Multiple sequence alignment - TraesCS6B01G073200

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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 TraesCS6B01G073200 chr6B 100.000 4964 0 0 1 4964 49732437 49737400 0.000000e+00 9167.0
1 TraesCS6B01G073200 chr6B 92.988 2895 161 14 1433 4296 49437963 49435080 0.000000e+00 4183.0
2 TraesCS6B01G073200 chr6B 94.390 1729 91 5 2084 3810 49305986 49307710 0.000000e+00 2651.0
3 TraesCS6B01G073200 chr6B 92.870 1641 94 9 2676 4296 49537604 49539241 0.000000e+00 2361.0
4 TraesCS6B01G073200 chr6B 84.055 439 36 16 4400 4811 49435000 49434569 4.660000e-105 392.0
5 TraesCS6B01G073200 chr6B 84.055 439 36 16 4400 4811 49539321 49539752 4.660000e-105 392.0
6 TraesCS6B01G073200 chr6B 91.845 233 8 9 1340 1570 49305767 49305990 1.040000e-81 315.0
7 TraesCS6B01G073200 chr6B 91.367 139 11 1 2545 2683 49536637 49536774 6.560000e-44 189.0
8 TraesCS6B01G073200 chr6B 91.463 82 6 1 4248 4328 49435063 49434982 1.460000e-20 111.0
9 TraesCS6B01G073200 chr6B 91.463 82 6 1 4248 4328 49539258 49539339 1.460000e-20 111.0
10 TraesCS6B01G073200 chr6D 95.253 2802 117 12 1452 4250 27056751 27059539 0.000000e+00 4423.0
11 TraesCS6B01G073200 chr6D 88.889 414 39 7 4399 4811 27059680 27060087 2.060000e-138 503.0
12 TraesCS6B01G073200 chr6D 91.566 83 5 2 4248 4328 27059617 27059699 4.060000e-21 113.0
13 TraesCS6B01G073200 chr6A 93.896 2654 128 13 1370 4013 28410307 28412936 0.000000e+00 3973.0
14 TraesCS6B01G073200 chr6A 90.692 419 34 3 4399 4816 28413344 28413758 2.020000e-153 553.0
15 TraesCS6B01G073200 chr6A 93.103 116 8 0 4119 4234 28413126 28413241 2.380000e-38 171.0
16 TraesCS6B01G073200 chr6A 96.591 88 2 1 4827 4913 28413800 28413887 1.440000e-30 145.0
17 TraesCS6B01G073200 chr6A 91.892 74 2 3 4319 4392 169213568 169213499 3.160000e-17 100.0
18 TraesCS6B01G073200 chr6A 92.958 71 1 3 4327 4397 450091428 450091494 3.160000e-17 100.0
19 TraesCS6B01G073200 chr6A 91.176 68 5 1 4248 4314 28413286 28413353 1.900000e-14 91.6
20 TraesCS6B01G073200 chr2D 87.293 2471 252 35 1555 4006 17011034 17013461 0.000000e+00 2767.0
21 TraesCS6B01G073200 chr2D 84.612 2437 283 56 1555 3966 16765264 16762895 0.000000e+00 2338.0
22 TraesCS6B01G073200 chr2D 90.730 1370 82 24 1 1340 496512417 496511063 0.000000e+00 1784.0
23 TraesCS6B01G073200 chr2B 86.231 2600 271 40 1447 4006 28882986 28885538 0.000000e+00 2737.0
24 TraesCS6B01G073200 chr2B 91.808 1355 89 18 5 1343 406539720 406538372 0.000000e+00 1868.0
25 TraesCS6B01G073200 chr2B 90.856 1367 93 18 1 1339 106925142 106923780 0.000000e+00 1803.0
26 TraesCS6B01G073200 chr2A 84.792 2433 282 40 1551 3966 18544615 18546976 0.000000e+00 2362.0
27 TraesCS6B01G073200 chr2A 90.359 1255 118 3 2727 3979 18423859 18422606 0.000000e+00 1644.0
28 TraesCS6B01G073200 chr2A 85.538 1134 123 18 1555 2678 18424978 18423876 0.000000e+00 1147.0
29 TraesCS6B01G073200 chr1B 92.857 1358 70 15 1 1337 576027455 576028806 0.000000e+00 1945.0
30 TraesCS6B01G073200 chr3A 91.218 1355 92 25 1 1339 716060897 716062240 0.000000e+00 1818.0
31 TraesCS6B01G073200 chr3A 90.490 1367 93 27 1 1339 678037106 678035749 0.000000e+00 1770.0
32 TraesCS6B01G073200 chr3A 92.857 70 1 3 4328 4397 717717828 717717893 1.140000e-16 99.0
33 TraesCS6B01G073200 chr7B 91.622 1301 86 16 48 1339 178398391 178399677 0.000000e+00 1777.0
34 TraesCS6B01G073200 chr3B 90.198 1367 93 26 1 1339 610216618 610217971 0.000000e+00 1744.0
35 TraesCS6B01G073200 chr3B 91.250 80 1 5 4318 4397 3794853 3794780 2.440000e-18 104.0
36 TraesCS6B01G073200 chr5A 89.874 1353 111 19 5 1343 112108834 112107494 0.000000e+00 1716.0
37 TraesCS6B01G073200 chrUn 76.692 1034 189 28 1645 2664 35132796 35133791 1.220000e-145 527.0
38 TraesCS6B01G073200 chrUn 92.857 70 0 3 4328 4397 70342071 70342135 4.090000e-16 97.1
39 TraesCS6B01G073200 chr5B 94.203 69 1 2 4329 4397 10171058 10171123 8.790000e-18 102.0
40 TraesCS6B01G073200 chr7A 91.781 73 2 3 4320 4392 653536119 653536187 1.140000e-16 99.0
41 TraesCS6B01G073200 chr4A 92.857 70 1 3 4328 4397 708699708 708699773 1.140000e-16 99.0
42 TraesCS6B01G073200 chr7D 90.000 80 1 3 4318 4397 384062595 384062667 4.090000e-16 97.1
43 TraesCS6B01G073200 chr5D 80.208 96 11 7 1656 1746 447509934 447509842 1.150000e-06 65.8


