Multiple sequence alignment - TraesCS7A01G316100

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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 TraesCS7A01G316100 chr7A 100.000 2447 0 0 1 2447 450961233 450963679 0.000000e+00 4519.0
1 TraesCS7A01G316100 chr7D 96.069 1628 46 7 825 2447 396981361 396982975 0.000000e+00 2636.0
2 TraesCS7A01G316100 chr7D 91.908 173 9 4 514 685 396980278 396980446 1.130000e-58 237.0
3 TraesCS7A01G316100 chr7D 98.113 53 0 1 463 515 396979940 396979991 9.320000e-15 91.6
4 TraesCS7A01G316100 chr7B 93.924 1728 64 16 737 2447 400633722 400635425 0.000000e+00 2571.0
5 TraesCS7A01G316100 chr7B 94.231 52 2 1 474 524 400153248 400153299 7.250000e-11 78.7
6 TraesCS7A01G316100 chr1D 91.083 314 25 3 25 337 376741596 376741285 2.910000e-114 422.0
7 TraesCS7A01G316100 chr1D 86.207 87 9 3 374 458 6139478 6139393 9.320000e-15 91.6
8 TraesCS7A01G316100 chr3A 91.083 314 23 4 26 337 474840574 474840884 1.050000e-113 420.0
9 TraesCS7A01G316100 chr3A 88.141 312 33 4 25 334 25389972 25389663 3.840000e-98 368.0
10 TraesCS7A01G316100 chr6D 88.994 318 25 9 20 335 427167392 427167701 3.820000e-103 385.0
11 TraesCS7A01G316100 chr2D 88.272 324 32 6 17 337 299981006 299981326 1.370000e-102 383.0
12 TraesCS7A01G316100 chr2D 88.818 313 26 7 25 335 334080732 334080427 2.300000e-100 375.0
13 TraesCS7A01G316100 chr5D 88.535 314 33 3 25 337 548401804 548402115 6.390000e-101 377.0
14 TraesCS7A01G316100 chr5D 88.179 313 30 5 25 336 371873773 371873467 1.380000e-97 366.0
15 TraesCS7A01G316100 chr3B 88.179 313 30 5 25 335 533855253 533854946 1.380000e-97 366.0
16 TraesCS7A01G316100 chr3D 95.122 41 2 0 1293 1333 481928550 481928590 5.650000e-07 65.8


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 TraesCS7A01G316100 chr7A 450961233 450963679 2446 False 4519.0 4519 100.000000 1 2447 1 chr7A.!!$F1 2446
1 TraesCS7A01G316100 chr7D 396979940 396982975 3035 False 988.2 2636 95.363333 463 2447 3 chr7D.!!$F1 1984
2 TraesCS7A01G316100 chr7B 400633722 400635425 1703 False 2571.0 2571 93.924000 737 2447 1 chr7B.!!$F2 1710

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
54 55 0.034767 TTTCTGCCCAGGCTCATCTG 60.035 55.0 10.58 0.0 42.51 2.9 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1897 2982 1.870055 GCCTGTCAACAGCCACATGG 61.87 60.0 4.58 0.0 42.47 3.66 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
29 30 7.052142 ACCATAACACTATAAGTAGGAGTGC 57.948 40.000 1.29 0.00 43.60 4.40
30 31 6.150318 CCATAACACTATAAGTAGGAGTGCG 58.850 44.000 1.29 0.00 43.60 5.34
31 32 4.650754 AACACTATAAGTAGGAGTGCGG 57.349 45.455 1.29 0.00 43.60 5.69
32 33 2.361438 ACACTATAAGTAGGAGTGCGGC 59.639 50.000 0.00 0.00 43.60 6.53
33 34 1.607628 ACTATAAGTAGGAGTGCGGCG 59.392 52.381 0.51 0.51 31.96 6.46
34 35 1.607628 CTATAAGTAGGAGTGCGGCGT 59.392 52.381 9.37 0.00 0.00 5.68
35 36 0.822164 ATAAGTAGGAGTGCGGCGTT 59.178 50.000 9.37 0.00 0.00 4.84
36 37 0.604578 TAAGTAGGAGTGCGGCGTTT 59.395 50.000 9.37 0.00 0.00 3.60
37 38 0.250166 AAGTAGGAGTGCGGCGTTTT 60.250 50.000 9.37 0.00 0.00 2.43
38 39 0.669625 AGTAGGAGTGCGGCGTTTTC 60.670 55.000 9.37 3.36 0.00 2.29
39 40 0.669625 GTAGGAGTGCGGCGTTTTCT 60.670 55.000 9.37 0.89 0.00 2.52
40 41 0.669318 TAGGAGTGCGGCGTTTTCTG 60.669 55.000 9.37 0.00 0.00 3.02
41 42 2.127232 GAGTGCGGCGTTTTCTGC 60.127 61.111 9.37 0.00 38.78 4.26
48 49 2.985847 GCGTTTTCTGCCCAGGCT 60.986 61.111 10.58 0.00 42.51 4.58
49 50 2.982744 GCGTTTTCTGCCCAGGCTC 61.983 63.158 10.58 0.00 42.51 4.70
50 51 1.600636 CGTTTTCTGCCCAGGCTCA 60.601 57.895 10.58 0.00 42.51 4.26
51 52 0.962356 CGTTTTCTGCCCAGGCTCAT 60.962 55.000 10.58 0.00 42.51 2.90
52 53 0.813821 GTTTTCTGCCCAGGCTCATC 59.186 55.000 10.58 0.00 42.51 2.92
53 54 0.700564 TTTTCTGCCCAGGCTCATCT 59.299 50.000 10.58 0.00 42.51 2.90
54 55 0.034767 TTTCTGCCCAGGCTCATCTG 60.035 55.000 10.58 0.00 42.51 2.90
55 56 2.516460 CTGCCCAGGCTCATCTGC 60.516 66.667 10.58 0.00 42.51 4.26
56 57 3.332385 TGCCCAGGCTCATCTGCA 61.332 61.111 10.58 0.00 42.51 4.41
57 58 2.044650 GCCCAGGCTCATCTGCAA 60.045 61.111 0.08 0.00 38.26 4.08
58 59 1.455217 GCCCAGGCTCATCTGCAAT 60.455 57.895 0.08 0.00 38.26 3.56
59 60 1.453762 GCCCAGGCTCATCTGCAATC 61.454 60.000 0.08 0.00 38.26 2.67
60 61 1.164662 CCCAGGCTCATCTGCAATCG 61.165 60.000 0.00 0.00 33.64 3.34
61 62 1.164662 CCAGGCTCATCTGCAATCGG 61.165 60.000 0.00 0.00 33.64 4.18
62 63 0.179065 CAGGCTCATCTGCAATCGGA 60.179 55.000 0.00 0.00 34.04 4.55
63 64 0.179062 AGGCTCATCTGCAATCGGAC 60.179 55.000 0.00 0.00 34.04 4.79
64 65 0.462581 GGCTCATCTGCAATCGGACA 60.463 55.000 0.00 0.00 34.04 4.02
65 66 0.935898 GCTCATCTGCAATCGGACAG 59.064 55.000 0.00 0.00 35.15 3.51
66 67 1.579698 CTCATCTGCAATCGGACAGG 58.420 55.000 0.00 0.00 34.57 4.00
67 68 1.137675 CTCATCTGCAATCGGACAGGA 59.862 52.381 0.00 0.00 34.57 3.86
68 69 1.554617 TCATCTGCAATCGGACAGGAA 59.445 47.619 0.00 0.00 34.57 3.36
