Multiple sequence alignment - TraesCS1B01G383700

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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 TraesCS1B01G383700 chr1B 100.000 3356 0 0 1 3356 615731010 615734365 0.000000e+00 6198.0
1 TraesCS1B01G383700 chr1B 88.661 635 51 6 1515 2149 615744803 615744190 0.000000e+00 754.0
2 TraesCS1B01G383700 chr1B 92.683 492 36 0 1515 2006 615582125 615582616 0.000000e+00 710.0
3 TraesCS1B01G383700 chr1B 80.041 977 78 53 540 1425 615624946 615625896 1.710000e-172 616.0
4 TraesCS1B01G383700 chr1B 84.595 370 36 8 164 512 615624583 615624952 6.890000e-92 348.0
5 TraesCS1B01G383700 chr1B 89.655 87 5 1 1001 1083 615581609 615581695 1.270000e-19 108.0
6 TraesCS1B01G383700 chr1B 80.172 116 14 2 12 126 615599550 615599657 9.980000e-11 78.7
7 TraesCS1B01G383700 chr1A 89.742 1472 106 21 1499 2957 545000580 545002019 0.000000e+00 1840.0
8 TraesCS1B01G383700 chr1A 88.583 727 69 10 1282 2006 544927966 544928680 0.000000e+00 870.0
9 TraesCS1B01G383700 chr1A 88.048 661 64 9 1500 2151 545009127 545008473 0.000000e+00 769.0
10 TraesCS1B01G383700 chr1A 92.169 498 39 0 1508 2005 544748680 544749177 0.000000e+00 704.0
11 TraesCS1B01G383700 chr1A 87.599 629 50 15 870 1489 544999908 545000517 0.000000e+00 704.0
12 TraesCS1B01G383700 chr1A 83.595 701 73 22 1518 2192 545299258 545298574 1.320000e-173 619.0
13 TraesCS1B01G383700 chr1A 94.983 299 12 3 1129 1426 544748274 544748570 1.820000e-127 466.0
14 TraesCS1B01G383700 chr1A 83.333 372 38 16 164 512 544765357 544764987 4.180000e-84 322.0
15 TraesCS1B01G383700 chr1A 82.864 391 28 10 870 1230 544927584 544927965 6.990000e-82 315.0
16 TraesCS1B01G383700 chr1A 85.551 263 28 8 259 512 544999317 544999578 1.990000e-67 267.0
17 TraesCS1B01G383700 chr1A 83.746 283 17 9 3018 3297 545002017 545002273 1.200000e-59 241.0
18 TraesCS1B01G383700 chr1A 79.467 375 35 15 164 512 544747378 544747736 9.370000e-56 228.0
19 TraesCS1B01G383700 chr1A 90.789 152 9 3 870 1016 544748034 544748185 7.340000e-47 198.0
20 TraesCS1B01G383700 chr1A 91.111 90 7 1 649 737 544764906 544764817 1.640000e-23 121.0
21 TraesCS1B01G383700 chr1A 90.909 77 7 0 653 729 544747802 544747878 1.650000e-18 104.0
22 TraesCS1B01G383700 chr1D 91.445 1239 71 15 1499 2720 449847233 449848453 0.000000e+00 1668.0
23 TraesCS1B01G383700 chr1D 88.200 1178 91 17 870 2006 449660094 449661264 0.000000e+00 1362.0
24 TraesCS1B01G383700 chr1D 86.865 1241 99 31 812 2006 449674295 449675517 0.000000e+00 1330.0
25 TraesCS1B01G383700 chr1D 89.490 647 53 9 1508 2151 449923220 449922586 0.000000e+00 804.0
26 TraesCS1B01G383700 chr1D 86.083 697 63 13 1518 2192 450044830 450044146 0.000000e+00 719.0
