Multiple sequence alignment - TraesCS7B01G028700

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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 TraesCS7B01G028700 chr7B 100.000 3181 0 0 1 3181 27066207 27069387 0.000000e+00 5875.0
1 TraesCS7B01G028700 chr7B 86.842 266 24 5 2923 3180 27282480 27282742 1.440000e-73 287.0
2 TraesCS7B01G028700 chr7D 89.582 1891 84 51 249 2072 79963090 79964934 0.000000e+00 2296.0
3 TraesCS7B01G028700 chr7D 85.019 1068 61 41 2159 3179 79965049 79966064 0.000000e+00 994.0
4 TraesCS7B01G028700 chr7D 92.000 150 4 4 1 143 79962892 79963040 1.500000e-48 204.0
5 TraesCS7B01G028700 chr7D 97.619 42 1 0 2425 2466 79965363 79965404 4.400000e-09 73.1
6 TraesCS7B01G028700 chr7A 86.152 1141 49 49 952 2072 82942082 82943133 0.000000e+00 1131.0
7 TraesCS7B01G028700 chr7A 83.564 1083 77 49 2159 3181 82943263 82944304 0.000000e+00 920.0


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 TraesCS7B01G028700 chr7B 27066207 27069387 3180 False 5875.000 5875 100.000 1 3181 1 chr7B.!!$F1 3180
1 TraesCS7B01G028700 chr7D 79962892 79966064 3172 False 891.775 2296 91.055 1 3179 4 chr7D.!!$F1 3178
2 TraesCS7B01G028700 chr7A 82942082 82944304 2222 False 1025.500 1131 84.858 952 3181 2 chr7A.!!$F1 2229

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
712 730 0.038526 GACAACACACCCGACTCGAT 60.039 55.0 0.0 0.0 0.0 3.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2285 2463 0.677731 TGCTGCTTTCCTGGAATCCG 60.678 55.0 10.45 3.46 0.0 4.18 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
168 176 4.193334 CGCGACCGATCCAGCAGA 62.193 66.667 0.00 0.00 36.29 4.26
171 179 1.513158 CGACCGATCCAGCAGAGTT 59.487 57.895 0.00 0.00 0.00 3.01
172 180 0.526524 CGACCGATCCAGCAGAGTTC 60.527 60.000 0.00 0.00 0.00 3.01
173 181 0.179097 GACCGATCCAGCAGAGTTCC 60.179 60.000 0.00 0.00 0.00 3.62
175 183 0.179089 CCGATCCAGCAGAGTTCCAG 60.179 60.000 0.00 0.00 0.00 3.86
177 185 0.463474 GATCCAGCAGAGTTCCAGGC 60.463 60.000 0.00 0.00 0.00 4.85
178 186 0.913451 ATCCAGCAGAGTTCCAGGCT 60.913 55.000 0.00 0.00 36.99 4.58
179 187 4.298009 CAGCAGAGTTCCAGGCTG 57.702 61.111 7.75 7.75 46.47 4.85
181 189 2.749441 GCAGAGTTCCAGGCTGCC 60.749 66.667 11.65 11.65 46.94 4.85
182 190 3.076092 CAGAGTTCCAGGCTGCCT 58.924 61.111 17.22 17.22 0.00 4.75
183 191 1.377994 CAGAGTTCCAGGCTGCCTT 59.622 57.895 20.79 3.45 0.00 4.35
184 192 0.676151 CAGAGTTCCAGGCTGCCTTC 60.676 60.000 20.79 13.92 0.00 3.46
186 194 0.392327 GAGTTCCAGGCTGCCTTCTC 60.392 60.000 20.79 18.74 0.00 2.87
187 195 1.743252 GTTCCAGGCTGCCTTCTCG 60.743 63.158 20.79 7.69 0.00 4.04
188 196 3.612247 TTCCAGGCTGCCTTCTCGC 62.612 63.158 20.79 0.00 0.00 5.03
194 202 4.394712 CTGCCTTCTCGCCCGGTT 62.395 66.667 0.00 0.00 0.00 4.44
195 203 3.901797 CTGCCTTCTCGCCCGGTTT 62.902 63.158 0.00 0.00 0.00 3.27
196 204 2.266689 GCCTTCTCGCCCGGTTTA 59.733 61.111 0.00 0.00 0.00 2.01
197 205 1.153229 GCCTTCTCGCCCGGTTTAT 60.153 57.895 0.00 0.00 0.00 1.40
198 206 1.436983 GCCTTCTCGCCCGGTTTATG 61.437 60.000 0.00 0.00 0.00 1.90
199 207 1.436983 CCTTCTCGCCCGGTTTATGC 61.437 60.000 0.00 0.00 0.00 3.14
200 208 1.436983 CTTCTCGCCCGGTTTATGCC 61.437 60.000 0.00 0.00 0.00 4.40
201 209 1.906105 TTCTCGCCCGGTTTATGCCT 61.906 55.000 0.00 0.00 0.00 4.75
202 210 2.124901 TCGCCCGGTTTATGCCTG 60.125 61.111 0.00 0.00 0.00 4.85
203 211 3.209097 CGCCCGGTTTATGCCTGG 61.209 66.667 0.00 0.00 36.18 4.45
204 212 2.044352 GCCCGGTTTATGCCTGGT 60.044 61.111 0.00 0.00 35.61 4.00
205 213 1.225148 GCCCGGTTTATGCCTGGTA 59.775 57.895 0.00 0.00 35.61 3.25
206 214 0.818040 GCCCGGTTTATGCCTGGTAG 60.818 60.000 0.00 0.00 35.61 3.18
207 215 0.179029 CCCGGTTTATGCCTGGTAGG 60.179 60.000 0.00 0.00 38.80 3.18
208 216 0.179029 CCGGTTTATGCCTGGTAGGG 60.179 60.000 0.00 0.00 35.37 3.53
209 217 0.544697 CGGTTTATGCCTGGTAGGGT 59.455 55.000 0.00 0.00 35.37 4.34
210 218 1.764134 CGGTTTATGCCTGGTAGGGTA 59.236 52.381 0.00 0.00 35.37 3.69
211 219 2.484241 CGGTTTATGCCTGGTAGGGTAC 60.484 54.545 0.00 0.00 35.37 3.34
212 220 2.484241 GGTTTATGCCTGGTAGGGTACG 60.484 54.545 0.00 0.00 35.37 3.67
