Multiple sequence alignment - TraesCS2B01G422600

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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 TraesCS2B01G422600 chr2B 100.000 2729 0 0 1 2729 608201842 608204570 0.000000e+00 5040
1 TraesCS2B01G422600 chr2B 87.158 2048 198 38 160 2183 132058802 132056796 0.000000e+00 2265
2 TraesCS2B01G422600 chr2B 82.759 203 35 0 238 440 635064286 635064084 6.000000e-42 182
3 TraesCS2B01G422600 chr7B 98.920 2407 24 1 1 2405 270533802 270531396 0.000000e+00 4300
4 TraesCS2B01G422600 chr7B 79.102 713 135 11 974 1677 747224561 747225268 1.900000e-131 479
5 TraesCS2B01G422600 chr5D 87.378 2044 197 32 161 2183 432216840 432218843 0.000000e+00 2289
6 TraesCS2B01G422600 chr6B 81.584 1705 247 37 215 1893 86410614 86408951 0.000000e+00 1347
7 TraesCS2B01G422600 chr3B 84.062 1029 152 11 844 1867 525238807 525239828 0.000000e+00 981
8 TraesCS2B01G422600 chr3B 81.214 873 122 30 1 833 68290965 68290095 0.000000e+00 665
9 TraesCS2B01G422600 chr5A 83.981 1030 152 12 844 1867 522110105 522109083 0.000000e+00 976
10 TraesCS2B01G422600 chr4B 83.111 1048 146 17 844 1867 618616086 618617126 0.000000e+00 926
11 TraesCS2B01G422600 chr2A 86.915 833 90 13 1288 2114 704710380 704711199 0.000000e+00 917
12 TraesCS2B01G422600 chr2A 93.642 173 4 4 2559 2729 660267205 660267372 4.510000e-63 252
13 TraesCS2B01G422600 chr2A 94.068 118 3 2 2609 2726 660263786 660263899 2.790000e-40 176
14 TraesCS2B01G422600 chr5B 77.874 348 72 3 1370 1717 9373299 9373641 7.660000e-51 211
15 TraesCS2B01G422600 chr5B 77.586 348 73 3 1370 1717 9366443 9366785 3.560000e-49 206
16 TraesCS2B01G422600 chr1A 83.744 203 33 0 238 440 42499773 42499571 2.770000e-45 193
17 TraesCS2B01G422600 chr3D 87.288 118 15 0 2288 2405 58083757 58083640 4.740000e-28 135
18 TraesCS2B01G422600 chr2D 86.364 110 15 0 2296 2405 435327647 435327538 1.330000e-23 121


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 TraesCS2B01G422600 chr2B 608201842 608204570 2728 False 5040 5040 100.000 1 2729 1 chr2B.!!$F1 2728
1 TraesCS2B01G422600 chr2B 132056796 132058802 2006 True 2265 2265 87.158 160 2183 1 chr2B.!!$R1 2023
2 TraesCS2B01G422600 chr7B 270531396 270533802 2406 True 4300 4300 98.920 1 2405 1 chr7B.!!$R1 2404
3 TraesCS2B01G422600 chr7B 747224561 747225268 707 False 479 479 79.102 974 1677 1 chr7B.!!$F1 703
4 TraesCS2B01G422600 chr5D 432216840 432218843 2003 False 2289 2289 87.378 161 2183 1 chr5D.!!$F1 2022
