Multiple sequence alignment - TraesCS4B01G125300

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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 TraesCS4B01G125300 chr4B 100.000 2429 0 0 1 2429 155094353 155096781 0.000000e+00 4486
1 TraesCS4B01G125300 chr3D 94.460 2094 106 9 4 2089 512069226 512067135 0.000000e+00 3216
2 TraesCS4B01G125300 chr3D 85.156 256 38 0 2174 2429 89625929 89625674 1.850000e-66 263
3 TraesCS4B01G125300 chr6D 94.325 2097 109 9 1 2089 44190978 44193072 0.000000e+00 3205
4 TraesCS4B01G125300 chr7D 94.269 2094 110 9 4 2089 95226997 95224906 0.000000e+00 3193
5 TraesCS4B01G125300 chr3B 93.789 2093 123 5 1 2089 632530994 632533083 0.000000e+00 3138
6 TraesCS4B01G125300 chr3B 89.882 1611 140 15 5 1603 219746376 219744777 0.000000e+00 2050
7 TraesCS4B01G125300 chr3B 89.758 1611 142 14 5 1603 218219346 218217747 0.000000e+00 2039
8 TraesCS4B01G125300 chr3B 89.758 1611 142 14 5 1603 218225470 218223871 0.000000e+00 2039
9 TraesCS4B01G125300 chr3B 89.529 1614 144 16 1 1603 58469656 58471255 0.000000e+00 2021
10 TraesCS4B01G125300 chr7A 89.820 1611 134 16 6 1600 169764205 169765801 0.000000e+00 2039
11 TraesCS4B01G125300 chr1B 88.832 591 61 5 1412 2000 296532711 296533298 0.000000e+00 721
12 TraesCS4B01G125300 chr6B 88.494 591 63 5 1412 2000 31701783 31702370 0.000000e+00 710
13 TraesCS4B01G125300 chr2B 85.768 267 38 0 2163 2429 98454095 98454361 1.420000e-72 283
14 TraesCS4B01G125300 chr2B 93.805 113 7 0 2118 2230 184469102 184469214 1.150000e-38 171


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 TraesCS4B01G125300 chr4B 155094353 155096781 2428 False 4486 4486 100.000 1 2429 1 chr4B.!!$F1 2428
1 TraesCS4B01G125300 chr3D 512067135 512069226 2091 True 3216 3216 94.460 4 2089 1 chr3D.!!$R2 2085
2 TraesCS4B01G125300 chr6D 44190978 44193072 2094 False 3205 3205 94.325 1 2089 1 chr6D.!!$F1 2088
3 TraesCS4B01G125300 chr7D 95224906 95226997 2091 True 3193 3193 94.269 4 2089 1 chr7D.!!$R1 2085
4 TraesCS4B01G125300 chr3B 632530994 632533083 2089 False 3138 3138 93.789 1 2089 1 chr3B.!!$F2 2088
5 TraesCS4B01G125300 chr3B 219744777 219746376 1599 True 2050 2050 89.882 5 1603 1 chr3B.!!$R3 1598
6 TraesCS4B01G125300 chr3B 218217747 218219346 1599 True 2039 2039 89.758 5 1603 1 chr3B.!!$R1 1598
7 TraesCS4B01G125300 chr3B 218223871 218225470 1599 True 2039 2039 89.758 5 1603 1 chr3B.!!$R2 1598
8 TraesCS4B01G125300 chr3B 58469656 58471255 1599 False 2021 2021 89.529 1 1603 1 chr3B.!!$F1 1602
9 TraesCS4B01G125300 chr7A 169764205 169765801 1596 False 2039 2039 89.820 6 1600 1 chr7A.!!$F1 1594
10 TraesCS4B01G125300 chr1B 296532711 296533298 587 False 721 721 88.832 1412 2000 1 chr1B.!!$F1 588
11 TraesCS4B01G125300 chr6B 31701783 31702370 587 False 710 710 88.494 1412 2000 1 chr6B.!!$F1 588

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
57 58 0.462047 ATTCCATCGTTGAGGCCGAC 60.462 55.0 0.0 0.0 37.12 4.79 F
781 803 1.497309 CCCTCCCCCTAGCAAACACA 61.497 60.0 0.0 0.0 0.00 3.72 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1403 1430 1.074405 TCCTTGCAACTGAGCCAAGAT 59.926 47.619 0.0 0.0 0.00 2.40 R
2238 2267 0.026933 CTCATCGTCCTCGTCGTCAG 59.973 60.000 0.0 0.0 38.33 3.51 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
21 22 1.306568 GCCCTCCCTCCTGAGTCTT 60.307 63.158 0.00 0.00 0.00 3.01
57 58 0.462047 ATTCCATCGTTGAGGCCGAC 60.462 55.000 0.00 0.00 37.12 4.79
121 123 3.270433 AGATCAATCCCCACACCTGATTT 59.730 43.478 0.00 0.00 0.00 2.17
130 132 4.574828 CCCCACACCTGATTTATAGAAACG 59.425 45.833 0.00 0.00 0.00 3.60
149 151 7.899973 AGAAACGGAAGGTAAATTCTAGTACA 58.100 34.615 0.00 0.00 0.00 2.90
151 153 8.907222 AAACGGAAGGTAAATTCTAGTACAAA 57.093 30.769 0.00 0.00 0.00 2.83
165 167 9.860898 ATTCTAGTACAAATTGAAGATTTTGCC 57.139 29.630 0.00 0.00 36.51 4.52
166 168 8.635765 TCTAGTACAAATTGAAGATTTTGCCT 57.364 30.769 0.00 0.00 36.51 4.75
191 197 2.134789 CCCCCTTCTTGGTTCAGATG 57.865 55.000 0.00 0.00 0.00 2.90
204 210 4.536090 TGGTTCAGATGTGTCCCTTCTATT 59.464 41.667 0.00 0.00 0.00 1.73
209 215 7.020827 TCAGATGTGTCCCTTCTATTCTTTT 57.979 36.000 0.00 0.00 0.00 2.27
210 216 7.106239 TCAGATGTGTCCCTTCTATTCTTTTC 58.894 38.462 0.00 0.00 0.00 2.29
211 217 7.038017 TCAGATGTGTCCCTTCTATTCTTTTCT 60.038 37.037 0.00 0.00 0.00 2.52
278 284 7.936847 TGTTTGATAGTTGTCCTCTGTTATTGT 59.063 33.333 0.00 0.00 0.00 2.71
349 355 3.936203 GGGTGTCAGGTGCGGACA 61.936 66.667 9.96 0.00 42.62 4.02
464 481 9.998106 ATATCATGTTCTTGTTGGGTAGTATAC 57.002 33.333 0.00 0.00 42.04 1.47
