Multiple sequence alignment - TraesCS3B01G561000

Loading Multiple Alignment...

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 TraesCS3B01G561000 chr3B 100.000 2953 0 0 1 2953 794841429 794838477 0.000000e+00 5454
1 TraesCS3B01G561000 chr3B 95.419 2423 68 13 253 2646 794594169 794591761 0.000000e+00 3819
2 TraesCS3B01G561000 chr3B 88.349 987 96 14 1311 2294 794544101 794543131 0.000000e+00 1168
3 TraesCS3B01G561000 chr3B 96.053 152 6 0 101 252 269564338 269564489 6.320000e-62 248
4 TraesCS3B01G561000 chr3B 95.364 151 7 0 102 252 715886458 715886608 1.060000e-59 241
5 TraesCS3B01G561000 chr3B 97.143 140 4 0 113 252 684506008 684505869 1.370000e-58 237
6 TraesCS3B01G561000 chr3B 84.878 205 21 5 360 563 794545079 794544884 6.460000e-47 198
7 TraesCS3B01G561000 chr3B 98.020 101 2 0 1 101 794594262 794594162 3.020000e-40 176
8 TraesCS3B01G561000 chr3D 93.956 1638 86 6 1223 2850 592576653 592578287 0.000000e+00 2464
9 TraesCS3B01G561000 chr3D 85.547 1619 180 35 1242 2849 592608366 592609941 0.000000e+00 1644
10 TraesCS3B01G561000 chr3D 93.875 947 38 8 304 1231 592575248 592576193 0.000000e+00 1410
11 TraesCS3B01G561000 chr3D 90.149 538 45 5 719 1256 592607784 592608313 0.000000e+00 693
12 TraesCS3B01G561000 chr3D 84.211 266 35 5 360 623 592607439 592607699 4.890000e-63 252
13 TraesCS3B01G561000 chr3D 93.204 103 5 2 1 101 592575137 592575239 1.830000e-32 150
14 TraesCS3B01G561000 chr3D 85.841 113 12 4 2844 2953 554386664 554386775 1.860000e-22 117
15 TraesCS3B01G561000 chr3A 94.010 1636 82 8 1223 2850 724023062 724021435 0.000000e+00 2464
16 TraesCS3B01G561000 chr3A 86.147 1617 184 29 1242 2850 723661482 723659898 0.000000e+00 1709
17 TraesCS3B01G561000 chr3A 93.196 779 30 10 253 1012 724024053 724023279 0.000000e+00 1123
18 TraesCS3B01G561000 chr3A 83.775 906 109 25 360 1256 723662411 723661535 0.000000e+00 824
19 TraesCS3B01G561000 chr2B 96.078 153 6 0 100 252 333041491 333041643 1.760000e-62 250
20 TraesCS3B01G561000 chr2B 93.243 148 10 0 101 248 626658671 626658524 4.960000e-53 219
21 TraesCS3B01G561000 chr5B 94.118 153 8 1 101 253 458943208 458943359 6.370000e-57 231
22 TraesCS3B01G561000 chr1B 97.037 135 4 0 101 235 17384725 17384591 8.230000e-56 228
23 TraesCS3B01G561000 chr2A 93.377 151 10 0 102 252 767623151 767623301 1.070000e-54 224
24 TraesCS3B01G561000 chr2A 87.629 97 8 4 2858 2952 536594596 536594502 3.110000e-20 110
25 TraesCS3B01G561000 chr7B 92.308 156 11 1 101 256 728989265 728989419 1.380000e-53 220
26 TraesCS3B01G561000 chr7A 90.000 90 9 0 2864 2953 681115462 681115551 1.860000e-22 117
27 TraesCS3B01G561000 chr5A 90.000 90 9 0 2863 2952 407950428 407950339 1.860000e-22 117
28 TraesCS3B01G561000 chr7D 88.542 96 10 1 2859 2953 627729897 627729992 6.690000e-22 115
29 TraesCS3B01G561000 chr7D 88.542 96 10 1 2859 2953 627847265 627847360 6.690000e-22 115
30 TraesCS3B01G561000 chr7D 88.542 96 10 1 2859 2953 627927492 627927587 6.690000e-22 115
31 TraesCS3B01G561000 chr1D 88.542 96 9 2 2859 2953 384132338 384132432 6.690000e-22 115
32 TraesCS3B01G561000 chr6D 89.130 92 9 1 2863 2953 78778355 78778264 2.410000e-21 113


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 TraesCS3B01G561000 chr3B 794838477 794841429 2952 True 5454.000000 5454 100.000000 1 2953 1 chr3B.!!$R2 2952
1 TraesCS3B01G561000 chr3B 794591761 794594262 2501 True 1997.500000 3819 96.719500 1 2646 2 chr3B.!!$R4 2645
2 TraesCS3B01G561000 chr3B 794543131 794545079 1948 True 683.000000 1168 86.613500 360 2294 2 chr3B.!!$R3 1934
3 TraesCS3B01G561000 chr3D 592575137 592578287 3150 False 1341.333333 2464 93.678333 1 2850 3 chr3D.!!$F2 2849
4 TraesCS3B01G561000 chr3D 592607439 592609941 2502 False 863.000000 1644 86.635667 360 2849 3 chr3D.!!$F3 2489
5 TraesCS3B01G561000 chr3A 724021435 724024053 2618 True 1793.500000 2464 93.603000 253 2850 2 chr3A.!!$R2 2597
6 TraesCS3B01G561000 chr3A 723659898 723662411 2513 True 1266.500000 1709 84.961000 360 2850 2 chr3A.!!$R1 2490

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
105 108 0.107410 TGCGCCCATTTAGTGTAGGG 60.107 55.0 4.18 0.0 44.37 3.53 F
286 296 0.179134 GCGTCGCACTACCATCTCTT 60.179 55.0 13.44 0.0 0.00 2.85 F
