Multiple sequence alignment - TraesCS5D01G030500

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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 TraesCS5D01G030500 chr5D 100.000 3158 0 0 1 3158 27986480 27983323 0.000000e+00 5832.0
1 TraesCS5D01G030500 chr6A 88.631 2111 208 14 964 3046 15684827 15686933 0.000000e+00 2540.0
2 TraesCS5D01G030500 chr6A 83.835 1330 189 18 854 2173 15894814 15893501 0.000000e+00 1242.0
3 TraesCS5D01G030500 chr6A 87.544 859 90 12 2190 3045 15924013 15923169 0.000000e+00 977.0
4 TraesCS5D01G030500 chr6A 84.266 572 49 18 2359 2900 15688331 15688891 1.300000e-143 520.0
5 TraesCS5D01G030500 chr6D 88.411 2114 210 18 959 3046 14483657 14485761 0.000000e+00 2514.0
6 TraesCS5D01G030500 chr6D 86.622 2093 242 16 979 3046 14437661 14439740 0.000000e+00 2279.0
7 TraesCS5D01G030500 chr6D 85.860 1471 169 24 922 2384 14503295 14504734 0.000000e+00 1528.0
8 TraesCS5D01G030500 chr6D 85.216 1434 174 26 971 2397 14792591 14791189 0.000000e+00 1439.0
9 TraesCS5D01G030500 chr6D 81.122 1462 241 28 928 2372 14733008 14731565 0.000000e+00 1138.0
10 TraesCS5D01G030500 chr6D 88.400 750 65 18 1 734 14501573 14502316 0.000000e+00 883.0
11 TraesCS5D01G030500 chr6B 87.811 1928 213 14 959 2867 26488568 26490492 0.000000e+00 2239.0
12 TraesCS5D01G030500 chr6B 86.052 2072 252 20 982 3046 26500510 26502551 0.000000e+00 2191.0
13 TraesCS5D01G030500 chr6B 82.840 1993 266 38 1080 3045 28730920 28728977 0.000000e+00 1716.0
14 TraesCS5D01G030500 chr6B 85.354 1427 177 22 968 2388 27065985 27064585 0.000000e+00 1448.0
15 TraesCS5D01G030500 chr6B 84.771 1438 177 27 975 2388 26688252 26686833 0.000000e+00 1404.0
16 TraesCS5D01G030500 chr6B 79.470 1359 242 30 1047 2388 26291371 26292709 0.000000e+00 929.0
17 TraesCS5D01G030500 chr6B 83.500 400 37 13 2395 2793 28502197 28502568 2.330000e-91 346.0
18 TraesCS5D01G030500 chr6B 96.364 55 2 0 3060 3114 28503014 28503068 1.210000e-14 91.6
19 TraesCS5D01G030500 chr1B 82.745 255 24 12 124 376 48146571 48146335 3.190000e-50 209.0
20 TraesCS5D01G030500 chr4A 93.023 43 1 1 3070 3112 703052405 703052365 9.460000e-06 62.1
21 TraesCS5D01G030500 chr2B 93.023 43 1 1 3070 3112 32756493 32756453 9.460000e-06 62.1


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 TraesCS5D01G030500 chr5D 27983323 27986480 3157 True 5832.0 5832 100.0000 1 3158 1 chr5D.!!$R1 3157
