Multiple sequence alignment - TraesCS7A01G229400

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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 TraesCS7A01G229400 chr7A 100.000 3604 0 0 1 3604 199670796 199674399 0.000000e+00 6656.0
1 TraesCS7A01G229400 chr7D 93.093 3634 154 30 2 3604 191057458 191061025 0.000000e+00 5230.0
2 TraesCS7A01G229400 chr7B 93.336 2836 117 35 399 3201 335620505 335623301 0.000000e+00 4124.0
3 TraesCS7A01G229400 chr7B 89.786 421 43 0 1 421 335620077 335620497 1.140000e-149 540.0
4 TraesCS7A01G229400 chr7B 91.346 312 27 0 3293 3604 335623955 335624266 9.250000e-116 427.0
5 TraesCS7A01G229400 chr3B 77.600 250 42 11 2258 2506 4744304 4744068 4.850000e-29 139.0
6 TraesCS7A01G229400 chr3B 89.362 94 10 0 2258 2351 3864215 3864122 6.320000e-23 119.0
7 TraesCS7A01G229400 chr3A 77.459 244 40 9 2258 2498 7297375 7297606 8.120000e-27 132.0
8 TraesCS7A01G229400 chr3D 77.293 229 40 9 2258 2486 1733647 1733431 1.360000e-24 124.0
9 TraesCS7A01G229400 chr6D 88.095 84 9 1 28 111 453167541 453167623 8.240000e-17 99.0
10 TraesCS7A01G229400 chr4B 83.871 93 13 2 33 124 502398907 502398816 1.780000e-13 87.9
11 TraesCS7A01G229400 chr2D 82.796 93 14 2 33 124 157915923 157916014 8.290000e-12 82.4
12 TraesCS7A01G229400 chr1D 86.885 61 6 2 65 124 284444209 284444150 2.320000e-07 67.6


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 TraesCS7A01G229400 chr7A 199670796 199674399 3603 False 6656 6656 100.000000 1 3604 1 chr7A.!!$F1 3603
1 TraesCS7A01G229400 chr7D 191057458 191061025 3567 False 5230 5230 93.093000 2 3604 1 chr7D.!!$F1 3602
2 TraesCS7A01G229400 chr7B 335620077 335624266 4189 False 1697 4124 91.489333 1 3604 3 chr7B.!!$F1 3603

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
605 636 1.081242 CACCACATCGCCAAGCAAC 60.081 57.895 0.0 0.0 0.00 4.17 F
1339 1370 0.929824 GCGTGTTGCATGTGTGTGTC 60.930 55.000 0.0 0.0 45.45 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1750 1787 0.251698 TGGACAATGGGCATCAGCAA 60.252 50.0 0.0 0.0 44.61 3.91 R
2964 3024 0.179225 CGGTGCATGTGTACGCTTTC 60.179 55.0 8.1 0.0 0.00 2.62 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
40 41 2.158682 TGCTTTGCTTGTTACTCCCTCA 60.159 45.455 0.00 0.00 0.00 3.86
51 52 5.784023 TGTTACTCCCTCAGTCCCATAATA 58.216 41.667 0.00 0.00 36.43 0.98
60 61 6.432162 CCCTCAGTCCCATAATATGAAATGTG 59.568 42.308 1.10 1.16 0.00 3.21
