Multiple sequence alignment - TraesCS3B01G123100

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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 TraesCS3B01G123100 chr3B 100.000 3002 0 0 1 3002 94855164 94858165 0.000000e+00 5544
1 TraesCS3B01G123100 chr3D 92.447 2542 106 41 1 2504 59255562 59258055 0.000000e+00 3552
2 TraesCS3B01G123100 chr3D 90.609 394 30 6 2577 2965 59258088 59258479 1.600000e-142 516
3 TraesCS3B01G123100 chr3A 92.654 2423 99 39 136 2504 68119341 68121738 0.000000e+00 3415
4 TraesCS3B01G123100 chr3A 92.399 421 31 1 2577 2996 68121771 68122191 1.540000e-167 599
5 TraesCS3B01G123100 chr1D 78.667 600 114 10 1139 1734 140785359 140784770 1.310000e-103 387
6 TraesCS3B01G123100 chr1A 78.297 599 118 8 1139 1734 150006898 150007487 2.830000e-100 375


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 TraesCS3B01G123100 chr3B 94855164 94858165 3001 False 5544 5544 100.0000 1 3002 1 chr3B.!!$F1 3001
1 TraesCS3B01G123100 chr3D 59255562 59258479 2917 False 2034 3552 91.5280 1 2965 2 chr3D.!!$F1 2964
2 TraesCS3B01G123100 chr3A 68119341 68122191 2850 False 2007 3415 92.5265 136 2996 2 chr3A.!!$F1 2860
3 TraesCS3B01G123100 chr1D 140784770 140785359 589 True 387 387 78.6670 1139 1734 1 chr1D.!!$R1 595
4 TraesCS3B01G123100 chr1A 150006898 150007487 589 False 375 375 78.2970 1139 1734 1 chr1A.!!$F1 595

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
182 183 0.174617 GCCGGATATGCTCTAGCCTC 59.825 60.0 5.05 0.0 41.18 4.7 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2099 2147 0.326048 CCTCACATCACTCCTCCCCT 60.326 60.0 0.0 0.0 0.0 4.79 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
177 178 0.976641 CAAGGGCCGGATATGCTCTA 59.023 55.000 5.05 0.00 39.04 2.43
178 179 1.066573 CAAGGGCCGGATATGCTCTAG 60.067 57.143 5.05 0.00 39.04 2.43
179 180 1.219393 GGGCCGGATATGCTCTAGC 59.781 63.158 5.05 0.00 42.50 3.42
180 181 1.219393 GGCCGGATATGCTCTAGCC 59.781 63.158 5.05 0.00 41.18 3.93
181 182 1.261238 GGCCGGATATGCTCTAGCCT 61.261 60.000 5.05 0.00 41.18 4.58
182 183 0.174617 GCCGGATATGCTCTAGCCTC 59.825 60.000 5.05 0.00 41.18 4.70
189 190 5.065474 CGGATATGCTCTAGCCTCTAACTAC 59.935 48.000 0.00 0.00 41.18 2.73
333 334 4.317444 TGTAACACACCCCCGGCG 62.317 66.667 0.00 0.00 0.00 6.46
361 362 4.321452 CCAATGTTCACAAATGCTACTGCT 60.321 41.667 0.00 0.00 40.48 4.24
