Multiple sequence alignment - TraesCS6D01G243200

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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 TraesCS6D01G243200 chr6D 100.000 2673 0 0 1 2673 345301252 345303924 0.000000e+00 4937
1 TraesCS6D01G243200 chr6D 100.000 306 0 0 2849 3154 345304100 345304405 1.640000e-157 566
2 TraesCS6D01G243200 chr6B 93.055 2707 109 31 1 2668 521059405 521062071 0.000000e+00 3884
3 TraesCS6D01G243200 chr6B 89.583 144 14 1 2526 2668 521062663 521062806 6.950000e-42 182
4 TraesCS6D01G243200 chr6B 92.174 115 8 1 2849 2962 521062847 521062961 9.050000e-36 161
5 TraesCS6D01G243200 chr6B 95.181 83 4 0 3072 3154 521062986 521063068 7.100000e-27 132
6 TraesCS6D01G243200 chr6B 93.976 83 5 0 3072 3154 521062255 521062337 3.300000e-25 126
7 TraesCS6D01G243200 chr6A 92.375 2728 113 34 6 2668 485751181 485753878 0.000000e+00 3797
8 TraesCS6D01G243200 chr6A 93.827 81 5 0 3072 3152 485754054 485754134 4.270000e-24 122
9 TraesCS6D01G243200 chr7D 99.367 316 2 0 1834 2149 456396833 456397148 9.810000e-160 573
10 TraesCS6D01G243200 chr7D 98.754 321 4 0 1478 1798 456396199 456396519 3.530000e-159 571
11 TraesCS6D01G243200 chr2B 78.267 704 102 37 1404 2062 671593435 671592738 3.790000e-109 405
12 TraesCS6D01G243200 chr2D 77.577 718 112 34 1404 2077 562082119 562081407 3.810000e-104 388
13 TraesCS6D01G243200 chr2A 77.778 684 99 37 1425 2062 702783632 702782956 3.840000e-99 372
14 TraesCS6D01G243200 chr5D 93.590 234 15 0 1599 1832 402723293 402723526 1.800000e-92 350
15 TraesCS6D01G243200 chr7B 81.702 235 14 7 1599 1833 458795619 458795824 5.410000e-38 169


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 TraesCS6D01G243200 chr6D 345301252 345304405 3153 False 2751.5 4937 100.0000 1 3154 2 chr6D.!!$F1 3153
1 TraesCS6D01G243200 chr6B 521059405 521063068 3663 False 897.0 3884 92.7938 1 3154 5 chr6B.!!$F1 3153
2 TraesCS6D01G243200 chr6A 485751181 485754134 2953 False 1959.5 3797 93.1010 6 3152 2 chr6A.!!$F1 3146
3 TraesCS6D01G243200 chr7D 456396199 456397148 949 False 572.0 573 99.0605 1478 2149 2 chr7D.!!$F1 671
4 TraesCS6D01G243200 chr2B 671592738 671593435 697 True 405.0 405 78.2670 1404 2062 1 chr2B.!!$R1 658
5 TraesCS6D01G243200 chr2D 562081407 562082119 712 True 388.0 388 77.5770 1404 2077 1 chr2D.!!$R1 673
6 TraesCS6D01G243200 chr2A 702782956 702783632 676 True 372.0 372 77.7780 1425 2062 1 chr2A.!!$R1 637

