Multiple sequence alignment - TraesCS2A01G375100

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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 TraesCS2A01G375100 chr2A 100.000 2805 0 0 1 2805 617729831 617732635 0.000000e+00 5180.0
1 TraesCS2A01G375100 chr2A 83.946 1034 75 37 749 1719 617812667 617813672 0.000000e+00 905.0
2 TraesCS2A01G375100 chr2A 85.210 879 79 18 1277 2128 617762363 617763217 0.000000e+00 856.0
3 TraesCS2A01G375100 chr2A 93.985 532 31 1 2274 2804 768341729 768342260 0.000000e+00 804.0
4 TraesCS2A01G375100 chr2A 86.562 320 23 9 40 341 617797552 617797869 4.480000e-88 335.0
5 TraesCS2A01G375100 chr2A 84.688 320 29 7 319 625 617759394 617759706 4.540000e-78 302.0
6 TraesCS2A01G375100 chr2A 81.056 322 34 14 1 320 617759063 617759359 6.040000e-57 231.0
7 TraesCS2A01G375100 chr2A 82.101 257 33 7 342 597 617797908 617798152 1.020000e-49 207.0
8 TraesCS2A01G375100 chr2A 90.000 80 7 1 2122 2200 617763248 617763327 4.940000e-18 102.0
9 TraesCS2A01G375100 chr2A 100.000 46 0 0 2759 2804 112494146 112494191 4.980000e-13 86.1
10 TraesCS2A01G375100 chr2B 85.176 2044 116 63 19 2012 556516411 556518317 0.000000e+00 1923.0
11 TraesCS2A01G375100 chr2B 86.101 1367 96 38 810 2124 556595635 556596959 0.000000e+00 1386.0
12 TraesCS2A01G375100 chr2B 85.811 1029 70 38 749 1719 556676034 556677044 0.000000e+00 1022.0
13 TraesCS2A01G375100 chr2B 82.630 616 81 19 2 596 556661127 556661737 3.200000e-144 521.0
14 TraesCS2A01G375100 chr2B 80.218 642 63 33 28 625 556594757 556595378 9.290000e-115 424.0
15 TraesCS2A01G375100 chr2B 88.983 118 5 2 2015 2124 556518349 556518466 3.770000e-29 139.0
16 TraesCS2A01G375100 chr2D 91.431 1272 77 8 749 2012 475499026 475500273 0.000000e+00 1716.0
17 TraesCS2A01G375100 chr2D 84.540 1436 116 42 749 2122 475876693 475878084 0.000000e+00 1325.0
18 TraesCS2A01G375100 chr2D 85.131 1029 78 35 749 1719 475984647 475985658 0.000000e+00 983.0
19 TraesCS2A01G375100 chr2D 86.759 725 60 22 19 727 475498218 475498922 0.000000e+00 774.0
20 TraesCS2A01G375100 chr2D 79.717 636 77 22 2 597 475981964 475982587 2.010000e-111 412.0
21 TraesCS2A01G375100 chr2D 78.118 457 56 28 40 459 475873809 475874258 1.670000e-62 250.0
22 TraesCS2A01G375100 chr2D 94.231 104 5 1 2122 2224 475878121 475878224 1.040000e-34 158.0
23 TraesCS2A01G375100 chr6A 94.915 531 26 1 2274 2804 504001034 504000505 0.000000e+00 830.0
24 TraesCS2A01G375100 chr4A 93.855 537 31 2 2270 2804 138594268 138593732 0.000000e+00 808.0
25 TraesCS2A01G375100 chr7A 93.974 531 31 1 2274 2803 551349337 551349867 0.000000e+00 802.0
