Multiple sequence alignment - TraesCS5B01G483300

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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 TraesCS5B01G483300 chr5B 100.000 2536 0 0 1 2536 655202723 655200188 0.000000e+00 4684
1 TraesCS5B01G483300 chr5B 91.721 2162 135 10 408 2536 583111631 583109481 0.000000e+00 2961
2 TraesCS5B01G483300 chr5B 91.144 1434 84 10 407 1804 706483036 706481610 0.000000e+00 1905
3 TraesCS5B01G483300 chr4D 91.459 2166 121 34 408 2536 481887026 481889164 0.000000e+00 2916
4 TraesCS5B01G483300 chr4D 94.056 1043 44 8 1502 2536 486564655 486563623 0.000000e+00 1567
5 TraesCS5B01G483300 chr4D 93.913 1035 51 4 1502 2536 502107698 502106676 0.000000e+00 1552
6 TraesCS5B01G483300 chr6B 91.083 2198 120 23 406 2536 521113822 521116010 0.000000e+00 2904
7 TraesCS5B01G483300 chr7D 91.144 2168 133 13 403 2536 54236972 54239114 0.000000e+00 2885
8 TraesCS5B01G483300 chr1D 90.884 2183 145 16 389 2536 430108471 430110634 0.000000e+00 2880
9 TraesCS5B01G483300 chr5D 90.628 2166 127 20 407 2536 98665778 98663653 0.000000e+00 2806
10 TraesCS5B01G483300 chr5D 93.582 1044 49 8 1502 2536 179971853 179970819 0.000000e+00 1541
11 TraesCS5B01G483300 chr5D 94.634 410 17 3 1 406 520167259 520166851 4.600000e-177 630
12 TraesCS5B01G483300 chr2D 91.344 1421 79 14 407 1793 236134839 236136249 0.000000e+00 1903
13 TraesCS5B01G483300 chr2D 94.118 1037 51 2 1500 2536 498274439 498275465 0.000000e+00 1568
14 TraesCS5B01G483300 chr2D 93.913 1035 46 6 1502 2536 50129329 50128312 0.000000e+00 1546
15 TraesCS5B01G483300 chr2D 91.659 1115 78 13 395 1505 498273310 498274413 0.000000e+00 1530
16 TraesCS5B01G483300 chr7B 94.621 1041 47 4 1499 2536 681764833 681765867 0.000000e+00 1604
17 TraesCS5B01G483300 chr3D 93.545 1038 55 5 1499 2536 431337958 431338983 0.000000e+00 1535
18 TraesCS5B01G483300 chr2A 93.539 1037 54 7 1500 2536 496898507 496897484 0.000000e+00 1531
19 TraesCS5B01G483300 chr5A 93.812 404 21 3 5 407 647478990 647478590 2.790000e-169 604


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 TraesCS5B01G483300 chr5B 655200188 655202723 2535 True 4684 4684 100.0000 1 2536 1 chr5B.!!$R2 2535
1 TraesCS5B01G483300 chr5B 583109481 583111631 2150 True 2961 2961 91.7210 408 2536 1 chr5B.!!$R1 2128
2 TraesCS5B01G483300 chr5B 706481610 706483036 1426 True 1905 1905 91.1440 407 1804 1 chr5B.!!$R3 1397
3 TraesCS5B01G483300 chr4D 481887026 481889164 2138 False 2916 2916 91.4590 408 2536 1 chr4D.!!$F1 2128
4 TraesCS5B01G483300 chr4D 486563623 486564655 1032 True 1567 1567 94.0560 1502 2536 1 chr4D.!!$R1 1034
5 TraesCS5B01G483300 chr4D 502106676 502107698 1022 True 1552 1552 93.9130 1502 2536 1 chr4D.!!$R2 1034
6 TraesCS5B01G483300 chr6B 521113822 521116010 2188 False 2904 2904 91.0830 406 2536 1 chr6B.!!$F1 2130
7 TraesCS5B01G483300 chr7D 54236972 54239114 2142 False 2885 2885 91.1440 403 2536 1 chr7D.!!$F1 2133
8 TraesCS5B01G483300 chr1D 430108471 430110634 2163 False 2880 2880 90.8840 389 2536 1 chr1D.!!$F1 2147
9 TraesCS5B01G483300 chr5D 98663653 98665778 2125 True 2806 2806 90.6280 407 2536 1 chr5D.!!$R1 2129
10 TraesCS5B01G483300 chr5D 179970819 179971853 1034 True 1541 1541 93.5820 1502 2536 1 chr5D.!!$R2 1034
11 TraesCS5B01G483300 chr2D 236134839 236136249 1410 False 1903 1903 91.3440 407 1793 1 chr2D.!!$F1 1386
12 TraesCS5B01G483300 chr2D 498273310 498275465 2155 False 1549 1568 92.8885 395 2536 2 chr2D.!!$F2 2141
13 TraesCS5B01G483300 chr2D 50128312 50129329 1017 True 1546 1546 93.9130 1502 2536 1 chr2D.!!$R1 1034
14 TraesCS5B01G483300 chr7B 681764833 681765867 1034 False 1604 1604 94.6210 1499 2536 1 chr7B.!!$F1 1037
15 TraesCS5B01G483300 chr3D 431337958 431338983 1025 False 1535 1535 93.5450 1499 2536 1 chr3D.!!$F1 1037
16 TraesCS5B01G483300 chr2A 496897484 496898507 1023 True 1531 1531 93.5390 1500 2536 1 chr2A.!!$R1 1036

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
135 136 0.106708 ACCTGCACTCGAGCTCAAAA 59.893 50.0 13.61 0.0 34.99 2.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2096 2171 0.04394 ACCTCTTCCTCCTCAGGCAT 59.956 55.0 0.0 0.0 40.12 4.4 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
51 52 8.854614 TTTTTGTTTGGGAGAAATGAAAAAGA 57.145 26.923 0.00 0.00 0.00 2.52
52 53 7.841915 TTTGTTTGGGAGAAATGAAAAAGAC 57.158 32.000 0.00 0.00 0.00 3.01
53 54 6.537453 TGTTTGGGAGAAATGAAAAAGACA 57.463 33.333 0.00 0.00 0.00 3.41
54 55 7.123355 TGTTTGGGAGAAATGAAAAAGACAT 57.877 32.000 0.00 0.00 0.00 3.06
55 56 8.243961 TGTTTGGGAGAAATGAAAAAGACATA 57.756 30.769 0.00 0.00 0.00 2.29
56 57 8.869109 TGTTTGGGAGAAATGAAAAAGACATAT 58.131 29.630 0.00 0.00 0.00 1.78
57 58 9.710900 GTTTGGGAGAAATGAAAAAGACATATT 57.289 29.630 0.00 0.00 0.00 1.28
59 60 9.927668 TTGGGAGAAATGAAAAAGACATATTTC 57.072 29.630 0.00 0.00 37.78 2.17
60 61 9.312904 TGGGAGAAATGAAAAAGACATATTTCT 57.687 29.630 9.50 9.50 45.56 2.52
88 89 9.264719 TGTAGAAATAGCATAGATGTTGATGTG 57.735 33.333 0.00 0.00 0.00 3.21
89 90 9.481340 GTAGAAATAGCATAGATGTTGATGTGA 57.519 33.333 0.00 0.00 0.00 3.58
90 91 8.969260 AGAAATAGCATAGATGTTGATGTGAA 57.031 30.769 0.00 0.00 0.00 3.18
91 92 9.399797 AGAAATAGCATAGATGTTGATGTGAAA 57.600 29.630 0.00 0.00 0.00 2.69
92 93 9.661187 GAAATAGCATAGATGTTGATGTGAAAG 57.339 33.333 0.00 0.00 0.00 2.62
93 94 8.743085 AATAGCATAGATGTTGATGTGAAAGT 57.257 30.769 0.00 0.00 0.00 2.66
94 95 8.743085 ATAGCATAGATGTTGATGTGAAAGTT 57.257 30.769 0.00 0.00 0.00 2.66
