Multiple sequence alignment - TraesCS4B01G381400

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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 TraesCS4B01G381400 chr4B 100.000 3424 0 0 1 3424 661152927 661149504 0.000000e+00 6324.0
1 TraesCS4B01G381400 chr4B 95.009 581 26 1 1 578 658989549 658988969 0.000000e+00 909.0
2 TraesCS4B01G381400 chr2A 98.036 2851 29 4 575 3424 2768053 2765229 0.000000e+00 4929.0
3 TraesCS4B01G381400 chr2A 96.677 2859 63 4 569 3424 734935080 734932251 0.000000e+00 4724.0
4 TraesCS4B01G381400 chr6B 97.927 2846 33 1 579 3424 704743237 704746056 0.000000e+00 4905.0
5 TraesCS4B01G381400 chr6B 96.559 465 10 2 2966 3424 449459809 449459345 0.000000e+00 765.0
6 TraesCS4B01G381400 chr6B 91.701 482 39 1 1 482 142635529 142635049 0.000000e+00 667.0
7 TraesCS4B01G381400 chr6B 89.648 483 47 3 1 482 142675675 142675195 2.260000e-171 612.0
8 TraesCS4B01G381400 chr6A 97.789 2849 45 4 579 3424 223588522 223585689 0.000000e+00 4896.0
9 TraesCS4B01G381400 chr5A 96.954 2856 49 6 578 3424 44279441 44276615 0.000000e+00 4758.0
10 TraesCS4B01G381400 chr5A 96.257 2859 65 11 579 3424 547393657 547396486 0.000000e+00 4649.0
11 TraesCS4B01G381400 chr7A 96.845 2853 51 7 579 3422 13133456 13130634 0.000000e+00 4734.0
12 TraesCS4B01G381400 chr7A 96.674 2856 57 6 578 3424 707670449 707673275 0.000000e+00 4713.0
13 TraesCS4B01G381400 chrUn 96.744 2856 54 14 579 3424 8808795 8805969 0.000000e+00 4723.0
14 TraesCS4B01G381400 chr7B 96.639 2856 55 9 578 3424 714452957 714450134 0.000000e+00 4704.0
15 TraesCS4B01G381400 chr7B 97.209 1075 30 0 579 1653 214068530 214067456 0.000000e+00 1820.0
16 TraesCS4B01G381400 chr3B 96.567 2855 54 7 579 3424 60270841 60273660 0.000000e+00 4689.0
17 TraesCS4B01G381400 chr3B 77.007 274 39 15 212 475 147418904 147419163 5.960000e-28 135.0
18 TraesCS4B01G381400 chr1B 92.958 923 32 9 2531 3424 39897180 39896262 0.000000e+00 1314.0
19 TraesCS4B01G381400 chr1B 75.829 422 74 20 63 476 562452683 562453084 4.510000e-44 189.0
20 TraesCS4B01G381400 chr6D 78.667 150 23 8 107 248 458380001 458380149 1.310000e-14 91.6
21 TraesCS4B01G381400 chr5D 78.667 150 23 9 107 248 70413548 70413696 1.310000e-14 91.6
22 TraesCS4B01G381400 chr4D 78.667 150 23 8 107 248 440265420 440265272 1.310000e-14 91.6
23 TraesCS4B01G381400 chr4D 78.667 150 23 8 107 248 484249719 484249867 1.310000e-14 91.6


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 TraesCS4B01G381400 chr4B 661149504 661152927 3423 True 6324 6324 100.000 1 3424 1 chr4B.!!$R2 3423
1 TraesCS4B01G381400 chr4B 658988969 658989549 580 True 909 909 95.009 1 578 1 chr4B.!!$R1 577
2 TraesCS4B01G381400 chr2A 2765229 2768053 2824 True 4929 4929 98.036 575 3424 1 chr2A.!!$R1 2849
3 TraesCS4B01G381400 chr2A 734932251 734935080 2829 True 4724 4724 96.677 569 3424 1 chr2A.!!$R2 2855
4 TraesCS4B01G381400 chr6B 704743237 704746056 2819 False 4905 4905 97.927 579 3424 1 chr6B.!!$F1 2845
5 TraesCS4B01G381400 chr6A 223585689 223588522 2833 True 4896 4896 97.789 579 3424 1 chr6A.!!$R1 2845
