Multiple sequence alignment - TraesCS5B01G319400

Loading Multiple Alignment...

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 TraesCS5B01G319400 chr5B 100.000 2561 0 0 1 2561 503328772 503326212 0 4730
1 TraesCS5B01G319400 chr5D 91.651 2132 124 27 460 2561 416601337 416599230 0 2902
2 TraesCS5B01G319400 chr5A 95.531 1723 64 10 847 2561 529369304 529367587 0 2743
3 TraesCS5B01G319400 chr5A 84.700 817 93 22 1 806 529370249 529369454 0 787


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 TraesCS5B01G319400 chr5B 503326212 503328772 2560 True 4730 4730 100.0000 1 2561 1 chr5B.!!$R1 2560
1 TraesCS5B01G319400 chr5D 416599230 416601337 2107 True 2902 2902 91.6510 460 2561 1 chr5D.!!$R1 2101
2 TraesCS5B01G319400 chr5A 529367587 529370249 2662 True 1765 2743 90.1155 1 2561 2 chr5A.!!$R1 2560

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
54 55 0.036306 ACAACTACCTTTGGCCTCCG 59.964 55.0 3.32 0.0 0.0 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1894 2041 0.547075 TTCCTTTGGTGGTTCGGACA 59.453 50.0 0.0 0.0 0.0 4.02 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
22 23 3.569277 TGTAAGGGCGAAGTTTAAAACCC 59.431 43.478 0.00 0.00 37.63 4.11
24 25 3.793819 AGGGCGAAGTTTAAAACCCTA 57.206 42.857 10.64 0.00 45.93 3.53
43 44 7.063934 ACCCTATTATTCTGCTACAACTACC 57.936 40.000 0.00 0.00 0.00 3.18
51 52 1.702957 TGCTACAACTACCTTTGGCCT 59.297 47.619 3.32 0.00 0.00 5.19
52 53 2.290071 TGCTACAACTACCTTTGGCCTC 60.290 50.000 3.32 0.00 0.00 4.70
54 55 0.036306 ACAACTACCTTTGGCCTCCG 59.964 55.000 3.32 0.00 0.00 4.63
72 73 3.506096 CCGAGTCCGAGCGCTGTA 61.506 66.667 18.48 0.00 38.22 2.74
73 74 2.483745 CGAGTCCGAGCGCTGTAA 59.516 61.111 18.48 0.00 38.22 2.41
74 75 1.154093 CGAGTCCGAGCGCTGTAAA 60.154 57.895 18.48 0.00 38.22 2.01
75 76 0.731514 CGAGTCCGAGCGCTGTAAAA 60.732 55.000 18.48 0.00 38.22 1.52
76 77 1.425412 GAGTCCGAGCGCTGTAAAAA 58.575 50.000 18.48 0.00 0.00 1.94
77 78 1.126296 GAGTCCGAGCGCTGTAAAAAC 59.874 52.381 18.48 4.11 0.00 2.43
78 79 0.863144 GTCCGAGCGCTGTAAAAACA 59.137 50.000 18.48 0.00 0.00 2.83
82 83 2.474526 CCGAGCGCTGTAAAAACATCTG 60.475 50.000 18.48 0.00 0.00 2.90
88 89 5.817296 AGCGCTGTAAAAACATCTGATGATA 59.183 36.000 23.59 8.45 0.00 2.15
93 94 9.846248 GCTGTAAAAACATCTGATGATAGTTTT 57.154 29.630 23.59 20.84 40.79 2.43
102 103 5.324409 TCTGATGATAGTTTTTGCCTTGGT 58.676 37.500 0.00 0.00 0.00 3.67
104 105 5.782047 TGATGATAGTTTTTGCCTTGGTTG 58.218 37.500 0.00 0.00 0.00 3.77
