Multiple sequence alignment - TraesCS7A01G436500

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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 TraesCS7A01G436500 chr7A 100.000 2319 0 0 1 2319 631145007 631147325 0.000000e+00 4283.0
1 TraesCS7A01G436500 chr7A 96.747 707 21 1 269 975 631153960 631154664 0.000000e+00 1177.0
2 TraesCS7A01G436500 chr7A 96.464 707 21 3 269 975 630903937 630904639 0.000000e+00 1164.0
3 TraesCS7A01G436500 chr7A 96.040 707 27 1 269 975 630896302 630897007 0.000000e+00 1149.0
4 TraesCS7A01G436500 chr7A 95.149 268 13 0 1 268 631178730 631178997 7.660000e-115 424.0
5 TraesCS7A01G436500 chr7A 93.258 267 18 0 1 267 658509976 658510242 6.010000e-106 394.0
6 TraesCS7A01G436500 chr5D 98.387 1302 20 1 973 2274 503225007 503226307 0.000000e+00 2287.0
7 TraesCS7A01G436500 chr5D 98.157 1302 23 1 973 2274 503239573 503240873 0.000000e+00 2270.0
8 TraesCS7A01G436500 chr5D 97.774 1303 27 2 973 2274 503235323 503236624 0.000000e+00 2244.0
9 TraesCS7A01G436500 chr5D 97.774 1303 27 2 973 2274 503271538 503270237 0.000000e+00 2244.0
10 TraesCS7A01G436500 chr6D 98.157 1302 23 1 973 2274 389251466 389252766 0.000000e+00 2270.0
11 TraesCS7A01G436500 chr3A 97.849 1302 26 2 973 2274 66010833 66009534 0.000000e+00 2248.0
12 TraesCS7A01G436500 chrUn 97.619 1302 29 1 973 2274 216511818 216510519 0.000000e+00 2231.0
13 TraesCS7A01G436500 chrUn 97.619 1302 29 1 973 2274 286271565 286272864 0.000000e+00 2231.0
14 TraesCS7A01G436500 chrUn 100.000 47 0 0 2273 2319 361122300 361122254 1.140000e-13 87.9
15 TraesCS7A01G436500 chrUn 100.000 47 0 0 2273 2319 362805176 362805130 1.140000e-13 87.9
16 TraesCS7A01G436500 chr1D 97.619 1302 30 1 973 2274 254388297 254386997 0.000000e+00 2231.0
17 TraesCS7A01G436500 chr5A 94.633 708 33 4 269 975 615215137 615215840 0.000000e+00 1092.0
18 TraesCS7A01G436500 chr5A 94.068 708 35 4 269 975 615205874 615206575 0.000000e+00 1068.0
19 TraesCS7A01G436500 chr5A 93.785 708 38 3 269 975 63007271 63007973 0.000000e+00 1059.0
20 TraesCS7A01G436500 chr5A 93.644 708 38 4 269 975 615199118 615199819 0.000000e+00 1051.0
21 TraesCS7A01G436500 chr5A 92.948 709 40 5 269 975 63000604 63001304 0.000000e+00 1024.0
22 TraesCS7A01G436500 chr5A 94.030 268 16 0 1 268 603884598 603884865 7.710000e-110 407.0
23 TraesCS7A01G436500 chr5A 94.030 268 15 1 1 268 603897150 603897416 2.770000e-109 405.0
24 TraesCS7A01G436500 chr5A 93.284 268 18 0 1 268 498201737 498201470 1.670000e-106 396.0
25 TraesCS7A01G436500 chr4A 93.785 708 40 4 269 975 588302101 588302805 0.000000e+00 1061.0
26 TraesCS7A01G436500 chr4A 93.258 267 18 0 1 267 158564114 158563848 6.010000e-106 394.0
27 TraesCS7A01G436500 chr4A 93.258 267 18 0 1 267 158576625 158576359 6.010000e-106 394.0
28 TraesCS7A01G436500 chr4A 100.000 47 0 0 2273 2319 587782775 587782729 1.140000e-13 87.9
29 TraesCS7A01G436500 chr6A 93.657 268 17 0 1 268 572072408 572072675 3.590000e-108 401.0
30 TraesCS7A01G436500 chr6A 93.657 268 17 0 1 268 572084941 572085208 3.590000e-108 401.0
31 TraesCS7A01G436500 chr6A 100.000 47 0 0 2273 2319 429046514 429046560 1.140000e-13 87.9
32 TraesCS7A01G436500 chr1A 100.000 47 0 0 2273 2319 44101800 44101846 1.140000e-13 87.9
33 TraesCS7A01G436500 chr1A 100.000 47 0 0 2273 2319 44131789 44131743 1.140000e-13 87.9
34 TraesCS7A01G436500 chr1A 100.000 47 0 0 2273 2319 44139399 44139353 1.140000e-13 87.9
35 TraesCS7A01G436500 chr1A 100.000 47 0 0 2273 2319 44157937 44157891 1.140000e-13 87.9
36 TraesCS7A01G436500 chr1A 100.000 47 0 0 2273 2319 44164521 44164475 1.140000e-13 87.9


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 TraesCS7A01G436500 chr7A 631145007 631147325 2318 False 4283 4283 100.0000 1 2319 1 chr7A.!!$F3 2318
1 TraesCS7A01G436500 chr7A 631153960 631154664 704 False 1177 1177 96.7470 269 975 1 chr7A.!!$F4 706
