Multiple sequence alignment - TraesCS3A01G147100

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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 TraesCS3A01G147100 chr3A 100.000 3769 0 0 1 3769 128563659 128567427 0.000000e+00 6961.0
1 TraesCS3A01G147100 chr1A 94.151 2120 62 21 1 2090 389822413 389820326 0.000000e+00 3171.0
2 TraesCS3A01G147100 chr1A 96.976 1554 40 6 2189 3738 389820324 389818774 0.000000e+00 2603.0
3 TraesCS3A01G147100 chr1A 83.737 289 19 12 71 333 56982849 56983135 8.080000e-62 248.0
4 TraesCS3A01G147100 chr1A 83.045 289 22 12 71 333 212577567 212577854 1.750000e-58 237.0
5 TraesCS3A01G147100 chr1D 94.747 1523 64 8 569 2089 309973579 309972071 0.000000e+00 2355.0
6 TraesCS3A01G147100 chr1D 91.792 1596 95 19 2169 3738 309972052 309970467 0.000000e+00 2189.0
7 TraesCS3A01G147100 chr1D 87.016 516 24 13 71 557 309974149 309973648 3.310000e-150 542.0
8 TraesCS3A01G147100 chr1B 93.007 1530 76 13 569 2089 419984797 419986304 0.000000e+00 2204.0
9 TraesCS3A01G147100 chr1B 88.491 1590 119 26 2151 3738 419986304 419987831 0.000000e+00 1864.0
10 TraesCS3A01G147100 chr1B 86.213 544 30 18 24 557 419984208 419984716 7.120000e-152 547.0
11 TraesCS3A01G147100 chr1B 93.137 102 6 1 2199 2300 533757878 533757778 8.430000e-32 148.0
12 TraesCS3A01G147100 chr1B 91.176 102 5 2 2199 2300 640477641 640477544 6.570000e-28 135.0
13 TraesCS3A01G147100 chr4A 85.417 288 14 14 72 333 362910403 362910688 1.330000e-69 274.0
14 TraesCS3A01G147100 chr3B 83.333 306 16 18 53 333 511678847 511679142 2.250000e-62 250.0
15 TraesCS3A01G147100 chr3B 83.737 289 19 11 71 333 727664742 727664456 8.080000e-62 248.0
16 TraesCS3A01G147100 chr6A 83.737 289 19 13 71 333 214069018 214069304 8.080000e-62 248.0
17 TraesCS3A01G147100 chr2A 83.391 289 20 13 71 333 165942552 165942266 3.760000e-60 243.0
18 TraesCS3A01G147100 chr2D 88.172 93 3 1 71 155 633473431 633473523 1.850000e-18 104.0
19 TraesCS3A01G147100 chr2D 87.805 82 2 1 71 144 633467100 633467019 5.190000e-14 89.8
20 TraesCS3A01G147100 chr2D 86.441 59 7 1 1649 1707 615502489 615502546 3.140000e-06 63.9


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 TraesCS3A01G147100 chr3A 128563659 128567427 3768 False 6961.000000 6961 100.0000 1 3769 1 chr3A.!!$F1 3768
1 TraesCS3A01G147100 chr1A 389818774 389822413 3639 True 2887.000000 3171 95.5635 1 3738 2 chr1A.!!$R1 3737