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
689 743 0.320508 GGAACGGTTGACCTGTCTCC 60.321 60.0 0.0 1.27 0.0 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2305 2722 0.027848 GGATCGAGGAAGACGACGAC 59.972 60.0 0.0 0.0 42.37 4.34 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
77 82 1.021390 AAGCAACTTCGCTGATCGGG 61.021 55.000 3.14 0.00 42.89 5.14
78 83 2.464459 GCAACTTCGCTGATCGGGG 61.464 63.158 12.29 12.29 39.05 5.73
84 92 2.160205 CTTCGCTGATCGGGGTAGATA 58.840 52.381 17.19 0.00 39.05 1.98
126 136 7.255208 GGTCTAGTAGAGAAATATATAGGCCGC 60.255 44.444 0.00 0.00 35.37 6.53
140 150 4.758251 CCGCCCGTGCATGTCTCA 62.758 66.667 4.96 0.00 37.32 3.27
142 152 3.127533 GCCCGTGCATGTCTCACC 61.128 66.667 4.96 0.00 37.47 4.02
261 274 2.702478 TCCAGCTTGATCTTCCGATGAT 59.298 45.455 0.00 0.00 0.00 2.45
406 421 4.722194 TCGTGTCAATCAAAGCTAATTGC 58.278 39.130 10.16 7.31 43.29 3.56
508 529 2.981302 GCCATGGACAAAAGGGCC 59.019 61.111 18.40 0.00 38.70 5.80
549 582 4.554163 GTCACTTGGGACGACTCG 57.446 61.111 0.00 0.00 0.00 4.18
566 602 1.087202 TCGTCGAATCCGGCCAAATG 61.087 55.000 2.24 0.00 37.02 2.32
609 663 1.967319 ACAAGGCTGAAACATCACGT 58.033 45.000 0.00 0.00 0.00 4.49
623 677 7.222031 TGAAACATCACGTAGCAGTATATGAAC 59.778 37.037 0.00 0.00 0.00 3.18
689 743 0.320508 GGAACGGTTGACCTGTCTCC 60.321 60.000 0.00 1.27 0.00 3.71
727 781 1.726791 CGGACAACTGAAACGATCCAG 59.273 52.381 0.00 0.00 36.53 3.86
728 782 2.609491 CGGACAACTGAAACGATCCAGA 60.609 50.000 4.00 0.00 34.65 3.86
765 819 3.679980 GCAGAAAGACGAGCATAGTCAAA 59.320 43.478 8.53 0.00 43.66 2.69
766 820 4.152402 GCAGAAAGACGAGCATAGTCAAAA 59.848 41.667 8.53 0.00 43.66 2.44
768 822 6.621596 GCAGAAAGACGAGCATAGTCAAAAAT 60.622 38.462 8.53 0.00 43.66 1.82
769 823 6.740002 CAGAAAGACGAGCATAGTCAAAAATG 59.260 38.462 8.53 0.00 43.66 2.32
770 824 4.606457 AGACGAGCATAGTCAAAAATGC 57.394 40.909 8.53 0.00 43.66 3.56
803 860 3.804036 TGGTGAGATGAACGACAAAAGT 58.196 40.909 0.00 0.00 0.00 2.66
822 879 2.158755 AGTTGGGTGGAGAAACTGTGAG 60.159 50.000 0.00 0.00 33.01 3.51
1017 1081 2.025418 CCGAGCCTTAAACACGCGT 61.025 57.895 5.58 5.58 0.00 6.01
1018 1082 1.562575 CCGAGCCTTAAACACGCGTT 61.563 55.000 10.22 0.00 36.73 4.84
1177 1254 2.013483 GTCGCTCCTCATCATCGCG 61.013 63.158 0.00 0.00 44.63 5.87
1180 1257 2.356793 CTCCTCATCATCGCGGCC 60.357 66.667 6.13 0.00 0.00 6.13
