Multiple sequence alignment - TraesCS7A01G199400

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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 TraesCS7A01G199400 chr7A 100.000 2415 0 0 1 2415 162415535 162413121 0.000000e+00 4460.0
1 TraesCS7A01G199400 chr7A 79.433 987 105 51 433 1398 162454896 162453987 2.050000e-170 608.0
2 TraesCS7A01G199400 chr7A 86.242 487 31 8 7 462 162401507 162401026 1.670000e-136 496.0
3 TraesCS7A01G199400 chr7A 85.398 226 27 3 1179 1398 162400452 162400227 1.870000e-56 230.0
4 TraesCS7A01G199400 chr7A 82.099 162 15 12 1397 1547 162453944 162453786 2.520000e-25 126.0
5 TraesCS7A01G199400 chr4A 98.009 854 16 1 1546 2399 739032365 739031513 0.000000e+00 1482.0
6 TraesCS7A01G199400 chr2A 97.672 859 20 0 1541 2399 575680395 575681253 0.000000e+00 1476.0
7 TraesCS7A01G199400 chr2A 97.445 861 20 2 1539 2399 748456866 748456008 0.000000e+00 1467.0
8 TraesCS7A01G199400 chr6A 97.780 856 18 1 1544 2399 84703481 84702627 0.000000e+00 1474.0
9 TraesCS7A01G199400 chr3A 97.035 877 24 2 1523 2399 734454581 734455455 0.000000e+00 1474.0
10 TraesCS7A01G199400 chr3A 97.558 860 18 3 1540 2399 446479047 446478191 0.000000e+00 1469.0
11 TraesCS7A01G199400 chr2B 97.778 855 18 1 1545 2399 656970052 656970905 0.000000e+00 1472.0
12 TraesCS7A01G199400 chr1B 97.778 855 18 1 1545 2399 69840620 69841473 0.000000e+00 1472.0
13 TraesCS7A01G199400 chr3B 97.765 850 19 0 1550 2399 658517301 658516452 0.000000e+00 1465.0
14 TraesCS7A01G199400 chr7B 87.265 958 74 14 446 1399 123285761 123284848 0.000000e+00 1050.0
15 TraesCS7A01G199400 chr7B 79.879 994 99 55 433 1398 123288986 123288066 3.390000e-178 634.0
16 TraesCS7A01G199400 chr7B 85.398 226 27 4 1179 1398 123278356 123278131 1.870000e-56 230.0
17 TraesCS7A01G199400 chr7B 82.895 152 17 5 1397 1547 123284807 123284664 7.010000e-26 128.0
18 TraesCS7A01G199400 chr7B 96.970 66 2 0 1397 1462 123288024 123287959 7.060000e-21 111.0
19 TraesCS7A01G199400 chr7D 87.161 958 74 15 446 1399 161058117 161057205 0.000000e+00 1042.0
20 TraesCS7A01G199400 chr7D 82.772 1010 85 50 417 1398 161040829 161039881 0.000000e+00 819.0
21 TraesCS7A01G199400 chr7D 78.323 978 103 51 439 1398 161061356 161060470 4.570000e-147 531.0
22 TraesCS7A01G199400 chr7D 84.513 226 29 4 1179 1398 160979544 160979319 4.040000e-53 219.0
23 TraesCS7A01G199400 chr7D 88.344 163 3 4 1397 1547 161039839 161039681 5.300000e-42 182.0
24 TraesCS7A01G199400 chr7D 81.579 152 19 5 1397 1547 161057164 161057021 1.520000e-22 117.0
