Multiple sequence alignment - TraesCS2B01G182000

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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 TraesCS2B01G182000 chr2B 100.000 2600 0 0 1 2600 157042650 157040051 0.000000e+00 4802
1 TraesCS2B01G182000 chr2B 86.040 1096 80 41 802 1862 156607110 156606053 0.000000e+00 1109
2 TraesCS2B01G182000 chr2B 84.091 220 22 8 2047 2265 156605908 156605701 1.580000e-47 200
3 TraesCS2B01G182000 chr2A 89.247 1674 95 28 236 1865 103141424 103139792 0.000000e+00 2015
4 TraesCS2B01G182000 chr2A 85.900 922 67 39 802 1673 103113203 103112295 0.000000e+00 924
5 TraesCS2B01G182000 chr2A 92.226 283 18 4 2174 2453 103139458 103139177 5.210000e-107 398
6 TraesCS2B01G182000 chr2A 95.882 170 7 0 2008 2177 103139739 103139570 2.550000e-70 276
7 TraesCS2B01G182000 chr2A 86.826 167 21 1 73 238 175388065 175387899 4.420000e-43 185
8 TraesCS2B01G182000 chr2A 85.135 148 14 4 2118 2265 103111935 103111796 7.500000e-31 145
9 TraesCS2B01G182000 chr2A 89.873 79 7 1 2509 2586 681787 681709 1.650000e-17 100
10 TraesCS2B01G182000 chr2D 93.033 1378 62 13 503 1869 106871174 106869820 0.000000e+00 1982
11 TraesCS2B01G182000 chr2D 85.934 846 69 16 802 1607 106650612 106649777 0.000000e+00 857
12 TraesCS2B01G182000 chr2D 90.495 505 23 8 2010 2502 106869731 106869240 0.000000e+00 643
13 TraesCS2B01G182000 chr2D 91.270 252 13 7 277 525 106871424 106871179 4.150000e-88 335
14 TraesCS2B01G182000 chr2D 87.500 168 21 0 66 233 85861869 85861702 7.340000e-46 195
15 TraesCS2B01G182000 chr2D 89.600 125 7 3 1722 1841 106649730 106649607 1.250000e-33 154
16 TraesCS2B01G182000 chr1D 88.272 162 19 0 74 235 445096406 445096567 7.340000e-46 195
17 TraesCS2B01G182000 chr1D 85.542 166 22 2 74 238 472292506 472292342 3.440000e-39 172
18 TraesCS2B01G182000 chr1B 87.273 165 19 2 74 238 661890146 661889984 1.230000e-43 187
19 TraesCS2B01G182000 chr5B 86.310 168 22 1 73 239 699779411 699779244 5.720000e-42 182
20 TraesCS2B01G182000 chr5B 92.000 75 4 2 2511 2585 282397004 282396932 1.270000e-18 104
21 TraesCS2B01G182000 chr3A 87.037 162 20 1 74 234 576202429 576202268 5.720000e-42 182
22 TraesCS2B01G182000 chrUn 85.714 168 19 3 75 238 423039162 423038996 3.440000e-39 172
23 TraesCS2B01G182000 chr4B 83.815 173 24 3 70 238 609325507 609325679 7.450000e-36 161
24 TraesCS2B01G182000 chr4B 95.349 86 3 1 2510 2595 500285369 500285285 4.510000e-28 135
25 TraesCS2B01G182000 chr4D 94.521 73 3 1 2514 2586 77288897 77288826 7.610000e-21 111
26 TraesCS2B01G182000 chr4D 93.421 76 3 2 2510 2585 507997914 507997841 7.610000e-21 111
27 TraesCS2B01G182000 chr6D 93.056 72 4 1 2514 2585 61575993 61575923 1.270000e-18 104
28 TraesCS2B01G182000 chr5D 93.056 72 4 1 2514 2585 23890859 23890929 1.270000e-18 104
29 TraesCS2B01G182000 chr1A 93.151 73 1 4 2514 2585 61286007 61286076 1.270000e-18 104
30 TraesCS2B01G182000 chr3D 90.789 76 5 2 2510 2585 606573198 606573271 1.650000e-17 100


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 TraesCS2B01G182000 chr2B 157040051 157042650 2599 True 4802.000000 4802 100.000000 1 2600 1 chr2B.!!$R1 2599
1 TraesCS2B01G182000 chr2B 156605701 156607110 1409 True 654.500000 1109 85.065500 802 2265 2 chr2B.!!$R2 1463
2 TraesCS2B01G182000 chr2A 103139177 103141424 2247 True 896.333333 2015 92.451667 236 2453 3 chr2A.!!$R4 2217
3 TraesCS2B01G182000 chr2A 103111796 103113203 1407 True 534.500000 924 85.517500 802 2265 2 chr2A.!!$R3 1463
4 TraesCS2B01G182000 chr2D 106869240 106871424 2184 True 986.666667 1982 91.599333 277 2502 3 chr2D.!!$R3 2225
5 TraesCS2B01G182000 chr2D 106649607 106650612 1005 True 505.500000 857 87.767000 802 1841 2 chr2D.!!$R2 1039

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
174 175 0.034337 GTTTGTGGACCACCTAGCGA 59.966 55.0 22.00 0.0 37.04 4.93 F
202 203 0.179000 AATACTGGAGCGAGCCCAAG 59.821 55.0 6.71 0.0 32.53 3.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1235 1326 0.107606 CTCGTCCTCCTCCTCTTCGA 60.108 60.0 0.0 0.0 0.0 3.71 R
1994 2184 0.247736 CGTCTTTCACAGGGAGAGGG 59.752 60.0 0.0 0.0 0.0 4.30 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
33 34 9.547753 AATAGCGTCAAACAATATTACATCTCT 57.452 29.630 0.00 0.00 0.00 3.10
