Multiple sequence alignment - TraesCS2B01G506200

Loading Multiple Alignment...

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 TraesCS2B01G506200 chr2B 100.000 2273 0 0 1 2273 701491934 701489662 0.000000e+00 4198
1 TraesCS2B01G506200 chr2B 80.483 1035 103 52 816 1813 572586360 572587332 0.000000e+00 701
2 TraesCS2B01G506200 chr2B 81.676 704 92 33 82 763 130029728 130029040 3.300000e-153 551
3 TraesCS2B01G506200 chr2D 88.777 1096 43 26 773 1825 582495071 582494013 0.000000e+00 1269
4 TraesCS2B01G506200 chr2D 91.667 456 21 12 1822 2273 582493897 582493455 1.150000e-172 616
5 TraesCS2B01G506200 chr2D 82.365 482 35 12 1381 1829 488229846 488230310 7.670000e-100 374
6 TraesCS2B01G506200 chr2D 90.441 136 11 1 2106 2241 580453878 580453745 6.450000e-41 178
7 TraesCS2B01G506200 chr2D 87.692 65 7 1 1382 1446 488225728 488225791 8.710000e-10 75
8 TraesCS2B01G506200 chr5A 84.360 1023 79 49 823 1824 456485750 456484788 0.000000e+00 928
9 TraesCS2B01G506200 chr5A 82.717 1001 84 47 823 1797 474537708 474536771 0.000000e+00 808
10 TraesCS2B01G506200 chr3B 90.000 700 53 15 74 763 71969190 71969882 0.000000e+00 889
11 TraesCS2B01G506200 chr1B 89.872 701 53 15 74 763 450020622 450021315 0.000000e+00 885
12 TraesCS2B01G506200 chr1B 89.630 540 39 14 74 602 55456244 55456777 0.000000e+00 671
13 TraesCS2B01G506200 chr1B 82.774 685 76 36 45 701 60014968 60015638 7.040000e-160 573
14 TraesCS2B01G506200 chr4B 89.286 700 57 15 74 763 522298671 522299362 0.000000e+00 861
15 TraesCS2B01G506200 chr3A 87.984 749 62 20 32 763 747651136 747651873 0.000000e+00 859
16 TraesCS2B01G506200 chr5D 83.721 946 74 45 823 1746 371441016 371440129 0.000000e+00 821
17 TraesCS2B01G506200 chr6B 82.889 713 98 20 59 754 633037184 633036479 8.920000e-174 619
18 TraesCS2B01G506200 chr6B 83.644 483 53 15 819 1293 674935328 674935792 4.490000e-117 431
19 TraesCS2B01G506200 chr5B 92.000 425 18 7 880 1297 448804033 448803618 1.170000e-162 582
20 TraesCS2B01G506200 chr5B 82.153 706 90 32 82 763 211018714 211019407 7.040000e-160 573
21 TraesCS2B01G506200 chr5B 87.975 474 34 15 823 1283 441446517 441446054 2.570000e-149 538
22 TraesCS2B01G506200 chr5B 86.534 453 44 11 1380 1824 441442337 441441894 1.220000e-132 483
23 TraesCS2B01G506200 chr5B 86.197 355 19 4 1470 1824 448803469 448803145 7.720000e-95 357
24 TraesCS2B01G506200 chr5B 85.380 342 17 10 1366 1682 448803595 448803262 7.830000e-85 324
25 TraesCS2B01G506200 chr6D 83.227 471 54 11 819 1279 446489108 446489563 2.100000e-110 409
26 TraesCS2B01G506200 chr2A 90.253 277 13 8 1470 1742 632623059 632623325 1.290000e-92 350
27 TraesCS2B01G506200 chr2A 78.261 644 62 35 821 1436 632622385 632622978 2.160000e-90 342