69 70 2.027285 TCATCTGCAATCGGACAGGAAA 60.027 45.455 0.00 0.00 34.57 3.13
70 71 2.559698 TCTGCAATCGGACAGGAAAA 57.440 45.000 0.00 0.00 34.57 2.29
71 72 2.857483 TCTGCAATCGGACAGGAAAAA 58.143 42.857 0.00 0.00 34.57 1.94
72 73 3.420893 TCTGCAATCGGACAGGAAAAAT 58.579 40.909 0.00 0.00 34.57 1.82
73 74 3.826157 TCTGCAATCGGACAGGAAAAATT 59.174 39.130 0.00 0.00 34.57 1.82
74 75 4.280677 TCTGCAATCGGACAGGAAAAATTT 59.719 37.500 0.00 0.00 34.57 1.82
75 76 4.555262 TGCAATCGGACAGGAAAAATTTC 58.445 39.130 0.00 0.00 36.46 2.17
76 77 4.038522 TGCAATCGGACAGGAAAAATTTCA 59.961 37.500 8.06 0.00 38.92 2.69
77 78 4.987912 GCAATCGGACAGGAAAAATTTCAA 59.012 37.500 8.06 0.00 38.92 2.69
78 79 5.465056 GCAATCGGACAGGAAAAATTTCAAA 59.535 36.000 8.06 0.00 38.92 2.69
79 80 6.018343 GCAATCGGACAGGAAAAATTTCAAAA 60.018 34.615 8.06 0.00 38.92 2.44
80 81 7.344441 CAATCGGACAGGAAAAATTTCAAAAC 58.656 34.615 8.06 0.00 38.92 2.43
81 82 5.967088 TCGGACAGGAAAAATTTCAAAACA 58.033 33.333 8.06 0.00 38.92 2.83
82 83 6.398918 TCGGACAGGAAAAATTTCAAAACAA 58.601 32.000 8.06 0.00 38.92 2.83
83 84 6.874134 TCGGACAGGAAAAATTTCAAAACAAA 59.126 30.769 8.06 0.00 38.92 2.83
84 85 7.550906 TCGGACAGGAAAAATTTCAAAACAAAT 59.449 29.630 8.06 0.00 38.92 2.32
85 86 8.821894 CGGACAGGAAAAATTTCAAAACAAATA 58.178 29.630 8.06 0.00 38.92 1.40
86 87 9.929722 GGACAGGAAAAATTTCAAAACAAATAC 57.070 29.630 8.06 0.00 38.92 1.89
142 143 9.612066 TTGTGTAGTAGATAATTTGATGCATGA 57.388 29.630 2.46 0.00 0.00 3.07
143 144 9.783081 TGTGTAGTAGATAATTTGATGCATGAT 57.217 29.630 2.46 0.00 0.00 2.45
145 146 9.783081 TGTAGTAGATAATTTGATGCATGATGT 57.217 29.630 2.46 0.00 0.00 3.06
148 149 8.501580 AGTAGATAATTTGATGCATGATGTTCG 58.498 33.333 2.46 0.00 0.00 3.95
149 150 6.147581 AGATAATTTGATGCATGATGTTCGC 58.852 36.000 2.46 0.00 0.00 4.70
150 151 4.380841 AATTTGATGCATGATGTTCGCT 57.619 36.364 2.46 0.00 0.00 4.93
151 152 3.409851 TTTGATGCATGATGTTCGCTC 57.590 42.857 2.46 0.00 0.00 5.03
152 153 1.302366 TGATGCATGATGTTCGCTCC 58.698 50.000 2.46 0.00 0.00 4.70
153 154 1.302366 GATGCATGATGTTCGCTCCA 58.698 50.000 2.46 0.00 0.00 3.86
154 155 1.672363 GATGCATGATGTTCGCTCCAA 59.328 47.619 2.46 0.00 0.00 3.53
155 156 1.753930 TGCATGATGTTCGCTCCAAT 58.246 45.000 0.00 0.00 0.00 3.16
156 157 2.093890 TGCATGATGTTCGCTCCAATT 58.906 42.857 0.00 0.00 0.00 2.32
157 158 2.492881 TGCATGATGTTCGCTCCAATTT 59.507 40.909 0.00 0.00 0.00 1.82
158 159 3.056678 TGCATGATGTTCGCTCCAATTTT 60.057 39.130 0.00 0.00 0.00 1.82
159 160 3.549070 GCATGATGTTCGCTCCAATTTTC 59.451 43.478 0.00 0.00 0.00 2.29
160 161 4.735985 CATGATGTTCGCTCCAATTTTCA 58.264 39.130 0.00 0.00 0.00 2.69
161 162 4.424061 TGATGTTCGCTCCAATTTTCAG 57.576 40.909 0.00 0.00 0.00 3.02
162 163 4.071423 TGATGTTCGCTCCAATTTTCAGA 58.929 39.130 0.00 0.00 0.00 3.27
163 164 4.701651 TGATGTTCGCTCCAATTTTCAGAT 59.298 37.500 0.00 0.00 0.00 2.90
164 165 4.685169 TGTTCGCTCCAATTTTCAGATC 57.315 40.909 0.00 0.00 0.00 2.75
165 166 4.071423 TGTTCGCTCCAATTTTCAGATCA 58.929 39.130 0.00 0.00 0.00 2.92
166 167 4.701651 TGTTCGCTCCAATTTTCAGATCAT 59.298 37.500 0.00 0.00 0.00 2.45
167 168 5.183713 TGTTCGCTCCAATTTTCAGATCATT 59.816 36.000 0.00 0.00 0.00 2.57
168 169 5.902613 TCGCTCCAATTTTCAGATCATTT 57.097 34.783 0.00 0.00 0.00 2.32
169 170 5.643664 TCGCTCCAATTTTCAGATCATTTG 58.356 37.500 0.00 0.00 0.00 2.32
170 171 5.415389 TCGCTCCAATTTTCAGATCATTTGA 59.585 36.000 0.00 0.00 0.00 2.69
171 172 6.072008 TCGCTCCAATTTTCAGATCATTTGAA 60.072 34.615 0.00 0.00 33.00 2.69
172 173 6.034256 CGCTCCAATTTTCAGATCATTTGAAC 59.966 38.462 0.00 0.00 34.50 3.18
173 174 6.869913 GCTCCAATTTTCAGATCATTTGAACA 59.130 34.615 0.00 0.00 34.50 3.18
174 175 7.548075 GCTCCAATTTTCAGATCATTTGAACAT 59.452 33.333 0.00 0.00 34.50 2.71
175 176 8.991243 TCCAATTTTCAGATCATTTGAACATC 57.009 30.769 0.00 0.00 34.50 3.06
176 177 8.809066 TCCAATTTTCAGATCATTTGAACATCT 58.191 29.630 0.00 0.00 34.50 2.90
177 178 8.869897 CCAATTTTCAGATCATTTGAACATCTG 58.130 33.333 0.00 2.32 43.38 2.90
183 184 8.484641 TCAGATCATTTGAACATCTGAGTAAC 57.515 34.615 6.73 0.00 44.92 2.50
184 185 8.316946 TCAGATCATTTGAACATCTGAGTAACT 58.683 33.333 6.73 0.00 44.92 2.24
185 186 8.602328 CAGATCATTTGAACATCTGAGTAACTC 58.398 37.037 2.54 0.00 44.35 3.01
186 187 8.538701 AGATCATTTGAACATCTGAGTAACTCT 58.461 33.333 0.00 0.00 0.00 3.24
187 188 8.715191 ATCATTTGAACATCTGAGTAACTCTC 57.285 34.615 0.00 0.00 43.03 3.20
214 215 4.830826 AAAAGACAAATCGGGTCAGAAC 57.169 40.909 0.00 0.00 37.74 3.01
215 216 3.485463 AAGACAAATCGGGTCAGAACA 57.515 42.857 0.00 0.00 37.74 3.18
216 217 3.045601 AGACAAATCGGGTCAGAACAG 57.954 47.619 0.00 0.00 37.74 3.16
217 218 2.368875 AGACAAATCGGGTCAGAACAGT 59.631 45.455 0.00 0.00 37.74 3.55
218 219 2.480419 GACAAATCGGGTCAGAACAGTG 59.520 50.000 0.00 0.00 35.36 3.66
219 220 1.197721 CAAATCGGGTCAGAACAGTGC 59.802 52.381 0.00 0.00 0.00 4.40
220 221 0.670546 AATCGGGTCAGAACAGTGCG 60.671 55.000 0.00 0.00 0.00 5.34