25 TraesCS7A01G199400 chr6B 82.949 217 27 10 2 214 61363167 61362957 1.140000e-43 187.0
26 TraesCS7A01G199400 chr4D 80.631 222 38 5 2 223 73598892 73598676 1.490000e-37 167.0
27 TraesCS7A01G199400 chr3D 97.297 37 1 0 243 279 560115328 560115292 2.000000e-06 63.9
28 TraesCS7A01G199400 chr2D 100.000 30 0 0 245 274 44815524 44815495 3.350000e-04 56.5


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 TraesCS7A01G199400 chr7A 162413121 162415535 2414 True 4460.000000 4460 100.000000 1 2415 1 chr7A.!!$R1 2414
1 TraesCS7A01G199400 chr7A 162453786 162454896 1110 True 367.000000 608 80.766000 433 1547 2 chr7A.!!$R3 1114
2 TraesCS7A01G199400 chr7A 162400227 162401507 1280 True 363.000000 496 85.820000 7 1398 2 chr7A.!!$R2 1391
3 TraesCS7A01G199400 chr4A 739031513 739032365 852 True 1482.000000 1482 98.009000 1546 2399 1 chr4A.!!$R1 853
4 TraesCS7A01G199400 chr2A 575680395 575681253 858 False 1476.000000 1476 97.672000 1541 2399 1 chr2A.!!$F1 858
5 TraesCS7A01G199400 chr2A 748456008 748456866 858 True 1467.000000 1467 97.445000 1539 2399 1 chr2A.!!$R1 860
6 TraesCS7A01G199400 chr6A 84702627 84703481 854 True 1474.000000 1474 97.780000 1544 2399 1 chr6A.!!$R1 855
7 TraesCS7A01G199400 chr3A 734454581 734455455 874 False 1474.000000 1474 97.035000 1523 2399 1 chr3A.!!$F1 876
8 TraesCS7A01G199400 chr3A 446478191 446479047 856 True 1469.000000 1469 97.558000 1540 2399 1 chr3A.!!$R1 859
9 TraesCS7A01G199400 chr2B 656970052 656970905 853 False 1472.000000 1472 97.778000 1545 2399 1 chr2B.!!$F1 854
10 TraesCS7A01G199400 chr1B 69840620 69841473 853 False 1472.000000 1472 97.778000 1545 2399 1 chr1B.!!$F1 854
11 TraesCS7A01G199400 chr3B 658516452 658517301 849 True 1465.000000 1465 97.765000 1550 2399 1 chr3B.!!$R1 849
12 TraesCS7A01G199400 chr7B 123284664 123288986 4322 True 480.750000 1050 86.752250 433 1547 4 chr7B.!!$R2 1114
13 TraesCS7A01G199400 chr7D 161057021 161061356 4335 True 563.333333 1042 82.354333 439 1547 3 chr7D.!!$R3 1108
14 TraesCS7A01G199400 chr7D 161039681 161040829 1148 True 500.500000 819 85.558000 417 1547 2 chr7D.!!$R2 1130

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
550 596 0.178944 TTGGTCTTCCGGAGTCAGGA 60.179 55.0 8.06 8.06 36.3 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1659 8409 0.031111 TAGCTATGGACAGGGGTGCT 60.031 55.0 0.0 0.0 36.16 4.4 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