125 126 8.633724 TCTTATATTATGGGTCAGAGGGAGTAT 58.366 37.037 0.00 0.00 0.00 2.12
135 136 5.301555 GTCAGAGGGAGTATTTATGAAGGC 58.698 45.833 0.00 0.00 0.00 4.35
187 188 6.812160 CACCTAAGAACCTTCACACACTATAC 59.188 42.308 0.00 0.00 0.00 1.47
194 195 8.982723 AGAACCTTCACACACTATACTATGAAT 58.017 33.333 0.00 0.00 0.00 2.57
217 218 6.959639 TGAATCAAGAGTTTGTAAAGCCTT 57.040 33.333 0.00 0.00 35.73 4.35
222 223 2.548480 AGAGTTTGTAAAGCCTTGCGAC 59.452 45.455 0.00 0.00 0.00 5.19
248 249 7.065803 CCCGCTTTCTCAAAAATCTACTCATAA 59.934 37.037 0.00 0.00 0.00 1.90
297 298 6.806249 TGTAACTTTCAGTTTGCTTGTTTCAG 59.194 34.615 0.00 0.00 39.51 3.02
357 358 6.542370 ACAGTTTAGCAGCTGTTCTAGAAAAA 59.458 34.615 16.64 2.66 42.61 1.94
405 406 5.163754 ACGCCGGAATCAGAAAGAAATAAAG 60.164 40.000 5.05 0.00 0.00 1.85
536 567 6.205464 CACGCAAATAGACCCAAATCATCTAT 59.795 38.462 0.00 0.00 37.28 1.98
541 572 9.293404 CAAATAGACCCAAATCATCTATGACAT 57.707 33.333 0.00 0.00 40.03 3.06
577 608 8.251026 CACTTTAGTCACCAACATCTGTATCTA 58.749 37.037 0.00 0.00 0.00 1.98
594 625 9.197306 TCTGTATCTATTAGTTGTACACCACAT 57.803 33.333 0.00 0.00 36.90 3.21
605 636 1.081242 CACCACATCGCCAAGCAAC 60.081 57.895 0.00 0.00 0.00 4.17
630 661 7.883311 ACTATTTATGCTCACAAAACTAGGTGT 59.117 33.333 0.00 0.00 36.43 4.16
663 694 1.695242 ACACGGTATTTCTCACCCACA 59.305 47.619 0.00 0.00 31.96 4.17
696 727 8.502161 AATCAACACGCAAAATAGACTAAAAC 57.498 30.769 0.00 0.00 0.00 2.43
704 735 6.964934 CGCAAAATAGACTAAAACCATGTACC 59.035 38.462 0.00 0.00 0.00 3.34
775 806 8.932945 TCTAACTTTGATCACTGACATATGAC 57.067 34.615 10.38 3.62 0.00 3.06
857 888 2.290323 GGGCCTTCACACACTAACATCT 60.290 50.000 0.84 0.00 0.00 2.90
920 951 2.378806 GCATGCTTATCATCGCAACAC 58.621 47.619 11.37 0.00 39.89 3.32
1339 1370 0.929824 GCGTGTTGCATGTGTGTGTC 60.930 55.000 0.00 0.00 45.45 3.67
1370 1401 3.875134 GGTGCTTTATGCGTGGTTAGTAT 59.125 43.478 0.00 0.00 46.63 2.12
1427 1458 3.343941 AACTGGGCGTGCTCTAATTTA 57.656 42.857 0.00 0.00 0.00 1.40
1620 1651 6.595716 AGCTAGCTGATTAATTCTGACGTTTT 59.404 34.615 18.57 0.00 0.00 2.43
1622 1653 7.426743 GCTAGCTGATTAATTCTGACGTTTTTC 59.573 37.037 7.70 0.00 0.00 2.29
1627 1658 6.488683 TGATTAATTCTGACGTTTTTCCTGGT 59.511 34.615 0.00 0.00 0.00 4.00
2050 2087 1.366111 GGCATCGGTCGCTTTTGCTA 61.366 55.000 0.00 0.00 44.80 3.49
2235 2286 4.205385 GCGAGCTATAGATGCTAATTACGC 59.795 45.833 3.21 2.22 41.30 4.42
2238 2289 6.195613 CGAGCTATAGATGCTAATTACGCTTC 59.804 42.308 3.21 11.47 41.30 3.86
