Multiple sequence alignment - TraesCS2B01G036500

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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 TraesCS2B01G036500 chr2B 100.000 2557 0 0 1 2557 17369644 17367088 0.000000e+00 4723.0
1 TraesCS2B01G036500 chr2B 83.164 1081 147 24 65 1129 17431954 17433015 0.000000e+00 955.0
2 TraesCS2B01G036500 chr2B 82.051 390 53 11 1134 1521 16827867 16828241 1.480000e-82 316.0
3 TraesCS2B01G036500 chr2B 79.254 429 66 14 1122 1545 17433065 17433475 6.970000e-71 278.0
4 TraesCS2B01G036500 chr2B 79.061 277 51 6 164 436 16769394 16769667 1.560000e-42 183.0
5 TraesCS2B01G036500 chr2B 94.643 112 5 1 1940 2051 16880130 16880240 3.380000e-39 172.0
6 TraesCS2B01G036500 chrUn 87.856 1581 125 32 51 1576 12181732 12183300 0.000000e+00 1794.0
7 TraesCS2B01G036500 chrUn 86.160 513 60 9 179 682 12636743 12636233 6.220000e-151 544.0
8 TraesCS2B01G036500 chrUn 87.982 441 26 13 2117 2557 12634619 12634206 1.770000e-136 496.0
9 TraesCS2B01G036500 chrUn 83.663 404 48 13 721 1115 12636121 12635727 5.200000e-97 364.0
10 TraesCS2B01G036500 chrUn 81.007 437 68 8 1122 1557 12635674 12635252 1.470000e-87 333.0
11 TraesCS2B01G036500 chrUn 95.745 47 1 1 2141 2187 12185493 12185538 9.810000e-10 75.0
12 TraesCS2B01G036500 chr2A 97.203 1001 28 0 49 1049 11916114 11915114 0.000000e+00 1694.0
13 TraesCS2B01G036500 chr2A 86.873 678 51 17 1123 1768 11915008 11914337 0.000000e+00 725.0
14 TraesCS2B01G036500 chr2A 76.483 472 83 19 211 661 11743996 11744460 5.500000e-57 231.0
15 TraesCS2B01G036500 chr2A 75.518 531 93 26 164 664 11620841 11621364 2.560000e-55 226.0
16 TraesCS2B01G036500 chr2A 88.028 142 11 2 2418 2557 11912115 11911978 2.040000e-36 163.0
17 TraesCS2B01G036500 chr2A 80.702 171 24 9 495 661 11745683 11745848 9.610000e-25 124.0
18 TraesCS2B01G036500 chr2A 96.721 61 1 1 1817 1877 11912370 11912311 1.620000e-17 100.0
19 TraesCS2B01G036500 chr2A 91.935 62 0 2 1995 2051 11912258 11912197 5.860000e-12 82.4
20 TraesCS2B01G036500 chr2D 90.513 1033 57 19 762 1768 11039754 11040771 0.000000e+00 1327.0
21 TraesCS2B01G036500 chr2D 98.182 715 13 0 49 763 11038881 11039595 0.000000e+00 1249.0
22 TraesCS2B01G036500 chr2D 84.044 915 116 19 110 1007 11214878 11215779 0.000000e+00 854.0
23 TraesCS2B01G036500 chr2D 87.609 686 43 17 1898 2557 11043830 11044499 0.000000e+00 758.0
