Multiple sequence alignment - TraesCS1B01G033900

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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 TraesCS1B01G033900 chr1B 100.000 2252 0 0 1 2252 16465769 16463518 0.000000e+00 4159.0
1 TraesCS1B01G033900 chr1B 76.846 501 92 18 799 1289 23840155 23839669 6.170000e-66 261.0
2 TraesCS1B01G033900 chr1B 83.962 106 14 3 1761 1864 529212727 529212831 5.120000e-17 99.0
3 TraesCS1B01G033900 chr1A 89.271 1454 95 20 1 1429 22656692 22658109 0.000000e+00 1764.0
4 TraesCS1B01G033900 chr1A 89.614 751 66 8 1505 2252 22658337 22659078 0.000000e+00 944.0
5 TraesCS1B01G033900 chr1A 77.258 598 82 36 628 1213 22661173 22661728 3.630000e-78 302.0
6 TraesCS1B01G033900 chr1A 95.000 80 4 0 1427 1506 22658182 22658261 2.350000e-25 126.0
7 TraesCS1B01G033900 chr1D 87.455 837 58 16 1 811 10987067 10986252 0.000000e+00 920.0
8 TraesCS1B01G033900 chr1D 82.799 593 73 11 834 1418 10963905 10963334 9.280000e-139 503.0
9 TraesCS1B01G033900 chr1D 87.633 283 28 3 1977 2252 10957234 10956952 2.790000e-84 322.0
10 TraesCS1B01G033900 chr1D 82.857 105 13 4 1762 1864 393770094 393769993 3.080000e-14 89.8
11 TraesCS1B01G033900 chr7A 88.235 85 10 0 1761 1845 176251353 176251269 3.960000e-18 102.0
12 TraesCS1B01G033900 chr4D 83.178 107 15 3 1762 1866 499388200 499388305 6.620000e-16 95.3
13 TraesCS1B01G033900 chr2D 85.542 83 12 0 1763 1845 353348498 353348580 1.110000e-13 87.9
14 TraesCS1B01G033900 chr7D 83.696 92 14 1 1774 1864 478593913 478593822 3.990000e-13 86.1
15 TraesCS1B01G033900 chr5D 82.353 102 15 3 1761 1862 459067834 459067736 3.990000e-13 86.1
16 TraesCS1B01G033900 chr5A 84.270 89 10 4 1775 1862 578048751 578048666 1.430000e-12 84.2


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 TraesCS1B01G033900 chr1B 16463518 16465769 2251 True 4159 4159 100.00000 1 2252 1 chr1B.!!$R1 2251
1 TraesCS1B01G033900 chr1A 22656692 22661728 5036 False 784 1764 87.78575 1 2252 4 chr1A.!!$F1 2251
2 TraesCS1B01G033900 chr1D 10986252 10987067 815 True 920 920 87.45500 1 811 1 chr1D.!!$R3 810
3 TraesCS1B01G033900 chr1D 10963334 10963905 571 True 503 503 82.79900 834 1418 1 chr1D.!!$R2 584

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
277 278 0.033228 CCTCCATGGAGCTCATCGTC 59.967 60.0 32.97 0.0 40.69 4.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1365 1401 0.182061 ATGATTCGCTCATGCCCAGT 59.818 50.0 0.2 0.0 43.15 4.0 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