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 TraesCS6B01G073200 chr6B 49732437 49737400 4963 False 9167.000000 9167 100.000000 1 4964 1 chr6B.!!$F1 4963
1 TraesCS6B01G073200 chr6B 49434569 49437963 3394 True 1562.000000 4183 89.502000 1433 4811 3 chr6B.!!$R1 3378
2 TraesCS6B01G073200 chr6B 49305767 49307710 1943 False 1483.000000 2651 93.117500 1340 3810 2 chr6B.!!$F2 2470
3 TraesCS6B01G073200 chr6B 49536637 49539752 3115 False 763.250000 2361 89.938750 2545 4811 4 chr6B.!!$F3 2266
4 TraesCS6B01G073200 chr6D 27056751 27060087 3336 False 1679.666667 4423 91.902667 1452 4811 3 chr6D.!!$F1 3359
5 TraesCS6B01G073200 chr6A 28410307 28413887 3580 False 986.720000 3973 93.091600 1370 4913 5 chr6A.!!$F2 3543
6 TraesCS6B01G073200 chr2D 17011034 17013461 2427 False 2767.000000 2767 87.293000 1555 4006 1 chr2D.!!$F1 2451
7 TraesCS6B01G073200 chr2D 16762895 16765264 2369 True 2338.000000 2338 84.612000 1555 3966 1 chr2D.!!$R1 2411
8 TraesCS6B01G073200 chr2D 496511063 496512417 1354 True 1784.000000 1784 90.730000 1 1340 1 chr2D.!!$R2 1339
9 TraesCS6B01G073200 chr2B 28882986 28885538 2552 False 2737.000000 2737 86.231000 1447 4006 1 chr2B.!!$F1 2559
10 TraesCS6B01G073200 chr2B 406538372 406539720 1348 True 1868.000000 1868 91.808000 5 1343 1 chr2B.!!$R2 1338
11 TraesCS6B01G073200 chr2B 106923780 106925142 1362 True 1803.000000 1803 90.856000 1 1339 1 chr2B.!!$R1 1338
12 TraesCS6B01G073200 chr2A 18544615 18546976 2361 False 2362.000000 2362 84.792000 1551 3966 1 chr2A.!!$F1 2415
13 TraesCS6B01G073200 chr2A 18422606 18424978 2372 True 1395.500000 1644 87.948500 1555 3979 2 chr2A.!!$R1 2424
14 TraesCS6B01G073200 chr1B 576027455 576028806 1351 False 1945.000000 1945 92.857000 1 1337 1 chr1B.!!$F1 1336
15 TraesCS6B01G073200 chr3A 716060897 716062240 1343 False 1818.000000 1818 91.218000 1 1339 1 chr3A.!!$F1 1338
16 TraesCS6B01G073200 chr3A 678035749 678037106 1357 True 1770.000000 1770 90.490000 1 1339 1 chr3A.!!$R1 1338
17 TraesCS6B01G073200 chr7B 178398391 178399677 1286 False 1777.000000 1777 91.622000 48 1339 1 chr7B.!!$F1 1291
18 TraesCS6B01G073200 chr3B 610216618 610217971 1353 False 1744.000000 1744 90.198000 1 1339 1 chr3B.!!$F1 1338
19 TraesCS6B01G073200 chr5A 112107494 112108834 1340 True 1716.000000 1716 89.874000 5 1343 1 chr5A.!!$R1 1338
20 TraesCS6B01G073200 chrUn 35132796 35133791 995 False 527.000000 527 76.692000 1645 2664 1 chrUn.!!$F1 1019

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
102 117 1.684450 TGTTTGCAGTGGACTCGACTA 59.316 47.619 0.00 0.0 0.00 2.59 F
132 147 2.158449 CACCAGACATGAAGCGAGTTTC 59.842 50.000 0.00 0.0 0.00 2.78 F
255 279 2.952978 CCTAGTAGCCACTACACCAGAG 59.047 54.545 7.45 0.0 39.22 3.35 F
1376 1435 3.265791 GTCTTGGTCATCACTCATCACC 58.734 50.000 0.00 0.0 0.00 4.02 F
2706 3673 0.103026 TCAGAGATTGCATCGGGTCG 59.897 55.000 0.00 0.0 0.00 4.79 F
3586 4564 0.252057 TCGGTGTCCTCCTCATGGAA 60.252 55.000 0.00 0.0 42.66 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1373 1432 0.463295 CTGGTCTAGGCTGCATGGTG 60.463 60.000 0.50 0.0 0.00 4.17 R
1375 1434 1.147824 CCTGGTCTAGGCTGCATGG 59.852 63.158 0.50 0.0 40.38 3.66 R
1483 1546 2.874701 CAAGTTGAGCAAGCTGTAGTGT 59.125 45.455 0.00 0.0 0.00 3.55 R
3138 4116 0.387202 CTGTGAGAGGATGGCTACCG 59.613 60.000 0.00 0.0 0.00 4.02 R
3748 4727 0.107066 TCAATCCTCACGCATGCCAT 60.107 50.000 13.15 0.0 0.00 4.40 R
4913 6202 0.112412 GAAACCCTTGCTCCCTTCCA 59.888 55.000 0.00 0.0 0.00 3.53 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
102 117 1.684450 TGTTTGCAGTGGACTCGACTA 59.316 47.619 0.00 0.00 0.00 2.59
132 147 2.158449 CACCAGACATGAAGCGAGTTTC 59.842 50.000 0.00 0.00 0.00 2.78
142 158 6.262273 ACATGAAGCGAGTTTCTTTCCTTAAA 59.738 34.615 0.00 0.00 0.00 1.52
201 223 4.345288 GGGCGACGTAATAATTCCAAAAC 58.655 43.478 0.00 0.00 0.00 2.43
202 224 4.142643 GGGCGACGTAATAATTCCAAAACA 60.143 41.667 0.00 0.00 0.00 2.83
203 225 5.025826 GGCGACGTAATAATTCCAAAACAG 58.974 41.667 0.00 0.00 0.00 3.16
255 279 2.952978 CCTAGTAGCCACTACACCAGAG 59.047 54.545 7.45 0.00 39.22 3.35
448 474 5.938438 AAAGCAACAACTTTGAAAAAGCA 57.062 30.435 0.00 0.00 38.43 3.91
606 634 8.428063 TGAAACCTGGAAATATTTTGTGACATT 58.572 29.630 0.00 0.00 0.00 2.71
752 786 3.701241 TCACGAGTTCCAAAAATTGTGC 58.299 40.909 0.00 0.00 42.15 4.57
1080 1122 5.915758 GTGTGCGTTAAAAATGTACATTGGA 59.084 36.000 21.46 6.65 43.26 3.53