417 422 9.816354 ACTTAATTACAACAAAATGAGCTTGTT 57.184 25.926 0.00 0.00 45.56 2.83
442 447 6.109359 ACTATTAAATCTCTGACGCTTTGCT 58.891 36.000 0.00 0.00 0.00 3.91
443 448 7.265673 ACTATTAAATCTCTGACGCTTTGCTA 58.734 34.615 0.00 0.00 0.00 3.49
444 449 6.595772 ATTAAATCTCTGACGCTTTGCTAG 57.404 37.500 0.00 0.00 0.00 3.42
518 523 5.491982 CTGAAACACAATTACTCCTAGCCT 58.508 41.667 0.00 0.00 0.00 4.58
583 599 7.108194 TCACTACTAGCTTTAGTACTGCTACA 58.892 38.462 5.39 0.00 38.15 2.74
597 613 3.578716 ACTGCTACAGCTCAAGGAGTAAA 59.421 43.478 15.06 0.00 41.89 2.01
641 657 1.973138 CTCGGTTTGCAGCTCATTTG 58.027 50.000 0.00 0.00 0.00 2.32
645 661 3.005684 TCGGTTTGCAGCTCATTTGAAAT 59.994 39.130 0.00 0.00 0.00 2.17
646 662 4.217334 TCGGTTTGCAGCTCATTTGAAATA 59.783 37.500 0.00 0.00 0.00 1.40
682 707 9.702726 CTTCATACGTGAAATATAAGTTTGTGG 57.297 33.333 0.00 0.00 43.39 4.17
683 708 8.203937 TCATACGTGAAATATAAGTTTGTGGG 57.796 34.615 0.00 0.00 0.00 4.61
684 709 8.041919 TCATACGTGAAATATAAGTTTGTGGGA 58.958 33.333 0.00 0.00 0.00 4.37
685 710 8.670135 CATACGTGAAATATAAGTTTGTGGGAA 58.330 33.333 0.00 0.00 0.00 3.97
686 711 7.513371 ACGTGAAATATAAGTTTGTGGGAAA 57.487 32.000 0.00 0.00 0.00 3.13
687 712 7.942990 ACGTGAAATATAAGTTTGTGGGAAAA 58.057 30.769 0.00 0.00 0.00 2.29
704 733 6.640907 GTGGGAAAATGTGTGAATACAAGTTC 59.359 38.462 0.00 0.00 38.82 3.01
708 737 9.260002 GGAAAATGTGTGAATACAAGTTCAAAT 57.740 29.630 0.00 0.00 39.61 2.32
718 747 8.519526 TGAATACAAGTTCAAATTACCATCCAC 58.480 33.333 0.00 0.00 35.31 4.02
719 748 5.371115 ACAAGTTCAAATTACCATCCACG 57.629 39.130 0.00 0.00 0.00 4.94
721 750 5.998981 ACAAGTTCAAATTACCATCCACGTA 59.001 36.000 0.00 0.00 0.00 3.57
741 770 4.216902 CGTAATTTTCCCGGGAGAAAAACT 59.783 41.667 28.58 16.72 45.94 2.66
748 777 2.228103 CCCGGGAGAAAAACTAACTTGC 59.772 50.000 18.48 0.00 0.00 4.01
752 781 3.634910 GGGAGAAAAACTAACTTGCCACA 59.365 43.478 0.00 0.00 0.00 4.17
767 796 2.004583 CCACAAGCGAGAATTACGGA 57.995 50.000 6.64 0.00 0.00 4.69
806 835 0.321122 AAGGCAGAGGAAAGTGAGCG 60.321 55.000 0.00 0.00 0.00 5.03
999 1036 3.961414 GGCCGGAACCCAGTCCAA 61.961 66.667 5.05 0.00 37.56 3.53
1004 1041 1.150536 GGAACCCAGTCCAAGCACA 59.849 57.895 0.00 0.00 37.65 4.57
1005 1042 0.890996 GGAACCCAGTCCAAGCACAG 60.891 60.000 0.00 0.00 37.65 3.66
1006 1043 1.518903 GAACCCAGTCCAAGCACAGC 61.519 60.000 0.00 0.00 0.00 4.40
1007 1044 1.999634 AACCCAGTCCAAGCACAGCT 62.000 55.000 0.00 0.00 42.56 4.24