2 TraesCS3A01G147100 chr1D 309970467 309974149 3682 True 1695.333333 2355 91.1850 71 3738 3 chr1D.!!$R1 3667
3 TraesCS3A01G147100 chr1B 419984208 419987831 3623 False 1538.333333 2204 89.2370 24 3738 3 chr1B.!!$F1 3714


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
367 419 0.172352 CTGTCGTCAAGCTCCTCCTC 59.828 60.0 0.0 0.0 0.0 3.71 F
1055 1187 0.393448 TTCCGGTTTGATGTGGTCGA 59.607 50.0 0.0 0.0 0.0 4.20 F
1056 1188 0.611200 TCCGGTTTGATGTGGTCGAT 59.389 50.0 0.0 0.0 0.0 3.59 F
1361 1498 1.295792 TGTTTCCGTCTGTTGTCTGC 58.704 50.0 0.0 0.0 0.0 4.26 F
2053 2192 0.464036 TTCAGACAACACAGCCGAGT 59.536 50.0 0.0 0.0 0.0 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1361 1498 0.391130 TCCGTCTGCTCGAAAATGGG 60.391 55.000 0.00 0.0 0.00 4.00 R
2034 2171 0.464036 ACTCGGCTGTGTTGTCTGAA 59.536 50.000 0.00 0.0 0.00 3.02 R
2035 2172 1.324383 TACTCGGCTGTGTTGTCTGA 58.676 50.000 5.42 0.0 0.00 3.27 R
2661 2807 1.337260 CCAGTTCTGCTTACTCGTGCT 60.337 52.381 0.00 0.0 0.00 4.40 R
3384 3536 1.302431 TGGGTCACCATGACTTGCG 60.302 57.895 8.75 0.0 46.19 4.85 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
190 208 1.653151 GAAACGGAGACATAGGCCAC 58.347 55.000 5.01 0.00 0.00 5.01
266 285 2.029020 AGAGACGCACAAGCATGAGTAA 60.029 45.455 0.00 0.00 42.27 2.24
270 293 2.224079 ACGCACAAGCATGAGTAACAAG 59.776 45.455 0.00 0.00 42.27 3.16
274 301 4.801891 CACAAGCATGAGTAACAAGCAAT 58.198 39.130 0.00 0.00 44.34 3.56
366 418 1.254284 CCTGTCGTCAAGCTCCTCCT 61.254 60.000 0.00 0.00 0.00 3.69
367 419 0.172352 CTGTCGTCAAGCTCCTCCTC 59.828 60.000 0.00 0.00 0.00 3.71
368 420 1.137825 GTCGTCAAGCTCCTCCTCG 59.862 63.158 0.00 0.00 0.00 4.63
369 421 2.202676 CGTCAAGCTCCTCCTCGC 60.203 66.667 0.00 0.00 0.00 5.03
370 422 2.973899 GTCAAGCTCCTCCTCGCA 59.026 61.111 0.00 0.00 0.00 5.10
826 954 3.699894 CAGCCAGCCTCGTGTCCT 61.700 66.667 0.00 0.00 0.00 3.85
990 1122 1.445238 GAGTGCGGAGAGTGACTGC 60.445 63.158 0.00 0.00 39.73 4.40
1054 1186 0.515564 GTTCCGGTTTGATGTGGTCG 59.484 55.000 0.00 0.00 0.00 4.79
1055 1187 0.393448 TTCCGGTTTGATGTGGTCGA 59.607 50.000 0.00 0.00 0.00 4.20
1056 1188 0.611200 TCCGGTTTGATGTGGTCGAT 59.389 50.000 0.00 0.00 0.00 3.59
1284 1419 3.237522 GAGCTATCGACACCACGTC 57.762 57.895 0.00 0.00 41.62 4.34
1323 1458 2.307098 CCACTCACTCCCATCCTTTCTT 59.693 50.000 0.00 0.00 0.00 2.52
1361 1498 1.295792 TGTTTCCGTCTGTTGTCTGC 58.704 50.000 0.00 0.00 0.00 4.26
1378 1515 1.298157 TGCCCATTTTCGAGCAGACG 61.298 55.000 0.00 0.00 0.00 4.18
