Multiple sequence alignment - TraesCS4D01G331100

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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 TraesCS4D01G331100 chr4D 100.000 4912 0 0 1 4912 489174375 489179286 0.000000e+00 9071.0
1 TraesCS4D01G331100 chr4B 92.392 4640 210 58 4 4557 627318192 627322774 0.000000e+00 6481.0
2 TraesCS4D01G331100 chr5A 91.342 4701 232 68 5 4602 670621439 670626067 0.000000e+00 6264.0
3 TraesCS4D01G331100 chr5A 95.513 156 7 0 4756 4911 670626598 670626753 2.940000e-62 250.0
4 TraesCS4D01G331100 chrUn 92.308 39 3 0 4871 4909 24687109 24687147 6.870000e-04 56.5


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 TraesCS4D01G331100 chr4D 489174375 489179286 4911 False 9071 9071 100.0000 1 4912 1 chr4D.!!$F1 4911
1 TraesCS4D01G331100 chr4B 627318192 627322774 4582 False 6481 6481 92.3920 4 4557 1 chr4B.!!$F1 4553
2 TraesCS4D01G331100 chr5A 670621439 670626753 5314 False 3257 6264 93.4275 5 4911 2 chr5A.!!$F1 4906

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
454 509 0.324183 AGAGCACTGCCTCTGAGCTA 60.324 55.000 0.0 0.0 40.55 3.32 F
531 586 0.465824 GCTAGCTACGGTGAGGAGGA 60.466 60.000 7.7 0.0 0.00 3.71 F
543 598 0.691413 GAGGAGGAACGGGGGAGAAT 60.691 60.000 0.0 0.0 0.00 2.40 F
953 1041 0.811616 GTTGCAGGCGGTGGAGATAG 60.812 60.000 0.0 0.0 0.00 2.08 F
1879 2002 1.271543 TGGTCAGCAAGGAATGGTCTG 60.272 52.381 0.0 0.0 37.77 3.51 F
2459 2583 1.885887 TGTGGTAAGATTTGGTGCTGC 59.114 47.619 0.0 0.0 0.00 5.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1774 1897 0.250684 TGCTCGGTTGCAAATCCTGA 60.251 50.000 0.00 0.0 40.29 3.86 R
1860 1983 1.271597 ACAGACCATTCCTTGCTGACC 60.272 52.381 0.00 0.0 0.00 4.02 R
1879 2002 1.427592 GCTGCGATCTGAGGCTTCAC 61.428 60.000 0.00 0.0 0.00 3.18 R
2164 2287 1.482182 AGTGATCTTATGCGCCTCACA 59.518 47.619 4.18 0.0 38.90 3.58 R
2755 2879 1.569653 AACAGTAGTAGAGCACCCCC 58.430 55.000 0.00 0.0 0.00 5.40 R
4324 4493 1.623311 TCACCCAGATACACACACAGG 59.377 52.381 0.00 0.0 0.00 4.00 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
21 25 4.686191 AGCAGTGATGAGGAGGATTAAG 57.314 45.455 0.00 0.00 0.00 1.85
27 31 7.206687 CAGTGATGAGGAGGATTAAGTTAGAC 58.793 42.308 0.00 0.00 0.00 2.59
35 39 3.709653 AGGATTAAGTTAGACGGCCATCA 59.290 43.478 0.00 0.00 0.00 3.07
108 112 6.834168 TCTTTTCAGGTTTCAGTTTTCACT 57.166 33.333 0.00 0.00 0.00 3.41
119 123 2.624838 CAGTTTTCACTCATGGCAGGTT 59.375 45.455 0.00 0.00 0.00 3.50
129 137 2.360475 GGCAGGTTGAGGTGAGGC 60.360 66.667 0.00 0.00 0.00 4.70
