Multiple sequence alignment - TraesCS6B01G067500

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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 TraesCS6B01G067500 chr6B 100.000 3072 0 0 1 3072 45573976 45570905 0.000000e+00 5674.0
1 TraesCS6B01G067500 chr6B 94.071 1147 30 9 1366 2498 45616923 45615801 0.000000e+00 1707.0
2 TraesCS6B01G067500 chr6B 93.196 970 37 7 1632 2573 45598502 45597534 0.000000e+00 1399.0
3 TraesCS6B01G067500 chr6B 94.402 786 41 3 2286 3070 45669483 45668700 0.000000e+00 1205.0
4 TraesCS6B01G067500 chr6B 95.472 530 24 0 1369 1898 45670259 45669730 0.000000e+00 846.0
5 TraesCS6B01G067500 chr6B 88.921 686 37 11 487 1133 45617791 45617106 0.000000e+00 809.0
6 TraesCS6B01G067500 chr6B 91.897 506 39 2 2568 3072 572386613 572386109 0.000000e+00 706.0
7 TraesCS6B01G067500 chr6B 91.617 501 34 7 2570 3066 107818385 107818881 0.000000e+00 686.0
8 TraesCS6B01G067500 chr6B 91.054 503 37 6 2573 3072 423421456 423420959 0.000000e+00 673.0
9 TraesCS6B01G067500 chr6B 95.359 237 11 0 1366 1602 45598733 45598497 8.040000e-101 377.0
10 TraesCS6B01G067500 chr6B 94.915 236 11 1 678 912 45599342 45599107 4.840000e-98 368.0
11 TraesCS6B01G067500 chr6B 84.834 211 21 4 706 912 93914017 93913814 5.190000e-48 202.0
12 TraesCS6B01G067500 chr6B 93.701 127 7 1 1006 1132 45599090 45598965 4.040000e-44 189.0
13 TraesCS6B01G067500 chr6B 84.974 193 17 8 487 667 45599584 45599392 5.230000e-43 185.0
14 TraesCS6B01G067500 chr6B 94.898 98 5 0 815 912 93840087 93839990 1.480000e-33 154.0
15 TraesCS6B01G067500 chr6B 86.567 134 18 0 779 912 45596960 45596827 6.860000e-32 148.0
16 TraesCS6B01G067500 chr6B 86.667 105 12 1 2003 2107 93837557 93837455 6.960000e-22 115.0
17 TraesCS6B01G067500 chr6A 91.076 1199 84 6 1366 2545 26621239 26620045 0.000000e+00 1600.0
18 TraesCS6B01G067500 chr6A 87.770 695 36 12 488 1136 26622009 26621318 0.000000e+00 767.0
19 TraesCS6B01G067500 chr6A 86.256 211 18 4 706 912 58009828 58009625 5.160000e-53 219.0
20 TraesCS6B01G067500 chr6A 88.000 125 15 0 1953 2077 57887257 57887133 6.860000e-32 148.0
21 TraesCS6B01G067500 chr6A 85.714 105 13 1 2003 2107 57929824 57929722 3.240000e-20 110.0
22 TraesCS6B01G067500 chrUn 91.457 913 61 3 1366 2263 95232790 95231880 0.000000e+00 1238.0
23 TraesCS6B01G067500 chrUn 89.781 685 26 12 496 1136 95233555 95232871 0.000000e+00 837.0
24 TraesCS6B01G067500 chrUn 90.024 421 37 4 17 436 95236342 95235926 9.690000e-150 540.0
25 TraesCS6B01G067500 chrUn 96.170 235 9 0 2250 2484 95230349 95230115 4.810000e-103 385.0
26 TraesCS6B01G067500 chrUn 87.245 196 20 3 721 912 18917844 18918038 5.160000e-53 219.0
27 TraesCS6B01G067500 chrUn 86.111 108 13 1 1994 2101 19084637 19084742 6.960000e-22 115.0
28 TraesCS6B01G067500 chrUn 98.387 62 1 0 2438 2499 95230121 95230060 3.240000e-20 110.0
