Multiple sequence alignment - TraesCS2A01G334200

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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 TraesCS2A01G334200 chr2A 100.000 3843 0 0 1 3843 568283501 568287343 0.000000e+00 7097
1 TraesCS2A01G334200 chr2A 80.282 213 11 10 102 304 546771553 546771362 8.660000e-27 132
2 TraesCS2A01G334200 chr2D 96.296 2376 68 8 1475 3843 421793898 421796260 0.000000e+00 3882
3 TraesCS2A01G334200 chr2D 94.363 479 15 1 998 1476 421793350 421793816 0.000000e+00 725
4 TraesCS2A01G334200 chr2D 87.149 677 31 11 27 666 421792436 421793093 0.000000e+00 717
5 TraesCS2A01G334200 chr2D 89.855 276 19 2 19 293 421477136 421477403 2.840000e-91 346
6 TraesCS2A01G334200 chr2D 87.634 186 13 7 743 923 421793131 421793311 1.400000e-49 207
7 TraesCS2A01G334200 chr2B 96.884 1444 26 7 2401 3843 494265522 494266947 0.000000e+00 2399
8 TraesCS2A01G334200 chr2B 94.883 1153 41 10 997 2145 494263948 494265086 0.000000e+00 1786
9 TraesCS2A01G334200 chr2B 82.876 619 35 33 332 923 494263336 494263910 1.240000e-134 490
10 TraesCS2A01G334200 chr2B 97.628 253 3 3 2150 2402 494265169 494265418 7.630000e-117 431
11 TraesCS2A01G334200 chr2B 89.458 332 17 5 1 322 494260838 494261161 1.660000e-108 403
12 TraesCS2A01G334200 chr2B 81.849 292 20 14 27 313 493986606 493986869 8.360000e-52 215
13 TraesCS2A01G334200 chr7A 93.464 153 8 1 2271 2421 421785006 421785158 3.860000e-55 226
14 TraesCS2A01G334200 chr7B 91.558 154 11 1 2271 2422 369872719 369872872 1.080000e-50 211
15 TraesCS2A01G334200 chr7D 91.503 153 11 1 2271 2421 375400764 375400916 3.890000e-50 209
16 TraesCS2A01G334200 chr7D 89.634 164 13 3 2262 2421 454079067 454079230 5.030000e-49 206
17 TraesCS2A01G334200 chr5B 89.571 163 15 1 2262 2422 299602384 299602222 5.030000e-49 206
18 TraesCS2A01G334200 chr4B 90.506 158 11 2 2263 2418 146469210 146469365 5.030000e-49 206
19 TraesCS2A01G334200 chr5A 89.571 163 13 2 2262 2422 354544075 354544235 1.810000e-48 204


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 TraesCS2A01G334200 chr2A 568283501 568287343 3842 False 7097.00 7097 100.0000 1 3843 1 chr2A.!!$F1 3842
1 TraesCS2A01G334200 chr2D 421792436 421796260 3824 False 1382.75 3882 91.3605 27 3843 4 chr2D.!!$F2 3816
2 TraesCS2A01G334200 chr2B 494260838 494266947 6109 False 1101.80 2399 92.3458 1 3843 5 chr2B.!!$F2 3842

