Multiple sequence alignment - TraesCS6B01G217300

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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 TraesCS6B01G217300 chr6B 100.000 3717 0 0 1 3717 299045766 299049482 0 6865
1 TraesCS6B01G217300 chr6A 92.104 3014 102 38 746 3712 223415787 223412863 0 4122
2 TraesCS6B01G217300 chr6A 89.083 687 65 9 4 685 555817784 555817103 0 845
3 TraesCS6B01G217300 chr6D 93.592 2341 77 30 688 2984 163137063 163134752 0 3424
4 TraesCS6B01G217300 chr6D 92.053 755 34 11 2979 3717 163133023 163132279 0 1038
5 TraesCS6B01G217300 chr3B 92.847 699 42 7 2 697 72499693 72499000 0 1007
6 TraesCS6B01G217300 chr3B 92.075 694 43 10 2 691 670548798 670549483 0 966
7 TraesCS6B01G217300 chr7D 89.740 692 66 5 3 691 38997808 38998497 0 880
8 TraesCS6B01G217300 chr2A 89.451 692 67 6 3 691 376693601 376692913 0 869
9 TraesCS6B01G217300 chr2A 88.600 693 71 7 4 691 410042047 410042736 0 835
10 TraesCS6B01G217300 chr1D 91.049 648 51 7 3 647 287169892 287170535 0 869
11 TraesCS6B01G217300 chr5B 89.451 692 64 8 3 691 541628863 541629548 0 865
12 TraesCS6B01G217300 chr1A 89.033 693 67 7 4 693 403021225 403021911 0 850


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 TraesCS6B01G217300 chr6B 299045766 299049482 3716 False 6865 6865 100.0000 1 3717 1 chr6B.!!$F1 3716
1 TraesCS6B01G217300 chr6A 223412863 223415787 2924 True 4122 4122 92.1040 746 3712 1 chr6A.!!$R1 2966
2 TraesCS6B01G217300 chr6A 555817103 555817784 681 True 845 845 89.0830 4 685 1 chr6A.!!$R2 681
3 TraesCS6B01G217300 chr6D 163132279 163137063 4784 True 2231 3424 92.8225 688 3717 2 chr6D.!!$R1 3029
4 TraesCS6B01G217300 chr3B 72499000 72499693 693 True 1007 1007 92.8470 2 697 1 chr3B.!!$R1 695
5 TraesCS6B01G217300 chr3B 670548798 670549483 685 False 966 966 92.0750 2 691 1 chr3B.!!$F1 689
6 TraesCS6B01G217300 chr7D 38997808 38998497 689 False 880 880 89.7400 3 691 1 chr7D.!!$F1 688
7 TraesCS6B01G217300 chr2A 376692913 376693601 688 True 869 869 89.4510 3 691 1 chr2A.!!$R1 688
8 TraesCS6B01G217300 chr2A 410042047 410042736 689 False 835 835 88.6000 4 691 1 chr2A.!!$F1 687
9 TraesCS6B01G217300 chr1D 287169892 287170535 643 False 869 869 91.0490 3 647 1 chr1D.!!$F1 644
10 TraesCS6B01G217300 chr5B 541628863 541629548 685 False 865 865 89.4510 3 691 1 chr5B.!!$F1 688
11 TraesCS6B01G217300 chr1A 403021225 403021911 686 False 850 850 89.0330 4 693 1 chr1A.!!$F1 689

