Multiple sequence alignment - TraesCS5A01G467100

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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 TraesCS5A01G467100 chr5A 100.000 2390 0 0 1 2390 645131003 645133392 0.000000e+00 4414
1 TraesCS5A01G467100 chr5B 87.942 2430 157 74 1 2374 650342787 650345136 0.000000e+00 2739
2 TraesCS5A01G467100 chr5D 90.827 1548 79 30 1 1525 517757478 517758985 0.000000e+00 2013
3 TraesCS5A01G467100 chr5D 82.036 835 66 36 1569 2383 517758994 517759764 3.350000e-178 634
4 TraesCS5A01G467100 chr6B 83.333 588 55 25 1800 2374 7599092 7598535 9.860000e-139 503


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 TraesCS5A01G467100 chr5A 645131003 645133392 2389 False 4414.0 4414 100.0000 1 2390 1 chr5A.!!$F1 2389
1 TraesCS5A01G467100 chr5B 650342787 650345136 2349 False 2739.0 2739 87.9420 1 2374 1 chr5B.!!$F1 2373
2 TraesCS5A01G467100 chr5D 517757478 517759764 2286 False 1323.5 2013 86.4315 1 2383 2 chr5D.!!$F1 2382
3 TraesCS5A01G467100 chr6B 7598535 7599092 557 True 503.0 503 83.3330 1800 2374 1 chr6B.!!$R1 574

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
113 118 0.331616 GCACCAACTAATCCCCCAGT 59.668 55.0 0.0 0.0 0.0 4.0 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1398 1446 0.179015 TAGAAAAACACGGGCAGGCA 60.179 50.0 0.0 0.0 0.0 4.75 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
31 32 4.771577 TGCCCATCAATCATAACAAACAGT 59.228 37.500 0.00 0.00 0.00 3.55
32 33 5.104374 GCCCATCAATCATAACAAACAGTG 58.896 41.667 0.00 0.00 0.00 3.66
40 41 7.390440 TCAATCATAACAAACAGTGGGAAGTAG 59.610 37.037 0.00 0.00 0.00 2.57
53 54 3.265791 GGGAAGTAGAGTGCATGTCAAG 58.734 50.000 0.00 0.00 0.00 3.02
55 56 2.393271 AGTAGAGTGCATGTCAAGCC 57.607 50.000 0.00 0.00 0.00 4.35
64 65 2.892215 TGCATGTCAAGCCAGAAATTCA 59.108 40.909 0.00 0.00 0.00 2.57
67 72 4.679662 CATGTCAAGCCAGAAATTCATCC 58.320 43.478 0.00 0.00 0.00 3.51
70 75 4.219070 TGTCAAGCCAGAAATTCATCCTTG 59.781 41.667 10.92 10.92 0.00 3.61
71 76 4.219288 GTCAAGCCAGAAATTCATCCTTGT 59.781 41.667 14.43 0.00 32.37 3.16
72 77 4.834496 TCAAGCCAGAAATTCATCCTTGTT 59.166 37.500 14.43 0.00 32.37 2.83
74 79 3.441572 AGCCAGAAATTCATCCTTGTTCG 59.558 43.478 0.00 0.00 0.00 3.95
75 80 3.191371 GCCAGAAATTCATCCTTGTTCGT 59.809 43.478 0.00 0.00 0.00 3.85
76 81 4.321230 GCCAGAAATTCATCCTTGTTCGTT 60.321 41.667 0.00 0.00 0.00 3.85