105 106 5.304101 TGATGATAGTTTTTGCCTTGGTTGT 59.696 36.000 0.00 0.00 0.00 3.32
106 107 5.606348 TGATAGTTTTTGCCTTGGTTGTT 57.394 34.783 0.00 0.00 0.00 2.83
107 108 5.596845 TGATAGTTTTTGCCTTGGTTGTTC 58.403 37.500 0.00 0.00 0.00 3.18
108 109 2.887337 AGTTTTTGCCTTGGTTGTTCG 58.113 42.857 0.00 0.00 0.00 3.95
109 110 1.930503 GTTTTTGCCTTGGTTGTTCGG 59.069 47.619 0.00 0.00 0.00 4.30
110 111 0.179097 TTTTGCCTTGGTTGTTCGGC 60.179 50.000 0.00 0.00 42.78 5.54
111 112 2.022240 TTTGCCTTGGTTGTTCGGCC 62.022 55.000 0.00 0.00 41.80 6.13
113 114 3.361977 CCTTGGTTGTTCGGCCGG 61.362 66.667 27.83 6.80 0.00 6.13
114 115 4.038080 CTTGGTTGTTCGGCCGGC 62.038 66.667 27.83 21.18 0.00 6.13
134 142 3.399234 GGGGGAAGGGCTTTCATTT 57.601 52.632 11.69 0.00 37.54 2.32
164 172 4.760530 TCATCAAGTTGATCGGAGGATT 57.239 40.909 15.60 0.00 34.28 3.01
173 181 2.571653 TGATCGGAGGATTTGGTGTCTT 59.428 45.455 0.00 0.00 31.51 3.01
174 182 2.762535 TCGGAGGATTTGGTGTCTTC 57.237 50.000 0.00 0.00 0.00 2.87
180 188 4.332819 GGAGGATTTGGTGTCTTCGTAATG 59.667 45.833 0.00 0.00 0.00 1.90
184 192 7.335627 AGGATTTGGTGTCTTCGTAATGATAA 58.664 34.615 0.00 0.00 0.00 1.75
193 201 6.535150 TGTCTTCGTAATGATAAGCTTCTTGG 59.465 38.462 0.00 0.00 0.00 3.61
198 206 5.753438 CGTAATGATAAGCTTCTTGGCACTA 59.247 40.000 0.00 0.00 34.17 2.74
200 208 7.201609 CGTAATGATAAGCTTCTTGGCACTAAA 60.202 37.037 0.00 0.00 34.17 1.85
218 226 7.588143 CACTAAAGTGTCAAGAGATTACCTG 57.412 40.000 1.81 0.00 40.96 4.00
236 244 1.728971 CTGTGCAGCTACTTTTCCTCG 59.271 52.381 0.00 0.00 0.00 4.63
245 253 2.708386 ACTTTTCCTCGTCGACTCAG 57.292 50.000 14.70 9.09 0.00 3.35
246 254 1.269998 ACTTTTCCTCGTCGACTCAGG 59.730 52.381 19.68 19.68 0.00 3.86
247 255 1.269998 CTTTTCCTCGTCGACTCAGGT 59.730 52.381 22.98 0.00 0.00 4.00
264 272 5.843673 TCAGGTAGAGAAGCAGTCTATTG 57.156 43.478 0.00 0.00 36.41 1.90
289 297 9.303116 TGAAAGTACAATAAAAGGAAAGGCATA 57.697 29.630 0.00 0.00 0.00 3.14
305 313 8.515414 GGAAAGGCATATATCAAAGTATTCACC 58.485 37.037 0.00 0.00 0.00 4.02
390 398 4.796231 CGCTCTCGGTTGACGGGG 62.796 72.222 0.00 0.00 45.25 5.73
410 418 3.463944 GGTCGTTCCTGAAAGAAACTGA 58.536 45.455 0.00 0.00 34.07 3.41
412 420 4.083802 GGTCGTTCCTGAAAGAAACTGATG 60.084 45.833 0.00 0.00 34.07 3.07
415 423 5.236478 TCGTTCCTGAAAGAAACTGATGAAC 59.764 40.000 0.00 0.00 34.07 3.18
417 425 5.047566 TCCTGAAAGAAACTGATGAACCA 57.952 39.130 0.00 0.00 34.07 3.67
424 432 6.681729 AAGAAACTGATGAACCAGGTACTA 57.318 37.500 0.00 0.00 36.02 1.82
435 443 3.182152 ACCAGGTACTAGAATGGTGCTT 58.818 45.455 0.00 0.00 44.28 3.91
