Multiple sequence alignment - TraesCS2A01G113800

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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 TraesCS2A01G113800 chr2A 100.000 2746 0 0 1 2746 65181666 65184411 0.000000e+00 5072
1 TraesCS2A01G113800 chr2D 93.027 1305 50 12 602 1876 63568962 63570255 0.000000e+00 1868
2 TraesCS2A01G113800 chr2D 90.701 613 31 15 1 597 63568143 63568745 0.000000e+00 793
3 TraesCS2A01G113800 chr2D 96.166 313 11 1 2435 2746 63570741 63571053 6.780000e-141 510
4 TraesCS2A01G113800 chr2D 94.828 116 5 1 1945 2060 63570257 63570371 2.170000e-41 180
5 TraesCS2A01G113800 chr2B 85.913 1292 74 56 1 1246 99265211 99266440 0.000000e+00 1279
6 TraesCS2A01G113800 chr2B 94.730 740 25 5 1330 2060 99266491 99267225 0.000000e+00 1138
7 TraesCS2A01G113800 chr2B 86.260 655 37 22 2121 2746 99267356 99267986 0.000000e+00 662
8 TraesCS2A01G113800 chr4D 82.270 141 24 1 1061 1201 293380802 293380941 1.340000e-23 121
9 TraesCS2A01G113800 chr4B 82.270 141 24 1 1061 1201 278411728 278411867 1.340000e-23 121
10 TraesCS2A01G113800 chr4A 82.270 141 24 1 1061 1201 231019719 231019858 1.340000e-23 121


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 TraesCS2A01G113800 chr2A 65181666 65184411 2745 False 5072.000000 5072 100.000000 1 2746 1 chr2A.!!$F1 2745
1 TraesCS2A01G113800 chr2D 63568143 63571053 2910 False 837.750000 1868 93.680500 1 2746 4 chr2D.!!$F1 2745
2 TraesCS2A01G113800 chr2B 99265211 99267986 2775 False 1026.333333 1279 88.967667 1 2746 3 chr2B.!!$F1 2745

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
527 549 0.099968 CCTTTCAGGCATGCATGTCG 59.9 55.0 29.43 19.97 37.51 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1805 2082 0.312729 TCGTTCTACTCGCAGTTGCA 59.687 50.0 4.84 0.0 42.21 4.08 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 5.979993 TCGGTACTTAACAATGGAAGCATA 58.020 37.500 0.00 0.00 0.00 3.14
24 25 6.588204 TCGGTACTTAACAATGGAAGCATAT 58.412 36.000 0.00 0.00 0.00 1.78
60 61 1.346062 TTGCTCTCTGCTCAAGACCT 58.654 50.000 0.00 0.00 43.37 3.85
126 130 0.235144 CGACCTCGACCTACTATGCG 59.765 60.000 0.00 0.00 43.02 4.73
199 213 5.623141 GCTGGATGGAAAAATCAGTTCCTTC 60.623 44.000 9.48 9.48 44.24 3.46
228 244 0.820871 TGTGTGGCGCTTTTCCTTTT 59.179 45.000 7.64 0.00 0.00 2.27
292 308 1.300481 CGGCTGACTAGACATCTCGA 58.700 55.000 0.00 0.00 0.00 4.04
293 309 1.003331 CGGCTGACTAGACATCTCGAC 60.003 57.143 0.00 0.00 0.00 4.20
341 357 4.516698 ACTTCTAATCCGCATTATTGCCTG 59.483 41.667 4.10 0.00 46.57 4.85
342 358 4.350368 TCTAATCCGCATTATTGCCTGA 57.650 40.909 4.10 2.18 46.57 3.86
