Multiple sequence alignment - TraesCS1B01G277400

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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 TraesCS1B01G277400 chr1B 100.000 6249 0 0 1 6249 485282480 485288728 0.000000e+00 11540.0
1 TraesCS1B01G277400 chr1D 93.191 5463 234 61 157 5572 362483017 362488388 0.000000e+00 7901.0
2 TraesCS1B01G277400 chr1D 95.064 628 16 4 5630 6249 362488388 362489008 0.000000e+00 974.0
3 TraesCS1B01G277400 chr1D 89.677 155 14 1 313 467 362331330 362331482 4.940000e-46 196.0
4 TraesCS1B01G277400 chr1D 92.537 67 5 0 1 67 362482619 362482685 5.160000e-16 97.1
5 TraesCS1B01G277400 chr1A 91.229 4230 210 70 886 5070 461995983 462000096 0.000000e+00 5607.0
6 TraesCS1B01G277400 chr1A 93.957 513 15 5 5071 5568 462000042 462000553 0.000000e+00 761.0
7 TraesCS1B01G277400 chr1A 87.874 635 33 17 5630 6249 462000553 462001158 0.000000e+00 706.0
8 TraesCS1B01G277400 chr1A 90.154 518 31 11 91 600 461995069 461995574 0.000000e+00 656.0
9 TraesCS1B01G277400 chr1A 85.714 476 33 9 1 473 461884188 461884631 2.640000e-128 470.0
10 TraesCS1B01G277400 chr1A 96.226 106 4 0 672 777 461995612 461995717 2.320000e-39 174.0
11 TraesCS1B01G277400 chr1A 92.105 38 3 0 3798 3835 36618997 36618960 3.000000e-03 54.7
12 TraesCS1B01G277400 chr3A 77.157 788 159 16 1073 1842 653509712 653510496 7.440000e-119 438.0
13 TraesCS1B01G277400 chr3D 77.118 791 154 22 1073 1842 517882310 517883094 3.460000e-117 433.0
14 TraesCS1B01G277400 chr2A 80.874 183 29 6 3402 3583 690309431 690309608 8.450000e-29 139.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS1B01G277400 chr1B 485282480 485288728 6248 False 11540.0 11540 100.000000 1 6249 1 chr1B.!!$F1 6248
1 TraesCS1B01G277400 chr1D 362482619 362489008 6389 False 2990.7 7901 93.597333 1 6249 3 chr1D.!!$F2 6248
2 TraesCS1B01G277400 chr1A 461995069 462001158 6089 False 1580.8 5607 91.888000 91 6249 5 chr1A.!!$F2 6158
3 TraesCS1B01G277400 chr3A 653509712 653510496 784 False 438.0 438 77.157000 1073 1842 1 chr3A.!!$F1 769
4 TraesCS1B01G277400 chr3D 517882310 517883094 784 False 433.0 433 77.118000 1073 1842 1 chr3D.!!$F1 769

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
316 564 0.109412 GATGTTTGCTGCTGTCTGCC 60.109 55.0 0.0 0.0 42.00 4.85 F
603 864 0.734942 CCGTAACCCGTACACAGCAG 60.735 60.0 0.0 0.0 32.45 4.24 F
2131 2592 0.110486 CTGGGTGTTTGGCTACCTGT 59.890 55.0 0.0 0.0 37.15 4.00 F
2771 3236 0.833287 CAGTCGTGATCCATCCCCTT 59.167 55.0 0.0 0.0 0.00 3.95 F
3255 3728 2.607631 TTGACCGAAGTCCGAGTTTT 57.392 45.0 0.0 0.0 42.81 2.43 F
4541 5023 0.107643 TTGGTGATGTTGTGGCGAGA 59.892 50.0 0.0 0.0 0.00 4.04 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1722 2162 0.107312 CCATCTTGTCCAGCCTCAGG 60.107 60.000 0.00 0.0 0.00 3.86 R
2280 2742 4.310357 TGTGTTGTTCTCGCTGTACTTA 57.690 40.909 0.00 0.0 0.00 2.24 R
3399 3872 1.948508 TGTGCGGAAGAACACATGC 59.051 52.632 0.00 0.0 43.82 4.06 R
4496 4978 1.070134 TCCCCAAGTTCACTCTTGTCG 59.930 52.381 5.86 0.0 42.01 4.35 R
4841 5328 1.171308 CAGATGCAGTGGGTGGAAAG 58.829 55.000 0.00 0.0 0.00 2.62 R
5583 6085 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.0 0.00 3.72 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
27 28 3.304659 CCACAGAAAATTCACCGGTCAAG 60.305 47.826 2.59 0.00 0.00 3.02
60 61 4.299155 ACATCGATTGACCAACTATAGCG 58.701 43.478 0.00 0.00 0.00 4.26
61 62 4.037565 ACATCGATTGACCAACTATAGCGA 59.962 41.667 0.00 0.00 0.00 4.93
67 68 2.946990 TGACCAACTATAGCGACATCGA 59.053 45.455 5.26 0.00 43.02 3.59
68 69 3.003378 TGACCAACTATAGCGACATCGAG 59.997 47.826 5.26 0.00 43.02 4.04
69 70 3.211865 ACCAACTATAGCGACATCGAGA 58.788 45.455 5.26 0.00 43.02 4.04
70 71 3.251245 ACCAACTATAGCGACATCGAGAG 59.749 47.826 5.26 0.00 43.02 3.20
71 72 3.251245 CCAACTATAGCGACATCGAGAGT 59.749 47.826 5.26 0.00 43.02 3.24
72 73 4.451435 CCAACTATAGCGACATCGAGAGTA 59.549 45.833 5.26 0.00 43.02 2.59
73 74 5.390040 CCAACTATAGCGACATCGAGAGTAG 60.390 48.000 5.26 4.12 43.02 2.57