6 TraesCS4B01G381400 chr5A 44276615 44279441 2826 True 4758 4758 96.954 578 3424 1 chr5A.!!$R1 2846
7 TraesCS4B01G381400 chr5A 547393657 547396486 2829 False 4649 4649 96.257 579 3424 1 chr5A.!!$F1 2845
8 TraesCS4B01G381400 chr7A 13130634 13133456 2822 True 4734 4734 96.845 579 3422 1 chr7A.!!$R1 2843
9 TraesCS4B01G381400 chr7A 707670449 707673275 2826 False 4713 4713 96.674 578 3424 1 chr7A.!!$F1 2846
10 TraesCS4B01G381400 chrUn 8805969 8808795 2826 True 4723 4723 96.744 579 3424 1 chrUn.!!$R1 2845
11 TraesCS4B01G381400 chr7B 714450134 714452957 2823 True 4704 4704 96.639 578 3424 1 chr7B.!!$R2 2846
12 TraesCS4B01G381400 chr7B 214067456 214068530 1074 True 1820 1820 97.209 579 1653 1 chr7B.!!$R1 1074
13 TraesCS4B01G381400 chr3B 60270841 60273660 2819 False 4689 4689 96.567 579 3424 1 chr3B.!!$F1 2845
14 TraesCS4B01G381400 chr1B 39896262 39897180 918 True 1314 1314 92.958 2531 3424 1 chr1B.!!$R1 893

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
569 573 0.108662 CCGGCCTTTTGATTGCTTCC 60.109 55.000 0.0 0.0 0.0 3.46 F
572 576 1.205655 GGCCTTTTGATTGCTTCCCTC 59.794 52.381 0.0 0.0 0.0 4.30 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1870 1936 2.154462 CACAGTTCACACCTTCATCCC 58.846 52.381 0.0 0.0 0.00 3.85 R
2711 2889 6.791867 TGCTACTTCCAACTATGTCAGTAT 57.208 37.500 0.0 0.0 36.04 2.12 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
119 123 5.358725 TCTTGGAACACTTGTTTTAAGGGAC 59.641 40.000 14.29 0.00 39.29 4.46
127 131 5.989168 CACTTGTTTTAAGGGACCAAAATCC 59.011 40.000 0.00 0.00 38.13 3.01
136 140 2.557452 GGGACCAAAATCCTCCATGTGT 60.557 50.000 0.00 0.00 38.95 3.72
156 160 6.303054 TGTGTCCTCTTCAATTAATGGACAA 58.697 36.000 19.27 10.65 44.76 3.18
167 171 9.868277 TTCAATTAATGGACAATAACAATGGAC 57.132 29.630 0.00 0.00 0.00 4.02
168 172 9.029368 TCAATTAATGGACAATAACAATGGACA 57.971 29.630 0.00 0.00 0.00 4.02
169 173 9.820725 CAATTAATGGACAATAACAATGGACAT 57.179 29.630 0.00 0.00 0.00 3.06
170 174 9.820725 AATTAATGGACAATAACAATGGACATG 57.179 29.630 0.00 0.00 0.00 3.21
171 175 4.717233 TGGACAATAACAATGGACATGC 57.283 40.909 0.00 0.00 0.00 4.06
172 176 4.343231 TGGACAATAACAATGGACATGCT 58.657 39.130 0.00 0.00 0.00 3.79
173 177 4.771577 TGGACAATAACAATGGACATGCTT 59.228 37.500 0.00 0.00 0.00 3.91
174 178 5.105797 TGGACAATAACAATGGACATGCTTC 60.106 40.000 0.00 0.00 0.00 3.86
175 179 5.105797 GGACAATAACAATGGACATGCTTCA 60.106 40.000 0.00 0.00 0.00 3.02
176 180 5.713025 ACAATAACAATGGACATGCTTCAC 58.287 37.500 0.00 0.00 0.00 3.18
177 181 2.995466 AACAATGGACATGCTTCACG 57.005 45.000 0.00 0.00 0.00 4.35
178 182 2.183478 ACAATGGACATGCTTCACGA 57.817 45.000 0.00 0.00 0.00 4.35
179 183 2.079158 ACAATGGACATGCTTCACGAG 58.921 47.619 0.00 0.00 0.00 4.18
180 184 2.289631 ACAATGGACATGCTTCACGAGA 60.290 45.455 0.00 0.00 0.00 4.04
181 185 2.743664 CAATGGACATGCTTCACGAGAA 59.256 45.455 0.00 0.00 0.00 2.87
195 199 1.910688 CGAGAAGGTCGGTCTTAAGC 58.089 55.000 0.00 0.00 45.58 3.09
196 200 1.201647 CGAGAAGGTCGGTCTTAAGCA 59.798 52.381 0.00 0.00 45.58 3.91
