Multiple sequence alignment - TraesCS7B01G297300

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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 TraesCS7B01G297300 chr7B 100.000 2879 0 0 1 2879 534544509 534541631 0.000000e+00 5317.0
1 TraesCS7B01G297300 chr7A 90.777 2201 90 34 726 2879 573839539 573837405 0.000000e+00 2835.0
2 TraesCS7B01G297300 chr7A 81.026 195 29 6 9 197 573840267 573840075 6.430000e-32 148.0
3 TraesCS7B01G297300 chr7A 100.000 37 0 0 682 718 573839565 573839529 5.150000e-08 69.4
4 TraesCS7B01G297300 chr7D 90.962 2069 62 40 541 2571 506506202 506504221 0.000000e+00 2669.0
5 TraesCS7B01G297300 chr7D 83.333 294 47 2 1 294 506506980 506506689 1.310000e-68 270.0
6 TraesCS7B01G297300 chr7D 86.066 244 12 9 2562 2803 506504199 506503976 2.870000e-60 243.0
7 TraesCS7B01G297300 chr7D 81.275 251 37 7 9 254 506506696 506506451 8.140000e-46 195.0
8 TraesCS7B01G297300 chr7D 97.436 39 1 0 2841 2879 506503933 506503895 1.850000e-07 67.6


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 TraesCS7B01G297300 chr7B 534541631 534544509 2878 True 5317.000000 5317 100.0000 1 2879 1 chr7B.!!$R1 2878
1 TraesCS7B01G297300 chr7A 573837405 573840267 2862 True 1017.466667 2835 90.6010 9 2879 3 chr7A.!!$R1 2870
2 TraesCS7B01G297300 chr7D 506503895 506506980 3085 True 688.920000 2669 87.8144 1 2879 5 chr7D.!!$R1 2878

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
192 468 0.179189 GGAGAAATGAAAGTGGCGCG 60.179 55.0 0.0 0.0 0.0 6.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2048 2600 0.725784 CACGCAAAATGTGGCTCGAC 60.726 55.0 0.0 0.0 33.69 4.2 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
23 299 1.939934 CTGGCGTCAGTTTTCACTTCA 59.060 47.619 9.39 0.00 36.30 3.02
26 302 2.363220 GCGTCAGTTTTCACTTCAACG 58.637 47.619 0.00 0.00 35.45 4.10
34 310 4.340263 GTTTTCACTTCAACGGTGAGAAC 58.660 43.478 2.09 6.35 44.89 3.01
37 313 1.787155 CACTTCAACGGTGAGAACGAG 59.213 52.381 2.09 0.00 36.89 4.18
46 322 2.726760 CGGTGAGAACGAGAACTGAAAG 59.273 50.000 0.00 0.00 42.29 2.62
73 349 3.546714 AAAACCCTGCCGAGGACCG 62.547 63.158 0.00 0.00 42.93 4.79
85 361 4.324991 GGACCGGGCGTCAGGTTT 62.325 66.667 14.49 0.00 43.95 3.27
86 362 2.741211 GACCGGGCGTCAGGTTTC 60.741 66.667 14.49 0.00 41.51 2.78
87 363 3.524648 GACCGGGCGTCAGGTTTCA 62.525 63.158 14.49 0.00 41.51 2.69
88 364 3.047877 CCGGGCGTCAGGTTTCAC 61.048 66.667 0.00 0.00 0.00 3.18
89 365 3.411351 CGGGCGTCAGGTTTCACG 61.411 66.667 0.00 0.00 39.09 4.35
90 366 2.280592 GGGCGTCAGGTTTCACGT 60.281 61.111 0.00 0.00 38.32 4.49
91 367 2.604174 GGGCGTCAGGTTTCACGTG 61.604 63.158 9.94 9.94 38.32 4.49
92 368 2.248431 GCGTCAGGTTTCACGTGC 59.752 61.111 11.67 0.00 38.32 5.34
93 369 2.544359 CGTCAGGTTTCACGTGCG 59.456 61.111 11.67 1.72 34.28 5.34
94 370 2.248431 GTCAGGTTTCACGTGCGC 59.752 61.111 11.67 0.00 34.28 6.09
95 371 3.334751 TCAGGTTTCACGTGCGCG 61.335 61.111 19.78 19.78 44.93 6.86
96 372 3.334751 CAGGTTTCACGTGCGCGA 61.335 61.111 28.73 0.63 42.00 5.87
97 373 2.357034 AGGTTTCACGTGCGCGAT 60.357 55.556 28.73 7.87 42.00 4.58
98 374 1.080366 AGGTTTCACGTGCGCGATA 60.080 52.632 28.73 10.80 42.00 2.92
99 375 0.668096 AGGTTTCACGTGCGCGATAA 60.668 50.000 28.73 16.42 42.00 1.75
100 376 0.247145 GGTTTCACGTGCGCGATAAG 60.247 55.000 28.73 12.79 42.00 1.73
101 377 0.711670 GTTTCACGTGCGCGATAAGA 59.288 50.000 28.73 14.92 42.00 2.10
102 378 1.125384 GTTTCACGTGCGCGATAAGAA 59.875 47.619 28.73 19.59 42.00 2.52
103 379 0.989164 TTCACGTGCGCGATAAGAAG 59.011 50.000 28.73 6.74 42.00 2.85
104 380 0.800683 TCACGTGCGCGATAAGAAGG 60.801 55.000 28.73 5.00 42.00 3.46
105 381 0.800683 CACGTGCGCGATAAGAAGGA 60.801 55.000 28.73 0.00 42.00 3.36
106 382 0.525668 ACGTGCGCGATAAGAAGGAG 60.526 55.000 28.73 0.00 42.00 3.69
107 383 0.248498 CGTGCGCGATAAGAAGGAGA 60.248 55.000 16.08 0.00 41.33 3.71
108 384 1.797713 CGTGCGCGATAAGAAGGAGAA 60.798 52.381 16.08 0.00 41.33 2.87
109 385 1.588861 GTGCGCGATAAGAAGGAGAAC 59.411 52.381 12.10 0.00 0.00 3.01
110 386 1.476891 TGCGCGATAAGAAGGAGAACT 59.523 47.619 12.10 0.00 0.00 3.01
111 387 1.855360 GCGCGATAAGAAGGAGAACTG 59.145 52.381 12.10 0.00 0.00 3.16
112 388 2.479730 GCGCGATAAGAAGGAGAACTGA 60.480 50.000 12.10 0.00 0.00 3.41
113 389 3.770666 CGCGATAAGAAGGAGAACTGAA 58.229 45.455 0.00 0.00 0.00 3.02
114 390 4.174009 CGCGATAAGAAGGAGAACTGAAA 58.826 43.478 0.00 0.00 0.00 2.69
115 391 4.625742 CGCGATAAGAAGGAGAACTGAAAA 59.374 41.667 0.00 0.00 0.00 2.29
116 392 5.292101 CGCGATAAGAAGGAGAACTGAAAAT 59.708 40.000 0.00 0.00 0.00 1.82
117 393 6.481984 GCGATAAGAAGGAGAACTGAAAATG 58.518 40.000 0.00 0.00 0.00 2.32
118 394 6.313905 GCGATAAGAAGGAGAACTGAAAATGA 59.686 38.462 0.00 0.00 0.00 2.57
119 395 7.675170 GCGATAAGAAGGAGAACTGAAAATGAC 60.675 40.741 0.00 0.00 0.00 3.06
120 396 7.331934 CGATAAGAAGGAGAACTGAAAATGACA 59.668 37.037 0.00 0.00 0.00 3.58
121 397 6.625873 AAGAAGGAGAACTGAAAATGACAC 57.374 37.500 0.00 0.00 0.00 3.67
122 398 4.752101 AGAAGGAGAACTGAAAATGACACG 59.248 41.667 0.00 0.00 0.00 4.49
