Multiple sequence alignment - TraesCS3D01G146400

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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 TraesCS3D01G146400 chr3D 100.000 2355 0 0 1 2355 110393898 110391544 0.000000e+00 4349.0
1 TraesCS3D01G146400 chr3D 100.000 56 0 0 1724 1779 110392124 110392069 1.150000e-18 104.0
2 TraesCS3D01G146400 chr3D 100.000 56 0 0 1775 1830 110392175 110392120 1.150000e-18 104.0
3 TraesCS3D01G146400 chr3B 92.405 1501 67 20 243 1717 161633469 161631990 0.000000e+00 2097.0
4 TraesCS3D01G146400 chr3B 84.730 537 60 16 1815 2345 161631565 161631045 3.470000e-143 518.0
5 TraesCS3D01G146400 chr3B 93.443 244 13 3 1 244 161633760 161633520 2.230000e-95 359.0
6 TraesCS3D01G146400 chr3A 87.908 1472 102 37 244 1686 119697351 119698775 0.000000e+00 1663.0
7 TraesCS3D01G146400 chr5B 89.262 447 28 12 1112 1552 137282869 137283301 2.060000e-150 542.0
8 TraesCS3D01G146400 chr2B 100.000 28 0 0 1813 1840 216954749 216954722 4.000000e-03 52.8


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 TraesCS3D01G146400 chr3D 110391544 110393898 2354 True 1519.000000 4349 100.000000 1 2355 3 chr3D.!!$R1 2354
1 TraesCS3D01G146400 chr3B 161631045 161633760 2715 True 991.333333 2097 90.192667 1 2345 3 chr3B.!!$R1 2344
2 TraesCS3D01G146400 chr3A 119697351 119698775 1424 False 1663.000000 1663 87.908000 244 1686 1 chr3A.!!$F1 1442

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
98 99 0.817634 CGAGGTGTTGTTGGCCTGAA 60.818 55.0 3.32 0.0 31.89 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1399 1475 0.037697 ATGTGCAACGCCGACTAAGA 60.038 50.0 0.0 0.0 42.39 2.1 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
54 55 4.180057 GTCATCAAGACTCTTACCAGCTG 58.820 47.826 6.78 6.78 44.09 4.24
58 59 2.828520 CAAGACTCTTACCAGCTGGAGA 59.171 50.000 39.19 28.46 38.94 3.71
98 99 0.817634 CGAGGTGTTGTTGGCCTGAA 60.818 55.000 3.32 0.00 31.89 3.02
105 106 1.069049 GTTGTTGGCCTGAACTGCAAT 59.931 47.619 3.32 0.00 0.00 3.56
108 109 2.162681 GTTGGCCTGAACTGCAATAGT 58.837 47.619 3.32 0.00 42.89 2.12
126 127 6.363357 GCAATAGTTGAAGAACAATGGACAAC 59.637 38.462 0.00 0.00 40.76 3.32
127 128 7.424803 CAATAGTTGAAGAACAATGGACAACA 58.575 34.615 0.00 0.00 40.76 3.33
129 130 5.835257 AGTTGAAGAACAATGGACAACATG 58.165 37.500 0.00 0.00 40.44 3.21
132 133 4.037803 TGAAGAACAATGGACAACATGGTG 59.962 41.667 9.83 9.83 43.04 4.17
148 149 1.768275 TGGTGACCAGTTCATGTCAGT 59.232 47.619 0.00 0.00 41.82 3.41