64 65 8.609478 TTTTTGTTTTGAGTTAACGACATCTC 57.391 30.769 0.00 0.00 0.00 2.75
65 66 7.548196 TTTGTTTTGAGTTAACGACATCTCT 57.452 32.000 0.00 0.00 0.00 3.10
66 67 8.651391 TTTGTTTTGAGTTAACGACATCTCTA 57.349 30.769 0.00 0.00 0.00 2.43
67 68 8.827177 TTGTTTTGAGTTAACGACATCTCTAT 57.173 30.769 0.00 0.00 0.00 1.98
68 69 8.827177 TGTTTTGAGTTAACGACATCTCTATT 57.173 30.769 0.00 0.00 0.00 1.73
69 70 8.922676 TGTTTTGAGTTAACGACATCTCTATTC 58.077 33.333 0.00 0.00 0.00 1.75
70 71 9.141400 GTTTTGAGTTAACGACATCTCTATTCT 57.859 33.333 0.00 0.00 0.00 2.40
71 72 9.706691 TTTTGAGTTAACGACATCTCTATTCTT 57.293 29.630 0.00 0.00 0.00 2.52
127 128 8.561738 TCTTCAAATATGGGAGTACAAAGAAC 57.438 34.615 0.00 0.00 0.00 3.01
128 129 8.160765 TCTTCAAATATGGGAGTACAAAGAACA 58.839 33.333 0.00 0.00 0.00 3.18
129 130 8.698973 TTCAAATATGGGAGTACAAAGAACAA 57.301 30.769 0.00 0.00 0.00 2.83
130 131 8.877864 TCAAATATGGGAGTACAAAGAACAAT 57.122 30.769 0.00 0.00 0.00 2.71
131 132 9.967451 TCAAATATGGGAGTACAAAGAACAATA 57.033 29.630 0.00 0.00 0.00 1.90
134 135 9.838339 AATATGGGAGTACAAAGAACAATAGAG 57.162 33.333 0.00 0.00 0.00 2.43
135 136 6.049955 TGGGAGTACAAAGAACAATAGAGG 57.950 41.667 0.00 0.00 0.00 3.69
136 137 5.546499 TGGGAGTACAAAGAACAATAGAGGT 59.454 40.000 0.00 0.00 0.00 3.85
137 138 6.727231 TGGGAGTACAAAGAACAATAGAGGTA 59.273 38.462 0.00 0.00 0.00 3.08
138 139 7.236019 TGGGAGTACAAAGAACAATAGAGGTAA 59.764 37.037 0.00 0.00 0.00 2.85
139 140 8.265764 GGGAGTACAAAGAACAATAGAGGTAAT 58.734 37.037 0.00 0.00 0.00 1.89
165 166 8.880878 AAAAATTACAACTATGTTTGTGGACC 57.119 30.769 4.46 0.00 40.04 4.46
166 167 7.589958 AAATTACAACTATGTTTGTGGACCA 57.410 32.000 0.00 0.00 40.04 4.02
167 168 6.569179 ATTACAACTATGTTTGTGGACCAC 57.431 37.500 18.28 18.28 40.04 4.16
168 169 3.219281 ACAACTATGTTTGTGGACCACC 58.781 45.455 22.00 7.27 38.31 4.61
169 170 3.117663 ACAACTATGTTTGTGGACCACCT 60.118 43.478 22.00 4.34 38.31 4.00
170 171 4.103469 ACAACTATGTTTGTGGACCACCTA 59.897 41.667 22.00 7.29 38.31 3.08
171 172 4.553330 ACTATGTTTGTGGACCACCTAG 57.447 45.455 22.00 15.21 37.04 3.02
172 173 2.200373 ATGTTTGTGGACCACCTAGC 57.800 50.000 22.00 12.11 37.04 3.42
173 174 0.250124 TGTTTGTGGACCACCTAGCG 60.250 55.000 22.00 0.00 37.04 4.26
174 175 0.034337 GTTTGTGGACCACCTAGCGA 59.966 55.000 22.00 0.00 37.04 4.93
175 176 0.981183 TTTGTGGACCACCTAGCGAT 59.019 50.000 22.00 0.00 37.04 4.58
176 177 0.249120 TTGTGGACCACCTAGCGATG 59.751 55.000 22.00 0.00 37.04 3.84
177 178 0.613572 TGTGGACCACCTAGCGATGA 60.614 55.000 22.00 0.00 37.04 2.92
178 179 0.179108 GTGGACCACCTAGCGATGAC 60.179 60.000 14.16 0.00 37.04 3.06
179 180 0.324368 TGGACCACCTAGCGATGACT 60.324 55.000 0.00 0.00 37.04 3.41
180 181 1.064240 TGGACCACCTAGCGATGACTA 60.064 52.381 0.00 0.00 37.04 2.59
181 182 2.240279 GGACCACCTAGCGATGACTAT 58.760 52.381 0.00 0.00 0.00 2.12
182 183 3.181437 TGGACCACCTAGCGATGACTATA 60.181 47.826 0.00 0.00 37.04 1.31
183 184 3.825014 GGACCACCTAGCGATGACTATAA 59.175 47.826 0.00 0.00 0.00 0.98
184 185 4.280174 GGACCACCTAGCGATGACTATAAA 59.720 45.833 0.00 0.00 0.00 1.40
185 186 5.047235 GGACCACCTAGCGATGACTATAAAT 60.047 44.000 0.00 0.00 0.00 1.40
186 187 6.152323 GGACCACCTAGCGATGACTATAAATA 59.848 42.308 0.00 0.00 0.00 1.40
187 188 6.921914 ACCACCTAGCGATGACTATAAATAC 58.078 40.000 0.00 0.00 0.00 1.89
188 189 6.720288 ACCACCTAGCGATGACTATAAATACT 59.280 38.462 0.00 0.00 0.00 2.12
189 190 7.030165 CCACCTAGCGATGACTATAAATACTG 58.970 42.308 0.00 0.00 0.00 2.74
190 191 7.030165 CACCTAGCGATGACTATAAATACTGG 58.970 42.308 0.00 0.00 0.00 4.00
191 192 6.946583 ACCTAGCGATGACTATAAATACTGGA 59.053 38.462 0.00 0.00 0.00 3.86
192 193 7.121463 ACCTAGCGATGACTATAAATACTGGAG 59.879 40.741 0.00 0.00 0.00 3.86
193 194 5.715070 AGCGATGACTATAAATACTGGAGC 58.285 41.667 0.00 0.00 0.00 4.70
194 195 4.559251 GCGATGACTATAAATACTGGAGCG 59.441 45.833 0.00 0.00 0.00 5.03
195 196 5.619309 GCGATGACTATAAATACTGGAGCGA 60.619 44.000 0.00 0.00 0.00 4.93
196 197 6.024664 CGATGACTATAAATACTGGAGCGAG 58.975 44.000 0.00 0.00 0.00 5.03
197 198 5.122512 TGACTATAAATACTGGAGCGAGC 57.877 43.478 0.00 0.00 0.00 5.03
198 199 4.022242 TGACTATAAATACTGGAGCGAGCC 60.022 45.833 0.00 0.00 0.00 4.70
199 200 2.841442 ATAAATACTGGAGCGAGCCC 57.159 50.000 0.00 0.00 0.00 5.19