123 399 4.336889 AGGAGAACTGAAAATGACACGA 57.663 40.909 0.00 0.00 0.00 4.35
124 400 4.703897 AGGAGAACTGAAAATGACACGAA 58.296 39.130 0.00 0.00 0.00 3.85
125 401 5.123227 AGGAGAACTGAAAATGACACGAAA 58.877 37.500 0.00 0.00 0.00 3.46
126 402 5.588648 AGGAGAACTGAAAATGACACGAAAA 59.411 36.000 0.00 0.00 0.00 2.29
127 403 6.094881 AGGAGAACTGAAAATGACACGAAAAA 59.905 34.615 0.00 0.00 0.00 1.94
128 404 6.196538 GGAGAACTGAAAATGACACGAAAAAC 59.803 38.462 0.00 0.00 0.00 2.43
129 405 6.033966 AGAACTGAAAATGACACGAAAAACC 58.966 36.000 0.00 0.00 0.00 3.27
130 406 4.678622 ACTGAAAATGACACGAAAAACCC 58.321 39.130 0.00 0.00 0.00 4.11
131 407 4.401202 ACTGAAAATGACACGAAAAACCCT 59.599 37.500 0.00 0.00 0.00 4.34
132 408 4.677584 TGAAAATGACACGAAAAACCCTG 58.322 39.130 0.00 0.00 0.00 4.45
133 409 2.793278 AATGACACGAAAAACCCTGC 57.207 45.000 0.00 0.00 0.00 4.85
134 410 1.686355 ATGACACGAAAAACCCTGCA 58.314 45.000 0.00 0.00 0.00 4.41
135 411 1.021202 TGACACGAAAAACCCTGCAG 58.979 50.000 6.78 6.78 0.00 4.41
136 412 1.305201 GACACGAAAAACCCTGCAGA 58.695 50.000 17.39 0.00 0.00 4.26
137 413 1.264288 GACACGAAAAACCCTGCAGAG 59.736 52.381 17.39 3.79 0.00 3.35
138 414 0.593128 CACGAAAAACCCTGCAGAGG 59.407 55.000 17.39 17.11 39.42 3.69
139 415 0.472471 ACGAAAAACCCTGCAGAGGA 59.528 50.000 23.24 0.00 42.93 3.71
140 416 0.875059 CGAAAAACCCTGCAGAGGAC 59.125 55.000 23.24 10.55 42.93 3.85
141 417 1.248486 GAAAAACCCTGCAGAGGACC 58.752 55.000 23.24 7.42 42.93 4.46
142 418 0.537371 AAAAACCCTGCAGAGGACCG 60.537 55.000 23.24 3.59 42.93 4.79
143 419 2.411765 AAAACCCTGCAGAGGACCGG 62.412 60.000 23.24 14.11 42.93 5.28
150 426 4.135153 CAGAGGACCGGGCGTCAG 62.135 72.222 30.59 20.16 43.95 3.51
151 427 4.680537 AGAGGACCGGGCGTCAGT 62.681 66.667 30.59 9.46 43.95 3.41
152 428 3.692406 GAGGACCGGGCGTCAGTT 61.692 66.667 25.01 0.00 43.95 3.16
153 429 3.236003 GAGGACCGGGCGTCAGTTT 62.236 63.158 25.01 0.00 43.95 2.66
154 430 2.281276 GGACCGGGCGTCAGTTTT 60.281 61.111 6.32 0.00 43.95 2.43
155 431 2.322830 GGACCGGGCGTCAGTTTTC 61.323 63.158 6.32 0.00 43.95 2.29
156 432 1.595929 GACCGGGCGTCAGTTTTCA 60.596 57.895 6.32 0.00 41.54 2.69
157 433 1.838568 GACCGGGCGTCAGTTTTCAC 61.839 60.000 6.32 0.00 41.54 3.18
158 434 1.597027 CCGGGCGTCAGTTTTCACT 60.597 57.895 0.00 0.00 0.00 3.41
159 435 1.164041 CCGGGCGTCAGTTTTCACTT 61.164 55.000 0.00 0.00 0.00 3.16
160 436 0.234884 CGGGCGTCAGTTTTCACTTC 59.765 55.000 0.00 0.00 0.00 3.01
161 437 0.591659 GGGCGTCAGTTTTCACTTCC 59.408 55.000 0.00 0.00 0.00 3.46
162 438 1.305201 GGCGTCAGTTTTCACTTCCA 58.695 50.000 0.00 0.00 0.00 3.53
163 439 1.002792 GGCGTCAGTTTTCACTTCCAC 60.003 52.381 0.00 0.00 0.00 4.02
164 440 1.668751 GCGTCAGTTTTCACTTCCACA 59.331 47.619 0.00 0.00 0.00 4.17
165 441 2.286418 GCGTCAGTTTTCACTTCCACAG 60.286 50.000 0.00 0.00 0.00 3.66
166 442 2.936498 CGTCAGTTTTCACTTCCACAGT 59.064 45.455 0.00 0.00 35.35 3.55
176 452 3.760580 ACTTCCACAGTGAGAAAGGAG 57.239 47.619 0.62 0.00 32.83 3.69
177 453 3.309296 ACTTCCACAGTGAGAAAGGAGA 58.691 45.455 0.62 0.00 32.83 3.71
178 454 3.711704 ACTTCCACAGTGAGAAAGGAGAA 59.288 43.478 0.62 0.00 32.83 2.87
179 455 4.164221 ACTTCCACAGTGAGAAAGGAGAAA 59.836 41.667 0.62 0.00 32.83 2.52
180 456 4.982241 TCCACAGTGAGAAAGGAGAAAT 57.018 40.909 0.62 0.00 0.00 2.17
181 457 4.645535 TCCACAGTGAGAAAGGAGAAATG 58.354 43.478 0.62 0.00 0.00 2.32
182 458 4.347876 TCCACAGTGAGAAAGGAGAAATGA 59.652 41.667 0.62 0.00 0.00 2.57
183 459 5.065914 CCACAGTGAGAAAGGAGAAATGAA 58.934 41.667 0.62 0.00 0.00 2.57
184 460 5.532406 CCACAGTGAGAAAGGAGAAATGAAA 59.468 40.000 0.62 0.00 0.00 2.69
185 461 6.293845 CCACAGTGAGAAAGGAGAAATGAAAG 60.294 42.308 0.62 0.00 0.00 2.62
186 462 6.261826 CACAGTGAGAAAGGAGAAATGAAAGT 59.738 38.462 0.00 0.00 0.00 2.66
187 463 6.261826 ACAGTGAGAAAGGAGAAATGAAAGTG 59.738 38.462 0.00 0.00 0.00 3.16
188 464 5.767168 AGTGAGAAAGGAGAAATGAAAGTGG 59.233 40.000 0.00 0.00 0.00 4.00
189 465 4.520492 TGAGAAAGGAGAAATGAAAGTGGC 59.480 41.667 0.00 0.00 0.00 5.01
190 466 3.503748 AGAAAGGAGAAATGAAAGTGGCG 59.496 43.478 0.00 0.00 0.00 5.69
191 467 1.168714 AGGAGAAATGAAAGTGGCGC 58.831 50.000 0.00 0.00 0.00 6.53
192 468 0.179189 GGAGAAATGAAAGTGGCGCG 60.179 55.000 0.00 0.00 0.00 6.86
193 469 0.796312 GAGAAATGAAAGTGGCGCGA 59.204 50.000 12.10 0.00 0.00 5.87
194 470 1.196808 GAGAAATGAAAGTGGCGCGAA 59.803 47.619 12.10 0.00 0.00 4.70
195 471 1.606668 AGAAATGAAAGTGGCGCGAAA 59.393 42.857 12.10 0.00 0.00 3.46
196 472 2.034053 AGAAATGAAAGTGGCGCGAAAA 59.966 40.909 12.10 0.00 0.00 2.29
197 473 2.500509 AATGAAAGTGGCGCGAAAAA 57.499 40.000 12.10 0.00 0.00 1.94
198 474 1.766069 ATGAAAGTGGCGCGAAAAAC 58.234 45.000 12.10 0.84 0.00 2.43
199 475 0.248702 TGAAAGTGGCGCGAAAAACC 60.249 50.000 12.10 0.17 0.00 3.27
200 476 0.937699 GAAAGTGGCGCGAAAAACCC 60.938 55.000 12.10 0.00 0.00 4.11
201 477 1.388837 AAAGTGGCGCGAAAAACCCT 61.389 50.000 12.10 0.00 0.00 4.34
202 478 2.050442 GTGGCGCGAAAAACCCTG 60.050 61.111 12.10 0.00 0.00 4.45
