Multiple sequence alignment - TraesCS6B01G023100

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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 TraesCS6B01G023100 chr6B 100.000 2732 0 0 1 2732 14322958 14325689 0.000000e+00 5046
1 TraesCS6B01G023100 chr6B 86.010 1594 173 19 209 1759 39310682 39312268 0.000000e+00 1663
2 TraesCS6B01G023100 chr6B 87.773 1374 139 23 401 1760 13934247 13932889 0.000000e+00 1580
3 TraesCS6B01G023100 chr6B 87.821 1322 131 21 461 1760 14311003 14312316 0.000000e+00 1522
4 TraesCS6B01G023100 chr6B 87.510 1305 134 13 461 1764 54402966 54401690 0.000000e+00 1480
5 TraesCS6B01G023100 chr6B 86.357 1378 158 16 375 1744 54422441 54421086 0.000000e+00 1476
6 TraesCS6B01G023100 chr6B 87.129 1282 139 16 468 1737 14303195 14304462 0.000000e+00 1430
7 TraesCS6B01G023100 chr6B 86.242 1272 158 10 468 1736 39326051 39327308 0.000000e+00 1363
8 TraesCS6B01G023100 chr6B 80.112 1252 211 31 525 1762 13951672 13950445 0.000000e+00 898
9 TraesCS6B01G023100 chr6B 85.222 697 64 19 1892 2566 13949766 13949087 0.000000e+00 680
10 TraesCS6B01G023100 chr6B 83.852 675 60 23 2105 2732 14453355 14452683 5.040000e-167 597
11 TraesCS6B01G023100 chr6B 75.893 784 170 16 989 1762 52573771 52572997 1.530000e-102 383
12 TraesCS6B01G023100 chr6B 84.688 320 25 8 2223 2541 54401608 54401312 5.720000e-77 298
13 TraesCS6B01G023100 chr6B 83.243 185 30 1 1769 1953 14453699 14453516 4.680000e-38 169
14 TraesCS6B01G023100 chr6D 85.123 1714 188 39 59 1737 7678273 7679954 0.000000e+00 1690
15 TraesCS6B01G023100 chr6D 86.196 1217 159 5 551 1759 7651515 7652730 0.000000e+00 1308
16 TraesCS6B01G023100 chr6D 83.406 922 91 25 1853 2730 7475914 7475011 0.000000e+00 798
17 TraesCS6B01G023100 chr6D 88.076 629 32 15 2105 2732 7422737 7422151 0.000000e+00 706
18 TraesCS6B01G023100 chr6D 85.867 467 37 8 1943 2395 7695184 7695635 1.150000e-128 470
19 TraesCS6B01G023100 chr4A 87.042 1366 149 25 388 1744 667379875 667381221 0.000000e+00 1517
20 TraesCS6B01G023100 chr4A 86.601 1224 154 10 506 1724 667425274 667426492 0.000000e+00 1343
21 TraesCS6B01G023100 chr6A 87.576 330 23 3 2084 2395 7982543 7982872 1.550000e-97 366
22 TraesCS6B01G023100 chr6A 93.333 105 7 0 2117 2221 7368886 7368782 3.640000e-34 156


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 TraesCS6B01G023100 chr6B 14322958 14325689 2731 False 5046 5046 100.0000 1 2732 1 chr6B.!!$F3 2731