74 75 3.680937 ACTATAGCGACATCGAGAGTAGC 59.319 47.826 14.98 14.98 43.02 3.58
75 76 1.949465 TAGCGACATCGAGAGTAGCA 58.051 50.000 21.56 9.76 43.02 3.49
76 77 0.378962 AGCGACATCGAGAGTAGCAC 59.621 55.000 21.56 2.64 43.02 4.40
77 78 0.378962 GCGACATCGAGAGTAGCACT 59.621 55.000 16.97 0.00 43.02 4.40
78 79 1.598132 GCGACATCGAGAGTAGCACTA 59.402 52.381 16.97 0.00 43.02 2.74
79 80 2.031807 GCGACATCGAGAGTAGCACTAA 59.968 50.000 16.97 0.00 43.02 2.24
80 81 3.304123 GCGACATCGAGAGTAGCACTAAT 60.304 47.826 16.97 0.00 43.02 1.73
81 82 4.083961 GCGACATCGAGAGTAGCACTAATA 60.084 45.833 16.97 0.00 43.02 0.98
82 83 5.375717 CGACATCGAGAGTAGCACTAATAC 58.624 45.833 0.00 0.00 43.02 1.89
83 84 5.345609 ACATCGAGAGTAGCACTAATACG 57.654 43.478 0.00 0.00 0.00 3.06
84 85 4.815308 ACATCGAGAGTAGCACTAATACGT 59.185 41.667 0.00 0.00 0.00 3.57
85 86 4.790810 TCGAGAGTAGCACTAATACGTG 57.209 45.455 0.00 0.00 37.94 4.49
86 87 3.558829 TCGAGAGTAGCACTAATACGTGG 59.441 47.826 0.00 0.00 35.47 4.94
87 88 3.311871 CGAGAGTAGCACTAATACGTGGT 59.688 47.826 0.00 0.00 46.27 4.16
88 89 4.201891 CGAGAGTAGCACTAATACGTGGTT 60.202 45.833 0.00 0.00 42.42 3.67
89 90 5.007039 CGAGAGTAGCACTAATACGTGGTTA 59.993 44.000 0.00 0.00 42.42 2.85
90 91 6.129053 AGAGTAGCACTAATACGTGGTTAC 57.871 41.667 0.00 0.00 42.42 2.50
91 92 5.649395 AGAGTAGCACTAATACGTGGTTACA 59.351 40.000 0.00 0.00 42.42 2.41
92 93 5.644644 AGTAGCACTAATACGTGGTTACAC 58.355 41.667 0.00 0.00 42.42 2.90
93 94 4.796038 AGCACTAATACGTGGTTACACT 57.204 40.909 0.00 0.00 45.50 3.55
94 95 4.741342 AGCACTAATACGTGGTTACACTC 58.259 43.478 0.00 0.00 45.50 3.51
95 96 3.545078 GCACTAATACGTGGTTACACTCG 59.455 47.826 0.00 0.00 45.50 4.18
96 97 4.100529 CACTAATACGTGGTTACACTCGG 58.899 47.826 0.00 0.00 45.50 4.63
97 98 3.758554 ACTAATACGTGGTTACACTCGGT 59.241 43.478 0.00 0.00 45.50 4.69
133 134 1.299850 TTGTGTGGCGTCTCGACTG 60.300 57.895 0.00 0.00 35.04 3.51
137 139 0.669619 TGTGGCGTCTCGACTGTAAA 59.330 50.000 0.00 0.00 35.04 2.01
140 142 1.338973 TGGCGTCTCGACTGTAAAACT 59.661 47.619 0.00 0.00 35.04 2.66
298 546 1.895798 AGCGAGGAAACACATCTCAGA 59.104 47.619 0.00 0.00 0.00 3.27
313 561 2.038164 TCTCAGATGTTTGCTGCTGTCT 59.962 45.455 0.00 0.00 33.45 3.41
314 562 2.148768 TCAGATGTTTGCTGCTGTCTG 58.851 47.619 0.00 7.45 35.58 3.51
315 563 0.879765 AGATGTTTGCTGCTGTCTGC 59.120 50.000 0.00 0.00 43.25 4.26
316 564 0.109412 GATGTTTGCTGCTGTCTGCC 60.109 55.000 0.00 0.00 42.00 4.85
345 593 7.251321 AGAATCCTTTGAAGTATCACAGTCT 57.749 36.000 0.00 0.00 34.61 3.24
371 620 9.488762 TGGTAGTCTCCATTCTCTTTTCTTATA 57.511 33.333 0.00 0.00 31.96 0.98
385 634 6.321435 TCTTTTCTTATATGCCTCTCTCGTCA 59.679 38.462 0.00 0.00 0.00 4.35
386 635 5.440234 TTCTTATATGCCTCTCTCGTCAC 57.560 43.478 0.00 0.00 0.00 3.67
388 637 4.757657 TCTTATATGCCTCTCTCGTCACTC 59.242 45.833 0.00 0.00 0.00 3.51
416 665 0.828022 TCCGTACCTGCCGATCAAAT 59.172 50.000 0.00 0.00 0.00 2.32
446 701 8.900983 AGATAGAGCAGAAAAATAGAATGGAC 57.099 34.615 0.00 0.00 0.00 4.02
600 861 1.216178 CCCCGTAACCCGTACACAG 59.784 63.158 0.00 0.00 32.45 3.66
603 864 0.734942 CCGTAACCCGTACACAGCAG 60.735 60.000 0.00 0.00 32.45 4.24
604 865 1.349259 CGTAACCCGTACACAGCAGC 61.349 60.000 0.00 0.00 32.45 5.25
670 932 4.148825 CTCCACTTCGCTCCCGGG 62.149 72.222 16.85 16.85 34.56 5.73
672 934 4.452733 CCACTTCGCTCCCGGGTC 62.453 72.222 22.86 12.95 34.56 4.46
673 935 4.452733 CACTTCGCTCCCGGGTCC 62.453 72.222 22.86 11.82 34.56 4.46
849 1111 3.112709 GAGTCAACTCGCGCCACC 61.113 66.667 0.00 0.00 32.78 4.61
1494 1931 2.250485 CGTGTCGTCTTCGTCGGT 59.750 61.111 0.00 0.00 38.33 4.69
1497 1934 0.995731 GTGTCGTCTTCGTCGGTGAC 60.996 60.000 7.98 7.98 38.33 3.67
1617 2054 3.625099 ACCATACGGTTCCTCGGG 58.375 61.111 0.00 0.00 46.31 5.14
1621 2058 2.728435 ATACGGTTCCTCGGGGTGC 61.728 63.158 0.00 0.00 0.00 5.01
1626 2063 4.011517 TTCCTCGGGGTGCGGTTC 62.012 66.667 0.00 0.00 0.00 3.62
2073 2534 1.690352 CCAAGGATCCATTTGCCATCC 59.310 52.381 15.82 0.00 37.01 3.51
2131 2592 0.110486 CTGGGTGTTTGGCTACCTGT 59.890 55.000 0.00 0.00 37.15 4.00
