Multiple sequence alignment - TraesCS2B01G365700

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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 TraesCS2B01G365700 chr2B 100.000 2477 0 0 1 2477 521331376 521333852 0.000000e+00 4575.0
1 TraesCS2B01G365700 chr2B 89.802 353 17 11 2142 2477 234361420 234361770 3.780000e-118 435.0
2 TraesCS2B01G365700 chr2A 90.608 1991 143 25 1 1975 585660697 585662659 0.000000e+00 2601.0
3 TraesCS2B01G365700 chr2A 93.711 159 9 1 1950 2107 585663629 585663787 1.150000e-58 237.0
4 TraesCS2B01G365700 chr2D 94.836 1278 60 5 802 2077 441769635 441770908 0.000000e+00 1989.0
5 TraesCS2B01G365700 chr2D 91.839 821 46 11 1 806 441766565 441767379 0.000000e+00 1125.0
6 TraesCS2B01G365700 chr7B 94.750 400 20 1 398 796 655434404 655434005 2.710000e-174 621.0
7 TraesCS2B01G365700 chr7B 89.971 349 12 13 2137 2476 657554919 657555253 1.760000e-116 429.0
8 TraesCS2B01G365700 chr7B 95.082 183 8 1 398 579 655427845 655427663 1.120000e-73 287.0
9 TraesCS2B01G365700 chr7B 89.583 192 10 1 605 796 655427667 655427486 4.120000e-58 235.0
10 TraesCS2B01G365700 chr7B 85.354 198 26 3 1 197 655428039 655427844 4.180000e-48 202.0
11 TraesCS2B01G365700 chr6B 87.395 357 20 10 2140 2477 43358006 43357656 1.070000e-103 387.0
12 TraesCS2B01G365700 chr3B 86.643 277 25 8 2141 2409 659595901 659596173 1.860000e-76 296.0
13 TraesCS2B01G365700 chr3B 90.441 136 8 1 2141 2271 825426032 825426167 9.110000e-40 174.0
14 TraesCS2B01G365700 chr5B 82.288 271 38 7 2142 2407 655451119 655451384 2.480000e-55 226.0
15 TraesCS2B01G365700 chr4A 87.013 77 5 1 2148 2219 614172384 614172308 5.680000e-12 82.4


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 TraesCS2B01G365700 chr2B 521331376 521333852 2476 False 4575.000000 4575 100.000000 1 2477 1 chr2B.!!$F2 2476
1 TraesCS2B01G365700 chr2A 585660697 585663787 3090 False 1419.000000 2601 92.159500 1 2107 2 chr2A.!!$F1 2106
2 TraesCS2B01G365700 chr2D 441766565 441770908 4343 False 1557.000000 1989 93.337500 1 2077 2 chr2D.!!$F1 2076
3 TraesCS2B01G365700 chr7B 655427486 655428039 553 True 241.333333 287 90.006333 1 796 3 chr7B.!!$R2 795

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
39 40 0.179029 AACCCACCTGTCCTCAAACG 60.179 55.0 0.0 0.0 0.0 3.6 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1655 3941 0.392461 ACGCACTGACACAAACTGGT 60.392 50.0 0.0 0.0 0.0 4.0 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
23 24 0.608035 TGGGGAGCGAATTGTCAACC 60.608 55.000 0.00 0.00 0.00 3.77
39 40 0.179029 AACCCACCTGTCCTCAAACG 60.179 55.000 0.00 0.00 0.00 3.60
57 58 1.893062 GCTTGATTTCCTGGGTGGC 59.107 57.895 0.00 0.00 35.26 5.01
102 104 0.379669 CGCAATTCCACTGCAGATCC 59.620 55.000 23.35 0.00 39.91 3.36
120 122 1.556911 TCCTCTCTGCCATTTGGAGTC 59.443 52.381 0.00 0.00 37.39 3.36
162 164 2.425143 TCCCAGAGGCAAATCATGTC 57.575 50.000 0.00 0.00 0.00 3.06
166 168 3.512724 CCCAGAGGCAAATCATGTCTTTT 59.487 43.478 0.00 0.00 46.26 2.27
167 169 4.706476 CCCAGAGGCAAATCATGTCTTTTA 59.294 41.667 0.00 0.00 46.26 1.52
169 171 5.393461 CCAGAGGCAAATCATGTCTTTTACC 60.393 44.000 0.00 0.00 46.26 2.85
171 173 6.012745 AGAGGCAAATCATGTCTTTTACCTT 58.987 36.000 9.91 2.18 46.26 3.50
172 174 6.029346 AGGCAAATCATGTCTTTTACCTTG 57.971 37.500 0.00 0.00 42.83 3.61
173 175 5.539955 AGGCAAATCATGTCTTTTACCTTGT 59.460 36.000 0.00 0.00 42.83 3.16
185 190 9.629878 TGTCTTTTACCTTGTTTATTTGGTAGA 57.370 29.630 0.00 0.00 36.55 2.59
255 268 4.320494 GCAAATTCATTGTTCTGTCCGTCT 60.320 41.667 0.00 0.00 41.32 4.18
262 275 4.659111 TTGTTCTGTCCGTCTGAAGTTA 57.341 40.909 0.00 0.00 35.31 2.24
276 289 6.241385 GTCTGAAGTTATTGTTGCGTGATAC 58.759 40.000 0.00 0.00 0.00 2.24
277 290 5.929415 TCTGAAGTTATTGTTGCGTGATACA 59.071 36.000 0.00 0.00 0.00 2.29
278 291 6.090763 TCTGAAGTTATTGTTGCGTGATACAG 59.909 38.462 0.00 0.00 0.00 2.74
279 292 5.699001 TGAAGTTATTGTTGCGTGATACAGT 59.301 36.000 0.00 0.00 0.00 3.55
281 294 6.165659 AGTTATTGTTGCGTGATACAGTTC 57.834 37.500 0.00 0.00 0.00 3.01
309 326 6.239887 GCCAGATCTGTTAATTGGGGATAGTA 60.240 42.308 21.11 0.00 0.00 1.82
311 328 8.043710 CCAGATCTGTTAATTGGGGATAGTATC 58.956 40.741 21.11 1.11 0.00 2.24
365 382 0.250234 CAGCCGAAATCTCTGTGGGA 59.750 55.000 0.00 0.00 0.00 4.37
394 411 3.940852 TGTGGCTGCAGAATGTATGTAAG 59.059 43.478 20.43 0.00 39.31 2.34
