Multiple sequence alignment - TraesCS2B01G313900

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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 TraesCS2B01G313900 chr2B 100.000 2987 0 0 1 2987 449122004 449119018 0.000000e+00 5517
1 TraesCS2B01G313900 chr2D 93.451 2901 83 26 1 2832 377504951 377502089 0.000000e+00 4205
2 TraesCS2B01G313900 chr2A 91.956 2362 91 35 531 2821 511924006 511921673 0.000000e+00 3217
3 TraesCS2B01G313900 chr2A 90.844 557 27 7 1 543 511924573 511924027 0.000000e+00 725
4 TraesCS2B01G313900 chr5D 80.000 345 69 0 1544 1888 528230433 528230089 3.820000e-64 255
5 TraesCS2B01G313900 chr5A 79.941 339 68 0 1544 1882 656210527 656210189 1.780000e-62 250
6 TraesCS2B01G313900 chr5B 79.480 346 69 2 1544 1888 664998549 664998205 8.270000e-61 244


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 TraesCS2B01G313900 chr2B 449119018 449122004 2986 True 5517 5517 100.000 1 2987 1 chr2B.!!$R1 2986
1 TraesCS2B01G313900 chr2D 377502089 377504951 2862 True 4205 4205 93.451 1 2832 1 chr2D.!!$R1 2831
2 TraesCS2B01G313900 chr2A 511921673 511924573 2900 True 1971 3217 91.400 1 2821 2 chr2A.!!$R1 2820

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
99 107 0.974383 CTTTCCCACTCCCACTACGT 59.026 55.000 0.0 0.0 0.0 3.57 F
473 490 1.135315 CAATGATTGCCAGACCAACCG 60.135 52.381 0.0 0.0 0.0 4.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1537 1642 0.391661 GCGATGGTCACCTGTGTCAT 60.392 55.0 0.0 7.98 0.0 3.06 R
2328 2445 2.353011 GCACCATCCTCAACCAAACATG 60.353 50.0 0.0 0.00 0.0 3.21 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
62 70 2.360542 CGCTCGCGTGCTATGCTAG 61.361 63.158 27.95 9.28 34.35 3.42
99 107 0.974383 CTTTCCCACTCCCACTACGT 59.026 55.000 0.00 0.00 0.00 3.57
103 111 2.809601 CACTCCCACTACGTGCGC 60.810 66.667 0.00 0.00 31.34 6.09
104 112 4.415332 ACTCCCACTACGTGCGCG 62.415 66.667 19.78 19.78 44.93 6.86
250 261 5.976323 AGCTAGGGATAGGAGATTTCTCTT 58.024 41.667 7.47 2.70 42.48 2.85
330 345 4.369591 ACCATGCCTCCCTCCCCA 62.370 66.667 0.00 0.00 0.00 4.96
341 356 2.080536 CCTCCCCAGATCCATGCCA 61.081 63.158 0.00 0.00 0.00 4.92
349 364 2.495084 CAGATCCATGCCACTCTGATG 58.505 52.381 6.31 0.00 37.85 3.07
409 425 3.729217 GTGTTTAACGGCTCTGCTTTTTC 59.271 43.478 0.00 0.00 0.00 2.29
410 426 3.378742 TGTTTAACGGCTCTGCTTTTTCA 59.621 39.130 0.00 0.00 0.00 2.69
462 479 2.223433 GCTAGCACAGGTCAATGATTGC 60.223 50.000 10.63 0.00 0.00 3.56
473 490 1.135315 CAATGATTGCCAGACCAACCG 60.135 52.381 0.00 0.00 0.00 4.44
479 496 1.323271 TGCCAGACCAACCGCAAAAA 61.323 50.000 0.00 0.00 0.00 1.94
503 522 3.922910 TCAGCTCATGTTCTCAGAAGTG 58.077 45.455 0.00 0.00 0.00 3.16