1381 1518 1.438651 CCATTTTCGAGCAGACGGAA 58.561 50.000 0.00 0.00 0.00 4.30
1522 1659 3.737172 GTGCACGCCATGGTGTCC 61.737 66.667 28.06 20.56 40.08 4.02
1884 2021 2.568935 GAATTCGTGTCAGCGCTGCC 62.569 60.000 32.44 23.21 0.00 4.85
1889 2026 3.939939 TGTCAGCGCTGCCAGGAA 61.940 61.111 32.44 11.64 0.00 3.36
2030 2167 3.963383 AACGCACAAGAAAAGGTACAG 57.037 42.857 0.00 0.00 0.00 2.74
2031 2168 3.188159 ACGCACAAGAAAAGGTACAGA 57.812 42.857 0.00 0.00 0.00 3.41
2032 2169 2.870411 ACGCACAAGAAAAGGTACAGAC 59.130 45.455 0.00 0.00 0.00 3.51
2033 2170 2.869801 CGCACAAGAAAAGGTACAGACA 59.130 45.455 0.00 0.00 0.00 3.41
2034 2171 3.498397 CGCACAAGAAAAGGTACAGACAT 59.502 43.478 0.00 0.00 0.00 3.06
2035 2172 4.024048 CGCACAAGAAAAGGTACAGACATT 60.024 41.667 0.00 0.00 0.00 2.71
2036 2173 5.452777 GCACAAGAAAAGGTACAGACATTC 58.547 41.667 0.00 0.00 0.00 2.67
2037 2174 5.008613 GCACAAGAAAAGGTACAGACATTCA 59.991 40.000 0.00 0.00 0.00 2.57
2051 2190 1.202639 ACATTCAGACAACACAGCCGA 60.203 47.619 0.00 0.00 0.00 5.54
2053 2192 0.464036 TTCAGACAACACAGCCGAGT 59.536 50.000 0.00 0.00 0.00 4.18
2077 2216 9.896645 AGTAATATTCAGAACATTCAGTCATGT 57.103 29.630 0.00 0.00 39.17 3.21
2078 2217 9.926751 GTAATATTCAGAACATTCAGTCATGTG 57.073 33.333 0.00 0.00 37.46 3.21
2079 2218 4.754372 TTCAGAACATTCAGTCATGTGC 57.246 40.909 0.00 0.00 37.46 4.57
2086 2225 3.575256 ACATTCAGTCATGTGCCAACATT 59.425 39.130 0.00 0.00 44.94 2.71
2089 2228 5.781210 TTCAGTCATGTGCCAACATTTTA 57.219 34.783 0.00 0.00 44.94 1.52
2090 2229 5.119931 TCAGTCATGTGCCAACATTTTAC 57.880 39.130 0.00 0.00 44.94 2.01
2094 2233 7.122501 TCAGTCATGTGCCAACATTTTACATAT 59.877 33.333 0.00 0.00 44.94 1.78
2095 2234 8.404765 CAGTCATGTGCCAACATTTTACATATA 58.595 33.333 0.00 0.00 44.94 0.86
2097 2236 8.187480 GTCATGTGCCAACATTTTACATATACA 58.813 33.333 0.00 0.00 44.94 2.29
2098 2237 8.911965 TCATGTGCCAACATTTTACATATACAT 58.088 29.630 0.00 0.00 44.94 2.29
2158 2297 8.885494 ACTAGTAACGTGTAAAATTAACACCA 57.115 30.769 14.92 2.62 43.46 4.17
2159 2298 9.323985 ACTAGTAACGTGTAAAATTAACACCAA 57.676 29.630 14.92 2.62 43.46 3.67
2161 2300 8.839947 AGTAACGTGTAAAATTAACACCAAAC 57.160 30.769 14.92 11.12 43.46 2.93
2162 2301 8.457261 AGTAACGTGTAAAATTAACACCAAACA 58.543 29.630 14.92 0.00 43.46 2.83
2163 2302 9.070149 GTAACGTGTAAAATTAACACCAAACAA 57.930 29.630 14.92 0.00 43.46 2.83
2164 2303 8.705048 AACGTGTAAAATTAACACCAAACAAT 57.295 26.923 14.92 0.00 43.46 2.71
