Multiple sequence alignment - TraesCS6D01G178100

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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 TraesCS6D01G178100 chr6D 100.000 3617 0 0 1 3617 183956118 183952502 0.000000e+00 6680
1 TraesCS6D01G178100 chr6D 97.647 340 8 0 1 340 184813809 184814148 5.200000e-163 584
2 TraesCS6D01G178100 chr6D 93.824 340 21 0 1 340 165457096 165457435 2.490000e-141 512
3 TraesCS6D01G178100 chr6D 97.512 201 4 1 339 539 183950960 183951159 3.460000e-90 342
4 TraesCS6D01G178100 chr7D 96.609 2536 63 9 335 2869 229797938 229795425 0.000000e+00 4185
5 TraesCS6D01G178100 chr7D 98.670 752 10 0 2866 3617 229794917 229794166 0.000000e+00 1334
6 TraesCS6D01G178100 chr7D 84.972 1251 185 3 1620 2869 618664680 618663432 0.000000e+00 1266
7 TraesCS6D01G178100 chr7D 94.972 179 8 1 341 519 229792449 229792626 2.750000e-71 279
8 TraesCS6D01G178100 chr1D 96.447 2533 66 10 338 2869 16381892 16384401 0.000000e+00 4157
9 TraesCS6D01G178100 chr1D 98.404 752 12 0 2866 3617 16384909 16385660 0.000000e+00 1323
10 TraesCS6D01G178100 chr4A 96.203 2528 83 8 343 2869 43690646 43693161 0.000000e+00 4124
11 TraesCS6D01G178100 chr4A 96.809 752 24 0 2866 3617 43693668 43694419 0.000000e+00 1256
12 TraesCS6D01G178100 chr4A 95.939 197 6 2 343 539 43695956 43695762 5.830000e-83 318
13 TraesCS6D01G178100 chr7A 95.498 2532 82 7 340 2869 20705155 20702654 0.000000e+00 4015
14 TraesCS6D01G178100 chr7A 96.941 752 23 0 2866 3617 20702179 20701428 0.000000e+00 1262
15 TraesCS6D01G178100 chr7A 94.975 199 10 0 341 539 20699814 20700012 2.710000e-81 313
16 TraesCS6D01G178100 chr1B 90.499 2547 191 25 337 2869 398389864 398392373 0.000000e+00 3315
17 TraesCS6D01G178100 chr1B 89.740 770 45 13 2866 3617 398392879 398393632 0.000000e+00 953
18 TraesCS6D01G178100 chr5D 84.419 1290 197 4 1582 2869 26955735 26957022 0.000000e+00 1266
19 TraesCS6D01G178100 chr6B 84.585 1265 192 3 1589 2852 260144255 260145517 0.000000e+00 1253
20 TraesCS6D01G178100 chr6B 87.390 341 36 4 1 340 300367072 300367406 5.670000e-103 385
21 TraesCS6D01G178100 chr6B 82.353 323 44 7 18 334 431171415 431171730 5.950000e-68 268
22 TraesCS6D01G178100 chr6B 81.873 331 47 7 16 340 426476805 426477128 2.140000e-67 267
23 TraesCS6D01G178100 chr6B 81.734 323 44 8 18 334 431215031 431215344 4.630000e-64 255
24 TraesCS6D01G178100 chr6A 84.264 1290 198 5 1582 2869 144495665 144494379 0.000000e+00 1253
25 TraesCS6D01G178100 chr2D 84.133 1292 199 5 1582 2869 613423879 613422590 0.000000e+00 1245
26 TraesCS6D01G178100 chr2D 81.763 329 48 5 16 340 243923172 243922852 7.700000e-67 265
27 TraesCS6D01G178100 chr3B 87.135 342 38 4 1 340 216402394 216402057 2.040000e-102 383
28 TraesCS6D01G178100 chr3D 82.154 325 45 7 16 334 465771800 465772117 2.140000e-67 267


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 TraesCS6D01G178100 chr6D 183952502 183956118 3616 True 6680.0 6680 100.0000 1 3617 1 chr6D.!!$R1 3616
1 TraesCS6D01G178100 chr7D 229794166 229797938 3772 True 2759.5 4185 97.6395 335 3617 2 chr7D.!!$R2 3282
2 TraesCS6D01G178100 chr7D 618663432 618664680 1248 True 1266.0 1266 84.9720 1620 2869 1 chr7D.!!$R1 1249
3 TraesCS6D01G178100 chr1D 16381892 16385660 3768 False 2740.0 4157 97.4255 338 3617 2 chr1D.!!$F1 3279
4 TraesCS6D01G178100 chr4A 43690646 43694419 3773 False 2690.0 4124 96.5060 343 3617 2 chr4A.!!$F1 3274
5 TraesCS6D01G178100 chr7A 20701428 20705155 3727 True 2638.5 4015 96.2195 340 3617 2 chr7A.!!$R1 3277
6 TraesCS6D01G178100 chr1B 398389864 398393632 3768 False 2134.0 3315 90.1195 337 3617 2 chr1B.!!$F1 3280
7 TraesCS6D01G178100 chr5D 26955735 26957022 1287 False 1266.0 1266 84.4190 1582 2869 1 chr5D.!!$F1 1287
8 TraesCS6D01G178100 chr6B 260144255 260145517 1262 False 1253.0 1253 84.5850 1589 2852 1 chr6B.!!$F1 1263
9 TraesCS6D01G178100 chr6A 144494379 144495665 1286 True 1253.0 1253 84.2640 1582 2869 1 chr6A.!!$R1 1287
10 TraesCS6D01G178100 chr2D 613422590 613423879 1289 True 1245.0 1245 84.1330 1582 2869 1 chr2D.!!$R2 1287