27 TraesCS1B01G383700 chr1D 88.130 615 37 16 870 1459 449846549 449847152 0.000000e+00 699.0
28 TraesCS1B01G383700 chr1D 90.432 533 32 9 1 515 449749657 449750188 0.000000e+00 684.0
29 TraesCS1B01G383700 chr1D 87.879 528 42 6 915 1426 449923838 449923317 4.790000e-168 601.0
30 TraesCS1B01G383700 chr1D 88.729 417 22 13 2762 3162 449848459 449848866 1.400000e-133 486.0
31 TraesCS1B01G383700 chr1D 85.837 466 43 14 1001 1459 449983577 449983128 1.090000e-129 473.0
32 TraesCS1B01G383700 chr1D 87.799 418 30 11 1023 1426 449752500 449752910 1.410000e-128 470.0
33 TraesCS1B01G383700 chr1D 88.258 264 17 5 164 413 449673760 449674023 1.510000e-78 303.0
34 TraesCS1B01G383700 chr1D 93.717 191 10 1 3168 3356 449848906 449849096 5.480000e-73 285.0
35 TraesCS1B01G383700 chr1D 81.373 306 32 12 715 1016 449750824 449751108 3.370000e-55 226.0
36 TraesCS1B01G383700 chr1D 82.414 290 16 13 164 428 449656791 449657070 1.570000e-53 220.0
37 TraesCS1B01G383700 chr1D 84.699 183 14 9 611 785 449845759 449845935 1.600000e-38 171.0
38 TraesCS1B01G383700 chr1D 81.481 135 12 6 658 781 449674107 449674239 7.660000e-17 99.0
39 TraesCS1B01G383700 chr1D 84.043 94 12 2 2022 2112 449661322 449661415 1.660000e-13 87.9


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 TraesCS1B01G383700 chr1B 615731010 615734365 3355 False 6198.000000 6198 100.000000 1 3356 1 chr1B.!!$F2 3355
1 TraesCS1B01G383700 chr1B 615744190 615744803 613 True 754.000000 754 88.661000 1515 2149 1 chr1B.!!$R1 634
2 TraesCS1B01G383700 chr1B 615624583 615625896 1313 False 482.000000 616 82.318000 164 1425 2 chr1B.!!$F4 1261
3 TraesCS1B01G383700 chr1B 615581609 615582616 1007 False 409.000000 710 91.169000 1001 2006 2 chr1B.!!$F3 1005
4 TraesCS1B01G383700 chr1A 545008473 545009127 654 True 769.000000 769 88.048000 1500 2151 1 chr1A.!!$R1 651
5 TraesCS1B01G383700 chr1A 544999317 545002273 2956 False 763.000000 1840 86.659500 259 3297 4 chr1A.!!$F3 3038
6 TraesCS1B01G383700 chr1A 545298574 545299258 684 True 619.000000 619 83.595000 1518 2192 1 chr1A.!!$R2 674
7 TraesCS1B01G383700 chr1A 544927584 544928680 1096 False 592.500000 870 85.723500 870 2006 2 chr1A.!!$F2 1136
8 TraesCS1B01G383700 chr1A 544747378 544749177 1799 False 340.000000 704 89.663400 164 2005 5 chr1A.!!$F1 1841
9 TraesCS1B01G383700 chr1A 544764817 544765357 540 True 221.500000 322 87.222000 164 737 2 chr1A.!!$R3 573
10 TraesCS1B01G383700 chr1D 450044146 450044830 684 True 719.000000 719 86.083000 1518 2192 1 chr1D.!!$R2 674
11 TraesCS1B01G383700 chr1D 449922586 449923838 1252 True 702.500000 804 88.684500 915 2151 2 chr1D.!!$R3 1236
12 TraesCS1B01G383700 chr1D 449845759 449849096 3337 False 661.800000 1668 89.344000 611 3356 5 chr1D.!!$F4 2745
