Multiple sequence alignment - TraesCS7D01G548900

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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 TraesCS7D01G548900 chr7D 100.000 2375 0 0 1 2375 634068058 634070432 0.000000e+00 4386.0
1 TraesCS7D01G548900 chr7D 97.211 502 11 2 1 501 634059385 634059884 0.000000e+00 846.0
2 TraesCS7D01G548900 chr7D 90.244 41 4 0 2182 2222 634070192 634070232 1.000000e-03 54.7
3 TraesCS7D01G548900 chrUn 94.179 1048 55 5 1 1044 83812819 83811774 0.000000e+00 1592.0
4 TraesCS7D01G548900 chrUn 94.179 1048 55 5 1 1044 83860104 83859059 0.000000e+00 1592.0
5 TraesCS7D01G548900 chrUn 94.179 1048 55 5 1 1044 254174919 254173874 0.000000e+00 1592.0
6 TraesCS7D01G548900 chrUn 94.084 1048 55 6 1 1044 357897203 357896159 0.000000e+00 1585.0
7 TraesCS7D01G548900 chrUn 93.016 902 38 10 1482 2375 83810065 83809181 0.000000e+00 1293.0
8 TraesCS7D01G548900 chrUn 92.905 902 39 10 1482 2375 254172165 254171281 0.000000e+00 1288.0
9 TraesCS7D01G548900 chrUn 92.802 903 40 10 1482 2375 83857350 83856464 0.000000e+00 1284.0
10 TraesCS7D01G548900 chrUn 94.681 658 28 5 1723 2375 241101776 241101121 0.000000e+00 1014.0
11 TraesCS7D01G548900 chrUn 88.612 641 41 18 791 1401 254172797 254172159 0.000000e+00 750.0
12 TraesCS7D01G548900 chrUn 88.300 641 43 18 791 1401 83810697 83810059 0.000000e+00 739.0
13 TraesCS7D01G548900 chrUn 88.300 641 43 18 791 1401 83857982 83857344 0.000000e+00 739.0
14 TraesCS7D01G548900 chrUn 88.300 641 43 18 791 1401 414205716 414205078 0.000000e+00 739.0
15 TraesCS7D01G548900 chrUn 90.828 447 22 6 1482 1925 414205084 414204654 4.400000e-162 580.0
16 TraesCS7D01G548900 chrUn 81.047 554 64 16 851 1375 83806613 83806072 1.020000e-108 403.0
17 TraesCS7D01G548900 chrUn 81.047 554 64 13 851 1375 83853905 83853364 1.020000e-108 403.0
18 TraesCS7D01G548900 chrUn 80.866 554 65 15 851 1375 241098552 241098011 4.760000e-107 398.0
19 TraesCS7D01G548900 chrUn 81.584 505 40 28 1 455 83858796 83858295 3.730000e-98 368.0
20 TraesCS7D01G548900 chrUn 81.584 505 40 28 1 455 254173611 254173110 3.730000e-98 368.0
21 TraesCS7D01G548900 chrUn 81.386 505 41 28 1 455 83811511 83811010 1.740000e-96 363.0
22 TraesCS7D01G548900 chrUn 90.000 110 7 1 476 585 83811016 83810911 3.180000e-29 139.0
23 TraesCS7D01G548900 chrUn 89.091 110 8 1 476 585 83858301 83858196 1.480000e-27 134.0
24 TraesCS7D01G548900 chrUn 89.091 110 8 1 476 585 254173116 254173011 1.480000e-27 134.0
