Multiple sequence alignment - TraesCS7B01G209400

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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 TraesCS7B01G209400 chr7B 100.000 4055 0 0 1 4055 382288511 382284457 0.000000e+00 7489
1 TraesCS7B01G209400 chr7D 98.013 3120 51 6 937 4055 387228886 387225777 0.000000e+00 5408
2 TraesCS7B01G209400 chr7A 97.831 2444 45 4 974 3417 437079138 437076703 0.000000e+00 4213
3 TraesCS7B01G209400 chr7A 98.754 642 8 0 3414 4055 437074141 437073500 0.000000e+00 1142
4 TraesCS7B01G209400 chr5B 90.607 873 76 5 1 871 557958565 557957697 0.000000e+00 1153
5 TraesCS7B01G209400 chr3D 87.892 892 94 11 1 881 382727194 382726306 0.000000e+00 1037
6 TraesCS7B01G209400 chr3B 87.472 894 94 14 1 881 716983291 716984179 0.000000e+00 1014
7 TraesCS7B01G209400 chr5D 87.346 893 96 12 1 881 225850764 225851651 0.000000e+00 1007
8 TraesCS7B01G209400 chr2B 88.051 862 87 11 1 850 2353157 2352300 0.000000e+00 1007
9 TraesCS7B01G209400 chr4A 87.402 897 85 14 1 881 596074697 596075581 0.000000e+00 1005
10 TraesCS7B01G209400 chr6B 87.039 895 97 13 1 881 279584816 279585705 0.000000e+00 992
11 TraesCS7B01G209400 chr6B 93.694 222 13 1 661 881 279576810 279576589 8.400000e-87 331
12 TraesCS7B01G209400 chr2A 86.999 723 82 10 168 881 24950224 24950943 0.000000e+00 804
13 TraesCS7B01G209400 chr5A 86.464 724 85 9 171 883 635339278 635338557 0.000000e+00 782


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 TraesCS7B01G209400 chr7B 382284457 382288511 4054 True 7489.0 7489 100.0000 1 4055 1 chr7B.!!$R1 4054
1 TraesCS7B01G209400 chr7D 387225777 387228886 3109 True 5408.0 5408 98.0130 937 4055 1 chr7D.!!$R1 3118
2 TraesCS7B01G209400 chr7A 437073500 437079138 5638 True 2677.5 4213 98.2925 974 4055 2 chr7A.!!$R1 3081
3 TraesCS7B01G209400 chr5B 557957697 557958565 868 True 1153.0 1153 90.6070 1 871 1 chr5B.!!$R1 870
4 TraesCS7B01G209400 chr3D 382726306 382727194 888 True 1037.0 1037 87.8920 1 881 1 chr3D.!!$R1 880
5 TraesCS7B01G209400 chr3B 716983291 716984179 888 False 1014.0 1014 87.4720 1 881 1 chr3B.!!$F1 880
6 TraesCS7B01G209400 chr5D 225850764 225851651 887 False 1007.0 1007 87.3460 1 881 1 chr5D.!!$F1 880
7 TraesCS7B01G209400 chr2B 2352300 2353157 857 True 1007.0 1007 88.0510 1 850 1 chr2B.!!$R1 849
