Multiple sequence alignment - TraesCS1D01G043600

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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 TraesCS1D01G043600 chr1D 100.000 2975 0 0 1 2975 22862354 22865328 0.000000e+00 5494.0
1 TraesCS1D01G043600 chr1D 98.774 571 7 0 4 574 337592770 337592200 0.000000e+00 1016.0
2 TraesCS1D01G043600 chr1D 98.438 576 9 0 4 579 317699381 317698806 0.000000e+00 1014.0
3 TraesCS1D01G043600 chr1D 97.152 597 15 2 4 599 148283944 148283349 0.000000e+00 1007.0
4 TraesCS1D01G043600 chr1B 91.549 1846 68 32 576 2377 39070070 39068269 0.000000e+00 2464.0
5 TraesCS1D01G043600 chr1B 88.713 443 41 9 2538 2975 39068203 39067765 1.570000e-147 532.0
6 TraesCS1D01G043600 chr1A 90.720 1681 66 40 592 2210 23856315 23857967 0.000000e+00 2158.0
7 TraesCS1D01G043600 chr1A 93.556 419 23 4 2560 2975 23858257 23858674 3.260000e-174 621.0
8 TraesCS1D01G043600 chr7D 98.611 576 8 0 1 576 572916176 572916751 0.000000e+00 1020.0
9 TraesCS1D01G043600 chr4D 98.778 573 7 0 4 576 18025479 18024907 0.000000e+00 1020.0
10 TraesCS1D01G043600 chr4D 82.268 485 74 10 1252 1728 362131941 362131461 2.760000e-110 409.0
11 TraesCS1D01G043600 chr6D 98.606 574 8 0 1 574 289573134 289573707 0.000000e+00 1016.0
12 TraesCS1D01G043600 chr6D 98.438 576 9 0 1 576 414528989 414529564 0.000000e+00 1014.0
13 TraesCS1D01G043600 chr6D 98.435 575 9 0 4 578 170134562 170133988 0.000000e+00 1013.0
14 TraesCS1D01G043600 chr6D 75.594 463 97 13 1277 1728 364227237 364227694 6.460000e-52 215.0
15 TraesCS1D01G043600 chr6D 100.000 28 0 0 2460 2487 386179547 386179574 5.000000e-03 52.8
16 TraesCS1D01G043600 chr5D 98.438 576 9 0 1 576 412685545 412686120 0.000000e+00 1014.0
17 TraesCS1D01G043600 chr4A 83.093 485 70 10 1252 1728 103068712 103069192 5.890000e-117 431.0
18 TraesCS1D01G043600 chr7A 76.104 498 95 15 1252 1728 195218005 195217511 3.830000e-59 239.0
19 TraesCS1D01G043600 chr7B 76.180 445 81 20 1253 1677 333129494 333129933 8.350000e-51 211.0
20 TraesCS1D01G043600 chr6B 75.378 463 98 12 1277 1728 549193610 549194067 3.000000e-50 209.0
21 TraesCS1D01G043600 chr6A 75.615 447 89 17 1295 1728 505247424 505246985 1.400000e-48 204.0
22 TraesCS1D01G043600 chr3A 87.302 63 5 3 2322 2382 715583632 715583693 5.320000e-08 69.4