395 415 1.002033 GTCAGCAACTGCAGTTCCAAG 60.002 52.381 28.97 18.44 45.16 3.61
396 416 0.318445 CAGCAACTGCAGTTCCAAGC 60.318 55.000 28.97 26.43 45.16 4.01
436 458 3.009140 CATCTCGACGCATGCACC 58.991 61.111 19.57 7.39 0.00 5.01
471 493 7.942990 ACTACTTTTAAGTCCGATCCTATGAG 58.057 38.462 0.00 0.00 40.37 2.90
489 511 1.969589 GGTACCAAGGGCCGTTGTG 60.970 63.158 30.63 24.37 0.00 3.33
527 549 0.099968 CCTTTCAGGCATGCATGTCG 59.900 55.000 29.43 19.97 37.51 4.35
550 572 3.300765 AACGCCTCCGGTTCGAGT 61.301 61.111 16.72 4.63 39.22 4.18
559 581 4.357996 CCTCCGGTTCGAGTTTACTAATC 58.642 47.826 0.00 0.00 0.00 1.75
592 614 6.317857 CCATTTTGAGCTAGCTTTGTCTTAC 58.682 40.000 20.42 3.61 0.00 2.34
597 619 2.231478 AGCTAGCTTTGTCTTACGCTGA 59.769 45.455 12.68 0.00 34.14 4.26
598 620 2.993899 GCTAGCTTTGTCTTACGCTGAA 59.006 45.455 7.70 0.00 34.14 3.02
599 621 3.061429 GCTAGCTTTGTCTTACGCTGAAG 59.939 47.826 7.70 0.00 34.14 3.02
637 876 1.067516 CTGTTGGTTTCAGTGCTTGGG 59.932 52.381 0.00 0.00 0.00 4.12
667 906 4.012895 GGCACGAACCACACGCAG 62.013 66.667 0.00 0.00 0.00 5.18
713 952 3.808174 GGACACGAATAGACTATTTGCCC 59.192 47.826 18.72 14.30 33.68 5.36
766 1011 3.369366 GGCATAAATGTGTTTCAAGGGGG 60.369 47.826 0.00 0.00 0.00 5.40
779 1024 6.439058 TGTTTCAAGGGGGTTTTAATATCTGG 59.561 38.462 0.00 0.00 0.00 3.86
823 1072 2.575279 AGAGCATCATCCCAACTTGTCT 59.425 45.455 0.00 0.00 37.82 3.41
830 1079 3.008375 TCATCCCAACTTGTCTTCCTCTG 59.992 47.826 0.00 0.00 0.00 3.35
896 1147 1.237285 TGCGCTTTTGCTCTCTTCCC 61.237 55.000 9.73 0.00 44.80 3.97
897 1148 1.927608 GCGCTTTTGCTCTCTTCCCC 61.928 60.000 0.00 0.00 44.80 4.81
898 1149 0.606401 CGCTTTTGCTCTCTTCCCCA 60.606 55.000 0.00 0.00 44.80 4.96
951 1202 4.648762 ACTTGACCAGATCACATAGAGAGG 59.351 45.833 0.00 0.00 36.92 3.69
955 1206 2.288091 CCAGATCACATAGAGAGGCACG 60.288 54.545 0.00 0.00 0.00 5.34
957 1208 2.621055 AGATCACATAGAGAGGCACGTC 59.379 50.000 0.00 0.00 0.00 4.34
960 1211 1.474478 CACATAGAGAGGCACGTCAGT 59.526 52.381 0.00 0.00 0.00 3.41
972 1223 3.938112 GTCAGTGTGCAGACGGAC 58.062 61.111 26.40 26.40 34.58 4.79
974 1225 0.941463 GTCAGTGTGCAGACGGACAG 60.941 60.000 32.20 12.86 44.94 3.51
975 1226 1.106944 TCAGTGTGCAGACGGACAGA 61.107 55.000 12.70 2.86 44.94 3.41
976 1227 0.665670 CAGTGTGCAGACGGACAGAG 60.666 60.000 8.47 0.00 44.94 3.35
977 1228 1.373497 GTGTGCAGACGGACAGAGG 60.373 63.158 0.00 0.00 44.94 3.69
978 1229 2.262915 GTGCAGACGGACAGAGGG 59.737 66.667 0.00 0.00 32.83 4.30
979 1230 3.695606 TGCAGACGGACAGAGGGC 61.696 66.667 0.00 0.00 0.00 5.19
982 1233 1.374758 CAGACGGACAGAGGGCAAC 60.375 63.158 0.00 0.00 0.00 4.17
