Multiple sequence alignment - TraesCS2B01G332300

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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 TraesCS2B01G332300 chr2B 100.000 5491 0 0 1 5491 475306731 475301241 0.000000e+00 10141.0
1 TraesCS2B01G332300 chr2B 96.334 791 29 0 1 791 475312258 475311468 0.000000e+00 1301.0
2 TraesCS2B01G332300 chr2B 95.220 795 34 4 3 794 625911407 625912200 0.000000e+00 1254.0
3 TraesCS2B01G332300 chr2B 82.474 291 49 2 1109 1398 131133611 131133900 2.540000e-63 254.0
4 TraesCS2B01G332300 chr2B 78.689 183 18 8 4806 4986 61289172 61289009 9.730000e-18 102.0
5 TraesCS2B01G332300 chr2B 77.717 184 20 9 4806 4987 61360696 61360532 5.860000e-15 93.5
6 TraesCS2B01G332300 chr2B 83.750 80 10 2 4846 4924 458106770 458106847 7.630000e-09 73.1
7 TraesCS2B01G332300 chr2A 96.785 2737 69 12 791 3512 537967791 537965059 0.000000e+00 4549.0
8 TraesCS2B01G332300 chr2A 94.154 958 28 16 3578 4515 537964627 537963678 0.000000e+00 1434.0
9 TraesCS2B01G332300 chr2A 81.633 294 46 6 1109 1398 80237218 80237507 2.560000e-58 237.0
10 TraesCS2B01G332300 chr2A 79.930 284 57 0 1110 1393 80231356 80231639 5.570000e-50 209.0
11 TraesCS2B01G332300 chr2A 100.000 31 0 0 3503 3533 537964656 537964626 2.140000e-04 58.4
12 TraesCS2B01G332300 chr2D 92.585 1942 96 18 3581 5491 401287580 401285656 0.000000e+00 2745.0
13 TraesCS2B01G332300 chr2D 97.330 1161 28 3 2354 3512 401288921 401287762 0.000000e+00 1969.0
14 TraesCS2B01G332300 chr2D 94.704 812 39 2 1511 2319 401289941 401289131 0.000000e+00 1258.0
15 TraesCS2B01G332300 chr2D 95.467 728 24 2 791 1512 401290728 401290004 0.000000e+00 1153.0
16 TraesCS2B01G332300 chr2D 81.787 291 51 2 1109 1398 79609105 79609394 5.500000e-60 243.0
17 TraesCS2B01G332300 chr2D 80.986 284 54 0 1110 1393 79533845 79534128 5.530000e-55 226.0
18 TraesCS2B01G332300 chr1B 95.455 792 33 3 3 792 675396750 675397540 0.000000e+00 1260.0
19 TraesCS2B01G332300 chr1B 95.322 791 34 3 4 792 619411035 619411824 0.000000e+00 1253.0
20 TraesCS2B01G332300 chr1B 95.082 793 35 4 1 791 380117285 380118075 0.000000e+00 1245.0
21 TraesCS2B01G332300 chr1B 94.724 796 38 4 1 794 633703540 633704333 0.000000e+00 1234.0
22 TraesCS2B01G332300 chr5B 95.449 791 33 3 4 792 339459885 339459096 0.000000e+00 1258.0
23 TraesCS2B01G332300 chr5B 95.070 791 36 3 3 791 339465408 339464619 0.000000e+00 1242.0
24 TraesCS2B01G332300 chr3B 95.311 789 32 5 5 791 214539103 214539888 0.000000e+00 1247.0
25 TraesCS2B01G332300 chr3B 83.495 103 13 3 4811 4911 654338990 654338890 5.860000e-15 93.5
26 TraesCS2B01G332300 chr7D 82.245 383 56 10 1058 1434 111619933 111619557 2.470000e-83 320.0
27 TraesCS2B01G332300 chr7D 81.111 180 32 2 3211 3389 111617508 111617330 5.730000e-30 143.0