213 221 2.431782 GTTTATGCCTGGTAGGGTACGA 59.568 50.000 0.00 0.00 35.37 3.43
214 222 1.991121 TATGCCTGGTAGGGTACGAG 58.009 55.000 0.00 0.00 35.37 4.18
216 224 3.534941 CCTGGTAGGGTACGAGGC 58.465 66.667 2.62 0.00 45.56 4.70
217 225 2.132352 CCTGGTAGGGTACGAGGCC 61.132 68.421 0.00 0.00 45.56 5.19
218 226 2.440796 TGGTAGGGTACGAGGCCG 60.441 66.667 0.00 0.00 42.50 6.13
219 227 3.909285 GGTAGGGTACGAGGCCGC 61.909 72.222 0.00 0.00 39.95 6.53
220 228 4.261781 GTAGGGTACGAGGCCGCG 62.262 72.222 28.09 28.09 39.95 6.46
221 229 4.488136 TAGGGTACGAGGCCGCGA 62.488 66.667 35.95 16.11 39.95 5.87
236 244 4.889856 CGACGCGATGGGCATGGA 62.890 66.667 15.93 0.00 43.84 3.41
237 245 2.969238 GACGCGATGGGCATGGAG 60.969 66.667 15.93 0.00 43.84 3.86
238 246 4.552365 ACGCGATGGGCATGGAGG 62.552 66.667 15.93 0.00 43.84 4.30
240 248 4.962836 GCGATGGGCATGGAGGGG 62.963 72.222 0.00 0.00 42.87 4.79
241 249 4.275508 CGATGGGCATGGAGGGGG 62.276 72.222 0.00 0.00 0.00 5.40
242 250 3.105928 GATGGGCATGGAGGGGGT 61.106 66.667 0.00 0.00 0.00 4.95
243 251 2.621449 ATGGGCATGGAGGGGGTT 60.621 61.111 0.00 0.00 0.00 4.11
244 252 2.934363 GATGGGCATGGAGGGGGTTG 62.934 65.000 0.00 0.00 0.00 3.77
245 253 4.463788 GGGCATGGAGGGGGTTGG 62.464 72.222 0.00 0.00 0.00 3.77
334 342 2.104170 GTTCACCTCTACTAGCTGCCT 58.896 52.381 0.00 0.00 0.00 4.75
335 343 3.288964 GTTCACCTCTACTAGCTGCCTA 58.711 50.000 0.00 0.00 0.00 3.93
342 350 4.277423 CCTCTACTAGCTGCCTAGACTTTC 59.723 50.000 0.00 0.00 43.07 2.62
345 353 2.685897 ACTAGCTGCCTAGACTTTCTCG 59.314 50.000 0.00 0.00 43.07 4.04
462 473 2.922758 GCGAGGATATTTGCGATCGACT 60.923 50.000 21.57 1.71 32.13 4.18
463 474 2.911723 CGAGGATATTTGCGATCGACTC 59.088 50.000 21.57 10.56 32.13 3.36
476 487 4.700037 GACTCATCGAGGCTCGTG 57.300 61.111 33.31 27.99 41.35 4.35
533 549 0.447801 ATGATTTCGTGGAGCGCAAC 59.552 50.000 11.47 3.70 41.07 4.17
562 578 4.160439 AGACCTTGTCAATTAGCTCGATCA 59.840 41.667 0.00 0.00 34.60 2.92
565 581 2.809446 TGTCAATTAGCTCGATCACGG 58.191 47.619 0.00 0.00 40.21 4.94
575 591 2.480416 GCTCGATCACGGTCAGAATCTT 60.480 50.000 0.00 0.00 40.21 2.40
628 645 3.183775 GTGACAGTTCGTACACATCCAAC 59.816 47.826 0.00 0.00 34.05 3.77
637 654 2.099141 ACACATCCAACTCATCCACG 57.901 50.000 0.00 0.00 0.00 4.94
642 659 1.450312 CCAACTCATCCACGCCCTC 60.450 63.158 0.00 0.00 0.00 4.30
670 688 6.691749 GCCTCTGCTACTAAAATAAATCCCCT 60.692 42.308 0.00 0.00 33.53 4.79
692 710 1.412710 GATAAGTCACAGGGCCGATCA 59.587 52.381 0.00 0.00 0.00 2.92
704 722 1.298859 GCCGATCAGACAACACACCC 61.299 60.000 0.00 0.00 0.00 4.61
712 730 0.038526 GACAACACACCCGACTCGAT 60.039 55.000 0.00 0.00 0.00 3.59
741 759 2.094894 CGCACAAGTTGATAGCTCAAGG 59.905 50.000 10.54 0.00 41.96 3.61
772 790 2.617774 GCCAATCCAAGAATCTCAGAGC 59.382 50.000 0.00 0.00 0.00 4.09
795 818 4.803426 GCGCCGACCTCCAGTCAG 62.803 72.222 0.00 0.00 46.69 3.51
809 848 3.504906 TCCAGTCAGTACTTCCGTGTTAG 59.495 47.826 0.00 0.00 31.97 2.34
860 899 2.330041 CCGGCGTCACACCAAAAC 59.670 61.111 6.01 0.00 0.00 2.43
862 901 2.725641 GGCGTCACACCAAAACCC 59.274 61.111 0.00 0.00 0.00 4.11
872 913 2.549282 CAAAACCCGTCTGTCGCG 59.451 61.111 0.00 0.00 38.35 5.87
873 914 1.952133 CAAAACCCGTCTGTCGCGA 60.952 57.895 3.71 3.71 38.35 5.87
874 915 1.663702 AAAACCCGTCTGTCGCGAG 60.664 57.895 10.24 0.00 38.35 5.03
875 916 2.359570 AAAACCCGTCTGTCGCGAGT 62.360 55.000 10.24 0.00 38.35 4.18
876 917 2.744307 AAACCCGTCTGTCGCGAGTC 62.744 60.000 10.24 0.00 38.35 3.36
877 918 3.733960 CCCGTCTGTCGCGAGTCA 61.734 66.667 10.24 3.65 38.35 3.41
878 919 2.502080 CCGTCTGTCGCGAGTCAC 60.502 66.667 10.24 4.98 38.35 3.67
879 920 2.556792 CGTCTGTCGCGAGTCACT 59.443 61.111 10.24 0.00 0.00 3.41
880 921 1.510204 CGTCTGTCGCGAGTCACTC 60.510 63.158 10.24 0.00 0.00 3.51
882 923 0.726452 GTCTGTCGCGAGTCACTCAC 60.726 60.000 10.24 0.00 0.00 3.51
883 924 0.885150 TCTGTCGCGAGTCACTCACT 60.885 55.000 10.24 0.00 38.45 3.41
916 966 2.648059 AGAAAGAAATCCATCCAGCGG 58.352 47.619 0.00 0.00 0.00 5.52
950 1007 1.453928 GCACCACTGGCCCTAATCC 60.454 63.158 0.00 0.00 0.00 3.01
962 1019 1.645402 CCTAATCCCCCACCCACCAG 61.645 65.000 0.00 0.00 0.00 4.00