1 TraesCS6B01G023100 chr6B 39310682 39312268 1586 False 1663 1663 86.0100 209 1759 1 chr6B.!!$F4 1550
2 TraesCS6B01G023100 chr6B 13932889 13934247 1358 True 1580 1580 87.7730 401 1760 1 chr6B.!!$R1 1359
3 TraesCS6B01G023100 chr6B 14311003 14312316 1313 False 1522 1522 87.8210 461 1760 1 chr6B.!!$F2 1299
4 TraesCS6B01G023100 chr6B 54421086 54422441 1355 True 1476 1476 86.3570 375 1744 1 chr6B.!!$R3 1369
5 TraesCS6B01G023100 chr6B 14303195 14304462 1267 False 1430 1430 87.1290 468 1737 1 chr6B.!!$F1 1269
6 TraesCS6B01G023100 chr6B 39326051 39327308 1257 False 1363 1363 86.2420 468 1736 1 chr6B.!!$F5 1268
7 TraesCS6B01G023100 chr6B 54401312 54402966 1654 True 889 1480 86.0990 461 2541 2 chr6B.!!$R6 2080
8 TraesCS6B01G023100 chr6B 13949087 13951672 2585 True 789 898 82.6670 525 2566 2 chr6B.!!$R4 2041
9 TraesCS6B01G023100 chr6B 14452683 14453699 1016 True 383 597 83.5475 1769 2732 2 chr6B.!!$R5 963
10 TraesCS6B01G023100 chr6B 52572997 52573771 774 True 383 383 75.8930 989 1762 1 chr6B.!!$R2 773
11 TraesCS6B01G023100 chr6D 7678273 7679954 1681 False 1690 1690 85.1230 59 1737 1 chr6D.!!$F2 1678
12 TraesCS6B01G023100 chr6D 7651515 7652730 1215 False 1308 1308 86.1960 551 1759 1 chr6D.!!$F1 1208
13 TraesCS6B01G023100 chr6D 7475011 7475914 903 True 798 798 83.4060 1853 2730 1 chr6D.!!$R2 877
14 TraesCS6B01G023100 chr6D 7422151 7422737 586 True 706 706 88.0760 2105 2732 1 chr6D.!!$R1 627
15 TraesCS6B01G023100 chr4A 667379875 667381221 1346 False 1517 1517 87.0420 388 1744 1 chr4A.!!$F1 1356
16 TraesCS6B01G023100 chr4A 667425274 667426492 1218 False 1343 1343 86.6010 506 1724 1 chr4A.!!$F2 1218

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
31 32 0.306533 CCGAGGTTGTGTTTTCGGTG 59.693 55.0 3.75 0.0 45.58 4.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2003 2666 0.249911 ATTACCCGCCGATGAGCTTC 60.25 55.0 0.0 0.0 0.0 3.86 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
22 23 2.644992 GCCTTTGCCGAGGTTGTG 59.355 61.111 4.58 0.00 39.11 3.33
23 24 2.193536 GCCTTTGCCGAGGTTGTGT 61.194 57.895 4.58 0.00 39.11 3.72
24 25 1.734388 GCCTTTGCCGAGGTTGTGTT 61.734 55.000 4.58 0.00 39.11 3.32
25 26 0.744281 CCTTTGCCGAGGTTGTGTTT 59.256 50.000 0.00 0.00 31.89 2.83
26 27 1.136110 CCTTTGCCGAGGTTGTGTTTT 59.864 47.619 0.00 0.00 31.89 2.43
