Multiple sequence alignment - TraesCS6B01G022000

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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 TraesCS6B01G022000 chr6B 100.000 3158 0 0 1 3158 13952632 13949475 0.000000e+00 5832
1 TraesCS6B01G022000 chr6B 83.500 1400 207 23 950 2332 39311023 39312415 0.000000e+00 1284
2 TraesCS6B01G022000 chr6B 80.828 1570 259 31 965 2510 14455067 14453516 0.000000e+00 1194
3 TraesCS6B01G022000 chr6B 82.363 1219 184 29 967 2166 39326105 39327311 0.000000e+00 1031
4 TraesCS6B01G022000 chr6B 80.144 1249 210 31 961 2185 14323482 14324716 0.000000e+00 898
5 TraesCS6B01G022000 chr6B 75.719 1322 272 39 960 2249 26488566 26489870 4.480000e-173 617
6 TraesCS6B01G022000 chr6A 91.211 1900 100 16 799 2689 7395755 7393914 0.000000e+00 2521
7 TraesCS6B01G022000 chr6A 76.578 1204 250 29 978 2163 15925258 15924069 1.600000e-177 632
8 TraesCS6B01G022000 chr6D 91.137 1478 88 18 700 2175 7485049 7483613 0.000000e+00 1964
9 TraesCS6B01G022000 chr6D 89.302 1346 138 6 915 2257 7477247 7475905 0.000000e+00 1683
10 TraesCS6B01G022000 chr6D 83.908 1305 190 18 1041 2332 7651580 7652877 0.000000e+00 1229
11 TraesCS6B01G022000 chr6D 81.575 1384 217 27 955 2320 7424115 7422752 0.000000e+00 1109
12 TraesCS6B01G022000 chr6D 76.795 1323 259 38 957 2249 14483655 14484959 0.000000e+00 699
13 TraesCS6B01G022000 chr6D 87.572 523 56 7 121 640 7500285 7499769 5.830000e-167 597
14 TraesCS6B01G022000 chr6D 87.380 523 57 7 121 640 7490942 7490426 2.710000e-165 592
15 TraesCS6B01G022000 chr6D 97.270 293 8 0 2866 3158 7475871 7475579 6.080000e-137 497
16 TraesCS6B01G022000 chr6D 88.778 401 40 3 242 637 7485657 7485257 1.320000e-133 486
17 TraesCS6B01G022000 chr6D 87.402 254 28 3 388 640 7494604 7494354 3.990000e-74 289
18 TraesCS6B01G022000 chr6D 86.740 181 21 3 2980 3158 7455204 7455025 6.910000e-47 198
19 TraesCS6B01G022000 chr2B 89.247 93 9 1 2763 2855 519667141 519667232 7.160000e-22 115


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 TraesCS6B01G022000 chr6B 13949475 13952632 3157 True 5832.0 5832 100.0000 1 3158 1 chr6B.!!$R1 3157
1 TraesCS6B01G022000 chr6B 39311023 39312415 1392 False 1284.0 1284 83.5000 950 2332 1 chr6B.!!$F3 1382
2 TraesCS6B01G022000 chr6B 14453516 14455067 1551 True 1194.0 1194 80.8280 965 2510 1 chr6B.!!$R2 1545
3 TraesCS6B01G022000 chr6B 39326105 39327311 1206 False 1031.0 1031 82.3630 967 2166 1 chr6B.!!$F4 1199
4 TraesCS6B01G022000 chr6B 14323482 14324716 1234 False 898.0 898 80.1440 961 2185 1 chr6B.!!$F1 1224
5 TraesCS6B01G022000 chr6B 26488566 26489870 1304 False 617.0 617 75.7190 960 2249 1 chr6B.!!$F2 1289
6 TraesCS6B01G022000 chr6A 7393914 7395755 1841 True 2521.0 2521 91.2110 799 2689 1 chr6A.!!$R1 1890
7 TraesCS6B01G022000 chr6A 15924069 15925258 1189 True 632.0 632 76.5780 978 2163 1 chr6A.!!$R2 1185
8 TraesCS6B01G022000 chr6D 7651580 7652877 1297 False 1229.0 1229 83.9080 1041 2332 1 chr6D.!!$F1 1291
9 TraesCS6B01G022000 chr6D 7483613 7485657 2044 True 1225.0 1964 89.9575 242 2175 2 chr6D.!!$R5 1933
10 TraesCS6B01G022000 chr6D 7422752 7424115 1363 True 1109.0 1109 81.5750 955 2320 1 chr6D.!!$R1 1365
11 TraesCS6B01G022000 chr6D 7475579 7477247 1668 True 1090.0 1683 93.2860 915 3158 2 chr6D.!!$R4 2243
12 TraesCS6B01G022000 chr6D 14483655 14484959 1304 False 699.0 699 76.7950 957 2249 1 chr6D.!!$F2 1292
13 TraesCS6B01G022000 chr6D 7499769 7500285 516 True 597.0 597 87.5720 121 640 1 chr6D.!!$R3 519
14 TraesCS6B01G022000 chr6D 7490426 7494604 4178 True 440.5 592 87.3910 121 640 2 chr6D.!!$R6 519

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
882 4578 1.264045 TTAAAGCCCAGCCCATTGCC 61.264 55.0 0.0 0.0 42.71 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2642 6392 0.179009 TGCTGATCATGCTTAGGCCC 60.179 55.0 15.2 0.0 37.74 5.8 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
28 29 7.961325 AATCAGTTCGGCAATTTTTAACATT 57.039 28.000 0.00 0.00 0.00 2.71
29 30 7.961325 ATCAGTTCGGCAATTTTTAACATTT 57.039 28.000 0.00 0.00 0.00 2.32
30 31 9.482627 AATCAGTTCGGCAATTTTTAACATTTA 57.517 25.926 0.00 0.00 0.00 1.40
35 36 9.245284 GTTCGGCAATTTTTAACATTTAATTCG 57.755 29.630 0.00 0.00 0.00 3.34
38 39 9.965748 CGGCAATTTTTAACATTTAATTCGATT 57.034 25.926 0.00 0.00 0.00 3.34
66 67 8.835467 TCAGTGCATTATAAGTTAAAATTCGC 57.165 30.769 0.00 0.00 0.00 4.70
67 68 8.673711 TCAGTGCATTATAAGTTAAAATTCGCT 58.326 29.630 0.00 0.00 0.00 4.93
68 69 9.929722 CAGTGCATTATAAGTTAAAATTCGCTA 57.070 29.630 0.00 0.00 0.00 4.26
84 85 9.916397 AAAATTCGCTAATTAGAATTGACGTAG 57.084 29.630 16.85 0.00 43.72 3.51
85 86 8.867112 AATTCGCTAATTAGAATTGACGTAGA 57.133 30.769 16.85 1.61 43.12 2.59
86 87 7.909777 TTCGCTAATTAGAATTGACGTAGAG 57.090 36.000 16.85 0.00 32.99 2.43
87 88 5.913514 TCGCTAATTAGAATTGACGTAGAGC 59.086 40.000 16.85 0.00 32.99 4.09
88 89 5.117287 CGCTAATTAGAATTGACGTAGAGCC 59.883 44.000 16.85 0.00 0.00 4.70
89 90 5.983720 GCTAATTAGAATTGACGTAGAGCCA 59.016 40.000 16.85 0.00 0.00 4.75
90 91 6.479001 GCTAATTAGAATTGACGTAGAGCCAA 59.521 38.462 16.85 0.00 0.00 4.52
91 92 7.171678 GCTAATTAGAATTGACGTAGAGCCAAT 59.828 37.037 16.85 0.00 32.46 3.16
93 94 4.207891 AGAATTGACGTAGAGCCAATGT 57.792 40.909 0.71 0.00 31.62 2.71
94 95 4.579869 AGAATTGACGTAGAGCCAATGTT 58.420 39.130 0.71 0.00 31.62 2.71