29 TraesCS6B01G067500 chr4B 91.881 505 37 4 2571 3072 25825648 25825145 0.000000e+00 702.0
30 TraesCS6B01G067500 chr4B 92.350 183 12 2 1137 1318 104815566 104815747 3.040000e-65 259.0
31 TraesCS6B01G067500 chr4B 90.104 192 13 4 1137 1322 381111557 381111366 8.510000e-61 244.0
32 TraesCS6B01G067500 chr1B 91.833 502 37 3 2573 3072 589223422 589222923 0.000000e+00 697.0
33 TraesCS6B01G067500 chr1B 90.710 183 15 2 1137 1317 69572484 69572666 3.060000e-60 243.0
34 TraesCS6B01G067500 chr1B 90.659 182 13 2 1140 1317 483598796 483598615 3.960000e-59 239.0
35 TraesCS6B01G067500 chr5B 91.228 513 38 7 2562 3072 458739829 458739322 0.000000e+00 691.0
36 TraesCS6B01G067500 chr5B 90.643 513 43 5 2563 3072 315456679 315457189 0.000000e+00 676.0
37 TraesCS6B01G067500 chr5B 90.693 505 43 4 2569 3072 442777283 442776782 0.000000e+00 669.0
38 TraesCS6B01G067500 chr5B 93.478 184 10 2 1140 1322 107198504 107198322 3.900000e-69 272.0
39 TraesCS6B01G067500 chr4D 94.536 183 9 1 1136 1318 84999371 84999552 6.490000e-72 281.0
40 TraesCS6B01G067500 chr2B 91.979 187 12 3 1133 1318 371564702 371564886 3.040000e-65 259.0
41 TraesCS6B01G067500 chr3B 90.164 183 16 2 1136 1318 416695804 416695984 1.420000e-58 237.0
42 TraesCS6B01G067500 chr3B 89.697 165 11 6 1141 1300 508712864 508713027 4.020000e-49 206.0
43 TraesCS6B01G067500 chr7D 86.957 69 5 4 463 529 225185375 225185441 1.180000e-09 75.0
44 TraesCS6B01G067500 chr7A 86.957 69 4 5 463 529 29341792 29341857 4.250000e-09 73.1
45 TraesCS6B01G067500 chr7A 85.294 68 7 3 440 504 28119714 28119781 1.980000e-07 67.6


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 TraesCS6B01G067500 chr6B 45570905 45573976 3071 True 5674.000000 5674 100.0000 1 3072 1 chr6B.!!$R1 3071
1 TraesCS6B01G067500 chr6B 45615801 45617791 1990 True 1258.000000 1707 91.4960 487 2498 2 chr6B.!!$R6 2011
2 TraesCS6B01G067500 chr6B 45668700 45670259 1559 True 1025.500000 1205 94.9370 1369 3070 2 chr6B.!!$R7 1701
3 TraesCS6B01G067500 chr6B 572386109 572386613 504 True 706.000000 706 91.8970 2568 3072 1 chr6B.!!$R4 504
4 TraesCS6B01G067500 chr6B 45596827 45599584 2757 True 444.333333 1399 91.4520 487 2573 6 chr6B.!!$R5 2086
5 TraesCS6B01G067500 chr6A 26620045 26622009 1964 True 1183.500000 1600 89.4230 488 2545 2 chr6A.!!$R4 2057
6 TraesCS6B01G067500 chrUn 95230060 95236342 6282 True 622.000000 1238 93.1638 17 2499 5 chrUn.!!$R1 2482
7 TraesCS6B01G067500 chr4B 25825145 25825648 503 True 702.000000 702 91.8810 2571 3072 1 chr4B.!!$R1 501
8 TraesCS6B01G067500 chr5B 458739322 458739829 507 True 691.000000 691 91.2280 2562 3072 1 chr5B.!!$R3 510
9 TraesCS6B01G067500 chr5B 315456679 315457189 510 False 676.000000 676 90.6430 2563 3072 1 chr5B.!!$F1 509