28 TraesCS2B01G506200 chr2A 88.971 136 13 1 2106 2241 718263271 718263138 1.400000e-37 167
29 TraesCS2B01G506200 chr4A 81.579 456 49 19 839 1282 686385701 686385269 6.010000e-91 344


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 TraesCS2B01G506200 chr2B 701489662 701491934 2272 True 4198.0 4198 100.0000 1 2273 1 chr2B.!!$R2 2272
1 TraesCS2B01G506200 chr2B 572586360 572587332 972 False 701.0 701 80.4830 816 1813 1 chr2B.!!$F1 997
2 TraesCS2B01G506200 chr2B 130029040 130029728 688 True 551.0 551 81.6760 82 763 1 chr2B.!!$R1 681
3 TraesCS2B01G506200 chr2D 582493455 582495071 1616 True 942.5 1269 90.2220 773 2273 2 chr2D.!!$R2 1500
4 TraesCS2B01G506200 chr5A 456484788 456485750 962 True 928.0 928 84.3600 823 1824 1 chr5A.!!$R1 1001
5 TraesCS2B01G506200 chr5A 474536771 474537708 937 True 808.0 808 82.7170 823 1797 1 chr5A.!!$R2 974
6 TraesCS2B01G506200 chr3B 71969190 71969882 692 False 889.0 889 90.0000 74 763 1 chr3B.!!$F1 689
7 TraesCS2B01G506200 chr1B 450020622 450021315 693 False 885.0 885 89.8720 74 763 1 chr1B.!!$F3 689
8 TraesCS2B01G506200 chr1B 55456244 55456777 533 False 671.0 671 89.6300 74 602 1 chr1B.!!$F1 528
9 TraesCS2B01G506200 chr1B 60014968 60015638 670 False 573.0 573 82.7740 45 701 1 chr1B.!!$F2 656
10 TraesCS2B01G506200 chr4B 522298671 522299362 691 False 861.0 861 89.2860 74 763 1 chr4B.!!$F1 689
11 TraesCS2B01G506200 chr3A 747651136 747651873 737 False 859.0 859 87.9840 32 763 1 chr3A.!!$F1 731
12 TraesCS2B01G506200 chr5D 371440129 371441016 887 True 821.0 821 83.7210 823 1746 1 chr5D.!!$R1 923
13 TraesCS2B01G506200 chr6B 633036479 633037184 705 True 619.0 619 82.8890 59 754 1 chr6B.!!$R1 695
14 TraesCS2B01G506200 chr5B 211018714 211019407 693 False 573.0 573 82.1530 82 763 1 chr5B.!!$F1 681
15 TraesCS2B01G506200 chr5B 441441894 441446517 4623 True 510.5 538 87.2545 823 1824 2 chr5B.!!$R1 1001
16 TraesCS2B01G506200 chr5B 448803145 448804033 888 True 421.0 582 87.8590 880 1824 3 chr5B.!!$R2 944
17 TraesCS2B01G506200 chr2A 632622385 632623325 940 False 346.0 350 84.2570 821 1742 2 chr2A.!!$F1 921

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
713 882 1.28071 TGGTTACCAGGTTGCGATGAT 59.719 47.619 0.0 0.0 0.0 2.45 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1955 6131 0.037232 AGAAGCTTGGTCGCAGTACC 60.037 55.0 2.1 0.0 40.19 3.34 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
370 523 7.764141 TGATGGAAAAATTCATCACTCTTGA 57.236 32.000 3.99 0.00 43.09 3.02
435 593 7.601705 AAGAAAGTCCATCAGATTTGGAAAA 57.398 32.000 0.00 0.00 44.62 2.29
672 841 7.770897 AGAAAAGAAAGTGATGGAATATAGCGT 59.229 33.333 0.00 0.00 0.00 5.07
713 882 1.280710 TGGTTACCAGGTTGCGATGAT 59.719 47.619 0.00 0.00 0.00 2.45
714 883 2.290641 TGGTTACCAGGTTGCGATGATT 60.291 45.455 0.00 0.00 0.00 2.57
