Multiple sequence alignment - TraesCS7A01G162900

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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 TraesCS7A01G162900 chr7A 100.000 3010 0 0 1 3010 119089077 119092086 0.000000e+00 5559.0
1 TraesCS7A01G162900 chr7A 94.268 942 48 3 2071 3010 26226316 26225379 0.000000e+00 1435.0
2 TraesCS7A01G162900 chr7A 94.118 272 15 1 1710 1981 107342690 107342420 2.160000e-111 412.0
3 TraesCS7A01G162900 chr7A 100.000 31 0 0 1309 1339 119090346 119090376 1.170000e-04 58.4
4 TraesCS7A01G162900 chr7A 100.000 31 0 0 1270 1300 119090385 119090415 1.170000e-04 58.4
5 TraesCS7A01G162900 chr4B 92.007 1664 100 17 1349 3010 555046767 555045135 0.000000e+00 2305.0
6 TraesCS7A01G162900 chr4B 89.951 816 61 8 1 807 555049169 555048366 0.000000e+00 1033.0
7 TraesCS7A01G162900 chr4B 92.381 210 16 0 1100 1309 555047771 555047562 1.750000e-77 300.0
8 TraesCS7A01G162900 chr4B 77.647 170 13 8 729 876 9806245 9806411 2.490000e-11 80.5
9 TraesCS7A01G162900 chr3D 96.350 959 33 2 2053 3010 281245223 281244266 0.000000e+00 1576.0
10 TraesCS7A01G162900 chr3D 95.346 967 41 4 2044 3010 555075821 555076783 0.000000e+00 1533.0
11 TraesCS7A01G162900 chr3D 95.511 958 39 3 2053 3010 214436444 214435491 0.000000e+00 1528.0
12 TraesCS7A01G162900 chr3D 95.129 349 17 0 1354 1702 505862320 505862668 4.390000e-153 551.0
13 TraesCS7A01G162900 chr3D 95.745 329 13 1 1717 2045 281245599 281245272 2.050000e-146 529.0
14 TraesCS7A01G162900 chr3D 94.833 329 17 0 1717 2045 555075453 555075781 5.750000e-142 514.0
15 TraesCS7A01G162900 chr3D 88.356 292 31 3 1 289 482114549 482114840 6.180000e-92 348.0
16 TraesCS7A01G162900 chr1D 94.603 945 46 2 2067 3010 408983691 408984631 0.000000e+00 1458.0
17 TraesCS7A01G162900 chr1B 94.161 942 45 4 2071 3010 671834119 671835052 0.000000e+00 1426.0
18 TraesCS7A01G162900 chr1B 95.094 265 13 0 1717 1981 637156361 637156625 4.640000e-113 418.0
19 TraesCS7A01G162900 chr7D 93.949 942 51 5 2071 3010 158643809 158642872 0.000000e+00 1419.0
20 TraesCS7A01G162900 chr6A 93.949 942 51 3 2071 3010 580786751 580787688 0.000000e+00 1419.0
21 TraesCS7A01G162900 chr4D 93.737 942 53 3 2071 3010 251091528 251090591 0.000000e+00 1408.0
22 TraesCS7A01G162900 chr4D 90.315 413 37 3 1 411 195843121 195843532 3.410000e-149 538.0
23 TraesCS7A01G162900 chr4D 88.356 292 30 4 1 289 434799828 434800118 6.180000e-92 348.0
24 TraesCS7A01G162900 chr4D 85.933 327 14 15 408 731 195845610 195845907 1.350000e-83 320.0
25 TraesCS7A01G162900 chr1A 97.421 349 9 0 1354 1702 232829344 232829692 2.000000e-166 595.0
26 TraesCS7A01G162900 chr1A 88.356 292 30 3 1 289 582397224 582397514 6.180000e-92 348.0
