Multiple sequence alignment - TraesCS6D01G258500

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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 TraesCS6D01G258500 chr6D 100.000 2404 0 0 1 2404 364438403 364436000 0.000000e+00 4440.0
1 TraesCS6D01G258500 chr6D 76.126 1177 234 42 418 1562 313795687 313794526 7.450000e-160 573.0
2 TraesCS6D01G258500 chr6D 74.188 1170 265 31 418 1560 313721388 313720229 1.010000e-123 453.0
3 TraesCS6D01G258500 chr6D 96.014 276 10 1 2128 2403 364430631 364430357 4.710000e-122 448.0
4 TraesCS6D01G258500 chr6D 75.492 914 185 31 629 1522 10815640 10814746 6.190000e-111 411.0
5 TraesCS6D01G258500 chr6D 84.932 73 5 5 1707 1775 351261808 351261738 4.290000e-08 69.4
6 TraesCS6D01G258500 chr6A 95.016 2127 103 3 1 2125 505898542 505896417 0.000000e+00 3338.0
7 TraesCS6D01G258500 chr6A 76.112 1147 239 30 453 1573 441150297 441149160 3.470000e-158 568.0
8 TraesCS6D01G258500 chr6A 75.683 1172 241 39 418 1562 450684247 450683093 1.630000e-151 545.0
9 TraesCS6D01G258500 chr6A 75.747 1138 233 35 453 1560 441084635 441083511 1.270000e-147 532.0
10 TraesCS6D01G258500 chr6A 75.595 1135 239 33 453 1560 441032972 441031849 5.890000e-146 527.0
11 TraesCS6D01G258500 chr6A 80.882 204 36 3 1370 1573 444070413 444070613 8.900000e-35 158.0
12 TraesCS6D01G258500 chr6B 93.055 2131 133 10 1 2123 549415408 549413285 0.000000e+00 3101.0
13 TraesCS6D01G258500 chr6B 74.918 913 188 33 629 1522 20668021 20667131 1.740000e-101 379.0
14 TraesCS6D01G258500 chr6B 72.414 812 176 27 746 1523 20625208 20624411 5.210000e-52 215.0
15 TraesCS6D01G258500 chr4A 85.814 860 96 12 629 1474 657939105 657938258 0.000000e+00 889.0
16 TraesCS6D01G258500 chr4A 84.408 853 102 20 629 1474 657978383 657977555 0.000000e+00 809.0
17 TraesCS6D01G258500 chr5D 96.071 280 11 0 2125 2404 196207500 196207779 7.830000e-125 457.0
18 TraesCS6D01G258500 chr3D 96.029 277 11 0 2128 2404 183358767 183358491 3.640000e-123 451.0
19 TraesCS6D01G258500 chr3D 81.657 169 25 6 1700 1864 575754911 575754745 4.170000e-28 135.0
20 TraesCS6D01G258500 chr2D 95.714 280 11 1 2125 2404 385141202 385141480 1.310000e-122 449.0
21 TraesCS6D01G258500 chr2D 95.000 280 14 0 2125 2404 147805263 147805542 7.890000e-120 440.0
22 TraesCS6D01G258500 chr2D 81.757 148 22 4 1723 1868 578872976 578873120 4.200000e-23 119.0
23 TraesCS6D01G258500 chrUn 95.668 277 12 0 2128 2404 286558094 286557818 1.700000e-121 446.0
24 TraesCS6D01G258500 chrUn 95.668 277 12 0 2128 2404 311978716 311978992 1.700000e-121 446.0
25 TraesCS6D01G258500 chr4D 95.018 281 14 0 2124 2404 48033879 48033599 2.190000e-120 442.0
26 TraesCS6D01G258500 chr1D 95.018 281 13 1 2124 2404 413265462 413265741 7.890000e-120 440.0
27 TraesCS6D01G258500 chr3A 73.515 808 169 30 746 1522 133684289 133683496 5.100000e-67 265.0
28 TraesCS6D01G258500 chr2A 95.556 45 2 0 1306 1350 5404986 5404942 3.320000e-09 73.1
29 TraesCS6D01G258500 chr2A 84.932 73 5 5 1707 1775 439434577 439434507 4.290000e-08 69.4
30 TraesCS6D01G258500 chr2B 83.562 73 7 4 1707 1775 633630461 633630390 2.000000e-06 63.9
31 TraesCS6D01G258500 chr2B 84.058 69 5 5 1707 1772 326770000 326769935 7.180000e-06 62.1
32 TraesCS6D01G258500 chr7A 83.562 73 5 6 1707 1775 657536628 657536697 7.180000e-06 62.1


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 TraesCS6D01G258500 chr6D 364436000 364438403 2403 True 4440 4440 100.000 1 2404 1 chr6D.!!$R6 2403
1 TraesCS6D01G258500 chr6D 313794526 313795687 1161 True 573 573 76.126 418 1562 1 chr6D.!!$R3 1144
2 TraesCS6D01G258500 chr6D 313720229 313721388 1159 True 453 453 74.188 418 1560 1 chr6D.!!$R2 1142
3 TraesCS6D01G258500 chr6D 10814746 10815640 894 True 411 411 75.492 629 1522 1 chr6D.!!$R1 893
4 TraesCS6D01G258500 chr6A 505896417 505898542 2125 True 3338 3338 95.016 1 2125 1 chr6A.!!$R5 2124
5 TraesCS6D01G258500 chr6A 441149160 441150297 1137 True 568 568 76.112 453 1573 1 chr6A.!!$R3 1120
6 TraesCS6D01G258500 chr6A 450683093 450684247 1154 True 545 545 75.683 418 1562 1 chr6A.!!$R4 1144
7 TraesCS6D01G258500 chr6A 441083511 441084635 1124 True 532 532 75.747 453 1560 1 chr6A.!!$R2 1107
8 TraesCS6D01G258500 chr6A 441031849 441032972 1123 True 527 527 75.595 453 1560 1 chr6A.!!$R1 1107
9 TraesCS6D01G258500 chr6B 549413285 549415408 2123 True 3101 3101 93.055 1 2123 1 chr6B.!!$R3 2122
10 TraesCS6D01G258500 chr6B 20667131 20668021 890 True 379 379 74.918 629 1522 1 chr6B.!!$R2 893
11 TraesCS6D01G258500 chr6B 20624411 20625208 797 True 215 215 72.414 746 1523 1 chr6B.!!$R1 777
12 TraesCS6D01G258500 chr4A 657938258 657939105 847 True 889 889 85.814 629 1474 1 chr4A.!!$R1 845
13 TraesCS6D01G258500 chr4A 657977555 657978383 828 True 809 809 84.408 629 1474 1 chr4A.!!$R2 845
14 TraesCS6D01G258500 chr3A 133683496 133684289 793 True 265 265 73.515 746 1522 1 chr3A.!!$R1 776

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
