Multiple sequence alignment - TraesCS7B01G052600

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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 TraesCS7B01G052600 chr7B 100.000 3876 0 0 1 3876 55036889 55033014 0.000000e+00 7158.0
1 TraesCS7B01G052600 chr7B 90.718 905 56 17 1551 2447 55066495 55065611 0.000000e+00 1181.0
2 TraesCS7B01G052600 chr7B 82.495 537 55 25 992 1521 55067146 55066642 5.950000e-118 435.0
3 TraesCS7B01G052600 chr7B 91.026 234 18 1 2539 2772 55065514 55065284 2.910000e-81 313.0
4 TraesCS7B01G052600 chr7B 88.889 54 6 0 1047 1100 535697472 535697525 2.500000e-07 67.6
5 TraesCS7B01G052600 chr7D 87.141 2053 104 57 377 2366 99824868 99822913 0.000000e+00 2182.0
6 TraesCS7B01G052600 chr7D 87.771 1570 87 48 924 2447 99874319 99872809 0.000000e+00 1738.0
7 TraesCS7B01G052600 chr7D 86.382 727 41 26 2428 3117 99822902 99822197 0.000000e+00 741.0
8 TraesCS7B01G052600 chr7D 88.479 434 31 13 1 420 99825456 99825028 1.240000e-139 507.0
9 TraesCS7B01G052600 chr7D 85.841 452 50 6 3427 3875 99821786 99821346 5.860000e-128 468.0
10 TraesCS7B01G052600 chr7D 90.204 245 15 6 2536 2777 99872710 99872472 1.050000e-80 311.0
11 TraesCS7B01G052600 chr7D 95.455 132 6 0 3263 3394 99822162 99822031 1.090000e-50 211.0
12 TraesCS7B01G052600 chr7D 100.000 28 0 0 1047 1074 507302712 507302739 7.000000e-03 52.8
13 TraesCS7B01G052600 chr7A 91.738 1525 67 25 1632 3117 102289862 102288358 0.000000e+00 2063.0
14 TraesCS7B01G052600 chr7A 87.213 1001 54 30 567 1538 102290838 102289883 0.000000e+00 1072.0
15 TraesCS7B01G052600 chr7A 85.113 665 71 7 3216 3875 102288355 102287714 0.000000e+00 654.0
16 TraesCS7B01G052600 chr7A 87.529 433 33 17 1 416 102322647 102322219 7.530000e-132 481.0
17 TraesCS7B01G052600 chr7A 88.889 54 6 0 1047 1100 577206144 577206197 2.500000e-07 67.6
18 TraesCS7B01G052600 chr5B 86.082 194 27 0 1708 1901 398346644 398346837 3.920000e-50 209.0
19 TraesCS7B01G052600 chr5D 85.567 194 28 0 1708 1901 339352917 339353110 1.830000e-48 204.0
20 TraesCS7B01G052600 chr5A 85.567 194 28 0 1708 1901 440262521 440262714 1.830000e-48 204.0
21 TraesCS7B01G052600 chr6B 80.583 103 17 3 3762 3862 625803137 625803036 4.150000e-10 76.8


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 TraesCS7B01G052600 chr7B 55033014 55036889 3875 True 7158.0 7158 100.000000 1 3876 1 chr7B.!!$R1 3875
1 TraesCS7B01G052600 chr7B 55065284 55067146 1862 True 643.0 1181 88.079667 992 2772 3 chr7B.!!$R2 1780
2 TraesCS7B01G052600 chr7D 99872472 99874319 1847 True 1024.5 1738 88.987500 924 2777 2 chr7D.!!$R2 1853
3 TraesCS7B01G052600 chr7D 99821346 99825456 4110 True 821.8 2182 88.659600 1 3875 5 chr7D.!!$R1 3874
4 TraesCS7B01G052600 chr7A 102287714 102290838 3124 True 1263.0 2063 88.021333 567 3875 3 chr7A.!!$R2 3308

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
727 974 0.034089 GGTAAAGCCCTGCCAGTGAT 60.034 55.0 0.0 0.0 0.0 3.06 F
1724 2196 0.547471 TGCAGGAGGAGATGGTGGAA 60.547 55.0 0.0 0.0 0.0 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2394 2884 0.106116 AGGGACGGGTCTAGCTAAGG 60.106 60.0 0.00 0.0 0.0 2.69 R
3182 3769 0.107848 CGGCCGAAAATCCTACACCT 60.108 55.0 24.07 0.0 0.0 4.00 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
45 46 2.017049 ACTTGGTGTTGAGCTTGTCAC 58.983 47.619 0.00 0.00 33.71 3.67
56 57 4.627058 TGAGCTTGTCACGTTTCTATTCA 58.373 39.130 0.00 0.00 0.00 2.57
74 75 7.327975 TCTATTCACGGATACACATTCAAAGT 58.672 34.615 0.00 0.00 0.00 2.66
79 80 6.013085 CACGGATACACATTCAAAGTTAACG 58.987 40.000 0.00 0.00 0.00 3.18
80 81 5.927689 ACGGATACACATTCAAAGTTAACGA 59.072 36.000 0.00 0.00 0.00 3.85
136 137 0.674895 GTGTGCCCTGAGATGGACAC 60.675 60.000 9.93 9.93 33.38 3.67
152 153 2.661195 GGACACGAATTTTTGAATGCCG 59.339 45.455 0.00 0.00 0.00 5.69
157 158 3.489047 ACGAATTTTTGAATGCCGTGTTG 59.511 39.130 0.00 0.00 0.00 3.33
160 161 5.402464 AATTTTTGAATGCCGTGTTGAAC 57.598 34.783 0.00 0.00 0.00 3.18
175 176 7.254795 GCCGTGTTGAACTTGATTATAAGCTAT 60.255 37.037 1.93 0.00 0.00 2.97
228 229 1.009449 GCGGCTTGTAAAACACGCA 60.009 52.632 10.19 0.00 44.09 5.24
232 233 0.659123 GCTTGTAAAACACGCACGGG 60.659 55.000 3.90 0.00 42.18 5.28
252 253 3.181452 GGGTAAACACACTGAACCTACCA 60.181 47.826 0.00 0.00 30.93 3.25
253 254 4.062991 GGTAAACACACTGAACCTACCAG 58.937 47.826 0.00 0.00 37.64 4.00
254 255 2.256117 AACACACTGAACCTACCAGC 57.744 50.000 0.00 0.00 35.14 4.85
299 300 9.269453 ACCGCTATAAACAATATACCTTTTCTC 57.731 33.333 0.00 0.00 0.00 2.87