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 TraesCS1D01G043600 chr1D 22862354 22865328 2974 False 5494.0 5494 100.000 1 2975 1 chr1D.!!$F1 2974
1 TraesCS1D01G043600 chr1D 337592200 337592770 570 True 1016.0 1016 98.774 4 574 1 chr1D.!!$R3 570
2 TraesCS1D01G043600 chr1D 317698806 317699381 575 True 1014.0 1014 98.438 4 579 1 chr1D.!!$R2 575
3 TraesCS1D01G043600 chr1D 148283349 148283944 595 True 1007.0 1007 97.152 4 599 1 chr1D.!!$R1 595
4 TraesCS1D01G043600 chr1B 39067765 39070070 2305 True 1498.0 2464 90.131 576 2975 2 chr1B.!!$R1 2399
5 TraesCS1D01G043600 chr1A 23856315 23858674 2359 False 1389.5 2158 92.138 592 2975 2 chr1A.!!$F1 2383
6 TraesCS1D01G043600 chr7D 572916176 572916751 575 False 1020.0 1020 98.611 1 576 1 chr7D.!!$F1 575
7 TraesCS1D01G043600 chr4D 18024907 18025479 572 True 1020.0 1020 98.778 4 576 1 chr4D.!!$R1 572
8 TraesCS1D01G043600 chr6D 289573134 289573707 573 False 1016.0 1016 98.606 1 574 1 chr6D.!!$F1 573
9 TraesCS1D01G043600 chr6D 414528989 414529564 575 False 1014.0 1014 98.438 1 576 1 chr6D.!!$F4 575
10 TraesCS1D01G043600 chr6D 170133988 170134562 574 True 1013.0 1013 98.435 4 578 1 chr6D.!!$R1 574
11 TraesCS1D01G043600 chr5D 412685545 412686120 575 False 1014.0 1014 98.438 1 576 1 chr5D.!!$F1 575

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
722 725 0.393537 CTAACAGAAGGCCTGCCCTG 60.394 60.0 21.68 21.68 45.62 4.45 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2564 2689 0.108396 TAGTGGCAAGCTCAAGCACA 59.892 50.0 4.59 1.8 45.16 4.57 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
398 399 7.291416 TGTCTATGGCTAGGAAACATAACCATA 59.709 37.037 0.00 0.00 37.58 2.74
494 495 7.757526 TCATGTTTCCGGTTAATACAATTCTG 58.242 34.615 0.00 0.00 0.00 3.02
672 675 0.915364 AAATGGAGGAGAGGAGGCAC 59.085 55.000 0.00 0.00 0.00 5.01
674 677 0.690411 ATGGAGGAGAGGAGGCACTG 60.690 60.000 0.00 0.00 41.55 3.66
680 683 1.478916 GGAGAGGAGGCACTGAAGTAC 59.521 57.143 0.00 0.00 41.55 2.73
683 686 3.358118 AGAGGAGGCACTGAAGTACTAC 58.642 50.000 0.00 0.00 41.55 2.73
684 687 3.010808 AGAGGAGGCACTGAAGTACTACT 59.989 47.826 0.00 0.09 41.55 2.57
685 688 4.227754 AGAGGAGGCACTGAAGTACTACTA 59.772 45.833 0.00 0.00 41.55 1.82
686 689 4.528920 AGGAGGCACTGAAGTACTACTAG 58.471 47.826 0.00 0.00 41.55 2.57
