Multiple sequence alignment - TraesCS6B01G038400

Loading Multiple Alignment...

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 TraesCS6B01G038400 chr6B 100.000 2337 0 0 1 2337 22813120 22810784 0.000000e+00 4316
1 TraesCS6B01G038400 chr7B 98.413 2205 34 1 1 2205 664294594 664296797 0.000000e+00 3877
2 TraesCS6B01G038400 chr7B 97.372 2207 54 4 1 2206 15309593 15311796 0.000000e+00 3751
3 TraesCS6B01G038400 chr3B 97.643 2206 50 2 1 2206 28344929 28347132 0.000000e+00 3784
4 TraesCS6B01G038400 chr3B 97.372 2207 54 4 1 2206 14264716 14266919 0.000000e+00 3751
5 TraesCS6B01G038400 chr2B 97.688 2206 42 4 1 2206 90758847 90761043 0.000000e+00 3783
6 TraesCS6B01G038400 chr5B 97.552 2206 52 2 1 2206 351452614 351450411 0.000000e+00 3773
7 TraesCS6B01G038400 chr5B 97.417 2207 53 4 1 2206 109899185 109896982 0.000000e+00 3757
8 TraesCS6B01G038400 chr1B 97.553 2207 45 4 1 2206 615476943 615479141 0.000000e+00 3768
9 TraesCS6B01G038400 chr1B 97.507 2206 47 3 1 2206 618191020 618188823 0.000000e+00 3762
10 TraesCS6B01G038400 chr4A 97.744 133 3 0 2205 2337 534186892 534186760 1.810000e-56 230
11 TraesCS6B01G038400 chr3A 97.744 133 3 0 2205 2337 366876108 366875976 1.810000e-56 230
12 TraesCS6B01G038400 chr3A 96.992 133 4 0 2205 2337 740086596 740086464 8.400000e-55 224
13 TraesCS6B01G038400 chr7A 96.992 133 4 0 2205 2337 492495703 492495835 8.400000e-55 224
14 TraesCS6B01G038400 chr5A 96.992 133 4 0 2205 2337 27605808 27605940 8.400000e-55 224
15 TraesCS6B01G038400 chr4D 96.992 133 4 0 2205 2337 30907302 30907434 8.400000e-55 224
16 TraesCS6B01G038400 chr3D 96.992 133 4 0 2205 2337 582800304 582800436 8.400000e-55 224
17 TraesCS6B01G038400 chr2D 96.992 133 4 0 2205 2337 640873050 640872918 8.400000e-55 224
18 TraesCS6B01G038400 chr7D 96.241 133 5 0 2205 2337 49877933 49878065 3.910000e-53 219


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 TraesCS6B01G038400 chr6B 22810784 22813120 2336 True 4316 4316 100.000 1 2337 1 chr6B.!!$R1 2336
1 TraesCS6B01G038400 chr7B 664294594 664296797 2203 False 3877 3877 98.413 1 2205 1 chr7B.!!$F2 2204
2 TraesCS6B01G038400 chr7B 15309593 15311796 2203 False 3751 3751 97.372 1 2206 1 chr7B.!!$F1 2205
3 TraesCS6B01G038400 chr3B 28344929 28347132 2203 False 3784 3784 97.643 1 2206 1 chr3B.!!$F2 2205
4 TraesCS6B01G038400 chr3B 14264716 14266919 2203 False 3751 3751 97.372 1 2206 1 chr3B.!!$F1 2205
5 TraesCS6B01G038400 chr2B 90758847 90761043 2196 False 3783 3783 97.688 1 2206 1 chr2B.!!$F1 2205
6 TraesCS6B01G038400 chr5B 351450411 351452614 2203 True 3773 3773 97.552 1 2206 1 chr5B.!!$R2 2205
7 TraesCS6B01G038400 chr5B 109896982 109899185 2203 True 3757 3757 97.417 1 2206 1 chr5B.!!$R1 2205
8 TraesCS6B01G038400 chr1B 615476943 615479141 2198 False 3768 3768 97.553 1 2206 1 chr1B.!!$F1 2205