715 884 2.752903 GGTTACCAGGTTGCGATGATTT 59.247 45.455 0.00 0.00 0.00 2.17
771 941 3.904586 TTTTTGAGCCGGAAATGCC 57.095 47.368 5.05 0.00 0.00 4.40
776 946 2.208132 TGAGCCGGAAATGCCTTTTA 57.792 45.000 5.05 0.00 0.00 1.52
795 965 7.974501 GCCTTTTATTCCATGATGATGATGATC 59.025 37.037 0.00 0.00 0.00 2.92
837 1007 2.722487 CTACTCGAAGCCCGCGAT 59.278 61.111 8.23 0.00 37.13 4.58
965 1168 3.976793 TCGTCTTCACGTAGACAAGTT 57.023 42.857 16.58 0.00 46.76 2.66
966 1169 4.297299 TCGTCTTCACGTAGACAAGTTT 57.703 40.909 16.58 0.00 46.76 2.66
967 1170 4.675510 TCGTCTTCACGTAGACAAGTTTT 58.324 39.130 16.58 0.00 46.76 2.43
968 1171 4.736793 TCGTCTTCACGTAGACAAGTTTTC 59.263 41.667 16.58 0.00 46.76 2.29
969 1172 4.501559 CGTCTTCACGTAGACAAGTTTTCA 59.498 41.667 16.58 0.00 43.79 2.69
970 1173 5.005012 CGTCTTCACGTAGACAAGTTTTCAA 59.995 40.000 16.58 0.00 43.79 2.69
1283 1567 0.030773 TCGCAGTAGATCATCACCGC 59.969 55.000 0.00 0.00 0.00 5.68
1284 1568 0.031314 CGCAGTAGATCATCACCGCT 59.969 55.000 0.00 0.00 0.00 5.52
1289 1573 1.065701 GTAGATCATCACCGCTGTCGT 59.934 52.381 0.00 0.00 0.00 4.34
1290 1574 0.101399 AGATCATCACCGCTGTCGTC 59.899 55.000 0.00 0.00 0.00 4.20
1291 1575 1.202973 GATCATCACCGCTGTCGTCG 61.203 60.000 0.00 0.00 0.00 5.12
1292 1576 1.934220 ATCATCACCGCTGTCGTCGT 61.934 55.000 0.00 0.00 0.00 4.34
1293 1577 1.733041 CATCACCGCTGTCGTCGTT 60.733 57.895 0.00 0.00 0.00 3.85
1294 1578 1.733041 ATCACCGCTGTCGTCGTTG 60.733 57.895 0.00 0.00 0.00 4.10
1295 1579 2.416244 ATCACCGCTGTCGTCGTTGT 62.416 55.000 0.00 0.00 0.00 3.32
1296 1580 2.354305 ACCGCTGTCGTCGTTGTC 60.354 61.111 0.00 0.00 0.00 3.18
1297 1581 3.458579 CCGCTGTCGTCGTTGTCG 61.459 66.667 0.00 0.00 38.55 4.35
1298 1582 2.724721 CGCTGTCGTCGTTGTCGT 60.725 61.111 0.00 0.00 38.33 4.34
1299 1583 2.694615 CGCTGTCGTCGTTGTCGTC 61.695 63.158 0.00 0.00 38.33 4.20
1300 1584 2.694615 GCTGTCGTCGTTGTCGTCG 61.695 63.158 0.00 1.62 46.06 5.12
1301 1585 1.368493 CTGTCGTCGTTGTCGTCGT 60.368 57.895 7.05 0.00 45.27 4.34
1302 1586 1.319010 CTGTCGTCGTTGTCGTCGTC 61.319 60.000 7.05 3.29 45.27 4.20
1303 1587 2.128017 TCGTCGTTGTCGTCGTCG 60.128 61.111 0.00 0.00 45.27 5.12
1304 1588 2.424157 CGTCGTTGTCGTCGTCGT 60.424 61.111 1.33 0.00 41.73 4.34
1305 1589 2.405212 CGTCGTTGTCGTCGTCGTC 61.405 63.158 1.33 0.00 41.73 4.20
1306 1590 1.083144 GTCGTTGTCGTCGTCGTCT 60.083 57.895 1.33 0.00 38.33 4.18
1307 1591 0.161658 GTCGTTGTCGTCGTCGTCTA 59.838 55.000 1.33 0.00 38.33 2.59
1308 1592 0.161658 TCGTTGTCGTCGTCGTCTAC 59.838 55.000 1.33 3.16 38.33 2.59
1309 1593 0.111134 CGTTGTCGTCGTCGTCTACA 60.111 55.000 12.32 3.54 38.33 2.74
1310 1594 1.589076 GTTGTCGTCGTCGTCTACAG 58.411 55.000 1.33 0.00 38.33 2.74
1311 1595 1.193203 GTTGTCGTCGTCGTCTACAGA 59.807 52.381 1.33 0.00 38.33 3.41