995 1247 0.322648 GGGCAACACTTAGTACGGGT 59.677 55.000 0.00 0.00 39.74 5.28
1269 1542 9.412460 ACATTTTCCTTTGCTGAGAATATCATA 57.588 29.630 0.00 0.00 37.28 2.15
1317 1591 5.369187 GCTCAAACGAATGTATGATCGATG 58.631 41.667 0.54 1.61 41.43 3.84
1358 1635 1.093159 GTGGATTCCTGCAGAAGCTG 58.907 55.000 17.39 0.00 40.83 4.24
1773 2050 7.579726 CAAAACCAGAACAGAATAGAGACTTG 58.420 38.462 0.00 0.00 0.00 3.16
1804 2081 4.502171 TCTTCGTGTGAATTACCGTGTA 57.498 40.909 0.00 0.00 32.61 2.90
1805 2082 5.063180 TCTTCGTGTGAATTACCGTGTAT 57.937 39.130 0.00 0.00 32.61 2.29
1806 2083 4.860352 TCTTCGTGTGAATTACCGTGTATG 59.140 41.667 0.00 0.00 32.61 2.39
1807 2084 2.924926 TCGTGTGAATTACCGTGTATGC 59.075 45.455 0.00 0.00 0.00 3.14
1848 2125 2.882137 TCGTAGTGTGACACAGATGACA 59.118 45.455 18.95 0.00 36.74 3.58
1883 2160 4.940654 TGATTTTGATTCCATGTAGTGCGA 59.059 37.500 0.00 0.00 0.00 5.10
1905 2183 2.094894 CACGACATCTCCATCAACTTGC 59.905 50.000 0.00 0.00 0.00 4.01
1913 2191 3.005554 CTCCATCAACTTGCGATGACTT 58.994 45.455 1.78 0.00 42.39 3.01
1914 2192 3.411446 TCCATCAACTTGCGATGACTTT 58.589 40.909 1.78 0.00 42.39 2.66
1919 2197 5.342806 TCAACTTGCGATGACTTTGTTAG 57.657 39.130 0.00 0.00 0.00 2.34
1942 2220 3.740832 TCTCAAGATTTGCGTATATGCGG 59.259 43.478 15.14 0.00 37.81 5.69
2033 2317 3.545633 GTTCGATCAGTGCAAGTTGTTC 58.454 45.455 4.48 0.00 0.00 3.18
2045 2329 0.768622 AGTTGTTCATTCCCACCCGA 59.231 50.000 0.00 0.00 0.00 5.14
2060 2344 1.134788 ACCCGATGACTTCAATCGTCC 60.135 52.381 5.24 0.00 36.21 4.79
2061 2345 1.200483 CCGATGACTTCAATCGTCCG 58.800 55.000 5.24 0.00 36.21 4.79
2065 2349 2.293677 TGACTTCAATCGTCCGATGG 57.706 50.000 2.52 0.00 34.70 3.51
2066 2350 0.931005 GACTTCAATCGTCCGATGGC 59.069 55.000 2.52 0.00 34.70 4.40
2067 2351 0.462047 ACTTCAATCGTCCGATGGCC 60.462 55.000 2.52 0.00 34.70 5.36
2069 2353 0.180171 TTCAATCGTCCGATGGCCAT 59.820 50.000 20.96 20.96 34.70 4.40
2070 2354 0.249868 TCAATCGTCCGATGGCCATC 60.250 55.000 32.34 32.34 34.70 3.51
2071 2355 0.532640 CAATCGTCCGATGGCCATCA 60.533 55.000 38.08 23.06 37.69 3.07
2072 2356 0.250038 AATCGTCCGATGGCCATCAG 60.250 55.000 38.08 30.23 37.69 2.90
2073 2357 1.402896 ATCGTCCGATGGCCATCAGT 61.403 55.000 38.08 18.04 37.69 3.41
2074 2358 1.884464 CGTCCGATGGCCATCAGTG 60.884 63.158 38.08 27.12 37.69 3.66
2075 2359 1.221840 GTCCGATGGCCATCAGTGT 59.778 57.895 38.08 10.53 37.69 3.55
2082 2366 3.555956 CGATGGCCATCAGTGTTAACTAC 59.444 47.826 38.08 13.41 37.69 2.73
2084 2368 5.451381 CGATGGCCATCAGTGTTAACTACTA 60.451 44.000 38.08 0.00 37.69 1.82
2085 2369 5.080969 TGGCCATCAGTGTTAACTACTAC 57.919 43.478 0.00 0.00 33.79 2.73
