Multiple sequence alignment - TraesCS3A01G500600

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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 TraesCS3A01G500600 chr3A 100.000 7118 0 0 1 7118 724883305 724876188 0.000000e+00 13145
1 TraesCS3A01G500600 chr3A 100.000 806 0 0 7312 8117 724875994 724875189 0.000000e+00 1489
2 TraesCS3A01G500600 chr3A 97.758 803 17 1 1 803 724925141 724924340 0.000000e+00 1382
3 TraesCS3A01G500600 chr3A 89.542 918 72 10 5308 6223 725069391 725068496 0.000000e+00 1142
4 TraesCS3A01G500600 chr3A 89.429 350 20 3 4953 5301 725069919 725069586 7.530000e-115 425
5 TraesCS3A01G500600 chr7A 97.832 5674 51 15 888 6529 92385861 92391494 0.000000e+00 9731
6 TraesCS3A01G500600 chr7A 96.552 435 14 1 1 435 92384616 92385049 0.000000e+00 719
7 TraesCS3A01G500600 chr7A 91.582 392 14 4 491 863 92385402 92385793 2.600000e-144 523
8 TraesCS3A01G500600 chr7A 83.611 360 25 20 6786 7116 92391486 92391840 2.850000e-79 307
9 TraesCS3A01G500600 chr3D 96.927 4849 97 18 1707 6529 594003086 593998264 0.000000e+00 8082
10 TraesCS3A01G500600 chr3D 89.278 2910 220 37 3605 6456 594147362 594150237 0.000000e+00 3561
11 TraesCS3A01G500600 chr3D 88.225 2743 202 51 880 3551 594490555 594487863 0.000000e+00 3164
12 TraesCS3A01G500600 chr3D 93.018 1862 100 13 1703 3554 594191623 594193464 0.000000e+00 2691
13 TraesCS3A01G500600 chr3D 90.830 1265 87 13 3704 4946 594487491 594486234 0.000000e+00 1666
14 TraesCS3A01G500600 chr3D 85.792 1464 121 38 894 2301 594144518 594145950 0.000000e+00 1471
15 TraesCS3A01G500600 chr3D 91.095 1078 68 13 3605 4663 594193773 594194841 0.000000e+00 1434
16 TraesCS3A01G500600 chr3D 94.295 894 45 3 5567 6454 594195984 594196877 0.000000e+00 1363
17 TraesCS3A01G500600 chr3D 92.668 832 41 14 888 1703 594003949 594003122 0.000000e+00 1181
18 TraesCS3A01G500600 chr3D 89.989 889 62 14 831 1703 594190715 594191592 0.000000e+00 1123
19 TraesCS3A01G500600 chr3D 89.468 902 54 10 1 863 594004916 594004017 0.000000e+00 1101
20 TraesCS3A01G500600 chr3D 89.939 815 61 12 2311 3105 594146085 594146898 0.000000e+00 1031
21 TraesCS3A01G500600 chr3D 91.871 529 34 5 5003 5531 594195463 594195982 0.000000e+00 730
22 TraesCS3A01G500600 chr3D 85.484 682 63 15 178 827 594189670 594190347 0.000000e+00 678
23 TraesCS3A01G500600 chr3D 82.327 679 76 26 222 863 594491850 594491179 4.280000e-152 549
24 TraesCS3A01G500600 chr3D 88.330 437 23 16 7692 8117 594197774 594198193 4.370000e-137 499
25 TraesCS3A01G500600 chr3D 85.971 278 22 13 6791 7054 593998265 593997991 1.720000e-71 281
26 TraesCS3A01G500600 chr3D 80.556 360 32 17 6789 7117 594197000 594197352 8.140000e-60 243
27 TraesCS3A01G500600 chr3D 87.786 131 10 3 7312 7436 594197386 594197516 1.830000e-31 148
28 TraesCS3A01G500600 chr3D 86.087 115 8 4 6518 6624 594196880 594196994 5.150000e-22 117
29 TraesCS3A01G500600 chr3B 93.018 1862 97 12 1707 3554 797447371 797449213 0.000000e+00 2687
30 TraesCS3A01G500600 chr3B 91.045 1876 100 32 1707 3554 797750495 797748660 0.000000e+00 2471
31 TraesCS3A01G500600 chr3B 88.773 1719 123 28 3863 5534 797449892 797451587 0.000000e+00 2041
32 TraesCS3A01G500600 chr3B 92.432 1242 69 9 1781 3011 797129322 797130549 0.000000e+00 1749
33 TraesCS3A01G500600 chr3B 88.921 1372 111 18 3605 4946 797748342 797746982 0.000000e+00 1653
34 TraesCS3A01G500600 chr3B 88.462 1274 99 12 4953 6213 797728403 797727165 0.000000e+00 1495
35 TraesCS3A01G500600 chr3B 89.286 924 47 16 726 1623 797751533 797750636 0.000000e+00 1110
36 TraesCS3A01G500600 chr3B 91.478 751 46 16 888 1623 797446478 797447225 0.000000e+00 1016
37 TraesCS3A01G500600 chr3B 84.175 891 87 25 51 895 797444879 797445761 0.000000e+00 815
38 TraesCS3A01G500600 chr3B 84.396 737 66 28 867 1583 797128622 797129329 0.000000e+00 678
39 TraesCS3A01G500600 chr3B 91.828 465 35 3 5565 6026 797451584 797452048 0.000000e+00 645
40 TraesCS3A01G500600 chr3B 90.733 464 40 3 184 647 797752141 797751681 4.160000e-172 616
41 TraesCS3A01G500600 chr3B 89.572 374 25 6 6170 6529 797452053 797452426 5.740000e-126 462
42 TraesCS3A01G500600 chr3B 84.167 480 33 23 7655 8117 797453106 797453559 7.530000e-115 425