32 33 1.071699 GGAGCAACACTACACTTCCCA 59.928 52.381 0.0 0.0 0.0 4.37 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1897 1953 1.077265 CCCACATGCTGGAGGGTTT 59.923 57.895 13.86 0.0 43.95 3.27 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
32 33 1.071699 GGAGCAACACTACACTTCCCA 59.928 52.381 0.00 0.00 0.00 4.37
33 34 2.143925 GAGCAACACTACACTTCCCAC 58.856 52.381 0.00 0.00 0.00 4.61
86 88 6.603997 ACCAAATAAACCACACACAAACTAGA 59.396 34.615 0.00 0.00 0.00 2.43
104 106 6.561519 ACTAGAAGTAGGGTGTTATGCAAT 57.438 37.500 0.00 0.00 0.00 3.56
106 108 4.442706 AGAAGTAGGGTGTTATGCAATCG 58.557 43.478 0.00 0.00 0.00 3.34
154 156 7.361127 CGTAGTGTCTTTCTACTCTTTTCTCA 58.639 38.462 0.00 0.00 36.57 3.27
285 288 5.734720 TCTAAAGCCTTGAGTATCCACAAG 58.265 41.667 0.00 0.00 41.85 3.16
314 317 3.010420 GTCATGTCCTTGTTTCCTAGCC 58.990 50.000 0.00 0.00 0.00 3.93
720 728 6.699204 CAGACAAAGCGACATCTTGTAGATAT 59.301 38.462 0.00 0.00 32.12 1.63
830 842 3.946606 TCCATGCAGATATAGCCACATG 58.053 45.455 11.85 11.85 35.73 3.21
1044 1069 3.055819 GCCTATTATGCCTGCTACTGCTA 60.056 47.826 0.00 0.00 40.48 3.49
1066 1091 6.598064 GCTAATGCCACTTCTTTTAGTTCCTA 59.402 38.462 0.00 0.00 0.00 2.94
1200 1233 8.868522 TCTTGTTTCTTCATGGAAGATTGTAT 57.131 30.769 9.29 0.00 46.20 2.29
1579 1635 5.237127 CGATGCAGGTACATCAAACATATGT 59.763 40.000 1.41 1.41 45.56 2.29
1580 1636 6.238456 CGATGCAGGTACATCAAACATATGTT 60.238 38.462 15.47 15.47 45.56 2.71
1582 1638 5.709631 TGCAGGTACATCAAACATATGTTGT 59.290 36.000 21.46 17.16 41.53 3.32
1661 1717 4.283212 CACCCACAAACATTTTGTCCCTAT 59.717 41.667 1.25 0.00 0.00 2.57
1713 1769 7.593875 TTGGTGATGCTTGTTAAAAATATGC 57.406 32.000 0.00 0.00 0.00 3.14
1877 1933 0.108615 GATCCCCAGTGTCAGTGTCG 60.109 60.000 6.91 0.00 0.00 4.35
1878 1934 0.832135 ATCCCCAGTGTCAGTGTCGT 60.832 55.000 6.91 0.00 0.00 4.34
1885 1941 4.413087 CCAGTGTCAGTGTCGTAGATAAC 58.587 47.826 6.91 0.00 40.67 1.89
1949 2005 1.774110 TAATTACCGGGAGTACGCCA 58.226 50.000 17.99 0.00 0.00 5.69
1953 2009 0.396139 TACCGGGAGTACGCCAAGAT 60.396 55.000 17.99 0.05 0.00 2.40
2064 2120 2.719739 CATCACCCTTGCATTGACTCT 58.280 47.619 0.00 0.00 0.00 3.24
2067 2123 4.574674 TCACCCTTGCATTGACTCTAAT 57.425 40.909 0.00 0.00 0.00 1.73
2105 2161 2.040544 CCACACCCATCCTGCGAAC 61.041 63.158 0.00 0.00 0.00 3.95
2110 2166 4.776322 CCATCCTGCGAACGCCCA 62.776 66.667 16.27 0.87 41.09 5.36
2128 2184 3.308438 CCAAAGAATGGGCTTTCACTG 57.692 47.619 0.00 1.37 46.27 3.66
2129 2185 2.629617 CCAAAGAATGGGCTTTCACTGT 59.370 45.455 0.00 0.00 46.27 3.55
2130 2186 3.305608 CCAAAGAATGGGCTTTCACTGTC 60.306 47.826 0.00 0.00 46.27 3.51
2131 2187 1.813513 AGAATGGGCTTTCACTGTCG 58.186 50.000 4.10 0.00 0.00 4.35
2132 2188 0.804989 GAATGGGCTTTCACTGTCGG 59.195 55.000 0.00 0.00 0.00 4.79
2133 2189 0.110486 AATGGGCTTTCACTGTCGGT 59.890 50.000 0.00 0.00 0.00 4.69
2134 2190 0.110486 ATGGGCTTTCACTGTCGGTT 59.890 50.000 0.00 0.00 0.00 4.44
2135 2191 0.534203 TGGGCTTTCACTGTCGGTTC 60.534 55.000 0.00 0.00 0.00 3.62
2136 2192 0.250338 GGGCTTTCACTGTCGGTTCT 60.250 55.000 0.00 0.00 0.00 3.01
2137 2193 1.001633 GGGCTTTCACTGTCGGTTCTA 59.998 52.381 0.00 0.00 0.00 2.10
2138 2194 2.354805 GGGCTTTCACTGTCGGTTCTAT 60.355 50.000 0.00 0.00 0.00 1.98
2139 2195 3.118884 GGGCTTTCACTGTCGGTTCTATA 60.119 47.826 0.00 0.00 0.00 1.31
2140 2196 4.443034 GGGCTTTCACTGTCGGTTCTATAT 60.443 45.833 0.00 0.00 0.00 0.86
2141 2197 4.745620 GGCTTTCACTGTCGGTTCTATATC 59.254 45.833 0.00 0.00 0.00 1.63
2142 2198 4.745620 GCTTTCACTGTCGGTTCTATATCC 59.254 45.833 0.00 0.00 0.00 2.59
2143 2199 4.563337 TTCACTGTCGGTTCTATATCCG 57.437 45.455 0.00 0.00 46.93 4.18
2144 2200 2.882761 TCACTGTCGGTTCTATATCCGG 59.117 50.000 0.00 0.00 45.79 5.14
2146 2202 3.396491 GTCGGTTCTATATCCGGCG 57.604 57.895 0.00 0.00 45.79 6.46
2147 2203 0.595095 GTCGGTTCTATATCCGGCGT 59.405 55.000 6.01 0.00 45.79 5.68
2148 2204 1.806542 GTCGGTTCTATATCCGGCGTA 59.193 52.381 6.01 0.00 45.79 4.42
2149 2205 2.421424 GTCGGTTCTATATCCGGCGTAT 59.579 50.000 6.01 0.00 45.79 3.06
2150 2206 2.679837 TCGGTTCTATATCCGGCGTATC 59.320 50.000 6.01 0.00 45.79 2.24
2151 2207 2.681848 CGGTTCTATATCCGGCGTATCT 59.318 50.000 6.01 0.00 42.61 1.98
2152 2208 3.242673 CGGTTCTATATCCGGCGTATCTC 60.243 52.174 6.01 0.00 42.61 2.75
2153 2209 3.242673 GGTTCTATATCCGGCGTATCTCG 60.243 52.174 6.01 0.00 43.12 4.04
2154 2210 3.257469 TCTATATCCGGCGTATCTCGT 57.743 47.619 6.01 0.00 42.13 4.18
2155 2211 4.391405 TCTATATCCGGCGTATCTCGTA 57.609 45.455 6.01 0.00 42.13 3.43
2156 2212 4.366586 TCTATATCCGGCGTATCTCGTAG 58.633 47.826 6.01 0.00 42.13 3.51
2157 2213 2.462456 TATCCGGCGTATCTCGTAGT 57.538 50.000 6.01 0.00 42.13 2.73
2158 2214 2.462456 ATCCGGCGTATCTCGTAGTA 57.538 50.000 6.01 0.00 42.13 1.82
2159 2215 1.788258 TCCGGCGTATCTCGTAGTAG 58.212 55.000 6.01 0.00 42.13 2.57
2160 2216 0.795085 CCGGCGTATCTCGTAGTAGG 59.205 60.000 6.01 0.00 42.13 3.18
2161 2217 0.795085 CGGCGTATCTCGTAGTAGGG 59.205 60.000 0.00 0.00 42.13 3.53
2162 2218 1.163554 GGCGTATCTCGTAGTAGGGG 58.836 60.000 0.00 0.00 42.13 4.79
2163 2219 1.544314 GGCGTATCTCGTAGTAGGGGT 60.544 57.143 0.00 0.00 42.13 4.95