5 TraesCS2B01G422600 chr6B 86408951 86410614 1663 True 1347 1347 81.584 215 1893 1 chr6B.!!$R1 1678
6 TraesCS2B01G422600 chr3B 525238807 525239828 1021 False 981 981 84.062 844 1867 1 chr3B.!!$F1 1023
7 TraesCS2B01G422600 chr3B 68290095 68290965 870 True 665 665 81.214 1 833 1 chr3B.!!$R1 832
8 TraesCS2B01G422600 chr5A 522109083 522110105 1022 True 976 976 83.981 844 1867 1 chr5A.!!$R1 1023
9 TraesCS2B01G422600 chr4B 618616086 618617126 1040 False 926 926 83.111 844 1867 1 chr4B.!!$F1 1023
10 TraesCS2B01G422600 chr2A 704710380 704711199 819 False 917 917 86.915 1288 2114 1 chr2A.!!$F1 826
11 TraesCS2B01G422600 chr2A 660263786 660267372 3586 False 214 252 93.855 2559 2729 2 chr2A.!!$F2 170

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
134 137 5.594317 ACATTACACAAAGAGGAGCAAGTTT 59.406 36.00 0.0 0.0 0.0 2.66 F
1033 1090 3.322828 ACCAGCAAAGCACATTCTGAAAT 59.677 39.13 0.0 0.0 0.0 2.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1033 1090 1.250328 CTTGCATCCTTTGTCCAGCA 58.750 50.0 0.0 0.0 0.0 4.41 R
2493 2606 0.044244 TGGAAGTAGGGGAAGGAGGG 59.956 60.0 0.0 0.0 0.0 4.30 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
134 137 5.594317 ACATTACACAAAGAGGAGCAAGTTT 59.406 36.000 0.00 0.00 0.00 2.66
1033 1090 3.322828 ACCAGCAAAGCACATTCTGAAAT 59.677 39.130 0.00 0.00 0.00 2.17
1367 1426 3.552132 TGCTGAAGGTAGTGTTGTTGA 57.448 42.857 0.00 0.00 0.00 3.18
2322 2435 8.174085 ACTATCCTGCTTATACTCCTTCACTAT 58.826 37.037 0.00 0.00 0.00 2.12
2405 2518 0.109319 GCACGCCAATGAATTTCCGT 60.109 50.000 0.00 0.00 0.00 4.69
2406 2519 1.668628 GCACGCCAATGAATTTCCGTT 60.669 47.619 0.00 0.00 0.00 4.44
2408 2521 1.201414 ACGCCAATGAATTTCCGTTCC 59.799 47.619 0.00 0.00 0.00 3.62
2409 2522 1.472480 CGCCAATGAATTTCCGTTCCT 59.528 47.619 0.00 0.00 0.00 3.36
2414 2527 4.009675 CAATGAATTTCCGTTCCTCAGGA 58.990 43.478 0.00 0.00 34.19 3.86
2415 2528 3.780804 TGAATTTCCGTTCCTCAGGAA 57.219 42.857 0.34 0.34 44.04 3.36
2417 2530 2.115343 ATTTCCGTTCCTCAGGAAGC 57.885 50.000 6.31 1.00 45.97 3.86
2418 2531 0.762418 TTTCCGTTCCTCAGGAAGCA 59.238 50.000 6.31 0.00 45.97 3.91
2419 2532 0.762418 TTCCGTTCCTCAGGAAGCAA 59.238 50.000 6.31 0.00 42.88 3.91
2420 2533 0.984230 TCCGTTCCTCAGGAAGCAAT 59.016 50.000 6.31 0.00 42.88 3.56
2422 2535 2.569853 TCCGTTCCTCAGGAAGCAATAA 59.430 45.455 6.31 0.00 42.88 1.40
2423 2536 3.199946 TCCGTTCCTCAGGAAGCAATAAT 59.800 43.478 6.31 0.00 42.88 1.28
2424 2537 3.561725 CCGTTCCTCAGGAAGCAATAATC 59.438 47.826 6.31 0.00 42.88 1.75
2425 2538 3.561725 CGTTCCTCAGGAAGCAATAATCC 59.438 47.826 6.31 0.00 42.88 3.01