95 96 4.393062 AGAATTGACGTAGAGCCAATGTTG 59.607 41.667 0.71 0.00 31.62 3.33
97 98 3.120321 TGACGTAGAGCCAATGTTGTT 57.880 42.857 0.00 0.00 0.00 2.83
98 99 3.064207 TGACGTAGAGCCAATGTTGTTC 58.936 45.455 0.00 0.00 0.00 3.18
99 100 3.064207 GACGTAGAGCCAATGTTGTTCA 58.936 45.455 0.00 0.00 0.00 3.18
100 101 3.472652 ACGTAGAGCCAATGTTGTTCAA 58.527 40.909 0.00 0.00 0.00 2.69
101 102 3.250040 ACGTAGAGCCAATGTTGTTCAAC 59.750 43.478 8.52 8.52 0.00 3.18
102 103 3.364964 CGTAGAGCCAATGTTGTTCAACC 60.365 47.826 12.23 0.00 0.00 3.77
103 104 2.665165 AGAGCCAATGTTGTTCAACCA 58.335 42.857 12.23 2.70 0.00 3.67
104 105 3.030291 AGAGCCAATGTTGTTCAACCAA 58.970 40.909 12.23 0.00 0.00 3.67
105 106 3.450457 AGAGCCAATGTTGTTCAACCAAA 59.550 39.130 12.23 0.00 0.00 3.28
106 107 4.081198 AGAGCCAATGTTGTTCAACCAAAA 60.081 37.500 12.23 0.00 0.00 2.44
108 109 5.192176 AGCCAATGTTGTTCAACCAAAAAT 58.808 33.333 12.23 0.00 0.00 1.82
109 110 5.066246 AGCCAATGTTGTTCAACCAAAAATG 59.934 36.000 12.23 3.91 0.00 2.32
111 112 5.587844 CCAATGTTGTTCAACCAAAAATGGA 59.412 36.000 12.23 0.00 30.10 3.41
112 113 6.458070 CCAATGTTGTTCAACCAAAAATGGAC 60.458 38.462 12.23 0.00 30.10 4.02
113 114 4.508662 TGTTGTTCAACCAAAAATGGACC 58.491 39.130 12.23 0.00 0.00 4.46
114 115 4.223923 TGTTGTTCAACCAAAAATGGACCT 59.776 37.500 12.23 0.00 0.00 3.85
115 116 5.422331 TGTTGTTCAACCAAAAATGGACCTA 59.578 36.000 12.23 0.00 0.00 3.08
116 117 6.098982 TGTTGTTCAACCAAAAATGGACCTAT 59.901 34.615 12.23 0.00 0.00 2.57
117 118 7.287927 TGTTGTTCAACCAAAAATGGACCTATA 59.712 33.333 12.23 0.00 0.00 1.31
119 120 7.891561 TGTTCAACCAAAAATGGACCTATAAG 58.108 34.615 1.10 0.00 0.00 1.73
120 121 7.507616 TGTTCAACCAAAAATGGACCTATAAGT 59.492 33.333 1.10 0.00 0.00 2.24
121 122 7.461182 TCAACCAAAAATGGACCTATAAGTG 57.539 36.000 1.10 0.00 0.00 3.16
122 123 6.435904 TCAACCAAAAATGGACCTATAAGTGG 59.564 38.462 1.10 0.00 0.00 4.00
123 124 6.147437 ACCAAAAATGGACCTATAAGTGGA 57.853 37.500 1.10 0.00 0.00 4.02
124 125 6.557568 ACCAAAAATGGACCTATAAGTGGAA 58.442 36.000 1.10 0.00 0.00 3.53
217 3760 8.426489 AGTGTAGTTAGTTAGACAATGAACCAA 58.574 33.333 0.00 0.00 0.00 3.67
231 3774 8.275015 ACAATGAACCAAATGACGATAATGTA 57.725 30.769 0.00 0.00 0.00 2.29
233 3776 9.566530 CAATGAACCAAATGACGATAATGTAAA 57.433 29.630 0.00 0.00 0.00 2.01
386 3931 1.341852 ACATTTAAACCCAACCCGTGC 59.658 47.619 0.00 0.00 0.00 5.34
480 4025 9.930693 GTCTGTATCTTTAAATATCCTGGTAGG 57.069 37.037 0.00 0.00 36.46 3.18
494 4039 3.689649 CCTGGTAGGGATATTTAATGCGC 59.310 47.826 0.00 0.00 0.00 6.09
507 4052 5.455056 TTTAATGCGCCCAGTTCTAAAAA 57.545 34.783 4.18 0.00 0.00 1.94
609 4157 4.573900 CTTTGGTGTGACTCATTAGCTCT 58.426 43.478 0.00 0.00 0.00 4.09
640 4189 7.489239 TGTTTTTATCCATTTTCCCTTAGGG 57.511 36.000 11.94 11.94 46.11 3.53
642 4191 7.179516 TGTTTTTATCCATTTTCCCTTAGGGTC 59.820 37.037 18.01 0.00 44.74 4.46
647 4261 4.853276 TCCATTTTCCCTTAGGGTCAAGTA 59.147 41.667 18.01 0.00 44.74 2.24
651 4265 5.853572 TTTCCCTTAGGGTCAAGTATGTT 57.146 39.130 18.01 0.00 44.74 2.71
670 4284 9.627395 AGTATGTTTGACATATATTAGCGAGTC 57.373 33.333 4.29 0.00 42.39 3.36
686 4300 9.862371 ATTAGCGAGTCTAATAATCCAGTTATG 57.138 33.333 0.00 0.00 44.08 1.90
687 4301 8.304596 TTAGCGAGTCTAATAATCCAGTTATGG 58.695 37.037 0.00 0.00 38.89 2.74
704 4398 7.231317 CCAGTTATGGCCAGTGTATATTTTCAT 59.769 37.037 13.05 0.00 40.52 2.57
735 4429 9.781834 ATTTCTCGCATGATTACGATTTAAAAA 57.218 25.926 0.00 0.00 37.72 1.94
738 4432 6.763101 TCGCATGATTACGATTTAAAAACGA 58.237 32.000 19.58 4.38 32.45 3.85
780 4474 2.905075 TCAGTTGTGGCTCAATATCGG 58.095 47.619 5.18 0.00 38.38 4.18
790 4484 5.527582 GTGGCTCAATATCGGTTGACTATTT 59.472 40.000 0.00 0.00 34.58 1.40
791 4485 6.038271 GTGGCTCAATATCGGTTGACTATTTT 59.962 38.462 0.00 0.00 34.58 1.82
792 4486 6.038161 TGGCTCAATATCGGTTGACTATTTTG 59.962 38.462 0.00 0.00 34.58 2.44
794 4488 6.238484 GCTCAATATCGGTTGACTATTTTGCT 60.238 38.462 0.00 0.00 34.58 3.91
795 4489 7.624360 TCAATATCGGTTGACTATTTTGCTT 57.376 32.000 0.00 0.00 33.41 3.91
882 4578 1.264045 TTAAAGCCCAGCCCATTGCC 61.264 55.000 0.00 0.00 42.71 4.52
895 4591 1.446907 CATTGCCACAGAGACTGGAC 58.553 55.000 0.00 0.00 35.51 4.02
904 4600 4.019858 CACAGAGACTGGACCAGAGAATA 58.980 47.826 28.56 0.00 35.51 1.75
928 4624 3.273919 AGAAAACAAATCTGCACGAGC 57.726 42.857 0.00 0.00 42.57 5.03
1048 4768 0.540830 CCACCTCCTATCCTCTCCCG 60.541 65.000 0.00 0.00 0.00 5.14
1136 4868 3.181967 CGGCTTCGAAGTGGAGCG 61.182 66.667 25.24 5.44 35.61 5.03
1434 5166 4.409588 CGCCGCAAGAACGTCGTG 62.410 66.667 0.00 0.00 43.02 4.35
1525 5263 0.179194 GTTCCTTCTCTCCGTCGACG 60.179 60.000 30.33 30.33 39.44 5.12
1580 5318 2.584608 GGAGTGCGGGCTATGTGT 59.415 61.111 0.00 0.00 0.00 3.72
1587 5325 2.514013 CGGGCTATGTGTTCGCGAC 61.514 63.158 9.15 4.85 38.22 5.19
1597 5335 1.154225 GTTCGCGACATTGCCAAGG 60.154 57.895 9.15 0.00 0.00 3.61
1632 5370 1.070445 GAGGATCATCACCGCCAGG 59.930 63.158 1.71 0.00 38.34 4.45
1788 5526 0.321653 AGAAGACATTGCGGTGGTCC 60.322 55.000 0.00 0.00 31.99 4.46
1842 5580 1.373497 GACTGTGCTGAGGTGGTCG 60.373 63.158 0.00 0.00 0.00 4.79
2009 5747 3.795623 AAATGGATTGCTGAGTCATGC 57.204 42.857 0.00 0.20 0.00 4.06
2164 5902 7.636150 AGATTCAGATTTACATGAACCAAGG 57.364 36.000 0.00 0.00 38.19 3.61