2206 2667 9.947669 CATATGAGATGAAATTTGAGAGGAAAC 57.052 33.333 0.00 0.00 0.00 2.78
2310 2772 1.400494 GAGAACAACACAACAACCGCT 59.600 47.619 0.00 0.00 0.00 5.52
2406 2869 6.040247 TGACAATGTCACGGTTATACTCATC 58.960 40.000 12.63 0.00 37.67 2.92
2431 2894 4.322080 TGTTCTAACAGTGAGACACCAG 57.678 45.455 0.00 0.00 34.49 4.00
2608 3073 4.162320 TGCTAATAAGTCAGAGGGGAACAG 59.838 45.833 0.00 0.00 0.00 3.16
2656 3121 9.916360 ATTAAGAAATAGTAAGACGGGGAAAAT 57.084 29.630 0.00 0.00 0.00 1.82
2684 3149 2.574006 TAGCCATCCCTTCATGCATC 57.426 50.000 0.00 0.00 0.00 3.91
2692 3157 3.284617 TCCCTTCATGCATCTCACATTG 58.715 45.455 0.00 0.00 0.00 2.82
2711 3176 1.839994 TGCCCTTCCCAGTTGATCTAG 59.160 52.381 0.00 0.00 0.00 2.43
2737 3202 7.311092 TCATAAAGTTCCTCTCACAAACCTA 57.689 36.000 0.00 0.00 0.00 3.08
2741 3206 3.391296 AGTTCCTCTCACAAACCTAAGCA 59.609 43.478 0.00 0.00 0.00 3.91
2771 3236 0.833287 CAGTCGTGATCCATCCCCTT 59.167 55.000 0.00 0.00 0.00 3.95
2798 3263 6.041523 CCCTTCTTCAGTTTCCCAACATTTTA 59.958 38.462 0.00 0.00 35.05 1.52
2808 3273 8.154203 AGTTTCCCAACATTTTAACCTTATTGG 58.846 33.333 0.00 0.00 37.31 3.16
2842 3311 2.751259 TCTTTTATGCCAAGCTGAGCAG 59.249 45.455 15.34 0.00 43.38 4.24
2887 3358 3.445008 CCCTAGCCTATTCCTGCTCATA 58.555 50.000 0.00 0.00 39.00 2.15
3001 3472 4.216042 TGTTTGCTGGATGTTATGTGTCTG 59.784 41.667 0.00 0.00 0.00 3.51
3045 3516 8.741603 TTTTTCAAGTTAGTGGTTAGCTAGTT 57.258 30.769 0.00 0.00 0.00 2.24
3061 3532 4.409247 AGCTAGTTTCTGGTAATAGTGGGG 59.591 45.833 0.00 0.00 0.00 4.96
3092 3563 7.322664 ACATAGTTTTTGTGATATTTGGCCAG 58.677 34.615 5.11 0.00 0.00 4.85
3133 3604 9.589461 TTACCCAAGTTATTATTTCCTTGTTCA 57.411 29.630 0.00 0.00 33.99 3.18
3134 3605 8.485578 ACCCAAGTTATTATTTCCTTGTTCAA 57.514 30.769 0.00 0.00 33.99 2.69
3244 3717 7.395489 ACTTAAGAGTATCCTAGTTTGACCGAA 59.605 37.037 10.09 0.00 33.32 4.30
3255 3728 2.607631 TTGACCGAAGTCCGAGTTTT 57.392 45.000 0.00 0.00 42.81 2.43
3399 3872 5.840940 AAAGAGTTGATCTAAACCGAACG 57.159 39.130 0.00 0.00 37.23 3.95
3501 3974 6.507890 GCGTACAGCCTACTTTACTTTATC 57.492 41.667 0.00 0.00 40.81 1.75
3637 4111 7.934855 AGGGATACAGATCATTTATGATTGC 57.065 36.000 6.67 0.00 43.15 3.56
3770 4244 6.262496 GGCACCCATCTAAACTAAAATCCTAC 59.738 42.308 0.00 0.00 0.00 3.18
3772 4246 7.012421 GCACCCATCTAAACTAAAATCCTACTG 59.988 40.741 0.00 0.00 0.00 2.74
3773 4247 8.047310 CACCCATCTAAACTAAAATCCTACTGT 58.953 37.037 0.00 0.00 0.00 3.55
3774 4248 9.275572 ACCCATCTAAACTAAAATCCTACTGTA 57.724 33.333 0.00 0.00 0.00 2.74
3826 4300 7.624706 ACGTCTTATATTTTGATACAGAGCG 57.375 36.000 0.00 0.00 0.00 5.03
3827 4301 7.423199 ACGTCTTATATTTTGATACAGAGCGA 58.577 34.615 0.00 0.00 0.00 4.93
4014 4492 7.040478 GGCATATATAGCAACTTGATTTCACCA 60.040 37.037 8.68 0.00 0.00 4.17
4038 4516 5.615925 ATCCCAACTCTGTGTATAAGGAC 57.384 43.478 0.00 0.00 0.00 3.85
4091 4570 6.067217 AGGGAACATGTAAGATTAGCAACT 57.933 37.500 0.00 0.00 0.00 3.16
4092 4571 6.485171 AGGGAACATGTAAGATTAGCAACTT 58.515 36.000 0.00 0.00 0.00 2.66
4274 4755 3.091633 AGGTCCAGGATCAAATTGTGG 57.908 47.619 1.43 0.00 0.00 4.17
4315 4796 3.955471 CCATCTGGTTACACCACTTCAT 58.045 45.455 0.00 0.00 44.79 2.57
4316 4797 4.335416 CCATCTGGTTACACCACTTCATT 58.665 43.478 0.00 0.00 44.79 2.57
4317 4798 4.766891 CCATCTGGTTACACCACTTCATTT 59.233 41.667 0.00 0.00 44.79 2.32
4318 4799 5.335897 CCATCTGGTTACACCACTTCATTTG 60.336 44.000 0.00 0.00 44.79 2.32
4319 4800 5.042463 TCTGGTTACACCACTTCATTTGA 57.958 39.130 0.00 0.00 44.79 2.69
4382 4864 5.308825 TCCTGTTCTCACAATTCTTTCCTC 58.691 41.667 0.00 0.00 30.36 3.71
4426 4908 7.912383 TCTAAGAACTAACAAAAACTTGTCCG 58.088 34.615 0.00 0.00 33.35 4.79
4451 4933 5.004448 TGTTACAGTGACTTGAACCAAACA 58.996 37.500 0.00 0.00 0.00 2.83
4496 4978 0.961753 CACCTGAGGCCAAAGGAAAC 59.038 55.000 26.11 0.00 37.01 2.78
4541 5023 0.107643 TTGGTGATGTTGTGGCGAGA 59.892 50.000 0.00 0.00 0.00 4.04
4767 5249 9.303116 TCTTCATTTCTCTGACTACTAGAAAGT 57.697 33.333 0.00 0.00 41.22 2.66
