Multiple sequence alignment - TraesCS1B01G131600

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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 TraesCS1B01G131600 chr1B 100.000 7327 0 0 1 7327 164715635 164708309 0.000000e+00 13531
1 TraesCS1B01G131600 chr1A 93.349 7292 298 70 1 7153 112042615 112035372 0.000000e+00 10606
2 TraesCS1B01G131600 chr1A 91.566 83 7 0 5517 5599 112036910 112036828 1.670000e-21 115
3 TraesCS1B01G131600 chr1D 95.739 3919 122 17 1 3880 108836831 108832919 0.000000e+00 6270
4 TraesCS1B01G131600 chr1D 97.057 1767 47 3 3882 5643 108832847 108831081 0.000000e+00 2970
5 TraesCS1B01G131600 chr1D 91.569 1542 74 21 5642 7150 108830757 108829239 0.000000e+00 2076
6 TraesCS1B01G131600 chr1D 80.332 361 69 2 2906 3265 108833863 108833504 9.370000e-69 272
7 TraesCS1B01G131600 chr1D 90.110 182 17 1 7147 7327 236811690 236811871 1.230000e-57 235
8 TraesCS1B01G131600 chr1D 89.674 184 17 2 7145 7327 416692243 416692061 4.420000e-57 233
9 TraesCS1B01G131600 chr4A 91.111 180 14 2 7143 7322 669376390 669376567 7.340000e-60 243
10 TraesCS1B01G131600 chr5D 89.785 186 17 2 7143 7327 60468966 60469150 3.420000e-58 237
11 TraesCS1B01G131600 chr5B 90.449 178 17 0 7150 7327 710783402 710783225 1.230000e-57 235
12 TraesCS1B01G131600 chr4D 90.503 179 15 2 7150 7327 3627924 3627747 1.230000e-57 235
13 TraesCS1B01G131600 chr3B 90.503 179 16 1 7150 7327 751139603 751139425 1.230000e-57 235
14 TraesCS1B01G131600 chr3B 89.305 187 18 2 7143 7327 667116509 667116323 4.420000e-57 233
15 TraesCS1B01G131600 chr3B 71.717 495 112 24 4173 4654 81815925 81816404 6.010000e-21 113
16 TraesCS1B01G131600 chr5A 88.421 190 18 4 7139 7327 11688646 11688460 7.400000e-55 226
17 TraesCS1B01G131600 chr3A 72.600 500 109 23 4173 4659 63907793 63908277 9.910000e-29 139
18 TraesCS1B01G131600 chr3D 72.581 496 106 24 4173 4654 51041377 51041856 1.280000e-27 135


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 TraesCS1B01G131600 chr1B 164708309 164715635 7326 True 13531 13531 100.00000 1 7327 1 chr1B.!!$R1 7326
1 TraesCS1B01G131600 chr1A 112035372 112042615 7243 True 10606 10606 93.34900 1 7153 1 chr1A.!!$R1 7152
2 TraesCS1B01G131600 chr1D 108829239 108836831 7592 True 2897 6270 91.17425 1 7150 4 chr1D.!!$R2 7149

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
189 190 0.669625 GACGACGGGGAACTTTGGAG 60.670 60.000 0.00 0.0 0.00 3.86 F
579 580 0.790814 GTGGCTTCAGTGCGTAGTTC 59.209 55.000 0.00 0.0 0.00 3.01 F
2350 2378 1.064758 ACAGCCAGTTTGAAGGACACA 60.065 47.619 0.00 0.0 0.00 3.72 F
3404 3432 1.143684 TGCCCATGCTATCCCTTTCTC 59.856 52.381 0.00 0.0 38.71 2.87 F
4362 4490 0.472734 TTTTTGGTGGTGGGGATGGG 60.473 55.000 0.00 0.0 0.00 4.00 F
4688 4819 0.829182 CTTGGCCTCCCAGTTGCTTT 60.829 55.000 3.32 0.0 43.37 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1468 1478 1.100510 GTTTAGGCGGGCCTTAAAGG 58.899 55.000 18.70 0.00 45.70 3.11 R
2402 2430 0.824182 TTTTGGTGCGGGGTAACTGG 60.824 55.000 0.00 0.00 0.00 4.00 R
4169 4297 1.193203 GCATGTCCAGATTATCGCACG 59.807 52.381 0.00 0.00 0.00 5.34 R
5079 5211 1.100510 TGAGGATGCAATGCAGAAGC 58.899 50.000 14.98 4.11 43.65 3.86 R
5603 5760 1.002134 ACCATCCTCCCGTTGCTTG 60.002 57.895 0.00 0.00 0.00 4.01 R
6431 6926 0.685097 TCAAAGGGAAGGGTGAGACG 59.315 55.000 0.00 0.00 0.00 4.18 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
31 32 1.706443 GTTCTAGGGTTTCGGTCGTG 58.294 55.000 0.00 0.00 0.00 4.35
189 190 0.669625 GACGACGGGGAACTTTGGAG 60.670 60.000 0.00 0.00 0.00 3.86
230 231 1.937546 GCTGGCGGTTATTGCTTGCT 61.938 55.000 0.00 0.00 0.00 3.91
275 276 1.084289 GCGCTAGTTCGGTGGATTTT 58.916 50.000 0.00 0.00 0.00 1.82
304 305 1.125847 CGTAGGCGCGAAATGTTTGC 61.126 55.000 12.10 0.00 0.00 3.68
337 338 6.377245 TCTATTTTCCCCTTTTCGACCTTA 57.623 37.500 0.00 0.00 0.00 2.69
532 533 8.570096 TGACTCGTTATTTCAATTCCGTATAG 57.430 34.615 0.00 0.00 0.00 1.31
533 534 8.192774 TGACTCGTTATTTCAATTCCGTATAGT 58.807 33.333 0.00 0.00 0.00 2.12
534 535 9.669353 GACTCGTTATTTCAATTCCGTATAGTA 57.331 33.333 0.00 0.00 0.00 1.82
579 580 0.790814 GTGGCTTCAGTGCGTAGTTC 59.209 55.000 0.00 0.00 0.00 3.01
671 672 3.245586 TGGATGCTAATTTTGGGTCTGGT 60.246 43.478 0.00 0.00 0.00 4.00
673 674 4.953579 GGATGCTAATTTTGGGTCTGGTTA 59.046 41.667 0.00 0.00 0.00 2.85
674 675 5.163550 GGATGCTAATTTTGGGTCTGGTTAC 60.164 44.000 0.00 0.00 0.00 2.50