27 28 2.459934 CTTTGCCGAGGTTGTGTTTTC 58.540 47.619 0.00 0.00 0.00 2.29
28 29 0.378962 TTGCCGAGGTTGTGTTTTCG 59.621 50.000 0.00 0.00 0.00 3.46
30 31 2.697819 CCGAGGTTGTGTTTTCGGT 58.302 52.632 3.75 0.00 45.58 4.69
31 32 0.306533 CCGAGGTTGTGTTTTCGGTG 59.693 55.000 3.75 0.00 45.58 4.94
32 33 1.011333 CGAGGTTGTGTTTTCGGTGT 58.989 50.000 0.00 0.00 0.00 4.16
33 34 1.399089 CGAGGTTGTGTTTTCGGTGTT 59.601 47.619 0.00 0.00 0.00 3.32
34 35 2.789779 CGAGGTTGTGTTTTCGGTGTTG 60.790 50.000 0.00 0.00 0.00 3.33
35 36 1.135228 AGGTTGTGTTTTCGGTGTTGC 60.135 47.619 0.00 0.00 0.00 4.17
36 37 1.402984 GGTTGTGTTTTCGGTGTTGCA 60.403 47.619 0.00 0.00 0.00 4.08
37 38 1.917303 GTTGTGTTTTCGGTGTTGCAG 59.083 47.619 0.00 0.00 0.00 4.41
38 39 1.454201 TGTGTTTTCGGTGTTGCAGA 58.546 45.000 0.00 0.00 0.00 4.26
39 40 2.020720 TGTGTTTTCGGTGTTGCAGAT 58.979 42.857 0.00 0.00 0.00 2.90
40 41 2.032799 TGTGTTTTCGGTGTTGCAGATC 59.967 45.455 0.00 0.00 0.00 2.75
41 42 2.032799 GTGTTTTCGGTGTTGCAGATCA 59.967 45.455 0.00 0.00 0.00 2.92
42 43 2.884012 TGTTTTCGGTGTTGCAGATCAT 59.116 40.909 0.00 0.00 0.00 2.45
43 44 3.236816 GTTTTCGGTGTTGCAGATCATG 58.763 45.455 0.00 0.00 0.00 3.07
54 55 2.336945 CAGATCATGCCCAAGCTACA 57.663 50.000 0.00 0.00 40.80 2.74
55 56 2.860009 CAGATCATGCCCAAGCTACAT 58.140 47.619 0.00 0.00 40.80 2.29
56 57 2.552743 CAGATCATGCCCAAGCTACATG 59.447 50.000 10.93 10.93 42.01 3.21
57 58 2.174210 AGATCATGCCCAAGCTACATGT 59.826 45.455 2.69 2.69 41.51 3.21
71 72 2.849880 ACATGTGTTGTTGTGCACTC 57.150 45.000 19.41 11.68 33.74 3.51
162 163 2.220315 TGTAATGTTTTTCGCTCGCG 57.780 45.000 0.00 0.00 41.35 5.87
206 210 8.138074 GGGCAATTCTCTCCTTAATTAATTGAC 58.862 37.037 11.05 6.38 40.17 3.18
289 316 6.494893 TTTGTAGTTTGGTAGATGCATCAC 57.505 37.500 27.81 21.24 0.00 3.06
367 410 1.214589 CTGATGGGTGCTGCTTTGC 59.785 57.895 0.00 0.00 0.00 3.68
368 411 2.221906 CTGATGGGTGCTGCTTTGCC 62.222 60.000 0.00 0.00 0.00 4.52
369 412 2.203669 ATGGGTGCTGCTTTGCCA 60.204 55.556 0.00 0.00 0.00 4.92
370 413 1.610554 GATGGGTGCTGCTTTGCCAT 61.611 55.000 0.00 0.00 0.00 4.40
371 414 1.895020 ATGGGTGCTGCTTTGCCATG 61.895 55.000 0.00 0.00 0.00 3.66
372 415 2.263540 GGTGCTGCTTTGCCATGG 59.736 61.111 7.63 7.63 0.00 3.66
373 416 2.277591 GGTGCTGCTTTGCCATGGA 61.278 57.895 18.40 0.00 0.00 3.41