43 TraesCS3A01G500600 chr3B 84.594 357 21 18 6786 7116 797452418 797452766 2.830000e-84 324
44 TraesCS3A01G500600 chr3B 85.537 242 35 0 6223 6464 797726047 797725806 3.760000e-63 254
45 TraesCS3A01G500600 chr3B 87.013 231 21 6 3605 3826 797449538 797449768 1.350000e-62 252
46 TraesCS3A01G500600 chr3B 81.564 179 16 7 3200 3372 797130558 797130725 1.840000e-26 132
47 TraesCS3A01G500600 chr3B 87.387 111 8 2 7312 7416 797452790 797452900 1.110000e-23 122
48 TraesCS3A01G500600 chrUn 90.228 1801 120 22 1784 3551 45794550 45792773 0.000000e+00 2300
49 TraesCS3A01G500600 chrUn 90.830 1265 87 13 3704 4946 45792401 45791144 0.000000e+00 1666
50 TraesCS3A01G500600 chrUn 100.000 389 0 0 2273 2661 480171108 480171496 0.000000e+00 719
51 TraesCS3A01G500600 chr2D 93.714 175 11 0 6611 6785 309971409 309971583 6.250000e-66 263
52 TraesCS3A01G500600 chr2D 92.737 179 10 3 6607 6785 89441457 89441282 1.050000e-63 255
53 TraesCS3A01G500600 chr2B 92.778 180 11 2 6621 6799 404425751 404425929 8.080000e-65 259
54 TraesCS3A01G500600 chr2B 91.398 186 12 4 6601 6785 248146407 248146225 1.350000e-62 252
55 TraesCS3A01G500600 chr1B 93.642 173 11 0 6614 6786 519817800 519817972 8.080000e-65 259
56 TraesCS3A01G500600 chr1D 93.143 175 12 0 6611 6785 121437337 121437163 2.910000e-64 257
57 TraesCS3A01G500600 chr1D 92.737 179 10 3 6607 6785 323833078 323833253 1.050000e-63 255
58 TraesCS3A01G500600 chr7D 91.351 185 15 1 6621 6804 459391924 459392108 1.350000e-62 252
59 TraesCS3A01G500600 chr6D 89.340 197 18 3 6589 6785 243033083 243032890 2.260000e-60 244
60 TraesCS3A01G500600 chr2A 83.209 268 32 7 6789 7055 526303820 526304075 4.900000e-57 233
61 TraesCS3A01G500600 chr2A 93.431 137 8 1 5449 5585 526302575 526302710 1.380000e-47 202
62 TraesCS3A01G500600 chr2A 89.781 137 13 1 5240 5375 526302430 526302566 3.010000e-39 174


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 TraesCS3A01G500600 chr3A 724875189 724883305 8116 True 7317.00 13145 100.000000 1 8117 2 chr3A.!!$R2 8116
1 TraesCS3A01G500600 chr3A 724924340 724925141 801 True 1382.00 1382 97.758000 1 803 1 chr3A.!!$R1 802
2 TraesCS3A01G500600 chr3A 725068496 725069919 1423 True 783.50 1142 89.485500 4953 6223 2 chr3A.!!$R3 1270
3 TraesCS3A01G500600 chr7A 92384616 92391840 7224 False 2820.00 9731 92.394250 1 7116 4 chr7A.!!$F1 7115
4 TraesCS3A01G500600 chr3D 593997991 594004916 6925 True 2661.25 8082 91.258500 1 7054 4 chr3D.!!$R1 7053
5 TraesCS3A01G500600 chr3D 594144518 594150237 5719 False 2021.00 3561 88.336333 894 6456 3 chr3D.!!$F1 5562
6 TraesCS3A01G500600 chr3D 594486234 594491850 5616 True 1793.00 3164 87.127333 222 4946 3 chr3D.!!$R2 4724
7 TraesCS3A01G500600 chr3D 594189670 594198193 8523 False 902.60 2691 88.851100 178 8117 10 chr3D.!!$F2 7939
8 TraesCS3A01G500600 chr3B 797746982 797752141 5159 True 1462.50 2471 89.996250 184 4946 4 chr3B.!!$R2 4762
9 TraesCS3A01G500600 chr3B 797444879 797453559 8680 False 878.90 2687 88.200500 51 8117 10 chr3B.!!$F2 8066
10 TraesCS3A01G500600 chr3B 797725806 797728403 2597 True 874.50 1495 86.999500 4953 6464 2 chr3B.!!$R1 1511
11 TraesCS3A01G500600 chr3B 797128622 797130725 2103 False 853.00 1749 86.130667 867 3372 3 chr3B.!!$F1 2505
12 TraesCS3A01G500600 chrUn 45791144 45794550 3406 True 1983.00 2300 90.529000 1784 4946 2 chrUn.!!$R1 3162
13 TraesCS3A01G500600 chr2A 526302430 526304075 1645 False 203.00 233 88.807000 5240 7055 3 chr2A.!!$F1 1815

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
580 895 0.036732 GATGTGGAGGTGCAGGTTCA 59.963 55.000 0.00 0.0 0.00 3.18 F
934 2409 1.378119 AAAATCGGCGGAACCTCCC 60.378 57.895 7.21 0.0 35.61 4.30 F
935 2410 1.848886 AAAATCGGCGGAACCTCCCT 61.849 55.000 7.21 0.0 35.61 4.20 F
3116 4997 2.224843 TGGTGTCCAACATCTCTGCAAT 60.225 45.455 0.00 0.0 28.61 3.56 F
4042 6467 2.721971 ATCCACGCGATCCATCTGGC 62.722 60.000 15.93 0.0 34.44 4.85 F
6158 9192 1.032014 CCCATTAACCGCCAAGATGG 58.968 55.000 0.00 0.0 41.55 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1440 2989 2.480419 GGAACAAACAGACACAGATCCG 59.520 50.000 0.0 0.0 0.00 4.18 R
3351 5242 0.251354 ATCTCCAGCAACTGTCGCAT 59.749 50.000 0.0 0.0 0.00 4.73 R
