Multiple sequence alignment - TraesCS6A01G231300

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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 TraesCS6A01G231300 chr6A 100.000 2880 0 0 1 2880 436119751 436122630 0.000000e+00 5319.0
1 TraesCS6A01G231300 chr6A 92.949 312 20 2 93 402 587734477 587734788 1.220000e-123 453.0
2 TraesCS6A01G231300 chr6B 94.324 1339 46 12 814 2143 449447977 449446660 0.000000e+00 2025.0
3 TraesCS6A01G231300 chr6B 93.699 730 40 5 2150 2878 449446681 449445957 0.000000e+00 1088.0
4 TraesCS6A01G231300 chr6B 90.000 430 26 14 396 816 449448425 449448004 9.080000e-150 540.0
5 TraesCS6A01G231300 chr6B 87.302 63 3 3 2012 2069 581311144 581311206 1.850000e-07 67.6
6 TraesCS6A01G231300 chr6D 94.487 1306 38 14 814 2099 289024746 289023455 0.000000e+00 1982.0
7 TraesCS6A01G231300 chr6D 92.868 673 42 4 2206 2878 289022063 289021397 0.000000e+00 972.0
8 TraesCS6A01G231300 chr6D 94.076 422 17 5 398 816 289025189 289024773 4.050000e-178 634.0
9 TraesCS6A01G231300 chr6D 95.714 70 3 0 2098 2167 289023037 289022968 2.350000e-21 113.0
10 TraesCS6A01G231300 chr6D 92.405 79 5 1 2 79 289025267 289025189 8.440000e-21 111.0
11 TraesCS6A01G231300 chr6D 85.714 63 4 3 2012 2069 388635483 388635545 8.620000e-06 62.1
12 TraesCS6A01G231300 chr4A 95.146 309 11 3 96 400 578150584 578150276 4.310000e-133 484.0
13 TraesCS6A01G231300 chr4A 94.737 304 14 2 99 400 12687995 12688298 3.360000e-129 472.0
14 TraesCS6A01G231300 chr7A 94.551 312 15 2 93 402 122912938 122913249 5.580000e-132 481.0
15 TraesCS6A01G231300 chr7A 94.481 308 13 4 96 400 168459092 168458786 3.360000e-129 472.0
16 TraesCS6A01G231300 chr2A 93.458 321 19 2 88 406 621482794 621483114 2.600000e-130 475.0
17 TraesCS6A01G231300 chr2A 92.879 323 17 6 95 412 11238896 11239217 5.620000e-127 464.0
18 TraesCS6A01G231300 chr3A 94.118 306 16 2 99 402 21660134 21659829 5.620000e-127 464.0
19 TraesCS6A01G231300 chr1A 94.079 304 16 2 99 400 571740378 571740075 7.270000e-126 460.0
20 TraesCS6A01G231300 chr1D 87.500 80 7 2 2481 2557 45281061 45281140 3.950000e-14 89.8
21 TraesCS6A01G231300 chr4D 81.720 93 7 7 2481 2565 418512849 418512939 5.150000e-08 69.4
22 TraesCS6A01G231300 chr3B 90.196 51 2 3 2482 2530 830238302 830238253 2.400000e-06 63.9
23 TraesCS6A01G231300 chr3B 90.196 51 2 3 2482 2530 830512421 830512372 2.400000e-06 63.9
24 TraesCS6A01G231300 chrUn 88.235 51 3 3 2482 2530 43048400 43048351 1.110000e-04 58.4
25 TraesCS6A01G231300 chrUn 88.235 51 3 3 2482 2530 219484045 219484094 1.110000e-04 58.4
26 TraesCS6A01G231300 chrUn 88.235 51 3 3 2482 2530 237802390 237802439 1.110000e-04 58.4


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 TraesCS6A01G231300 chr6A 436119751 436122630 2879 False 5319.000000 5319 100.000000 1 2880 1 chr6A.!!$F1 2879
1 TraesCS6A01G231300 chr6B 449445957 449448425 2468 True 1217.666667 2025 92.674333 396 2878 3 chr6B.!!$R1 2482
2 TraesCS6A01G231300 chr6D 289021397 289025267 3870 True 762.400000 1982 93.910000 2 2878 5 chr6D.!!$R1 2876

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
79 80 0.321671 AAAGCCTAAGCGTCTCAGCA 59.678 50.0 0.0 0.0 46.67 4.41 F
80 81 0.390472 AAGCCTAAGCGTCTCAGCAC 60.390 55.0 0.0 0.0 46.67 4.40 F
1027 1064 0.246635 TCCAAGCAACCGAGACTAGC 59.753 55.0 0.0 0.0 0.00 3.42 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1023 1060 0.738975 TCGGTGGATTCGTGAGCTAG 59.261 55.0 0.0 0.0 0.00 3.42 R
1041 1078 0.809241 CTGTGCCTCGCTTCCTGATC 60.809 60.0 0.0 0.0 0.00 2.92 R
2167 2643 0.104620 ACCCCAAGGCCCTATATCGT 60.105 55.0 0.0 0.0 36.11 3.73 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
42 43 6.187682 AGTTTCTCATTCCCCGTGATATTTT 58.812 36.000 0.00 0.00 0.00 1.82
47 48 6.940298 TCTCATTCCCCGTGATATTTTTATCC 59.060 38.462 0.00 0.00 0.00 2.59
55 56 7.883311 CCCCGTGATATTTTTATCCTATGAACT 59.117 37.037 0.00 0.00 0.00 3.01
72 73 3.007614 TGAACTAAGGAAAGCCTAAGCGT 59.992 43.478 0.00 0.00 46.28 5.07
73 74 3.248495 ACTAAGGAAAGCCTAAGCGTC 57.752 47.619 0.00 0.00 46.28 5.19
75 76 2.388310 AAGGAAAGCCTAAGCGTCTC 57.612 50.000 0.00 0.00 46.28 3.36
