Multiple sequence alignment - TraesCS3A01G269600

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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 TraesCS3A01G269600 chr3A 100.000 2388 0 0 1 2388 496386020 496388407 0.000000e+00 4410
1 TraesCS3A01G269600 chr3A 97.122 278 8 0 2111 2388 73689878 73689601 9.990000e-129 470
2 TraesCS3A01G269600 chr3A 91.696 289 19 3 738 1025 603856526 603856242 1.720000e-106 396
3 TraesCS3A01G269600 chr5A 96.325 2095 72 5 1 2093 539825676 539823585 0.000000e+00 3437
4 TraesCS3A01G269600 chr5A 95.611 2096 86 6 1 2093 374024447 374022355 0.000000e+00 3356
5 TraesCS3A01G269600 chr5A 97.122 278 8 0 2111 2388 85846424 85846147 9.990000e-129 470
6 TraesCS3A01G269600 chr7A 96.134 2095 74 6 1 2093 25224713 25222624 0.000000e+00 3413
7 TraesCS3A01G269600 chr7A 92.929 2079 131 9 1 2068 116468467 116466394 0.000000e+00 3011
8 TraesCS3A01G269600 chr7A 97.122 278 8 0 2111 2388 505348618 505348895 9.990000e-129 470
9 TraesCS3A01G269600 chr7A 97.122 278 8 0 2111 2388 628746760 628746483 9.990000e-129 470
10 TraesCS3A01G269600 chr6A 95.134 2096 96 6 1 2093 471275619 471273527 0.000000e+00 3301
11 TraesCS3A01G269600 chr3D 93.481 2071 123 10 2 2068 578589352 578591414 0.000000e+00 3066
12 TraesCS3A01G269600 chr4D 92.482 2075 127 14 1 2068 168888698 168890750 0.000000e+00 2940
13 TraesCS3A01G269600 chr2D 95.743 1433 59 1 661 2093 92462904 92464334 0.000000e+00 2307
14 TraesCS3A01G269600 chr2D 92.982 171 12 0 62 232 92462666 92462836 1.420000e-62 250
15 TraesCS3A01G269600 chr2D 97.015 67 2 0 567 633 92462839 92462905 1.940000e-21 113
16 TraesCS3A01G269600 chr5B 95.876 970 39 1 1124 2093 617730963 617729995 0.000000e+00 1568
17 TraesCS3A01G269600 chr5D 92.211 398 30 1 1 397 61858922 61859319 1.600000e-156 562
18 TraesCS3A01G269600 chr1A 97.500 280 7 0 2109 2388 457703375 457703096 1.660000e-131 479
19 TraesCS3A01G269600 chr4A 97.482 278 7 0 2111 2388 514544625 514544902 2.150000e-130 475
20 TraesCS3A01G269600 chr4A 97.122 278 8 0 2111 2388 80888914 80889191 9.990000e-129 470
21 TraesCS3A01G269600 chrUn 98.162 272 2 2 1822 2093 1841802 1842070 2.780000e-129 472
22 TraesCS3A01G269600 chr2A 97.122 278 8 0 2111 2388 526470976 526471253 9.990000e-129 470
23 TraesCS3A01G269600 chr2A 97.122 278 8 0 2111 2388 678946192 678946469 9.990000e-129 470
24 TraesCS3A01G269600 chr4B 90.756 119 11 0 1 119 603004335 603004453 2.460000e-35 159
25 TraesCS3A01G269600 chr4B 92.391 92 7 0 350 441 642751929 642751838 5.360000e-27 132


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 TraesCS3A01G269600 chr3A 496386020 496388407 2387 False 4410 4410 100.000000 1 2388 1 chr3A.!!$F1 2387
1 TraesCS3A01G269600 chr5A 539823585 539825676 2091 True 3437 3437 96.325000 1 2093 1 chr5A.!!$R3 2092
2 TraesCS3A01G269600 chr5A 374022355 374024447 2092 True 3356 3356 95.611000 1 2093 1 chr5A.!!$R2 2092
3 TraesCS3A01G269600 chr7A 25222624 25224713 2089 True 3413 3413 96.134000 1 2093 1 chr7A.!!$R1 2092
4 TraesCS3A01G269600 chr7A 116466394 116468467 2073 True 3011 3011 92.929000 1 2068 1 chr7A.!!$R2 2067
5 TraesCS3A01G269600 chr6A 471273527 471275619 2092 True 3301 3301 95.134000 1 2093 1 chr6A.!!$R1 2092
6 TraesCS3A01G269600 chr3D 578589352 578591414 2062 False 3066 3066 93.481000 2 2068 1 chr3D.!!$F1 2066
7 TraesCS3A01G269600 chr4D 168888698 168890750 2052 False 2940 2940 92.482000 1 2068 1 chr4D.!!$F1 2067
8 TraesCS3A01G269600 chr2D 92462666 92464334 1668 False 890 2307 95.246667 62 2093 3 chr2D.!!$F1 2031
9 TraesCS3A01G269600 chr5B 617729995 617730963 968 True 1568 1568 95.876000 1124 2093 1 chr5B.!!$R1 969

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
244 246 0.10741 AACTGAAGGTTCACGTGCCA 60.107 50.0 11.67 0.0 31.69 4.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2135 2161 0.035056 AAAAGATGGCAGTCCCCGAG 60.035 55.0 0.0 0.0 0.0 4.63 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
132 134 3.655777 TCCCCAAATAGGTCACAGAAGTT 59.344 43.478 0.00 0.00 34.66 2.66
154 156 2.094675 GTGCTGATTGCCATTACAGGT 58.905 47.619 0.00 0.00 42.00 4.00
166 168 4.732784 CCATTACAGGTTGAATTTGTCGG 58.267 43.478 0.00 0.00 0.00 4.79