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
746 765 0.031857 CAATTCAAAGGCACCGCACA 59.968 50.0 0.0 0.0 0.00 4.57 F
876 912 0.233332 GACACTGAAGACAGCAACGC 59.767 55.0 0.0 0.0 46.95 4.84 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2686 2726 0.753479 TCGTCCTCCTCATGGCTCTC 60.753 60.0 0.0 0.0 0.0 3.20 R
2848 2897 0.319555 AATCACGCCGACATATCCCG 60.320 55.0 0.0 0.0 0.0 5.14 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
226 231 9.862149 GGGATATGGAAGGAATACTTTTCTTTA 57.138 33.333 0.00 0.00 40.21 1.85
497 508 5.887754 ACCTTGGTTAGTGACAATTGGTAT 58.112 37.500 10.83 0.00 0.00 2.73
586 597 4.007581 TGAAGGATATGGACCTGAGGAA 57.992 45.455 4.99 0.00 37.85 3.36
607 618 9.699703 GAGGAAGAGGTATTAGTCATGTTTATC 57.300 37.037 0.00 0.00 0.00 1.75
608 619 8.652290 AGGAAGAGGTATTAGTCATGTTTATCC 58.348 37.037 0.00 0.00 0.00 2.59
632 645 1.229131 ATGGGCATGAGGATGAGGTT 58.771 50.000 0.00 0.00 0.00 3.50
656 670 7.643569 TTTTAGCCATGCTCAATGATAAAGA 57.356 32.000 0.00 0.00 40.44 2.52
663 677 7.582352 CCATGCTCAATGATAAAGACATGTAG 58.418 38.462 0.00 0.00 38.72 2.74
686 700 0.596082 CCGTTTTCTCCCGTTGCAAT 59.404 50.000 0.59 0.00 0.00 3.56
693 707 3.669344 CCCGTTGCAATGCACCGT 61.669 61.111 22.55 0.00 42.60 4.83
699 713 4.120331 GCAATGCACCGTCCAGCC 62.120 66.667 0.00 0.00 0.00 4.85
711 725 1.072505 TCCAGCCGAGACCAAAACC 59.927 57.895 0.00 0.00 0.00 3.27
717 731 0.306533 CCGAGACCAAAACCAACACG 59.693 55.000 0.00 0.00 0.00 4.49
746 765 0.031857 CAATTCAAAGGCACCGCACA 59.968 50.000 0.00 0.00 0.00 4.57
766 785 0.319900 ATTCGAGACTGCACAACGCT 60.320 50.000 0.00 0.00 43.06 5.07
876 912 0.233332 GACACTGAAGACAGCAACGC 59.767 55.000 0.00 0.00 46.95 4.84
943 979 0.393537 CCAATGCAGAGACCAGACCC 60.394 60.000 0.00 0.00 0.00 4.46
944 980 0.325933 CAATGCAGAGACCAGACCCA 59.674 55.000 0.00 0.00 0.00 4.51
945 981 0.617413 AATGCAGAGACCAGACCCAG 59.383 55.000 0.00 0.00 0.00 4.45
946 982 0.252421 ATGCAGAGACCAGACCCAGA 60.252 55.000 0.00 0.00 0.00 3.86
947 983 1.188219 TGCAGAGACCAGACCCAGAC 61.188 60.000 0.00 0.00 0.00 3.51
948 984 1.893919 GCAGAGACCAGACCCAGACC 61.894 65.000 0.00 0.00 0.00 3.85
960 996 1.825474 ACCCAGACCGAACACTGATAG 59.175 52.381 0.00 0.00 36.38 2.08
1091 1131 0.673022 GCACTGCTCCTCCTGTCTTG 60.673 60.000 0.00 0.00 0.00 3.02
1179 1219 1.460699 GCCTCCAACCAGGTTTCCT 59.539 57.895 0.44 0.00 39.02 3.36