203 479 3.972276 TGGCGCGAAAAACCCTGC 61.972 61.111 12.10 0.00 0.00 4.85
204 480 4.717629 GGCGCGAAAAACCCTGCC 62.718 66.667 12.10 0.00 35.04 4.85
206 482 3.350612 CGCGAAAAACCCTGCCGA 61.351 61.111 0.00 0.00 0.00 5.54
207 483 2.561373 GCGAAAAACCCTGCCGAG 59.439 61.111 0.00 0.00 0.00 4.63
208 484 2.978018 GCGAAAAACCCTGCCGAGG 61.978 63.158 0.00 0.00 39.42 4.63
209 485 1.302192 CGAAAAACCCTGCCGAGGA 60.302 57.895 0.00 0.00 42.93 3.71
210 486 1.574702 CGAAAAACCCTGCCGAGGAC 61.575 60.000 0.00 0.00 42.93 3.85
211 487 1.228459 AAAAACCCTGCCGAGGACC 60.228 57.895 0.00 0.00 42.93 4.46
212 488 3.546714 AAAACCCTGCCGAGGACCG 62.547 63.158 0.00 0.00 42.93 4.79
221 497 3.054503 CGAGGACCGGACGTCAGT 61.055 66.667 22.73 14.09 43.95 3.41
235 511 1.531149 CGTCAGTTTTCACTTCCGCAT 59.469 47.619 0.00 0.00 0.00 4.73
254 530 4.142945 CGCATTGAGAAGGAGAACTGAAAG 60.143 45.833 0.00 0.00 42.29 2.62
271 547 4.285863 TGAAAGTGACATGAAAAACCCCT 58.714 39.130 0.00 0.00 0.00 4.79
278 554 2.242043 CATGAAAAACCCCTGCAGAGT 58.758 47.619 17.39 9.60 0.00 3.24
282 558 1.446016 AAAACCCCTGCAGAGTACCT 58.554 50.000 17.39 0.00 0.00 3.08
289 565 2.184579 GCAGAGTACCTGGCGTCC 59.815 66.667 11.72 0.00 43.13 4.79
304 643 1.202211 GCGTCCGTTTGGTTTCACTTT 60.202 47.619 0.00 0.00 36.30 2.66
307 646 2.096335 GTCCGTTTGGTTTCACTTTCGT 59.904 45.455 0.00 0.00 36.30 3.85
309 648 2.159490 CCGTTTGGTTTCACTTTCGTGT 60.159 45.455 0.00 0.00 41.89 4.49
314 653 3.601435 TGGTTTCACTTTCGTGTTGAGA 58.399 40.909 0.00 0.00 41.89 3.27
358 697 4.468689 GTGGCAGAGTACGGGGCC 62.469 72.222 15.14 15.14 46.58 5.80
366 705 2.009424 GAGTACGGGGCCTACGGTTC 62.009 65.000 21.13 12.77 35.23 3.62
367 706 2.037049 TACGGGGCCTACGGTTCA 59.963 61.111 21.13 4.38 35.23 3.18
369 708 0.977108 TACGGGGCCTACGGTTCAAT 60.977 55.000 21.13 5.12 35.23 2.57
381 721 5.526111 CCTACGGTTCAATTCGATGGTAAAT 59.474 40.000 0.00 0.00 0.00 1.40
389 729 7.921786 TCAATTCGATGGTAAATGAAGAACT 57.078 32.000 0.00 0.00 0.00 3.01
416 756 5.367644 TCATGGAAGATGAAGAATCTGGCTA 59.632 40.000 0.00 0.00 45.37 3.93
417 757 5.698741 TGGAAGATGAAGAATCTGGCTAA 57.301 39.130 0.00 0.00 45.37 3.09
418 758 6.065976 TGGAAGATGAAGAATCTGGCTAAA 57.934 37.500 0.00 0.00 45.37 1.85
419 759 6.484288 TGGAAGATGAAGAATCTGGCTAAAA 58.516 36.000 0.00 0.00 45.37 1.52
420 760 6.600822 TGGAAGATGAAGAATCTGGCTAAAAG 59.399 38.462 0.00 0.00 45.37 2.27
436 780 9.317936 CTGGCTAAAAGAAAAGAAAAGAACATT 57.682 29.630 0.00 0.00 0.00 2.71
465 810 7.698628 TGTTTTTGACACGATGAAGAACATTA 58.301 30.769 0.00 0.00 34.58 1.90
467 812 9.820229 GTTTTTGACACGATGAAGAACATTATA 57.180 29.630 0.00 0.00 39.56 0.98
471 816 9.986833 TTGACACGATGAAGAACATTATATTTG 57.013 29.630 0.00 0.00 39.56 2.32
566 947 7.852971 TTTTTGGTAAGAAAGACGAAGAAGA 57.147 32.000 0.00 0.00 0.00 2.87
577 958 0.438830 CGAAGAAGAGAAAACGGCGG 59.561 55.000 13.24 0.00 0.00 6.13
624 1134 0.245266 TGATGAGGCGAGCGTTACAA 59.755 50.000 0.00 0.00 0.00 2.41
628 1138 0.438830 GAGGCGAGCGTTACAAACAG 59.561 55.000 0.00 0.00 0.00 3.16
630 1140 1.076332 GGCGAGCGTTACAAACAGAT 58.924 50.000 0.00 0.00 0.00 2.90
643 1153 2.885644 CAGATTGGTCGCGGACGG 60.886 66.667 6.13 0.00 40.63 4.79
644 1154 3.379445 AGATTGGTCGCGGACGGT 61.379 61.111 6.13 0.00 40.63 4.83
645 1155 2.433664 GATTGGTCGCGGACGGTT 60.434 61.111 6.13 0.00 40.63 4.44
732 1245 4.803426 CCGCGCTCCACCTGTCTC 62.803 72.222 5.56 0.00 0.00 3.36
735 1248 4.803426 CGCTCCACCTGTCTCGCC 62.803 72.222 0.00 0.00 0.00 5.54
736 1249 4.803426 GCTCCACCTGTCTCGCCG 62.803 72.222 0.00 0.00 0.00 6.46
777 1294 1.294780 CTCCGCTCCTCCCATATGC 59.705 63.158 0.00 0.00 0.00 3.14
779 1296 2.219875 CCGCTCCTCCCATATGCCT 61.220 63.158 0.00 0.00 0.00 4.75
1735 2282 2.119611 TCAAGCCCGACCTCTCCA 59.880 61.111 0.00 0.00 0.00 3.86
1839 2386 3.314331 CCTGACCACCGCTCACCT 61.314 66.667 0.00 0.00 0.00 4.00
1847 2394 1.076906 ACCGCTCACCTCAGTACCT 59.923 57.895 0.00 0.00 0.00 3.08
2031 2578 3.384668 AGATCAACAGAATATGGCGACG 58.615 45.455 0.00 0.00 0.00 5.12
2035 2582 1.571919 ACAGAATATGGCGACGAAGC 58.428 50.000 0.00 0.00 0.00 3.86
2039 2586 1.004927 GAATATGGCGACGAAGCACAC 60.005 52.381 0.00 0.00 39.27 3.82
2040 2587 0.108377 ATATGGCGACGAAGCACACA 60.108 50.000 0.00 0.00 39.27 3.72
2048 2600 2.743752 CGAAGCACACATCAGGCGG 61.744 63.158 0.00 0.00 0.00 6.13
2050 2602 1.639298 GAAGCACACATCAGGCGGTC 61.639 60.000 0.00 0.00 0.00 4.79
2064 2616 1.154225 CGGTCGAGCCACATTTTGC 60.154 57.895 9.39 0.00 36.97 3.68
2110 2665 8.585881 TGTTCTAGTAGTTTTACAGCTTCTCAT 58.414 33.333 0.00 0.00 31.96 2.90
2120 2675 2.676632 AGCTTCTCATGCTGAGTCAG 57.323 50.000 16.21 16.21 44.58 3.51
2121 2676 1.901159 AGCTTCTCATGCTGAGTCAGT 59.099 47.619 21.06 0.00 44.58 3.41
2122 2677 2.001159 GCTTCTCATGCTGAGTCAGTG 58.999 52.381 21.06 12.56 44.58 3.66
2123 2678 2.001159 CTTCTCATGCTGAGTCAGTGC 58.999 52.381 21.06 9.60 44.58 4.40
2124 2679 0.108945 TCTCATGCTGAGTCAGTGCG 60.109 55.000 21.06 8.04 44.58 5.34
2125 2680 1.079612 TCATGCTGAGTCAGTGCGG 60.080 57.895 21.06 9.03 33.43 5.69
2126 2681 1.079612 CATGCTGAGTCAGTGCGGA 60.080 57.895 21.06 0.00 33.43 5.54
