Multiple sequence alignment - TraesCS5B01G313800

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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 TraesCS5B01G313800 chr5B 100.000 3408 0 0 1 3408 496270000 496266593 0.000000e+00 6294.0
1 TraesCS5B01G313800 chr5D 91.077 3306 175 52 1 3240 412314549 412311298 0.000000e+00 4361.0
2 TraesCS5B01G313800 chr5D 90.857 175 9 5 3234 3407 412311222 412311054 9.510000e-56 228.0
3 TraesCS5B01G313800 chr5A 92.417 1543 76 19 657 2176 524054105 524052581 0.000000e+00 2163.0
4 TraesCS5B01G313800 chr5A 91.289 574 45 4 2178 2746 524052484 524051911 0.000000e+00 778.0
5 TraesCS5B01G313800 chr5A 84.547 563 50 22 1 544 524054709 524054165 1.080000e-144 523.0
6 TraesCS5B01G313800 chr5A 86.441 118 11 2 3294 3407 524051292 524051176 1.280000e-24 124.0
7 TraesCS5B01G313800 chr5A 98.361 61 0 1 3180 3240 19818229 19818288 4.650000e-19 106.0
8 TraesCS5B01G313800 chr5A 98.361 61 0 1 3180 3240 667828827 667828768 4.650000e-19 106.0
9 TraesCS5B01G313800 chr5A 91.429 70 5 1 2774 2843 381757769 381757701 1.010000e-15 95.3
10 TraesCS5B01G313800 chr5A 88.732 71 5 3 2774 2842 547647467 547647536 2.180000e-12 84.2
11 TraesCS5B01G313800 chr7A 78.558 1553 222 59 718 2230 2696109 2694628 0.000000e+00 920.0
12 TraesCS5B01G313800 chr7A 83.784 222 32 4 2281 2502 2694544 2694327 1.240000e-49 207.0
13 TraesCS5B01G313800 chr7A 96.721 61 1 1 3180 3240 4909923 4909982 2.160000e-17 100.0
14 TraesCS5B01G313800 chr7A 87.838 74 6 2 2766 2839 98789298 98789228 2.180000e-12 84.2
15 TraesCS5B01G313800 chr2A 98.305 59 0 1 3182 3240 444299137 444299194 6.020000e-18 102.0
16 TraesCS5B01G313800 chr7D 96.721 61 1 1 3180 3240 307191093 307191152 2.160000e-17 100.0
17 TraesCS5B01G313800 chr4D 96.721 61 1 1 3180 3240 123499115 123499174 2.160000e-17 100.0
18 TraesCS5B01G313800 chr4D 91.045 67 6 0 2775 2841 282196924 282196990 1.300000e-14 91.6
19 TraesCS5B01G313800 chr4A 96.721 61 1 1 3180 3240 67506789 67506730 2.160000e-17 100.0
20 TraesCS5B01G313800 chr1A 96.721 61 1 1 3180 3240 115917948 115918007 2.160000e-17 100.0
21 TraesCS5B01G313800 chr7B 90.141 71 4 3 2771 2840 296330823 296330891 4.680000e-14 89.8
22 TraesCS5B01G313800 chr7B 89.706 68 6 1 2774 2841 165708226 165708292 6.060000e-13 86.1
23 TraesCS5B01G313800 chr2D 89.706 68 6 1 2774 2840 13474495 13474562 6.060000e-13 86.1
24 TraesCS5B01G313800 chr1D 87.179 78 4 5 2775 2846 257365374 257365451 2.180000e-12 84.2