2426 2539 4.684485 CGTTCCTCAGGAAGCAATAATCCT 60.684 45.833 6.31 0.00 42.88 3.24
2427 2540 5.453339 CGTTCCTCAGGAAGCAATAATCCTA 60.453 44.000 6.31 0.00 42.88 2.94
2428 2541 5.552870 TCCTCAGGAAGCAATAATCCTAC 57.447 43.478 0.00 0.00 0.00 3.18
2429 2542 4.968719 TCCTCAGGAAGCAATAATCCTACA 59.031 41.667 0.00 0.00 0.00 2.74
2430 2543 5.059833 CCTCAGGAAGCAATAATCCTACAC 58.940 45.833 0.00 0.00 0.00 2.90
2431 2544 5.163258 CCTCAGGAAGCAATAATCCTACACT 60.163 44.000 0.00 0.00 0.00 3.55
2432 2545 6.042093 CCTCAGGAAGCAATAATCCTACACTA 59.958 42.308 0.00 0.00 0.00 2.74
2433 2546 6.817184 TCAGGAAGCAATAATCCTACACTAC 58.183 40.000 0.00 0.00 0.00 2.73
2434 2547 5.692204 CAGGAAGCAATAATCCTACACTACG 59.308 44.000 0.00 0.00 0.00 3.51
2435 2548 5.597182 AGGAAGCAATAATCCTACACTACGA 59.403 40.000 0.00 0.00 0.00 3.43
2436 2549 6.097839 AGGAAGCAATAATCCTACACTACGAA 59.902 38.462 0.00 0.00 0.00 3.85
2438 2551 6.216801 AGCAATAATCCTACACTACGAACA 57.783 37.500 0.00 0.00 0.00 3.18
2439 2552 6.273825 AGCAATAATCCTACACTACGAACAG 58.726 40.000 0.00 0.00 0.00 3.16
2441 2554 6.534079 GCAATAATCCTACACTACGAACAGTT 59.466 38.462 0.00 0.00 0.00 3.16
2442 2555 7.703621 GCAATAATCCTACACTACGAACAGTTA 59.296 37.037 0.00 0.00 0.00 2.24
2443 2556 9.017669 CAATAATCCTACACTACGAACAGTTAC 57.982 37.037 0.00 0.00 0.00 2.50
2444 2557 4.668576 TCCTACACTACGAACAGTTACG 57.331 45.455 0.00 0.00 0.00 3.18
2446 2559 4.083855 TCCTACACTACGAACAGTTACGTG 60.084 45.833 16.35 10.07 42.61 4.49
2449 2562 2.152489 CACTACGAACAGTTACGTGCAC 59.848 50.000 6.82 6.82 42.61 4.57
2450 2563 2.033801 ACTACGAACAGTTACGTGCACT 59.966 45.455 16.19 4.64 42.61 4.40
2451 2564 1.930567 ACGAACAGTTACGTGCACTT 58.069 45.000 16.19 8.40 41.17 3.16
2452 2565 2.273557 ACGAACAGTTACGTGCACTTT 58.726 42.857 16.19 4.04 41.17 2.66
2454 2567 3.864583 ACGAACAGTTACGTGCACTTTTA 59.135 39.130 16.19 0.23 41.17 1.52
2457 2570 3.800531 ACAGTTACGTGCACTTTTAGGT 58.199 40.909 16.19 6.66 0.00 3.08
2458 2571 4.947645 ACAGTTACGTGCACTTTTAGGTA 58.052 39.130 16.19 5.60 0.00 3.08
2459 2572 5.358922 ACAGTTACGTGCACTTTTAGGTAA 58.641 37.500 16.19 11.48 0.00 2.85
2460 2573 5.234972 ACAGTTACGTGCACTTTTAGGTAAC 59.765 40.000 24.04 24.04 43.26 2.50
2476 2589 3.166679 GGTAACTCTCCTCCACTGAAGT 58.833 50.000 0.00 0.00 0.00 3.01
2478 2591 4.322123 GGTAACTCTCCTCCACTGAAGTTC 60.322 50.000 0.00 0.00 0.00 3.01
2479 2592 2.964209 ACTCTCCTCCACTGAAGTTCA 58.036 47.619 5.25 5.25 0.00 3.18
2480 2593 3.309296 ACTCTCCTCCACTGAAGTTCAA 58.691 45.455 7.06 0.00 0.00 2.69
2481 2594 3.906846 ACTCTCCTCCACTGAAGTTCAAT 59.093 43.478 7.06 0.00 0.00 2.57
