Multiple sequence alignment - TraesCS1D01G163900

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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 TraesCS1D01G163900 chr1D 100.000 2276 0 0 1 2276 234527369 234529644 0.000000e+00 4204
1 TraesCS1D01G163900 chr1B 93.938 1897 92 16 1 1887 339365649 339363766 0.000000e+00 2844
2 TraesCS1D01G163900 chr1B 83.981 206 16 8 2026 2230 339363622 339363433 4.990000e-42 182
3 TraesCS1D01G163900 chr1B 93.805 113 6 1 1884 1995 339363738 339363626 3.890000e-38 169
4 TraesCS1D01G163900 chr1A 92.848 769 37 11 799 1559 313162353 313161595 0.000000e+00 1099
5 TraesCS1D01G163900 chr1A 89.514 782 67 8 2 779 313163113 313162343 0.000000e+00 976
6 TraesCS1D01G163900 chr1A 92.683 287 15 4 1606 1887 313161522 313161237 2.100000e-110 409
7 TraesCS1D01G163900 chr1A 86.782 174 20 1 1960 2130 313122473 313122300 8.300000e-45 191
8 TraesCS1D01G163900 chr1A 95.699 93 3 1 1884 1975 313161180 313161088 5.070000e-32 148


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 TraesCS1D01G163900 chr1D 234527369 234529644 2275 False 4204 4204 100.000000 1 2276 1 chr1D.!!$F1 2275
1 TraesCS1D01G163900 chr1B 339363433 339365649 2216 True 1065 2844 90.574667 1 2230 3 chr1B.!!$R1 2229
2 TraesCS1D01G163900 chr1A 313161088 313163113 2025 True 658 1099 92.686000 2 1975 4 chr1A.!!$R2 1973

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
943 952 0.173255 GCAAACCACTGCACACACTT 59.827 50.0 0.0 0.0 42.17 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2042 2177 0.023732 GTGATGTGTCGACGCATTCG 59.976 55.0 37.08 0.0 46.01 3.34 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
126 128 6.147492 GCTTAGATATGGCATCTTGAGTGAAG 59.853 42.308 1.65 0.00 0.00 3.02
200 202 4.647424 CAACTCCTTAAAGGTTGTTGCA 57.353 40.909 2.76 0.00 40.61 4.08
353 358 8.162880 GCAATAATTAGTATCGATCGGTGAAAG 58.837 37.037 16.41 0.00 0.00 2.62
377 382 6.719370 AGATAATTTTTGGTTGTGTGAGGCTA 59.281 34.615 0.00 0.00 0.00 3.93
491 496 2.743752 CCATGCTCAACCGCACGAG 61.744 63.158 0.00 0.00 43.61 4.18
506 511 2.125512 GAGTGCTTCGCGGTCCAT 60.126 61.111 6.13 0.00 0.00 3.41
531 536 5.514274 AATGGTTGTATTTCGCATAAGGG 57.486 39.130 0.00 0.00 0.00 3.95
545 550 5.359576 TCGCATAAGGGCATATCAAGTTTTT 59.640 36.000 0.00 0.00 0.00 1.94
759 765 4.389992 CAGCGTGTCACAAATCTCTTGTAT 59.610 41.667 3.42 0.00 0.00 2.29
793 799 3.153024 GCCATTGGCGTACTCTTGA 57.847 52.632 12.82 0.00 39.62 3.02
794 800 1.448985 GCCATTGGCGTACTCTTGAA 58.551 50.000 12.82 0.00 39.62 2.69
