Multiple sequence alignment - TraesCS2A01G392600

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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 TraesCS2A01G392600 chr2A 100.000 2680 0 0 1 2680 642719618 642716939 0.000000e+00 4950.0
1 TraesCS2A01G392600 chr2A 99.624 266 1 0 248 513 642724294 642724029 1.120000e-133 486.0
2 TraesCS2A01G392600 chr2D 86.094 2222 168 50 511 2649 498095002 498092839 0.000000e+00 2261.0
3 TraesCS2A01G392600 chr2B 86.948 1969 112 39 512 2410 584467019 584465126 0.000000e+00 2078.0
4 TraesCS2A01G392600 chr2B 78.125 192 29 4 2499 2678 584465006 584464816 2.820000e-20 110.0
5 TraesCS2A01G392600 chr4A 99.023 512 5 0 1 512 593997432 593997943 0.000000e+00 918.0
6 TraesCS2A01G392600 chr5A 98.641 515 7 0 1 515 466956064 466956578 0.000000e+00 913.0
7 TraesCS2A01G392600 chr5A 99.248 266 2 0 248 513 466951322 466951587 5.190000e-132 481.0
8 TraesCS2A01G392600 chr6D 93.348 466 31 0 1 466 194173920 194174385 0.000000e+00 689.0
9 TraesCS2A01G392600 chr7D 92.545 389 12 6 129 515 599462671 599462298 2.350000e-150 542.0
10 TraesCS2A01G392600 chr4D 89.620 395 29 10 1 388 19777880 19777491 2.400000e-135 492.0
11 TraesCS2A01G392600 chr7A 89.086 394 28 14 1 388 183906402 183906018 2.410000e-130 475.0
12 TraesCS2A01G392600 chr5B 88.529 401 29 12 1 388 218203508 218203112 1.120000e-128 470.0
13 TraesCS2A01G392600 chr4B 95.556 90 4 0 1 90 662149951 662150040 7.730000e-31 145.0
14 TraesCS2A01G392600 chr5D 76.101 159 24 12 2100 2257 486215093 486215238 1.330000e-08 71.3


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 TraesCS2A01G392600 chr2A 642716939 642719618 2679 True 4950 4950 100.0000 1 2680 1 chr2A.!!$R1 2679
1 TraesCS2A01G392600 chr2D 498092839 498095002 2163 True 2261 2261 86.0940 511 2649 1 chr2D.!!$R1 2138
2 TraesCS2A01G392600 chr2B 584464816 584467019 2203 True 1094 2078 82.5365 512 2678 2 chr2B.!!$R1 2166
3 TraesCS2A01G392600 chr4A 593997432 593997943 511 False 918 918 99.0230 1 512 1 chr4A.!!$F1 511
4 TraesCS2A01G392600 chr5A 466956064 466956578 514 False 913 913 98.6410 1 515 1 chr5A.!!$F2 514

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
810 831 0.294887 CGTGTGTCGCTCGCTTAATC 59.705 55.0 0.0 0.0 0.0 1.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1997 2065 0.108138 AAGTGATACGCCACCTGCTC 60.108 55.0 0.0 0.0 37.76 4.26 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