77 82 5.393962 CCAGAAATTCATCCTTGTTCGTTC 58.606 41.667 0.00 0.00 0.00 3.95
78 83 5.182001 CCAGAAATTCATCCTTGTTCGTTCT 59.818 40.000 0.00 0.00 0.00 3.01
79 84 6.294176 CCAGAAATTCATCCTTGTTCGTTCTT 60.294 38.462 0.00 0.00 0.00 2.52
80 85 7.141363 CAGAAATTCATCCTTGTTCGTTCTTT 58.859 34.615 0.00 0.00 0.00 2.52
81 86 7.324616 CAGAAATTCATCCTTGTTCGTTCTTTC 59.675 37.037 0.00 0.00 0.00 2.62
82 87 6.884280 AATTCATCCTTGTTCGTTCTTTCT 57.116 33.333 0.00 0.00 0.00 2.52
83 88 7.979444 AATTCATCCTTGTTCGTTCTTTCTA 57.021 32.000 0.00 0.00 0.00 2.10
84 89 8.567285 AATTCATCCTTGTTCGTTCTTTCTAT 57.433 30.769 0.00 0.00 0.00 1.98
85 90 6.968131 TCATCCTTGTTCGTTCTTTCTATG 57.032 37.500 0.00 0.00 0.00 2.23
93 98 5.468746 TGTTCGTTCTTTCTATGGACTTTGG 59.531 40.000 0.00 0.00 0.00 3.28
94 99 4.575885 TCGTTCTTTCTATGGACTTTGGG 58.424 43.478 0.00 0.00 0.00 4.12
113 118 0.331616 GCACCAACTAATCCCCCAGT 59.668 55.000 0.00 0.00 0.00 4.00
156 172 9.507329 CCCATGATATATACTAACACAAGCTTT 57.493 33.333 0.00 0.00 0.00 3.51
176 192 1.667236 TGCAACACTCACACAAGGAG 58.333 50.000 0.00 0.00 38.36 3.69
196 212 4.398358 GGAGGCTAAATGTTTAAGTGGGAC 59.602 45.833 0.00 0.00 0.00 4.46
218 234 4.263905 ACAGGAATTCAGGGTTGCAGAATA 60.264 41.667 7.93 0.00 32.11 1.75
248 264 6.202954 ACAGAAATAAGCATACTATCGGCAAC 59.797 38.462 0.00 0.00 0.00 4.17
252 268 4.665833 AAGCATACTATCGGCAACTACA 57.334 40.909 0.00 0.00 0.00 2.74
274 293 4.889112 CCAGCCGGGCATGCATCT 62.889 66.667 23.09 7.20 0.00 2.90
346 365 1.102154 CAGAGCAGAGATCCGTCAGT 58.898 55.000 0.00 0.00 0.00 3.41
466 488 0.532417 AGAGCTCCATCTTGATGCGC 60.532 55.000 10.93 0.00 0.00 6.09
622 644 4.821589 CTCGGCTCTCGGGGCAAC 62.822 72.222 0.00 0.00 39.77 4.17
653 675 1.377333 GCTTCTGGAAGGTTCGGGG 60.377 63.158 11.61 0.00 38.80 5.73
797 830 1.135333 CGAAACTCCCTAGGCTCAGAC 59.865 57.143 2.05 0.00 0.00 3.51
798 831 2.180276 GAAACTCCCTAGGCTCAGACA 58.820 52.381 2.05 0.00 0.00 3.41
799 832 2.559381 AACTCCCTAGGCTCAGACAT 57.441 50.000 2.05 0.00 0.00 3.06
1350 1398 1.008938 ACCAGGCTCCAGGAGAAGTAT 59.991 52.381 21.89 0.00 0.00 2.12
1393 1441 2.280524 CCAACGACGCCTGAACCA 60.281 61.111 0.00 0.00 0.00 3.67
1397 1445 2.107041 AACGACGCCTGAACCATGGA 62.107 55.000 21.47 0.00 0.00 3.41
1398 1446 1.153369 CGACGCCTGAACCATGGAT 60.153 57.895 21.47 6.44 0.00 3.41
1399 1447 1.431488 CGACGCCTGAACCATGGATG 61.431 60.000 21.47 4.94 0.00 3.51