971 1044 3.626924 ACCCACCAGCTCGACACC 61.627 66.667 0.00 0.00 0.00 4.16
972 1045 4.742201 CCCACCAGCTCGACACCG 62.742 72.222 0.00 0.00 37.07 4.94
976 1049 4.803426 CCAGCTCGACACCGCCTC 62.803 72.222 0.00 0.00 35.37 4.70
977 1050 4.803426 CAGCTCGACACCGCCTCC 62.803 72.222 0.00 0.00 35.37 4.30
980 1053 3.461773 CTCGACACCGCCTCCCAT 61.462 66.667 0.00 0.00 35.37 4.00
981 1054 3.432051 CTCGACACCGCCTCCCATC 62.432 68.421 0.00 0.00 35.37 3.51
982 1055 4.530857 CGACACCGCCTCCCATCC 62.531 72.222 0.00 0.00 0.00 3.51
983 1056 4.176752 GACACCGCCTCCCATCCC 62.177 72.222 0.00 0.00 0.00 3.85
1066 1150 0.263765 CCCTAGGCCCAGTACCAGTA 59.736 60.000 2.05 0.00 0.00 2.74
1074 1158 2.938838 CCCAGTACCAGTAGAGAGAGG 58.061 57.143 0.00 0.00 0.00 3.69
1083 1167 3.967326 CCAGTAGAGAGAGGAGAGAGAGA 59.033 52.174 0.00 0.00 0.00 3.10
1109 1198 2.029518 CACACACAGCGGCAGAGA 59.970 61.111 1.45 0.00 0.00 3.10
1155 1244 1.607467 AGCAACCAACCAGCCCATC 60.607 57.895 0.00 0.00 0.00 3.51
1156 1245 2.649129 GCAACCAACCAGCCCATCC 61.649 63.158 0.00 0.00 0.00 3.51
1157 1246 1.984026 CAACCAACCAGCCCATCCC 60.984 63.158 0.00 0.00 0.00 3.85
1189 1278 4.114997 CGCCGAATTGGGGTGTGC 62.115 66.667 8.73 0.00 45.41 4.57
1190 1279 2.988684 GCCGAATTGGGGTGTGCA 60.989 61.111 8.73 0.00 38.63 4.57
1192 1281 2.342650 CCGAATTGGGGTGTGCAGG 61.343 63.158 0.00 0.00 0.00 4.85
1193 1282 2.973082 GAATTGGGGTGTGCAGGC 59.027 61.111 0.00 0.00 0.00 4.85
1194 1283 1.907807 GAATTGGGGTGTGCAGGCA 60.908 57.895 0.00 0.00 0.00 4.75
1728 1838 4.974438 TCAACCGGGAGCCCACCT 62.974 66.667 6.32 0.00 35.37 4.00
1746 1856 4.748679 CCGACACCGACGACGACC 62.749 72.222 9.28 0.00 42.66 4.79
1754 1864 1.728426 CGACGACGACCAGTGAACC 60.728 63.158 0.00 0.00 42.66 3.62
1793 1903 3.551635 TTCTTCAGTTCTCCTCCTCCT 57.448 47.619 0.00 0.00 0.00 3.69
1794 1904 3.094484 TCTTCAGTTCTCCTCCTCCTC 57.906 52.381 0.00 0.00 0.00 3.71
1797 1907 1.040339 CAGTTCTCCTCCTCCTCCCG 61.040 65.000 0.00 0.00 0.00 5.14
1836 1952 6.713520 AGTACTAGTGCGTCTTAATTAGTCG 58.286 40.000 5.39 0.00 38.25 4.18
1838 1954 5.567552 ACTAGTGCGTCTTAATTAGTCGTC 58.432 41.667 0.00 0.00 37.65 4.20
1891 2007 1.669779 GCAGAGCATCAACCATCTCAC 59.330 52.381 0.00 0.00 37.82 3.51
1916 2032 5.047021 TGAGCAAGCAGATACTAGTTCAGTT 60.047 40.000 0.00 0.00 38.80 3.16
1917 2033 5.415221 AGCAAGCAGATACTAGTTCAGTTC 58.585 41.667 0.00 0.00 38.80 3.01
1918 2034 5.047021 AGCAAGCAGATACTAGTTCAGTTCA 60.047 40.000 0.00 0.00 38.80 3.18
1919 2035 5.290643 GCAAGCAGATACTAGTTCAGTTCAG 59.709 44.000 0.00 0.00 38.80 3.02
1920 2036 6.393990 CAAGCAGATACTAGTTCAGTTCAGT 58.606 40.000 0.00 0.00 38.80 3.41
1930 2046 5.344743 AGTTCAGTTCAGTCAGTTCAAGA 57.655 39.130 0.00 0.00 0.00 3.02
1931 2047 5.734720 AGTTCAGTTCAGTCAGTTCAAGAA 58.265 37.500 0.00 0.00 0.00 2.52
1932 2048 5.814705 AGTTCAGTTCAGTCAGTTCAAGAAG 59.185 40.000 0.00 0.00 0.00 2.85
1933 2049 5.598416 TCAGTTCAGTCAGTTCAAGAAGA 57.402 39.130 0.00 0.00 0.00 2.87
1965 2081 2.456119 GCAAGCGTGGATCCGACAG 61.456 63.158 7.39 0.00 0.00 3.51
2030 2147 2.249309 CAATAATGGAGCCGCGCG 59.751 61.111 25.67 25.67 0.00 6.86
2031 2148 3.649986 AATAATGGAGCCGCGCGC 61.650 61.111 27.36 23.91 37.98 6.86
2072 2189 2.405559 CAGGGGGTTACTAAGTAGGGG 58.594 57.143 0.00 0.00 0.00 4.79
2074 2191 1.135094 GGGGTTACTAAGTAGGGGCC 58.865 60.000 0.00 0.00 0.00 5.80
2092 2218 2.950194 GCGACGGCGAGCTTAGAC 60.950 66.667 18.90 0.00 40.82 2.59
2093 2219 2.483745 CGACGGCGAGCTTAGACA 59.516 61.111 16.62 0.00 40.82 3.41
2094 2220 1.154093 CGACGGCGAGCTTAGACAA 60.154 57.895 16.62 0.00 40.82 3.18
2097 2223 0.389948 ACGGCGAGCTTAGACAAAGG 60.390 55.000 16.62 0.00 35.58 3.11
2098 2224 1.084370 CGGCGAGCTTAGACAAAGGG 61.084 60.000 0.00 0.00 35.58 3.95
2101 2270 1.608283 GCGAGCTTAGACAAAGGGTGT 60.608 52.381 0.00 0.00 45.74 4.16
2104 2273 0.517316 GCTTAGACAAAGGGTGTGCG 59.483 55.000 0.00 0.00 41.96 5.34
2109 2278 2.332514 CAAAGGGTGTGCGTGCAG 59.667 61.111 0.00 0.00 0.00 4.41
2138 2307 1.723273 CGCATGGCCATGTGTGTAG 59.277 57.895 39.52 23.23 42.61 2.74
2139 2308 1.026182 CGCATGGCCATGTGTGTAGT 61.026 55.000 39.52 7.52 42.61 2.73
2141 2310 1.942657 GCATGGCCATGTGTGTAGTAG 59.057 52.381 39.08 16.43 40.80 2.57