76 77 1.267121 AGGAAAGCCTAAGCGTCTCA 58.733 50.000 0.00 0.00 44.74 3.27
77 78 1.205893 AGGAAAGCCTAAGCGTCTCAG 59.794 52.381 0.00 0.00 44.74 3.35
78 79 1.003108 GAAAGCCTAAGCGTCTCAGC 58.997 55.000 0.00 0.00 46.67 4.26
79 80 0.321671 AAAGCCTAAGCGTCTCAGCA 59.678 50.000 0.00 0.00 46.67 4.41
80 81 0.390472 AAGCCTAAGCGTCTCAGCAC 60.390 55.000 0.00 0.00 46.67 4.40
81 82 2.161486 GCCTAAGCGTCTCAGCACG 61.161 63.158 0.00 0.00 42.95 5.34
82 83 1.213013 CCTAAGCGTCTCAGCACGT 59.787 57.895 0.00 0.00 42.04 4.49
83 84 0.450583 CCTAAGCGTCTCAGCACGTA 59.549 55.000 0.00 0.00 42.04 3.57
84 85 1.532090 CCTAAGCGTCTCAGCACGTAG 60.532 57.143 0.00 0.00 42.04 3.51
85 86 1.397343 CTAAGCGTCTCAGCACGTAGA 59.603 52.381 0.00 0.00 42.04 2.59
86 87 0.811915 AAGCGTCTCAGCACGTAGAT 59.188 50.000 0.00 0.00 42.04 1.98
87 88 0.811915 AGCGTCTCAGCACGTAGATT 59.188 50.000 0.00 0.00 42.04 2.40
88 89 1.202582 AGCGTCTCAGCACGTAGATTT 59.797 47.619 0.00 0.00 42.04 2.17
89 90 1.993370 GCGTCTCAGCACGTAGATTTT 59.007 47.619 0.00 0.00 42.04 1.82
90 91 2.412089 GCGTCTCAGCACGTAGATTTTT 59.588 45.455 0.00 0.00 42.04 1.94
91 92 3.722082 GCGTCTCAGCACGTAGATTTTTG 60.722 47.826 0.00 0.00 42.04 2.44
92 93 3.428870 CGTCTCAGCACGTAGATTTTTGT 59.571 43.478 0.00 0.00 34.95 2.83
93 94 4.084537 CGTCTCAGCACGTAGATTTTTGTT 60.085 41.667 0.00 0.00 34.95 2.83
94 95 5.558273 CGTCTCAGCACGTAGATTTTTGTTT 60.558 40.000 0.00 0.00 34.95 2.83
95 96 6.199393 GTCTCAGCACGTAGATTTTTGTTTT 58.801 36.000 0.00 0.00 0.00 2.43
96 97 7.349711 GTCTCAGCACGTAGATTTTTGTTTTA 58.650 34.615 0.00 0.00 0.00 1.52
97 98 7.853929 GTCTCAGCACGTAGATTTTTGTTTTAA 59.146 33.333 0.00 0.00 0.00 1.52
98 99 8.067784 TCTCAGCACGTAGATTTTTGTTTTAAG 58.932 33.333 0.00 0.00 0.00 1.85
99 100 7.136119 TCAGCACGTAGATTTTTGTTTTAAGG 58.864 34.615 0.00 0.00 0.00 2.69
100 101 5.918576 AGCACGTAGATTTTTGTTTTAAGGC 59.081 36.000 0.00 0.00 0.00 4.35
101 102 5.118050 GCACGTAGATTTTTGTTTTAAGGCC 59.882 40.000 0.00 0.00 0.00 5.19
102 103 6.443792 CACGTAGATTTTTGTTTTAAGGCCT 58.556 36.000 0.00 0.00 0.00 5.19
103 104 6.581166 CACGTAGATTTTTGTTTTAAGGCCTC 59.419 38.462 5.23 0.00 0.00 4.70
104 105 6.489022 ACGTAGATTTTTGTTTTAAGGCCTCT 59.511 34.615 5.23 0.00 0.00 3.69
105 106 7.013942 ACGTAGATTTTTGTTTTAAGGCCTCTT 59.986 33.333 5.23 0.00 37.03 2.85
106 107 7.865889 CGTAGATTTTTGTTTTAAGGCCTCTTT 59.134 33.333 5.23 0.00 34.59 2.52
107 108 8.978539 GTAGATTTTTGTTTTAAGGCCTCTTTG 58.021 33.333 5.23 0.00 34.59 2.77
108 109 7.791029 AGATTTTTGTTTTAAGGCCTCTTTGA 58.209 30.769 5.23 0.00 34.59 2.69
109 110 8.432013 AGATTTTTGTTTTAAGGCCTCTTTGAT 58.568 29.630 5.23 0.00 34.59 2.57
110 111 8.978874 ATTTTTGTTTTAAGGCCTCTTTGATT 57.021 26.923 5.23 0.00 34.59 2.57
111 112 8.432110 TTTTTGTTTTAAGGCCTCTTTGATTC 57.568 30.769 5.23 0.00 34.59 2.52
112 113 6.723298 TTGTTTTAAGGCCTCTTTGATTCA 57.277 33.333 5.23 0.00 34.59 2.57
113 114 6.084326 TGTTTTAAGGCCTCTTTGATTCAC 57.916 37.500 5.23 0.00 34.59 3.18
114 115 5.596361 TGTTTTAAGGCCTCTTTGATTCACA 59.404 36.000 5.23 0.00 34.59 3.58
115 116 6.097554 TGTTTTAAGGCCTCTTTGATTCACAA 59.902 34.615 5.23 0.00 36.65 3.33
116 117 5.964958 TTAAGGCCTCTTTGATTCACAAG 57.035 39.130 5.23 0.00 39.77 3.16
117 118 3.795688 AGGCCTCTTTGATTCACAAGA 57.204 42.857 0.00 9.44 39.77 3.02
118 119 4.313020 AGGCCTCTTTGATTCACAAGAT 57.687 40.909 0.00 0.00 39.77 2.40
119 120 4.670765 AGGCCTCTTTGATTCACAAGATT 58.329 39.130 0.00 0.00 39.77 2.40
120 121 5.082425 AGGCCTCTTTGATTCACAAGATTT 58.918 37.500 0.00 0.00 39.77 2.17
121 122 5.541484 AGGCCTCTTTGATTCACAAGATTTT 59.459 36.000 0.00 0.00 39.77 1.82
122 123 5.636543 GGCCTCTTTGATTCACAAGATTTTG 59.363 40.000 0.00 0.00 39.77 2.44
123 124 6.449698 GCCTCTTTGATTCACAAGATTTTGA 58.550 36.000 2.48 0.00 39.77 2.69
124 125 6.925165 GCCTCTTTGATTCACAAGATTTTGAA 59.075 34.615 2.48 0.00 39.77 2.69
125 126 7.439056 GCCTCTTTGATTCACAAGATTTTGAAA 59.561 33.333 2.48 0.00 39.77 2.69
126 127 9.316730 CCTCTTTGATTCACAAGATTTTGAAAA 57.683 29.630 2.48 0.00 39.77 2.29
132 133 9.695526 TGATTCACAAGATTTTGAAAATGTAGG 57.304 29.630 8.03 3.26 35.42 3.18
133 134 9.912634 GATTCACAAGATTTTGAAAATGTAGGA 57.087 29.630 8.03 0.63 35.42 2.94