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
945 3173 0.031585 GCAACCACCTTCGTTTTCCC 59.968 55.0 0.0 0.0 0.0 3.97 F
1531 3843 0.171903 CCCGTTAGTACTCCACACCG 59.828 60.0 0.0 0.0 0.0 4.94 F
1920 4234 0.662619 ACCATGTGTCAAGTGTTGCG 59.337 50.0 0.0 0.0 0.0 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2001 4315 1.179174 GGCCTTTCCACCAACCAGTC 61.179 60.000 0.00 0.00 34.01 3.51 R
2593 5091 1.625315 TCAGTCACTGACTTCCCATGG 59.375 52.381 2.36 4.14 41.37 3.66 R
3165 5669 2.684881 GGAGGTAATGTCAACATGCTGG 59.315 50.000 0.00 0.00 36.56 4.85 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
74 75 1.466950 GCGGCTGCTATGTGTTTGTAA 59.533 47.619 11.21 0.00 38.39 2.41
75 76 2.727916 GCGGCTGCTATGTGTTTGTAAC 60.728 50.000 11.21 0.00 38.39 2.50
76 77 2.742053 CGGCTGCTATGTGTTTGTAACT 59.258 45.455 0.00 0.00 0.00 2.24
77 78 3.188460 CGGCTGCTATGTGTTTGTAACTT 59.812 43.478 0.00 0.00 0.00 2.66
78 79 4.320202 CGGCTGCTATGTGTTTGTAACTTT 60.320 41.667 0.00 0.00 0.00 2.66
79 80 4.917415 GGCTGCTATGTGTTTGTAACTTTG 59.083 41.667 0.00 0.00 0.00 2.77
80 81 5.507315 GGCTGCTATGTGTTTGTAACTTTGT 60.507 40.000 0.00 0.00 0.00 2.83
81 82 6.293735 GGCTGCTATGTGTTTGTAACTTTGTA 60.294 38.462 0.00 0.00 0.00 2.41
134 145 1.676635 GTGCAGGCCATTCTGAGCA 60.677 57.895 5.01 0.00 36.93 4.26
162 173 2.892425 GCTATGCCTGCGTCGCTT 60.892 61.111 19.50 0.92 0.00 4.68
197 208 1.317613 TTTGCTGGATGTGTGTGACC 58.682 50.000 0.00 0.00 0.00 4.02
207 218 2.217750 TGTGTGTGACCGGAAATGAAG 58.782 47.619 9.46 0.00 0.00 3.02
222 233 4.314440 AAGCGTGCTTGCTCGGGA 62.314 61.111 16.72 0.00 46.60 5.14
237 248 1.456287 GGGATTTGCGGGAGGCTAT 59.544 57.895 0.00 0.00 44.05 2.97
289 300 3.130869 TCAGCTTTGTGTGCAATTCTGTT 59.869 39.130 0.00 0.00 36.54 3.16
297 308 2.223782 TGTGCAATTCTGTTCTGTTGGC 60.224 45.455 0.00 0.00 0.00 4.52
314 325 1.211949 TGGCTGCCTATACCTTTGGTC 59.788 52.381 21.03 0.00 37.09 4.02
355 2531 5.690865 AGAACTAATGACCTGTTTGGACAA 58.309 37.500 0.00 0.00 43.14 3.18
397 2581 6.466885 TCTAGTACTTGTAGAAAGATGGCC 57.533 41.667 0.00 0.00 0.00 5.36
417 2601 4.518970 GGCCTTCAGACATTTCAACAGTTA 59.481 41.667 0.00 0.00 0.00 2.24
418 2602 5.183904 GGCCTTCAGACATTTCAACAGTTAT 59.816 40.000 0.00 0.00 0.00 1.89
438 2629 1.821216 TTTTTCTAGAAGCAGCCGGG 58.179 50.000 2.18 0.00 0.00 5.73
439 2630 0.035439 TTTTCTAGAAGCAGCCGGGG 60.035 55.000 2.18 0.00 0.00 5.73
