Multiple sequence alignment - TraesCS5D01G278800

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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 TraesCS5D01G278800 chr5D 100.000 3899 0 0 1 3899 381028809 381024911 0.000000e+00 7201.0
1 TraesCS5D01G278800 chr5D 100.000 88 0 0 2109 2196 381026615 381026528 3.120000e-36 163.0
2 TraesCS5D01G278800 chr5D 100.000 88 0 0 2195 2282 381026701 381026614 3.120000e-36 163.0
3 TraesCS5D01G278800 chr5A 93.540 2229 101 21 1 2196 481896182 481893964 0.000000e+00 3278.0
4 TraesCS5D01G278800 chr5A 96.409 1253 40 3 2652 3899 481893735 481892483 0.000000e+00 2060.0
5 TraesCS5D01G278800 chr5A 95.046 323 13 1 2195 2514 481894054 481893732 4.500000e-139 505.0
6 TraesCS5D01G278800 chr5A 90.667 75 4 3 284 356 483701517 483701444 3.210000e-16 97.1
7 TraesCS5D01G278800 chr5B 94.030 2010 93 19 2 1990 457127649 457125646 0.000000e+00 3022.0
8 TraesCS5D01G278800 chr5B 88.545 1292 92 27 2652 3899 457125259 457123980 0.000000e+00 1515.0
9 TraesCS5D01G278800 chr5B 91.850 319 18 7 2203 2514 457125573 457125256 4.630000e-119 438.0
10 TraesCS5D01G278800 chr5B 85.526 152 15 1 2511 2655 57017627 57017476 6.750000e-33 152.0
11 TraesCS5D01G278800 chr5B 83.234 167 18 6 2038 2196 457125652 457125488 1.130000e-30 145.0
12 TraesCS5D01G278800 chr1D 100.000 144 0 0 2512 2655 207658275 207658418 2.310000e-67 267.0
13 TraesCS5D01G278800 chr6A 99.310 145 1 0 2511 2655 119604238 119604382 2.990000e-66 263.0
14 TraesCS5D01G278800 chr6A 99.306 144 1 0 2514 2657 100668161 100668018 1.070000e-65 261.0
15 TraesCS5D01G278800 chr7D 92.414 145 11 0 2511 2655 309508706 309508850 1.420000e-49 207.0


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 TraesCS5D01G278800 chr5D 381024911 381028809 3898 True 2509.000000 7201 100.000000 1 3899 3 chr5D.!!$R1 3898
1 TraesCS5D01G278800 chr5A 481892483 481896182 3699 True 1947.666667 3278 94.998333 1 3899 3 chr5A.!!$R2 3898
2 TraesCS5D01G278800 chr5B 457123980 457127649 3669 True 1280.000000 3022 89.414750 2 3899 4 chr5B.!!$R2 3897

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
692 696 2.173356 CCATGGGGTTCTTGATGCTCTA 59.827 50.000 2.85 0.0 0.0 2.43 F
1689 1708 1.197721 GGATGAAACAACGTGGAGCTG 59.802 52.381 0.00 0.0 0.0 4.24 F
2518 2562 0.811915 TCACGAGCAGTCTTAGAGCC 59.188 55.000 0.00 0.0 0.0 4.70 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1894 1925 0.038890 TGGGCCCAATCACGAATGAA 59.961 50.0 26.33 0.00 38.69 2.57 R
2545 2589 0.107945 GCTCTGCAACTCCGGAGATT 60.108 55.0 37.69 23.36 40.00 2.40 R
3855 3946 0.107017 CCGAGTTCATCCAGGCCAAT 60.107 55.0 5.01 0.00 0.00 3.16 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
158 162 4.452733 CTCCCCTTCACCGTCGCC 62.453 72.222 0.00 0.00 0.00 5.54
427 431 2.424302 GTACACCACGTGCTGGGT 59.576 61.111 15.02 10.07 45.78 4.51
593 597 2.358247 GACATGGTCGTGGCCGTT 60.358 61.111 0.00 0.00 35.01 4.44
608 612 3.124921 GTTCATGGGCCGGTCACG 61.125 66.667 9.07 0.00 40.55 4.35
692 696 2.173356 CCATGGGGTTCTTGATGCTCTA 59.827 50.000 2.85 0.00 0.00 2.43
758 774 5.843673 TTAGTGCTGGTTCACATTGAAAA 57.156 34.783 0.00 0.00 38.22 2.29
823 839 8.415553 CAGCCTGATGGAATGAACAAAAATATA 58.584 33.333 0.00 0.00 34.57 0.86
907 924 4.947388 TGTAAATCTGCATTCTACCAACCC 59.053 41.667 0.00 0.00 0.00 4.11
1089 1106 1.687563 AGGGCAAAGTGTGTGTAACC 58.312 50.000 0.00 0.00 34.36 2.85
1178 1195 2.526432 GACAGTCAGAGACCCAGGTAA 58.474 52.381 0.00 0.00 32.18 2.85
1463 1481 2.380081 GCATGCTGCATTTGCTTCC 58.620 52.632 18.29 0.00 44.26 3.46
1508 1527 4.104579 ACCATGCCATGTACCTGAATATGA 59.895 41.667 3.63 0.00 0.00 2.15
1516 1535 9.182214 GCCATGTACCTGAATATGATATTCATT 57.818 33.333 23.67 17.13 38.26 2.57
1552 1571 2.497273 ACTTGGTCCTGCAATTAATGGC 59.503 45.455 7.96 7.96 0.00 4.40
1624 1643 4.790765 TGTTCTCACATCTTCATCGTCT 57.209 40.909 0.00 0.00 0.00 4.18
1627 1646 2.493278 TCTCACATCTTCATCGTCTGCA 59.507 45.455 0.00 0.00 0.00 4.41
1689 1708 1.197721 GGATGAAACAACGTGGAGCTG 59.802 52.381 0.00 0.00 0.00 4.24
1741 1772 7.966246 AATACGGAACATTGTAAACTGTACA 57.034 32.000 0.00 0.00 0.00 2.90
1795 1826 6.821388 TCTGAAATAGTTCCTCTTCTATGCC 58.179 40.000 0.00 0.00 32.28 4.40