301 302 9.490379 CGCTATAAACAATATACCTTTTCTCCT 57.510 33.333 0.00 0.00 0.00 3.69
324 329 5.426689 TGACACTATCCTTTCTGCAGATT 57.573 39.130 19.04 3.22 0.00 2.40
367 373 6.258230 TGACCAAGCATTCTAAAACATGAG 57.742 37.500 0.00 0.00 0.00 2.90
368 374 5.769662 TGACCAAGCATTCTAAAACATGAGT 59.230 36.000 0.00 0.00 0.00 3.41
369 375 6.072508 TGACCAAGCATTCTAAAACATGAGTC 60.073 38.462 0.00 0.00 0.00 3.36
372 584 6.294120 CCAAGCATTCTAAAACATGAGTCACA 60.294 38.462 0.00 0.00 0.00 3.58
375 587 7.889469 AGCATTCTAAAACATGAGTCACAAAT 58.111 30.769 0.00 0.00 0.00 2.32
421 633 6.575162 ATGTCTCAATCAAACAAGGTTACC 57.425 37.500 0.00 0.00 0.00 2.85
473 710 6.430007 ACCATCCTTCTAGAAGCATCAAAAT 58.570 36.000 24.58 7.69 37.11 1.82
474 711 6.545298 ACCATCCTTCTAGAAGCATCAAAATC 59.455 38.462 24.58 0.00 37.11 2.17
475 712 6.544931 CCATCCTTCTAGAAGCATCAAAATCA 59.455 38.462 24.58 1.02 37.11 2.57
477 714 8.630917 CATCCTTCTAGAAGCATCAAAATCAAT 58.369 33.333 24.58 3.07 37.11 2.57
478 715 8.218338 TCCTTCTAGAAGCATCAAAATCAATC 57.782 34.615 24.58 0.00 37.11 2.67
479 716 7.830697 TCCTTCTAGAAGCATCAAAATCAATCA 59.169 33.333 24.58 0.00 37.11 2.57
480 717 8.630917 CCTTCTAGAAGCATCAAAATCAATCAT 58.369 33.333 24.58 0.00 37.11 2.45
481 718 9.452065 CTTCTAGAAGCATCAAAATCAATCATG 57.548 33.333 19.23 0.00 0.00 3.07
482 719 7.423199 TCTAGAAGCATCAAAATCAATCATGC 58.577 34.615 0.00 0.00 40.20 4.06
491 728 2.346766 ATCAATCATGCGCACCCTAA 57.653 45.000 14.90 0.00 0.00 2.69
495 732 1.888215 ATCATGCGCACCCTAATCAG 58.112 50.000 14.90 0.00 0.00 2.90
501 738 1.268743 GCGCACCCTAATCAGCATTTC 60.269 52.381 0.30 0.00 0.00 2.17
503 740 2.378038 GCACCCTAATCAGCATTTCCA 58.622 47.619 0.00 0.00 0.00 3.53
504 741 2.961062 GCACCCTAATCAGCATTTCCAT 59.039 45.455 0.00 0.00 0.00 3.41
523 760 2.690173 TAACACGTTTGCCCAAATCG 57.310 45.000 11.37 11.37 33.96 3.34
525 762 1.243902 ACACGTTTGCCCAAATCGAT 58.756 45.000 16.54 0.00 32.94 3.59
526 763 1.611491 ACACGTTTGCCCAAATCGATT 59.389 42.857 4.39 4.39 32.94 3.34
527 764 2.814919 ACACGTTTGCCCAAATCGATTA 59.185 40.909 11.83 0.00 32.94 1.75
528 765 3.253677 ACACGTTTGCCCAAATCGATTAA 59.746 39.130 11.83 0.00 32.94 1.40
529 766 4.230657 CACGTTTGCCCAAATCGATTAAA 58.769 39.130 11.83 5.02 32.94 1.52
531 768 5.175856 CACGTTTGCCCAAATCGATTAAAAA 59.824 36.000 11.83 5.47 32.94 1.94
552 789 6.685527 AAAAACACGTTTGCCCAAATTTAT 57.314 29.167 0.00 0.00 32.36 1.40
553 790 5.915812 AAACACGTTTGCCCAAATTTATC 57.084 34.783 0.00 0.00 32.36 1.75
583 820 2.159296 ACAGAAAGACGTTTGCCCAAAC 60.159 45.455 12.61 12.61 45.25 2.93
668 908 1.401148 CGGAGTCTACACCGTGTCAAG 60.401 57.143 7.63 0.96 43.52 3.02
727 974 0.034089 GGTAAAGCCCTGCCAGTGAT 60.034 55.000 0.00 0.00 0.00 3.06
794 1042 5.859521 CAGATTTTCTCTGTCAAGTCCAG 57.140 43.478 0.00 0.00 45.42 3.86
854 1102 1.534028 CAAACGCAGACACAACACAC 58.466 50.000 0.00 0.00 0.00 3.82
915 1163 3.702330 TGACTAGTTGATATCGCCAACG 58.298 45.455 0.00 0.00 46.10 4.10
921 1169 1.501169 TGATATCGCCAACGCATCTG 58.499 50.000 0.00 0.00 39.84 2.90
938 1186 3.328382 TCTGTTCATTCACCTAACCGG 57.672 47.619 0.00 0.00 39.35 5.28
942 1190 2.124860 ATTCACCTAACCGGCCGC 60.125 61.111 22.85 0.00 35.61 6.53
1207 1513 0.889638 TGGCTCTGACTCGTCGTCTT 60.890 55.000 8.58 0.00 43.25 3.01
1213 1519 4.965158 GCTCTGACTCGTCGTCTTAATTAG 59.035 45.833 8.58 0.00 43.25 1.73
1216 1522 3.181493 TGACTCGTCGTCTTAATTAGCCC 60.181 47.826 8.58 0.00 43.25 5.19
1223 1529 3.118884 TCGTCTTAATTAGCCCCTGTGTC 60.119 47.826 0.00 0.00 0.00 3.67
1303 1612 3.058160 GTGCTGTGCAAGGCGGAT 61.058 61.111 7.49 0.00 41.47 4.18
1369 1678 2.741092 GTCTTCCACACCGCCTCA 59.259 61.111 0.00 0.00 0.00 3.86
1574 2023 4.120755 GGAGGAGGGGCTGCTTGG 62.121 72.222 0.00 0.00 30.82 3.61
1605 2062 1.080705 CCTTCAGTGACGGACGACC 60.081 63.158 10.11 0.00 0.00 4.79
1724 2196 0.547471 TGCAGGAGGAGATGGTGGAA 60.547 55.000 0.00 0.00 0.00 3.53
1808 2280 1.733041 CGTGCTGACGTCGTCCATT 60.733 57.895 22.05 0.00 40.91 3.16
1907 2379 3.251571 CAAGAAGACCAAGGTACGTAGC 58.748 50.000 16.85 16.85 0.00 3.58
1924 2396 5.059660 CGTAGCACACGTAGTACTACTAC 57.940 47.826 26.36 19.42 45.71 2.73
1986 2469 1.122323 GCTAATTTTGTTGTGCGCGTG 59.878 47.619 8.43 0.00 0.00 5.34
2386 2876 4.854784 GCCATCGCAGCGACGAGA 62.855 66.667 22.28 0.00 46.69 4.04
2387 2877 2.026734 CCATCGCAGCGACGAGAT 59.973 61.111 22.28 0.00 46.69 2.75
2388 2878 1.282875 CCATCGCAGCGACGAGATA 59.717 57.895 22.28 0.00 46.69 1.98
2389 2879 0.727457 CCATCGCAGCGACGAGATAG 60.727 60.000 22.28 4.16 46.69 2.08