1008 1045 1.127567 ACCCAGTCCAAGCACAGCTA 61.128 55.000 0.00 0.00 38.25 3.32
1009 1046 0.392193 CCCAGTCCAAGCACAGCTAG 60.392 60.000 0.00 0.00 38.25 3.42
1010 1047 1.023513 CCAGTCCAAGCACAGCTAGC 61.024 60.000 6.62 6.62 38.25 3.42
1012 1049 1.003355 GTCCAAGCACAGCTAGCCA 60.003 57.895 12.13 0.00 38.25 4.75
1079 1122 1.532794 TTCCAACGGCAAGCCCAAT 60.533 52.632 5.34 0.00 0.00 3.16
1373 1419 2.059786 GCTCAGCCTCTCCAGCTCT 61.060 63.158 0.00 0.00 38.95 4.09
1527 1573 4.003788 CGACTGTGCCGGGGTTCT 62.004 66.667 2.18 0.00 0.00 3.01
2033 2079 4.860261 GCGGTGGGGCGTACGTAG 62.860 72.222 17.90 2.19 0.00 3.51
2035 2081 2.112198 CGGTGGGGCGTACGTAGTA 61.112 63.158 17.90 0.00 45.11 1.82
2423 2487 0.676184 ATGCAGAGATACCGCGTGAT 59.324 50.000 4.92 0.00 0.00 3.06
2485 2549 0.469144 TTCTGGTGCCCAAGGTTTCC 60.469 55.000 0.00 0.00 30.80 3.13
2493 2557 0.396435 CCCAAGGTTTCCTTTTGCCC 59.604 55.000 0.00 0.00 41.69 5.36
2496 2560 2.560504 CAAGGTTTCCTTTTGCCCAAC 58.439 47.619 0.00 0.00 41.69 3.77
2503 2567 4.440826 TTCCTTTTGCCCAACTACAGTA 57.559 40.909 0.00 0.00 0.00 2.74
2504 2568 3.746940 TCCTTTTGCCCAACTACAGTAC 58.253 45.455 0.00 0.00 0.00 2.73
2505 2569 3.393278 TCCTTTTGCCCAACTACAGTACT 59.607 43.478 0.00 0.00 0.00 2.73
2506 2570 3.502211 CCTTTTGCCCAACTACAGTACTG 59.498 47.826 21.44 21.44 0.00 2.74
2507 2571 4.385825 CTTTTGCCCAACTACAGTACTGA 58.614 43.478 29.30 11.77 0.00 3.41
2508 2572 4.634012 TTTGCCCAACTACAGTACTGAT 57.366 40.909 29.30 15.29 0.00 2.90
2509 2573 4.634012 TTGCCCAACTACAGTACTGATT 57.366 40.909 29.30 16.23 0.00 2.57
2510 2574 4.634012 TGCCCAACTACAGTACTGATTT 57.366 40.909 29.30 14.83 0.00 2.17
2511 2575 5.748670 TGCCCAACTACAGTACTGATTTA 57.251 39.130 29.30 10.43 0.00 1.40
2512 2576 6.116711 TGCCCAACTACAGTACTGATTTAA 57.883 37.500 29.30 7.95 0.00 1.52
2513 2577 5.935789 TGCCCAACTACAGTACTGATTTAAC 59.064 40.000 29.30 11.28 0.00 2.01
2514 2578 5.353400 GCCCAACTACAGTACTGATTTAACC 59.647 44.000 29.30 7.29 0.00 2.85
2515 2579 6.469410 CCCAACTACAGTACTGATTTAACCA 58.531 40.000 29.30 3.08 0.00 3.67
2516 2580 6.370718 CCCAACTACAGTACTGATTTAACCAC 59.629 42.308 29.30 0.00 0.00 4.16
2517 2581 7.159372 CCAACTACAGTACTGATTTAACCACT 58.841 38.462 29.30 5.24 0.00 4.00
2518 2582 7.331193 CCAACTACAGTACTGATTTAACCACTC 59.669 40.741 29.30 0.00 0.00 3.51
2519 2583 6.618811 ACTACAGTACTGATTTAACCACTCG 58.381 40.000 29.30 1.66 0.00 4.18