2169 5907 5.707298 CAGATTTACATGAACCAAGGACAGT 59.293 40.000 0.00 0.00 0.00 3.55
2178 5916 5.551233 TGAACCAAGGACAGTCTATGAAAG 58.449 41.667 0.00 0.00 0.00 2.62
2239 5979 6.346598 CGTCGTATTAAGCTGGTAATTCATGG 60.347 42.308 0.00 0.00 0.00 3.66
2327 6068 5.658190 ACTTGATTTCTGAACCCCAATATGG 59.342 40.000 0.00 0.00 37.25 2.74
2449 6192 8.981724 TGTTCTGTCATATGTCAGTTAGTTAC 57.018 34.615 23.46 15.04 33.84 2.50
2462 6205 8.148351 TGTCAGTTAGTTACTACTGAAATTGCT 58.852 33.333 18.76 0.00 40.37 3.91
2472 6215 7.744087 ACTACTGAAATTGCTGTTCATTGTA 57.256 32.000 0.70 0.00 34.59 2.41
2528 6272 8.532977 TTCTATTGGGTGTACGTTTACTTTAC 57.467 34.615 0.00 0.00 0.00 2.01
2529 6273 7.665690 TCTATTGGGTGTACGTTTACTTTACA 58.334 34.615 0.00 0.00 0.00 2.41
2530 6274 8.313292 TCTATTGGGTGTACGTTTACTTTACAT 58.687 33.333 0.00 0.00 0.00 2.29
2550 6294 5.332743 ACATCTTTGATTTCTTGGCCCTTA 58.667 37.500 0.00 0.00 0.00 2.69
2575 6320 5.305585 TCTTCGAGGCTGATTAGTTTTGTT 58.694 37.500 0.00 0.00 0.00 2.83
2597 6342 8.418597 TGTTACTAGATCTTGTAGTTGACCTT 57.581 34.615 15.13 0.00 32.81 3.50
2598 6343 8.304596 TGTTACTAGATCTTGTAGTTGACCTTG 58.695 37.037 15.13 0.00 32.81 3.61
2599 6344 5.725362 ACTAGATCTTGTAGTTGACCTTGC 58.275 41.667 8.12 0.00 0.00 4.01
2601 6346 6.663953 ACTAGATCTTGTAGTTGACCTTGCTA 59.336 38.462 8.12 0.00 0.00 3.49
2602 6347 6.360370 AGATCTTGTAGTTGACCTTGCTAA 57.640 37.500 0.00 0.00 0.00 3.09
2607 6357 7.051623 TCTTGTAGTTGACCTTGCTAAGAAAA 58.948 34.615 0.00 0.00 0.00 2.29
2609 6359 7.817418 TGTAGTTGACCTTGCTAAGAAAAAT 57.183 32.000 0.00 0.00 0.00 1.82
2642 6392 2.178912 ACGTAACCAATGTGGGAGTG 57.821 50.000 0.00 0.00 43.37 3.51
2645 6395 0.039035 TAACCAATGTGGGAGTGGGC 59.961 55.000 0.00 0.00 44.69 5.36
2680 6430 7.137490 TCAGCAAATGAAGTTGTCTTATCAG 57.863 36.000 0.00 0.00 34.02 2.90
2683 6433 7.536622 CAGCAAATGAAGTTGTCTTATCAGTTC 59.463 37.037 0.00 0.00 33.64 3.01
2689 6439 7.598278 TGAAGTTGTCTTATCAGTTCTCTCTC 58.402 38.462 0.00 0.00 33.64 3.20
2690 6440 7.450014 TGAAGTTGTCTTATCAGTTCTCTCTCT 59.550 37.037 0.00 0.00 33.64 3.10
2691 6441 7.391148 AGTTGTCTTATCAGTTCTCTCTCTC 57.609 40.000 0.00 0.00 0.00 3.20
2692 6442 6.945435 AGTTGTCTTATCAGTTCTCTCTCTCA 59.055 38.462 0.00 0.00 0.00 3.27
2693 6443 7.615365 AGTTGTCTTATCAGTTCTCTCTCTCAT 59.385 37.037 0.00 0.00 0.00 2.90
2694 6444 7.953005 TGTCTTATCAGTTCTCTCTCTCATT 57.047 36.000 0.00 0.00 0.00 2.57
2695 6445 9.467796 TTGTCTTATCAGTTCTCTCTCTCATTA 57.532 33.333 0.00 0.00 0.00 1.90
2696 6446 9.467796 TGTCTTATCAGTTCTCTCTCTCATTAA 57.532 33.333 0.00 0.00 0.00 1.40
2701 6451 7.709149 TCAGTTCTCTCTCTCATTAATGTCA 57.291 36.000 14.97 2.59 0.00 3.58
2702 6452 7.770201 TCAGTTCTCTCTCTCATTAATGTCAG 58.230 38.462 14.97 11.58 0.00 3.51
2703 6453 7.613411 TCAGTTCTCTCTCTCATTAATGTCAGA 59.387 37.037 14.97 14.68 0.00 3.27
2704 6454 8.249638 CAGTTCTCTCTCTCATTAATGTCAGAA 58.750 37.037 14.97 10.79 0.00 3.02
2705 6455 8.250332 AGTTCTCTCTCTCATTAATGTCAGAAC 58.750 37.037 14.97 18.87 0.00 3.01
2706 6456 7.953005 TCTCTCTCTCATTAATGTCAGAACT 57.047 36.000 14.97 0.00 0.00 3.01
2707 6457 8.359875 TCTCTCTCTCATTAATGTCAGAACTT 57.640 34.615 14.97 0.00 0.00 2.66
2708 6458 9.467796 TCTCTCTCTCATTAATGTCAGAACTTA 57.532 33.333 14.97 3.92 0.00 2.24
2719 6469 9.567776 TTAATGTCAGAACTTAATCAACAAGGA 57.432 29.630 0.00 0.00 0.00 3.36
2720 6470 8.641498 AATGTCAGAACTTAATCAACAAGGAT 57.359 30.769 0.00 0.00 0.00 3.24
2721 6471 7.439157 TGTCAGAACTTAATCAACAAGGATG 57.561 36.000 0.00 0.00 0.00 3.51
2722 6472 6.430925 TGTCAGAACTTAATCAACAAGGATGG 59.569 38.462 0.00 0.00 0.00 3.51
2723 6473 6.431234 GTCAGAACTTAATCAACAAGGATGGT 59.569 38.462 0.00 0.00 0.00 3.55
2724 6474 7.606456 GTCAGAACTTAATCAACAAGGATGGTA 59.394 37.037 0.00 0.00 0.00 3.25
2725 6475 8.328758 TCAGAACTTAATCAACAAGGATGGTAT 58.671 33.333 0.00 0.00 0.00 2.73
2726 6476 8.400947 CAGAACTTAATCAACAAGGATGGTATG 58.599 37.037 0.00 0.00 0.00 2.39
2727 6477 8.109634 AGAACTTAATCAACAAGGATGGTATGT 58.890 33.333 0.00 0.00 0.00 2.29
2728 6478 9.391006 GAACTTAATCAACAAGGATGGTATGTA 57.609 33.333 0.00 0.00 0.00 2.29
2729 6479 9.747898 AACTTAATCAACAAGGATGGTATGTAA 57.252 29.630 0.00 0.00 0.00 2.41
2730 6480 9.920946 ACTTAATCAACAAGGATGGTATGTAAT 57.079 29.630 0.00 0.00 0.00 1.89
2754 6504 8.721133 ATAGTAAAAAGAAAAACAGGGATGGT 57.279 30.769 0.00 0.00 0.00 3.55
2755 6505 9.816787 ATAGTAAAAAGAAAAACAGGGATGGTA 57.183 29.630 0.00 0.00 0.00 3.25
2756 6506 8.721133 AGTAAAAAGAAAAACAGGGATGGTAT 57.279 30.769 0.00 0.00 0.00 2.73
2757 6507 8.585018 AGTAAAAAGAAAAACAGGGATGGTATG 58.415 33.333 0.00 0.00 0.00 2.39
2758 6508 6.994421 AAAAGAAAAACAGGGATGGTATGT 57.006 33.333 0.00 0.00 0.00 2.29
2759 6509 6.590234 AAAGAAAAACAGGGATGGTATGTC 57.410 37.500 0.00 0.00 0.00 3.06
2760 6510 4.261801 AGAAAAACAGGGATGGTATGTCG 58.738 43.478 0.00 0.00 0.00 4.35
2761 6511 3.713826 AAAACAGGGATGGTATGTCGT 57.286 42.857 0.00 0.00 0.00 4.34
2762 6512 2.981859 AACAGGGATGGTATGTCGTC 57.018 50.000 0.00 0.00 0.00 4.20
2763 6513 2.160721 ACAGGGATGGTATGTCGTCT 57.839 50.000 0.00 0.00 0.00 4.18
2764 6514 2.467880 ACAGGGATGGTATGTCGTCTT 58.532 47.619 0.00 0.00 0.00 3.01
2765 6515 3.638860 ACAGGGATGGTATGTCGTCTTA 58.361 45.455 0.00 0.00 0.00 2.10
2766 6516 4.223953 ACAGGGATGGTATGTCGTCTTAT 58.776 43.478 0.00 0.00 0.00 1.73
2767 6517 4.281182 ACAGGGATGGTATGTCGTCTTATC 59.719 45.833 0.00 0.00 0.00 1.75