134 142 2.435059 GTTGAGGTGAGGCGAGGC 60.435 66.667 0.00 0.00 0.00 4.70
155 164 1.199615 GGAGTGAGGAAGAAGGGGAG 58.800 60.000 0.00 0.00 0.00 4.30
156 165 0.539518 GAGTGAGGAAGAAGGGGAGC 59.460 60.000 0.00 0.00 0.00 4.70
239 272 0.738389 CACACCACCACAAACCAGTC 59.262 55.000 0.00 0.00 0.00 3.51
291 332 2.045536 CTTGCTGGCCCTGACCTC 60.046 66.667 0.00 0.00 0.00 3.85
292 333 3.635268 CTTGCTGGCCCTGACCTCC 62.635 68.421 0.00 0.00 0.00 4.30
354 395 2.363018 CCTCGGTCTCCTGCCTCA 60.363 66.667 0.00 0.00 0.00 3.86
368 409 2.508887 CTCAGCTCGCTCACCTGC 60.509 66.667 0.00 0.00 0.00 4.85
419 472 1.072331 GGGTGTGGCTTCAGAAGAGAA 59.928 52.381 14.86 0.00 0.00 2.87
454 509 0.324183 AGAGCACTGCCTCTGAGCTA 60.324 55.000 0.00 0.00 40.55 3.32
498 553 1.386533 CCAGAGATTGGGCACATCAC 58.613 55.000 0.00 0.00 43.75 3.06
531 586 0.465824 GCTAGCTACGGTGAGGAGGA 60.466 60.000 7.70 0.00 0.00 3.71
533 588 1.677052 CTAGCTACGGTGAGGAGGAAC 59.323 57.143 0.00 0.00 0.00 3.62
542 597 1.305887 GAGGAGGAACGGGGGAGAA 60.306 63.158 0.00 0.00 0.00 2.87
543 598 0.691413 GAGGAGGAACGGGGGAGAAT 60.691 60.000 0.00 0.00 0.00 2.40
548 603 2.753452 GAGGAACGGGGGAGAATTTTTC 59.247 50.000 0.00 0.00 0.00 2.29
603 667 3.379688 GCTGGTTGATTCTCTTTGATCCC 59.620 47.826 0.00 0.00 0.00 3.85
700 774 6.843333 AGATCTGAGTAGATTCCAAGAATCCA 59.157 38.462 12.53 4.41 43.63 3.41
737 811 2.495084 GGAGTTCTTGGACTTGGACAC 58.505 52.381 0.00 0.00 0.00 3.67
793 870 7.032580 GTCTTTCTTTCTCTCGATCTGATTCA 58.967 38.462 0.00 0.00 0.00 2.57
914 993 3.056891 GGAATTTTTGATCTTGACCCGCA 60.057 43.478 0.00 0.00 0.00 5.69
928 1007 1.139058 ACCCGCAGTACTGATGATTCC 59.861 52.381 27.08 5.72 0.00 3.01
953 1041 0.811616 GTTGCAGGCGGTGGAGATAG 60.812 60.000 0.00 0.00 0.00 2.08
962 1050 2.201490 TGGAGATAGGGAGGCCGG 59.799 66.667 0.00 0.00 0.00 6.13
963 1051 3.315140 GGAGATAGGGAGGCCGGC 61.315 72.222 21.18 21.18 0.00 6.13
964 1052 3.686045 GAGATAGGGAGGCCGGCG 61.686 72.222 22.54 0.00 0.00 6.46
1125 1213 3.697747 TGGTACAAGGACGCCGGG 61.698 66.667 2.18 0.00 31.92 5.73
1421 1518 7.259882 TCATCAATTGCCAACTTATGATGTTC 58.740 34.615 16.94 0.00 42.80 3.18
1422 1519 6.587206 TCAATTGCCAACTTATGATGTTCA 57.413 33.333 0.00 0.00 0.00 3.18
1529 1635 6.036517 GGTACTCATTGCTGTAACATCAGAAG 59.963 42.308 0.00 0.00 37.61 2.85
1530 1636 5.798132 ACTCATTGCTGTAACATCAGAAGA 58.202 37.500 0.00 0.00 37.61 2.87
1531 1637 6.413052 ACTCATTGCTGTAACATCAGAAGAT 58.587 36.000 0.00 0.00 37.61 2.40
1671 1786 4.730035 GCTGCTTATGTCTTCTGTTGATGC 60.730 45.833 0.00 0.00 0.00 3.91
1774 1897 7.816031 CAGTGCATGATAAACAATCTCCTTTTT 59.184 33.333 0.00 0.00 35.45 1.94
