Multiple sequence alignment - TraesCS4B01G183200

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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 TraesCS4B01G183200 chr4B 100.000 2264 0 0 1 2264 402787203 402784940 0.000000e+00 4181
1 TraesCS4B01G183200 chr4B 96.517 1780 53 3 1 1780 576450752 576452522 0.000000e+00 2935
2 TraesCS4B01G183200 chr4B 85.492 386 40 11 1733 2104 649624866 649625249 2.730000e-104 388
3 TraesCS4B01G183200 chr4B 97.647 170 3 1 2095 2264 580675062 580675230 7.910000e-75 291
4 TraesCS4B01G183200 chr7B 96.440 2107 48 10 1 2104 687040622 687042704 0.000000e+00 3450
5 TraesCS4B01G183200 chr7B 97.429 1750 45 0 1 1750 235458094 235456345 0.000000e+00 2983
6 TraesCS4B01G183200 chr1B 96.440 2107 47 5 1 2103 38183391 38185473 0.000000e+00 3450
7 TraesCS4B01G183200 chr5B 98.221 1967 35 0 1 1967 464634106 464636072 0.000000e+00 3439
8 TraesCS4B01G183200 chr5B 97.544 1751 41 2 1 1750 530940831 530939082 0.000000e+00 2994
9 TraesCS4B01G183200 chr5B 86.305 387 35 12 1733 2104 433000814 433000431 2.710000e-109 405
10 TraesCS4B01G183200 chr5B 85.788 387 37 12 1733 2104 471293235 471292852 5.860000e-106 394
11 TraesCS4B01G183200 chr3B 97.712 1967 44 1 1 1967 16124436 16122471 0.000000e+00 3382
12 TraesCS4B01G183200 chr2B 97.509 1967 44 2 1 1967 563917140 563915179 0.000000e+00 3356
13 TraesCS4B01G183200 chr2B 96.364 1980 51 5 1 1967 42193403 42195374 0.000000e+00 3238
14 TraesCS4B01G183200 chr2B 99.387 163 1 0 2102 2264 18784726 18784564 1.700000e-76 296
15 TraesCS4B01G183200 chrUn 86.305 387 35 12 1733 2104 437460742 437461125 2.710000e-109 405
16 TraesCS4B01G183200 chrUn 85.788 387 36 14 1733 2104 416567433 416567051 2.110000e-105 392
17 TraesCS4B01G183200 chr2A 86.305 387 35 12 1733 2104 148613586 148613203 2.710000e-109 405
18 TraesCS4B01G183200 chr2A 85.788 387 37 13 1733 2104 728935370 728935753 5.860000e-106 394
19 TraesCS4B01G183200 chr7A 85.788 387 36 14 1733 2104 16006710 16007092 2.110000e-105 392
20 TraesCS4B01G183200 chr6A 99.387 163 1 0 2102 2264 57996509 57996347 1.700000e-76 296
21 TraesCS4B01G183200 chr6A 97.110 173 4 1 2092 2264 321380417 321380588 7.910000e-75 291
22 TraesCS4B01G183200 chr3A 99.387 163 1 0 2102 2264 234356400 234356238 1.700000e-76 296
23 TraesCS4B01G183200 chr3A 96.571 175 6 0 2090 2264 395664805 395664631 7.910000e-75 291
24 TraesCS4B01G183200 chr3A 95.531 179 6 1 2088 2264 417247121 417247299 3.680000e-73 285
25 TraesCS4B01G183200 chr1A 99.387 163 1 0 2102 2264 557177787 557177625 1.700000e-76 296
26 TraesCS4B01G183200 chr6B 97.633 169 3 1 2096 2264 277064028 277063861 2.850000e-74 289


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 TraesCS4B01G183200 chr4B 402784940 402787203 2263 True 4181 4181 100.000 1 2264 1 chr4B.!!$R1 2263
