Multiple sequence alignment - TraesCS7A01G202200

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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 TraesCS7A01G202200 chr7A 100.000 2417 0 0 1 2417 163917954 163915538 0.000000e+00 4464.0
1 TraesCS7A01G202200 chr7A 92.500 360 15 4 404 751 389135212 389135571 2.770000e-139 505.0
2 TraesCS7A01G202200 chr7A 80.110 362 69 1 1685 2043 46911795 46911434 1.420000e-67 267.0
3 TraesCS7A01G202200 chr7B 93.136 1253 69 7 806 2043 125066502 125065252 0.000000e+00 1821.0
4 TraesCS7A01G202200 chr7B 90.269 781 41 13 1 751 696289125 696288350 0.000000e+00 989.0
5 TraesCS7A01G202200 chr7B 86.813 91 10 2 2292 2381 628152045 628152134 1.530000e-17 100.0
6 TraesCS7A01G202200 chr7B 100.000 34 0 0 768 801 125066560 125066527 2.010000e-06 63.9
7 TraesCS7A01G202200 chr2A 93.578 763 24 3 1 752 429138853 429139601 0.000000e+00 1114.0
8 TraesCS7A01G202200 chr2A 87.690 788 38 18 1 752 4014797 4014033 0.000000e+00 863.0
9 TraesCS7A01G202200 chr2A 88.551 428 24 7 337 752 115032864 115033278 1.670000e-136 496.0
10 TraesCS7A01G202200 chr2A 73.421 380 82 16 1671 2042 131712219 131711851 9.070000e-25 124.0
11 TraesCS7A01G202200 chr2A 86.207 87 9 3 2281 2366 315264184 315264268 9.200000e-15 91.6
12 TraesCS7A01G202200 chr5A 92.308 767 43 7 1 752 547155815 547156580 0.000000e+00 1075.0
13 TraesCS7A01G202200 chr5A 89.240 697 32 8 1 656 12039853 12040547 0.000000e+00 832.0
14 TraesCS7A01G202200 chr5A 89.109 404 29 10 363 752 601841931 601842333 2.790000e-134 488.0
15 TraesCS7A01G202200 chr1A 92.539 764 30 6 1 752 265701283 265702031 0.000000e+00 1070.0
16 TraesCS7A01G202200 chr3A 90.956 774 31 7 1 749 18933624 18932865 0.000000e+00 1005.0
17 TraesCS7A01G202200 chr3A 89.258 391 27 8 374 750 739473648 739473259 2.170000e-130 475.0
18 TraesCS7A01G202200 chr7D 94.976 617 31 0 806 1422 163012482 163011866 0.000000e+00 968.0
19 TraesCS7A01G202200 chr7D 93.434 396 26 0 1648 2043 163011493 163011098 2.680000e-164 588.0
20 TraesCS7A01G202200 chr4B 90.497 684 35 8 1 656 99008311 99007630 0.000000e+00 876.0
21 TraesCS7A01G202200 chr4B 89.474 76 8 0 2292 2367 522018674 522018599 1.980000e-16 97.1
22 TraesCS7A01G202200 chr6A 91.011 623 41 5 1 609 6912792 6913413 0.000000e+00 826.0
23 TraesCS7A01G202200 chr6A 91.908 346 15 5 422 754 450260874 450261219 2.810000e-129 472.0
24 TraesCS7A01G202200 chr5B 89.121 671 54 9 1 656 9529227 9528561 0.000000e+00 817.0
25 TraesCS7A01G202200 chr1B 88.109 698 39 11 1 656 675379496 675378801 0.000000e+00 789.0
26 TraesCS7A01G202200 chr1B 94.248 452 22 3 1 450 681075123 681075572 0.000000e+00 688.0
27 TraesCS7A01G202200 chr1B 89.474 76 8 0 2292 2367 5265836 5265911 1.980000e-16 97.1
28 TraesCS7A01G202200 chr1B 89.474 76 8 0 2292 2367 75939527 75939602 1.980000e-16 97.1
29 TraesCS7A01G202200 chr2B 74.868 378 86 7 1671 2042 178731916 178731542 1.920000e-36 163.0
30 TraesCS7A01G202200 chr2B 88.608 79 9 0 2289 2367 32944860 32944938 1.980000e-16 97.1
31 TraesCS7A01G202200 chr2D 74.211 380 85 11 1671 2042 125344746 125344372 1.940000e-31 147.0
32 TraesCS7A01G202200 chr2D 89.474 76 8 0 2292 2367 376293850 376293775 1.980000e-16 97.1
33 TraesCS7A01G202200 chrUn 88.608 79 9 0 2289 2367 16537567 16537645 1.980000e-16 97.1
34 TraesCS7A01G202200 chr3B 87.342 79 10 0 2289 2367 273439402 273439324 9.200000e-15 91.6


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 TraesCS7A01G202200 chr7A 163915538 163917954 2416 True 4464.00 4464 100.000 1 2417 1 chr7A.!!$R2 2416
1 TraesCS7A01G202200 chr7B 696288350 696289125 775 True 989.00 989 90.269 1 751 1 chr7B.!!$R1 750
2 TraesCS7A01G202200 chr7B 125065252 125066560 1308 True 942.45 1821 96.568 768 2043 2 chr7B.!!$R2 1275
3 TraesCS7A01G202200 chr2A 429138853 429139601 748 False 1114.00 1114 93.578 1 752 1 chr2A.!!$F3 751
4 TraesCS7A01G202200 chr2A 4014033 4014797 764 True 863.00 863 87.690 1 752 1 chr2A.!!$R1 751
5 TraesCS7A01G202200 chr5A 547155815 547156580 765 False 1075.00 1075 92.308 1 752 1 chr5A.!!$F2 751
6 TraesCS7A01G202200 chr5A 12039853 12040547 694 False 832.00 832 89.240 1 656 1 chr5A.!!$F1 655
7 TraesCS7A01G202200 chr1A 265701283 265702031 748 False 1070.00 1070 92.539 1 752 1 chr1A.!!$F1 751
8 TraesCS7A01G202200 chr3A 18932865 18933624 759 True 1005.00 1005 90.956 1 749 1 chr3A.!!$R1 748