553 2746 1.086696 GAACACATCGGTCCATGGTG 58.913 55.000 12.58 4.55 0.00 4.17
554 2747 0.400213 AACACATCGGTCCATGGTGT 59.600 50.000 12.58 5.28 0.00 4.16
555 2748 0.036388 ACACATCGGTCCATGGTGTC 60.036 55.000 12.58 3.79 0.00 3.67
556 2749 0.744414 CACATCGGTCCATGGTGTCC 60.744 60.000 12.58 11.85 0.00 4.02
557 2750 1.198094 ACATCGGTCCATGGTGTCCA 61.198 55.000 12.58 5.14 38.19 4.02
666 2885 3.506096 GGTTTTAGCCGCGAGCCC 61.506 66.667 8.23 1.73 45.47 5.19
667 2886 3.861263 GTTTTAGCCGCGAGCCCG 61.861 66.667 8.23 0.00 45.47 6.13
689 2908 4.552365 CGGGGCCATCGCTCACAT 62.552 66.667 4.39 0.00 37.12 3.21
690 2909 2.828868 GGGGCCATCGCTCACATA 59.171 61.111 4.39 0.00 37.12 2.29
691 2910 1.302033 GGGGCCATCGCTCACATAG 60.302 63.158 4.39 0.00 37.12 2.23
692 2911 1.447643 GGGCCATCGCTCACATAGT 59.552 57.895 4.39 0.00 34.62 2.12
693 2912 0.601311 GGGCCATCGCTCACATAGTC 60.601 60.000 4.39 0.00 34.62 2.59
706 2925 2.095853 CACATAGTCACATGGAAACGGC 59.904 50.000 0.00 0.00 0.00 5.68
707 2926 1.670811 CATAGTCACATGGAAACGGCC 59.329 52.381 0.00 0.00 0.00 6.13
715 2934 3.488090 GGAAACGGCCGAGCGAAG 61.488 66.667 35.90 0.00 0.00 3.79
757 2976 1.734117 CCGACCGTTCACCGTTACC 60.734 63.158 0.00 0.00 33.66 2.85
861 3089 4.877619 TCCAAACCGGCAACCGCA 62.878 61.111 0.00 0.00 46.86 5.69
862 3090 4.639171 CCAAACCGGCAACCGCAC 62.639 66.667 0.00 0.00 46.86 5.34
907 3135 2.874664 CGACCCGACCAAACTCCCA 61.875 63.158 0.00 0.00 0.00 4.37
929 3157 2.683933 GTCCCCTCCTCCTCGCAA 60.684 66.667 0.00 0.00 0.00 4.85
930 3158 2.683933 TCCCCTCCTCCTCGCAAC 60.684 66.667 0.00 0.00 0.00 4.17
931 3159 3.787001 CCCCTCCTCCTCGCAACC 61.787 72.222 0.00 0.00 0.00 3.77
932 3160 3.003173 CCCTCCTCCTCGCAACCA 61.003 66.667 0.00 0.00 0.00 3.67
933 3161 2.266055 CCTCCTCCTCGCAACCAC 59.734 66.667 0.00 0.00 0.00 4.16
934 3162 2.266055 CTCCTCCTCGCAACCACC 59.734 66.667 0.00 0.00 0.00 4.61
935 3163 2.203788 TCCTCCTCGCAACCACCT 60.204 61.111 0.00 0.00 0.00 4.00
936 3164 1.831652 CTCCTCCTCGCAACCACCTT 61.832 60.000 0.00 0.00 0.00 3.50
937 3165 1.376037 CCTCCTCGCAACCACCTTC 60.376 63.158 0.00 0.00 0.00 3.46
938 3166 1.738099 CTCCTCGCAACCACCTTCG 60.738 63.158 0.00 0.00 0.00 3.79
939 3167 2.030562 CCTCGCAACCACCTTCGT 59.969 61.111 0.00 0.00 0.00 3.85
940 3168 1.597027 CCTCGCAACCACCTTCGTT 60.597 57.895 0.00 0.00 0.00 3.85
941 3169 1.164041 CCTCGCAACCACCTTCGTTT 61.164 55.000 0.00 0.00 0.00 3.60