2768 6518 4.280929 CAGGGATGGTATGTCGTCTTATCA 59.719 45.833 0.00 0.00 0.00 2.15
2769 6519 5.047021 CAGGGATGGTATGTCGTCTTATCAT 60.047 44.000 1.88 1.88 30.87 2.45
2770 6520 6.152831 CAGGGATGGTATGTCGTCTTATCATA 59.847 42.308 2.21 0.00 29.17 2.15
2771 6521 6.897966 AGGGATGGTATGTCGTCTTATCATAT 59.102 38.462 2.21 0.00 29.17 1.78
2772 6522 7.068839 AGGGATGGTATGTCGTCTTATCATATC 59.931 40.741 2.21 0.00 29.17 1.63
2773 6523 7.068839 GGGATGGTATGTCGTCTTATCATATCT 59.931 40.741 2.21 0.00 29.17 1.98
2774 6524 8.132362 GGATGGTATGTCGTCTTATCATATCTC 58.868 40.741 2.21 0.00 29.17 2.75
2775 6525 8.815565 ATGGTATGTCGTCTTATCATATCTCT 57.184 34.615 0.58 0.00 0.00 3.10
2776 6526 8.270080 TGGTATGTCGTCTTATCATATCTCTC 57.730 38.462 0.00 0.00 0.00 3.20
2777 6527 8.103935 TGGTATGTCGTCTTATCATATCTCTCT 58.896 37.037 0.00 0.00 0.00 3.10
2778 6528 8.394877 GGTATGTCGTCTTATCATATCTCTCTG 58.605 40.741 0.00 0.00 0.00 3.35
2779 6529 6.247727 TGTCGTCTTATCATATCTCTCTGC 57.752 41.667 0.00 0.00 0.00 4.26
2780 6530 6.000840 TGTCGTCTTATCATATCTCTCTGCT 58.999 40.000 0.00 0.00 0.00 4.24
2781 6531 7.162082 TGTCGTCTTATCATATCTCTCTGCTA 58.838 38.462 0.00 0.00 0.00 3.49
2782 6532 7.826744 TGTCGTCTTATCATATCTCTCTGCTAT 59.173 37.037 0.00 0.00 0.00 2.97
2783 6533 8.673711 GTCGTCTTATCATATCTCTCTGCTATT 58.326 37.037 0.00 0.00 0.00 1.73
2784 6534 8.672815 TCGTCTTATCATATCTCTCTGCTATTG 58.327 37.037 0.00 0.00 0.00 1.90
2785 6535 8.672815 CGTCTTATCATATCTCTCTGCTATTGA 58.327 37.037 0.00 0.00 0.00 2.57
2786 6536 9.787532 GTCTTATCATATCTCTCTGCTATTGAC 57.212 37.037 0.00 0.00 0.00 3.18
2787 6537 9.752228 TCTTATCATATCTCTCTGCTATTGACT 57.248 33.333 0.00 0.00 0.00 3.41
2788 6538 9.791820 CTTATCATATCTCTCTGCTATTGACTG 57.208 37.037 0.00 0.00 0.00 3.51
2789 6539 6.023357 TCATATCTCTCTGCTATTGACTGC 57.977 41.667 0.00 0.00 0.00 4.40
2790 6540 5.537674 TCATATCTCTCTGCTATTGACTGCA 59.462 40.000 0.00 0.00 37.63 4.41
2791 6541 4.959560 ATCTCTCTGCTATTGACTGCAT 57.040 40.909 0.00 0.00 38.59 3.96
2792 6542 4.056092 TCTCTCTGCTATTGACTGCATG 57.944 45.455 0.00 0.00 38.59 4.06
2793 6543 2.544686 CTCTCTGCTATTGACTGCATGC 59.455 50.000 11.82 11.82 38.59 4.06
2794 6544 2.093341 TCTCTGCTATTGACTGCATGCA 60.093 45.455 21.29 21.29 38.59 3.96
2795 6545 2.879026 CTCTGCTATTGACTGCATGCAT 59.121 45.455 22.97 11.62 38.59 3.96
2796 6546 4.062991 CTCTGCTATTGACTGCATGCATA 58.937 43.478 22.97 9.36 38.59 3.14
2797 6547 4.648651 TCTGCTATTGACTGCATGCATAT 58.351 39.130 22.97 12.93 38.59 1.78
2798 6548 4.454504 TCTGCTATTGACTGCATGCATATG 59.545 41.667 22.97 12.59 38.59 1.78
2799 6549 4.391155 TGCTATTGACTGCATGCATATGA 58.609 39.130 22.97 8.61 36.36 2.15
2800 6550 5.007682 TGCTATTGACTGCATGCATATGAT 58.992 37.500 22.97 15.11 36.36 2.45
2801 6551 6.174760 TGCTATTGACTGCATGCATATGATA 58.825 36.000 22.97 15.41 36.36 2.15
2802 6552 6.093082 TGCTATTGACTGCATGCATATGATAC 59.907 38.462 22.97 8.44 36.36 2.24
2803 6553 6.315642 GCTATTGACTGCATGCATATGATACT 59.684 38.462 22.97 4.25 36.36 2.12
2804 6554 7.148289 GCTATTGACTGCATGCATATGATACTT 60.148 37.037 22.97 3.09 36.36 2.24
2805 6555 6.947644 TTGACTGCATGCATATGATACTTT 57.052 33.333 22.97 0.00 36.36 2.66
2806 6556 8.625786 ATTGACTGCATGCATATGATACTTTA 57.374 30.769 22.97 0.00 36.36 1.85
2807 6557 8.625786 TTGACTGCATGCATATGATACTTTAT 57.374 30.769 22.97 0.00 36.36 1.40
2808 6558 8.260270 TGACTGCATGCATATGATACTTTATC 57.740 34.615 22.97 1.51 36.36 1.75
2809 6559 8.098912 TGACTGCATGCATATGATACTTTATCT 58.901 33.333 22.97 0.00 36.36 1.98
2810 6560 9.591792 GACTGCATGCATATGATACTTTATCTA 57.408 33.333 22.97 0.00 36.36 1.98
2827 6577 9.090692 ACTTTATCTATTCACAAAATTGCATGC 57.909 29.630 11.82 11.82 0.00 4.06
2828 6578 8.999220 TTTATCTATTCACAAAATTGCATGCA 57.001 26.923 18.46 18.46 0.00 3.96
2829 6579 9.602568 TTTATCTATTCACAAAATTGCATGCAT 57.397 25.926 23.37 4.18 0.00 3.96
2832 6582 9.772973 ATCTATTCACAAAATTGCATGCATATT 57.227 25.926 23.37 19.42 0.00 1.28
2836 6586 7.716768 TCACAAAATTGCATGCATATTATGG 57.283 32.000 23.37 16.35 0.00 2.74
2837 6587 6.203145 TCACAAAATTGCATGCATATTATGGC 59.797 34.615 23.37 0.00 0.00 4.40
2838 6588 6.017852 CACAAAATTGCATGCATATTATGGCA 60.018 34.615 23.37 2.83 45.23 4.92
2839 6589 6.203915 ACAAAATTGCATGCATATTATGGCAG 59.796 34.615 23.37 11.92 44.24 4.85
2840 6590 3.306917 TTGCATGCATATTATGGCAGC 57.693 42.857 23.37 0.00 44.24 5.25
2841 6591 2.240279 TGCATGCATATTATGGCAGCA 58.760 42.857 18.46 0.00 44.24 4.41
2842 6592 2.628657 TGCATGCATATTATGGCAGCAA 59.371 40.909 18.46 0.00 44.24 3.91
2843 6593 3.250744 GCATGCATATTATGGCAGCAAG 58.749 45.455 14.21 0.00 44.24 4.01
2844 6594 3.305813 GCATGCATATTATGGCAGCAAGT 60.306 43.478 14.21 0.00 44.24 3.16
2845 6595 4.482386 CATGCATATTATGGCAGCAAGTC 58.518 43.478 0.00 0.00 44.24 3.01
2846 6596 3.824133 TGCATATTATGGCAGCAAGTCT 58.176 40.909 5.84 0.00 34.58 3.24
2847 6597 3.566742 TGCATATTATGGCAGCAAGTCTG 59.433 43.478 5.84 0.00 45.62 3.51
2848 6598 3.567164 GCATATTATGGCAGCAAGTCTGT 59.433 43.478 5.84 0.00 44.66 3.41
2856 6606 4.025015 GGCAGCAAGTCTGTCAATAATG 57.975 45.455 0.00 0.00 46.44 1.90
2857 6607 3.181493 GGCAGCAAGTCTGTCAATAATGG 60.181 47.826 0.00 0.00 46.44 3.16
2858 6608 3.441572 GCAGCAAGTCTGTCAATAATGGT 59.558 43.478 0.00 0.00 44.66 3.55
2859 6609 4.635765 GCAGCAAGTCTGTCAATAATGGTA 59.364 41.667 0.00 0.00 44.66 3.25