23 24 1.279840 GCATACATTCCTTCGCGCC 59.720 57.895 0.00 0.00 0.00 6.53
28 29 2.124570 ATTCCTTCGCGCCTGCAT 60.125 55.556 0.00 0.00 42.97 3.96
136 137 4.994471 CCAGCTGGCAGCACGACA 62.994 66.667 38.09 0.00 45.56 4.35
172 173 4.813697 GGCTTGTCTTTGAGTATGATCTCC 59.186 45.833 0.00 0.00 33.93 3.71
229 230 0.109086 ATGACTTCTGCCACGACTCG 60.109 55.000 0.00 0.00 0.00 4.18
251 252 3.691342 CGAGGTCTCCCGTGCCAA 61.691 66.667 0.00 0.00 35.12 4.52
256 257 2.525629 TCTCCCGTGCCAACTGGA 60.526 61.111 0.00 0.00 37.36 3.86
259 260 2.983592 CCCGTGCCAACTGGAACC 60.984 66.667 0.98 0.00 40.87 3.62
262 263 1.966451 CGTGCCAACTGGAACCTCC 60.966 63.158 0.98 0.00 40.87 4.30
263 264 1.150536 GTGCCAACTGGAACCTCCA 59.849 57.895 0.00 0.00 45.98 3.86
277 278 0.033228 CCTCCATGGAGCTCATCGTC 59.967 60.000 32.97 0.00 40.69 4.20
299 300 2.787473 TGGACCAGCCTACAAATCAG 57.213 50.000 0.00 0.00 37.63 2.90
318 319 5.514274 TCAGTTTTCCAAAAGCGAGAAAT 57.486 34.783 0.00 0.00 30.13 2.17
443 444 6.483307 TGATCGACAAAATTCAGATGGGATAC 59.517 38.462 0.00 0.00 0.00 2.24
479 486 1.218316 CACCGGCTAAGTGGACCTC 59.782 63.158 0.00 0.00 0.00 3.85
483 490 0.895530 CGGCTAAGTGGACCTCAAGA 59.104 55.000 0.00 0.00 0.00 3.02
484 491 1.275291 CGGCTAAGTGGACCTCAAGAA 59.725 52.381 0.00 0.00 0.00 2.52
485 492 2.675317 CGGCTAAGTGGACCTCAAGAAG 60.675 54.545 0.00 0.00 0.00 2.85
508 515 5.414144 AGCTTGTTTCTTAATCTTCTGAGCC 59.586 40.000 0.00 0.00 0.00 4.70
515 522 1.831580 AATCTTCTGAGCCTGGTTGC 58.168 50.000 0.00 0.00 0.00 4.17
523 530 1.168714 GAGCCTGGTTGCTAACTTGG 58.831 55.000 0.00 0.00 42.95 3.61
539 546 2.892852 ACTTGGTGCTGCATAAACACAT 59.107 40.909 5.27 0.00 36.00 3.21
540 547 3.321682 ACTTGGTGCTGCATAAACACATT 59.678 39.130 5.27 0.00 36.00 2.71
541 548 3.300852 TGGTGCTGCATAAACACATTG 57.699 42.857 5.27 0.00 36.00 2.82
542 549 1.994779 GGTGCTGCATAAACACATTGC 59.005 47.619 5.27 0.00 36.00 3.56
543 550 2.609984 GGTGCTGCATAAACACATTGCA 60.610 45.455 5.27 0.00 43.63 4.08
544 551 3.058450 GTGCTGCATAAACACATTGCAA 58.942 40.909 5.27 0.00 44.99 4.08
661 693 2.740981 CGAGATAAGATGCTGATTGGCC 59.259 50.000 0.00 0.00 0.00 5.36
667 699 0.106708 GATGCTGATTGGCCGGACTA 59.893 55.000 9.82 0.00 0.00 2.59
865 897 7.876582 TGATGCTATATCATCAACTTCTCCTTG 59.123 37.037 15.21 0.00 46.84 3.61
889 922 7.330262 TGCATGTCTAGAACATTCAATCAGTA 58.670 34.615 0.00 0.00 46.73 2.74