688 691 5.191323 AGGAGGCACTGAAGTACTACTAGTA 59.809 44.000 1.89 1.89 41.55 1.82
689 692 5.296531 GGAGGCACTGAAGTACTACTAGTAC 59.703 48.000 15.94 15.94 45.54 2.73
718 721 0.548510 ATCCCTAACAGAAGGCCTGC 59.451 55.000 5.69 3.13 46.81 4.85
719 722 1.077429 CCCTAACAGAAGGCCTGCC 60.077 63.158 5.69 0.53 46.81 4.85
720 723 1.077429 CCTAACAGAAGGCCTGCCC 60.077 63.158 5.69 0.00 46.81 5.36
722 725 0.393537 CTAACAGAAGGCCTGCCCTG 60.394 60.000 21.68 21.68 45.62 4.45
723 726 1.852157 TAACAGAAGGCCTGCCCTGG 61.852 60.000 24.95 10.35 45.62 4.45
724 727 3.333219 CAGAAGGCCTGCCCTGGA 61.333 66.667 5.69 0.00 45.62 3.86
784 795 2.500098 CCAGCCAGCCAAAGTAGTACTA 59.500 50.000 2.50 0.00 0.00 1.82
785 796 3.430929 CCAGCCAGCCAAAGTAGTACTAG 60.431 52.174 1.87 0.00 0.00 2.57
786 797 3.195825 CAGCCAGCCAAAGTAGTACTAGT 59.804 47.826 1.87 3.18 0.00 2.57
787 798 4.401519 CAGCCAGCCAAAGTAGTACTAGTA 59.598 45.833 10.68 0.00 0.00 1.82
788 799 4.401837 AGCCAGCCAAAGTAGTACTAGTAC 59.598 45.833 23.03 23.03 36.35 2.73
845 856 2.035632 GTATAGTCAGGCTCAGGCAGT 58.964 52.381 0.00 0.00 40.87 4.40
989 1007 2.901042 CCCCCTCTAACGGTGAGC 59.099 66.667 0.00 0.00 0.00 4.26
2006 2045 1.376812 TAGCGAGCGAGGTGTCTCA 60.377 57.895 0.00 0.00 39.95 3.27
2096 2168 9.977762 GTTTTGTTTTAGGTGTTCCTATATACG 57.022 33.333 0.00 0.00 44.68 3.06
2097 2169 9.723601 TTTTGTTTTAGGTGTTCCTATATACGT 57.276 29.630 0.00 0.00 44.68 3.57
2183 2270 5.288543 AGAAACTGCAATTTGATCTCGTC 57.711 39.130 0.00 0.00 0.00 4.20
2186 2273 2.668457 ACTGCAATTTGATCTCGTCGTC 59.332 45.455 0.00 0.00 0.00 4.20
2190 2277 3.241804 GCAATTTGATCTCGTCGTCACTC 60.242 47.826 0.00 0.00 0.00 3.51
2205 2292 3.304726 CGTCACTCTTGAGTACAGCTTCA 60.305 47.826 2.72 0.00 30.10 3.02
2210 2297 5.121454 CACTCTTGAGTACAGCTTCATTTCC 59.879 44.000 2.72 0.00 0.00 3.13
2215 2302 5.240891 TGAGTACAGCTTCATTTCCTCAAG 58.759 41.667 0.00 0.00 0.00 3.02
2218 2305 4.630644 ACAGCTTCATTTCCTCAAGAGA 57.369 40.909 0.00 0.00 0.00 3.10
2224 2311 8.344098 CAGCTTCATTTCCTCAAGAGATAATTC 58.656 37.037 0.00 0.00 0.00 2.17
2226 2313 8.127954 GCTTCATTTCCTCAAGAGATAATTCAC 58.872 37.037 0.00 0.00 0.00 3.18
2292 2413 4.336713 TCATCCAGAGACACATCTAACTCG 59.663 45.833 0.00 0.00 34.34 4.18
2296 2417 4.494362 CCAGAGACACATCTAACTCGTACG 60.494 50.000 9.53 9.53 34.34 3.67
2297 2418 3.063725 AGAGACACATCTAACTCGTACGC 59.936 47.826 11.24 0.00 34.34 4.42