1 TraesCS5D01G030500 chr6A 15684827 15688891 4064 False 1530.0 2540 86.4485 964 3046 2 chr6A.!!$F1 2082
2 TraesCS5D01G030500 chr6A 15893501 15894814 1313 True 1242.0 1242 83.8350 854 2173 1 chr6A.!!$R1 1319
3 TraesCS5D01G030500 chr6A 15923169 15924013 844 True 977.0 977 87.5440 2190 3045 1 chr6A.!!$R2 855
4 TraesCS5D01G030500 chr6D 14483657 14485761 2104 False 2514.0 2514 88.4110 959 3046 1 chr6D.!!$F2 2087
5 TraesCS5D01G030500 chr6D 14437661 14439740 2079 False 2279.0 2279 86.6220 979 3046 1 chr6D.!!$F1 2067
6 TraesCS5D01G030500 chr6D 14791189 14792591 1402 True 1439.0 1439 85.2160 971 2397 1 chr6D.!!$R2 1426
7 TraesCS5D01G030500 chr6D 14501573 14504734 3161 False 1205.5 1528 87.1300 1 2384 2 chr6D.!!$F3 2383
8 TraesCS5D01G030500 chr6D 14731565 14733008 1443 True 1138.0 1138 81.1220 928 2372 1 chr6D.!!$R1 1444
9 TraesCS5D01G030500 chr6B 26488568 26490492 1924 False 2239.0 2239 87.8110 959 2867 1 chr6B.!!$F2 1908
10 TraesCS5D01G030500 chr6B 26500510 26502551 2041 False 2191.0 2191 86.0520 982 3046 1 chr6B.!!$F3 2064
11 TraesCS5D01G030500 chr6B 28728977 28730920 1943 True 1716.0 1716 82.8400 1080 3045 1 chr6B.!!$R3 1965
12 TraesCS5D01G030500 chr6B 27064585 27065985 1400 True 1448.0 1448 85.3540 968 2388 1 chr6B.!!$R2 1420
13 TraesCS5D01G030500 chr6B 26686833 26688252 1419 True 1404.0 1404 84.7710 975 2388 1 chr6B.!!$R1 1413
14 TraesCS5D01G030500 chr6B 26291371 26292709 1338 False 929.0 929 79.4700 1047 2388 1 chr6B.!!$F1 1341
15 TraesCS5D01G030500 chr6B 28502197 28503068 871 False 218.8 346 89.9320 2395 3114 2 chr6B.!!$F4 719

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
939 1771 0.041839 GCAGTAGCAATCGCAATCCG 60.042 55.0 0.0 0.0 42.27 4.18 F
1517 2417 0.981183 AACTCATCCCGCCTGTTGTA 59.019 50.0 0.0 0.0 0.00 2.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1864 2768 0.034896 TCAGAGAACAAGAACCCGGC 59.965 55.0 0.0 0.0 0.0 6.13 R
2973 3923 0.959553 GGTCGAAGGTCTCAGTGTCA 59.040 55.0 0.0 0.0 0.0 3.58 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
200 210 9.064706 TGTAAAAATGTCCCGTTTGTAGATTTA 57.935 29.630 0.00 0.00 0.00 1.40
208 218 7.881232 TGTCCCGTTTGTAGATTTATTTTCTCT 59.119 33.333 0.00 0.00 0.00 3.10
209 219 8.727910 GTCCCGTTTGTAGATTTATTTTCTCTT 58.272 33.333 0.00 0.00 0.00 2.85
252 262 6.929606 TCACAAAAATGATCATGCATGTCAAA 59.070 30.769 25.43 7.44 0.00 2.69
262 272 6.822667 TCATGCATGTCAAATAGAAGTGTT 57.177 33.333 25.43 0.00 0.00 3.32