95 96 6.849502 AGCATAGATGTTGATGTGAAAGTTG 58.150 36.000 0.00 0.00 0.00 3.16
96 97 6.656270 AGCATAGATGTTGATGTGAAAGTTGA 59.344 34.615 0.00 0.00 0.00 3.18
97 98 7.338703 AGCATAGATGTTGATGTGAAAGTTGAT 59.661 33.333 0.00 0.00 0.00 2.57
98 99 7.431376 GCATAGATGTTGATGTGAAAGTTGATG 59.569 37.037 0.00 0.00 0.00 3.07
99 100 6.263516 AGATGTTGATGTGAAAGTTGATGG 57.736 37.500 0.00 0.00 0.00 3.51
100 101 5.771666 AGATGTTGATGTGAAAGTTGATGGT 59.228 36.000 0.00 0.00 0.00 3.55
101 102 5.437289 TGTTGATGTGAAAGTTGATGGTC 57.563 39.130 0.00 0.00 0.00 4.02
102 103 4.278170 TGTTGATGTGAAAGTTGATGGTCC 59.722 41.667 0.00 0.00 0.00 4.46
103 104 4.097551 TGATGTGAAAGTTGATGGTCCA 57.902 40.909 0.00 0.00 0.00 4.02
104 105 4.074259 TGATGTGAAAGTTGATGGTCCAG 58.926 43.478 0.00 0.00 0.00 3.86
105 106 3.855255 TGTGAAAGTTGATGGTCCAGA 57.145 42.857 0.00 0.00 0.00 3.86
106 107 4.371624 TGTGAAAGTTGATGGTCCAGAT 57.628 40.909 0.00 0.00 0.00 2.90
107 108 5.497464 TGTGAAAGTTGATGGTCCAGATA 57.503 39.130 0.00 0.00 0.00 1.98
108 109 5.875224 TGTGAAAGTTGATGGTCCAGATAA 58.125 37.500 0.00 0.00 0.00 1.75
109 110 5.939883 TGTGAAAGTTGATGGTCCAGATAAG 59.060 40.000 0.00 0.00 0.00 1.73
110 111 5.355350 GTGAAAGTTGATGGTCCAGATAAGG 59.645 44.000 0.00 0.00 0.00 2.69
111 112 4.510167 AAGTTGATGGTCCAGATAAGGG 57.490 45.455 0.00 0.00 0.00 3.95
112 113 2.780010 AGTTGATGGTCCAGATAAGGGG 59.220 50.000 0.00 0.00 0.00 4.79
113 114 1.140312 TGATGGTCCAGATAAGGGGC 58.860 55.000 0.00 0.00 0.00 5.80
114 115 1.140312 GATGGTCCAGATAAGGGGCA 58.860 55.000 0.00 0.00 0.00 5.36
115 116 0.846693 ATGGTCCAGATAAGGGGCAC 59.153 55.000 0.00 0.00 0.00 5.01
116 117 0.548926 TGGTCCAGATAAGGGGCACA 60.549 55.000 0.00 0.00 0.00 4.57
117 118 0.107165 GGTCCAGATAAGGGGCACAC 60.107 60.000 0.00 0.00 0.00 3.82
118 119 0.107165 GTCCAGATAAGGGGCACACC 60.107 60.000 0.00 0.00 39.11 4.16
119 120 0.253160 TCCAGATAAGGGGCACACCT 60.253 55.000 0.00 0.00 44.56 4.00
120 121 0.107017 CCAGATAAGGGGCACACCTG 60.107 60.000 0.00 0.00 40.87 4.00
121 122 0.749454 CAGATAAGGGGCACACCTGC 60.749 60.000 0.00 0.00 40.87 4.85
122 123 1.207488 AGATAAGGGGCACACCTGCA 61.207 55.000 0.00 0.00 46.28 4.41
127 128 4.314440 GGGCACACCTGCACTCGA 62.314 66.667 0.00 0.00 44.28 4.04
128 129 2.740055 GGCACACCTGCACTCGAG 60.740 66.667 11.84 11.84 46.28 4.04
129 130 3.418068 GCACACCTGCACTCGAGC 61.418 66.667 13.61 0.00 43.62 5.03
130 131 2.341543 CACACCTGCACTCGAGCT 59.658 61.111 13.61 0.00 34.99 4.09
131 132 1.735920 CACACCTGCACTCGAGCTC 60.736 63.158 13.61 2.73 34.99 4.09
132 133 2.203082 ACACCTGCACTCGAGCTCA 61.203 57.895 13.61 9.66 34.99 4.26
133 134 1.005748 CACCTGCACTCGAGCTCAA 60.006 57.895 13.61 0.00 34.99 3.02
134 135 0.601046 CACCTGCACTCGAGCTCAAA 60.601 55.000 13.61 0.00 34.99 2.69
135 136 0.106708 ACCTGCACTCGAGCTCAAAA 59.893 50.000 13.61 0.00 34.99 2.44
136 137 1.229428 CCTGCACTCGAGCTCAAAAA 58.771 50.000 13.61 0.00 34.99 1.94
158 159 7.839680 AAAATTCCCAAAGAGTCATACAACT 57.160 32.000 0.00 0.00 0.00 3.16
159 160 8.934023 AAAATTCCCAAAGAGTCATACAACTA 57.066 30.769 0.00 0.00 0.00 2.24
160 161 7.923414 AATTCCCAAAGAGTCATACAACTAC 57.077 36.000 0.00 0.00 0.00 2.73
161 162 6.428083 TTCCCAAAGAGTCATACAACTACA 57.572 37.500 0.00 0.00 0.00 2.74
162 163 6.620877 TCCCAAAGAGTCATACAACTACAT 57.379 37.500 0.00 0.00 0.00 2.29
163 164 7.016153 TCCCAAAGAGTCATACAACTACATT 57.984 36.000 0.00 0.00 0.00 2.71
164 165 7.458397 TCCCAAAGAGTCATACAACTACATTT 58.542 34.615 0.00 0.00 0.00 2.32
165 166 7.390440 TCCCAAAGAGTCATACAACTACATTTG 59.610 37.037 0.00 0.00 32.51 2.32
166 167 7.362056 CCCAAAGAGTCATACAACTACATTTGG 60.362 40.741 14.71 14.71 41.48 3.28
167 168 7.174946 CCAAAGAGTCATACAACTACATTTGGT 59.825 37.037 14.02 0.00 39.57 3.67
168 169 7.672983 AAGAGTCATACAACTACATTTGGTG 57.327 36.000 0.00 0.00 0.00 4.17
169 170 6.769512 AGAGTCATACAACTACATTTGGTGT 58.230 36.000 0.00 0.00 44.95 4.16
170 171 7.224297 AGAGTCATACAACTACATTTGGTGTT 58.776 34.615 0.00 0.00 42.29 3.32
171 172 8.372459 AGAGTCATACAACTACATTTGGTGTTA 58.628 33.333 0.00 0.00 42.29 2.41
172 173 8.547967 AGTCATACAACTACATTTGGTGTTAG 57.452 34.615 0.00 0.00 42.29 2.34
173 174 8.154856 AGTCATACAACTACATTTGGTGTTAGT 58.845 33.333 0.00 0.00 42.29 2.24
174 175 8.227791 GTCATACAACTACATTTGGTGTTAGTG 58.772 37.037 0.00 0.00 42.29 2.74
175 176 8.151596 TCATACAACTACATTTGGTGTTAGTGA 58.848 33.333 0.00 0.00 42.29 3.41
176 177 6.861065 ACAACTACATTTGGTGTTAGTGAG 57.139 37.500 0.00 0.00 42.29 3.51
177 178 6.354130 ACAACTACATTTGGTGTTAGTGAGT 58.646 36.000 0.00 0.00 42.29 3.41
178 179 7.502696 ACAACTACATTTGGTGTTAGTGAGTA 58.497 34.615 0.00 0.00 42.29 2.59
179 180 7.656137 ACAACTACATTTGGTGTTAGTGAGTAG 59.344 37.037 0.00 0.00 42.29 2.57
180 181 7.534723 ACTACATTTGGTGTTAGTGAGTAGA 57.465 36.000 0.00 0.00 42.29 2.59
181 182 8.135382 ACTACATTTGGTGTTAGTGAGTAGAT 57.865 34.615 0.00 0.00 42.29 1.98
182 183 8.251721 ACTACATTTGGTGTTAGTGAGTAGATC 58.748 37.037 0.00 0.00 42.29 2.75
183 184 7.246171 ACATTTGGTGTTAGTGAGTAGATCT 57.754 36.000 0.00 0.00 38.01 2.75
184 185 7.680730 ACATTTGGTGTTAGTGAGTAGATCTT 58.319 34.615 0.00 0.00 38.01 2.40
185 186 8.157476 ACATTTGGTGTTAGTGAGTAGATCTTT 58.843 33.333 0.00 0.00 38.01 2.52
186 187 8.660373 CATTTGGTGTTAGTGAGTAGATCTTTC 58.340 37.037 0.00 0.00 0.00 2.62
187 188 6.911250 TGGTGTTAGTGAGTAGATCTTTCA 57.089 37.500 0.00 2.83 0.00 2.69
188 189 6.688578 TGGTGTTAGTGAGTAGATCTTTCAC 58.311 40.000 22.79 22.79 41.10 3.18
189 190 6.266786 TGGTGTTAGTGAGTAGATCTTTCACA 59.733 38.462 27.84 17.58 42.75 3.58