27 TraesCS7A01G162900 chr1A 93.182 44 3 0 833 876 501633504 501633547 6.970000e-07 65.8
28 TraesCS7A01G162900 chr5D 96.848 349 11 0 1354 1702 448351345 448351693 4.320000e-163 584.0
29 TraesCS7A01G162900 chr3A 96.848 349 11 0 1354 1702 71339383 71339731 4.320000e-163 584.0
30 TraesCS7A01G162900 chr3A 94.717 265 14 0 1717 1981 18662435 18662171 2.160000e-111 412.0
31 TraesCS7A01G162900 chr3A 87.500 120 14 1 316 434 618102185 618102066 1.460000e-28 137.0
32 TraesCS7A01G162900 chr3A 83.582 67 10 1 810 876 18664349 18664284 9.010000e-06 62.1
33 TraesCS7A01G162900 chr2D 96.275 349 13 0 1354 1702 637071066 637070718 9.360000e-160 573.0
34 TraesCS7A01G162900 chr2D 90.566 53 5 0 833 885 545483550 545483602 1.500000e-08 71.3
35 TraesCS7A01G162900 chr7B 95.989 349 14 0 1354 1702 645898250 645898598 4.350000e-158 568.0
36 TraesCS7A01G162900 chr7B 92.705 329 23 1 1717 2045 729441015 729441342 9.770000e-130 473.0
37 TraesCS7A01G162900 chr7B 90.774 336 28 3 1710 2045 67447507 67447175 2.130000e-121 446.0
38 TraesCS7A01G162900 chr7B 93.182 44 3 0 833 876 125076570 125076613 6.970000e-07 65.8
39 TraesCS7A01G162900 chr2B 96.375 331 12 0 1354 1684 719484853 719485183 2.040000e-151 545.0
40 TraesCS7A01G162900 chr2B 94.529 329 17 1 1717 2045 318195588 318195915 9.630000e-140 507.0
41 TraesCS7A01G162900 chr2B 91.837 245 18 1 793 1037 38677079 38676837 1.030000e-89 340.0
42 TraesCS7A01G162900 chr2B 90.952 210 17 1 1099 1308 38676435 38676228 6.350000e-72 281.0
43 TraesCS7A01G162900 chr2B 85.714 133 17 2 303 434 792110200 792110331 4.050000e-29 139.0
44 TraesCS7A01G162900 chr2B 85.496 131 17 2 305 434 765180571 765180442 5.230000e-28 135.0
45 TraesCS7A01G162900 chr2B 84.962 133 19 1 303 434 254789423 254789291 1.880000e-27 134.0
46 TraesCS7A01G162900 chr2B 91.489 47 4 0 830 876 311965245 311965291 6.970000e-07 65.8
47 TraesCS7A01G162900 chr2B 85.294 68 5 3 810 875 361686613 361686677 6.970000e-07 65.8
48 TraesCS7A01G162900 chr2A 95.312 320 14 1 1354 1672 160097907 160098226 9.630000e-140 507.0
49 TraesCS7A01G162900 chr3B 89.384 292 27 4 1 289 68545454 68545164 6.130000e-97 364.0
50 TraesCS7A01G162900 chr3B 88.660 291 31 2 1 289 740565287 740564997 1.330000e-93 353.0
51 TraesCS7A01G162900 chr3B 84.962 133 19 1 303 434 403863689 403863821 1.880000e-27 134.0
52 TraesCS7A01G162900 chr3B 85.075 134 16 4 303 434 782856348 782856479 1.880000e-27 134.0
53 TraesCS7A01G162900 chr5A 89.347 291 27 3 1 289 566395579 566395291 2.210000e-96 363.0
54 TraesCS7A01G162900 chr5A 88.889 288 29 3 4 289 261865662 261865376 4.770000e-93 351.0