13 TraesCS1B01G383700 chr1D 449673760 449675517 1757 False 577.333333 1330 85.534667 164 2006 3 chr1D.!!$F2 1842
14 TraesCS1B01G383700 chr1D 449656791 449661415 4624 False 556.633333 1362 84.885667 164 2112 3 chr1D.!!$F1 1948
15 TraesCS1B01G383700 chr1D 449749657 449752910 3253 False 460.000000 684 86.534667 1 1426 3 chr1D.!!$F3 1425

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
797 3822 0.108019 AAAGTCACGTCCCCAAGACC 59.892 55.0 0.0 0.0 43.08 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2413 7823 0.108615 CGGGACACATCACTGAGGTC 60.109 60.0 0.0 0.0 32.9 3.85 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
26 27 2.606108 TCGACCGTGATTGTGAGATTG 58.394 47.619 0.00 0.00 0.00 2.67
62 64 3.304190 CCGGGCAGCGGTAAATTAATTAC 60.304 47.826 0.01 0.90 42.68 1.89
68 72 5.049198 GCAGCGGTAAATTAATTACTACCCC 60.049 44.000 17.69 11.98 42.93 4.95
71 75 4.996758 CGGTAAATTAATTACTACCCCCGG 59.003 45.833 17.69 0.00 42.93 5.73
89 93 3.422303 GACGCCATTGTCGCTGCA 61.422 61.111 0.00 0.00 0.00 4.41
166 176 1.539712 GGTAATTTCTACTCCGGCCCG 60.540 57.143 0.00 0.00 0.00 6.13
300 333 2.336945 TTGACTAGGTCCGAGCGATA 57.663 50.000 0.00 0.00 0.00 2.92
405 443 1.797046 CATGCACTCGTATCAGATGGC 59.203 52.381 0.00 0.00 0.00 4.40
406 444 0.249031 TGCACTCGTATCAGATGGCG 60.249 55.000 0.00 0.00 0.00 5.69
409 447 1.065551 CACTCGTATCAGATGGCGTGA 59.934 52.381 14.19 0.00 0.00 4.35
410 448 1.749063 ACTCGTATCAGATGGCGTGAA 59.251 47.619 14.19 0.00 0.00 3.18
411 449 2.223595 ACTCGTATCAGATGGCGTGAAG 60.224 50.000 14.19 6.58 0.00 3.02
512 2986 3.067320 TGACCTGATGAGCAGTAATCTCG 59.933 47.826 0.00 0.00 43.33 4.04
513 2987 3.291584 ACCTGATGAGCAGTAATCTCGA 58.708 45.455 0.00 0.00 43.33 4.04
514 2988 3.894427 ACCTGATGAGCAGTAATCTCGAT 59.106 43.478 0.00 0.00 43.33 3.59
515 2989 4.343526 ACCTGATGAGCAGTAATCTCGATT 59.656 41.667 0.00 0.00 43.33 3.34
516 2990 5.163364 ACCTGATGAGCAGTAATCTCGATTT 60.163 40.000 0.00 0.00 43.33 2.17
517 2991 5.757320 CCTGATGAGCAGTAATCTCGATTTT 59.243 40.000 0.00 0.00 43.33 1.82
518 2992 6.259608 CCTGATGAGCAGTAATCTCGATTTTT 59.740 38.462 0.00 0.00 43.33 1.94
519 2993 7.439356 CCTGATGAGCAGTAATCTCGATTTTTA 59.561 37.037 0.00 0.00 43.33 1.52
520 2994 8.893219 TGATGAGCAGTAATCTCGATTTTTAT 57.107 30.769 0.00 0.00 33.41 1.40
521 2995 8.982685 TGATGAGCAGTAATCTCGATTTTTATC 58.017 33.333 0.00 0.00 33.41 1.75
522 2996 7.715265 TGAGCAGTAATCTCGATTTTTATCC 57.285 36.000 0.00 0.00 33.41 2.59
523 2997 7.500992 TGAGCAGTAATCTCGATTTTTATCCT 58.499 34.615 0.00 0.00 33.41 3.24
524 2998 7.653713 TGAGCAGTAATCTCGATTTTTATCCTC 59.346 37.037 0.00 0.00 33.41 3.71
525 2999 7.500992 AGCAGTAATCTCGATTTTTATCCTCA 58.499 34.615 0.00 0.00 32.50 3.86
526 3000 7.987458 AGCAGTAATCTCGATTTTTATCCTCAA 59.013 33.333 0.00 0.00 32.50 3.02