1404 1452 1.389609 CCTGAACCATGGATGCCTGC 61.390 60.000 21.47 0.00 0.00 4.85
1405 1453 1.380246 TGAACCATGGATGCCTGCC 60.380 57.895 21.47 0.00 0.00 4.85
1406 1454 2.042639 AACCATGGATGCCTGCCC 60.043 61.111 21.47 0.00 0.00 5.36
1409 1457 3.214123 CATGGATGCCTGCCCGTG 61.214 66.667 0.00 0.00 33.65 4.94
1415 1463 0.388520 GATGCCTGCCCGTGTTTTTC 60.389 55.000 0.00 0.00 0.00 2.29
1535 1585 8.603242 TGATATGATGAACATGACTCTGATTG 57.397 34.615 0.00 0.00 39.77 2.67
1545 1595 7.536159 ACATGACTCTGATTGATAGCATCTA 57.464 36.000 0.00 0.00 0.00 1.98
1562 1612 2.404559 TCTACTTGGGTTGTCCTGTGT 58.595 47.619 0.00 0.00 36.20 3.72
1564 1614 2.052782 ACTTGGGTTGTCCTGTGTTC 57.947 50.000 0.00 0.00 36.20 3.18
1566 1616 2.025321 ACTTGGGTTGTCCTGTGTTCTT 60.025 45.455 0.00 0.00 36.20 2.52
1567 1617 2.051334 TGGGTTGTCCTGTGTTCTTG 57.949 50.000 0.00 0.00 36.20 3.02
1623 1673 7.013750 AGGTATATCTATATGCTGTGGATGTCG 59.986 40.741 0.00 0.00 0.00 4.35
1629 1679 5.665916 ATATGCTGTGGATGTCGATGATA 57.334 39.130 0.00 0.00 0.00 2.15
1642 1692 5.984725 TGTCGATGATATGTTAAACAGGGT 58.015 37.500 0.00 0.00 0.00 4.34
1644 1694 7.557724 TGTCGATGATATGTTAAACAGGGTTA 58.442 34.615 0.00 0.00 0.00 2.85
1648 1698 9.051679 CGATGATATGTTAAACAGGGTTATTCA 57.948 33.333 0.00 0.00 0.00 2.57
1656 1706 8.750298 TGTTAAACAGGGTTATTCACTTGAAAA 58.250 29.630 0.00 0.00 37.61 2.29
1701 1751 6.457528 GCTCAGATACATTAAGCAACTGGAAC 60.458 42.308 0.00 0.00 33.21 3.62
1714 1768 6.963322 AGCAACTGGAACCTATTTAGAGAAT 58.037 36.000 0.00 0.00 0.00 2.40
1738 1792 6.333416 TCAAATATGTGCTATAGCGAGGATC 58.667 40.000 19.55 6.58 45.83 3.36
1739 1793 6.153510 TCAAATATGTGCTATAGCGAGGATCT 59.846 38.462 19.55 0.00 45.83 2.75
1742 1796 2.959030 TGTGCTATAGCGAGGATCTGTT 59.041 45.455 19.55 0.00 45.83 3.16
1764 1818 8.165239 TGTTCTGCTTGATGTTACAAATTACT 57.835 30.769 0.00 0.00 0.00 2.24
1798 1852 2.288763 GGTGGGTGTATTTGCACTTTGG 60.289 50.000 0.00 0.00 39.21 3.28
1848 1902 2.428544 TAAGGCTGTGGTGTGTTTGT 57.571 45.000 0.00 0.00 0.00 2.83
1850 1904 2.428544 AGGCTGTGGTGTGTTTGTTA 57.571 45.000 0.00 0.00 0.00 2.41
1852 1906 2.622942 AGGCTGTGGTGTGTTTGTTATG 59.377 45.455 0.00 0.00 0.00 1.90
1853 1907 2.360801 GGCTGTGGTGTGTTTGTTATGT 59.639 45.455 0.00 0.00 0.00 2.29
1856 1910 4.358851 CTGTGGTGTGTTTGTTATGTTGG 58.641 43.478 0.00 0.00 0.00 3.77
1857 1911 3.131223 TGTGGTGTGTTTGTTATGTTGGG 59.869 43.478 0.00 0.00 0.00 4.12