2298 2419 2.097142 AGACACATCTAACTCGTACGCC 59.903 50.000 11.24 0.00 31.46 5.68
2322 2444 5.539582 TTTGATTTTACGGGAGATTCGTG 57.460 39.130 0.00 0.00 41.24 4.35
2380 2505 4.054359 AGTGTGGGAGTTAGATGAGACT 57.946 45.455 0.00 0.00 0.00 3.24
2381 2506 4.421131 AGTGTGGGAGTTAGATGAGACTT 58.579 43.478 0.00 0.00 0.00 3.01
2382 2507 5.580998 AGTGTGGGAGTTAGATGAGACTTA 58.419 41.667 0.00 0.00 0.00 2.24
2383 2508 6.017192 AGTGTGGGAGTTAGATGAGACTTAA 58.983 40.000 0.00 0.00 0.00 1.85
2397 2522 9.360093 AGATGAGACTTAATTTGTTAACTCTCG 57.640 33.333 7.22 0.00 33.18 4.04
2433 2558 8.602612 GATTAGCAAATCCGAAGTTTACTTTC 57.397 34.615 0.00 0.00 36.30 2.62
2434 2559 7.739498 TTAGCAAATCCGAAGTTTACTTTCT 57.261 32.000 0.00 0.00 36.11 2.52
2435 2560 6.635030 AGCAAATCCGAAGTTTACTTTCTT 57.365 33.333 0.00 0.00 36.11 2.52
2436 2561 6.438763 AGCAAATCCGAAGTTTACTTTCTTG 58.561 36.000 0.00 0.00 36.11 3.02
2437 2562 5.117135 GCAAATCCGAAGTTTACTTTCTTGC 59.883 40.000 0.00 4.99 36.11 4.01
2438 2563 6.438763 CAAATCCGAAGTTTACTTTCTTGCT 58.561 36.000 0.00 0.00 36.11 3.91
2439 2564 6.635030 AATCCGAAGTTTACTTTCTTGCTT 57.365 33.333 0.00 0.00 36.11 3.91
2440 2565 5.418310 TCCGAAGTTTACTTTCTTGCTTG 57.582 39.130 0.00 0.00 36.11 4.01
2443 2568 6.262273 TCCGAAGTTTACTTTCTTGCTTGATT 59.738 34.615 0.00 0.00 36.11 2.57
2444 2569 7.442969 TCCGAAGTTTACTTTCTTGCTTGATTA 59.557 33.333 0.00 0.00 36.11 1.75
2445 2570 8.073768 CCGAAGTTTACTTTCTTGCTTGATTAA 58.926 33.333 0.00 0.00 36.11 1.40
2446 2571 9.612620 CGAAGTTTACTTTCTTGCTTGATTAAT 57.387 29.630 0.00 0.00 36.11 1.40
2457 2582 8.893219 TCTTGCTTGATTAATAGATAGTGTGG 57.107 34.615 0.00 0.00 0.00 4.17
2458 2583 8.704668 TCTTGCTTGATTAATAGATAGTGTGGA 58.295 33.333 0.00 0.00 0.00 4.02
2459 2584 9.330063 CTTGCTTGATTAATAGATAGTGTGGAA 57.670 33.333 0.00 0.00 0.00 3.53
2460 2585 8.893219 TGCTTGATTAATAGATAGTGTGGAAG 57.107 34.615 0.00 0.00 0.00 3.46
2461 2586 8.486210 TGCTTGATTAATAGATAGTGTGGAAGT 58.514 33.333 0.00 0.00 0.00 3.01
2462 2587 9.331282 GCTTGATTAATAGATAGTGTGGAAGTT 57.669 33.333 0.00 0.00 0.00 2.66
2470 2595 9.647918 AATAGATAGTGTGGAAGTTAGATGAGA 57.352 33.333 0.00 0.00 0.00 3.27
2471 2596 7.341445 AGATAGTGTGGAAGTTAGATGAGAC 57.659 40.000 0.00 0.00 0.00 3.36
2472 2597 7.122715 AGATAGTGTGGAAGTTAGATGAGACT 58.877 38.462 0.00 0.00 0.00 3.24