527 3001 8.612619 GCAGTAATCTCGATTTTTATCCTCAAA 58.387 33.333 0.00 0.00 32.50 2.69
569 3046 6.150641 TCTCTTTCTCAGCTGAAAAATCATGG 59.849 38.462 18.85 5.19 35.79 3.66
570 3047 4.445452 TTCTCAGCTGAAAAATCATGGC 57.555 40.909 18.85 0.00 0.00 4.40
572 3049 4.021229 TCTCAGCTGAAAAATCATGGCAT 58.979 39.130 18.85 0.00 0.00 4.40
632 3109 2.607635 TGACGCGATTCTTAATTGCTCC 59.392 45.455 15.93 3.10 44.50 4.70
633 3110 2.866762 GACGCGATTCTTAATTGCTCCT 59.133 45.455 15.93 0.00 44.50 3.69
634 3111 2.609459 ACGCGATTCTTAATTGCTCCTG 59.391 45.455 15.93 0.00 44.50 3.86
635 3112 2.609459 CGCGATTCTTAATTGCTCCTGT 59.391 45.455 0.00 0.00 44.50 4.00
643 3125 0.896940 AATTGCTCCTGTGCCACTGG 60.897 55.000 14.13 14.13 38.41 4.00
645 3127 3.640407 GCTCCTGTGCCACTGGGA 61.640 66.667 19.24 13.80 37.74 4.37
647 3129 1.626356 GCTCCTGTGCCACTGGGATA 61.626 60.000 19.24 1.14 37.74 2.59
794 3819 0.396811 AGGAAAGTCACGTCCCCAAG 59.603 55.000 0.00 0.00 34.13 3.61
796 3821 1.509703 GAAAGTCACGTCCCCAAGAC 58.490 55.000 0.00 0.00 42.54 3.01
797 3822 0.108019 AAAGTCACGTCCCCAAGACC 59.892 55.000 0.00 0.00 43.08 3.85
798 3823 1.765597 AAGTCACGTCCCCAAGACCC 61.766 60.000 0.00 0.00 43.08 4.46
799 3824 2.926242 TCACGTCCCCAAGACCCC 60.926 66.667 0.00 0.00 43.08 4.95
800 3825 3.246112 CACGTCCCCAAGACCCCA 61.246 66.667 0.00 0.00 43.08 4.96
801 3826 2.448931 ACGTCCCCAAGACCCCAA 60.449 61.111 0.00 0.00 43.08 4.12
802 3827 2.033602 CGTCCCCAAGACCCCAAC 59.966 66.667 0.00 0.00 43.08 3.77
803 3828 2.439245 GTCCCCAAGACCCCAACC 59.561 66.667 0.00 0.00 39.84 3.77
832 4395 1.883275 ACACCTTCTCTCTCTGACACG 59.117 52.381 0.00 0.00 0.00 4.49
854 4451 2.043450 CCCGGCTGTCTCTCCTCT 60.043 66.667 0.00 0.00 0.00 3.69
856 4453 1.379176 CCGGCTGTCTCTCCTCTCA 60.379 63.158 0.00 0.00 0.00 3.27
866 4463 2.540910 TCCTCTCACCCCTCCCCT 60.541 66.667 0.00 0.00 0.00 4.79
868 4465 2.641746 CCTCTCACCCCTCCCCTCT 61.642 68.421 0.00 0.00 0.00 3.69
964 4783 1.436195 CTCACTCCCTCTCTCTCGCG 61.436 65.000 0.00 0.00 0.00 5.87
1071 6293 3.450817 TCCATCATACCGATCGCCATTAT 59.549 43.478 10.32 0.43 29.21 1.28
1100 6339 3.188786 GGCGTTGCCTAGCTCGTG 61.189 66.667 0.00 0.00 46.69 4.35
1351 6595 2.042230 AACTACCTCCGCCCCGAT 60.042 61.111 0.00 0.00 0.00 4.18
1394 6638 1.267574 GCAGGAGGAGGACCACATCA 61.268 60.000 5.94 0.00 38.94 3.07
1405 6649 1.596203 CCACATCATCGCGCTCCAT 60.596 57.895 5.56 0.00 0.00 3.41
1463 6707 1.600164 GCAGTGCAATGCGTTCTTCAA 60.600 47.619 24.52 0.00 36.28 2.69
1465 6709 2.659757 CAGTGCAATGCGTTCTTCAATG 59.340 45.455 0.00 0.00 0.00 2.82
1512 6819 4.033990 TCTTCAGATACTGATGCGTGTC 57.966 45.455 2.30 0.00 40.39 3.67
1611 6918 0.460987 ATCAAGAAGAAGCTCCGGCG 60.461 55.000 0.00 0.00 44.37 6.46
1650 6957 2.865598 CGCACAAACCCATGGCCAA 61.866 57.895 10.96 0.00 0.00 4.52