28 TraesCS2B01G332300 chr7D 81.053 95 13 3 4825 4918 47847801 47847711 2.740000e-08 71.3
29 TraesCS2B01G332300 chr7B 83.051 354 51 7 1087 1434 71175454 71175104 4.130000e-81 313.0
30 TraesCS2B01G332300 chr7B 80.556 180 33 2 3211 3389 71173089 71172911 2.670000e-28 137.0
31 TraesCS2B01G332300 chr7B 79.508 122 15 6 4893 5010 687803432 687803317 1.640000e-10 78.7
32 TraesCS2B01G332300 chr4D 84.821 112 13 4 4806 4915 355853953 355853844 5.820000e-20 110.0
33 TraesCS2B01G332300 chr4B 84.821 112 13 4 4806 4915 439316276 439316167 5.820000e-20 110.0
34 TraesCS2B01G332300 chr3D 79.130 115 21 3 4800 4912 473740603 473740716 5.900000e-10 76.8
35 TraesCS2B01G332300 chr3A 83.133 83 8 6 4800 4879 739148661 739148740 2.740000e-08 71.3


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 TraesCS2B01G332300 chr2B 475301241 475306731 5490 True 10141.00 10141 100.000000 1 5491 1 chr2B.!!$R3 5490
1 TraesCS2B01G332300 chr2B 475311468 475312258 790 True 1301.00 1301 96.334000 1 791 1 chr2B.!!$R4 790
2 TraesCS2B01G332300 chr2B 625911407 625912200 793 False 1254.00 1254 95.220000 3 794 1 chr2B.!!$F3 791
3 TraesCS2B01G332300 chr2A 537963678 537967791 4113 True 2013.80 4549 96.979667 791 4515 3 chr2A.!!$R1 3724
4 TraesCS2B01G332300 chr2D 401285656 401290728 5072 True 1781.25 2745 95.021500 791 5491 4 chr2D.!!$R1 4700
5 TraesCS2B01G332300 chr1B 675396750 675397540 790 False 1260.00 1260 95.455000 3 792 1 chr1B.!!$F4 789
6 TraesCS2B01G332300 chr1B 619411035 619411824 789 False 1253.00 1253 95.322000 4 792 1 chr1B.!!$F2 788
7 TraesCS2B01G332300 chr1B 380117285 380118075 790 False 1245.00 1245 95.082000 1 791 1 chr1B.!!$F1 790
8 TraesCS2B01G332300 chr1B 633703540 633704333 793 False 1234.00 1234 94.724000 1 794 1 chr1B.!!$F3 793
9 TraesCS2B01G332300 chr5B 339459096 339459885 789 True 1258.00 1258 95.449000 4 792 1 chr5B.!!$R1 788
10 TraesCS2B01G332300 chr5B 339464619 339465408 789 True 1242.00 1242 95.070000 3 791 1 chr5B.!!$R2 788
11 TraesCS2B01G332300 chr3B 214539103 214539888 785 False 1247.00 1247 95.311000 5 791 1 chr3B.!!$F1 786
12 TraesCS2B01G332300 chr7D 111617330 111619933 2603 True 231.50 320 81.678000 1058 3389 2 chr7D.!!$R2 2331
13 TraesCS2B01G332300 chr7B 71172911 71175454 2543 True 225.00 313 81.803500 1087 3389 2 chr7B.!!$R2 2302

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
471 473 2.116366 GCCGATTGAACAACACACAAC 58.884 47.619 0.00 0.00 0.00 3.32 F
2200 2612 1.067669 TGCTCTGCGTATAAGCTCCTG 59.932 52.381 11.96 1.65 36.96 3.86 F
3497 4916 1.055338 GGTGTGACAGTTACGTACGC 58.945 55.000 16.72 0.00 0.00 4.42 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2264 2676 0.033504 AAACATGCGTCAGACGGAGT 59.966 50.0 24.13 17.13 46.90 3.85 R
3567 5400 0.614812 TGCTGACTGGCTGCATTAGA 59.385 50.0 11.32 0.00 45.05 2.10 R