875 926 1.028905 TCAGTTTTTCGCCCCACAAG 58.971 50.0 0.00 0.0 0.00 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1709 2301 1.879380 TGCCAAGAAAATGTCCAGTCG 59.121 47.619 0.00 0.0 0.00 4.18 R
1932 2524 3.188460 TCTCAATAAAAAGGTGCACGCTC 59.812 43.478 11.45 0.0 0.00 5.03 R
2345 2951 0.697658 TTGTCCATGCCTGTCATCCA 59.302 50.000 0.00 0.0 31.79 3.41 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
44 46 6.648310 TGAACAGAAAACAACAGCAAAATCAA 59.352 30.769 0.00 0.00 0.00 2.57
49 51 7.637132 CAGAAAACAACAGCAAAATCAATGAAC 59.363 33.333 0.00 0.00 0.00 3.18
50 52 6.981762 AAACAACAGCAAAATCAATGAACA 57.018 29.167 0.00 0.00 0.00 3.18
94 97 2.669569 GCGATGGTATGCGCCCAT 60.670 61.111 15.45 15.45 46.93 4.00
95 98 2.260869 GCGATGGTATGCGCCCATT 61.261 57.895 16.42 2.72 46.93 3.16
96 99 1.795170 GCGATGGTATGCGCCCATTT 61.795 55.000 16.42 0.00 46.93 2.32
97 100 1.518325 CGATGGTATGCGCCCATTTA 58.482 50.000 16.42 0.00 42.76 1.40
98 101 1.464608 CGATGGTATGCGCCCATTTAG 59.535 52.381 16.42 8.77 42.76 1.85
99 102 2.504367 GATGGTATGCGCCCATTTAGT 58.496 47.619 16.42 0.00 42.76 2.24
100 103 1.674359 TGGTATGCGCCCATTTAGTG 58.326 50.000 4.18 0.00 32.85 2.74
101 104 1.065053 TGGTATGCGCCCATTTAGTGT 60.065 47.619 4.18 0.00 32.85 3.55
102 105 2.170817 TGGTATGCGCCCATTTAGTGTA 59.829 45.455 4.18 0.00 32.85 2.90
103 106 2.806244 GGTATGCGCCCATTTAGTGTAG 59.194 50.000 4.18 0.00 32.85 2.74
104 107 1.967319 ATGCGCCCATTTAGTGTAGG 58.033 50.000 4.18 0.00 0.00 3.18
105 108 0.107410 TGCGCCCATTTAGTGTAGGG 60.107 55.000 4.18 0.00 44.37 3.53
106 109 0.179468 GCGCCCATTTAGTGTAGGGA 59.821 55.000 0.00 0.00 44.30 4.20
107 110 1.202770 GCGCCCATTTAGTGTAGGGAT 60.203 52.381 0.00 0.00 44.30 3.85
108 111 2.494059 CGCCCATTTAGTGTAGGGATG 58.506 52.381 0.00 0.00 44.30 3.51
109 112 2.158813 CGCCCATTTAGTGTAGGGATGT 60.159 50.000 0.00 0.00 44.30 3.06
110 113 3.070446 CGCCCATTTAGTGTAGGGATGTA 59.930 47.826 0.00 0.00 44.30 2.29
111 114 4.443739 CGCCCATTTAGTGTAGGGATGTAA 60.444 45.833 0.00 0.00 44.30 2.41
112 115 5.063880 GCCCATTTAGTGTAGGGATGTAAG 58.936 45.833 0.00 0.00 44.30 2.34
113 116 5.397559 GCCCATTTAGTGTAGGGATGTAAGT 60.398 44.000 0.00 0.00 44.30 2.24
114 117 6.055588 CCCATTTAGTGTAGGGATGTAAGTG 58.944 44.000 0.00 0.00 44.30 3.16
115 118 6.055588 CCATTTAGTGTAGGGATGTAAGTGG 58.944 44.000 0.00 0.00 0.00 4.00
116 119 4.748277 TTAGTGTAGGGATGTAAGTGGC 57.252 45.455 0.00 0.00 0.00 5.01
117 120 2.546899 AGTGTAGGGATGTAAGTGGCA 58.453 47.619 0.00 0.00 0.00 4.92
118 121 2.910319 AGTGTAGGGATGTAAGTGGCAA 59.090 45.455 0.00 0.00 0.00 4.52
119 122 3.329520 AGTGTAGGGATGTAAGTGGCAAA 59.670 43.478 0.00 0.00 0.00 3.68
120 123 4.018415 AGTGTAGGGATGTAAGTGGCAAAT 60.018 41.667 0.00 0.00 0.00 2.32
121 124 5.190925 AGTGTAGGGATGTAAGTGGCAAATA 59.809 40.000 0.00 0.00 0.00 1.40
122 125 5.883673 GTGTAGGGATGTAAGTGGCAAATAA 59.116 40.000 0.00 0.00 0.00 1.40
123 126 6.546034 GTGTAGGGATGTAAGTGGCAAATAAT 59.454 38.462 0.00 0.00 0.00 1.28
124 127 7.068226 GTGTAGGGATGTAAGTGGCAAATAATT 59.932 37.037 0.00 0.00 0.00 1.40
125 128 6.469782 AGGGATGTAAGTGGCAAATAATTG 57.530 37.500 0.00 0.00 39.65 2.32
126 129 5.363580 AGGGATGTAAGTGGCAAATAATTGG 59.636 40.000 0.00 0.00 37.02 3.16
133 136 2.577225 GCAAATAATTGGCGTCCGC 58.423 52.632 2.45 2.45 37.02 5.54
134 137 0.179150 GCAAATAATTGGCGTCCGCA 60.179 50.000 14.19 0.00 44.11 5.69
135 138 1.734047 GCAAATAATTGGCGTCCGCAA 60.734 47.619 14.19 0.00 44.11 4.85
136 139 2.808244 CAAATAATTGGCGTCCGCAAT 58.192 42.857 14.19 8.45 44.11 3.56
137 140 2.774439 AATAATTGGCGTCCGCAATC 57.226 45.000 14.19 0.00 44.11 2.67
138 141 0.951558 ATAATTGGCGTCCGCAATCC 59.048 50.000 14.19 0.00 44.11 3.01
139 142 1.098712 TAATTGGCGTCCGCAATCCC 61.099 55.000 14.19 0.00 44.11 3.85
143 146 3.428282 GCGTCCGCAATCCCGTTT 61.428 61.111 6.82 0.00 41.49 3.60
144 147 2.101835 GCGTCCGCAATCCCGTTTA 61.102 57.895 6.82 0.00 41.49 2.01
145 148 2.003672 CGTCCGCAATCCCGTTTAG 58.996 57.895 0.00 0.00 0.00 1.85
146 149 0.738412 CGTCCGCAATCCCGTTTAGT 60.738 55.000 0.00 0.00 0.00 2.24
147 150 1.445871 GTCCGCAATCCCGTTTAGTT 58.554 50.000 0.00 0.00 0.00 2.24
148 151 2.620242 GTCCGCAATCCCGTTTAGTTA 58.380 47.619 0.00 0.00 0.00 2.24
149 152 2.606272 GTCCGCAATCCCGTTTAGTTAG 59.394 50.000 0.00 0.00 0.00 2.34
