATC 60.028 50.000 0.00 0.00 0.00 2.92
1586 1710 2.001812 CTGGTTGGTCTCTGATCGTG 57.998 55.000 0.00 0.00 0.00 4.35
1589 1713 1.272490 GGTTGGTCTCTGATCGTGTGA 59.728 52.381 0.00 0.00 0.00 3.58
1590 1714 2.600731 GTTGGTCTCTGATCGTGTGAG 58.399 52.381 0.00 0.00 0.00 3.51
1591 1715 0.528017 TGGTCTCTGATCGTGTGAGC 59.472 55.000 10.70 10.70 0.00 4.26
1602 1750 1.227943 GTGTGAGCTTGAGGTGGCA 60.228 57.895 0.00 0.00 0.00 4.92
1632 1780 6.811634 TGATTTGCCATAATTTTCCAGGAT 57.188 33.333 0.00 0.00 0.00 3.24
1633 1781 6.584488 TGATTTGCCATAATTTTCCAGGATG 58.416 36.000 0.00 0.00 0.00 3.51
1634 1782 6.383436 TGATTTGCCATAATTTTCCAGGATGA 59.617 34.615 0.00 0.00 39.69 2.92
1636 1784 6.811634 TTGCCATAATTTTCCAGGATGAAT 57.188 33.333 0.00 0.00 39.69 2.57
1637 1785 6.409524 TGCCATAATTTTCCAGGATGAATC 57.590 37.500 0.00 0.00 39.69 2.52
1639 1787 5.010012 GCCATAATTTTCCAGGATGAATCGT 59.990 40.000 0.00 0.00 39.69 3.73
1640 1788 6.206634 GCCATAATTTTCCAGGATGAATCGTA 59.793 38.462 0.00 0.00 39.69 3.43
1642 1790 7.445402 CCATAATTTTCCAGGATGAATCGTAGT 59.555 37.037 0.00 0.00 39.69 2.73
1644 1792 7.787725 AATTTTCCAGGATGAATCGTAGTAC 57.212 36.000 0.00 0.00 39.69 2.73
1664 1818 3.740115 ACTACTGTACTTGTTTGCAGGG 58.260 45.455 0.00 0.00 33.62 4.45
1679 1838 5.398603 TTGCAGGGTAATTTGTAATGTGG 57.601 39.130 0.00 0.00 0.00 4.17
1703 1863 0.034896 ACGCCACAGGGACTAAACAG 59.965 55.000 0.00 0.00 36.02 3.16
1705 1865 1.809684 GCCACAGGGACTAAACAGTC 58.190 55.000 0.00 0.00 36.02 3.51
1709 1871 3.572584 CACAGGGACTAAACAGTCGTAC 58.427 50.000 0.00 0.00 39.57 3.67
1745 1907 4.082895 ACATCATTTGCTCTGTTTCTGCTC 60.083 41.667 0.00 0.00 0.00 4.26
1798 2178 8.084073 ACCATTGATGTTACTTCTGTTGATTTG 58.916 33.333 0.17 0.00 0.00 2.32
1844 2225 4.415881 TCTTGAACTGTGCTTCCAACTA 57.584 40.909 0.00 0.00 0.00 2.24
1860 2242 5.189928 TCCAACTACGGAATTGCAATACAT 58.810 37.500 13.39 0.00 29.93 2.29
1861 2243 5.065859 TCCAACTACGGAATTGCAATACATG 59.934 40.000 13.39 5.89 29.93 3.21
1866 2248 6.765989 ACTACGGAATTGCAATACATGTACAT 59.234 34.615 13.39 1.41 0.00 2.29
1876 2258 5.643777 GCAATACATGTACATGATACCCTCC 59.356 44.000 36.36 15.58 41.20 4.30
1895 2277 1.027357 CTGGCAGTGACAGCAACTTT 58.973 50.000 14.39 0.00 29.34 2.66
1902 2284 4.614535 GCAGTGACAGCAACTTTATCCTTG 60.615 45.833 0.00 0.00 0.00 3.61
1928 2316 3.697542 TGAATTGATCAAGAGGTGCATGG 59.302 43.478 14.54 0.00 34.30 3.66
1978 2371 4.767578 TTCAGATATCCAAAGCAGCTCT 57.232 40.909 0.00 0.00 0.00 4.09
1985 2378 6.709846 AGATATCCAAAGCAGCTCTGATAAAC 59.290 38.462 0.00 3.67 0.00 2.01