10 TraesCS6B01G067500 chr5B 442776782 442777283 501 True 669.000000 669 90.6930 2569 3072 1 chr5B.!!$R2 503

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
436 438 0.036732 TGGCTGGCAGAACTAAGTGG 59.963 55.0 20.86 0.0 0.0 4.0 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2255 4794 0.460987 GCACCGGGAGAAGATGACAG 60.461 60.0 6.32 0.0 0.0 3.51 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
24 25 2.564062 TCGAACGGAGGGAGTAATGTTT 59.436 45.455 0.00 0.00 0.00 2.83
27 28 4.743644 CGAACGGAGGGAGTAATGTTTATC 59.256 45.833 0.00 0.00 0.00 1.75
33 34 2.876550 GGGAGTAATGTTTATCGGGTGC 59.123 50.000 0.00 0.00 0.00 5.01
76 77 4.213906 CCATTTTTGCTTTGGTTCATGGAC 59.786 41.667 0.00 0.00 33.08 4.02
79 80 2.655090 TGCTTTGGTTCATGGACTCA 57.345 45.000 3.62 0.00 0.00 3.41
81 82 4.299586 TGCTTTGGTTCATGGACTCATA 57.700 40.909 3.62 0.00 31.33 2.15
132 133 5.882557 TGGAGATCCAACTAGAAAAGAATGC 59.117 40.000 0.00 0.00 44.35 3.56
155 157 3.524346 GCAGAGGCTACTAGGAGGT 57.476 57.895 3.57 0.00 36.96 3.85
168 170 2.352032 GGAGGTGCAGCGGTCTACT 61.352 63.158 10.78 0.00 0.00 2.57
191 193 7.637511 ACTCTATTCATCCCTTTCATTGTTCT 58.362 34.615 0.00 0.00 0.00 3.01
198 200 9.927668 TTCATCCCTTTCATTGTTCTTATTTTC 57.072 29.630 0.00 0.00 0.00 2.29
202 204 9.981114 TCCCTTTCATTGTTCTTATTTTCTTTC 57.019 29.630 0.00 0.00 0.00 2.62
237 239 3.414269 ACATTGATGATCTGTGTGTGCA 58.586 40.909 0.00 0.00 0.00 4.57
254 256 4.038042 GTGTGCACTCTATCACAGCCTATA 59.962 45.833 19.41 0.00 43.01 1.31
294 296 6.105657 TGATGATGTATGTAAACTTGTGCG 57.894 37.500 0.00 0.00 0.00 5.34
305 307 2.596923 TTGTGCGCTCCATGCCAA 60.597 55.556 9.73 0.00 38.78 4.52
306 308 2.537792 CTTGTGCGCTCCATGCCAAG 62.538 60.000 9.73 5.73 38.78 3.61
429 431 1.002544 ACTAGAAGTGGCTGGCAGAAC 59.997 52.381 20.86 15.38 0.00 3.01
436 438 0.036732 TGGCTGGCAGAACTAAGTGG 59.963 55.000 20.86 0.00 0.00 4.00
437 439 1.308783 GGCTGGCAGAACTAAGTGGC 61.309 60.000 20.86 0.00 39.62 5.01
438 440 0.606401 GCTGGCAGAACTAAGTGGCA 60.606 55.000 20.86 0.00 46.10 4.92
440 442 0.036732 TGGCAGAACTAAGTGGCAGG 59.963 55.000 0.00 0.00 43.69 4.85
441 443 0.678048 GGCAGAACTAAGTGGCAGGG 60.678 60.000 0.00 0.00 39.03 4.45
442 444 0.324943 GCAGAACTAAGTGGCAGGGA 59.675 55.000 0.00 0.00 0.00 4.20
443 445 1.271379 GCAGAACTAAGTGGCAGGGAA 60.271 52.381 0.00 0.00 0.00 3.97
444 446 2.704572 CAGAACTAAGTGGCAGGGAAG 58.295 52.381 0.00 0.00 0.00 3.46
445 447 1.003696 AGAACTAAGTGGCAGGGAAGC 59.996 52.381 0.00 0.00 0.00 3.86
457 459 4.467084 GGAAGCCGGCGGTGATCA 62.467 66.667 28.82 0.00 0.00 2.92
458 460 3.195698 GAAGCCGGCGGTGATCAC 61.196 66.667 28.82 17.91 0.00 3.06
459 461 3.665675 GAAGCCGGCGGTGATCACT 62.666 63.158 28.82 11.99 0.00 3.41
460 462 2.292794 GAAGCCGGCGGTGATCACTA 62.293 60.000 28.82 0.00 0.00 2.74
461 463 1.686325 AAGCCGGCGGTGATCACTAT 61.686 55.000 28.82 0.00 0.00 2.12