4805 5292 9.558396 GAGAGAGAGAAAAATCCATATCACAAT 57.442 33.333 0.00 0.00 0.00 2.71
4841 5328 4.015872 TGACAGTGTTCAGTTTATCCCC 57.984 45.455 0.00 0.00 0.00 4.81
4848 5335 4.217767 GTGTTCAGTTTATCCCCTTTCCAC 59.782 45.833 0.00 0.00 0.00 4.02
4902 5389 7.386025 TCCGAGACTTCATATGCAATGAATAAG 59.614 37.037 18.37 12.56 37.40 1.73
4914 5401 5.638657 TGCAATGAATAAGCATTTGTCAACC 59.361 36.000 0.00 0.00 36.39 3.77
4973 5460 8.798859 ATTCACACTTATACTCAAAGCAGATT 57.201 30.769 0.00 0.00 0.00 2.40
4998 5485 7.267128 TGTGTAGAATGTTATAGTTAACCCCG 58.733 38.462 0.88 0.00 37.49 5.73
5043 5530 5.869344 TCAAATGACCAAGTGACTCTTATCG 59.131 40.000 0.00 0.00 34.66 2.92
5050 5537 5.652891 ACCAAGTGACTCTTATCGACTGTAT 59.347 40.000 0.00 0.00 34.66 2.29
5070 5557 6.166279 TGTATCTTTGGTAGTGCTTCAGAAG 58.834 40.000 5.72 5.72 0.00 2.85
5072 5559 5.290493 TCTTTGGTAGTGCTTCAGAAGAA 57.710 39.130 14.86 0.00 0.00 2.52
5087 5574 7.907214 TTCAGAAGAAGTCAAATAACCTAGC 57.093 36.000 0.00 0.00 0.00 3.42
5098 5585 7.068348 AGTCAAATAACCTAGCGACTCTTATCA 59.932 37.037 0.00 0.00 0.00 2.15
5139 5626 6.144563 GTGCTTCAGAAAATTTTACTCCAAGC 59.855 38.462 20.48 20.48 34.43 4.01
5294 5794 4.445735 CCCCATACGTACATTCCCATCTTT 60.446 45.833 0.00 0.00 0.00 2.52
5410 5912 3.433343 ACAAGGTGATGCATTCATTCCA 58.567 40.909 0.00 0.00 36.54 3.53
5422 5924 5.357878 TGCATTCATTCCAAGGTGTAGATTC 59.642 40.000 0.00 0.00 0.00 2.52
5449 5951 2.555199 GGTCCTTCAGATTGTCGATGG 58.445 52.381 0.00 0.00 0.00 3.51
5462 5964 2.672874 TGTCGATGGAAAGAAAGCATCG 59.327 45.455 0.06 0.06 44.25 3.84
5482 5984 5.871465 TCGCATTTTGTGTATGCTTCTTA 57.129 34.783 0.00 0.00 44.78 2.10
5600 6102 5.861222 ATATATGTGTGTGTGTGTGTGTG 57.139 39.130 0.00 0.00 0.00 3.82
5601 6103 1.819928 ATGTGTGTGTGTGTGTGTGT 58.180 45.000 0.00 0.00 0.00 3.72
5602 6104 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
5603 6105 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
5604 6106 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
5605 6107 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
5606 6108 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
5607 6109 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
5608 6110 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
5609 6111 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
5610 6112 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
5611 6113 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
5612 6114 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
5613 6115 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
5614 6116 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
5615 6117 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
5616 6118 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
5617 6119 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
5618 6120 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
5619 6121 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
5620 6122 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
5621 6123 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
5622 6124 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
5623 6125 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
5624 6126 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
5625 6127 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
5626 6128 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
5627 6129 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
5628 6130 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
5766 6278 4.038402 CAGGGATATGATTTGCTCCAAACC 59.962 45.833 0.00 0.00 36.13 3.27
5893 6405 7.913674 AGTTAGGACAAAATTAGAGCTTCAG 57.086 36.000 0.00 0.00 0.00 3.02
6012 6532 6.829229 ACTTATTAGCTAAACCAACCCAAC 57.171 37.500 10.85 0.00 0.00 3.77
6029 6549 0.673437 AACAGAATTGTTGGCCACCG 59.327 50.000 3.88 0.00 45.54 4.94
6087 6614 5.072600 ACAGAGGAGGGTTTGTATTTGTGTA 59.927 40.000 0.00 0.00 0.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 8.543774 CAATCGATGTTTAACTCTATCTTGACC 58.456 37.037 0.00 0.00 0.00 4.02