942 3170 0.661020 CTCGCAACCACCTTCGTTTT 59.339 50.000 0.00 0.00 0.00 2.43
943 3171 0.658897 TCGCAACCACCTTCGTTTTC 59.341 50.000 0.00 0.00 0.00 2.29
944 3172 0.317519 CGCAACCACCTTCGTTTTCC 60.318 55.000 0.00 0.00 0.00 3.13
945 3173 0.031585 GCAACCACCTTCGTTTTCCC 59.968 55.000 0.00 0.00 0.00 3.97
946 3174 0.309612 CAACCACCTTCGTTTTCCCG 59.690 55.000 0.00 0.00 0.00 5.14
947 3175 0.180878 AACCACCTTCGTTTTCCCGA 59.819 50.000 0.00 0.00 34.52 5.14
948 3176 0.180878 ACCACCTTCGTTTTCCCGAA 59.819 50.000 0.00 0.00 43.96 4.30
949 3177 0.589708 CCACCTTCGTTTTCCCGAAC 59.410 55.000 0.00 0.00 41.54 3.95
950 3178 0.589708 CACCTTCGTTTTCCCGAACC 59.410 55.000 0.00 0.00 41.54 3.62
951 3179 0.180878 ACCTTCGTTTTCCCGAACCA 59.819 50.000 0.00 0.00 41.54 3.67
952 3180 1.310904 CCTTCGTTTTCCCGAACCAA 58.689 50.000 0.00 0.00 41.54 3.67
953 3181 1.002142 CCTTCGTTTTCCCGAACCAAC 60.002 52.381 0.00 0.00 41.54 3.77
954 3182 1.002142 CTTCGTTTTCCCGAACCAACC 60.002 52.381 0.00 0.00 41.54 3.77
960 3188 2.962142 TTCCCGAACCAACCAACCCG 62.962 60.000 0.00 0.00 0.00 5.28
963 3191 3.666253 GAACCAACCAACCCGCCG 61.666 66.667 0.00 0.00 0.00 6.46
991 3219 4.803426 CGGCTGCCCTGACTCGAC 62.803 72.222 14.12 0.00 0.00 4.20
992 3220 4.803426 GGCTGCCCTGACTCGACG 62.803 72.222 7.66 0.00 0.00 5.12
993 3221 4.803426 GCTGCCCTGACTCGACGG 62.803 72.222 0.00 0.00 0.00 4.79
994 3222 3.062466 CTGCCCTGACTCGACGGA 61.062 66.667 0.00 0.00 0.00 4.69
995 3223 3.343788 CTGCCCTGACTCGACGGAC 62.344 68.421 0.00 0.00 0.00 4.79
1174 3402 4.377760 TCGCGTCCTTCCTCCCCT 62.378 66.667 5.77 0.00 0.00 4.79
1177 3405 2.038975 CGTCCTTCCTCCCCTCCA 59.961 66.667 0.00 0.00 0.00 3.86
1178 3406 2.359967 CGTCCTTCCTCCCCTCCAC 61.360 68.421 0.00 0.00 0.00 4.02
1179 3407 1.996187 GTCCTTCCTCCCCTCCACC 60.996 68.421 0.00 0.00 0.00 4.61
1180 3408 2.692741 CCTTCCTCCCCTCCACCC 60.693 72.222 0.00 0.00 0.00 4.61
1181 3409 2.692741 CTTCCTCCCCTCCACCCC 60.693 72.222 0.00 0.00 0.00 4.95
1182 3410 4.364686 TTCCTCCCCTCCACCCCC 62.365 72.222 0.00 0.00 0.00 5.40
1343 3571 2.650196 CGGGGTCGGTACAACGAA 59.350 61.111 0.00 0.00 45.38 3.85
1359 3587 0.794981 CGAACGAGCTCTTCACTCCG 60.795 60.000 12.85 0.00 0.00 4.63
1531 3843 0.171903 CCCGTTAGTACTCCACACCG 59.828 60.000 0.00 0.00 0.00 4.94
1625 3939 7.222999 GCAAATGCTTAGAAGTAGACGTAGAAT 59.777 37.037 0.00 0.00 38.21 2.40
1781 4095 2.283529 CGGGGTCTGTGCAGGTAGT 61.284 63.158 0.00 0.00 0.00 2.73