21 22 2.325583 ACACTTTGACCATGACACGT 57.674 45.000 0.00 0.00 0.00 4.49
48 49 4.399934 TGTATGATGTAGTGTACGCTCCAA 59.600 41.667 13.25 0.00 0.00 3.53
51 52 3.257375 TGATGTAGTGTACGCTCCAAGTT 59.743 43.478 13.25 0.00 0.00 2.66
99 100 8.651389 CCTATGATTTACTTATGTCCTTCTCCA 58.349 37.037 0.00 0.00 0.00 3.86
123 124 7.596248 CCAAACTAACCAATCTCAGACATTTTG 59.404 37.037 0.00 0.00 0.00 2.44
232 233 4.419200 AGTGTCTGTATATCTACTCCCCCA 59.581 45.833 0.00 0.00 0.00 4.96
243 244 8.940012 ATATCTACTCCCCCATCTCAAAATAT 57.060 34.615 0.00 0.00 0.00 1.28
302 307 6.348540 GGATTAATATCTTCATGCGTTCCCAC 60.349 42.308 0.00 0.00 0.00 4.61
318 323 1.878522 CACGATGACTAGCACCGCC 60.879 63.158 1.44 0.00 0.00 6.13
320 325 2.786495 CGATGACTAGCACCGCCCT 61.786 63.158 0.00 0.00 0.00 5.19
377 405 1.187087 TCACGTTGGCAAAAGGGTTT 58.813 45.000 0.00 0.00 0.00 3.27
380 408 2.359531 CACGTTGGCAAAAGGGTTTCTA 59.640 45.455 0.00 0.00 0.00 2.10
524 570 2.361119 CGATCGAGACCTACCATCCAAA 59.639 50.000 10.26 0.00 0.00 3.28
527 573 1.553248 CGAGACCTACCATCCAAACCA 59.447 52.381 0.00 0.00 0.00 3.67
550 596 0.178944 TTGGTCTTCCGGAGTCAGGA 60.179 55.000 8.06 8.06 36.30 3.86
553 599 0.612453 GTCTTCCGGAGTCAGGAGGT 60.612 60.000 18.59 0.00 39.22 3.85
558 604 2.284995 GGAGTCAGGAGGTGGCCT 60.285 66.667 3.32 0.00 39.37 5.19
601 647 2.266055 CCTGTGTCCGGGCTCTTC 59.734 66.667 7.97 0.00 0.00 2.87
602 648 2.125912 CTGTGTCCGGGCTCTTCG 60.126 66.667 7.97 0.00 0.00 3.79
603 649 2.915659 TGTGTCCGGGCTCTTCGT 60.916 61.111 7.97 0.00 0.00 3.85
604 650 2.126031 GTGTCCGGGCTCTTCGTC 60.126 66.667 7.97 0.00 0.00 4.20
605 651 3.744719 TGTCCGGGCTCTTCGTCG 61.745 66.667 7.97 0.00 0.00 5.12
606 652 3.437795 GTCCGGGCTCTTCGTCGA 61.438 66.667 0.00 0.00 0.00 4.20
607 653 2.674033 TCCGGGCTCTTCGTCGAA 60.674 61.111 7.57 7.57 0.00 3.71
608 654 2.050350 TCCGGGCTCTTCGTCGAAT 61.050 57.895 8.36 0.00 0.00 3.34
609 655 1.153628 CCGGGCTCTTCGTCGAATT 60.154 57.895 8.36 0.00 0.00 2.17
610 656 1.146358 CCGGGCTCTTCGTCGAATTC 61.146 60.000 8.36 0.00 0.00 2.17
611 657 0.179134 CGGGCTCTTCGTCGAATTCT 60.179 55.000 8.36 0.00 0.00 2.40
612 658 1.562017 GGGCTCTTCGTCGAATTCTC 58.438 55.000 8.36 0.00 0.00 2.87
613 659 1.135333 GGGCTCTTCGTCGAATTCTCT 59.865 52.381 8.36 0.00 0.00 3.10
614 660 2.358267 GGGCTCTTCGTCGAATTCTCTA 59.642 50.000 8.36 0.00 0.00 2.43
615 661 3.004944 GGGCTCTTCGTCGAATTCTCTAT 59.995 47.826 8.36 0.00 0.00 1.98
616 662 3.978217 GGCTCTTCGTCGAATTCTCTATG 59.022 47.826 8.36 0.00 0.00 2.23
617 663 3.423867 GCTCTTCGTCGAATTCTCTATGC 59.576 47.826 8.36 1.41 0.00 3.14