398 441 1.804748 GGTCAACGAGTGGATGGAAAC 59.195 52.381 0.00 0.00 0.00 2.78
951 1053 1.749033 GCCTCGGTCTATCCCCTTG 59.251 63.158 0.00 0.00 0.00 3.61
1049 1153 4.637489 CGCTCTCGGCTCCATCGG 62.637 72.222 0.00 0.00 39.13 4.18
1409 1519 4.704833 GGCTCCGGTGCTGCTGAA 62.705 66.667 26.25 0.00 0.00 3.02
1480 1590 4.484872 GGTTGGAGCCGGCCTACC 62.485 72.222 26.15 23.97 44.42 3.18
1764 1874 5.888161 CAGGCTATGAAAATTGGTAACTCCT 59.112 40.000 0.00 0.00 37.07 3.69
1765 1875 5.888161 AGGCTATGAAAATTGGTAACTCCTG 59.112 40.000 0.00 0.00 37.07 3.86
1766 1876 5.885912 GGCTATGAAAATTGGTAACTCCTGA 59.114 40.000 0.00 0.00 37.07 3.86
1767 1877 6.183360 GGCTATGAAAATTGGTAACTCCTGAC 60.183 42.308 0.00 0.00 37.07 3.51
1775 2015 4.698201 TGGTAACTCCTGACATGTTGAA 57.302 40.909 0.00 0.00 37.07 2.69
1783 2023 3.745975 TCCTGACATGTTGAATTCGTCAC 59.254 43.478 0.00 2.98 35.39 3.67
1802 2042 4.926832 GTCACTTGGTAGAGAAGAAAGCTC 59.073 45.833 0.00 0.00 0.00 4.09
1806 2046 5.652891 ACTTGGTAGAGAAGAAAGCTCGATA 59.347 40.000 0.00 0.00 37.46 2.92
1809 2049 5.594725 TGGTAGAGAAGAAAGCTCGATATGT 59.405 40.000 0.00 0.00 37.46 2.29
1817 2057 5.288015 AGAAAGCTCGATATGTGTGATCTG 58.712 41.667 0.00 0.00 0.00 2.90
1828 2068 4.730600 TGTGTGATCTGTTTTCATGTCG 57.269 40.909 0.00 0.00 0.00 4.35
1829 2069 3.498018 TGTGTGATCTGTTTTCATGTCGG 59.502 43.478 0.00 0.00 0.00 4.79
1831 2071 3.074412 GTGATCTGTTTTCATGTCGGGT 58.926 45.455 0.00 0.00 0.00 5.28
1861 2101 7.362662 TCTAGCATGTTCAGTTTTCATTTCAC 58.637 34.615 0.00 0.00 0.00 3.18
1890 2131 5.581126 TTTTGTTCCATCATATGCCAGTC 57.419 39.130 0.00 0.00 0.00 3.51
1937 2600 8.323140 TCGTTTAGTATTTTGATTACGCTTAGC 58.677 33.333 0.00 0.00 0.00 3.09
1980 2643 6.413052 TGCATGTTTATTTTATGCCACCATT 58.587 32.000 0.00 0.00 44.91 3.16
1981 2644 6.315642 TGCATGTTTATTTTATGCCACCATTG 59.684 34.615 0.00 0.00 44.91 2.82
1982 2645 6.717413 CATGTTTATTTTATGCCACCATTGC 58.283 36.000 0.00 0.00 32.85 3.56
1986 2649 2.228545 TTTATGCCACCATTGCCAGA 57.771 45.000 0.00 0.00 32.85 3.86
2000 2663 1.450312 CCAGAGTGGAACCGGCATC 60.450 63.158 0.00 0.00 40.96 3.91
2001 2664 1.599047 CAGAGTGGAACCGGCATCT 59.401 57.895 0.00 0.00 37.80 2.90
2003 2666 1.115467 AGAGTGGAACCGGCATCTAG 58.885 55.000 0.00 0.00 37.80 2.43
2004 2667 1.112113 GAGTGGAACCGGCATCTAGA 58.888 55.000 0.00 0.00 37.80 2.43
2042 2705 1.819632 CACCATTACAGCCCGGAGC 60.820 63.158 0.73 4.57 44.25 4.70