525 542 8.040716 ACACTCTAACCATTTTAACATGCTAC 57.959 34.615 0.00 0.00 0.00 3.58
615 632 1.279496 TGCATCCTTCTGGTGCTAGT 58.721 50.000 0.00 0.00 39.45 2.57
701 718 8.016229 GCATTTCTGAATTATCATACTCTGCAG 58.984 37.037 7.63 7.63 34.37 4.41
907 3186 8.186178 TCTTTTCTCGACTTAATCATACTTGC 57.814 34.615 0.00 0.00 0.00 4.01
920 3199 9.845740 TTAATCATACTTGCTTCCTGCTAATTA 57.154 29.630 0.00 0.00 43.37 1.40
964 3244 5.414360 TCATCTCTAATTGCAGTCTGTGTC 58.586 41.667 0.93 0.00 0.00 3.67
971 3251 8.032952 TCTAATTGCAGTCTGTGTCTTTATTG 57.967 34.615 0.93 0.00 0.00 1.90
972 3252 4.488126 TTGCAGTCTGTGTCTTTATTGC 57.512 40.909 0.93 0.00 0.00 3.56
973 3253 3.475575 TGCAGTCTGTGTCTTTATTGCA 58.524 40.909 0.93 0.00 37.91 4.08
974 3254 3.882288 TGCAGTCTGTGTCTTTATTGCAA 59.118 39.130 0.00 0.00 37.37 4.08
1000 3280 2.463589 AAATCTTCAGGCGGTGGCGA 62.464 55.000 0.00 0.00 41.24 5.54
1014 3295 1.742831 GTGGCGATGTTTCTTATGGCA 59.257 47.619 0.00 0.00 31.83 4.92
1310 3591 2.251371 GTCGTTCGGTGCTTTGGC 59.749 61.111 0.00 0.00 39.26 4.52
1344 3625 1.581934 TAGCAGCAGTTGTGTGTGTC 58.418 50.000 0.00 0.00 0.00 3.67
1496 3777 3.452990 TGATTTACATTGCCTCCTACCGA 59.547 43.478 0.00 0.00 0.00 4.69
1499 3780 1.204146 ACATTGCCTCCTACCGATGT 58.796 50.000 0.00 0.00 32.56 3.06
1510 3791 2.095853 CCTACCGATGTTTCACATGCAC 59.904 50.000 0.00 0.00 39.27 4.57
1517 3799 4.378666 CGATGTTTCACATGCACTTCATCA 60.379 41.667 15.66 0.00 39.27 3.07
1546 3829 2.971330 TGGGCAAACATGGTGAGAAAAT 59.029 40.909 0.00 0.00 0.00 1.82
1572 3858 3.072330 ACACCATGTGATGTGTTACAGGA 59.928 43.478 0.49 0.00 36.96 3.86
1586 3872 4.634004 TGTTACAGGAATACATGCCTTTCG 59.366 41.667 0.00 0.00 30.41 3.46
1654 3940 1.067846 GTGGTGTGACGATACTGCAGA 60.068 52.381 23.35 4.31 0.00 4.26
1655 3941 1.616374 TGGTGTGACGATACTGCAGAA 59.384 47.619 23.35 0.00 0.00 3.02
1669 3955 2.016318 TGCAGAACCAGTTTGTGTCAG 58.984 47.619 0.00 0.00 0.00 3.51
1682 3968 3.926821 TGTGTCAGTGCGTACTATTGA 57.073 42.857 5.64 0.00 34.74 2.57
1689 3975 4.885325 TCAGTGCGTACTATTGACTATCCA 59.115 41.667 5.64 0.00 34.74 3.41
1790 4076 1.271656 AGAGTTTGATTTGCAGGCAGC 59.728 47.619 0.00 0.00 45.96 5.25
1945 4232 7.876936 ACTATCAGATACTTTTCTCGTGGTA 57.123 36.000 0.00 0.00 0.00 3.25
1946 4233 8.289939 ACTATCAGATACTTTTCTCGTGGTAA 57.710 34.615 0.00 0.00 0.00 2.85
2079 5363 0.531753 TGCGCACTAGCACAGTTGAA 60.532 50.000 5.66 0.00 42.92 2.69
2088 5372 1.507141 GCACAGTTGAACCTCGGTGG 61.507 60.000 8.41 0.00 42.93 4.61
2101 5385 0.542333 TCGGTGGTGGTGTCAAGAAA 59.458 50.000 0.00 0.00 0.00 2.52
2107 5391 3.555547 GTGGTGGTGTCAAGAAAATTTGC 59.444 43.478 0.00 0.00 0.00 3.68
2108 5392 3.450457 TGGTGGTGTCAAGAAAATTTGCT 59.550 39.130 0.00 0.00 0.00 3.91
2109 5393 4.081198 TGGTGGTGTCAAGAAAATTTGCTT 60.081 37.500 5.51 5.51 0.00 3.91
2110 5394 4.270808 GGTGGTGTCAAGAAAATTTGCTTG 59.729 41.667 27.00 27.00 42.10 4.01
2111 5395 4.270808 GTGGTGTCAAGAAAATTTGCTTGG 59.729 41.667 30.33 16.74 41.31 3.61
2112 5396 3.809279 GGTGTCAAGAAAATTTGCTTGGG 59.191 43.478 30.33 12.99 41.31 4.12
2113 5397 4.441792 GTGTCAAGAAAATTTGCTTGGGT 58.558 39.130 30.33 0.88 41.31 4.51
2114 5398 5.452636 GGTGTCAAGAAAATTTGCTTGGGTA 60.453 40.000 30.33 18.04 41.31 3.69
2115 5399 5.691754 GTGTCAAGAAAATTTGCTTGGGTAG 59.308 40.000 30.33 11.73 41.31 3.18
2125 5409 0.997196 GCTTGGGTAGCGACTTAACG 59.003 55.000 0.00 0.00 40.71 3.18
2126 5410 1.636988 CTTGGGTAGCGACTTAACGG 58.363 55.000 0.00 0.00 0.00 4.44
2127 5411 0.247185 TTGGGTAGCGACTTAACGGG 59.753 55.000 0.00 0.00 0.00 5.28
2128 5412 1.142531 GGGTAGCGACTTAACGGGG 59.857 63.158 0.00 0.00 0.00 5.73
2129 5413 1.322538 GGGTAGCGACTTAACGGGGA 61.323 60.000 0.00 0.00 0.00 4.81
2130 5414 0.179127 GGTAGCGACTTAACGGGGAC 60.179 60.000 0.00 0.00 0.00 4.46
2146 5430 2.915349 GGGACCTCCTATTCGGAAAAC 58.085 52.381 0.00 0.00 42.53 2.43
2147 5431 2.421107 GGGACCTCCTATTCGGAAAACC 60.421 54.545 0.00 0.00 42.53 3.27
2148 5432 2.421107 GGACCTCCTATTCGGAAAACCC 60.421 54.545 0.00 0.00 42.53 4.11
2149 5433 2.504585 GACCTCCTATTCGGAAAACCCT 59.495 50.000 0.00 0.00 42.53 4.34
2150 5434 3.708121 GACCTCCTATTCGGAAAACCCTA 59.292 47.826 0.00 0.00 42.53 3.53
2151 5435 4.304659 ACCTCCTATTCGGAAAACCCTAT 58.695 43.478 0.00 0.00 42.53 2.57
2152 5436 4.725304 ACCTCCTATTCGGAAAACCCTATT 59.275 41.667 0.00 0.00 42.53 1.73
