Multiple sequence alignment - TraesCS5D01G412500

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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 TraesCS5D01G412500 chr5D 100.000 4838 0 0 1 4838 475691111 475695948 0.000000e+00 8935.0
1 TraesCS5D01G412500 chr5D 72.639 1345 296 50 1245 2550 77577765 77579076 3.530000e-101 379.0
2 TraesCS5D01G412500 chr5A 96.917 3827 90 17 566 4370 595143695 595147515 0.000000e+00 6388.0
3 TraesCS5D01G412500 chr5A 90.683 483 27 7 4372 4838 595147566 595148046 1.140000e-175 627.0
4 TraesCS5D01G412500 chr5A 87.915 422 26 3 67 464 595143184 595143604 1.580000e-129 473.0
5 TraesCS5D01G412500 chr5A 73.717 1111 237 40 1460 2550 74478347 74479422 2.730000e-102 383.0
6 TraesCS5D01G412500 chr5B 97.335 3602 70 15 791 4370 583175940 583179537 0.000000e+00 6096.0
7 TraesCS5D01G412500 chr5B 83.707 669 59 22 67 698 583174869 583175524 1.940000e-163 586.0
8 TraesCS5D01G412500 chr5B 92.212 321 14 8 4358 4669 583179581 583179899 1.240000e-120 444.0
9 TraesCS5D01G412500 chr7D 87.654 81 5 2 4174 4254 504755466 504755541 6.670000e-14 89.8


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 TraesCS5D01G412500 chr5D 475691111 475695948 4837 False 8935.000000 8935 100.000000 1 4838 1 chr5D.!!$F2 4837
1 TraesCS5D01G412500 chr5D 77577765 77579076 1311 False 379.000000 379 72.639000 1245 2550 1 chr5D.!!$F1 1305
2 TraesCS5D01G412500 chr5A 595143184 595148046 4862 False 2496.000000 6388 91.838333 67 4838 3 chr5A.!!$F2 4771
3 TraesCS5D01G412500 chr5A 74478347 74479422 1075 False 383.000000 383 73.717000 1460 2550 1 chr5A.!!$F1 1090
4 TraesCS5D01G412500 chr5B 583174869 583179899 5030 False 2375.333333 6096 91.084667 67 4669 3 chr5B.!!$F1 4602

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
193 194 0.038599 GATACACCGGGGTTGGGTTT 59.961 55.000 18.35 0.0 34.97 3.27 F
2130 2558 1.202545 GGAGCTGATCCTACGGGTTTC 60.203 57.143 4.35 0.0 45.64 2.78 F
2730 3161 0.817654 CGGCTGTGAGGTCAGTATCA 59.182 55.000 0.00 0.0 37.70 2.15 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2154 2582 1.128136 CTCTGCAAGCAAGACATCACG 59.872 52.381 0.00 0.0 0.00 4.35 R
3009 3440 0.244178 GACGGAACTCACCCTCTGTC 59.756 60.000 0.00 0.0 39.95 3.51 R
4517 5021 0.029567 CTACTCGGAGGCTTAGTGCG 59.970 60.000 10.23 0.0 44.05 5.34 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
28 29 2.690173 TTTTTCACAATGGTACGGCG 57.310 45.000 4.80 4.80 0.00 6.46
