Multiple sequence alignment - TraesCS2A01G329300

Loading Multiple Alignment...

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 TraesCS2A01G329300 chr2A 100.000 2580 0 0 1 2580 561550828 561553407 0.000000e+00 4765
1 TraesCS2A01G329300 chr2B 92.077 1868 109 22 1 1845 503776240 503774389 0.000000e+00 2593
2 TraesCS2A01G329300 chr2B 90.314 382 26 2 2209 2580 503774330 503773950 8.300000e-135 490
3 TraesCS2A01G329300 chr2D 91.833 1702 81 24 379 2048 426947934 426946259 0.000000e+00 2320
4 TraesCS2A01G329300 chr2D 88.258 528 46 3 2058 2575 426946177 426945656 3.650000e-173 617
5 TraesCS2A01G329300 chr2D 91.373 255 20 2 1 254 426948567 426948314 5.280000e-92 348


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 TraesCS2A01G329300 chr2A 561550828 561553407 2579 False 4765.0 4765 100.0000 1 2580 1 chr2A.!!$F1 2579
1 TraesCS2A01G329300 chr2B 503773950 503776240 2290 True 1541.5 2593 91.1955 1 2580 2 chr2B.!!$R1 2579
2 TraesCS2A01G329300 chr2D 426945656 426948567 2911 True 1095.0 2320 90.4880 1 2575 3 chr2D.!!$R1 2574

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
928 1243 0.037447 AACAGCAAAGCCTCTCTCCC 59.963 55.0 0.0 0.0 0.0 4.3 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2243 2651 0.106335 CCTTGTGGCCATGCAAACAA 59.894 50.0 9.72 6.35 36.05 2.83 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
79 81 7.948363 GCACTTTGAAGAATGAAATTGAAATCG 59.052 33.333 0.00 0.00 36.07 3.34
91 93 7.272244 TGAAATTGAAATCGTATCTGCTAGGA 58.728 34.615 0.00 0.00 0.00 2.94
106 108 6.853490 TCTGCTAGGAGGAGAATCATAACTA 58.147 40.000 11.76 0.00 39.82 2.24
115 117 6.929625 AGGAGAATCATAACTATGACATCGG 58.070 40.000 1.53 0.00 44.66 4.18
156 158 9.791820 TGAATATTTGACAATACAAGAATGCAG 57.208 29.630 0.00 0.00 0.00 4.41
174 176 9.638176 AGAATGCAGGTATTGAAGAATAGAAAT 57.362 29.630 0.00 0.00 0.00 2.17
175 177 9.674824 GAATGCAGGTATTGAAGAATAGAAATG 57.325 33.333 0.00 0.00 0.00 2.32
178 180 7.828717 TGCAGGTATTGAAGAATAGAAATGTGA 59.171 33.333 0.00 0.00 0.00 3.58
190 192 9.638176 AGAATAGAAATGTGAATATTTGAGGCT 57.362 29.630 0.00 0.00 30.78 4.58
204 206 9.520515 AATATTTGAGGCTAGAGAACAGAAAAA 57.479 29.630 0.00 0.00 0.00 1.94
270 272 5.181009 TGCATGAAACAGAGAACAGATAGG 58.819 41.667 0.00 0.00 0.00 2.57
274 276 6.030548 TGAAACAGAGAACAGATAGGACAG 57.969 41.667 0.00 0.00 0.00 3.51
293 295 1.278985 AGCACGAATGGATGAGTGGAA 59.721 47.619 0.00 0.00 35.35 3.53
360 637 1.397343 GAGGAAGAAAAATCGACGGCC 59.603 52.381 0.00 0.00 0.00 6.13