9 TraesCS6B01G038400 chr1B 618188823 618191020 2197 True 3762 3762 97.507 1 2206 1 chr1B.!!$R1 2205

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
578 579 3.081409 GGCAGGGCTCTTACCGGA 61.081 66.667 9.46 0.0 0.0 5.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2214 2216 0.036022 AGAAGGCTGCGAAGAAGCTT 59.964 50.0 0.0 0.0 40.64 3.74 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
27 28 8.148807 TGGTAATGTGGTTCGTGATTTATATG 57.851 34.615 0.00 0.00 0.00 1.78
504 505 3.304324 GCACTCTTTTCACCTTGCTCTTC 60.304 47.826 0.00 0.00 0.00 2.87
578 579 3.081409 GGCAGGGCTCTTACCGGA 61.081 66.667 9.46 0.00 0.00 5.14
1088 1089 1.623542 ATCCCTGTGGGCCGTAACTC 61.624 60.000 0.00 0.00 43.94 3.01
1128 1129 1.550869 CCTTGGGAGTGGCCTTTTGAT 60.551 52.381 3.32 0.00 36.66 2.57
1134 1135 0.251787 AGTGGCCTTTTGATGGGGAC 60.252 55.000 3.32 0.00 0.00 4.46
1319 1320 3.438087 GTGCATGAGCTAGTGACATGTTT 59.562 43.478 19.01 0.00 41.99 2.83
1336 1337 9.072375 TGACATGTTTTGATGTAGGTTAATTGA 57.928 29.630 0.00 0.00 36.67 2.57
1372 1373 2.979678 ACTTAGGCAGTTCCCTTTGAGA 59.020 45.455 0.00 0.00 36.41 3.27
1733 1735 2.159028 TGATCACACACCTGACAACGAA 60.159 45.455 0.00 0.00 0.00 3.85
1763 1765 4.746611 GCATATTTAAGGCATTTGGAGTGC 59.253 41.667 0.00 0.00 41.78 4.40
2071 2073 1.808945 GTAGAGAAACGGACGGTCTCA 59.191 52.381 21.58 10.64 40.26 3.27
2167 2169 6.979817 GCATATTTACATGTCAATGCCTTTGA 59.020 34.615 14.24 0.00 42.09 2.69
2206 2208 1.374252 CGTTGCCGAACACTAGCCT 60.374 57.895 0.00 0.00 35.63 4.58
2207 2209 1.352156 CGTTGCCGAACACTAGCCTC 61.352 60.000 0.00 0.00 35.63 4.70
2208 2210 0.320421 GTTGCCGAACACTAGCCTCA 60.320 55.000 0.00 0.00 31.78 3.86
2209 2211 0.613260 TTGCCGAACACTAGCCTCAT 59.387 50.000 0.00 0.00 0.00 2.90
2210 2212 0.175760 TGCCGAACACTAGCCTCATC 59.824 55.000 0.00 0.00 0.00 2.92
2211 2213 0.461961 GCCGAACACTAGCCTCATCT 59.538 55.000 0.00 0.00 0.00 2.90
2212 2214 1.537135 GCCGAACACTAGCCTCATCTC 60.537 57.143 0.00 0.00 0.00 2.75
2213 2215 2.028130 CCGAACACTAGCCTCATCTCT 58.972 52.381 0.00 0.00 0.00 3.10
2214 2216 3.215151 CCGAACACTAGCCTCATCTCTA 58.785 50.000 0.00 0.00 0.00 2.43
2215 2217 3.632604 CCGAACACTAGCCTCATCTCTAA 59.367 47.826 0.00 0.00 0.00 2.10
2216 2218 4.261405 CCGAACACTAGCCTCATCTCTAAG 60.261 50.000 0.00 0.00 0.00 2.18
2217 2219 4.616953 GAACACTAGCCTCATCTCTAAGC 58.383 47.826 0.00 0.00 0.00 3.09
2218 2220 3.909732 ACACTAGCCTCATCTCTAAGCT 58.090 45.455 0.00 0.00 37.58 3.74
2219 2221 4.285863 ACACTAGCCTCATCTCTAAGCTT 58.714 43.478 3.48 3.48 35.03 3.74
2220 2222 4.340950 ACACTAGCCTCATCTCTAAGCTTC 59.659 45.833 0.00 0.00 35.03 3.86
2221 2223 4.584325 CACTAGCCTCATCTCTAAGCTTCT 59.416 45.833 0.00 0.00 35.03 2.85
2222 2224 5.068987 CACTAGCCTCATCTCTAAGCTTCTT 59.931 44.000 0.00 0.00 35.03 2.52
2223 2225 4.670896 AGCCTCATCTCTAAGCTTCTTC 57.329 45.455 0.00 0.00 0.00 2.87
2224 2226 3.068024 AGCCTCATCTCTAAGCTTCTTCG 59.932 47.826 0.00 0.00 0.00 3.79