474 484 8.662781 TCTGCTATTGATAACAAAGTATCCAC 57.337 34.615 0.00 0.00 39.54 4.02
515 525 6.991938 TGCATTTTTAAGTAGTGCCAAAGAT 58.008 32.000 5.21 0.00 35.03 2.40
554 564 3.452627 GGCTCCATCCGATCCATATTACT 59.547 47.826 0.00 0.00 0.00 2.24
555 565 4.442192 GGCTCCATCCGATCCATATTACTC 60.442 50.000 0.00 0.00 0.00 2.59
558 568 4.770531 TCCATCCGATCCATATTACTCGTT 59.229 41.667 0.00 0.00 0.00 3.85
568 578 8.758633 ATCCATATTACTCGTTGCAGTATTAC 57.241 34.615 0.00 0.00 0.00 1.89
585 595 8.578769 GCAGTATTACTACAACGTTGTACTAAC 58.421 37.037 31.86 23.63 42.35 2.34
586 596 9.831737 CAGTATTACTACAACGTTGTACTAACT 57.168 33.333 31.86 25.00 42.35 2.24
597 609 4.320164 CGTTGTACTAACTGCGACAAGTAG 59.680 45.833 0.00 0.00 38.61 2.57
602 614 5.892160 ACTAACTGCGACAAGTAGTATGA 57.108 39.130 0.00 0.00 45.18 2.15
623 635 7.992754 ATGAATCAGAGGGAGTTTATATTGC 57.007 36.000 0.00 0.00 0.00 3.56
632 644 5.829924 AGGGAGTTTATATTGCATTGTCCAG 59.170 40.000 0.00 0.00 0.00 3.86
634 646 5.507985 GGAGTTTATATTGCATTGTCCAGGC 60.508 44.000 0.00 0.00 0.00 4.85
641 653 1.969208 TGCATTGTCCAGGCAATTTGA 59.031 42.857 0.00 0.00 37.00 2.69
647 659 6.316890 GCATTGTCCAGGCAATTTGATTAAAT 59.683 34.615 0.00 0.00 37.00 1.40
653 666 8.229811 GTCCAGGCAATTTGATTAAATTTTCAC 58.770 33.333 5.50 0.00 42.33 3.18
672 685 9.816354 ATTTTCACTGTGCTTGTAAAAGTTATT 57.184 25.926 2.12 0.00 0.00 1.40
678 691 9.062524 ACTGTGCTTGTAAAAGTTATTATGTCA 57.937 29.630 0.00 0.00 0.00 3.58
680 693 9.278978 TGTGCTTGTAAAAGTTATTATGTCAGA 57.721 29.630 0.00 0.00 0.00 3.27
794 1574 9.685276 AAAAACCCATGAAAAGAGAAGAAAAAT 57.315 25.926 0.00 0.00 0.00 1.82
801 1581 9.871238 CATGAAAAGAGAAGAAAAATGGATGAT 57.129 29.630 0.00 0.00 0.00 2.45
829 1615 6.951198 ACAAAATAATCTGGATACCAACACCA 59.049 34.615 0.00 0.00 30.80 4.17
832 1618 9.881773 AAAATAATCTGGATACCAACACCATAT 57.118 29.630 0.00 0.00 30.80 1.78
844 1634 4.256920 CAACACCATATAGCAGGCCTATC 58.743 47.826 3.98 0.00 37.84 2.08
845 1635 3.520696 ACACCATATAGCAGGCCTATCA 58.479 45.455 3.98 0.00 37.84 2.15
846 1636 3.909995 ACACCATATAGCAGGCCTATCAA 59.090 43.478 3.98 0.00 37.84 2.57
847 1637 4.350816 ACACCATATAGCAGGCCTATCAAA 59.649 41.667 3.98 0.00 37.84 2.69
884 1715 3.553096 GCCCATATTGACTAGGTCACTCG 60.553 52.174 0.00 0.00 42.60 4.18
890 1721 0.656785 GACTAGGTCACTCGCTACGG 59.343 60.000 0.00 0.00 32.09 4.02
909 1740 0.796927 GCGGACCAAAGCAACTACTC 59.203 55.000 0.00 0.00 0.00 2.59
910 1741 1.439679 CGGACCAAAGCAACTACTCC 58.560 55.000 0.00 0.00 0.00 3.85
