Multiple sequence alignment - TraesCS2D01G125600

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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 TraesCS2D01G125600 chr2D 100.000 2495 0 0 1 2495 73212521 73215015 0.000000e+00 4608.0
1 TraesCS2D01G125600 chr2D 88.911 514 43 6 1452 1961 73212527 73213030 2.730000e-174 621.0
2 TraesCS2D01G125600 chr2D 88.911 514 43 6 7 510 73213972 73214481 2.730000e-174 621.0
3 TraesCS2D01G125600 chr2D 77.143 455 69 29 1492 1934 18353539 18353108 5.370000e-57 231.0
4 TraesCS2D01G125600 chr2B 89.797 2411 176 32 1 2387 110819865 110822229 0.000000e+00 3025.0
5 TraesCS2D01G125600 chr2B 85.122 531 63 8 1452 1974 110819871 110820393 1.700000e-146 529.0
6 TraesCS2D01G125600 chr2B 88.189 127 9 4 2373 2495 110824423 110824547 2.000000e-31 147.0
7 TraesCS2D01G125600 chr3A 78.405 903 158 26 1058 1951 740250999 740251873 1.010000e-153 553.0
8 TraesCS2D01G125600 chr7D 79.929 563 97 14 914 1471 91995864 91996415 1.390000e-107 399.0
9 TraesCS2D01G125600 chr7B 78.826 562 113 6 914 1471 42166433 42165874 8.430000e-100 374.0
10 TraesCS2D01G125600 chr1A 79.794 485 90 7 991 1472 267444059 267443580 1.840000e-91 346.0
11 TraesCS2D01G125600 chr6A 77.425 567 119 8 910 1472 1765583 1765022 1.850000e-86 329.0
12 TraesCS2D01G125600 chr4B 83.191 351 54 4 911 1260 630383342 630383688 1.440000e-82 316.0
13 TraesCS2D01G125600 chr4B 80.576 417 70 8 911 1326 630386380 630386786 6.700000e-81 311.0
14 TraesCS2D01G125600 chrUn 80.244 410 79 2 1068 1476 263496320 263495912 8.670000e-80 307.0
15 TraesCS2D01G125600 chrUn 74.611 193 34 14 657 837 271020057 271019868 1.240000e-08 71.3
16 TraesCS2D01G125600 chr7A 79.379 451 81 9 911 1355 261618722 261619166 8.670000e-80 307.0
17 TraesCS2D01G125600 chr3D 80.161 373 59 13 115 483 582300285 582299924 5.290000e-67 265.0
18 TraesCS2D01G125600 chr4D 78.632 351 67 5 554 902 454451122 454450778 2.500000e-55 226.0
19 TraesCS2D01G125600 chr2A 82.427 239 37 4 1565 1802 648025074 648024840 1.170000e-48 204.0
20 TraesCS2D01G125600 chr3B 73.814 569 118 29 913 1472 739709140 739708594 1.960000e-46 196.0
21 TraesCS2D01G125600 chr1B 72.792 566 130 19 913 1472 24207699 24208246 1.190000e-38 171.0
22 TraesCS2D01G125600 chr5B 81.250 192 24 5 914 1104 36482707 36482527 7.190000e-31 145.0
23 TraesCS2D01G125600 chr5B 79.688 192 27 5 914 1104 36486376 36486196 7.240000e-26 128.0