1860 1983 2.544726 GGACGGCTTCCTTTCTGTG 58.455 57.895 2.18 0.00 41.95 3.66
1879 2002 1.271543 TGGTCAGCAAGGAATGGTCTG 60.272 52.381 0.00 0.00 37.77 3.51
1980 2103 3.470567 GACTCGCGTGCGGTTCTG 61.471 66.667 14.89 2.99 40.25 3.02
2164 2287 4.529377 TCCAGGTAACCGAAATTCTGTACT 59.471 41.667 0.00 0.00 37.17 2.73
2266 2389 4.254402 ACATCATCTGTCCATCTCATCG 57.746 45.455 0.00 0.00 29.94 3.84
2314 2438 6.347402 CCGGAGTATGGATAATTACTTTTGCG 60.347 42.308 0.00 0.00 0.00 4.85
2399 2523 5.163530 CCTGCACTAAATATGGTTGCATCAA 60.164 40.000 0.00 0.00 0.00 2.57
2406 2530 9.970395 ACTAAATATGGTTGCATCAACATAATG 57.030 29.630 11.22 0.00 45.11 1.90
2459 2583 1.885887 TGTGGTAAGATTTGGTGCTGC 59.114 47.619 0.00 0.00 0.00 5.25
2611 2735 4.397730 CCCATGGTTATCGTCATTTTCACA 59.602 41.667 11.73 0.00 0.00 3.58
2855 2979 6.015350 TCGGAGATGTATATCTGAAAAGACCC 60.015 42.308 6.72 0.00 43.63 4.46
2987 3111 8.462016 AGTGATCAGTTTGTTATATTTGCTTCC 58.538 33.333 0.00 0.00 0.00 3.46
3142 3266 7.598493 TGATTCAAATCCAAAATTCCTTTCGAC 59.402 33.333 0.48 0.00 34.50 4.20
3165 3289 3.817647 GCTCAGTACCCATCCAATTCATC 59.182 47.826 0.00 0.00 0.00 2.92
3176 3300 8.272889 ACCCATCCAATTCATCAGATATATGAG 58.727 37.037 6.18 0.00 34.93 2.90
3353 3493 6.100714 TGTTACCCCTTCTCTACTCAAAGTTT 59.899 38.462 0.00 0.00 0.00 2.66
4017 4166 4.463879 CTGCTCAGGCTCCACCCG 62.464 72.222 0.00 0.00 40.58 5.28
4085 4235 2.435938 ATTCCGTGGCGACGCAAT 60.436 55.556 23.09 10.45 44.68 3.56
4115 4279 7.366913 CCTCCCCTTTGTTCTTTTATCTATCCT 60.367 40.741 0.00 0.00 0.00 3.24
4116 4280 7.939781 TCCCCTTTGTTCTTTTATCTATCCTT 58.060 34.615 0.00 0.00 0.00 3.36
4200 4367 3.060895 GTCTCTTTTCGCAATAGTCCGTG 59.939 47.826 0.00 0.00 0.00 4.94
4287 4456 2.314549 TCAAGGGGTGCCTCCAATTATT 59.685 45.455 0.00 0.00 38.11 1.40
4324 4493 5.499139 TTATGAAATCGGATGAACTTGGC 57.501 39.130 0.00 0.00 0.00 4.52
4481 4650 0.692476 TGGGACACTCATCCAACAGG 59.308 55.000 0.00 0.00 40.96 4.00
4492 4661 5.102953 TCATCCAACAGGAATTAGGTCTG 57.897 43.478 0.00 0.00 34.49 3.51
4498 4667 5.395768 CCAACAGGAATTAGGTCTGGACTAG 60.396 48.000 0.67 0.00 33.19 2.57
4522 4691 1.408683 GCTTGGATCACACCCATAGCA 60.409 52.381 0.00 0.00 37.55 3.49
4546 4715 1.003464 GCATCAAAGGGCCCAATTGTT 59.997 47.619 29.24 22.28 0.00 2.83
4547 4716 2.936553 GCATCAAAGGGCCCAATTGTTC 60.937 50.000 29.24 19.32 0.00 3.18
4551 4720 0.786435 AAGGGCCCAATTGTTCCTCT 59.214 50.000 27.56 0.00 0.00 3.69
4571 4740 1.288633 TCATGGTCATGGGGCTTTGAT 59.711 47.619 10.61 0.00 39.24 2.57
4593 4762 2.154567 TTACTGGAGTGGCGGTAGAT 57.845 50.000 0.00 0.00 0.00 1.98