909 942 0.886490 CTTCTGGTGAGTGTGTGCCC 60.886 60.000 0.00 0.00 0.00 5.36
952 985 6.382570 CACCCATTTTCCCTCATGGTTTATAA 59.617 38.462 0.00 0.00 38.72 0.98
963 996 6.293407 CCTCATGGTTTATAACATGCTTACCG 60.293 42.308 6.34 0.00 43.11 4.02
969 1002 7.283580 TGGTTTATAACATGCTTACCGCTTTAT 59.716 33.333 0.00 0.00 40.11 1.40
972 1005 9.724839 TTTATAACATGCTTACCGCTTTATTTC 57.275 29.630 0.00 0.00 40.11 2.17
984 1017 5.888161 ACCGCTTTATTTCTCTTGATCCAAT 59.112 36.000 0.00 0.00 0.00 3.16
1025 1058 1.077212 CCATGGAGGGAAGCACTGG 60.077 63.158 5.56 0.00 0.00 4.00
1128 1161 3.657610 TGAGAAGGCCAAGGAGATCATA 58.342 45.455 5.01 0.00 0.00 2.15
1129 1162 3.389329 TGAGAAGGCCAAGGAGATCATAC 59.611 47.826 5.01 0.00 0.00 2.39
1130 1163 3.645687 GAGAAGGCCAAGGAGATCATACT 59.354 47.826 5.01 0.00 0.00 2.12
1133 1166 2.971330 AGGCCAAGGAGATCATACTCAG 59.029 50.000 5.01 0.00 38.51 3.35
1276 1312 5.961396 AGCTTATCAGGCATGAATCATTC 57.039 39.130 4.62 0.00 39.39 2.67
1315 1351 4.867047 AGAATAAAGATATCTGGCGCATCG 59.133 41.667 10.83 0.00 0.00 3.84
1318 1354 1.448540 GATATCTGGCGCATCGGGG 60.449 63.158 10.83 0.00 0.00 5.73
1333 1369 4.202223 GCATCGGGGATGTACTTTCTCTTA 60.202 45.833 7.38 0.00 41.60 2.10
1341 1377 8.871125 GGGGATGTACTTTCTCTTAGATAATCA 58.129 37.037 0.00 0.00 0.00 2.57
1420 1456 5.121811 GCTTCAGTGTATTCATCCATGACT 58.878 41.667 0.00 0.00 36.36 3.41
1444 1555 1.296727 GGGCGGTGCTAGTATTTCAC 58.703 55.000 0.00 0.00 0.00 3.18
1463 1574 4.477780 TCACGTTGCGAGTTTTTCTTTTT 58.522 34.783 0.00 0.00 0.00 1.94
1494 1605 0.592247 CAAGTTGTGAGTTGGCACGC 60.592 55.000 0.00 0.00 41.63 5.34
1506 1617 0.978151 TGGCACGCTAAACCTTAGGA 59.022 50.000 4.77 0.00 0.00 2.94
1508 1619 2.767394 TGGCACGCTAAACCTTAGGATA 59.233 45.455 4.77 0.00 0.00 2.59
1509 1620 3.198200 TGGCACGCTAAACCTTAGGATAA 59.802 43.478 4.77 0.00 0.00 1.75
1511 1622 5.070714 TGGCACGCTAAACCTTAGGATAATA 59.929 40.000 4.77 0.00 0.00 0.98
1541 1730 4.278170 TGGAACTAAGCACAAATTGGTCAG 59.722 41.667 0.00 0.00 33.68 3.51
1559 1748 7.350744 TGGTCAGTACTTACAGTAACTGAAA 57.649 36.000 13.09 4.96 38.86 2.69
1582 1771 4.227300 AGTTATGTGCCACCCTAAATCTCA 59.773 41.667 0.00 0.00 0.00 3.27
1584 1773 3.071874 TGTGCCACCCTAAATCTCAAG 57.928 47.619 0.00 0.00 0.00 3.02
1589 1778 3.873801 GCCACCCTAAATCTCAAGCAAGA 60.874 47.826 0.00 0.00 0.00 3.02
1598 1787 3.818961 TCTCAAGCAAGAGCAAAATCG 57.181 42.857 0.90 0.00 45.49 3.34