795 801 1.810151 GCCATTGGCGTACTCTTGAAA 59.190 47.619 12.82 0.00 39.62 2.69
835 841 4.098960 CGGTAAGGGCAGATTAGTCAAGTA 59.901 45.833 0.00 0.00 0.00 2.24
933 942 0.534203 CCCGTGTACTGCAAACCACT 60.534 55.000 0.00 0.00 0.00 4.00
934 943 0.586319 CCGTGTACTGCAAACCACTG 59.414 55.000 0.00 0.00 0.00 3.66
943 952 0.173255 GCAAACCACTGCACACACTT 59.827 50.000 0.00 0.00 42.17 3.16
1223 1235 0.108186 TCCAGCTACATCAACAGCCG 60.108 55.000 0.00 0.00 38.61 5.52
1338 1353 0.666577 CCGCCGCCTATTGCTACTAC 60.667 60.000 0.00 0.00 38.05 2.73
1339 1354 0.314302 CGCCGCCTATTGCTACTACT 59.686 55.000 0.00 0.00 38.05 2.57
1340 1355 1.538512 CGCCGCCTATTGCTACTACTA 59.461 52.381 0.00 0.00 38.05 1.82
1578 1648 4.524749 TGTCGATCGATCTCGTGTAATTC 58.475 43.478 22.50 3.81 39.62 2.17
1606 1676 4.142227 ACCTCCGACAATATATATCCGCAC 60.142 45.833 0.00 0.00 0.00 5.34
1691 1761 7.254455 GCATCACTAAATGGACAGTACATGTAC 60.254 40.741 25.51 25.51 44.17 2.90
1729 1803 3.308866 ACTCAACGCTTACACTGTTGTTC 59.691 43.478 4.48 0.00 42.65 3.18
1731 1805 3.062909 TCAACGCTTACACTGTTGTTCAC 59.937 43.478 4.48 0.00 42.65 3.18
1732 1806 2.623535 ACGCTTACACTGTTGTTCACA 58.376 42.857 0.00 0.00 37.15 3.58
1734 1808 3.247648 ACGCTTACACTGTTGTTCACATC 59.752 43.478 0.00 0.00 37.15 3.06
1984 2119 0.948623 CACCGTTCATGAACTGCGGA 60.949 55.000 31.31 0.14 44.57 5.54
2002 2137 3.702330 CGGAGCACACGATATAAACTCA 58.298 45.455 0.00 0.00 0.00 3.41
2003 2138 4.299155 CGGAGCACACGATATAAACTCAT 58.701 43.478 0.00 0.00 0.00 2.90
2004 2139 4.745125 CGGAGCACACGATATAAACTCATT 59.255 41.667 0.00 0.00 0.00 2.57
2005 2140 5.918576 CGGAGCACACGATATAAACTCATTA 59.081 40.000 0.00 0.00 0.00 1.90
2006 2141 6.088217 CGGAGCACACGATATAAACTCATTAG 59.912 42.308 0.00 0.00 0.00 1.73
2007 2142 6.366332 GGAGCACACGATATAAACTCATTAGG 59.634 42.308 0.00 0.00 0.00 2.69
2008 2143 7.050970 AGCACACGATATAAACTCATTAGGA 57.949 36.000 0.00 0.00 0.00 2.94
2009 2144 6.924060 AGCACACGATATAAACTCATTAGGAC 59.076 38.462 0.00 0.00 0.00 3.85
2010 2145 6.700081 GCACACGATATAAACTCATTAGGACA 59.300 38.462 0.00 0.00 0.00 4.02
2011 2146 7.385205 GCACACGATATAAACTCATTAGGACAT 59.615 37.037 0.00 0.00 0.00 3.06
2012 2147 8.916654 CACACGATATAAACTCATTAGGACATC 58.083 37.037 0.00 0.00 0.00 3.06
2013 2148 8.861086 ACACGATATAAACTCATTAGGACATCT 58.139 33.333 0.00 0.00 0.00 2.90
2014 2149 9.347934 CACGATATAAACTCATTAGGACATCTC 57.652 37.037 0.00 0.00 0.00 2.75
2015 2150 8.524487 ACGATATAAACTCATTAGGACATCTCC 58.476 37.037 0.00 0.00 36.71 3.71
