Multiple sequence alignment - TraesCS3A01G318600

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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 TraesCS3A01G318600 chr3A 100.000 2486 0 0 1 2486 559812525 559815010 0.000000e+00 4591.0
1 TraesCS3A01G318600 chr3A 80.929 603 60 25 1845 2405 560110472 560111061 2.290000e-115 425.0
2 TraesCS3A01G318600 chr3A 77.728 669 86 27 1835 2463 559869269 559869914 3.930000e-93 351.0
3 TraesCS3A01G318600 chr3A 84.706 85 4 2 1540 1624 560132064 560132139 2.650000e-10 76.8
4 TraesCS3A01G318600 chr3D 91.988 961 33 17 1553 2482 427054832 427053885 0.000000e+00 1308.0
5 TraesCS3A01G318600 chr3D 95.979 771 28 2 794 1563 427056771 427056003 0.000000e+00 1249.0
6 TraesCS3A01G318600 chr3D 76.794 655 88 30 1849 2473 427050337 427049717 2.400000e-80 309.0
7 TraesCS3A01G318600 chr3D 91.667 180 11 4 402 581 427057542 427057367 1.910000e-61 246.0
8 TraesCS3A01G318600 chr3D 81.974 233 20 10 578 801 427057287 427057068 7.070000e-41 178.0
9 TraesCS3A01G318600 chr3D 97.619 42 1 0 1596 1637 427021373 427021332 3.430000e-09 73.1
10 TraesCS3A01G318600 chr3B 92.799 861 39 5 681 1531 556686124 556685277 0.000000e+00 1225.0
11 TraesCS3A01G318600 chr3B 79.826 575 69 26 1869 2406 556677016 556676452 2.330000e-100 375.0
12 TraesCS3A01G318600 chr3B 94.118 238 14 0 1 238 403007302 403007065 1.820000e-96 363.0
13 TraesCS3A01G318600 chr3B 96.386 166 6 0 233 398 556687912 556687747 8.760000e-70 274.0
14 TraesCS3A01G318600 chr3B 89.362 188 7 10 474 660 556687161 556686986 8.950000e-55 224.0
15 TraesCS3A01G318600 chr3B 88.742 151 3 4 1703 1839 556677864 556677714 3.290000e-39 172.0
16 TraesCS3A01G318600 chr4A 94.538 238 13 0 1 238 515472987 515472750 3.910000e-98 368.0
17 TraesCS3A01G318600 chr7D 94.118 238 14 0 1 238 175559572 175559335 1.820000e-96 363.0
18 TraesCS3A01G318600 chr4D 94.118 238 14 0 1 238 180215267 180215030 1.820000e-96 363.0
19 TraesCS3A01G318600 chr2D 94.118 238 14 0 1 238 293931538 293931775 1.820000e-96 363.0
20 TraesCS3A01G318600 chr2D 94.118 238 12 2 1 238 497893285 497893520 6.540000e-96 361.0
21 TraesCS3A01G318600 chr2A 94.118 238 14 0 1 238 369959848 369960085 1.820000e-96 363.0
22 TraesCS3A01G318600 chr1D 94.118 238 14 0 1 238 480497306 480497543 1.820000e-96 363.0
23 TraesCS3A01G318600 chr7B 94.118 238 13 1 1 238 140830004 140829768 6.540000e-96 361.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3A01G318600 chr3A 559812525 559815010 2485 False 4591.000000 4591 100.0000 1 2486 1 chr3A.!!$F1 2485
1 TraesCS3A01G318600 chr3A 560110472 560111061 589 False 425.000000 425 80.9290 1845 2405 1 chr3A.!!$F3 560
2 TraesCS3A01G318600 chr3A 559869269 559869914 645 False 351.000000 351 77.7280 1835 2463 1 chr3A.!!$F2 628
3 TraesCS3A01G318600 chr3D 427049717 427057542 7825 True 658.000000 1308 87.6804 402 2482 5 chr3D.!!$R2 2080
4 TraesCS3A01G318600 chr3B 556685277 556687912 2635 True 574.333333 1225 92.8490 233 1531 3 chr3B.!!$R3 1298
5 TraesCS3A01G318600 chr3B 556676452 556677864 1412 True 273.500000 375 84.2840 1703 2406 2 chr3B.!!$R2 703

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
129 130 0.461961 CCGAGGACATGGGAGAAGTC 59.538 60.0 0.0 0.0 0.0 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1547 3321 0.809636 TTGGGATCGCGTATGCACAG 60.81 55.0 5.77 0.0 42.97 3.66 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
21 22 4.584327 GATGCTAGTTGGTTTGTTTGGT 57.416 40.909 0.00 0.00 0.00 3.67
22 23 3.791973 TGCTAGTTGGTTTGTTTGGTG 57.208 42.857 0.00 0.00 0.00 4.17
23 24 2.428890 TGCTAGTTGGTTTGTTTGGTGG 59.571 45.455 0.00 0.00 0.00 4.61
24 25 2.691011 GCTAGTTGGTTTGTTTGGTGGA 59.309 45.455 0.00 0.00 0.00 4.02
25 26 3.131400 GCTAGTTGGTTTGTTTGGTGGAA 59.869 43.478 0.00 0.00 0.00 3.53
26 27 3.885724 AGTTGGTTTGTTTGGTGGAAG 57.114 42.857 0.00 0.00 0.00 3.46
27 28 3.436243 AGTTGGTTTGTTTGGTGGAAGA 58.564 40.909 0.00 0.00 0.00 2.87
