Multiple sequence alignment - TraesCS6B01G317500

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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 TraesCS6B01G317500 chr6B 100.000 2839 0 0 1 2839 565417040 565419878 0.000000e+00 5243
1 TraesCS6B01G317500 chr6D 93.835 2417 91 18 451 2839 380448807 380446421 0.000000e+00 3585
2 TraesCS6B01G317500 chr6D 89.218 371 20 9 451 821 82211737 82212087 2.010000e-121 446
3 TraesCS6B01G317500 chr6D 83.333 390 37 8 73 461 380449732 380449370 4.530000e-88 335
4 TraesCS6B01G317500 chr6A 95.565 1691 59 11 1163 2839 520539367 520541055 0.000000e+00 2693
5 TraesCS6B01G317500 chr6A 89.365 583 22 8 564 1123 520538315 520538880 0.000000e+00 697


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 TraesCS6B01G317500 chr6B 565417040 565419878 2838 False 5243 5243 100.000 1 2839 1 chr6B.!!$F1 2838
1 TraesCS6B01G317500 chr6D 380446421 380449732 3311 True 1960 3585 88.584 73 2839 2 chr6D.!!$R1 2766
2 TraesCS6B01G317500 chr6A 520538315 520541055 2740 False 1695 2693 92.465 564 2839 2 chr6A.!!$F1 2275

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
307 309 0.178068 GCCGCTGTCTTCCATTCCTA 59.822 55.0 0.0 0.0 0.0 2.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2164 3268 0.185901 AGGGACTTTGCAGCAGGAAA 59.814 50.0 0.0 0.0 27.25 3.13 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
19 20 2.321213 GCTCCAACAAACAGAGCGT 58.679 52.632 0.00 0.00 43.18 5.07
20 21 0.235926 GCTCCAACAAACAGAGCGTC 59.764 55.000 0.00 0.00 43.18 5.19
21 22 1.871080 CTCCAACAAACAGAGCGTCT 58.129 50.000 0.00 0.00 0.00 4.18
22 23 2.866460 GCTCCAACAAACAGAGCGTCTA 60.866 50.000 0.00 0.00 43.18 2.59
23 24 2.731976 CTCCAACAAACAGAGCGTCTAC 59.268 50.000 0.00 0.00 0.00 2.59
24 25 2.101750 TCCAACAAACAGAGCGTCTACA 59.898 45.455 0.00 0.00 0.00 2.74
25 26 3.067106 CCAACAAACAGAGCGTCTACAT 58.933 45.455 0.00 0.00 0.00 2.29
26 27 3.123621 CCAACAAACAGAGCGTCTACATC 59.876 47.826 0.00 0.00 0.00 3.06
27 28 2.960819 ACAAACAGAGCGTCTACATCC 58.039 47.619 0.00 0.00 0.00 3.51
28 29 2.299013 ACAAACAGAGCGTCTACATCCA 59.701 45.455 0.00 0.00 0.00 3.41
29 30 3.244078 ACAAACAGAGCGTCTACATCCAA 60.244 43.478 0.00 0.00 0.00 3.53
30 31 3.678056 AACAGAGCGTCTACATCCAAA 57.322 42.857 0.00 0.00 0.00 3.28