23 24 0.960364 GGAAGATGTTGGCGCCTTCA 60.960 55.000 29.70 25.08 37.38 3.02
86 87 3.400054 GTAGGGGCGGCAAGGAGT 61.400 66.667 12.47 0.00 0.00 3.85
240 241 5.479306 CGAGAAAGGAGGATCACAAAACTA 58.521 41.667 0.00 0.00 36.25 2.24
531 532 9.538508 TCTAACAGTTTCAACCTACTAGAAAAC 57.461 33.333 0.00 0.00 33.54 2.43
534 535 7.114095 ACAGTTTCAACCTACTAGAAAACCAA 58.886 34.615 0.00 0.00 33.54 3.67
553 555 4.104738 ACCAAAATCCTCTCCAAGAAGTGA 59.895 41.667 0.00 0.00 0.00 3.41
564 566 3.971305 TCCAAGAAGTGAGGGAACAAGTA 59.029 43.478 0.00 0.00 0.00 2.24
569 571 5.026790 AGAAGTGAGGGAACAAGTAGCTAT 58.973 41.667 0.00 0.00 0.00 2.97
572 574 6.869206 AGTGAGGGAACAAGTAGCTATAAA 57.131 37.500 0.00 0.00 0.00 1.40
600 602 7.716612 AGAAGAGTAGAAAACCACAAAAATGG 58.283 34.615 0.00 0.00 46.10 3.16
666 668 1.334419 CGCCGATACCTAGTACCAACG 60.334 57.143 0.00 0.00 0.00 4.10
667 669 1.000938 GCCGATACCTAGTACCAACGG 60.001 57.143 0.00 0.00 41.63 4.44
684 686 0.384725 CGGCACAAGAGAAAGTTGCG 60.385 55.000 0.00 0.00 0.00 4.85
704 715 0.558220 TCACCAAACACCCCCATTCA 59.442 50.000 0.00 0.00 0.00 2.57
735 746 7.188834 GCGATCACATATTCAAATCAGAACAA 58.811 34.615 0.00 0.00 0.00 2.83
736 747 7.375280 GCGATCACATATTCAAATCAGAACAAG 59.625 37.037 0.00 0.00 0.00 3.16
741 752 7.061441 CACATATTCAAATCAGAACAAGCACAC 59.939 37.037 0.00 0.00 0.00 3.82
780 801 4.039852 TCCCCATTTTACAACCTTTTCAGC 59.960 41.667 0.00 0.00 0.00 4.26
788 809 0.960861 AACCTTTTCAGCCGCTAGCC 60.961 55.000 9.66 0.00 45.47 3.93
808 829 3.837093 CGTGTGTCGCTCGCTTAA 58.163 55.556 0.00 0.00 0.00 1.85
810 831 0.294887 CGTGTGTCGCTCGCTTAATC 59.705 55.000 0.00 0.00 0.00 1.75
853 874 3.114065 GTCGCCTTACAAGATTAGGTCG 58.886 50.000 0.00 0.00 33.16 4.79
902 923 5.491078 AGATTAGGTTACCCAATCCTCAACA 59.509 40.000 16.72 0.00 32.84 3.33
921 942 4.821589 GAACCGGCGCTCAGGGAG 62.822 72.222 7.64 0.00 0.00 4.30
954 976 2.610433 CAAGCTCTTGACGATGCAGTA 58.390 47.619 3.64 0.00 42.93 2.74
1012 1052 0.106569 TACATCCATGGCCCAAGCTG 60.107 55.000 6.96 0.00 39.73 4.24
1201 1244 6.090358 TGAATCACGCTACTTACTGTTTTAGC 59.910 38.462 0.00 0.00 0.00 3.09
1208 1251 5.575995 GCTACTTACTGTTTTAGCTACGCTT 59.424 40.000 0.00 0.00 40.44 4.68
1212 1268 7.960793 ACTTACTGTTTTAGCTACGCTTAATG 58.039 34.615 0.00 0.00 40.44 1.90
1694 1760 7.810658 TGCTTGCATGAAAGTTTTTGTTTTTA 58.189 26.923 15.10 0.00 0.00 1.52