618 664 3.618698 TCTTCGTCGAATTCTCTATGCG 58.381 45.455 8.36 0.00 36.56 4.73
619 665 1.755161 TCGTCGAATTCTCTATGCGC 58.245 50.000 0.00 0.00 35.10 6.09
620 666 1.064952 TCGTCGAATTCTCTATGCGCA 59.935 47.619 14.96 14.96 35.10 6.09
621 667 1.188138 CGTCGAATTCTCTATGCGCAC 59.812 52.381 14.90 0.00 35.10 5.34
622 668 2.193447 GTCGAATTCTCTATGCGCACA 58.807 47.619 14.90 0.00 35.10 4.57
623 669 2.217393 GTCGAATTCTCTATGCGCACAG 59.783 50.000 14.90 12.28 35.10 3.66
624 670 2.159240 TCGAATTCTCTATGCGCACAGT 60.159 45.455 14.90 0.00 35.10 3.55
625 671 3.066203 TCGAATTCTCTATGCGCACAGTA 59.934 43.478 14.90 3.13 35.10 2.74
626 672 3.180584 CGAATTCTCTATGCGCACAGTAC 59.819 47.826 14.90 0.00 0.00 2.73
773 867 0.729690 GTACTGCCTGCTAGCTTTGC 59.270 55.000 17.23 15.45 0.00 3.68
780 874 3.627577 TGCCTGCTAGCTTTGCTATAAAC 59.372 43.478 17.23 0.00 40.54 2.01
869 991 0.532862 AAATCCGGCCTGTAGCATCG 60.533 55.000 0.00 0.00 46.50 3.84
873 995 2.494918 GGCCTGTAGCATCGTCGT 59.505 61.111 0.00 0.00 46.50 4.34
886 1008 4.396854 GTCGTAGGTGCATCGACC 57.603 61.111 18.61 4.55 45.08 4.79
890 1012 2.165301 GTAGGTGCATCGACCGTGC 61.165 63.158 0.00 2.50 41.35 5.34
894 1016 2.264166 TGCATCGACCGTGCATGA 59.736 55.556 7.72 0.00 46.76 3.07
895 1017 1.153389 TGCATCGACCGTGCATGAT 60.153 52.632 7.72 0.00 46.76 2.45
896 1018 1.153597 TGCATCGACCGTGCATGATC 61.154 55.000 7.72 0.00 46.76 2.92
898 1020 1.602920 GCATCGACCGTGCATGATCTA 60.603 52.381 7.72 0.00 42.08 1.98
899 1021 2.323059 CATCGACCGTGCATGATCTAG 58.677 52.381 7.72 0.00 0.00 2.43
900 1022 1.389555 TCGACCGTGCATGATCTAGT 58.610 50.000 7.72 0.00 0.00 2.57
902 1024 1.335182 CGACCGTGCATGATCTAGTCT 59.665 52.381 7.72 0.00 0.00 3.24
903 1025 2.548480 CGACCGTGCATGATCTAGTCTA 59.452 50.000 7.72 0.00 0.00 2.59
919 1045 6.761312 TCTAGTCTACTAGTGCTCTATGGTC 58.239 44.000 15.06 0.00 44.74 4.02
956 1088 2.379005 TGACAGACGCTATCCATCACT 58.621 47.619 0.00 0.00 0.00 3.41
1003 1142 2.106332 CCGCGATGGTGACCCTAC 59.894 66.667 8.23 0.00 0.00 3.18
1008 1147 2.755650 GCGATGGTGACCCTACATAAG 58.244 52.381 0.00 0.00 0.00 1.73
1013 1152 1.287425 GTGACCCTACATAAGCGCAC 58.713 55.000 11.47 0.00 0.00 5.34
1043 1185 1.080093 GAACGTCTCATCCACCGCA 60.080 57.895 0.00 0.00 0.00 5.69
1087 1233 2.125350 GCAGCCAGCTAGCGTTCT 60.125 61.111 9.55 4.46 41.15 3.01
1088 1234 2.170434 GCAGCCAGCTAGCGTTCTC 61.170 63.158 9.55 0.00 41.15 2.87
1089 1235 1.216444 CAGCCAGCTAGCGTTCTCA 59.784 57.895 9.55 0.00 38.01 3.27