2520 2584 4.817517 ACAGTACTGATTTAACCACTCGG 58.182 43.478 29.30 0.00 38.77 4.63
2521 2585 3.617263 CAGTACTGATTTAACCACTCGGC 59.383 47.826 18.45 0.00 34.57 5.54
2522 2586 2.851263 ACTGATTTAACCACTCGGCA 57.149 45.000 0.00 0.00 34.57 5.69
2523 2587 3.134574 ACTGATTTAACCACTCGGCAA 57.865 42.857 0.00 0.00 34.57 4.52
2524 2588 3.074412 ACTGATTTAACCACTCGGCAAG 58.926 45.455 0.00 0.00 34.57 4.01
2525 2589 1.810151 TGATTTAACCACTCGGCAAGC 59.190 47.619 0.00 0.00 34.57 4.01
2526 2590 0.802494 ATTTAACCACTCGGCAAGCG 59.198 50.000 0.00 0.00 34.57 4.68
2527 2591 0.533308 TTTAACCACTCGGCAAGCGT 60.533 50.000 0.00 0.00 34.57 5.07
2528 2592 1.225376 TTAACCACTCGGCAAGCGTG 61.225 55.000 0.00 0.00 35.45 5.34
2531 2595 3.414700 CACTCGGCAAGCGTGGTC 61.415 66.667 0.79 0.00 32.24 4.02
2532 2596 3.923864 ACTCGGCAAGCGTGGTCA 61.924 61.111 0.79 0.00 0.00 4.02
2533 2597 3.114616 CTCGGCAAGCGTGGTCAG 61.115 66.667 0.79 0.00 0.00 3.51
2548 2612 4.842531 TGGTCAGCCATCTCATCTTTAA 57.157 40.909 0.00 0.00 40.46 1.52
2549 2613 5.178096 TGGTCAGCCATCTCATCTTTAAA 57.822 39.130 0.00 0.00 40.46 1.52
2550 2614 5.569355 TGGTCAGCCATCTCATCTTTAAAA 58.431 37.500 0.00 0.00 40.46 1.52
2551 2615 6.009589 TGGTCAGCCATCTCATCTTTAAAAA 58.990 36.000 0.00 0.00 40.46 1.94
2591 2667 2.017783 TACGCGAGCGGTGTTGAAC 61.018 57.895 21.69 0.00 44.69 3.18
2605 2681 4.202223 GGTGTTGAACTACAGGAAGTGAGA 60.202 45.833 0.00 0.00 0.00 3.27
2615 2691 5.359194 ACAGGAAGTGAGAAGTTCTGAAA 57.641 39.130 10.90 0.00 0.00 2.69
2679 2755 2.071778 AGCTGTTGAAGGGCAAAAGA 57.928 45.000 0.00 0.00 43.34 2.52
2818 2898 1.440938 CTTTTCCCAACACGCGACCA 61.441 55.000 15.93 0.00 0.00 4.02
2844 2924 5.106277 GGAAAAGGAGGAGGAAATTTACGTG 60.106 44.000 0.00 0.00 0.00 4.49
2853 2933 2.995258 GGAAATTTACGTGCCGTACTCA 59.005 45.455 0.00 0.00 42.13 3.41
2981 3062 7.116075 TGGTGGTAGTGGAGTACATTATTAC 57.884 40.000 0.00 0.00 0.00 1.89
2986 3067 9.128404 TGGTAGTGGAGTACATTATTACTAGTG 57.872 37.037 5.39 0.00 32.17 2.74
2989 3070 8.991783 AGTGGAGTACATTATTACTAGTGCTA 57.008 34.615 5.39 0.00 32.17 3.49
2991 3072 7.802251 GTGGAGTACATTATTACTAGTGCTACG 59.198 40.741 5.39 0.00 32.17 3.51
2996 3077 9.379811 GTACATTATTACTAGTGCTACGTTCTC 57.620 37.037 5.39 0.00 0.00 2.87
2997 3078 8.223177 ACATTATTACTAGTGCTACGTTCTCT 57.777 34.615 5.39 0.00 0.00 3.10
2998 3079 8.344098 ACATTATTACTAGTGCTACGTTCTCTC 58.656 37.037 5.39 0.00 0.00 3.20
2999 3080 8.561212 CATTATTACTAGTGCTACGTTCTCTCT 58.439 37.037 5.39 0.00 0.00 3.10