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
783 784 1.004361 GGGACTGGTAGGGGTGGAT 59.996 63.158 0.0 0.0 0.0 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2708 2747 0.035343 TGGAACAACCGTGGACACAA 60.035 50.0 3.12 0.0 42.61 3.33 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
24 25 6.681729 TTGTTACAGAGGGAGTATGTTTCT 57.318 37.500 0.00 0.00 31.40 2.52
25 26 7.786046 TTGTTACAGAGGGAGTATGTTTCTA 57.214 36.000 0.00 0.00 31.40 2.10
26 27 7.786046 TGTTACAGAGGGAGTATGTTTCTAA 57.214 36.000 0.00 0.00 31.40 2.10
27 28 8.197592 TGTTACAGAGGGAGTATGTTTCTAAA 57.802 34.615 0.00 0.00 31.40 1.85
28 29 8.311836 TGTTACAGAGGGAGTATGTTTCTAAAG 58.688 37.037 0.00 0.00 31.40 1.85
29 30 6.936968 ACAGAGGGAGTATGTTTCTAAAGT 57.063 37.500 0.00 0.00 0.00 2.66
30 31 7.317722 ACAGAGGGAGTATGTTTCTAAAGTT 57.682 36.000 0.00 0.00 0.00 2.66
31 32 8.431910 ACAGAGGGAGTATGTTTCTAAAGTTA 57.568 34.615 0.00 0.00 0.00 2.24
32 33 8.312564 ACAGAGGGAGTATGTTTCTAAAGTTAC 58.687 37.037 0.00 0.00 0.00 2.50
33 34 8.311836 CAGAGGGAGTATGTTTCTAAAGTTACA 58.688 37.037 0.00 0.00 0.00 2.41
34 35 8.877195 AGAGGGAGTATGTTTCTAAAGTTACAA 58.123 33.333 0.00 0.00 0.00 2.41
35 36 9.152595 GAGGGAGTATGTTTCTAAAGTTACAAG 57.847 37.037 0.00 0.00 0.00 3.16
36 37 8.657712 AGGGAGTATGTTTCTAAAGTTACAAGT 58.342 33.333 0.00 0.00 0.00 3.16
37 38 9.281371 GGGAGTATGTTTCTAAAGTTACAAGTT 57.719 33.333 0.00 0.00 0.00 2.66
52 53 9.950680 AAGTTACAAGTTTATGTGATCAAGTTG 57.049 29.630 0.00 3.64 37.03 3.16
53 54 9.120538 AGTTACAAGTTTATGTGATCAAGTTGT 57.879 29.630 17.38 17.38 43.36 3.32
57 58 9.730420 ACAAGTTTATGTGATCAAGTTGTAAAC 57.270 29.630 13.44 14.33 40.62 2.01
82 83 8.627208 CCTATTATAGGCATTGTGAAACAGAT 57.373 34.615 5.23 0.00 44.00 2.90
83 84 8.509690 CCTATTATAGGCATTGTGAAACAGATG 58.490 37.037 5.23 0.00 44.00 2.90
93 94 5.957842 TGTGAAACAGATGTTATCCCAAC 57.042 39.130 0.00 0.00 45.67 3.77
94 95 5.380900 TGTGAAACAGATGTTATCCCAACA 58.619 37.500 0.00 0.00 45.67 3.33
95 96 5.830457 TGTGAAACAGATGTTATCCCAACAA 59.170 36.000 0.00 0.00 45.67 2.83
96 97 6.493115 TGTGAAACAGATGTTATCCCAACAAT 59.507 34.615 0.00 0.00 45.67 2.71
97 98 6.808212 GTGAAACAGATGTTATCCCAACAATG 59.192 38.462 0.00 0.15 37.25 2.82
98 99 6.718912 TGAAACAGATGTTATCCCAACAATGA 59.281 34.615 0.00 0.00 37.25 2.57
99 100 7.396907 TGAAACAGATGTTATCCCAACAATGAT 59.603 33.333 0.00 0.00 37.25 2.45
100 101 6.704289 ACAGATGTTATCCCAACAATGATG 57.296 37.500 10.74 0.00 33.42 3.07
101 102 5.595542 ACAGATGTTATCCCAACAATGATGG 59.404 40.000 2.20 2.20 37.71 3.51
102 103 8.775172 AACAGATGTTATCCCAACAATGATGGG 61.775 40.741 21.12 21.12 46.46 4.00
110 111 4.380841 CCAACAATGATGGGAGTCAATG 57.619 45.455 1.13 0.00 35.60 2.82
111 112 3.131577 CCAACAATGATGGGAGTCAATGG 59.868 47.826 1.13 0.00 34.15 3.16
112 113 4.018490 CAACAATGATGGGAGTCAATGGA 58.982 43.478 0.00 0.00 34.15 3.41
113 114 4.320546 ACAATGATGGGAGTCAATGGAA 57.679 40.909 0.00 0.00 34.15 3.53
114 115 4.676109 ACAATGATGGGAGTCAATGGAAA 58.324 39.130 0.00 0.00 34.15 3.13
115 116 4.463891 ACAATGATGGGAGTCAATGGAAAC 59.536 41.667 0.00 0.00 34.15 2.78
128 129 2.421751 TGGAAACACCAAAGGAACGA 57.578 45.000 0.00 0.00 46.75 3.85
129 130 2.938838 TGGAAACACCAAAGGAACGAT 58.061 42.857 0.00 0.00 46.75 3.73
130 131 3.292460 TGGAAACACCAAAGGAACGATT 58.708 40.909 0.00 0.00 46.75 3.34
131 132 3.067461 TGGAAACACCAAAGGAACGATTG 59.933 43.478 0.00 0.00 46.75 2.67
132 133 3.316868 GGAAACACCAAAGGAACGATTGA 59.683 43.478 0.00 0.00 38.79 2.57
133 134 4.202070 GGAAACACCAAAGGAACGATTGAA 60.202 41.667 0.00 0.00 38.79 2.69
134 135 4.568152 AACACCAAAGGAACGATTGAAG 57.432 40.909 0.00 0.00 33.10 3.02
135 136 3.815809 ACACCAAAGGAACGATTGAAGA 58.184 40.909 0.00 0.00 33.10 2.87
136 137 3.815401 ACACCAAAGGAACGATTGAAGAG 59.185 43.478 0.00 0.00 33.10 2.85
137 138 2.814336 ACCAAAGGAACGATTGAAGAGC 59.186 45.455 0.00 0.00 33.10 4.09
138 139 2.813754 CCAAAGGAACGATTGAAGAGCA 59.186 45.455 0.00 0.00 33.10 4.26
139 140 3.253188 CCAAAGGAACGATTGAAGAGCAA 59.747 43.478 0.00 0.00 41.53 3.91
140 141 4.261572 CCAAAGGAACGATTGAAGAGCAAA 60.262 41.667 0.00 0.00 40.48 3.68