1090 1236 0.390340 CAGCCAGCTAGCGTTCTCAA 60.390 55.000 9.55 0.00 38.01 3.02
1091 1237 0.390472 AGCCAGCTAGCGTTCTCAAC 60.390 55.000 9.55 0.00 38.01 3.18
1092 1238 0.670546 GCCAGCTAGCGTTCTCAACA 60.671 55.000 9.55 0.00 0.00 3.33
1093 1239 1.795768 CCAGCTAGCGTTCTCAACAA 58.204 50.000 9.55 0.00 0.00 2.83
1094 1240 2.143122 CCAGCTAGCGTTCTCAACAAA 58.857 47.619 9.55 0.00 0.00 2.83
1095 1241 2.548057 CCAGCTAGCGTTCTCAACAAAA 59.452 45.455 9.55 0.00 0.00 2.44
1096 1242 3.003275 CCAGCTAGCGTTCTCAACAAAAA 59.997 43.478 9.55 0.00 0.00 1.94
1145 1340 5.661312 TCGATTGATAGAAGAGGAGGGAAAA 59.339 40.000 0.00 0.00 0.00 2.29
1215 4676 3.495100 GCCGGTAATGTTCCTGATGATCT 60.495 47.826 1.90 0.00 0.00 2.75
1476 8226 7.497595 TGATTCGTGGCTCTTATGTATTTAGT 58.502 34.615 0.00 0.00 0.00 2.24
1478 8228 9.130312 GATTCGTGGCTCTTATGTATTTAGTAG 57.870 37.037 0.00 0.00 0.00 2.57
1479 8229 7.812690 TCGTGGCTCTTATGTATTTAGTAGA 57.187 36.000 0.00 0.00 0.00 2.59
1480 8230 8.229253 TCGTGGCTCTTATGTATTTAGTAGAA 57.771 34.615 0.00 0.00 0.00 2.10
1481 8231 8.857098 TCGTGGCTCTTATGTATTTAGTAGAAT 58.143 33.333 0.00 0.00 0.00 2.40
1482 8232 9.130312 CGTGGCTCTTATGTATTTAGTAGAATC 57.870 37.037 0.00 0.00 0.00 2.52
1563 8313 9.869844 CTCAAAATACAACAAACAACAACAAAA 57.130 25.926 0.00 0.00 0.00 2.44
1644 8394 0.107361 CTCATGGCTCTGGCACATGA 60.107 55.000 15.19 15.19 45.03 3.07
1659 8409 3.119388 GCACATGAATAGCAAGCTTCCAA 60.119 43.478 0.00 0.00 0.00 3.53
1727 8477 3.090790 GGTCTCTCTTAACGGACTCCTT 58.909 50.000 0.00 0.00 0.00 3.36
1771 8521 1.836802 GCCCTCTCTTGACATTCTCCT 59.163 52.381 0.00 0.00 0.00 3.69
1787 8537 1.215647 CCTCACGCTTTAGCCGTCT 59.784 57.895 0.00 0.00 37.91 4.18
2073 8823 2.754472 CCTTTTAGCTTTTGTGGCACC 58.246 47.619 16.26 0.00 0.00 5.01
2087 8837 0.108585 GGCACCCTCTTGTCACAGAA 59.891 55.000 0.00 0.00 0.00 3.02
2159 8909 5.440610 GTTCACATCTTCATCAATACCCCT 58.559 41.667 0.00 0.00 0.00 4.79
2297 9047 9.070149 CATGTACTCGGTTTTAGTTCTACTAAC 57.930 37.037 0.00 0.00 40.12 2.34
2357 9107 2.723322 AACTTCCTATTTACCCCCGC 57.277 50.000 0.00 0.00 0.00 6.13
2409 9159 3.494309 GCAAAGAGCAAAAGAAAAGCG 57.506 42.857 0.00 0.00 44.79 4.68
2410 9160 2.219445 GCAAAGAGCAAAAGAAAAGCGG 59.781 45.455 0.00 0.00 44.79 5.52
2411 9161 2.796593 CAAAGAGCAAAAGAAAAGCGGG 59.203 45.455 0.00 0.00 0.00 6.13
2412 9162 1.692411 AGAGCAAAAGAAAAGCGGGT 58.308 45.000 0.00 0.00 0.00 5.28
2413 9163 1.338020 AGAGCAAAAGAAAAGCGGGTG 59.662 47.619 0.00 0.00 0.00 4.61
