Multiple sequence alignment - TraesCS7D01G307400

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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 TraesCS7D01G307400 chr7D 100.000 2229 0 0 816 3044 389456673 389454445 0.000000e+00 4117.0
1 TraesCS7D01G307400 chr7D 97.895 1520 30 2 816 2333 80292924 80294443 0.000000e+00 2628.0
2 TraesCS7D01G307400 chr7D 97.694 1518 30 5 816 2331 563842605 563844119 0.000000e+00 2604.0
3 TraesCS7D01G307400 chr7D 100.000 383 0 0 1 383 389457488 389457106 0.000000e+00 708.0
4 TraesCS7D01G307400 chr1D 98.224 1520 24 3 816 2333 479616726 479615208 0.000000e+00 2654.0
5 TraesCS7D01G307400 chr1D 97.495 1517 31 5 816 2330 43188531 43190042 0.000000e+00 2584.0
6 TraesCS7D01G307400 chr4D 98.079 1510 27 2 816 2323 328702104 328703613 0.000000e+00 2627.0
7 TraesCS7D01G307400 chr6D 97.816 1511 27 6 816 2323 1557232 1555725 0.000000e+00 2603.0
8 TraesCS7D01G307400 chr6D 100.000 39 0 0 247 285 404612202 404612164 4.210000e-09 73.1
9 TraesCS7D01G307400 chr7B 97.281 1508 36 4 816 2321 537832267 537833771 0.000000e+00 2553.0
10 TraesCS7D01G307400 chr7B 89.736 721 25 8 2333 3044 384765823 384765143 0.000000e+00 876.0
11 TraesCS7D01G307400 chr7B 85.944 249 19 6 1 246 384766045 384765810 5.040000e-63 252.0
12 TraesCS7D01G307400 chr5B 96.350 1507 53 2 816 2320 478923886 478922380 0.000000e+00 2477.0
13 TraesCS7D01G307400 chr3B 96.133 1500 55 3 816 2313 602784371 602782873 0.000000e+00 2446.0
14 TraesCS7D01G307400 chr7A 92.006 713 49 5 2333 3040 440350276 440349567 0.000000e+00 994.0
15 TraesCS7D01G307400 chr7A 88.095 252 10 10 1 246 440350500 440350263 6.430000e-72 281.0


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 TraesCS7D01G307400 chr7D 389454445 389457488 3043 True 2412.5 4117 100.0000 1 3044 2 chr7D.!!$R1 3043
1 TraesCS7D01G307400 chr7D 80292924 80294443 1519 False 2628.0 2628 97.8950 816 2333 1 chr7D.!!$F1 1517
2 TraesCS7D01G307400 chr7D 563842605 563844119 1514 False 2604.0 2604 97.6940 816 2331 1 chr7D.!!$F2 1515
3 TraesCS7D01G307400 chr1D 479615208 479616726 1518 True 2654.0 2654 98.2240 816 2333 1 chr1D.!!$R1 1517
4 TraesCS7D01G307400 chr1D 43188531 43190042 1511 False 2584.0 2584 97.4950 816 2330 1 chr1D.!!$F1 1514
5 TraesCS7D01G307400 chr4D 328702104 328703613 1509 False 2627.0 2627 98.0790 816 2323 1 chr4D.!!$F1 1507
6 TraesCS7D01G307400 chr6D 1555725 1557232 1507 True 2603.0 2603 97.8160 816 2323 1 chr6D.!!$R1 1507
7 TraesCS7D01G307400 chr7B 537832267 537833771 1504 False 2553.0 2553 97.2810 816 2321 1 chr7B.!!$F1 1505
8 TraesCS7D01G307400 chr7B 384765143 384766045 902 True 564.0 876 87.8400 1 3044 2 chr7B.!!$R1 3043
9 TraesCS7D01G307400 chr5B 478922380 478923886 1506 True 2477.0 2477 96.3500 816 2320 1 chr5B.!!$R1 1504
10 TraesCS7D01G307400 chr3B 602782873 602784371 1498 True 2446.0 2446 96.1330 816 2313 1 chr3B.!!$R1 1497
11 TraesCS7D01G307400 chr7A 440349567 440350500 933 True 637.5 994 90.0505 1 3040 2 chr7A.!!$R1 3039

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
160 161 0.040246 GCCTACGGTGCGTCTCTATC 60.040 60.0 0.00 0.0 41.54 2.08 F
259 260 0.044092 TAGCAGGATCCAAGGTGGGA 59.956 55.0 15.82 0.0 42.21 4.37 F
306 307 0.122435 ACCCCCATCCTGAAACCCTA 59.878 55.0 0.00 0.0 0.00 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1175 1221 0.249911 AGTCGCAGGGTTGTCTTGAC 60.250 55.000 0.0 0.0 0.0 3.18 R
1767 2174 1.214175 TCTCCCACCTGCAAAACTTGA 59.786 47.619 0.0 0.0 0.0 3.02 R
2152 2559 1.304464 GGAAACAAGAGCCCCCAGG 60.304 63.158 0.0 0.0 0.0 4.45 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
30 31 2.225701 TGGGCAAAGTACCTACCTACCT 60.226 50.000 0.00 0.00 0.00 3.08
31 32 3.012730 TGGGCAAAGTACCTACCTACCTA 59.987 47.826 0.00 0.00 0.00 3.08
32 33 3.386078 GGGCAAAGTACCTACCTACCTAC 59.614 52.174 0.00 0.00 0.00 3.18
33 34 3.386078 GGCAAAGTACCTACCTACCTACC 59.614 52.174 0.00 0.00 0.00 3.18
56 57 1.953686 TGCGGGAAACTCTCTTTTTGG 59.046 47.619 0.00 0.00 0.00 3.28
57 58 1.335964 GCGGGAAACTCTCTTTTTGGC 60.336 52.381 0.00 0.00 0.00 4.52
58 59 2.230660 CGGGAAACTCTCTTTTTGGCT 58.769 47.619 0.00 0.00 0.00 4.75
59 60 2.030805 CGGGAAACTCTCTTTTTGGCTG 60.031 50.000 0.00 0.00 0.00 4.85
60 61 2.959030 GGGAAACTCTCTTTTTGGCTGT 59.041 45.455 0.00 0.00 0.00 4.40
61 62 3.004839 GGGAAACTCTCTTTTTGGCTGTC 59.995 47.826 0.00 0.00 0.00 3.51
62 63 3.632145 GGAAACTCTCTTTTTGGCTGTCA 59.368 43.478 0.00 0.00 0.00 3.58