2086 2370 4.110482 GGCCATCAGTGTTAACTACTACG 58.890 47.826 7.22 0.00 33.79 3.51
2087 2371 3.550678 GCCATCAGTGTTAACTACTACGC 59.449 47.826 7.22 5.18 33.79 4.42
2088 2372 3.789756 CCATCAGTGTTAACTACTACGCG 59.210 47.826 3.53 3.53 33.79 6.01
2106 2433 3.242349 ACGCGTGTAGATTCTAACTCTCG 60.242 47.826 12.93 0.00 0.00 4.04
2114 2441 2.599408 TTCTAACTCTCGACCAGGGT 57.401 50.000 0.00 0.00 37.47 4.34
2115 2442 2.125773 TCTAACTCTCGACCAGGGTC 57.874 55.000 8.44 8.44 32.95 4.46
2116 2443 1.353358 TCTAACTCTCGACCAGGGTCA 59.647 52.381 17.97 5.11 44.77 4.02
2117 2444 2.025226 TCTAACTCTCGACCAGGGTCAT 60.025 50.000 17.97 0.40 44.77 3.06
2118 2445 0.898320 AACTCTCGACCAGGGTCATG 59.102 55.000 17.97 9.73 44.77 3.07
2119 2446 1.142748 CTCTCGACCAGGGTCATGC 59.857 63.158 17.97 0.00 44.77 4.06
2156 2511 4.009675 GCAAATCACTGAGGAACATACCA 58.990 43.478 0.00 0.00 0.00 3.25
2161 2516 3.837731 TCACTGAGGAACATACCACATCA 59.162 43.478 0.00 0.00 30.96 3.07
2164 2519 5.649395 CACTGAGGAACATACCACATCAATT 59.351 40.000 0.00 0.00 30.96 2.32
2165 2520 6.823182 CACTGAGGAACATACCACATCAATTA 59.177 38.462 0.00 0.00 30.96 1.40
2166 2521 7.336679 CACTGAGGAACATACCACATCAATTAA 59.663 37.037 0.00 0.00 30.96 1.40
2167 2522 7.554118 ACTGAGGAACATACCACATCAATTAAG 59.446 37.037 0.00 0.00 30.96 1.85
2173 2528 9.391006 GAACATACCACATCAATTAAGGTCTTA 57.609 33.333 0.00 0.00 33.91 2.10
2196 2551 5.736951 ATTAAGGCCTTGTACAATGCAAA 57.263 34.783 29.20 21.50 34.30 3.68
2198 2553 2.875296 AGGCCTTGTACAATGCAAAGA 58.125 42.857 29.20 0.00 34.30 2.52
2199 2554 3.434309 AGGCCTTGTACAATGCAAAGAT 58.566 40.909 29.20 12.31 34.30 2.40
2200 2555 3.194116 AGGCCTTGTACAATGCAAAGATG 59.806 43.478 29.20 8.14 34.30 2.90
2247 2602 4.047883 ACTCAATTAGGCACCCCTTCTAT 58.952 43.478 0.00 0.00 42.87 1.98
2250 2605 4.597507 TCAATTAGGCACCCCTTCTATAGG 59.402 45.833 0.00 0.00 42.87 2.57
2283 2638 8.915654 CACTGATGCTTAACTTGGTTTATTTTC 58.084 33.333 0.00 0.00 0.00 2.29
2296 2672 5.777732 TGGTTTATTTTCCTAAGCACCATGT 59.222 36.000 0.00 0.00 0.00 3.21
2315 2697 7.705325 CACCATGTACTGTATACAAGACCTAAC 59.295 40.741 7.06 0.00 0.00 2.34
2323 2705 6.802608 TGTATACAAGACCTAACTGGATTCG 58.197 40.000 2.20 0.00 39.71 3.34
2385 2767 4.526650 TGCTCAGTCTACATACAGGTTTGA 59.473 41.667 0.00 0.00 0.00 2.69
2386 2768 4.865365 GCTCAGTCTACATACAGGTTTGAC 59.135 45.833 0.00 0.00 0.00 3.18
2387 2769 5.401531 TCAGTCTACATACAGGTTTGACC 57.598 43.478 0.00 0.00 38.99 4.02
2388 2770 4.082408 TCAGTCTACATACAGGTTTGACCG 60.082 45.833 0.00 0.00 44.90 4.79
2389 2771 3.830755 AGTCTACATACAGGTTTGACCGT 59.169 43.478 0.00 0.00 44.90 4.83
2390 2772 4.282703 AGTCTACATACAGGTTTGACCGTT 59.717 41.667 0.00 0.00 44.90 4.44
