Multiple sequence alignment - TraesCS7B01G432300

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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 TraesCS7B01G432300 chr7B 100.000 4320 0 0 609 4928 700396281 700391962 0.000000e+00 7978
1 TraesCS7B01G432300 chr7B 89.740 3538 267 40 666 4148 701868870 701872366 0.000000e+00 4434
2 TraesCS7B01G432300 chr7B 92.197 346 12 7 4294 4636 655976208 655976541 4.460000e-130 475
3 TraesCS7B01G432300 chr7B 92.923 325 9 6 4315 4636 685715244 685715557 1.250000e-125 460
4 TraesCS7B01G432300 chr7B 92.879 323 8 7 4317 4636 65475503 65475813 5.820000e-124 455
5 TraesCS7B01G432300 chr7B 100.000 207 0 0 1 207 700396889 700396683 2.780000e-102 383
6 TraesCS7B01G432300 chr7B 90.945 254 20 3 4386 4636 700385151 700384898 6.110000e-89 339
7 TraesCS7B01G432300 chr7B 89.697 165 14 2 4766 4928 700382291 700382128 1.800000e-49 207
8 TraesCS7B01G432300 chr7B 91.346 104 9 0 4681 4784 556741339 556741442 5.140000e-30 143
9 TraesCS7B01G432300 chr7B 90.566 106 7 2 4680 4783 70489009 70488905 2.390000e-28 137
10 TraesCS7B01G432300 chr7D 94.214 4010 169 24 646 4636 611235534 611231569 0.000000e+00 6061
11 TraesCS7B01G432300 chr7D 91.121 3300 240 26 859 4148 612436526 612439782 0.000000e+00 4421
12 TraesCS7B01G432300 chr7D 97.531 162 2 2 4767 4928 611223749 611223590 4.860000e-70 276
13 TraesCS7B01G432300 chr7D 94.898 98 3 2 4679 4775 311872937 311872841 8.540000e-33 152
14 TraesCS7B01G432300 chr7A 93.918 4012 192 20 654 4636 701274918 701270930 0.000000e+00 6010
15 TraesCS7B01G432300 chr7A 90.993 3264 245 22 894 4148 702978633 702975410 0.000000e+00 4353
16 TraesCS7B01G432300 chr7A 90.878 296 22 5 4344 4636 701265789 701265496 4.620000e-105 392
17 TraesCS7B01G432300 chr7A 88.066 243 28 1 4246 4488 701198057 701197816 2.240000e-73 287
18 TraesCS7B01G432300 chr7A 93.130 131 1 3 78 207 701275448 701275325 8.420000e-43 185
19 TraesCS7B01G432300 chr7A 97.778 90 2 0 4680 4769 56211039 56210950 6.600000e-34 156
20 TraesCS7B01G432300 chr3B 92.174 345 12 7 4294 4635 32684171 32684503 1.610000e-129 473
21 TraesCS7B01G432300 chr3B 92.373 118 9 0 4765 4882 32684580 32684697 8.480000e-38 169
22 TraesCS7B01G432300 chr3B 92.373 118 9 0 4765 4882 720581781 720581898 8.480000e-38 169
23 TraesCS7B01G432300 chr3B 97.778 90 2 0 4681 4770 495236290 495236201 6.600000e-34 156
24 TraesCS7B01G432300 chr1B 92.582 337 10 7 4303 4636 662956324 662956000 2.080000e-128 470
25 TraesCS7B01G432300 chr1B 92.879 323 8 7 4317 4636 615534303 615534613 5.820000e-124 455
26 TraesCS7B01G432300 chr1B 91.691 337 13 7 4303 4636 122599083 122598759 2.090000e-123 453
27 TraesCS7B01G432300 chr1B 90.400 125 10 2 4765 4889 71447452 71447330 3.950000e-36 163