26 TraesCS2A01G375100 chr1A 94.872 507 25 1 2274 2780 24053742 24054247 0.000000e+00 791.0
27 TraesCS2A01G375100 chr1A 93.981 515 29 2 2266 2780 525101165 525100653 0.000000e+00 778.0
28 TraesCS2A01G375100 chr5A 93.585 530 33 1 2274 2802 616205665 616206194 0.000000e+00 789.0
29 TraesCS2A01G375100 chr7D 93.233 532 35 1 2274 2804 512735347 512734816 0.000000e+00 782.0
30 TraesCS2A01G375100 chr7D 93.220 531 33 3 2274 2803 61268317 61267789 0.000000e+00 778.0
31 TraesCS2A01G375100 chr6B 80.837 454 79 7 1277 1726 473541094 473540645 1.600000e-92 350.0
32 TraesCS2A01G375100 chr3A 100.000 47 0 0 2759 2805 57232531 57232577 1.380000e-13 87.9


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 TraesCS2A01G375100 chr2A 617729831 617732635 2804 False 5180.000000 5180 100.000000 1 2805 1 chr2A.!!$F2 2804
1 TraesCS2A01G375100 chr2A 617812667 617813672 1005 False 905.000000 905 83.946000 749 1719 1 chr2A.!!$F3 970
2 TraesCS2A01G375100 chr2A 768341729 768342260 531 False 804.000000 804 93.985000 2274 2804 1 chr2A.!!$F4 530
3 TraesCS2A01G375100 chr2A 617759063 617763327 4264 False 372.750000 856 85.238500 1 2200 4 chr2A.!!$F5 2199
4 TraesCS2A01G375100 chr2A 617797552 617798152 600 False 271.000000 335 84.331500 40 597 2 chr2A.!!$F6 557
5 TraesCS2A01G375100 chr2B 556516411 556518466 2055 False 1031.000000 1923 87.079500 19 2124 2 chr2B.!!$F3 2105
6 TraesCS2A01G375100 chr2B 556676034 556677044 1010 False 1022.000000 1022 85.811000 749 1719 1 chr2B.!!$F2 970
7 TraesCS2A01G375100 chr2B 556594757 556596959 2202 False 905.000000 1386 83.159500 28 2124 2 chr2B.!!$F4 2096
8 TraesCS2A01G375100 chr2B 556661127 556661737 610 False 521.000000 521 82.630000 2 596 1 chr2B.!!$F1 594
9 TraesCS2A01G375100 chr2D 475498218 475500273 2055 False 1245.000000 1716 89.095000 19 2012 2 chr2D.!!$F1 1993
10 TraesCS2A01G375100 chr2D 475981964 475985658 3694 False 697.500000 983 82.424000 2 1719 2 chr2D.!!$F3 1717
11 TraesCS2A01G375100 chr2D 475873809 475878224 4415 False 577.666667 1325 85.629667 40 2224 3 chr2D.!!$F2 2184
12 TraesCS2A01G375100 chr6A 504000505 504001034 529 True 830.000000 830 94.915000 2274 2804 1 chr6A.!!$R1 530
13 TraesCS2A01G375100 chr4A 138593732 138594268 536 True 808.000000 808 93.855000 2270 2804 1 chr4A.!!$R1 534
14 TraesCS2A01G375100 chr7A 551349337 551349867 530 False 802.000000 802 93.974000 2274 2803 1 chr7A.!!$F1 529
15 TraesCS2A01G375100 chr1A 24053742 24054247 505 False 791.000000 791 94.872000 2274 2780 1 chr1A.!!$F1 506