200 201 1.491668 TAAATACTGGAGCGAGCCCA 58.508 50.000 5.44 5.44 0.00 5.36
201 202 0.618458 AAATACTGGAGCGAGCCCAA 59.382 50.000 6.71 0.00 32.53 4.12
202 203 0.179000 AATACTGGAGCGAGCCCAAG 59.821 55.000 6.71 0.00 32.53 3.61
203 204 1.690219 ATACTGGAGCGAGCCCAAGG 61.690 60.000 6.71 0.00 32.53 3.61
225 226 4.996434 CCGCCATCATCGCCCCTC 62.996 72.222 0.00 0.00 0.00 4.30
226 227 4.996434 CGCCATCATCGCCCCTCC 62.996 72.222 0.00 0.00 0.00 4.30
227 228 4.650377 GCCATCATCGCCCCTCCC 62.650 72.222 0.00 0.00 0.00 4.30
228 229 2.851102 CCATCATCGCCCCTCCCT 60.851 66.667 0.00 0.00 0.00 4.20
229 230 2.746359 CATCATCGCCCCTCCCTC 59.254 66.667 0.00 0.00 0.00 4.30
230 231 2.142761 CATCATCGCCCCTCCCTCA 61.143 63.158 0.00 0.00 0.00 3.86
231 232 2.143419 ATCATCGCCCCTCCCTCAC 61.143 63.158 0.00 0.00 0.00 3.51
232 233 3.866582 CATCGCCCCTCCCTCACC 61.867 72.222 0.00 0.00 0.00 4.02
236 237 3.787001 GCCCCTCCCTCACCGAAG 61.787 72.222 0.00 0.00 0.00 3.79
237 238 3.787001 CCCCTCCCTCACCGAAGC 61.787 72.222 0.00 0.00 0.00 3.86
238 239 2.685380 CCCTCCCTCACCGAAGCT 60.685 66.667 0.00 0.00 0.00 3.74
239 240 1.381327 CCCTCCCTCACCGAAGCTA 60.381 63.158 0.00 0.00 0.00 3.32
244 245 1.480954 TCCCTCACCGAAGCTAATGTC 59.519 52.381 0.00 0.00 0.00 3.06
252 253 3.270027 CCGAAGCTAATGTCAATGTGGA 58.730 45.455 0.00 0.00 0.00 4.02
291 292 7.156876 ACCCACATGTTTGTAGAACATTATG 57.843 36.000 0.00 4.44 38.69 1.90
296 297 9.773328 CACATGTTTGTAGAACATTATGGTAAG 57.227 33.333 0.00 0.00 38.69 2.34
360 361 5.937111 TGTAACTTGGCTTAAACTTCCTCT 58.063 37.500 0.00 0.00 0.00 3.69
362 363 3.665190 ACTTGGCTTAAACTTCCTCTCG 58.335 45.455 0.00 0.00 0.00 4.04
398 399 2.528818 CCTGGAGCCTTCACACCCA 61.529 63.158 0.00 0.00 0.00 4.51
461 463 1.301401 CGAAAGTTGGCCGGACTCA 60.301 57.895 9.82 0.00 0.00 3.41
545 575 0.902531 TTCCCCGAAGCTTCCTACAG 59.097 55.000 20.62 6.12 0.00 2.74
612 642 1.813753 ACGAATTGATCCCGCACCG 60.814 57.895 0.00 0.00 0.00 4.94
613 643 1.520564 CGAATTGATCCCGCACCGA 60.521 57.895 0.00 0.00 0.00 4.69
636 666 1.147376 CACAACCACCACTCCCGAA 59.853 57.895 0.00 0.00 0.00 4.30
662 692 1.221840 CCGGTCCATTGTCCTCCTG 59.778 63.158 0.00 0.00 0.00 3.86
693 723 7.512402 TCTTCAACCCCTTTCCATTTATTTTCT 59.488 33.333 0.00 0.00 0.00 2.52
704 734 5.121142 TCCATTTATTTTCTTGACGTCGACC 59.879 40.000 10.58 0.00 0.00 4.79
714 744 5.909477 TCTTGACGTCGACCCATAATTATT 58.091 37.500 10.58 0.00 0.00 1.40
715 745 6.342906 TCTTGACGTCGACCCATAATTATTT 58.657 36.000 10.58 0.00 0.00 1.40
716 746 5.977171 TGACGTCGACCCATAATTATTTG 57.023 39.130 10.58 0.00 0.00 2.32
717 747 4.812091 TGACGTCGACCCATAATTATTTGG 59.188 41.667 10.58 8.60 0.00 3.28
718 748 4.773013 ACGTCGACCCATAATTATTTGGT 58.227 39.130 10.58 13.78 0.00 3.67
719 749 4.573201 ACGTCGACCCATAATTATTTGGTG 59.427 41.667 17.31 11.39 0.00 4.17
720 750 4.553938 CGTCGACCCATAATTATTTGGTGC 60.554 45.833 17.31 10.19 0.00 5.01
721 751 4.578928 GTCGACCCATAATTATTTGGTGCT 59.421 41.667 17.31 0.00 0.00 4.40
722 752 4.819630 TCGACCCATAATTATTTGGTGCTC 59.180 41.667 17.31 6.25 0.00 4.26
723 753 4.023193 CGACCCATAATTATTTGGTGCTCC 60.023 45.833 17.31 0.00 0.00 4.70
724 754 5.140454 GACCCATAATTATTTGGTGCTCCT 58.860 41.667 17.31 0.00 34.23 3.69
725 755 5.140454 ACCCATAATTATTTGGTGCTCCTC 58.860 41.667 13.31 0.00 34.23 3.71
726 756 4.524328 CCCATAATTATTTGGTGCTCCTCC 59.476 45.833 6.34 0.00 34.23 4.30
727 757 4.216257 CCATAATTATTTGGTGCTCCTCCG 59.784 45.833 6.34 0.00 34.23 4.63
744 774 2.114411 GTTTCCAGCCCCGAACCA 59.886 61.111 0.00 0.00 0.00 3.67
749 779 2.671070 CAGCCCCGAACCATCACT 59.329 61.111 0.00 0.00 0.00 3.41
756 786 0.526211 CCGAACCATCACTCTCACGA 59.474 55.000 0.00 0.00 0.00 4.35
757 787 1.135139 CCGAACCATCACTCTCACGAT 59.865 52.381 0.00 0.00 0.00 3.73
767 797 2.105128 CTCACGATGGACCGGAGC 59.895 66.667 9.46 0.00 0.00 4.70
879 913 0.322187 GCCCGGGTCGCCATATAAAT 60.322 55.000 24.63 0.00 0.00 1.40
907 941 2.485479 CCTTCCCCACCATATCTTCACG 60.485 54.545 0.00 0.00 0.00 4.35
910 944 1.408127 CCCCACCATATCTTCACGCAA 60.408 52.381 0.00 0.00 0.00 4.85
912 946 2.752354 CCCACCATATCTTCACGCAAAA 59.248 45.455 0.00 0.00 0.00 2.44
943 1005 3.773630 CACCTTGTACACGCGCGG 61.774 66.667 35.22 24.36 0.00 6.46
990 1060 0.242825 TCGGCACCAACGAACTCTAG 59.757 55.000 0.00 0.00 37.42 2.43