2153 5437 5.193124 ACCTCCTATTCGGAAAACCCTATTT 59.807 40.000 0.00 0.00 42.53 1.40
2154 5438 5.531287 CCTCCTATTCGGAAAACCCTATTTG 59.469 44.000 0.00 0.00 42.53 2.32
2155 5439 4.885325 TCCTATTCGGAAAACCCTATTTGC 59.115 41.667 0.00 0.00 39.40 3.68
2156 5440 4.037565 CCTATTCGGAAAACCCTATTTGCC 59.962 45.833 0.00 0.00 33.16 4.52
2157 5441 1.455248 TCGGAAAACCCTATTTGCCG 58.545 50.000 11.84 11.84 35.85 5.69
2158 5442 1.003349 TCGGAAAACCCTATTTGCCGA 59.997 47.619 15.89 15.89 38.47 5.54
2159 5443 2.021457 CGGAAAACCCTATTTGCCGAT 58.979 47.619 12.59 0.00 36.22 4.18
2160 5444 2.032924 CGGAAAACCCTATTTGCCGATC 59.967 50.000 12.59 0.00 36.22 3.69
2161 5445 2.361119 GGAAAACCCTATTTGCCGATCC 59.639 50.000 0.00 0.00 0.00 3.36
2162 5446 3.288092 GAAAACCCTATTTGCCGATCCT 58.712 45.455 0.00 0.00 0.00 3.24
2163 5447 3.382083 AAACCCTATTTGCCGATCCTT 57.618 42.857 0.00 0.00 0.00 3.36
2164 5448 2.348411 ACCCTATTTGCCGATCCTTG 57.652 50.000 0.00 0.00 0.00 3.61
2165 5449 0.954452 CCCTATTTGCCGATCCTTGC 59.046 55.000 0.00 0.00 0.00 4.01
2166 5450 0.588252 CCTATTTGCCGATCCTTGCG 59.412 55.000 0.00 0.00 0.00 4.85
2172 5456 3.273048 CCGATCCTTGCGGCAAAA 58.727 55.556 17.13 8.32 42.55 2.44
2173 5457 1.809207 CCGATCCTTGCGGCAAAAT 59.191 52.632 17.13 12.75 42.55 1.82
2174 5458 0.526096 CCGATCCTTGCGGCAAAATG 60.526 55.000 17.13 8.36 42.55 2.32
2175 5459 0.171007 CGATCCTTGCGGCAAAATGT 59.829 50.000 17.13 3.23 0.00 2.71
2176 5460 1.795162 CGATCCTTGCGGCAAAATGTC 60.795 52.381 17.13 10.97 0.00 3.06
2178 5462 1.444212 CCTTGCGGCAAAATGTCGG 60.444 57.895 17.13 9.31 46.90 4.79
2179 5463 1.444212 CTTGCGGCAAAATGTCGGG 60.444 57.895 17.13 0.00 46.90 5.14
2180 5464 1.861542 CTTGCGGCAAAATGTCGGGA 61.862 55.000 17.13 0.00 46.90 5.14
2181 5465 1.861542 TTGCGGCAAAATGTCGGGAG 61.862 55.000 13.93 0.00 46.90 4.30
2182 5466 2.038269 GCGGCAAAATGTCGGGAGA 61.038 57.895 6.48 0.00 46.90 3.71
2183 5467 1.582610 GCGGCAAAATGTCGGGAGAA 61.583 55.000 6.48 0.00 46.90 2.87
2184 5468 0.168128 CGGCAAAATGTCGGGAGAAC 59.832 55.000 0.00 0.00 42.52 3.01
2185 5469 0.168128 GGCAAAATGTCGGGAGAACG 59.832 55.000 0.00 0.00 42.89 3.95
2186 5470 0.454452 GCAAAATGTCGGGAGAACGC 60.454 55.000 0.00 0.00 42.89 4.84
2193 5477 3.884350 CGGGAGAACGCGGATCGA 61.884 66.667 12.47 0.00 46.13 3.59
2194 5478 2.026301 GGGAGAACGCGGATCGAG 59.974 66.667 12.47 0.00 41.67 4.04
2195 5479 2.655685 GGAGAACGCGGATCGAGC 60.656 66.667 12.47 0.00 41.67 5.03
2202 5486 2.813908 GCGGATCGAGCGGTTGTT 60.814 61.111 10.04 0.00 0.00 2.83
2203 5487 2.799540 GCGGATCGAGCGGTTGTTC 61.800 63.158 10.04 3.04 0.00 3.18
2204 5488 2.165301 CGGATCGAGCGGTTGTTCC 61.165 63.158 18.34 18.34 0.00 3.62
2205 5489 1.079405 GGATCGAGCGGTTGTTCCA 60.079 57.895 21.87 0.00 35.57 3.53
2206 5490 1.084370 GGATCGAGCGGTTGTTCCAG 61.084 60.000 21.87 0.00 35.57 3.86
2207 5491 1.079127 ATCGAGCGGTTGTTCCAGG 60.079 57.895 1.01 0.00 35.57 4.45
2208 5492 1.827399 ATCGAGCGGTTGTTCCAGGT 61.827 55.000 1.01 0.00 35.57 4.00
2209 5493 2.317609 CGAGCGGTTGTTCCAGGTG 61.318 63.158 0.00 0.00 35.57 4.00
2210 5494 1.966451 GAGCGGTTGTTCCAGGTGG 60.966 63.158 0.00 0.00 35.57 4.61
2211 5495 2.983592 GCGGTTGTTCCAGGTGGG 60.984 66.667 0.00 0.00 35.57 4.61
2212 5496 2.983592 CGGTTGTTCCAGGTGGGC 60.984 66.667 0.00 0.00 36.21 5.36
2213 5497 2.600470 GGTTGTTCCAGGTGGGCC 60.600 66.667 0.00 0.00 36.21 5.80
2214 5498 2.983592 GTTGTTCCAGGTGGGCCG 60.984 66.667 0.00 0.00 40.50 6.13
2215 5499 4.278513 TTGTTCCAGGTGGGCCGG 62.279 66.667 0.00 0.00 40.50 6.13
2227 5511 4.710167 GGCCGGCCCGTTAAGTGT 62.710 66.667 36.64 0.00 0.00 3.55
2228 5512 2.670592 GCCGGCCCGTTAAGTGTT 60.671 61.111 18.11 0.00 0.00 3.32
2229 5513 2.263021 GCCGGCCCGTTAAGTGTTT 61.263 57.895 18.11 0.00 0.00 2.83
2230 5514 1.798234 GCCGGCCCGTTAAGTGTTTT 61.798 55.000 18.11 0.00 0.00 2.43
2231 5515 0.239082 CCGGCCCGTTAAGTGTTTTC 59.761 55.000 0.85 0.00 0.00 2.29
2232 5516 0.945813 CGGCCCGTTAAGTGTTTTCA 59.054 50.000 0.00 0.00 0.00 2.69
2233 5517 1.069500 CGGCCCGTTAAGTGTTTTCAG 60.069 52.381 0.00 0.00 0.00 3.02
2234 5518 1.951602 GGCCCGTTAAGTGTTTTCAGT 59.048 47.619 0.00 0.00 34.56 3.41
2235 5519 3.140623 GGCCCGTTAAGTGTTTTCAGTA 58.859 45.455 0.00 0.00 32.54 2.74
2236 5520 3.754850 GGCCCGTTAAGTGTTTTCAGTAT 59.245 43.478 0.00 0.00 32.54 2.12
2237 5521 4.216902 GGCCCGTTAAGTGTTTTCAGTATT 59.783 41.667 0.00 0.00 32.54 1.89