197 201 2.159226 CGAGAAGGTCGGTCTTAAGCAT 60.159 50.000 0.00 0.00 45.58 3.79
198 202 3.066342 CGAGAAGGTCGGTCTTAAGCATA 59.934 47.826 0.00 0.00 45.58 3.14
199 203 4.439700 CGAGAAGGTCGGTCTTAAGCATAA 60.440 45.833 0.00 0.00 45.58 1.90
200 204 5.012328 AGAAGGTCGGTCTTAAGCATAAG 57.988 43.478 2.22 2.22 39.97 1.73
201 205 4.710375 AGAAGGTCGGTCTTAAGCATAAGA 59.290 41.667 7.30 7.30 44.07 2.10
202 206 5.187186 AGAAGGTCGGTCTTAAGCATAAGAA 59.813 40.000 12.70 0.00 46.83 2.52
203 207 5.012328 AGGTCGGTCTTAAGCATAAGAAG 57.988 43.478 12.70 10.19 46.83 2.85
204 208 4.710375 AGGTCGGTCTTAAGCATAAGAAGA 59.290 41.667 12.70 12.09 46.83 2.87
205 209 5.364157 AGGTCGGTCTTAAGCATAAGAAGAT 59.636 40.000 12.70 0.78 46.83 2.40
206 210 6.550108 AGGTCGGTCTTAAGCATAAGAAGATA 59.450 38.462 12.70 0.00 46.83 1.98
207 211 7.233757 AGGTCGGTCTTAAGCATAAGAAGATAT 59.766 37.037 12.70 6.36 46.83 1.63
208 212 8.521176 GGTCGGTCTTAAGCATAAGAAGATATA 58.479 37.037 12.70 0.00 46.83 0.86
211 215 9.862371 CGGTCTTAAGCATAAGAAGATATATGT 57.138 33.333 12.70 0.00 46.83 2.29
219 223 9.814899 AGCATAAGAAGATATATGTGTGCTATC 57.185 33.333 0.00 0.00 37.43 2.08
220 224 9.814899 GCATAAGAAGATATATGTGTGCTATCT 57.185 33.333 0.00 0.00 34.47 1.98
234 238 9.783081 ATGTGTGCTATCTATCATTTGTAATGA 57.217 29.630 4.72 4.72 0.00 2.57
235 239 9.612066 TGTGTGCTATCTATCATTTGTAATGAA 57.388 29.630 6.23 0.00 0.00 2.57
237 241 9.836864 TGTGCTATCTATCATTTGTAATGAAGT 57.163 29.630 6.23 0.00 0.00 3.01
239 243 8.777413 TGCTATCTATCATTTGTAATGAAGTGC 58.223 33.333 6.23 10.40 0.00 4.40
240 244 8.777413 GCTATCTATCATTTGTAATGAAGTGCA 58.223 33.333 6.23 0.00 0.00 4.57
242 246 7.920160 TCTATCATTTGTAATGAAGTGCACA 57.080 32.000 21.04 0.00 0.00 4.57
243 247 8.334263 TCTATCATTTGTAATGAAGTGCACAA 57.666 30.769 21.04 4.31 0.00 3.33
244 248 8.959548 TCTATCATTTGTAATGAAGTGCACAAT 58.040 29.630 21.04 7.32 31.45 2.71
247 251 9.926158 ATCATTTGTAATGAAGTGCACAATAAA 57.074 25.926 21.04 8.69 31.45 1.40
248 252 9.190858 TCATTTGTAATGAAGTGCACAATAAAC 57.809 29.630 21.04 10.13 31.45 2.01
249 253 8.976471 CATTTGTAATGAAGTGCACAATAAACA 58.024 29.630 21.04 12.60 31.45 2.83
250 254 9.709495 ATTTGTAATGAAGTGCACAATAAACAT 57.291 25.926 21.04 11.30 31.45 2.71
251 255 9.539825 TTTGTAATGAAGTGCACAATAAACATT 57.460 25.926 21.04 19.45 31.45 2.71
253 257 9.619316 TGTAATGAAGTGCACAATAAACATTAC 57.381 29.630 28.13 28.13 43.75 1.89
254 258 9.840427 GTAATGAAGTGCACAATAAACATTACT 57.160 29.630 27.89 13.51 42.00 2.24
255 259 8.970691 AATGAAGTGCACAATAAACATTACTC 57.029 30.769 21.04 0.00 0.00 2.59
256 260 7.744087 TGAAGTGCACAATAAACATTACTCT 57.256 32.000 21.04 0.00 0.00 3.24
257 261 8.840833 TGAAGTGCACAATAAACATTACTCTA 57.159 30.769 21.04 0.00 0.00 2.43
258 262 9.448438 TGAAGTGCACAATAAACATTACTCTAT 57.552 29.630 21.04 0.00 0.00 1.98
300 304 9.435688 TTTTGCATCAGATATAATAGTATGCGT 57.564 29.630 0.00 0.00 40.78 5.24
301 305 8.634475 TTGCATCAGATATAATAGTATGCGTC 57.366 34.615 0.00 0.00 40.78 5.19
302 306 7.771183 TGCATCAGATATAATAGTATGCGTCA 58.229 34.615 0.00 0.00 40.78 4.35