555 574 5.008980 TGAATACCAGAACATGATGTGCAA 58.991 37.500 6.29 0.00 0.00 4.08
677 697 3.191371 GTGCATGAACCAAACCTCCTTAG 59.809 47.826 0.00 0.00 0.00 2.18
719 739 3.456277 GGGTGTCCTTGACCTTATCATCT 59.544 47.826 0.00 0.00 37.11 2.90
726 746 6.987404 GTCCTTGACCTTATCATCTTCTTACC 59.013 42.308 0.00 0.00 37.11 2.85
781 803 1.497309 CCCTCCCCCTAGCAAACACA 61.497 60.000 0.00 0.00 0.00 3.72
853 879 6.668645 TGTTGATTGCAGGGGTAGTAATTAT 58.331 36.000 0.00 0.00 0.00 1.28
892 918 9.985730 TTGTTTGAGCTGAAATCTGAATTAATT 57.014 25.926 0.54 0.00 0.00 1.40
948 974 4.156008 GTCGAGCAGGACCACAAAATATTT 59.844 41.667 0.00 0.00 0.00 1.40
995 1022 7.047271 ACTTTTGGTCATTTTAATGTTGCAGT 58.953 30.769 2.66 0.00 37.65 4.40
997 1024 9.206870 CTTTTGGTCATTTTAATGTTGCAGTAT 57.793 29.630 2.66 0.00 37.65 2.12
1064 1091 7.761704 AGAATATATGATGAAAGAACCGATCGG 59.238 37.037 32.20 32.20 42.03 4.18
1080 1107 3.989817 CGATCGGACATCATAATTCTGCA 59.010 43.478 7.38 0.00 0.00 4.41
1086 1113 5.967674 CGGACATCATAATTCTGCAGAAAAC 59.032 40.000 31.55 14.33 37.61 2.43
1403 1430 7.465900 AAGAGGATAAACATCTTGGGGATTA 57.534 36.000 0.00 0.00 45.87 1.75
1426 1453 1.999648 TGGCTCAGTTGCAAGGAATT 58.000 45.000 0.00 0.00 34.04 2.17
1432 1459 4.674623 GCTCAGTTGCAAGGAATTGATCAG 60.675 45.833 0.00 0.00 0.00 2.90
1439 1466 4.341806 TGCAAGGAATTGATCAGTGTGTTT 59.658 37.500 0.00 0.00 0.00 2.83
1440 1467 5.534278 TGCAAGGAATTGATCAGTGTGTTTA 59.466 36.000 0.00 0.00 0.00 2.01
1472 1499 5.974108 CAAGGATTGGAGATTGCTCAAAAT 58.026 37.500 0.00 0.00 43.94 1.82
1473 1500 5.593679 AGGATTGGAGATTGCTCAAAATG 57.406 39.130 0.00 0.00 43.14 2.32
1571 1598 5.009631 TCTATGTTGCCTTACATTGCACTT 58.990 37.500 0.00 0.00 39.39 3.16
1804 1832 1.594331 GACAACCCAGAAAGCGAAGT 58.406 50.000 0.00 0.00 0.00 3.01
1810 1838 3.816994 ACCCAGAAAGCGAAGTTACTTT 58.183 40.909 0.00 3.61 38.78 2.66
1857 1885 7.152645 TCCTCGTTGGACTTTATATATTGCTC 58.847 38.462 0.00 0.00 40.56 4.26
1880 1908 8.719648 GCTCTGTAGATATGATGAAAGATTTGG 58.280 37.037 0.00 0.00 0.00 3.28
1988 2017 2.294979 GGACACAAAGTTTCCCTCGTT 58.705 47.619 0.00 0.00 0.00 3.85
2041 2070 3.129813 TCATGCATTGCTCTTCCATTCAC 59.870 43.478 10.49 0.00 0.00 3.18
2058 2087 9.619316 TTCCATTCACGTTTTCTAATGTAATTG 57.381 29.630 0.00 0.00 36.99 2.32
2063 2092 9.820229 TTCACGTTTTCTAATGTAATTGATGTC 57.180 29.630 0.00 0.00 36.99 3.06
2090 2119 8.931385 ACATTACATATCAACAAAAAGATGGC 57.069 30.769 0.00 0.00 0.00 4.40
2091 2120 8.530311 ACATTACATATCAACAAAAAGATGGCA 58.470 29.630 0.00 0.00 0.00 4.92
2092 2121 8.810427 CATTACATATCAACAAAAAGATGGCAC 58.190 33.333 0.00 0.00 0.00 5.01
2106 2135 2.800881 TGGCACATGTAGCTATCGAG 57.199 50.000 16.34 0.00 0.00 4.04
2116 2145 4.159266 CTATCGAGCAGGGACGGA 57.841 61.111 0.00 0.00 0.00 4.69
2117 2146 1.655329 CTATCGAGCAGGGACGGAC 59.345 63.158 0.00 0.00 0.00 4.79
2118 2147 1.797211 CTATCGAGCAGGGACGGACC 61.797 65.000 0.00 0.00 38.08 4.46
2119 2148 2.561467 TATCGAGCAGGGACGGACCA 62.561 60.000 0.00 0.00 41.20 4.02
2120 2149 4.436998 CGAGCAGGGACGGACCAC 62.437 72.222 0.00 0.00 41.20 4.16
2121 2150 3.311110 GAGCAGGGACGGACCACA 61.311 66.667 0.00 0.00 41.20 4.17
2122 2151 3.302347 GAGCAGGGACGGACCACAG 62.302 68.421 0.00 0.00 41.20 3.66
2123 2152 4.394712 GCAGGGACGGACCACAGG 62.395 72.222 0.00 0.00 41.20 4.00
2124 2153 4.394712 CAGGGACGGACCACAGGC 62.395 72.222 0.00 0.00 41.20 4.85
2127 2156 3.771160 GGACGGACCACAGGCGAT 61.771 66.667 0.00 0.00 38.79 4.58
2128 2157 2.509336 GACGGACCACAGGCGATG 60.509 66.667 0.00 0.00 0.00 3.84
2129 2158 4.760047 ACGGACCACAGGCGATGC 62.760 66.667 0.00 0.00 0.00 3.91
2201 2230 4.976925 CCTCCGGCATGCCTAGCG 62.977 72.222 33.07 19.86 0.00 4.26
2202 2231 4.976925 CTCCGGCATGCCTAGCGG 62.977 72.222 33.07 27.32 0.00 5.52
2229 2258 3.322466 CGGCAGGTTCTGGTCCCT 61.322 66.667 0.00 0.00 31.21 4.20
2230 2259 2.671682 GGCAGGTTCTGGTCCCTC 59.328 66.667 0.00 0.00 31.21 4.30
2231 2260 2.224159 GGCAGGTTCTGGTCCCTCA 61.224 63.158 0.00 0.00 31.21 3.86
2232 2261 1.003233 GCAGGTTCTGGTCCCTCAC 60.003 63.158 0.00 0.00 31.21 3.51
2233 2262 1.293498 CAGGTTCTGGTCCCTCACG 59.707 63.158 0.00 0.00 0.00 4.35
2234 2263 1.913762 AGGTTCTGGTCCCTCACGG 60.914 63.158 0.00 0.00 0.00 4.94
2235 2264 1.911766 GGTTCTGGTCCCTCACGGA 60.912 63.158 0.00 0.00 38.83 4.69
2236 2265 1.592223 GTTCTGGTCCCTCACGGAG 59.408 63.158 0.00 0.00 43.19 4.63
2237 2266 0.898789 GTTCTGGTCCCTCACGGAGA 60.899 60.000 2.84 0.00 43.19 3.71
2238 2267 0.898789 TTCTGGTCCCTCACGGAGAC 60.899 60.000 2.84 0.00 43.19 3.36
2239 2268 1.304547 CTGGTCCCTCACGGAGACT 60.305 63.158 2.84 0.00 43.19 3.24
