Multiple sequence alignment - TraesCS6A01G142500

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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 TraesCS6A01G142500 chr6A 100.000 2291 0 0 1 2291 117352712 117350422 0.000000e+00 4231
1 TraesCS6A01G142500 chr6A 79.126 709 111 21 281 965 107489436 107490131 2.680000e-124 455
2 TraesCS6A01G142500 chr6D 92.314 1262 70 11 380 1624 98102800 98104051 0.000000e+00 1768
3 TraesCS6A01G142500 chr6D 77.350 883 145 28 281 1140 89228082 89228932 2.660000e-129 472
4 TraesCS6A01G142500 chr6D 89.583 336 11 6 65 387 98110294 98109970 2.740000e-109 405
5 TraesCS6A01G142500 chr6D 73.947 902 150 54 267 1119 67913760 67912895 3.730000e-73 285
6 TraesCS6A01G142500 chr6D 86.194 268 28 3 1640 1899 98101572 98101838 4.820000e-72 281
7 TraesCS6A01G142500 chr6B 90.958 1117 77 12 1149 2247 183309161 183308051 0.000000e+00 1482
8 TraesCS6A01G142500 chr6B 88.869 1096 71 23 65 1156 183310260 183309212 0.000000e+00 1301
9 TraesCS6A01G142500 chr6B 78.990 733 133 12 281 1003 171418222 171418943 4.430000e-132 481
10 TraesCS6A01G142500 chr6B 74.226 904 152 52 267 1119 142631084 142630211 1.030000e-78 303
11 TraesCS6A01G142500 chr6B 85.145 276 35 5 281 550 171384700 171384975 6.230000e-71 278
12 TraesCS6A01G142500 chrUn 93.377 151 9 1 1903 2052 50619843 50619993 2.960000e-54 222
13 TraesCS6A01G142500 chr3D 91.720 157 11 1 1896 2050 288550455 288550611 1.380000e-52 217
14 TraesCS6A01G142500 chr3D 88.235 85 10 0 270 354 127220070 127220154 4.030000e-18 102
15 TraesCS6A01G142500 chr2A 92.715 151 10 1 1901 2050 141506320 141506470 1.380000e-52 217
16 TraesCS6A01G142500 chr1D 91.824 159 8 4 1903 2058 193504532 193504376 1.380000e-52 217
17 TraesCS6A01G142500 chr1A 91.772 158 9 4 1903 2058 240310278 240310123 1.380000e-52 217
18 TraesCS6A01G142500 chr4B 91.195 159 13 1 1901 2058 106227559 106227401 4.960000e-52 215
19 TraesCS6A01G142500 chr3A 91.083 157 13 1 1901 2056 383690935 383691091 6.410000e-51 211
20 TraesCS6A01G142500 chr5D 90.625 160 12 2 1892 2050 528717435 528717278 2.310000e-50 209


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 TraesCS6A01G142500 chr6A 117350422 117352712 2290 True 4231.0 4231 100.0000 1 2291 1 chr6A.!!$R1 2290
1 TraesCS6A01G142500 chr6A 107489436 107490131 695 False 455.0 455 79.1260 281 965 1 chr6A.!!$F1 684
2 TraesCS6A01G142500 chr6D 98101572 98104051 2479 False 1024.5 1768 89.2540 380 1899 2 chr6D.!!$F2 1519
3 TraesCS6A01G142500 chr6D 89228082 89228932 850 False 472.0 472 77.3500 281 1140 1 chr6D.!!$F1 859