1667 1856 5.064198 TCAAAGAACCATAACCGCTTTATCG 59.936 40.000 0.00 0.00 0.00 2.92
1684 1873 3.698029 ATCGGCTGCACAAATAATGAC 57.302 42.857 0.50 0.00 0.00 3.06
1687 1877 4.257731 TCGGCTGCACAAATAATGACTTA 58.742 39.130 0.50 0.00 0.00 2.24
1709 1899 9.701098 ACTTATATCACTTTCACGTGAACTTTA 57.299 29.630 29.74 14.80 46.00 1.85
1715 1905 7.678226 TCACTTTCACGTGAACTTTAAACTAC 58.322 34.615 29.74 0.00 40.69 2.73
1742 1932 6.601217 TGTAACTTTAATGTGATAGGCATGCA 59.399 34.615 21.36 0.00 0.00 3.96
1767 1957 1.652563 GGGCGCGACTCTTTTTGTT 59.347 52.632 13.91 0.00 0.00 2.83
1835 2025 5.194199 GAATGGCATTCGTGAAAAATGTG 57.806 39.130 23.17 0.00 36.65 3.21
1863 2053 3.996150 AATATCAGGCGCTCCAAAATG 57.004 42.857 7.64 0.00 33.74 2.32
1868 2058 2.507769 GCGCTCCAAAATGCTGCC 60.508 61.111 0.00 0.00 0.00 4.85
1870 2060 1.514087 CGCTCCAAAATGCTGCCAT 59.486 52.632 0.00 0.00 0.00 4.40
1878 2068 2.739913 CAAAATGCTGCCATGTCCTTTG 59.260 45.455 0.00 0.00 0.00 2.77
1883 2073 1.406539 GCTGCCATGTCCTTTGTATGG 59.593 52.381 0.00 0.00 43.31 2.74
1884 2074 2.945440 GCTGCCATGTCCTTTGTATGGA 60.945 50.000 6.66 0.00 43.15 3.41
1885 2075 3.355378 CTGCCATGTCCTTTGTATGGAA 58.645 45.455 6.66 0.00 43.15 3.53
1947 2137 9.378597 CTGAACATATCATCGCTAAATTTCTTG 57.621 33.333 0.00 0.00 37.44 3.02
2019 2210 6.998968 AAGATCAAGTATGCTTCCTTCAAG 57.001 37.500 0.00 0.00 31.49 3.02
2063 2254 9.173021 CTTCACCAAACCATATAGTTTATGACA 57.827 33.333 10.45 4.87 37.87 3.58
2077 2268 7.681939 AGTTTATGACATACACCGTTTCAAT 57.318 32.000 7.91 0.00 0.00 2.57
2081 2272 4.390264 TGACATACACCGTTTCAATTGGA 58.610 39.130 5.42 0.00 0.00 3.53
2094 2285 6.485313 CGTTTCAATTGGATTGGCTAGGTATA 59.515 38.462 5.42 0.00 40.61 1.47
2134 2325 9.267084 TGGCTGAAAATTATTTCCTTTTTGTAC 57.733 29.630 0.00 0.00 43.54 2.90
2146 2337 5.263599 TCCTTTTTGTACATGATGCCAGAT 58.736 37.500 0.00 0.00 0.00 2.90
2173 2364 0.975887 ACACAATGGCCAATGGTTCC 59.024 50.000 24.49 0.00 0.00 3.62
2174 2365 0.975135 CACAATGGCCAATGGTTCCA 59.025 50.000 24.49 0.40 0.00 3.53
2202 2393 1.500474 CCTACCATTGCAGAGGAGGA 58.500 55.000 12.87 0.00 0.00 3.71
2203 2394 1.415659 CCTACCATTGCAGAGGAGGAG 59.584 57.143 12.87 7.04 0.00 3.69
2214 2405 1.063266 AGAGGAGGAGCCCACTTCTAG 60.063 57.143 2.55 0.00 37.37 2.43
2216 2407 1.116308 GGAGGAGCCCACTTCTAGTC 58.884 60.000 0.00 0.00 28.91 2.59
2241 2432 6.073927 CGATGTTGTCTCTAATGATGATGGTG 60.074 42.308 0.00 0.00 0.00 4.17