2544 2598 2.486966 GATCAAACCCGCTGCTGC 59.513 61.111 5.34 5.34 0.00 5.25
2545 2599 3.056313 GATCAAACCCGCTGCTGCC 62.056 63.158 10.24 0.00 35.36 4.85
2546 2600 3.574074 ATCAAACCCGCTGCTGCCT 62.574 57.895 10.24 0.00 35.36 4.75
2547 2601 4.047059 CAAACCCGCTGCTGCCTG 62.047 66.667 10.24 3.81 35.36 4.85
2573 2627 4.008933 GCCTGCTGGTCCGTCTGT 62.009 66.667 11.69 0.00 35.27 3.41
2575 2629 2.737180 CTGCTGGTCCGTCTGTGT 59.263 61.111 0.00 0.00 0.00 3.72
2612 2666 3.574826 GCGGGCCCAATAAATTAACCATA 59.425 43.478 24.92 0.00 0.00 2.74
2613 2667 4.221924 GCGGGCCCAATAAATTAACCATAT 59.778 41.667 24.92 0.00 0.00 1.78
2614 2668 5.623596 GCGGGCCCAATAAATTAACCATATC 60.624 44.000 24.92 0.00 0.00 1.63
2615 2669 5.392595 CGGGCCCAATAAATTAACCATATCG 60.393 44.000 24.92 0.00 0.00 2.92
2616 2670 5.712917 GGGCCCAATAAATTAACCATATCGA 59.287 40.000 19.95 0.00 0.00 3.59
2665 2719 4.760204 GGCTTGTATTGTGTGGTACTCTTT 59.240 41.667 0.00 0.00 0.00 2.52
2666 2720 5.334879 GGCTTGTATTGTGTGGTACTCTTTG 60.335 44.000 0.00 0.00 0.00 2.77
2667 2721 5.238650 GCTTGTATTGTGTGGTACTCTTTGT 59.761 40.000 0.00 0.00 0.00 2.83
2668 2722 6.238648 GCTTGTATTGTGTGGTACTCTTTGTT 60.239 38.462 0.00 0.00 0.00 2.83
2709 2763 3.056393 CGTGTGGTACTCTTTGGACCATA 60.056 47.826 2.84 0.00 44.79 2.74
2711 2765 5.163488 CGTGTGGTACTCTTTGGACCATATA 60.163 44.000 2.84 0.00 44.79 0.86
2712 2766 6.047231 GTGTGGTACTCTTTGGACCATATAC 58.953 44.000 2.84 0.74 44.79 1.47
2743 2797 4.031878 CCGCTTTCTCTCTTCGTTGTATTC 59.968 45.833 0.00 0.00 0.00 1.75
2748 2802 7.148573 GCTTTCTCTCTTCGTTGTATTCATTGA 60.149 37.037 0.00 0.00 0.00 2.57
2807 2861 1.033746 GTACCTGTGGCTGCATGCAT 61.034 55.000 22.97 6.08 45.15 3.96
2878 2935 5.474532 AGTGTGTGCATTAGTGATGACATTT 59.525 36.000 0.00 0.00 38.03 2.32
2891 2948 6.650807 AGTGATGACATTTTGTGATAGACGTT 59.349 34.615 0.00 0.00 0.00 3.99
2897 2954 7.041440 TGACATTTTGTGATAGACGTTCATGTT 60.041 33.333 0.00 0.00 0.00 2.71
2964 3024 2.045045 TTGCAGATTGAGCCCGGG 60.045 61.111 19.09 19.09 0.00 5.73
3032 3096 7.604657 AGATACTAAACCCTAGGTGAAGATG 57.395 40.000 8.29 0.00 35.34 2.90
3034 3098 2.808906 AAACCCTAGGTGAAGATGCC 57.191 50.000 8.29 0.00 35.34 4.40
3150 3216 2.634940 ACAAGTCATGCTACCTCAGTGT 59.365 45.455 0.00 0.00 0.00 3.55
3162 3228 3.805207 ACCTCAGTGTGACCAAAGTTAC 58.195 45.455 0.00 0.00 33.22 2.50
3168 3234 5.104859 TCAGTGTGACCAAAGTTACCAAGTA 60.105 40.000 0.00 0.00 31.62 2.24