2225 2227 3.380142 CCTCATCTCTAAGCTTCTTCGC 58.620 50.000 0.00 0.00 0.00 4.70
2226 2228 3.181482 CCTCATCTCTAAGCTTCTTCGCA 60.181 47.826 0.00 0.00 0.00 5.10
2227 2229 4.039151 TCATCTCTAAGCTTCTTCGCAG 57.961 45.455 0.00 0.00 0.00 5.18
2228 2230 2.285827 TCTCTAAGCTTCTTCGCAGC 57.714 50.000 0.00 0.00 37.56 5.25
2229 2231 1.134965 TCTCTAAGCTTCTTCGCAGCC 60.135 52.381 0.00 0.00 38.09 4.85
2230 2232 0.898320 TCTAAGCTTCTTCGCAGCCT 59.102 50.000 0.00 0.00 38.09 4.58
2231 2233 1.276421 TCTAAGCTTCTTCGCAGCCTT 59.724 47.619 0.00 0.00 38.09 4.35
2232 2234 1.663135 CTAAGCTTCTTCGCAGCCTTC 59.337 52.381 0.00 0.00 38.09 3.46
2233 2235 0.036022 AAGCTTCTTCGCAGCCTTCT 59.964 50.000 0.00 0.00 38.09 2.85
2234 2236 0.390998 AGCTTCTTCGCAGCCTTCTC 60.391 55.000 0.00 0.00 38.09 2.87
2235 2237 1.365368 GCTTCTTCGCAGCCTTCTCC 61.365 60.000 0.00 0.00 0.00 3.71
2236 2238 0.742635 CTTCTTCGCAGCCTTCTCCC 60.743 60.000 0.00 0.00 0.00 4.30
2237 2239 1.480212 TTCTTCGCAGCCTTCTCCCA 61.480 55.000 0.00 0.00 0.00 4.37
2238 2240 1.743252 CTTCGCAGCCTTCTCCCAC 60.743 63.158 0.00 0.00 0.00 4.61
2239 2241 3.254024 TTCGCAGCCTTCTCCCACC 62.254 63.158 0.00 0.00 0.00 4.61
2240 2242 4.020617 CGCAGCCTTCTCCCACCA 62.021 66.667 0.00 0.00 0.00 4.17
2241 2243 2.679716 GCAGCCTTCTCCCACCAT 59.320 61.111 0.00 0.00 0.00 3.55
2242 2244 1.452833 GCAGCCTTCTCCCACCATC 60.453 63.158 0.00 0.00 0.00 3.51
2243 2245 1.225704 CAGCCTTCTCCCACCATCC 59.774 63.158 0.00 0.00 0.00 3.51
2244 2246 2.003548 AGCCTTCTCCCACCATCCC 61.004 63.158 0.00 0.00 0.00 3.85
2245 2247 2.911143 CCTTCTCCCACCATCCCG 59.089 66.667 0.00 0.00 0.00 5.14
2246 2248 2.190578 CTTCTCCCACCATCCCGC 59.809 66.667 0.00 0.00 0.00 6.13
2247 2249 3.406595 CTTCTCCCACCATCCCGCC 62.407 68.421 0.00 0.00 0.00 6.13
2248 2250 4.731853 TCTCCCACCATCCCGCCA 62.732 66.667 0.00 0.00 0.00 5.69
2249 2251 3.492353 CTCCCACCATCCCGCCAT 61.492 66.667 0.00 0.00 0.00 4.40
2250 2252 3.482232 CTCCCACCATCCCGCCATC 62.482 68.421 0.00 0.00 0.00 3.51
2251 2253 3.492353 CCCACCATCCCGCCATCT 61.492 66.667 0.00 0.00 0.00 2.90
2252 2254 2.111878 CCACCATCCCGCCATCTC 59.888 66.667 0.00 0.00 0.00 2.75
2253 2255 2.745308 CCACCATCCCGCCATCTCA 61.745 63.158 0.00 0.00 0.00 3.27
2254 2256 1.453235 CACCATCCCGCCATCTCAT 59.547 57.895 0.00 0.00 0.00 2.90
2255 2257 0.604780 CACCATCCCGCCATCTCATC 60.605 60.000 0.00 0.00 0.00 2.92
2256 2258 0.765903 ACCATCCCGCCATCTCATCT 60.766 55.000 0.00 0.00 0.00 2.90
2257 2259 0.399454 CCATCCCGCCATCTCATCTT 59.601 55.000 0.00 0.00 0.00 2.40
2258 2260 1.610102 CCATCCCGCCATCTCATCTTC 60.610 57.143 0.00 0.00 0.00 2.87
2259 2261 0.319728 ATCCCGCCATCTCATCTTCG 59.680 55.000 0.00 0.00 0.00 3.79
2260 2262 1.958205 CCCGCCATCTCATCTTCGC 60.958 63.158 0.00 0.00 0.00 4.70
2261 2263 1.958205 CCGCCATCTCATCTTCGCC 60.958 63.158 0.00 0.00 0.00 5.54
2262 2264 1.227350 CGCCATCTCATCTTCGCCA 60.227 57.895 0.00 0.00 0.00 5.69