5467 7358 0.111089 CGTCACGTTTCTTCTGCTGC 60.111 55.0 0.00 0.00 0.00 5.25 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
71 72 6.257849 TCATTCTAATCCAAGTTCGTATGCAC 59.742 38.462 0.00 0.00 0.00 4.57
471 473 2.116366 GCCGATTGAACAACACACAAC 58.884 47.619 0.00 0.00 0.00 3.32
848 853 4.716287 CCCAATCCAATCCACAATAAACCT 59.284 41.667 0.00 0.00 0.00 3.50
881 886 3.822097 ATCCATCCATCCATCTTTCCC 57.178 47.619 0.00 0.00 0.00 3.97
1359 1397 1.446099 GCTTGACGACTGCATCCGA 60.446 57.895 13.68 0.00 0.00 4.55
1548 1954 8.424274 AGTTGAAATCATTTCCAGTTGTTTTC 57.576 30.769 7.68 0.00 38.90 2.29
1566 1973 4.929819 TTTCCTTTGGCTTAGTGGAAAC 57.070 40.909 0.00 0.00 40.52 2.78
1585 1992 9.145865 GTGGAAACTTTTGTAGAAAATGTTTGA 57.854 29.630 20.05 10.60 35.22 2.69
1638 2045 1.630878 TCTCCCTGAAAGCCCTTCTTC 59.369 52.381 0.00 0.00 34.86 2.87
1684 2091 6.064846 TCACTTCAAGACAAGCTTTGATTC 57.935 37.500 0.00 0.00 33.60 2.52
1687 2094 6.921857 CACTTCAAGACAAGCTTTGATTCATT 59.078 34.615 0.00 0.00 33.60 2.57
1688 2095 7.437267 CACTTCAAGACAAGCTTTGATTCATTT 59.563 33.333 0.00 0.00 33.60 2.32
1689 2096 7.983484 ACTTCAAGACAAGCTTTGATTCATTTT 59.017 29.630 0.00 0.00 33.60 1.82
1876 2284 2.901839 AGTGCTCAAATCAAAATGCCCT 59.098 40.909 0.00 0.00 0.00 5.19
1973 2382 5.660460 CTTCTTTTTGGGCAGTTTTACACT 58.340 37.500 0.00 0.00 35.35 3.55
2104 2516 4.537288 AGGAAATTTTGATGGCTTGGGAAT 59.463 37.500 0.00 0.00 0.00 3.01
2184 2596 6.876257 AGATTTTATATGATCCGAACCTGCTC 59.124 38.462 0.00 0.00 0.00 4.26
2200 2612 1.067669 TGCTCTGCGTATAAGCTCCTG 59.932 52.381 11.96 1.65 36.96 3.86
2264 2676 8.050778 ACTTGTGTGAGTTCAACTTCAATAAA 57.949 30.769 0.00 0.00 0.00 1.40
2344 2756 3.646611 TGGTTGCAACAACAGATCATG 57.353 42.857 29.55 0.00 0.00 3.07
2465 3075 5.132648 TGGCTAGTCTACCATCATTTCCATT 59.867 40.000 0.00 0.00 0.00 3.16
2685 3714 8.088365 AGAAAAATTTCACCTTTCTTTATCCCG 58.912 33.333 8.47 0.00 36.27 5.14
3159 4578 9.995003 GAACTTCAGTCATCAATTAGATCCTAT 57.005 33.333 0.00 0.00 33.72 2.57
3280 4699 1.340017 GCTGAATACTTGGGAGGTGCA 60.340 52.381 0.00 0.00 0.00 4.57
3355 4774 7.118390 GGTGTATCATCCTGTATTACAATGAGC 59.882 40.741 13.73 10.55 31.29 4.26
3404 4823 6.551601 AGAGGAGGTATATCTTGAATCAACGT 59.448 38.462 0.00 0.00 0.00 3.99
3488 4907 6.772716 AGAAGTCAAAATATTGGTGTGACAGT 59.227 34.615 17.32 9.36 40.83 3.55
3497 4916 1.055338 GGTGTGACAGTTACGTACGC 58.945 55.000 16.72 0.00 0.00 4.42
3535 5368 2.781681 TAAGCTTAGTGTTCCCCTGC 57.218 50.000 0.86 0.00 0.00 4.85
3553 5386 3.140325 TGCTTAGCTGCAGTTTTAGGT 57.860 42.857 16.64 0.00 38.12 3.08
3554 5387 3.486383 TGCTTAGCTGCAGTTTTAGGTT 58.514 40.909 16.64 0.00 38.12 3.50
3555 5388 3.502211 TGCTTAGCTGCAGTTTTAGGTTC 59.498 43.478 16.64 0.00 38.12 3.62
3556 5389 3.502211 GCTTAGCTGCAGTTTTAGGTTCA 59.498 43.478 16.64 0.00 0.00 3.18
3558 5391 5.354234 GCTTAGCTGCAGTTTTAGGTTCATA 59.646 40.000 16.64 0.00 0.00 2.15