28 TraesCS7B01G432300 chr1B 90.400 125 10 2 4765 4889 122598683 122598561 3.950000e-36 163
29 TraesCS7B01G432300 chr2B 91.329 346 15 7 4294 4636 300401294 300401627 4.500000e-125 459
30 TraesCS7B01G432300 chr2B 91.329 346 14 8 4294 4636 335579737 335580069 4.500000e-125 459
31 TraesCS7B01G432300 chr2B 93.684 95 6 0 4681 4775 397449918 397449824 5.140000e-30 143
32 TraesCS7B01G432300 chr2B 90.654 107 7 3 4679 4782 383927928 383927822 6.650000e-29 139
33 TraesCS7B01G432300 chr5B 92.570 323 9 7 4317 4636 9025308 9025618 2.710000e-122 449
34 TraesCS7B01G432300 chr5B 91.200 125 9 2 4765 4889 695582092 695581970 8.480000e-38 169
35 TraesCS7B01G432300 chr3A 94.652 187 10 0 988 1174 152001010 152000824 1.740000e-74 291
36 TraesCS7B01G432300 chr6B 91.200 125 9 2 4765 4889 87469867 87469745 8.480000e-38 169
37 TraesCS7B01G432300 chr6B 91.200 125 8 3 4765 4889 670923939 670923818 3.050000e-37 167
38 TraesCS7B01G432300 chr2D 97.778 90 2 0 4680 4769 538926859 538926770 6.600000e-34 156
39 TraesCS7B01G432300 chr2D 91.509 106 5 3 4679 4780 465572952 465573057 5.140000e-30 143
40 TraesCS7B01G432300 chr4D 93.878 98 5 1 4677 4774 9296464 9296560 3.980000e-31 147
41 TraesCS7B01G432300 chr4B 92.079 101 8 0 4666 4766 585960614 585960714 5.140000e-30 143
42 TraesCS7B01G432300 chr4A 92.857 98 7 0 4679 4776 207366978 207366881 5.140000e-30 143
43 TraesCS7B01G432300 chr1D 91.089 101 9 0 4675 4775 471289933 471290033 2.390000e-28 137


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 TraesCS7B01G432300 chr7B 700391962 700396889 4927 True 4180.5 7978 100.0000 1 4928 2 chr7B.!!$R3 4927
1 TraesCS7B01G432300 chr7B 701868870 701872366 3496 False 4434.0 4434 89.7400 666 4148 1 chr7B.!!$F5 3482
2 TraesCS7B01G432300 chr7B 700382128 700385151 3023 True 273.0 339 90.3210 4386 4928 2 chr7B.!!$R2 542
3 TraesCS7B01G432300 chr7D 611231569 611235534 3965 True 6061.0 6061 94.2140 646 4636 1 chr7D.!!$R3 3990
4 TraesCS7B01G432300 chr7D 612436526 612439782 3256 False 4421.0 4421 91.1210 859 4148 1 chr7D.!!$F1 3289
5 TraesCS7B01G432300 chr7A 702975410 702978633 3223 True 4353.0 4353 90.9930 894 4148 1 chr7A.!!$R4 3254
6 TraesCS7B01G432300 chr7A 701270930 701275448 4518 True 3097.5 6010 93.5240 78 4636 2 chr7A.!!$R5 4558
7 TraesCS7B01G432300 chr3B 32684171 32684697 526 False 321.0 473 92.2735 4294 4882 2 chr3B.!!$F2 588
8 TraesCS7B01G432300 chr1B 122598561 122599083 522 True 308.0 453 91.0455 4303 4889 2 chr1B.!!$R3 586

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
76 77 2.053277 GTCGTCCCCAGGTCTCTCC 61.053 68.421 0.00 0.00 0.00 3.71 F
1569 2033 2.162681 GATTACCCTGCACAGTGCTTT 58.837 47.619 25.83 10.03 45.31 3.51 F