1099 1175 2.282958 TCGTCTTCCTCGGCACCT 60.283 61.111 0.00 0.00 0.00 4.00
1233 1324 1.738099 GTGCTGCGAGGACGTTGAT 60.738 57.895 0.00 0.00 41.98 2.57
1235 1326 1.738099 GCTGCGAGGACGTTGATGT 60.738 57.895 0.00 0.00 41.98 3.06
1239 1330 0.731514 GCGAGGACGTTGATGTCGAA 60.732 55.000 9.27 0.00 39.83 3.71
1809 1944 4.092091 GCTCGAGCTTATTAATGGAATCGG 59.908 45.833 29.88 0.00 38.21 4.18
1814 1949 5.308825 AGCTTATTAATGGAATCGGACTGG 58.691 41.667 0.00 0.00 0.00 4.00
1865 2002 6.258727 TGGCGATCTCAGTTTTCTTGATTATC 59.741 38.462 0.00 0.00 0.00 1.75
1879 2021 7.792374 TCTTGATTATCTACATTGCTCCAAC 57.208 36.000 0.00 0.00 0.00 3.77
1891 2033 1.890894 CTCCAACATCGACCGGAGT 59.109 57.895 9.46 0.00 40.21 3.85
1902 2090 1.135489 CGACCGGAGTTTCGAATCTGA 60.135 52.381 9.46 0.00 37.43 3.27
1905 2093 3.087031 ACCGGAGTTTCGAATCTGACTA 58.913 45.455 9.46 0.00 0.00 2.59
1925 2113 5.938322 ACTATGCGAAATCGTGTCAAAAAT 58.062 33.333 4.59 0.00 42.22 1.82
1930 2118 5.516696 TGCGAAATCGTGTCAAAAATTCAAA 59.483 32.000 4.59 0.00 42.22 2.69
1934 2122 7.377397 CGAAATCGTGTCAAAAATTCAAACCTA 59.623 33.333 0.00 0.00 34.11 3.08
1940 2128 6.756542 GTGTCAAAAATTCAAACCTAACAGCT 59.243 34.615 0.00 0.00 0.00 4.24
1941 2129 6.978080 TGTCAAAAATTCAAACCTAACAGCTC 59.022 34.615 0.00 0.00 0.00 4.09
1953 2141 3.058914 CCTAACAGCTCGTTCAAACTTGG 60.059 47.826 5.04 0.00 39.14 3.61
1971 2159 1.353091 GGGACTTCAACCCTCAGACT 58.647 55.000 0.00 0.00 43.65 3.24
1994 2184 3.117888 TGAGAGCATTATTTGGGTCCCTC 60.118 47.826 10.00 0.00 32.12 4.30
1995 2185 2.175715 AGAGCATTATTTGGGTCCCTCC 59.824 50.000 10.00 0.00 32.12 4.30
2004 2194 2.041405 GGTCCCTCCCTCTCCCTG 60.041 72.222 0.00 0.00 0.00 4.45
2006 2196 1.687493 GTCCCTCCCTCTCCCTGTG 60.687 68.421 0.00 0.00 0.00 3.66
2016 2206 2.417924 CCTCTCCCTGTGAAAGACGATG 60.418 54.545 0.00 0.00 0.00 3.84
2261 2570 1.335496 CCCGTTTAACAAGTGTGTGGG 59.665 52.381 0.00 0.00 38.27 4.61
2288 2597 3.428797 GCATGCATGCGACCTGAT 58.571 55.556 33.99 0.00 44.67 2.90
2289 2598 1.008881 GCATGCATGCGACCTGATG 60.009 57.895 33.99 10.93 44.67 3.07
2290 2599 1.008881 CATGCATGCGACCTGATGC 60.009 57.895 14.93 0.00 44.42 3.91
2291 2600 2.191513 ATGCATGCGACCTGATGCC 61.192 57.895 14.09 0.00 43.68 4.40
2292 2601 3.945434 GCATGCGACCTGATGCCG 61.945 66.667 0.00 0.00 39.29 5.69
2293 2602 2.202919 CATGCGACCTGATGCCGA 60.203 61.111 0.00 0.00 0.00 5.54
2294 2603 2.107750 ATGCGACCTGATGCCGAG 59.892 61.111 0.00 0.00 0.00 4.63
2295 2604 3.451556 ATGCGACCTGATGCCGAGG 62.452 63.158 0.00 0.00 36.57 4.63
2296 2605 4.899239 GCGACCTGATGCCGAGGG 62.899 72.222 0.00 0.00 34.56 4.30
2337 2654 2.268920 GCGATGGAGACCTTGGCA 59.731 61.111 0.00 0.00 33.81 4.92
2339 2656 1.599047 CGATGGAGACCTTGGCACT 59.401 57.895 0.00 0.00 0.00 4.40
2424 2744 6.918022 CACATGCGTATACTATTTGTCTCTCA 59.082 38.462 0.56 0.00 0.00 3.27
2425 2745 7.114106 CACATGCGTATACTATTTGTCTCTCAG 59.886 40.741 0.56 0.00 0.00 3.35
2432 2752 5.323371 ACTATTTGTCTCTCAGCTCTGTC 57.677 43.478 0.00 0.00 0.00 3.51
2443 2763 0.609406 AGCTCTGTCACTGCGGAGTA 60.609 55.000 10.03 0.00 42.34 2.59
2486 2814 1.448677 GAGTCGCGTTATTCTCATCGC 59.551 52.381 5.77 0.00 44.23 4.58
2502 2830 1.951130 CGCGTCCGGGAATCTGATG 60.951 63.158 0.00 0.00 0.00 3.07
2503 2831 1.595382 GCGTCCGGGAATCTGATGG 60.595 63.158 0.00 0.00 0.00 3.51
2504 2832 1.823295 CGTCCGGGAATCTGATGGT 59.177 57.895 0.00 0.00 0.00 3.55
2505 2833 0.530650 CGTCCGGGAATCTGATGGTG 60.531 60.000 0.00 0.00 0.00 4.17
2506 2834 0.179045 GTCCGGGAATCTGATGGTGG 60.179 60.000 0.00 0.00 0.00 4.61
2507 2835 0.620410 TCCGGGAATCTGATGGTGGT 60.620 55.000 0.00 0.00 0.00 4.16
2508 2836 1.128200 CCGGGAATCTGATGGTGGTA 58.872 55.000 0.00 0.00 0.00 3.25
2509 2837 1.202651 CCGGGAATCTGATGGTGGTAC 60.203 57.143 0.00 0.00 0.00 3.34
2510 2838 1.762957 CGGGAATCTGATGGTGGTACT 59.237 52.381 0.00 0.00 0.00 2.73
2511 2839 2.170607 CGGGAATCTGATGGTGGTACTT 59.829 50.000 0.00 0.00 0.00 2.24
2512 2840 3.545703 GGGAATCTGATGGTGGTACTTG 58.454 50.000 0.00 0.00 0.00 3.16
2513 2841 3.054361 GGGAATCTGATGGTGGTACTTGT 60.054 47.826 0.00 0.00 0.00 3.16
2514 2842 4.567747 GGGAATCTGATGGTGGTACTTGTT 60.568 45.833 0.00 0.00 0.00 2.83
2515 2843 5.010282 GGAATCTGATGGTGGTACTTGTTT 58.990 41.667 0.00 0.00 0.00 2.83
2516 2844 5.476945 GGAATCTGATGGTGGTACTTGTTTT 59.523 40.000 0.00 0.00 0.00 2.43