156 157 9.512588 AGGAATATGAAAAGTATAGGATTGCAG 57.487 33.333 0.00 0.00 0.00 4.41
157 158 9.289782 GGAATATGAAAAGTATAGGATTGCAGT 57.710 33.333 0.00 0.00 0.00 4.40
159 160 6.949352 ATGAAAAGTATAGGATTGCAGTGG 57.051 37.500 0.00 0.00 0.00 4.00
160 161 4.640201 TGAAAAGTATAGGATTGCAGTGGC 59.360 41.667 0.00 0.00 41.68 5.01
171 172 3.484524 GCAGTGGCATGTCAACTTG 57.515 52.632 0.00 2.23 40.72 3.16
172 173 0.953727 GCAGTGGCATGTCAACTTGA 59.046 50.000 0.00 0.00 40.72 3.02
173 174 1.337703 GCAGTGGCATGTCAACTTGAA 59.662 47.619 0.00 0.00 40.72 2.69
174 175 2.029649 GCAGTGGCATGTCAACTTGAAT 60.030 45.455 0.00 0.00 40.72 2.57
175 176 3.829948 CAGTGGCATGTCAACTTGAATC 58.170 45.455 0.00 0.00 0.00 2.52
176 177 2.821969 AGTGGCATGTCAACTTGAATCC 59.178 45.455 0.00 0.00 0.00 3.01
177 178 2.821969 GTGGCATGTCAACTTGAATCCT 59.178 45.455 0.00 0.00 0.00 3.24
178 179 4.009675 GTGGCATGTCAACTTGAATCCTA 58.990 43.478 0.00 0.00 0.00 2.94
179 180 4.641989 GTGGCATGTCAACTTGAATCCTAT 59.358 41.667 0.00 0.00 0.00 2.57
180 181 5.822519 GTGGCATGTCAACTTGAATCCTATA 59.177 40.000 0.00 0.00 0.00 1.31
181 182 6.017605 GTGGCATGTCAACTTGAATCCTATAG 60.018 42.308 0.00 0.00 0.00 1.31
182 183 5.471456 GGCATGTCAACTTGAATCCTATAGG 59.529 44.000 13.07 13.07 0.00 2.57
198 199 7.676683 TCCTATAGGATTAGCAAAGAGTGTT 57.323 36.000 18.00 0.00 39.78 3.32
199 200 8.090788 TCCTATAGGATTAGCAAAGAGTGTTT 57.909 34.615 18.00 0.00 39.78 2.83
200 201 7.987458 TCCTATAGGATTAGCAAAGAGTGTTTG 59.013 37.037 18.00 8.35 39.78 2.93
201 202 7.987458 CCTATAGGATTAGCAAAGAGTGTTTGA 59.013 37.037 14.11 0.00 37.39 2.69
202 203 9.553064 CTATAGGATTAGCAAAGAGTGTTTGAT 57.447 33.333 16.41 12.54 32.41 2.57
203 204 6.506500 AGGATTAGCAAAGAGTGTTTGATG 57.493 37.500 16.41 0.00 30.16 3.07
204 205 5.098211 GGATTAGCAAAGAGTGTTTGATGC 58.902 41.667 16.41 2.07 30.16 3.91
205 206 4.503741 TTAGCAAAGAGTGTTTGATGCC 57.496 40.909 16.41 0.00 34.44 4.40
206 207 2.309613 AGCAAAGAGTGTTTGATGCCA 58.690 42.857 16.41 0.00 34.44 4.92
207 208 2.035066 AGCAAAGAGTGTTTGATGCCAC 59.965 45.455 16.41 0.00 34.44 5.01
208 209 2.223782 GCAAAGAGTGTTTGATGCCACA 60.224 45.455 16.41 0.00 33.99 4.17
209 210 3.553508 GCAAAGAGTGTTTGATGCCACAT 60.554 43.478 16.41 0.00 33.99 3.21
210 211 3.928727 AAGAGTGTTTGATGCCACATG 57.071 42.857 0.00 0.00 33.99 3.21
211 212 3.144657 AGAGTGTTTGATGCCACATGA 57.855 42.857 0.00 0.00 33.99 3.07
212 213 3.489355 AGAGTGTTTGATGCCACATGAA 58.511 40.909 0.00 0.00 33.99 2.57
213 214 3.890756 AGAGTGTTTGATGCCACATGAAA 59.109 39.130 0.00 0.00 33.99 2.69
214 215 4.341806 AGAGTGTTTGATGCCACATGAAAA 59.658 37.500 0.00 0.00 33.99 2.29
215 216 5.021033 AGTGTTTGATGCCACATGAAAAA 57.979 34.783 0.00 0.00 33.99 1.94
216 217 4.810491 AGTGTTTGATGCCACATGAAAAAC 59.190 37.500 0.00 5.09 33.99 2.43
217 218 4.569966 GTGTTTGATGCCACATGAAAAACA 59.430 37.500 0.00 7.79 34.62 2.83
218 219 5.064452 GTGTTTGATGCCACATGAAAAACAA 59.936 36.000 0.00 0.00 37.67 2.83
219 220 5.645067 TGTTTGATGCCACATGAAAAACAAA 59.355 32.000 0.00 2.51 34.22 2.83
220 221 5.987777 TTGATGCCACATGAAAAACAAAG 57.012 34.783 0.00 0.00 0.00 2.77
221 222 5.273674 TGATGCCACATGAAAAACAAAGA 57.726 34.783 0.00 0.00 0.00 2.52
222 223 5.668471 TGATGCCACATGAAAAACAAAGAA 58.332 33.333 0.00 0.00 0.00 2.52
223 224 6.111382 TGATGCCACATGAAAAACAAAGAAA 58.889 32.000 0.00 0.00 0.00 2.52
224 225 6.596888 TGATGCCACATGAAAAACAAAGAAAA 59.403 30.769 0.00 0.00 0.00 2.29
225 226 6.998968 TGCCACATGAAAAACAAAGAAAAT 57.001 29.167 0.00 0.00 0.00 1.82
226 227 6.783162 TGCCACATGAAAAACAAAGAAAATG 58.217 32.000 0.00 0.00 0.00 2.32
227 228 6.373774 TGCCACATGAAAAACAAAGAAAATGT 59.626 30.769 0.00 0.00 0.00 2.71
228 229 7.550551 TGCCACATGAAAAACAAAGAAAATGTA 59.449 29.630 0.00 0.00 0.00 2.29
229 230 8.394121 GCCACATGAAAAACAAAGAAAATGTAA 58.606 29.630 0.00 0.00 0.00 2.41
253 254 4.993705 AAAGGTTGGAGTGGATGTTAGA 57.006 40.909 0.00 0.00 0.00 2.10
254 255 5.520748 AAAGGTTGGAGTGGATGTTAGAT 57.479 39.130 0.00 0.00 0.00 1.98
255 256 5.520748 AAGGTTGGAGTGGATGTTAGATT 57.479 39.130 0.00 0.00 0.00 2.40
256 257 5.520748 AGGTTGGAGTGGATGTTAGATTT 57.479 39.130 0.00 0.00 0.00 2.17
257 258 5.892348 AGGTTGGAGTGGATGTTAGATTTT 58.108 37.500 0.00 0.00 0.00 1.82