24 TraesCS2B01G036500 chr2D 90.909 77 6 1 1898 1974 11063223 11063148 4.500000e-18 102.0
25 TraesCS2B01G036500 chr2D 96.721 61 1 1 1817 1877 11043785 11043844 1.620000e-17 100.0
26 TraesCS2B01G036500 chr2D 98.246 57 1 0 1821 1877 11063265 11063209 1.620000e-17 100.0
27 TraesCS2B01G036500 chr7B 84.876 443 38 10 2117 2557 78245752 78245337 1.090000e-113 420.0
28 TraesCS2B01G036500 chr7B 95.522 67 3 0 1990 2056 78246451 78246385 9.670000e-20 108.0
29 TraesCS2B01G036500 chr7B 98.361 61 0 1 1817 1877 78246902 78246843 3.480000e-19 106.0
30 TraesCS2B01G036500 chr7B 90.909 77 6 1 1898 1974 78246857 78246782 4.500000e-18 102.0
31 TraesCS2B01G036500 chr7B 92.982 57 3 1 1817 1873 604807756 604807811 5.860000e-12 82.4
32 TraesCS2B01G036500 chr6B 82.105 95 13 4 499 591 2887524 2887616 7.590000e-11 78.7
33 TraesCS2B01G036500 chr7A 88.525 61 6 1 1817 1877 717846596 717846655 3.530000e-09 73.1


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 TraesCS2B01G036500 chr2B 17367088 17369644 2556 True 4723.00 4723 100.00000 1 2557 1 chr2B.!!$R1 2556
1 TraesCS2B01G036500 chr2B 17431954 17433475 1521 False 616.50 955 81.20900 65 1545 2 chr2B.!!$F4 1480
2 TraesCS2B01G036500 chrUn 12181732 12185538 3806 False 934.50 1794 91.80050 51 2187 2 chrUn.!!$F1 2136
3 TraesCS2B01G036500 chrUn 12634206 12636743 2537 True 434.25 544 84.70300 179 2557 4 chrUn.!!$R1 2378
4 TraesCS2B01G036500 chr2A 11911978 11916114 4136 True 552.88 1694 92.15200 49 2557 5 chr2A.!!$R1 2508
5 TraesCS2B01G036500 chr2A 11620841 11621364 523 False 226.00 226 75.51800 164 664 1 chr2A.!!$F1 500
6 TraesCS2B01G036500 chr2D 11038881 11044499 5618 False 858.50 1327 93.25625 49 2557 4 chr2D.!!$F2 2508
7 TraesCS2B01G036500 chr2D 11214878 11215779 901 False 854.00 854 84.04400 110 1007 1 chr2D.!!$F1 897

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
429 443 1.771044 CGCGACGGAACACTGTAAC 59.229 57.895 0.0 0.0 0.0 2.5 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1846 7035 1.005867 TGTTAACGCCGGACACTCC 60.006 57.895 5.05 0.0 0.0 3.85 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
107 111 9.668497 GTTCTCCTTATCTTAAAACACATAGGT 57.332 33.333 0.00 0.00 0.00 3.08
162 175 5.400066 TCAAGATGAACGAGTCAATACCA 57.600 39.130 0.00 0.00 40.50 3.25