303 307 8.416329 TGCATCAGATATAATAGTATGCGTCAT 58.584 33.333 0.00 0.00 40.78 3.06
304 308 9.254133 GCATCAGATATAATAGTATGCGTCATT 57.746 33.333 0.00 0.00 0.00 2.57
316 320 7.975866 AGTATGCGTCATTGAATTTGATTTC 57.024 32.000 0.00 0.00 0.00 2.17
317 321 7.765307 AGTATGCGTCATTGAATTTGATTTCT 58.235 30.769 0.00 0.00 0.00 2.52
318 322 8.246180 AGTATGCGTCATTGAATTTGATTTCTT 58.754 29.630 0.00 0.00 0.00 2.52
319 323 9.502145 GTATGCGTCATTGAATTTGATTTCTTA 57.498 29.630 0.00 0.00 0.00 2.10
321 325 8.619146 TGCGTCATTGAATTTGATTTCTTATC 57.381 30.769 0.00 0.00 0.00 1.75
322 326 7.429051 TGCGTCATTGAATTTGATTTCTTATCG 59.571 33.333 0.00 0.00 0.00 2.92
323 327 7.639850 GCGTCATTGAATTTGATTTCTTATCGA 59.360 33.333 0.00 0.00 0.00 3.59
324 328 9.489393 CGTCATTGAATTTGATTTCTTATCGAA 57.511 29.630 0.00 0.00 0.00 3.71
338 342 8.948853 TTTCTTATCGAAATACTTTGCAAGTG 57.051 30.769 0.00 0.00 38.24 3.16
339 343 7.072177 TCTTATCGAAATACTTTGCAAGTGG 57.928 36.000 0.00 0.00 42.84 4.00
340 344 6.876789 TCTTATCGAAATACTTTGCAAGTGGA 59.123 34.615 0.00 0.00 42.84 4.02
341 345 5.551760 ATCGAAATACTTTGCAAGTGGAG 57.448 39.130 0.00 0.00 42.84 3.86
342 346 4.385825 TCGAAATACTTTGCAAGTGGAGT 58.614 39.130 6.73 6.73 42.84 3.85
343 347 4.213270 TCGAAATACTTTGCAAGTGGAGTG 59.787 41.667 11.01 0.00 42.84 3.51
344 348 4.613622 CGAAATACTTTGCAAGTGGAGTGG 60.614 45.833 11.01 0.00 42.84 4.00
345 349 3.788227 ATACTTTGCAAGTGGAGTGGA 57.212 42.857 11.01 0.00 42.84 4.02
346 350 2.664402 ACTTTGCAAGTGGAGTGGAT 57.336 45.000 0.00 0.00 41.01 3.41
347 351 2.949447 ACTTTGCAAGTGGAGTGGATT 58.051 42.857 0.00 0.00 41.01 3.01
348 352 3.299503 ACTTTGCAAGTGGAGTGGATTT 58.700 40.909 0.00 0.00 41.01 2.17
349 353 3.319122 ACTTTGCAAGTGGAGTGGATTTC 59.681 43.478 0.00 0.00 41.01 2.17
350 354 2.655090 TGCAAGTGGAGTGGATTTCA 57.345 45.000 0.00 0.00 0.00 2.69
351 355 2.942804 TGCAAGTGGAGTGGATTTCAA 58.057 42.857 0.00 0.00 0.00 2.69
352 356 3.499338 TGCAAGTGGAGTGGATTTCAAT 58.501 40.909 0.00 0.00 0.00 2.57
353 357 4.661222 TGCAAGTGGAGTGGATTTCAATA 58.339 39.130 0.00 0.00 0.00 1.90
354 358 5.263599 TGCAAGTGGAGTGGATTTCAATAT 58.736 37.500 0.00 0.00 0.00 1.28
355 359 5.716228 TGCAAGTGGAGTGGATTTCAATATT 59.284 36.000 0.00 0.00 0.00 1.28
356 360 6.211184 TGCAAGTGGAGTGGATTTCAATATTT 59.789 34.615 0.00 0.00 0.00 1.40
357 361 7.099120 GCAAGTGGAGTGGATTTCAATATTTT 58.901 34.615 0.00 0.00 0.00 1.82
358 362 7.603784 GCAAGTGGAGTGGATTTCAATATTTTT 59.396 33.333 0.00 0.00 0.00 1.94
378 382 6.969993 TTTTTGGTTTGTTACTGGCTATCT 57.030 33.333 0.00 0.00 0.00 1.98
379 383 6.969993 TTTTGGTTTGTTACTGGCTATCTT 57.030 33.333 0.00 0.00 0.00 2.40
380 384 6.969993 TTTGGTTTGTTACTGGCTATCTTT 57.030 33.333 0.00 0.00 0.00 2.52
381 385 8.466617 TTTTGGTTTGTTACTGGCTATCTTTA 57.533 30.769 0.00 0.00 0.00 1.85
382 386 8.644374 TTTGGTTTGTTACTGGCTATCTTTAT 57.356 30.769 0.00 0.00 0.00 1.40
383 387 8.644374 TTGGTTTGTTACTGGCTATCTTTATT 57.356 30.769 0.00 0.00 0.00 1.40
384 388 9.742144 TTGGTTTGTTACTGGCTATCTTTATTA 57.258 29.630 0.00 0.00 0.00 0.98