16 TraesCS2A01G375100 chr1A 525100653 525101165 512 True 778.000000 778 93.981000 2266 2780 1 chr1A.!!$R1 514
17 TraesCS2A01G375100 chr5A 616205665 616206194 529 False 789.000000 789 93.585000 2274 2802 1 chr5A.!!$F1 528
18 TraesCS2A01G375100 chr7D 512734816 512735347 531 True 782.000000 782 93.233000 2274 2804 1 chr7D.!!$R2 530
19 TraesCS2A01G375100 chr7D 61267789 61268317 528 True 778.000000 778 93.220000 2274 2803 1 chr7D.!!$R1 529

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
656 4903 0.106708 AAGTGCGTCCATGTGACAGT 59.893 50.0 12.8 0.0 44.71 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2232 8525 0.178935 CCCAACCAAACATCACCCCT 60.179 55.0 0.0 0.0 0.0 4.79 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
20 21 0.803740 GAGCTGCTTTCTCTGCCTTG 59.196 55.000 2.53 0.00 0.00 3.61
67 74 3.506096 CAGCTGCGCTCATGGGTG 61.506 66.667 9.73 0.39 36.40 4.61
111 130 2.529389 ACCAAACCCTCGAGGCCT 60.529 61.111 26.87 3.86 40.58 5.19
112 131 2.154074 ACCAAACCCTCGAGGCCTT 61.154 57.895 26.87 17.31 40.58 4.35
406 547 3.826754 TCGCCGAATCAGCTCGCT 61.827 61.111 0.00 0.00 37.51 4.93
420 561 4.227134 CGCTGGGGAGTGCGCTAT 62.227 66.667 9.73 0.00 0.00 2.97
437 578 2.316792 CTATCGTGCGGTGTACATAGC 58.683 52.381 15.75 15.75 0.00 2.97
460 601 2.354188 CGCCATGGCATTGCATCG 60.354 61.111 34.93 13.38 42.06 3.84
471 612 0.737219 ATTGCATCGGCTCAAAGCTC 59.263 50.000 0.00 0.00 41.99 4.09
473 614 0.321919 TGCATCGGCTCAAAGCTCTT 60.322 50.000 0.00 0.00 41.99 2.85
550 739 1.429463 AGTGAGAATTCGGTTGCGTC 58.571 50.000 0.00 0.00 0.00 5.19
632 4680 3.011708 AGGCCTGATTTTTCTACACCCAT 59.988 43.478 3.11 0.00 0.00 4.00
645 4892 2.438434 CCCATCCCCAAGTGCGTC 60.438 66.667 0.00 0.00 0.00 5.19
656 4903 0.106708 AAGTGCGTCCATGTGACAGT 59.893 50.000 12.80 0.00 44.71 3.55
743 6200 4.858433 CATGCAATGGCGCGGGTG 62.858 66.667 8.83 0.00 45.35 4.61
747 6204 2.125310 CAATGGCGCGGGTGAGTA 60.125 61.111 8.83 0.00 0.00 2.59
762 6219 4.246458 GGTGAGTAGGTGACTGTTCAATC 58.754 47.826 0.00 0.00 43.88 2.67
911 6643 1.004080 CCACTCACCTCACCAGCAG 60.004 63.158 0.00 0.00 0.00 4.24
957 6716 1.204941 GAGCAAAGTCTTCGCCTCCTA 59.795 52.381 0.00 0.00 0.00 2.94
963 6722 1.202428 AGTCTTCGCCTCCTATTTCGC 60.202 52.381 0.00 0.00 0.00 4.70
1101 6881 0.376852 GCGGCGATGCAAAGTATTCA 59.623 50.000 12.98 0.00 34.15 2.57
1162 6965 2.966309 GACAAGTTTGCTCGGGGCG 61.966 63.158 0.00 0.00 45.43 6.13
1180 6997 2.414161 GGCGTCAAAGAACATGGTAAGC 60.414 50.000 0.00 0.00 0.00 3.09
1255 7445 4.937620 TGTTCATAGCTCTGGTTGTGAATC 59.062 41.667 0.00 0.00 36.56 2.52
1267 7457 3.059597 GGTTGTGAATCAGACACTGAACG 60.060 47.826 5.57 0.00 44.04 3.95
