Multiple sequence alignment - TraesCS4D01G296300

Loading Multiple Alignment...

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 TraesCS4D01G296300 chr4D 100.000 3422 0 0 1 3422 465760463 465763884 0.000000e+00 6320
1 TraesCS4D01G296300 chr4B 91.408 3480 161 58 3 3422 582826898 582830299 0.000000e+00 4643
2 TraesCS4D01G296300 chr4A 93.679 2832 121 27 599 3422 4797858 4795077 0.000000e+00 4185
3 TraesCS4D01G296300 chr4A 93.096 449 24 3 1 445 4818503 4818058 0.000000e+00 651
4 TraesCS4D01G296300 chr1D 85.763 295 37 4 131 420 204024353 204024059 1.190000e-79 307
5 TraesCS4D01G296300 chr1A 85.085 295 39 4 131 420 259049710 259049416 2.580000e-76 296


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 TraesCS4D01G296300 chr4D 465760463 465763884 3421 False 6320 6320 100.000 1 3422 1 chr4D.!!$F1 3421
1 TraesCS4D01G296300 chr4B 582826898 582830299 3401 False 4643 4643 91.408 3 3422 1 chr4B.!!$F1 3419
2 TraesCS4D01G296300 chr4A 4795077 4797858 2781 True 4185 4185 93.679 599 3422 1 chr4A.!!$R1 2823

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
792 849 0.034477 CTTGCCCTACCCCGTCATTT 60.034 55.0 0.0 0.0 0.0 2.32 F
821 888 0.171455 GTACTGGCCACTCTCGTCTG 59.829 60.0 0.0 0.0 0.0 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2235 2302 0.036105 ATGTTGATGAGCTCGCACCA 60.036 50.0 9.64 9.05 0.00 4.17 R
2806 2874 0.689080 TTGGTGGAAAGCAAGGCCAA 60.689 50.0 5.01 0.00 32.68 4.52 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
24 25 1.079266 GCATTGCGGCAATTTCCCA 60.079 52.632 24.68 0.00 31.05 4.37
26 27 2.013058 GCATTGCGGCAATTTCCCATT 61.013 47.619 24.68 0.08 31.05 3.16
29 35 0.972134 TGCGGCAATTTCCCATTTGA 59.028 45.000 0.00 0.00 0.00 2.69
31 37 1.337635 GCGGCAATTTCCCATTTGACA 60.338 47.619 0.00 0.00 29.85 3.58
35 41 3.498018 GGCAATTTCCCATTTGACACAAC 59.502 43.478 0.00 0.00 30.93 3.32
52 58 1.815003 CAACCCAGCCACAATCTCTTC 59.185 52.381 0.00 0.00 0.00 2.87
55 61 0.745845 CCAGCCACAATCTCTTCCCG 60.746 60.000 0.00 0.00 0.00 5.14
62 69 3.138304 CACAATCTCTTCCCGTTTGACA 58.862 45.455 0.00 0.00 0.00 3.58
112 119 8.257602 TCATATCATGGGCTAAAGTTGTACTA 57.742 34.615 0.00 0.00 0.00 1.82
113 120 8.148351 TCATATCATGGGCTAAAGTTGTACTAC 58.852 37.037 0.00 0.00 0.00 2.73
114 121 6.561519 ATCATGGGCTAAAGTTGTACTACT 57.438 37.500 3.98 3.98 0.00 2.57
115 122 5.730550 TCATGGGCTAAAGTTGTACTACTG 58.269 41.667 10.78 0.25 0.00 2.74