2414 9164 1.336755 GAGCAAAAGAAAAGCGGGTGA 59.663 47.619 0.00 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.745975 CACGTGTCATGGTCAAAGTGTAT 59.254 43.478 7.58 0.00 0.00 2.29
3 4 2.209273 TCACGTGTCATGGTCAAAGTG 58.791 47.619 16.51 15.19 0.00 3.16
4 5 2.613026 TCACGTGTCATGGTCAAAGT 57.387 45.000 16.51 0.00 0.00 2.66
5 6 3.250762 ACATTCACGTGTCATGGTCAAAG 59.749 43.478 24.67 8.55 0.00 2.77
14 15 5.804979 CACTACATCATACATTCACGTGTCA 59.195 40.000 16.51 3.88 33.62 3.58
21 22 6.144078 AGCGTACACTACATCATACATTCA 57.856 37.500 0.00 0.00 0.00 2.57
48 49 9.002600 GGCAAAATTCAGAAAAATAATCCAACT 57.997 29.630 0.00 0.00 0.00 3.16
71 72 8.034313 AGAAGGACATAAGTAAATCATAGGCA 57.966 34.615 0.00 0.00 0.00 4.75
72 73 7.604545 GGAGAAGGACATAAGTAAATCATAGGC 59.395 40.741 0.00 0.00 0.00 3.93
99 100 7.147976 GCAAAATGTCTGAGATTGGTTAGTTT 58.852 34.615 0.34 0.00 0.00 2.66
123 124 9.646427 TCATTTAACATTTACTTACCAAATGGC 57.354 29.630 11.30 0.00 44.20 4.40
210 211 4.737578 TGGGGGAGTAGATATACAGACAC 58.262 47.826 0.00 0.00 0.00 3.67
228 229 7.880160 TTTGACACTATATTTTGAGATGGGG 57.120 36.000 0.00 0.00 0.00 4.96
276 277 5.940470 GGGAACGCATGAAGATATTAATCCT 59.060 40.000 0.00 0.00 31.98 3.24
318 323 7.820578 ACTACTATACTAGCTGTAAACCAGG 57.179 40.000 0.00 0.00 41.81 4.45
396 424 8.235359 ACTAGTACTATTTGTGTAGTCATCCC 57.765 38.462 2.33 0.00 36.39 3.85
527 573 0.531200 GACTCCGGAAGACCAACGAT 59.469 55.000 5.23 0.00 35.59 3.73
538 584 2.037367 CCACCTCCTGACTCCGGA 59.963 66.667 2.93 2.93 0.00 5.14
558 604 2.347114 CACGATCAGGTGGTGGCA 59.653 61.111 0.00 0.00 33.39 4.92
586 632 2.915659 ACGAAGAGCCCGGACACA 60.916 61.111 0.73 0.00 0.00 3.72
595 641 3.423867 GCATAGAGAATTCGACGAAGAGC 59.576 47.826 16.40 7.60 0.00 4.09
596 642 3.661728 CGCATAGAGAATTCGACGAAGAG 59.338 47.826 16.40 0.00 0.00 2.85
598 644 2.152112 GCGCATAGAGAATTCGACGAAG 59.848 50.000 16.40 0.82 0.00 3.79
600 646 1.064952 TGCGCATAGAGAATTCGACGA 59.935 47.619 5.66 0.00 0.00 4.20
601 647 1.188138 GTGCGCATAGAGAATTCGACG 59.812 52.381 15.91 0.00 0.00 5.12
602 648 2.193447 TGTGCGCATAGAGAATTCGAC 58.807 47.619 15.91 0.00 0.00 4.20
603 649 2.159240 ACTGTGCGCATAGAGAATTCGA 60.159 45.455 36.45 0.00 0.00 3.71
604 650 2.196749 ACTGTGCGCATAGAGAATTCG 58.803 47.619 36.45 12.26 0.00 3.34
605 651 3.491267 GGTACTGTGCGCATAGAGAATTC 59.509 47.826 36.45 19.03 0.00 2.17
606 652 3.118775 TGGTACTGTGCGCATAGAGAATT 60.119 43.478 36.45 18.59 0.00 2.17
607 653 2.430694 TGGTACTGTGCGCATAGAGAAT 59.569 45.455 36.45 18.95 0.00 2.40
608 654 1.822371 TGGTACTGTGCGCATAGAGAA 59.178 47.619 36.45 19.89 0.00 2.87