63 64 4.498177 GGAAACTCTCTTTTTGGCTGTCAC 60.498 45.833 0.00 0.00 0.00 3.67
64 65 2.213499 ACTCTCTTTTTGGCTGTCACG 58.787 47.619 0.00 0.00 0.00 4.35
65 66 0.944386 TCTCTTTTTGGCTGTCACGC 59.056 50.000 0.00 0.00 0.00 5.34
73 74 3.555428 GCTGTCACGCCAAGTCTC 58.445 61.111 0.00 0.00 0.00 3.36
74 75 2.029844 GCTGTCACGCCAAGTCTCC 61.030 63.158 0.00 0.00 0.00 3.71
75 76 1.374758 CTGTCACGCCAAGTCTCCC 60.375 63.158 0.00 0.00 0.00 4.30
76 77 2.099652 CTGTCACGCCAAGTCTCCCA 62.100 60.000 0.00 0.00 0.00 4.37
77 78 1.070786 GTCACGCCAAGTCTCCCAA 59.929 57.895 0.00 0.00 0.00 4.12
78 79 0.321653 GTCACGCCAAGTCTCCCAAT 60.322 55.000 0.00 0.00 0.00 3.16
79 80 0.400213 TCACGCCAAGTCTCCCAATT 59.600 50.000 0.00 0.00 0.00 2.32
80 81 0.523072 CACGCCAAGTCTCCCAATTG 59.477 55.000 0.00 0.00 0.00 2.32
81 82 0.609131 ACGCCAAGTCTCCCAATTGG 60.609 55.000 18.21 18.21 45.16 3.16
82 83 0.609131 CGCCAAGTCTCCCAATTGGT 60.609 55.000 22.91 0.83 44.38 3.67
83 84 1.632589 GCCAAGTCTCCCAATTGGTT 58.367 50.000 22.91 7.57 44.38 3.67
84 85 1.273327 GCCAAGTCTCCCAATTGGTTG 59.727 52.381 22.91 18.31 44.38 3.77
85 86 1.273327 CCAAGTCTCCCAATTGGTTGC 59.727 52.381 22.91 10.06 38.92 4.17
86 87 1.273327 CAAGTCTCCCAATTGGTTGCC 59.727 52.381 22.91 8.33 33.90 4.52
87 88 0.482446 AGTCTCCCAATTGGTTGCCA 59.518 50.000 22.91 0.00 33.90 4.92
88 89 0.603065 GTCTCCCAATTGGTTGCCAC 59.397 55.000 22.91 8.36 33.90 5.01
89 90 0.187117 TCTCCCAATTGGTTGCCACA 59.813 50.000 22.91 0.00 33.90 4.17
90 91 1.047002 CTCCCAATTGGTTGCCACAA 58.953 50.000 22.91 0.00 33.90 3.33
91 92 1.415659 CTCCCAATTGGTTGCCACAAA 59.584 47.619 22.91 0.00 33.90 2.83
92 93 1.839994 TCCCAATTGGTTGCCACAAAA 59.160 42.857 22.91 0.00 33.90 2.44
93 94 2.239654 TCCCAATTGGTTGCCACAAAAA 59.760 40.909 22.91 0.00 33.90 1.94
117 118 2.875711 GCGCGCGCACAATTCATT 60.876 55.556 46.11 0.00 41.49 2.57
118 119 2.435737 GCGCGCGCACAATTCATTT 61.436 52.632 46.11 0.00 41.49 2.32
119 120 1.337810 CGCGCGCACAATTCATTTG 59.662 52.632 32.61 5.79 41.36 2.32
129 130 4.445452 ACAATTCATTTGTGGCTGCTAG 57.555 40.909 0.00 0.00 46.80 3.42
130 131 4.081406 ACAATTCATTTGTGGCTGCTAGA 58.919 39.130 0.00 0.00 46.80 2.43
131 132 4.157289 ACAATTCATTTGTGGCTGCTAGAG 59.843 41.667 0.00 0.00 46.80 2.43
132 133 3.423539 TTCATTTGTGGCTGCTAGAGT 57.576 42.857 0.00 0.00 0.00 3.24
133 134 2.703416 TCATTTGTGGCTGCTAGAGTG 58.297 47.619 0.00 0.00 0.00 3.51
134 135 1.131883 CATTTGTGGCTGCTAGAGTGC 59.868 52.381 0.00 0.00 0.00 4.40
135 136 0.397941 TTTGTGGCTGCTAGAGTGCT 59.602 50.000 0.00 0.00 0.00 4.40
136 137 1.266178 TTGTGGCTGCTAGAGTGCTA 58.734 50.000 0.00 0.00 0.00 3.49
137 138 0.820226 TGTGGCTGCTAGAGTGCTAG 59.180 55.000 0.00 0.00 45.63 3.42
138 139 0.820871 GTGGCTGCTAGAGTGCTAGT 59.179 55.000 0.00 0.00 44.84 2.57
139 140 1.205893 GTGGCTGCTAGAGTGCTAGTT 59.794 52.381 0.00 0.00 44.84 2.24
140 141 1.205655 TGGCTGCTAGAGTGCTAGTTG 59.794 52.381 0.00 0.00 44.84 3.16
141 142 1.472376 GGCTGCTAGAGTGCTAGTTGG 60.472 57.143 0.00 0.00 44.84 3.77
142 143 1.933247 CTGCTAGAGTGCTAGTTGGC 58.067 55.000 0.00 0.00 44.84 4.52
143 144 0.537188 TGCTAGAGTGCTAGTTGGCC 59.463 55.000 0.00 0.00 44.84 5.36
144 145 0.827368 GCTAGAGTGCTAGTTGGCCT 59.173 55.000 3.32 0.00 44.84 5.19
145 146 2.032620 GCTAGAGTGCTAGTTGGCCTA 58.967 52.381 3.32 0.00 44.84 3.93
146 147 2.223852 GCTAGAGTGCTAGTTGGCCTAC 60.224 54.545 9.54 9.54 44.84 3.18
147 148 0.818296 AGAGTGCTAGTTGGCCTACG 59.182 55.000 11.80 0.00 0.00 3.51
148 149 0.179108 GAGTGCTAGTTGGCCTACGG 60.179 60.000 11.80 9.86 0.00 4.02
149 150 0.903454 AGTGCTAGTTGGCCTACGGT 60.903 55.000 11.80 0.00 0.00 4.83
150 151 0.739813 GTGCTAGTTGGCCTACGGTG 60.740 60.000 11.80 7.20 0.00 4.94
151 152 1.814169 GCTAGTTGGCCTACGGTGC 60.814 63.158 11.80 12.86 0.00 5.01
152 153 1.518572 CTAGTTGGCCTACGGTGCG 60.519 63.158 11.80 0.00 0.00 5.34
153 154 2.221906 CTAGTTGGCCTACGGTGCGT 62.222 60.000 11.80 0.00 44.35 5.24
154 155 2.216750 TAGTTGGCCTACGGTGCGTC 62.217 60.000 11.80 0.00 41.54 5.19
155 156 3.307906 TTGGCCTACGGTGCGTCT 61.308 61.111 3.32 0.00 41.54 4.18
156 157 3.291101 TTGGCCTACGGTGCGTCTC 62.291 63.158 3.32 0.00 41.54 3.36
157 158 3.450115 GGCCTACGGTGCGTCTCT 61.450 66.667 0.00 0.00 41.54 3.10
158 159 2.117156 GGCCTACGGTGCGTCTCTA 61.117 63.158 0.00 0.00 41.54 2.43
159 160 1.453762 GGCCTACGGTGCGTCTCTAT 61.454 60.000 0.00 0.00 41.54 1.98
160 161 0.040246 GCCTACGGTGCGTCTCTATC 60.040 60.000 0.00 0.00 41.54 2.08