2238 5522 5.151389 GCCCGTTAAGTGTTTTCAGTATTG 58.849 41.667 0.00 0.00 32.54 1.90
2239 5523 5.151389 CCCGTTAAGTGTTTTCAGTATTGC 58.849 41.667 0.00 0.00 32.54 3.56
2240 5524 5.151389 CCGTTAAGTGTTTTCAGTATTGCC 58.849 41.667 0.00 0.00 32.54 4.52
2241 5525 4.843984 CGTTAAGTGTTTTCAGTATTGCCG 59.156 41.667 0.00 0.00 32.54 5.69
2242 5526 3.915437 AAGTGTTTTCAGTATTGCCGG 57.085 42.857 0.00 0.00 32.54 6.13
2243 5527 2.858745 AGTGTTTTCAGTATTGCCGGT 58.141 42.857 1.90 0.00 0.00 5.28
2244 5528 3.219281 AGTGTTTTCAGTATTGCCGGTT 58.781 40.909 1.90 0.00 0.00 4.44
2245 5529 3.634910 AGTGTTTTCAGTATTGCCGGTTT 59.365 39.130 1.90 0.00 0.00 3.27
2246 5530 4.098807 AGTGTTTTCAGTATTGCCGGTTTT 59.901 37.500 1.90 0.00 0.00 2.43
2247 5531 5.299782 AGTGTTTTCAGTATTGCCGGTTTTA 59.700 36.000 1.90 0.00 0.00 1.52
2248 5532 5.627780 GTGTTTTCAGTATTGCCGGTTTTAG 59.372 40.000 1.90 0.00 0.00 1.85
2249 5533 5.158494 GTTTTCAGTATTGCCGGTTTTAGG 58.842 41.667 1.90 0.00 0.00 2.69
2250 5534 3.985019 TCAGTATTGCCGGTTTTAGGA 57.015 42.857 1.90 0.00 0.00 2.94
2251 5535 4.289238 TCAGTATTGCCGGTTTTAGGAA 57.711 40.909 1.90 0.00 0.00 3.36
2252 5536 4.653868 TCAGTATTGCCGGTTTTAGGAAA 58.346 39.130 1.90 0.00 0.00 3.13
2253 5537 4.456566 TCAGTATTGCCGGTTTTAGGAAAC 59.543 41.667 1.90 0.00 43.50 2.78
2254 5538 4.457949 CAGTATTGCCGGTTTTAGGAAACT 59.542 41.667 1.90 0.00 43.68 2.66
2255 5539 5.048294 CAGTATTGCCGGTTTTAGGAAACTT 60.048 40.000 1.90 0.00 43.68 2.66
2256 5540 3.994204 TTGCCGGTTTTAGGAAACTTC 57.006 42.857 1.90 0.00 43.68 3.01
2257 5541 2.933573 TGCCGGTTTTAGGAAACTTCA 58.066 42.857 1.90 0.00 43.68 3.02
2258 5542 3.288964 TGCCGGTTTTAGGAAACTTCAA 58.711 40.909 1.90 0.00 43.68 2.69
2259 5543 3.700038 TGCCGGTTTTAGGAAACTTCAAA 59.300 39.130 1.90 0.00 43.68 2.69
2260 5544 4.202070 TGCCGGTTTTAGGAAACTTCAAAG 60.202 41.667 1.90 0.00 43.68 2.77
2261 5545 4.037089 GCCGGTTTTAGGAAACTTCAAAGA 59.963 41.667 1.90 0.00 43.68 2.52
2262 5546 5.516996 CCGGTTTTAGGAAACTTCAAAGAC 58.483 41.667 0.00 0.00 43.68 3.01
2263 5547 5.202640 CGGTTTTAGGAAACTTCAAAGACG 58.797 41.667 0.00 0.00 43.68 4.18
2264 5548 5.220719 CGGTTTTAGGAAACTTCAAAGACGT 60.221 40.000 0.00 0.00 43.68 4.34
2265 5549 6.558009 GGTTTTAGGAAACTTCAAAGACGTT 58.442 36.000 0.00 0.00 43.68 3.99
2266 5550 6.690098 GGTTTTAGGAAACTTCAAAGACGTTC 59.310 38.462 0.00 0.00 43.68 3.95
2267 5551 5.996669 TTAGGAAACTTCAAAGACGTTCC 57.003 39.130 12.58 12.58 43.67 3.62
2268 5552 3.881220 AGGAAACTTCAAAGACGTTCCA 58.119 40.909 18.15 0.00 37.44 3.53
2269 5553 3.877508 AGGAAACTTCAAAGACGTTCCAG 59.122 43.478 18.15 0.00 37.44 3.86
2270 5554 3.548214 GGAAACTTCAAAGACGTTCCAGC 60.548 47.826 14.27 0.00 36.23 4.85
2271 5555 1.594331 ACTTCAAAGACGTTCCAGCC 58.406 50.000 0.00 0.00 0.00 4.85
2272 5556 0.512952 CTTCAAAGACGTTCCAGCCG 59.487 55.000 0.00 0.00 0.00 5.52
2273 5557 0.105224 TTCAAAGACGTTCCAGCCGA 59.895 50.000 0.00 0.00 0.00 5.54
2274 5558 0.320374 TCAAAGACGTTCCAGCCGAT 59.680 50.000 0.00 0.00 0.00 4.18
2275 5559 1.156736 CAAAGACGTTCCAGCCGATT 58.843 50.000 0.00 0.00 0.00 3.34
2276 5560 1.128692 CAAAGACGTTCCAGCCGATTC 59.871 52.381 0.00 0.00 0.00 2.52
2277 5561 0.608640 AAGACGTTCCAGCCGATTCT 59.391 50.000 0.00 0.00 0.00 2.40
2278 5562 0.608640 AGACGTTCCAGCCGATTCTT 59.391 50.000 0.00 0.00 0.00 2.52
2279 5563 1.002087 AGACGTTCCAGCCGATTCTTT 59.998 47.619 0.00 0.00 0.00 2.52
2280 5564 1.804748 GACGTTCCAGCCGATTCTTTT 59.195 47.619 0.00 0.00 0.00 2.27
2281 5565 2.225727 GACGTTCCAGCCGATTCTTTTT 59.774 45.455 0.00 0.00 0.00 1.94
2309 5593 4.339335 ACCTTCCAGCAGGTTCCT 57.661 55.556 0.00 0.00 45.76 3.36
2310 5594 1.763770 ACCTTCCAGCAGGTTCCTG 59.236 57.895 13.88 13.88 45.76 3.86
2311 5595 0.768221 ACCTTCCAGCAGGTTCCTGA 60.768 55.000 21.32 0.00 45.76 3.86
2312 5596 0.401738 CCTTCCAGCAGGTTCCTGAA 59.598 55.000 21.32 6.76 36.24 3.02
2313 5597 1.528129 CTTCCAGCAGGTTCCTGAAC 58.472 55.000 21.32 5.80 40.45 3.18
2346 5630 7.583860 TTTTCATTTTCCGTTTCTTTTTCGT 57.416 28.000 0.00 0.00 0.00 3.85
2347 5631 7.583860 TTTCATTTTCCGTTTCTTTTTCGTT 57.416 28.000 0.00 0.00 0.00 3.85
2348 5632 7.583860 TTCATTTTCCGTTTCTTTTTCGTTT 57.416 28.000 0.00 0.00 0.00 3.60
2349 5633 7.583860 TCATTTTCCGTTTCTTTTTCGTTTT 57.416 28.000 0.00 0.00 0.00 2.43
2350 5634 8.019769 TCATTTTCCGTTTCTTTTTCGTTTTT 57.980 26.923 0.00 0.00 0.00 1.94