221 222 1.816863 ATCGGGTCAGAACAGTGCGT 61.817 55.000 0.00 0.00 0.00 5.24
222 223 2.310233 CGGGTCAGAACAGTGCGTG 61.310 63.158 0.00 0.00 0.00 5.34
223 224 1.069090 GGGTCAGAACAGTGCGTGA 59.931 57.895 0.00 0.00 0.00 4.35
224 225 0.531974 GGGTCAGAACAGTGCGTGAA 60.532 55.000 0.00 0.00 0.00 3.18
225 226 0.582005 GGTCAGAACAGTGCGTGAAC 59.418 55.000 0.00 0.00 0.00 3.18
226 227 1.286501 GTCAGAACAGTGCGTGAACA 58.713 50.000 0.00 0.00 0.00 3.18
227 228 1.258982 GTCAGAACAGTGCGTGAACAG 59.741 52.381 0.00 0.00 0.00 3.16
228 229 1.134818 TCAGAACAGTGCGTGAACAGT 60.135 47.619 0.00 0.00 0.00 3.55
229 230 2.100087 TCAGAACAGTGCGTGAACAGTA 59.900 45.455 0.00 0.00 0.00 2.74
230 231 2.863740 CAGAACAGTGCGTGAACAGTAA 59.136 45.455 0.00 0.00 0.00 2.24
231 232 3.308595 CAGAACAGTGCGTGAACAGTAAA 59.691 43.478 0.00 0.00 0.00 2.01
232 233 3.308866 AGAACAGTGCGTGAACAGTAAAC 59.691 43.478 0.00 0.00 0.00 2.01
233 234 2.901249 ACAGTGCGTGAACAGTAAACT 58.099 42.857 0.00 0.00 0.00 2.66
234 235 3.267483 ACAGTGCGTGAACAGTAAACTT 58.733 40.909 0.00 0.00 0.00 2.66
235 236 3.687698 ACAGTGCGTGAACAGTAAACTTT 59.312 39.130 0.00 0.00 0.00 2.66
236 237 4.155280 ACAGTGCGTGAACAGTAAACTTTT 59.845 37.500 0.00 0.00 0.00 2.27
237 238 5.092781 CAGTGCGTGAACAGTAAACTTTTT 58.907 37.500 0.00 0.00 0.00 1.94
256 257 5.855740 TTTTTACAGACCCCGAATTTGTT 57.144 34.783 0.00 0.00 0.00 2.83
257 258 5.855740 TTTTACAGACCCCGAATTTGTTT 57.144 34.783 0.00 0.00 0.00 2.83
258 259 5.855740 TTTACAGACCCCGAATTTGTTTT 57.144 34.783 0.00 0.00 0.00 2.43
259 260 5.855740 TTACAGACCCCGAATTTGTTTTT 57.144 34.783 0.00 0.00 0.00 1.94
280 281 3.407424 TTTTGCTAAGAGCTGCTCAGA 57.593 42.857 29.49 16.34 42.97 3.27
281 282 3.623906 TTTGCTAAGAGCTGCTCAGAT 57.376 42.857 29.49 17.79 42.97 2.90
282 283 2.598686 TGCTAAGAGCTGCTCAGATG 57.401 50.000 29.49 17.23 42.97 2.90
283 284 1.829849 TGCTAAGAGCTGCTCAGATGT 59.170 47.619 29.49 7.47 42.97 3.06
284 285 2.159128 TGCTAAGAGCTGCTCAGATGTC 60.159 50.000 29.49 14.14 42.97 3.06
285 286 2.730069 CTAAGAGCTGCTCAGATGTCG 58.270 52.381 29.49 8.25 32.06 4.35
286 287 1.180907 AAGAGCTGCTCAGATGTCGA 58.819 50.000 29.49 0.00 32.06 4.20
287 288 1.180907 AGAGCTGCTCAGATGTCGAA 58.819 50.000 29.49 0.00 32.06 3.71
288 289 1.547820 AGAGCTGCTCAGATGTCGAAA 59.452 47.619 29.49 0.00 32.06 3.46
289 290 2.168106 AGAGCTGCTCAGATGTCGAAAT 59.832 45.455 29.49 3.19 32.06 2.17
290 291 2.277969 AGCTGCTCAGATGTCGAAATG 58.722 47.619 0.00 0.00 0.00 2.32
291 292 2.093816 AGCTGCTCAGATGTCGAAATGA 60.094 45.455 0.00 0.00 0.00 2.57
292 293 2.871022 GCTGCTCAGATGTCGAAATGAT 59.129 45.455 0.00 0.00 0.00 2.45
293 294 3.311871 GCTGCTCAGATGTCGAAATGATT 59.688 43.478 0.00 0.00 0.00 2.57
294 295 4.201891 GCTGCTCAGATGTCGAAATGATTT 60.202 41.667 0.00 0.00 0.00 2.17
295 296 5.225899 TGCTCAGATGTCGAAATGATTTG 57.774 39.130 0.00 0.00 0.00 2.32
296 297 4.937015 TGCTCAGATGTCGAAATGATTTGA 59.063 37.500 0.00 0.00 0.00 2.69
297 298 5.412286 TGCTCAGATGTCGAAATGATTTGAA 59.588 36.000 0.00 0.00 30.69 2.69
298 299 6.072563 TGCTCAGATGTCGAAATGATTTGAAA 60.073 34.615 0.00 0.00 30.69 2.69
299 300 6.803320 GCTCAGATGTCGAAATGATTTGAAAA 59.197 34.615 0.00 0.00 30.69 2.29
300 301 7.487189 GCTCAGATGTCGAAATGATTTGAAAAT 59.513 33.333 0.00 0.00 30.69 1.82
301 302 9.350357 CTCAGATGTCGAAATGATTTGAAAATT 57.650 29.630 0.00 0.00 30.69 1.82
307 308 8.423973 TGTCGAAATGATTTGAAAATTAAAGCG 58.576 29.630 0.00 0.00 30.69 4.68
308 309 8.635124 GTCGAAATGATTTGAAAATTAAAGCGA 58.365 29.630 0.00 0.00 30.69 4.93
309 310 9.186323 TCGAAATGATTTGAAAATTAAAGCGAA 57.814 25.926 0.00 0.00 0.00 4.70
310 311 9.238477 CGAAATGATTTGAAAATTAAAGCGAAC 57.762 29.630 0.00 0.00 0.00 3.95
311 312 9.528847 GAAATGATTTGAAAATTAAAGCGAACC 57.471 29.630 0.00 0.00 0.00 3.62
312 313 8.831715 AATGATTTGAAAATTAAAGCGAACCT 57.168 26.923 0.00 0.00 0.00 3.50
313 314 7.867445 TGATTTGAAAATTAAAGCGAACCTC 57.133 32.000 0.00 0.00 0.00 3.85
314 315 7.429633 TGATTTGAAAATTAAAGCGAACCTCA 58.570 30.769 0.00 0.00 0.00 3.86
315 316 7.381139 TGATTTGAAAATTAAAGCGAACCTCAC 59.619 33.333 0.00 0.00 0.00 3.51
316 317 4.778904 TGAAAATTAAAGCGAACCTCACG 58.221 39.130 0.00 0.00 0.00 4.35
325 326 2.900122 CGAACCTCACGCATCAAATT 57.100 45.000 0.00 0.00 0.00 1.82
327 328 4.536364 CGAACCTCACGCATCAAATTAT 57.464 40.909 0.00 0.00 0.00 1.28
328 329 4.518217 CGAACCTCACGCATCAAATTATC 58.482 43.478 0.00 0.00 0.00 1.75
329 330 4.271049 CGAACCTCACGCATCAAATTATCT 59.729 41.667 0.00 0.00 0.00 1.98
330 331 5.462068 CGAACCTCACGCATCAAATTATCTA 59.538 40.000 0.00 0.00 0.00 1.98
331 332 6.562270 CGAACCTCACGCATCAAATTATCTAC 60.562 42.308 0.00 0.00 0.00 2.59
332 333 5.057149 ACCTCACGCATCAAATTATCTACC 58.943 41.667 0.00 0.00 0.00 3.18
333 334 5.056480 CCTCACGCATCAAATTATCTACCA 58.944 41.667 0.00 0.00 0.00 3.25
334 335 5.050091 CCTCACGCATCAAATTATCTACCAC 60.050 44.000 0.00 0.00 0.00 4.16
335 336 5.423886 TCACGCATCAAATTATCTACCACA 58.576 37.500 0.00 0.00 0.00 4.17
336 337 5.293324 TCACGCATCAAATTATCTACCACAC 59.707 40.000 0.00 0.00 0.00 3.82