2431 2813 2.174210 ACCAGGTCCTACGCTATCTGTA 59.826 50.000 0.00 0.00 0.00 2.74
2440 2822 3.014304 ACGCTATCTGTAGGAACTCCA 57.986 47.619 0.00 0.00 41.75 3.86
2509 2892 6.680810 TGAAAACCAACAGAGCTATTCATTG 58.319 36.000 0.00 0.00 0.00 2.82
2510 2893 4.708726 AACCAACAGAGCTATTCATTGC 57.291 40.909 0.00 0.00 0.00 3.56
2526 2909 3.701542 TCATTGCCTATCTTCTCAGTCGT 59.298 43.478 0.00 0.00 0.00 4.34
2533 2916 5.163642 GCCTATCTTCTCAGTCGTTTCACTA 60.164 44.000 0.00 0.00 0.00 2.74
2557 2940 5.604758 AATGCTTCTGCTCTATGTACAGA 57.395 39.130 0.33 0.00 38.62 3.41
2561 2944 5.298026 TGCTTCTGCTCTATGTACAGACTAG 59.702 44.000 0.33 0.00 40.03 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 4.083110 GGACACACATATGCATATGCTTCC 60.083 45.833 35.84 29.95 42.98 3.46
23 24 3.765511 AGCAAAAGGACACACATATGCAT 59.234 39.130 3.79 3.79 35.11 3.96
24 25 3.156293 AGCAAAAGGACACACATATGCA 58.844 40.909 1.58 0.00 35.11 3.96
60 61 0.179100 GGCTGCAGATAAGCACTCGA 60.179 55.000 20.43 0.00 42.69 4.04
126 130 7.201299 GCGCGTACTTGTAATATATGTTAGTCC 60.201 40.741 8.43 0.00 0.00 3.85
171 176 2.954318 CTGATTTTTCCATCCAGCCGAT 59.046 45.455 0.00 0.00 0.00 4.18
172 177 2.290896 ACTGATTTTTCCATCCAGCCGA 60.291 45.455 0.00 0.00 0.00 5.54
173 178 2.094675 ACTGATTTTTCCATCCAGCCG 58.905 47.619 0.00 0.00 0.00 5.52
174 179 3.118992 GGAACTGATTTTTCCATCCAGCC 60.119 47.826 0.00 0.00 42.04 4.85
228 244 2.355363 CGTCGTCACCAAAGCGGA 60.355 61.111 0.00 0.00 38.63 5.54
292 308 6.768381 GCTTAAATAAGGCAAGTAGATCAGGT 59.232 38.462 0.00 0.00 33.95 4.00
293 309 6.767902 TGCTTAAATAAGGCAAGTAGATCAGG 59.232 38.462 0.00 0.00 33.95 3.86
341 357 8.138712 AGCAACAGCAATACTCTACTACTTATC 58.861 37.037 0.00 0.00 0.00 1.75
342 358 8.012957 AGCAACAGCAATACTCTACTACTTAT 57.987 34.615 0.00 0.00 0.00 1.73
395 415 1.010419 CAGTCGCTTTTTGCATGGGC 61.010 55.000 0.00 0.00 43.06 5.36
396 416 0.388907 CCAGTCGCTTTTTGCATGGG 60.389 55.000 0.00 0.00 43.06 4.00
436 458 7.597743 TCGGACTTAAAAGTAGTAGCAAGAAAG 59.402 37.037 0.00 0.00 39.88 2.62
471 493 1.969589 CACAACGGCCCTTGGTACC 60.970 63.158 17.35 4.43 0.00 3.34
489 511 1.720852 GGCACGCACATTTTGACATTC 59.279 47.619 0.00 0.00 0.00 2.67
550 572 3.060736 TGGCCGTGCTTGATTAGTAAA 57.939 42.857 0.00 0.00 0.00 2.01
559 581 1.010419 GCTCAAAATGGCCGTGCTTG 61.010 55.000 12.06 12.06 0.00 4.01
592 614 2.733227 GCCAACCATTTCATCTTCAGCG 60.733 50.000 0.00 0.00 0.00 5.18
597 619 1.551883 GCAGGCCAACCATTTCATCTT 59.448 47.619 5.01 0.00 39.06 2.40
598 620 1.188863 GCAGGCCAACCATTTCATCT 58.811 50.000 5.01 0.00 39.06 2.90
599 621 1.134907 CAGCAGGCCAACCATTTCATC 60.135 52.381 5.01 0.00 39.06 2.92