1309 7514 0.320421 GCCCAAAGCTGTACGAGACA 60.320 55.000 0.00 0.00 38.99 3.41
1348 7553 2.272146 GGCGCCAGAATCCTCCAA 59.728 61.111 24.80 0.00 0.00 3.53
1387 7592 2.920912 TTCCGGCGGTGGTTCTCT 60.921 61.111 27.32 0.00 0.00 3.10
1390 7595 2.030562 CGGCGGTGGTTCTCTGTT 59.969 61.111 0.00 0.00 0.00 3.16
1405 7610 1.691976 TCTGTTGAGAAGGGCGAGAAA 59.308 47.619 0.00 0.00 0.00 2.52
1615 7826 4.329545 GAGAACCAGCACCGGCCA 62.330 66.667 0.00 0.00 42.56 5.36
1749 7966 1.303317 GTGGGATGAAGGTGCCGTT 60.303 57.895 0.00 0.00 31.23 4.44
1835 8052 2.958576 GCACGGCGATGGGAAAAA 59.041 55.556 16.62 0.00 0.00 1.94
1836 8053 1.510844 GCACGGCGATGGGAAAAAT 59.489 52.632 16.62 0.00 0.00 1.82
1837 8054 0.525455 GCACGGCGATGGGAAAAATC 60.525 55.000 16.62 0.00 0.00 2.17
1838 8055 0.100503 CACGGCGATGGGAAAAATCC 59.899 55.000 16.62 0.00 0.00 3.01
1839 8056 0.322997 ACGGCGATGGGAAAAATCCA 60.323 50.000 16.62 0.00 38.82 3.41
1840 8057 0.100503 CGGCGATGGGAAAAATCCAC 59.899 55.000 0.00 0.00 37.08 4.02
1841 8058 0.100503 GGCGATGGGAAAAATCCACG 59.899 55.000 0.00 1.46 37.08 4.94
1842 8059 0.100503 GCGATGGGAAAAATCCACGG 59.899 55.000 0.00 0.00 37.08 4.94
1843 8060 0.100503 CGATGGGAAAAATCCACGGC 59.899 55.000 0.00 0.00 37.08 5.68
1844 8061 0.100503 GATGGGAAAAATCCACGGCG 59.899 55.000 4.80 4.80 37.08 6.46
1845 8062 0.610785 ATGGGAAAAATCCACGGCGT 60.611 50.000 6.77 6.77 37.08 5.68
1863 8080 1.737029 CGTTGCCGATCACTGTCTGAT 60.737 52.381 0.00 0.00 42.84 2.90
2006 8224 2.915659 ACGAGGCCGAGGTTGTCA 60.916 61.111 0.00 0.00 39.50 3.58
2073 8320 3.390521 TGAAGACGCCCCGAGCAT 61.391 61.111 0.00 0.00 44.04 3.79
2200 8493 6.263842 GTGATGATAATGCTCAAGGAAATGGA 59.736 38.462 0.00 0.00 0.00 3.41
2224 8517 1.681264 CTGAAGGGTGTGTTTGGTTCC 59.319 52.381 0.00 0.00 0.00 3.62
2225 8518 0.666374 GAAGGGTGTGTTTGGTTCCG 59.334 55.000 0.00 0.00 0.00 4.30
2226 8519 0.033894 AAGGGTGTGTTTGGTTCCGT 60.034 50.000 0.00 0.00 0.00 4.69
2227 8520 0.033894 AGGGTGTGTTTGGTTCCGTT 60.034 50.000 0.00 0.00 0.00 4.44
2228 8521 0.101579 GGGTGTGTTTGGTTCCGTTG 59.898 55.000 0.00 0.00 0.00 4.10
2229 8522 1.096416 GGTGTGTTTGGTTCCGTTGA 58.904 50.000 0.00 0.00 0.00 3.18
2230 8523 1.679153 GGTGTGTTTGGTTCCGTTGAT 59.321 47.619 0.00 0.00 0.00 2.57
2231 8524 2.542824 GGTGTGTTTGGTTCCGTTGATG 60.543 50.000 0.00 0.00 0.00 3.07
2232 8525 2.356382 GTGTGTTTGGTTCCGTTGATGA 59.644 45.455 0.00 0.00 0.00 2.92
2233 8526 2.616376 TGTGTTTGGTTCCGTTGATGAG 59.384 45.455 0.00 0.00 0.00 2.90
2234 8527 2.031157 GTGTTTGGTTCCGTTGATGAGG 60.031 50.000 0.00 0.00 0.00 3.86
2235 8528 1.539827 GTTTGGTTCCGTTGATGAGGG 59.460 52.381 0.00 0.00 34.52 4.30