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 TraesCS5B01G313800 chr5B 496266593 496270000 3407 True 6294.0 6294 100.0000 1 3408 1 chr5B.!!$R1 3407
1 TraesCS5B01G313800 chr5D 412311054 412314549 3495 True 2294.5 4361 90.9670 1 3407 2 chr5D.!!$R1 3406
2 TraesCS5B01G313800 chr5A 524051176 524054709 3533 True 897.0 2163 88.6735 1 3407 4 chr5A.!!$R3 3406
3 TraesCS5B01G313800 chr7A 2694327 2696109 1782 True 563.5 920 81.1710 718 2502 2 chr7A.!!$R2 1784

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
427 451 0.249120 TCTTGATCCGTGGCAATCGT 59.751 50.0 0.0 0.0 0.0 3.73 F
508 537 0.336392 AGATTCTGCCCCTTTTCCCC 59.664 55.0 0.0 0.0 0.0 4.81 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1459 1566 0.323302 TTCTGTCGCCACCTGCATAA 59.677 50.000 0.0 0.0 41.33 1.90 R
2460 2707 2.284190 GCTGTAGGAGACCAAGATTGC 58.716 52.381 0.0 0.0 0.00 3.56 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
70 72 2.360483 TGAAAAGATTGCGTTGCCAAGA 59.640 40.909 0.00 0.00 0.00 3.02
243 250 2.244651 CGCCCGTAGCACAATAGCC 61.245 63.158 0.00 0.00 44.04 3.93
281 288 3.327404 GGGACAGGGAAGGCGGAA 61.327 66.667 0.00 0.00 0.00 4.30
344 351 1.273327 TCTGTTCTTGCGCTCATCTCA 59.727 47.619 9.73 0.22 0.00 3.27
346 353 1.273327 TGTTCTTGCGCTCATCTCAGA 59.727 47.619 9.73 0.00 0.00 3.27
347 354 1.925847 GTTCTTGCGCTCATCTCAGAG 59.074 52.381 9.73 0.00 38.68 3.35
349 356 1.152989 CTTGCGCTCATCTCAGAGGC 61.153 60.000 9.73 0.00 36.15 4.70
350 357 2.657944 GCGCTCATCTCAGAGGCG 60.658 66.667 12.85 12.85 37.83 5.52
379 387 2.404215 CAAGGTACGCATATTCCTCGG 58.596 52.381 0.00 0.00 0.00 4.63
382 390 1.665161 GGTACGCATATTCCTCGGTCG 60.665 57.143 0.00 0.00 0.00 4.79
407 429 3.157087 AGAATCGCTGGGTGAATTTTGT 58.843 40.909 0.00 0.00 0.00 2.83
418 442 4.022329 GGGTGAATTTTGTTCTTGATCCGT 60.022 41.667 0.00 0.00 0.00 4.69
427 451 0.249120 TCTTGATCCGTGGCAATCGT 59.751 50.000 0.00 0.00 0.00 3.73
428 454 0.374758 CTTGATCCGTGGCAATCGTG 59.625 55.000 0.00 0.00 0.00 4.35
434 460 1.354337 CCGTGGCAATCGTGTCTCTG 61.354 60.000 0.00 0.00 0.00 3.35
438 464 0.741221 GGCAATCGTGTCTCTGTCCC 60.741 60.000 0.00 0.00 0.00 4.46
447 473 0.533032 GTCTCTGTCCCTCCCTTTCG 59.467 60.000 0.00 0.00 0.00 3.46
448 474 1.219393 CTCTGTCCCTCCCTTTCGC 59.781 63.158 0.00 0.00 0.00 4.70
489 515 5.419155 CAGAAGATTGCCCGGATATACTCTA 59.581 44.000 0.73 0.00 0.00 2.43
490 516 5.654650 AGAAGATTGCCCGGATATACTCTAG 59.345 44.000 0.73 0.00 0.00 2.43
