Multiple sequence alignment - TraesCS1B01G271400

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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 TraesCS1B01G271400 chr1B 100.000 2623 0 0 1 2623 476925258 476927880 0.000000e+00 4844
1 TraesCS1B01G271400 chr1D 88.902 2622 192 34 1 2572 355092027 355094599 0.000000e+00 3138
2 TraesCS1B01G271400 chr1A 92.862 1345 45 10 513 1831 454535886 454537205 0.000000e+00 1905
3 TraesCS1B01G271400 chr1A 87.064 487 46 11 1 480 454535412 454535888 3.840000e-148 534
4 TraesCS1B01G271400 chr1A 87.558 434 43 5 2199 2623 454537783 454538214 2.350000e-135 492
5 TraesCS1B01G271400 chr1A 88.172 279 31 2 1851 2127 454537269 454537547 5.410000e-87 331
6 TraesCS1B01G271400 chr3D 74.843 318 64 10 2317 2623 3200177 3200489 2.120000e-26 130
7 TraesCS1B01G271400 chr7A 75.887 282 48 13 2360 2623 470881130 470881409 2.740000e-25 126


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 TraesCS1B01G271400 chr1B 476925258 476927880 2622 False 4844.0 4844 100.000 1 2623 1 chr1B.!!$F1 2622
1 TraesCS1B01G271400 chr1D 355092027 355094599 2572 False 3138.0 3138 88.902 1 2572 1 chr1D.!!$F1 2571
2 TraesCS1B01G271400 chr1A 454535412 454538214 2802 False 815.5 1905 88.914 1 2623 4 chr1A.!!$F1 2622

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
233 234 0.106918 ATGGGTTGTGTTGTGGTCGT 60.107 50.0 0.0 0.0 0.0 4.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2126 2390 0.179086 TCGACTTGTGTCAAGCAGCA 60.179 50.0 9.06 0.0 43.06 4.41 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
80 81 2.252072 GAGCTGTAACCGGCATGGGA 62.252 60.000 0.00 0.00 45.95 4.37
161 162 3.254166 CCAGCAGCGGCAAAATCTATAAT 59.746 43.478 12.44 0.00 44.61 1.28
166 167 4.023792 CAGCGGCAAAATCTATAATCAGCA 60.024 41.667 1.45 0.00 0.00 4.41
167 168 4.214971 AGCGGCAAAATCTATAATCAGCAG 59.785 41.667 1.45 0.00 0.00 4.24
186 187 1.830477 AGCACAAAAAGCTGGAACCAA 59.170 42.857 0.00 0.00 41.61 3.67
228 229 2.305928 TGGAGAATGGGTTGTGTTGTG 58.694 47.619 0.00 0.00 0.00 3.33
230 231 2.306847 GAGAATGGGTTGTGTTGTGGT 58.693 47.619 0.00 0.00 0.00 4.16
233 234 0.106918 ATGGGTTGTGTTGTGGTCGT 60.107 50.000 0.00 0.00 0.00 4.34
249 250 2.351726 GGTCGTGATTTTCCTGGAATCG 59.648 50.000 10.45 10.21 36.52 3.34
252 253 3.000041 CGTGATTTTCCTGGAATCGACA 59.000 45.455 10.45 6.07 36.52 4.35
272 274 4.838665 CAACACAAAAAGTTGCGATTGT 57.161 36.364 0.00 0.00 39.76 2.71
292 294 5.435686 TGTGTGGATAGGAAGCTGTAATT 57.564 39.130 0.00 0.00 0.00 1.40