1924 7248 0.965866 TGCTGGACGTCTCCGAGAAT 60.966 55.000 16.46 0.00 39.88 2.40
2101 7495 0.398318 AGAGCCTCCTCGCAAGTTTT 59.602 50.000 0.00 0.00 43.05 2.43
2307 7709 1.065551 TCACAGAGACGACACACAGTG 59.934 52.381 0.00 0.00 39.75 3.66
2313 7715 1.215655 GACGACACACAGTGCAGTCC 61.216 60.000 16.90 4.86 37.32 3.85
2345 7747 5.051574 CGTACACGAGAACATTGTTGTGTAA 60.052 40.000 22.61 11.49 46.48 2.41
2346 7748 5.804692 ACACGAGAACATTGTTGTGTAAA 57.195 34.783 17.63 0.00 44.44 2.01
2347 7749 5.806286 ACACGAGAACATTGTTGTGTAAAG 58.194 37.500 17.63 3.14 44.44 1.85
2350 7753 6.844279 CACGAGAACATTGTTGTGTAAAGTAC 59.156 38.462 6.80 0.00 35.83 2.73
2412 7822 2.098280 AGTACTCTGCATGCTACTGACG 59.902 50.000 20.33 8.31 0.00 4.35
2413 7823 0.174389 ACTCTGCATGCTACTGACGG 59.826 55.000 20.33 4.22 0.00 4.79
2414 7824 0.457443 CTCTGCATGCTACTGACGGA 59.543 55.000 20.33 0.00 0.00 4.69
2415 7825 0.173481 TCTGCATGCTACTGACGGAC 59.827 55.000 20.33 0.00 0.00 4.79
2431 7841 0.250513 GGACCTCAGTGATGTGTCCC 59.749 60.000 18.95 7.04 39.65 4.46
2441 7851 1.695242 TGATGTGTCCCGGTGTACTTT 59.305 47.619 0.00 0.00 0.00 2.66
2534 7946 3.928992 GCTTTAGCCTTTTCCAGATTTGC 59.071 43.478 0.00 0.00 34.31 3.68
2681 8100 7.649057 AGAAAATTAACACGAGGAAGAAAAGG 58.351 34.615 0.00 0.00 0.00 3.11
2686 8105 1.532868 CACGAGGAAGAAAAGGCAGTG 59.467 52.381 0.00 0.00 0.00 3.66
2688 8107 1.879796 CGAGGAAGAAAAGGCAGTGCT 60.880 52.381 16.11 0.00 0.00 4.40
2760 8179 4.735132 CCACGACGTCCATGGCGT 62.735 66.667 26.88 26.88 45.86 5.68
2817 8236 1.755008 GGAGGACGGAGAGGGACAG 60.755 68.421 0.00 0.00 0.00 3.51
2923 8342 1.107945 CATGCCATGATTGGAGCACA 58.892 50.000 0.00 0.00 46.92 4.57
2970 8389 0.802607 GCGACGAGGGTCTCACATTC 60.803 60.000 0.00 0.00 41.16 2.67
2997 8416 1.067821 GTACCAGAAGCGGATCAGAGG 59.932 57.143 0.00 0.00 0.00 3.69
3147 8582 3.766691 GGCGACGTAGGGGAAGCA 61.767 66.667 0.00 0.00 0.00 3.91
3164 8599 1.961277 CACAGACCACCCAGCGTTC 60.961 63.158 0.00 0.00 0.00 3.95
3166 8601 1.071471 CAGACCACCCAGCGTTCTT 59.929 57.895 0.00 0.00 0.00 2.52
3167 8602 1.071471 AGACCACCCAGCGTTCTTG 59.929 57.895 0.00 0.00 0.00 3.02
3168 8603 2.594592 ACCACCCAGCGTTCTTGC 60.595 61.111 0.00 0.00 0.00 4.01
3169 8604 3.726517 CCACCCAGCGTTCTTGCG 61.727 66.667 0.00 0.00 40.67 4.85
3177 8612 3.834373 CGTTCTTGCGCCGTACCG 61.834 66.667 4.18 0.00 0.00 4.02
3227 8716 0.179156 GCATGTGCGCAGTTAAGCAT 60.179 50.000 12.22 6.74 45.69 3.79
3322 8813 2.804572 CGAGATGAAGCGTGGATGGAAT 60.805 50.000 0.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 2.337583 ACAATCTCACAATCACGGTCG 58.662 47.619 0.00 0.00 0.00 4.79
17 18 0.107703 GCCCCATCGACAATCTCACA 60.108 55.000 0.00 0.00 0.00 3.58
52 54 4.444733 CGTCCCGGGGGTAGTAATTAATTT 60.445 45.833 23.50 0.00 36.47 1.82