29 30 0.238817 TTTTCACAATGGTACGGCGC 59.761 50.000 6.90 0.00 0.00 6.53
30 31 1.579084 TTTCACAATGGTACGGCGCC 61.579 55.000 19.07 19.07 0.00 6.53
31 32 3.860125 CACAATGGTACGGCGCCG 61.860 66.667 44.88 44.88 46.03 6.46
41 42 2.634777 CGGCGCCGTGAAAGAAAA 59.365 55.556 39.71 0.00 34.35 2.29
42 43 1.009449 CGGCGCCGTGAAAGAAAAA 60.009 52.632 39.71 0.00 34.35 1.94
65 66 9.513727 AAAAACATGTCCAACATTTTATTTTGC 57.486 25.926 0.00 0.00 36.53 3.68
66 67 6.464895 ACATGTCCAACATTTTATTTTGCG 57.535 33.333 0.00 0.00 36.53 4.85
67 68 6.219473 ACATGTCCAACATTTTATTTTGCGA 58.781 32.000 0.00 0.00 36.53 5.10
68 69 6.703607 ACATGTCCAACATTTTATTTTGCGAA 59.296 30.769 0.00 0.00 36.53 4.70
69 70 7.387397 ACATGTCCAACATTTTATTTTGCGAAT 59.613 29.630 0.00 0.00 36.53 3.34
70 71 8.867935 CATGTCCAACATTTTATTTTGCGAATA 58.132 29.630 0.00 0.00 36.53 1.75
71 72 8.818141 TGTCCAACATTTTATTTTGCGAATAA 57.182 26.923 0.00 2.06 0.00 1.40
193 194 0.038599 GATACACCGGGGTTGGGTTT 59.961 55.000 18.35 0.00 34.97 3.27
275 284 2.087646 GAAGTTCTGCCATGGAGGAAC 58.912 52.381 27.98 27.98 41.22 3.62
285 294 3.007398 GCCATGGAGGAACGAATATCTCT 59.993 47.826 18.40 0.00 41.22 3.10
373 399 6.379988 ACCTTCACATATTATTCAACAACCCC 59.620 38.462 0.00 0.00 0.00 4.95
410 436 5.304686 ACCCACTGTGAAGATAGAAACAA 57.695 39.130 9.86 0.00 0.00 2.83
431 457 3.967332 ATTGCATTTGACCTTCCTTGG 57.033 42.857 0.00 0.00 0.00 3.61
432 458 2.380064 TGCATTTGACCTTCCTTGGT 57.620 45.000 0.00 0.00 44.10 3.67
456 482 9.129209 GGTTAAAAGTCAGCAAAATCATCTAAC 57.871 33.333 0.00 0.00 0.00 2.34
474 501 7.560991 TCATCTAACAATGGAGGTAAAATGCAT 59.439 33.333 0.00 0.00 0.00 3.96
476 503 5.999205 AACAATGGAGGTAAAATGCATGA 57.001 34.783 0.00 0.00 0.00 3.07
480 507 4.987408 TGGAGGTAAAATGCATGATGTG 57.013 40.909 0.00 0.00 0.00 3.21
535 562 8.603898 TGAGATGTAAATCTAAACCTAGGTCA 57.396 34.615 16.64 5.71 0.00 4.02
538 565 9.213777 AGATGTAAATCTAAACCTAGGTCATGA 57.786 33.333 16.64 13.42 0.00 3.07
539 566 9.482627 GATGTAAATCTAAACCTAGGTCATGAG 57.517 37.037 16.64 10.14 0.00 2.90
540 567 7.272978 TGTAAATCTAAACCTAGGTCATGAGC 58.727 38.462 16.64 17.19 0.00 4.26
541 568 6.567602 AAATCTAAACCTAGGTCATGAGCT 57.432 37.500 28.82 28.82 42.47 4.09
542 569 6.567602 AATCTAAACCTAGGTCATGAGCTT 57.432 37.500 30.69 15.91 40.09 3.74
543 570 6.567602 ATCTAAACCTAGGTCATGAGCTTT 57.432 37.500 30.69 20.75 40.09 3.51