2165 2304 9.798994 AACGTGTAAAATTAACACCAAACAATA 57.201 25.926 14.92 0.00 43.46 1.90
2166 2305 9.235537 ACGTGTAAAATTAACACCAAACAATAC 57.764 29.630 14.92 0.00 43.46 1.89
2167 2306 9.234384 CGTGTAAAATTAACACCAAACAATACA 57.766 29.630 14.92 0.00 43.46 2.29
2179 2318 6.145371 CACCAAACAATACAATTAAGGTGCAC 59.855 38.462 8.80 8.80 37.74 4.57
2185 2324 7.315142 ACAATACAATTAAGGTGCACAATCTG 58.685 34.615 20.43 9.93 0.00 2.90
2186 2325 7.176515 ACAATACAATTAAGGTGCACAATCTGA 59.823 33.333 20.43 0.00 0.00 3.27
2569 2715 0.520404 TACAGTGAGCTTCCGACGTC 59.480 55.000 5.18 5.18 0.00 4.34
2661 2807 1.967779 TGGAATTCGAGTGTCAGGACA 59.032 47.619 0.00 0.00 39.32 4.02
2687 2833 2.166664 GAGTAAGCAGAACTGGGTCGAT 59.833 50.000 3.99 0.00 0.00 3.59
2718 2864 2.157421 CTGCTTCGACAGGTTGCTC 58.843 57.895 0.00 0.00 33.85 4.26
2736 2882 1.482182 CTCCAGATGATCGTGTGGGAA 59.518 52.381 26.32 10.94 33.55 3.97
2751 2897 1.300481 GGGAAATAAGCTGGAGTCGC 58.700 55.000 0.00 0.00 0.00 5.19
2823 2973 7.737607 TGATAGTATGTTGTGATATAAGGGGGT 59.262 37.037 0.00 0.00 0.00 4.95
2866 3017 4.507710 TGTTGATGATACTCTTGTGAGGC 58.492 43.478 0.00 0.00 44.29 4.70
2986 3137 6.040278 TGTTAGTGACAAAATGGCAGATTTCA 59.960 34.615 0.00 0.00 35.04 2.69
3193 3344 1.705745 GGGGGATAAAGGACCATCTCC 59.294 57.143 1.17 1.17 40.57 3.71
3384 3536 4.799564 TTTCTGGCCCATGAAATTACAC 57.200 40.909 0.00 0.00 0.00 2.90
3619 3795 2.822215 GAGGATTCTACGGGCCTCA 58.178 57.895 0.84 0.00 44.91 3.86
3700 3876 5.397142 TCTTTTACCGAAGAGAACCCTAC 57.603 43.478 0.00 0.00 32.19 3.18
3738 3914 4.108501 TGTAATCATAGGCCTCGTCCTA 57.891 45.455 9.68 0.00 42.45 2.94
3739 3915 4.079970 TGTAATCATAGGCCTCGTCCTAG 58.920 47.826 9.68 0.00 41.63 3.02
3740 3916 2.223803 ATCATAGGCCTCGTCCTAGG 57.776 55.000 9.68 0.82 41.63 3.02
3746 3922 2.840102 CCTCGTCCTAGGCCAGGG 60.840 72.222 17.89 13.25 45.58 4.45
3747 3923 2.840102 CTCGTCCTAGGCCAGGGG 60.840 72.222 17.89 10.97 45.58 4.79
3748 3924 3.352748 TCGTCCTAGGCCAGGGGA 61.353 66.667 17.89 12.91 45.58 4.81
3749 3925 2.122813 CGTCCTAGGCCAGGGGAT 60.123 66.667 17.89 0.00 45.58 3.85
3750 3926 1.155390 CGTCCTAGGCCAGGGGATA 59.845 63.158 17.89 0.14 45.58 2.59
3751 3927 0.900647 CGTCCTAGGCCAGGGGATAG 60.901 65.000 17.89 10.47 45.58 2.08
3752 3928 1.158705 TCCTAGGCCAGGGGATAGC 59.841 63.158 17.89 0.00 45.58 2.97
3753 3929 1.159664 CCTAGGCCAGGGGATAGCT 59.840 63.158 5.01 0.00 41.26 3.32
3754 3930 1.197430 CCTAGGCCAGGGGATAGCTG 61.197 65.000 5.01 0.00 41.26 4.24