744 745 3.428045 GGGCTTATTCAATGTCACACTGC 60.428 47.826 0.00 0.00 0.00 4.40
768 769 6.238211 GCGCAGTGTTATCATCTTAGTTGAAT 60.238 38.462 0.30 0.00 0.00 2.57
770 771 7.201556 CGCAGTGTTATCATCTTAGTTGAATGT 60.202 37.037 0.00 0.00 0.00 2.71
794 796 3.772025 TCTGTTGGGGTGTTTGTGATTTT 59.228 39.130 0.00 0.00 0.00 1.82
867 870 3.124297 CGCTGACTTGACTTGGAATTCTC 59.876 47.826 5.23 0.00 0.00 2.87
877 880 5.236478 TGACTTGGAATTCTCGTTTCAGTTC 59.764 40.000 5.23 0.00 0.00 3.01
937 940 7.596995 TGATTTTTGTAATTGTCGAATGTTCCC 59.403 33.333 0.00 0.00 0.00 3.97
958 961 7.149202 TCCCTGCCAATTACTGAACTAATAT 57.851 36.000 0.00 0.00 0.00 1.28
1015 1020 3.317406 TGATTTATGCCCTGCCTAGAGA 58.683 45.455 0.00 0.00 0.00 3.10
1042 1048 5.398169 TGCAGTTTGAAAAGTATATTGCCG 58.602 37.500 0.00 0.00 0.00 5.69
1302 1310 4.285863 TGGTTTGTGAATTCCACCTTTCT 58.714 39.130 2.27 0.00 45.09 2.52
1386 1394 7.428826 CAATATCGACTATATAGGCTGATGCA 58.571 38.462 22.58 11.46 33.90 3.96
1468 1478 3.372514 GCCTTGCTAGTCTTTTAGTCAGC 59.627 47.826 0.00 0.00 0.00 4.26
1686 1710 1.557371 TGTCCCGTTGCCATCTTGATA 59.443 47.619 0.00 0.00 0.00 2.15
1691 1715 3.243168 CCCGTTGCCATCTTGATATGTTG 60.243 47.826 0.00 0.00 0.00 3.33
2025 2053 8.755028 TGGTGTATCTATAGCTAAGTTTGTTCA 58.245 33.333 0.00 0.00 0.00 3.18
2119 2147 3.525199 AGCCACTCTTTGAGGTCCAATAT 59.475 43.478 0.00 0.00 34.23 1.28
2233 2261 5.053978 AGTCAGTTGGTCCTCTCAATTTT 57.946 39.130 0.00 0.00 0.00 1.82
2349 2377 1.334869 CACAGCCAGTTTGAAGGACAC 59.665 52.381 0.00 0.00 0.00 3.67
2350 2378 1.064758 ACAGCCAGTTTGAAGGACACA 60.065 47.619 0.00 0.00 0.00 3.72
2402 2430 2.231235 CCATCAACTAAAAGGGTGGCAC 59.769 50.000 9.70 9.70 0.00 5.01
2584 2612 3.704061 AGACATCTGGAGAGCTAGTTTCC 59.296 47.826 0.00 0.00 0.00 3.13
2727 2755 1.634973 TGCCAATCCTGTGAATGGAGA 59.365 47.619 0.89 0.00 43.21 3.71
2731 2759 2.679837 CAATCCTGTGAATGGAGAACGG 59.320 50.000 0.00 0.00 36.99 4.44
2872 2900 5.367945 AGGAGTTGGTTGACTTAAGACAA 57.632 39.130 15.00 15.00 0.00 3.18
2936 2964 6.045318 CCAGATGTGTATGTACCTGAAGAAG 58.955 44.000 0.00 0.00 0.00 2.85
3298 3326 5.473162 CCATCATGTACCTGAAGAAACACAA 59.527 40.000 4.88 0.00 0.00 3.33
3404 3432 1.143684 TGCCCATGCTATCCCTTTCTC 59.856 52.381 0.00 0.00 38.71 2.87
3471 3499 5.220912 CCTTGTGCCTGATAACATGTGTATG 60.221 44.000 0.00 0.00 40.24 2.39
3524 3552 4.739228 CAGCTTCTACGAATCATCACTGAG 59.261 45.833 0.00 0.00 34.12 3.35
3567 3595 3.913163 ACTGGAGAAGAATCAGGTTCCTT 59.087 43.478 0.00 0.00 37.56 3.36
3587 3615 7.452880 TCCTTATTTCTTCTTGAACATGTGG 57.547 36.000 0.00 0.00 33.88 4.17
3591 3619 9.565213 CTTATTTCTTCTTGAACATGTGGAATC 57.435 33.333 0.00 0.00 33.88 2.52
3609 3644 4.083271 GGAATCTAACTATTGATTGGCGCC 60.083 45.833 22.73 22.73 33.60 6.53
3673 3708 3.945346 ACACATCACCTGCGGTTTTATA 58.055 40.909 0.00 0.00 31.02 0.98
3726 3761 5.888982 TTCTCTGGGAAAAGACAGTAGTT 57.111 39.130 0.00 0.00 36.17 2.24
3947 4075 5.687770 TTTCGTGCCATGTATATCCATTG 57.312 39.130 0.00 0.00 0.00 2.82
4155 4283 4.398319 TCAAATTTGACTCCTCCTTGTCC 58.602 43.478 16.91 0.00 32.67 4.02
4169 4297 1.882623 CTTGTCCCTTCAAGGAAGCAC 59.117 52.381 4.43 0.00 40.49 4.40
4299 4427 0.819582 TCACATCGATGAGCTCTGCA 59.180 50.000 31.33 4.01 0.00 4.41
4362 4490 0.472734 TTTTTGGTGGTGGGGATGGG 60.473 55.000 0.00 0.00 0.00 4.00
4688 4819 0.829182 CTTGGCCTCCCAGTTGCTTT 60.829 55.000 3.32 0.00 43.37 3.51
4749 4880 7.575720 GCCTATTTCATAGCAACACTGAACTTT 60.576 37.037 0.00 0.00 0.00 2.66
4801 4932 7.676004 TGTGATGAACTCAGTGACCTTAATAA 58.324 34.615 0.00 0.00 33.51 1.40
4831 4962 9.388506 CAATAGGAGACATCTGTTTACTTCAAT 57.611 33.333 0.00 0.00 0.00 2.57
4838 4969 9.956720 AGACATCTGTTTACTTCAATTTTTCAG 57.043 29.630 0.00 0.00 0.00 3.02
4891 5023 2.290450 TGAGTTCTGCATTGCATCCTCA 60.290 45.455 21.45 21.45 38.13 3.86
5031 5163 5.808366 TCAAATAGGAGACATCGGCTTAT 57.192 39.130 0.00 0.00 0.00 1.73
5079 5211 5.289595 TCTGCATAGCTTCGTACCAATTAG 58.710 41.667 0.00 0.00 0.00 1.73
5080 5212 3.807622 TGCATAGCTTCGTACCAATTAGC 59.192 43.478 0.00 0.00 0.00 3.09
5547 5684 7.926555 TCTCGAGTCAAATCTATAAATGGTTCC 59.073 37.037 13.13 0.00 0.00 3.62
5603 5760 7.037438 ACCACTTGAATGATAAAATGACATGC 58.963 34.615 0.00 0.00 0.00 4.06
5610 5767 6.897259 ATGATAAAATGACATGCAAGCAAC 57.103 33.333 0.00 0.00 0.00 4.17
5612 5769 2.068837 AAATGACATGCAAGCAACGG 57.931 45.000 0.00 0.00 0.00 4.44
5633 5790 5.057149 CGGGAGGATGGTGTAAATCTTTAG 58.943 45.833 0.00 0.00 0.00 1.85
5688 6170 9.736023 CTTTTTCTTGGATGCTAATATAACCAC 57.264 33.333 0.00 0.00 0.00 4.16