4605 4854 5.054477 GTGGCGGTAGATTAAATTAGCTGA 58.946 41.667 0.00 0.00 0.00 4.26
4631 4880 3.181526 GCAGCTTGTCGTTTCACAGATAG 60.182 47.826 0.00 0.00 0.00 2.08
4643 4892 4.725556 TCACAGATAGAAACAACGCAAC 57.274 40.909 0.00 0.00 0.00 4.17
4644 4893 4.123506 TCACAGATAGAAACAACGCAACA 58.876 39.130 0.00 0.00 0.00 3.33
4656 4905 1.668419 ACGCAACAGAGCAAGTTCTT 58.332 45.000 0.00 0.00 0.00 2.52
4715 4964 3.390521 TGCCATCCGACTTCGCCT 61.391 61.111 0.00 0.00 38.18 5.52
4731 4980 0.577269 GCCTGAAATTCGACGATCGG 59.423 55.000 20.98 2.12 40.88 4.18
4806 5352 0.038618 CAGCTGCATGCAAAGCTCAA 60.039 50.000 26.50 0.78 46.82 3.02
4816 5362 0.390735 CAAAGCTCAATGCAAGGCCC 60.391 55.000 0.00 0.00 45.94 5.80
4825 5371 1.648116 ATGCAAGGCCCAGTTTTCAT 58.352 45.000 0.00 0.00 0.00 2.57
4874 5420 7.592164 GTGAGTAAGTACAAACTTCAGAGTCTC 59.408 40.741 0.00 0.00 42.42 3.36
4879 5425 1.048601 AAACTTCAGAGTCTCGGGCA 58.951 50.000 0.00 0.00 34.21 5.36
4885 5431 4.835615 ACTTCAGAGTCTCGGGCATTATAT 59.164 41.667 0.00 0.00 0.00 0.86
4901 5447 9.890629 GGGCATTATATAGTCTTCACATGATTA 57.109 33.333 0.00 0.00 0.00 1.75
4911 5457 8.083828 AGTCTTCACATGATTACTTGTATCCT 57.916 34.615 0.00 0.00 33.96 3.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.036518 ACTTAATCCTCCTCATCACTGCT 58.963 43.478 0.00 0.00 0.00 4.24
1 2 4.414337 ACTTAATCCTCCTCATCACTGC 57.586 45.455 0.00 0.00 0.00 4.40
2 3 7.206687 GTCTAACTTAATCCTCCTCATCACTG 58.793 42.308 0.00 0.00 0.00 3.66
21 25 3.487544 GCAGAAAATGATGGCCGTCTAAC 60.488 47.826 25.20 12.03 0.00 2.34
27 31 1.994779 GTTTGCAGAAAATGATGGCCG 59.005 47.619 0.00 0.00 0.00 6.13
94 98 4.293415 CTGCCATGAGTGAAAACTGAAAC 58.707 43.478 0.00 0.00 0.00 2.78
108 112 0.325933 CTCACCTCAACCTGCCATGA 59.674 55.000 0.00 0.00 0.00 3.07
129 137 3.068691 TTCCTCACTCCCGCCTCG 61.069 66.667 0.00 0.00 0.00 4.63
134 142 1.617947 CCCCTTCTTCCTCACTCCCG 61.618 65.000 0.00 0.00 0.00 5.14
155 164 0.796491 CTCGCTCGAGTCAGTTCAGC 60.796 60.000 15.13 0.00 37.47 4.26
156 165 0.179176 CCTCGCTCGAGTCAGTTCAG 60.179 60.000 15.13 0.00 40.44 3.02
239 272 4.588899 TCCTACCAATCCTGATTGTTGTG 58.411 43.478 16.39 5.92 44.97 3.33
368 409 2.548904 CCAGCCTACTACTGCTAGTACG 59.451 54.545 0.00 0.00 35.69 3.67
379 432 0.178855 AACCCAACCCCAGCCTACTA 60.179 55.000 0.00 0.00 0.00 1.82
419 472 2.700371 TGCTCTCTCTCTCTCTCTCGAT 59.300 50.000 0.00 0.00 0.00 3.59
431 484 0.039472 TCAGAGGCAGTGCTCTCTCT 59.961 55.000 24.69 19.97 35.28 3.10
438 491 1.580815 GAATAGCTCAGAGGCAGTGC 58.419 55.000 6.55 6.55 34.17 4.40