3554 5453 2.695147 CTCTGAAGGGGCAAGTTTTTGT 59.305 45.455 0.0 0.0 36.65 2.83 R
5534 8559 4.717991 TGTAATGAACGCAACAGCATAAC 58.282 39.130 0.0 0.0 0.00 1.89 R
6469 10962 0.178767 TGGTGCGAGCATAAGCAGAT 59.821 50.000 0.0 0.0 44.70 2.90 R
7387 12094 0.247695 GTAGCAAAGCCGACGCATTC 60.248 55.000 0.0 0.0 37.52 2.67 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
71 72 8.879759 GTTTAATACGATCTCAACATCTTGGAA 58.120 33.333 0.00 0.00 0.00 3.53
76 77 6.586344 ACGATCTCAACATCTTGGAATGTAT 58.414 36.000 0.00 0.00 38.92 2.29
580 895 0.036732 GATGTGGAGGTGCAGGTTCA 59.963 55.000 0.00 0.00 0.00 3.18
690 1024 2.591715 GCCAGCAACGACAGTGGT 60.592 61.111 0.00 0.00 32.20 4.16
747 1132 2.901042 GGGTGGTGGAGTCCGATC 59.099 66.667 4.30 0.00 0.00 3.69
755 1140 2.356780 GGAGTCCGATCGTTGGGGT 61.357 63.158 15.09 0.00 0.00 4.95
827 1213 5.053145 AGATGAATAGTGCGGATCTGTTTC 58.947 41.667 2.89 0.89 0.00 2.78
847 1598 1.678101 CGGGCTCTTGGATGAAAATCC 59.322 52.381 0.00 0.00 41.10 3.01
934 2409 1.378119 AAAATCGGCGGAACCTCCC 60.378 57.895 7.21 0.00 35.61 4.30
935 2410 1.848886 AAAATCGGCGGAACCTCCCT 61.849 55.000 7.21 0.00 35.61 4.20
1345 2891 6.325919 TCCTTCAAATGCGAGTTGTTAATT 57.674 33.333 0.00 0.00 0.00 1.40
1440 2989 2.479560 GGTATTGGCGATTTTCTGCACC 60.480 50.000 0.00 0.00 0.00 5.01
2685 4531 6.545666 TGCCCATGTAAATACTCATGTTAAGG 59.454 38.462 0.00 0.00 39.53 2.69
2824 4701 4.356405 TCCACTGTGATTGAACTGTCAT 57.644 40.909 9.86 0.00 32.48 3.06
2825 4702 4.067192 TCCACTGTGATTGAACTGTCATG 58.933 43.478 9.86 0.00 32.48 3.07
2826 4703 3.817084 CCACTGTGATTGAACTGTCATGT 59.183 43.478 9.86 0.00 32.48 3.21
2827 4704 4.996758 CCACTGTGATTGAACTGTCATGTA 59.003 41.667 9.86 0.00 32.48 2.29
2828 4705 5.645067 CCACTGTGATTGAACTGTCATGTAT 59.355 40.000 9.86 0.00 32.48 2.29
2829 4706 6.149973 CCACTGTGATTGAACTGTCATGTATT 59.850 38.462 9.86 0.00 32.48 1.89
2830 4707 7.308770 CCACTGTGATTGAACTGTCATGTATTT 60.309 37.037 9.86 0.00 32.48 1.40
2831 4708 8.077991 CACTGTGATTGAACTGTCATGTATTTT 58.922 33.333 0.32 0.00 32.48 1.82
2832 4709 9.283768 ACTGTGATTGAACTGTCATGTATTTTA 57.716 29.630 0.00 0.00 32.48 1.52
3116 4997 2.224843 TGGTGTCCAACATCTCTGCAAT 60.225 45.455 0.00 0.00 28.61 3.56
3117 4998 2.821969 GGTGTCCAACATCTCTGCAATT 59.178 45.455 0.00 0.00 0.00 2.32
3118 4999 3.256631 GGTGTCCAACATCTCTGCAATTT 59.743 43.478 0.00 0.00 0.00 1.82
3119 5000 4.262164 GGTGTCCAACATCTCTGCAATTTT 60.262 41.667 0.00 0.00 0.00 1.82
3351 5242 7.069085 TCTCATGACTCATCACAGTTGATATGA 59.931 37.037 0.00 0.00 40.79 2.15
3554 5453 4.042809 TGCTCTCCTGGGAAATTGACTTAA 59.957 41.667 0.00 0.00 0.00 1.85
4042 6467 2.721971 ATCCACGCGATCCATCTGGC 62.722 60.000 15.93 0.00 34.44 4.85
4339 6766 3.600388 CGAGTGCTGGACCTTTTTCTAT 58.400 45.455 0.00 0.00 0.00 1.98
4968 7795 7.094592 GCCTAATAAGCACCTCTTCCAAATATC 60.095 40.741 0.00 0.00 36.25 1.63
5232 8061 7.495901 AGTCATAGTTGATCTTGTAGGTGATG 58.504 38.462 0.00 0.00 33.56 3.07
5990 9021 3.094572 AGATTTCATGGAAAGTGCTGGG 58.905 45.455 0.00 0.00 34.92 4.45
6158 9192 1.032014 CCCATTAACCGCCAAGATGG 58.968 55.000 0.00 0.00 41.55 3.51
6169 9203 1.830279 CCAAGATGGCATGACACTGT 58.170 50.000 1.45 0.00 0.00 3.55
6469 10962 4.582656 CCTTTATGTTTGGTGGTTCAGTCA 59.417 41.667 0.00 0.00 0.00 3.41
6471 10964 5.957842 TTATGTTTGGTGGTTCAGTCATC 57.042 39.130 0.00 0.00 0.00 2.92
6492 10985 0.514691 GCTTATGCTCGCACCATAGC 59.485 55.000 0.00 0.00 39.25 2.97
6563 11061 2.364970 CCCATTGCCTTTTCTCACACAA 59.635 45.455 0.00 0.00 0.00 3.33
6568 11066 2.034939 TGCCTTTTCTCACACAAGCATG 59.965 45.455 0.00 0.00 0.00 4.06
6569 11067 2.669364 CCTTTTCTCACACAAGCATGC 58.331 47.619 10.51 10.51 0.00 4.06
6570 11068 2.295349 CCTTTTCTCACACAAGCATGCT 59.705 45.455 16.30 16.30 0.00 3.79
6572 11070 0.594602 TTCTCACACAAGCATGCTGC 59.405 50.000 23.48 0.00 45.46 5.25
6573 11071 1.211969 CTCACACAAGCATGCTGCC 59.788 57.895 23.48 0.00 46.52 4.85
6636 11142 7.341805 ACTAAGTAGTACTCCATCCGTTTCTA 58.658 38.462 2.58 0.00 34.13 2.10
6637 11143 7.831193 ACTAAGTAGTACTCCATCCGTTTCTAA 59.169 37.037 2.58 0.00 34.13 2.10
6638 11144 7.472334 AAGTAGTACTCCATCCGTTTCTAAA 57.528 36.000 2.58 0.00 0.00 1.85
6639 11145 7.657023 AGTAGTACTCCATCCGTTTCTAAAT 57.343 36.000 0.00 0.00 0.00 1.40