190 191 7.039011 TGGTGTTAGTGAGTAGATCTTTCACAT 60.039 37.037 27.84 19.66 42.75 3.21
191 192 7.276658 GGTGTTAGTGAGTAGATCTTTCACATG 59.723 40.741 27.84 0.00 42.75 3.21
192 193 7.815068 GTGTTAGTGAGTAGATCTTTCACATGT 59.185 37.037 27.84 17.16 42.75 3.21
193 194 7.814587 TGTTAGTGAGTAGATCTTTCACATGTG 59.185 37.037 27.84 20.18 42.75 3.21
194 195 5.728471 AGTGAGTAGATCTTTCACATGTGG 58.272 41.667 27.84 9.98 42.75 4.17
195 196 5.247110 AGTGAGTAGATCTTTCACATGTGGT 59.753 40.000 27.84 13.24 42.75 4.16
196 197 5.578727 GTGAGTAGATCTTTCACATGTGGTC 59.421 44.000 25.16 14.74 40.62 4.02
197 198 5.245977 TGAGTAGATCTTTCACATGTGGTCA 59.754 40.000 25.16 7.55 0.00 4.02
198 199 6.070596 TGAGTAGATCTTTCACATGTGGTCAT 60.071 38.462 25.16 12.20 34.21 3.06
199 200 7.124147 TGAGTAGATCTTTCACATGTGGTCATA 59.876 37.037 25.16 8.42 32.47 2.15
200 201 8.027524 AGTAGATCTTTCACATGTGGTCATAT 57.972 34.615 25.16 12.55 32.47 1.78
201 202 8.489489 AGTAGATCTTTCACATGTGGTCATATT 58.511 33.333 25.16 9.66 32.47 1.28
202 203 9.113838 GTAGATCTTTCACATGTGGTCATATTT 57.886 33.333 25.16 10.56 32.47 1.40
204 205 9.685276 AGATCTTTCACATGTGGTCATATTTAA 57.315 29.630 25.16 6.37 32.47 1.52
207 208 9.241919 TCTTTCACATGTGGTCATATTTAATGT 57.758 29.630 25.16 0.00 32.47 2.71
208 209 9.292846 CTTTCACATGTGGTCATATTTAATGTG 57.707 33.333 25.16 6.55 42.90 3.21
209 210 6.794374 TCACATGTGGTCATATTTAATGTGC 58.206 36.000 25.16 0.00 41.86 4.57
210 211 6.376581 TCACATGTGGTCATATTTAATGTGCA 59.623 34.615 25.16 0.00 41.86 4.57
211 212 6.473131 CACATGTGGTCATATTTAATGTGCAC 59.527 38.462 18.51 10.75 37.63 4.57
212 213 5.574891 TGTGGTCATATTTAATGTGCACC 57.425 39.130 15.69 12.54 0.00 5.01
213 214 5.260424 TGTGGTCATATTTAATGTGCACCT 58.740 37.500 15.69 0.23 0.00 4.00
214 215 5.714333 TGTGGTCATATTTAATGTGCACCTT 59.286 36.000 15.69 13.73 0.00 3.50
215 216 6.035843 GTGGTCATATTTAATGTGCACCTTG 58.964 40.000 15.69 0.00 0.00 3.61
216 217 5.714333 TGGTCATATTTAATGTGCACCTTGT 59.286 36.000 15.69 4.65 0.00 3.16
217 218 6.210385 TGGTCATATTTAATGTGCACCTTGTT 59.790 34.615 15.69 6.74 0.00 2.83
218 219 6.531240 GGTCATATTTAATGTGCACCTTGTTG 59.469 38.462 15.69 6.26 0.00 3.33
219 220 7.090173 GTCATATTTAATGTGCACCTTGTTGT 58.910 34.615 15.69 2.27 0.00 3.32
220 221 7.598493 GTCATATTTAATGTGCACCTTGTTGTT 59.402 33.333 15.69 0.75 0.00 2.83
221 222 7.812191 TCATATTTAATGTGCACCTTGTTGTTC 59.188 33.333 15.69 0.00 0.00 3.18
222 223 4.991153 TTAATGTGCACCTTGTTGTTCA 57.009 36.364 15.69 0.00 0.00 3.18
223 224 5.528043 TTAATGTGCACCTTGTTGTTCAT 57.472 34.783 15.69 0.00 0.00 2.57
224 225 6.641169 TTAATGTGCACCTTGTTGTTCATA 57.359 33.333 15.69 0.00 0.00 2.15
225 226 5.528043 AATGTGCACCTTGTTGTTCATAA 57.472 34.783 15.69 0.00 0.00 1.90
226 227 4.566545 TGTGCACCTTGTTGTTCATAAG 57.433 40.909 15.69 0.00 0.00 1.73
227 228 3.951037 TGTGCACCTTGTTGTTCATAAGT 59.049 39.130 15.69 0.00 0.00 2.24
228 229 5.126779 TGTGCACCTTGTTGTTCATAAGTA 58.873 37.500 15.69 0.00 0.00 2.24
229 230 5.767665 TGTGCACCTTGTTGTTCATAAGTAT 59.232 36.000 15.69 0.00 0.00 2.12
230 231 6.264292 TGTGCACCTTGTTGTTCATAAGTATT 59.736 34.615 15.69 0.00 0.00 1.89
231 232 6.801862 GTGCACCTTGTTGTTCATAAGTATTC 59.198 38.462 5.22 0.00 0.00 1.75
232 233 6.488344 TGCACCTTGTTGTTCATAAGTATTCA 59.512 34.615 0.00 0.00 0.00 2.57
233 234 7.013750 TGCACCTTGTTGTTCATAAGTATTCAA 59.986 33.333 0.00 0.00 0.00 2.69
234 235 7.865385 GCACCTTGTTGTTCATAAGTATTCAAA 59.135 33.333 0.00 0.00 0.00 2.69
235 236 9.743057 CACCTTGTTGTTCATAAGTATTCAAAA 57.257 29.630 0.00 0.00 0.00 2.44
236 237 9.965824 ACCTTGTTGTTCATAAGTATTCAAAAG 57.034 29.630 0.00 0.00 0.00 2.27
237 238 8.915654 CCTTGTTGTTCATAAGTATTCAAAAGC 58.084 33.333 0.00 0.00 0.00 3.51
238 239 9.683069 CTTGTTGTTCATAAGTATTCAAAAGCT 57.317 29.630 0.00 0.00 0.00 3.74
251 252 9.683069 AGTATTCAAAAGCTTACACTTCAAATG 57.317 29.630 0.00 0.00 0.00 2.32
252 253 9.677567 GTATTCAAAAGCTTACACTTCAAATGA 57.322 29.630 0.00 0.00 0.00 2.57
254 255 8.994429 TTCAAAAGCTTACACTTCAAATGAAA 57.006 26.923 0.00 0.00 33.07 2.69
255 256 8.406172 TCAAAAGCTTACACTTCAAATGAAAC 57.594 30.769 0.00 0.00 33.07 2.78
256 257 8.250332 TCAAAAGCTTACACTTCAAATGAAACT 58.750 29.630 0.00 0.00 33.07 2.66
257 258 7.992180 AAAGCTTACACTTCAAATGAAACTG 57.008 32.000 0.00 0.00 33.07 3.16
258 259 6.942532 AGCTTACACTTCAAATGAAACTGA 57.057 33.333 0.00 0.00 33.07 3.41
259 260 7.333528 AGCTTACACTTCAAATGAAACTGAA 57.666 32.000 0.00 0.00 33.07 3.02
260 261 7.771183 AGCTTACACTTCAAATGAAACTGAAA 58.229 30.769 0.00 0.00 33.07 2.69
261 262 8.250332 AGCTTACACTTCAAATGAAACTGAAAA 58.750 29.630 0.00 0.00 33.07 2.29
262 263 8.868916 GCTTACACTTCAAATGAAACTGAAAAA 58.131 29.630 0.00 0.00 33.07 1.94
286 287 8.991243 AAATAATTGCTACGCGTATTATAGGA 57.009 30.769 20.91 7.86 32.32 2.94
287 288 9.595823 AAATAATTGCTACGCGTATTATAGGAT 57.404 29.630 20.91 5.68 32.32 3.24
288 289 6.887376 AATTGCTACGCGTATTATAGGATG 57.113 37.500 20.91 5.70 0.00 3.51
289 290 5.632244 TTGCTACGCGTATTATAGGATGA 57.368 39.130 20.91 0.00 0.00 2.92
290 291 5.632244 TGCTACGCGTATTATAGGATGAA 57.368 39.130 20.91 0.00 0.00 2.57
291 292 5.396484 TGCTACGCGTATTATAGGATGAAC 58.604 41.667 20.91 0.00 0.00 3.18
292 293 5.048573 TGCTACGCGTATTATAGGATGAACA 60.049 40.000 20.91 0.00 0.00 3.18
293 294 6.034591 GCTACGCGTATTATAGGATGAACAT 58.965 40.000 20.91 0.00 0.00 2.71
294 295 7.148205 TGCTACGCGTATTATAGGATGAACATA 60.148 37.037 20.91 0.00 0.00 2.29
295 296 7.699391 GCTACGCGTATTATAGGATGAACATAA 59.301 37.037 20.91 0.00 0.00 1.90
296 297 7.807687 ACGCGTATTATAGGATGAACATAAC 57.192 36.000 11.67 0.00 0.00 1.89