1987 2380 3.002791 CCAAAGCAGCTCTGATAAACGA 58.997 45.455 0.00 0.00 0.00 3.85
1988 2381 3.436704 CCAAAGCAGCTCTGATAAACGAA 59.563 43.478 0.00 0.00 0.00 3.85
1989 2382 4.095483 CCAAAGCAGCTCTGATAAACGAAT 59.905 41.667 0.00 0.00 0.00 3.34
1990 2383 5.294306 CCAAAGCAGCTCTGATAAACGAATA 59.706 40.000 0.00 0.00 0.00 1.75
1991 2384 5.975410 AAGCAGCTCTGATAAACGAATAC 57.025 39.130 0.00 0.00 0.00 1.89
1992 2385 5.269505 AGCAGCTCTGATAAACGAATACT 57.730 39.130 0.29 0.00 0.00 2.12
1993 2386 5.046529 AGCAGCTCTGATAAACGAATACTG 58.953 41.667 0.29 0.00 0.00 2.74
1994 2387 5.043903 GCAGCTCTGATAAACGAATACTGA 58.956 41.667 0.29 0.00 0.00 3.41
1996 2389 6.201806 GCAGCTCTGATAAACGAATACTGAAT 59.798 38.462 0.29 0.00 0.00 2.57
2008 2401 9.436957 AAACGAATACTGAATTACTGATCTGTT 57.563 29.630 10.76 0.00 0.00 3.16
2020 2413 7.715265 TTACTGATCTGTTCTGAAAAGACAC 57.285 36.000 12.34 10.16 0.00 3.67
2045 2438 5.357878 GCTACAGAATTCAACCATCATTCCA 59.642 40.000 8.44 0.00 0.00 3.53
2076 2469 4.506758 GCAATGGAACAAGCATACCATTT 58.493 39.130 0.00 0.00 46.61 2.32
2077 2470 4.937015 GCAATGGAACAAGCATACCATTTT 59.063 37.500 0.00 0.00 46.61 1.82
2078 2471 5.412286 GCAATGGAACAAGCATACCATTTTT 59.588 36.000 0.00 0.00 46.61 1.94
2079 2472 6.593382 GCAATGGAACAAGCATACCATTTTTA 59.407 34.615 0.00 0.00 46.61 1.52
2080 2473 7.280652 GCAATGGAACAAGCATACCATTTTTAT 59.719 33.333 0.00 0.00 46.61 1.40
2081 2474 9.165035 CAATGGAACAAGCATACCATTTTTATT 57.835 29.630 0.00 0.00 46.61 1.40
2082 2475 9.737844 AATGGAACAAGCATACCATTTTTATTT 57.262 25.926 0.00 0.00 46.61 1.40
2095 2488 8.622948 ACCATTTTTATTTTATTTTTGCGGGA 57.377 26.923 0.00 0.00 0.00 5.14
2096 2489 9.067986 ACCATTTTTATTTTATTTTTGCGGGAA 57.932 25.926 0.00 0.00 0.00 3.97
2097 2490 9.553418 CCATTTTTATTTTATTTTTGCGGGAAG 57.447 29.630 0.00 0.00 0.00 3.46
2108 2501 4.635769 CGGGAAGCAAGCATACCA 57.364 55.556 0.00 0.00 0.00 3.25
2158 2551 5.680229 CACAGCAAATTAGCGATCATTCTTC 59.320 40.000 0.00 0.00 40.15 2.87
2161 2554 6.018098 CAGCAAATTAGCGATCATTCTTCTCT 60.018 38.462 0.00 0.00 40.15 3.10
2162 2555 6.202570 AGCAAATTAGCGATCATTCTTCTCTC 59.797 38.462 0.00 0.00 40.15 3.20
2163 2556 6.579583 CAAATTAGCGATCATTCTTCTCTCG 58.420 40.000 0.00 0.00 0.00 4.04
2167 2560 3.129462 AGCGATCATTCTTCTCTCGTTGA 59.871 43.478 0.00 0.00 0.00 3.18
2180 2573 8.740906 TCTTCTCTCGTTGACTTTGAAGTATAT 58.259 33.333 0.00 0.00 39.88 0.86
2210 2993 1.610522 GCAGCATCAAGTTCTTGGTGT 59.389 47.619 21.66 9.99 40.16 4.16