2236 8529 0.037590 TTGGTTCCGTTGATGAGGGG 59.962 55.000 0.00 0.00 34.00 4.79
2237 8530 1.131303 TGGTTCCGTTGATGAGGGGT 61.131 55.000 0.00 0.00 34.00 4.95
2238 8531 0.676782 GGTTCCGTTGATGAGGGGTG 60.677 60.000 0.00 0.00 34.00 4.61
2239 8532 0.323629 GTTCCGTTGATGAGGGGTGA 59.676 55.000 0.00 0.00 34.00 4.02
2240 8533 1.065418 GTTCCGTTGATGAGGGGTGAT 60.065 52.381 0.00 0.00 34.00 3.06
2241 8534 0.541392 TCCGTTGATGAGGGGTGATG 59.459 55.000 0.00 0.00 34.00 3.07
2242 8535 0.253044 CCGTTGATGAGGGGTGATGT 59.747 55.000 0.00 0.00 0.00 3.06
2243 8536 1.340017 CCGTTGATGAGGGGTGATGTT 60.340 52.381 0.00 0.00 0.00 2.71
2244 8537 2.436417 CGTTGATGAGGGGTGATGTTT 58.564 47.619 0.00 0.00 0.00 2.83
2245 8538 2.162208 CGTTGATGAGGGGTGATGTTTG 59.838 50.000 0.00 0.00 0.00 2.93
2246 8539 2.493278 GTTGATGAGGGGTGATGTTTGG 59.507 50.000 0.00 0.00 0.00 3.28
2247 8540 1.710244 TGATGAGGGGTGATGTTTGGT 59.290 47.619 0.00 0.00 0.00 3.67
2248 8541 2.109834 TGATGAGGGGTGATGTTTGGTT 59.890 45.455 0.00 0.00 0.00 3.67
2249 8542 1.993956 TGAGGGGTGATGTTTGGTTG 58.006 50.000 0.00 0.00 0.00 3.77
2250 8543 1.256812 GAGGGGTGATGTTTGGTTGG 58.743 55.000 0.00 0.00 0.00 3.77
2251 8544 0.178935 AGGGGTGATGTTTGGTTGGG 60.179 55.000 0.00 0.00 0.00 4.12
2252 8545 1.191489 GGGGTGATGTTTGGTTGGGG 61.191 60.000 0.00 0.00 0.00 4.96
2253 8546 0.178947 GGGTGATGTTTGGTTGGGGA 60.179 55.000 0.00 0.00 0.00 4.81
2254 8547 1.552254 GGGTGATGTTTGGTTGGGGAT 60.552 52.381 0.00 0.00 0.00 3.85
2255 8548 2.291930 GGGTGATGTTTGGTTGGGGATA 60.292 50.000 0.00 0.00 0.00 2.59
2256 8549 3.629796 GGGTGATGTTTGGTTGGGGATAT 60.630 47.826 0.00 0.00 0.00 1.63
2257 8550 3.636764 GGTGATGTTTGGTTGGGGATATC 59.363 47.826 0.00 0.00 0.00 1.63
2258 8551 3.315191 GTGATGTTTGGTTGGGGATATCG 59.685 47.826 0.00 0.00 0.00 2.92
2259 8552 3.201045 TGATGTTTGGTTGGGGATATCGA 59.799 43.478 0.00 0.00 0.00 3.59
2260 8553 3.722908 TGTTTGGTTGGGGATATCGAA 57.277 42.857 0.00 0.00 0.00 3.71
2261 8554 4.243793 TGTTTGGTTGGGGATATCGAAT 57.756 40.909 0.00 0.00 0.00 3.34
2262 8555 4.605183 TGTTTGGTTGGGGATATCGAATT 58.395 39.130 0.00 0.00 0.00 2.17
2263 8556 5.756918 TGTTTGGTTGGGGATATCGAATTA 58.243 37.500 0.00 0.00 0.00 1.40
2264 8557 6.188407 TGTTTGGTTGGGGATATCGAATTAA 58.812 36.000 0.00 0.00 0.00 1.40
2265 8558 6.663953 TGTTTGGTTGGGGATATCGAATTAAA 59.336 34.615 0.00 0.00 0.00 1.52
2266 8559 7.343316 TGTTTGGTTGGGGATATCGAATTAAAT 59.657 33.333 0.00 0.00 0.00 1.40
2267 8560 6.892658 TGGTTGGGGATATCGAATTAAATG 57.107 37.500 0.00 0.00 0.00 2.32
2268 8561 5.772672 TGGTTGGGGATATCGAATTAAATGG 59.227 40.000 0.00 0.00 0.00 3.16