150 153 2.234414 TCCGCAATCCCGTTTAGTTAGT 59.766 45.455 0.00 0.00 0.00 2.24
151 154 3.004862 CCGCAATCCCGTTTAGTTAGTT 58.995 45.455 0.00 0.00 0.00 2.24
152 155 3.437741 CCGCAATCCCGTTTAGTTAGTTT 59.562 43.478 0.00 0.00 0.00 2.66
153 156 4.083164 CCGCAATCCCGTTTAGTTAGTTTT 60.083 41.667 0.00 0.00 0.00 2.43
154 157 5.454520 CGCAATCCCGTTTAGTTAGTTTTT 58.545 37.500 0.00 0.00 0.00 1.94
155 158 5.341196 CGCAATCCCGTTTAGTTAGTTTTTG 59.659 40.000 0.00 0.00 0.00 2.44
156 159 5.118050 GCAATCCCGTTTAGTTAGTTTTTGC 59.882 40.000 0.00 0.00 0.00 3.68
157 160 6.443792 CAATCCCGTTTAGTTAGTTTTTGCT 58.556 36.000 0.00 0.00 0.00 3.91
158 161 7.586747 CAATCCCGTTTAGTTAGTTTTTGCTA 58.413 34.615 0.00 0.00 0.00 3.49
159 162 6.790285 TCCCGTTTAGTTAGTTTTTGCTAG 57.210 37.500 0.00 0.00 0.00 3.42
160 163 5.179929 TCCCGTTTAGTTAGTTTTTGCTAGC 59.820 40.000 8.10 8.10 0.00 3.42
161 164 5.180680 CCCGTTTAGTTAGTTTTTGCTAGCT 59.819 40.000 17.23 0.00 36.65 3.32
162 165 6.293790 CCCGTTTAGTTAGTTTTTGCTAGCTT 60.294 38.462 17.23 0.00 34.92 3.74
163 166 6.577427 CCGTTTAGTTAGTTTTTGCTAGCTTG 59.423 38.462 17.23 0.00 34.92 4.01
164 167 7.349711 CGTTTAGTTAGTTTTTGCTAGCTTGA 58.650 34.615 17.23 0.00 34.92 3.02
165 168 8.015658 CGTTTAGTTAGTTTTTGCTAGCTTGAT 58.984 33.333 17.23 0.00 34.92 2.57
166 169 9.118236 GTTTAGTTAGTTTTTGCTAGCTTGATG 57.882 33.333 17.23 0.00 34.92 3.07
167 170 6.259550 AGTTAGTTTTTGCTAGCTTGATGG 57.740 37.500 17.23 0.00 30.04 3.51
168 171 5.770162 AGTTAGTTTTTGCTAGCTTGATGGT 59.230 36.000 17.23 0.00 30.04 3.55
169 172 6.265422 AGTTAGTTTTTGCTAGCTTGATGGTT 59.735 34.615 17.23 0.00 30.04 3.67
170 173 5.126396 AGTTTTTGCTAGCTTGATGGTTC 57.874 39.130 17.23 0.00 0.00 3.62
171 174 4.584325 AGTTTTTGCTAGCTTGATGGTTCA 59.416 37.500 17.23 0.00 0.00 3.18
172 175 5.244626 AGTTTTTGCTAGCTTGATGGTTCAT 59.755 36.000 17.23 0.00 0.00 2.57
173 176 5.726980 TTTTGCTAGCTTGATGGTTCATT 57.273 34.783 17.23 0.00 0.00 2.57
174 177 5.726980 TTTGCTAGCTTGATGGTTCATTT 57.273 34.783 17.23 0.00 0.00 2.32
175 178 5.726980 TTGCTAGCTTGATGGTTCATTTT 57.273 34.783 17.23 0.00 0.00 1.82
176 179 5.314923 TGCTAGCTTGATGGTTCATTTTC 57.685 39.130 17.23 0.00 0.00 2.29
177 180 4.158394 TGCTAGCTTGATGGTTCATTTTCC 59.842 41.667 17.23 0.00 0.00 3.13
178 181 4.400567 GCTAGCTTGATGGTTCATTTTCCT 59.599 41.667 7.70 0.00 0.00 3.36
179 182 5.449725 GCTAGCTTGATGGTTCATTTTCCTC 60.450 44.000 7.70 0.00 0.00 3.71
180 183 4.410099 AGCTTGATGGTTCATTTTCCTCA 58.590 39.130 0.00 0.00 0.00 3.86
181 184 4.834496 AGCTTGATGGTTCATTTTCCTCAA 59.166 37.500 0.00 0.00 0.00 3.02
182 185 5.305128 AGCTTGATGGTTCATTTTCCTCAAA 59.695 36.000 0.00 0.00 0.00 2.69
183 186 5.406477 GCTTGATGGTTCATTTTCCTCAAAC 59.594 40.000 0.00 0.00 0.00 2.93
184 187 6.477053 TTGATGGTTCATTTTCCTCAAACA 57.523 33.333 0.00 0.00 0.00 2.83
185 188 6.477053 TGATGGTTCATTTTCCTCAAACAA 57.523 33.333 0.00 0.00 0.00 2.83
186 189 6.882656 TGATGGTTCATTTTCCTCAAACAAA 58.117 32.000 0.00 0.00 0.00 2.83
187 190 6.760770 TGATGGTTCATTTTCCTCAAACAAAC 59.239 34.615 0.00 0.00 0.00 2.93
188 191 6.042638 TGGTTCATTTTCCTCAAACAAACA 57.957 33.333 0.00 0.00 0.00 2.83
189 192 6.467677 TGGTTCATTTTCCTCAAACAAACAA 58.532 32.000 0.00 0.00 0.00 2.83
190 193 6.936900 TGGTTCATTTTCCTCAAACAAACAAA 59.063 30.769 0.00 0.00 0.00 2.83
191 194 7.445402 TGGTTCATTTTCCTCAAACAAACAAAA 59.555 29.630 0.00 0.00 0.00 2.44
192 195 8.293157 GGTTCATTTTCCTCAAACAAACAAAAA 58.707 29.630 0.00 0.00 0.00 1.94
223 226 8.621532 TTTGAACTATCATATCATAAGTGGGC 57.378 34.615 0.00 0.00 34.96 5.36
224 227 7.559335 TGAACTATCATATCATAAGTGGGCT 57.441 36.000 0.00 0.00 0.00 5.19
225 228 7.977818 TGAACTATCATATCATAAGTGGGCTT 58.022 34.615 0.00 0.00 38.66 4.35
226 229 8.439971 TGAACTATCATATCATAAGTGGGCTTT 58.560 33.333 0.00 0.00 36.22 3.51
227 230 9.944376 GAACTATCATATCATAAGTGGGCTTTA 57.056 33.333 0.00 0.00 36.22 1.85
231 234 7.490962 TCATATCATAAGTGGGCTTTAAACG 57.509 36.000 0.00 0.00 36.22 3.60
232 235 6.485313 TCATATCATAAGTGGGCTTTAAACGG 59.515 38.462 0.00 0.00 36.22 4.44
233 236 3.349022 TCATAAGTGGGCTTTAAACGGG 58.651 45.455 0.00 0.00 36.22 5.28
234 237 3.009253 TCATAAGTGGGCTTTAAACGGGA 59.991 43.478 0.00 0.00 36.22 5.14
235 238 1.612676 AAGTGGGCTTTAAACGGGAC 58.387 50.000 0.00 0.00 0.00 4.46