297 298 7.372714 ACGCGTATTATAGGATGAACATAACA 58.627 34.615 11.67 0.00 0.00 2.41
298 299 7.868922 ACGCGTATTATAGGATGAACATAACAA 59.131 33.333 11.67 0.00 0.00 2.83
299 300 8.869897 CGCGTATTATAGGATGAACATAACAAT 58.130 33.333 0.00 0.00 0.00 2.71
334 335 9.921637 TGAAATACATTTTTACATGGGAAACTC 57.078 29.630 0.00 0.00 0.00 3.01
335 336 9.921637 GAAATACATTTTTACATGGGAAACTCA 57.078 29.630 0.00 0.00 0.00 3.41
337 338 9.874205 AATACATTTTTACATGGGAAACTCATG 57.126 29.630 9.65 9.65 45.31 3.07
338 339 6.700352 ACATTTTTACATGGGAAACTCATGG 58.300 36.000 14.70 0.00 44.42 3.66
339 340 6.269769 ACATTTTTACATGGGAAACTCATGGT 59.730 34.615 14.70 4.82 44.42 3.55
340 341 7.453126 ACATTTTTACATGGGAAACTCATGGTA 59.547 33.333 14.70 4.03 44.42 3.25
341 342 7.461182 TTTTTACATGGGAAACTCATGGTAG 57.539 36.000 14.70 0.00 44.42 3.18
342 343 5.772393 TTACATGGGAAACTCATGGTAGT 57.228 39.130 14.70 0.00 44.42 2.73
343 344 4.657814 ACATGGGAAACTCATGGTAGTT 57.342 40.909 14.70 0.00 44.42 2.24
344 345 4.335416 ACATGGGAAACTCATGGTAGTTG 58.665 43.478 14.70 0.00 44.42 3.16
345 346 4.202567 ACATGGGAAACTCATGGTAGTTGT 60.203 41.667 14.70 0.00 44.42 3.32
346 347 4.447138 TGGGAAACTCATGGTAGTTGTT 57.553 40.909 0.87 0.00 39.62 2.83
347 348 4.141287 TGGGAAACTCATGGTAGTTGTTG 58.859 43.478 0.87 0.00 39.62 3.33
348 349 3.057526 GGGAAACTCATGGTAGTTGTTGC 60.058 47.826 0.87 0.00 39.62 4.17
349 350 3.568007 GGAAACTCATGGTAGTTGTTGCA 59.432 43.478 0.87 0.00 39.62 4.08
350 351 4.218417 GGAAACTCATGGTAGTTGTTGCAT 59.782 41.667 0.87 0.00 39.62 3.96
351 352 5.278957 GGAAACTCATGGTAGTTGTTGCATT 60.279 40.000 0.87 0.00 39.62 3.56
352 353 6.072175 GGAAACTCATGGTAGTTGTTGCATTA 60.072 38.462 0.87 0.00 39.62 1.90
353 354 5.880054 ACTCATGGTAGTTGTTGCATTAC 57.120 39.130 0.00 0.00 0.00 1.89
354 355 5.312895 ACTCATGGTAGTTGTTGCATTACA 58.687 37.500 0.00 0.00 0.00 2.41
355 356 5.945784 ACTCATGGTAGTTGTTGCATTACAT 59.054 36.000 0.00 0.00 0.00 2.29
356 357 6.434028 ACTCATGGTAGTTGTTGCATTACATT 59.566 34.615 0.00 0.00 0.00 2.71
357 358 7.039784 ACTCATGGTAGTTGTTGCATTACATTT 60.040 33.333 0.00 0.00 0.00 2.32
358 359 7.665690 TCATGGTAGTTGTTGCATTACATTTT 58.334 30.769 0.00 0.00 0.00 1.82
359 360 8.147058 TCATGGTAGTTGTTGCATTACATTTTT 58.853 29.630 0.00 0.00 0.00 1.94
360 361 9.416794 CATGGTAGTTGTTGCATTACATTTTTA 57.583 29.630 0.00 0.00 0.00 1.52
361 362 9.988815 ATGGTAGTTGTTGCATTACATTTTTAA 57.011 25.926 0.00 0.00 0.00 1.52
362 363 9.469807 TGGTAGTTGTTGCATTACATTTTTAAG 57.530 29.630 0.00 0.00 0.00 1.85
363 364 9.685828 GGTAGTTGTTGCATTACATTTTTAAGA 57.314 29.630 0.00 0.00 0.00 2.10
382 383 9.965824 TTTTAAGAGATTGAACTTGGATTTCAC 57.034 29.630 0.00 0.00 32.65 3.18
383 384 8.690203 TTAAGAGATTGAACTTGGATTTCACA 57.310 30.769 0.00 0.00 32.65 3.58
384 385 7.771927 AAGAGATTGAACTTGGATTTCACAT 57.228 32.000 0.00 0.00 32.65 3.21
385 386 7.154435 AGAGATTGAACTTGGATTTCACATG 57.846 36.000 0.00 0.00 32.65 3.21
386 387 6.944290 AGAGATTGAACTTGGATTTCACATGA 59.056 34.615 0.00 0.00 32.65 3.07
387 388 7.449395 AGAGATTGAACTTGGATTTCACATGAA 59.551 33.333 0.00 0.00 32.65 2.57
388 389 7.600065 AGATTGAACTTGGATTTCACATGAAG 58.400 34.615 0.00 0.00 35.21 3.02
389 390 6.957920 TTGAACTTGGATTTCACATGAAGA 57.042 33.333 0.00 0.00 35.21 2.87
390 391 7.528996 TTGAACTTGGATTTCACATGAAGAT 57.471 32.000 0.00 0.00 35.21 2.40
391 392 6.916440 TGAACTTGGATTTCACATGAAGATG 58.084 36.000 0.00 0.00 35.21 2.90
392 393 6.491062 TGAACTTGGATTTCACATGAAGATGT 59.509 34.615 0.00 0.00 44.08 3.06
559 568 2.174319 GCTCGGATCGGCAGTTTCC 61.174 63.158 0.00 0.00 0.00 3.13
675 690 2.247437 GGCGCCAAATCTAGCCTCG 61.247 63.158 24.80 0.00 45.67 4.63
695 711 1.738099 CCCCTTTCACTCGCTCACG 60.738 63.158 0.00 0.00 42.01 4.35
735 751 1.207791 CTTCCCTACTGCCTCACCAT 58.792 55.000 0.00 0.00 0.00 3.55
741 757 1.204704 CTACTGCCTCACCATCGACAA 59.795 52.381 0.00 0.00 0.00 3.18
857 888 1.162698 CGTCTGGTCGACCTTGTCTA 58.837 55.000 33.39 12.84 39.56 2.59
872 904 2.156098 TCTATGCCATGGCTCCCCC 61.156 63.158 35.53 8.10 42.51 5.40
895 927 1.456196 GCCATCCTCGTCTCCGATGA 61.456 60.000 0.00 0.00 43.27 2.92
908 941 1.068083 CGATGACGGTAGGCAGCAT 59.932 57.895 0.00 0.00 43.21 3.79
933 970 2.040412 CTCCCCCTTTGTTAGCTCAGTT 59.960 50.000 0.00 0.00 0.00 3.16
1008 1045 0.659427 TCGACTAGGTTATGGACGCG 59.341 55.000 3.53 3.53 0.00 6.01
1101 1138 2.355837 GCTGTTCGTCGTGCTGGA 60.356 61.111 0.00 0.00 0.00 3.86
1135 1172 2.683742 CGCTATGGTCCATTGTTTCCCT 60.684 50.000 10.33 0.00 0.00 4.20
1203 1241 1.251527 ACGTCGAGGCTCTGTGGATT 61.252 55.000 13.50 0.00 0.00 3.01
1222 1260 6.925165 GTGGATTCTTCAAATGAAAAGAGCAA 59.075 34.615 0.00 0.00 33.32 3.91
1254 1292 2.163509 CTTGTCGAGACCTTCAGGAGA 58.836 52.381 0.00 0.00 38.94 3.71
1263 1301 3.324246 CTTCAGGAGAAGGGGGCTA 57.676 57.895 0.00 0.00 46.01 3.93
1288 1327 4.655963 ACAAGATAGCATCAACACCAGTT 58.344 39.130 0.00 0.00 38.88 3.16
1302 1341 3.181469 ACACCAGTTTCGAAGAGCAAGTA 60.181 43.478 0.00 0.00 38.43 2.24
1377 1416 3.198635 ACACGTTCAGGAGATCAATGGAT 59.801 43.478 0.00 0.00 36.13 3.41
1442 1481 4.832266 GGAGCTTAGAGGAGAGATGATCAA 59.168 45.833 0.00 0.00 0.00 2.57
1447 1486 6.072286 GCTTAGAGGAGAGATGATCAAGAGAG 60.072 46.154 0.00 0.00 0.00 3.20
1448 1487 5.651612 AGAGGAGAGATGATCAAGAGAGA 57.348 43.478 0.00 0.00 0.00 3.10
1449 1488 5.380043 AGAGGAGAGATGATCAAGAGAGAC 58.620 45.833 0.00 0.00 0.00 3.36
1450 1489 5.133322 AGAGGAGAGATGATCAAGAGAGACT 59.867 44.000 0.00 0.00 0.00 3.24
1497 1567 1.141053 ACGGAAGCCCAAGATGGTATC 59.859 52.381 0.00 0.00 35.17 2.24