1753 1819 6.539649 CTCGTTCTGAGTGATTTTTAACCA 57.460 37.500 0.00 0.00 40.03 3.67
1758 1824 8.076178 CGTTCTGAGTGATTTTTAACCATTTCT 58.924 33.333 0.00 0.00 0.00 2.52
1793 1859 0.250124 TGTGCAAAACGGGTCGATCT 60.250 50.000 0.00 0.00 0.00 2.75
1797 1863 1.376812 AAAACGGGTCGATCTGGGC 60.377 57.895 9.81 0.00 0.00 5.36
1853 1919 0.796927 GCCAAAACCTCGCTACTCAC 59.203 55.000 0.00 0.00 0.00 3.51
1854 1920 1.068474 CCAAAACCTCGCTACTCACG 58.932 55.000 0.00 0.00 0.00 4.35
1855 1921 1.068474 CAAAACCTCGCTACTCACGG 58.932 55.000 0.00 0.00 0.00 4.94
1857 1923 2.502692 AAACCTCGCTACTCACGGCC 62.503 60.000 0.00 0.00 0.00 6.13
1858 1924 3.449227 CCTCGCTACTCACGGCCA 61.449 66.667 2.24 0.00 0.00 5.36
1859 1925 2.103143 CTCGCTACTCACGGCCAG 59.897 66.667 2.24 0.00 0.00 4.85
1861 1927 3.760035 CGCTACTCACGGCCAGGT 61.760 66.667 2.24 0.00 0.00 4.00
1862 1928 2.663196 GCTACTCACGGCCAGGTT 59.337 61.111 2.24 0.00 0.00 3.50
1864 1930 1.671742 CTACTCACGGCCAGGTTGT 59.328 57.895 2.24 0.00 0.00 3.32
1865 1931 0.892755 CTACTCACGGCCAGGTTGTA 59.107 55.000 2.24 0.00 0.00 2.41
1866 1932 0.604578 TACTCACGGCCAGGTTGTAC 59.395 55.000 2.24 0.00 0.00 2.90
1867 1933 1.369692 CTCACGGCCAGGTTGTACA 59.630 57.895 2.24 0.00 0.00 2.90
1963 2031 4.263435 TGTTGTTCTTGTTCGGTAGGTTT 58.737 39.130 0.00 0.00 0.00 3.27
1970 2038 6.343716 TCTTGTTCGGTAGGTTTGTGTATA 57.656 37.500 0.00 0.00 0.00 1.47
1971 2039 6.158598 TCTTGTTCGGTAGGTTTGTGTATAC 58.841 40.000 0.00 0.00 0.00 1.47
1972 2040 4.484236 TGTTCGGTAGGTTTGTGTATACG 58.516 43.478 0.00 0.00 0.00 3.06
1973 2041 4.022416 TGTTCGGTAGGTTTGTGTATACGT 60.022 41.667 0.00 0.00 0.00 3.57
1974 2042 5.182190 TGTTCGGTAGGTTTGTGTATACGTA 59.818 40.000 0.00 0.00 0.00 3.57
1975 2043 6.127758 TGTTCGGTAGGTTTGTGTATACGTAT 60.128 38.462 13.54 13.54 0.00 3.06
1976 2044 7.066404 TGTTCGGTAGGTTTGTGTATACGTATA 59.934 37.037 11.27 11.27 0.00 1.47
1977 2045 7.744087 TCGGTAGGTTTGTGTATACGTATAT 57.256 36.000 17.86 2.83 0.00 0.86
1978 2046 8.840833 TCGGTAGGTTTGTGTATACGTATATA 57.159 34.615 17.86 12.83 0.00 0.86
1979 2047 8.717821 TCGGTAGGTTTGTGTATACGTATATAC 58.282 37.037 26.63 26.63 42.48 1.47
1997 2065 1.079127 CAGTAGCACGGACAAGGGG 60.079 63.158 0.00 0.00 0.00 4.79
2023 2091 1.060698 GTGGCGTATCACTTTCGAAGC 59.939 52.381 0.00 0.00 34.98 3.86
2044 2112 1.592669 CGGCGCTGTAGGAAGGATG 60.593 63.158 8.45 0.00 0.00 3.51
2064 2132 7.293073 AGGATGATTTTCACTATGCTGGTAAT 58.707 34.615 0.00 0.00 0.00 1.89