2373 5657 9.989869 TTTTTCGTTTTTCTTTGTTGTTTTTCT 57.010 22.222 0.00 0.00 0.00 2.52
2374 5658 9.989869 TTTTCGTTTTTCTTTGTTGTTTTTCTT 57.010 22.222 0.00 0.00 0.00 2.52
2375 5659 9.639636 TTTCGTTTTTCTTTGTTGTTTTTCTTC 57.360 25.926 0.00 0.00 0.00 2.87
2376 5660 8.582433 TCGTTTTTCTTTGTTGTTTTTCTTCT 57.418 26.923 0.00 0.00 0.00 2.85
2377 5661 9.036671 TCGTTTTTCTTTGTTGTTTTTCTTCTT 57.963 25.926 0.00 0.00 0.00 2.52
2378 5662 9.644993 CGTTTTTCTTTGTTGTTTTTCTTCTTT 57.355 25.926 0.00 0.00 0.00 2.52
2383 5667 9.541143 TTCTTTGTTGTTTTTCTTCTTTTGTCT 57.459 25.926 0.00 0.00 0.00 3.41
2384 5668 9.191995 TCTTTGTTGTTTTTCTTCTTTTGTCTC 57.808 29.630 0.00 0.00 0.00 3.36
2385 5669 9.196552 CTTTGTTGTTTTTCTTCTTTTGTCTCT 57.803 29.630 0.00 0.00 0.00 3.10
2386 5670 9.541143 TTTGTTGTTTTTCTTCTTTTGTCTCTT 57.459 25.926 0.00 0.00 0.00 2.85
2391 5675 9.301153 TGTTTTTCTTCTTTTGTCTCTTATTGC 57.699 29.630 0.00 0.00 0.00 3.56
2392 5676 9.521503 GTTTTTCTTCTTTTGTCTCTTATTGCT 57.478 29.630 0.00 0.00 0.00 3.91
2426 5710 9.550406 TCTTCTTTTCGTCTTTACTTATTTCCA 57.450 29.630 0.00 0.00 0.00 3.53
2459 5743 8.669946 TTTTTCTGTTTGTTTCTTTCTTTGGT 57.330 26.923 0.00 0.00 0.00 3.67
2460 5744 8.669946 TTTTCTGTTTGTTTCTTTCTTTGGTT 57.330 26.923 0.00 0.00 0.00 3.67
2461 5745 8.669946 TTTCTGTTTGTTTCTTTCTTTGGTTT 57.330 26.923 0.00 0.00 0.00 3.27
2462 5746 7.650834 TCTGTTTGTTTCTTTCTTTGGTTTG 57.349 32.000 0.00 0.00 0.00 2.93
2463 5747 7.213678 TCTGTTTGTTTCTTTCTTTGGTTTGT 58.786 30.769 0.00 0.00 0.00 2.83
2464 5748 7.713073 TCTGTTTGTTTCTTTCTTTGGTTTGTT 59.287 29.630 0.00 0.00 0.00 2.83
2465 5749 8.888579 TGTTTGTTTCTTTCTTTGGTTTGTTA 57.111 26.923 0.00 0.00 0.00 2.41
2466 5750 9.495572 TGTTTGTTTCTTTCTTTGGTTTGTTAT 57.504 25.926 0.00 0.00 0.00 1.89
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 0.535102 AAGCGTTTGAGGACAGGTGG 60.535 55.000 0.00 0.00 0.00 4.61
39 40 0.613012 AGCCACCCAGGAAATCAAGC 60.613 55.000 0.00 0.00 41.22 4.01
102 104 1.649664 CGACTCCAAATGGCAGAGAG 58.350 55.000 8.31 6.43 34.44 3.20
120 122 1.082756 GTTCAAACTCACCTGCGCG 60.083 57.895 0.00 0.00 0.00 6.86
162 164 8.793592 AGCTCTACCAAATAAACAAGGTAAAAG 58.206 33.333 0.00 0.00 36.28 2.27
166 168 8.599792 AGTAAGCTCTACCAAATAAACAAGGTA 58.400 33.333 0.00 0.00 35.62 3.08
167 169 7.390718 CAGTAAGCTCTACCAAATAAACAAGGT 59.609 37.037 0.00 0.00 38.14 3.50
169 171 8.324163 ACAGTAAGCTCTACCAAATAAACAAG 57.676 34.615 0.00 0.00 0.00 3.16
171 173 9.431887 CTAACAGTAAGCTCTACCAAATAAACA 57.568 33.333 0.00 0.00 0.00 2.83
172 174 8.880750 CCTAACAGTAAGCTCTACCAAATAAAC 58.119 37.037 0.00 0.00 0.00 2.01
173 175 7.551617 GCCTAACAGTAAGCTCTACCAAATAAA 59.448 37.037 0.00 0.00 0.00 1.40
185 190 3.136443 TGCCATATGCCTAACAGTAAGCT 59.864 43.478 0.00 0.00 40.16 3.74
255 268 5.699001 ACTGTATCACGCAACAATAACTTCA 59.301 36.000 0.00 0.00 0.00 3.02
262 275 4.613622 GCAAGAACTGTATCACGCAACAAT 60.614 41.667 0.00 0.00 0.00 2.71
277 290 5.416952 CCAATTAACAGATCTGGCAAGAACT 59.583 40.000 26.08 0.00 36.05 3.01
278 291 5.393461 CCCAATTAACAGATCTGGCAAGAAC 60.393 44.000 26.08 0.00 35.59 3.01
279 292 4.706476 CCCAATTAACAGATCTGGCAAGAA 59.294 41.667 26.08 12.38 35.59 2.52
281 294 3.382546 CCCCAATTAACAGATCTGGCAAG 59.617 47.826 26.08 10.67 34.19 4.01
309 326 0.543749 GGCCAGCTAAGACAGTGGAT 59.456 55.000 0.00 0.00 30.97 3.41
311 328 1.448540 CGGCCAGCTAAGACAGTGG 60.449 63.158 2.24 0.00 0.00 4.00
313 330 0.612174 TCTCGGCCAGCTAAGACAGT 60.612 55.000 2.24 0.00 0.00 3.55
357 374 0.325933 CCACAGAGCATTCCCACAGA 59.674 55.000 0.00 0.00 0.00 3.41
365 382 0.251033 TTCTGCAGCCACAGAGCATT 60.251 50.000 9.47 0.00 46.85 3.56
394 411 8.763356 TGAAACATTGTCACAAGAAAAATATGC 58.237 29.630 0.00 0.00 0.00 3.14
525 542 3.205338 TGGTTCACACTTCACAGACATG 58.795 45.455 0.00 0.00 0.00 3.21
615 632 4.527816 AGCCATTTCCAACAGCTGAAAATA 59.472 37.500 23.35 0.99 34.43 1.40
701 718 5.796350 ATGTACTGTTTTAGCCAATCGTC 57.204 39.130 0.00 0.00 0.00 4.20
907 3186 3.059597 CGACGGCAATAATTAGCAGGAAG 60.060 47.826 0.00 0.00 0.00 3.46
997 3277 3.365832 CACATGCCATAAGAAACATCGC 58.634 45.455 0.00 0.00 0.00 4.58
1000 3280 3.382546 GGAGCACATGCCATAAGAAACAT 59.617 43.478 0.00 0.00 43.38 2.71
1014 3295 6.675413 ATGGCAATATAATTTGGAGCACAT 57.325 33.333 0.00 0.00 0.00 3.21
1310 3591 2.218759 GCTGCTATAACATCGTTCACGG 59.781 50.000 0.00 0.00 40.29 4.94