161 162 0.592148 CCTACGGTGCGTCTCTATCC 59.408 60.000 0.00 0.00 41.54 2.59
162 163 1.306148 CTACGGTGCGTCTCTATCCA 58.694 55.000 0.00 0.00 41.54 3.41
163 164 1.264557 CTACGGTGCGTCTCTATCCAG 59.735 57.143 0.00 0.00 41.54 3.86
164 165 0.393944 ACGGTGCGTCTCTATCCAGA 60.394 55.000 0.00 0.00 33.69 3.86
165 166 0.738975 CGGTGCGTCTCTATCCAGAA 59.261 55.000 0.00 0.00 0.00 3.02
166 167 1.134367 CGGTGCGTCTCTATCCAGAAA 59.866 52.381 0.00 0.00 0.00 2.52
167 168 2.541556 GGTGCGTCTCTATCCAGAAAC 58.458 52.381 0.00 0.00 0.00 2.78
168 169 2.094182 GGTGCGTCTCTATCCAGAAACA 60.094 50.000 0.00 0.00 0.00 2.83
169 170 2.924290 GTGCGTCTCTATCCAGAAACAC 59.076 50.000 0.00 0.00 0.00 3.32
170 171 2.560981 TGCGTCTCTATCCAGAAACACA 59.439 45.455 0.00 0.00 0.00 3.72
171 172 3.195610 TGCGTCTCTATCCAGAAACACAT 59.804 43.478 0.00 0.00 0.00 3.21
172 173 3.553511 GCGTCTCTATCCAGAAACACATG 59.446 47.826 0.00 0.00 0.00 3.21
173 174 4.748892 CGTCTCTATCCAGAAACACATGT 58.251 43.478 0.00 0.00 0.00 3.21
174 175 5.171476 CGTCTCTATCCAGAAACACATGTT 58.829 41.667 0.00 0.00 40.50 2.71
185 186 6.979817 CCAGAAACACATGTTTTCATTTCTGA 59.020 34.615 27.62 0.00 45.82 3.27
186 187 7.654520 CCAGAAACACATGTTTTCATTTCTGAT 59.345 33.333 27.62 11.31 45.82 2.90
187 188 8.484799 CAGAAACACATGTTTTCATTTCTGATG 58.515 33.333 24.84 14.26 45.82 3.07
189 190 7.703298 AACACATGTTTTCATTTCTGATGTG 57.297 32.000 0.00 0.00 40.65 3.21
190 191 5.693104 ACACATGTTTTCATTTCTGATGTGC 59.307 36.000 0.00 0.00 39.41 4.57
191 192 5.924254 CACATGTTTTCATTTCTGATGTGCT 59.076 36.000 0.00 0.00 38.64 4.40
192 193 6.422701 CACATGTTTTCATTTCTGATGTGCTT 59.577 34.615 0.00 0.00 38.64 3.91
193 194 6.987992 ACATGTTTTCATTTCTGATGTGCTTT 59.012 30.769 0.00 0.00 38.64 3.51
194 195 7.496591 ACATGTTTTCATTTCTGATGTGCTTTT 59.503 29.630 0.00 0.00 38.64 2.27
195 196 7.846644 TGTTTTCATTTCTGATGTGCTTTTT 57.153 28.000 0.00 0.00 0.00 1.94
218 219 6.595772 TTTTTGCGAATACATTTTGTGCTT 57.404 29.167 0.00 0.00 0.00 3.91
219 220 7.700322 TTTTTGCGAATACATTTTGTGCTTA 57.300 28.000 0.00 0.00 0.00 3.09
220 221 7.700322 TTTTGCGAATACATTTTGTGCTTAA 57.300 28.000 0.00 0.00 0.00 1.85
221 222 7.700322 TTTGCGAATACATTTTGTGCTTAAA 57.300 28.000 0.00 0.00 0.00 1.52
222 223 7.700322 TTGCGAATACATTTTGTGCTTAAAA 57.300 28.000 0.00 2.08 34.39 1.52
223 224 7.099666 TGCGAATACATTTTGTGCTTAAAAC 57.900 32.000 0.00 0.00 32.86 2.43
224 225 6.697455 TGCGAATACATTTTGTGCTTAAAACA 59.303 30.769 0.00 0.00 32.86 2.83
225 226 7.383572 TGCGAATACATTTTGTGCTTAAAACAT 59.616 29.630 0.00 0.00 32.86 2.71
226 227 8.855279 GCGAATACATTTTGTGCTTAAAACATA 58.145 29.630 0.00 0.00 32.86 2.29
230 231 7.851822 ACATTTTGTGCTTAAAACATACTCG 57.148 32.000 1.69 0.00 32.86 4.18
231 232 7.422399 ACATTTTGTGCTTAAAACATACTCGT 58.578 30.769 1.69 0.00 32.86 4.18
232 233 8.561212 ACATTTTGTGCTTAAAACATACTCGTA 58.439 29.630 1.69 0.00 32.86 3.43
233 234 8.837059 CATTTTGTGCTTAAAACATACTCGTAC 58.163 33.333 1.69 0.00 32.86 3.67
234 235 7.718272 TTTGTGCTTAAAACATACTCGTACT 57.282 32.000 0.00 0.00 0.00 2.73
235 236 8.815141 TTTGTGCTTAAAACATACTCGTACTA 57.185 30.769 0.00 0.00 0.00 1.82
236 237 7.801547 TGTGCTTAAAACATACTCGTACTAC 57.198 36.000 0.00 0.00 0.00 2.73
237 238 7.596494 TGTGCTTAAAACATACTCGTACTACT 58.404 34.615 0.00 0.00 0.00 2.57
238 239 8.729756 TGTGCTTAAAACATACTCGTACTACTA 58.270 33.333 0.00 0.00 0.00 1.82
239 240 9.004146 GTGCTTAAAACATACTCGTACTACTAC 57.996 37.037 0.00 0.00 0.00 2.73
240 241 8.950210 TGCTTAAAACATACTCGTACTACTACT 58.050 33.333 0.00 0.00 0.00 2.57
244 245 8.498054 AAAACATACTCGTACTACTACTAGCA 57.502 34.615 0.00 0.00 0.00 3.49
245 246 7.712264 AACATACTCGTACTACTACTAGCAG 57.288 40.000 0.00 0.00 0.00 4.24
246 247 6.222389 ACATACTCGTACTACTACTAGCAGG 58.778 44.000 0.00 0.00 0.00 4.85
247 248 6.041409 ACATACTCGTACTACTACTAGCAGGA 59.959 42.308 0.00 0.00 0.00 3.86
248 249 5.549742 ACTCGTACTACTACTAGCAGGAT 57.450 43.478 0.00 0.00 0.00 3.24
249 250 5.540911 ACTCGTACTACTACTAGCAGGATC 58.459 45.833 0.00 0.00 0.00 3.36
250 251 4.892433 TCGTACTACTACTAGCAGGATCC 58.108 47.826 2.48 2.48 0.00 3.36
251 252 4.346127 TCGTACTACTACTAGCAGGATCCA 59.654 45.833 15.82 0.00 0.00 3.41
252 253 5.061853 CGTACTACTACTAGCAGGATCCAA 58.938 45.833 15.82 0.00 0.00 3.53
253 254 5.179742 CGTACTACTACTAGCAGGATCCAAG 59.820 48.000 15.82 7.22 0.00 3.61
254 255 4.475345 ACTACTACTAGCAGGATCCAAGG 58.525 47.826 15.82 4.00 0.00 3.61