2860 6610 5.297776 GCAGCAAGTCTGTCAATAATGGTAT 59.702 40.000 0.00 0.00 44.66 2.73
2861 6611 6.722301 CAGCAAGTCTGTCAATAATGGTATG 58.278 40.000 0.00 0.00 38.02 2.39
2862 6612 6.317140 CAGCAAGTCTGTCAATAATGGTATGT 59.683 38.462 0.00 0.00 38.02 2.29
2863 6613 7.495606 CAGCAAGTCTGTCAATAATGGTATGTA 59.504 37.037 0.00 0.00 38.02 2.29
2864 6614 8.046708 AGCAAGTCTGTCAATAATGGTATGTAA 58.953 33.333 0.00 0.00 0.00 2.41
2865 6615 8.840321 GCAAGTCTGTCAATAATGGTATGTAAT 58.160 33.333 0.00 0.00 0.00 1.89
2880 6630 9.845740 ATGGTATGTAATAGTACTGAAATTGCA 57.154 29.630 5.39 7.80 31.33 4.08
2881 6631 9.325198 TGGTATGTAATAGTACTGAAATTGCAG 57.675 33.333 12.24 12.24 41.63 4.41
2885 6635 8.840833 TGTAATAGTACTGAAATTGCAGTTCA 57.159 30.769 24.19 10.19 46.42 3.18
2886 6636 9.448438 TGTAATAGTACTGAAATTGCAGTTCAT 57.552 29.630 24.19 12.66 46.42 2.57
2887 6637 9.922305 GTAATAGTACTGAAATTGCAGTTCATC 57.078 33.333 24.19 12.18 46.42 2.92
2888 6638 8.565896 AATAGTACTGAAATTGCAGTTCATCA 57.434 30.769 24.19 9.07 46.42 3.07
2889 6639 8.743085 ATAGTACTGAAATTGCAGTTCATCAT 57.257 30.769 24.19 10.79 46.42 2.45
2890 6640 7.458409 AGTACTGAAATTGCAGTTCATCATT 57.542 32.000 24.19 0.00 46.42 2.57
2891 6641 7.533426 AGTACTGAAATTGCAGTTCATCATTC 58.467 34.615 24.19 5.73 46.42 2.67
2892 6642 6.335471 ACTGAAATTGCAGTTCATCATTCA 57.665 33.333 13.76 4.04 46.42 2.57
2893 6643 6.387465 ACTGAAATTGCAGTTCATCATTCAG 58.613 36.000 13.76 14.15 46.42 3.02
2894 6644 6.015688 ACTGAAATTGCAGTTCATCATTCAGT 60.016 34.615 13.76 15.14 46.42 3.41
2895 6645 6.153756 TGAAATTGCAGTTCATCATTCAGTG 58.846 36.000 10.05 0.00 30.08 3.66
2896 6646 5.717078 AATTGCAGTTCATCATTCAGTGT 57.283 34.783 0.00 0.00 0.00 3.55
2897 6647 5.717078 ATTGCAGTTCATCATTCAGTGTT 57.283 34.783 0.00 0.00 0.00 3.32
2898 6648 5.518848 TTGCAGTTCATCATTCAGTGTTT 57.481 34.783 0.00 0.00 0.00 2.83
2899 6649 5.518848 TGCAGTTCATCATTCAGTGTTTT 57.481 34.783 0.00 0.00 0.00 2.43
2900 6650 5.283294 TGCAGTTCATCATTCAGTGTTTTG 58.717 37.500 0.00 0.00 0.00 2.44
2901 6651 5.067544 TGCAGTTCATCATTCAGTGTTTTGA 59.932 36.000 0.00 0.00 0.00 2.69
2902 6652 6.154445 GCAGTTCATCATTCAGTGTTTTGAT 58.846 36.000 0.00 0.00 0.00 2.57
2903 6653 6.643770 GCAGTTCATCATTCAGTGTTTTGATT 59.356 34.615 0.00 0.00 0.00 2.57
2904 6654 7.809331 GCAGTTCATCATTCAGTGTTTTGATTA 59.191 33.333 0.00 0.00 0.00 1.75
2905 6655 9.850628 CAGTTCATCATTCAGTGTTTTGATTAT 57.149 29.630 0.00 0.00 0.00 1.28
2906 6656 9.850628 AGTTCATCATTCAGTGTTTTGATTATG 57.149 29.630 0.00 0.00 0.00 1.90
2907 6657 8.589629 GTTCATCATTCAGTGTTTTGATTATGC 58.410 33.333 0.00 0.00 0.00 3.14
2908 6658 8.058667 TCATCATTCAGTGTTTTGATTATGCT 57.941 30.769 0.00 0.00 0.00 3.79
2909 6659 8.525316 TCATCATTCAGTGTTTTGATTATGCTT 58.475 29.630 0.00 0.00 0.00 3.91
2910 6660 9.791820 CATCATTCAGTGTTTTGATTATGCTTA 57.208 29.630 0.00 0.00 0.00 3.09
2912 6662 9.230122 TCATTCAGTGTTTTGATTATGCTTAGA 57.770 29.630 0.00 0.00 0.00 2.10
2913 6663 9.844790 CATTCAGTGTTTTGATTATGCTTAGAA 57.155 29.630 0.00 0.00 0.00 2.10
2959 6709 5.186603 TGTTTATTTTATGCCACCATCAGCA 59.813 36.000 0.00 0.00 44.45 4.41
2998 6748 3.386543 GCTCATCAGCGGGTAATGT 57.613 52.632 0.00 0.00 35.39 2.71
3081 6831 2.491022 GGATCGCTAGGTCACGGCT 61.491 63.158 0.00 0.00 0.00 5.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 8.873215 TTAAATGTTAAAAATTGCCGAACTGA 57.127 26.923 0.00 0.00 0.00 3.41
9 10 9.245284 CGAATTAAATGTTAAAAATTGCCGAAC 57.755 29.630 0.00 0.00 0.00 3.95
10 11 9.193133 TCGAATTAAATGTTAAAAATTGCCGAA 57.807 25.926 0.00 0.00 0.00 4.30
11 12 8.744008 TCGAATTAAATGTTAAAAATTGCCGA 57.256 26.923 0.00 0.00 0.00 5.54
12 13 9.965748 AATCGAATTAAATGTTAAAAATTGCCG 57.034 25.926 0.00 0.00 0.00 5.69
40 41 9.450807 GCGAATTTTAACTTATAATGCACTGAT 57.549 29.630 0.00 0.00 0.00 2.90
41 42 8.673711 AGCGAATTTTAACTTATAATGCACTGA 58.326 29.630 0.00 0.00 0.00 3.41
42 43 8.841444 AGCGAATTTTAACTTATAATGCACTG 57.159 30.769 0.00 0.00 0.00 3.66
58 59 9.916397 CTACGTCAATTCTAATTAGCGAATTTT 57.084 29.630 10.16 0.00 37.66 1.82
60 61 8.867112 TCTACGTCAATTCTAATTAGCGAATT 57.133 30.769 9.79 9.79 39.66 2.17
63 64 5.913514 GCTCTACGTCAATTCTAATTAGCGA 59.086 40.000 7.67 0.00 32.70 4.93
64 65 5.117287 GGCTCTACGTCAATTCTAATTAGCG 59.883 44.000 7.67 6.95 33.75 4.26
65 66 5.983720 TGGCTCTACGTCAATTCTAATTAGC 59.016 40.000 7.67 0.00 0.00 3.09
66 67 8.491152 CATTGGCTCTACGTCAATTCTAATTAG 58.509 37.037 6.11 6.11 45.27 1.73
67 68 7.985184 ACATTGGCTCTACGTCAATTCTAATTA 59.015 33.333 0.00 0.00 45.27 1.40
68 69 6.823689 ACATTGGCTCTACGTCAATTCTAATT 59.176 34.615 0.00 0.00 45.27 1.40
69 70 6.349300 ACATTGGCTCTACGTCAATTCTAAT 58.651 36.000 0.00 0.00 45.27 1.73
71 72 5.339008 ACATTGGCTCTACGTCAATTCTA 57.661 39.130 0.00 0.00 45.27 2.10
72 73 4.207891 ACATTGGCTCTACGTCAATTCT 57.792 40.909 0.00 0.00 45.27 2.40
74 75 4.072131 ACAACATTGGCTCTACGTCAATT 58.928 39.130 0.00 0.00 45.27 2.32
78 79 3.064207 TGAACAACATTGGCTCTACGTC 58.936 45.455 0.00 0.00 0.00 4.34
80 81 3.364964 GGTTGAACAACATTGGCTCTACG 60.365 47.826 17.43 0.00 42.85 3.51
81 82 3.568007 TGGTTGAACAACATTGGCTCTAC 59.432 43.478 17.43 0.54 42.85 2.59
84 85 3.451141 TTGGTTGAACAACATTGGCTC 57.549 42.857 17.43 1.63 42.85 4.70
85 86 3.902881 TTTGGTTGAACAACATTGGCT 57.097 38.095 17.43 0.00 42.85 4.75
86 87 4.954092 TTTTTGGTTGAACAACATTGGC 57.046 36.364 17.43 2.84 42.85 4.52