385 389 9.914834 TGGTTTGTTACTGGCTATCTTTATTAT 57.085 29.630 0.00 0.00 0.00 1.28
413 417 9.524106 CATGTGAAATTTGACATGCACTATATT 57.476 29.630 29.40 3.14 43.68 1.28
446 450 9.418045 TGCAACTAATACAATTTTTAAGAAGCC 57.582 29.630 0.00 0.00 0.00 4.35
447 451 8.869897 GCAACTAATACAATTTTTAAGAAGCCC 58.130 33.333 0.00 0.00 0.00 5.19
448 452 9.072294 CAACTAATACAATTTTTAAGAAGCCCG 57.928 33.333 0.00 0.00 0.00 6.13
449 453 8.344446 ACTAATACAATTTTTAAGAAGCCCGT 57.656 30.769 0.00 0.00 0.00 5.28
450 454 8.241367 ACTAATACAATTTTTAAGAAGCCCGTG 58.759 33.333 0.00 0.00 0.00 4.94
451 455 4.251543 ACAATTTTTAAGAAGCCCGTGG 57.748 40.909 0.00 0.00 0.00 4.94
465 469 4.289312 GTGGCAACGAACGGGTAT 57.711 55.556 0.00 0.00 42.51 2.73
466 470 2.547026 GTGGCAACGAACGGGTATT 58.453 52.632 0.00 0.00 42.51 1.89
467 471 0.167251 GTGGCAACGAACGGGTATTG 59.833 55.000 0.00 0.00 42.51 1.90
468 472 0.250381 TGGCAACGAACGGGTATTGT 60.250 50.000 0.00 0.00 42.51 2.71
469 473 1.001746 TGGCAACGAACGGGTATTGTA 59.998 47.619 0.00 0.00 42.51 2.41
470 474 1.394572 GGCAACGAACGGGTATTGTAC 59.605 52.381 0.00 0.00 0.00 2.90
471 475 2.340337 GCAACGAACGGGTATTGTACT 58.660 47.619 0.00 0.00 0.00 2.73
472 476 3.510719 GCAACGAACGGGTATTGTACTA 58.489 45.455 0.00 0.00 0.00 1.82
473 477 3.549070 GCAACGAACGGGTATTGTACTAG 59.451 47.826 0.00 0.00 0.00 2.57
474 478 4.737054 CAACGAACGGGTATTGTACTAGT 58.263 43.478 0.00 0.00 0.00 2.57
475 479 5.163513 CAACGAACGGGTATTGTACTAGTT 58.836 41.667 0.00 0.00 33.54 2.24
476 480 6.321717 CAACGAACGGGTATTGTACTAGTTA 58.678 40.000 0.00 0.00 32.03 2.24
477 481 6.699575 ACGAACGGGTATTGTACTAGTTAT 57.300 37.500 0.00 0.00 32.03 1.89
478 482 7.100458 ACGAACGGGTATTGTACTAGTTATT 57.900 36.000 0.00 0.00 32.03 1.40
479 483 8.220755 ACGAACGGGTATTGTACTAGTTATTA 57.779 34.615 0.00 0.00 32.03 0.98
480 484 8.850156 ACGAACGGGTATTGTACTAGTTATTAT 58.150 33.333 0.00 0.00 32.03 1.28
506 510 8.581253 AATTTTCCTCCTTGGTACTCATTAAG 57.419 34.615 0.00 0.00 37.07 1.85
507 511 6.945636 TTTCCTCCTTGGTACTCATTAAGA 57.054 37.500 0.00 0.00 37.07 2.10
508 512 7.510675 TTTCCTCCTTGGTACTCATTAAGAT 57.489 36.000 0.00 0.00 37.07 2.40
509 513 6.485830 TCCTCCTTGGTACTCATTAAGATG 57.514 41.667 0.00 0.00 37.07 2.90
510 514 5.366768 TCCTCCTTGGTACTCATTAAGATGG 59.633 44.000 0.00 0.00 37.07 3.51
511 515 5.366768 CCTCCTTGGTACTCATTAAGATGGA 59.633 44.000 0.00 0.00 33.93 3.41
512 516 6.126768 CCTCCTTGGTACTCATTAAGATGGAA 60.127 42.308 0.00 0.00 33.93 3.53
513 517 6.650120 TCCTTGGTACTCATTAAGATGGAAC 58.350 40.000 0.00 0.00 33.93 3.62
532 536 7.340122 TGGAACAAAGTACAAACAATCATGA 57.660 32.000 0.00 0.00 31.92 3.07
533 537 7.776107 TGGAACAAAGTACAAACAATCATGAA 58.224 30.769 0.00 0.00 31.92 2.57
534 538 7.920151 TGGAACAAAGTACAAACAATCATGAAG 59.080 33.333 0.00 0.00 31.92 3.02
535 539 8.134895 GGAACAAAGTACAAACAATCATGAAGA 58.865 33.333 0.00 0.00 0.00 2.87
536 540 8.856490 AACAAAGTACAAACAATCATGAAGAC 57.144 30.769 0.00 0.00 0.00 3.01
537 541 7.995289 ACAAAGTACAAACAATCATGAAGACA 58.005 30.769 0.00 0.00 0.00 3.41
538 542 8.131100 ACAAAGTACAAACAATCATGAAGACAG 58.869 33.333 0.00 0.00 0.00 3.51