25 TraesCS7D01G548900 chrUn 94.286 35 2 0 2141 2175 83809368 83809334 1.000000e-03 54.7
26 TraesCS7D01G548900 chrUn 94.286 35 2 0 2141 2175 83856651 83856617 1.000000e-03 54.7
27 TraesCS7D01G548900 chrUn 94.286 35 2 0 2141 2175 241101308 241101274 1.000000e-03 54.7
28 TraesCS7D01G548900 chrUn 94.286 35 2 0 2141 2175 254171468 254171434 1.000000e-03 54.7
29 TraesCS7D01G548900 chr7A 94.179 1048 55 5 1 1044 732307439 732306394 0.000000e+00 1592.0
30 TraesCS7D01G548900 chr7A 93.016 902 38 10 1482 2375 732304685 732303801 0.000000e+00 1293.0
31 TraesCS7D01G548900 chr7A 88.456 641 42 18 791 1401 732305317 732304679 0.000000e+00 745.0
32 TraesCS7D01G548900 chr7A 88.745 462 29 16 927 1375 732190165 732189714 5.770000e-151 544.0
33 TraesCS7D01G548900 chr7A 81.386 505 41 27 1 455 732306131 732305630 1.740000e-96 363.0
34 TraesCS7D01G548900 chr7A 94.737 95 5 0 1394 1488 223532892 223532986 5.290000e-32 148.0
35 TraesCS7D01G548900 chr7A 89.091 110 8 1 476 585 732305636 732305531 1.480000e-27 134.0
36 TraesCS7D01G548900 chr7A 92.683 82 1 3 1483 1559 732177978 732177897 1.930000e-21 113.0
37 TraesCS7D01G548900 chr4B 97.826 92 2 0 1397 1488 643079147 643079056 2.440000e-35 159.0
38 TraesCS7D01G548900 chr7B 96.774 93 3 0 1399 1491 29827089 29826997 3.160000e-34 156.0
39 TraesCS7D01G548900 chr3B 95.833 96 3 1 1393 1488 488986706 488986800 1.140000e-33 154.0
40 TraesCS7D01G548900 chr3B 92.308 104 6 2 1383 1485 249860869 249860971 1.900000e-31 147.0
41 TraesCS7D01G548900 chr3A 94.000 100 5 1 1393 1491 423951487 423951586 1.470000e-32 150.0
42 TraesCS7D01G548900 chr3A 93.814 97 6 0 1396 1492 729669418 729669322 1.900000e-31 147.0
43 TraesCS7D01G548900 chr2D 92.453 106 7 1 1388 1492 489407006 489407111 1.470000e-32 150.0
44 TraesCS7D01G548900 chr4A 90.435 115 7 3 1380 1494 667353569 667353679 5.290000e-32 148.0


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 TraesCS7D01G548900 chr7D 634068058 634070432 2374 False 2220.350000 4386 95.122000 1 2375 2 chr7D.!!$F2 2374
1 TraesCS7D01G548900 chrUn 357896159 357897203 1044 True 1585.000000 1585 94.084000 1 1044 1 chrUn.!!$R1 1043
2 TraesCS7D01G548900 chrUn 254171281 254174919 3638 True 697.783333 1592 90.109500 1 2375 6 chrUn.!!$R5 2374
3 TraesCS7D01G548900 chrUn 414204654 414205716 1062 True 659.500000 739 89.564000 791 1925 2 chrUn.!!$R6 1134