2427 2891 0.676782 GGAACATCCCCTGTGGTTCG 60.677 60.000 0.00 0.00 40.30 3.95 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1748 2212 0.700564 ATGGCATGTGGTGACCTTCT 59.299 50.000 2.11 0.0 33.64 2.85 R
2548 3012 1.533994 AAACTTTGCCCCCAGAGCC 60.534 57.895 0.00 0.0 0.00 4.70 R
4207 4694 0.523072 GCACATTCCGTCAATGCAGT 59.477 50.000 0.00 0.0 45.37 4.40 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
67 68 4.137872 GATTCGCCGTCGTCCCCA 62.138 66.667 0.00 0.00 36.96 4.96
68 69 4.143333 ATTCGCCGTCGTCCCCAG 62.143 66.667 0.00 0.00 36.96 4.45
73 74 3.450115 CCGTCGTCCCCAGGTCTC 61.450 72.222 0.00 0.00 0.00 3.36
74 75 2.361357 CGTCGTCCCCAGGTCTCT 60.361 66.667 0.00 0.00 0.00 3.10
75 76 2.408241 CGTCGTCCCCAGGTCTCTC 61.408 68.421 0.00 0.00 0.00 3.20
76 77 2.053277 GTCGTCCCCAGGTCTCTCC 61.053 68.421 0.00 0.00 0.00 3.71
148 149 4.845307 TCCACCCACCACCCACCA 62.845 66.667 0.00 0.00 0.00 4.17
159 160 4.424711 CCCACCACCACATCCCCG 62.425 72.222 0.00 0.00 0.00 5.73
727 1107 2.922503 CCAACCCAAACCCTGCCC 60.923 66.667 0.00 0.00 0.00 5.36
1470 1934 4.927782 GTCACGTGTGGGCAGCCA 62.928 66.667 15.19 0.00 0.00 4.75
1473 1937 4.269523 ACGTGTGGGCAGCCATGT 62.270 61.111 15.19 0.90 0.00 3.21
1569 2033 2.162681 GATTACCCTGCACAGTGCTTT 58.837 47.619 25.83 10.03 45.31 3.51
1748 2212 2.666190 GTGCGAGCTTGTGCCAGA 60.666 61.111 2.14 0.00 40.80 3.86
1896 2360 0.955428 GCACGTGCCATGAAGGAGAA 60.955 55.000 30.12 0.00 41.22 2.87
2220 2684 6.145209 GTGAGACCATATTCAATGATCTCACG 59.855 42.308 20.96 0.00 46.69 4.35
2391 2855 1.067565 GTCATGAGAGAGTGCGTTGGA 60.068 52.381 0.00 0.00 0.00 3.53
2404 2868 0.729116 CGTTGGAGGACATGTGATGC 59.271 55.000 1.15 0.00 0.00 3.91
2418 2882 2.092429 TGTGATGCTAAGGAACATCCCC 60.092 50.000 0.00 0.00 41.63 4.81
2427 2891 0.676782 GGAACATCCCCTGTGGTTCG 60.677 60.000 0.00 0.00 40.30 3.95
2548 3012 4.005650 TGCAAATGGAGAAGCTAGTTCAG 58.994 43.478 0.00 0.00 37.67 3.02
2951 3415 5.163426 TGCATTTTGGTGAGAACTCAAATGT 60.163 36.000 19.15 1.73 41.85 2.71
3027 3491 0.689623 AGGAGAGGTGCAAGTTCCTG 59.310 55.000 8.92 0.00 36.92 3.86
3086 3550 4.008074 TGAAGTTCCATGTCTTCTGTCC 57.992 45.455 17.23 0.66 40.20 4.02
3091 3555 2.269023 TCCATGTCTTCTGTCCCATGT 58.731 47.619 0.00 0.00 34.30 3.21
3274 3738 1.065418 CGGCCCATCCTTACTTTGACT 60.065 52.381 0.00 0.00 0.00 3.41
3369 3833 2.245287 AGTGTTAAGGTTTGGTGGGGAA 59.755 45.455 0.00 0.00 0.00 3.97
3565 4029 1.229951 AGAGATGGAGGGTTGGCCA 60.230 57.895 0.00 0.00 38.78 5.36
3569 4033 3.590466 ATGGAGGGTTGGCCACAGC 62.590 63.158 3.88 6.76 36.92 4.40
3583 4047 3.420606 CAGCGAGCAGTGCCAGTG 61.421 66.667 12.58 0.41 0.00 3.66
3794 4270 1.405661 CGACAAACCTAAGCCTCCTCC 60.406 57.143 0.00 0.00 0.00 4.30
3797 4273 1.909302 CAAACCTAAGCCTCCTCCTCA 59.091 52.381 0.00 0.00 0.00 3.86
3804 4280 0.042431 AGCCTCCTCCTCACACTGAT 59.958 55.000 0.00 0.00 0.00 2.90