161 162 5.276461 TCATGTCAGTTACAGTTCAGTGT 57.724 39.130 0.00 0.00 42.70 3.55
165 166 5.483811 TGTCAGTTACAGTTCAGTGTGAAA 58.516 37.500 0.00 0.00 33.61 2.69
172 173 3.119495 ACAGTTCAGTGTGAAAGCCAAAC 60.119 43.478 0.00 0.00 38.22 2.93
228 229 4.181578 GTTACAGTTGACCACGATGCTAT 58.818 43.478 0.00 0.00 0.00 2.97
278 331 1.620819 TGTCTCACTGAGCTTTCCTCC 59.379 52.381 0.62 0.00 39.98 4.30
287 340 1.133216 GAGCTTTCCTCCGCCATTTTC 59.867 52.381 0.00 0.00 34.35 2.29
300 353 3.374058 CGCCATTTTCTAGTGTTCCGATT 59.626 43.478 0.00 0.00 0.00 3.34
304 357 5.572896 CCATTTTCTAGTGTTCCGATTTTGC 59.427 40.000 0.00 0.00 0.00 3.68
354 411 4.844085 TCTGTCTGGAAAGGAAGTGGAATA 59.156 41.667 0.00 0.00 0.00 1.75
486 556 2.809706 GCCCGCCGTGTCATACTA 59.190 61.111 0.00 0.00 0.00 1.82
578 649 1.404035 GTCACGCATCCCCCAAAATAC 59.596 52.381 0.00 0.00 0.00 1.89
727 798 2.362375 GGATTGCCCTTGCCGGAA 60.362 61.111 5.05 0.00 36.33 4.30
1138 1210 2.957474 TCATCTGGATCATCGGGTACA 58.043 47.619 0.00 0.00 0.00 2.90
1139 1211 2.893489 TCATCTGGATCATCGGGTACAG 59.107 50.000 0.00 0.00 0.00 2.74
1140 1212 2.748209 TCTGGATCATCGGGTACAGA 57.252 50.000 0.00 0.00 36.71 3.41
1141 1213 3.026707 TCTGGATCATCGGGTACAGAA 57.973 47.619 0.00 0.00 35.38 3.02
1200 1276 1.162698 CTGGCTGTTGGTCTGATGTG 58.837 55.000 0.00 0.00 0.00 3.21
1201 1277 0.473755 TGGCTGTTGGTCTGATGTGT 59.526 50.000 0.00 0.00 0.00 3.72
1202 1278 0.877071 GGCTGTTGGTCTGATGTGTG 59.123 55.000 0.00 0.00 0.00 3.82
1203 1279 1.597742 GCTGTTGGTCTGATGTGTGT 58.402 50.000 0.00 0.00 0.00 3.72
1226 1302 2.664851 GCTGGTGCGTGCTGTGTA 60.665 61.111 0.00 0.00 0.00 2.90
1371 1447 0.252057 TGATTCCTCGGTGACCAGGA 60.252 55.000 15.78 15.78 37.00 3.86
1517 1594 2.154462 CTGATGGTTCCTGCTCGTTTT 58.846 47.619 0.00 0.00 0.00 2.43
1526 1603 0.039165 CTGCTCGTTTTCCCCTTTGC 60.039 55.000 0.00 0.00 0.00 3.68
1574 1652 4.495349 CGGATGCTTGATGATTGTGACTTC 60.495 45.833 0.00 0.00 0.00 3.01
1670 1760 2.361119 GCTATGGACACGATGTCTACCA 59.639 50.000 14.77 8.17 46.19 3.25
1782 2230 1.629043 AGAGCAACTCTAACCGGACA 58.371 50.000 9.46 0.00 39.28 4.02
1783 2231 2.180276 AGAGCAACTCTAACCGGACAT 58.820 47.619 9.46 0.00 39.28 3.06
1784 2232 2.166664 AGAGCAACTCTAACCGGACATC 59.833 50.000 9.46 0.00 39.28 3.06
1785 2233 1.135083 AGCAACTCTAACCGGACATCG 60.135 52.381 9.46 0.00 38.88 3.84
1786 2234 1.278238 CAACTCTAACCGGACATCGC 58.722 55.000 9.46 0.00 37.59 4.58
1787 2235 0.892755 AACTCTAACCGGACATCGCA 59.107 50.000 9.46 0.00 37.59 5.10