2473 2598 7.617723 AGATAGTGTGGAAGTTAGATGAGACTT 59.382 37.037 0.00 0.00 38.72 3.01
2474 2599 6.426646 AGTGTGGAAGTTAGATGAGACTTT 57.573 37.500 0.00 0.00 36.31 2.66
2475 2600 6.226787 AGTGTGGAAGTTAGATGAGACTTTG 58.773 40.000 0.00 0.00 36.31 2.77
2476 2601 5.992217 GTGTGGAAGTTAGATGAGACTTTGT 59.008 40.000 0.00 0.00 36.31 2.83
2477 2602 6.483640 GTGTGGAAGTTAGATGAGACTTTGTT 59.516 38.462 0.00 0.00 36.31 2.83
2478 2603 7.656137 GTGTGGAAGTTAGATGAGACTTTGTTA 59.344 37.037 0.00 0.00 36.31 2.41
2479 2604 8.208224 TGTGGAAGTTAGATGAGACTTTGTTAA 58.792 33.333 0.00 0.00 36.31 2.01
2480 2605 9.220767 GTGGAAGTTAGATGAGACTTTGTTAAT 57.779 33.333 0.00 0.00 36.31 1.40
2481 2606 9.793259 TGGAAGTTAGATGAGACTTTGTTAATT 57.207 29.630 0.00 0.00 36.31 1.40
2484 2609 8.794335 AGTTAGATGAGACTTTGTTAATTCCC 57.206 34.615 0.00 0.00 0.00 3.97
2485 2610 8.383175 AGTTAGATGAGACTTTGTTAATTCCCA 58.617 33.333 0.00 0.00 0.00 4.37
2486 2611 9.178758 GTTAGATGAGACTTTGTTAATTCCCAT 57.821 33.333 0.00 0.00 0.00 4.00
2487 2612 9.753674 TTAGATGAGACTTTGTTAATTCCCATT 57.246 29.630 0.00 0.00 0.00 3.16
2488 2613 8.655935 AGATGAGACTTTGTTAATTCCCATTT 57.344 30.769 0.00 0.00 0.00 2.32
2489 2614 9.753674 AGATGAGACTTTGTTAATTCCCATTTA 57.246 29.630 0.00 0.00 0.00 1.40
2491 2616 9.753674 ATGAGACTTTGTTAATTCCCATTTAGA 57.246 29.630 0.00 0.00 0.00 2.10
2492 2617 9.753674 TGAGACTTTGTTAATTCCCATTTAGAT 57.246 29.630 0.00 0.00 0.00 1.98
2564 2689 5.049405 GCATTTGGCATAGCGTCTATTTAGT 60.049 40.000 0.00 0.00 43.97 2.24
2574 2700 3.242123 GCGTCTATTTAGTGTGCTTGAGC 60.242 47.826 0.00 0.00 42.50 4.26
2597 2723 3.419943 TGCCACTATTTGTCATTGCTCA 58.580 40.909 0.00 0.00 0.00 4.26
2704 2834 0.891904 AACCGGTTGAATGGAACCCG 60.892 55.000 21.56 0.00 42.26 5.28
2717 2847 1.673923 GGAACCCGGTTTCTTCTACGG 60.674 57.143 11.87 0.00 45.57 4.02
2735 2865 3.528370 CTTCGCCCCGACGATCCT 61.528 66.667 0.00 0.00 42.54 3.24
2827 2957 3.850122 TCGTCAACGATCATCAAGACT 57.150 42.857 0.22 0.00 44.22 3.24
2930 3060 9.582648 TTATTTATTTGGCTAGGGGTAGATTTC 57.417 33.333 0.00 0.00 0.00 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 8.935844 CAAGCATTGTGACTAATGAGTTAGTTA 58.064 33.333 10.48 0.00 44.59 2.24
398 399 5.482908 ACTTGACTAGCTCGTTGATCAAAT 58.517 37.500 10.35 0.00 0.00 2.32
568 569 4.318332 CAACCTTCACATGCTACTGAAGA 58.682 43.478 19.93 0.00 44.22 2.87