2263 2265 0.602106 CGCCATCTCATCTTCGCCAT 60.602 55.000 0.00 0.00 0.00 4.40
2264 2266 1.155042 GCCATCTCATCTTCGCCATC 58.845 55.000 0.00 0.00 0.00 3.51
2265 2267 1.805869 CCATCTCATCTTCGCCATCC 58.194 55.000 0.00 0.00 0.00 3.51
2266 2268 1.347050 CCATCTCATCTTCGCCATCCT 59.653 52.381 0.00 0.00 0.00 3.24
2267 2269 2.612471 CCATCTCATCTTCGCCATCCTC 60.612 54.545 0.00 0.00 0.00 3.71
2268 2270 1.780503 TCTCATCTTCGCCATCCTCA 58.219 50.000 0.00 0.00 0.00 3.86
2269 2271 2.110578 TCTCATCTTCGCCATCCTCAA 58.889 47.619 0.00 0.00 0.00 3.02
2270 2272 2.102084 TCTCATCTTCGCCATCCTCAAG 59.898 50.000 0.00 0.00 0.00 3.02
2271 2273 0.942962 CATCTTCGCCATCCTCAAGC 59.057 55.000 0.00 0.00 0.00 4.01
2272 2274 0.179034 ATCTTCGCCATCCTCAAGCC 60.179 55.000 0.00 0.00 0.00 4.35
2273 2275 1.821332 CTTCGCCATCCTCAAGCCC 60.821 63.158 0.00 0.00 0.00 5.19
2274 2276 3.344137 TTCGCCATCCTCAAGCCCC 62.344 63.158 0.00 0.00 0.00 5.80
2275 2277 3.801997 CGCCATCCTCAAGCCCCT 61.802 66.667 0.00 0.00 0.00 4.79
2276 2278 2.685999 GCCATCCTCAAGCCCCTT 59.314 61.111 0.00 0.00 0.00 3.95
2277 2279 1.454663 GCCATCCTCAAGCCCCTTC 60.455 63.158 0.00 0.00 0.00 3.46
2278 2280 2.001803 CCATCCTCAAGCCCCTTCA 58.998 57.895 0.00 0.00 0.00 3.02
2279 2281 0.554792 CCATCCTCAAGCCCCTTCAT 59.445 55.000 0.00 0.00 0.00 2.57
2280 2282 1.063417 CCATCCTCAAGCCCCTTCATT 60.063 52.381 0.00 0.00 0.00 2.57
2281 2283 2.029623 CATCCTCAAGCCCCTTCATTG 58.970 52.381 0.00 0.00 0.00 2.82
2282 2284 1.075601 TCCTCAAGCCCCTTCATTGT 58.924 50.000 0.00 0.00 0.00 2.71
2283 2285 1.428912 TCCTCAAGCCCCTTCATTGTT 59.571 47.619 0.00 0.00 0.00 2.83
2284 2286 1.547372 CCTCAAGCCCCTTCATTGTTG 59.453 52.381 0.00 0.00 0.00 3.33
2285 2287 0.968405 TCAAGCCCCTTCATTGTTGC 59.032 50.000 0.00 0.00 0.00 4.17
2286 2288 0.037046 CAAGCCCCTTCATTGTTGCC 60.037 55.000 0.00 0.00 0.00 4.52
2287 2289 0.178924 AAGCCCCTTCATTGTTGCCT 60.179 50.000 0.00 0.00 0.00 4.75
2288 2290 0.178924 AGCCCCTTCATTGTTGCCTT 60.179 50.000 0.00 0.00 0.00 4.35
2289 2291 0.037046 GCCCCTTCATTGTTGCCTTG 60.037 55.000 0.00 0.00 0.00 3.61
2290 2292 1.341080 CCCCTTCATTGTTGCCTTGT 58.659 50.000 0.00 0.00 0.00 3.16
2291 2293 1.693606 CCCCTTCATTGTTGCCTTGTT 59.306 47.619 0.00 0.00 0.00 2.83
2292 2294 2.548493 CCCCTTCATTGTTGCCTTGTTG 60.548 50.000 0.00 0.00 0.00 3.33
2293 2295 2.548493 CCCTTCATTGTTGCCTTGTTGG 60.548 50.000 0.00 0.00 39.35 3.77
2294 2296 2.548493 CCTTCATTGTTGCCTTGTTGGG 60.548 50.000 0.00 0.00 36.00 4.12
2295 2297 1.786937 TCATTGTTGCCTTGTTGGGT 58.213 45.000 0.00 0.00 36.00 4.51
2296 2298 2.114616 TCATTGTTGCCTTGTTGGGTT 58.885 42.857 0.00 0.00 36.00 4.11
2297 2299 2.158986 TCATTGTTGCCTTGTTGGGTTG 60.159 45.455 0.00 0.00 36.00 3.77
2298 2300 1.561643 TTGTTGCCTTGTTGGGTTGA 58.438 45.000 0.00 0.00 36.00 3.18
2299 2301 1.110442 TGTTGCCTTGTTGGGTTGAG 58.890 50.000 0.00 0.00 36.00 3.02