383 660 0.247145 GGCGTTTTCGTAGATGCGTG 60.247 55.000 0.00 0.00 46.03 5.34
432 725 4.559300 GCACACAAACTAAGATTGCCACAT 60.559 41.667 0.00 0.00 0.00 3.21
463 756 4.334443 CGAAGTTGATGACATTTAAGCCG 58.666 43.478 0.00 0.00 0.00 5.52
503 796 4.278669 TCGTCTAGCTCCATTACTGATTCC 59.721 45.833 0.00 0.00 0.00 3.01
554 861 1.205893 CCGTCCAAGAAAGAGAGGAGG 59.794 57.143 0.00 0.00 36.17 4.30
666 974 1.742880 CGTCCCATCACCAGCTGTG 60.743 63.158 13.81 11.14 46.88 3.66
667 975 2.042831 GTCCCATCACCAGCTGTGC 61.043 63.158 13.81 0.00 45.03 4.57
725 1033 0.179100 CACCCATCTAGGTCACTGCG 60.179 60.000 0.00 0.00 38.39 5.18
728 1036 0.807667 CCATCTAGGTCACTGCGCAC 60.808 60.000 5.66 0.00 0.00 5.34
801 1116 2.892425 CAATCAGAGCGGCCGGAC 60.892 66.667 29.38 11.53 0.00 4.79
863 1178 4.103103 GCGCAAAAGACCTCGCCC 62.103 66.667 0.30 0.00 41.53 6.13
928 1243 0.037447 AACAGCAAAGCCTCTCTCCC 59.963 55.000 0.00 0.00 0.00 4.30
938 1253 2.835156 AGCCTCTCTCCCAGTTTACTTC 59.165 50.000 0.00 0.00 0.00 3.01
1117 1432 3.148279 CCTCCTCGTCTTCCCGGG 61.148 72.222 16.85 16.85 0.00 5.73
1159 1474 1.585668 CATGCGTTCGTTGCTCTCTAG 59.414 52.381 0.00 0.00 0.00 2.43
1187 1502 3.376918 GCAAGGCCACCTTCCTGC 61.377 66.667 5.01 0.00 42.67 4.85
1213 1528 2.203070 CCGCCCGGAAATCTCCTG 60.203 66.667 0.73 0.00 39.93 3.86
1340 1655 0.794605 GACCAAGGTACGTACGCGAC 60.795 60.000 15.93 13.63 42.00 5.19
1341 1656 1.514873 CCAAGGTACGTACGCGACC 60.515 63.158 25.19 25.19 42.00 4.79
1444 1759 1.821216 TTCGAGCTCATGGGGTTTTC 58.179 50.000 15.40 0.00 0.00 2.29
1449 1764 3.056607 CGAGCTCATGGGGTTTTCATTTT 60.057 43.478 15.40 0.00 0.00 1.82
1453 1768 2.028567 TCATGGGGTTTTCATTTTCGGC 60.029 45.455 0.00 0.00 0.00 5.54
1456 1771 0.319125 GGGTTTTCATTTTCGGCGCA 60.319 50.000 10.83 0.00 0.00 6.09
1743 2075 8.387813 TGTTGTAGGGTACTAATCAAAGGAAAT 58.612 33.333 0.00 0.00 0.00 2.17
1770 2102 7.094592 GGGGAAGAGCTACAATTCATAATAAGC 60.095 40.741 0.00 0.00 0.00 3.09
1843 2176 1.238439 TGTTACTGCTTGCTTGCCTC 58.762 50.000 0.00 0.00 0.00 4.70
1849 2182 2.437897 CTTGCTTGCCTCCCCTGT 59.562 61.111 0.00 0.00 0.00 4.00
1854 2187 0.613012 GCTTGCCTCCCCTGTGATTT 60.613 55.000 0.00 0.00 0.00 2.17
1879 2212 2.949451 TTTTGTGTGGCGTTGATGTT 57.051 40.000 0.00 0.00 0.00 2.71
1885 2222 5.690997 TGTGTGGCGTTGATGTTTAAATA 57.309 34.783 0.00 0.00 0.00 1.40
1886 2223 5.694816 TGTGTGGCGTTGATGTTTAAATAG 58.305 37.500 0.00 0.00 0.00 1.73
1895 2232 7.376072 GCGTTGATGTTTAAATAGATAACTGGC 59.624 37.037 0.00 0.00 0.00 4.85