1798 1829 2.270434 AGTTCCTCTTCTATGCCCCA 57.730 50.000 0.00 0.00 0.00 4.96
1885 1916 6.777580 AGGAAAATAACATTGACCTTGTCACT 59.222 34.615 0.00 0.00 42.60 3.41
1894 1925 2.771943 TGACCTTGTCACTGTTCTTCCT 59.228 45.455 0.00 0.00 37.67 3.36
1977 2008 5.741011 TGGCTTACTTCAAGGTATGTAAGG 58.259 41.667 11.88 0.00 40.98 2.69
1986 2017 9.281371 ACTTCAAGGTATGTAAGGTTTTTCTAC 57.719 33.333 0.00 0.00 0.00 2.59
2000 2031 9.454859 AAGGTTTTTCTACTCATTTATCTCCAG 57.545 33.333 0.00 0.00 0.00 3.86
2014 2045 3.975168 TCTCCAGTAGGGTGCTAAAAC 57.025 47.619 0.00 0.00 38.11 2.43
2015 2046 3.517612 TCTCCAGTAGGGTGCTAAAACT 58.482 45.455 0.00 0.00 38.11 2.66
2016 2047 3.908103 TCTCCAGTAGGGTGCTAAAACTT 59.092 43.478 0.00 0.00 38.11 2.66
2017 2048 5.088730 TCTCCAGTAGGGTGCTAAAACTTA 58.911 41.667 0.00 0.00 38.11 2.24
2018 2049 5.046807 TCTCCAGTAGGGTGCTAAAACTTAC 60.047 44.000 0.00 0.00 38.11 2.34
2020 2051 4.935808 CCAGTAGGGTGCTAAAACTTACTG 59.064 45.833 5.87 5.87 37.62 2.74
2022 2053 5.408604 CAGTAGGGTGCTAAAACTTACTGTG 59.591 44.000 4.91 0.00 35.65 3.66
2023 2054 4.432980 AGGGTGCTAAAACTTACTGTGT 57.567 40.909 0.00 0.00 0.00 3.72
2024 2055 4.134563 AGGGTGCTAAAACTTACTGTGTG 58.865 43.478 0.00 0.00 0.00 3.82
2025 2056 4.131596 GGGTGCTAAAACTTACTGTGTGA 58.868 43.478 0.00 0.00 0.00 3.58
2026 2057 4.024302 GGGTGCTAAAACTTACTGTGTGAC 60.024 45.833 0.00 0.00 0.00 3.67
2027 2058 4.024302 GGTGCTAAAACTTACTGTGTGACC 60.024 45.833 0.00 0.00 0.00 4.02
2040 2084 6.420913 ACTGTGTGACCTCAGTAATTTAGT 57.579 37.500 8.36 0.00 42.11 2.24
2115 2159 4.023726 AGCATTTTTGGCATCATTTGGT 57.976 36.364 0.00 0.00 0.00 3.67
2142 2186 6.250089 GTTGCTTGTTCTGTTTTTCAAATGG 58.750 36.000 0.00 0.00 0.00 3.16
2160 2204 6.711645 TCAAATGGTGTACCCTTTGTAGTTAC 59.288 38.462 22.56 0.00 45.68 2.50
2176 2220 4.778534 AGTTACTCGCTAACTGCTGTTA 57.221 40.909 14.55 14.55 43.06 2.41
2177 2221 5.326200 AGTTACTCGCTAACTGCTGTTAT 57.674 39.130 15.51 4.57 43.06 1.89
2178 2222 6.446781 AGTTACTCGCTAACTGCTGTTATA 57.553 37.500 15.51 3.69 43.06 0.98
2179 2223 7.040473 AGTTACTCGCTAACTGCTGTTATAT 57.960 36.000 15.51 4.22 43.06 0.86
2180 2224 6.918569 AGTTACTCGCTAACTGCTGTTATATG 59.081 38.462 15.51 9.24 43.06 1.78
2181 2225 4.051922 ACTCGCTAACTGCTGTTATATGC 58.948 43.478 15.51 14.12 37.92 3.14
2182 2226 4.202161 ACTCGCTAACTGCTGTTATATGCT 60.202 41.667 15.51 0.17 37.92 3.79
2183 2227 4.299155 TCGCTAACTGCTGTTATATGCTC 58.701 43.478 15.51 2.67 37.92 4.26
2184 2228 4.038042 TCGCTAACTGCTGTTATATGCTCT 59.962 41.667 15.51 0.00 37.92 4.09
2185 2229 4.747108 CGCTAACTGCTGTTATATGCTCTT 59.253 41.667 15.51 0.00 37.92 2.85
2186 2230 5.332883 CGCTAACTGCTGTTATATGCTCTTG 60.333 44.000 15.51 3.60 37.92 3.02
2187 2231 4.889832 AACTGCTGTTATATGCTCTTGC 57.110 40.909 7.26 0.00 34.15 4.01
2188 2232 4.264253 AACTGCTGTTATATGCTCTTGCA 58.736 39.130 7.26 0.00 43.39 4.08
2197 2241 3.731716 TGCTCTTGCAGGTGACATT 57.268 47.368 1.62 0.00 45.31 2.71
2198 2242 1.985473 TGCTCTTGCAGGTGACATTT 58.015 45.000 1.62 0.00 45.31 2.32
2199 2243 1.610038 TGCTCTTGCAGGTGACATTTG 59.390 47.619 1.62 0.00 45.31 2.32
2200 2244 1.068055 GCTCTTGCAGGTGACATTTGG 60.068 52.381 1.62 0.00 39.41 3.28
2201 2245 2.233271 CTCTTGCAGGTGACATTTGGT 58.767 47.619 0.00 0.00 0.00 3.67
2202 2246 2.624838 CTCTTGCAGGTGACATTTGGTT 59.375 45.455 0.00 0.00 0.00 3.67
2203 2247 2.622942 TCTTGCAGGTGACATTTGGTTC 59.377 45.455 0.00 0.00 0.00 3.62
2204 2248 0.950836 TGCAGGTGACATTTGGTTCG 59.049 50.000 0.00 0.00 0.00 3.95
2205 2249 0.951558 GCAGGTGACATTTGGTTCGT 59.048 50.000 0.00 0.00 0.00 3.85
2206 2250 1.336755 GCAGGTGACATTTGGTTCGTT 59.663 47.619 0.00 0.00 0.00 3.85
2207 2251 2.858260 GCAGGTGACATTTGGTTCGTTG 60.858 50.000 0.00 0.00 0.00 4.10
2208 2252 1.336755 AGGTGACATTTGGTTCGTTGC 59.663 47.619 0.00 0.00 0.00 4.17
2209 2253 1.336755 GGTGACATTTGGTTCGTTGCT 59.663 47.619 0.00 0.00 0.00 3.91
2210 2254 2.223711 GGTGACATTTGGTTCGTTGCTT 60.224 45.455 0.00 0.00 0.00 3.91
2211 2255 2.788786 GTGACATTTGGTTCGTTGCTTG 59.211 45.455 0.00 0.00 0.00 4.01
2212 2256 2.425312 TGACATTTGGTTCGTTGCTTGT 59.575 40.909 0.00 0.00 0.00 3.16