31 32 2.960819 ACAGAGCGTCTACATCCAAAC 58.039 47.619 0.00 0.00 0.00 2.93
32 33 2.299013 ACAGAGCGTCTACATCCAAACA 59.701 45.455 0.00 0.00 0.00 2.83
33 34 2.926200 CAGAGCGTCTACATCCAAACAG 59.074 50.000 0.00 0.00 0.00 3.16
34 35 2.826128 AGAGCGTCTACATCCAAACAGA 59.174 45.455 0.00 0.00 0.00 3.41
35 36 3.119316 AGAGCGTCTACATCCAAACAGAG 60.119 47.826 0.00 0.00 0.00 3.35
36 37 1.661112 GCGTCTACATCCAAACAGAGC 59.339 52.381 0.00 0.00 0.00 4.09
37 38 1.920574 CGTCTACATCCAAACAGAGCG 59.079 52.381 0.00 0.00 0.00 5.03
38 39 2.671351 CGTCTACATCCAAACAGAGCGT 60.671 50.000 0.00 0.00 0.00 5.07
39 40 3.427098 CGTCTACATCCAAACAGAGCGTA 60.427 47.826 0.00 0.00 0.00 4.42
40 41 4.491676 GTCTACATCCAAACAGAGCGTAA 58.508 43.478 0.00 0.00 0.00 3.18
41 42 4.927425 GTCTACATCCAAACAGAGCGTAAA 59.073 41.667 0.00 0.00 0.00 2.01
42 43 5.062308 GTCTACATCCAAACAGAGCGTAAAG 59.938 44.000 0.00 0.00 0.00 1.85
43 44 4.002906 ACATCCAAACAGAGCGTAAAGA 57.997 40.909 0.00 0.00 0.00 2.52
44 45 4.385825 ACATCCAAACAGAGCGTAAAGAA 58.614 39.130 0.00 0.00 0.00 2.52
45 46 4.819630 ACATCCAAACAGAGCGTAAAGAAA 59.180 37.500 0.00 0.00 0.00 2.52
46 47 4.806342 TCCAAACAGAGCGTAAAGAAAC 57.194 40.909 0.00 0.00 0.00 2.78
47 48 3.562557 TCCAAACAGAGCGTAAAGAAACC 59.437 43.478 0.00 0.00 0.00 3.27
48 49 3.314080 CCAAACAGAGCGTAAAGAAACCA 59.686 43.478 0.00 0.00 0.00 3.67
49 50 4.201970 CCAAACAGAGCGTAAAGAAACCAA 60.202 41.667 0.00 0.00 0.00 3.67
50 51 5.336744 CAAACAGAGCGTAAAGAAACCAAA 58.663 37.500 0.00 0.00 0.00 3.28
51 52 5.570234 AACAGAGCGTAAAGAAACCAAAA 57.430 34.783 0.00 0.00 0.00 2.44
52 53 5.570234 ACAGAGCGTAAAGAAACCAAAAA 57.430 34.783 0.00 0.00 0.00 1.94
70 71 4.773323 AAAAATACAAGACTGCTCAGCC 57.227 40.909 0.00 0.00 0.00 4.85
71 72 2.015736 AATACAAGACTGCTCAGCCG 57.984 50.000 0.00 0.00 0.00 5.52
98 100 2.904866 GTGGCGTGGCTCCAACAA 60.905 61.111 0.00 0.00 35.01 2.83
105 107 3.124686 GGCTCCAACAAACGCCAA 58.875 55.556 0.00 0.00 42.06 4.52
125 127 2.165998 ACTCTCTTTGCTTTGATGGCC 58.834 47.619 0.00 0.00 0.00 5.36
141 143 1.271108 TGGCCTCGTAAGCAAACATCA 60.271 47.619 3.32 0.00 37.18 3.07
165 167 4.150627 CCACCTCATAATGCGAAATACGAG 59.849 45.833 0.00 0.00 45.77 4.18
169 171 4.939271 TCATAATGCGAAATACGAGTCCA 58.061 39.130 0.00 0.00 45.77 4.02
171 173 6.683715 TCATAATGCGAAATACGAGTCCATA 58.316 36.000 0.00 0.00 45.77 2.74