2394 2884 1.332178 GCAGCGACGAGATAGCATAC 58.668 55.000 0.00 0.00 0.00 2.39
2404 2894 5.806818 ACGAGATAGCATACCTTAGCTAGA 58.193 41.667 0.00 0.00 45.53 2.43
2423 2913 0.113776 ACCCGTCCCTGTCTCTGTTA 59.886 55.000 0.00 0.00 0.00 2.41
2453 2950 2.349438 CCATGTCAACACACGTGCTAAC 60.349 50.000 17.22 7.77 34.48 2.34
2730 3274 1.202359 GGCCGTGAGAGAGATCAACTC 60.202 57.143 10.61 10.61 45.22 3.01
2743 3287 6.300354 GAGATCAACTCAGAGAGTAGTAGC 57.700 45.833 3.79 0.00 42.59 3.58
2845 3404 0.035056 GCCATTCTGGTGCCTGTAGT 60.035 55.000 0.00 0.00 40.46 2.73
2892 3474 3.837213 TTAGCATGCAGTTCTGAAAGC 57.163 42.857 21.98 8.62 0.00 3.51
3005 3589 4.752879 GCTAGCCAACGCCGTCCA 62.753 66.667 2.29 0.00 34.57 4.02
3006 3590 2.047655 CTAGCCAACGCCGTCCAA 60.048 61.111 0.00 0.00 34.57 3.53
3022 3606 4.020372 GTCCAATGACCTGCTCACAAGC 62.020 54.545 0.00 0.00 41.20 4.01
3088 3675 2.981302 CGGTCTCCTGCATCCACA 59.019 61.111 0.00 0.00 0.00 4.17
3124 3711 2.885113 GGCACCCGGCTGAAAATC 59.115 61.111 0.00 0.00 44.01 2.17
3125 3712 1.976474 GGCACCCGGCTGAAAATCA 60.976 57.895 0.00 0.00 44.01 2.57
3126 3713 1.212751 GCACCCGGCTGAAAATCAC 59.787 57.895 0.00 0.00 40.25 3.06
3127 3714 1.501741 CACCCGGCTGAAAATCACG 59.498 57.895 0.00 0.00 0.00 4.35
3128 3715 1.674322 ACCCGGCTGAAAATCACGG 60.674 57.895 0.00 0.00 43.89 4.94
3129 3716 3.187058 CCGGCTGAAAATCACGGG 58.813 61.111 0.00 0.00 40.79 5.28
3130 3717 1.376683 CCGGCTGAAAATCACGGGA 60.377 57.895 0.00 0.00 40.79 5.14
3131 3718 1.369091 CCGGCTGAAAATCACGGGAG 61.369 60.000 0.00 0.00 40.79 4.30
3132 3719 0.391130 CGGCTGAAAATCACGGGAGA 60.391 55.000 0.00 0.00 0.00 3.71
3133 3720 1.743772 CGGCTGAAAATCACGGGAGAT 60.744 52.381 0.00 0.00 0.00 2.75
3134 3721 1.672881 GGCTGAAAATCACGGGAGATG 59.327 52.381 0.00 0.00 0.00 2.90
3135 3722 2.359900 GCTGAAAATCACGGGAGATGT 58.640 47.619 0.00 0.00 0.00 3.06
3136 3723 2.749621 GCTGAAAATCACGGGAGATGTT 59.250 45.455 0.00 0.00 0.00 2.71
3137 3724 3.191371 GCTGAAAATCACGGGAGATGTTT 59.809 43.478 0.00 0.00 0.00 2.83
3138 3725 4.394920 GCTGAAAATCACGGGAGATGTTTA 59.605 41.667 0.00 0.00 0.00 2.01
3139 3726 5.447818 GCTGAAAATCACGGGAGATGTTTAG 60.448 44.000 0.00 0.00 33.96 1.85
3140 3727 5.800296 TGAAAATCACGGGAGATGTTTAGA 58.200 37.500 0.00 0.00 0.00 2.10
3141 3728 6.414732 TGAAAATCACGGGAGATGTTTAGAT 58.585 36.000 0.00 0.00 0.00 1.98
3142 3729 6.884295 TGAAAATCACGGGAGATGTTTAGATT 59.116 34.615 0.00 0.00 0.00 2.40
3143 3730 8.044309 TGAAAATCACGGGAGATGTTTAGATTA 58.956 33.333 0.00 0.00 0.00 1.75
3144 3731 8.438676 AAAATCACGGGAGATGTTTAGATTAG 57.561 34.615 0.00 0.00 0.00 1.73
3145 3732 6.978674 ATCACGGGAGATGTTTAGATTAGA 57.021 37.500 0.00 0.00 0.00 2.10
3146 3733 6.978674 TCACGGGAGATGTTTAGATTAGAT 57.021 37.500 0.00 0.00 0.00 1.98
3147 3734 6.749139 TCACGGGAGATGTTTAGATTAGATG 58.251 40.000 0.00 0.00 0.00 2.90
3148 3735 5.928839 CACGGGAGATGTTTAGATTAGATGG 59.071 44.000 0.00 0.00 0.00 3.51
3149 3736 5.839063 ACGGGAGATGTTTAGATTAGATGGA 59.161 40.000 0.00 0.00 0.00 3.41
3150 3737 6.326583 ACGGGAGATGTTTAGATTAGATGGAA 59.673 38.462 0.00 0.00 0.00 3.53
3151 3738 6.870965 CGGGAGATGTTTAGATTAGATGGAAG 59.129 42.308 0.00 0.00 0.00 3.46
3152 3739 7.164803 GGGAGATGTTTAGATTAGATGGAAGG 58.835 42.308 0.00 0.00 0.00 3.46
3153 3740 7.202139 GGGAGATGTTTAGATTAGATGGAAGGT 60.202 40.741 0.00 0.00 0.00 3.50
3154 3741 8.214364 GGAGATGTTTAGATTAGATGGAAGGTT 58.786 37.037 0.00 0.00 0.00 3.50
3155 3742 9.620259 GAGATGTTTAGATTAGATGGAAGGTTT 57.380 33.333 0.00 0.00 0.00 3.27
3156 3743 9.620259 AGATGTTTAGATTAGATGGAAGGTTTC 57.380 33.333 0.00 0.00 0.00 2.78
3157 3744 7.843490 TGTTTAGATTAGATGGAAGGTTTCG 57.157 36.000 0.00 0.00 0.00 3.46
3158 3745 7.391620 TGTTTAGATTAGATGGAAGGTTTCGT 58.608 34.615 0.00 0.00 0.00 3.85
3159 3746 8.533657 TGTTTAGATTAGATGGAAGGTTTCGTA 58.466 33.333 0.00 0.00 0.00 3.43
3160 3747 9.374838 GTTTAGATTAGATGGAAGGTTTCGTAA 57.625 33.333 0.00 0.00 0.00 3.18
3161 3748 8.937634 TTAGATTAGATGGAAGGTTTCGTAAC 57.062 34.615 0.00 0.00 0.00 2.50
3171 3758 2.475951 GTTTCGTAACCTTGCGTACG 57.524 50.000 11.84 11.84 37.54 3.67
3172 3759 1.786579 GTTTCGTAACCTTGCGTACGT 59.213 47.619 17.90 0.00 37.54 3.57
3173 3760 2.132740 TTCGTAACCTTGCGTACGTT 57.867 45.000 17.90 5.20 37.54 3.99
3174 3761 1.685302 TCGTAACCTTGCGTACGTTC 58.315 50.000 17.90 1.08 37.54 3.95
3175 3762 1.266718 TCGTAACCTTGCGTACGTTCT 59.733 47.619 17.90 0.00 37.54 3.01
3176 3763 2.053627 CGTAACCTTGCGTACGTTCTT 58.946 47.619 17.90 4.35 0.00 2.52
3177 3764 2.472488 CGTAACCTTGCGTACGTTCTTT 59.528 45.455 17.90 6.80 0.00 2.52