236 239 0.251033 AGTGGGCTTTAAACGGGACC 60.251 55.000 0.00 0.00 0.00 4.46
237 240 1.075305 TGGGCTTTAAACGGGACCC 59.925 57.895 0.00 0.00 37.88 4.46
247 250 2.125269 CGGGACCCGGTTGACATC 60.125 66.667 26.15 0.00 44.15 3.06
248 251 2.271173 GGGACCCGGTTGACATCC 59.729 66.667 0.00 0.00 0.00 3.51
249 252 2.271173 GGACCCGGTTGACATCCC 59.729 66.667 0.00 0.00 0.00 3.85
250 253 2.298661 GGACCCGGTTGACATCCCT 61.299 63.158 0.00 0.00 0.00 4.20
251 254 0.979187 GGACCCGGTTGACATCCCTA 60.979 60.000 0.00 0.00 0.00 3.53
273 276 1.906994 TTAGTGGCATGTTGCGTCGC 61.907 55.000 11.10 11.10 46.21 5.19
286 296 0.179134 GCGTCGCACTACCATCTCTT 60.179 55.000 13.44 0.00 0.00 2.85
297 307 5.178252 CACTACCATCTCTTTCACACACAAG 59.822 44.000 0.00 0.00 0.00 3.16
573 602 2.874014 TGTGTTGGCTCAATGATCCAA 58.126 42.857 13.89 13.89 35.78 3.53
875 926 1.028905 TCAGTTTTTCGCCCCACAAG 58.971 50.000 0.00 0.00 0.00 3.16
983 1034 5.373222 ACACATAGTAGTCCAAGTGCAAAA 58.627 37.500 0.00 0.00 0.00 2.44
1760 2352 4.450419 GCAATCAAAGAGGATATGAGGACG 59.550 45.833 0.00 0.00 0.00 4.79
1983 2575 7.270047 AGCTGTTATGAATAATTTGCTTGCAT 58.730 30.769 0.00 0.00 0.00 3.96
2232 2833 2.123428 GCAGAGGCGATGGGCAAAT 61.123 57.895 3.67 0.00 46.16 2.32
2262 2863 9.004717 TCTAACTCATATCATACTAGAGCACAC 57.995 37.037 0.00 0.00 0.00 3.82
2290 2891 7.275183 TGCTCAACTATGTTGCTAGAACATAT 58.725 34.615 19.29 9.73 40.91 1.78
2345 2951 5.043356 AGGCCCCTACCTTTTCATTAGAAAT 60.043 40.000 0.00 0.00 42.90 2.17
2362 2968 2.062971 AATGGATGACAGGCATGGAC 57.937 50.000 2.31 0.00 37.34 4.02
2425 3031 8.522542 AAGAGTATAGAACTACAAAGACGGAT 57.477 34.615 0.00 0.00 39.07 4.18
2590 3203 7.070074 CCATAGAGTCCAGGAAATAGTTGTAGT 59.930 40.741 0.00 0.00 0.00 2.73
2592 3205 6.257586 AGAGTCCAGGAAATAGTTGTAGTCT 58.742 40.000 0.00 0.00 0.00 3.24
2621 3235 6.344500 AGTTCAAGATCTTCGCTTCATATGT 58.656 36.000 4.57 0.00 0.00 2.29
2648 3262 3.624326 TGCATGCTACACAAACTGAAC 57.376 42.857 20.33 0.00 0.00 3.18
2670 3284 2.671070 CAACCAGCTCCCCATCGT 59.329 61.111 0.00 0.00 0.00 3.73
2700 3317 2.024414 GGACGCCTAGCAAATTCCAAT 58.976 47.619 0.00 0.00 0.00 3.16
2755 3375 2.094752 GTGTGGTTGTTTCACTTGCAGT 60.095 45.455 0.00 0.00 36.21 4.40
2757 3377 2.094752 GTGGTTGTTTCACTTGCAGTGT 60.095 45.455 13.59 2.96 46.03 3.55
2776 3396 2.906389 TGTAGCCAAGAGGAGACATGTT 59.094 45.455 0.00 0.00 36.89 2.71
2783 3409 3.127791 AGAGGAGACATGTTGGGATCT 57.872 47.619 0.00 0.00 0.00 2.75
2798 3424 7.377398 TGTTGGGATCTATGATGTTTTGTTTG 58.623 34.615 0.00 0.00 0.00 2.93
2808 3434 5.971763 TGATGTTTTGTTTGTTTAGCAGGT 58.028 33.333 0.00 0.00 0.00 4.00
2809 3435 7.101652 TGATGTTTTGTTTGTTTAGCAGGTA 57.898 32.000 0.00 0.00 0.00 3.08
2850 3477 6.096673 TCTTTGCTTGACACTCATAGTACA 57.903 37.500 0.00 0.00 0.00 2.90
2851 3478 6.701340 TCTTTGCTTGACACTCATAGTACAT 58.299 36.000 0.00 0.00 0.00 2.29
2852 3479 7.836842 TCTTTGCTTGACACTCATAGTACATA 58.163 34.615 0.00 0.00 0.00 2.29
2853 3480 7.759886 TCTTTGCTTGACACTCATAGTACATAC 59.240 37.037 0.00 0.00 0.00 2.39
2854 3481 6.524101 TGCTTGACACTCATAGTACATACA 57.476 37.500 0.00 0.00 0.00 2.29
2855 3482 7.112452 TGCTTGACACTCATAGTACATACAT 57.888 36.000 0.00 0.00 0.00 2.29
2856 3483 8.232913 TGCTTGACACTCATAGTACATACATA 57.767 34.615 0.00 0.00 0.00 2.29
2857 3484 8.135529 TGCTTGACACTCATAGTACATACATAC 58.864 37.037 0.00 0.00 0.00 2.39
2858 3485 8.135529 GCTTGACACTCATAGTACATACATACA 58.864 37.037 0.00 0.00 0.00 2.29
2909 3536 7.971455 ACTAATAAACTAAGATGTGTTTCGCC 58.029 34.615 0.00 0.00 37.53 5.54
2910 3537 6.811253 AATAAACTAAGATGTGTTTCGCCA 57.189 33.333 0.00 0.00 37.53 5.69
2911 3538 6.811253 ATAAACTAAGATGTGTTTCGCCAA 57.189 33.333 0.00 0.00 37.53 4.52
2912 3539 5.508200 AAACTAAGATGTGTTTCGCCAAA 57.492 34.783 0.00 0.00 31.65 3.28
2913 3540 5.705609 AACTAAGATGTGTTTCGCCAAAT 57.294 34.783 0.00 0.00 0.00 2.32
2914 3541 5.705609 ACTAAGATGTGTTTCGCCAAATT 57.294 34.783 0.00 0.00 0.00 1.82
2915 3542 6.084326 ACTAAGATGTGTTTCGCCAAATTT 57.916 33.333 0.00 0.00 0.00 1.82
2916 3543 6.512297 ACTAAGATGTGTTTCGCCAAATTTT 58.488 32.000 0.00 0.00 0.00 1.82
2917 3544 6.983890 ACTAAGATGTGTTTCGCCAAATTTTT 59.016 30.769 0.00 0.00 0.00 1.94
2918 3545 5.905480 AGATGTGTTTCGCCAAATTTTTC 57.095 34.783 0.00 0.00 0.00 2.29