2164 2220 1.803555 GCGTATCTCGTAGTAGGGGTC 59.196 57.143 0.00 0.00 42.13 4.46
2165 2221 2.421619 CGTATCTCGTAGTAGGGGTCC 58.578 57.143 0.00 0.00 34.52 4.46
2166 2222 2.038295 CGTATCTCGTAGTAGGGGTCCT 59.962 54.545 0.00 0.00 34.56 3.85
2167 2223 3.259374 CGTATCTCGTAGTAGGGGTCCTA 59.741 52.174 0.00 0.00 33.10 2.94
2168 2224 4.262635 CGTATCTCGTAGTAGGGGTCCTAA 60.263 50.000 0.00 0.00 34.81 2.69
2169 2225 3.853355 TCTCGTAGTAGGGGTCCTAAG 57.147 52.381 0.00 0.00 37.91 2.18
2170 2226 2.158696 TCTCGTAGTAGGGGTCCTAAGC 60.159 54.545 0.00 0.00 37.91 3.09
2171 2227 1.849039 TCGTAGTAGGGGTCCTAAGCT 59.151 52.381 0.00 0.00 37.91 3.74
2172 2228 3.048600 TCGTAGTAGGGGTCCTAAGCTA 58.951 50.000 0.00 0.00 37.91 3.32
2173 2229 3.072184 TCGTAGTAGGGGTCCTAAGCTAG 59.928 52.174 0.00 0.00 37.91 3.42
2175 2231 1.133104 AGTAGGGGTCCTAAGCTAGGC 60.133 57.143 0.00 0.00 45.82 3.93
2176 2232 0.938945 TAGGGGTCCTAAGCTAGGCA 59.061 55.000 0.00 0.00 45.82 4.75
2177 2233 0.269173 AGGGGTCCTAAGCTAGGCAT 59.731 55.000 0.00 0.00 45.82 4.40
2178 2234 0.687920 GGGGTCCTAAGCTAGGCATC 59.312 60.000 0.00 0.00 45.82 3.91
2179 2235 1.723288 GGGTCCTAAGCTAGGCATCT 58.277 55.000 0.00 0.00 45.82 2.90
2180 2236 2.050918 GGGTCCTAAGCTAGGCATCTT 58.949 52.381 0.00 0.00 45.82 2.40
2181 2237 2.224402 GGGTCCTAAGCTAGGCATCTTG 60.224 54.545 0.00 0.00 45.82 3.02
2182 2238 2.224402 GGTCCTAAGCTAGGCATCTTGG 60.224 54.545 0.00 0.00 45.82 3.61
2183 2239 2.700897 GTCCTAAGCTAGGCATCTTGGA 59.299 50.000 0.00 0.00 45.82 3.53
2184 2240 2.968574 TCCTAAGCTAGGCATCTTGGAG 59.031 50.000 0.00 0.00 45.82 3.86
2185 2241 2.549778 CCTAAGCTAGGCATCTTGGAGC 60.550 54.545 0.00 0.00 39.48 4.70
2186 2242 0.179062 AAGCTAGGCATCTTGGAGCG 60.179 55.000 0.00 0.00 38.20 5.03
2187 2243 1.045350 AGCTAGGCATCTTGGAGCGA 61.045 55.000 0.00 0.00 38.20 4.93
2188 2244 0.034616 GCTAGGCATCTTGGAGCGAT 59.965 55.000 0.00 0.00 0.00 4.58
2189 2245 1.793258 CTAGGCATCTTGGAGCGATG 58.207 55.000 0.00 0.00 40.87 3.84
2190 2246 0.394192 TAGGCATCTTGGAGCGATGG 59.606 55.000 0.00 0.00 38.88 3.51
2191 2247 1.895707 GGCATCTTGGAGCGATGGG 60.896 63.158 0.00 0.00 38.88 4.00
2192 2248 1.153086 GCATCTTGGAGCGATGGGT 60.153 57.895 0.00 0.00 38.88 4.51
2193 2249 0.106708 GCATCTTGGAGCGATGGGTA 59.893 55.000 0.00 0.00 38.88 3.69
2194 2250 1.475034 GCATCTTGGAGCGATGGGTAA 60.475 52.381 0.00 0.00 38.88 2.85
2195 2251 2.213499 CATCTTGGAGCGATGGGTAAC 58.787 52.381 0.00 0.00 35.71 2.50
2196 2252 1.271856 TCTTGGAGCGATGGGTAACA 58.728 50.000 0.00 0.00 39.74 2.41
2197 2253 1.207089 TCTTGGAGCGATGGGTAACAG 59.793 52.381 0.00 0.00 39.74 3.16
2198 2254 0.251916 TTGGAGCGATGGGTAACAGG 59.748 55.000 0.00 0.00 39.74 4.00
2199 2255 0.616395 TGGAGCGATGGGTAACAGGA 60.616 55.000 0.00 0.00 39.74 3.86
2200 2256 0.105039 GGAGCGATGGGTAACAGGAG 59.895 60.000 0.00 0.00 39.74 3.69
2201 2257 1.112113 GAGCGATGGGTAACAGGAGA 58.888 55.000 0.00 0.00 39.74 3.71
2202 2258 0.824759 AGCGATGGGTAACAGGAGAC 59.175 55.000 0.00 0.00 39.74 3.36
2203 2259 0.527817 GCGATGGGTAACAGGAGACG 60.528 60.000 0.00 0.00 39.74 4.18
2204 2260 1.100510 CGATGGGTAACAGGAGACGA 58.899 55.000 0.00 0.00 39.74 4.20
2205 2261 1.065701 CGATGGGTAACAGGAGACGAG 59.934 57.143 0.00 0.00 39.74 4.18
2206 2262 1.409427 GATGGGTAACAGGAGACGAGG 59.591 57.143 0.00 0.00 39.74 4.63
2207 2263 0.613853 TGGGTAACAGGAGACGAGGG 60.614 60.000 0.00 0.00 39.74 4.30
2208 2264 0.324091 GGGTAACAGGAGACGAGGGA 60.324 60.000 0.00 0.00 39.74 4.20
2209 2265 0.816373 GGTAACAGGAGACGAGGGAC 59.184 60.000 0.00 0.00 0.00 4.46
2210 2266 1.542492 GTAACAGGAGACGAGGGACA 58.458 55.000 0.00 0.00 0.00 4.02
2211 2267 1.201880 GTAACAGGAGACGAGGGACAC 59.798 57.143 0.00 0.00 0.00 3.67
2220 2276 2.818350 CGAGGGACACGGTGTTTAC 58.182 57.895 15.94 8.88 39.10 2.01
2221 2277 0.668401 CGAGGGACACGGTGTTTACC 60.668 60.000 15.94 16.90 43.89 2.85
2222 2278 0.321034 GAGGGACACGGTGTTTACCC 60.321 60.000 22.60 22.60 44.53 3.69
2223 2279 1.055551 AGGGACACGGTGTTTACCCA 61.056 55.000 28.35 0.00 44.53 4.51
2224 2280 0.604511 GGGACACGGTGTTTACCCAG 60.605 60.000 24.26 0.00 44.53 4.45
2225 2281 0.604511 GGACACGGTGTTTACCCAGG 60.605 60.000 15.94 0.00 44.53 4.45
2226 2282 0.107268 GACACGGTGTTTACCCAGGT 59.893 55.000 15.94 0.00 44.53 4.00
2227 2283 0.547553 ACACGGTGTTTACCCAGGTT 59.452 50.000 8.21 0.00 44.53 3.50
2228 2284 1.232119 CACGGTGTTTACCCAGGTTC 58.768 55.000 0.00 0.00 44.53 3.62
2229 2285 0.249996 ACGGTGTTTACCCAGGTTCG 60.250 55.000 0.00 0.00 44.53 3.95
2230 2286 0.952010 CGGTGTTTACCCAGGTTCGG 60.952 60.000 0.00 0.00 44.53 4.30
2238 2294 3.787001 CCAGGTTCGGGCCCTCTC 61.787 72.222 22.43 9.34 0.00 3.20
2239 2295 2.685380 CAGGTTCGGGCCCTCTCT 60.685 66.667 22.43 9.12 0.00 3.10
2240 2296 2.685380 AGGTTCGGGCCCTCTCTG 60.685 66.667 22.43 3.20 0.00 3.35
2241 2297 2.683933 GGTTCGGGCCCTCTCTGA 60.684 66.667 22.43 6.16 0.00 3.27
2242 2298 2.726351 GGTTCGGGCCCTCTCTGAG 61.726 68.421 22.43 1.43 0.00 3.35
2243 2299 1.682684 GTTCGGGCCCTCTCTGAGA 60.683 63.158 22.43 7.24 0.00 3.27
2244 2300 1.380515 TTCGGGCCCTCTCTGAGAG 60.381 63.158 24.56 24.56 41.96 3.20