911 1742 1.270625 CGGACCAAAGCAACTACTCCA 60.271 52.381 0.00 0.00 0.00 3.86
912 1743 2.427506 GGACCAAAGCAACTACTCCAG 58.572 52.381 0.00 0.00 0.00 3.86
918 1749 4.564406 CCAAAGCAACTACTCCAGTGAGAT 60.564 45.833 0.00 0.00 41.42 2.75
931 1762 2.793790 CAGTGAGATCGCAGTAGCAATC 59.206 50.000 6.46 0.00 42.27 2.67
939 1771 0.041839 GCAGTAGCAATCGCAATCCG 60.042 55.000 0.00 0.00 42.27 4.18
940 1772 1.290203 CAGTAGCAATCGCAATCCGT 58.710 50.000 0.00 0.00 42.27 4.69
1150 2044 4.315588 AGGAGTACCTCGTCCACG 57.684 61.111 2.07 0.00 44.13 4.94
1431 2325 1.592669 CTTCCGCCGTAGAGCCATG 60.593 63.158 0.00 0.00 0.00 3.66
1432 2326 3.733344 TTCCGCCGTAGAGCCATGC 62.733 63.158 0.00 0.00 0.00 4.06
1517 2417 0.981183 AACTCATCCCGCCTGTTGTA 59.019 50.000 0.00 0.00 0.00 2.41
1594 2498 3.503748 GCTAGGTGATTGTGATATTGCCC 59.496 47.826 0.00 0.00 0.00 5.36
1610 2514 1.450531 GCCCAGCTGTGTATCCATGC 61.451 60.000 13.81 0.00 0.00 4.06
1825 2729 1.425428 GCTGTGCGCAAGTATCCAC 59.575 57.895 14.00 0.00 38.92 4.02
1888 2792 2.147150 GGTTCTTGTTCTCTGAGGTGC 58.853 52.381 4.59 0.00 0.00 5.01
1912 2816 1.202830 TGGAACCCGTGTACATTGCTT 60.203 47.619 0.00 0.00 0.00 3.91
2054 2958 7.239972 GTCAAGATGACTGAGAAAGTATTTGC 58.760 38.462 3.31 0.00 43.73 3.68
2109 3013 0.798771 CGCACCTCGCTGAAGACTAC 60.799 60.000 0.00 0.00 39.08 2.73
2133 3037 1.043022 CTGCTTGCAAAGGGGAAGTT 58.957 50.000 0.00 0.00 46.35 2.66
2134 3038 1.413812 CTGCTTGCAAAGGGGAAGTTT 59.586 47.619 0.00 0.00 46.35 2.66
2139 3043 2.461695 TGCAAAGGGGAAGTTTCAACA 58.538 42.857 0.00 0.00 0.00 3.33
2269 3187 5.648092 GTGTTCTATGCCTAACTGGATGTTT 59.352 40.000 0.00 0.00 39.89 2.83
2273 3191 2.436417 TGCCTAACTGGATGTTTGCTC 58.564 47.619 0.00 0.00 39.89 4.26
2324 3250 3.837213 TTGCTCATTGCTAACTCTTGC 57.163 42.857 0.00 0.00 43.37 4.01
2410 3344 6.173339 TCCTTCAAAATATCAGTGTGGTCTC 58.827 40.000 0.00 0.00 0.00 3.36
2454 3388 4.886579 AGCATGTTCCCTTTTGATTTCAC 58.113 39.130 0.00 0.00 0.00 3.18
2456 3390 5.070847 AGCATGTTCCCTTTTGATTTCACTT 59.929 36.000 0.00 0.00 0.00 3.16
2458 3392 6.073602 GCATGTTCCCTTTTGATTTCACTTTC 60.074 38.462 0.00 0.00 0.00 2.62
2559 3494 7.473027 TGTGACAGTTAGTACTAAAGTTTGC 57.527 36.000 16.82 11.96 31.96 3.68
2691 3629 7.898014 AGTTGACCTTTCTTTAGTTTGGAAT 57.102 32.000 0.00 0.00 0.00 3.01
2811 3749 8.698973 TCCAATGAAGGTTGAACTAACATTTA 57.301 30.769 0.00 0.00 42.75 1.40
2845 3783 9.890352 GAACATATGAAGAAGAAAAGGATATGC 57.110 33.333 10.38 0.00 0.00 3.14