2300 2302 1.341482 TGTTGCCTTGTTGGGTTGAGA 60.341 47.619 0.00 0.00 36.00 3.27
2301 2303 1.754226 GTTGCCTTGTTGGGTTGAGAA 59.246 47.619 0.00 0.00 36.00 2.87
2302 2304 1.691196 TGCCTTGTTGGGTTGAGAAG 58.309 50.000 0.00 0.00 36.00 2.85
2303 2305 0.315251 GCCTTGTTGGGTTGAGAAGC 59.685 55.000 0.00 0.00 36.00 3.86
2309 2311 2.044946 GGGTTGAGAAGCCGCCAT 60.045 61.111 0.00 0.00 39.57 4.40
2310 2312 1.223487 GGGTTGAGAAGCCGCCATA 59.777 57.895 0.00 0.00 39.57 2.74
2311 2313 0.179018 GGGTTGAGAAGCCGCCATAT 60.179 55.000 0.00 0.00 39.57 1.78
2312 2314 1.230324 GGTTGAGAAGCCGCCATATC 58.770 55.000 0.00 0.00 0.00 1.63
2313 2315 1.202698 GGTTGAGAAGCCGCCATATCT 60.203 52.381 0.00 0.00 0.00 1.98
2314 2316 2.037251 GGTTGAGAAGCCGCCATATCTA 59.963 50.000 0.00 0.00 0.00 1.98
2315 2317 3.307059 GGTTGAGAAGCCGCCATATCTAT 60.307 47.826 0.00 0.00 0.00 1.98
2316 2318 3.599730 TGAGAAGCCGCCATATCTATG 57.400 47.619 0.00 0.00 0.00 2.23
2317 2319 3.165071 TGAGAAGCCGCCATATCTATGA 58.835 45.455 0.00 0.00 35.75 2.15
2318 2320 3.578282 TGAGAAGCCGCCATATCTATGAA 59.422 43.478 0.00 0.00 35.75 2.57
2319 2321 4.040339 TGAGAAGCCGCCATATCTATGAAA 59.960 41.667 0.00 0.00 35.75 2.69
2320 2322 4.973168 AGAAGCCGCCATATCTATGAAAA 58.027 39.130 0.00 0.00 35.75 2.29
2321 2323 5.376625 AGAAGCCGCCATATCTATGAAAAA 58.623 37.500 0.00 0.00 35.75 1.94
2322 2324 6.006449 AGAAGCCGCCATATCTATGAAAAAT 58.994 36.000 0.00 0.00 35.75 1.82
2323 2325 6.491403 AGAAGCCGCCATATCTATGAAAAATT 59.509 34.615 0.00 0.00 35.75 1.82
2324 2326 6.017400 AGCCGCCATATCTATGAAAAATTG 57.983 37.500 0.00 0.00 35.75 2.32
2325 2327 4.622740 GCCGCCATATCTATGAAAAATTGC 59.377 41.667 0.00 0.00 35.75 3.56
2326 2328 5.771469 CCGCCATATCTATGAAAAATTGCA 58.229 37.500 0.00 0.00 35.75 4.08
2327 2329 6.215121 CCGCCATATCTATGAAAAATTGCAA 58.785 36.000 0.00 0.00 35.75 4.08
2328 2330 6.364165 CCGCCATATCTATGAAAAATTGCAAG 59.636 38.462 4.94 0.00 35.75 4.01
2329 2331 7.140705 CGCCATATCTATGAAAAATTGCAAGA 58.859 34.615 4.94 0.00 35.75 3.02
2330 2332 7.113965 CGCCATATCTATGAAAAATTGCAAGAC 59.886 37.037 4.94 0.00 35.75 3.01
2331 2333 7.922278 GCCATATCTATGAAAAATTGCAAGACA 59.078 33.333 4.94 0.97 35.75 3.41
2332 2334 9.976511 CCATATCTATGAAAAATTGCAAGACAT 57.023 29.630 4.94 8.27 35.75 3.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 9.444600 TGAGAACTACTACAAATTATCCCAAAC 57.555 33.333 0.00 0.00 0.00 2.93
106 107 9.528489 AAACATCCTACAAAATAAGGTACATGT 57.472 29.630 2.69 2.69 34.30 3.21
395 396 5.678616 GCCTTTAAAGTTGAGCACAAACTGA 60.679 40.000 14.03 0.00 37.77 3.41
504 505 1.721389 CAAAGTGACGGTCATCTCACG 59.279 52.381 14.78 0.00 41.50 4.35
578 579 0.767060 ACCCCTCGGACTTCACCTTT 60.767 55.000 0.00 0.00 0.00 3.11
1088 1089 0.391130 TTCTTCCGGAGCAATGGTCG 60.391 55.000 3.34 2.24 0.00 4.79
1128 1129 3.369410 ATACCGCTCCTCGTCCCCA 62.369 63.158 0.00 0.00 36.19 4.96
1290 1291 2.549329 CACTAGCTCATGCACAACAACA 59.451 45.455 0.00 0.00 42.74 3.33