1907 2244 4.583871 AGATAACTGGCTCCTGTTTCAAG 58.416 43.478 14.82 0.00 38.64 3.02
1910 2247 0.595095 CTGGCTCCTGTTTCAAGTGC 59.405 55.000 0.00 0.00 0.00 4.40
1914 2251 1.268079 GCTCCTGTTTCAAGTGCCTTC 59.732 52.381 0.00 0.00 0.00 3.46
1917 2254 4.583871 CTCCTGTTTCAAGTGCCTTCTAT 58.416 43.478 0.00 0.00 0.00 1.98
1918 2255 5.734720 CTCCTGTTTCAAGTGCCTTCTATA 58.265 41.667 0.00 0.00 0.00 1.31
1919 2256 5.488341 TCCTGTTTCAAGTGCCTTCTATAC 58.512 41.667 0.00 0.00 0.00 1.47
1920 2257 4.330074 CCTGTTTCAAGTGCCTTCTATACG 59.670 45.833 0.00 0.00 0.00 3.06
1921 2258 4.890088 TGTTTCAAGTGCCTTCTATACGT 58.110 39.130 0.00 0.00 0.00 3.57
1922 2259 5.302360 TGTTTCAAGTGCCTTCTATACGTT 58.698 37.500 0.00 0.00 0.00 3.99
1923 2260 5.178623 TGTTTCAAGTGCCTTCTATACGTTG 59.821 40.000 0.00 0.00 0.00 4.10
1924 2261 4.794278 TCAAGTGCCTTCTATACGTTGA 57.206 40.909 0.00 0.00 0.00 3.18
1925 2262 5.339008 TCAAGTGCCTTCTATACGTTGAT 57.661 39.130 0.00 0.00 0.00 2.57
1926 2263 5.109210 TCAAGTGCCTTCTATACGTTGATG 58.891 41.667 0.00 0.00 0.00 3.07
1941 2278 4.082081 ACGTTGATGCATGATTGTCCAATT 60.082 37.500 2.46 0.00 0.00 2.32
1942 2279 4.266739 CGTTGATGCATGATTGTCCAATTG 59.733 41.667 2.46 0.00 0.00 2.32
1975 2312 5.635280 GCCAAGAAGCAATAACTCCTTTTTC 59.365 40.000 0.00 0.00 0.00 2.29
1976 2313 5.858581 CCAAGAAGCAATAACTCCTTTTTCG 59.141 40.000 0.00 0.00 0.00 3.46
1988 2325 5.972935 ACTCCTTTTTCGTTCCAACAAAAT 58.027 33.333 0.00 0.00 0.00 1.82
1989 2326 5.810074 ACTCCTTTTTCGTTCCAACAAAATG 59.190 36.000 0.00 0.39 0.00 2.32
2028 2365 1.351350 GTGTTAGGGCTGGGAAAGAGT 59.649 52.381 0.00 0.00 0.00 3.24
2044 2381 6.262273 GGGAAAGAGTTCATCAACAGTTTGTA 59.738 38.462 0.00 0.00 35.25 2.41
2045 2382 7.132863 GGAAAGAGTTCATCAACAGTTTGTAC 58.867 38.462 0.00 0.00 35.25 2.90
2046 2383 7.012421 GGAAAGAGTTCATCAACAGTTTGTACT 59.988 37.037 0.00 0.00 35.25 2.73
2047 2384 7.852945 GAAAGAGTTCATCAACAGTTTGTACTG 59.147 37.037 3.87 3.87 43.84 2.74
2073 2481 4.024218 CACAGCTAGCTATTGCCTCAATTC 60.024 45.833 18.86 0.00 40.80 2.17
2081 2489 1.533625 TTGCCTCAATTCGTCCAAGG 58.466 50.000 0.00 0.00 0.00 3.61
2087 2495 2.813754 CTCAATTCGTCCAAGGCTTCAA 59.186 45.455 0.00 0.00 0.00 2.69
2096 2504 4.550422 GTCCAAGGCTTCAATTTCTTCAC 58.450 43.478 0.00 0.00 0.00 3.18
2104 2512 9.783081 AAGGCTTCAATTTCTTCACATTATTTT 57.217 25.926 0.00 0.00 0.00 1.82
2105 2513 9.211485 AGGCTTCAATTTCTTCACATTATTTTG 57.789 29.630 0.00 0.00 0.00 2.44
2124 2532 4.906065 TTGCCTAGATTTGCTAGCATTG 57.094 40.909 20.13 4.34 44.35 2.82