462 464 1.664965 GCCGGCGGTGATCACTATC 60.665 63.158 28.82 13.47 0.00 2.08
464 466 1.371758 CGGCGGTGATCACTATCGG 60.372 63.158 24.50 13.68 34.60 4.18
465 467 1.664965 GGCGGTGATCACTATCGGC 60.665 63.158 25.31 25.31 39.02 5.54
466 468 2.016704 GCGGTGATCACTATCGGCG 61.017 63.158 24.50 18.42 34.60 6.46
468 470 1.664965 GGTGATCACTATCGGCGGC 60.665 63.158 24.50 0.00 34.60 6.53
469 471 2.016704 GTGATCACTATCGGCGGCG 61.017 63.158 27.15 27.15 34.60 6.46
471 473 1.442857 GATCACTATCGGCGGCGAG 60.443 63.158 36.74 26.77 0.00 5.03
473 475 4.647615 CACTATCGGCGGCGAGGG 62.648 72.222 36.74 30.65 0.00 4.30
562 2876 5.258456 TGGATCTCCAATCTGTTACGTAC 57.742 43.478 0.00 0.00 44.35 3.67
566 2881 6.239064 GGATCTCCAATCTGTTACGTACTCAT 60.239 42.308 0.00 0.00 35.64 2.90
614 2936 2.497138 CTGTGATCAGGTCAGCAAACA 58.503 47.619 0.00 0.00 37.56 2.83
615 2937 2.221169 TGTGATCAGGTCAGCAAACAC 58.779 47.619 0.00 0.00 37.56 3.32
616 2938 1.537202 GTGATCAGGTCAGCAAACACC 59.463 52.381 0.00 0.00 37.56 4.16
617 2939 0.798776 GATCAGGTCAGCAAACACCG 59.201 55.000 0.00 0.00 37.79 4.94
618 2940 0.396435 ATCAGGTCAGCAAACACCGA 59.604 50.000 0.00 0.00 37.79 4.69
619 2941 0.531974 TCAGGTCAGCAAACACCGAC 60.532 55.000 0.00 0.00 37.79 4.79
850 3222 4.021925 GAGCTGCACCCGGACCTT 62.022 66.667 0.73 0.00 0.00 3.50
993 3393 1.153756 CCACCCCAAGTTCAGCCTT 59.846 57.895 0.00 0.00 0.00 4.35
1036 3436 3.711059 CTGCTTAGCCAGGGCCAGG 62.711 68.421 11.26 11.26 43.17 4.45
1056 3456 1.604378 CGAGGCCTTCCTGACCAAT 59.396 57.895 6.77 0.00 44.46 3.16
1161 3561 9.334947 ACAAAATGACTAATCCACATCTAGATG 57.665 33.333 27.63 27.63 44.15 2.90
1194 3594 8.708378 AGAATGTCACATCTAAATAGTCCATCA 58.292 33.333 0.00 0.00 0.00 3.07
1197 3597 7.795047 TGTCACATCTAAATAGTCCATCACAT 58.205 34.615 0.00 0.00 0.00 3.21
1200 3600 9.764363 TCACATCTAAATAGTCCATCACATAAC 57.236 33.333 0.00 0.00 0.00 1.89
1201 3601 9.546428 CACATCTAAATAGTCCATCACATAACA 57.454 33.333 0.00 0.00 0.00 2.41
1204 3604 9.784531 ATCTAAATAGTCCATCACATAACAAGG 57.215 33.333 0.00 0.00 0.00 3.61
1206 3606 3.652057 AGTCCATCACATAACAAGGGG 57.348 47.619 0.00 0.00 0.00 4.79
1210 3610 2.689983 CCATCACATAACAAGGGGCTTC 59.310 50.000 0.00 0.00 0.00 3.86
1211 3611 3.355378 CATCACATAACAAGGGGCTTCA 58.645 45.455 0.00 0.00 0.00 3.02
1213 3613 3.420893 TCACATAACAAGGGGCTTCAAG 58.579 45.455 0.00 0.00 0.00 3.02
1214 3614 3.073798 TCACATAACAAGGGGCTTCAAGA 59.926 43.478 0.00 0.00 0.00 3.02
1216 3616 4.463891 CACATAACAAGGGGCTTCAAGATT 59.536 41.667 0.00 0.00 0.00 2.40
1218 3618 5.047092 ACATAACAAGGGGCTTCAAGATTTG 60.047 40.000 0.00 0.00 0.00 2.32
1221 3621 3.826729 ACAAGGGGCTTCAAGATTTGTAC 59.173 43.478 0.00 0.00 0.00 2.90
1223 3623 4.112634 AGGGGCTTCAAGATTTGTACAA 57.887 40.909 3.59 3.59 0.00 2.41
1225 3625 4.898861 AGGGGCTTCAAGATTTGTACAAAA 59.101 37.500 23.97 5.37 33.56 2.44