1788 2236 0.892755 ACTCTAACCGGACATCGCAA 59.107 50.000 9.46 0.00 37.59 4.85
1789 2237 1.274167 ACTCTAACCGGACATCGCAAA 59.726 47.619 9.46 0.00 37.59 3.68
1790 2238 2.093658 ACTCTAACCGGACATCGCAAAT 60.094 45.455 9.46 0.00 37.59 2.32
1791 2239 2.540101 CTCTAACCGGACATCGCAAATC 59.460 50.000 9.46 0.00 37.59 2.17
1792 2240 1.597663 CTAACCGGACATCGCAAATCC 59.402 52.381 9.46 0.00 37.59 3.01
1795 2243 2.715624 GGACATCGCAAATCCGCC 59.284 61.111 0.00 0.00 0.00 6.13
1796 2244 2.715624 GACATCGCAAATCCGCCC 59.284 61.111 0.00 0.00 0.00 6.13
1797 2245 2.828549 ACATCGCAAATCCGCCCC 60.829 61.111 0.00 0.00 0.00 5.80
1798 2246 3.595758 CATCGCAAATCCGCCCCC 61.596 66.667 0.00 0.00 0.00 5.40
1841 2289 3.991683 ACTCTAACCGATCCCCTAAAGT 58.008 45.455 0.00 0.00 0.00 2.66
1851 2299 4.586841 CGATCCCCTAAAGTTCTCTGATCT 59.413 45.833 0.00 0.00 0.00 2.75
1856 2304 5.538433 CCCCTAAAGTTCTCTGATCTCCTAG 59.462 48.000 0.00 0.00 0.00 3.02
1864 2312 6.562608 AGTTCTCTGATCTCCTAGAGGTCTAT 59.437 42.308 6.44 0.00 40.20 1.98
1869 2317 6.672218 TCTGATCTCCTAGAGGTCTATAGAGG 59.328 46.154 1.64 0.00 40.20 3.69
1871 2319 6.672218 TGATCTCCTAGAGGTCTATAGAGGAG 59.328 46.154 20.14 20.14 40.20 3.69
1875 2323 7.455638 TCTCCTAGAGGTCTATAGAGGAGTAAC 59.544 44.444 23.04 5.49 37.91 2.50
1903 2351 4.732065 ACTCCTCTAATCAGTACCTAGCC 58.268 47.826 0.00 0.00 0.00 3.93
1906 2354 2.229302 CTCTAATCAGTACCTAGCCGGC 59.771 54.545 21.89 21.89 35.61 6.13
1919 2367 3.442977 CCTAGCCGGCGTCTAAATATACT 59.557 47.826 23.20 0.08 0.00 2.12
1920 2368 4.082354 CCTAGCCGGCGTCTAAATATACTT 60.082 45.833 23.20 0.00 0.00 2.24
1923 2371 3.427863 GCCGGCGTCTAAATATACTTGAC 59.572 47.826 12.58 0.00 0.00 3.18
1949 2397 1.232621 GCGGCCGAGTAAAAACTGGT 61.233 55.000 33.48 0.00 0.00 4.00
1968 2416 2.815647 CGCCTCTTTCTCCCGCAC 60.816 66.667 0.00 0.00 0.00 5.34
1970 2418 1.003233 GCCTCTTTCTCCCGCACTT 60.003 57.895 0.00 0.00 0.00 3.16
1971 2419 0.249398 GCCTCTTTCTCCCGCACTTA 59.751 55.000 0.00 0.00 0.00 2.24
1973 2421 1.630148 CTCTTTCTCCCGCACTTACG 58.370 55.000 0.00 0.00 0.00 3.18
1990 2438 1.956170 CGGATGATTCCTTCCCGCG 60.956 63.158 0.00 0.00 40.17 6.46
1992 2440 2.203209 ATGATTCCTTCCCGCGGC 60.203 61.111 22.85 3.47 0.00 6.53
2041 2489 0.742505 TATGACTACCTTGTCGCCGG 59.257 55.000 0.00 0.00 39.64 6.13
2068 2516 1.678970 GCCAAGACCCTTTCGCCAT 60.679 57.895 0.00 0.00 0.00 4.40
2073 2521 3.325201 GACCCTTTCGCCATCCCGT 62.325 63.158 0.00 0.00 0.00 5.28
2084 2532 3.650950 ATCCCGTTGGCCACTGCT 61.651 61.111 3.88 0.00 37.74 4.24