336 350 6.736794 GCCTGGTAATATTTTGCTGGATGAAG 60.737 42.308 0.00 0.00 0.00 3.02
429 443 1.771044 CGCGACGGAACACTGTAAC 59.229 57.895 0.00 0.00 0.00 2.50
1035 1336 5.008980 TCTAATGTGTCAAATGATGCCACA 58.991 37.500 7.51 7.51 0.00 4.17
1058 1359 1.071071 CCAGGTACGTTCTTCCACCAA 59.929 52.381 5.76 0.00 33.27 3.67
1061 1362 2.635915 AGGTACGTTCTTCCACCAATGA 59.364 45.455 5.76 0.00 33.27 2.57
1062 1363 2.740447 GGTACGTTCTTCCACCAATGAC 59.260 50.000 0.00 0.00 0.00 3.06
1063 1364 1.892209 ACGTTCTTCCACCAATGACC 58.108 50.000 0.00 0.00 0.00 4.02
1066 1367 1.060729 TTCTTCCACCAATGACCGGA 58.939 50.000 9.46 0.00 0.00 5.14
1068 1369 1.453155 CTTCCACCAATGACCGGAAG 58.547 55.000 9.46 9.68 46.21 3.46
1080 1381 3.322466 CGGAAGGGGTGCCACTCT 61.322 66.667 0.00 0.00 0.00 3.24
1257 1614 4.183865 CCTGCAGATAATGAACAAGACGA 58.816 43.478 17.39 0.00 0.00 4.20
1260 1617 4.994217 TGCAGATAATGAACAAGACGAACA 59.006 37.500 0.00 0.00 0.00 3.18
1474 1831 6.322456 TCAAGAGACGGTGAGATTGATTATCT 59.678 38.462 0.00 0.00 46.41 1.98
1475 1832 6.083098 AGAGACGGTGAGATTGATTATCTG 57.917 41.667 0.00 0.00 43.75 2.90
1550 1907 3.484649 CGATCGTTTATGTTACACCGGAG 59.515 47.826 9.46 1.26 0.00 4.63
1557 1914 2.018542 TGTTACACCGGAGCAATAGC 57.981 50.000 9.46 0.00 42.56 2.97
1558 1915 1.276705 TGTTACACCGGAGCAATAGCA 59.723 47.619 9.46 0.00 45.49 3.49
1559 1916 2.289756 TGTTACACCGGAGCAATAGCAA 60.290 45.455 9.46 0.00 45.49 3.91
1560 1917 2.943033 GTTACACCGGAGCAATAGCAAT 59.057 45.455 9.46 0.00 45.49 3.56
1561 1918 4.124238 GTTACACCGGAGCAATAGCAATA 58.876 43.478 9.46 0.00 45.49 1.90
1562 1919 2.838736 ACACCGGAGCAATAGCAATAG 58.161 47.619 9.46 0.00 45.49 1.73
1576 1933 4.574674 AGCAATAGTCTCATCCACCAAA 57.425 40.909 0.00 0.00 0.00 3.28
1577 1934 4.265073 AGCAATAGTCTCATCCACCAAAC 58.735 43.478 0.00 0.00 0.00 2.93
1579 1936 4.641989 GCAATAGTCTCATCCACCAAACAT 59.358 41.667 0.00 0.00 0.00 2.71
1585 1942 4.037923 GTCTCATCCACCAAACATTGTGTT 59.962 41.667 0.00 0.00 43.41 3.32
1631 2265 5.810587 GCGAGATGGTGTTCTCTTTGTATTA 59.189 40.000 0.00 0.00 40.03 0.98
1663 2297 6.511416 TGGTTTCTTGTTTGATTATGTGGTG 58.489 36.000 0.00 0.00 0.00 4.17
1664 2298 5.405269 GGTTTCTTGTTTGATTATGTGGTGC 59.595 40.000 0.00 0.00 0.00 5.01
1687 2324 5.741040 GCTTGATTAGCTGCTACAAACATTC 59.259 40.000 9.27 0.00 46.77 2.67
1705 2342 4.159506 ACATTCTCCTCTCTAACTGCTGAC 59.840 45.833 0.00 0.00 0.00 3.51