141 142 5.464168 CAAAGGAACGATTGAAGAGCAAAT 58.536 37.500 0.00 0.00 40.48 2.32
142 143 4.691860 AGGAACGATTGAAGAGCAAATG 57.308 40.909 0.00 0.00 40.48 2.32
143 144 4.074970 AGGAACGATTGAAGAGCAAATGT 58.925 39.130 0.00 0.00 40.48 2.71
144 145 4.520492 AGGAACGATTGAAGAGCAAATGTT 59.480 37.500 0.00 0.00 40.48 2.71
145 146 4.618489 GGAACGATTGAAGAGCAAATGTTG 59.382 41.667 0.00 0.00 40.48 3.33
146 147 4.836125 ACGATTGAAGAGCAAATGTTGT 57.164 36.364 0.00 0.00 40.48 3.32
147 148 5.940192 ACGATTGAAGAGCAAATGTTGTA 57.060 34.783 0.00 0.00 40.48 2.41
148 149 5.689819 ACGATTGAAGAGCAAATGTTGTAC 58.310 37.500 0.00 0.00 40.48 2.90
149 150 5.238432 ACGATTGAAGAGCAAATGTTGTACA 59.762 36.000 0.00 0.00 40.48 2.90
150 151 6.142139 CGATTGAAGAGCAAATGTTGTACAA 58.858 36.000 3.59 3.59 40.48 2.41
151 152 6.086765 CGATTGAAGAGCAAATGTTGTACAAC 59.913 38.462 28.13 28.13 40.48 3.32
152 153 6.804677 ATTGAAGAGCAAATGTTGTACAACA 58.195 32.000 36.27 36.27 45.43 3.33
153 154 6.919662 ATTGAAGAGCAAATGTTGTACAACAG 59.080 34.615 36.56 27.00 45.00 3.16
154 155 7.201812 ATTGAAGAGCAAATGTTGTACAACAGA 60.202 33.333 36.56 21.12 45.00 3.41
167 168 9.227490 TGTTGTACAACAGAAAAATATTGAACG 57.773 29.630 32.37 0.00 45.42 3.95
168 169 8.687301 GTTGTACAACAGAAAAATATTGAACGG 58.313 33.333 29.46 0.00 40.84 4.44
169 170 8.155821 TGTACAACAGAAAAATATTGAACGGA 57.844 30.769 0.00 0.00 0.00 4.69
170 171 8.622157 TGTACAACAGAAAAATATTGAACGGAA 58.378 29.630 0.00 0.00 0.00 4.30
171 172 7.924103 ACAACAGAAAAATATTGAACGGAAC 57.076 32.000 0.00 0.00 0.00 3.62
172 173 7.712797 ACAACAGAAAAATATTGAACGGAACT 58.287 30.769 0.00 0.00 0.00 3.01
173 174 8.842280 ACAACAGAAAAATATTGAACGGAACTA 58.158 29.630 0.00 0.00 0.00 2.24
174 175 9.840427 CAACAGAAAAATATTGAACGGAACTAT 57.160 29.630 0.00 0.00 0.00 2.12
207 208 9.965902 ATGATAGAGTGATGTTAAAAGAAAGGT 57.034 29.630 0.00 0.00 0.00 3.50
211 212 8.045176 AGAGTGATGTTAAAAGAAAGGTATGC 57.955 34.615 0.00 0.00 0.00 3.14
212 213 7.665559 AGAGTGATGTTAAAAGAAAGGTATGCA 59.334 33.333 0.00 0.00 0.00 3.96
213 214 8.353423 AGTGATGTTAAAAGAAAGGTATGCAT 57.647 30.769 3.79 3.79 0.00 3.96
214 215 8.462016 AGTGATGTTAAAAGAAAGGTATGCATC 58.538 33.333 0.19 0.00 0.00 3.91
215 216 8.462016 GTGATGTTAAAAGAAAGGTATGCATCT 58.538 33.333 0.19 0.00 32.70 2.90
216 217 9.679661 TGATGTTAAAAGAAAGGTATGCATCTA 57.320 29.630 0.19 0.00 32.70 1.98
219 220 8.736244 TGTTAAAAGAAAGGTATGCATCTAACC 58.264 33.333 0.19 5.61 0.00 2.85
220 221 8.957466 GTTAAAAGAAAGGTATGCATCTAACCT 58.043 33.333 13.00 13.00 45.62 3.50
226 227 5.894298 AGGTATGCATCTAACCTTGATCA 57.106 39.130 13.00 0.00 40.82 2.92
227 228 6.445451 AGGTATGCATCTAACCTTGATCAT 57.555 37.500 13.00 0.00 40.82 2.45
228 229 6.471146 AGGTATGCATCTAACCTTGATCATC 58.529 40.000 13.00 0.00 40.82 2.92
229 230 6.043590 AGGTATGCATCTAACCTTGATCATCA 59.956 38.462 13.00 0.00 40.82 3.07
230 231 6.883217 GGTATGCATCTAACCTTGATCATCAT 59.117 38.462 0.19 0.00 0.00 2.45
231 232 8.043113 GGTATGCATCTAACCTTGATCATCATA 58.957 37.037 0.19 0.00 0.00 2.15
232 233 7.918536 ATGCATCTAACCTTGATCATCATAC 57.081 36.000 0.00 0.00 0.00 2.39
233 234 6.233434 TGCATCTAACCTTGATCATCATACC 58.767 40.000 0.00 0.00 0.00 2.73
234 235 6.183361 TGCATCTAACCTTGATCATCATACCA 60.183 38.462 0.00 0.00 0.00 3.25
235 236 6.883217 GCATCTAACCTTGATCATCATACCAT 59.117 38.462 0.00 0.00 0.00 3.55
236 237 8.043113 GCATCTAACCTTGATCATCATACCATA 58.957 37.037 0.00 0.00 0.00 2.74
237 238 9.376075 CATCTAACCTTGATCATCATACCATAC 57.624 37.037 0.00 0.00 0.00 2.39
238 239 7.907389 TCTAACCTTGATCATCATACCATACC 58.093 38.462 0.00 0.00 0.00 2.73
239 240 6.770286 AACCTTGATCATCATACCATACCT 57.230 37.500 0.00 0.00 0.00 3.08
240 241 6.770286 ACCTTGATCATCATACCATACCTT 57.230 37.500 0.00 0.00 0.00 3.50
241 242 6.773638 ACCTTGATCATCATACCATACCTTC 58.226 40.000 0.00 0.00 0.00 3.46
242 243 6.560304 ACCTTGATCATCATACCATACCTTCT 59.440 38.462 0.00 0.00 0.00 2.85
243 244 7.102346 CCTTGATCATCATACCATACCTTCTC 58.898 42.308 0.00 0.00 0.00 2.87
244 245 7.038445 CCTTGATCATCATACCATACCTTCTCT 60.038 40.741 0.00 0.00 0.00 3.10
245 246 8.956446 TTGATCATCATACCATACCTTCTCTA 57.044 34.615 0.00 0.00 0.00 2.43