1082 1124 6.584184 TGTGCGTTAAAAATGTACATTGGATG 59.416 34.615 21.46 13.16 37.95 3.51
1100 1142 6.500684 TGGATGCTGAGAAAAATTAGACAC 57.499 37.500 0.00 0.00 0.00 3.67
1243 1302 5.867330 TGTCAAGGTTTAAAATAGACCGGA 58.133 37.500 9.46 0.00 38.48 5.14
1271 1330 3.953612 AGAGTTTGGTGTGCTGATTTCAA 59.046 39.130 0.00 0.00 0.00 2.69
1369 1428 4.897509 TCTCAATGTCTTGGTCATCACT 57.102 40.909 0.00 0.00 32.95 3.41
1370 1429 4.825422 TCTCAATGTCTTGGTCATCACTC 58.175 43.478 0.00 0.00 32.95 3.51
1371 1430 4.284234 TCTCAATGTCTTGGTCATCACTCA 59.716 41.667 0.00 0.00 32.95 3.41
1372 1431 5.046087 TCTCAATGTCTTGGTCATCACTCAT 60.046 40.000 0.00 0.00 32.95 2.90
1373 1432 5.181009 TCAATGTCTTGGTCATCACTCATC 58.819 41.667 0.00 0.00 32.95 2.92
1374 1433 4.831674 ATGTCTTGGTCATCACTCATCA 57.168 40.909 0.00 0.00 0.00 3.07
1375 1434 3.930336 TGTCTTGGTCATCACTCATCAC 58.070 45.455 0.00 0.00 0.00 3.06
1376 1435 3.265791 GTCTTGGTCATCACTCATCACC 58.734 50.000 0.00 0.00 0.00 4.02
1482 1545 4.400961 GGTTGCGGCTGCTCTCCT 62.401 66.667 20.27 0.00 43.34 3.69
1483 1546 2.579201 GTTGCGGCTGCTCTCCTA 59.421 61.111 20.27 0.00 43.34 2.94
1484 1547 1.811679 GTTGCGGCTGCTCTCCTAC 60.812 63.158 20.27 3.64 43.34 3.18
1485 1548 2.282783 TTGCGGCTGCTCTCCTACA 61.283 57.895 20.27 0.00 43.34 2.74
1491 1554 1.407258 GGCTGCTCTCCTACACTACAG 59.593 57.143 0.00 0.00 0.00 2.74
1572 1661 2.106332 GACGATGATTCCGGCCGT 59.894 61.111 26.12 5.12 36.08 5.68
1692 1790 4.403137 CGTGCCGTACCCGTTCGA 62.403 66.667 0.00 0.00 0.00 3.71
1693 1791 2.182537 GTGCCGTACCCGTTCGAT 59.817 61.111 0.00 0.00 0.00 3.59
1694 1792 1.875364 GTGCCGTACCCGTTCGATC 60.875 63.158 0.00 0.00 0.00 3.69
1695 1793 2.653130 GCCGTACCCGTTCGATCG 60.653 66.667 9.36 9.36 0.00 3.69
2195 2318 1.153745 GTCGCTGGACTCGAGCAAT 60.154 57.895 13.61 0.00 40.15 3.56
2284 2407 2.569134 GCTCCTCAACGACTCGCT 59.431 61.111 0.00 0.00 0.00 4.93
2703 3670 1.137675 TGAGTCAGAGATTGCATCGGG 59.862 52.381 0.00 0.00 0.00 5.14
2704 3671 1.137872 GAGTCAGAGATTGCATCGGGT 59.862 52.381 0.00 0.00 0.00 5.28
2705 3672 1.137872 AGTCAGAGATTGCATCGGGTC 59.862 52.381 0.00 0.00 0.00 4.46
2706 3673 0.103026 TCAGAGATTGCATCGGGTCG 59.897 55.000 0.00 0.00 0.00 4.79
2737 3711 5.078411 TGCTTTGTATCTCAGAGGTTCTC 57.922 43.478 0.00 0.00 0.00 2.87
2740 3714 3.033659 TGTATCTCAGAGGTTCTCCCC 57.966 52.381 0.00 0.00 0.00 4.81
2753 3727 4.354087 AGGTTCTCCCCTAACAACAAAGAT 59.646 41.667 0.00 0.00 31.31 2.40
2854 3832 0.808755 GTGCTATTTTGGTGACCCGG 59.191 55.000 0.00 0.00 0.00 5.73
3045 4023 2.697263 TGGAGGAGGGCATGGCAT 60.697 61.111 22.06 15.11 0.00 4.40
3100 4078 2.151202 GTGGCGATCAAGAAGTCCAAA 58.849 47.619 0.00 0.00 0.00 3.28
3138 4116 5.118817 GGGAGATCGACGAGTTTATAAATGC 59.881 44.000 3.01 0.00 0.00 3.56
3201 4179 0.675633 CTCTTTGGGTGTTGCCTTGG 59.324 55.000 0.00 0.00 37.43 3.61
3305 4283 1.699054 CCTGGCATGGGAAGATCGGA 61.699 60.000 0.00 0.00 0.00 4.55
3313 4291 4.566488 GCATGGGAAGATCGGATAAGGATT 60.566 45.833 0.00 0.00 0.00 3.01
3337 4315 1.202698 ACCGAAACTGCAAGAGCTCTT 60.203 47.619 23.49 23.49 42.74 2.85
3353 4331 1.546476 CTCTTGCCTACCTTCACTCGT 59.454 52.381 0.00 0.00 0.00 4.18
3586 4564 0.252057 TCGGTGTCCTCCTCATGGAA 60.252 55.000 0.00 0.00 42.66 3.53
3727 4706 1.198759 AGAAGGCGGCAAGGAGGTTA 61.199 55.000 13.08 0.00 0.00 2.85
4068 5050 8.955061 AAAGAAACAACGAGAATTGACATATG 57.045 30.769 0.00 0.00 33.57 1.78
4113 5095 5.863935 GTGGAATTGCATAGTTTGGAACTTC 59.136 40.000 1.94 0.00 42.81 3.01
4123 5269 2.254546 TTGGAACTTCGCATGTCTGT 57.745 45.000 0.00 0.00 0.00 3.41
4126 5272 1.996191 GGAACTTCGCATGTCTGTCTC 59.004 52.381 0.00 0.00 0.00 3.36
4136 5282 4.260253 CGCATGTCTGTCTCAATCTCATTG 60.260 45.833 0.00 0.00 41.57 2.82
4154 5300 2.260844 TGGTTTTCTCACTGCTCTGG 57.739 50.000 0.00 0.00 0.00 3.86
4246 5392 2.498167 CACTTGACAGGGGTTCAGAAG 58.502 52.381 0.00 0.00 0.00 2.85
4249 5477 3.202151 ACTTGACAGGGGTTCAGAAGAAA 59.798 43.478 0.00 0.00 35.08 2.52
4314 5546 9.801873 TCAGAACAAAAACTCCAAAATAAGAAG 57.198 29.630 0.00 0.00 0.00 2.85
4315 5547 9.801873 CAGAACAAAAACTCCAAAATAAGAAGA 57.198 29.630 0.00 0.00 0.00 2.87
4325 5557 9.586435 ACTCCAAAATAAGAAGAACTTTGTTTG 57.414 29.630 0.00 0.00 38.90 2.93
4326 5558 9.801873 CTCCAAAATAAGAAGAACTTTGTTTGA 57.198 29.630 0.46 0.00 40.07 2.69
4356 5588 6.515272 TTTTAGAAAAGGAGGATGCATGAC 57.485 37.500 2.46 0.00 0.00 3.06
4357 5589 3.010200 AGAAAAGGAGGATGCATGACC 57.990 47.619 2.46 0.00 0.00 4.02