2127 2682 0.671472 CATGCTGAGTCAGTGCGGAA 60.671 55.000 21.06 1.77 33.43 4.30
2128 2683 0.671781 ATGCTGAGTCAGTGCGGAAC 60.672 55.000 21.06 3.56 33.43 3.62
2148 2703 5.642063 GGAACTGTTAGTGTATTTGCTAGCA 59.358 40.000 14.93 14.93 0.00 3.49
2183 2738 6.244654 TGTGAAATGTGATTAATGACTGGGA 58.755 36.000 6.61 0.00 0.00 4.37
2235 2790 7.071824 TGGGGAAATTGGAAATCTTTTGTTACT 59.928 33.333 0.00 0.00 0.00 2.24
2259 2814 2.159170 AGAAGTGCTCGCCTCACTATTC 60.159 50.000 4.85 1.54 43.36 1.75
2291 2854 7.277098 CCATTTGAGATGTTTTCTTATGCTTGG 59.723 37.037 0.00 0.00 33.74 3.61
2321 2884 2.457323 AAAACCTCCGCCTGTCCCA 61.457 57.895 0.00 0.00 0.00 4.37
2322 2885 1.789576 AAAACCTCCGCCTGTCCCAT 61.790 55.000 0.00 0.00 0.00 4.00
2323 2886 2.198304 AAACCTCCGCCTGTCCCATC 62.198 60.000 0.00 0.00 0.00 3.51
2324 2887 3.083349 CCTCCGCCTGTCCCATCA 61.083 66.667 0.00 0.00 0.00 3.07
2325 2888 2.669133 CCTCCGCCTGTCCCATCAA 61.669 63.158 0.00 0.00 0.00 2.57
2326 2889 1.299648 CTCCGCCTGTCCCATCAAA 59.700 57.895 0.00 0.00 0.00 2.69
2327 2890 0.107017 CTCCGCCTGTCCCATCAAAT 60.107 55.000 0.00 0.00 0.00 2.32
2328 2891 0.331278 TCCGCCTGTCCCATCAAATT 59.669 50.000 0.00 0.00 0.00 1.82
2329 2892 1.185315 CCGCCTGTCCCATCAAATTT 58.815 50.000 0.00 0.00 0.00 1.82
2480 3052 6.184068 TCTATCTCATAGACATAGACAGGGC 58.816 44.000 0.00 0.00 36.98 5.19
2481 3053 4.461450 TCTCATAGACATAGACAGGGCT 57.539 45.455 0.00 0.00 0.00 5.19
2482 3054 5.584551 TCTCATAGACATAGACAGGGCTA 57.415 43.478 0.00 0.00 0.00 3.93
2483 3055 5.953571 TCTCATAGACATAGACAGGGCTAA 58.046 41.667 0.00 0.00 0.00 3.09
2484 3056 6.556639 TCTCATAGACATAGACAGGGCTAAT 58.443 40.000 0.00 0.00 0.00 1.73
2485 3057 7.013220 TCTCATAGACATAGACAGGGCTAATT 58.987 38.462 0.00 0.00 0.00 1.40
2486 3058 8.170730 TCTCATAGACATAGACAGGGCTAATTA 58.829 37.037 0.00 0.00 0.00 1.40
2487 3059 8.721133 TCATAGACATAGACAGGGCTAATTAA 57.279 34.615 0.00 0.00 0.00 1.40
2488 3060 9.154632 TCATAGACATAGACAGGGCTAATTAAA 57.845 33.333 0.00 0.00 0.00 1.52
2489 3061 9.950496 CATAGACATAGACAGGGCTAATTAAAT 57.050 33.333 0.00 0.00 0.00 1.40
2491 3063 8.268878 AGACATAGACAGGGCTAATTAAATCT 57.731 34.615 0.00 0.00 0.00 2.40
2518 3090 6.239064 GGAACCATAGGGATATAGCGACATAG 60.239 46.154 0.00 0.00 38.05 2.23
2527 3102 7.717875 AGGGATATAGCGACATAGTAGAAGATC 59.282 40.741 0.00 0.00 0.00 2.75
2577 3186 4.252878 TCACATGATTCTAAAAGCGCAGA 58.747 39.130 11.47 0.00 0.00 4.26
2660 3269 1.134907 GCTGTTTGGCTCATGGGAATG 60.135 52.381 0.00 0.00 0.00 2.67
2691 3300 9.811995 AAACACAGGAATTCTTAAAGTTAAACC 57.188 29.630 5.23 0.00 0.00 3.27
2692 3301 8.528044 ACACAGGAATTCTTAAAGTTAAACCA 57.472 30.769 5.23 0.00 0.00 3.67
2693 3302 9.143155 ACACAGGAATTCTTAAAGTTAAACCAT 57.857 29.630 5.23 0.00 0.00 3.55
2803 3412 8.755018 CAAGTGGATTGTAAAATTTCTGTGTTC 58.245 33.333 0.00 0.00 33.95 3.18
2813 3455 7.961325 AAAATTTCTGTGTTCTCTCTCTCTC 57.039 36.000 0.00 0.00 0.00 3.20
2815 3457 5.957842 TTTCTGTGTTCTCTCTCTCTCTC 57.042 43.478 0.00 0.00 0.00 3.20
2816 3458 4.908601 TCTGTGTTCTCTCTCTCTCTCT 57.091 45.455 0.00 0.00 0.00 3.10
2817 3459 4.832248 TCTGTGTTCTCTCTCTCTCTCTC 58.168 47.826 0.00 0.00 0.00 3.20
2818 3460 4.532126 TCTGTGTTCTCTCTCTCTCTCTCT 59.468 45.833 0.00 0.00 0.00 3.10
2819 3461 4.832248 TGTGTTCTCTCTCTCTCTCTCTC 58.168 47.826 0.00 0.00 0.00 3.20
2820 3462 4.532126 TGTGTTCTCTCTCTCTCTCTCTCT 59.468 45.833 0.00 0.00 0.00 3.10
2821 3463 5.112686 GTGTTCTCTCTCTCTCTCTCTCTC 58.887 50.000 0.00 0.00 0.00 3.20
2822 3464 5.026121 TGTTCTCTCTCTCTCTCTCTCTCT 58.974 45.833 0.00 0.00 0.00 3.10
2823 3465 5.127845 TGTTCTCTCTCTCTCTCTCTCTCTC 59.872 48.000 0.00 0.00 0.00 3.20
2824 3466 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.00 0.00 3.10
2825 3467 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2826 3468 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2827 3469 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2828 3470 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2829 3471 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2830 3472 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2831 3473 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2832 3474 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2833 3475 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2834 3476 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2835 3477 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2836 3478 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2837 3479 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2838 3480 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2839 3481 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 2.031258 TGAAGTGAAAACTGACGCCA 57.969 45.000 0.00 0.00 0.00 5.69
13 14 3.062909 CGTTCTCACCGTTGAAGTGAAAA 59.937 43.478 0.00 0.00 43.36 2.29
23 299 1.679680 TCAGTTCTCGTTCTCACCGTT 59.320 47.619 0.00 0.00 0.00 4.44
26 302 3.491267 CACTTTCAGTTCTCGTTCTCACC 59.509 47.826 0.00 0.00 0.00 4.02
34 310 1.493311 GCGCCACTTTCAGTTCTCG 59.507 57.895 0.00 0.00 0.00 4.04