544 571 5.734720 TCTAAACCTAGGTCATGAGCTTTG 58.265 41.667 30.69 22.89 40.09 2.77
545 572 3.356529 AACCTAGGTCATGAGCTTTGG 57.643 47.619 30.69 29.81 40.09 3.28
546 573 2.269940 ACCTAGGTCATGAGCTTTGGT 58.730 47.619 30.15 30.15 40.09 3.67
547 574 2.644798 ACCTAGGTCATGAGCTTTGGTT 59.355 45.455 30.15 20.67 39.61 3.67
548 575 3.074538 ACCTAGGTCATGAGCTTTGGTTT 59.925 43.478 30.15 18.17 39.61 3.27
549 576 3.441572 CCTAGGTCATGAGCTTTGGTTTG 59.558 47.826 30.69 12.80 40.09 2.93
550 577 2.242043 AGGTCATGAGCTTTGGTTTGG 58.758 47.619 21.55 0.00 35.28 3.28
551 578 1.273327 GGTCATGAGCTTTGGTTTGGG 59.727 52.381 17.59 0.00 0.00 4.12
552 579 1.963515 GTCATGAGCTTTGGTTTGGGT 59.036 47.619 0.00 0.00 0.00 4.51
553 580 3.153919 GTCATGAGCTTTGGTTTGGGTA 58.846 45.455 0.00 0.00 0.00 3.69
554 581 3.191371 GTCATGAGCTTTGGTTTGGGTAG 59.809 47.826 0.00 0.00 0.00 3.18
555 582 3.157087 CATGAGCTTTGGTTTGGGTAGT 58.843 45.455 0.00 0.00 0.00 2.73
556 583 4.042311 TCATGAGCTTTGGTTTGGGTAGTA 59.958 41.667 0.00 0.00 0.00 1.82
753 820 2.515991 CGCTCGCTCCTCTCCTCT 60.516 66.667 0.00 0.00 0.00 3.69
984 1379 3.843240 CGTTCTTCGCTGCGGCTC 61.843 66.667 23.03 7.72 36.09 4.70
985 1380 3.843240 GTTCTTCGCTGCGGCTCG 61.843 66.667 23.03 8.19 36.09 5.03
1874 2302 2.752238 CACCGAGCTCCGAGACCT 60.752 66.667 8.47 0.00 41.76 3.85
2130 2558 1.202545 GGAGCTGATCCTACGGGTTTC 60.203 57.143 4.35 0.00 45.64 2.78
2617 3048 0.899720 ATTGCCTGCATCCTGGTTTG 59.100 50.000 0.00 0.00 32.98 2.93
2706 3137 1.798813 GACAACCATGTCGTGTCCTTC 59.201 52.381 8.68 0.00 45.94 3.46
2730 3161 0.817654 CGGCTGTGAGGTCAGTATCA 59.182 55.000 0.00 0.00 37.70 2.15
2985 3416 1.946768 TCAGAAAACCAGGTTGAAGCG 59.053 47.619 5.30 0.00 0.00 4.68
3009 3440 0.617413 ACAGTGCCATCAGAAGGGAG 59.383 55.000 0.00 0.00 0.00 4.30
3213 3644 4.503991 GCAGTGGGAGAAGAAGAAGAAGAA 60.504 45.833 0.00 0.00 0.00 2.52
3214 3645 5.237048 CAGTGGGAGAAGAAGAAGAAGAAG 58.763 45.833 0.00 0.00 0.00 2.85
3215 3646 5.011533 CAGTGGGAGAAGAAGAAGAAGAAGA 59.988 44.000 0.00 0.00 0.00 2.87
3450 3881 4.514066 GGCCCGAAGATAAAATATGAACGT 59.486 41.667 0.00 0.00 0.00 3.99
3543 3974 3.054508 AGAAGATGGCAGAGAAAGAAGGG 60.055 47.826 0.00 0.00 0.00 3.95
3810 4241 0.318441 TTGAACAGGAGAGGCTGTCG 59.682 55.000 5.49 0.00 32.77 4.35
3979 4411 2.834549 GTGGAAGAGGAGATGTCAAGGA 59.165 50.000 0.00 0.00 0.00 3.36
4214 4653 1.942657 CTCCATTGGCCATGAAGTACG 59.057 52.381 6.09 0.00 34.31 3.67