1344 3625 0.675837 TCACGTACTCGGTCAGGAGG 60.676 60.000 0.00 0.00 41.85 4.30
1482 3763 2.238646 TGAAACATCGGTAGGAGGCAAT 59.761 45.455 0.00 0.00 0.00 3.56
1499 3780 2.226200 CCGTGATGAAGTGCATGTGAAA 59.774 45.455 0.00 0.00 37.34 2.69
1510 3791 1.338674 TGCCCACTTACCGTGATGAAG 60.339 52.381 0.00 0.00 46.81 3.02
1517 3799 1.243902 CATGTTTGCCCACTTACCGT 58.756 50.000 0.00 0.00 0.00 4.83
1546 3829 1.689984 ACACATCACATGGTGTTGCA 58.310 45.000 0.00 0.00 45.39 4.08
1572 3858 3.350219 AGACCACGAAAGGCATGTATT 57.650 42.857 0.00 0.00 0.00 1.89
1586 3872 5.758296 TCTTCACACAGAAATACAAGACCAC 59.242 40.000 0.00 0.00 35.40 4.16
1654 3940 0.732571 CGCACTGACACAAACTGGTT 59.267 50.000 0.00 0.00 0.00 3.67
1655 3941 0.392461 ACGCACTGACACAAACTGGT 60.392 50.000 0.00 0.00 0.00 4.00
1669 3955 7.011109 ACAATTTGGATAGTCAATAGTACGCAC 59.989 37.037 0.78 0.00 0.00 5.34
1682 3968 6.054860 AGCTCTACACACAATTTGGATAGT 57.945 37.500 0.78 0.00 0.00 2.12
1689 3975 7.715657 TCAAATCAAAGCTCTACACACAATTT 58.284 30.769 0.00 0.00 0.00 1.82
1790 4076 2.359900 CACAAAGGGCTAAGCTACAGG 58.640 52.381 0.00 0.00 0.00 4.00
1945 4232 2.218603 CTCGTGCTGGTACTTTGGTTT 58.781 47.619 0.00 0.00 0.00 3.27
1946 4233 1.878953 CTCGTGCTGGTACTTTGGTT 58.121 50.000 0.00 0.00 0.00 3.67
2088 5372 4.270808 CCAAGCAAATTTTCTTGACACCAC 59.729 41.667 25.91 0.00 41.50 4.16
2107 5391 1.636988 CCGTTAAGTCGCTACCCAAG 58.363 55.000 0.00 0.00 0.00 3.61
2108 5392 0.247185 CCCGTTAAGTCGCTACCCAA 59.753 55.000 0.00 0.00 0.00 4.12
2109 5393 1.606885 CCCCGTTAAGTCGCTACCCA 61.607 60.000 0.00 0.00 0.00 4.51
2110 5394 1.142531 CCCCGTTAAGTCGCTACCC 59.857 63.158 0.00 0.00 0.00 3.69
2111 5395 0.179127 GTCCCCGTTAAGTCGCTACC 60.179 60.000 0.00 0.00 0.00 3.18
2112 5396 0.179127 GGTCCCCGTTAAGTCGCTAC 60.179 60.000 0.00 0.00 0.00 3.58
2113 5397 0.323725 AGGTCCCCGTTAAGTCGCTA 60.324 55.000 0.00 0.00 0.00 4.26
2114 5398 1.602327 GAGGTCCCCGTTAAGTCGCT 61.602 60.000 0.00 0.00 0.00 4.93
2115 5399 1.153686 GAGGTCCCCGTTAAGTCGC 60.154 63.158 0.00 0.00 0.00 5.19
2116 5400 0.969409 AGGAGGTCCCCGTTAAGTCG 60.969 60.000 0.00 0.00 36.42 4.18
2117 5401 2.149973 TAGGAGGTCCCCGTTAAGTC 57.850 55.000 0.00 0.00 36.42 3.01
2118 5402 2.862850 ATAGGAGGTCCCCGTTAAGT 57.137 50.000 0.00 0.00 36.42 2.24
2119 5403 2.035576 CGAATAGGAGGTCCCCGTTAAG 59.964 54.545 0.00 0.00 36.42 1.85
2120 5404 2.034124 CGAATAGGAGGTCCCCGTTAA 58.966 52.381 0.00 0.00 36.42 2.01
2121 5405 1.696063 CGAATAGGAGGTCCCCGTTA 58.304 55.000 0.00 0.00 36.42 3.18
2122 5406 1.047034 CCGAATAGGAGGTCCCCGTT 61.047 60.000 0.00 0.00 45.00 4.44
2123 5407 1.457079 CCGAATAGGAGGTCCCCGT 60.457 63.158 0.00 0.00 45.00 5.28
2124 5408 1.152610 TCCGAATAGGAGGTCCCCG 60.153 63.158 0.00 0.00 45.98 5.73
2133 5417 4.037565 GGCAAATAGGGTTTTCCGAATAGG 59.962 45.833 0.00 0.00 41.82 2.57
2134 5418 4.261031 CGGCAAATAGGGTTTTCCGAATAG 60.261 45.833 5.84 0.00 41.82 1.73
2135 5419 3.628487 CGGCAAATAGGGTTTTCCGAATA 59.372 43.478 5.84 0.00 41.82 1.75
2136 5420 2.425668 CGGCAAATAGGGTTTTCCGAAT 59.574 45.455 5.84 0.00 41.82 3.34
2137 5421 1.813786 CGGCAAATAGGGTTTTCCGAA 59.186 47.619 5.84 0.00 41.82 4.30
2138 5422 1.003349 TCGGCAAATAGGGTTTTCCGA 59.997 47.619 9.57 9.57 41.82 4.55
2139 5423 1.455248 TCGGCAAATAGGGTTTTCCG 58.545 50.000 5.46 5.46 41.82 4.30
2140 5424 2.361119 GGATCGGCAAATAGGGTTTTCC 59.639 50.000 0.00 0.00 39.75 3.13
2141 5425 3.288092 AGGATCGGCAAATAGGGTTTTC 58.712 45.455 0.00 0.00 0.00 2.29
2142 5426 3.382083 AGGATCGGCAAATAGGGTTTT 57.618 42.857 0.00 0.00 0.00 2.43
2143 5427 3.023832 CAAGGATCGGCAAATAGGGTTT 58.976 45.455 0.00 0.00 0.00 3.27
2144 5428 2.654863 CAAGGATCGGCAAATAGGGTT 58.345 47.619 0.00 0.00 0.00 4.11
2145 5429 1.750682 GCAAGGATCGGCAAATAGGGT 60.751 52.381 0.00 0.00 0.00 4.34
2146 5430 0.954452 GCAAGGATCGGCAAATAGGG 59.046 55.000 0.00 0.00 0.00 3.53
2147 5431 0.588252 CGCAAGGATCGGCAAATAGG 59.412 55.000 3.97 0.00 0.00 2.57
2161 5445 1.444212 CCCGACATTTTGCCGCAAG 60.444 57.895 5.83 0.00 0.00 4.01
2162 5446 1.861542 CTCCCGACATTTTGCCGCAA 61.862 55.000 0.38 0.38 0.00 4.85
2163 5447 2.281831 TCCCGACATTTTGCCGCA 60.282 55.556 0.00 0.00 0.00 5.69
2164 5448 1.582610 TTCTCCCGACATTTTGCCGC 61.583 55.000 0.00 0.00 0.00 6.53
2165 5449 0.168128 GTTCTCCCGACATTTTGCCG 59.832 55.000 0.00 0.00 0.00 5.69
2166 5450 0.168128 CGTTCTCCCGACATTTTGCC 59.832 55.000 0.00 0.00 0.00 4.52