3755 3931 1.152030 TAGGCCAGGGGATAGCTGG 60.152 63.158 5.01 0.00 40.97 4.85
3756 3932 2.696253 TAGGCCAGGGGATAGCTGGG 62.696 65.000 5.01 0.00 38.60 4.45
3757 3933 3.574237 GCCAGGGGATAGCTGGGG 61.574 72.222 0.00 0.00 38.60 4.96
3758 3934 2.856000 CCAGGGGATAGCTGGGGG 60.856 72.222 0.00 0.00 34.79 5.40
3759 3935 3.574237 CAGGGGATAGCTGGGGGC 61.574 72.222 0.00 0.00 42.19 5.80
3760 3936 4.122670 AGGGGATAGCTGGGGGCA 62.123 66.667 0.00 0.00 44.79 5.36
3761 3937 3.890926 GGGGATAGCTGGGGGCAC 61.891 72.222 0.00 0.00 44.79 5.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
234 253 1.153862 GCGTCTCTGGCTCTCTGTG 60.154 63.158 0.00 0.00 0.00 3.66
266 285 5.184479 GCATGTATCCATCCATATTGCTTGT 59.816 40.000 0.00 0.00 0.00 3.16
270 293 5.404946 GTTGCATGTATCCATCCATATTGC 58.595 41.667 0.00 0.00 0.00 3.56
274 301 3.397282 TGGGTTGCATGTATCCATCCATA 59.603 43.478 12.30 0.00 0.00 2.74
333 385 2.283966 CAGGAGACCCGTCACCCT 60.284 66.667 7.59 5.54 40.59 4.34
369 421 3.190738 TTGGAGGCCGGTCAAGGTG 62.191 63.158 9.71 0.00 0.00 4.00
370 422 2.852075 TTGGAGGCCGGTCAAGGT 60.852 61.111 9.71 0.00 0.00 3.50
826 954 1.593196 CGTGGCAGAAAGAACAAGGA 58.407 50.000 0.00 0.00 0.00 3.36
937 1065 1.376553 GTCCTTGGCTCTCAGTGGC 60.377 63.158 0.00 0.00 0.00 5.01
990 1122 1.820906 CATGGCCATCAGTCCCACG 60.821 63.158 17.61 0.00 0.00 4.94
1038 1170 0.726827 CATCGACCACATCAAACCGG 59.273 55.000 0.00 0.00 0.00 5.28
1054 1186 1.670590 CCGCATCCTCCTCCTCATC 59.329 63.158 0.00 0.00 0.00 2.92
1055 1187 2.515071 GCCGCATCCTCCTCCTCAT 61.515 63.158 0.00 0.00 0.00 2.90
1056 1188 3.157252 GCCGCATCCTCCTCCTCA 61.157 66.667 0.00 0.00 0.00 3.86
1192 1327 3.429141 CAGCGGCAGCCTGTTGAG 61.429 66.667 10.54 0.00 46.67 3.02
1323 1458 4.630644 ACATTCAGAAAGGAGAGAGCAA 57.369 40.909 0.00 0.00 0.00 3.91
1361 1498 0.391130 TCCGTCTGCTCGAAAATGGG 60.391 55.000 0.00 0.00 0.00 4.00
1378 1515 2.041115 GGAACTCCGCCTTGCTTCC 61.041 63.158 0.00 0.00 0.00 3.46
1381 1518 1.078143 GATGGAACTCCGCCTTGCT 60.078 57.895 0.00 0.00 39.43 3.91
1462 1599 1.745864 CTCCTTGCTGCTCTGCCTG 60.746 63.158 0.00 0.00 0.00 4.85
1667 1804 2.734723 CACCTGCTCGTGTGTCGG 60.735 66.667 0.00 0.00 40.32 4.79
1749 1886 2.818274 CCTTACCGGTTGCCGCTC 60.818 66.667 15.04 0.00 46.86 5.03
1884 2021 0.994995 CTTCATCGTCGCAGTTCCTG 59.005 55.000 0.00 0.00 34.12 3.86
1889 2026 4.175599 CTGCTTCATCGTCGCAGT 57.824 55.556 0.00 0.00 44.50 4.40
2030 2167 1.195448 CGGCTGTGTTGTCTGAATGTC 59.805 52.381 0.00 0.00 0.00 3.06