175 177 1.139256 TGAATTTGTCGGCGGCCTATA 59.861 47.619 18.34 0.81 0.00 1.31
244 246 0.107410 AACTGAAGGTTCACGTGCCA 60.107 50.000 11.67 0.00 31.69 4.92
275 277 4.383010 CCATAGCATACTTCTCACACCACA 60.383 45.833 0.00 0.00 0.00 4.17
563 571 1.065551 GAAAAACGCTGCAGGACTTGT 59.934 47.619 17.12 0.78 0.00 3.16
929 946 5.357314 TCAGTTCACTATCTTAGGAGAACCG 59.643 44.000 13.68 7.92 41.63 4.44
970 988 2.282040 GCAGCAGCCCACAACTCT 60.282 61.111 0.00 0.00 33.58 3.24
1025 1043 0.034767 CATGCTGCTCCCTTGGAAGA 60.035 55.000 0.00 0.00 0.00 2.87
1064 1082 2.720758 CGAAGGCAGTGAACGAGCG 61.721 63.158 0.00 0.00 0.00 5.03
1103 1121 0.906756 AGCAACCTGAGCAGCCTCTA 60.907 55.000 0.00 0.00 38.93 2.43
1187 1205 2.375766 CCGACAACGTCTGCAGCTC 61.376 63.158 9.47 3.67 37.88 4.09
1188 1206 1.661509 CGACAACGTCTGCAGCTCA 60.662 57.895 9.47 0.00 34.56 4.26
1200 1218 4.092091 GTCTGCAGCTCATACTACAACAAC 59.908 45.833 9.47 0.00 0.00 3.32
1275 1293 4.370364 AATGGTTTGTGTGTTGTCTCAC 57.630 40.909 0.00 0.00 38.20 3.51
1299 1317 3.706373 GCAAGGACGAGGAGGGCA 61.706 66.667 0.00 0.00 0.00 5.36
1338 1356 1.464608 CTGGTGCCATCAACAACTACG 59.535 52.381 0.00 0.00 39.82 3.51
1451 1475 3.817084 TCAGCACATCTCTTTTGGTTGAG 59.183 43.478 0.00 0.00 0.00 3.02
1459 1483 8.517878 CACATCTCTTTTGGTTGAGTGAATTAT 58.482 33.333 0.00 0.00 0.00 1.28
1603 1628 4.943705 TGCCCAAATTTTTGCAAGTGTTTA 59.056 33.333 8.54 0.00 36.86 2.01
1695 1720 3.593442 AAGAAGGGAACACCATCAACA 57.407 42.857 0.00 0.00 43.89 3.33
1717 1742 7.973048 ACATCCACTAGTACAGAAGGAAATA 57.027 36.000 0.00 0.00 36.22 1.40
1776 1801 4.381079 GCTGAACCCTTCTCTGTGTAGTAG 60.381 50.000 0.00 0.00 0.00 2.57
2094 2120 8.836413 TGCTAATTAAACCTGATAAGTATGTGC 58.164 33.333 0.00 0.00 0.00 4.57
2095 2121 8.290325 GCTAATTAAACCTGATAAGTATGTGCC 58.710 37.037 0.00 0.00 0.00 5.01
2096 2122 6.861065 ATTAAACCTGATAAGTATGTGCCG 57.139 37.500 0.00 0.00 0.00 5.69
2097 2123 2.910688 ACCTGATAAGTATGTGCCGG 57.089 50.000 0.00 0.00 0.00 6.13
2098 2124 1.416401 ACCTGATAAGTATGTGCCGGG 59.584 52.381 2.18 0.00 0.00 5.73
2099 2125 1.416401 CCTGATAAGTATGTGCCGGGT 59.584 52.381 2.18 0.00 0.00 5.28
2100 2126 2.631062 CCTGATAAGTATGTGCCGGGTA 59.369 50.000 2.18 0.00 0.00 3.69
2101 2127 3.070446 CCTGATAAGTATGTGCCGGGTAA 59.930 47.826 2.18 0.00 0.00 2.85
2102 2128 4.443739 CCTGATAAGTATGTGCCGGGTAAA 60.444 45.833 2.18 0.00 0.00 2.01
2103 2129 5.298989 TGATAAGTATGTGCCGGGTAAAT 57.701 39.130 2.18 0.00 0.00 1.40
2104 2130 5.060506 TGATAAGTATGTGCCGGGTAAATG 58.939 41.667 2.18 0.00 0.00 2.32
2105 2131 3.637911 AAGTATGTGCCGGGTAAATGA 57.362 42.857 2.18 0.00 0.00 2.57
2106 2132 2.914059 AGTATGTGCCGGGTAAATGAC 58.086 47.619 2.18 0.00 0.00 3.06
2121 2147 6.305693 GTAAATGACCATGAGACAATAGGC 57.694 41.667 0.00 0.00 0.00 3.93
2122 2148 3.498774 ATGACCATGAGACAATAGGCC 57.501 47.619 0.00 0.00 0.00 5.19
2123 2149 1.490490 TGACCATGAGACAATAGGCCC 59.510 52.381 0.00 0.00 0.00 5.80
2124 2150 0.846693 ACCATGAGACAATAGGCCCC 59.153 55.000 0.00 0.00 0.00 5.80
2125 2151 0.111253 CCATGAGACAATAGGCCCCC 59.889 60.000 0.00 0.00 0.00 5.40
2143 2169 3.213402 CGAGGAGAGCTCGGGGAC 61.213 72.222 8.37 0.00 40.27 4.46
2144 2170 2.277404 GAGGAGAGCTCGGGGACT 59.723 66.667 8.37 3.26 0.00 3.85
2145 2171 2.043450 AGGAGAGCTCGGGGACTG 60.043 66.667 8.37 0.00 0.00 3.51
2146 2172 3.844090 GGAGAGCTCGGGGACTGC 61.844 72.222 8.37 0.00 32.53 4.40
2147 2173 3.844090 GAGAGCTCGGGGACTGCC 61.844 72.222 8.37 0.00 32.53 4.85
2148 2174 4.704103 AGAGCTCGGGGACTGCCA 62.704 66.667 8.37 0.00 35.15 4.92
2149 2175 3.474570 GAGCTCGGGGACTGCCAT 61.475 66.667 0.00 0.00 35.15 4.40
2150 2176 3.453070 GAGCTCGGGGACTGCCATC 62.453 68.421 0.00 0.00 35.15 3.51
2151 2177 3.474570 GCTCGGGGACTGCCATCT 61.475 66.667 0.00 0.00 35.15 2.90
2152 2178 3.036429 GCTCGGGGACTGCCATCTT 62.036 63.158 0.00 0.00 35.15 2.40
2153 2179 1.604378 CTCGGGGACTGCCATCTTT 59.396 57.895 0.00 0.00 35.15 2.52
2154 2180 0.035056 CTCGGGGACTGCCATCTTTT 60.035 55.000 0.00 0.00 35.15 2.27
2155 2181 1.209504 CTCGGGGACTGCCATCTTTTA 59.790 52.381 0.00 0.00 35.15 1.52
2156 2182 1.843851 TCGGGGACTGCCATCTTTTAT 59.156 47.619 0.00 0.00 35.15 1.40