1742 2389 5.067805 GGGAAGTATATGGAAAACAAGCAGG 59.932 44.000 0.00 0.00 0.00 4.85
1810 3424 5.837979 AGTTATCTCCATCTGTAGCATGAGT 59.162 40.000 0.00 0.00 0.00 3.41
1863 7052 3.866356 GGAGTGTCCGGCGTTAAC 58.134 61.111 6.01 1.44 0.00 2.01
1864 7053 1.005867 GGAGTGTCCGGCGTTAACA 60.006 57.895 6.01 4.42 0.00 2.41
1865 7054 1.012486 GGAGTGTCCGGCGTTAACAG 61.012 60.000 6.01 0.00 0.00 3.16
1866 7055 1.005394 AGTGTCCGGCGTTAACAGG 60.005 57.895 6.01 5.96 0.00 4.00
1867 7056 1.005867 GTGTCCGGCGTTAACAGGA 60.006 57.895 6.01 8.25 0.00 3.86
1868 7057 0.600782 GTGTCCGGCGTTAACAGGAA 60.601 55.000 13.81 5.00 34.17 3.36
1869 7058 0.320073 TGTCCGGCGTTAACAGGAAG 60.320 55.000 13.81 0.00 34.17 3.46
1870 7059 0.037975 GTCCGGCGTTAACAGGAAGA 60.038 55.000 13.81 0.00 34.17 2.87
1871 7060 0.680618 TCCGGCGTTAACAGGAAGAA 59.319 50.000 6.01 0.00 0.00 2.52
1872 7061 0.794473 CCGGCGTTAACAGGAAGAAC 59.206 55.000 6.01 0.00 0.00 3.01
1873 7062 1.504359 CGGCGTTAACAGGAAGAACA 58.496 50.000 6.39 0.00 0.00 3.18
1874 7063 1.459592 CGGCGTTAACAGGAAGAACAG 59.540 52.381 6.39 0.00 0.00 3.16
1875 7064 1.197036 GGCGTTAACAGGAAGAACAGC 59.803 52.381 6.39 0.00 0.00 4.40
1876 7065 1.871039 GCGTTAACAGGAAGAACAGCA 59.129 47.619 6.39 0.00 0.00 4.41
1877 7066 2.484264 GCGTTAACAGGAAGAACAGCAT 59.516 45.455 6.39 0.00 0.00 3.79
1878 7067 3.058224 GCGTTAACAGGAAGAACAGCATT 60.058 43.478 6.39 0.00 0.00 3.56
1879 7068 4.556699 GCGTTAACAGGAAGAACAGCATTT 60.557 41.667 6.39 0.00 0.00 2.32
1880 7069 5.147162 CGTTAACAGGAAGAACAGCATTTC 58.853 41.667 6.39 0.00 0.00 2.17
1881 7070 3.904136 AACAGGAAGAACAGCATTTCG 57.096 42.857 0.00 0.00 0.00 3.46
1882 7071 1.537202 ACAGGAAGAACAGCATTTCGC 59.463 47.619 0.00 0.00 42.91 4.70
1883 7072 1.536766 CAGGAAGAACAGCATTTCGCA 59.463 47.619 0.00 0.00 46.13 5.10
1884 7073 1.537202 AGGAAGAACAGCATTTCGCAC 59.463 47.619 0.00 0.00 46.13 5.34
1885 7074 1.595609 GAAGAACAGCATTTCGCACG 58.404 50.000 0.00 0.00 46.13 5.34
1886 7075 1.194547 GAAGAACAGCATTTCGCACGA 59.805 47.619 0.00 0.00 46.13 4.35
1887 7076 1.225855 AGAACAGCATTTCGCACGAA 58.774 45.000 0.49 0.49 46.13 3.85
1888 7077 1.601903 AGAACAGCATTTCGCACGAAA 59.398 42.857 19.25 19.25 46.37 3.46
1889 7078 2.032799 AGAACAGCATTTCGCACGAAAA 59.967 40.909 20.60 6.27 45.60 2.29
1890 7079 2.483583 ACAGCATTTCGCACGAAAAA 57.516 40.000 20.60 0.99 45.60 1.94