337 338 5.294306 CACGCATCAAATTATCTACCACACT 59.706 40.000 0.00 0.00 0.00 3.55
338 339 5.523916 ACGCATCAAATTATCTACCACACTC 59.476 40.000 0.00 0.00 0.00 3.51
339 340 5.332581 CGCATCAAATTATCTACCACACTCG 60.333 44.000 0.00 0.00 0.00 4.18
340 341 5.523916 GCATCAAATTATCTACCACACTCGT 59.476 40.000 0.00 0.00 0.00 4.18
341 342 6.037172 GCATCAAATTATCTACCACACTCGTT 59.963 38.462 0.00 0.00 0.00 3.85
342 343 7.414098 GCATCAAATTATCTACCACACTCGTTT 60.414 37.037 0.00 0.00 0.00 3.60
343 344 7.591006 TCAAATTATCTACCACACTCGTTTC 57.409 36.000 0.00 0.00 0.00 2.78
344 345 7.156000 TCAAATTATCTACCACACTCGTTTCA 58.844 34.615 0.00 0.00 0.00 2.69
345 346 7.658167 TCAAATTATCTACCACACTCGTTTCAA 59.342 33.333 0.00 0.00 0.00 2.69
346 347 7.972832 AATTATCTACCACACTCGTTTCAAA 57.027 32.000 0.00 0.00 0.00 2.69
347 348 7.972832 ATTATCTACCACACTCGTTTCAAAA 57.027 32.000 0.00 0.00 0.00 2.44
348 349 7.789273 TTATCTACCACACTCGTTTCAAAAA 57.211 32.000 0.00 0.00 0.00 1.94
380 381 9.612066 ATCTACCACACACAAAATTTTTGAAAT 57.388 25.926 24.73 9.38 0.00 2.17
428 429 4.544001 TTTTTCGTCAGCGTGGGT 57.456 50.000 0.00 0.00 39.49 4.51
429 430 2.018544 TTTTTCGTCAGCGTGGGTG 58.981 52.632 0.00 0.00 39.49 4.61
430 431 2.054140 TTTTTCGTCAGCGTGGGTGC 62.054 55.000 0.00 0.00 39.49 5.01
431 432 3.741830 TTTCGTCAGCGTGGGTGCA 62.742 57.895 0.00 0.00 39.49 4.57
432 433 4.662961 TCGTCAGCGTGGGTGCAG 62.663 66.667 0.00 0.00 39.49 4.41
433 434 4.662961 CGTCAGCGTGGGTGCAGA 62.663 66.667 0.00 0.00 37.31 4.26
434 435 2.046892 GTCAGCGTGGGTGCAGAT 60.047 61.111 0.00 0.00 37.31 2.90
435 436 2.046988 TCAGCGTGGGTGCAGATG 60.047 61.111 0.00 0.00 37.31 2.90
436 437 2.046988 CAGCGTGGGTGCAGATGA 60.047 61.111 0.00 0.00 37.31 2.92
437 438 2.104859 CAGCGTGGGTGCAGATGAG 61.105 63.158 0.00 0.00 37.31 2.90
438 439 3.503363 GCGTGGGTGCAGATGAGC 61.503 66.667 0.00 0.00 34.15 4.26
439 440 2.821366 CGTGGGTGCAGATGAGCC 60.821 66.667 0.00 0.00 0.00 4.70
440 441 2.673523 GTGGGTGCAGATGAGCCT 59.326 61.111 0.00 0.00 31.85 4.58
441 442 1.748122 GTGGGTGCAGATGAGCCTG 60.748 63.158 0.00 0.00 37.23 4.85
442 443 2.124403 GGGTGCAGATGAGCCTGG 60.124 66.667 0.00 0.00 34.82 4.45
443 444 2.673200 GGGTGCAGATGAGCCTGGA 61.673 63.158 0.00 0.00 34.82 3.86
444 445 4.215349 GTGCAGATGAGCCTGGAC 57.785 61.111 0.00 0.00 45.58 4.02
445 446 4.142045 TGCAGATGAGCCTGGACT 57.858 55.556 0.00 0.00 34.82 3.85
446 447 1.903294 TGCAGATGAGCCTGGACTC 59.097 57.895 0.00 4.48 37.19 3.36
454 455 3.507162 TGAGCCTGGACTCAAAAATGA 57.493 42.857 15.41 0.00 43.59 2.57
455 456 3.831323 TGAGCCTGGACTCAAAAATGAA 58.169 40.909 15.41 0.00 43.59 2.57
456 457 4.410099 TGAGCCTGGACTCAAAAATGAAT 58.590 39.130 15.41 0.00 43.59 2.57
457 458 4.834496 TGAGCCTGGACTCAAAAATGAATT 59.166 37.500 15.41 0.00 43.59 2.17
458 459 6.009589 TGAGCCTGGACTCAAAAATGAATTA 58.990 36.000 15.41 0.00 43.59 1.40
459 460 6.664816 TGAGCCTGGACTCAAAAATGAATTAT 59.335 34.615 15.41 0.00 43.59 1.28
460 461 7.833682 TGAGCCTGGACTCAAAAATGAATTATA 59.166 33.333 15.41 0.00 43.59 0.98
461 462 8.773033 AGCCTGGACTCAAAAATGAATTATAT 57.227 30.769 0.00 0.00 0.00 0.86
462 463 8.854117 AGCCTGGACTCAAAAATGAATTATATC 58.146 33.333 0.00 0.00 0.00 1.63
463 464 8.084684 GCCTGGACTCAAAAATGAATTATATCC 58.915 37.037 0.00 0.00 0.00 2.59
464 465 9.359653 CCTGGACTCAAAAATGAATTATATCCT 57.640 33.333 0.00 0.00 0.00 3.24
515 516 6.126409 ACTCACTTCAATTTGTTTCCTACCA 58.874 36.000 0.00 0.00 0.00 3.25
517 518 7.123547 ACTCACTTCAATTTGTTTCCTACCAAA 59.876 33.333 0.00 0.00 0.00 3.28
518 519 7.841956 TCACTTCAATTTGTTTCCTACCAAAA 58.158 30.769 0.00 0.00 0.00 2.44
519 520 7.978975 TCACTTCAATTTGTTTCCTACCAAAAG 59.021 33.333 0.00 0.00 0.00 2.27
520 521 7.763985 CACTTCAATTTGTTTCCTACCAAAAGT 59.236 33.333 0.00 0.00 0.00 2.66
522 523 9.161629 CTTCAATTTGTTTCCTACCAAAAGTTT 57.838 29.630 0.00 0.00 0.00 2.66
584 870 3.616956 TGGACTTGCCATTCTCTGTAG 57.383 47.619 0.00 0.00 43.33 2.74
593 879 5.744171 TGCCATTCTCTGTAGCAAAAGATA 58.256 37.500 0.00 0.00 0.00 1.98
613 900 9.620259 AAAGATATTTTAGTGAATCCTGTCCTC 57.380 33.333 0.00 0.00 0.00 3.71
661 948 3.171388 AGGGGACATGGGCCGATC 61.171 66.667 0.00 0.00 0.00 3.69
662 949 4.271016 GGGGACATGGGCCGATCC 62.271 72.222 11.16 11.16 0.00 3.36
685 972 1.089481 TCGCATTTCTCGCATGACCC 61.089 55.000 0.00 0.00 0.00 4.46
686 973 1.729881 GCATTTCTCGCATGACCCC 59.270 57.895 0.00 0.00 0.00 4.95
687 974 1.728490 GCATTTCTCGCATGACCCCC 61.728 60.000 0.00 0.00 0.00 5.40
688 975 0.107017 CATTTCTCGCATGACCCCCT 60.107 55.000 0.00 0.00 0.00 4.79
689 976 0.625849 ATTTCTCGCATGACCCCCTT 59.374 50.000 0.00 0.00 0.00 3.95
692 979 4.467084 TCGCATGACCCCCTTCGC 62.467 66.667 0.00 0.00 0.00 4.70
694 981 2.825836 GCATGACCCCCTTCGCAG 60.826 66.667 0.00 0.00 0.00 5.18
695 982 2.124570 CATGACCCCCTTCGCAGG 60.125 66.667 0.00 0.00 40.45 4.85
696 983 4.115199 ATGACCCCCTTCGCAGGC 62.115 66.667 0.00 0.00 39.20 4.85
735 1027 3.214328 GCTGTCCGGATCATAAAATGGT 58.786 45.455 7.81 0.00 0.00 3.55