2244 2435 4.936891 TGTCTCTAATGATGATGGTGTCG 58.063 43.478 0.00 0.00 0.00 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 2.699576 TAGCTATGCAGGCGCGAAGG 62.700 60.000 12.10 0.00 42.97 3.46
43 44 2.110213 GCCGACACACCCTTCACA 59.890 61.111 0.00 0.00 0.00 3.58
65 66 1.409412 GTGCGCATCTTCGTCGATAT 58.591 50.000 15.91 0.00 0.00 1.63
115 116 4.648626 GTGCTGCCAGCTGGGTCA 62.649 66.667 33.46 22.13 42.97 4.02
121 122 2.033141 ATTGTCGTGCTGCCAGCT 59.967 55.556 18.96 0.00 42.97 4.24
136 137 4.388499 AAGCCCGACGCCGACATT 62.388 61.111 0.00 0.00 38.78 2.71
239 240 2.144078 TTCCAGTTGGCACGGGAGA 61.144 57.895 0.00 0.79 46.63 3.71
241 242 2.112297 GTTCCAGTTGGCACGGGA 59.888 61.111 0.00 5.22 44.75 5.14
242 243 2.983592 GGTTCCAGTTGGCACGGG 60.984 66.667 0.00 0.00 39.53 5.28
244 245 1.966451 GGAGGTTCCAGTTGGCACG 60.966 63.158 0.00 0.00 36.28 5.34
259 260 0.318529 CGACGATGAGCTCCATGGAG 60.319 60.000 33.73 33.73 44.56 3.86
262 263 1.416373 CATCGACGATGAGCTCCATG 58.584 55.000 29.63 3.44 42.09 3.66
263 264 0.316522 CCATCGACGATGAGCTCCAT 59.683 55.000 33.73 4.76 42.09 3.41
277 278 2.213499 GATTTGTAGGCTGGTCCATCG 58.787 52.381 0.00 0.00 37.29 3.84
299 300 5.769367 ACCTATTTCTCGCTTTTGGAAAAC 58.231 37.500 0.00 0.00 33.58 2.43
318 319 6.824704 GCTACTTTCTCTCTAAGACTGACCTA 59.175 42.308 0.00 0.00 32.27 3.08
471 475 2.262423 ACAAGCTTCTTGAGGTCCAC 57.738 50.000 12.89 0.00 34.30 4.02
483 490 6.072230 GGCTCAGAAGATTAAGAAACAAGCTT 60.072 38.462 0.00 0.00 34.50 3.74
484 491 5.414144 GGCTCAGAAGATTAAGAAACAAGCT 59.586 40.000 0.00 0.00 0.00 3.74
485 492 5.414144 AGGCTCAGAAGATTAAGAAACAAGC 59.586 40.000 0.00 0.00 0.00 4.01
508 515 1.267806 CAGCACCAAGTTAGCAACCAG 59.732 52.381 0.00 0.00 0.00 4.00
515 522 4.023279 TGTGTTTATGCAGCACCAAGTTAG 60.023 41.667 0.00 0.00 32.62 2.34
523 530 2.674954 TGCAATGTGTTTATGCAGCAC 58.325 42.857 0.00 0.00 44.52 4.40
541 548 2.034124 AGTACCCATCCATGCAATTGC 58.966 47.619 23.69 23.69 42.50 3.56
542 549 6.151648 CCTATAAGTACCCATCCATGCAATTG 59.848 42.308 0.00 0.00 0.00 2.32
543 550 6.248433 CCTATAAGTACCCATCCATGCAATT 58.752 40.000 0.00 0.00 0.00 2.32
544 551 5.281193 CCCTATAAGTACCCATCCATGCAAT 60.281 44.000 0.00 0.00 0.00 3.56
661 693 3.710326 TCCATCACGAAATCTAGTCCG 57.290 47.619 0.00 0.00 0.00 4.79
889 922 0.179045 GGCACACACTCACCAGAAGT 60.179 55.000 0.00 0.00 0.00 3.01
925 958 2.291800 ACCATGAGGGAAAATGGGTGAG 60.292 50.000 6.63 0.00 46.45 3.51