348 350 2.674380 CTGCAACCTGGAGGCACC 60.674 66.667 11.81 0.00 39.32 5.01
392 394 2.107041 TAGGTTGCACTGTGACCCGG 62.107 60.000 12.86 0.00 33.89 5.73
395 397 3.705934 TTGCACTGTGACCCGGCAA 62.706 57.895 12.86 4.38 41.67 4.52
396 398 2.672996 GCACTGTGACCCGGCAAT 60.673 61.111 12.86 0.00 0.00 3.56
397 399 2.981560 GCACTGTGACCCGGCAATG 61.982 63.158 12.86 0.00 0.00 2.82
398 400 2.034066 ACTGTGACCCGGCAATGG 59.966 61.111 0.00 0.00 0.00 3.16
399 401 2.034066 CTGTGACCCGGCAATGGT 59.966 61.111 0.00 0.00 39.32 3.55
400 402 1.603455 CTGTGACCCGGCAATGGTT 60.603 57.895 0.00 0.00 35.85 3.67
401 403 1.152652 TGTGACCCGGCAATGGTTT 60.153 52.632 0.00 0.00 35.85 3.27
402 404 1.288752 GTGACCCGGCAATGGTTTG 59.711 57.895 0.00 0.00 35.85 2.93
413 415 2.950433 CAATGGTTTGCACTGTGATCC 58.050 47.619 12.86 7.84 0.00 3.36
414 416 1.167851 ATGGTTTGCACTGTGATCCG 58.832 50.000 12.86 0.00 0.00 4.18
415 417 0.888736 TGGTTTGCACTGTGATCCGG 60.889 55.000 12.86 0.00 0.00 5.14
416 418 1.210155 GTTTGCACTGTGATCCGGC 59.790 57.895 12.86 0.00 0.00 6.13
461 465 4.436998 GTGCGAGCTGCTACCGGT 62.437 66.667 13.98 13.98 46.63 5.28
497 501 1.339610 CTAGCATGAGGAAGGAGACGG 59.660 57.143 0.00 0.00 0.00 4.79
535 539 1.895131 ACAATGTGGGGCACTTGAATC 59.105 47.619 0.00 0.00 35.11 2.52
655 660 5.833406 TGCGTGATCCAATGATAACAATT 57.167 34.783 0.00 0.00 32.48 2.32
824 829 7.668492 TCGAGCTGTAACTGTCTCTATATAGA 58.332 38.462 11.94 11.94 0.00 1.98
868 873 3.923017 AGGTTTGCAACTGAATGCTAC 57.077 42.857 0.00 0.00 46.54 3.58
879 884 4.428209 ACTGAATGCTACGAGACAATCTG 58.572 43.478 0.00 0.00 0.00 2.90
915 920 1.003223 GGCACGTAAAGCGAAAAGTGT 60.003 47.619 0.00 0.00 44.77 3.55
1012 1017 5.126779 CCCTATGTCTCCTTTTAAAGCCTC 58.873 45.833 0.00 0.00 0.00 4.70
1037 1042 1.668751 GAAAGACACCTCAACGCACAA 59.331 47.619 0.00 0.00 0.00 3.33
1060 1065 8.200792 ACAAAAAGTCACCAAATATAGCACAAA 58.799 29.630 0.00 0.00 0.00 2.83
1104 1109 3.018149 AGGAGTAGAAACTAGTGAGCGG 58.982 50.000 0.00 0.00 35.56 5.52
1122 1127 2.542824 GCGGCTAGAGATGTCACTCTTC 60.543 54.545 0.00 0.00 43.62 2.87
1124 1129 3.003275 CGGCTAGAGATGTCACTCTTCTC 59.997 52.174 0.00 2.52 43.62 2.87
1125 1130 3.951037 GGCTAGAGATGTCACTCTTCTCA 59.049 47.826 0.00 0.00 43.62 3.27
1126 1131 4.202010 GGCTAGAGATGTCACTCTTCTCAC 60.202 50.000 0.00 0.00 43.62 3.51
1183 1188 1.770658 CATATGGGTCAAGAGGAGGCA 59.229 52.381 0.00 0.00 0.00 4.75
1319 1324 5.450965 GGGCATTCTTCAACAGTTCATATGG 60.451 44.000 2.13 0.00 0.00 2.74
1415 1420 3.891049 AGAAGGGTAATGTGGAGAATGC 58.109 45.455 0.00 0.00 0.00 3.56