37 313 1.503818 TTCCGCGCCACTTTCAGTTC 61.504 55.000 0.00 0.00 0.00 3.01
46 322 4.038080 CAGGGTTTTCCGCGCCAC 62.038 66.667 0.00 0.00 41.82 5.01
53 329 1.674651 GTCCTCGGCAGGGTTTTCC 60.675 63.158 3.64 0.00 40.80 3.13
73 349 2.280592 ACGTGAAACCTGACGCCC 60.281 61.111 0.00 0.00 39.22 6.13
76 352 2.544359 CGCACGTGAAACCTGACG 59.456 61.111 22.23 6.64 41.41 4.35
77 353 2.248431 GCGCACGTGAAACCTGAC 59.752 61.111 22.23 0.00 0.00 3.51
78 354 3.334751 CGCGCACGTGAAACCTGA 61.335 61.111 22.23 0.00 33.53 3.86
79 355 1.348538 TATCGCGCACGTGAAACCTG 61.349 55.000 22.23 1.92 41.18 4.00
80 356 0.668096 TTATCGCGCACGTGAAACCT 60.668 50.000 22.23 2.52 41.18 3.50
81 357 0.247145 CTTATCGCGCACGTGAAACC 60.247 55.000 22.23 0.00 41.18 3.27
82 358 0.711670 TCTTATCGCGCACGTGAAAC 59.288 50.000 22.23 6.26 41.18 2.78
83 359 1.388768 CTTCTTATCGCGCACGTGAAA 59.611 47.619 22.23 0.37 41.18 2.69
84 360 0.989164 CTTCTTATCGCGCACGTGAA 59.011 50.000 22.23 1.91 41.18 3.18
85 361 0.800683 CCTTCTTATCGCGCACGTGA 60.801 55.000 22.23 8.91 41.18 4.35
86 362 0.800683 TCCTTCTTATCGCGCACGTG 60.801 55.000 12.28 12.28 41.18 4.49
87 363 0.525668 CTCCTTCTTATCGCGCACGT 60.526 55.000 8.75 0.00 41.18 4.49
88 364 0.248498 TCTCCTTCTTATCGCGCACG 60.248 55.000 8.75 0.00 42.01 5.34
89 365 1.588861 GTTCTCCTTCTTATCGCGCAC 59.411 52.381 8.75 0.00 0.00 5.34
90 366 1.476891 AGTTCTCCTTCTTATCGCGCA 59.523 47.619 8.75 0.00 0.00 6.09
91 367 1.855360 CAGTTCTCCTTCTTATCGCGC 59.145 52.381 0.00 0.00 0.00 6.86
92 368 3.422417 TCAGTTCTCCTTCTTATCGCG 57.578 47.619 0.00 0.00 0.00 5.87
93 369 6.313905 TCATTTTCAGTTCTCCTTCTTATCGC 59.686 38.462 0.00 0.00 0.00 4.58
94 370 7.331934 TGTCATTTTCAGTTCTCCTTCTTATCG 59.668 37.037 0.00 0.00 0.00 2.92
95 371 8.447053 GTGTCATTTTCAGTTCTCCTTCTTATC 58.553 37.037 0.00 0.00 0.00 1.75
96 372 7.118390 CGTGTCATTTTCAGTTCTCCTTCTTAT 59.882 37.037 0.00 0.00 0.00 1.73
97 373 6.423905 CGTGTCATTTTCAGTTCTCCTTCTTA 59.576 38.462 0.00 0.00 0.00 2.10
98 374 5.237344 CGTGTCATTTTCAGTTCTCCTTCTT 59.763 40.000 0.00 0.00 0.00 2.52
99 375 4.752101 CGTGTCATTTTCAGTTCTCCTTCT 59.248 41.667 0.00 0.00 0.00 2.85
100 376 4.750098 TCGTGTCATTTTCAGTTCTCCTTC 59.250 41.667 0.00 0.00 0.00 3.46
101 377 4.703897 TCGTGTCATTTTCAGTTCTCCTT 58.296 39.130 0.00 0.00 0.00 3.36
102 378 4.336889 TCGTGTCATTTTCAGTTCTCCT 57.663 40.909 0.00 0.00 0.00 3.69
103 379 5.418310 TTTCGTGTCATTTTCAGTTCTCC 57.582 39.130 0.00 0.00 0.00 3.71
104 380 6.196538 GGTTTTTCGTGTCATTTTCAGTTCTC 59.803 38.462 0.00 0.00 0.00 2.87
105 381 6.033966 GGTTTTTCGTGTCATTTTCAGTTCT 58.966 36.000 0.00 0.00 0.00 3.01
106 382 5.231357 GGGTTTTTCGTGTCATTTTCAGTTC 59.769 40.000 0.00 0.00 0.00 3.01
107 383 5.105513 AGGGTTTTTCGTGTCATTTTCAGTT 60.106 36.000 0.00 0.00 0.00 3.16
108 384 4.401202 AGGGTTTTTCGTGTCATTTTCAGT 59.599 37.500 0.00 0.00 0.00 3.41
109 385 4.739716 CAGGGTTTTTCGTGTCATTTTCAG 59.260 41.667 0.00 0.00 0.00 3.02
110 386 4.677584 CAGGGTTTTTCGTGTCATTTTCA 58.322 39.130 0.00 0.00 0.00 2.69
111 387 3.489416 GCAGGGTTTTTCGTGTCATTTTC 59.511 43.478 0.00 0.00 0.00 2.29
112 388 3.118956 TGCAGGGTTTTTCGTGTCATTTT 60.119 39.130 0.00 0.00 0.00 1.82
113 389 2.428890 TGCAGGGTTTTTCGTGTCATTT 59.571 40.909 0.00 0.00 0.00 2.32
114 390 2.028130 TGCAGGGTTTTTCGTGTCATT 58.972 42.857 0.00 0.00 0.00 2.57
115 391 1.608590 CTGCAGGGTTTTTCGTGTCAT 59.391 47.619 5.57 0.00 0.00 3.06
116 392 1.021202 CTGCAGGGTTTTTCGTGTCA 58.979 50.000 5.57 0.00 0.00 3.58
117 393 1.264288 CTCTGCAGGGTTTTTCGTGTC 59.736 52.381 15.13 0.00 0.00 3.67
118 394 1.308998 CTCTGCAGGGTTTTTCGTGT 58.691 50.000 15.13 0.00 0.00 4.49
119 395 0.593128 CCTCTGCAGGGTTTTTCGTG 59.407 55.000 13.79 0.00 35.89 4.35
120 396 0.472471 TCCTCTGCAGGGTTTTTCGT 59.528 50.000 13.79 0.00 40.80 3.85
121 397 0.875059 GTCCTCTGCAGGGTTTTTCG 59.125 55.000 13.79 0.00 40.80 3.46
122 398 1.248486 GGTCCTCTGCAGGGTTTTTC 58.752 55.000 13.79 0.00 40.80 2.29
123 399 0.537371 CGGTCCTCTGCAGGGTTTTT 60.537 55.000 13.79 0.00 40.80 1.94
124 400 1.073199 CGGTCCTCTGCAGGGTTTT 59.927 57.895 13.79 0.00 40.80 2.43
125 401 2.750350 CGGTCCTCTGCAGGGTTT 59.250 61.111 13.79 0.00 40.80 3.27
126 402 3.322466 CCGGTCCTCTGCAGGGTT 61.322 66.667 13.79 0.00 40.80 4.11
133 409 4.135153 CTGACGCCCGGTCCTCTG 62.135 72.222 0.00 0.00 45.46 3.35
134 410 4.680537 ACTGACGCCCGGTCCTCT 62.681 66.667 0.00 0.00 45.46 3.69
135 411 2.726822 AAAACTGACGCCCGGTCCTC 62.727 60.000 0.00 0.00 45.46 3.71
136 412 2.726822 GAAAACTGACGCCCGGTCCT 62.727 60.000 0.00 0.00 45.46 3.85
137 413 2.281276 AAAACTGACGCCCGGTCC 60.281 61.111 0.00 0.00 45.46 4.46
138 414 1.595929 TGAAAACTGACGCCCGGTC 60.596 57.895 0.00 0.00 46.27 4.79
139 415 1.890510 GTGAAAACTGACGCCCGGT 60.891 57.895 0.00 0.00 35.44 5.28
140 416 1.164041 AAGTGAAAACTGACGCCCGG 61.164 55.000 0.00 0.00 0.00 5.73
141 417 0.234884 GAAGTGAAAACTGACGCCCG 59.765 55.000 0.00 0.00 0.00 6.13
142 418 0.591659 GGAAGTGAAAACTGACGCCC 59.408 55.000 0.00 0.00 0.00 6.13
143 419 1.002792 GTGGAAGTGAAAACTGACGCC 60.003 52.381 0.00 0.00 0.00 5.68