963 996 9.943163 GAACTATTGGATCAAGAGAAATAAAGC 57.057 33.333 8.94 0.00 36.36 3.51
969 1002 9.519191 TTCAATGAACTATTGGATCAAGAGAAA 57.481 29.630 8.94 0.00 45.05 2.52
972 1005 8.728337 TCTTCAATGAACTATTGGATCAAGAG 57.272 34.615 0.00 1.34 45.05 2.85
1025 1058 5.643560 TCCTGCAGGTTCTGGAAACTTCC 62.644 52.174 31.58 1.23 35.91 3.46
1294 1330 3.935203 CCGATGCGCCAGATATCTTTATT 59.065 43.478 4.18 0.00 0.00 1.40
1315 1351 8.871125 TGATTATCTAAGAGAAAGTACATCCCC 58.129 37.037 0.00 0.00 0.00 4.81
1365 1401 0.182061 ATGATTCGCTCATGCCCAGT 59.818 50.000 0.20 0.00 43.15 4.00
1420 1456 0.616371 ATACTAGCACCGCCCAACAA 59.384 50.000 0.00 0.00 0.00 2.83
1444 1555 4.322274 TGTCAAAAAGAAAAACTCGCAACG 59.678 37.500 0.00 0.00 0.00 4.10
1463 1574 5.192927 ACTCACAACTTGAAATTCCTGTCA 58.807 37.500 0.00 0.00 32.21 3.58
1511 1622 9.218440 CCAATTTGTGCTTAGTTCCAAATAATT 57.782 29.630 0.00 0.00 36.72 1.40
1522 1711 5.621193 AGTACTGACCAATTTGTGCTTAGT 58.379 37.500 0.00 0.00 0.00 2.24
1559 1748 4.227300 TGAGATTTAGGGTGGCACATAACT 59.773 41.667 20.82 13.41 44.52 2.24
1568 1757 3.944015 CTCTTGCTTGAGATTTAGGGTGG 59.056 47.826 1.15 0.00 36.23 4.61
1582 1771 9.669353 CATATATTTACGATTTTGCTCTTGCTT 57.331 29.630 0.00 0.00 40.48 3.91
1584 1773 9.107367 GTCATATATTTACGATTTTGCTCTTGC 57.893 33.333 0.00 0.00 40.20 4.01
1616 1805 9.236006 GTACCGATGATAATACTAGGGTTTCTA 57.764 37.037 0.00 0.00 0.00 2.10
1622 1811 7.698506 TTGAGTACCGATGATAATACTAGGG 57.301 40.000 0.00 0.00 0.00 3.53
1630 1819 6.288941 TGGTTCTTTGAGTACCGATGATAA 57.711 37.500 0.00 0.00 38.36 1.75
1631 1820 5.925506 TGGTTCTTTGAGTACCGATGATA 57.074 39.130 0.00 0.00 38.36 2.15
1635 1824 5.425630 GGTTATGGTTCTTTGAGTACCGAT 58.574 41.667 0.00 0.00 38.36 4.18
1667 1856 7.805071 GTGATATAAGTCATTATTTGTGCAGCC 59.195 37.037 0.00 0.00 33.58 4.85
1715 1905 7.642669 CATGCCTATCACATTAAAGTTACAGG 58.357 38.462 0.00 0.00 0.00 4.00
1751 1941 0.306533 TGGAACAAAAAGAGTCGCGC 59.693 50.000 0.00 0.00 31.92 6.86
1788 1978 8.026026 TCGATAATAAAACTTTGCAAGCAATCA 58.974 29.630 8.46 0.00 35.70 2.57
1818 2008 2.402305 TGCCACATTTTTCACGAATGC 58.598 42.857 0.00 0.00 37.89 3.56
1843 2033 2.035066 GCATTTTGGAGCGCCTGATATT 59.965 45.455 8.34 0.00 34.31 1.28
1846 2036 0.682209 AGCATTTTGGAGCGCCTGAT 60.682 50.000 8.34 0.00 35.48 2.90
1847 2037 1.303561 AGCATTTTGGAGCGCCTGA 60.304 52.632 8.34 0.00 35.48 3.86
1848 2038 1.153901 CAGCATTTTGGAGCGCCTG 60.154 57.895 8.34 0.00 35.48 4.85