173 180 1.749258 GGGCTCGTGGACCATTTCC 60.749 63.158 0.00 0.00 44.40 3.13
182 189 1.746470 GGACCATTTCCGGGTTGTAG 58.254 55.000 0.00 0.00 39.19 2.74
185 192 1.003928 ACCATTTCCGGGTTGTAGGAC 59.996 52.381 0.00 0.00 34.10 3.85
209 216 2.203451 GGGGGCTGCATCATGAGG 60.203 66.667 2.22 2.22 0.00 3.86
445 452 2.027073 GCGTTGTCCGAGATGTGCA 61.027 57.895 0.00 0.00 39.56 4.57
446 453 1.959899 GCGTTGTCCGAGATGTGCAG 61.960 60.000 0.00 0.00 39.56 4.41
451 480 0.459237 GTCCGAGATGTGCAGGAGTG 60.459 60.000 0.00 0.00 32.82 3.51
466 495 2.177594 GAGTGGGAGTGGGAGTGCAG 62.178 65.000 0.00 0.00 0.00 4.41
476 505 1.251527 GGGAGTGCAGAGGACGAAGA 61.252 60.000 0.00 0.00 0.00 2.87
478 507 1.403514 GGAGTGCAGAGGACGAAGAAG 60.404 57.143 0.00 0.00 0.00 2.85
479 508 1.542030 GAGTGCAGAGGACGAAGAAGA 59.458 52.381 0.00 0.00 0.00 2.87
481 510 1.542030 GTGCAGAGGACGAAGAAGAGA 59.458 52.381 0.00 0.00 0.00 3.10
482 511 1.815613 TGCAGAGGACGAAGAAGAGAG 59.184 52.381 0.00 0.00 0.00 3.20
483 512 1.469079 GCAGAGGACGAAGAAGAGAGC 60.469 57.143 0.00 0.00 0.00 4.09
486 515 1.816224 GAGGACGAAGAAGAGAGCTGT 59.184 52.381 0.00 0.00 0.00 4.40
487 516 1.543802 AGGACGAAGAAGAGAGCTGTG 59.456 52.381 0.00 0.00 0.00 3.66
488 517 1.542030 GGACGAAGAAGAGAGCTGTGA 59.458 52.381 0.00 0.00 0.00 3.58
490 519 2.227865 GACGAAGAAGAGAGCTGTGAGT 59.772 50.000 0.00 0.00 0.00 3.41
491 520 2.030363 ACGAAGAAGAGAGCTGTGAGTG 60.030 50.000 0.00 0.00 0.00 3.51
492 521 2.227626 CGAAGAAGAGAGCTGTGAGTGA 59.772 50.000 0.00 0.00 0.00 3.41
493 522 3.304996 CGAAGAAGAGAGCTGTGAGTGAA 60.305 47.826 0.00 0.00 0.00 3.18
494 523 3.658757 AGAAGAGAGCTGTGAGTGAAC 57.341 47.619 0.00 0.00 0.00 3.18
495 524 3.230134 AGAAGAGAGCTGTGAGTGAACT 58.770 45.455 0.00 0.00 0.00 3.01
513 542 2.119484 CTGTGAACTGGCCCCGGTTA 62.119 60.000 11.33 0.00 44.62 2.85
547 576 3.792047 CGCGCCGGATATGCCATG 61.792 66.667 5.05 0.00 35.94 3.66
662 718 2.434359 GCTACAGTCACCGGCACC 60.434 66.667 0.00 0.00 0.00 5.01
720 776 1.543802 GCGAATGGGTGTTTCATTGGA 59.456 47.619 0.00 0.00 35.26 3.53
790 847 0.694444 ATCTTGCCCTACCCCGTCAT 60.694 55.000 0.00 0.00 0.00 3.06
792 849 0.034477 CTTGCCCTACCCCGTCATTT 60.034 55.000 0.00 0.00 0.00 2.32
794 851 0.406361 TGCCCTACCCCGTCATTTTT 59.594 50.000 0.00 0.00 0.00 1.94
795 852 1.100510 GCCCTACCCCGTCATTTTTC 58.899 55.000 0.00 0.00 0.00 2.29
796 853 1.340697 GCCCTACCCCGTCATTTTTCT 60.341 52.381 0.00 0.00 0.00 2.52
797 854 2.640184 CCCTACCCCGTCATTTTTCTC 58.360 52.381 0.00 0.00 0.00 2.87