246 247 9.552695 TTGATCATCATACCATACCTTCTCTAT 57.447 33.333 0.00 0.00 0.00 1.98
247 248 9.552695 TGATCATCATACCATACCTTCTCTATT 57.447 33.333 0.00 0.00 0.00 1.73
248 249 9.814899 GATCATCATACCATACCTTCTCTATTG 57.185 37.037 0.00 0.00 0.00 1.90
249 250 8.727100 TCATCATACCATACCTTCTCTATTGT 57.273 34.615 0.00 0.00 0.00 2.71
250 251 9.822727 TCATCATACCATACCTTCTCTATTGTA 57.177 33.333 0.00 0.00 0.00 2.41
285 286 9.956640 AATCTCATATCTTTTCTCTTGAACTGT 57.043 29.630 0.00 0.00 31.02 3.55
307 308 9.840427 ACTGTATTAAGAATTTGTATGCACAAC 57.160 29.630 0.00 0.00 44.28 3.32
308 309 9.838975 CTGTATTAAGAATTTGTATGCACAACA 57.161 29.630 0.00 0.00 44.28 3.33
313 314 6.529463 AGAATTTGTATGCACAACAAAAGC 57.471 33.333 24.82 20.07 46.59 3.51
314 315 6.047870 AGAATTTGTATGCACAACAAAAGCA 58.952 32.000 24.82 9.71 46.59 3.91
315 316 6.538021 AGAATTTGTATGCACAACAAAAGCAA 59.462 30.769 24.82 9.42 46.59 3.91
316 317 5.462034 TTTGTATGCACAACAAAAGCAAC 57.538 34.783 20.98 0.00 44.28 4.17
317 318 4.115401 TGTATGCACAACAAAAGCAACA 57.885 36.364 1.32 0.00 42.15 3.33
318 319 4.498241 TGTATGCACAACAAAAGCAACAA 58.502 34.783 1.32 0.00 42.15 2.83
319 320 5.114780 TGTATGCACAACAAAAGCAACAAT 58.885 33.333 1.32 0.00 42.15 2.71
320 321 5.583854 TGTATGCACAACAAAAGCAACAATT 59.416 32.000 1.32 0.00 42.15 2.32
321 322 4.337985 TGCACAACAAAAGCAACAATTG 57.662 36.364 3.24 3.24 34.97 2.32
322 323 3.999001 TGCACAACAAAAGCAACAATTGA 59.001 34.783 13.59 0.00 34.97 2.57
323 324 4.634883 TGCACAACAAAAGCAACAATTGAT 59.365 33.333 13.59 0.00 34.97 2.57
324 325 4.965158 GCACAACAAAAGCAACAATTGATG 59.035 37.500 13.59 12.22 34.29 3.07
325 326 5.220624 GCACAACAAAAGCAACAATTGATGA 60.221 36.000 18.88 0.00 32.95 2.92
326 327 6.186785 CACAACAAAAGCAACAATTGATGAC 58.813 36.000 18.88 10.20 32.95 3.06
327 328 5.873712 ACAACAAAAGCAACAATTGATGACA 59.126 32.000 18.88 0.00 32.95 3.58
328 329 6.539464 ACAACAAAAGCAACAATTGATGACAT 59.461 30.769 18.88 1.81 32.95 3.06
329 330 6.533819 ACAAAAGCAACAATTGATGACATG 57.466 33.333 18.88 12.76 0.00 3.21
330 331 6.282167 ACAAAAGCAACAATTGATGACATGA 58.718 32.000 18.88 0.00 0.00 3.07
331 332 6.932400 ACAAAAGCAACAATTGATGACATGAT 59.068 30.769 18.88 1.37 0.00 2.45
332 333 8.089597 ACAAAAGCAACAATTGATGACATGATA 58.910 29.630 18.88 0.00 0.00 2.15
333 334 8.927721 CAAAAGCAACAATTGATGACATGATAA 58.072 29.630 18.88 0.00 0.00 1.75
334 335 9.661563 AAAAGCAACAATTGATGACATGATAAT 57.338 25.926 18.88 0.00 0.00 1.28
335 336 8.642908 AAGCAACAATTGATGACATGATAATG 57.357 30.769 18.88 0.00 0.00 1.90
336 337 7.207383 AGCAACAATTGATGACATGATAATGG 58.793 34.615 18.88 0.00 0.00 3.16
337 338 7.068962 AGCAACAATTGATGACATGATAATGGA 59.931 33.333 18.88 0.00 0.00 3.41
338 339 7.870954 GCAACAATTGATGACATGATAATGGAT 59.129 33.333 18.88 0.00 0.00 3.41
419 420 2.166907 TTTTTCTGCCCCTTTCACCA 57.833 45.000 0.00 0.00 0.00 4.17
441 442 3.788142 ACCTGATCAAACCCATACCAGAT 59.212 43.478 0.00 0.00 0.00 2.90
556 557 2.353579 CACCCGTTCGTTCTGTTTTTCT 59.646 45.455 0.00 0.00 0.00 2.52
578 579 1.291939 CAAATTCCCCAATCCCCTCCT 59.708 52.381 0.00 0.00 0.00 3.69
693 694 1.786441 TCAACCCCAATCCCTCTTGTT 59.214 47.619 0.00 0.00 0.00 2.83
701 702 2.257409 ATCCCTCTTGTTCGCGCCAT 62.257 55.000 0.00 0.00 0.00 4.40
702 703 2.040544 CCCTCTTGTTCGCGCCATT 61.041 57.895 0.00 0.00 0.00 3.16
721 722 3.059982 CGCCACCTCTCTTGTCCA 58.940 61.111 0.00 0.00 0.00 4.02
740 741 2.290896 CCACATCCTCAAAACCCTAGCA 60.291 50.000 0.00 0.00 0.00 3.49
745 746 2.642311 TCCTCAAAACCCTAGCATGACA 59.358 45.455 0.00 0.00 0.00 3.58
783 784 1.004361 GGGACTGGTAGGGGTGGAT 59.996 63.158 0.00 0.00 0.00 3.41
849 853 3.305720 CTTCCCCTACTACACATGGCTA 58.694 50.000 0.00 0.00 0.00 3.93
858 862 7.256332 CCCTACTACACATGGCTATAGTTGATT 60.256 40.741 0.84 0.00 0.00 2.57
859 863 7.600375 CCTACTACACATGGCTATAGTTGATTG 59.400 40.741 0.84 0.00 0.00 2.67
860 864 5.760253 ACTACACATGGCTATAGTTGATTGC 59.240 40.000 0.84 0.00 35.76 3.56
861 865 4.525996 ACACATGGCTATAGTTGATTGCA 58.474 39.130 0.84 0.00 37.96 4.08
862 866 5.135383 ACACATGGCTATAGTTGATTGCAT 58.865 37.500 0.84 0.00 37.96 3.96
863 867 5.009310 ACACATGGCTATAGTTGATTGCATG 59.991 40.000 0.84 0.00 37.96 4.06