1312 1596 1.066136 TGTCGTCGTCGTCTACAGAG 58.934 55.000 1.33 0.00 38.33 3.35
1313 1597 1.066914 GTCGTCGTCGTCTACAGAGT 58.933 55.000 1.33 0.00 38.33 3.24
1321 1608 3.241615 CGTCGTCTACAGAGTTCGTCTAC 60.242 52.174 0.00 0.00 32.51 2.59
1322 1609 3.925913 GTCGTCTACAGAGTTCGTCTACT 59.074 47.826 0.00 0.00 32.51 2.57
1356 4969 9.346005 TGTATCGTTTCTACTATATGTCTTCCA 57.654 33.333 0.00 0.00 0.00 3.53
1359 4972 8.459911 TCGTTTCTACTATATGTCTTCCATGA 57.540 34.615 0.00 0.00 34.86 3.07
1360 4973 9.078990 TCGTTTCTACTATATGTCTTCCATGAT 57.921 33.333 0.00 0.00 34.86 2.45
1361 4974 9.133627 CGTTTCTACTATATGTCTTCCATGATG 57.866 37.037 0.00 0.00 34.86 3.07
1362 4975 9.988815 GTTTCTACTATATGTCTTCCATGATGT 57.011 33.333 0.00 0.00 34.86 3.06
1364 4977 8.354711 TCTACTATATGTCTTCCATGATGTCC 57.645 38.462 0.00 0.00 34.86 4.02
1384 5339 6.108015 TGTCCGTTACTAGTTGTGAAAGTTT 58.892 36.000 0.00 0.00 0.00 2.66
1643 5688 8.831715 ATTCCTAGGTTTTGCACTTTATTTTG 57.168 30.769 9.08 0.00 0.00 2.44
1702 5754 1.238439 ATTGTTTCCCTGTGCTGTCG 58.762 50.000 0.00 0.00 0.00 4.35
1772 5828 4.543590 AAAGAGGCCATATATCACTCCG 57.456 45.455 5.01 0.00 0.00 4.63
1773 5829 2.461695 AGAGGCCATATATCACTCCGG 58.538 52.381 5.01 0.00 0.00 5.14
1852 6028 7.130269 GTGCTTAATAAAACTTCTGACAACGT 58.870 34.615 0.00 0.00 0.00 3.99
1934 6110 3.314357 GCTTGGTCGTACTGAAAACCTTT 59.686 43.478 0.00 0.00 32.82 3.11
1954 6130 9.574516 AACCTTTAAGTTCAGTTTGATAGACAT 57.425 29.630 0.00 0.00 0.00 3.06
1955 6131 9.003658 ACCTTTAAGTTCAGTTTGATAGACATG 57.996 33.333 0.00 0.00 0.00 3.21
1956 6132 8.454106 CCTTTAAGTTCAGTTTGATAGACATGG 58.546 37.037 0.00 0.00 0.00 3.66
1957 6133 8.918202 TTTAAGTTCAGTTTGATAGACATGGT 57.082 30.769 0.00 0.00 0.00 3.55
1959 6135 7.907214 AAGTTCAGTTTGATAGACATGGTAC 57.093 36.000 0.00 0.00 0.00 3.34
1960 6136 7.246171 AGTTCAGTTTGATAGACATGGTACT 57.754 36.000 0.00 0.00 0.00 2.73
1961 6137 7.099764 AGTTCAGTTTGATAGACATGGTACTG 58.900 38.462 0.00 0.00 34.55 2.74
1962 6138 5.419542 TCAGTTTGATAGACATGGTACTGC 58.580 41.667 0.00 0.00 33.57 4.40
1963 6139 4.268644 CAGTTTGATAGACATGGTACTGCG 59.731 45.833 0.00 0.00 0.00 5.18
1964 6140 4.159693 AGTTTGATAGACATGGTACTGCGA 59.840 41.667 0.00 0.00 0.00 5.10
1965 6141 3.710326 TGATAGACATGGTACTGCGAC 57.290 47.619 0.00 0.00 0.00 5.19
1971 6147 3.466881 TGGTACTGCGACCAAGCT 58.533 55.556 2.63 0.00 46.70 3.74
1973 6149 0.320421 TGGTACTGCGACCAAGCTTC 60.320 55.000 0.00 0.00 46.70 3.86
1980 6156 1.536766 TGCGACCAAGCTTCTTTGATG 59.463 47.619 0.00 0.00 38.13 3.07
1987 6163 4.891756 ACCAAGCTTCTTTGATGGATATGG 59.108 41.667 5.36 0.00 35.16 2.74
2014 6190 1.007336 GTGCTGTTACCTCGTCGTGG 61.007 60.000 11.71 11.71 0.00 4.94
2041 6217 7.048629 TGTTTTCATTGTGATGGAGCTAAAA 57.951 32.000 0.00 0.00 33.93 1.52