3805 4281 0.177604 GCCTCCTCCTCACACTGATG 59.822 60.000 0.00 0.00 0.00 3.07
3807 4283 1.193323 CTCCTCCTCACACTGATGCT 58.807 55.000 0.00 0.00 0.00 3.79
3867 4343 2.594592 GCAGAACCAAGTGCCGGT 60.595 61.111 1.90 0.00 38.85 5.28
4040 4517 7.359595 TCTGTTATTTTGTCACCTTCGAATTG 58.640 34.615 0.00 0.00 0.00 2.32
4049 4526 1.702957 ACCTTCGAATTGGTTCCTGGA 59.297 47.619 0.00 0.00 31.62 3.86
4109 4587 5.069318 TGTCATGAAATAAACAGTGAGCCA 58.931 37.500 0.00 0.00 0.00 4.75
4123 4601 1.492176 TGAGCCATCCTCAGATTTCCC 59.508 52.381 0.00 0.00 45.44 3.97
4127 4605 1.227674 ATCCTCAGATTTCCCGCGC 60.228 57.895 0.00 0.00 0.00 6.86
4159 4637 0.182537 ACAGTGTTGGTTGCCTAGCA 59.817 50.000 0.00 0.00 36.47 3.49
4160 4638 1.317613 CAGTGTTGGTTGCCTAGCAA 58.682 50.000 0.00 0.00 46.80 3.91
4207 4694 9.243105 ACTTGGCTAGAAATAAATTAGCTCAAA 57.757 29.630 2.20 0.00 39.70 2.69
4217 4704 8.693542 AATAAATTAGCTCAAACTGCATTGAC 57.306 30.769 0.00 0.00 35.55 3.18
4220 4707 0.874390 GCTCAAACTGCATTGACGGA 59.126 50.000 0.00 0.00 35.55 4.69
4246 4733 5.068329 TGTGCCATCAAGTTGTGAATGTTTA 59.932 36.000 2.11 0.00 40.50 2.01
4254 4741 3.880490 AGTTGTGAATGTTTACCGCTTCA 59.120 39.130 0.00 0.00 0.00 3.02
4279 4766 4.692155 CACTGCTTTCCCCAATTGATTTTC 59.308 41.667 7.12 0.00 0.00 2.29
4283 4770 6.305411 TGCTTTCCCCAATTGATTTTCAAAT 58.695 32.000 7.12 0.00 40.12 2.32
4526 5026 4.342665 CCCCTCTTCTAGCAACCTAGTAAG 59.657 50.000 0.00 0.00 41.49 2.34
4616 5122 6.995091 GCTGACTCAACTAGAAATATGGGAAT 59.005 38.462 0.00 0.00 0.00 3.01
4670 5267 5.751680 CAGTGTGTTTCTTTATCACTGGTG 58.248 41.667 13.55 0.00 46.64 4.17
4674 5271 6.472163 GTGTGTTTCTTTATCACTGGTGTTTG 59.528 38.462 0.53 0.00 33.82 2.93
4680 5277 6.126409 TCTTTATCACTGGTGTTTGGAAACT 58.874 36.000 4.02 0.00 39.59 2.66
4683 5280 4.497291 TCACTGGTGTTTGGAAACTACT 57.503 40.909 4.02 0.00 39.59 2.57
4684 5281 4.448210 TCACTGGTGTTTGGAAACTACTC 58.552 43.478 4.02 0.00 39.59 2.59
4685 5282 3.564225 CACTGGTGTTTGGAAACTACTCC 59.436 47.826 4.02 0.00 39.59 3.85
4686 5283 3.146847 CTGGTGTTTGGAAACTACTCCC 58.853 50.000 4.02 0.00 39.59 4.30
4689 5286 3.409570 GTGTTTGGAAACTACTCCCTCC 58.590 50.000 4.02 0.00 39.59 4.30
4690 5287 2.038033 TGTTTGGAAACTACTCCCTCCG 59.962 50.000 4.02 0.00 39.59 4.63
4692 5289 2.019807 TGGAAACTACTCCCTCCGTT 57.980 50.000 0.00 0.00 34.22 4.44
4694 5291 1.206610 GGAAACTACTCCCTCCGTTCC 59.793 57.143 0.00 0.00 0.00 3.62
4695 5292 1.897802 GAAACTACTCCCTCCGTTCCA 59.102 52.381 0.00 0.00 0.00 3.53
4696 5293 2.019807 AACTACTCCCTCCGTTCCAA 57.980 50.000 0.00 0.00 0.00 3.53
4697 5294 2.019807 ACTACTCCCTCCGTTCCAAA 57.980 50.000 0.00 0.00 0.00 3.28
4698 5295 2.332117 ACTACTCCCTCCGTTCCAAAA 58.668 47.619 0.00 0.00 0.00 2.44
4699 5296 2.910977 ACTACTCCCTCCGTTCCAAAAT 59.089 45.455 0.00 0.00 0.00 1.82