55 TraesCS7A01G162900 chr5A 85.507 69 5 3 810 876 415816255 415816190 1.940000e-07 67.6
56 TraesCS7A01G162900 chr5B 85.714 133 18 1 303 434 702330342 702330210 4.050000e-29 139.0


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 TraesCS7A01G162900 chr7A 119089077 119092086 3009 False 1891.933333 5559 100.000000 1 3010 3 chr7A.!!$F1 3009
1 TraesCS7A01G162900 chr7A 26225379 26226316 937 True 1435.000000 1435 94.268000 2071 3010 1 chr7A.!!$R1 939
2 TraesCS7A01G162900 chr4B 555045135 555049169 4034 True 1212.666667 2305 91.446333 1 3010 3 chr4B.!!$R1 3009
3 TraesCS7A01G162900 chr3D 214435491 214436444 953 True 1528.000000 1528 95.511000 2053 3010 1 chr3D.!!$R1 957
4 TraesCS7A01G162900 chr3D 281244266 281245599 1333 True 1052.500000 1576 96.047500 1717 3010 2 chr3D.!!$R2 1293
5 TraesCS7A01G162900 chr3D 555075453 555076783 1330 False 1023.500000 1533 95.089500 1717 3010 2 chr3D.!!$F3 1293
6 TraesCS7A01G162900 chr1D 408983691 408984631 940 False 1458.000000 1458 94.603000 2067 3010 1 chr1D.!!$F1 943
7 TraesCS7A01G162900 chr1B 671834119 671835052 933 False 1426.000000 1426 94.161000 2071 3010 1 chr1B.!!$F2 939
8 TraesCS7A01G162900 chr7D 158642872 158643809 937 True 1419.000000 1419 93.949000 2071 3010 1 chr7D.!!$R1 939
9 TraesCS7A01G162900 chr6A 580786751 580787688 937 False 1419.000000 1419 93.949000 2071 3010 1 chr6A.!!$F1 939
10 TraesCS7A01G162900 chr4D 251090591 251091528 937 True 1408.000000 1408 93.737000 2071 3010 1 chr4D.!!$R1 939
11 TraesCS7A01G162900 chr4D 195843121 195845907 2786 False 429.000000 538 88.124000 1 731 2 chr4D.!!$F2 730
12 TraesCS7A01G162900 chr3A 18662171 18664349 2178 True 237.050000 412 89.149500 810 1981 2 chr3A.!!$R2 1171
13 TraesCS7A01G162900 chr2B 38676228 38677079 851 True 310.500000 340 91.394500 793 1308 2 chr2B.!!$R3 515

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
31 32 0.618458 ACCCGCTTTCAGCTGGATTA 59.382 50.0 15.13 0.0 46.97 1.75 F
617 2708 0.692419 AGGAGGAGCGGATGGTCAAT 60.692 55.0 0.00 0.0 44.47 2.57 F
1402 5781 0.383949 TCTTGCCGTTTTTGGTGAGC 59.616 50.0 0.00 0.0 0.00 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1180 3974 0.375803 GGAACTTGCGTTGTCGTTGT 59.624 50.000 0.0 0.0 39.49 3.32 R
1911 6292 0.872881 CGGTCAACACCTTCGTCGTT 60.873 55.000 0.0 0.0 41.17 3.85 R
2747 7172 2.353208 CGCCAGAGAGGATATGGTAAGC 60.353 54.545 0.0 0.0 42.69 3.09 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
23 24 3.641437 TCAAATTTGACCCGCTTTCAG 57.359 42.857 16.91 0.00 31.01 3.02
30 31 0.678048 GACCCGCTTTCAGCTGGATT 60.678 55.000 15.13 0.00 46.97 3.01
31 32 0.618458 ACCCGCTTTCAGCTGGATTA 59.382 50.000 15.13 0.00 46.97 1.75