2269 8562 5.773176 GGTTGGGGATATCGAATTAAATGGT 59.227 40.000 0.00 0.00 0.00 3.55
2270 8563 6.266786 GGTTGGGGATATCGAATTAAATGGTT 59.733 38.462 0.00 0.00 0.00 3.67
2271 8564 7.201965 GGTTGGGGATATCGAATTAAATGGTTT 60.202 37.037 0.00 0.00 0.00 3.27
2272 8565 7.283625 TGGGGATATCGAATTAAATGGTTTG 57.716 36.000 0.00 0.00 0.00 2.93
2377 8670 8.452138 AATCTCTAATCATCCCTCATCATTCT 57.548 34.615 0.00 0.00 0.00 2.40
2435 8728 1.599606 CTACTCCAGCCTGAGCACGT 61.600 60.000 0.00 0.00 43.56 4.49
2446 8739 0.863144 TGAGCACGTTTAACTTCCGC 59.137 50.000 0.00 0.00 0.00 5.54
2459 8752 1.822990 ACTTCCGCGTTCTATTCTCCA 59.177 47.619 4.92 0.00 0.00 3.86
2461 8754 3.118738 ACTTCCGCGTTCTATTCTCCATT 60.119 43.478 4.92 0.00 0.00 3.16
2491 8784 4.523083 AGTCTGCACTTGTTGTTTTCCTA 58.477 39.130 0.00 0.00 0.00 2.94
2549 8842 4.871993 ATTTAGCTTGAGCATGAAGTCG 57.128 40.909 5.70 0.00 45.16 4.18
2642 8936 8.740123 TTCTTGAATAAGTAGTTTGACCACAA 57.260 30.769 0.00 0.00 35.38 3.33
2653 8947 5.205056 AGTTTGACCACAATTTGACCCTAA 58.795 37.500 2.79 0.00 35.85 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
13 14 2.352805 GGTGACCCTCCAAGGCAG 59.647 66.667 0.00 0.00 32.73 4.85
20 21 2.971452 GTGAGACGGTGACCCTCC 59.029 66.667 5.60 0.00 0.00 4.30
203 224 1.519455 CGCTAAGCTTCACCTCCGG 60.519 63.158 0.00 0.00 0.00 5.14
205 226 0.741221 CCACGCTAAGCTTCACCTCC 60.741 60.000 0.00 0.00 0.00 4.30
211 232 0.818296 TCCTCTCCACGCTAAGCTTC 59.182 55.000 0.00 0.00 0.00 3.86
243 297 0.971386 TCTCAGTCTCAGTGCATGCA 59.029 50.000 18.46 18.46 0.00 3.96
406 547 2.758327 ACGATAGCGCACTCCCCA 60.758 61.111 11.47 0.00 42.48 4.96
417 558 2.316792 GCTATGTACACCGCACGATAG 58.683 52.381 12.03 3.10 46.19 2.08
420 561 1.140161 GGCTATGTACACCGCACGA 59.860 57.895 17.05 0.00 0.00 4.35
460 601 3.972227 TCGCAAGAGCTTTGAGCC 58.028 55.556 11.34 0.00 43.77 4.70
471 612 4.262976 GTGTTCAAACTTCAAAGTCGCAAG 59.737 41.667 0.00 0.00 38.57 4.01
473 614 3.189495 TGTGTTCAAACTTCAAAGTCGCA 59.811 39.130 0.00 0.00 38.57 5.10
536 725 0.857311 CATGCGACGCAACCGAATTC 60.857 55.000 28.24 0.00 43.62 2.17
632 4680 2.350895 CATGGACGCACTTGGGGA 59.649 61.111 0.00 0.00 0.00 4.81
645 4892 0.955428 CCCAACCGACTGTCACATGG 60.955 60.000 8.73 11.32 0.00 3.66
656 4903 1.153449 GTCGATGATGCCCAACCGA 60.153 57.895 0.00 0.00 0.00 4.69
732 4987 3.849951 CCTACTCACCCGCGCCAT 61.850 66.667 0.00 0.00 0.00 4.40
740 6197 3.746045 TTGAACAGTCACCTACTCACC 57.254 47.619 0.00 0.00 35.76 4.02
741 6198 4.246458 GGATTGAACAGTCACCTACTCAC 58.754 47.826 0.00 0.00 35.76 3.51
742 6199 3.901222 TGGATTGAACAGTCACCTACTCA 59.099 43.478 0.00 0.00 35.76 3.41