28 29 4.030216 AGTTGGTTTGTTTGGTGGAAGAT 58.970 39.130 0.00 0.00 0.00 2.40
29 30 4.099419 AGTTGGTTTGTTTGGTGGAAGATC 59.901 41.667 0.00 0.00 0.00 2.75
30 31 3.636679 TGGTTTGTTTGGTGGAAGATCA 58.363 40.909 0.00 0.00 0.00 2.92
31 32 4.222336 TGGTTTGTTTGGTGGAAGATCAT 58.778 39.130 0.00 0.00 0.00 2.45
32 33 5.389520 TGGTTTGTTTGGTGGAAGATCATA 58.610 37.500 0.00 0.00 0.00 2.15
33 34 6.015918 TGGTTTGTTTGGTGGAAGATCATAT 58.984 36.000 0.00 0.00 0.00 1.78
34 35 6.071447 TGGTTTGTTTGGTGGAAGATCATATG 60.071 38.462 0.00 0.00 0.00 1.78
35 36 6.071391 GGTTTGTTTGGTGGAAGATCATATGT 60.071 38.462 1.90 0.00 0.00 2.29
36 37 7.378181 GTTTGTTTGGTGGAAGATCATATGTT 58.622 34.615 1.90 0.00 0.00 2.71
37 38 6.757897 TGTTTGGTGGAAGATCATATGTTC 57.242 37.500 1.90 4.07 32.25 3.18
38 39 6.244654 TGTTTGGTGGAAGATCATATGTTCA 58.755 36.000 14.67 0.00 34.50 3.18
39 40 6.375174 TGTTTGGTGGAAGATCATATGTTCAG 59.625 38.462 14.67 0.00 34.50 3.02
40 41 5.955961 TGGTGGAAGATCATATGTTCAGA 57.044 39.130 14.67 0.00 34.50 3.27
41 42 6.505048 TGGTGGAAGATCATATGTTCAGAT 57.495 37.500 14.67 2.48 34.50 2.90
42 43 6.528321 TGGTGGAAGATCATATGTTCAGATC 58.472 40.000 14.67 9.83 38.70 2.75
43 44 5.936956 GGTGGAAGATCATATGTTCAGATCC 59.063 44.000 14.67 16.48 39.10 3.36
44 45 6.239829 GGTGGAAGATCATATGTTCAGATCCT 60.240 42.308 21.48 4.45 39.10 3.24
45 46 7.222872 GTGGAAGATCATATGTTCAGATCCTT 58.777 38.462 21.48 8.23 39.10 3.36
46 47 8.370940 GTGGAAGATCATATGTTCAGATCCTTA 58.629 37.037 21.48 9.69 39.10 2.69
47 48 8.937835 TGGAAGATCATATGTTCAGATCCTTAA 58.062 33.333 21.48 9.25 39.10 1.85
48 49 9.956640 GGAAGATCATATGTTCAGATCCTTAAT 57.043 33.333 14.67 0.00 39.10 1.40
85 86 9.775854 ACCTCTCTTATCTTGAACATGAATATG 57.224 33.333 0.00 0.00 40.24 1.78
86 87 8.719648 CCTCTCTTATCTTGAACATGAATATGC 58.280 37.037 0.00 0.00 37.85 3.14
87 88 9.491675 CTCTCTTATCTTGAACATGAATATGCT 57.508 33.333 0.00 0.00 37.85 3.79
88 89 9.842775 TCTCTTATCTTGAACATGAATATGCTT 57.157 29.630 0.00 0.00 37.85 3.91
92 93 9.791820 TTATCTTGAACATGAATATGCTTTGTG 57.208 29.630 0.00 0.00 37.85 3.33
93 94 7.451501 TCTTGAACATGAATATGCTTTGTGA 57.548 32.000 0.00 0.00 37.85 3.58
94 95 7.532571 TCTTGAACATGAATATGCTTTGTGAG 58.467 34.615 0.00 0.00 37.85 3.51
95 96 6.822667 TGAACATGAATATGCTTTGTGAGT 57.177 33.333 0.00 0.00 37.85 3.41
96 97 7.920160 TGAACATGAATATGCTTTGTGAGTA 57.080 32.000 0.00 0.00 37.85 2.59
97 98 7.977904 TGAACATGAATATGCTTTGTGAGTAG 58.022 34.615 0.00 0.00 37.85 2.57
98 99 7.607607 TGAACATGAATATGCTTTGTGAGTAGT 59.392 33.333 0.00 0.00 37.85 2.73
99 100 7.928307 ACATGAATATGCTTTGTGAGTAGTT 57.072 32.000 0.00 0.00 37.85 2.24
100 101 9.448438 AACATGAATATGCTTTGTGAGTAGTTA 57.552 29.630 0.00 0.00 37.85 2.24
101 102 9.618890 ACATGAATATGCTTTGTGAGTAGTTAT 57.381 29.630 0.00 0.00 37.85 1.89
102 103 9.874215 CATGAATATGCTTTGTGAGTAGTTATG 57.126 33.333 0.00 0.00 0.00 1.90
103 104 9.618890 ATGAATATGCTTTGTGAGTAGTTATGT 57.381 29.630 0.00 0.00 0.00 2.29
104 105 9.448438 TGAATATGCTTTGTGAGTAGTTATGTT 57.552 29.630 0.00 0.00 0.00 2.71
107 108 6.935741 TGCTTTGTGAGTAGTTATGTTTGT 57.064 33.333 0.00 0.00 0.00 2.83
108 109 7.328277 TGCTTTGTGAGTAGTTATGTTTGTT 57.672 32.000 0.00 0.00 0.00 2.83
109 110 7.414436 TGCTTTGTGAGTAGTTATGTTTGTTC 58.586 34.615 0.00 0.00 0.00 3.18
110 111 6.856426 GCTTTGTGAGTAGTTATGTTTGTTCC 59.144 38.462 0.00 0.00 0.00 3.62
111 112 6.870971 TTGTGAGTAGTTATGTTTGTTCCC 57.129 37.500 0.00 0.00 0.00 3.97
112 113 4.992319 TGTGAGTAGTTATGTTTGTTCCCG 59.008 41.667 0.00 0.00 0.00 5.14
113 114 5.221481 TGTGAGTAGTTATGTTTGTTCCCGA 60.221 40.000 0.00 0.00 0.00 5.14
114 115 5.347907 GTGAGTAGTTATGTTTGTTCCCGAG 59.652 44.000 0.00 0.00 0.00 4.63
115 116 4.828829 AGTAGTTATGTTTGTTCCCGAGG 58.171 43.478 0.00 0.00 0.00 4.63
116 117 4.529377 AGTAGTTATGTTTGTTCCCGAGGA 59.471 41.667 0.00 0.00 0.00 3.71
117 118 3.671716 AGTTATGTTTGTTCCCGAGGAC 58.328 45.455 0.00 0.00 0.00 3.85
118 119 3.071892 AGTTATGTTTGTTCCCGAGGACA 59.928 43.478 0.00 0.00 0.00 4.02