2919 3546 5.355596 AGATGTGTTTCGCCAAATTTTTCA 58.644 33.333 0.00 0.00 0.00 2.69
2920 3547 5.990996 AGATGTGTTTCGCCAAATTTTTCAT 59.009 32.000 0.00 0.00 0.00 2.57
2921 3548 5.649602 TGTGTTTCGCCAAATTTTTCATC 57.350 34.783 0.00 0.00 0.00 2.92
2922 3549 4.509600 TGTGTTTCGCCAAATTTTTCATCC 59.490 37.500 0.00 0.00 0.00 3.51
2923 3550 3.738282 TGTTTCGCCAAATTTTTCATCCG 59.262 39.130 0.00 0.00 0.00 4.18
2924 3551 3.651803 TTCGCCAAATTTTTCATCCGT 57.348 38.095 0.00 0.00 0.00 4.69
2925 3552 3.651803 TCGCCAAATTTTTCATCCGTT 57.348 38.095 0.00 0.00 0.00 4.44
2926 3553 3.570559 TCGCCAAATTTTTCATCCGTTC 58.429 40.909 0.00 0.00 0.00 3.95
2927 3554 3.004839 TCGCCAAATTTTTCATCCGTTCA 59.995 39.130 0.00 0.00 0.00 3.18
2928 3555 3.925913 CGCCAAATTTTTCATCCGTTCAT 59.074 39.130 0.00 0.00 0.00 2.57
2929 3556 4.388469 CGCCAAATTTTTCATCCGTTCATT 59.612 37.500 0.00 0.00 0.00 2.57
2930 3557 5.620467 GCCAAATTTTTCATCCGTTCATTG 58.380 37.500 0.00 0.00 0.00 2.82
2931 3558 5.179182 GCCAAATTTTTCATCCGTTCATTGT 59.821 36.000 0.00 0.00 0.00 2.71
2932 3559 6.618379 GCCAAATTTTTCATCCGTTCATTGTC 60.618 38.462 0.00 0.00 0.00 3.18
2933 3560 6.399880 CCAAATTTTTCATCCGTTCATTGTCG 60.400 38.462 0.00 0.00 0.00 4.35
2934 3561 5.621197 ATTTTTCATCCGTTCATTGTCGA 57.379 34.783 5.82 0.00 0.00 4.20
2935 3562 5.425577 TTTTTCATCCGTTCATTGTCGAA 57.574 34.783 0.00 0.00 0.00 3.71
2936 3563 5.425577 TTTTCATCCGTTCATTGTCGAAA 57.574 34.783 0.00 0.00 0.00 3.46
2937 3564 5.425577 TTTCATCCGTTCATTGTCGAAAA 57.574 34.783 0.00 0.00 0.00 2.29
2938 3565 5.621197 TTCATCCGTTCATTGTCGAAAAT 57.379 34.783 0.00 0.00 0.00 1.82
2939 3566 6.729391 TTCATCCGTTCATTGTCGAAAATA 57.271 33.333 0.00 0.00 0.00 1.40
2940 3567 6.918892 TCATCCGTTCATTGTCGAAAATAT 57.081 33.333 0.00 0.00 0.00 1.28
2941 3568 7.315247 TCATCCGTTCATTGTCGAAAATATT 57.685 32.000 0.00 0.00 0.00 1.28
2942 3569 7.757526 TCATCCGTTCATTGTCGAAAATATTT 58.242 30.769 0.00 0.00 0.00 1.40
2943 3570 8.240682 TCATCCGTTCATTGTCGAAAATATTTT 58.759 29.630 13.24 13.24 0.00 1.82
2944 3571 8.859156 CATCCGTTCATTGTCGAAAATATTTTT 58.141 29.630 14.45 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 46 2.270352 TCGCTTTGGGACTTGTTCAT 57.730 45.000 0.00 0.00 0.00 2.57
49 51 1.002468 CACAGTTCGCTTTGGGACTTG 60.002 52.381 0.00 0.00 0.00 3.16
50 52 1.308998 CACAGTTCGCTTTGGGACTT 58.691 50.000 0.00 0.00 0.00 3.01
93 96 5.190925 TGCCACTTACATCCCTACACTAAAT 59.809 40.000 0.00 0.00 0.00 1.40
94 97 4.532916 TGCCACTTACATCCCTACACTAAA 59.467 41.667 0.00 0.00 0.00 1.85
95 98 4.098155 TGCCACTTACATCCCTACACTAA 58.902 43.478 0.00 0.00 0.00 2.24
96 99 3.715287 TGCCACTTACATCCCTACACTA 58.285 45.455 0.00 0.00 0.00 2.74
97 100 2.546899 TGCCACTTACATCCCTACACT 58.453 47.619 0.00 0.00 0.00 3.55
98 101 3.343941 TTGCCACTTACATCCCTACAC 57.656 47.619 0.00 0.00 0.00 2.90
99 102 4.584638 ATTTGCCACTTACATCCCTACA 57.415 40.909 0.00 0.00 0.00 2.74
100 103 7.425606 CAATTATTTGCCACTTACATCCCTAC 58.574 38.462 0.00 0.00 0.00 3.18
101 104 6.549364 CCAATTATTTGCCACTTACATCCCTA 59.451 38.462 0.00 0.00 0.00 3.53
102 105 5.363580 CCAATTATTTGCCACTTACATCCCT 59.636 40.000 0.00 0.00 0.00 4.20
103 106 5.600696 CCAATTATTTGCCACTTACATCCC 58.399 41.667 0.00 0.00 0.00 3.85
104 107 5.049828 GCCAATTATTTGCCACTTACATCC 58.950 41.667 0.00 0.00 0.00 3.51
105 108 4.739716 CGCCAATTATTTGCCACTTACATC 59.260 41.667 0.00 0.00 0.00 3.06
106 109 4.159506 ACGCCAATTATTTGCCACTTACAT 59.840 37.500 0.00 0.00 0.00 2.29
107 110 3.508012 ACGCCAATTATTTGCCACTTACA 59.492 39.130 0.00 0.00 0.00 2.41
108 111 4.102649 GACGCCAATTATTTGCCACTTAC 58.897 43.478 0.00 0.00 0.00 2.34
109 112 3.129638 GGACGCCAATTATTTGCCACTTA 59.870 43.478 0.00 0.00 0.00 2.24
110 113 2.094234 GGACGCCAATTATTTGCCACTT 60.094 45.455 0.00 0.00 0.00 3.16
111 114 1.476488 GGACGCCAATTATTTGCCACT 59.524 47.619 0.00 0.00 0.00 4.00
112 115 1.797348 CGGACGCCAATTATTTGCCAC 60.797 52.381 0.00 0.00 0.00 5.01
113 116 0.453793 CGGACGCCAATTATTTGCCA 59.546 50.000 0.00 0.00 0.00 4.92
114 117 0.869880 GCGGACGCCAATTATTTGCC 60.870 55.000 5.20 0.00 34.56 4.52
115 118 0.179150 TGCGGACGCCAATTATTTGC 60.179 50.000 14.61 0.00 41.09 3.68
116 119 2.270275 TTGCGGACGCCAATTATTTG 57.730 45.000 14.61 0.00 41.09 2.32
117 120 2.223711 GGATTGCGGACGCCAATTATTT 60.224 45.455 14.61 0.00 41.09 1.40