8 TraesCS7B01G209400 chr4A 596074697 596075581 884 False 1005.0 1005 87.4020 1 881 1 chr4A.!!$F1 880
9 TraesCS7B01G209400 chr6B 279584816 279585705 889 False 992.0 992 87.0390 1 881 1 chr6B.!!$F1 880
10 TraesCS7B01G209400 chr2A 24950224 24950943 719 False 804.0 804 86.9990 168 881 1 chr2A.!!$F1 713
11 TraesCS7B01G209400 chr5A 635338557 635339278 721 True 782.0 782 86.4640 171 883 1 chr5A.!!$R1 712

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
694 718 0.109723 TTCGTCACAAAGGAAGGGGG 59.890 55.0 0.00 0.0 0.00 5.40 F
1482 1507 0.469494 TGTATGCGGAGATGCCACAT 59.531 50.0 0.00 0.0 42.05 3.21 F
1608 1633 0.752658 TCATATCCTGGAGCGTGGTG 59.247 55.0 1.52 0.0 0.00 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2091 2116 0.515564 CGAACCCAACAACCATCGAC 59.484 55.000 0.0 0.0 32.38 4.20 R
2760 2785 1.202687 TGATCATTCTGGGGCATCGAC 60.203 52.381 0.0 0.0 0.00 4.20 R
3337 3362 1.436600 ATGCTTCAGTGCTTCACTCG 58.563 50.000 0.0 0.0 43.43 4.18 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
21 22 0.179020 AGTGGCACTGCTAAACTGCA 60.179 50.000 21.37 0.00 41.05 4.41
151 153 1.303888 ATGTGCCCTGCTGGTCAAG 60.304 57.895 9.00 0.00 36.04 3.02
159 161 2.304761 CCCTGCTGGTCAAGGTTAACTA 59.695 50.000 9.00 0.00 0.00 2.24
219 223 1.362224 AGAACCCTAGCTTCTTGGCA 58.638 50.000 0.00 0.00 34.17 4.92
262 266 4.388577 AAACCCTAGCCTGAAATCAACT 57.611 40.909 0.00 0.00 0.00 3.16
269 273 2.375174 AGCCTGAAATCAACTACCACCA 59.625 45.455 0.00 0.00 0.00 4.17
308 312 2.202866 CCGGAGGCTGTACAGACAT 58.797 57.895 30.11 16.68 46.14 3.06
366 370 2.046892 GTGATCCGCCAGTGCTGT 60.047 61.111 0.00 0.00 34.43 4.40
421 426 1.201429 GGGGGAGGAACAGAGCAGAA 61.201 60.000 0.00 0.00 0.00 3.02
583 591 4.069232 CGGCCCGAGCAAGACAGA 62.069 66.667 0.00 0.00 42.56 3.41
584 602 2.435059 GGCCCGAGCAAGACAGAC 60.435 66.667 0.00 0.00 42.56 3.51
607 625 3.634504 CCAAGTGGATGAATGATTGGGA 58.365 45.455 0.00 0.00 37.39 4.37
621 640 3.097162 GGGATGGGGAGGGGACAC 61.097 72.222 0.00 0.00 0.00 3.67
632 651 4.546674 GGGAGGGGACACAATAAATTCAT 58.453 43.478 0.00 0.00 0.00 2.57
694 718 0.109723 TTCGTCACAAAGGAAGGGGG 59.890 55.000 0.00 0.00 0.00 5.40
761 785 2.507484 CACTTGGCCAGTTCTGATTGA 58.493 47.619 5.11 0.00 30.92 2.57
780 804 4.046286 TGACCCTGGACTAAATTTGCAT 57.954 40.909 0.00 0.00 0.00 3.96
836 860 7.334171 CCACTTTTTCAACTTCAAAGACCAAAT 59.666 33.333 0.00 0.00 32.73 2.32