3178 3765 3.060339 CGTAACCTTGCGTACGTTCTTTT 60.060 43.478 17.90 7.83 0.00 2.27
3179 3766 4.148000 CGTAACCTTGCGTACGTTCTTTTA 59.852 41.667 17.90 6.87 0.00 1.52
3180 3767 4.720530 AACCTTGCGTACGTTCTTTTAG 57.279 40.909 17.90 4.15 0.00 1.85
3181 3768 3.721035 ACCTTGCGTACGTTCTTTTAGT 58.279 40.909 17.90 1.47 0.00 2.24
3182 3769 4.870363 ACCTTGCGTACGTTCTTTTAGTA 58.130 39.130 17.90 0.00 0.00 1.82
3183 3770 4.919754 ACCTTGCGTACGTTCTTTTAGTAG 59.080 41.667 17.90 0.28 0.00 2.57
3184 3771 4.325472 CCTTGCGTACGTTCTTTTAGTAGG 59.675 45.833 17.90 5.27 0.00 3.18
3185 3772 4.503741 TGCGTACGTTCTTTTAGTAGGT 57.496 40.909 17.90 0.00 0.00 3.08
3186 3773 4.229096 TGCGTACGTTCTTTTAGTAGGTG 58.771 43.478 17.90 0.00 0.00 4.00
3187 3774 4.229876 GCGTACGTTCTTTTAGTAGGTGT 58.770 43.478 17.90 0.00 0.00 4.16
3188 3775 5.049060 TGCGTACGTTCTTTTAGTAGGTGTA 60.049 40.000 17.90 0.00 0.00 2.90
3189 3776 5.509622 GCGTACGTTCTTTTAGTAGGTGTAG 59.490 44.000 17.90 0.00 0.00 2.74
3190 3777 6.024049 CGTACGTTCTTTTAGTAGGTGTAGG 58.976 44.000 7.22 0.00 0.00 3.18
3191 3778 6.128282 CGTACGTTCTTTTAGTAGGTGTAGGA 60.128 42.308 7.22 0.00 0.00 2.94
3192 3779 6.847421 ACGTTCTTTTAGTAGGTGTAGGAT 57.153 37.500 0.00 0.00 0.00 3.24
3193 3780 7.237209 ACGTTCTTTTAGTAGGTGTAGGATT 57.763 36.000 0.00 0.00 0.00 3.01
3194 3781 7.674120 ACGTTCTTTTAGTAGGTGTAGGATTT 58.326 34.615 0.00 0.00 0.00 2.17
3195 3782 8.152898 ACGTTCTTTTAGTAGGTGTAGGATTTT 58.847 33.333 0.00 0.00 0.00 1.82
3196 3783 8.654215 CGTTCTTTTAGTAGGTGTAGGATTTTC 58.346 37.037 0.00 0.00 0.00 2.29
3197 3784 8.654215 GTTCTTTTAGTAGGTGTAGGATTTTCG 58.346 37.037 0.00 0.00 0.00 3.46
3198 3785 7.325694 TCTTTTAGTAGGTGTAGGATTTTCGG 58.674 38.462 0.00 0.00 0.00 4.30
3199 3786 3.538634 AGTAGGTGTAGGATTTTCGGC 57.461 47.619 0.00 0.00 0.00 5.54
3200 3787 2.169978 AGTAGGTGTAGGATTTTCGGCC 59.830 50.000 0.00 0.00 0.00 6.13
3201 3788 0.107848 AGGTGTAGGATTTTCGGCCG 60.108 55.000 22.12 22.12 0.00 6.13
3202 3789 0.392060 GGTGTAGGATTTTCGGCCGT 60.392 55.000 27.15 5.04 0.00 5.68
3203 3790 0.725117 GTGTAGGATTTTCGGCCGTG 59.275 55.000 27.15 0.00 0.00 4.94
3204 3791 1.022451 TGTAGGATTTTCGGCCGTGC 61.022 55.000 27.15 11.39 0.00 5.34
3205 3792 0.743345 GTAGGATTTTCGGCCGTGCT 60.743 55.000 27.15 18.71 0.00 4.40
3206 3793 0.461339 TAGGATTTTCGGCCGTGCTC 60.461 55.000 27.15 16.85 0.00 4.26
3207 3794 1.745489 GGATTTTCGGCCGTGCTCT 60.745 57.895 27.15 7.40 0.00 4.09
3208 3795 0.461339 GGATTTTCGGCCGTGCTCTA 60.461 55.000 27.15 0.06 0.00 2.43
3209 3796 0.651031 GATTTTCGGCCGTGCTCTAC 59.349 55.000 27.15 8.29 0.00 2.59
3290 3881 3.437049 CCACCAAAGCTCTAGCAGTAAAC 59.563 47.826 4.54 0.00 45.16 2.01
3306 3897 0.890996 AAACTTCGCCTTGGCCTCTG 60.891 55.000 3.32 0.00 0.00 3.35
3379 3970 6.844279 CACACGTCACAGTTCTATGTTTTTAC 59.156 38.462 0.00 0.00 0.00 2.01
3408 4220 7.648142 TCTTTTGAAAAGACGCAGATAAACAT 58.352 30.769 15.81 0.00 0.00 2.71
3418 4230 3.308595 CGCAGATAAACATACCGAAAGCA 59.691 43.478 0.00 0.00 0.00 3.91
3419 4231 4.588278 GCAGATAAACATACCGAAAGCAC 58.412 43.478 0.00 0.00 0.00 4.40
3420 4232 4.094294 GCAGATAAACATACCGAAAGCACA 59.906 41.667 0.00 0.00 0.00 4.57
3421 4233 5.727791 GCAGATAAACATACCGAAAGCACAG 60.728 44.000 0.00 0.00 0.00 3.66
3422 4234 5.351465 CAGATAAACATACCGAAAGCACAGT 59.649 40.000 0.00 0.00 0.00 3.55
3423 4235 3.896648 AAACATACCGAAAGCACAGTG 57.103 42.857 0.00 0.00 0.00 3.66
3424 4236 1.156736 ACATACCGAAAGCACAGTGC 58.843 50.000 18.55 18.55 45.46 4.40
3503 4327 1.134401 ACCTATGCCACCGTCAGAATG 60.134 52.381 0.00 0.00 37.54 2.67
3518 4342 4.903054 TCAGAATGAGTTGCTGATGAGTT 58.097 39.130 0.00 0.00 42.56 3.01
3521 4345 5.048921 CAGAATGAGTTGCTGATGAGTTGTT 60.049 40.000 0.00 0.00 39.69 2.83
3523 4347 3.807553 TGAGTTGCTGATGAGTTGTTGA 58.192 40.909 0.00 0.00 0.00 3.18
3549 4374 0.835941 CTCATACCAGAGCCAGGCTT 59.164 55.000 17.46 1.14 39.88 4.35
3555 4380 1.557269 CCAGAGCCAGGCTTACCACT 61.557 60.000 17.46 4.32 39.88 4.00
3560 4385 1.019805 GCCAGGCTTACCACTTCGAC 61.020 60.000 3.29 0.00 39.06 4.20
3570 4395 0.249322 CCACTTCGACGACAACTGGT 60.249 55.000 0.00 0.00 0.00 4.00
3578 4403 3.067180 TCGACGACAACTGGTAAGTCTTT 59.933 43.478 0.00 0.00 34.77 2.52
3579 4404 4.275689 TCGACGACAACTGGTAAGTCTTTA 59.724 41.667 0.00 0.00 34.77 1.85
3642 4467 7.758528 CCCTTGAATTGAATTTGATCTGAAGAC 59.241 37.037 0.00 0.00 0.00 3.01
3646 4471 8.108999 TGAATTGAATTTGATCTGAAGACCCTA 58.891 33.333 0.00 0.00 0.00 3.53
3657 4482 8.998814 TGATCTGAAGACCCTAATACCAAATTA 58.001 33.333 0.00 0.00 0.00 1.40