4700 5297 4.098894 ACTACTCCCTCCGTTCCAAAATA 58.901 43.478 0.00 0.00 0.00 1.40
4701 5298 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
4702 5299 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
4703 5300 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
4705 5302 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
4708 6612 4.811557 CCTCCGTTCCAAAATAGATGACTC 59.188 45.833 0.00 0.00 0.00 3.36
4709 6613 5.414789 TCCGTTCCAAAATAGATGACTCA 57.585 39.130 0.00 0.00 0.00 3.41
4741 6645 9.716531 ATACTAACTTTAGTACAAAGTTGGGTC 57.283 33.333 28.62 0.00 46.38 4.46
4742 6646 7.567458 ACTAACTTTAGTACAAAGTTGGGTCA 58.433 34.615 28.62 17.50 46.38 4.02
4743 6647 8.215736 ACTAACTTTAGTACAAAGTTGGGTCAT 58.784 33.333 28.62 17.19 46.38 3.06
4746 6650 7.970102 ACTTTAGTACAAAGTTGGGTCATCTA 58.030 34.615 14.04 0.00 37.18 1.98
4749 6653 9.802039 TTTAGTACAAAGTTGGGTCATCTATTT 57.198 29.630 0.00 0.00 0.00 1.40
4752 6656 9.802039 AGTACAAAGTTGGGTCATCTATTTTAA 57.198 29.630 0.00 0.00 0.00 1.52
4755 6659 9.758651 ACAAAGTTGGGTCATCTATTTTAAAAC 57.241 29.630 1.97 0.00 0.00 2.43
4756 6660 8.911662 CAAAGTTGGGTCATCTATTTTAAAACG 58.088 33.333 1.97 0.00 0.00 3.60
4757 6661 7.153217 AGTTGGGTCATCTATTTTAAAACGG 57.847 36.000 1.97 0.00 0.00 4.44
4758 6662 6.943718 AGTTGGGTCATCTATTTTAAAACGGA 59.056 34.615 1.97 5.09 0.00 4.69
4759 6663 6.995511 TGGGTCATCTATTTTAAAACGGAG 57.004 37.500 1.97 1.74 0.00 4.63
4761 6665 5.298527 GGGTCATCTATTTTAAAACGGAGGG 59.701 44.000 1.97 2.46 0.00 4.30
4762 6666 6.117488 GGTCATCTATTTTAAAACGGAGGGA 58.883 40.000 1.97 4.48 0.00 4.20
4763 6667 6.260271 GGTCATCTATTTTAAAACGGAGGGAG 59.740 42.308 1.97 0.00 0.00 4.30
4790 7773 4.725490 TCTCTTCGTTTTCTTGGGGAAAT 58.275 39.130 0.00 0.00 42.63 2.17
4832 7815 1.854664 CAAAATGCTTGTGCGGTGC 59.145 52.632 0.00 0.00 43.34 5.01
4840 7823 1.639280 CTTGTGCGGTGCTTTTTGTT 58.361 45.000 0.00 0.00 0.00 2.83
4875 7858 3.573598 TGTTTAAATGCTTGTGCCATCG 58.426 40.909 0.00 0.00 38.71 3.84
4906 7889 7.979537 CCCTTAACTTTCTGCAAACTAAAAAGT 59.020 33.333 0.00 0.00 40.79 2.66
4913 7896 8.856490 TTTCTGCAAACTAAAAAGTTCATCTC 57.144 30.769 0.00 0.00 0.00 2.75
4914 7897 6.658831 TCTGCAAACTAAAAAGTTCATCTCG 58.341 36.000 0.00 0.00 0.00 4.04
4918 7901 8.134895 TGCAAACTAAAAAGTTCATCTCGAAAT 58.865 29.630 0.00 0.00 34.69 2.17
4926 7909 7.905604 AAAGTTCATCTCGAAATACACATCA 57.094 32.000 0.00 0.00 34.69 3.07
4927 7910 7.905604 AAGTTCATCTCGAAATACACATCAA 57.094 32.000 0.00 0.00 34.69 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
50 51 4.137872 TGGGGACGACGGCGAATC 62.138 66.667 22.49 4.76 41.64 2.52
51 52 4.143333 CTGGGGACGACGGCGAAT 62.143 66.667 22.49 0.00 41.64 3.34
56 57 3.450115 GAGACCTGGGGACGACGG 61.450 72.222 0.00 0.00 0.00 4.79