2144 2313 1.207089 TGGCCATGTGTGTAGTAGCTC 59.793 52.381 0.00 0.00 0.00 4.09
2146 2315 1.473434 GCCATGTGTGTAGTAGCTCCC 60.473 57.143 0.00 0.00 0.00 4.30
2148 2317 2.501723 CCATGTGTGTAGTAGCTCCCTT 59.498 50.000 0.00 0.00 0.00 3.95
2149 2318 3.525537 CATGTGTGTAGTAGCTCCCTTG 58.474 50.000 0.00 0.00 0.00 3.61
2150 2319 2.884320 TGTGTGTAGTAGCTCCCTTGA 58.116 47.619 0.00 0.00 0.00 3.02
2151 2320 2.826128 TGTGTGTAGTAGCTCCCTTGAG 59.174 50.000 0.00 0.00 41.84 3.02
2152 2321 3.090037 GTGTGTAGTAGCTCCCTTGAGA 58.910 50.000 0.00 0.00 41.42 3.27
2154 2323 3.764434 TGTGTAGTAGCTCCCTTGAGAAG 59.236 47.826 0.00 0.00 41.42 2.85
2155 2324 3.764972 GTGTAGTAGCTCCCTTGAGAAGT 59.235 47.826 0.00 0.00 41.42 3.01
2156 2325 4.221041 GTGTAGTAGCTCCCTTGAGAAGTT 59.779 45.833 0.00 0.00 41.42 2.66
2157 2326 3.971245 AGTAGCTCCCTTGAGAAGTTG 57.029 47.619 0.00 0.00 41.42 3.16
2158 2327 3.511477 AGTAGCTCCCTTGAGAAGTTGA 58.489 45.455 0.00 0.00 41.42 3.18
2159 2328 3.513515 AGTAGCTCCCTTGAGAAGTTGAG 59.486 47.826 0.00 0.00 41.42 3.02
2160 2329 2.614259 AGCTCCCTTGAGAAGTTGAGA 58.386 47.619 0.00 0.00 41.42 3.27
2161 2330 3.180507 AGCTCCCTTGAGAAGTTGAGAT 58.819 45.455 0.00 0.00 41.42 2.75
2162 2331 4.357325 AGCTCCCTTGAGAAGTTGAGATA 58.643 43.478 0.00 0.00 41.42 1.98
2163 2332 4.968080 AGCTCCCTTGAGAAGTTGAGATAT 59.032 41.667 0.00 0.00 41.42 1.63
2164 2333 6.139671 AGCTCCCTTGAGAAGTTGAGATATA 58.860 40.000 0.00 0.00 41.42 0.86
2194 2363 6.647895 GTGTTTGTAAAGGAAGAAGATACCGA 59.352 38.462 0.00 0.00 0.00 4.69
2195 2364 6.872020 TGTTTGTAAAGGAAGAAGATACCGAG 59.128 38.462 0.00 0.00 0.00 4.63
2196 2365 5.007385 TGTAAAGGAAGAAGATACCGAGC 57.993 43.478 0.00 0.00 0.00 5.03
2197 2366 2.873133 AAGGAAGAAGATACCGAGCG 57.127 50.000 0.00 0.00 0.00 5.03
2198 2367 1.033574 AGGAAGAAGATACCGAGCGG 58.966 55.000 7.48 7.48 42.03 5.52
2205 2374 0.036765 AGATACCGAGCGGCAAACAA 60.037 50.000 9.14 0.00 39.32 2.83
2206 2375 0.800012 GATACCGAGCGGCAAACAAA 59.200 50.000 9.14 0.00 39.32 2.83
2207 2376 1.198178 GATACCGAGCGGCAAACAAAA 59.802 47.619 9.14 0.00 39.32 2.44
2208 2377 1.240256 TACCGAGCGGCAAACAAAAT 58.760 45.000 9.14 0.00 39.32 1.82
2209 2378 0.318614 ACCGAGCGGCAAACAAAATG 60.319 50.000 9.14 0.00 39.32 2.32
2266 2444 6.176183 TCTCTGTTTCTTCATCTTGATTCCC 58.824 40.000 0.00 0.00 0.00 3.97
2283 2461 1.900016 CCCACATCATCATGGCCGG 60.900 63.158 0.00 0.00 34.37 6.13
2284 2462 1.148949 CCACATCATCATGGCCGGA 59.851 57.895 5.05 0.00 33.82 5.14
2285 2463 1.168407 CCACATCATCATGGCCGGAC 61.168 60.000 5.05 0.56 33.82 4.79
2286 2464 1.227645 ACATCATCATGGCCGGACG 60.228 57.895 5.05 0.00 33.82 4.79
2317 2498 4.400109 CAGCAGCGGCAGTGCAAG 62.400 66.667 18.61 11.44 43.82 4.01
2319 2500 3.969802 GCAGCGGCAGTGCAAGTT 61.970 61.111 18.61 5.36 40.86 2.66
2323 2504 3.022287 CGGCAGTGCAAGTTCGTT 58.978 55.556 18.61 0.00 0.00 3.85
2324 2505 1.082756 CGGCAGTGCAAGTTCGTTC 60.083 57.895 18.61 0.00 0.00 3.95
2331 2512 1.773525 GTGCAAGTTCGTTCGCTTTTC 59.226 47.619 0.00 0.00 0.00 2.29
2333 2514 1.268335 GCAAGTTCGTTCGCTTTTCCA 60.268 47.619 0.00 0.00 0.00 3.53
2681 2914 1.529152 GGTTTGGGTTTAGCGTGGGG 61.529 60.000 0.00 0.00 0.00 4.96
2807 3046 2.257676 GTGTGGAGTCGGACGTCC 59.742 66.667 25.28 25.28 0.00 4.79
2809 3048 3.756727 GTGGAGTCGGACGTCCCC 61.757 72.222 28.52 22.70 31.04 4.81
2868 3107 2.033141 CACCAGCACCACCAGGAG 59.967 66.667 0.00 0.00 38.69 3.69
2869 3108 2.448542 ACCAGCACCACCAGGAGT 60.449 61.111 0.00 0.00 38.69 3.85
2870 3109 1.152118 ACCAGCACCACCAGGAGTA 60.152 57.895 0.00 0.00 38.69 2.59
2871 3110 1.296715 CCAGCACCACCAGGAGTAC 59.703 63.158 0.00 0.00 38.69 2.73
2872 3111 1.194781 CCAGCACCACCAGGAGTACT 61.195 60.000 0.00 0.00 38.69 2.73
2873 3112 1.557099 CAGCACCACCAGGAGTACTA 58.443 55.000 0.00 0.00 38.69 1.82
2874 3113 1.204941 CAGCACCACCAGGAGTACTAC 59.795 57.143 0.00 0.00 38.69 2.73
2875 3114 1.077334 AGCACCACCAGGAGTACTACT 59.923 52.381 0.17 0.17 38.69 2.57
2876 3115 2.310945 AGCACCACCAGGAGTACTACTA 59.689 50.000 7.47 0.00 38.69 1.82
2880 3119 5.124645 CACCACCAGGAGTACTACTACTAG 58.875 50.000 7.47 0.02 37.26 2.57
2882 3121 5.104569 ACCACCAGGAGTACTACTACTAGTC 60.105 48.000 7.47 0.00 37.26 2.59