491 517 5.194473 AGATTGCCCGGATATACTCTAGA 57.806 43.478 0.73 0.00 0.00 2.43
492 518 5.772004 AGATTGCCCGGATATACTCTAGAT 58.228 41.667 0.73 0.00 0.00 1.98
494 520 5.916661 TTGCCCGGATATACTCTAGATTC 57.083 43.478 0.73 0.00 0.00 2.52
495 521 5.194473 TGCCCGGATATACTCTAGATTCT 57.806 43.478 0.73 0.00 0.00 2.40
496 522 4.950475 TGCCCGGATATACTCTAGATTCTG 59.050 45.833 0.73 0.00 0.00 3.02
497 523 4.202070 GCCCGGATATACTCTAGATTCTGC 60.202 50.000 0.73 0.00 0.00 4.26
508 537 0.336392 AGATTCTGCCCCTTTTCCCC 59.664 55.000 0.00 0.00 0.00 4.81
529 558 1.503818 TTTGTTCTTGGAGCGGCGTC 61.504 55.000 9.37 4.77 0.00 5.19
546 575 3.181486 GGCGTCTCTAACATGTCATCAGA 60.181 47.826 0.00 0.00 0.00 3.27
553 582 8.143193 GTCTCTAACATGTCATCAGATCAGAAT 58.857 37.037 0.00 0.00 0.00 2.40
570 599 5.305585 TCAGAATTGAGCCGGGAAATATAC 58.694 41.667 2.18 0.00 0.00 1.47
572 601 5.180117 CAGAATTGAGCCGGGAAATATACTG 59.820 44.000 2.18 2.57 0.00 2.74
574 603 3.469008 TGAGCCGGGAAATATACTGTG 57.531 47.619 2.18 0.00 0.00 3.66
582 611 4.127171 GGGAAATATACTGTGTGCGATGT 58.873 43.478 0.00 0.00 0.00 3.06
619 648 9.535270 GAGATTGATAAAATAGTGCTTATTCGC 57.465 33.333 0.00 0.00 30.65 4.70
624 653 7.815549 TGATAAAATAGTGCTTATTCGCCGATA 59.184 33.333 0.00 0.00 30.65 2.92
702 743 9.384764 CTCTTTTAGGTATTAGAAAAGTCCTGG 57.615 37.037 6.31 0.00 39.87 4.45
728 772 8.932791 GCTGCTATGTTTAAGAGTACAACTTAA 58.067 33.333 16.03 16.03 37.83 1.85
798 860 5.639082 CCAGTAATTGCTGAAATTTGGTTCC 59.361 40.000 23.34 0.00 39.29 3.62
804 866 3.751175 TGCTGAAATTTGGTTCCTAGTCG 59.249 43.478 0.00 0.00 0.00 4.18
1081 1161 2.655685 GCGAATCGGACGAGGCTC 60.656 66.667 3.87 3.87 0.00 4.70
1204 1300 4.574674 TGAGGTGGATTCATTAGCTGTT 57.425 40.909 0.00 0.00 0.00 3.16
1239 1342 0.587242 CGCGTGCTACATGTTGATGC 60.587 55.000 11.66 11.33 32.14 3.91
1251 1354 4.449743 ACATGTTGATGCTGCATTGTTTTC 59.550 37.500 17.36 4.09 32.14 2.29
1415 1521 5.981088 TTCCAAATGTGTGCACTGAATAT 57.019 34.783 19.41 0.00 0.00 1.28
1416 1522 5.981088 TCCAAATGTGTGCACTGAATATT 57.019 34.783 19.41 5.13 0.00 1.28
1417 1523 6.343716 TCCAAATGTGTGCACTGAATATTT 57.656 33.333 19.41 10.98 0.00 1.40
1418 1524 6.757237 TCCAAATGTGTGCACTGAATATTTT 58.243 32.000 19.41 5.67 0.00 1.82
1459 1566 7.610692 AGAATGATGAGTTGATGACAATCTGTT 59.389 33.333 0.00 0.00 38.32 3.16
1654 1762 9.411189 ACAAAAGGTTTAAGGTTGTGTTATAGA 57.589 29.630 0.00 0.00 31.45 1.98
1655 1763 9.893305 CAAAAGGTTTAAGGTTGTGTTATAGAG 57.107 33.333 0.00 0.00 0.00 2.43