190 192 7.010738 AGTCCATATAAAAATACACACGTTCCG 59.989 37.037 0.00 0.00 0.00 4.30
191 193 5.905181 CCATATAAAAATACACACGTTCCGC 59.095 40.000 0.00 0.00 0.00 5.54
194 196 1.153353 AAATACACACGTTCCGCCAG 58.847 50.000 0.00 0.00 0.00 4.85
199 201 2.201022 ACACGTTCCGCCAGAGTCT 61.201 57.895 0.00 0.00 0.00 3.24
209 211 3.547567 CCAGAGTCTGGCAAGAAGG 57.452 57.895 26.03 0.00 45.13 3.46
254 256 0.600255 CCAGACACGTGGTTCCAGAC 60.600 60.000 21.57 0.86 32.32 3.51
261 263 1.203994 ACGTGGTTCCAGACGATAAGG 59.796 52.381 8.45 0.00 38.94 2.69
281 283 3.246687 AAGGGGTCGTCCTTGCAA 58.753 55.556 0.00 0.00 44.78 4.08
282 284 1.534697 AAGGGGTCGTCCTTGCAAA 59.465 52.632 0.00 0.00 44.78 3.68
283 285 0.537371 AAGGGGTCGTCCTTGCAAAG 60.537 55.000 0.00 0.00 44.78 2.77
292 294 4.362476 CTTGCAAAGGTGGGCCGC 62.362 66.667 9.05 9.05 41.27 6.53
293 295 4.912395 TTGCAAAGGTGGGCCGCT 62.912 61.111 17.99 0.00 40.50 5.52
296 298 3.365265 CAAAGGTGGGCCGCTGTC 61.365 66.667 17.99 0.00 40.50 3.51
297 299 3.570212 AAAGGTGGGCCGCTGTCT 61.570 61.111 17.99 2.43 40.50 3.41
298 300 3.133365 AAAGGTGGGCCGCTGTCTT 62.133 57.895 17.99 9.12 40.50 3.01
303 305 2.044946 GGGCCGCTGTCTTCCATT 60.045 61.111 0.00 0.00 0.00 3.16
307 309 0.178068 GCCGCTGTCTTCCATTCCTA 59.822 55.000 0.00 0.00 0.00 2.94
316 318 4.464244 TGTCTTCCATTCCTAGAGACACAG 59.536 45.833 4.54 0.00 41.09 3.66
328 330 2.036475 AGAGACACAGCTGACAATTCGT 59.964 45.455 23.35 5.20 0.00 3.85
336 338 0.943673 CTGACAATTCGTGCCACACA 59.056 50.000 0.00 0.00 33.40 3.72
337 339 0.943673 TGACAATTCGTGCCACACAG 59.056 50.000 0.00 0.00 33.40 3.66
356 358 3.767131 ACAGCCGGCCAAAATAATTAACT 59.233 39.130 26.15 0.00 0.00 2.24
361 363 5.872617 GCCGGCCAAAATAATTAACTTCTTT 59.127 36.000 18.11 0.00 0.00 2.52
362 364 6.183360 GCCGGCCAAAATAATTAACTTCTTTG 60.183 38.462 18.11 0.00 0.00 2.77
423 425 9.458727 AATTCATGTGAAAGATCTGTTGATAGT 57.541 29.630 0.00 0.00 37.61 2.12
424 426 8.853077 TTCATGTGAAAGATCTGTTGATAGTT 57.147 30.769 0.00 0.00 32.19 2.24
492 1067 8.948853 TTCATTTATGTTTCGACATCTTTGAC 57.051 30.769 0.00 0.00 0.00 3.18
595 1170 3.399879 GGCATGTTACACAAAGCCG 57.600 52.632 7.66 0.00 41.31 5.52
690 1265 2.647297 GCAGCAACTGGTTGGCTC 59.353 61.111 14.17 0.00 40.74 4.70
702 1277 1.230324 GTTGGCTCAGAACACTGGAC 58.770 55.000 0.00 0.00 33.04 4.02