1226 3626 5.543790 AGGGGCTTCAAGATTTGTACAAAAT 59.456 36.000 23.97 13.42 33.56 1.82
1227 3627 6.723977 AGGGGCTTCAAGATTTGTACAAAATA 59.276 34.615 23.97 2.84 33.56 1.40
1228 3628 7.400052 AGGGGCTTCAAGATTTGTACAAAATAT 59.600 33.333 23.97 8.83 33.56 1.28
1229 3629 8.691797 GGGGCTTCAAGATTTGTACAAAATATA 58.308 33.333 23.97 2.05 33.56 0.86
1264 3664 4.652421 TTTTGCTGATGTTGTGTGATGT 57.348 36.364 0.00 0.00 0.00 3.06
1265 3665 3.902261 TTGCTGATGTTGTGTGATGTC 57.098 42.857 0.00 0.00 0.00 3.06
1268 3668 3.189702 TGCTGATGTTGTGTGATGTCATG 59.810 43.478 0.00 0.00 0.00 3.07
1288 3688 9.783081 TGTCATGCTTAGATGTGACATAATTAT 57.217 29.630 0.00 0.00 44.14 1.28
1311 3711 6.384258 TGTCACATCTAGATGAGTCTTAGC 57.616 41.667 34.16 16.54 41.20 3.09
1312 3712 5.300539 TGTCACATCTAGATGAGTCTTAGCC 59.699 44.000 34.16 13.75 41.20 3.93
1313 3713 5.300539 GTCACATCTAGATGAGTCTTAGCCA 59.699 44.000 34.16 9.31 41.20 4.75
1314 3714 5.300539 TCACATCTAGATGAGTCTTAGCCAC 59.699 44.000 34.16 0.00 41.20 5.01
1315 3715 5.068329 CACATCTAGATGAGTCTTAGCCACA 59.932 44.000 34.16 0.00 41.20 4.17
1318 3718 2.540383 AGATGAGTCTTAGCCACACCA 58.460 47.619 0.00 0.00 0.00 4.17
1319 3719 3.110705 AGATGAGTCTTAGCCACACCAT 58.889 45.455 0.00 0.00 0.00 3.55
1351 3817 9.951866 ATATATATCCCAAACCTTCCAAAAGTT 57.048 29.630 0.00 0.00 0.00 2.66
1358 3824 3.398318 ACCTTCCAAAAGTTTGTCCCT 57.602 42.857 3.26 0.00 36.45 4.20
1471 3981 0.474660 GCCTCCATCTCCATAGGGGT 60.475 60.000 0.00 0.00 38.11 4.95
1500 4010 1.681780 GGATGAAGGATTTGCCACGGA 60.682 52.381 0.00 0.00 40.02 4.69
1507 4017 3.963129 AGGATTTGCCACGGAGATTAAA 58.037 40.909 0.00 0.00 40.02 1.52
1676 4186 0.323725 ATTTGCGGCTCCAAGGATGT 60.324 50.000 0.00 0.00 0.00 3.06
1690 4200 3.402628 AGGATGTGCAAACTACGTTCT 57.597 42.857 0.00 0.00 0.00 3.01
2082 4607 7.108194 AGGTACTTAAGTTAATGTAAGGGTGC 58.892 38.462 14.49 0.00 27.25 5.01
2138 4677 6.753180 ACTCGCTCAATAATACACATCTGAT 58.247 36.000 0.00 0.00 0.00 2.90
2255 4794 7.110155 TCCCTTTACCTTATGACTGAAACATC 58.890 38.462 0.00 0.00 0.00 3.06
2325 6408 5.639506 AGATTGTGAACTCACCTTTACATCG 59.360 40.000 7.37 0.00 45.88 3.84
2653 7102 3.767630 AACGTCTTTGCAGGCCGGT 62.768 57.895 1.90 0.00 0.00 5.28
2823 7275 8.902806 ACACCATAATTATCAATACCAACACAG 58.097 33.333 0.00 0.00 0.00 3.66
3003 7530 1.072965 CCTCCTGAAGCTGAAAGTGGT 59.927 52.381 0.00 0.00 35.30 4.16
3029 7556 7.147312 TGTTTGCATTTTCAATCTCCTTGTAG 58.853 34.615 0.00 0.00 36.20 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.197116 ACATTACTCCCTCCGTTCGAAAT 59.803 43.478 0.00 0.00 0.00 2.17
1 2 2.564062 ACATTACTCCCTCCGTTCGAAA 59.436 45.455 0.00 0.00 0.00 3.46
2 3 2.173519 ACATTACTCCCTCCGTTCGAA 58.826 47.619 0.00 0.00 0.00 3.71
3 4 1.843368 ACATTACTCCCTCCGTTCGA 58.157 50.000 0.00 0.00 0.00 3.71
4 5 2.667473 AACATTACTCCCTCCGTTCG 57.333 50.000 0.00 0.00 0.00 3.95