3559 5392 6.675728 GCTTAGCTGCAGTTTTAGGTTCATAC 60.676 42.308 16.64 0.00 0.00 2.39
3560 5393 4.911390 AGCTGCAGTTTTAGGTTCATACT 58.089 39.130 16.64 0.00 0.00 2.12
3561 5394 4.938226 AGCTGCAGTTTTAGGTTCATACTC 59.062 41.667 16.64 0.00 0.00 2.59
3562 5395 4.938226 GCTGCAGTTTTAGGTTCATACTCT 59.062 41.667 16.64 0.00 0.00 3.24
3563 5396 5.412904 GCTGCAGTTTTAGGTTCATACTCTT 59.587 40.000 16.64 0.00 0.00 2.85
3564 5397 6.072452 GCTGCAGTTTTAGGTTCATACTCTTT 60.072 38.462 16.64 0.00 0.00 2.52
3565 5398 7.522236 GCTGCAGTTTTAGGTTCATACTCTTTT 60.522 37.037 16.64 0.00 0.00 2.27
3566 5399 7.871853 TGCAGTTTTAGGTTCATACTCTTTTC 58.128 34.615 0.00 0.00 0.00 2.29
3567 5400 7.719633 TGCAGTTTTAGGTTCATACTCTTTTCT 59.280 33.333 0.00 0.00 0.00 2.52
3568 5401 8.231161 GCAGTTTTAGGTTCATACTCTTTTCTC 58.769 37.037 0.00 0.00 0.00 2.87
3569 5402 9.495572 CAGTTTTAGGTTCATACTCTTTTCTCT 57.504 33.333 0.00 0.00 0.00 3.10
3574 5407 9.601217 TTAGGTTCATACTCTTTTCTCTAATGC 57.399 33.333 0.00 0.00 0.00 3.56
3575 5408 7.624549 AGGTTCATACTCTTTTCTCTAATGCA 58.375 34.615 0.00 0.00 0.00 3.96
3576 5409 7.768120 AGGTTCATACTCTTTTCTCTAATGCAG 59.232 37.037 0.00 0.00 0.00 4.41
3577 5410 7.405769 GTTCATACTCTTTTCTCTAATGCAGC 58.594 38.462 0.00 0.00 0.00 5.25
3578 5411 6.051717 TCATACTCTTTTCTCTAATGCAGCC 58.948 40.000 0.00 0.00 0.00 4.85
3889 5722 1.071471 GGATGGGTGCATCCTACCG 59.929 63.158 18.94 0.00 45.78 4.02
3945 5778 3.278668 AATCTCCTGCTGGTTCATCTG 57.721 47.619 9.73 0.00 34.23 2.90
3946 5779 1.942776 TCTCCTGCTGGTTCATCTGA 58.057 50.000 9.73 0.00 34.23 3.27
4007 5840 7.686434 TCTATTTACCTGCTTTGAGTTACCTT 58.314 34.615 0.00 0.00 0.00 3.50
4180 6047 7.999679 TCATGTTTGAGTCATTTCTCTTTTGT 58.000 30.769 0.00 0.00 35.68 2.83
4272 6139 2.204090 TTCCTCCCCCAGTCCCAC 60.204 66.667 0.00 0.00 0.00 4.61
4547 6414 5.411053 GCATCCTCTTGATTAGATGTTAGCC 59.589 44.000 0.00 0.00 38.67 3.93
4561 6428 5.358160 AGATGTTAGCCTGCTTGAATTTACC 59.642 40.000 0.00 0.00 0.00 2.85
4613 6480 3.177884 TGGTGCTGCCTTGACCCT 61.178 61.111 4.64 0.00 38.35 4.34
4704 6571 8.493607 TGGAATAGTGTAAAGGATCATTCATCA 58.506 33.333 0.00 0.00 32.33 3.07
4741 6608 4.207891 ACGTAGCTCATTTGGATGTTCT 57.792 40.909 0.00 0.00 34.77 3.01
4745 6612 4.313020 AGCTCATTTGGATGTTCTTCCT 57.687 40.909 6.36 0.00 36.68 3.36
4768 6635 2.039084 CTCCCTTTCCTGTACAAGTGCT 59.961 50.000 0.00 0.00 0.00 4.40
4803 6670 8.328864 CAGTTTTTCGATTAATGGTCTACTAGC 58.671 37.037 0.00 0.00 0.00 3.42
4808 6675 6.062749 TCGATTAATGGTCTACTAGCAGTCT 58.937 40.000 0.00 0.00 39.39 3.24
4811 6678 1.475403 TGGTCTACTAGCAGTCTGCC 58.525 55.000 21.32 3.88 46.52 4.85
4893 6760 0.469917 AGCGGTACCCTCCATCATTG 59.530 55.000 6.25 0.00 0.00 2.82
4918 6785 4.460263 ACACAGGTCTTGTTGCAGATTTA 58.540 39.130 0.00 0.00 38.16 1.40
4919 6786 4.516698 ACACAGGTCTTGTTGCAGATTTAG 59.483 41.667 0.00 0.00 38.16 1.85