1656 1764 9.636789 AAAAGGTTTAAGGTTGTGTTATAGAGT 57.363 29.630 0.00 0.00 0.00 3.24
1724 1835 8.092521 ACATAAAGAGACACACTTTGATTGAG 57.907 34.615 0.00 0.00 37.96 3.02
1750 1862 7.312657 TCTTGTAGCACATGAAAATCTCATC 57.687 36.000 0.00 0.00 43.28 2.92
1778 1890 7.319646 TGAGCAACTTTTCACTATTGTTTTGT 58.680 30.769 0.00 0.00 0.00 2.83
1881 1993 3.258123 TGGAGCCTTTTAGGAACAAATGC 59.742 43.478 0.00 0.00 37.67 3.56
2249 2494 1.071605 GTCGCTCGACAAAAGCAGAT 58.928 50.000 16.47 0.00 44.02 2.90
2460 2707 0.448990 CGCCGCATCATGATAATGGG 59.551 55.000 8.15 6.38 36.96 4.00
2469 2716 5.720202 CATCATGATAATGGGCAATCTTGG 58.280 41.667 8.15 0.00 31.54 3.61
2477 2724 1.559682 TGGGCAATCTTGGTCTCCTAC 59.440 52.381 0.00 0.00 0.00 3.18
2527 2775 4.212636 TGGTCTAGCGTGCTTTAAGAAAAC 59.787 41.667 0.00 0.00 0.00 2.43
2556 2804 3.633418 TGGATCATGGCATGTTTGATGA 58.367 40.909 25.62 7.27 30.48 2.92
2557 2805 3.634910 TGGATCATGGCATGTTTGATGAG 59.365 43.478 25.62 0.00 30.48 2.90
2581 2829 6.325286 AGCCCCAACTTAGTTTTGTCATTAAA 59.675 34.615 0.00 0.00 0.00 1.52
2582 2830 6.987404 GCCCCAACTTAGTTTTGTCATTAAAA 59.013 34.615 0.00 0.00 0.00 1.52
2584 2832 8.987890 CCCCAACTTAGTTTTGTCATTAAAATG 58.012 33.333 0.00 0.00 37.75 2.32
2620 2868 3.945285 GTGGACAGTGGGTTATATGGTTG 59.055 47.826 0.00 0.00 0.00 3.77
2621 2869 2.949644 GGACAGTGGGTTATATGGTTGC 59.050 50.000 0.00 0.00 0.00 4.17
2642 2890 3.614870 GCCAATTTTCCGAGAATGCAACT 60.615 43.478 0.00 0.00 0.00 3.16
2677 2925 5.648092 AGTTAAGTAGATGATGTGGTTTGCC 59.352 40.000 0.00 0.00 0.00 4.52
2726 2974 4.067896 CCACTGTGTAAAGTCTGAAGCAT 58.932 43.478 7.08 0.00 0.00 3.79
2773 3036 9.031537 TGTGTCTCTCTTATATACTTTGGAACA 57.968 33.333 0.00 0.00 0.00 3.18
2799 3062 7.668525 ACTCCCTTCGTAAAGAAATAAAGTG 57.331 36.000 0.00 0.00 38.57 3.16
2806 3069 8.610248 TTCGTAAAGAAATAAAGTGGTGATCA 57.390 30.769 0.00 0.00 35.61 2.92
2976 3242 7.330454 GTCTATGATACAATGACGAGCATGAAT 59.670 37.037 0.00 0.00 37.28 2.57
3036 3310 6.092533 GGCCACAAAATTCTAACCATTTCATG 59.907 38.462 0.00 0.00 0.00 3.07
3073 3347 7.175104 ACTTGACATAATACCTCACAACCATT 58.825 34.615 0.00 0.00 0.00 3.16
3088 3362 6.036953 TCACAACCATTTCAATGCTTGTTTTC 59.963 34.615 9.55 0.00 40.46 2.29
3091 3365 7.768120 ACAACCATTTCAATGCTTGTTTTCTAA 59.232 29.630 7.21 0.00 40.46 2.10
3092 3366 8.610896 CAACCATTTCAATGCTTGTTTTCTAAA 58.389 29.630 0.00 0.00 35.08 1.85
3123 3405 5.712152 TGAATTTCTGGAGGAAGAAAAGC 57.288 39.130 3.70 0.85 46.37 3.51