4 TraesCS6A01G142500 chr6D 67912895 67913760 865 True 285.0 285 73.9470 267 1119 1 chr6D.!!$R1 852
5 TraesCS6A01G142500 chr6B 183308051 183310260 2209 True 1391.5 1482 89.9135 65 2247 2 chr6B.!!$R2 2182
6 TraesCS6A01G142500 chr6B 171418222 171418943 721 False 481.0 481 78.9900 281 1003 1 chr6B.!!$F2 722
7 TraesCS6A01G142500 chr6B 142630211 142631084 873 True 303.0 303 74.2260 267 1119 1 chr6B.!!$R1 852

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
838 1715 0.035458 CTTCCGCACCTTGTCCTTCT 59.965 55.0 0.0 0.0 0.0 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1662 2637 0.112412 TTTGGCCCAGTCTTCCTTCC 59.888 55.0 0.0 0.0 0.0 3.46 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
27 28 4.808414 ATCAAGATTGAGTCGGTCTTCA 57.192 40.909 6.81 0.00 41.08 3.02
28 29 4.600692 TCAAGATTGAGTCGGTCTTCAA 57.399 40.909 6.81 0.00 32.50 2.69
31 32 5.820423 TCAAGATTGAGTCGGTCTTCAAAAA 59.180 36.000 6.81 0.00 32.50 1.94
93 94 2.498056 AAACCAAGCCCAAGCACCG 61.498 57.895 0.00 0.00 43.56 4.94
103 104 2.879826 CCCAAGCACCGATTTCAAATC 58.120 47.619 0.00 0.00 0.00 2.17
137 138 1.805945 GGCAGTCACCTAAGACGCG 60.806 63.158 3.53 3.53 43.24 6.01
156 159 2.418628 GCGACCAAAAATCGGATCTTCA 59.581 45.455 0.00 0.00 39.99 3.02
161 164 4.582656 ACCAAAAATCGGATCTTCACACAA 59.417 37.500 0.00 0.00 0.00 3.33
170 173 3.614616 GGATCTTCACACAACTCGATGAC 59.385 47.826 0.00 0.00 0.00 3.06
212 215 1.743321 GACATCAGAGGCCGAGGAGG 61.743 65.000 0.00 0.00 44.97 4.30
239 242 1.004927 GATGCATAAACGGCGACAGTC 60.005 52.381 16.62 0.00 0.00 3.51
243 246 2.474032 GCATAAACGGCGACAGTCTTTC 60.474 50.000 16.62 0.00 0.00 2.62
244 247 2.512485 TAAACGGCGACAGTCTTTCA 57.488 45.000 16.62 0.00 0.00 2.69
245 248 1.217882 AAACGGCGACAGTCTTTCAG 58.782 50.000 16.62 0.00 0.00 3.02
252 255 0.951040 GACAGTCTTTCAGGGGCACG 60.951 60.000 0.00 0.00 0.00 5.34
501 1351 1.703438 CCTCGTCTACGACACGGAGG 61.703 65.000 0.14 0.00 44.22 4.30
596 1449 4.979204 GGCACGCTGTACACTGTA 57.021 55.556 0.00 0.00 0.00 2.74
597 1450 3.436001 GGCACGCTGTACACTGTAT 57.564 52.632 0.00 0.00 0.00 2.29
838 1715 0.035458 CTTCCGCACCTTGTCCTTCT 59.965 55.000 0.00 0.00 0.00 2.85
955 1839 4.331622 ACGAGGATGGCTACGTCA 57.668 55.556 0.00 0.00 33.80 4.35
1188 2148 1.375396 CACCACATTTCGCCTCCGA 60.375 57.895 0.00 0.00 42.66 4.55
1196 2156 0.661552 TTTCGCCTCCGATACTCTCG 59.338 55.000 0.00 0.00 43.97 4.04
1232 2192 2.913054 ATCGCTGATCACGCCACCAG 62.913 60.000 11.34 0.00 0.00 4.00
1299 2259 2.924290 GTTCTGGATGTAACTCGCTGTC 59.076 50.000 0.00 0.00 0.00 3.51
1328 2288 4.991687 GCTTGGTAGGAGTATGTCATAAGC 59.008 45.833 0.00 0.00 0.00 3.09