743 6200 4.537135 TGGATTGAACAGTCACCTACTC 57.463 45.455 0.00 0.00 35.76 2.59
744 6201 4.974645 TTGGATTGAACAGTCACCTACT 57.025 40.909 0.00 0.00 39.81 2.57
745 6202 5.562890 GCTTTTGGATTGAACAGTCACCTAC 60.563 44.000 0.00 0.00 31.90 3.18
746 6203 4.518970 GCTTTTGGATTGAACAGTCACCTA 59.481 41.667 0.00 0.00 31.90 3.08
747 6204 3.319122 GCTTTTGGATTGAACAGTCACCT 59.681 43.478 0.00 0.00 31.90 4.00
804 6525 5.885912 GCTCTGGATTGGAACCTGTAATTAA 59.114 40.000 0.00 0.00 0.00 1.40
805 6526 5.191722 AGCTCTGGATTGGAACCTGTAATTA 59.808 40.000 0.00 0.00 0.00 1.40
806 6527 4.018050 AGCTCTGGATTGGAACCTGTAATT 60.018 41.667 0.00 0.00 0.00 1.40
807 6528 3.525199 AGCTCTGGATTGGAACCTGTAAT 59.475 43.478 0.00 0.00 0.00 1.89
957 6716 3.966218 CGAAGACTTGTTTTTCGCGAAAT 59.034 39.130 32.58 18.17 37.49 2.17
963 6722 4.531659 AGAACCGAAGACTTGTTTTTCG 57.468 40.909 0.00 11.60 42.31 3.46
1162 6965 3.421844 AGGGCTTACCATGTTCTTTGAC 58.578 45.455 0.00 0.00 43.89 3.18
1180 6997 1.199615 GGAGAAGGACTGAAGGAGGG 58.800 60.000 0.00 0.00 0.00 4.30
1255 7445 4.376413 GCAGAAACATACGTTCAGTGTCTG 60.376 45.833 21.27 21.27 32.91 3.51
1267 7457 3.610242 CGAGAGTCACTGCAGAAACATAC 59.390 47.826 23.35 12.31 0.00 2.39
1309 7514 1.674057 CGACAGCTTTCCCCTCACT 59.326 57.895 0.00 0.00 0.00 3.41
1387 7592 1.416401 AGTTTCTCGCCCTTCTCAACA 59.584 47.619 0.00 0.00 0.00 3.33
1390 7595 0.608640 GGAGTTTCTCGCCCTTCTCA 59.391 55.000 0.00 0.00 0.00 3.27
1405 7610 2.604686 TGCGAGGCCTTCAGGAGT 60.605 61.111 6.77 0.00 37.39 3.85
1460 7671 1.063616 CTCCGACGATACGAAGAGCAA 59.936 52.381 0.00 0.00 35.09 3.91
1615 7826 0.528470 GCTGGACGTACTTCTGCTCT 59.472 55.000 0.00 0.00 0.00 4.09
1685 7896 2.362120 GTGCTGCAGGGATGCCTT 60.362 61.111 17.12 0.00 0.00 4.35
1827 8044 0.824182 AACGCCGTGGATTTTTCCCA 60.824 50.000 0.00 0.00 0.00 4.37
1828 8045 0.388006 CAACGCCGTGGATTTTTCCC 60.388 55.000 0.00 0.00 0.00 3.97
1829 8046 1.006825 GCAACGCCGTGGATTTTTCC 61.007 55.000 0.00 0.00 0.00 3.13
1830 8047 1.006825 GGCAACGCCGTGGATTTTTC 61.007 55.000 0.00 0.00 39.62 2.29
1831 8048 1.006688 GGCAACGCCGTGGATTTTT 60.007 52.632 0.00 0.00 39.62 1.94
1832 8049 2.648454 GGCAACGCCGTGGATTTT 59.352 55.556 0.00 0.00 39.62 1.82
1844 8061 2.015736 ATCAGACAGTGATCGGCAAC 57.984 50.000 0.00 0.00 42.80 4.17
1845 8062 2.768253 AATCAGACAGTGATCGGCAA 57.232 45.000 0.00 0.00 45.89 4.52
1863 8080 1.069296 GCATGCTGCTCGTGTTGTAAA 60.069 47.619 11.37 0.00 40.96 2.01
2224 8517 2.113860 AACATCACCCCTCATCAACG 57.886 50.000 0.00 0.00 0.00 4.10
2225 8518 2.493278 CCAAACATCACCCCTCATCAAC 59.507 50.000 0.00 0.00 0.00 3.18
2226 8519 2.109834 ACCAAACATCACCCCTCATCAA 59.890 45.455 0.00 0.00 0.00 2.57