57 58 2.361357 AGAGACCTGGGGACGACG 60.361 66.667 0.00 0.00 0.00 5.12
58 59 2.053277 GGAGAGACCTGGGGACGAC 61.053 68.421 0.00 0.00 35.41 4.34
59 60 2.359404 GGAGAGACCTGGGGACGA 59.641 66.667 0.00 0.00 35.41 4.20
68 69 0.252742 TTTGAGGGGGAGGAGAGACC 60.253 60.000 0.00 0.00 39.35 3.85
69 70 1.886422 ATTTGAGGGGGAGGAGAGAC 58.114 55.000 0.00 0.00 0.00 3.36
70 71 2.360423 GGTATTTGAGGGGGAGGAGAGA 60.360 54.545 0.00 0.00 0.00 3.10
71 72 2.050918 GGTATTTGAGGGGGAGGAGAG 58.949 57.143 0.00 0.00 0.00 3.20
72 73 1.345112 GGGTATTTGAGGGGGAGGAGA 60.345 57.143 0.00 0.00 0.00 3.71
73 74 1.141185 GGGTATTTGAGGGGGAGGAG 58.859 60.000 0.00 0.00 0.00 3.69
74 75 0.328158 GGGGTATTTGAGGGGGAGGA 60.328 60.000 0.00 0.00 0.00 3.71
75 76 1.361176 GGGGGTATTTGAGGGGGAGG 61.361 65.000 0.00 0.00 0.00 4.30
76 77 2.241502 GGGGGTATTTGAGGGGGAG 58.758 63.158 0.00 0.00 0.00 4.30
129 130 3.966543 GTGGGTGGTGGGTGGAGG 61.967 72.222 0.00 0.00 0.00 4.30
130 131 3.966543 GGTGGGTGGTGGGTGGAG 61.967 72.222 0.00 0.00 0.00 3.86
131 132 4.845307 TGGTGGGTGGTGGGTGGA 62.845 66.667 0.00 0.00 0.00 4.02
132 133 4.596585 GTGGTGGGTGGTGGGTGG 62.597 72.222 0.00 0.00 0.00 4.61
133 134 4.596585 GGTGGTGGGTGGTGGGTG 62.597 72.222 0.00 0.00 0.00 4.61
135 136 4.596585 GTGGTGGTGGGTGGTGGG 62.597 72.222 0.00 0.00 0.00 4.61
138 139 2.840753 GGATGTGGTGGTGGGTGGT 61.841 63.158 0.00 0.00 0.00 4.16
148 149 3.075005 CTCCGTCGGGGATGTGGT 61.075 66.667 4.69 0.00 46.04 4.16
159 160 4.570663 CCCGATGCGTCCTCCGTC 62.571 72.222 0.00 0.00 39.32 4.79
765 1145 2.025441 CGGCCGTTGTTGTGGTTG 59.975 61.111 19.50 0.00 0.00 3.77
973 1425 0.107993 CAGATCATGCACTCCACCGT 60.108 55.000 0.00 0.00 0.00 4.83
1297 1761 2.138320 GGCGACATCGTCATCATCATT 58.862 47.619 0.04 0.00 44.43 2.57
1470 1934 1.209019 CAGGGTAGCAGCTTCTCACAT 59.791 52.381 0.00 0.00 0.00 3.21
1473 1937 1.599047 GCAGGGTAGCAGCTTCTCA 59.401 57.895 0.00 0.00 0.00 3.27
1569 2033 3.351740 TGTCTCTGTTTTCTTGCCACAA 58.648 40.909 0.00 0.00 0.00 3.33
1748 2212 0.700564 ATGGCATGTGGTGACCTTCT 59.299 50.000 2.11 0.00 33.64 2.85
1887 2351 1.299648 CGGTGGGCATTCTCCTTCA 59.700 57.895 0.00 0.00 0.00 3.02
1896 2360 4.284550 ACCAAGCACGGTGGGCAT 62.285 61.111 10.60 0.00 40.75 4.40
2220 2684 3.649986 GACCTGCCACACGCACAC 61.650 66.667 0.00 0.00 44.64 3.82
2391 2855 3.264193 TGTTCCTTAGCATCACATGTCCT 59.736 43.478 0.00 0.00 0.00 3.85
2404 2868 1.916181 ACCACAGGGGATGTTCCTTAG 59.084 52.381 0.00 0.00 41.41 2.18
2418 2882 4.655762 TCTGATATCCTTCGAACCACAG 57.344 45.455 0.00 0.00 0.00 3.66
2427 2891 3.501445 GCTGGTTGCATCTGATATCCTTC 59.499 47.826 0.00 0.00 42.31 3.46
2548 3012 1.533994 AAACTTTGCCCCCAGAGCC 60.534 57.895 0.00 0.00 0.00 4.70
2673 3137 4.332828 GGCCACAAGAACAGGTAATAGTT 58.667 43.478 0.00 0.00 0.00 2.24