798 855 2.238898 CCCTACCCCGTCATTTTTCTCT 59.761 50.000 0.00 0.00 0.00 3.10
799 856 3.308188 CCCTACCCCGTCATTTTTCTCTT 60.308 47.826 0.00 0.00 0.00 2.85
803 860 3.181443 ACCCCGTCATTTTTCTCTTCTGT 60.181 43.478 0.00 0.00 0.00 3.41
805 862 4.392138 CCCCGTCATTTTTCTCTTCTGTAC 59.608 45.833 0.00 0.00 0.00 2.90
806 863 5.238583 CCCGTCATTTTTCTCTTCTGTACT 58.761 41.667 0.00 0.00 0.00 2.73
807 864 5.120830 CCCGTCATTTTTCTCTTCTGTACTG 59.879 44.000 0.00 0.00 0.00 2.74
809 866 5.389935 CGTCATTTTTCTCTTCTGTACTGGC 60.390 44.000 0.00 0.00 0.00 4.85
811 868 4.431416 TTTTTCTCTTCTGTACTGGCCA 57.569 40.909 4.71 4.71 0.00 5.36
812 869 3.402628 TTTCTCTTCTGTACTGGCCAC 57.597 47.619 0.00 0.00 0.00 5.01
813 870 2.310779 TCTCTTCTGTACTGGCCACT 57.689 50.000 0.00 0.00 0.00 4.00
814 871 2.171840 TCTCTTCTGTACTGGCCACTC 58.828 52.381 0.00 0.00 0.00 3.51
815 872 2.175202 CTCTTCTGTACTGGCCACTCT 58.825 52.381 0.00 0.00 0.00 3.24
817 874 0.888619 TTCTGTACTGGCCACTCTCG 59.111 55.000 0.00 0.00 0.00 4.04
821 888 0.171455 GTACTGGCCACTCTCGTCTG 59.829 60.000 0.00 0.00 0.00 3.51
859 926 2.040442 TCCATTCCTCTCCGGCCA 59.960 61.111 2.24 0.00 0.00 5.36
863 930 2.427245 ATTCCTCTCCGGCCACTCG 61.427 63.158 2.24 0.00 0.00 4.18
865 932 2.835431 CCTCTCCGGCCACTCGAT 60.835 66.667 2.24 0.00 0.00 3.59
920 987 2.513897 GGCGCGTTAGCTTGGGAT 60.514 61.111 8.43 0.00 42.32 3.85
923 990 1.090052 GCGCGTTAGCTTGGGATCTT 61.090 55.000 8.43 0.00 42.32 2.40
925 992 1.017387 GCGTTAGCTTGGGATCTTGG 58.983 55.000 0.00 0.00 41.01 3.61
926 993 1.679032 GCGTTAGCTTGGGATCTTGGT 60.679 52.381 0.00 0.00 41.01 3.67
928 995 2.093447 CGTTAGCTTGGGATCTTGGTCT 60.093 50.000 0.00 0.00 0.00 3.85
933 1000 3.134458 GCTTGGGATCTTGGTCTAATCG 58.866 50.000 0.00 0.00 0.00 3.34
937 1004 2.288273 GGGATCTTGGTCTAATCGTCCG 60.288 54.545 0.00 0.00 0.00 4.79
941 1008 2.657620 GGTCTAATCGTCCGCCGC 60.658 66.667 0.00 0.00 36.19 6.53
943 1010 4.918129 TCTAATCGTCCGCCGCGC 62.918 66.667 7.42 0.00 36.19 6.86
965 1032 4.360563 CGAGCTCATACCATCGTTTTACT 58.639 43.478 15.40 0.00 0.00 2.24
968 1035 3.808174 GCTCATACCATCGTTTTACTCCC 59.192 47.826 0.00 0.00 0.00 4.30
969 1036 4.682320 GCTCATACCATCGTTTTACTCCCA 60.682 45.833 0.00 0.00 0.00 4.37
972 1039 5.365605 TCATACCATCGTTTTACTCCCATCT 59.634 40.000 0.00 0.00 0.00 2.90
974 1041 3.263425 ACCATCGTTTTACTCCCATCTGT 59.737 43.478 0.00 0.00 0.00 3.41
978 1045 3.000727 CGTTTTACTCCCATCTGTGTCC 58.999 50.000 0.00 0.00 0.00 4.02