436 444 3.197983 ACCAGGTACTAGAATGGTGCTTC 59.802 47.826 0.00 0.00 44.28 3.86
452 460 2.697751 TGCTTCTAGAGATTCAGAGGGC 59.302 50.000 0.00 0.00 0.00 5.19
454 462 3.005791 GCTTCTAGAGATTCAGAGGGCTC 59.994 52.174 0.00 0.00 0.00 4.70
462 470 1.601419 TTCAGAGGGCTCGTAACCGG 61.601 60.000 0.00 0.00 33.95 5.28
466 474 0.532115 GAGGGCTCGTAACCGGTTTA 59.468 55.000 27.64 10.76 33.95 2.01
477 485 5.120519 TCGTAACCGGTTTAGCTTACAAATG 59.879 40.000 27.64 8.70 33.95 2.32
479 487 5.366829 AACCGGTTTAGCTTACAAATGTC 57.633 39.130 15.86 0.00 0.00 3.06
522 530 3.071479 TCGGAGCCAAAATTAGTGTGAC 58.929 45.455 0.00 0.00 0.00 3.67
534 543 7.396540 AAATTAGTGTGACATGGAAAGGATC 57.603 36.000 0.00 0.00 0.00 3.36
544 553 1.626321 TGGAAAGGATCGCACTAACCA 59.374 47.619 0.00 0.00 0.00 3.67
556 565 4.998033 TCGCACTAACCATACAACAATCAA 59.002 37.500 0.00 0.00 0.00 2.57
563 572 5.391312 ACCATACAACAATCAAAGCTTCC 57.609 39.130 0.00 0.00 0.00 3.46
565 574 5.183904 ACCATACAACAATCAAAGCTTCCTC 59.816 40.000 0.00 0.00 0.00 3.71
610 624 0.179043 TCGCTGCACTAACCAACCAA 60.179 50.000 0.00 0.00 0.00 3.67
615 629 2.884012 CTGCACTAACCAACCAATCACA 59.116 45.455 0.00 0.00 0.00 3.58
625 639 0.687354 ACCAATCACAGGAGCGTTCT 59.313 50.000 0.00 0.00 0.00 3.01
701 715 1.116436 TTCGTTGAAAATTGCACGCG 58.884 45.000 3.53 3.53 0.00 6.01
738 752 5.620738 TCTCATTGCCTTGCTAATCTACT 57.379 39.130 0.00 0.00 0.00 2.57
743 757 1.594862 GCCTTGCTAATCTACTGCGTG 59.405 52.381 0.00 0.00 0.00 5.34
787 801 2.800736 GCCATGTGCCGGACAATC 59.199 61.111 5.05 0.00 38.36 2.67
796 810 2.552315 GTGCCGGACAATCTTTCTTTGA 59.448 45.455 5.05 0.00 0.00 2.69
840 967 7.233757 AGGATTAATACTCACTATTCCTTCGCT 59.766 37.037 0.00 0.00 28.06 4.93
841 968 7.873505 GGATTAATACTCACTATTCCTTCGCTT 59.126 37.037 0.00 0.00 0.00 4.68
842 969 9.262358 GATTAATACTCACTATTCCTTCGCTTT 57.738 33.333 0.00 0.00 0.00 3.51
843 970 9.614792 ATTAATACTCACTATTCCTTCGCTTTT 57.385 29.630 0.00 0.00 0.00 2.27
844 971 7.541122 AATACTCACTATTCCTTCGCTTTTC 57.459 36.000 0.00 0.00 0.00 2.29
845 972 5.153950 ACTCACTATTCCTTCGCTTTTCT 57.846 39.130 0.00 0.00 0.00 2.52
849 976 6.899114 TCACTATTCCTTCGCTTTTCTTTTC 58.101 36.000 0.00 0.00 0.00 2.29
857 984 5.291858 CCTTCGCTTTTCTTTTCTTTTTGCT 59.708 36.000 0.00 0.00 0.00 3.91
963 1090 2.168496 CTCGTCCTCCCTACAAACTCA 58.832 52.381 0.00 0.00 0.00 3.41
1263 1390 1.025113 CGACGAGCTCCAGGACTACA 61.025 60.000 8.47 0.00 0.00 2.74
1271 1398 1.902508 CTCCAGGACTACAAGAAGGCA 59.097 52.381 0.00 0.00 0.00 4.75