6018 6513 4.389374 TGGTTTCCAGTGTTGAGATCTTC 58.611 43.478 0.00 0.00 0.00 2.87
6272 6767 1.371558 GAACTCCGGCTGGTCAGTT 59.628 57.895 16.53 16.53 35.58 3.16
6379 6874 3.081804 AGTCTCTTAACATTTTGCCGGG 58.918 45.455 2.18 0.00 0.00 5.73
6431 6926 1.809684 AAGCAGTTTTAGGGCTCGTC 58.190 50.000 0.00 0.00 36.76 4.20
6517 7013 4.074970 CAGTTTAGCAACCCTCATTCAGT 58.925 43.478 0.00 0.00 32.70 3.41
6518 7014 4.520492 CAGTTTAGCAACCCTCATTCAGTT 59.480 41.667 0.00 0.00 32.70 3.16
6525 7021 4.389374 CAACCCTCATTCAGTTGTGTACT 58.611 43.478 0.00 0.00 36.87 2.73
6569 7066 3.521560 TGCGAGACATGTAGAATGTTCC 58.478 45.455 0.00 0.00 31.52 3.62
6580 7077 5.100259 TGTAGAATGTTCCGAATTCTCGTC 58.900 41.667 3.52 0.00 42.14 4.20
6584 7081 5.643777 AGAATGTTCCGAATTCTCGTCAAAT 59.356 36.000 3.52 0.00 43.87 2.32
6587 7084 4.994852 TGTTCCGAATTCTCGTCAAATCTT 59.005 37.500 3.52 0.00 43.87 2.40
6588 7085 5.107104 TGTTCCGAATTCTCGTCAAATCTTG 60.107 40.000 3.52 0.00 43.87 3.02
6589 7086 4.816392 TCCGAATTCTCGTCAAATCTTGA 58.184 39.130 3.52 0.00 43.87 3.02
6602 7099 6.656632 TCAAATCTTGACGCTCCTCTATAT 57.343 37.500 0.00 0.00 34.08 0.86
6603 7100 7.761038 TCAAATCTTGACGCTCCTCTATATA 57.239 36.000 0.00 0.00 34.08 0.86
6604 7101 7.594714 TCAAATCTTGACGCTCCTCTATATAC 58.405 38.462 0.00 0.00 34.08 1.47
6605 7102 6.518208 AATCTTGACGCTCCTCTATATACC 57.482 41.667 0.00 0.00 0.00 2.73
6606 7103 5.244189 TCTTGACGCTCCTCTATATACCT 57.756 43.478 0.00 0.00 0.00 3.08
6612 7109 3.444388 CGCTCCTCTATATACCTGGAACC 59.556 52.174 0.00 0.00 0.00 3.62
6700 7197 9.638239 TCTTATTGAATGTGTTATTTCTTTGCC 57.362 29.630 0.00 0.00 0.00 4.52
6737 7234 5.582550 CACTCTTTCTGAAACCTTGTTTCC 58.417 41.667 15.02 1.26 0.00 3.13
6811 7309 4.761739 AGACACTTGGAATGTTATGTGTGG 59.238 41.667 0.00 0.00 38.52 4.17
6828 7326 2.227626 TGTGGTTTTGCCGTGATACATG 59.772 45.455 0.00 0.00 41.21 3.21
6861 7359 2.481952 GCTACACTGCCTTTCTGAGTTG 59.518 50.000 0.00 0.00 0.00 3.16
6867 7365 2.298163 CTGCCTTTCTGAGTTGCCAAAT 59.702 45.455 0.00 0.00 0.00 2.32
6882 7380 4.279982 TGCCAAATCAATATCCAGCTTGA 58.720 39.130 0.00 0.00 35.95 3.02
6883 7381 4.710865 TGCCAAATCAATATCCAGCTTGAA 59.289 37.500 0.00 0.00 35.20 2.69
6884 7382 5.364446 TGCCAAATCAATATCCAGCTTGAAT 59.636 36.000 0.00 0.00 35.20 2.57
6885 7383 5.694910 GCCAAATCAATATCCAGCTTGAATG 59.305 40.000 0.00 0.00 35.20 2.67
6909 7412 1.600356 TTGCATCACAGCCTTGCGA 60.600 52.632 0.00 0.00 39.23 5.10
6910 7413 0.961857 TTGCATCACAGCCTTGCGAT 60.962 50.000 0.00 0.00 39.23 4.58
6915 7418 1.123077 TCACAGCCTTGCGATAGGAT 58.877 50.000 7.38 0.00 37.50 3.24
6916 7419 2.316108 TCACAGCCTTGCGATAGGATA 58.684 47.619 7.38 0.00 37.50 2.59
6917 7420 2.899900 TCACAGCCTTGCGATAGGATAT 59.100 45.455 7.38 0.00 37.50 1.63
6925 7428 4.095483 CCTTGCGATAGGATATTGAATGCC 59.905 45.833 0.00 0.00 37.50 4.40
6940 7443 4.078537 TGAATGCCTTTTCTTCCGAATCA 58.921 39.130 0.00 0.00 0.00 2.57
6993 7517 2.818432 GCTCATCATGGGATTAGCTTGG 59.182 50.000 0.00 0.00 44.00 3.61
7004 7528 0.616371 TTAGCTTGGGCCGCTTCTTA 59.384 50.000 11.28 0.00 38.86 2.10
7027 7551 4.021229 TGGTGACATACTCAGGACGTATT 58.979 43.478 0.00 0.00 33.40 1.89
7032 7556 6.482641 GTGACATACTCAGGACGTATTAGAGA 59.517 42.308 12.06 0.00 0.00 3.10
7054 7578 6.906848 AGATTTTACTTTATCGGGGATGGAA 58.093 36.000 0.00 0.00 0.00 3.53
7056 7580 5.961398 TTTACTTTATCGGGGATGGAAGA 57.039 39.130 9.21 0.00 0.00 2.87
7062 7586 2.710096 TCGGGGATGGAAGATGTTTC 57.290 50.000 0.00 0.00 0.00 2.78
7116 7644 5.304778 ACCAAAGCATTTTTACCATTGGTC 58.695 37.500 12.68 0.00 44.08 4.02
7125 7653 4.345859 TTTACCATTGGTCTCTCGTGTT 57.654 40.909 12.68 0.00 37.09 3.32
7133 7661 6.293955 CCATTGGTCTCTCGTGTTTGTATTTT 60.294 38.462 0.00 0.00 0.00 1.82
7138 7666 7.012894 TGGTCTCTCGTGTTTGTATTTTTGAAT 59.987 33.333 0.00 0.00 0.00 2.57
7170 7698 9.031537 TCTTATTTTTAAAATGGAGGAAGACCC 57.968 33.333 12.62 0.00 36.73 4.46
7171 7699 6.620877 ATTTTTAAAATGGAGGAAGACCCC 57.379 37.500 1.76 0.00 36.73 4.95
7172 7700 3.750501 TTAAAATGGAGGAAGACCCCC 57.249 47.619 0.00 0.00 36.73 5.40
7173 7701 0.331616 AAAATGGAGGAAGACCCCCG 59.668 55.000 0.00 0.00 36.73 5.73
7174 7702 1.571773 AAATGGAGGAAGACCCCCGG 61.572 60.000 0.00 0.00 36.73 5.73
7180 7708 3.787001 GAAGACCCCCGGCCTCTG 61.787 72.222 0.00 0.00 0.00 3.35
7186 7714 4.559063 CCCCGGCCTCTGCATCTG 62.559 72.222 0.00 0.00 40.13 2.90
7187 7715 4.559063 CCCGGCCTCTGCATCTGG 62.559 72.222 0.00 0.00 40.13 3.86