3171 3453 6.073276 CCAAAATCGCCAACAATCTATCGATA 60.073 38.462 4.78 4.78 35.90 2.92
3177 3459 5.163953 CGCCAACAATCTATCGATATTCACC 60.164 44.000 5.40 0.00 0.00 4.02
3240 3604 0.326264 ACTGCGCCAGGAAGAGAAAT 59.674 50.000 4.18 0.00 35.51 2.17
3241 3605 0.731417 CTGCGCCAGGAAGAGAAATG 59.269 55.000 4.18 0.00 0.00 2.32
3324 3781 6.547510 AGTTCTTTTGTCCAAGCAAGATAAGT 59.452 34.615 0.00 0.00 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 16 2.629137 TCAATCAAACTGCAGTTGCCAT 59.371 40.909 31.73 19.93 41.18 4.40
70 72 2.301346 CTTTGTGTCCCTTGCTCTTGT 58.699 47.619 0.00 0.00 0.00 3.16
126 128 4.740205 TGTATGCGCTTTCTATTCTCTTCG 59.260 41.667 9.73 0.00 0.00 3.79
140 142 1.000955 GGCTACTGGTATGTATGCGCT 59.999 52.381 9.73 0.00 0.00 5.92
142 144 2.035961 ACTGGCTACTGGTATGTATGCG 59.964 50.000 0.00 0.00 0.00 4.73
367 375 3.952811 GGCGACCGAGGAATATGC 58.047 61.111 0.00 0.00 0.00 3.14
379 387 2.956964 CCAGCGATTCTCGGCGAC 60.957 66.667 4.99 0.00 40.84 5.19
382 390 2.852495 TTCACCCAGCGATTCTCGGC 62.852 60.000 0.00 0.00 40.84 5.54
393 415 5.473039 GGATCAAGAACAAAATTCACCCAG 58.527 41.667 0.00 0.00 0.00 4.45
405 427 2.083774 GATTGCCACGGATCAAGAACA 58.916 47.619 0.00 0.00 0.00 3.18
407 429 1.338674 ACGATTGCCACGGATCAAGAA 60.339 47.619 0.00 0.00 34.93 2.52
418 442 0.037326 GGACAGAGACACGATTGCCA 60.037 55.000 0.00 0.00 0.00 4.92
427 451 1.645710 GAAAGGGAGGGACAGAGACA 58.354 55.000 0.00 0.00 0.00 3.41
428 454 0.533032 CGAAAGGGAGGGACAGAGAC 59.467 60.000 0.00 0.00 0.00 3.36
434 460 4.111053 GGGGCGAAAGGGAGGGAC 62.111 72.222 0.00 0.00 0.00 4.46
438 464 2.258748 GAGAAGGGGGCGAAAGGGAG 62.259 65.000 0.00 0.00 0.00 4.30
466 492 4.421131 AGAGTATATCCGGGCAATCTTCT 58.579 43.478 0.00 0.00 0.00 2.85
489 515 0.336392 GGGGAAAAGGGGCAGAATCT 59.664 55.000 0.00 0.00 0.00 2.40
490 516 0.336392 AGGGGAAAAGGGGCAGAATC 59.664 55.000 0.00 0.00 0.00 2.52
491 517 0.792960 AAGGGGAAAAGGGGCAGAAT 59.207 50.000 0.00 0.00 0.00 2.40
492 518 0.565674 AAAGGGGAAAAGGGGCAGAA 59.434 50.000 0.00 0.00 0.00 3.02
494 520 0.686789 CAAAAGGGGAAAAGGGGCAG 59.313 55.000 0.00 0.00 0.00 4.85
495 521 0.030603 ACAAAAGGGGAAAAGGGGCA 60.031 50.000 0.00 0.00 0.00 5.36
496 522 1.071699 GAACAAAAGGGGAAAAGGGGC 59.928 52.381 0.00 0.00 0.00 5.80
497 523 2.689658 AGAACAAAAGGGGAAAAGGGG 58.310 47.619 0.00 0.00 0.00 4.79
508 537 0.385974 CGCCGCTCCAAGAACAAAAG 60.386 55.000 0.00 0.00 0.00 2.27
529 558 8.766151 CAATTCTGATCTGATGACATGTTAGAG 58.234 37.037 0.00 0.00 0.00 2.43