119 120 2.879103 ATGTTTGTTCCCGAGGACAT 57.121 45.000 0.00 0.00 0.00 3.06
120 121 1.890876 TGTTTGTTCCCGAGGACATG 58.109 50.000 0.00 0.00 0.00 3.21
121 122 1.165270 GTTTGTTCCCGAGGACATGG 58.835 55.000 0.00 0.00 0.00 3.66
128 129 2.596776 CCGAGGACATGGGAGAAGT 58.403 57.895 0.00 0.00 0.00 3.01
129 130 0.461961 CCGAGGACATGGGAGAAGTC 59.538 60.000 0.00 0.00 0.00 3.01
130 131 1.479709 CGAGGACATGGGAGAAGTCT 58.520 55.000 0.00 0.00 32.98 3.24
131 132 1.827969 CGAGGACATGGGAGAAGTCTT 59.172 52.381 0.00 0.00 32.98 3.01
132 133 2.417924 CGAGGACATGGGAGAAGTCTTG 60.418 54.545 0.00 0.00 32.98 3.02
133 134 2.569404 GAGGACATGGGAGAAGTCTTGT 59.431 50.000 0.00 0.00 32.98 3.16
134 135 2.982488 AGGACATGGGAGAAGTCTTGTT 59.018 45.455 0.00 0.00 32.98 2.83
135 136 4.168101 AGGACATGGGAGAAGTCTTGTTA 58.832 43.478 0.00 0.00 32.98 2.41
136 137 4.785376 AGGACATGGGAGAAGTCTTGTTAT 59.215 41.667 0.00 0.00 32.98 1.89
137 138 5.964477 AGGACATGGGAGAAGTCTTGTTATA 59.036 40.000 0.00 0.00 32.98 0.98
138 139 6.443849 AGGACATGGGAGAAGTCTTGTTATAA 59.556 38.462 0.00 0.00 32.98 0.98
139 140 6.763610 GGACATGGGAGAAGTCTTGTTATAAG 59.236 42.308 0.00 0.00 32.98 1.73
140 141 7.259088 ACATGGGAGAAGTCTTGTTATAAGT 57.741 36.000 0.00 0.00 0.00 2.24
141 142 8.375493 ACATGGGAGAAGTCTTGTTATAAGTA 57.625 34.615 0.00 0.00 0.00 2.24
142 143 8.822805 ACATGGGAGAAGTCTTGTTATAAGTAA 58.177 33.333 0.00 0.00 0.00 2.24
143 144 9.838339 CATGGGAGAAGTCTTGTTATAAGTAAT 57.162 33.333 0.00 0.00 0.00 1.89
145 146 9.042450 TGGGAGAAGTCTTGTTATAAGTAATCA 57.958 33.333 0.00 0.00 0.00 2.57
196 197 9.897744 TTTTGATGAGATGTATGTTGTCTTTTC 57.102 29.630 0.00 0.00 0.00 2.29
197 198 8.853077 TTGATGAGATGTATGTTGTCTTTTCT 57.147 30.769 0.00 0.00 0.00 2.52
198 199 8.484641 TGATGAGATGTATGTTGTCTTTTCTC 57.515 34.615 0.00 0.00 0.00 2.87
199 200 8.316946 TGATGAGATGTATGTTGTCTTTTCTCT 58.683 33.333 0.00 0.00 31.78 3.10
200 201 9.809096 GATGAGATGTATGTTGTCTTTTCTCTA 57.191 33.333 0.00 0.00 31.78 2.43
201 202 9.814899 ATGAGATGTATGTTGTCTTTTCTCTAG 57.185 33.333 0.00 0.00 31.78 2.43
202 203 8.807118 TGAGATGTATGTTGTCTTTTCTCTAGT 58.193 33.333 0.00 0.00 31.78 2.57
203 204 8.994429 AGATGTATGTTGTCTTTTCTCTAGTG 57.006 34.615 0.00 0.00 0.00 2.74
204 205 8.037758 AGATGTATGTTGTCTTTTCTCTAGTGG 58.962 37.037 0.00 0.00 0.00 4.00
205 206 7.062749 TGTATGTTGTCTTTTCTCTAGTGGT 57.937 36.000 0.00 0.00 0.00 4.16
206 207 6.929049 TGTATGTTGTCTTTTCTCTAGTGGTG 59.071 38.462 0.00 0.00 0.00 4.17
207 208 5.353394 TGTTGTCTTTTCTCTAGTGGTGT 57.647 39.130 0.00 0.00 0.00 4.16
208 209 5.741011 TGTTGTCTTTTCTCTAGTGGTGTT 58.259 37.500 0.00 0.00 0.00 3.32
209 210 6.880484 TGTTGTCTTTTCTCTAGTGGTGTTA 58.120 36.000 0.00 0.00 0.00 2.41
210 211 7.506114 TGTTGTCTTTTCTCTAGTGGTGTTAT 58.494 34.615 0.00 0.00 0.00 1.89
211 212 7.441157 TGTTGTCTTTTCTCTAGTGGTGTTATG 59.559 37.037 0.00 0.00 0.00 1.90
212 213 7.062749 TGTCTTTTCTCTAGTGGTGTTATGT 57.937 36.000 0.00 0.00 0.00 2.29
213 214 6.929049 TGTCTTTTCTCTAGTGGTGTTATGTG 59.071 38.462 0.00 0.00 0.00 3.21
214 215 7.152645 GTCTTTTCTCTAGTGGTGTTATGTGA 58.847 38.462 0.00 0.00 0.00 3.58
215 216 7.656137 GTCTTTTCTCTAGTGGTGTTATGTGAA 59.344 37.037 0.00 0.00 0.00 3.18
216 217 7.656137 TCTTTTCTCTAGTGGTGTTATGTGAAC 59.344 37.037 0.00 0.00 0.00 3.18
217 218 6.413783 TTCTCTAGTGGTGTTATGTGAACA 57.586 37.500 0.00 0.00 0.00 3.18
218 219 6.413783 TCTCTAGTGGTGTTATGTGAACAA 57.586 37.500 0.00 0.00 31.20 2.83
219 220 6.220930 TCTCTAGTGGTGTTATGTGAACAAC 58.779 40.000 0.00 0.00 38.30 3.32
220 221 4.986034 TCTAGTGGTGTTATGTGAACAACG 59.014 41.667 1.39 0.00 40.58 4.10
221 222 3.799366 AGTGGTGTTATGTGAACAACGA 58.201 40.909 1.39 0.00 40.58 3.85
222 223 3.558418 AGTGGTGTTATGTGAACAACGAC 59.442 43.478 1.39 1.77 40.58 4.34
223 224 3.558418 GTGGTGTTATGTGAACAACGACT 59.442 43.478 1.39 0.00 40.58 4.18
224 225 4.746115 GTGGTGTTATGTGAACAACGACTA 59.254 41.667 1.39 0.00 40.58 2.59
225 226 4.746115 TGGTGTTATGTGAACAACGACTAC 59.254 41.667 1.39 0.00 40.58 2.73