4288 4729 2.927056 GGTGATCCATCCACCCCC 59.073 66.667 0.00 0.00 46.30 5.40
4350 4791 5.465724 GTCCTCGGTATGTTTTGTATGGATC 59.534 44.000 0.00 0.00 0.00 3.36
4370 4811 3.843422 TCCTGGTTTGTTGGTCAATGAT 58.157 40.909 0.00 0.00 35.84 2.45
4411 4911 0.317603 GATTCGCTGGTGCATGATGC 60.318 55.000 11.12 11.12 45.29 3.91
4419 4920 1.210967 TGGTGCATGATGCTCATCTGA 59.789 47.619 19.19 0.00 45.31 3.27
4595 5099 0.247736 CTGACTAGAACGGCCTGCTT 59.752 55.000 0.00 0.00 0.00 3.91
4636 5140 2.080286 TTCTGGTCGCTGTTCTAAGC 57.920 50.000 0.00 0.00 39.94 3.09
4693 5197 2.004017 TCGACAGTGTTGGTTGTTGTC 58.996 47.619 10.71 0.00 35.88 3.18
4707 5217 2.241160 TGTTGTCGAGCTGGTAGGTTA 58.759 47.619 0.00 0.00 0.00 2.85
4711 5221 1.755380 GTCGAGCTGGTAGGTTATGGT 59.245 52.381 0.00 0.00 0.00 3.55
4720 5230 3.244630 TGGTAGGTTATGGTCTTTTGCGT 60.245 43.478 0.00 0.00 0.00 5.24
4723 5233 4.499037 AGGTTATGGTCTTTTGCGTTTC 57.501 40.909 0.00 0.00 0.00 2.78
4782 5292 3.507162 TGTTGGCTTGAAGAAGATGGA 57.493 42.857 0.00 0.00 0.00 3.41
4788 5306 4.703575 TGGCTTGAAGAAGATGGATTTCAG 59.296 41.667 0.00 0.00 31.85 3.02
4791 5309 6.320944 GCTTGAAGAAGATGGATTTCAGTTC 58.679 40.000 0.00 0.00 31.85 3.01
4793 5311 7.444629 TTGAAGAAGATGGATTTCAGTTCTG 57.555 36.000 0.00 0.00 34.61 3.02
4806 5324 4.750021 TCAGTTCTGAAGCAGCAGATAT 57.250 40.909 9.02 0.00 43.84 1.63
4818 5336 4.163078 AGCAGCAGATATGTGTAGGACTTT 59.837 41.667 1.37 0.00 0.00 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 1.335142 GCGCCGTACCATTGTGAAAAA 60.335 47.619 0.00 0.00 0.00 1.94
10 11 0.238817 GCGCCGTACCATTGTGAAAA 59.761 50.000 0.00 0.00 0.00 2.29
11 12 1.579084 GGCGCCGTACCATTGTGAAA 61.579 55.000 12.58 0.00 0.00 2.69
12 13 2.036006 GGCGCCGTACCATTGTGAA 61.036 57.895 12.58 0.00 0.00 3.18
13 14 2.435234 GGCGCCGTACCATTGTGA 60.435 61.111 12.58 0.00 0.00 3.58
14 15 3.860125 CGGCGCCGTACCATTGTG 61.860 66.667 39.71 8.63 34.35 3.33
24 25 1.009449 TTTTTCTTTCACGGCGCCG 60.009 52.632 44.88 44.88 46.03 6.46
39 40 9.513727 GCAAAATAAAATGTTGGACATGTTTTT 57.486 25.926 0.00 4.38 37.97 1.94
40 41 7.854916 CGCAAAATAAAATGTTGGACATGTTTT 59.145 29.630 0.00 0.00 37.97 2.43
41 42 7.225538 TCGCAAAATAAAATGTTGGACATGTTT 59.774 29.630 0.00 4.81 37.97 2.83
42 43 6.703607 TCGCAAAATAAAATGTTGGACATGTT 59.296 30.769 0.00 2.40 37.97 2.71
43 44 6.219473 TCGCAAAATAAAATGTTGGACATGT 58.781 32.000 0.00 0.00 37.97 3.21
44 45 6.702972 TCGCAAAATAAAATGTTGGACATG 57.297 33.333 0.00 0.00 37.97 3.21