1858 1912 3.131400 GTGGTGTGTTTGTTATGTTGGGT 59.869 43.478 0.00 0.00 0.00 4.51
1860 1914 3.131400 GGTGTGTTTGTTATGTTGGGTGT 59.869 43.478 0.00 0.00 0.00 4.16
1861 1915 4.109050 GTGTGTTTGTTATGTTGGGTGTG 58.891 43.478 0.00 0.00 0.00 3.82
1862 1916 3.764434 TGTGTTTGTTATGTTGGGTGTGT 59.236 39.130 0.00 0.00 0.00 3.72
1863 1917 4.948004 TGTGTTTGTTATGTTGGGTGTGTA 59.052 37.500 0.00 0.00 0.00 2.90
1864 1918 5.594725 TGTGTTTGTTATGTTGGGTGTGTAT 59.405 36.000 0.00 0.00 0.00 2.29
1865 1919 6.771267 TGTGTTTGTTATGTTGGGTGTGTATA 59.229 34.615 0.00 0.00 0.00 1.47
1866 1920 7.448777 TGTGTTTGTTATGTTGGGTGTGTATAT 59.551 33.333 0.00 0.00 0.00 0.86
1867 1921 8.301002 GTGTTTGTTATGTTGGGTGTGTATATT 58.699 33.333 0.00 0.00 0.00 1.28
1868 1922 8.861086 TGTTTGTTATGTTGGGTGTGTATATTT 58.139 29.630 0.00 0.00 0.00 1.40
1926 1980 1.692042 CATCTGGGGCTCCCTCAGT 60.692 63.158 10.72 0.00 45.70 3.41
1927 1981 1.692042 ATCTGGGGCTCCCTCAGTG 60.692 63.158 10.72 0.00 45.70 3.66
1949 2003 5.070981 GTGAAAGATATGACTCCAGGGATGA 59.929 44.000 0.00 0.00 0.00 2.92
1952 2006 4.825445 AGATATGACTCCAGGGATGAGTT 58.175 43.478 0.00 0.00 42.94 3.01
2045 2109 5.052481 TGTTAGTGCTCATGCTATGTGATC 58.948 41.667 0.00 0.00 40.48 2.92
2049 2113 5.295950 AGTGCTCATGCTATGTGATCTTAC 58.704 41.667 0.00 0.00 40.48 2.34
2206 2289 5.301551 TGGCTGTTTCTTAAATTTGCAGAGA 59.698 36.000 0.00 0.00 0.00 3.10
2212 2295 9.630098 TGTTTCTTAAATTTGCAGAGAATGATC 57.370 29.630 0.00 0.00 0.00 2.92
2261 2344 7.775053 TCTTGGATTTTGGTAGCAAATTAGT 57.225 32.000 19.95 7.67 0.00 2.24
2262 2345 8.871629 TCTTGGATTTTGGTAGCAAATTAGTA 57.128 30.769 19.95 6.09 0.00 1.82
2263 2346 9.474313 TCTTGGATTTTGGTAGCAAATTAGTAT 57.526 29.630 19.95 10.56 0.00 2.12
2315 2398 1.098050 GTGCATTGTGGGGATCAGTC 58.902 55.000 0.00 0.00 0.00 3.51
2327 2410 3.539604 GGGATCAGTCTGTTCTGGATTG 58.460 50.000 10.12 0.00 36.25 2.67
2328 2411 3.198635 GGGATCAGTCTGTTCTGGATTGA 59.801 47.826 10.12 0.00 36.25 2.57
2343 2426 4.878968 TGGATTGATAGTGTGGGTCTAGA 58.121 43.478 0.00 0.00 0.00 2.43
2350 2433 5.185249 TGATAGTGTGGGTCTAGAAGTTGAC 59.815 44.000 0.00 0.00 0.00 3.18
2375 2458 3.367932 ACTGTCTTGAATTACGTGCATCG 59.632 43.478 0.00 7.07 46.00 3.84
2384 2467 3.398920 CGTGCATCGTGGGATCAC 58.601 61.111 0.00 0.00 40.36 3.06
2385 2468 1.153568 CGTGCATCGTGGGATCACT 60.154 57.895 0.00 0.00 41.53 3.41
2386 2469 1.423721 CGTGCATCGTGGGATCACTG 61.424 60.000 0.00 0.00 41.53 3.66