2093 2541 2.360350 GCCACTGCTGCCAGCTTA 60.360 61.111 18.96 0.00 42.97 3.09
2102 2550 4.189580 GCCAGCTTATCCCCGCCA 62.190 66.667 0.00 0.00 0.00 5.69
2104 2552 2.443394 CCAGCTTATCCCCGCCAGA 61.443 63.158 0.00 0.00 0.00 3.86
2119 2567 2.597510 AGAAACCAACCCTGCGCC 60.598 61.111 4.18 0.00 0.00 6.53
2148 2596 1.818674 CATCGAAAAAGAGGTTGGGGG 59.181 52.381 0.00 0.00 0.00 5.40
2157 2605 0.256177 GAGGTTGGGGGATCTTCACC 59.744 60.000 0.00 0.00 39.94 4.02
2162 2610 2.499685 GGGGATCTTCACCGGTCG 59.500 66.667 2.59 0.00 25.31 4.79
2171 2619 2.829043 TTCACCGGTCGGAAGCATCG 62.829 60.000 16.90 0.00 38.96 3.84
2225 2675 0.454600 GCCTATCCAACGACTGTCGA 59.545 55.000 33.99 14.13 43.74 4.20
2226 2676 1.067212 GCCTATCCAACGACTGTCGAT 59.933 52.381 33.99 21.63 43.74 3.59
2241 2692 4.129148 GATTGCCCTCCCCCGCTT 62.129 66.667 0.00 0.00 0.00 4.68
2315 2766 2.820037 GGGGCCGCGAAGAAGAAG 60.820 66.667 8.23 0.00 0.00 2.85
2316 2767 2.264794 GGGCCGCGAAGAAGAAGA 59.735 61.111 8.23 0.00 0.00 2.87
2317 2768 1.375523 GGGCCGCGAAGAAGAAGAA 60.376 57.895 8.23 0.00 0.00 2.52
2322 2773 2.031944 GCCGCGAAGAAGAAGAAAAAGT 60.032 45.455 8.23 0.00 0.00 2.66
2323 2774 3.548214 GCCGCGAAGAAGAAGAAAAAGTT 60.548 43.478 8.23 0.00 0.00 2.66
2324 2775 3.968724 CCGCGAAGAAGAAGAAAAAGTTG 59.031 43.478 8.23 0.00 0.00 3.16
2331 2782 2.319844 AGAAGAAAAAGTTGGGGGCAG 58.680 47.619 0.00 0.00 0.00 4.85
2337 2788 0.190815 AAAGTTGGGGGCAGATGGTT 59.809 50.000 0.00 0.00 0.00 3.67
2338 2789 0.251787 AAGTTGGGGGCAGATGGTTC 60.252 55.000 0.00 0.00 0.00 3.62
2339 2790 1.142688 AGTTGGGGGCAGATGGTTCT 61.143 55.000 0.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
50 51 2.686915 GCAGCAAATTATGTCTCCAGCT 59.313 45.455 0.00 0.00 0.00 4.24
54 55 2.360165 CCCAGCAGCAAATTATGTCTCC 59.640 50.000 0.00 0.00 0.00 3.71
58 59 2.381911 CCTCCCAGCAGCAAATTATGT 58.618 47.619 0.00 0.00 0.00 2.29
98 99 5.769662 TCCATTGTTCTTCAACTATTGCAGT 59.230 36.000 0.00 0.00 38.97 4.40
105 106 6.016360 CCATGTTGTCCATTGTTCTTCAACTA 60.016 38.462 0.00 0.00 38.97 2.24
108 109 4.648762 ACCATGTTGTCCATTGTTCTTCAA 59.351 37.500 0.00 0.00 40.53 2.69
109 110 4.037803 CACCATGTTGTCCATTGTTCTTCA 59.962 41.667 0.00 0.00 27.34 3.02
126 127 2.745821 CTGACATGAACTGGTCACCATG 59.254 50.000 0.00 0.00 39.72 3.66
127 128 2.373169 ACTGACATGAACTGGTCACCAT 59.627 45.455 0.00 0.00 39.72 3.55
129 130 2.550830 ACTGACATGAACTGGTCACC 57.449 50.000 0.00 0.00 39.72 4.02
132 133 4.632153 ACTGTAACTGACATGAACTGGTC 58.368 43.478 0.00 0.00 37.45 4.02