4920 6787 4.516698 CACAGGTCTTGTTGCAGATTTAGT 59.483 41.667 0.00 0.00 38.16 2.24
4921 6788 5.009010 CACAGGTCTTGTTGCAGATTTAGTT 59.991 40.000 0.00 0.00 38.16 2.24
4979 6847 5.493133 TCGCAACAGAAGTTTGTTACAAT 57.507 34.783 0.00 0.00 39.17 2.71
4981 6849 7.017498 TCGCAACAGAAGTTTGTTACAATTA 57.983 32.000 0.00 0.00 39.17 1.40
4984 6852 8.751335 CGCAACAGAAGTTTGTTACAATTATTT 58.249 29.630 0.00 0.00 39.17 1.40
5010 6879 9.545105 TTTTGTCTTCATCTTTTTGCAACATAT 57.455 25.926 0.00 0.00 0.00 1.78
5047 6917 2.994186 TAAGGGGAACGGTAAGATGC 57.006 50.000 0.00 0.00 0.00 3.91
5051 6921 0.539986 GGGAACGGTAAGATGCCAGA 59.460 55.000 0.00 0.00 33.32 3.86
5056 6926 0.872021 CGGTAAGATGCCAGAGACGC 60.872 60.000 0.00 0.00 0.00 5.19
5059 6929 0.179137 TAAGATGCCAGAGACGCACG 60.179 55.000 0.00 0.00 39.49 5.34
5082 6952 3.242706 ACACACGAAACACACATCACATG 60.243 43.478 0.00 0.00 0.00 3.21
5083 6953 3.002144 CACACGAAACACACATCACATGA 59.998 43.478 0.00 0.00 0.00 3.07
5090 6966 2.224042 ACACACATCACATGAGACACGT 60.224 45.455 0.00 0.00 0.00 4.49
5098 6974 3.254657 TCACATGAGACACGTGTCATACA 59.745 43.478 41.04 34.72 45.61 2.29
5099 6975 3.364920 CACATGAGACACGTGTCATACAC 59.635 47.826 41.04 27.43 45.61 2.90
5147 7023 0.902531 TCAGTCGGTTGAGGGGAATC 59.097 55.000 0.00 0.00 0.00 2.52
5155 7031 2.554564 GGTTGAGGGGAATCGTTTTCCT 60.555 50.000 15.99 9.72 38.61 3.36
5160 7036 3.939592 GAGGGGAATCGTTTTCCTTACTG 59.060 47.826 15.99 0.00 38.61 2.74
5161 7037 2.422479 GGGGAATCGTTTTCCTTACTGC 59.578 50.000 15.99 2.92 38.61 4.40
5162 7038 3.344515 GGGAATCGTTTTCCTTACTGCT 58.655 45.455 15.99 0.00 38.61 4.24
5178 7054 1.657594 CTGCTACATGTCACTGAAGCG 59.342 52.381 0.00 0.00 32.67 4.68
5215 7092 2.480845 GTCGCCAGTCACTAAAACAGT 58.519 47.619 0.00 0.00 38.32 3.55
5281 7158 2.658285 CCCTTGATGAGCTTGCCATTA 58.342 47.619 0.00 0.00 0.00 1.90
5327 7218 2.625737 CAGCACCACTCTCAATACCTG 58.374 52.381 0.00 0.00 0.00 4.00
5354 7245 5.184479 ACACCAAGTCAAGGATGAATGAATG 59.816 40.000 0.00 0.00 37.30 2.67
5355 7246 5.416639 CACCAAGTCAAGGATGAATGAATGA 59.583 40.000 0.00 0.00 37.30 2.57
5356 7247 6.012113 ACCAAGTCAAGGATGAATGAATGAA 58.988 36.000 0.00 0.00 37.30 2.57
5357 7248 6.666546 ACCAAGTCAAGGATGAATGAATGAAT 59.333 34.615 0.00 0.00 37.30 2.57
5364 7255 9.033711 TCAAGGATGAATGAATGAATAAACCAA 57.966 29.630 0.00 0.00 30.99 3.67
5400 7291 2.032681 GGAGCAAACGAGGCCACT 59.967 61.111 5.01 0.00 0.00 4.00
5408 7299 0.957395 AACGAGGCCACTGCAATCTG 60.957 55.000 5.01 0.00 40.13 2.90
5441 7332 2.165030 GGCACATGAAACAGATCAAGGG 59.835 50.000 0.00 0.00 32.06 3.95
5467 7358 5.821470 ACCTTTTGTGATATGATCTGCAGAG 59.179 40.000 22.96 4.79 0.00 3.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
52 53 5.242434 ACTTGTGCATACGAACTTGGATTA 58.758 37.500 0.00 0.00 0.00 1.75
71 72 4.693283 TGTATTCCGATGGCTCTAACTTG 58.307 43.478 0.00 0.00 0.00 3.16