1567 1639 3.747854 TGCTTGTGATGCCATTTTCAA 57.252 38.095 0.00 0.00 0.00 2.69
1572 1644 5.410439 GCTTGTGATGCCATTTTCAAGATTT 59.590 36.000 16.03 0.00 35.69 2.17
1641 1713 0.463295 CAGTCTGCAGCATACAGGGG 60.463 60.000 9.47 0.00 35.78 4.79
1642 1714 1.153086 GTCTGCAGCATACAGGGGG 60.153 63.158 9.47 0.00 35.78 5.40
1643 1715 1.306911 TCTGCAGCATACAGGGGGA 60.307 57.895 9.47 0.00 35.78 4.81
1660 1735 1.339151 GGGAGGAAGCACTACACAAGG 60.339 57.143 0.00 0.00 0.00 3.61
1684 1759 1.254026 ATGTGCTTGCTGCTGTTGAT 58.746 45.000 0.00 0.00 43.37 2.57
1752 1827 3.058432 GCGCATGATGCTAACATTCTCAT 60.058 43.478 16.17 0.00 42.25 2.90
1843 1918 0.677288 CATGTCGGCCGGGTATTCTA 59.323 55.000 27.83 0.00 0.00 2.10
1911 1986 2.034812 GGAACTATCCTAGGACTGCACG 59.965 54.545 15.42 1.57 42.93 5.34
1969 2044 1.180029 CTGTTGAGAGGGCATTTGGG 58.820 55.000 0.00 0.00 0.00 4.12
1975 2050 2.685999 AGGGCATTTGGGGCTCTC 59.314 61.111 0.00 0.00 37.62 3.20
2019 2094 1.108776 CAGAAGCCATTCCACCCATG 58.891 55.000 0.00 0.00 35.94 3.66
2020 2095 1.002069 AGAAGCCATTCCACCCATGA 58.998 50.000 0.00 0.00 35.94 3.07
2096 2171 2.299582 CAATGGGGCTTTGATGAACACA 59.700 45.455 0.00 0.00 0.00 3.72
2142 2238 1.271379 TGACGATGTTGTTAGCTCCGT 59.729 47.619 0.00 0.00 0.00 4.69
2197 2293 3.951680 GGAAGAACAAAAGGTTGGAGTGA 59.048 43.478 0.00 0.00 40.63 3.41
2341 2485 3.338249 GAAGATCTGGTAGCAGCAACAA 58.662 45.455 17.20 0.00 0.00 2.83
2357 2501 3.873910 CAACAACGATGAACTATCCCCT 58.126 45.455 0.00 0.00 31.82 4.79
2358 2502 4.682320 GCAACAACGATGAACTATCCCCTA 60.682 45.833 0.00 0.00 31.82 3.53
2359 2503 5.611374 CAACAACGATGAACTATCCCCTAT 58.389 41.667 0.00 0.00 31.82 2.57
2360 2504 6.740401 GCAACAACGATGAACTATCCCCTATA 60.740 42.308 0.00 0.00 31.82 1.31
2394 2538 8.553696 CCAATGGCTCTTAATAATTTGAATTGC 58.446 33.333 0.00 0.00 0.00 3.56
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 8.726068 GTCTTTTTCATTTCTCCCAAACAAAAA 58.274 29.630 0.00 0.00 0.00 1.94
27 28 7.880195 TGTCTTTTTCATTTCTCCCAAACAAAA 59.120 29.630 0.00 0.00 0.00 2.44
28 29 7.390027 TGTCTTTTTCATTTCTCCCAAACAAA 58.610 30.769 0.00 0.00 0.00 2.83
29 30 6.940739 TGTCTTTTTCATTTCTCCCAAACAA 58.059 32.000 0.00 0.00 0.00 2.83
30 31 6.537453 TGTCTTTTTCATTTCTCCCAAACA 57.463 33.333 0.00 0.00 0.00 2.83
31 32 9.710900 AATATGTCTTTTTCATTTCTCCCAAAC 57.289 29.630 0.00 0.00 0.00 2.93
33 34 9.927668 GAAATATGTCTTTTTCATTTCTCCCAA 57.072 29.630 0.00 0.00 34.35 4.12
34 35 9.312904 AGAAATATGTCTTTTTCATTTCTCCCA 57.687 29.630 0.00 0.00 40.26 4.37
62 63 9.264719 CACATCAACATCTATGCTATTTCTACA 57.735 33.333 0.00 0.00 0.00 2.74
63 64 9.481340 TCACATCAACATCTATGCTATTTCTAC 57.519 33.333 0.00 0.00 0.00 2.59
65 66 8.969260 TTCACATCAACATCTATGCTATTTCT 57.031 30.769 0.00 0.00 0.00 2.52
66 67 9.661187 CTTTCACATCAACATCTATGCTATTTC 57.339 33.333 0.00 0.00 0.00 2.17
67 68 9.182214 ACTTTCACATCAACATCTATGCTATTT 57.818 29.630 0.00 0.00 0.00 1.40
68 69 8.743085 ACTTTCACATCAACATCTATGCTATT 57.257 30.769 0.00 0.00 0.00 1.73
69 70 8.618677 CAACTTTCACATCAACATCTATGCTAT 58.381 33.333 0.00 0.00 0.00 2.97
70 71 7.823799 TCAACTTTCACATCAACATCTATGCTA 59.176 33.333 0.00 0.00 0.00 3.49
71 72 6.656270 TCAACTTTCACATCAACATCTATGCT 59.344 34.615 0.00 0.00 0.00 3.79
72 73 6.845302 TCAACTTTCACATCAACATCTATGC 58.155 36.000 0.00 0.00 0.00 3.14
73 74 7.913821 CCATCAACTTTCACATCAACATCTATG 59.086 37.037 0.00 0.00 0.00 2.23
74 75 7.613022 ACCATCAACTTTCACATCAACATCTAT 59.387 33.333 0.00 0.00 0.00 1.98
75 76 6.942005 ACCATCAACTTTCACATCAACATCTA 59.058 34.615 0.00 0.00 0.00 1.98
76 77 5.771666 ACCATCAACTTTCACATCAACATCT 59.228 36.000 0.00 0.00 0.00 2.90
77 78 6.017400 ACCATCAACTTTCACATCAACATC 57.983 37.500 0.00 0.00 0.00 3.06
78 79 5.047802 GGACCATCAACTTTCACATCAACAT 60.048 40.000 0.00 0.00 0.00 2.71
79 80 4.278170 GGACCATCAACTTTCACATCAACA 59.722 41.667 0.00 0.00 0.00 3.33
80 81 4.278170 TGGACCATCAACTTTCACATCAAC 59.722 41.667 0.00 0.00 0.00 3.18
81 82 4.468713 TGGACCATCAACTTTCACATCAA 58.531 39.130 0.00 0.00 0.00 2.57
82 83 4.074259 CTGGACCATCAACTTTCACATCA 58.926 43.478 0.00 0.00 0.00 3.07
83 84 4.326826 TCTGGACCATCAACTTTCACATC 58.673 43.478 0.00 0.00 0.00 3.06
84 85 4.371624 TCTGGACCATCAACTTTCACAT 57.628 40.909 0.00 0.00 0.00 3.21
85 86 3.855255 TCTGGACCATCAACTTTCACA 57.145 42.857 0.00 0.00 0.00 3.58
86 87 5.355350 CCTTATCTGGACCATCAACTTTCAC 59.645 44.000 0.00 0.00 0.00 3.18
87 88 5.500234 CCTTATCTGGACCATCAACTTTCA 58.500 41.667 0.00 0.00 0.00 2.69
88 89 4.884164 CCCTTATCTGGACCATCAACTTTC 59.116 45.833 0.00 0.00 0.00 2.62
89 90 4.325344 CCCCTTATCTGGACCATCAACTTT 60.325 45.833 0.00 0.00 0.00 2.66
90 91 3.203040 CCCCTTATCTGGACCATCAACTT 59.797 47.826 0.00 0.00 0.00 2.66
91 92 2.780010 CCCCTTATCTGGACCATCAACT 59.220 50.000 0.00 0.00 0.00 3.16
92 93 2.749800 GCCCCTTATCTGGACCATCAAC 60.750 54.545 0.00 0.00 0.00 3.18
93 94 1.494721 GCCCCTTATCTGGACCATCAA 59.505 52.381 0.00 0.00 0.00 2.57
94 95 1.140312 GCCCCTTATCTGGACCATCA 58.860 55.000 0.00 0.00 0.00 3.07
95 96 1.140312 TGCCCCTTATCTGGACCATC 58.860 55.000 0.00 0.00 0.00 3.51
96 97 0.846693 GTGCCCCTTATCTGGACCAT 59.153 55.000 0.00 0.00 0.00 3.55
97 98 0.548926 TGTGCCCCTTATCTGGACCA 60.549 55.000 0.00 0.00 0.00 4.02
98 99 0.107165 GTGTGCCCCTTATCTGGACC 60.107 60.000 0.00 0.00 0.00 4.46
99 100 0.107165 GGTGTGCCCCTTATCTGGAC 60.107 60.000 0.00 0.00 0.00 4.02
100 101 0.253160 AGGTGTGCCCCTTATCTGGA 60.253 55.000 0.00 0.00 34.57 3.86
101 102 0.107017 CAGGTGTGCCCCTTATCTGG 60.107 60.000 0.00 0.00 34.57 3.86