2483 2596 3.008375 TCTCCTCCACTGAAGTTCAATGG 59.992 47.826 24.30 24.30 44.56 3.16
2487 2600 2.711009 TCCACTGAAGTTCAATGGAGGT 59.289 45.455 27.79 9.36 46.51 3.85
2488 2601 2.816087 CCACTGAAGTTCAATGGAGGTG 59.184 50.000 25.71 17.88 45.97 4.00
2489 2602 2.816087 CACTGAAGTTCAATGGAGGTGG 59.184 50.000 6.42 0.00 0.00 4.61
2490 2603 2.224867 ACTGAAGTTCAATGGAGGTGGG 60.225 50.000 7.06 0.00 0.00 4.61
2491 2604 1.075374 TGAAGTTCAATGGAGGTGGGG 59.925 52.381 2.20 0.00 0.00 4.96
2493 2606 1.682344 GTTCAATGGAGGTGGGGCC 60.682 63.158 0.00 0.00 37.58 5.80
2494 2607 2.929964 TTCAATGGAGGTGGGGCCC 61.930 63.158 18.17 18.17 38.26 5.80
2496 2609 4.720443 AATGGAGGTGGGGCCCCT 62.720 66.667 40.66 22.84 38.26 4.79
2506 2619 4.118312 GGGCCCCTCCTTCCCCTA 62.118 72.222 12.23 0.00 34.59 3.53
2507 2620 2.773053 GGCCCCTCCTTCCCCTAC 60.773 72.222 0.00 0.00 0.00 3.18
2508 2621 2.373100 GCCCCTCCTTCCCCTACT 59.627 66.667 0.00 0.00 0.00 2.57
2510 2623 1.346479 GCCCCTCCTTCCCCTACTTC 61.346 65.000 0.00 0.00 0.00 3.01
2512 2625 0.044244 CCCTCCTTCCCCTACTTCCA 59.956 60.000 0.00 0.00 0.00 3.53
2514 2627 2.493091 CCTCCTTCCCCTACTTCCAAT 58.507 52.381 0.00 0.00 0.00 3.16
2515 2628 2.439880 CCTCCTTCCCCTACTTCCAATC 59.560 54.545 0.00 0.00 0.00 2.67
2517 2630 2.844348 TCCTTCCCCTACTTCCAATCAC 59.156 50.000 0.00 0.00 0.00 3.06
2518 2631 2.576191 CCTTCCCCTACTTCCAATCACA 59.424 50.000 0.00 0.00 0.00 3.58
2520 2633 3.199442 TCCCCTACTTCCAATCACAGA 57.801 47.619 0.00 0.00 0.00 3.41
2522 2635 4.111577 TCCCCTACTTCCAATCACAGATT 58.888 43.478 0.00 0.00 0.00 2.40
2525 2638 4.521146 CCTACTTCCAATCACAGATTGCT 58.479 43.478 12.93 0.43 0.00 3.91
2526 2639 5.396772 CCCTACTTCCAATCACAGATTGCTA 60.397 44.000 12.93 2.55 0.00 3.49
2527 2640 6.115446 CCTACTTCCAATCACAGATTGCTAA 58.885 40.000 12.93 8.97 0.00 3.09
2528 2641 6.259608 CCTACTTCCAATCACAGATTGCTAAG 59.740 42.308 19.99 19.99 32.03 2.18
2530 2643 5.413833 ACTTCCAATCACAGATTGCTAAGTG 59.586 40.000 23.22 9.69 34.94 3.16
2532 2645 3.181493 CCAATCACAGATTGCTAAGTGGC 60.181 47.826 12.93 0.00 33.01 5.01
2533 2646 3.641434 ATCACAGATTGCTAAGTGGCT 57.359 42.857 0.00 0.00 33.01 4.75
2534 2647 4.760530 ATCACAGATTGCTAAGTGGCTA 57.239 40.909 0.00 0.00 33.01 3.93
2535 2648 4.551702 TCACAGATTGCTAAGTGGCTAA 57.448 40.909 0.00 0.00 33.01 3.09
2536 2649 5.102953 TCACAGATTGCTAAGTGGCTAAT 57.897 39.130 0.00 0.00 33.01 1.73
2537 2650 5.500234 TCACAGATTGCTAAGTGGCTAATT 58.500 37.500 0.00 0.00 33.01 1.40
2538 2651 6.649155 TCACAGATTGCTAAGTGGCTAATTA 58.351 36.000 0.00 0.00 33.01 1.40