2240 2269 1.599606 CTGGTCCCTCACGGAGACTG 61.600 65.000 2.84 0.00 43.19 3.51
2241 2270 1.304217 GGTCCCTCACGGAGACTGA 60.304 63.158 2.84 0.00 43.19 3.41
2242 2271 1.596895 GGTCCCTCACGGAGACTGAC 61.597 65.000 2.84 6.23 43.19 3.51
2243 2272 1.674651 TCCCTCACGGAGACTGACG 60.675 63.158 2.84 0.00 34.86 4.35
2244 2273 1.674651 CCCTCACGGAGACTGACGA 60.675 63.158 3.41 0.00 0.00 4.20
2245 2274 1.502640 CCTCACGGAGACTGACGAC 59.497 63.158 3.41 0.00 0.00 4.34
2246 2275 1.132844 CTCACGGAGACTGACGACG 59.867 63.158 3.41 0.00 0.00 5.12
2247 2276 1.289800 CTCACGGAGACTGACGACGA 61.290 60.000 0.00 0.00 0.00 4.20
2248 2277 1.132844 CACGGAGACTGACGACGAG 59.867 63.158 0.00 0.00 0.00 4.18
2249 2278 2.033755 ACGGAGACTGACGACGAGG 61.034 63.158 0.00 0.00 0.00 4.63
2250 2279 1.740664 CGGAGACTGACGACGAGGA 60.741 63.158 0.00 0.00 0.00 3.71
2251 2280 1.795507 GGAGACTGACGACGAGGAC 59.204 63.158 0.00 0.00 0.00 3.85
2252 2281 1.420702 GAGACTGACGACGAGGACG 59.579 63.158 0.00 0.00 45.75 4.79
2253 2282 1.005275 AGACTGACGACGAGGACGA 60.005 57.895 0.00 0.00 42.66 4.20
2254 2283 0.391395 AGACTGACGACGAGGACGAT 60.391 55.000 0.00 0.00 42.66 3.73
2255 2284 0.247735 GACTGACGACGAGGACGATG 60.248 60.000 0.00 0.00 42.66 3.84
2256 2285 0.672711 ACTGACGACGAGGACGATGA 60.673 55.000 0.00 0.00 42.66 2.92
2257 2286 0.026933 CTGACGACGAGGACGATGAG 59.973 60.000 0.00 0.00 42.66 2.90
2258 2287 1.352404 GACGACGAGGACGATGAGG 59.648 63.158 0.00 0.00 42.66 3.86
2259 2288 1.078637 ACGACGAGGACGATGAGGA 60.079 57.895 0.00 0.00 42.66 3.71
2260 2289 1.352404 CGACGAGGACGATGAGGAC 59.648 63.158 0.00 0.00 42.66 3.85
2261 2290 1.352404 GACGAGGACGATGAGGACG 59.648 63.158 0.00 0.00 42.66 4.79
2262 2291 2.049475 GACGAGGACGATGAGGACGG 62.049 65.000 0.00 0.00 42.66 4.79
2263 2292 1.818363 CGAGGACGATGAGGACGGA 60.818 63.158 0.00 0.00 42.66 4.69
2264 2293 1.777030 CGAGGACGATGAGGACGGAG 61.777 65.000 0.00 0.00 42.66 4.63
2265 2294 1.448922 GAGGACGATGAGGACGGAGG 61.449 65.000 0.00 0.00 34.93 4.30
2266 2295 2.491022 GGACGATGAGGACGGAGGG 61.491 68.421 0.00 0.00 34.93 4.30
2267 2296 1.453379 GACGATGAGGACGGAGGGA 60.453 63.158 0.00 0.00 34.93 4.20
2268 2297 0.824182 GACGATGAGGACGGAGGGAT 60.824 60.000 0.00 0.00 34.93 3.85
2269 2298 0.824182 ACGATGAGGACGGAGGGATC 60.824 60.000 0.00 0.00 34.93 3.36
2270 2299 0.823769 CGATGAGGACGGAGGGATCA 60.824 60.000 0.00 0.00 0.00 2.92
2271 2300 0.676736 GATGAGGACGGAGGGATCAC 59.323 60.000 0.00 0.00 0.00 3.06
2272 2301 0.760945 ATGAGGACGGAGGGATCACC 60.761 60.000 0.00 0.00 40.67 4.02
2278 2307 4.222847 GGAGGGATCACCGACGGC 62.223 72.222 15.39 0.00 46.96 5.68
2279 2308 3.148279 GAGGGATCACCGACGGCT 61.148 66.667 15.39 0.69 46.96 5.52
2280 2309 3.140225 GAGGGATCACCGACGGCTC 62.140 68.421 15.39 7.51 46.96 4.70
2281 2310 4.570663 GGGATCACCGACGGCTCG 62.571 72.222 15.39 2.64 39.83 5.03
2293 2322 2.125106 GGCTCGCCGGATTTGTCT 60.125 61.111 5.05 0.00 0.00 3.41
2294 2323 1.745489 GGCTCGCCGGATTTGTCTT 60.745 57.895 5.05 0.00 0.00 3.01
2295 2324 1.706287 GGCTCGCCGGATTTGTCTTC 61.706 60.000 5.05 0.00 0.00 2.87
2296 2325 1.706287 GCTCGCCGGATTTGTCTTCC 61.706 60.000 5.05 0.00 0.00 3.46
2297 2326 1.078708 TCGCCGGATTTGTCTTCCC 60.079 57.895 5.05 0.00 0.00 3.97
2298 2327 2.112815 CGCCGGATTTGTCTTCCCC 61.113 63.158 5.05 0.00 0.00 4.81
2299 2328 1.001393 GCCGGATTTGTCTTCCCCA 60.001 57.895 5.05 0.00 0.00 4.96
2300 2329 0.610785 GCCGGATTTGTCTTCCCCAA 60.611 55.000 5.05 0.00 0.00 4.12
2301 2330 1.173913 CCGGATTTGTCTTCCCCAAC 58.826 55.000 0.00 0.00 0.00 3.77
2302 2331 1.546773 CCGGATTTGTCTTCCCCAACA 60.547 52.381 0.00 0.00 0.00 3.33
2303 2332 1.539827 CGGATTTGTCTTCCCCAACAC 59.460 52.381 0.00 0.00 0.00 3.32
2304 2333 1.893137 GGATTTGTCTTCCCCAACACC 59.107 52.381 0.00 0.00 0.00 4.16
2305 2334 2.490902 GGATTTGTCTTCCCCAACACCT 60.491 50.000 0.00 0.00 0.00 4.00
2306 2335 2.838637 TTTGTCTTCCCCAACACCTT 57.161 45.000 0.00 0.00 0.00 3.50
2307 2336 2.358322 TTGTCTTCCCCAACACCTTC 57.642 50.000 0.00 0.00 0.00 3.46
2308 2337 0.476771 TGTCTTCCCCAACACCTTCC 59.523 55.000 0.00 0.00 0.00 3.46
2309 2338 0.605589 GTCTTCCCCAACACCTTCCG 60.606 60.000 0.00 0.00 0.00 4.30
2310 2339 0.765135 TCTTCCCCAACACCTTCCGA 60.765 55.000 0.00 0.00 0.00 4.55
2311 2340 0.328258 CTTCCCCAACACCTTCCGAT 59.672 55.000 0.00 0.00 0.00 4.18
2312 2341 0.037590 TTCCCCAACACCTTCCGATG 59.962 55.000 0.00 0.00 0.00 3.84
2313 2342 1.131303 TCCCCAACACCTTCCGATGT 61.131 55.000 0.00 0.00 0.00 3.06
2314 2343 0.960364 CCCCAACACCTTCCGATGTG 60.960 60.000 0.00 0.00 38.44 3.21
2315 2344 0.036164 CCCAACACCTTCCGATGTGA 59.964 55.000 5.77 0.00 36.35 3.58