850 874 5.698741 AGACCAAATCATCACCTGACATA 57.301 39.130 0.00 0.00 36.48 2.29
883 908 2.169352 ACTGCAGTGCTATTACCTCCTG 59.831 50.000 20.97 0.00 0.00 3.86
884 909 2.432146 CTGCAGTGCTATTACCTCCTGA 59.568 50.000 17.60 0.00 0.00 3.86
885 910 2.837591 TGCAGTGCTATTACCTCCTGAA 59.162 45.455 17.60 0.00 0.00 3.02
886 911 3.263170 TGCAGTGCTATTACCTCCTGAAA 59.737 43.478 17.60 0.00 0.00 2.69
887 912 4.261801 GCAGTGCTATTACCTCCTGAAAA 58.738 43.478 8.18 0.00 0.00 2.29
888 913 4.700213 GCAGTGCTATTACCTCCTGAAAAA 59.300 41.667 8.18 0.00 0.00 1.94
889 914 5.358160 GCAGTGCTATTACCTCCTGAAAAAT 59.642 40.000 8.18 0.00 0.00 1.82
890 915 6.678900 GCAGTGCTATTACCTCCTGAAAAATG 60.679 42.308 8.18 0.00 0.00 2.32
891 916 6.375455 CAGTGCTATTACCTCCTGAAAAATGT 59.625 38.462 0.00 0.00 0.00 2.71
892 917 6.599638 AGTGCTATTACCTCCTGAAAAATGTC 59.400 38.462 0.00 0.00 0.00 3.06
893 918 5.584649 TGCTATTACCTCCTGAAAAATGTCG 59.415 40.000 0.00 0.00 0.00 4.35
894 919 5.815740 GCTATTACCTCCTGAAAAATGTCGA 59.184 40.000 0.00 0.00 0.00 4.20
895 920 6.315393 GCTATTACCTCCTGAAAAATGTCGAA 59.685 38.462 0.00 0.00 0.00 3.71
896 921 7.012421 GCTATTACCTCCTGAAAAATGTCGAAT 59.988 37.037 0.00 0.00 0.00 3.34
897 922 7.703058 ATTACCTCCTGAAAAATGTCGAATT 57.297 32.000 0.00 0.00 0.00 2.17
898 923 5.376854 ACCTCCTGAAAAATGTCGAATTG 57.623 39.130 0.00 0.00 0.00 2.32
899 924 4.827284 ACCTCCTGAAAAATGTCGAATTGT 59.173 37.500 0.00 0.00 0.00 2.71
900 925 5.301805 ACCTCCTGAAAAATGTCGAATTGTT 59.698 36.000 0.00 0.00 0.00 2.83
901 926 6.488683 ACCTCCTGAAAAATGTCGAATTGTTA 59.511 34.615 0.00 0.00 0.00 2.41
902 927 7.013846 ACCTCCTGAAAAATGTCGAATTGTTAA 59.986 33.333 0.00 0.00 0.00 2.01
903 928 7.326063 CCTCCTGAAAAATGTCGAATTGTTAAC 59.674 37.037 0.00 0.00 0.00 2.01
904 929 7.936584 TCCTGAAAAATGTCGAATTGTTAACT 58.063 30.769 7.22 0.00 0.00 2.24
905 930 8.073768 TCCTGAAAAATGTCGAATTGTTAACTC 58.926 33.333 7.22 0.00 0.00 3.01
906 931 8.076178 CCTGAAAAATGTCGAATTGTTAACTCT 58.924 33.333 7.22 0.00 0.00 3.24
907 932 9.450807 CTGAAAAATGTCGAATTGTTAACTCTT 57.549 29.630 7.22 0.09 0.00 2.85
908 933 9.445786 TGAAAAATGTCGAATTGTTAACTCTTC 57.554 29.630 7.22 8.56 0.00 2.87
909 934 8.488979 AAAAATGTCGAATTGTTAACTCTTCG 57.511 30.769 24.61 24.61 41.25 3.79
910 935 7.416154 AAATGTCGAATTGTTAACTCTTCGA 57.584 32.000 27.04 27.04 44.95 3.71