736 1311 3.712907 GTAAGCGGCCACTCCCCA 61.713 66.667 2.24 0.00 0.00 4.96
1002 1615 4.954118 TCCCTCACACACGCCCCT 62.954 66.667 0.00 0.00 0.00 4.79
1018 1631 1.574526 CCCTCAGAAATCCCCAGCCA 61.575 60.000 0.00 0.00 0.00 4.75
1150 2237 4.806339 CCCTCCTCGGCCCCTCTT 62.806 72.222 0.00 0.00 0.00 2.85
1152 2239 3.532155 CTCCTCGGCCCCTCTTCG 61.532 72.222 0.00 0.00 0.00 3.79
1461 2560 2.509561 GCCTTCTCCCGCTTCGTC 60.510 66.667 0.00 0.00 0.00 4.20
1615 2714 1.999071 CTTCCTGCTCGTCTCCCTCG 61.999 65.000 0.00 0.00 0.00 4.63
1763 2863 0.984230 ACACCCGAACATCTCCATGT 59.016 50.000 0.00 0.00 45.89 3.21
1780 2880 6.930164 TCTCCATGTTTCATTGATGTTTTTGG 59.070 34.615 0.00 0.00 0.00 3.28
1817 2917 6.471519 CAGGTTTAGTATAGTACAGTCGTTGC 59.528 42.308 0.00 0.00 0.00 4.17
2081 3185 3.939740 ATTCTGCTGCTCTCCCAATAA 57.060 42.857 0.00 0.00 0.00 1.40
2164 3268 4.942761 AAGAATTGCATCAGTTGTGGTT 57.057 36.364 0.00 0.00 0.00 3.67
2165 3269 4.942761 AGAATTGCATCAGTTGTGGTTT 57.057 36.364 0.00 0.00 0.00 3.27
2167 3271 5.291971 AGAATTGCATCAGTTGTGGTTTTC 58.708 37.500 0.00 0.00 0.00 2.29
2182 3286 1.039856 TTTTCCTGCTGCAAAGTCCC 58.960 50.000 3.02 0.00 0.00 4.46
2195 3299 2.802816 CAAAGTCCCTGTCTGAACTTCG 59.197 50.000 0.00 0.00 30.99 3.79
2206 3310 3.553511 GTCTGAACTTCGCGATGAATGAT 59.446 43.478 26.56 8.46 35.63 2.45
2210 3314 3.056952 ACTTCGCGATGAATGATTTGC 57.943 42.857 26.56 0.00 35.63 3.68
2217 3321 3.313526 GCGATGAATGATTTGCCTAGTGT 59.686 43.478 0.00 0.00 0.00 3.55
2219 3323 4.333649 CGATGAATGATTTGCCTAGTGTGT 59.666 41.667 0.00 0.00 0.00 3.72
2223 3327 3.483808 TGATTTGCCTAGTGTGTGACA 57.516 42.857 0.00 0.00 0.00 3.58
2274 3378 0.539438 TGGCAACATGGACAGGTTCC 60.539 55.000 0.00 5.61 46.17 3.62
2284 3388 0.955919 GACAGGTTCCTTGCCTTCGG 60.956 60.000 0.00 0.00 33.31 4.30
2303 3407 3.133901 TCGGTAGCCTATGAAATGAAGCA 59.866 43.478 0.00 0.00 0.00 3.91
2331 3435 3.519510 ACTGGGTAAATGCTTGCTCTCTA 59.480 43.478 0.00 0.00 0.00 2.43
2332 3436 4.125703 CTGGGTAAATGCTTGCTCTCTAG 58.874 47.826 0.00 0.00 0.00 2.43
2395 3501 4.277672 ACTTTCTAAAGCGAACTTTTCCCC 59.722 41.667 2.37 0.00 43.74 4.81
2421 3527 6.762702 TGATCAGTAAACGTAGGTACATCA 57.237 37.500 0.00 0.00 0.00 3.07
2595 3702 5.294552 AGTCAAAGCAGTGTTCAGTTAGTTC 59.705 40.000 0.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.166531 ACGCTCTGTTTGTTGGAGCC 61.167 55.000 8.30 0.00 46.60 4.70