2016 2151 8.523658 CGATATAAACTCATTAGGACATCTCCA 58.476 37.037 0.00 0.00 39.39 3.86
2019 2154 4.762289 ACTCATTAGGACATCTCCAACC 57.238 45.455 0.00 0.00 39.39 3.77
2020 2155 3.456277 ACTCATTAGGACATCTCCAACCC 59.544 47.826 0.00 0.00 39.39 4.11
2021 2156 2.777692 TCATTAGGACATCTCCAACCCC 59.222 50.000 0.00 0.00 39.39 4.95
2022 2157 2.352561 TTAGGACATCTCCAACCCCA 57.647 50.000 0.00 0.00 39.39 4.96
2023 2158 1.879575 TAGGACATCTCCAACCCCAG 58.120 55.000 0.00 0.00 39.39 4.45
2024 2159 1.077429 GGACATCTCCAACCCCAGC 60.077 63.158 0.00 0.00 36.42 4.85
2028 2163 0.622665 CATCTCCAACCCCAGCTCTT 59.377 55.000 0.00 0.00 0.00 2.85
2034 2169 2.175931 TCCAACCCCAGCTCTTAAAACA 59.824 45.455 0.00 0.00 0.00 2.83
2037 2172 3.425162 ACCCCAGCTCTTAAAACAGAG 57.575 47.619 0.00 0.00 43.02 3.35
2040 2175 3.339141 CCCAGCTCTTAAAACAGAGTCC 58.661 50.000 0.00 0.00 42.25 3.85
2042 2177 2.413453 CAGCTCTTAAAACAGAGTCCGC 59.587 50.000 0.00 0.00 42.25 5.54
2046 2181 3.921677 TCTTAAAACAGAGTCCGCGAAT 58.078 40.909 8.23 0.00 0.00 3.34
2087 2222 4.090930 CCGTACACACTGATAGAAAAACCG 59.909 45.833 0.00 0.00 0.00 4.44
2090 2225 3.813166 ACACACTGATAGAAAAACCGGTG 59.187 43.478 8.52 0.00 40.63 4.94
2112 2247 5.577945 GTGATCTAATTGTAAACGTCCGGAA 59.422 40.000 5.23 0.00 0.00 4.30
2166 2301 4.752879 GCCCAGGCTCGTACGCAA 62.753 66.667 11.24 0.00 38.26 4.85
2168 2303 2.509336 CCAGGCTCGTACGCAAGG 60.509 66.667 11.24 4.09 46.39 3.61
2169 2304 2.261671 CAGGCTCGTACGCAAGGT 59.738 61.111 11.24 0.00 46.39 3.50
2170 2305 1.509463 CAGGCTCGTACGCAAGGTA 59.491 57.895 11.24 0.00 46.39 3.08
2171 2306 0.801067 CAGGCTCGTACGCAAGGTAC 60.801 60.000 11.24 0.00 46.54 3.34
2179 2314 2.618053 GTACGCAAGGTACTGCTTCAT 58.382 47.619 5.66 0.00 46.50 2.57
2191 2326 5.811100 GGTACTGCTTCATTGTAACTACTCC 59.189 44.000 0.00 0.00 0.00 3.85
2193 2328 4.532521 ACTGCTTCATTGTAACTACTCCCT 59.467 41.667 0.00 0.00 0.00 4.20
2194 2329 5.013183 ACTGCTTCATTGTAACTACTCCCTT 59.987 40.000 0.00 0.00 0.00 3.95
2195 2330 5.488341 TGCTTCATTGTAACTACTCCCTTC 58.512 41.667 0.00 0.00 0.00 3.46
2196 2331 4.567159 GCTTCATTGTAACTACTCCCTTCG 59.433 45.833 0.00 0.00 0.00 3.79
2197 2332 5.721232 CTTCATTGTAACTACTCCCTTCGT 58.279 41.667 0.00 0.00 0.00 3.85
2199 2334 5.014858 TCATTGTAACTACTCCCTTCGTCT 58.985 41.667 0.00 0.00 0.00 4.18
2200 2335 5.479375 TCATTGTAACTACTCCCTTCGTCTT 59.521 40.000 0.00 0.00 0.00 3.01
2213 2348 8.921205 ACTCCCTTCGTCTTATAATAAAGCTTA 58.079 33.333 0.00 0.00 0.00 3.09
2214 2349 9.194271 CTCCCTTCGTCTTATAATAAAGCTTAC 57.806 37.037 0.00 0.00 0.00 2.34