3000 3081 6.607735 ATTACTAGTGCTACGTTCTCTCTC 57.392 41.667 5.39 0.00 0.00 3.20
3001 3082 4.210724 ACTAGTGCTACGTTCTCTCTCT 57.789 45.455 0.00 0.00 0.00 3.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
93 94 1.650528 AGCTTCACCTAGCACTTCCT 58.349 50.000 0.00 0.00 43.68 3.36
165 166 4.013728 AGTTAGAGGCTAGAGCATATCCG 58.986 47.826 3.54 0.00 44.36 4.18
166 167 5.946972 TGTAGTTAGAGGCTAGAGCATATCC 59.053 44.000 3.54 0.00 44.36 2.59
177 178 9.686683 ATTATTGTTTGAATGTAGTTAGAGGCT 57.313 29.630 0.00 0.00 0.00 4.58
189 190 9.166173 TGAGAGAGGTGTATTATTGTTTGAATG 57.834 33.333 0.00 0.00 0.00 2.67
230 231 2.485814 GGATCCAACTCTCAACTGCAAC 59.514 50.000 6.95 0.00 0.00 4.17
333 334 2.612721 GCATTTGTGAACATTGGGACCC 60.613 50.000 2.45 2.45 0.00 4.46
417 422 7.265673 AGCAAAGCGTCAGAGATTTAATAGTA 58.734 34.615 0.00 0.00 0.00 1.82
418 423 6.109359 AGCAAAGCGTCAGAGATTTAATAGT 58.891 36.000 0.00 0.00 0.00 2.12
419 424 6.595772 AGCAAAGCGTCAGAGATTTAATAG 57.404 37.500 0.00 0.00 0.00 1.73
442 447 8.956426 CAATTCCCTGCTCAAAATTTACTACTA 58.044 33.333 0.00 0.00 0.00 1.82
443 448 7.577616 GCAATTCCCTGCTCAAAATTTACTACT 60.578 37.037 0.00 0.00 39.34 2.57
444 449 6.531594 GCAATTCCCTGCTCAAAATTTACTAC 59.468 38.462 0.00 0.00 39.34 2.73
483 488 2.076863 GTGTTTCAGCGAGCCAATACT 58.923 47.619 0.00 0.00 0.00 2.12
518 523 7.737869 TGTCCCTCTAAAACTTATGTACAACA 58.262 34.615 0.00 0.00 0.00 3.33
583 599 5.428184 ACTGCTAATTTACTCCTTGAGCT 57.572 39.130 0.00 0.00 32.04 4.09
586 602 5.637810 CACGAACTGCTAATTTACTCCTTGA 59.362 40.000 0.00 0.00 0.00 3.02
597 613 1.133025 GCAATGGCACGAACTGCTAAT 59.867 47.619 0.00 0.00 46.25 1.73
614 630 3.294493 GCAAACCGAGCCTGGCAA 61.294 61.111 22.65 0.00 0.00 4.52
616 632 3.741476 CTGCAAACCGAGCCTGGC 61.741 66.667 11.65 11.65 0.00 4.85
625 641 6.973229 AATATTTCAAATGAGCTGCAAACC 57.027 33.333 1.02 0.00 0.00 3.27
659 675 8.203937 TCCCACAAACTTATATTTCACGTATG 57.796 34.615 0.00 0.00 0.00 2.39
660 676 8.795842 TTCCCACAAACTTATATTTCACGTAT 57.204 30.769 0.00 0.00 0.00 3.06
672 697 6.531503 TTCACACATTTTCCCACAAACTTA 57.468 33.333 0.00 0.00 0.00 2.24
679 704 6.084326 ACTTGTATTCACACATTTTCCCAC 57.916 37.500 0.00 0.00 33.30 4.61
682 707 8.641499 TTTGAACTTGTATTCACACATTTTCC 57.359 30.769 0.00 0.00 38.31 3.13
686 711 9.691362 GGTAATTTGAACTTGTATTCACACATT 57.309 29.630 0.00 0.00 38.31 2.71