2883 3833 2.554032 CCTACACTGAGGGCAAAAGTTG 59.446 50.000 0.00 0.00 32.39 3.16
2973 3923 1.345415 CCCAGTTTGCTGCCTTGAAAT 59.655 47.619 0.00 0.00 41.26 2.17
2999 3949 1.068588 TGAGACCTTCGACCTGTTGTG 59.931 52.381 0.00 0.00 0.00 3.33
3000 3950 1.068741 GAGACCTTCGACCTGTTGTGT 59.931 52.381 0.00 0.00 0.00 3.72
3022 3972 7.504238 TGTGTCCATCCTAACATAAAAAGTTGT 59.496 33.333 0.00 0.00 0.00 3.32
3046 3996 6.918892 AAATTGTTTTGTTTAGCAAGGACC 57.081 33.333 0.00 0.00 38.47 4.46
3047 3997 5.869649 ATTGTTTTGTTTAGCAAGGACCT 57.130 34.783 0.00 0.00 38.47 3.85
3048 3998 5.669164 TTGTTTTGTTTAGCAAGGACCTT 57.331 34.783 0.00 0.00 38.47 3.50
3049 3999 5.257082 TGTTTTGTTTAGCAAGGACCTTC 57.743 39.130 2.91 0.00 38.47 3.46
3050 4000 4.201970 TGTTTTGTTTAGCAAGGACCTTCG 60.202 41.667 2.91 1.56 38.47 3.79
3051 4001 3.478857 TTGTTTAGCAAGGACCTTCGA 57.521 42.857 2.91 0.00 32.52 3.71
3052 4002 2.762745 TGTTTAGCAAGGACCTTCGAC 58.237 47.619 2.91 0.00 0.00 4.20
3053 4003 2.074576 GTTTAGCAAGGACCTTCGACC 58.925 52.381 2.91 0.00 0.00 4.79
3054 4004 1.640917 TTAGCAAGGACCTTCGACCT 58.359 50.000 2.91 1.42 38.23 3.85
3056 4006 1.867363 AGCAAGGACCTTCGACCTAT 58.133 50.000 2.91 0.00 35.25 2.57
3057 4007 2.188817 AGCAAGGACCTTCGACCTATT 58.811 47.619 2.91 0.00 35.25 1.73
3104 5687 5.066246 ACAACCACAAATGCCAATTTTTCAG 59.934 36.000 0.00 0.00 33.59 3.02
3114 5697 3.573967 GCCAATTTTTCAGGACTCCTCAA 59.426 43.478 0.00 0.00 0.00 3.02
3115 5698 4.321527 GCCAATTTTTCAGGACTCCTCAAG 60.322 45.833 0.00 0.00 0.00 3.02
3117 5700 6.003950 CCAATTTTTCAGGACTCCTCAAGTA 58.996 40.000 0.00 0.00 38.74 2.24
3129 5839 6.183360 GGACTCCTCAAGTATAGCAAATCAGA 60.183 42.308 0.00 0.00 38.74 3.27
3130 5840 7.187824 ACTCCTCAAGTATAGCAAATCAGAA 57.812 36.000 0.00 0.00 36.07 3.02
3131 5841 7.624549 ACTCCTCAAGTATAGCAAATCAGAAA 58.375 34.615 0.00 0.00 36.07 2.52
3132 5842 8.270744 ACTCCTCAAGTATAGCAAATCAGAAAT 58.729 33.333 0.00 0.00 36.07 2.17
3144 5854 7.375834 AGCAAATCAGAAATATGTATGCATGG 58.624 34.615 10.16 0.00 36.58 3.66
3145 5855 7.231925 AGCAAATCAGAAATATGTATGCATGGA 59.768 33.333 10.16 0.00 36.58 3.41
3147 5857 9.406828 CAAATCAGAAATATGTATGCATGGAAG 57.593 33.333 10.16 0.00 36.58 3.46
3148 5858 7.698506 ATCAGAAATATGTATGCATGGAAGG 57.301 36.000 10.16 0.00 36.58 3.46
3150 5860 6.712095 TCAGAAATATGTATGCATGGAAGGTC 59.288 38.462 10.16 0.00 36.58 3.85
3151 5861 6.487668 CAGAAATATGTATGCATGGAAGGTCA 59.512 38.462 10.16 0.00 36.58 4.02