1 2 0.235926 GACGCTCTGTTTGTTGGAGC 59.764 55.000 0.00 0.00 46.06 4.70
2 3 1.871080 AGACGCTCTGTTTGTTGGAG 58.129 50.000 0.00 0.00 0.00 3.86
3 4 2.101750 TGTAGACGCTCTGTTTGTTGGA 59.898 45.455 0.00 0.00 0.00 3.53
4 5 2.479837 TGTAGACGCTCTGTTTGTTGG 58.520 47.619 0.00 0.00 0.00 3.77
5 6 3.123621 GGATGTAGACGCTCTGTTTGTTG 59.876 47.826 0.00 0.00 0.00 3.33
6 7 3.244078 TGGATGTAGACGCTCTGTTTGTT 60.244 43.478 0.00 0.00 0.00 2.83
7 8 2.299013 TGGATGTAGACGCTCTGTTTGT 59.701 45.455 0.00 0.00 0.00 2.83
8 9 2.959516 TGGATGTAGACGCTCTGTTTG 58.040 47.619 0.00 0.00 0.00 2.93
9 10 3.678056 TTGGATGTAGACGCTCTGTTT 57.322 42.857 0.00 0.00 0.00 2.83
10 11 3.244078 TGTTTGGATGTAGACGCTCTGTT 60.244 43.478 0.00 0.00 0.00 3.16
11 12 2.299013 TGTTTGGATGTAGACGCTCTGT 59.701 45.455 0.00 0.00 0.00 3.41
12 13 2.926200 CTGTTTGGATGTAGACGCTCTG 59.074 50.000 0.00 0.00 0.00 3.35
13 14 2.826128 TCTGTTTGGATGTAGACGCTCT 59.174 45.455 0.00 0.00 0.00 4.09
14 15 3.182967 CTCTGTTTGGATGTAGACGCTC 58.817 50.000 0.00 0.00 0.00 5.03
15 16 2.675317 GCTCTGTTTGGATGTAGACGCT 60.675 50.000 0.00 0.00 0.00 5.07
16 17 1.661112 GCTCTGTTTGGATGTAGACGC 59.339 52.381 0.00 0.00 0.00 5.19
17 18 1.920574 CGCTCTGTTTGGATGTAGACG 59.079 52.381 0.00 0.00 0.00 4.18
18 19 2.960819 ACGCTCTGTTTGGATGTAGAC 58.039 47.619 0.00 0.00 0.00 2.59
19 20 4.794278 TTACGCTCTGTTTGGATGTAGA 57.206 40.909 0.00 0.00 0.00 2.59
20 21 5.168569 TCTTTACGCTCTGTTTGGATGTAG 58.831 41.667 0.00 0.00 0.00 2.74
21 22 5.142061 TCTTTACGCTCTGTTTGGATGTA 57.858 39.130 0.00 0.00 0.00 2.29
22 23 4.002906 TCTTTACGCTCTGTTTGGATGT 57.997 40.909 0.00 0.00 0.00 3.06
23 24 5.147162 GTTTCTTTACGCTCTGTTTGGATG 58.853 41.667 0.00 0.00 0.00 3.51
24 25 4.215613 GGTTTCTTTACGCTCTGTTTGGAT 59.784 41.667 0.00 0.00 0.00 3.41
25 26 3.562557 GGTTTCTTTACGCTCTGTTTGGA 59.437 43.478 0.00 0.00 0.00 3.53
26 27 3.314080 TGGTTTCTTTACGCTCTGTTTGG 59.686 43.478 0.00 0.00 0.00 3.28
27 28 4.545823 TGGTTTCTTTACGCTCTGTTTG 57.454 40.909 0.00 0.00 0.00 2.93
28 29 5.570234 TTTGGTTTCTTTACGCTCTGTTT 57.430 34.783 0.00 0.00 0.00 2.83
29 30 5.570234 TTTTGGTTTCTTTACGCTCTGTT 57.430 34.783 0.00 0.00 0.00 3.16
30 31 5.570234 TTTTTGGTTTCTTTACGCTCTGT 57.430 34.783 0.00 0.00 0.00 3.41