4 TraesCS7D01G548900 chrUn 83806072 83812819 6747 True 654.814286 1592 88.887714 1 2375 7 chrUn.!!$R2 2374
5 TraesCS7D01G548900 chrUn 83853364 83860104 6740 True 653.528571 1592 88.755571 1 2375 7 chrUn.!!$R3 2374
6 TraesCS7D01G548900 chrUn 241098011 241101776 3765 True 488.900000 1014 89.944333 851 2375 3 chrUn.!!$R4 1524
7 TraesCS7D01G548900 chr7A 732303801 732307439 3638 True 825.400000 1592 89.225600 1 2375 5 chr7A.!!$R3 2374

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
980 984 2.095059 CCAGCTAAAGCACACACCAATC 60.095 50.0 4.54 0.0 45.16 2.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2339 6133 0.744874 TGCTCGACAGTAGCATACCC 59.255 55.0 0.0 0.0 44.78 3.69 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
138 140 4.879545 TGTAACTTCAAACCAGACTCAACC 59.120 41.667 0.00 0.00 0.00 3.77
148 150 2.224066 CCAGACTCAACCGAACAGTTCT 60.224 50.000 11.60 0.00 0.00 3.01
175 177 5.437060 ACTTGTAACACACCAGAGTTTCAT 58.563 37.500 0.00 0.00 29.15 2.57
255 257 8.740123 TGAAGTGATGTTGACTAAAACCTAAA 57.260 30.769 0.00 0.00 0.00 1.85
258 260 9.965824 AAGTGATGTTGACTAAAACCTAAATTG 57.034 29.630 0.00 0.00 0.00 2.32
414 416 6.713731 AGGAAGTTATTTAAACTGAGGGGA 57.286 37.500 0.00 0.00 0.00 4.81
436 438 5.888161 GGATTCACATGGTGGTTCTCTTTAT 59.112 40.000 0.00 0.00 33.87 1.40
455 457 9.799106 CTCTTTATAACCCATGAACATATCCTT 57.201 33.333 0.00 0.00 0.00 3.36
456 458 9.573166 TCTTTATAACCCATGAACATATCCTTG 57.427 33.333 0.00 0.00 0.00 3.61
543 546 9.088987 TCCATTAATTTGGAATAAAGGATAGCC 57.911 33.333 0.00 0.00 42.82 3.93
621 624 4.889409 TCTTTGAAAAATGTCAGAGTGGCT 59.111 37.500 0.00 0.00 32.81 4.75
789 793 4.519730 CCGTTTCTATTACTCCGGATCTCT 59.480 45.833 3.57 0.00 37.66 3.10
926 930 4.489679 GCATGTGCTATTTAAGTAGGCC 57.510 45.455 7.08 0.00 38.21 5.19
934 938 4.799428 GCTATTTAAGTAGGCCGATCGATC 59.201 45.833 18.66 15.68 0.00 3.69
971 975 5.907866 TTAATTAACCCCAGCTAAAGCAC 57.092 39.130 4.54 0.00 45.16 4.40
980 984 2.095059 CCAGCTAAAGCACACACCAATC 60.095 50.000 4.54 0.00 45.16 2.67
1095 4877 2.247267 GACAAAACCGCGGTCACG 59.753 61.111 34.29 23.87 44.63 4.35
1357 5142 0.321653 GAAGTACAGGTGGTGGCAGG 60.322 60.000 0.00 0.00 0.00 4.85
1358 5143 1.779061 AAGTACAGGTGGTGGCAGGG 61.779 60.000 0.00 0.00 0.00 4.45
1391 5176 9.352784 GAGAAGCTAGATTGCATTACATAGTAG 57.647 37.037 0.00 0.00 34.99 2.57
1392 5177 8.865090 AGAAGCTAGATTGCATTACATAGTAGT 58.135 33.333 0.00 0.00 34.99 2.73
1394 5179 9.915629 AAGCTAGATTGCATTACATAGTAGTAC 57.084 33.333 0.00 0.00 34.99 2.73