55 56 4.102649 CGGAAGTTTGTCTTTTTCACCAC 58.897 43.478 0.00 0.00 36.40 4.16
57 58 5.474825 GGAAGTTTGTCTTTTTCACCACAA 58.525 37.500 0.00 0.00 36.40 3.33
73 74 3.638484 CCACAAGTGGGTCGAAAATTTC 58.362 45.455 11.43 0.00 46.81 2.17
153 154 7.778470 TTGATTTGGTCCAATTTTACAACAC 57.222 32.000 4.80 0.00 0.00 3.32
240 244 7.969536 TTTGTCCAAAACAATGAAAACTTCA 57.030 28.000 0.00 0.00 46.94 3.02
537 2624 8.675705 AAAGAAAAAGAAGAAAGAGAGAGAGG 57.324 34.615 0.00 0.00 0.00 3.69
538 2625 6.768483 AGAAAAAGAAGAAAGAGAGAGAGGG 58.232 40.000 0.00 0.00 0.00 4.30
539 2626 6.556874 AGAAAAAGAAGAAAGAGAGAGAGGGA 59.443 38.462 0.00 0.00 0.00 4.20
540 2627 6.358974 AAAAGAAGAAAGAGAGAGAGGGAG 57.641 41.667 0.00 0.00 0.00 4.30
541 2628 4.946160 AGAAGAAAGAGAGAGAGGGAGA 57.054 45.455 0.00 0.00 0.00 3.71
542 2629 4.860022 AGAAGAAAGAGAGAGAGGGAGAG 58.140 47.826 0.00 0.00 0.00 3.20
617 2708 0.692419 AGGAGGAGCGGATGGTCAAT 60.692 55.000 0.00 0.00 44.47 2.57
628 2719 5.760253 AGCGGATGGTCAATATTTGTTCTAG 59.240 40.000 0.00 0.00 0.00 2.43
776 2868 1.063341 TCAGATCCTCTCCCACTCCAG 60.063 57.143 0.00 0.00 0.00 3.86
807 2899 1.829261 CGCCTAGATCCAATCCCTCCT 60.829 57.143 0.00 0.00 0.00 3.69
808 2900 2.557676 CGCCTAGATCCAATCCCTCCTA 60.558 54.545 0.00 0.00 0.00 2.94
820 2912 4.159108 CTCCTACCCTCCCGCCCT 62.159 72.222 0.00 0.00 0.00 5.19
831 2923 1.185618 TCCCGCCCTAGATCCAATCG 61.186 60.000 0.00 0.00 0.00 3.34
836 2928 1.638529 CCCTAGATCCAATCGCTCCT 58.361 55.000 0.00 0.00 0.00 3.69
919 3011 1.447838 ATCAACCGCACTACAGCCG 60.448 57.895 0.00 0.00 0.00 5.52
951 3043 4.353325 AGAGCAGCTGAGATCCGT 57.647 55.556 20.43 0.00 0.00 4.69
964 3056 1.305802 ATCCGTGTCCCAGCACCTA 60.306 57.895 0.00 0.00 36.08 3.08
1001 3093 3.900892 CTCGCCCGCCTACACGAT 61.901 66.667 0.00 0.00 33.53 3.73
1029 3121 2.277072 CTCCTCTCCTCTCGCCCA 59.723 66.667 0.00 0.00 0.00 5.36
1122 3727 3.037549 TGATTTGTTTTGGGCCTTCACT 58.962 40.909 4.53 0.00 0.00 3.41
1169 3963 1.671054 ACATTGCTTCCCCACGACG 60.671 57.895 0.00 0.00 0.00 5.12
1180 3974 1.524165 CCACGACGGGACCAAACAA 60.524 57.895 0.00 0.00 0.00 2.83
1189 3983 1.473278 GGGACCAAACAACAACGACAA 59.527 47.619 0.00 0.00 0.00 3.18
1291 4618 6.127535 TGGGTACTAGTAGTATGCTTGTGTTC 60.128 42.308 13.09 0.00 37.36 3.18
1309 4636 6.230472 TGTGTTCTTGTAGCATATCAACTGT 58.770 36.000 0.00 0.00 0.00 3.55
1310 4637 7.382898 TGTGTTCTTGTAGCATATCAACTGTA 58.617 34.615 0.00 0.00 0.00 2.74
1311 4638 7.330946 TGTGTTCTTGTAGCATATCAACTGTAC 59.669 37.037 0.00 0.00 0.00 2.90
1312 4639 7.545965 GTGTTCTTGTAGCATATCAACTGTACT 59.454 37.037 0.00 0.00 0.00 2.73
1314 5467 9.239002 GTTCTTGTAGCATATCAACTGTACTAG 57.761 37.037 0.00 0.00 0.00 2.57
1316 5469 9.623000 TCTTGTAGCATATCAACTGTACTAGTA 57.377 33.333 0.00 0.00 39.18 1.82