226 227 4.746115 GGTGTTATGTGAACAACGACTACA 59.254 41.667 0.00 0.00 31.20 2.74
227 228 5.407387 GGTGTTATGTGAACAACGACTACAT 59.593 40.000 0.00 0.00 36.15 2.29
228 229 6.296605 GTGTTATGTGAACAACGACTACATG 58.703 40.000 0.00 0.00 34.22 3.21
229 230 6.144886 GTGTTATGTGAACAACGACTACATGA 59.855 38.462 0.00 0.00 34.22 3.07
230 231 6.144886 TGTTATGTGAACAACGACTACATGAC 59.855 38.462 0.00 0.00 38.18 3.06
231 232 4.048241 TGTGAACAACGACTACATGACA 57.952 40.909 0.00 0.00 0.00 3.58
252 253 5.440610 ACACCTCACTTCTCACTTTTTCAT 58.559 37.500 0.00 0.00 0.00 2.57
298 299 2.178912 TTGGTTCAACATCTCGACCC 57.821 50.000 0.00 0.00 0.00 4.46
304 305 3.040147 TCAACATCTCGACCCAACTTC 57.960 47.619 0.00 0.00 0.00 3.01
318 319 4.892934 ACCCAACTTCTGCAATACAAAAGA 59.107 37.500 0.00 0.00 0.00 2.52
328 329 7.648142 TCTGCAATACAAAAGACAGTTAAAGG 58.352 34.615 0.00 0.00 0.00 3.11
368 369 1.334869 CTGGAACTGTGCAACTTCCAC 59.665 52.381 14.24 0.00 43.64 4.02
400 401 1.080705 CGGAGTCACCAGACCGAAC 60.081 63.158 0.00 0.00 46.15 3.95
407 885 0.859232 CACCAGACCGAACTTTCACG 59.141 55.000 0.00 0.00 0.00 4.35
419 897 2.297701 ACTTTCACGGACATTGCAACT 58.702 42.857 0.00 0.00 0.00 3.16
450 929 2.224378 TGAGCTTTCCCACAGTTCTCAG 60.224 50.000 0.00 0.00 0.00 3.35
609 1208 2.218953 TCGACAGTTCACAGTTGGAC 57.781 50.000 0.00 0.00 0.00 4.02
666 2116 1.668419 ACATCCGTAAAGATGGCTGC 58.332 50.000 6.49 0.00 46.56 5.25
715 2165 1.663388 CGCGGTCGCCATAGCAATA 60.663 57.895 9.85 0.00 39.83 1.90
728 2178 4.454678 CATAGCAATAGCCAAACCTCAGA 58.545 43.478 0.00 0.00 43.56 3.27
743 2202 0.692756 TCAGAACACACCTCCCACCA 60.693 55.000 0.00 0.00 0.00 4.17
1010 2774 3.130633 CAACCGCAGCTGTATATAAGCA 58.869 45.455 16.64 0.00 43.37 3.91
1011 2775 2.755650 ACCGCAGCTGTATATAAGCAC 58.244 47.619 16.64 0.00 43.37 4.40
1017 2781 2.907042 AGCTGTATATAAGCACCTCCCC 59.093 50.000 15.00 0.00 43.37 4.81
1018 2782 2.353803 GCTGTATATAAGCACCTCCCCG 60.354 54.545 10.29 0.00 40.52 5.73
1055 2819 2.444624 CGACACCGGCGTCAATCAG 61.445 63.158 21.81 1.90 35.54 2.90
1189 2953 3.461773 CTCGTCCCTGGTCGGCAT 61.462 66.667 3.14 0.00 0.00 4.40
1339 3103 3.558411 CTTCTGCTAGGCGTGCGC 61.558 66.667 8.17 8.17 41.06 6.09
1396 3162 1.542915 TGCATGCTCTTCTTTTCTGGC 59.457 47.619 20.33 0.00 0.00 4.85
1418 3184 3.533606 TTTGTTGTTGTGGGTTCATGG 57.466 42.857 0.00 0.00 0.00 3.66
1465 3239 3.056821 TGGTTCGAGGTCTGTAGTTGATG 60.057 47.826 0.00 0.00 0.00 3.07
1579 4534 2.611518 GATCCCAACTCTCACGAACTG 58.388 52.381 0.00 0.00 0.00 3.16
1649 4605 3.133003 GGCCAGAACAGCTAGAGATACAA 59.867 47.826 0.00 0.00 0.00 2.41
1651 4607 4.568760 GCCAGAACAGCTAGAGATACAAAC 59.431 45.833 0.00 0.00 0.00 2.93
1652 4608 5.724328 CCAGAACAGCTAGAGATACAAACA 58.276 41.667 0.00 0.00 0.00 2.83
1653 4609 5.809562 CCAGAACAGCTAGAGATACAAACAG 59.190 44.000 0.00 0.00 0.00 3.16
1654 4610 5.290643 CAGAACAGCTAGAGATACAAACAGC 59.709 44.000 0.00 0.00 0.00 4.40
1655 4611 4.808414 ACAGCTAGAGATACAAACAGCA 57.192 40.909 0.00 0.00 0.00 4.41
1656 4612 4.753233 ACAGCTAGAGATACAAACAGCAG 58.247 43.478 0.00 0.00 0.00 4.24
1657 4613 3.555139 CAGCTAGAGATACAAACAGCAGC 59.445 47.826 0.00 0.00 0.00 5.25
1658 4614 3.450457 AGCTAGAGATACAAACAGCAGCT 59.550 43.478 0.00 0.00 32.23 4.24
1699 4656 2.886523 CCTGTGCTGTTTTCTTCATGGA 59.113 45.455 0.00 0.00 0.00 3.41
1700 4657 3.318839 CCTGTGCTGTTTTCTTCATGGAA 59.681 43.478 0.00 0.00 0.00 3.53
1741 4698 1.985662 TTCGCTCCCCTTAGCCGAA 60.986 57.895 0.00 0.00 39.43 4.30
1837 4808 9.860898 GCACAACTTCTAAAAATCAAATATCCT 57.139 29.630 0.00 0.00 0.00 3.24
1940 5586 3.697166 GGGCTTTCCTTCCAAGTCAATA 58.303 45.455 0.00 0.00 0.00 1.90
2143 10032 7.046652 TGAACATGTGACATTTTGTTTCCAAT 58.953 30.769 1.14 0.00 32.73 3.16
2147 10036 8.738106 ACATGTGACATTTTGTTTCCAATTTTT 58.262 25.926 0.00 0.00 0.00 1.94
2198 10087 6.593382 TGGAAATGTGAACAAACTTTGGAAAG 59.407 34.615 6.47 0.00 41.73 2.62
2271 10164 8.527567 TTGAAAATCCGAACATTTATTGGAAC 57.472 30.769 0.00 0.00 31.42 3.62