7188 7716 3.473647 CCGGCCTCTGCATCTGGA 61.474 66.667 0.00 0.00 40.13 3.86
7189 7717 2.202987 CGGCCTCTGCATCTGGAC 60.203 66.667 0.00 0.35 40.13 4.02
7190 7718 2.202987 GGCCTCTGCATCTGGACG 60.203 66.667 0.00 0.00 40.13 4.79
7191 7719 2.725312 GGCCTCTGCATCTGGACGA 61.725 63.158 0.00 0.00 40.13 4.20
7192 7720 1.445095 GCCTCTGCATCTGGACGAT 59.555 57.895 0.00 0.00 37.47 3.73
7199 7727 2.697819 CATCTGGACGATGCATGCA 58.302 52.632 25.04 25.04 42.75 3.96
7200 7728 0.586802 CATCTGGACGATGCATGCAG 59.413 55.000 26.69 15.79 42.75 4.41
7201 7729 1.164662 ATCTGGACGATGCATGCAGC 61.165 55.000 25.69 25.69 45.96 5.25
7202 7730 2.825387 TGGACGATGCATGCAGCC 60.825 61.111 28.76 23.21 44.83 4.85
7203 7731 2.825387 GGACGATGCATGCAGCCA 60.825 61.111 28.76 3.84 44.83 4.75
7204 7732 2.191513 GGACGATGCATGCAGCCAT 61.192 57.895 28.76 18.07 44.83 4.40
7205 7733 1.731433 GGACGATGCATGCAGCCATT 61.731 55.000 28.76 14.28 44.83 3.16
7206 7734 0.101759 GACGATGCATGCAGCCATTT 59.898 50.000 28.76 9.83 44.83 2.32
7207 7735 0.533491 ACGATGCATGCAGCCATTTT 59.467 45.000 28.76 9.02 44.83 1.82
7208 7736 1.750206 ACGATGCATGCAGCCATTTTA 59.250 42.857 28.76 0.09 44.83 1.52
7209 7737 2.363038 ACGATGCATGCAGCCATTTTAT 59.637 40.909 28.76 7.39 44.83 1.40
7210 7738 3.181473 ACGATGCATGCAGCCATTTTATT 60.181 39.130 28.76 6.59 44.83 1.40
7211 7739 4.037803 ACGATGCATGCAGCCATTTTATTA 59.962 37.500 28.76 0.00 44.83 0.98
7212 7740 4.983538 CGATGCATGCAGCCATTTTATTAA 59.016 37.500 28.76 0.00 44.83 1.40
7213 7741 5.636121 CGATGCATGCAGCCATTTTATTAAT 59.364 36.000 28.76 5.31 44.83 1.40
7214 7742 6.146510 CGATGCATGCAGCCATTTTATTAATT 59.853 34.615 28.76 4.60 44.83 1.40
7215 7743 6.606234 TGCATGCAGCCATTTTATTAATTG 57.394 33.333 18.46 0.00 44.83 2.32
7216 7744 6.114089 TGCATGCAGCCATTTTATTAATTGT 58.886 32.000 18.46 0.00 44.83 2.71
7217 7745 6.598457 TGCATGCAGCCATTTTATTAATTGTT 59.402 30.769 18.46 0.00 44.83 2.83
7218 7746 7.127686 GCATGCAGCCATTTTATTAATTGTTC 58.872 34.615 14.21 0.00 37.23 3.18
7219 7747 7.201626 GCATGCAGCCATTTTATTAATTGTTCA 60.202 33.333 14.21 0.00 37.23 3.18
7220 7748 7.593875 TGCAGCCATTTTATTAATTGTTCAC 57.406 32.000 0.00 0.00 0.00 3.18
7221 7749 7.157347 TGCAGCCATTTTATTAATTGTTCACA 58.843 30.769 0.00 0.00 0.00 3.58
7222 7750 7.117523 TGCAGCCATTTTATTAATTGTTCACAC 59.882 33.333 0.00 0.00 0.00 3.82
7223 7751 7.117523 GCAGCCATTTTATTAATTGTTCACACA 59.882 33.333 0.00 0.00 0.00 3.72
7225 7753 9.206870 AGCCATTTTATTAATTGTTCACACAAG 57.793 29.630 0.00 0.00 46.25 3.16
7226 7754 9.202273 GCCATTTTATTAATTGTTCACACAAGA 57.798 29.630 0.00 0.00 46.25 3.02
7237 7765 8.691661 ATTGTTCACACAAGACCTTATAAAGT 57.308 30.769 0.00 0.00 46.25 2.66
7238 7766 9.787435 ATTGTTCACACAAGACCTTATAAAGTA 57.213 29.630 0.00 0.00 46.25 2.24
7239 7767 9.616156 TTGTTCACACAAGACCTTATAAAGTAA 57.384 29.630 0.00 0.00 38.03 2.24
7240 7768 9.787435 TGTTCACACAAGACCTTATAAAGTAAT 57.213 29.630 0.00 0.00 0.00 1.89
7265 7793 7.875327 ATAACAATAAGATTAAAGCCGTGGT 57.125 32.000 0.00 0.00 0.00 4.16
7266 7794 5.813080 ACAATAAGATTAAAGCCGTGGTC 57.187 39.130 0.00 0.00 0.00 4.02
7267 7795 5.497474 ACAATAAGATTAAAGCCGTGGTCT 58.503 37.500 0.00 0.00 0.00 3.85
7268 7796 6.646267 ACAATAAGATTAAAGCCGTGGTCTA 58.354 36.000 0.00 0.00 0.00 2.59
7269 7797 6.761714 ACAATAAGATTAAAGCCGTGGTCTAG 59.238 38.462 0.00 0.00 0.00 2.43
7270 7798 3.821421 AGATTAAAGCCGTGGTCTAGG 57.179 47.619 0.00 0.00 0.00 3.02
7282 7810 4.625742 CCGTGGTCTAGGCAATATTTATCG 59.374 45.833 0.00 0.00 0.00 2.92
7283 7811 4.091509 CGTGGTCTAGGCAATATTTATCGC 59.908 45.833 0.00 0.00 0.00 4.58
7284 7812 5.238583 GTGGTCTAGGCAATATTTATCGCT 58.761 41.667 0.00 0.00 0.00 4.93
7285 7813 6.395629 GTGGTCTAGGCAATATTTATCGCTA 58.604 40.000 0.00 0.00 0.00 4.26
7286 7814 6.310711 GTGGTCTAGGCAATATTTATCGCTAC 59.689 42.308 0.00 0.00 0.00 3.58
7287 7815 6.210784 TGGTCTAGGCAATATTTATCGCTACT 59.789 38.462 0.00 0.00 0.00 2.57
7288 7816 6.752815 GGTCTAGGCAATATTTATCGCTACTC 59.247 42.308 0.00 0.00 0.00 2.59
7289 7817 6.752815 GTCTAGGCAATATTTATCGCTACTCC 59.247 42.308 0.00 0.00 0.00 3.85
7290 7818 5.746990 AGGCAATATTTATCGCTACTCCT 57.253 39.130 0.00 0.00 0.00 3.69
7291 7819 6.852420 AGGCAATATTTATCGCTACTCCTA 57.148 37.500 0.00 0.00 0.00 2.94
7292 7820 7.425224 AGGCAATATTTATCGCTACTCCTAT 57.575 36.000 0.00 0.00 0.00 2.57
7293 7821 7.852263 AGGCAATATTTATCGCTACTCCTATT 58.148 34.615 0.00 0.00 0.00 1.73
7294 7822 7.982354 AGGCAATATTTATCGCTACTCCTATTC 59.018 37.037 0.00 0.00 0.00 1.75