2884 3123 4.057432 CCAGGAGTACTACTACTAGTCGC 58.943 52.174 7.47 0.00 37.26 5.19
2887 3126 6.462207 CCAGGAGTACTACTACTAGTCGCTTA 60.462 46.154 7.47 0.00 37.26 3.09
2906 3145 4.767409 GCTTACTTTTTCTTCTGGGTGGAT 59.233 41.667 0.00 0.00 0.00 3.41
2907 3146 5.335976 GCTTACTTTTTCTTCTGGGTGGATG 60.336 44.000 0.00 0.00 0.00 3.51
2908 3147 3.500343 ACTTTTTCTTCTGGGTGGATGG 58.500 45.455 0.00 0.00 0.00 3.51
2909 3148 3.140144 ACTTTTTCTTCTGGGTGGATGGA 59.860 43.478 0.00 0.00 0.00 3.41
2968 3211 3.279875 GCCAATCATCGGTCGCCC 61.280 66.667 0.00 0.00 0.00 6.13
3045 3289 2.292828 CTGGGTGACAGGTTTGGATT 57.707 50.000 0.00 0.00 43.70 3.01
3102 3355 3.390135 GAGTCGACATCAGGTTTTGTGA 58.610 45.455 19.50 0.00 0.00 3.58
3114 3367 4.343814 CAGGTTTTGTGAAAGTTGGGGTAT 59.656 41.667 0.00 0.00 0.00 2.73
3141 3394 1.513858 AAACAGGTGGGTGGTGAGTA 58.486 50.000 0.00 0.00 0.00 2.59
3142 3395 1.056660 AACAGGTGGGTGGTGAGTAG 58.943 55.000 0.00 0.00 0.00 2.57
3157 3418 1.133809 AGTAGGCTGCCAGGGAAACA 61.134 55.000 22.65 0.00 0.00 2.83
3160 3421 1.531602 GGCTGCCAGGGAAACACTT 60.532 57.895 15.17 0.00 0.00 3.16
3162 3423 0.823356 GCTGCCAGGGAAACACTTCA 60.823 55.000 0.00 0.00 32.75 3.02
3170 3431 2.893489 AGGGAAACACTTCAGATTTGGC 59.107 45.455 0.00 0.00 32.75 4.52
3171 3432 2.627699 GGGAAACACTTCAGATTTGGCA 59.372 45.455 0.00 0.00 32.75 4.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
151 159 4.193334 TCTGCTGGATCGGTCGCG 62.193 66.667 0.00 0.00 0.00 5.87
152 160 2.279120 CTCTGCTGGATCGGTCGC 60.279 66.667 0.00 0.00 0.00 5.19
153 161 0.526524 GAACTCTGCTGGATCGGTCG 60.527 60.000 0.00 0.00 0.00 4.79
154 162 0.179097 GGAACTCTGCTGGATCGGTC 60.179 60.000 0.00 0.00 0.00 4.79
155 163 0.904865 TGGAACTCTGCTGGATCGGT 60.905 55.000 0.00 0.00 0.00 4.69
156 164 0.179089 CTGGAACTCTGCTGGATCGG 60.179 60.000 0.00 0.00 0.00 4.18
158 166 0.463474 GCCTGGAACTCTGCTGGATC 60.463 60.000 0.00 0.00 34.35 3.36
159 167 0.913451 AGCCTGGAACTCTGCTGGAT 60.913 55.000 0.00 0.00 34.35 3.41
161 169 1.376942 CAGCCTGGAACTCTGCTGG 60.377 63.158 0.00 0.00 45.69 4.85
163 171 2.350514 GCAGCCTGGAACTCTGCT 59.649 61.111 14.42 0.00 46.93 4.24
165 173 0.676151 GAAGGCAGCCTGGAACTCTG 60.676 60.000 17.05 0.00 32.13 3.35
166 174 0.839853 AGAAGGCAGCCTGGAACTCT 60.840 55.000 17.05 11.06 32.13 3.24
167 175 0.392327 GAGAAGGCAGCCTGGAACTC 60.392 60.000 17.05 16.94 32.13 3.01
168 176 1.682257 GAGAAGGCAGCCTGGAACT 59.318 57.895 17.05 12.34 32.13 3.01
171 179 4.087892 GCGAGAAGGCAGCCTGGA 62.088 66.667 17.05 0.00 32.13 3.86
179 187 1.153229 ATAAACCGGGCGAGAAGGC 60.153 57.895 6.32 0.00 45.91 4.35
180 188 1.436983 GCATAAACCGGGCGAGAAGG 61.437 60.000 6.32 0.00 0.00 3.46
181 189 1.436983 GGCATAAACCGGGCGAGAAG 61.437 60.000 6.32 0.00 0.00 2.85
182 190 1.450669 GGCATAAACCGGGCGAGAA 60.451 57.895 6.32 0.00 0.00 2.87
183 191 2.188469 GGCATAAACCGGGCGAGA 59.812 61.111 6.32 0.00 0.00 4.04
184 192 2.180204 CAGGCATAAACCGGGCGAG 61.180 63.158 6.32 0.00 33.69 5.03
186 194 3.209097 CCAGGCATAAACCGGGCG 61.209 66.667 6.32 0.00 38.27 6.13
190 198 0.544697 ACCCTACCAGGCATAAACCG 59.455 55.000 0.00 0.00 32.73 4.44
191 199 2.484241 CGTACCCTACCAGGCATAAACC 60.484 54.545 0.00 0.00 32.73 3.27
192 200 2.431782 TCGTACCCTACCAGGCATAAAC 59.568 50.000 0.00 0.00 32.73 2.01
193 201 2.696707 CTCGTACCCTACCAGGCATAAA 59.303 50.000 0.00 0.00 32.73 1.40
194 202 2.313317 CTCGTACCCTACCAGGCATAA 58.687 52.381 0.00 0.00 32.73 1.90
195 203 1.479942 CCTCGTACCCTACCAGGCATA 60.480 57.143 0.00 0.00 30.39 3.14
196 204 0.759436 CCTCGTACCCTACCAGGCAT 60.759 60.000 0.00 0.00 30.39 4.40
197 205 1.380785 CCTCGTACCCTACCAGGCA 60.381 63.158 0.00 0.00 30.39 4.75
198 206 3.534941 CCTCGTACCCTACCAGGC 58.465 66.667 0.00 0.00 30.39 4.85
199 207 2.132352 GGCCTCGTACCCTACCAGG 61.132 68.421 0.00 0.00 39.69 4.45
200 208 2.487532 CGGCCTCGTACCCTACCAG 61.488 68.421 0.00 0.00 0.00 4.00
201 209 2.440796 CGGCCTCGTACCCTACCA 60.441 66.667 0.00 0.00 0.00 3.25
202 210 3.909285 GCGGCCTCGTACCCTACC 61.909 72.222 0.00 0.00 38.89 3.18
203 211 4.261781 CGCGGCCTCGTACCCTAC 62.262 72.222 7.05 0.00 38.89 3.18
204 212 4.488136 TCGCGGCCTCGTACCCTA 62.488 66.667 15.86 0.00 38.89 3.53