2213 2996 3.067180 CAGCATCAAGTTCTTGGTGTTGT 59.933 43.478 24.24 10.96 38.78 3.32
2222 3005 5.948842 AGTTCTTGGTGTTGTATTTACCCT 58.051 37.500 0.00 0.00 33.51 4.34
2230 3013 5.766174 GGTGTTGTATTTACCCTCTTCACAA 59.234 40.000 0.00 0.00 0.00 3.33
2245 3028 2.819595 CAACATCCCAGTCCGGCG 60.820 66.667 0.00 0.00 0.00 6.46
2297 3080 4.036734 CACACAATACAGCAGTTCAGGTTT 59.963 41.667 0.00 0.00 0.00 3.27
2310 3093 4.284490 AGTTCAGGTTTCTGTCATAGAGCA 59.716 41.667 0.00 0.00 41.59 4.26
2316 3099 3.634397 TTCTGTCATAGAGCAAAGGGG 57.366 47.619 0.00 0.00 36.61 4.79
2365 3176 1.020861 TGCTCTGCCGCAAGTGTATG 61.021 55.000 0.00 0.00 36.89 2.39
2377 3188 3.063045 GCAAGTGTATGGGTAACGCTTAC 59.937 47.826 2.08 0.00 43.82 2.34
2404 3257 2.421739 GATACGGGGCGTGCATCT 59.578 61.111 0.00 0.00 41.39 2.90
2462 3315 9.547753 TTTAGAGCTGCCAGTTATAGAAAATAG 57.452 33.333 0.00 0.00 0.00 1.73
2491 3344 6.000219 AGTTGTTTTCAGCTATGACATCAGT 59.000 36.000 0.00 0.00 39.51 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
35 36 7.284034 TCGACTTAGATAGGTAGGGTTTTAGTG 59.716 40.741 0.00 0.00 0.00 2.74
239 240 6.599356 TGTAAAGTACTGAGCACAAGGATA 57.401 37.500 0.00 0.00 0.00 2.59
303 304 6.402981 AATGGGGAGTACTAACCAATTTCT 57.597 37.500 18.74 3.13 36.44 2.52
566 570 2.620886 CCTGTAAACCGAGAGAGAGGGA 60.621 54.545 0.00 0.00 0.00 4.20
567 571 1.751924 CCTGTAAACCGAGAGAGAGGG 59.248 57.143 0.00 0.00 0.00 4.30
568 572 2.424246 GTCCTGTAAACCGAGAGAGAGG 59.576 54.545 0.00 0.00 0.00 3.69
569 573 2.096174 CGTCCTGTAAACCGAGAGAGAG 59.904 54.545 0.00 0.00 0.00 3.20
570 574 2.082231 CGTCCTGTAAACCGAGAGAGA 58.918 52.381 0.00 0.00 0.00 3.10
571 575 1.811359 ACGTCCTGTAAACCGAGAGAG 59.189 52.381 0.00 0.00 0.00 3.20
572 576 1.538512 CACGTCCTGTAAACCGAGAGA 59.461 52.381 0.00 0.00 0.00 3.10
573 577 1.978542 CACGTCCTGTAAACCGAGAG 58.021 55.000 0.00 0.00 0.00 3.20
574 578 0.038892 GCACGTCCTGTAAACCGAGA 60.039 55.000 0.00 0.00 0.00 4.04
575 579 1.342082 CGCACGTCCTGTAAACCGAG 61.342 60.000 0.00 0.00 0.00 4.63
576 580 1.372004 CGCACGTCCTGTAAACCGA 60.372 57.895 0.00 0.00 0.00 4.69
577 581 3.007070 GCGCACGTCCTGTAAACCG 62.007 63.158 0.30 0.00 0.00 4.44
578 582 2.858158 GCGCACGTCCTGTAAACC 59.142 61.111 0.30 0.00 0.00 3.27
579 583 2.468532 CGCGCACGTCCTGTAAAC 59.531 61.111 8.75 0.00 33.53 2.01
589 593 2.824071 AACCTAAGGGTACGCGCACG 62.824 60.000 5.73 0.00 46.67 5.34
590 594 1.079612 AACCTAAGGGTACGCGCAC 60.080 57.895 5.73 2.26 46.67 5.34
591 595 1.079681 CAACCTAAGGGTACGCGCA 60.080 57.895 5.73 0.00 46.67 6.09