2157 2183 2.158813 TCGGGGACTGCCATCTTTTATC 60.159 50.000 0.00 0.00 35.15 1.75
2158 2184 2.158755 CGGGGACTGCCATCTTTTATCT 60.159 50.000 0.00 0.00 35.15 1.98
2159 2185 3.071023 CGGGGACTGCCATCTTTTATCTA 59.929 47.826 0.00 0.00 35.15 1.98
2160 2186 4.263068 CGGGGACTGCCATCTTTTATCTAT 60.263 45.833 0.00 0.00 35.15 1.98
2161 2187 5.006386 GGGGACTGCCATCTTTTATCTATG 58.994 45.833 0.00 0.00 35.15 2.23
2162 2188 5.221925 GGGGACTGCCATCTTTTATCTATGA 60.222 44.000 0.00 0.00 35.15 2.15
2163 2189 6.299141 GGGACTGCCATCTTTTATCTATGAA 58.701 40.000 0.00 0.00 35.15 2.57
2164 2190 6.944862 GGGACTGCCATCTTTTATCTATGAAT 59.055 38.462 0.00 0.00 35.15 2.57
2165 2191 7.094463 GGGACTGCCATCTTTTATCTATGAATG 60.094 40.741 0.00 0.00 35.15 2.67
2166 2192 7.663081 GGACTGCCATCTTTTATCTATGAATGA 59.337 37.037 0.00 0.00 0.00 2.57
2167 2193 8.985315 ACTGCCATCTTTTATCTATGAATGAA 57.015 30.769 0.00 0.00 0.00 2.57
2168 2194 9.064706 ACTGCCATCTTTTATCTATGAATGAAG 57.935 33.333 0.00 0.00 0.00 3.02
2169 2195 9.281371 CTGCCATCTTTTATCTATGAATGAAGA 57.719 33.333 0.00 0.00 0.00 2.87
2170 2196 9.281371 TGCCATCTTTTATCTATGAATGAAGAG 57.719 33.333 0.00 0.00 0.00 2.85
2171 2197 9.282569 GCCATCTTTTATCTATGAATGAAGAGT 57.717 33.333 0.00 0.00 0.00 3.24
2185 2211 9.961264 ATGAATGAAGAGTATCATGCTTATGAT 57.039 29.630 7.78 7.78 39.90 2.45
2186 2212 9.433153 TGAATGAAGAGTATCATGCTTATGATC 57.567 33.333 6.08 0.00 39.90 2.92
2187 2213 9.433153 GAATGAAGAGTATCATGCTTATGATCA 57.567 33.333 0.00 0.00 39.90 2.92
2188 2214 9.961264 AATGAAGAGTATCATGCTTATGATCAT 57.039 29.630 13.81 13.81 39.90 2.45
2189 2215 8.773404 TGAAGAGTATCATGCTTATGATCATG 57.227 34.615 18.72 3.50 41.20 3.07
2190 2216 8.373220 TGAAGAGTATCATGCTTATGATCATGT 58.627 33.333 18.72 0.00 41.20 3.21
2191 2217 8.774890 AAGAGTATCATGCTTATGATCATGTC 57.225 34.615 18.72 7.48 41.20 3.06
2192 2218 7.904205 AGAGTATCATGCTTATGATCATGTCA 58.096 34.615 18.72 12.61 41.20 3.58
2193 2219 8.541234 AGAGTATCATGCTTATGATCATGTCAT 58.459 33.333 18.72 14.16 44.09 3.06
2194 2220 9.163899 GAGTATCATGCTTATGATCATGTCATT 57.836 33.333 18.72 7.12 40.97 2.57
2197 2223 8.857694 ATCATGCTTATGATCATGTCATTACA 57.142 30.769 18.72 7.07 45.25 2.41
2198 2224 8.857694 TCATGCTTATGATCATGTCATTACAT 57.142 30.769 18.72 8.89 45.25 2.29
2199 2225 9.292195 TCATGCTTATGATCATGTCATTACATT 57.708 29.630 18.72 0.00 45.25 2.71
2200 2226 9.556030 CATGCTTATGATCATGTCATTACATTC 57.444 33.333 18.72 0.00 45.25 2.67
2201 2227 8.680039 TGCTTATGATCATGTCATTACATTCA 57.320 30.769 18.72 0.00 45.25 2.57
2202 2228 8.562052 TGCTTATGATCATGTCATTACATTCAC 58.438 33.333 18.72 0.00 45.25 3.18
2203 2229 8.781196 GCTTATGATCATGTCATTACATTCACT 58.219 33.333 18.72 0.00 45.25 3.41
2230 2256 2.344500 CGGCACCGGGTTTGACTA 59.656 61.111 6.32 0.00 35.56 2.59
2231 2257 1.740296 CGGCACCGGGTTTGACTAG 60.740 63.158 6.32 0.00 35.56 2.57
2232 2258 1.373812 GGCACCGGGTTTGACTAGT 59.626 57.895 6.32 0.00 0.00 2.57
2233 2259 0.672711 GGCACCGGGTTTGACTAGTC 60.673 60.000 16.32 16.32 0.00 2.59
2234 2260 1.012486 GCACCGGGTTTGACTAGTCG 61.012 60.000 17.85 5.46 0.00 4.18
2235 2261 0.389426 CACCGGGTTTGACTAGTCGG 60.389 60.000 17.85 16.22 42.69 4.79
2236 2262 1.447314 CCGGGTTTGACTAGTCGGC 60.447 63.158 17.85 9.96 0.00 5.54
2237 2263 1.447314 CGGGTTTGACTAGTCGGCC 60.447 63.158 17.85 17.36 0.00 6.13
2238 2264 1.078637 GGGTTTGACTAGTCGGCCC 60.079 63.158 24.19 24.19 32.99 5.80
2239 2265 1.447314 GGTTTGACTAGTCGGCCCG 60.447 63.158 17.85 0.00 0.00 6.13
2240 2266 1.447314 GTTTGACTAGTCGGCCCGG 60.447 63.158 17.85 0.00 0.00 5.73
2241 2267 2.652095 TTTGACTAGTCGGCCCGGG 61.652 63.158 19.09 19.09 0.00 5.73
2243 2269 4.828296 GACTAGTCGGCCCGGGGA 62.828 72.222 25.28 9.37 0.00 4.81
2245 2271 4.835891 CTAGTCGGCCCGGGGACT 62.836 72.222 28.58 28.58 45.06 3.85
2257 2283 4.785453 GGGACTGGCCGCCTTGAG 62.785 72.222 11.61 2.01 37.63 3.02
2258 2284 4.021925 GGACTGGCCGCCTTGAGT 62.022 66.667 11.61 5.72 0.00 3.41
2259 2285 2.032681 GACTGGCCGCCTTGAGTT 59.967 61.111 11.61 0.00 0.00 3.01
2260 2286 1.295423 GACTGGCCGCCTTGAGTTA 59.705 57.895 11.61 0.00 0.00 2.24
2261 2287 0.107654 GACTGGCCGCCTTGAGTTAT 60.108 55.000 11.61 0.00 0.00 1.89
2262 2288 1.138266 GACTGGCCGCCTTGAGTTATA 59.862 52.381 11.61 0.00 0.00 0.98