839 912 1.692749 ACACCACACCACCTCCTGT 60.693 57.895 0.00 0.00 0.00 4.00
878 951 4.524053 ACTTTTGTAAGCCTATAGCCACC 58.476 43.478 0.00 0.00 45.47 4.61
1231 1313 5.239306 CAGGTTGCACATCTCAAACTTCTTA 59.761 40.000 0.00 0.00 39.27 2.10
1253 1335 8.474831 TCTTATTTTCATTCATCTCGGACAGTA 58.525 33.333 0.00 0.00 0.00 2.74
1257 1339 2.913777 TTCATCTCGGACAGTACACG 57.086 50.000 0.00 0.00 0.00 4.49
1300 1387 5.508224 GCTGCTACGCACAAAATTAGTAAAG 59.492 40.000 0.00 0.00 33.79 1.85
1392 1482 6.152661 AGTGAATCATGCTAGCTAGGAGTATC 59.847 42.308 22.10 15.53 0.00 2.24
1447 1545 2.968574 GTGAGGGAATCTAGCTGGATCA 59.031 50.000 13.54 4.62 0.00 2.92
1560 1665 2.880879 CAGGTGACCATCGCGTCG 60.881 66.667 5.77 0.00 35.40 5.12
1671 1776 2.520982 CCGGCGATCTACCAGGGA 60.521 66.667 9.30 0.00 0.00 4.20
2283 2392 4.580580 ACTTGTAAAAGCAGAGTTTCCCTG 59.419 41.667 0.00 0.00 34.88 4.45
2307 2420 0.460811 TGCATCTCAGTGTCCGCATC 60.461 55.000 0.00 0.00 0.00 3.91
2374 2491 5.389859 TGCAAAAGAGGAATGTACAATGG 57.610 39.130 0.00 0.00 0.00 3.16
2648 2796 1.807981 CCATTTGCCACAGCGCATG 60.808 57.895 11.47 7.54 44.31 4.06
2688 2836 1.798813 GAAATCTGAAACCGACGTGCT 59.201 47.619 0.00 0.00 0.00 4.40
2733 2881 4.893241 GCGTCACGACACTTTTGG 57.107 55.556 0.00 0.00 0.00 3.28
2745 2893 1.663695 ACTTTTGGTGAGTGTCCACG 58.336 50.000 0.00 0.00 37.91 4.94
2773 2921 1.430228 GAGAGAAGGGAGCGTCGAC 59.570 63.158 5.18 5.18 0.00 4.20
2859 3007 4.148825 GACTCGGGCGGTGCAGAT 62.149 66.667 0.00 0.00 0.00 2.90
2860 3008 4.148825 ACTCGGGCGGTGCAGATC 62.149 66.667 0.00 0.00 0.00 2.75
2861 3009 4.899239 CTCGGGCGGTGCAGATCC 62.899 72.222 0.00 0.00 0.00 3.36
2863 3011 3.536917 CGGGCGGTGCAGATCCTA 61.537 66.667 0.00 0.00 0.00 2.94
2864 3012 2.423446 GGGCGGTGCAGATCCTAG 59.577 66.667 0.00 0.00 0.00 3.02
2865 3013 2.435693 GGGCGGTGCAGATCCTAGT 61.436 63.158 0.00 0.00 0.00 2.57
2866 3014 1.068250 GGCGGTGCAGATCCTAGTC 59.932 63.158 0.00 0.00 0.00 2.59
2867 3015 1.395826 GGCGGTGCAGATCCTAGTCT 61.396 60.000 0.00 0.00 0.00 3.24
2868 3016 0.249238 GCGGTGCAGATCCTAGTCTG 60.249 60.000 6.09 6.09 46.59 3.51
2874 3022 0.387202 CAGATCCTAGTCTGCCACCG 59.613 60.000 0.00 0.00 39.19 4.94
2875 3023 0.033011 AGATCCTAGTCTGCCACCGT 60.033 55.000 0.00 0.00 0.00 4.83
2876 3024 0.103208 GATCCTAGTCTGCCACCGTG 59.897 60.000 0.00 0.00 0.00 4.94
2877 3025 0.614979 ATCCTAGTCTGCCACCGTGT 60.615 55.000 0.00 0.00 0.00 4.49
2878 3026 1.215647 CCTAGTCTGCCACCGTGTC 59.784 63.158 0.00 0.00 0.00 3.67
2879 3027 1.251527 CCTAGTCTGCCACCGTGTCT 61.252 60.000 0.00 0.00 0.00 3.41
2880 3028 0.603569 CTAGTCTGCCACCGTGTCTT 59.396 55.000 0.00 0.00 0.00 3.01
2881 3029 0.601558 TAGTCTGCCACCGTGTCTTC 59.398 55.000 0.00 0.00 0.00 2.87