1332 2292 7.849322 TGGTAGGAGTATGTCATAAGCATAA 57.151 36.000 0.00 0.00 31.54 1.90
1457 2423 7.736447 AAGAGTTCAGACATTTACCTGAAAG 57.264 36.000 6.41 0.00 46.89 2.62
1467 2433 4.706842 TTTACCTGAAAGAGCTCCAGTT 57.293 40.909 10.93 1.95 34.07 3.16
1478 2444 5.753721 AGAGCTCCAGTTCCATAATATCC 57.246 43.478 10.93 0.00 0.00 2.59
1482 2448 6.856757 AGCTCCAGTTCCATAATATCCAAAT 58.143 36.000 0.00 0.00 0.00 2.32
1500 2466 6.698359 CCAAATAATGGTTTGTGTAAACGG 57.302 37.500 0.00 0.00 45.60 4.44
1564 2536 4.083565 GGTAACCTTATTTGCCTGTGGAA 58.916 43.478 0.00 0.00 0.00 3.53
1565 2537 4.525100 GGTAACCTTATTTGCCTGTGGAAA 59.475 41.667 0.00 0.00 0.00 3.13
1632 2604 0.472471 TCGAGGCAAAAGGAGTGGTT 59.528 50.000 0.00 0.00 0.00 3.67
1634 2606 1.266989 CGAGGCAAAAGGAGTGGTTTC 59.733 52.381 0.00 0.00 0.00 2.78
1635 2607 2.587522 GAGGCAAAAGGAGTGGTTTCT 58.412 47.619 0.00 0.00 0.00 2.52
1636 2608 2.294512 GAGGCAAAAGGAGTGGTTTCTG 59.705 50.000 0.00 0.00 0.00 3.02
1637 2609 2.031870 GGCAAAAGGAGTGGTTTCTGT 58.968 47.619 0.00 0.00 0.00 3.41
1638 2610 3.117663 AGGCAAAAGGAGTGGTTTCTGTA 60.118 43.478 0.00 0.00 0.00 2.74
1653 2628 3.627395 TCTGTATTACCCTGGCAACTG 57.373 47.619 0.00 0.00 37.61 3.16
1655 2630 3.055385 TCTGTATTACCCTGGCAACTGAC 60.055 47.826 0.00 0.00 37.83 3.51
1662 2637 1.174712 CCTGGCAACTGACCAAGTGG 61.175 60.000 0.00 0.00 39.81 4.00
1696 2671 3.250762 GGGCCAAAGAAAAAGATTGTTGC 59.749 43.478 4.39 0.00 0.00 4.17
1697 2672 3.876320 GGCCAAAGAAAAAGATTGTTGCA 59.124 39.130 0.00 0.00 0.00 4.08
1744 2723 1.091771 ATTTGCCAGCATCGACGGAG 61.092 55.000 0.00 0.00 0.00 4.63
1774 2753 4.820894 ACTATTAGTGTGGACCAGGAAC 57.179 45.455 0.00 0.00 0.00 3.62
1799 2778 6.399743 TGTTGCGGATACATTGTCTAGTTAA 58.600 36.000 0.00 0.00 0.00 2.01
1804 2783 6.509677 GCGGATACATTGTCTAGTTAAACAGC 60.510 42.308 0.00 0.00 0.00 4.40
1843 2822 3.241553 CACTGCGATTCATAGACAACTCG 59.758 47.826 0.00 0.00 0.00 4.18
1858 2837 6.715344 GACAACTCGTCAATTTATACCACA 57.285 37.500 0.00 0.00 44.69 4.17
1859 2838 6.721571 ACAACTCGTCAATTTATACCACAG 57.278 37.500 0.00 0.00 0.00 3.66
1865 2844 4.563580 CGTCAATTTATACCACAGTGCGTA 59.436 41.667 0.00 0.00 0.00 4.42
1866 2845 5.062433 CGTCAATTTATACCACAGTGCGTAA 59.938 40.000 0.00 0.00 0.00 3.18
1868 2847 5.932883 TCAATTTATACCACAGTGCGTAACA 59.067 36.000 0.00 0.00 0.00 2.41
1906 2885 4.803329 ACCAGATATGAAATGCTCCCTT 57.197 40.909 0.00 0.00 0.00 3.95
1908 2887 4.166725 ACCAGATATGAAATGCTCCCTTCA 59.833 41.667 0.00 0.00 36.08 3.02
1968 2947 5.163540 GGACTACATACGGACTGAAATGAGT 60.164 44.000 7.93 7.04 0.00 3.41
1976 2955 4.821805 ACGGACTGAAATGAGTGAACAAAT 59.178 37.500 0.00 0.00 0.00 2.32