2074 2742 6.492007 AGATGCTGATTCTGTGTTGTAAAG 57.508 37.500 0.00 0.00 0.00 1.85
2077 2745 6.449635 TGCTGATTCTGTGTTGTAAAGTTT 57.550 33.333 0.00 0.00 0.00 2.66
2094 2762 7.875554 TGTAAAGTTTTTAAGGCAAATGGATCC 59.124 33.333 4.20 4.20 0.00 3.36
2096 2764 4.225042 AGTTTTTAAGGCAAATGGATCCCC 59.775 41.667 9.90 2.15 0.00 4.81
2338 3093 7.912250 GCATACTGTTGGAATATTTGTCTGAAG 59.088 37.037 0.00 0.00 0.00 3.02
2339 3094 6.259550 ACTGTTGGAATATTTGTCTGAAGC 57.740 37.500 0.00 0.00 0.00 3.86
2340 3095 6.006449 ACTGTTGGAATATTTGTCTGAAGCT 58.994 36.000 0.00 0.00 0.00 3.74
2341 3096 6.072286 ACTGTTGGAATATTTGTCTGAAGCTG 60.072 38.462 0.00 0.00 0.00 4.24
2342 3097 5.183713 TGTTGGAATATTTGTCTGAAGCTGG 59.816 40.000 0.00 0.00 0.00 4.85
2343 3098 4.272489 TGGAATATTTGTCTGAAGCTGGG 58.728 43.478 0.00 0.00 0.00 4.45
2344 3099 4.263905 TGGAATATTTGTCTGAAGCTGGGT 60.264 41.667 0.00 0.00 0.00 4.51
2345 3100 5.045213 TGGAATATTTGTCTGAAGCTGGGTA 60.045 40.000 0.00 0.00 0.00 3.69
2346 3101 6.064717 GGAATATTTGTCTGAAGCTGGGTAT 58.935 40.000 0.00 0.00 0.00 2.73
2347 3102 6.547510 GGAATATTTGTCTGAAGCTGGGTATT 59.452 38.462 0.00 0.00 0.00 1.89
2348 3103 7.255277 GGAATATTTGTCTGAAGCTGGGTATTC 60.255 40.741 0.00 0.00 0.00 1.75
2349 3104 4.365514 TTTGTCTGAAGCTGGGTATTCA 57.634 40.909 0.00 0.00 34.41 2.57
2350 3105 4.574674 TTGTCTGAAGCTGGGTATTCAT 57.425 40.909 0.00 0.00 35.04 2.57
2351 3106 4.574674 TGTCTGAAGCTGGGTATTCATT 57.425 40.909 0.00 0.00 35.04 2.57
2352 3107 4.922206 TGTCTGAAGCTGGGTATTCATTT 58.078 39.130 0.00 0.00 35.04 2.32
2353 3108 6.061022 TGTCTGAAGCTGGGTATTCATTTA 57.939 37.500 0.00 0.00 35.04 1.40
2354 3109 6.662755 TGTCTGAAGCTGGGTATTCATTTAT 58.337 36.000 0.00 0.00 35.04 1.40
2355 3110 7.801104 TGTCTGAAGCTGGGTATTCATTTATA 58.199 34.615 0.00 0.00 35.04 0.98
2417 3216 1.529244 GCCTTGTGTCTGTGCCCTT 60.529 57.895 0.00 0.00 0.00 3.95
2418 3217 1.518903 GCCTTGTGTCTGTGCCCTTC 61.519 60.000 0.00 0.00 0.00 3.46
2723 3550 1.335872 GGATTTGGTCGGTGTGCTTTG 60.336 52.381 0.00 0.00 0.00 2.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 1.734388 AACACAACCTCGGCAAAGGC 61.734 55.000 3.62 0.00 40.34 4.35
6 7 0.744281 AAACACAACCTCGGCAAAGG 59.256 50.000 2.21 2.21 42.55 3.11
7 8 2.459934 GAAAACACAACCTCGGCAAAG 58.540 47.619 0.00 0.00 0.00 2.77
8 9 1.202200 CGAAAACACAACCTCGGCAAA 60.202 47.619 0.00 0.00 0.00 3.68
9 10 0.378962 CGAAAACACAACCTCGGCAA 59.621 50.000 0.00 0.00 0.00 4.52