1252 1329 2.048222 CTCTCCTCGCGGCAAACA 60.048 61.111 6.13 0.00 0.00 2.83
1262 1339 1.079127 CGGCAAACATCCTCTCCGT 60.079 57.895 0.00 0.00 32.93 4.69
1264 1341 1.084370 GGCAAACATCCTCTCCGTCG 61.084 60.000 0.00 0.00 0.00 5.12
2257 2670 0.114954 AATTGGCCCCAGAAGCAGAA 59.885 50.000 0.00 0.00 0.00 3.02
2258 2671 0.613012 ATTGGCCCCAGAAGCAGAAC 60.613 55.000 0.00 0.00 0.00 3.01
2259 2672 2.361737 GGCCCCAGAAGCAGAACC 60.362 66.667 0.00 0.00 0.00 3.62
2260 2673 2.436109 GCCCCAGAAGCAGAACCA 59.564 61.111 0.00 0.00 0.00 3.67
2261 2674 1.676967 GCCCCAGAAGCAGAACCAG 60.677 63.158 0.00 0.00 0.00 4.00
2262 2675 2.069776 CCCCAGAAGCAGAACCAGA 58.930 57.895 0.00 0.00 0.00 3.86
2557 2979 2.224548 GCTGTGAGTTTAGGTCAGGGTT 60.225 50.000 0.00 0.00 0.00 4.11
2571 2993 4.524328 GGTCAGGGTTTGTGATCATTTCTT 59.476 41.667 0.00 0.00 0.00 2.52
2573 2995 4.022068 TCAGGGTTTGTGATCATTTCTTGC 60.022 41.667 0.00 0.00 0.00 4.01
2626 3049 5.750524 TCCCAAATCGAATCAAAGTGGATA 58.249 37.500 0.00 0.00 0.00 2.59
2668 3091 4.497300 TGCTTATAGAACGGTGTGGTAAC 58.503 43.478 0.00 0.00 0.00 2.50
2669 3092 4.221262 TGCTTATAGAACGGTGTGGTAACT 59.779 41.667 0.00 0.00 37.61 2.24
2670 3093 5.173664 GCTTATAGAACGGTGTGGTAACTT 58.826 41.667 0.00 0.00 37.61 2.66
2672 3095 6.183360 GCTTATAGAACGGTGTGGTAACTTTC 60.183 42.308 0.00 0.00 37.61 2.62
2891 3910 4.613944 ACTTTCTTTGTCGTGTGATCGTA 58.386 39.130 0.00 0.00 0.00 3.43
2896 3915 5.034797 TCTTTGTCGTGTGATCGTATCATC 58.965 41.667 1.75 0.00 42.04 2.92
2936 3955 6.110411 TCTCTGACCGAACTCCTAAAATTT 57.890 37.500 0.00 0.00 0.00 1.82
2962 3981 3.822735 CCCTCAAAGCTCAACTCATCAAA 59.177 43.478 0.00 0.00 0.00 2.69
2964 3983 5.047519 CCCTCAAAGCTCAACTCATCAAATT 60.048 40.000 0.00 0.00 0.00 1.82
2965 3984 6.453092 CCTCAAAGCTCAACTCATCAAATTT 58.547 36.000 0.00 0.00 0.00 1.82
2966 3985 6.365247 CCTCAAAGCTCAACTCATCAAATTTG 59.635 38.462 12.15 12.15 0.00 2.32
2967 3986 5.693104 TCAAAGCTCAACTCATCAAATTTGC 59.307 36.000 13.54 0.00 0.00 3.68
2968 3987 4.184079 AGCTCAACTCATCAAATTTGCC 57.816 40.909 13.54 0.00 0.00 4.52
2969 3988 3.575256 AGCTCAACTCATCAAATTTGCCA 59.425 39.130 13.54 0.00 0.00 4.92
2970 3989 4.039488 AGCTCAACTCATCAAATTTGCCAA 59.961 37.500 13.54 0.00 0.00 4.52
2971 3990 4.933400 GCTCAACTCATCAAATTTGCCAAT 59.067 37.500 13.54 0.00 0.00 3.16
2972 3991 5.410439 GCTCAACTCATCAAATTTGCCAATT 59.590 36.000 13.54 1.62 33.72 2.32