1980 2959 7.361201 CGGACTGAAATGAGTGAACAAATACAT 60.361 37.037 0.00 0.00 0.00 2.29
2053 3032 3.159213 TGTGAACGGAGGGAGTAGTTA 57.841 47.619 0.00 0.00 0.00 2.24
2149 3128 4.664150 AACTGATAGCTACTGAGGAAGC 57.336 45.455 0.00 1.30 39.08 3.86
2165 3144 5.483937 TGAGGAAGCTGTCTGGAGTAAATAA 59.516 40.000 0.00 0.00 0.00 1.40
2258 3237 9.905713 AAAGTCTAAATGATAAAGCACATAGGA 57.094 29.630 0.00 0.00 0.00 2.94
2260 3239 9.499479 AGTCTAAATGATAAAGCACATAGGATG 57.501 33.333 0.00 0.00 0.00 3.51
2261 3240 9.277783 GTCTAAATGATAAAGCACATAGGATGT 57.722 33.333 0.00 0.00 46.22 3.06
2262 3241 9.494271 TCTAAATGATAAAGCACATAGGATGTC 57.506 33.333 0.00 0.00 42.70 3.06
2263 3242 6.791887 AATGATAAAGCACATAGGATGTCG 57.208 37.500 0.00 0.00 42.70 4.35
2264 3243 5.529581 TGATAAAGCACATAGGATGTCGA 57.470 39.130 0.00 0.00 42.70 4.20
2265 3244 6.101650 TGATAAAGCACATAGGATGTCGAT 57.898 37.500 0.00 0.00 42.70 3.59
2266 3245 6.524734 TGATAAAGCACATAGGATGTCGATT 58.475 36.000 0.00 0.00 42.70 3.34
2267 3246 6.992123 TGATAAAGCACATAGGATGTCGATTT 59.008 34.615 0.00 8.91 42.70 2.17
2268 3247 7.498900 TGATAAAGCACATAGGATGTCGATTTT 59.501 33.333 0.00 3.38 42.70 1.82
2269 3248 8.902540 ATAAAGCACATAGGATGTCGATTTTA 57.097 30.769 0.00 4.82 42.70 1.52
2270 3249 6.851222 AAGCACATAGGATGTCGATTTTAG 57.149 37.500 0.00 0.00 42.70 1.85
2271 3250 5.300752 AGCACATAGGATGTCGATTTTAGG 58.699 41.667 0.00 0.00 42.70 2.69
2272 3251 5.070446 AGCACATAGGATGTCGATTTTAGGA 59.930 40.000 0.00 0.00 42.70 2.94
2273 3252 5.934625 GCACATAGGATGTCGATTTTAGGAT 59.065 40.000 0.00 0.00 42.70 3.24
2274 3253 6.128445 GCACATAGGATGTCGATTTTAGGATG 60.128 42.308 0.00 0.00 42.70 3.51
2275 3254 6.931281 CACATAGGATGTCGATTTTAGGATGT 59.069 38.462 0.00 0.00 42.70 3.06
2276 3255 6.931281 ACATAGGATGTCGATTTTAGGATGTG 59.069 38.462 0.00 0.00 39.92 3.21
2277 3256 4.130118 AGGATGTCGATTTTAGGATGTGC 58.870 43.478 0.00 0.00 0.00 4.57
2278 3257 3.876914 GGATGTCGATTTTAGGATGTGCA 59.123 43.478 0.00 0.00 0.00 4.57
2279 3258 4.335315 GGATGTCGATTTTAGGATGTGCAA 59.665 41.667 0.00 0.00 0.00 4.08
2280 3259 5.163663 GGATGTCGATTTTAGGATGTGCAAA 60.164 40.000 0.00 0.00 0.00 3.68
2281 3260 5.295431 TGTCGATTTTAGGATGTGCAAAG 57.705 39.130 0.00 0.00 0.00 2.77
2282 3261 4.098416 GTCGATTTTAGGATGTGCAAAGC 58.902 43.478 0.00 0.00 0.00 3.51
2283 3262 3.755905 TCGATTTTAGGATGTGCAAAGCA 59.244 39.130 0.00 0.00 35.60 3.91
2284 3263 4.217334 TCGATTTTAGGATGTGCAAAGCAA 59.783 37.500 0.00 0.00 41.47 3.91
2285 3264 4.324402 CGATTTTAGGATGTGCAAAGCAAC 59.676 41.667 0.00 0.00 41.47 4.17
2286 3265 4.662468 TTTTAGGATGTGCAAAGCAACA 57.338 36.364 0.00 0.00 41.47 3.33