2243 2378 8.425577 AACGTTTTCATATTATGAGACAGAGG 57.574 34.615 16.17 5.13 40.94 3.69
2244 2379 6.986817 ACGTTTTCATATTATGAGACAGAGGG 59.013 38.462 16.17 7.31 40.94 4.30
2245 2380 7.147724 ACGTTTTCATATTATGAGACAGAGGGA 60.148 37.037 16.17 0.00 40.94 4.20
2246 2381 7.710907 CGTTTTCATATTATGAGACAGAGGGAA 59.289 37.037 16.17 2.24 40.94 3.97
2247 2382 9.566432 GTTTTCATATTATGAGACAGAGGGAAT 57.434 33.333 6.48 0.00 40.94 3.01
2250 2385 8.367660 TCATATTATGAGACAGAGGGAATACC 57.632 38.462 2.14 0.00 35.00 2.73
2251 2386 7.955750 TCATATTATGAGACAGAGGGAATACCA 59.044 37.037 2.14 0.00 36.52 3.25
2252 2387 8.766476 CATATTATGAGACAGAGGGAATACCAT 58.234 37.037 0.00 0.00 43.89 3.55
2254 2389 7.540474 TTATGAGACAGAGGGAATACCATAC 57.460 40.000 0.00 0.00 43.89 2.39
2255 2390 4.223953 TGAGACAGAGGGAATACCATACC 58.776 47.826 0.00 0.00 43.89 2.73
2256 2391 4.223953 GAGACAGAGGGAATACCATACCA 58.776 47.826 0.00 0.00 43.89 3.25
2257 2392 4.227197 AGACAGAGGGAATACCATACCAG 58.773 47.826 0.00 0.00 43.89 4.00
2258 2393 3.967987 GACAGAGGGAATACCATACCAGT 59.032 47.826 0.00 0.00 43.89 4.00
2259 2394 3.711704 ACAGAGGGAATACCATACCAGTG 59.288 47.826 0.00 0.00 43.89 3.66
2260 2395 3.711704 CAGAGGGAATACCATACCAGTGT 59.288 47.826 0.00 0.00 43.89 3.55
2261 2396 4.899457 CAGAGGGAATACCATACCAGTGTA 59.101 45.833 0.00 0.00 43.89 2.90
2262 2397 5.544176 CAGAGGGAATACCATACCAGTGTAT 59.456 44.000 0.00 0.00 43.89 2.29
2263 2398 5.780793 AGAGGGAATACCATACCAGTGTATC 59.219 44.000 0.00 0.00 43.89 2.24
2264 2399 5.473273 AGGGAATACCATACCAGTGTATCA 58.527 41.667 0.00 0.00 43.89 2.15
2265 2400 5.307196 AGGGAATACCATACCAGTGTATCAC 59.693 44.000 0.00 0.00 43.89 3.06
2266 2401 5.071250 GGGAATACCATACCAGTGTATCACA 59.929 44.000 2.80 0.00 35.46 3.58
2267 2402 6.239887 GGGAATACCATACCAGTGTATCACAT 60.240 42.308 2.80 0.00 35.46 3.21
2268 2403 7.038587 GGGAATACCATACCAGTGTATCACATA 60.039 40.741 2.80 0.00 35.46 2.29
2269 2404 8.035394 GGAATACCATACCAGTGTATCACATAG 58.965 40.741 2.80 0.00 35.46 2.23
2270 2405 8.492415 AATACCATACCAGTGTATCACATAGT 57.508 34.615 2.80 0.06 35.46 2.12
2271 2406 6.161855 ACCATACCAGTGTATCACATAGTG 57.838 41.667 2.80 0.00 35.46 2.74
2272 2407 5.661312 ACCATACCAGTGTATCACATAGTGT 59.339 40.000 2.80 0.00 35.46 3.55
2273 2408 6.837048 ACCATACCAGTGTATCACATAGTGTA 59.163 38.462 2.80 0.00 35.46 2.90
2274 2409 7.014326 ACCATACCAGTGTATCACATAGTGTAG 59.986 40.741 2.80 0.00 35.46 2.74
2275 2410 7.014326 CCATACCAGTGTATCACATAGTGTAGT 59.986 40.741 2.80 0.00 35.46 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