71 75 4.166011 GCAGCGACAATGGCGTCC 62.166 66.667 11.20 0.00 35.00 4.79
84 88 2.334946 TTTGCTCCGTGGATGCAGC 61.335 57.895 0.00 0.00 38.01 5.25
89 93 0.400213 TTCCTGTTTGCTCCGTGGAT 59.600 50.000 0.00 0.00 0.00 3.41
134 144 3.609853 AGAAATTACCAAGCTCGATGCA 58.390 40.909 9.09 0.00 45.94 3.96
146 156 1.539712 CGGGCCGGAGTAGAAATTACC 60.540 57.143 20.56 0.00 0.00 2.85
166 176 1.569479 GCACTGTCGTTCCAGAAGCC 61.569 60.000 6.53 0.00 36.30 4.35
360 393 0.232303 CAAACAACGTCTCGTCTGCC 59.768 55.000 0.00 0.00 39.99 4.85
368 401 2.203437 GGGGGCCAAACAACGTCT 60.203 61.111 4.39 0.00 0.00 4.18
527 3001 8.759481 AGAAAGAGAGATCACCTTTTCTTTTT 57.241 30.769 11.25 5.20 38.28 1.94
528 3002 7.995488 TGAGAAAGAGAGATCACCTTTTCTTTT 59.005 33.333 15.55 1.00 38.28 2.27
529 3003 7.512992 TGAGAAAGAGAGATCACCTTTTCTTT 58.487 34.615 15.55 10.87 39.57 2.52
530 3004 7.072263 TGAGAAAGAGAGATCACCTTTTCTT 57.928 36.000 15.55 4.51 33.38 2.52
531 3005 6.678568 TGAGAAAGAGAGATCACCTTTTCT 57.321 37.500 14.82 14.82 31.06 2.52
532 3006 5.351189 GCTGAGAAAGAGAGATCACCTTTTC 59.649 44.000 0.00 2.51 31.06 2.29
533 3007 5.012975 AGCTGAGAAAGAGAGATCACCTTTT 59.987 40.000 0.00 0.00 31.06 2.27
534 3008 4.531732 AGCTGAGAAAGAGAGATCACCTTT 59.468 41.667 0.00 1.10 33.32 3.11
535 3009 4.081531 CAGCTGAGAAAGAGAGATCACCTT 60.082 45.833 8.42 0.00 0.00 3.50
536 3010 3.448301 CAGCTGAGAAAGAGAGATCACCT 59.552 47.826 8.42 0.00 0.00 4.00
537 3011 3.446873 TCAGCTGAGAAAGAGAGATCACC 59.553 47.826 13.74 0.00 0.00 4.02
538 3012 4.717233 TCAGCTGAGAAAGAGAGATCAC 57.283 45.455 13.74 0.00 0.00 3.06
539 3013 5.735285 TTTCAGCTGAGAAAGAGAGATCA 57.265 39.130 17.43 0.00 32.88 2.92
540 3014 7.333921 TGATTTTTCAGCTGAGAAAGAGAGATC 59.666 37.037 29.34 22.38 38.60 2.75
541 3015 7.166851 TGATTTTTCAGCTGAGAAAGAGAGAT 58.833 34.615 29.34 16.60 38.60 2.75
542 3016 6.528321 TGATTTTTCAGCTGAGAAAGAGAGA 58.472 36.000 29.34 12.47 38.60 3.10
543 3017 6.798315 TGATTTTTCAGCTGAGAAAGAGAG 57.202 37.500 29.34 0.00 38.60 3.20
544 3018 6.150641 CCATGATTTTTCAGCTGAGAAAGAGA 59.849 38.462 29.34 19.01 38.60 3.10
545 3019 6.323266 CCATGATTTTTCAGCTGAGAAAGAG 58.677 40.000 29.34 20.18 38.60 2.85
546 3020 5.336213 GCCATGATTTTTCAGCTGAGAAAGA 60.336 40.000 29.34 21.23 38.60 2.52
547 3021 4.863131 GCCATGATTTTTCAGCTGAGAAAG 59.137 41.667 29.34 19.55 38.60 2.62
591 3068 6.025896 CGTCACGACAGTACACTAATAATGT 58.974 40.000 0.00 0.00 36.14 2.71
632 3109 0.035152 TTGCTATCCCAGTGGCACAG 60.035 55.000 21.41 12.22 41.80 3.66
633 3110 0.403655 TTTGCTATCCCAGTGGCACA 59.596 50.000 21.41 0.00 34.30 4.57
634 3111 1.098050 CTTTGCTATCCCAGTGGCAC 58.902 55.000 10.29 10.29 34.30 5.01
635 3112 0.680921 GCTTTGCTATCCCAGTGGCA 60.681 55.000 2.61 0.00 0.00 4.92
643 3125 1.026718 ACCTGCGTGCTTTGCTATCC 61.027 55.000 0.00 0.00 0.00 2.59
