Multiple sequence alignment - TraesCS1A01G004200

Loading Multiple Alignment...

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 TraesCS1A01G004200 chr1A 100.000 2468 0 0 1 2468 2541958 2539491 0.000000e+00 4558
1 TraesCS1A01G004200 chr1A 98.913 92 1 0 2098 2189 112007955 112007864 5.460000e-37 165
2 TraesCS1A01G004200 chr1B 93.347 1984 88 18 160 2103 3656844 3658823 0.000000e+00 2892
3 TraesCS1A01G004200 chr1B 92.982 171 8 2 1 171 3656659 3656825 1.900000e-61 246
4 TraesCS1A01G004200 chr1B 97.826 92 2 0 2098 2189 672553559 672553650 2.540000e-35 159
5 TraesCS1A01G004200 chr1D 93.096 1970 94 16 165 2103 905952 907910 0.000000e+00 2846
6 TraesCS1A01G004200 chr1D 88.172 279 31 2 674 952 827135 827411 5.090000e-87 331
7 TraesCS1A01G004200 chr1D 93.689 206 12 1 1251 1456 827489 827693 8.570000e-80 307
8 TraesCS1A01G004200 chr1D 94.737 171 5 2 1 171 905762 905928 1.880000e-66 263
9 TraesCS1A01G004200 chr1D 97.143 70 2 0 2190 2259 254391089 254391158 4.310000e-23 119
10 TraesCS1A01G004200 chr6B 87.826 690 54 9 674 1335 148825433 148826120 0.000000e+00 782
11 TraesCS1A01G004200 chr6B 83.090 479 48 16 155 607 148824942 148825413 2.960000e-109 405
12 TraesCS1A01G004200 chr3D 86.637 681 57 13 687 1335 575925847 575925169 0.000000e+00 723
13 TraesCS1A01G004200 chr3D 82.096 458 50 16 174 607 575928343 575927894 1.800000e-96 363
14 TraesCS1A01G004200 chr3D 98.913 92 1 0 2098 2189 308584001 308583910 5.460000e-37 165
15 TraesCS1A01G004200 chr3D 95.000 100 4 1 2370 2468 6755098 6755197 3.290000e-34 156
16 TraesCS1A01G004200 chrUn 98.913 92 1 0 2098 2189 86474987 86475078 5.460000e-37 165
17 TraesCS1A01G004200 chrUn 98.913 92 1 0 2098 2189 206764351 206764260 5.460000e-37 165
18 TraesCS1A01G004200 chrUn 94.000 100 5 1 2370 2468 86516863 86516962 1.530000e-32 150
19 TraesCS1A01G004200 chrUn 94.000 100 5 1 2370 2468 206784381 206784480 1.530000e-32 150
20 TraesCS1A01G004200 chrUn 93.204 103 5 2 2367 2468 345388919 345388818 1.530000e-32 150
21 TraesCS1A01G004200 chrUn 97.143 70 2 0 2190 2259 216512401 216512470 4.310000e-23 119
22 TraesCS1A01G004200 chrUn 97.143 70 2 0 2190 2259 286270982 286270913 4.310000e-23 119
23 TraesCS1A01G004200 chrUn 97.143 70 2 0 2190 2259 354077137 354077068 4.310000e-23 119
24 TraesCS1A01G004200 chr7B 98.913 92 1 0 2098 2189 247414929 247415020 5.460000e-37 165
25 TraesCS1A01G004200 chr7A 98.913 92 1 0 2098 2189 120874606 120874697 5.460000e-37 165
26 TraesCS1A01G004200 chr7A 93.204 103 5 2 2367 2468 60265034 60265135 1.530000e-32 150
27 TraesCS1A01G004200 chr4B 97.826 92 2 0 2098 2189 209126151 209126060 2.540000e-35 159
28 TraesCS1A01G004200 chr4B 97.826 92 2 0 2098 2189 209275214 209275123 2.540000e-35 159
29 TraesCS1A01G004200 chr7D 94.000 100 5 1 2370 2468 203485723 203485822 1.530000e-32 150
30 TraesCS1A01G004200 chr6D 94.000 100 5 1 2370 2468 124503259 124503358 1.530000e-32 150
31 TraesCS1A01G004200 chr6D 97.143 70 2 0 2190 2259 135458242 135458311 4.310000e-23 119
32 TraesCS1A01G004200 chr6D 97.143 70 2 0 2190 2259 168263866 168263797 4.310000e-23 119
33 TraesCS1A01G004200 chr6D 97.143 70 2 0 2190 2259 458921520 458921451 4.310000e-23 119
34 TraesCS1A01G004200 chr4D 94.000 100 5 1 2370 2468 123289438 123289537 1.530000e-32 150
35 TraesCS1A01G004200 chr4D 97.143 70 2 0 2190 2259 365078925 365078856 4.310000e-23 119
36 TraesCS1A01G004200 chr4D 97.143 70 2 0 2190 2259 442063588 442063657 4.310000e-23 119
37 TraesCS1A01G004200 chr2B 93.204 103 5 2 2367 2468 391091131 391091030 1.530000e-32 150


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 TraesCS1A01G004200 chr1A 2539491 2541958 2467 True 4558.0 4558 100.0000 1 2468 1 chr1A.!!$R1 2467
1 TraesCS1A01G004200 chr1B 3656659 3658823 2164 False 1569.0 2892 93.1645 1 2103 2 chr1B.!!$F2 2102
2 TraesCS1A01G004200 chr1D 905762 907910 2148 False 1554.5 2846 93.9165 1 2103 2 chr1D.!!$F3 2102
3 TraesCS1A01G004200 chr1D 827135 827693 558 False 319.0 331 90.9305 674 1456 2 chr1D.!!$F2 782
4 TraesCS1A01G004200 chr6B 148824942 148826120 1178 False 593.5 782 85.4580 155 1335 2 chr6B.!!$F1 1180
5 TraesCS1A01G004200 chr3D 575925169 575928343 3174 True 543.0 723 84.3665 174 1335 2 chr3D.!!$R2 1161

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
544 599 1.279558 TGCAACTATTTACCTCGGGCA 59.72 47.619 0.0 0.0 0.0 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2378 4523 0.029567 CTTCCAGCGCTCCTACGTAG 59.97 60.0 15.92 15.92 34.88 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
171 202 1.670811 GCGGGATGTACCTGTGATTTG 59.329 52.381 0.00 0.00 46.24 2.32
172 203 1.670811 CGGGATGTACCTGTGATTTGC 59.329 52.381 0.00 0.00 40.03 3.68
191 222 9.806203 TGATTTGCTATTAAGAAATGGACAATG 57.194 29.630 0.00 0.00 0.00 2.82
214 245 6.649155 TGCAACACAACCTGATGTAGTATAT 58.351 36.000 0.00 0.00 30.84 0.86
239 271 7.709947 TGCAAGGAAGATATTGATTCATTGTC 58.290 34.615 17.38 12.91 44.68 3.18
269 301 4.692625 ACCAGATCAGAGTGAAAACAATCG 59.307 41.667 0.00 0.00 0.00 3.34