778 1090 4.463879 CTCCCTGCAGGTCCAGCG 62.464 72.222 30.63 14.69 36.75 5.18
916 1996 1.611491 ACCAAATCAATCAAACGCGGT 59.389 42.857 12.47 0.00 0.00 5.68
1023 2108 2.817396 GGCAAGGAGCTGAGCGAC 60.817 66.667 0.00 0.00 44.79 5.19
1529 2614 6.727974 CGCGTGATTTTATTTCGTATCATCTC 59.272 38.462 0.00 0.00 30.51 2.75
1569 2654 3.057174 TCTGTTTTGTGCTTTGGTTTCGT 60.057 39.130 0.00 0.00 0.00 3.85
1657 2742 4.202000 CCGATGGTATTGCAATGTAAAGCA 60.202 41.667 22.27 16.95 39.32 3.91
1806 2891 2.833943 TCTGATGCTAGCACAGGAGAAA 59.166 45.455 30.12 17.56 33.19 2.52
1880 2965 2.514803 CGGGAGGGTCATTCTTGTTTT 58.485 47.619 0.00 0.00 0.00 2.43
1882 2967 3.439129 CGGGAGGGTCATTCTTGTTTTAC 59.561 47.826 0.00 0.00 0.00 2.01
1902 2987 8.671028 GTTTTACTTGATCGGTTAATACCATGT 58.329 33.333 0.00 0.00 45.31 3.21
1965 3050 6.697395 ACAATAAGGTTGTTGGAATTTAGGC 58.303 36.000 4.49 0.00 34.12 3.93
1966 3051 6.268847 ACAATAAGGTTGTTGGAATTTAGGCA 59.731 34.615 4.49 0.00 34.12 4.75
1967 3052 7.038373 ACAATAAGGTTGTTGGAATTTAGGCAT 60.038 33.333 4.49 0.00 34.12 4.40
1968 3053 8.474025 CAATAAGGTTGTTGGAATTTAGGCATA 58.526 33.333 0.00 0.00 0.00 3.14
1969 3054 8.782137 ATAAGGTTGTTGGAATTTAGGCATAT 57.218 30.769 0.00 0.00 0.00 1.78
1970 3055 7.494922 AAGGTTGTTGGAATTTAGGCATATT 57.505 32.000 0.00 0.00 0.00 1.28
1971 3056 8.602472 AAGGTTGTTGGAATTTAGGCATATTA 57.398 30.769 0.00 0.00 0.00 0.98
1974 3059 8.352942 GGTTGTTGGAATTTAGGCATATTAGAG 58.647 37.037 0.00 0.00 0.00 2.43
1975 3060 7.510549 TGTTGGAATTTAGGCATATTAGAGC 57.489 36.000 0.00 0.00 0.00 4.09
1978 3063 9.454859 GTTGGAATTTAGGCATATTAGAGCTAT 57.545 33.333 0.00 0.00 0.00 2.97
2032 3117 7.335627 CCAATCTATGGTTCAGTTACCTACAA 58.664 38.462 0.00 0.00 44.85 2.41
2077 3162 3.697542 TGCTGGGTCATTGATTGATCTTG 59.302 43.478 0.00 0.00 35.64 3.02
2207 3292 6.183360 GGATGGTAAGGTTCTGGATCAAATTG 60.183 42.308 0.00 0.00 0.00 2.32
2210 3295 6.180472 GGTAAGGTTCTGGATCAAATTGAGA 58.820 40.000 1.10 0.00 0.00 3.27
2366 3458 5.472148 ACGGTAATGACGTCACTTCAATAA 58.528 37.500 22.71 0.00 41.25 1.40
2424 3521 5.122554 TGCTTAGAAGAGTTCAGTCTACTCG 59.877 44.000 0.00 0.00 45.22 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 6.238953 CGCACTCCTACTTATAGTGTTATGGT 60.239 42.308 0.00 0.00 42.10 3.55
6 7 6.150318 CGCACTCCTACTTATAGTGTTATGG 58.850 44.000 0.00 0.00 42.10 2.74
7 8 6.150318 CCGCACTCCTACTTATAGTGTTATG 58.850 44.000 0.00 0.00 42.10 1.90
8 9 5.278858 GCCGCACTCCTACTTATAGTGTTAT 60.279 44.000 0.00 0.00 42.10 1.89
9 10 4.037208 GCCGCACTCCTACTTATAGTGTTA 59.963 45.833 0.00 0.00 42.10 2.41
10 11 3.181478 GCCGCACTCCTACTTATAGTGTT 60.181 47.826 0.00 0.00 42.10 3.32
11 12 2.361438 GCCGCACTCCTACTTATAGTGT 59.639 50.000 0.00 0.00 42.10 3.55
12 13 2.604855 CGCCGCACTCCTACTTATAGTG 60.605 54.545 0.00 0.00 42.80 2.74
13 14 1.607628 CGCCGCACTCCTACTTATAGT 59.392 52.381 0.00 0.00 0.00 2.12
14 15 1.607628 ACGCCGCACTCCTACTTATAG 59.392 52.381 0.00 0.00 0.00 1.31
15 16 1.683943 ACGCCGCACTCCTACTTATA 58.316 50.000 0.00 0.00 0.00 0.98
16 17 0.822164 AACGCCGCACTCCTACTTAT 59.178 50.000 0.00 0.00 0.00 1.73
17 18 0.604578 AAACGCCGCACTCCTACTTA 59.395 50.000 0.00 0.00 0.00 2.24
18 19 0.250166 AAAACGCCGCACTCCTACTT 60.250 50.000 0.00 0.00 0.00 2.24
19 20 0.669625 GAAAACGCCGCACTCCTACT 60.670 55.000 0.00 0.00 0.00 2.57
20 21 0.669625 AGAAAACGCCGCACTCCTAC 60.670 55.000 0.00 0.00 0.00 3.18
21 22 0.669318 CAGAAAACGCCGCACTCCTA 60.669 55.000 0.00 0.00 0.00 2.94
22 23 1.961277 CAGAAAACGCCGCACTCCT 60.961 57.895 0.00 0.00 0.00 3.69
23 24 2.556287 CAGAAAACGCCGCACTCC 59.444 61.111 0.00 0.00 0.00 3.85
24 25 2.127232 GCAGAAAACGCCGCACTC 60.127 61.111 0.00 0.00 0.00 3.51
25 26 3.660111 GGCAGAAAACGCCGCACT 61.660 61.111 0.00 0.00 40.35 4.40
31 32 2.982744 GAGCCTGGGCAGAAAACGC 61.983 63.158 14.39 0.00 44.88 4.84
32 33 0.962356 ATGAGCCTGGGCAGAAAACG 60.962 55.000 14.39 0.00 44.88 3.60
33 34 0.813821 GATGAGCCTGGGCAGAAAAC 59.186 55.000 14.39 0.00 44.88 2.43
34 35 0.700564 AGATGAGCCTGGGCAGAAAA 59.299 50.000 14.39 0.00 44.88 2.29
35 36 0.034767 CAGATGAGCCTGGGCAGAAA 60.035 55.000 14.39 0.00 44.88 2.52
36 37 1.605992 CAGATGAGCCTGGGCAGAA 59.394 57.895 14.39 0.00 44.88 3.02
37 38 3.040206 GCAGATGAGCCTGGGCAGA 62.040 63.158 14.39 0.00 44.88 4.26
38 39 2.516460 GCAGATGAGCCTGGGCAG 60.516 66.667 14.39 0.00 44.88 4.85
39 40 2.219449 ATTGCAGATGAGCCTGGGCA 62.219 55.000 14.39 0.00 44.88 5.36
40 41 1.453762 GATTGCAGATGAGCCTGGGC 61.454 60.000 3.00 3.00 42.33 5.36
41 42 1.164662 CGATTGCAGATGAGCCTGGG 61.165 60.000 0.00 0.00 34.82 4.45
42 43 1.164662 CCGATTGCAGATGAGCCTGG 61.165 60.000 0.00 0.00 34.82 4.45
43 44 0.179065 TCCGATTGCAGATGAGCCTG 60.179 55.000 0.00 0.00 37.23 4.85
44 45 0.179062 GTCCGATTGCAGATGAGCCT 60.179 55.000 0.00 0.00 0.00 4.58
45 46 0.462581 TGTCCGATTGCAGATGAGCC 60.463 55.000 0.00 0.00 0.00 4.70
46 47 0.935898 CTGTCCGATTGCAGATGAGC 59.064 55.000 0.00 0.00 34.87 4.26
47 48 1.137675 TCCTGTCCGATTGCAGATGAG 59.862 52.381 0.00 0.00 34.87 2.90