2086 2154 4.471904 AAGGTGAATAGCAACGATCTGA 57.528 40.909 0.00 0.00 39.91 3.27
2092 2160 7.716998 AGGTGAATAGCAACGATCTGATTTTAT 59.283 33.333 0.00 0.00 39.91 1.40
2103 2171 6.256321 ACGATCTGATTTTATTTGGCAAATGC 59.744 34.615 30.48 16.46 41.14 3.56
2119 2188 4.438744 GCAAATGCTAAAAGTATGGCGTCT 60.439 41.667 0.00 0.00 38.21 4.18
2154 2223 5.499139 TTGTCAACAAACATCCAGAGTTC 57.501 39.130 0.00 0.00 32.11 3.01
2212 2281 3.820689 TGTTGCGTAAGATTTGACATGC 58.179 40.909 0.00 0.00 43.02 4.06
2228 2297 8.578308 TTTGACATGCTCTAAAGTGAAAATTG 57.422 30.769 0.00 0.00 0.00 2.32
2233 2302 9.013229 ACATGCTCTAAAGTGAAAATTGTCATA 57.987 29.630 0.61 0.00 0.00 2.15
2282 2351 1.068333 CATATGGCAGCGGGTAATTGC 60.068 52.381 0.00 0.00 37.11 3.56
2288 2357 1.379710 AGCGGGTAATTGCCATGCA 60.380 52.632 23.93 0.00 36.47 3.96
2292 2361 1.408340 CGGGTAATTGCCATGCATTCA 59.592 47.619 14.98 0.00 38.76 2.57
2296 2365 4.443175 GGGTAATTGCCATGCATTCAATCA 60.443 41.667 18.82 7.13 38.76 2.57
2316 2385 7.231519 TCAATCAGGATCAGACGTTATGTATCT 59.768 37.037 0.00 0.00 0.00 1.98
2322 2391 4.533815 TCAGACGTTATGTATCTGAGGGT 58.466 43.478 0.00 0.00 43.01 4.34
2425 2510 7.451566 AGAAGCTCAAATGTAGGTTTTTGGTAT 59.548 33.333 0.00 0.00 34.95 2.73
2426 2511 6.924111 AGCTCAAATGTAGGTTTTTGGTATG 58.076 36.000 0.00 0.00 34.38 2.39
2433 2518 8.871629 AATGTAGGTTTTTGGTATGATACACA 57.128 30.769 4.83 0.00 0.00 3.72
2509 2620 6.449830 AAAGTCTCCAACAACTACCCTATT 57.550 37.500 0.00 0.00 0.00 1.73
2515 2655 8.867097 GTCTCCAACAACTACCCTATTGATATA 58.133 37.037 0.00 0.00 0.00 0.86
2516 2656 9.615660 TCTCCAACAACTACCCTATTGATATAT 57.384 33.333 0.00 0.00 0.00 0.86
2521 2661 7.103641 ACAACTACCCTATTGATATATTGCCG 58.896 38.462 0.00 0.00 0.00 5.69
2546 2686 6.897706 AAAAATGCCACCATGCTTAAAATT 57.102 29.167 0.00 0.00 0.00 1.82
2554 2694 5.062058 CCACCATGCTTAAAATTTTGCTACG 59.938 40.000 13.76 3.82 0.00 3.51
2556 2696 6.364706 CACCATGCTTAAAATTTTGCTACGAA 59.635 34.615 13.76 0.00 0.00 3.85
2559 2699 7.063308 CCATGCTTAAAATTTTGCTACGAATGT 59.937 33.333 13.76 0.00 0.00 2.71
2634 2783 1.879380 CCATTGCTCGGTGAACTTTCA 59.121 47.619 0.00 0.00 34.20 2.69
2635 2784 2.489329 CCATTGCTCGGTGAACTTTCAT 59.511 45.455 0.00 0.00 39.73 2.57
2636 2785 3.689161 CCATTGCTCGGTGAACTTTCATA 59.311 43.478 0.00 0.00 39.73 2.15
2650 2799 0.740868 TTCATAGTCACTGCGCTGCC 60.741 55.000 14.80 2.72 0.00 4.85