592 596 1.079612 ACAACCTAAGGGTACGCGC 60.080 57.895 5.73 0.00 46.67 6.86
593 597 0.244450 TGACAACCTAAGGGTACGCG 59.756 55.000 3.53 3.53 46.67 6.01
594 598 2.460757 TTGACAACCTAAGGGTACGC 57.539 50.000 0.77 0.77 46.67 4.42
595 599 4.998672 TCAAATTGACAACCTAAGGGTACG 59.001 41.667 0.00 0.00 46.67 3.67
596 600 6.250344 GTCAAATTGACAACCTAAGGGTAC 57.750 41.667 20.08 0.00 46.22 3.34
664 668 9.971922 CCTTTTGAAAATAGAACATCTGAAGTT 57.028 29.630 0.00 0.00 0.00 2.66
665 669 9.136323 ACCTTTTGAAAATAGAACATCTGAAGT 57.864 29.630 0.00 0.00 0.00 3.01
715 719 9.936329 AGGTTGTCAATTTTATCACCCTAATAT 57.064 29.630 0.00 0.00 0.00 1.28
717 721 9.408648 CTAGGTTGTCAATTTTATCACCCTAAT 57.591 33.333 0.00 0.00 27.80 1.73
718 722 7.832187 CCTAGGTTGTCAATTTTATCACCCTAA 59.168 37.037 0.00 0.00 27.80 2.69
719 723 7.037153 ACCTAGGTTGTCAATTTTATCACCCTA 60.037 37.037 9.21 0.00 0.00 3.53
720 724 6.187682 CCTAGGTTGTCAATTTTATCACCCT 58.812 40.000 0.00 0.00 0.00 4.34
721 725 5.949952 ACCTAGGTTGTCAATTTTATCACCC 59.050 40.000 9.21 0.00 0.00 4.61
722 726 8.747538 ATACCTAGGTTGTCAATTTTATCACC 57.252 34.615 22.11 0.00 0.00 4.02
724 728 9.537192 CGTATACCTAGGTTGTCAATTTTATCA 57.463 33.333 22.11 0.00 0.00 2.15
725 729 8.493547 GCGTATACCTAGGTTGTCAATTTTATC 58.506 37.037 22.11 0.00 0.00 1.75
726 730 7.170320 CGCGTATACCTAGGTTGTCAATTTTAT 59.830 37.037 22.11 5.71 0.00 1.40
727 731 6.476380 CGCGTATACCTAGGTTGTCAATTTTA 59.524 38.462 22.11 0.00 0.00 1.52
728 732 5.292589 CGCGTATACCTAGGTTGTCAATTTT 59.707 40.000 22.11 0.00 0.00 1.82
729 733 4.807304 CGCGTATACCTAGGTTGTCAATTT 59.193 41.667 22.11 0.00 0.00 1.82
730 734 4.142093 ACGCGTATACCTAGGTTGTCAATT 60.142 41.667 22.11 0.00 0.00 2.32
731 735 3.382546 ACGCGTATACCTAGGTTGTCAAT 59.617 43.478 22.11 9.64 0.00 2.57
732 736 2.754552 ACGCGTATACCTAGGTTGTCAA 59.245 45.455 22.11 0.75 0.00 3.18
733 737 2.368439 ACGCGTATACCTAGGTTGTCA 58.632 47.619 22.11 1.21 0.00 3.58
734 738 4.214119 TCATACGCGTATACCTAGGTTGTC 59.786 45.833 29.79 9.56 0.00 3.18
735 739 4.023707 GTCATACGCGTATACCTAGGTTGT 60.024 45.833 29.79 12.13 0.00 3.32
736 740 4.214971 AGTCATACGCGTATACCTAGGTTG 59.785 45.833 29.79 16.60 0.00 3.77
737 741 4.392940 AGTCATACGCGTATACCTAGGTT 58.607 43.478 29.79 10.62 0.00 3.50
738 742 4.013267 AGTCATACGCGTATACCTAGGT 57.987 45.455 29.79 20.57 0.00 3.08
739 743 4.214971 ACAAGTCATACGCGTATACCTAGG 59.785 45.833 29.79 22.15 0.00 3.02
740 744 5.354054 ACAAGTCATACGCGTATACCTAG 57.646 43.478 29.79 20.92 0.00 3.02
741 745 6.859420 TTACAAGTCATACGCGTATACCTA 57.141 37.500 29.79 13.85 0.00 3.08