1416 1421 3.266772 AGAAGGGTAATGTGGAGAATGCA 59.733 43.478 0.00 0.00 0.00 3.96
1417 1422 3.737559 AGGGTAATGTGGAGAATGCAA 57.262 42.857 0.00 0.00 39.09 4.08
1421 1426 4.220602 GGGTAATGTGGAGAATGCAACTTT 59.779 41.667 0.00 0.00 39.09 2.66
1594 1599 7.345422 TCAAAGAGATTTGGATGTGTTTTGA 57.655 32.000 1.24 0.00 32.99 2.69
1771 1802 4.695217 TGAGACTTGAACAACCAAACAC 57.305 40.909 0.00 0.00 0.00 3.32
1816 1847 2.930950 TCATGCACATAAGCCTTACCC 58.069 47.619 0.00 0.00 0.00 3.69
1831 1862 5.483583 AGCCTTACCCAAAAATTATTGCTCA 59.516 36.000 0.00 0.00 0.00 4.26
1832 1863 5.580691 GCCTTACCCAAAAATTATTGCTCAC 59.419 40.000 0.00 0.00 0.00 3.51
1834 1865 4.864704 ACCCAAAAATTATTGCTCACGT 57.135 36.364 0.00 0.00 0.00 4.49
1855 1930 5.577164 ACGTCGTCCTTCAAAATTAGAGATG 59.423 40.000 0.00 0.00 0.00 2.90
1897 1972 7.661968 TGTAAGCAACATATTTTGGCACTTTA 58.338 30.769 3.87 0.00 31.43 1.85
1901 1976 5.120053 GCAACATATTTTGGCACTTTACACC 59.880 40.000 3.87 0.00 0.00 4.16
1914 1989 6.319399 GCACTTTACACCCATTTGTATGTAC 58.681 40.000 0.00 0.00 31.98 2.90
1958 2034 3.141398 CAAGTCTTAGCTTGCTTCCACA 58.859 45.455 0.00 0.00 39.26 4.17
1959 2035 3.492102 AGTCTTAGCTTGCTTCCACAA 57.508 42.857 0.00 0.00 0.00 3.33
1968 2044 3.676646 GCTTGCTTCCACAATGCTAAAAG 59.323 43.478 0.00 0.00 0.00 2.27
1969 2045 4.797275 GCTTGCTTCCACAATGCTAAAAGT 60.797 41.667 0.00 0.00 0.00 2.66
2055 2131 4.100707 ACTGTATTGTTCATGCATGTGC 57.899 40.909 25.43 18.69 42.50 4.57
2112 2189 2.594303 TTCAGCAAGTGCCGGTGG 60.594 61.111 1.90 0.00 43.38 4.61
2126 2390 2.521126 CCGGTGGGTGAACCTTTATTT 58.479 47.619 0.00 0.00 41.11 1.40
2129 2393 2.897326 GGTGGGTGAACCTTTATTTGCT 59.103 45.455 0.00 0.00 41.11 3.91
2142 2406 4.916983 TTATTTGCTGCTTGACACAAGT 57.083 36.364 12.07 0.00 0.00 3.16
2185 2449 4.145365 AGCACGCAAAGTATATAACCCA 57.855 40.909 0.00 0.00 0.00 4.51
2194 2458 7.602644 CGCAAAGTATATAACCCACATACTCAT 59.397 37.037 0.00 0.00 35.05 2.90
2195 2459 9.938280 GCAAAGTATATAACCCACATACTCATA 57.062 33.333 0.00 0.00 35.05 2.15
2209 2473 9.856488 CCACATACTCATATATATATAACCCGC 57.144 37.037 6.54 0.00 0.00 6.13
2315 2579 5.992217 CCATCACTATTACCTCTTGTAAGGC 59.008 44.000 0.00 0.00 42.50 4.35
2345 2609 2.683211 ACAACCAGCCTCCTCAAATT 57.317 45.000 0.00 0.00 0.00 1.82
2382 2646 1.924320 GACGCGCCTAGTCAGTGACT 61.924 60.000 27.98 27.98 45.54 3.41
2400 2664 5.885912 AGTGACTGGATAGAAGAGAGAAGAC 59.114 44.000 0.00 0.00 0.00 3.01
2406 2670 8.093927 ACTGGATAGAAGAGAGAAGACAAAAAG 58.906 37.037 0.00 0.00 0.00 2.27