609 655 1.470051 TGGTACTGTGCGCATAGAGA 58.530 50.000 36.45 22.11 0.00 3.10
610 656 2.515926 ATGGTACTGTGCGCATAGAG 57.484 50.000 36.45 23.35 0.00 2.43
611 657 2.430694 AGAATGGTACTGTGCGCATAGA 59.569 45.455 36.45 19.26 0.00 1.98
612 658 2.541346 CAGAATGGTACTGTGCGCATAG 59.459 50.000 29.73 29.73 0.00 2.23
613 659 2.167487 TCAGAATGGTACTGTGCGCATA 59.833 45.455 15.91 10.94 36.16 3.14
614 660 1.066215 TCAGAATGGTACTGTGCGCAT 60.066 47.619 15.91 0.00 36.16 4.73
615 661 0.320050 TCAGAATGGTACTGTGCGCA 59.680 50.000 5.66 5.66 36.16 6.09
616 662 1.002366 CTCAGAATGGTACTGTGCGC 58.998 55.000 0.00 0.00 36.16 6.09
617 663 1.002366 GCTCAGAATGGTACTGTGCG 58.998 55.000 0.00 0.00 42.11 5.34
618 664 1.339055 TGGCTCAGAATGGTACTGTGC 60.339 52.381 0.00 0.00 46.88 4.57
619 665 2.768253 TGGCTCAGAATGGTACTGTG 57.232 50.000 0.00 0.00 36.16 3.66
620 666 2.840038 TGATGGCTCAGAATGGTACTGT 59.160 45.455 0.00 0.00 36.16 3.55
621 667 3.201290 GTGATGGCTCAGAATGGTACTG 58.799 50.000 0.00 0.00 36.16 2.74
622 668 2.840038 TGTGATGGCTCAGAATGGTACT 59.160 45.455 0.00 0.00 36.16 2.73
623 669 3.266510 TGTGATGGCTCAGAATGGTAC 57.733 47.619 0.00 0.00 36.16 3.34
624 670 4.040829 CCTATGTGATGGCTCAGAATGGTA 59.959 45.833 0.00 0.00 36.16 3.25
625 671 3.181447 CCTATGTGATGGCTCAGAATGGT 60.181 47.826 0.00 0.00 36.16 3.55
626 672 3.072038 TCCTATGTGATGGCTCAGAATGG 59.928 47.826 0.00 0.00 36.16 3.16
738 829 7.306632 GCAGGCAGTACTGATTAACTAATAACG 60.307 40.741 27.08 4.32 40.97 3.18
741 832 7.361457 AGCAGGCAGTACTGATTAACTAATA 57.639 36.000 27.08 0.00 40.97 0.98
780 874 8.763049 TGCATAGCTATAGCAGTACTATTTTG 57.237 34.615 26.07 9.40 41.91 2.44
873 995 2.183300 GCACGGTCGATGCACCTA 59.817 61.111 4.64 0.00 42.88 3.08
886 1008 5.684850 CACTAGTAGACTAGATCATGCACG 58.315 45.833 20.91 0.00 46.80 5.34
890 1012 8.882736 CATAGAGCACTAGTAGACTAGATCATG 58.117 40.741 20.91 10.96 46.80 3.07
891 1013 8.046708 CCATAGAGCACTAGTAGACTAGATCAT 58.953 40.741 20.91 6.09 46.80 2.45
893 1015 7.391620 ACCATAGAGCACTAGTAGACTAGATC 58.608 42.308 20.91 14.92 46.80 2.75
894 1016 7.324388 ACCATAGAGCACTAGTAGACTAGAT 57.676 40.000 20.91 8.21 46.80 1.98
895 1017 6.239657 GGACCATAGAGCACTAGTAGACTAGA 60.240 46.154 20.91 0.63 46.80 2.43
898 1020 4.166337 TGGACCATAGAGCACTAGTAGACT 59.834 45.833 3.59 0.46 31.78 3.24
899 1021 4.462133 TGGACCATAGAGCACTAGTAGAC 58.538 47.826 3.59 0.00 31.78 2.59
900 1022 4.790718 TGGACCATAGAGCACTAGTAGA 57.209 45.455 3.59 0.00 31.78 2.59
902 1024 3.574396 GCATGGACCATAGAGCACTAGTA 59.426 47.826 6.67 0.00 31.78 1.82