4358 5590 2.027385 GAAAAGGAGGATGCATGACCC 58.973 52.381 2.46 0.00 0.00 4.46
4359 5591 0.259938 AAAGGAGGATGCATGACCCC 59.740 55.000 2.46 0.00 0.00 4.95
4360 5592 1.649271 AAGGAGGATGCATGACCCCC 61.649 60.000 2.46 0.00 0.00 5.40
4361 5593 2.111878 GAGGATGCATGACCCCCG 59.888 66.667 2.46 0.00 0.00 5.73
4362 5594 3.482232 GAGGATGCATGACCCCCGG 62.482 68.421 2.46 0.00 0.00 5.73
4368 5600 4.181010 CATGACCCCCGGCCTCTG 62.181 72.222 0.00 0.00 0.00 3.35
4378 5610 4.247380 GGCCTCTGCATCCGGGAG 62.247 72.222 0.00 0.00 40.13 4.30
4379 5611 3.157252 GCCTCTGCATCCGGGAGA 61.157 66.667 0.00 0.00 42.24 3.71
4380 5612 2.515071 GCCTCTGCATCCGGGAGAT 61.515 63.158 0.00 0.00 43.58 2.75
4387 5619 3.128259 CATCCGGGAGATGCATACG 57.872 57.895 0.00 2.21 45.76 3.06
4388 5620 0.390340 CATCCGGGAGATGCATACGG 60.390 60.000 19.57 19.57 45.76 4.02
4389 5621 2.172483 ATCCGGGAGATGCATACGGC 62.172 60.000 20.38 1.48 43.93 5.68
4390 5622 2.357517 CGGGAGATGCATACGGCC 60.358 66.667 0.00 0.00 43.89 6.13
4391 5623 2.828868 GGGAGATGCATACGGCCA 59.171 61.111 2.24 0.00 43.89 5.36
4392 5624 1.598130 GGGAGATGCATACGGCCAC 60.598 63.158 2.24 0.00 43.89 5.01
4393 5625 1.447643 GGAGATGCATACGGCCACT 59.552 57.895 2.24 0.00 43.89 4.00
4394 5626 0.179045 GGAGATGCATACGGCCACTT 60.179 55.000 2.24 0.00 43.89 3.16
4395 5627 1.668419 GAGATGCATACGGCCACTTT 58.332 50.000 2.24 0.00 43.89 2.66
4396 5628 2.484770 GGAGATGCATACGGCCACTTTA 60.485 50.000 2.24 0.00 43.89 1.85
4397 5629 2.802816 GAGATGCATACGGCCACTTTAG 59.197 50.000 2.24 0.00 43.89 1.85
4398 5630 2.434336 AGATGCATACGGCCACTTTAGA 59.566 45.455 2.24 0.00 43.89 2.10
4399 5631 2.772077 TGCATACGGCCACTTTAGAA 57.228 45.000 2.24 0.00 43.89 2.10
4400 5632 3.060736 TGCATACGGCCACTTTAGAAA 57.939 42.857 2.24 0.00 43.89 2.52
4401 5633 3.413327 TGCATACGGCCACTTTAGAAAA 58.587 40.909 2.24 0.00 43.89 2.29
4402 5634 3.438781 TGCATACGGCCACTTTAGAAAAG 59.561 43.478 2.24 0.00 43.89 2.27
4403 5635 3.687698 GCATACGGCCACTTTAGAAAAGA 59.312 43.478 2.24 0.00 36.11 2.52
4404 5636 4.155280 GCATACGGCCACTTTAGAAAAGAA 59.845 41.667 2.24 0.00 36.11 2.52
4405 5637 5.673818 GCATACGGCCACTTTAGAAAAGAAG 60.674 44.000 2.24 0.00 36.11 2.85
4406 5638 4.081322 ACGGCCACTTTAGAAAAGAAGA 57.919 40.909 2.24 0.00 0.00 2.87
4407 5639 4.457466 ACGGCCACTTTAGAAAAGAAGAA 58.543 39.130 2.24 0.00 0.00 2.52
4413 5645 6.183360 GCCACTTTAGAAAAGAAGAACTTGGT 60.183 38.462 6.41 0.00 38.98 3.67
4453 5685 7.888250 AGAAAAAGAAGAAAAGACCATCTGT 57.112 32.000 0.00 0.00 0.00 3.41
4454 5686 7.710896 AGAAAAAGAAGAAAAGACCATCTGTG 58.289 34.615 0.00 0.00 0.00 3.66
4478 5710 6.037610 TGTCTGCAGAAAGAAAAGAAAGAGAC 59.962 38.462 20.19 0.63 0.00 3.36
4480 5713 5.116180 TGCAGAAAGAAAAGAAAGAGACGA 58.884 37.500 0.00 0.00 0.00 4.20
4483 5716 6.238239 GCAGAAAGAAAAGAAAGAGACGACTT 60.238 38.462 0.00 0.00 0.00 3.01
4493 5726 1.964223 AGAGACGACTTCTTTCTGGCA 59.036 47.619 0.00 0.00 33.22 4.92
4539 5772 9.236691 CATGCCAACACATAATTATTCAGTAAC 57.763 33.333 0.00 0.00 0.00 2.50
4569 5802 5.410355 AGGATTTTGGACCAAATGATGTG 57.590 39.130 20.22 0.00 33.19 3.21
4577 5810 1.019673 CCAAATGATGTGGGCTCTCG 58.980 55.000 0.00 0.00 32.03 4.04
4615 5848 5.581605 TGACAAGTTTGACTGATCTTTTGC 58.418 37.500 0.00 0.00 0.00 3.68
4616 5849 5.125257 TGACAAGTTTGACTGATCTTTTGCA 59.875 36.000 0.00 0.00 0.00 4.08
4617 5850 6.152932 ACAAGTTTGACTGATCTTTTGCAT 57.847 33.333 0.00 0.00 0.00 3.96
4618 5851 5.981315 ACAAGTTTGACTGATCTTTTGCATG 59.019 36.000 0.00 0.00 0.00 4.06
4619 5852 5.779529 AGTTTGACTGATCTTTTGCATGT 57.220 34.783 0.00 0.00 0.00 3.21
4620 5853 5.766222 AGTTTGACTGATCTTTTGCATGTC 58.234 37.500 0.00 0.00 0.00 3.06
4622 5855 4.025040 TGACTGATCTTTTGCATGTCCT 57.975 40.909 0.00 0.00 0.00 3.85
4623 5856 5.164620 TGACTGATCTTTTGCATGTCCTA 57.835 39.130 0.00 0.00 0.00 2.94
4624 5857 5.181009 TGACTGATCTTTTGCATGTCCTAG 58.819 41.667 0.00 0.00 0.00 3.02
4633 5866 5.414789 TTTGCATGTCCTAGCTAGTGTTA 57.585 39.130 19.31 3.63 0.00 2.41
4661 5894 8.041919 AGTCTTGAAGATATAGATGATGGCATG 58.958 37.037 3.81 0.00 34.11 4.06
4667 5900 6.571605 AGATATAGATGATGGCATGTTCTCG 58.428 40.000 3.81 0.00 34.11 4.04
4708 5941 2.099141 TCTATTCTGTGTGCCACTGC 57.901 50.000 0.00 0.00 35.11 4.40
4726 5959 5.068329 CCACTGCTCTAGATATTCTGTGTGA 59.932 44.000 0.00 0.00 0.00 3.58
4745 6002 9.979270 CTGTGTGACACTATATTTTCAGAAATC 57.021 33.333 17.47 0.00 34.93 2.17
4816 6073 5.004448 TGTTCCCAGTCAAAATTACGCATA 58.996 37.500 0.00 0.00 0.00 3.14