913 938 4.873817 TCGAATTGTTAACTCTTCGACCA 58.126 39.130 27.04 14.98 43.04 4.02
914 939 5.291178 TCGAATTGTTAACTCTTCGACCAA 58.709 37.500 27.04 14.74 43.04 3.67
915 940 5.754406 TCGAATTGTTAACTCTTCGACCAAA 59.246 36.000 27.04 14.49 43.04 3.28
916 941 6.425721 TCGAATTGTTAACTCTTCGACCAAAT 59.574 34.615 27.04 7.76 43.04 2.32
917 942 6.519761 CGAATTGTTAACTCTTCGACCAAATG 59.480 38.462 25.58 5.85 42.18 2.32
918 943 5.682943 TTGTTAACTCTTCGACCAAATGG 57.317 39.130 7.22 0.00 42.17 3.16
919 944 4.069304 TGTTAACTCTTCGACCAAATGGG 58.931 43.478 7.22 0.00 44.81 4.00
920 945 1.534729 AACTCTTCGACCAAATGGGC 58.465 50.000 4.17 0.00 42.05 5.36
921 946 0.693049 ACTCTTCGACCAAATGGGCT 59.307 50.000 3.35 0.00 42.58 5.19
922 947 1.339151 ACTCTTCGACCAAATGGGCTC 60.339 52.381 3.35 0.00 42.58 4.70
923 948 0.690192 TCTTCGACCAAATGGGCTCA 59.310 50.000 3.35 0.00 42.58 4.26
924 949 1.281867 TCTTCGACCAAATGGGCTCAT 59.718 47.619 3.35 0.00 42.58 2.90
925 950 2.503765 TCTTCGACCAAATGGGCTCATA 59.496 45.455 0.00 0.00 42.58 2.15
926 951 3.136443 TCTTCGACCAAATGGGCTCATAT 59.864 43.478 0.00 0.00 42.58 1.78
927 952 2.849942 TCGACCAAATGGGCTCATATG 58.150 47.619 0.00 0.00 42.58 1.78
928 953 2.172505 TCGACCAAATGGGCTCATATGT 59.827 45.455 0.00 0.00 42.58 2.29
929 954 3.389656 TCGACCAAATGGGCTCATATGTA 59.610 43.478 0.00 0.00 42.58 2.29
930 955 3.748048 CGACCAAATGGGCTCATATGTAG 59.252 47.826 0.00 0.00 42.58 2.74
931 956 4.503123 CGACCAAATGGGCTCATATGTAGA 60.503 45.833 0.00 0.00 42.58 2.59
932 957 5.376625 GACCAAATGGGCTCATATGTAGAA 58.623 41.667 0.00 0.00 41.12 2.10
933 958 5.957132 ACCAAATGGGCTCATATGTAGAAT 58.043 37.500 0.00 0.00 42.05 2.40
934 959 6.376248 ACCAAATGGGCTCATATGTAGAATT 58.624 36.000 0.00 0.00 42.05 2.17
935 960 6.266103 ACCAAATGGGCTCATATGTAGAATTG 59.734 38.462 0.00 0.00 42.05 2.32
951 976 6.443849 TGTAGAATTGTTATCCCTTCTCCTGT 59.556 38.462 0.00 0.00 0.00 4.00
961 986 1.303888 TTCTCCTGTCGTAGCCGGT 60.304 57.895 1.90 0.00 33.95 5.28
1342 1367 1.153127 CTCTCCGTCTACCTCCGCT 60.153 63.158 0.00 0.00 0.00 5.52
1343 1368 0.748729 CTCTCCGTCTACCTCCGCTT 60.749 60.000 0.00 0.00 0.00 4.68
1452 1477 1.377202 GGCAGGGATGCTTCGTGAA 60.377 57.895 0.00 0.00 34.73 3.18
1482 1507 0.469494 TGTATGCGGAGATGCCACAT 59.531 50.000 0.00 0.00 42.05 3.21
1604 1629 1.620819 GGATGTCATATCCTGGAGCGT 59.379 52.381 1.52 0.00 35.36 5.07