695 698 3.711704 CAGGCCTTCTGTTAGGGATCTAA 59.288 47.826 0.00 0.00 38.64 2.10
719 722 2.899900 CCTTTTCCTTTTCCCTTCCAGG 59.100 50.000 0.00 0.00 34.30 4.45
720 723 2.300152 GCCTTTTCCTTTTCCCTTCCAG 59.700 50.000 0.00 0.00 0.00 3.86
721 724 2.325484 GCCTTTTCCTTTTCCCTTCCA 58.675 47.619 0.00 0.00 0.00 3.53
722 725 2.325484 TGCCTTTTCCTTTTCCCTTCC 58.675 47.619 0.00 0.00 0.00 3.46
723 726 3.803715 GCTTGCCTTTTCCTTTTCCCTTC 60.804 47.826 0.00 0.00 0.00 3.46
724 727 2.104792 GCTTGCCTTTTCCTTTTCCCTT 59.895 45.455 0.00 0.00 0.00 3.95
729 732 1.417517 CCCTGCTTGCCTTTTCCTTTT 59.582 47.619 0.00 0.00 0.00 2.27
786 797 1.621814 GGAGTGGTACTGGTGCAAGTA 59.378 52.381 0.00 0.00 0.00 2.24
787 798 0.396811 GGAGTGGTACTGGTGCAAGT 59.603 55.000 0.00 0.00 0.00 3.16
788 799 0.396435 TGGAGTGGTACTGGTGCAAG 59.604 55.000 0.00 0.00 0.00 4.01
789 800 0.107831 GTGGAGTGGTACTGGTGCAA 59.892 55.000 0.00 0.00 0.00 4.08
1005 1029 3.025599 ATGCTCCCTGCCCACCAT 61.026 61.111 0.00 0.00 42.00 3.55
1191 1218 0.843343 TGGGGTTAGGGGAGTTGTCC 60.843 60.000 0.00 0.00 43.05 4.02
1692 1725 1.966451 GGTGGCGTTGGAGAAGGTG 60.966 63.158 0.00 0.00 0.00 4.00
1985 2024 1.226435 GACACCTCGCTCGCTACTG 60.226 63.158 0.00 0.00 0.00 2.74
1986 2025 1.370587 GAGACACCTCGCTCGCTACT 61.371 60.000 0.00 0.00 0.00 2.57
1987 2026 1.062845 GAGACACCTCGCTCGCTAC 59.937 63.158 0.00 0.00 0.00 3.58
1988 2027 1.369839 CTGAGACACCTCGCTCGCTA 61.370 60.000 0.00 0.00 42.33 4.26
1989 2028 2.673341 TGAGACACCTCGCTCGCT 60.673 61.111 0.00 0.00 42.33 4.93
1990 2029 2.202544 CTGAGACACCTCGCTCGC 60.203 66.667 0.00 0.00 42.33 5.03
2006 2045 0.930726 AAGGAGGGGATCGAGAGTCT 59.069 55.000 0.00 0.00 0.00 3.24
2110 2182 6.040391 ACTGGCAAACAATGAAAGCTAACTAA 59.960 34.615 0.00 0.00 0.00 2.24
2122 2196 0.598158 AAGCGCACTGGCAAACAATG 60.598 50.000 11.47 0.00 41.24 2.82
2183 2270 2.999507 AGCTGTACTCAAGAGTGACG 57.000 50.000 12.77 2.30 42.52 4.35
2186 2273 5.121454 GGAAATGAAGCTGTACTCAAGAGTG 59.879 44.000 12.77 0.00 42.52 3.51
2190 2277 5.240891 TGAGGAAATGAAGCTGTACTCAAG 58.759 41.667 0.00 0.00 31.51 3.02
2224 2311 7.621428 ACTTCAATTCTGATCCACATTAGTG 57.379 36.000 0.00 0.00 45.47 2.74
2281 2402 3.795623 AATGGCGTACGAGTTAGATGT 57.204 42.857 21.65 0.00 0.00 3.06
2292 2413 3.374678 TCCCGTAAAATCAAATGGCGTAC 59.625 43.478 0.00 0.00 0.00 3.67