6 7 4.442472 CCGATAAACATTACTCCCTCCGTT 60.442 45.833 0.00 0.00 0.00 4.44
7 8 3.069158 CCGATAAACATTACTCCCTCCGT 59.931 47.826 0.00 0.00 0.00 4.69
8 9 3.554337 CCCGATAAACATTACTCCCTCCG 60.554 52.174 0.00 0.00 0.00 4.63
9 10 3.390311 ACCCGATAAACATTACTCCCTCC 59.610 47.826 0.00 0.00 0.00 4.30
10 11 4.377897 CACCCGATAAACATTACTCCCTC 58.622 47.826 0.00 0.00 0.00 4.30
11 12 3.433173 GCACCCGATAAACATTACTCCCT 60.433 47.826 0.00 0.00 0.00 4.20
12 13 2.876550 GCACCCGATAAACATTACTCCC 59.123 50.000 0.00 0.00 0.00 4.30
13 14 3.537580 TGCACCCGATAAACATTACTCC 58.462 45.455 0.00 0.00 0.00 3.85
14 15 5.527582 AGAATGCACCCGATAAACATTACTC 59.472 40.000 0.00 0.00 31.40 2.59
15 16 5.437060 AGAATGCACCCGATAAACATTACT 58.563 37.500 0.00 0.00 31.40 2.24
33 34 1.747355 GGCATCAACCAGGTGAGAATG 59.253 52.381 0.00 0.00 0.00 2.67
81 82 9.374838 CCTGCAAAAGAAAAATAATATGAAGCT 57.625 29.630 0.00 0.00 0.00 3.74
95 96 3.157087 GGATCTCCACCTGCAAAAGAAA 58.843 45.455 0.00 0.00 35.64 2.52
121 122 2.740981 CTCTGCTCACGCATTCTTTTCT 59.259 45.455 0.00 0.00 46.74 2.52
126 127 1.449246 GCCTCTGCTCACGCATTCT 60.449 57.895 0.00 0.00 46.74 2.40
127 128 3.096791 GCCTCTGCTCACGCATTC 58.903 61.111 0.00 0.00 46.74 2.67
155 157 2.375146 TGAATAGAGTAGACCGCTGCA 58.625 47.619 0.00 0.00 0.00 4.41
285 287 2.956987 GCATGGAGCGCACAAGTT 59.043 55.556 11.47 0.00 0.00 2.66
294 296 1.471684 GCATATAGCTTGGCATGGAGC 59.528 52.381 1.37 1.37 41.06 4.70
369 371 2.257371 GCACATGCTGCACTGTGG 59.743 61.111 29.02 18.78 46.29 4.17
404 406 4.714802 TCTGCCAGCCACTTCTAGTAATTA 59.285 41.667 0.00 0.00 0.00 1.40
414 416 1.421646 ACTTAGTTCTGCCAGCCACTT 59.578 47.619 2.20 0.00 0.00 3.16
421 423 0.036732 CCTGCCACTTAGTTCTGCCA 59.963 55.000 0.00 0.00 0.00 4.92
440 442 4.467084 TGATCACCGCCGGCTTCC 62.467 66.667 26.68 7.97 0.00 3.46
441 443 2.292794 TAGTGATCACCGCCGGCTTC 62.293 60.000 26.68 13.36 0.00 3.86
442 444 1.686325 ATAGTGATCACCGCCGGCTT 61.686 55.000 26.68 8.48 0.00 4.35
443 445 2.088674 GATAGTGATCACCGCCGGCT 62.089 60.000 26.68 4.40 31.78 5.52
444 446 1.664965 GATAGTGATCACCGCCGGC 60.665 63.158 22.21 19.07 31.78 6.13
445 447 1.371758 CGATAGTGATCACCGCCGG 60.372 63.158 22.21 0.00 31.78 6.13
446 448 1.371758 CCGATAGTGATCACCGCCG 60.372 63.158 22.21 20.01 31.78 6.46
447 449 1.664965 GCCGATAGTGATCACCGCC 60.665 63.158 22.21 10.12 31.78 6.13
448 450 2.016704 CGCCGATAGTGATCACCGC 61.017 63.158 22.21 14.21 31.78 5.68
449 451 1.371758 CCGCCGATAGTGATCACCG 60.372 63.158 22.21 17.54 31.78 4.94
451 453 2.016704 CGCCGCCGATAGTGATCAC 61.017 63.158 18.47 18.47 36.29 3.06
452 454 2.130073 CTCGCCGCCGATAGTGATCA 62.130 60.000 0.00 0.00 43.47 2.92
454 456 2.645567 CTCGCCGCCGATAGTGAT 59.354 61.111 0.00 0.00 43.47 3.06
455 457 3.592814 CCTCGCCGCCGATAGTGA 61.593 66.667 0.00 0.00 43.47 3.41