2973 3992 6.401796 GCTCAACTCATCAAATTTGCCAATTC 60.402 38.462 13.54 0.00 30.80 2.17
2974 3993 6.761312 TCAACTCATCAAATTTGCCAATTCT 58.239 32.000 13.54 0.00 30.80 2.40
2975 3994 7.218614 TCAACTCATCAAATTTGCCAATTCTT 58.781 30.769 13.54 0.00 30.80 2.52
2976 3995 7.385752 TCAACTCATCAAATTTGCCAATTCTTC 59.614 33.333 13.54 0.00 30.80 2.87
2977 3996 7.001099 ACTCATCAAATTTGCCAATTCTTCT 57.999 32.000 13.54 0.00 30.80 2.85
2978 3997 8.125978 ACTCATCAAATTTGCCAATTCTTCTA 57.874 30.769 13.54 0.00 30.80 2.10
2979 3998 8.755977 ACTCATCAAATTTGCCAATTCTTCTAT 58.244 29.630 13.54 0.00 30.80 1.98
2980 3999 9.245962 CTCATCAAATTTGCCAATTCTTCTATC 57.754 33.333 13.54 0.00 30.80 2.08
2981 4000 8.974238 TCATCAAATTTGCCAATTCTTCTATCT 58.026 29.630 13.54 0.00 30.80 1.98
2982 4001 9.595823 CATCAAATTTGCCAATTCTTCTATCTT 57.404 29.630 13.54 0.00 30.80 2.40
2990 4009 8.991243 TGCCAATTCTTCTATCTTTTGATTTG 57.009 30.769 0.00 0.00 40.19 2.32
2991 4010 7.546667 TGCCAATTCTTCTATCTTTTGATTTGC 59.453 33.333 0.00 0.00 40.19 3.68
2992 4011 7.546667 GCCAATTCTTCTATCTTTTGATTTGCA 59.453 33.333 0.00 0.00 40.19 4.08
2993 4012 9.595823 CCAATTCTTCTATCTTTTGATTTGCAT 57.404 29.630 0.00 0.00 40.19 3.96
3004 4023 9.893634 ATCTTTTGATTTGCATATTCCATTTCA 57.106 25.926 0.00 0.00 35.18 2.69
3005 4024 9.722184 TCTTTTGATTTGCATATTCCATTTCAA 57.278 25.926 0.00 0.00 0.00 2.69
3024 4043 7.906199 TTTCAATTGAGGAGTTAAAAAGGGA 57.094 32.000 8.41 0.00 0.00 4.20
3026 4045 9.594936 TTTCAATTGAGGAGTTAAAAAGGGATA 57.405 29.630 8.41 0.00 0.00 2.59
3027 4046 9.594936 TTCAATTGAGGAGTTAAAAAGGGATAA 57.405 29.630 8.41 0.00 0.00 1.75
3028 4047 9.594936 TCAATTGAGGAGTTAAAAAGGGATAAA 57.405 29.630 3.38 0.00 0.00 1.40
3033 4052 9.822727 TGAGGAGTTAAAAAGGGATAAAATTCT 57.177 29.630 0.00 0.00 0.00 2.40
3047 4066 8.989980 GGGATAAAATTCTTGTATCTTCTACCG 58.010 37.037 0.00 0.00 0.00 4.02
3048 4067 9.543783 GGATAAAATTCTTGTATCTTCTACCGT 57.456 33.333 0.00 0.00 0.00 4.83
3050 4069 7.611213 AAAATTCTTGTATCTTCTACCGTGG 57.389 36.000 0.00 0.00 0.00 4.94
3051 4070 3.795623 TCTTGTATCTTCTACCGTGGC 57.204 47.619 0.00 0.00 0.00 5.01
3052 4071 3.093814 TCTTGTATCTTCTACCGTGGCA 58.906 45.455 0.00 0.00 0.00 4.92
3053 4072 3.704566 TCTTGTATCTTCTACCGTGGCAT 59.295 43.478 0.00 0.00 0.00 4.40
3054 4073 4.891168 TCTTGTATCTTCTACCGTGGCATA 59.109 41.667 0.00 0.00 0.00 3.14
3055 4074 5.538813 TCTTGTATCTTCTACCGTGGCATAT 59.461 40.000 0.00 0.00 0.00 1.78