2043 6219 7.437862 TGTTTTCATTGTGATGGAGCTAAAAAC 59.562 33.333 0.00 0.00 33.93 2.43
2066 6242 4.288531 GCAAGACATCTGCTTTGCATATC 58.711 43.478 11.92 0.00 38.13 1.63
2085 6261 8.613482 TGCATATCTCTACATAGATTACTACGC 58.387 37.037 0.00 0.00 37.41 4.42
2098 6274 1.007734 CTACGCACTGGTGTCGTGT 60.008 57.895 22.63 11.59 41.02 4.49
2104 6280 0.671796 CACTGGTGTCGTGTACTCCA 59.328 55.000 0.00 0.00 46.89 3.86
2151 6327 4.298009 GCAGCAGCTGTCACTCAT 57.702 55.556 23.60 0.00 37.91 2.90
2196 6372 0.036875 GTCAAAGGTCCAGTCCAGGG 59.963 60.000 0.00 0.00 0.00 4.45
2205 6381 0.984230 CCAGTCCAGGGTGTACACAT 59.016 55.000 26.51 12.38 0.00 3.21
2206 6382 1.339055 CCAGTCCAGGGTGTACACATG 60.339 57.143 26.51 22.12 0.00 3.21
2254 6430 1.588824 CCGGCAAGCAGATCAAGCAA 61.589 55.000 11.97 0.00 0.00 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 9.588774 CGAAAACGATGAACTTTTGAAACTATA 57.411 29.630 0.00 0.00 0.00 1.31
23 24 8.339714 TCGAAAACGATGAACTTTTGAAACTAT 58.660 29.630 0.00 0.00 0.00 2.12
24 25 7.686519 TCGAAAACGATGAACTTTTGAAACTA 58.313 30.769 0.00 0.00 0.00 2.24
25 26 6.548171 TCGAAAACGATGAACTTTTGAAACT 58.452 32.000 0.00 0.00 0.00 2.66
26 27 6.784068 TCGAAAACGATGAACTTTTGAAAC 57.216 33.333 0.00 0.00 0.00 2.78
27 28 7.798486 TTTCGAAAACGATGAACTTTTGAAA 57.202 28.000 8.44 5.48 38.89 2.69
28 29 7.798486 TTTTCGAAAACGATGAACTTTTGAA 57.202 28.000 19.08 0.00 32.91 2.69
29 30 7.798486 TTTTTCGAAAACGATGAACTTTTGA 57.202 28.000 22.41 0.47 0.00 2.69
77 78 9.918630 ATGAACTTTCTTTCGAAAATGATGAAT 57.081 25.926 12.41 0.00 38.58 2.57
155 200 5.583061 TGAACTTTTTGAACTCGCTGAACTA 59.417 36.000 0.00 0.00 0.00 2.24
260 412 4.520078 CGATGAACTTTTTCCGAAAACGA 58.480 39.130 15.00 0.00 31.72 3.85
261 413 3.662186 CCGATGAACTTTTTCCGAAAACG 59.338 43.478 5.77 7.12 31.72 3.60
262 414 4.603985 ACCGATGAACTTTTTCCGAAAAC 58.396 39.130 5.77 0.00 31.72 2.43
263 415 4.904253 ACCGATGAACTTTTTCCGAAAA 57.096 36.364 2.01 2.01 33.86 2.29
264 416 4.904253 AACCGATGAACTTTTTCCGAAA 57.096 36.364 0.00 0.00 0.00 3.46
265 417 4.904253 AAACCGATGAACTTTTTCCGAA 57.096 36.364 0.00 0.00 0.00 4.30
266 418 4.335874 TCAAAACCGATGAACTTTTTCCGA 59.664 37.500 0.00 0.00 0.00 4.55
267 419 4.602995 TCAAAACCGATGAACTTTTTCCG 58.397 39.130 0.00 0.00 0.00 4.30
268 420 6.895607 TTTCAAAACCGATGAACTTTTTCC 57.104 33.333 0.00 0.00 36.57 3.13
672 841 0.834612 CCCGCCACAGGAACCTTATA 59.165 55.000 0.00 0.00 0.00 0.98
702 871 3.848272 TTTCAGGAAATCATCGCAACC 57.152 42.857 0.00 0.00 0.00 3.77
713 882 3.994392 CTCGAACCGAAGATTTCAGGAAA 59.006 43.478 0.00 0.00 34.74 3.13
714 883 3.006537 ACTCGAACCGAAGATTTCAGGAA 59.993 43.478 0.00 0.00 34.74 3.36
715 884 2.561419 ACTCGAACCGAAGATTTCAGGA 59.439 45.455 0.00 0.00 34.74 3.86
759 929 2.430694 GGAATAAAAGGCATTTCCGGCT 59.569 45.455 0.00 0.00 45.04 5.52