219 227 4.889856 TCCATGCCCATCGCGTCG 62.890 66.667 5.77 0.00 42.08 5.12
220 228 2.969238 CTCCATGCCCATCGCGTC 60.969 66.667 5.77 0.00 42.08 5.19
221 229 4.552365 CCTCCATGCCCATCGCGT 62.552 66.667 5.77 0.00 42.08 6.01
223 231 4.962836 CCCCTCCATGCCCATCGC 62.963 72.222 0.00 0.00 38.31 4.58
224 232 4.275508 CCCCCTCCATGCCCATCG 62.276 72.222 0.00 0.00 0.00 3.84
225 233 2.704424 AACCCCCTCCATGCCCATC 61.704 63.158 0.00 0.00 0.00 3.51
226 234 2.621449 AACCCCCTCCATGCCCAT 60.621 61.111 0.00 0.00 0.00 4.00
227 235 3.671410 CAACCCCCTCCATGCCCA 61.671 66.667 0.00 0.00 0.00 5.36
228 236 4.463788 CCAACCCCCTCCATGCCC 62.464 72.222 0.00 0.00 0.00 5.36
334 342 3.061831 CGTCTAACGAGCGAGAAAGTCTA 59.938 47.826 0.00 0.00 46.05 2.59
335 343 2.159680 CGTCTAACGAGCGAGAAAGTCT 60.160 50.000 0.00 0.00 46.05 3.24
342 350 1.226323 CCACCGTCTAACGAGCGAG 60.226 63.158 0.24 0.00 46.05 5.03
345 353 1.445582 CCACCACCGTCTAACGAGC 60.446 63.158 0.24 0.00 46.05 5.03
444 455 4.489810 GATGAGTCGATCGCAAATATCCT 58.510 43.478 11.09 0.00 0.00 3.24
462 473 2.271607 GACAGCACGAGCCTCGATGA 62.272 60.000 22.80 0.00 43.74 2.92
463 474 1.875813 GACAGCACGAGCCTCGATG 60.876 63.158 22.80 17.43 43.74 3.84
496 512 1.298157 ATGCACACACGCACGCTAAT 61.298 50.000 0.00 0.00 46.56 1.73
509 525 0.804364 GCTCCACGAAATCATGCACA 59.196 50.000 0.00 0.00 0.00 4.57
533 549 3.373439 GCTAATTGACAAGGTCTGAGCTG 59.627 47.826 10.52 7.35 33.15 4.24
540 556 4.268884 GTGATCGAGCTAATTGACAAGGTC 59.731 45.833 0.90 0.00 36.98 3.85
562 578 1.148310 CGCAACAAGATTCTGACCGT 58.852 50.000 0.00 0.00 0.00 4.83
565 581 1.400242 GCCACGCAACAAGATTCTGAC 60.400 52.381 0.00 0.00 0.00 3.51
575 591 3.538785 ATACCCACGCCACGCAACA 62.539 57.895 0.00 0.00 0.00 3.33
628 645 2.503061 CCAGAGGGCGTGGATGAG 59.497 66.667 0.00 0.00 37.23 2.90
642 659 6.205658 GGATTTATTTTAGTAGCAGAGGCCAG 59.794 42.308 5.01 0.00 42.56 4.85
670 688 0.616395 TCGGCCCTGTGACTTATCCA 60.616 55.000 0.00 0.00 0.00 3.41
685 703 1.298859 GGGTGTGTTGTCTGATCGGC 61.299 60.000 0.00 0.00 0.00 5.54
692 710 1.105167 TCGAGTCGGGTGTGTTGTCT 61.105 55.000 13.54 0.00 0.00 3.41
712 730 3.503827 ATCAACTTGTGCGATACTCGA 57.496 42.857 0.00 0.00 43.74 4.04
719 737 2.741759 TGAGCTATCAACTTGTGCGA 57.258 45.000 0.00 0.00 30.61 5.10
728 746 0.178068 GTCCCGCCTTGAGCTATCAA 59.822 55.000 0.00 0.00 43.20 2.57
741 759 3.279875 GGATTGGCATCGTCCCGC 61.280 66.667 0.00 0.00 0.00 6.13
744 762 1.750193 TTCTTGGATTGGCATCGTCC 58.250 50.000 7.03 7.03 0.00 4.79
862 901 1.510204 GAGTGACTCGCGACAGACG 60.510 63.158 3.71 0.00 45.66 4.18
873 914 1.364171 GGTGCGTGAGTGAGTGACT 59.636 57.895 0.00 0.00 37.76 3.41
874 915 2.016704 CGGTGCGTGAGTGAGTGAC 61.017 63.158 0.00 0.00 0.00 3.67
875 916 2.335011 CGGTGCGTGAGTGAGTGA 59.665 61.111 0.00 0.00 0.00 3.41
876 917 2.734723 CCGGTGCGTGAGTGAGTG 60.735 66.667 0.00 0.00 0.00 3.51
877 918 4.664677 GCCGGTGCGTGAGTGAGT 62.665 66.667 1.90 0.00 0.00 3.41
878 919 2.874010 CTAGCCGGTGCGTGAGTGAG 62.874 65.000 1.90 0.00 44.33 3.51
879 920 2.986979 TAGCCGGTGCGTGAGTGA 60.987 61.111 1.90 0.00 44.33 3.41
880 921 2.486636 TTCTAGCCGGTGCGTGAGTG 62.487 60.000 1.90 0.00 44.33 3.51
882 923 1.078759 CTTTCTAGCCGGTGCGTGAG 61.079 60.000 1.90 0.00 44.33 3.51
883 924 1.080093 CTTTCTAGCCGGTGCGTGA 60.080 57.895 1.90 0.00 44.33 4.35
916 966 0.026803 GTGCGGTGATTCATCGAAGC 59.973 55.000 22.87 5.96 40.81 3.86
945 1002 2.313427 GCTGGTGGGTGGGGGATTA 61.313 63.158 0.00 0.00 0.00 1.75
975 1048 4.533124 TAGCGAGCGGGGATGGGA 62.533 66.667 0.00 0.00 0.00 4.37
976 1049 2.788191 GATTAGCGAGCGGGGATGGG 62.788 65.000 0.00 0.00 0.00 4.00
977 1050 1.374758 GATTAGCGAGCGGGGATGG 60.375 63.158 0.00 0.00 0.00 3.51
978 1051 1.374758 GGATTAGCGAGCGGGGATG 60.375 63.158 0.00 0.00 0.00 3.51
979 1052 2.584391 GGGATTAGCGAGCGGGGAT 61.584 63.158 0.00 0.00 0.00 3.85
980 1053 3.231736 GGGATTAGCGAGCGGGGA 61.232 66.667 0.00 0.00 0.00 4.81
981 1054 4.315941 GGGGATTAGCGAGCGGGG 62.316 72.222 0.00 0.00 0.00 5.73
982 1055 3.546543 TGGGGATTAGCGAGCGGG 61.547 66.667 0.00 0.00 0.00 6.13
983 1056 2.280186 GTGGGGATTAGCGAGCGG 60.280 66.667 0.00 0.00 0.00 5.52