2838 3302 2.289320 ACACTCCTCATCACAACAGAGC 60.289 50.000 0.00 0.00 0.00 4.09
2951 3415 4.286297 AGATCAGAAACCAAATCCGACA 57.714 40.909 0.00 0.00 0.00 4.35
3086 3550 4.277515 TCTCTCTTGTCCTTCAACATGG 57.722 45.455 0.00 0.00 32.18 3.66
3091 3555 5.423290 TGATAGCATCTCTCTTGTCCTTCAA 59.577 40.000 0.00 0.00 34.61 2.69
3369 3833 4.283978 TCATTCAGCCAAACCAATTCACAT 59.716 37.500 0.00 0.00 0.00 3.21
3453 3917 3.136443 CCTGGTAAGCAGACCCATAATCA 59.864 47.826 4.71 0.00 38.89 2.57
3565 4029 3.933722 ACTGGCACTGCTCGCTGT 61.934 61.111 0.00 0.00 0.00 4.40
3583 4047 2.323968 GGAGAGTCCTTCTTCCATGC 57.676 55.000 0.00 0.00 35.87 4.06
3680 4144 1.351017 GTTTCCACACTGATCCTGGGA 59.649 52.381 0.00 0.00 0.00 4.37
3745 4221 3.818787 GCTGGTTGCGGCATCAGG 61.819 66.667 24.89 13.67 0.00 3.86
3772 4248 1.025113 GGAGGCTTAGGTTTGTCGGC 61.025 60.000 0.00 0.00 0.00 5.54
3794 4270 1.208776 TGGATCCAGCATCAGTGTGAG 59.791 52.381 11.44 0.00 32.33 3.51
3807 4283 2.268920 GCGGAAGTGCTGGATCCA 59.731 61.111 15.27 15.27 32.58 3.41
3867 4343 1.162698 GCAGCTTGCTCACAGATTGA 58.837 50.000 0.00 0.00 40.96 2.57
4015 4492 7.359595 CAATTCGAAGGTGACAAAATAACAGA 58.640 34.615 3.35 0.00 0.00 3.41
4040 4517 2.046285 CCGGCAACATCCAGGAACC 61.046 63.158 0.00 0.00 0.00 3.62
4049 4526 0.951558 GAACAGTCAACCGGCAACAT 59.048 50.000 0.00 0.00 0.00 2.71
4109 4587 1.227674 GCGCGGGAAATCTGAGGAT 60.228 57.895 8.83 0.00 0.00 3.24
4123 4601 2.157668 ACTGTGATGTTAAAAGAGCGCG 59.842 45.455 0.00 0.00 0.00 6.86
4127 4605 6.377327 ACCAACACTGTGATGTTAAAAGAG 57.623 37.500 15.86 0.35 40.89 2.85
4159 4637 2.042831 GCCTGCGCCTGAGACAATT 61.043 57.895 4.18 0.00 0.00 2.32
4160 4638 2.437359 GCCTGCGCCTGAGACAAT 60.437 61.111 4.18 0.00 0.00 2.71
4197 4680 3.127548 CCGTCAATGCAGTTTGAGCTAAT 59.872 43.478 2.97 0.00 36.34 1.73
4199 4686 2.076100 CCGTCAATGCAGTTTGAGCTA 58.924 47.619 2.97 0.00 36.34 3.32
4201 4688 0.874390 TCCGTCAATGCAGTTTGAGC 59.126 50.000 2.97 0.00 36.34 4.26
4207 4694 0.523072 GCACATTCCGTCAATGCAGT 59.477 50.000 0.00 0.00 45.37 4.40
4246 4733 1.510480 GAAAGCAGTGCTGAAGCGGT 61.510 55.000 20.55 0.00 45.83 5.68
4254 4741 0.971386 CAATTGGGGAAAGCAGTGCT 59.029 50.000 13.14 13.14 42.56 4.40
4279 4766 9.773328 AGAACATCATAAACGAATACACATTTG 57.227 29.630 0.00 0.00 0.00 2.32
4283 4770 8.541133 TGAAGAACATCATAAACGAATACACA 57.459 30.769 0.00 0.00 0.00 3.72
4526 5026 9.556030 GTTGCTTCCTGTGTAGTATAATTTTTC 57.444 33.333 0.00 0.00 0.00 2.29
4564 5068 5.778862 GCCAAATGCTAGACCTTTTTACAA 58.221 37.500 0.00 0.00 36.87 2.41
4665 5262 3.146847 GGGAGTAGTTTCCAAACACCAG 58.853 50.000 5.03 0.00 41.30 4.00
4670 5267 2.038164 ACGGAGGGAGTAGTTTCCAAAC 59.962 50.000 0.00 0.00 39.09 2.93
4674 5271 1.206610 GGAACGGAGGGAGTAGTTTCC 59.793 57.143 0.00 0.00 36.46 3.13