2296 2417 4.918810 ATCTCCCGTAAAATCAAATGGC 57.081 40.909 0.00 0.00 0.00 4.40
2297 2418 5.065988 ACGAATCTCCCGTAAAATCAAATGG 59.934 40.000 0.00 0.00 38.61 3.16
2298 2419 5.965334 CACGAATCTCCCGTAAAATCAAATG 59.035 40.000 0.00 0.00 38.29 2.32
2392 2517 6.078202 TGCTAATCCTCATCTAAACGAGAG 57.922 41.667 0.00 0.00 37.70 3.20
2406 2531 7.393515 AAAGTAAACTTCGGATTTGCTAATCCT 59.606 33.333 29.22 16.66 44.72 3.24
2431 2556 9.330063 CCACACTATCTATTAATCAAGCAAGAA 57.670 33.333 0.00 0.00 0.00 2.52
2433 2558 8.893219 TCCACACTATCTATTAATCAAGCAAG 57.107 34.615 0.00 0.00 0.00 4.01
2434 2559 9.330063 CTTCCACACTATCTATTAATCAAGCAA 57.670 33.333 0.00 0.00 0.00 3.91
2435 2560 8.486210 ACTTCCACACTATCTATTAATCAAGCA 58.514 33.333 0.00 0.00 0.00 3.91
2436 2561 8.894768 ACTTCCACACTATCTATTAATCAAGC 57.105 34.615 0.00 0.00 0.00 4.01
2444 2569 9.647918 TCTCATCTAACTTCCACACTATCTATT 57.352 33.333 0.00 0.00 0.00 1.73
2445 2570 9.073475 GTCTCATCTAACTTCCACACTATCTAT 57.927 37.037 0.00 0.00 0.00 1.98
2446 2571 8.275758 AGTCTCATCTAACTTCCACACTATCTA 58.724 37.037 0.00 0.00 0.00 1.98
2447 2572 7.122715 AGTCTCATCTAACTTCCACACTATCT 58.877 38.462 0.00 0.00 0.00 1.98
2448 2573 7.341445 AGTCTCATCTAACTTCCACACTATC 57.659 40.000 0.00 0.00 0.00 2.08
2449 2574 7.726033 AAGTCTCATCTAACTTCCACACTAT 57.274 36.000 0.00 0.00 29.89 2.12
2451 2576 6.183361 ACAAAGTCTCATCTAACTTCCACACT 60.183 38.462 0.00 0.00 34.71 3.55
2452 2577 5.992217 ACAAAGTCTCATCTAACTTCCACAC 59.008 40.000 0.00 0.00 34.71 3.82
2453 2578 6.174720 ACAAAGTCTCATCTAACTTCCACA 57.825 37.500 0.00 0.00 34.71 4.17
2454 2579 8.603242 TTAACAAAGTCTCATCTAACTTCCAC 57.397 34.615 0.00 0.00 34.71 4.02
2455 2580 9.793259 AATTAACAAAGTCTCATCTAACTTCCA 57.207 29.630 0.00 0.00 34.71 3.53
2458 2583 9.232473 GGGAATTAACAAAGTCTCATCTAACTT 57.768 33.333 0.00 0.00 37.32 2.66
2459 2584 8.383175 TGGGAATTAACAAAGTCTCATCTAACT 58.617 33.333 0.00 0.00 0.00 2.24
2460 2585 8.561738 TGGGAATTAACAAAGTCTCATCTAAC 57.438 34.615 0.00 0.00 0.00 2.34
2461 2586 9.753674 AATGGGAATTAACAAAGTCTCATCTAA 57.246 29.630 1.85 0.00 29.79 2.10
2462 2587 9.753674 AAATGGGAATTAACAAAGTCTCATCTA 57.246 29.630 1.85 0.00 29.79 1.98
2463 2588 8.655935 AAATGGGAATTAACAAAGTCTCATCT 57.344 30.769 1.85 0.00 29.79 2.90
2465 2590 9.753674 TCTAAATGGGAATTAACAAAGTCTCAT 57.246 29.630 0.00 0.00 32.48 2.90