1929 7118 4.135306 CAGCAAGGATATGTTCTCTGCAT 58.865 43.478 7.36 0.00 35.57 3.96
1942 7131 4.332428 TCTCTGCATATCTGTGGTCATG 57.668 45.455 0.00 0.00 0.00 3.07
1988 7178 6.016777 GTCCAGCTTGATCATTTTATAGGTGG 60.017 42.308 25.22 25.22 47.00 4.61
2069 7264 6.332735 TGCTCAAGCTACTGGTATATACTG 57.667 41.667 12.54 8.46 42.66 2.74
2070 7265 5.833667 TGCTCAAGCTACTGGTATATACTGT 59.166 40.000 12.54 13.14 42.66 3.55
2072 7267 7.040617 TGCTCAAGCTACTGGTATATACTGTAC 60.041 40.741 12.54 10.11 42.66 2.90
2073 7268 7.430992 TCAAGCTACTGGTATATACTGTACG 57.569 40.000 12.54 10.28 0.00 3.67
2122 7340 3.055819 GTCCAGCCTTCTCTCACATTGTA 60.056 47.826 0.00 0.00 0.00 2.41
2288 7506 1.135721 CTTATCCCAAGCCAAGCAAGC 59.864 52.381 0.00 0.00 0.00 4.01
2353 7571 2.862536 GGAATCCTTTTAGTACGTCCGC 59.137 50.000 0.00 0.00 0.00 5.54
2358 7576 5.070770 TCCTTTTAGTACGTCCGCATAAA 57.929 39.130 0.00 0.00 0.00 1.40
2371 7589 4.675114 GTCCGCATAAAGTTTTGTGTGAAG 59.325 41.667 14.04 2.18 40.70 3.02
2375 7593 5.971202 CGCATAAAGTTTTGTGTGAAGAAGT 59.029 36.000 8.61 0.00 40.70 3.01
2379 7597 2.097466 AGTTTTGTGTGAAGAAGTGCCG 59.903 45.455 0.00 0.00 0.00 5.69
2381 7599 2.254546 TTGTGTGAAGAAGTGCCGAT 57.745 45.000 0.00 0.00 0.00 4.18
2382 7600 2.254546 TGTGTGAAGAAGTGCCGATT 57.745 45.000 0.00 0.00 0.00 3.34
2383 7601 2.571212 TGTGTGAAGAAGTGCCGATTT 58.429 42.857 0.00 0.00 0.00 2.17
2384 7602 2.290367 TGTGTGAAGAAGTGCCGATTTG 59.710 45.455 0.00 0.00 0.00 2.32
2385 7603 2.290641 GTGTGAAGAAGTGCCGATTTGT 59.709 45.455 0.00 0.00 0.00 2.83
2386 7604 2.948979 TGTGAAGAAGTGCCGATTTGTT 59.051 40.909 0.00 0.00 0.00 2.83
2434 7652 1.910671 TGGTTAGAAGGGCGGTTGTAT 59.089 47.619 0.00 0.00 0.00 2.29
2441 7659 1.205460 AGGGCGGTTGTATCTTGGGT 61.205 55.000 0.00 0.00 0.00 4.51
2453 7671 1.879575 TCTTGGGTCTACCTGGGATG 58.120 55.000 0.00 0.00 41.11 3.51
2454 7672 0.839946 CTTGGGTCTACCTGGGATGG 59.160 60.000 0.00 0.00 41.11 3.51
2455 7673 0.419865 TTGGGTCTACCTGGGATGGA 59.580 55.000 0.00 0.00 41.11 3.41
2456 7674 0.647738 TGGGTCTACCTGGGATGGAT 59.352 55.000 0.00 0.00 41.11 3.41
2463 7681 5.251700 GGTCTACCTGGGATGGATCAAATAT 59.748 44.000 0.00 0.00 0.00 1.28
2472 7690 5.765182 GGGATGGATCAAATATTCGACTTGT 59.235 40.000 0.00 0.00 0.00 3.16
2479 7697 7.224753 GGATCAAATATTCGACTTGTTGCTCTA 59.775 37.037 0.00 0.00 0.00 2.43
2505 7725 7.152645 TGTCTTACTAATGCGGATTATTCTCC 58.847 38.462 9.97 0.00 0.00 3.71