637 876 1.953559 TCGTGCCCTATCTTTCATGC 58.046 50.000 0.00 0.00 0.00 4.06
684 923 6.777213 ATAGTCTATTCGTGTCCAAGTTCT 57.223 37.500 0.00 0.00 0.00 3.01
713 952 2.180017 GAGCTGTGGCGGCAATTG 59.820 61.111 15.50 8.04 44.37 2.32
830 1079 3.991121 GCTCGCTTAAACTATCTGGATCC 59.009 47.826 4.20 4.20 0.00 3.36
896 1147 5.221145 GGCTCGATATATACACAGAGGATGG 60.221 48.000 0.00 0.00 0.00 3.51
897 1148 5.221145 GGGCTCGATATATACACAGAGGATG 60.221 48.000 0.00 0.00 0.00 3.51
898 1149 4.890581 GGGCTCGATATATACACAGAGGAT 59.109 45.833 0.00 0.00 0.00 3.24
932 1183 2.961741 TGCCTCTCTATGTGATCTGGTC 59.038 50.000 0.00 0.00 0.00 4.02
955 1206 0.941463 CTGTCCGTCTGCACACTGAC 60.941 60.000 9.24 9.24 40.36 3.51
957 1208 0.665670 CTCTGTCCGTCTGCACACTG 60.666 60.000 0.00 0.00 0.00 3.66
960 1211 2.574018 CCCTCTGTCCGTCTGCACA 61.574 63.158 0.00 0.00 0.00 4.57
962 1213 3.695606 GCCCTCTGTCCGTCTGCA 61.696 66.667 0.00 0.00 0.00 4.41
969 1220 1.348036 ACTAAGTGTTGCCCTCTGTCC 59.652 52.381 0.00 0.00 0.00 4.02
972 1223 2.607187 CGTACTAAGTGTTGCCCTCTG 58.393 52.381 0.00 0.00 0.00 3.35
974 1225 1.405121 CCCGTACTAAGTGTTGCCCTC 60.405 57.143 0.00 0.00 0.00 4.30
975 1226 0.611714 CCCGTACTAAGTGTTGCCCT 59.388 55.000 0.00 0.00 0.00 5.19
976 1227 0.322648 ACCCGTACTAAGTGTTGCCC 59.677 55.000 0.00 0.00 0.00 5.36
977 1228 2.493278 TCTACCCGTACTAAGTGTTGCC 59.507 50.000 0.00 0.00 0.00 4.52
978 1229 3.441572 TCTCTACCCGTACTAAGTGTTGC 59.558 47.826 0.00 0.00 0.00 4.17
979 1230 5.450137 CCATCTCTACCCGTACTAAGTGTTG 60.450 48.000 0.00 0.00 0.00 3.33
982 1233 3.004524 GCCATCTCTACCCGTACTAAGTG 59.995 52.174 0.00 0.00 0.00 3.16
995 1247 1.214673 AGTGTACCCTCGCCATCTCTA 59.785 52.381 0.00 0.00 0.00 2.43
1057 1330 0.251209 GTGAACACCTTCCCCCTTCC 60.251 60.000 0.00 0.00 0.00 3.46
1269 1542 6.706270 CGCCAACATAGTATTTCATAGACCTT 59.294 38.462 0.00 0.00 0.00 3.50
1271 1544 5.107065 GCGCCAACATAGTATTTCATAGACC 60.107 44.000 0.00 0.00 0.00 3.85
1317 1591 7.227910 TCCACAATTAAGTAACCAGTCAGAAAC 59.772 37.037 0.00 0.00 0.00 2.78
1358 1635 2.420466 CTTCCCACTTGCCAAACGCC 62.420 60.000 0.00 0.00 36.24 5.68
1409 1686 2.972505 ACCTTGAACCACGCGCTG 60.973 61.111 5.73 3.55 0.00 5.18
1553 1830 4.749310 CAGCACGCTCGCTTCCCT 62.749 66.667 0.00 0.00 41.38 4.20
1562 1839 4.074526 ACGATCCTGCAGCACGCT 62.075 61.111 19.52 8.88 43.06 5.07
1773 2050 8.805688 GGTAATTCACACGAAGAAAGACTATAC 58.194 37.037 0.00 0.00 33.74 1.47
1804 2081 1.067846 TCGTTCTACTCGCAGTTGCAT 60.068 47.619 4.84 0.00 42.21 3.96
1805 2082 0.312729 TCGTTCTACTCGCAGTTGCA 59.687 50.000 4.84 0.00 42.21 4.08
1806 2083 0.708918 GTCGTTCTACTCGCAGTTGC 59.291 55.000 0.00 0.00 37.78 4.17