2135 2543 4.495690 TGCTAGCATTGTGGGTATTGTA 57.504 40.909 14.93 0.00 0.00 2.41
2138 2546 4.511826 GCTAGCATTGTGGGTATTGTAGTC 59.488 45.833 10.63 0.00 0.00 2.59
2143 2551 6.071952 AGCATTGTGGGTATTGTAGTCTTTTG 60.072 38.462 0.00 0.00 0.00 2.44
2149 2557 6.708949 GTGGGTATTGTAGTCTTTTGAGTTGA 59.291 38.462 0.00 0.00 33.49 3.18
2164 2572 9.532697 CTTTTGAGTTGAACAAAAATCTTGTTG 57.467 29.630 7.55 0.00 43.39 3.33
2166 2574 6.162079 TGAGTTGAACAAAAATCTTGTTGCA 58.838 32.000 7.55 3.78 42.11 4.08
2224 2632 9.091784 CATGTAGTACTAGTTCAGTTACGACTA 57.908 37.037 1.87 0.00 38.80 2.59
2228 2636 2.626088 AGTTCAGTTACGACTACGCC 57.374 50.000 0.00 0.00 43.96 5.68
2243 2651 1.873698 ACGCCGTTGTGTACTTCAAT 58.126 45.000 7.17 0.00 32.21 2.57
2244 2652 2.215196 ACGCCGTTGTGTACTTCAATT 58.785 42.857 7.17 0.00 32.21 2.32
2245 2653 2.032377 ACGCCGTTGTGTACTTCAATTG 60.032 45.455 0.00 0.00 32.21 2.32
2255 2663 4.150451 GTGTACTTCAATTGTTTGCATGGC 59.850 41.667 5.13 0.00 32.61 4.40
2260 2668 2.158856 TCAATTGTTTGCATGGCCACAA 60.159 40.909 8.16 6.03 35.95 3.33
2308 2726 7.876936 AGATGAATATGAAAGAGTTGTGCAT 57.123 32.000 0.00 0.00 0.00 3.96
2312 2730 8.735692 TGAATATGAAAGAGTTGTGCATCATA 57.264 30.769 5.18 5.18 35.11 2.15
2320 2738 7.414222 AAGAGTTGTGCATCATAAATTGGAT 57.586 32.000 0.00 0.00 0.00 3.41
2358 2776 4.683832 CTGGAACTACATTTACTCGGGAG 58.316 47.826 0.00 0.00 0.00 4.30
2426 2845 2.300437 ACCCTGCAGAAGTCAGAAGTAC 59.700 50.000 17.39 0.00 33.54 2.73
2483 2902 4.104383 AGGATCAAACTGGAACACATGT 57.896 40.909 0.00 0.00 0.00 3.21
2525 2944 2.979240 TGGTACAAATGCGCTGATACA 58.021 42.857 9.73 0.00 31.92 2.29
2559 2978 6.737720 TGTTCCATTAGCATCTCATCTACT 57.262 37.500 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
49 51 6.698329 TCAATTTCATTCTTCAAAGTGCACTG 59.302 34.615 22.49 10.22 29.70 3.66
79 81 7.396055 AGTTATGATTCTCCTCCTAGCAGATAC 59.604 40.741 0.00 0.00 0.00 2.24
91 93 6.721668 TCCGATGTCATAGTTATGATTCTCCT 59.278 38.462 5.22 0.00 43.82 3.69
106 108 5.977635 TCTATGAAAACACTCCGATGTCAT 58.022 37.500 0.00 0.00 30.55 3.06
174 176 6.946340 TGTTCTCTAGCCTCAAATATTCACA 58.054 36.000 0.00 0.00 0.00 3.58
175 177 7.268586 TCTGTTCTCTAGCCTCAAATATTCAC 58.731 38.462 0.00 0.00 0.00 3.18
178 180 9.520515 TTTTTCTGTTCTCTAGCCTCAAATATT 57.479 29.630 0.00 0.00 0.00 1.28
204 206 2.876550 GCTACTGTCGTTTTCCCAAGTT 59.123 45.455 0.00 0.00 0.00 2.66
235 237 4.297510 TGTTTCATGCATTGTTCTTTCCG 58.702 39.130 0.00 0.00 0.00 4.30
245 247 6.318144 CCTATCTGTTCTCTGTTTCATGCATT 59.682 38.462 0.00 0.00 0.00 3.56