49 50 3.189287 CGGCTGAGCAGTCTTGTATTTTT 59.811 43.478 6.82 0.00 0.00 1.94
50 51 2.744202 CGGCTGAGCAGTCTTGTATTTT 59.256 45.455 6.82 0.00 0.00 1.82
51 52 2.028112 TCGGCTGAGCAGTCTTGTATTT 60.028 45.455 6.82 0.00 0.00 1.40
52 53 1.550524 TCGGCTGAGCAGTCTTGTATT 59.449 47.619 6.82 0.00 0.00 1.89
53 54 1.186200 TCGGCTGAGCAGTCTTGTAT 58.814 50.000 6.82 0.00 0.00 2.29
54 55 1.134995 CATCGGCTGAGCAGTCTTGTA 60.135 52.381 6.82 0.00 0.00 2.41
55 56 0.390866 CATCGGCTGAGCAGTCTTGT 60.391 55.000 6.82 0.00 0.00 3.16
56 57 1.703438 GCATCGGCTGAGCAGTCTTG 61.703 60.000 6.82 3.85 36.96 3.02
57 58 1.449246 GCATCGGCTGAGCAGTCTT 60.449 57.895 6.82 0.00 36.96 3.01
58 59 2.186384 GCATCGGCTGAGCAGTCT 59.814 61.111 6.82 0.00 36.96 3.24
59 60 2.125391 TGCATCGGCTGAGCAGTC 60.125 61.111 6.82 0.00 41.91 3.51
60 61 2.435586 GTGCATCGGCTGAGCAGT 60.436 61.111 16.75 0.00 39.21 4.40
61 62 3.200593 GGTGCATCGGCTGAGCAG 61.201 66.667 16.75 1.33 39.21 4.24
62 63 4.783621 GGGTGCATCGGCTGAGCA 62.784 66.667 6.82 13.53 41.91 4.26
63 64 4.783621 TGGGTGCATCGGCTGAGC 62.784 66.667 0.00 0.00 41.91 4.26
64 65 2.513204 CTGGGTGCATCGGCTGAG 60.513 66.667 0.00 0.00 41.91 3.35
65 66 3.321648 ACTGGGTGCATCGGCTGA 61.322 61.111 0.00 0.00 41.91 4.26
66 67 3.129502 CACTGGGTGCATCGGCTG 61.130 66.667 0.00 0.00 41.91 4.85
67 68 4.415150 CCACTGGGTGCATCGGCT 62.415 66.667 0.00 0.00 41.91 5.52
85 86 2.051345 GCGTTTGTTGGAGCCACG 60.051 61.111 0.00 0.00 0.00 4.94
98 100 1.680338 AAGCAAAGAGAGTTGGCGTT 58.320 45.000 0.00 0.00 0.00 4.84
105 107 2.165998 GGCCATCAAAGCAAAGAGAGT 58.834 47.619 0.00 0.00 0.00 3.24
125 127 2.159627 GGTGGTGATGTTTGCTTACGAG 59.840 50.000 0.00 0.00 0.00 4.18
141 143 3.807622 CGTATTTCGCATTATGAGGTGGT 59.192 43.478 0.00 0.00 0.00 4.16
194 196 2.284190 GTATGCCTTCTTGCCAGACTC 58.716 52.381 0.00 0.00 0.00 3.36
199 201 1.685803 CCATGGTATGCCTTCTTGCCA 60.686 52.381 2.57 0.00 36.76 4.92
202 204 4.526970 AGTTACCATGGTATGCCTTCTTG 58.473 43.478 25.12 0.00 35.27 3.02
204 206 3.136626 GGAGTTACCATGGTATGCCTTCT 59.863 47.826 25.12 15.19 38.79 2.85
209 211 3.838244 TGAGGAGTTACCATGGTATGC 57.162 47.619 25.12 19.49 42.04 3.14
216 218 2.779430 TGGATGCATGAGGAGTTACCAT 59.221 45.455 2.46 0.00 42.04 3.55
254 256 0.822164 ACGACCCCTTGTCCTTATCG 59.178 55.000 0.00 0.00 41.18 2.92