1606 1646 1.153628 GACGATGCAGCCCTACGTT 60.154 57.895 0.00 0.00 37.32 3.99
1867 1907 2.182030 CTCTTCCTCCCGTGCGTC 59.818 66.667 0.00 0.00 0.00 5.19
1939 1979 1.066587 GATGGAGGAGAACGAGCGG 59.933 63.158 0.00 0.00 0.00 5.52
2359 2399 1.826054 CGAGGAGGTGGAGATCGCT 60.826 63.158 0.00 0.00 0.00 4.93
2488 2528 4.144727 GAGGGGGAGGAGGAGCGA 62.145 72.222 0.00 0.00 0.00 4.93
2695 2735 1.703438 GCGTCAAGCTGAGAGCCATG 61.703 60.000 0.00 0.00 43.77 3.66
2706 2746 0.754957 AGAGCCATGAGGAGGACGAG 60.755 60.000 0.00 0.00 36.89 4.18
2763 2804 1.259840 ATCCCCAACCACAAGCATGC 61.260 55.000 10.51 10.51 0.00 4.06
2782 2823 0.776451 CGCATGATACGACGGCTTAC 59.224 55.000 0.00 0.00 0.00 2.34
2801 2842 2.203001 TGGCGAGGTGTGTGTGTG 60.203 61.111 0.00 0.00 0.00 3.82
2802 2843 2.203015 GGCGAGGTGTGTGTGTGT 60.203 61.111 0.00 0.00 0.00 3.72
2833 2882 7.062839 GCTGAGTTTACATCATGTATAGCTAGC 59.937 40.741 6.62 6.62 32.20 3.42
2834 2883 8.183104 TGAGTTTACATCATGTATAGCTAGCT 57.817 34.615 23.12 23.12 32.20 3.32
2894 2943 8.770438 AGCTGCTAATATTCTGATTAACTAGC 57.230 34.615 0.00 12.50 0.00 3.42
2896 2945 9.862371 GCTGCTAATATTCTGATTAACTAGCTA 57.138 33.333 16.56 0.00 0.00 3.32
2924 2983 8.084590 AGTTGTTTAAGAAACGGTAATCTGAG 57.915 34.615 0.00 0.00 44.28 3.35
2947 3009 1.135523 GCGGCTAGCTCTTTTGTGC 59.864 57.895 15.72 2.72 44.04 4.57
2949 3011 0.723981 CGGCTAGCTCTTTTGTGCTC 59.276 55.000 15.72 0.00 44.89 4.26
2950 3012 1.813513 GGCTAGCTCTTTTGTGCTCA 58.186 50.000 15.72 0.00 44.89 4.26
2951 3013 2.154462 GGCTAGCTCTTTTGTGCTCAA 58.846 47.619 15.72 0.00 44.89 3.02
2952 3014 2.751806 GGCTAGCTCTTTTGTGCTCAAT 59.248 45.455 15.72 0.00 44.89 2.57
2953 3015 3.941483 GGCTAGCTCTTTTGTGCTCAATA 59.059 43.478 15.72 0.00 44.89 1.90
2954 3016 4.396166 GGCTAGCTCTTTTGTGCTCAATAA 59.604 41.667 15.72 0.03 44.89 1.40
2955 3017 5.448360 GGCTAGCTCTTTTGTGCTCAATAAG 60.448 44.000 15.72 8.94 44.89 1.73
2956 3018 5.352569 GCTAGCTCTTTTGTGCTCAATAAGA 59.647 40.000 7.70 17.29 44.89 2.10
2957 3019 6.128172 GCTAGCTCTTTTGTGCTCAATAAGAA 60.128 38.462 7.70 5.77 44.89 2.52
2958 3020 6.639632 AGCTCTTTTGTGCTCAATAAGAAA 57.360 33.333 18.13 5.51 44.89 2.52
2959 3021 6.442112 AGCTCTTTTGTGCTCAATAAGAAAC 58.558 36.000 18.13 15.00 44.89 2.78
2960 3022 5.631096 GCTCTTTTGTGCTCAATAAGAAACC 59.369 40.000 18.13 11.06 34.17 3.27
2961 3023 6.707440 TCTTTTGTGCTCAATAAGAAACCA 57.293 33.333 16.58 2.96 32.99 3.67
2962 3024 7.106439 TCTTTTGTGCTCAATAAGAAACCAA 57.894 32.000 16.58 1.95 32.99 3.67