9 TraesCS7A01G202200 chr7D 163011098 163012482 1384 True 778.00 968 94.205 806 2043 2 chr7D.!!$R1 1237
10 TraesCS7A01G202200 chr4B 99007630 99008311 681 True 876.00 876 90.497 1 656 1 chr4B.!!$R1 655
11 TraesCS7A01G202200 chr6A 6912792 6913413 621 False 826.00 826 91.011 1 609 1 chr6A.!!$F1 608
12 TraesCS7A01G202200 chr5B 9528561 9529227 666 True 817.00 817 89.121 1 656 1 chr5B.!!$R1 655
13 TraesCS7A01G202200 chr1B 675378801 675379496 695 True 789.00 789 88.109 1 656 1 chr1B.!!$R1 655

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
901 1008 0.24636 CCCTTCGCCATTTTTCCCAC 59.754 55.0 0.0 0.0 0.0 4.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2267 2539 0.108396 ATTTTGGGTTGGGCTGCAAC 59.892 50.0 0.5 0.0 0.0 4.17 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
58 59 5.680619 TCATTCATTATGGTGTCACTACCC 58.319 41.667 2.35 0.00 40.09 3.69
250 251 0.749454 CAGAGGAGAAAATGGCGGGG 60.749 60.000 0.00 0.00 0.00 5.73
360 361 1.667756 GGAACGGATTTGCGGGAAAAC 60.668 52.381 0.00 0.00 0.00 2.43
401 416 4.941309 AACGGGTGGCGGGAACAC 62.941 66.667 0.00 0.00 38.10 3.32
458 502 1.828979 AACGGGTGGCGACAAAATAT 58.171 45.000 0.00 0.00 46.06 1.28
506 560 2.159156 GCCCAAAAAGTGACTTTTCGGT 60.159 45.455 22.26 7.24 41.98 4.69
582 636 2.603008 CCAGGGGATGGCCGAAAT 59.397 61.111 0.00 0.00 43.83 2.17
592 646 4.262894 GGGATGGCCGAAATCTATACTTCA 60.263 45.833 0.00 0.00 33.83 3.02
801 888 4.646945 CAGAAGCTTCTCCCATCTACTACA 59.353 45.833 26.18 0.00 34.74 2.74
804 891 2.034812 GCTTCTCCCATCTACTACACCG 59.965 54.545 0.00 0.00 0.00 4.94
881 988 3.808692 TATTGCCCCCATCGTTCCAGC 62.809 57.143 0.00 0.00 0.00 4.85
901 1008 0.246360 CCCTTCGCCATTTTTCCCAC 59.754 55.000 0.00 0.00 0.00 4.61
946 1053 0.525761 CAATTCCCAACCGTGCGATT 59.474 50.000 0.00 0.00 0.00 3.34
1059 1174 4.530857 CTCTACGCCCGCCCCTTG 62.531 72.222 0.00 0.00 0.00 3.61
1209 1324 4.840005 GCGGCGAAGGAGAAGGGG 62.840 72.222 12.98 0.00 0.00 4.79
1227 1342 0.981943 GGAAGGAGGGAAACGAGGAA 59.018 55.000 0.00 0.00 0.00 3.36
1233 1348 0.836400 AGGGAAACGAGGAAGAGGCA 60.836 55.000 0.00 0.00 0.00 4.75
1455 1574 1.002366 CAGGAATACTGTCACTGCGC 58.998 55.000 0.00 0.00 42.42 6.09
1459 1578 1.656095 GAATACTGTCACTGCGCTGTC 59.344 52.381 17.75 8.03 0.00 3.51
1460 1579 0.456824 ATACTGTCACTGCGCTGTCG 60.457 55.000 17.75 12.80 39.07 4.35
1462 1581 3.848347 CTGTCACTGCGCTGTCGGT 62.848 63.158 17.75 0.94 35.95 4.69
1467 1586 2.049526 CTGCGCTGTCGGTGTGTA 60.050 61.111 9.73 0.00 35.95 2.90
1475 1596 0.097499 TGTCGGTGTGTATACGAGCG 59.903 55.000 16.17 16.17 37.30 5.03
1510 1631 6.203530 TCACTTGTGAAGTTGTGATCTGAATC 59.796 38.462 0.44 0.00 40.46 2.52
1536 1658 9.201127 CAAGTAATCTGATGAATATCGTGTGAT 57.799 33.333 0.00 0.00 36.04 3.06
1586 1763 8.034215 TGCTTATGATAAACTGAAACATTTGGG 58.966 33.333 0.00 0.00 0.00 4.12
1655 1927 6.365247 CACTGCAGAAATTTTGATTTCTCTGG 59.635 38.462 23.35 7.00 45.94 3.86
1657 1929 5.305128 TGCAGAAATTTTGATTTCTCTGGGT 59.695 36.000 10.53 0.00 45.94 4.51
1808 2080 0.249398 ACTTGAGGCCGTCCATGTAC 59.751 55.000 0.00 0.00 33.74 2.90
1811 2083 2.285069 AGGCCGTCCATGTACCCA 60.285 61.111 0.00 0.00 33.74 4.51
1812 2084 1.692749 AGGCCGTCCATGTACCCAT 60.693 57.895 0.00 0.00 33.74 4.00
1827 2099 0.995024 CCCATTCCTGTTCACCTCCT 59.005 55.000 0.00 0.00 0.00 3.69
1828 2100 1.340405 CCCATTCCTGTTCACCTCCTG 60.340 57.143 0.00 0.00 0.00 3.86
1833 2105 1.059913 CCTGTTCACCTCCTGGTTCT 58.940 55.000 0.00 0.00 46.05 3.01
1909 2181 4.473520 CGCCTGGGAGAACGGCAT 62.474 66.667 0.00 0.00 43.95 4.40
1912 2184 2.270205 CTGGGAGAACGGCATGCT 59.730 61.111 18.92 0.00 0.00 3.79
1913 2185 1.522092 CTGGGAGAACGGCATGCTA 59.478 57.895 18.92 0.00 0.00 3.49
1994 2266 1.446272 GAAGAGCACGTTCTCCGGG 60.446 63.158 11.75 0.00 45.00 5.73
2043 2315 2.463589 GATGTGGTCCCAGAACGGCA 62.464 60.000 0.00 0.00 0.00 5.69
2044 2316 2.063015 ATGTGGTCCCAGAACGGCAA 62.063 55.000 0.00 0.00 0.00 4.52
2045 2317 1.527380 GTGGTCCCAGAACGGCAAA 60.527 57.895 0.00 0.00 0.00 3.68
2046 2318 0.893727 GTGGTCCCAGAACGGCAAAT 60.894 55.000 0.00 0.00 0.00 2.32
2047 2319 0.608035 TGGTCCCAGAACGGCAAATC 60.608 55.000 0.00 0.00 0.00 2.17
2048 2320 0.322546 GGTCCCAGAACGGCAAATCT 60.323 55.000 0.00 0.00 0.00 2.40
2049 2321 1.534729 GTCCCAGAACGGCAAATCTT 58.465 50.000 0.00 0.00 0.00 2.40
2050 2322 1.200020 GTCCCAGAACGGCAAATCTTG 59.800 52.381 0.00 0.00 0.00 3.02