1807 2084 2.333389 AGTCGTTCTACTCGCAGTTG 57.667 50.000 0.00 0.00 0.00 3.16
1848 2125 8.812513 TGGAATCAAAATCACTTGTAGATCAT 57.187 30.769 0.00 0.00 0.00 2.45
1883 2160 3.329386 CAAGTTGATGGAGATGTCGTGT 58.671 45.455 0.00 0.00 0.00 4.49
1913 2191 8.817100 CATATACGCAAATCTTGAGACTAACAA 58.183 33.333 0.00 0.00 34.37 2.83
1914 2192 7.042725 GCATATACGCAAATCTTGAGACTAACA 60.043 37.037 0.00 0.00 34.37 2.41
1919 2197 4.376413 CCGCATATACGCAAATCTTGAGAC 60.376 45.833 0.00 0.00 34.37 3.36
1930 2208 0.924777 CAAACGACCGCATATACGCA 59.075 50.000 0.00 0.00 0.00 5.24
1942 2220 4.356289 ACATTTTTGGCAGTACAAACGAC 58.644 39.130 0.00 0.00 39.82 4.34
2033 2317 1.065491 TGAAGTCATCGGGTGGGAATG 60.065 52.381 0.00 0.00 0.00 2.67
2045 2329 2.826428 CCATCGGACGATTGAAGTCAT 58.174 47.619 4.20 0.00 40.20 3.06
2060 2344 2.632377 AGTTAACACTGATGGCCATCG 58.368 47.619 34.70 29.89 40.63 3.84
2061 2345 4.770795 AGTAGTTAACACTGATGGCCATC 58.229 43.478 34.71 34.71 38.29 3.51
2065 2349 3.550678 GCGTAGTAGTTAACACTGATGGC 59.449 47.826 8.61 8.06 34.06 4.40
2066 2350 3.789756 CGCGTAGTAGTTAACACTGATGG 59.210 47.826 8.61 3.00 34.06 3.51
2067 2351 4.262277 CACGCGTAGTAGTTAACACTGATG 59.738 45.833 13.44 5.45 34.06 3.07
2069 2353 3.250762 ACACGCGTAGTAGTTAACACTGA 59.749 43.478 13.44 0.00 34.06 3.41
2070 2354 3.558505 ACACGCGTAGTAGTTAACACTG 58.441 45.455 13.44 0.00 34.06 3.66
2071 2355 3.904136 ACACGCGTAGTAGTTAACACT 57.096 42.857 13.44 11.35 36.99 3.55
2072 2356 4.957971 TCTACACGCGTAGTAGTTAACAC 58.042 43.478 30.14 4.37 44.71 3.32
2073 2357 5.801350 ATCTACACGCGTAGTAGTTAACA 57.199 39.130 30.14 19.82 44.71 2.41
2074 2358 6.481984 AGAATCTACACGCGTAGTAGTTAAC 58.518 40.000 30.14 22.82 44.71 2.01
2075 2359 6.668541 AGAATCTACACGCGTAGTAGTTAA 57.331 37.500 30.14 20.29 44.71 2.01
2082 2366 5.406767 AGAGTTAGAATCTACACGCGTAG 57.593 43.478 13.44 7.15 45.62 3.51
2084 2368 3.242349 CGAGAGTTAGAATCTACACGCGT 60.242 47.826 5.58 5.58 0.00 6.01
2085 2369 3.001026 TCGAGAGTTAGAATCTACACGCG 59.999 47.826 3.53 3.53 31.81 6.01
2086 2370 4.273274 GTCGAGAGTTAGAATCTACACGC 58.727 47.826 0.00 0.00 0.00 5.34
2087 2371 4.331992 TGGTCGAGAGTTAGAATCTACACG 59.668 45.833 0.00 0.00 0.00 4.49
2088 2372 5.220892 CCTGGTCGAGAGTTAGAATCTACAC 60.221 48.000 0.00 0.00 0.00 2.90
2106 2433 1.003839 TCAACGCATGACCCTGGTC 60.004 57.895 9.44 9.44 44.77 4.02
2134 2489 4.009675 TGGTATGTTCCTCAGTGATTTGC 58.990 43.478 0.00 0.00 0.00 3.68
2135 2490 5.003160 TGTGGTATGTTCCTCAGTGATTTG 58.997 41.667 0.00 0.00 0.00 2.32
2166 2521 6.382919 TGTACAAGGCCTTAATTAAGACCT 57.617 37.500 23.25 23.25 46.36 3.85
2167 2522 7.480810 CATTGTACAAGGCCTTAATTAAGACC 58.519 38.462 23.95 21.85 36.24 3.85