270 272 1.662629 CACTCATCCATTCGTGCTGTC 59.337 52.381 0.00 0.00 0.00 3.51
274 276 1.737838 TTCCACTCATCCATTCGTGC 58.262 50.000 0.00 0.00 0.00 5.34
293 295 8.842280 TGTCCAATTACTTTTCTTTACGTGATT 58.158 29.630 0.00 0.00 0.00 2.57
360 637 0.025001 CATCTACGAAAACGCCTGCG 59.975 55.000 10.40 10.40 46.03 5.18
432 725 3.244735 TGTCATCAACTTCGGGGATCAAA 60.245 43.478 0.00 0.00 0.00 2.69
463 756 3.094294 GACGAAAATCGCTGCAGATTTC 58.906 45.455 20.43 18.51 46.55 2.17
532 825 2.165437 CTCCTCTCTTTCTTGGACGGAG 59.835 54.545 0.00 0.00 0.00 4.63
554 861 4.801221 CTTGCTCGCCGCGCTTTC 62.801 66.667 8.21 0.00 43.27 2.62
666 974 2.447887 CGCTGTGATGACGTGAGGC 61.448 63.158 0.00 0.00 42.12 4.70
667 975 1.807165 CCGCTGTGATGACGTGAGG 60.807 63.158 0.00 0.00 0.00 3.86
703 1011 1.134580 CAGTGACCTAGATGGGTGCTG 60.135 57.143 0.00 0.00 40.06 4.41
883 1198 1.664321 CGTTCCGATCCTCCTTCCGT 61.664 60.000 0.00 0.00 0.00 4.69
884 1199 1.065928 CGTTCCGATCCTCCTTCCG 59.934 63.158 0.00 0.00 0.00 4.30
885 1200 1.041447 TCCGTTCCGATCCTCCTTCC 61.041 60.000 0.00 0.00 0.00 3.46
928 1243 2.477754 GGAACGAACCCGAAGTAAACTG 59.522 50.000 0.00 0.00 39.50 3.16
1097 1412 3.839432 GGGAAGACGAGGAGGCGG 61.839 72.222 0.00 0.00 35.12 6.13
1098 1413 4.194720 CGGGAAGACGAGGAGGCG 62.195 72.222 0.00 0.00 35.47 5.52
1099 1414 3.839432 CCGGGAAGACGAGGAGGC 61.839 72.222 0.00 0.00 35.47 4.70
1100 1415 3.148279 CCCGGGAAGACGAGGAGG 61.148 72.222 18.48 0.00 35.47 4.30
1101 1416 3.839432 GCCCGGGAAGACGAGGAG 61.839 72.222 29.31 0.00 35.47 3.69
1102 1417 4.689549 TGCCCGGGAAGACGAGGA 62.690 66.667 29.31 0.00 35.47 3.71
1117 1432 1.225963 GACGAGACGACGTACCTGC 60.226 63.158 0.00 0.00 46.52 4.85
1444 1759 1.154225 GTCCTGTGCGCCGAAAATG 60.154 57.895 4.18 0.00 0.00 2.32
1456 1771 4.361971 TCCTCCTCCGCGTCCTGT 62.362 66.667 4.92 0.00 0.00 4.00
1588 1903 1.874019 CACGGAAGCATCCTCGTCG 60.874 63.158 6.39 0.00 44.17 5.12
1591 1906 2.202932 CCCACGGAAGCATCCTCG 60.203 66.667 6.39 0.00 44.17 4.63
1616 1942 2.433318 GGCTCACTCACGCTGGAC 60.433 66.667 0.00 0.00 0.00 4.02
1743 2075 5.708736 TTATGAATTGTAGCTCTTCCCCA 57.291 39.130 0.00 0.00 0.00 4.96
1770 2102 4.377431 GGAAGAACAGCTCATTGTACAACG 60.377 45.833 11.22 2.05 0.00 4.10
1877 2210 8.507524 AACAGGAGCCAGTTATCTATTTAAAC 57.492 34.615 0.00 0.00 0.00 2.01
1879 2212 8.325787 TGAAACAGGAGCCAGTTATCTATTTAA 58.674 33.333 0.00 0.00 0.00 1.52
1885 2222 4.042187 ACTTGAAACAGGAGCCAGTTATCT 59.958 41.667 0.00 0.00 0.00 1.98