10 11 1.440938 CCGAAAACACAACCTCGGCA 61.441 55.000 0.00 0.00 43.83 5.69
11 12 1.281656 CCGAAAACACAACCTCGGC 59.718 57.895 0.00 0.00 43.83 5.54
13 14 1.011333 ACACCGAAAACACAACCTCG 58.989 50.000 0.00 0.00 0.00 4.63
14 15 2.792749 CAACACCGAAAACACAACCTC 58.207 47.619 0.00 0.00 0.00 3.85
15 16 1.135228 GCAACACCGAAAACACAACCT 60.135 47.619 0.00 0.00 0.00 3.50
16 17 1.273688 GCAACACCGAAAACACAACC 58.726 50.000 0.00 0.00 0.00 3.77
17 18 1.917303 CTGCAACACCGAAAACACAAC 59.083 47.619 0.00 0.00 0.00 3.32
18 19 1.813178 TCTGCAACACCGAAAACACAA 59.187 42.857 0.00 0.00 0.00 3.33
19 20 1.454201 TCTGCAACACCGAAAACACA 58.546 45.000 0.00 0.00 0.00 3.72
20 21 2.032799 TGATCTGCAACACCGAAAACAC 59.967 45.455 0.00 0.00 0.00 3.32
21 22 2.293170 TGATCTGCAACACCGAAAACA 58.707 42.857 0.00 0.00 0.00 2.83
22 23 3.236816 CATGATCTGCAACACCGAAAAC 58.763 45.455 0.00 0.00 0.00 2.43
23 24 3.557577 CATGATCTGCAACACCGAAAA 57.442 42.857 0.00 0.00 0.00 2.29
35 36 2.336945 TGTAGCTTGGGCATGATCTG 57.663 50.000 0.00 0.00 41.70 2.90
36 37 2.174210 ACATGTAGCTTGGGCATGATCT 59.826 45.455 19.76 3.23 41.62 2.75
37 38 2.292569 CACATGTAGCTTGGGCATGATC 59.707 50.000 19.76 0.00 41.62 2.92
38 39 2.304092 CACATGTAGCTTGGGCATGAT 58.696 47.619 19.76 7.72 41.62 2.45
39 40 1.004628 ACACATGTAGCTTGGGCATGA 59.995 47.619 19.76 0.00 41.62 3.07
40 41 1.466856 ACACATGTAGCTTGGGCATG 58.533 50.000 0.00 14.48 43.84 4.06
41 42 1.820519 CAACACATGTAGCTTGGGCAT 59.179 47.619 0.00 0.00 41.70 4.40
42 43 1.246649 CAACACATGTAGCTTGGGCA 58.753 50.000 0.00 0.00 41.70 5.36
43 44 1.247567 ACAACACATGTAGCTTGGGC 58.752 50.000 0.00 0.00 41.63 5.36
44 45 2.622942 ACAACAACACATGTAGCTTGGG 59.377 45.455 0.00 0.00 42.99 4.12
45 46 3.631144 CACAACAACACATGTAGCTTGG 58.369 45.455 0.00 0.00 42.99 3.61
46 47 3.044986 GCACAACAACACATGTAGCTTG 58.955 45.455 0.00 3.32 42.99 4.01
47 48 2.687425 TGCACAACAACACATGTAGCTT 59.313 40.909 0.00 0.00 42.99 3.74
48 49 2.033299 GTGCACAACAACACATGTAGCT 59.967 45.455 13.17 0.00 42.99 3.32
49 50 2.033299 AGTGCACAACAACACATGTAGC 59.967 45.455 21.04 0.00 42.99 3.58
50 51 3.604543 CGAGTGCACAACAACACATGTAG 60.605 47.826 21.04 0.00 42.99 2.74
51 52 2.286563 CGAGTGCACAACAACACATGTA 59.713 45.455 21.04 0.00 42.99 2.29
52 53 1.063912 CGAGTGCACAACAACACATGT 59.936 47.619 21.04 0.00 46.82 3.21
53 54 1.330213 TCGAGTGCACAACAACACATG 59.670 47.619 21.04 0.00 39.30 3.21