258 259 5.946377 AGGTTGGAGTGGATGTTAGATTTTC 59.054 40.000 0.00 0.00 0.00 2.29
259 260 5.946377 GGTTGGAGTGGATGTTAGATTTTCT 59.054 40.000 0.00 0.00 0.00 2.52
260 261 7.037586 AGGTTGGAGTGGATGTTAGATTTTCTA 60.038 37.037 0.00 0.00 0.00 2.10
261 262 7.775561 GGTTGGAGTGGATGTTAGATTTTCTAT 59.224 37.037 0.00 0.00 0.00 1.98
262 263 9.832445 GTTGGAGTGGATGTTAGATTTTCTATA 57.168 33.333 0.00 0.00 0.00 1.31
321 322 9.733907 TCCTATATGATCCAATCCTATGAATCA 57.266 33.333 0.00 0.00 0.00 2.57
326 327 7.828508 TGATCCAATCCTATGAATCAAAAGG 57.171 36.000 8.29 8.29 0.00 3.11
327 328 6.266103 TGATCCAATCCTATGAATCAAAAGGC 59.734 38.462 9.43 0.00 0.00 4.35
328 329 4.895297 TCCAATCCTATGAATCAAAAGGCC 59.105 41.667 9.43 0.00 0.00 5.19
329 330 4.261741 CCAATCCTATGAATCAAAAGGCCG 60.262 45.833 9.43 2.32 0.00 6.13
330 331 3.924114 TCCTATGAATCAAAAGGCCGA 57.076 42.857 9.43 0.00 0.00 5.54
331 332 3.541632 TCCTATGAATCAAAAGGCCGAC 58.458 45.455 9.43 0.00 0.00 4.79
332 333 3.054728 TCCTATGAATCAAAAGGCCGACA 60.055 43.478 9.43 0.00 0.00 4.35
333 334 3.885297 CCTATGAATCAAAAGGCCGACAT 59.115 43.478 0.00 0.00 0.00 3.06
334 335 5.063204 CCTATGAATCAAAAGGCCGACATA 58.937 41.667 0.00 0.00 0.00 2.29
335 336 5.180117 CCTATGAATCAAAAGGCCGACATAG 59.820 44.000 0.00 8.83 37.06 2.23
336 337 4.214986 TGAATCAAAAGGCCGACATAGA 57.785 40.909 0.00 0.00 0.00 1.98
337 338 4.584874 TGAATCAAAAGGCCGACATAGAA 58.415 39.130 0.00 0.00 0.00 2.10
338 339 5.007034 TGAATCAAAAGGCCGACATAGAAA 58.993 37.500 0.00 0.00 0.00 2.52
339 340 5.475220 TGAATCAAAAGGCCGACATAGAAAA 59.525 36.000 0.00 0.00 0.00 2.29
340 341 5.975693 ATCAAAAGGCCGACATAGAAAAA 57.024 34.783 0.00 0.00 0.00 1.94
424 425 9.280174 CTTATTTGTGTTTAGGTAGACTTTGGA 57.720 33.333 0.00 0.00 0.00 3.53
427 428 4.001652 GTGTTTAGGTAGACTTTGGAGGC 58.998 47.826 0.00 0.00 0.00 4.70
428 429 3.008704 TGTTTAGGTAGACTTTGGAGGCC 59.991 47.826 0.00 0.00 0.00 5.19
429 430 2.634639 TAGGTAGACTTTGGAGGCCA 57.365 50.000 5.01 0.00 0.00 5.36
468 469 5.126067 GGAGCAAGAAATCATGTAAGGCTA 58.874 41.667 0.00 0.00 0.00 3.93
471 472 4.884164 GCAAGAAATCATGTAAGGCTAGGT 59.116 41.667 0.00 0.00 0.00 3.08
472 473 6.055588 GCAAGAAATCATGTAAGGCTAGGTA 58.944 40.000 0.00 0.00 0.00 3.08
473 474 6.712547 GCAAGAAATCATGTAAGGCTAGGTAT 59.287 38.462 0.00 0.00 0.00 2.73
474 475 7.878127 GCAAGAAATCATGTAAGGCTAGGTATA 59.122 37.037 0.00 0.00 0.00 1.47
511 512 2.088423 CGTTCTGGAGTGCTCTAGAGT 58.912 52.381 20.75 1.00 45.71 3.24
587 590 6.801539 TGTGTGGTTCAGAACTGATTAATC 57.198 37.500 13.13 8.60 39.64 1.75
622 626 5.449107 AAAGAACTGTACGCTAGAAGTCA 57.551 39.130 0.00 0.00 0.00 3.41
739 744 7.689400 GGTCCATGAACGTTAATTAGTTTTACG 59.311 37.037 0.00 5.35 0.00 3.18
749 754 9.558891 CGTTAATTAGTTTTACGAATGATACCG 57.441 33.333 1.28 0.00 0.00 4.02
931 968 0.926220 ATCCCCCTTTCCCCTTCCAG 60.926 60.000 0.00 0.00 0.00 3.86
933 970 1.575447 CCCCCTTTCCCCTTCCAGAG 61.575 65.000 0.00 0.00 0.00 3.35
984 1021 4.684724 TCACACCTCCTATATATCCACCC 58.315 47.826 0.00 0.00 0.00 4.61
1001 1038 1.478510 ACCCATCTCAAGCTCACTACG 59.521 52.381 0.00 0.00 0.00 3.51
1023 1060 1.734465 CTTCATCCAAGCAACCGAGAC 59.266 52.381 0.00 0.00 0.00 3.36
1024 1061 0.976641 TCATCCAAGCAACCGAGACT 59.023 50.000 0.00 0.00 0.00 3.24
1027 1064 0.246635 TCCAAGCAACCGAGACTAGC 59.753 55.000 0.00 0.00 0.00 3.42
1041 1078 0.456221 ACTAGCTCACGAATCCACCG 59.544 55.000 0.00 0.00 0.00 4.94
1043 1080 1.338337 CTAGCTCACGAATCCACCGAT 59.662 52.381 0.00 0.00 0.00 4.18
1044 1081 0.103208 AGCTCACGAATCCACCGATC 59.897 55.000 0.00 0.00 0.00 3.69
1045 1082 0.179111 GCTCACGAATCCACCGATCA 60.179 55.000 0.00 0.00 0.00 2.92
1046 1083 1.845266 CTCACGAATCCACCGATCAG 58.155 55.000 0.00 0.00 0.00 2.90
1055 1092 1.227089 CACCGATCAGGAAGCGAGG 60.227 63.158 10.05 0.00 45.00 4.63
1066 1103 2.765250 GAAGCGAGGCACAGACCGAA 62.765 60.000 0.00 0.00 33.69 4.30
1073 1110 0.737715 GGCACAGACCGAACAGCTAG 60.738 60.000 0.00 0.00 0.00 3.42
1076 1113 2.161486 CAGACCGAACAGCTAGCGC 61.161 63.158 9.55 0.00 0.00 5.92
1077 1114 2.126071 GACCGAACAGCTAGCGCA 60.126 61.111 11.47 0.00 39.10 6.09
1081 1118 2.432628 GAACAGCTAGCGCACGGT 60.433 61.111 11.47 1.74 39.10 4.83