2517 2845 6.015434 GGAATCTGATGGTGGTACTTGTTTTT 60.015 38.462 0.00 0.00 0.00 1.94
2537 2865 6.686130 TTTTTAGAACGAAGACGCTAGAAG 57.314 37.500 0.00 0.00 43.96 2.85
2538 2866 2.265647 AGAACGAAGACGCTAGAAGC 57.734 50.000 0.00 0.00 43.96 3.86
2560 2888 6.727569 GCGTCCGGCTTTAAATTAATAAAG 57.272 37.500 0.00 6.41 42.93 1.85
2578 2906 4.131376 CCTCCAACATAGGCAGCG 57.869 61.111 0.00 0.00 0.00 5.18
2579 2907 1.221840 CCTCCAACATAGGCAGCGT 59.778 57.895 0.00 0.00 0.00 5.07
2580 2908 0.392998 CCTCCAACATAGGCAGCGTT 60.393 55.000 0.00 0.00 0.00 4.84
2581 2909 1.134521 CCTCCAACATAGGCAGCGTTA 60.135 52.381 0.00 0.00 0.00 3.18
2582 2910 2.627945 CTCCAACATAGGCAGCGTTAA 58.372 47.619 0.00 0.00 0.00 2.01
2583 2911 2.351726 CTCCAACATAGGCAGCGTTAAC 59.648 50.000 0.00 0.00 0.00 2.01
2584 2912 2.080693 CCAACATAGGCAGCGTTAACA 58.919 47.619 6.39 0.00 0.00 2.41
2585 2913 2.095853 CCAACATAGGCAGCGTTAACAG 59.904 50.000 6.39 0.00 0.00 3.16
2586 2914 2.742053 CAACATAGGCAGCGTTAACAGT 59.258 45.455 6.39 0.00 0.00 3.55
2587 2915 3.880047 ACATAGGCAGCGTTAACAGTA 57.120 42.857 6.39 0.00 0.00 2.74
2588 2916 3.518590 ACATAGGCAGCGTTAACAGTAC 58.481 45.455 6.39 0.00 0.00 2.73
2589 2917 3.194968 ACATAGGCAGCGTTAACAGTACT 59.805 43.478 6.39 0.00 0.00 2.73
2590 2918 2.080286 AGGCAGCGTTAACAGTACTG 57.920 50.000 21.44 21.44 0.00 2.74
2591 2919 1.076332 GGCAGCGTTAACAGTACTGG 58.924 55.000 26.12 9.55 34.19 4.00
2592 2920 1.337447 GGCAGCGTTAACAGTACTGGA 60.337 52.381 26.12 11.46 34.19 3.86
2593 2921 2.409975 GCAGCGTTAACAGTACTGGAA 58.590 47.619 26.12 16.57 34.19 3.53
2594 2922 2.803956 GCAGCGTTAACAGTACTGGAAA 59.196 45.455 26.12 16.36 34.19 3.13
2595 2923 3.363673 GCAGCGTTAACAGTACTGGAAAC 60.364 47.826 26.12 24.21 34.19 2.78
2596 2924 3.805422 CAGCGTTAACAGTACTGGAAACA 59.195 43.478 27.87 10.23 39.59 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 9.547753 AGAGATGTAATATTGTTTGACGCTATT 57.452 29.630 0.00 0.00 0.00 1.73
39 40 8.455682 AGAGATGTCGTTAACTCAAAACAAAAA 58.544 29.630 3.71 0.00 32.59 1.94
40 41 7.981142 AGAGATGTCGTTAACTCAAAACAAAA 58.019 30.769 3.71 0.00 32.59 2.44
41 42 7.548196 AGAGATGTCGTTAACTCAAAACAAA 57.452 32.000 3.71 0.00 32.59 2.83
42 43 8.827177 ATAGAGATGTCGTTAACTCAAAACAA 57.173 30.769 3.71 0.00 32.59 2.83
43 44 8.827177 AATAGAGATGTCGTTAACTCAAAACA 57.173 30.769 3.71 1.25 32.59 2.83
44 45 9.141400 AGAATAGAGATGTCGTTAACTCAAAAC 57.859 33.333 3.71 0.00 32.59 2.43
45 46 9.706691 AAGAATAGAGATGTCGTTAACTCAAAA 57.293 29.630 3.71 0.00 32.59 2.44
101 102 9.178758 GTTCTTTGTACTCCCATATTTGAAGAT 57.821 33.333 0.00 0.00 0.00 2.40
102 103 8.160765 TGTTCTTTGTACTCCCATATTTGAAGA 58.839 33.333 0.00 0.00 0.00 2.87
103 104 8.335532 TGTTCTTTGTACTCCCATATTTGAAG 57.664 34.615 0.00 0.00 0.00 3.02
104 105 8.698973 TTGTTCTTTGTACTCCCATATTTGAA 57.301 30.769 0.00 0.00 0.00 2.69
105 106 8.877864 ATTGTTCTTTGTACTCCCATATTTGA 57.122 30.769 0.00 0.00 0.00 2.69
108 109 9.838339 CTCTATTGTTCTTTGTACTCCCATATT 57.162 33.333 0.00 0.00 0.00 1.28
109 110 8.432805 CCTCTATTGTTCTTTGTACTCCCATAT 58.567 37.037 0.00 0.00 0.00 1.78
110 111 7.402071 ACCTCTATTGTTCTTTGTACTCCCATA 59.598 37.037 0.00 0.00 0.00 2.74
111 112 6.215636 ACCTCTATTGTTCTTTGTACTCCCAT 59.784 38.462 0.00 0.00 0.00 4.00
112 113 5.546499 ACCTCTATTGTTCTTTGTACTCCCA 59.454 40.000 0.00 0.00 0.00 4.37
113 114 6.051179 ACCTCTATTGTTCTTTGTACTCCC 57.949 41.667 0.00 0.00 0.00 4.30
139 140 9.968870 GGTCCACAAACATAGTTGTAATTTTTA 57.031 29.630 0.00 0.00 39.73 1.52
140 141 8.478877 TGGTCCACAAACATAGTTGTAATTTTT 58.521 29.630 0.00 0.00 39.73 1.94
141 142 7.923878 GTGGTCCACAAACATAGTTGTAATTTT 59.076 33.333 17.59 0.00 39.73 1.82
142 143 7.430441 GTGGTCCACAAACATAGTTGTAATTT 58.570 34.615 17.59 0.00 39.73 1.82
143 144 6.015772 GGTGGTCCACAAACATAGTTGTAATT 60.016 38.462 23.48 0.00 39.73 1.40
144 145 5.475564 GGTGGTCCACAAACATAGTTGTAAT 59.524 40.000 23.48 0.00 39.73 1.89
145 146 4.822896 GGTGGTCCACAAACATAGTTGTAA 59.177 41.667 23.48 0.00 39.73 2.41
146 147 4.103469 AGGTGGTCCACAAACATAGTTGTA 59.897 41.667 23.48 0.00 39.73 2.41
147 148 3.117663 AGGTGGTCCACAAACATAGTTGT 60.118 43.478 23.48 0.00 42.48 3.32
148 149 3.486383 AGGTGGTCCACAAACATAGTTG 58.514 45.455 23.48 0.00 35.86 3.16