3056 4075 5.801531 TGTATCTTCTACCGTGGCATATT 57.198 39.130 0.00 0.00 0.00 1.28
3057 4076 5.779922 TGTATCTTCTACCGTGGCATATTC 58.220 41.667 0.00 0.00 0.00 1.75
3058 4077 3.746045 TCTTCTACCGTGGCATATTCC 57.254 47.619 0.00 0.00 0.00 3.01
3059 4078 3.035363 TCTTCTACCGTGGCATATTCCA 58.965 45.455 0.00 0.00 0.00 3.53
3060 4079 3.646162 TCTTCTACCGTGGCATATTCCAT 59.354 43.478 0.00 0.00 38.57 3.41
3061 4080 4.102524 TCTTCTACCGTGGCATATTCCATT 59.897 41.667 0.00 0.00 38.57 3.16
3062 4081 4.431416 TCTACCGTGGCATATTCCATTT 57.569 40.909 0.00 0.00 38.57 2.32
3063 4082 4.385825 TCTACCGTGGCATATTCCATTTC 58.614 43.478 0.00 0.00 38.57 2.17
3064 4083 3.011566 ACCGTGGCATATTCCATTTCA 57.988 42.857 0.00 0.00 38.57 2.69
3065 4084 3.360867 ACCGTGGCATATTCCATTTCAA 58.639 40.909 0.00 0.00 38.57 2.69
3066 4085 3.960102 ACCGTGGCATATTCCATTTCAAT 59.040 39.130 0.00 0.00 38.57 2.57
3067 4086 4.405358 ACCGTGGCATATTCCATTTCAATT 59.595 37.500 0.00 0.00 38.57 2.32
3068 4087 4.746115 CCGTGGCATATTCCATTTCAATTG 59.254 41.667 0.00 0.00 38.57 2.32
3069 4088 5.451659 CCGTGGCATATTCCATTTCAATTGA 60.452 40.000 3.38 3.38 38.57 2.57
3070 4089 5.688621 CGTGGCATATTCCATTTCAATTGAG 59.311 40.000 8.41 0.00 38.57 3.02
3116 4135 7.346751 ACTCTCTAAACAAAATTCTTTGCCA 57.653 32.000 0.00 0.00 44.96 4.92
3117 4136 7.781056 ACTCTCTAAACAAAATTCTTTGCCAA 58.219 30.769 0.00 0.00 44.96 4.52
3131 4150 9.866798 AATTCTTTGCCAATTCTTCTATCTTTC 57.133 29.630 0.00 0.00 0.00 2.62
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 5.717178 TGGAAGCTCAGTATAACTCTCTTGT 59.283 40.000 0.00 0.00 0.00 3.16
77 82 0.770557 TGGGGCCATGGGTATCTACC 60.771 60.000 15.13 3.62 45.71 3.18
78 83 0.693049 CTGGGGCCATGGGTATCTAC 59.307 60.000 15.13 0.00 0.00 2.59
126 136 2.436646 GGGTGAGACATGCACGGG 60.437 66.667 0.00 0.00 37.13 5.28
261 274 0.394938 TTACTGCCGAGCTTTGTGGA 59.605 50.000 0.00 0.00 0.00 4.02
416 431 5.762045 CTTTTGTCCAACTATTCTGTGTGG 58.238 41.667 0.00 0.00 0.00 4.17
421 436 3.670627 GCCGCTTTTGTCCAACTATTCTG 60.671 47.826 0.00 0.00 0.00 3.02
423 438 2.415491 GGCCGCTTTTGTCCAACTATTC 60.415 50.000 0.00 0.00 0.00 1.75
508 529 1.373497 AAACAGAGAGCTGACGCCG 60.373 57.895 0.00 0.00 45.17 6.46
548 581 1.351707 CATTTGGCCGGATTCGACG 59.648 57.895 5.05 0.00 39.00 5.12
549 582 1.064134 GCATTTGGCCGGATTCGAC 59.936 57.895 5.05 0.00 39.00 4.20
553 586 2.709883 CGGTGCATTTGGCCGGATT 61.710 57.895 5.05 0.00 43.89 3.01