4817 6074 5.473846 TGTTCCCAGTCAAAATTACGCATAA 59.526 36.000 0.00 0.00 0.00 1.90
4818 6075 5.554822 TCCCAGTCAAAATTACGCATAAC 57.445 39.130 0.00 0.00 0.00 1.89
4820 6077 5.353123 TCCCAGTCAAAATTACGCATAACTC 59.647 40.000 0.00 0.00 0.00 3.01
4821 6078 5.123186 CCCAGTCAAAATTACGCATAACTCA 59.877 40.000 0.00 0.00 0.00 3.41
4822 6079 6.348950 CCCAGTCAAAATTACGCATAACTCAA 60.349 38.462 0.00 0.00 0.00 3.02
4825 6082 8.440059 CAGTCAAAATTACGCATAACTCAAGTA 58.560 33.333 0.00 0.00 0.00 2.24
4851 6139 8.765488 TTTAAGATCCAAATCATGCCAAGATA 57.235 30.769 0.00 0.00 34.07 1.98
4853 6141 7.850935 AAGATCCAAATCATGCCAAGATATT 57.149 32.000 0.00 0.00 34.07 1.28
4854 6142 8.945195 AAGATCCAAATCATGCCAAGATATTA 57.055 30.769 0.00 0.00 34.07 0.98
4926 6215 2.220653 TCCAAATGGAAGGGAGCAAG 57.779 50.000 0.00 0.00 42.18 4.01
4927 6216 1.188863 CCAAATGGAAGGGAGCAAGG 58.811 55.000 0.00 0.00 37.39 3.61
4928 6217 1.188863 CAAATGGAAGGGAGCAAGGG 58.811 55.000 0.00 0.00 0.00 3.95
4929 6218 0.786435 AAATGGAAGGGAGCAAGGGT 59.214 50.000 0.00 0.00 0.00 4.34
4930 6219 0.786435 AATGGAAGGGAGCAAGGGTT 59.214 50.000 0.00 0.00 0.00 4.11
4931 6220 0.786435 ATGGAAGGGAGCAAGGGTTT 59.214 50.000 0.00 0.00 0.00 3.27
4932 6221 0.112412 TGGAAGGGAGCAAGGGTTTC 59.888 55.000 0.00 0.00 0.00 2.78
4933 6222 0.112412 GGAAGGGAGCAAGGGTTTCA 59.888 55.000 0.00 0.00 0.00 2.69
4934 6223 1.480498 GGAAGGGAGCAAGGGTTTCAA 60.480 52.381 0.00 0.00 0.00 2.69
4935 6224 2.316108 GAAGGGAGCAAGGGTTTCAAA 58.684 47.619 0.00 0.00 0.00 2.69
4936 6225 1.704641 AGGGAGCAAGGGTTTCAAAC 58.295 50.000 0.00 0.00 0.00 2.93
4937 6226 1.217942 AGGGAGCAAGGGTTTCAAACT 59.782 47.619 0.00 0.00 0.00 2.66
4938 6227 1.341209 GGGAGCAAGGGTTTCAAACTG 59.659 52.381 0.00 0.00 0.00 3.16
4939 6228 2.306847 GGAGCAAGGGTTTCAAACTGA 58.693 47.619 0.00 0.00 0.00 3.41
4940 6229 2.693074 GGAGCAAGGGTTTCAAACTGAA 59.307 45.455 0.00 0.00 34.03 3.02
4941 6230 3.132111 GGAGCAAGGGTTTCAAACTGAAA 59.868 43.478 0.00 0.00 43.37 2.69
4942 6231 4.382577 GGAGCAAGGGTTTCAAACTGAAAA 60.383 41.667 0.00 0.00 46.53 2.29
4943 6232 4.758688 AGCAAGGGTTTCAAACTGAAAAG 58.241 39.130 0.00 0.00 46.53 2.27
4944 6233 3.871006 GCAAGGGTTTCAAACTGAAAAGG 59.129 43.478 0.00 0.00 46.53 3.11
4945 6234 4.441792 CAAGGGTTTCAAACTGAAAAGGG 58.558 43.478 0.00 0.00 46.53 3.95
4946 6235 3.989056 AGGGTTTCAAACTGAAAAGGGA 58.011 40.909 0.00 0.00 46.53 4.20
4947 6236 4.358214 AGGGTTTCAAACTGAAAAGGGAA 58.642 39.130 0.00 0.00 46.53 3.97
4948 6237 4.405680 AGGGTTTCAAACTGAAAAGGGAAG 59.594 41.667 0.00 0.00 46.53 3.46
4949 6238 4.404394 GGGTTTCAAACTGAAAAGGGAAGA 59.596 41.667 0.00 0.00 46.53 2.87
4950 6239 5.451937 GGGTTTCAAACTGAAAAGGGAAGAG 60.452 44.000 0.00 0.00 46.53 2.85
4951 6240 5.359860 GGTTTCAAACTGAAAAGGGAAGAGA 59.640 40.000 0.00 0.00 46.53 3.10
4952 6241 6.127451 GGTTTCAAACTGAAAAGGGAAGAGAA 60.127 38.462 0.00 0.00 46.53 2.87
4953 6242 6.699575 TTCAAACTGAAAAGGGAAGAGAAG 57.300 37.500 0.00 0.00 32.71 2.85
4954 6243 4.580580 TCAAACTGAAAAGGGAAGAGAAGC 59.419 41.667 0.00 0.00 0.00 3.86
4955 6244 4.445557 AACTGAAAAGGGAAGAGAAGCT 57.554 40.909 0.00 0.00 0.00 3.74
4956 6245 3.749226 ACTGAAAAGGGAAGAGAAGCTG 58.251 45.455 0.00 0.00 0.00 4.24
4957 6246 3.392616 ACTGAAAAGGGAAGAGAAGCTGA 59.607 43.478 0.00 0.00 0.00 4.26
4958 6247 4.042684 ACTGAAAAGGGAAGAGAAGCTGAT 59.957 41.667 0.00 0.00 0.00 2.90
4959 6248 4.990526 TGAAAAGGGAAGAGAAGCTGATT 58.009 39.130 0.00 0.00 0.00 2.57
4960 6249 5.388654 TGAAAAGGGAAGAGAAGCTGATTT 58.611 37.500 0.00 0.00 0.00 2.17
4961 6250 5.242393 TGAAAAGGGAAGAGAAGCTGATTTG 59.758 40.000 0.00 0.00 0.00 2.32
4962 6251 2.720915 AGGGAAGAGAAGCTGATTTGC 58.279 47.619 0.00 0.00 0.00 3.68
4963 6252 1.399791 GGGAAGAGAAGCTGATTTGCG 59.600 52.381 0.00 0.00 38.13 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
86 101 1.595993 GCCTAGTCGAGTCCACTGCA 61.596 60.000 0.02 0.00 0.00 4.41
102 117 2.532532 ATGTCTGGTGCACTGGCCT 61.533 57.895 17.98 1.96 40.13 5.19
132 147 2.936050 ACGTCGCGTTTTAAGGAAAG 57.064 45.000 5.77 0.00 36.35 2.62
142 158 5.086888 AGAAAGAATTTTTACGTCGCGTT 57.913 34.783 5.77 0.00 39.27 4.84
210 234 3.556213 CCCAAGTTCGACTCCACAACATA 60.556 47.826 0.00 0.00 0.00 2.29
428 454 5.238214 TGTTTGCTTTTTCAAAGTTGTTGCT 59.762 32.000 0.00 0.00 36.71 3.91
429 455 5.339348 GTGTTTGCTTTTTCAAAGTTGTTGC 59.661 36.000 0.00 0.00 36.71 4.17