984 1057 2.280186 GGTGGGGATTAGCGAGCG 60.280 66.667 0.00 0.00 0.00 5.03
985 1058 2.280186 CGGTGGGGATTAGCGAGC 60.280 66.667 0.00 0.00 41.14 5.03
986 1059 2.280186 GCGGTGGGGATTAGCGAG 60.280 66.667 0.00 0.00 41.14 5.03
1066 1150 1.771255 GCCTCTCTCTCTCCTCTCTCT 59.229 57.143 0.00 0.00 0.00 3.10
1074 1158 0.678366 TGTGTCGGCCTCTCTCTCTC 60.678 60.000 0.00 0.00 0.00 3.20
1083 1167 2.108976 CTGTGTGTGTGTCGGCCT 59.891 61.111 0.00 0.00 0.00 5.19
1186 1275 1.748122 CTCTCCATGGTGCCTGCAC 60.748 63.158 12.58 13.75 45.49 4.57
1187 1276 2.672908 CTCTCCATGGTGCCTGCA 59.327 61.111 12.58 0.00 0.00 4.41
1188 1277 2.124403 CCTCTCCATGGTGCCTGC 60.124 66.667 12.58 0.00 0.00 4.85
1189 1278 1.565390 TTCCCTCTCCATGGTGCCTG 61.565 60.000 12.58 3.27 0.00 4.85
1190 1279 1.229951 TTCCCTCTCCATGGTGCCT 60.230 57.895 12.58 0.00 0.00 4.75
1192 1281 1.452833 GCTTCCCTCTCCATGGTGC 60.453 63.158 12.58 1.37 0.00 5.01
1193 1282 1.225704 GGCTTCCCTCTCCATGGTG 59.774 63.158 12.58 9.91 0.00 4.17
1194 1283 1.229951 TGGCTTCCCTCTCCATGGT 60.230 57.895 12.58 0.00 0.00 3.55
1728 1838 3.716006 GTCGTCGTCGGTGTCGGA 61.716 66.667 1.55 0.00 37.69 4.55
1746 1856 0.872388 GGGTTTACAGCGGTTCACTG 59.128 55.000 0.00 0.00 41.08 3.66
1793 1903 2.356173 TAGGTATGTAGGCGGCGGGA 62.356 60.000 9.78 0.00 0.00 5.14
1794 1904 1.874345 CTAGGTATGTAGGCGGCGGG 61.874 65.000 9.78 0.00 0.00 6.13
1797 1907 2.512705 AGTACTAGGTATGTAGGCGGC 58.487 52.381 0.00 0.00 0.00 6.53
1836 1952 1.497722 GCTGCTGGTTGCTAACGAC 59.502 57.895 0.00 0.00 43.37 4.34
1838 1954 1.959899 CTCGCTGCTGGTTGCTAACG 61.960 60.000 0.00 0.00 43.37 3.18
1891 2007 5.003692 TGAACTAGTATCTGCTTGCTCAG 57.996 43.478 0.00 0.00 35.46 3.35
1916 2032 5.977635 TGTCTTTCTTCTTGAACTGACTGA 58.022 37.500 0.00 0.00 38.29 3.41
1917 2033 6.293298 CCATGTCTTTCTTCTTGAACTGACTG 60.293 42.308 0.00 0.00 38.29 3.51
1918 2034 5.762218 CCATGTCTTTCTTCTTGAACTGACT 59.238 40.000 0.00 0.00 38.29 3.41
1919 2035 5.049129 CCCATGTCTTTCTTCTTGAACTGAC 60.049 44.000 0.00 0.00 38.12 3.51
1920 2036 5.065914 CCCATGTCTTTCTTCTTGAACTGA 58.934 41.667 0.00 0.00 33.88 3.41
1930 2046 2.978156 TGCTTCCCCATGTCTTTCTT 57.022 45.000 0.00 0.00 0.00 2.52
1931 2047 2.800250 CTTGCTTCCCCATGTCTTTCT 58.200 47.619 0.00 0.00 0.00 2.52
1932 2048 1.203287 GCTTGCTTCCCCATGTCTTTC 59.797 52.381 0.00 0.00 0.00 2.62
1933 2049 1.260544 GCTTGCTTCCCCATGTCTTT 58.739 50.000 0.00 0.00 0.00 2.52
1965 2081 0.958822 ATTTCACCGAACACCTTGCC 59.041 50.000 0.00 0.00 0.00 4.52
2010 2127 0.882927 GCGCGGCTCCATTATTGGTA 60.883 55.000 8.83 0.00 44.06 3.25
2089 2215 2.186826 GCACGCACACCCTTTGTCT 61.187 57.895 0.00 0.00 35.67 3.41
2091 2217 2.439338 TGCACGCACACCCTTTGT 60.439 55.556 0.00 0.00 39.97 2.83
2092 2218 2.332514 CTGCACGCACACCCTTTG 59.667 61.111 0.00 0.00 0.00 2.77
2093 2219 3.595758 GCTGCACGCACACCCTTT 61.596 61.111 0.00 0.00 38.92 3.11
2097 2223 4.332637 CTTGGCTGCACGCACACC 62.333 66.667 0.50 0.00 41.67 4.16
2098 2224 4.988486 GCTTGGCTGCACGCACAC 62.988 66.667 0.50 0.00 41.67 3.82
2101 2270 4.045771 CATGCTTGGCTGCACGCA 62.046 61.111 11.13 11.13 46.33 5.24
2120 2289 1.026182 ACTACACACATGGCCATGCG 61.026 55.000 39.74 33.97 42.39 4.73
2133 2302 3.764972 ACTTCTCAAGGGAGCTACTACAC 59.235 47.826 0.00 0.00 41.13 2.90
2134 2303 4.048970 ACTTCTCAAGGGAGCTACTACA 57.951 45.455 0.00 0.00 41.13 2.74
2135 2304 4.463186 TCAACTTCTCAAGGGAGCTACTAC 59.537 45.833 0.00 0.00 41.13 2.73
2138 2307 3.511934 TCTCAACTTCTCAAGGGAGCTAC 59.488 47.826 0.00 0.00 41.13 3.58
2139 2308 3.779444 TCTCAACTTCTCAAGGGAGCTA 58.221 45.455 0.00 0.00 41.13 3.32
2141 2310 3.625649 ATCTCAACTTCTCAAGGGAGC 57.374 47.619 0.00 0.00 41.13 4.70
2144 2313 8.482128 ACTCTTTATATCTCAACTTCTCAAGGG 58.518 37.037 0.00 0.00 0.00 3.95
2146 2315 9.868277 ACACTCTTTATATCTCAACTTCTCAAG 57.132 33.333 0.00 0.00 0.00 3.02
2162 2331 9.847224 TCTTCTTCCTTTACAAACACTCTTTAT 57.153 29.630 0.00 0.00 0.00 1.40
2163 2332 9.847224 ATCTTCTTCCTTTACAAACACTCTTTA 57.153 29.630 0.00 0.00 0.00 1.85
2164 2333 8.753497 ATCTTCTTCCTTTACAAACACTCTTT 57.247 30.769 0.00 0.00 0.00 2.52
2194 2363 1.866601 GCTTTCATTTTGTTTGCCGCT 59.133 42.857 0.00 0.00 0.00 5.52
2195 2364 1.866601 AGCTTTCATTTTGTTTGCCGC 59.133 42.857 0.00 0.00 0.00 6.53