24 TraesCS2D01G125600 chr5B 79.688 192 27 5 914 1104 36490038 36489858 7.240000e-26 128.0


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 TraesCS2D01G125600 chr2D 73212521 73215015 2494 False 1950.0 4608 92.607333 1 2495 3 chr2D.!!$F1 2494
1 TraesCS2D01G125600 chr2B 110819865 110822229 2364 False 1777.0 3025 87.459500 1 2387 2 chr2B.!!$F2 2386
2 TraesCS2D01G125600 chr3A 740250999 740251873 874 False 553.0 553 78.405000 1058 1951 1 chr3A.!!$F1 893
3 TraesCS2D01G125600 chr7D 91995864 91996415 551 False 399.0 399 79.929000 914 1471 1 chr7D.!!$F1 557
4 TraesCS2D01G125600 chr7B 42165874 42166433 559 True 374.0 374 78.826000 914 1471 1 chr7B.!!$R1 557
5 TraesCS2D01G125600 chr6A 1765022 1765583 561 True 329.0 329 77.425000 910 1472 1 chr6A.!!$R1 562
6 TraesCS2D01G125600 chr4B 630383342 630386786 3444 False 313.5 316 81.883500 911 1326 2 chr4B.!!$F1 415

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
447 453 0.030235 GAAAACCTTGCCGTGTCCAC 59.97 55.0 0.0 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1936 4428 0.037512 GCTCACTCTCTCTTGCTGCA 60.038 55.0 0.0 0.0 0.0 4.41 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
30 31 2.046285 CCTTTAAGCCACGGCCAGG 61.046 63.158 2.24 4.95 43.17 4.45
217 221 1.153549 GATCGGGTCAGGTCAGTGC 60.154 63.158 0.00 0.00 0.00 4.40
220 224 3.311110 GGGTCAGGTCAGTGCGGA 61.311 66.667 0.00 0.00 0.00 5.54
296 301 4.100084 TCATGGCTCGGCTGGGTG 62.100 66.667 0.00 0.00 0.00 4.61
336 341 2.993264 GCGCCGGCCTAGGGTATA 60.993 66.667 23.46 0.00 0.00 1.47
337 342 2.576832 GCGCCGGCCTAGGGTATAA 61.577 63.158 23.46 0.00 0.00 0.98
341 346 1.881072 GCCGGCCTAGGGTATAAAAGC 60.881 57.143 18.11 0.00 0.00 3.51
363 368 1.787057 TTGCGGGGCTTGTTGTAACG 61.787 55.000 0.00 0.00 0.00 3.18
406 412 1.353804 GAAAACAGCCGTTGTCGCA 59.646 52.632 0.00 0.00 39.73 5.10
422 428 3.496131 CAGCGGCGGCGTTTGTAT 61.496 61.111 32.35 9.20 46.35 2.29
437 443 1.540267 TGTATGCCGGGAAAACCTTG 58.460 50.000 0.00 0.00 36.97 3.61
439 445 0.968393 TATGCCGGGAAAACCTTGCC 60.968 55.000 0.00 0.00 39.61 4.52
447 453 0.030235 GAAAACCTTGCCGTGTCCAC 59.970 55.000 0.00 0.00 0.00 4.02
507 516 0.810648 AGCAAGAGAGAGTGAGCTCG 59.189 55.000 9.64 0.00 46.03 5.03
511 520 3.749735 GAGAGAGTGAGCTCGGCGC 62.750 68.421 9.64 0.00 46.03 6.53
531 540 2.327940 GCGCGAGAGAGAGAGAGC 59.672 66.667 12.10 0.00 0.00 4.09