2031 2168 1.202639 TCGGCTGTGTTGTCTGAATGT 60.203 47.619 0.00 0.00 0.00 2.71
2032 2169 1.462283 CTCGGCTGTGTTGTCTGAATG 59.538 52.381 0.00 0.00 0.00 2.67
2033 2170 1.070758 ACTCGGCTGTGTTGTCTGAAT 59.929 47.619 0.00 0.00 0.00 2.57
2034 2171 0.464036 ACTCGGCTGTGTTGTCTGAA 59.536 50.000 0.00 0.00 0.00 3.02
2035 2172 1.324383 TACTCGGCTGTGTTGTCTGA 58.676 50.000 5.42 0.00 0.00 3.27
2036 2173 2.148916 TTACTCGGCTGTGTTGTCTG 57.851 50.000 5.42 0.00 0.00 3.51
2037 2174 4.737855 ATATTACTCGGCTGTGTTGTCT 57.262 40.909 5.42 0.00 0.00 3.41
2051 2190 9.896645 ACATGACTGAATGTTCTGAATATTACT 57.103 29.630 11.63 0.00 37.50 2.24
2053 2192 8.615211 GCACATGACTGAATGTTCTGAATATTA 58.385 33.333 11.63 0.00 38.75 0.98
2132 2271 9.973450 TGGTGTTAATTTTACACGTTACTAGTA 57.027 29.630 11.34 0.00 45.27 1.82
2133 2272 8.885494 TGGTGTTAATTTTACACGTTACTAGT 57.115 30.769 11.34 0.00 45.27 2.57
2135 2274 9.928236 GTTTGGTGTTAATTTTACACGTTACTA 57.072 29.630 11.34 0.00 45.27 1.82
2136 2275 8.457261 TGTTTGGTGTTAATTTTACACGTTACT 58.543 29.630 11.34 0.00 45.27 2.24
2137 2276 8.612233 TGTTTGGTGTTAATTTTACACGTTAC 57.388 30.769 11.34 9.36 45.27 2.50
2138 2277 9.798994 ATTGTTTGGTGTTAATTTTACACGTTA 57.201 25.926 11.34 0.49 45.27 3.18
2139 2278 8.705048 ATTGTTTGGTGTTAATTTTACACGTT 57.295 26.923 11.34 0.00 45.27 3.99
2140 2279 9.235537 GTATTGTTTGGTGTTAATTTTACACGT 57.764 29.630 11.34 0.00 45.27 4.49
2141 2280 9.234384 TGTATTGTTTGGTGTTAATTTTACACG 57.766 29.630 11.34 0.00 45.27 4.49
2150 2289 9.751542 CACCTTAATTGTATTGTTTGGTGTTAA 57.248 29.630 0.00 0.00 38.01 2.01
2151 2290 7.868415 GCACCTTAATTGTATTGTTTGGTGTTA 59.132 33.333 0.00 0.00 42.86 2.41
2152 2291 6.704050 GCACCTTAATTGTATTGTTTGGTGTT 59.296 34.615 0.00 0.00 42.86 3.32
2153 2292 6.183360 TGCACCTTAATTGTATTGTTTGGTGT 60.183 34.615 0.00 0.00 42.86 4.16
2154 2293 6.145371 GTGCACCTTAATTGTATTGTTTGGTG 59.855 38.462 5.22 0.00 43.51 4.17
2155 2294 6.183360 TGTGCACCTTAATTGTATTGTTTGGT 60.183 34.615 15.69 0.00 0.00 3.67
2156 2295 6.219473 TGTGCACCTTAATTGTATTGTTTGG 58.781 36.000 15.69 0.00 0.00 3.28
2157 2296 7.706281 TTGTGCACCTTAATTGTATTGTTTG 57.294 32.000 15.69 0.00 0.00 2.93
2158 2297 8.367156 AGATTGTGCACCTTAATTGTATTGTTT 58.633 29.630 15.69 0.00 0.00 2.83
2159 2298 7.814107 CAGATTGTGCACCTTAATTGTATTGTT 59.186 33.333 15.69 0.00 0.00 2.83
2160 2299 7.176515 TCAGATTGTGCACCTTAATTGTATTGT 59.823 33.333 15.69 0.00 0.00 2.71
2161 2300 7.537715 TCAGATTGTGCACCTTAATTGTATTG 58.462 34.615 15.69 3.70 0.00 1.90