546 575 2.806945 TTTCCCGGCTCAATTCTGAT 57.193 45.000 0.00 0.00 0.00 2.90
553 582 3.199071 ACACAGTATATTTCCCGGCTCAA 59.801 43.478 0.00 0.00 0.00 3.02
570 599 1.468520 CCCCTTTAACATCGCACACAG 59.531 52.381 0.00 0.00 0.00 3.66
572 601 1.467342 GACCCCTTTAACATCGCACAC 59.533 52.381 0.00 0.00 0.00 3.82
574 603 0.725117 CGACCCCTTTAACATCGCAC 59.275 55.000 0.00 0.00 0.00 5.34
582 611 9.555727 CTATTTTATCAATCTCGACCCCTTTAA 57.444 33.333 0.00 0.00 0.00 1.52
655 684 5.180304 AGAGCTCGAATTTCCAAAGAAGAAC 59.820 40.000 8.37 0.00 32.35 3.01
702 743 6.969828 AGTTGTACTCTTAAACATAGCAGC 57.030 37.500 0.00 0.00 0.00 5.25
728 772 6.711277 TCACACTCTCCAAATAAATACAGCT 58.289 36.000 0.00 0.00 0.00 4.24
1081 1161 1.467734 CTCTTGCAGTTGCTTAGCCAG 59.532 52.381 0.29 0.00 42.66 4.85
1251 1354 3.052082 CCAAGGACACGCTGCCTG 61.052 66.667 0.00 0.00 34.00 4.85
1459 1566 0.323302 TTCTGTCGCCACCTGCATAA 59.677 50.000 0.00 0.00 41.33 1.90
1624 1732 7.648039 ACACAACCTTAAACCTTTTGTATGA 57.352 32.000 0.00 0.00 0.00 2.15
1724 1835 7.312657 TGAGATTTTCATGTGCTACAAGATC 57.687 36.000 0.00 0.00 0.00 2.75
1750 1862 6.551385 ACAATAGTGAAAAGTTGCTCAGAG 57.449 37.500 0.00 0.00 0.00 3.35
1803 1915 5.280011 GGATTGAGTTCCTACTTCTTCACCA 60.280 44.000 0.00 0.00 33.84 4.17
1881 1993 5.505173 TCTTTTTGCAGGAGAAGAAGTTG 57.495 39.130 0.00 0.00 0.00 3.16
2380 2627 3.430790 CGAATACCTCCTCATTGCAGACA 60.431 47.826 0.00 0.00 0.00 3.41
2460 2707 2.284190 GCTGTAGGAGACCAAGATTGC 58.716 52.381 0.00 0.00 0.00 3.56
2469 2716 6.783708 ATAGCATAATAGGCTGTAGGAGAC 57.216 41.667 9.90 0.00 42.62 3.36
2477 2724 9.803315 TCGAGTATTTTATAGCATAATAGGCTG 57.197 33.333 9.90 0.00 42.62 4.85
2511 2758 6.986424 AAATACAGTTTTCTTAAAGCACGC 57.014 33.333 0.00 0.00 0.00 5.34
2527 2775 5.524971 ACATGCCATGATCCAAAATACAG 57.475 39.130 12.53 0.00 0.00 2.74
2544 2792 0.896923 TTGGGGCTCATCAAACATGC 59.103 50.000 0.00 0.00 0.00 4.06
2556 2804 3.306472 TGACAAAACTAAGTTGGGGCT 57.694 42.857 0.00 0.00 0.00 5.19
2557 2805 4.600692 AATGACAAAACTAAGTTGGGGC 57.399 40.909 0.00 0.00 0.00 5.80
2581 2829 8.843262 CACTGTCCACACATATTTATCATCATT 58.157 33.333 0.00 0.00 0.00 2.57
2582 2830 7.446319 CCACTGTCCACACATATTTATCATCAT 59.554 37.037 0.00 0.00 0.00 2.45
2584 2832 6.205464 CCCACTGTCCACACATATTTATCATC 59.795 42.308 0.00 0.00 0.00 2.92
2599 2847 3.623703 GCAACCATATAACCCACTGTCCA 60.624 47.826 0.00 0.00 0.00 4.02
2602 2850 2.310349 TGGCAACCATATAACCCACTGT 59.690 45.455 0.00 0.00 0.00 3.55