551 560 0.540597 GCTCTTGGGCAAGGGAGTTT 60.541 55.000 0.00 0.00 41.39 2.66
552 561 1.539157 CTCTTGGGCAAGGGAGTTTC 58.461 55.000 0.00 0.00 41.39 2.78
582 591 7.040409 CCAATAATTGGTATTAGAGCCAGGTTC 60.040 40.741 0.00 0.00 45.93 3.62
600 609 1.153489 CGGGAGTGATCACCTGCAG 60.153 63.158 22.21 6.78 0.00 4.41
606 615 1.077285 TGATCACCTGCAGCCATGG 60.077 57.895 8.66 7.63 0.00 3.66
620 629 2.108514 CATGGCGCTCGTTCCACAT 61.109 57.895 7.64 0.00 34.81 3.21
624 633 2.741985 CGCTCGTTCCACATGGCA 60.742 61.111 0.00 0.00 34.44 4.92
706 715 2.268920 GATCAAGGTGGAGGCGCA 59.731 61.111 10.83 0.00 0.00 6.09
724 733 0.181350 CACCTTGATGCCTAGGGACC 59.819 60.000 11.72 0.00 39.23 4.46
783 792 2.391389 GCCGGAAAGAGCAAGACGG 61.391 63.158 5.05 0.00 43.81 4.79
798 807 2.740055 CGGCGAGGGCTATGATGC 60.740 66.667 0.00 0.00 39.81 3.91
825 834 1.979155 CTGTCGGAGGAGGTGCTCA 60.979 63.158 0.63 0.00 31.08 4.26
893 902 4.683334 GTGCGCTTCAACGGTGCC 62.683 66.667 9.73 0.00 39.17 5.01
1004 1014 0.179240 GAGCAACACTTGACGATGCG 60.179 55.000 0.00 0.00 41.72 4.73
1008 1018 3.853330 CACTTGACGATGCGGGCG 61.853 66.667 0.00 0.00 0.00 6.13
1054 1064 4.487412 CGGACCGGCTGTACGTCC 62.487 72.222 5.81 8.90 46.60 4.79
1055 1065 3.066814 GGACCGGCTGTACGTCCT 61.067 66.667 0.00 0.00 33.93 3.85
1114 1124 2.361230 TCTTCGAGGAGGCGCTCA 60.361 61.111 7.64 0.00 31.08 4.26
1260 1270 1.539065 GGCTTCGATGACCATGACGAT 60.539 52.381 1.89 0.00 34.85 3.73
1494 1569 4.293648 CACGTCAGGTGCGGGTGA 62.294 66.667 0.00 0.00 40.33 4.02
1575 2990 2.638719 CGTGTGTGTGGTGCATGG 59.361 61.111 0.00 0.00 0.00 3.66
1789 4235 2.173996 GCCCAGGGTATAAAAGCACCTA 59.826 50.000 7.55 0.00 35.04 3.08
1814 4260 1.602605 GCGGGGCTTGTTGTAAGGT 60.603 57.895 0.00 0.00 0.00 3.50
1936 4428 1.684983 TCCTTCTTCTGTCGTTCGGTT 59.315 47.619 0.00 0.00 0.00 4.44
1964 4456 0.610509 AGAGAGTGAGCTCGGCAAGA 60.611 55.000 9.64 0.00 46.03 3.02
1974 4466 2.487918 TCGGCAAGAGAGAGAGAGC 58.512 57.895 0.00 0.00 0.00 4.09
1981 4473 0.837272 AGAGAGAGAGAGCGCTAGGT 59.163 55.000 11.50 0.00 0.00 3.08
1996 4488 1.902508 CTAGGTCAAGGGAGTTCTGCA 59.097 52.381 0.00 0.00 0.00 4.41
2047 4539 4.627467 ACATCTTTGTCTATCGTTCACTGC 59.373 41.667 0.00 0.00 0.00 4.40
2049 4541 4.883083 TCTTTGTCTATCGTTCACTGCTT 58.117 39.130 0.00 0.00 0.00 3.91
2072 4564 3.517296 TGCAGGTCCCAAGTCATTAAA 57.483 42.857 0.00 0.00 0.00 1.52
2143 4635 9.801714 CTTGATTTGAAAACAGCATACAAAATC 57.198 29.630 0.00 0.00 34.86 2.17