255 256 3.406512 ACTACTAGCAGGATCCAAGGT 57.593 47.619 15.82 13.94 0.00 3.50
256 257 3.034635 ACTACTAGCAGGATCCAAGGTG 58.965 50.000 15.82 4.26 0.00 4.00
257 258 1.207791 ACTAGCAGGATCCAAGGTGG 58.792 55.000 15.82 15.37 39.43 4.61
258 259 0.471617 CTAGCAGGATCCAAGGTGGG 59.528 60.000 15.82 5.81 38.32 4.61
259 260 0.044092 TAGCAGGATCCAAGGTGGGA 59.956 55.000 15.82 0.00 42.21 4.37
260 261 1.225704 GCAGGATCCAAGGTGGGAG 59.774 63.158 15.82 0.00 41.08 4.30
261 262 1.274703 GCAGGATCCAAGGTGGGAGA 61.275 60.000 15.82 0.00 41.08 3.71
262 263 1.289160 CAGGATCCAAGGTGGGAGAA 58.711 55.000 15.82 0.00 41.08 2.87
263 264 1.635487 CAGGATCCAAGGTGGGAGAAA 59.365 52.381 15.82 0.00 41.08 2.52
264 265 2.041620 CAGGATCCAAGGTGGGAGAAAA 59.958 50.000 15.82 0.00 41.08 2.29
265 266 2.310052 AGGATCCAAGGTGGGAGAAAAG 59.690 50.000 15.82 0.00 41.08 2.27
266 267 2.308866 GGATCCAAGGTGGGAGAAAAGA 59.691 50.000 6.95 0.00 41.08 2.52
267 268 3.245264 GGATCCAAGGTGGGAGAAAAGAA 60.245 47.826 6.95 0.00 41.08 2.52
268 269 3.508845 TCCAAGGTGGGAGAAAAGAAG 57.491 47.619 0.00 0.00 38.32 2.85
269 270 1.889170 CCAAGGTGGGAGAAAAGAAGC 59.111 52.381 0.00 0.00 32.67 3.86
270 271 1.537202 CAAGGTGGGAGAAAAGAAGCG 59.463 52.381 0.00 0.00 0.00 4.68
271 272 0.606673 AGGTGGGAGAAAAGAAGCGC 60.607 55.000 0.00 0.00 0.00 5.92
272 273 0.606673 GGTGGGAGAAAAGAAGCGCT 60.607 55.000 2.64 2.64 0.00 5.92
273 274 1.239347 GTGGGAGAAAAGAAGCGCTT 58.761 50.000 25.35 25.35 38.88 4.68
274 275 1.197949 GTGGGAGAAAAGAAGCGCTTC 59.802 52.381 37.06 37.06 35.24 3.86
275 276 0.444260 GGGAGAAAAGAAGCGCTTCG 59.556 55.000 36.88 0.00 43.97 3.79
276 277 1.149148 GGAGAAAAGAAGCGCTTCGT 58.851 50.000 36.88 33.20 43.97 3.85
277 278 2.334838 GGAGAAAAGAAGCGCTTCGTA 58.665 47.619 36.88 0.00 43.97 3.43
278 279 2.092368 GGAGAAAAGAAGCGCTTCGTAC 59.908 50.000 36.88 29.52 43.97 3.67
279 280 1.719780 AGAAAAGAAGCGCTTCGTACG 59.280 47.619 36.88 9.53 43.97 3.67
280 281 0.788391 AAAAGAAGCGCTTCGTACGG 59.212 50.000 36.88 0.69 43.97 4.02
281 282 1.623973 AAAGAAGCGCTTCGTACGGC 61.624 55.000 36.88 18.03 43.97 5.68
282 283 2.758770 AAGAAGCGCTTCGTACGGCA 62.759 55.000 36.88 1.37 43.97 5.69
283 284 3.067846 GAAGCGCTTCGTACGGCAC 62.068 63.158 32.36 9.14 0.00 5.01
298 299 4.802051 CACGGCACCCCCATCCTG 62.802 72.222 0.00 0.00 0.00 3.86
300 301 3.727258 CGGCACCCCCATCCTGAA 61.727 66.667 0.00 0.00 0.00 3.02
301 302 2.770130 GGCACCCCCATCCTGAAA 59.230 61.111 0.00 0.00 0.00 2.69
302 303 1.682344 GGCACCCCCATCCTGAAAC 60.682 63.158 0.00 0.00 0.00 2.78
303 304 1.682344 GCACCCCCATCCTGAAACC 60.682 63.158 0.00 0.00 0.00 3.27
304 305 1.000359 CACCCCCATCCTGAAACCC 60.000 63.158 0.00 0.00 0.00 4.11
305 306 1.151361 ACCCCCATCCTGAAACCCT 60.151 57.895 0.00 0.00 0.00 4.34
306 307 0.122435 ACCCCCATCCTGAAACCCTA 59.878 55.000 0.00 0.00 0.00 3.53
307 308 0.846693 CCCCCATCCTGAAACCCTAG 59.153 60.000 0.00 0.00 0.00 3.02
308 309 0.183731 CCCCATCCTGAAACCCTAGC 59.816 60.000 0.00 0.00 0.00 3.42
309 310 0.183731 CCCATCCTGAAACCCTAGCC 59.816 60.000 0.00 0.00 0.00 3.93
310 311 1.216990 CCATCCTGAAACCCTAGCCT 58.783 55.000 0.00 0.00 0.00 4.58
311 312 1.141858 CCATCCTGAAACCCTAGCCTC 59.858 57.143 0.00 0.00 0.00 4.70
312 313 1.141858 CATCCTGAAACCCTAGCCTCC 59.858 57.143 0.00 0.00 0.00 4.30
313 314 0.620700 TCCTGAAACCCTAGCCTCCC 60.621 60.000 0.00 0.00 0.00 4.30
314 315 1.522569 CTGAAACCCTAGCCTCCCG 59.477 63.158 0.00 0.00 0.00 5.14
315 316 2.189784 GAAACCCTAGCCTCCCGC 59.810 66.667 0.00 0.00 37.98 6.13
316 317 3.735037 GAAACCCTAGCCTCCCGCG 62.735 68.421 0.00 0.00 44.76 6.46
317 318 4.772231 AACCCTAGCCTCCCGCGA 62.772 66.667 8.23 0.00 44.76 5.87
320 321 3.597728 CCTAGCCTCCCGCGACTC 61.598 72.222 8.23 0.00 44.76 3.36
321 322 3.597728 CTAGCCTCCCGCGACTCC 61.598 72.222 8.23 0.00 44.76 3.85
926 927 1.803555 GCACTTTCAAGCAGAGGACTC 59.196 52.381 0.00 0.00 0.00 3.36
1165 1211 2.357034 GTCGCACTTGGGCTTCGA 60.357 61.111 0.00 0.00 0.00 3.71
1175 1221 0.391130 TGGGCTTCGATGGTTTCTCG 60.391 55.000 0.00 0.00 37.47 4.04
1767 2174 2.986413 ACTGTGTCGAGCTCGCCT 60.986 61.111 30.97 0.16 39.60 5.52
2018 2425 4.451150 GGTGATCGAGGCGGTGCA 62.451 66.667 0.00 0.00 0.00 4.57
2107 2514 1.748493 GAGAGTTTGTGGGTGTTTGCA 59.252 47.619 0.00 0.00 0.00 4.08
2325 2745 0.729116 CACCTGCCATTCACGCTAAG 59.271 55.000 0.00 0.00 0.00 2.18
2405 2825 6.273825 AGATGAATCACGGTGTAATAGTGTC 58.726 40.000 8.17 0.00 37.20 3.67