148 149 3.879998 TGGCTTTCACACTGAACTGTAA 58.120 40.909 0.00 0.00 35.89 2.41
161 162 3.791973 ATGTGAAACGTTTGGCTTTCA 57.208 38.095 20.10 6.10 42.39 2.69
278 331 2.343101 TCGGAACACTAGAAAATGGCG 58.657 47.619 0.00 0.00 0.00 5.69
287 340 2.420022 CCTGGCAAAATCGGAACACTAG 59.580 50.000 0.00 0.00 0.00 2.57
300 353 1.259609 CTCAAATGCTCCCTGGCAAA 58.740 50.000 0.00 0.00 45.68 3.68
304 357 2.242043 ACAAACTCAAATGCTCCCTGG 58.758 47.619 0.00 0.00 0.00 4.45
354 411 2.486191 GCCAGATCATCCCAACTCGATT 60.486 50.000 0.00 0.00 0.00 3.34
486 556 4.047166 TCTGGGGACATTGGACTAATCAT 58.953 43.478 0.00 0.00 41.51 2.45
714 785 2.362375 GGAATTCCGGCAAGGGCA 60.362 61.111 9.17 0.00 43.71 5.36
727 798 4.845580 CAGGCGGCAGCGAGGAAT 62.846 66.667 13.08 0.00 46.35 3.01
748 819 3.026311 GCAATAATGCGCCGCAGC 61.026 61.111 19.64 11.54 43.65 5.25
831 903 0.185901 CAGGGAGGAGAGGAGAGGAG 59.814 65.000 0.00 0.00 0.00 3.69
832 904 0.253868 TCAGGGAGGAGAGGAGAGGA 60.254 60.000 0.00 0.00 0.00 3.71
833 905 0.106217 GTCAGGGAGGAGAGGAGAGG 60.106 65.000 0.00 0.00 0.00 3.69
834 906 0.465460 CGTCAGGGAGGAGAGGAGAG 60.465 65.000 0.00 0.00 0.00 3.20
835 907 1.610327 CGTCAGGGAGGAGAGGAGA 59.390 63.158 0.00 0.00 0.00 3.71
1138 1210 3.142174 CGAGGAAGCAGAAAAAGGTTCT 58.858 45.455 0.00 0.00 41.76 3.01
1139 1211 2.879026 ACGAGGAAGCAGAAAAAGGTTC 59.121 45.455 0.00 0.00 41.44 3.62
1140 1212 2.932261 ACGAGGAAGCAGAAAAAGGTT 58.068 42.857 0.00 0.00 0.00 3.50
1141 1213 2.640316 ACGAGGAAGCAGAAAAAGGT 57.360 45.000 0.00 0.00 0.00 3.50
1145 1217 1.873591 GCAGAACGAGGAAGCAGAAAA 59.126 47.619 0.00 0.00 0.00 2.29
1146 1218 1.512926 GCAGAACGAGGAAGCAGAAA 58.487 50.000 0.00 0.00 0.00 2.52
1148 1220 4.996976 GCAGAACGAGGAAGCAGA 57.003 55.556 0.00 0.00 0.00 4.26
1168 1241 2.263540 GCCAGGTCGGTAGCGAAA 59.736 61.111 19.94 0.00 36.97 3.46
1171 1244 3.296709 AACAGCCAGGTCGGTAGCG 62.297 63.158 8.29 8.29 36.97 4.26
1174 1247 1.823169 GACCAACAGCCAGGTCGGTA 61.823 60.000 0.00 0.00 44.23 4.02
1224 1300 0.811616 CGAGATGGGCAGCCTGTTAC 60.812 60.000 12.43 0.00 0.00 2.50
1225 1301 1.264749 ACGAGATGGGCAGCCTGTTA 61.265 55.000 12.43 0.00 0.00 2.41
1226 1302 2.270205 CGAGATGGGCAGCCTGTT 59.730 61.111 12.43 0.00 0.00 3.16
1395 1471 1.202817 TGCAACGCCGACTAAGACATA 59.797 47.619 0.00 0.00 0.00 2.29
1399 1475 0.037697 ATGTGCAACGCCGACTAAGA 60.038 50.000 0.00 0.00 42.39 2.10
1503 1580 0.250770 AGGGGAAAACGAGCAGGAAC 60.251 55.000 0.00 0.00 0.00 3.62
1517 1594 0.323629 AACGATCGAAGCAAAGGGGA 59.676 50.000 24.34 0.00 0.00 4.81