7295 7823 7.764443 GGCAATATTTATCGCTACTCCTATTCA 59.236 37.037 0.00 0.00 0.00 2.57
7296 7824 9.151471 GCAATATTTATCGCTACTCCTATTCAA 57.849 33.333 0.00 0.00 0.00 2.69
7317 7845 7.991084 TCAATTAATGAAGGGATGCTGATAG 57.009 36.000 0.00 0.00 34.30 2.08
7318 7846 7.520798 TCAATTAATGAAGGGATGCTGATAGT 58.479 34.615 0.00 0.00 34.30 2.12
7319 7847 7.663081 TCAATTAATGAAGGGATGCTGATAGTC 59.337 37.037 0.00 0.00 34.30 2.59
7320 7848 6.753913 TTAATGAAGGGATGCTGATAGTCT 57.246 37.500 0.00 0.00 0.00 3.24
7321 7849 4.620589 ATGAAGGGATGCTGATAGTCTG 57.379 45.455 0.00 0.00 0.00 3.51
7322 7850 3.646534 TGAAGGGATGCTGATAGTCTGA 58.353 45.455 0.00 0.00 0.00 3.27
7323 7851 3.640498 TGAAGGGATGCTGATAGTCTGAG 59.360 47.826 0.00 0.00 0.00 3.35
7324 7852 1.969923 AGGGATGCTGATAGTCTGAGC 59.030 52.381 0.00 0.00 0.00 4.26
7325 7853 1.001860 GGGATGCTGATAGTCTGAGCC 59.998 57.143 0.00 0.00 31.31 4.70
7326 7854 1.969923 GGATGCTGATAGTCTGAGCCT 59.030 52.381 0.00 0.00 31.31 4.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
189 190 1.152989 TACAAACACACCGTGCGGAC 61.153 55.000 18.16 0.00 36.98 4.79
214 215 2.931512 TAAAGCAAGCAATAACCGCC 57.068 45.000 0.00 0.00 0.00 6.13
230 231 2.994990 CGGGAAATCGCCGGATAAA 58.005 52.632 5.05 0.00 31.01 1.40
275 276 3.945436 CGCCTACGCACTGAAACA 58.055 55.556 0.00 0.00 34.03 2.83
304 305 4.935578 AGGGGAAAATAGAAACAGGAAGG 58.064 43.478 0.00 0.00 0.00 3.46
337 338 7.761249 GCAAAATAAGCATAGAAACAACAGGAT 59.239 33.333 0.00 0.00 0.00 3.24
532 533 5.643777 AGAAGCAACCACACATCACTAATAC 59.356 40.000 0.00 0.00 0.00 1.89
533 534 5.643348 CAGAAGCAACCACACATCACTAATA 59.357 40.000 0.00 0.00 0.00 0.98
534 535 4.456911 CAGAAGCAACCACACATCACTAAT 59.543 41.667 0.00 0.00 0.00 1.73
579 580 0.098552 TTCGCGCATAAAGCATGTGG 59.901 50.000 8.75 0.00 44.00 4.17
613 614 6.363882 TCTCACAATATGACCCAATGCATAA 58.636 36.000 0.00 0.00 32.37 1.90
671 672 2.173519 AGACTGAATTCCGTCCCGTAA 58.826 47.619 21.99 0.00 0.00 3.18
673 674 0.974383 AAGACTGAATTCCGTCCCGT 59.026 50.000 21.99 8.86 0.00 5.28
674 675 1.732259 CAAAGACTGAATTCCGTCCCG 59.268 52.381 21.99 10.27 0.00 5.14
725 726 3.120234 TGCGCAGTGTGACATTGAATAAG 60.120 43.478 12.50 0.00 0.00 1.73
744 745 6.647212 TTCAACTAAGATGATAACACTGCG 57.353 37.500 0.00 0.00 0.00 5.18
768 769 2.232452 CACAAACACCCCAACAGAAACA 59.768 45.455 0.00 0.00 0.00 2.83
770 771 2.808919 TCACAAACACCCCAACAGAAA 58.191 42.857 0.00 0.00 0.00 2.52
794 796 7.442969 TGTTAAAACTCCTCGAAGCTTAAATCA 59.557 33.333 0.00 0.00 0.00 2.57
837 840 0.671781 GTCAAGTCAGCGTGATGGCT 60.672 55.000 0.00 0.00 46.13 4.75
846 849 3.124297 CGAGAATTCCAAGTCAAGTCAGC 59.876 47.826 0.65 0.00 0.00 4.26
867 870 4.796312 ACAACCAAAATTCGAACTGAAACG 59.204 37.500 0.00 0.00 40.71 3.60
937 940 6.207417 CCCCATATTAGTTCAGTAATTGGCAG 59.793 42.308 0.00 0.00 0.00 4.85
958 961 4.601406 AGCTGTATCCAAATAAACCCCA 57.399 40.909 0.00 0.00 0.00 4.96
1015 1020 8.190784 GGCAATATACTTTTCAAACTGCAGTAT 58.809 33.333 22.01 8.99 35.37 2.12
1051 1057 7.722363 TCAAGGGAGAAATAAAACCAAAAGAC 58.278 34.615 0.00 0.00 0.00 3.01
1302 1310 8.325787 TCATAATAAAGGTGTAAAGCAAGAGGA 58.674 33.333 0.00 0.00 0.00 3.71
1332 1340 8.578308 AACACAAAATGATGTTGTTACAGATG 57.422 30.769 0.00 0.00 37.09 2.90
1431 1441 2.029623 CAAGGCCTGAGGAATGAATGG 58.970 52.381 5.69 0.00 0.00 3.16
1468 1478 1.100510 GTTTAGGCGGGCCTTAAAGG 58.899 55.000 18.70 0.00 45.70 3.11
1611 1635 4.836125 TCAAGAAAATGAAGTGTGGAGC 57.164 40.909 0.00 0.00 0.00 4.70
2233 2261 2.158682 TGAAACAGCTGGGACTTGCTTA 60.159 45.455 19.93 0.00 36.83 3.09
2337 2365 5.712152 AGATGGATTTGTGTCCTTCAAAC 57.288 39.130 10.31 0.00 42.13 2.93
2349 2377 8.954950 AGTTGATAGAACACTAGATGGATTTG 57.045 34.615 0.00 0.00 0.00 2.32
2350 2378 9.606631 GAAGTTGATAGAACACTAGATGGATTT 57.393 33.333 0.00 0.00 0.00 2.17
2402 2430 0.824182 TTTTGGTGCGGGGTAACTGG 60.824 55.000 0.00 0.00 0.00 4.00
2584 2612 1.486310 TCATCCAAATCCTCCCAGTCG 59.514 52.381 0.00 0.00 0.00 4.18
2630 2658 0.321919 TGTTGACTGGCCTCATCTGC 60.322 55.000 3.32 0.00 0.00 4.26
2727 2755 4.192317 GTCTCCATTAGAAGAATGCCGTT 58.808 43.478 0.00 0.00 35.47 4.44
2731 2759 4.820716 AGCATGTCTCCATTAGAAGAATGC 59.179 41.667 0.00 0.00 42.57 3.56
2872 2900 0.471617 GGGATGATAGTGCTGCCTGT 59.528 55.000 0.00 0.00 0.00 4.00
2936 2964 3.694889 GGTTCGCATTAACCTGTGC 57.305 52.632 5.57 0.00 44.67 4.57
3002 3030 7.384660 CACATACTCATCTTGGCTAGAAAGATC 59.615 40.741 14.84 0.00 41.39 2.75