864 868 5.239963 CACATGGCTATAGTTGATTGCATGA 59.760 40.000 0.00 0.00 37.96 3.07
865 869 6.008331 ACATGGCTATAGTTGATTGCATGAT 58.992 36.000 0.00 0.00 37.96 2.45
866 870 6.150641 ACATGGCTATAGTTGATTGCATGATC 59.849 38.462 0.00 0.00 37.96 2.92
867 871 5.872963 TGGCTATAGTTGATTGCATGATCT 58.127 37.500 0.00 0.00 37.96 2.75
868 872 5.704053 TGGCTATAGTTGATTGCATGATCTG 59.296 40.000 0.00 0.00 37.96 2.90
869 873 5.704515 GGCTATAGTTGATTGCATGATCTGT 59.295 40.000 0.00 0.00 37.96 3.41
870 874 6.206243 GGCTATAGTTGATTGCATGATCTGTT 59.794 38.462 0.00 0.00 37.96 3.16
871 875 7.388776 GGCTATAGTTGATTGCATGATCTGTTA 59.611 37.037 0.00 0.00 37.96 2.41
872 876 8.777413 GCTATAGTTGATTGCATGATCTGTTAA 58.223 33.333 0.00 0.00 36.43 2.01
874 878 8.969260 ATAGTTGATTGCATGATCTGTTAAGA 57.031 30.769 0.00 0.00 36.69 2.10
875 879 7.692460 AGTTGATTGCATGATCTGTTAAGAA 57.308 32.000 0.00 0.00 35.59 2.52
876 880 8.114331 AGTTGATTGCATGATCTGTTAAGAAA 57.886 30.769 0.00 0.00 35.59 2.52
877 881 8.746530 AGTTGATTGCATGATCTGTTAAGAAAT 58.253 29.630 0.00 0.00 35.59 2.17
1078 1102 4.937201 TCAGAGAAGTGTTGCTCTTACA 57.063 40.909 0.00 0.00 39.36 2.41
1110 1134 5.129634 TCTGTTGAGGTCACTTTTATGCAA 58.870 37.500 0.00 0.00 0.00 4.08
1187 1213 4.202441 GCATACCATGGTGAGTCTTTGAT 58.798 43.478 28.17 6.40 0.00 2.57
1262 1288 4.400884 GCTGAGAAGGTTAGAGACTGATGA 59.599 45.833 0.00 0.00 0.00 2.92
1298 1324 3.736720 TGGAGAGATGCATTACAGATGC 58.263 45.455 0.00 4.14 44.76 3.91
1454 1480 1.380524 CAAGCAGAGCATGAAGAGGG 58.619 55.000 0.00 0.00 27.85 4.30
1682 1717 2.673368 AGCATGCTAACGAAGTGCTTAC 59.327 45.455 21.21 0.00 45.00 2.34
1799 1835 4.288366 TGACACTCCTTACATGGATTCCAA 59.712 41.667 9.98 0.00 36.95 3.53
1981 2017 4.973168 AGCAGTGAAGAGACAAATTACCA 58.027 39.130 0.00 0.00 0.00 3.25
2321 2357 6.546403 AGAGAAGCAATGCATGAAGAATATGT 59.454 34.615 8.35 0.00 0.00 2.29
2477 2515 3.347216 TCATAGAAGGTTGCAGGAAAGC 58.653 45.455 0.00 0.00 0.00 3.51
2531 2570 2.548920 CCCAGAGTGGAGAACTGTTGTC 60.549 54.545 9.03 9.03 40.96 3.18
2615 2654 6.479972 TGAGAACAAAGACTCTTGGTTCTA 57.520 37.500 29.92 19.66 32.11 2.10
2650 2689 7.425606 TCTGCTAAACAAAGACTTGGAAATTC 58.574 34.615 0.00 0.00 36.82 2.17
2708 2747 4.344679 TCAACAAAAAGGCCTCATCAATGT 59.655 37.500 5.23 3.07 0.00 2.71
2717 2756 2.095059 GCCTCATCAATGTTGTGTCCAC 60.095 50.000 0.00 0.00 0.00 4.02
2949 3499 0.469917 GCCAGCTGTTCCAGGCTATA 59.530 55.000 13.81 0.00 43.70 1.31
3262 3813 4.549458 AGCAAAATGAACCAAGAACATCG 58.451 39.130 0.00 0.00 0.00 3.84
3482 4033 0.710588 TTCTAGGCAGAGGAGGACCA 59.289 55.000 0.00 0.00 38.94 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 8.312564 ACTTTAGAAACATACTCCCTCTGTAAC 58.687 37.037 0.00 0.00 0.00 2.50
4 5 8.431910 ACTTTAGAAACATACTCCCTCTGTAA 57.568 34.615 0.00 0.00 0.00 2.41
5 6 8.431910 AACTTTAGAAACATACTCCCTCTGTA 57.568 34.615 0.00 0.00 0.00 2.74
6 7 6.936968 ACTTTAGAAACATACTCCCTCTGT 57.063 37.500 0.00 0.00 0.00 3.41
7 8 8.311836 TGTAACTTTAGAAACATACTCCCTCTG 58.688 37.037 0.00 0.00 0.00 3.35
8 9 8.431910 TGTAACTTTAGAAACATACTCCCTCT 57.568 34.615 0.00 0.00 0.00 3.69
9 10 9.152595 CTTGTAACTTTAGAAACATACTCCCTC 57.847 37.037 0.00 0.00 0.00 4.30
10 11 8.657712 ACTTGTAACTTTAGAAACATACTCCCT 58.342 33.333 0.00 0.00 0.00 4.20
11 12 8.843885 ACTTGTAACTTTAGAAACATACTCCC 57.156 34.615 0.00 0.00 0.00 4.30
26 27 9.950680 CAACTTGATCACATAAACTTGTAACTT 57.049 29.630 0.00 0.00 0.00 2.66
27 28 9.120538 ACAACTTGATCACATAAACTTGTAACT 57.879 29.630 0.00 0.00 0.00 2.24
31 32 9.730420 GTTTACAACTTGATCACATAAACTTGT 57.270 29.630 0.00 0.00 30.44 3.16
32 33 9.180678 GGTTTACAACTTGATCACATAAACTTG 57.819 33.333 17.34 7.17 32.13 3.16
33 34 9.131791 AGGTTTACAACTTGATCACATAAACTT 57.868 29.630 17.34 11.92 32.13 2.66
34 35 8.691661 AGGTTTACAACTTGATCACATAAACT 57.308 30.769 17.34 4.94 32.13 2.66
58 59 9.060347 ACATCTGTTTCACAATGCCTATAATAG 57.940 33.333 0.00 0.00 0.00 1.73
59 60 8.978874 ACATCTGTTTCACAATGCCTATAATA 57.021 30.769 0.00 0.00 0.00 0.98
60 61 7.886629 ACATCTGTTTCACAATGCCTATAAT 57.113 32.000 0.00 0.00 0.00 1.28
61 62 7.701539 AACATCTGTTTCACAATGCCTATAA 57.298 32.000 0.00 0.00 33.93 0.98