3660 4485 7.127339 TCTGAAGACCCTAATACCAAATTAGCT 59.873 37.037 0.00 0.00 31.92 3.32
3666 4491 2.051334 ATACCAAATTAGCTGCCGCA 57.949 45.000 2.05 0.00 39.10 5.69
3707 4532 2.851798 CTGAGAAGCCAGCAGGAAC 58.148 57.895 0.00 0.00 36.89 3.62
3710 4535 0.037447 GAGAAGCCAGCAGGAACCTT 59.963 55.000 0.00 0.00 36.89 3.50
3775 4600 1.000955 ACCGAGTCAAAGATGAAGCGT 59.999 47.619 0.00 0.00 37.30 5.07
3776 4601 2.069273 CCGAGTCAAAGATGAAGCGTT 58.931 47.619 0.00 0.00 37.30 4.84
3787 4612 1.290009 GAAGCGTTGCCATTTGCCT 59.710 52.632 0.00 0.00 40.16 4.75
3810 4635 0.528684 CGACCCTCCTGCGAGAATTC 60.529 60.000 0.00 0.00 38.52 2.17
3838 4663 5.222171 CCCTAACCTATCTACTAGCCAGAGT 60.222 48.000 0.00 0.00 0.00 3.24
3856 4681 0.038166 GTGAGGCACAAGGATTCCCA 59.962 55.000 0.00 0.00 34.08 4.37
3867 4692 2.938956 GGATTCCCATCCTCGATGTT 57.061 50.000 0.00 0.00 45.41 2.71
3875 4700 2.159156 CCATCCTCGATGTTGACCGTTA 60.159 50.000 0.86 0.00 38.28 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 7.201821 CCAAGTCCAAGCTTTATCGGAAAATAT 60.202 37.037 4.89 0.00 0.00 1.28
20 21 1.972872 AGCTCAACACCAAGTCCAAG 58.027 50.000 0.00 0.00 0.00 3.61
21 22 2.023673 CAAGCTCAACACCAAGTCCAA 58.976 47.619 0.00 0.00 0.00 3.53
45 46 6.254804 TGAATGTGTATCCGTGAATAGAAACG 59.745 38.462 0.00 0.00 39.48 3.60
56 57 5.927689 TCGTTAACTTTGAATGTGTATCCGT 59.072 36.000 3.71 0.00 0.00 4.69
112 113 0.812811 CATCTCAGGGCACACATCGG 60.813 60.000 0.00 0.00 0.00 4.18
136 137 3.733224 TCAACACGGCATTCAAAAATTCG 59.267 39.130 0.00 0.00 0.00 3.34
152 153 8.818057 ACGATAGCTTATAATCAAGTTCAACAC 58.182 33.333 0.00 0.00 42.67 3.32
210 211 3.823450 GCGTGTTTTACAAGCCGC 58.177 55.556 6.48 2.62 45.63 6.53
228 229 1.487558 AGGTTCAGTGTGTTTACCCGT 59.512 47.619 0.00 0.00 0.00 5.28
232 233 3.497262 GCTGGTAGGTTCAGTGTGTTTAC 59.503 47.826 0.00 0.00 34.89 2.01
286 287 8.652290 GGATAGTGTCAAGGAGAAAAGGTATAT 58.348 37.037 0.00 0.00 0.00 0.86
287 288 7.844779 AGGATAGTGTCAAGGAGAAAAGGTATA 59.155 37.037 0.00 0.00 0.00 1.47
288 289 6.674419 AGGATAGTGTCAAGGAGAAAAGGTAT 59.326 38.462 0.00 0.00 0.00 2.73
289 290 6.023603 AGGATAGTGTCAAGGAGAAAAGGTA 58.976 40.000 0.00 0.00 0.00 3.08
290 291 4.846940 AGGATAGTGTCAAGGAGAAAAGGT 59.153 41.667 0.00 0.00 0.00 3.50
291 292 5.428184 AGGATAGTGTCAAGGAGAAAAGG 57.572 43.478 0.00 0.00 0.00 3.11
292 293 7.118971 CAGAAAGGATAGTGTCAAGGAGAAAAG 59.881 40.741 0.00 0.00 0.00 2.27
294 295 6.467677 CAGAAAGGATAGTGTCAAGGAGAAA 58.532 40.000 0.00 0.00 0.00 2.52
295 296 5.569630 GCAGAAAGGATAGTGTCAAGGAGAA 60.570 44.000 0.00 0.00 0.00 2.87
296 297 4.081420 GCAGAAAGGATAGTGTCAAGGAGA 60.081 45.833 0.00 0.00 0.00 3.71
297 298 4.187694 GCAGAAAGGATAGTGTCAAGGAG 58.812 47.826 0.00 0.00 0.00 3.69
299 300 3.937706 CTGCAGAAAGGATAGTGTCAAGG 59.062 47.826 8.42 0.00 0.00 3.61
301 302 4.890158 TCTGCAGAAAGGATAGTGTCAA 57.110 40.909 15.67 0.00 0.00 3.18
303 304 9.717942 AATATAATCTGCAGAAAGGATAGTGTC 57.282 33.333 22.50 0.00 0.00 3.67
304 305 9.499479 CAATATAATCTGCAGAAAGGATAGTGT 57.501 33.333 22.50 0.00 0.00 3.55
324 329 8.860780 TGGTCAGCATGCATATTTACAATATA 57.139 30.769 21.98 0.00 34.76 0.86
345 351 6.072508 TGACTCATGTTTTAGAATGCTTGGTC 60.073 38.462 0.00 0.00 0.00 4.02
401 613 6.542821 AGATGGTAACCTTGTTTGATTGAGA 58.457 36.000 0.00 0.00 0.00 3.27
455 692 9.452065 CATGATTGATTTTGATGCTTCTAGAAG 57.548 33.333 25.42 25.42 41.24 2.85
473 710 2.221169 GATTAGGGTGCGCATGATTGA 58.779 47.619 15.91 0.00 0.00 2.57
474 711 1.948834 TGATTAGGGTGCGCATGATTG 59.051 47.619 15.91 0.00 0.00 2.67
475 712 2.224606 CTGATTAGGGTGCGCATGATT 58.775 47.619 15.91 2.28 0.00 2.57
477 714 0.815213 GCTGATTAGGGTGCGCATGA 60.815 55.000 15.91 0.00 0.00 3.07
478 715 1.096967 TGCTGATTAGGGTGCGCATG 61.097 55.000 15.91 0.00 0.00 4.06
479 716 0.179009 ATGCTGATTAGGGTGCGCAT 60.179 50.000 15.91 0.00 33.67 4.73
480 717 0.394216 AATGCTGATTAGGGTGCGCA 60.394 50.000 5.66 5.66 0.00 6.09
481 718 0.740737 AAATGCTGATTAGGGTGCGC 59.259 50.000 0.00 0.00 0.00 6.09
482 719 1.334869 GGAAATGCTGATTAGGGTGCG 59.665 52.381 0.00 0.00 0.00 5.34
491 728 5.401550 CAAACGTGTTATGGAAATGCTGAT 58.598 37.500 0.00 0.00 0.00 2.90
495 732 2.666022 GGCAAACGTGTTATGGAAATGC 59.334 45.455 0.00 0.00 0.00 3.56
501 738 2.802787 TTTGGGCAAACGTGTTATGG 57.197 45.000 0.00 0.00 0.00 2.74
503 740 2.814919 TCGATTTGGGCAAACGTGTTAT 59.185 40.909 0.00 0.00 32.51 1.89
504 741 2.219458 TCGATTTGGGCAAACGTGTTA 58.781 42.857 0.00 0.00 32.51 2.41
529 766 6.540551 AGATAAATTTGGGCAAACGTGTTTTT 59.459 30.769 0.00 0.00 32.51 1.94
531 768 5.606505 AGATAAATTTGGGCAAACGTGTTT 58.393 33.333 0.00 0.00 32.51 2.83