6644 11150 7.866393 AGTACTCCATCCGTTTCTAAATATTCG 59.134 37.037 0.00 0.00 0.00 3.34
6645 11151 6.579865 ACTCCATCCGTTTCTAAATATTCGT 58.420 36.000 0.00 0.00 0.00 3.85
6646 11152 6.700520 ACTCCATCCGTTTCTAAATATTCGTC 59.299 38.462 0.00 0.00 0.00 4.20
6647 11153 6.812998 TCCATCCGTTTCTAAATATTCGTCT 58.187 36.000 0.00 0.00 0.00 4.18
6648 11154 7.270047 TCCATCCGTTTCTAAATATTCGTCTT 58.730 34.615 0.00 0.00 0.00 3.01
6649 11155 7.767198 TCCATCCGTTTCTAAATATTCGTCTTT 59.233 33.333 0.00 0.00 0.00 2.52
6650 11156 8.395633 CCATCCGTTTCTAAATATTCGTCTTTT 58.604 33.333 0.00 0.00 0.00 2.27
6651 11157 9.769093 CATCCGTTTCTAAATATTCGTCTTTTT 57.231 29.630 0.00 0.00 0.00 1.94
6669 11175 9.884465 CGTCTTTTTAGAGATTTCAAATGAACT 57.116 29.630 0.00 0.00 33.13 3.01
6675 11181 9.567776 TTTAGAGATTTCAAATGAACTACCACA 57.432 29.630 0.00 0.00 33.13 4.17
6676 11182 9.739276 TTAGAGATTTCAAATGAACTACCACAT 57.261 29.630 0.00 0.00 33.13 3.21
6678 11184 9.911788 AGAGATTTCAAATGAACTACCACATAT 57.088 29.630 0.00 0.00 33.13 1.78
6679 11185 9.941664 GAGATTTCAAATGAACTACCACATATG 57.058 33.333 0.00 0.00 33.13 1.78
6680 11186 8.906867 AGATTTCAAATGAACTACCACATATGG 58.093 33.333 7.80 0.00 42.08 2.74
6681 11187 8.821686 ATTTCAAATGAACTACCACATATGGA 57.178 30.769 7.80 0.00 40.19 3.41
6682 11188 8.821686 TTTCAAATGAACTACCACATATGGAT 57.178 30.769 7.80 0.00 40.19 3.41
6723 11229 9.677567 TTTAAAGTGTAGATTCACTCATTTTGC 57.322 29.630 0.00 0.00 46.25 3.68
6726 11232 5.645497 AGTGTAGATTCACTCATTTTGCTCC 59.355 40.000 0.00 0.00 44.07 4.70
6727 11233 4.631377 TGTAGATTCACTCATTTTGCTCCG 59.369 41.667 0.00 0.00 0.00 4.63
6728 11234 3.679389 AGATTCACTCATTTTGCTCCGT 58.321 40.909 0.00 0.00 0.00 4.69
6729 11235 4.832248 AGATTCACTCATTTTGCTCCGTA 58.168 39.130 0.00 0.00 0.00 4.02
6730 11236 4.631813 AGATTCACTCATTTTGCTCCGTAC 59.368 41.667 0.00 0.00 0.00 3.67
6731 11237 2.333926 TCACTCATTTTGCTCCGTACG 58.666 47.619 8.69 8.69 0.00 3.67
6732 11238 2.066262 CACTCATTTTGCTCCGTACGT 58.934 47.619 15.21 0.00 0.00 3.57
6733 11239 3.057386 TCACTCATTTTGCTCCGTACGTA 60.057 43.478 15.21 0.00 0.00 3.57
6734 11240 3.303495 CACTCATTTTGCTCCGTACGTAG 59.697 47.826 15.21 9.26 0.00 3.51
6736 11242 3.504863 TCATTTTGCTCCGTACGTAGTC 58.495 45.455 15.21 5.03 43.93 2.59
6738 11244 2.336554 TTTGCTCCGTACGTAGTCAC 57.663 50.000 15.21 0.00 43.93 3.67
6739 11245 1.527034 TTGCTCCGTACGTAGTCACT 58.473 50.000 15.21 0.00 43.93 3.41
6740 11246 1.081892 TGCTCCGTACGTAGTCACTC 58.918 55.000 15.21 0.00 43.93 3.51
6741 11247 0.026027 GCTCCGTACGTAGTCACTCG 59.974 60.000 15.21 0.00 43.93 4.18
6745 11251 1.460743 CCGTACGTAGTCACTCGTTGA 59.539 52.381 15.21 0.00 43.93 3.18
6747 11253 3.151481 CGTACGTAGTCACTCGTTGAAG 58.849 50.000 7.22 0.00 43.93 3.02
6749 11255 3.265070 ACGTAGTCACTCGTTGAAGTC 57.735 47.619 0.00 0.00 29.74 3.01
6750 11256 2.877168 ACGTAGTCACTCGTTGAAGTCT 59.123 45.455 0.00 0.00 29.74 3.24
6751 11257 3.059051 ACGTAGTCACTCGTTGAAGTCTC 60.059 47.826 0.00 0.00 29.74 3.36
6753 11259 4.388165 CGTAGTCACTCGTTGAAGTCTCTA 59.612 45.833 0.00 0.00 35.39 2.43
6754 11260 5.444877 CGTAGTCACTCGTTGAAGTCTCTAG 60.445 48.000 0.00 0.00 35.39 2.43
6755 11261 4.643463 AGTCACTCGTTGAAGTCTCTAGA 58.357 43.478 0.00 0.00 35.39 2.43
6763 11422 6.802608 TCGTTGAAGTCTCTAGAAAGACAAA 58.197 36.000 13.05 3.88 46.65 2.83
6766 11425 9.360093 CGTTGAAGTCTCTAGAAAGACAAATAT 57.640 33.333 13.05 0.00 46.65 1.28
6780 11439 5.681639 AGACAAATATTTAGGAACGGAGGG 58.318 41.667 0.00 0.00 0.00 4.30
6782 11441 5.681639 ACAAATATTTAGGAACGGAGGGAG 58.318 41.667 0.00 0.00 0.00 4.30
6785 11444 6.667558 AATATTTAGGAACGGAGGGAGTAG 57.332 41.667 0.00 0.00 0.00 2.57
6786 11445 1.772836 TTAGGAACGGAGGGAGTAGC 58.227 55.000 0.00 0.00 0.00 3.58
6787 11446 0.924823 TAGGAACGGAGGGAGTAGCT 59.075 55.000 0.00 0.00 0.00 3.32
6789 11448 1.287146 AGGAACGGAGGGAGTAGCTAA 59.713 52.381 0.00 0.00 0.00 3.09
6790 11449 1.682323 GGAACGGAGGGAGTAGCTAAG 59.318 57.143 0.00 0.00 0.00 2.18
6791 11450 2.377073 GAACGGAGGGAGTAGCTAAGT 58.623 52.381 0.00 0.00 0.00 2.24
6839 11501 2.159894 ACATTACACGCGACATTGTTCG 60.160 45.455 15.93 9.77 42.15 3.95
6850 11525 1.290203 CATTGTTCGCGAGTAGGCAT 58.710 50.000 9.59 0.00 0.00 4.40