62 63 8.978874 ATAACATCTGTTTCACAATGCCTATA 57.021 30.769 0.20 0.00 39.31 1.31
63 64 7.013655 GGATAACATCTGTTTCACAATGCCTAT 59.986 37.037 0.20 0.00 39.31 2.57
64 65 6.318648 GGATAACATCTGTTTCACAATGCCTA 59.681 38.462 0.20 0.00 39.31 3.93
65 66 5.126061 GGATAACATCTGTTTCACAATGCCT 59.874 40.000 0.20 0.00 39.31 4.75
66 67 5.343249 GGATAACATCTGTTTCACAATGCC 58.657 41.667 0.20 0.00 39.31 4.40
67 68 5.105797 TGGGATAACATCTGTTTCACAATGC 60.106 40.000 0.20 0.00 39.31 3.56
68 69 6.513806 TGGGATAACATCTGTTTCACAATG 57.486 37.500 0.20 0.00 39.31 2.82
69 70 6.493115 TGTTGGGATAACATCTGTTTCACAAT 59.507 34.615 17.63 2.25 38.88 2.71
70 71 5.830457 TGTTGGGATAACATCTGTTTCACAA 59.170 36.000 13.81 13.81 36.77 3.33
71 72 5.380900 TGTTGGGATAACATCTGTTTCACA 58.619 37.500 0.20 4.00 39.31 3.58
72 73 5.957842 TGTTGGGATAACATCTGTTTCAC 57.042 39.130 0.20 1.65 39.31 3.18
73 74 6.718912 TCATTGTTGGGATAACATCTGTTTCA 59.281 34.615 0.20 0.00 39.31 2.69
74 75 7.156876 TCATTGTTGGGATAACATCTGTTTC 57.843 36.000 0.20 0.00 39.31 2.78
75 76 7.364056 CCATCATTGTTGGGATAACATCTGTTT 60.364 37.037 5.93 0.00 39.31 2.83
76 77 6.097270 CCATCATTGTTGGGATAACATCTGTT 59.903 38.462 5.93 0.69 41.73 3.16
77 78 5.595542 CCATCATTGTTGGGATAACATCTGT 59.404 40.000 5.93 0.00 0.00 3.41
78 79 6.080648 CCATCATTGTTGGGATAACATCTG 57.919 41.667 5.93 0.00 0.00 2.90
89 90 3.131577 CCATTGACTCCCATCATTGTTGG 59.868 47.826 6.76 6.76 31.10 3.77
90 91 4.018490 TCCATTGACTCCCATCATTGTTG 58.982 43.478 0.00 0.00 31.10 3.33
91 92 4.320546 TCCATTGACTCCCATCATTGTT 57.679 40.909 0.00 0.00 31.10 2.83
92 93 4.320546 TTCCATTGACTCCCATCATTGT 57.679 40.909 0.00 0.00 31.10 2.71
93 94 4.463539 TGTTTCCATTGACTCCCATCATTG 59.536 41.667 0.00 0.00 32.28 2.82
94 95 4.463891 GTGTTTCCATTGACTCCCATCATT 59.536 41.667 0.00 0.00 0.00 2.57
95 96 4.019174 GTGTTTCCATTGACTCCCATCAT 58.981 43.478 0.00 0.00 0.00 2.45
96 97 3.420893 GTGTTTCCATTGACTCCCATCA 58.579 45.455 0.00 0.00 0.00 3.07
97 98 2.755103 GGTGTTTCCATTGACTCCCATC 59.245 50.000 0.00 0.00 35.97 3.51
98 99 2.109834 TGGTGTTTCCATTGACTCCCAT 59.890 45.455 0.00 0.00 41.93 4.00
99 100 1.496857 TGGTGTTTCCATTGACTCCCA 59.503 47.619 0.00 0.00 41.93 4.37
100 101 2.286365 TGGTGTTTCCATTGACTCCC 57.714 50.000 0.00 0.00 41.93 4.30
101 102 3.005791 CCTTTGGTGTTTCCATTGACTCC 59.994 47.826 0.00 0.00 46.60 3.85
102 103 3.888930 TCCTTTGGTGTTTCCATTGACTC 59.111 43.478 0.00 0.00 46.60 3.36
103 104 3.909732 TCCTTTGGTGTTTCCATTGACT 58.090 40.909 0.00 0.00 46.60 3.41
104 105 4.368315 GTTCCTTTGGTGTTTCCATTGAC 58.632 43.478 0.00 0.00 46.60 3.18
105 106 3.067461 CGTTCCTTTGGTGTTTCCATTGA 59.933 43.478 0.00 0.00 46.60 2.57
106 107 3.067461 TCGTTCCTTTGGTGTTTCCATTG 59.933 43.478 0.00 0.00 46.60 2.82
107 108 3.292460 TCGTTCCTTTGGTGTTTCCATT 58.708 40.909 0.00 0.00 46.60 3.16
108 109 2.938838 TCGTTCCTTTGGTGTTTCCAT 58.061 42.857 0.00 0.00 46.60 3.41
109 110 2.421751 TCGTTCCTTTGGTGTTTCCA 57.578 45.000 0.00 0.00 45.60 3.53
110 111 3.316868 TCAATCGTTCCTTTGGTGTTTCC 59.683 43.478 0.00 0.00 0.00 3.13
111 112 4.561735 TCAATCGTTCCTTTGGTGTTTC 57.438 40.909 0.00 0.00 0.00 2.78
112 113 4.642885 TCTTCAATCGTTCCTTTGGTGTTT 59.357 37.500 0.00 0.00 0.00 2.83
113 114 4.204012 TCTTCAATCGTTCCTTTGGTGTT 58.796 39.130 0.00 0.00 0.00 3.32
114 115 3.815401 CTCTTCAATCGTTCCTTTGGTGT 59.185 43.478 0.00 0.00 0.00 4.16
115 116 3.365364 GCTCTTCAATCGTTCCTTTGGTG 60.365 47.826 0.00 0.00 0.00 4.17
116 117 2.814336 GCTCTTCAATCGTTCCTTTGGT 59.186 45.455 0.00 0.00 0.00 3.67
117 118 2.813754 TGCTCTTCAATCGTTCCTTTGG 59.186 45.455 0.00 0.00 0.00 3.28
118 119 4.488126 TTGCTCTTCAATCGTTCCTTTG 57.512 40.909 0.00 0.00 0.00 2.77
119 120 5.010012 ACATTTGCTCTTCAATCGTTCCTTT 59.990 36.000 0.00 0.00 34.12 3.11
120 121 4.520492 ACATTTGCTCTTCAATCGTTCCTT 59.480 37.500 0.00 0.00 34.12 3.36
121 122 4.074970 ACATTTGCTCTTCAATCGTTCCT 58.925 39.130 0.00 0.00 34.12 3.36
122 123 4.425577 ACATTTGCTCTTCAATCGTTCC 57.574 40.909 0.00 0.00 34.12 3.62
123 124 5.215160 ACAACATTTGCTCTTCAATCGTTC 58.785 37.500 0.00 0.00 34.12 3.95
124 125 5.186996 ACAACATTTGCTCTTCAATCGTT 57.813 34.783 0.00 0.00 34.12 3.85