2679 2828 4.287580 CCGTGTCGGCCAATTACA 57.712 55.556 2.24 0.00 41.17 2.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
484 485 2.501723 ACTGAGATCATAACCGGCAAGT 59.498 45.455 0.00 0.00 0.00 3.16
494 495 8.035394 GGTTGAAACTGTTAGACTGAGATCATA 58.965 37.037 0.00 0.00 0.00 2.15
531 532 4.655963 TCACTTCTTGGAGAGGATTTTGG 58.344 43.478 0.00 0.00 0.00 3.28
600 602 3.134127 GTGCCGGGCCATCTTCAC 61.134 66.667 17.97 1.64 0.00 3.18
629 631 1.923227 GCGGTTAAGCTGTTCCTGCC 61.923 60.000 2.76 0.00 0.00 4.85
666 668 0.663153 ACGCAACTTTCTCTTGTGCC 59.337 50.000 0.00 0.00 33.25 5.01
667 669 1.330521 TGACGCAACTTTCTCTTGTGC 59.669 47.619 0.00 0.00 33.25 4.57
684 686 0.966179 GAATGGGGGTGTTTGGTGAC 59.034 55.000 0.00 0.00 0.00 3.67
704 715 1.623311 TGAATATGTGATCGCGGGGAT 59.377 47.619 6.13 7.33 38.35 3.85
741 752 2.027625 GGAGGTGCAACGGTCTTCG 61.028 63.158 0.00 0.00 45.88 3.79
806 827 3.006940 GGACGGTGTTGCAGATTGATTA 58.993 45.455 0.00 0.00 0.00 1.75
807 828 1.812571 GGACGGTGTTGCAGATTGATT 59.187 47.619 0.00 0.00 0.00 2.57
808 829 1.453155 GGACGGTGTTGCAGATTGAT 58.547 50.000 0.00 0.00 0.00 2.57
810 831 1.586154 GGGGACGGTGTTGCAGATTG 61.586 60.000 0.00 0.00 0.00 2.67
853 874 3.710233 CGCGTCGCTGGAAATAATC 57.290 52.632 16.36 0.00 0.00 1.75
902 923 4.394712 CCCTGAGCGCCGGTTCTT 62.395 66.667 2.29 0.00 0.00 2.52
921 942 6.475076 CGTCAAGAGCTTGGATATATATGAGC 59.525 42.308 10.09 7.03 40.78 4.26
940 962 6.834959 ATTAACTCATACTGCATCGTCAAG 57.165 37.500 0.00 0.00 0.00 3.02
995 1017 2.131709 CCAGCTTGGGCCATGGATG 61.132 63.158 18.40 16.54 36.31 3.51
996 1018 2.281091 CCAGCTTGGGCCATGGAT 59.719 61.111 18.40 5.41 36.31 3.41
1171 1214 6.341316 ACAGTAAGTAGCGTGATTCATTCAT 58.659 36.000 0.00 0.00 36.54 2.57
1172 1215 5.720202 ACAGTAAGTAGCGTGATTCATTCA 58.280 37.500 0.00 0.00 0.00 2.57
1173 1216 6.648725 AACAGTAAGTAGCGTGATTCATTC 57.351 37.500 0.00 0.00 0.00 2.67
1174 1217 7.435068 AAAACAGTAAGTAGCGTGATTCATT 57.565 32.000 0.00 0.00 0.00 2.57
1201 1244 6.111768 AGCAAAACTGATCATTAAGCGTAG 57.888 37.500 0.00 0.00 0.00 3.51
1208 1251 7.759489 AGTGGTTAAGCAAAACTGATCATTA 57.241 32.000 9.30 0.00 0.00 1.90
1212 1268 5.831997 ACAAGTGGTTAAGCAAAACTGATC 58.168 37.500 9.30 0.00 0.00 2.92
1638 1704 3.883180 GCACAACCACAACGCCGT 61.883 61.111 0.00 0.00 0.00 5.68
1641 1707 1.574428 CTAGGCACAACCACAACGC 59.426 57.895 0.00 0.00 43.14 4.84
1694 1760 1.242076 AACTTTCATGCAGCGCTTCT 58.758 45.000 7.50 0.00 0.00 2.85