1085 1122 2.105128 AGCTAGCGCACGGTGATC 59.895 61.111 13.29 2.03 39.10 2.92
1287 1324 2.383527 CGAGACGTGGAGCAAAGGC 61.384 63.158 0.00 0.00 41.61 4.35
1425 1462 2.757894 ACTGGGTCCTCTATGTCGAT 57.242 50.000 0.00 0.00 0.00 3.59
1486 1523 5.137551 GGAAAAGCCTATGGGTAAGCATAA 58.862 41.667 0.00 0.00 30.99 1.90
1495 1532 7.333672 GCCTATGGGTAAGCATAAACATAGTAC 59.666 40.741 14.74 0.00 37.27 2.73
1496 1533 8.372459 CCTATGGGTAAGCATAAACATAGTACA 58.628 37.037 14.74 0.00 37.27 2.90
1551 1592 4.923281 GCGCTTGATTAATCTGGTTGTTTT 59.077 37.500 16.24 0.00 0.00 2.43
1605 1650 0.802607 GGAAGACGCACATCGAGGAC 60.803 60.000 3.06 0.00 41.67 3.85
1763 1808 5.122239 TCAAGTCGCTCTTTGGTAAATGATG 59.878 40.000 0.00 0.00 33.63 3.07
1859 1904 8.989980 GTGTATTAGCTAATCTTTATGGTGTCC 58.010 37.037 22.09 0.00 0.00 4.02
1899 1947 8.517062 ACTCAGTGATATAGTACTACCGTTTT 57.483 34.615 4.31 0.00 0.00 2.43
2043 2099 1.489649 TCCTACTCGATCGTTCCTCCT 59.510 52.381 15.94 0.00 0.00 3.69
2095 2151 0.034896 CAAAGGGTGTACGCTGGACT 59.965 55.000 6.35 0.00 39.23 3.85
2153 2629 3.508793 ACCGATAACCGAGAGAAGAAACA 59.491 43.478 0.00 0.00 41.76 2.83
2154 2630 4.159879 ACCGATAACCGAGAGAAGAAACAT 59.840 41.667 0.00 0.00 41.76 2.71
2167 2643 8.842358 AGAGAAGAAACATGTTAACCGATAAA 57.158 30.769 12.39 0.00 0.00 1.40
2240 3582 9.769093 CTGTTAACCGATAACCAAAATAAGAAG 57.231 33.333 2.48 0.00 42.74 2.85
2241 3583 9.504708 TGTTAACCGATAACCAAAATAAGAAGA 57.495 29.630 2.48 0.00 42.74 2.87
2271 3613 5.383476 AGGGCCAATCTCATGAAATTCTAG 58.617 41.667 6.18 0.00 0.00 2.43
2297 3639 5.069516 ACTTGTGGCAAGTCTGATTTTCAAT 59.930 36.000 8.53 0.00 0.00 2.57
2365 3707 3.246226 CACCAAAGTTTGTCTCAGTCGAG 59.754 47.826 14.36 0.00 40.98 4.04
2393 3735 1.395826 GGGAGCAGTCGAGCCTATGT 61.396 60.000 0.00 0.00 34.23 2.29
2466 3808 1.315257 AAACTGGCCCAATAGCTGCG 61.315 55.000 0.00 0.00 0.00 5.18
2693 4038 9.975218 AGAAAGAATGTATTAGTGGTATTGGTT 57.025 29.630 0.00 0.00 0.00 3.67
2791 4136 6.959639 AAATCGATGGCATTTGTATTACCT 57.040 33.333 0.00 0.00 0.00 3.08
2793 4138 5.749596 TCGATGGCATTTGTATTACCTTG 57.250 39.130 0.00 0.00 0.00 3.61
2794 4139 4.578516 TCGATGGCATTTGTATTACCTTGG 59.421 41.667 0.00 0.00 0.00 3.61
2804 4149 9.369904 CATTTGTATTACCTTGGGAGAAAAATG 57.630 33.333 0.00 0.00 0.00 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 7.335924 CGGGGAATGAGAAACTTGTAGAAAATA 59.664 37.037 0.00 0.00 0.00 1.40
42 43 7.691993 AGGCTTTCCTTAGTTCATAGGATAA 57.308 36.000 0.00 0.00 40.66 1.75
47 48 5.463724 CGCTTAGGCTTTCCTTAGTTCATAG 59.536 44.000 0.00 0.00 40.66 2.23
55 56 2.829720 TGAGACGCTTAGGCTTTCCTTA 59.170 45.455 0.00 0.00 39.26 2.69
72 73 6.371809 AAAACAAAAATCTACGTGCTGAGA 57.628 33.333 0.00 0.00 0.00 3.27
73 74 7.323656 CCTTAAAACAAAAATCTACGTGCTGAG 59.676 37.037 0.00 0.00 0.00 3.35
75 76 6.129194 GCCTTAAAACAAAAATCTACGTGCTG 60.129 38.462 0.00 0.00 0.00 4.41
76 77 5.918576 GCCTTAAAACAAAAATCTACGTGCT 59.081 36.000 0.00 0.00 0.00 4.40
77 78 5.118050 GGCCTTAAAACAAAAATCTACGTGC 59.882 40.000 0.00 0.00 0.00 5.34
78 79 6.443792 AGGCCTTAAAACAAAAATCTACGTG 58.556 36.000 0.00 0.00 0.00 4.49
79 80 6.489022 AGAGGCCTTAAAACAAAAATCTACGT 59.511 34.615 6.77 0.00 0.00 3.57
80 81 6.909909 AGAGGCCTTAAAACAAAAATCTACG 58.090 36.000 6.77 0.00 0.00 3.51
81 82 8.978539 CAAAGAGGCCTTAAAACAAAAATCTAC 58.021 33.333 6.77 0.00 31.15 2.59
82 83 8.919145 TCAAAGAGGCCTTAAAACAAAAATCTA 58.081 29.630 6.77 0.00 31.15 1.98
83 84 7.791029 TCAAAGAGGCCTTAAAACAAAAATCT 58.209 30.769 6.77 0.00 31.15 2.40
84 85 8.607441 ATCAAAGAGGCCTTAAAACAAAAATC 57.393 30.769 6.77 0.00 31.15 2.17
85 86 8.978874 AATCAAAGAGGCCTTAAAACAAAAAT 57.021 26.923 6.77 0.00 31.15 1.82
86 87 8.043710 TGAATCAAAGAGGCCTTAAAACAAAAA 58.956 29.630 6.77 0.00 31.15 1.94
87 88 7.494298 GTGAATCAAAGAGGCCTTAAAACAAAA 59.506 33.333 6.77 0.00 31.15 2.44
88 89 6.983890 GTGAATCAAAGAGGCCTTAAAACAAA 59.016 34.615 6.77 0.00 31.15 2.83
89 90 6.097554 TGTGAATCAAAGAGGCCTTAAAACAA 59.902 34.615 6.77 0.00 31.15 2.83
90 91 5.596361 TGTGAATCAAAGAGGCCTTAAAACA 59.404 36.000 6.77 0.00 31.15 2.83
91 92 6.084326 TGTGAATCAAAGAGGCCTTAAAAC 57.916 37.500 6.77 0.00 31.15 2.43
92 93 6.549364 TCTTGTGAATCAAAGAGGCCTTAAAA 59.451 34.615 6.77 0.00 35.48 1.52