304 336 7.787028 TGGCTTTCTTACCAACAAAATAAACT 58.213 30.769 0.00 0.00 31.46 2.66
344 379 6.741992 TTGTCATGCTAATCCAGTAAAGTG 57.258 37.500 0.00 0.00 0.00 3.16
363 398 4.390264 AGTGTAGGAGGAAAAGAGTTTGC 58.610 43.478 0.00 0.00 35.42 3.68
401 437 6.901081 AGGTGGAAATTAGGAGTTTTCTTG 57.099 37.500 0.00 0.00 33.38 3.02
455 491 6.164176 AGAGTGAGTTCCTAACCGTTTATTG 58.836 40.000 0.00 0.00 0.00 1.90
485 536 3.678915 ATTTTGCAGCAACAAAGTTGC 57.321 38.095 23.19 23.19 44.68 4.17
494 545 2.029124 GCAACAAAGTTGCCTTGTTTCG 59.971 45.455 20.85 0.00 39.38 3.46
544 599 1.279558 TGCAACTATTTACCTCGGGCA 59.720 47.619 0.00 0.00 0.00 5.36
682 752 4.459390 TCGGTTAGCAACTTAGCATACA 57.541 40.909 0.00 0.00 36.85 2.29
829 2913 5.634859 AGATCGATTTGGTTCATGCAAAAAC 59.365 36.000 0.00 0.00 0.00 2.43
979 3090 9.953825 GTTACTAAAATTCATTACTCACGTCAG 57.046 33.333 0.00 0.00 0.00 3.51
995 3106 7.334421 ACTCACGTCAGCATTTTTCATATACTT 59.666 33.333 0.00 0.00 0.00 2.24
1142 3264 9.513906 TTGTATATATGATGGGTGGTTAACATG 57.486 33.333 8.10 0.00 0.00 3.21
1224 3352 3.264450 ACTCAAGCTACAGCAACCCTATT 59.736 43.478 3.70 0.00 45.16 1.73
1227 3355 1.490910 AGCTACAGCAACCCTATTCCC 59.509 52.381 3.70 0.00 45.16 3.97
1386 3514 7.125391 ACATAGAGAAGGAGAACTCAAGATCT 58.875 38.462 4.23 0.00 35.83 2.75
1485 3613 1.210155 GTGTGGCGGCAAACATCTC 59.790 57.895 26.15 6.98 0.00 2.75
1578 3706 6.067350 GGAGAAATAGAGATGCCCTTCATTT 58.933 40.000 0.00 0.00 35.05 2.32
1581 3709 6.261826 AGAAATAGAGATGCCCTTCATTTTCG 59.738 38.462 0.00 0.00 34.49 3.46
1865 3998 7.549488 GTGGTATGCTAGTTCAGATTGTAGTTT 59.451 37.037 0.00 0.00 0.00 2.66
1925 4058 8.898761 TGTACATCTTCAGTAAAATTGTGTTGT 58.101 29.630 0.00 0.00 0.00 3.32
1990 4134 7.011499 TGGAGGTATTAGTAAAAAGCAGACA 57.989 36.000 0.00 0.00 0.00 3.41
1998 4142 0.746659 AAAAAGCAGACAGTGGGCAC 59.253 50.000 0.00 0.00 0.00 5.01
2099 4244 4.201940 TGCTCTGTGTGTGTGAAATTTCAG 60.202 41.667 21.05 7.23 37.98 3.02
2103 4248 4.992688 TGTGTGTGTGAAATTTCAGGAAC 58.007 39.130 21.05 18.19 37.98 3.62
2104 4249 4.035017 GTGTGTGTGAAATTTCAGGAACG 58.965 43.478 21.05 0.00 37.98 3.95
2105 4250 3.692101 TGTGTGTGAAATTTCAGGAACGT 59.308 39.130 21.05 0.00 37.98 3.99
2106 4251 4.156922 TGTGTGTGAAATTTCAGGAACGTT 59.843 37.500 21.05 0.00 37.98 3.99
2107 4252 4.499040 GTGTGTGAAATTTCAGGAACGTTG 59.501 41.667 21.05 0.00 37.98 4.10
2108 4253 4.156922 TGTGTGAAATTTCAGGAACGTTGT 59.843 37.500 21.05 0.00 37.98 3.32
2109 4254 5.099575 GTGTGAAATTTCAGGAACGTTGTT 58.900 37.500 21.05 0.00 37.98 2.83
2110 4255 5.004345 GTGTGAAATTTCAGGAACGTTGTTG 59.996 40.000 21.05 3.68 37.98 3.33
2111 4256 5.106118 TGTGAAATTTCAGGAACGTTGTTGA 60.106 36.000 21.05 6.36 37.98 3.18
2112 4257 5.802956 GTGAAATTTCAGGAACGTTGTTGAA 59.197 36.000 21.05 12.50 37.98 2.69
2113 4258 6.309251 GTGAAATTTCAGGAACGTTGTTGAAA 59.691 34.615 26.15 26.15 41.93 2.69
2114 4259 7.010091 GTGAAATTTCAGGAACGTTGTTGAAAT 59.990 33.333 27.44 27.44 46.52 2.17
2115 4260 8.191446 TGAAATTTCAGGAACGTTGTTGAAATA 58.809 29.630 30.23 20.72 44.85 1.40
2116 4261 8.934507 AAATTTCAGGAACGTTGTTGAAATAA 57.065 26.923 30.23 16.80 44.85 1.40
2117 4262 7.924103 ATTTCAGGAACGTTGTTGAAATAAC 57.076 32.000 29.61 7.50 44.19 1.89
2118 4263 6.687081 TTCAGGAACGTTGTTGAAATAACT 57.313 33.333 17.15 0.00 0.00 2.24
2119 4264 6.687081 TCAGGAACGTTGTTGAAATAACTT 57.313 33.333 5.00 0.00 0.00 2.66
2120 4265 6.721321 TCAGGAACGTTGTTGAAATAACTTC 58.279 36.000 5.00 4.61 34.31 3.01
2121 4266 6.540914 TCAGGAACGTTGTTGAAATAACTTCT 59.459 34.615 5.00 0.00 34.86 2.85
2122 4267 7.066525 TCAGGAACGTTGTTGAAATAACTTCTT 59.933 33.333 5.00 0.06 34.86 2.52
2123 4268 7.700656 CAGGAACGTTGTTGAAATAACTTCTTT 59.299 33.333 5.00 0.00 34.86 2.52
2124 4269 8.895737 AGGAACGTTGTTGAAATAACTTCTTTA 58.104 29.630 5.00 0.00 34.86 1.85
2125 4270 8.950961 GGAACGTTGTTGAAATAACTTCTTTAC 58.049 33.333 5.00 0.00 34.86 2.01
2126 4271 8.845942 AACGTTGTTGAAATAACTTCTTTACC 57.154 30.769 0.00 0.00 34.86 2.85
2127 4272 8.217131 ACGTTGTTGAAATAACTTCTTTACCT 57.783 30.769 1.94 0.00 34.86 3.08
2128 4273 8.340443 ACGTTGTTGAAATAACTTCTTTACCTC 58.660 33.333 1.94 0.00 34.86 3.85
2129 4274 7.801783 CGTTGTTGAAATAACTTCTTTACCTCC 59.198 37.037 1.94 0.00 34.86 4.30
2130 4275 7.754851 TGTTGAAATAACTTCTTTACCTCCC 57.245 36.000 0.00 0.00 34.86 4.30
2131 4276 6.428771 TGTTGAAATAACTTCTTTACCTCCCG 59.571 38.462 0.00 0.00 34.86 5.14
2132 4277 6.117975 TGAAATAACTTCTTTACCTCCCGT 57.882 37.500 0.00 0.00 34.86 5.28
2133 4278 7.243604 TGAAATAACTTCTTTACCTCCCGTA 57.756 36.000 0.00 0.00 34.86 4.02
2134 4279 7.678837 TGAAATAACTTCTTTACCTCCCGTAA 58.321 34.615 0.00 0.00 34.86 3.18
2135 4280 8.156165 TGAAATAACTTCTTTACCTCCCGTAAA 58.844 33.333 0.00 0.00 43.10 2.01
2136 4281 8.922931 AAATAACTTCTTTACCTCCCGTAAAA 57.077 30.769 0.00 0.00 44.41 1.52
2137 4282 9.524496 AAATAACTTCTTTACCTCCCGTAAAAT 57.476 29.630 0.00 0.00 44.41 1.82
2138 4283 8.728337 ATAACTTCTTTACCTCCCGTAAAATC 57.272 34.615 0.00 0.00 44.41 2.17
2139 4284 5.494724 ACTTCTTTACCTCCCGTAAAATCC 58.505 41.667 0.00 0.00 44.41 3.01