2539 2652 6.538742 TCACAGATTGCTAAGTGGCTAATTAC 59.461 38.462 0.00 0.00 33.01 1.89
2541 2654 4.511826 AGATTGCTAAGTGGCTAATTACGC 59.488 41.667 5.31 5.31 0.00 4.42
2542 2655 3.254470 TGCTAAGTGGCTAATTACGCA 57.746 42.857 9.18 9.18 0.00 5.24
2544 2657 4.004314 TGCTAAGTGGCTAATTACGCAAA 58.996 39.130 10.29 0.00 0.00 3.68
2545 2658 4.456222 TGCTAAGTGGCTAATTACGCAAAA 59.544 37.500 10.29 0.00 0.00 2.44
2546 2659 4.791676 GCTAAGTGGCTAATTACGCAAAAC 59.208 41.667 8.51 4.83 0.00 2.43
2547 2660 5.391629 GCTAAGTGGCTAATTACGCAAAACT 60.392 40.000 8.51 6.40 0.00 2.66
2548 2661 4.419522 AGTGGCTAATTACGCAAAACTG 57.580 40.909 8.51 0.00 0.00 3.16
2550 2663 4.154195 AGTGGCTAATTACGCAAAACTGAG 59.846 41.667 8.51 0.00 0.00 3.35
2551 2664 3.119990 TGGCTAATTACGCAAAACTGAGC 60.120 43.478 8.51 0.00 0.00 4.26
2561 2674 4.931082 GCAAAACTGAGCGTAACTTTTC 57.069 40.909 0.00 0.00 0.00 2.29
2565 3427 4.961433 AACTGAGCGTAACTTTTCGTAC 57.039 40.909 0.00 0.00 0.00 3.67
2570 3432 2.721090 AGCGTAACTTTTCGTACGTGTC 59.279 45.455 16.05 0.00 38.11 3.67
2581 3443 1.447140 TACGTGTCGCATTGCTCCC 60.447 57.895 7.12 0.00 0.00 4.30
2582 3444 2.161078 TACGTGTCGCATTGCTCCCA 62.161 55.000 7.12 0.00 0.00 4.37
2584 3446 2.046023 TGTCGCATTGCTCCCAGG 60.046 61.111 7.12 0.00 0.00 4.45
2586 3448 4.802051 TCGCATTGCTCCCAGGCC 62.802 66.667 7.12 0.00 0.00 5.19
2714 3576 3.016736 GCCCCCAACATATCAATATCCG 58.983 50.000 0.00 0.00 0.00 4.18
2725 3587 8.051901 ACATATCAATATCCGATCGACACTTA 57.948 34.615 18.66 0.94 0.00 2.24
2726 3588 8.184848 ACATATCAATATCCGATCGACACTTAG 58.815 37.037 18.66 0.00 0.00 2.18
2727 3589 6.819397 ATCAATATCCGATCGACACTTAGA 57.181 37.500 18.66 3.29 0.00 2.10
2728 3590 6.819397 TCAATATCCGATCGACACTTAGAT 57.181 37.500 18.66 11.07 0.00 1.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 1.742761 TTTCCATAGCTCTGCACTGC 58.257 50.000 0.00 0.00 0.00 4.40
1033 1090 1.250328 CTTGCATCCTTTGTCCAGCA 58.750 50.000 0.00 0.00 0.00 4.41
1549 1616 2.113774 CTTGTGCCCTGCTCCACA 59.886 61.111 0.00 0.00 39.95 4.17
2322 2435 1.273781 TGGGATCTGGACTGGTCATCA 60.274 52.381 3.10 0.00 0.00 3.07
2405 2518 5.428457 TGTAGGATTATTGCTTCCTGAGGAA 59.572 40.000 14.16 14.16 42.38 3.36
2406 2519 4.968719 TGTAGGATTATTGCTTCCTGAGGA 59.031 41.667 0.00 0.00 42.38 3.71
2408 2521 5.923204 AGTGTAGGATTATTGCTTCCTGAG 58.077 41.667 1.76 0.00 42.38 3.35
2409 2522 5.957771 AGTGTAGGATTATTGCTTCCTGA 57.042 39.130 1.76 0.00 42.38 3.86
2414 2527 6.636705 TGTTCGTAGTGTAGGATTATTGCTT 58.363 36.000 0.00 0.00 0.00 3.91