2292 10187 8.772705 TGGAACTGTGATTTTTGAAAATTATGC 58.227 29.630 3.45 0.00 38.64 3.14
2436 10368 3.742385 ACAATTTTTGCATGTCCCCAAG 58.258 40.909 0.00 0.00 0.00 3.61
2437 10369 2.477845 ATTTTTGCATGTCCCCAAGC 57.522 45.000 0.00 0.00 35.88 4.01
2441 10373 0.609151 TTGCATGTCCCCAAGCATTG 59.391 50.000 0.00 0.00 44.01 2.82
2444 10376 1.134946 GCATGTCCCCAAGCATTGTAC 59.865 52.381 0.00 0.00 46.99 2.90
2447 10379 1.338674 TGTCCCCAAGCATTGTACGAG 60.339 52.381 0.00 0.00 46.99 4.18
2451 10383 2.614057 CCCCAAGCATTGTACGAGAATC 59.386 50.000 0.00 0.00 46.99 2.52
2454 10386 4.183865 CCAAGCATTGTACGAGAATCTGA 58.816 43.478 0.00 0.00 46.99 3.27
2455 10387 4.813161 CCAAGCATTGTACGAGAATCTGAT 59.187 41.667 0.00 0.00 46.99 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.298332 CACCAAACAAACCAACTAGCATC 58.702 43.478 0.00 0.00 0.00 3.91
1 2 3.069443 CCACCAAACAAACCAACTAGCAT 59.931 43.478 0.00 0.00 0.00 3.79
2 3 2.428890 CCACCAAACAAACCAACTAGCA 59.571 45.455 0.00 0.00 0.00 3.49
3 4 2.691011 TCCACCAAACAAACCAACTAGC 59.309 45.455 0.00 0.00 0.00 3.42
4 5 4.642885 TCTTCCACCAAACAAACCAACTAG 59.357 41.667 0.00 0.00 0.00 2.57
6 7 3.436243 TCTTCCACCAAACAAACCAACT 58.564 40.909 0.00 0.00 0.00 3.16
7 8 3.878160 TCTTCCACCAAACAAACCAAC 57.122 42.857 0.00 0.00 0.00 3.77
9 10 3.636679 TGATCTTCCACCAAACAAACCA 58.363 40.909 0.00 0.00 0.00 3.67
11 12 6.924111 ACATATGATCTTCCACCAAACAAAC 58.076 36.000 10.38 0.00 0.00 2.93
12 13 7.232330 TGAACATATGATCTTCCACCAAACAAA 59.768 33.333 10.38 0.00 0.00 2.83
13 14 6.718912 TGAACATATGATCTTCCACCAAACAA 59.281 34.615 10.38 0.00 0.00 2.83
14 15 6.244654 TGAACATATGATCTTCCACCAAACA 58.755 36.000 10.38 0.00 0.00 2.83
15 16 6.599244 TCTGAACATATGATCTTCCACCAAAC 59.401 38.462 10.38 0.00 0.00 2.93
16 17 6.720309 TCTGAACATATGATCTTCCACCAAA 58.280 36.000 10.38 0.00 0.00 3.28
17 18 6.312141 TCTGAACATATGATCTTCCACCAA 57.688 37.500 10.38 0.00 0.00 3.67
18 19 5.955961 TCTGAACATATGATCTTCCACCA 57.044 39.130 10.38 0.00 0.00 4.17
19 20 5.936956 GGATCTGAACATATGATCTTCCACC 59.063 44.000 10.38 5.58 37.38 4.61
20 21 6.767456 AGGATCTGAACATATGATCTTCCAC 58.233 40.000 21.04 9.47 37.38 4.02
21 22 7.384524 AAGGATCTGAACATATGATCTTCCA 57.615 36.000 21.04 3.66 37.38 3.53
22 23 9.956640 ATTAAGGATCTGAACATATGATCTTCC 57.043 33.333 10.38 14.01 37.38 3.46
59 60 9.775854 CATATTCATGTTCAAGATAAGAGAGGT 57.224 33.333 0.00 0.00 0.00 3.85
60 61 8.719648 GCATATTCATGTTCAAGATAAGAGAGG 58.280 37.037 0.00 0.00 34.40 3.69
61 62 9.491675 AGCATATTCATGTTCAAGATAAGAGAG 57.508 33.333 0.00 0.00 34.40 3.20
62 63 9.842775 AAGCATATTCATGTTCAAGATAAGAGA 57.157 29.630 0.00 0.00 34.40 3.10
66 67 9.791820 CACAAAGCATATTCATGTTCAAGATAA 57.208 29.630 0.00 0.00 34.40 1.75
67 68 9.176460 TCACAAAGCATATTCATGTTCAAGATA 57.824 29.630 0.00 0.00 34.40 1.98
68 69 8.058667 TCACAAAGCATATTCATGTTCAAGAT 57.941 30.769 0.00 0.00 34.40 2.40
69 70 7.175467 ACTCACAAAGCATATTCATGTTCAAGA 59.825 33.333 0.00 0.00 34.40 3.02
70 71 7.310664 ACTCACAAAGCATATTCATGTTCAAG 58.689 34.615 0.00 0.00 34.40 3.02
71 72 7.218228 ACTCACAAAGCATATTCATGTTCAA 57.782 32.000 0.00 0.00 34.40 2.69
72 73 6.822667 ACTCACAAAGCATATTCATGTTCA 57.177 33.333 0.00 0.00 34.40 3.18
73 74 7.978982 ACTACTCACAAAGCATATTCATGTTC 58.021 34.615 0.00 0.00 34.40 3.18
74 75 7.928307 ACTACTCACAAAGCATATTCATGTT 57.072 32.000 0.00 0.00 34.40 2.71
75 76 7.928307 AACTACTCACAAAGCATATTCATGT 57.072 32.000 0.00 0.00 34.40 3.21
76 77 9.874215 CATAACTACTCACAAAGCATATTCATG 57.126 33.333 0.00 0.00 35.07 3.07
77 78 9.618890 ACATAACTACTCACAAAGCATATTCAT 57.381 29.630 0.00 0.00 0.00 2.57
78 79 9.448438 AACATAACTACTCACAAAGCATATTCA 57.552 29.630 0.00 0.00 0.00 2.57
81 82 9.231297 ACAAACATAACTACTCACAAAGCATAT 57.769 29.630 0.00 0.00 0.00 1.78
82 83 8.615878 ACAAACATAACTACTCACAAAGCATA 57.384 30.769 0.00 0.00 0.00 3.14
83 84 7.510549 ACAAACATAACTACTCACAAAGCAT 57.489 32.000 0.00 0.00 0.00 3.79