2316 2345 1.340017 CCCAACACCTTCCGATGTGAT 60.340 52.381 5.77 0.00 36.35 3.06
2317 2346 2.009774 CCAACACCTTCCGATGTGATC 58.990 52.381 5.77 0.00 36.35 2.92
2318 2347 2.355108 CCAACACCTTCCGATGTGATCT 60.355 50.000 5.77 0.00 36.35 2.75
2319 2348 2.674852 CAACACCTTCCGATGTGATCTG 59.325 50.000 5.77 0.00 36.35 2.90
2320 2349 1.293924 CACCTTCCGATGTGATCTGC 58.706 55.000 0.00 0.00 34.37 4.26
2321 2350 0.179100 ACCTTCCGATGTGATCTGCG 60.179 55.000 0.00 0.00 0.00 5.18
2322 2351 0.103026 CCTTCCGATGTGATCTGCGA 59.897 55.000 0.00 0.00 0.00 5.10
2323 2352 1.471501 CCTTCCGATGTGATCTGCGAA 60.472 52.381 0.00 0.00 0.00 4.70
2324 2353 1.857217 CTTCCGATGTGATCTGCGAAG 59.143 52.381 0.00 0.00 0.00 3.79
2341 2370 4.766404 CGAAGCTTTCAACCCAAGTTAT 57.234 40.909 0.00 0.00 33.27 1.89
2342 2371 5.121221 CGAAGCTTTCAACCCAAGTTATT 57.879 39.130 0.00 0.00 33.27 1.40
2343 2372 5.154222 CGAAGCTTTCAACCCAAGTTATTC 58.846 41.667 0.00 0.00 33.27 1.75
2344 2373 4.766404 AGCTTTCAACCCAAGTTATTCG 57.234 40.909 0.00 0.00 33.27 3.34
2345 2374 3.506067 AGCTTTCAACCCAAGTTATTCGG 59.494 43.478 0.00 0.00 33.27 4.30
2346 2375 3.504520 GCTTTCAACCCAAGTTATTCGGA 59.495 43.478 0.00 0.00 33.27 4.55
2347 2376 4.379499 GCTTTCAACCCAAGTTATTCGGAG 60.379 45.833 0.00 0.00 33.27 4.63
2348 2377 3.343941 TCAACCCAAGTTATTCGGAGG 57.656 47.619 0.00 0.00 33.27 4.30
2349 2378 2.907696 TCAACCCAAGTTATTCGGAGGA 59.092 45.455 0.00 0.00 33.27 3.71
2350 2379 3.055385 TCAACCCAAGTTATTCGGAGGAG 60.055 47.826 0.00 0.00 33.27 3.69
2351 2380 1.838077 ACCCAAGTTATTCGGAGGAGG 59.162 52.381 0.00 0.00 0.00 4.30
2352 2381 2.116238 CCCAAGTTATTCGGAGGAGGA 58.884 52.381 0.00 0.00 0.00 3.71
2353 2382 2.158943 CCCAAGTTATTCGGAGGAGGAC 60.159 54.545 0.00 0.00 0.00 3.85
2354 2383 2.500098 CCAAGTTATTCGGAGGAGGACA 59.500 50.000 0.00 0.00 0.00 4.02
2355 2384 3.134804 CCAAGTTATTCGGAGGAGGACAT 59.865 47.826 0.00 0.00 0.00 3.06
2356 2385 4.384208 CCAAGTTATTCGGAGGAGGACATT 60.384 45.833 0.00 0.00 0.00 2.71
2357 2386 4.408182 AGTTATTCGGAGGAGGACATTG 57.592 45.455 0.00 0.00 0.00 2.82
2358 2387 2.872858 GTTATTCGGAGGAGGACATTGC 59.127 50.000 0.00 0.00 0.00 3.56
2359 2388 1.207791 ATTCGGAGGAGGACATTGCT 58.792 50.000 0.00 0.00 0.00 3.91
2360 2389 1.860641 TTCGGAGGAGGACATTGCTA 58.139 50.000 0.00 0.00 0.00 3.49
2361 2390 1.112113 TCGGAGGAGGACATTGCTAC 58.888 55.000 0.00 0.00 0.00 3.58
2362 2391 1.115467 CGGAGGAGGACATTGCTACT 58.885 55.000 0.00 0.00 28.54 2.57
2363 2392 2.092049 TCGGAGGAGGACATTGCTACTA 60.092 50.000 0.00 0.00 24.68 1.82
2364 2393 2.894126 CGGAGGAGGACATTGCTACTAT 59.106 50.000 0.00 0.00 24.68 2.12
2365 2394 3.322254 CGGAGGAGGACATTGCTACTATT 59.678 47.826 0.00 0.00 24.68 1.73
2366 2395 4.202264 CGGAGGAGGACATTGCTACTATTT 60.202 45.833 0.00 0.00 24.68 1.40
2367 2396 5.685075 CGGAGGAGGACATTGCTACTATTTT 60.685 44.000 0.00 0.00 24.68 1.82
2368 2397 5.760743 GGAGGAGGACATTGCTACTATTTTC 59.239 44.000 0.00 0.00 24.68 2.29
2369 2398 5.360591 AGGAGGACATTGCTACTATTTTCG 58.639 41.667 0.00 0.00 21.53 3.46
2370 2399 5.128827 AGGAGGACATTGCTACTATTTTCGA 59.871 40.000 0.00 0.00 21.53 3.71
2371 2400 5.992217 GGAGGACATTGCTACTATTTTCGAT 59.008 40.000 0.00 0.00 0.00 3.59
2372 2401 6.073548 GGAGGACATTGCTACTATTTTCGATG 60.074 42.308 0.00 0.00 0.00 3.84
2373 2402 6.349300 AGGACATTGCTACTATTTTCGATGT 58.651 36.000 0.00 0.00 36.54 3.06
2374 2403 6.823689 AGGACATTGCTACTATTTTCGATGTT 59.176 34.615 0.00 0.00 34.63 2.71
2375 2404 6.907212 GGACATTGCTACTATTTTCGATGTTG 59.093 38.462 0.00 0.00 34.63 3.33
2376 2405 7.377766 ACATTGCTACTATTTTCGATGTTGT 57.622 32.000 0.00 0.00 31.45 3.32
2377 2406 8.487313 ACATTGCTACTATTTTCGATGTTGTA 57.513 30.769 0.00 0.00 31.45 2.41
2378 2407 8.604035 ACATTGCTACTATTTTCGATGTTGTAG 58.396 33.333 0.00 0.00 31.45 2.74
2379 2408 8.604035 CATTGCTACTATTTTCGATGTTGTAGT 58.396 33.333 11.97 7.94 0.00 2.73
2380 2409 8.542497 TTGCTACTATTTTCGATGTTGTAGTT 57.458 30.769 11.97 0.00 0.00 2.24
2381 2410 8.181487 TGCTACTATTTTCGATGTTGTAGTTC 57.819 34.615 11.97 4.13 0.00 3.01
2382 2411 7.277098 TGCTACTATTTTCGATGTTGTAGTTCC 59.723 37.037 11.97 3.42 0.00 3.62
2383 2412 7.277098 GCTACTATTTTCGATGTTGTAGTTCCA 59.723 37.037 11.97 0.00 0.00 3.53
2384 2413 7.972832 ACTATTTTCGATGTTGTAGTTCCAA 57.027 32.000 0.00 0.00 0.00 3.53
2385 2414 8.029642 ACTATTTTCGATGTTGTAGTTCCAAG 57.970 34.615 0.00 0.00 0.00 3.61
2386 2415 4.742438 TTTCGATGTTGTAGTTCCAAGC 57.258 40.909 0.00 0.00 0.00 4.01
2387 2416 2.333926 TCGATGTTGTAGTTCCAAGCG 58.666 47.619 0.00 0.00 0.00 4.68
2388 2417 2.029739 TCGATGTTGTAGTTCCAAGCGA 60.030 45.455 0.00 0.00 0.00 4.93