1427 1566 5.696724 GGATTCTTGGTCGTGTAAGATATGG 59.303 44.000 0.00 0.00 33.34 2.74
1428 1567 5.670792 TTCTTGGTCGTGTAAGATATGGT 57.329 39.130 0.00 0.00 33.34 3.55
1429 1568 5.006153 TCTTGGTCGTGTAAGATATGGTG 57.994 43.478 0.00 0.00 0.00 4.17
1440 1579 6.936900 GTGTAAGATATGGTGGCATTACTCAT 59.063 38.462 0.00 0.00 0.00 2.90
1556 1698 7.178451 CCCTGGTTATGAATACAAGTTCCTTTT 59.822 37.037 0.00 0.00 0.00 2.27
1557 1699 8.585018 CCTGGTTATGAATACAAGTTCCTTTTT 58.415 33.333 0.00 0.00 0.00 1.94
1604 1746 5.163513 GCACATACTTGCTGCTAAAATTGT 58.836 37.500 0.00 0.00 39.59 2.71
1655 1798 8.390921 TCCTGGTTATCAATAGAAGTTCCTTTT 58.609 33.333 0.00 0.00 0.00 2.27
1656 1799 9.025041 CCTGGTTATCAATAGAAGTTCCTTTTT 57.975 33.333 0.00 0.00 0.00 1.94
1813 1956 6.631016 AGAGATTAGCGAGTTTGTTACATCA 58.369 36.000 0.00 0.00 0.00 3.07
1831 1974 5.003160 ACATCATTTGTTCTCATGACCGAA 58.997 37.500 0.00 0.00 33.74 4.30
1832 1975 5.473162 ACATCATTTGTTCTCATGACCGAAA 59.527 36.000 0.00 0.00 33.74 3.46
1833 1976 5.611796 TCATTTGTTCTCATGACCGAAAG 57.388 39.130 0.00 0.00 0.00 2.62
1851 1997 3.687572 AAGCGACGGTACATACTACAG 57.312 47.619 0.00 0.00 0.00 2.74
1852 1998 1.332997 AGCGACGGTACATACTACAGC 59.667 52.381 0.00 0.00 0.00 4.40
1873 2020 5.453266 CAGCGTGTTACTTATTCATGCATTG 59.547 40.000 0.00 0.00 43.74 2.82
1894 2041 8.790718 GCATTGACATAGAACCTATTGATCATT 58.209 33.333 0.00 0.00 0.00 2.57
1912 2059 0.547075 TTGTCCGAACCACCAAAGGA 59.453 50.000 0.00 0.00 0.00 3.36
1921 2068 1.780309 ACCACCAAAGGAATCCTCACA 59.220 47.619 0.56 0.00 30.89 3.58
1995 2142 2.242043 CTTCAGTTTGGCCTGGAATGT 58.758 47.619 3.32 0.00 33.14 2.71
2038 2185 2.293677 GACTGTCGAGTTGAAGGTCAGA 59.706 50.000 3.37 0.00 33.33 3.27
2084 2231 1.687612 CCTGGAGGTGCTTCCACAT 59.312 57.895 0.00 0.00 42.24 3.21
2103 2250 1.448013 GGGCTCTGTACTTGGACGC 60.448 63.158 0.00 0.00 0.00 5.19
2143 2290 2.081212 CGTTCTCGACACCGACAGC 61.081 63.158 0.00 0.00 40.30 4.40
2308 2455 5.798125 AATCAGATGGTCTCATGTCGTAT 57.202 39.130 0.00 0.00 32.98 3.06
2411 2558 5.282055 TGCTTCAGATACCATCTCGAATT 57.718 39.130 0.00 0.00 37.58 2.17
2423 2570 5.010112 ACCATCTCGAATTCATACTCGTCAT 59.990 40.000 6.22 0.00 36.46 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 9.046296 CCAAAGGTAGTTGTAGCAGAATAATAG 57.954 37.037 0.00 0.00 0.00 1.73
24 25 6.318900 GCCAAAGGTAGTTGTAGCAGAATAAT 59.681 38.462 0.00 0.00 0.00 1.28
35 36 0.036306 CGGAGGCCAAAGGTAGTTGT 59.964 55.000 5.01 0.00 0.00 3.32
38 39 2.669240 GCGGAGGCCAAAGGTAGT 59.331 61.111 5.01 0.00 0.00 2.73