48 49 1.194218 TCCTGTCCGATTGCAGATGA 58.806 50.000 0.00 0.00 34.87 2.92
49 50 2.028420 TTCCTGTCCGATTGCAGATG 57.972 50.000 0.00 0.00 34.87 2.90
50 51 2.787473 TTTCCTGTCCGATTGCAGAT 57.213 45.000 0.00 0.00 34.87 2.90
51 52 2.559698 TTTTCCTGTCCGATTGCAGA 57.440 45.000 0.00 0.00 34.87 4.26
52 53 3.855689 ATTTTTCCTGTCCGATTGCAG 57.144 42.857 0.00 0.00 0.00 4.41
53 54 4.038522 TGAAATTTTTCCTGTCCGATTGCA 59.961 37.500 0.00 0.00 36.36 4.08
54 55 4.555262 TGAAATTTTTCCTGTCCGATTGC 58.445 39.130 0.00 0.00 36.36 3.56
55 56 7.010923 TGTTTTGAAATTTTTCCTGTCCGATTG 59.989 33.333 0.00 0.00 36.36 2.67
56 57 7.044798 TGTTTTGAAATTTTTCCTGTCCGATT 58.955 30.769 0.00 0.00 36.36 3.34
57 58 6.578023 TGTTTTGAAATTTTTCCTGTCCGAT 58.422 32.000 0.00 0.00 36.36 4.18
58 59 5.967088 TGTTTTGAAATTTTTCCTGTCCGA 58.033 33.333 0.00 0.00 36.36 4.55
59 60 6.654793 TTGTTTTGAAATTTTTCCTGTCCG 57.345 33.333 0.00 0.00 36.36 4.79
60 61 9.929722 GTATTTGTTTTGAAATTTTTCCTGTCC 57.070 29.630 0.00 0.00 36.36 4.02
116 117 9.612066 TCATGCATCAAATTATCTACTACACAA 57.388 29.630 0.00 0.00 0.00 3.33
117 118 9.783081 ATCATGCATCAAATTATCTACTACACA 57.217 29.630 0.00 0.00 0.00 3.72
119 120 9.783081 ACATCATGCATCAAATTATCTACTACA 57.217 29.630 0.00 0.00 0.00 2.74
122 123 8.501580 CGAACATCATGCATCAAATTATCTACT 58.498 33.333 0.00 0.00 0.00 2.57
123 124 7.269937 GCGAACATCATGCATCAAATTATCTAC 59.730 37.037 0.00 0.00 0.00 2.59
124 125 7.173735 AGCGAACATCATGCATCAAATTATCTA 59.826 33.333 0.00 0.00 0.00 1.98
125 126 6.016527 AGCGAACATCATGCATCAAATTATCT 60.017 34.615 0.00 0.00 0.00 1.98
126 127 6.147581 AGCGAACATCATGCATCAAATTATC 58.852 36.000 0.00 0.00 0.00 1.75
127 128 6.080648 AGCGAACATCATGCATCAAATTAT 57.919 33.333 0.00 0.00 0.00 1.28
128 129 5.503662 AGCGAACATCATGCATCAAATTA 57.496 34.783 0.00 0.00 0.00 1.40
129 130 4.357142 GAGCGAACATCATGCATCAAATT 58.643 39.130 0.00 0.00 0.00 1.82
130 131 3.243301 GGAGCGAACATCATGCATCAAAT 60.243 43.478 0.00 0.00 0.00 2.32
131 132 2.097954 GGAGCGAACATCATGCATCAAA 59.902 45.455 0.00 0.00 0.00 2.69
132 133 1.672363 GGAGCGAACATCATGCATCAA 59.328 47.619 0.00 0.00 0.00 2.57
133 134 1.302366 GGAGCGAACATCATGCATCA 58.698 50.000 0.00 0.00 0.00 3.07
134 135 1.302366 TGGAGCGAACATCATGCATC 58.698 50.000 0.00 0.00 0.00 3.91
135 136 1.753930 TTGGAGCGAACATCATGCAT 58.246 45.000 0.00 0.00 0.00 3.96
136 137 1.753930 ATTGGAGCGAACATCATGCA 58.246 45.000 0.00 0.00 0.00 3.96
137 138 2.857592 AATTGGAGCGAACATCATGC 57.142 45.000 0.00 0.00 0.00 4.06
138 139 4.735985 TGAAAATTGGAGCGAACATCATG 58.264 39.130 0.00 0.00 0.00 3.07
139 140 4.701651 TCTGAAAATTGGAGCGAACATCAT 59.298 37.500 0.00 0.00 0.00 2.45
140 141 4.071423 TCTGAAAATTGGAGCGAACATCA 58.929 39.130 0.00 0.00 0.00 3.07
141 142 4.685169 TCTGAAAATTGGAGCGAACATC 57.315 40.909 0.00 0.00 0.00 3.06
142 143 4.701651 TGATCTGAAAATTGGAGCGAACAT 59.298 37.500 0.00 0.00 0.00 2.71
143 144 4.071423 TGATCTGAAAATTGGAGCGAACA 58.929 39.130 0.00 0.00 0.00 3.18
144 145 4.685169 TGATCTGAAAATTGGAGCGAAC 57.315 40.909 0.00 0.00 0.00 3.95
145 146 5.902613 AATGATCTGAAAATTGGAGCGAA 57.097 34.783 0.00 0.00 0.00 4.70
146 147 5.415389 TCAAATGATCTGAAAATTGGAGCGA 59.585 36.000 0.00 0.00 0.00 4.93
147 148 5.643664 TCAAATGATCTGAAAATTGGAGCG 58.356 37.500 0.00 0.00 0.00 5.03
148 149 6.869913 TGTTCAAATGATCTGAAAATTGGAGC 59.130 34.615 0.00 0.00 34.68 4.70
149 150 8.997621 ATGTTCAAATGATCTGAAAATTGGAG 57.002 30.769 0.00 0.00 34.68 3.86
150 151 8.809066 AGATGTTCAAATGATCTGAAAATTGGA 58.191 29.630 1.54 0.00 32.05 3.53
151 152 8.869897 CAGATGTTCAAATGATCTGAAAATTGG 58.130 33.333 0.00 0.00 43.94 3.16
152 153 9.634163 TCAGATGTTCAAATGATCTGAAAATTG 57.366 29.630 11.05 3.10 45.77 2.32
158 159 8.316946 AGTTACTCAGATGTTCAAATGATCTGA 58.683 33.333 12.30 12.30 46.29 3.27
159 160 8.489990 AGTTACTCAGATGTTCAAATGATCTG 57.510 34.615 0.00 0.00 43.01 2.90
160 161 8.538701 AGAGTTACTCAGATGTTCAAATGATCT 58.461 33.333 15.23 0.00 32.06 2.75
161 162 8.715191 AGAGTTACTCAGATGTTCAAATGATC 57.285 34.615 15.23 0.00 32.06 2.92
162 163 8.715191 GAGAGTTACTCAGATGTTCAAATGAT 57.285 34.615 15.23 0.00 44.36 2.45
192 193 4.642885 TGTTCTGACCCGATTTGTCTTTTT 59.357 37.500 0.00 0.00 33.83 1.94
193 194 4.204012 TGTTCTGACCCGATTTGTCTTTT 58.796 39.130 0.00 0.00 33.83 2.27
194 195 3.815401 CTGTTCTGACCCGATTTGTCTTT 59.185 43.478 0.00 0.00 33.83 2.52
195 196 3.181454 ACTGTTCTGACCCGATTTGTCTT 60.181 43.478 0.00 0.00 33.83 3.01
196 197 2.368875 ACTGTTCTGACCCGATTTGTCT 59.631 45.455 0.00 0.00 33.83 3.41
197 198 2.480419 CACTGTTCTGACCCGATTTGTC 59.520 50.000 0.00 0.00 0.00 3.18
198 199 2.494059 CACTGTTCTGACCCGATTTGT 58.506 47.619 0.00 0.00 0.00 2.83
199 200 1.197721 GCACTGTTCTGACCCGATTTG 59.802 52.381 0.00 0.00 0.00 2.32
200 201 1.523758 GCACTGTTCTGACCCGATTT 58.476 50.000 0.00 0.00 0.00 2.17
201 202 0.670546 CGCACTGTTCTGACCCGATT 60.671 55.000 0.00 0.00 0.00 3.34
202 203 1.079819 CGCACTGTTCTGACCCGAT 60.080 57.895 0.00 0.00 0.00 4.18