1920 4234 0.662619 ACCATGTGTCAAGTGTTGCG 59.337 50.000 0.00 0.00 0.00 4.85
2001 4315 9.078990 TCTACAATGTATACTTGGATACTGAGG 57.921 37.037 15.13 0.00 34.05 3.86
2477 4974 6.877611 ACTTTGTTGGTCTATACTTGTTGG 57.122 37.500 0.00 0.00 0.00 3.77
2519 5016 5.394224 TGTCACTGTATGTTACGAATCCA 57.606 39.130 0.00 0.00 0.00 3.41
2593 5091 8.677300 TCAAATCTATATTTTGGCAGAGTGAAC 58.323 33.333 7.89 0.00 32.87 3.18
2599 5097 0.251297 TTGGCAGAGTGAACCATGGG 60.251 55.000 18.09 0.00 32.39 4.00
3042 5540 2.849294 AGAGGTCAGGAAAGTTCAGC 57.151 50.000 0.00 0.00 0.00 4.26
3105 5603 6.808212 ACTATCATTATTGTTGTTGTTGCTGC 59.192 34.615 0.00 0.00 0.00 5.25
3108 5606 2.965572 ATTGTTGTTGTTGCTGCTGT 57.034 40.000 0.00 0.00 0.00 4.40
3111 5609 1.271934 TGTTGTTGTTGCTGCTGTTGT 59.728 42.857 0.00 0.00 0.00 3.32
3165 5669 7.992180 AAAATGTGAAGTCAAGTGTCAAATC 57.008 32.000 0.00 0.00 0.00 2.17
3624 6128 5.366768 AGCCTGAGAGCAAAAGGTATGTATA 59.633 40.000 0.00 0.00 33.34 1.47
3625 6129 6.043706 AGCCTGAGAGCAAAAGGTATGTATAT 59.956 38.462 0.00 0.00 33.34 0.86
3651 6155 9.123902 TGTATATCAGCTTAAGCACAATTGATT 57.876 29.630 28.39 17.93 45.16 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 2.146342 CTTGCCTGTGACTACCACTTG 58.854 52.381 0.00 0.00 45.86 3.16
78 79 9.221933 CCCAAAGTTTTACACTACATACATACA 57.778 33.333 0.00 0.00 32.94 2.29
79 80 8.671028 CCCCAAAGTTTTACACTACATACATAC 58.329 37.037 0.00 0.00 32.94 2.39
80 81 7.337436 GCCCCAAAGTTTTACACTACATACATA 59.663 37.037 0.00 0.00 32.94 2.29
81 82 6.152154 GCCCCAAAGTTTTACACTACATACAT 59.848 38.462 0.00 0.00 32.94 2.29
122 123 2.178890 CCGCTCTGCTCAGAATGGC 61.179 63.158 0.93 0.97 36.94 4.40
134 145 2.420890 GCATAGCTCTGCCGCTCT 59.579 61.111 12.87 0.00 41.30 4.09
148 159 1.153369 ATACAAGCGACGCAGGCAT 60.153 52.632 23.70 6.63 0.00 4.40
162 173 2.766263 AGCAAATCTCTCCGTCCATACA 59.234 45.455 0.00 0.00 0.00 2.29
197 208 1.067199 GCAAGCACGCTTCATTTCCG 61.067 55.000 0.16 0.00 33.42 4.30
207 218 2.690778 AAATCCCGAGCAAGCACGC 61.691 57.895 6.37 0.00 0.00 5.34
222 233 2.233271 CATGAATAGCCTCCCGCAAAT 58.767 47.619 0.00 0.00 41.38 2.32
237 248 5.104817 TGTTGAGATAGTGATGGAGCATGAA 60.105 40.000 0.00 0.00 0.00 2.57
289 300 1.879575 AGGTATAGGCAGCCAACAGA 58.120 50.000 15.80 0.00 0.00 3.41
297 308 2.093658 ACGTGACCAAAGGTATAGGCAG 60.094 50.000 0.00 0.00 35.25 4.85
327 338 9.444600 GTCCAAACAGGTCATTAGTTCTATTTA 57.555 33.333 0.00 0.00 39.02 1.40