2963 3025 6.978080 TCTTTTGTGCTCAATAAGAAACCAAC 59.022 34.615 16.58 0.00 32.99 3.77
2964 3026 4.481930 TGTGCTCAATAAGAAACCAACG 57.518 40.909 0.00 0.00 0.00 4.10
2965 3027 3.234386 GTGCTCAATAAGAAACCAACGC 58.766 45.455 0.00 0.00 0.00 4.84
2966 3028 3.058224 GTGCTCAATAAGAAACCAACGCT 60.058 43.478 0.00 0.00 0.00 5.07
2967 3029 3.058293 TGCTCAATAAGAAACCAACGCTG 60.058 43.478 0.00 0.00 0.00 5.18
2968 3030 3.188460 GCTCAATAAGAAACCAACGCTGA 59.812 43.478 0.00 0.00 0.00 4.26
2969 3031 4.320202 GCTCAATAAGAAACCAACGCTGAA 60.320 41.667 0.00 0.00 0.00 3.02
2970 3032 5.356882 TCAATAAGAAACCAACGCTGAAG 57.643 39.130 0.00 0.00 0.00 3.02
2971 3033 4.215399 TCAATAAGAAACCAACGCTGAAGG 59.785 41.667 0.00 0.00 0.00 3.46
2972 3034 1.318576 AAGAAACCAACGCTGAAGGG 58.681 50.000 0.00 0.00 0.00 3.95
2973 3035 0.472471 AGAAACCAACGCTGAAGGGA 59.528 50.000 0.86 0.00 0.00 4.20
3026 4843 3.198417 GGAAACAGGCAATCCCATCAATT 59.802 43.478 0.00 0.00 35.39 2.32
3074 4891 1.000827 TGCGGAAATTGATTTGCACGT 60.001 42.857 8.37 0.00 37.89 4.49
3078 4895 4.027702 GCGGAAATTGATTTGCACGTAATC 60.028 41.667 8.37 3.13 37.89 1.75
3079 4896 4.202158 CGGAAATTGATTTGCACGTAATCG 59.798 41.667 8.37 0.00 37.89 3.34
3107 4927 8.627403 ACTATTACCAGATCAATTGATTTGCAG 58.373 33.333 26.07 18.38 35.89 4.41
3110 4930 5.962433 ACCAGATCAATTGATTTGCAGAAG 58.038 37.500 26.07 17.28 35.89 2.85
3198 5021 9.494271 TGCAAGAATACAGTAATAAGATGGATC 57.506 33.333 0.00 0.00 0.00 3.36
3258 5082 5.989777 TCTTGCTTCACTTAACAGTTACTCC 59.010 40.000 0.00 0.00 0.00 3.85
3259 5083 5.546621 TGCTTCACTTAACAGTTACTCCT 57.453 39.130 0.00 0.00 0.00 3.69
3260 5084 5.539048 TGCTTCACTTAACAGTTACTCCTC 58.461 41.667 0.00 0.00 0.00 3.71
3327 5159 3.004839 TCTTCTCAGTTTGACCGAGTCTG 59.995 47.826 5.77 0.00 33.15 3.51
3329 5161 2.293677 TCTCAGTTTGACCGAGTCTGTC 59.706 50.000 7.69 7.69 33.15 3.51
3558 5403 2.981560 ATTTTGACTGCGCCTGCCG 61.982 57.895 4.18 0.00 41.78 5.69
3566 5411 2.128853 CTGCGCCTGCCGAAAGAAAA 62.129 55.000 4.18 0.00 41.78 2.29
3612 5458 2.073307 CAGCGGATTATCGATGCCG 58.927 57.895 23.42 23.42 46.14 5.69
3627 5473 2.092291 GCCGAAATGTCGCACGAGA 61.092 57.895 0.00 0.00 46.28 4.04
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 9.934190 GTGTTTCTAAAATGTTTGCAAATTCAT 57.066 25.926 16.21 12.02 0.00 2.57
337 344 8.281893 TGCACATAATATATGTTTGTGTCATCG 58.718 33.333 18.87 5.71 39.79 3.84