539 543 8.344831 CAAAGTACAAACAATCATGAAGACAGA 58.655 33.333 0.00 0.00 0.00 3.41
540 544 7.664082 AGTACAAACAATCATGAAGACAGAG 57.336 36.000 0.00 0.00 0.00 3.35
541 545 7.445121 AGTACAAACAATCATGAAGACAGAGA 58.555 34.615 0.00 0.00 0.00 3.10
542 546 7.933577 AGTACAAACAATCATGAAGACAGAGAA 59.066 33.333 0.00 0.00 0.00 2.87
543 547 6.963796 ACAAACAATCATGAAGACAGAGAAC 58.036 36.000 0.00 0.00 0.00 3.01
544 548 6.769822 ACAAACAATCATGAAGACAGAGAACT 59.230 34.615 0.00 0.00 0.00 3.01
546 550 6.106648 ACAATCATGAAGACAGAGAACTGA 57.893 37.500 0.00 0.00 46.03 3.41
547 551 6.528321 ACAATCATGAAGACAGAGAACTGAA 58.472 36.000 0.00 0.00 46.03 3.02
548 552 6.994496 ACAATCATGAAGACAGAGAACTGAAA 59.006 34.615 0.00 0.00 46.03 2.69
549 553 7.172875 ACAATCATGAAGACAGAGAACTGAAAG 59.827 37.037 0.00 0.00 46.03 2.62
550 554 4.993584 TCATGAAGACAGAGAACTGAAAGC 59.006 41.667 0.00 0.00 46.03 3.51
551 555 3.733337 TGAAGACAGAGAACTGAAAGCC 58.267 45.455 0.00 0.00 46.03 4.35
552 556 2.447244 AGACAGAGAACTGAAAGCCG 57.553 50.000 0.00 0.00 46.03 5.52
553 557 1.001406 AGACAGAGAACTGAAAGCCGG 59.999 52.381 0.00 0.00 46.03 6.13
554 558 0.603975 ACAGAGAACTGAAAGCCGGC 60.604 55.000 21.89 21.89 46.03 6.13
555 559 1.003233 AGAGAACTGAAAGCCGGCC 60.003 57.895 26.15 8.84 37.60 6.13
556 560 1.003233 GAGAACTGAAAGCCGGCCT 60.003 57.895 26.15 7.54 37.60 5.19
557 561 0.606673 GAGAACTGAAAGCCGGCCTT 60.607 55.000 26.15 18.61 37.60 4.35
558 562 0.178990 AGAACTGAAAGCCGGCCTTT 60.179 50.000 26.15 22.06 46.19 3.11
559 563 0.673985 GAACTGAAAGCCGGCCTTTT 59.326 50.000 26.15 18.82 43.64 2.27
560 564 0.389025 AACTGAAAGCCGGCCTTTTG 59.611 50.000 26.15 19.13 43.64 2.44
561 565 0.467290 ACTGAAAGCCGGCCTTTTGA 60.467 50.000 26.15 11.68 43.64 2.69
562 566 0.890683 CTGAAAGCCGGCCTTTTGAT 59.109 50.000 26.15 0.00 43.64 2.57
563 567 1.273327 CTGAAAGCCGGCCTTTTGATT 59.727 47.619 26.15 5.79 43.64 2.57
564 568 1.000731 TGAAAGCCGGCCTTTTGATTG 59.999 47.619 26.15 0.00 43.64 2.67
565 569 0.320683 AAAGCCGGCCTTTTGATTGC 60.321 50.000 26.15 0.00 40.85 3.56
566 570 1.187567 AAGCCGGCCTTTTGATTGCT 61.188 50.000 26.15 0.00 0.00 3.91
567 571 1.187567 AGCCGGCCTTTTGATTGCTT 61.188 50.000 26.15 0.00 0.00 3.91
568 572 0.737367 GCCGGCCTTTTGATTGCTTC 60.737 55.000 18.11 0.00 0.00 3.86
569 573 0.108662 CCGGCCTTTTGATTGCTTCC 60.109 55.000 0.00 0.00 0.00 3.46
570 574 0.108662 CGGCCTTTTGATTGCTTCCC 60.109 55.000 0.00 0.00 0.00 3.97
571 575 1.269958 GGCCTTTTGATTGCTTCCCT 58.730 50.000 0.00 0.00 0.00 4.20
572 576 1.205655 GGCCTTTTGATTGCTTCCCTC 59.794 52.381 0.00 0.00 0.00 4.30
573 577 1.895131 GCCTTTTGATTGCTTCCCTCA 59.105 47.619 0.00 0.00 0.00 3.86
883 888 1.745264 CGCTCATTCTCCTCCTCCC 59.255 63.158 0.00 0.00 0.00 4.30
1339 1344 6.377996 TGTGCAGCAGGTATTAAATCTTGAAT 59.622 34.615 0.00 0.00 0.00 2.57
1623 1654 8.209917 AGTAGGTGTTAACTGAAAAAGAACAG 57.790 34.615 7.22 0.00 39.65 3.16
2895 3078 7.519057 TGAACTACTAGTAGATAGTGCCTGAT 58.481 38.462 31.93 6.21 44.69 2.90
2950 3133 4.931661 AAGTTCAGGACTGACGAAACTA 57.068 40.909 0.67 0.00 39.66 2.24