2620 2868 2.652941 TGCATTCTCGGAAAATTGGC 57.347 45.000 0.00 0.00 0.00 4.52
2621 2869 3.922240 CAGTTGCATTCTCGGAAAATTGG 59.078 43.478 0.00 0.00 0.00 3.16
2642 2890 3.431415 TCTACTTAACTGCTCCTGCTCA 58.569 45.455 0.00 0.00 40.48 4.26
2677 2925 4.096382 GGTGTAAAGAGGGTGCAATACATG 59.904 45.833 0.00 0.00 0.00 3.21
2771 3034 9.379791 CTTTATTTCTTTACGAAGGGAGTATGT 57.620 33.333 0.00 0.00 33.56 2.29
2773 3036 9.379791 CACTTTATTTCTTTACGAAGGGAGTAT 57.620 33.333 0.00 0.00 33.56 2.12
2782 3045 8.610248 TTGATCACCACTTTATTTCTTTACGA 57.390 30.769 0.00 0.00 0.00 3.43
2799 3062 7.920738 AGAAATATAAGAGCGTTTTGATCACC 58.079 34.615 0.00 0.00 34.70 4.02
2806 3069 8.483307 TCCGTAAAGAAATATAAGAGCGTTTT 57.517 30.769 0.00 0.00 0.00 2.43
2921 3184 9.279904 CAAACAAAGTCGTATTCACAAAACTTA 57.720 29.630 0.00 0.00 0.00 2.24
2942 3208 6.312672 CGTCATTGTATCATAGACCACAAACA 59.687 38.462 0.00 0.00 34.79 2.83
3008 3282 1.403647 GGTTAGAATTTTGTGGCCCGC 60.404 52.381 0.00 0.00 0.00 6.13
3036 3310 8.276325 GGTATTATGTCAAGTCGTCATGATTTC 58.724 37.037 0.00 0.00 0.00 2.17
3049 3323 7.630242 AATGGTTGTGAGGTATTATGTCAAG 57.370 36.000 0.00 0.00 0.00 3.02
3052 3326 7.624360 TGAAATGGTTGTGAGGTATTATGTC 57.376 36.000 0.00 0.00 0.00 3.06
3096 3370 9.551734 CTTTTCTTCCTCCAGAAATTCATTTTT 57.448 29.630 0.00 0.00 41.42 1.94
3097 3371 7.658982 GCTTTTCTTCCTCCAGAAATTCATTTT 59.341 33.333 0.00 0.00 41.42 1.82
3099 3373 6.268387 TGCTTTTCTTCCTCCAGAAATTCATT 59.732 34.615 0.00 0.00 41.42 2.57
3101 3375 5.139727 TGCTTTTCTTCCTCCAGAAATTCA 58.860 37.500 0.00 0.00 41.42 2.57
3102 3376 5.712152 TGCTTTTCTTCCTCCAGAAATTC 57.288 39.130 0.00 0.00 41.42 2.17
3104 3386 5.143369 AGTTGCTTTTCTTCCTCCAGAAAT 58.857 37.500 0.00 0.00 41.42 2.17
3113 3395 5.188327 ACTTGCTAAGTTGCTTTTCTTCC 57.812 39.130 0.00 0.00 39.04 3.46
3192 3474 1.067821 GTCCATTGGGCGTAGAGAGAG 59.932 57.143 2.09 0.00 0.00 3.20
3240 3604 8.141298 TCTAGATTGGTATAAGTGTGTTTCCA 57.859 34.615 0.00 0.00 0.00 3.53
3241 3605 9.614792 ATTCTAGATTGGTATAAGTGTGTTTCC 57.385 33.333 0.00 0.00 0.00 3.13
3314 3771 6.749118 CCAGATTGCACTAAAACTTATCTTGC 59.251 38.462 0.00 0.00 0.00 4.01
3324 3781 4.637534 GCAGAGATCCAGATTGCACTAAAA 59.362 41.667 0.00 0.00 34.99 1.52
3364 3825 5.971763 TCAGAGAAGAGAAGGATAGCAAAC 58.028 41.667 0.00 0.00 0.00 2.93
3370 3831 6.430864 ACATCACTCAGAGAAGAGAAGGATA 58.569 40.000 3.79 0.00 38.98 2.59


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

AutoCloner maintained by Alex Coulton.