328 339 7.942341 TGTCCAAACAGGTCATTAGTTCTATTT 59.058 33.333 0.00 0.00 39.02 1.40
337 2513 9.747898 AGTTTATATTGTCCAAACAGGTCATTA 57.252 29.630 0.00 0.00 35.34 1.90
390 2574 3.726557 TGAAATGTCTGAAGGCCATCT 57.273 42.857 9.78 0.00 0.00 2.90
553 2746 1.065199 TGATTGATGCCTGGACTGGAC 60.065 52.381 0.00 0.00 0.00 4.02
554 2747 1.065199 GTGATTGATGCCTGGACTGGA 60.065 52.381 0.00 0.00 0.00 3.86
555 2748 1.064906 AGTGATTGATGCCTGGACTGG 60.065 52.381 0.00 0.00 0.00 4.00
556 2749 2.414994 AGTGATTGATGCCTGGACTG 57.585 50.000 0.00 0.00 0.00 3.51
557 2750 2.306805 TCAAGTGATTGATGCCTGGACT 59.693 45.455 0.00 0.00 0.00 3.85
672 2891 3.163832 TATGTGAGCGATGGCCCCG 62.164 63.158 0.00 5.08 41.24 5.73
673 2892 1.302033 CTATGTGAGCGATGGCCCC 60.302 63.158 0.00 0.00 41.24 5.80
674 2893 0.601311 GACTATGTGAGCGATGGCCC 60.601 60.000 0.00 0.00 41.24 5.80
675 2894 0.104855 TGACTATGTGAGCGATGGCC 59.895 55.000 0.00 0.00 41.24 5.36
676 2895 1.212616 GTGACTATGTGAGCGATGGC 58.787 55.000 0.00 0.00 40.37 4.40
677 2896 2.584492 TGTGACTATGTGAGCGATGG 57.416 50.000 0.00 0.00 0.00 3.51
678 2897 2.798847 CCATGTGACTATGTGAGCGATG 59.201 50.000 0.00 0.00 0.00 3.84
679 2898 2.695147 TCCATGTGACTATGTGAGCGAT 59.305 45.455 0.00 0.00 0.00 4.58
680 2899 2.099405 TCCATGTGACTATGTGAGCGA 58.901 47.619 0.00 0.00 0.00 4.93
681 2900 2.584492 TCCATGTGACTATGTGAGCG 57.416 50.000 0.00 0.00 0.00 5.03
682 2901 3.062639 CGTTTCCATGTGACTATGTGAGC 59.937 47.826 0.00 0.00 0.00 4.26
683 2902 3.618594 CCGTTTCCATGTGACTATGTGAG 59.381 47.826 0.00 0.00 0.00 3.51
684 2903 3.595173 CCGTTTCCATGTGACTATGTGA 58.405 45.455 0.00 0.00 0.00 3.58
685 2904 2.095853 GCCGTTTCCATGTGACTATGTG 59.904 50.000 0.00 0.00 0.00 3.21
686 2905 2.356135 GCCGTTTCCATGTGACTATGT 58.644 47.619 0.00 0.00 0.00 2.29
687 2906 1.670811 GGCCGTTTCCATGTGACTATG 59.329 52.381 0.00 0.00 0.00 2.23
688 2907 1.742411 CGGCCGTTTCCATGTGACTAT 60.742 52.381 19.50 0.00 0.00 2.12
689 2908 0.390603 CGGCCGTTTCCATGTGACTA 60.391 55.000 19.50 0.00 0.00 2.59
690 2909 1.671054 CGGCCGTTTCCATGTGACT 60.671 57.895 19.50 0.00 0.00 3.41
691 2910 1.635663 CTCGGCCGTTTCCATGTGAC 61.636 60.000 27.15 0.00 0.00 3.67
692 2911 1.375396 CTCGGCCGTTTCCATGTGA 60.375 57.895 27.15 0.00 0.00 3.58
693 2912 3.039202 GCTCGGCCGTTTCCATGTG 62.039 63.158 27.15 6.31 0.00 3.21
720 2939 0.741915 GGTGGTTTTGGCGTTTGAGA 59.258 50.000 0.00 0.00 0.00 3.27