2 TraesCS7A01G436500 chr7A 630903937 630904639 702 False 1164 1164 96.4640 269 975 1 chr7A.!!$F2 706
3 TraesCS7A01G436500 chr7A 630896302 630897007 705 False 1149 1149 96.0400 269 975 1 chr7A.!!$F1 706
4 TraesCS7A01G436500 chr5D 503225007 503226307 1300 False 2287 2287 98.3870 973 2274 1 chr5D.!!$F1 1301
5 TraesCS7A01G436500 chr5D 503235323 503240873 5550 False 2257 2270 97.9655 973 2274 2 chr5D.!!$F2 1301
6 TraesCS7A01G436500 chr5D 503270237 503271538 1301 True 2244 2244 97.7740 973 2274 1 chr5D.!!$R1 1301
7 TraesCS7A01G436500 chr6D 389251466 389252766 1300 False 2270 2270 98.1570 973 2274 1 chr6D.!!$F1 1301
8 TraesCS7A01G436500 chr3A 66009534 66010833 1299 True 2248 2248 97.8490 973 2274 1 chr3A.!!$R1 1301
9 TraesCS7A01G436500 chrUn 216510519 216511818 1299 True 2231 2231 97.6190 973 2274 1 chrUn.!!$R1 1301
10 TraesCS7A01G436500 chrUn 286271565 286272864 1299 False 2231 2231 97.6190 973 2274 1 chrUn.!!$F1 1301
11 TraesCS7A01G436500 chr1D 254386997 254388297 1300 True 2231 2231 97.6190 973 2274 1 chr1D.!!$R1 1301
12 TraesCS7A01G436500 chr5A 615215137 615215840 703 False 1092 1092 94.6330 269 975 1 chr5A.!!$F7 706
13 TraesCS7A01G436500 chr5A 615205874 615206575 701 False 1068 1068 94.0680 269 975 1 chr5A.!!$F6 706
14 TraesCS7A01G436500 chr5A 63007271 63007973 702 False 1059 1059 93.7850 269 975 1 chr5A.!!$F2 706
15 TraesCS7A01G436500 chr5A 615199118 615199819 701 False 1051 1051 93.6440 269 975 1 chr5A.!!$F5 706
16 TraesCS7A01G436500 chr5A 63000604 63001304 700 False 1024 1024 92.9480 269 975 1 chr5A.!!$F1 706
17 TraesCS7A01G436500 chr4A 588302101 588302805 704 False 1061 1061 93.7850 269 975 1 chr4A.!!$F1 706

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
264 265 0.034896 TCCGACTTCTTGGAGTTGGC 59.965 55.0 9.95 0.0 46.61 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1632 5890 0.538746 GCGGGAAAAGGAGGGAAACA 60.539 55.0 0.0 0.0 0.0 2.83 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
17 18 3.377656 TTCGGGTGTCTCTCTGCC 58.622 61.111 0.00 0.00 0.00 4.85
18 19 2.283529 TTCGGGTGTCTCTCTGCCC 61.284 63.158 0.00 0.00 37.79 5.36
20 21 2.680352 GGGTGTCTCTCTGCCCGA 60.680 66.667 0.00 0.00 0.00 5.14
21 22 2.283529 GGGTGTCTCTCTGCCCGAA 61.284 63.158 0.00 0.00 0.00 4.30
22 23 1.216710 GGTGTCTCTCTGCCCGAAG 59.783 63.158 0.00 0.00 0.00 3.79
58 59 4.910585 CCGTACTGGCCGCCCATC 62.911 72.222 7.03 0.00 41.21 3.51
59 60 4.155733 CGTACTGGCCGCCCATCA 62.156 66.667 7.03 0.00 41.21 3.07
60 61 2.510906 GTACTGGCCGCCCATCAT 59.489 61.111 7.03 0.00 41.21 2.45
61 62 1.893808 GTACTGGCCGCCCATCATG 60.894 63.158 7.03 0.00 41.21 3.07
62 63 3.118768 TACTGGCCGCCCATCATGG 62.119 63.158 7.03 0.00 41.21 3.66
63 64 4.193893 CTGGCCGCCCATCATGGA 62.194 66.667 4.75 0.00 40.96 3.41
64 65 3.500949 TGGCCGCCCATCATGGAT 61.501 61.111 4.75 0.00 40.96 3.41
65 66 2.987547 GGCCGCCCATCATGGATG 60.988 66.667 4.75 0.00 40.96 3.51
73 74 2.625375 CATCATGGATGGCGTCAGG 58.375 57.895 9.27 0.00 36.51 3.86
74 75 0.887836 CATCATGGATGGCGTCAGGG 60.888 60.000 9.27 0.00 36.51 4.45
75 76 1.348008 ATCATGGATGGCGTCAGGGT 61.348 55.000 9.27 0.00 0.00 4.34
76 77 1.524621 CATGGATGGCGTCAGGGTC 60.525 63.158 9.27 0.00 0.00 4.46
77 78 1.995066 ATGGATGGCGTCAGGGTCA 60.995 57.895 9.27 0.00 0.00 4.02
78 79 1.561769 ATGGATGGCGTCAGGGTCAA 61.562 55.000 9.27 0.00 0.00 3.18
79 80 1.745489 GGATGGCGTCAGGGTCAAC 60.745 63.158 9.27 0.00 0.00 3.18
80 81 1.003839 GATGGCGTCAGGGTCAACA 60.004 57.895 0.81 0.00 0.00 3.33
81 82 0.392998 GATGGCGTCAGGGTCAACAT 60.393 55.000 0.81 0.00 0.00 2.71
82 83 0.677731 ATGGCGTCAGGGTCAACATG 60.678 55.000 0.00 0.00 0.00 3.21
83 84 2.040544 GGCGTCAGGGTCAACATGG 61.041 63.158 0.00 0.00 0.00 3.66
84 85 2.690778 GCGTCAGGGTCAACATGGC 61.691 63.158 0.00 0.00 0.00 4.40
85 86 1.302431 CGTCAGGGTCAACATGGCA 60.302 57.895 0.00 0.00 0.00 4.92
86 87 0.888736 CGTCAGGGTCAACATGGCAA 60.889 55.000 0.00 0.00 0.00 4.52