1526 1603 2.464865 GGATCACAGGAACGATCGAAG 58.535 52.381 24.34 8.64 39.16 3.79
1670 1760 4.763279 TGATCAACATCAACAAGAGCACAT 59.237 37.500 0.00 0.00 35.99 3.21
1717 1809 2.502213 TGCGATGTCCGGTTGTATAG 57.498 50.000 0.00 0.00 39.04 1.31
1719 1811 2.102070 TTTGCGATGTCCGGTTGTAT 57.898 45.000 0.00 0.00 39.04 2.29
1775 2223 4.218722 GGATTTGCGATGTCCGGT 57.781 55.556 0.00 0.00 39.04 5.28
1779 2227 2.715624 GGGCGGATTTGCGATGTC 59.284 61.111 0.00 0.00 35.06 3.06
1780 2228 2.828549 GGGGCGGATTTGCGATGT 60.829 61.111 0.00 0.00 35.06 3.06
1795 2243 4.445019 GCTCTAAAAGAGTAGGATTGGGGG 60.445 50.000 5.86 0.00 44.12 5.40
1796 2244 4.164221 TGCTCTAAAAGAGTAGGATTGGGG 59.836 45.833 5.86 0.00 44.12 4.96
1797 2245 5.359194 TGCTCTAAAAGAGTAGGATTGGG 57.641 43.478 5.86 0.00 44.12 4.12
1798 2246 6.410540 AGTTGCTCTAAAAGAGTAGGATTGG 58.589 40.000 5.86 0.00 44.12 3.16
1799 2247 7.327214 AGAGTTGCTCTAAAAGAGTAGGATTG 58.673 38.462 5.86 0.00 44.12 2.67
1800 2248 7.489239 AGAGTTGCTCTAAAAGAGTAGGATT 57.511 36.000 5.86 0.00 44.12 3.01
1801 2249 8.596781 TTAGAGTTGCTCTAAAAGAGTAGGAT 57.403 34.615 14.13 0.00 46.14 3.24
1812 2260 3.383825 GGGATCGGTTAGAGTTGCTCTAA 59.616 47.826 12.89 12.89 46.70 2.10
1813 2261 2.957006 GGGATCGGTTAGAGTTGCTCTA 59.043 50.000 2.07 2.07 41.50 2.43
1826 2274 2.766828 CAGAGAACTTTAGGGGATCGGT 59.233 50.000 0.00 0.00 0.00 4.69
1827 2275 3.031736 TCAGAGAACTTTAGGGGATCGG 58.968 50.000 0.00 0.00 0.00 4.18
1841 2289 7.959152 TCTATAGACCTCTAGGAGATCAGAGAA 59.041 40.741 8.92 0.00 40.68 2.87
1851 2299 7.081007 TGTTACTCCTCTATAGACCTCTAGGA 58.919 42.308 2.23 2.30 38.94 2.94
1880 2328 5.512749 CGGCTAGGTACTGATTAGAGGAGTA 60.513 48.000 0.00 0.00 41.52 2.59
1886 2334 2.236766 GCCGGCTAGGTACTGATTAGA 58.763 52.381 22.15 0.00 41.52 2.10
1888 2336 0.956633 CGCCGGCTAGGTACTGATTA 59.043 55.000 26.68 0.00 41.52 1.75
1889 2337 1.041447 ACGCCGGCTAGGTACTGATT 61.041 55.000 26.68 0.00 41.52 2.57
1890 2338 1.453762 GACGCCGGCTAGGTACTGAT 61.454 60.000 26.68 0.00 41.52 2.90
1891 2339 2.044650 ACGCCGGCTAGGTACTGA 60.045 61.111 26.68 0.00 41.52 3.41
1892 2340 0.816825 TAGACGCCGGCTAGGTACTG 60.817 60.000 26.68 8.67 41.52 2.74
1893 2341 0.107017 TTAGACGCCGGCTAGGTACT 60.107 55.000 26.68 15.42 43.70 2.73
1894 2342 0.740737 TTTAGACGCCGGCTAGGTAC 59.259 55.000 26.68 9.23 43.70 3.34
1895 2343 1.696063 ATTTAGACGCCGGCTAGGTA 58.304 50.000 26.68 7.74 43.70 3.08
1898 2346 4.698583 AGTATATTTAGACGCCGGCTAG 57.301 45.455 26.68 12.89 0.00 3.42
1903 2351 4.863391 CGTCAAGTATATTTAGACGCCG 57.137 45.455 14.75 0.00 44.21 6.46