1395 5180 8.237949 AGCTAGATTGCATTACATAGTAGTACG 58.762 37.037 0.00 0.00 34.99 3.67
1396 5181 8.021973 GCTAGATTGCATTACATAGTAGTACGT 58.978 37.037 0.00 0.00 0.00 3.57
1411 5196 3.965888 ACGTAGTACTCCCTCCGTT 57.034 52.632 0.00 0.00 41.94 4.44
1412 5197 2.206576 ACGTAGTACTCCCTCCGTTT 57.793 50.000 0.00 0.00 41.94 3.60
1413 5198 2.519013 ACGTAGTACTCCCTCCGTTTT 58.481 47.619 0.00 0.00 41.94 2.43
1414 5199 3.686016 ACGTAGTACTCCCTCCGTTTTA 58.314 45.455 0.00 0.00 41.94 1.52
1415 5200 4.079253 ACGTAGTACTCCCTCCGTTTTAA 58.921 43.478 0.00 0.00 41.94 1.52
1416 5201 4.522789 ACGTAGTACTCCCTCCGTTTTAAA 59.477 41.667 0.00 0.00 41.94 1.52
1417 5202 5.010617 ACGTAGTACTCCCTCCGTTTTAAAA 59.989 40.000 0.00 0.00 41.94 1.52
1418 5203 6.101997 CGTAGTACTCCCTCCGTTTTAAAAT 58.898 40.000 0.00 0.00 0.00 1.82
1419 5204 7.093945 ACGTAGTACTCCCTCCGTTTTAAAATA 60.094 37.037 0.00 0.00 41.94 1.40
1420 5205 7.433425 CGTAGTACTCCCTCCGTTTTAAAATAG 59.567 40.741 0.00 1.99 0.00 1.73
1421 5206 7.486407 AGTACTCCCTCCGTTTTAAAATAGA 57.514 36.000 3.52 3.61 0.00 1.98
1422 5207 8.087303 AGTACTCCCTCCGTTTTAAAATAGAT 57.913 34.615 3.52 0.00 0.00 1.98
1423 5208 8.546322 AGTACTCCCTCCGTTTTAAAATAGATT 58.454 33.333 3.52 0.00 0.00 2.40
1424 5209 9.822185 GTACTCCCTCCGTTTTAAAATAGATTA 57.178 33.333 3.52 0.00 0.00 1.75
1425 5210 8.728337 ACTCCCTCCGTTTTAAAATAGATTAC 57.272 34.615 3.52 0.00 0.00 1.89
1426 5211 7.772292 ACTCCCTCCGTTTTAAAATAGATTACC 59.228 37.037 3.52 0.00 0.00 2.85
1427 5212 7.056006 TCCCTCCGTTTTAAAATAGATTACCC 58.944 38.462 3.52 0.00 0.00 3.69
1428 5213 6.829811 CCCTCCGTTTTAAAATAGATTACCCA 59.170 38.462 3.52 0.00 0.00 4.51
1429 5214 7.339976 CCCTCCGTTTTAAAATAGATTACCCAA 59.660 37.037 3.52 0.00 0.00 4.12
1430 5215 8.186163 CCTCCGTTTTAAAATAGATTACCCAAC 58.814 37.037 3.52 0.00 0.00 3.77
1431 5216 8.866970 TCCGTTTTAAAATAGATTACCCAACT 57.133 30.769 3.52 0.00 0.00 3.16
1432 5217 9.299465 TCCGTTTTAAAATAGATTACCCAACTT 57.701 29.630 3.52 0.00 0.00 2.66
1433 5218 9.917129 CCGTTTTAAAATAGATTACCCAACTTT 57.083 29.630 3.52 0.00 0.00 2.66
1471 5256 9.003658 AGTACAAAGTTGAGTCATCTATTTTGG 57.996 33.333 14.35 0.00 40.00 3.28
1472 5257 8.999431 GTACAAAGTTGAGTCATCTATTTTGGA 58.001 33.333 14.35 6.88 40.00 3.53
1473 5258 8.463930 ACAAAGTTGAGTCATCTATTTTGGAA 57.536 30.769 14.35 0.00 40.00 3.53
1474 5259 8.352942 ACAAAGTTGAGTCATCTATTTTGGAAC 58.647 33.333 14.35 0.00 40.00 3.62
1475 5260 6.727824 AGTTGAGTCATCTATTTTGGAACG 57.272 37.500 1.70 0.00 0.00 3.95