87 88 0.598065 GTCAGGGTCAACATGGCAAC 59.402 55.000 0.00 0.00 0.00 4.17
98 99 3.898509 TGGCAACAGTGTTGCGCC 61.899 61.111 40.17 32.20 46.17 6.53
99 100 4.980903 GGCAACAGTGTTGCGCCG 62.981 66.667 40.17 17.91 45.78 6.46
100 101 4.980903 GCAACAGTGTTGCGCCGG 62.981 66.667 37.30 13.85 35.58 6.13
101 102 4.326766 CAACAGTGTTGCGCCGGG 62.327 66.667 22.33 0.00 0.00 5.73
116 117 4.796495 GGGCGGGTCATGGTCACC 62.796 72.222 0.00 0.00 0.00 4.02
120 121 3.716381 GGGTCATGGTCACCCGTA 58.284 61.111 5.39 0.00 44.42 4.02
121 122 1.520666 GGGTCATGGTCACCCGTAG 59.479 63.158 5.39 0.00 44.42 3.51
134 135 2.742372 CGTAGGGTGCACTGTGCC 60.742 66.667 28.17 19.06 44.23 5.01
135 136 2.742372 GTAGGGTGCACTGTGCCG 60.742 66.667 28.17 0.00 44.23 5.69
136 137 2.920384 TAGGGTGCACTGTGCCGA 60.920 61.111 28.17 9.53 44.23 5.54
137 138 2.290287 TAGGGTGCACTGTGCCGAT 61.290 57.895 28.17 14.66 44.23 4.18
138 139 2.238847 TAGGGTGCACTGTGCCGATC 62.239 60.000 28.17 12.22 44.23 3.69
139 140 3.490759 GGTGCACTGTGCCGATCG 61.491 66.667 28.17 8.51 44.23 3.69
140 141 2.738521 GTGCACTGTGCCGATCGT 60.739 61.111 28.17 0.00 44.23 3.73
141 142 2.738139 TGCACTGTGCCGATCGTG 60.738 61.111 28.17 5.56 44.23 4.35
142 143 4.152625 GCACTGTGCCGATCGTGC 62.153 66.667 21.78 16.85 44.73 5.34
143 144 2.433145 CACTGTGCCGATCGTGCT 60.433 61.111 22.99 6.28 0.00 4.40
144 145 2.125912 ACTGTGCCGATCGTGCTC 60.126 61.111 22.99 20.34 0.00 4.26
145 146 2.887568 CTGTGCCGATCGTGCTCC 60.888 66.667 22.99 16.03 0.00 4.70
146 147 3.647649 CTGTGCCGATCGTGCTCCA 62.648 63.158 22.99 18.61 0.00 3.86
147 148 2.887568 GTGCCGATCGTGCTCCAG 60.888 66.667 22.99 5.69 0.00 3.86
148 149 4.147449 TGCCGATCGTGCTCCAGG 62.147 66.667 22.99 5.04 0.00 4.45
149 150 3.838271 GCCGATCGTGCTCCAGGA 61.838 66.667 15.09 0.00 32.83 3.86
150 151 3.133014 CCGATCGTGCTCCAGGAT 58.867 61.111 15.09 0.55 40.89 3.24
151 152 1.443407 CCGATCGTGCTCCAGGATT 59.557 57.895 15.09 0.00 38.77 3.01
152 153 0.179073 CCGATCGTGCTCCAGGATTT 60.179 55.000 15.09 0.00 38.77 2.17
153 154 0.933097 CGATCGTGCTCCAGGATTTG 59.067 55.000 7.03 0.00 38.77 2.32
160 161 1.307647 CTCCAGGATTTGGGGGTGG 59.692 63.158 0.00 0.00 44.43 4.61
161 162 2.364186 CCAGGATTTGGGGGTGGC 60.364 66.667 0.00 0.00 43.75 5.01
162 163 2.444696 CAGGATTTGGGGGTGGCA 59.555 61.111 0.00 0.00 0.00 4.92
163 164 1.683365 CAGGATTTGGGGGTGGCAG 60.683 63.158 0.00 0.00 0.00 4.85
164 165 2.364186 GGATTTGGGGGTGGCAGG 60.364 66.667 0.00 0.00 0.00 4.85
165 166 3.076916 GATTTGGGGGTGGCAGGC 61.077 66.667 0.00 0.00 0.00 4.85
166 167 3.604133 ATTTGGGGGTGGCAGGCT 61.604 61.111 0.00 0.00 0.00 4.58
167 168 3.178509 ATTTGGGGGTGGCAGGCTT 62.179 57.895 0.00 0.00 0.00 4.35
168 169 3.826265 TTTGGGGGTGGCAGGCTTC 62.826 63.158 0.00 0.00 0.00 3.86
171 172 3.971702 GGGGTGGCAGGCTTCACT 61.972 66.667 14.79 0.00 34.57 3.41
172 173 2.360475 GGGTGGCAGGCTTCACTC 60.360 66.667 14.79 9.17 34.57 3.51
173 174 2.753029 GGTGGCAGGCTTCACTCT 59.247 61.111 14.79 0.00 34.57 3.24
174 175 1.553690 GGGTGGCAGGCTTCACTCTA 61.554 60.000 14.79 0.00 32.02 2.43
175 176 0.107945 GGTGGCAGGCTTCACTCTAG 60.108 60.000 14.79 0.00 34.57 2.43
176 177 0.742635 GTGGCAGGCTTCACTCTAGC 60.743 60.000 9.68 0.00 37.91 3.42
181 182 3.787458 GCTTCACTCTAGCCACGC 58.213 61.111 0.00 0.00 32.45 5.34
182 183 1.811679 GCTTCACTCTAGCCACGCC 60.812 63.158 0.00 0.00 32.45 5.68
183 184 1.153549 CTTCACTCTAGCCACGCCC 60.154 63.158 0.00 0.00 0.00 6.13
184 185 2.579684 CTTCACTCTAGCCACGCCCC 62.580 65.000 0.00 0.00 0.00 5.80
185 186 4.514577 CACTCTAGCCACGCCCCG 62.515 72.222 0.00 0.00 0.00 5.73
187 188 4.208686 CTCTAGCCACGCCCCGTC 62.209 72.222 0.00 0.00 38.32 4.79
189 190 4.814294 CTAGCCACGCCCCGTCAC 62.814 72.222 0.00 0.00 38.32 3.67
199 200 4.201679 CCCGTCACATCGCCGCTA 62.202 66.667 0.00 0.00 0.00 4.26
200 201 2.655364 CCGTCACATCGCCGCTAG 60.655 66.667 0.00 0.00 0.00 3.42
201 202 2.407616 CGTCACATCGCCGCTAGA 59.592 61.111 0.00 0.00 0.00 2.43