533 770 4.864704 AGATAAATTTGGGCAAACGTGT 57.135 36.364 0.00 0.00 32.51 4.49
534 771 8.918961 TTTATAGATAAATTTGGGCAAACGTG 57.081 30.769 0.00 0.00 32.51 4.49
535 772 9.930693 TTTTTATAGATAAATTTGGGCAAACGT 57.069 25.926 0.00 0.00 32.78 3.99
668 908 7.951530 ACTTTTGATGTTTTCATTCATGGTC 57.048 32.000 0.00 0.00 41.05 4.02
727 974 5.963253 AGATGAGATCTCCTTTCTCTTTCCA 59.037 40.000 20.03 0.00 40.26 3.53
843 1091 0.657840 GCTGGTCTGTGTGTTGTGTC 59.342 55.000 0.00 0.00 0.00 3.67
854 1102 4.767255 GTGGGGAGCGCTGGTCTG 62.767 72.222 18.48 0.00 0.00 3.51
915 1163 3.063997 CGGTTAGGTGAATGAACAGATGC 59.936 47.826 0.00 0.00 0.00 3.91
921 1169 1.092348 GGCCGGTTAGGTGAATGAAC 58.908 55.000 1.90 0.00 43.70 3.18
938 1186 1.821332 CAAAGATCTCCCCTGCGGC 60.821 63.158 0.00 0.00 0.00 6.53
942 1190 0.745845 CGGCACAAAGATCTCCCCTG 60.746 60.000 0.00 0.00 0.00 4.45
1074 1334 0.317603 CGATCCACGACCCGATGTAC 60.318 60.000 0.00 0.00 45.77 2.90
1107 1367 3.073101 ACGGCGTACCCCTTCTCC 61.073 66.667 12.58 0.00 0.00 3.71
1207 1513 0.179468 GCGGACACAGGGGCTAATTA 59.821 55.000 0.00 0.00 0.00 1.40
1216 1522 1.450848 ATCTGCATGCGGACACAGG 60.451 57.895 30.95 4.60 33.73 4.00
1223 1529 4.289379 CGCGTCATCTGCATGCGG 62.289 66.667 21.02 21.02 44.65 5.69
1280 1589 2.596631 CTTGCACAGCACCAGCCT 60.597 61.111 0.00 0.00 43.56 4.58
1411 1720 2.758130 TGGAAGGCAATAATTTCCCCC 58.242 47.619 0.49 0.00 39.68 5.40
1414 1723 5.876651 ATCCTTGGAAGGCAATAATTTCC 57.123 39.130 0.01 0.00 46.06 3.13
1447 1764 0.618458 TCCCAAATACTCGCAGCCTT 59.382 50.000 0.00 0.00 0.00 4.35
1449 1766 0.947244 CATCCCAAATACTCGCAGCC 59.053 55.000 0.00 0.00 0.00 4.85
1450 1767 1.599542 GTCATCCCAAATACTCGCAGC 59.400 52.381 0.00 0.00 0.00 5.25
1605 2062 2.286833 ACACGAACGACTTTGACCAATG 59.713 45.455 0.14 0.00 0.00 2.82
1918 2390 1.665679 CGGGTGCATGCAAAGTAGTAG 59.334 52.381 24.58 4.44 0.00 2.57
1919 2391 1.677518 CCGGGTGCATGCAAAGTAGTA 60.678 52.381 24.58 0.00 0.00 1.82
1920 2392 0.960364 CCGGGTGCATGCAAAGTAGT 60.960 55.000 24.58 0.00 0.00 2.73
1921 2393 1.802636 CCGGGTGCATGCAAAGTAG 59.197 57.895 24.58 12.01 0.00 2.57
1922 2394 2.339556 GCCGGGTGCATGCAAAGTA 61.340 57.895 24.58 0.00 40.77 2.24
1923 2395 3.683937 GCCGGGTGCATGCAAAGT 61.684 61.111 24.58 0.00 40.77 2.66
1924 2396 4.440127 GGCCGGGTGCATGCAAAG 62.440 66.667 24.58 16.04 43.89 2.77
1986 2469 2.821991 AGCAGTACCAGTTCTGACAC 57.178 50.000 8.43 0.00 34.02 3.67
2385 2875 4.096682 CGGGTCTAGCTAAGGTATGCTATC 59.903 50.000 0.00 0.00 40.43 2.08
2386 2876 4.017808 CGGGTCTAGCTAAGGTATGCTAT 58.982 47.826 0.00 0.00 40.43 2.97
2387 2877 3.181436 ACGGGTCTAGCTAAGGTATGCTA 60.181 47.826 0.00 0.00 40.35 3.49
2388 2878 2.240279 CGGGTCTAGCTAAGGTATGCT 58.760 52.381 0.00 0.00 42.67 3.79
2389 2879 1.962100 ACGGGTCTAGCTAAGGTATGC 59.038 52.381 0.00 0.00 0.00 3.14
2394 2884 0.106116 AGGGACGGGTCTAGCTAAGG 60.106 60.000 0.00 0.00 0.00 2.69
2404 2894 0.113776 TAACAGAGACAGGGACGGGT 59.886 55.000 0.00 0.00 0.00 5.28
2423 2913 1.098869 TGTTGACATGGTTGCAACGT 58.901 45.000 22.67 15.20 40.07 3.99
2453 2950 1.717113 TCACACTTAAACGCGACATCG 59.283 47.619 15.93 0.00 43.27 3.84
2455 2952 3.386486 TCTTCACACTTAAACGCGACAT 58.614 40.909 15.93 0.00 0.00 3.06
2456 2953 2.811855 TCTTCACACTTAAACGCGACA 58.188 42.857 15.93 0.00 0.00 4.35
2457 2954 3.847037 TTCTTCACACTTAAACGCGAC 57.153 42.857 15.93 0.00 0.00 5.19
2458 2955 5.412526 AAATTCTTCACACTTAAACGCGA 57.587 34.783 15.93 0.00 0.00 5.87
2459 2956 5.679355 TCAAAATTCTTCACACTTAAACGCG 59.321 36.000 3.53 3.53 0.00 6.01
2489 2997 6.489700 TGTATTTTGTTGACTGTCCATGTCAT 59.510 34.615 5.17 0.00 42.95 3.06
2714 3258 4.943705 ACTCTCTGAGTTGATCTCTCTCAC 59.056 45.833 15.53 0.00 40.28 3.51
2718 3262 6.202954 GCTACTACTCTCTGAGTTGATCTCTC 59.797 46.154 14.04 10.19 40.28 3.20
2730 3274 5.031066 AGGACTACTGCTACTACTCTCTG 57.969 47.826 0.00 0.00 0.00 3.35
2735 3279 8.955388 GTTACTAAAAGGACTACTGCTACTACT 58.045 37.037 0.00 0.00 0.00 2.57
2736 3280 8.955388 AGTTACTAAAAGGACTACTGCTACTAC 58.045 37.037 0.00 0.00 0.00 2.73
2737 3281 9.171877 GAGTTACTAAAAGGACTACTGCTACTA 57.828 37.037 0.00 0.00 0.00 1.82
2743 3287 7.542824 GCTTCTGAGTTACTAAAAGGACTACTG 59.457 40.741 0.00 0.00 0.00 2.74
2868 3450 6.320672 AGCTTTCAGAACTGCATGCTAATTAT 59.679 34.615 20.33 4.90 31.34 1.28
2872 3454 3.189910 CAGCTTTCAGAACTGCATGCTAA 59.810 43.478 20.33 0.00 31.67 3.09
2892 3474 5.355350 CCTTTAATTTGGAGAGTAGCCACAG 59.645 44.000 0.00 0.00 34.56 3.66
2924 3506 1.675641 GGAGCACAGCGTCCCATTT 60.676 57.895 0.00 0.00 0.00 2.32