1886 2223 4.154918 CACTTGAAACAGGAGCCAGTTATC 59.845 45.833 0.00 0.51 0.00 1.75
1907 2244 3.194861 TGCATCAACGTATAGAAGGCAC 58.805 45.455 0.00 0.00 0.00 5.01
1910 2247 6.203530 ACAATCATGCATCAACGTATAGAAGG 59.796 38.462 0.00 0.00 0.00 3.46
1914 2251 5.466393 TGGACAATCATGCATCAACGTATAG 59.534 40.000 0.00 0.00 0.00 1.31
1917 2254 3.604582 TGGACAATCATGCATCAACGTA 58.395 40.909 0.00 0.00 0.00 3.57
1918 2255 2.435422 TGGACAATCATGCATCAACGT 58.565 42.857 0.00 0.00 0.00 3.99
1919 2256 3.490800 TTGGACAATCATGCATCAACG 57.509 42.857 0.00 0.00 0.00 4.10
1920 2257 5.412640 TCAATTGGACAATCATGCATCAAC 58.587 37.500 5.42 0.00 0.00 3.18
1921 2258 5.662674 TCAATTGGACAATCATGCATCAA 57.337 34.783 5.42 0.00 0.00 2.57
1922 2259 5.662674 TTCAATTGGACAATCATGCATCA 57.337 34.783 5.42 0.00 0.00 3.07
1923 2260 7.406553 CAATTTCAATTGGACAATCATGCATC 58.593 34.615 5.42 0.00 41.54 3.91
1924 2261 7.315247 CAATTTCAATTGGACAATCATGCAT 57.685 32.000 5.42 0.00 41.54 3.96
1925 2262 6.729391 CAATTTCAATTGGACAATCATGCA 57.271 33.333 5.42 0.00 41.54 3.96
1941 2278 0.975887 GCTTCTTGGCCCCAATTTCA 59.024 50.000 0.00 0.00 35.20 2.69
1942 2279 0.975887 TGCTTCTTGGCCCCAATTTC 59.024 50.000 0.00 0.00 35.20 2.17
1952 2289 5.858581 CGAAAAAGGAGTTATTGCTTCTTGG 59.141 40.000 0.00 0.00 36.31 3.61
1988 2325 6.279513 ACACTGAACAGAACAAAATTTCCA 57.720 33.333 8.87 0.00 0.00 3.53
1989 2326 7.435192 CCTAACACTGAACAGAACAAAATTTCC 59.565 37.037 8.87 0.00 0.00 3.13
1994 2331 4.097286 GCCCTAACACTGAACAGAACAAAA 59.903 41.667 8.87 0.00 0.00 2.44
2007 2344 1.630878 CTCTTTCCCAGCCCTAACACT 59.369 52.381 0.00 0.00 0.00 3.55
2044 2381 2.625737 CAATAGCTAGCTGTGCACAGT 58.374 47.619 39.30 29.30 45.45 3.55
2045 2382 1.329906 GCAATAGCTAGCTGTGCACAG 59.670 52.381 37.09 37.09 41.42 3.66
2046 2383 1.372582 GCAATAGCTAGCTGTGCACA 58.627 50.000 33.48 20.37 37.92 4.57
2047 2384 0.659957 GGCAATAGCTAGCTGTGCAC 59.340 55.000 36.23 27.32 38.99 4.57
2048 2385 0.543277 AGGCAATAGCTAGCTGTGCA 59.457 50.000 36.23 19.04 38.99 4.57
2049 2386 1.224965 GAGGCAATAGCTAGCTGTGC 58.775 55.000 31.97 31.97 41.70 4.57
2051 2388 3.853355 ATTGAGGCAATAGCTAGCTGT 57.147 42.857 27.68 18.59 41.70 4.40
2052 2389 3.186001 CGAATTGAGGCAATAGCTAGCTG 59.814 47.826 27.68 12.77 41.70 4.24
2053 2390 3.181461 ACGAATTGAGGCAATAGCTAGCT 60.181 43.478 23.12 23.12 41.70 3.32
2054 2391 3.134458 ACGAATTGAGGCAATAGCTAGC 58.866 45.455 6.62 6.62 41.70 3.42
2055 2392 3.743396 GGACGAATTGAGGCAATAGCTAG 59.257 47.826 0.00 0.00 41.70 3.42