45 46 7.903995 ATTCGCAAAATAAAATGTTGGACAT 57.096 28.000 0.00 0.00 41.31 3.06
46 47 8.818141 TTATTCGCAAAATAAAATGTTGGACA 57.182 26.923 0.09 0.00 0.00 4.02
49 50 9.869844 TGTTTTATTCGCAAAATAAAATGTTGG 57.130 25.926 20.76 0.00 41.37 3.77
54 55 9.540431 GCACATGTTTTATTCGCAAAATAAAAT 57.460 25.926 20.76 10.09 41.37 1.82
55 56 8.551205 TGCACATGTTTTATTCGCAAAATAAAA 58.449 25.926 16.79 16.79 38.82 1.52
56 57 8.076714 TGCACATGTTTTATTCGCAAAATAAA 57.923 26.923 0.00 9.00 32.17 1.40
57 58 7.643528 TGCACATGTTTTATTCGCAAAATAA 57.356 28.000 0.00 0.00 30.56 1.40
58 59 7.169813 TGTTGCACATGTTTTATTCGCAAAATA 59.830 29.630 16.26 6.40 39.36 1.40
59 60 6.018425 TGTTGCACATGTTTTATTCGCAAAAT 60.018 30.769 16.26 0.00 39.36 1.82
60 61 5.291858 TGTTGCACATGTTTTATTCGCAAAA 59.708 32.000 16.26 10.37 39.36 2.44
61 62 4.805719 TGTTGCACATGTTTTATTCGCAAA 59.194 33.333 16.26 7.11 39.36 3.68
62 63 4.363138 TGTTGCACATGTTTTATTCGCAA 58.637 34.783 12.03 12.03 35.68 4.85
63 64 3.969899 TGTTGCACATGTTTTATTCGCA 58.030 36.364 0.00 0.00 0.00 5.10
64 65 5.118357 TCAATGTTGCACATGTTTTATTCGC 59.882 36.000 0.00 0.00 37.97 4.70
65 66 6.687653 TCAATGTTGCACATGTTTTATTCG 57.312 33.333 0.00 0.00 37.97 3.34
66 67 7.118101 ACCATCAATGTTGCACATGTTTTATTC 59.882 33.333 0.00 0.00 37.97 1.75
67 68 6.935771 ACCATCAATGTTGCACATGTTTTATT 59.064 30.769 0.00 0.00 37.97 1.40
68 69 6.465948 ACCATCAATGTTGCACATGTTTTAT 58.534 32.000 0.00 0.00 37.97 1.40
69 70 5.851720 ACCATCAATGTTGCACATGTTTTA 58.148 33.333 0.00 0.00 37.97 1.52
70 71 4.706035 ACCATCAATGTTGCACATGTTTT 58.294 34.783 0.00 0.00 37.97 2.43
71 72 4.339872 ACCATCAATGTTGCACATGTTT 57.660 36.364 0.00 0.00 37.97 2.83
91 92 3.612423 GTGCATAATTTTTCTGGCCGAAC 59.388 43.478 9.15 0.00 0.00 3.95
109 110 2.066340 CTCTAACCCCCACAGTGCA 58.934 57.895 0.00 0.00 0.00 4.57
193 194 1.964223 GGTCAGTCAGTCCACTTCAGA 59.036 52.381 0.00 0.00 0.00 3.27
285 294 2.093500 CGTGATCATTGACTTCTCCCCA 60.093 50.000 0.00 0.00 0.00 4.96
373 399 4.654262 ACAGTGGGTGTATACTAATCAGGG 59.346 45.833 4.17 0.00 37.75 4.45
410 436 3.647590 ACCAAGGAAGGTCAAATGCAATT 59.352 39.130 0.00 0.00 37.28 2.32
431 457 9.677567 TGTTAGATGATTTTGCTGACTTTTAAC 57.322 29.630 0.00 0.00 0.00 2.01
456 482 5.751509 CACATCATGCATTTTACCTCCATTG 59.248 40.000 0.00 0.00 0.00 2.82
511 538 9.482627 CATGACCTAGGTTTAGATTTACATCTC 57.517 37.037 17.53 0.00 40.53 2.75
512 539 9.213777 TCATGACCTAGGTTTAGATTTACATCT 57.786 33.333 17.53 0.00 42.83 2.90