1318 5471 8.975663 TGTAGCATATCAACTGTACTAGTAGT 57.024 34.615 8.14 8.14 39.18 2.73
1329 5482 7.463961 ACTGTACTAGTAGTATGCTTGTGTT 57.536 36.000 13.09 0.00 37.36 3.32
1330 5483 7.536855 ACTGTACTAGTAGTATGCTTGTGTTC 58.463 38.462 13.09 0.00 37.36 3.18
1333 5486 8.027189 TGTACTAGTAGTATGCTTGTGTTCTTG 58.973 37.037 13.09 0.00 37.36 3.02
1337 5490 5.869888 AGTAGTATGCTTGTGTTCTTGTAGC 59.130 40.000 0.00 0.00 0.00 3.58
1338 5491 4.641396 AGTATGCTTGTGTTCTTGTAGCA 58.359 39.130 0.00 0.00 44.91 3.49
1339 5492 5.063204 AGTATGCTTGTGTTCTTGTAGCAA 58.937 37.500 0.00 0.00 44.12 3.91
1340 5493 3.969117 TGCTTGTGTTCTTGTAGCAAG 57.031 42.857 2.71 2.71 38.76 4.01
1341 5494 3.278574 TGCTTGTGTTCTTGTAGCAAGT 58.721 40.909 8.48 0.00 38.76 3.16
1343 5496 4.201910 TGCTTGTGTTCTTGTAGCAAGTTC 60.202 41.667 8.48 4.62 38.76 3.01
1344 5497 4.789802 GCTTGTGTTCTTGTAGCAAGTTCC 60.790 45.833 8.48 0.36 38.84 3.62
1345 5498 3.211045 TGTGTTCTTGTAGCAAGTTCCC 58.789 45.455 8.48 0.00 0.00 3.97
1346 5499 2.223377 GTGTTCTTGTAGCAAGTTCCCG 59.777 50.000 8.48 0.00 0.00 5.14
1347 5500 2.158871 TGTTCTTGTAGCAAGTTCCCGT 60.159 45.455 8.48 0.00 0.00 5.28
1400 5779 1.464734 TGTCTTGCCGTTTTTGGTGA 58.535 45.000 0.00 0.00 0.00 4.02
1402 5781 0.383949 TCTTGCCGTTTTTGGTGAGC 59.616 50.000 0.00 0.00 0.00 4.26
1432 5811 4.120946 TGGGGCTAAAACCACTGTTTAT 57.879 40.909 0.00 0.00 43.80 1.40
1476 5855 6.560003 TTAGCTATGAGATGTGAGGGAAAA 57.440 37.500 0.00 0.00 0.00 2.29
1478 5857 6.011122 AGCTATGAGATGTGAGGGAAAAAT 57.989 37.500 0.00 0.00 0.00 1.82
1506 5885 4.828939 ACCTCAAATGTGTGTCATCATGTT 59.171 37.500 0.00 0.00 35.48 2.71
1525 5904 4.133820 TGTTACTGTTGTGACCCTTCATG 58.866 43.478 0.00 0.00 33.11 3.07
1533 5912 5.242838 TGTTGTGACCCTTCATGTTATTTCC 59.757 40.000 0.00 0.00 33.11 3.13
1534 5913 4.006989 TGTGACCCTTCATGTTATTTCCG 58.993 43.478 0.00 0.00 33.11 4.30
1554 5933 3.519579 CGTGCTGAGATTGTGAGATTCT 58.480 45.455 0.00 0.00 0.00 2.40
1584 5963 7.609532 AGGACCATAAAGTTCATTCTCTTTCAG 59.390 37.037 0.00 0.00 35.79 3.02
1693 6072 6.998673 ACTTTATTATCACCTGCCATAAGGAC 59.001 38.462 0.00 0.00 40.02 3.85
1924 6305 1.282248 CGCATCAACGACGAAGGTGT 61.282 55.000 0.00 0.00 34.06 4.16
2045 6426 2.038813 CTCCCCGCCCCCAAAATT 59.961 61.111 0.00 0.00 0.00 1.82
2050 6472 2.104132 CGCCCCCAAAATTAGCGC 59.896 61.111 0.00 0.00 40.35 5.92
2051 6473 2.499205 GCCCCCAAAATTAGCGCC 59.501 61.111 2.29 0.00 0.00 6.53
2060 6482 2.510064 AAATTAGCGCCGTCGGTCCA 62.510 55.000 13.94 0.00 46.03 4.02
2071 6493 0.462047 GTCGGTCCATCGCCTGATTT 60.462 55.000 0.00 0.00 30.49 2.17
2151 6574 6.837048 TGCTTGTCACTCCATAGGTTATAGTA 59.163 38.462 0.00 0.00 0.00 1.82