27 28 8.328864 GTTGGTCAATCGATGTTTAACTCTATC 58.671 37.037 0.00 0.00 0.00 2.08
60 61 5.050227 ACGTATTAGTGCTACTCTCGATGTC 60.050 44.000 0.00 0.00 0.00 3.06
61 62 4.815308 ACGTATTAGTGCTACTCTCGATGT 59.185 41.667 0.00 0.00 0.00 3.06
67 68 5.649395 TGTAACCACGTATTAGTGCTACTCT 59.351 40.000 0.00 0.00 40.59 3.24
68 69 5.741040 GTGTAACCACGTATTAGTGCTACTC 59.259 44.000 0.00 3.45 40.59 2.59
69 70 5.416952 AGTGTAACCACGTATTAGTGCTACT 59.583 40.000 0.00 0.00 46.56 2.57
70 71 5.644644 AGTGTAACCACGTATTAGTGCTAC 58.355 41.667 0.00 0.00 46.56 3.58
71 72 5.447683 CGAGTGTAACCACGTATTAGTGCTA 60.448 44.000 0.00 0.00 46.56 3.49
72 73 4.673580 CGAGTGTAACCACGTATTAGTGCT 60.674 45.833 0.00 0.00 46.56 4.40
73 74 3.545078 CGAGTGTAACCACGTATTAGTGC 59.455 47.826 0.00 0.00 46.56 4.40
74 75 4.100529 CCGAGTGTAACCACGTATTAGTG 58.899 47.826 0.00 0.00 46.56 2.74
75 76 3.758554 ACCGAGTGTAACCACGTATTAGT 59.241 43.478 0.00 0.00 46.56 2.24
76 77 4.346129 GACCGAGTGTAACCACGTATTAG 58.654 47.826 0.00 0.00 46.56 1.73
77 78 3.128589 GGACCGAGTGTAACCACGTATTA 59.871 47.826 0.00 0.00 46.56 0.98
78 79 2.094545 GGACCGAGTGTAACCACGTATT 60.095 50.000 0.00 0.00 46.56 1.89
79 80 1.474077 GGACCGAGTGTAACCACGTAT 59.526 52.381 0.00 0.00 46.56 3.06
80 81 0.881118 GGACCGAGTGTAACCACGTA 59.119 55.000 0.00 0.00 46.56 3.57
81 82 1.662044 GGACCGAGTGTAACCACGT 59.338 57.895 0.00 0.00 46.56 4.49
82 83 1.080298 GGGACCGAGTGTAACCACG 60.080 63.158 0.00 0.00 46.56 4.94
83 84 1.294459 GGGGACCGAGTGTAACCAC 59.706 63.158 0.00 0.00 40.86 4.16
84 85 3.795905 GGGGACCGAGTGTAACCA 58.204 61.111 0.00 0.00 40.86 3.67
111 112 2.022129 CGAGACGCCACACAACCTC 61.022 63.158 0.00 0.00 0.00 3.85
188 435 1.761784 TGGCTGCCTTTTTGTTCACAT 59.238 42.857 21.03 0.00 0.00 3.21
313 561 0.690192 TCAAAGGATTCTCCGTGGCA 59.310 50.000 0.00 0.00 42.75 4.92
314 562 1.740025 CTTCAAAGGATTCTCCGTGGC 59.260 52.381 0.00 0.00 42.75 5.01
315 563 3.059352 ACTTCAAAGGATTCTCCGTGG 57.941 47.619 0.00 0.00 42.75 4.94
316 564 5.292101 GTGATACTTCAAAGGATTCTCCGTG 59.708 44.000 0.00 0.00 36.04 4.94
332 580 4.951094 GGAGACTACCAGACTGTGATACTT 59.049 45.833 0.93 0.00 0.00 2.24
345 593 6.688073 AAGAAAAGAGAATGGAGACTACCA 57.312 37.500 0.00 0.00 44.41 3.25
371 620 1.380403 CCGAGTGACGAGAGAGGCAT 61.380 60.000 0.00 0.00 45.77 4.40
372 621 2.041115 CCGAGTGACGAGAGAGGCA 61.041 63.158 0.00 0.00 45.77 4.75
442 697 2.364002 TGCTCCGATTATCATTCGTCCA 59.636 45.455 0.00 0.00 34.85 4.02
443 698 2.731976 GTGCTCCGATTATCATTCGTCC 59.268 50.000 0.00 0.00 34.85 4.79
446 701 2.754472 TGGTGCTCCGATTATCATTCG 58.246 47.619 0.00 0.00 36.30 3.34
802 1064 2.314415 TATAAACCTCACGGCGGGGC 62.314 60.000 10.28 0.00 0.00 5.80
903 1322 3.533105 AGACCACGCCACGTCACA 61.533 61.111 0.00 0.00 38.32 3.58
904 1323 3.036084 CAGACCACGCCACGTCAC 61.036 66.667 0.00 0.00 38.32 3.67
905 1324 4.293648 CCAGACCACGCCACGTCA 62.294 66.667 0.00 0.00 38.32 4.35
1494 1931 2.265739 GTGCGGCTCATGGAGTCA 59.734 61.111 0.00 0.00 33.34 3.41
1621 2058 2.687436 GTCGAATGACGCGAACCG 59.313 61.111 15.93 8.95 39.73 4.44
1626 2063 1.154016 AGTGAGGTCGAATGACGCG 60.154 57.895 3.53 3.53 46.49 6.01
1722 2162 0.107312 CCATCTTGTCCAGCCTCAGG 60.107 60.000 0.00 0.00 0.00 3.86
1936 2377 9.858247 ATACACACGCATTAAATACGATTTTAG 57.142 29.630 0.00 0.00 0.00 1.85
2073 2534 8.066612 ACTTAACCAAATTCATAATCCACAGG 57.933 34.615 0.00 0.00 0.00 4.00
2139 2600 8.121305 ACATATTTGTTTGCAACTTGATAGGA 57.879 30.769 0.00 0.00 33.82 2.94
2280 2742 4.310357 TGTGTTGTTCTCGCTGTACTTA 57.690 40.909 0.00 0.00 0.00 2.24
2431 2894 9.918630 ATGGCATTGCTAGAATATGAAAATAAC 57.081 29.630 8.82 0.00 0.00 1.89
2608 3073 9.921637 TTAATTGGTTCTTCCATTTACACATTC 57.078 29.630 0.00 0.00 46.60 2.67
2632 3097 9.743581 AAATTTTCCCCGTCTTACTATTTCTTA 57.256 29.630 0.00 0.00 0.00 2.10
2648 3113 5.585820 TGGCTAATCGTAAAATTTTCCCC 57.414 39.130 6.72 0.00 0.00 4.81
2656 3121 5.105567 TGAAGGGATGGCTAATCGTAAAA 57.894 39.130 0.00 0.00 35.99 1.52