1476 5261 5.643777 AGTTGAGTCATCTATTTTGGAACGG 59.356 40.000 1.70 0.00 0.00 4.44
1477 5262 5.414789 TGAGTCATCTATTTTGGAACGGA 57.585 39.130 0.00 0.00 0.00 4.69
1478 5263 5.419542 TGAGTCATCTATTTTGGAACGGAG 58.580 41.667 0.00 0.00 0.00 4.63
1479 5264 4.770795 AGTCATCTATTTTGGAACGGAGG 58.229 43.478 0.00 0.00 0.00 4.30
1480 5265 3.877508 GTCATCTATTTTGGAACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
1505 5290 7.443575 GGAGTAGTAGTTAGTATCGTGATTCCA 59.556 40.741 0.00 0.00 0.00 3.53
1517 5302 9.424319 AGTATCGTGATTCCATACATAATGTTC 57.576 33.333 0.00 0.00 33.34 3.18
1518 5303 7.672983 ATCGTGATTCCATACATAATGTTCC 57.327 36.000 0.00 0.00 33.34 3.62
1612 5397 6.538945 AAGATATTTGTATTTTGCGGGGTT 57.461 33.333 0.00 0.00 0.00 4.11
1694 5481 8.566008 TTTACTACTGTACGAGTTTTTCTGAC 57.434 34.615 0.00 0.00 35.96 3.51
1712 5500 1.212935 GACATGAGGCAGTACCCCAAT 59.787 52.381 0.00 0.00 40.58 3.16
1738 5526 3.199442 TCCACCTGGAGAATAACCTGA 57.801 47.619 0.00 0.00 39.78 3.86
1756 5544 6.976934 ACCTGATGTAAACCTTGTTTTGAT 57.023 33.333 0.00 0.00 0.00 2.57
1763 5551 8.816640 ATGTAAACCTTGTTTTGATCATTCAC 57.183 30.769 0.00 0.00 0.00 3.18
1771 5559 7.361201 CCTTGTTTTGATCATTCACGTGTCTAT 60.361 37.037 16.51 5.35 0.00 1.98
1772 5560 7.433708 TGTTTTGATCATTCACGTGTCTATT 57.566 32.000 16.51 0.00 0.00 1.73
1790 5578 2.865119 TTAACGTTTTCTCCTCCCCC 57.135 50.000 5.91 0.00 0.00 5.40
1820 5608 1.303091 CCCAAGCGTTAGGGTTTCCG 61.303 60.000 0.00 0.00 40.34 4.30
1866 5654 0.764369 TCTGCCTTGTCTCCTGTGGT 60.764 55.000 0.00 0.00 0.00 4.16
1895 5683 0.178909 ATGGAGGCTCGATGGATCCT 60.179 55.000 14.23 0.00 41.44 3.24
1896 5684 0.482887 TGGAGGCTCGATGGATCCTA 59.517 55.000 14.23 0.00 38.88 2.94
1898 5686 1.549037 GGAGGCTCGATGGATCCTAGT 60.549 57.143 14.23 0.00 38.88 2.57
1961 5750 5.501156 AGGGAGAATTTCATGTGGAACTAC 58.499 41.667 0.00 0.00 38.04 2.73
1975 5766 4.635765 GTGGAACTACACACATGCATACAT 59.364 41.667 0.00 0.00 40.99 2.29
2159 5953 7.624549 AGATAGTTGGCAGTCTTCAGATTTAA 58.375 34.615 0.07 0.00 0.00 1.52
2168 5962 7.440856 GGCAGTCTTCAGATTTAAGGAGATAAG 59.559 40.741 0.00 0.00 0.00 1.73
2353 6147 7.217200 TCAAATAATCTGGGTATGCTACTGTC 58.783 38.462 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 9.104965 TGCATATAAAAGTACACACCTTGATAC 57.895 33.333 0.00 0.00 0.00 2.24
138 140 8.212495 GTGTGTTACAAGTATTAGAACTGTTCG 58.788 37.037 14.35 1.18 34.02 3.95
148 150 8.205512 TGAAACTCTGGTGTGTTACAAGTATTA 58.794 33.333 0.00 0.00 31.80 0.98