2263 2289 1.768870 ACTGGCCGCCTTGAGTTATAT 59.231 47.619 11.61 0.00 0.00 0.86
2264 2290 2.172717 ACTGGCCGCCTTGAGTTATATT 59.827 45.455 11.61 0.00 0.00 1.28
2265 2291 3.389983 ACTGGCCGCCTTGAGTTATATTA 59.610 43.478 11.61 0.00 0.00 0.98
2266 2292 3.997021 CTGGCCGCCTTGAGTTATATTAG 59.003 47.826 11.61 0.00 0.00 1.73
2267 2293 3.644265 TGGCCGCCTTGAGTTATATTAGA 59.356 43.478 11.61 0.00 0.00 2.10
2268 2294 4.101898 TGGCCGCCTTGAGTTATATTAGAA 59.898 41.667 11.61 0.00 0.00 2.10
2269 2295 4.691216 GGCCGCCTTGAGTTATATTAGAAG 59.309 45.833 0.71 0.00 0.00 2.85
2270 2296 5.298347 GCCGCCTTGAGTTATATTAGAAGT 58.702 41.667 0.00 0.00 0.00 3.01
2271 2297 5.405873 GCCGCCTTGAGTTATATTAGAAGTC 59.594 44.000 0.00 0.00 0.00 3.01
2272 2298 5.927115 CCGCCTTGAGTTATATTAGAAGTCC 59.073 44.000 3.98 0.00 0.00 3.85
2273 2299 6.239345 CCGCCTTGAGTTATATTAGAAGTCCT 60.239 42.308 3.98 0.00 0.00 3.85
2274 2300 7.039923 CCGCCTTGAGTTATATTAGAAGTCCTA 60.040 40.741 3.98 0.00 0.00 2.94
2275 2301 7.808856 CGCCTTGAGTTATATTAGAAGTCCTAC 59.191 40.741 3.98 0.00 0.00 3.18
2276 2302 8.089597 GCCTTGAGTTATATTAGAAGTCCTACC 58.910 40.741 3.98 0.00 0.00 3.18
2277 2303 8.586744 CCTTGAGTTATATTAGAAGTCCTACCC 58.413 40.741 3.98 0.00 0.00 3.69
2278 2304 7.756395 TGAGTTATATTAGAAGTCCTACCCG 57.244 40.000 3.98 0.00 0.00 5.28
2279 2305 6.208204 TGAGTTATATTAGAAGTCCTACCCGC 59.792 42.308 3.98 0.00 0.00 6.13
2280 2306 5.182760 AGTTATATTAGAAGTCCTACCCGCG 59.817 44.000 0.00 0.00 0.00 6.46
2281 2307 1.038280 ATTAGAAGTCCTACCCGCGG 58.962 55.000 21.04 21.04 0.00 6.46
2282 2308 0.323725 TTAGAAGTCCTACCCGCGGT 60.324 55.000 26.12 14.84 40.16 5.68
2283 2309 0.749454 TAGAAGTCCTACCCGCGGTC 60.749 60.000 26.12 12.39 37.09 4.79
2284 2310 2.283388 AAGTCCTACCCGCGGTCA 60.283 61.111 26.12 10.30 37.09 4.02
2285 2311 2.280823 GAAGTCCTACCCGCGGTCAG 62.281 65.000 26.12 19.58 37.09 3.51
2286 2312 2.753043 GTCCTACCCGCGGTCAGA 60.753 66.667 26.12 12.36 37.09 3.27
2287 2313 2.439701 TCCTACCCGCGGTCAGAG 60.440 66.667 26.12 14.56 37.09 3.35
2288 2314 2.439701 CCTACCCGCGGTCAGAGA 60.440 66.667 26.12 0.86 37.09 3.10
2289 2315 2.050350 CCTACCCGCGGTCAGAGAA 61.050 63.158 26.12 0.00 37.09 2.87
2290 2316 1.433879 CTACCCGCGGTCAGAGAAG 59.566 63.158 26.12 8.44 37.09 2.85
2291 2317 1.303888 TACCCGCGGTCAGAGAAGT 60.304 57.895 26.12 14.43 37.09 3.01
2292 2318 0.035152 TACCCGCGGTCAGAGAAGTA 60.035 55.000 26.12 13.33 37.09 2.24
2293 2319 1.313812 ACCCGCGGTCAGAGAAGTAG 61.314 60.000 26.12 6.21 0.00 2.57
2294 2320 1.313812 CCCGCGGTCAGAGAAGTAGT 61.314 60.000 26.12 0.00 0.00 2.73
2295 2321 0.179161 CCGCGGTCAGAGAAGTAGTG 60.179 60.000 19.50 0.00 0.00 2.74
2296 2322 0.522180 CGCGGTCAGAGAAGTAGTGT 59.478 55.000 0.00 0.00 0.00 3.55
2297 2323 1.729472 CGCGGTCAGAGAAGTAGTGTG 60.729 57.143 0.00 0.00 0.00 3.82
2298 2324 1.983972 CGGTCAGAGAAGTAGTGTGC 58.016 55.000 0.00 0.00 0.00 4.57
2299 2325 1.402984 CGGTCAGAGAAGTAGTGTGCC 60.403 57.143 0.00 0.00 0.00 5.01
2300 2326 1.402984 GGTCAGAGAAGTAGTGTGCCG 60.403 57.143 0.00 0.00 0.00 5.69
2301 2327 0.888619 TCAGAGAAGTAGTGTGCCGG 59.111 55.000 0.00 0.00 0.00 6.13
2302 2328 0.737715 CAGAGAAGTAGTGTGCCGGC 60.738 60.000 22.73 22.73 0.00 6.13
2303 2329 1.185618 AGAGAAGTAGTGTGCCGGCA 61.186 55.000 29.03 29.03 0.00 5.69
2304 2330 1.004918 AGAAGTAGTGTGCCGGCAC 60.005 57.895 45.20 45.20 46.33 5.01
2305 2331 2.032071 AAGTAGTGTGCCGGCACC 59.968 61.111 46.85 37.67 45.63 5.01
2306 2332 3.546714 AAGTAGTGTGCCGGCACCC 62.547 63.158 46.85 39.80 45.63 4.61
2307 2333 4.323477 GTAGTGTGCCGGCACCCA 62.323 66.667 46.85 32.48 45.63 4.51
2308 2334 3.561241 TAGTGTGCCGGCACCCAA 61.561 61.111 46.85 32.27 45.63 4.12
2309 2335 3.545124 TAGTGTGCCGGCACCCAAG 62.545 63.158 46.85 1.32 45.63 3.61
2318 2344 4.830573 GCACCCAAGCCTTCTCTT 57.169 55.556 0.00 0.00 0.00 2.85
2319 2345 2.261215 GCACCCAAGCCTTCTCTTG 58.739 57.895 0.00 0.00 42.23 3.02
2320 2346 1.871126 GCACCCAAGCCTTCTCTTGC 61.871 60.000 0.00 0.00 41.47 4.01
2321 2347 1.075659 ACCCAAGCCTTCTCTTGCC 59.924 57.895 0.00 0.00 41.47 4.52
2322 2348 1.075482 CCCAAGCCTTCTCTTGCCA 59.925 57.895 0.00 0.00 41.47 4.92
2323 2349 0.964358 CCCAAGCCTTCTCTTGCCAG 60.964 60.000 0.00 0.00 41.47 4.85