2213 2257 3.119316 TGACATTTGGTTCGTTGCTTGTT 60.119 39.130 0.00 0.00 0.00 2.83
2214 2258 3.443976 ACATTTGGTTCGTTGCTTGTTC 58.556 40.909 0.00 0.00 0.00 3.18
2215 2259 3.130340 ACATTTGGTTCGTTGCTTGTTCT 59.870 39.130 0.00 0.00 0.00 3.01
2216 2260 2.842208 TTGGTTCGTTGCTTGTTCTG 57.158 45.000 0.00 0.00 0.00 3.02
2217 2261 1.745232 TGGTTCGTTGCTTGTTCTGT 58.255 45.000 0.00 0.00 0.00 3.41
2218 2262 2.088423 TGGTTCGTTGCTTGTTCTGTT 58.912 42.857 0.00 0.00 0.00 3.16
2219 2263 2.490115 TGGTTCGTTGCTTGTTCTGTTT 59.510 40.909 0.00 0.00 0.00 2.83
2220 2264 3.057174 TGGTTCGTTGCTTGTTCTGTTTT 60.057 39.130 0.00 0.00 0.00 2.43
2221 2265 3.924073 GGTTCGTTGCTTGTTCTGTTTTT 59.076 39.130 0.00 0.00 0.00 1.94
2222 2266 4.031314 GGTTCGTTGCTTGTTCTGTTTTTC 59.969 41.667 0.00 0.00 0.00 2.29
2223 2267 4.427096 TCGTTGCTTGTTCTGTTTTTCA 57.573 36.364 0.00 0.00 0.00 2.69
2224 2268 4.799678 TCGTTGCTTGTTCTGTTTTTCAA 58.200 34.783 0.00 0.00 0.00 2.69
2225 2269 5.223382 TCGTTGCTTGTTCTGTTTTTCAAA 58.777 33.333 0.00 0.00 0.00 2.69
2226 2270 5.866633 TCGTTGCTTGTTCTGTTTTTCAAAT 59.133 32.000 0.00 0.00 0.00 2.32
2227 2271 5.953205 CGTTGCTTGTTCTGTTTTTCAAATG 59.047 36.000 0.00 0.00 0.00 2.32
2228 2272 6.250089 GTTGCTTGTTCTGTTTTTCAAATGG 58.750 36.000 0.00 0.00 0.00 3.16
2229 2273 5.486526 TGCTTGTTCTGTTTTTCAAATGGT 58.513 33.333 0.00 0.00 0.00 3.55
2230 2274 5.350914 TGCTTGTTCTGTTTTTCAAATGGTG 59.649 36.000 0.00 0.00 0.00 4.17
2231 2275 5.351189 GCTTGTTCTGTTTTTCAAATGGTGT 59.649 36.000 0.00 0.00 0.00 4.16
2232 2276 6.533367 GCTTGTTCTGTTTTTCAAATGGTGTA 59.467 34.615 0.00 0.00 0.00 2.90
2233 2277 7.464045 GCTTGTTCTGTTTTTCAAATGGTGTAC 60.464 37.037 0.00 0.00 0.00 2.90
2234 2278 6.334202 TGTTCTGTTTTTCAAATGGTGTACC 58.666 36.000 0.00 0.00 0.00 3.34
2235 2279 5.523438 TCTGTTTTTCAAATGGTGTACCC 57.477 39.130 0.00 0.00 34.29 3.69
2236 2280 5.205056 TCTGTTTTTCAAATGGTGTACCCT 58.795 37.500 0.00 0.00 34.29 4.34
2237 2281 5.659079 TCTGTTTTTCAAATGGTGTACCCTT 59.341 36.000 0.00 0.00 34.29 3.95
2238 2282 6.155393 TCTGTTTTTCAAATGGTGTACCCTTT 59.845 34.615 0.00 0.00 34.78 3.11
2239 2283 6.109359 TGTTTTTCAAATGGTGTACCCTTTG 58.891 36.000 19.51 19.51 46.38 2.77
2240 2284 5.941555 TTTTCAAATGGTGTACCCTTTGT 57.058 34.783 22.56 0.00 45.68 2.83
2241 2285 7.093465 TGTTTTTCAAATGGTGTACCCTTTGTA 60.093 33.333 22.56 15.18 45.68 2.41
2242 2286 6.642707 TTTCAAATGGTGTACCCTTTGTAG 57.357 37.500 22.56 6.53 45.68 2.74
2243 2287 5.313280 TCAAATGGTGTACCCTTTGTAGT 57.687 39.130 22.56 0.00 45.68 2.73
2244 2288 5.697067 TCAAATGGTGTACCCTTTGTAGTT 58.303 37.500 22.56 0.00 45.68 2.24
2245 2289 6.839454 TCAAATGGTGTACCCTTTGTAGTTA 58.161 36.000 22.56 8.16 45.68 2.24
2246 2290 6.711645 TCAAATGGTGTACCCTTTGTAGTTAC 59.288 38.462 22.56 0.00 45.68 2.50
2247 2291 6.443995 AATGGTGTACCCTTTGTAGTTACT 57.556 37.500 0.00 0.00 34.29 2.24
2248 2292 5.473066 TGGTGTACCCTTTGTAGTTACTC 57.527 43.478 0.00 0.00 34.29 2.59
2254 2298 4.814147 ACCCTTTGTAGTTACTCGCTAAC 58.186 43.478 0.00 0.00 35.77 2.34
2304 2348 2.232941 GGACAGGTTCACTTCGTATGGA 59.767 50.000 0.00 0.00 0.00 3.41
2331 2375 5.034852 TGGGATATGTTCACATTGACGAT 57.965 39.130 0.00 0.00 37.76 3.73
2512 2556 2.560542 ACTCATTCTCACGAGCAGTCTT 59.439 45.455 0.00 0.00 32.21 3.01
2513 2557 3.759086 ACTCATTCTCACGAGCAGTCTTA 59.241 43.478 0.00 0.00 32.21 2.10
2514 2558 4.142491 ACTCATTCTCACGAGCAGTCTTAG 60.142 45.833 0.00 0.00 32.21 2.18
2515 2559 4.010349 TCATTCTCACGAGCAGTCTTAGA 58.990 43.478 0.00 0.00 0.00 2.10
2516 2560 4.095632 TCATTCTCACGAGCAGTCTTAGAG 59.904 45.833 0.00 0.00 0.00 2.43
2517 2561 1.740585 TCTCACGAGCAGTCTTAGAGC 59.259 52.381 0.00 0.00 0.00 4.09
2518 2562 0.811915 TCACGAGCAGTCTTAGAGCC 59.188 55.000 0.00 0.00 0.00 4.70
2519 2563 0.814457 CACGAGCAGTCTTAGAGCCT 59.186 55.000 0.00 0.00 0.00 4.58
2520 2564 0.814457 ACGAGCAGTCTTAGAGCCTG 59.186 55.000 0.00 0.00 0.00 4.85
2521 2565 0.814457 CGAGCAGTCTTAGAGCCTGT 59.186 55.000 2.56 0.00 0.00 4.00
2522 2566 1.203523 CGAGCAGTCTTAGAGCCTGTT 59.796 52.381 2.56 0.00 0.00 3.16
2523 2567 2.733858 CGAGCAGTCTTAGAGCCTGTTC 60.734 54.545 6.62 6.62 34.35 3.18
2524 2568 1.203523 AGCAGTCTTAGAGCCTGTTCG 59.796 52.381 2.56 0.00 0.00 3.95