3004 3032 6.577103 CACATACTCATCTTGGCTAGAAAGA 58.423 40.000 15.07 9.87 38.01 2.52
3298 3326 2.014010 TGGAAAGGCTTGAATTGGCT 57.986 45.000 0.00 0.00 42.26 4.75
3495 3523 2.231235 TGATTCGTAGAAGCTGCACAGA 59.769 45.455 1.02 0.00 45.90 3.41
3567 3595 8.868522 AGATTCCACATGTTCAAGAAGAAATA 57.131 30.769 0.00 0.00 38.13 1.40
3587 3615 4.757149 AGGCGCCAATCAATAGTTAGATTC 59.243 41.667 31.54 0.00 32.43 2.52
3591 3619 4.900635 AAAGGCGCCAATCAATAGTTAG 57.099 40.909 31.54 0.00 0.00 2.34
3609 3644 9.672086 TTCGTTTCAATCCAACAAGTAATAAAG 57.328 29.630 0.00 0.00 0.00 1.85
3673 3708 7.365295 CCCTATAACAACATACTACCCAAGTGT 60.365 40.741 0.00 0.00 39.39 3.55
3709 3744 2.107552 CCCCAACTACTGTCTTTTCCCA 59.892 50.000 0.00 0.00 0.00 4.37
3710 3745 2.554564 CCCCCAACTACTGTCTTTTCCC 60.555 54.545 0.00 0.00 0.00 3.97
3793 3851 2.445427 TGAGCAATGTAACCATGTGGG 58.555 47.619 3.77 0.00 44.81 4.61
3880 3938 2.300437 ACCAGCTAACCAGTTCAGTCTC 59.700 50.000 0.00 0.00 0.00 3.36
3881 3939 2.330216 ACCAGCTAACCAGTTCAGTCT 58.670 47.619 0.00 0.00 0.00 3.24
3883 3941 3.619979 GCATACCAGCTAACCAGTTCAGT 60.620 47.826 0.00 0.00 0.00 3.41
3884 3942 2.939103 GCATACCAGCTAACCAGTTCAG 59.061 50.000 0.00 0.00 0.00 3.02
3885 3943 2.571653 AGCATACCAGCTAACCAGTTCA 59.428 45.455 0.00 0.00 44.50 3.18
3886 3944 3.268023 AGCATACCAGCTAACCAGTTC 57.732 47.619 0.00 0.00 44.50 3.01
4155 4283 1.576421 GCACGTGCTTCCTTGAAGG 59.424 57.895 32.55 4.45 39.76 3.46
4169 4297 1.193203 GCATGTCCAGATTATCGCACG 59.807 52.381 0.00 0.00 0.00 5.34
4291 4419 1.293924 GCATATGAACGTGCAGAGCT 58.706 50.000 6.97 0.00 40.94 4.09
4362 4490 6.127140 ACCTACCTGTGTTATACCATGAACTC 60.127 42.308 0.00 0.00 0.00 3.01
4688 4819 8.918202 ATCAAAGGACACAAAGTAATCACTAA 57.082 30.769 0.00 0.00 33.48 2.24
4749 4880 5.877012 GCAATCATGACAAGACTAGGAGAAA 59.123 40.000 0.00 0.00 0.00 2.52
4801 4932 6.670027 AGTAAACAGATGTCTCCTATTGTCCT 59.330 38.462 0.00 0.00 0.00 3.85
4810 4941 9.399403 GAAAAATTGAAGTAAACAGATGTCTCC 57.601 33.333 0.00 0.00 0.00 3.71
4831 4962 5.242171 TGCAGAAGATGATCAAGCTGAAAAA 59.758 36.000 16.69 2.34 0.00 1.94
4838 4969 4.066490 AGCTATGCAGAAGATGATCAAGC 58.934 43.478 0.00 0.00 0.00 4.01
4990 5122 9.529325 CTATTTGATCGTATTAAGGTCACTGAA 57.471 33.333 0.00 0.00 0.00 3.02
5054 5186 3.819564 TGGTACGAAGCTATGCAGAAT 57.180 42.857 0.00 0.00 0.00 2.40
5079 5211 1.100510 TGAGGATGCAATGCAGAAGC 58.899 50.000 14.98 4.11 43.65 3.86
5080 5212 3.215151 AGATGAGGATGCAATGCAGAAG 58.785 45.455 14.98 0.00 43.65 2.85
5483 5620 9.639563 TTACACCATCACATTGATATTACCATT 57.360 29.630 0.00 0.00 34.28 3.16
5547 5684 4.618489 GCATCCAAGAAAAAGAATGTGTCG 59.382 41.667 0.00 0.00 0.00 4.35
5603 5760 1.002134 ACCATCCTCCCGTTGCTTG 60.002 57.895 0.00 0.00 0.00 4.01
5610 5767 3.560636 AAGATTTACACCATCCTCCCG 57.439 47.619 0.00 0.00 0.00 5.14
5612 5769 6.650120 TGACTAAAGATTTACACCATCCTCC 58.350 40.000 0.00 0.00 0.00 4.30
5633 5790 8.175069 TGCGTCAGAAACATTTATAGATTTGAC 58.825 33.333 0.00 0.00 0.00 3.18
5688 6170 7.774134 TCCACCATGTCATTTTATCATTCAAG 58.226 34.615 0.00 0.00 0.00 3.02
6081 6576 6.127897 ACAAGCTATCATCAAAAGTAACTGCC 60.128 38.462 0.00 0.00 0.00 4.85
6084 6579 8.850156 ACAAACAAGCTATCATCAAAAGTAACT 58.150 29.630 0.00 0.00 0.00 2.24
6272 6767 5.528600 TCCCTATTGAATTGAAACCTGGA 57.471 39.130 0.00 0.00 0.00 3.86
6379 6874 2.092323 GGGGTTACTGTTCCTTGCATC 58.908 52.381 0.00 0.00 0.00 3.91
6431 6926 0.685097 TCAAAGGGAAGGGTGAGACG 59.315 55.000 0.00 0.00 0.00 4.18
6517 7013 6.488344 TGAGATGCATGGTTAAAAGTACACAA 59.512 34.615 2.46 0.00 0.00 3.33
6518 7014 6.000840 TGAGATGCATGGTTAAAAGTACACA 58.999 36.000 2.46 0.00 0.00 3.72
6580 7077 6.809196 GGTATATAGAGGAGCGTCAAGATTTG 59.191 42.308 0.00 0.00 0.00 2.32
6584 7081 5.004448 CAGGTATATAGAGGAGCGTCAAGA 58.996 45.833 0.00 0.00 0.00 3.02
6587 7084 3.329814 TCCAGGTATATAGAGGAGCGTCA 59.670 47.826 0.00 0.00 0.00 4.35
6588 7085 3.952931 TCCAGGTATATAGAGGAGCGTC 58.047 50.000 0.00 0.00 0.00 5.19
6589 7086 4.080687 GTTCCAGGTATATAGAGGAGCGT 58.919 47.826 0.00 0.00 0.00 5.07
6590 7087 3.444388 GGTTCCAGGTATATAGAGGAGCG 59.556 52.174 0.00 0.00 31.29 5.03
6591 7088 4.417437 TGGTTCCAGGTATATAGAGGAGC 58.583 47.826 0.00 0.00 0.00 4.70
6592 7089 5.659079 GGATGGTTCCAGGTATATAGAGGAG 59.341 48.000 0.00 0.00 42.12 3.69
6593 7090 5.590818 GGATGGTTCCAGGTATATAGAGGA 58.409 45.833 0.00 0.00 42.12 3.71
6594 7091 5.941555 GGATGGTTCCAGGTATATAGAGG 57.058 47.826 0.00 0.00 42.12 3.69