2324 2350 0.037303 CCAAGCCTTCTCTTGCCAGA 59.963 55.000 0.00 0.00 41.47 3.86
2325 2351 1.546323 CCAAGCCTTCTCTTGCCAGAA 60.546 52.381 0.00 0.00 41.47 3.02
2326 2352 1.811359 CAAGCCTTCTCTTGCCAGAAG 59.189 52.381 9.27 9.27 46.33 2.85
2327 2353 1.063183 AGCCTTCTCTTGCCAGAAGT 58.937 50.000 13.35 0.00 45.62 3.01
2328 2354 1.003003 AGCCTTCTCTTGCCAGAAGTC 59.997 52.381 13.35 4.05 45.62 3.01
2329 2355 1.719600 CCTTCTCTTGCCAGAAGTCG 58.280 55.000 13.35 0.21 45.62 4.18
2330 2356 1.001406 CCTTCTCTTGCCAGAAGTCGT 59.999 52.381 13.35 0.00 45.62 4.34
2331 2357 2.231478 CCTTCTCTTGCCAGAAGTCGTA 59.769 50.000 13.35 0.00 45.62 3.43
2332 2358 3.506810 CTTCTCTTGCCAGAAGTCGTAG 58.493 50.000 8.39 0.00 43.13 3.51
2333 2359 2.515854 TCTCTTGCCAGAAGTCGTAGT 58.484 47.619 0.00 0.00 0.00 2.73
2334 2360 2.891580 TCTCTTGCCAGAAGTCGTAGTT 59.108 45.455 0.00 0.00 0.00 2.24
2335 2361 3.057456 TCTCTTGCCAGAAGTCGTAGTTC 60.057 47.826 0.00 0.00 0.00 3.01
2336 2362 1.986378 CTTGCCAGAAGTCGTAGTTCG 59.014 52.381 0.00 0.00 41.41 3.95
2337 2363 1.241165 TGCCAGAAGTCGTAGTTCGA 58.759 50.000 0.00 0.00 46.83 3.71
2346 2372 0.109597 TCGTAGTTCGAAGAACCGGC 60.110 55.000 0.00 0.00 45.98 6.13
2347 2373 0.109412 CGTAGTTCGAAGAACCGGCT 60.109 55.000 0.00 0.00 45.90 5.52
2348 2374 1.347320 GTAGTTCGAAGAACCGGCTG 58.653 55.000 0.00 0.00 45.90 4.85
2349 2375 0.963962 TAGTTCGAAGAACCGGCTGT 59.036 50.000 0.00 0.00 45.90 4.40
2350 2376 0.319641 AGTTCGAAGAACCGGCTGTC 60.320 55.000 0.00 0.00 45.90 3.51
2351 2377 1.005394 TTCGAAGAACCGGCTGTCC 60.005 57.895 0.00 0.00 45.90 4.02
2361 2387 2.125106 GGCTGTCCGGCTGGTAAG 60.125 66.667 12.43 11.44 36.30 2.34
2362 2388 2.656069 GGCTGTCCGGCTGGTAAGA 61.656 63.158 12.43 0.00 36.30 2.10
2363 2389 1.153549 GCTGTCCGGCTGGTAAGAG 60.154 63.158 12.43 1.91 36.30 2.85
2364 2390 1.889530 GCTGTCCGGCTGGTAAGAGT 61.890 60.000 12.43 0.00 36.30 3.24
2365 2391 0.608640 CTGTCCGGCTGGTAAGAGTT 59.391 55.000 12.43 0.00 36.30 3.01
2366 2392 1.822990 CTGTCCGGCTGGTAAGAGTTA 59.177 52.381 12.43 0.00 36.30 2.24
2367 2393 2.232941 CTGTCCGGCTGGTAAGAGTTAA 59.767 50.000 12.43 0.00 36.30 2.01
2368 2394 2.633967 TGTCCGGCTGGTAAGAGTTAAA 59.366 45.455 12.43 0.00 36.30 1.52
2369 2395 3.259902 GTCCGGCTGGTAAGAGTTAAAG 58.740 50.000 12.43 0.00 36.30 1.85
2370 2396 2.235402 TCCGGCTGGTAAGAGTTAAAGG 59.765 50.000 12.43 0.00 36.30 3.11
2371 2397 2.007608 CGGCTGGTAAGAGTTAAAGGC 58.992 52.381 0.00 0.00 0.00 4.35
2372 2398 2.614481 CGGCTGGTAAGAGTTAAAGGCA 60.614 50.000 0.00 0.00 31.15 4.75
2373 2399 3.418047 GGCTGGTAAGAGTTAAAGGCAA 58.582 45.455 0.00 0.00 31.15 4.52
2374 2400 3.440522 GGCTGGTAAGAGTTAAAGGCAAG 59.559 47.826 0.00 0.00 31.15 4.01
2375 2401 4.324267 GCTGGTAAGAGTTAAAGGCAAGA 58.676 43.478 0.00 0.00 0.00 3.02
2376 2402 4.760204 GCTGGTAAGAGTTAAAGGCAAGAA 59.240 41.667 0.00 0.00 0.00 2.52
2377 2403 5.240844 GCTGGTAAGAGTTAAAGGCAAGAAA 59.759 40.000 0.00 0.00 0.00 2.52
2378 2404 6.568653 GCTGGTAAGAGTTAAAGGCAAGAAAG 60.569 42.308 0.00 0.00 0.00 2.62
2379 2405 5.768164 TGGTAAGAGTTAAAGGCAAGAAAGG 59.232 40.000 0.00 0.00 0.00 3.11
2380 2406 6.002082 GGTAAGAGTTAAAGGCAAGAAAGGA 58.998 40.000 0.00 0.00 0.00 3.36
2381 2407 6.072618 GGTAAGAGTTAAAGGCAAGAAAGGAC 60.073 42.308 0.00 0.00 0.00 3.85
2382 2408 4.065789 AGAGTTAAAGGCAAGAAAGGACG 58.934 43.478 0.00 0.00 0.00 4.79
2383 2409 2.552743 AGTTAAAGGCAAGAAAGGACGC 59.447 45.455 0.00 0.00 0.00 5.19
2384 2410 1.530323 TAAAGGCAAGAAAGGACGCC 58.470 50.000 0.00 0.00 45.23 5.68
2385 2411 1.179174 AAAGGCAAGAAAGGACGCCC 61.179 55.000 0.00 0.00 46.08 6.13
2386 2412 2.282180 GGCAAGAAAGGACGCCCA 60.282 61.111 0.00 0.00 38.67 5.36
2387 2413 2.626780 GGCAAGAAAGGACGCCCAC 61.627 63.158 0.00 0.00 38.67 4.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
154 156 0.321741 TAGGCCGCCGACAAATTCAA 60.322 50.000 3.05 0.00 0.00 2.69
166 168 3.186613 GCACTAGACAAAATATAGGCCGC 59.813 47.826 0.00 0.00 0.00 6.53
175 177 5.500234 TGCCTCTAATGCACTAGACAAAAT 58.500 37.500 0.00 0.00 32.85 1.82
244 246 0.397941 AGTATGCTATGGCGGCACAT 59.602 50.000 16.34 16.17 42.69 3.21
360 364 4.689345 ACATGTCCTTGAACTAAAGCGTAC 59.311 41.667 0.00 0.00 0.00 3.67