513 540 9.482627 CTCATGACCTAGGTTTAGATTTACATC 57.517 37.037 17.53 0.00 0.00 3.06
514 541 7.934120 GCTCATGACCTAGGTTTAGATTTACAT 59.066 37.037 17.53 8.45 0.00 2.29
515 542 7.125811 AGCTCATGACCTAGGTTTAGATTTACA 59.874 37.037 17.53 6.23 0.00 2.41
516 543 7.501844 AGCTCATGACCTAGGTTTAGATTTAC 58.498 38.462 17.53 0.00 0.00 2.01
517 544 7.676683 AGCTCATGACCTAGGTTTAGATTTA 57.323 36.000 17.53 0.00 0.00 1.40
518 545 6.567602 AGCTCATGACCTAGGTTTAGATTT 57.432 37.500 17.53 3.04 0.00 2.17
522 549 4.878397 CCAAAGCTCATGACCTAGGTTTAG 59.122 45.833 17.53 11.95 40.43 1.85
523 550 4.288626 ACCAAAGCTCATGACCTAGGTTTA 59.711 41.667 17.53 9.13 40.43 2.01
524 551 3.074538 ACCAAAGCTCATGACCTAGGTTT 59.925 43.478 17.53 3.99 42.46 3.27
525 552 2.644798 ACCAAAGCTCATGACCTAGGTT 59.355 45.455 17.53 0.00 35.05 3.50
526 553 2.269940 ACCAAAGCTCATGACCTAGGT 58.730 47.619 16.26 16.26 0.00 3.08
527 554 3.356529 AACCAAAGCTCATGACCTAGG 57.643 47.619 7.41 7.41 0.00 3.02
528 555 3.441572 CCAAACCAAAGCTCATGACCTAG 59.558 47.826 0.00 0.00 0.00 3.02
529 556 3.420893 CCAAACCAAAGCTCATGACCTA 58.579 45.455 0.00 0.00 0.00 3.08
530 557 2.242043 CCAAACCAAAGCTCATGACCT 58.758 47.619 0.00 0.00 0.00 3.85
531 558 1.273327 CCCAAACCAAAGCTCATGACC 59.727 52.381 0.00 0.00 0.00 4.02
532 559 1.963515 ACCCAAACCAAAGCTCATGAC 59.036 47.619 0.00 0.00 0.00 3.06
533 560 2.380064 ACCCAAACCAAAGCTCATGA 57.620 45.000 0.00 0.00 0.00 3.07
534 561 3.157087 ACTACCCAAACCAAAGCTCATG 58.843 45.455 0.00 0.00 0.00 3.07
535 562 3.525800 ACTACCCAAACCAAAGCTCAT 57.474 42.857 0.00 0.00 0.00 2.90
538 565 9.536510 TTTATAATTACTACCCAAACCAAAGCT 57.463 29.630 0.00 0.00 0.00 3.74
1458 1883 2.202623 CCGCAGTAGTCGAGGCAC 60.203 66.667 0.00 0.00 0.00 5.01
1874 2302 1.475034 GGCGCTTCTTGGTGGATATCA 60.475 52.381 7.64 0.00 0.00 2.15
2130 2558 1.428219 CTTGATGAGCAAGCAGCCG 59.572 57.895 0.00 0.00 46.67 5.52
2154 2582 1.128136 CTCTGCAAGCAAGACATCACG 59.872 52.381 0.00 0.00 0.00 4.35
2436 2867 1.631072 CTCGTAAATCGTGCTGGCG 59.369 57.895 0.00 0.00 40.80 5.69
2617 3048 3.347216 TCTTTGCATTCTTCCTACCAGC 58.653 45.455 0.00 0.00 0.00 4.85
2706 3137 2.887568 GACCTCACAGCCGCATCG 60.888 66.667 0.00 0.00 0.00 3.84
2730 3161 3.369261 CCTTCACATGCTCTAGCTCTTGT 60.369 47.826 3.26 2.29 42.66 3.16
2901 3332 1.596954 CCAAAAACAGACGCCGAACTG 60.597 52.381 12.47 12.47 39.65 3.16
2985 3416 2.746362 CCTTCTGATGGCACTGTCTTTC 59.254 50.000 0.00 0.00 0.00 2.62