6851 11526 1.004610 CATTGTTCGCGAGTAGGCATG 60.005 52.381 9.59 3.80 0.00 4.06
6869 11544 3.443037 CATGCCAACTTTGTTTCGACAA 58.557 40.909 0.00 0.00 0.00 3.18
6874 11549 4.733523 GCCAACTTTGTTTCGACAATGAGT 60.734 41.667 10.81 2.56 0.00 3.41
6938 11621 7.015877 ACCACTAGAACTGTGTGAAATACCTTA 59.984 37.037 0.00 0.00 33.95 2.69
6944 11627 9.314321 AGAACTGTGTGAAATACCTTATTATCG 57.686 33.333 0.00 0.00 0.00 2.92
6996 11681 7.988737 TGATATTGAGCTGTATTTTGAACCTG 58.011 34.615 0.00 0.00 0.00 4.00
7067 11770 3.770263 CCGACACGGTATGTAGAGAAA 57.230 47.619 1.80 0.00 43.56 2.52
7097 11804 3.460144 CGACCGACGCCTTTTCTC 58.540 61.111 0.00 0.00 34.51 2.87
7382 12089 4.639310 CAGCTCTGGAATTGAGTAGCAAAT 59.361 41.667 0.00 0.00 40.48 2.32
7383 12090 4.639310 AGCTCTGGAATTGAGTAGCAAATG 59.361 41.667 0.00 0.00 40.48 2.32
7384 12091 4.732938 GCTCTGGAATTGAGTAGCAAATGC 60.733 45.833 0.00 0.00 40.48 3.56
7387 12094 5.063180 TGGAATTGAGTAGCAAATGCAAG 57.937 39.130 8.28 0.00 45.16 4.01
7392 12105 4.487948 TTGAGTAGCAAATGCAAGAATGC 58.512 39.130 8.28 7.94 45.16 3.56
7427 12140 2.620115 CGCAATGCTGATATGTTTCCCT 59.380 45.455 2.94 0.00 0.00 4.20
7431 12144 6.211515 GCAATGCTGATATGTTTCCCTTAAG 58.788 40.000 0.00 0.00 0.00 1.85
7436 12149 6.826741 TGCTGATATGTTTCCCTTAAGTAACC 59.173 38.462 0.97 0.00 0.00 2.85
7437 12150 6.826741 GCTGATATGTTTCCCTTAAGTAACCA 59.173 38.462 0.97 0.00 0.00 3.67
7464 12209 2.773993 AAAAATGCCATGCCCTCTTG 57.226 45.000 0.00 0.00 0.00 3.02
7471 12216 1.410004 CCATGCCCTCTTGCAATGAT 58.590 50.000 0.00 0.00 45.84 2.45
7497 12242 2.125552 CGAAGCCATCGCCACAGA 60.126 61.111 0.00 0.00 45.89 3.41
7498 12243 2.456119 CGAAGCCATCGCCACAGAC 61.456 63.158 0.00 0.00 45.89 3.51
7499 12244 1.078848 GAAGCCATCGCCACAGACT 60.079 57.895 0.00 0.00 34.57 3.24
7501 12246 0.250901 AAGCCATCGCCACAGACTTT 60.251 50.000 0.00 0.00 34.57 2.66
7535 12280 6.033091 CGAAAGGTTATACCAAAATCAAACGC 59.967 38.462 0.00 0.00 41.95 4.84
7536 12281 4.976987 AGGTTATACCAAAATCAAACGCG 58.023 39.130 3.53 3.53 41.95 6.01
7555 12300 3.854856 GCTGGTGCCCTGTTTTGA 58.145 55.556 1.28 0.00 0.00 2.69
7556 12301 2.123409 GCTGGTGCCCTGTTTTGAA 58.877 52.632 1.28 0.00 0.00 2.69
7559 12304 1.367471 GGTGCCCTGTTTTGAAGGC 59.633 57.895 0.00 0.00 45.96 4.35
7564 12309 1.286880 CCTGTTTTGAAGGCGGCAG 59.713 57.895 13.08 0.00 0.00 4.85
7637 12404 2.076863 AGCATGTGGAAACGCTTCTAC 58.923 47.619 7.99 7.99 41.97 2.59
7667 12434 5.044428 CAAGAATTGTGCAAGAGAGGAAG 57.956 43.478 0.00 0.00 42.34 3.46
7668 12435 4.630644 AGAATTGTGCAAGAGAGGAAGA 57.369 40.909 0.00 0.00 0.00 2.87
7669 12436 4.978099 AGAATTGTGCAAGAGAGGAAGAA 58.022 39.130 0.00 0.00 0.00 2.52
7670 12437 5.380043 AGAATTGTGCAAGAGAGGAAGAAA 58.620 37.500 0.00 0.00 0.00 2.52
7671 12438 5.472820 AGAATTGTGCAAGAGAGGAAGAAAG 59.527 40.000 0.00 0.00 0.00 2.62
7675 12442 4.101585 TGTGCAAGAGAGGAAGAAAGAGAA 59.898 41.667 0.00 0.00 0.00 2.87
7676 12443 5.059833 GTGCAAGAGAGGAAGAAAGAGAAA 58.940 41.667 0.00 0.00 0.00 2.52
7677 12444 5.529060 GTGCAAGAGAGGAAGAAAGAGAAAA 59.471 40.000 0.00 0.00 0.00 2.29
7678 12445 5.529060 TGCAAGAGAGGAAGAAAGAGAAAAC 59.471 40.000 0.00 0.00 0.00 2.43
7679 12446 5.762711 GCAAGAGAGGAAGAAAGAGAAAACT 59.237 40.000 0.00 0.00 0.00 2.66
7680 12447 6.293353 GCAAGAGAGGAAGAAAGAGAAAACTG 60.293 42.308 0.00 0.00 0.00 3.16
7681 12448 5.863965 AGAGAGGAAGAAAGAGAAAACTGG 58.136 41.667 0.00 0.00 0.00 4.00
7683 12450 5.616270 AGAGGAAGAAAGAGAAAACTGGAC 58.384 41.667 0.00 0.00 0.00 4.02
7688 12467 0.472471 AAGAGAAAACTGGACCGCCA 59.528 50.000 0.00 0.00 43.47 5.69
7689 12468 0.693049 AGAGAAAACTGGACCGCCAT 59.307 50.000 0.00 0.00 44.91 4.40
7778 12565 2.373502 CTCTCCCTTTACCCCATCCATC 59.626 54.545 0.00 0.00 0.00 3.51
7779 12566 1.425448 CTCCCTTTACCCCATCCATCC 59.575 57.143 0.00 0.00 0.00 3.51
7780 12567 1.231018 CCCTTTACCCCATCCATCCA 58.769 55.000 0.00 0.00 0.00 3.41
7781 12568 1.788915 CCCTTTACCCCATCCATCCAT 59.211 52.381 0.00 0.00 0.00 3.41
7782 12569 2.993146 CCCTTTACCCCATCCATCCATA 59.007 50.000 0.00 0.00 0.00 2.74
7783 12570 3.597868 CCCTTTACCCCATCCATCCATAT 59.402 47.826 0.00 0.00 0.00 1.78
7813 12601 0.919710 AAAACCCTAGCTAGCCCCTG 59.080 55.000 15.74 1.06 0.00 4.45
7818 12606 1.118356 CCTAGCTAGCCCCTGTCCAG 61.118 65.000 15.74 0.00 0.00 3.86