2506 7726 7.152645 GTCTTACTAATGCGGATTATTCTCCA 58.847 38.462 9.97 0.00 34.78 3.86
2517 7737 6.989169 GCGGATTATTCTCCATATAGCATCTT 59.011 38.462 0.00 0.00 34.78 2.40
2546 7766 1.446792 AGCGTCGATGTCCTTGCTG 60.447 57.895 6.48 0.00 0.00 4.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 34 4.625225 AGATGGATATGGGGGTGTTTTT 57.375 40.909 0.00 0.00 0.00 1.94
34 35 4.016666 TCAAGATGGATATGGGGGTGTTTT 60.017 41.667 0.00 0.00 0.00 2.43
35 36 3.531397 TCAAGATGGATATGGGGGTGTTT 59.469 43.478 0.00 0.00 0.00 2.83
36 37 3.130450 TCAAGATGGATATGGGGGTGTT 58.870 45.455 0.00 0.00 0.00 3.32
37 38 2.787956 TCAAGATGGATATGGGGGTGT 58.212 47.619 0.00 0.00 0.00 4.16
38 39 5.443283 CATATCAAGATGGATATGGGGGTG 58.557 45.833 12.97 0.00 46.95 4.61
39 40 5.722172 CATATCAAGATGGATATGGGGGT 57.278 43.478 12.97 0.00 46.95 4.95
107 111 8.121305 ACTGATATTTGTAGCCAATTGTCAAA 57.879 30.769 4.43 10.30 34.11 2.69
336 350 2.577449 CCAATTTTGGGCGTCATACC 57.423 50.000 1.14 0.00 44.70 2.73
448 465 7.826690 TGAAAAACTTAGTTCAGAGTGCTTTT 58.173 30.769 0.00 0.00 30.41 2.27
852 1150 5.026121 TCTATTTCCTGTGACTGTGAGGAT 58.974 41.667 0.00 0.00 35.77 3.24
1035 1336 1.617357 GTGGAAGAACGTACCTGGACT 59.383 52.381 0.00 0.00 0.00 3.85
1058 1359 3.728373 GGCACCCCTTCCGGTCAT 61.728 66.667 0.00 0.00 32.17 3.06
1062 1363 4.410400 GAGTGGCACCCCTTCCGG 62.410 72.222 15.27 0.00 0.00 5.14
1063 1364 2.804828 GAAGAGTGGCACCCCTTCCG 62.805 65.000 26.79 0.00 31.41 4.30
1066 1367 1.062488 ACAGAAGAGTGGCACCCCTT 61.062 55.000 18.82 18.82 0.00 3.95
1068 1369 0.178990 AAACAGAAGAGTGGCACCCC 60.179 55.000 15.27 6.77 0.00 4.95
1179 1536 1.228184 GCAGCTCCAGGGATGGATG 60.228 63.158 0.00 0.00 37.34 3.51
1211 1568 0.826672 ACGACGTCTCCTTCCTTGGT 60.827 55.000 14.70 0.00 0.00 3.67
1247 1604 3.482598 CGATGATGCTGTTCGTCTTGTTC 60.483 47.826 0.00 0.00 30.83 3.18
1257 1614 1.135972 GTTGAACGCGATGATGCTGTT 60.136 47.619 15.93 0.00 35.44 3.16
1260 1617 1.372582 ATGTTGAACGCGATGATGCT 58.627 45.000 15.93 0.00 0.00 3.79
1381 1738 4.594854 ACCGCATGTTGGGTGGCA 62.595 61.111 10.36 0.00 39.55 4.92
1385 1742 3.884704 ATGGCACCGCATGTTGGGT 62.885 57.895 10.36 5.42 36.87 4.51
1457 1814 6.484643 ACAATTCCAGATAATCAATCTCACCG 59.515 38.462 0.00 0.00 43.42 4.94
1474 1831 1.073125 TGGCCTTCTCGAACAATTCCA 59.927 47.619 3.32 0.00 0.00 3.53