3185 3251 4.080863 CCAAGTAAGTGAGCAACCCTATCT 60.081 45.833 0.00 0.00 0.00 1.98
3203 3865 6.260936 CCCTATCTTGAACGTGCTATTTTGAT 59.739 38.462 0.00 0.00 0.00 2.57
3215 3877 8.296713 ACGTGCTATTTTGATATGAACAAACTT 58.703 29.630 0.00 0.00 37.05 2.66
3254 3916 8.250143 AGTTTCTTGATTTTATCAACCAGGTT 57.750 30.769 0.00 0.00 43.84 3.50
3255 3917 8.360390 AGTTTCTTGATTTTATCAACCAGGTTC 58.640 33.333 0.12 0.00 43.84 3.62
3256 3918 6.834168 TCTTGATTTTATCAACCAGGTTCC 57.166 37.500 0.12 0.00 43.84 3.62
3257 3919 5.414454 TCTTGATTTTATCAACCAGGTTCCG 59.586 40.000 0.12 0.00 43.84 4.30
3258 3920 4.658063 TGATTTTATCAACCAGGTTCCGT 58.342 39.130 0.12 0.00 36.11 4.69
3259 3921 5.074115 TGATTTTATCAACCAGGTTCCGTT 58.926 37.500 0.12 0.00 36.11 4.44
3260 3922 5.536916 TGATTTTATCAACCAGGTTCCGTTT 59.463 36.000 0.12 0.00 36.11 3.60
3261 3923 5.441709 TTTTATCAACCAGGTTCCGTTTC 57.558 39.130 0.12 0.00 0.00 2.78
3262 3924 2.649531 ATCAACCAGGTTCCGTTTCA 57.350 45.000 0.12 0.00 0.00 2.69
3263 3925 2.421751 TCAACCAGGTTCCGTTTCAA 57.578 45.000 0.12 0.00 0.00 2.69
3264 3926 2.938838 TCAACCAGGTTCCGTTTCAAT 58.061 42.857 0.12 0.00 0.00 2.57
3265 3927 3.292460 TCAACCAGGTTCCGTTTCAATT 58.708 40.909 0.12 0.00 0.00 2.32
3266 3928 3.702045 TCAACCAGGTTCCGTTTCAATTT 59.298 39.130 0.12 0.00 0.00 1.82
3267 3929 4.160626 TCAACCAGGTTCCGTTTCAATTTT 59.839 37.500 0.12 0.00 0.00 1.82
3268 3930 5.360144 TCAACCAGGTTCCGTTTCAATTTTA 59.640 36.000 0.12 0.00 0.00 1.52
3269 3931 6.041069 TCAACCAGGTTCCGTTTCAATTTTAT 59.959 34.615 0.12 0.00 0.00 1.40
3270 3932 6.020971 ACCAGGTTCCGTTTCAATTTTATC 57.979 37.500 0.00 0.00 0.00 1.75
3271 3933 5.536916 ACCAGGTTCCGTTTCAATTTTATCA 59.463 36.000 0.00 0.00 0.00 2.15
3272 3934 6.041069 ACCAGGTTCCGTTTCAATTTTATCAA 59.959 34.615 0.00 0.00 0.00 2.57
3273 3935 6.364976 CCAGGTTCCGTTTCAATTTTATCAAC 59.635 38.462 0.00 0.00 0.00 3.18
3274 3936 6.364976 CAGGTTCCGTTTCAATTTTATCAACC 59.635 38.462 0.00 0.00 0.00 3.77
3275 3937 6.041069 AGGTTCCGTTTCAATTTTATCAACCA 59.959 34.615 0.00 0.00 33.41 3.67
3276 3938 6.364976 GGTTCCGTTTCAATTTTATCAACCAG 59.635 38.462 0.00 0.00 31.65 4.00
3277 3939 6.019779 TCCGTTTCAATTTTATCAACCAGG 57.980 37.500 0.00 0.00 0.00 4.45
3278 3940 5.536916 TCCGTTTCAATTTTATCAACCAGGT 59.463 36.000 0.00 0.00 0.00 4.00
3336 3998 5.551760 AAAGCCGATAGAACAATGACTTG 57.448 39.130 0.00 0.00 36.91 3.16
3346 4008 1.352352 ACAATGACTTGGGAGGTCTGG 59.648 52.381 0.00 0.00 36.64 3.86
3406 4068 0.107456 ATCTCCGATTCCAGCGCATT 59.893 50.000 11.47 0.00 0.00 3.56