54 55 1.662517 TCGAGTGCACAACAACACAT 58.337 45.000 21.04 0.00 39.30 3.21
55 56 1.396648 CTTCGAGTGCACAACAACACA 59.603 47.619 21.04 0.00 39.30 3.72
56 57 1.663643 TCTTCGAGTGCACAACAACAC 59.336 47.619 21.04 0.41 37.05 3.32
57 58 1.933181 CTCTTCGAGTGCACAACAACA 59.067 47.619 21.04 0.00 0.00 3.33
105 106 4.292186 ACTACTCACATGGCATGAAACT 57.708 40.909 32.74 14.53 0.00 2.66
179 180 8.061304 TCAATTAATTAAGGAGAGAATTGCCCT 58.939 33.333 0.00 0.00 35.33 5.19
342 369 1.457346 CAGCACCCATCAGAACCTTC 58.543 55.000 0.00 0.00 0.00 3.46
343 370 0.610232 GCAGCACCCATCAGAACCTT 60.610 55.000 0.00 0.00 0.00 3.50
344 371 1.001641 GCAGCACCCATCAGAACCT 60.002 57.895 0.00 0.00 0.00 3.50
356 399 1.080298 GTCCATGGCAAAGCAGCAC 60.080 57.895 6.96 0.00 35.83 4.40
357 400 2.277591 GGTCCATGGCAAAGCAGCA 61.278 57.895 6.96 0.00 35.83 4.41
368 411 1.339055 ACTCGTTGACCATGGTCCATG 60.339 52.381 36.27 30.63 43.97 3.66
369 412 0.984230 ACTCGTTGACCATGGTCCAT 59.016 50.000 36.27 16.02 43.97 3.41
370 413 0.034756 CACTCGTTGACCATGGTCCA 59.965 55.000 36.27 26.37 43.97 4.02
371 414 0.673644 CCACTCGTTGACCATGGTCC 60.674 60.000 36.27 23.24 43.97 4.46
372 415 0.320374 TCCACTCGTTGACCATGGTC 59.680 55.000 33.97 33.97 44.77 4.02
373 416 0.984230 ATCCACTCGTTGACCATGGT 59.016 50.000 19.89 19.89 0.00 3.55
380 423 1.606994 CCGTTTCCATCCACTCGTTGA 60.607 52.381 0.00 0.00 0.00 3.18
398 441 1.801309 AAACAACATCCAACGGCCCG 61.801 55.000 0.00 0.00 0.00 6.13
501 590 1.079405 TGGGGAATTCGAGTGACGC 60.079 57.895 0.00 0.00 42.26 5.19
504 593 1.594833 CGGTGGGGAATTCGAGTGA 59.405 57.895 0.00 0.00 0.00 3.41
676 778 1.136305 CTAGGGTTCGGAGAAATGCGA 59.864 52.381 0.00 0.00 45.90 5.10
951 1053 3.461982 CGAGGCGCGCGATATCAC 61.462 66.667 37.18 14.83 0.00 3.06
1480 1590 0.537188 ATAGTGGGGTGACGAGCAAG 59.463 55.000 0.00 0.00 0.00 4.01
1487 1597 0.905357 AGTGAGCATAGTGGGGTGAC 59.095 55.000 0.00 0.00 0.00 3.67
1764 1874 4.024133 CCAAGTGACGAATTCAACATGTCA 60.024 41.667 6.22 7.56 35.39 3.58
1765 1875 4.024048 ACCAAGTGACGAATTCAACATGTC 60.024 41.667 6.22 4.99 35.39 3.06
1766 1876 3.882888 ACCAAGTGACGAATTCAACATGT 59.117 39.130 6.22 0.00 35.39 3.21
1767 1877 4.488126 ACCAAGTGACGAATTCAACATG 57.512 40.909 6.22 4.09 35.39 3.21
1775 2015 5.723672 TTCTTCTCTACCAAGTGACGAAT 57.276 39.130 0.00 0.00 32.05 3.34
1783 2023 4.442375 TCGAGCTTTCTTCTCTACCAAG 57.558 45.455 0.00 0.00 0.00 3.61