3152 5862 6.488006 AGAAATATGTATGCATGGAAGGTCAC 59.512 38.462 10.16 0.00 36.58 3.67
3153 5863 3.939740 ATGTATGCATGGAAGGTCACT 57.060 42.857 10.16 0.00 33.37 3.41
3154 5864 3.719268 TGTATGCATGGAAGGTCACTT 57.281 42.857 10.16 0.00 40.34 3.16
3156 5866 5.104569 TATGTATGCATGGAAGGTCACTTCA 60.105 40.000 10.16 0.00 43.71 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
220 230 5.705902 CATGATCATTTTTGTGAGCTGTGA 58.294 37.500 5.16 0.00 35.62 3.58
224 234 4.794278 TGCATGATCATTTTTGTGAGCT 57.206 36.364 5.16 0.00 35.62 4.09
226 236 6.096695 TGACATGCATGATCATTTTTGTGAG 58.903 36.000 32.75 0.59 0.00 3.51
487 497 4.217550 TGGCACTACTTAAAAATGCAGACC 59.782 41.667 0.00 0.00 38.05 3.85
488 498 5.371115 TGGCACTACTTAAAAATGCAGAC 57.629 39.130 0.00 0.00 38.05 3.51
489 499 6.264292 TCTTTGGCACTACTTAAAAATGCAGA 59.736 34.615 0.00 0.00 38.05 4.26
490 500 6.446318 TCTTTGGCACTACTTAAAAATGCAG 58.554 36.000 0.00 0.00 38.05 4.41
491 501 6.398234 TCTTTGGCACTACTTAAAAATGCA 57.602 33.333 0.00 0.00 38.05 3.96
533 543 4.688021 GAGTAATATGGATCGGATGGAGC 58.312 47.826 0.00 0.00 0.00 4.70
535 545 4.341487 ACGAGTAATATGGATCGGATGGA 58.659 43.478 0.00 0.00 39.42 3.41
538 548 4.021456 TGCAACGAGTAATATGGATCGGAT 60.021 41.667 0.00 0.00 39.42 4.18
558 568 6.680810 AGTACAACGTTGTAGTAATACTGCA 58.319 36.000 35.90 15.66 43.50 4.41
568 578 4.087648 GTCGCAGTTAGTACAACGTTGTAG 59.912 45.833 35.04 24.33 43.67 2.74
575 585 5.218139 ACTACTTGTCGCAGTTAGTACAAC 58.782 41.667 0.00 0.00 0.00 3.32
576 586 5.443185 ACTACTTGTCGCAGTTAGTACAA 57.557 39.130 0.00 0.00 0.00 2.41
585 595 5.582550 TCTGATTCATACTACTTGTCGCAG 58.417 41.667 0.00 0.00 0.00 5.18
586 596 5.450550 CCTCTGATTCATACTACTTGTCGCA 60.451 44.000 0.00 0.00 0.00 5.10
597 609 8.940952 GCAATATAAACTCCCTCTGATTCATAC 58.059 37.037 0.00 0.00 0.00 2.39
602 614 7.781693 ACAATGCAATATAAACTCCCTCTGATT 59.218 33.333 0.00 0.00 0.00 2.57
623 635 7.852971 ATTTAATCAAATTGCCTGGACAATG 57.147 32.000 14.27 7.32 40.12 2.82
632 644 7.534918 GCACAGTGAAAATTTAATCAAATTGCC 59.465 33.333 4.15 0.00 42.29 4.52
653 666 9.546909 CTGACATAATAACTTTTACAAGCACAG 57.453 33.333 0.00 0.00 32.57 3.66
689 702 9.917887 GGAATAATTCTCTCATTCATATGGGAT 57.082 33.333 2.13 0.00 40.44 3.85
690 703 8.893560 TGGAATAATTCTCTCATTCATATGGGA 58.106 33.333 2.13 0.00 38.96 4.37
691 704 9.696572 ATGGAATAATTCTCTCATTCATATGGG 57.303 33.333 2.13 0.00 33.23 4.00
730 744 8.341173 GGCAGTGACATCTTATTAATTTGAGAG 58.659 37.037 0.00 0.00 0.00 3.20