2415 2528 6.127423 ACTGTTCGTAGTGTAGGATTATTGCT 60.127 38.462 0.00 0.00 0.00 3.91
2417 2530 9.017669 GTAACTGTTCGTAGTGTAGGATTATTG 57.982 37.037 0.00 0.00 0.00 1.90
2418 2531 7.912250 CGTAACTGTTCGTAGTGTAGGATTATT 59.088 37.037 0.00 0.00 0.00 1.40
2419 2532 7.066284 ACGTAACTGTTCGTAGTGTAGGATTAT 59.934 37.037 13.56 0.00 38.52 1.28
2420 2533 6.371548 ACGTAACTGTTCGTAGTGTAGGATTA 59.628 38.462 13.56 0.00 38.52 1.75
2422 2535 4.697352 ACGTAACTGTTCGTAGTGTAGGAT 59.303 41.667 13.56 0.00 38.52 3.24
2423 2536 4.065088 ACGTAACTGTTCGTAGTGTAGGA 58.935 43.478 13.56 0.00 38.52 2.94
2424 2537 4.153986 CACGTAACTGTTCGTAGTGTAGG 58.846 47.826 14.37 0.00 38.52 3.18
2425 2538 3.601211 GCACGTAACTGTTCGTAGTGTAG 59.399 47.826 14.37 6.08 38.52 2.74
2426 2539 3.003171 TGCACGTAACTGTTCGTAGTGTA 59.997 43.478 14.37 9.62 38.52 2.90
2427 2540 2.223548 TGCACGTAACTGTTCGTAGTGT 60.224 45.455 14.37 0.00 38.52 3.55
2428 2541 2.152489 GTGCACGTAACTGTTCGTAGTG 59.848 50.000 0.00 12.57 38.52 2.74
2429 2542 2.033801 AGTGCACGTAACTGTTCGTAGT 59.966 45.455 12.01 4.67 38.52 2.73
2430 2543 2.658285 AGTGCACGTAACTGTTCGTAG 58.342 47.619 12.01 11.19 38.52 3.51
2431 2544 2.780065 AGTGCACGTAACTGTTCGTA 57.220 45.000 12.01 2.42 38.52 3.43
2432 2545 1.930567 AAGTGCACGTAACTGTTCGT 58.069 45.000 12.01 10.66 40.99 3.85
2433 2546 3.313274 AAAAGTGCACGTAACTGTTCG 57.687 42.857 12.01 3.68 0.00 3.95
2434 2547 4.271776 ACCTAAAAGTGCACGTAACTGTTC 59.728 41.667 12.01 0.00 0.00 3.18
2435 2548 4.193865 ACCTAAAAGTGCACGTAACTGTT 58.806 39.130 12.01 10.06 0.00 3.16
2436 2549 3.800531 ACCTAAAAGTGCACGTAACTGT 58.199 40.909 12.01 3.74 0.00 3.55
2438 2551 5.604565 AGTTACCTAAAAGTGCACGTAACT 58.395 37.500 26.49 26.49 40.43 2.24
2439 2552 5.693555 AGAGTTACCTAAAAGTGCACGTAAC 59.306 40.000 24.04 24.04 37.09 2.50
2441 2554 5.458041 AGAGTTACCTAAAAGTGCACGTA 57.542 39.130 12.01 3.48 0.00 3.57
2442 2555 4.304939 GAGAGTTACCTAAAAGTGCACGT 58.695 43.478 12.01 5.01 0.00 4.49
2443 2556 3.678548 GGAGAGTTACCTAAAAGTGCACG 59.321 47.826 12.01 0.00 0.00 5.34
2444 2557 4.895961 AGGAGAGTTACCTAAAAGTGCAC 58.104 43.478 9.40 9.40 35.84 4.57
2446 2559 4.020485 TGGAGGAGAGTTACCTAAAAGTGC 60.020 45.833 0.00 0.00 37.93 4.40
2449 2562 5.480772 TCAGTGGAGGAGAGTTACCTAAAAG 59.519 44.000 0.00 0.00 37.93 2.27
2450 2563 5.399991 TCAGTGGAGGAGAGTTACCTAAAA 58.600 41.667 0.00 0.00 37.93 1.52
2451 2564 5.006896 TCAGTGGAGGAGAGTTACCTAAA 57.993 43.478 0.00 0.00 37.93 1.85
2452 2565 4.669866 TCAGTGGAGGAGAGTTACCTAA 57.330 45.455 0.00 0.00 37.93 2.69
2454 2567 3.181416 ACTTCAGTGGAGGAGAGTTACCT 60.181 47.826 2.79 0.00 40.80 3.08