2265 6688 2.810852 TCGTGCATGTATTGAACTGCAA 59.189 40.909 5.68 0.00 41.05 4.08
2358 6781 7.044181 TGTCTGCTTCTTATCTTATTGAGTGG 58.956 38.462 0.00 0.00 0.00 4.00
2588 7013 8.747538 TTCTTAACAATAAGCCTAGAATTCCC 57.252 34.615 0.65 0.00 38.73 3.97
2596 7021 2.432510 AGCCTAGAATTCCCGACTCTTG 59.567 50.000 0.65 0.00 0.00 3.02
2610 7035 6.267699 TCCCGACTCTTGTGTTATATGATCAT 59.732 38.462 13.81 13.81 0.00 2.45
2637 7062 3.466836 TCCTGCTTCAACAACTGTACTG 58.533 45.455 0.00 0.00 0.00 2.74
2747 7172 6.296026 TGTGGGCTGCTAATAGTATTTTAGG 58.704 40.000 0.00 0.00 0.00 2.69
2827 7252 3.338249 AGTATCTGCAACATTCAGCGTT 58.662 40.909 0.00 0.00 0.00 4.84
2839 7264 0.250252 TCAGCGTTGAAGATGGTGCA 60.250 50.000 0.00 0.00 41.46 4.57
2933 7358 0.527817 GCCTGAAGCTTGATGCATGC 60.528 55.000 11.82 11.82 45.94 4.06
3001 7426 3.026694 TGCTCTGTTATCTAGCAGCAGA 58.973 45.455 0.00 9.33 41.15 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 5.631948 AAGACAAACTTCCGCTAATCCAGC 61.632 45.833 0.00 0.00 39.73 4.85
30 31 4.035909 GGTGAAAAAGACAAACTTCCGCTA 59.964 41.667 0.00 0.00 37.93 4.26
31 32 3.181490 GGTGAAAAAGACAAACTTCCGCT 60.181 43.478 0.00 0.00 37.93 5.52
65 66 6.418141 CAAATGGTTGGTTGTCGAAATTTTC 58.582 36.000 0.00 0.00 0.00 2.29
95 96 4.717233 TTAGGCCATGTTTAATGCACAG 57.283 40.909 5.01 0.00 0.00 3.66
147 148 6.385759 TGAAGGACCTACCATATATGTGTTGT 59.614 38.462 11.73 9.39 42.04 3.32
153 154 8.746052 TTTTTGTGAAGGACCTACCATATATG 57.254 34.615 5.68 5.68 42.04 1.78
248 252 4.823157 CATCTTGGAATGGCAAACAATGA 58.177 39.130 0.00 0.00 0.00 2.57
524 2611 4.164221 TCTCTCTCTCCCTCTCTCTCTTTC 59.836 50.000 0.00 0.00 0.00 2.62
533 2620 3.051803 TCTCTCTCTCTCTCTCTCCCTCT 60.052 52.174 0.00 0.00 0.00 3.69
534 2621 3.309296 TCTCTCTCTCTCTCTCTCCCTC 58.691 54.545 0.00 0.00 0.00 4.30
535 2622 3.051803 TCTCTCTCTCTCTCTCTCTCCCT 60.052 52.174 0.00 0.00 0.00 4.20
536 2623 3.309296 TCTCTCTCTCTCTCTCTCTCCC 58.691 54.545 0.00 0.00 0.00 4.30
537 2624 4.219115 TCTCTCTCTCTCTCTCTCTCTCC 58.781 52.174 0.00 0.00 0.00 3.71
538 2625 5.362430 ACTTCTCTCTCTCTCTCTCTCTCTC 59.638 48.000 0.00 0.00 0.00 3.20
539 2626 5.128499 CACTTCTCTCTCTCTCTCTCTCTCT 59.872 48.000 0.00 0.00 0.00 3.10
540 2627 5.105146 ACACTTCTCTCTCTCTCTCTCTCTC 60.105 48.000 0.00 0.00 0.00 3.20
541 2628 4.780021 ACACTTCTCTCTCTCTCTCTCTCT 59.220 45.833 0.00 0.00 0.00 3.10
542 2629 5.091261 ACACTTCTCTCTCTCTCTCTCTC 57.909 47.826 0.00 0.00 0.00 3.20
617 2708 4.240323 GGATCCCTCCCCTAGAACAAATA 58.760 47.826 0.00 0.00 35.28 1.40
744 2836 1.757699 AGGATCTGAGTTAGGGTTCGC 59.242 52.381 0.00 0.00 0.00 4.70
782 2874 0.394565 GATTGGATCTAGGCGGCAGT 59.605 55.000 13.08 0.00 0.00 4.40
791 2883 3.077695 GAGGGTAGGAGGGATTGGATCTA 59.922 52.174 0.00 0.00 0.00 1.98