84 85 6.935741 ACAAACATAACTACTCACAAAGCA 57.064 33.333 0.00 0.00 0.00 3.91
85 86 6.856426 GGAACAAACATAACTACTCACAAAGC 59.144 38.462 0.00 0.00 0.00 3.51
86 87 7.360361 GGGAACAAACATAACTACTCACAAAG 58.640 38.462 0.00 0.00 0.00 2.77
87 88 6.017770 CGGGAACAAACATAACTACTCACAAA 60.018 38.462 0.00 0.00 0.00 2.83
88 89 5.467399 CGGGAACAAACATAACTACTCACAA 59.533 40.000 0.00 0.00 0.00 3.33
89 90 4.992319 CGGGAACAAACATAACTACTCACA 59.008 41.667 0.00 0.00 0.00 3.58
90 91 5.232463 TCGGGAACAAACATAACTACTCAC 58.768 41.667 0.00 0.00 0.00 3.51
91 92 5.471556 TCGGGAACAAACATAACTACTCA 57.528 39.130 0.00 0.00 0.00 3.41
92 93 4.868734 CCTCGGGAACAAACATAACTACTC 59.131 45.833 0.00 0.00 0.00 2.59
93 94 4.529377 TCCTCGGGAACAAACATAACTACT 59.471 41.667 0.00 0.00 0.00 2.57
94 95 4.628766 GTCCTCGGGAACAAACATAACTAC 59.371 45.833 0.00 0.00 31.38 2.73
95 96 4.283978 TGTCCTCGGGAACAAACATAACTA 59.716 41.667 0.00 0.00 31.38 2.24
96 97 3.071892 TGTCCTCGGGAACAAACATAACT 59.928 43.478 0.00 0.00 31.38 2.24
97 98 3.404899 TGTCCTCGGGAACAAACATAAC 58.595 45.455 0.00 0.00 31.38 1.89
98 99 3.773418 TGTCCTCGGGAACAAACATAA 57.227 42.857 0.00 0.00 31.38 1.90
99 100 3.605634 CATGTCCTCGGGAACAAACATA 58.394 45.455 0.00 0.00 31.38 2.29
100 101 2.436417 CATGTCCTCGGGAACAAACAT 58.564 47.619 0.00 0.00 31.38 2.71
101 102 1.544537 CCATGTCCTCGGGAACAAACA 60.545 52.381 0.00 0.00 31.38 2.83
102 103 1.165270 CCATGTCCTCGGGAACAAAC 58.835 55.000 0.00 0.00 31.38 2.93
103 104 0.037590 CCCATGTCCTCGGGAACAAA 59.962 55.000 0.00 0.00 46.34 2.83
104 105 1.682849 CCCATGTCCTCGGGAACAA 59.317 57.895 0.00 0.00 46.34 2.83
105 106 3.399046 CCCATGTCCTCGGGAACA 58.601 61.111 0.00 0.00 46.34 3.18
109 110 0.978146 ACTTCTCCCATGTCCTCGGG 60.978 60.000 0.00 0.00 44.60 5.14
110 111 0.461961 GACTTCTCCCATGTCCTCGG 59.538 60.000 0.00 0.00 0.00 4.63
111 112 1.479709 AGACTTCTCCCATGTCCTCG 58.520 55.000 0.00 0.00 30.79 4.63
112 113 2.569404 ACAAGACTTCTCCCATGTCCTC 59.431 50.000 0.00 0.00 30.79 3.71
113 114 2.625639 ACAAGACTTCTCCCATGTCCT 58.374 47.619 0.00 0.00 30.79 3.85
114 115 3.425162 AACAAGACTTCTCCCATGTCC 57.575 47.619 0.00 0.00 30.79 4.02
115 116 7.331791 ACTTATAACAAGACTTCTCCCATGTC 58.668 38.462 0.00 0.00 0.00 3.06
116 117 7.259088 ACTTATAACAAGACTTCTCCCATGT 57.741 36.000 0.00 0.00 0.00 3.21
117 118 9.838339 ATTACTTATAACAAGACTTCTCCCATG 57.162 33.333 0.00 0.00 0.00 3.66
119 120 9.042450 TGATTACTTATAACAAGACTTCTCCCA 57.958 33.333 0.00 0.00 0.00 4.37
170 171 9.897744 GAAAAGACAACATACATCTCATCAAAA 57.102 29.630 0.00 0.00 0.00 2.44
171 172 9.288576 AGAAAAGACAACATACATCTCATCAAA 57.711 29.630 0.00 0.00 0.00 2.69
172 173 8.853077 AGAAAAGACAACATACATCTCATCAA 57.147 30.769 0.00 0.00 0.00 2.57
173 174 8.316946 AGAGAAAAGACAACATACATCTCATCA 58.683 33.333 0.00 0.00 35.63 3.07
174 175 8.715191 AGAGAAAAGACAACATACATCTCATC 57.285 34.615 0.00 0.00 35.63 2.92
175 176 9.814899 CTAGAGAAAAGACAACATACATCTCAT 57.185 33.333 0.00 0.00 35.63 2.90
176 177 8.807118 ACTAGAGAAAAGACAACATACATCTCA 58.193 33.333 0.00 0.00 35.63 3.27
177 178 9.081997 CACTAGAGAAAAGACAACATACATCTC 57.918 37.037 0.00 0.00 33.87 2.75
178 179 8.037758 CCACTAGAGAAAAGACAACATACATCT 58.962 37.037 0.00 0.00 0.00 2.90
179 180 7.819900 ACCACTAGAGAAAAGACAACATACATC 59.180 37.037 0.00 0.00 0.00 3.06
180 181 7.604164 CACCACTAGAGAAAAGACAACATACAT 59.396 37.037 0.00 0.00 0.00 2.29
181 182 6.929049 CACCACTAGAGAAAAGACAACATACA 59.071 38.462 0.00 0.00 0.00 2.29
182 183 6.929606 ACACCACTAGAGAAAAGACAACATAC 59.070 38.462 0.00 0.00 0.00 2.39
183 184 7.062749 ACACCACTAGAGAAAAGACAACATA 57.937 36.000 0.00 0.00 0.00 2.29
184 185 5.930135 ACACCACTAGAGAAAAGACAACAT 58.070 37.500 0.00 0.00 0.00 2.71
185 186 5.353394 ACACCACTAGAGAAAAGACAACA 57.647 39.130 0.00 0.00 0.00 3.33
186 187 7.441458 ACATAACACCACTAGAGAAAAGACAAC 59.559 37.037 0.00 0.00 0.00 3.32
187 188 7.441157 CACATAACACCACTAGAGAAAAGACAA 59.559 37.037 0.00 0.00 0.00 3.18
188 189 6.929049 CACATAACACCACTAGAGAAAAGACA 59.071 38.462 0.00 0.00 0.00 3.41