554 587 3.140141 CGGTGCATTTGGCCGGAT 61.140 61.111 5.05 0.00 43.89 4.18
558 591 2.258286 GACACGGTGCATTTGGCC 59.742 61.111 8.30 0.00 43.89 5.36
566 602 1.284982 CTGCAGTACTGACACGGTGC 61.285 60.000 27.08 9.72 0.00 5.01
623 677 9.265901 AGATCACAAATCCTACTTAATTCGATG 57.734 33.333 0.00 0.00 0.00 3.84
765 819 3.005684 TCACCATCTTTCGCTTTGCATTT 59.994 39.130 0.00 0.00 0.00 2.32
766 820 2.557924 TCACCATCTTTCGCTTTGCATT 59.442 40.909 0.00 0.00 0.00 3.56
768 822 1.536766 CTCACCATCTTTCGCTTTGCA 59.463 47.619 0.00 0.00 0.00 4.08
769 823 1.806542 TCTCACCATCTTTCGCTTTGC 59.193 47.619 0.00 0.00 0.00 3.68
770 824 3.686241 TCATCTCACCATCTTTCGCTTTG 59.314 43.478 0.00 0.00 0.00 2.77
803 860 1.142870 CCTCACAGTTTCTCCACCCAA 59.857 52.381 0.00 0.00 0.00 4.12
822 879 0.685458 AGCAGGAATGTGAATGGCCC 60.685 55.000 0.00 0.00 0.00 5.80
1017 1081 0.032615 GGAGAGGCAGGAGGAGAGAA 60.033 60.000 0.00 0.00 0.00 2.87
1018 1082 1.618030 GGAGAGGCAGGAGGAGAGA 59.382 63.158 0.00 0.00 0.00 3.10
1180 1257 1.139947 GAAGACGAAGGCGAGGAGG 59.860 63.158 0.00 0.00 41.64 4.30
1414 1491 0.108615 CCATCGTGAAGAGCGGAAGT 60.109 55.000 0.00 0.00 0.00 3.01
2212 2625 3.844577 TTTACGTACAGCAGAGTCCTC 57.155 47.619 0.00 0.00 0.00 3.71
2257 2670 2.224233 CGATCCAAGCTCATCATCTGGT 60.224 50.000 0.00 0.00 0.00 4.00
2258 2671 2.036862 TCGATCCAAGCTCATCATCTGG 59.963 50.000 0.00 0.00 0.00 3.86
2259 2672 3.382048 TCGATCCAAGCTCATCATCTG 57.618 47.619 0.00 0.00 0.00 2.90
2260 2673 3.803021 GCTTCGATCCAAGCTCATCATCT 60.803 47.826 16.74 0.00 44.71 2.90
2261 2674 2.479656 GCTTCGATCCAAGCTCATCATC 59.520 50.000 16.74 0.00 44.71 2.92
2262 2675 2.492012 GCTTCGATCCAAGCTCATCAT 58.508 47.619 16.74 0.00 44.71 2.45
2304 2721 0.315220 GATCGAGGAAGACGACGACG 60.315 60.000 5.58 5.58 42.37 5.12
2305 2722 0.027848 GGATCGAGGAAGACGACGAC 59.972 60.000 0.00 0.00 42.37 4.34
2306 2723 0.392060 TGGATCGAGGAAGACGACGA 60.392 55.000 0.00 0.00 42.37 4.20
2410 2831 4.925054 CGGAAAAGGATAGACAAACACGTA 59.075 41.667 0.00 0.00 0.00 3.57
2540 2961 3.456644 TCACAAACCCTGACCTAAACTCA 59.543 43.478 0.00 0.00 0.00 3.41
2557 2979 4.614306 CGCAGAAGCAAGAAATGATCACAA 60.614 41.667 0.00 0.00 42.27 3.33
2571 2993 1.640428 CCGTAGAATTCGCAGAAGCA 58.360 50.000 0.00 0.00 45.90 3.91
2573 2995 1.855360 GAGCCGTAGAATTCGCAGAAG 59.145 52.381 0.00 0.00 45.90 2.85
2626 3049 4.018960 AGCAGTGATCTTGGGTAGAAATGT 60.019 41.667 0.00 0.00 36.22 2.71