742 746 5.756195 TTACAAGTCATACGCGTATACCT 57.244 39.130 29.79 23.54 0.00 3.08
743 747 5.973565 AGTTTACAAGTCATACGCGTATACC 59.026 40.000 29.79 21.86 0.00 2.73
744 748 7.441878 AAGTTTACAAGTCATACGCGTATAC 57.558 36.000 29.79 24.57 0.00 1.47
745 749 8.611757 TCTAAGTTTACAAGTCATACGCGTATA 58.388 33.333 29.79 16.05 0.00 1.47
746 750 7.430502 GTCTAAGTTTACAAGTCATACGCGTAT 59.569 37.037 25.54 25.54 0.00 3.06
747 751 6.742718 GTCTAAGTTTACAAGTCATACGCGTA 59.257 38.462 22.94 22.94 0.00 4.42
748 752 5.570589 GTCTAAGTTTACAAGTCATACGCGT 59.429 40.000 19.17 19.17 0.00 6.01
749 753 5.275142 CGTCTAAGTTTACAAGTCATACGCG 60.275 44.000 3.53 3.53 0.00 6.01
750 754 5.796935 TCGTCTAAGTTTACAAGTCATACGC 59.203 40.000 0.00 0.00 0.00 4.42
751 755 7.008086 CCTTCGTCTAAGTTTACAAGTCATACG 59.992 40.741 0.00 0.00 32.89 3.06
752 756 7.275123 CCCTTCGTCTAAGTTTACAAGTCATAC 59.725 40.741 0.00 0.00 32.89 2.39
753 757 7.177216 TCCCTTCGTCTAAGTTTACAAGTCATA 59.823 37.037 0.00 0.00 32.89 2.15
754 758 6.014840 TCCCTTCGTCTAAGTTTACAAGTCAT 60.015 38.462 0.00 0.00 32.89 3.06
755 759 5.302568 TCCCTTCGTCTAAGTTTACAAGTCA 59.697 40.000 0.00 0.00 32.89 3.41
756 760 5.776744 TCCCTTCGTCTAAGTTTACAAGTC 58.223 41.667 0.00 0.00 32.89 3.01
757 761 5.796424 TCCCTTCGTCTAAGTTTACAAGT 57.204 39.130 0.00 0.00 32.89 3.16
758 762 7.816031 TGTATTCCCTTCGTCTAAGTTTACAAG 59.184 37.037 0.00 0.00 32.89 3.16
759 763 7.669427 TGTATTCCCTTCGTCTAAGTTTACAA 58.331 34.615 0.00 0.00 32.89 2.41
760 764 7.230849 TGTATTCCCTTCGTCTAAGTTTACA 57.769 36.000 0.00 0.00 32.89 2.41
761 765 7.977853 TCATGTATTCCCTTCGTCTAAGTTTAC 59.022 37.037 0.00 0.00 32.89 2.01
762 766 8.070034 TCATGTATTCCCTTCGTCTAAGTTTA 57.930 34.615 0.00 0.00 32.89 2.01
763 767 6.942976 TCATGTATTCCCTTCGTCTAAGTTT 58.057 36.000 0.00 0.00 32.89 2.66
764 768 6.540438 TCATGTATTCCCTTCGTCTAAGTT 57.460 37.500 0.00 0.00 32.89 2.66
765 769 6.540438 TTCATGTATTCCCTTCGTCTAAGT 57.460 37.500 0.00 0.00 32.89 2.24
766 770 7.041780 CCATTTCATGTATTCCCTTCGTCTAAG 60.042 40.741 0.00 0.00 34.73 2.18
767 771 6.765989 CCATTTCATGTATTCCCTTCGTCTAA 59.234 38.462 0.00 0.00 0.00 2.10
768 772 6.288294 CCATTTCATGTATTCCCTTCGTCTA 58.712 40.000 0.00 0.00 0.00 2.59
769 773 5.126067 CCATTTCATGTATTCCCTTCGTCT 58.874 41.667 0.00 0.00 0.00 4.18
770 774 4.261197 GCCATTTCATGTATTCCCTTCGTC 60.261 45.833 0.00 0.00 0.00 4.20
771 775 3.632145 GCCATTTCATGTATTCCCTTCGT 59.368 43.478 0.00 0.00 0.00 3.85
772 776 3.004734 GGCCATTTCATGTATTCCCTTCG 59.995 47.826 0.00 0.00 0.00 3.79