87 88 5.587844 TCCATTTTTGGTTGAACAACATTGG 59.412 36.000 17.43 12.45 42.85 3.16
88 89 6.458070 GGTCCATTTTTGGTTGAACAACATTG 60.458 38.462 17.43 5.69 42.85 2.82
89 90 5.588246 GGTCCATTTTTGGTTGAACAACATT 59.412 36.000 17.43 0.00 42.85 2.71
90 91 5.104569 AGGTCCATTTTTGGTTGAACAACAT 60.105 36.000 17.43 1.80 42.85 2.71
91 92 4.223923 AGGTCCATTTTTGGTTGAACAACA 59.776 37.500 17.43 3.61 42.85 3.33
93 94 6.739331 ATAGGTCCATTTTTGGTTGAACAA 57.261 33.333 0.00 0.00 0.00 2.83
94 95 7.507616 ACTTATAGGTCCATTTTTGGTTGAACA 59.492 33.333 0.00 0.00 0.00 3.18
95 96 7.812669 CACTTATAGGTCCATTTTTGGTTGAAC 59.187 37.037 0.00 0.00 0.00 3.18
97 98 6.435904 CCACTTATAGGTCCATTTTTGGTTGA 59.564 38.462 0.00 0.00 0.00 3.18
98 99 6.435904 TCCACTTATAGGTCCATTTTTGGTTG 59.564 38.462 0.00 0.00 0.00 3.77
99 100 6.557568 TCCACTTATAGGTCCATTTTTGGTT 58.442 36.000 0.00 0.00 0.00 3.67
100 101 6.147437 TCCACTTATAGGTCCATTTTTGGT 57.853 37.500 0.00 0.00 0.00 3.67
101 102 7.475137 TTTCCACTTATAGGTCCATTTTTGG 57.525 36.000 0.00 0.00 0.00 3.28
205 3748 7.250569 ACATTATCGTCATTTGGTTCATTGTC 58.749 34.615 0.00 0.00 0.00 3.18
327 3870 9.730420 GCATTGTACCAAAGAAACGAATATATT 57.270 29.630 0.00 0.00 0.00 1.28
328 3871 8.898761 TGCATTGTACCAAAGAAACGAATATAT 58.101 29.630 0.00 0.00 0.00 0.86
361 3905 5.184287 CACGGGTTGGGTTTAAATGTCTATT 59.816 40.000 0.00 0.00 0.00 1.73
367 3912 1.341531 TGCACGGGTTGGGTTTAAATG 59.658 47.619 0.00 0.00 0.00 2.32
380 3925 2.215907 TTTTGTCACATTTGCACGGG 57.784 45.000 0.00 0.00 0.00 5.28
386 3931 8.129161 TGTGCTTTCTTATTTTGTCACATTTG 57.871 30.769 0.00 0.00 0.00 2.32
480 4025 3.821033 AGAACTGGGCGCATTAAATATCC 59.179 43.478 10.83 0.00 0.00 2.59
484 4029 5.652994 TTTTAGAACTGGGCGCATTAAAT 57.347 34.783 10.83 0.00 0.00 1.40
661 4275 8.304596 CCATAACTGGATTATTAGACTCGCTAA 58.695 37.037 0.00 0.00 46.37 3.09
670 4284 6.299141 ACACTGGCCATAACTGGATTATTAG 58.701 40.000 5.51 0.00 46.37 1.73
754 4448 6.907212 CGATATTGAGCCACAACTGAAATAAC 59.093 38.462 0.00 0.00 41.52 1.89
755 4449 6.038161 CCGATATTGAGCCACAACTGAAATAA 59.962 38.462 0.00 0.00 41.52 1.40
756 4450 5.527214 CCGATATTGAGCCACAACTGAAATA 59.473 40.000 0.00 0.00 41.52 1.40
757 4451 4.336433 CCGATATTGAGCCACAACTGAAAT 59.664 41.667 0.00 0.00 41.52 2.17
758 4452 3.689161 CCGATATTGAGCCACAACTGAAA 59.311 43.478 0.00 0.00 41.52 2.69
764 4458 3.006940 GTCAACCGATATTGAGCCACAA 58.993 45.455 0.00 0.00 39.25 3.33
790 4484 7.111247 TCTTCTTCCTGATTTTTGAAAGCAA 57.889 32.000 0.00 0.00 0.00 3.91
791 4485 6.713762 TCTTCTTCCTGATTTTTGAAAGCA 57.286 33.333 0.00 0.00 0.00 3.91
792 4486 8.424274 TTTTCTTCTTCCTGATTTTTGAAAGC 57.576 30.769 0.00 0.00 0.00 3.51
828 4524 9.981114 AAAAGACTTGTTTTCTTTCTCTTTTCA 57.019 25.926 0.00 0.00 41.48 2.69
831 4527 9.631452 CTCAAAAGACTTGTTTTCTTTCTCTTT 57.369 29.630 0.00 0.00 41.48 2.52
848 4544 3.427638 GGCTTTAATCGGGCTCAAAAGAC 60.428 47.826 2.79 0.00 30.44 3.01
882 4578 1.916506 TCTCTGGTCCAGTCTCTGTG 58.083 55.000 18.65 2.54 32.61 3.66
895 4591 9.837525 CAGATTTGTTTTCTTTCTATTCTCTGG 57.162 33.333 0.00 0.00 0.00 3.86
904 4600 5.499139 TCGTGCAGATTTGTTTTCTTTCT 57.501 34.783 0.00 0.00 0.00 2.52
948 4651 4.856801 CGGCGGTGGAATGGGGAG 62.857 72.222 0.00 0.00 0.00 4.30
1021 4729 1.203125 GGATAGGAGGTGGGAGAGGAG 60.203 61.905 0.00 0.00 0.00 3.69
1136 4868 1.810532 CAGGTGGAGACGAGGTAGC 59.189 63.158 0.00 0.00 0.00 3.58
1576 5314 1.440145 TTGGCAATGTCGCGAACACA 61.440 50.000 12.06 5.84 41.75 3.72
1580 5318 1.599518 ACCTTGGCAATGTCGCGAA 60.600 52.632 12.06 1.13 0.00 4.70
1587 5325 0.458669 GGATGAGCACCTTGGCAATG 59.541 55.000 0.00 0.00 35.83 2.82
1597 5335 0.379669 CTCGGCATTTGGATGAGCAC 59.620 55.000 0.00 0.00 35.16 4.40
1842 5580 1.585521 GCGCTGCAGCATGTCATTC 60.586 57.895 36.03 11.59 42.21 2.67
1911 5649 1.520787 GAGTATTGCCGGACGGTGG 60.521 63.158 5.05 0.00 37.65 4.61
1950 5688 1.342674 ACATAGTACCGGGGCTTGAGA 60.343 52.381 6.32 0.00 0.00 3.27
2009 5747 6.403866 AGAGCATAGAATTGTAGTCTCTGG 57.596 41.667 12.61 0.00 0.00 3.86
2164 5902 5.578727 CAGCTACCAACTTTCATAGACTGTC 59.421 44.000 0.00 0.00 0.00 3.51
2169 5907 3.056107 ACGCAGCTACCAACTTTCATAGA 60.056 43.478 0.00 0.00 0.00 1.98
2178 5916 2.250939 TGCACACGCAGCTACCAAC 61.251 57.895 0.00 0.00 45.36 3.77
2239 5979 6.861065 TCAGTCATGAAAAGAACACCTAAC 57.139 37.500 0.00 0.00 30.61 2.34
2327 6068 3.751175 TCTCCACCAAATGACGAAATCAC 59.249 43.478 0.00 0.00 41.24 3.06
2444 6187 7.986085 ATGAACAGCAATTTCAGTAGTAACT 57.014 32.000 0.00 0.00 36.44 2.24
2449 6192 9.926751 CTATACAATGAACAGCAATTTCAGTAG 57.073 33.333 0.00 0.00 36.44 2.57
2504 6248 7.665690 TGTAAAGTAAACGTACACCCAATAGA 58.334 34.615 0.00 0.00 32.12 1.98
2507 6251 7.163441 AGATGTAAAGTAAACGTACACCCAAT 58.837 34.615 0.00 0.00 32.12 3.16
2528 6272 4.813750 AAGGGCCAAGAAATCAAAGATG 57.186 40.909 6.18 0.00 0.00 2.90
2529 6273 6.899631 AGAATAAGGGCCAAGAAATCAAAGAT 59.100 34.615 6.18 0.00 0.00 2.40
2530 6274 6.256053 AGAATAAGGGCCAAGAAATCAAAGA 58.744 36.000 6.18 0.00 0.00 2.52
2550 6294 5.940470 ACAAAACTAATCAGCCTCGAAGAAT 59.060 36.000 0.00 0.00 34.09 2.40
2575 6320 6.663953 AGCAAGGTCAACTACAAGATCTAGTA 59.336 38.462 0.00 0.00 0.00 1.82
2633 6383 2.602676 GCTTAGGCCCACTCCCACA 61.603 63.158 0.00 0.00 0.00 4.17
2642 6392 0.179009 TGCTGATCATGCTTAGGCCC 60.179 55.000 15.20 0.00 37.74 5.80
2645 6395 5.067413 ACTTCATTTGCTGATCATGCTTAGG 59.933 40.000 15.20 7.56 32.72 2.69