2256 2312 5.585820 CTCTCTGAGAGGTAAAACCCTAC 57.414 47.826 23.95 0.00 39.75 3.18
2257 2313 5.265989 CTCTCTGAGAGGTAAAACCCTACT 58.734 45.833 23.95 0.00 39.75 2.57
2258 2314 5.262804 TCTCTGAGAGGTAAAACCCTACTC 58.737 45.833 9.97 0.00 39.75 2.59
2259 2315 4.351127 TCTGAGAGGTAAAACCCTACTCC 58.649 47.826 10.70 0.00 39.75 3.85
2260 2316 4.045590 TCTGAGAGGTAAAACCCTACTCCT 59.954 45.833 10.70 0.00 39.75 3.69
2261 2317 4.094476 TGAGAGGTAAAACCCTACTCCTG 58.906 47.826 10.70 0.00 39.75 3.86
2262 2318 2.838813 AGAGGTAAAACCCTACTCCTGC 59.161 50.000 0.00 0.00 39.75 4.85
2263 2319 2.838813 GAGGTAAAACCCTACTCCTGCT 59.161 50.000 0.00 0.00 39.75 4.24
2264 2320 3.257578 AGGTAAAACCCTACTCCTGCTT 58.742 45.455 0.00 0.00 39.75 3.91
2265 2321 3.009143 AGGTAAAACCCTACTCCTGCTTG 59.991 47.826 0.00 0.00 39.75 4.01
2266 2322 3.008704 GGTAAAACCCTACTCCTGCTTGA 59.991 47.826 0.00 0.00 30.04 3.02
2267 2323 4.324331 GGTAAAACCCTACTCCTGCTTGAT 60.324 45.833 0.00 0.00 30.04 2.57
2268 2324 4.388577 AAAACCCTACTCCTGCTTGATT 57.611 40.909 0.00 0.00 0.00 2.57
2269 2325 5.514500 AAAACCCTACTCCTGCTTGATTA 57.486 39.130 0.00 0.00 0.00 1.75
2270 2326 5.717119 AAACCCTACTCCTGCTTGATTAT 57.283 39.130 0.00 0.00 0.00 1.28
2271 2327 6.824958 AAACCCTACTCCTGCTTGATTATA 57.175 37.500 0.00 0.00 0.00 0.98
2272 2328 7.394144 AAACCCTACTCCTGCTTGATTATAT 57.606 36.000 0.00 0.00 0.00 0.86
2273 2329 7.394144 AACCCTACTCCTGCTTGATTATATT 57.606 36.000 0.00 0.00 0.00 1.28
2274 2330 7.394144 ACCCTACTCCTGCTTGATTATATTT 57.606 36.000 0.00 0.00 0.00 1.40
2275 2331 7.227156 ACCCTACTCCTGCTTGATTATATTTG 58.773 38.462 0.00 0.00 0.00 2.32
2276 2332 7.072454 ACCCTACTCCTGCTTGATTATATTTGA 59.928 37.037 0.00 0.00 0.00 2.69
2277 2333 8.105829 CCCTACTCCTGCTTGATTATATTTGAT 58.894 37.037 0.00 0.00 0.00 2.57
2278 2334 8.944029 CCTACTCCTGCTTGATTATATTTGATG 58.056 37.037 0.00 0.00 0.00 3.07
2279 2335 9.499479 CTACTCCTGCTTGATTATATTTGATGT 57.501 33.333 0.00 0.00 0.00 3.06
2280 2336 8.162878 ACTCCTGCTTGATTATATTTGATGTG 57.837 34.615 0.00 0.00 0.00 3.21
2281 2337 7.230108 ACTCCTGCTTGATTATATTTGATGTGG 59.770 37.037 0.00 0.00 0.00 4.17
2282 2338 6.491062 TCCTGCTTGATTATATTTGATGTGGG 59.509 38.462 0.00 0.00 0.00 4.61
2283 2339 6.266103 CCTGCTTGATTATATTTGATGTGGGT 59.734 38.462 0.00 0.00 0.00 4.51
2284 2340 7.448161 CCTGCTTGATTATATTTGATGTGGGTA 59.552 37.037 0.00 0.00 0.00 3.69
2285 2341 8.938801 TGCTTGATTATATTTGATGTGGGTAT 57.061 30.769 0.00 0.00 0.00 2.73
2295 2351 7.676683 ATTTGATGTGGGTATAGTACAGAGT 57.323 36.000 0.00 0.00 0.00 3.24
2296 2352 8.777578 ATTTGATGTGGGTATAGTACAGAGTA 57.222 34.615 0.00 0.00 0.00 2.59
2297 2353 7.578310 TTGATGTGGGTATAGTACAGAGTAC 57.422 40.000 0.00 0.00 0.00 2.73
2298 2354 6.665695 TGATGTGGGTATAGTACAGAGTACA 58.334 40.000 9.68 0.00 0.00 2.90
2299 2355 7.295340 TGATGTGGGTATAGTACAGAGTACAT 58.705 38.462 9.68 0.00 0.00 2.29
2300 2356 6.954487 TGTGGGTATAGTACAGAGTACATG 57.046 41.667 9.68 0.00 0.00 3.21
2301 2357 6.429151 TGTGGGTATAGTACAGAGTACATGT 58.571 40.000 2.69 2.69 34.62 3.21
2302 2358 7.576403 TGTGGGTATAGTACAGAGTACATGTA 58.424 38.462 0.08 0.08 32.02 2.29
2303 2359 8.222637 TGTGGGTATAGTACAGAGTACATGTAT 58.777 37.037 9.18 0.00 35.69 2.29
2304 2360 8.728833 GTGGGTATAGTACAGAGTACATGTATC 58.271 40.741 9.18 7.85 35.69 2.24
2305 2361 8.666821 TGGGTATAGTACAGAGTACATGTATCT 58.333 37.037 9.18 9.89 35.69 1.98
2310 2366 7.804843 AGTACAGAGTACATGTATCTACCAC 57.195 40.000 9.18 10.30 35.69 4.16
2311 2367 5.752892 ACAGAGTACATGTATCTACCACG 57.247 43.478 9.18 4.14 0.00 4.94
2312 2368 5.434408 ACAGAGTACATGTATCTACCACGA 58.566 41.667 9.18 0.00 0.00 4.35
2313 2369 5.527951 ACAGAGTACATGTATCTACCACGAG 59.472 44.000 9.18 2.97 0.00 4.18
2314 2370 5.758784 CAGAGTACATGTATCTACCACGAGA 59.241 44.000 9.18 0.00 0.00 4.04
2315 2371 5.759273 AGAGTACATGTATCTACCACGAGAC 59.241 44.000 9.18 0.00 0.00 3.36
2316 2372 3.965292 ACATGTATCTACCACGAGACG 57.035 47.619 0.00 0.00 0.00 4.18
2317 2373 2.617308 ACATGTATCTACCACGAGACGG 59.383 50.000 0.00 0.00 0.00 4.79
2318 2374 2.408271 TGTATCTACCACGAGACGGT 57.592 50.000 0.00 0.00 40.73 4.83
2319 2375 3.541996 TGTATCTACCACGAGACGGTA 57.458 47.619 0.00 0.00 37.99 4.02
2326 2382 2.715046 ACCACGAGACGGTAGTAATGA 58.285 47.619 0.00 0.00 34.02 2.57
2327 2383 3.084039 ACCACGAGACGGTAGTAATGAA 58.916 45.455 0.00 0.00 34.02 2.57
2328 2384 3.698040 ACCACGAGACGGTAGTAATGAAT 59.302 43.478 0.00 0.00 34.02 2.57
2329 2385 4.883585 ACCACGAGACGGTAGTAATGAATA 59.116 41.667 0.00 0.00 34.02 1.75
2330 2386 5.533903 ACCACGAGACGGTAGTAATGAATAT 59.466 40.000 0.00 0.00 34.02 1.28
2331 2387 6.040166 ACCACGAGACGGTAGTAATGAATATT 59.960 38.462 0.00 0.00 34.02 1.28
2332 2388 7.229306 ACCACGAGACGGTAGTAATGAATATTA 59.771 37.037 0.00 0.00 34.02 0.98
2333 2389 7.749570 CCACGAGACGGTAGTAATGAATATTAG 59.250 40.741 0.00 0.00 29.71 1.73
2334 2390 8.501580 CACGAGACGGTAGTAATGAATATTAGA 58.498 37.037 0.00 0.00 29.71 2.10
2335 2391 9.228949 ACGAGACGGTAGTAATGAATATTAGAT 57.771 33.333 0.00 0.00 29.71 1.98