2051 2323 0.527565 CCCAGAACGGCAAATCTTGG 59.472 55.000 0.00 0.00 0.00 3.61
2052 2324 0.527565 CCAGAACGGCAAATCTTGGG 59.472 55.000 0.00 0.00 0.00 4.12
2053 2325 0.527565 CAGAACGGCAAATCTTGGGG 59.472 55.000 0.00 0.00 0.00 4.96
2054 2326 0.112412 AGAACGGCAAATCTTGGGGT 59.888 50.000 0.00 0.00 0.00 4.95
2055 2327 0.966179 GAACGGCAAATCTTGGGGTT 59.034 50.000 0.00 0.00 0.00 4.11
2056 2328 1.343142 GAACGGCAAATCTTGGGGTTT 59.657 47.619 0.00 0.00 0.00 3.27
2057 2329 0.678950 ACGGCAAATCTTGGGGTTTG 59.321 50.000 0.00 0.00 38.13 2.93
2058 2330 0.678950 CGGCAAATCTTGGGGTTTGT 59.321 50.000 4.12 0.00 37.57 2.83
2059 2331 1.069978 CGGCAAATCTTGGGGTTTGTT 59.930 47.619 4.12 0.00 37.57 2.83
2060 2332 2.484594 CGGCAAATCTTGGGGTTTGTTT 60.485 45.455 4.12 0.00 37.57 2.83
2061 2333 3.550820 GGCAAATCTTGGGGTTTGTTTT 58.449 40.909 4.12 0.00 37.57 2.43
2062 2334 3.951037 GGCAAATCTTGGGGTTTGTTTTT 59.049 39.130 4.12 0.00 37.57 1.94
2087 2359 7.893124 TGTTACTTTACCTAGTAGGAGATGG 57.107 40.000 23.50 10.48 37.67 3.51
2088 2360 6.323225 TGTTACTTTACCTAGTAGGAGATGGC 59.677 42.308 23.50 6.38 37.67 4.40
2089 2361 4.880164 ACTTTACCTAGTAGGAGATGGCA 58.120 43.478 23.50 0.00 37.67 4.92
2090 2362 5.278061 ACTTTACCTAGTAGGAGATGGCAA 58.722 41.667 23.50 3.81 37.67 4.52
2091 2363 5.724854 ACTTTACCTAGTAGGAGATGGCAAA 59.275 40.000 23.50 9.19 37.67 3.68
2092 2364 6.387220 ACTTTACCTAGTAGGAGATGGCAAAT 59.613 38.462 23.50 0.00 37.67 2.32
2093 2365 4.965200 ACCTAGTAGGAGATGGCAAATC 57.035 45.455 23.50 0.00 37.67 2.17
2094 2366 4.561752 ACCTAGTAGGAGATGGCAAATCT 58.438 43.478 23.50 0.99 37.67 2.40
2095 2367 4.971924 ACCTAGTAGGAGATGGCAAATCTT 59.028 41.667 23.50 0.00 37.67 2.40
2096 2368 5.163258 ACCTAGTAGGAGATGGCAAATCTTG 60.163 44.000 23.50 0.00 37.67 3.02
2123 2395 3.552132 TTTGCCCCCAAAAGTTTCTTC 57.448 42.857 0.00 0.00 37.97 2.87
2124 2396 2.470057 TGCCCCCAAAAGTTTCTTCT 57.530 45.000 0.00 0.00 0.00 2.85
2125 2397 2.758130 TGCCCCCAAAAGTTTCTTCTT 58.242 42.857 0.00 0.00 0.00 2.52
2126 2398 3.111484 TGCCCCCAAAAGTTTCTTCTTT 58.889 40.909 0.00 0.00 39.00 2.52
2127 2399 3.133901 TGCCCCCAAAAGTTTCTTCTTTC 59.866 43.478 0.00 0.00 36.75 2.62
2128 2400 3.494398 GCCCCCAAAAGTTTCTTCTTTCC 60.494 47.826 0.00 0.00 36.75 3.13
2129 2401 3.967326 CCCCCAAAAGTTTCTTCTTTCCT 59.033 43.478 0.00 0.00 36.75 3.36
2130 2402 5.144832 CCCCCAAAAGTTTCTTCTTTCCTA 58.855 41.667 0.00 0.00 36.75 2.94
2131 2403 5.600898 CCCCCAAAAGTTTCTTCTTTCCTAA 59.399 40.000 0.00 0.00 36.75 2.69
2132 2404 6.099125 CCCCCAAAAGTTTCTTCTTTCCTAAA 59.901 38.462 0.00 0.00 36.75 1.85
2133 2405 7.365206 CCCCCAAAAGTTTCTTCTTTCCTAAAA 60.365 37.037 0.00 0.00 36.75 1.52
2134 2406 8.044309 CCCCAAAAGTTTCTTCTTTCCTAAAAA 58.956 33.333 0.00 0.00 36.75 1.94
2155 2427 6.828502 AAAAAGAGAAGAAATTGCCGTTTC 57.171 33.333 3.44 3.44 38.16 2.78
2157 2429 4.756084 AGAGAAGAAATTGCCGTTTCTG 57.244 40.909 12.49 0.00 45.18 3.02
2158 2430 4.389374 AGAGAAGAAATTGCCGTTTCTGA 58.611 39.130 12.49 0.00 45.18 3.27
2159 2431 4.453819 AGAGAAGAAATTGCCGTTTCTGAG 59.546 41.667 12.49 0.00 45.18 3.35
2160 2432 3.503748 AGAAGAAATTGCCGTTTCTGAGG 59.496 43.478 12.49 0.00 45.18 3.86
2161 2433 3.140325 AGAAATTGCCGTTTCTGAGGA 57.860 42.857 11.34 0.00 44.46 3.71
2162 2434 3.486383 AGAAATTGCCGTTTCTGAGGAA 58.514 40.909 11.34 0.00 44.46 3.36
2163 2435 3.888930 AGAAATTGCCGTTTCTGAGGAAA 59.111 39.130 11.34 0.00 44.46 3.13
2164 2436 4.524328 AGAAATTGCCGTTTCTGAGGAAAT 59.476 37.500 11.34 0.00 44.46 2.17
2165 2437 4.871933 AATTGCCGTTTCTGAGGAAATT 57.128 36.364 0.00 0.00 42.45 1.82
2166 2438 3.641437 TTGCCGTTTCTGAGGAAATTG 57.359 42.857 0.00 0.00 42.45 2.32
2167 2439 2.582052 TGCCGTTTCTGAGGAAATTGT 58.418 42.857 0.00 0.00 42.45 2.71
2168 2440 2.552315 TGCCGTTTCTGAGGAAATTGTC 59.448 45.455 0.00 0.00 42.45 3.18
2169 2441 2.552315 GCCGTTTCTGAGGAAATTGTCA 59.448 45.455 0.00 0.00 42.45 3.58
2170 2442 3.004315 GCCGTTTCTGAGGAAATTGTCAA 59.996 43.478 0.00 0.00 42.45 3.18
2171 2443 4.537015 CCGTTTCTGAGGAAATTGTCAAC 58.463 43.478 0.00 0.00 42.45 3.18
2172 2444 4.036262 CCGTTTCTGAGGAAATTGTCAACA 59.964 41.667 0.00 0.00 42.45 3.33
2173 2445 5.449862 CCGTTTCTGAGGAAATTGTCAACAA 60.450 40.000 0.00 0.00 42.45 2.83
2174 2446 5.682862 CGTTTCTGAGGAAATTGTCAACAAG 59.317 40.000 1.69 0.00 42.45 3.16
2175 2447 6.564328 GTTTCTGAGGAAATTGTCAACAAGT 58.436 36.000 1.69 0.00 42.45 3.16