202 203 1.008424 CGTCACATCGCCGCTAGAT 60.008 57.895 0.00 0.00 0.00 1.98
203 204 0.237498 CGTCACATCGCCGCTAGATA 59.763 55.000 0.00 0.00 0.00 1.98
204 205 1.726251 CGTCACATCGCCGCTAGATAG 60.726 57.143 0.00 0.00 0.00 2.08
205 206 1.535896 GTCACATCGCCGCTAGATAGA 59.464 52.381 0.00 0.00 0.00 1.98
206 207 2.162608 GTCACATCGCCGCTAGATAGAT 59.837 50.000 0.00 0.00 0.00 1.98
207 208 2.162408 TCACATCGCCGCTAGATAGATG 59.838 50.000 12.98 12.98 42.95 2.90
208 209 1.135257 ACATCGCCGCTAGATAGATGC 60.135 52.381 13.92 0.00 41.53 3.91
209 210 1.135286 CATCGCCGCTAGATAGATGCA 60.135 52.381 0.00 0.00 33.41 3.96
210 211 0.958822 TCGCCGCTAGATAGATGCAA 59.041 50.000 0.00 0.00 0.00 4.08
211 212 1.339929 TCGCCGCTAGATAGATGCAAA 59.660 47.619 0.00 0.00 0.00 3.68
212 213 1.457303 CGCCGCTAGATAGATGCAAAC 59.543 52.381 0.00 0.00 0.00 2.93
213 214 2.760374 GCCGCTAGATAGATGCAAACT 58.240 47.619 0.00 0.00 0.00 2.66
214 215 3.134458 GCCGCTAGATAGATGCAAACTT 58.866 45.455 0.00 0.00 0.00 2.66
215 216 3.561725 GCCGCTAGATAGATGCAAACTTT 59.438 43.478 0.00 0.00 0.00 2.66
216 217 4.553547 GCCGCTAGATAGATGCAAACTTTG 60.554 45.833 0.00 0.00 0.00 2.77
217 218 4.811024 CCGCTAGATAGATGCAAACTTTGA 59.189 41.667 5.65 0.00 0.00 2.69
218 219 5.050499 CCGCTAGATAGATGCAAACTTTGAG 60.050 44.000 5.65 0.00 0.00 3.02
219 220 5.050499 CGCTAGATAGATGCAAACTTTGAGG 60.050 44.000 5.65 0.00 0.00 3.86
220 221 5.238214 GCTAGATAGATGCAAACTTTGAGGG 59.762 44.000 5.65 0.00 0.00 4.30
221 222 5.184892 AGATAGATGCAAACTTTGAGGGT 57.815 39.130 5.65 0.00 0.00 4.34
222 223 6.313519 AGATAGATGCAAACTTTGAGGGTA 57.686 37.500 5.65 0.00 0.00 3.69
223 224 6.116126 AGATAGATGCAAACTTTGAGGGTAC 58.884 40.000 5.65 0.00 0.00 3.34
224 225 3.074412 AGATGCAAACTTTGAGGGTACG 58.926 45.455 5.65 0.00 0.00 3.67
225 226 1.600023 TGCAAACTTTGAGGGTACGG 58.400 50.000 5.65 0.00 0.00 4.02
226 227 1.134037 TGCAAACTTTGAGGGTACGGT 60.134 47.619 5.65 0.00 0.00 4.83
227 228 1.534163 GCAAACTTTGAGGGTACGGTC 59.466 52.381 5.65 0.00 0.00 4.79
228 229 2.809299 GCAAACTTTGAGGGTACGGTCT 60.809 50.000 5.65 0.00 0.00 3.85
229 230 3.064931 CAAACTTTGAGGGTACGGTCTC 58.935 50.000 0.00 3.48 0.00 3.36
230 231 0.886563 ACTTTGAGGGTACGGTCTCG 59.113 55.000 0.00 0.00 43.02 4.04
231 232 1.171308 CTTTGAGGGTACGGTCTCGA 58.829 55.000 0.00 0.00 40.11 4.04
232 233 0.883833 TTTGAGGGTACGGTCTCGAC 59.116 55.000 0.00 0.00 40.11 4.20
252 253 3.560636 CCACTTTATGGGATCCGACTT 57.439 47.619 5.45 0.00 45.95 3.01
253 254 3.467803 CCACTTTATGGGATCCGACTTC 58.532 50.000 5.45 0.00 45.95 3.01
254 255 3.134804 CCACTTTATGGGATCCGACTTCT 59.865 47.826 5.45 0.00 45.95 2.85
255 256 4.384208 CCACTTTATGGGATCCGACTTCTT 60.384 45.833 5.45 0.00 45.95 2.52
256 257 4.572389 CACTTTATGGGATCCGACTTCTTG 59.428 45.833 5.45 0.00 0.00 3.02
257 258 3.838244 TTATGGGATCCGACTTCTTGG 57.162 47.619 5.45 0.00 0.00 3.61
258 259 1.879575 ATGGGATCCGACTTCTTGGA 58.120 50.000 5.45 0.00 38.95 3.53
259 260 1.195115 TGGGATCCGACTTCTTGGAG 58.805 55.000 5.45 0.00 37.76 3.86
260 261 1.196012 GGGATCCGACTTCTTGGAGT 58.804 55.000 5.45 0.00 37.76 3.85
261 262 1.555533 GGGATCCGACTTCTTGGAGTT 59.444 52.381 5.45 0.00 37.76 3.01
262 263 2.622436 GGATCCGACTTCTTGGAGTTG 58.378 52.381 0.00 0.00 37.76 3.16
264 265 0.034896 TCCGACTTCTTGGAGTTGGC 59.965 55.000 9.95 0.00 46.61 4.52
265 266 0.955919 CCGACTTCTTGGAGTTGGCC 60.956 60.000 0.00 0.00 42.68 5.36
266 267 0.035458 CGACTTCTTGGAGTTGGCCT 59.965 55.000 3.32 0.00 0.00 5.19
267 268 1.543429 CGACTTCTTGGAGTTGGCCTT 60.543 52.381 3.32 0.00 0.00 4.35
706 707 1.364626 GCGTCATCACCAGAGCCTTG 61.365 60.000 0.00 0.00 0.00 3.61
834 836 6.023603 CCAGGGCCTCTATAAATAGGACTAA 58.976 44.000 0.95 0.00 41.09 2.24
853 855 2.589157 CCACCCACGTAGCAAGGGA 61.589 63.158 14.48 0.00 45.80 4.20
1037 1045 4.646492 CCCTTTGGCAGCATCTACTAATTT 59.354 41.667 0.00 0.00 0.00 1.82
1074 1082 0.599204 CCATATTTCGACCCGGACGG 60.599 60.000 17.79 3.25 37.81 4.79