645 3127 1.026718 GGACCTGCGTGCTTTGCTAT 61.027 55.000 0.00 0.00 0.00 2.97
647 3129 2.980233 GGACCTGCGTGCTTTGCT 60.980 61.111 0.00 0.00 0.00 3.91
670 3152 0.037590 AACGGTAGCCCATCAAAGCA 59.962 50.000 0.00 0.00 0.00 3.91
673 3155 0.322997 CCCAACGGTAGCCCATCAAA 60.323 55.000 0.00 0.00 0.00 2.69
794 3819 2.203582 GTGGGGTTGGTTGGGGTC 60.204 66.667 0.00 0.00 0.00 4.46
796 3821 2.523168 GTGTGGGGTTGGTTGGGG 60.523 66.667 0.00 0.00 0.00 4.96
797 3822 2.131067 GTGTGTGGGGTTGGTTGGG 61.131 63.158 0.00 0.00 0.00 4.12
798 3823 2.131067 GGTGTGTGGGGTTGGTTGG 61.131 63.158 0.00 0.00 0.00 3.77
799 3824 0.686112 AAGGTGTGTGGGGTTGGTTG 60.686 55.000 0.00 0.00 0.00 3.77
800 3825 0.396556 GAAGGTGTGTGGGGTTGGTT 60.397 55.000 0.00 0.00 0.00 3.67
801 3826 1.229076 GAAGGTGTGTGGGGTTGGT 59.771 57.895 0.00 0.00 0.00 3.67
802 3827 0.537371 GAGAAGGTGTGTGGGGTTGG 60.537 60.000 0.00 0.00 0.00 3.77
803 3828 0.474184 AGAGAAGGTGTGTGGGGTTG 59.526 55.000 0.00 0.00 0.00 3.77
854 4451 4.741239 GGCAGAGGGGAGGGGTGA 62.741 72.222 0.00 0.00 0.00 4.02
868 4465 3.215568 CACCTGCGGTTTGTGGCA 61.216 61.111 0.00 0.00 31.02 4.92
964 4783 0.603975 AAGAACCGCAAGCTCACTCC 60.604 55.000 0.00 0.00 0.00 3.85
1071 6293 1.445410 CAACGCCGACGGATTGAGA 60.445 57.895 20.50 0.00 46.04 3.27
1100 6339 1.525941 CCTCGTAGCTAGCTACTCCC 58.474 60.000 38.62 21.86 44.80 4.30
1394 6638 1.184322 AGGATCTGATGGAGCGCGAT 61.184 55.000 12.10 1.23 0.00 4.58
1405 6649 0.904865 ACCTGTTGCCGAGGATCTGA 60.905 55.000 0.00 0.00 34.37 3.27
1481 6725 7.201776 GCATCAGTATCTGAAGAAGACTGACTA 60.202 40.741 21.52 8.37 45.52 2.59
1490 6771 4.424626 GACACGCATCAGTATCTGAAGAA 58.575 43.478 3.58 0.00 44.04 2.52
1491 6772 3.181486 GGACACGCATCAGTATCTGAAGA 60.181 47.826 3.58 0.00 44.04 2.87
1494 6775 1.065551 CGGACACGCATCAGTATCTGA 59.934 52.381 1.92 1.92 44.99 3.27
1495 6776 1.481240 CGGACACGCATCAGTATCTG 58.519 55.000 0.00 0.00 0.00 2.90
1685 7009 1.405661 GGGCTTACGGTCTTCCTCTTG 60.406 57.143 0.00 0.00 0.00 3.02
1924 7248 2.279073 CTCTCCCCGTAGCCCAGA 59.721 66.667 0.00 0.00 0.00 3.86
2052 7446 2.050985 GCAGCGACAACTTGTGCC 60.051 61.111 0.00 0.00 0.00 5.01
2101 7495 5.365025 TGGTTCCAATTCCAAGTTGAAATCA 59.635 36.000 3.87 0.00 0.00 2.57
2171 7566 3.181445 TGGGTGGGAATCGAGATAATTGG 60.181 47.826 0.00 0.00 0.00 3.16
2172 7567 3.815401 GTGGGTGGGAATCGAGATAATTG 59.185 47.826 0.00 0.00 0.00 2.32
2278 7680 4.270084 GTGTCGTCTCTGTGAAAATCAACA 59.730 41.667 0.00 0.00 0.00 3.33
2307 7709 1.064357 GTGTACGAGCTCTAGGACTGC 59.936 57.143 12.85 0.00 0.00 4.40
2375 7778 7.710907 TGCAGAGTACTAATGGTATCAATGTTC 59.289 37.037 0.00 0.00 32.56 3.18
2382 7785 5.788450 AGCATGCAGAGTACTAATGGTATC 58.212 41.667 21.98 0.00 32.32 2.24
2383 7786 5.815233 AGCATGCAGAGTACTAATGGTAT 57.185 39.130 21.98 0.00 32.32 2.73