763 933 6.819284 TCATCATGGAATAAAAGGCATTTCC 58.181 36.000 0.00 0.00 38.48 3.13
764 934 8.145767 TCATCATCATGGAATAAAAGGCATTTC 58.854 33.333 0.00 0.00 32.27 2.17
765 935 8.025270 TCATCATCATGGAATAAAAGGCATTT 57.975 30.769 0.00 0.00 34.92 2.32
766 936 7.606135 TCATCATCATGGAATAAAAGGCATT 57.394 32.000 0.00 0.00 0.00 3.56
767 937 7.453439 TCATCATCATCATGGAATAAAAGGCAT 59.547 33.333 0.00 0.00 0.00 4.40
768 938 6.778559 TCATCATCATCATGGAATAAAAGGCA 59.221 34.615 0.00 0.00 0.00 4.75
769 939 7.223260 TCATCATCATCATGGAATAAAAGGC 57.777 36.000 0.00 0.00 0.00 4.35
770 940 9.020731 TGATCATCATCATCATGGAATAAAAGG 57.979 33.333 0.00 0.00 33.80 3.11
810 980 2.498885 GGCTTCGAGTAGGGGAAAACTA 59.501 50.000 0.00 0.00 0.00 2.24
811 981 1.278413 GGCTTCGAGTAGGGGAAAACT 59.722 52.381 0.00 0.00 0.00 2.66
837 1007 2.465010 TTAGGAGGAAGCCGGGTCCA 62.465 60.000 19.76 2.21 37.65 4.02
861 1032 0.473694 ATATGCATGGGAGGTCGGGA 60.474 55.000 10.16 0.00 0.00 5.14
965 1168 6.748333 AGCTGATCGAGATTGAAATTGAAA 57.252 33.333 0.00 0.00 0.00 2.69
966 1169 6.748333 AAGCTGATCGAGATTGAAATTGAA 57.252 33.333 0.00 0.00 0.00 2.69
967 1170 6.748333 AAAGCTGATCGAGATTGAAATTGA 57.252 33.333 0.00 0.00 28.15 2.57
968 1171 6.194142 CGAAAAGCTGATCGAGATTGAAATTG 59.806 38.462 14.40 0.00 41.43 2.32
969 1172 6.092670 TCGAAAAGCTGATCGAGATTGAAATT 59.907 34.615 17.32 0.00 42.61 1.82
970 1173 5.582269 TCGAAAAGCTGATCGAGATTGAAAT 59.418 36.000 17.32 0.00 42.61 2.17
1289 1573 0.161658 GTAGACGACGACGACAACGA 59.838 55.000 15.32 0.00 42.66 3.85
1290 1574 0.111134 TGTAGACGACGACGACAACG 60.111 55.000 15.32 4.49 42.66 4.10
1291 1575 1.193203 TCTGTAGACGACGACGACAAC 59.807 52.381 15.32 8.72 42.66 3.32
1292 1576 1.458445 CTCTGTAGACGACGACGACAA 59.542 52.381 15.32 5.44 42.66 3.18
1293 1577 1.066136 CTCTGTAGACGACGACGACA 58.934 55.000 15.32 11.89 42.66 4.35
1294 1578 1.066914 ACTCTGTAGACGACGACGAC 58.933 55.000 15.32 8.08 42.66 4.34
1295 1579 1.723542 GAACTCTGTAGACGACGACGA 59.276 52.381 15.32 0.00 42.66 4.20
1296 1580 1.524589 CGAACTCTGTAGACGACGACG 60.525 57.143 5.58 5.58 45.75 5.12
1297 1581 1.458827 ACGAACTCTGTAGACGACGAC 59.541 52.381 0.00 0.00 33.22 4.34
1298 1582 1.723542 GACGAACTCTGTAGACGACGA 59.276 52.381 0.00 0.00 33.22 4.20
1299 1583 1.725706 AGACGAACTCTGTAGACGACG 59.274 52.381 0.00 0.00 33.22 5.12
1300 1584 3.925913 AGTAGACGAACTCTGTAGACGAC 59.074 47.826 0.00 0.00 33.22 4.34
1301 1585 4.185467 AGTAGACGAACTCTGTAGACGA 57.815 45.455 0.00 0.00 33.22 4.20
1302 1586 4.435784 CCAAGTAGACGAACTCTGTAGACG 60.436 50.000 0.00 0.00 34.35 4.18
1303 1587 4.455190 ACCAAGTAGACGAACTCTGTAGAC 59.545 45.833 0.00 0.00 0.00 2.59
1304 1588 4.649692 ACCAAGTAGACGAACTCTGTAGA 58.350 43.478 0.00 0.00 0.00 2.59
1305 1589 4.696402 AGACCAAGTAGACGAACTCTGTAG 59.304 45.833 0.00 0.00 0.00 2.74