2162 2301 7.701539 TCAGATTGTGCACCTTAATTGTATT 57.298 32.000 15.69 0.00 0.00 1.89
2163 2302 7.701539 TTCAGATTGTGCACCTTAATTGTAT 57.298 32.000 15.69 0.00 0.00 2.29
2164 2303 7.701539 ATTCAGATTGTGCACCTTAATTGTA 57.298 32.000 15.69 4.05 0.00 2.41
2165 2304 6.594788 ATTCAGATTGTGCACCTTAATTGT 57.405 33.333 15.69 0.00 0.00 2.71
2166 2305 7.894376 AAATTCAGATTGTGCACCTTAATTG 57.106 32.000 15.69 8.74 0.00 2.32
2179 2318 7.603404 TGCACCAGGAAAAATAAATTCAGATTG 59.397 33.333 0.00 0.00 0.00 2.67
2362 2507 2.495155 TTTCAGCTTCAGCATGCCTA 57.505 45.000 15.66 0.00 45.16 3.93
2661 2807 1.337260 CCAGTTCTGCTTACTCGTGCT 60.337 52.381 0.00 0.00 0.00 4.40
2718 2864 2.401583 TTTCCCACACGATCATCTGG 57.598 50.000 0.00 0.00 0.00 3.86
2736 2882 3.024547 TCACTAGCGACTCCAGCTTATT 58.975 45.455 0.00 0.00 43.24 1.40
2751 2897 5.473162 TCACACATCAACCCATTTTCACTAG 59.527 40.000 0.00 0.00 0.00 2.57
3065 3216 7.174946 TGGCATGGAAGAGAAAACTAACTAAAG 59.825 37.037 0.00 0.00 0.00 1.85
3068 3219 6.121776 TGGCATGGAAGAGAAAACTAACTA 57.878 37.500 0.00 0.00 0.00 2.24
3193 3344 3.058777 GCAAACTTTGGTTCATGCAATGG 60.059 43.478 3.69 0.00 46.73 3.16
3384 3536 1.302431 TGGGTCACCATGACTTGCG 60.302 57.895 8.75 0.00 46.19 4.85
3405 3557 4.323562 GCCAGTTGAAAGGACCTACAGTAT 60.324 45.833 0.00 0.00 0.00 2.12
3472 3624 7.929245 TGTAATTCTCTTGTTAGTTGCAGTACA 59.071 33.333 0.00 0.00 0.00 2.90
3619 3795 1.840635 GGAGGCTTCCTACATTGGTCT 59.159 52.381 7.80 0.00 40.58 3.85
3682 3858 2.749621 GACGTAGGGTTCTCTTCGGTAA 59.250 50.000 4.04 0.00 0.00 2.85
3700 3876 7.745022 TGATTACAAGAATACTAAACCGACG 57.255 36.000 0.00 0.00 0.00 5.12
3738 3914 2.449322 CCAGCTATCCCCTGGCCT 60.449 66.667 3.32 0.00 42.98 5.19
3739 3915 3.574237 CCCAGCTATCCCCTGGCC 61.574 72.222 0.00 0.00 46.77 5.36
3740 3916 3.574237 CCCCAGCTATCCCCTGGC 61.574 72.222 1.95 0.00 46.77 4.85
3742 3918 3.574237 GCCCCCAGCTATCCCCTG 61.574 72.222 0.00 0.00 38.99 4.45
3743 3919 4.122670 TGCCCCCAGCTATCCCCT 62.123 66.667 0.00 0.00 44.23 4.79
3744 3920 3.890926 GTGCCCCCAGCTATCCCC 61.891 72.222 0.00 0.00 44.23 4.81
3745 3921 3.890926 GGTGCCCCCAGCTATCCC 61.891 72.222 0.00 0.00 44.23 3.85
3746 3922 4.256180 CGGTGCCCCCAGCTATCC 62.256 72.222 0.00 0.00 44.23 2.59
3747 3923 3.161450 TCGGTGCCCCCAGCTATC 61.161 66.667 0.00 0.00 44.23 2.08
3748 3924 3.480133 GTCGGTGCCCCCAGCTAT 61.480 66.667 0.00 0.00 44.23 2.97



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

AutoCloner maintained by Alex Coulton.