75 77 3.431922 TGGCTAGAAACTCGTATTCGG 57.568 47.619 0.00 0.00 37.69 4.30
126 128 1.425412 TAAAAGCGAGGACACGAAGC 58.575 50.000 0.00 0.00 35.09 3.86
341 346 6.551736 ACCAAAAATTATCTTTCACCGATCG 58.448 36.000 8.51 8.51 0.00 3.69
353 358 5.783111 AGCCTCACACAACCAAAAATTATC 58.217 37.500 0.00 0.00 0.00 1.75
358 363 2.955660 CCTAGCCTCACACAACCAAAAA 59.044 45.455 0.00 0.00 0.00 1.94
377 382 3.716872 TCAGAAGGAAGTCAAAACCTCCT 59.283 43.478 0.00 0.00 46.45 3.69
465 470 0.895100 GGTTGAGCATGGCTGGACAA 60.895 55.000 0.00 0.00 39.88 3.18
506 511 7.484975 CCCTTATGCGAAATACAACCATTTTA 58.515 34.615 0.00 0.00 0.00 1.52
609 614 9.245962 TGACGAGTTTTTAAAACTTCAAACAAA 57.754 25.926 21.83 3.50 32.52 2.83
615 620 7.328982 GGGTTTTGACGAGTTTTTAAAACTTCA 59.671 33.333 21.83 18.84 39.73 3.02
737 743 2.838736 ACAAGAGATTTGTGACACGCT 58.161 42.857 0.22 0.00 0.00 5.07
759 765 6.804770 CCAATGGCAAATTTTCATTCTGAA 57.195 33.333 11.48 0.00 34.03 3.02
825 831 4.998672 CCCGGACATTTTGTACTTGACTAA 59.001 41.667 0.73 0.00 0.00 2.24
835 841 1.074889 AGTAAGCCCCGGACATTTTGT 59.925 47.619 0.73 0.00 0.00 2.83
879 888 1.537202 CAATTTATAGGCAGGAGGCGC 59.463 52.381 0.00 0.00 46.16 6.53
933 942 1.453015 GGTGGTGGAAGTGTGTGCA 60.453 57.895 0.00 0.00 0.00 4.57
934 943 1.453015 TGGTGGTGGAAGTGTGTGC 60.453 57.895 0.00 0.00 0.00 4.57
943 952 3.494254 GGTGGTGGTGGTGGTGGA 61.494 66.667 0.00 0.00 0.00 4.02
1102 1114 2.502492 CGCTGATGATCGGGGAGGT 61.502 63.158 12.50 0.00 37.86 3.85
1231 1243 2.360475 GCTGGTGAGGGTCTTGCC 60.360 66.667 0.00 0.00 0.00 4.52
1405 1426 2.962786 CACACGGTTCGCACGGAA 60.963 61.111 0.00 0.00 35.23 4.30
1442 1463 3.116300 CACACGATTGTATTCGAGAGGG 58.884 50.000 0.31 0.00 41.62 4.30
1443 1464 3.770666 ACACACGATTGTATTCGAGAGG 58.229 45.455 0.31 0.00 41.62 3.69
1578 1648 6.238676 CGGATATATATTGTCGGAGGTACAGG 60.239 46.154 0.00 0.00 0.00 4.00
1729 1803 1.153309 TCAGCTGGCCATCGATGTG 60.153 57.895 23.27 15.52 0.00 3.21
1731 1805 2.252346 GCTCAGCTGGCCATCGATG 61.252 63.158 18.76 18.76 0.00 3.84
1732 1806 2.110627 GCTCAGCTGGCCATCGAT 59.889 61.111 15.13 0.00 0.00 3.59
1984 2119 6.924060 GTCCTAATGAGTTTATATCGTGTGCT 59.076 38.462 0.00 0.00 0.00 4.40
1995 2130 6.352737 GGGTTGGAGATGTCCTAATGAGTTTA 60.353 42.308 10.72 0.00 44.30 2.01
1996 2131 5.501156 GGTTGGAGATGTCCTAATGAGTTT 58.499 41.667 10.72 0.00 44.30 2.66
1998 2133 3.456277 GGGTTGGAGATGTCCTAATGAGT 59.544 47.826 10.72 0.00 44.30 3.41
1999 2134 3.181450 GGGGTTGGAGATGTCCTAATGAG 60.181 52.174 10.72 0.00 44.30 2.90