7819 12607 0.105964 CTAGCTAGCCCCTGTCCAGA 60.106 60.000 12.13 0.00 0.00 3.86
7820 12608 0.105964 TAGCTAGCCCCTGTCCAGAG 60.106 60.000 12.13 0.00 0.00 3.35
7821 12609 1.687493 GCTAGCCCCTGTCCAGAGT 60.687 63.158 2.29 0.00 0.00 3.24
7823 12611 1.001760 TAGCCCCTGTCCAGAGTCC 59.998 63.158 0.00 0.00 0.00 3.85
7825 12613 2.664081 GCCCCTGTCCAGAGTCCAG 61.664 68.421 0.00 0.00 0.00 3.86
7826 12614 1.079256 CCCCTGTCCAGAGTCCAGA 59.921 63.158 0.00 0.00 0.00 3.86
7827 12615 0.545309 CCCCTGTCCAGAGTCCAGAA 60.545 60.000 0.00 0.00 0.00 3.02
7829 12617 0.610687 CCTGTCCAGAGTCCAGAACC 59.389 60.000 0.00 0.00 0.00 3.62
7832 12620 1.155390 TCCAGAGTCCAGAACCCGT 59.845 57.895 0.00 0.00 0.00 5.28
7833 12621 0.898789 TCCAGAGTCCAGAACCCGTC 60.899 60.000 0.00 0.00 0.00 4.79
7834 12622 1.592223 CAGAGTCCAGAACCCGTCC 59.408 63.158 0.00 0.00 0.00 4.79
7835 12623 1.977544 AGAGTCCAGAACCCGTCCG 60.978 63.158 0.00 0.00 0.00 4.79
7836 12624 3.644399 GAGTCCAGAACCCGTCCGC 62.644 68.421 0.00 0.00 0.00 5.54
7837 12625 3.998672 GTCCAGAACCCGTCCGCA 61.999 66.667 0.00 0.00 0.00 5.69
7838 12626 3.998672 TCCAGAACCCGTCCGCAC 61.999 66.667 0.00 0.00 0.00 5.34
7982 12776 1.078356 CCTCTCGTCGTCCTCCTCA 60.078 63.158 0.00 0.00 0.00 3.86
8061 12859 2.696504 CCCTTCCCTTCCCCTCCC 60.697 72.222 0.00 0.00 0.00 4.30
8062 12860 2.127297 CCTTCCCTTCCCCTCCCA 59.873 66.667 0.00 0.00 0.00 4.37
8063 12861 1.309102 CCTTCCCTTCCCCTCCCAT 60.309 63.158 0.00 0.00 0.00 4.00
8068 12868 2.778717 CTTCCCCTCCCATCCCCC 60.779 72.222 0.00 0.00 0.00 5.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
71 72 4.631813 GGCTTTCGAAGACTTGTCATACAT 59.368 41.667 0.00 0.00 34.32 2.29
457 476 1.147191 GGGGAGGAAGGAAAAAGTGGT 59.853 52.381 0.00 0.00 0.00 4.16
580 895 0.247736 CGAGCTTGCTACTTCCAGGT 59.752 55.000 0.00 0.00 0.00 4.00
690 1024 2.231380 GCCCTTCCCTCAACCTCCA 61.231 63.158 0.00 0.00 0.00 3.86
745 1130 2.602676 CCTGTCCCACCCCAACGAT 61.603 63.158 0.00 0.00 0.00 3.73
847 1598 8.543774 CAACTTTTCTATTTATCTAGACCGCAG 58.456 37.037 0.00 0.00 0.00 5.18
934 2409 3.369161 AATGGGGAGGGGAGGGGAG 62.369 68.421 0.00 0.00 0.00 4.30
935 2410 3.309509 AATGGGGAGGGGAGGGGA 61.310 66.667 0.00 0.00 0.00 4.81
1345 2891 5.120674 CAGCTCGTAATCAACAGAAATCACA 59.879 40.000 0.00 0.00 0.00 3.58
1440 2989 2.480419 GGAACAAACAGACACAGATCCG 59.520 50.000 0.00 0.00 0.00 4.18
3351 5242 0.251354 ATCTCCAGCAACTGTCGCAT 59.749 50.000 0.00 0.00 0.00 4.73
3554 5453 2.695147 CTCTGAAGGGGCAAGTTTTTGT 59.305 45.455 0.00 0.00 36.65 2.83
4968 7795 7.803189 ACATAGTACAGAAAAGAAAACAATGCG 59.197 33.333 0.00 0.00 0.00 4.73
5534 8559 4.717991 TGTAATGAACGCAACAGCATAAC 58.282 39.130 0.00 0.00 0.00 1.89
5974 9005 0.609957 CTGCCCAGCACTTTCCATGA 60.610 55.000 0.00 0.00 33.79 3.07
5990 9021 4.875544 TGTTAAATCGTTATCAGCCTGC 57.124 40.909 0.00 0.00 0.00 4.85
6158 9192 9.529325 TTTAGTATGTCTATTACAGTGTCATGC 57.471 33.333 0.00 0.00 42.70 4.06
6434 10918 5.222631 CAAACATAAAGGACAACTGAAGCC 58.777 41.667 0.00 0.00 0.00 4.35
6469 10962 0.178767 TGGTGCGAGCATAAGCAGAT 59.821 50.000 0.00 0.00 44.70 2.90
6471 10964 1.797046 CTATGGTGCGAGCATAAGCAG 59.203 52.381 0.00 0.00 44.70 4.24
6492 10985 0.320247 GACAGGAGTGCAGTGACAGG 60.320 60.000 0.00 0.00 0.00 4.00
6616 11122 9.978044 AATATTTAGAAACGGATGGAGTACTAC 57.022 33.333 0.00 0.00 0.00 2.73
6624 11130 7.478520 AAGACGAATATTTAGAAACGGATGG 57.521 36.000 0.00 0.00 0.00 3.51
6649 11155 9.567776 TGTGGTAGTTCATTTGAAATCTCTAAA 57.432 29.630 0.00 0.00 35.58 1.85
6650 11156 9.739276 ATGTGGTAGTTCATTTGAAATCTCTAA 57.261 29.630 0.00 0.00 35.58 2.10
6654 11160 8.906867 CCATATGTGGTAGTTCATTTGAAATCT 58.093 33.333 0.00 0.00 40.83 2.40
6655 11161 8.902806 TCCATATGTGGTAGTTCATTTGAAATC 58.097 33.333 8.51 0.00 46.16 2.17
6656 11162 8.821686 TCCATATGTGGTAGTTCATTTGAAAT 57.178 30.769 8.51 0.00 46.16 2.17
6657 11163 8.685427 CATCCATATGTGGTAGTTCATTTGAAA 58.315 33.333 8.51 0.00 46.16 2.69
6658 11164 7.833682 ACATCCATATGTGGTAGTTCATTTGAA 59.166 33.333 8.51 0.00 44.79 2.69
6660 11166 7.572523 ACATCCATATGTGGTAGTTCATTTG 57.427 36.000 8.51 0.00 44.79 2.32
6667 11173 9.990868 TGTCTATATACATCCATATGTGGTAGT 57.009 33.333 8.51 10.44 45.99 2.73
6704 11210 4.631377 CGGAGCAAAATGAGTGAATCTACA 59.369 41.667 0.00 0.00 0.00 2.74