2684 3149 0.038744 ACTGGGAAGGGCAATGTGAG 59.961 55.000 0.00 0.00 0.00 3.51
2692 3157 1.475930 GCTAGATCAACTGGGAAGGGC 60.476 57.143 0.00 0.00 0.00 5.19
2711 3176 5.106515 GGTTTGTGAGAGGAACTTTATGAGC 60.107 44.000 0.00 0.00 41.55 4.26
2771 3236 3.460340 TGTTGGGAAACTGAAGAAGGGTA 59.540 43.478 0.00 0.00 0.00 3.69
2798 3263 3.267031 AGCTAGTGAAGGCCAATAAGGTT 59.733 43.478 5.01 0.00 40.61 3.50
2808 3273 4.201960 GGCATAAAAGAAGCTAGTGAAGGC 60.202 45.833 0.00 0.00 0.00 4.35
2862 3331 0.689623 CAGGAATAGGCTAGGGGCAG 59.310 60.000 0.00 0.00 44.01 4.85
2887 3358 2.672996 GTCACGCCCATGCCTGTT 60.673 61.111 0.00 0.00 0.00 3.16
3001 3472 2.667473 AGAAAAGCATGCTGAATGGC 57.333 45.000 23.48 7.99 36.71 4.40
3045 3516 5.727279 TGTAATGTCCCCACTATTACCAGAA 59.273 40.000 0.00 0.00 36.78 3.02
3092 3563 7.974482 ACTTGGGTAATTGTGTACTAGTTTC 57.026 36.000 0.00 0.00 0.00 2.78
3119 3590 8.690884 TGAGTTGATGTTTGAACAAGGAAATAA 58.309 29.630 0.10 0.00 43.03 1.40
3133 3604 7.118390 GTGCTAGTAGTCAATGAGTTGATGTTT 59.882 37.037 0.00 0.00 45.46 2.83
3134 3605 6.591834 GTGCTAGTAGTCAATGAGTTGATGTT 59.408 38.462 0.00 0.00 45.46 2.71
3240 3713 3.858238 GTCAGATAAAACTCGGACTTCGG 59.142 47.826 0.00 0.00 37.38 4.30
3255 3728 5.513094 CCTGTTGGGAAGAACAAGTCAGATA 60.513 44.000 0.00 0.00 35.44 1.98
3399 3872 1.948508 TGTGCGGAAGAACACATGC 59.051 52.632 0.00 0.00 43.82 4.06
3616 4090 8.557592 TCAGGCAATCATAAATGATCTGTATC 57.442 34.615 14.75 0.00 46.22 2.24
3691 4165 5.052481 TGGATGCAGATAAAGATCGTCAAG 58.948 41.667 0.00 0.00 37.15 3.02
3746 4220 7.012421 CAGTAGGATTTTAGTTTAGATGGGTGC 59.988 40.741 0.00 0.00 0.00 5.01
3800 4274 8.540492 CGCTCTGTATCAAAATATAAGACGTTT 58.460 33.333 0.00 0.00 0.00 3.60
3801 4275 7.919091 TCGCTCTGTATCAAAATATAAGACGTT 59.081 33.333 0.00 0.00 0.00 3.99
3803 4277 7.591795 ACTCGCTCTGTATCAAAATATAAGACG 59.408 37.037 0.00 0.00 0.00 4.18
3804 4278 8.804688 ACTCGCTCTGTATCAAAATATAAGAC 57.195 34.615 0.00 0.00 0.00 3.01
3811 4285 9.988815 AATTATCTACTCGCTCTGTATCAAAAT 57.011 29.630 0.00 0.00 0.00 1.82
3812 4286 9.249457 CAATTATCTACTCGCTCTGTATCAAAA 57.751 33.333 0.00 0.00 0.00 2.44
3813 4287 7.382488 GCAATTATCTACTCGCTCTGTATCAAA 59.618 37.037 0.00 0.00 0.00 2.69
3814 4288 6.863645 GCAATTATCTACTCGCTCTGTATCAA 59.136 38.462 0.00 0.00 0.00 2.57
3815 4289 6.016276 TGCAATTATCTACTCGCTCTGTATCA 60.016 38.462 0.00 0.00 0.00 2.15
3816 4290 6.306837 GTGCAATTATCTACTCGCTCTGTATC 59.693 42.308 0.00 0.00 0.00 2.24
3817 4291 6.153067 GTGCAATTATCTACTCGCTCTGTAT 58.847 40.000 0.00 0.00 0.00 2.29
3818 4292 5.507482 GGTGCAATTATCTACTCGCTCTGTA 60.507 44.000 0.00 0.00 0.00 2.74
3819 4293 4.363999 GTGCAATTATCTACTCGCTCTGT 58.636 43.478 0.00 0.00 0.00 3.41
3820 4294 3.738282 GGTGCAATTATCTACTCGCTCTG 59.262 47.826 0.00 0.00 0.00 3.35
3821 4295 3.551046 CGGTGCAATTATCTACTCGCTCT 60.551 47.826 0.00 0.00 0.00 4.09
3822 4296 2.726760 CGGTGCAATTATCTACTCGCTC 59.273 50.000 0.00 0.00 0.00 5.03
3823 4297 2.361119 TCGGTGCAATTATCTACTCGCT 59.639 45.455 0.00 0.00 0.00 4.93
3824 4298 2.739292 TCGGTGCAATTATCTACTCGC 58.261 47.619 0.00 0.00 0.00 5.03
3825 4299 5.907197 AAATCGGTGCAATTATCTACTCG 57.093 39.130 0.00 0.00 0.00 4.18
3912 4390 5.551760 ATTCGAAATTGGACAGATGACAC 57.448 39.130 0.00 0.00 0.00 3.67
4014 4492 6.215636 AGTCCTTATACACAGAGTTGGGATTT 59.784 38.462 0.00 0.00 0.00 2.17
4091 4570 5.246203 CAGGGACAGCTGTAGCCTAATATAA 59.754 44.000 21.73 0.00 43.38 0.98
4092 4571 4.772624 CAGGGACAGCTGTAGCCTAATATA 59.227 45.833 21.73 0.00 43.38 0.86
4274 4755 2.427095 GGTGGACCCAATGCAATAGAAC 59.573 50.000 0.00 0.00 0.00 3.01
4315 4796 5.747565 CAAACAGCATTCGACTACTTCAAA 58.252 37.500 0.00 0.00 0.00 2.69
4316 4797 4.319477 GCAAACAGCATTCGACTACTTCAA 60.319 41.667 0.00 0.00 44.79 2.69
4317 4798 3.186409 GCAAACAGCATTCGACTACTTCA 59.814 43.478 0.00 0.00 44.79 3.02
4318 4799 3.737305 GCAAACAGCATTCGACTACTTC 58.263 45.455 0.00 0.00 44.79 3.01
4319 4800 3.813529 GCAAACAGCATTCGACTACTT 57.186 42.857 0.00 0.00 44.79 2.24
4341 4822 7.725844 AGAACAGGAGAAATGAAGTTGGTATTT 59.274 33.333 0.00 0.00 0.00 1.40