118 121 1.336755 GGATTGCGGACGCCAATTATT 59.663 47.619 14.61 0.00 41.09 1.40
119 122 0.951558 GGATTGCGGACGCCAATTAT 59.048 50.000 14.61 0.18 41.09 1.28
120 123 1.098712 GGGATTGCGGACGCCAATTA 61.099 55.000 14.61 0.00 41.09 1.40
121 124 2.414785 GGGATTGCGGACGCCAATT 61.415 57.895 14.61 0.00 41.09 2.32
122 125 2.828549 GGGATTGCGGACGCCAAT 60.829 61.111 14.61 13.00 41.09 3.16
126 129 2.032185 CTAAACGGGATTGCGGACGC 62.032 60.000 10.13 10.13 42.35 5.19
127 130 0.738412 ACTAAACGGGATTGCGGACG 60.738 55.000 0.00 0.00 0.00 4.79
128 131 1.445871 AACTAAACGGGATTGCGGAC 58.554 50.000 0.00 0.00 0.00 4.79
129 132 2.234414 ACTAACTAAACGGGATTGCGGA 59.766 45.455 0.00 0.00 0.00 5.54
130 133 2.624636 ACTAACTAAACGGGATTGCGG 58.375 47.619 0.00 0.00 0.00 5.69
131 134 4.673534 AAACTAACTAAACGGGATTGCG 57.326 40.909 0.00 0.00 0.00 4.85
132 135 5.118050 GCAAAAACTAACTAAACGGGATTGC 59.882 40.000 0.00 0.00 0.00 3.56
133 136 6.443792 AGCAAAAACTAACTAAACGGGATTG 58.556 36.000 0.00 0.00 0.00 2.67
134 137 6.644248 AGCAAAAACTAACTAAACGGGATT 57.356 33.333 0.00 0.00 0.00 3.01
135 138 6.128090 GCTAGCAAAAACTAACTAAACGGGAT 60.128 38.462 10.63 0.00 0.00 3.85
136 139 5.179929 GCTAGCAAAAACTAACTAAACGGGA 59.820 40.000 10.63 0.00 0.00 5.14
137 140 5.180680 AGCTAGCAAAAACTAACTAAACGGG 59.819 40.000 18.83 0.00 0.00 5.28
138 141 6.237313 AGCTAGCAAAAACTAACTAAACGG 57.763 37.500 18.83 0.00 0.00 4.44
139 142 7.349711 TCAAGCTAGCAAAAACTAACTAAACG 58.650 34.615 18.83 0.00 0.00 3.60
140 143 9.118236 CATCAAGCTAGCAAAAACTAACTAAAC 57.882 33.333 18.83 0.00 0.00 2.01
141 144 8.296713 CCATCAAGCTAGCAAAAACTAACTAAA 58.703 33.333 18.83 0.00 0.00 1.85
142 145 7.447238 ACCATCAAGCTAGCAAAAACTAACTAA 59.553 33.333 18.83 0.00 0.00 2.24
143 146 6.940298 ACCATCAAGCTAGCAAAAACTAACTA 59.060 34.615 18.83 0.00 0.00 2.24
144 147 5.770162 ACCATCAAGCTAGCAAAAACTAACT 59.230 36.000 18.83 0.00 0.00 2.24
145 148 6.013842 ACCATCAAGCTAGCAAAAACTAAC 57.986 37.500 18.83 0.00 0.00 2.34
146 149 6.264292 TGAACCATCAAGCTAGCAAAAACTAA 59.736 34.615 18.83 0.00 30.99 2.24
147 150 5.767665 TGAACCATCAAGCTAGCAAAAACTA 59.232 36.000 18.83 0.00 30.99 2.24
148 151 4.584325 TGAACCATCAAGCTAGCAAAAACT 59.416 37.500 18.83 0.00 30.99 2.66
149 152 4.870363 TGAACCATCAAGCTAGCAAAAAC 58.130 39.130 18.83 0.00 30.99 2.43
150 153 5.726980 ATGAACCATCAAGCTAGCAAAAA 57.273 34.783 18.83 0.00 39.49 1.94
151 154 5.726980 AATGAACCATCAAGCTAGCAAAA 57.273 34.783 18.83 1.00 39.49 2.44
152 155 5.726980 AAATGAACCATCAAGCTAGCAAA 57.273 34.783 18.83 1.41 39.49 3.68
153 156 5.336690 GGAAAATGAACCATCAAGCTAGCAA 60.337 40.000 18.83 1.82 39.49 3.91
154 157 4.158394 GGAAAATGAACCATCAAGCTAGCA 59.842 41.667 18.83 0.00 39.49 3.49
155 158 4.400567 AGGAAAATGAACCATCAAGCTAGC 59.599 41.667 6.62 6.62 39.49 3.42
156 159 5.649395 TGAGGAAAATGAACCATCAAGCTAG 59.351 40.000 0.00 0.00 39.49 3.42
157 160 5.569355 TGAGGAAAATGAACCATCAAGCTA 58.431 37.500 0.00 0.00 39.49 3.32
158 161 4.410099 TGAGGAAAATGAACCATCAAGCT 58.590 39.130 0.00 0.00 39.49 3.74
159 162 4.789012 TGAGGAAAATGAACCATCAAGC 57.211 40.909 0.00 0.00 39.49 4.01
160 163 6.514947 TGTTTGAGGAAAATGAACCATCAAG 58.485 36.000 0.00 0.00 39.49 3.02
161 164 6.477053 TGTTTGAGGAAAATGAACCATCAA 57.523 33.333 0.00 0.00 39.49 2.57
162 165 6.477053 TTGTTTGAGGAAAATGAACCATCA 57.523 33.333 0.00 0.00 40.57 3.07
163 166 6.760770 TGTTTGTTTGAGGAAAATGAACCATC 59.239 34.615 0.00 0.00 30.44 3.51
164 167 6.648192 TGTTTGTTTGAGGAAAATGAACCAT 58.352 32.000 0.00 0.00 30.44 3.55
165 168 6.042638 TGTTTGTTTGAGGAAAATGAACCA 57.957 33.333 0.00 0.00 30.44 3.67
166 169 6.976636 TTGTTTGTTTGAGGAAAATGAACC 57.023 33.333 0.00 0.00 30.44 3.62
197 200 9.066892 GCCCACTTATGATATGATAGTTCAAAA 57.933 33.333 0.00 0.00 34.96 2.44
198 201 8.439971 AGCCCACTTATGATATGATAGTTCAAA 58.560 33.333 0.00 0.00 34.96 2.69
199 202 7.977818 AGCCCACTTATGATATGATAGTTCAA 58.022 34.615 0.00 0.00 34.96 2.69
200 203 7.559335 AGCCCACTTATGATATGATAGTTCA 57.441 36.000 0.00 0.00 36.00 3.18
201 204 8.854614 AAAGCCCACTTATGATATGATAGTTC 57.145 34.615 0.00 0.00 34.05 3.01
205 208 9.214957 CGTTTAAAGCCCACTTATGATATGATA 57.785 33.333 0.00 0.00 34.05 2.15
206 209 7.174946 CCGTTTAAAGCCCACTTATGATATGAT 59.825 37.037 0.00 0.00 34.05 2.45