2227 8520 1.710244 ACCAAACATCACCCCTCATCA 59.290 47.619 0.00 0.00 0.00 3.07
2228 8521 2.493278 CAACCAAACATCACCCCTCATC 59.507 50.000 0.00 0.00 0.00 2.92
2229 8522 2.528564 CAACCAAACATCACCCCTCAT 58.471 47.619 0.00 0.00 0.00 2.90
2230 8523 1.480312 CCAACCAAACATCACCCCTCA 60.480 52.381 0.00 0.00 0.00 3.86
2231 8524 1.256812 CCAACCAAACATCACCCCTC 58.743 55.000 0.00 0.00 0.00 4.30
2232 8525 0.178935 CCCAACCAAACATCACCCCT 60.179 55.000 0.00 0.00 0.00 4.79
2233 8526 1.191489 CCCCAACCAAACATCACCCC 61.191 60.000 0.00 0.00 0.00 4.95
2234 8527 0.178947 TCCCCAACCAAACATCACCC 60.179 55.000 0.00 0.00 0.00 4.61
2235 8528 1.937191 ATCCCCAACCAAACATCACC 58.063 50.000 0.00 0.00 0.00 4.02
2236 8529 3.315191 CGATATCCCCAACCAAACATCAC 59.685 47.826 0.00 0.00 0.00 3.06
2237 8530 3.201045 TCGATATCCCCAACCAAACATCA 59.799 43.478 0.00 0.00 0.00 3.07
2238 8531 3.815809 TCGATATCCCCAACCAAACATC 58.184 45.455 0.00 0.00 0.00 3.06
2239 8532 3.943671 TCGATATCCCCAACCAAACAT 57.056 42.857 0.00 0.00 0.00 2.71
2240 8533 3.722908 TTCGATATCCCCAACCAAACA 57.277 42.857 0.00 0.00 0.00 2.83
2241 8534 6.702716 TTAATTCGATATCCCCAACCAAAC 57.297 37.500 0.00 0.00 0.00 2.93
2242 8535 7.201956 CCATTTAATTCGATATCCCCAACCAAA 60.202 37.037 0.00 0.00 0.00 3.28
2243 8536 6.266558 CCATTTAATTCGATATCCCCAACCAA 59.733 38.462 0.00 0.00 0.00 3.67
2244 8537 5.772672 CCATTTAATTCGATATCCCCAACCA 59.227 40.000 0.00 0.00 0.00 3.67
2245 8538 5.773176 ACCATTTAATTCGATATCCCCAACC 59.227 40.000 0.00 0.00 0.00 3.77
2246 8539 6.894339 ACCATTTAATTCGATATCCCCAAC 57.106 37.500 0.00 0.00 0.00 3.77
2247 8540 7.343316 ACAAACCATTTAATTCGATATCCCCAA 59.657 33.333 0.00 0.00 0.00 4.12
2248 8541 6.836527 ACAAACCATTTAATTCGATATCCCCA 59.163 34.615 0.00 0.00 0.00 4.96
2249 8542 7.284919 ACAAACCATTTAATTCGATATCCCC 57.715 36.000 0.00 0.00 0.00 4.81
2250 8543 9.594478 AAAACAAACCATTTAATTCGATATCCC 57.406 29.630 0.00 0.00 0.00 3.85
2324 8617 8.571461 AGATTAAATTGAGCAGTGATGAAAGA 57.429 30.769 0.00 0.00 0.00 2.52
2364 8657 9.163894 AGTTAGATGATTTAGAATGATGAGGGA 57.836 33.333 0.00 0.00 0.00 4.20
2377 8670 5.105228 ACCGTTCGGGAAGTTAGATGATTTA 60.105 40.000 15.66 0.00 39.97 1.40
2435 8728 4.866486 GGAGAATAGAACGCGGAAGTTAAA 59.134 41.667 12.47 0.00 34.00 1.52
2549 8842 5.101628 TCAAACTCAAACAGTGAAATGTGC 58.898 37.500 0.00 0.00 35.22 4.57
2642 8936 8.531146 CAAACTATGGTCAAATTAGGGTCAAAT 58.469 33.333 0.00 0.00 0.00 2.32
2653 8947 7.451255 TCAAATCTGGTCAAACTATGGTCAAAT 59.549 33.333 0.00 0.00 0.00 2.32


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

AutoCloner maintained by Alex Coulton.