6705 11211 4.631813 ACGGAGCAAAATGAGTGAATCTAC 59.368 41.667 0.00 0.00 0.00 2.59
6706 11212 4.832248 ACGGAGCAAAATGAGTGAATCTA 58.168 39.130 0.00 0.00 0.00 1.98
6709 11215 3.370978 CGTACGGAGCAAAATGAGTGAAT 59.629 43.478 7.57 0.00 0.00 2.57
6710 11216 2.734606 CGTACGGAGCAAAATGAGTGAA 59.265 45.455 7.57 0.00 0.00 3.18
6711 11217 2.288579 ACGTACGGAGCAAAATGAGTGA 60.289 45.455 21.06 0.00 0.00 3.41
6712 11218 2.066262 ACGTACGGAGCAAAATGAGTG 58.934 47.619 21.06 0.00 0.00 3.51
6713 11219 2.450609 ACGTACGGAGCAAAATGAGT 57.549 45.000 21.06 0.00 0.00 3.41
6714 11220 3.508762 ACTACGTACGGAGCAAAATGAG 58.491 45.455 27.33 1.42 0.00 2.90
6715 11221 3.057386 TGACTACGTACGGAGCAAAATGA 60.057 43.478 27.33 0.00 0.00 2.57
6718 11224 2.294233 AGTGACTACGTACGGAGCAAAA 59.706 45.455 27.33 7.64 0.00 2.44
6719 11225 1.881973 AGTGACTACGTACGGAGCAAA 59.118 47.619 27.33 10.27 0.00 3.68
6720 11226 1.466167 GAGTGACTACGTACGGAGCAA 59.534 52.381 27.33 12.96 0.00 3.91
6722 11228 0.026027 CGAGTGACTACGTACGGAGC 59.974 60.000 27.33 19.29 0.00 4.70
6723 11229 1.354040 ACGAGTGACTACGTACGGAG 58.646 55.000 25.90 25.90 40.92 4.63
6726 11232 2.861763 TCAACGAGTGACTACGTACG 57.138 50.000 15.01 15.01 41.87 3.67
6727 11233 4.084118 AGACTTCAACGAGTGACTACGTAC 60.084 45.833 9.71 0.00 41.87 3.67
6728 11234 4.060900 AGACTTCAACGAGTGACTACGTA 58.939 43.478 9.71 0.00 41.87 3.57
6729 11235 2.877168 AGACTTCAACGAGTGACTACGT 59.123 45.455 0.00 0.00 44.57 3.57
6730 11236 3.186817 AGAGACTTCAACGAGTGACTACG 59.813 47.826 0.00 0.00 35.39 3.51
6731 11237 4.752661 AGAGACTTCAACGAGTGACTAC 57.247 45.455 0.00 0.00 35.39 2.73
6732 11238 5.791666 TCTAGAGACTTCAACGAGTGACTA 58.208 41.667 0.00 0.00 35.39 2.59
6733 11239 4.643463 TCTAGAGACTTCAACGAGTGACT 58.357 43.478 0.00 0.00 35.39 3.41
6734 11240 5.359716 TTCTAGAGACTTCAACGAGTGAC 57.640 43.478 0.00 0.00 35.39 3.67
6736 11242 5.854338 GTCTTTCTAGAGACTTCAACGAGTG 59.146 44.000 5.16 0.00 42.18 3.51
6738 11244 6.003234 TGTCTTTCTAGAGACTTCAACGAG 57.997 41.667 12.02 0.00 44.99 4.18
6739 11245 6.387041 TTGTCTTTCTAGAGACTTCAACGA 57.613 37.500 12.02 0.00 44.99 3.85
6740 11246 7.644986 ATTTGTCTTTCTAGAGACTTCAACG 57.355 36.000 12.02 0.00 44.99 4.10
6750 11256 9.595823 CCGTTCCTAAATATTTGTCTTTCTAGA 57.404 33.333 11.05 0.00 0.00 2.43
6751 11257 9.595823 TCCGTTCCTAAATATTTGTCTTTCTAG 57.404 33.333 11.05 0.00 0.00 2.43
6753 11259 7.553044 CCTCCGTTCCTAAATATTTGTCTTTCT 59.447 37.037 11.05 0.00 0.00 2.52
6754 11260 7.201705 CCCTCCGTTCCTAAATATTTGTCTTTC 60.202 40.741 11.05 0.00 0.00 2.62
6755 11261 6.602009 CCCTCCGTTCCTAAATATTTGTCTTT 59.398 38.462 11.05 0.00 0.00 2.52
6763 11422 4.527427 GCTACTCCCTCCGTTCCTAAATAT 59.473 45.833 0.00 0.00 0.00 1.28
6766 11425 2.105766 GCTACTCCCTCCGTTCCTAAA 58.894 52.381 0.00 0.00 0.00 1.85
6769 11428 0.924823 TAGCTACTCCCTCCGTTCCT 59.075 55.000 0.00 0.00 0.00 3.36
6772 11431 2.528673 ACTTAGCTACTCCCTCCGTT 57.471 50.000 0.00 0.00 0.00 4.44
6774 11433 5.532664 AAAATACTTAGCTACTCCCTCCG 57.467 43.478 0.00 0.00 0.00 4.63
6839 11501 1.450312 AGTTGGCATGCCTACTCGC 60.450 57.895 37.87 20.17 46.27 5.03
6840 11502 4.941609 AGTTGGCATGCCTACTCG 57.058 55.556 37.87 0.00 46.27 4.18
6938 11621 4.783764 TGCCACGTCATCTATCGATAAT 57.216 40.909 6.58 0.97 0.00 1.28
6941 11624 2.558359 TGATGCCACGTCATCTATCGAT 59.442 45.455 15.76 2.16 42.44 3.59
6943 11626 2.422276 TGATGCCACGTCATCTATCG 57.578 50.000 15.76 0.00 42.44 2.92
6944 11627 3.246226 GTGTTGATGCCACGTCATCTATC 59.754 47.826 15.76 8.46 42.44 2.08
6955 11638 2.865119 ATCAGAGTGTGTTGATGCCA 57.135 45.000 0.00 0.00 33.01 4.92
7055 11740 5.506649 CGCTCTCCCTTCTTTCTCTACATAC 60.507 48.000 0.00 0.00 0.00 2.39
7067 11770 3.453679 GGTCGCGCTCTCCCTTCT 61.454 66.667 5.56 0.00 0.00 2.85
7383 12090 1.067199 CAAAGCCGACGCATTCTTGC 61.067 55.000 0.00 0.00 45.78 4.01
7384 12091 1.067199 GCAAAGCCGACGCATTCTTG 61.067 55.000 0.00 0.00 37.52 3.02
7387 12094 0.247695 GTAGCAAAGCCGACGCATTC 60.248 55.000 0.00 0.00 37.52 2.67
7436 12149 2.610374 GCATGGCATTTTTACCAGCATG 59.390 45.455 0.00 0.00 39.88 4.06
7437 12150 2.420408 GGCATGGCATTTTTACCAGCAT 60.420 45.455 15.47 0.00 39.88 3.79
7448 12193 0.905809 TTGCAAGAGGGCATGGCATT 60.906 50.000 22.06 8.49 44.48 3.56