1475 1832 1.821216 TGGCCTTCTCGAACAATTCC 58.179 50.000 3.32 0.00 0.00 3.01
1550 1907 4.453819 GGTGGATGAGACTATTGCTATTGC 59.546 45.833 0.00 0.00 40.20 3.56
1557 1914 6.151648 ACAATGTTTGGTGGATGAGACTATTG 59.848 38.462 0.00 0.00 34.12 1.90
1558 1915 6.151648 CACAATGTTTGGTGGATGAGACTATT 59.848 38.462 0.00 0.00 34.12 1.73
1559 1916 5.649395 CACAATGTTTGGTGGATGAGACTAT 59.351 40.000 0.00 0.00 34.12 2.12
1560 1917 5.003160 CACAATGTTTGGTGGATGAGACTA 58.997 41.667 0.00 0.00 34.12 2.59
1561 1918 3.822735 CACAATGTTTGGTGGATGAGACT 59.177 43.478 0.00 0.00 34.12 3.24
1562 1919 3.569701 ACACAATGTTTGGTGGATGAGAC 59.430 43.478 0.00 0.00 39.31 3.36
1600 1994 3.411446 AGAACACCATCTCGCAATCAAA 58.589 40.909 0.00 0.00 0.00 2.69
1640 2274 5.405269 GCACCACATAATCAAACAAGAAACC 59.595 40.000 0.00 0.00 0.00 3.27
1664 2298 7.081526 AGAATGTTTGTAGCAGCTAATCAAG 57.918 36.000 2.87 0.00 0.00 3.02
1687 2324 4.523083 AGTAGTCAGCAGTTAGAGAGGAG 58.477 47.826 0.00 0.00 0.00 3.69
1728 2366 2.529780 CATTGCCTGCTTGTTTTCCA 57.470 45.000 0.00 0.00 0.00 3.53
1742 2389 2.818130 TTGAAGGACCTTTGCATTGC 57.182 45.000 8.49 0.46 0.00 3.56
1768 2415 9.766277 GAGATAACTGAATGTTGCTCTTTTTAG 57.234 33.333 0.00 0.00 39.55 1.85
1774 2520 5.426689 TGGAGATAACTGAATGTTGCTCT 57.573 39.130 0.00 0.00 39.34 4.09
1810 3424 3.582647 TGGGTGAGCTTCTCTGAATGTTA 59.417 43.478 0.00 0.00 0.00 2.41
1846 7035 1.005867 TGTTAACGCCGGACACTCC 60.006 57.895 5.05 0.00 0.00 3.85
1862 7051 1.537202 GCGAAATGCTGTTCTTCCTGT 59.463 47.619 0.00 0.00 41.73 4.00
1863 7052 1.536766 TGCGAAATGCTGTTCTTCCTG 59.463 47.619 0.00 0.00 46.63 3.86
1864 7053 1.537202 GTGCGAAATGCTGTTCTTCCT 59.463 47.619 0.00 0.00 46.63 3.36
1865 7054 1.725931 CGTGCGAAATGCTGTTCTTCC 60.726 52.381 0.00 0.00 46.63 3.46
1866 7055 1.194547 TCGTGCGAAATGCTGTTCTTC 59.805 47.619 0.00 0.00 46.63 2.87
1867 7056 1.225855 TCGTGCGAAATGCTGTTCTT 58.774 45.000 0.00 0.00 46.63 2.52
1868 7057 1.225855 TTCGTGCGAAATGCTGTTCT 58.774 45.000 4.43 0.00 46.63 3.01
1869 7058 2.031037 TTTCGTGCGAAATGCTGTTC 57.969 45.000 14.66 0.00 46.63 3.18
1870 7059 2.483583 TTTTCGTGCGAAATGCTGTT 57.516 40.000 18.46 0.00 46.63 3.16
1871 7060 2.483583 TTTTTCGTGCGAAATGCTGT 57.516 40.000 18.46 0.00 46.63 4.40
1889 7078 4.013728 TGCTGTTCTACCTGTGTGTTTTT 58.986 39.130 0.00 0.00 0.00 1.94
1890 7079 3.616219 TGCTGTTCTACCTGTGTGTTTT 58.384 40.909 0.00 0.00 0.00 2.43