149 150 3.876309 AGGTGGTCCACAAACATAGTT 57.124 42.857 23.48 0.00 35.86 2.24
150 151 3.307480 GCTAGGTGGTCCACAAACATAGT 60.307 47.826 23.48 0.34 35.86 2.12
151 152 3.270877 GCTAGGTGGTCCACAAACATAG 58.729 50.000 23.48 15.75 35.86 2.23
152 153 2.354303 CGCTAGGTGGTCCACAAACATA 60.354 50.000 23.48 7.06 35.86 2.29
153 154 1.610624 CGCTAGGTGGTCCACAAACAT 60.611 52.381 23.48 6.29 35.86 2.71
154 155 0.250124 CGCTAGGTGGTCCACAAACA 60.250 55.000 23.48 4.35 35.86 2.83
155 156 0.034337 TCGCTAGGTGGTCCACAAAC 59.966 55.000 23.48 6.50 35.86 2.93
156 157 0.981183 ATCGCTAGGTGGTCCACAAA 59.019 50.000 23.48 9.61 35.86 2.83
157 158 0.249120 CATCGCTAGGTGGTCCACAA 59.751 55.000 23.48 9.97 35.86 3.33
158 159 0.613572 TCATCGCTAGGTGGTCCACA 60.614 55.000 23.48 3.01 35.86 4.17
159 160 0.179108 GTCATCGCTAGGTGGTCCAC 60.179 60.000 14.13 14.13 35.89 4.02
160 161 0.324368 AGTCATCGCTAGGTGGTCCA 60.324 55.000 0.00 0.00 35.89 4.02
161 162 1.688772 TAGTCATCGCTAGGTGGTCC 58.311 55.000 0.00 0.00 0.00 4.46
162 163 5.449107 TTTATAGTCATCGCTAGGTGGTC 57.551 43.478 0.00 0.00 0.00 4.02
163 164 6.720288 AGTATTTATAGTCATCGCTAGGTGGT 59.280 38.462 0.00 0.00 0.00 4.16
164 165 7.030165 CAGTATTTATAGTCATCGCTAGGTGG 58.970 42.308 0.00 0.00 0.00 4.61
165 166 7.030165 CCAGTATTTATAGTCATCGCTAGGTG 58.970 42.308 0.00 0.00 0.00 4.00
166 167 6.946583 TCCAGTATTTATAGTCATCGCTAGGT 59.053 38.462 0.00 0.00 0.00 3.08
167 168 7.392494 TCCAGTATTTATAGTCATCGCTAGG 57.608 40.000 0.00 0.00 0.00 3.02
168 169 6.970043 GCTCCAGTATTTATAGTCATCGCTAG 59.030 42.308 0.00 0.00 0.00 3.42
169 170 6.403309 CGCTCCAGTATTTATAGTCATCGCTA 60.403 42.308 0.00 0.00 0.00 4.26
170 171 5.620205 CGCTCCAGTATTTATAGTCATCGCT 60.620 44.000 0.00 0.00 0.00 4.93
171 172 4.559251 CGCTCCAGTATTTATAGTCATCGC 59.441 45.833 0.00 0.00 0.00 4.58
172 173 5.939457 TCGCTCCAGTATTTATAGTCATCG 58.061 41.667 0.00 0.00 0.00 3.84
173 174 5.802956 GCTCGCTCCAGTATTTATAGTCATC 59.197 44.000 0.00 0.00 0.00 2.92
174 175 5.336849 GGCTCGCTCCAGTATTTATAGTCAT 60.337 44.000 0.00 0.00 0.00 3.06
175 176 4.022242 GGCTCGCTCCAGTATTTATAGTCA 60.022 45.833 0.00 0.00 0.00 3.41
176 177 4.487019 GGCTCGCTCCAGTATTTATAGTC 58.513 47.826 0.00 0.00 0.00 2.59
177 178 3.258622 GGGCTCGCTCCAGTATTTATAGT 59.741 47.826 0.00 0.00 0.00 2.12
178 179 3.258372 TGGGCTCGCTCCAGTATTTATAG 59.742 47.826 0.00 0.00 0.00 1.31
179 180 3.236047 TGGGCTCGCTCCAGTATTTATA 58.764 45.455 0.00 0.00 0.00 0.98
180 181 2.047061 TGGGCTCGCTCCAGTATTTAT 58.953 47.619 0.00 0.00 0.00 1.40
181 182 1.491668 TGGGCTCGCTCCAGTATTTA 58.508 50.000 0.00 0.00 0.00 1.40
182 183 0.618458 TTGGGCTCGCTCCAGTATTT 59.382 50.000 0.00 0.00 35.48 1.40
183 184 0.179000 CTTGGGCTCGCTCCAGTATT 59.821 55.000 0.00 0.00 35.48 1.89
184 185 1.690219 CCTTGGGCTCGCTCCAGTAT 61.690 60.000 0.00 0.00 35.48 2.12
185 186 2.359169 CCTTGGGCTCGCTCCAGTA 61.359 63.158 0.00 0.00 35.48 2.74
186 187 3.710722 CCTTGGGCTCGCTCCAGT 61.711 66.667 0.00 0.00 35.48 4.00
208 209 4.996434 GAGGGGCGATGATGGCGG 62.996 72.222 0.00 0.00 34.76 6.13
209 210 4.996434 GGAGGGGCGATGATGGCG 62.996 72.222 0.00 0.00 34.76 5.69
210 211 4.650377 GGGAGGGGCGATGATGGC 62.650 72.222 0.00 0.00 0.00 4.40
211 212 2.851102 AGGGAGGGGCGATGATGG 60.851 66.667 0.00 0.00 0.00 3.51
212 213 2.142761 TGAGGGAGGGGCGATGATG 61.143 63.158 0.00 0.00 0.00 3.07
213 214 2.143419 GTGAGGGAGGGGCGATGAT 61.143 63.158 0.00 0.00 0.00 2.45
214 215 2.764128 GTGAGGGAGGGGCGATGA 60.764 66.667 0.00 0.00 0.00 2.92
215 216 3.866582 GGTGAGGGAGGGGCGATG 61.867 72.222 0.00 0.00 0.00 3.84
219 220 3.787001 CTTCGGTGAGGGAGGGGC 61.787 72.222 0.00 0.00 0.00 5.80
220 221 2.873557 TAGCTTCGGTGAGGGAGGGG 62.874 65.000 0.00 0.00 0.00 4.79
221 222 0.976073 TTAGCTTCGGTGAGGGAGGG 60.976 60.000 0.00 0.00 0.00 4.30
222 223 1.123928 ATTAGCTTCGGTGAGGGAGG 58.876 55.000 0.00 0.00 0.00 4.30
223 224 1.482593 ACATTAGCTTCGGTGAGGGAG 59.517 52.381 0.00 0.00 0.00 4.30
224 225 1.480954 GACATTAGCTTCGGTGAGGGA 59.519 52.381 0.00 0.00 0.00 4.20
225 226 1.207089 TGACATTAGCTTCGGTGAGGG 59.793 52.381 0.00 0.00 0.00 4.30
226 227 2.672961 TGACATTAGCTTCGGTGAGG 57.327 50.000 0.00 0.00 0.00 3.86
227 228 3.935203 ACATTGACATTAGCTTCGGTGAG 59.065 43.478 0.00 0.00 0.00 3.51
228 229 3.684305 CACATTGACATTAGCTTCGGTGA 59.316 43.478 0.00 0.00 0.00 4.02