456 458 4.647615 CCCTCGCCGCCGATAGTG 62.648 72.222 0.00 0.00 43.47 2.74
473 475 4.452733 CTTCCCCGTGCGTCCTCC 62.453 72.222 0.00 0.00 0.00 4.30
474 476 4.452733 CCTTCCCCGTGCGTCCTC 62.453 72.222 0.00 0.00 0.00 3.71
476 478 4.754667 GACCTTCCCCGTGCGTCC 62.755 72.222 0.00 0.00 0.00 4.79
561 2875 5.215903 CGTCGCTGTTATCTGATTATGAGT 58.784 41.667 0.00 0.00 0.00 3.41
562 2876 5.215903 ACGTCGCTGTTATCTGATTATGAG 58.784 41.667 0.00 0.00 0.00 2.90
566 2881 5.287752 GTCAAACGTCGCTGTTATCTGATTA 59.712 40.000 0.00 0.00 0.00 1.75
614 2936 4.166011 GCGCGGTAGTACGTCGGT 62.166 66.667 8.83 0.00 35.24 4.69
617 2939 4.817063 TGCGCGCGGTAGTACGTC 62.817 66.667 33.06 11.79 35.98 4.34
619 2941 4.824166 AGTGCGCGCGGTAGTACG 62.824 66.667 33.06 2.05 0.00 3.67
662 2989 1.828768 GAGCTGGCACTGGCTATCT 59.171 57.895 3.97 0.00 38.06 1.98
746 3118 1.804151 CTTTTTCTTGGATCGACGGCA 59.196 47.619 0.00 0.00 0.00 5.69
812 3184 3.003173 CCAGTCCCTCTCCGGCAA 61.003 66.667 0.00 0.00 0.00 4.52
850 3222 2.477104 TGTGGAGGATGCAGGAGATA 57.523 50.000 0.00 0.00 36.81 1.98
912 3284 1.674057 CCACAACTCCGGCTCTTCT 59.326 57.895 0.00 0.00 0.00 2.85
1019 3419 3.731728 CCTGGCCCTGGCTAAGCA 61.732 66.667 8.29 0.00 41.60 3.91
1167 3567 9.553064 GATGGACTATTTAGATGTGACATTCTT 57.447 33.333 0.00 0.00 0.00 2.52
1168 3568 8.708378 TGATGGACTATTTAGATGTGACATTCT 58.292 33.333 0.00 1.32 0.00 2.40
1169 3569 8.768955 GTGATGGACTATTTAGATGTGACATTC 58.231 37.037 0.00 0.00 0.00 2.67
1170 3570 8.267183 TGTGATGGACTATTTAGATGTGACATT 58.733 33.333 0.00 0.00 0.00 2.71
1171 3571 7.795047 TGTGATGGACTATTTAGATGTGACAT 58.205 34.615 0.00 0.00 0.00 3.06
1172 3572 7.181569 TGTGATGGACTATTTAGATGTGACA 57.818 36.000 0.00 0.00 0.00 3.58
1173 3573 9.764363 TTATGTGATGGACTATTTAGATGTGAC 57.236 33.333 0.00 0.00 0.00 3.67
1174 3574 9.764363 GTTATGTGATGGACTATTTAGATGTGA 57.236 33.333 0.00 0.00 0.00 3.58
1175 3575 9.546428 TGTTATGTGATGGACTATTTAGATGTG 57.454 33.333 0.00 0.00 0.00 3.21
1178 3578 9.784531 CCTTGTTATGTGATGGACTATTTAGAT 57.215 33.333 0.00 0.00 0.00 1.98
1179 3579 8.210946 CCCTTGTTATGTGATGGACTATTTAGA 58.789 37.037 0.00 0.00 0.00 2.10
1180 3580 7.445402 CCCCTTGTTATGTGATGGACTATTTAG 59.555 40.741 0.00 0.00 0.00 1.85
1181 3581 7.287061 CCCCTTGTTATGTGATGGACTATTTA 58.713 38.462 0.00 0.00 0.00 1.40
1182 3582 6.129179 CCCCTTGTTATGTGATGGACTATTT 58.871 40.000 0.00 0.00 0.00 1.40
1183 3583 5.694995 CCCCTTGTTATGTGATGGACTATT 58.305 41.667 0.00 0.00 0.00 1.73
1184 3584 4.446311 GCCCCTTGTTATGTGATGGACTAT 60.446 45.833 0.00 0.00 0.00 2.12
1185 3585 3.118038 GCCCCTTGTTATGTGATGGACTA 60.118 47.826 0.00 0.00 0.00 2.59
1186 3586 2.357154 GCCCCTTGTTATGTGATGGACT 60.357 50.000 0.00 0.00 0.00 3.85
1187 3587 2.024414 GCCCCTTGTTATGTGATGGAC 58.976 52.381 0.00 0.00 0.00 4.02
1194 3594 3.806949 TCTTGAAGCCCCTTGTTATGT 57.193 42.857 0.00 0.00 0.00 2.29