563 571 0.321919 GAGACCTGGCATGCACTGAA 60.322 55.000 21.36 0.00 0.00 3.02
929 946 1.545651 GCTTCCCCATATAGCACACCC 60.546 57.143 0.00 0.00 35.05 4.61
970 988 1.256812 TCATCTGGAGTCGCAAGTCA 58.743 50.000 0.00 0.00 39.48 3.41
1025 1043 4.363990 CTGCGTCACTCAGCCGGT 62.364 66.667 1.90 0.00 0.00 5.28
1084 1102 0.906756 TAGAGGCTGCTCAGGTTGCT 60.907 55.000 0.00 0.00 0.00 3.91
1103 1121 3.322466 CCTTGTCGGCCCAGGAGT 61.322 66.667 0.00 0.00 0.00 3.85
1187 1205 5.832568 TTGCTACGTGTTGTTGTAGTATG 57.167 39.130 0.00 0.00 40.13 2.39
1188 1206 8.437742 GTTAATTGCTACGTGTTGTTGTAGTAT 58.562 33.333 0.00 0.00 40.13 2.12
1200 1218 4.451096 AGAGTGTTGGTTAATTGCTACGTG 59.549 41.667 0.00 0.00 0.00 4.49
1275 1293 2.125912 CTCGTCCTTGCAGTCCCG 60.126 66.667 0.00 0.00 0.00 5.14
1299 1317 0.745845 GCGATGCAGTGGACCTTGAT 60.746 55.000 0.00 0.00 0.00 2.57
1338 1356 2.880629 TAGGTGAGGAGCTGGGAGGC 62.881 65.000 0.00 0.00 0.00 4.70
1695 1720 8.554490 ACATATTTCCTTCTGTACTAGTGGAT 57.446 34.615 5.39 0.00 33.00 3.41
1717 1742 4.862641 AGCCTTAAATGGTGGAGTACAT 57.137 40.909 0.00 0.00 0.00 2.29
1776 1801 3.960102 TGCCATATGTTTCCTTGGAATCC 59.040 43.478 2.65 0.00 0.00 3.01
2098 2124 5.239525 GGCCTATTGTCTCATGGTCATTTAC 59.760 44.000 0.00 0.00 0.00 2.01
2099 2125 5.376625 GGCCTATTGTCTCATGGTCATTTA 58.623 41.667 0.00 0.00 0.00 1.40
2100 2126 4.210331 GGCCTATTGTCTCATGGTCATTT 58.790 43.478 0.00 0.00 0.00 2.32
2101 2127 3.435601 GGGCCTATTGTCTCATGGTCATT 60.436 47.826 0.84 0.00 0.00 2.57
2102 2128 2.107204 GGGCCTATTGTCTCATGGTCAT 59.893 50.000 0.84 0.00 0.00 3.06
2103 2129 1.490490 GGGCCTATTGTCTCATGGTCA 59.510 52.381 0.84 0.00 0.00 4.02
2104 2130 1.202818 GGGGCCTATTGTCTCATGGTC 60.203 57.143 0.84 0.00 0.00 4.02
2105 2131 0.846693 GGGGCCTATTGTCTCATGGT 59.153 55.000 0.84 0.00 0.00 3.55
2106 2132 0.111253 GGGGGCCTATTGTCTCATGG 59.889 60.000 0.84 0.00 0.00 3.66
2107 2133 3.733709 GGGGGCCTATTGTCTCATG 57.266 57.895 0.84 0.00 0.00 3.07
2127 2153 2.124693 CAGTCCCCGAGCTCTCCTC 61.125 68.421 12.85 0.00 37.22 3.71
2128 2154 2.043450 CAGTCCCCGAGCTCTCCT 60.043 66.667 12.85 0.00 0.00 3.69
2129 2155 3.844090 GCAGTCCCCGAGCTCTCC 61.844 72.222 12.85 0.00 0.00 3.71
2130 2156 3.844090 GGCAGTCCCCGAGCTCTC 61.844 72.222 12.85 0.00 0.00 3.20
2131 2157 3.991924 ATGGCAGTCCCCGAGCTCT 62.992 63.158 12.85 0.00 0.00 4.09
2132 2158 3.453070 GATGGCAGTCCCCGAGCTC 62.453 68.421 2.73 2.73 0.00 4.09
2133 2159 3.474570 GATGGCAGTCCCCGAGCT 61.475 66.667 0.00 0.00 0.00 4.09
2134 2160 2.543067 AAAGATGGCAGTCCCCGAGC 62.543 60.000 0.00 0.00 0.00 5.03
2135 2161 0.035056 AAAAGATGGCAGTCCCCGAG 60.035 55.000 0.00 0.00 0.00 4.63
2136 2162 1.281419 TAAAAGATGGCAGTCCCCGA 58.719 50.000 0.00 0.00 0.00 5.14
2137 2163 2.158755 AGATAAAAGATGGCAGTCCCCG 60.159 50.000 0.00 0.00 0.00 5.73
2138 2164 3.584733 AGATAAAAGATGGCAGTCCCC 57.415 47.619 0.00 0.00 0.00 4.81
2139 2165 5.869579 TCATAGATAAAAGATGGCAGTCCC 58.130 41.667 0.00 0.00 0.00 4.46
2140 2166 7.663081 TCATTCATAGATAAAAGATGGCAGTCC 59.337 37.037 0.00 0.00 0.00 3.85
2141 2167 8.613060 TCATTCATAGATAAAAGATGGCAGTC 57.387 34.615 0.00 0.00 0.00 3.51
2142 2168 8.985315 TTCATTCATAGATAAAAGATGGCAGT 57.015 30.769 0.00 0.00 0.00 4.40
2143 2169 9.281371 TCTTCATTCATAGATAAAAGATGGCAG 57.719 33.333 0.00 0.00 0.00 4.85
2144 2170 9.281371 CTCTTCATTCATAGATAAAAGATGGCA 57.719 33.333 0.00 0.00 0.00 4.92
2145 2171 9.282569 ACTCTTCATTCATAGATAAAAGATGGC 57.717 33.333 0.00 0.00 0.00 4.40
2159 2185 9.961264 ATCATAAGCATGATACTCTTCATTCAT 57.039 29.630 0.00 0.00 44.91 2.57
2160 2186 9.433153 GATCATAAGCATGATACTCTTCATTCA 57.567 33.333 0.00 0.00 44.91 2.57
2161 2187 9.433153 TGATCATAAGCATGATACTCTTCATTC 57.567 33.333 0.00 0.00 44.91 2.67
2162 2188 9.961264 ATGATCATAAGCATGATACTCTTCATT 57.039 29.630 6.36 0.00 44.91 2.57
2213 2239 1.740296 CTAGTCAAACCCGGTGCCG 60.740 63.158 0.00 3.25 39.44 5.69
2214 2240 0.672711 GACTAGTCAAACCCGGTGCC 60.673 60.000 18.20 0.00 0.00 5.01
2215 2241 1.012486 CGACTAGTCAAACCCGGTGC 61.012 60.000 22.37 0.00 0.00 5.01
2216 2242 0.389426 CCGACTAGTCAAACCCGGTG 60.389 60.000 22.37 2.95 33.02 4.94
2217 2243 1.969862 CCGACTAGTCAAACCCGGT 59.030 57.895 22.37 0.00 33.02 5.28
2218 2244 1.447314 GCCGACTAGTCAAACCCGG 60.447 63.158 22.37 17.26 39.88 5.73