93 94 6.068010 TCTTGTGAATCAAAGAGGCCTTAAA 58.932 36.000 6.77 0.00 35.48 1.52
94 95 5.630121 TCTTGTGAATCAAAGAGGCCTTAA 58.370 37.500 6.77 0.00 35.48 1.85
95 96 5.241403 TCTTGTGAATCAAAGAGGCCTTA 57.759 39.130 6.77 0.00 35.48 2.69
96 97 4.104383 TCTTGTGAATCAAAGAGGCCTT 57.896 40.909 6.77 0.00 35.48 4.35
97 98 3.795688 TCTTGTGAATCAAAGAGGCCT 57.204 42.857 3.86 3.86 35.48 5.19
98 99 5.397142 AAATCTTGTGAATCAAAGAGGCC 57.603 39.130 0.00 0.00 35.48 5.19
99 100 6.449698 TCAAAATCTTGTGAATCAAAGAGGC 58.550 36.000 11.40 0.00 35.48 4.70
100 101 8.876275 TTTCAAAATCTTGTGAATCAAAGAGG 57.124 30.769 11.40 4.63 33.90 3.69
106 107 9.695526 CCTACATTTTCAAAATCTTGTGAATCA 57.304 29.630 0.00 0.00 33.90 2.57
107 108 9.912634 TCCTACATTTTCAAAATCTTGTGAATC 57.087 29.630 0.00 0.00 33.90 2.52
130 131 9.512588 CTGCAATCCTATACTTTTCATATTCCT 57.487 33.333 0.00 0.00 0.00 3.36
131 132 9.289782 ACTGCAATCCTATACTTTTCATATTCC 57.710 33.333 0.00 0.00 0.00 3.01
133 134 9.071276 CCACTGCAATCCTATACTTTTCATATT 57.929 33.333 0.00 0.00 0.00 1.28
134 135 7.175641 GCCACTGCAATCCTATACTTTTCATAT 59.824 37.037 0.00 0.00 37.47 1.78
135 136 6.486657 GCCACTGCAATCCTATACTTTTCATA 59.513 38.462 0.00 0.00 37.47 2.15
136 137 5.300286 GCCACTGCAATCCTATACTTTTCAT 59.700 40.000 0.00 0.00 37.47 2.57
137 138 4.640201 GCCACTGCAATCCTATACTTTTCA 59.360 41.667 0.00 0.00 37.47 2.69
138 139 4.640201 TGCCACTGCAATCCTATACTTTTC 59.360 41.667 0.00 0.00 46.66 2.29
139 140 4.599041 TGCCACTGCAATCCTATACTTTT 58.401 39.130 0.00 0.00 46.66 2.27
140 141 4.235079 TGCCACTGCAATCCTATACTTT 57.765 40.909 0.00 0.00 46.66 2.66
141 142 3.931907 TGCCACTGCAATCCTATACTT 57.068 42.857 0.00 0.00 46.66 2.24
153 154 0.953727 TCAAGTTGACATGCCACTGC 59.046 50.000 0.08 0.00 38.26 4.40
154 155 3.366679 GGATTCAAGTTGACATGCCACTG 60.367 47.826 4.68 0.00 0.00 3.66
155 156 2.821969 GGATTCAAGTTGACATGCCACT 59.178 45.455 4.68 0.00 0.00 4.00
156 157 2.821969 AGGATTCAAGTTGACATGCCAC 59.178 45.455 4.68 0.00 0.00 5.01
157 158 3.159213 AGGATTCAAGTTGACATGCCA 57.841 42.857 4.68 0.00 0.00 4.92
158 159 5.471456 CCTATAGGATTCAAGTTGACATGCC 59.529 44.000 14.11 4.86 37.39 4.40
159 160 6.291377 TCCTATAGGATTCAAGTTGACATGC 58.709 40.000 18.00 8.02 39.78 4.06
175 176 7.987458 TCAAACACTCTTTGCTAATCCTATAGG 59.013 37.037 13.07 13.07 0.00 2.57
176 177 8.948631 TCAAACACTCTTTGCTAATCCTATAG 57.051 34.615 0.00 0.00 0.00 1.31
177 178 9.330063 CATCAAACACTCTTTGCTAATCCTATA 57.670 33.333 0.00 0.00 0.00 1.31
178 179 7.201767 GCATCAAACACTCTTTGCTAATCCTAT 60.202 37.037 0.00 0.00 0.00 2.57
179 180 6.094048 GCATCAAACACTCTTTGCTAATCCTA 59.906 38.462 0.00 0.00 0.00 2.94
180 181 5.105997 GCATCAAACACTCTTTGCTAATCCT 60.106 40.000 0.00 0.00 0.00 3.24
181 182 5.098211 GCATCAAACACTCTTTGCTAATCC 58.902 41.667 0.00 0.00 0.00 3.01
182 183 5.098211 GGCATCAAACACTCTTTGCTAATC 58.902 41.667 0.00 0.00 0.00 1.75
183 184 4.523943 TGGCATCAAACACTCTTTGCTAAT 59.476 37.500 0.00 0.00 0.00 1.73
184 185 3.888323 TGGCATCAAACACTCTTTGCTAA 59.112 39.130 0.00 0.00 0.00 3.09
185 186 3.253188 GTGGCATCAAACACTCTTTGCTA 59.747 43.478 0.00 0.00 34.84 3.49
186 187 2.035066 GTGGCATCAAACACTCTTTGCT 59.965 45.455 0.00 0.00 34.84 3.91
187 188 2.223782 TGTGGCATCAAACACTCTTTGC 60.224 45.455 0.00 0.00 38.39 3.68
188 189 3.713858 TGTGGCATCAAACACTCTTTG 57.286 42.857 0.00 0.00 38.39 2.77
189 190 3.890756 TCATGTGGCATCAAACACTCTTT 59.109 39.130 0.00 0.00 38.39 2.52
190 191 3.489355 TCATGTGGCATCAAACACTCTT 58.511 40.909 0.00 0.00 38.39 2.85
191 192 3.144657 TCATGTGGCATCAAACACTCT 57.855 42.857 0.00 0.00 38.39 3.24
192 193 3.921119 TTCATGTGGCATCAAACACTC 57.079 42.857 0.00 0.00 38.39 3.51
193 194 4.669206 TTTTCATGTGGCATCAAACACT 57.331 36.364 0.00 0.00 38.39 3.55
194 195 4.569966 TGTTTTTCATGTGGCATCAAACAC 59.430 37.500 0.00 0.00 38.08 3.32
195 196 4.763073 TGTTTTTCATGTGGCATCAAACA 58.237 34.783 0.00 0.00 31.84 2.83
196 197 5.731599 TTGTTTTTCATGTGGCATCAAAC 57.268 34.783 0.00 0.00 0.00 2.93
197 198 6.111382 TCTTTGTTTTTCATGTGGCATCAAA 58.889 32.000 0.00 0.00 0.00 2.69
198 199 5.668471 TCTTTGTTTTTCATGTGGCATCAA 58.332 33.333 0.00 0.00 0.00 2.57