773 777 3.321968 GGGCCATTTCATGTATTCCCTTC 59.678 47.826 4.39 0.00 0.00 3.46
774 778 3.308401 GGGCCATTTCATGTATTCCCTT 58.692 45.455 4.39 0.00 0.00 3.95
775 779 2.247111 TGGGCCATTTCATGTATTCCCT 59.753 45.455 0.00 0.00 33.77 4.20
776 780 2.676748 TGGGCCATTTCATGTATTCCC 58.323 47.619 0.00 2.41 0.00 3.97
777 781 4.751767 TTTGGGCCATTTCATGTATTCC 57.248 40.909 7.26 0.00 0.00 3.01
778 782 7.465781 CGAAATTTTGGGCCATTTCATGTATTC 60.466 37.037 23.68 11.93 38.72 1.75
779 783 6.315891 CGAAATTTTGGGCCATTTCATGTATT 59.684 34.615 23.68 7.61 38.72 1.89
780 784 5.816777 CGAAATTTTGGGCCATTTCATGTAT 59.183 36.000 23.68 1.27 38.72 2.29
781 785 5.047021 TCGAAATTTTGGGCCATTTCATGTA 60.047 36.000 23.68 9.02 38.72 2.29
782 786 4.002316 CGAAATTTTGGGCCATTTCATGT 58.998 39.130 23.68 4.92 38.72 3.21
783 787 4.252073 TCGAAATTTTGGGCCATTTCATG 58.748 39.130 23.68 12.93 38.72 3.07
784 788 4.506758 CTCGAAATTTTGGGCCATTTCAT 58.493 39.130 23.68 6.62 38.72 2.57
785 789 3.864160 GCTCGAAATTTTGGGCCATTTCA 60.864 43.478 23.68 13.66 38.72 2.69
1081 1183 2.612115 CCCAGTCCCTTGCCTCCT 60.612 66.667 0.00 0.00 0.00 3.69
1391 1497 1.344942 CGGAAGCGACAAAGACCGAG 61.345 60.000 0.00 0.00 42.40 4.63
1406 1518 0.392998 GCTCTTGGAATCTGCCGGAA 60.393 55.000 5.05 0.00 0.00 4.30
1410 1522 2.119801 TCAAGCTCTTGGAATCTGCC 57.880 50.000 9.48 0.00 40.78 4.85
1422 1536 3.064900 AGTCAGGGTTTCATCAAGCTC 57.935 47.619 0.00 0.00 33.01 4.09
1454 1570 6.208007 TCGAACTACATAGACAGAGGAAACAA 59.792 38.462 0.00 0.00 0.00 2.83
1469 1591 4.082408 TCCACGATTCAGTTCGAACTACAT 60.082 41.667 29.28 22.51 41.62 2.29
1502 1624 3.758023 TCATTTCCAACAAGATGTGCGAT 59.242 39.130 0.00 0.00 0.00 4.58
1508 1631 6.979817 TGACAAGTTTCATTTCCAACAAGATG 59.020 34.615 0.00 0.00 0.00 2.90
1533 1657 1.001378 GAAAGACGGCATTTGCACAGT 60.001 47.619 4.74 1.34 44.36 3.55
1581 1705 0.036952 CCACCTCAAGCTCACACGAT 60.037 55.000 0.00 0.00 0.00 3.73
1583 1707 2.320587 GCCACCTCAAGCTCACACG 61.321 63.158 0.00 0.00 0.00 4.49
1586 1710 0.524862 CATTGCCACCTCAAGCTCAC 59.475 55.000 0.00 0.00 0.00 3.51
1589 1713 0.403271 ACTCATTGCCACCTCAAGCT 59.597 50.000 0.00 0.00 0.00 3.74
1590 1714 1.068055 CAACTCATTGCCACCTCAAGC 60.068 52.381 0.00 0.00 0.00 4.01
1591 1715 2.507484 TCAACTCATTGCCACCTCAAG 58.493 47.619 0.00 0.00 35.63 3.02
1602 1750 8.102047 TGGAAAATTATGGCAAATCAACTCATT 58.898 29.630 0.00 0.00 0.00 2.57
1642 1790 4.345837 ACCCTGCAAACAAGTACAGTAGTA 59.654 41.667 0.00 0.00 0.00 1.82
1644 1792 3.740115 ACCCTGCAAACAAGTACAGTAG 58.260 45.455 0.00 0.00 0.00 2.57