56 57 0.731514 TTTTACAGCGCTCGGACTCG 60.732 55.000 7.13 0.00 37.82 4.18
60 61 1.730064 GATGTTTTTACAGCGCTCGGA 59.270 47.619 7.13 0.00 0.00 4.55
61 62 1.732259 AGATGTTTTTACAGCGCTCGG 59.268 47.619 7.13 0.00 0.00 4.63
62 63 2.411748 TCAGATGTTTTTACAGCGCTCG 59.588 45.455 7.13 6.07 0.00 5.03
63 64 4.093408 TCATCAGATGTTTTTACAGCGCTC 59.907 41.667 7.13 0.00 0.00 5.03
67 68 9.846248 AAAACTATCATCAGATGTTTTTACAGC 57.154 29.630 10.34 0.00 39.55 4.40
71 72 9.638239 GGCAAAAACTATCATCAGATGTTTTTA 57.362 29.630 16.23 0.00 43.56 1.52
72 73 8.370182 AGGCAAAAACTATCATCAGATGTTTTT 58.630 29.630 10.34 11.93 44.59 1.94
73 74 7.899973 AGGCAAAAACTATCATCAGATGTTTT 58.100 30.769 10.34 6.91 41.59 2.43
74 75 7.472334 AGGCAAAAACTATCATCAGATGTTT 57.528 32.000 10.34 0.99 37.22 2.83
75 76 7.318141 CAAGGCAAAAACTATCATCAGATGTT 58.682 34.615 10.34 4.80 35.67 2.71
76 77 6.127535 CCAAGGCAAAAACTATCATCAGATGT 60.128 38.462 10.34 1.04 35.67 3.06
77 78 6.127535 ACCAAGGCAAAAACTATCATCAGATG 60.128 38.462 3.71 3.71 35.67 2.90
78 79 5.954150 ACCAAGGCAAAAACTATCATCAGAT 59.046 36.000 0.00 0.00 38.29 2.90
82 83 5.783111 ACAACCAAGGCAAAAACTATCATC 58.217 37.500 0.00 0.00 0.00 2.92
88 89 2.418060 CCGAACAACCAAGGCAAAAACT 60.418 45.455 0.00 0.00 0.00 2.66
116 117 1.195115 GAAATGAAAGCCCTTCCCCC 58.805 55.000 0.00 0.00 32.53 5.40
156 164 1.337823 ACGAAGACACCAAATCCTCCG 60.338 52.381 0.00 0.00 0.00 4.63
164 172 5.730550 AGCTTATCATTACGAAGACACCAA 58.269 37.500 0.00 0.00 0.00 3.67
173 181 4.570772 GTGCCAAGAAGCTTATCATTACGA 59.429 41.667 0.00 0.00 0.00 3.43
174 182 4.572389 AGTGCCAAGAAGCTTATCATTACG 59.428 41.667 0.00 0.00 0.00 3.18
180 188 5.873732 CACTTTAGTGCCAAGAAGCTTATC 58.126 41.667 0.00 0.00 39.39 1.75
198 206 4.757149 GCACAGGTAATCTCTTGACACTTT 59.243 41.667 0.00 0.00 0.00 2.66
200 208 3.324846 TGCACAGGTAATCTCTTGACACT 59.675 43.478 0.00 0.00 0.00 3.55
203 211 2.675348 GCTGCACAGGTAATCTCTTGAC 59.325 50.000 0.00 0.00 0.00 3.18
204 212 2.568956 AGCTGCACAGGTAATCTCTTGA 59.431 45.455 1.02 0.00 37.39 3.02
205 213 2.983229 AGCTGCACAGGTAATCTCTTG 58.017 47.619 1.02 0.00 37.39 3.02
206 214 3.772025 AGTAGCTGCACAGGTAATCTCTT 59.228 43.478 10.90 0.00 42.27 2.85
207 215 3.370104 AGTAGCTGCACAGGTAATCTCT 58.630 45.455 10.90 2.17 42.27 3.10
218 226 1.727335 GACGAGGAAAAGTAGCTGCAC 59.273 52.381 4.12 0.00 0.00 4.57
236 244 2.085320 TGCTTCTCTACCTGAGTCGAC 58.915 52.381 7.70 7.70 43.13 4.20
245 253 6.635755 ACTTTCAATAGACTGCTTCTCTACC 58.364 40.000 0.00 0.00 35.55 3.18