203 204 2.338620 CGCACTGTTCTGACCCGA 59.661 61.111 0.00 0.00 0.00 5.14
204 205 2.029073 ACGCACTGTTCTGACCCG 59.971 61.111 0.00 0.00 0.00 5.28
205 206 0.531974 TTCACGCACTGTTCTGACCC 60.532 55.000 0.00 0.00 0.00 4.46
206 207 0.582005 GTTCACGCACTGTTCTGACC 59.418 55.000 0.00 0.00 0.00 4.02
207 208 1.258982 CTGTTCACGCACTGTTCTGAC 59.741 52.381 0.00 0.00 0.00 3.51
208 209 1.134818 ACTGTTCACGCACTGTTCTGA 60.135 47.619 0.00 0.00 0.00 3.27
209 210 1.290203 ACTGTTCACGCACTGTTCTG 58.710 50.000 0.00 0.00 0.00 3.02
210 211 2.882927 TACTGTTCACGCACTGTTCT 57.117 45.000 0.00 0.00 31.81 3.01
211 212 3.308866 AGTTTACTGTTCACGCACTGTTC 59.691 43.478 0.00 0.00 31.81 3.18
212 213 3.267483 AGTTTACTGTTCACGCACTGTT 58.733 40.909 0.00 0.00 31.81 3.16
213 214 2.901249 AGTTTACTGTTCACGCACTGT 58.099 42.857 0.00 0.00 33.75 3.55
214 215 3.944422 AAGTTTACTGTTCACGCACTG 57.056 42.857 0.00 0.00 0.00 3.66
215 216 4.957759 AAAAGTTTACTGTTCACGCACT 57.042 36.364 0.00 0.00 0.00 4.40
234 235 5.855740 AACAAATTCGGGGTCTGTAAAAA 57.144 34.783 0.00 0.00 0.00 1.94
235 236 5.855740 AAACAAATTCGGGGTCTGTAAAA 57.144 34.783 0.00 0.00 0.00 1.52
236 237 5.855740 AAAACAAATTCGGGGTCTGTAAA 57.144 34.783 0.00 0.00 0.00 2.01
237 238 5.855740 AAAAACAAATTCGGGGTCTGTAA 57.144 34.783 0.00 0.00 0.00 2.41
259 260 3.743521 TCTGAGCAGCTCTTAGCAAAAA 58.256 40.909 23.15 0.00 45.56 1.94
260 261 3.407424 TCTGAGCAGCTCTTAGCAAAA 57.593 42.857 23.15 0.00 45.56 2.44
261 262 3.268330 CATCTGAGCAGCTCTTAGCAAA 58.732 45.455 23.15 0.00 45.56 3.68
262 263 2.235650 ACATCTGAGCAGCTCTTAGCAA 59.764 45.455 23.15 0.68 45.56 3.91
263 264 1.829849 ACATCTGAGCAGCTCTTAGCA 59.170 47.619 23.15 2.15 45.56 3.49
264 265 2.472816 GACATCTGAGCAGCTCTTAGC 58.527 52.381 23.15 4.64 42.84 3.09
265 266 2.357323 TCGACATCTGAGCAGCTCTTAG 59.643 50.000 23.15 13.18 0.00 2.18
266 267 2.369394 TCGACATCTGAGCAGCTCTTA 58.631 47.619 23.15 11.46 0.00 2.10
267 268 1.180907 TCGACATCTGAGCAGCTCTT 58.819 50.000 23.15 5.67 0.00 2.85
268 269 1.180907 TTCGACATCTGAGCAGCTCT 58.819 50.000 23.15 2.04 0.00 4.09
269 270 2.001812 TTTCGACATCTGAGCAGCTC 57.998 50.000 16.21 16.21 0.00 4.09
270 271 2.093816 TCATTTCGACATCTGAGCAGCT 60.094 45.455 0.00 0.00 0.00 4.24
271 272 2.274437 TCATTTCGACATCTGAGCAGC 58.726 47.619 0.00 0.00 0.00 5.25
272 273 5.064325 TCAAATCATTTCGACATCTGAGCAG 59.936 40.000 0.00 0.00 0.00 4.24
273 274 4.937015 TCAAATCATTTCGACATCTGAGCA 59.063 37.500 0.00 0.00 0.00 4.26
274 275 5.475273 TCAAATCATTTCGACATCTGAGC 57.525 39.130 0.00 0.00 0.00 4.26
275 276 8.906636 ATTTTCAAATCATTTCGACATCTGAG 57.093 30.769 0.00 0.00 0.00 3.35
281 282 8.423973 CGCTTTAATTTTCAAATCATTTCGACA 58.576 29.630 0.00 0.00 0.00 4.35
282 283 8.635124 TCGCTTTAATTTTCAAATCATTTCGAC 58.365 29.630 0.00 0.00 0.00 4.20
283 284 8.735303 TCGCTTTAATTTTCAAATCATTTCGA 57.265 26.923 0.00 0.00 0.00 3.71
284 285 9.238477 GTTCGCTTTAATTTTCAAATCATTTCG 57.762 29.630 0.00 0.00 0.00 3.46
285 286 9.528847 GGTTCGCTTTAATTTTCAAATCATTTC 57.471 29.630 0.00 0.00 0.00 2.17
286 287 9.271828 AGGTTCGCTTTAATTTTCAAATCATTT 57.728 25.926 0.00 0.00 0.00 2.32
287 288 8.831715 AGGTTCGCTTTAATTTTCAAATCATT 57.168 26.923 0.00 0.00 0.00 2.57
288 289 8.087750 TGAGGTTCGCTTTAATTTTCAAATCAT 58.912 29.630 0.00 0.00 0.00 2.45
289 290 7.381139 GTGAGGTTCGCTTTAATTTTCAAATCA 59.619 33.333 0.00 0.00 0.00 2.57
290 291 7.409343 CGTGAGGTTCGCTTTAATTTTCAAATC 60.409 37.037 0.00 0.00 0.00 2.17
291 292 6.362283 CGTGAGGTTCGCTTTAATTTTCAAAT 59.638 34.615 0.00 0.00 0.00 2.32
292 293 5.683743 CGTGAGGTTCGCTTTAATTTTCAAA 59.316 36.000 0.00 0.00 0.00 2.69
293 294 5.209240 CGTGAGGTTCGCTTTAATTTTCAA 58.791 37.500 0.00 0.00 0.00 2.69
294 295 4.778904 CGTGAGGTTCGCTTTAATTTTCA 58.221 39.130 0.00 0.00 0.00 2.69
306 307 2.900122 AATTTGATGCGTGAGGTTCG 57.100 45.000 0.00 0.00 0.00 3.95
307 308 5.741388 AGATAATTTGATGCGTGAGGTTC 57.259 39.130 0.00 0.00 0.00 3.62
308 309 5.527582 GGTAGATAATTTGATGCGTGAGGTT 59.472 40.000 0.00 0.00 0.00 3.50
309 310 5.057149 GGTAGATAATTTGATGCGTGAGGT 58.943 41.667 0.00 0.00 0.00 3.85
310 311 5.050091 GTGGTAGATAATTTGATGCGTGAGG 60.050 44.000 0.00 0.00 0.00 3.86
311 312 5.523552 TGTGGTAGATAATTTGATGCGTGAG 59.476 40.000 0.00 0.00 0.00 3.51
312 313 5.293324 GTGTGGTAGATAATTTGATGCGTGA 59.707 40.000 0.00 0.00 0.00 4.35
313 314 5.294306 AGTGTGGTAGATAATTTGATGCGTG 59.706 40.000 0.00 0.00 0.00 5.34
314 315 5.428253 AGTGTGGTAGATAATTTGATGCGT 58.572 37.500 0.00 0.00 0.00 5.24
315 316 5.332581 CGAGTGTGGTAGATAATTTGATGCG 60.333 44.000 0.00 0.00 0.00 4.73
316 317 5.523916 ACGAGTGTGGTAGATAATTTGATGC 59.476 40.000 0.00 0.00 0.00 3.91
317 318 7.539712 AACGAGTGTGGTAGATAATTTGATG 57.460 36.000 0.00 0.00 0.00 3.07
318 319 7.822334 TGAAACGAGTGTGGTAGATAATTTGAT 59.178 33.333 0.00 0.00 0.00 2.57
319 320 7.156000 TGAAACGAGTGTGGTAGATAATTTGA 58.844 34.615 0.00 0.00 0.00 2.69
320 321 7.359262 TGAAACGAGTGTGGTAGATAATTTG 57.641 36.000 0.00 0.00 0.00 2.32