1117 1125 1.609208 ACGAATGGCAAGTGCTCTTT 58.391 45.000 2.85 0.00 41.70 2.52
1118 1126 1.267806 ACGAATGGCAAGTGCTCTTTG 59.732 47.619 2.85 4.13 41.70 2.77
1532 5790 1.843206 GGAAAGATCTCCCTCCAAGCT 59.157 52.381 11.72 0.00 0.00 3.74
1607 5865 9.913310 ATCTATGAGATCGAGTATGGAATTCTA 57.087 33.333 5.23 0.00 25.75 2.10
1776 6035 3.877508 CTCGGACCTGTTCTGAAAAAGTT 59.122 43.478 0.00 0.00 39.28 2.66
1787 6046 8.287439 TGTTCTGAAAAAGTTGAGGTATTTCA 57.713 30.769 0.00 0.00 37.59 2.69
1866 6125 7.496346 TTGACCTTGGACATATAAGAGTTCT 57.504 36.000 0.00 0.00 0.00 3.01
1871 6130 8.552296 ACCTTGGACATATAAGAGTTCTGAATT 58.448 33.333 0.00 0.00 0.00 2.17
1917 6176 1.118838 GTCTCATGGTAGCCTGCTCT 58.881 55.000 0.00 0.00 0.00 4.09
2103 6362 4.923281 CGAATAATGCGATATCTCACACCA 59.077 41.667 0.00 0.00 0.00 4.17
2213 6472 8.980481 ATTTCAAATCCAGAGGTTAATCGTAT 57.020 30.769 0.00 0.00 0.00 3.06
2215 6474 8.801882 TTCAAATCCAGAGGTTAATCGTATTT 57.198 30.769 0.00 0.00 0.00 1.40
2274 6533 3.683340 GGTTGATAGTGGAAAAGTCGACC 59.317 47.826 13.01 0.00 36.50 4.79
2275 6534 4.312443 GTTGATAGTGGAAAAGTCGACCA 58.688 43.478 13.01 0.00 33.19 4.02
2276 6535 4.188247 TGATAGTGGAAAAGTCGACCAG 57.812 45.455 13.01 0.00 33.19 4.00
2277 6536 2.450609 TAGTGGAAAAGTCGACCAGC 57.549 50.000 13.01 0.00 33.19 4.85
2278 6537 0.250338 AGTGGAAAAGTCGACCAGCC 60.250 55.000 13.01 9.53 33.19 4.85
2279 6538 1.072505 TGGAAAAGTCGACCAGCCC 59.927 57.895 13.01 9.65 0.00 5.19
2280 6539 1.674651 GGAAAAGTCGACCAGCCCC 60.675 63.158 13.01 3.90 0.00 5.80
2281 6540 1.072505 GAAAAGTCGACCAGCCCCA 59.927 57.895 13.01 0.00 0.00 4.96
2282 6541 0.955919 GAAAAGTCGACCAGCCCCAG 60.956 60.000 13.01 0.00 0.00 4.45
2283 6542 2.411765 AAAAGTCGACCAGCCCCAGG 62.412 60.000 13.01 0.00 0.00 4.45
2284 6543 3.846405 AAGTCGACCAGCCCCAGGA 62.846 63.158 13.01 0.00 0.00 3.86
2285 6544 3.775654 GTCGACCAGCCCCAGGAG 61.776 72.222 3.51 0.00 0.00 3.69
2302 6561 1.327303 GAGGCAATCCACAAACCACA 58.673 50.000 0.00 0.00 33.74 4.17
2303 6562 1.000274 GAGGCAATCCACAAACCACAC 60.000 52.381 0.00 0.00 33.74 3.82
2304 6563 0.749649 GGCAATCCACAAACCACACA 59.250 50.000 0.00 0.00 0.00 3.72
2305 6564 1.537990 GGCAATCCACAAACCACACAC 60.538 52.381 0.00 0.00 0.00 3.82
2306 6565 1.408702 GCAATCCACAAACCACACACT 59.591 47.619 0.00 0.00 0.00 3.55
2307 6566 2.799207 GCAATCCACAAACCACACACTG 60.799 50.000 0.00 0.00 0.00 3.66
2309 6568 0.621082 TCCACAAACCACACACTGGA 59.379 50.000 0.00 0.00 43.95 3.86
2310 6569 1.024271 CCACAAACCACACACTGGAG 58.976 55.000 0.00 0.00 43.95 3.86
2311 6570 1.681780 CCACAAACCACACACTGGAGT 60.682 52.381 0.00 0.00 43.95 3.85
2312 6571 2.420827 CCACAAACCACACACTGGAGTA 60.421 50.000 0.00 0.00 43.95 2.59
2313 6572 2.872245 CACAAACCACACACTGGAGTAG 59.128 50.000 0.00 0.00 43.95 2.57
2314 6573 2.158813 ACAAACCACACACTGGAGTAGG 60.159 50.000 0.00 0.00 43.95 3.18
2315 6574 1.056660 AACCACACACTGGAGTAGGG 58.943 55.000 0.00 0.00 43.95 3.53
2316 6575 0.105142 ACCACACACTGGAGTAGGGT 60.105 55.000 0.00 0.00 46.36 4.34
2317 6576 1.148446 ACCACACACTGGAGTAGGGTA 59.852 52.381 0.00 0.00 42.52 3.69
2318 6577 2.225547 ACCACACACTGGAGTAGGGTAT 60.226 50.000 0.00 0.00 42.52 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.283529 GGGCAGAGAGACACCCGAA 61.284 63.158 0.00 0.00 31.32 4.30
1 2 2.680352 GGGCAGAGAGACACCCGA 60.680 66.667 0.00 0.00 31.32 5.14
3 4 2.232298 CTTCGGGCAGAGAGACACCC 62.232 65.000 0.00 0.00 39.12 4.61
4 5 1.216710 CTTCGGGCAGAGAGACACC 59.783 63.158 0.00 0.00 0.00 4.16
5 6 1.216710 CCTTCGGGCAGAGAGACAC 59.783 63.158 0.00 0.00 0.00 3.67
6 7 1.984570 CCCTTCGGGCAGAGAGACA 60.985 63.158 0.00 0.00 35.35 3.41
7 8 2.726351 CCCCTTCGGGCAGAGAGAC 61.726 68.421 0.00 0.00 44.50 3.36
8 9 2.364317 CCCCTTCGGGCAGAGAGA 60.364 66.667 0.00 0.00 44.50 3.10
41 42 4.910585 GATGGGCGGCCAGTACGG 62.911 72.222 35.19 0.06 38.11 4.02
42 43 3.460672 ATGATGGGCGGCCAGTACG 62.461 63.158 35.19 0.00 0.00 3.67