2525 2569 1.737363 GCAGTCTTAGAGCCTGTTCGG 60.737 57.143 2.56 0.00 0.00 4.30
2526 2570 1.819288 CAGTCTTAGAGCCTGTTCGGA 59.181 52.381 0.00 0.00 33.16 4.55
2527 2571 2.231478 CAGTCTTAGAGCCTGTTCGGAA 59.769 50.000 0.00 0.00 33.16 4.30
2528 2572 3.100671 AGTCTTAGAGCCTGTTCGGAAT 58.899 45.455 0.00 0.00 33.16 3.01
2529 2573 3.515901 AGTCTTAGAGCCTGTTCGGAATT 59.484 43.478 0.00 0.00 33.16 2.17
2530 2574 3.866327 GTCTTAGAGCCTGTTCGGAATTC 59.134 47.826 0.00 0.00 33.16 2.17
2531 2575 2.981859 TAGAGCCTGTTCGGAATTCC 57.018 50.000 15.01 15.01 33.16 3.01
2541 2585 4.345337 GGAATTCCGCTAGCTCCG 57.655 61.111 13.93 0.00 0.00 4.63
2542 2586 1.956678 GGAATTCCGCTAGCTCCGC 60.957 63.158 13.93 0.00 0.00 5.54
2543 2587 1.227263 GAATTCCGCTAGCTCCGCA 60.227 57.895 13.93 0.00 0.00 5.69
2544 2588 0.810031 GAATTCCGCTAGCTCCGCAA 60.810 55.000 13.93 0.00 0.00 4.85
2545 2589 0.392461 AATTCCGCTAGCTCCGCAAA 60.392 50.000 13.93 0.00 0.00 3.68
2546 2590 0.392461 ATTCCGCTAGCTCCGCAAAA 60.392 50.000 13.93 2.59 0.00 2.44
2547 2591 0.392461 TTCCGCTAGCTCCGCAAAAT 60.392 50.000 13.93 0.00 0.00 1.82
2548 2592 0.810031 TCCGCTAGCTCCGCAAAATC 60.810 55.000 13.93 0.00 0.00 2.17
2549 2593 0.811616 CCGCTAGCTCCGCAAAATCT 60.812 55.000 13.93 0.00 0.00 2.40
2550 2594 0.579156 CGCTAGCTCCGCAAAATCTC 59.421 55.000 13.93 0.00 0.00 2.75
2551 2595 0.940833 GCTAGCTCCGCAAAATCTCC 59.059 55.000 7.70 0.00 0.00 3.71
2552 2596 1.212616 CTAGCTCCGCAAAATCTCCG 58.787 55.000 0.00 0.00 0.00 4.63
2553 2597 0.179084 TAGCTCCGCAAAATCTCCGG 60.179 55.000 0.00 0.00 43.21 5.14
2555 2599 4.932789 TCCGCAAAATCTCCGGAG 57.067 55.556 26.32 26.32 45.30 4.63
2556 2600 1.980052 TCCGCAAAATCTCCGGAGT 59.020 52.632 30.17 15.41 45.30 3.85
2557 2601 0.323629 TCCGCAAAATCTCCGGAGTT 59.676 50.000 30.17 20.24 45.30 3.01
2558 2602 0.447801 CCGCAAAATCTCCGGAGTTG 59.552 55.000 30.17 25.90 44.55 3.16
2559 2603 0.179189 CGCAAAATCTCCGGAGTTGC 60.179 55.000 32.87 32.87 40.26 4.17
2560 2604 0.881118 GCAAAATCTCCGGAGTTGCA 59.119 50.000 35.44 19.85 41.80 4.08
2561 2605 1.135575 GCAAAATCTCCGGAGTTGCAG 60.136 52.381 35.44 23.89 41.80 4.41
2562 2606 2.426522 CAAAATCTCCGGAGTTGCAGA 58.573 47.619 30.17 11.43 29.82 4.26
2563 2607 2.393271 AAATCTCCGGAGTTGCAGAG 57.607 50.000 30.17 3.85 0.00 3.35
2564 2608 0.107945 AATCTCCGGAGTTGCAGAGC 60.108 55.000 30.17 0.00 0.00 4.09
2565 2609 1.965754 ATCTCCGGAGTTGCAGAGCC 61.966 60.000 30.17 0.00 0.00 4.70
2566 2610 2.922503 TCCGGAGTTGCAGAGCCA 60.923 61.111 0.00 0.00 0.00 4.75
2567 2611 2.435586 CCGGAGTTGCAGAGCCAG 60.436 66.667 0.00 0.00 0.00 4.85
2568 2612 2.435586 CGGAGTTGCAGAGCCAGG 60.436 66.667 0.00 0.00 0.00 4.45
2569 2613 2.947532 CGGAGTTGCAGAGCCAGGA 61.948 63.158 0.00 0.00 0.00 3.86
2570 2614 1.376466 GGAGTTGCAGAGCCAGGAA 59.624 57.895 0.00 0.00 0.00 3.36
2571 2615 0.250901 GGAGTTGCAGAGCCAGGAAA 60.251 55.000 0.00 0.00 0.00 3.13
2572 2616 0.877743 GAGTTGCAGAGCCAGGAAAC 59.122 55.000 0.00 0.00 0.00 2.78
2573 2617 0.538287 AGTTGCAGAGCCAGGAAACC 60.538 55.000 0.00 0.00 0.00 3.27
2574 2618 1.600636 TTGCAGAGCCAGGAAACCG 60.601 57.895 0.00 0.00 0.00 4.44
2575 2619 3.435186 GCAGAGCCAGGAAACCGC 61.435 66.667 0.00 0.00 0.00 5.68
2576 2620 2.032528 CAGAGCCAGGAAACCGCA 59.967 61.111 0.00 0.00 0.00 5.69
2577 2621 2.037136 CAGAGCCAGGAAACCGCAG 61.037 63.158 0.00 0.00 0.00 5.18
2578 2622 3.435186 GAGCCAGGAAACCGCAGC 61.435 66.667 0.00 0.00 0.00 5.25
2579 2623 3.909086 GAGCCAGGAAACCGCAGCT 62.909 63.158 0.00 0.00 32.46 4.24
2580 2624 3.435186 GCCAGGAAACCGCAGCTC 61.435 66.667 0.00 0.00 0.00 4.09
2581 2625 2.747855 CCAGGAAACCGCAGCTCC 60.748 66.667 0.00 0.00 0.00 4.70
2582 2626 2.032528 CAGGAAACCGCAGCTCCA 59.967 61.111 1.47 0.00 0.00 3.86
2583 2627 1.377725 CAGGAAACCGCAGCTCCAT 60.378 57.895 1.47 0.00 0.00 3.41
2584 2628 1.377725 AGGAAACCGCAGCTCCATG 60.378 57.895 1.47 0.00 0.00 3.66
2585 2629 1.377202 GGAAACCGCAGCTCCATGA 60.377 57.895 0.00 0.00 0.00 3.07
2586 2630 0.749454 GGAAACCGCAGCTCCATGAT 60.749 55.000 0.00 0.00 0.00 2.45
2587 2631 1.098050 GAAACCGCAGCTCCATGATT 58.902 50.000 0.00 0.00 0.00 2.57
2588 2632 1.474077 GAAACCGCAGCTCCATGATTT 59.526 47.619 0.00 0.00 0.00 2.17