322 324 7.324935 ACTTTCCAAAACTGTTCGGTTTAAAT 58.675 30.769 9.69 0.00 38.30 1.40
471 473 6.683974 AAAAGTGGTAGATTGATTGATCGG 57.316 37.500 0.00 0.00 0.00 4.18
753 758 0.674581 TCACCGTGTATCCTCGACGT 60.675 55.000 0.00 0.00 0.00 4.34
848 853 2.925653 TGGATGGATTTTTGGAGGGAGA 59.074 45.455 0.00 0.00 0.00 3.71
1344 1382 1.065551 CAGTATCGGATGCAGTCGTCA 59.934 52.381 8.78 0.00 0.00 4.35
1359 1397 1.070445 GCCGCTGAGGATGCAGTAT 59.930 57.895 0.09 0.00 45.00 2.12
1457 1799 1.841556 TTCAGTCGGAGGCAAGGGT 60.842 57.895 0.00 0.00 0.00 4.34
1548 1954 4.937201 AAAGTTTCCACTAAGCCAAAGG 57.063 40.909 0.00 0.00 30.68 3.11
1566 1973 8.702163 ACCAAGTCAAACATTTTCTACAAAAG 57.298 30.769 0.00 0.00 34.92 2.27
1585 1992 6.210385 TGATGCCAAACATAACATAACCAAGT 59.790 34.615 0.00 0.00 39.84 3.16
1638 2045 2.858839 TCTACACTCGTATGTTGCACG 58.141 47.619 0.00 0.00 40.72 5.34
1684 2091 7.652909 ACACAATCACAACCTACATTGAAAATG 59.347 33.333 0.00 0.00 33.57 2.32
1687 2094 6.707440 ACACAATCACAACCTACATTGAAA 57.293 33.333 0.00 0.00 33.57 2.69
1688 2095 6.707440 AACACAATCACAACCTACATTGAA 57.293 33.333 0.00 0.00 33.57 2.69
1689 2096 6.768381 TGTAACACAATCACAACCTACATTGA 59.232 34.615 0.00 0.00 33.57 2.57
1778 2185 9.689976 ATTCATCGTTCTAACTGATTCAGATAG 57.310 33.333 20.33 19.93 37.92 2.08
1795 2202 6.573664 TGAATTTTCAGTCCATTCATCGTT 57.426 33.333 0.00 0.00 33.03 3.85
1835 2243 7.402862 AGCACTCAAGTTTAATACCCAAGTAT 58.597 34.615 0.00 0.00 41.09 2.12
1876 2284 1.876799 CCAATGACGTTGCCACTGTTA 59.123 47.619 1.56 0.00 36.46 2.41
1913 2322 9.807921 TTCTCAAAACTAAATCCAATTAGACCT 57.192 29.630 1.38 0.00 36.57 3.85
2184 2596 3.738282 GTGATTCAGGAGCTTATACGCAG 59.262 47.826 3.83 0.00 0.00 5.18
2200 2612 2.730090 CGCAAACCATCTGCAGTGATTC 60.730 50.000 14.67 0.00 39.91 2.52
2264 2676 0.033504 AAACATGCGTCAGACGGAGT 59.966 50.000 24.13 17.13 46.90 3.85
2465 3075 5.263599 AGAACATGTGGAATTTATGGCAGA 58.736 37.500 0.00 0.00 0.00 4.26
2685 3714 7.095187 GCTGAACCCATGTTAGTTATAGCATAC 60.095 40.741 16.17 0.00 36.78 2.39
3054 4472 4.202245 AGGAACGCAGACAGCTAAAATA 57.798 40.909 0.00 0.00 42.61 1.40
3159 4578 5.416083 AGTGTTACATGTCGCTAATAGCAA 58.584 37.500 13.15 0.00 42.58 3.91
3280 4699 3.769739 TGGTAAGCATCACAGTTGACT 57.230 42.857 0.00 0.00 33.38 3.41
3355 4774 1.735386 CAACACCTGCATCTCTGAGG 58.265 55.000 4.59 0.00 0.00 3.86
3439 4858 5.593095 TGATATTAGACACGTGCTAGGAAGT 59.407 40.000 17.22 0.00 0.00 3.01
3488 4907 6.660722 ACAAATGAATTTTCAGCGTACGTAA 58.339 32.000 17.90 6.44 41.08 3.18
3535 5368 5.886960 ATGAACCTAAAACTGCAGCTAAG 57.113 39.130 15.27 6.31 0.00 2.18
3551 5384 7.466590 GCTGCATTAGAGAAAAGAGTATGAACC 60.467 40.741 0.00 0.00 0.00 3.62
3553 5386 6.540189 GGCTGCATTAGAGAAAAGAGTATGAA 59.460 38.462 0.50 0.00 0.00 2.57
3554 5387 6.051717 GGCTGCATTAGAGAAAAGAGTATGA 58.948 40.000 0.50 0.00 0.00 2.15