43 44 1.893808 CATGATGGGCGGCCAGTAC 60.894 63.158 35.19 26.52 0.00 2.73
44 45 2.510411 CATGATGGGCGGCCAGTA 59.490 61.111 35.19 25.77 0.00 2.74
45 46 4.511246 CCATGATGGGCGGCCAGT 62.511 66.667 35.19 22.79 32.67 4.00
46 47 3.502621 ATCCATGATGGGCGGCCAG 62.503 63.158 35.19 21.40 38.32 4.85
47 48 3.500949 ATCCATGATGGGCGGCCA 61.501 61.111 34.65 34.65 38.32 5.36
48 49 2.987547 CATCCATGATGGGCGGCC 60.988 66.667 23.42 23.42 38.32 6.13
55 56 0.887836 CCCTGACGCCATCCATGATG 60.888 60.000 0.00 0.00 39.52 3.07
56 57 1.348008 ACCCTGACGCCATCCATGAT 61.348 55.000 0.00 0.00 0.00 2.45
57 58 1.971505 GACCCTGACGCCATCCATGA 61.972 60.000 0.00 0.00 0.00 3.07
58 59 1.524621 GACCCTGACGCCATCCATG 60.525 63.158 0.00 0.00 0.00 3.66
59 60 1.561769 TTGACCCTGACGCCATCCAT 61.562 55.000 0.00 0.00 0.00 3.41
60 61 2.220586 TTGACCCTGACGCCATCCA 61.221 57.895 0.00 0.00 0.00 3.41
61 62 1.745489 GTTGACCCTGACGCCATCC 60.745 63.158 0.00 0.00 0.00 3.51
62 63 0.392998 ATGTTGACCCTGACGCCATC 60.393 55.000 0.00 0.00 0.00 3.51
63 64 0.677731 CATGTTGACCCTGACGCCAT 60.678 55.000 0.00 0.00 0.00 4.40
64 65 1.302431 CATGTTGACCCTGACGCCA 60.302 57.895 0.00 0.00 0.00 5.69
65 66 2.040544 CCATGTTGACCCTGACGCC 61.041 63.158 0.00 0.00 0.00 5.68
66 67 2.690778 GCCATGTTGACCCTGACGC 61.691 63.158 0.00 0.00 0.00 5.19
67 68 0.888736 TTGCCATGTTGACCCTGACG 60.889 55.000 0.00 0.00 0.00 4.35
68 69 0.598065 GTTGCCATGTTGACCCTGAC 59.402 55.000 0.00 0.00 0.00 3.51
69 70 0.184692 TGTTGCCATGTTGACCCTGA 59.815 50.000 0.00 0.00 0.00 3.86
70 71 0.599558 CTGTTGCCATGTTGACCCTG 59.400 55.000 0.00 0.00 0.00 4.45
71 72 0.185901 ACTGTTGCCATGTTGACCCT 59.814 50.000 0.00 0.00 0.00 4.34
72 73 0.314935 CACTGTTGCCATGTTGACCC 59.685 55.000 0.00 0.00 0.00 4.46
73 74 1.032014 ACACTGTTGCCATGTTGACC 58.968 50.000 0.00 0.00 0.00 4.02
74 75 2.869233 AACACTGTTGCCATGTTGAC 57.131 45.000 0.00 0.00 35.28 3.18
77 78 0.248990 CGCAACACTGTTGCCATGTT 60.249 50.000 31.78 0.00 42.10 2.71
78 79 1.359833 CGCAACACTGTTGCCATGT 59.640 52.632 31.78 0.00 42.10 3.21
79 80 2.017783 GCGCAACACTGTTGCCATG 61.018 57.895 31.78 22.31 42.10 3.66
80 81 2.336088 GCGCAACACTGTTGCCAT 59.664 55.556 31.78 0.00 42.10 4.40
81 82 3.898509 GGCGCAACACTGTTGCCA 61.899 61.111 31.78 0.00 42.48 4.92
82 83 4.980903 CGGCGCAACACTGTTGCC 62.981 66.667 31.78 25.10 42.10 4.52
83 84 4.980903 CCGGCGCAACACTGTTGC 62.981 66.667 29.57 29.57 41.71 4.17
84 85 4.326766 CCCGGCGCAACACTGTTG 62.327 66.667 16.36 16.36 0.00 3.33
99 100 4.796495 GGTGACCATGACCCGCCC 62.796 72.222 0.00 0.00 0.00 6.13
116 117 2.742372 GCACAGTGCACCCTACGG 60.742 66.667 21.22 0.00 44.26 4.02
126 127 2.433145 AGCACGATCGGCACAGTG 60.433 61.111 24.07 12.64 37.63 3.66
127 128 2.125912 GAGCACGATCGGCACAGT 60.126 61.111 24.07 8.88 0.00 3.55
128 129 2.887568 GGAGCACGATCGGCACAG 60.888 66.667 24.07 9.53 0.00 3.66
129 130 3.647649 CTGGAGCACGATCGGCACA 62.648 63.158 24.07 20.57 0.00 4.57
130 131 2.887568 CTGGAGCACGATCGGCAC 60.888 66.667 24.07 19.20 0.00 5.01
131 132 4.147449 CCTGGAGCACGATCGGCA 62.147 66.667 24.07 8.48 0.00 5.69
132 133 2.650813 AATCCTGGAGCACGATCGGC 62.651 60.000 20.98 18.95 0.00 5.54
133 134 0.179073 AAATCCTGGAGCACGATCGG 60.179 55.000 20.98 9.59 0.00 4.18
134 135 0.933097 CAAATCCTGGAGCACGATCG 59.067 55.000 14.88 14.88 0.00 3.69
144 145 2.364186 GCCACCCCCAAATCCTGG 60.364 66.667 0.00 0.00 45.97 4.45
145 146 1.683365 CTGCCACCCCCAAATCCTG 60.683 63.158 0.00 0.00 0.00 3.86
146 147 2.772924 CTGCCACCCCCAAATCCT 59.227 61.111 0.00 0.00 0.00 3.24
147 148 2.364186 CCTGCCACCCCCAAATCC 60.364 66.667 0.00 0.00 0.00 3.01
148 149 3.076916 GCCTGCCACCCCCAAATC 61.077 66.667 0.00 0.00 0.00 2.17
149 150 3.178509 AAGCCTGCCACCCCCAAAT 62.179 57.895 0.00 0.00 0.00 2.32
150 151 3.826265 GAAGCCTGCCACCCCCAAA 62.826 63.158 0.00 0.00 0.00 3.28
151 152 4.299796 GAAGCCTGCCACCCCCAA 62.300 66.667 0.00 0.00 0.00 4.12
154 155 3.927481 GAGTGAAGCCTGCCACCCC 62.927 68.421 0.00 0.00 34.00 4.95