1 TraesCS4B01G183200 chr4B 576450752 576452522 1770 False 2935 2935 96.517 1 1780 1 chr4B.!!$F1 1779
2 TraesCS4B01G183200 chr7B 687040622 687042704 2082 False 3450 3450 96.440 1 2104 1 chr7B.!!$F1 2103
3 TraesCS4B01G183200 chr7B 235456345 235458094 1749 True 2983 2983 97.429 1 1750 1 chr7B.!!$R1 1749
4 TraesCS4B01G183200 chr1B 38183391 38185473 2082 False 3450 3450 96.440 1 2103 1 chr1B.!!$F1 2102
5 TraesCS4B01G183200 chr5B 464634106 464636072 1966 False 3439 3439 98.221 1 1967 1 chr5B.!!$F1 1966
6 TraesCS4B01G183200 chr5B 530939082 530940831 1749 True 2994 2994 97.544 1 1750 1 chr5B.!!$R3 1749
7 TraesCS4B01G183200 chr3B 16122471 16124436 1965 True 3382 3382 97.712 1 1967 1 chr3B.!!$R1 1966
8 TraesCS4B01G183200 chr2B 563915179 563917140 1961 True 3356 3356 97.509 1 1967 1 chr2B.!!$R2 1966
9 TraesCS4B01G183200 chr2B 42193403 42195374 1971 False 3238 3238 96.364 1 1967 1 chr2B.!!$F1 1966

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
713 714 0.737715 GGTCGAGCTAGCACAAGTGG 60.738 60.0 18.83 0.0 0.0 4.0 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2181 2199 0.037303 TCGTAGGTCGACTGGAAGGT 59.963 55.0 16.46 0.0 44.01 3.5 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
266 267 3.965888 GCCCTCATATTAGGCCAGG 57.034 57.895 5.01 0.00 41.00 4.45
369 370 4.588528 ACTGGCATGAAACAATTTGGTAGT 59.411 37.500 0.00 0.00 0.00 2.73
713 714 0.737715 GGTCGAGCTAGCACAAGTGG 60.738 60.000 18.83 0.00 0.00 4.00
851 852 6.369890 CGTAGAGGAATGGTTGATAATGGATG 59.630 42.308 0.00 0.00 0.00 3.51
1141 1142 1.337703 GGTGTGCTGATGTTTGCAAGA 59.662 47.619 0.00 0.00 41.10 3.02
1196 1197 3.813724 ACAGAAGGTAGAAGGTTTTTCGC 59.186 43.478 0.00 0.00 0.00 4.70
1348 1349 0.104409 AGTCCCCTCCTCCACTTTGT 60.104 55.000 0.00 0.00 0.00 2.83
1488 1489 1.587043 CGTCGTGAGAAGGAGGCTCA 61.587 60.000 17.69 0.00 45.01 4.26
1781 1782 6.366061 TGTGATGAACTTGTAATTCGAGACTG 59.634 38.462 0.00 0.00 0.00 3.51
1918 1933 5.220854 TGCTAAGCAAAAAGACAGAAGTGTC 60.221 40.000 0.00 0.00 44.06 3.67
1940 1955 1.202405 GCAAAAACACCAGGTCCACAG 60.202 52.381 0.00 0.00 0.00 3.66
1979 1997 1.961180 GCGTCTGCCTACACCCAGAT 61.961 60.000 0.00 0.00 39.95 2.90
2009 2027 0.883833 CTGGCGTCTGGCTCATTTTT 59.116 50.000 0.00 0.00 42.94 1.94
2070 2088 2.113139 CACCCAGACGCCAAGGTT 59.887 61.111 0.00 0.00 0.00 3.50
2072 2090 2.429930 CCCAGACGCCAAGGTTCA 59.570 61.111 0.00 0.00 0.00 3.18
2104 2122 3.941188 CACACCCAGACGCCAGGT 61.941 66.667 0.00 0.00 0.00 4.00
2107 2125 2.607750 ACCCAGACGCCAGGTGAT 60.608 61.111 7.13 0.00 30.97 3.06
2108 2126 2.124983 CCCAGACGCCAGGTGATG 60.125 66.667 7.13 5.02 0.00 3.07
2120 2138 3.185246 CAGGTGATGGAGTCATGTACC 57.815 52.381 0.00 0.00 39.48 3.34