717 750 6.430925 TGGAACTCGTGATCATTCTTGAAATT 59.569 34.615 0.00 0.00 34.96 1.82
752 786 8.647143 ACACATTCTTTTAAAAATGTCACAGG 57.353 30.769 13.06 6.80 42.62 4.00
1080 1122 5.470098 ACACGTGTCTAATTTTTCTCAGCAT 59.530 36.000 17.22 0.00 0.00 3.79
1082 1124 5.344207 ACACGTGTCTAATTTTTCTCAGC 57.656 39.130 17.22 0.00 0.00 4.26
1128 1174 7.618117 TGGTTTTCTTAGTTTCTTCCTTTTCCT 59.382 33.333 0.00 0.00 0.00 3.36
1130 1176 8.683615 TCTGGTTTTCTTAGTTTCTTCCTTTTC 58.316 33.333 0.00 0.00 0.00 2.29
1243 1302 4.973168 TCAGCACACCAAACTCTCTAATT 58.027 39.130 0.00 0.00 0.00 1.40
1271 1330 3.519510 TCAAATCCCGAACTCTCAATCCT 59.480 43.478 0.00 0.00 0.00 3.24
1346 1405 5.183969 AGTGATGACCAAGACATTGAGATG 58.816 41.667 0.00 0.00 38.83 2.90
1361 1420 2.612672 CTGCATGGTGATGAGTGATGAC 59.387 50.000 0.00 0.00 0.00 3.06
1369 1428 1.139654 GTCTAGGCTGCATGGTGATGA 59.860 52.381 0.50 0.00 0.00 2.92
1370 1429 1.590932 GTCTAGGCTGCATGGTGATG 58.409 55.000 0.50 0.00 0.00 3.07
1371 1430 0.471617 GGTCTAGGCTGCATGGTGAT 59.528 55.000 0.50 0.00 0.00 3.06
1372 1431 0.909133 TGGTCTAGGCTGCATGGTGA 60.909 55.000 0.50 0.00 0.00 4.02
1373 1432 0.463295 CTGGTCTAGGCTGCATGGTG 60.463 60.000 0.50 0.00 0.00 4.17
1374 1433 1.630126 CCTGGTCTAGGCTGCATGGT 61.630 60.000 0.50 0.00 40.38 3.55
1375 1434 1.147824 CCTGGTCTAGGCTGCATGG 59.852 63.158 0.50 0.00 40.38 3.66
1376 1435 4.872357 CCTGGTCTAGGCTGCATG 57.128 61.111 0.50 0.00 40.38 4.06
1482 1545 4.058124 CAAGTTGAGCAAGCTGTAGTGTA 58.942 43.478 0.00 0.00 0.00 2.90
1483 1546 2.874701 CAAGTTGAGCAAGCTGTAGTGT 59.125 45.455 0.00 0.00 0.00 3.55
1484 1547 2.874701 ACAAGTTGAGCAAGCTGTAGTG 59.125 45.455 10.54 0.00 0.00 2.74
1485 1548 3.199880 ACAAGTTGAGCAAGCTGTAGT 57.800 42.857 10.54 0.00 0.00 2.73
1491 1554 3.251972 AGCTTTCTACAAGTTGAGCAAGC 59.748 43.478 20.74 20.74 32.38 4.01
1525 1594 4.332819 GGTTGTTCCATTATTGTCTCTCCG 59.667 45.833 0.00 0.00 35.97 4.63
2703 3670 1.151668 ACAAAGCAGAGCATGACGAC 58.848 50.000 0.00 0.00 0.00 4.34
2704 3671 2.741759 TACAAAGCAGAGCATGACGA 57.258 45.000 0.00 0.00 0.00 4.20
2705 3672 3.193263 AGATACAAAGCAGAGCATGACG 58.807 45.455 0.00 0.00 0.00 4.35
2706 3673 4.186926 TGAGATACAAAGCAGAGCATGAC 58.813 43.478 0.00 0.00 0.00 3.06
2732 3706 4.082733 GCATCTTTGTTGTTAGGGGAGAAC 60.083 45.833 0.00 0.00 0.00 3.01
2737 3711 4.806640 AATGCATCTTTGTTGTTAGGGG 57.193 40.909 0.00 0.00 0.00 4.79
2740 3714 8.164153 GCACAAATAATGCATCTTTGTTGTTAG 58.836 33.333 25.90 18.94 40.19 2.34
2854 3832 1.373570 CCCTCCGTTGCTTCATCTTC 58.626 55.000 0.00 0.00 0.00 2.87
2971 3949 1.440618 TTTGTAGCTCCACCAAGGGA 58.559 50.000 0.00 0.00 38.24 4.20
3045 4023 3.843619 TGACATGATCCCTTTGTAGACCA 59.156 43.478 0.00 0.00 0.00 4.02
3100 4078 1.826054 CTCCCTCTGGATCGCGACT 60.826 63.158 12.93 0.00 40.80 4.18
3138 4116 0.387202 CTGTGAGAGGATGGCTACCG 59.613 60.000 0.00 0.00 0.00 4.02
3201 4179 3.056328 GCAAAGGCACCTCCGTCC 61.056 66.667 0.00 0.00 40.77 4.79
3305 4283 3.119495 GCAGTTTCGGTTGCAATCCTTAT 60.119 43.478 0.59 0.00 40.02 1.73
3337 4315 1.592400 CGGACGAGTGAAGGTAGGCA 61.592 60.000 0.00 0.00 0.00 4.75
3353 4331 2.292267 GACTATAGGGAACGACACGGA 58.708 52.381 4.43 0.00 0.00 4.69
3513 4491 2.484947 CCCGAGTAGAAATACAAGGGGC 60.485 54.545 9.17 0.00 36.17 5.80
3586 4564 4.875536 GCATGGTTTTTCCTTGTCAAAAGT 59.124 37.500 0.00 0.00 41.61 2.66
3727 4706 1.228367 CCAGCACAGCCACCTCTTT 60.228 57.895 0.00 0.00 0.00 2.52
3748 4727 0.107066 TCAATCCTCACGCATGCCAT 60.107 50.000 13.15 0.00 0.00 4.40
3816 4795 1.053835 TATCATGCGAGGCCCCAAGA 61.054 55.000 0.00 0.00 0.00 3.02
3856 4835 1.935873 CACTGGATACTTCGGCACATG 59.064 52.381 0.00 0.00 37.61 3.21
4039 5021 8.203937 TGTCAATTCTCGTTGTTTCTTTTAGA 57.796 30.769 0.00 0.00 0.00 2.10
4113 5095 2.884827 TGAGATTGAGACAGACATGCG 58.115 47.619 0.00 0.00 0.00 4.73
4123 5269 6.429078 CAGTGAGAAAACCAATGAGATTGAGA 59.571 38.462 0.00 0.00 42.83 3.27
4126 5272 5.048224 AGCAGTGAGAAAACCAATGAGATTG 60.048 40.000 0.00 0.00 39.94 2.67
4136 5282 0.877743 GCCAGAGCAGTGAGAAAACC 59.122 55.000 0.00 0.00 39.53 3.27
4246 5392 5.084722 CGTGCATCACTCAAGAATTCTTTC 58.915 41.667 18.16 1.83 30.63 2.62
4249 5477 2.417933 GCGTGCATCACTCAAGAATTCT 59.582 45.455 0.88 0.88 31.34 2.40
4257 5485 2.971307 TCTTTATGCGTGCATCACTCA 58.029 42.857 11.16 0.00 37.82 3.41
4332 5564 6.071391 GGTCATGCATCCTCCTTTTCTAAAAA 60.071 38.462 0.00 0.00 0.00 1.94
4333 5565 5.418840 GGTCATGCATCCTCCTTTTCTAAAA 59.581 40.000 0.00 0.00 0.00 1.52