189 190 7.152645 TCACATAACACCACTAGAGAAAAGAC 58.847 38.462 0.00 0.00 0.00 3.01
190 191 7.297936 TCACATAACACCACTAGAGAAAAGA 57.702 36.000 0.00 0.00 0.00 2.52
191 192 7.441157 TGTTCACATAACACCACTAGAGAAAAG 59.559 37.037 0.00 0.00 0.00 2.27
192 193 7.276658 TGTTCACATAACACCACTAGAGAAAA 58.723 34.615 0.00 0.00 0.00 2.29
193 194 6.822442 TGTTCACATAACACCACTAGAGAAA 58.178 36.000 0.00 0.00 0.00 2.52
194 195 6.413783 TGTTCACATAACACCACTAGAGAA 57.586 37.500 0.00 0.00 0.00 2.87
195 196 6.220930 GTTGTTCACATAACACCACTAGAGA 58.779 40.000 0.00 0.00 0.00 3.10
196 197 5.118664 CGTTGTTCACATAACACCACTAGAG 59.881 44.000 0.00 0.00 0.00 2.43
197 198 4.986034 CGTTGTTCACATAACACCACTAGA 59.014 41.667 0.00 0.00 0.00 2.43
198 199 4.986034 TCGTTGTTCACATAACACCACTAG 59.014 41.667 0.00 0.00 0.00 2.57
199 200 4.746115 GTCGTTGTTCACATAACACCACTA 59.254 41.667 0.00 0.00 0.00 2.74
200 201 3.558418 GTCGTTGTTCACATAACACCACT 59.442 43.478 0.00 0.00 0.00 4.00
201 202 3.558418 AGTCGTTGTTCACATAACACCAC 59.442 43.478 0.00 0.00 0.00 4.16
202 203 3.799366 AGTCGTTGTTCACATAACACCA 58.201 40.909 0.00 0.00 0.00 4.17
203 204 4.746115 TGTAGTCGTTGTTCACATAACACC 59.254 41.667 0.00 0.00 0.00 4.16
204 205 5.893512 TGTAGTCGTTGTTCACATAACAC 57.106 39.130 0.00 0.00 0.00 3.32
205 206 6.144886 GTCATGTAGTCGTTGTTCACATAACA 59.855 38.462 0.00 0.00 0.00 2.41
206 207 6.144886 TGTCATGTAGTCGTTGTTCACATAAC 59.855 38.462 0.00 0.00 0.00 1.89
207 208 6.144886 GTGTCATGTAGTCGTTGTTCACATAA 59.855 38.462 0.00 0.00 0.00 1.90
208 209 5.631929 GTGTCATGTAGTCGTTGTTCACATA 59.368 40.000 0.00 0.00 0.00 2.29
209 210 4.447724 GTGTCATGTAGTCGTTGTTCACAT 59.552 41.667 0.00 0.00 0.00 3.21
210 211 3.799963 GTGTCATGTAGTCGTTGTTCACA 59.200 43.478 0.00 0.00 0.00 3.58
211 212 3.183775 GGTGTCATGTAGTCGTTGTTCAC 59.816 47.826 0.00 0.00 0.00 3.18
212 213 3.069016 AGGTGTCATGTAGTCGTTGTTCA 59.931 43.478 0.00 0.00 0.00 3.18
213 214 3.650139 AGGTGTCATGTAGTCGTTGTTC 58.350 45.455 0.00 0.00 0.00 3.18
214 215 3.069016 TGAGGTGTCATGTAGTCGTTGTT 59.931 43.478 0.00 0.00 0.00 2.83
215 216 2.626266 TGAGGTGTCATGTAGTCGTTGT 59.374 45.455 0.00 0.00 0.00 3.32
216 217 2.987149 GTGAGGTGTCATGTAGTCGTTG 59.013 50.000 0.00 0.00 34.36 4.10
217 218 2.891580 AGTGAGGTGTCATGTAGTCGTT 59.108 45.455 0.00 0.00 34.36 3.85
218 219 2.515854 AGTGAGGTGTCATGTAGTCGT 58.484 47.619 0.00 0.00 34.36 4.34
219 220 3.191581 AGAAGTGAGGTGTCATGTAGTCG 59.808 47.826 0.00 0.00 34.36 4.18
220 221 4.218635 TGAGAAGTGAGGTGTCATGTAGTC 59.781 45.833 0.00 0.00 34.36 2.59
221 222 4.021894 GTGAGAAGTGAGGTGTCATGTAGT 60.022 45.833 0.00 0.00 34.36 2.73
222 223 4.219507 AGTGAGAAGTGAGGTGTCATGTAG 59.780 45.833 0.00 0.00 34.36 2.74
223 224 4.152647 AGTGAGAAGTGAGGTGTCATGTA 58.847 43.478 0.00 0.00 34.36 2.29
224 225 2.968574 AGTGAGAAGTGAGGTGTCATGT 59.031 45.455 0.00 0.00 34.36 3.21
225 226 3.674528 AGTGAGAAGTGAGGTGTCATG 57.325 47.619 0.00 0.00 34.36 3.07
226 227 4.696479 AAAGTGAGAAGTGAGGTGTCAT 57.304 40.909 0.00 0.00 34.36 3.06
227 228 4.487714 AAAAGTGAGAAGTGAGGTGTCA 57.512 40.909 0.00 0.00 0.00 3.58
228 229 4.876107 TGAAAAAGTGAGAAGTGAGGTGTC 59.124 41.667 0.00 0.00 0.00 3.67
229 230 4.843728 TGAAAAAGTGAGAAGTGAGGTGT 58.156 39.130 0.00 0.00 0.00 4.16
230 231 7.496529 TTATGAAAAAGTGAGAAGTGAGGTG 57.503 36.000 0.00 0.00 0.00 4.00
231 232 7.775561 ACTTTATGAAAAAGTGAGAAGTGAGGT 59.224 33.333 2.49 0.00 38.88 3.85
252 253 3.396611 ACCCTAAACCAGCTCCAACTTTA 59.603 43.478 0.00 0.00 0.00 1.85
298 299 6.498304 ACTGTCTTTTGTATTGCAGAAGTTG 58.502 36.000 5.22 1.24 39.50 3.16
304 305 7.648142 TCCTTTAACTGTCTTTTGTATTGCAG 58.352 34.615 0.00 0.00 0.00 4.41
318 319 7.616313 TGTGGTTGAAATTTTCCTTTAACTGT 58.384 30.769 6.68 0.00 0.00 3.55
328 329 6.690530 TCCAGATCATGTGGTTGAAATTTTC 58.309 36.000 0.00 2.05 36.37 2.29
368 369 0.522180 ACTCCGAGACTTGCACTACG 59.478 55.000 1.33 0.00 0.00 3.51
398 399 2.687935 AGTTGCAATGTCCGTGAAAGTT 59.312 40.909 0.59 0.00 0.00 2.66