2882 3030 1.115930 AGTCTGCCACCGTGTCTTCT 61.116 55.000 0.00 0.00 0.00 2.85
2883 3031 0.667792 GTCTGCCACCGTGTCTTCTC 60.668 60.000 0.00 0.00 0.00 2.87
2884 3032 1.374758 CTGCCACCGTGTCTTCTCC 60.375 63.158 0.00 0.00 0.00 3.71
2885 3033 1.821061 CTGCCACCGTGTCTTCTCCT 61.821 60.000 0.00 0.00 0.00 3.69
2886 3034 1.079750 GCCACCGTGTCTTCTCCTC 60.080 63.158 0.00 0.00 0.00 3.71
2887 3035 1.213013 CCACCGTGTCTTCTCCTCG 59.787 63.158 0.00 0.00 0.00 4.63
2888 3036 1.524863 CCACCGTGTCTTCTCCTCGT 61.525 60.000 0.00 0.00 0.00 4.18
2889 3037 0.314302 CACCGTGTCTTCTCCTCGTT 59.686 55.000 0.00 0.00 0.00 3.85
2890 3038 0.314302 ACCGTGTCTTCTCCTCGTTG 59.686 55.000 0.00 0.00 0.00 4.10
2891 3039 0.314302 CCGTGTCTTCTCCTCGTTGT 59.686 55.000 0.00 0.00 0.00 3.32
2892 3040 1.538512 CCGTGTCTTCTCCTCGTTGTA 59.461 52.381 0.00 0.00 0.00 2.41
2893 3041 2.030540 CCGTGTCTTCTCCTCGTTGTAA 60.031 50.000 0.00 0.00 0.00 2.41
2894 3042 2.978489 CGTGTCTTCTCCTCGTTGTAAC 59.022 50.000 0.00 0.00 0.00 2.50
2895 3043 3.304525 CGTGTCTTCTCCTCGTTGTAACT 60.305 47.826 0.00 0.00 0.00 2.24
2896 3044 4.083643 CGTGTCTTCTCCTCGTTGTAACTA 60.084 45.833 0.00 0.00 0.00 2.24
2897 3045 5.392286 GTGTCTTCTCCTCGTTGTAACTAG 58.608 45.833 0.00 0.00 0.00 2.57
2898 3046 5.180868 GTGTCTTCTCCTCGTTGTAACTAGA 59.819 44.000 0.00 0.00 0.00 2.43
2899 3047 5.411977 TGTCTTCTCCTCGTTGTAACTAGAG 59.588 44.000 0.00 0.21 0.00 2.43
2903 3051 3.779271 CCTCGTTGTAACTAGAGGGTC 57.221 52.381 0.00 0.00 44.78 4.46
2904 3052 3.087031 CCTCGTTGTAACTAGAGGGTCA 58.913 50.000 0.00 0.00 44.78 4.02
2905 3053 3.119566 CCTCGTTGTAACTAGAGGGTCAC 60.120 52.174 0.00 0.00 44.78 3.67
2906 3054 2.821969 TCGTTGTAACTAGAGGGTCACC 59.178 50.000 0.00 0.00 0.00 4.02
2907 3055 2.415090 CGTTGTAACTAGAGGGTCACCG 60.415 54.545 0.00 0.00 43.47 4.94
2908 3056 2.821969 GTTGTAACTAGAGGGTCACCGA 59.178 50.000 0.00 0.00 43.47 4.69
2909 3057 3.159213 TGTAACTAGAGGGTCACCGAA 57.841 47.619 0.00 0.00 43.47 4.30
2910 3058 3.087031 TGTAACTAGAGGGTCACCGAAG 58.913 50.000 0.00 0.00 43.47 3.79
2911 3059 0.896226 AACTAGAGGGTCACCGAAGC 59.104 55.000 0.00 0.00 43.47 3.86
2912 3060 1.313812 ACTAGAGGGTCACCGAAGCG 61.314 60.000 0.00 0.00 43.47 4.68
2913 3061 1.303888 TAGAGGGTCACCGAAGCGT 60.304 57.895 0.00 0.00 43.47 5.07
2914 3062 1.310933 TAGAGGGTCACCGAAGCGTC 61.311 60.000 0.00 0.00 43.47 5.19
2928 3076 4.039357 CGTCGAGCGGTCACCTGT 62.039 66.667 15.89 0.00 36.85 4.00
2929 3077 2.430921 GTCGAGCGGTCACCTGTG 60.431 66.667 15.89 0.00 0.00 3.66
2930 3078 2.596338 TCGAGCGGTCACCTGTGA 60.596 61.111 15.89 0.00 37.24 3.58
2931 3079 2.126307 CGAGCGGTCACCTGTGAG 60.126 66.667 15.89 0.00 40.75 3.51