1608 1633 0.752658 TCATATCCTGGAGCGTGGTG 59.247 55.000 1.52 0.00 0.00 4.17
1683 1708 2.485677 CATGCCAGAGCGGAATGTT 58.514 52.632 0.00 0.00 45.18 2.71
2035 2060 5.449177 GGCTATGTTCAGCATAACTTGGTTC 60.449 44.000 0.00 0.00 43.67 3.62
2091 2116 1.813513 AGGATGCTGTTTCTTGGACG 58.186 50.000 0.00 0.00 0.00 4.79
2331 2356 4.319477 GCTAGCTTGACAACGTTGAATCAA 60.319 41.667 33.66 28.18 0.00 2.57
2760 2785 4.731773 GCCGAAGCACTGGAAATGATTAAG 60.732 45.833 0.00 0.00 39.53 1.85
2941 2966 1.271127 TGCGGGGATGAAGGATGACA 61.271 55.000 0.00 0.00 0.00 3.58
3105 3130 9.579932 AGCCAAAACCCAAAATAATAAAATTCA 57.420 25.926 0.00 0.00 0.00 2.57
3135 3160 2.416547 CTGTTGTAATGCCGAGAGTTGG 59.583 50.000 0.00 0.00 0.00 3.77
3337 3362 2.770164 ACAGGAGTATGTTCTGCACC 57.230 50.000 0.00 0.00 32.19 5.01
3346 3371 0.880278 TGTTCTGCACCGAGTGAAGC 60.880 55.000 8.04 0.00 38.98 3.86
3347 3372 0.880278 GTTCTGCACCGAGTGAAGCA 60.880 55.000 8.04 0.00 38.98 3.91
3348 3373 0.880278 TTCTGCACCGAGTGAAGCAC 60.880 55.000 8.04 0.00 38.98 4.40
3350 3375 1.563435 CTGCACCGAGTGAAGCACTG 61.563 60.000 4.60 0.00 45.44 3.66
3351 3376 1.300931 GCACCGAGTGAAGCACTGA 60.301 57.895 4.60 0.00 45.44 3.41
3352 3377 0.880278 GCACCGAGTGAAGCACTGAA 60.880 55.000 4.60 0.00 45.44 3.02
3353 3378 1.143305 CACCGAGTGAAGCACTGAAG 58.857 55.000 4.60 0.00 45.44 3.02
3476 6066 0.708802 AGACTTACGGGGAGAAGGGA 59.291 55.000 0.00 0.00 0.00 4.20
3525 6115 0.543749 AGCAGGGAGTTAGATGTGGC 59.456 55.000 0.00 0.00 0.00 5.01
3654 6244 7.696755 TGCATGCTAAATATATTATGCCTTCG 58.303 34.615 20.33 9.21 39.96 3.79
3977 6568 7.106239 AGGTGAGATGTTTAACCATACAGAAG 58.894 38.462 0.00 0.00 35.01 2.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 7.492669 TGTTTATCAGATACTCTGCAGTTTAGC 59.507 37.037 14.67 8.90 43.95 3.09
21 22 5.128499 AGTGCTGCTGTTTATCAGATACTCT 59.872 40.000 0.00 0.00 46.27 3.24
30 31 6.100004 TCTAGTTGTAGTGCTGCTGTTTATC 58.900 40.000 0.00 0.00 0.00 1.75
84 86 2.036256 ACATTGACCAGCAGGGCC 59.964 61.111 0.00 0.00 45.14 5.80
151 153 8.833493 ACAATGTACTGTTTTGAGTAGTTAACC 58.167 33.333 0.88 0.00 0.00 2.85
159 161 3.317993 GGGCACAATGTACTGTTTTGAGT 59.682 43.478 0.00 0.00 0.00 3.41
219 223 7.230510 GGTTTAGGCTTTGAAATTTGGGATTTT 59.769 33.333 0.00 0.00 0.00 1.82
262 266 3.681593 GAAGCTGGTTATTGTGGTGGTA 58.318 45.455 0.00 0.00 0.00 3.25