144 420 1.668751 TGTGGAAGTGAAAACTGACGC 59.331 47.619 0.00 0.00 0.00 5.19
145 421 2.936498 ACTGTGGAAGTGAAAACTGACG 59.064 45.455 0.00 0.00 37.88 4.35
156 432 3.309296 TCTCCTTTCTCACTGTGGAAGT 58.691 45.455 8.11 0.00 40.93 3.01
157 433 4.342862 TTCTCCTTTCTCACTGTGGAAG 57.657 45.455 8.11 9.60 0.00 3.46
158 434 4.771114 TTTCTCCTTTCTCACTGTGGAA 57.229 40.909 8.11 7.67 0.00 3.53
159 435 4.347876 TCATTTCTCCTTTCTCACTGTGGA 59.652 41.667 8.11 1.47 0.00 4.02
160 436 4.645535 TCATTTCTCCTTTCTCACTGTGG 58.354 43.478 8.11 0.00 0.00 4.17
161 437 6.261826 ACTTTCATTTCTCCTTTCTCACTGTG 59.738 38.462 0.17 0.17 0.00 3.66
162 438 6.261826 CACTTTCATTTCTCCTTTCTCACTGT 59.738 38.462 0.00 0.00 0.00 3.55
163 439 6.293845 CCACTTTCATTTCTCCTTTCTCACTG 60.294 42.308 0.00 0.00 0.00 3.66
164 440 5.767168 CCACTTTCATTTCTCCTTTCTCACT 59.233 40.000 0.00 0.00 0.00 3.41
165 441 5.563671 GCCACTTTCATTTCTCCTTTCTCAC 60.564 44.000 0.00 0.00 0.00 3.51
166 442 4.520492 GCCACTTTCATTTCTCCTTTCTCA 59.480 41.667 0.00 0.00 0.00 3.27
167 443 4.378874 CGCCACTTTCATTTCTCCTTTCTC 60.379 45.833 0.00 0.00 0.00 2.87
168 444 3.503748 CGCCACTTTCATTTCTCCTTTCT 59.496 43.478 0.00 0.00 0.00 2.52
169 445 3.826466 CGCCACTTTCATTTCTCCTTTC 58.174 45.455 0.00 0.00 0.00 2.62
170 446 2.029918 GCGCCACTTTCATTTCTCCTTT 60.030 45.455 0.00 0.00 0.00 3.11
171 447 1.541588 GCGCCACTTTCATTTCTCCTT 59.458 47.619 0.00 0.00 0.00 3.36
172 448 1.168714 GCGCCACTTTCATTTCTCCT 58.831 50.000 0.00 0.00 0.00 3.69
173 449 0.179189 CGCGCCACTTTCATTTCTCC 60.179 55.000 0.00 0.00 0.00 3.71
174 450 0.796312 TCGCGCCACTTTCATTTCTC 59.204 50.000 0.00 0.00 0.00 2.87
175 451 1.234821 TTCGCGCCACTTTCATTTCT 58.765 45.000 0.00 0.00 0.00 2.52
176 452 2.044888 TTTCGCGCCACTTTCATTTC 57.955 45.000 0.00 0.00 0.00 2.17
177 453 2.500509 TTTTCGCGCCACTTTCATTT 57.499 40.000 0.00 0.00 0.00 2.32
178 454 2.124122 GTTTTTCGCGCCACTTTCATT 58.876 42.857 0.00 0.00 0.00 2.57
179 455 1.601914 GGTTTTTCGCGCCACTTTCAT 60.602 47.619 0.00 0.00 0.00 2.57
180 456 0.248702 GGTTTTTCGCGCCACTTTCA 60.249 50.000 0.00 0.00 0.00 2.69
181 457 0.937699 GGGTTTTTCGCGCCACTTTC 60.938 55.000 0.00 0.00 0.00 2.62
182 458 1.066752 GGGTTTTTCGCGCCACTTT 59.933 52.632 0.00 0.00 0.00 2.66
183 459 1.826487 AGGGTTTTTCGCGCCACTT 60.826 52.632 0.00 0.00 0.00 3.16
184 460 2.203294 AGGGTTTTTCGCGCCACT 60.203 55.556 0.00 0.00 0.00 4.00
185 461 2.050442 CAGGGTTTTTCGCGCCAC 60.050 61.111 0.00 0.00 0.00 5.01
186 462 3.972276 GCAGGGTTTTTCGCGCCA 61.972 61.111 0.00 0.00 0.00 5.69
187 463 4.717629 GGCAGGGTTTTTCGCGCC 62.718 66.667 0.00 0.00 39.59 6.53
189 465 3.308878 CTCGGCAGGGTTTTTCGCG 62.309 63.158 0.00 0.00 0.00 5.87
190 466 2.561373 CTCGGCAGGGTTTTTCGC 59.439 61.111 0.00 0.00 0.00 4.70
191 467 1.302192 TCCTCGGCAGGGTTTTTCG 60.302 57.895 3.64 0.00 40.80 3.46
192 468 1.241990 GGTCCTCGGCAGGGTTTTTC 61.242 60.000 3.64 0.00 40.80 2.29
193 469 1.228459 GGTCCTCGGCAGGGTTTTT 60.228 57.895 3.64 0.00 40.80 1.94
194 470 2.434774 GGTCCTCGGCAGGGTTTT 59.565 61.111 3.64 0.00 40.80 2.43
195 471 4.016706 CGGTCCTCGGCAGGGTTT 62.017 66.667 3.64 0.00 40.80 3.27
204 480 2.138656 AAACTGACGTCCGGTCCTCG 62.139 60.000 14.12 5.46 45.46 4.63
205 481 0.033090 AAAACTGACGTCCGGTCCTC 59.967 55.000 14.12 0.00 45.46 3.71
206 482 0.033090 GAAAACTGACGTCCGGTCCT 59.967 55.000 14.12 0.00 45.46 3.85
207 483 0.249573 TGAAAACTGACGTCCGGTCC 60.250 55.000 14.12 1.85 45.46 4.46
208 484 0.857287 GTGAAAACTGACGTCCGGTC 59.143 55.000 14.12 6.84 46.27 4.79
209 485 0.462789 AGTGAAAACTGACGTCCGGT 59.537 50.000 14.12 9.26 35.44 5.28
210 486 1.525619 GAAGTGAAAACTGACGTCCGG 59.474 52.381 14.12 8.57 0.00 5.14
211 487 1.525619 GGAAGTGAAAACTGACGTCCG 59.474 52.381 14.12 9.58 32.22 4.79
212 488 1.525619 CGGAAGTGAAAACTGACGTCC 59.474 52.381 14.12 0.00 37.38 4.79
213 489 1.070776 GCGGAAGTGAAAACTGACGTC 60.071 52.381 9.11 9.11 0.00 4.34
214 490 0.935196 GCGGAAGTGAAAACTGACGT 59.065 50.000 0.00 0.00 0.00 4.34
219 495 3.476552 TCTCAATGCGGAAGTGAAAACT 58.523 40.909 0.00 0.00 31.29 2.66
221 497 3.253188 CCTTCTCAATGCGGAAGTGAAAA 59.747 43.478 12.14 0.00 37.73 2.29
235 511 5.104941 TGTCACTTTCAGTTCTCCTTCTCAA 60.105 40.000 0.00 0.00 0.00 3.02
254 530 1.686052 TGCAGGGGTTTTTCATGTCAC 59.314 47.619 0.00 0.00 0.00 3.67
257 533 2.242043 CTCTGCAGGGGTTTTTCATGT 58.758 47.619 15.13 0.00 0.00 3.21
262 538 1.780919 AGGTACTCTGCAGGGGTTTTT 59.219 47.619 20.01 0.00 0.00 1.94
263 539 1.073923 CAGGTACTCTGCAGGGGTTTT 59.926 52.381 20.01 0.00 34.60 2.43
267 543 3.036429 GCCAGGTACTCTGCAGGGG 62.036 68.421 20.01 12.05 42.05 4.79
271 547 2.646175 GGACGCCAGGTACTCTGCA 61.646 63.158 5.98 0.00 42.05 4.41
278 554 2.042404 AACCAAACGGACGCCAGGTA 62.042 55.000 3.60 0.00 0.00 3.08
282 558 1.451567 TGAAACCAAACGGACGCCA 60.452 52.632 0.00 0.00 0.00 5.69
304 643 1.951602 TCGGTTCTCTTCTCAACACGA 59.048 47.619 0.00 0.00 0.00 4.35
307 646 3.875134 GGTTTTCGGTTCTCTTCTCAACA 59.125 43.478 0.00 0.00 0.00 3.33
309 648 3.128349 CGGTTTTCGGTTCTCTTCTCAA 58.872 45.455 0.00 0.00 34.75 3.02