2932 3080 2.262915 GAGCGGTCACCTGTGAGG 59.737 66.667 10.30 0.00 40.75 3.86
2933 3081 3.302347 GAGCGGTCACCTGTGAGGG 62.302 68.421 10.30 0.00 40.58 4.30
2935 3083 3.625897 CGGTCACCTGTGAGGGCA 61.626 66.667 0.00 0.00 40.58 5.36
2936 3084 2.348998 GGTCACCTGTGAGGGCAG 59.651 66.667 0.00 0.00 40.58 4.85
2937 3085 2.359230 GTCACCTGTGAGGGCAGC 60.359 66.667 0.00 0.00 40.58 5.25
2938 3086 4.007644 TCACCTGTGAGGGCAGCG 62.008 66.667 0.00 0.00 40.58 5.18
2949 3097 3.880846 GGCAGCGGCGAGGATTTG 61.881 66.667 12.98 0.00 42.47 2.32
2950 3098 4.543084 GCAGCGGCGAGGATTTGC 62.543 66.667 12.98 6.13 0.00 3.68
2951 3099 3.126879 CAGCGGCGAGGATTTGCA 61.127 61.111 12.98 0.00 35.24 4.08
2952 3100 2.124570 AGCGGCGAGGATTTGCAT 60.125 55.556 12.98 0.00 35.24 3.96
2953 3101 1.146041 AGCGGCGAGGATTTGCATA 59.854 52.632 12.98 0.00 35.24 3.14
2954 3102 0.882042 AGCGGCGAGGATTTGCATAG 60.882 55.000 12.98 0.00 35.24 2.23
2955 3103 0.880278 GCGGCGAGGATTTGCATAGA 60.880 55.000 12.98 0.00 35.24 1.98
2956 3104 0.861837 CGGCGAGGATTTGCATAGAC 59.138 55.000 0.00 0.00 35.24 2.59
2957 3105 0.861837 GGCGAGGATTTGCATAGACG 59.138 55.000 0.00 0.00 35.24 4.18
2958 3106 1.571919 GCGAGGATTTGCATAGACGT 58.428 50.000 0.00 0.00 33.62 4.34
2959 3107 1.258982 GCGAGGATTTGCATAGACGTG 59.741 52.381 0.00 0.00 33.62 4.49
2960 3108 1.860950 CGAGGATTTGCATAGACGTGG 59.139 52.381 0.00 0.00 0.00 4.94
2961 3109 2.738643 CGAGGATTTGCATAGACGTGGT 60.739 50.000 0.00 0.00 0.00 4.16
2962 3110 3.270877 GAGGATTTGCATAGACGTGGTT 58.729 45.455 0.00 0.00 0.00 3.67
2963 3111 3.009723 AGGATTTGCATAGACGTGGTTG 58.990 45.455 0.00 0.00 0.00 3.77
2964 3112 3.006940 GGATTTGCATAGACGTGGTTGA 58.993 45.455 0.00 0.00 0.00 3.18
2965 3113 3.438781 GGATTTGCATAGACGTGGTTGAA 59.561 43.478 0.00 0.00 0.00 2.69
2966 3114 3.889196 TTTGCATAGACGTGGTTGAAC 57.111 42.857 0.00 0.00 0.00 3.18
2973 3121 3.534160 CGTGGTTGAACGGACGAG 58.466 61.111 11.62 0.00 39.89 4.18
2974 3122 1.008194 CGTGGTTGAACGGACGAGA 60.008 57.895 11.62 0.00 39.89 4.04
2975 3123 0.388134 CGTGGTTGAACGGACGAGAT 60.388 55.000 11.62 0.00 39.89 2.75
2976 3124 1.135603 CGTGGTTGAACGGACGAGATA 60.136 52.381 11.62 0.00 39.89 1.98
2977 3125 2.479049 CGTGGTTGAACGGACGAGATAT 60.479 50.000 11.62 0.00 39.89 1.63
2978 3126 3.242837 CGTGGTTGAACGGACGAGATATA 60.243 47.826 11.62 0.00 39.89 0.86
2979 3127 4.675510 GTGGTTGAACGGACGAGATATAA 58.324 43.478 0.00 0.00 0.00 0.98
2980 3128 5.287226 GTGGTTGAACGGACGAGATATAAT 58.713 41.667 0.00 0.00 0.00 1.28
2981 3129 6.441274 GTGGTTGAACGGACGAGATATAATA 58.559 40.000 0.00 0.00 0.00 0.98
2982 3130 6.581542 GTGGTTGAACGGACGAGATATAATAG 59.418 42.308 0.00 0.00 0.00 1.73