2387 2470 0.391661 GTGCATCGTGGGATCACTGT 60.392 55.000 0.00 0.00 41.53 3.55
2388 2471 0.108186 TGCATCGTGGGATCACTGTC 60.108 55.000 0.00 0.00 41.53 3.51
2389 2472 0.176680 GCATCGTGGGATCACTGTCT 59.823 55.000 0.00 0.00 41.53 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 5.418524 TCCCACTGTTTGTTATGATTGATGG 59.581 40.000 0.00 0.00 0.00 3.51
31 32 2.256306 TGACATGCACTCTACTTCCCA 58.744 47.619 0.00 0.00 0.00 4.37
32 33 3.265791 CTTGACATGCACTCTACTTCCC 58.734 50.000 0.00 0.00 0.00 3.97
40 41 1.527034 TTCTGGCTTGACATGCACTC 58.473 50.000 14.56 0.00 0.00 3.51
53 54 3.191371 ACGAACAAGGATGAATTTCTGGC 59.809 43.478 0.00 0.00 0.00 4.85
55 56 6.246420 AGAACGAACAAGGATGAATTTCTG 57.754 37.500 0.00 0.00 0.00 3.02
64 65 5.875359 GTCCATAGAAAGAACGAACAAGGAT 59.125 40.000 0.00 0.00 0.00 3.24
67 72 6.787085 AAGTCCATAGAAAGAACGAACAAG 57.213 37.500 0.00 0.00 0.00 3.16
70 75 5.106673 CCCAAAGTCCATAGAAAGAACGAAC 60.107 44.000 0.00 0.00 0.00 3.95
71 76 5.001232 CCCAAAGTCCATAGAAAGAACGAA 58.999 41.667 0.00 0.00 0.00 3.85
72 77 4.575885 CCCAAAGTCCATAGAAAGAACGA 58.424 43.478 0.00 0.00 0.00 3.85
74 79 4.079253 TGCCCAAAGTCCATAGAAAGAAC 58.921 43.478 0.00 0.00 0.00 3.01
75 80 4.079253 GTGCCCAAAGTCCATAGAAAGAA 58.921 43.478 0.00 0.00 0.00 2.52
76 81 3.561313 GGTGCCCAAAGTCCATAGAAAGA 60.561 47.826 0.00 0.00 0.00 2.52
77 82 2.755103 GGTGCCCAAAGTCCATAGAAAG 59.245 50.000 0.00 0.00 0.00 2.62
78 83 2.109128 TGGTGCCCAAAGTCCATAGAAA 59.891 45.455 0.00 0.00 0.00 2.52
79 84 1.707989 TGGTGCCCAAAGTCCATAGAA 59.292 47.619 0.00 0.00 0.00 2.10
80 85 1.367346 TGGTGCCCAAAGTCCATAGA 58.633 50.000 0.00 0.00 0.00 1.98
81 86 1.818674 GTTGGTGCCCAAAGTCCATAG 59.181 52.381 8.06 0.00 45.73 2.23
82 87 1.427368 AGTTGGTGCCCAAAGTCCATA 59.573 47.619 8.06 0.00 45.73 2.74
83 88 0.188342 AGTTGGTGCCCAAAGTCCAT 59.812 50.000 8.06 0.00 45.73 3.41
84 89 0.847373 TAGTTGGTGCCCAAAGTCCA 59.153 50.000 8.06 0.00 45.73 4.02
85 90 1.989706 TTAGTTGGTGCCCAAAGTCC 58.010 50.000 8.06 0.00 45.73 3.85
93 98 0.395724 CTGGGGGATTAGTTGGTGCC 60.396 60.000 0.00 0.00 0.00 5.01
94 99 0.331616 ACTGGGGGATTAGTTGGTGC 59.668 55.000 0.00 0.00 0.00 5.01
107 112 7.015389 TGGGTAACTTTGTTAAATTAACTGGGG 59.985 37.037 15.80 7.12 39.38 4.96
156 172 2.016318 CTCCTTGTGTGAGTGTTGCAA 58.984 47.619 0.00 0.00 0.00 4.08
157 173 1.667236 CTCCTTGTGTGAGTGTTGCA 58.333 50.000 0.00 0.00 0.00 4.08