2196 2365 3.555139 TGAAGCTTTCATTTTGTTTGCCG 59.445 39.130 0.00 0.00 34.08 5.69
2197 2366 5.294060 TCTTGAAGCTTTCATTTTGTTTGCC 59.706 36.000 0.00 0.00 39.84 4.52
2198 2367 6.348621 TCTTGAAGCTTTCATTTTGTTTGC 57.651 33.333 0.00 0.00 39.84 3.68
2205 2374 7.673180 TGGAATGATTCTTGAAGCTTTCATTT 58.327 30.769 18.22 6.95 39.84 2.32
2206 2375 7.235935 TGGAATGATTCTTGAAGCTTTCATT 57.764 32.000 17.53 17.53 39.84 2.57
2207 2376 6.845758 TGGAATGATTCTTGAAGCTTTCAT 57.154 33.333 20.58 1.42 39.84 2.57
2208 2377 6.845758 ATGGAATGATTCTTGAAGCTTTCA 57.154 33.333 20.58 0.00 38.04 2.69
2266 2444 1.148949 TCCGGCCATGATGATGTGG 59.851 57.895 2.24 0.00 38.55 4.17
2283 2461 1.373570 CTGCTTTCCTGGAATCCGTC 58.626 55.000 10.45 0.00 0.00 4.79
2284 2462 0.678048 GCTGCTTTCCTGGAATCCGT 60.678 55.000 10.45 0.00 0.00 4.69
2285 2463 0.677731 TGCTGCTTTCCTGGAATCCG 60.678 55.000 10.45 3.46 0.00 4.18
2286 2464 1.101331 CTGCTGCTTTCCTGGAATCC 58.899 55.000 10.45 5.02 0.00 3.01
2317 2498 2.349532 CCTCTTGGAAAAGCGAACGAAC 60.350 50.000 0.00 0.00 34.57 3.95
2319 2500 1.069513 TCCTCTTGGAAAAGCGAACGA 59.930 47.619 0.00 0.00 39.87 3.85
2331 2512 1.226746 GTGTTCGGTGTTCCTCTTGG 58.773 55.000 0.00 0.00 0.00 3.61
2333 2514 3.284197 CGTGTTCGGTGTTCCTCTT 57.716 52.632 0.00 0.00 0.00 2.85
2609 2825 1.351430 CGCCCATCATATGCCGTACG 61.351 60.000 8.69 8.69 0.00 3.67
2649 2878 0.951040 CCAAACCTCGTGAGCACCTC 60.951 60.000 0.00 0.00 0.00 3.85
2807 3046 2.731571 ATGTCCATGGACCGACGGG 61.732 63.158 36.27 0.00 43.97 5.28
2809 3048 4.108902 CATGTCCATGGACCGACG 57.891 61.111 36.27 20.53 43.97 5.12
2868 3107 9.484326 GAAAAAGTAAGCGACTAGTAGTAGTAC 57.516 37.037 10.28 6.23 39.78 2.73
2869 3108 9.442047 AGAAAAAGTAAGCGACTAGTAGTAGTA 57.558 33.333 10.28 0.00 39.78 1.82
2870 3109 8.334263 AGAAAAAGTAAGCGACTAGTAGTAGT 57.666 34.615 10.09 10.09 42.59 2.73
2871 3110 9.276397 GAAGAAAAAGTAAGCGACTAGTAGTAG 57.724 37.037 1.88 4.26 37.44 2.57
2872 3111 9.007901 AGAAGAAAAAGTAAGCGACTAGTAGTA 57.992 33.333 1.88 0.00 37.44 1.82
2873 3112 7.808856 CAGAAGAAAAAGTAAGCGACTAGTAGT 59.191 37.037 1.37 1.37 37.44 2.73
2874 3113 7.273815 CCAGAAGAAAAAGTAAGCGACTAGTAG 59.726 40.741 0.00 0.00 37.44 2.57
2875 3114 7.088905 CCAGAAGAAAAAGTAAGCGACTAGTA 58.911 38.462 0.00 0.00 37.44 1.82
2876 3115 5.927115 CCAGAAGAAAAAGTAAGCGACTAGT 59.073 40.000 0.00 0.00 37.44 2.57
2880 3119 3.813724 ACCCAGAAGAAAAAGTAAGCGAC 59.186 43.478 0.00 0.00 0.00 5.19
2882 3121 3.058224 CCACCCAGAAGAAAAAGTAAGCG 60.058 47.826 0.00 0.00 0.00 4.68
2884 3123 5.183904 CCATCCACCCAGAAGAAAAAGTAAG 59.816 44.000 0.00 0.00 0.00 2.34
2887 3126 3.140144 TCCATCCACCCAGAAGAAAAAGT 59.860 43.478 0.00 0.00 0.00 2.66
2906 3145 1.499870 TCCCATGCATGATTCCATCCA 59.500 47.619 28.31 0.00 0.00 3.41
2907 3146 2.297698 TCCCATGCATGATTCCATCC 57.702 50.000 28.31 0.00 0.00 3.51
2908 3147 2.496070 CCATCCCATGCATGATTCCATC 59.504 50.000 28.31 0.00 0.00 3.51
2909 3148 2.536066 CCATCCCATGCATGATTCCAT 58.464 47.619 28.31 8.83 0.00 3.41
2950 3189 3.279875 GGCGACCGATGATTGGCC 61.280 66.667 0.00 0.00 0.00 5.36
2968 3211 2.365068 CGCGCGATCCGGATAGTTG 61.365 63.158 28.94 17.42 37.44 3.16
3010 3254 1.515521 CCAGTTCAACGGGGAGCAAC 61.516 60.000 0.00 0.00 29.33 4.17
3012 3256 2.429930 CCAGTTCAACGGGGAGCA 59.570 61.111 0.00 0.00 29.33 4.26
3036 3280 5.514274 TGAAACTTCTCACAATCCAAACC 57.486 39.130 0.00 0.00 0.00 3.27
3041 3285 7.226325 CAGATCCTATGAAACTTCTCACAATCC 59.774 40.741 0.00 0.00 0.00 3.01
3043 3287 7.855375 TCAGATCCTATGAAACTTCTCACAAT 58.145 34.615 0.00 0.00 0.00 2.71
3045 3289 6.857437 TCAGATCCTATGAAACTTCTCACA 57.143 37.500 0.00 0.00 0.00 3.58
3102 3355 8.154203 CCTGTTTTGATTTTATACCCCAACTTT 58.846 33.333 0.00 0.00 0.00 2.66
3114 3367 4.100189 CACCACCCACCTGTTTTGATTTTA 59.900 41.667 0.00 0.00 0.00 1.52
3141 3394 2.011617 AAGTGTTTCCCTGGCAGCCT 62.012 55.000 14.15 0.00 0.00 4.58
3142 3395 1.527433 GAAGTGTTTCCCTGGCAGCC 61.527 60.000 9.56 3.66 0.00 4.85
3157 3418 5.486526 TGTTTGTTTTGCCAAATCTGAAGT 58.513 33.333 0.00 0.00 36.75 3.01


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

AutoCloner maintained by Alex Coulton.