2167 5451 0.454452 GCGTTCTCCCGACATTTTGC 60.454 55.000 0.00 0.00 0.00 3.68
2168 5452 0.179225 CGCGTTCTCCCGACATTTTG 60.179 55.000 0.00 0.00 0.00 2.44
2169 5453 1.296056 CCGCGTTCTCCCGACATTTT 61.296 55.000 4.92 0.00 0.00 1.82
2170 5454 1.740296 CCGCGTTCTCCCGACATTT 60.740 57.895 4.92 0.00 0.00 2.32
2171 5455 1.956629 ATCCGCGTTCTCCCGACATT 61.957 55.000 4.92 0.00 0.00 2.71
2172 5456 2.351336 GATCCGCGTTCTCCCGACAT 62.351 60.000 4.92 0.00 0.00 3.06
2173 5457 3.060020 GATCCGCGTTCTCCCGACA 62.060 63.158 4.92 0.00 0.00 4.35
2174 5458 2.278661 GATCCGCGTTCTCCCGAC 60.279 66.667 4.92 0.00 0.00 4.79
2175 5459 3.884350 CGATCCGCGTTCTCCCGA 61.884 66.667 4.92 0.00 34.64 5.14
2176 5460 3.808771 CTCGATCCGCGTTCTCCCG 62.809 68.421 4.92 0.00 41.80 5.14
2177 5461 2.026301 CTCGATCCGCGTTCTCCC 59.974 66.667 4.92 0.00 41.80 4.30
2178 5462 2.655685 GCTCGATCCGCGTTCTCC 60.656 66.667 4.92 0.00 41.80 3.71
2179 5463 3.019545 CGCTCGATCCGCGTTCTC 61.020 66.667 14.00 0.00 45.13 2.87
2185 5469 2.799540 GAACAACCGCTCGATCCGC 61.800 63.158 0.00 0.00 0.00 5.54
2186 5470 2.165301 GGAACAACCGCTCGATCCG 61.165 63.158 0.00 0.00 0.00 4.18
2187 5471 1.079405 TGGAACAACCGCTCGATCC 60.079 57.895 0.00 0.00 42.61 3.36
2188 5472 1.084370 CCTGGAACAACCGCTCGATC 61.084 60.000 0.00 0.00 42.61 3.69
2189 5473 1.079127 CCTGGAACAACCGCTCGAT 60.079 57.895 0.00 0.00 42.61 3.59
2190 5474 2.342279 CCTGGAACAACCGCTCGA 59.658 61.111 0.00 0.00 42.61 4.04
2191 5475 2.030562 ACCTGGAACAACCGCTCG 59.969 61.111 0.00 0.00 42.61 5.03
2192 5476 1.966451 CCACCTGGAACAACCGCTC 60.966 63.158 0.00 0.00 42.61 5.03
2193 5477 2.113139 CCACCTGGAACAACCGCT 59.887 61.111 0.00 0.00 42.61 5.52
2194 5478 2.983592 CCCACCTGGAACAACCGC 60.984 66.667 0.00 0.00 42.61 5.68
2195 5479 2.983592 GCCCACCTGGAACAACCG 60.984 66.667 0.00 0.00 42.61 4.44
2196 5480 2.600470 GGCCCACCTGGAACAACC 60.600 66.667 0.00 0.00 38.70 3.77
2197 5481 2.983592 CGGCCCACCTGGAACAAC 60.984 66.667 0.00 0.00 38.70 3.32
2198 5482 4.278513 CCGGCCCACCTGGAACAA 62.279 66.667 0.00 0.00 38.70 2.83
2210 5494 4.710167 ACACTTAACGGGCCGGCC 62.710 66.667 38.57 38.57 0.00 6.13
2211 5495 1.798234 AAAACACTTAACGGGCCGGC 61.798 55.000 31.78 21.18 0.00 6.13
2212 5496 0.239082 GAAAACACTTAACGGGCCGG 59.761 55.000 31.78 14.93 0.00 6.13
2213 5497 0.945813 TGAAAACACTTAACGGGCCG 59.054 50.000 27.06 27.06 0.00 6.13
2214 5498 1.951602 ACTGAAAACACTTAACGGGCC 59.048 47.619 0.00 0.00 0.00 5.80
2215 5499 5.151389 CAATACTGAAAACACTTAACGGGC 58.849 41.667 0.00 0.00 0.00 6.13
2216 5500 5.151389 GCAATACTGAAAACACTTAACGGG 58.849 41.667 0.00 0.00 0.00 5.28
2217 5501 5.151389 GGCAATACTGAAAACACTTAACGG 58.849 41.667 0.00 0.00 0.00 4.44
2218 5502 4.843984 CGGCAATACTGAAAACACTTAACG 59.156 41.667 0.00 0.00 0.00 3.18
2219 5503 5.151389 CCGGCAATACTGAAAACACTTAAC 58.849 41.667 0.00 0.00 0.00 2.01
2220 5504 4.822896 ACCGGCAATACTGAAAACACTTAA 59.177 37.500 0.00 0.00 0.00 1.85
2221 5505 4.391155 ACCGGCAATACTGAAAACACTTA 58.609 39.130 0.00 0.00 0.00 2.24
2222 5506 3.219281 ACCGGCAATACTGAAAACACTT 58.781 40.909 0.00 0.00 0.00 3.16
2223 5507 2.858745 ACCGGCAATACTGAAAACACT 58.141 42.857 0.00 0.00 0.00 3.55
2224 5508 3.636282 AACCGGCAATACTGAAAACAC 57.364 42.857 0.00 0.00 0.00 3.32
2225 5509 4.657436 AAAACCGGCAATACTGAAAACA 57.343 36.364 0.00 0.00 0.00 2.83
2226 5510 5.048573 TCCTAAAACCGGCAATACTGAAAAC 60.049 40.000 0.00 0.00 0.00 2.43
2227 5511 5.071370 TCCTAAAACCGGCAATACTGAAAA 58.929 37.500 0.00 0.00 0.00 2.29
2228 5512 4.653868 TCCTAAAACCGGCAATACTGAAA 58.346 39.130 0.00 0.00 0.00 2.69
2229 5513 4.289238 TCCTAAAACCGGCAATACTGAA 57.711 40.909 0.00 0.00 0.00 3.02
2230 5514 3.985019 TCCTAAAACCGGCAATACTGA 57.015 42.857 0.00 0.00 0.00 3.41
2231 5515 4.457949 AGTTTCCTAAAACCGGCAATACTG 59.542 41.667 0.00 0.00 44.87 2.74
2232 5516 4.659115 AGTTTCCTAAAACCGGCAATACT 58.341 39.130 0.00 0.00 44.87 2.12
2233 5517 5.048573 TGAAGTTTCCTAAAACCGGCAATAC 60.049 40.000 0.00 0.00 44.87 1.89
2234 5518 5.071370 TGAAGTTTCCTAAAACCGGCAATA 58.929 37.500 0.00 0.00 44.87 1.90
2235 5519 3.892588 TGAAGTTTCCTAAAACCGGCAAT 59.107 39.130 0.00 0.00 44.87 3.56
2236 5520 3.288964 TGAAGTTTCCTAAAACCGGCAA 58.711 40.909 0.00 0.00 44.87 4.52
2237 5521 2.933573 TGAAGTTTCCTAAAACCGGCA 58.066 42.857 0.00 0.00 44.87 5.69
2238 5522 3.994204 TTGAAGTTTCCTAAAACCGGC 57.006 42.857 0.00 0.00 44.87 6.13