2121 2139 2.768527 CAGGTGATGGAGTCATGTACCT 59.231 50.000 0.00 0.00 43.02 3.08
2122 2140 3.960755 CAGGTGATGGAGTCATGTACCTA 59.039 47.826 7.72 0.00 41.63 3.08
2123 2141 4.038522 CAGGTGATGGAGTCATGTACCTAG 59.961 50.000 7.72 0.00 41.63 3.02
2124 2142 3.322254 GGTGATGGAGTCATGTACCTAGG 59.678 52.174 7.41 7.41 39.48 3.02
2125 2143 3.322254 GTGATGGAGTCATGTACCTAGGG 59.678 52.174 14.81 0.00 39.48 3.53
2126 2144 3.052109 TGATGGAGTCATGTACCTAGGGT 60.052 47.826 14.81 1.17 35.06 4.34
2127 2145 4.169264 TGATGGAGTCATGTACCTAGGGTA 59.831 45.833 14.81 0.12 33.54 3.69
2128 2146 4.180377 TGGAGTCATGTACCTAGGGTAG 57.820 50.000 14.81 0.00 39.02 3.18
2129 2147 4.449376 ATGGAGTCATGTACCTAGGGTAGG 60.449 50.000 14.81 0.44 39.02 3.18
2130 2148 7.480107 ATGGAGTCATGTACCTAGGGTAGGG 62.480 52.000 14.81 0.00 39.02 3.53
2138 2156 1.777941 CCTAGGGTAGGGTCACAGAC 58.222 60.000 0.00 0.00 42.42 3.51
2152 2170 5.251601 GTCACAGACCTGATCTAAGTACC 57.748 47.826 3.76 0.00 35.15 3.34
2153 2171 4.098196 GTCACAGACCTGATCTAAGTACCC 59.902 50.000 3.76 0.00 35.15 3.69
2154 2172 4.017407 TCACAGACCTGATCTAAGTACCCT 60.017 45.833 3.76 0.00 35.15 4.34
2155 2173 4.098654 CACAGACCTGATCTAAGTACCCTG 59.901 50.000 3.76 0.00 35.15 4.45
2156 2174 3.068873 CAGACCTGATCTAAGTACCCTGC 59.931 52.174 0.00 0.00 35.15 4.85
2157 2175 2.365941 GACCTGATCTAAGTACCCTGCC 59.634 54.545 0.00 0.00 0.00 4.85
2158 2176 1.694696 CCTGATCTAAGTACCCTGCCC 59.305 57.143 0.00 0.00 0.00 5.36
2159 2177 2.398588 CTGATCTAAGTACCCTGCCCA 58.601 52.381 0.00 0.00 0.00 5.36
2160 2178 2.771943 CTGATCTAAGTACCCTGCCCAA 59.228 50.000 0.00 0.00 0.00 4.12
2161 2179 2.771943 TGATCTAAGTACCCTGCCCAAG 59.228 50.000 0.00 0.00 0.00 3.61
2162 2180 1.580059 TCTAAGTACCCTGCCCAAGG 58.420 55.000 0.00 0.00 46.94 3.61
2181 2199 4.338795 AGGACACCCTTAGAAGAGATCA 57.661 45.455 0.00 0.00 40.78 2.92
2182 2200 4.027437 AGGACACCCTTAGAAGAGATCAC 58.973 47.826 0.00 0.00 40.78 3.06
2183 2201 3.133183 GGACACCCTTAGAAGAGATCACC 59.867 52.174 0.00 0.00 0.00 4.02
2184 2202 4.027437 GACACCCTTAGAAGAGATCACCT 58.973 47.826 0.00 0.00 0.00 4.00
2185 2203 4.430441 ACACCCTTAGAAGAGATCACCTT 58.570 43.478 0.00 0.00 0.00 3.50
2186 2204 4.468153 ACACCCTTAGAAGAGATCACCTTC 59.532 45.833 15.84 15.84 40.10 3.46
2187 2205 4.034410 ACCCTTAGAAGAGATCACCTTCC 58.966 47.826 18.47 6.69 40.54 3.46
2188 2206 4.033709 CCCTTAGAAGAGATCACCTTCCA 58.966 47.826 18.47 7.70 40.54 3.53
2189 2207 4.100808 CCCTTAGAAGAGATCACCTTCCAG 59.899 50.000 18.47 15.37 40.54 3.86
2190 2208 4.714308 CCTTAGAAGAGATCACCTTCCAGT 59.286 45.833 18.47 8.09 40.54 4.00
2191 2209 5.163457 CCTTAGAAGAGATCACCTTCCAGTC 60.163 48.000 18.47 1.68 40.54 3.51
2192 2210 2.757868 AGAAGAGATCACCTTCCAGTCG 59.242 50.000 18.47 0.00 40.54 4.18