207 210 6.485313 CCGTTTAAAGCCCACTTATGATATGA 59.515 38.462 0.00 0.00 34.05 2.15
208 211 6.293955 CCCGTTTAAAGCCCACTTATGATATG 60.294 42.308 0.00 0.00 34.05 1.78
209 212 5.768164 CCCGTTTAAAGCCCACTTATGATAT 59.232 40.000 0.00 0.00 34.05 1.63
210 213 5.104444 TCCCGTTTAAAGCCCACTTATGATA 60.104 40.000 0.00 0.00 34.05 2.15
211 214 3.951680 CCCGTTTAAAGCCCACTTATGAT 59.048 43.478 0.00 0.00 34.05 2.45
212 215 3.009253 TCCCGTTTAAAGCCCACTTATGA 59.991 43.478 0.00 0.00 34.05 2.15
213 216 3.128068 GTCCCGTTTAAAGCCCACTTATG 59.872 47.826 0.00 0.00 34.05 1.90
214 217 3.349927 GTCCCGTTTAAAGCCCACTTAT 58.650 45.455 0.00 0.00 34.05 1.73
215 218 2.552809 GGTCCCGTTTAAAGCCCACTTA 60.553 50.000 0.00 0.00 34.05 2.24
216 219 1.612676 GTCCCGTTTAAAGCCCACTT 58.387 50.000 0.00 0.00 37.90 3.16
217 220 0.251033 GGTCCCGTTTAAAGCCCACT 60.251 55.000 0.00 0.00 0.00 4.00
218 221 1.246056 GGGTCCCGTTTAAAGCCCAC 61.246 60.000 0.00 0.00 36.25 4.61
219 222 1.075305 GGGTCCCGTTTAAAGCCCA 59.925 57.895 0.00 0.00 36.25 5.36
220 223 2.042259 CGGGTCCCGTTTAAAGCCC 61.042 63.158 23.02 0.00 42.73 5.19
221 224 2.042259 CCGGGTCCCGTTTAAAGCC 61.042 63.158 28.39 0.00 46.80 4.35
222 225 0.890542 AACCGGGTCCCGTTTAAAGC 60.891 55.000 28.39 0.00 46.80 3.51
223 226 0.876399 CAACCGGGTCCCGTTTAAAG 59.124 55.000 28.39 14.47 46.80 1.85
224 227 0.471617 TCAACCGGGTCCCGTTTAAA 59.528 50.000 28.39 9.95 46.80 1.52
225 228 0.250252 GTCAACCGGGTCCCGTTTAA 60.250 55.000 28.39 4.04 46.80 1.52
226 229 1.370810 GTCAACCGGGTCCCGTTTA 59.629 57.895 28.39 11.67 46.80 2.01
227 230 2.059345 ATGTCAACCGGGTCCCGTTT 62.059 55.000 28.39 18.95 46.80 3.60
228 231 2.459202 GATGTCAACCGGGTCCCGTT 62.459 60.000 28.39 18.91 46.80 4.44
229 232 2.926242 ATGTCAACCGGGTCCCGT 60.926 61.111 28.39 14.06 46.80 5.28
231 234 2.271173 GGATGTCAACCGGGTCCC 59.729 66.667 6.32 0.00 0.00 4.46
232 235 0.979187 TAGGGATGTCAACCGGGTCC 60.979 60.000 6.32 0.00 0.00 4.46
233 236 0.906775 TTAGGGATGTCAACCGGGTC 59.093 55.000 6.32 0.00 0.00 4.46
234 237 1.591768 ATTAGGGATGTCAACCGGGT 58.408 50.000 6.32 0.00 0.00 5.28
235 238 2.729028 AATTAGGGATGTCAACCGGG 57.271 50.000 6.32 0.00 0.00 5.73
236 239 4.574828 CACTAAATTAGGGATGTCAACCGG 59.425 45.833 0.00 0.00 0.00 5.28
237 240 4.574828 CCACTAAATTAGGGATGTCAACCG 59.425 45.833 3.42 0.00 0.00 4.44
238 241 4.338400 GCCACTAAATTAGGGATGTCAACC 59.662 45.833 3.42 0.00 0.00 3.77
239 242 4.947388 TGCCACTAAATTAGGGATGTCAAC 59.053 41.667 3.42 0.00 0.00 3.18
240 243 5.186256 TGCCACTAAATTAGGGATGTCAA 57.814 39.130 3.42 0.00 0.00 3.18
241 244 4.853468 TGCCACTAAATTAGGGATGTCA 57.147 40.909 3.42 0.00 0.00 3.58
242 245 5.695851 CATGCCACTAAATTAGGGATGTC 57.304 43.478 3.42 0.00 43.65 3.06
245 248 4.342092 GCAACATGCCACTAAATTAGGGAT 59.658 41.667 3.42 0.00 37.42 3.85
246 249 3.699038 GCAACATGCCACTAAATTAGGGA 59.301 43.478 3.42 0.00 37.42 4.20
247 250 3.489059 CGCAACATGCCACTAAATTAGGG 60.489 47.826 4.92 0.00 41.12 3.53
248 251 3.128589 ACGCAACATGCCACTAAATTAGG 59.871 43.478 4.92 0.00 41.12 2.69
249 252 4.342772 GACGCAACATGCCACTAAATTAG 58.657 43.478 0.00 0.00 41.12 1.73
250 253 3.181515 CGACGCAACATGCCACTAAATTA 60.182 43.478 0.00 0.00 41.12 1.40
251 254 2.414029 CGACGCAACATGCCACTAAATT 60.414 45.455 0.00 0.00 41.12 1.82
273 276 4.631131 TGTGTGTGAAAGAGATGGTAGTG 58.369 43.478 0.00 0.00 0.00 2.74
286 296 1.155889 CTATGCGCCTTGTGTGTGAA 58.844 50.000 4.18 0.00 0.00 3.18
297 307 3.963665 TGATTTTTACATGCTATGCGCC 58.036 40.909 4.18 0.00 38.05 6.53
573 602 2.731572 CAGGAAGATGAATGGCTTGGT 58.268 47.619 0.00 0.00 0.00 3.67
710 761 5.122519 TCTAGGAATACATTTCATGCGCAA 58.877 37.500 17.11 0.00 0.00 4.85
875 926 2.315901 GCACATAGTTTGTTGCGGAAC 58.684 47.619 13.47 13.47 36.00 3.62
946 997 8.118976 ACTACTATGTGTTGTGCTTAGTAAGA 57.881 34.615 14.27 0.00 33.63 2.10
983 1034 5.528320 CCCTTCATTGCAAAAACAAAGATGT 59.472 36.000 1.71 0.00 43.14 3.06
1393 1982 4.836175 TGGTATGATGACCGCCTTATCTAA 59.164 41.667 0.00 0.00 42.99 2.10
1709 2301 1.879380 TGCCAAGAAAATGTCCAGTCG 59.121 47.619 0.00 0.00 0.00 4.18
1760 2352 9.935241 TCAATAATATCTCTAGTTGGAATGCTC 57.065 33.333 0.00 0.00 0.00 4.26
1932 2524 3.188460 TCTCAATAAAAAGGTGCACGCTC 59.812 43.478 11.45 0.00 0.00 5.03
2262 2863 6.128200 TGTTCTAGCAACATAGTTGAGCATTG 60.128 38.462 13.58 0.00 32.45 2.82