403 414 7.901029 TGAAGATCAAGAGAGTTGAACATAGT 58.099 34.615 0.00 0.00 31.55 2.12
497 508 4.403137 CGTCGCCGGTGGTCGTAA 62.403 66.667 16.49 0.00 37.11 3.18
520 531 1.295792 TTTCGCTTGTCGTCTTTGCT 58.704 45.000 0.00 0.00 39.67 3.91
573 584 3.715648 ATACCTCTTCCTCAGGTCCAT 57.284 47.619 0.00 0.00 43.68 3.41
607 618 4.384978 CCTCATCCTCATGCCCATAATAGG 60.385 50.000 0.00 0.00 0.00 2.57
608 619 4.226846 ACCTCATCCTCATGCCCATAATAG 59.773 45.833 0.00 0.00 0.00 1.73
632 645 7.122501 TGTCTTTATCATTGAGCATGGCTAAAA 59.877 33.333 0.00 0.00 39.88 1.52
656 670 0.696501 AGAAAACGGCCCCTACATGT 59.303 50.000 2.69 2.69 0.00 3.21
663 677 3.855503 AACGGGAGAAAACGGCCCC 62.856 63.158 0.00 0.00 38.69 5.80
693 707 1.072505 GGTTTTGGTCTCGGCTGGA 59.927 57.895 0.00 0.00 0.00 3.86
699 713 1.004292 GACGTGTTGGTTTTGGTCTCG 60.004 52.381 0.00 0.00 0.00 4.04
717 731 1.461888 CCTTTGAATTGCGTCGACGAC 60.462 52.381 39.74 28.96 43.02 4.34
746 765 0.512952 GCGTTGTGCAGTCTCGAATT 59.487 50.000 0.00 0.00 45.45 2.17
766 785 1.004560 CTCTCTGCCAGGTTTCGCA 60.005 57.895 0.00 0.00 0.00 5.10
787 806 4.416738 GGCAGCAGGGGTGTCTCC 62.417 72.222 0.00 0.00 32.57 3.71
943 979 1.204704 TGCCTATCAGTGTTCGGTCTG 59.795 52.381 0.00 0.00 0.00 3.51
944 980 1.478510 CTGCCTATCAGTGTTCGGTCT 59.521 52.381 0.00 0.00 38.02 3.85
945 981 1.927895 CTGCCTATCAGTGTTCGGTC 58.072 55.000 0.00 0.00 38.02 4.79
946 982 0.108138 GCTGCCTATCAGTGTTCGGT 60.108 55.000 0.00 0.00 44.66 4.69
947 983 0.811616 GGCTGCCTATCAGTGTTCGG 60.812 60.000 12.43 0.00 44.66 4.30
948 984 0.108186 TGGCTGCCTATCAGTGTTCG 60.108 55.000 21.03 0.00 44.66 3.95
1074 1114 0.683973 CACAAGACAGGAGGAGCAGT 59.316 55.000 0.00 0.00 0.00 4.40
1084 1124 0.603707 ATCACGGCCACACAAGACAG 60.604 55.000 2.24 0.00 0.00 3.51
1179 1219 0.829602 GGAGATGGAGATGGCCGAGA 60.830 60.000 0.00 0.00 0.00 4.04
1227 1267 4.032452 TGCTCCTTGGCGATGGCA 62.032 61.111 1.01 0.00 42.47 4.92
1289 1329 7.104939 CACCTGAAGAAGAAGAAGAAGATGAT 58.895 38.462 0.00 0.00 0.00 2.45
1290 1330 6.462500 CACCTGAAGAAGAAGAAGAAGATGA 58.538 40.000 0.00 0.00 0.00 2.92
1292 1332 5.244755 GCACCTGAAGAAGAAGAAGAAGAT 58.755 41.667 0.00 0.00 0.00 2.40
1293 1333 4.503991 GGCACCTGAAGAAGAAGAAGAAGA 60.504 45.833 0.00 0.00 0.00 2.87
1294 1334 3.750652 GGCACCTGAAGAAGAAGAAGAAG 59.249 47.826 0.00 0.00 0.00 2.85
1295 1335 3.136443 TGGCACCTGAAGAAGAAGAAGAA 59.864 43.478 0.00 0.00 0.00 2.52
1297 1337 3.131709 TGGCACCTGAAGAAGAAGAAG 57.868 47.619 0.00 0.00 0.00 2.85