2385 7788 4.651503 AGTAGCATGCAGAGTACTAATGGT 59.348 41.667 21.98 6.34 35.64 3.55
2386 7789 4.987285 CAGTAGCATGCAGAGTACTAATGG 59.013 45.833 21.98 3.33 0.00 3.16
2387 7790 5.689514 GTCAGTAGCATGCAGAGTACTAATG 59.310 44.000 21.98 10.90 31.94 1.90
2389 7792 4.201920 CGTCAGTAGCATGCAGAGTACTAA 60.202 45.833 21.98 1.75 0.00 2.24
2412 7822 0.250513 GGGACACATCACTGAGGTCC 59.749 60.000 14.63 14.63 43.45 4.46
2413 7823 0.108615 CGGGACACATCACTGAGGTC 60.109 60.000 0.00 0.00 32.90 3.85
2414 7824 1.544825 CCGGGACACATCACTGAGGT 61.545 60.000 0.00 0.00 0.00 3.85
2415 7825 1.219124 CCGGGACACATCACTGAGG 59.781 63.158 0.00 0.00 0.00 3.86
2451 7863 4.974645 AGCCTCCATCGGACAATTATTA 57.025 40.909 0.00 0.00 0.00 0.98
2459 7871 2.892425 CGCAAGCCTCCATCGGAC 60.892 66.667 0.00 0.00 0.00 4.79
2460 7872 3.390521 ACGCAAGCCTCCATCGGA 61.391 61.111 0.00 0.00 45.62 4.55
2461 7873 3.197790 CACGCAAGCCTCCATCGG 61.198 66.667 0.00 0.00 45.62 4.18
2572 7984 2.049248 TTCGTCAACCGCCGTACC 60.049 61.111 0.00 0.00 36.19 3.34
2669 8088 1.902938 AGCACTGCCTTTTCTTCCTC 58.097 50.000 0.00 0.00 0.00 3.71
2681 8100 0.512952 CCACGTTGAAGTAGCACTGC 59.487 55.000 0.00 0.00 0.00 4.40
2686 8105 2.166664 AGGATCTCCACGTTGAAGTAGC 59.833 50.000 0.00 0.00 38.89 3.58
2720 8139 2.391389 GCCGAAAGAGACCTTGCCG 61.391 63.158 0.00 0.00 31.91 5.69
2721 8140 2.041115 GGCCGAAAGAGACCTTGCC 61.041 63.158 0.00 0.00 33.61 4.52
2759 8178 4.864334 CCGATCTGCAGGCCCCAC 62.864 72.222 15.13 0.00 0.00 4.61
2762 8181 4.899239 CGACCGATCTGCAGGCCC 62.899 72.222 15.13 2.34 0.00 5.80
2763 8182 4.148825 ACGACCGATCTGCAGGCC 62.149 66.667 15.13 0.00 0.00 5.19
2764 8183 2.887568 CACGACCGATCTGCAGGC 60.888 66.667 15.13 5.63 0.00 4.85
2804 8223 1.000646 GTCCTCTGTCCCTCTCCGT 60.001 63.158 0.00 0.00 0.00 4.69
2817 8236 1.896694 CTGGAGCAGTGGAGTCCTC 59.103 63.158 11.33 6.96 0.00 3.71
2870 8289 1.305201 GCGACGATCTCTTCTCTCCT 58.695 55.000 0.00 0.00 0.00 3.69
2970 8389 1.153823 CGCTTCTGGTACCACGAGG 60.154 63.158 11.60 13.77 42.21 4.63
3071 8490 2.028190 CCCGCGCTCTGATCGATT 59.972 61.111 5.56 0.00 0.00 3.34
3144 8579 4.320456 CGCTGGGTGGTCTGTGCT 62.320 66.667 0.00 0.00 0.00 4.40
3147 8582 1.696097 AAGAACGCTGGGTGGTCTGT 61.696 55.000 0.00 0.00 39.34 3.41
3172 8607 4.208686 CCCGCTCTGAGCCGGTAC 62.209 72.222 26.83 0.00 38.18 3.34
3173 8608 4.435970 TCCCGCTCTGAGCCGGTA 62.436 66.667 28.13 16.17 39.98 4.02
3182 8617 4.488911 ATCAGCCCCTCCCGCTCT 62.489 66.667 0.00 0.00 33.17 4.09
3183 8618 4.247380 CATCAGCCCCTCCCGCTC 62.247 72.222 0.00 0.00 33.17 5.03
3227 8716 2.300152 GCCTATCATCGTCCCAATGAGA 59.700 50.000 0.00 0.00 36.63 3.27
3322 8813 4.783621 GCAGAGCCACGCCATCCA 62.784 66.667 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.