2290 2891 8.248253 TCGTGAAGTTGCTGAAAGAATACTATA 58.752 33.333 0.00 0.00 34.07 1.31
2345 2951 0.697658 TTGTCCATGCCTGTCATCCA 59.302 50.000 0.00 0.00 31.79 3.41
2425 3031 6.503560 TTTTCTTTTGTCTCCTACCCTGTA 57.496 37.500 0.00 0.00 0.00 2.74
2525 3134 2.313317 CACCTATCATGGCTGCCAAAT 58.687 47.619 27.24 22.67 36.95 2.32
2590 3203 3.997021 GCGAAGATCTTGAACTTTGGAGA 59.003 43.478 14.00 0.00 0.00 3.71
2592 3205 4.008074 AGCGAAGATCTTGAACTTTGGA 57.992 40.909 14.00 0.00 0.00 3.53
2700 3317 1.868713 TGCAATAGGACGAGGGGTAA 58.131 50.000 0.00 0.00 0.00 2.85
2755 3375 2.540383 ACATGTCTCCTCTTGGCTACA 58.460 47.619 0.00 0.00 34.05 2.74
2757 3377 2.237143 CCAACATGTCTCCTCTTGGCTA 59.763 50.000 0.00 0.00 0.00 3.93
2776 3396 7.537596 AACAAACAAAACATCATAGATCCCA 57.462 32.000 0.00 0.00 0.00 4.37
2783 3409 7.721402 ACCTGCTAAACAAACAAAACATCATA 58.279 30.769 0.00 0.00 0.00 2.15
2798 3424 5.070580 AGTGAGTGGGATATACCTGCTAAAC 59.929 44.000 5.33 6.06 38.98 2.01
2808 3434 8.494433 AGCAAAGATAAAAGTGAGTGGGATATA 58.506 33.333 0.00 0.00 0.00 0.86
2809 3435 7.349598 AGCAAAGATAAAAGTGAGTGGGATAT 58.650 34.615 0.00 0.00 0.00 1.63
2883 3510 9.090692 GGCGAAACACATCTTAGTTTATTAGTA 57.909 33.333 0.00 0.00 38.01 1.82
2884 3511 7.604927 TGGCGAAACACATCTTAGTTTATTAGT 59.395 33.333 0.00 0.00 38.01 2.24
2885 3512 7.970384 TGGCGAAACACATCTTAGTTTATTAG 58.030 34.615 0.00 0.00 38.01 1.73
2886 3513 7.908827 TGGCGAAACACATCTTAGTTTATTA 57.091 32.000 0.00 0.00 38.01 0.98
2887 3514 6.811253 TGGCGAAACACATCTTAGTTTATT 57.189 33.333 0.00 0.00 38.01 1.40
2888 3515 6.811253 TTGGCGAAACACATCTTAGTTTAT 57.189 33.333 0.00 0.00 38.01 1.40
2889 3516 6.621316 TTTGGCGAAACACATCTTAGTTTA 57.379 33.333 0.00 0.00 38.01 2.01
2890 3517 5.508200 TTTGGCGAAACACATCTTAGTTT 57.492 34.783 0.00 0.00 40.38 2.66
2891 3518 5.705609 ATTTGGCGAAACACATCTTAGTT 57.294 34.783 0.00 0.00 0.00 2.24
2892 3519 5.705609 AATTTGGCGAAACACATCTTAGT 57.294 34.783 0.00 0.00 0.00 2.24
2893 3520 7.168972 TGAAAAATTTGGCGAAACACATCTTAG 59.831 33.333 0.00 0.00 0.00 2.18
2894 3521 6.980978 TGAAAAATTTGGCGAAACACATCTTA 59.019 30.769 0.00 0.00 0.00 2.10
2895 3522 5.814705 TGAAAAATTTGGCGAAACACATCTT 59.185 32.000 0.00 0.00 0.00 2.40
2896 3523 5.355596 TGAAAAATTTGGCGAAACACATCT 58.644 33.333 0.00 0.00 0.00 2.90
2897 3524 5.649602 TGAAAAATTTGGCGAAACACATC 57.350 34.783 0.00 0.00 0.00 3.06
2898 3525 5.179182 GGATGAAAAATTTGGCGAAACACAT 59.821 36.000 0.00 0.00 0.00 3.21
2899 3526 4.509600 GGATGAAAAATTTGGCGAAACACA 59.490 37.500 0.00 0.00 0.00 3.72
2900 3527 4.375908 CGGATGAAAAATTTGGCGAAACAC 60.376 41.667 0.00 0.00 0.00 3.32
2901 3528 3.738282 CGGATGAAAAATTTGGCGAAACA 59.262 39.130 0.00 0.00 0.00 2.83
2902 3529 3.738791 ACGGATGAAAAATTTGGCGAAAC 59.261 39.130 0.00 0.00 0.00 2.78
2903 3530 3.983741 ACGGATGAAAAATTTGGCGAAA 58.016 36.364 0.00 0.00 0.00 3.46
2904 3531 3.651803 ACGGATGAAAAATTTGGCGAA 57.348 38.095 0.00 0.00 0.00 4.70
2905 3532 3.004839 TGAACGGATGAAAAATTTGGCGA 59.995 39.130 0.00 0.00 0.00 5.54
2906 3533 3.312828 TGAACGGATGAAAAATTTGGCG 58.687 40.909 0.00 0.00 0.00 5.69
2907 3534 5.179182 ACAATGAACGGATGAAAAATTTGGC 59.821 36.000 0.00 0.00 0.00 4.52
2908 3535 6.399880 CGACAATGAACGGATGAAAAATTTGG 60.400 38.462 0.00 0.00 0.00 3.28
2909 3536 6.362016 TCGACAATGAACGGATGAAAAATTTG 59.638 34.615 0.00 0.00 0.00 2.32
2910 3537 6.442952 TCGACAATGAACGGATGAAAAATTT 58.557 32.000 0.00 0.00 0.00 1.82
2911 3538 6.007936 TCGACAATGAACGGATGAAAAATT 57.992 33.333 0.00 0.00 0.00 1.82
2912 3539 5.621197 TCGACAATGAACGGATGAAAAAT 57.379 34.783 0.00 0.00 0.00 1.82
2913 3540 5.425577 TTCGACAATGAACGGATGAAAAA 57.574 34.783 0.00 0.00 0.00 1.94
2914 3541 5.425577 TTTCGACAATGAACGGATGAAAA 57.574 34.783 0.00 0.00 0.00 2.29
2915 3542 5.425577 TTTTCGACAATGAACGGATGAAA 57.574 34.783 0.00 0.00 0.00 2.69
2916 3543 5.621197 ATTTTCGACAATGAACGGATGAA 57.379 34.783 0.00 0.00 0.00 2.57
2917 3544 6.918892 ATATTTTCGACAATGAACGGATGA 57.081 33.333 7.06 0.00 0.00 2.92
2918 3545 7.969387 AAATATTTTCGACAATGAACGGATG 57.031 32.000 7.06 0.00 0.00 3.51
2919 3546 8.980143 AAAAATATTTTCGACAATGAACGGAT 57.020 26.923 13.68 0.00 0.00 4.18


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

AutoCloner maintained by Alex Coulton.