2193 2211 2.516227 AGAGATCACCTTCCAGTCGA 57.484 50.000 0.00 0.00 0.00 4.20
2194 2212 2.096248 AGAGATCACCTTCCAGTCGAC 58.904 52.381 7.70 7.70 0.00 4.20
2195 2213 1.135333 GAGATCACCTTCCAGTCGACC 59.865 57.143 13.01 0.00 0.00 4.79
2196 2214 1.187087 GATCACCTTCCAGTCGACCT 58.813 55.000 13.01 0.00 0.00 3.85
2197 2215 2.025226 AGATCACCTTCCAGTCGACCTA 60.025 50.000 13.01 0.00 0.00 3.08
2198 2216 1.542492 TCACCTTCCAGTCGACCTAC 58.458 55.000 13.01 0.00 0.00 3.18
2199 2217 0.170561 CACCTTCCAGTCGACCTACG 59.829 60.000 13.01 0.00 44.09 3.51
2218 2236 2.949826 AGGGACTCACTCGACTGAC 58.050 57.895 0.00 0.00 0.00 3.51
2219 2237 0.402504 AGGGACTCACTCGACTGACT 59.597 55.000 0.00 0.00 0.00 3.41
2220 2238 1.202952 AGGGACTCACTCGACTGACTT 60.203 52.381 0.00 0.00 0.00 3.01
2221 2239 1.068194 GGGACTCACTCGACTGACTTG 60.068 57.143 0.00 0.00 0.00 3.16
2222 2240 1.880675 GGACTCACTCGACTGACTTGA 59.119 52.381 0.00 0.00 0.00 3.02
2223 2241 2.293677 GGACTCACTCGACTGACTTGAA 59.706 50.000 0.00 0.00 0.00 2.69
2224 2242 3.560503 GACTCACTCGACTGACTTGAAG 58.439 50.000 0.00 0.00 0.00 3.02
2225 2243 2.294791 ACTCACTCGACTGACTTGAAGG 59.705 50.000 0.00 0.00 0.00 3.46
2226 2244 2.554462 CTCACTCGACTGACTTGAAGGA 59.446 50.000 0.00 0.00 0.00 3.36
2227 2245 2.293677 TCACTCGACTGACTTGAAGGAC 59.706 50.000 0.00 0.00 0.00 3.85
2228 2246 2.294791 CACTCGACTGACTTGAAGGACT 59.705 50.000 0.00 0.00 0.00 3.85
2229 2247 2.554893 ACTCGACTGACTTGAAGGACTC 59.445 50.000 0.00 0.00 0.00 3.36
2230 2248 1.535896 TCGACTGACTTGAAGGACTCG 59.464 52.381 0.00 0.00 0.00 4.18
2231 2249 1.535896 CGACTGACTTGAAGGACTCGA 59.464 52.381 0.00 0.00 0.00 4.04
2232 2250 2.666069 CGACTGACTTGAAGGACTCGAC 60.666 54.545 0.00 0.00 0.00 4.20
2233 2251 1.614413 ACTGACTTGAAGGACTCGACC 59.386 52.381 0.00 0.00 0.00 4.79
2234 2252 1.613925 CTGACTTGAAGGACTCGACCA 59.386 52.381 0.00 0.00 0.00 4.02
2235 2253 1.340248 TGACTTGAAGGACTCGACCAC 59.660 52.381 0.00 0.00 0.00 4.16
2236 2254 0.314302 ACTTGAAGGACTCGACCACG 59.686 55.000 0.00 0.00 41.26 4.94
2237 2255 0.596577 CTTGAAGGACTCGACCACGA 59.403 55.000 0.00 0.00 46.56 4.35
2246 2264 1.954528 TCGACCACGAAGACTCACC 59.045 57.895 0.00 0.00 45.74 4.02
2247 2265 1.080705 CGACCACGAAGACTCACCC 60.081 63.158 0.00 0.00 42.66 4.61
2248 2266 1.080705 GACCACGAAGACTCACCCG 60.081 63.158 0.00 0.00 0.00 5.28
2249 2267 1.521450 GACCACGAAGACTCACCCGA 61.521 60.000 0.00 0.00 0.00 5.14
2250 2268 1.080705 CCACGAAGACTCACCCGAC 60.081 63.158 0.00 0.00 0.00 4.79
2251 2269 1.080705 CACGAAGACTCACCCGACC 60.081 63.158 0.00 0.00 0.00 4.79
2252 2270 1.529948 ACGAAGACTCACCCGACCA 60.530 57.895 0.00 0.00 0.00 4.02
2253 2271 1.080705 CGAAGACTCACCCGACCAC 60.081 63.158 0.00 0.00 0.00 4.16
2254 2272 1.292541 GAAGACTCACCCGACCACC 59.707 63.158 0.00 0.00 0.00 4.61