176 192 4.157840 CCTGTCCCACTTAAACATTTAGCC 59.842 45.833 0.00 0.00 0.00 3.93
196 212 2.205022 TCTGCAACCCTGAATTCCTG 57.795 50.000 2.27 0.00 0.00 3.86
218 234 6.425114 CGATAGTATGCTTATTTCTGTGGCTT 59.575 38.462 0.00 0.00 0.00 4.35
248 264 0.107410 TGCCCGGCTGGTTATTGTAG 60.107 55.000 11.58 0.00 36.04 2.74
252 268 2.127232 GCATGCCCGGCTGGTTATT 61.127 57.895 11.58 0.00 36.04 1.40
274 293 1.681166 GGCGAGTACAGGTGAGGACTA 60.681 57.143 0.00 0.00 0.00 2.59
346 365 4.270084 CCGTTTAATTCATCGCTTCTGCTA 59.730 41.667 0.00 0.00 36.97 3.49
359 378 7.148188 CCTTAAACCCTAGGTTCCGTTTAATTC 60.148 40.741 23.09 0.00 46.20 2.17
401 420 1.067565 CGAGAACTTCAGGTAGCTGCA 60.068 52.381 17.20 5.50 0.00 4.41
619 641 4.748679 GCTTCCAGCGCGCAGTTG 62.749 66.667 35.10 22.65 0.00 3.16
628 650 0.037447 ACCTTCCAGAAGCTTCCAGC 59.963 55.000 22.81 0.00 42.84 4.85
629 651 2.431454 GAACCTTCCAGAAGCTTCCAG 58.569 52.381 22.81 15.29 37.11 3.86
630 652 1.270839 CGAACCTTCCAGAAGCTTCCA 60.271 52.381 22.81 4.53 37.11 3.53
666 688 1.009389 AAACTCGAAGCTCTTCCGCG 61.009 55.000 0.00 0.00 36.27 6.46
668 690 1.989165 CTGAAACTCGAAGCTCTTCCG 59.011 52.381 4.23 0.83 36.27 4.30
671 693 1.802069 GGCTGAAACTCGAAGCTCTT 58.198 50.000 6.05 0.00 37.12 2.85
672 694 0.389166 CGGCTGAAACTCGAAGCTCT 60.389 55.000 6.05 0.00 37.12 4.09
713 744 4.517934 CCCGCCTCCGTCCTCCTA 62.518 72.222 0.00 0.00 0.00 2.94
780 813 2.114616 CATGTCTGAGCCTAGGGAGTT 58.885 52.381 11.72 0.00 0.00 3.01
783 816 1.289231 AGACATGTCTGAGCCTAGGGA 59.711 52.381 27.37 0.00 38.75 4.20
788 821 0.901124 GGTGAGACATGTCTGAGCCT 59.099 55.000 32.50 8.00 40.61 4.58
799 832 2.347114 CCACATGGCGGTGAGACA 59.653 61.111 10.29 0.00 45.56 3.41
866 899 1.622312 GGGGGACATATCTTACCGACC 59.378 57.143 0.00 0.00 0.00 4.79
880 913 1.969208 CTCCTCCTTATTACGGGGGAC 59.031 57.143 3.67 0.00 46.34 4.46
1350 1398 2.577059 GTCTTGGATCCGACGCCA 59.423 61.111 7.39 0.00 0.00 5.69
1390 1438 4.511246 CGGGCAGGCATCCATGGT 62.511 66.667 12.58 0.00 0.00 3.55
1393 1441 2.786512 AAACACGGGCAGGCATCCAT 62.787 55.000 0.00 0.00 0.00 3.41
1397 1445 0.827507 AGAAAAACACGGGCAGGCAT 60.828 50.000 0.00 0.00 0.00 4.40
1398 1446 0.179015 TAGAAAAACACGGGCAGGCA 60.179 50.000 0.00 0.00 0.00 4.75
1399 1447 0.521735 CTAGAAAAACACGGGCAGGC 59.478 55.000 0.00 0.00 0.00 4.85
1415 1463 7.427030 CAGTTTCTCTCGACGATTTCTAACTAG 59.573 40.741 0.00 0.00 0.00 2.57