229 230 3.181507 CCACATTGACATTAGCTTCGGTG 60.182 47.826 0.00 0.00 0.00 4.94
230 231 3.009723 CCACATTGACATTAGCTTCGGT 58.990 45.455 0.00 0.00 0.00 4.69
231 232 3.270027 TCCACATTGACATTAGCTTCGG 58.730 45.455 0.00 0.00 0.00 4.30
232 233 5.490139 AATCCACATTGACATTAGCTTCG 57.510 39.130 0.00 0.00 0.00 3.79
233 234 7.315142 TCAAAATCCACATTGACATTAGCTTC 58.685 34.615 0.00 0.00 30.94 3.86
234 235 7.230849 TCAAAATCCACATTGACATTAGCTT 57.769 32.000 0.00 0.00 30.94 3.74
235 236 6.839124 TCAAAATCCACATTGACATTAGCT 57.161 33.333 0.00 0.00 30.94 3.32
236 237 7.092716 AGTTCAAAATCCACATTGACATTAGC 58.907 34.615 0.00 0.00 35.42 3.09
237 238 9.480053 AAAGTTCAAAATCCACATTGACATTAG 57.520 29.630 0.00 0.00 35.42 1.73
239 240 9.829507 TTAAAGTTCAAAATCCACATTGACATT 57.170 25.926 0.00 0.00 35.42 2.71
244 245 8.341903 GGGTTTTAAAGTTCAAAATCCACATTG 58.658 33.333 8.46 0.00 43.02 2.82
252 253 8.800370 AACATGTGGGTTTTAAAGTTCAAAAT 57.200 26.923 0.00 0.00 0.00 1.82
291 292 6.309737 CACGTTTGGACACTATTAGTCTTACC 59.690 42.308 0.00 0.00 36.29 2.85
381 382 1.302832 GTGGGTGTGAAGGCTCCAG 60.303 63.158 0.00 0.00 0.00 3.86
398 399 5.796424 AAATGAATTGGCTCTTGAGTTGT 57.204 34.783 0.00 0.00 0.00 3.32
461 463 2.571216 AACTGGGCTACGTGCGTCT 61.571 57.895 0.00 0.00 44.05 4.18
545 575 1.800805 AGTGTGTGTGCATCAGCTAC 58.199 50.000 0.00 0.00 42.74 3.58
612 642 1.782028 GAGTGGTGGTTGTGCGGTTC 61.782 60.000 0.00 0.00 0.00 3.62
613 643 1.822186 GAGTGGTGGTTGTGCGGTT 60.822 57.895 0.00 0.00 0.00 4.44
636 666 1.486726 GACAATGGACCGGAGAGGAAT 59.513 52.381 9.46 0.00 45.00 3.01
662 692 6.605471 AATGGAAAGGGGTTGAAGAATAAC 57.395 37.500 0.00 0.00 0.00 1.89
693 723 5.294799 CCAAATAATTATGGGTCGACGTCAA 59.705 40.000 17.16 0.00 32.87 3.18
704 734 4.216257 CGGAGGAGCACCAAATAATTATGG 59.784 45.833 2.07 1.00 42.60 2.74
714 744 1.072505 GGAAACGGAGGAGCACCAA 59.927 57.895 2.07 0.00 38.94 3.67
715 745 2.111999 CTGGAAACGGAGGAGCACCA 62.112 60.000 2.07 0.00 39.98 4.17
716 746 1.376037 CTGGAAACGGAGGAGCACC 60.376 63.158 0.00 0.00 39.98 5.01
717 747 2.035442 GCTGGAAACGGAGGAGCAC 61.035 63.158 0.00 0.00 39.98 4.40
718 748 2.347490 GCTGGAAACGGAGGAGCA 59.653 61.111 0.00 0.00 39.98 4.26
719 749 2.436824 GGCTGGAAACGGAGGAGC 60.437 66.667 0.00 0.00 39.98 4.70
720 750 2.269241 GGGCTGGAAACGGAGGAG 59.731 66.667 0.00 0.00 39.98 3.69
721 751 3.327404 GGGGCTGGAAACGGAGGA 61.327 66.667 0.00 0.00 39.98 3.71
722 752 4.778143 CGGGGCTGGAAACGGAGG 62.778 72.222 0.00 0.00 39.98 4.30
723 753 3.248446 TTCGGGGCTGGAAACGGAG 62.248 63.158 0.00 0.00 39.98 4.63
724 754 3.243053 TTCGGGGCTGGAAACGGA 61.243 61.111 0.00 0.00 39.98 4.69
725 755 3.053896 GTTCGGGGCTGGAAACGG 61.054 66.667 0.00 0.00 40.79 4.44
726 756 3.053896 GGTTCGGGGCTGGAAACG 61.054 66.667 0.00 0.00 0.00 3.60
727 757 1.304134 ATGGTTCGGGGCTGGAAAC 60.304 57.895 0.19 0.19 0.00 2.78
756 786 3.390521 TGCTTCGCTCCGGTCCAT 61.391 61.111 0.00 0.00 0.00 3.41
757 787 4.373116 GTGCTTCGCTCCGGTCCA 62.373 66.667 0.00 0.00 0.00 4.02
907 941 1.529438 TGAGGATGAACGACGTTTTGC 59.471 47.619 15.45 10.85 0.00 3.68
910 944 1.343465 AGGTGAGGATGAACGACGTTT 59.657 47.619 15.45 0.00 0.00 3.60
912 946 0.966920 AAGGTGAGGATGAACGACGT 59.033 50.000 0.00 0.00 0.00 4.34
943 1005 2.036475 TCCGCTCTAATGGAGAATGCTC 59.964 50.000 0.00 0.00 44.45 4.26
990 1060 0.317436 CGTCTGCCATCGCTAGAGTC 60.317 60.000 0.00 0.00 35.36 3.36
1069 1145 4.773117 GACGACGAGGTGCGGGAC 62.773 72.222 0.00 0.00 46.49 4.46
1099 1175 2.431942 GAAGAAGGCGGACGCGAA 60.432 61.111 15.93 0.00 43.06 4.70
1230 1321 1.285078 TCCTCCTCCTCTTCGACATCA 59.715 52.381 0.00 0.00 0.00 3.07
1233 1324 0.677098 CGTCCTCCTCCTCTTCGACA 60.677 60.000 0.00 0.00 0.00 4.35
1235 1326 0.107606 CTCGTCCTCCTCCTCTTCGA 60.108 60.000 0.00 0.00 0.00 3.71
1239 1330 1.919771 CTCCTCGTCCTCCTCCTCT 59.080 63.158 0.00 0.00 0.00 3.69
1786 1921 4.092091 CCGATTCCATTAATAAGCTCGAGC 59.908 45.833 30.01 30.01 42.49 5.03
1814 1949 8.856490 AGTTTATTTATGATCAATTGGCGAAC 57.144 30.769 5.42 0.59 0.00 3.95
1865 2002 2.609459 GGTCGATGTTGGAGCAATGTAG 59.391 50.000 0.00 0.00 32.38 2.74
1879 2021 1.852895 GATTCGAAACTCCGGTCGATG 59.147 52.381 14.71 0.00 45.03 3.84
1891 2033 5.051708 CGATTTCGCATAGTCAGATTCGAAA 60.052 40.000 0.00 9.49 45.60 3.46
1902 2090 5.351233 TTTTTGACACGATTTCGCATAGT 57.649 34.783 0.00 0.00 44.43 2.12