3005 3188 2.650116 ATCTTCAGGCGGTGCGAGT 61.650 57.895 0.00 0.00 0.00 4.18
3042 3225 1.298014 CCGCCCTCTTCTTCTTGCT 59.702 57.895 0.00 0.00 0.00 3.91
3066 3249 1.452651 CCGGCTCCAGCACATCATT 60.453 57.895 0.03 0.00 44.36 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
119 123 3.019564 GAGGACACATGGAGGATTTTGG 58.980 50.000 0.00 0.00 0.00 3.28
127 131 6.039047 CCATTAATTGAAGAGGACACATGGAG 59.961 42.308 0.00 0.00 0.00 3.86
136 140 9.527157 TTGTTATTGTCCATTAATTGAAGAGGA 57.473 29.630 0.00 0.00 0.00 3.71
156 160 4.260985 TCGTGAAGCATGTCCATTGTTAT 58.739 39.130 0.00 0.00 0.00 1.89
165 169 1.996191 GACCTTCTCGTGAAGCATGTC 59.004 52.381 19.36 16.77 46.13 3.06
166 170 1.670087 CGACCTTCTCGTGAAGCATGT 60.670 52.381 19.36 12.93 46.13 3.21
167 171 0.994995 CGACCTTCTCGTGAAGCATG 59.005 55.000 19.36 10.18 46.13 4.06
168 172 0.108615 CCGACCTTCTCGTGAAGCAT 60.109 55.000 19.36 10.88 46.13 3.79
169 173 1.289066 CCGACCTTCTCGTGAAGCA 59.711 57.895 19.36 0.00 46.13 3.91
170 174 0.733223 GACCGACCTTCTCGTGAAGC 60.733 60.000 19.36 7.95 46.13 3.86
171 175 0.882474 AGACCGACCTTCTCGTGAAG 59.118 55.000 18.13 18.13 46.82 3.02
172 176 1.325355 AAGACCGACCTTCTCGTGAA 58.675 50.000 0.00 0.00 41.18 3.18
173 177 2.189594 TAAGACCGACCTTCTCGTGA 57.810 50.000 0.00 0.00 41.18 4.35
174 178 2.864968 CTTAAGACCGACCTTCTCGTG 58.135 52.381 0.00 0.00 41.18 4.35
175 179 1.201880 GCTTAAGACCGACCTTCTCGT 59.798 52.381 6.67 0.00 41.18 4.18
176 180 1.201647 TGCTTAAGACCGACCTTCTCG 59.798 52.381 6.67 0.00 42.54 4.04
177 181 3.528597 ATGCTTAAGACCGACCTTCTC 57.471 47.619 6.67 0.00 0.00 2.87
178 182 4.710375 TCTTATGCTTAAGACCGACCTTCT 59.290 41.667 15.97 0.00 39.09 2.85
179 183 5.007385 TCTTATGCTTAAGACCGACCTTC 57.993 43.478 15.97 0.00 39.09 3.46
180 184 5.187186 TCTTCTTATGCTTAAGACCGACCTT 59.813 40.000 18.79 0.00 42.71 3.50
181 185 4.710375 TCTTCTTATGCTTAAGACCGACCT 59.290 41.667 18.79 0.00 42.71 3.85
182 186 5.007385 TCTTCTTATGCTTAAGACCGACC 57.993 43.478 18.79 0.00 42.71 4.79
185 189 9.862371 ACATATATCTTCTTATGCTTAAGACCG 57.138 33.333 18.79 13.71 42.71 4.79
193 197 9.814899 GATAGCACACATATATCTTCTTATGCT 57.185 33.333 0.00 0.00 42.10 3.79
194 198 9.814899 AGATAGCACACATATATCTTCTTATGC 57.185 33.333 0.00 0.00 33.48 3.14
208 212 9.783081 TCATTACAAATGATAGATAGCACACAT 57.217 29.630 0.00 0.00 0.00 3.21
209 213 9.612066 TTCATTACAAATGATAGATAGCACACA 57.388 29.630 3.34 0.00 0.00 3.72
211 215 9.836864 ACTTCATTACAAATGATAGATAGCACA 57.163 29.630 3.34 0.00 0.00 4.57
213 217 8.777413 GCACTTCATTACAAATGATAGATAGCA 58.223 33.333 3.34 0.00 0.00 3.49
214 218 8.777413 TGCACTTCATTACAAATGATAGATAGC 58.223 33.333 3.34 10.11 0.00 2.97
216 220 9.612066 TGTGCACTTCATTACAAATGATAGATA 57.388 29.630 19.41 0.00 0.00 1.98
217 221 8.510243 TGTGCACTTCATTACAAATGATAGAT 57.490 30.769 19.41 0.00 0.00 1.98
218 222 7.920160 TGTGCACTTCATTACAAATGATAGA 57.080 32.000 19.41 0.00 0.00 1.98
221 225 9.926158 TTTATTGTGCACTTCATTACAAATGAT 57.074 25.926 19.41 0.00 36.71 2.45
222 226 9.190858 GTTTATTGTGCACTTCATTACAAATGA 57.809 29.630 19.41 0.00 36.71 2.57