2354 2410 5.350504 AGATTGTCTATTGACTGGTCTGG 57.649 43.478 8.74 0.00 43.29 3.86
2355 2411 3.334583 TTGTCTATTGACTGGTCTGGC 57.665 47.619 8.74 0.00 43.29 4.85
2356 2412 1.555075 TGTCTATTGACTGGTCTGGCC 59.445 52.381 8.74 0.00 43.29 5.36
2357 2413 1.834263 GTCTATTGACTGGTCTGGCCT 59.166 52.381 3.32 0.00 39.94 5.19
2358 2414 2.237392 GTCTATTGACTGGTCTGGCCTT 59.763 50.000 3.32 0.00 39.94 4.35
2359 2415 2.237143 TCTATTGACTGGTCTGGCCTTG 59.763 50.000 3.32 0.00 38.35 3.61
2360 2416 0.038744 ATTGACTGGTCTGGCCTTGG 59.961 55.000 3.32 0.00 38.35 3.61
2361 2417 1.352622 TTGACTGGTCTGGCCTTGGT 61.353 55.000 3.32 0.00 38.35 3.67
2362 2418 1.352622 TGACTGGTCTGGCCTTGGTT 61.353 55.000 3.32 0.00 38.35 3.67
2363 2419 0.178990 GACTGGTCTGGCCTTGGTTT 60.179 55.000 3.32 0.00 38.35 3.27
2364 2420 1.073284 GACTGGTCTGGCCTTGGTTTA 59.927 52.381 3.32 0.00 38.35 2.01
2365 2421 1.710809 ACTGGTCTGGCCTTGGTTTAT 59.289 47.619 3.32 0.00 38.35 1.40
2366 2422 2.916934 ACTGGTCTGGCCTTGGTTTATA 59.083 45.455 3.32 0.00 38.35 0.98
2367 2423 3.527665 ACTGGTCTGGCCTTGGTTTATAT 59.472 43.478 3.32 0.00 38.35 0.86
2368 2424 4.724798 ACTGGTCTGGCCTTGGTTTATATA 59.275 41.667 3.32 0.00 38.35 0.86
2369 2425 5.192923 ACTGGTCTGGCCTTGGTTTATATAA 59.807 40.000 3.32 0.00 38.35 0.98
2370 2426 5.442391 TGGTCTGGCCTTGGTTTATATAAC 58.558 41.667 3.32 0.00 38.35 1.89
2371 2427 5.044772 TGGTCTGGCCTTGGTTTATATAACA 60.045 40.000 3.32 0.00 38.35 2.41
2372 2428 5.298527 GGTCTGGCCTTGGTTTATATAACAC 59.701 44.000 3.32 0.00 0.00 3.32
2373 2429 5.883673 GTCTGGCCTTGGTTTATATAACACA 59.116 40.000 3.32 0.00 0.00 3.72
2374 2430 5.883673 TCTGGCCTTGGTTTATATAACACAC 59.116 40.000 3.32 0.00 0.00 3.82
2375 2431 4.951094 TGGCCTTGGTTTATATAACACACC 59.049 41.667 3.32 7.59 0.00 4.16
2376 2432 4.951094 GGCCTTGGTTTATATAACACACCA 59.049 41.667 11.80 11.80 35.66 4.17
2377 2433 5.067283 GGCCTTGGTTTATATAACACACCAG 59.933 44.000 14.32 8.00 38.74 4.00
2378 2434 5.883673 GCCTTGGTTTATATAACACACCAGA 59.116 40.000 14.32 7.85 38.74 3.86
2379 2435 6.038271 GCCTTGGTTTATATAACACACCAGAG 59.962 42.308 14.32 13.82 38.74 3.35
2380 2436 6.542370 CCTTGGTTTATATAACACACCAGAGG 59.458 42.308 18.94 18.94 38.74 3.69
2381 2437 5.433526 TGGTTTATATAACACACCAGAGGC 58.566 41.667 11.80 0.00 32.38 4.70
2382 2438 4.820173 GGTTTATATAACACACCAGAGGCC 59.180 45.833 9.15 0.00 0.00 5.19
2383 2439 5.397559 GGTTTATATAACACACCAGAGGCCT 60.398 44.000 3.86 3.86 0.00 5.19
2384 2440 6.183361 GGTTTATATAACACACCAGAGGCCTA 60.183 42.308 4.42 0.00 0.00 3.93
2385 2441 6.665992 TTATATAACACACCAGAGGCCTAG 57.334 41.667 4.42 0.20 0.00 3.02
2386 2442 1.568504 TAACACACCAGAGGCCTAGG 58.431 55.000 19.66 19.66 0.00 3.02
2387 2443 1.201429 AACACACCAGAGGCCTAGGG 61.201 60.000 23.75 21.20 0.00 3.53
2388 2444 1.613630 CACACCAGAGGCCTAGGGT 60.614 63.158 23.75 21.80 0.00 4.34
2389 2445 1.161113 ACACCAGAGGCCTAGGGTT 59.839 57.895 22.16 12.62 0.00 4.11
2390 2446 0.475828 ACACCAGAGGCCTAGGGTTT 60.476 55.000 22.16 15.07 0.00 3.27
2391 2447 1.203389 ACACCAGAGGCCTAGGGTTTA 60.203 52.381 22.16 0.00 0.00 2.01
2392 2448 1.486726 CACCAGAGGCCTAGGGTTTAG 59.513 57.143 22.16 10.11 0.00 1.85
2393 2449 1.132500 CCAGAGGCCTAGGGTTTAGG 58.868 60.000 4.42 0.00 37.75 2.69
2394 2450 1.344087 CCAGAGGCCTAGGGTTTAGGA 60.344 57.143 4.42 0.00 36.85 2.94
2395 2451 2.043227 CAGAGGCCTAGGGTTTAGGAG 58.957 57.143 4.42 0.00 36.85 3.69
2396 2452 1.938069 AGAGGCCTAGGGTTTAGGAGA 59.062 52.381 4.42 0.00 36.85 3.71
2397 2453 2.090999 AGAGGCCTAGGGTTTAGGAGAG 60.091 54.545 4.42 0.00 36.85 3.20
2398 2454 1.652306 AGGCCTAGGGTTTAGGAGAGT 59.348 52.381 1.29 0.00 36.85 3.24
2399 2455 2.040939 GGCCTAGGGTTTAGGAGAGTC 58.959 57.143 11.72 0.00 36.85 3.36
2400 2456 2.040939 GCCTAGGGTTTAGGAGAGTCC 58.959 57.143 11.72 0.00 36.85 3.85
2402 2458 3.568443 CCTAGGGTTTAGGAGAGTCCTC 58.432 54.545 0.00 0.00 45.66 3.71
2403 2459 2.146920 AGGGTTTAGGAGAGTCCTCG 57.853 55.000 0.00 0.00 45.66 4.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 0.919710 GCTACAAATCCCCCTGGAGT 59.080 55.000 0.00 0.00 46.08 3.85
33 34 1.141858 GAGCTACAAATCCCCCTGGAG 59.858 57.143 0.00 0.00 46.08 3.86
86 88 3.938963 CACGATTGCATAACACCCTACTT 59.061 43.478 0.00 0.00 0.00 2.24
104 106 4.680237 CAGGTTCAGGCCGCACGA 62.680 66.667 0.00 0.00 0.00 4.35
154 156 3.805108 GCAAGGCGTGGATCTATCTCAAT 60.805 47.826 1.91 0.00 0.00 2.57
285 288 1.204941 ACAAGGACATGACGCCTAGAC 59.795 52.381 0.00 0.00 33.20 2.59
314 317 2.099405 GAGAGTGAGTGAAGGGAGGAG 58.901 57.143 0.00 0.00 0.00 3.69
1044 1069 6.543735 ACTAGGAACTAAAAGAAGTGGCATT 58.456 36.000 0.00 0.00 42.17 3.56
1418 1473 5.536538 ACATCACACATCCTATGATAGTCGT 59.463 40.000 0.00 0.00 31.83 4.34
1484 1540 5.171339 AGATACTCAACTTCTGGCATTGT 57.829 39.130 0.00 0.00 0.00 2.71
1661 1717 4.720046 AGGACATACGCTAGAGAAGATGA 58.280 43.478 0.00 0.00 0.00 2.92
1814 1870 2.042979 ACATGCCACTGGGTTTTCCTAT 59.957 45.455 0.00 0.00 40.46 2.57
1897 1953 1.077265 CCCACATGCTGGAGGGTTT 59.923 57.895 13.86 0.00 43.95 3.27
1921 1977 3.956199 ACTCCCGGTAATTAATGAGTCGA 59.044 43.478 0.00 0.00 0.00 4.20