2457 2570 4.480115 TGAACTTCAGTGGAGGAGAGTTA 58.520 43.478 2.79 0.00 0.00 2.24
2458 2571 3.309296 TGAACTTCAGTGGAGGAGAGTT 58.691 45.455 2.79 0.00 0.00 3.01
2459 2572 2.964209 TGAACTTCAGTGGAGGAGAGT 58.036 47.619 2.79 0.00 0.00 3.24
2460 2573 4.252073 CATTGAACTTCAGTGGAGGAGAG 58.748 47.826 2.79 0.00 31.43 3.20
2461 2574 4.277515 CATTGAACTTCAGTGGAGGAGA 57.722 45.455 2.79 0.00 31.43 3.71
2468 2581 2.816087 CCACCTCCATTGAACTTCAGTG 59.184 50.000 7.20 7.20 34.37 3.66
2469 2582 2.224867 CCCACCTCCATTGAACTTCAGT 60.225 50.000 0.00 0.00 0.00 3.41
2470 2583 2.440409 CCCACCTCCATTGAACTTCAG 58.560 52.381 0.00 0.00 0.00 3.02
2471 2584 1.075374 CCCCACCTCCATTGAACTTCA 59.925 52.381 0.00 0.00 0.00 3.02
2472 2585 1.839424 CCCCACCTCCATTGAACTTC 58.161 55.000 0.00 0.00 0.00 3.01
2473 2586 0.251787 GCCCCACCTCCATTGAACTT 60.252 55.000 0.00 0.00 0.00 2.66
2474 2587 1.384191 GCCCCACCTCCATTGAACT 59.616 57.895 0.00 0.00 0.00 3.01
2476 2589 2.770130 GGCCCCACCTCCATTGAA 59.230 61.111 0.00 0.00 34.51 2.69
2478 2591 4.463788 GGGGCCCCACCTCCATTG 62.464 72.222 37.61 0.00 39.10 2.82
2479 2592 4.720443 AGGGGCCCCACCTCCATT 62.720 66.667 42.48 17.24 41.62 3.16
2489 2602 4.118312 TAGGGGAAGGAGGGGCCC 62.118 72.222 17.12 17.12 41.28 5.80
2490 2603 2.773053 GTAGGGGAAGGAGGGGCC 60.773 72.222 0.00 0.00 0.00 5.80
2491 2604 1.307953 AAGTAGGGGAAGGAGGGGC 60.308 63.158 0.00 0.00 0.00 5.80
2493 2606 0.044244 TGGAAGTAGGGGAAGGAGGG 59.956 60.000 0.00 0.00 0.00 4.30
2494 2607 1.966845 TTGGAAGTAGGGGAAGGAGG 58.033 55.000 0.00 0.00 0.00 4.30
2496 2609 2.844348 GTGATTGGAAGTAGGGGAAGGA 59.156 50.000 0.00 0.00 0.00 3.36
2497 2610 2.576191 TGTGATTGGAAGTAGGGGAAGG 59.424 50.000 0.00 0.00 0.00 3.46
2499 2612 3.526899 TCTGTGATTGGAAGTAGGGGAA 58.473 45.455 0.00 0.00 0.00 3.97
2500 2613 3.199442 TCTGTGATTGGAAGTAGGGGA 57.801 47.619 0.00 0.00 0.00 4.81
2501 2614 4.202441 CAATCTGTGATTGGAAGTAGGGG 58.798 47.826 11.27 0.00 0.00 4.79
2502 2615 3.629398 GCAATCTGTGATTGGAAGTAGGG 59.371 47.826 18.23 0.00 0.00 3.53
2503 2616 4.521146 AGCAATCTGTGATTGGAAGTAGG 58.479 43.478 18.23 0.00 0.00 3.18
2504 2617 6.820656 ACTTAGCAATCTGTGATTGGAAGTAG 59.179 38.462 18.23 0.00 0.00 2.57
2505 2618 6.595326 CACTTAGCAATCTGTGATTGGAAGTA 59.405 38.462 18.23 0.00 32.72 2.24
2506 2619 5.413833 CACTTAGCAATCTGTGATTGGAAGT 59.586 40.000 18.23 0.00 32.72 3.01
2507 2620 5.163683 CCACTTAGCAATCTGTGATTGGAAG 60.164 44.000 18.23 0.00 32.72 3.46
2508 2621 4.701651 CCACTTAGCAATCTGTGATTGGAA 59.298 41.667 18.23 0.00 32.72 3.53