2415 2680 5.261216 AGAGAAGACAAAAAGTGACCCAAA 58.739 37.500 0.00 0.00 0.00 3.28
2422 2687 0.256464 AAAGTGACCCAAACGGACCA 59.744 50.000 0.00 0.00 34.64 4.02
2426 2691 0.464735 TGACCCAAACGGACCACTTG 60.465 55.000 0.00 0.00 34.64 3.16
2440 2705 6.497259 ACGGACCACTTGTATCATTCCTATAT 59.503 38.462 0.00 0.00 0.00 0.86
2441 2706 7.036220 CGGACCACTTGTATCATTCCTATATC 58.964 42.308 0.00 0.00 0.00 1.63
2453 2718 6.385443 TCATTCCTATATCTCTGGGTTGTCT 58.615 40.000 0.00 0.00 0.00 3.41
2474 2739 5.006165 GTCTGCGAACCTTCATATTGAGAAG 59.994 44.000 0.00 0.00 41.61 2.85
2478 2743 6.258727 TGCGAACCTTCATATTGAGAAGATTC 59.741 38.462 4.61 2.67 44.00 2.52
2486 2751 9.087871 CTTCATATTGAGAAGATTCTAGGGAGA 57.912 37.037 0.00 0.00 44.00 3.71
2488 2753 9.439461 TCATATTGAGAAGATTCTAGGGAGAAA 57.561 33.333 0.00 0.00 44.85 2.52
2519 2784 2.659610 GAAGCGCCTGGTCAGTCT 59.340 61.111 2.29 0.00 0.00 3.24
2533 2798 0.807667 CAGTCTGCCATGTAGGACGC 60.808 60.000 0.00 0.00 41.22 5.19
2618 2890 1.667830 CACGTGCAAGTGACCGGAT 60.668 57.895 26.06 0.00 44.43 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
35 36 4.388499 CCGGTTGTAGCACGGCCT 62.388 66.667 0.00 0.00 41.23 5.19
144 145 4.136796 TGCTGATTATAGATTTTGCCGCT 58.863 39.130 0.00 0.00 0.00 5.52
147 148 5.218139 GTGCTGCTGATTATAGATTTTGCC 58.782 41.667 0.00 0.00 0.00 4.52
166 167 1.484038 TGGTTCCAGCTTTTTGTGCT 58.516 45.000 0.00 0.00 42.06 4.40
167 168 1.933181 GTTGGTTCCAGCTTTTTGTGC 59.067 47.619 0.00 0.00 0.00 4.57
206 207 3.057315 CACAACACAACCCATTCTCCATC 60.057 47.826 0.00 0.00 0.00 3.51
207 208 2.892852 CACAACACAACCCATTCTCCAT 59.107 45.455 0.00 0.00 0.00 3.41
228 229 2.351726 CGATTCCAGGAAAATCACGACC 59.648 50.000 5.81 0.00 33.60 4.79
230 231 3.259064 GTCGATTCCAGGAAAATCACGA 58.741 45.455 5.81 9.77 33.60 4.35
233 234 4.215399 GTGTTGTCGATTCCAGGAAAATCA 59.785 41.667 5.81 1.07 33.60 2.57
249 250 4.326009 ACAATCGCAACTTTTTGTGTTGTC 59.674 37.500 8.15 1.35 44.54 3.18
252 253 4.838665 CACAATCGCAACTTTTTGTGTT 57.161 36.364 6.50 0.00 42.37 3.32
270 272 5.045942 TCAATTACAGCTTCCTATCCACACA 60.046 40.000 0.00 0.00 0.00 3.72
272 274 5.428253 GTCAATTACAGCTTCCTATCCACA 58.572 41.667 0.00 0.00 0.00 4.17
292 294 2.104530 TGTCGCCGTTGTTCGTCA 59.895 55.556 0.00 0.00 37.94 4.35
374 376 2.111043 CGGGTCACAGTGCAACCT 59.889 61.111 10.50 0.00 37.80 3.50
395 397 1.167851 CGGATCACAGTGCAAACCAT 58.832 50.000 0.00 0.00 0.00 3.55
396 398 0.888736 CCGGATCACAGTGCAAACCA 60.889 55.000 0.00 0.00 0.00 3.67