308 312 4.740334 GCGGGTATTTACGGTGGATTTCTA 60.740 45.833 0.00 0.00 0.00 2.10
366 370 2.734591 GTCCTGCTGTGTCGTCCA 59.265 61.111 0.00 0.00 0.00 4.02
421 426 0.902531 CTATGGTGTGTCGTCCCCTT 59.097 55.000 0.00 0.00 0.00 3.95
467 475 3.414700 CCGACCACGCAGCAAGTC 61.415 66.667 0.00 0.00 38.29 3.01
473 481 4.135153 CCTCCTCCGACCACGCAG 62.135 72.222 0.00 0.00 38.29 5.18
478 486 3.654143 TCGTCCCTCCTCCGACCA 61.654 66.667 0.00 0.00 0.00 4.02
517 525 3.876198 CTACAATGGCGGTGGCGC 61.876 66.667 0.00 0.00 41.24 6.53
520 528 1.078497 TCAGCTACAATGGCGGTGG 60.078 57.895 0.00 0.00 34.52 4.61
522 530 1.447838 CGTCAGCTACAATGGCGGT 60.448 57.895 0.00 0.00 41.88 5.68
564 572 3.376935 CTGTCTTGCTCGGGCCGAT 62.377 63.158 31.23 0.00 34.61 4.18
570 578 2.811317 GGCGTCTGTCTTGCTCGG 60.811 66.667 0.00 0.00 0.00 4.63
583 591 2.424601 CAATCATTCATCCACTTGGCGT 59.575 45.455 0.00 0.00 34.44 5.68
584 602 2.223641 CCAATCATTCATCCACTTGGCG 60.224 50.000 0.00 0.00 34.44 5.69
607 625 1.994399 TTATTGTGTCCCCTCCCCAT 58.006 50.000 0.00 0.00 0.00 4.00
651 670 0.684805 CCCGCACTACTCCTCTTCCT 60.685 60.000 0.00 0.00 0.00 3.36
655 678 0.251653 TCAACCCGCACTACTCCTCT 60.252 55.000 0.00 0.00 0.00 3.69
694 718 1.650645 GCGCTGCATTTTTCACTTAGC 59.349 47.619 0.00 0.00 0.00 3.09
749 773 2.304180 AGTCCAGGGTCAATCAGAACTG 59.696 50.000 0.00 0.00 33.21 3.16
761 785 5.140454 GGATATGCAAATTTAGTCCAGGGT 58.860 41.667 0.00 0.00 0.00 4.34
836 860 5.482006 CTGAACTTGTATGTCAGGTGATGA 58.518 41.667 0.00 0.00 36.49 2.92
850 874 0.107017 ACTGCAGTGCCTGAACTTGT 60.107 50.000 20.97 0.00 32.44 3.16
883 908 8.618952 CGAAGAGTTAACAATTCGACATTTTTC 58.381 33.333 27.60 6.52 45.50 2.29
884 909 8.339714 TCGAAGAGTTAACAATTCGACATTTTT 58.660 29.630 28.98 2.82 46.00 1.94
885 910 7.857569 TCGAAGAGTTAACAATTCGACATTTT 58.142 30.769 28.98 3.42 46.00 1.82
886 911 7.416154 TCGAAGAGTTAACAATTCGACATTT 57.584 32.000 28.98 4.81 46.00 2.32
892 917 5.585500 TTGGTCGAAGAGTTAACAATTCG 57.415 39.130 26.52 26.52 44.37 3.34
893 918 6.801862 CCATTTGGTCGAAGAGTTAACAATTC 59.198 38.462 8.61 10.08 36.95 2.17
894 919 6.294508 CCCATTTGGTCGAAGAGTTAACAATT 60.295 38.462 8.61 1.54 36.95 2.32
895 920 5.183140 CCCATTTGGTCGAAGAGTTAACAAT 59.817 40.000 8.61 0.00 36.95 2.71
896 921 4.517453 CCCATTTGGTCGAAGAGTTAACAA 59.483 41.667 8.61 0.00 36.95 2.83
897 922 4.069304 CCCATTTGGTCGAAGAGTTAACA 58.931 43.478 8.61 0.00 36.95 2.41