310 312 9.007901 CCCTCAATTTAAATAGATCAGTGATCC 57.992 37.037 26.14 11.10 39.66 3.36
394 396 7.947890 TGTGAATCCCCTCAGTTTAAATAACTT 59.052 33.333 0.00 0.00 0.00 2.66
400 402 5.016173 CCATGTGAATCCCCTCAGTTTAAA 58.984 41.667 0.00 0.00 0.00 1.52
414 416 7.339466 GGTTATAAAGAGAACCACCATGTGAAT 59.661 37.037 0.00 0.00 44.90 2.57
436 438 5.122707 TGCAAGGATATGTTCATGGGTTA 57.877 39.130 0.00 0.00 0.00 2.85
543 546 5.412286 CCAAAGGGATTTAAATTGCAAGTGG 59.588 40.000 4.94 3.32 35.59 4.00
598 601 4.889409 AGCCACTCTGACATTTTTCAAAGA 59.111 37.500 0.00 0.00 0.00 2.52
621 624 8.580720 TGCATTTGAGCTAAAAATTTACAGGTA 58.419 29.630 0.00 0.00 34.99 3.08
666 669 6.890663 TGCTTCTGTTTCAAATTGACAAAG 57.109 33.333 0.00 0.00 0.00 2.77
736 739 3.093814 TCTCCACTATGCGACTTTGGTA 58.906 45.455 0.00 0.00 0.00 3.25
737 740 1.899814 TCTCCACTATGCGACTTTGGT 59.100 47.619 0.00 0.00 0.00 3.67
789 793 6.934083 GCCTAAATTTGAAACAAATCCCTTCA 59.066 34.615 9.60 0.00 0.00 3.02
847 851 6.551736 CGGTACAAGTTGCAGCTATTTAAAT 58.448 36.000 2.53 5.89 0.00 1.40
848 852 5.618195 GCGGTACAAGTTGCAGCTATTTAAA 60.618 40.000 2.53 0.00 0.00 1.52
910 914 3.570975 TCGATCGGCCTACTTAAATAGCA 59.429 43.478 16.41 0.00 0.00 3.49
934 938 0.314302 ATTAATCTCGCCCTCGACCG 59.686 55.000 0.00 0.00 40.21 4.79
936 940 3.739810 GGTTAATTAATCTCGCCCTCGAC 59.260 47.826 0.31 0.00 40.21 4.20
947 951 6.096282 TGTGCTTTAGCTGGGGTTAATTAATC 59.904 38.462 0.31 0.00 42.66 1.75
971 975 2.679837 AGCGCTAAATCTGATTGGTGTG 59.320 45.455 8.99 5.42 0.00 3.82
980 984 3.017323 CCGGCAGCGCTAAATCTG 58.983 61.111 10.99 4.76 0.00 2.90
1052 4834 2.742372 CTTCGGCGTTGTGGGAGG 60.742 66.667 6.85 0.00 0.00 4.30
1357 5142 3.401182 CAATCTAGCTTCTCCTCATGCC 58.599 50.000 0.00 0.00 0.00 4.40
1358 5143 2.807392 GCAATCTAGCTTCTCCTCATGC 59.193 50.000 0.00 0.00 0.00 4.06
1395 5180 8.470002 TCTATTTTAAAACGGAGGGAGTACTAC 58.530 37.037 1.97 0.00 0.00 2.73
1396 5181 8.593945 TCTATTTTAAAACGGAGGGAGTACTA 57.406 34.615 1.97 0.00 0.00 1.82
1397 5182 7.486407 TCTATTTTAAAACGGAGGGAGTACT 57.514 36.000 1.97 0.00 0.00 2.73
1398 5183 8.728337 AATCTATTTTAAAACGGAGGGAGTAC 57.272 34.615 1.97 0.00 0.00 2.73
1399 5184 9.822185 GTAATCTATTTTAAAACGGAGGGAGTA 57.178 33.333 1.97 0.00 0.00 2.59
1400 5185 7.772292 GGTAATCTATTTTAAAACGGAGGGAGT 59.228 37.037 1.97 0.00 0.00 3.85
1401 5186 7.228108 GGGTAATCTATTTTAAAACGGAGGGAG 59.772 40.741 1.97 0.00 0.00 4.30
1402 5187 7.056006 GGGTAATCTATTTTAAAACGGAGGGA 58.944 38.462 1.97 0.00 0.00 4.20