1197 3597 4.479158 ACAAATCTTGAAGCCCCTTGTTA 58.521 39.130 0.00 0.00 0.00 2.41
1200 3600 3.826157 TGTACAAATCTTGAAGCCCCTTG 59.174 43.478 0.00 0.00 0.00 3.61
1201 3601 4.112634 TGTACAAATCTTGAAGCCCCTT 57.887 40.909 0.00 0.00 0.00 3.95
1203 3603 4.864704 TTTGTACAAATCTTGAAGCCCC 57.135 40.909 17.01 0.00 0.00 5.80
1243 3643 4.097589 TGACATCACACAACATCAGCAAAA 59.902 37.500 0.00 0.00 0.00 2.44
1246 3646 2.848691 TGACATCACACAACATCAGCA 58.151 42.857 0.00 0.00 0.00 4.41
1247 3647 3.754955 CATGACATCACACAACATCAGC 58.245 45.455 0.00 0.00 0.00 4.26
1248 3648 3.439129 AGCATGACATCACACAACATCAG 59.561 43.478 0.00 0.00 0.00 2.90
1249 3649 3.414269 AGCATGACATCACACAACATCA 58.586 40.909 0.00 0.00 0.00 3.07
1254 3654 5.122711 CACATCTAAGCATGACATCACACAA 59.877 40.000 0.00 0.00 0.00 3.33
1255 3655 4.632688 CACATCTAAGCATGACATCACACA 59.367 41.667 0.00 0.00 0.00 3.72
1264 3664 9.783081 ACATAATTATGTCACATCTAAGCATGA 57.217 29.630 22.70 0.00 42.96 3.07
1286 3686 7.175816 GGCTAAGACTCATCTAGATGTGACATA 59.824 40.741 31.51 23.02 39.72 2.29
1288 3688 5.300539 GGCTAAGACTCATCTAGATGTGACA 59.699 44.000 31.51 14.63 39.72 3.58
1291 3691 5.068329 TGTGGCTAAGACTCATCTAGATGTG 59.932 44.000 27.80 26.80 39.72 3.21
1292 3692 5.068460 GTGTGGCTAAGACTCATCTAGATGT 59.932 44.000 27.80 13.30 39.72 3.06
1293 3693 5.508825 GGTGTGGCTAAGACTCATCTAGATG 60.509 48.000 24.32 24.32 40.09 2.90
1300 3700 5.636903 ATTATGGTGTGGCTAAGACTCAT 57.363 39.130 0.00 0.00 0.00 2.90
1301 3701 5.435686 AATTATGGTGTGGCTAAGACTCA 57.564 39.130 0.00 0.00 0.00 3.41
1310 3710 9.860650 TGGGATATATATTAATTATGGTGTGGC 57.139 33.333 0.00 0.00 0.00 5.01
1345 3811 4.201841 CGTAACAACGAGGGACAAACTTTT 60.202 41.667 0.00 0.00 34.64 2.27
1351 3817 2.679450 CATCGTAACAACGAGGGACAA 58.321 47.619 6.76 0.00 45.70 3.18
1358 3824 3.580731 TGAAGATGCATCGTAACAACGA 58.419 40.909 20.67 2.82 46.58 3.85
1471 3981 4.816385 GCAAATCCTTCATCCGAGACATAA 59.184 41.667 0.00 0.00 0.00 1.90
1690 4200 2.879646 GGTACAACCGACAACATCCAAA 59.120 45.455 0.00 0.00 0.00 3.28
2255 4794 0.460987 GCACCGGGAGAAGATGACAG 60.461 60.000 6.32 0.00 0.00 3.51
2518 6645 5.566469 CATGGGTAAGTTTTTCCTGACCTA 58.434 41.667 0.00 0.00 0.00 3.08
2526 6653 2.353704 GGCAGGCATGGGTAAGTTTTTC 60.354 50.000 0.00 0.00 0.00 2.29
2727 7177 0.679960 GTAGACCCCGCAAAGCCAAT 60.680 55.000 0.00 0.00 0.00 3.16
2729 7179 2.180159 GAGTAGACCCCGCAAAGCCA 62.180 60.000 0.00 0.00 0.00 4.75
2936 7388 4.475016 AGGGCTGGATAGTAACAAACTCAT 59.525 41.667 0.00 0.00 39.80 2.90
2950 7402 0.906775 CCATTTGCAAAGGGCTGGAT 59.093 50.000 28.04 0.57 45.15 3.41
3003 7530 6.347696 ACAAGGAGATTGAAAATGCAAACAA 58.652 32.000 0.00 0.00 41.83 2.83
3029 7556 6.030228 CCGCATTAGAGATTTTCTTCAAACC 58.970 40.000 0.00 0.00 37.36 3.27


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

AutoCloner maintained by Alex Coulton.