811 3037 4.767255 CTGGGGGTCGTGCTGCTC 62.767 72.222 0.00 0.00 0.00 4.26
865 3093 4.379243 AGACGGCGGCTTGGACTG 62.379 66.667 10.88 0.00 0.00 3.51
889 3117 2.047560 GGGAGTTTGGTCGGGTCG 60.048 66.667 0.00 0.00 0.00 4.79
894 3122 3.047877 GCGGTGGGAGTTTGGTCG 61.048 66.667 0.00 0.00 0.00 4.79
917 3145 1.831652 AAGGTGGTTGCGAGGAGGAG 61.832 60.000 0.00 0.00 0.00 3.69
923 3151 0.661020 AAAACGAAGGTGGTTGCGAG 59.339 50.000 0.00 0.00 0.00 5.03
924 3152 0.658897 GAAAACGAAGGTGGTTGCGA 59.341 50.000 0.00 0.00 0.00 5.10
925 3153 0.317519 GGAAAACGAAGGTGGTTGCG 60.318 55.000 0.00 0.00 0.00 4.85
926 3154 0.031585 GGGAAAACGAAGGTGGTTGC 59.968 55.000 0.00 0.00 0.00 4.17
927 3155 0.309612 CGGGAAAACGAAGGTGGTTG 59.690 55.000 0.00 0.00 35.47 3.77
928 3156 0.180878 TCGGGAAAACGAAGGTGGTT 59.819 50.000 0.00 0.00 40.34 3.67
929 3157 0.180878 TTCGGGAAAACGAAGGTGGT 59.819 50.000 0.00 0.00 46.68 4.16
930 3158 3.009612 TTCGGGAAAACGAAGGTGG 57.990 52.632 0.00 0.00 46.68 4.61
936 3164 0.107312 TGGTTGGTTCGGGAAAACGA 60.107 50.000 0.00 0.00 41.76 3.85
937 3165 0.739561 TTGGTTGGTTCGGGAAAACG 59.260 50.000 0.00 0.00 0.00 3.60
938 3166 1.202440 GGTTGGTTGGTTCGGGAAAAC 60.202 52.381 0.00 0.00 0.00 2.43
939 3167 1.112950 GGTTGGTTGGTTCGGGAAAA 58.887 50.000 0.00 0.00 0.00 2.29
940 3168 0.756070 GGGTTGGTTGGTTCGGGAAA 60.756 55.000 0.00 0.00 0.00 3.13
941 3169 1.152715 GGGTTGGTTGGTTCGGGAA 60.153 57.895 0.00 0.00 0.00 3.97
942 3170 2.516909 GGGTTGGTTGGTTCGGGA 59.483 61.111 0.00 0.00 0.00 5.14
943 3171 2.981350 CGGGTTGGTTGGTTCGGG 60.981 66.667 0.00 0.00 0.00 5.14
944 3172 3.666253 GCGGGTTGGTTGGTTCGG 61.666 66.667 0.00 0.00 0.00 4.30
945 3173 3.666253 GGCGGGTTGGTTGGTTCG 61.666 66.667 0.00 0.00 0.00 3.95
946 3174 3.666253 CGGCGGGTTGGTTGGTTC 61.666 66.667 0.00 0.00 0.00 3.62
974 3202 4.803426 GTCGAGTCAGGGCAGCCG 62.803 72.222 5.00 0.00 0.00 5.52
975 3203 4.803426 CGTCGAGTCAGGGCAGCC 62.803 72.222 1.26 1.26 0.00 4.85
976 3204 4.803426 CCGTCGAGTCAGGGCAGC 62.803 72.222 0.00 0.00 0.00 5.25
977 3205 3.062466 TCCGTCGAGTCAGGGCAG 61.062 66.667 0.00 0.00 0.00 4.85
978 3206 3.371063 GTCCGTCGAGTCAGGGCA 61.371 66.667 0.00 0.00 0.00 5.36
979 3207 4.131088 GGTCCGTCGAGTCAGGGC 62.131 72.222 0.00 0.00 0.00 5.19
982 3210 4.813526 CGCGGTCCGTCGAGTCAG 62.814 72.222 19.10 0.00 0.00 3.51
985 3213 4.175489 CATCGCGGTCCGTCGAGT 62.175 66.667 26.44 16.36 38.28 4.18
1339 3567 0.241481 GGAGTGAAGAGCTCGTTCGT 59.759 55.000 8.37 4.53 34.00 3.85