2176 2448 7.466725 CGTTTCTGAGGAAATTGTCAACAAGTA 60.467 37.037 1.69 0.00 42.45 2.24
2177 2449 7.496529 TTCTGAGGAAATTGTCAACAAGTAG 57.503 36.000 1.69 0.00 39.47 2.57
2178 2450 6.826668 TCTGAGGAAATTGTCAACAAGTAGA 58.173 36.000 1.69 0.00 39.47 2.59
2179 2451 6.931281 TCTGAGGAAATTGTCAACAAGTAGAG 59.069 38.462 1.69 0.00 39.47 2.43
2180 2452 6.591935 TGAGGAAATTGTCAACAAGTAGAGT 58.408 36.000 1.69 0.00 39.47 3.24
2181 2453 7.732025 TGAGGAAATTGTCAACAAGTAGAGTA 58.268 34.615 1.69 0.00 39.47 2.59
2182 2454 7.872993 TGAGGAAATTGTCAACAAGTAGAGTAG 59.127 37.037 1.69 0.00 39.47 2.57
2183 2455 7.736893 AGGAAATTGTCAACAAGTAGAGTAGT 58.263 34.615 1.69 0.00 39.47 2.73
2184 2456 8.867097 AGGAAATTGTCAACAAGTAGAGTAGTA 58.133 33.333 1.69 0.00 39.47 1.82
2185 2457 9.141400 GGAAATTGTCAACAAGTAGAGTAGTAG 57.859 37.037 1.69 0.00 39.47 2.57
2186 2458 9.909644 GAAATTGTCAACAAGTAGAGTAGTAGA 57.090 33.333 1.69 0.00 39.47 2.59
2187 2459 9.694137 AAATTGTCAACAAGTAGAGTAGTAGAC 57.306 33.333 1.69 0.00 39.47 2.59
2188 2460 8.638629 ATTGTCAACAAGTAGAGTAGTAGACT 57.361 34.615 1.69 0.00 39.29 3.24
2189 2461 8.732531 ATTGTCAACAAGTAGAGTAGTAGACTC 58.267 37.037 1.69 0.00 45.79 3.36
2202 2474 7.002816 AGTAGTAGACTCGACATCTAAAACG 57.997 40.000 3.72 0.00 29.95 3.60
2203 2475 5.876612 AGTAGACTCGACATCTAAAACGT 57.123 39.130 3.72 0.00 30.52 3.99
2204 2476 6.251655 AGTAGACTCGACATCTAAAACGTT 57.748 37.500 0.00 0.00 30.52 3.99
2205 2477 6.313252 AGTAGACTCGACATCTAAAACGTTC 58.687 40.000 0.00 0.00 30.52 3.95
2206 2478 4.156915 AGACTCGACATCTAAAACGTTCG 58.843 43.478 0.00 0.00 0.00 3.95
2207 2479 3.893720 ACTCGACATCTAAAACGTTCGT 58.106 40.909 0.00 0.00 0.00 3.85
2208 2480 5.034554 ACTCGACATCTAAAACGTTCGTA 57.965 39.130 0.00 0.00 0.00 3.43
2209 2481 5.451908 ACTCGACATCTAAAACGTTCGTAA 58.548 37.500 0.00 0.00 0.00 3.18
2210 2482 5.914635 ACTCGACATCTAAAACGTTCGTAAA 59.085 36.000 0.00 0.00 0.00 2.01
2211 2483 6.583806 ACTCGACATCTAAAACGTTCGTAAAT 59.416 34.615 0.00 0.00 0.00 1.40
2212 2484 6.744418 TCGACATCTAAAACGTTCGTAAATG 58.256 36.000 0.00 2.63 0.00 2.32
2213 2485 6.581919 TCGACATCTAAAACGTTCGTAAATGA 59.418 34.615 0.00 0.00 0.00 2.57
2214 2486 6.671616 CGACATCTAAAACGTTCGTAAATGAC 59.328 38.462 0.00 0.11 0.00 3.06
2215 2487 7.410800 ACATCTAAAACGTTCGTAAATGACA 57.589 32.000 0.00 0.00 0.00 3.58
2216 2488 8.025243 ACATCTAAAACGTTCGTAAATGACAT 57.975 30.769 0.00 0.00 0.00 3.06
2217 2489 7.955324 ACATCTAAAACGTTCGTAAATGACATG 59.045 33.333 0.00 0.00 0.00 3.21
2218 2490 7.410800 TCTAAAACGTTCGTAAATGACATGT 57.589 32.000 0.00 0.00 0.00 3.21
2219 2491 7.503991 TCTAAAACGTTCGTAAATGACATGTC 58.496 34.615 19.27 19.27 0.00 3.06
2220 2492 5.917541 AAACGTTCGTAAATGACATGTCT 57.082 34.783 25.55 9.24 0.00 3.41
2221 2493 7.410800 AAAACGTTCGTAAATGACATGTCTA 57.589 32.000 25.55 13.07 0.00 2.59
2222 2494 7.591006 AAACGTTCGTAAATGACATGTCTAT 57.409 32.000 25.55 14.66 0.00 1.98
2223 2495 7.591006 AACGTTCGTAAATGACATGTCTATT 57.409 32.000 25.55 20.66 0.00 1.73
2224 2496 7.591006 ACGTTCGTAAATGACATGTCTATTT 57.409 32.000 25.55 25.57 0.00 1.40
2225 2497 7.453034 ACGTTCGTAAATGACATGTCTATTTG 58.547 34.615 27.97 19.54 0.00 2.32
2226 2498 6.408039 CGTTCGTAAATGACATGTCTATTTGC 59.592 38.462 27.97 26.26 0.00 3.68
2227 2499 6.031549 TCGTAAATGACATGTCTATTTGCG 57.968 37.500 34.73 34.73 41.32 4.85
2228 2500 5.808030 TCGTAAATGACATGTCTATTTGCGA 59.192 36.000 36.41 36.41 43.24 5.10
2229 2501 6.311690 TCGTAAATGACATGTCTATTTGCGAA 59.688 34.615 37.01 29.29 42.97 4.70
2230 2502 7.011016 TCGTAAATGACATGTCTATTTGCGAAT 59.989 33.333 37.01 20.38 42.97 3.34
2231 2503 7.110628 CGTAAATGACATGTCTATTTGCGAATG 59.889 37.037 35.75 22.68 41.78 2.67
2232 2504 6.441093 AATGACATGTCTATTTGCGAATGT 57.559 33.333 25.55 0.00 0.00 2.71
2233 2505 5.878332 TGACATGTCTATTTGCGAATGTT 57.122 34.783 25.55 0.00 0.00 2.71
2234 2506 5.868257 TGACATGTCTATTTGCGAATGTTC 58.132 37.500 25.55 0.46 0.00 3.18
2249 2521 5.741425 CGAATGTTCGCAGATAATTGATGT 58.259 37.500 1.90 0.00 44.26 3.06
2250 2522 6.194463 CGAATGTTCGCAGATAATTGATGTT 58.806 36.000 1.90 0.00 44.26 2.71
2251 2523 6.688385 CGAATGTTCGCAGATAATTGATGTTT 59.312 34.615 1.90 0.00 44.26 2.83
2252 2524 7.850492 CGAATGTTCGCAGATAATTGATGTTTA 59.150 33.333 1.90 0.00 44.26 2.01
2253 2525 9.669353 GAATGTTCGCAGATAATTGATGTTTAT 57.331 29.630 0.00 0.00 35.04 1.40