125 126 4.836125 ACAACATTTGCTCTTCAATCGT 57.164 36.364 0.00 0.00 34.12 3.73
126 127 5.688823 TGTACAACATTTGCTCTTCAATCG 58.311 37.500 0.00 0.00 34.12 3.34
127 128 6.917477 TGTTGTACAACATTTGCTCTTCAATC 59.083 34.615 32.37 5.75 45.42 2.67
128 129 6.804677 TGTTGTACAACATTTGCTCTTCAAT 58.195 32.000 32.37 0.00 45.42 2.57
129 130 6.201226 TGTTGTACAACATTTGCTCTTCAA 57.799 33.333 32.37 9.52 45.42 2.69
130 131 5.826601 TGTTGTACAACATTTGCTCTTCA 57.173 34.783 32.37 9.77 45.42 3.02
142 143 8.687301 CCGTTCAATATTTTTCTGTTGTACAAC 58.313 33.333 28.13 28.13 41.50 3.32
143 144 8.622157 TCCGTTCAATATTTTTCTGTTGTACAA 58.378 29.630 3.59 3.59 0.00 2.41
144 145 8.155821 TCCGTTCAATATTTTTCTGTTGTACA 57.844 30.769 0.00 0.00 0.00 2.90
145 146 8.898792 GTTCCGTTCAATATTTTTCTGTTGTAC 58.101 33.333 0.00 0.00 0.00 2.90
146 147 8.842280 AGTTCCGTTCAATATTTTTCTGTTGTA 58.158 29.630 0.00 0.00 0.00 2.41
147 148 7.712797 AGTTCCGTTCAATATTTTTCTGTTGT 58.287 30.769 0.00 0.00 0.00 3.32
148 149 9.840427 ATAGTTCCGTTCAATATTTTTCTGTTG 57.160 29.630 0.00 0.00 0.00 3.33
181 182 9.965902 ACCTTTCTTTTAACATCACTCTATCAT 57.034 29.630 0.00 0.00 0.00 2.45
185 186 9.162764 GCATACCTTTCTTTTAACATCACTCTA 57.837 33.333 0.00 0.00 0.00 2.43
186 187 7.665559 TGCATACCTTTCTTTTAACATCACTCT 59.334 33.333 0.00 0.00 0.00 3.24
187 188 7.816640 TGCATACCTTTCTTTTAACATCACTC 58.183 34.615 0.00 0.00 0.00 3.51
188 189 7.759489 TGCATACCTTTCTTTTAACATCACT 57.241 32.000 0.00 0.00 0.00 3.41
189 190 8.462016 AGATGCATACCTTTCTTTTAACATCAC 58.538 33.333 0.00 0.00 34.16 3.06
190 191 8.579850 AGATGCATACCTTTCTTTTAACATCA 57.420 30.769 0.00 0.00 34.16 3.07
193 194 8.736244 GGTTAGATGCATACCTTTCTTTTAACA 58.264 33.333 9.50 0.00 0.00 2.41
194 195 8.957466 AGGTTAGATGCATACCTTTCTTTTAAC 58.043 33.333 13.00 2.05 39.19 2.01
204 205 5.894298 TGATCAAGGTTAGATGCATACCT 57.106 39.130 13.00 13.00 43.98 3.08
205 206 6.233434 TGATGATCAAGGTTAGATGCATACC 58.767 40.000 8.82 8.82 0.00 2.73
206 207 7.918536 ATGATGATCAAGGTTAGATGCATAC 57.081 36.000 0.00 0.00 0.00 2.39
207 208 8.043113 GGTATGATGATCAAGGTTAGATGCATA 58.957 37.037 0.00 0.00 0.00 3.14
208 209 6.883217 GGTATGATGATCAAGGTTAGATGCAT 59.117 38.462 0.00 0.00 0.00 3.96
209 210 6.183361 TGGTATGATGATCAAGGTTAGATGCA 60.183 38.462 0.00 0.00 0.00 3.96
210 211 6.233434 TGGTATGATGATCAAGGTTAGATGC 58.767 40.000 0.00 0.00 0.00 3.91
211 212 9.376075 GTATGGTATGATGATCAAGGTTAGATG 57.624 37.037 0.00 0.00 0.00 2.90
212 213 8.543774 GGTATGGTATGATGATCAAGGTTAGAT 58.456 37.037 0.00 0.00 0.00 1.98
213 214 7.734865 AGGTATGGTATGATGATCAAGGTTAGA 59.265 37.037 0.00 0.00 0.00 2.10
214 215 7.911651 AGGTATGGTATGATGATCAAGGTTAG 58.088 38.462 0.00 0.00 0.00 2.34
215 216 7.872061 AGGTATGGTATGATGATCAAGGTTA 57.128 36.000 0.00 0.00 0.00 2.85
216 217 6.770286 AGGTATGGTATGATGATCAAGGTT 57.230 37.500 0.00 0.00 0.00 3.50
217 218 6.560304 AGAAGGTATGGTATGATGATCAAGGT 59.440 38.462 0.00 0.00 0.00 3.50
218 219 7.013823 AGAAGGTATGGTATGATGATCAAGG 57.986 40.000 0.00 0.00 0.00 3.61
219 220 7.905265 AGAGAAGGTATGGTATGATGATCAAG 58.095 38.462 0.00 0.00 0.00 3.02
220 221 7.862274 AGAGAAGGTATGGTATGATGATCAA 57.138 36.000 0.00 0.00 0.00 2.57
221 222 9.552695 AATAGAGAAGGTATGGTATGATGATCA 57.447 33.333 0.00 0.00 0.00 2.92
222 223 9.814899 CAATAGAGAAGGTATGGTATGATGATC 57.185 37.037 0.00 0.00 0.00 2.92
223 224 9.331466 ACAATAGAGAAGGTATGGTATGATGAT 57.669 33.333 0.00 0.00 0.00 2.45
224 225 8.727100 ACAATAGAGAAGGTATGGTATGATGA 57.273 34.615 0.00 0.00 0.00 2.92
259 260 9.956640 ACAGTTCAAGAGAAAAGATATGAGATT 57.043 29.630 0.00 0.00 35.08 2.40
295 296 4.498241 TGTTGCTTTTGTTGTGCATACAA 58.502 34.783 11.86 11.86 44.17 2.41
296 297 4.115401 TGTTGCTTTTGTTGTGCATACA 57.885 36.364 0.00 0.00 36.55 2.29
297 298 5.655893 ATTGTTGCTTTTGTTGTGCATAC 57.344 34.783 0.00 0.00 36.55 2.39
298 299 5.814188 TCAATTGTTGCTTTTGTTGTGCATA 59.186 32.000 5.13 0.00 36.55 3.14
299 300 4.634883 TCAATTGTTGCTTTTGTTGTGCAT 59.365 33.333 5.13 0.00 36.55 3.96
300 301 3.999001 TCAATTGTTGCTTTTGTTGTGCA 59.001 34.783 5.13 0.00 34.69 4.57
301 302 4.596801 TCAATTGTTGCTTTTGTTGTGC 57.403 36.364 5.13 0.00 0.00 4.57