1403 5188 6.829811 TGGGTAATCTATTTTAAAACGGAGGG 59.170 38.462 1.97 0.00 0.00 4.30
1404 5189 7.868906 TGGGTAATCTATTTTAAAACGGAGG 57.131 36.000 1.97 0.00 0.00 4.30
1405 5190 8.953313 AGTTGGGTAATCTATTTTAAAACGGAG 58.047 33.333 1.97 1.74 0.00 4.63
1406 5191 8.866970 AGTTGGGTAATCTATTTTAAAACGGA 57.133 30.769 1.97 5.09 0.00 4.69
1407 5192 9.917129 AAAGTTGGGTAATCTATTTTAAAACGG 57.083 29.630 1.97 0.00 0.00 4.44
1445 5230 9.003658 CCAAAATAGATGACTCAACTTTGTACT 57.996 33.333 0.00 0.00 0.00 2.73
1446 5231 8.999431 TCCAAAATAGATGACTCAACTTTGTAC 58.001 33.333 0.00 0.00 0.00 2.90
1447 5232 9.567776 TTCCAAAATAGATGACTCAACTTTGTA 57.432 29.630 0.00 0.00 0.00 2.41
1448 5233 8.352942 GTTCCAAAATAGATGACTCAACTTTGT 58.647 33.333 0.00 0.00 0.00 2.83
1449 5234 7.535258 CGTTCCAAAATAGATGACTCAACTTTG 59.465 37.037 0.00 0.00 0.00 2.77
1450 5235 7.308589 CCGTTCCAAAATAGATGACTCAACTTT 60.309 37.037 0.00 0.00 0.00 2.66
1451 5236 6.149474 CCGTTCCAAAATAGATGACTCAACTT 59.851 38.462 0.00 0.00 0.00 2.66
1452 5237 5.643777 CCGTTCCAAAATAGATGACTCAACT 59.356 40.000 0.00 0.00 0.00 3.16
1453 5238 5.642063 TCCGTTCCAAAATAGATGACTCAAC 59.358 40.000 0.00 0.00 0.00 3.18
1454 5239 5.800296 TCCGTTCCAAAATAGATGACTCAA 58.200 37.500 0.00 0.00 0.00 3.02
1455 5240 5.414789 TCCGTTCCAAAATAGATGACTCA 57.585 39.130 0.00 0.00 0.00 3.41
1456 5241 4.811557 CCTCCGTTCCAAAATAGATGACTC 59.188 45.833 0.00 0.00 0.00 3.36
1457 5242 4.384208 CCCTCCGTTCCAAAATAGATGACT 60.384 45.833 0.00 0.00 0.00 3.41
1458 5243 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
1459 5244 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
1460 5245 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
1461 5246 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
1462 5247 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
1463 5248 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
1464 5249 4.098894 ACTACTCCCTCCGTTCCAAAATA 58.901 43.478 0.00 0.00 0.00 1.40
1465 5250 2.910977 ACTACTCCCTCCGTTCCAAAAT 59.089 45.455 0.00 0.00 0.00 1.82
1466 5251 2.332117 ACTACTCCCTCCGTTCCAAAA 58.668 47.619 0.00 0.00 0.00 2.44
1467 5252 2.019807 ACTACTCCCTCCGTTCCAAA 57.980 50.000 0.00 0.00 0.00 3.28
1468 5253 2.042162 ACTACTACTCCCTCCGTTCCAA 59.958 50.000 0.00 0.00 0.00 3.53
1469 5254 1.637553 ACTACTACTCCCTCCGTTCCA 59.362 52.381 0.00 0.00 0.00 3.53
1470 5255 2.433662 ACTACTACTCCCTCCGTTCC 57.566 55.000 0.00 0.00 0.00 3.62
1471 5256 4.522114 ACTAACTACTACTCCCTCCGTTC 58.478 47.826 0.00 0.00 0.00 3.95