2140 4285 5.250082 ACTTCTTTACCTCCCGTAAAATCCT 59.750 40.000 0.00 0.00 44.41 3.24
2141 4286 5.767277 TCTTTACCTCCCGTAAAATCCTT 57.233 39.130 0.00 0.00 44.41 3.36
2142 4287 6.130692 TCTTTACCTCCCGTAAAATCCTTT 57.869 37.500 0.00 0.00 44.41 3.11
2143 4288 7.256494 TCTTTACCTCCCGTAAAATCCTTTA 57.744 36.000 0.00 0.00 44.41 1.85
2144 4289 7.864770 TCTTTACCTCCCGTAAAATCCTTTAT 58.135 34.615 0.00 0.00 44.41 1.40
2145 4290 7.771826 TCTTTACCTCCCGTAAAATCCTTTATG 59.228 37.037 0.00 0.00 44.41 1.90
2146 4291 4.204799 ACCTCCCGTAAAATCCTTTATGC 58.795 43.478 0.00 0.00 34.09 3.14
2147 4292 3.568430 CCTCCCGTAAAATCCTTTATGCC 59.432 47.826 0.00 0.00 34.09 4.40
2148 4293 4.461198 CTCCCGTAAAATCCTTTATGCCT 58.539 43.478 0.00 0.00 34.09 4.75
2149 4294 4.204012 TCCCGTAAAATCCTTTATGCCTG 58.796 43.478 0.00 0.00 34.09 4.85
2150 4295 4.080243 TCCCGTAAAATCCTTTATGCCTGA 60.080 41.667 0.00 0.00 34.09 3.86
2151 4296 4.827284 CCCGTAAAATCCTTTATGCCTGAT 59.173 41.667 0.00 0.00 34.09 2.90
2152 4297 5.301805 CCCGTAAAATCCTTTATGCCTGATT 59.698 40.000 0.00 0.00 34.09 2.57
2153 4298 6.183360 CCCGTAAAATCCTTTATGCCTGATTT 60.183 38.462 0.00 0.00 38.66 2.17
2154 4299 6.918022 CCGTAAAATCCTTTATGCCTGATTTC 59.082 38.462 0.00 0.00 36.65 2.17
2155 4300 7.416213 CCGTAAAATCCTTTATGCCTGATTTCA 60.416 37.037 0.00 0.00 36.65 2.69
2156 4301 7.645340 CGTAAAATCCTTTATGCCTGATTTCAG 59.355 37.037 0.39 0.39 36.65 3.02
2157 4302 7.486407 AAAATCCTTTATGCCTGATTTCAGT 57.514 32.000 6.81 0.00 42.27 3.41
2158 4303 8.593945 AAAATCCTTTATGCCTGATTTCAGTA 57.406 30.769 6.81 0.00 42.27 2.74
2159 4304 7.573968 AATCCTTTATGCCTGATTTCAGTAC 57.426 36.000 6.81 0.00 42.27 2.73
2160 4305 6.313519 TCCTTTATGCCTGATTTCAGTACT 57.686 37.500 6.81 0.00 42.27 2.73
2161 4306 7.432148 TCCTTTATGCCTGATTTCAGTACTA 57.568 36.000 6.81 0.00 42.27 1.82
2162 4307 7.857456 TCCTTTATGCCTGATTTCAGTACTAA 58.143 34.615 6.81 0.00 42.27 2.24
2163 4308 8.494433 TCCTTTATGCCTGATTTCAGTACTAAT 58.506 33.333 6.81 0.00 42.27 1.73
2164 4309 9.778741 CCTTTATGCCTGATTTCAGTACTAATA 57.221 33.333 6.81 0.00 42.27 0.98
2207 4352 9.892130 ATCCTATTCTATAATTAGCTTTTCGGG 57.108 33.333 0.00 0.00 0.00 5.14
2208 4353 9.096823 TCCTATTCTATAATTAGCTTTTCGGGA 57.903 33.333 0.00 0.00 0.00 5.14
2209 4354 9.720769 CCTATTCTATAATTAGCTTTTCGGGAA 57.279 33.333 0.00 0.00 0.00 3.97
2215 4360 9.678941 CTATAATTAGCTTTTCGGGAAATTTCC 57.321 33.333 26.41 26.41 46.82 3.13
2230 4375 7.240414 GGAAATTTCCAAACGAACAATTTCA 57.760 32.000 28.76 0.00 46.76 2.69
2231 4376 7.689299 GGAAATTTCCAAACGAACAATTTCAA 58.311 30.769 28.76 0.00 46.76 2.69
2232 4377 7.638295 GGAAATTTCCAAACGAACAATTTCAAC 59.362 33.333 28.76 0.00 46.76 3.18
2233 4378 5.688348 TTTCCAAACGAACAATTTCAACG 57.312 34.783 0.00 0.00 0.00 4.10
2234 4379 4.617808 TCCAAACGAACAATTTCAACGA 57.382 36.364 0.00 0.00 0.00 3.85
2235 4380 4.982999 TCCAAACGAACAATTTCAACGAA 58.017 34.783 0.00 0.00 0.00 3.85
2236 4381 5.399858 TCCAAACGAACAATTTCAACGAAA 58.600 33.333 0.00 0.00 35.94 3.46
2237 4382 6.037098 TCCAAACGAACAATTTCAACGAAAT 58.963 32.000 0.00 0.00 43.07 2.17
2239 4384 7.063544 TCCAAACGAACAATTTCAACGAAATTT 59.936 29.630 11.08 0.00 46.07 1.82
2240 4385 7.690224 CCAAACGAACAATTTCAACGAAATTTT 59.310 29.630 11.08 9.39 46.07 1.82
2241 4386 9.045772 CAAACGAACAATTTCAACGAAATTTTT 57.954 25.926 11.08 11.26 46.07 1.94
2242 4387 8.800096 AACGAACAATTTCAACGAAATTTTTC 57.200 26.923 20.71 20.71 46.07 2.29
2246 4391 9.753669 GAACAATTTCAACGAAATTTTTCAGTT 57.246 25.926 23.34 17.66 46.07 3.16
2248 4393 9.753669 ACAATTTCAACGAAATTTTTCAGTTTC 57.246 25.926 11.08 0.00 46.07 2.78
2249 4394 9.971744 CAATTTCAACGAAATTTTTCAGTTTCT 57.028 25.926 11.08 0.00 46.07 2.52
2251 4396 8.749841 TTTCAACGAAATTTTTCAGTTTCTCA 57.250 26.923 4.12 0.00 37.01 3.27
2252 4397 8.925161 TTCAACGAAATTTTTCAGTTTCTCAT 57.075 26.923 4.12 0.00 37.01 2.90
2253 4398 8.925161 TCAACGAAATTTTTCAGTTTCTCATT 57.075 26.923 4.12 0.00 37.01 2.57
2254 4399 9.364989 TCAACGAAATTTTTCAGTTTCTCATTT 57.635 25.926 4.12 0.00 37.01 2.32
2255 4400 9.971744 CAACGAAATTTTTCAGTTTCTCATTTT 57.028 25.926 4.12 0.00 37.01 1.82
2262 4407 9.725019 ATTTTTCAGTTTCTCATTTTATTCCCC 57.275 29.630 0.00 0.00 0.00 4.81
2263 4408 6.509418 TTCAGTTTCTCATTTTATTCCCCG 57.491 37.500 0.00 0.00 0.00 5.73
2264 4409 4.398044 TCAGTTTCTCATTTTATTCCCCGC 59.602 41.667 0.00 0.00 0.00 6.13
2265 4410 4.399303 CAGTTTCTCATTTTATTCCCCGCT 59.601 41.667 0.00 0.00 0.00 5.52
2266 4411 4.399303 AGTTTCTCATTTTATTCCCCGCTG 59.601 41.667 0.00 0.00 0.00 5.18
2267 4412 2.297701 TCTCATTTTATTCCCCGCTGC 58.702 47.619 0.00 0.00 0.00 5.25
2268 4413 1.338020 CTCATTTTATTCCCCGCTGCC 59.662 52.381 0.00 0.00 0.00 4.85
2269 4414 1.110442 CATTTTATTCCCCGCTGCCA 58.890 50.000 0.00 0.00 0.00 4.92
2270 4415 1.067516 CATTTTATTCCCCGCTGCCAG 59.932 52.381 0.00 0.00 0.00 4.85
2271 4416 0.682855 TTTTATTCCCCGCTGCCAGG 60.683 55.000 0.00 0.00 0.00 4.45
2272 4417 3.714487 TTATTCCCCGCTGCCAGGC 62.714 63.158 3.66 3.66 0.00 4.85