2983 3131 5.572126 GGTTGAACGGACGAGATATAATAGC 59.428 44.000 0.00 0.00 0.00 2.97
2984 3132 6.380190 GTTGAACGGACGAGATATAATAGCT 58.620 40.000 0.00 0.00 0.00 3.32
2985 3133 6.179504 TGAACGGACGAGATATAATAGCTC 57.820 41.667 0.00 0.00 37.83 4.09
2986 3134 5.938710 TGAACGGACGAGATATAATAGCTCT 59.061 40.000 0.00 0.00 38.99 4.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
62 70 2.096442 GGTTGGTGGCGCGTACTAC 61.096 63.158 8.43 9.78 0.00 2.73
197 205 2.936160 ATCCCGCTGCAGCCTAGAGA 62.936 60.000 32.07 20.60 37.91 3.10
316 327 1.463018 GATCTGGGGAGGGAGGCAT 60.463 63.158 0.00 0.00 0.00 4.40
330 345 2.405559 TCATCAGAGTGGCATGGATCT 58.594 47.619 0.00 0.00 0.00 2.75
341 356 6.593382 GCTTAACTTGATCACTTCATCAGAGT 59.407 38.462 0.00 0.00 34.22 3.24
349 364 6.082984 GCTCAAAGCTTAACTTGATCACTTC 58.917 40.000 0.00 0.00 39.09 3.01
378 393 1.874872 GCCGTTAAACACTGGTTGCTA 59.125 47.619 0.00 0.00 37.30 3.49
381 396 2.032030 CAGAGCCGTTAAACACTGGTTG 60.032 50.000 0.00 0.00 37.30 3.77
427 444 1.199789 TGCTAGCGGTGCTGAAATTTG 59.800 47.619 10.77 0.00 40.10 2.32
462 479 1.028905 TCTTTTTGCGGTTGGTCTGG 58.971 50.000 0.00 0.00 0.00 3.86
473 490 5.056894 AGAACATGAGCTGATCTTTTTGC 57.943 39.130 0.00 0.00 33.52 3.68
479 496 4.467082 ACTTCTGAGAACATGAGCTGATCT 59.533 41.667 0.00 0.00 39.50 2.75
503 522 3.486263 GCATGTGCACGTACTCCC 58.514 61.111 12.10 0.00 41.59 4.30
529 548 5.310720 CCTTTTACTATGAAGGTTGGTGC 57.689 43.478 0.00 0.00 38.07 5.01
557 609 3.860536 GCGTCAGATTCCTTCTCTTGTAC 59.139 47.826 0.00 0.00 29.93 2.90
558 610 3.509967 TGCGTCAGATTCCTTCTCTTGTA 59.490 43.478 0.00 0.00 29.93 2.41
559 611 2.300152 TGCGTCAGATTCCTTCTCTTGT 59.700 45.455 0.00 0.00 29.93 3.16
1231 1313 6.313905 GTGTACTGTCCGAGATGAATGAAAAT 59.686 38.462 0.00 0.00 0.00 1.82
1253 1335 1.068585 GTCGAGGACCAAACCGTGT 59.931 57.895 0.00 0.00 34.73 4.49
1300 1387 1.632948 GGACGCTAAAACAGTCCGCC 61.633 60.000 0.00 0.00 43.96 6.13
1426 1524 2.968574 TGATCCAGCTAGATTCCCTCAC 59.031 50.000 0.00 0.00 0.00 3.51
1447 1545 5.557576 TTTGGATATGCTGAGCTGACTAT 57.442 39.130 5.83 0.00 0.00 2.12
1457 1555 5.233957 TCGTGACAAATTTGGATATGCTG 57.766 39.130 21.74 4.14 0.00 4.41
1495 1596 8.155821 TGCTTCAGATACTCACTATGTAGTAC 57.844 38.462 0.00 0.00 34.13 2.73
1537 1642 0.391661 GCGATGGTCACCTGTGTCAT 60.392 55.000 0.00 7.98 0.00 3.06
2328 2445 2.353011 GCACCATCCTCAACCAAACATG 60.353 50.000 0.00 0.00 0.00 3.21
2559 2705 7.227512 CAGGCTAATAAACTTGCTACTAATGCT 59.772 37.037 0.00 0.00 0.00 3.79
2688 2836 2.265739 GTCCGCTCCACTGCATGA 59.734 61.111 0.00 0.00 0.00 3.07
2712 2860 1.485032 AAAAGTGTCGTGACGCGGAC 61.485 55.000 12.47 8.81 45.79 4.79
2730 2878 1.444250 GTCCGTGGACACTCACCAA 59.556 57.895 14.10 0.00 44.02 3.67