2424 2844 4.093850 GTGTCCGATGTGTATTGTTAACCC 59.906 45.833 2.48 0.00 0.00 4.11
2465 2885 6.074642 TGCAGAAATATACAACGACGTTTTG 58.925 36.000 11.24 4.12 0.00 2.44
2557 2978 7.120579 ACAGTGAGACAATGTTACAACAGAAAA 59.879 33.333 0.00 0.00 39.70 2.29
2646 3067 2.286872 CAACTGCTGGCTCATTAGGAG 58.713 52.381 0.00 0.00 46.93 3.69
2647 3068 0.835941 ACTGCTGGCTCATTAGGAGG 59.164 55.000 0.00 0.00 44.22 4.30
2649 3070 1.211457 CTGCTGGCTCATTAGGAGGTT 59.789 52.381 0.00 0.00 44.22 3.50
2650 3071 1.210478 TGCTGGCTCATTAGGAGGTTC 59.790 52.381 0.00 0.00 44.22 3.62
2652 3073 0.178068 TGGCTCATTAGGAGGTTCGC 59.822 55.000 0.00 0.00 44.22 4.70
2707 3135 2.955342 TTACCAACTAAAAGCCCGGT 57.045 45.000 0.00 0.00 0.00 5.28
2765 3193 8.729805 TGACAATGATGTAATATACAGTTGCA 57.270 30.769 10.42 0.00 42.77 4.08
2766 3194 9.341078 TGACAATGATGTAATATACAGTTGCAT 57.659 29.630 0.00 0.00 42.77 3.96
2811 3239 5.358725 GTGGTTGTTGGAAGTTCTCCTTTTA 59.641 40.000 2.25 0.00 45.64 1.52
2850 3279 1.821216 AAATGTTGCTACTCCGTGGG 58.179 50.000 0.00 0.00 0.00 4.61
2851 3280 0.676782 AATGTTGCTACTCCGTGGGC 60.677 55.000 0.00 0.00 0.00 5.36
2926 3355 9.787435 GAGTCGATATCCCTAGATATAATGTCT 57.213 37.037 0.00 0.00 44.21 3.41
2994 3423 8.732746 AGCATACTAACTTAACACCTTAATGG 57.267 34.615 0.00 0.00 42.93 3.16
2996 3425 7.282450 GCATACTAACTTAACACCTTAATGGCT 59.718 37.037 0.00 0.00 40.22 4.75
3041 3470 3.383185 TCAAAACAAGGTCAATGTGGTCC 59.617 43.478 0.00 0.00 0.00 4.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 3.201487 GGTAGGTAGGTACTTTGCCCAAT 59.799 47.826 0.00 0.00 41.75 3.16
42 43 3.065371 CGTGACAGCCAAAAAGAGAGTTT 59.935 43.478 0.00 0.00 0.00 2.66
45 46 1.069636 GCGTGACAGCCAAAAAGAGAG 60.070 52.381 0.00 0.00 0.00 3.20
56 57 2.029844 GGAGACTTGGCGTGACAGC 61.030 63.158 0.00 0.00 0.00 4.40
57 58 1.374758 GGGAGACTTGGCGTGACAG 60.375 63.158 0.00 0.00 0.00 3.51
58 59 1.691195 TTGGGAGACTTGGCGTGACA 61.691 55.000 0.00 0.00 0.00 3.58
59 60 0.321653 ATTGGGAGACTTGGCGTGAC 60.322 55.000 0.00 0.00 0.00 3.67
60 61 0.400213 AATTGGGAGACTTGGCGTGA 59.600 50.000 0.00 0.00 0.00 4.35
61 62 0.523072 CAATTGGGAGACTTGGCGTG 59.477 55.000 0.00 0.00 0.00 5.34
62 63 0.609131 CCAATTGGGAGACTTGGCGT 60.609 55.000 17.36 0.00 40.01 5.68
63 64 0.609131 ACCAATTGGGAGACTTGGCG 60.609 55.000 27.89 0.00 42.59 5.69
64 65 1.273327 CAACCAATTGGGAGACTTGGC 59.727 52.381 27.89 0.00 42.59 4.52
65 66 1.273327 GCAACCAATTGGGAGACTTGG 59.727 52.381 27.89 5.01 44.06 3.61
66 67 1.273327 GGCAACCAATTGGGAGACTTG 59.727 52.381 27.89 21.54 41.15 3.16
67 68 1.133199 TGGCAACCAATTGGGAGACTT 60.133 47.619 27.89 10.30 41.15 3.01
68 69 0.482446 TGGCAACCAATTGGGAGACT 59.518 50.000 27.89 3.92 41.15 3.24
69 70 0.603065 GTGGCAACCAATTGGGAGAC 59.397 55.000 27.89 21.19 41.15 3.36
70 71 0.187117 TGTGGCAACCAATTGGGAGA 59.813 50.000 27.89 4.75 41.15 3.71
71 72 1.047002 TTGTGGCAACCAATTGGGAG 58.953 50.000 27.89 19.69 41.15 4.30
72 73 1.500474 TTTGTGGCAACCAATTGGGA 58.500 45.000 27.89 4.03 41.15 4.37
73 74 2.338577 TTTTGTGGCAACCAATTGGG 57.661 45.000 27.89 12.58 44.81 4.12
100 101 2.435737 AAATGAATTGTGCGCGCGC 61.436 52.632 45.02 45.02 42.35 6.86
101 102 1.337810 CAAATGAATTGTGCGCGCG 59.662 52.632 28.44 28.44 34.16 6.86
109 110 4.157289 ACTCTAGCAGCCACAAATGAATTG 59.843 41.667 0.00 0.00 44.95 2.32
110 111 4.157289 CACTCTAGCAGCCACAAATGAATT 59.843 41.667 0.00 0.00 0.00 2.17
111 112 3.693085 CACTCTAGCAGCCACAAATGAAT 59.307 43.478 0.00 0.00 0.00 2.57
112 113 3.076621 CACTCTAGCAGCCACAAATGAA 58.923 45.455 0.00 0.00 0.00 2.57
113 114 2.703416 CACTCTAGCAGCCACAAATGA 58.297 47.619 0.00 0.00 0.00 2.57
114 115 1.131883 GCACTCTAGCAGCCACAAATG 59.868 52.381 0.00 0.00 0.00 2.32
115 116 1.004044 AGCACTCTAGCAGCCACAAAT 59.996 47.619 0.00 0.00 36.85 2.32
116 117 0.397941 AGCACTCTAGCAGCCACAAA 59.602 50.000 0.00 0.00 36.85 2.83
117 118 1.205655 CTAGCACTCTAGCAGCCACAA 59.794 52.381 0.00 0.00 36.24 3.33
118 119 0.820226 CTAGCACTCTAGCAGCCACA 59.180 55.000 0.00 0.00 36.24 4.17
119 120 0.820871 ACTAGCACTCTAGCAGCCAC 59.179 55.000 0.00 0.00 44.83 5.01
120 121 1.205655 CAACTAGCACTCTAGCAGCCA 59.794 52.381 0.00 0.00 44.83 4.75
121 122 1.472376 CCAACTAGCACTCTAGCAGCC 60.472 57.143 0.00 0.00 44.83 4.85
122 123 1.933247 CCAACTAGCACTCTAGCAGC 58.067 55.000 0.00 0.00 44.83 5.25
123 124 1.472376 GGCCAACTAGCACTCTAGCAG 60.472 57.143 0.00 0.00 44.83 4.24
124 125 0.537188 GGCCAACTAGCACTCTAGCA 59.463 55.000 0.00 0.00 44.83 3.49