1932 2380 1.162698 GGACCAGTTTTTACTCGGCC 58.837 55.000 0.00 0.00 0.00 6.13
1949 2397 3.771160 GCGGGAGAAAGAGGCGGA 61.771 66.667 0.00 0.00 0.00 5.54
1973 2421 1.598130 CCGCGGGAAGGAATCATCC 60.598 63.158 20.10 0.00 46.98 3.51
1975 2423 2.203209 GCCGCGGGAAGGAATCAT 60.203 61.111 29.38 0.00 0.00 2.45
2017 2465 3.119245 GGCGACAAGGTAGTCATAAGTGA 60.119 47.826 0.00 0.00 38.43 3.41
2022 2470 0.742505 CCGGCGACAAGGTAGTCATA 59.257 55.000 9.30 0.00 38.43 2.15
2029 2477 2.046314 CCATTCCGGCGACAAGGT 60.046 61.111 9.30 0.00 0.00 3.50
2030 2478 2.824041 CCCATTCCGGCGACAAGG 60.824 66.667 9.30 4.83 0.00 3.61
2032 2480 1.969064 CAACCCATTCCGGCGACAA 60.969 57.895 9.30 0.00 0.00 3.18
2033 2481 2.359354 CAACCCATTCCGGCGACA 60.359 61.111 9.30 0.00 0.00 4.35
2068 2516 4.641645 CAGCAGTGGCCAACGGGA 62.642 66.667 7.24 0.00 42.56 5.14
2084 2532 4.189580 GGCGGGGATAAGCTGGCA 62.190 66.667 0.00 0.00 0.00 4.92
2093 2541 1.304134 GTTGGTTTCTGGCGGGGAT 60.304 57.895 0.00 0.00 0.00 3.85
2102 2550 2.597510 GGCGCAGGGTTGGTTTCT 60.598 61.111 10.83 0.00 0.00 2.52
2104 2552 4.887190 ACGGCGCAGGGTTGGTTT 62.887 61.111 13.26 0.00 0.00 3.27
2125 2573 2.295909 CCCAACCTCTTTTTCGATGCAA 59.704 45.455 0.00 0.00 0.00 4.08
2126 2574 1.885887 CCCAACCTCTTTTTCGATGCA 59.114 47.619 0.00 0.00 0.00 3.96
2130 2578 1.142060 TCCCCCAACCTCTTTTTCGA 58.858 50.000 0.00 0.00 0.00 3.71
2133 2581 3.142028 TGAAGATCCCCCAACCTCTTTTT 59.858 43.478 0.00 0.00 0.00 1.94
2148 2596 0.806492 GCTTCCGACCGGTGAAGATC 60.806 60.000 29.41 14.64 40.30 2.75
2171 2619 2.668550 ACTTTCGCGGTTGGAGCC 60.669 61.111 6.13 0.00 0.00 4.70
2210 2660 1.359848 GCAATCGACAGTCGTTGGAT 58.640 50.000 25.91 12.52 41.35 3.41
2212 2662 1.635663 GGGCAATCGACAGTCGTTGG 61.636 60.000 25.91 17.60 41.35 3.77
2214 2664 0.389948 GAGGGCAATCGACAGTCGTT 60.390 55.000 22.16 11.79 41.35 3.85
2225 2675 4.129148 GAAGCGGGGGAGGGCAAT 62.129 66.667 0.00 0.00 0.00 3.56
2315 2766 1.276138 CCATCTGCCCCCAACTTTTTC 59.724 52.381 0.00 0.00 0.00 2.29
2316 2767 1.351076 CCATCTGCCCCCAACTTTTT 58.649 50.000 0.00 0.00 0.00 1.94
2317 2768 0.190815 ACCATCTGCCCCCAACTTTT 59.809 50.000 0.00 0.00 0.00 2.27
2322 2773 0.486879 AAAGAACCATCTGCCCCCAA 59.513 50.000 0.00 0.00 35.59 4.12
2323 2774 0.486879 AAAAGAACCATCTGCCCCCA 59.513 50.000 0.00 0.00 35.59 4.96
2324 2775 1.644509 AAAAAGAACCATCTGCCCCC 58.355 50.000 0.00 0.00 35.59 5.40


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

AutoCloner maintained by Alex Coulton.