6699 7196 6.367422 CAGAAAGAGTGCAAGTACTTCTTAGG 59.633 42.308 4.77 0.00 34.66 2.69
6700 7197 7.148641 TCAGAAAGAGTGCAAGTACTTCTTAG 58.851 38.462 4.77 0.00 34.66 2.18
6737 7234 4.461081 AGAAGCTTGCCTCTACCTATATCG 59.539 45.833 2.10 0.00 0.00 2.92
6787 7284 5.335113 CCACACATAACATTCCAAGTGTCTG 60.335 44.000 0.00 0.00 38.05 3.51
6811 7309 3.569250 AACCATGTATCACGGCAAAAC 57.431 42.857 0.00 0.00 0.00 2.43
6828 7326 4.037565 AGGCAGTGTAGCTTTACAAAAACC 59.962 41.667 0.00 0.00 34.17 3.27
6861 7359 4.924305 TCAAGCTGGATATTGATTTGGC 57.076 40.909 0.00 0.00 30.67 4.52
6867 7365 4.201940 CGCAACATTCAAGCTGGATATTGA 60.202 41.667 11.75 0.00 33.73 2.57
6882 7380 1.931709 GCTGTGATGCAACGCAACATT 60.932 47.619 11.56 0.00 42.72 2.71
6883 7381 0.387622 GCTGTGATGCAACGCAACAT 60.388 50.000 11.56 0.00 42.72 2.71
6884 7382 1.008652 GCTGTGATGCAACGCAACA 60.009 52.632 11.56 0.00 43.62 3.33
6885 7383 1.730547 GGCTGTGATGCAACGCAAC 60.731 57.895 11.56 7.01 43.62 4.17
6909 7412 7.175641 CGGAAGAAAAGGCATTCAATATCCTAT 59.824 37.037 5.94 0.00 0.00 2.57
6910 7413 6.486657 CGGAAGAAAAGGCATTCAATATCCTA 59.513 38.462 5.94 0.00 0.00 2.94
6993 7517 0.392461 TGTCACCATAAGAAGCGGCC 60.392 55.000 0.00 0.00 0.00 6.13
7004 7528 2.457598 ACGTCCTGAGTATGTCACCAT 58.542 47.619 0.00 0.00 34.97 3.55
7013 7537 9.624373 AGTAAAATCTCTAATACGTCCTGAGTA 57.376 33.333 0.00 0.00 0.00 2.59
7027 7551 7.511371 TCCATCCCCGATAAAGTAAAATCTCTA 59.489 37.037 0.00 0.00 0.00 2.43
7032 7556 6.906848 TCTTCCATCCCCGATAAAGTAAAAT 58.093 36.000 0.00 0.00 0.00 1.82
7083 7610 8.691797 GGTAAAAATGCTTTGGTATCCATCTTA 58.308 33.333 0.00 0.00 31.53 2.10
7163 7691 3.787001 CAGAGGCCGGGGGTCTTC 61.787 72.222 2.18 0.00 38.01 2.87
7169 7697 4.559063 CAGATGCAGAGGCCGGGG 62.559 72.222 2.18 0.00 40.13 5.73
7170 7698 4.559063 CCAGATGCAGAGGCCGGG 62.559 72.222 2.18 0.00 40.13 5.73
7171 7699 3.473647 TCCAGATGCAGAGGCCGG 61.474 66.667 0.00 0.00 40.13 6.13
7172 7700 2.202987 GTCCAGATGCAGAGGCCG 60.203 66.667 0.00 0.00 40.13 6.13
7173 7701 2.037620 ATCGTCCAGATGCAGAGGCC 62.038 60.000 0.00 0.00 38.36 5.19
7174 7702 1.445095 ATCGTCCAGATGCAGAGGC 59.555 57.895 0.00 0.00 38.36 4.70
7182 7710 1.164662 GCTGCATGCATCGTCCAGAT 61.165 55.000 22.97 0.00 42.31 2.90
7183 7711 1.816679 GCTGCATGCATCGTCCAGA 60.817 57.895 22.97 0.00 42.31 3.86
7184 7712 2.713770 GCTGCATGCATCGTCCAG 59.286 61.111 22.97 8.76 42.31 3.86
7185 7713 2.825387 GGCTGCATGCATCGTCCA 60.825 61.111 22.97 0.00 45.15 4.02
7186 7714 1.731433 AATGGCTGCATGCATCGTCC 61.731 55.000 22.97 19.03 45.15 4.79
7187 7715 0.101759 AAATGGCTGCATGCATCGTC 59.898 50.000 22.97 13.00 45.15 4.20
7188 7716 0.533491 AAAATGGCTGCATGCATCGT 59.467 45.000 22.97 14.84 45.15 3.73
7189 7717 2.495409 TAAAATGGCTGCATGCATCG 57.505 45.000 22.97 12.00 45.15 3.84
7190 7718 7.041644 ACAATTAATAAAATGGCTGCATGCATC 60.042 33.333 22.97 17.75 45.15 3.91
7191 7719 6.768861 ACAATTAATAAAATGGCTGCATGCAT 59.231 30.769 22.97 6.91 45.15 3.96
7192 7720 6.114089 ACAATTAATAAAATGGCTGCATGCA 58.886 32.000 21.29 21.29 45.15 3.96
7193 7721 6.607735 ACAATTAATAAAATGGCTGCATGC 57.392 33.333 11.82 11.82 41.94 4.06
7194 7722 8.117988 GTGAACAATTAATAAAATGGCTGCATG 58.882 33.333 0.50 0.00 0.00 4.06
7195 7723 7.823310 TGTGAACAATTAATAAAATGGCTGCAT 59.177 29.630 0.50 0.00 0.00 3.96
7196 7724 7.117523 GTGTGAACAATTAATAAAATGGCTGCA 59.882 33.333 0.50 0.00 0.00 4.41
7197 7725 7.117523 TGTGTGAACAATTAATAAAATGGCTGC 59.882 33.333 0.00 0.00 0.00 5.25
7198 7726 8.531622 TGTGTGAACAATTAATAAAATGGCTG 57.468 30.769 0.00 0.00 0.00 4.85
7199 7727 9.206870 CTTGTGTGAACAATTAATAAAATGGCT 57.793 29.630 0.00 0.00 0.00 4.75
7200 7728 9.202273 TCTTGTGTGAACAATTAATAAAATGGC 57.798 29.630 0.00 0.00 0.00 4.40
7211 7739 9.131791 ACTTTATAAGGTCTTGTGTGAACAATT 57.868 29.630 0.00 0.00 0.00 2.32
7212 7740 8.691661 ACTTTATAAGGTCTTGTGTGAACAAT 57.308 30.769 0.00 0.00 0.00 2.71
7213 7741 9.616156 TTACTTTATAAGGTCTTGTGTGAACAA 57.384 29.630 3.13 0.00 0.00 2.83
7214 7742 9.787435 ATTACTTTATAAGGTCTTGTGTGAACA 57.213 29.630 3.13 0.00 0.00 3.18
7239 7767 9.569122 ACCACGGCTTTAATCTTATTGTTATAT 57.431 29.630 0.00 0.00 0.00 0.86
7240 7768 8.967664 ACCACGGCTTTAATCTTATTGTTATA 57.032 30.769 0.00 0.00 0.00 0.98
7241 7769 7.773690 AGACCACGGCTTTAATCTTATTGTTAT 59.226 33.333 0.00 0.00 0.00 1.89
7242 7770 7.107542 AGACCACGGCTTTAATCTTATTGTTA 58.892 34.615 0.00 0.00 0.00 2.41
7243 7771 5.944007 AGACCACGGCTTTAATCTTATTGTT 59.056 36.000 0.00 0.00 0.00 2.83