1753 1819 7.138736 GCACATAAACAACACACAGTAGAAAT 58.861 34.615 0.00 0.00 0.00 2.17
1758 1824 5.819825 TTGCACATAAACAACACACAGTA 57.180 34.783 0.00 0.00 0.00 2.74
1793 1859 2.361104 GCCTCCGTTTGATGCCCA 60.361 61.111 0.00 0.00 0.00 5.36
1824 1890 2.506957 GGTTTTGGCCACCCACCAG 61.507 63.158 18.56 0.00 41.97 4.00
1853 1919 0.734942 CGTACTGTACAACCTGGCCG 60.735 60.000 17.35 0.00 0.00 6.13
1854 1920 0.604578 TCGTACTGTACAACCTGGCC 59.395 55.000 17.35 0.00 0.00 5.36
1855 1921 2.443887 TTCGTACTGTACAACCTGGC 57.556 50.000 17.35 0.00 0.00 4.85
1857 1923 5.388061 CGACAATTTCGTACTGTACAACCTG 60.388 44.000 17.35 9.71 43.24 4.00
1858 1924 4.682860 CGACAATTTCGTACTGTACAACCT 59.317 41.667 17.35 0.00 43.24 3.50
1859 1925 4.938129 CGACAATTTCGTACTGTACAACC 58.062 43.478 17.35 0.00 43.24 3.77
1938 2006 3.247648 CCTACCGAACAAGAACAACAGTG 59.752 47.826 0.00 0.00 0.00 3.66
1963 2031 7.148590 CCGTGCTACTGTATATACGTATACACA 60.149 40.741 21.92 21.92 44.72 3.72
1970 2038 4.129380 TGTCCGTGCTACTGTATATACGT 58.871 43.478 8.33 10.89 0.00 3.57
1971 2039 4.737353 TGTCCGTGCTACTGTATATACG 57.263 45.455 8.33 5.91 0.00 3.06
1972 2040 5.458891 CCTTGTCCGTGCTACTGTATATAC 58.541 45.833 5.89 5.89 0.00 1.47
1973 2041 4.521639 CCCTTGTCCGTGCTACTGTATATA 59.478 45.833 0.00 0.00 0.00 0.86
1974 2042 3.321111 CCCTTGTCCGTGCTACTGTATAT 59.679 47.826 0.00 0.00 0.00 0.86
1975 2043 2.691526 CCCTTGTCCGTGCTACTGTATA 59.308 50.000 0.00 0.00 0.00 1.47
1976 2044 1.480954 CCCTTGTCCGTGCTACTGTAT 59.519 52.381 0.00 0.00 0.00 2.29
1977 2045 0.892755 CCCTTGTCCGTGCTACTGTA 59.107 55.000 0.00 0.00 0.00 2.74
1978 2046 1.671742 CCCTTGTCCGTGCTACTGT 59.328 57.895 0.00 0.00 0.00 3.55
1979 2047 1.079127 CCCCTTGTCCGTGCTACTG 60.079 63.158 0.00 0.00 0.00 2.74
1980 2048 1.229082 TCCCCTTGTCCGTGCTACT 60.229 57.895 0.00 0.00 0.00 2.57
1981 2049 1.218316 CTCCCCTTGTCCGTGCTAC 59.782 63.158 0.00 0.00 0.00 3.58
1982 2050 2.656069 GCTCCCCTTGTCCGTGCTA 61.656 63.158 0.00 0.00 0.00 3.49
1997 2065 0.108138 AAGTGATACGCCACCTGCTC 60.108 55.000 0.00 0.00 37.76 4.26
2044 2112 8.345565 CACCTTATTACCAGCATAGTGAAAATC 58.654 37.037 0.00 0.00 0.00 2.17
2064 2132 5.592104 TCAGATCGTTGCTATTCACCTTA 57.408 39.130 0.00 0.00 0.00 2.69
2092 2160 4.934602 GCCATACTTTTAGCATTTGCCAAA 59.065 37.500 0.00 0.00 43.38 3.28
2103 2171 7.640240 GCTAAAAATCAGACGCCATACTTTTAG 59.360 37.037 0.00 0.00 37.80 1.85
2109 2178 3.308866 ACGCTAAAAATCAGACGCCATAC 59.691 43.478 0.00 0.00 0.00 2.39