3459 4138 2.437180 CAGCGCCTCCATCTGCAA 60.437 61.111 2.29 0.00 0.00 4.08
3491 4170 4.007644 CCAGCTCCAGCCGTGTCA 62.008 66.667 0.00 0.00 43.38 3.58
3503 4182 2.815308 GTGTCATCGGCCTCGGAT 59.185 61.111 0.00 0.00 36.95 4.18
3525 4204 6.713903 GGATAATGAGCCATCAGATGAAAGAA 59.286 38.462 12.41 0.00 39.29 2.52
3566 4245 1.375523 GGCACAGTGGTTCGGGTAG 60.376 63.158 1.84 0.00 0.00 3.18
3598 4277 1.205655 TCTTCTGACAAGAGGGCATCG 59.794 52.381 0.00 0.00 32.79 3.84
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
111 112 5.743422 GCCTTCATAAATACTCCCTCTGACC 60.743 48.000 0.00 0.00 0.00 4.02
135 136 3.356529 AACCATCTAGGAGGCAAACAG 57.643 47.619 1.79 0.00 41.22 3.16
194 195 6.735694 GCAAGGCTTTACAAACTCTTGATTCA 60.736 38.462 0.00 0.00 36.33 2.57
222 223 4.695455 TGAGTAGATTTTTGAGAAAGCGGG 59.305 41.667 0.00 0.00 0.00 6.13
248 249 7.147846 ACACAACCTTCAAATTTCAAGACTCAT 60.148 33.333 3.02 0.00 0.00 2.90
253 254 8.062065 AGTTACACAACCTTCAAATTTCAAGA 57.938 30.769 3.02 0.00 35.05 3.02
283 284 8.634475 AAAGATAGAAACTGAAACAAGCAAAC 57.366 30.769 0.00 0.00 0.00 2.93
333 334 6.545504 TTTTCTAGAACAGCTGCTAAACTG 57.454 37.500 15.27 0.00 39.86 3.16
357 358 9.352784 CGTTACAATTTACCAATGTGAATGATT 57.647 29.630 0.00 0.00 31.67 2.57
358 359 7.487829 GCGTTACAATTTACCAATGTGAATGAT 59.512 33.333 0.00 0.00 31.67 2.45
370 371 3.374678 TGATTCCGGCGTTACAATTTACC 59.625 43.478 6.01 0.00 0.00 2.85
376 377 2.459060 TTCTGATTCCGGCGTTACAA 57.541 45.000 6.01 0.00 0.00 2.41
405 406 2.729194 TCTCTCAAGCCACTCTACTCC 58.271 52.381 0.00 0.00 0.00 3.85
536 567 6.040278 TGACTAAAGTGAAAATTGGCATGTCA 59.960 34.615 0.00 0.00 0.00 3.58
541 572 4.646945 TGGTGACTAAAGTGAAAATTGGCA 59.353 37.500 0.00 0.00 0.00 4.92
577 608 3.267483 GGCGATGTGGTGTACAACTAAT 58.733 45.455 13.07 5.53 43.77 1.73
594 625 3.278574 AGCATAAATAGTTGCTTGGCGA 58.721 40.909 0.00 0.00 46.71 5.54
605 636 8.268850 ACACCTAGTTTTGTGAGCATAAATAG 57.731 34.615 4.15 0.00 35.52 1.73
630 661 0.734309 ACCGTGTGCGTCGTATATGA 59.266 50.000 0.96 0.00 36.15 2.15
663 694 8.822855 TCTATTTTGCGTGTTGATTATTCGTAT 58.177 29.630 0.00 0.00 0.00 3.06
696 727 4.497473 AAAATTGACGTGTGGTACATGG 57.503 40.909 0.00 0.00 44.52 3.66
704 735 8.687301 GGTGACTAAAATTAAAATTGACGTGTG 58.313 33.333 0.00 0.00 0.00 3.82
857 888 4.838423 TCTCCCAAGTTAGAGATTGTGTGA 59.162 41.667 1.55 0.00 34.23 3.58
920 951 3.258872 ACATGACATGGACATTTTGGTGG 59.741 43.478 19.39 0.00 33.60 4.61