3022 3606 0.108207 GCAGGAGTGATGGGATGAGG 59.892 60.000 0.00 0.00 0.00 3.86
3067 3651 4.819761 GATGCAGGAGACCGCGCA 62.820 66.667 8.75 9.51 40.08 6.09
3110 3697 1.674322 CCGTGATTTTCAGCCGGGT 60.674 57.895 0.00 0.00 33.84 5.28
3114 3701 1.672881 CATCTCCCGTGATTTTCAGCC 59.327 52.381 0.00 0.00 0.00 4.85
3117 3704 5.800296 TCTAAACATCTCCCGTGATTTTCA 58.200 37.500 0.00 0.00 0.00 2.69
3119 3706 8.265055 TCTAATCTAAACATCTCCCGTGATTTT 58.735 33.333 0.00 0.00 0.00 1.82
3120 3707 7.792032 TCTAATCTAAACATCTCCCGTGATTT 58.208 34.615 0.00 0.00 0.00 2.17
3121 3708 7.361457 TCTAATCTAAACATCTCCCGTGATT 57.639 36.000 0.00 0.00 0.00 2.57
3122 3709 6.978674 TCTAATCTAAACATCTCCCGTGAT 57.021 37.500 0.00 0.00 0.00 3.06
3123 3710 6.239317 CCATCTAATCTAAACATCTCCCGTGA 60.239 42.308 0.00 0.00 0.00 4.35
3124 3711 5.928839 CCATCTAATCTAAACATCTCCCGTG 59.071 44.000 0.00 0.00 0.00 4.94
3125 3712 5.839063 TCCATCTAATCTAAACATCTCCCGT 59.161 40.000 0.00 0.00 0.00 5.28
3126 3713 6.346477 TCCATCTAATCTAAACATCTCCCG 57.654 41.667 0.00 0.00 0.00 5.14
3127 3714 7.164803 CCTTCCATCTAATCTAAACATCTCCC 58.835 42.308 0.00 0.00 0.00 4.30
3128 3715 7.740805 ACCTTCCATCTAATCTAAACATCTCC 58.259 38.462 0.00 0.00 0.00 3.71
3129 3716 9.620259 AAACCTTCCATCTAATCTAAACATCTC 57.380 33.333 0.00 0.00 0.00 2.75
3130 3717 9.620259 GAAACCTTCCATCTAATCTAAACATCT 57.380 33.333 0.00 0.00 0.00 2.90
3131 3718 8.552034 CGAAACCTTCCATCTAATCTAAACATC 58.448 37.037 0.00 0.00 0.00 3.06
3132 3719 8.047310 ACGAAACCTTCCATCTAATCTAAACAT 58.953 33.333 0.00 0.00 0.00 2.71
3133 3720 7.391620 ACGAAACCTTCCATCTAATCTAAACA 58.608 34.615 0.00 0.00 0.00 2.83
3134 3721 7.845066 ACGAAACCTTCCATCTAATCTAAAC 57.155 36.000 0.00 0.00 0.00 2.01
3135 3722 9.374838 GTTACGAAACCTTCCATCTAATCTAAA 57.625 33.333 0.00 0.00 0.00 1.85
3136 3723 8.937634 GTTACGAAACCTTCCATCTAATCTAA 57.062 34.615 0.00 0.00 0.00 2.10
3152 3739 1.786579 ACGTACGCAAGGTTACGAAAC 59.213 47.619 16.72 0.00 46.39 2.78
3153 3740 2.132740 ACGTACGCAAGGTTACGAAA 57.867 45.000 16.72 0.00 46.39 3.46
3154 3741 2.050691 GAACGTACGCAAGGTTACGAA 58.949 47.619 16.72 0.00 46.39 3.85
3155 3742 1.266718 AGAACGTACGCAAGGTTACGA 59.733 47.619 16.72 0.00 46.39 3.43
3156 3743 1.689959 AGAACGTACGCAAGGTTACG 58.310 50.000 16.72 0.00 46.39 3.18
3157 3744 4.457433 AAAAGAACGTACGCAAGGTTAC 57.543 40.909 16.72 0.00 46.39 2.50
3158 3745 5.288804 ACTAAAAGAACGTACGCAAGGTTA 58.711 37.500 16.72 8.00 46.39 2.85
3159 3746 4.122046 ACTAAAAGAACGTACGCAAGGTT 58.878 39.130 16.72 7.23 46.39 3.50
3160 3747 3.721035 ACTAAAAGAACGTACGCAAGGT 58.279 40.909 16.72 0.00 46.39 3.50
3161 3748 4.325472 CCTACTAAAAGAACGTACGCAAGG 59.675 45.833 16.72 3.69 46.39 3.61
3163 3750 4.681025 CACCTACTAAAAGAACGTACGCAA 59.319 41.667 16.72 0.00 0.00 4.85
3164 3751 4.229096 CACCTACTAAAAGAACGTACGCA 58.771 43.478 16.72 0.00 0.00 5.24
3165 3752 4.229876 ACACCTACTAAAAGAACGTACGC 58.770 43.478 16.72 0.00 0.00 4.42
3166 3753 6.024049 CCTACACCTACTAAAAGAACGTACG 58.976 44.000 15.01 15.01 0.00 3.67
3167 3754 7.145932 TCCTACACCTACTAAAAGAACGTAC 57.854 40.000 0.00 0.00 0.00 3.67
3168 3755 7.944729 ATCCTACACCTACTAAAAGAACGTA 57.055 36.000 0.00 0.00 0.00 3.57
3169 3756 6.847421 ATCCTACACCTACTAAAAGAACGT 57.153 37.500 0.00 0.00 0.00 3.99
3170 3757 8.543862 AAAATCCTACACCTACTAAAAGAACG 57.456 34.615 0.00 0.00 0.00 3.95
3171 3758 8.654215 CGAAAATCCTACACCTACTAAAAGAAC 58.346 37.037 0.00 0.00 0.00 3.01
3172 3759 7.820872 CCGAAAATCCTACACCTACTAAAAGAA 59.179 37.037 0.00 0.00 0.00 2.52
3173 3760 7.325694 CCGAAAATCCTACACCTACTAAAAGA 58.674 38.462 0.00 0.00 0.00 2.52
3174 3761 6.036844 GCCGAAAATCCTACACCTACTAAAAG 59.963 42.308 0.00 0.00 0.00 2.27
3175 3762 5.876460 GCCGAAAATCCTACACCTACTAAAA 59.124 40.000 0.00 0.00 0.00 1.52
3176 3763 5.422145 GCCGAAAATCCTACACCTACTAAA 58.578 41.667 0.00 0.00 0.00 1.85
3177 3764 4.141869 GGCCGAAAATCCTACACCTACTAA 60.142 45.833 0.00 0.00 0.00 2.24
3178 3765 3.385755 GGCCGAAAATCCTACACCTACTA 59.614 47.826 0.00 0.00 0.00 1.82
3179 3766 2.169978 GGCCGAAAATCCTACACCTACT 59.830 50.000 0.00 0.00 0.00 2.57
3180 3767 2.558378 GGCCGAAAATCCTACACCTAC 58.442 52.381 0.00 0.00 0.00 3.18
3181 3768 1.137479 CGGCCGAAAATCCTACACCTA 59.863 52.381 24.07 0.00 0.00 3.08
3182 3769 0.107848 CGGCCGAAAATCCTACACCT 60.108 55.000 24.07 0.00 0.00 4.00
3183 3770 0.392060 ACGGCCGAAAATCCTACACC 60.392 55.000 35.90 0.00 0.00 4.16
3184 3771 0.725117 CACGGCCGAAAATCCTACAC 59.275 55.000 35.90 0.00 0.00 2.90
3185 3772 1.022451 GCACGGCCGAAAATCCTACA 61.022 55.000 35.90 0.00 0.00 2.74