2256 2528 9.853555 TGTTCGCAGATAATTGATGTTTATTTT 57.146 25.926 0.00 0.00 35.04 1.82
2268 2540 9.705290 ATTGATGTTTATTTTAAGAAAAGGCGT 57.295 25.926 0.00 0.00 33.22 5.68
2269 2541 9.535878 TTGATGTTTATTTTAAGAAAAGGCGTT 57.464 25.926 0.00 0.00 33.22 4.84
2270 2542 8.973378 TGATGTTTATTTTAAGAAAAGGCGTTG 58.027 29.630 0.00 0.00 33.22 4.10
2271 2543 7.167831 TGTTTATTTTAAGAAAAGGCGTTGC 57.832 32.000 0.00 0.00 33.22 4.17
2272 2544 6.757010 TGTTTATTTTAAGAAAAGGCGTTGCA 59.243 30.769 0.00 0.00 33.22 4.08
2273 2545 7.043059 TGTTTATTTTAAGAAAAGGCGTTGCAG 60.043 33.333 0.00 0.00 33.22 4.41
2274 2546 2.415697 TTAAGAAAAGGCGTTGCAGC 57.584 45.000 0.00 0.00 0.00 5.25
2284 2556 3.225235 GTTGCAGCCCAACCCAAA 58.775 55.556 6.58 0.00 46.44 3.28
2285 2557 1.524482 GTTGCAGCCCAACCCAAAA 59.476 52.632 6.58 0.00 46.44 2.44
2286 2558 0.108396 GTTGCAGCCCAACCCAAAAT 59.892 50.000 6.58 0.00 46.44 1.82
2287 2559 1.346068 GTTGCAGCCCAACCCAAAATA 59.654 47.619 6.58 0.00 46.44 1.40
2288 2560 1.722034 TGCAGCCCAACCCAAAATAA 58.278 45.000 0.00 0.00 0.00 1.40
2289 2561 2.264455 TGCAGCCCAACCCAAAATAAT 58.736 42.857 0.00 0.00 0.00 1.28
2290 2562 2.027377 TGCAGCCCAACCCAAAATAATG 60.027 45.455 0.00 0.00 0.00 1.90
2291 2563 2.027285 GCAGCCCAACCCAAAATAATGT 60.027 45.455 0.00 0.00 0.00 2.71
2292 2564 3.196685 GCAGCCCAACCCAAAATAATGTA 59.803 43.478 0.00 0.00 0.00 2.29
2293 2565 4.754322 CAGCCCAACCCAAAATAATGTAC 58.246 43.478 0.00 0.00 0.00 2.90
2294 2566 4.466015 CAGCCCAACCCAAAATAATGTACT 59.534 41.667 0.00 0.00 0.00 2.73
2295 2567 4.709886 AGCCCAACCCAAAATAATGTACTC 59.290 41.667 0.00 0.00 0.00 2.59
2296 2568 4.709886 GCCCAACCCAAAATAATGTACTCT 59.290 41.667 0.00 0.00 0.00 3.24
2297 2569 5.163550 GCCCAACCCAAAATAATGTACTCTC 60.164 44.000 0.00 0.00 0.00 3.20
2298 2570 6.187682 CCCAACCCAAAATAATGTACTCTCT 58.812 40.000 0.00 0.00 0.00 3.10
2299 2571 6.318900 CCCAACCCAAAATAATGTACTCTCTC 59.681 42.308 0.00 0.00 0.00 3.20
2300 2572 6.318900 CCAACCCAAAATAATGTACTCTCTCC 59.681 42.308 0.00 0.00 0.00 3.71
2301 2573 5.671493 ACCCAAAATAATGTACTCTCTCCG 58.329 41.667 0.00 0.00 0.00 4.63
2302 2574 5.189145 ACCCAAAATAATGTACTCTCTCCGT 59.811 40.000 0.00 0.00 0.00 4.69
2303 2575 6.113411 CCCAAAATAATGTACTCTCTCCGTT 58.887 40.000 0.00 0.00 0.00 4.44
2304 2576 6.258068 CCCAAAATAATGTACTCTCTCCGTTC 59.742 42.308 0.00 0.00 0.00 3.95
2305 2577 7.042335 CCAAAATAATGTACTCTCTCCGTTCT 58.958 38.462 0.00 0.00 0.00 3.01
2306 2578 8.195436 CCAAAATAATGTACTCTCTCCGTTCTA 58.805 37.037 0.00 0.00 0.00 2.10
2307 2579 9.582431 CAAAATAATGTACTCTCTCCGTTCTAA 57.418 33.333 0.00 0.00 0.00 2.10
2313 2585 9.503399 AATGTACTCTCTCCGTTCTAAATTTTT 57.497 29.630 0.00 0.00 0.00 1.94
2414 2686 6.428385 ACTAAAATTCTAGCATGACAGTGC 57.572 37.500 0.00 2.70 45.38 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
58 59 0.037697 TTCCATGGGACGAACTCACG 60.038 55.000 13.02 0.00 39.31 4.35
250 251 2.221055 CGCCATACCGCAGTTATTCTTC 59.779 50.000 0.00 0.00 0.00 2.87
350 351 3.291383 CCGCCTTGTTTTCCCGCA 61.291 61.111 0.00 0.00 0.00 5.69
360 361 1.754234 CCAATCCCTTCCCGCCTTG 60.754 63.158 0.00 0.00 0.00 3.61
401 416 3.439540 CACCCGTTTCCCGCCATG 61.440 66.667 0.00 0.00 34.38 3.66
472 516 1.702182 TTTGGGCTGAAGTTGCATGA 58.298 45.000 0.00 0.00 0.00 3.07
484 528 3.436700 CGAAAAGTCACTTTTTGGGCT 57.563 42.857 19.25 0.00 42.72 5.19
582 636 5.854010 CCACACTTAGGCTGAAGTATAGA 57.146 43.478 0.00 0.00 37.57 1.98
752 839 7.603024 GGAGTATGTATGTATGGGTAAAGCTTC 59.397 40.741 0.00 0.00 0.00 3.86
753 840 7.071950 TGGAGTATGTATGTATGGGTAAAGCTT 59.928 37.037 0.00 0.00 0.00 3.74
754 841 6.557253 TGGAGTATGTATGTATGGGTAAAGCT 59.443 38.462 0.00 0.00 0.00 3.74
755 842 6.765403 TGGAGTATGTATGTATGGGTAAAGC 58.235 40.000 0.00 0.00 0.00 3.51
756 843 8.190326 TCTGGAGTATGTATGTATGGGTAAAG 57.810 38.462 0.00 0.00 0.00 1.85
757 844 8.555896 TTCTGGAGTATGTATGTATGGGTAAA 57.444 34.615 0.00 0.00 0.00 2.01
758 845 7.256190 GCTTCTGGAGTATGTATGTATGGGTAA 60.256 40.741 0.00 0.00 0.00 2.85
759 846 6.210784 GCTTCTGGAGTATGTATGTATGGGTA 59.789 42.308 0.00 0.00 0.00 3.69
760 847 5.012148 GCTTCTGGAGTATGTATGTATGGGT 59.988 44.000 0.00 0.00 0.00 4.51
761 848 5.247110 AGCTTCTGGAGTATGTATGTATGGG 59.753 44.000 0.00 0.00 0.00 4.00
762 849 6.352016 AGCTTCTGGAGTATGTATGTATGG 57.648 41.667 0.00 0.00 0.00 2.74
763 850 7.665690 AGAAGCTTCTGGAGTATGTATGTATG 58.334 38.462 27.96 0.00 35.89 2.39