2680 6430 8.250332 AGTTCTGACATTAATGAGAGAGAGAAC 58.750 37.037 22.16 21.85 0.00 3.01
2693 6443 9.567776 TCCTTGTTGATTAAGTTCTGACATTAA 57.432 29.630 0.00 0.00 0.00 1.40
2694 6444 9.739276 ATCCTTGTTGATTAAGTTCTGACATTA 57.261 29.630 0.00 0.00 0.00 1.90
2695 6445 8.517878 CATCCTTGTTGATTAAGTTCTGACATT 58.482 33.333 0.00 0.00 0.00 2.71
2696 6446 7.121759 CCATCCTTGTTGATTAAGTTCTGACAT 59.878 37.037 0.00 0.00 0.00 3.06
2697 6447 6.430925 CCATCCTTGTTGATTAAGTTCTGACA 59.569 38.462 0.00 0.00 0.00 3.58
2698 6448 6.431234 ACCATCCTTGTTGATTAAGTTCTGAC 59.569 38.462 0.00 0.00 0.00 3.51
2699 6449 6.542821 ACCATCCTTGTTGATTAAGTTCTGA 58.457 36.000 0.00 0.00 0.00 3.27
2700 6450 6.824305 ACCATCCTTGTTGATTAAGTTCTG 57.176 37.500 0.00 0.00 0.00 3.02
2701 6451 8.109634 ACATACCATCCTTGTTGATTAAGTTCT 58.890 33.333 0.00 0.00 0.00 3.01
2702 6452 8.281212 ACATACCATCCTTGTTGATTAAGTTC 57.719 34.615 0.00 0.00 0.00 3.01
2703 6453 9.747898 TTACATACCATCCTTGTTGATTAAGTT 57.252 29.630 0.00 0.00 0.00 2.66
2704 6454 9.920946 ATTACATACCATCCTTGTTGATTAAGT 57.079 29.630 0.00 0.00 0.00 2.24
2728 6478 9.154632 ACCATCCCTGTTTTTCTTTTTACTATT 57.845 29.630 0.00 0.00 0.00 1.73
2729 6479 8.721133 ACCATCCCTGTTTTTCTTTTTACTAT 57.279 30.769 0.00 0.00 0.00 2.12
2730 6480 9.816787 ATACCATCCCTGTTTTTCTTTTTACTA 57.183 29.630 0.00 0.00 0.00 1.82
2731 6481 8.585018 CATACCATCCCTGTTTTTCTTTTTACT 58.415 33.333 0.00 0.00 0.00 2.24
2732 6482 8.364894 ACATACCATCCCTGTTTTTCTTTTTAC 58.635 33.333 0.00 0.00 0.00 2.01
2733 6483 8.485578 ACATACCATCCCTGTTTTTCTTTTTA 57.514 30.769 0.00 0.00 0.00 1.52
2734 6484 7.373617 ACATACCATCCCTGTTTTTCTTTTT 57.626 32.000 0.00 0.00 0.00 1.94
2735 6485 6.294508 CGACATACCATCCCTGTTTTTCTTTT 60.295 38.462 0.00 0.00 0.00 2.27
2736 6486 5.183140 CGACATACCATCCCTGTTTTTCTTT 59.817 40.000 0.00 0.00 0.00 2.52
2737 6487 4.700213 CGACATACCATCCCTGTTTTTCTT 59.300 41.667 0.00 0.00 0.00 2.52
2738 6488 4.261801 CGACATACCATCCCTGTTTTTCT 58.738 43.478 0.00 0.00 0.00 2.52
2739 6489 4.007659 ACGACATACCATCCCTGTTTTTC 58.992 43.478 0.00 0.00 0.00 2.29
2740 6490 4.007659 GACGACATACCATCCCTGTTTTT 58.992 43.478 0.00 0.00 0.00 1.94
2741 6491 3.263425 AGACGACATACCATCCCTGTTTT 59.737 43.478 0.00 0.00 0.00 2.43
2742 6492 2.838202 AGACGACATACCATCCCTGTTT 59.162 45.455 0.00 0.00 0.00 2.83
2743 6493 2.467880 AGACGACATACCATCCCTGTT 58.532 47.619 0.00 0.00 0.00 3.16
2744 6494 2.160721 AGACGACATACCATCCCTGT 57.839 50.000 0.00 0.00 0.00 4.00
2745 6495 4.280929 TGATAAGACGACATACCATCCCTG 59.719 45.833 0.00 0.00 0.00 4.45
2746 6496 4.480115 TGATAAGACGACATACCATCCCT 58.520 43.478 0.00 0.00 0.00 4.20
2747 6497 4.866508 TGATAAGACGACATACCATCCC 57.133 45.455 0.00 0.00 0.00 3.85
2748 6498 8.001881 AGATATGATAAGACGACATACCATCC 57.998 38.462 0.00 0.00 30.95 3.51
2749 6499 8.898761 AGAGATATGATAAGACGACATACCATC 58.101 37.037 0.00 0.00 30.95 3.51
2750 6500 8.815565 AGAGATATGATAAGACGACATACCAT 57.184 34.615 0.00 0.00 30.95 3.55
2751 6501 8.103935 AGAGAGATATGATAAGACGACATACCA 58.896 37.037 0.00 0.00 30.95 3.25
2752 6502 8.394877 CAGAGAGATATGATAAGACGACATACC 58.605 40.741 0.00 0.00 30.95 2.73
2753 6503 7.908082 GCAGAGAGATATGATAAGACGACATAC 59.092 40.741 0.00 0.00 30.95 2.39
2754 6504 7.826744 AGCAGAGAGATATGATAAGACGACATA 59.173 37.037 0.00 0.00 0.00 2.29
2755 6505 6.658816 AGCAGAGAGATATGATAAGACGACAT 59.341 38.462 0.00 0.00 0.00 3.06
2756 6506 6.000840 AGCAGAGAGATATGATAAGACGACA 58.999 40.000 0.00 0.00 0.00 4.35
2757 6507 6.494893 AGCAGAGAGATATGATAAGACGAC 57.505 41.667 0.00 0.00 0.00 4.34
2758 6508 8.672815 CAATAGCAGAGAGATATGATAAGACGA 58.327 37.037 0.00 0.00 0.00 4.20
2759 6509 8.672815 TCAATAGCAGAGAGATATGATAAGACG 58.327 37.037 0.00 0.00 0.00 4.18
2760 6510 9.787532 GTCAATAGCAGAGAGATATGATAAGAC 57.212 37.037 0.00 0.00 0.00 3.01
2761 6511 9.752228 AGTCAATAGCAGAGAGATATGATAAGA 57.248 33.333 0.00 0.00 0.00 2.10
2762 6512 9.791820 CAGTCAATAGCAGAGAGATATGATAAG 57.208 37.037 0.00 0.00 0.00 1.73
2763 6513 8.249638 GCAGTCAATAGCAGAGAGATATGATAA 58.750 37.037 0.00 0.00 0.00 1.75
2764 6514 7.395489 TGCAGTCAATAGCAGAGAGATATGATA 59.605 37.037 0.00 0.00 35.51 2.15
2765 6515 6.210984 TGCAGTCAATAGCAGAGAGATATGAT 59.789 38.462 0.00 0.00 35.51 2.45
2766 6516 5.537674 TGCAGTCAATAGCAGAGAGATATGA 59.462 40.000 0.00 0.00 35.51 2.15
2767 6517 5.780984 TGCAGTCAATAGCAGAGAGATATG 58.219 41.667 0.00 0.00 35.51 1.78
2768 6518 6.399743 CATGCAGTCAATAGCAGAGAGATAT 58.600 40.000 0.00 0.00 44.94 1.63
2769 6519 5.780984 CATGCAGTCAATAGCAGAGAGATA 58.219 41.667 0.00 0.00 44.94 1.98
2770 6520 4.633175 CATGCAGTCAATAGCAGAGAGAT 58.367 43.478 0.00 0.00 44.94 2.75
2771 6521 3.740452 GCATGCAGTCAATAGCAGAGAGA 60.740 47.826 14.21 0.00 44.94 3.10
2772 6522 2.544686 GCATGCAGTCAATAGCAGAGAG 59.455 50.000 14.21 0.00 44.94 3.20
2773 6523 2.093341 TGCATGCAGTCAATAGCAGAGA 60.093 45.455 18.46 0.00 44.94 3.10
2774 6524 2.285977 TGCATGCAGTCAATAGCAGAG 58.714 47.619 18.46 0.00 44.94 3.35
2775 6525 2.406596 TGCATGCAGTCAATAGCAGA 57.593 45.000 18.46 0.00 44.94 4.26
2776 6526 4.454504 TCATATGCATGCAGTCAATAGCAG 59.545 41.667 26.69 7.50 44.94 4.24
2777 6527 4.391155 TCATATGCATGCAGTCAATAGCA 58.609 39.130 26.69 0.00 45.92 3.49
2778 6528 5.562506 ATCATATGCATGCAGTCAATAGC 57.437 39.130 26.69 0.00 31.73 2.97