4334 5566 4.949856 GGTCATGCATCCTCCTTTTCTAAA 59.050 41.667 0.00 0.00 0.00 1.85
4335 5567 4.526970 GGTCATGCATCCTCCTTTTCTAA 58.473 43.478 0.00 0.00 0.00 2.10
4336 5568 3.117888 GGGTCATGCATCCTCCTTTTCTA 60.118 47.826 0.00 0.00 0.00 2.10
4337 5569 2.357569 GGGTCATGCATCCTCCTTTTCT 60.358 50.000 0.00 0.00 0.00 2.52
4338 5570 2.027385 GGGTCATGCATCCTCCTTTTC 58.973 52.381 0.00 0.00 0.00 2.29
4339 5571 1.342374 GGGGTCATGCATCCTCCTTTT 60.342 52.381 0.00 0.00 0.00 2.27
4340 5572 0.259938 GGGGTCATGCATCCTCCTTT 59.740 55.000 0.00 0.00 0.00 3.11
4341 5573 1.649271 GGGGGTCATGCATCCTCCTT 61.649 60.000 14.87 0.00 40.97 3.36
4342 5574 2.081161 GGGGGTCATGCATCCTCCT 61.081 63.158 14.87 0.00 40.97 3.69
4343 5575 2.517919 GGGGGTCATGCATCCTCC 59.482 66.667 7.56 7.56 37.18 4.30
4344 5576 2.111878 CGGGGGTCATGCATCCTC 59.888 66.667 0.00 0.00 0.00 3.71
4345 5577 3.492353 CCGGGGGTCATGCATCCT 61.492 66.667 0.00 0.00 0.00 3.24
4351 5583 4.181010 CAGAGGCCGGGGGTCATG 62.181 72.222 2.18 0.00 0.00 3.07
4361 5593 4.247380 CTCCCGGATGCAGAGGCC 62.247 72.222 0.73 0.00 40.13 5.19
4362 5594 2.515071 ATCTCCCGGATGCAGAGGC 61.515 63.158 0.73 0.00 41.68 4.70
4363 5595 1.370437 CATCTCCCGGATGCAGAGG 59.630 63.158 0.73 0.00 44.21 3.69
4370 5602 1.975327 CCGTATGCATCTCCCGGAT 59.025 57.895 17.30 0.00 41.08 4.18
4371 5603 2.867855 GCCGTATGCATCTCCCGGA 61.868 63.158 23.22 0.00 41.08 5.14
4372 5604 2.357517 GCCGTATGCATCTCCCGG 60.358 66.667 17.69 17.69 40.77 5.73
4373 5605 2.357517 GGCCGTATGCATCTCCCG 60.358 66.667 0.19 1.50 43.89 5.14
4374 5606 1.598130 GTGGCCGTATGCATCTCCC 60.598 63.158 0.19 0.17 43.89 4.30
4375 5607 0.179045 AAGTGGCCGTATGCATCTCC 60.179 55.000 0.19 0.71 43.89 3.71
4376 5608 1.668419 AAAGTGGCCGTATGCATCTC 58.332 50.000 0.19 0.00 43.89 2.75
4377 5609 2.434336 TCTAAAGTGGCCGTATGCATCT 59.566 45.455 0.19 0.00 43.89 2.90
4378 5610 2.833794 TCTAAAGTGGCCGTATGCATC 58.166 47.619 0.19 0.00 43.89 3.91
4379 5611 3.275617 TTCTAAAGTGGCCGTATGCAT 57.724 42.857 3.79 3.79 43.89 3.96
4380 5612 2.772077 TTCTAAAGTGGCCGTATGCA 57.228 45.000 0.00 0.00 43.89 3.96
4381 5613 3.687698 TCTTTTCTAAAGTGGCCGTATGC 59.312 43.478 0.00 0.00 40.16 3.14
4382 5614 5.642063 TCTTCTTTTCTAAAGTGGCCGTATG 59.358 40.000 0.00 0.00 0.00 2.39
4383 5615 5.801380 TCTTCTTTTCTAAAGTGGCCGTAT 58.199 37.500 0.00 0.00 0.00 3.06
4384 5616 5.217978 TCTTCTTTTCTAAAGTGGCCGTA 57.782 39.130 0.00 0.00 0.00 4.02
4385 5617 4.081322 TCTTCTTTTCTAAAGTGGCCGT 57.919 40.909 0.00 0.00 0.00 5.68
4386 5618 4.515567 AGTTCTTCTTTTCTAAAGTGGCCG 59.484 41.667 0.00 0.00 0.00 6.13
4387 5619 6.209361 CAAGTTCTTCTTTTCTAAAGTGGCC 58.791 40.000 0.00 0.00 33.63 5.36
4388 5620 6.183360 ACCAAGTTCTTCTTTTCTAAAGTGGC 60.183 38.462 0.00 0.00 33.63 5.01
4389 5621 7.334844 ACCAAGTTCTTCTTTTCTAAAGTGG 57.665 36.000 0.00 0.00 33.63 4.00
4390 5622 9.076596 CAAACCAAGTTCTTCTTTTCTAAAGTG 57.923 33.333 0.00 0.00 33.63 3.16
4391 5623 9.020731 TCAAACCAAGTTCTTCTTTTCTAAAGT 57.979 29.630 0.00 0.00 33.63 2.66
4395 5627 9.284968 CCTATCAAACCAAGTTCTTCTTTTCTA 57.715 33.333 0.00 0.00 33.63 2.10
4396 5628 7.255625 GCCTATCAAACCAAGTTCTTCTTTTCT 60.256 37.037 0.00 0.00 33.63 2.52
4397 5629 6.863645 GCCTATCAAACCAAGTTCTTCTTTTC 59.136 38.462 0.00 0.00 33.63 2.29
4398 5630 6.323739 TGCCTATCAAACCAAGTTCTTCTTTT 59.676 34.615 0.00 0.00 33.63 2.27
4399 5631 5.833131 TGCCTATCAAACCAAGTTCTTCTTT 59.167 36.000 0.00 0.00 33.63 2.52
4400 5632 5.385198 TGCCTATCAAACCAAGTTCTTCTT 58.615 37.500 0.00 0.00 36.75 2.52
4401 5633 4.985538 TGCCTATCAAACCAAGTTCTTCT 58.014 39.130 0.00 0.00 0.00 2.85
4402 5634 5.009610 TGTTGCCTATCAAACCAAGTTCTTC 59.990 40.000 0.00 0.00 36.26 2.87
4403 5635 4.892934 TGTTGCCTATCAAACCAAGTTCTT 59.107 37.500 0.00 0.00 36.26 2.52
4404 5636 4.278419 GTGTTGCCTATCAAACCAAGTTCT 59.722 41.667 0.00 0.00 36.26 3.01
4405 5637 4.037446 TGTGTTGCCTATCAAACCAAGTTC 59.963 41.667 0.00 0.00 36.26 3.01
4406 5638 3.957497 TGTGTTGCCTATCAAACCAAGTT 59.043 39.130 0.00 0.00 36.26 2.66
4407 5639 3.561143 TGTGTTGCCTATCAAACCAAGT 58.439 40.909 0.00 0.00 36.26 3.16
4413 5645 7.106439 TCTTTTTCTTGTGTTGCCTATCAAA 57.894 32.000 0.00 0.00 36.26 2.69
4453 5685 6.037610 GTCTCTTTCTTTTCTTTCTGCAGACA 59.962 38.462 18.03 9.56 0.00 3.41
4454 5686 6.426327 GTCTCTTTCTTTTCTTTCTGCAGAC 58.574 40.000 18.03 0.00 0.00 3.51
4462 5694 7.851387 AAGAAGTCGTCTCTTTCTTTTCTTT 57.149 32.000 0.00 0.00 34.56 2.52