898 923 3.119955 GCCCATTTGGTCGAAGAGTTAAC 60.120 47.826 0.00 0.00 36.95 2.01
899 924 3.078837 GCCCATTTGGTCGAAGAGTTAA 58.921 45.455 0.00 0.00 36.95 2.01
900 925 2.304761 AGCCCATTTGGTCGAAGAGTTA 59.695 45.455 0.00 0.00 36.95 2.24
901 926 1.073923 AGCCCATTTGGTCGAAGAGTT 59.926 47.619 0.00 0.00 36.95 3.01
902 927 0.693049 AGCCCATTTGGTCGAAGAGT 59.307 50.000 0.00 0.00 36.95 3.24
903 928 1.339055 TGAGCCCATTTGGTCGAAGAG 60.339 52.381 0.00 0.00 36.95 2.85
904 929 0.690192 TGAGCCCATTTGGTCGAAGA 59.310 50.000 0.00 0.00 35.53 2.87
905 930 1.755179 ATGAGCCCATTTGGTCGAAG 58.245 50.000 0.00 0.00 35.53 3.79
906 931 3.213506 CATATGAGCCCATTTGGTCGAA 58.786 45.455 0.00 0.00 35.53 3.71
907 932 2.172505 ACATATGAGCCCATTTGGTCGA 59.827 45.455 10.38 0.00 36.46 4.20
908 933 2.575532 ACATATGAGCCCATTTGGTCG 58.424 47.619 10.38 0.00 36.46 4.79
909 934 4.973168 TCTACATATGAGCCCATTTGGTC 58.027 43.478 10.38 0.00 36.46 4.02
910 935 5.387113 TTCTACATATGAGCCCATTTGGT 57.613 39.130 10.38 0.00 36.46 3.67
911 936 6.266103 ACAATTCTACATATGAGCCCATTTGG 59.734 38.462 10.38 0.00 36.46 3.28
912 937 7.281040 ACAATTCTACATATGAGCCCATTTG 57.719 36.000 10.38 6.83 37.62 2.32
913 938 7.902920 AACAATTCTACATATGAGCCCATTT 57.097 32.000 10.38 0.00 34.31 2.32
914 939 9.236006 GATAACAATTCTACATATGAGCCCATT 57.764 33.333 10.38 0.00 34.31 3.16
915 940 7.831193 GGATAACAATTCTACATATGAGCCCAT 59.169 37.037 10.38 0.00 36.81 4.00
916 941 7.168219 GGATAACAATTCTACATATGAGCCCA 58.832 38.462 10.38 0.00 0.00 5.36
917 942 6.599638 GGGATAACAATTCTACATATGAGCCC 59.400 42.308 10.38 0.24 0.00 5.19
918 943 7.398024 AGGGATAACAATTCTACATATGAGCC 58.602 38.462 10.38 0.00 0.00 4.70
919 944 8.854614 AAGGGATAACAATTCTACATATGAGC 57.145 34.615 10.38 0.00 0.00 4.26
922 947 9.442047 GGAGAAGGGATAACAATTCTACATATG 57.558 37.037 0.00 0.00 33.58 1.78
923 948 9.398921 AGGAGAAGGGATAACAATTCTACATAT 57.601 33.333 0.00 0.00 35.45 1.78
924 949 8.651389 CAGGAGAAGGGATAACAATTCTACATA 58.349 37.037 0.00 0.00 35.45 2.29
925 950 7.127955 ACAGGAGAAGGGATAACAATTCTACAT 59.872 37.037 0.00 0.00 35.45 2.29
926 951 6.443849 ACAGGAGAAGGGATAACAATTCTACA 59.556 38.462 0.00 0.00 35.45 2.74
927 952 6.890293 ACAGGAGAAGGGATAACAATTCTAC 58.110 40.000 0.00 0.00 33.56 2.59
928 953 6.183360 CGACAGGAGAAGGGATAACAATTCTA 60.183 42.308 0.00 0.00 32.31 2.10