985 1052 0.392998 CCCATCTGTGTCCTTTCCGG 60.393 60.000 0.00 0.00 0.00 5.14
1023 1090 4.383602 GCCACGTGTTCGCGCAAT 62.384 61.111 15.65 0.00 41.18 3.56
1099 1166 1.004758 TGCCCCTCCCAGCTATCTT 59.995 57.895 0.00 0.00 0.00 2.40
1209 1276 1.302832 GGTGGTCTCCAAGGTGCTG 60.303 63.158 0.00 0.00 34.18 4.41
1684 1751 3.304525 GCATGAGAAGAATATGGCAGCAC 60.305 47.826 0.00 0.00 0.00 4.40
1706 1773 1.933115 GCCGGTAACACCAATGCCAG 61.933 60.000 1.90 0.00 38.47 4.85
1737 1804 1.638589 AGTACACCAGGAGAGCTCTCT 59.361 52.381 36.09 22.55 42.48 3.10
2235 2302 4.883585 TCTGATTCTGAGCACTGTTTGTTT 59.116 37.500 0.00 0.00 0.00 2.83
2282 2349 1.136891 TGGTAGCAGTGATGACGATGG 59.863 52.381 0.00 0.00 0.00 3.51
2372 2439 4.597940 AGATGATGGTGAGATGGATGATGT 59.402 41.667 0.00 0.00 0.00 3.06
2379 2446 4.275196 GGTGAGATGGATGATGTTGACATG 59.725 45.833 0.57 0.00 36.57 3.21
2469 2536 6.491714 AGGAGATGTAAGTGATTATGCAGT 57.508 37.500 0.00 0.00 0.00 4.40
2549 2616 6.916360 TTCCATTTCCTGAACATTAAGCTT 57.084 33.333 3.48 3.48 0.00 3.74
2596 2663 2.097629 GCGAGCTTGTTTAGGGATTTCC 59.902 50.000 2.14 0.00 0.00 3.13
2606 2673 1.302907 AGGGATTTCCTGGCTGATGT 58.697 50.000 0.00 0.00 46.07 3.06
2639 2706 4.405548 TGTGGTCAATGATCCAAACATGA 58.594 39.130 0.00 0.00 35.38 3.07
2660 2727 4.406972 TGACTGGATATCCTGGAAAGTCAG 59.593 45.833 26.51 14.90 38.40 3.51
2710 2778 0.242017 GTCTTGAGCAACCATGGTGC 59.758 55.000 20.60 22.57 37.41 5.01
2757 2825 2.262637 AGGTGGACTTTGAATACCGGA 58.737 47.619 9.46 0.00 36.55 5.14
2806 2874 3.515602 AACAAAGACTCTGCAAGGGAT 57.484 42.857 0.00 0.00 35.24 3.85
2824 2892 0.471591 ATTGGCCTTGCTTTCCACCA 60.472 50.000 3.32 0.00 0.00 4.17
2930 2998 4.186159 GCTTACTCTTTACAATGCCGGTA 58.814 43.478 1.90 0.00 0.00 4.02
2972 3040 3.662247 AGTCCTTTAGTTGACCAGTCG 57.338 47.619 0.00 0.00 31.76 4.18
3043 3111 0.454196 GTTCTGCACCGTTTGTGGTT 59.546 50.000 0.00 0.00 45.55 3.67
3160 3228 4.647853 ACAGACGTAAGGTTAGCCATATCA 59.352 41.667 0.00 0.00 46.39 2.15
3267 3335 5.772825 TGCTAAGTCTTCAATTGCACTTT 57.227 34.783 17.26 5.40 31.52 2.66
3330 3398 6.257423 TGCAAAATATTCGCATACAGTTCTG 58.743 36.000 8.11 0.00 0.00 3.02
3339 3407 3.549471 CGCATACAGTTCTGTTCTGCTAG 59.451 47.826 23.88 13.93 36.50 3.42
3343 3411 2.257894 CAGTTCTGTTCTGCTAGAGCG 58.742 52.381 0.00 0.00 45.83 5.03
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.004734 GGAAATTGCCGCAATGCTACTAT 59.995 43.478 19.18 0.00 34.04 2.12