454 509 0.984230 TCGCTGGAAGTGGAAGGAAT 59.016 50.000 0.00 0.00 46.62 3.01
523 578 2.038975 CTCCCCCGTTCCTCCTCA 59.961 66.667 0.00 0.00 0.00 3.86
531 586 2.992847 AGGAAAAATTCTCCCCCGTT 57.007 45.000 3.45 0.00 32.95 4.44
533 588 3.832490 AGAAAAGGAAAAATTCTCCCCCG 59.168 43.478 3.45 0.00 32.95 5.73
542 597 8.565896 AGCTTGACAAAAAGAAAAGGAAAAAT 57.434 26.923 0.00 0.00 0.00 1.82
543 598 7.119116 GGAGCTTGACAAAAAGAAAAGGAAAAA 59.881 33.333 0.00 0.00 0.00 1.94
548 603 5.268118 AGGAGCTTGACAAAAAGAAAAGG 57.732 39.130 0.00 0.00 0.00 3.11
628 702 2.464459 CGAACAGCGAGGATTGGGC 61.464 63.158 0.00 0.00 44.57 5.36
823 900 0.036306 AAGAAACCGCGTCAATCCCT 59.964 50.000 4.92 0.00 0.00 4.20
914 993 4.553330 ACCAAACGGAATCATCAGTACT 57.447 40.909 0.00 0.00 32.50 2.73
928 1007 3.591835 ACCGCCTGCAACCAAACG 61.592 61.111 0.00 0.00 0.00 3.60
1485 1585 2.375174 ACCAAACTATCACAGCCCTTCA 59.625 45.455 0.00 0.00 0.00 3.02
1535 1641 7.383102 AGTCTACTGAACCTGCAATATTTTG 57.617 36.000 0.00 0.00 35.85 2.44
1644 1759 5.185828 TCAACAGAAGACATAAGCAGCTAGA 59.814 40.000 0.00 0.00 0.00 2.43
1645 1760 5.414360 TCAACAGAAGACATAAGCAGCTAG 58.586 41.667 0.00 0.00 0.00 3.42
1646 1761 5.405935 TCAACAGAAGACATAAGCAGCTA 57.594 39.130 0.00 0.00 0.00 3.32
1704 1827 2.470057 AAGAAACAGCCCCCAGAAAA 57.530 45.000 0.00 0.00 0.00 2.29
1774 1897 0.250684 TGCTCGGTTGCAAATCCTGA 60.251 50.000 0.00 0.00 40.29 3.86
1860 1983 1.271597 ACAGACCATTCCTTGCTGACC 60.272 52.381 0.00 0.00 0.00 4.02
1879 2002 1.427592 GCTGCGATCTGAGGCTTCAC 61.428 60.000 0.00 0.00 0.00 3.18
1980 2103 2.335712 CGCCTTGACAAGCCTTCCC 61.336 63.158 9.85 0.00 0.00 3.97
2164 2287 1.482182 AGTGATCTTATGCGCCTCACA 59.518 47.619 4.18 0.00 38.90 3.58
2314 2438 2.111756 CTTGAAACAAACAGCGCAGAC 58.888 47.619 11.47 0.00 0.00 3.51
2459 2583 5.813672 CCCAGTCAAAAAGATGGCAATTATG 59.186 40.000 0.00 0.00 0.00 1.90
2469 2593 1.713078 AGAGGCCCCAGTCAAAAAGAT 59.287 47.619 0.00 0.00 0.00 2.40
2475 2599 1.761174 GACAAGAGGCCCCAGTCAA 59.239 57.895 0.00 0.00 0.00 3.18
2611 2735 7.284489 TGGTGTTGATTAGCTCAAAAGTTAAGT 59.716 33.333 0.00 0.00 45.27 2.24
2755 2879 1.569653 AACAGTAGTAGAGCACCCCC 58.430 55.000 0.00 0.00 0.00 5.40
2855 2979 6.862711 TGTAGAGGTGATCTGTTATACTCG 57.137 41.667 0.00 0.00 39.20 4.18
3142 3266 2.213499 GAATTGGATGGGTACTGAGCG 58.787 52.381 0.00 0.00 0.00 5.03
3165 3289 6.218108 TCCTACATGCTGCTCATATATCTG 57.782 41.667 0.00 0.00 33.19 2.90
3176 3300 5.885230 TGCATATATTTCCTACATGCTGC 57.115 39.130 6.43 0.00 41.94 5.25
3224 3348 1.877443 CAACTTTTAGTCCCACCCACG 59.123 52.381 0.00 0.00 0.00 4.94