687 712 8.855110 TGGTAATTTGAACTTGTATTCACACAT 58.145 29.630 0.00 0.00 38.31 3.21
708 737 3.940221 CGGGAAAATTACGTGGATGGTAA 59.060 43.478 0.00 0.00 34.64 2.85
718 747 4.216902 AGTTTTTCTCCCGGGAAAATTACG 59.783 41.667 26.68 11.26 42.38 3.18
719 748 5.717078 AGTTTTTCTCCCGGGAAAATTAC 57.283 39.130 26.68 22.68 42.38 1.89
721 750 5.836898 AGTTAGTTTTTCTCCCGGGAAAATT 59.163 36.000 26.68 20.14 42.38 1.82
741 770 2.248280 TTCTCGCTTGTGGCAAGTTA 57.752 45.000 10.10 0.00 41.91 2.24
748 777 1.927174 CTCCGTAATTCTCGCTTGTGG 59.073 52.381 0.00 0.00 0.00 4.17
752 781 0.527817 CGCCTCCGTAATTCTCGCTT 60.528 55.000 0.00 0.00 0.00 4.68
793 822 0.037790 AGCTGACGCTCACTTTCCTC 60.038 55.000 0.00 0.00 45.15 3.71
802 831 1.588667 GCTGAGCTAGCTGACGCTC 60.589 63.158 24.99 20.82 45.15 5.03
1514 1560 4.196778 TGCAAGAACCCCGGCACA 62.197 61.111 0.00 0.00 0.00 4.57
1527 1573 1.106351 ATGTTGTTGGCCTCGTGCAA 61.106 50.000 3.32 0.00 43.89 4.08
1668 1714 4.115199 GAGCCCGCCCACCTTGAT 62.115 66.667 0.00 0.00 0.00 2.57
1945 1991 1.597027 CCTGGGAGTTTGCGTCGTT 60.597 57.895 0.00 0.00 0.00 3.85
1984 2030 4.953579 AGGTGAAAAGTAAAGTGGCTTTGA 59.046 37.500 4.56 0.00 35.21 2.69
2021 2067 1.803555 GATCTCTACTACGTACGCCCC 59.196 57.143 16.72 0.00 0.00 5.80
2023 2069 3.303659 GGTTGATCTCTACTACGTACGCC 60.304 52.174 16.72 0.00 0.00 5.68
2024 2070 3.603401 CGGTTGATCTCTACTACGTACGC 60.603 52.174 16.72 0.00 0.00 4.42
2025 2071 3.798878 TCGGTTGATCTCTACTACGTACG 59.201 47.826 15.01 15.01 0.00 3.67
2026 2072 4.317698 CGTCGGTTGATCTCTACTACGTAC 60.318 50.000 0.00 0.00 32.07 3.67
2027 2073 3.798878 CGTCGGTTGATCTCTACTACGTA 59.201 47.826 0.00 0.00 32.07 3.57
2029 2075 2.033065 CCGTCGGTTGATCTCTACTACG 60.033 54.545 2.08 10.56 34.19 3.51
2030 2076 2.941720 ACCGTCGGTTGATCTCTACTAC 59.058 50.000 12.23 0.00 27.29 2.73
2031 2077 3.272574 ACCGTCGGTTGATCTCTACTA 57.727 47.619 12.23 0.00 27.29 1.82
2032 2078 2.125773 ACCGTCGGTTGATCTCTACT 57.874 50.000 12.23 0.00 27.29 2.57
2033 2079 2.935481 AACCGTCGGTTGATCTCTAC 57.065 50.000 28.36 0.00 45.07 2.59
2099 2147 0.326048 CCTCACATCACTCCTCCCCT 60.326 60.000 0.00 0.00 0.00 4.79
2200 2255 3.572255 GCAGAACAATCCCCAAGTTGTAA 59.428 43.478 1.45 0.00 37.56 2.41
2205 2260 2.683211 AAGCAGAACAATCCCCAAGT 57.317 45.000 0.00 0.00 0.00 3.16
2313 2373 7.393841 AGGAGAGTATAGTTTGACAGTACAC 57.606 40.000 0.00 0.00 0.00 2.90
2349 2409 4.526970 AGAATACAAACCATGGGCTGTAG 58.473 43.478 24.27 9.74 31.06 2.74