764 851 7.039363 GGAGAAGCTTCTGGAGTATGTATGTAT 60.039 40.741 33.07 3.00 37.73 2.29
765 852 6.265649 GGAGAAGCTTCTGGAGTATGTATGTA 59.734 42.308 33.07 0.00 37.73 2.29
766 853 5.069781 GGAGAAGCTTCTGGAGTATGTATGT 59.930 44.000 33.07 4.13 37.73 2.29
804 891 1.153997 GTTCGAGAGGCACGGAGAC 60.154 63.158 0.00 0.00 0.00 3.36
881 988 0.902516 TGGGAAAAATGGCGAAGGGG 60.903 55.000 0.00 0.00 0.00 4.79
882 989 0.246360 GTGGGAAAAATGGCGAAGGG 59.754 55.000 0.00 0.00 0.00 3.95
920 1027 0.316841 CGGTTGGGAATTGGTGTTGG 59.683 55.000 0.00 0.00 0.00 3.77
1197 1312 1.208706 CCTCCTTCCCCTTCTCCTTC 58.791 60.000 0.00 0.00 0.00 3.46
1209 1324 1.900486 TCTTCCTCGTTTCCCTCCTTC 59.100 52.381 0.00 0.00 0.00 3.46
1227 1342 3.550431 ACGTGCCACACTGCCTCT 61.550 61.111 0.00 0.00 31.34 3.69
1448 1567 3.705638 CACACCGACAGCGCAGTG 61.706 66.667 11.27 11.32 36.29 3.66
1455 1574 1.823828 GCTCGTATACACACCGACAG 58.176 55.000 3.32 0.00 0.00 3.51
1459 1578 0.864377 CACCGCTCGTATACACACCG 60.864 60.000 3.32 0.00 0.00 4.94
1460 1579 0.171903 ACACCGCTCGTATACACACC 59.828 55.000 3.32 0.00 0.00 4.16
1462 1581 0.457166 GCACACCGCTCGTATACACA 60.457 55.000 3.32 0.00 37.77 3.72
1467 1586 1.349259 GAAACGCACACCGCTCGTAT 61.349 55.000 0.00 0.00 41.76 3.06
1510 1631 8.579682 TCACACGATATTCATCAGATTACTTG 57.420 34.615 0.00 0.00 0.00 3.16
1536 1658 2.202703 TACACGATCACGCTTCCGCA 62.203 55.000 0.00 0.00 43.96 5.69
1655 1927 1.168714 GGCTCACATTCCAGTGAACC 58.831 55.000 1.31 1.31 46.90 3.62
1657 1929 0.038166 GGGGCTCACATTCCAGTGAA 59.962 55.000 0.00 0.00 46.90 3.18
1808 2080 0.995024 AGGAGGTGAACAGGAATGGG 59.005 55.000 0.00 0.00 0.00 4.00
1827 2099 0.891373 CTCGAGAGCCTGAAGAACCA 59.109 55.000 6.58 0.00 0.00 3.67
1828 2100 0.174617 CCTCGAGAGCCTGAAGAACC 59.825 60.000 15.71 0.00 0.00 3.62
1830 2102 0.613292 AGCCTCGAGAGCCTGAAGAA 60.613 55.000 15.71 0.00 0.00 2.52
1833 2105 3.011635 GCAGCCTCGAGAGCCTGAA 62.012 63.158 23.10 0.00 0.00 3.02
1897 2169 1.429148 CGTTAGCATGCCGTTCTCCC 61.429 60.000 15.66 0.00 0.00 4.30
1909 2181 4.703799 TCGCGCGGTTCGTTAGCA 62.704 61.111 31.69 2.53 41.07 3.49
1912 2184 3.902162 AAGCTCGCGCGGTTCGTTA 62.902 57.895 31.69 7.55 42.32 3.18
1934 2206 4.790861 GACCCCGCCGAGAACGTC 62.791 72.222 0.00 0.00 37.88 4.34
1952 2224 3.826754 TACGAGGAGCTGCTGCGG 61.827 66.667 14.48 13.67 45.42 5.69
2061 2333 8.755977 CCATCTCCTACTAGGTAAAGTAACAAA 58.244 37.037 1.83 0.00 36.53 2.83
2062 2334 7.147776 GCCATCTCCTACTAGGTAAAGTAACAA 60.148 40.741 1.83 0.00 36.53 2.83
2063 2335 6.323225 GCCATCTCCTACTAGGTAAAGTAACA 59.677 42.308 1.83 0.00 36.53 2.41
2064 2336 6.323225 TGCCATCTCCTACTAGGTAAAGTAAC 59.677 42.308 1.83 0.00 36.53 2.50
2065 2337 6.437755 TGCCATCTCCTACTAGGTAAAGTAA 58.562 40.000 1.83 0.00 36.53 2.24
2066 2338 6.022107 TGCCATCTCCTACTAGGTAAAGTA 57.978 41.667 1.83 0.00 36.53 2.24
2067 2339 4.880164 TGCCATCTCCTACTAGGTAAAGT 58.120 43.478 1.83 0.00 36.53 2.66
2068 2340 5.871396 TTGCCATCTCCTACTAGGTAAAG 57.129 43.478 1.83 0.00 36.53 1.85
2069 2341 6.615726 AGATTTGCCATCTCCTACTAGGTAAA 59.384 38.462 1.83 0.00 38.10 2.01
2070 2342 6.143915 AGATTTGCCATCTCCTACTAGGTAA 58.856 40.000 1.83 0.00 36.53 2.85
2071 2343 5.716979 AGATTTGCCATCTCCTACTAGGTA 58.283 41.667 1.83 0.00 36.53 3.08
2072 2344 4.561752 AGATTTGCCATCTCCTACTAGGT 58.438 43.478 1.83 0.00 36.53 3.08
2073 2345 5.303971 CAAGATTTGCCATCTCCTACTAGG 58.696 45.833 0.00 0.00 36.46 3.02
2101 2373 4.018870 AGAAGAAACTTTTGGGGGCAAAAA 60.019 37.500 0.00 0.00 34.18 1.94
2102 2374 3.521531 AGAAGAAACTTTTGGGGGCAAAA 59.478 39.130 0.00 0.00 33.58 2.44
2103 2375 3.111484 AGAAGAAACTTTTGGGGGCAAA 58.889 40.909 0.00 0.00 0.00 3.68
2104 2376 2.758130 AGAAGAAACTTTTGGGGGCAA 58.242 42.857 0.00 0.00 0.00 4.52
2105 2377 2.470057 AGAAGAAACTTTTGGGGGCA 57.530 45.000 0.00 0.00 0.00 5.36
2106 2378 3.494398 GGAAAGAAGAAACTTTTGGGGGC 60.494 47.826 0.00 0.00 39.71 5.80
2107 2379 3.967326 AGGAAAGAAGAAACTTTTGGGGG 59.033 43.478 0.00 0.00 39.71 5.40
2108 2380 6.724893 TTAGGAAAGAAGAAACTTTTGGGG 57.275 37.500 0.00 0.00 39.71 4.96
2132 2404 6.476706 CAGAAACGGCAATTTCTTCTCTTTTT 59.523 34.615 10.79 0.00 44.74 1.94
2133 2405 5.979517 CAGAAACGGCAATTTCTTCTCTTTT 59.020 36.000 10.79 0.00 44.74 2.27
2134 2406 5.299279 TCAGAAACGGCAATTTCTTCTCTTT 59.701 36.000 10.79 0.00 44.74 2.52
2135 2407 4.821805 TCAGAAACGGCAATTTCTTCTCTT 59.178 37.500 10.79 0.00 44.74 2.85