1 2 2.357637 GGAAATTGCCGCAATGCTACTA 59.642 45.455 19.18 0.00 34.04 1.82
24 25 1.039856 GTGGCTGGGTTGTGTCAAAT 58.960 50.000 0.00 0.00 0.00 2.32
26 27 0.323816 TTGTGGCTGGGTTGTGTCAA 60.324 50.000 0.00 0.00 0.00 3.18
29 35 0.185901 AGATTGTGGCTGGGTTGTGT 59.814 50.000 0.00 0.00 0.00 3.72
31 37 0.773644 AGAGATTGTGGCTGGGTTGT 59.226 50.000 0.00 0.00 0.00 3.32
35 41 0.394899 GGGAAGAGATTGTGGCTGGG 60.395 60.000 0.00 0.00 0.00 4.45
52 58 1.099689 ACTTGTTGGTGTCAAACGGG 58.900 50.000 0.00 0.00 34.28 5.28
62 69 5.852282 AAGCAAGATAACAACTTGTTGGT 57.148 34.783 16.09 13.00 41.30 3.67
94 101 6.368779 TTCAGTAGTACAACTTTAGCCCAT 57.631 37.500 2.52 0.00 0.00 4.00
173 180 1.217244 CTTCCGGTCCTACAACCCG 59.783 63.158 0.00 0.00 41.37 5.28
194 201 1.527844 GGACCTCATGATGCAGCCC 60.528 63.158 0.00 0.00 0.00 5.19
431 438 0.900182 ACTCCTGCACATCTCGGACA 60.900 55.000 0.00 0.00 0.00 4.02
433 440 1.607801 CCACTCCTGCACATCTCGGA 61.608 60.000 0.00 0.00 0.00 4.55
437 444 0.546267 ACTCCCACTCCTGCACATCT 60.546 55.000 0.00 0.00 0.00 2.90
445 452 1.229336 CACTCCCACTCCCACTCCT 60.229 63.158 0.00 0.00 0.00 3.69
446 453 2.960688 GCACTCCCACTCCCACTCC 61.961 68.421 0.00 0.00 0.00 3.85
451 480 2.664081 CCTCTGCACTCCCACTCCC 61.664 68.421 0.00 0.00 0.00 4.30
466 495 1.816224 ACAGCTCTCTTCTTCGTCCTC 59.184 52.381 0.00 0.00 0.00 3.71
476 505 2.697751 ACAGTTCACTCACAGCTCTCTT 59.302 45.455 0.00 0.00 0.00 2.85
478 507 2.035193 TCACAGTTCACTCACAGCTCTC 59.965 50.000 0.00 0.00 0.00 3.20
479 508 2.034878 TCACAGTTCACTCACAGCTCT 58.965 47.619 0.00 0.00 0.00 4.09
481 510 2.169352 AGTTCACAGTTCACTCACAGCT 59.831 45.455 0.00 0.00 0.00 4.24
482 511 2.286294 CAGTTCACAGTTCACTCACAGC 59.714 50.000 0.00 0.00 0.00 4.40
483 512 2.868583 CCAGTTCACAGTTCACTCACAG 59.131 50.000 0.00 0.00 0.00 3.66
486 515 1.475034 GGCCAGTTCACAGTTCACTCA 60.475 52.381 0.00 0.00 0.00 3.41
487 516 1.230324 GGCCAGTTCACAGTTCACTC 58.770 55.000 0.00 0.00 0.00 3.51
488 517 0.179018 GGGCCAGTTCACAGTTCACT 60.179 55.000 4.39 0.00 0.00 3.41
490 519 1.150536 GGGGCCAGTTCACAGTTCA 59.849 57.895 4.39 0.00 0.00 3.18
491 520 1.966451 CGGGGCCAGTTCACAGTTC 60.966 63.158 4.39 0.00 0.00 3.01
492 521 2.113139 CGGGGCCAGTTCACAGTT 59.887 61.111 4.39 0.00 0.00 3.16
493 522 3.953775 CCGGGGCCAGTTCACAGT 61.954 66.667 4.39 0.00 0.00 3.55
494 523 2.119484 TAACCGGGGCCAGTTCACAG 62.119 60.000 13.77 0.00 0.00 3.66