2184 2253 4.572795 TCAAATCTTACGCAACAGTGAACA 59.427 37.500 0.00 0.00 0.00 3.18
2185 2254 4.904154 GTCAAATCTTACGCAACAGTGAAC 59.096 41.667 0.00 0.00 0.00 3.18
2186 2255 4.572795 TGTCAAATCTTACGCAACAGTGAA 59.427 37.500 0.00 0.00 0.00 3.18
2187 2256 4.123506 TGTCAAATCTTACGCAACAGTGA 58.876 39.130 0.00 0.00 0.00 3.41
2188 2257 4.466567 TGTCAAATCTTACGCAACAGTG 57.533 40.909 0.00 0.00 0.00 3.66
2189 2258 4.613622 GCATGTCAAATCTTACGCAACAGT 60.614 41.667 0.00 0.00 0.00 3.55
2190 2259 3.848019 GCATGTCAAATCTTACGCAACAG 59.152 43.478 0.00 0.00 0.00 3.16
2282 2351 4.023107 GTCTGATCCTGATTGAATGCATGG 60.023 45.833 0.00 0.00 0.00 3.66
2288 2357 6.586344 ACATAACGTCTGATCCTGATTGAAT 58.414 36.000 5.20 0.00 0.00 2.57
2292 2361 7.231519 TCAGATACATAACGTCTGATCCTGATT 59.768 37.037 5.20 0.00 42.36 2.57
2296 2365 5.475220 CCTCAGATACATAACGTCTGATCCT 59.525 44.000 4.93 0.00 45.10 3.24
2316 2385 1.444933 AAATCTGACACCCACCCTCA 58.555 50.000 0.00 0.00 0.00 3.86
2319 2388 4.159693 GGATTAAAAATCTGACACCCACCC 59.840 45.833 0.11 0.00 0.00 4.61
2320 2389 4.142469 CGGATTAAAAATCTGACACCCACC 60.142 45.833 2.87 0.00 0.00 4.61
2321 2390 4.698304 TCGGATTAAAAATCTGACACCCAC 59.302 41.667 7.00 0.00 0.00 4.61
2322 2391 4.912586 TCGGATTAAAAATCTGACACCCA 58.087 39.130 7.00 0.00 0.00 4.51
2383 2461 3.006967 AGCTTCTACTTGTCCGTGATGTT 59.993 43.478 0.00 0.00 0.00 2.71
2389 2467 3.746045 TTTGAGCTTCTACTTGTCCGT 57.254 42.857 0.00 0.00 0.00 4.69
2390 2468 3.997021 ACATTTGAGCTTCTACTTGTCCG 59.003 43.478 0.00 0.00 0.00 4.79
2425 2510 2.571202 TGGAGATGTTGCCTGTGTATCA 59.429 45.455 0.00 0.00 0.00 2.15
2426 2511 3.266510 TGGAGATGTTGCCTGTGTATC 57.733 47.619 0.00 0.00 0.00 2.24
2433 2518 0.403271 AGCTGTTGGAGATGTTGCCT 59.597 50.000 0.00 0.00 0.00 4.75
2490 2601 7.931015 ATATCAATAGGGTAGTTGTTGGAGA 57.069 36.000 0.00 0.00 0.00 3.71
2530 2670 5.062058 CGTAGCAAAATTTTAAGCATGGTGG 59.938 40.000 13.78 0.00 0.00 4.61
2571 2711 1.917782 TTTATTGGGCAGCGCGTGAC 61.918 55.000 8.43 7.01 0.00 3.67
2576 2716 1.789506 TTTTGTTTATTGGGCAGCGC 58.210 45.000 0.00 0.00 0.00 5.92
2634 2783 1.142748 GAGGCAGCGCAGTGACTAT 59.857 57.895 11.47 0.00 35.20 2.12
2635 2784 2.275380 TGAGGCAGCGCAGTGACTA 61.275 57.895 11.47 0.00 35.20 2.59
2636 2785 3.619767 TGAGGCAGCGCAGTGACT 61.620 61.111 11.47 7.66 39.10 3.41


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

AutoCloner maintained by Alex Coulton.