199 200 5.273674 TCTTTGTTTTTCATGTGGCATCA 57.726 34.783 0.00 0.00 0.00 3.07
200 201 6.601741 TTTCTTTGTTTTTCATGTGGCATC 57.398 33.333 0.00 0.00 0.00 3.91
201 202 6.998968 TTTTCTTTGTTTTTCATGTGGCAT 57.001 29.167 0.00 0.00 0.00 4.40
202 203 6.373774 ACATTTTCTTTGTTTTTCATGTGGCA 59.626 30.769 0.00 0.00 0.00 4.92
203 204 6.784176 ACATTTTCTTTGTTTTTCATGTGGC 58.216 32.000 0.00 0.00 0.00 5.01
230 231 5.701224 TCTAACATCCACTCCAACCTTTTT 58.299 37.500 0.00 0.00 0.00 1.94
231 232 5.319043 TCTAACATCCACTCCAACCTTTT 57.681 39.130 0.00 0.00 0.00 2.27
232 233 4.993705 TCTAACATCCACTCCAACCTTT 57.006 40.909 0.00 0.00 0.00 3.11
233 234 5.520748 AATCTAACATCCACTCCAACCTT 57.479 39.130 0.00 0.00 0.00 3.50
234 235 5.520748 AAATCTAACATCCACTCCAACCT 57.479 39.130 0.00 0.00 0.00 3.50
235 236 5.946377 AGAAAATCTAACATCCACTCCAACC 59.054 40.000 0.00 0.00 0.00 3.77
236 237 8.738645 ATAGAAAATCTAACATCCACTCCAAC 57.261 34.615 0.00 0.00 31.96 3.77
295 296 9.733907 TGATTCATAGGATTGGATCATATAGGA 57.266 33.333 0.00 0.00 36.82 2.94
300 301 9.524496 CCTTTTGATTCATAGGATTGGATCATA 57.476 33.333 8.86 0.00 40.48 2.15
301 302 7.039223 GCCTTTTGATTCATAGGATTGGATCAT 60.039 37.037 15.81 0.00 40.48 2.45
302 303 6.266103 GCCTTTTGATTCATAGGATTGGATCA 59.734 38.462 15.81 0.00 39.37 2.92
303 304 6.294955 GGCCTTTTGATTCATAGGATTGGATC 60.295 42.308 15.81 0.00 32.97 3.36
304 305 5.541484 GGCCTTTTGATTCATAGGATTGGAT 59.459 40.000 15.81 0.00 0.00 3.41
305 306 4.895297 GGCCTTTTGATTCATAGGATTGGA 59.105 41.667 15.81 0.00 0.00 3.53
306 307 4.261741 CGGCCTTTTGATTCATAGGATTGG 60.262 45.833 15.81 2.32 0.00 3.16
307 308 4.580167 TCGGCCTTTTGATTCATAGGATTG 59.420 41.667 15.81 7.22 0.00 2.67
308 309 4.580580 GTCGGCCTTTTGATTCATAGGATT 59.419 41.667 15.81 0.00 0.00 3.01
309 310 4.137543 GTCGGCCTTTTGATTCATAGGAT 58.862 43.478 15.81 0.00 0.00 3.24
310 311 3.054728 TGTCGGCCTTTTGATTCATAGGA 60.055 43.478 15.81 0.00 0.00 2.94
311 312 3.278574 TGTCGGCCTTTTGATTCATAGG 58.721 45.455 0.00 9.79 0.00 2.57
312 313 5.991606 TCTATGTCGGCCTTTTGATTCATAG 59.008 40.000 0.00 5.57 36.55 2.23
313 314 5.924356 TCTATGTCGGCCTTTTGATTCATA 58.076 37.500 0.00 0.00 0.00 2.15
314 315 4.780815 TCTATGTCGGCCTTTTGATTCAT 58.219 39.130 0.00 0.00 0.00 2.57
315 316 4.214986 TCTATGTCGGCCTTTTGATTCA 57.785 40.909 0.00 0.00 0.00 2.57
316 317 5.560966 TTTCTATGTCGGCCTTTTGATTC 57.439 39.130 0.00 0.00 0.00 2.52
317 318 5.975693 TTTTCTATGTCGGCCTTTTGATT 57.024 34.783 0.00 0.00 0.00 2.57
318 319 5.975693 TTTTTCTATGTCGGCCTTTTGAT 57.024 34.783 0.00 0.00 0.00 2.57
381 382 6.269769 ACAAATAAGGGCTCCTTTGATTCAAA 59.730 34.615 11.19 11.19 41.69 2.69
382 383 5.779771 ACAAATAAGGGCTCCTTTGATTCAA 59.220 36.000 11.15 0.00 41.69 2.69
383 384 5.185635 CACAAATAAGGGCTCCTTTGATTCA 59.814 40.000 11.15 0.00 41.69 2.57
384 385 5.185828 ACACAAATAAGGGCTCCTTTGATTC 59.814 40.000 11.15 0.00 41.69 2.52
385 386 5.086621 ACACAAATAAGGGCTCCTTTGATT 58.913 37.500 11.15 4.54 41.69 2.57
386 387 4.677182 ACACAAATAAGGGCTCCTTTGAT 58.323 39.130 11.15 0.00 41.69 2.57
387 388 4.112634 ACACAAATAAGGGCTCCTTTGA 57.887 40.909 11.15 0.00 41.69 2.69
388 389 4.871933 AACACAAATAAGGGCTCCTTTG 57.128 40.909 11.15 6.99 41.69 2.77
389 390 5.480422 CCTAAACACAAATAAGGGCTCCTTT 59.520 40.000 11.15 0.00 41.69 3.11
390 391 5.016831 CCTAAACACAAATAAGGGCTCCTT 58.983 41.667 10.76 10.76 46.63 3.36
391 392 4.044191 ACCTAAACACAAATAAGGGCTCCT 59.956 41.667 0.00 0.00 33.87 3.69
392 393 4.341487 ACCTAAACACAAATAAGGGCTCC 58.659 43.478 0.00 0.00 0.00 4.70
393 394 6.315642 GTCTACCTAAACACAAATAAGGGCTC 59.684 42.308 0.00 0.00 0.00 4.70
394 395 6.012771 AGTCTACCTAAACACAAATAAGGGCT 60.013 38.462 0.00 0.00 0.00 5.19
395 396 6.178324 AGTCTACCTAAACACAAATAAGGGC 58.822 40.000 0.00 0.00 0.00 5.19
396 397 8.512138 CAAAGTCTACCTAAACACAAATAAGGG 58.488 37.037 0.00 0.00 0.00 3.95
424 425 1.479389 CCAAGGTTGAAACTCTGGCCT 60.479 52.381 3.32 0.00 0.00 5.19
427 428 1.144913 TCCCCAAGGTTGAAACTCTGG 59.855 52.381 4.97 4.97 33.32 3.86
428 429 2.508526 CTCCCCAAGGTTGAAACTCTG 58.491 52.381 0.00 0.00 0.00 3.35
429 430 1.202940 GCTCCCCAAGGTTGAAACTCT 60.203 52.381 0.00 0.00 0.00 3.24
468 469 5.356190 CGTCCATGGACACGTATATATACCT 59.644 44.000 37.42 3.32 44.77 3.08