2510 2623 3.181493 GCCACTTAGCAATCTGTGATTGG 60.181 47.826 18.23 7.31 32.72 3.16
2512 2625 3.960571 AGCCACTTAGCAATCTGTGATT 58.039 40.909 0.00 0.00 34.23 2.57
2514 2627 4.551702 TTAGCCACTTAGCAATCTGTGA 57.448 40.909 0.00 0.00 34.23 3.58
2515 2628 5.824904 AATTAGCCACTTAGCAATCTGTG 57.175 39.130 0.00 0.00 34.23 3.66
2517 2630 5.559035 GCGTAATTAGCCACTTAGCAATCTG 60.559 44.000 0.00 0.00 34.23 2.90
2518 2631 4.511826 GCGTAATTAGCCACTTAGCAATCT 59.488 41.667 0.00 0.00 34.23 2.40
2520 2633 4.196193 TGCGTAATTAGCCACTTAGCAAT 58.804 39.130 0.00 0.00 34.23 3.56
2522 2635 3.254470 TGCGTAATTAGCCACTTAGCA 57.746 42.857 0.00 0.00 34.23 3.49
2525 2638 5.701750 TCAGTTTTGCGTAATTAGCCACTTA 59.298 36.000 0.00 0.00 0.00 2.24
2526 2639 4.517453 TCAGTTTTGCGTAATTAGCCACTT 59.483 37.500 0.00 0.00 0.00 3.16
2527 2640 4.069304 TCAGTTTTGCGTAATTAGCCACT 58.931 39.130 0.00 2.91 0.00 4.00
2528 2641 4.403453 CTCAGTTTTGCGTAATTAGCCAC 58.597 43.478 0.00 1.24 0.00 5.01
2530 2643 3.426323 GCTCAGTTTTGCGTAATTAGCC 58.574 45.455 0.00 0.00 0.00 3.93
2541 2654 4.584394 ACGAAAAGTTACGCTCAGTTTTG 58.416 39.130 0.00 0.00 28.79 2.44
2542 2655 4.870221 ACGAAAAGTTACGCTCAGTTTT 57.130 36.364 0.00 0.00 30.86 2.43
2544 2657 3.423206 CGTACGAAAAGTTACGCTCAGTT 59.577 43.478 10.44 0.00 0.00 3.16
2545 2658 2.975851 CGTACGAAAAGTTACGCTCAGT 59.024 45.455 10.44 0.00 0.00 3.41
2546 2659 2.975851 ACGTACGAAAAGTTACGCTCAG 59.024 45.455 24.41 0.00 39.27 3.35
2547 2660 2.720578 CACGTACGAAAAGTTACGCTCA 59.279 45.455 24.41 0.00 39.27 4.26
2548 2661 2.721090 ACACGTACGAAAAGTTACGCTC 59.279 45.455 24.41 0.00 39.27 5.03
2550 2663 2.467445 CGACACGTACGAAAAGTTACGC 60.467 50.000 24.41 2.46 39.27 4.42
2551 2664 2.467445 GCGACACGTACGAAAAGTTACG 60.467 50.000 24.41 14.63 41.18 3.18
2552 2665 2.467305 TGCGACACGTACGAAAAGTTAC 59.533 45.455 24.41 10.60 0.00 2.50
2554 2667 1.558741 TGCGACACGTACGAAAAGTT 58.441 45.000 24.41 0.00 0.00 2.66
2555 2668 1.774639 ATGCGACACGTACGAAAAGT 58.225 45.000 24.41 14.12 0.00 2.66
2556 2669 2.482235 CAATGCGACACGTACGAAAAG 58.518 47.619 24.41 11.36 0.00 2.27
2557 2670 1.397441 GCAATGCGACACGTACGAAAA 60.397 47.619 24.41 1.26 0.00 2.29
2558 2671 0.162082 GCAATGCGACACGTACGAAA 59.838 50.000 24.41 0.51 0.00 3.46
2560 2673 1.068832 GAGCAATGCGACACGTACGA 61.069 55.000 24.41 0.00 0.00 3.43
2561 2674 1.340465 GAGCAATGCGACACGTACG 59.660 57.895 15.01 15.01 0.00 3.67
2565 3427 2.741985 TGGGAGCAATGCGACACG 60.742 61.111 0.00 0.00 0.00 4.49


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

AutoCloner maintained by Alex Coulton.