2239 5523 5.516996 GTCTTTGAAGTTTCCTAAAACCGG 58.483 41.667 0.00 0.00 44.87 5.28
2240 5524 5.202640 CGTCTTTGAAGTTTCCTAAAACCG 58.797 41.667 0.00 0.00 44.87 4.44
2241 5525 6.127810 ACGTCTTTGAAGTTTCCTAAAACC 57.872 37.500 0.00 0.00 44.87 3.27
2242 5526 6.690098 GGAACGTCTTTGAAGTTTCCTAAAAC 59.310 38.462 0.00 0.00 44.24 2.43
2243 5527 6.374894 TGGAACGTCTTTGAAGTTTCCTAAAA 59.625 34.615 15.72 0.00 34.74 1.52
2244 5528 5.881443 TGGAACGTCTTTGAAGTTTCCTAAA 59.119 36.000 15.72 0.00 34.74 1.85
2245 5529 5.430007 TGGAACGTCTTTGAAGTTTCCTAA 58.570 37.500 15.72 2.83 34.74 2.69
2246 5530 5.026038 TGGAACGTCTTTGAAGTTTCCTA 57.974 39.130 15.72 6.46 34.74 2.94
2247 5531 3.877508 CTGGAACGTCTTTGAAGTTTCCT 59.122 43.478 15.72 0.00 34.74 3.36
2248 5532 3.548214 GCTGGAACGTCTTTGAAGTTTCC 60.548 47.826 0.00 11.35 34.74 3.13
2249 5533 3.548214 GGCTGGAACGTCTTTGAAGTTTC 60.548 47.826 0.00 0.05 34.74 2.78
2250 5534 2.357952 GGCTGGAACGTCTTTGAAGTTT 59.642 45.455 0.00 0.00 34.74 2.66
2251 5535 1.947456 GGCTGGAACGTCTTTGAAGTT 59.053 47.619 0.00 0.00 37.01 2.66
2252 5536 1.594331 GGCTGGAACGTCTTTGAAGT 58.406 50.000 0.00 0.00 0.00 3.01
2253 5537 0.512952 CGGCTGGAACGTCTTTGAAG 59.487 55.000 0.00 0.00 0.00 3.02
2254 5538 0.105224 TCGGCTGGAACGTCTTTGAA 59.895 50.000 0.00 0.00 0.00 2.69
2255 5539 0.320374 ATCGGCTGGAACGTCTTTGA 59.680 50.000 0.00 0.00 0.00 2.69
2256 5540 1.128692 GAATCGGCTGGAACGTCTTTG 59.871 52.381 0.00 0.00 0.00 2.77
2257 5541 1.002087 AGAATCGGCTGGAACGTCTTT 59.998 47.619 0.00 0.00 0.00 2.52
2258 5542 0.608640 AGAATCGGCTGGAACGTCTT 59.391 50.000 0.00 0.00 0.00 3.01
2259 5543 0.608640 AAGAATCGGCTGGAACGTCT 59.391 50.000 0.00 0.00 0.00 4.18
2260 5544 1.439679 AAAGAATCGGCTGGAACGTC 58.560 50.000 0.00 0.00 0.00 4.34
2261 5545 1.892209 AAAAGAATCGGCTGGAACGT 58.108 45.000 0.00 0.00 0.00 3.99
2262 5546 2.989422 AAAAAGAATCGGCTGGAACG 57.011 45.000 0.00 0.00 0.00 3.95
2293 5577 0.401738 TTCAGGAACCTGCTGGAAGG 59.598 55.000 17.64 0.65 43.31 3.46
2294 5578 1.528129 GTTCAGGAACCTGCTGGAAG 58.472 55.000 17.64 1.37 43.31 3.46
2295 5579 3.725754 GTTCAGGAACCTGCTGGAA 57.274 52.632 17.64 2.75 43.31 3.53
2321 5605 8.019769 ACGAAAAAGAAACGGAAAATGAAAAA 57.980 26.923 0.00 0.00 0.00 1.94
2322 5606 7.583860 ACGAAAAAGAAACGGAAAATGAAAA 57.416 28.000 0.00 0.00 0.00 2.29
2323 5607 7.583860 AACGAAAAAGAAACGGAAAATGAAA 57.416 28.000 0.00 0.00 0.00 2.69
2324 5608 7.583860 AAACGAAAAAGAAACGGAAAATGAA 57.416 28.000 0.00 0.00 0.00 2.57
2325 5609 7.583860 AAAACGAAAAAGAAACGGAAAATGA 57.416 28.000 0.00 0.00 0.00 2.57
2347 5631 9.989869 AGAAAAACAACAAAGAAAAACGAAAAA 57.010 22.222 0.00 0.00 0.00 1.94
2348 5632 9.989869 AAGAAAAACAACAAAGAAAAACGAAAA 57.010 22.222 0.00 0.00 0.00 2.29
2349 5633 9.639636 GAAGAAAAACAACAAAGAAAAACGAAA 57.360 25.926 0.00 0.00 0.00 3.46
2350 5634 9.036671 AGAAGAAAAACAACAAAGAAAAACGAA 57.963 25.926 0.00 0.00 0.00 3.85
2351 5635 8.582433 AGAAGAAAAACAACAAAGAAAAACGA 57.418 26.923 0.00 0.00 0.00 3.85
2352 5636 9.644993 AAAGAAGAAAAACAACAAAGAAAAACG 57.355 25.926 0.00 0.00 0.00 3.60
2357 5641 9.541143 AGACAAAAGAAGAAAAACAACAAAGAA 57.459 25.926 0.00 0.00 0.00 2.52
2358 5642 9.191995 GAGACAAAAGAAGAAAAACAACAAAGA 57.808 29.630 0.00 0.00 0.00 2.52
2359 5643 9.196552 AGAGACAAAAGAAGAAAAACAACAAAG 57.803 29.630 0.00 0.00 0.00 2.77
2360 5644 9.541143 AAGAGACAAAAGAAGAAAAACAACAAA 57.459 25.926 0.00 0.00 0.00 2.83
2365 5649 9.301153 GCAATAAGAGACAAAAGAAGAAAAACA 57.699 29.630 0.00 0.00 0.00 2.83
2366 5650 9.521503 AGCAATAAGAGACAAAAGAAGAAAAAC 57.478 29.630 0.00 0.00 0.00 2.43
2400 5684 9.550406 TGGAAATAAGTAAAGACGAAAAGAAGA 57.450 29.630 0.00 0.00 0.00 2.87
2434 5718 8.669946 ACCAAAGAAAGAAACAAACAGAAAAA 57.330 26.923 0.00 0.00 0.00 1.94
2435 5719 8.669946 AACCAAAGAAAGAAACAAACAGAAAA 57.330 26.923 0.00 0.00 0.00 2.29
2436 5720 8.555361 CAAACCAAAGAAAGAAACAAACAGAAA 58.445 29.630 0.00 0.00 0.00 2.52
2437 5721 7.713073 ACAAACCAAAGAAAGAAACAAACAGAA 59.287 29.630 0.00 0.00 0.00 3.02
2438 5722 7.213678 ACAAACCAAAGAAAGAAACAAACAGA 58.786 30.769 0.00 0.00 0.00 3.41
2439 5723 7.420184 ACAAACCAAAGAAAGAAACAAACAG 57.580 32.000 0.00 0.00 0.00 3.16
2440 5724 7.793927 AACAAACCAAAGAAAGAAACAAACA 57.206 28.000 0.00 0.00 0.00 2.83


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

AutoCloner maintained by Alex Coulton.