102 103 0.749454 GCAGGTGTGCCCCTTATCTG 60.749 60.000 0.00 0.00 44.72 2.90
103 104 1.609783 GCAGGTGTGCCCCTTATCT 59.390 57.895 0.00 0.00 44.72 1.98
104 105 4.242602 GCAGGTGTGCCCCTTATC 57.757 61.111 0.00 0.00 44.72 1.75
113 114 1.735920 GAGCTCGAGTGCAGGTGTG 60.736 63.158 15.13 0.00 34.99 3.82
114 115 1.748329 TTGAGCTCGAGTGCAGGTGT 61.748 55.000 15.13 0.00 34.99 4.16
115 116 0.601046 TTTGAGCTCGAGTGCAGGTG 60.601 55.000 15.13 0.00 34.99 4.00
116 117 0.106708 TTTTGAGCTCGAGTGCAGGT 59.893 50.000 15.13 0.00 34.99 4.00
117 118 1.229428 TTTTTGAGCTCGAGTGCAGG 58.771 50.000 15.13 0.00 34.99 4.85
133 134 8.250143 AGTTGTATGACTCTTTGGGAATTTTT 57.750 30.769 0.00 0.00 0.00 1.94
134 135 7.839680 AGTTGTATGACTCTTTGGGAATTTT 57.160 32.000 0.00 0.00 0.00 1.82
135 136 7.942341 TGTAGTTGTATGACTCTTTGGGAATTT 59.058 33.333 0.00 0.00 0.00 1.82
136 137 7.458397 TGTAGTTGTATGACTCTTTGGGAATT 58.542 34.615 0.00 0.00 0.00 2.17
137 138 7.016153 TGTAGTTGTATGACTCTTTGGGAAT 57.984 36.000 0.00 0.00 0.00 3.01
138 139 6.428083 TGTAGTTGTATGACTCTTTGGGAA 57.572 37.500 0.00 0.00 0.00 3.97
139 140 6.620877 ATGTAGTTGTATGACTCTTTGGGA 57.379 37.500 0.00 0.00 0.00 4.37
140 141 7.362056 CCAAATGTAGTTGTATGACTCTTTGGG 60.362 40.741 13.39 0.00 38.51 4.12
141 142 7.174946 ACCAAATGTAGTTGTATGACTCTTTGG 59.825 37.037 16.65 16.65 42.35 3.28
142 143 8.017373 CACCAAATGTAGTTGTATGACTCTTTG 58.983 37.037 0.00 0.00 0.00 2.77
143 144 7.719633 ACACCAAATGTAGTTGTATGACTCTTT 59.280 33.333 0.00 0.00 40.88 2.52
144 145 7.224297 ACACCAAATGTAGTTGTATGACTCTT 58.776 34.615 0.00 0.00 40.88 2.85
145 146 6.769512 ACACCAAATGTAGTTGTATGACTCT 58.230 36.000 0.00 0.00 40.88 3.24
146 147 7.435068 AACACCAAATGTAGTTGTATGACTC 57.565 36.000 0.00 0.00 42.31 3.36
147 148 8.154856 ACTAACACCAAATGTAGTTGTATGACT 58.845 33.333 0.00 0.00 42.31 3.41
148 149 8.227791 CACTAACACCAAATGTAGTTGTATGAC 58.772 37.037 0.00 0.00 42.31 3.06
149 150 8.151596 TCACTAACACCAAATGTAGTTGTATGA 58.848 33.333 0.00 0.00 42.31 2.15
150 151 8.317891 TCACTAACACCAAATGTAGTTGTATG 57.682 34.615 0.00 0.00 42.31 2.39
151 152 8.154856 ACTCACTAACACCAAATGTAGTTGTAT 58.845 33.333 0.00 0.00 42.31 2.29
152 153 7.502696 ACTCACTAACACCAAATGTAGTTGTA 58.497 34.615 0.00 0.00 42.31 2.41
153 154 6.354130 ACTCACTAACACCAAATGTAGTTGT 58.646 36.000 0.00 0.00 42.31 3.32
154 155 6.861065 ACTCACTAACACCAAATGTAGTTG 57.139 37.500 0.00 0.00 42.31 3.16
155 156 7.959175 TCTACTCACTAACACCAAATGTAGTT 58.041 34.615 0.00 0.00 42.31 2.24
156 157 7.534723 TCTACTCACTAACACCAAATGTAGT 57.465 36.000 0.00 0.00 42.31 2.73
157 158 8.470805 AGATCTACTCACTAACACCAAATGTAG 58.529 37.037 0.00 0.00 42.31 2.74
158 159 8.362464 AGATCTACTCACTAACACCAAATGTA 57.638 34.615 0.00 0.00 42.31 2.29
159 160 7.246171 AGATCTACTCACTAACACCAAATGT 57.754 36.000 0.00 0.00 46.42 2.71
160 161 8.553459 AAAGATCTACTCACTAACACCAAATG 57.447 34.615 0.00 0.00 0.00 2.32
161 162 8.375506 TGAAAGATCTACTCACTAACACCAAAT 58.624 33.333 0.00 0.00 0.00 2.32
162 163 7.656137 GTGAAAGATCTACTCACTAACACCAAA 59.344 37.037 22.14 0.00 37.17 3.28
163 164 7.152645 GTGAAAGATCTACTCACTAACACCAA 58.847 38.462 22.14 0.00 37.17 3.67
164 165 6.266786 TGTGAAAGATCTACTCACTAACACCA 59.733 38.462 26.34 11.18 40.14 4.17
165 166 6.688578 TGTGAAAGATCTACTCACTAACACC 58.311 40.000 26.34 9.40 40.14 4.16
166 167 7.815068 ACATGTGAAAGATCTACTCACTAACAC 59.185 37.037 26.34 12.76 40.14 3.32
167 168 7.814587 CACATGTGAAAGATCTACTCACTAACA 59.185 37.037 26.34 14.43 40.14 2.41
168 169 7.276658 CCACATGTGAAAGATCTACTCACTAAC 59.723 40.741 27.46 10.67 40.14 2.34
169 170 7.039011 ACCACATGTGAAAGATCTACTCACTAA 60.039 37.037 27.46 15.14 40.14 2.24
170 171 6.437477 ACCACATGTGAAAGATCTACTCACTA 59.563 38.462 27.46 18.00 40.14 2.74
171 172 5.247110 ACCACATGTGAAAGATCTACTCACT 59.753 40.000 27.46 15.72 40.14 3.41
172 173 5.482908 ACCACATGTGAAAGATCTACTCAC 58.517 41.667 27.46 22.44 39.93 3.51
173 174 5.245977 TGACCACATGTGAAAGATCTACTCA 59.754 40.000 27.46 6.36 0.00 3.41
174 175 5.724328 TGACCACATGTGAAAGATCTACTC 58.276 41.667 27.46 3.94 0.00 2.59
175 176 5.745312 TGACCACATGTGAAAGATCTACT 57.255 39.130 27.46 0.00 0.00 2.57
176 177 8.668510 AATATGACCACATGTGAAAGATCTAC 57.331 34.615 27.46 7.57 37.87 2.59
178 179 9.685276 TTAAATATGACCACATGTGAAAGATCT 57.315 29.630 27.46 7.58 37.87 2.75
181 182 9.241919 ACATTAAATATGACCACATGTGAAAGA 57.758 29.630 27.46 9.54 37.87 2.52
182 183 9.292846 CACATTAAATATGACCACATGTGAAAG 57.707 33.333 27.46 12.94 37.87 2.62
183 184 7.758980 GCACATTAAATATGACCACATGTGAAA 59.241 33.333 27.46 12.06 37.87 2.69
184 185 7.094032 TGCACATTAAATATGACCACATGTGAA 60.094 33.333 27.46 12.43 37.87 3.18
185 186 6.376581 TGCACATTAAATATGACCACATGTGA 59.623 34.615 27.46 7.86 37.87 3.58
186 187 6.473131 GTGCACATTAAATATGACCACATGTG 59.527 38.462 19.31 19.31 37.87 3.21
187 188 6.405731 GGTGCACATTAAATATGACCACATGT 60.406 38.462 20.43 0.00 37.87 3.21
188 189 5.978919 GGTGCACATTAAATATGACCACATG 59.021 40.000 20.43 0.00 37.87 3.21
189 190 5.893255 AGGTGCACATTAAATATGACCACAT 59.107 36.000 20.43 0.00 40.16 3.21
190 191 5.260424 AGGTGCACATTAAATATGACCACA 58.740 37.500 20.43 0.00 0.00 4.17
191 192 5.835113 AGGTGCACATTAAATATGACCAC 57.165 39.130 20.43 0.00 0.00 4.16
192 193 5.714333 ACAAGGTGCACATTAAATATGACCA 59.286 36.000 17.43 0.00 0.00 4.02
193 194 6.207691 ACAAGGTGCACATTAAATATGACC 57.792 37.500 17.43 0.00 0.00 4.02
194 195 7.090173 ACAACAAGGTGCACATTAAATATGAC 58.910 34.615 17.43 0.00 0.00 3.06
195 196 7.225784 ACAACAAGGTGCACATTAAATATGA 57.774 32.000 17.43 0.00 0.00 2.15