1905 2093 5.218885 TGAATTTTTGACACGATTTCGCAT 58.781 33.333 0.00 0.00 44.43 4.73
1925 2113 3.799366 TGAACGAGCTGTTAGGTTTGAA 58.201 40.909 0.00 0.00 42.09 2.69
1930 2118 3.470645 AGTTTGAACGAGCTGTTAGGT 57.529 42.857 0.00 0.00 42.09 3.08
1934 2122 1.676006 CCCAAGTTTGAACGAGCTGTT 59.324 47.619 0.00 0.00 45.61 3.16
1940 2128 3.269538 TGAAGTCCCAAGTTTGAACGA 57.730 42.857 0.00 0.00 0.00 3.85
1941 2129 3.488553 GGTTGAAGTCCCAAGTTTGAACG 60.489 47.826 0.00 0.00 0.00 3.95
1953 2141 2.368875 TCAAGTCTGAGGGTTGAAGTCC 59.631 50.000 0.00 0.00 0.00 3.85
1971 2159 3.269381 AGGGACCCAAATAATGCTCTCAA 59.731 43.478 14.60 0.00 0.00 3.02
1994 2184 0.247736 CGTCTTTCACAGGGAGAGGG 59.752 60.000 0.00 0.00 0.00 4.30
1995 2185 1.257743 TCGTCTTTCACAGGGAGAGG 58.742 55.000 0.00 0.00 0.00 3.69
1996 2186 2.886081 CATCGTCTTTCACAGGGAGAG 58.114 52.381 0.00 0.00 0.00 3.20
1997 2187 1.066858 GCATCGTCTTTCACAGGGAGA 60.067 52.381 0.00 0.00 0.00 3.71
1998 2188 1.338105 TGCATCGTCTTTCACAGGGAG 60.338 52.381 0.00 0.00 0.00 4.30
1999 2189 0.684535 TGCATCGTCTTTCACAGGGA 59.315 50.000 0.00 0.00 0.00 4.20
2001 2191 1.998315 CTCTGCATCGTCTTTCACAGG 59.002 52.381 0.00 0.00 0.00 4.00
2003 2193 1.941209 GCCTCTGCATCGTCTTTCACA 60.941 52.381 0.00 0.00 37.47 3.58
2004 2194 0.723981 GCCTCTGCATCGTCTTTCAC 59.276 55.000 0.00 0.00 37.47 3.18
2006 2196 0.458543 TCGCCTCTGCATCGTCTTTC 60.459 55.000 0.00 0.00 37.32 2.62
2295 2604 4.980805 TCACGTCACGCTTGGCCC 62.981 66.667 0.00 0.00 0.00 5.80
2296 2605 2.240612 GATTCACGTCACGCTTGGCC 62.241 60.000 0.00 0.00 0.00 5.36
2300 2617 3.156334 GCGATTCACGTCACGCTT 58.844 55.556 14.64 0.00 46.06 4.68
2337 2654 1.550976 CTTCCGACTTTCCTAGCCAGT 59.449 52.381 0.00 0.00 0.00 4.00
2339 2656 0.249398 GCTTCCGACTTTCCTAGCCA 59.751 55.000 0.00 0.00 0.00 4.75
2424 2744 0.609406 TACTCCGCAGTGACAGAGCT 60.609 55.000 0.00 0.00 33.62 4.09
2425 2745 0.179150 CTACTCCGCAGTGACAGAGC 60.179 60.000 0.00 0.00 33.62 4.09
2432 2752 2.579201 CCACCCTACTCCGCAGTG 59.421 66.667 0.00 0.00 33.62 3.66
2443 2763 2.308866 CCTTGTGAATTACTCCCACCCT 59.691 50.000 0.00 0.00 0.00 4.34
2446 2766 1.737793 CGCCTTGTGAATTACTCCCAC 59.262 52.381 0.00 0.00 0.00 4.61
2450 2770 2.599082 CGACTCGCCTTGTGAATTACTC 59.401 50.000 0.00 0.00 0.00 2.59
2486 2814 0.530650 CACCATCAGATTCCCGGACG 60.531 60.000 0.73 0.00 0.00 4.79
2514 2842 5.118203 GCTTCTAGCGTCTTCGTTCTAAAAA 59.882 40.000 0.00 0.00 39.49 1.94
2515 2843 4.620184 GCTTCTAGCGTCTTCGTTCTAAAA 59.380 41.667 0.00 0.00 39.49 1.52
2516 2844 4.164294 GCTTCTAGCGTCTTCGTTCTAAA 58.836 43.478 0.00 0.00 39.49 1.85
2517 2845 3.756069 GCTTCTAGCGTCTTCGTTCTAA 58.244 45.455 0.00 0.00 39.49 2.10
2518 2846 3.402058 GCTTCTAGCGTCTTCGTTCTA 57.598 47.619 0.00 0.00 39.49 2.10
2519 2847 2.265647 GCTTCTAGCGTCTTCGTTCT 57.734 50.000 0.00 0.00 39.49 3.01
2537 2865 6.727569 CTTTATTAATTTAAAGCCGGACGC 57.272 37.500 5.05 0.00 33.69 5.19
2561 2889 0.392998 AACGCTGCCTATGTTGGAGG 60.393 55.000 0.00 0.00 37.12 4.30
2562 2890 2.309528 TAACGCTGCCTATGTTGGAG 57.690 50.000 0.00 0.00 0.00 3.86
2563 2891 2.289756 TGTTAACGCTGCCTATGTTGGA 60.290 45.455 0.26 0.00 0.00 3.53
2564 2892 2.080693 TGTTAACGCTGCCTATGTTGG 58.919 47.619 0.26 0.00 0.00 3.77
2565 2893 2.742053 ACTGTTAACGCTGCCTATGTTG 59.258 45.455 0.26 0.00 0.00 3.33
2566 2894 3.053831 ACTGTTAACGCTGCCTATGTT 57.946 42.857 0.26 0.00 0.00 2.71
2567 2895 2.762535 ACTGTTAACGCTGCCTATGT 57.237 45.000 0.26 0.00 0.00 2.29
2568 2896 3.551890 CAGTACTGTTAACGCTGCCTATG 59.448 47.826 15.06 0.00 0.00 2.23
2569 2897 3.430374 CCAGTACTGTTAACGCTGCCTAT 60.430 47.826 21.18 0.00 0.00 2.57
2570 2898 2.094390 CCAGTACTGTTAACGCTGCCTA 60.094 50.000 21.18 0.00 0.00 3.93
2571 2899 1.337823 CCAGTACTGTTAACGCTGCCT 60.338 52.381 21.18 0.00 0.00 4.75
2572 2900 1.076332 CCAGTACTGTTAACGCTGCC 58.924 55.000 21.18 0.00 0.00 4.85
2573 2901 2.074547 TCCAGTACTGTTAACGCTGC 57.925 50.000 21.18 0.00 0.00 5.25
2574 2902 3.805422 TGTTTCCAGTACTGTTAACGCTG 59.195 43.478 21.18 3.81 0.00 5.18
2575 2903 4.056050 CTGTTTCCAGTACTGTTAACGCT 58.944 43.478 21.18 0.00 33.80 5.07
2576 2904 4.053295 TCTGTTTCCAGTACTGTTAACGC 58.947 43.478 21.18 10.66 39.82 4.84


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

AutoCloner maintained by Alex Coulton.