2219 2245 1.447314 GGCCGACTAGTCAAACCCG 60.447 63.158 22.37 7.97 0.00 5.28
2220 2246 1.078637 GGGCCGACTAGTCAAACCC 60.079 63.158 22.39 22.39 0.00 4.11
2221 2247 1.447314 CGGGCCGACTAGTCAAACC 60.447 63.158 24.41 18.04 0.00 3.27
2222 2248 1.447314 CCGGGCCGACTAGTCAAAC 60.447 63.158 30.79 10.47 0.00 2.93
2223 2249 2.652095 CCCGGGCCGACTAGTCAAA 61.652 63.158 30.79 0.00 0.00 2.69
2224 2250 3.072468 CCCGGGCCGACTAGTCAA 61.072 66.667 30.79 0.00 0.00 3.18
2226 2252 4.828296 TCCCCGGGCCGACTAGTC 62.828 72.222 30.79 13.18 0.00 2.59
2228 2254 4.835891 AGTCCCCGGGCCGACTAG 62.836 72.222 30.79 10.65 37.58 2.57
2240 2266 4.785453 CTCAAGGCGGCCAGTCCC 62.785 72.222 23.09 0.00 0.00 4.46
2241 2267 2.180159 TAACTCAAGGCGGCCAGTCC 62.180 60.000 23.09 0.00 0.00 3.85
2242 2268 0.107654 ATAACTCAAGGCGGCCAGTC 60.108 55.000 23.09 0.00 0.00 3.51
2243 2269 1.200519 TATAACTCAAGGCGGCCAGT 58.799 50.000 23.09 13.33 0.00 4.00
2244 2270 2.550830 ATATAACTCAAGGCGGCCAG 57.449 50.000 23.09 12.61 0.00 4.85
2245 2271 3.644265 TCTAATATAACTCAAGGCGGCCA 59.356 43.478 23.09 0.00 0.00 5.36
2246 2272 4.267349 TCTAATATAACTCAAGGCGGCC 57.733 45.455 12.11 12.11 0.00 6.13
2247 2273 5.298347 ACTTCTAATATAACTCAAGGCGGC 58.702 41.667 0.00 0.00 0.00 6.53
2248 2274 5.927115 GGACTTCTAATATAACTCAAGGCGG 59.073 44.000 0.00 0.00 0.00 6.13
2249 2275 6.750148 AGGACTTCTAATATAACTCAAGGCG 58.250 40.000 0.00 0.00 0.00 5.52
2250 2276 8.089597 GGTAGGACTTCTAATATAACTCAAGGC 58.910 40.741 0.00 0.00 0.00 4.35
2251 2277 8.586744 GGGTAGGACTTCTAATATAACTCAAGG 58.413 40.741 0.00 0.00 0.00 3.61
2252 2278 8.298140 CGGGTAGGACTTCTAATATAACTCAAG 58.702 40.741 0.00 0.00 0.00 3.02
2253 2279 7.255730 GCGGGTAGGACTTCTAATATAACTCAA 60.256 40.741 0.00 0.00 0.00 3.02
2254 2280 6.208204 GCGGGTAGGACTTCTAATATAACTCA 59.792 42.308 0.00 0.00 0.00 3.41
2255 2281 6.619744 GCGGGTAGGACTTCTAATATAACTC 58.380 44.000 0.00 0.00 0.00 3.01
2256 2282 5.182760 CGCGGGTAGGACTTCTAATATAACT 59.817 44.000 0.00 0.00 0.00 2.24
2257 2283 5.397326 CGCGGGTAGGACTTCTAATATAAC 58.603 45.833 0.00 0.00 0.00 1.89
2258 2284 4.460382 CCGCGGGTAGGACTTCTAATATAA 59.540 45.833 20.10 0.00 0.00 0.98
2259 2285 4.012374 CCGCGGGTAGGACTTCTAATATA 58.988 47.826 20.10 0.00 0.00 0.86
2260 2286 2.824341 CCGCGGGTAGGACTTCTAATAT 59.176 50.000 20.10 0.00 0.00 1.28
2261 2287 2.233271 CCGCGGGTAGGACTTCTAATA 58.767 52.381 20.10 0.00 0.00 0.98
2262 2288 1.038280 CCGCGGGTAGGACTTCTAAT 58.962 55.000 20.10 0.00 0.00 1.73
2263 2289 0.323725 ACCGCGGGTAGGACTTCTAA 60.324 55.000 31.76 0.00 32.11 2.10
2264 2290 0.749454 GACCGCGGGTAGGACTTCTA 60.749 60.000 31.76 0.00 35.25 2.10
2265 2291 2.036890 ACCGCGGGTAGGACTTCT 59.963 61.111 31.76 0.00 32.11 2.85
2266 2292 2.280823 CTGACCGCGGGTAGGACTTC 62.281 65.000 31.76 15.67 35.25 3.01
2267 2293 2.283388 TGACCGCGGGTAGGACTT 60.283 61.111 31.76 4.91 35.25 3.01
2268 2294 2.754658 CTGACCGCGGGTAGGACT 60.755 66.667 31.76 5.85 35.25 3.85
2269 2295 2.753043 TCTGACCGCGGGTAGGAC 60.753 66.667 31.76 13.25 35.25 3.85
2270 2296 2.439701 CTCTGACCGCGGGTAGGA 60.440 66.667 31.76 19.43 35.25 2.94
2271 2297 2.005960 CTTCTCTGACCGCGGGTAGG 62.006 65.000 31.76 18.70 35.25 3.18
2272 2298 1.313812 ACTTCTCTGACCGCGGGTAG 61.314 60.000 31.76 25.51 35.25 3.18
2273 2299 0.035152 TACTTCTCTGACCGCGGGTA 60.035 55.000 31.76 16.92 35.25 3.69
2274 2300 1.303888 TACTTCTCTGACCGCGGGT 60.304 57.895 31.76 17.13 39.44 5.28
2275 2301 1.313812 ACTACTTCTCTGACCGCGGG 61.314 60.000 31.76 12.37 0.00 6.13
2276 2302 0.179161 CACTACTTCTCTGACCGCGG 60.179 60.000 26.86 26.86 0.00 6.46
2277 2303 0.522180 ACACTACTTCTCTGACCGCG 59.478 55.000 0.00 0.00 0.00 6.46
2278 2304 1.983972 CACACTACTTCTCTGACCGC 58.016 55.000 0.00 0.00 0.00 5.68
2279 2305 1.402984 GGCACACTACTTCTCTGACCG 60.403 57.143 0.00 0.00 0.00 4.79
2280 2306 1.402984 CGGCACACTACTTCTCTGACC 60.403 57.143 0.00 0.00 0.00 4.02
2281 2307 1.402984 CCGGCACACTACTTCTCTGAC 60.403 57.143 0.00 0.00 0.00 3.51
2282 2308 0.888619 CCGGCACACTACTTCTCTGA 59.111 55.000 0.00 0.00 0.00 3.27
2283 2309 0.737715 GCCGGCACACTACTTCTCTG 60.738 60.000 24.80 0.00 0.00 3.35
2284 2310 1.185618 TGCCGGCACACTACTTCTCT 61.186 55.000 29.03 0.00 0.00 3.10