903 1025 2.366916 GCATGGACCATAGAGCACTAGT 59.633 50.000 6.67 0.00 31.78 2.57
919 1045 0.178767 TCATGACGAGGGAAGCATGG 59.821 55.000 0.00 0.00 38.82 3.66
948 1078 6.932960 CAGAAGTGATATTGCATAGTGATGGA 59.067 38.462 0.00 0.00 33.26 3.41
956 1088 4.335400 TCCGCAGAAGTGATATTGCATA 57.665 40.909 0.00 0.00 36.37 3.14
998 1137 2.244651 GCCGTGCGCTTATGTAGGG 61.245 63.158 9.73 2.89 39.69 3.53
1003 1142 3.876198 GGTGGCCGTGCGCTTATG 61.876 66.667 9.73 0.00 37.74 1.90
1013 1152 4.715523 ACGTTCCATGGGTGGCCG 62.716 66.667 13.02 9.59 45.63 6.13
1043 1185 4.336153 ACAAACGAACGAATTAACTTGGGT 59.664 37.500 0.14 0.00 0.00 4.51
1125 1271 4.536090 TGCTTTTCCCTCCTCTTCTATCAA 59.464 41.667 0.00 0.00 0.00 2.57
1215 4676 1.153329 ACACGGCGAAGAACACCAA 60.153 52.632 16.62 0.00 0.00 3.67
1308 7992 3.825160 TTTGCCGGAGAAGCAGCGT 62.825 57.895 5.05 0.00 42.17 5.07
1312 7996 1.448985 GTACATTTGCCGGAGAAGCA 58.551 50.000 5.05 0.00 38.81 3.91
1476 8226 9.999660 CACCACTATCTAGTACAGTAGATTCTA 57.000 37.037 10.98 0.00 39.86 2.10
1478 8228 8.680039 ACACCACTATCTAGTACAGTAGATTC 57.320 38.462 10.98 0.00 39.86 2.52
1479 8229 9.122779 GAACACCACTATCTAGTACAGTAGATT 57.877 37.037 10.98 0.00 39.86 2.40
1480 8230 8.496088 AGAACACCACTATCTAGTACAGTAGAT 58.504 37.037 10.62 10.62 41.67 1.98
1481 8231 7.859540 AGAACACCACTATCTAGTACAGTAGA 58.140 38.462 0.00 0.00 34.13 2.59
1482 8232 8.508883 AAGAACACCACTATCTAGTACAGTAG 57.491 38.462 0.00 0.00 34.13 2.57
1484 8234 7.670559 AGAAAGAACACCACTATCTAGTACAGT 59.329 37.037 0.00 0.00 34.13 3.55
1485 8235 7.971168 CAGAAAGAACACCACTATCTAGTACAG 59.029 40.741 0.00 0.00 34.13 2.74
1486 8236 7.450634 ACAGAAAGAACACCACTATCTAGTACA 59.549 37.037 0.00 0.00 34.13 2.90
1591 8341 7.472100 CGAGATCTTATGGGTTTCACCTCTAAT 60.472 40.741 0.00 0.00 38.64 1.73
1592 8342 6.183360 CGAGATCTTATGGGTTTCACCTCTAA 60.183 42.308 0.00 0.00 38.64 2.10
1659 8409 0.031111 TAGCTATGGACAGGGGTGCT 60.031 55.000 0.00 0.00 36.16 4.40
1727 8477 2.343101 GTCGACCGATTTTGACATGGA 58.657 47.619 3.51 0.00 31.01 3.41
1771 8521 1.736645 GCAGACGGCTAAAGCGTGA 60.737 57.895 0.00 0.00 43.26 4.35
1787 8537 0.907486 AGAAGCTCCAGTGCATAGCA 59.093 50.000 13.50 0.00 38.75 3.49
2073 8823 2.886523 TGGCATTTTCTGTGACAAGAGG 59.113 45.455 0.00 0.00 30.04 3.69
2159 8909 3.330701 GGGGTCAATATTGCAGGAGGATA 59.669 47.826 10.76 0.00 0.00 2.59
2297 9047 3.359695 TGGAATCGAAAGGGTTTAGGG 57.640 47.619 0.00 0.00 0.00 3.53


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

AutoCloner maintained by Alex Coulton.