2278 4423 3.741476 CCGCTGCCAGGCTCAAAC 61.741 66.667 14.15 0.00 0.00 2.93
2279 4424 3.741476 CGCTGCCAGGCTCAAACC 61.741 66.667 14.15 0.00 0.00 3.27
2280 4425 2.598394 GCTGCCAGGCTCAAACCA 60.598 61.111 14.15 0.00 0.00 3.67
2281 4426 2.633509 GCTGCCAGGCTCAAACCAG 61.634 63.158 14.15 0.00 0.00 4.00
2282 4427 1.073722 CTGCCAGGCTCAAACCAGA 59.926 57.895 14.15 0.00 0.00 3.86
2283 4428 0.959372 CTGCCAGGCTCAAACCAGAG 60.959 60.000 14.15 0.00 38.68 3.35
2284 4429 1.376466 GCCAGGCTCAAACCAGAGA 59.624 57.895 3.29 0.00 37.87 3.10
2285 4430 0.957888 GCCAGGCTCAAACCAGAGAC 60.958 60.000 3.29 0.00 44.28 3.36
2286 4431 0.397941 CCAGGCTCAAACCAGAGACA 59.602 55.000 0.00 0.00 46.44 3.41
2287 4432 1.610102 CCAGGCTCAAACCAGAGACAG 60.610 57.143 0.00 0.00 46.44 3.51
2288 4433 1.345741 CAGGCTCAAACCAGAGACAGA 59.654 52.381 0.00 0.00 46.44 3.41
2289 4434 2.027377 CAGGCTCAAACCAGAGACAGAT 60.027 50.000 0.00 0.00 46.44 2.90
2290 4435 2.235898 AGGCTCAAACCAGAGACAGATC 59.764 50.000 0.00 0.00 46.44 2.75
2291 4436 2.626840 GCTCAAACCAGAGACAGATCC 58.373 52.381 0.00 0.00 37.87 3.36
2292 4437 2.027745 GCTCAAACCAGAGACAGATCCA 60.028 50.000 0.00 0.00 37.87 3.41
2293 4438 3.557898 GCTCAAACCAGAGACAGATCCAA 60.558 47.826 0.00 0.00 37.87 3.53
2294 4439 4.841422 CTCAAACCAGAGACAGATCCAAT 58.159 43.478 0.00 0.00 37.87 3.16
2295 4440 5.246981 TCAAACCAGAGACAGATCCAATT 57.753 39.130 0.00 0.00 0.00 2.32
2296 4441 5.634118 TCAAACCAGAGACAGATCCAATTT 58.366 37.500 0.00 0.00 0.00 1.82
2297 4442 5.707298 TCAAACCAGAGACAGATCCAATTTC 59.293 40.000 0.00 0.00 0.00 2.17
2298 4443 4.227864 ACCAGAGACAGATCCAATTTCC 57.772 45.455 0.00 0.00 0.00 3.13
2299 4444 3.201290 CCAGAGACAGATCCAATTTCCG 58.799 50.000 0.00 0.00 0.00 4.30
2300 4445 3.369892 CCAGAGACAGATCCAATTTCCGT 60.370 47.826 0.00 0.00 0.00 4.69
2301 4446 4.256920 CAGAGACAGATCCAATTTCCGTT 58.743 43.478 0.00 0.00 0.00 4.44
2302 4447 4.697352 CAGAGACAGATCCAATTTCCGTTT 59.303 41.667 0.00 0.00 0.00 3.60
2303 4448 5.182001 CAGAGACAGATCCAATTTCCGTTTT 59.818 40.000 0.00 0.00 0.00 2.43
2304 4449 5.770162 AGAGACAGATCCAATTTCCGTTTTT 59.230 36.000 0.00 0.00 0.00 1.94
2305 4450 6.013842 AGACAGATCCAATTTCCGTTTTTC 57.986 37.500 0.00 0.00 0.00 2.29
2306 4451 5.770162 AGACAGATCCAATTTCCGTTTTTCT 59.230 36.000 0.00 0.00 0.00 2.52
2307 4452 6.940298 AGACAGATCCAATTTCCGTTTTTCTA 59.060 34.615 0.00 0.00 0.00 2.10
2308 4453 7.119846 AGACAGATCCAATTTCCGTTTTTCTAG 59.880 37.037 0.00 0.00 0.00 2.43
2309 4454 6.940298 ACAGATCCAATTTCCGTTTTTCTAGA 59.060 34.615 0.00 0.00 0.00 2.43
2310 4455 7.447238 ACAGATCCAATTTCCGTTTTTCTAGAA 59.553 33.333 0.00 0.00 0.00 2.10
2311 4456 8.462016 CAGATCCAATTTCCGTTTTTCTAGAAT 58.538 33.333 5.89 0.00 0.00 2.40
2312 4457 9.681062 AGATCCAATTTCCGTTTTTCTAGAATA 57.319 29.630 5.89 0.00 0.00 1.75
2339 4484 8.902540 AAAAAGGAAAAATTGGGTCTATGTTC 57.097 30.769 0.00 0.00 0.00 3.18
2340 4485 7.610580 AAAGGAAAAATTGGGTCTATGTTCA 57.389 32.000 0.00 0.00 0.00 3.18
2341 4486 7.610580 AAGGAAAAATTGGGTCTATGTTCAA 57.389 32.000 0.00 0.00 0.00 2.69
2342 4487 6.993079 AGGAAAAATTGGGTCTATGTTCAAC 58.007 36.000 0.00 0.00 0.00 3.18
2343 4488 5.861787 GGAAAAATTGGGTCTATGTTCAACG 59.138 40.000 0.00 0.00 0.00 4.10
2344 4489 5.385509 AAAATTGGGTCTATGTTCAACGG 57.614 39.130 0.00 0.00 0.00 4.44
2345 4490 3.992943 ATTGGGTCTATGTTCAACGGA 57.007 42.857 0.00 0.00 0.00 4.69
2346 4491 3.773418 TTGGGTCTATGTTCAACGGAA 57.227 42.857 0.00 0.00 0.00 4.30
2347 4492 3.773418 TGGGTCTATGTTCAACGGAAA 57.227 42.857 0.00 0.00 34.13 3.13
2348 4493 4.088056 TGGGTCTATGTTCAACGGAAAA 57.912 40.909 0.00 0.00 34.13 2.29
2349 4494 4.462133 TGGGTCTATGTTCAACGGAAAAA 58.538 39.130 0.00 0.00 34.13 1.94
2371 4516 3.949842 AATTCTCAAGAGCAAAAGGGC 57.050 42.857 0.00 0.00 0.00 5.19
2373 4518 1.901591 TCTCAAGAGCAAAAGGGCTG 58.098 50.000 0.00 0.00 45.99 4.85
2374 4519 1.421268 TCTCAAGAGCAAAAGGGCTGA 59.579 47.619 0.00 0.00 45.99 4.26
2375 4520 1.538950 CTCAAGAGCAAAAGGGCTGAC 59.461 52.381 0.00 0.00 45.99 3.51
2376 4521 0.600057 CAAGAGCAAAAGGGCTGACC 59.400 55.000 0.00 0.00 45.99 4.02
2377 4522 0.185901 AAGAGCAAAAGGGCTGACCA 59.814 50.000 0.47 0.00 45.99 4.02
2378 4523 0.538287 AGAGCAAAAGGGCTGACCAC 60.538 55.000 0.47 0.00 45.99 4.16
2379 4524 0.538287 GAGCAAAAGGGCTGACCACT 60.538 55.000 0.47 0.00 45.99 4.00
2380 4525 0.771127 AGCAAAAGGGCTGACCACTA 59.229 50.000 0.47 0.00 43.89 2.74
2381 4526 0.881796 GCAAAAGGGCTGACCACTAC 59.118 55.000 0.47 0.00 43.89 2.73
2382 4527 1.156736 CAAAAGGGCTGACCACTACG 58.843 55.000 0.47 0.00 43.89 3.51
2383 4528 0.763035 AAAAGGGCTGACCACTACGT 59.237 50.000 0.47 0.00 43.89 3.57
2384 4529 1.636148 AAAGGGCTGACCACTACGTA 58.364 50.000 0.47 0.00 43.89 3.57
2385 4530 1.183549 AAGGGCTGACCACTACGTAG 58.816 55.000 20.97 20.97 43.89 3.51
2386 4531 0.683504 AGGGCTGACCACTACGTAGG 60.684 60.000 25.63 13.03 43.89 3.18
2387 4532 0.682209 GGGCTGACCACTACGTAGGA 60.682 60.000 25.63 4.28 39.85 2.94
2388 4533 0.739561 GGCTGACCACTACGTAGGAG 59.260 60.000 25.63 18.02 35.26 3.69
2389 4534 0.100861 GCTGACCACTACGTAGGAGC 59.899 60.000 25.63 18.52 0.00 4.70