125 126 0.827368 AGGCCAACTAGCACTCTAGC 59.173 55.000 5.01 0.00 44.83 3.42
126 127 2.033550 CGTAGGCCAACTAGCACTCTAG 59.966 54.545 5.01 0.00 46.06 2.43
127 128 2.022195 CGTAGGCCAACTAGCACTCTA 58.978 52.381 5.01 0.00 30.77 2.43
128 129 0.818296 CGTAGGCCAACTAGCACTCT 59.182 55.000 5.01 0.00 30.77 3.24
129 130 0.179108 CCGTAGGCCAACTAGCACTC 60.179 60.000 5.01 0.00 46.14 3.51
130 131 1.898154 CCGTAGGCCAACTAGCACT 59.102 57.895 5.01 0.00 46.14 4.40
131 132 4.515404 CCGTAGGCCAACTAGCAC 57.485 61.111 5.01 0.00 46.14 4.40
143 144 1.264557 CTGGATAGAGACGCACCGTAG 59.735 57.143 0.00 0.00 41.37 3.51
144 145 1.134310 TCTGGATAGAGACGCACCGTA 60.134 52.381 0.00 0.00 41.37 4.02
145 146 0.393944 TCTGGATAGAGACGCACCGT 60.394 55.000 0.00 0.00 45.10 4.83
146 147 0.738975 TTCTGGATAGAGACGCACCG 59.261 55.000 0.00 0.00 33.70 4.94
147 148 2.094182 TGTTTCTGGATAGAGACGCACC 60.094 50.000 0.00 0.00 40.07 5.01
148 149 2.924290 GTGTTTCTGGATAGAGACGCAC 59.076 50.000 6.64 0.00 43.94 5.34
149 150 3.232213 GTGTTTCTGGATAGAGACGCA 57.768 47.619 6.64 0.00 43.94 5.24
150 151 3.232213 TGTGTTTCTGGATAGAGACGC 57.768 47.619 5.02 5.02 44.45 5.19
151 152 4.748892 ACATGTGTTTCTGGATAGAGACG 58.251 43.478 0.00 0.00 40.07 4.18
152 153 7.173218 TGAAAACATGTGTTTCTGGATAGAGAC 59.827 37.037 22.52 0.00 46.47 3.36
153 154 7.223584 TGAAAACATGTGTTTCTGGATAGAGA 58.776 34.615 22.52 7.25 46.47 3.10
154 155 7.439157 TGAAAACATGTGTTTCTGGATAGAG 57.561 36.000 22.52 0.00 46.47 2.43
155 156 8.408043 AATGAAAACATGTGTTTCTGGATAGA 57.592 30.769 22.52 10.08 46.47 1.98
156 157 9.132521 GAAATGAAAACATGTGTTTCTGGATAG 57.867 33.333 22.52 0.00 46.47 2.08
157 158 8.859090 AGAAATGAAAACATGTGTTTCTGGATA 58.141 29.630 22.52 10.99 46.47 2.59
158 159 7.654520 CAGAAATGAAAACATGTGTTTCTGGAT 59.345 33.333 24.77 14.39 46.47 3.41
159 160 6.979817 CAGAAATGAAAACATGTGTTTCTGGA 59.020 34.615 24.77 13.38 46.47 3.86
160 161 6.979817 TCAGAAATGAAAACATGTGTTTCTGG 59.020 34.615 27.81 18.94 46.47 3.86
161 162 7.990541 TCAGAAATGAAAACATGTGTTTCTG 57.009 32.000 25.57 25.57 46.47 3.02
162 163 8.199449 ACATCAGAAATGAAAACATGTGTTTCT 58.801 29.630 22.52 18.07 46.47 2.52
163 164 8.270799 CACATCAGAAATGAAAACATGTGTTTC 58.729 33.333 18.62 18.62 46.47 2.78
165 166 6.201425 GCACATCAGAAATGAAAACATGTGTT 59.799 34.615 0.00 0.00 41.05 3.32
166 167 5.693104 GCACATCAGAAATGAAAACATGTGT 59.307 36.000 0.00 0.00 41.05 3.72
167 168 5.924254 AGCACATCAGAAATGAAAACATGTG 59.076 36.000 0.00 5.04 41.61 3.21
168 169 6.092955 AGCACATCAGAAATGAAAACATGT 57.907 33.333 0.00 0.00 0.00 3.21
169 170 7.416154 AAAGCACATCAGAAATGAAAACATG 57.584 32.000 0.00 0.00 0.00 3.21
170 171 8.441312 AAAAAGCACATCAGAAATGAAAACAT 57.559 26.923 0.00 0.00 0.00 2.71
171 172 7.846644 AAAAAGCACATCAGAAATGAAAACA 57.153 28.000 0.00 0.00 0.00 2.83
195 196 6.595772 AAGCACAAAATGTATTCGCAAAAA 57.404 29.167 0.00 0.00 0.00 1.94
196 197 7.700322 TTAAGCACAAAATGTATTCGCAAAA 57.300 28.000 0.00 0.00 0.00 2.44
197 198 7.700322 TTTAAGCACAAAATGTATTCGCAAA 57.300 28.000 0.00 0.00 0.00 3.68
198 199 7.222805 TGTTTTAAGCACAAAATGTATTCGCAA 59.777 29.630 0.00 0.00 30.56 4.85
199 200 6.697455 TGTTTTAAGCACAAAATGTATTCGCA 59.303 30.769 0.00 0.00 30.56 5.10
200 201 7.099666 TGTTTTAAGCACAAAATGTATTCGC 57.900 32.000 0.00 0.00 30.56 4.70
204 205 9.554724 CGAGTATGTTTTAAGCACAAAATGTAT 57.445 29.630 0.00 0.00 30.56 2.29
205 206 8.561212 ACGAGTATGTTTTAAGCACAAAATGTA 58.439 29.630 0.00 0.00 30.56 2.29
206 207 7.422399 ACGAGTATGTTTTAAGCACAAAATGT 58.578 30.769 0.00 0.00 30.56 2.71
207 208 7.851822 ACGAGTATGTTTTAAGCACAAAATG 57.148 32.000 0.00 0.00 30.56 2.32
208 209 8.780249 AGTACGAGTATGTTTTAAGCACAAAAT 58.220 29.630 0.00 0.00 30.56 1.82
209 210 8.145316 AGTACGAGTATGTTTTAAGCACAAAA 57.855 30.769 0.00 0.00 0.00 2.44
210 211 7.718272 AGTACGAGTATGTTTTAAGCACAAA 57.282 32.000 0.00 0.00 0.00 2.83
211 212 8.084073 AGTAGTACGAGTATGTTTTAAGCACAA 58.916 33.333 0.00 0.00 0.00 3.33
212 213 7.596494 AGTAGTACGAGTATGTTTTAAGCACA 58.404 34.615 0.00 0.00 0.00 4.57
213 214 9.004146 GTAGTAGTACGAGTATGTTTTAAGCAC 57.996 37.037 0.00 0.00 0.00 4.40
214 215 8.950210 AGTAGTAGTACGAGTATGTTTTAAGCA 58.050 33.333 2.04 0.00 33.97 3.91
218 219 9.599866 TGCTAGTAGTAGTACGAGTATGTTTTA 57.400 33.333 16.36 0.00 35.06 1.52
219 220 8.498054 TGCTAGTAGTAGTACGAGTATGTTTT 57.502 34.615 16.36 0.00 35.06 2.43
220 221 7.226325 CCTGCTAGTAGTAGTACGAGTATGTTT 59.774 40.741 16.36 0.00 35.06 2.83