1849 2039 2.998279 GCAGCATTTTGGAGCGCCT 61.998 57.895 8.34 0.00 35.48 5.52
1850 2040 2.507769 GCAGCATTTTGGAGCGCC 60.508 61.111 2.29 0.00 35.48 6.53
1851 2041 2.507769 GGCAGCATTTTGGAGCGC 60.508 61.111 0.00 0.00 35.48 5.92
1852 2042 0.804544 CATGGCAGCATTTTGGAGCG 60.805 55.000 0.00 0.00 35.48 5.03
1853 2043 0.248289 ACATGGCAGCATTTTGGAGC 59.752 50.000 0.00 0.00 0.00 4.70
1863 2053 1.406539 CCATACAAAGGACATGGCAGC 59.593 52.381 0.00 0.00 33.29 5.25
1868 2058 5.920193 ATTGGTTCCATACAAAGGACATG 57.080 39.130 0.00 0.00 34.19 3.21
1870 2060 6.951198 ACATAATTGGTTCCATACAAAGGACA 59.049 34.615 0.00 0.00 34.19 4.02
1907 2097 8.868522 TGATATGTTCAGGAACTCAGAAAAAT 57.131 30.769 12.86 0.00 41.67 1.82
1908 2098 8.868522 ATGATATGTTCAGGAACTCAGAAAAA 57.131 30.769 12.86 0.00 41.67 1.94
1909 2099 7.278646 CGATGATATGTTCAGGAACTCAGAAAA 59.721 37.037 12.86 0.00 41.67 2.29
1910 2100 6.758416 CGATGATATGTTCAGGAACTCAGAAA 59.242 38.462 12.86 0.00 41.67 2.52
1926 2116 8.315391 TCCTCAAGAAATTTAGCGATGATATG 57.685 34.615 0.00 0.00 0.00 1.78
1947 2137 0.957888 GAAGCCCACTGCAACTCCTC 60.958 60.000 0.00 0.00 44.83 3.71
1996 2186 6.998968 CTTGAAGGAAGCATACTTGATCTT 57.001 37.500 0.00 0.00 35.82 2.40
2028 2219 2.900546 TGGTTTGGTGAAGGTTGTTTGT 59.099 40.909 0.00 0.00 0.00 2.83
2030 2221 6.780522 ACTATATGGTTTGGTGAAGGTTGTTT 59.219 34.615 0.00 0.00 0.00 2.83
2038 2229 9.693739 ATGTCATAAACTATATGGTTTGGTGAA 57.306 29.630 23.14 16.60 39.39 3.18
2063 2254 4.381505 GCCAATCCAATTGAAACGGTGTAT 60.382 41.667 7.12 0.00 42.83 2.29
2077 2268 6.331572 TGGATTCTTATACCTAGCCAATCCAA 59.668 38.462 7.81 0.00 43.00 3.53
2081 2272 8.890472 TGTTATGGATTCTTATACCTAGCCAAT 58.110 33.333 0.00 0.00 0.00 3.16
2146 2337 2.988684 GCCATTGTGTTCGCCCCA 60.989 61.111 0.00 0.00 0.00 4.96
2151 2342 0.602562 ACCATTGGCCATTGTGTTCG 59.397 50.000 22.69 11.70 0.00 3.95
2193 2384 0.617249 AGAAGTGGGCTCCTCCTCTG 60.617 60.000 0.00 0.00 31.74 3.35
2195 2386 1.342574 ACTAGAAGTGGGCTCCTCCTC 60.343 57.143 0.00 0.00 34.39 3.71
2202 2393 1.853963 ACATCGACTAGAAGTGGGCT 58.146 50.000 0.00 0.00 28.50 5.19
2203 2394 2.271800 CAACATCGACTAGAAGTGGGC 58.728 52.381 0.00 0.00 30.34 5.36
2214 2405 6.145209 CCATCATCATTAGAGACAACATCGAC 59.855 42.308 0.00 0.00 0.00 4.20
2216 2407 5.987953 ACCATCATCATTAGAGACAACATCG 59.012 40.000 0.00 0.00 0.00 3.84


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

AutoCloner maintained by Alex Coulton.