731 745 7.011389 CGGCAGTGACATCTTATTAATTTGAGA 59.989 37.037 0.00 0.00 0.00 3.27
732 746 7.011389 TCGGCAGTGACATCTTATTAATTTGAG 59.989 37.037 0.00 0.00 0.00 3.02
733 747 6.821160 TCGGCAGTGACATCTTATTAATTTGA 59.179 34.615 0.00 0.00 0.00 2.69
734 748 7.011389 TCTCGGCAGTGACATCTTATTAATTTG 59.989 37.037 0.00 0.00 0.00 2.32
735 749 7.047891 TCTCGGCAGTGACATCTTATTAATTT 58.952 34.615 0.00 0.00 0.00 1.82
736 750 6.582636 TCTCGGCAGTGACATCTTATTAATT 58.417 36.000 0.00 0.00 0.00 1.40
745 1504 1.795768 TTGTTCTCGGCAGTGACATC 58.204 50.000 0.00 0.00 0.00 3.06
774 1533 8.308931 TCATCCATTTTTCTTCTCTTTTCATGG 58.691 33.333 0.00 0.00 0.00 3.66
775 1534 9.871238 ATCATCCATTTTTCTTCTCTTTTCATG 57.129 29.630 0.00 0.00 0.00 3.07
809 1589 8.267894 GCTATATGGTGTTGGTATCCAGATTAT 58.732 37.037 0.00 0.00 35.30 1.28
822 1608 2.645838 AGGCCTGCTATATGGTGTTG 57.354 50.000 3.11 0.00 0.00 3.33
827 1613 4.702131 GGTTTTGATAGGCCTGCTATATGG 59.298 45.833 17.99 0.00 0.00 2.74
829 1615 4.565652 CGGGTTTTGATAGGCCTGCTATAT 60.566 45.833 17.99 0.00 0.00 0.86
832 1618 1.134220 CGGGTTTTGATAGGCCTGCTA 60.134 52.381 17.99 0.95 0.00 3.49
833 1619 0.394352 CGGGTTTTGATAGGCCTGCT 60.394 55.000 17.99 1.48 0.00 4.24
834 1620 1.384222 CCGGGTTTTGATAGGCCTGC 61.384 60.000 17.99 8.14 0.00 4.85
844 1634 3.299524 CTGCATGGGCCGGGTTTTG 62.300 63.158 2.18 0.00 40.13 2.44
845 1635 2.996734 CTGCATGGGCCGGGTTTT 60.997 61.111 2.18 0.00 40.13 2.43
884 1715 3.497031 GCTTTGGTCCGCCGTAGC 61.497 66.667 0.00 0.00 36.89 3.58
890 1721 0.796927 GAGTAGTTGCTTTGGTCCGC 59.203 55.000 0.00 0.00 0.00 5.54
898 1729 3.119316 CGATCTCACTGGAGTAGTTGCTT 60.119 47.826 0.00 0.00 42.05 3.91
909 1740 0.457443 TGCTACTGCGATCTCACTGG 59.543 55.000 0.00 0.00 43.34 4.00
910 1741 2.284263 TTGCTACTGCGATCTCACTG 57.716 50.000 0.00 0.00 43.34 3.66
918 1749 0.930310 GATTGCGATTGCTACTGCGA 59.070 50.000 6.47 0.00 43.34 5.10
931 1762 2.404215 AGATATTTCCGACGGATTGCG 58.596 47.619 19.12 0.00 0.00 4.85
939 1771 2.044860 CGCGACAGAGATATTTCCGAC 58.955 52.381 0.00 0.00 0.00 4.79
940 1772 1.599667 GCGCGACAGAGATATTTCCGA 60.600 52.381 12.10 0.00 0.00 4.55
1095 1945 4.068887 TTCGGGGAAATGGGGGCC 62.069 66.667 0.00 0.00 0.00 5.80
1096 1946 2.758327 GTTCGGGGAAATGGGGGC 60.758 66.667 0.00 0.00 0.00 5.80
1339 2233 2.187946 GGTGAGCCCATCGACCAG 59.812 66.667 0.00 0.00 32.46 4.00
1431 2325 1.153469 GTACTGCAGCCTGGAGAGC 60.153 63.158 20.85 8.02 38.14 4.09