1664 1818 6.421202 TGGCGTTTTTCCACATTACAAATTAC 59.579 34.615 0.00 0.00 0.00 1.89
1679 1838 1.886886 TAGTCCCTGTGGCGTTTTTC 58.113 50.000 0.00 0.00 0.00 2.29
1705 1865 1.100510 TGTCCCTGAATCGAGGTACG 58.899 55.000 0.00 0.00 44.09 3.67
1709 1871 3.482156 AATGATGTCCCTGAATCGAGG 57.518 47.619 0.00 0.00 0.00 4.63
1721 1883 4.082895 AGCAGAAACAGAGCAAATGATGTC 60.083 41.667 0.00 0.00 0.00 3.06
1745 1907 8.288208 GTCCAGTATAAATGCATCAGATCAAAG 58.712 37.037 0.00 0.00 0.00 2.77
1818 2198 4.127171 TGGAAGCACAGTTCAAGAAGTAC 58.873 43.478 0.00 0.00 0.00 2.73
1823 2204 3.281727 AGTTGGAAGCACAGTTCAAGA 57.718 42.857 0.00 0.00 0.00 3.02
1844 2225 5.588246 TCATGTACATGTATTGCAATTCCGT 59.412 36.000 30.03 14.07 39.72 4.69
1860 2242 2.047061 GCCAGGAGGGTATCATGTACA 58.953 52.381 0.00 0.00 38.04 2.90
1861 2243 2.037772 CTGCCAGGAGGGTATCATGTAC 59.962 54.545 0.00 0.00 38.04 2.90
1866 2248 0.042581 TCACTGCCAGGAGGGTATCA 59.957 55.000 0.00 0.00 39.65 2.15
1876 2258 1.027357 AAAGTTGCTGTCACTGCCAG 58.973 50.000 3.95 0.00 0.00 4.85
1895 2277 7.772292 CCTCTTGATCAATTCAACTCAAGGATA 59.228 37.037 8.96 0.00 42.99 2.59
1902 2284 4.456911 TGCACCTCTTGATCAATTCAACTC 59.543 41.667 8.96 0.00 39.44 3.01
1985 2378 8.750416 CAGAACAGATCAGTAATTCAGTATTCG 58.250 37.037 0.00 0.00 0.00 3.34
1989 2382 9.996554 TTTTCAGAACAGATCAGTAATTCAGTA 57.003 29.630 0.00 0.00 0.00 2.74
1990 2383 8.908786 TTTTCAGAACAGATCAGTAATTCAGT 57.091 30.769 0.00 0.00 0.00 3.41
1991 2384 9.212641 TCTTTTCAGAACAGATCAGTAATTCAG 57.787 33.333 0.00 0.00 0.00 3.02
1992 2385 8.993121 GTCTTTTCAGAACAGATCAGTAATTCA 58.007 33.333 2.29 0.00 0.00 2.57
1993 2386 8.993121 TGTCTTTTCAGAACAGATCAGTAATTC 58.007 33.333 2.29 0.00 0.00 2.17
1994 2387 8.778358 GTGTCTTTTCAGAACAGATCAGTAATT 58.222 33.333 2.29 0.00 0.00 1.40
1996 2389 6.420903 CGTGTCTTTTCAGAACAGATCAGTAA 59.579 38.462 2.29 0.00 0.00 2.24
2001 2394 3.743396 AGCGTGTCTTTTCAGAACAGATC 59.257 43.478 2.29 0.00 0.00 2.75
2006 2399 4.049186 TCTGTAGCGTGTCTTTTCAGAAC 58.951 43.478 0.00 0.00 0.00 3.01
2008 2401 4.316205 TTCTGTAGCGTGTCTTTTCAGA 57.684 40.909 0.00 0.00 0.00 3.27
2013 2406 4.213482 GGTTGAATTCTGTAGCGTGTCTTT 59.787 41.667 7.05 0.00 0.00 2.52
2020 2413 5.490139 AATGATGGTTGAATTCTGTAGCG 57.510 39.130 7.05 0.00 0.00 4.26
2045 2438 2.198827 TGTTCCATTGCCGTTCTGAT 57.801 45.000 0.00 0.00 0.00 2.90
2090 2483 1.312371 TTGGTATGCTTGCTTCCCGC 61.312 55.000 0.00 0.00 39.77 6.13
2091 2484 0.734889 CTTGGTATGCTTGCTTCCCG 59.265 55.000 0.00 0.00 0.00 5.14