2390 4535 0.377554 CTGACCACTACGTAGGAGCG 59.622 60.000 25.63 12.16 37.94 5.03
2391 4536 1.063811 GACCACTACGTAGGAGCGC 59.936 63.158 25.63 0.00 34.88 5.92
2392 4537 1.375098 GACCACTACGTAGGAGCGCT 61.375 60.000 25.63 11.27 34.88 5.92
2393 4538 1.064296 CCACTACGTAGGAGCGCTG 59.936 63.158 25.63 13.53 34.88 5.18
2394 4539 1.064296 CACTACGTAGGAGCGCTGG 59.936 63.158 25.63 0.35 34.88 4.85
2395 4540 1.077930 ACTACGTAGGAGCGCTGGA 60.078 57.895 25.63 0.00 34.88 3.86
2396 4541 0.679002 ACTACGTAGGAGCGCTGGAA 60.679 55.000 25.63 0.00 34.88 3.53
2397 4542 0.029567 CTACGTAGGAGCGCTGGAAG 59.970 60.000 18.48 4.22 34.88 3.46
2408 4553 2.032528 CTGGAAGCCAAGCCGTCA 59.967 61.111 0.00 0.00 30.80 4.35
2409 4554 1.600636 CTGGAAGCCAAGCCGTCAA 60.601 57.895 0.00 0.00 30.80 3.18
2410 4555 1.152860 TGGAAGCCAAGCCGTCAAA 60.153 52.632 0.00 0.00 0.00 2.69
2411 4556 0.753479 TGGAAGCCAAGCCGTCAAAA 60.753 50.000 0.00 0.00 0.00 2.44
2412 4557 0.039165 GGAAGCCAAGCCGTCAAAAG 60.039 55.000 0.00 0.00 0.00 2.27
2413 4558 0.039165 GAAGCCAAGCCGTCAAAAGG 60.039 55.000 0.00 0.00 0.00 3.11
2414 4559 0.467290 AAGCCAAGCCGTCAAAAGGA 60.467 50.000 0.00 0.00 0.00 3.36
2415 4560 0.467290 AGCCAAGCCGTCAAAAGGAA 60.467 50.000 0.00 0.00 0.00 3.36
2416 4561 0.387565 GCCAAGCCGTCAAAAGGAAA 59.612 50.000 0.00 0.00 0.00 3.13
2417 4562 1.602920 GCCAAGCCGTCAAAAGGAAAG 60.603 52.381 0.00 0.00 0.00 2.62
2418 4563 1.000274 CCAAGCCGTCAAAAGGAAAGG 60.000 52.381 0.00 0.00 0.00 3.11
2419 4564 0.673985 AAGCCGTCAAAAGGAAAGGC 59.326 50.000 0.00 0.00 46.29 4.35
2420 4565 1.081442 GCCGTCAAAAGGAAAGGCG 60.081 57.895 0.00 0.00 40.34 5.52
2421 4566 1.512156 GCCGTCAAAAGGAAAGGCGA 61.512 55.000 0.00 0.00 40.34 5.54
2422 4567 0.517316 CCGTCAAAAGGAAAGGCGAG 59.483 55.000 0.00 0.00 0.00 5.03
2423 4568 0.110192 CGTCAAAAGGAAAGGCGAGC 60.110 55.000 0.00 0.00 0.00 5.03
2424 4569 0.951558 GTCAAAAGGAAAGGCGAGCA 59.048 50.000 0.00 0.00 0.00 4.26
2425 4570 1.068954 GTCAAAAGGAAAGGCGAGCAG 60.069 52.381 0.00 0.00 0.00 4.24
2435 4580 2.718107 GCGAGCAGCCCTTATTGC 59.282 61.111 0.00 0.00 40.81 3.56
2436 4581 2.114670 GCGAGCAGCCCTTATTGCA 61.115 57.895 0.00 0.00 42.67 4.08
2437 4582 1.656818 GCGAGCAGCCCTTATTGCAA 61.657 55.000 0.00 0.00 42.67 4.08
2438 4583 1.027357 CGAGCAGCCCTTATTGCAAT 58.973 50.000 17.56 17.56 42.67 3.56
2439 4584 2.221169 CGAGCAGCCCTTATTGCAATA 58.779 47.619 15.21 15.21 42.67 1.90
2440 4585 2.225019 CGAGCAGCCCTTATTGCAATAG 59.775 50.000 18.13 12.51 42.67 1.73
2441 4586 1.959282 AGCAGCCCTTATTGCAATAGC 59.041 47.619 18.13 17.60 42.67 2.97
2456 4601 5.986004 GCAATAGCAAACGACCTACTTAT 57.014 39.130 0.00 0.00 41.58 1.73
2458 4603 7.473027 GCAATAGCAAACGACCTACTTATAA 57.527 36.000 0.00 0.00 41.58 0.98
2459 4604 7.342942 GCAATAGCAAACGACCTACTTATAAC 58.657 38.462 0.00 0.00 41.58 1.89
2460 4605 7.517893 GCAATAGCAAACGACCTACTTATAACC 60.518 40.741 0.00 0.00 41.58 2.85
2461 4606 4.763073 AGCAAACGACCTACTTATAACCC 58.237 43.478 0.00 0.00 0.00 4.11
2462 4607 4.468868 AGCAAACGACCTACTTATAACCCT 59.531 41.667 0.00 0.00 0.00 4.34
2463 4608 5.658190 AGCAAACGACCTACTTATAACCCTA 59.342 40.000 0.00 0.00 0.00 3.53
2464 4609 6.325804 AGCAAACGACCTACTTATAACCCTAT 59.674 38.462 0.00 0.00 0.00 2.57
2465 4610 6.988580 GCAAACGACCTACTTATAACCCTATT 59.011 38.462 0.00 0.00 0.00 1.73
2466 4611 7.496920 GCAAACGACCTACTTATAACCCTATTT 59.503 37.037 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 0.038801 GGTTTGGCTGCTGCTTCTTC 60.039 55.000 15.64 0.00 39.59 2.87
11 12 0.756442 TGGTTTGGCTGCTGCTTCTT 60.756 50.000 15.64 0.00 39.59 2.52
171 202 7.009540 GTGTTGCATTGTCCATTTCTTAATAGC 59.990 37.037 0.00 0.00 0.00 2.97
172 203 8.028354 TGTGTTGCATTGTCCATTTCTTAATAG 58.972 33.333 0.00 0.00 0.00 1.73
191 222 6.511767 GCATATACTACATCAGGTTGTGTTGC 60.512 42.308 0.00 0.00 36.16 4.17
214 245 7.558807 AGACAATGAATCAATATCTTCCTTGCA 59.441 33.333 0.00 0.00 33.16 4.08
239 271 2.233186 TCACTCTGATCTGGTTCTGCAG 59.767 50.000 7.63 7.63 0.00 4.41
304 336 3.055458 TGACAAAGAGATCGCCATAACCA 60.055 43.478 0.00 0.00 0.00 3.67
344 379 5.644206 CCTTAGCAAACTCTTTTCCTCCTAC 59.356 44.000 0.00 0.00 0.00 3.18
363 398 1.590932 CACCTAGCATGCTGCCTTAG 58.409 55.000 30.42 18.19 46.52 2.18
455 491 9.157259 CTTTGTTGCTGCAAAATTATTAACAAC 57.843 29.630 17.80 0.82 37.82 3.32
485 536 2.535574 GCAAGCAGAAAACGAAACAAGG 59.464 45.455 0.00 0.00 0.00 3.61
494 545 3.365820 CGGAATCAATGCAAGCAGAAAAC 59.634 43.478 0.00 0.00 0.00 2.43
682 752 2.166870 CAGAGAGTGAGAGAGCATGCTT 59.833 50.000 23.61 11.87 0.00 3.91
829 2913 5.916883 CACTACATGCAAAAGAAACTTCTGG 59.083 40.000 0.00 0.00 37.65 3.86
995 3106 6.214615 TGTTCTGTTCCCTATCCTCATAAACA 59.785 38.462 0.00 0.00 0.00 2.83
1011 3128 2.222911 GCAGCAAGACTCTGTTCTGTTC 59.777 50.000 0.00 0.00 34.21 3.18
1142 3264 1.406539 CTTCCTGCACCCATGTTATGC 59.593 52.381 6.21 6.21 39.88 3.14
1224 3352 0.038892 CTTCGTCTTCGTTTCCGGGA 60.039 55.000 0.00 0.00 38.33 5.14
1227 3355 0.708918 GAGCTTCGTCTTCGTTTCCG 59.291 55.000 0.00 0.00 38.33 4.30