1306 1590 4.649692 AGACCAAGTAGACGAACTCTGTA 58.350 43.478 0.00 0.00 0.00 2.74
1307 1591 3.488363 AGACCAAGTAGACGAACTCTGT 58.512 45.455 0.00 0.00 0.00 3.41
1308 1592 5.124138 ACATAGACCAAGTAGACGAACTCTG 59.876 44.000 0.00 0.00 0.00 3.35
1309 1593 5.254901 ACATAGACCAAGTAGACGAACTCT 58.745 41.667 0.00 0.00 0.00 3.24
1310 1594 5.564048 ACATAGACCAAGTAGACGAACTC 57.436 43.478 0.00 0.00 0.00 3.01
1311 1595 6.018098 CGATACATAGACCAAGTAGACGAACT 60.018 42.308 0.00 0.00 0.00 3.01
1312 1596 6.134730 CGATACATAGACCAAGTAGACGAAC 58.865 44.000 0.00 0.00 0.00 3.95
1313 1597 5.819379 ACGATACATAGACCAAGTAGACGAA 59.181 40.000 0.00 0.00 0.00 3.85
1351 4964 5.263968 ACTAGTAACGGACATCATGGAAG 57.736 43.478 0.00 0.00 0.00 3.46
1354 4967 4.566759 CACAACTAGTAACGGACATCATGG 59.433 45.833 0.00 0.00 0.00 3.66
1355 4968 5.407502 TCACAACTAGTAACGGACATCATG 58.592 41.667 0.00 0.00 0.00 3.07
1356 4969 5.654603 TCACAACTAGTAACGGACATCAT 57.345 39.130 0.00 0.00 0.00 2.45
1357 4970 5.456548 TTCACAACTAGTAACGGACATCA 57.543 39.130 0.00 0.00 0.00 3.07
1358 4971 5.924825 ACTTTCACAACTAGTAACGGACATC 59.075 40.000 0.00 0.00 0.00 3.06
1359 4972 5.850614 ACTTTCACAACTAGTAACGGACAT 58.149 37.500 0.00 0.00 0.00 3.06
1360 4973 5.266733 ACTTTCACAACTAGTAACGGACA 57.733 39.130 0.00 0.00 0.00 4.02
1361 4974 6.594284 AAACTTTCACAACTAGTAACGGAC 57.406 37.500 0.00 0.00 0.00 4.79
1362 4975 6.925165 CCTAAACTTTCACAACTAGTAACGGA 59.075 38.462 0.00 0.00 0.00 4.69
1363 4976 6.703165 ACCTAAACTTTCACAACTAGTAACGG 59.297 38.462 0.00 0.00 0.00 4.44
1364 4977 7.650903 AGACCTAAACTTTCACAACTAGTAACG 59.349 37.037 0.00 0.00 0.00 3.18
1384 5339 5.266788 TCCTCGAGTTTAATCCAAGACCTA 58.733 41.667 12.31 0.00 0.00 3.08
1456 5451 2.969628 ATAAGGGCTCGTCTTCAGTG 57.030 50.000 0.00 0.00 0.00 3.66
1458 5462 3.131223 TCAGAATAAGGGCTCGTCTTCAG 59.869 47.826 0.82 0.00 0.00 3.02
1485 5515 5.029807 TCATACGAAATTGCTATGGGTCA 57.970 39.130 0.00 0.00 0.00 4.02
1613 5658 4.469657 AGTGCAAAACCTAGGAATTCACA 58.530 39.130 17.98 8.93 0.00 3.58
1614 5659 5.453567 AAGTGCAAAACCTAGGAATTCAC 57.546 39.130 17.98 15.23 0.00 3.18
1643 5688 3.007831 TGGGTGGATGGCAATTTTCTTTC 59.992 43.478 0.00 0.00 0.00 2.62
1772 5828 6.848451 TCGAATAGGAAAAACAATTAGCACC 58.152 36.000 0.00 0.00 0.00 5.01
1773 5829 7.527457 ACTCGAATAGGAAAAACAATTAGCAC 58.473 34.615 0.00 0.00 0.00 4.40
1828 6004 7.254227 ACGTTGTCAGAAGTTTTATTAAGCA 57.746 32.000 0.00 0.00 0.00 3.91
1897 6073 1.338579 CCAAGCTGGTTCTCAGGAGTC 60.339 57.143 0.00 0.00 43.54 3.36
1898 6074 0.689623 CCAAGCTGGTTCTCAGGAGT 59.310 55.000 0.00 0.00 43.54 3.85
1899 6075 3.547567 CCAAGCTGGTTCTCAGGAG 57.452 57.895 0.00 0.00 43.54 3.69
1934 6110 8.812972 AGTACCATGTCTATCAAACTGAACTTA 58.187 33.333 0.00 0.00 0.00 2.24
1946 6122 2.361119 TGGTCGCAGTACCATGTCTATC 59.639 50.000 0.00 0.00 44.68 2.08