7464 12209 2.576287 TTCGGTTGCGCGATCATTGC 62.576 55.000 12.10 0.00 0.00 3.56
7507 12252 8.508875 GTTTGATTTTGGTATAACCTTTCGAGA 58.491 33.333 0.00 0.00 39.58 4.04
7516 12261 4.099824 CCCGCGTTTGATTTTGGTATAAC 58.900 43.478 4.92 0.00 0.00 1.89
7519 12264 1.135228 GCCCGCGTTTGATTTTGGTAT 60.135 47.619 4.92 0.00 0.00 2.73
7523 12268 1.008361 CCAGCCCGCGTTTGATTTTG 61.008 55.000 4.92 0.00 0.00 2.44
7527 12272 3.055719 CACCAGCCCGCGTTTGAT 61.056 61.111 4.92 0.00 0.00 2.57
7545 12290 2.146073 CTGCCGCCTTCAAAACAGGG 62.146 60.000 0.00 0.00 31.20 4.45
7546 12291 1.286880 CTGCCGCCTTCAAAACAGG 59.713 57.895 0.00 0.00 34.08 4.00
7547 12292 1.372128 GCTGCCGCCTTCAAAACAG 60.372 57.895 0.00 0.00 0.00 3.16
7548 12293 2.727544 GCTGCCGCCTTCAAAACA 59.272 55.556 0.00 0.00 0.00 2.83
7559 12304 5.560966 TTAATTTTAGAGAAAGGCTGCCG 57.439 39.130 13.96 0.00 0.00 5.69
7598 12343 9.529325 CACATGCTTTGATTTTATGATGAAGAT 57.471 29.630 0.00 0.00 0.00 2.40
7599 12344 7.977293 CCACATGCTTTGATTTTATGATGAAGA 59.023 33.333 0.00 0.00 0.00 2.87
7600 12345 7.977293 TCCACATGCTTTGATTTTATGATGAAG 59.023 33.333 0.00 0.00 0.00 3.02
7603 12355 8.385111 GTTTCCACATGCTTTGATTTTATGATG 58.615 33.333 0.00 0.00 0.00 3.07
7604 12356 7.276218 CGTTTCCACATGCTTTGATTTTATGAT 59.724 33.333 0.00 0.00 0.00 2.45
7612 12364 1.888512 AGCGTTTCCACATGCTTTGAT 59.111 42.857 0.00 0.00 35.32 2.57
7618 12370 1.804151 TGTAGAAGCGTTTCCACATGC 59.196 47.619 9.02 0.00 31.39 4.06
7623 12375 3.188460 GCAGAATTGTAGAAGCGTTTCCA 59.812 43.478 8.51 0.00 33.64 3.53
7651 12418 4.101585 TCTCTTTCTTCCTCTCTTGCACAA 59.898 41.667 0.00 0.00 0.00 3.33
7652 12419 3.643320 TCTCTTTCTTCCTCTCTTGCACA 59.357 43.478 0.00 0.00 0.00 4.57
7653 12420 4.264460 TCTCTTTCTTCCTCTCTTGCAC 57.736 45.455 0.00 0.00 0.00 4.57
7654 12421 4.963318 TTCTCTTTCTTCCTCTCTTGCA 57.037 40.909 0.00 0.00 0.00 4.08
7657 12424 6.100424 TCCAGTTTTCTCTTTCTTCCTCTCTT 59.900 38.462 0.00 0.00 0.00 2.85
7658 12425 5.604650 TCCAGTTTTCTCTTTCTTCCTCTCT 59.395 40.000 0.00 0.00 0.00 3.10
7659 12426 5.699001 GTCCAGTTTTCTCTTTCTTCCTCTC 59.301 44.000 0.00 0.00 0.00 3.20
7660 12427 5.455469 GGTCCAGTTTTCTCTTTCTTCCTCT 60.455 44.000 0.00 0.00 0.00 3.69
7661 12428 4.757657 GGTCCAGTTTTCTCTTTCTTCCTC 59.242 45.833 0.00 0.00 0.00 3.71
7662 12429 4.720046 GGTCCAGTTTTCTCTTTCTTCCT 58.280 43.478 0.00 0.00 0.00 3.36
7663 12430 3.498777 CGGTCCAGTTTTCTCTTTCTTCC 59.501 47.826 0.00 0.00 0.00 3.46
7664 12431 3.058846 GCGGTCCAGTTTTCTCTTTCTTC 60.059 47.826 0.00 0.00 0.00 2.87
7665 12432 2.879026 GCGGTCCAGTTTTCTCTTTCTT 59.121 45.455 0.00 0.00 0.00 2.52
7666 12433 2.495084 GCGGTCCAGTTTTCTCTTTCT 58.505 47.619 0.00 0.00 0.00 2.52
7667 12434 1.535896 GGCGGTCCAGTTTTCTCTTTC 59.464 52.381 0.00 0.00 0.00 2.62
7668 12435 1.133915 TGGCGGTCCAGTTTTCTCTTT 60.134 47.619 0.00 0.00 37.47 2.52
7669 12436 0.472471 TGGCGGTCCAGTTTTCTCTT 59.528 50.000 0.00 0.00 37.47 2.85
7670 12437 2.142220 TGGCGGTCCAGTTTTCTCT 58.858 52.632 0.00 0.00 37.47 3.10
7671 12438 4.792087 TGGCGGTCCAGTTTTCTC 57.208 55.556 0.00 0.00 37.47 2.87
7681 12448 2.436646 CAGGGACACATGGCGGTC 60.437 66.667 0.00 1.64 0.00 4.79
7714 12493 1.203125 TGGATTTGGAGTGGGGTTTCC 60.203 52.381 0.00 0.00 0.00 3.13
7813 12601 1.186267 ACGGGTTCTGGACTCTGGAC 61.186 60.000 0.00 0.00 0.00 4.02
7818 12606 2.572284 CGGACGGGTTCTGGACTC 59.428 66.667 0.00 0.00 0.00 3.36
7819 12607 3.692406 GCGGACGGGTTCTGGACT 61.692 66.667 0.00 0.00 0.00 3.85
7820 12608 3.998672 TGCGGACGGGTTCTGGAC 61.999 66.667 0.00 0.00 0.00 4.02
7821 12609 3.998672 GTGCGGACGGGTTCTGGA 61.999 66.667 0.00 0.00 0.00 3.86
7958 12746 3.878519 GACGACGAGAGGGAGCGG 61.879 72.222 0.00 0.00 0.00 5.52
7970 12764 2.413765 GGCGATGAGGAGGACGAC 59.586 66.667 0.00 0.00 0.00 4.34
7973 12767 4.593864 GCGGGCGATGAGGAGGAC 62.594 72.222 0.00 0.00 0.00 3.85
8043 12837 3.421386 GGAGGGGAAGGGAAGGGC 61.421 72.222 0.00 0.00 0.00 5.19
8094 12894 2.508891 GCTGAATCCGCACGAGACG 61.509 63.158 0.00 0.00 0.00 4.18
8095 12895 2.167861 GGCTGAATCCGCACGAGAC 61.168 63.158 0.00 0.00 0.00 3.36
8096 12896 2.184322 GGCTGAATCCGCACGAGA 59.816 61.111 0.00 0.00 0.00 4.04


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

AutoCloner maintained by Alex Coulton.