400 401 4.481930 TTAGTTGCAATGTCCGTGAAAG 57.518 40.909 0.59 0.00 0.00 2.62
407 885 6.039616 TCAAAGTTGTTTAGTTGCAATGTCC 58.960 36.000 0.59 0.00 0.00 4.02
419 897 4.707448 TGTGGGAAAGCTCAAAGTTGTTTA 59.293 37.500 0.00 0.00 0.00 2.01
450 929 4.757149 AGGTATGAGAAAGTTGTTGTGAGC 59.243 41.667 0.00 0.00 0.00 4.26
609 1208 6.796426 TCTAGAAGATTTCATGGTCGTACAG 58.204 40.000 0.00 0.00 0.00 2.74
673 2123 4.528596 AGCTGCTCCATACGGATACTATTT 59.471 41.667 0.00 0.00 41.79 1.40
674 2124 4.090090 AGCTGCTCCATACGGATACTATT 58.910 43.478 0.00 0.00 41.79 1.73
675 2125 3.697045 GAGCTGCTCCATACGGATACTAT 59.303 47.826 18.80 0.00 41.79 2.12
676 2126 3.082548 GAGCTGCTCCATACGGATACTA 58.917 50.000 18.80 0.00 41.79 1.82
677 2127 1.889829 GAGCTGCTCCATACGGATACT 59.110 52.381 18.80 0.00 41.79 2.12
678 2128 1.401670 CGAGCTGCTCCATACGGATAC 60.402 57.143 22.97 0.00 41.79 2.24
679 2129 0.881796 CGAGCTGCTCCATACGGATA 59.118 55.000 22.97 0.00 41.79 2.59
715 2165 1.680338 GTGTGTTCTGAGGTTTGGCT 58.320 50.000 0.00 0.00 0.00 4.75
728 2178 1.703411 CAAATGGTGGGAGGTGTGTT 58.297 50.000 0.00 0.00 0.00 3.32
989 2753 3.059597 GTGCTTATATACAGCTGCGGTTG 60.060 47.826 15.27 7.97 38.19 3.77
992 2756 2.069273 GGTGCTTATATACAGCTGCGG 58.931 52.381 15.27 0.00 38.19 5.69
1055 2819 3.903932 GAAGGCGCCTTGTTGCTGC 62.904 63.158 44.71 24.84 36.26 5.25
1305 3069 4.125695 GAGGTAGCCGAACGCCGT 62.126 66.667 0.00 0.00 38.78 5.68
1339 3103 4.579384 AACCGGGCGCCATATGGG 62.579 66.667 30.85 21.69 40.85 4.00
1376 3142 1.542915 GCCAGAAAAGAAGAGCATGCA 59.457 47.619 21.98 0.00 0.00 3.96
1377 3143 1.542915 TGCCAGAAAAGAAGAGCATGC 59.457 47.619 10.51 10.51 0.00 4.06
1396 3162 3.808726 CCATGAACCCACAACAACAAATG 59.191 43.478 0.00 0.00 0.00 2.32
1433 3199 2.475487 GACCTCGAACCAAGAAACGAAG 59.525 50.000 0.00 0.00 34.50 3.79
1465 3239 2.433868 ATCGTCACTGTACACACACC 57.566 50.000 0.00 0.00 0.00 4.16
1547 3321 0.809636 TTGGGATCGCGTATGCACAG 60.810 55.000 5.77 0.00 42.97 3.66
1558 4513 1.202582 AGTTCGTGAGAGTTGGGATCG 59.797 52.381 0.00 0.00 43.69 3.69
1579 4534 1.670811 CCACACTTCCACAGTCAACAC 59.329 52.381 0.00 0.00 30.92 3.32
1655 4611 7.443575 CAGGACATCAGCAACTAATAAATAGCT 59.556 37.037 0.00 0.00 34.78 3.32
1656 4612 7.227512 ACAGGACATCAGCAACTAATAAATAGC 59.772 37.037 0.00 0.00 34.78 2.97
1657 4613 8.554528 CACAGGACATCAGCAACTAATAAATAG 58.445 37.037 0.00 0.00 37.66 1.73
1658 4614 7.012327 GCACAGGACATCAGCAACTAATAAATA 59.988 37.037 0.00 0.00 0.00 1.40
1741 4698 7.395190 TTTGTCGATCAAAATTCTGATGGAT 57.605 32.000 9.35 0.00 40.99 3.41
1951 5603 6.296026 TCACCTAATTGCACACTTAGAGTTT 58.704 36.000 8.79 0.00 0.00 2.66
2252 10145 5.943416 TCACAGTTCCAATAAATGTTCGGAT 59.057 36.000 0.00 0.00 0.00 4.18
2325 10233 9.260002 AGACTTTCAAATTGTTCGCAAATTTAT 57.740 25.926 0.00 0.00 40.90 1.40
2326 10234 8.641499 AGACTTTCAAATTGTTCGCAAATTTA 57.359 26.923 0.00 0.00 40.90 1.40
2329 10237 6.272318 TGAGACTTTCAAATTGTTCGCAAAT 58.728 32.000 0.00 0.00 35.12 2.32
2408 10340 5.239087 GGGACATGCAAAAATTGTTCATGTT 59.761 36.000 19.02 9.56 45.16 2.71
2410 10342 4.154556 GGGGACATGCAAAAATTGTTCATG 59.845 41.667 14.32 14.32 40.07 3.07
2411 10343 4.202440 TGGGGACATGCAAAAATTGTTCAT 60.202 37.500 0.00 0.00 33.40 2.57
2412 10344 3.135348 TGGGGACATGCAAAAATTGTTCA 59.865 39.130 0.00 0.00 33.40 3.18
2413 10345 3.737850 TGGGGACATGCAAAAATTGTTC 58.262 40.909 0.00 0.00 33.40 3.18
2414 10346 3.853355 TGGGGACATGCAAAAATTGTT 57.147 38.095 0.00 0.00 33.40 2.83
2415 10347 3.742385 CTTGGGGACATGCAAAAATTGT 58.258 40.909 0.00 0.00 42.32 2.71
2425 10357 1.401552 CGTACAATGCTTGGGGACATG 59.598 52.381 0.00 0.00 42.32 3.21
2426 10358 1.280710 TCGTACAATGCTTGGGGACAT 59.719 47.619 0.00 0.00 42.32 3.06
2436 10368 5.725110 ACAATCAGATTCTCGTACAATGC 57.275 39.130 0.00 0.00 0.00 3.56
2437 10369 8.955061 AAAAACAATCAGATTCTCGTACAATG 57.045 30.769 0.00 0.00 0.00 2.82


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

AutoCloner maintained by Alex Coulton.