2092 2485 1.839424 ACTTGGTATGCTTGCTTCCC 58.161 50.000 0.00 0.00 0.00 3.97
2093 2486 4.261801 TCTAACTTGGTATGCTTGCTTCC 58.738 43.478 0.00 0.00 0.00 3.46
2094 2487 6.261118 CAATCTAACTTGGTATGCTTGCTTC 58.739 40.000 0.00 0.00 0.00 3.86
2095 2488 5.126061 CCAATCTAACTTGGTATGCTTGCTT 59.874 40.000 0.00 0.00 40.72 3.91
2096 2489 4.641989 CCAATCTAACTTGGTATGCTTGCT 59.358 41.667 0.00 0.00 40.72 3.91
2097 2490 4.925068 CCAATCTAACTTGGTATGCTTGC 58.075 43.478 0.00 0.00 40.72 4.01
2125 2518 9.831737 GATCGCTAATTTGCTGTGAATAAATAT 57.168 29.630 10.13 0.00 0.00 1.28
2126 2519 8.835439 TGATCGCTAATTTGCTGTGAATAAATA 58.165 29.630 10.13 0.00 0.00 1.40
2127 2520 7.706159 TGATCGCTAATTTGCTGTGAATAAAT 58.294 30.769 10.13 0.00 0.00 1.40
2128 2521 7.082700 TGATCGCTAATTTGCTGTGAATAAA 57.917 32.000 10.13 0.00 0.00 1.40
2129 2522 6.676237 TGATCGCTAATTTGCTGTGAATAA 57.324 33.333 10.13 0.00 0.00 1.40
2180 2573 5.474532 AGAACTTGATGCTGCTGTGAATAAA 59.525 36.000 0.00 0.00 0.00 1.40
2185 2578 2.551032 CAAGAACTTGATGCTGCTGTGA 59.449 45.455 8.65 0.00 42.93 3.58
2186 2579 2.351447 CCAAGAACTTGATGCTGCTGTG 60.351 50.000 14.99 0.00 42.93 3.66
2188 2581 1.884579 ACCAAGAACTTGATGCTGCTG 59.115 47.619 14.99 0.13 42.93 4.41
2210 2993 6.657541 GGATGTTGTGAAGAGGGTAAATACAA 59.342 38.462 0.00 0.00 0.00 2.41
2213 2996 5.251932 TGGGATGTTGTGAAGAGGGTAAATA 59.748 40.000 0.00 0.00 0.00 1.40
2222 3005 1.001974 CGGACTGGGATGTTGTGAAGA 59.998 52.381 0.00 0.00 0.00 2.87
2245 3028 2.770699 GCATGGTTGCTCTAATCTGC 57.229 50.000 0.00 0.00 45.77 4.26
2269 3052 2.154462 ACTGCTGTATTGTGTGCCTTC 58.846 47.619 0.00 0.00 0.00 3.46
2297 3080 2.501723 GTCCCCTTTGCTCTATGACAGA 59.498 50.000 0.00 0.00 0.00 3.41
2316 3099 1.416401 TCAACCAAGGACTCTGGTGTC 59.584 52.381 0.00 0.00 35.88 3.67
2328 3111 2.549754 AGCAATCGTGTTCTCAACCAAG 59.450 45.455 0.00 0.00 0.00 3.61
2333 3116 1.800586 GCAGAGCAATCGTGTTCTCAA 59.199 47.619 0.00 0.00 42.85 3.02
2365 3176 1.517039 CGGGTCGTAAGCGTTACCC 60.517 63.158 0.00 0.00 46.00 3.69
2388 3240 2.108976 CAGATGCACGCCCCGTAT 59.891 61.111 0.00 0.00 38.32 3.06
2421 3274 3.367087 GCTCTAAAACTGACTACCTCGCA 60.367 47.826 0.00 0.00 0.00 5.10
2423 3276 4.416620 CAGCTCTAAAACTGACTACCTCG 58.583 47.826 0.00 0.00 35.90 4.63
2428 3281 3.578716 ACTGGCAGCTCTAAAACTGACTA 59.421 43.478 15.89 0.00 42.74 2.59
2462 3315 5.008613 TGTCATAGCTGAAAACAACTTGTCC 59.991 40.000 0.00 0.00 31.85 4.02


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

AutoCloner maintained by Alex Coulton.