3555 5388 5.819379 TGGCTGCATTAGAGAAAAGAGTATG 59.181 40.000 0.50 0.00 0.00 2.39
3556 5389 5.994250 TGGCTGCATTAGAGAAAAGAGTAT 58.006 37.500 0.50 0.00 0.00 2.12
3558 5391 4.260170 CTGGCTGCATTAGAGAAAAGAGT 58.740 43.478 0.50 0.00 0.00 3.24
3559 5392 4.260170 ACTGGCTGCATTAGAGAAAAGAG 58.740 43.478 0.50 0.00 0.00 2.85
3560 5393 4.256920 GACTGGCTGCATTAGAGAAAAGA 58.743 43.478 0.50 0.00 0.00 2.52
3561 5394 4.005650 TGACTGGCTGCATTAGAGAAAAG 58.994 43.478 0.50 0.00 0.00 2.27
3562 5395 4.005650 CTGACTGGCTGCATTAGAGAAAA 58.994 43.478 0.50 0.00 0.00 2.29
3563 5396 3.603532 CTGACTGGCTGCATTAGAGAAA 58.396 45.455 0.50 0.00 0.00 2.52
3564 5397 2.679059 GCTGACTGGCTGCATTAGAGAA 60.679 50.000 7.57 0.00 40.75 2.87
3565 5398 1.134580 GCTGACTGGCTGCATTAGAGA 60.135 52.381 7.57 0.00 40.75 3.10
3566 5399 1.297664 GCTGACTGGCTGCATTAGAG 58.702 55.000 7.57 0.00 40.75 2.43
3567 5400 0.614812 TGCTGACTGGCTGCATTAGA 59.385 50.000 11.32 0.00 45.05 2.10
3568 5401 3.164026 TGCTGACTGGCTGCATTAG 57.836 52.632 11.32 0.00 45.05 1.73
3573 5406 0.886563 AAAATCTGCTGACTGGCTGC 59.113 50.000 5.30 5.30 41.36 5.25
3574 5407 2.156917 TCAAAATCTGCTGACTGGCTG 58.843 47.619 0.00 0.00 0.00 4.85
3575 5408 2.574006 TCAAAATCTGCTGACTGGCT 57.426 45.000 0.00 0.00 0.00 4.75
3576 5409 3.428589 GGAATCAAAATCTGCTGACTGGC 60.429 47.826 0.00 0.00 0.00 4.85
3577 5410 3.760151 TGGAATCAAAATCTGCTGACTGG 59.240 43.478 0.00 0.00 0.00 4.00
3578 5411 5.578005 ATGGAATCAAAATCTGCTGACTG 57.422 39.130 0.00 0.00 0.00 3.51
3945 5778 7.154656 TCGCCAGCATATATATATGAACCATC 58.845 38.462 29.13 14.45 42.05 3.51
3946 5779 7.066307 TCGCCAGCATATATATATGAACCAT 57.934 36.000 29.13 11.17 42.05 3.55
4007 5840 2.065899 ACAACAAGCCAGCCTTTACA 57.934 45.000 0.00 0.00 0.00 2.41
4045 5911 7.177568 GGAATGCTACTCTGATAGATACTGGAA 59.822 40.741 0.00 0.00 0.00 3.53
4180 6047 2.303022 CAACTTCAGGCTCTGGGTTCTA 59.697 50.000 2.86 0.00 30.63 2.10
4547 6414 3.244976 CAAAGCCGGTAAATTCAAGCAG 58.755 45.455 1.90 0.00 0.00 4.24
4561 6428 2.774439 AAACTTGCTACACAAAGCCG 57.226 45.000 0.00 0.00 42.05 5.52
4613 6480 9.671279 AGAATGATCATATAAACAACAGTGTCA 57.329 29.630 9.04 0.00 36.80 3.58
4710 6577 8.902540 TCCAAATGAGCTACGTATCAAATTAT 57.097 30.769 3.15 0.00 0.00 1.28
4718 6585 5.918608 AGAACATCCAAATGAGCTACGTAT 58.081 37.500 0.00 0.00 36.67 3.06
4722 6589 5.189180 AGGAAGAACATCCAAATGAGCTAC 58.811 41.667 0.00 0.00 42.27 3.58
4741 6608 2.158066 TGTACAGGAAAGGGAGGAGGAA 60.158 50.000 0.00 0.00 0.00 3.36
4745 6612 2.637872 CACTTGTACAGGAAAGGGAGGA 59.362 50.000 12.54 0.00 0.00 3.71
4768 6635 8.286800 CCATTAATCGAAAAACTGTCTACAACA 58.713 33.333 0.00 0.00 36.18 3.33
4803 6670 0.392193 AAAGATCAGCCGGCAGACTG 60.392 55.000 31.54 18.66 35.15 3.51
4808 6675 3.823873 TCTTTTAAAAAGATCAGCCGGCA 59.176 39.130 31.54 9.64 0.00 5.69
4851 6718 3.260483 GCTCGATGCGCCACTCTG 61.260 66.667 4.18 0.00 0.00 3.35