1802 2042 7.008440 ACATGAAAACAGATCACACATATCG 57.992 36.000 0.00 0.00 0.00 2.92
1806 2046 4.154737 CCGACATGAAAACAGATCACACAT 59.845 41.667 0.00 0.00 0.00 3.21
1809 2049 3.073678 CCCGACATGAAAACAGATCACA 58.926 45.455 0.00 0.00 0.00 3.58
1817 2057 6.128117 TGCTAGATAAAACCCGACATGAAAAC 60.128 38.462 0.00 0.00 0.00 2.43
1828 2068 6.759497 AACTGAACATGCTAGATAAAACCC 57.241 37.500 0.00 0.00 0.00 4.11
1829 2069 8.296713 TGAAAACTGAACATGCTAGATAAAACC 58.703 33.333 0.00 0.00 0.00 3.27
1890 2131 5.692204 ACGATTCACTTCAGTTTCAGTACTG 59.308 40.000 17.17 17.17 45.46 2.74
1908 2571 9.698617 AAGCGTAATCAAAATACTAAACGATTC 57.301 29.630 0.00 0.00 33.07 2.52
1953 2616 5.466393 GGTGGCATAAAATAAACATGCATCC 59.534 40.000 0.00 5.68 45.45 3.51
1958 2621 6.717413 GCAATGGTGGCATAAAATAAACATG 58.283 36.000 0.00 0.00 0.00 3.21
1982 2645 1.450312 GATGCCGGTTCCACTCTGG 60.450 63.158 1.90 0.00 39.43 3.86
1986 2649 1.482593 CTTCTAGATGCCGGTTCCACT 59.517 52.381 1.90 0.00 0.00 4.00
2000 2663 1.006805 CCCGCCGATGAGCTTCTAG 60.007 63.158 0.00 0.00 0.00 2.43
2001 2664 0.466739 TACCCGCCGATGAGCTTCTA 60.467 55.000 0.00 0.00 0.00 2.10
2003 2666 0.249911 ATTACCCGCCGATGAGCTTC 60.250 55.000 0.00 0.00 0.00 3.86
2004 2667 0.532862 CATTACCCGCCGATGAGCTT 60.533 55.000 0.00 0.00 0.00 3.74
2042 2705 0.882042 AATCAGCATCTAAGCGGGCG 60.882 55.000 0.00 0.00 40.15 6.13
2050 2713 7.161404 ACTTTACAACACAGAATCAGCATCTA 58.839 34.615 0.00 0.00 0.00 1.98
2074 2742 4.019771 TGGGGATCCATTTGCCTTAAAAAC 60.020 41.667 15.23 0.00 38.32 2.43
2077 2745 3.373830 CTGGGGATCCATTTGCCTTAAA 58.626 45.455 15.23 0.00 43.11 1.52
2096 2764 3.390521 TAGCCCAGCCGTCACCTG 61.391 66.667 0.00 0.00 0.00 4.00
2131 2844 4.202245 TCAACAAATACCTTCTCCCTCG 57.798 45.455 0.00 0.00 0.00 4.63
2275 3012 9.061435 AGAAATCAAACTTTTAGTCAGGAGAAG 57.939 33.333 0.00 0.00 0.00 2.85
2358 3113 7.292356 TCCAAGATATCAGCATCCCTTAGTTTA 59.708 37.037 5.32 0.00 0.00 2.01
2362 3117 5.752036 TCCAAGATATCAGCATCCCTTAG 57.248 43.478 5.32 0.00 0.00 2.18
2417 3216 1.745232 ACAACTTCCGTTTGTGCTGA 58.255 45.000 0.00 0.00 0.00 4.26
2418 3217 2.159448 TCAACAACTTCCGTTTGTGCTG 60.159 45.455 0.00 0.00 0.00 4.41
2436 3235 7.663081 AGTTGAGAACTGCTCTAATTCATTCAA 59.337 33.333 0.00 0.00 44.27 2.69


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

AutoCloner maintained by Alex Coulton.