2445 2509 7.772757 CCAGAATATATTCCTAAGCAAGGGATC 59.227 40.741 19.67 0.00 39.80 3.36
2472 2536 0.467804 GCAAAAGGAAACCTTGGGCA 59.532 50.000 16.29 0.00 43.92 5.36
2485 2549 4.385825 TCAGTACTGTAGTTGGGCAAAAG 58.614 43.478 21.99 0.00 0.00 2.27
2493 2557 7.061905 CGAGTGGTTAAATCAGTACTGTAGTTG 59.938 40.741 21.99 0.00 0.00 3.16
2496 2560 6.034591 CCGAGTGGTTAAATCAGTACTGTAG 58.965 44.000 21.99 0.00 0.00 2.74
2503 2567 2.851263 TGCCGAGTGGTTAAATCAGT 57.149 45.000 0.00 0.00 37.67 3.41
2504 2568 2.159517 GCTTGCCGAGTGGTTAAATCAG 60.160 50.000 0.00 0.00 37.67 2.90
2505 2569 1.810151 GCTTGCCGAGTGGTTAAATCA 59.190 47.619 0.00 0.00 37.67 2.57
2506 2570 1.202031 CGCTTGCCGAGTGGTTAAATC 60.202 52.381 0.00 0.00 40.02 2.17
2507 2571 0.802494 CGCTTGCCGAGTGGTTAAAT 59.198 50.000 0.00 0.00 40.02 1.40
2508 2572 0.533308 ACGCTTGCCGAGTGGTTAAA 60.533 50.000 0.00 0.00 40.26 1.52
2509 2573 1.070105 ACGCTTGCCGAGTGGTTAA 59.930 52.632 0.00 0.00 40.26 2.01
2510 2574 1.666553 CACGCTTGCCGAGTGGTTA 60.667 57.895 0.00 0.00 39.43 2.85
2511 2575 2.972505 CACGCTTGCCGAGTGGTT 60.973 61.111 0.00 0.00 39.43 3.67
2514 2578 3.414700 GACCACGCTTGCCGAGTG 61.415 66.667 0.00 0.00 42.29 3.51
2515 2579 3.865929 CTGACCACGCTTGCCGAGT 62.866 63.158 0.00 0.00 41.02 4.18
2516 2580 3.114616 CTGACCACGCTTGCCGAG 61.115 66.667 0.00 0.00 41.02 4.63
2528 2592 6.515272 TTTTTAAAGATGAGATGGCTGACC 57.485 37.500 0.00 0.00 0.00 4.02
2551 2615 8.066000 GCGTACAAAATCAGTACTGTACTTTTT 58.934 33.333 21.99 17.83 41.18 1.94
2552 2616 7.568134 CGCGTACAAAATCAGTACTGTACTTTT 60.568 37.037 21.99 20.05 41.18 2.27
2553 2617 6.129009 CGCGTACAAAATCAGTACTGTACTTT 60.129 38.462 21.99 16.13 41.18 2.66
2554 2618 5.344128 CGCGTACAAAATCAGTACTGTACTT 59.656 40.000 21.99 11.56 41.18 2.24
2591 2667 5.713792 TCAGAACTTCTCACTTCCTGTAG 57.286 43.478 0.00 0.00 0.00 2.74
2657 2733 1.039856 TTTGCCCTTCAACAGCTTCC 58.960 50.000 0.00 0.00 33.73 3.46
2754 2834 6.952773 TGTGTTGACCTTTAAACTAAGCAT 57.047 33.333 0.00 0.00 0.00 3.79
2755 2835 6.761099 TTGTGTTGACCTTTAAACTAAGCA 57.239 33.333 0.00 0.00 0.00 3.91
2818 2898 5.652452 CGTAAATTTCCTCCTCCTTTTCCAT 59.348 40.000 0.00 0.00 0.00 3.41
2853 2933 4.547532 GTCTACTGTTTGACACATCTCGT 58.452 43.478 8.19 0.00 33.76 4.18
2864 2944 1.897398 GCGGTGGCGTCTACTGTTTG 61.897 60.000 0.00 0.00 0.00 2.93


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

AutoCloner maintained by Alex Coulton.