2249 4741 6.719370 AGTTTAGCCCATGATTTTGAACAGTA 59.281 34.615 0.00 0.00 0.00 2.74
2253 4745 3.440173 CCCATGATTTTGAACAGTACGCT 59.560 43.478 0.00 0.00 0.00 5.07
2286 4778 9.689976 CCATACAAAATGTCAATTAGTTTGTCA 57.310 29.630 8.16 0.00 42.90 3.58
2332 4824 5.355350 ACTGCCAAAGATTAGCATTACTGAC 59.645 40.000 0.00 0.00 35.64 3.51
2370 4862 5.401376 CAGCTGATCACAAAATTGACAACTG 59.599 40.000 8.42 0.00 0.00 3.16
2425 4917 7.928307 AAATAGTTTCATTAGCAGAAGCAGA 57.072 32.000 0.00 0.00 45.49 4.26
2426 4918 7.928307 AATAGTTTCATTAGCAGAAGCAGAA 57.072 32.000 0.00 0.00 45.49 3.02
2427 4919 5.619625 AGTTTCATTAGCAGAAGCAGAAC 57.380 39.130 0.00 0.00 45.49 3.01
2428 4920 5.065914 AGTTTCATTAGCAGAAGCAGAACA 58.934 37.500 0.00 0.00 45.49 3.18
2429 4921 5.709164 AGTTTCATTAGCAGAAGCAGAACAT 59.291 36.000 0.00 0.00 45.49 2.71
2430 4922 6.208204 AGTTTCATTAGCAGAAGCAGAACATT 59.792 34.615 0.00 0.00 45.49 2.71
2431 4923 7.391554 AGTTTCATTAGCAGAAGCAGAACATTA 59.608 33.333 0.00 0.00 45.49 1.90
2432 4924 7.686438 TTCATTAGCAGAAGCAGAACATTAA 57.314 32.000 0.00 0.00 45.49 1.40
2433 4925 7.076842 TCATTAGCAGAAGCAGAACATTAAC 57.923 36.000 0.00 0.00 45.49 2.01
2434 4926 6.654582 TCATTAGCAGAAGCAGAACATTAACA 59.345 34.615 0.00 0.00 45.49 2.41
2435 4927 4.756084 AGCAGAAGCAGAACATTAACAC 57.244 40.909 0.00 0.00 45.49 3.32
2436 4928 4.392940 AGCAGAAGCAGAACATTAACACT 58.607 39.130 0.00 0.00 45.49 3.55
2437 4929 5.551233 AGCAGAAGCAGAACATTAACACTA 58.449 37.500 0.00 0.00 45.49 2.74
2438 4930 5.641209 AGCAGAAGCAGAACATTAACACTAG 59.359 40.000 0.00 0.00 45.49 2.57
2439 4931 5.409826 GCAGAAGCAGAACATTAACACTAGT 59.590 40.000 0.00 0.00 41.58 2.57
2440 4932 6.590292 GCAGAAGCAGAACATTAACACTAGTA 59.410 38.462 0.00 0.00 41.58 1.82
2441 4933 7.117812 GCAGAAGCAGAACATTAACACTAGTAA 59.882 37.037 0.00 0.00 41.58 2.24
2442 4934 8.988934 CAGAAGCAGAACATTAACACTAGTAAA 58.011 33.333 0.00 0.00 0.00 2.01
2443 4935 9.555727 AGAAGCAGAACATTAACACTAGTAAAA 57.444 29.630 0.00 0.00 0.00 1.52
2468 4960 6.966534 AAATCTGGCTGTATGGAAATAAGG 57.033 37.500 0.00 0.00 0.00 2.69
2469 4961 5.653255 ATCTGGCTGTATGGAAATAAGGT 57.347 39.130 0.00 0.00 0.00 3.50
2470 4962 5.036117 TCTGGCTGTATGGAAATAAGGTC 57.964 43.478 0.00 0.00 0.00 3.85
2471 4963 4.473196 TCTGGCTGTATGGAAATAAGGTCA 59.527 41.667 0.00 0.00 0.00 4.02
2472 4964 5.132648 TCTGGCTGTATGGAAATAAGGTCAT 59.867 40.000 0.00 0.00 0.00 3.06