1343 3571 4.082657 ACGGAGTGAAGAGCTCGT 57.917 55.556 8.37 4.54 42.51 4.18
1359 3587 3.198200 GGGTAAGGAGAAGAAGGGAAGAC 59.802 52.174 0.00 0.00 0.00 3.01
1557 3869 3.007506 TGCTAAATCGGAGGAAGACAACA 59.992 43.478 0.00 0.00 0.00 3.33
1558 3870 3.596214 TGCTAAATCGGAGGAAGACAAC 58.404 45.455 0.00 0.00 0.00 3.32
1611 3925 5.184711 AGGTCGAGAATTCTACGTCTACTT 58.815 41.667 8.25 2.97 0.00 2.24
1617 3931 5.831702 AATGTAGGTCGAGAATTCTACGT 57.168 39.130 8.25 8.26 35.98 3.57
1618 3932 5.051641 GCAAATGTAGGTCGAGAATTCTACG 60.052 44.000 8.25 13.47 35.98 3.51
1625 3939 5.759506 TTTTTGCAAATGTAGGTCGAGAA 57.240 34.783 13.65 0.00 0.00 2.87
1687 4001 6.041637 TCACTCTAGAAACAGCACCTTTCTAA 59.958 38.462 10.14 3.97 38.92 2.10
1696 4010 3.161067 AGCTCTCACTCTAGAAACAGCA 58.839 45.455 0.00 0.00 0.00 4.41
1920 4234 7.649705 TGAGACGAATCTAATCTGAATAAGCAC 59.350 37.037 0.00 0.00 34.34 4.40
1957 4271 4.947388 TGTAGAATGGCCATTTTCCTGTAC 59.053 41.667 31.13 20.63 0.00 2.90
2001 4315 1.179174 GGCCTTTCCACCAACCAGTC 61.179 60.000 0.00 0.00 34.01 3.51
2348 4740 7.284034 GGACCATACAGACTGAAATGAATGAAT 59.716 37.037 10.08 0.00 0.00 2.57
2396 4788 8.723365 TGTACTCCCTCCATTCACAAATATAAT 58.277 33.333 0.00 0.00 0.00 1.28
2519 5016 4.630894 TGTTTTCGACAAAGCACAGAAT 57.369 36.364 0.00 0.00 34.69 2.40
2593 5091 1.625315 TCAGTCACTGACTTCCCATGG 59.375 52.381 2.36 4.14 41.37 3.66
3014 5512 6.200878 ACTTTCCTGACCTCTTTATTTCCA 57.799 37.500 0.00 0.00 0.00 3.53
3042 5540 4.904116 AGTAACACAACAACAACATCGTG 58.096 39.130 0.00 0.00 0.00 4.35
3078 5576 9.277565 CAGCAACAACAACAATAATGATAGTAC 57.722 33.333 0.00 0.00 0.00 2.73
3165 5669 2.684881 GGAGGTAATGTCAACATGCTGG 59.315 50.000 0.00 0.00 36.56 4.85
3343 5847 5.841783 AGTGTTTTAAGAGAGGGAAGAGAGT 59.158 40.000 0.00 0.00 0.00 3.24
3624 6128 8.681486 TCAATTGTGCTTAAGCTGATATACAT 57.319 30.769 26.90 6.37 42.66 2.29
3625 6129 8.681486 ATCAATTGTGCTTAAGCTGATATACA 57.319 30.769 26.90 18.46 42.66 2.29
3640 6144 5.523188 TCTGGAACAAAACAATCAATTGTGC 59.477 36.000 9.03 0.00 44.60 4.57
3645 6149 8.977505 CGTAATTTCTGGAACAAAACAATCAAT 58.022 29.630 0.00 0.00 38.70 2.57
3651 6155 5.591067 AGACCGTAATTTCTGGAACAAAACA 59.409 36.000 0.00 0.00 38.70 2.83
3656 6160 5.221682 TGGTAAGACCGTAATTTCTGGAACA 60.222 40.000 0.00 0.00 42.58 3.18


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

AutoCloner maintained by Alex Coulton.