275 277 4.362476 GCGGCCCACCTTTGCAAG 62.362 66.667 0.00 0.00 0.00 4.01
276 278 4.912395 AGCGGCCCACCTTTGCAA 62.912 61.111 0.00 0.00 0.00 4.08
279 281 3.365265 GACAGCGGCCCACCTTTG 61.365 66.667 0.00 0.00 0.00 2.77
280 282 3.133365 AAGACAGCGGCCCACCTTT 62.133 57.895 0.00 0.00 0.00 3.11
281 283 3.553095 GAAGACAGCGGCCCACCTT 62.553 63.158 0.00 0.00 0.00 3.50
282 284 4.021925 GAAGACAGCGGCCCACCT 62.022 66.667 0.00 0.00 0.00 4.00
284 286 3.628646 ATGGAAGACAGCGGCCCAC 62.629 63.158 0.00 0.00 0.00 4.61
285 287 2.819984 GAATGGAAGACAGCGGCCCA 62.820 60.000 0.00 0.00 0.00 5.36
286 288 2.044946 AATGGAAGACAGCGGCCC 60.045 61.111 0.00 0.00 0.00 5.80
287 289 2.115291 GGAATGGAAGACAGCGGCC 61.115 63.158 0.00 0.00 0.00 6.13
288 290 0.178068 TAGGAATGGAAGACAGCGGC 59.822 55.000 0.00 0.00 0.00 6.53
289 291 1.757118 TCTAGGAATGGAAGACAGCGG 59.243 52.381 0.00 0.00 0.00 5.52
290 292 2.690497 TCTCTAGGAATGGAAGACAGCG 59.310 50.000 0.00 0.00 0.00 5.18
291 293 3.449018 TGTCTCTAGGAATGGAAGACAGC 59.551 47.826 4.54 0.00 32.13 4.40
292 294 4.464244 TGTGTCTCTAGGAATGGAAGACAG 59.536 45.833 8.09 0.00 35.82 3.51
293 295 4.416516 TGTGTCTCTAGGAATGGAAGACA 58.583 43.478 4.54 4.54 33.22 3.41
294 296 4.679372 GCTGTGTCTCTAGGAATGGAAGAC 60.679 50.000 0.00 0.00 0.00 3.01
295 297 3.449018 GCTGTGTCTCTAGGAATGGAAGA 59.551 47.826 0.00 0.00 0.00 2.87
296 298 3.450457 AGCTGTGTCTCTAGGAATGGAAG 59.550 47.826 0.00 0.00 0.00 3.46
297 299 3.196469 CAGCTGTGTCTCTAGGAATGGAA 59.804 47.826 5.25 0.00 0.00 3.53
298 300 2.762887 CAGCTGTGTCTCTAGGAATGGA 59.237 50.000 5.25 0.00 0.00 3.41
303 305 2.586648 TGTCAGCTGTGTCTCTAGGA 57.413 50.000 14.67 0.00 0.00 2.94
307 309 2.036475 ACGAATTGTCAGCTGTGTCTCT 59.964 45.455 14.67 0.00 0.00 3.10
316 318 0.385974 GTGTGGCACGAATTGTCAGC 60.386 55.000 13.77 0.00 41.79 4.26
336 338 4.709886 AGAAGTTAATTATTTTGGCCGGCT 59.290 37.500 28.56 8.66 0.00 5.52
337 339 5.006153 AGAAGTTAATTATTTTGGCCGGC 57.994 39.130 21.18 21.18 0.00 6.13
398 400 9.458727 AACTATCAACAGATCTTTCACATGAAT 57.541 29.630 0.00 0.00 33.54 2.57
401 403 9.903682 AAAAACTATCAACAGATCTTTCACATG 57.096 29.630 0.00 0.00 0.00 3.21
435 437 8.940397 TTCCTAGTTCAGAGAAATTCCAATTT 57.060 30.769 0.00 0.00 41.06 1.82
521 1096 6.883756 GCCAAATTATTTTCCCCAAGATTCAA 59.116 34.615 0.00 0.00 0.00 2.69