2136 2408 4.389374 TCAGAAACGGCAATTTCTTCTCT 58.611 39.130 10.79 0.00 44.74 3.10
2137 2409 4.378874 CCTCAGAAACGGCAATTTCTTCTC 60.379 45.833 10.79 0.00 44.74 2.87
2138 2410 3.503748 CCTCAGAAACGGCAATTTCTTCT 59.496 43.478 10.79 0.00 44.74 2.85
2139 2411 3.502211 TCCTCAGAAACGGCAATTTCTTC 59.498 43.478 10.79 0.00 44.74 2.87
2140 2412 3.486383 TCCTCAGAAACGGCAATTTCTT 58.514 40.909 10.79 0.00 44.74 2.52
2142 2414 3.915437 TTCCTCAGAAACGGCAATTTC 57.085 42.857 4.21 4.21 38.62 2.17
2143 2415 4.871933 ATTTCCTCAGAAACGGCAATTT 57.128 36.364 0.00 0.00 44.57 1.82
2144 2416 4.039124 ACAATTTCCTCAGAAACGGCAATT 59.961 37.500 0.00 0.00 44.57 2.32
2145 2417 3.573967 ACAATTTCCTCAGAAACGGCAAT 59.426 39.130 0.00 0.00 44.57 3.56
2146 2418 2.955660 ACAATTTCCTCAGAAACGGCAA 59.044 40.909 0.00 0.00 44.57 4.52
2147 2419 2.552315 GACAATTTCCTCAGAAACGGCA 59.448 45.455 0.00 0.00 44.57 5.69
2148 2420 2.552315 TGACAATTTCCTCAGAAACGGC 59.448 45.455 0.00 0.00 44.57 5.68
2149 2421 4.036262 TGTTGACAATTTCCTCAGAAACGG 59.964 41.667 0.00 0.00 44.57 4.44
2150 2422 5.168526 TGTTGACAATTTCCTCAGAAACG 57.831 39.130 0.00 0.00 44.57 3.60
2151 2423 6.564328 ACTTGTTGACAATTTCCTCAGAAAC 58.436 36.000 0.00 0.00 44.57 2.78
2152 2424 6.773976 ACTTGTTGACAATTTCCTCAGAAA 57.226 33.333 0.00 0.00 45.78 2.52
2153 2425 7.279615 TCTACTTGTTGACAATTTCCTCAGAA 58.720 34.615 0.00 0.00 35.02 3.02
2154 2426 6.826668 TCTACTTGTTGACAATTTCCTCAGA 58.173 36.000 0.00 0.00 35.02 3.27
2155 2427 6.708054 ACTCTACTTGTTGACAATTTCCTCAG 59.292 38.462 0.00 0.00 35.02 3.35
2156 2428 6.591935 ACTCTACTTGTTGACAATTTCCTCA 58.408 36.000 0.00 0.00 35.02 3.86
2157 2429 7.873505 ACTACTCTACTTGTTGACAATTTCCTC 59.126 37.037 0.00 0.00 35.02 3.71
2158 2430 7.736893 ACTACTCTACTTGTTGACAATTTCCT 58.263 34.615 0.00 0.00 35.02 3.36
2159 2431 7.964604 ACTACTCTACTTGTTGACAATTTCC 57.035 36.000 0.00 0.00 35.02 3.13
2160 2432 9.909644 TCTACTACTCTACTTGTTGACAATTTC 57.090 33.333 0.00 0.00 35.02 2.17
2161 2433 9.694137 GTCTACTACTCTACTTGTTGACAATTT 57.306 33.333 0.00 0.00 36.04 1.82
2162 2434 9.080097 AGTCTACTACTCTACTTGTTGACAATT 57.920 33.333 0.00 0.00 37.53 2.32
2163 2435 8.638629 AGTCTACTACTCTACTTGTTGACAAT 57.361 34.615 0.00 0.00 37.53 2.71
2178 2450 6.593382 ACGTTTTAGATGTCGAGTCTACTACT 59.407 38.462 6.91 0.00 42.80 2.57
2179 2451 6.770076 ACGTTTTAGATGTCGAGTCTACTAC 58.230 40.000 6.91 7.33 0.00 2.73
2180 2452 6.974932 ACGTTTTAGATGTCGAGTCTACTA 57.025 37.500 6.91 0.00 0.00 1.82
2181 2453 5.876612 ACGTTTTAGATGTCGAGTCTACT 57.123 39.130 6.91 0.00 0.00 2.57
2182 2454 5.224720 CGAACGTTTTAGATGTCGAGTCTAC 59.775 44.000 0.46 0.00 0.00 2.59
2183 2455 5.106948 ACGAACGTTTTAGATGTCGAGTCTA 60.107 40.000 0.46 3.90 0.00 2.59
2184 2456 4.156915 CGAACGTTTTAGATGTCGAGTCT 58.843 43.478 0.46 5.66 0.00 3.24
2185 2457 3.910767 ACGAACGTTTTAGATGTCGAGTC 59.089 43.478 0.46 0.00 0.00 3.36
2186 2458 3.893720 ACGAACGTTTTAGATGTCGAGT 58.106 40.909 0.46 0.00 0.00 4.18
2187 2459 5.980324 TTACGAACGTTTTAGATGTCGAG 57.020 39.130 0.46 0.00 0.00 4.04
2188 2460 6.581919 TCATTTACGAACGTTTTAGATGTCGA 59.418 34.615 0.46 0.00 0.00 4.20
2189 2461 6.671616 GTCATTTACGAACGTTTTAGATGTCG 59.328 38.462 0.46 0.68 0.00 4.35
2190 2462 7.503991 TGTCATTTACGAACGTTTTAGATGTC 58.496 34.615 0.46 6.90 0.00 3.06
2191 2463 7.410800 TGTCATTTACGAACGTTTTAGATGT 57.589 32.000 0.46 0.00 0.00 3.06
2192 2464 7.955324 ACATGTCATTTACGAACGTTTTAGATG 59.045 33.333 0.46 8.39 0.00 2.90
2193 2465 8.025243 ACATGTCATTTACGAACGTTTTAGAT 57.975 30.769 0.46 0.00 0.00 1.98
2194 2466 7.383029 AGACATGTCATTTACGAACGTTTTAGA 59.617 33.333 27.02 0.00 0.00 2.10
2195 2467 7.507304 AGACATGTCATTTACGAACGTTTTAG 58.493 34.615 27.02 0.00 0.00 1.85
2196 2468 7.410800 AGACATGTCATTTACGAACGTTTTA 57.589 32.000 27.02 0.00 0.00 1.52
2197 2469 6.295039 AGACATGTCATTTACGAACGTTTT 57.705 33.333 27.02 0.00 0.00 2.43
2198 2470 5.917541 AGACATGTCATTTACGAACGTTT 57.082 34.783 27.02 0.00 0.00 3.60
2199 2471 7.591006 AATAGACATGTCATTTACGAACGTT 57.409 32.000 27.02 0.00 0.00 3.99
2200 2472 7.453034 CAAATAGACATGTCATTTACGAACGT 58.547 34.615 27.02 5.03 0.00 3.99
2201 2473 6.408039 GCAAATAGACATGTCATTTACGAACG 59.592 38.462 27.02 15.89 0.00 3.95
2202 2474 6.408039 CGCAAATAGACATGTCATTTACGAAC 59.592 38.462 28.95 18.21 33.69 3.95
2203 2475 6.311690 TCGCAAATAGACATGTCATTTACGAA 59.688 34.615 30.67 22.54 35.54 3.85
2204 2476 5.808030 TCGCAAATAGACATGTCATTTACGA 59.192 36.000 29.99 29.99 35.77 3.43