1477 3605 4.507512 GGGAAGAAACCCTCAGAGATGTTT 60.508 45.833 14.47 14.47 45.90 2.83
1578 3706 8.731275 ATTAAGTACATGACCAAATCATCGAA 57.269 30.769 0.00 0.00 45.52 3.71
1581 3709 9.722056 GTCAATTAAGTACATGACCAAATCATC 57.278 33.333 0.00 0.00 45.52 2.92
1722 3854 0.248539 AAGCCTCGTCGATTCGCTAC 60.249 55.000 10.82 0.00 0.00 3.58
1865 3998 4.393680 ACTTGATAGCGTCGCCAATTTTTA 59.606 37.500 14.86 0.00 0.00 1.52
1873 4006 1.084370 AGCAACTTGATAGCGTCGCC 61.084 55.000 14.86 0.00 0.00 5.54
1960 4093 7.608761 TGCTTTTTACTAATACCTCCAATTCGT 59.391 33.333 0.00 0.00 0.00 3.85
1961 4094 7.981142 TGCTTTTTACTAATACCTCCAATTCG 58.019 34.615 0.00 0.00 0.00 3.34
1967 4100 7.064728 CACTGTCTGCTTTTTACTAATACCTCC 59.935 40.741 0.00 0.00 0.00 4.30
2073 4218 2.106477 TTCACACACACAGAGCACAA 57.894 45.000 0.00 0.00 0.00 3.33
2099 4244 7.980742 AAAGAAGTTATTTCAACAACGTTCC 57.019 32.000 0.00 0.00 38.31 3.62
2103 4248 7.801783 GGAGGTAAAGAAGTTATTTCAACAACG 59.198 37.037 0.00 0.00 38.31 4.10
2104 4249 8.080417 GGGAGGTAAAGAAGTTATTTCAACAAC 58.920 37.037 0.00 0.00 38.31 3.32
2105 4250 7.040961 CGGGAGGTAAAGAAGTTATTTCAACAA 60.041 37.037 0.00 0.00 38.31 2.83
2106 4251 6.428771 CGGGAGGTAAAGAAGTTATTTCAACA 59.571 38.462 0.00 0.00 38.31 3.33
2107 4252 6.429078 ACGGGAGGTAAAGAAGTTATTTCAAC 59.571 38.462 0.00 0.00 38.31 3.18
2108 4253 6.536447 ACGGGAGGTAAAGAAGTTATTTCAA 58.464 36.000 0.00 0.00 38.31 2.69
2109 4254 6.117975 ACGGGAGGTAAAGAAGTTATTTCA 57.882 37.500 0.00 0.00 38.31 2.69
2110 4255 8.552083 TTTACGGGAGGTAAAGAAGTTATTTC 57.448 34.615 0.00 0.00 44.15 2.17
2121 4266 6.319405 GCATAAAGGATTTTACGGGAGGTAAA 59.681 38.462 0.00 0.00 46.58 2.01
2122 4267 5.824097 GCATAAAGGATTTTACGGGAGGTAA 59.176 40.000 0.00 0.00 40.09 2.85
2123 4268 5.370679 GCATAAAGGATTTTACGGGAGGTA 58.629 41.667 0.00 0.00 40.09 3.08
2124 4269 4.204799 GCATAAAGGATTTTACGGGAGGT 58.795 43.478 0.00 0.00 40.09 3.85
2125 4270 3.568430 GGCATAAAGGATTTTACGGGAGG 59.432 47.826 0.00 0.00 40.09 4.30
2126 4271 4.275936 CAGGCATAAAGGATTTTACGGGAG 59.724 45.833 0.00 0.00 40.09 4.30
2127 4272 4.080243 TCAGGCATAAAGGATTTTACGGGA 60.080 41.667 0.00 0.00 40.09 5.14
2128 4273 4.204012 TCAGGCATAAAGGATTTTACGGG 58.796 43.478 0.00 0.00 40.09 5.28
2129 4274 6.391227 AATCAGGCATAAAGGATTTTACGG 57.609 37.500 0.00 0.00 40.09 4.02
2130 4275 7.479980 TGAAATCAGGCATAAAGGATTTTACG 58.520 34.615 0.00 0.00 39.37 3.18
2131 4276 8.862550 CTGAAATCAGGCATAAAGGATTTTAC 57.137 34.615 2.38 0.00 39.37 2.01
2181 4326 9.892130 CCCGAAAAGCTAATTATAGAATAGGAT 57.108 33.333 0.00 0.00 0.00 3.24
2182 4327 9.096823 TCCCGAAAAGCTAATTATAGAATAGGA 57.903 33.333 0.00 0.00 0.00 2.94
2183 4328 9.720769 TTCCCGAAAAGCTAATTATAGAATAGG 57.279 33.333 0.00 0.00 0.00 2.57
2189 4334 9.678941 GGAAATTTCCCGAAAAGCTAATTATAG 57.321 33.333 24.44 0.00 41.62 1.31
2198 4343 8.399815 GTTCGTTTGGAAATTTCCCGAAAAGC 62.400 42.308 32.71 23.43 44.26 3.51
2199 4344 5.051307 GTTCGTTTGGAAATTTCCCGAAAAG 60.051 40.000 32.71 26.66 44.26 2.27
2200 4345 4.804665 GTTCGTTTGGAAATTTCCCGAAAA 59.195 37.500 32.71 24.45 44.26 2.29
2201 4346 4.142227 TGTTCGTTTGGAAATTTCCCGAAA 60.142 37.500 32.71 24.97 44.26 3.46
2204 4349 8.839728 TGAAATTGTTCGTTTGGAAATTTCCCG 61.840 37.037 30.04 25.37 39.21 5.14
2205 4350 6.258947 TGAAATTGTTCGTTTGGAAATTTCCC 59.741 34.615 30.04 16.31 39.21 3.97
2206 4351 7.240414 TGAAATTGTTCGTTTGGAAATTTCC 57.760 32.000 27.39 27.39 39.21 3.13
2207 4352 7.369542 CGTTGAAATTGTTCGTTTGGAAATTTC 59.630 33.333 9.83 9.83 39.80 2.17
2208 4353 7.063544 TCGTTGAAATTGTTCGTTTGGAAATTT 59.936 29.630 0.00 0.00 36.14 1.82
2209 4354 6.531948 TCGTTGAAATTGTTCGTTTGGAAATT 59.468 30.769 0.00 0.00 36.14 1.82
2210 4355 6.037098 TCGTTGAAATTGTTCGTTTGGAAAT 58.963 32.000 0.00 0.00 36.14 2.17
2211 4356 5.399858 TCGTTGAAATTGTTCGTTTGGAAA 58.600 33.333 0.00 0.00 36.14 3.13
2212 4357 4.982999 TCGTTGAAATTGTTCGTTTGGAA 58.017 34.783 0.00 0.00 36.46 3.53
2213 4358 4.617808 TCGTTGAAATTGTTCGTTTGGA 57.382 36.364 0.00 0.00 36.46 3.53
2214 4359 5.688348 TTTCGTTGAAATTGTTCGTTTGG 57.312 34.783 0.00 0.00 36.46 3.28
2216 4361 9.256715 GAAAAATTTCGTTGAAATTGTTCGTTT 57.743 25.926 22.38 16.03 46.65 3.60
2217 4362 8.800096 GAAAAATTTCGTTGAAATTGTTCGTT 57.200 26.923 22.38 10.60 46.65 3.85
2225 4370 9.364989 TGAGAAACTGAAAAATTTCGTTGAAAT 57.635 25.926 13.02 0.00 43.07 2.17
2226 4371 8.749841 TGAGAAACTGAAAAATTTCGTTGAAA 57.250 26.923 13.02 0.00 39.36 2.69
2227 4372 8.925161 ATGAGAAACTGAAAAATTTCGTTGAA 57.075 26.923 13.02 4.85 39.36 2.69
2228 4373 8.925161 AATGAGAAACTGAAAAATTTCGTTGA 57.075 26.923 13.02 3.99 39.36 3.18
2229 4374 9.971744 AAAATGAGAAACTGAAAAATTTCGTTG 57.028 25.926 13.02 5.08 39.36 4.10
2236 4381 9.725019 GGGGAATAAAATGAGAAACTGAAAAAT 57.275 29.630 0.00 0.00 0.00 1.82
2237 4382 7.870445 CGGGGAATAAAATGAGAAACTGAAAAA 59.130 33.333 0.00 0.00 0.00 1.94
2238 4383 7.375053 CGGGGAATAAAATGAGAAACTGAAAA 58.625 34.615 0.00 0.00 0.00 2.29
2239 4384 6.571537 GCGGGGAATAAAATGAGAAACTGAAA 60.572 38.462 0.00 0.00 0.00 2.69
2240 4385 5.105917 GCGGGGAATAAAATGAGAAACTGAA 60.106 40.000 0.00 0.00 0.00 3.02