397 399 1.875963 CCGGATCACAGTGCAAACC 59.124 57.895 0.00 0.00 0.00 3.27
398 400 1.210155 GCCGGATCACAGTGCAAAC 59.790 57.895 5.05 0.00 0.00 2.93
399 401 0.821301 TTGCCGGATCACAGTGCAAA 60.821 50.000 5.05 0.00 38.83 3.68
400 402 1.228094 TTGCCGGATCACAGTGCAA 60.228 52.632 5.05 0.00 39.42 4.08
401 403 1.965930 GTTGCCGGATCACAGTGCA 60.966 57.895 5.05 0.00 0.00 4.57
402 404 2.870372 GTTGCCGGATCACAGTGC 59.130 61.111 5.05 0.00 0.00 4.40
403 405 1.354337 CTCGTTGCCGGATCACAGTG 61.354 60.000 5.05 0.00 33.95 3.66
404 406 1.079819 CTCGTTGCCGGATCACAGT 60.080 57.895 5.05 0.00 33.95 3.55
407 409 2.511600 CCCTCGTTGCCGGATCAC 60.512 66.667 5.05 0.00 33.95 3.06
408 410 4.467084 GCCCTCGTTGCCGGATCA 62.467 66.667 5.05 0.00 33.95 2.92
440 442 3.775654 GTAGCAGCTCGCACCCCT 61.776 66.667 0.00 0.00 46.13 4.79
497 501 5.888161 ACATTGTTAGATCTCCCCACAAATC 59.112 40.000 0.00 0.00 31.39 2.17
550 555 3.613030 ACTGTATAATTTTCGGCCGGTT 58.387 40.909 27.83 17.05 0.00 4.44
655 660 7.119846 GCTCTGCTTTAGATTGGTAGAAAGAAA 59.880 37.037 0.00 0.00 34.21 2.52
824 829 9.121658 CCTTTTAAAAGAGGACACTAAGAGTTT 57.878 33.333 26.11 0.00 38.28 2.66
868 873 3.519579 AGAAGTGATGCAGATTGTCTCG 58.480 45.455 0.00 0.00 0.00 4.04
879 884 0.874390 TGCCGTTTGAGAAGTGATGC 59.126 50.000 0.00 0.00 0.00 3.91
915 920 0.950116 TGCATGCATTTCACGTCACA 59.050 45.000 18.46 0.00 0.00 3.58
939 944 5.890424 TGTTAGAAAATTTTCCTAGGCCG 57.110 39.130 24.01 0.00 37.92 6.13
1012 1017 2.408050 CGTTGAGGTGTCTTTCTCCAG 58.592 52.381 0.00 0.00 32.63 3.86
1037 1042 9.777297 AAATTTGTGCTATATTTGGTGACTTTT 57.223 25.926 0.00 0.00 0.00 2.27
1060 1065 8.836735 TCCTAGATAAGAACCTCCAAGAAAAAT 58.163 33.333 0.00 0.00 0.00 1.82
1104 1109 4.202010 GGTGAGAAGAGTGACATCTCTAGC 60.202 50.000 12.18 6.72 43.03 3.42
1122 1127 2.113139 GGTGGTGGTGGTGGTGAG 59.887 66.667 0.00 0.00 0.00 3.51
1124 1129 2.518349 GTGGTGGTGGTGGTGGTG 60.518 66.667 0.00 0.00 0.00 4.17
1125 1130 3.816090 GGTGGTGGTGGTGGTGGT 61.816 66.667 0.00 0.00 0.00 4.16
1126 1131 3.814906 TGGTGGTGGTGGTGGTGG 61.815 66.667 0.00 0.00 0.00 4.61
1175 1180 0.179097 GGACGAATCACTGCCTCCTC 60.179 60.000 0.00 0.00 0.00 3.71
1183 1188 2.666508 CGATTGAAACGGACGAATCACT 59.333 45.455 0.00 0.00 0.00 3.41
1268 1273 7.563270 ACGCTTAACACATAAATTTGCAAAAG 58.437 30.769 17.19 5.39 0.00 2.27
1319 1324 3.057019 TGCTTCACGAATGACTGTGTAC 58.943 45.455 0.00 0.00 37.38 2.90
1416 1421 3.974642 ACTCCACCAACTCCTCTAAAGTT 59.025 43.478 0.00 0.00 37.44 2.66
1417 1422 3.579151 GACTCCACCAACTCCTCTAAAGT 59.421 47.826 0.00 0.00 0.00 2.66