2733 2881 0.663568 CTTCGTCCGTGGACACTCAC 60.664 60.000 18.54 0.00 44.77 3.51
2745 2893 1.139947 CCTTCTCTCGCCTTCGTCC 59.860 63.158 0.00 0.00 36.96 4.79
2750 2898 2.716017 CGCTCCCTTCTCTCGCCTT 61.716 63.158 0.00 0.00 0.00 4.35
2842 2990 4.148825 ATCTGCACCGCCCGAGTC 62.149 66.667 0.00 0.00 0.00 3.36
2843 2991 4.148825 GATCTGCACCGCCCGAGT 62.149 66.667 0.00 0.00 0.00 4.18
2844 2992 4.899239 GGATCTGCACCGCCCGAG 62.899 72.222 0.00 0.00 0.00 4.63
2846 2994 3.506059 CTAGGATCTGCACCGCCCG 62.506 68.421 0.00 0.00 0.00 6.13
2847 2995 2.370647 GACTAGGATCTGCACCGCCC 62.371 65.000 0.00 0.00 0.00 6.13
2848 2996 1.068250 GACTAGGATCTGCACCGCC 59.932 63.158 0.00 0.00 0.00 6.13
2849 2997 0.249238 CAGACTAGGATCTGCACCGC 60.249 60.000 0.00 0.00 39.77 5.68
2850 2998 3.955291 CAGACTAGGATCTGCACCG 57.045 57.895 0.00 0.00 39.77 4.94
2856 3004 0.033011 ACGGTGGCAGACTAGGATCT 60.033 55.000 0.00 0.00 0.00 2.75
2857 3005 0.103208 CACGGTGGCAGACTAGGATC 59.897 60.000 0.00 0.00 0.00 3.36
2858 3006 0.614979 ACACGGTGGCAGACTAGGAT 60.615 55.000 13.48 0.00 0.00 3.24
2859 3007 1.228769 ACACGGTGGCAGACTAGGA 60.229 57.895 13.48 0.00 0.00 2.94
2860 3008 1.215647 GACACGGTGGCAGACTAGG 59.784 63.158 9.62 0.00 0.00 3.02
2861 3009 0.603569 AAGACACGGTGGCAGACTAG 59.396 55.000 17.70 0.00 0.00 2.57
2862 3010 0.601558 GAAGACACGGTGGCAGACTA 59.398 55.000 17.70 0.00 0.00 2.59
2863 3011 1.115930 AGAAGACACGGTGGCAGACT 61.116 55.000 17.70 9.09 0.00 3.24
2864 3012 0.667792 GAGAAGACACGGTGGCAGAC 60.668 60.000 17.70 6.85 0.00 3.51
2865 3013 1.666011 GAGAAGACACGGTGGCAGA 59.334 57.895 17.70 0.00 0.00 4.26
2866 3014 1.374758 GGAGAAGACACGGTGGCAG 60.375 63.158 17.70 0.00 0.00 4.85
2867 3015 1.816863 GAGGAGAAGACACGGTGGCA 61.817 60.000 17.70 0.00 0.00 4.92
2868 3016 1.079750 GAGGAGAAGACACGGTGGC 60.080 63.158 13.48 9.95 0.00 5.01
2869 3017 1.213013 CGAGGAGAAGACACGGTGG 59.787 63.158 13.48 0.00 0.00 4.61
2870 3018 0.314302 AACGAGGAGAAGACACGGTG 59.686 55.000 6.58 6.58 0.00 4.94
2871 3019 0.314302 CAACGAGGAGAAGACACGGT 59.686 55.000 0.00 0.00 0.00 4.83
2872 3020 0.314302 ACAACGAGGAGAAGACACGG 59.686 55.000 0.00 0.00 0.00 4.94
2873 3021 2.978489 GTTACAACGAGGAGAAGACACG 59.022 50.000 0.00 0.00 0.00 4.49
2874 3022 4.240175 AGTTACAACGAGGAGAAGACAC 57.760 45.455 0.00 0.00 0.00 3.67
2875 3023 5.311265 TCTAGTTACAACGAGGAGAAGACA 58.689 41.667 0.00 0.00 33.21 3.41
2876 3024 5.163733 CCTCTAGTTACAACGAGGAGAAGAC 60.164 48.000 9.29 0.00 44.56 3.01
2877 3025 4.942483 CCTCTAGTTACAACGAGGAGAAGA 59.058 45.833 9.29 0.00 44.56 2.87
2878 3026 4.096682 CCCTCTAGTTACAACGAGGAGAAG 59.903 50.000 14.23 1.51 44.56 2.85