3009 3440 0.244178 GACGGAACTCACCCTCTGTC 59.756 60.000 0.00 0.00 39.95 3.51
3213 3644 3.006644 AGTCGCTGTATGCATCATCATCT 59.993 43.478 0.19 0.00 43.06 2.90
3214 3645 3.324117 AGTCGCTGTATGCATCATCATC 58.676 45.455 0.19 0.00 43.06 2.92
3215 3646 3.397849 AGTCGCTGTATGCATCATCAT 57.602 42.857 0.19 0.00 43.06 2.45
3543 3974 1.852067 AACCGACGCCAACATTGAGC 61.852 55.000 0.00 0.00 0.00 4.26
3979 4411 6.321435 GGGATACAAAAGCTATAGGCAAAGTT 59.679 38.462 1.04 0.00 40.97 2.66
4012 4447 1.396653 CATTCATGCCAAGGGGAGAC 58.603 55.000 0.00 0.00 35.59 3.36
4013 4448 0.259647 CCATTCATGCCAAGGGGAGA 59.740 55.000 0.00 0.00 35.59 3.71
4214 4653 5.755813 CAAGAATCATACATACAGGCAAGC 58.244 41.667 0.00 0.00 0.00 4.01
4288 4729 8.023128 TCAAGTTTGACAAAGAGAACTGAAAAG 58.977 33.333 0.00 0.00 33.02 2.27
4350 4791 4.281688 AGAATCATTGACCAACAAACCAGG 59.718 41.667 0.00 0.00 42.03 4.45
4370 4811 1.872237 GCCGCGGCAGTAATATCAGAA 60.872 52.381 43.55 0.00 41.49 3.02
4411 4911 1.732809 CACTTGCACAGCTCAGATGAG 59.267 52.381 0.00 5.45 44.75 2.90
4419 4920 0.692476 TGGATACCACTTGCACAGCT 59.308 50.000 0.00 0.00 0.00 4.24
4423 4924 1.339055 TGCTCTGGATACCACTTGCAC 60.339 52.381 0.00 0.00 0.00 4.57
4508 5012 1.202582 AGGCTTAGTGCGAGTACACAG 59.797 52.381 0.00 0.00 43.23 3.66
4517 5021 0.029567 CTACTCGGAGGCTTAGTGCG 59.970 60.000 10.23 0.00 44.05 5.34
4595 5099 1.200716 GCAACAGAGCATTAGCAAGCA 59.799 47.619 0.00 0.00 45.49 3.91
4636 5140 3.699067 CACCACAACAGAAAAGAAGCAG 58.301 45.455 0.00 0.00 0.00 4.24
4693 5197 2.032620 AGACCATAACCTACCAGCTCG 58.967 52.381 0.00 0.00 0.00 5.03
4707 5217 0.039527 GCCGAAACGCAAAAGACCAT 60.040 50.000 0.00 0.00 0.00 3.55
4711 5221 2.634777 CCGCCGAAACGCAAAAGA 59.365 55.556 0.00 0.00 0.00 2.52
4720 5230 2.047655 ATTCAGACGCCGCCGAAA 60.048 55.556 0.00 0.00 38.29 3.46
4723 5233 3.257561 CTCATTCAGACGCCGCCG 61.258 66.667 0.00 0.00 41.14 6.46
4743 5253 4.417426 ACAAGCAACAGTACTTACCACT 57.583 40.909 0.00 0.00 0.00 4.00
4744 5254 4.261031 CCAACAAGCAACAGTACTTACCAC 60.261 45.833 0.00 0.00 0.00 4.16
4788 5306 3.937706 ACACATATCTGCTGCTTCAGAAC 59.062 43.478 11.43 0.00 45.17 3.01
4791 5309 4.056740 CCTACACATATCTGCTGCTTCAG 58.943 47.826 0.00 0.21 35.46 3.02
4793 5311 4.054671 GTCCTACACATATCTGCTGCTTC 58.945 47.826 0.00 0.00 0.00 3.86


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

AutoCloner maintained by Alex Coulton.