1421 1426 2.378886 TCTGACTCCACCAACTCCTCTA 59.621 50.000 0.00 0.00 0.00 2.43
1594 1599 2.912956 TGGACCACTAGGATCAAGCTTT 59.087 45.455 0.00 0.00 38.69 3.51
1687 1718 2.997303 TGAACCGACCAATACATGAACG 59.003 45.455 0.00 0.00 0.00 3.95
1749 1780 4.520874 TGTGTTTGGTTGTTCAAGTCTCAA 59.479 37.500 0.00 0.00 0.00 3.02
1771 1802 5.212194 CGGTTCAAACTTATTTCTGGTGTG 58.788 41.667 0.00 0.00 0.00 3.82
1816 1847 4.553429 GGACGACGTGAGCAATAATTTTTG 59.447 41.667 4.58 4.44 0.00 2.44
1831 1862 5.130292 TCTCTAATTTTGAAGGACGACGT 57.870 39.130 0.00 0.00 0.00 4.34
1832 1863 5.577164 ACATCTCTAATTTTGAAGGACGACG 59.423 40.000 0.00 0.00 0.00 5.12
1834 1865 7.979444 AAACATCTCTAATTTTGAAGGACGA 57.021 32.000 0.00 0.00 0.00 4.20
1855 1930 7.979115 TGCTTACATAATGCCGATTAAAAAC 57.021 32.000 0.00 0.00 0.00 2.43
1883 1958 6.183361 ACAAATGGGTGTAAAGTGCCAAAATA 60.183 34.615 0.00 0.00 0.00 1.40
1897 1972 7.775053 AATTTCAGTACATACAAATGGGTGT 57.225 32.000 0.00 0.00 37.43 4.16
1901 1976 7.601886 TGCCAAAATTTCAGTACATACAAATGG 59.398 33.333 0.00 0.00 37.43 3.16
1914 1989 4.392754 GCTAAATGGGTGCCAAAATTTCAG 59.607 41.667 0.00 0.00 36.95 3.02
1968 2044 7.857885 GTGGCATAAATTAGTGAAATGCTAGAC 59.142 37.037 0.00 0.00 42.01 2.59
1969 2045 7.775093 AGTGGCATAAATTAGTGAAATGCTAGA 59.225 33.333 0.00 0.00 42.01 2.43
2112 2189 3.942130 AGCAGCAAATAAAGGTTCACC 57.058 42.857 0.00 0.00 0.00 4.02
2126 2390 0.179086 TCGACTTGTGTCAAGCAGCA 60.179 50.000 9.06 0.00 43.06 4.41
2129 2393 2.017138 TGTTCGACTTGTGTCAAGCA 57.983 45.000 9.06 0.00 43.06 3.91
2168 2432 6.926826 TGAGTATGTGGGTTATATACTTTGCG 59.073 38.462 0.00 0.00 41.90 4.85
2194 2458 9.074576 CACAGGAGTATGCGGGTTATATATATA 57.925 37.037 0.00 0.00 0.00 0.86
2195 2459 7.783119 TCACAGGAGTATGCGGGTTATATATAT 59.217 37.037 0.00 0.00 0.00 0.86
2196 2460 7.120716 TCACAGGAGTATGCGGGTTATATATA 58.879 38.462 0.00 0.00 0.00 0.86
2197 2461 5.955959 TCACAGGAGTATGCGGGTTATATAT 59.044 40.000 0.00 0.00 0.00 0.86
2198 2462 5.326900 TCACAGGAGTATGCGGGTTATATA 58.673 41.667 0.00 0.00 0.00 0.86
2199 2463 4.157246 TCACAGGAGTATGCGGGTTATAT 58.843 43.478 0.00 0.00 0.00 0.86
2200 2464 3.568443 TCACAGGAGTATGCGGGTTATA 58.432 45.455 0.00 0.00 0.00 0.98
2201 2465 2.365617 CTCACAGGAGTATGCGGGTTAT 59.634 50.000 0.00 0.00 36.36 1.89
2202 2466 1.754803 CTCACAGGAGTATGCGGGTTA 59.245 52.381 0.00 0.00 36.36 2.85
2203 2467 0.537188 CTCACAGGAGTATGCGGGTT 59.463 55.000 0.00 0.00 36.36 4.11
2204 2468 2.202866 CTCACAGGAGTATGCGGGT 58.797 57.895 0.00 0.00 36.36 5.28