2879 3027 4.015084 CCCTCTAGTTACAACGAGGAGAA 58.985 47.826 14.23 0.00 44.56 2.87
2880 3028 3.009916 ACCCTCTAGTTACAACGAGGAGA 59.990 47.826 14.23 4.25 44.56 3.71
2881 3029 3.354467 ACCCTCTAGTTACAACGAGGAG 58.646 50.000 14.23 9.74 44.56 3.69
2882 3030 3.245016 TGACCCTCTAGTTACAACGAGGA 60.245 47.826 14.23 2.61 44.56 3.71
2883 3031 3.087031 TGACCCTCTAGTTACAACGAGG 58.913 50.000 8.35 8.35 42.09 4.63
2884 3032 3.119566 GGTGACCCTCTAGTTACAACGAG 60.120 52.174 0.00 0.00 33.59 4.18
2885 3033 2.821969 GGTGACCCTCTAGTTACAACGA 59.178 50.000 0.00 0.00 0.00 3.85
2886 3034 2.415090 CGGTGACCCTCTAGTTACAACG 60.415 54.545 0.00 0.00 32.64 4.10
2887 3035 2.821969 TCGGTGACCCTCTAGTTACAAC 59.178 50.000 0.00 0.00 0.00 3.32
2888 3036 3.159213 TCGGTGACCCTCTAGTTACAA 57.841 47.619 0.00 0.00 0.00 2.41
2889 3037 2.885135 TCGGTGACCCTCTAGTTACA 57.115 50.000 0.00 0.00 0.00 2.41
2890 3038 2.159268 GCTTCGGTGACCCTCTAGTTAC 60.159 54.545 0.00 0.00 0.00 2.50
2891 3039 2.097825 GCTTCGGTGACCCTCTAGTTA 58.902 52.381 0.00 0.00 0.00 2.24
2892 3040 0.896226 GCTTCGGTGACCCTCTAGTT 59.104 55.000 0.00 0.00 0.00 2.24
2893 3041 1.313812 CGCTTCGGTGACCCTCTAGT 61.314 60.000 0.00 0.00 0.00 2.57
2894 3042 1.313812 ACGCTTCGGTGACCCTCTAG 61.314 60.000 0.00 0.00 0.00 2.43
2895 3043 1.303888 ACGCTTCGGTGACCCTCTA 60.304 57.895 0.00 0.00 0.00 2.43
2896 3044 2.600769 ACGCTTCGGTGACCCTCT 60.601 61.111 0.00 0.00 0.00 3.69
2897 3045 2.126031 GACGCTTCGGTGACCCTC 60.126 66.667 0.00 0.00 0.00 4.30
2898 3046 4.052229 CGACGCTTCGGTGACCCT 62.052 66.667 4.41 0.00 41.89 4.34
2899 3047 3.966026 CTCGACGCTTCGGTGACCC 62.966 68.421 13.04 0.00 45.90 4.46
2900 3048 2.504244 CTCGACGCTTCGGTGACC 60.504 66.667 13.04 0.00 45.90 4.02
2901 3049 3.173240 GCTCGACGCTTCGGTGAC 61.173 66.667 13.04 0.00 45.90 3.67
2902 3050 4.753877 CGCTCGACGCTTCGGTGA 62.754 66.667 13.04 0.00 45.90 4.02
2907 3055 3.173240 GTGACCGCTCGACGCTTC 61.173 66.667 5.53 3.85 41.76 3.86
2908 3056 4.719369 GGTGACCGCTCGACGCTT 62.719 66.667 0.00 0.00 41.76 4.68
2911 3059 4.039357 ACAGGTGACCGCTCGACG 62.039 66.667 0.00 0.00 43.15 5.12
2912 3060 2.430921 CACAGGTGACCGCTCGAC 60.431 66.667 0.00 0.00 0.00 4.20
2913 3061 2.596338 TCACAGGTGACCGCTCGA 60.596 61.111 0.00 0.00 34.14 4.04
2914 3062 2.126307 CTCACAGGTGACCGCTCG 60.126 66.667 0.00 0.00 35.46 5.03
2915 3063 2.262915 CCTCACAGGTGACCGCTC 59.737 66.667 0.00 0.00 35.46 5.03
2916 3064 3.314331 CCCTCACAGGTGACCGCT 61.314 66.667 0.00 0.00 35.46 5.52
2918 3066 3.596066 CTGCCCTCACAGGTGACCG 62.596 68.421 0.00 0.00 35.46 4.79
2919 3067 2.348998 CTGCCCTCACAGGTGACC 59.651 66.667 0.00 0.00 35.46 4.02
2920 3068 2.359230 GCTGCCCTCACAGGTGAC 60.359 66.667 0.00 0.00 38.16 3.67