3186 3773 0.743345 AGCACGGCCGAAAATCCTAC 60.743 55.000 35.90 9.41 0.00 3.18
3187 3774 0.461339 GAGCACGGCCGAAAATCCTA 60.461 55.000 35.90 0.00 0.00 2.94
3188 3775 1.745489 GAGCACGGCCGAAAATCCT 60.745 57.895 35.90 17.10 0.00 3.24
3189 3776 0.461339 TAGAGCACGGCCGAAAATCC 60.461 55.000 35.90 15.05 0.00 3.01
3190 3777 0.651031 GTAGAGCACGGCCGAAAATC 59.349 55.000 35.90 22.45 0.00 2.17
3191 3778 2.763651 GTAGAGCACGGCCGAAAAT 58.236 52.632 35.90 14.79 0.00 1.82
3192 3779 4.272100 GTAGAGCACGGCCGAAAA 57.728 55.556 35.90 7.76 0.00 2.29
3204 3791 1.025812 CCACAGGTAGAGGCGTAGAG 58.974 60.000 0.00 0.00 0.00 2.43
3205 3792 1.035932 GCCACAGGTAGAGGCGTAGA 61.036 60.000 0.00 0.00 44.11 2.59
3206 3793 1.437986 GCCACAGGTAGAGGCGTAG 59.562 63.158 0.00 0.00 44.11 3.51
3207 3794 3.612251 GCCACAGGTAGAGGCGTA 58.388 61.111 0.00 0.00 44.11 4.42
3211 3798 4.162690 GGGCGCCACAGGTAGAGG 62.163 72.222 30.85 0.00 0.00 3.69
3212 3799 3.077556 AGGGCGCCACAGGTAGAG 61.078 66.667 30.85 0.00 0.00 2.43
3213 3800 3.075005 GAGGGCGCCACAGGTAGA 61.075 66.667 30.85 0.00 0.00 2.59
3214 3801 3.077556 AGAGGGCGCCACAGGTAG 61.078 66.667 30.85 0.00 0.00 3.18
3260 3847 3.300765 GCTTTGGTGGCTGCTGCT 61.301 61.111 15.64 0.00 39.59 4.24
3261 3848 3.278592 GAGCTTTGGTGGCTGCTGC 62.279 63.158 7.10 7.10 40.40 5.25
3290 3881 3.130160 GCAGAGGCCAAGGCGAAG 61.130 66.667 5.01 0.00 43.06 3.79
3379 3970 4.920376 TCTGCGTCTTTTCAAAAGAAAGG 58.080 39.130 14.32 8.07 35.37 3.11
3408 4220 0.179070 TGTGCACTGTGCTTTCGGTA 60.179 50.000 30.43 8.41 45.31 4.02
3422 4234 1.334556 GTTTCATGTGCTCTGTGTGCA 59.665 47.619 0.00 0.00 38.19 4.57
3423 4235 1.334556 TGTTTCATGTGCTCTGTGTGC 59.665 47.619 0.00 0.00 0.00 4.57
3424 4236 3.909776 ATGTTTCATGTGCTCTGTGTG 57.090 42.857 0.00 0.00 0.00 3.82
3425 4237 7.686438 TTATTATGTTTCATGTGCTCTGTGT 57.314 32.000 0.00 0.00 0.00 3.72
3426 4238 8.969121 TTTTATTATGTTTCATGTGCTCTGTG 57.031 30.769 0.00 0.00 0.00 3.66
3464 4288 5.652994 AGGTCATTCAGTTGTCTAGAGAC 57.347 43.478 2.56 2.56 44.97 3.36
3465 4289 6.183360 GCATAGGTCATTCAGTTGTCTAGAGA 60.183 42.308 0.00 0.00 0.00 3.10
3466 4290 5.982516 GCATAGGTCATTCAGTTGTCTAGAG 59.017 44.000 0.00 0.00 0.00 2.43
3467 4291 5.163405 GGCATAGGTCATTCAGTTGTCTAGA 60.163 44.000 0.00 0.00 0.00 2.43
3468 4292 5.053145 GGCATAGGTCATTCAGTTGTCTAG 58.947 45.833 0.00 0.00 0.00 2.43
3469 4293 4.469586 TGGCATAGGTCATTCAGTTGTCTA 59.530 41.667 0.00 0.00 0.00 2.59
3470 4294 3.264193 TGGCATAGGTCATTCAGTTGTCT 59.736 43.478 0.00 0.00 0.00 3.41
3471 4295 3.375299 GTGGCATAGGTCATTCAGTTGTC 59.625 47.826 0.00 0.00 0.00 3.18
3472 4296 3.347216 GTGGCATAGGTCATTCAGTTGT 58.653 45.455 0.00 0.00 0.00 3.32
3481 4305 0.613572 TCTGACGGTGGCATAGGTCA 60.614 55.000 14.59 14.59 37.77 4.02
3483 4307 1.134401 CATTCTGACGGTGGCATAGGT 60.134 52.381 0.00 0.00 0.00 3.08
3503 4327 3.812053 ACTCAACAACTCATCAGCAACTC 59.188 43.478 0.00 0.00 0.00 3.01
3504 4328 3.812053 GACTCAACAACTCATCAGCAACT 59.188 43.478 0.00 0.00 0.00 3.16
3507 4331 2.407090 CGACTCAACAACTCATCAGCA 58.593 47.619 0.00 0.00 0.00 4.41
3546 4371 1.454653 GTTGTCGTCGAAGTGGTAAGC 59.545 52.381 0.00 0.00 0.00 3.09
3549 4374 1.001048 CCAGTTGTCGTCGAAGTGGTA 60.001 52.381 11.25 0.00 38.59 3.25
3555 4380 2.620115 AGACTTACCAGTTGTCGTCGAA 59.380 45.455 0.00 0.00 34.47 3.71
3560 4385 4.748102 TGCTTAAAGACTTACCAGTTGTCG 59.252 41.667 0.00 0.00 36.01 4.35
3570 4395 2.038033 AGGGCACGTGCTTAAAGACTTA 59.962 45.455 36.84 0.00 41.70 2.24
3578 4403 0.108329 GCTCTTAGGGCACGTGCTTA 60.108 55.000 36.84 26.14 41.70 3.09
3579 4404 1.376037 GCTCTTAGGGCACGTGCTT 60.376 57.895 36.84 27.13 41.70 3.91
3642 4467 3.502211 CGGCAGCTAATTTGGTATTAGGG 59.498 47.826 0.00 0.00 33.44 3.53
3646 4471 2.374184 TGCGGCAGCTAATTTGGTATT 58.626 42.857 10.92 0.00 45.42 1.89
3657 4482 0.474184 AGGGTAAATATGCGGCAGCT 59.526 50.000 10.92 0.00 45.42 4.24
3660 4485 2.440253 AGGTTAGGGTAAATATGCGGCA 59.560 45.455 4.58 4.58 0.00 5.69
3666 4491 2.289257 GCGGCGAGGTTAGGGTAAATAT 60.289 50.000 12.98 0.00 0.00 1.28
3707 4532 8.299570 ACAGATTCAACAAAACTATAGCAAAGG 58.700 33.333 0.00 0.00 0.00 3.11
3710 4535 8.296713 GGAACAGATTCAACAAAACTATAGCAA 58.703 33.333 0.00 0.00 36.46 3.91
3716 4541 7.340743 TCCTTTGGAACAGATTCAACAAAACTA 59.659 33.333 0.00 0.00 42.39 2.24
3810 4635 5.601313 TGGCTAGTAGATAGGTTAGGGTTTG 59.399 44.000 0.00 0.00 31.55 2.93
3838 4663 1.002069 ATGGGAATCCTTGTGCCTCA 58.998 50.000 0.00 0.00 0.00 3.86


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

AutoCloner maintained by Alex Coulton.