1108 1139 0.111061 GATCCACATGGGCTGCCATA 59.889 55.000 22.05 9.29 36.21 2.74
1370 1401 4.945543 ACTGAATCAGAGTGCATATGCAAA 59.054 37.500 31.08 14.76 42.97 3.68
1381 1412 5.011533 ACAGTAGCTTCAACTGAATCAGAGT 59.988 40.000 18.20 1.14 45.89 3.24
1427 1458 2.431057 GTCCGGATCAGTCATAACCTGT 59.569 50.000 7.81 0.00 0.00 4.00
1530 1561 4.514816 GCAGCACAATTACCAAAAATGGTT 59.485 37.500 5.73 0.00 42.99 3.67
1620 1651 2.549992 CCGACAGAACATTGACCAGGAA 60.550 50.000 0.00 0.00 0.00 3.36
1622 1653 1.001974 TCCGACAGAACATTGACCAGG 59.998 52.381 0.00 0.00 0.00 4.45
1726 1762 0.544595 AAGGAAGTACCGGGCACTCT 60.545 55.000 6.32 0.00 44.74 3.24
1750 1787 0.251698 TGGACAATGGGCATCAGCAA 60.252 50.000 0.00 0.00 44.61 3.91
1751 1788 0.681887 CTGGACAATGGGCATCAGCA 60.682 55.000 0.00 0.00 44.61 4.41
2235 2286 6.967199 CGCATGGATCATCATCATAATTGAAG 59.033 38.462 0.00 0.00 34.96 3.02
2238 2289 6.027749 CACGCATGGATCATCATCATAATTG 58.972 40.000 0.00 0.00 0.00 2.32
2245 2299 1.197036 CTGCACGCATGGATCATCATC 59.803 52.381 0.00 0.00 0.00 2.92
2554 2608 3.699894 AGACGGACCAGCAGGCAG 61.700 66.667 0.00 0.00 39.06 4.85
2555 2609 4.007644 CAGACGGACCAGCAGGCA 62.008 66.667 0.00 0.00 39.06 4.75
2556 2610 4.008933 ACAGACGGACCAGCAGGC 62.009 66.667 0.00 0.00 39.06 4.85
2557 2611 2.047844 CACAGACGGACCAGCAGG 60.048 66.667 0.00 0.00 42.21 4.85
2558 2612 1.665916 CACACAGACGGACCAGCAG 60.666 63.158 0.00 0.00 0.00 4.24
2559 2613 2.421314 CACACAGACGGACCAGCA 59.579 61.111 0.00 0.00 0.00 4.41
2560 2614 1.956170 CACACACAGACGGACCAGC 60.956 63.158 0.00 0.00 0.00 4.85
2561 2615 1.956170 GCACACACAGACGGACCAG 60.956 63.158 0.00 0.00 0.00 4.00
2562 2616 2.108157 GCACACACAGACGGACCA 59.892 61.111 0.00 0.00 0.00 4.02
2563 2617 3.036084 CGCACACACAGACGGACC 61.036 66.667 0.00 0.00 0.00 4.46
2592 2646 5.712917 TCGATATGGTTAATTTATTGGGCCC 59.287 40.000 17.59 17.59 0.00 5.80
2627 2681 3.087031 ACAAGCCCAGATTGTTCATGAG 58.913 45.455 0.00 0.00 39.15 2.90
2709 2763 7.595502 CGAAGAGAGAAAGCGGTAAATATGTAT 59.404 37.037 0.00 0.00 0.00 2.29
2711 2765 5.749109 CGAAGAGAGAAAGCGGTAAATATGT 59.251 40.000 0.00 0.00 0.00 2.29
2712 2766 5.749109 ACGAAGAGAGAAAGCGGTAAATATG 59.251 40.000 0.00 0.00 0.00 1.78
2743 2797 6.569801 GCCATGGATCTCACACATAATCAATG 60.570 42.308 18.40 0.00 41.74 2.82
2748 2802 4.395625 CTGCCATGGATCTCACACATAAT 58.604 43.478 18.40 0.00 0.00 1.28
2878 2935 4.061596 TGCAACATGAACGTCTATCACAA 58.938 39.130 0.00 0.00 0.00 3.33