2589 2633 1.549203 AACCGCAGCTCCATGATTTT 58.451 45.000 0.00 0.00 0.00 1.82
2590 2634 1.098050 ACCGCAGCTCCATGATTTTC 58.902 50.000 0.00 0.00 0.00 2.29
2591 2635 1.097232 CCGCAGCTCCATGATTTTCA 58.903 50.000 0.00 0.00 0.00 2.69
2592 2636 1.473677 CCGCAGCTCCATGATTTTCAA 59.526 47.619 0.00 0.00 0.00 2.69
2593 2637 2.523015 CGCAGCTCCATGATTTTCAAC 58.477 47.619 0.00 0.00 0.00 3.18
2594 2638 2.095110 CGCAGCTCCATGATTTTCAACA 60.095 45.455 0.00 0.00 0.00 3.33
2595 2639 3.508762 GCAGCTCCATGATTTTCAACAG 58.491 45.455 0.00 0.00 0.00 3.16
2596 2640 3.057033 GCAGCTCCATGATTTTCAACAGT 60.057 43.478 0.00 0.00 0.00 3.55
2597 2641 4.156556 GCAGCTCCATGATTTTCAACAGTA 59.843 41.667 0.00 0.00 0.00 2.74
2598 2642 5.335897 GCAGCTCCATGATTTTCAACAGTAA 60.336 40.000 0.00 0.00 0.00 2.24
2599 2643 6.088824 CAGCTCCATGATTTTCAACAGTAAC 58.911 40.000 0.00 0.00 0.00 2.50
2600 2644 6.006449 AGCTCCATGATTTTCAACAGTAACT 58.994 36.000 0.00 0.00 0.00 2.24
2601 2645 6.150140 AGCTCCATGATTTTCAACAGTAACTC 59.850 38.462 0.00 0.00 0.00 3.01
2602 2646 6.623767 GCTCCATGATTTTCAACAGTAACTCC 60.624 42.308 0.00 0.00 0.00 3.85
2603 2647 5.710099 TCCATGATTTTCAACAGTAACTCCC 59.290 40.000 0.00 0.00 0.00 4.30
2604 2648 5.105756 CCATGATTTTCAACAGTAACTCCCC 60.106 44.000 0.00 0.00 0.00 4.81
2605 2649 4.403734 TGATTTTCAACAGTAACTCCCCC 58.596 43.478 0.00 0.00 0.00 5.40
2626 2670 4.753662 TCCGGGAGTGGAGTCGGG 62.754 72.222 0.00 0.00 42.44 5.14
2628 2672 4.753662 CGGGAGTGGAGTCGGGGA 62.754 72.222 0.00 0.00 0.00 4.81
2629 2673 2.760385 GGGAGTGGAGTCGGGGAG 60.760 72.222 0.00 0.00 0.00 4.30
2630 2674 3.462678 GGAGTGGAGTCGGGGAGC 61.463 72.222 0.00 0.00 0.00 4.70
2631 2675 3.827898 GAGTGGAGTCGGGGAGCG 61.828 72.222 0.00 0.00 0.00 5.03
2648 2692 3.300013 GGAGGTCCTCCGAACAGG 58.700 66.667 22.53 0.00 41.08 4.00
2649 2693 2.359967 GGAGGTCCTCCGAACAGGG 61.360 68.421 22.53 0.00 41.08 4.45
2650 2694 3.003763 AGGTCCTCCGAACAGGGC 61.004 66.667 0.00 0.00 41.52 5.19
2652 2696 3.003763 GTCCTCCGAACAGGGCCT 61.004 66.667 0.00 0.00 41.52 5.19
2694 2738 8.894409 TGCAAACATACATATTTTTCTTCGAG 57.106 30.769 0.00 0.00 0.00 4.04
2697 2741 9.199184 CAAACATACATATTTTTCTTCGAGTCG 57.801 33.333 6.09 6.09 0.00 4.18
2705 2749 5.885020 TTTTTCTTCGAGTCGTCTCTTTC 57.115 39.130 13.12 0.00 38.45 2.62
2710 2754 0.097325 CGAGTCGTCTCTTTCCCGAG 59.903 60.000 3.82 0.00 38.45 4.63
2739 2786 5.003804 ACTGAAATGCGTACCTTGAAATCT 58.996 37.500 0.00 0.00 0.00 2.40
2784 2831 0.654683 GAAAGCAGGCGTATCAGCTG 59.345 55.000 7.63 7.63 37.41 4.24
3108 3159 8.610248 ATTCAATCAGCAATGAAACATTTGAA 57.390 26.923 0.00 0.00 38.88 2.69
3111 3162 5.886715 TCAGCAATGAAACATTTGAAACG 57.113 34.783 0.00 0.00 0.00 3.60
3122 3173 7.378461 TGAAACATTTGAAACGTTGAATAGAGC 59.622 33.333 0.00 0.00 0.00 4.09
3399 3481 4.558226 ATTCTGGATGCACAGTTGACTA 57.442 40.909 4.42 0.00 39.48 2.59
3419 3503 2.700722 TTGAGCAGTACACACCACAA 57.299 45.000 0.00 0.00 0.00 3.33
3437 3521 4.240096 CACAATGGCAAAATGAGAAGGTC 58.760 43.478 0.00 0.00 0.00 3.85
3584 3668 7.994334 ACTACTTACACCATAAGAACAAAACCA 59.006 33.333 0.81 0.00 0.00 3.67
3666 3757 5.710984 ACGTATCTGAAGTTGGACTTGTAG 58.289 41.667 0.00 0.00 38.80 2.74
3694 3785 1.964223 ACTCCACACACTTGTCGATCT 59.036 47.619 0.00 0.00 31.66 2.75
3695 3786 2.365617 ACTCCACACACTTGTCGATCTT 59.634 45.455 0.00 0.00 31.66 2.40
3705 3796 2.949451 TGTCGATCTTTCTCCTGAGC 57.051 50.000 0.00 0.00 0.00 4.26
3855 3946 1.664649 CTGCTTCTTCACCGCGACA 60.665 57.895 8.23 0.00 0.00 4.35
3879 3970 1.605058 CCTGGATGAACTCGGTCCGT 61.605 60.000 11.88 0.00 34.72 4.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
692 696 4.114794 GTTGAGAACAAAATGTTGCAGCT 58.885 39.130 1.17 0.00 41.28 4.24
838 855 2.041620 ACAGGTTGGTGTGGAATAGCAT 59.958 45.455 0.00 0.00 34.77 3.79
1178 1195 5.819991 TCAAGAGGAATGCTACAAAGGATT 58.180 37.500 0.00 0.00 45.47 3.01
1472 1490 9.102757 GTACATGGCATGGTAATGATAATAGAG 57.897 37.037 29.49 0.33 35.67 2.43
1508 1527 4.398988 TGTTGCTTCCTGCGAAATGAATAT 59.601 37.500 0.00 0.00 46.63 1.28
1516 1535 0.662619 CAAGTGTTGCTTCCTGCGAA 59.337 50.000 0.00 0.00 46.63 4.70
1518 1537 1.283793 CCAAGTGTTGCTTCCTGCG 59.716 57.895 0.00 0.00 46.63 5.18