314 653 1.838568 GCGCGGTTTTCGGTTCTCTT 61.839 55.000 8.83 0.00 39.69 2.85
340 679 3.391382 GCCCCGTACTCTGCCACT 61.391 66.667 0.00 0.00 0.00 4.00
341 680 4.468689 GGCCCCGTACTCTGCCAC 62.469 72.222 10.46 0.00 43.46 5.01
342 681 3.305619 TAGGCCCCGTACTCTGCCA 62.306 63.158 15.84 3.11 46.45 4.92
358 697 6.256975 TCATTTACCATCGAATTGAACCGTAG 59.743 38.462 0.00 0.00 0.00 3.51
366 705 8.970691 AAAGTTCTTCATTTACCATCGAATTG 57.029 30.769 0.00 0.00 0.00 2.32
367 706 9.626045 GAAAAGTTCTTCATTTACCATCGAATT 57.374 29.630 0.00 0.00 0.00 2.17
369 708 8.160521 TGAAAAGTTCTTCATTTACCATCGAA 57.839 30.769 0.00 0.00 30.31 3.71
381 721 7.720957 TCTTCATCTTCCATGAAAAGTTCTTCA 59.279 33.333 0.00 3.89 39.56 3.02
389 729 6.127535 GCCAGATTCTTCATCTTCCATGAAAA 60.128 38.462 0.00 0.00 40.67 2.29
402 742 8.463930 TTCTTTTCTTTTAGCCAGATTCTTCA 57.536 30.769 0.00 0.00 0.00 3.02
411 751 9.665719 AAATGTTCTTTTCTTTTCTTTTAGCCA 57.334 25.926 0.00 0.00 0.00 4.75
436 780 7.382488 TGTTCTTCATCGTGTCAAAAACAAAAA 59.618 29.630 0.00 0.00 40.31 1.94
543 924 7.270047 TCTCTTCTTCGTCTTTCTTACCAAAA 58.730 34.615 0.00 0.00 0.00 2.44
544 925 6.812998 TCTCTTCTTCGTCTTTCTTACCAAA 58.187 36.000 0.00 0.00 0.00 3.28
545 926 6.401047 TCTCTTCTTCGTCTTTCTTACCAA 57.599 37.500 0.00 0.00 0.00 3.67
546 927 6.401047 TTCTCTTCTTCGTCTTTCTTACCA 57.599 37.500 0.00 0.00 0.00 3.25
547 928 7.565848 GTTTTCTCTTCTTCGTCTTTCTTACC 58.434 38.462 0.00 0.00 0.00 2.85
548 929 7.275075 CGTTTTCTCTTCTTCGTCTTTCTTAC 58.725 38.462 0.00 0.00 0.00 2.34
549 930 6.420008 CCGTTTTCTCTTCTTCGTCTTTCTTA 59.580 38.462 0.00 0.00 0.00 2.10
550 931 5.234543 CCGTTTTCTCTTCTTCGTCTTTCTT 59.765 40.000 0.00 0.00 0.00 2.52
551 932 4.745620 CCGTTTTCTCTTCTTCGTCTTTCT 59.254 41.667 0.00 0.00 0.00 2.52
553 934 3.247886 GCCGTTTTCTCTTCTTCGTCTTT 59.752 43.478 0.00 0.00 0.00 2.52
558 939 0.438830 CCGCCGTTTTCTCTTCTTCG 59.561 55.000 0.00 0.00 0.00 3.79
560 941 0.605589 CCCCGCCGTTTTCTCTTCTT 60.606 55.000 0.00 0.00 0.00 2.52
565 946 1.577922 GTTTCCCCGCCGTTTTCTC 59.422 57.895 0.00 0.00 0.00 2.87
566 947 1.900016 GGTTTCCCCGCCGTTTTCT 60.900 57.895 0.00 0.00 0.00 2.52
577 958 1.886542 GTGTCTGTCCAATGGTTTCCC 59.113 52.381 0.00 0.00 0.00 3.97
595 977 2.528743 GCCTCATCATCGTGCCGTG 61.529 63.158 0.00 0.00 0.00 4.94
624 1134 1.736645 CGTCCGCGACCAATCTGTT 60.737 57.895 8.23 0.00 41.33 3.16
628 1138 2.433664 AACCGTCCGCGACCAATC 60.434 61.111 8.23 0.00 41.33 2.67
718 1231 4.803426 GGCGAGACAGGTGGAGCG 62.803 72.222 0.00 0.00 0.00 5.03
719 1232 4.803426 CGGCGAGACAGGTGGAGC 62.803 72.222 0.00 0.00 0.00 4.70
720 1233 3.343788 GACGGCGAGACAGGTGGAG 62.344 68.421 16.62 0.00 0.00 3.86
721 1234 3.371063 GACGGCGAGACAGGTGGA 61.371 66.667 16.62 0.00 0.00 4.02
722 1235 4.436998 GGACGGCGAGACAGGTGG 62.437 72.222 16.62 0.00 0.00 4.61
723 1236 4.436998 GGGACGGCGAGACAGGTG 62.437 72.222 16.62 0.00 0.00 4.00
736 1249 1.797025 CTCTTGAAACCTGACGGGAC 58.203 55.000 7.51 0.00 38.76 4.46
777 1294 0.895559 GAGAACACAAGGGGCCAAGG 60.896 60.000 4.39 0.00 0.00 3.61
779 1296 0.110486 GAGAGAACACAAGGGGCCAA 59.890 55.000 4.39 0.00 0.00 4.52
1089 1624 3.837570 CTGCTGGTGCTGGTGCTGA 62.838 63.158 0.00 0.00 40.48 4.26
1641 2188 4.070552 GCGGCGAAGAGGGTGACT 62.071 66.667 12.98 0.00 0.00 3.41
2016 2563 1.134818 TGCTTCGTCGCCATATTCTGT 60.135 47.619 0.00 0.00 0.00 3.41
2031 2578 1.639298 GACCGCCTGATGTGTGCTTC 61.639 60.000 0.00 0.00 0.00 3.86
2035 2582 1.807165 CTCGACCGCCTGATGTGTG 60.807 63.158 0.00 0.00 0.00 3.82
2048 2600 0.725784 CACGCAAAATGTGGCTCGAC 60.726 55.000 0.00 0.00 33.69 4.20
2050 2602 4.135570 CACGCAAAATGTGGCTCG 57.864 55.556 0.00 0.00 33.69 5.03
2064 2616 2.742053 CACTGACCTCCAATTAACCACG 59.258 50.000 0.00 0.00 0.00 4.94
2110 2665 1.300931 GTTCCGCACTGACTCAGCA 60.301 57.895 5.92 0.00 34.37 4.41
2119 2674 3.955650 ATACACTAACAGTTCCGCACT 57.044 42.857 0.00 0.00 35.35 4.40
2120 2675 4.708601 CAAATACACTAACAGTTCCGCAC 58.291 43.478 0.00 0.00 0.00 5.34
2121 2676 3.187637 GCAAATACACTAACAGTTCCGCA 59.812 43.478 0.00 0.00 0.00 5.69
2122 2677 3.435671 AGCAAATACACTAACAGTTCCGC 59.564 43.478 0.00 0.00 0.00 5.54
2123 2678 5.220416 GCTAGCAAATACACTAACAGTTCCG 60.220 44.000 10.63 0.00 0.00 4.30
2124 2679 5.642063 TGCTAGCAAATACACTAACAGTTCC 59.358 40.000 16.84 0.00 0.00 3.62
2125 2680 6.721571 TGCTAGCAAATACACTAACAGTTC 57.278 37.500 16.84 0.00 0.00 3.01
2126 2681 7.687941 ATTGCTAGCAAATACACTAACAGTT 57.312 32.000 32.35 9.31 39.55 3.16
2127 2682 7.530010 CAATTGCTAGCAAATACACTAACAGT 58.470 34.615 32.35 9.76 39.55 3.55
2128 2683 6.470235 GCAATTGCTAGCAAATACACTAACAG 59.530 38.462 32.35 11.14 39.55 3.16
2148 2703 7.499321 AATCACATTTCACATGTTTGCAATT 57.501 28.000 0.00 0.00 0.00 2.32
2235 2790 0.319900 GTGAGGCGAGCACTTCTCAA 60.320 55.000 3.93 0.00 41.98 3.02
2253 2808 8.641498 AACATCTCAAATGGAAAGTGAATAGT 57.359 30.769 0.00 0.00 0.00 2.12
2259 2814 9.918630 ATAAGAAAACATCTCAAATGGAAAGTG 57.081 29.630 0.00 0.00 37.42 3.16
2291 2854 1.607148 GGAGGTTTTGTACACTGGCAC 59.393 52.381 0.00 0.00 0.00 5.01