2255 2273 1.458777 AAGACTCACCCGACCACCA 60.459 57.895 0.00 0.00 0.00 4.17
2256 2274 1.472662 AAGACTCACCCGACCACCAG 61.473 60.000 0.00 0.00 0.00 4.00
2257 2275 1.906824 GACTCACCCGACCACCAGA 60.907 63.158 0.00 0.00 0.00 3.86
2258 2276 1.458777 ACTCACCCGACCACCAGAA 60.459 57.895 0.00 0.00 0.00 3.02
2259 2277 1.293498 CTCACCCGACCACCAGAAG 59.707 63.158 0.00 0.00 0.00 2.85
2260 2278 2.172483 CTCACCCGACCACCAGAAGG 62.172 65.000 0.00 0.00 42.21 3.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
266 267 0.322008 CTCCACCTTCAGAACAGGGC 60.322 60.000 0.00 0.00 35.46 5.19
271 272 2.610727 CCTTCGTCTCCACCTTCAGAAC 60.611 54.545 0.00 0.00 0.00 3.01
713 714 0.966370 AGCTCGACCACCACCTCTAC 60.966 60.000 0.00 0.00 0.00 2.59
1141 1142 0.321671 CGGTCAGTGGACACCTTCAT 59.678 55.000 0.00 0.00 46.17 2.57
1196 1197 1.398041 CATGTGCATAGTTGGGACACG 59.602 52.381 0.00 0.00 39.44 4.49
1399 1400 2.587956 CGTAACCAATCTCGACGTTGA 58.412 47.619 5.16 5.16 0.00 3.18
1488 1489 1.436600 CTCACGCTTCTTGTGCTCAT 58.563 50.000 0.00 0.00 37.26 2.90
1494 1495 1.964223 TCTCTTCCTCACGCTTCTTGT 59.036 47.619 0.00 0.00 0.00 3.16
1918 1933 1.110442 TGGACCTGGTGTTTTTGCAG 58.890 50.000 2.82 0.00 0.00 4.41
1940 1955 3.628646 ATGGACCTTGGCGTCTGGC 62.629 63.158 0.00 0.00 42.51 4.85
2009 2027 3.443925 CTGGTCTCCTGCGCGAGA 61.444 66.667 12.10 10.50 36.53 4.04
2085 2103 4.704833 CTGGCGTCTGGGTGTGGG 62.705 72.222 0.00 0.00 0.00 4.61
2104 2122 3.052109 ACCCTAGGTACATGACTCCATCA 60.052 47.826 8.29 0.00 36.34 3.07
2105 2123 3.577919 ACCCTAGGTACATGACTCCATC 58.422 50.000 8.29 0.00 32.11 3.51
2106 2124 3.708236 ACCCTAGGTACATGACTCCAT 57.292 47.619 8.29 0.00 32.11 3.41
2107 2125 3.117246 CCTACCCTAGGTACATGACTCCA 60.117 52.174 8.29 0.00 41.18 3.86
2108 2126 3.498334 CCTACCCTAGGTACATGACTCC 58.502 54.545 8.29 0.00 41.18 3.85
2109 2127 3.117208 ACCCTACCCTAGGTACATGACTC 60.117 52.174 8.29 0.00 44.73 3.36
2110 2128 2.863879 ACCCTACCCTAGGTACATGACT 59.136 50.000 8.29 0.00 44.73 3.41
2111 2129 3.229293 GACCCTACCCTAGGTACATGAC 58.771 54.545 8.29 0.00 44.73 3.06
2112 2130 2.860679 TGACCCTACCCTAGGTACATGA 59.139 50.000 8.29 0.00 44.73 3.07
2113 2131 2.963782 GTGACCCTACCCTAGGTACATG 59.036 54.545 8.29 0.00 44.73 3.21
2114 2132 2.588720 TGTGACCCTACCCTAGGTACAT 59.411 50.000 8.29 0.00 44.73 2.29
2115 2133 2.002315 TGTGACCCTACCCTAGGTACA 58.998 52.381 8.29 0.00 44.73 2.90
2116 2134 2.243221 TCTGTGACCCTACCCTAGGTAC 59.757 54.545 8.29 0.00 44.73 3.34
2117 2135 2.243221 GTCTGTGACCCTACCCTAGGTA 59.757 54.545 8.29 0.00 44.73 3.08
2118 2136 1.006878 GTCTGTGACCCTACCCTAGGT 59.993 57.143 8.29 0.00 44.73 3.08
2119 2137 1.688627 GGTCTGTGACCCTACCCTAGG 60.689 61.905 0.06 0.06 46.19 3.02