1955 6131 0.037232 AGAAGCTTGGTCGCAGTACC 60.037 55.000 2.10 0.00 40.19 3.34
1956 6132 1.797025 AAGAAGCTTGGTCGCAGTAC 58.203 50.000 2.10 0.00 0.00 2.73
1957 6133 2.143122 CAAAGAAGCTTGGTCGCAGTA 58.857 47.619 2.10 0.00 0.00 2.74
1958 6134 0.947244 CAAAGAAGCTTGGTCGCAGT 59.053 50.000 2.10 0.00 0.00 4.40
1959 6135 1.229428 TCAAAGAAGCTTGGTCGCAG 58.771 50.000 2.10 0.00 0.00 5.18
1960 6136 1.536766 CATCAAAGAAGCTTGGTCGCA 59.463 47.619 2.10 0.00 0.00 5.10
1961 6137 1.135575 CCATCAAAGAAGCTTGGTCGC 60.136 52.381 2.10 0.00 0.00 5.19
1962 6138 2.426522 TCCATCAAAGAAGCTTGGTCG 58.573 47.619 2.10 0.00 0.00 4.79
1963 6139 5.009410 CCATATCCATCAAAGAAGCTTGGTC 59.991 44.000 2.10 0.00 0.00 4.02
1964 6140 4.891756 CCATATCCATCAAAGAAGCTTGGT 59.108 41.667 2.10 0.00 0.00 3.67
1965 6141 4.891756 ACCATATCCATCAAAGAAGCTTGG 59.108 41.667 2.10 0.00 0.00 3.61
1967 6143 6.628844 GCAAACCATATCCATCAAAGAAGCTT 60.629 38.462 0.00 0.00 0.00 3.74
1969 6145 5.045872 GCAAACCATATCCATCAAAGAAGC 58.954 41.667 0.00 0.00 0.00 3.86
1970 6146 6.270815 CAGCAAACCATATCCATCAAAGAAG 58.729 40.000 0.00 0.00 0.00 2.85
1971 6147 5.127519 CCAGCAAACCATATCCATCAAAGAA 59.872 40.000 0.00 0.00 0.00 2.52
1973 6149 4.403432 ACCAGCAAACCATATCCATCAAAG 59.597 41.667 0.00 0.00 0.00 2.77
1980 6156 1.406539 CAGCACCAGCAAACCATATCC 59.593 52.381 0.00 0.00 45.49 2.59
1987 6163 1.266989 GAGGTAACAGCACCAGCAAAC 59.733 52.381 0.00 0.00 45.49 2.93
2014 6190 3.989817 GCTCCATCACAATGAAAACAACC 59.010 43.478 0.00 0.00 34.61 3.77
2041 6217 1.335324 GCAAAGCAGATGTCTTGCGTT 60.335 47.619 5.61 0.00 0.00 4.84
2043 6219 0.239082 TGCAAAGCAGATGTCTTGCG 59.761 50.000 12.96 0.00 33.32 4.85
2066 6242 6.205076 ACCAGTGCGTAGTAATCTATGTAGAG 59.795 42.308 0.00 0.00 36.04 2.43
2085 6261 0.671796 TGGAGTACACGACACCAGTG 59.328 55.000 0.00 0.00 43.16 3.66
2110 6286 2.554462 GGCTCCTGAACTGAAGGTTTTC 59.446 50.000 0.00 0.00 38.41 2.29
2144 6320 3.865446 CATCTGTAGGTGCAATGAGTGA 58.135 45.455 0.00 0.00 0.00 3.41
2147 6323 2.915349 AGCATCTGTAGGTGCAATGAG 58.085 47.619 18.43 0.00 43.63 2.90
2151 6327 3.515502 AGAAGTAGCATCTGTAGGTGCAA 59.484 43.478 18.43 0.00 43.63 4.08
2196 6372 0.796312 CGGCTGGAACATGTGTACAC 59.204 55.000 19.36 19.36 38.20 2.90
2205 6381 1.896660 GGCAAAGACGGCTGGAACA 60.897 57.895 0.00 0.00 0.00 3.18
2206 6382 2.954611 GGCAAAGACGGCTGGAAC 59.045 61.111 0.00 0.00 0.00 3.62
2238 6414 1.132643 CCTCTTGCTTGATCTGCTTGC 59.867 52.381 11.38 2.13 0.00 4.01
2239 6415 2.419324 GTCCTCTTGCTTGATCTGCTTG 59.581 50.000 11.38 5.68 0.00 4.01
2240 6416 2.039480 TGTCCTCTTGCTTGATCTGCTT 59.961 45.455 11.38 0.00 0.00 3.91
2241 6417 1.627329 TGTCCTCTTGCTTGATCTGCT 59.373 47.619 11.38 0.00 0.00 4.24


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

AutoCloner maintained by Alex Coulton.