1319 1320 4.638421 CGGCCTTCAATTAACCTACATCAA 59.362 41.667 0.00 0.00 0.00 2.57
1336 1337 2.433239 CCTAAGTACCATGTACGGCCTT 59.567 50.000 0.00 0.00 0.00 4.35
1372 1373 4.277174 TGTTGGTCACGAAAGCACATATTT 59.723 37.500 0.00 0.00 0.00 1.40
1604 1606 1.590147 CCGGCTCGTCCTACAAAGT 59.410 57.895 0.00 0.00 0.00 2.66
1733 1735 2.143602 TGCCTTAAATATGCCCCCTCT 58.856 47.619 0.00 0.00 0.00 3.69
1763 1765 3.305398 ACTCTGTACTCTTTGCGAAGG 57.695 47.619 13.87 7.18 33.56 3.46
1842 1844 3.225104 AGTTGTTGAATGCACCATCAGT 58.775 40.909 0.00 0.00 0.00 3.41
2071 2073 7.519927 CCTCTAACCTGTAGAGTACTCCTAAT 58.480 42.308 19.38 3.39 39.42 1.73
2167 2169 3.406764 GATTCACAACCTTCTGCAGAGT 58.593 45.455 17.43 9.75 0.00 3.24
2206 2208 3.736433 GCTGCGAAGAAGCTTAGAGATGA 60.736 47.826 0.00 0.00 37.69 2.92
2207 2209 2.539274 GCTGCGAAGAAGCTTAGAGATG 59.461 50.000 0.00 0.00 37.69 2.90
2208 2210 2.482839 GGCTGCGAAGAAGCTTAGAGAT 60.483 50.000 0.00 0.00 40.64 2.75
2209 2211 1.134965 GGCTGCGAAGAAGCTTAGAGA 60.135 52.381 0.00 0.00 40.64 3.10
2210 2212 1.134848 AGGCTGCGAAGAAGCTTAGAG 60.135 52.381 0.00 0.00 40.64 2.43
2211 2213 0.898320 AGGCTGCGAAGAAGCTTAGA 59.102 50.000 0.00 0.00 40.64 2.10
2212 2214 1.663135 GAAGGCTGCGAAGAAGCTTAG 59.337 52.381 0.00 0.00 40.64 2.18
2213 2215 1.276421 AGAAGGCTGCGAAGAAGCTTA 59.724 47.619 0.00 0.00 40.64 3.09
2214 2216 0.036022 AGAAGGCTGCGAAGAAGCTT 59.964 50.000 0.00 0.00 40.64 3.74
2215 2217 0.390998 GAGAAGGCTGCGAAGAAGCT 60.391 55.000 0.00 0.00 40.64 3.74
2216 2218 1.365368 GGAGAAGGCTGCGAAGAAGC 61.365 60.000 0.00 0.00 40.06 3.86
2217 2219 0.742635 GGGAGAAGGCTGCGAAGAAG 60.743 60.000 0.00 0.00 32.52 2.85
2218 2220 1.296715 GGGAGAAGGCTGCGAAGAA 59.703 57.895 0.00 0.00 32.52 2.52
2219 2221 1.913262 TGGGAGAAGGCTGCGAAGA 60.913 57.895 0.00 0.00 32.52 2.87
2220 2222 1.743252 GTGGGAGAAGGCTGCGAAG 60.743 63.158 0.00 0.00 32.52 3.79
2221 2223 2.347490 GTGGGAGAAGGCTGCGAA 59.653 61.111 0.00 0.00 32.52 4.70
2222 2224 3.706373 GGTGGGAGAAGGCTGCGA 61.706 66.667 0.00 0.00 32.52 5.10
2223 2225 3.335356 ATGGTGGGAGAAGGCTGCG 62.335 63.158 0.00 0.00 32.52 5.18
2224 2226 1.452833 GATGGTGGGAGAAGGCTGC 60.453 63.158 0.00 0.00 0.00 5.25
2225 2227 1.225704 GGATGGTGGGAGAAGGCTG 59.774 63.158 0.00 0.00 0.00 4.85
2226 2228 2.003548 GGGATGGTGGGAGAAGGCT 61.004 63.158 0.00 0.00 0.00 4.58
2227 2229 2.597903 GGGATGGTGGGAGAAGGC 59.402 66.667 0.00 0.00 0.00 4.35
2228 2230 2.911143 CGGGATGGTGGGAGAAGG 59.089 66.667 0.00 0.00 0.00 3.46
2229 2231 2.190578 GCGGGATGGTGGGAGAAG 59.809 66.667 0.00 0.00 0.00 2.85
2230 2232 3.407967 GGCGGGATGGTGGGAGAA 61.408 66.667 0.00 0.00 0.00 2.87
2231 2233 4.731853 TGGCGGGATGGTGGGAGA 62.732 66.667 0.00 0.00 0.00 3.71
2232 2234 3.482232 GATGGCGGGATGGTGGGAG 62.482 68.421 0.00 0.00 0.00 4.30
2233 2235 3.488569 GATGGCGGGATGGTGGGA 61.489 66.667 0.00 0.00 0.00 4.37