2285 2311 1.014564 GTGCCGGCACACTACTTCTC 61.015 60.000 46.18 21.46 45.53 2.87
2286 2312 1.004918 GTGCCGGCACACTACTTCT 60.005 57.895 46.18 0.00 45.53 2.85
2287 2313 3.562635 GTGCCGGCACACTACTTC 58.437 61.111 46.18 22.96 45.53 3.01
2301 2327 1.871126 GCAAGAGAAGGCTTGGGTGC 61.871 60.000 3.46 5.24 44.17 5.01
2302 2328 1.246737 GGCAAGAGAAGGCTTGGGTG 61.247 60.000 3.46 0.00 44.17 4.61
2303 2329 1.075659 GGCAAGAGAAGGCTTGGGT 59.924 57.895 3.46 0.00 44.17 4.51
2304 2330 0.964358 CTGGCAAGAGAAGGCTTGGG 60.964 60.000 3.46 0.00 44.17 4.12
2305 2331 0.037303 TCTGGCAAGAGAAGGCTTGG 59.963 55.000 3.46 0.00 44.17 3.61
2306 2332 1.811359 CTTCTGGCAAGAGAAGGCTTG 59.189 52.381 3.46 0.00 43.63 4.01
2307 2333 2.197283 CTTCTGGCAAGAGAAGGCTT 57.803 50.000 0.00 0.00 43.63 4.35
2308 2334 3.953006 CTTCTGGCAAGAGAAGGCT 57.047 52.632 7.00 0.00 43.63 4.58
2312 2338 2.891580 ACTACGACTTCTGGCAAGAGAA 59.108 45.455 4.02 0.00 32.79 2.87
2313 2339 2.515854 ACTACGACTTCTGGCAAGAGA 58.484 47.619 4.02 0.00 32.79 3.10
2314 2340 3.246619 GAACTACGACTTCTGGCAAGAG 58.753 50.000 0.00 0.00 32.79 2.85
2315 2341 2.351447 CGAACTACGACTTCTGGCAAGA 60.351 50.000 0.00 0.00 45.77 3.02
2316 2342 1.986378 CGAACTACGACTTCTGGCAAG 59.014 52.381 0.00 0.00 45.77 4.01
2317 2343 1.610038 TCGAACTACGACTTCTGGCAA 59.390 47.619 0.00 0.00 46.45 4.52
2318 2344 1.241165 TCGAACTACGACTTCTGGCA 58.759 50.000 0.00 0.00 46.45 4.92
2328 2354 0.109412 AGCCGGTTCTTCGAACTACG 60.109 55.000 1.90 0.00 44.09 3.51
2329 2355 1.336609 ACAGCCGGTTCTTCGAACTAC 60.337 52.381 1.90 0.00 0.00 2.73
2330 2356 0.963962 ACAGCCGGTTCTTCGAACTA 59.036 50.000 1.90 0.00 0.00 2.24
2331 2357 0.319641 GACAGCCGGTTCTTCGAACT 60.320 55.000 1.90 0.00 0.00 3.01
2332 2358 1.289800 GGACAGCCGGTTCTTCGAAC 61.290 60.000 1.90 0.00 0.00 3.95
2333 2359 1.005394 GGACAGCCGGTTCTTCGAA 60.005 57.895 1.90 0.00 0.00 3.71
2334 2360 2.654877 GGACAGCCGGTTCTTCGA 59.345 61.111 1.90 0.00 0.00 3.71
2344 2370 2.125106 CTTACCAGCCGGACAGCC 60.125 66.667 5.05 0.00 35.59 4.85
2345 2371 1.153549 CTCTTACCAGCCGGACAGC 60.154 63.158 5.05 0.00 35.59 4.40
2346 2372 0.608640 AACTCTTACCAGCCGGACAG 59.391 55.000 5.05 0.00 35.59 3.51
2347 2373 1.927487 TAACTCTTACCAGCCGGACA 58.073 50.000 5.05 0.00 35.59 4.02
2348 2374 3.259902 CTTTAACTCTTACCAGCCGGAC 58.740 50.000 5.05 0.00 35.59 4.79
2349 2375 2.235402 CCTTTAACTCTTACCAGCCGGA 59.765 50.000 5.05 0.00 35.59 5.14
2350 2376 2.629051 CCTTTAACTCTTACCAGCCGG 58.371 52.381 0.00 0.00 38.77 6.13
2351 2377 2.007608 GCCTTTAACTCTTACCAGCCG 58.992 52.381 0.00 0.00 0.00 5.52
2352 2378 3.067684 TGCCTTTAACTCTTACCAGCC 57.932 47.619 0.00 0.00 0.00 4.85
2353 2379 4.324267 TCTTGCCTTTAACTCTTACCAGC 58.676 43.478 0.00 0.00 0.00 4.85
2354 2380 6.072452 CCTTTCTTGCCTTTAACTCTTACCAG 60.072 42.308 0.00 0.00 0.00 4.00
2355 2381 5.768164 CCTTTCTTGCCTTTAACTCTTACCA 59.232 40.000 0.00 0.00 0.00 3.25
2356 2382 6.002082 TCCTTTCTTGCCTTTAACTCTTACC 58.998 40.000 0.00 0.00 0.00 2.85
2357 2383 6.347483 CGTCCTTTCTTGCCTTTAACTCTTAC 60.347 42.308 0.00 0.00 0.00 2.34
2358 2384 5.699458 CGTCCTTTCTTGCCTTTAACTCTTA 59.301 40.000 0.00 0.00 0.00 2.10
2359 2385 4.515567 CGTCCTTTCTTGCCTTTAACTCTT 59.484 41.667 0.00 0.00 0.00 2.85
2360 2386 4.065789 CGTCCTTTCTTGCCTTTAACTCT 58.934 43.478 0.00 0.00 0.00 3.24
2361 2387 3.365064 GCGTCCTTTCTTGCCTTTAACTC 60.365 47.826 0.00 0.00 0.00 3.01
2362 2388 2.552743 GCGTCCTTTCTTGCCTTTAACT 59.447 45.455 0.00 0.00 0.00 2.24
2363 2389 2.351447 GGCGTCCTTTCTTGCCTTTAAC 60.351 50.000 0.00 0.00 44.16 2.01
2364 2390 1.883926 GGCGTCCTTTCTTGCCTTTAA 59.116 47.619 0.00 0.00 44.16 1.52
2365 2391 1.530323 GGCGTCCTTTCTTGCCTTTA 58.470 50.000 0.00 0.00 44.16 1.85
2366 2392 1.179174 GGGCGTCCTTTCTTGCCTTT 61.179 55.000 0.00 0.00 46.72 3.11
2367 2393 1.603739 GGGCGTCCTTTCTTGCCTT 60.604 57.895 0.00 0.00 46.72 4.35
2368 2394 2.034221 GGGCGTCCTTTCTTGCCT 59.966 61.111 0.00 0.00 46.72 4.75
2369 2395 2.282180 TGGGCGTCCTTTCTTGCC 60.282 61.111 7.97 0.00 46.82 4.52
2370 2396 2.954611 GTGGGCGTCCTTTCTTGC 59.045 61.111 7.97 0.00 0.00 4.01


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

AutoCloner maintained by Alex Coulton.