4478 5710 1.196354 CTGCTTGCCAGAAAGAAGTCG 59.804 52.381 0.00 0.00 44.64 4.18
4493 5726 5.981915 GCATGTTCTCTTTTTCTTTCTGCTT 59.018 36.000 0.00 0.00 0.00 3.91
4539 5772 7.498570 TCATTTGGTCCAAAATCCTTTTTCTTG 59.501 33.333 20.76 9.92 36.90 3.02
4566 5799 1.101635 CGTATCCTCGAGAGCCCACA 61.102 60.000 15.71 0.00 0.00 4.17
4569 5802 1.249407 ATTCGTATCCTCGAGAGCCC 58.751 55.000 15.71 0.00 40.86 5.19
4577 5810 6.910536 AACTTGTCATGAATTCGTATCCTC 57.089 37.500 0.00 0.00 0.00 3.71
4615 5848 6.868622 AGACTTTAACACTAGCTAGGACATG 58.131 40.000 24.35 15.35 0.00 3.21
4616 5849 7.178628 TCAAGACTTTAACACTAGCTAGGACAT 59.821 37.037 24.35 10.19 0.00 3.06
4617 5850 6.492429 TCAAGACTTTAACACTAGCTAGGACA 59.508 38.462 24.35 4.27 0.00 4.02
4618 5851 6.921914 TCAAGACTTTAACACTAGCTAGGAC 58.078 40.000 24.35 5.63 0.00 3.85
4619 5852 7.450634 TCTTCAAGACTTTAACACTAGCTAGGA 59.549 37.037 24.35 4.72 0.00 2.94
4620 5853 7.603651 TCTTCAAGACTTTAACACTAGCTAGG 58.396 38.462 24.35 15.22 0.00 3.02
4633 5866 8.435187 TGCCATCATCTATATCTTCAAGACTTT 58.565 33.333 0.00 0.00 0.00 2.66
4661 5894 6.064846 ACATCATTTAATCATGGCGAGAAC 57.935 37.500 0.00 0.00 0.00 3.01
4811 6068 8.365399 TGGATCTTAAATACTTGAGTTATGCG 57.635 34.615 0.00 0.00 0.00 4.73
4818 6075 9.674824 GCATGATTTGGATCTTAAATACTTGAG 57.325 33.333 0.00 0.00 33.28 3.02
4820 6077 8.415553 TGGCATGATTTGGATCTTAAATACTTG 58.584 33.333 0.00 10.01 33.28 3.16
4821 6078 8.537728 TGGCATGATTTGGATCTTAAATACTT 57.462 30.769 0.00 1.38 33.28 2.24
4822 6079 8.537728 TTGGCATGATTTGGATCTTAAATACT 57.462 30.769 0.00 0.00 33.28 2.12
4825 6082 7.664552 TCTTGGCATGATTTGGATCTTAAAT 57.335 32.000 0.00 7.80 33.28 1.40
4854 6142 8.912988 TCTGTTCAGTTTGACAAATTAAATCCT 58.087 29.630 3.49 0.00 0.00 3.24
4913 6202 0.112412 GAAACCCTTGCTCCCTTCCA 59.888 55.000 0.00 0.00 0.00 3.53
4914 6203 0.112412 TGAAACCCTTGCTCCCTTCC 59.888 55.000 0.00 0.00 0.00 3.46
4915 6204 1.995376 TTGAAACCCTTGCTCCCTTC 58.005 50.000 0.00 0.00 0.00 3.46
4916 6205 2.039418 GTTTGAAACCCTTGCTCCCTT 58.961 47.619 0.00 0.00 0.00 3.95
4917 6206 1.217942 AGTTTGAAACCCTTGCTCCCT 59.782 47.619 4.14 0.00 0.00 4.20
4918 6207 1.341209 CAGTTTGAAACCCTTGCTCCC 59.659 52.381 4.14 0.00 0.00 4.30
4919 6208 2.306847 TCAGTTTGAAACCCTTGCTCC 58.693 47.619 4.14 0.00 0.00 4.70
4920 6209 4.385358 TTTCAGTTTGAAACCCTTGCTC 57.615 40.909 4.14 0.00 41.02 4.26
4921 6210 4.383010 CCTTTTCAGTTTGAAACCCTTGCT 60.383 41.667 4.14 0.00 45.03 3.91
4922 6211 3.871006 CCTTTTCAGTTTGAAACCCTTGC 59.129 43.478 4.14 0.00 45.03 4.01
4923 6212 4.161377 TCCCTTTTCAGTTTGAAACCCTTG 59.839 41.667 4.14 0.00 45.03 3.61
4924 6213 4.358214 TCCCTTTTCAGTTTGAAACCCTT 58.642 39.130 4.14 0.00 45.03 3.95
4925 6214 3.989056 TCCCTTTTCAGTTTGAAACCCT 58.011 40.909 4.14 0.00 45.03 4.34
4926 6215 4.404394 TCTTCCCTTTTCAGTTTGAAACCC 59.596 41.667 4.14 0.00 45.03 4.11
4927 6216 5.359860 TCTCTTCCCTTTTCAGTTTGAAACC 59.640 40.000 4.14 0.00 45.03 3.27
4928 6217 6.451064 TCTCTTCCCTTTTCAGTTTGAAAC 57.549 37.500 0.00 0.00 45.03 2.78
4929 6218 6.405842 GCTTCTCTTCCCTTTTCAGTTTGAAA 60.406 38.462 0.36 0.36 43.84 2.69
4930 6219 5.067805 GCTTCTCTTCCCTTTTCAGTTTGAA 59.932 40.000 0.00 0.00 34.03 2.69
4931 6220 4.580580 GCTTCTCTTCCCTTTTCAGTTTGA 59.419 41.667 0.00 0.00 0.00 2.69
4932 6221 4.582240 AGCTTCTCTTCCCTTTTCAGTTTG 59.418 41.667 0.00 0.00 0.00 2.93
4933 6222 4.582240 CAGCTTCTCTTCCCTTTTCAGTTT 59.418 41.667 0.00 0.00 0.00 2.66
4934 6223 4.140536 CAGCTTCTCTTCCCTTTTCAGTT 58.859 43.478 0.00 0.00 0.00 3.16
4935 6224 3.392616 TCAGCTTCTCTTCCCTTTTCAGT 59.607 43.478 0.00 0.00 0.00 3.41
4936 6225 4.013267 TCAGCTTCTCTTCCCTTTTCAG 57.987 45.455 0.00 0.00 0.00 3.02
4937 6226 4.647564 ATCAGCTTCTCTTCCCTTTTCA 57.352 40.909 0.00 0.00 0.00 2.69
4938 6227 5.707931 CAAATCAGCTTCTCTTCCCTTTTC 58.292 41.667 0.00 0.00 0.00 2.29
4939 6228 4.021632 GCAAATCAGCTTCTCTTCCCTTTT 60.022 41.667 0.00 0.00 0.00 2.27
4940 6229 3.509184 GCAAATCAGCTTCTCTTCCCTTT 59.491 43.478 0.00 0.00 0.00 3.11
4941 6230 3.087781 GCAAATCAGCTTCTCTTCCCTT 58.912 45.455 0.00 0.00 0.00 3.95
4942 6231 2.720915 GCAAATCAGCTTCTCTTCCCT 58.279 47.619 0.00 0.00 0.00 4.20
4943 6232 1.399791 CGCAAATCAGCTTCTCTTCCC 59.600 52.381 0.00 0.00 0.00 3.97
4944 6233 2.821307 CGCAAATCAGCTTCTCTTCC 57.179 50.000 0.00 0.00 0.00 3.46


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

AutoCloner maintained by Alex Coulton.