807 2899 1.463824 GATCTAGGGCGGGAGGGTA 59.536 63.158 0.00 0.00 0.00 3.69
808 2900 2.201771 GATCTAGGGCGGGAGGGT 59.798 66.667 0.00 0.00 0.00 4.34
820 2912 4.697514 CAAGAAAGGAGCGATTGGATCTA 58.302 43.478 0.00 0.00 0.00 1.98
831 2923 2.174349 CGCGTGCAAGAAAGGAGC 59.826 61.111 2.99 0.00 0.00 4.70
836 2928 4.007940 GCCGACGCGTGCAAGAAA 62.008 61.111 20.70 0.00 0.00 2.52
892 2984 1.918293 TGCGGTTGATGGAGAGGGT 60.918 57.895 0.00 0.00 0.00 4.34
919 3011 2.280119 TCTGGTGTGTGTCGCAGC 60.280 61.111 5.70 5.70 41.85 5.25
951 3043 4.063967 CGCGTAGGTGCTGGGACA 62.064 66.667 0.00 0.00 0.00 4.02
964 3056 2.264794 GATGACCACCTTCCGCGT 59.735 61.111 4.92 0.00 0.00 6.01
1001 3093 1.610673 GAGAGGAGACAGGTGGGCA 60.611 63.158 0.00 0.00 0.00 5.36
1122 3727 2.579201 GGAGGAACTAGCGCTGCA 59.421 61.111 22.90 0.00 41.55 4.41
1151 3945 1.671054 CGTCGTGGGGAAGCAATGT 60.671 57.895 0.00 0.00 0.00 2.71
1169 3963 1.096416 TGTCGTTGTTGTTTGGTCCC 58.904 50.000 0.00 0.00 0.00 4.46
1180 3974 0.375803 GGAACTTGCGTTGTCGTTGT 59.624 50.000 0.00 0.00 39.49 3.32
1189 3983 1.466025 TAGTGGACGGGAACTTGCGT 61.466 55.000 0.00 0.00 0.00 5.24
1244 4571 6.218746 CCAAAATCTGAAGAGGAAAAACTGG 58.781 40.000 0.00 0.00 0.00 4.00
1291 4618 9.885934 CTACTAGTACAGTTGATATGCTACAAG 57.114 37.037 0.00 0.00 38.80 3.16
1309 4636 8.118976 ACAAGAACACAAGCATACTACTAGTA 57.881 34.615 1.89 1.89 34.82 1.82
1310 4637 6.994221 ACAAGAACACAAGCATACTACTAGT 58.006 36.000 0.00 0.00 0.00 2.57
1311 4638 7.221067 GCTACAAGAACACAAGCATACTACTAG 59.779 40.741 0.00 0.00 33.38 2.57
1312 4639 7.033791 GCTACAAGAACACAAGCATACTACTA 58.966 38.462 0.00 0.00 33.38 1.82
1314 5467 5.637810 TGCTACAAGAACACAAGCATACTAC 59.362 40.000 0.00 0.00 38.22 2.73
1316 5469 4.641396 TGCTACAAGAACACAAGCATACT 58.359 39.130 0.00 0.00 38.22 2.12
1318 5471 5.063204 ACTTGCTACAAGAACACAAGCATA 58.937 37.500 13.94 0.00 42.34 3.14
1320 5473 3.278574 ACTTGCTACAAGAACACAAGCA 58.721 40.909 13.94 0.00 41.06 3.91
1329 5482 1.001633 GGACGGGAACTTGCTACAAGA 59.998 52.381 13.94 0.00 0.00 3.02
1330 5483 1.439679 GGACGGGAACTTGCTACAAG 58.560 55.000 5.80 5.80 0.00 3.16
1333 5486 2.098831 GCGGACGGGAACTTGCTAC 61.099 63.158 0.00 0.00 0.00 3.58
1337 5490 3.659089 ATCGGCGGACGGGAACTTG 62.659 63.158 7.21 0.00 44.45 3.16
1338 5491 1.606885 TAATCGGCGGACGGGAACTT 61.607 55.000 7.21 0.00 44.45 2.66
1339 5492 2.053865 TAATCGGCGGACGGGAACT 61.054 57.895 7.21 0.00 44.45 3.01
1340 5493 1.879884 GTAATCGGCGGACGGGAAC 60.880 63.158 7.21 0.00 44.45 3.62
1341 5494 2.053865 AGTAATCGGCGGACGGGAA 61.054 57.895 7.21 0.00 44.45 3.97
1343 5496 2.279252 CAGTAATCGGCGGACGGG 60.279 66.667 7.21 0.00 44.45 5.28
1344 5497 2.279252 CCAGTAATCGGCGGACGG 60.279 66.667 7.21 3.89 44.45 4.79