246 254 8.244802 TGTACTTTCAATAGACTGCTTCTCTAC 58.755 37.037 0.00 0.00 35.55 2.59
247 255 8.349568 TGTACTTTCAATAGACTGCTTCTCTA 57.650 34.615 0.00 0.00 35.55 2.43
305 313 0.179089 CCTTCGGAGGATCACTGCAG 60.179 60.000 13.48 13.48 46.74 4.41
318 326 1.611519 CTCTACCTAGGCTCCTTCGG 58.388 60.000 9.30 0.00 0.00 4.30
324 332 1.116536 GTGGGGCTCTACCTAGGCTC 61.117 65.000 9.30 0.00 42.75 4.70
327 335 1.051812 CATGTGGGGCTCTACCTAGG 58.948 60.000 7.41 7.41 39.10 3.02
390 398 4.750098 TCATCAGTTTCTTTCAGGAACGAC 59.250 41.667 0.00 0.00 0.00 4.34
397 405 4.823989 ACCTGGTTCATCAGTTTCTTTCAG 59.176 41.667 0.00 0.00 33.14 3.02
410 418 4.384208 GCACCATTCTAGTACCTGGTTCAT 60.384 45.833 3.84 0.00 39.96 2.57
412 420 3.197983 AGCACCATTCTAGTACCTGGTTC 59.802 47.826 3.84 0.00 39.96 3.62
415 423 3.452627 AGAAGCACCATTCTAGTACCTGG 59.547 47.826 0.00 0.00 37.76 4.45
424 432 5.660417 TCTGAATCTCTAGAAGCACCATTCT 59.340 40.000 0.00 0.00 42.20 2.40
435 443 2.173782 ACGAGCCCTCTGAATCTCTAGA 59.826 50.000 0.00 0.00 0.00 2.43
436 444 2.582052 ACGAGCCCTCTGAATCTCTAG 58.418 52.381 0.00 0.00 0.00 2.43
452 460 3.836949 TGTAAGCTAAACCGGTTACGAG 58.163 45.455 22.60 18.50 45.80 4.18
454 462 4.988708 TTTGTAAGCTAAACCGGTTACG 57.011 40.909 22.60 15.49 45.80 3.18
462 470 9.463443 AATGAAACTGACATTTGTAAGCTAAAC 57.537 29.630 0.00 0.00 34.86 2.01
466 474 5.922544 GCAATGAAACTGACATTTGTAAGCT 59.077 36.000 0.00 0.00 36.07 3.74
504 512 4.458989 TCCATGTCACACTAATTTTGGCTC 59.541 41.667 0.00 0.00 0.00 4.70
522 530 2.614057 GGTTAGTGCGATCCTTTCCATG 59.386 50.000 0.00 0.00 0.00 3.66
534 543 4.937696 TGATTGTTGTATGGTTAGTGCG 57.062 40.909 0.00 0.00 0.00 5.34
544 553 6.888632 AGATGAGGAAGCTTTGATTGTTGTAT 59.111 34.615 0.00 0.00 0.00 2.29
556 565 5.344743 TGTTCGATTAGATGAGGAAGCTT 57.655 39.130 0.00 0.00 0.00 3.74
563 572 9.400638 GGTAGTAGAATTGTTCGATTAGATGAG 57.599 37.037 0.00 0.00 34.02 2.90
565 574 7.861372 ACGGTAGTAGAATTGTTCGATTAGATG 59.139 37.037 0.00 0.00 34.02 2.90
610 624 4.437239 CATAAGAAGAACGCTCCTGTGAT 58.563 43.478 0.00 0.00 0.00 3.06
615 629 2.832129 TGTCCATAAGAAGAACGCTCCT 59.168 45.455 0.00 0.00 0.00 3.69
625 639 4.141287 CCAACACCAAGTGTCCATAAGAA 58.859 43.478 0.06 0.00 46.79 2.52
678 692 4.030083 CGCGTGCAATTTTCAACGAAATAT 59.970 37.500 0.00 0.00 31.34 1.28
701 715 7.994194 AGGCAATGAGAAACTCTATTTTGATC 58.006 34.615 0.00 0.00 0.00 2.92
738 752 2.257371 GTGCTACCTCGTCACGCA 59.743 61.111 0.00 0.00 0.00 5.24
743 757 1.805945 CAAGCGGTGCTACCTCGTC 60.806 63.158 0.00 0.00 38.25 4.20