321 322 7.972832 TTGAAACGAGTGTGGTAGATAATTT 57.027 32.000 0.00 0.00 0.00 1.82
322 323 7.972832 TTTGAAACGAGTGTGGTAGATAATT 57.027 32.000 0.00 0.00 0.00 1.40
323 324 7.972832 TTTTGAAACGAGTGTGGTAGATAAT 57.027 32.000 0.00 0.00 0.00 1.28
324 325 7.789273 TTTTTGAAACGAGTGTGGTAGATAA 57.211 32.000 0.00 0.00 0.00 1.75
354 355 9.612066 ATTTCAAAAATTTTGTGTGTGGTAGAT 57.388 25.926 16.83 0.00 0.00 1.98
411 412 2.018544 CACCCACGCTGACGAAAAA 58.981 52.632 0.00 0.00 43.93 1.94
412 413 2.539338 GCACCCACGCTGACGAAAA 61.539 57.895 0.00 0.00 43.93 2.29
413 414 2.970324 GCACCCACGCTGACGAAA 60.970 61.111 0.00 0.00 43.93 3.46
414 415 4.228567 TGCACCCACGCTGACGAA 62.229 61.111 0.00 0.00 43.93 3.85
415 416 4.662961 CTGCACCCACGCTGACGA 62.663 66.667 0.00 0.00 43.93 4.20
416 417 3.939837 ATCTGCACCCACGCTGACG 62.940 63.158 0.00 0.00 41.80 4.35
417 418 2.046892 ATCTGCACCCACGCTGAC 60.047 61.111 0.00 0.00 41.80 3.51
418 419 2.046988 CATCTGCACCCACGCTGA 60.047 61.111 0.00 0.00 42.94 4.26
419 420 2.046988 TCATCTGCACCCACGCTG 60.047 61.111 0.00 0.00 0.00 5.18
420 421 2.267006 CTCATCTGCACCCACGCT 59.733 61.111 0.00 0.00 0.00 5.07
421 422 3.503363 GCTCATCTGCACCCACGC 61.503 66.667 0.00 0.00 0.00 5.34
422 423 2.821366 GGCTCATCTGCACCCACG 60.821 66.667 0.00 0.00 34.04 4.94
423 424 1.748122 CAGGCTCATCTGCACCCAC 60.748 63.158 0.00 0.00 34.04 4.61
424 425 2.672908 CAGGCTCATCTGCACCCA 59.327 61.111 0.00 0.00 34.04 4.51
425 426 2.124403 CCAGGCTCATCTGCACCC 60.124 66.667 0.00 0.00 33.64 4.61
426 427 1.451028 GTCCAGGCTCATCTGCACC 60.451 63.158 0.00 0.00 33.64 5.01
427 428 0.461693 GAGTCCAGGCTCATCTGCAC 60.462 60.000 6.13 0.00 35.67 4.57
428 429 0.906282 TGAGTCCAGGCTCATCTGCA 60.906 55.000 8.95 0.00 40.23 4.41
429 430 0.251354 TTGAGTCCAGGCTCATCTGC 59.749 55.000 12.69 0.00 43.99 4.26
430 431 2.775911 TTTGAGTCCAGGCTCATCTG 57.224 50.000 12.69 0.00 43.99 2.90
431 432 3.795688 TTTTTGAGTCCAGGCTCATCT 57.204 42.857 12.69 0.00 43.99 2.90
432 433 4.012374 TCATTTTTGAGTCCAGGCTCATC 58.988 43.478 12.69 0.00 43.99 2.92
433 434 4.038271 TCATTTTTGAGTCCAGGCTCAT 57.962 40.909 12.69 0.00 43.99 2.90
434 435 3.507162 TCATTTTTGAGTCCAGGCTCA 57.493 42.857 8.95 8.95 43.03 4.26
435 436 5.397142 AATTCATTTTTGAGTCCAGGCTC 57.603 39.130 4.40 4.40 36.12 4.70
436 437 8.773033 ATATAATTCATTTTTGAGTCCAGGCT 57.227 30.769 0.00 0.00 0.00 4.58
437 438 8.084684 GGATATAATTCATTTTTGAGTCCAGGC 58.915 37.037 0.00 0.00 0.00 4.85
438 439 9.359653 AGGATATAATTCATTTTTGAGTCCAGG 57.640 33.333 0.00 0.00 0.00 4.45
462 463 8.486210 TGCCATATCCTATTTAGCACTTATAGG 58.514 37.037 0.00 0.00 41.41 2.57
466 467 9.667107 GTTATGCCATATCCTATTTAGCACTTA 57.333 33.333 0.00 0.00 0.00 2.24
467 468 8.386264 AGTTATGCCATATCCTATTTAGCACTT 58.614 33.333 0.00 0.00 0.00 3.16
529 815 2.289694 ACAATTCCCAGAGTTCCTGTCG 60.290 50.000 0.00 0.00 41.33 4.35
530 816 3.425162 ACAATTCCCAGAGTTCCTGTC 57.575 47.619 0.00 0.00 41.33 3.51
584 870 9.508567 GACAGGATTCACTAAAATATCTTTTGC 57.491 33.333 0.00 0.00 36.09 3.68
593 879 8.380742 TCTTAGAGGACAGGATTCACTAAAAT 57.619 34.615 0.00 0.00 0.00 1.82
613 900 7.533289 TTAACCCAACCCAATTTCTTCTTAG 57.467 36.000 0.00 0.00 0.00 2.18
645 932 4.271016 GGATCGGCCCATGTCCCC 62.271 72.222 0.00 0.00 0.00 4.81
661 948 1.091771 ATGCGAGAAATGCGAGTGGG 61.092 55.000 0.00 0.00 34.24 4.61
662 949 0.027194 CATGCGAGAAATGCGAGTGG 59.973 55.000 0.00 0.00 34.24 4.00
692 979 2.203209 GGATACGGCCTTGGCCTG 60.203 66.667 25.99 20.87 0.00 4.85
694 981 4.581093 GGGGATACGGCCTTGGCC 62.581 72.222 20.15 20.15 37.60 5.36
695 982 4.581093 GGGGGATACGGCCTTGGC 62.581 72.222 0.00 2.49 37.60 4.52
735 1027 3.069729 GGCTTTCGGGCTATTTCTCTAGA 59.930 47.826 0.00 0.00 37.53 2.43
916 1996 1.076727 TGCGTCTCAGGGAGGAAGA 59.923 57.895 0.00 0.00 32.10 2.87
1023 2108 2.507102 ATCGACGCAACCTGCTCG 60.507 61.111 11.64 11.64 42.25 5.03
1500 2585 3.998522 ACGAAATAAAATCACGCGAAGG 58.001 40.909 15.93 1.17 0.00 3.46
1584 2669 2.721425 TTTATCCAAACCCTAGGGCG 57.279 50.000 28.88 16.19 39.32 6.13
1657 2742 5.762179 TCACAGAAAGTAACAGGATCCAT 57.238 39.130 15.82 1.96 0.00 3.41
1806 2891 8.164070 GGTCCTACAACTCCATAATAAATCCAT 58.836 37.037 0.00 0.00 0.00 3.41
1897 2982 1.870055 GCCTGTCAACAGCCACATGG 61.870 60.000 4.58 0.00 42.47 3.66
1902 2987 2.116983 GAGAGGCCTGTCAACAGCCA 62.117 60.000 24.48 0.00 42.47 4.75
1988 3073 4.944962 TGGATTGTGTGATCGATTTCAC 57.055 40.909 19.79 19.79 45.05 3.18
2032 3117 8.763601 AGCAAAACTAGACAGAGTTCCTAATAT 58.236 33.333 0.00 0.00 38.75 1.28
2077 3162 2.488153 GGGATGTGAGTGTAGCAAAACC 59.512 50.000 0.00 0.00 0.00 3.27
2207 3292 4.797471 CTCTGCTGCTCTACATATGTCTC 58.203 47.826 12.68 0.90 0.00 3.36
2210 3295 2.964464 AGCTCTGCTGCTCTACATATGT 59.036 45.455 13.93 13.93 39.34 2.29
2298 3390 6.968263 TCCAGTGAAACCATAACAAATTCA 57.032 33.333 0.00 0.00 37.80 2.57
2366 3458 8.863872 ATATTGGTTACTAAAACAACTCAGCT 57.136 30.769 0.00 0.00 44.81 4.24


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

AutoCloner maintained by Alex Coulton.