221 222 6.705381 CCTGCTAGTAGTAGTACGAGTATGTT 59.295 42.308 16.36 0.00 35.06 2.71
222 223 6.041409 TCCTGCTAGTAGTAGTACGAGTATGT 59.959 42.308 16.36 0.00 35.06 2.29
223 224 6.453943 TCCTGCTAGTAGTAGTACGAGTATG 58.546 44.000 16.36 10.72 35.06 2.39
224 225 6.662865 TCCTGCTAGTAGTAGTACGAGTAT 57.337 41.667 16.36 0.00 35.06 2.12
225 226 6.295011 GGATCCTGCTAGTAGTAGTACGAGTA 60.295 46.154 16.36 12.29 35.06 2.59
226 227 5.511202 GGATCCTGCTAGTAGTAGTACGAGT 60.511 48.000 16.36 0.00 35.06 4.18
227 228 4.931002 GGATCCTGCTAGTAGTAGTACGAG 59.069 50.000 13.45 12.19 35.55 4.18
228 229 4.346127 TGGATCCTGCTAGTAGTAGTACGA 59.654 45.833 14.23 5.13 33.97 3.43
229 230 4.639334 TGGATCCTGCTAGTAGTAGTACG 58.361 47.826 14.23 0.01 33.97 3.67
230 231 5.474189 CCTTGGATCCTGCTAGTAGTAGTAC 59.526 48.000 14.23 0.00 0.00 2.73
231 232 5.133999 ACCTTGGATCCTGCTAGTAGTAGTA 59.866 44.000 14.23 0.00 0.00 1.82
232 233 4.079096 ACCTTGGATCCTGCTAGTAGTAGT 60.079 45.833 14.23 0.00 0.00 2.73
233 234 4.279671 CACCTTGGATCCTGCTAGTAGTAG 59.720 50.000 14.23 8.22 0.00 2.57
234 235 4.215908 CACCTTGGATCCTGCTAGTAGTA 58.784 47.826 14.23 0.00 0.00 1.82
235 236 3.034635 CACCTTGGATCCTGCTAGTAGT 58.965 50.000 14.23 0.00 0.00 2.73
236 237 2.366916 CCACCTTGGATCCTGCTAGTAG 59.633 54.545 14.23 0.00 40.96 2.57
237 238 2.398588 CCACCTTGGATCCTGCTAGTA 58.601 52.381 14.23 0.00 40.96 1.82
238 239 1.207791 CCACCTTGGATCCTGCTAGT 58.792 55.000 14.23 0.47 40.96 2.57
239 240 0.471617 CCCACCTTGGATCCTGCTAG 59.528 60.000 14.23 5.16 40.96 3.42
240 241 0.044092 TCCCACCTTGGATCCTGCTA 59.956 55.000 14.23 0.00 40.96 3.49
241 242 1.229951 TCCCACCTTGGATCCTGCT 60.230 57.895 14.23 0.00 40.96 4.24
242 243 1.225704 CTCCCACCTTGGATCCTGC 59.774 63.158 14.23 0.00 40.96 4.85
243 244 1.289160 TTCTCCCACCTTGGATCCTG 58.711 55.000 14.23 5.83 40.96 3.86
244 245 2.059756 TTTCTCCCACCTTGGATCCT 57.940 50.000 14.23 0.00 40.96 3.24
245 246 2.308866 TCTTTTCTCCCACCTTGGATCC 59.691 50.000 4.20 4.20 40.96 3.36
246 247 3.721087 TCTTTTCTCCCACCTTGGATC 57.279 47.619 0.00 0.00 40.96 3.36
247 248 3.815757 GCTTCTTTTCTCCCACCTTGGAT 60.816 47.826 0.00 0.00 40.96 3.41
248 249 2.489073 GCTTCTTTTCTCCCACCTTGGA 60.489 50.000 0.00 0.00 40.96 3.53
249 250 1.889170 GCTTCTTTTCTCCCACCTTGG 59.111 52.381 0.00 0.00 37.25 3.61
250 251 1.537202 CGCTTCTTTTCTCCCACCTTG 59.463 52.381 0.00 0.00 0.00 3.61
251 252 1.897560 CGCTTCTTTTCTCCCACCTT 58.102 50.000 0.00 0.00 0.00 3.50
252 253 0.606673 GCGCTTCTTTTCTCCCACCT 60.607 55.000 0.00 0.00 0.00 4.00
253 254 0.606673 AGCGCTTCTTTTCTCCCACC 60.607 55.000 2.64 0.00 0.00 4.61
254 255 1.197949 GAAGCGCTTCTTTTCTCCCAC 59.802 52.381 36.70 11.70 36.69 4.61
255 256 1.523758 GAAGCGCTTCTTTTCTCCCA 58.476 50.000 36.70 0.00 36.69 4.37
256 257 0.444260 CGAAGCGCTTCTTTTCTCCC 59.556 55.000 38.73 17.23 37.44 4.30
257 258 1.149148 ACGAAGCGCTTCTTTTCTCC 58.851 50.000 38.73 17.91 37.44 3.71
258 259 2.222310 CGTACGAAGCGCTTCTTTTCTC 60.222 50.000 38.73 23.71 37.44 2.87
259 260 1.719780 CGTACGAAGCGCTTCTTTTCT 59.280 47.619 38.73 21.79 37.44 2.52
260 261 1.201780 CCGTACGAAGCGCTTCTTTTC 60.202 52.381 38.73 26.21 37.44 2.29
261 262 0.788391 CCGTACGAAGCGCTTCTTTT 59.212 50.000 38.73 27.33 37.44 2.27
262 263 1.623973 GCCGTACGAAGCGCTTCTTT 61.624 55.000 38.73 29.46 37.44 2.52
263 264 2.092882 GCCGTACGAAGCGCTTCTT 61.093 57.895 38.73 33.94 37.44 2.52
264 265 2.506438 GCCGTACGAAGCGCTTCT 60.506 61.111 38.73 29.09 37.44 2.85
265 266 2.807895 TGCCGTACGAAGCGCTTC 60.808 61.111 34.98 34.98 36.29 3.86
266 267 3.110178 GTGCCGTACGAAGCGCTT 61.110 61.111 25.35 25.35 36.57 4.68
281 282 4.802051 CAGGATGGGGGTGCCGTG 62.802 72.222 0.00 0.00 0.00 4.94
283 284 3.280938 TTTCAGGATGGGGGTGCCG 62.281 63.158 0.00 0.00 36.16 5.69
284 285 1.682344 GTTTCAGGATGGGGGTGCC 60.682 63.158 0.00 0.00 36.16 5.01
285 286 1.682344 GGTTTCAGGATGGGGGTGC 60.682 63.158 0.00 0.00 36.16 5.01
286 287 1.000359 GGGTTTCAGGATGGGGGTG 60.000 63.158 0.00 0.00 36.16 4.61
287 288 0.122435 TAGGGTTTCAGGATGGGGGT 59.878 55.000 0.00 0.00 36.16 4.95
288 289 0.846693 CTAGGGTTTCAGGATGGGGG 59.153 60.000 0.00 0.00 36.16 5.40
289 290 0.183731 GCTAGGGTTTCAGGATGGGG 59.816 60.000 0.00 0.00 36.16 4.96
290 291 0.183731 GGCTAGGGTTTCAGGATGGG 59.816 60.000 0.00 0.00 36.16 4.00
291 292 1.141858 GAGGCTAGGGTTTCAGGATGG 59.858 57.143 0.00 0.00 36.16 3.51
292 293 1.141858 GGAGGCTAGGGTTTCAGGATG 59.858 57.143 0.00 0.00 37.54 3.51