780 794 6.496338 AATACGGTCAAAGAAAGATTGTCC 57.504 37.500 0.00 0.00 34.12 4.02
787 801 7.752695 AGAATGCTAAATACGGTCAAAGAAAG 58.247 34.615 0.00 0.00 0.00 2.62
963 1090 0.966179 GTTTCCCGATTGGTTGGCTT 59.034 50.000 0.00 0.00 34.77 4.35
1427 1566 5.334414 GCTGTAATGCTATGAGTAATGCCAC 60.334 44.000 0.00 0.00 0.00 5.01
1428 1567 4.756642 GCTGTAATGCTATGAGTAATGCCA 59.243 41.667 0.00 0.00 0.00 4.92
1429 1568 4.999950 AGCTGTAATGCTATGAGTAATGCC 59.000 41.667 0.00 0.00 42.10 4.40
1440 1579 6.828273 ACAATGGATGTTTAGCTGTAATGCTA 59.172 34.615 0.00 0.00 40.06 3.49
1556 1698 3.068448 ACATGAATTGAACTGCTGCACAA 59.932 39.130 0.00 2.02 0.00 3.33
1557 1699 2.624364 ACATGAATTGAACTGCTGCACA 59.376 40.909 0.00 0.00 0.00 4.57
1604 1746 4.377839 TCTTTGGCGACACAAATTTGAA 57.622 36.364 24.64 3.75 42.67 2.69
1655 1798 5.873712 ACATGAATTGAAGTGTTGCACAAAA 59.126 32.000 0.00 0.00 36.74 2.44
1656 1799 5.417811 ACATGAATTGAAGTGTTGCACAAA 58.582 33.333 0.00 0.00 36.74 2.83
1813 1956 3.120199 CGCTTTCGGTCATGAGAACAAAT 60.120 43.478 0.00 0.00 0.00 2.32
1831 1974 2.223433 GCTGTAGTATGTACCGTCGCTT 60.223 50.000 0.00 0.00 0.00 4.68
1832 1975 1.332997 GCTGTAGTATGTACCGTCGCT 59.667 52.381 0.00 0.00 0.00 4.93
1833 1976 1.751552 GCTGTAGTATGTACCGTCGC 58.248 55.000 0.00 0.00 0.00 5.19
1851 1997 5.452302 GTCAATGCATGAATAAGTAACACGC 59.548 40.000 0.00 0.00 40.50 5.34
1852 1998 6.541969 TGTCAATGCATGAATAAGTAACACG 58.458 36.000 0.00 0.00 40.50 4.49
1873 2020 7.116948 CGGACAATGATCAATAGGTTCTATGTC 59.883 40.741 0.00 2.50 34.43 3.06
1894 2041 0.547075 TTCCTTTGGTGGTTCGGACA 59.453 50.000 0.00 0.00 0.00 4.02
1921 2068 2.421739 GAGGACGGCACACACACT 59.578 61.111 0.00 0.00 0.00 3.55
1995 2142 5.298276 GTCAACAGGTTAACATTCAAGGTGA 59.702 40.000 8.10 0.00 0.00 4.02
2038 2185 3.239253 ACCGTGAACCCCTCGCTT 61.239 61.111 0.00 0.00 31.92 4.68
2084 2231 1.972198 CGTCCAAGTACAGAGCCCA 59.028 57.895 0.00 0.00 0.00 5.36
2103 2250 3.439540 CCAATGTTGGCCCGGTCG 61.440 66.667 0.00 0.00 42.21 4.79
2113 2260 1.069513 TCGAGAACGGTCACCAATGTT 59.930 47.619 1.87 0.00 40.21 2.71
2143 2290 0.401738 TTCCTGAACTGAGGGGCAAG 59.598 55.000 0.00 0.00 33.41 4.01
2308 2455 1.532078 TGCACACCCTGGTCTCGTA 60.532 57.895 0.00 0.00 0.00 3.43
2411 2558 3.741075 GCCAATGTCCATGACGAGTATGA 60.741 47.826 0.00 0.00 34.95 2.15
2423 2570 2.158534 ACACCTTTGTAGCCAATGTCCA 60.159 45.455 0.00 0.00 32.60 4.02
2447 2594 1.763545 CTCTCCCCCTAACTAACAGGC 59.236 57.143 0.00 0.00 0.00 4.85


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

AutoCloner maintained by Alex Coulton.