1535 1585 4.101741 AGGACAACCCAAGTAGATGCTATC 59.898 45.833 0.00 0.00 37.41 2.08
1545 1595 1.564348 AGAACACAGGACAACCCAAGT 59.436 47.619 0.00 0.00 37.41 3.16
1607 1657 4.548451 ATCATCGACATCCACAGCATAT 57.452 40.909 0.00 0.00 0.00 1.78
1629 1679 8.472007 TTCAAGTGAATAACCCTGTTTAACAT 57.528 30.769 0.00 0.00 0.00 2.71
1644 1694 8.089597 TGCACATATCACAATTTTCAAGTGAAT 58.910 29.630 0.00 0.00 44.47 2.57
1648 1698 7.604549 TCATGCACATATCACAATTTTCAAGT 58.395 30.769 0.00 0.00 0.00 3.16
1677 1727 6.037610 GGTTCCAGTTGCTTAATGTATCTGAG 59.962 42.308 0.00 0.00 32.25 3.35
1714 1768 5.722021 TCCTCGCTATAGCACATATTTGA 57.278 39.130 23.99 9.59 42.21 2.69
1720 1774 3.161067 ACAGATCCTCGCTATAGCACAT 58.839 45.455 23.99 9.57 42.21 3.21
1725 1779 3.505680 AGCAGAACAGATCCTCGCTATAG 59.494 47.826 0.00 0.00 0.00 1.31
1729 1783 0.901124 AAGCAGAACAGATCCTCGCT 59.099 50.000 0.00 0.00 0.00 4.93
1731 1785 2.662006 TCAAGCAGAACAGATCCTCG 57.338 50.000 0.00 0.00 0.00 4.63
1738 1792 8.292448 AGTAATTTGTAACATCAAGCAGAACAG 58.708 33.333 0.00 0.00 0.00 3.16
1739 1793 8.165239 AGTAATTTGTAACATCAAGCAGAACA 57.835 30.769 0.00 0.00 0.00 3.18
1764 1818 7.983166 AATACACCCACCTAAATCAGTACTA 57.017 36.000 0.00 0.00 0.00 1.82
1798 1852 1.333258 GCAAGAACACGAGAGCAACAC 60.333 52.381 0.00 0.00 0.00 3.32
1926 1980 5.218959 TCATCCCTGGAGTCATATCTTTCA 58.781 41.667 0.00 0.00 0.00 2.69
1927 1981 5.306678 ACTCATCCCTGGAGTCATATCTTTC 59.693 44.000 0.00 0.00 41.63 2.62
2045 2109 5.354234 CACTAGCAAACCATAACAGGGTAAG 59.646 44.000 0.00 0.00 37.77 2.34
2049 2113 2.423538 GCACTAGCAAACCATAACAGGG 59.576 50.000 0.00 0.00 41.58 4.45
2096 2179 2.028839 TCATCGCTTAAGAAACCCGTGA 60.029 45.455 6.67 4.15 0.00 4.35
2097 2180 2.343101 TCATCGCTTAAGAAACCCGTG 58.657 47.619 6.67 2.03 0.00 4.94
2098 2181 2.754946 TCATCGCTTAAGAAACCCGT 57.245 45.000 6.67 0.00 0.00 5.28
2099 2182 2.287915 CCATCATCGCTTAAGAAACCCG 59.712 50.000 6.67 0.00 0.00 5.28
2292 2375 3.289836 CTGATCCCCACAATGCACATAA 58.710 45.455 0.00 0.00 0.00 1.90
2315 2398 4.194640 CCCACACTATCAATCCAGAACAG 58.805 47.826 0.00 0.00 0.00 3.16
2327 2410 5.652518 GTCAACTTCTAGACCCACACTATC 58.347 45.833 0.00 0.00 0.00 2.08
2328 2411 4.158025 CGTCAACTTCTAGACCCACACTAT 59.842 45.833 0.00 0.00 0.00 2.12
2350 2433 3.183574 TGCACGTAATTCAAGACAGTTCG 59.816 43.478 0.00 0.00 0.00 3.95


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

AutoCloner maintained by Alex Coulton.