2120 2138 1.777941 GGTCTGTGACCCTACCCTAG 58.222 60.000 5.49 0.00 46.19 3.02
2122 2140 4.890207 GGTCTGTGACCCTACCCT 57.110 61.111 5.49 0.00 46.19 4.34
2130 2148 4.098196 GGGTACTTAGATCAGGTCTGTGAC 59.902 50.000 0.00 0.00 37.83 3.67
2131 2149 4.017407 AGGGTACTTAGATCAGGTCTGTGA 60.017 45.833 0.00 0.00 37.83 3.58
2132 2150 4.098654 CAGGGTACTTAGATCAGGTCTGTG 59.901 50.000 0.00 0.00 37.83 3.66
2133 2151 4.282496 CAGGGTACTTAGATCAGGTCTGT 58.718 47.826 0.00 0.00 37.83 3.41
2134 2152 3.068873 GCAGGGTACTTAGATCAGGTCTG 59.931 52.174 0.00 0.00 37.83 3.51
2135 2153 3.301274 GCAGGGTACTTAGATCAGGTCT 58.699 50.000 0.00 0.00 41.11 3.85
2136 2154 2.365941 GGCAGGGTACTTAGATCAGGTC 59.634 54.545 0.00 0.00 0.00 3.85
2137 2155 2.399580 GGCAGGGTACTTAGATCAGGT 58.600 52.381 0.00 0.00 0.00 4.00
2138 2156 1.694696 GGGCAGGGTACTTAGATCAGG 59.305 57.143 0.00 0.00 0.00 3.86
2139 2157 2.398588 TGGGCAGGGTACTTAGATCAG 58.601 52.381 0.00 0.00 0.00 2.90
2140 2158 2.561209 TGGGCAGGGTACTTAGATCA 57.439 50.000 0.00 0.00 0.00 2.92
2141 2159 2.104963 CCTTGGGCAGGGTACTTAGATC 59.895 54.545 0.00 0.00 39.39 2.75
2142 2160 2.127708 CCTTGGGCAGGGTACTTAGAT 58.872 52.381 0.00 0.00 39.39 1.98
2143 2161 1.079825 TCCTTGGGCAGGGTACTTAGA 59.920 52.381 0.00 0.00 44.12 2.10
2144 2162 1.209747 GTCCTTGGGCAGGGTACTTAG 59.790 57.143 0.00 0.00 44.12 2.18
2145 2163 1.282382 GTCCTTGGGCAGGGTACTTA 58.718 55.000 0.00 0.00 44.12 2.24
2146 2164 0.770557 TGTCCTTGGGCAGGGTACTT 60.771 55.000 0.00 0.00 44.12 2.24
2147 2165 1.151899 TGTCCTTGGGCAGGGTACT 60.152 57.895 0.00 0.00 44.12 2.73
2148 2166 1.002502 GTGTCCTTGGGCAGGGTAC 60.003 63.158 0.00 0.00 44.12 3.34
2149 2167 2.228480 GGTGTCCTTGGGCAGGGTA 61.228 63.158 0.00 0.00 44.12 3.69
2150 2168 3.580319 GGTGTCCTTGGGCAGGGT 61.580 66.667 0.00 0.00 44.12 4.34
2151 2169 4.366684 GGGTGTCCTTGGGCAGGG 62.367 72.222 0.00 0.00 44.12 4.45
2152 2170 3.260100 AGGGTGTCCTTGGGCAGG 61.260 66.667 0.00 0.00 41.56 4.85
2161 2179 3.133183 GGTGATCTCTTCTAAGGGTGTCC 59.867 52.174 0.00 0.00 0.00 4.02
2162 2180 4.027437 AGGTGATCTCTTCTAAGGGTGTC 58.973 47.826 0.00 0.00 0.00 3.67
2163 2181 4.067944 AGGTGATCTCTTCTAAGGGTGT 57.932 45.455 0.00 0.00 0.00 4.16
2164 2182 4.141824 GGAAGGTGATCTCTTCTAAGGGTG 60.142 50.000 20.56 0.00 40.17 4.61
2165 2183 4.034410 GGAAGGTGATCTCTTCTAAGGGT 58.966 47.826 20.56 0.00 40.17 4.34
2166 2184 4.033709 TGGAAGGTGATCTCTTCTAAGGG 58.966 47.826 20.56 0.00 40.17 3.95
2167 2185 4.714308 ACTGGAAGGTGATCTCTTCTAAGG 59.286 45.833 20.56 11.63 40.17 2.69
2168 2186 5.449862 CGACTGGAAGGTGATCTCTTCTAAG 60.450 48.000 20.56 19.44 40.17 2.18
2169 2187 4.399618 CGACTGGAAGGTGATCTCTTCTAA 59.600 45.833 20.56 12.86 40.17 2.10
2170 2188 3.948473 CGACTGGAAGGTGATCTCTTCTA 59.052 47.826 20.56 16.48 40.17 2.10