2173 2528 5.736951 TTGCATTGTACAAGGCCTTAATT 57.263 34.783 34.56 8.21 46.35 1.40
2224 2579 2.025887 AGAAGGGGTGCCTAATTGAGTG 60.026 50.000 0.00 0.00 0.00 3.51
2225 2580 2.279173 AGAAGGGGTGCCTAATTGAGT 58.721 47.619 0.00 0.00 0.00 3.41
2228 2583 4.911390 CCTATAGAAGGGGTGCCTAATTG 58.089 47.826 0.00 0.00 42.32 2.32
2268 2623 6.325286 TGGTGCTTAGGAAAATAAACCAAGTT 59.675 34.615 0.00 0.00 33.67 2.66
2270 2625 6.339587 TGGTGCTTAGGAAAATAAACCAAG 57.660 37.500 0.00 0.00 33.67 3.61
2271 2626 6.268847 ACATGGTGCTTAGGAAAATAAACCAA 59.731 34.615 0.00 0.00 39.71 3.67
2272 2627 5.777732 ACATGGTGCTTAGGAAAATAAACCA 59.222 36.000 0.00 0.00 40.50 3.67
2273 2628 6.280855 ACATGGTGCTTAGGAAAATAAACC 57.719 37.500 0.00 0.00 0.00 3.27
2274 2629 7.968405 CAGTACATGGTGCTTAGGAAAATAAAC 59.032 37.037 0.00 0.00 0.00 2.01
2275 2630 7.668052 ACAGTACATGGTGCTTAGGAAAATAAA 59.332 33.333 0.00 0.00 0.00 1.40
2276 2631 7.172342 ACAGTACATGGTGCTTAGGAAAATAA 58.828 34.615 0.00 0.00 0.00 1.40
2278 2633 5.570320 ACAGTACATGGTGCTTAGGAAAAT 58.430 37.500 0.00 0.00 0.00 1.82
2279 2634 4.980573 ACAGTACATGGTGCTTAGGAAAA 58.019 39.130 0.00 0.00 0.00 2.29
2280 2635 4.634012 ACAGTACATGGTGCTTAGGAAA 57.366 40.909 0.00 0.00 0.00 3.13
2283 2638 6.156748 TGTATACAGTACATGGTGCTTAGG 57.843 41.667 0.08 0.00 0.00 2.69
2296 2672 8.834004 AATCCAGTTAGGTCTTGTATACAGTA 57.166 34.615 5.56 0.00 39.02 2.74
2315 2697 2.110967 CCAGCCAGTGCGAATCCAG 61.111 63.158 0.00 0.00 44.33 3.86
2323 2705 1.180029 ATTGATGTTCCAGCCAGTGC 58.820 50.000 0.00 0.00 37.95 4.40
2386 2768 1.003118 TCCACCATTCTCCTTGAACGG 59.997 52.381 0.00 0.00 43.14 4.44
2387 2769 2.076863 GTCCACCATTCTCCTTGAACG 58.923 52.381 0.00 0.00 37.52 3.95
2388 2770 2.224769 TGGTCCACCATTCTCCTTGAAC 60.225 50.000 0.00 0.00 42.01 3.18
2389 2771 2.061848 TGGTCCACCATTCTCCTTGAA 58.938 47.619 0.00 0.00 42.01 2.69
2390 2772 1.741028 TGGTCCACCATTCTCCTTGA 58.259 50.000 0.00 0.00 42.01 3.02
2431 2813 5.304686 TGTAATGTCAGTTTGGAGTTCCT 57.695 39.130 0.00 0.00 36.82 3.36
2433 2815 7.254852 TGTTTTGTAATGTCAGTTTGGAGTTC 58.745 34.615 0.00 0.00 0.00 3.01
2440 2822 9.301153 GAGTCAATTGTTTTGTAATGTCAGTTT 57.699 29.630 5.13 0.00 0.00 2.66
2509 2892 3.860536 GTGAAACGACTGAGAAGATAGGC 59.139 47.826 0.00 0.00 0.00 3.93
2510 2893 5.317733 AGTGAAACGACTGAGAAGATAGG 57.682 43.478 0.00 0.00 45.86 2.57
2526 2909 8.206867 ACATAGAGCAGAAGCATTATAGTGAAA 58.793 33.333 0.00 0.00 45.49 2.69
2533 2916 7.015098 AGTCTGTACATAGAGCAGAAGCATTAT 59.985 37.037 0.00 0.00 45.49 1.28


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

AutoCloner maintained by Alex Coulton.