155 156 1.553690 TAGAGTGAAGCCTGCCACCC 61.554 60.000 0.00 0.00 34.00 4.61
156 157 0.107945 CTAGAGTGAAGCCTGCCACC 60.108 60.000 0.00 0.00 34.00 4.61
157 158 0.742635 GCTAGAGTGAAGCCTGCCAC 60.743 60.000 0.00 0.00 33.73 5.01
158 159 1.599047 GCTAGAGTGAAGCCTGCCA 59.401 57.895 0.00 0.00 33.73 4.92
159 160 4.530581 GCTAGAGTGAAGCCTGCC 57.469 61.111 0.00 0.00 33.73 4.85
164 165 1.811679 GGCGTGGCTAGAGTGAAGC 60.812 63.158 0.00 0.00 39.33 3.86
165 166 1.153549 GGGCGTGGCTAGAGTGAAG 60.154 63.158 0.00 0.00 0.00 3.02
166 167 2.656069 GGGGCGTGGCTAGAGTGAA 61.656 63.158 0.00 0.00 0.00 3.18
167 168 3.075005 GGGGCGTGGCTAGAGTGA 61.075 66.667 0.00 0.00 0.00 3.41
168 169 4.514577 CGGGGCGTGGCTAGAGTG 62.515 72.222 0.00 0.00 0.00 3.51
170 171 4.208686 GACGGGGCGTGGCTAGAG 62.209 72.222 0.00 0.00 41.37 2.43
172 173 4.814294 GTGACGGGGCGTGGCTAG 62.814 72.222 0.00 0.00 41.37 3.42
185 186 1.535896 TCTATCTAGCGGCGATGTGAC 59.464 52.381 12.98 0.00 0.00 3.67
186 187 1.892209 TCTATCTAGCGGCGATGTGA 58.108 50.000 12.98 8.26 0.00 3.58
187 188 2.524034 CATCTATCTAGCGGCGATGTG 58.476 52.381 12.98 1.65 0.00 3.21
188 189 1.135257 GCATCTATCTAGCGGCGATGT 60.135 52.381 12.98 0.00 35.21 3.06
189 190 1.135286 TGCATCTATCTAGCGGCGATG 60.135 52.381 12.98 3.52 35.71 3.84
190 191 1.177401 TGCATCTATCTAGCGGCGAT 58.823 50.000 12.98 7.15 0.00 4.58
191 192 0.958822 TTGCATCTATCTAGCGGCGA 59.041 50.000 12.98 0.00 0.00 5.54
192 193 1.457303 GTTTGCATCTATCTAGCGGCG 59.543 52.381 0.51 0.51 0.00 6.46
193 194 2.760374 AGTTTGCATCTATCTAGCGGC 58.240 47.619 0.00 0.00 0.00 6.53
194 195 4.811024 TCAAAGTTTGCATCTATCTAGCGG 59.189 41.667 10.90 0.00 0.00 5.52
195 196 5.050499 CCTCAAAGTTTGCATCTATCTAGCG 60.050 44.000 10.90 0.00 0.00 4.26
196 197 5.238214 CCCTCAAAGTTTGCATCTATCTAGC 59.762 44.000 10.90 0.00 0.00 3.42
197 198 6.352516 ACCCTCAAAGTTTGCATCTATCTAG 58.647 40.000 10.90 0.00 0.00 2.43
198 199 6.313519 ACCCTCAAAGTTTGCATCTATCTA 57.686 37.500 10.90 0.00 0.00 1.98
199 200 5.184892 ACCCTCAAAGTTTGCATCTATCT 57.815 39.130 10.90 0.00 0.00 1.98
200 201 5.006746 CGTACCCTCAAAGTTTGCATCTATC 59.993 44.000 10.90 0.00 0.00 2.08
201 202 4.876107 CGTACCCTCAAAGTTTGCATCTAT 59.124 41.667 10.90 0.00 0.00 1.98
202 203 4.250464 CGTACCCTCAAAGTTTGCATCTA 58.750 43.478 10.90 0.00 0.00 1.98
203 204 3.074412 CGTACCCTCAAAGTTTGCATCT 58.926 45.455 10.90 0.00 0.00 2.90
204 205 2.161609 CCGTACCCTCAAAGTTTGCATC 59.838 50.000 10.90 0.00 0.00 3.91
205 206 2.159382 CCGTACCCTCAAAGTTTGCAT 58.841 47.619 10.90 0.00 0.00 3.96
206 207 1.134037 ACCGTACCCTCAAAGTTTGCA 60.134 47.619 10.90 0.00 0.00 4.08
207 208 1.534163 GACCGTACCCTCAAAGTTTGC 59.466 52.381 10.90 0.00 0.00 3.68
208 209 3.064931 GAGACCGTACCCTCAAAGTTTG 58.935 50.000 9.44 9.44 0.00 2.93
209 210 2.288640 CGAGACCGTACCCTCAAAGTTT 60.289 50.000 0.00 0.00 0.00 2.66
210 211 1.271656 CGAGACCGTACCCTCAAAGTT 59.728 52.381 0.00 0.00 0.00 2.66
211 212 0.886563 CGAGACCGTACCCTCAAAGT 59.113 55.000 0.00 0.00 0.00 2.66
212 213 1.135460 GTCGAGACCGTACCCTCAAAG 60.135 57.143 0.00 0.00 37.05 2.77
213 214 0.883833 GTCGAGACCGTACCCTCAAA 59.116 55.000 0.00 0.00 37.05 2.69
214 215 0.962356 GGTCGAGACCGTACCCTCAA 60.962 60.000 6.51 0.00 42.29 3.02
215 216 1.377725 GGTCGAGACCGTACCCTCA 60.378 63.158 6.51 0.00 42.29 3.86
216 217 3.507290 GGTCGAGACCGTACCCTC 58.493 66.667 6.51 0.00 42.29 4.30
233 234 4.408182 AGAAGTCGGATCCCATAAAGTG 57.592 45.455 6.06 0.00 0.00 3.16
234 235 4.384208 CCAAGAAGTCGGATCCCATAAAGT 60.384 45.833 6.06 0.00 0.00 2.66
235 236 4.130118 CCAAGAAGTCGGATCCCATAAAG 58.870 47.826 6.06 0.00 0.00 1.85
236 237 3.778075 TCCAAGAAGTCGGATCCCATAAA 59.222 43.478 6.06 0.00 0.00 1.40
237 238 3.380393 TCCAAGAAGTCGGATCCCATAA 58.620 45.455 6.06 0.00 0.00 1.90
238 239 2.965831 CTCCAAGAAGTCGGATCCCATA 59.034 50.000 6.06 0.00 0.00 2.74
239 240 1.765314 CTCCAAGAAGTCGGATCCCAT 59.235 52.381 6.06 0.00 0.00 4.00