2171 2189 2.757868 CGACTGGAAGGTGATCTCTTCT 59.242 50.000 20.56 8.41 40.17 2.85
2172 2190 2.755655 TCGACTGGAAGGTGATCTCTTC 59.244 50.000 16.08 16.08 39.30 2.87
2173 2191 2.494073 GTCGACTGGAAGGTGATCTCTT 59.506 50.000 8.70 0.00 39.30 2.85
2174 2192 2.096248 GTCGACTGGAAGGTGATCTCT 58.904 52.381 8.70 0.00 39.30 3.10
2175 2193 1.135333 GGTCGACTGGAAGGTGATCTC 59.865 57.143 16.46 0.00 39.30 2.75
2176 2194 1.187087 GGTCGACTGGAAGGTGATCT 58.813 55.000 16.46 0.00 39.30 2.75
2177 2195 1.187087 AGGTCGACTGGAAGGTGATC 58.813 55.000 16.46 0.00 39.30 2.92
2178 2196 2.100989 GTAGGTCGACTGGAAGGTGAT 58.899 52.381 16.46 0.00 39.30 3.06
2179 2197 1.542492 GTAGGTCGACTGGAAGGTGA 58.458 55.000 16.46 0.00 39.30 4.02
2180 2198 0.170561 CGTAGGTCGACTGGAAGGTG 59.829 60.000 16.46 0.00 42.86 4.00
2181 2199 0.037303 TCGTAGGTCGACTGGAAGGT 59.963 55.000 16.46 0.00 44.01 3.50
2182 2200 0.733729 CTCGTAGGTCGACTGGAAGG 59.266 60.000 16.46 4.67 44.01 3.46
2183 2201 0.733729 CCTCGTAGGTCGACTGGAAG 59.266 60.000 16.46 6.98 44.01 3.46
2184 2202 0.679002 CCCTCGTAGGTCGACTGGAA 60.679 60.000 16.46 0.00 44.01 3.53
2185 2203 1.077930 CCCTCGTAGGTCGACTGGA 60.078 63.158 16.46 6.84 44.01 3.86
2186 2204 1.077930 TCCCTCGTAGGTCGACTGG 60.078 63.158 16.46 8.13 44.01 4.00
2187 2205 0.392729 AGTCCCTCGTAGGTCGACTG 60.393 60.000 16.46 3.50 44.01 3.51
2188 2206 0.107752 GAGTCCCTCGTAGGTCGACT 60.108 60.000 16.46 4.12 44.01 4.18
2189 2207 0.392193 TGAGTCCCTCGTAGGTCGAC 60.392 60.000 7.13 7.13 44.01 4.20
2190 2208 0.392193 GTGAGTCCCTCGTAGGTCGA 60.392 60.000 0.00 0.00 46.83 4.20
2191 2209 0.392729 AGTGAGTCCCTCGTAGGTCG 60.393 60.000 0.00 0.00 41.41 4.79
2192 2210 1.381522 GAGTGAGTCCCTCGTAGGTC 58.618 60.000 0.00 0.00 31.93 3.85
2193 2211 0.392729 CGAGTGAGTCCCTCGTAGGT 60.393 60.000 15.86 0.00 45.09 3.08
2194 2212 2.395651 CGAGTGAGTCCCTCGTAGG 58.604 63.158 15.86 0.00 45.09 3.18
2199 2217 0.806241 GTCAGTCGAGTGAGTCCCTC 59.194 60.000 23.08 6.85 0.00 4.30
2200 2218 0.402504 AGTCAGTCGAGTGAGTCCCT 59.597 55.000 23.08 13.50 0.00 4.20
2201 2219 1.068194 CAAGTCAGTCGAGTGAGTCCC 60.068 57.143 26.73 14.30 29.37 4.46
2202 2220 1.880675 TCAAGTCAGTCGAGTGAGTCC 59.119 52.381 26.73 14.63 29.37 3.85
2203 2221 3.560503 CTTCAAGTCAGTCGAGTGAGTC 58.439 50.000 26.73 15.28 29.37 3.36
2204 2222 2.294791 CCTTCAAGTCAGTCGAGTGAGT 59.705 50.000 23.08 22.67 0.00 3.41
2205 2223 2.554462 TCCTTCAAGTCAGTCGAGTGAG 59.446 50.000 23.08 11.94 0.00 3.51
2206 2224 2.293677 GTCCTTCAAGTCAGTCGAGTGA 59.706 50.000 18.99 18.99 0.00 3.41
2207 2225 2.294791 AGTCCTTCAAGTCAGTCGAGTG 59.705 50.000 14.33 14.33 0.00 3.51
2208 2226 2.554893 GAGTCCTTCAAGTCAGTCGAGT 59.445 50.000 0.00 0.00 0.00 4.18
2209 2227 2.413502 CGAGTCCTTCAAGTCAGTCGAG 60.414 54.545 5.29 0.00 34.28 4.04