2921 3069 4.007644 CGCTGCCCTCACAGGTGA 62.008 66.667 1.70 1.70 38.16 4.02
2932 3080 3.880846 CAAATCCTCGCCGCTGCC 61.881 66.667 0.00 0.00 0.00 4.85
2933 3081 4.543084 GCAAATCCTCGCCGCTGC 62.543 66.667 0.00 0.00 0.00 5.25
2934 3082 1.159713 TATGCAAATCCTCGCCGCTG 61.160 55.000 0.00 0.00 0.00 5.18
2935 3083 0.882042 CTATGCAAATCCTCGCCGCT 60.882 55.000 0.00 0.00 0.00 5.52
2936 3084 0.880278 TCTATGCAAATCCTCGCCGC 60.880 55.000 0.00 0.00 0.00 6.53
2937 3085 0.861837 GTCTATGCAAATCCTCGCCG 59.138 55.000 0.00 0.00 0.00 6.46
2938 3086 0.861837 CGTCTATGCAAATCCTCGCC 59.138 55.000 0.00 0.00 0.00 5.54
2939 3087 1.258982 CACGTCTATGCAAATCCTCGC 59.741 52.381 0.00 0.00 0.00 5.03
2940 3088 1.860950 CCACGTCTATGCAAATCCTCG 59.139 52.381 0.00 0.00 0.00 4.63
2941 3089 2.906354 ACCACGTCTATGCAAATCCTC 58.094 47.619 0.00 0.00 0.00 3.71
2942 3090 3.009723 CAACCACGTCTATGCAAATCCT 58.990 45.455 0.00 0.00 0.00 3.24
2943 3091 3.006940 TCAACCACGTCTATGCAAATCC 58.993 45.455 0.00 0.00 0.00 3.01
2944 3092 4.403453 GTTCAACCACGTCTATGCAAATC 58.597 43.478 0.00 0.00 0.00 2.17
2945 3093 3.120338 CGTTCAACCACGTCTATGCAAAT 60.120 43.478 0.00 0.00 35.34 2.32
2946 3094 2.222213 CGTTCAACCACGTCTATGCAAA 59.778 45.455 0.00 0.00 35.34 3.68
2947 3095 1.795872 CGTTCAACCACGTCTATGCAA 59.204 47.619 0.00 0.00 35.34 4.08
2948 3096 1.424403 CGTTCAACCACGTCTATGCA 58.576 50.000 0.00 0.00 35.34 3.96
2949 3097 0.719465 CCGTTCAACCACGTCTATGC 59.281 55.000 0.00 0.00 38.57 3.14
2950 3098 1.990563 GTCCGTTCAACCACGTCTATG 59.009 52.381 0.00 0.00 38.57 2.23
2951 3099 1.401931 CGTCCGTTCAACCACGTCTAT 60.402 52.381 0.00 0.00 38.57 1.98
2952 3100 0.040157 CGTCCGTTCAACCACGTCTA 60.040 55.000 0.00 0.00 38.57 2.59
2953 3101 1.299620 CGTCCGTTCAACCACGTCT 60.300 57.895 0.00 0.00 38.57 4.18
2954 3102 1.273455 CTCGTCCGTTCAACCACGTC 61.273 60.000 6.58 0.00 38.57 4.34
2955 3103 1.299620 CTCGTCCGTTCAACCACGT 60.300 57.895 6.58 0.00 38.57 4.49
2956 3104 0.388134 ATCTCGTCCGTTCAACCACG 60.388 55.000 0.96 0.96 40.02 4.94
2957 3105 2.642139 TATCTCGTCCGTTCAACCAC 57.358 50.000 0.00 0.00 0.00 4.16
2958 3106 4.987408 TTATATCTCGTCCGTTCAACCA 57.013 40.909 0.00 0.00 0.00 3.67
2959 3107 5.572126 GCTATTATATCTCGTCCGTTCAACC 59.428 44.000 0.00 0.00 0.00 3.77
2960 3108 6.380190 AGCTATTATATCTCGTCCGTTCAAC 58.620 40.000 0.00 0.00 0.00 3.18
2961 3109 6.430308 AGAGCTATTATATCTCGTCCGTTCAA 59.570 38.462 0.00 0.00 32.42 2.69
2962 3110 5.938710 AGAGCTATTATATCTCGTCCGTTCA 59.061 40.000 0.00 0.00 32.42 3.18
2963 3111 6.425577 AGAGCTATTATATCTCGTCCGTTC 57.574 41.667 0.00 0.00 32.42 3.95


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

AutoCloner maintained by Alex Coulton.