240 241 1.195115 CTCCAAGAAGTCGGATCCCA 58.805 55.000 6.06 0.00 0.00 4.37
241 242 1.196012 ACTCCAAGAAGTCGGATCCC 58.804 55.000 6.06 0.00 0.00 3.85
242 243 2.622436 CAACTCCAAGAAGTCGGATCC 58.378 52.381 0.00 0.00 0.00 3.36
243 244 2.622436 CCAACTCCAAGAAGTCGGATC 58.378 52.381 0.00 0.00 0.00 3.36
244 245 1.339151 GCCAACTCCAAGAAGTCGGAT 60.339 52.381 0.00 0.00 0.00 4.18
245 246 0.034896 GCCAACTCCAAGAAGTCGGA 59.965 55.000 0.00 0.00 0.00 4.55
246 247 0.955919 GGCCAACTCCAAGAAGTCGG 60.956 60.000 0.00 0.00 0.00 4.79
247 248 0.035458 AGGCCAACTCCAAGAAGTCG 59.965 55.000 5.01 0.00 0.00 4.18
248 249 2.278332 AAGGCCAACTCCAAGAAGTC 57.722 50.000 5.01 0.00 0.00 3.01
249 250 2.310538 CAAAGGCCAACTCCAAGAAGT 58.689 47.619 5.01 0.00 0.00 3.01
250 251 2.294512 GACAAAGGCCAACTCCAAGAAG 59.705 50.000 5.01 0.00 0.00 2.85
251 252 2.306847 GACAAAGGCCAACTCCAAGAA 58.693 47.619 5.01 0.00 0.00 2.52
252 253 1.813862 CGACAAAGGCCAACTCCAAGA 60.814 52.381 5.01 0.00 0.00 3.02
253 254 0.593128 CGACAAAGGCCAACTCCAAG 59.407 55.000 5.01 0.00 0.00 3.61
254 255 0.821711 CCGACAAAGGCCAACTCCAA 60.822 55.000 5.01 0.00 0.00 3.53
255 256 1.228124 CCGACAAAGGCCAACTCCA 60.228 57.895 5.01 0.00 0.00 3.86
256 257 3.668386 CCGACAAAGGCCAACTCC 58.332 61.111 5.01 0.00 0.00 3.85
264 265 2.325082 CCCAGAACGCCGACAAAGG 61.325 63.158 0.00 0.00 0.00 3.11
265 266 0.882927 TTCCCAGAACGCCGACAAAG 60.883 55.000 0.00 0.00 0.00 2.77
266 267 1.146485 TTCCCAGAACGCCGACAAA 59.854 52.632 0.00 0.00 0.00 2.83
267 268 1.595929 GTTCCCAGAACGCCGACAA 60.596 57.895 0.00 0.00 0.00 3.18
625 626 0.531974 GTCTTGGTCTCGTTGCACCA 60.532 55.000 0.00 0.00 41.13 4.17
715 716 4.999950 ACTTATCCTGACAAAAGCAGTCTG 59.000 41.667 0.00 0.00 36.94 3.51
834 836 2.747686 CCTTGCTACGTGGGTGGT 59.252 61.111 0.00 0.00 0.00 4.16
853 855 3.792401 TCACTTGTCGATTATGCCGAAT 58.208 40.909 0.00 0.00 37.81 3.34
1037 1045 9.651913 GAAATATGGCTTTCAAATTAAGTTCCA 57.348 29.630 0.00 0.00 35.61 3.53
1074 1082 6.524101 TGGTTATTAGAAGCATCCCAAAAC 57.476 37.500 0.00 0.00 0.00 2.43
1117 1125 8.044309 TCCGATTGAAATAGGATCTAAACAACA 58.956 33.333 1.18 0.00 35.61 3.33
1118 1126 8.433421 TCCGATTGAAATAGGATCTAAACAAC 57.567 34.615 1.18 0.00 35.61 3.32
1323 5581 7.837202 TCGATTAGTTAACATGGTGGTTAAG 57.163 36.000 8.61 0.00 42.20 1.85
1532 5790 7.221259 CCGTATTTGATGAAAGTCGTATGTACA 59.779 37.037 0.00 0.00 0.00 2.90
1632 5890 0.538746 GCGGGAAAAGGAGGGAAACA 60.539 55.000 0.00 0.00 0.00 2.83
1776 6035 8.253810 TGTCAACAAACAATTTGAAATACCTCA 58.746 29.630 8.24 0.00 43.26 3.86
1787 6046 4.442375 TGTCCGTGTCAACAAACAATTT 57.558 36.364 0.00 0.00 0.00 1.82
2213 6472 3.380637 TGCCTTACGTAAAGTTGCCAAAA 59.619 39.130 9.68 0.00 32.89 2.44
2215 6474 2.550606 CTGCCTTACGTAAAGTTGCCAA 59.449 45.455 9.68 0.00 32.89 4.52
2277 6536 2.153898 TTGTGGATTGCCTCCTGGGG 62.154 60.000 4.25 0.00 45.21 4.96
2278 6537 0.251742 TTTGTGGATTGCCTCCTGGG 60.252 55.000 4.25 0.00 45.21 4.45
2279 6538 0.890683 GTTTGTGGATTGCCTCCTGG 59.109 55.000 4.25 0.00 45.21 4.45
2280 6539 0.890683 GGTTTGTGGATTGCCTCCTG 59.109 55.000 4.25 0.00 45.21 3.86
2281 6540 0.482446 TGGTTTGTGGATTGCCTCCT 59.518 50.000 4.25 0.00 45.21 3.69
2282 6541 0.603065 GTGGTTTGTGGATTGCCTCC 59.397 55.000 0.00 0.00 45.19 4.30
2283 6542 1.000274 GTGTGGTTTGTGGATTGCCTC 60.000 52.381 0.00 0.00 34.31 4.70
2284 6543 1.039856 GTGTGGTTTGTGGATTGCCT 58.960 50.000 0.00 0.00 34.31 4.75
2285 6544 0.749649 TGTGTGGTTTGTGGATTGCC 59.250 50.000 0.00 0.00 0.00 4.52
2286 6545 1.408702 AGTGTGTGGTTTGTGGATTGC 59.591 47.619 0.00 0.00 0.00 3.56
2287 6546 2.223782 CCAGTGTGTGGTTTGTGGATTG 60.224 50.000 0.00 0.00 42.17 2.67
2288 6547 2.031120 CCAGTGTGTGGTTTGTGGATT 58.969 47.619 0.00 0.00 42.17 3.01
2289 6548 1.691196 CCAGTGTGTGGTTTGTGGAT 58.309 50.000 0.00 0.00 42.17 3.41
2290 6549 3.183130 CCAGTGTGTGGTTTGTGGA 57.817 52.632 0.00 0.00 42.17 4.02


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

AutoCloner maintained by Alex Coulton.