1552 1571 2.344025 GACCTTAGCACGTTTAGGGTG 58.656 52.381 13.44 0.00 38.42 4.61
1624 1643 0.824109 CGTCCCTAATCCTCACTGCA 59.176 55.000 0.00 0.00 0.00 4.41
1627 1646 2.500504 GGTTTCGTCCCTAATCCTCACT 59.499 50.000 0.00 0.00 0.00 3.41
1741 1772 8.353423 AGTTTTATGCAGAAATGTAATCTGGT 57.647 30.769 7.43 0.00 43.60 4.00
1885 1916 4.455533 CCAATCACGAATGAAGGAAGAACA 59.544 41.667 0.00 0.00 38.69 3.18
1894 1925 0.038890 TGGGCCCAATCACGAATGAA 59.961 50.000 26.33 0.00 38.69 2.57
1986 2017 4.346418 AGCACCCTACTGGAGATAAATGAG 59.654 45.833 0.00 0.00 38.00 2.90
2000 2031 5.178809 CACACAGTAAGTTTTAGCACCCTAC 59.821 44.000 0.00 0.00 0.00 3.18
2016 2047 7.534723 ACTAAATTACTGAGGTCACACAGTA 57.465 36.000 9.18 9.18 44.94 2.74
2018 2049 6.929049 TGAACTAAATTACTGAGGTCACACAG 59.071 38.462 0.00 0.00 40.58 3.66
2020 2051 7.307811 GGTTGAACTAAATTACTGAGGTCACAC 60.308 40.741 0.00 0.00 36.66 3.82
2022 2053 6.935208 AGGTTGAACTAAATTACTGAGGTCAC 59.065 38.462 0.00 0.00 36.66 3.67
2023 2054 7.074653 AGGTTGAACTAAATTACTGAGGTCA 57.925 36.000 0.00 0.00 35.13 4.02
2024 2055 7.981102 AAGGTTGAACTAAATTACTGAGGTC 57.019 36.000 0.00 0.00 0.00 3.85
2025 2056 8.762481 AAAAGGTTGAACTAAATTACTGAGGT 57.238 30.769 0.00 0.00 0.00 3.85
2026 2057 8.297426 GGAAAAGGTTGAACTAAATTACTGAGG 58.703 37.037 0.00 0.00 0.00 3.86
2027 2058 8.846211 TGGAAAAGGTTGAACTAAATTACTGAG 58.154 33.333 0.00 0.00 0.00 3.35
2039 2083 5.810587 GGAGAAAACTTGGAAAAGGTTGAAC 59.189 40.000 0.00 0.00 28.63 3.18
2040 2084 5.719563 AGGAGAAAACTTGGAAAAGGTTGAA 59.280 36.000 0.00 0.00 28.63 2.69
2107 2151 3.380004 AGAACAAGCAACGAACCAAATGA 59.620 39.130 0.00 0.00 0.00 2.57
2115 2159 4.799678 TGAAAAACAGAACAAGCAACGAA 58.200 34.783 0.00 0.00 0.00 3.85
2142 2186 3.922850 GCGAGTAACTACAAAGGGTACAC 59.077 47.826 0.00 0.00 0.00 2.90
2180 2224 1.068055 CCAAATGTCACCTGCAAGAGC 60.068 52.381 0.00 0.00 42.57 4.09
2181 2225 2.233271 ACCAAATGTCACCTGCAAGAG 58.767 47.619 0.00 0.00 34.07 2.85
2182 2226 2.363306 ACCAAATGTCACCTGCAAGA 57.637 45.000 0.00 0.00 34.07 3.02
2183 2227 2.605338 CGAACCAAATGTCACCTGCAAG 60.605 50.000 0.00 0.00 0.00 4.01
2184 2228 1.336440 CGAACCAAATGTCACCTGCAA 59.664 47.619 0.00 0.00 0.00 4.08
2185 2229 0.950836 CGAACCAAATGTCACCTGCA 59.049 50.000 0.00 0.00 0.00 4.41
2186 2230 0.951558 ACGAACCAAATGTCACCTGC 59.048 50.000 0.00 0.00 0.00 4.85
2187 2231 2.858260 GCAACGAACCAAATGTCACCTG 60.858 50.000 0.00 0.00 0.00 4.00
2188 2232 1.336755 GCAACGAACCAAATGTCACCT 59.663 47.619 0.00 0.00 0.00 4.00
2189 2233 1.336755 AGCAACGAACCAAATGTCACC 59.663 47.619 0.00 0.00 0.00 4.02
2190 2234 2.774439 AGCAACGAACCAAATGTCAC 57.226 45.000 0.00 0.00 0.00 3.67
2191 2235 2.425312 ACAAGCAACGAACCAAATGTCA 59.575 40.909 0.00 0.00 0.00 3.58
2192 2236 3.078594 ACAAGCAACGAACCAAATGTC 57.921 42.857 0.00 0.00 0.00 3.06
2193 2237 3.130340 AGAACAAGCAACGAACCAAATGT 59.870 39.130 0.00 0.00 0.00 2.71
2194 2238 3.486841 CAGAACAAGCAACGAACCAAATG 59.513 43.478 0.00 0.00 0.00 2.32
2195 2239 3.130340 ACAGAACAAGCAACGAACCAAAT 59.870 39.130 0.00 0.00 0.00 2.32
2196 2240 2.490115 ACAGAACAAGCAACGAACCAAA 59.510 40.909 0.00 0.00 0.00 3.28
2197 2241 2.088423 ACAGAACAAGCAACGAACCAA 58.912 42.857 0.00 0.00 0.00 3.67
2198 2242 1.745232 ACAGAACAAGCAACGAACCA 58.255 45.000 0.00 0.00 0.00 3.67
2199 2243 2.844122 AACAGAACAAGCAACGAACC 57.156 45.000 0.00 0.00 0.00 3.62
2200 2244 4.619336 TGAAAAACAGAACAAGCAACGAAC 59.381 37.500 0.00 0.00 0.00 3.95
2201 2245 4.799678 TGAAAAACAGAACAAGCAACGAA 58.200 34.783 0.00 0.00 0.00 3.85
2202 2246 4.427096 TGAAAAACAGAACAAGCAACGA 57.573 36.364 0.00 0.00 0.00 3.85
2203 2247 5.508124 TTTGAAAAACAGAACAAGCAACG 57.492 34.783 0.00 0.00 0.00 4.10
2204 2248 6.128309 ACCATTTGAAAAACAGAACAAGCAAC 60.128 34.615 0.00 0.00 0.00 4.17
2205 2249 5.936956 ACCATTTGAAAAACAGAACAAGCAA 59.063 32.000 0.00 0.00 0.00 3.91
2206 2250 5.350914 CACCATTTGAAAAACAGAACAAGCA 59.649 36.000 0.00 0.00 0.00 3.91
2207 2251 5.351189 ACACCATTTGAAAAACAGAACAAGC 59.649 36.000 0.00 0.00 0.00 4.01
2208 2252 6.966435 ACACCATTTGAAAAACAGAACAAG 57.034 33.333 0.00 0.00 0.00 3.16
2209 2253 6.814146 GGTACACCATTTGAAAAACAGAACAA 59.186 34.615 0.00 0.00 35.64 2.83