2213 2477 5.354513 TCGTCTGTATCTTAACTCACAGGAG 59.645 44.000 0.00 0.00 46.96 3.69
2214 2478 5.123502 GTCGTCTGTATCTTAACTCACAGGA 59.876 44.000 0.00 0.00 39.09 3.86
2215 2479 5.106277 TGTCGTCTGTATCTTAACTCACAGG 60.106 44.000 0.00 0.00 39.09 4.00
2216 2480 5.939457 TGTCGTCTGTATCTTAACTCACAG 58.061 41.667 0.00 0.00 39.79 3.66
2258 2522 9.620660 TCCTAAAATTTTCTCGTTTCTTTATGC 57.379 29.630 6.72 0.00 0.00 3.14
2290 2554 6.525629 CCTTACAAGAGGTAATAGTGATGGG 58.474 44.000 0.00 0.00 41.00 4.00
2315 2579 2.012673 GGCTGGTTGTAGATGCTCTTG 58.987 52.381 0.00 0.00 0.00 3.02
2332 2596 5.257262 GTTTAAGGAGAATTTGAGGAGGCT 58.743 41.667 0.00 0.00 0.00 4.58
2345 2609 0.597568 TCCGCGAACGTTTAAGGAGA 59.402 50.000 8.23 0.00 37.70 3.71
2382 2646 7.875041 CACTTTTTGTCTTCTCTCTTCTATCCA 59.125 37.037 0.00 0.00 0.00 3.41
2400 2664 2.480587 GGTCCGTTTGGGTCACTTTTTG 60.481 50.000 0.00 0.00 37.00 2.44
2406 2670 0.464916 AAGTGGTCCGTTTGGGTCAC 60.465 55.000 0.00 0.00 39.53 3.67
2415 2680 2.838202 AGGAATGATACAAGTGGTCCGT 59.162 45.455 0.00 0.00 0.00 4.69
2422 2687 7.958583 ACCCAGAGATATAGGAATGATACAAGT 59.041 37.037 0.00 0.00 0.00 3.16
2426 2691 8.140112 ACAACCCAGAGATATAGGAATGATAC 57.860 38.462 0.00 0.00 0.00 2.24
2440 2705 0.033504 GTTCGCAGACAACCCAGAGA 59.966 55.000 0.00 0.00 34.32 3.10
2441 2706 0.951040 GGTTCGCAGACAACCCAGAG 60.951 60.000 0.00 0.00 37.88 3.35
2453 2718 5.084818 TCTTCTCAATATGAAGGTTCGCA 57.915 39.130 0.00 0.00 40.73 5.10
2474 2739 5.896073 TCCCTCATTTTCTCCCTAGAATC 57.104 43.478 0.00 0.00 41.36 2.52
2478 2743 3.556004 GCGATCCCTCATTTTCTCCCTAG 60.556 52.174 0.00 0.00 0.00 3.02
2486 2751 1.668419 CTTCCGCGATCCCTCATTTT 58.332 50.000 8.23 0.00 0.00 1.82
2488 2753 1.227674 GCTTCCGCGATCCCTCATT 60.228 57.895 8.23 0.00 0.00 2.57
2519 2784 3.365291 GACCGCGTCCTACATGGCA 62.365 63.158 4.92 0.00 35.26 4.92
2533 2798 0.671796 GAAAAGGTTGGGTTGGACCG 59.328 55.000 0.00 0.00 39.83 4.79
2540 2805 7.125053 TGAATAAAGAAAGTGAAAAGGTTGGGT 59.875 33.333 0.00 0.00 0.00 4.51
2578 2847 8.019669 ACGTGATTGATGAAGATGAAAAGAAAG 58.980 33.333 0.00 0.00 0.00 2.62
2584 2853 4.455190 TGCACGTGATTGATGAAGATGAAA 59.545 37.500 22.23 0.00 0.00 2.69
2586 2855 3.598299 TGCACGTGATTGATGAAGATGA 58.402 40.909 22.23 0.00 0.00 2.92
2587 2856 4.142752 ACTTGCACGTGATTGATGAAGATG 60.143 41.667 22.23 0.00 0.00 2.90
2588 2857 4.005650 ACTTGCACGTGATTGATGAAGAT 58.994 39.130 22.23 0.00 0.00 2.40


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

AutoCloner maintained by Alex Coulton.