1472 5257 4.582973 ACTAACTACTACTCCCTCCGTT 57.417 45.455 0.00 0.00 0.00 4.44
1473 5258 5.510520 CGATACTAACTACTACTCCCTCCGT 60.511 48.000 0.00 0.00 0.00 4.69
1474 5259 4.928615 CGATACTAACTACTACTCCCTCCG 59.071 50.000 0.00 0.00 0.00 4.63
1475 5260 5.700373 CACGATACTAACTACTACTCCCTCC 59.300 48.000 0.00 0.00 0.00 4.30
1476 5261 6.520272 TCACGATACTAACTACTACTCCCTC 58.480 44.000 0.00 0.00 0.00 4.30
1477 5262 6.491714 TCACGATACTAACTACTACTCCCT 57.508 41.667 0.00 0.00 0.00 4.20
1478 5263 7.094848 GGAATCACGATACTAACTACTACTCCC 60.095 44.444 0.00 0.00 0.00 4.30
1479 5264 7.443575 TGGAATCACGATACTAACTACTACTCC 59.556 40.741 0.00 0.00 0.00 3.85
1480 5265 8.375608 TGGAATCACGATACTAACTACTACTC 57.624 38.462 0.00 0.00 0.00 2.59
1612 5397 9.688091 ATAGACAGAGTAAAGTCTCTCAATACA 57.312 33.333 0.00 0.00 43.59 2.29
1676 5461 5.119279 CCTCATGTCAGAAAAACTCGTACAG 59.881 44.000 0.00 0.00 30.26 2.74
1682 5467 3.817647 ACTGCCTCATGTCAGAAAAACTC 59.182 43.478 15.49 0.00 34.57 3.01
1683 5468 3.825328 ACTGCCTCATGTCAGAAAAACT 58.175 40.909 15.49 0.00 34.57 2.66
1684 5469 4.083271 GGTACTGCCTCATGTCAGAAAAAC 60.083 45.833 15.49 9.44 34.57 2.43
1738 5526 7.594758 CGTGAATGATCAAAACAAGGTTTACAT 59.405 33.333 0.00 0.00 37.30 2.29
1763 5551 5.287992 GGAGGAGAAAACGTTAATAGACACG 59.712 44.000 0.00 0.00 42.29 4.49
1771 5559 2.056359 TGGGGGAGGAGAAAACGTTAA 58.944 47.619 0.00 0.00 0.00 2.01
1772 5560 1.348696 GTGGGGGAGGAGAAAACGTTA 59.651 52.381 0.00 0.00 0.00 3.18
1790 5578 1.672356 CGCTTGGGAGTCCCTTGTG 60.672 63.158 28.73 21.61 45.70 3.33
1845 5633 1.406614 CCACAGGAGACAAGGCAGATC 60.407 57.143 0.00 0.00 0.00 2.75
1853 5641 3.451178 GGCTCTAATACCACAGGAGACAA 59.549 47.826 0.00 0.00 32.77 3.18
1895 5683 8.891671 AAACACCTAAAAACGAAGTATGACTA 57.108 30.769 0.00 0.00 45.00 2.59
1896 5684 7.797038 AAACACCTAAAAACGAAGTATGACT 57.203 32.000 0.00 0.00 45.00 3.41
1935 5724 6.552008 AGTTCCACATGAAATTCTCCCTAAA 58.448 36.000 0.00 0.00 33.94 1.85
1961 5750 2.885894 TGCCCATATGTATGCATGTGTG 59.114 45.455 16.95 8.80 40.99 3.82
1975 5766 6.865834 AATTTGTTGATTTACCTGCCCATA 57.134 33.333 0.00 0.00 0.00 2.74
2066 5857 9.859427 TTTCTTAATGGAATCTAATTGCTTGTG 57.141 29.630 0.00 0.00 0.00 3.33
2289 6083 7.993183 AGTTCTCCTTGTCAAAGTGAATTCTAA 59.007 33.333 7.05 0.00 31.32 2.10
2339 6133 0.744874 TGCTCGACAGTAGCATACCC 59.255 55.000 0.00 0.00 44.78 3.69


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

AutoCloner maintained by Alex Coulton.