2210 2254 6.334202 GGTACACCATTTGAAAAACAGAACA 58.666 36.000 0.00 0.00 35.64 3.18
2211 2255 5.751509 GGGTACACCATTTGAAAAACAGAAC 59.248 40.000 0.00 0.00 39.85 3.01
2212 2256 5.659079 AGGGTACACCATTTGAAAAACAGAA 59.341 36.000 0.00 0.00 43.89 3.02
2213 2257 5.205056 AGGGTACACCATTTGAAAAACAGA 58.795 37.500 0.00 0.00 43.89 3.41
2214 2258 5.529581 AGGGTACACCATTTGAAAAACAG 57.470 39.130 0.00 0.00 43.89 3.16
2215 2259 5.941555 AAGGGTACACCATTTGAAAAACA 57.058 34.783 0.00 0.00 43.89 2.83
2224 2268 6.443995 AGTAACTACAAAGGGTACACCATT 57.556 37.500 0.00 0.00 42.51 3.16
2225 2269 5.337009 CGAGTAACTACAAAGGGTACACCAT 60.337 44.000 0.00 0.00 43.89 3.55
2226 2270 4.022068 CGAGTAACTACAAAGGGTACACCA 60.022 45.833 0.00 0.00 43.89 4.17
2227 2271 4.488879 CGAGTAACTACAAAGGGTACACC 58.511 47.826 0.00 0.00 40.67 4.16
2228 2272 3.922850 GCGAGTAACTACAAAGGGTACAC 59.077 47.826 0.00 0.00 0.00 2.90
2229 2273 3.828451 AGCGAGTAACTACAAAGGGTACA 59.172 43.478 0.00 0.00 0.00 2.90
2230 2274 4.446994 AGCGAGTAACTACAAAGGGTAC 57.553 45.455 0.00 0.00 0.00 3.34
2231 2275 5.954335 GTTAGCGAGTAACTACAAAGGGTA 58.046 41.667 0.00 0.00 38.44 3.69
2232 2276 4.814147 GTTAGCGAGTAACTACAAAGGGT 58.186 43.478 0.00 0.00 38.44 4.34
2248 2292 8.667295 GCAAGAGCATATAACAGCAGTTAGCG 62.667 46.154 7.79 0.33 44.81 4.26
2304 2348 5.829924 GTCAATGTGAACATATCCCATCCTT 59.170 40.000 0.00 0.00 35.10 3.36
2325 2369 2.027073 GCTCCGTGCAACATCGTCA 61.027 57.895 0.00 0.00 42.31 4.35
2512 2556 2.981859 GGAATTCCGAACAGGCTCTA 57.018 50.000 9.17 0.00 40.77 2.43
2513 2557 3.863407 GGAATTCCGAACAGGCTCT 57.137 52.632 9.17 0.00 40.77 4.09
2524 2568 4.345337 CGGAGCTAGCGGAATTCC 57.655 61.111 15.01 15.01 0.00 3.01
2540 2584 0.179189 GCAACTCCGGAGATTTTGCG 60.179 55.000 37.69 14.65 40.71 4.85
2541 2585 0.881118 TGCAACTCCGGAGATTTTGC 59.119 50.000 34.56 34.56 39.61 3.68
2542 2586 2.417933 CTCTGCAACTCCGGAGATTTTG 59.582 50.000 37.69 29.05 40.00 2.44
2543 2587 2.704572 CTCTGCAACTCCGGAGATTTT 58.295 47.619 37.69 18.98 40.00 1.82
2544 2588 1.677217 GCTCTGCAACTCCGGAGATTT 60.677 52.381 37.69 19.76 40.00 2.17
2545 2589 0.107945 GCTCTGCAACTCCGGAGATT 60.108 55.000 37.69 23.36 40.00 2.40
2546 2590 1.519719 GCTCTGCAACTCCGGAGAT 59.480 57.895 37.69 24.44 40.00 2.75
2547 2591 2.650116 GGCTCTGCAACTCCGGAGA 61.650 63.158 37.69 14.61 40.00 3.71
2548 2592 2.125350 GGCTCTGCAACTCCGGAG 60.125 66.667 30.11 30.11 40.45 4.63
2549 2593 2.922503 TGGCTCTGCAACTCCGGA 60.923 61.111 2.93 2.93 0.00 5.14
2550 2594 2.435586 CTGGCTCTGCAACTCCGG 60.436 66.667 0.00 0.00 0.00 5.14
2551 2595 2.435586 CCTGGCTCTGCAACTCCG 60.436 66.667 0.00 0.00 0.00 4.63
2552 2596 0.250901 TTTCCTGGCTCTGCAACTCC 60.251 55.000 0.00 0.00 0.00 3.85
2553 2597 0.877743 GTTTCCTGGCTCTGCAACTC 59.122 55.000 0.00 0.00 0.00 3.01
2554 2598 0.538287 GGTTTCCTGGCTCTGCAACT 60.538 55.000 0.00 0.00 0.00 3.16
2555 2599 1.856265 CGGTTTCCTGGCTCTGCAAC 61.856 60.000 0.00 0.00 0.00 4.17
2556 2600 1.600636 CGGTTTCCTGGCTCTGCAA 60.601 57.895 0.00 0.00 0.00 4.08
2557 2601 2.032528 CGGTTTCCTGGCTCTGCA 59.967 61.111 0.00 0.00 0.00 4.41
2558 2602 3.435186 GCGGTTTCCTGGCTCTGC 61.435 66.667 0.00 0.00 0.00 4.26
2559 2603 2.032528 TGCGGTTTCCTGGCTCTG 59.967 61.111 0.00 0.00 0.00 3.35
2560 2604 2.348998 CTGCGGTTTCCTGGCTCT 59.651 61.111 0.00 0.00 0.00 4.09
2561 2605 3.435186 GCTGCGGTTTCCTGGCTC 61.435 66.667 0.00 0.00 0.00 4.70
2562 2606 3.909086 GAGCTGCGGTTTCCTGGCT 62.909 63.158 0.00 0.00 0.00 4.75
2563 2607 3.435186 GAGCTGCGGTTTCCTGGC 61.435 66.667 0.00 0.00 0.00 4.85
2564 2608 2.747855 GGAGCTGCGGTTTCCTGG 60.748 66.667 10.06 0.00 0.00 4.45
2565 2609 1.377725 ATGGAGCTGCGGTTTCCTG 60.378 57.895 16.16 0.00 32.12 3.86
2566 2610 1.377725 CATGGAGCTGCGGTTTCCT 60.378 57.895 16.16 0.00 32.12 3.36
2567 2611 0.749454 ATCATGGAGCTGCGGTTTCC 60.749 55.000 0.00 10.33 0.00 3.13
2568 2612 1.098050 AATCATGGAGCTGCGGTTTC 58.902 50.000 0.00 0.00 0.00 2.78
2569 2613 1.549203 AAATCATGGAGCTGCGGTTT 58.451 45.000 0.00 0.00 0.00 3.27
2570 2614 1.474077 GAAAATCATGGAGCTGCGGTT 59.526 47.619 0.00 0.00 0.00 4.44
2571 2615 1.098050 GAAAATCATGGAGCTGCGGT 58.902 50.000 0.00 0.00 0.00 5.68
2572 2616 1.097232 TGAAAATCATGGAGCTGCGG 58.903 50.000 0.00 0.00 0.00 5.69