2210 2228 1.535896 CGAGTCCTTCAAGTCAGTCGA 59.464 52.381 5.29 0.00 34.28 4.20
2211 2229 1.535896 TCGAGTCCTTCAAGTCAGTCG 59.464 52.381 4.97 4.97 33.79 4.18
2212 2230 2.351932 GGTCGAGTCCTTCAAGTCAGTC 60.352 54.545 0.00 0.00 0.00 3.51
2213 2231 1.614413 GGTCGAGTCCTTCAAGTCAGT 59.386 52.381 0.00 0.00 0.00 3.41
2214 2232 1.613925 TGGTCGAGTCCTTCAAGTCAG 59.386 52.381 0.00 0.00 0.00 3.51
2215 2233 1.340248 GTGGTCGAGTCCTTCAAGTCA 59.660 52.381 0.00 0.00 0.00 3.41
2216 2234 1.666311 CGTGGTCGAGTCCTTCAAGTC 60.666 57.143 0.00 0.00 39.71 3.01
2217 2235 0.314302 CGTGGTCGAGTCCTTCAAGT 59.686 55.000 0.00 0.00 39.71 3.16
2218 2236 0.596577 TCGTGGTCGAGTCCTTCAAG 59.403 55.000 0.00 0.00 41.35 3.02
2219 2237 1.000607 CTTCGTGGTCGAGTCCTTCAA 60.001 52.381 0.00 0.00 46.81 2.69
2220 2238 0.596577 CTTCGTGGTCGAGTCCTTCA 59.403 55.000 0.00 0.00 46.81 3.02
2221 2239 0.879765 TCTTCGTGGTCGAGTCCTTC 59.120 55.000 0.00 0.00 46.81 3.46
2222 2240 0.597072 GTCTTCGTGGTCGAGTCCTT 59.403 55.000 0.00 0.00 46.81 3.36
2223 2241 0.250814 AGTCTTCGTGGTCGAGTCCT 60.251 55.000 0.00 0.00 46.81 3.85
2224 2242 0.168568 GAGTCTTCGTGGTCGAGTCC 59.831 60.000 0.00 0.00 46.81 3.85
2225 2243 0.873054 TGAGTCTTCGTGGTCGAGTC 59.127 55.000 0.00 0.00 46.81 3.36
2226 2244 0.592148 GTGAGTCTTCGTGGTCGAGT 59.408 55.000 0.00 0.00 46.81 4.18
2227 2245 0.109689 GGTGAGTCTTCGTGGTCGAG 60.110 60.000 0.00 0.00 46.81 4.04
2228 2246 1.521450 GGGTGAGTCTTCGTGGTCGA 61.521 60.000 0.00 0.00 44.66 4.20
2229 2247 1.080705 GGGTGAGTCTTCGTGGTCG 60.081 63.158 0.00 0.00 38.55 4.79
2230 2248 1.080705 CGGGTGAGTCTTCGTGGTC 60.081 63.158 0.00 0.00 0.00 4.02
2231 2249 1.529948 TCGGGTGAGTCTTCGTGGT 60.530 57.895 0.00 0.00 0.00 4.16
2232 2250 1.080705 GTCGGGTGAGTCTTCGTGG 60.081 63.158 0.00 0.00 0.00 4.94
2233 2251 1.080705 GGTCGGGTGAGTCTTCGTG 60.081 63.158 0.00 0.00 0.00 4.35
2234 2252 1.529948 TGGTCGGGTGAGTCTTCGT 60.530 57.895 0.00 0.00 0.00 3.85
2235 2253 1.080705 GTGGTCGGGTGAGTCTTCG 60.081 63.158 0.00 0.00 0.00 3.79
2236 2254 1.292541 GGTGGTCGGGTGAGTCTTC 59.707 63.158 0.00 0.00 0.00 2.87
2237 2255 1.458777 TGGTGGTCGGGTGAGTCTT 60.459 57.895 0.00 0.00 0.00 3.01
2238 2256 1.908793 CTGGTGGTCGGGTGAGTCT 60.909 63.158 0.00 0.00 0.00 3.24
2239 2257 1.469335 TTCTGGTGGTCGGGTGAGTC 61.469 60.000 0.00 0.00 0.00 3.36
2240 2258 1.458777 TTCTGGTGGTCGGGTGAGT 60.459 57.895 0.00 0.00 0.00 3.41
2241 2259 1.293498 CTTCTGGTGGTCGGGTGAG 59.707 63.158 0.00 0.00 0.00 3.51
2242 2260 2.214216 CCTTCTGGTGGTCGGGTGA 61.214 63.158 0.00 0.00 0.00 4.02
2243 2261 2.347490 CCTTCTGGTGGTCGGGTG 59.653 66.667 0.00 0.00 0.00 4.61
2244 2262 2.122547 ACCTTCTGGTGGTCGGGT 60.123 61.111 0.00 0.00 46.51 5.28


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

AutoCloner maintained by Alex Coulton.