7244 7772 5.497474 AGACCACGGCTTTAATCTTATTGT 58.503 37.500 0.00 0.00 0.00 2.71
7245 7773 6.202954 CCTAGACCACGGCTTTAATCTTATTG 59.797 42.308 0.00 0.00 0.00 1.90
7246 7774 6.289064 CCTAGACCACGGCTTTAATCTTATT 58.711 40.000 0.00 0.00 0.00 1.40
7247 7775 5.742255 GCCTAGACCACGGCTTTAATCTTAT 60.742 44.000 0.00 0.00 42.98 1.73
7248 7776 4.442472 GCCTAGACCACGGCTTTAATCTTA 60.442 45.833 0.00 0.00 42.98 2.10
7249 7777 3.681874 GCCTAGACCACGGCTTTAATCTT 60.682 47.826 0.00 0.00 42.98 2.40
7250 7778 2.158943 GCCTAGACCACGGCTTTAATCT 60.159 50.000 0.00 0.00 42.98 2.40
7251 7779 2.210961 GCCTAGACCACGGCTTTAATC 58.789 52.381 0.00 0.00 42.98 1.75
7252 7780 1.557832 TGCCTAGACCACGGCTTTAAT 59.442 47.619 0.00 0.00 46.42 1.40
7253 7781 0.978151 TGCCTAGACCACGGCTTTAA 59.022 50.000 0.00 0.00 46.42 1.52
7254 7782 0.978151 TTGCCTAGACCACGGCTTTA 59.022 50.000 0.00 0.00 46.42 1.85
7255 7783 0.328258 ATTGCCTAGACCACGGCTTT 59.672 50.000 0.00 0.00 46.42 3.51
7256 7784 1.200519 TATTGCCTAGACCACGGCTT 58.799 50.000 0.00 0.00 46.42 4.35
7257 7785 1.424638 ATATTGCCTAGACCACGGCT 58.575 50.000 0.00 0.00 46.42 5.52
7258 7786 2.256117 AATATTGCCTAGACCACGGC 57.744 50.000 0.00 0.00 46.46 5.68
7259 7787 4.625742 CGATAAATATTGCCTAGACCACGG 59.374 45.833 0.00 0.00 0.00 4.94
7260 7788 4.091509 GCGATAAATATTGCCTAGACCACG 59.908 45.833 1.79 0.00 37.16 4.94
7261 7789 5.238583 AGCGATAAATATTGCCTAGACCAC 58.761 41.667 8.68 0.00 42.77 4.16
7262 7790 5.483685 AGCGATAAATATTGCCTAGACCA 57.516 39.130 8.68 0.00 42.77 4.02
7263 7791 6.631962 AGTAGCGATAAATATTGCCTAGACC 58.368 40.000 8.68 0.00 42.77 3.85
7264 7792 6.752815 GGAGTAGCGATAAATATTGCCTAGAC 59.247 42.308 8.68 3.76 42.77 2.59
7265 7793 6.663953 AGGAGTAGCGATAAATATTGCCTAGA 59.336 38.462 8.68 0.00 42.77 2.43
7266 7794 6.868622 AGGAGTAGCGATAAATATTGCCTAG 58.131 40.000 8.68 0.00 42.77 3.02
7267 7795 6.852420 AGGAGTAGCGATAAATATTGCCTA 57.148 37.500 8.68 0.31 42.77 3.93
7268 7796 5.746990 AGGAGTAGCGATAAATATTGCCT 57.253 39.130 8.68 1.20 42.77 4.75
7269 7797 7.764443 TGAATAGGAGTAGCGATAAATATTGCC 59.236 37.037 8.68 0.00 42.77 4.52
7270 7798 8.703604 TGAATAGGAGTAGCGATAAATATTGC 57.296 34.615 4.74 4.74 42.23 3.56
7279 7807 9.429359 CTTCATTAATTGAATAGGAGTAGCGAT 57.571 33.333 0.00 0.00 43.30 4.58
7280 7808 7.872993 CCTTCATTAATTGAATAGGAGTAGCGA 59.127 37.037 0.00 0.00 43.30 4.93
7281 7809 7.118390 CCCTTCATTAATTGAATAGGAGTAGCG 59.882 40.741 0.00 0.00 43.30 4.26
7282 7810 8.157476 TCCCTTCATTAATTGAATAGGAGTAGC 58.843 37.037 11.38 0.00 43.30 3.58
7285 7813 7.449704 GCATCCCTTCATTAATTGAATAGGAGT 59.550 37.037 16.02 8.63 44.03 3.85
7286 7814 7.668886 AGCATCCCTTCATTAATTGAATAGGAG 59.331 37.037 16.02 12.22 44.03 3.69
7287 7815 7.449395 CAGCATCCCTTCATTAATTGAATAGGA 59.551 37.037 14.64 14.64 44.49 2.94
7288 7816 7.449395 TCAGCATCCCTTCATTAATTGAATAGG 59.551 37.037 0.00 0.00 43.30 2.57
7289 7817 8.400184 TCAGCATCCCTTCATTAATTGAATAG 57.600 34.615 0.00 0.00 43.30 1.73
7290 7818 8.945195 ATCAGCATCCCTTCATTAATTGAATA 57.055 30.769 0.00 0.00 43.30 1.75
7291 7819 7.850935 ATCAGCATCCCTTCATTAATTGAAT 57.149 32.000 0.00 0.00 43.30 2.57
7292 7820 8.000709 ACTATCAGCATCCCTTCATTAATTGAA 58.999 33.333 0.00 0.00 42.09 2.69
7293 7821 7.520798 ACTATCAGCATCCCTTCATTAATTGA 58.479 34.615 0.00 0.00 0.00 2.57
7294 7822 7.664731 AGACTATCAGCATCCCTTCATTAATTG 59.335 37.037 0.00 0.00 0.00 2.32
7295 7823 7.664731 CAGACTATCAGCATCCCTTCATTAATT 59.335 37.037 0.00 0.00 0.00 1.40
7296 7824 7.016957 TCAGACTATCAGCATCCCTTCATTAAT 59.983 37.037 0.00 0.00 0.00 1.40
7297 7825 6.327365 TCAGACTATCAGCATCCCTTCATTAA 59.673 38.462 0.00 0.00 0.00 1.40
7298 7826 5.840693 TCAGACTATCAGCATCCCTTCATTA 59.159 40.000 0.00 0.00 0.00 1.90
7299 7827 4.657504 TCAGACTATCAGCATCCCTTCATT 59.342 41.667 0.00 0.00 0.00 2.57
7300 7828 4.229639 TCAGACTATCAGCATCCCTTCAT 58.770 43.478 0.00 0.00 0.00 2.57
7301 7829 3.640498 CTCAGACTATCAGCATCCCTTCA 59.360 47.826 0.00 0.00 0.00 3.02
7302 7830 3.554752 GCTCAGACTATCAGCATCCCTTC 60.555 52.174 0.00 0.00 33.06 3.46
7303 7831 2.368221 GCTCAGACTATCAGCATCCCTT 59.632 50.000 0.00 0.00 33.06 3.95
7304 7832 1.969923 GCTCAGACTATCAGCATCCCT 59.030 52.381 0.00 0.00 33.06 4.20
7305 7833 1.001860 GGCTCAGACTATCAGCATCCC 59.998 57.143 3.39 0.00 34.62 3.85
7306 7834 1.969923 AGGCTCAGACTATCAGCATCC 59.030 52.381 0.00 0.00 34.62 3.51


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

AutoCloner maintained by Alex Coulton.