2000 2135 2.777692 GGGGTTGGAGATGTCCTAATGA 59.222 50.000 10.72 0.00 44.30 2.57
2001 2136 2.509548 TGGGGTTGGAGATGTCCTAATG 59.490 50.000 10.72 0.00 44.30 1.90
2002 2137 2.780010 CTGGGGTTGGAGATGTCCTAAT 59.220 50.000 10.72 0.00 44.30 1.73
2003 2138 2.196595 CTGGGGTTGGAGATGTCCTAA 58.803 52.381 10.72 0.27 44.30 2.69
2004 2139 1.879575 CTGGGGTTGGAGATGTCCTA 58.120 55.000 10.72 0.00 44.30 2.94
2005 2140 1.566298 GCTGGGGTTGGAGATGTCCT 61.566 60.000 10.72 0.00 44.30 3.85
2006 2141 1.077429 GCTGGGGTTGGAGATGTCC 60.077 63.158 0.83 0.83 44.24 4.02
2007 2142 0.107459 GAGCTGGGGTTGGAGATGTC 60.107 60.000 0.00 0.00 0.00 3.06
2008 2143 0.548682 AGAGCTGGGGTTGGAGATGT 60.549 55.000 0.00 0.00 0.00 3.06
2009 2144 0.622665 AAGAGCTGGGGTTGGAGATG 59.377 55.000 0.00 0.00 0.00 2.90
2010 2145 2.270434 TAAGAGCTGGGGTTGGAGAT 57.730 50.000 0.00 0.00 0.00 2.75
2011 2146 2.038863 TTAAGAGCTGGGGTTGGAGA 57.961 50.000 0.00 0.00 0.00 3.71
2012 2147 2.820197 GTTTTAAGAGCTGGGGTTGGAG 59.180 50.000 0.00 0.00 0.00 3.86
2013 2148 2.175931 TGTTTTAAGAGCTGGGGTTGGA 59.824 45.455 0.00 0.00 0.00 3.53
2014 2149 2.558359 CTGTTTTAAGAGCTGGGGTTGG 59.442 50.000 0.00 0.00 0.00 3.77
2015 2150 3.486383 TCTGTTTTAAGAGCTGGGGTTG 58.514 45.455 0.00 0.00 0.00 3.77
2016 2151 3.138468 ACTCTGTTTTAAGAGCTGGGGTT 59.862 43.478 0.00 0.00 46.46 4.11
2017 2152 2.711547 ACTCTGTTTTAAGAGCTGGGGT 59.288 45.455 0.00 0.00 46.46 4.95
2018 2153 3.339141 GACTCTGTTTTAAGAGCTGGGG 58.661 50.000 0.00 0.00 46.46 4.96
2019 2154 3.339141 GGACTCTGTTTTAAGAGCTGGG 58.661 50.000 0.00 0.00 46.46 4.45
2020 2155 2.996621 CGGACTCTGTTTTAAGAGCTGG 59.003 50.000 0.00 0.00 46.46 4.85
2021 2156 2.413453 GCGGACTCTGTTTTAAGAGCTG 59.587 50.000 0.00 1.78 46.46 4.24
2022 2157 2.689646 GCGGACTCTGTTTTAAGAGCT 58.310 47.619 1.17 0.00 46.46 4.09
2023 2158 1.390463 CGCGGACTCTGTTTTAAGAGC 59.610 52.381 0.00 0.00 46.46 4.09
2028 2163 1.730064 GCATTCGCGGACTCTGTTTTA 59.270 47.619 6.13 0.00 0.00 1.52
2042 2177 0.023732 GTGATGTGTCGACGCATTCG 59.976 55.000 37.08 0.00 46.01 3.34
2046 2181 0.735978 GGATGTGATGTGTCGACGCA 60.736 55.000 31.81 31.81 40.98 5.24
2057 2192 4.887655 TCTATCAGTGTGTACGGATGTGAT 59.112 41.667 3.83 0.00 41.01 3.06
2087 2222 4.269363 CCGGACGTTTACAATTAGATCACC 59.731 45.833 0.00 0.00 0.00 4.02
2090 2225 6.292703 CCATTCCGGACGTTTACAATTAGATC 60.293 42.308 1.83 0.00 36.56 2.75
2164 2299 6.874134 AGTAGTTACAATGAAGCAGTACCTTG 59.126 38.462 0.00 0.00 0.00 3.61
2165 2300 7.005709 AGTAGTTACAATGAAGCAGTACCTT 57.994 36.000 0.00 0.00 0.00 3.50