2234 2236 3.482232 GAGATGGCGGGATGGTGGG 62.482 68.421 0.00 0.00 0.00 4.61
2235 2237 2.060567 ATGAGATGGCGGGATGGTGG 62.061 60.000 0.00 0.00 0.00 4.61
2236 2238 0.604780 GATGAGATGGCGGGATGGTG 60.605 60.000 0.00 0.00 0.00 4.17
2237 2239 0.765903 AGATGAGATGGCGGGATGGT 60.766 55.000 0.00 0.00 0.00 3.55
2238 2240 0.399454 AAGATGAGATGGCGGGATGG 59.601 55.000 0.00 0.00 0.00 3.51
2239 2241 1.805869 GAAGATGAGATGGCGGGATG 58.194 55.000 0.00 0.00 0.00 3.51
2240 2242 0.319728 CGAAGATGAGATGGCGGGAT 59.680 55.000 0.00 0.00 0.00 3.85
2241 2243 1.742146 CGAAGATGAGATGGCGGGA 59.258 57.895 0.00 0.00 0.00 5.14
2242 2244 1.958205 GCGAAGATGAGATGGCGGG 60.958 63.158 0.00 0.00 0.00 6.13
2243 2245 1.958205 GGCGAAGATGAGATGGCGG 60.958 63.158 0.00 0.00 0.00 6.13
2244 2246 0.602106 ATGGCGAAGATGAGATGGCG 60.602 55.000 0.00 0.00 0.00 5.69
2245 2247 1.155042 GATGGCGAAGATGAGATGGC 58.845 55.000 0.00 0.00 0.00 4.40
2246 2248 1.347050 AGGATGGCGAAGATGAGATGG 59.653 52.381 0.00 0.00 0.00 3.51
2247 2249 2.036862 TGAGGATGGCGAAGATGAGATG 59.963 50.000 0.00 0.00 0.00 2.90
2248 2250 2.323599 TGAGGATGGCGAAGATGAGAT 58.676 47.619 0.00 0.00 0.00 2.75
2249 2251 1.780503 TGAGGATGGCGAAGATGAGA 58.219 50.000 0.00 0.00 0.00 3.27
2250 2252 2.481854 CTTGAGGATGGCGAAGATGAG 58.518 52.381 0.00 0.00 0.00 2.90
2251 2253 1.473965 GCTTGAGGATGGCGAAGATGA 60.474 52.381 0.00 0.00 0.00 2.92
2252 2254 0.942962 GCTTGAGGATGGCGAAGATG 59.057 55.000 0.00 0.00 0.00 2.90
2253 2255 0.179034 GGCTTGAGGATGGCGAAGAT 60.179 55.000 0.00 0.00 0.00 2.40
2254 2256 1.221840 GGCTTGAGGATGGCGAAGA 59.778 57.895 0.00 0.00 0.00 2.87
2255 2257 1.821332 GGGCTTGAGGATGGCGAAG 60.821 63.158 0.00 0.00 0.00 3.79
2256 2258 2.272146 GGGCTTGAGGATGGCGAA 59.728 61.111 0.00 0.00 0.00 4.70
2257 2259 3.797353 GGGGCTTGAGGATGGCGA 61.797 66.667 0.00 0.00 0.00 5.54
2258 2260 3.350031 AAGGGGCTTGAGGATGGCG 62.350 63.158 0.00 0.00 0.00 5.69
2259 2261 1.454663 GAAGGGGCTTGAGGATGGC 60.455 63.158 0.00 0.00 0.00 4.40
2260 2262 0.554792 ATGAAGGGGCTTGAGGATGG 59.445 55.000 0.00 0.00 0.00 3.51
2261 2263 2.029623 CAATGAAGGGGCTTGAGGATG 58.970 52.381 0.00 0.00 0.00 3.51
2262 2264 1.642762 ACAATGAAGGGGCTTGAGGAT 59.357 47.619 0.00 0.00 0.00 3.24
2263 2265 1.075601 ACAATGAAGGGGCTTGAGGA 58.924 50.000 0.00 0.00 0.00 3.71
2264 2266 1.547372 CAACAATGAAGGGGCTTGAGG 59.453 52.381 0.00 0.00 0.00 3.86
2265 2267 1.067354 GCAACAATGAAGGGGCTTGAG 60.067 52.381 0.00 0.00 0.00 3.02
2266 2268 0.968405 GCAACAATGAAGGGGCTTGA 59.032 50.000 0.00 0.00 0.00 3.02
2267 2269 0.037046 GGCAACAATGAAGGGGCTTG 60.037 55.000 0.00 0.00 0.00 4.01
2268 2270 0.178924 AGGCAACAATGAAGGGGCTT 60.179 50.000 0.00 0.00 41.41 4.35
2269 2271 0.178924 AAGGCAACAATGAAGGGGCT 60.179 50.000 0.00 0.00 41.41 5.19
2270 2272 0.037046 CAAGGCAACAATGAAGGGGC 60.037 55.000 0.00 0.00 41.41 5.80
2271 2273 1.341080 ACAAGGCAACAATGAAGGGG 58.659 50.000 0.00 0.00 41.41 4.79