2389 2418 2.092211 CGATGTTGTAGTTCCAAGCGAC 59.908 50.000 0.00 0.00 0.00 5.19
2390 2419 1.493772 TGTTGTAGTTCCAAGCGACG 58.506 50.000 0.00 0.00 0.00 5.12
2391 2420 1.067364 TGTTGTAGTTCCAAGCGACGA 59.933 47.619 0.00 0.00 0.00 4.20
2392 2421 1.454653 GTTGTAGTTCCAAGCGACGAC 59.545 52.381 0.00 0.00 0.00 4.34
2393 2422 0.038892 TGTAGTTCCAAGCGACGACC 60.039 55.000 0.00 0.00 0.00 4.79
2394 2423 0.243095 GTAGTTCCAAGCGACGACCT 59.757 55.000 0.00 0.00 0.00 3.85
2395 2424 0.242825 TAGTTCCAAGCGACGACCTG 59.757 55.000 0.00 0.00 0.00 4.00
2396 2425 2.027625 GTTCCAAGCGACGACCTGG 61.028 63.158 0.00 1.13 0.00 4.45
2397 2426 3.876589 TTCCAAGCGACGACCTGGC 62.877 63.158 0.00 0.00 0.00 4.85
2398 2427 4.680237 CCAAGCGACGACCTGGCA 62.680 66.667 0.00 0.00 0.00 4.92
2399 2428 2.664851 CAAGCGACGACCTGGCAA 60.665 61.111 0.00 0.00 0.00 4.52
2400 2429 2.357517 AAGCGACGACCTGGCAAG 60.358 61.111 0.00 0.00 0.00 4.01
2421 2450 1.926561 CAAGGATTGCGATCTGACGA 58.073 50.000 13.72 0.00 40.39 4.20
2422 2451 1.590238 CAAGGATTGCGATCTGACGAC 59.410 52.381 13.72 0.00 40.39 4.34
2423 2452 0.817654 AGGATTGCGATCTGACGACA 59.182 50.000 13.72 0.00 35.09 4.35
2424 2453 1.204704 AGGATTGCGATCTGACGACAA 59.795 47.619 13.72 0.00 35.37 3.18
2425 2454 1.590238 GGATTGCGATCTGACGACAAG 59.410 52.381 13.72 0.00 34.82 3.16
2426 2455 2.530177 GATTGCGATCTGACGACAAGA 58.470 47.619 6.70 0.00 34.82 3.02
2427 2456 2.654749 TTGCGATCTGACGACAAGAT 57.345 45.000 0.00 0.00 35.09 2.40
2428 2457 2.194800 TGCGATCTGACGACAAGATC 57.805 50.000 13.29 13.29 36.15 2.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 4.960866 TCGGCGGGGCGAGCTATA 62.961 66.667 13.55 0.00 34.52 1.31
44 45 2.672651 TACCGTCGGCCTCAACGA 60.673 61.111 19.81 0.97 41.29 3.85
46 47 2.125793 GGTACCGTCGGCCTCAAC 60.126 66.667 12.28 2.04 0.00 3.18
54 55 3.437795 ACGCCTCTGGTACCGTCG 61.438 66.667 7.57 8.29 0.00 5.12
57 58 1.874345 AAGACACGCCTCTGGTACCG 61.874 60.000 7.57 2.25 0.00 4.02
60 61 1.000506 GAACAAGACACGCCTCTGGTA 59.999 52.381 0.00 0.00 0.00 3.25
148 150 5.173664 GGAGGAGGCAAAATCTTCAATTTG 58.826 41.667 0.00 0.00 39.08 2.32
149 151 4.223700 GGGAGGAGGCAAAATCTTCAATTT 59.776 41.667 0.00 0.00 0.00 1.82
151 153 3.369175 GGGAGGAGGCAAAATCTTCAAT 58.631 45.455 0.00 0.00 0.00 2.57
210 216 9.232082 CGAATTCACTCAAGAGAAGAGTAATAG 57.768 37.037 6.22 0.00 44.11 1.73
211 217 8.957466 TCGAATTCACTCAAGAGAAGAGTAATA 58.043 33.333 6.22 0.00 44.11 0.98
278 284 5.151454 TGAAGGCTCCCCAAAATTCTAAAA 58.849 37.500 0.00 0.00 0.00 1.52
349 355 6.373779 CAGAACTAGATTGAAAATTGCACGT 58.626 36.000 0.00 0.00 0.00 4.49
426 435 9.417561 ACAAGAACATGATATTCAGAATTGGAT 57.582 29.630 0.00 0.00 0.00 3.41
464 481 9.667107 TTTGATACTCATAAGAACTAACCCAAG 57.333 33.333 0.00 0.00 0.00 3.61
555 574 4.345257 AGACTGGACTGTTAGTTGTCATGT 59.655 41.667 0.00 0.00 35.11 3.21
558 577 3.492656 GCAGACTGGACTGTTAGTTGTCA 60.493 47.826 4.26 0.00 39.73 3.58
559 578 3.060602 GCAGACTGGACTGTTAGTTGTC 58.939 50.000 4.26 0.00 39.73 3.18
677 697 3.365364 CCCACGTTCATTCTCTTTTCTGC 60.365 47.826 0.00 0.00 0.00 4.26
726 746 7.244886 TCAGGTATAACACTATCCATGGATG 57.755 40.000 33.41 24.54 36.17 3.51
781 803 7.394359 ACTTGATGTGATATGGTGCTTAACTTT 59.606 33.333 0.00 0.00 0.00 2.66
892 918 5.426509 AGTCATCCCAATAGATGTGAAGACA 59.573 40.000 1.78 0.00 43.46 3.41
995 1022 9.401873 CGTTAATTCTTGTCCGTGACATATATA 57.598 33.333 7.43 0.00 42.40 0.86
997 1024 7.259882 ACGTTAATTCTTGTCCGTGACATATA 58.740 34.615 7.43 0.00 42.40 0.86
1051 1078 3.543680 ATGATGTCCGATCGGTTCTTT 57.456 42.857 32.15 17.38 36.47 2.52
1064 1091 6.775088 TCGTTTTCTGCAGAATTATGATGTC 58.225 36.000 28.89 10.78 33.54 3.06
1080 1107 3.551890 CGGATGATTCGACATCGTTTTCT 59.448 43.478 9.23 0.00 45.07 2.52
1086 1113 2.658802 GACATCGGATGATTCGACATCG 59.341 50.000 23.98 0.00 45.07 3.84
1144 1171 2.838386 GCATCAGCGTCATCACAATT 57.162 45.000 0.00 0.00 0.00 2.32
1172 1199 2.161609 GCAACAAACCTACCATCTTCGG 59.838 50.000 0.00 0.00 0.00 4.30
1184 1211 4.214758 ACGGTAAGTAATGAGCAACAAACC 59.785 41.667 0.00 0.00 0.00 3.27
1403 1430 1.074405 TCCTTGCAACTGAGCCAAGAT 59.926 47.619 0.00 0.00 0.00 2.40
1426 1453 6.463360 TGTAGCTCAATAAACACACTGATCA 58.537 36.000 0.00 0.00 0.00 2.92
1432 1459 6.743575 ATCCTTGTAGCTCAATAAACACAC 57.256 37.500 0.00 0.00 35.35 3.82
1439 1466 6.753913 ATCTCCAATCCTTGTAGCTCAATA 57.246 37.500 0.00 0.00 35.35 1.90
1440 1467 5.643421 ATCTCCAATCCTTGTAGCTCAAT 57.357 39.130 0.00 0.00 35.35 2.57
1603 1630 1.907255 CGAGGAGGGTAAAGGAACCTT 59.093 52.381 0.00 0.00 39.65 3.50
1836 1864 7.715265 ACAGAGCAATATATAAAGTCCAACG 57.285 36.000 0.00 0.00 0.00 4.10