2473 4965 5.132502 TGGCTGTATGGAAATAAGGTCATG 58.867 41.667 0.00 0.00 0.00 3.07
2474 4966 4.022849 GGCTGTATGGAAATAAGGTCATGC 60.023 45.833 0.00 0.00 0.00 4.06
2475 4967 4.823989 GCTGTATGGAAATAAGGTCATGCT 59.176 41.667 0.00 0.00 0.00 3.79
2476 4968 5.300286 GCTGTATGGAAATAAGGTCATGCTT 59.700 40.000 0.00 0.00 0.00 3.91
2477 4969 6.486657 GCTGTATGGAAATAAGGTCATGCTTA 59.513 38.462 0.00 0.00 0.00 3.09
2478 4970 7.308229 GCTGTATGGAAATAAGGTCATGCTTAG 60.308 40.741 0.00 0.00 0.00 2.18
2479 4971 6.486657 TGTATGGAAATAAGGTCATGCTTAGC 59.513 38.462 0.00 0.00 0.00 3.09
2480 4972 5.116084 TGGAAATAAGGTCATGCTTAGCT 57.884 39.130 5.60 0.00 0.00 3.32
2481 4973 6.247229 TGGAAATAAGGTCATGCTTAGCTA 57.753 37.500 5.60 0.00 0.00 3.32
2482 4974 6.658849 TGGAAATAAGGTCATGCTTAGCTAA 58.341 36.000 5.60 5.94 0.00 3.09
2483 4975 7.116075 TGGAAATAAGGTCATGCTTAGCTAAA 58.884 34.615 7.74 0.00 0.00 1.85
2484 4976 7.779798 TGGAAATAAGGTCATGCTTAGCTAAAT 59.220 33.333 7.74 0.00 0.00 1.40
2485 4977 9.284968 GGAAATAAGGTCATGCTTAGCTAAATA 57.715 33.333 7.74 0.00 0.00 1.40
2490 4982 7.516198 AGGTCATGCTTAGCTAAATATTTGG 57.484 36.000 11.05 9.05 0.00 3.28
2491 4983 7.290061 AGGTCATGCTTAGCTAAATATTTGGA 58.710 34.615 15.09 0.00 0.00 3.53
2492 4984 7.446625 AGGTCATGCTTAGCTAAATATTTGGAG 59.553 37.037 15.09 4.83 0.00 3.86
2493 4985 7.308830 GGTCATGCTTAGCTAAATATTTGGAGG 60.309 40.741 15.09 0.00 0.00 4.30
2494 4986 6.716628 TCATGCTTAGCTAAATATTTGGAGGG 59.283 38.462 15.09 3.58 0.00 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
110 111 4.589700 CACCACACACGCACGCAC 62.590 66.667 0.00 0.00 0.00 5.34
113 114 3.648982 ATGCACCACACACGCACG 61.649 61.111 0.00 0.00 38.73 5.34
117 121 2.594303 ACCCATGCACCACACACG 60.594 61.111 0.00 0.00 0.00 4.49
141 145 3.952675 CACCACCTGCACGCACAC 61.953 66.667 0.00 0.00 0.00 3.82
153 157 2.428171 TCCTATTACTACGGTGCACCAC 59.572 50.000 34.16 9.94 35.14 4.16
196 200 2.678580 TGACCTGACCCGATCGCA 60.679 61.111 10.32 1.24 0.00 5.10
199 203 1.153549 GCACTGACCTGACCCGATC 60.154 63.158 0.00 0.00 0.00 3.69
323 328 2.104281 AGTGCTTTTATACCCTAGGCCG 59.896 50.000 2.05 0.00 0.00 6.13
325 330 3.315470 GCAAGTGCTTTTATACCCTAGGC 59.685 47.826 2.05 0.00 38.21 3.93
328 333 3.537580 CCGCAAGTGCTTTTATACCCTA 58.462 45.455 1.21 0.00 39.32 3.53
336 341 2.521708 AGCCCCGCAAGTGCTTTT 60.522 55.556 1.21 0.00 40.12 2.27
341 346 1.169661 TACAACAAGCCCCGCAAGTG 61.170 55.000 0.00 0.00 0.00 3.16