2205 2477 6.031549 TCGCAAATAGACATGTCATTTACG 57.968 37.500 28.05 28.05 33.45 3.18
2206 2478 7.910162 ACATTCGCAAATAGACATGTCATTTAC 59.090 33.333 27.02 20.27 0.00 2.01
2207 2479 7.984391 ACATTCGCAAATAGACATGTCATTTA 58.016 30.769 27.02 11.79 0.00 1.40
2208 2480 6.855836 ACATTCGCAAATAGACATGTCATTT 58.144 32.000 27.02 23.30 0.00 2.32
2209 2481 6.441093 ACATTCGCAAATAGACATGTCATT 57.559 33.333 27.02 19.57 0.00 2.57
2210 2482 6.441093 AACATTCGCAAATAGACATGTCAT 57.559 33.333 27.02 15.24 0.00 3.06
2211 2483 5.445806 CGAACATTCGCAAATAGACATGTCA 60.446 40.000 27.02 13.67 44.26 3.58
2212 2484 4.957967 CGAACATTCGCAAATAGACATGTC 59.042 41.667 18.47 18.47 44.26 3.06
2213 2485 4.897224 CGAACATTCGCAAATAGACATGT 58.103 39.130 0.00 0.00 44.26 3.21
2227 2499 7.975866 AAACATCAATTATCTGCGAACATTC 57.024 32.000 0.00 0.00 0.00 2.67
2230 2502 9.853555 AAAATAAACATCAATTATCTGCGAACA 57.146 25.926 0.00 0.00 0.00 3.18
2242 2514 9.705290 ACGCCTTTTCTTAAAATAAACATCAAT 57.295 25.926 0.00 0.00 0.00 2.57
2243 2515 9.535878 AACGCCTTTTCTTAAAATAAACATCAA 57.464 25.926 0.00 0.00 0.00 2.57
2244 2516 8.973378 CAACGCCTTTTCTTAAAATAAACATCA 58.027 29.630 0.00 0.00 0.00 3.07
2245 2517 7.949962 GCAACGCCTTTTCTTAAAATAAACATC 59.050 33.333 0.00 0.00 0.00 3.06
2246 2518 7.439655 TGCAACGCCTTTTCTTAAAATAAACAT 59.560 29.630 0.00 0.00 0.00 2.71
2247 2519 6.757010 TGCAACGCCTTTTCTTAAAATAAACA 59.243 30.769 0.00 0.00 0.00 2.83
2248 2520 7.167831 TGCAACGCCTTTTCTTAAAATAAAC 57.832 32.000 0.00 0.00 0.00 2.01
2249 2521 6.074034 GCTGCAACGCCTTTTCTTAAAATAAA 60.074 34.615 0.00 0.00 0.00 1.40
2250 2522 5.404066 GCTGCAACGCCTTTTCTTAAAATAA 59.596 36.000 0.00 0.00 0.00 1.40
2251 2523 4.920927 GCTGCAACGCCTTTTCTTAAAATA 59.079 37.500 0.00 0.00 0.00 1.40
2252 2524 3.740832 GCTGCAACGCCTTTTCTTAAAAT 59.259 39.130 0.00 0.00 0.00 1.82
2253 2525 3.120041 GCTGCAACGCCTTTTCTTAAAA 58.880 40.909 0.00 0.00 0.00 1.52
2254 2526 2.544903 GGCTGCAACGCCTTTTCTTAAA 60.545 45.455 9.66 0.00 46.63 1.52
2255 2527 1.000717 GGCTGCAACGCCTTTTCTTAA 60.001 47.619 9.66 0.00 46.63 1.85
2256 2528 0.596082 GGCTGCAACGCCTTTTCTTA 59.404 50.000 9.66 0.00 46.63 2.10
2257 2529 1.363807 GGCTGCAACGCCTTTTCTT 59.636 52.632 9.66 0.00 46.63 2.52
2258 2530 3.042560 GGCTGCAACGCCTTTTCT 58.957 55.556 9.66 0.00 46.63 2.52
2266 2538 2.303549 TTTTGGGTTGGGCTGCAACG 62.304 55.000 0.50 0.00 33.65 4.10
2267 2539 0.108396 ATTTTGGGTTGGGCTGCAAC 59.892 50.000 0.50 0.00 0.00 4.17
2268 2540 1.722034 TATTTTGGGTTGGGCTGCAA 58.278 45.000 0.50 0.00 0.00 4.08
2269 2541 1.722034 TTATTTTGGGTTGGGCTGCA 58.278 45.000 0.50 0.00 0.00 4.41
2270 2542 2.027285 ACATTATTTTGGGTTGGGCTGC 60.027 45.455 0.00 0.00 0.00 5.25
2271 2543 3.979101 ACATTATTTTGGGTTGGGCTG 57.021 42.857 0.00 0.00 0.00 4.85
2272 2544 4.683643 AGTACATTATTTTGGGTTGGGCT 58.316 39.130 0.00 0.00 0.00 5.19
2273 2545 4.709886 AGAGTACATTATTTTGGGTTGGGC 59.290 41.667 0.00 0.00 0.00 5.36
2274 2546 6.187682 AGAGAGTACATTATTTTGGGTTGGG 58.812 40.000 0.00 0.00 0.00 4.12
2275 2547 6.318900 GGAGAGAGTACATTATTTTGGGTTGG 59.681 42.308 0.00 0.00 0.00 3.77
2276 2548 6.037172 CGGAGAGAGTACATTATTTTGGGTTG 59.963 42.308 0.00 0.00 0.00 3.77
2277 2549 6.113411 CGGAGAGAGTACATTATTTTGGGTT 58.887 40.000 0.00 0.00 0.00 4.11
2278 2550 5.189145 ACGGAGAGAGTACATTATTTTGGGT 59.811 40.000 0.00 0.00 0.00 4.51
2279 2551 5.671493 ACGGAGAGAGTACATTATTTTGGG 58.329 41.667 0.00 0.00 0.00 4.12
2280 2552 7.042335 AGAACGGAGAGAGTACATTATTTTGG 58.958 38.462 0.00 0.00 0.00 3.28
2281 2553 9.582431 TTAGAACGGAGAGAGTACATTATTTTG 57.418 33.333 0.00 0.00 0.00 2.44
2287 2559 9.503399 AAAAATTTAGAACGGAGAGAGTACATT 57.497 29.630 0.00 0.00 0.00 2.71
2388 2660 8.616076 GCACTGTCATGCTAGAATTTTAGTATT 58.384 33.333 4.17 0.00 42.62 1.89
2389 2661 7.770433 TGCACTGTCATGCTAGAATTTTAGTAT 59.230 33.333 5.04 3.20 46.28 2.12
2390 2662 7.102993 TGCACTGTCATGCTAGAATTTTAGTA 58.897 34.615 5.04 0.87 46.28 1.82
2391 2663 5.939883 TGCACTGTCATGCTAGAATTTTAGT 59.060 36.000 5.04 0.00 46.28 2.24
2392 2664 6.426980 TGCACTGTCATGCTAGAATTTTAG 57.573 37.500 0.00 0.00 46.28 1.85
2393 2665 6.816134 TTGCACTGTCATGCTAGAATTTTA 57.184 33.333 0.00 0.00 46.28 1.52
2394 2666 5.710513 TTGCACTGTCATGCTAGAATTTT 57.289 34.783 0.00 0.00 46.28 1.82


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

AutoCloner maintained by Alex Coulton.