929 954 5.395768 CGACAGGAGAAGGGATAACAATTCT 60.396 44.000 0.00 0.00 34.78 2.40
930 955 4.811557 CGACAGGAGAAGGGATAACAATTC 59.188 45.833 0.00 0.00 0.00 2.17
931 956 4.225267 ACGACAGGAGAAGGGATAACAATT 59.775 41.667 0.00 0.00 0.00 2.32
932 957 3.775316 ACGACAGGAGAAGGGATAACAAT 59.225 43.478 0.00 0.00 0.00 2.71
933 958 3.170717 ACGACAGGAGAAGGGATAACAA 58.829 45.455 0.00 0.00 0.00 2.83
934 959 2.816411 ACGACAGGAGAAGGGATAACA 58.184 47.619 0.00 0.00 0.00 2.41
935 960 3.243468 GCTACGACAGGAGAAGGGATAAC 60.243 52.174 0.00 0.00 0.00 1.89
946 971 1.870055 GAACACCGGCTACGACAGGA 61.870 60.000 0.00 0.00 44.60 3.86
951 976 1.447140 GCATGAACACCGGCTACGA 60.447 57.895 0.00 0.00 44.60 3.43
961 986 2.440147 CCAGTGGGGGCATGAACA 59.560 61.111 0.00 0.00 0.00 3.18
1482 1507 1.532078 TACTGGGTCACGCCACTGA 60.532 57.895 0.00 0.00 39.65 3.41
1604 1629 2.284625 AGAGCCCATCGACCACCA 60.285 61.111 0.00 0.00 0.00 4.17
1608 1633 1.377202 TTTGCAGAGCCCATCGACC 60.377 57.895 0.00 0.00 0.00 4.79
1683 1708 0.891904 TCATCGAGGTCCACGACACA 60.892 55.000 13.89 0.00 42.37 3.72
2035 2060 2.880268 TGAACAGGACATGTGCTTCTTG 59.120 45.455 18.25 9.87 43.00 3.02
2091 2116 0.515564 CGAACCCAACAACCATCGAC 59.484 55.000 0.00 0.00 32.38 4.20
2739 2764 5.551760 ACTTAATCATTTCCAGTGCTTCG 57.448 39.130 0.00 0.00 0.00 3.79
2760 2785 1.202687 TGATCATTCTGGGGCATCGAC 60.203 52.381 0.00 0.00 0.00 4.20
2941 2966 6.998802 ACTGTAGAACTTTTAGCATGTCTCT 58.001 36.000 0.00 0.00 0.00 3.10
3105 3130 3.438781 CGGCATTACAACAGTTGTGGTAT 59.561 43.478 26.42 14.74 45.03 2.73
3135 3160 9.844790 TCTCAACATGATCAATAAAATCAACAC 57.155 29.630 0.00 0.00 36.75 3.32
3337 3362 1.436600 ATGCTTCAGTGCTTCACTCG 58.563 50.000 0.00 0.00 43.43 4.18
3350 3375 8.429008 GTCTCCTTAGAATCAGCCTTATGCTTC 61.429 44.444 0.00 0.00 40.41 3.86
3351 3376 6.687647 GTCTCCTTAGAATCAGCCTTATGCTT 60.688 42.308 0.00 0.00 40.41 3.91
3352 3377 5.221621 GTCTCCTTAGAATCAGCCTTATGCT 60.222 44.000 0.00 0.00 42.23 3.79
3353 3378 4.994217 GTCTCCTTAGAATCAGCCTTATGC 59.006 45.833 0.00 0.00 34.84 3.14
3476 6066 2.653726 TGTTCCATGTGTGCTTGTTCT 58.346 42.857 0.00 0.00 0.00 3.01
3654 6244 5.049818 GTGTTCTGCATCTGCCTATCATTAC 60.050 44.000 0.00 0.00 41.18 1.89
3977 6568 3.341823 ACTGGTCATGATTCTTGTGCTC 58.658 45.455 0.00 0.00 0.00 4.26


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

AutoCloner maintained by Alex Coulton.