495 524 2.148052 TAACCGGGGCCAGTTCACA 61.148 57.895 13.77 0.00 0.00 3.58
533 562 2.361610 CCCCATGGCATATCCGGC 60.362 66.667 6.09 0.00 37.80 6.13
563 592 2.281208 TTTCCCCGTCGCTTGGTG 60.281 61.111 0.00 0.00 0.00 4.17
564 593 2.032071 CTTTCCCCGTCGCTTGGT 59.968 61.111 0.00 0.00 0.00 3.67
565 594 2.032071 ACTTTCCCCGTCGCTTGG 59.968 61.111 0.00 0.00 0.00 3.61
566 595 1.566018 GACACTTTCCCCGTCGCTTG 61.566 60.000 0.00 0.00 0.00 4.01
706 762 0.538746 ACCGGTCCAATGAAACACCC 60.539 55.000 0.00 0.00 0.00 4.61
707 763 0.879090 GACCGGTCCAATGAAACACC 59.121 55.000 24.75 0.00 0.00 4.16
720 776 0.251653 TAGAACTCAGCTGGACCGGT 60.252 55.000 15.13 6.92 0.00 5.28
790 847 4.134563 GTGGCCAGTACAGAAGAGAAAAA 58.865 43.478 5.11 0.00 0.00 1.94
792 849 2.972713 AGTGGCCAGTACAGAAGAGAAA 59.027 45.455 12.69 0.00 0.00 2.52
794 851 2.171840 GAGTGGCCAGTACAGAAGAGA 58.828 52.381 14.64 0.00 0.00 3.10
795 852 2.165437 GAGAGTGGCCAGTACAGAAGAG 59.835 54.545 14.64 0.00 0.00 2.85
796 853 2.171840 GAGAGTGGCCAGTACAGAAGA 58.828 52.381 14.64 0.00 0.00 2.87
797 854 1.135257 CGAGAGTGGCCAGTACAGAAG 60.135 57.143 14.64 0.00 0.00 2.85
798 855 0.888619 CGAGAGTGGCCAGTACAGAA 59.111 55.000 14.64 0.00 0.00 3.02
799 856 0.251209 ACGAGAGTGGCCAGTACAGA 60.251 55.000 14.64 0.00 46.97 3.41
839 906 1.745264 GCCGGAGAGGAATGGAGAG 59.255 63.158 5.05 0.00 45.00 3.20
845 912 2.427245 CGAGTGGCCGGAGAGGAAT 61.427 63.158 5.05 0.00 45.00 3.01
859 926 2.519780 GGCGGAGGAGGATCGAGT 60.520 66.667 0.00 0.00 34.37 4.18
863 930 2.444895 AGGTGGCGGAGGAGGATC 60.445 66.667 0.00 0.00 0.00 3.36
865 932 4.779733 GGAGGTGGCGGAGGAGGA 62.780 72.222 0.00 0.00 0.00 3.71
903 970 2.513897 ATCCCAAGCTAACGCGCC 60.514 61.111 5.73 0.00 42.32 6.53
908 975 3.636153 AGACCAAGATCCCAAGCTAAC 57.364 47.619 0.00 0.00 0.00 2.34
920 987 0.458669 GGCGGACGATTAGACCAAGA 59.541 55.000 0.00 0.00 34.24 3.02
941 1008 0.595053 AACGATGGTATGAGCTCGCG 60.595 55.000 9.64 0.00 34.60 5.87
943 1010 4.360563 AGTAAAACGATGGTATGAGCTCG 58.639 43.478 9.64 0.00 37.17 5.03
946 1013 3.808174 GGGAGTAAAACGATGGTATGAGC 59.192 47.826 0.00 0.00 0.00 4.26
965 1032 0.613260 CGGAAAGGACACAGATGGGA 59.387 55.000 0.00 0.00 0.00 4.37
968 1035 1.361668 CGCCGGAAAGGACACAGATG 61.362 60.000 5.05 0.00 45.00 2.90
969 1036 1.079127 CGCCGGAAAGGACACAGAT 60.079 57.895 5.05 0.00 45.00 2.90
1452 1519 1.154016 CCTGGTCACGTACTCTGCG 60.154 63.158 0.00 0.00 0.00 5.18
1455 1522 1.878656 GCAGCCTGGTCACGTACTCT 61.879 60.000 0.00 0.00 0.00 3.24