4680 5277 4.355549 TCTATTTTGGAACGGAGGGAGTA 58.644 43.478 0.00 0.00 0.00 2.59
4683 5280 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
4684 5281 3.877508 GTCATCTATTTTGGAACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
4685 5282 4.770795 AGTCATCTATTTTGGAACGGAGG 58.229 43.478 0.00 0.00 0.00 4.30
4686 5283 5.419542 TGAGTCATCTATTTTGGAACGGAG 58.580 41.667 0.00 0.00 0.00 4.63
4689 5286 8.970691 AAAATTGAGTCATCTATTTTGGAACG 57.029 30.769 11.47 0.00 44.08 3.95
4715 6619 9.716531 GACCCAACTTTGTACTAAAGTTAGTAT 57.283 33.333 23.56 15.20 45.57 2.12
4722 6626 9.449719 AATAGATGACCCAACTTTGTACTAAAG 57.550 33.333 13.08 13.08 0.00 1.85
4730 6634 8.911662 CGTTTTAAAATAGATGACCCAACTTTG 58.088 33.333 3.52 0.00 0.00 2.77
4731 6635 8.085909 CCGTTTTAAAATAGATGACCCAACTTT 58.914 33.333 3.52 0.00 0.00 2.66
4734 6638 7.148355 TCCGTTTTAAAATAGATGACCCAAC 57.852 36.000 3.52 0.00 0.00 3.77
4735 6639 6.376018 CCTCCGTTTTAAAATAGATGACCCAA 59.624 38.462 3.52 0.00 0.00 4.12
4736 6640 5.883673 CCTCCGTTTTAAAATAGATGACCCA 59.116 40.000 3.52 0.00 0.00 4.51
4737 6641 5.298527 CCCTCCGTTTTAAAATAGATGACCC 59.701 44.000 3.52 0.00 0.00 4.46
4738 6642 6.117488 TCCCTCCGTTTTAAAATAGATGACC 58.883 40.000 3.52 0.00 0.00 4.02
4741 6645 8.726870 TTACTCCCTCCGTTTTAAAATAGATG 57.273 34.615 3.52 2.01 0.00 2.90
4742 6646 9.916360 AATTACTCCCTCCGTTTTAAAATAGAT 57.084 29.630 3.52 0.00 0.00 1.98
4743 6647 9.387257 GAATTACTCCCTCCGTTTTAAAATAGA 57.613 33.333 3.52 3.61 0.00 1.98
4746 6650 8.107729 AGAGAATTACTCCCTCCGTTTTAAAAT 58.892 33.333 3.52 0.00 45.96 1.82
4749 6653 6.616237 AGAGAATTACTCCCTCCGTTTTAA 57.384 37.500 0.00 0.00 45.96 1.52
4751 6655 5.489249 GAAGAGAATTACTCCCTCCGTTTT 58.511 41.667 0.00 0.00 45.96 2.43
4752 6656 4.381718 CGAAGAGAATTACTCCCTCCGTTT 60.382 45.833 0.00 0.00 45.96 3.60
4755 6659 2.688958 ACGAAGAGAATTACTCCCTCCG 59.311 50.000 0.00 0.00 45.96 4.63
4756 6660 4.739587 AACGAAGAGAATTACTCCCTCC 57.260 45.455 0.00 0.00 45.96 4.30
4757 6661 6.399743 AGAAAACGAAGAGAATTACTCCCTC 58.600 40.000 0.00 0.00 45.96 4.30
4758 6662 6.361768 AGAAAACGAAGAGAATTACTCCCT 57.638 37.500 0.00 0.00 45.96 4.20
4759 6663 6.128254 CCAAGAAAACGAAGAGAATTACTCCC 60.128 42.308 0.00 0.00 45.96 4.30
4761 6665 6.128254 CCCCAAGAAAACGAAGAGAATTACTC 60.128 42.308 0.00 0.00 45.22 2.59
4762 6666 5.705905 CCCCAAGAAAACGAAGAGAATTACT 59.294 40.000 0.00 0.00 0.00 2.24
4763 6667 5.704053 TCCCCAAGAAAACGAAGAGAATTAC 59.296 40.000 0.00 0.00 0.00 1.89
4790 7773 6.962567 TGCTAGTAGTTAAGCAAAGAGCAACA 60.963 38.462 0.00 0.00 45.36 3.33
4829 7812 7.816945 ACTGATGCAATATAACAAAAAGCAC 57.183 32.000 0.00 0.00 32.92 4.40
4875 7858 0.888619 GCAGAAAGTTAAGGGGCCAC 59.111 55.000 4.39 0.00 0.00 5.01


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

AutoCloner maintained by Alex Coulton.