2056 2393 3.133901 TGGACGAATTGAGGCAATAGCTA 59.866 43.478 0.00 0.00 41.70 3.32
2073 2481 3.253188 TGAAGAAATTGAAGCCTTGGACG 59.747 43.478 0.00 0.00 0.00 4.79
2081 2489 7.959109 GGCAAAATAATGTGAAGAAATTGAAGC 59.041 33.333 0.00 0.00 0.00 3.86
2096 2504 7.428020 TGCTAGCAAATCTAGGCAAAATAATG 58.572 34.615 16.84 0.00 43.95 1.90
2104 2512 3.628942 CACAATGCTAGCAAATCTAGGCA 59.371 43.478 23.54 0.00 43.95 4.75
2105 2513 3.004106 CCACAATGCTAGCAAATCTAGGC 59.996 47.826 23.54 0.00 43.95 3.93
2124 2532 6.708949 TCAACTCAAAAGACTACAATACCCAC 59.291 38.462 0.00 0.00 0.00 4.61
2135 2543 9.143631 CAAGATTTTTGTTCAACTCAAAAGACT 57.856 29.630 0.00 0.00 42.80 3.24
2138 2546 9.532697 CAACAAGATTTTTGTTCAACTCAAAAG 57.467 29.630 2.53 0.00 42.80 2.27
2143 2551 6.645700 TGCAACAAGATTTTTGTTCAACTC 57.354 33.333 2.53 0.00 40.30 3.01
2195 2603 9.435688 TCGTAACTGAACTAGTACTACATGTTA 57.564 33.333 2.30 4.81 39.18 2.41
2202 2610 6.253727 GCGTAGTCGTAACTGAACTAGTACTA 59.746 42.308 1.89 1.89 37.80 1.82
2203 2611 5.062809 GCGTAGTCGTAACTGAACTAGTACT 59.937 44.000 0.00 0.00 37.80 2.73
2204 2612 5.251832 GCGTAGTCGTAACTGAACTAGTAC 58.748 45.833 0.00 0.00 37.80 2.73
2205 2613 4.330074 GGCGTAGTCGTAACTGAACTAGTA 59.670 45.833 0.00 0.00 37.80 1.82
2206 2614 3.126000 GGCGTAGTCGTAACTGAACTAGT 59.874 47.826 0.00 0.00 39.36 2.57
2207 2615 3.678662 GGCGTAGTCGTAACTGAACTAG 58.321 50.000 0.00 0.00 36.92 2.57
2224 2632 1.873698 ATTGAAGTACACAACGGCGT 58.126 45.000 6.77 6.77 0.00 5.68
2228 2636 4.795795 TGCAAACAATTGAAGTACACAACG 59.204 37.500 13.59 5.52 38.94 4.10
2243 2651 0.106335 CCTTGTGGCCATGCAAACAA 59.894 50.000 9.72 6.35 36.05 2.83
2244 2652 1.747145 CCTTGTGGCCATGCAAACA 59.253 52.632 9.72 0.00 0.00 2.83
2245 2653 1.004679 CCCTTGTGGCCATGCAAAC 60.005 57.895 9.72 0.00 0.00 2.93
2255 2663 2.341176 GCAAAGCTGCCCTTGTGG 59.659 61.111 12.10 0.00 43.26 4.17
2282 2700 8.429493 TGCACAACTCTTTCATATTCATCTAG 57.571 34.615 0.00 0.00 0.00 2.43
2303 2721 7.985634 AAACGTAATCCAATTTATGATGCAC 57.014 32.000 0.00 0.00 0.00 4.57
2312 2730 6.928492 AGCAACATCAAAACGTAATCCAATTT 59.072 30.769 0.00 0.00 0.00 1.82
2320 2738 4.336993 AGTTCCAGCAACATCAAAACGTAA 59.663 37.500 0.00 0.00 37.48 3.18
2358 2776 2.223572 CCAGCAGACAACCACTTCAAAC 60.224 50.000 0.00 0.00 0.00 2.93
2426 2845 6.647067 CCAGAACCTAAAACAGAGTTACAGAG 59.353 42.308 0.00 0.00 0.00 3.35
2441 2860 4.335416 CTTGGCATCTTTCCAGAACCTAA 58.665 43.478 0.00 0.00 34.66 2.69


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

AutoCloner maintained by Alex Coulton.