2779 6529 7.845066 AGTATCATATGCATGCAGTCAATAG 57.155 36.000 26.69 11.02 31.73 1.73
2780 6530 8.625786 AAAGTATCATATGCATGCAGTCAATA 57.374 30.769 26.69 16.88 31.73 1.90
2781 6531 7.520451 AAAGTATCATATGCATGCAGTCAAT 57.480 32.000 26.69 17.83 31.73 2.57
2782 6532 6.947644 AAAGTATCATATGCATGCAGTCAA 57.052 33.333 26.69 11.98 31.73 3.18
2783 6533 8.098912 AGATAAAGTATCATATGCATGCAGTCA 58.901 33.333 26.69 13.87 37.65 3.41
2784 6534 8.489990 AGATAAAGTATCATATGCATGCAGTC 57.510 34.615 26.69 10.29 37.65 3.51
2801 6551 9.090692 GCATGCAATTTTGTGAATAGATAAAGT 57.909 29.630 14.21 0.00 0.00 2.66
2802 6552 9.089601 TGCATGCAATTTTGTGAATAGATAAAG 57.910 29.630 20.30 0.00 0.00 1.85
2803 6553 8.999220 TGCATGCAATTTTGTGAATAGATAAA 57.001 26.923 20.30 0.00 0.00 1.40
2806 6556 9.772973 AATATGCATGCAATTTTGTGAATAGAT 57.227 25.926 26.68 4.38 0.00 1.98
2810 6560 8.779303 CCATAATATGCATGCAATTTTGTGAAT 58.221 29.630 26.68 6.39 0.00 2.57
2811 6561 7.254829 GCCATAATATGCATGCAATTTTGTGAA 60.255 33.333 26.68 9.57 0.00 3.18
2812 6562 6.203145 GCCATAATATGCATGCAATTTTGTGA 59.797 34.615 26.68 10.20 0.00 3.58
2813 6563 6.017852 TGCCATAATATGCATGCAATTTTGTG 60.018 34.615 26.68 22.63 31.31 3.33
2814 6564 6.056236 TGCCATAATATGCATGCAATTTTGT 58.944 32.000 26.68 13.46 31.31 2.83
2815 6565 6.546972 TGCCATAATATGCATGCAATTTTG 57.453 33.333 26.68 24.23 31.31 2.44
2816 6566 5.180492 GCTGCCATAATATGCATGCAATTTT 59.820 36.000 26.68 19.41 36.79 1.82
2817 6567 4.693566 GCTGCCATAATATGCATGCAATTT 59.306 37.500 26.68 21.84 36.79 1.82
2818 6568 4.250464 GCTGCCATAATATGCATGCAATT 58.750 39.130 26.68 24.08 36.79 2.32
2819 6569 3.259625 TGCTGCCATAATATGCATGCAAT 59.740 39.130 26.68 16.11 38.08 3.56
2820 6570 2.628657 TGCTGCCATAATATGCATGCAA 59.371 40.909 26.68 14.46 38.08 4.08
2821 6571 2.240279 TGCTGCCATAATATGCATGCA 58.760 42.857 25.04 25.04 38.42 3.96
2822 6572 3.250744 CTTGCTGCCATAATATGCATGC 58.749 45.455 11.82 11.82 36.79 4.06
2823 6573 4.217767 AGACTTGCTGCCATAATATGCATG 59.782 41.667 10.16 0.00 36.79 4.06
2824 6574 4.217767 CAGACTTGCTGCCATAATATGCAT 59.782 41.667 3.79 3.79 37.90 3.96
2825 6575 3.566742 CAGACTTGCTGCCATAATATGCA 59.433 43.478 0.00 0.00 37.90 3.96
2826 6576 4.156664 CAGACTTGCTGCCATAATATGC 57.843 45.455 0.00 0.00 37.90 3.14
2838 6588 6.418101 ACATACCATTATTGACAGACTTGCT 58.582 36.000 0.00 0.00 0.00 3.91
2839 6589 6.683974 ACATACCATTATTGACAGACTTGC 57.316 37.500 0.00 0.00 0.00 4.01
2854 6604 9.845740 TGCAATTTCAGTACTATTACATACCAT 57.154 29.630 0.00 0.00 0.00 3.55
2855 6605 9.325198 CTGCAATTTCAGTACTATTACATACCA 57.675 33.333 0.00 0.00 0.00 3.25
2856 6606 9.326413 ACTGCAATTTCAGTACTATTACATACC 57.674 33.333 9.11 0.00 44.77 2.73
2859 6609 9.448438 TGAACTGCAATTTCAGTACTATTACAT 57.552 29.630 11.23 0.00 45.77 2.29
2860 6610 8.840833 TGAACTGCAATTTCAGTACTATTACA 57.159 30.769 11.23 1.98 45.77 2.41
2861 6611 9.922305 GATGAACTGCAATTTCAGTACTATTAC 57.078 33.333 11.23 0.00 45.77 1.89
2862 6612 9.665719 TGATGAACTGCAATTTCAGTACTATTA 57.334 29.630 11.23 1.51 45.77 0.98
2863 6613 8.565896 TGATGAACTGCAATTTCAGTACTATT 57.434 30.769 11.23 0.00 45.77 1.73
2864 6614 8.743085 ATGATGAACTGCAATTTCAGTACTAT 57.257 30.769 11.23 6.38 45.77 2.12
2865 6615 8.565896 AATGATGAACTGCAATTTCAGTACTA 57.434 30.769 11.23 1.90 45.77 1.82
2866 6616 7.175467 TGAATGATGAACTGCAATTTCAGTACT 59.825 33.333 11.23 0.00 45.77 2.73
2867 6617 7.307694 TGAATGATGAACTGCAATTTCAGTAC 58.692 34.615 11.23 4.85 45.77 2.73
2868 6618 7.175467 ACTGAATGATGAACTGCAATTTCAGTA 59.825 33.333 11.23 0.00 45.77 2.74
2870 6620 6.308041 CACTGAATGATGAACTGCAATTTCAG 59.692 38.462 14.07 3.36 41.55 3.02
2871 6621 6.153756 CACTGAATGATGAACTGCAATTTCA 58.846 36.000 11.73 11.73 37.38 2.69
2872 6622 6.154445 ACACTGAATGATGAACTGCAATTTC 58.846 36.000 1.47 1.47 0.00 2.17
2873 6623 6.092955 ACACTGAATGATGAACTGCAATTT 57.907 33.333 0.00 0.00 0.00 1.82
2874 6624 5.717078 ACACTGAATGATGAACTGCAATT 57.283 34.783 0.00 0.00 0.00 2.32
2875 6625 5.717078 AACACTGAATGATGAACTGCAAT 57.283 34.783 0.00 0.00 0.00 3.56
2876 6626 5.518848 AAACACTGAATGATGAACTGCAA 57.481 34.783 0.00 0.00 0.00 4.08
2877 6627 5.067544 TCAAAACACTGAATGATGAACTGCA 59.932 36.000 0.00 0.00 0.00 4.41
2878 6628 5.522456 TCAAAACACTGAATGATGAACTGC 58.478 37.500 0.00 0.00 0.00 4.40
2879 6629 9.850628 ATAATCAAAACACTGAATGATGAACTG 57.149 29.630 0.00 0.00 33.06 3.16
2880 6630 9.850628 CATAATCAAAACACTGAATGATGAACT 57.149 29.630 0.00 0.00 33.06 3.01
2881 6631 8.589629 GCATAATCAAAACACTGAATGATGAAC 58.410 33.333 0.00 0.00 33.06 3.18
2882 6632 8.525316 AGCATAATCAAAACACTGAATGATGAA 58.475 29.630 0.00 0.00 33.06 2.57
2883 6633 8.058667 AGCATAATCAAAACACTGAATGATGA 57.941 30.769 0.00 0.00 33.06 2.92
2884 6634 8.697846 AAGCATAATCAAAACACTGAATGATG 57.302 30.769 0.00 0.00 33.06 3.07
2886 6636 9.230122 TCTAAGCATAATCAAAACACTGAATGA 57.770 29.630 0.00 0.00 0.00 2.57
2887 6637 9.844790 TTCTAAGCATAATCAAAACACTGAATG 57.155 29.630 0.00 0.00 0.00 2.67
2959 6709 1.921346 TGTATGCCGGTTCCACCCT 60.921 57.895 1.90 0.00 33.75 4.34
3020 6770 3.597255 ACACAGAATCAGCATCTGAGTG 58.403 45.455 10.27 6.89 45.74 3.51
3021 6771 3.977134 ACACAGAATCAGCATCTGAGT 57.023 42.857 10.27 5.76 45.74 3.41
3025 6775 7.458409 AATTTACAACACAGAATCAGCATCT 57.542 32.000 0.00 0.00 0.00 2.90


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

AutoCloner maintained by Alex Coulton.