2287 3266 4.870123 TTTAGGATGTGCAAAGCAACAT 57.130 36.364 0.00 0.32 41.47 2.71
2288 3267 4.870123 TTAGGATGTGCAAAGCAACATT 57.130 36.364 0.00 0.00 41.47 2.71
2289 3268 3.756933 AGGATGTGCAAAGCAACATTT 57.243 38.095 0.00 0.00 41.47 2.32
2290 3269 4.075963 AGGATGTGCAAAGCAACATTTT 57.924 36.364 0.00 0.00 41.47 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.437239 ACCGACTCAATCTTGATTGCTAG 58.563 43.478 16.09 12.36 36.46 3.42
3 4 3.265791 AGACCGACTCAATCTTGATTGC 58.734 45.455 16.09 4.53 36.46 3.56
5 6 5.152623 TGAAGACCGACTCAATCTTGATT 57.847 39.130 0.00 0.00 36.46 2.57
6 7 4.808414 TGAAGACCGACTCAATCTTGAT 57.192 40.909 0.00 0.00 36.46 2.57
7 8 4.600692 TTGAAGACCGACTCAATCTTGA 57.399 40.909 0.00 0.00 32.83 3.02
8 9 5.673337 TTTTGAAGACCGACTCAATCTTG 57.327 39.130 0.00 0.00 32.83 3.02
49 50 6.320171 CAATCGACTCAATCTTGATTGCTTT 58.680 36.000 16.09 5.12 39.37 3.51
51 52 5.481200 CAATCGACTCAATCTTGATTGCT 57.519 39.130 16.09 5.95 39.37 3.91
53 54 5.225899 TGCAATCGACTCAATCTTGATTG 57.774 39.130 15.07 15.07 45.35 2.67
54 55 5.885230 TTGCAATCGACTCAATCTTGATT 57.115 34.783 0.00 0.00 36.46 2.57
55 56 5.392380 GGTTTGCAATCGACTCAATCTTGAT 60.392 40.000 0.00 0.00 36.46 2.57
56 57 4.083324 GGTTTGCAATCGACTCAATCTTGA 60.083 41.667 0.00 0.00 35.57 3.02
58 59 3.820467 TGGTTTGCAATCGACTCAATCTT 59.180 39.130 0.00 0.00 0.00 2.40
60 61 3.829886 TGGTTTGCAATCGACTCAATC 57.170 42.857 0.00 0.00 0.00 2.67
61 62 3.612479 GCTTGGTTTGCAATCGACTCAAT 60.612 43.478 0.00 0.00 0.00 2.57
62 63 2.287547 GCTTGGTTTGCAATCGACTCAA 60.288 45.455 0.00 2.26 0.00 3.02
63 64 1.266718 GCTTGGTTTGCAATCGACTCA 59.733 47.619 0.00 0.00 0.00 3.41
93 94 5.980698 TGCGATGAGAGAGATTTGAAATC 57.019 39.130 9.82 9.82 0.00 2.17
103 104 1.598132 CTGCCAAATGCGATGAGAGAG 59.402 52.381 0.00 0.00 45.60 3.20
137 138 4.215399 TGTGTGAAGATCCGATTTTTGGTC 59.785 41.667 0.00 0.00 0.00 4.02
156 159 3.245797 CTGATTCGTCATCGAGTTGTGT 58.754 45.455 0.00 0.00 46.81 3.72
161 164 2.644676 TCTCCTGATTCGTCATCGAGT 58.355 47.619 0.00 0.00 46.81 4.18
170 173 4.033358 CGGAGTTGATTTTCTCCTGATTCG 59.967 45.833 9.11 0.00 45.57 3.34
176 179 4.020218 TGATGTCGGAGTTGATTTTCTCCT 60.020 41.667 9.11 0.00 45.57 3.69
196 199 1.152567 CTCCTCCTCGGCCTCTGAT 60.153 63.158 0.00 0.00 0.00 2.90
239 242 1.841663 CGTTGTCGTGCCCCTGAAAG 61.842 60.000 0.00 0.00 0.00 2.62
243 246 2.738521 CTCGTTGTCGTGCCCCTG 60.739 66.667 0.00 0.00 38.33 4.45
244 247 4.681978 GCTCGTTGTCGTGCCCCT 62.682 66.667 3.82 0.00 46.37 4.79
252 255 2.253758 TGCTTGGCTGCTCGTTGTC 61.254 57.895 0.00 0.00 0.00 3.18
363 366 4.131088 GGGCTCGTCGGTGAGGAC 62.131 72.222 6.90 0.00 36.47 3.85