1857 1885 9.551734 TGTCCAAATCTTTCATCATATCTACAG 57.448 33.333 0.00 0.00 0.00 2.74
1866 1894 8.070034 AGCAATTATGTCCAAATCTTTCATCA 57.930 30.769 0.00 0.00 0.00 3.07
2081 2110 4.512944 CGATAGCTACATGTGCCATCTTTT 59.487 41.667 9.11 0.00 0.00 2.27
2099 2128 1.655329 GTCCGTCCCTGCTCGATAG 59.345 63.158 0.00 0.00 0.00 2.08
2100 2129 1.826921 GGTCCGTCCCTGCTCGATA 60.827 63.158 0.00 0.00 0.00 2.92
2101 2130 3.148279 GGTCCGTCCCTGCTCGAT 61.148 66.667 0.00 0.00 0.00 3.59
2102 2131 4.671590 TGGTCCGTCCCTGCTCGA 62.672 66.667 0.00 0.00 34.77 4.04
2103 2132 4.436998 GTGGTCCGTCCCTGCTCG 62.437 72.222 0.00 0.00 34.77 5.03
2104 2133 3.302347 CTGTGGTCCGTCCCTGCTC 62.302 68.421 0.00 0.00 34.77 4.26
2105 2134 3.314331 CTGTGGTCCGTCCCTGCT 61.314 66.667 0.00 0.00 34.77 4.24
2106 2135 4.394712 CCTGTGGTCCGTCCCTGC 62.395 72.222 0.00 0.00 34.77 4.85
2107 2136 4.394712 GCCTGTGGTCCGTCCCTG 62.395 72.222 0.00 0.00 34.77 4.45
2110 2139 3.771160 ATCGCCTGTGGTCCGTCC 61.771 66.667 0.00 0.00 0.00 4.79
2111 2140 2.509336 CATCGCCTGTGGTCCGTC 60.509 66.667 0.00 0.00 0.00 4.79
2112 2141 4.760047 GCATCGCCTGTGGTCCGT 62.760 66.667 0.00 0.00 0.00 4.69
2185 2214 4.976925 CCGCTAGGCATGCCGGAG 62.977 72.222 30.50 29.14 41.95 4.63
2212 2241 3.316573 GAGGGACCAGAACCTGCCG 62.317 68.421 0.00 0.00 37.18 5.69
2213 2242 2.224159 TGAGGGACCAGAACCTGCC 61.224 63.158 0.00 0.00 37.18 4.85
2214 2243 1.003233 GTGAGGGACCAGAACCTGC 60.003 63.158 0.00 0.00 37.18 4.85
2215 2244 1.293498 CGTGAGGGACCAGAACCTG 59.707 63.158 0.00 0.00 37.18 4.00
2216 2245 3.793060 CGTGAGGGACCAGAACCT 58.207 61.111 0.00 0.00 40.54 3.50
2228 2257 1.132844 CGTCGTCAGTCTCCGTGAG 59.867 63.158 0.00 0.00 0.00 3.51
2229 2258 1.289800 CTCGTCGTCAGTCTCCGTGA 61.290 60.000 0.00 0.00 0.00 4.35
2230 2259 1.132844 CTCGTCGTCAGTCTCCGTG 59.867 63.158 0.00 0.00 0.00 4.94
2231 2260 2.033755 CCTCGTCGTCAGTCTCCGT 61.034 63.158 0.00 0.00 0.00 4.69
2232 2261 1.740664 TCCTCGTCGTCAGTCTCCG 60.741 63.158 0.00 0.00 0.00 4.63
2233 2262 1.795507 GTCCTCGTCGTCAGTCTCC 59.204 63.158 0.00 0.00 0.00 3.71
2234 2263 1.013005 TCGTCCTCGTCGTCAGTCTC 61.013 60.000 0.00 0.00 38.33 3.36
2235 2264 0.391395 ATCGTCCTCGTCGTCAGTCT 60.391 55.000 0.00 0.00 38.33 3.24
2236 2265 0.247735 CATCGTCCTCGTCGTCAGTC 60.248 60.000 0.00 0.00 38.33 3.51
2237 2266 0.672711 TCATCGTCCTCGTCGTCAGT 60.673 55.000 0.00 0.00 38.33 3.41
2238 2267 0.026933 CTCATCGTCCTCGTCGTCAG 59.973 60.000 0.00 0.00 38.33 3.51
2239 2268 1.366854 CCTCATCGTCCTCGTCGTCA 61.367 60.000 0.00 0.00 38.33 4.35
2240 2269 1.088340 TCCTCATCGTCCTCGTCGTC 61.088 60.000 0.00 0.00 38.33 4.20
2241 2270 1.078637 TCCTCATCGTCCTCGTCGT 60.079 57.895 0.00 0.00 38.33 4.34
2242 2271 1.352404 GTCCTCATCGTCCTCGTCG 59.648 63.158 0.00 0.00 38.33 5.12
2243 2272 1.352404 CGTCCTCATCGTCCTCGTC 59.648 63.158 0.00 0.00 38.33 4.20
2244 2273 2.113433 CCGTCCTCATCGTCCTCGT 61.113 63.158 0.00 0.00 38.33 4.18
2245 2274 1.777030 CTCCGTCCTCATCGTCCTCG 61.777 65.000 0.00 0.00 38.55 4.63
2246 2275 1.448922 CCTCCGTCCTCATCGTCCTC 61.449 65.000 0.00 0.00 0.00 3.71
2247 2276 1.454111 CCTCCGTCCTCATCGTCCT 60.454 63.158 0.00 0.00 0.00 3.85
2248 2277 2.491022 CCCTCCGTCCTCATCGTCC 61.491 68.421 0.00 0.00 0.00 4.79
2249 2278 0.824182 ATCCCTCCGTCCTCATCGTC 60.824 60.000 0.00 0.00 0.00 4.20
2250 2279 0.824182 GATCCCTCCGTCCTCATCGT 60.824 60.000 0.00 0.00 0.00 3.73
2251 2280 0.823769 TGATCCCTCCGTCCTCATCG 60.824 60.000 0.00 0.00 0.00 3.84
2252 2281 0.676736 GTGATCCCTCCGTCCTCATC 59.323 60.000 0.00 0.00 0.00 2.92
2253 2282 0.760945 GGTGATCCCTCCGTCCTCAT 60.761 60.000 0.00 0.00 0.00 2.90
2254 2283 1.381327 GGTGATCCCTCCGTCCTCA 60.381 63.158 0.00 0.00 0.00 3.86
2255 2284 2.491022 CGGTGATCCCTCCGTCCTC 61.491 68.421 11.29 0.00 42.61 3.71
2256 2285 2.442272 CGGTGATCCCTCCGTCCT 60.442 66.667 11.29 0.00 42.61 3.85
2257 2286 2.441532 TCGGTGATCCCTCCGTCC 60.442 66.667 16.58 0.00 46.31 4.79
2258 2287 2.806237 GTCGGTGATCCCTCCGTC 59.194 66.667 16.58 10.26 46.31 4.79
2259 2288 3.138798 CGTCGGTGATCCCTCCGT 61.139 66.667 16.58 0.00 46.31 4.69
2261 2290 4.222847 GCCGTCGGTGATCCCTCC 62.223 72.222 13.94 0.00 0.00 4.30
2262 2291 3.140225 GAGCCGTCGGTGATCCCTC 62.140 68.421 13.94 5.87 0.00 4.30
2263 2292 3.148279 GAGCCGTCGGTGATCCCT 61.148 66.667 13.94 0.00 0.00 4.20
2264 2293 4.570663 CGAGCCGTCGGTGATCCC 62.571 72.222 13.94 0.00 42.87 3.85
2276 2305 1.706287 GAAGACAAATCCGGCGAGCC 61.706 60.000 9.30 3.59 0.00 4.70
2277 2306 1.706287 GGAAGACAAATCCGGCGAGC 61.706 60.000 9.30 0.00 0.00 5.03
2278 2307 1.090052 GGGAAGACAAATCCGGCGAG 61.090 60.000 9.30 0.00 37.87 5.03