196 197 7.598118 TGAACAACAAGGTGCACATTAAATATG 59.402 33.333 17.43 13.00 0.00 1.78
197 198 7.665690 TGAACAACAAGGTGCACATTAAATAT 58.334 30.769 17.43 3.62 0.00 1.28
198 199 7.043961 TGAACAACAAGGTGCACATTAAATA 57.956 32.000 17.43 0.00 0.00 1.40
199 200 5.911752 TGAACAACAAGGTGCACATTAAAT 58.088 33.333 17.43 2.65 0.00 1.40
200 201 5.330455 TGAACAACAAGGTGCACATTAAA 57.670 34.783 17.43 0.00 0.00 1.52
201 202 4.991153 TGAACAACAAGGTGCACATTAA 57.009 36.364 17.43 0.00 0.00 1.40
202 203 6.264292 ACTTATGAACAACAAGGTGCACATTA 59.736 34.615 17.43 0.00 0.00 1.90
203 204 5.068987 ACTTATGAACAACAAGGTGCACATT 59.931 36.000 20.43 16.17 0.00 2.71
204 205 4.584325 ACTTATGAACAACAAGGTGCACAT 59.416 37.500 20.43 9.24 0.00 3.21
205 206 3.951037 ACTTATGAACAACAAGGTGCACA 59.049 39.130 20.43 0.00 0.00 4.57
206 207 4.568152 ACTTATGAACAACAAGGTGCAC 57.432 40.909 8.80 8.80 0.00 4.57
207 208 6.488344 TGAATACTTATGAACAACAAGGTGCA 59.512 34.615 0.00 0.00 0.00 4.57
208 209 6.908825 TGAATACTTATGAACAACAAGGTGC 58.091 36.000 0.00 0.00 0.00 5.01
209 210 9.743057 TTTTGAATACTTATGAACAACAAGGTG 57.257 29.630 0.00 0.00 0.00 4.00
210 211 9.965824 CTTTTGAATACTTATGAACAACAAGGT 57.034 29.630 0.00 0.00 0.00 3.50
211 212 8.915654 GCTTTTGAATACTTATGAACAACAAGG 58.084 33.333 0.00 0.00 0.00 3.61
212 213 9.683069 AGCTTTTGAATACTTATGAACAACAAG 57.317 29.630 0.00 0.00 0.00 3.16
225 226 9.683069 CATTTGAAGTGTAAGCTTTTGAATACT 57.317 29.630 3.20 0.00 0.00 2.12
226 227 9.677567 TCATTTGAAGTGTAAGCTTTTGAATAC 57.322 29.630 3.20 0.00 0.00 1.89
228 229 9.598517 TTTCATTTGAAGTGTAAGCTTTTGAAT 57.401 25.926 3.20 0.00 35.21 2.57
229 230 8.868916 GTTTCATTTGAAGTGTAAGCTTTTGAA 58.131 29.630 3.20 0.00 35.21 2.69
230 231 8.250332 AGTTTCATTTGAAGTGTAAGCTTTTGA 58.750 29.630 3.20 0.00 35.21 2.69
231 232 8.323140 CAGTTTCATTTGAAGTGTAAGCTTTTG 58.677 33.333 3.20 0.00 35.21 2.44
232 233 8.250332 TCAGTTTCATTTGAAGTGTAAGCTTTT 58.750 29.630 3.20 0.00 35.21 2.27
233 234 7.771183 TCAGTTTCATTTGAAGTGTAAGCTTT 58.229 30.769 3.20 0.00 35.21 3.51
234 235 7.333528 TCAGTTTCATTTGAAGTGTAAGCTT 57.666 32.000 3.48 3.48 35.21 3.74
235 236 6.942532 TCAGTTTCATTTGAAGTGTAAGCT 57.057 33.333 0.00 0.00 35.21 3.74
236 237 7.985634 TTTCAGTTTCATTTGAAGTGTAAGC 57.014 32.000 0.00 0.00 35.01 3.09
270 271 9.007252 GTTATGTTCATCCTATAATACGCGTAG 57.993 37.037 24.78 12.05 0.00 3.51
271 272 8.513774 TGTTATGTTCATCCTATAATACGCGTA 58.486 33.333 22.94 22.94 0.00 4.42
272 273 7.372714 TGTTATGTTCATCCTATAATACGCGT 58.627 34.615 19.17 19.17 0.00 6.01
273 274 7.806149 TGTTATGTTCATCCTATAATACGCG 57.194 36.000 3.53 3.53 0.00 6.01
308 309 9.921637 GAGTTTCCCATGTAAAAATGTATTTCA 57.078 29.630 0.00 0.00 0.00 2.69
309 310 9.921637 TGAGTTTCCCATGTAAAAATGTATTTC 57.078 29.630 0.00 0.00 0.00 2.17
311 312 9.874205 CATGAGTTTCCCATGTAAAAATGTATT 57.126 29.630 0.00 0.00 37.28 1.89
312 313 8.477256 CCATGAGTTTCCCATGTAAAAATGTAT 58.523 33.333 0.00 0.00 39.66 2.29
313 314 7.453126 ACCATGAGTTTCCCATGTAAAAATGTA 59.547 33.333 0.00 0.00 39.66 2.29
314 315 6.269769 ACCATGAGTTTCCCATGTAAAAATGT 59.730 34.615 0.00 0.00 39.66 2.71
315 316 6.700352 ACCATGAGTTTCCCATGTAAAAATG 58.300 36.000 0.00 0.00 39.66 2.32
316 317 6.933514 ACCATGAGTTTCCCATGTAAAAAT 57.066 33.333 0.00 0.00 39.66 1.82
317 318 7.007723 ACTACCATGAGTTTCCCATGTAAAAA 58.992 34.615 0.00 0.00 39.66 1.94
318 319 6.548321 ACTACCATGAGTTTCCCATGTAAAA 58.452 36.000 0.00 0.00 39.66 1.52
319 320 6.134535 ACTACCATGAGTTTCCCATGTAAA 57.865 37.500 0.00 0.00 39.66 2.01
320 321 5.772393 ACTACCATGAGTTTCCCATGTAA 57.228 39.130 0.00 0.00 39.66 2.41
321 322 5.013704 ACAACTACCATGAGTTTCCCATGTA 59.986 40.000 0.00 0.00 37.57 2.29
322 323 4.202567 ACAACTACCATGAGTTTCCCATGT 60.203 41.667 0.00 0.00 37.57 3.21
323 324 4.335416 ACAACTACCATGAGTTTCCCATG 58.665 43.478 0.00 0.00 37.57 3.66
324 325 4.657814 ACAACTACCATGAGTTTCCCAT 57.342 40.909 0.00 0.00 37.57 4.00
325 326 4.141287 CAACAACTACCATGAGTTTCCCA 58.859 43.478 0.00 0.00 37.57 4.37
326 327 3.057526 GCAACAACTACCATGAGTTTCCC 60.058 47.826 0.00 0.00 37.57 3.97
327 328 3.568007 TGCAACAACTACCATGAGTTTCC 59.432 43.478 0.00 0.00 37.57 3.13
328 329 4.829064 TGCAACAACTACCATGAGTTTC 57.171 40.909 0.00 0.00 37.57 2.78
329 330 5.789643 AATGCAACAACTACCATGAGTTT 57.210 34.783 0.00 0.00 37.57 2.66
330 331 5.767665 TGTAATGCAACAACTACCATGAGTT 59.232 36.000 0.00 0.00 40.35 3.01
331 332 5.312895 TGTAATGCAACAACTACCATGAGT 58.687 37.500 0.00 0.00 0.00 3.41
332 333 5.878332 TGTAATGCAACAACTACCATGAG 57.122 39.130 0.00 0.00 0.00 2.90
333 334 6.832520 AATGTAATGCAACAACTACCATGA 57.167 33.333 0.00 0.00 32.02 3.07
334 335 7.887996 AAAATGTAATGCAACAACTACCATG 57.112 32.000 0.00 0.00 32.02 3.66
335 336 9.988815 TTAAAAATGTAATGCAACAACTACCAT 57.011 25.926 0.00 0.00 32.02 3.55
336 337 9.469807 CTTAAAAATGTAATGCAACAACTACCA 57.530 29.630 0.00 0.00 32.02 3.25
337 338 9.685828 TCTTAAAAATGTAATGCAACAACTACC 57.314 29.630 0.00 0.00 32.02 3.18
356 357 9.965824 GTGAAATCCAAGTTCAATCTCTTAAAA 57.034 29.630 0.00 0.00 36.77 1.52
357 358 9.130661 TGTGAAATCCAAGTTCAATCTCTTAAA 57.869 29.630 0.00 0.00 36.77 1.52
358 359 8.690203 TGTGAAATCCAAGTTCAATCTCTTAA 57.310 30.769 0.00 0.00 36.77 1.85
359 360 8.733458 CATGTGAAATCCAAGTTCAATCTCTTA 58.267 33.333 0.00 0.00 36.77 2.10
360 361 7.449395 TCATGTGAAATCCAAGTTCAATCTCTT 59.551 33.333 0.00 0.00 36.77 2.85
361 362 6.944290 TCATGTGAAATCCAAGTTCAATCTCT 59.056 34.615 0.00 0.00 36.77 3.10
362 363 7.149569 TCATGTGAAATCCAAGTTCAATCTC 57.850 36.000 0.00 0.00 36.77 2.75
363 364 7.449395 TCTTCATGTGAAATCCAAGTTCAATCT 59.551 33.333 0.00 0.00 36.77 2.40