1298 1338 3.181440 ACATGGCACCTGAAGAAGAAGAA 60.181 43.478 0.00 0.00 0.00 2.52
1299 1339 2.373169 ACATGGCACCTGAAGAAGAAGA 59.627 45.455 0.00 0.00 0.00 2.87
1399 1439 3.584250 CTTGCACAGCTCCGCGTTG 62.584 63.158 4.92 0.09 0.00 4.10
1606 1646 4.662961 CTGTCCACCAGCGCGTCA 62.663 66.667 8.43 0.00 33.59 4.35
2162 2202 1.374252 GGCACGACACCAGGTACAG 60.374 63.158 0.00 0.00 0.00 2.74
2359 2399 4.700448 TTCGGGAGGCGGTACCCA 62.700 66.667 6.25 0.00 45.83 4.51
2468 2508 4.548513 CTCCTCCTCCCCCTCCGG 62.549 77.778 0.00 0.00 0.00 5.14
2686 2726 0.753479 TCGTCCTCCTCATGGCTCTC 60.753 60.000 0.00 0.00 0.00 3.20
2695 2735 1.454295 GTCCCTCCTCGTCCTCCTC 60.454 68.421 0.00 0.00 0.00 3.71
2706 2746 2.801631 CCTGGCGATCAGTCCCTCC 61.802 68.421 0.00 0.00 41.83 4.30
2763 2804 0.776451 GTAAGCCGTCGTATCATGCG 59.224 55.000 0.00 0.00 0.00 4.73
2782 2823 3.337889 CACACACACCTCGCCACG 61.338 66.667 0.00 0.00 0.00 4.94
2801 2842 4.692625 ACATGATGTAAACTCAGCTCACAC 59.307 41.667 0.00 0.00 0.00 3.82
2802 2843 4.898320 ACATGATGTAAACTCAGCTCACA 58.102 39.130 0.00 0.00 0.00 3.58
2848 2897 0.319555 AATCACGCCGACATATCCCG 60.320 55.000 0.00 0.00 0.00 5.14
2894 2943 9.590088 GATTACCGTTTCTTAAACAACTTGTAG 57.410 33.333 0.00 0.00 41.44 2.74
2896 2945 8.126700 CAGATTACCGTTTCTTAAACAACTTGT 58.873 33.333 3.68 0.00 41.44 3.16
2897 2946 8.339714 TCAGATTACCGTTTCTTAAACAACTTG 58.660 33.333 3.68 0.00 41.44 3.16
2924 2983 1.063174 CAAAAGAGCTAGCCGCACATC 59.937 52.381 12.13 0.60 42.61 3.06
2947 3009 5.356882 TTCAGCGTTGGTTTCTTATTGAG 57.643 39.130 0.00 0.00 0.00 3.02
2948 3010 4.215399 CCTTCAGCGTTGGTTTCTTATTGA 59.785 41.667 0.00 0.00 0.00 2.57
2949 3011 4.475944 CCTTCAGCGTTGGTTTCTTATTG 58.524 43.478 0.00 0.00 0.00 1.90
2950 3012 3.506067 CCCTTCAGCGTTGGTTTCTTATT 59.494 43.478 0.00 0.00 0.00 1.40
2951 3013 3.081804 CCCTTCAGCGTTGGTTTCTTAT 58.918 45.455 0.00 0.00 0.00 1.73
2952 3014 2.105134 TCCCTTCAGCGTTGGTTTCTTA 59.895 45.455 0.00 0.00 0.00 2.10
2953 3015 1.133915 TCCCTTCAGCGTTGGTTTCTT 60.134 47.619 0.00 0.00 0.00 2.52
2954 3016 0.472471 TCCCTTCAGCGTTGGTTTCT 59.528 50.000 0.00 0.00 0.00 2.52
2955 3017 1.468914 GATCCCTTCAGCGTTGGTTTC 59.531 52.381 0.00 0.00 0.00 2.78
2956 3018 1.202879 TGATCCCTTCAGCGTTGGTTT 60.203 47.619 0.00 0.00 0.00 3.27
2957 3019 0.400213 TGATCCCTTCAGCGTTGGTT 59.600 50.000 0.00 0.00 0.00 3.67
2958 3020 0.400213 TTGATCCCTTCAGCGTTGGT 59.600 50.000 0.00 0.00 35.27 3.67