2272 2274 2.548493 CCAACAAGGCAACAATGAAGGG 60.548 50.000 0.00 0.00 41.41 3.95
2273 2275 2.548493 CCCAACAAGGCAACAATGAAGG 60.548 50.000 0.00 0.00 41.41 3.46
2274 2276 2.102925 ACCCAACAAGGCAACAATGAAG 59.897 45.455 0.00 0.00 41.41 3.02
2275 2277 2.114616 ACCCAACAAGGCAACAATGAA 58.885 42.857 0.00 0.00 41.41 2.57
2276 2278 1.786937 ACCCAACAAGGCAACAATGA 58.213 45.000 0.00 0.00 41.41 2.57
2277 2279 2.158986 TCAACCCAACAAGGCAACAATG 60.159 45.455 0.00 0.00 41.41 2.82
2278 2280 2.102925 CTCAACCCAACAAGGCAACAAT 59.897 45.455 0.00 0.00 41.41 2.71
2279 2281 1.480137 CTCAACCCAACAAGGCAACAA 59.520 47.619 0.00 0.00 41.41 2.83
2280 2282 1.110442 CTCAACCCAACAAGGCAACA 58.890 50.000 0.00 0.00 41.41 3.33
2281 2283 1.398692 TCTCAACCCAACAAGGCAAC 58.601 50.000 0.00 0.00 35.39 4.17
2282 2284 2.031120 CTTCTCAACCCAACAAGGCAA 58.969 47.619 0.00 0.00 35.39 4.52
2283 2285 1.691196 CTTCTCAACCCAACAAGGCA 58.309 50.000 0.00 0.00 35.39 4.75
2284 2286 0.315251 GCTTCTCAACCCAACAAGGC 59.685 55.000 0.00 0.00 35.39 4.35
2285 2287 0.961753 GGCTTCTCAACCCAACAAGG 59.038 55.000 0.00 0.00 37.03 3.61
2286 2288 0.593128 CGGCTTCTCAACCCAACAAG 59.407 55.000 0.00 0.00 0.00 3.16
2287 2289 1.452145 GCGGCTTCTCAACCCAACAA 61.452 55.000 0.00 0.00 0.00 2.83
2288 2290 1.896660 GCGGCTTCTCAACCCAACA 60.897 57.895 0.00 0.00 0.00 3.33
2289 2291 2.626780 GGCGGCTTCTCAACCCAAC 61.627 63.158 0.00 0.00 0.00 3.77
2290 2292 2.282180 GGCGGCTTCTCAACCCAA 60.282 61.111 0.00 0.00 0.00 4.12
2291 2293 1.558167 TATGGCGGCTTCTCAACCCA 61.558 55.000 11.43 0.00 0.00 4.51
2292 2294 0.179018 ATATGGCGGCTTCTCAACCC 60.179 55.000 11.43 0.00 0.00 4.11
2293 2295 1.202698 AGATATGGCGGCTTCTCAACC 60.203 52.381 11.43 0.00 0.00 3.77
2294 2296 2.246719 AGATATGGCGGCTTCTCAAC 57.753 50.000 11.43 0.00 0.00 3.18
2295 2297 3.578282 TCATAGATATGGCGGCTTCTCAA 59.422 43.478 11.43 0.00 34.50 3.02
2296 2298 3.165071 TCATAGATATGGCGGCTTCTCA 58.835 45.455 11.43 0.00 34.50 3.27
2297 2299 3.876274 TCATAGATATGGCGGCTTCTC 57.124 47.619 11.43 6.33 34.50 2.87
2298 2300 4.623932 TTTCATAGATATGGCGGCTTCT 57.376 40.909 11.43 12.19 34.50 2.85
2299 2301 5.689383 TTTTTCATAGATATGGCGGCTTC 57.311 39.130 11.43 4.76 34.50 3.86
2300 2302 6.449698 CAATTTTTCATAGATATGGCGGCTT 58.550 36.000 11.43 6.56 34.50 4.35
2301 2303 5.565439 GCAATTTTTCATAGATATGGCGGCT 60.565 40.000 11.43 0.00 34.50 5.52
2302 2304 4.622740 GCAATTTTTCATAGATATGGCGGC 59.377 41.667 0.00 0.00 34.50 6.53
2303 2305 5.771469 TGCAATTTTTCATAGATATGGCGG 58.229 37.500 0.19 0.00 34.50 6.13
2304 2306 7.113965 GTCTTGCAATTTTTCATAGATATGGCG 59.886 37.037 0.00 0.00 34.50 5.69
2305 2307 7.922278 TGTCTTGCAATTTTTCATAGATATGGC 59.078 33.333 0.00 0.00 34.50 4.40
2306 2308 9.976511 ATGTCTTGCAATTTTTCATAGATATGG 57.023 29.630 0.00 0.00 34.50 2.74


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

AutoCloner maintained by Alex Coulton.