4347 4828 5.528690 TGTGAGAACAGGAGAAATGAAGTTG 59.471 40.000 0.00 0.00 0.00 3.16
4382 4864 3.779759 AGAGAAAAGATACAGCAGAGCG 58.220 45.455 0.00 0.00 0.00 5.03
4426 4908 6.183360 TGTTTGGTTCAAGTCACTGTAACATC 60.183 38.462 5.21 0.00 0.00 3.06
4451 4933 8.409358 AAGGCTTTTCTGTTACTTCACATATT 57.591 30.769 0.00 0.00 0.00 1.28
4496 4978 1.070134 TCCCCAAGTTCACTCTTGTCG 59.930 52.381 5.86 0.00 42.01 4.35
4772 5254 7.969690 TGGATTTTTCTCTCTCTCTAGTGAT 57.030 36.000 0.00 0.00 0.00 3.06
4773 5255 7.969690 ATGGATTTTTCTCTCTCTCTAGTGA 57.030 36.000 0.00 0.00 0.00 3.41
4774 5256 9.912634 GATATGGATTTTTCTCTCTCTCTAGTG 57.087 37.037 0.00 0.00 0.00 2.74
4775 5257 9.653516 TGATATGGATTTTTCTCTCTCTCTAGT 57.346 33.333 0.00 0.00 0.00 2.57
4776 5258 9.912634 GTGATATGGATTTTTCTCTCTCTCTAG 57.087 37.037 0.00 0.00 0.00 2.43
4777 5259 9.426534 TGTGATATGGATTTTTCTCTCTCTCTA 57.573 33.333 0.00 0.00 0.00 2.43
4778 5260 8.316497 TGTGATATGGATTTTTCTCTCTCTCT 57.684 34.615 0.00 0.00 0.00 3.10
4779 5261 8.954950 TTGTGATATGGATTTTTCTCTCTCTC 57.045 34.615 0.00 0.00 0.00 3.20
4805 5292 5.798132 ACACTGTCATTATGAGAGAGCAAA 58.202 37.500 23.35 0.00 39.87 3.68
4841 5328 1.171308 CAGATGCAGTGGGTGGAAAG 58.829 55.000 0.00 0.00 0.00 2.62
4873 5360 5.294306 TCATTGCATATGAAGTCTCGGAAAC 59.706 40.000 6.97 0.00 0.00 2.78
4902 5389 3.987220 GGTTGTGTATGGTTGACAAATGC 59.013 43.478 0.00 0.00 31.62 3.56
4914 5401 3.057596 GTGACCCATTGTGGTTGTGTATG 60.058 47.826 0.00 0.00 39.24 2.39
4973 5460 7.093377 ACGGGGTTAACTATAACATTCTACACA 60.093 37.037 5.42 0.00 42.66 3.72
4998 5485 6.282199 TGACTTCCTTCACTAGGTTATCAC 57.718 41.667 0.00 0.00 45.03 3.06
5043 5530 5.479306 TGAAGCACTACCAAAGATACAGTC 58.521 41.667 0.00 0.00 0.00 3.51
5050 5537 4.955811 TCTTCTGAAGCACTACCAAAGA 57.044 40.909 12.54 0.00 0.00 2.52
5070 5557 5.652518 AGAGTCGCTAGGTTATTTGACTTC 58.347 41.667 0.00 0.00 36.86 3.01
5072 5559 5.662674 AAGAGTCGCTAGGTTATTTGACT 57.337 39.130 0.00 0.00 39.24 3.41
5080 5567 4.463186 ACAGTTGATAAGAGTCGCTAGGTT 59.537 41.667 0.00 0.00 0.00 3.50
5084 5571 7.569639 AAGATACAGTTGATAAGAGTCGCTA 57.430 36.000 0.00 0.00 0.00 4.26
5087 5574 7.036220 ACCAAAGATACAGTTGATAAGAGTCG 58.964 38.462 0.00 0.00 0.00 4.18
5098 5585 5.865085 TGAAGCACTACCAAAGATACAGTT 58.135 37.500 0.00 0.00 0.00 3.16
5139 5626 6.958255 TGCATCGGTACAATTTAATGATCAG 58.042 36.000 0.09 0.00 0.00 2.90
5294 5794 5.178797 GCTCTTCTATAGCTGACAAAACCA 58.821 41.667 0.00 0.00 37.01 3.67
5332 5832 6.597832 ACCACCTATCATACTCAGCTATTC 57.402 41.667 0.00 0.00 0.00 1.75
5410 5912 4.341520 GGACCGATACAGAATCTACACCTT 59.658 45.833 0.00 0.00 31.87 3.50
5422 5924 4.363999 GACAATCTGAAGGACCGATACAG 58.636 47.826 0.00 0.00 0.00 2.74
5449 5951 4.445385 ACACAAAATGCGATGCTTTCTTTC 59.555 37.500 0.00 0.00 0.00 2.62
5574 6076 9.260002 CACACACACACACACACATATATATAT 57.740 33.333 0.00 0.00 0.00 0.86
5575 6077 8.254508 ACACACACACACACACACATATATATA 58.745 33.333 0.00 0.00 0.00 0.86
5576 6078 7.064490 CACACACACACACACACACATATATAT 59.936 37.037 0.00 0.00 0.00 0.86
5577 6079 6.367422 CACACACACACACACACACATATATA 59.633 38.462 0.00 0.00 0.00 0.86
5578 6080 5.179182 CACACACACACACACACACATATAT 59.821 40.000 0.00 0.00 0.00 0.86
5579 6081 4.509600 CACACACACACACACACACATATA 59.490 41.667 0.00 0.00 0.00 0.86
5580 6082 3.312146 CACACACACACACACACACATAT 59.688 43.478 0.00 0.00 0.00 1.78
5581 6083 2.675348 CACACACACACACACACACATA 59.325 45.455 0.00 0.00 0.00 2.29
5582 6084 1.468127 CACACACACACACACACACAT 59.532 47.619 0.00 0.00 0.00 3.21
5583 6085 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
5584 6086 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
5585 6087 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
5586 6088 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
5587 6089 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
5588 6090 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
5589 6091 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
5590 6092 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