2241 4386 4.398044 GCGGGGAATAAAATGAGAAACTGA 59.602 41.667 0.00 0.00 0.00 3.41
2242 4387 4.399303 AGCGGGGAATAAAATGAGAAACTG 59.601 41.667 0.00 0.00 0.00 3.16
2243 4388 4.399303 CAGCGGGGAATAAAATGAGAAACT 59.601 41.667 0.00 0.00 0.00 2.66
2244 4389 4.672409 CAGCGGGGAATAAAATGAGAAAC 58.328 43.478 0.00 0.00 0.00 2.78
2245 4390 3.130340 GCAGCGGGGAATAAAATGAGAAA 59.870 43.478 0.00 0.00 0.00 2.52
2246 4391 2.687935 GCAGCGGGGAATAAAATGAGAA 59.312 45.455 0.00 0.00 0.00 2.87
2247 4392 2.297701 GCAGCGGGGAATAAAATGAGA 58.702 47.619 0.00 0.00 0.00 3.27
2248 4393 1.338020 GGCAGCGGGGAATAAAATGAG 59.662 52.381 0.00 0.00 0.00 2.90
2249 4394 1.341482 TGGCAGCGGGGAATAAAATGA 60.341 47.619 0.00 0.00 0.00 2.57
2250 4395 1.067516 CTGGCAGCGGGGAATAAAATG 59.932 52.381 0.00 0.00 0.00 2.32
2251 4396 1.402787 CTGGCAGCGGGGAATAAAAT 58.597 50.000 0.00 0.00 0.00 1.82
2252 4397 0.682855 CCTGGCAGCGGGGAATAAAA 60.683 55.000 9.56 0.00 0.00 1.52
2253 4398 1.077068 CCTGGCAGCGGGGAATAAA 60.077 57.895 9.56 0.00 0.00 1.40
2254 4399 2.595095 CCTGGCAGCGGGGAATAA 59.405 61.111 9.56 0.00 0.00 1.40
2255 4400 4.189580 GCCTGGCAGCGGGGAATA 62.190 66.667 15.17 0.00 0.00 1.75
2261 4406 3.741476 GTTTGAGCCTGGCAGCGG 61.741 66.667 22.65 0.00 38.01 5.52
2262 4407 3.741476 GGTTTGAGCCTGGCAGCG 61.741 66.667 22.65 3.65 38.01 5.18
2263 4408 2.598394 TGGTTTGAGCCTGGCAGC 60.598 61.111 22.65 12.94 0.00 5.25
2264 4409 0.959372 CTCTGGTTTGAGCCTGGCAG 60.959 60.000 22.65 7.75 0.00 4.85
2265 4410 1.073722 CTCTGGTTTGAGCCTGGCA 59.926 57.895 22.65 0.00 0.00 4.92
2266 4411 0.957888 GTCTCTGGTTTGAGCCTGGC 60.958 60.000 11.65 11.65 34.29 4.85
2267 4412 0.397941 TGTCTCTGGTTTGAGCCTGG 59.602 55.000 0.00 0.00 34.29 4.45
2268 4413 1.345741 TCTGTCTCTGGTTTGAGCCTG 59.654 52.381 0.00 0.00 34.29 4.85
2269 4414 1.722034 TCTGTCTCTGGTTTGAGCCT 58.278 50.000 0.00 0.00 34.29 4.58
2270 4415 2.626840 GATCTGTCTCTGGTTTGAGCC 58.373 52.381 0.00 0.00 34.29 4.70
2271 4416 2.027745 TGGATCTGTCTCTGGTTTGAGC 60.028 50.000 0.00 0.00 34.29 4.26
2272 4417 3.969287 TGGATCTGTCTCTGGTTTGAG 57.031 47.619 0.00 0.00 35.52 3.02
2273 4418 4.916041 ATTGGATCTGTCTCTGGTTTGA 57.084 40.909 0.00 0.00 0.00 2.69
2274 4419 5.105997 GGAAATTGGATCTGTCTCTGGTTTG 60.106 44.000 0.00 0.00 0.00 2.93
2275 4420 5.012893 GGAAATTGGATCTGTCTCTGGTTT 58.987 41.667 0.00 0.00 0.00 3.27
2276 4421 4.593956 GGAAATTGGATCTGTCTCTGGTT 58.406 43.478 0.00 0.00 0.00 3.67
2277 4422 3.369892 CGGAAATTGGATCTGTCTCTGGT 60.370 47.826 0.00 0.00 0.00 4.00
2278 4423 3.201290 CGGAAATTGGATCTGTCTCTGG 58.799 50.000 0.00 0.00 0.00 3.86
2279 4424 3.866651 ACGGAAATTGGATCTGTCTCTG 58.133 45.455 0.00 0.00 30.63 3.35
2280 4425 4.559862 AACGGAAATTGGATCTGTCTCT 57.440 40.909 0.00 0.00 35.38 3.10
2281 4426 5.629079 AAAACGGAAATTGGATCTGTCTC 57.371 39.130 0.00 0.00 35.38 3.36
2282 4427 5.770162 AGAAAAACGGAAATTGGATCTGTCT 59.230 36.000 0.00 0.00 35.38 3.41
2283 4428 6.013842 AGAAAAACGGAAATTGGATCTGTC 57.986 37.500 0.00 0.00 35.38 3.51
2284 4429 6.940298 TCTAGAAAAACGGAAATTGGATCTGT 59.060 34.615 0.00 0.00 38.02 3.41
2285 4430 7.377766 TCTAGAAAAACGGAAATTGGATCTG 57.622 36.000 0.00 0.00 0.00 2.90
2286 4431 7.996098 TTCTAGAAAAACGGAAATTGGATCT 57.004 32.000 1.68 0.00 0.00 2.75
2314 4459 8.490311 TGAACATAGACCCAATTTTTCCTTTTT 58.510 29.630 0.00 0.00 0.00 1.94
2315 4460 8.028652 TGAACATAGACCCAATTTTTCCTTTT 57.971 30.769 0.00 0.00 0.00 2.27
2316 4461 7.610580 TGAACATAGACCCAATTTTTCCTTT 57.389 32.000 0.00 0.00 0.00 3.11
2317 4462 7.441836 GTTGAACATAGACCCAATTTTTCCTT 58.558 34.615 0.00 0.00 0.00 3.36
2318 4463 6.294508 CGTTGAACATAGACCCAATTTTTCCT 60.295 38.462 0.00 0.00 0.00 3.36
2319 4464 5.861787 CGTTGAACATAGACCCAATTTTTCC 59.138 40.000 0.00 0.00 0.00 3.13
2320 4465 5.861787 CCGTTGAACATAGACCCAATTTTTC 59.138 40.000 0.00 0.00 0.00 2.29
2321 4466 5.536916 TCCGTTGAACATAGACCCAATTTTT 59.463 36.000 0.00 0.00 0.00 1.94
2322 4467 5.074115 TCCGTTGAACATAGACCCAATTTT 58.926 37.500 0.00 0.00 0.00 1.82
2323 4468 4.658063 TCCGTTGAACATAGACCCAATTT 58.342 39.130 0.00 0.00 0.00 1.82
2324 4469 4.295141 TCCGTTGAACATAGACCCAATT 57.705 40.909 0.00 0.00 0.00 2.32
2325 4470 3.992943 TCCGTTGAACATAGACCCAAT 57.007 42.857 0.00 0.00 0.00 3.16
2326 4471 3.773418 TTCCGTTGAACATAGACCCAA 57.227 42.857 0.00 0.00 0.00 4.12
2327 4472 3.773418 TTTCCGTTGAACATAGACCCA 57.227 42.857 0.00 0.00 0.00 4.51
2348 4493 5.059161 GCCCTTTTGCTCTTGAGAATTTTT 58.941 37.500 1.30 0.00 0.00 1.94
2349 4494 4.346127 AGCCCTTTTGCTCTTGAGAATTTT 59.654 37.500 1.30 0.00 36.75 1.82
2350 4495 3.899980 AGCCCTTTTGCTCTTGAGAATTT 59.100 39.130 1.30 0.00 36.75 1.82
2351 4496 3.257624 CAGCCCTTTTGCTCTTGAGAATT 59.742 43.478 1.30 0.00 40.32 2.17
2352 4497 2.824341 CAGCCCTTTTGCTCTTGAGAAT 59.176 45.455 1.30 0.00 40.32 2.40
2353 4498 2.158623 TCAGCCCTTTTGCTCTTGAGAA 60.159 45.455 1.30 0.00 40.32 2.87
2354 4499 1.421268 TCAGCCCTTTTGCTCTTGAGA 59.579 47.619 1.30 0.00 40.32 3.27
2355 4500 1.538950 GTCAGCCCTTTTGCTCTTGAG 59.461 52.381 0.00 0.00 40.32 3.02