1345 5498 0.738412 AAACCAGTAATCGGCGGACG 60.738 55.000 7.21 0.00 46.11 4.79
1346 5499 1.445871 AAAACCAGTAATCGGCGGAC 58.554 50.000 7.21 2.98 0.00 4.79
1347 5500 2.896168 CTAAAACCAGTAATCGGCGGA 58.104 47.619 7.21 0.00 0.00 5.54
1402 5781 0.541764 TTTTAGCCCCAAGCCACCAG 60.542 55.000 0.00 0.00 45.47 4.00
1432 5811 4.687901 ATATGACCATCATCAACGACCA 57.312 40.909 0.00 0.00 38.26 4.02
1476 5855 6.707440 TGACACACATTTGAGGTTACAATT 57.293 33.333 0.00 0.00 0.00 2.32
1478 5857 5.825151 TGATGACACACATTTGAGGTTACAA 59.175 36.000 0.00 0.00 39.56 2.41
1506 5885 4.431416 AACATGAAGGGTCACAACAGTA 57.569 40.909 0.00 0.00 36.31 2.74
1525 5904 4.391830 TCACAATCTCAGCACGGAAATAAC 59.608 41.667 0.00 0.00 0.00 1.89
1533 5912 3.519579 AGAATCTCACAATCTCAGCACG 58.480 45.455 0.00 0.00 0.00 5.34
1534 5913 7.384660 CCTATAAGAATCTCACAATCTCAGCAC 59.615 40.741 0.00 0.00 0.00 4.40
1584 5963 4.746115 TGGTACAAAACACGTGTGATAGAC 59.254 41.667 24.16 16.93 31.92 2.59
1664 6043 6.699575 ATGGCAGGTGATAATAAAGTTGAC 57.300 37.500 0.00 0.00 0.00 3.18
1678 6057 1.414181 AGATCGTCCTTATGGCAGGTG 59.586 52.381 0.00 0.00 35.15 4.00
1693 6072 3.622612 TCATGTTTGGTGCATACAGATCG 59.377 43.478 0.00 0.00 29.94 3.69
1887 6268 4.082523 GCGGTGCTGCCAGACCTA 62.083 66.667 0.00 0.00 36.97 3.08
1908 6289 2.519377 TCAACACCTTCGTCGTTGAT 57.481 45.000 0.00 0.00 42.95 2.57
1911 6292 0.872881 CGGTCAACACCTTCGTCGTT 60.873 55.000 0.00 0.00 41.17 3.85
2045 6426 3.896133 GATGGACCGACGGCGCTA 61.896 66.667 15.39 4.68 35.83 4.26
2050 6472 4.873129 CAGGCGATGGACCGACGG 62.873 72.222 13.61 13.61 43.54 4.79
2051 6473 2.629050 AATCAGGCGATGGACCGACG 62.629 60.000 5.88 5.88 43.54 5.12
2060 6482 3.069586 TGGATTAGTCGAAATCAGGCGAT 59.930 43.478 11.04 0.00 38.91 4.58
2071 6493 4.253685 CCAAAAGAAGCTGGATTAGTCGA 58.746 43.478 0.00 0.00 34.35 4.20
2151 6574 5.892348 ACACATAAGGAAACAGAGGGAATT 58.108 37.500 0.00 0.00 0.00 2.17
2353 6776 6.116126 AGCAAGGACATAAAGATAACCACTC 58.884 40.000 0.00 0.00 0.00 3.51
2358 6781 7.048512 ACTGGTAGCAAGGACATAAAGATAAC 58.951 38.462 0.00 0.00 0.00 1.89
2588 7013 8.809159 AAGATGATCATATAACACAAGAGTCG 57.191 34.615 8.54 0.00 0.00 4.18
2596 7021 8.310382 AGCAGGAGTAAGATGATCATATAACAC 58.690 37.037 8.54 5.00 0.00 3.32
2610 7035 4.141711 ACAGTTGTTGAAGCAGGAGTAAGA 60.142 41.667 0.00 0.00 0.00 2.10
2637 7062 6.640518 TCCTTACATACAACAGTCAGGAATC 58.359 40.000 0.00 0.00 35.74 2.52
2747 7172 2.353208 CGCCAGAGAGGATATGGTAAGC 60.353 54.545 0.00 0.00 42.69 3.09
2839 7264 4.589374 GGGCTACAGTAGAACATCTGGTAT 59.411 45.833 12.15 0.00 36.17 2.73


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

AutoCloner maintained by Alex Coulton.