595 1448 4.929819 TGAAGTAGTAGGCGAATGCATA 57.070 40.909 0.00 0.00 45.35 3.14
596 1449 3.819564 TGAAGTAGTAGGCGAATGCAT 57.180 42.857 0.00 0.00 45.35 3.96
597 1450 3.457234 CATGAAGTAGTAGGCGAATGCA 58.543 45.455 0.00 0.00 45.35 3.96
640 1493 0.250684 TTGGCGATGAAGGACAGCAA 60.251 50.000 0.00 0.00 34.21 3.91
781 1649 3.717294 GGTGGTGAGGGCCGACAT 61.717 66.667 10.42 0.00 0.00 3.06
972 1856 0.904865 CACTGGCAGGAGTAGGGTCA 60.905 60.000 20.34 0.00 0.00 4.02
1010 1903 2.558554 CTTGGCGATCTTCCGGTCGT 62.559 60.000 13.01 0.00 39.87 4.34
1015 1908 0.391130 TTGTCCTTGGCGATCTTCCG 60.391 55.000 0.00 0.00 0.00 4.30
1110 2012 1.733041 CTGGCGTACCACACAGTCG 60.733 63.158 0.00 0.00 42.67 4.18
1196 2156 3.397613 ATCCGCAGCTCTCCCTTGC 62.398 63.158 0.00 0.00 34.58 4.01
1218 2178 2.662596 GACCTGGTGGCGTGATCA 59.337 61.111 2.82 0.00 36.63 2.92
1223 2183 3.626924 GACAGGACCTGGTGGCGT 61.627 66.667 25.34 2.86 35.51 5.68
1299 2259 3.452627 ACATACTCCTACCAAGCAGGAAG 59.547 47.826 1.83 0.00 41.66 3.46
1457 2423 5.489792 TGGATATTATGGAACTGGAGCTC 57.510 43.478 4.71 4.71 0.00 4.09
1478 2444 6.346199 GCACCGTTTACACAAACCATTATTTG 60.346 38.462 0.00 0.00 43.81 2.32
1482 2448 3.630769 TGCACCGTTTACACAAACCATTA 59.369 39.130 0.00 0.00 40.87 1.90
1575 2547 3.553508 GCAAGTGGTACGAAGAGTAACCA 60.554 47.826 0.00 0.00 42.29 3.67
1632 2604 3.585289 TCAGTTGCCAGGGTAATACAGAA 59.415 43.478 0.00 0.00 0.00 3.02
1634 2606 3.270877 GTCAGTTGCCAGGGTAATACAG 58.729 50.000 0.00 0.00 0.00 2.74
1635 2607 2.026636 GGTCAGTTGCCAGGGTAATACA 60.027 50.000 0.00 0.00 0.00 2.29
1636 2608 2.026636 TGGTCAGTTGCCAGGGTAATAC 60.027 50.000 0.00 0.00 0.00 1.89
1637 2609 2.270858 TGGTCAGTTGCCAGGGTAATA 58.729 47.619 0.00 0.00 0.00 0.98
1638 2610 1.072266 TGGTCAGTTGCCAGGGTAAT 58.928 50.000 0.00 0.00 0.00 1.89
1653 2628 1.700186 AGTCTTCCTTCCCACTTGGTC 59.300 52.381 0.00 0.00 34.77 4.02
1655 2630 1.271597 CCAGTCTTCCTTCCCACTTGG 60.272 57.143 0.00 0.00 0.00 3.61
1662 2637 0.112412 TTTGGCCCAGTCTTCCTTCC 59.888 55.000 0.00 0.00 0.00 3.46
1696 2671 3.607422 TGTCTGCATTCTGTTTCGTTG 57.393 42.857 0.00 0.00 0.00 4.10
1697 2672 4.836125 ATTGTCTGCATTCTGTTTCGTT 57.164 36.364 0.00 0.00 0.00 3.85
1744 2723 3.132289 TCCACACTAATAGTAGCAGTGCC 59.868 47.826 12.58 0.00 42.76 5.01
1774 2753 4.433615 ACTAGACAATGTATCCGCAACAG 58.566 43.478 0.00 0.00 0.00 3.16
1799 2778 3.763897 GGATTGTGTTAATCCTGGCTGTT 59.236 43.478 10.61 0.00 42.23 3.16
1804 2783 3.129287 GCAGTGGATTGTGTTAATCCTGG 59.871 47.826 16.93 9.21 45.01 4.45
1843 2822 4.939509 ACGCACTGTGGTATAAATTGAC 57.060 40.909 10.21 0.00 0.00 3.18
1879 2858 2.223548 GCATTTCATATCTGGTTGCGCA 60.224 45.455 5.66 5.66 0.00 6.09