2631 3054 6.373759 TCTATAAGCAGTGATCTTGGGTAGA 58.626 40.000 0.00 0.00 37.28 2.59
2856 3875 4.822896 ACAAAGAAAGTATGCCACGGTAAA 59.177 37.500 0.00 0.00 0.00 2.01
2870 3889 5.344933 TGATACGATCACACGACAAAGAAAG 59.655 40.000 0.00 0.00 33.59 2.62
2891 3910 1.202580 GCCTAGGTGCAACGAGATGAT 60.203 52.381 14.08 0.00 38.12 2.45
2896 3915 0.176680 AGATGCCTAGGTGCAACGAG 59.823 55.000 11.31 4.66 45.84 4.18
2936 3955 4.908601 TGAGTTGAGCTTTGAGGGATAA 57.091 40.909 0.00 0.00 0.00 1.75
2964 3983 9.426837 CAAATCAAAAGATAGAAGAATTGGCAA 57.573 29.630 0.68 0.68 0.00 4.52
2965 3984 7.546667 GCAAATCAAAAGATAGAAGAATTGGCA 59.453 33.333 0.00 0.00 0.00 4.92
2966 3985 7.546667 TGCAAATCAAAAGATAGAAGAATTGGC 59.453 33.333 0.00 0.00 0.00 4.52
2967 3986 8.991243 TGCAAATCAAAAGATAGAAGAATTGG 57.009 30.769 0.00 0.00 0.00 3.16
2978 3997 9.893634 TGAAATGGAATATGCAAATCAAAAGAT 57.106 25.926 0.00 0.00 0.00 2.40
2979 3998 9.722184 TTGAAATGGAATATGCAAATCAAAAGA 57.278 25.926 0.00 0.00 28.88 2.52
2983 4002 9.668497 TCAATTGAAATGGAATATGCAAATCAA 57.332 25.926 5.45 5.60 33.52 2.57
2984 4003 9.320352 CTCAATTGAAATGGAATATGCAAATCA 57.680 29.630 9.88 0.00 0.00 2.57
2985 4004 8.770828 CCTCAATTGAAATGGAATATGCAAATC 58.229 33.333 9.88 0.00 0.00 2.17
2986 4005 8.487848 TCCTCAATTGAAATGGAATATGCAAAT 58.512 29.630 9.88 0.00 0.00 2.32
2987 4006 7.849160 TCCTCAATTGAAATGGAATATGCAAA 58.151 30.769 9.88 0.00 0.00 3.68
2988 4007 7.124599 ACTCCTCAATTGAAATGGAATATGCAA 59.875 33.333 9.88 0.00 0.00 4.08
2989 4008 6.608405 ACTCCTCAATTGAAATGGAATATGCA 59.392 34.615 9.88 0.00 0.00 3.96
2990 4009 7.047460 ACTCCTCAATTGAAATGGAATATGC 57.953 36.000 9.88 0.00 0.00 3.14
2995 4014 9.762933 CTTTTTAACTCCTCAATTGAAATGGAA 57.237 29.630 9.88 0.00 0.00 3.53
2996 4015 8.367156 CCTTTTTAACTCCTCAATTGAAATGGA 58.633 33.333 9.88 11.63 33.74 3.41
2997 4016 7.603784 CCCTTTTTAACTCCTCAATTGAAATGG 59.396 37.037 9.88 7.70 32.66 3.16
2998 4017 8.367156 TCCCTTTTTAACTCCTCAATTGAAATG 58.633 33.333 9.88 4.83 0.00 2.32
2999 4018 8.491045 TCCCTTTTTAACTCCTCAATTGAAAT 57.509 30.769 9.88 0.00 0.00 2.17
3000 4019 7.906199 TCCCTTTTTAACTCCTCAATTGAAA 57.094 32.000 9.88 0.00 0.00 2.69
3001 4020 9.594936 TTATCCCTTTTTAACTCCTCAATTGAA 57.405 29.630 9.88 0.00 0.00 2.69
3002 4021 9.594936 TTTATCCCTTTTTAACTCCTCAATTGA 57.405 29.630 8.12 8.12 0.00 2.57
3024 4043 9.326413 CCACGGTAGAAGATACAAGAATTTTAT 57.674 33.333 0.00 0.00 0.00 1.40