3353 3493 5.923684 CGCCTAGAGTTTAAAATGGCAAAAA 59.076 36.000 13.72 0.00 38.87 1.94
3360 3500 9.834628 TTGAAATAACGCCTAGAGTTTAAAATG 57.165 29.630 8.47 0.00 33.42 2.32
3527 3667 2.440409 GGATGACATGCAACTTGAGGT 58.560 47.619 1.50 0.00 0.00 3.85
3920 4069 3.723348 GCGCGGCGGTTTCTTCTT 61.723 61.111 25.03 0.00 0.00 2.52
4017 4166 8.654215 GCTATCAGTACGCTAATTTAATTACCC 58.346 37.037 0.00 0.00 0.00 3.69
4085 4235 2.133858 AAGAACAAAGGGGAGGAGGA 57.866 50.000 0.00 0.00 0.00 3.71
4116 4280 5.582950 TCCCTCATTGGAGAAGAGAAAAA 57.417 39.130 0.00 0.00 44.26 1.94
4200 4367 4.467735 GCGAAAACAAGAGATGGAAGAAC 58.532 43.478 0.00 0.00 0.00 3.01
4287 4456 6.693978 CGATTTCATAATGAATCTGCTGCAAA 59.306 34.615 3.02 0.00 36.11 3.68
4324 4493 1.623311 TCACCCAGATACACACACAGG 59.377 52.381 0.00 0.00 0.00 4.00
4481 4650 7.375053 CAAGCTATCTAGTCCAGACCTAATTC 58.625 42.308 0.00 0.00 35.62 2.17
4492 4661 4.262249 GGTGTGATCCAAGCTATCTAGTCC 60.262 50.000 0.00 0.00 0.00 3.85
4498 4667 3.498774 ATGGGTGTGATCCAAGCTATC 57.501 47.619 0.00 0.00 37.87 2.08
4546 4715 1.348008 GCCCCATGACCATGAGAGGA 61.348 60.000 11.28 0.00 41.20 3.71
4547 4716 1.150081 GCCCCATGACCATGAGAGG 59.850 63.158 11.28 9.60 41.20 3.69
4551 4720 0.703488 TCAAAGCCCCATGACCATGA 59.297 50.000 11.28 0.00 41.20 3.07
4571 4740 2.633967 TCTACCGCCACTCCAGTAAAAA 59.366 45.455 0.00 0.00 0.00 1.94
4605 4854 3.512626 TGTGAAACGACAAGCTGCTTGT 61.513 45.455 39.45 39.45 45.98 3.16
4631 4880 2.111756 CTTGCTCTGTTGCGTTGTTTC 58.888 47.619 0.00 0.00 35.36 2.78
4643 4892 8.077991 TGTGAAATTTATGAAGAACTTGCTCTG 58.922 33.333 0.00 0.00 0.00 3.35
4644 4893 8.169977 TGTGAAATTTATGAAGAACTTGCTCT 57.830 30.769 0.00 0.00 0.00 4.09
4678 4927 4.442753 GGCACCCAGATTTTGTTTCTCAAA 60.443 41.667 0.00 0.00 43.24 2.69
4692 4941 1.899437 GAAGTCGGATGGCACCCAGA 61.899 60.000 0.00 0.00 36.75 3.86
4693 4942 1.450312 GAAGTCGGATGGCACCCAG 60.450 63.158 0.00 0.00 36.75 4.45
4715 4964 4.041740 AGATTCCGATCGTCGAATTTCA 57.958 40.909 15.09 0.00 43.74 2.69
4731 4980 3.120165 GGGAGAACAACTTGCGAAGATTC 60.120 47.826 3.37 4.52 0.00 2.52
4806 5352 1.551883 GATGAAAACTGGGCCTTGCAT 59.448 47.619 4.53 0.28 0.00 3.96
4816 5362 7.501559 ACATCATGAATCCTAGGATGAAAACTG 59.498 37.037 25.20 18.94 38.87 3.16
4825 5371 5.044919 ACAAACCACATCATGAATCCTAGGA 60.045 40.000 15.46 15.46 0.00 2.94
4874 5420 6.398095 TCATGTGAAGACTATATAATGCCCG 58.602 40.000 0.00 0.00 0.00 6.13
4885 5431 9.201989 AGGATACAAGTAATCATGTGAAGACTA 57.798 33.333 0.00 0.00 41.41 2.59


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

AutoCloner maintained by Alex Coulton.