364 365 7.596494 TCTTCATGTGAAATCCAAGTTCAATC 58.404 34.615 0.00 0.00 36.77 2.67
365 366 7.528996 TCTTCATGTGAAATCCAAGTTCAAT 57.471 32.000 0.00 0.00 36.77 2.57
366 367 6.957920 TCTTCATGTGAAATCCAAGTTCAA 57.042 33.333 0.00 0.00 36.77 2.69
367 368 6.491062 ACATCTTCATGTGAAATCCAAGTTCA 59.509 34.615 0.00 0.00 42.05 3.18
368 369 6.917533 ACATCTTCATGTGAAATCCAAGTTC 58.082 36.000 0.00 0.00 42.05 3.01
369 370 6.906157 ACATCTTCATGTGAAATCCAAGTT 57.094 33.333 0.00 0.00 42.05 2.66
381 382 7.176165 CCTTAATGGATATGCACATCTTCATGT 59.824 37.037 4.72 0.00 40.27 3.21
382 383 7.362660 CCCTTAATGGATATGCACATCTTCATG 60.363 40.741 4.72 0.00 38.35 3.07
383 384 6.662234 CCCTTAATGGATATGCACATCTTCAT 59.338 38.462 4.72 0.00 38.35 2.57
384 385 6.005823 CCCTTAATGGATATGCACATCTTCA 58.994 40.000 4.72 0.00 38.35 3.02
385 386 5.105997 GCCCTTAATGGATATGCACATCTTC 60.106 44.000 4.72 0.00 38.35 2.87
386 387 4.768968 GCCCTTAATGGATATGCACATCTT 59.231 41.667 4.72 0.00 38.35 2.40
387 388 4.338879 GCCCTTAATGGATATGCACATCT 58.661 43.478 4.72 0.00 38.35 2.90
388 389 3.127548 CGCCCTTAATGGATATGCACATC 59.872 47.826 0.00 0.00 38.35 3.06
389 390 3.084039 CGCCCTTAATGGATATGCACAT 58.916 45.455 0.00 0.00 38.35 3.21
390 391 2.158682 ACGCCCTTAATGGATATGCACA 60.159 45.455 0.00 0.00 38.35 4.57
391 392 2.226437 CACGCCCTTAATGGATATGCAC 59.774 50.000 0.00 0.00 38.35 4.57
392 393 2.158682 ACACGCCCTTAATGGATATGCA 60.159 45.455 0.00 0.00 38.35 3.96
393 394 2.504367 ACACGCCCTTAATGGATATGC 58.496 47.619 0.24 0.00 38.35 3.14
394 395 4.261572 CCAAACACGCCCTTAATGGATATG 60.262 45.833 0.24 0.00 38.35 1.78
395 396 3.888930 CCAAACACGCCCTTAATGGATAT 59.111 43.478 0.24 0.00 38.35 1.63
396 397 3.283751 CCAAACACGCCCTTAATGGATA 58.716 45.455 0.24 0.00 38.35 2.59
397 398 2.099405 CCAAACACGCCCTTAATGGAT 58.901 47.619 0.24 0.00 38.35 3.41
398 399 1.202952 ACCAAACACGCCCTTAATGGA 60.203 47.619 0.24 0.00 38.35 3.41
399 400 1.253100 ACCAAACACGCCCTTAATGG 58.747 50.000 0.00 0.00 0.00 3.16
522 530 2.683572 TTCCAGCGAGCCAGGCTA 60.684 61.111 16.16 0.00 39.88 3.93
623 633 1.496429 AGATTTCCATCTCCCGCCATT 59.504 47.619 0.00 0.00 34.26 3.16
675 690 2.436824 GAGCGAGTGAAAGGGGGC 60.437 66.667 0.00 0.00 0.00 5.80
735 751 4.438148 TCTGAAATCACAGTTGTTGTCGA 58.562 39.130 0.00 0.00 38.16 4.20
741 757 3.434641 CGCAGATCTGAAATCACAGTTGT 59.565 43.478 27.04 0.00 38.79 3.32
857 888 1.701024 TTAGGGGGAGCCATGGCAT 60.701 57.895 37.18 22.55 44.88 4.40
895 927 3.480133 GGGGATGCTGCCTACCGT 61.480 66.667 0.00 0.00 0.00 4.83
908 941 1.212250 GCTAACAAAGGGGGAGGGGA 61.212 60.000 0.00 0.00 0.00 4.81
933 970 3.031736 CACCTAGCCTAACAGCCTAAGA 58.968 50.000 0.00 0.00 0.00 2.10
1008 1045 3.070018 CTGGATTATCAACCTCATCCGC 58.930 50.000 0.00 0.00 38.49 5.54
1101 1138 2.505819 ACCATAGCGGATCAAAGGTCTT 59.494 45.455 0.00 0.00 38.63 3.01
1135 1172 0.104672 TGGACCCTCTCCTGTTTCCA 60.105 55.000 0.00 0.00 40.26 3.53
1150 1188 5.412594 TGTAGATGCAGTTCAGATTTTGGAC 59.587 40.000 0.00 0.00 35.32 4.02
1222 1260 0.537143 TCGACAAGCCTGGCAAATGT 60.537 50.000 22.65 21.14 0.00 2.71
1254 1292 2.973406 GCTATCTTGTAGTAGCCCCCTT 59.027 50.000 0.00 0.00 37.85 3.95
1263 1301 5.046304 ACTGGTGTTGATGCTATCTTGTAGT 60.046 40.000 0.00 0.00 0.00 2.73
1288 1327 2.028112 ACATGGCTACTTGCTCTTCGAA 60.028 45.455 0.00 0.00 42.39 3.71
1377 1416 5.516044 TGCTTGAAGTACCTAGAGATGGTA 58.484 41.667 0.00 0.00 38.88 3.25
1417 1456 2.788807 TCATCTCTCCTCTAAGCTCCCT 59.211 50.000 0.00 0.00 0.00 4.20
1442 1481 4.141482 GGAGTCTGACCAGATAGTCTCTCT 60.141 50.000 3.76 0.00 39.97 3.10
1447 1486 2.691011 GGTGGAGTCTGACCAGATAGTC 59.309 54.545 3.76 1.64 39.97 2.59
1448 1487 2.624557 GGGTGGAGTCTGACCAGATAGT 60.625 54.545 3.76 0.00 39.97 2.12
1449 1488 2.035632 GGGTGGAGTCTGACCAGATAG 58.964 57.143 3.76 0.00 39.97 2.08
1450 1489 1.361197 TGGGTGGAGTCTGACCAGATA 59.639 52.381 3.76 0.00 39.97 1.98
1497 1567 5.475909 ACAAGCATATCAAGCCATGAATAGG 59.524 40.000 0.00 0.00 42.54 2.57
1567 1639 4.836736 CCATCTATTGCCCCAATGAAATCT 59.163 41.667 0.94 0.00 35.54 2.40
1572 1644 3.721575 AGTACCATCTATTGCCCCAATGA 59.278 43.478 0.94 0.00 35.54 2.57
1641 1713 1.946283 GCCTTGTGTAGTGCTTCCTCC 60.946 57.143 0.00 0.00 0.00 4.30
1642 1714 1.270839 TGCCTTGTGTAGTGCTTCCTC 60.271 52.381 0.00 0.00 0.00 3.71
1643 1715 0.764890 TGCCTTGTGTAGTGCTTCCT 59.235 50.000 0.00 0.00 0.00 3.36
1752 1827 0.969149 AGGTCGACTCATGCTGTCAA 59.031 50.000 16.46 0.00 34.37 3.18
1843 1918 0.930726 TGGTTTTCCTGAAGGGTGGT 59.069 50.000 0.00 0.00 41.38 4.16
1911 1986 3.935828 GTGTCTGAGATTAAACAGCTCCC 59.064 47.826 0.00 0.00 37.08 4.30
1969 2044 6.708502 GGATCTTAAACCTATTCTTGAGAGCC 59.291 42.308 0.00 0.00 36.81 4.70
1975 2050 8.213679 TGATCCAGGATCTTAAACCTATTCTTG 58.786 37.037 26.94 0.00 39.56 3.02
2019 2094 5.128008 AGAACTAGCTTAACCTGAGTGGATC 59.872 44.000 0.00 0.00 39.71 3.36
2020 2095 5.026790 AGAACTAGCTTAACCTGAGTGGAT 58.973 41.667 0.00 0.00 39.71 3.41
2077 2152 2.307496 TGTGTTCATCAAAGCCCCAT 57.693 45.000 0.00 0.00 0.00 4.00
2096 2171 0.043940 ACCTCTTCCTCCTCAGGCAT 59.956 55.000 0.00 0.00 40.12 4.40
2197 2293 1.617018 TAAGCCACATCGCCTCTGCT 61.617 55.000 0.00 0.00 34.43 4.24
2298 2440 3.369366 CCTCTTCCTCTTCTTCTGCTTCC 60.369 52.174 0.00 0.00 0.00 3.46
2391 2535 7.801104 TCATCCTAACTACTATCAAATGGCAA 58.199 34.615 0.00 0.00 0.00 4.52
2394 2538 9.265901 CAGTTCATCCTAACTACTATCAAATGG 57.734 37.037 0.00 0.00 37.61 3.16


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

AutoCloner maintained by Alex Coulton.