1891 7080 3.275617 TGCTGTTCTACCTGTGTGTTT 57.724 42.857 0.00 0.00 0.00 2.83
1892 7081 3.206150 CTTGCTGTTCTACCTGTGTGTT 58.794 45.455 0.00 0.00 0.00 3.32
1893 7082 2.485479 CCTTGCTGTTCTACCTGTGTGT 60.485 50.000 0.00 0.00 0.00 3.72
1894 7083 2.146342 CCTTGCTGTTCTACCTGTGTG 58.854 52.381 0.00 0.00 0.00 3.82
1895 7084 2.047061 TCCTTGCTGTTCTACCTGTGT 58.953 47.619 0.00 0.00 0.00 3.72
1896 7085 2.839486 TCCTTGCTGTTCTACCTGTG 57.161 50.000 0.00 0.00 0.00 3.66
1929 7118 3.389002 CCAGATGGACATGACCACAGATA 59.611 47.826 19.28 0.00 43.03 1.98
1942 7131 3.054802 ACAGACAAGGATTCCAGATGGAC 60.055 47.826 5.29 0.00 45.39 4.02
1988 7178 2.877168 CAGATAATGAGCTGGAGTTGCC 59.123 50.000 0.00 0.00 35.34 4.52
2069 7264 7.869429 TGGCTAGCTTTCCTATTAAATACGTAC 59.131 37.037 15.72 0.00 0.00 3.67
2070 7265 7.954835 TGGCTAGCTTTCCTATTAAATACGTA 58.045 34.615 15.72 0.00 0.00 3.57
2072 7267 7.724305 TTGGCTAGCTTTCCTATTAAATACG 57.276 36.000 15.72 0.00 0.00 3.06
2122 7340 5.183140 AGTTGAGCAGTTTTACACACAAACT 59.817 36.000 0.00 0.00 43.80 2.66
2182 7400 6.672147 CCTCTTAGTGTTGTCTCCATTTTTG 58.328 40.000 0.00 0.00 0.00 2.44
2353 7571 6.198966 GGCACTTCTTCACACAAAACTTTATG 59.801 38.462 0.00 0.00 0.00 1.90
2358 7576 2.097466 CGGCACTTCTTCACACAAAACT 59.903 45.455 0.00 0.00 0.00 2.66
2434 7652 1.625228 CCATCCCAGGTAGACCCAAGA 60.625 57.143 0.00 0.00 36.42 3.02
2441 7659 6.295859 CGAATATTTGATCCATCCCAGGTAGA 60.296 42.308 0.00 0.00 0.00 2.59
2453 7671 6.037610 AGAGCAACAAGTCGAATATTTGATCC 59.962 38.462 16.39 0.00 31.34 3.36
2454 7672 7.009568 AGAGCAACAAGTCGAATATTTGATC 57.990 36.000 13.64 13.64 31.19 2.92
2455 7673 6.992063 AGAGCAACAAGTCGAATATTTGAT 57.008 33.333 8.65 4.11 0.00 2.57
2456 7674 7.549134 ACATAGAGCAACAAGTCGAATATTTGA 59.451 33.333 9.77 0.88 0.00 2.69
2463 7681 4.521130 AGACATAGAGCAACAAGTCGAA 57.479 40.909 0.00 0.00 0.00 3.71
2472 7690 5.068591 TCCGCATTAGTAAGACATAGAGCAA 59.931 40.000 0.00 0.00 0.00 3.91
2479 7697 7.819900 GGAGAATAATCCGCATTAGTAAGACAT 59.180 37.037 0.00 0.00 0.00 3.06
2505 7725 5.528870 TGACACCGTGTAAGATGCTATATG 58.471 41.667 3.58 0.00 0.00 1.78
2506 7726 5.773575 CTGACACCGTGTAAGATGCTATAT 58.226 41.667 10.25 0.00 30.00 0.86
2517 7737 1.579964 ATCGACGCTGACACCGTGTA 61.580 55.000 3.58 0.00 39.30 2.90


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

AutoCloner maintained by Alex Coulton.