2891 2948 2.667874 TTCGCGGCTGCAACATGA 60.668 55.556 19.50 2.78 42.97 3.07
2897 2954 2.100031 CATGTACTTCGCGGCTGCA 61.100 57.895 19.50 1.50 42.97 4.41
2964 3024 0.179225 CGGTGCATGTGTACGCTTTC 60.179 55.000 8.10 0.00 0.00 2.62
2987 3051 9.935241 GTATCTTCATGTAGGATTACATCATGT 57.065 33.333 0.00 0.00 45.19 3.21
3099 3165 2.852449 TCAGGGCCCTACTTTCATTGAT 59.148 45.455 28.13 0.00 0.00 2.57
3150 3216 5.991861 TCACTTACTTGGTAACTTTGGTCA 58.008 37.500 0.00 0.00 37.61 4.02
3162 3228 2.568623 AGGGTTGCTCACTTACTTGG 57.431 50.000 0.00 0.00 0.00 3.61
3168 3234 4.327680 GTTCAAGATAGGGTTGCTCACTT 58.672 43.478 0.00 0.00 0.00 3.16
3185 3251 7.811653 TGTTCATATCAAAATAGCACGTTCAA 58.188 30.769 0.00 0.00 0.00 2.69
3203 3865 4.224147 TGGAGGATCGGAAGTTTGTTCATA 59.776 41.667 0.00 0.00 34.37 2.15
3215 3877 4.714802 TCAAGAAACTAATGGAGGATCGGA 59.285 41.667 0.00 0.00 34.37 4.55
3254 3916 5.536916 ACCTGGTTGATAAAATTGAAACGGA 59.463 36.000 0.00 0.00 0.00 4.69
3255 3917 5.778862 ACCTGGTTGATAAAATTGAAACGG 58.221 37.500 0.00 0.00 0.00 4.44
3256 3918 7.327518 GGTTACCTGGTTGATAAAATTGAAACG 59.672 37.037 3.84 0.00 0.00 3.60
3257 3919 8.145122 TGGTTACCTGGTTGATAAAATTGAAAC 58.855 33.333 3.84 0.00 0.00 2.78
3258 3920 8.251383 TGGTTACCTGGTTGATAAAATTGAAA 57.749 30.769 3.84 0.00 0.00 2.69
3259 3921 7.841282 TGGTTACCTGGTTGATAAAATTGAA 57.159 32.000 3.84 0.00 0.00 2.69
3260 3922 9.707957 ATATGGTTACCTGGTTGATAAAATTGA 57.292 29.630 3.84 0.00 0.00 2.57
3261 3923 9.748708 CATATGGTTACCTGGTTGATAAAATTG 57.251 33.333 3.84 0.00 0.00 2.32
3262 3924 8.923270 CCATATGGTTACCTGGTTGATAAAATT 58.077 33.333 14.09 0.00 0.00 1.82
3263 3925 8.477419 CCATATGGTTACCTGGTTGATAAAAT 57.523 34.615 14.09 0.00 0.00 1.82
3264 3926 7.889873 CCATATGGTTACCTGGTTGATAAAA 57.110 36.000 14.09 0.00 0.00 1.52
3406 4068 6.128499 CCGTCGACACCTTTTTCATTGTAATA 60.128 38.462 17.16 0.00 0.00 0.98
3435 4114 0.598065 GATGGAGGCGCTGTTTTTGT 59.402 50.000 7.64 0.00 0.00 2.83
3440 4119 2.437359 GCAGATGGAGGCGCTGTT 60.437 61.111 7.64 0.00 32.39 3.16
3459 4138 6.295575 GCTGGAGCTGGTATAATACTCAGAAT 60.296 42.308 0.00 0.00 38.21 2.40
3491 4170 0.247736 GCTCATTATCCGAGGCCGAT 59.752 55.000 0.00 0.00 38.22 4.18
3500 4179 6.236409 TCTTTCATCTGATGGCTCATTATCC 58.764 40.000 17.06 0.00 0.00 2.59
3503 4182 5.824624 GGTTCTTTCATCTGATGGCTCATTA 59.175 40.000 17.06 0.00 0.00 1.90


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

AutoCloner maintained by Alex Coulton.