378 383 1.270550 CGGCTGTTTTCCTCAAGCAAT 59.729 47.619 0.00 0.00 0.00 3.56
406 412 3.496131 CATACAAACGCCGCCGCT 61.496 61.111 0.00 0.00 38.22 5.52
413 419 0.241481 TTTTCCCGGCATACAAACGC 59.759 50.000 0.00 0.00 0.00 4.84
422 428 2.915137 GGCAAGGTTTTCCCGGCA 60.915 61.111 0.00 0.00 40.06 5.69
447 453 0.103937 GAAGATCAGAGGGAGCACGG 59.896 60.000 0.00 0.00 33.23 4.94
511 520 4.936248 CTCTCTCTCTCGCGCGCG 62.936 72.222 44.84 44.84 41.35 6.86
515 524 2.625906 CGCTCTCTCTCTCTCGCG 59.374 66.667 0.00 0.00 34.50 5.87
531 540 2.437359 CTCCCTTGCCCAAGAGCG 60.437 66.667 9.50 0.00 40.79 5.03
537 546 2.282180 GCGAAACTCCCTTGCCCA 60.282 61.111 0.00 0.00 0.00 5.36
541 550 1.586154 ATTGGCGCGAAACTCCCTTG 61.586 55.000 12.10 0.00 0.00 3.61
582 591 1.153489 CTGCAGGTGATCACTCCCG 60.153 63.158 24.50 11.86 0.00 5.14
606 615 4.166011 GCCATGTGGAACGAGCGC 62.166 66.667 0.00 0.00 42.39 5.92
667 676 1.349259 CCAGGACGTTTAGTTCGCCG 61.349 60.000 0.00 0.00 32.14 6.46
668 677 1.017701 CCCAGGACGTTTAGTTCGCC 61.018 60.000 0.00 0.00 32.14 5.54
677 686 1.079127 CTTGATCGCCCAGGACGTT 60.079 57.895 0.00 0.00 0.00 3.99
706 715 1.338136 CGGTCCCTAGGCATCAAGGT 61.338 60.000 2.05 0.00 0.00 3.50
772 781 3.764466 CCCTCGCCGTCTTGCTCT 61.764 66.667 0.00 0.00 0.00 4.09
783 792 1.670406 CCAGCATCATAGCCCTCGC 60.670 63.158 0.00 0.00 34.23 5.03
798 807 4.087892 CTCCGACAGTGCCCCCAG 62.088 72.222 0.00 0.00 0.00 4.45
807 816 1.326213 ATGAGCACCTCCTCCGACAG 61.326 60.000 0.00 0.00 0.00 3.51
825 834 2.629656 GCTTTGTCGCCACCTGCAT 61.630 57.895 0.00 0.00 41.33 3.96
904 913 4.570663 GTCCTCCATCCGTCGCCG 62.571 72.222 0.00 0.00 0.00 6.46
1004 1014 1.078143 AGCTTCTTCACCATCGCCC 60.078 57.895 0.00 0.00 0.00 6.13
1008 1018 1.005340 CGAGCAGCTTCTTCACCATC 58.995 55.000 0.00 0.00 0.00 3.51
1114 1124 0.391597 TCGAAGGCCTTCAAACGACT 59.608 50.000 37.88 6.93 39.46 4.18
1232 1242 4.514577 CATCGAAGCCGCCTCCGT 62.515 66.667 0.00 0.00 35.37 4.69
1490 1565 3.181967 CTAGCGCACGCACTCACC 61.182 66.667 18.24 0.00 44.88 4.02
1494 1569 4.039357 ACGTCTAGCGCACGCACT 62.039 61.111 18.24 0.00 46.11 4.40
1554 2274 2.051076 GCACCACACACACGCATG 60.051 61.111 0.00 0.00 0.00 4.06
1555 2275 1.898094 ATGCACCACACACACGCAT 60.898 52.632 0.00 0.00 38.44 4.73
1581 2996 2.253154 CACCTGCACGCACACATG 59.747 61.111 0.00 0.00 0.00 3.21
1582 2997 2.979676 CCACCTGCACGCACACAT 60.980 61.111 0.00 0.00 0.00 3.21
1767 4213 1.341581 GGTGCTTTTATACCCTGGGCA 60.342 52.381 14.08 0.00 0.00 5.36