2279 2308 1.078708 GGGAAGACAAATCCGGCGA 60.079 57.895 9.30 0.00 37.87 5.54
2280 2309 2.112815 GGGGAAGACAAATCCGGCG 61.113 63.158 0.00 0.00 37.87 6.46
2281 2310 0.610785 TTGGGGAAGACAAATCCGGC 60.611 55.000 0.00 0.00 37.87 6.13
2282 2311 1.173913 GTTGGGGAAGACAAATCCGG 58.826 55.000 0.00 0.00 37.87 5.14
2283 2312 1.539827 GTGTTGGGGAAGACAAATCCG 59.460 52.381 0.00 0.00 37.87 4.18
2284 2313 1.893137 GGTGTTGGGGAAGACAAATCC 59.107 52.381 0.00 0.00 36.16 3.01
2285 2314 2.876581 AGGTGTTGGGGAAGACAAATC 58.123 47.619 0.00 0.00 0.00 2.17
2286 2315 3.230976 GAAGGTGTTGGGGAAGACAAAT 58.769 45.455 0.00 0.00 0.00 2.32
2287 2316 2.661718 GAAGGTGTTGGGGAAGACAAA 58.338 47.619 0.00 0.00 0.00 2.83
2288 2317 1.133606 GGAAGGTGTTGGGGAAGACAA 60.134 52.381 0.00 0.00 0.00 3.18
2289 2318 0.476771 GGAAGGTGTTGGGGAAGACA 59.523 55.000 0.00 0.00 0.00 3.41
2290 2319 0.605589 CGGAAGGTGTTGGGGAAGAC 60.606 60.000 0.00 0.00 0.00 3.01
2291 2320 0.765135 TCGGAAGGTGTTGGGGAAGA 60.765 55.000 0.00 0.00 0.00 2.87
2292 2321 0.328258 ATCGGAAGGTGTTGGGGAAG 59.672 55.000 0.00 0.00 0.00 3.46
2293 2322 0.037590 CATCGGAAGGTGTTGGGGAA 59.962 55.000 0.00 0.00 37.47 3.97
2294 2323 1.682849 CATCGGAAGGTGTTGGGGA 59.317 57.895 0.00 0.00 37.47 4.81
2295 2324 4.319133 CATCGGAAGGTGTTGGGG 57.681 61.111 0.00 0.00 37.47 4.96
2302 2331 0.179100 CGCAGATCACATCGGAAGGT 60.179 55.000 0.00 0.00 0.00 3.50
2303 2332 0.103026 TCGCAGATCACATCGGAAGG 59.897 55.000 0.00 0.00 0.00 3.46
2304 2333 1.857217 CTTCGCAGATCACATCGGAAG 59.143 52.381 0.00 0.00 35.04 3.46
2305 2334 1.926561 CTTCGCAGATCACATCGGAA 58.073 50.000 0.00 0.00 35.04 4.30
2306 2335 0.528466 GCTTCGCAGATCACATCGGA 60.528 55.000 0.00 0.00 35.04 4.55
2307 2336 0.529337 AGCTTCGCAGATCACATCGG 60.529 55.000 0.00 0.00 35.04 4.18
2308 2337 1.284657 AAGCTTCGCAGATCACATCG 58.715 50.000 0.00 0.00 35.04 3.84
2309 2338 2.674852 TGAAAGCTTCGCAGATCACATC 59.325 45.455 0.00 0.00 35.04 3.06
2310 2339 2.703416 TGAAAGCTTCGCAGATCACAT 58.297 42.857 0.00 0.00 35.04 3.21
2311 2340 2.168326 TGAAAGCTTCGCAGATCACA 57.832 45.000 0.00 0.00 35.04 3.58
2312 2341 2.413371 GGTTGAAAGCTTCGCAGATCAC 60.413 50.000 0.00 0.00 35.04 3.06
2313 2342 1.806542 GGTTGAAAGCTTCGCAGATCA 59.193 47.619 0.00 0.00 35.04 2.92
2314 2343 1.131315 GGGTTGAAAGCTTCGCAGATC 59.869 52.381 0.00 0.00 35.04 2.75
2315 2344 1.168714 GGGTTGAAAGCTTCGCAGAT 58.831 50.000 0.00 0.00 35.04 2.90
2316 2345 0.179032 TGGGTTGAAAGCTTCGCAGA 60.179 50.000 0.00 0.00 0.00 4.26
2317 2346 0.667993 TTGGGTTGAAAGCTTCGCAG 59.332 50.000 0.00 0.00 0.00 5.18
2318 2347 0.667993 CTTGGGTTGAAAGCTTCGCA 59.332 50.000 0.00 0.00 0.00 5.10
2319 2348 0.668535 ACTTGGGTTGAAAGCTTCGC 59.331 50.000 0.00 0.00 0.00 4.70
2320 2349 4.766404 ATAACTTGGGTTGAAAGCTTCG 57.234 40.909 0.00 0.00 36.92 3.79
2321 2350 5.154222 CGAATAACTTGGGTTGAAAGCTTC 58.846 41.667 0.00 0.00 36.92 3.86
2322 2351 4.022329 CCGAATAACTTGGGTTGAAAGCTT 60.022 41.667 0.00 0.00 36.92 3.74
2323 2352 3.506067 CCGAATAACTTGGGTTGAAAGCT 59.494 43.478 0.00 0.00 36.92 3.74
2324 2353 3.504520 TCCGAATAACTTGGGTTGAAAGC 59.495 43.478 0.00 0.00 36.92 3.51
2325 2354 4.156008 CCTCCGAATAACTTGGGTTGAAAG 59.844 45.833 0.00 0.00 36.92 2.62
2326 2355 4.076394 CCTCCGAATAACTTGGGTTGAAA 58.924 43.478 0.00 0.00 36.92 2.69
2327 2356 3.328343 TCCTCCGAATAACTTGGGTTGAA 59.672 43.478 0.00 0.00 36.92 2.69
2328 2357 2.907696 TCCTCCGAATAACTTGGGTTGA 59.092 45.455 0.00 0.00 36.92 3.18
2329 2358 3.270877 CTCCTCCGAATAACTTGGGTTG 58.729 50.000 0.00 0.00 36.92 3.77
2330 2359 2.238898 CCTCCTCCGAATAACTTGGGTT 59.761 50.000 0.00 0.00 39.26 4.11
2331 2360 1.838077 CCTCCTCCGAATAACTTGGGT 59.162 52.381 0.00 0.00 32.42 4.51
2332 2361 2.116238 TCCTCCTCCGAATAACTTGGG 58.884 52.381 0.00 0.00 0.00 4.12
2333 2362 2.500098 TGTCCTCCTCCGAATAACTTGG 59.500 50.000 0.00 0.00 0.00 3.61
2334 2363 3.887621 TGTCCTCCTCCGAATAACTTG 57.112 47.619 0.00 0.00 0.00 3.16
2335 2364 4.770795 CAATGTCCTCCTCCGAATAACTT 58.229 43.478 0.00 0.00 0.00 2.66
2336 2365 3.432326 GCAATGTCCTCCTCCGAATAACT 60.432 47.826 0.00 0.00 0.00 2.24
2337 2366 2.872858 GCAATGTCCTCCTCCGAATAAC 59.127 50.000 0.00 0.00 0.00 1.89
2338 2367 2.771943 AGCAATGTCCTCCTCCGAATAA 59.228 45.455 0.00 0.00 0.00 1.40
2339 2368 2.398588 AGCAATGTCCTCCTCCGAATA 58.601 47.619 0.00 0.00 0.00 1.75
2340 2369 1.207791 AGCAATGTCCTCCTCCGAAT 58.792 50.000 0.00 0.00 0.00 3.34
2341 2370 1.480954 GTAGCAATGTCCTCCTCCGAA 59.519 52.381 0.00 0.00 0.00 4.30
2342 2371 1.112113 GTAGCAATGTCCTCCTCCGA 58.888 55.000 0.00 0.00 0.00 4.55