302 303 6.183360 TGTCATCAATTGTTGCTTTTGTTGTG 60.183 34.615 11.02 0.00 0.00 3.33
303 304 5.873712 TGTCATCAATTGTTGCTTTTGTTGT 59.126 32.000 11.02 0.00 0.00 3.32
304 305 6.347270 TGTCATCAATTGTTGCTTTTGTTG 57.653 33.333 11.02 0.00 0.00 3.33
305 306 6.762187 TCATGTCATCAATTGTTGCTTTTGTT 59.238 30.769 11.02 0.00 0.00 2.83
306 307 6.282167 TCATGTCATCAATTGTTGCTTTTGT 58.718 32.000 11.02 0.00 0.00 2.83
307 308 6.772770 TCATGTCATCAATTGTTGCTTTTG 57.227 33.333 11.02 6.84 0.00 2.44
308 309 9.661563 ATTATCATGTCATCAATTGTTGCTTTT 57.338 25.926 11.02 0.00 0.00 2.27
309 310 9.093970 CATTATCATGTCATCAATTGTTGCTTT 57.906 29.630 11.02 0.00 0.00 3.51
310 311 7.709182 CCATTATCATGTCATCAATTGTTGCTT 59.291 33.333 11.02 3.57 0.00 3.91
311 312 7.068962 TCCATTATCATGTCATCAATTGTTGCT 59.931 33.333 11.02 0.00 0.00 3.91
312 313 7.204604 TCCATTATCATGTCATCAATTGTTGC 58.795 34.615 11.02 7.53 0.00 4.17
419 420 3.189606 TCTGGTATGGGTTTGATCAGGT 58.810 45.455 0.00 0.00 0.00 4.00
450 451 0.951558 CGAGACAAACCACCAAAGGG 59.048 55.000 0.00 0.00 41.29 3.95
453 454 1.210967 AGGTCGAGACAAACCACCAAA 59.789 47.619 5.55 0.00 38.06 3.28
556 557 2.246327 GGAGGGGATTGGGGAATTTGTA 59.754 50.000 0.00 0.00 0.00 2.41
701 702 1.301716 GACAAGAGAGGTGGCGCAA 60.302 57.895 10.83 0.00 0.00 4.85
702 703 2.343758 GACAAGAGAGGTGGCGCA 59.656 61.111 10.83 0.00 0.00 6.09
721 722 3.266772 TCATGCTAGGGTTTTGAGGATGT 59.733 43.478 0.00 0.00 39.34 3.06
783 784 3.342627 CGCCGCGGAAACACTCAA 61.343 61.111 33.48 0.00 0.00 3.02
805 809 6.883744 AGGAGATGAGACTAACCTCAATTTC 58.116 40.000 0.00 0.00 45.22 2.17
849 853 8.969260 TCTTAACAGATCATGCAATCAACTAT 57.031 30.769 0.00 0.00 0.00 2.12
858 862 8.403236 CAGATGAATTTCTTAACAGATCATGCA 58.597 33.333 0.00 0.00 29.79 3.96
859 863 8.404000 ACAGATGAATTTCTTAACAGATCATGC 58.596 33.333 0.00 0.00 29.79 4.06
870 874 9.177608 CCAGACCATTAACAGATGAATTTCTTA 57.822 33.333 0.00 0.00 0.00 2.10
871 875 7.123247 CCCAGACCATTAACAGATGAATTTCTT 59.877 37.037 0.00 0.00 0.00 2.52
872 876 6.604795 CCCAGACCATTAACAGATGAATTTCT 59.395 38.462 0.00 0.00 0.00 2.52
873 877 6.378280 ACCCAGACCATTAACAGATGAATTTC 59.622 38.462 0.00 0.00 0.00 2.17
874 878 6.256053 ACCCAGACCATTAACAGATGAATTT 58.744 36.000 0.00 0.00 0.00 1.82
875 879 5.831103 ACCCAGACCATTAACAGATGAATT 58.169 37.500 0.00 0.00 0.00 2.17
876 880 5.440610 GACCCAGACCATTAACAGATGAAT 58.559 41.667 0.00 0.00 0.00 2.57
877 881 4.622933 CGACCCAGACCATTAACAGATGAA 60.623 45.833 0.00 0.00 0.00 2.57
992 1016 7.101054 CCAATCAAGATTGTCCATTGTTGATT 58.899 34.615 18.47 15.69 44.97 2.57
1078 1102 2.174639 TGACCTCAACAGAACCACCAAT 59.825 45.455 0.00 0.00 0.00 3.16
1187 1213 4.524714 GCCAGTAGAGCCTATGATTGTCTA 59.475 45.833 0.00 0.00 0.00 2.59
1262 1288 8.970020 TGCATCTCTCCATAAAATACACATTTT 58.030 29.630 1.44 1.44 44.60 1.82
1298 1324 5.427378 TCACATATATGTCCACAACACCAG 58.573 41.667 15.60 0.71 41.75 4.00
1410 1436 1.756538 TCACTGTCAGTGTGCTCTTCA 59.243 47.619 27.97 7.63 46.03 3.02
1454 1480 4.247258 CTCATCAGAGCAATCATCTAGGC 58.753 47.826 0.00 0.00 34.61 3.93
1671 1706 6.535150 TCATCCTTATCTTTGTAAGCACTTCG 59.465 38.462 0.00 0.00 31.72 3.79
1682 1717 5.416952 AGTGGCAAGTTCATCCTTATCTTTG 59.583 40.000 0.00 0.00 0.00 2.77
1799 1835 4.594920 CCCCATCATAACTGTACTCCTCAT 59.405 45.833 0.00 0.00 0.00 2.90
1981 2017 8.635647 ATCCTATTAGCCTCATCCTTTATGAT 57.364 34.615 0.00 0.00 43.70 2.45
2477 2515 3.287867 AGCAACCATCCAATCCTACAG 57.712 47.619 0.00 0.00 0.00 2.74
2615 2654 6.003950 TCTTTGTTTAGCAGAGCCATAAACT 58.996 36.000 12.19 0.00 39.20 2.66
2650 2689 2.827921 CCCACCCTTCTCCTTGATTTTG 59.172 50.000 0.00 0.00 0.00 2.44
2708 2747 0.035343 TGGAACAACCGTGGACACAA 60.035 50.000 3.12 0.00 42.61 3.33
2717 2756 4.216411 TGCTCAGCATTTGGAACAACCG 62.216 50.000 0.00 0.00 37.23 4.44
2949 3499 0.685458 GGTCTCCCAGGCATTTGCAT 60.685 55.000 4.74 0.00 44.36 3.96
3262 3813 2.563179 TGTTCCCTTAGTGACTCTCTGC 59.437 50.000 0.00 0.00 0.00 4.26
3482 4033 6.182627 TCCTAAGTTCATCAAACATGCTCAT 58.817 36.000 0.00 0.00 40.56 2.90


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

AutoCloner maintained by Alex Coulton.