511 512 3.199677 CAAGGACACTTTTCACACGGTA 58.800 45.455 0.00 0.00 33.81 4.02
587 590 4.905269 ACAGTTCTTTTCCTTTTCGAACG 58.095 39.130 0.00 0.00 39.05 3.95
622 626 6.348458 CGTCAACATACACATCAGGAACATTT 60.348 38.462 0.00 0.00 0.00 2.32
658 662 9.630098 GACATGTTTTGATCTGTATTGATGTTT 57.370 29.630 0.00 0.00 0.00 2.83
754 759 0.901124 TTTGGTGCTGCAGGTTGTTT 59.099 45.000 17.12 0.00 0.00 2.83
827 864 3.810896 GCGATGGTTTGTCGGGGC 61.811 66.667 0.00 0.00 39.38 5.80
984 1021 1.135915 AGCCGTAGTGAGCTTGAGATG 59.864 52.381 0.00 0.00 35.22 2.90
1020 1057 1.751924 GGTGGATTCGTGAGCTAGTCT 59.248 52.381 0.00 0.00 0.00 3.24
1023 1060 0.738975 TCGGTGGATTCGTGAGCTAG 59.261 55.000 0.00 0.00 0.00 3.42
1024 1061 1.337071 GATCGGTGGATTCGTGAGCTA 59.663 52.381 0.00 0.00 31.51 3.32
1027 1064 1.536922 CCTGATCGGTGGATTCGTGAG 60.537 57.143 0.00 0.00 31.51 3.51
1041 1078 0.809241 CTGTGCCTCGCTTCCTGATC 60.809 60.000 0.00 0.00 0.00 2.92
1043 1080 1.908299 TCTGTGCCTCGCTTCCTGA 60.908 57.895 0.00 0.00 0.00 3.86
1044 1081 1.739562 GTCTGTGCCTCGCTTCCTG 60.740 63.158 0.00 0.00 0.00 3.86
1045 1082 2.659610 GTCTGTGCCTCGCTTCCT 59.340 61.111 0.00 0.00 0.00 3.36
1046 1083 2.435059 GGTCTGTGCCTCGCTTCC 60.435 66.667 0.00 0.00 0.00 3.46
1047 1084 2.765250 TTCGGTCTGTGCCTCGCTTC 62.765 60.000 0.00 0.00 0.00 3.86
1055 1092 1.355066 GCTAGCTGTTCGGTCTGTGC 61.355 60.000 7.70 0.00 0.00 4.57
1066 1103 2.890847 GATCACCGTGCGCTAGCTGT 62.891 60.000 13.93 0.00 45.42 4.40
1076 1113 2.230940 GCCATCGTCGATCACCGTG 61.231 63.158 4.34 0.00 39.75 4.94
1077 1114 2.104331 GCCATCGTCGATCACCGT 59.896 61.111 4.34 0.00 39.75 4.83
1081 1118 4.585526 GGCCGCCATCGTCGATCA 62.586 66.667 4.34 0.00 0.00 2.92
1085 1122 4.812476 TCTTGGCCGCCATCGTCG 62.812 66.667 14.30 0.03 31.53 5.12
1146 1183 4.849310 CACCGCCCCATGTACCGG 62.849 72.222 0.00 0.00 45.80 5.28
1425 1462 1.108776 GGGCATACTGGTAGTCGTCA 58.891 55.000 0.00 0.00 0.00 4.35
1495 1532 7.541091 AGCGTCGGATATGTTGTTAGTAATATG 59.459 37.037 0.00 0.00 0.00 1.78
1496 1533 7.600065 AGCGTCGGATATGTTGTTAGTAATAT 58.400 34.615 0.00 0.00 0.00 1.28
1763 1808 6.341316 ACTGCATATACATACGGATGAATCC 58.659 40.000 16.36 0.00 43.65 3.01
1775 1820 1.896220 CCGGCCAACTGCATATACAT 58.104 50.000 2.24 0.00 43.89 2.29
1868 1913 9.509956 GGTAGTACTATATCACTGAGTCTGATT 57.490 37.037 5.75 0.00 30.76 2.57
1869 1914 7.820386 CGGTAGTACTATATCACTGAGTCTGAT 59.180 40.741 5.75 2.22 32.91 2.90
1870 1915 7.153315 CGGTAGTACTATATCACTGAGTCTGA 58.847 42.308 5.75 0.00 0.00 3.27
1871 1916 6.930164 ACGGTAGTACTATATCACTGAGTCTG 59.070 42.308 5.75 0.00 0.00 3.51
1872 1917 7.065120 ACGGTAGTACTATATCACTGAGTCT 57.935 40.000 5.75 0.00 0.00 3.24
1886 1931 5.987953 GTCTTTTCCTGAAAACGGTAGTACT 59.012 40.000 0.00 0.00 35.57 2.73
1899 1947 2.897326 TCGTCATGGAGTCTTTTCCTGA 59.103 45.455 0.00 0.00 38.12 3.86
1986 2042 3.751698 GGAGCAAACCGACTAACAGAATT 59.248 43.478 0.00 0.00 0.00 2.17
2043 2099 4.382040 GGTGATGAAGTGAGCAGCTAGTAA 60.382 45.833 0.00 0.00 0.00 2.24
2095 2151 9.702494 TGTATTGTGTTTGCATGAATATCAAAA 57.298 25.926 0.00 0.00 32.36 2.44
2153 2629 6.815142 GCCCTATATCGTTTATCGGTTAACAT 59.185 38.462 8.10 0.00 40.32 2.71
2154 2630 6.158598 GCCCTATATCGTTTATCGGTTAACA 58.841 40.000 8.10 0.00 40.32 2.41
2167 2643 0.104620 ACCCCAAGGCCCTATATCGT 60.105 55.000 0.00 0.00 36.11 3.73
2258 3600 6.472016 TGCCACAAGTACTAGAATTTCATGA 58.528 36.000 0.00 0.00 0.00 3.07
2271 3613 5.008613 TGAAAATCAGACTTGCCACAAGTAC 59.991 40.000 12.64 7.23 0.00 2.73
2297 3639 2.242047 TTCGTTTGTCCGTTGGATGA 57.758 45.000 0.00 0.00 32.73 2.92
2365 3707 3.495001 GCTCGACTGCTCCCATATAAAAC 59.505 47.826 0.00 0.00 0.00 2.43
2393 3735 4.654262 TGGTGGGCTTTTGTTTTATGGTTA 59.346 37.500 0.00 0.00 0.00 2.85
2693 4038 9.308318 GCAATTTGTTTCTTCTTTACTGGTAAA 57.692 29.630 5.90 5.90 34.28 2.01
2752 4097 7.201522 GCCATCGATTTATTTTTCCTTGGAAAC 60.202 37.037 13.73 1.40 0.00 2.78
2791 4136 6.118170 TGTTTGCATTTCATTTTTCTCCCAA 58.882 32.000 0.00 0.00 0.00 4.12
2793 4138 6.616774 TTGTTTGCATTTCATTTTTCTCCC 57.383 33.333 0.00 0.00 0.00 4.30


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

AutoCloner maintained by Alex Coulton.