1949 2005 3.817647 GCTTCAGGTTCTGTTGACATCTT 59.182 43.478 0.00 0.00 32.61 2.40
1953 2009 2.803133 CGAGCTTCAGGTTCTGTTGACA 60.803 50.000 0.00 0.00 32.61 3.58
2064 2120 5.221601 GGATGTCTTGATGCTCTCCTCATTA 60.222 44.000 0.00 0.00 0.00 1.90
2067 2123 2.433604 GGATGTCTTGATGCTCTCCTCA 59.566 50.000 0.00 0.00 0.00 3.86
2110 2166 2.554032 CGACAGTGAAAGCCCATTCTTT 59.446 45.455 0.00 0.00 38.85 2.52
2131 2187 3.242673 CGAGATACGCCGGATATAGAACC 60.243 52.174 5.05 0.00 34.51 3.62
2132 2188 3.373439 ACGAGATACGCCGGATATAGAAC 59.627 47.826 5.05 0.00 46.94 3.01
2133 2189 3.603532 ACGAGATACGCCGGATATAGAA 58.396 45.455 5.05 0.00 46.94 2.10
2134 2190 3.257469 ACGAGATACGCCGGATATAGA 57.743 47.619 5.05 0.00 46.94 1.98
2135 2191 4.118410 ACTACGAGATACGCCGGATATAG 58.882 47.826 5.05 0.00 46.94 1.31
2136 2192 4.128925 ACTACGAGATACGCCGGATATA 57.871 45.455 5.05 0.00 46.94 0.86
2137 2193 2.983229 ACTACGAGATACGCCGGATAT 58.017 47.619 5.05 0.99 46.94 1.63
2138 2194 2.462456 ACTACGAGATACGCCGGATA 57.538 50.000 5.05 0.00 46.94 2.59
2139 2195 2.344950 CTACTACGAGATACGCCGGAT 58.655 52.381 5.05 0.00 46.94 4.18
2140 2196 1.606480 CCTACTACGAGATACGCCGGA 60.606 57.143 5.05 0.00 46.94 5.14
2141 2197 0.795085 CCTACTACGAGATACGCCGG 59.205 60.000 0.00 0.00 46.94 6.13
2142 2198 0.795085 CCCTACTACGAGATACGCCG 59.205 60.000 0.00 0.00 46.94 6.46
2143 2199 1.163554 CCCCTACTACGAGATACGCC 58.836 60.000 0.00 0.00 46.94 5.68
2144 2200 1.803555 GACCCCTACTACGAGATACGC 59.196 57.143 0.00 0.00 46.94 4.42
2145 2201 2.038295 AGGACCCCTACTACGAGATACG 59.962 54.545 0.00 0.00 39.16 3.06
2146 2202 3.786368 AGGACCCCTACTACGAGATAC 57.214 52.381 0.00 0.00 28.47 2.24
2147 2203 4.263243 GCTTAGGACCCCTACTACGAGATA 60.263 50.000 0.00 0.00 35.63 1.98
2148 2204 3.498301 GCTTAGGACCCCTACTACGAGAT 60.498 52.174 0.00 0.00 35.63 2.75
2149 2205 2.158696 GCTTAGGACCCCTACTACGAGA 60.159 54.545 0.00 0.00 35.63 4.04
2150 2206 2.158638 AGCTTAGGACCCCTACTACGAG 60.159 54.545 0.00 0.00 35.63 4.18
2151 2207 1.849039 AGCTTAGGACCCCTACTACGA 59.151 52.381 0.00 0.00 35.63 3.43
2152 2208 2.361643 AGCTTAGGACCCCTACTACG 57.638 55.000 0.00 0.00 35.63 3.51
2165 2221 2.765122 GCTCCAAGATGCCTAGCTTAG 58.235 52.381 0.00 0.00 29.98 2.18
2166 2222 1.069204 CGCTCCAAGATGCCTAGCTTA 59.931 52.381 0.00 0.00 29.98 3.09
2167 2223 0.179062 CGCTCCAAGATGCCTAGCTT 60.179 55.000 0.00 0.00 31.51 3.74
2168 2224 1.045350 TCGCTCCAAGATGCCTAGCT 61.045 55.000 0.00 0.00 0.00 3.32
2169 2225 0.034616 ATCGCTCCAAGATGCCTAGC 59.965 55.000 0.00 0.00 0.00 3.42
2170 2226 1.607509 CCATCGCTCCAAGATGCCTAG 60.608 57.143 1.03 0.00 42.92 3.02
2171 2227 0.394192 CCATCGCTCCAAGATGCCTA 59.606 55.000 1.03 0.00 42.92 3.93
2172 2228 1.147824 CCATCGCTCCAAGATGCCT 59.852 57.895 1.03 0.00 42.92 4.75
2173 2229 1.895707 CCCATCGCTCCAAGATGCC 60.896 63.158 1.03 0.00 42.92 4.40
2174 2230 0.106708 TACCCATCGCTCCAAGATGC 59.893 55.000 1.03 0.00 42.92 3.91
2175 2231 2.213499 GTTACCCATCGCTCCAAGATG 58.787 52.381 0.00 0.00 43.65 2.90
2176 2232 1.837439 TGTTACCCATCGCTCCAAGAT 59.163 47.619 0.00 0.00 0.00 2.40
2177 2233 1.207089 CTGTTACCCATCGCTCCAAGA 59.793 52.381 0.00 0.00 0.00 3.02
2178 2234 1.656652 CTGTTACCCATCGCTCCAAG 58.343 55.000 0.00 0.00 0.00 3.61
2179 2235 0.251916 CCTGTTACCCATCGCTCCAA 59.748 55.000 0.00 0.00 0.00 3.53
2180 2236 0.616395 TCCTGTTACCCATCGCTCCA 60.616 55.000 0.00 0.00 0.00 3.86
2181 2237 0.105039 CTCCTGTTACCCATCGCTCC 59.895 60.000 0.00 0.00 0.00 4.70
2182 2238 1.112113 TCTCCTGTTACCCATCGCTC 58.888 55.000 0.00 0.00 0.00 5.03
2183 2239 0.824759 GTCTCCTGTTACCCATCGCT 59.175 55.000 0.00 0.00 0.00 4.93
2184 2240 0.527817 CGTCTCCTGTTACCCATCGC 60.528 60.000 0.00 0.00 0.00 4.58
2185 2241 1.065701 CTCGTCTCCTGTTACCCATCG 59.934 57.143 0.00 0.00 0.00 3.84
2186 2242 1.409427 CCTCGTCTCCTGTTACCCATC 59.591 57.143 0.00 0.00 0.00 3.51
2187 2243 1.486211 CCTCGTCTCCTGTTACCCAT 58.514 55.000 0.00 0.00 0.00 4.00
2188 2244 0.613853 CCCTCGTCTCCTGTTACCCA 60.614 60.000 0.00 0.00 0.00 4.51
2189 2245 0.324091 TCCCTCGTCTCCTGTTACCC 60.324 60.000 0.00 0.00 0.00 3.69
2190 2246 0.816373 GTCCCTCGTCTCCTGTTACC 59.184 60.000 0.00 0.00 0.00 2.85
2191 2247 1.201880 GTGTCCCTCGTCTCCTGTTAC 59.798 57.143 0.00 0.00 0.00 2.50
2192 2248 1.542492 GTGTCCCTCGTCTCCTGTTA 58.458 55.000 0.00 0.00 0.00 2.41
2193 2249 1.524863 CGTGTCCCTCGTCTCCTGTT 61.525 60.000 0.00 0.00 0.00 3.16
2194 2250 1.972223 CGTGTCCCTCGTCTCCTGT 60.972 63.158 0.00 0.00 0.00 4.00
2195 2251 2.701780 CCGTGTCCCTCGTCTCCTG 61.702 68.421 0.00 0.00 0.00 3.86
2196 2252 2.361357 CCGTGTCCCTCGTCTCCT 60.361 66.667 0.00 0.00 0.00 3.69
2197 2253 2.675772 ACCGTGTCCCTCGTCTCC 60.676 66.667 0.00 0.00 0.00 3.71
2198 2254 1.803366 AACACCGTGTCCCTCGTCTC 61.803 60.000 4.23 0.00 0.00 3.36
2199 2255 1.397390 AAACACCGTGTCCCTCGTCT 61.397 55.000 4.23 0.00 0.00 4.18
2200 2256 0.314935 TAAACACCGTGTCCCTCGTC 59.685 55.000 4.23 0.00 0.00 4.20
2201 2257 0.032540 GTAAACACCGTGTCCCTCGT 59.967 55.000 4.23 0.00 0.00 4.18
2202 2258 0.668401 GGTAAACACCGTGTCCCTCG 60.668 60.000 4.23 0.00 0.00 4.63