2166 2301 6.351117 GGAGTAGTTACAATGAAGCAGTACCT 60.351 42.308 0.00 0.00 0.00 3.08
2167 2302 5.811100 GGAGTAGTTACAATGAAGCAGTACC 59.189 44.000 0.00 0.00 0.00 3.34
2168 2303 5.811100 GGGAGTAGTTACAATGAAGCAGTAC 59.189 44.000 0.00 0.00 0.00 2.73
2169 2304 5.720041 AGGGAGTAGTTACAATGAAGCAGTA 59.280 40.000 0.00 0.00 0.00 2.74
2170 2305 4.532521 AGGGAGTAGTTACAATGAAGCAGT 59.467 41.667 0.00 0.00 0.00 4.40
2171 2306 5.091261 AGGGAGTAGTTACAATGAAGCAG 57.909 43.478 0.00 0.00 0.00 4.24
2172 2307 5.488341 GAAGGGAGTAGTTACAATGAAGCA 58.512 41.667 0.00 0.00 0.00 3.91
2173 2308 4.567159 CGAAGGGAGTAGTTACAATGAAGC 59.433 45.833 0.00 0.00 0.00 3.86
2179 2314 8.579850 TTATAAGACGAAGGGAGTAGTTACAA 57.420 34.615 0.00 0.00 0.00 2.41
2230 2365 6.497259 GGTATGGTATTCCCTCTGTCTCATAA 59.503 42.308 0.00 0.00 0.00 1.90
2231 2366 6.017192 GGTATGGTATTCCCTCTGTCTCATA 58.983 44.000 0.00 0.00 0.00 2.15
2232 2367 4.841246 GGTATGGTATTCCCTCTGTCTCAT 59.159 45.833 0.00 0.00 0.00 2.90
2233 2368 4.223953 GGTATGGTATTCCCTCTGTCTCA 58.776 47.826 0.00 0.00 0.00 3.27
2234 2369 4.223953 TGGTATGGTATTCCCTCTGTCTC 58.776 47.826 0.00 0.00 0.00 3.36
2235 2370 4.227197 CTGGTATGGTATTCCCTCTGTCT 58.773 47.826 0.00 0.00 0.00 3.41
2236 2371 3.967987 ACTGGTATGGTATTCCCTCTGTC 59.032 47.826 0.00 0.00 0.00 3.51
2237 2372 3.711704 CACTGGTATGGTATTCCCTCTGT 59.288 47.826 0.00 0.00 0.00 3.41
2238 2373 3.711704 ACACTGGTATGGTATTCCCTCTG 59.288 47.826 0.00 0.00 0.00 3.35
2239 2374 4.008916 ACACTGGTATGGTATTCCCTCT 57.991 45.455 0.00 0.00 0.00 3.69
2240 2375 5.542635 TGATACACTGGTATGGTATTCCCTC 59.457 44.000 0.00 0.00 40.28 4.30
2241 2376 5.307196 GTGATACACTGGTATGGTATTCCCT 59.693 44.000 0.00 0.00 40.28 4.20
2242 2377 5.071250 TGTGATACACTGGTATGGTATTCCC 59.929 44.000 0.00 0.00 40.28 3.97
2243 2378 6.169557 TGTGATACACTGGTATGGTATTCC 57.830 41.667 0.00 0.00 40.28 3.01
2244 2379 8.585881 ACTATGTGATACACTGGTATGGTATTC 58.414 37.037 0.00 0.00 40.28 1.75
2245 2380 8.367911 CACTATGTGATACACTGGTATGGTATT 58.632 37.037 0.00 0.00 40.28 1.89
2246 2381 7.509318 ACACTATGTGATACACTGGTATGGTAT 59.491 37.037 4.61 0.00 40.28 2.73
2247 2382 6.837048 ACACTATGTGATACACTGGTATGGTA 59.163 38.462 4.61 0.00 40.28 3.25
2248 2383 5.661312 ACACTATGTGATACACTGGTATGGT 59.339 40.000 4.61 0.00 40.28 3.55
2249 2384 6.161855 ACACTATGTGATACACTGGTATGG 57.838 41.667 4.61 0.00 40.28 2.74
2250 2385 7.941919 ACTACACTATGTGATACACTGGTATG 58.058 38.462 4.61 0.00 40.28 2.39


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

AutoCloner maintained by Alex Coulton.