5591 6093 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
5592 6094 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
5593 6095 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
5594 6096 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
5595 6097 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
5596 6098 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
5597 6099 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
5598 6100 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
5599 6101 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
5600 6102 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
5601 6103 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
5602 6104 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
5603 6105 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
5604 6106 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
5605 6107 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
5606 6108 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
5607 6109 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
5608 6110 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
5609 6111 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
5610 6112 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
5611 6113 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
5612 6114 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
5613 6115 1.533299 GAACACACACACACACACACA 59.467 47.619 0.00 0.00 0.00 3.72
5614 6116 1.804151 AGAACACACACACACACACAC 59.196 47.619 0.00 0.00 0.00 3.82
5615 6117 2.177394 AGAACACACACACACACACA 57.823 45.000 0.00 0.00 0.00 3.72
5616 6118 3.233578 CAAAGAACACACACACACACAC 58.766 45.455 0.00 0.00 0.00 3.82
5617 6119 2.881513 ACAAAGAACACACACACACACA 59.118 40.909 0.00 0.00 0.00 3.72
5618 6120 3.058570 TGACAAAGAACACACACACACAC 60.059 43.478 0.00 0.00 0.00 3.82
5619 6121 3.058570 GTGACAAAGAACACACACACACA 60.059 43.478 0.00 0.00 37.05 3.72
5620 6122 3.488489 GTGACAAAGAACACACACACAC 58.512 45.455 0.00 0.00 37.05 3.82
5621 6123 2.158645 CGTGACAAAGAACACACACACA 59.841 45.455 0.00 0.00 36.91 3.72
5622 6124 2.413796 TCGTGACAAAGAACACACACAC 59.586 45.455 0.00 0.00 36.91 3.82
5623 6125 2.689646 TCGTGACAAAGAACACACACA 58.310 42.857 0.00 0.00 36.91 3.72
5624 6126 3.308595 TCATCGTGACAAAGAACACACAC 59.691 43.478 0.00 0.00 36.91 3.82
5625 6127 3.526534 TCATCGTGACAAAGAACACACA 58.473 40.909 0.00 0.00 36.91 3.72
5626 6128 3.604772 GCTCATCGTGACAAAGAACACAC 60.605 47.826 0.00 0.00 36.91 3.82
5627 6129 2.543848 GCTCATCGTGACAAAGAACACA 59.456 45.455 0.00 0.00 36.91 3.72
5628 6130 2.410262 CGCTCATCGTGACAAAGAACAC 60.410 50.000 0.00 0.00 0.00 3.32
5679 6191 9.436957 AATTTAACTATGTACAAGTCAGTGAGG 57.563 33.333 0.00 0.00 0.00 3.86
5708 6220 7.279615 TGATCATTATACCGTGTCCAGAATTT 58.720 34.615 0.00 0.00 0.00 1.82
5709 6221 6.826668 TGATCATTATACCGTGTCCAGAATT 58.173 36.000 0.00 0.00 0.00 2.17
5710 6222 6.042093 ACTGATCATTATACCGTGTCCAGAAT 59.958 38.462 0.00 0.00 0.00 2.40
5711 6223 5.362717 ACTGATCATTATACCGTGTCCAGAA 59.637 40.000 0.00 0.00 0.00 3.02
5712 6224 4.893524 ACTGATCATTATACCGTGTCCAGA 59.106 41.667 0.00 0.00 0.00 3.86
5713 6225 5.201713 ACTGATCATTATACCGTGTCCAG 57.798 43.478 0.00 0.00 0.00 3.86
5714 6226 5.356426 CAACTGATCATTATACCGTGTCCA 58.644 41.667 0.00 0.00 0.00 4.02
5766 6278 6.435904 TCCATACCCAGAAATTTAACTTGGTG 59.564 38.462 11.07 5.69 34.68 4.17
5868 6380 8.594550 ACTGAAGCTCTAATTTTGTCCTAACTA 58.405 33.333 0.00 0.00 0.00 2.24
5875 6387 9.346725 CCAAATTACTGAAGCTCTAATTTTGTC 57.653 33.333 0.00 0.00 30.90 3.18
5887 6399 3.078837 TCCCGTTCCAAATTACTGAAGC 58.921 45.455 0.00 0.00 0.00 3.86
5893 6405 4.203654 ACTCTCTCCCGTTCCAAATTAC 57.796 45.455 0.00 0.00 0.00 1.89
6012 6532 1.080569 GCGGTGGCCAACAATTCTG 60.081 57.895 23.36 7.47 0.00 3.02
6029 6549 3.132801 GCAGCTCTGAGCCTTGGC 61.133 66.667 25.09 19.02 43.77 4.52


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

AutoCloner maintained by Alex Coulton.