2203 2259 0.321034 GGGTAAACACCGTGTCCCTC 60.321 60.000 16.37 0.67 32.89 4.30
2204 2260 1.055551 TGGGTAAACACCGTGTCCCT 61.056 55.000 21.64 7.13 36.23 4.20
2205 2261 0.604511 CTGGGTAAACACCGTGTCCC 60.605 60.000 16.67 16.67 35.85 4.46
2206 2262 0.604511 CCTGGGTAAACACCGTGTCC 60.605 60.000 4.23 2.37 0.00 4.02
2207 2263 0.107268 ACCTGGGTAAACACCGTGTC 59.893 55.000 4.23 0.00 0.00 3.67
2208 2264 0.547553 AACCTGGGTAAACACCGTGT 59.452 50.000 0.00 0.00 0.00 4.49
2209 2265 1.232119 GAACCTGGGTAAACACCGTG 58.768 55.000 0.00 0.00 0.00 4.94
2210 2266 0.249996 CGAACCTGGGTAAACACCGT 60.250 55.000 0.00 0.00 0.00 4.83
2211 2267 0.952010 CCGAACCTGGGTAAACACCG 60.952 60.000 0.00 0.00 0.00 4.94
2212 2268 0.607217 CCCGAACCTGGGTAAACACC 60.607 60.000 0.00 0.00 44.76 4.16
2213 2269 2.936928 CCCGAACCTGGGTAAACAC 58.063 57.895 0.00 0.00 44.76 3.32
2221 2277 3.787001 GAGAGGGCCCGAACCTGG 61.787 72.222 18.44 0.00 38.79 4.45
2222 2278 2.685380 AGAGAGGGCCCGAACCTG 60.685 66.667 18.44 0.00 38.79 4.00
2223 2279 2.685380 CAGAGAGGGCCCGAACCT 60.685 66.667 18.44 12.55 42.18 3.50
2224 2280 2.683933 TCAGAGAGGGCCCGAACC 60.684 66.667 18.44 7.31 0.00 3.62
2225 2281 1.671901 CTCTCAGAGAGGGCCCGAAC 61.672 65.000 18.44 12.45 38.67 3.95
2226 2282 1.380515 CTCTCAGAGAGGGCCCGAA 60.381 63.158 18.44 0.00 38.67 4.30
2227 2283 2.277072 CTCTCAGAGAGGGCCCGA 59.723 66.667 18.44 6.08 38.67 5.14
2234 2290 5.265989 AGTAGGGTTTTACCTCTCAGAGAG 58.734 45.833 19.47 19.47 42.09 3.20
2235 2291 5.262804 GAGTAGGGTTTTACCTCTCAGAGA 58.737 45.833 2.09 0.00 42.09 3.10
2236 2292 4.403113 GGAGTAGGGTTTTACCTCTCAGAG 59.597 50.000 0.00 0.00 42.09 3.35
2237 2293 4.045590 AGGAGTAGGGTTTTACCTCTCAGA 59.954 45.833 0.00 0.00 42.09 3.27
2238 2294 4.160626 CAGGAGTAGGGTTTTACCTCTCAG 59.839 50.000 0.00 0.00 42.09 3.35
2239 2295 4.094476 CAGGAGTAGGGTTTTACCTCTCA 58.906 47.826 0.00 0.00 42.09 3.27
2240 2296 3.118702 GCAGGAGTAGGGTTTTACCTCTC 60.119 52.174 0.00 0.00 42.09 3.20
2241 2297 2.838813 GCAGGAGTAGGGTTTTACCTCT 59.161 50.000 0.00 0.00 42.09 3.69
2242 2298 2.838813 AGCAGGAGTAGGGTTTTACCTC 59.161 50.000 0.00 0.00 42.09 3.85
2243 2299 2.917205 AGCAGGAGTAGGGTTTTACCT 58.083 47.619 0.00 0.00 44.75 3.08
2244 2300 3.008704 TCAAGCAGGAGTAGGGTTTTACC 59.991 47.826 0.00 0.00 37.60 2.85
2245 2301 4.281898 TCAAGCAGGAGTAGGGTTTTAC 57.718 45.455 0.00 0.00 0.00 2.01
2246 2302 5.514500 AATCAAGCAGGAGTAGGGTTTTA 57.486 39.130 0.00 0.00 0.00 1.52
2247 2303 4.388577 AATCAAGCAGGAGTAGGGTTTT 57.611 40.909 0.00 0.00 0.00 2.43
2248 2304 5.717119 ATAATCAAGCAGGAGTAGGGTTT 57.283 39.130 0.00 0.00 0.00 3.27
2249 2305 7.394144 AATATAATCAAGCAGGAGTAGGGTT 57.606 36.000 0.00 0.00 0.00 4.11
2250 2306 7.072454 TCAAATATAATCAAGCAGGAGTAGGGT 59.928 37.037 0.00 0.00 0.00 4.34
2251 2307 7.453393 TCAAATATAATCAAGCAGGAGTAGGG 58.547 38.462 0.00 0.00 0.00 3.53
2252 2308 8.944029 CATCAAATATAATCAAGCAGGAGTAGG 58.056 37.037 0.00 0.00 0.00 3.18
2253 2309 9.499479 ACATCAAATATAATCAAGCAGGAGTAG 57.501 33.333 0.00 0.00 0.00 2.57
2254 2310 9.276590 CACATCAAATATAATCAAGCAGGAGTA 57.723 33.333 0.00 0.00 0.00 2.59
2255 2311 7.230108 CCACATCAAATATAATCAAGCAGGAGT 59.770 37.037 0.00 0.00 0.00 3.85
2256 2312 7.309012 CCCACATCAAATATAATCAAGCAGGAG 60.309 40.741 0.00 0.00 0.00 3.69
2257 2313 6.491062 CCCACATCAAATATAATCAAGCAGGA 59.509 38.462 0.00 0.00 0.00 3.86
2258 2314 6.266103 ACCCACATCAAATATAATCAAGCAGG 59.734 38.462 0.00 0.00 0.00 4.85
2259 2315 7.281040 ACCCACATCAAATATAATCAAGCAG 57.719 36.000 0.00 0.00 0.00 4.24
2260 2316 8.938801 ATACCCACATCAAATATAATCAAGCA 57.061 30.769 0.00 0.00 0.00 3.91
2269 2325 9.381038 ACTCTGTACTATACCCACATCAAATAT 57.619 33.333 0.00 0.00 0.00 1.28
2270 2326 8.777578 ACTCTGTACTATACCCACATCAAATA 57.222 34.615 0.00 0.00 0.00 1.40
2271 2327 7.676683 ACTCTGTACTATACCCACATCAAAT 57.323 36.000 0.00 0.00 0.00 2.32
2272 2328 7.616542 TGTACTCTGTACTATACCCACATCAAA 59.383 37.037 8.94 0.00 0.00 2.69
2273 2329 7.120716 TGTACTCTGTACTATACCCACATCAA 58.879 38.462 8.94 0.00 0.00 2.57
2274 2330 6.665695 TGTACTCTGTACTATACCCACATCA 58.334 40.000 8.94 0.00 0.00 3.07
2275 2331 7.230913 ACATGTACTCTGTACTATACCCACATC 59.769 40.741 0.00 0.00 0.00 3.06
2276 2332 7.067421 ACATGTACTCTGTACTATACCCACAT 58.933 38.462 0.00 0.00 0.00 3.21
2277 2333 6.429151 ACATGTACTCTGTACTATACCCACA 58.571 40.000 0.00 0.00 0.00 4.17
2278 2334 6.956202 ACATGTACTCTGTACTATACCCAC 57.044 41.667 0.00 0.00 0.00 4.61
2279 2335 8.666821 AGATACATGTACTCTGTACTATACCCA 58.333 37.037 7.96 0.00 32.24 4.51
2284 2340 9.504708 GTGGTAGATACATGTACTCTGTACTAT 57.495 37.037 19.60 0.49 32.24 2.12
2285 2341 7.654923 CGTGGTAGATACATGTACTCTGTACTA 59.345 40.741 19.60 9.70 32.24 1.82
2286 2342 6.482641 CGTGGTAGATACATGTACTCTGTACT 59.517 42.308 19.60 11.00 32.24 2.73
2287 2343 6.481313 TCGTGGTAGATACATGTACTCTGTAC 59.519 42.308 19.60 12.80 32.24 2.90
2288 2344 6.585416 TCGTGGTAGATACATGTACTCTGTA 58.415 40.000 19.60 10.11 33.86 2.74
2289 2345 5.434408 TCGTGGTAGATACATGTACTCTGT 58.566 41.667 19.60 6.83 0.00 3.41
2290 2346 5.758784 TCTCGTGGTAGATACATGTACTCTG 59.241 44.000 19.60 9.07 0.00 3.35