3026 4045 6.093633 GCCACGGTAGAAGATACAAGAATTTT 59.906 38.462 0.00 0.00 0.00 1.82
3027 4046 5.585047 GCCACGGTAGAAGATACAAGAATTT 59.415 40.000 0.00 0.00 0.00 1.82
3028 4047 5.116882 GCCACGGTAGAAGATACAAGAATT 58.883 41.667 0.00 0.00 0.00 2.17
3029 4048 4.161565 TGCCACGGTAGAAGATACAAGAAT 59.838 41.667 0.00 0.00 0.00 2.40
3030 4049 3.512329 TGCCACGGTAGAAGATACAAGAA 59.488 43.478 0.00 0.00 0.00 2.52
3031 4050 3.093814 TGCCACGGTAGAAGATACAAGA 58.906 45.455 0.00 0.00 0.00 3.02
3032 4051 3.520290 TGCCACGGTAGAAGATACAAG 57.480 47.619 0.00 0.00 0.00 3.16
3033 4052 5.801531 ATATGCCACGGTAGAAGATACAA 57.198 39.130 0.00 0.00 0.00 2.41
3034 4053 5.279306 GGAATATGCCACGGTAGAAGATACA 60.279 44.000 0.00 0.00 0.00 2.29
3035 4054 5.169295 GGAATATGCCACGGTAGAAGATAC 58.831 45.833 0.00 0.00 0.00 2.24
3036 4055 4.836175 TGGAATATGCCACGGTAGAAGATA 59.164 41.667 0.00 0.00 31.66 1.98
3037 4056 3.646162 TGGAATATGCCACGGTAGAAGAT 59.354 43.478 0.00 0.00 31.66 2.40
3038 4057 3.035363 TGGAATATGCCACGGTAGAAGA 58.965 45.455 0.00 0.00 31.66 2.87
3039 4058 3.469008 TGGAATATGCCACGGTAGAAG 57.531 47.619 0.00 0.00 31.66 2.85
3040 4059 4.431416 AATGGAATATGCCACGGTAGAA 57.569 40.909 3.88 0.00 41.56 2.10
3041 4060 4.141597 TGAAATGGAATATGCCACGGTAGA 60.142 41.667 3.88 0.00 41.56 2.59
3042 4061 4.133820 TGAAATGGAATATGCCACGGTAG 58.866 43.478 3.88 0.00 41.56 3.18
3043 4062 4.157849 TGAAATGGAATATGCCACGGTA 57.842 40.909 3.88 0.00 41.56 4.02
3044 4063 3.011566 TGAAATGGAATATGCCACGGT 57.988 42.857 3.88 0.00 41.56 4.83
3045 4064 4.589216 ATTGAAATGGAATATGCCACGG 57.411 40.909 3.88 0.00 41.56 4.94
3046 4065 5.590145 TCAATTGAAATGGAATATGCCACG 58.410 37.500 3.88 0.00 41.56 4.94
3047 4066 6.576185 ACTCAATTGAAATGGAATATGCCAC 58.424 36.000 3.88 0.00 41.56 5.01
3048 4067 6.795144 ACTCAATTGAAATGGAATATGCCA 57.205 33.333 4.40 4.40 43.23 4.92
3049 4068 7.945134 ACTACTCAATTGAAATGGAATATGCC 58.055 34.615 9.88 0.00 0.00 4.40
3050 4069 8.623903 TGACTACTCAATTGAAATGGAATATGC 58.376 33.333 9.88 0.00 0.00 3.14
3054 4073 9.082313 ACTTTGACTACTCAATTGAAATGGAAT 57.918 29.630 9.88 0.00 36.26 3.01
3055 4074 8.463930 ACTTTGACTACTCAATTGAAATGGAA 57.536 30.769 9.88 0.00 36.26 3.53
3056 4075 7.719193 TGACTTTGACTACTCAATTGAAATGGA 59.281 33.333 9.88 0.00 36.26 3.41
3057 4076 7.874940 TGACTTTGACTACTCAATTGAAATGG 58.125 34.615 9.88 5.49 36.26 3.16


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

AutoCloner maintained by Alex Coulton.