562 1137 5.669164 AACATGCCGGTAAATACCAAAAT 57.331 34.783 1.90 0.00 46.80 1.82
629 1204 7.337184 TCCCACGTAATTAAGCATTTCAATGTA 59.663 33.333 0.00 0.00 38.65 2.29
630 1205 6.151985 TCCCACGTAATTAAGCATTTCAATGT 59.848 34.615 0.00 0.00 38.65 2.71
631 1206 6.559810 TCCCACGTAATTAAGCATTTCAATG 58.440 36.000 0.00 0.00 39.40 2.82
640 1215 5.419760 GGAATCTTCCCACGTAATTAAGC 57.580 43.478 0.00 0.00 41.62 3.09
690 1265 0.944386 CAAACGGGTCCAGTGTTCTG 59.056 55.000 0.00 0.00 41.01 3.02
702 1277 2.536761 TACTGACCAGAACAAACGGG 57.463 50.000 3.76 0.00 0.00 5.28
736 1311 2.067365 ACTTGAAAGGCCGGAAAGTT 57.933 45.000 5.05 0.00 0.00 2.66
1002 1615 0.552848 GGATGGCTGGGGATTTCTGA 59.447 55.000 0.00 0.00 0.00 3.27
1317 2416 1.012486 CGTTGAAGACCGGGTACTGC 61.012 60.000 6.32 1.06 0.00 4.40
1461 2560 3.672255 CTGCATGGCGTTGAAGCGG 62.672 63.158 0.00 0.00 38.18 5.52
1817 2917 9.009327 CCATTGAATTTACAACTAAATGCGTAG 57.991 33.333 0.00 0.00 32.22 3.51
2081 3185 6.662755 TCATTCATATACCAAGGAAAGCTGT 58.337 36.000 0.00 0.00 0.00 4.40
2160 3264 1.408702 GACTTTGCAGCAGGAAAACCA 59.591 47.619 0.00 0.00 34.53 3.67
2164 3268 0.185901 AGGGACTTTGCAGCAGGAAA 59.814 50.000 0.00 0.00 27.25 3.13
2165 3269 0.538057 CAGGGACTTTGCAGCAGGAA 60.538 55.000 0.00 0.00 34.60 3.36
2167 3271 1.228367 ACAGGGACTTTGCAGCAGG 60.228 57.895 0.00 0.00 34.60 4.85
2182 3286 1.982612 TCATCGCGAAGTTCAGACAG 58.017 50.000 15.24 0.00 0.00 3.51
2195 3299 3.313526 ACACTAGGCAAATCATTCATCGC 59.686 43.478 0.00 0.00 0.00 4.58
2206 3310 2.698274 TCTCTGTCACACACTAGGCAAA 59.302 45.455 0.00 0.00 0.00 3.68
2210 3314 4.439426 GCTACATCTCTGTCACACACTAGG 60.439 50.000 0.00 0.00 36.79 3.02
2217 3321 3.829026 ACTGAAGCTACATCTCTGTCACA 59.171 43.478 0.00 0.00 36.79 3.58
2219 3323 3.127721 CGACTGAAGCTACATCTCTGTCA 59.872 47.826 17.35 2.02 36.79 3.58
2223 3327 2.095461 TGCGACTGAAGCTACATCTCT 58.905 47.619 0.00 0.00 35.28 3.10
2284 3388 9.237846 GTATTTTTGCTTCATTTCATAGGCTAC 57.762 33.333 0.00 0.00 0.00 3.58
2303 3407 6.211384 AGAGCAAGCATTTACCCAGTATTTTT 59.789 34.615 0.00 0.00 0.00 1.94
2395 3501 7.758076 TGATGTACCTACGTTTACTGATCAAAG 59.242 37.037 0.00 0.00 0.00 2.77
2421 3527 6.015180 ACAGTTCAAAGGTACAATGATGCATT 60.015 34.615 0.00 0.00 34.04 3.56


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

AutoCloner maintained by Alex Coulton.