293 294 1.512735 GGAGGCTAGGGTTTCAGGAT 58.487 55.000 0.00 0.00 0.00 3.24
294 295 0.620700 GGGAGGCTAGGGTTTCAGGA 60.621 60.000 0.00 0.00 0.00 3.86
295 296 1.915983 GGGAGGCTAGGGTTTCAGG 59.084 63.158 0.00 0.00 0.00 3.86
296 297 1.522569 CGGGAGGCTAGGGTTTCAG 59.477 63.158 0.00 0.00 0.00 3.02
297 298 2.666098 GCGGGAGGCTAGGGTTTCA 61.666 63.158 0.00 0.00 39.11 2.69
298 299 2.189784 GCGGGAGGCTAGGGTTTC 59.810 66.667 0.00 0.00 39.11 2.78
299 300 3.782443 CGCGGGAGGCTAGGGTTT 61.782 66.667 0.00 0.00 40.44 3.27
300 301 4.772231 TCGCGGGAGGCTAGGGTT 62.772 66.667 6.13 0.00 40.44 4.11
303 304 3.597728 GAGTCGCGGGAGGCTAGG 61.598 72.222 6.13 0.00 40.44 3.02
304 305 3.597728 GGAGTCGCGGGAGGCTAG 61.598 72.222 6.13 0.00 40.44 3.42
926 927 2.510238 CCGAAAGCAGAGGCCGAG 60.510 66.667 0.00 0.00 42.56 4.63
1165 1211 3.139077 GGTTGTCTTGACGAGAAACCAT 58.861 45.455 20.70 0.00 40.91 3.55
1175 1221 0.249911 AGTCGCAGGGTTGTCTTGAC 60.250 55.000 0.00 0.00 0.00 3.18
1767 2174 1.214175 TCTCCCACCTGCAAAACTTGA 59.786 47.619 0.00 0.00 0.00 3.02
2018 2425 1.745087 CATTGGCCTGAACTAATGCGT 59.255 47.619 3.32 0.00 0.00 5.24
2107 2514 5.209818 TGTATCCAACAAAGACGAACTCT 57.790 39.130 0.00 0.00 34.29 3.24
2152 2559 1.304464 GGAAACAAGAGCCCCCAGG 60.304 63.158 0.00 0.00 0.00 4.45
2370 2790 5.123186 ACCGTGATTCATCTCGCAAAAATAA 59.877 36.000 5.87 0.00 41.05 1.40
2405 2825 3.523547 TCGGGTTAACAATACACATCGG 58.476 45.455 8.10 0.00 0.00 4.18
2424 2844 2.030562 AACGGGTGCACTCCTTCG 59.969 61.111 17.98 14.56 0.00 3.79
2492 2912 9.201127 GACGTTTTATTTACTTAGGACTGAAGT 57.799 33.333 0.00 0.00 40.27 3.01
2530 2950 5.523552 TCTGTTGTAACATTGTCTCACTGTG 59.476 40.000 0.17 0.17 38.41 3.66
2531 2951 5.670485 TCTGTTGTAACATTGTCTCACTGT 58.330 37.500 0.00 0.00 38.41 3.55
2646 3067 0.303796 GCCTTTAGCATACGCGAACC 59.696 55.000 15.93 0.00 45.49 3.62
2647 3068 3.800440 GCCTTTAGCATACGCGAAC 57.200 52.632 15.93 0.00 45.49 3.95
2740 3168 8.729805 TGCAACTGTATATTACATCATTGTCA 57.270 30.769 0.00 0.00 38.15 3.58
2753 3181 8.935844 CGACAATGGTTATATGCAACTGTATAT 58.064 33.333 0.00 5.74 37.20 0.86
2754 3182 7.929245 ACGACAATGGTTATATGCAACTGTATA 59.071 33.333 0.00 0.00 0.00 1.47
2755 3183 6.765989 ACGACAATGGTTATATGCAACTGTAT 59.234 34.615 0.00 0.00 0.00 2.29
2756 3184 6.110033 ACGACAATGGTTATATGCAACTGTA 58.890 36.000 0.00 0.00 0.00 2.74
2757 3185 4.941263 ACGACAATGGTTATATGCAACTGT 59.059 37.500 0.00 0.00 0.00 3.55
2758 3186 5.064579 TGACGACAATGGTTATATGCAACTG 59.935 40.000 0.00 0.00 0.00 3.16
2759 3187 5.064707 GTGACGACAATGGTTATATGCAACT 59.935 40.000 0.00 0.00 0.00 3.16
2760 3188 5.064707 AGTGACGACAATGGTTATATGCAAC 59.935 40.000 0.00 0.00 0.00 4.17
2761 3189 5.182487 AGTGACGACAATGGTTATATGCAA 58.818 37.500 0.00 0.00 0.00 4.08
2762 3190 4.765273 AGTGACGACAATGGTTATATGCA 58.235 39.130 0.00 0.00 0.00 3.96
2763 3191 6.479001 ACTTAGTGACGACAATGGTTATATGC 59.521 38.462 0.00 0.00 0.00 3.14
2764 3192 7.042725 CCACTTAGTGACGACAATGGTTATATG 60.043 40.741 14.66 0.00 35.23 1.78
2765 3193 6.984474 CCACTTAGTGACGACAATGGTTATAT 59.016 38.462 14.66 0.00 35.23 0.86
2766 3194 6.071221 ACCACTTAGTGACGACAATGGTTATA 60.071 38.462 14.66 0.00 35.23 0.98
2767 3195 5.175859 CCACTTAGTGACGACAATGGTTAT 58.824 41.667 14.66 0.00 35.23 1.89
2768 3196 4.039488 ACCACTTAGTGACGACAATGGTTA 59.961 41.667 14.66 0.00 35.23 2.85
2769 3197 3.181458 ACCACTTAGTGACGACAATGGTT 60.181 43.478 14.66 0.00 35.23 3.67
2770 3198 2.367567 ACCACTTAGTGACGACAATGGT 59.632 45.455 14.66 0.00 35.23 3.55
2771 3199 3.040147 ACCACTTAGTGACGACAATGG 57.960 47.619 14.66 0.00 35.23 3.16
2772 3200 3.807622 ACAACCACTTAGTGACGACAATG 59.192 43.478 14.66 4.57 35.23 2.82
2859 3288 4.941713 AGCCCATGGGTAATACTCAAAAA 58.058 39.130 31.58 0.00 28.99 1.94
2860 3289 4.601406 AGCCCATGGGTAATACTCAAAA 57.399 40.909 31.58 0.00 28.99 2.44
2861 3290 5.922960 ATAGCCCATGGGTAATACTCAAA 57.077 39.130 31.58 5.75 39.21 2.69
2862 3291 7.582909 AATATAGCCCATGGGTAATACTCAA 57.417 36.000 31.58 11.47 39.21 3.02
2863 3292 8.688222 TTAATATAGCCCATGGGTAATACTCA 57.312 34.615 31.58 14.07 39.21 3.41
2864 3293 9.561069 CATTAATATAGCCCATGGGTAATACTC 57.439 37.037 31.58 13.27 39.21 2.59
2994 3423 6.148480 ACATGGCGATTCTATAGAATTGAAGC 59.852 38.462 33.40 27.80 44.80 3.86
2996 3425 7.216494 TGACATGGCGATTCTATAGAATTGAA 58.784 34.615 33.40 24.21 44.80 2.69


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

AutoCloner maintained by Alex Coulton.