1599 1666 0.324368 AGTCGCCATCCTCCAGTGTA 60.324 55.000 0.00 0.00 0.00 2.90
1684 1751 1.933115 GCATTGGTGTTACCGGCCAG 61.933 60.000 0.00 0.00 42.58 4.85
1706 1773 3.055385 TCCTGGTGTACTAGCATTGGAAC 60.055 47.826 0.00 0.00 35.99 3.62
1737 1804 4.324563 GGGAACTTCATCTGGAATGGAAGA 60.325 45.833 7.19 0.00 39.20 2.87
1877 1944 3.125656 TCATGAGATCCAGGGGTCAAAT 58.874 45.455 0.72 0.00 0.00 2.32
2046 2113 3.913799 TCCCCCTCTCAGACACATAAAAA 59.086 43.478 0.00 0.00 0.00 1.94
2235 2302 0.036105 ATGTTGATGAGCTCGCACCA 60.036 50.000 9.64 9.05 0.00 4.17
2282 2349 5.863935 TCGACATGCAATATAGTATCAGCAC 59.136 40.000 0.00 0.00 34.54 4.40
2372 2439 4.457466 CATCTGACCATCATCCATGTCAA 58.543 43.478 0.00 0.00 0.00 3.18
2379 2446 4.262617 CATCATCCATCTGACCATCATCC 58.737 47.826 0.00 0.00 0.00 3.51
2422 2489 5.712152 AAACCATCTCAACATGTTTCTCC 57.288 39.130 8.77 0.00 0.00 3.71
2469 2536 5.479306 GCTACTAACTGGATTTCACTGACA 58.521 41.667 0.00 0.00 0.00 3.58
2527 2594 6.945435 TGTAAGCTTAATGTTCAGGAAATGGA 59.055 34.615 7.99 0.00 0.00 3.41
2549 2616 3.575256 TGAAACCTTCCTACTCGCTTGTA 59.425 43.478 0.00 0.00 0.00 2.41
2559 2626 3.388024 AGCTCGCATATGAAACCTTCCTA 59.612 43.478 6.97 0.00 0.00 2.94
2596 2663 6.206498 CACAATATCATCAAACATCAGCCAG 58.794 40.000 0.00 0.00 0.00 4.85
2606 2673 7.560626 TGGATCATTGACCACAATATCATCAAA 59.439 33.333 0.00 0.00 43.76 2.69
2639 2706 3.135530 GCTGACTTTCCAGGATATCCAGT 59.864 47.826 23.81 16.79 38.89 4.00
2660 2727 0.864455 GTTATGAGATCCTGCAGCGC 59.136 55.000 8.66 0.00 0.00 5.92
2710 2778 4.997395 ACATCAGGTAGTAAACAACAGCAG 59.003 41.667 0.00 0.00 0.00 4.24
2757 2825 3.452990 TCAATGCCAATCATCCATGCTTT 59.547 39.130 0.00 0.00 33.40 3.51
2806 2874 0.689080 TTGGTGGAAAGCAAGGCCAA 60.689 50.000 5.01 0.00 32.68 4.52
2824 2892 6.022315 CAGGACTGGAATAGAGGGATCTATT 58.978 44.000 9.65 9.65 43.34 1.73
3043 3111 2.730382 TCCACCGCTAGTAGATGAACA 58.270 47.619 0.00 0.00 0.00 3.18
3101 3169 9.904198 TCTGGTTGAGATCAAATTATCATACAA 57.096 29.630 0.00 0.00 37.63 2.41
3160 3228 3.763360 TGCAGGCAGTTTTACAGCAATAT 59.237 39.130 0.00 0.00 31.72 1.28
3227 3295 2.094675 GCATTAGTGTCTGCCAACCAT 58.905 47.619 0.00 0.00 32.15 3.55
3330 3398 1.513158 TGCTCCGCTCTAGCAGAAC 59.487 57.895 2.44 0.00 44.78 3.01
3339 3407 3.528009 GCAAAGTATTATGCTCCGCTC 57.472 47.619 0.00 0.00 39.46 5.03


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

AutoCloner maintained by Alex Coulton.