2573 2617 2.095110 TGTTGAAAATCATGGAGCTGCG 60.095 45.455 0.00 0.00 0.00 5.18
2574 2618 3.057033 ACTGTTGAAAATCATGGAGCTGC 60.057 43.478 0.00 0.00 0.00 5.25
2575 2619 4.778534 ACTGTTGAAAATCATGGAGCTG 57.221 40.909 0.00 0.00 0.00 4.24
2576 2620 6.006449 AGTTACTGTTGAAAATCATGGAGCT 58.994 36.000 0.00 0.00 0.00 4.09
2577 2621 6.259550 AGTTACTGTTGAAAATCATGGAGC 57.740 37.500 0.00 0.00 0.00 4.70
2578 2622 6.127897 GGGAGTTACTGTTGAAAATCATGGAG 60.128 42.308 0.00 0.00 0.00 3.86
2579 2623 5.710099 GGGAGTTACTGTTGAAAATCATGGA 59.290 40.000 0.00 0.00 0.00 3.41
2580 2624 5.105756 GGGGAGTTACTGTTGAAAATCATGG 60.106 44.000 0.00 0.00 0.00 3.66
2581 2625 5.105756 GGGGGAGTTACTGTTGAAAATCATG 60.106 44.000 0.00 0.00 0.00 3.07
2582 2626 5.016831 GGGGGAGTTACTGTTGAAAATCAT 58.983 41.667 0.00 0.00 0.00 2.45
2583 2627 4.403734 GGGGGAGTTACTGTTGAAAATCA 58.596 43.478 0.00 0.00 0.00 2.57
2609 2653 4.753662 CCCGACTCCACTCCCGGA 62.754 72.222 0.73 0.00 44.29 5.14
2611 2655 4.753662 TCCCCGACTCCACTCCCG 62.754 72.222 0.00 0.00 0.00 5.14
2612 2656 2.760385 CTCCCCGACTCCACTCCC 60.760 72.222 0.00 0.00 0.00 4.30
2613 2657 3.462678 GCTCCCCGACTCCACTCC 61.463 72.222 0.00 0.00 0.00 3.85
2614 2658 3.827898 CGCTCCCCGACTCCACTC 61.828 72.222 0.00 0.00 40.02 3.51
2631 2675 2.359967 CCCTGTTCGGAGGACCTCC 61.360 68.421 28.50 28.50 46.44 4.30
2632 2676 3.020237 GCCCTGTTCGGAGGACCTC 62.020 68.421 13.60 13.60 34.69 3.85
2633 2677 3.003763 GCCCTGTTCGGAGGACCT 61.004 66.667 0.00 0.00 34.69 3.85
2634 2678 4.097361 GGCCCTGTTCGGAGGACC 62.097 72.222 0.00 0.00 34.69 4.46
2635 2679 1.262640 TAAGGCCCTGTTCGGAGGAC 61.263 60.000 0.00 0.00 34.69 3.85
2636 2680 0.545787 TTAAGGCCCTGTTCGGAGGA 60.546 55.000 0.00 0.00 34.69 3.71
2637 2681 0.546598 ATTAAGGCCCTGTTCGGAGG 59.453 55.000 0.00 0.00 33.16 4.30
2638 2682 3.325135 AGATATTAAGGCCCTGTTCGGAG 59.675 47.826 0.00 0.00 33.16 4.63
2639 2683 3.071023 CAGATATTAAGGCCCTGTTCGGA 59.929 47.826 0.00 0.00 33.16 4.55
2640 2684 3.403038 CAGATATTAAGGCCCTGTTCGG 58.597 50.000 0.00 0.00 0.00 4.30
2641 2685 2.808543 GCAGATATTAAGGCCCTGTTCG 59.191 50.000 0.00 0.00 0.00 3.95
2642 2686 4.068599 GAGCAGATATTAAGGCCCTGTTC 58.931 47.826 0.00 1.15 0.00 3.18
2643 2687 3.718956 AGAGCAGATATTAAGGCCCTGTT 59.281 43.478 0.00 0.00 0.00 3.16
2644 2688 3.321950 AGAGCAGATATTAAGGCCCTGT 58.678 45.455 0.00 0.00 0.00 4.00
2645 2689 4.070716 CAAGAGCAGATATTAAGGCCCTG 58.929 47.826 0.00 0.00 0.00 4.45
2646 2690 3.497584 GCAAGAGCAGATATTAAGGCCCT 60.498 47.826 0.00 0.00 41.58 5.19
2647 2691 2.816672 GCAAGAGCAGATATTAAGGCCC 59.183 50.000 0.00 0.00 41.58 5.80
2648 2692 3.501445 CAGCAAGAGCAGATATTAAGGCC 59.499 47.826 0.00 0.00 45.49 5.19
2649 2693 3.058363 GCAGCAAGAGCAGATATTAAGGC 60.058 47.826 0.00 0.00 45.49 4.35
2650 2694 4.132336 TGCAGCAAGAGCAGATATTAAGG 58.868 43.478 0.00 0.00 45.49 2.69
2651 2695 5.746307 TTGCAGCAAGAGCAGATATTAAG 57.254 39.130 2.83 0.00 43.75 1.85
2652 2696 5.415389 TGTTTGCAGCAAGAGCAGATATTAA 59.585 36.000 8.12 0.00 43.75 1.40
2694 2738 2.435533 AAACTCGGGAAAGAGACGAC 57.564 50.000 0.00 0.00 40.57 4.34
2697 2741 3.495001 CAGTCAAAACTCGGGAAAGAGAC 59.505 47.826 0.00 0.00 40.57 3.36
2705 2749 2.665519 CGCATTTCAGTCAAAACTCGGG 60.666 50.000 0.00 0.00 31.71 5.14
2710 2754 4.483476 AGGTACGCATTTCAGTCAAAAC 57.517 40.909 0.00 0.00 0.00 2.43
2739 2786 0.898320 GGTTACTGAGCCTGCAGAGA 59.102 55.000 17.39 0.00 39.20 3.10
2784 2831 1.457346 CCTGGAGCTTGGATGTGTTC 58.543 55.000 0.00 0.00 0.00 3.18
3108 3159 6.026947 AGTAACTGAGCTCTATTCAACGTT 57.973 37.500 16.19 0.00 0.00 3.99
3399 3481 2.928801 TGTGGTGTGTACTGCTCAAT 57.071 45.000 0.00 0.00 0.00 2.57
3437 3521 6.313905 GGTGTACTGGTGATCTAAATTGTGAG 59.686 42.308 0.00 0.00 0.00 3.51
3446 3530 2.108168 GCTGGGTGTACTGGTGATCTA 58.892 52.381 0.00 0.00 0.00 1.98
3666 3757 4.269523 TGTGTGGAGTGGCTGCCC 62.270 66.667 17.53 7.66 0.00 5.36
3694 3785 2.347490 GCACCGGCTCAGGAGAAA 59.653 61.111 0.00 0.00 36.96 2.52
3720 3811 2.203126 CAGCGGAAGGAGATGGCC 60.203 66.667 0.00 0.00 0.00 5.36
3855 3946 0.107017 CCGAGTTCATCCAGGCCAAT 60.107 55.000 5.01 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.