4984 6852 7.846644 ATGTTGCAAAAAGATGAAGACAAAA 57.153 28.000 0.00 0.00 0.00 2.44
5026 6896 3.434596 GGCATCTTACCGTTCCCCTTAAT 60.435 47.826 0.00 0.00 0.00 1.40
5038 6908 0.175760 TGCGTCTCTGGCATCTTACC 59.824 55.000 0.00 0.00 35.04 2.85
5044 6914 2.125912 GTCGTGCGTCTCTGGCAT 60.126 61.111 0.00 0.00 43.19 4.40
5047 6917 2.016704 GTGTGTCGTGCGTCTCTGG 61.017 63.158 0.00 0.00 0.00 3.86
5051 6921 1.226745 TTTCGTGTGTCGTGCGTCT 60.227 52.632 0.00 0.00 40.80 4.18
5056 6926 0.716666 TGTGTGTTTCGTGTGTCGTG 59.283 50.000 0.00 0.00 40.80 4.35
5059 6929 2.350192 TGTGATGTGTGTTTCGTGTGTC 59.650 45.455 0.00 0.00 0.00 3.67
5115 6991 1.153147 GACTGATTTCTCGGCCCCC 60.153 63.158 0.00 0.00 0.00 5.40
5137 7013 3.585732 AGTAAGGAAAACGATTCCCCTCA 59.414 43.478 17.27 0.00 39.39 3.86
5147 7023 4.688879 TGACATGTAGCAGTAAGGAAAACG 59.311 41.667 0.00 0.00 0.00 3.60
5155 7031 4.245660 GCTTCAGTGACATGTAGCAGTAA 58.754 43.478 10.47 0.00 41.63 2.24
5160 7036 1.002366 CCGCTTCAGTGACATGTAGC 58.998 55.000 0.00 1.61 39.44 3.58
5161 7037 2.370281 ACCGCTTCAGTGACATGTAG 57.630 50.000 0.00 0.00 0.00 2.74
5162 7038 2.831685 AACCGCTTCAGTGACATGTA 57.168 45.000 0.00 0.00 0.00 2.29
5186 7062 1.149361 TGACTGGCGACGTCAACAAC 61.149 55.000 17.16 10.42 39.61 3.32
5197 7074 3.963383 AAACTGTTTTAGTGACTGGCG 57.037 42.857 0.00 0.00 40.26 5.69
5281 7158 3.533105 TGGTCGAGGTGTGCACGT 61.533 61.111 13.13 0.00 0.00 4.49
5307 7184 2.625737 CAGGTATTGAGAGTGGTGCTG 58.374 52.381 0.00 0.00 0.00 4.41
5311 7188 3.195825 GTGTAGCAGGTATTGAGAGTGGT 59.804 47.826 0.00 0.00 0.00 4.16
5312 7189 3.430929 GGTGTAGCAGGTATTGAGAGTGG 60.431 52.174 0.00 0.00 0.00 4.00
5313 7190 3.195610 TGGTGTAGCAGGTATTGAGAGTG 59.804 47.826 0.00 0.00 0.00 3.51
5314 7191 3.441101 TGGTGTAGCAGGTATTGAGAGT 58.559 45.455 0.00 0.00 0.00 3.24
5327 7218 3.334583 TCATCCTTGACTTGGTGTAGC 57.665 47.619 0.00 0.00 0.00 3.58
5354 7245 5.048991 AGGATGTTGACACGTTGGTTTATTC 60.049 40.000 0.00 0.00 0.00 1.75
5355 7246 4.825085 AGGATGTTGACACGTTGGTTTATT 59.175 37.500 0.00 0.00 0.00 1.40
5356 7247 4.215399 CAGGATGTTGACACGTTGGTTTAT 59.785 41.667 0.00 0.00 0.00 1.40
5357 7248 3.562141 CAGGATGTTGACACGTTGGTTTA 59.438 43.478 0.00 0.00 0.00 2.01
5364 7255 0.667487 CGCTCAGGATGTTGACACGT 60.667 55.000 0.00 0.00 37.40 4.49
5392 7283 0.251354 TCTCAGATTGCAGTGGCCTC 59.749 55.000 3.32 0.00 40.13 4.70
5396 7287 3.278668 AATCCTCTCAGATTGCAGTGG 57.721 47.619 0.00 0.00 35.15 4.00
5400 7291 4.202441 GCCTAAAATCCTCTCAGATTGCA 58.798 43.478 0.00 0.00 36.59 4.08
5408 7299 5.415701 TGTTTCATGTGCCTAAAATCCTCTC 59.584 40.000 0.00 0.00 0.00 3.20
5465 7356 1.193426 GTCACGTTTCTTCTGCTGCTC 59.807 52.381 0.00 0.00 0.00 4.26
5467 7358 0.111089 CGTCACGTTTCTTCTGCTGC 60.111 55.000 0.00 0.00 0.00 5.25


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

AutoCloner maintained by Alex Coulton.