2321 2884 6.694411 CGGCGTACTGTACTACTAAATTTGAT 59.306 38.462 15.35 0.00 0.00 2.57
2322 2885 6.029607 CGGCGTACTGTACTACTAAATTTGA 58.970 40.000 15.35 0.00 0.00 2.69
2323 2886 5.801947 ACGGCGTACTGTACTACTAAATTTG 59.198 40.000 12.58 0.00 31.99 2.32
2324 2887 5.954335 ACGGCGTACTGTACTACTAAATTT 58.046 37.500 12.58 0.00 31.99 1.82
2325 2888 5.567138 ACGGCGTACTGTACTACTAAATT 57.433 39.130 12.58 0.00 31.99 1.82
2326 2889 6.483307 TCATACGGCGTACTGTACTACTAAAT 59.517 38.462 23.50 0.00 40.45 1.40
2327 2890 5.815222 TCATACGGCGTACTGTACTACTAAA 59.185 40.000 23.50 0.00 40.45 1.85
2328 2891 5.356426 TCATACGGCGTACTGTACTACTAA 58.644 41.667 23.50 0.00 40.45 2.24
2329 2892 4.944048 TCATACGGCGTACTGTACTACTA 58.056 43.478 23.50 0.00 40.45 1.82
2474 3046 6.159751 TGGTTCCTAGATTTAATTAGCCCTGT 59.840 38.462 0.00 0.00 0.00 4.00
2475 3047 6.601332 TGGTTCCTAGATTTAATTAGCCCTG 58.399 40.000 0.00 0.00 0.00 4.45
2476 3048 6.841781 TGGTTCCTAGATTTAATTAGCCCT 57.158 37.500 0.00 0.00 0.00 5.19
2477 3049 7.829706 CCTATGGTTCCTAGATTTAATTAGCCC 59.170 40.741 0.00 0.00 0.00 5.19
2478 3050 7.829706 CCCTATGGTTCCTAGATTTAATTAGCC 59.170 40.741 0.00 0.00 0.00 3.93
2479 3051 8.603304 TCCCTATGGTTCCTAGATTTAATTAGC 58.397 37.037 0.00 0.00 0.00 3.09
2485 3057 9.435570 GCTATATCCCTATGGTTCCTAGATTTA 57.564 37.037 0.00 0.00 0.00 1.40
2486 3058 7.070074 CGCTATATCCCTATGGTTCCTAGATTT 59.930 40.741 0.00 0.00 0.00 2.17
2487 3059 6.551601 CGCTATATCCCTATGGTTCCTAGATT 59.448 42.308 0.00 0.00 0.00 2.40
2488 3060 6.071984 CGCTATATCCCTATGGTTCCTAGAT 58.928 44.000 0.00 0.00 0.00 1.98
2489 3061 5.193124 TCGCTATATCCCTATGGTTCCTAGA 59.807 44.000 0.00 0.00 0.00 2.43
2490 3062 5.299782 GTCGCTATATCCCTATGGTTCCTAG 59.700 48.000 0.00 0.00 0.00 3.02
2491 3063 5.198965 GTCGCTATATCCCTATGGTTCCTA 58.801 45.833 0.00 0.00 0.00 2.94
2518 3090 7.095017 CCTTGGTGTTTTCTTCAGATCTTCTAC 60.095 40.741 0.00 0.00 0.00 2.59
2527 3102 2.294512 GAGGCCTTGGTGTTTTCTTCAG 59.705 50.000 6.77 0.00 0.00 3.02
2632 3241 1.458209 AGCCAAACAGCCAAGCCTT 60.458 52.632 0.00 0.00 0.00 4.35
2700 3309 9.573166 TGGCTTAAGAACATGCTAATTACATAT 57.427 29.630 6.67 0.00 0.00 1.78
2701 3310 8.972458 TGGCTTAAGAACATGCTAATTACATA 57.028 30.769 6.67 0.00 0.00 2.29
2702 3311 7.880160 TGGCTTAAGAACATGCTAATTACAT 57.120 32.000 6.67 0.00 0.00 2.29
2703 3312 7.555914 TCATGGCTTAAGAACATGCTAATTACA 59.444 33.333 24.48 10.67 41.22 2.41
2704 3313 7.930217 TCATGGCTTAAGAACATGCTAATTAC 58.070 34.615 24.48 0.00 41.22 1.89
2705 3314 8.518430 TTCATGGCTTAAGAACATGCTAATTA 57.482 30.769 24.48 11.66 41.22 1.40
2706 3315 7.408756 TTCATGGCTTAAGAACATGCTAATT 57.591 32.000 24.48 0.00 41.22 1.40
2707 3316 6.040166 CCTTCATGGCTTAAGAACATGCTAAT 59.960 38.462 24.48 1.34 41.22 1.73
2708 3317 5.357878 CCTTCATGGCTTAAGAACATGCTAA 59.642 40.000 24.48 17.46 41.22 3.09
2722 3331 2.699846 GAGACTGAGATCCTTCATGGCT 59.300 50.000 0.00 0.00 35.26 4.75
2803 3412 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2813 3455 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2815 3457 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2816 3458 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
2817 3459 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
2818 3460 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
2819 3461 5.221422 GGAAGAGAGAGAGAGAGAGAGAGAG 60.221 52.000 0.00 0.00 0.00 3.20
2820 3462 4.651503 GGAAGAGAGAGAGAGAGAGAGAGA 59.348 50.000 0.00 0.00 0.00 3.10
2821 3463 4.653341 AGGAAGAGAGAGAGAGAGAGAGAG 59.347 50.000 0.00 0.00 0.00 3.20
2822 3464 4.624913 AGGAAGAGAGAGAGAGAGAGAGA 58.375 47.826 0.00 0.00 0.00 3.10
2823 3465 5.365021 AAGGAAGAGAGAGAGAGAGAGAG 57.635 47.826 0.00 0.00 0.00 3.20
2824 3466 5.500234 CAAAGGAAGAGAGAGAGAGAGAGA 58.500 45.833 0.00 0.00 0.00 3.10
2825 3467 4.096984 GCAAAGGAAGAGAGAGAGAGAGAG 59.903 50.000 0.00 0.00 0.00 3.20
2826 3468 4.016444 GCAAAGGAAGAGAGAGAGAGAGA 58.984 47.826 0.00 0.00 0.00 3.10
2827 3469 3.131046 GGCAAAGGAAGAGAGAGAGAGAG 59.869 52.174 0.00 0.00 0.00 3.20
2828 3470 3.096092 GGCAAAGGAAGAGAGAGAGAGA 58.904 50.000 0.00 0.00 0.00 3.10
2829 3471 2.830923 TGGCAAAGGAAGAGAGAGAGAG 59.169 50.000 0.00 0.00 0.00 3.20
2830 3472 2.564947 GTGGCAAAGGAAGAGAGAGAGA 59.435 50.000 0.00 0.00 0.00 3.10
2831 3473 2.301296 TGTGGCAAAGGAAGAGAGAGAG 59.699 50.000 0.00 0.00 0.00 3.20
2832 3474 2.329267 TGTGGCAAAGGAAGAGAGAGA 58.671 47.619 0.00 0.00 0.00 3.10
2833 3475 2.847327 TGTGGCAAAGGAAGAGAGAG 57.153 50.000 0.00 0.00 0.00 3.20
2834 3476 3.560025 GGAATGTGGCAAAGGAAGAGAGA 60.560 47.826 0.00 0.00 0.00 3.10
2835 3477 2.751806 GGAATGTGGCAAAGGAAGAGAG 59.248 50.000 0.00 0.00 0.00 3.20
2836 3478 2.376518 AGGAATGTGGCAAAGGAAGAGA 59.623 45.455 0.00 0.00 0.00 3.10
2837 3479 2.800250 AGGAATGTGGCAAAGGAAGAG 58.200 47.619 0.00 0.00 0.00 2.85
2838 3480 2.978156 AGGAATGTGGCAAAGGAAGA 57.022 45.000 0.00 0.00 0.00 2.87
2839 3481 3.321682 TCAAAGGAATGTGGCAAAGGAAG 59.678 43.478 0.00 0.00 0.00 3.46


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

AutoCloner maintained by Alex Coulton.