1884 2863 4.803329 AGGGAGCATTTCATATCTGGTT 57.197 40.909 0.00 0.00 0.00 3.67
1906 2885 9.904198 TCCAAGACATCTTATATTTGTGAATGA 57.096 29.630 0.00 0.00 34.28 2.57
1937 2916 5.831525 TCAGTCCGTATGTAGTCCATATTGT 59.168 40.000 0.00 0.00 38.29 2.71
1954 2933 4.811555 TTTGTTCACTCATTTCAGTCCG 57.188 40.909 0.00 0.00 0.00 4.79
2019 2998 7.254795 CCCTCCGTTCACAAATATAAGATGTTC 60.255 40.741 0.00 0.00 0.00 3.18
2039 3018 6.403878 TCTTTCAAAATAACTACTCCCTCCG 58.596 40.000 0.00 0.00 0.00 4.63
2040 3019 8.047310 TCATCTTTCAAAATAACTACTCCCTCC 58.953 37.037 0.00 0.00 0.00 4.30
2093 3072 4.380843 ACTCCATGTGTACCAAAATGGA 57.619 40.909 2.85 12.61 44.90 3.41
2129 3108 3.636300 CAGCTTCCTCAGTAGCTATCAGT 59.364 47.826 0.00 0.00 44.13 3.41
2247 3226 5.760253 CCTAAAATCGACATCCTATGTGCTT 59.240 40.000 0.00 0.00 45.03 3.91
2248 3227 5.070446 TCCTAAAATCGACATCCTATGTGCT 59.930 40.000 0.00 0.00 45.03 4.40
2249 3228 5.297547 TCCTAAAATCGACATCCTATGTGC 58.702 41.667 0.00 0.00 45.03 4.57
2250 3229 6.931281 ACATCCTAAAATCGACATCCTATGTG 59.069 38.462 0.00 0.00 45.03 3.21
2252 3231 6.128445 GCACATCCTAAAATCGACATCCTATG 60.128 42.308 0.00 0.00 0.00 2.23
2253 3232 5.934625 GCACATCCTAAAATCGACATCCTAT 59.065 40.000 0.00 0.00 0.00 2.57
2254 3233 5.163353 TGCACATCCTAAAATCGACATCCTA 60.163 40.000 0.00 0.00 0.00 2.94
2255 3234 4.130118 GCACATCCTAAAATCGACATCCT 58.870 43.478 0.00 0.00 0.00 3.24
2256 3235 3.876914 TGCACATCCTAAAATCGACATCC 59.123 43.478 0.00 0.00 0.00 3.51
2257 3236 5.484173 TTGCACATCCTAAAATCGACATC 57.516 39.130 0.00 0.00 0.00 3.06
2258 3237 5.677091 GCTTTGCACATCCTAAAATCGACAT 60.677 40.000 0.00 0.00 0.00 3.06
2259 3238 4.379394 GCTTTGCACATCCTAAAATCGACA 60.379 41.667 0.00 0.00 0.00 4.35
2260 3239 4.098416 GCTTTGCACATCCTAAAATCGAC 58.902 43.478 0.00 0.00 0.00 4.20
2261 3240 3.755905 TGCTTTGCACATCCTAAAATCGA 59.244 39.130 0.00 0.00 31.71 3.59
2262 3241 4.095410 TGCTTTGCACATCCTAAAATCG 57.905 40.909 0.00 0.00 31.71 3.34
2263 3242 5.229423 TGTTGCTTTGCACATCCTAAAATC 58.771 37.500 0.00 0.00 38.71 2.17
2264 3243 5.212532 TGTTGCTTTGCACATCCTAAAAT 57.787 34.783 0.00 0.00 38.71 1.82
2265 3244 4.662468 TGTTGCTTTGCACATCCTAAAA 57.338 36.364 0.00 0.00 38.71 1.52
2266 3245 4.870123 ATGTTGCTTTGCACATCCTAAA 57.130 36.364 0.00 0.00 38.71 1.85
2267 3246 4.870123 AATGTTGCTTTGCACATCCTAA 57.130 36.364 0.00 0.00 38.71 2.69
2268 3247 4.870123 AAATGTTGCTTTGCACATCCTA 57.130 36.364 0.00 0.00 38.71 2.94
2269 3248 3.756933 AAATGTTGCTTTGCACATCCT 57.243 38.095 0.00 0.00 38.71 3.24


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

AutoCloner maintained by Alex Coulton.