1814 4260 1.896660 GGCAACAAACTCGAGCCCA 60.897 57.895 13.61 0.00 39.42 5.36
1877 4365 1.601166 GGTAGACACGGCAAGGTTTT 58.399 50.000 0.00 0.00 0.00 2.43
1936 4428 0.037512 GCTCACTCTCTCTTGCTGCA 60.038 55.000 0.00 0.00 0.00 4.41
1964 4456 0.544223 TGACCTAGCGCTCTCTCTCT 59.456 55.000 16.34 0.00 0.00 3.10
1965 4457 1.333619 CTTGACCTAGCGCTCTCTCTC 59.666 57.143 16.34 3.17 0.00 3.20
1966 4458 1.388547 CTTGACCTAGCGCTCTCTCT 58.611 55.000 16.34 0.00 0.00 3.10
1974 4466 1.134965 CAGAACTCCCTTGACCTAGCG 60.135 57.143 0.00 0.00 0.00 4.26
1981 4473 0.843309 TTGGTGCAGAACTCCCTTGA 59.157 50.000 0.00 0.00 0.00 3.02
1996 4488 3.094484 TGGAAACTTGGAGTTGTTGGT 57.906 42.857 0.00 0.00 38.66 3.67
2047 4539 0.954452 GACTTGGGACCTGCAACAAG 59.046 55.000 11.04 11.04 44.32 3.16
2049 4541 0.478072 ATGACTTGGGACCTGCAACA 59.522 50.000 0.00 0.00 0.00 3.33
2072 4564 1.382522 CATTAGTGGCATCGGCAAGT 58.617 50.000 0.00 0.00 43.71 3.16
2249 4741 4.462483 ACATTTTGTATGGGAATTCAGCGT 59.538 37.500 7.93 0.00 0.00 5.07
2286 4778 7.148239 GCAGTACCATTATAGTGAGCTTTTGTT 60.148 37.037 0.00 0.00 0.00 2.83
2332 4824 8.044060 TGTGATCAGCTGGTTAAAATAAGAAG 57.956 34.615 15.13 0.00 0.00 2.85
2399 4891 9.618890 TCTGCTTCTGCTAATGAAACTATTTAT 57.381 29.630 0.00 0.00 40.48 1.40
2400 4892 9.448438 TTCTGCTTCTGCTAATGAAACTATTTA 57.552 29.630 0.00 0.00 40.48 1.40
2401 4893 7.928307 TCTGCTTCTGCTAATGAAACTATTT 57.072 32.000 0.00 0.00 40.48 1.40
2402 4894 7.391554 TGTTCTGCTTCTGCTAATGAAACTATT 59.608 33.333 0.00 0.00 40.48 1.73
2403 4895 6.881065 TGTTCTGCTTCTGCTAATGAAACTAT 59.119 34.615 0.00 0.00 40.48 2.12
2404 4896 6.230472 TGTTCTGCTTCTGCTAATGAAACTA 58.770 36.000 0.00 0.00 40.48 2.24
2405 4897 5.065914 TGTTCTGCTTCTGCTAATGAAACT 58.934 37.500 0.00 0.00 40.48 2.66
2406 4898 5.362556 TGTTCTGCTTCTGCTAATGAAAC 57.637 39.130 0.00 0.00 40.48 2.78
2407 4899 6.579666 AATGTTCTGCTTCTGCTAATGAAA 57.420 33.333 0.00 0.00 40.48 2.69
2408 4900 7.174772 TGTTAATGTTCTGCTTCTGCTAATGAA 59.825 33.333 0.00 0.00 40.48 2.57
2409 4901 6.654582 TGTTAATGTTCTGCTTCTGCTAATGA 59.345 34.615 0.00 0.00 40.48 2.57
2410 4902 6.744537 GTGTTAATGTTCTGCTTCTGCTAATG 59.255 38.462 0.00 0.00 40.48 1.90
2411 4903 6.656693 AGTGTTAATGTTCTGCTTCTGCTAAT 59.343 34.615 0.00 0.00 40.48 1.73
2412 4904 5.997746 AGTGTTAATGTTCTGCTTCTGCTAA 59.002 36.000 0.00 0.00 40.48 3.09
2413 4905 5.551233 AGTGTTAATGTTCTGCTTCTGCTA 58.449 37.500 0.00 0.00 40.48 3.49