2356 4501 1.609208 GTCAGCCCTTTTGCTCTTGA 58.391 50.000 0.00 0.00 40.32 3.02
2357 4502 0.600057 GGTCAGCCCTTTTGCTCTTG 59.400 55.000 0.00 0.00 40.32 3.02
2358 4503 0.185901 TGGTCAGCCCTTTTGCTCTT 59.814 50.000 0.00 0.00 40.32 2.85
2359 4504 0.538287 GTGGTCAGCCCTTTTGCTCT 60.538 55.000 0.00 0.00 40.32 4.09
2360 4505 0.538287 AGTGGTCAGCCCTTTTGCTC 60.538 55.000 0.00 0.00 40.32 4.26
2361 4506 0.771127 TAGTGGTCAGCCCTTTTGCT 59.229 50.000 0.00 0.00 44.00 3.91
2362 4507 0.881796 GTAGTGGTCAGCCCTTTTGC 59.118 55.000 0.00 0.00 0.00 3.68
2363 4508 1.156736 CGTAGTGGTCAGCCCTTTTG 58.843 55.000 0.00 0.00 0.00 2.44
2364 4509 0.763035 ACGTAGTGGTCAGCCCTTTT 59.237 50.000 0.00 0.00 42.51 2.27
2365 4510 1.549170 CTACGTAGTGGTCAGCCCTTT 59.451 52.381 14.66 0.00 45.73 3.11
2366 4511 1.183549 CTACGTAGTGGTCAGCCCTT 58.816 55.000 14.66 0.00 45.73 3.95
2367 4512 0.683504 CCTACGTAGTGGTCAGCCCT 60.684 60.000 20.73 0.00 45.73 5.19
2368 4513 0.682209 TCCTACGTAGTGGTCAGCCC 60.682 60.000 20.73 0.00 45.73 5.19
2369 4514 0.739561 CTCCTACGTAGTGGTCAGCC 59.260 60.000 20.73 0.00 45.73 4.85
2370 4515 0.100861 GCTCCTACGTAGTGGTCAGC 59.899 60.000 20.73 14.62 45.73 4.26
2371 4516 0.377554 CGCTCCTACGTAGTGGTCAG 59.622 60.000 20.73 9.43 45.73 3.51
2372 4517 1.651240 GCGCTCCTACGTAGTGGTCA 61.651 60.000 20.73 0.00 45.73 4.02
2373 4518 1.063811 GCGCTCCTACGTAGTGGTC 59.936 63.158 20.73 6.58 45.73 4.02
2374 4519 1.378250 AGCGCTCCTACGTAGTGGT 60.378 57.895 20.73 8.94 45.73 4.16
2375 4520 1.064296 CAGCGCTCCTACGTAGTGG 59.936 63.158 20.73 13.44 45.73 4.00
2376 4521 1.064296 CCAGCGCTCCTACGTAGTG 59.936 63.158 20.73 13.83 45.73 2.74
2378 4523 0.029567 CTTCCAGCGCTCCTACGTAG 59.970 60.000 15.92 15.92 34.88 3.51
2379 4524 2.001361 GCTTCCAGCGCTCCTACGTA 62.001 60.000 7.13 0.00 34.88 3.57
2380 4525 2.885861 CTTCCAGCGCTCCTACGT 59.114 61.111 7.13 0.00 34.88 3.57
2381 4526 2.583593 GCTTCCAGCGCTCCTACG 60.584 66.667 7.13 0.00 0.00 3.51
2382 4527 2.202946 GGCTTCCAGCGCTCCTAC 60.203 66.667 7.13 0.00 43.62 3.18
2383 4528 2.244117 CTTGGCTTCCAGCGCTCCTA 62.244 60.000 7.13 0.77 43.62 2.94
2384 4529 3.618780 CTTGGCTTCCAGCGCTCCT 62.619 63.158 7.13 0.00 43.62 3.69
2385 4530 3.130160 CTTGGCTTCCAGCGCTCC 61.130 66.667 7.13 5.93 43.62 4.70
2386 4531 3.808656 GCTTGGCTTCCAGCGCTC 61.809 66.667 7.13 0.00 43.62 5.03
2390 4535 3.435186 GACGGCTTGGCTTCCAGC 61.435 66.667 0.00 0.00 41.46 4.85
2391 4536 1.172180 TTTGACGGCTTGGCTTCCAG 61.172 55.000 0.00 0.00 33.81 3.86
2392 4537 0.753479 TTTTGACGGCTTGGCTTCCA 60.753 50.000 0.00 0.00 0.00 3.53
2393 4538 0.039165 CTTTTGACGGCTTGGCTTCC 60.039 55.000 0.00 0.00 0.00 3.46
2394 4539 0.039165 CCTTTTGACGGCTTGGCTTC 60.039 55.000 0.00 0.00 0.00 3.86
2395 4540 0.467290 TCCTTTTGACGGCTTGGCTT 60.467 50.000 0.00 0.00 0.00 4.35
2396 4541 0.467290 TTCCTTTTGACGGCTTGGCT 60.467 50.000 0.00 0.00 0.00 4.75
2397 4542 0.387565 TTTCCTTTTGACGGCTTGGC 59.612 50.000 0.00 0.00 0.00 4.52
2398 4543 1.000274 CCTTTCCTTTTGACGGCTTGG 60.000 52.381 0.00 0.00 0.00 3.61
2399 4544 1.602920 GCCTTTCCTTTTGACGGCTTG 60.603 52.381 0.00 0.00 37.03 4.01
2400 4545 0.673985 GCCTTTCCTTTTGACGGCTT 59.326 50.000 0.00 0.00 37.03 4.35
2401 4546 1.515521 CGCCTTTCCTTTTGACGGCT 61.516 55.000 0.00 0.00 37.56 5.52
2402 4547 1.081442 CGCCTTTCCTTTTGACGGC 60.081 57.895 0.00 0.00 36.77 5.68
2403 4548 0.517316 CTCGCCTTTCCTTTTGACGG 59.483 55.000 0.00 0.00 0.00 4.79
2404 4549 0.110192 GCTCGCCTTTCCTTTTGACG 60.110 55.000 0.00 0.00 0.00 4.35
2405 4550 0.951558 TGCTCGCCTTTCCTTTTGAC 59.048 50.000 0.00 0.00 0.00 3.18
2406 4551 1.238439 CTGCTCGCCTTTCCTTTTGA 58.762 50.000 0.00 0.00 0.00 2.69
2407 4552 0.387750 GCTGCTCGCCTTTCCTTTTG 60.388 55.000 0.00 0.00 0.00 2.44
2408 4553 1.959848 GCTGCTCGCCTTTCCTTTT 59.040 52.632 0.00 0.00 0.00 2.27
2409 4554 3.673599 GCTGCTCGCCTTTCCTTT 58.326 55.556 0.00 0.00 0.00 3.11
2418 4563 1.656818 TTGCAATAAGGGCTGCTCGC 61.657 55.000 0.00 0.00 39.38 5.03
2419 4564 1.027357 ATTGCAATAAGGGCTGCTCG 58.973 50.000 11.02 0.00 39.38 5.03
2420 4565 2.030451 GCTATTGCAATAAGGGCTGCTC 60.030 50.000 19.32 0.00 39.38 4.26
2421 4566 1.959282 GCTATTGCAATAAGGGCTGCT 59.041 47.619 19.32 0.00 39.38 4.24
2422 4567 2.428888 GCTATTGCAATAAGGGCTGC 57.571 50.000 19.32 14.01 39.41 5.25
2434 4579 5.986004 ATAAGTAGGTCGTTTGCTATTGC 57.014 39.130 0.00 0.00 40.20 3.56
2435 4580 7.042254 GGGTTATAAGTAGGTCGTTTGCTATTG 60.042 40.741 0.00 0.00 0.00 1.90
2436 4581 6.988580 GGGTTATAAGTAGGTCGTTTGCTATT 59.011 38.462 0.00 0.00 0.00 1.73
2437 4582 6.325804 AGGGTTATAAGTAGGTCGTTTGCTAT 59.674 38.462 0.00 0.00 0.00 2.97
2438 4583 5.658190 AGGGTTATAAGTAGGTCGTTTGCTA 59.342 40.000 0.00 0.00 0.00 3.49
2439 4584 4.468868 AGGGTTATAAGTAGGTCGTTTGCT 59.531 41.667 0.00 0.00 0.00 3.91
2440 4585 4.763073 AGGGTTATAAGTAGGTCGTTTGC 58.237 43.478 0.00 0.00 0.00 3.68
2441 4586 8.953368 AAATAGGGTTATAAGTAGGTCGTTTG 57.047 34.615 0.00 0.00 0.00 2.93


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

AutoCloner maintained by Alex Coulton.