2291 2347 5.759273 GTCTCGTGGTAGATACATGTACTCT 59.241 44.000 7.96 13.79 0.00 3.24
2292 2348 5.333187 CGTCTCGTGGTAGATACATGTACTC 60.333 48.000 7.96 7.37 0.00 2.59
2293 2349 4.510711 CGTCTCGTGGTAGATACATGTACT 59.489 45.833 7.96 10.01 0.00 2.73
2294 2350 4.319333 CCGTCTCGTGGTAGATACATGTAC 60.319 50.000 7.96 0.00 0.00 2.90
2295 2351 3.811497 CCGTCTCGTGGTAGATACATGTA 59.189 47.826 8.27 8.27 0.00 2.29
2296 2352 2.617308 CCGTCTCGTGGTAGATACATGT 59.383 50.000 2.69 2.69 0.00 3.21
2297 2353 2.617308 ACCGTCTCGTGGTAGATACATG 59.383 50.000 0.00 0.00 38.15 3.21
2298 2354 2.928334 ACCGTCTCGTGGTAGATACAT 58.072 47.619 0.00 0.00 38.15 2.29
2299 2355 2.408271 ACCGTCTCGTGGTAGATACA 57.592 50.000 0.00 0.00 38.15 2.29
2305 2361 3.872696 TCATTACTACCGTCTCGTGGTA 58.127 45.455 0.00 0.00 40.96 3.25
2306 2362 2.715046 TCATTACTACCGTCTCGTGGT 58.285 47.619 0.00 0.00 43.62 4.16
2307 2363 3.770263 TTCATTACTACCGTCTCGTGG 57.230 47.619 0.00 0.00 0.00 4.94
2308 2364 8.501580 TCTAATATTCATTACTACCGTCTCGTG 58.498 37.037 0.00 0.00 0.00 4.35
2309 2365 8.613060 TCTAATATTCATTACTACCGTCTCGT 57.387 34.615 0.00 0.00 0.00 4.18
2333 2389 7.376902 AGGCCAGACCAGTCAATAGACAATC 62.377 48.000 5.01 0.00 42.33 2.67
2334 2390 5.615898 AGGCCAGACCAGTCAATAGACAAT 61.616 45.833 5.01 0.00 42.33 2.71
2335 2391 4.332171 AGGCCAGACCAGTCAATAGACAA 61.332 47.826 5.01 0.00 42.33 3.18
2336 2392 2.827003 AGGCCAGACCAGTCAATAGACA 60.827 50.000 5.01 0.00 42.33 3.41
2337 2393 1.834263 AGGCCAGACCAGTCAATAGAC 59.166 52.381 5.01 0.00 43.14 2.59
2338 2394 2.237143 CAAGGCCAGACCAGTCAATAGA 59.763 50.000 5.01 0.00 43.14 1.98
2339 2395 2.636830 CAAGGCCAGACCAGTCAATAG 58.363 52.381 5.01 0.00 43.14 1.73
2340 2396 1.281867 CCAAGGCCAGACCAGTCAATA 59.718 52.381 5.01 0.00 43.14 1.90
2341 2397 0.038744 CCAAGGCCAGACCAGTCAAT 59.961 55.000 5.01 0.00 43.14 2.57
2342 2398 1.352622 ACCAAGGCCAGACCAGTCAA 61.353 55.000 5.01 0.00 43.14 3.18
2343 2399 1.352622 AACCAAGGCCAGACCAGTCA 61.353 55.000 5.01 0.00 43.14 3.41
2344 2400 0.178990 AAACCAAGGCCAGACCAGTC 60.179 55.000 5.01 0.00 43.14 3.51
2345 2401 1.145571 TAAACCAAGGCCAGACCAGT 58.854 50.000 5.01 0.00 43.14 4.00
2346 2402 2.514458 ATAAACCAAGGCCAGACCAG 57.486 50.000 5.01 0.00 43.14 4.00
2347 2403 5.044772 TGTTATATAAACCAAGGCCAGACCA 60.045 40.000 5.01 0.00 43.14 4.02
2348 2404 5.298527 GTGTTATATAAACCAAGGCCAGACC 59.701 44.000 5.01 0.00 39.61 3.85
2349 2405 5.883673 TGTGTTATATAAACCAAGGCCAGAC 59.116 40.000 5.01 0.00 0.00 3.51
2350 2406 5.883673 GTGTGTTATATAAACCAAGGCCAGA 59.116 40.000 5.01 0.00 0.00 3.86
2351 2407 5.067283 GGTGTGTTATATAAACCAAGGCCAG 59.933 44.000 5.01 0.00 0.00 4.85
2352 2408 4.951094 GGTGTGTTATATAAACCAAGGCCA 59.049 41.667 5.01 0.00 0.00 5.36
2353 2409 4.951094 TGGTGTGTTATATAAACCAAGGCC 59.049 41.667 13.00 0.00 37.96 5.19
2354 2410 5.883673 TCTGGTGTGTTATATAAACCAAGGC 59.116 40.000 15.25 0.00 40.28 4.35
2355 2411 6.542370 CCTCTGGTGTGTTATATAAACCAAGG 59.458 42.308 15.25 17.42 40.28 3.61
2356 2412 6.038271 GCCTCTGGTGTGTTATATAAACCAAG 59.962 42.308 15.25 14.21 40.28 3.61
2357 2413 5.883673 GCCTCTGGTGTGTTATATAAACCAA 59.116 40.000 15.25 8.28 40.28 3.67
2358 2414 5.433526 GCCTCTGGTGTGTTATATAAACCA 58.566 41.667 14.16 14.16 38.57 3.67
2359 2415 4.820173 GGCCTCTGGTGTGTTATATAAACC 59.180 45.833 0.00 7.59 0.00 3.27
2360 2416 5.681639 AGGCCTCTGGTGTGTTATATAAAC 58.318 41.667 0.00 0.00 0.00 2.01
2361 2417 5.968676 AGGCCTCTGGTGTGTTATATAAA 57.031 39.130 0.00 0.00 0.00 1.40
2362 2418 5.542635 CCTAGGCCTCTGGTGTGTTATATAA 59.457 44.000 9.68 0.00 0.00 0.98
2363 2419 5.084519 CCTAGGCCTCTGGTGTGTTATATA 58.915 45.833 9.68 0.00 0.00 0.86
2364 2420 3.904339 CCTAGGCCTCTGGTGTGTTATAT 59.096 47.826 9.68 0.00 0.00 0.86
2365 2421 3.305720 CCTAGGCCTCTGGTGTGTTATA 58.694 50.000 9.68 0.00 0.00 0.98
2366 2422 2.119495 CCTAGGCCTCTGGTGTGTTAT 58.881 52.381 9.68 0.00 0.00 1.89
2367 2423 1.568504 CCTAGGCCTCTGGTGTGTTA 58.431 55.000 9.68 0.00 0.00 2.41
2368 2424 1.201429 CCCTAGGCCTCTGGTGTGTT 61.201 60.000 9.68 0.00 0.00 3.32
2369 2425 1.613630 CCCTAGGCCTCTGGTGTGT 60.614 63.158 9.68 0.00 0.00 3.72
2370 2426 1.201429 AACCCTAGGCCTCTGGTGTG 61.201 60.000 23.14 11.11 0.00 3.82
2371 2427 0.475828 AAACCCTAGGCCTCTGGTGT 60.476 55.000 23.14 16.81 0.00 4.16
2372 2428 1.486726 CTAAACCCTAGGCCTCTGGTG 59.513 57.143 23.14 15.75 0.00 4.17
2373 2429 1.625508 CCTAAACCCTAGGCCTCTGGT 60.626 57.143 18.23 18.23 0.00 4.00
2374 2430 1.132500 CCTAAACCCTAGGCCTCTGG 58.868 60.000 9.68 14.47 0.00 3.86
2375 2431 2.043227 CTCCTAAACCCTAGGCCTCTG 58.957 57.143 9.68 3.03 34.74 3.35
2376 2432 1.938069 TCTCCTAAACCCTAGGCCTCT 59.062 52.381 9.68 0.00 34.74 3.69
2377 2433 2.321719 CTCTCCTAAACCCTAGGCCTC 58.678 57.143 9.68 0.00 34.74 4.70
2378 2434 1.652306 ACTCTCCTAAACCCTAGGCCT 59.348 52.381 11.78 11.78 34.74 5.19
2379 2435 2.040939 GACTCTCCTAAACCCTAGGCC 58.959 57.143 2.05 0.00 34.74 5.19
2380 2436 2.040939 GGACTCTCCTAAACCCTAGGC 58.959 57.143 2.05 0.00 34.74 3.93


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

AutoCloner maintained by Alex Coulton.