1432 2326 1.407258 GTAGTACTGCAGCCTGGAGAG 59.593 57.143 20.85 0.00 38.14 3.20
1825 2729 2.064762 CTTTGACTTCCTCAGCAGACG 58.935 52.381 0.00 0.00 0.00 4.18
1864 2768 0.034896 TCAGAGAACAAGAACCCGGC 59.965 55.000 0.00 0.00 0.00 6.13
1868 2772 2.147150 GCACCTCAGAGAACAAGAACC 58.853 52.381 0.00 0.00 0.00 3.62
2046 2950 3.550437 ATGAGCTTCTCCGCAAATACT 57.450 42.857 0.00 0.00 0.00 2.12
2054 2958 0.683973 AGGGCATATGAGCTTCTCCG 59.316 55.000 6.97 0.00 34.17 4.63
2134 3038 9.912634 GGTTCATCTAAATCTGAAATTTGTTGA 57.087 29.630 0.00 0.00 33.45 3.18
2139 3043 8.884124 TCCTGGTTCATCTAAATCTGAAATTT 57.116 30.769 0.00 0.00 33.45 1.82
2269 3187 4.941263 ACAAACACACTACAAAAGAGAGCA 59.059 37.500 0.00 0.00 0.00 4.26
2273 3191 7.165812 GCATGTAACAAACACACTACAAAAGAG 59.834 37.037 0.00 0.00 42.09 2.85
2324 3250 9.994432 GTTCAGGAATCAATTTATCAGTTACAG 57.006 33.333 0.00 0.00 0.00 2.74
2410 3344 4.701956 AGATAAACGTTGCCATGAAAGG 57.298 40.909 0.00 0.00 0.00 3.11
2454 3388 9.414295 TGAAATATGATGCAACTGAAAAGAAAG 57.586 29.630 0.00 0.00 0.00 2.62
2456 3390 8.579006 ACTGAAATATGATGCAACTGAAAAGAA 58.421 29.630 0.00 0.00 0.00 2.52
2458 3392 8.752766 AACTGAAATATGATGCAACTGAAAAG 57.247 30.769 0.00 0.00 0.00 2.27
2533 3468 7.849515 GCAAACTTTAGTACTAACTGTCACAAC 59.150 37.037 14.96 3.79 36.36 3.32
2633 3571 4.874396 GGAACGAATACGGAGGAAGAAAAT 59.126 41.667 0.00 0.00 44.46 1.82
2711 3649 6.002704 GGGATGCTCATGATAAGACTGATTT 58.997 40.000 0.00 0.00 0.00 2.17
2845 3783 4.390909 GTGTAGGTTGTAGTGGGAAAATCG 59.609 45.833 0.00 0.00 0.00 3.34
2973 3923 0.959553 GGTCGAAGGTCTCAGTGTCA 59.040 55.000 0.00 0.00 0.00 3.58
3022 3972 7.787028 AGGTCCTTGCTAAACAAAACAATTTA 58.213 30.769 0.00 0.00 37.96 1.40
3104 5687 5.918608 TGATTTGCTATACTTGAGGAGTCC 58.081 41.667 0.00 0.00 39.86 3.85
3129 5839 6.367983 AGTGACCTTCCATGCATACATATTT 58.632 36.000 0.00 0.00 33.67 1.40
3130 5840 5.945310 AGTGACCTTCCATGCATACATATT 58.055 37.500 0.00 0.00 33.67 1.28
3131 5841 5.573380 AGTGACCTTCCATGCATACATAT 57.427 39.130 0.00 0.00 33.67 1.78
3132 5842 5.104569 TGAAGTGACCTTCCATGCATACATA 60.105 40.000 0.00 0.00 45.45 2.29
3134 5844 3.008923 TGAAGTGACCTTCCATGCATACA 59.991 43.478 0.00 0.00 45.45 2.29
3137 5847 2.885135 TGAAGTGACCTTCCATGCAT 57.115 45.000 0.00 0.00 45.45 3.96
3138 5848 2.885135 ATGAAGTGACCTTCCATGCA 57.115 45.000 0.00 0.00 45.45 3.96


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

AutoCloner maintained by Alex Coulton.