2414 4906 4.392940 AGTGTTAATGTTCTGCTTCTGCT 58.607 39.130 0.00 0.00 40.48 4.24
2415 4907 4.756084 AGTGTTAATGTTCTGCTTCTGC 57.244 40.909 0.00 0.00 40.20 4.26
2416 4908 8.534333 TTACTAGTGTTAATGTTCTGCTTCTG 57.466 34.615 5.39 0.00 0.00 3.02
2417 4909 9.555727 TTTTACTAGTGTTAATGTTCTGCTTCT 57.444 29.630 5.39 0.00 0.00 2.85
2443 4935 7.400052 ACCTTATTTCCATACAGCCAGATTTTT 59.600 33.333 0.00 0.00 0.00 1.94
2444 4936 6.897413 ACCTTATTTCCATACAGCCAGATTTT 59.103 34.615 0.00 0.00 0.00 1.82
2445 4937 6.435164 ACCTTATTTCCATACAGCCAGATTT 58.565 36.000 0.00 0.00 0.00 2.17
2446 4938 6.018433 ACCTTATTTCCATACAGCCAGATT 57.982 37.500 0.00 0.00 0.00 2.40
2447 4939 5.132648 TGACCTTATTTCCATACAGCCAGAT 59.867 40.000 0.00 0.00 0.00 2.90
2448 4940 4.473196 TGACCTTATTTCCATACAGCCAGA 59.527 41.667 0.00 0.00 0.00 3.86
2449 4941 4.780815 TGACCTTATTTCCATACAGCCAG 58.219 43.478 0.00 0.00 0.00 4.85
2450 4942 4.853468 TGACCTTATTTCCATACAGCCA 57.147 40.909 0.00 0.00 0.00 4.75
2451 4943 4.022849 GCATGACCTTATTTCCATACAGCC 60.023 45.833 0.00 0.00 0.00 4.85
2452 4944 4.823989 AGCATGACCTTATTTCCATACAGC 59.176 41.667 0.00 0.00 0.00 4.40
2453 4945 6.949352 AAGCATGACCTTATTTCCATACAG 57.051 37.500 0.00 0.00 0.00 2.74
2454 4946 6.486657 GCTAAGCATGACCTTATTTCCATACA 59.513 38.462 0.00 0.00 0.00 2.29
2455 4947 6.712547 AGCTAAGCATGACCTTATTTCCATAC 59.287 38.462 0.00 0.00 0.00 2.39
2456 4948 6.841601 AGCTAAGCATGACCTTATTTCCATA 58.158 36.000 0.00 0.00 0.00 2.74
2457 4949 5.699143 AGCTAAGCATGACCTTATTTCCAT 58.301 37.500 0.00 0.00 0.00 3.41
2458 4950 5.116084 AGCTAAGCATGACCTTATTTCCA 57.884 39.130 0.00 0.00 0.00 3.53
2459 4951 7.568199 TTTAGCTAAGCATGACCTTATTTCC 57.432 36.000 6.24 0.00 0.00 3.13
2464 4956 9.066892 CCAAATATTTAGCTAAGCATGACCTTA 57.933 33.333 6.24 0.00 0.00 2.69
2465 4957 7.779798 TCCAAATATTTAGCTAAGCATGACCTT 59.220 33.333 6.24 0.00 0.00 3.50
2466 4958 7.290061 TCCAAATATTTAGCTAAGCATGACCT 58.710 34.615 6.24 0.00 0.00 3.85
2467 4959 7.308830 CCTCCAAATATTTAGCTAAGCATGACC 60.309 40.741 6.24 0.00 0.00 4.02
2468 4960 7.308830 CCCTCCAAATATTTAGCTAAGCATGAC 60.309 40.741 6.24 0.00 0.00 3.06
2469 4961 6.716628 CCCTCCAAATATTTAGCTAAGCATGA 59.283 38.462 6.24 0.00 0.00 3.07
2470 4962 6.917533 CCCTCCAAATATTTAGCTAAGCATG 58.082 40.000 6.24 3.59 0.00 4.06


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

AutoCloner maintained by Alex Coulton.