2959 3021 0.804989 GTTGATCCCTTCAGCGTTGG 59.195 55.000 0.00 0.00 35.27 3.77
2960 3022 1.813513 AGTTGATCCCTTCAGCGTTG 58.186 50.000 0.00 0.00 40.25 4.10
2961 3023 2.154462 CAAGTTGATCCCTTCAGCGTT 58.846 47.619 0.00 0.00 40.25 4.84
2962 3024 1.611673 CCAAGTTGATCCCTTCAGCGT 60.612 52.381 3.87 0.00 40.25 5.07
2963 3025 1.089920 CCAAGTTGATCCCTTCAGCG 58.910 55.000 3.87 0.00 40.25 5.18
2964 3026 2.489722 GTTCCAAGTTGATCCCTTCAGC 59.510 50.000 3.87 0.00 35.27 4.26
2965 3027 4.026356 AGTTCCAAGTTGATCCCTTCAG 57.974 45.455 3.87 0.00 35.27 3.02
2966 3028 5.250543 TGATAGTTCCAAGTTGATCCCTTCA 59.749 40.000 3.87 0.00 0.00 3.02
2967 3029 5.745227 TGATAGTTCCAAGTTGATCCCTTC 58.255 41.667 3.87 0.00 0.00 3.46
2968 3030 5.251700 ACTGATAGTTCCAAGTTGATCCCTT 59.748 40.000 3.87 0.00 0.00 3.95
2969 3031 4.785376 ACTGATAGTTCCAAGTTGATCCCT 59.215 41.667 3.87 0.00 0.00 4.20
2970 3032 5.104259 ACTGATAGTTCCAAGTTGATCCC 57.896 43.478 3.87 0.00 0.00 3.85
2971 3033 5.119694 GGACTGATAGTTCCAAGTTGATCC 58.880 45.833 3.87 0.00 0.00 3.36
2972 3034 4.806247 CGGACTGATAGTTCCAAGTTGATC 59.194 45.833 3.87 0.00 0.00 2.92
2973 3035 4.466370 TCGGACTGATAGTTCCAAGTTGAT 59.534 41.667 3.87 0.00 0.00 2.57
3026 4843 9.619316 CACATTTACAACTTCCAATATCGAAAA 57.381 29.630 0.00 0.00 0.00 2.29
3079 4896 9.884465 GCAAATCAATTGATCTGGTAATAGTAC 57.116 33.333 20.95 0.00 41.85 2.73
3092 4912 8.525316 TGATAACACTTCTGCAAATCAATTGAT 58.475 29.630 15.36 15.36 41.85 2.57
3107 4927 3.190079 TGCTCGCATCTGATAACACTTC 58.810 45.455 0.00 0.00 0.00 3.01
3110 4930 2.222678 CCATGCTCGCATCTGATAACAC 59.777 50.000 0.58 0.00 33.90 3.32
3184 5007 5.822519 TGCCAGTGTTGATCCATCTTATTAC 59.177 40.000 0.00 0.00 0.00 1.89
3185 5008 5.822519 GTGCCAGTGTTGATCCATCTTATTA 59.177 40.000 0.00 0.00 0.00 0.98
3186 5009 4.641989 GTGCCAGTGTTGATCCATCTTATT 59.358 41.667 0.00 0.00 0.00 1.40
3198 5021 2.254546 TTCCTACAGTGCCAGTGTTG 57.745 50.000 10.99 8.80 33.15 3.33
3258 5082 4.470462 CTTGCATTTTCGAACAGAAGGAG 58.530 43.478 0.00 0.00 40.40 3.69
3259 5083 3.304659 GCTTGCATTTTCGAACAGAAGGA 60.305 43.478 0.00 0.00 40.40 3.36
3260 5084 2.982470 GCTTGCATTTTCGAACAGAAGG 59.018 45.455 0.00 0.00 40.40 3.46
3385 5219 7.288810 TCCGAAAGTAAGTGGTTCTAGTTTA 57.711 36.000 0.00 0.00 0.00 2.01
3612 5458 1.710013 TCCTTCTCGTGCGACATTTC 58.290 50.000 0.00 0.00 0.00 2.17


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

AutoCloner maintained by Alex Coulton.