2343 2372 1.115467 AGTAGCAATGTCCTCCTCCG 58.885 55.000 0.00 0.00 0.00 4.63
2344 2373 4.965200 AATAGTAGCAATGTCCTCCTCC 57.035 45.455 0.00 0.00 0.00 4.30
2345 2374 5.463724 CGAAAATAGTAGCAATGTCCTCCTC 59.536 44.000 0.00 0.00 0.00 3.71
2346 2375 5.128827 TCGAAAATAGTAGCAATGTCCTCCT 59.871 40.000 0.00 0.00 0.00 3.69
2347 2376 5.357257 TCGAAAATAGTAGCAATGTCCTCC 58.643 41.667 0.00 0.00 0.00 4.30
2348 2377 6.480320 ACATCGAAAATAGTAGCAATGTCCTC 59.520 38.462 0.00 0.00 0.00 3.71
2349 2378 6.349300 ACATCGAAAATAGTAGCAATGTCCT 58.651 36.000 0.00 0.00 0.00 3.85
2350 2379 6.604735 ACATCGAAAATAGTAGCAATGTCC 57.395 37.500 0.00 0.00 0.00 4.02
2351 2380 7.464358 ACAACATCGAAAATAGTAGCAATGTC 58.536 34.615 0.00 0.00 0.00 3.06
2352 2381 7.377766 ACAACATCGAAAATAGTAGCAATGT 57.622 32.000 0.00 0.00 0.00 2.71
2353 2382 8.604035 ACTACAACATCGAAAATAGTAGCAATG 58.396 33.333 12.40 0.00 32.80 2.82
2354 2383 8.718102 ACTACAACATCGAAAATAGTAGCAAT 57.282 30.769 12.40 0.00 32.80 3.56
2355 2384 8.542497 AACTACAACATCGAAAATAGTAGCAA 57.458 30.769 12.40 0.00 32.80 3.91
2356 2385 7.277098 GGAACTACAACATCGAAAATAGTAGCA 59.723 37.037 12.40 0.00 32.80 3.49
2357 2386 7.277098 TGGAACTACAACATCGAAAATAGTAGC 59.723 37.037 12.40 0.00 32.80 3.58
2358 2387 8.697846 TGGAACTACAACATCGAAAATAGTAG 57.302 34.615 11.44 11.44 35.01 2.57
2359 2388 9.146984 CTTGGAACTACAACATCGAAAATAGTA 57.853 33.333 0.00 0.00 0.00 1.82
2360 2389 7.360946 GCTTGGAACTACAACATCGAAAATAGT 60.361 37.037 0.00 0.00 0.00 2.12
2361 2390 6.961554 GCTTGGAACTACAACATCGAAAATAG 59.038 38.462 0.00 0.00 0.00 1.73
2362 2391 6.401688 CGCTTGGAACTACAACATCGAAAATA 60.402 38.462 0.00 0.00 0.00 1.40
2363 2392 5.616866 CGCTTGGAACTACAACATCGAAAAT 60.617 40.000 0.00 0.00 0.00 1.82
2364 2393 4.319190 CGCTTGGAACTACAACATCGAAAA 60.319 41.667 0.00 0.00 0.00 2.29
2365 2394 3.185594 CGCTTGGAACTACAACATCGAAA 59.814 43.478 0.00 0.00 0.00 3.46
2366 2395 2.734606 CGCTTGGAACTACAACATCGAA 59.265 45.455 0.00 0.00 0.00 3.71
2367 2396 2.029739 TCGCTTGGAACTACAACATCGA 60.030 45.455 0.00 0.00 0.00 3.59
2368 2397 2.092211 GTCGCTTGGAACTACAACATCG 59.908 50.000 0.00 0.00 0.00 3.84
2369 2398 2.092211 CGTCGCTTGGAACTACAACATC 59.908 50.000 0.00 0.00 0.00 3.06
2370 2399 2.066262 CGTCGCTTGGAACTACAACAT 58.934 47.619 0.00 0.00 0.00 2.71
2371 2400 1.067364 TCGTCGCTTGGAACTACAACA 59.933 47.619 0.00 0.00 0.00 3.33
2372 2401 1.454653 GTCGTCGCTTGGAACTACAAC 59.545 52.381 0.00 0.00 0.00 3.32
2373 2402 1.603678 GGTCGTCGCTTGGAACTACAA 60.604 52.381 0.00 0.00 0.00 2.41
2374 2403 0.038892 GGTCGTCGCTTGGAACTACA 60.039 55.000 0.00 0.00 0.00 2.74
2375 2404 0.243095 AGGTCGTCGCTTGGAACTAC 59.757 55.000 0.00 0.00 0.00 2.73
2376 2405 0.242825 CAGGTCGTCGCTTGGAACTA 59.757 55.000 0.00 0.00 0.00 2.24
2377 2406 1.006102 CAGGTCGTCGCTTGGAACT 60.006 57.895 0.00 0.00 0.00 3.01
2378 2407 2.027625 CCAGGTCGTCGCTTGGAAC 61.028 63.158 10.80 0.00 32.34 3.62
2379 2408 2.342279 CCAGGTCGTCGCTTGGAA 59.658 61.111 10.80 0.00 32.34 3.53
2380 2409 4.373116 GCCAGGTCGTCGCTTGGA 62.373 66.667 17.61 0.00 32.34 3.53
2381 2410 4.680237 TGCCAGGTCGTCGCTTGG 62.680 66.667 11.62 11.62 0.00 3.61
2382 2411 2.664851 TTGCCAGGTCGTCGCTTG 60.665 61.111 0.00 0.00 0.00 4.01
2383 2412 2.357517 CTTGCCAGGTCGTCGCTT 60.358 61.111 0.00 0.00 0.00 4.68
2384 2413 4.379243 CCTTGCCAGGTCGTCGCT 62.379 66.667 0.00 0.00 35.06 4.93
2386 2415 4.680237 TGCCTTGCCAGGTCGTCG 62.680 66.667 5.61 0.00 43.18 5.12
2387 2416 2.281484 TTGCCTTGCCAGGTCGTC 60.281 61.111 5.61 0.00 43.18 4.20
2388 2417 2.281761 CTTGCCTTGCCAGGTCGT 60.282 61.111 5.61 0.00 43.18 4.34
2389 2418 2.826777 ATCCTTGCCTTGCCAGGTCG 62.827 60.000 5.61 0.00 41.50 4.79
2390 2419 0.613012 AATCCTTGCCTTGCCAGGTC 60.613 55.000 5.61 0.00 41.50 3.85
2391 2420 0.901580 CAATCCTTGCCTTGCCAGGT 60.902 55.000 5.61 0.00 41.50 4.00
2392 2421 1.895238 CAATCCTTGCCTTGCCAGG 59.105 57.895 0.00 0.00 42.04 4.45
2402 2431 1.590238 GTCGTCAGATCGCAATCCTTG 59.410 52.381 0.00 0.00 31.78 3.61
2403 2432 1.204704 TGTCGTCAGATCGCAATCCTT 59.795 47.619 0.00 0.00 31.78 3.36
2404 2433 0.817654 TGTCGTCAGATCGCAATCCT 59.182 50.000 0.00 0.00 31.78 3.24
2405 2434 1.590238 CTTGTCGTCAGATCGCAATCC 59.410 52.381 0.00 0.00 31.78 3.01
2406 2435 2.530177 TCTTGTCGTCAGATCGCAATC 58.470 47.619 0.00 0.00 0.00 2.67
2407 2436 2.654749 TCTTGTCGTCAGATCGCAAT 57.345 45.000 0.00 0.00 0.00 3.56
2408 2437 2.530177 GATCTTGTCGTCAGATCGCAA 58.470 47.619 5.79 0.00 30.76 4.85
2409 2438 2.194800 GATCTTGTCGTCAGATCGCA 57.805 50.000 5.79 0.00 30.76 5.10


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

AutoCloner maintained by Alex Coulton.