2466 2591 9.753674 ATCTAAATGGGAATTAACAAAGTCTCA 57.246 29.630 0.00 0.00 0.00 3.27
2483 2608 7.723006 GCTAAACGCTAGTCCCATCTAAATGG 61.723 46.154 0.00 0.00 43.04 3.16
2484 2609 5.177696 GCTAAACGCTAGTCCCATCTAAATG 59.822 44.000 0.00 0.00 35.14 2.32
2485 2610 5.163343 TGCTAAACGCTAGTCCCATCTAAAT 60.163 40.000 0.00 0.00 40.11 1.40
2486 2611 4.160814 TGCTAAACGCTAGTCCCATCTAAA 59.839 41.667 0.00 0.00 40.11 1.85
2487 2612 3.702548 TGCTAAACGCTAGTCCCATCTAA 59.297 43.478 0.00 0.00 40.11 2.10
2488 2613 3.293337 TGCTAAACGCTAGTCCCATCTA 58.707 45.455 0.00 0.00 40.11 1.98
2489 2614 2.108168 TGCTAAACGCTAGTCCCATCT 58.892 47.619 0.00 0.00 40.11 2.90
2490 2615 2.596904 TGCTAAACGCTAGTCCCATC 57.403 50.000 0.00 0.00 40.11 3.51
2491 2616 2.545952 CGATGCTAAACGCTAGTCCCAT 60.546 50.000 0.00 0.00 40.11 4.00
2492 2617 1.202371 CGATGCTAAACGCTAGTCCCA 60.202 52.381 0.00 0.00 40.11 4.37
2493 2618 1.202382 ACGATGCTAAACGCTAGTCCC 60.202 52.381 0.00 0.00 40.11 4.46
2494 2619 1.852895 CACGATGCTAAACGCTAGTCC 59.147 52.381 0.00 0.00 40.11 3.85
2495 2620 2.527100 ACACGATGCTAAACGCTAGTC 58.473 47.619 0.00 0.00 40.11 2.59
2496 2621 2.649331 ACACGATGCTAAACGCTAGT 57.351 45.000 0.00 0.00 40.11 2.57
2497 2622 6.929587 ATTATACACGATGCTAAACGCTAG 57.070 37.500 0.00 0.00 40.11 3.42
2498 2623 7.435784 TGAAATTATACACGATGCTAAACGCTA 59.564 33.333 0.00 0.00 40.11 4.26
2499 2624 6.256975 TGAAATTATACACGATGCTAAACGCT 59.743 34.615 0.00 0.00 40.11 5.07
2523 2648 3.996150 ATGCCTTTGAAGCCGATAATG 57.004 42.857 0.00 0.00 0.00 1.90
2550 2675 5.319140 TCAAGCACACTAAATAGACGCTA 57.681 39.130 0.00 0.00 0.00 4.26
2557 2682 3.440173 GGCAAGCTCAAGCACACTAAATA 59.560 43.478 4.59 0.00 45.16 1.40
2564 2689 0.108396 TAGTGGCAAGCTCAAGCACA 59.892 50.000 4.59 1.80 45.16 4.57
2605 2732 8.122472 TGATAGATAGCATTCGGATCAAAGTA 57.878 34.615 0.00 0.00 0.00 2.24
2728 2858 2.755655 ACGAGAGATGAACAAGGATCGT 59.244 45.455 0.00 0.00 37.33 3.73
2731 2861 3.099905 TGGACGAGAGATGAACAAGGAT 58.900 45.455 0.00 0.00 0.00 3.24
2735 2865 3.181459 TGGTTTGGACGAGAGATGAACAA 60.181 43.478 0.00 0.00 0.00 2.83
2827 2957 1.696884 TGTGTACCAACTGCATCTCCA 59.303 47.619 0.00 0.00 0.00 3.86
2930 3060 0.678950 AATCCGCCCAACACCAAAAG 59.321 50.000 0.00 0.00 0.00 2.27


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

AutoCloner maintained by Alex Coulton.