223 227 8.976471 TGTTTATTGTGCACTTCATTACAAATG 58.024 29.630 19.41 0.00 36.71 2.32
224 228 9.709495 ATGTTTATTGTGCACTTCATTACAAAT 57.291 25.926 19.41 8.33 36.71 2.32
225 229 9.539825 AATGTTTATTGTGCACTTCATTACAAA 57.460 25.926 19.41 0.20 36.71 2.83
227 231 9.619316 GTAATGTTTATTGTGCACTTCATTACA 57.381 29.630 27.79 21.45 42.23 2.41
228 232 9.840427 AGTAATGTTTATTGTGCACTTCATTAC 57.160 29.630 26.86 26.86 42.60 1.89
230 234 8.796475 AGAGTAATGTTTATTGTGCACTTCATT 58.204 29.630 19.41 18.21 0.00 2.57
231 235 8.340618 AGAGTAATGTTTATTGTGCACTTCAT 57.659 30.769 19.41 9.92 0.00 2.57
232 236 7.744087 AGAGTAATGTTTATTGTGCACTTCA 57.256 32.000 19.41 8.28 0.00 3.02
274 278 9.435688 ACGCATACTATTATATCTGATGCAAAA 57.564 29.630 0.00 0.00 38.45 2.44
275 279 9.087424 GACGCATACTATTATATCTGATGCAAA 57.913 33.333 0.00 0.00 38.45 3.68
276 280 8.250332 TGACGCATACTATTATATCTGATGCAA 58.750 33.333 0.00 0.00 38.45 4.08
277 281 7.771183 TGACGCATACTATTATATCTGATGCA 58.229 34.615 0.00 0.00 38.45 3.96
278 282 8.809159 ATGACGCATACTATTATATCTGATGC 57.191 34.615 0.00 0.00 35.88 3.91
290 294 9.669353 GAAATCAAATTCAATGACGCATACTAT 57.331 29.630 0.00 0.00 0.00 2.12
291 295 8.892723 AGAAATCAAATTCAATGACGCATACTA 58.107 29.630 0.00 0.00 0.00 1.82
292 296 7.765307 AGAAATCAAATTCAATGACGCATACT 58.235 30.769 0.00 0.00 0.00 2.12
293 297 7.975866 AGAAATCAAATTCAATGACGCATAC 57.024 32.000 0.00 0.00 0.00 2.39
295 299 9.241317 GATAAGAAATCAAATTCAATGACGCAT 57.759 29.630 0.00 0.00 0.00 4.73
296 300 7.429051 CGATAAGAAATCAAATTCAATGACGCA 59.571 33.333 0.00 0.00 0.00 5.24
297 301 7.639850 TCGATAAGAAATCAAATTCAATGACGC 59.360 33.333 0.00 0.00 0.00 5.19
298 302 9.489393 TTCGATAAGAAATCAAATTCAATGACG 57.511 29.630 0.00 0.00 35.61 4.35
310 314 9.773328 CTTGCAAAGTATTTCGATAAGAAATCA 57.227 29.630 9.07 0.00 45.97 2.57
329 333 3.295093 TGAAATCCACTCCACTTGCAAA 58.705 40.909 0.00 0.00 0.00 3.68
330 334 2.942804 TGAAATCCACTCCACTTGCAA 58.057 42.857 0.00 0.00 0.00 4.08
331 335 2.655090 TGAAATCCACTCCACTTGCA 57.345 45.000 0.00 0.00 0.00 4.08
332 336 5.841957 ATATTGAAATCCACTCCACTTGC 57.158 39.130 0.00 0.00 0.00 4.01
355 359 6.969993 AGATAGCCAGTAACAAACCAAAAA 57.030 33.333 0.00 0.00 0.00 1.94
356 360 6.969993 AAGATAGCCAGTAACAAACCAAAA 57.030 33.333 0.00 0.00 0.00 2.44
357 361 6.969993 AAAGATAGCCAGTAACAAACCAAA 57.030 33.333 0.00 0.00 0.00 3.28
358 362 8.644374 AATAAAGATAGCCAGTAACAAACCAA 57.356 30.769 0.00 0.00 0.00 3.67
359 363 9.914834 ATAATAAAGATAGCCAGTAACAAACCA 57.085 29.630 0.00 0.00 0.00 3.67
420 424 9.418045 GGCTTCTTAAAAATTGTATTAGTTGCA 57.582 29.630 0.00 0.00 0.00 4.08
421 425 8.869897 GGGCTTCTTAAAAATTGTATTAGTTGC 58.130 33.333 0.00 0.00 0.00 4.17
422 426 9.072294 CGGGCTTCTTAAAAATTGTATTAGTTG 57.928 33.333 0.00 0.00 0.00 3.16
423 427 8.799367 ACGGGCTTCTTAAAAATTGTATTAGTT 58.201 29.630 0.00 0.00 0.00 2.24
424 428 8.241367 CACGGGCTTCTTAAAAATTGTATTAGT 58.759 33.333 0.00 0.00 0.00 2.24
425 429 7.700656 CCACGGGCTTCTTAAAAATTGTATTAG 59.299 37.037 0.00 0.00 0.00 1.73
426 430 7.540299 CCACGGGCTTCTTAAAAATTGTATTA 58.460 34.615 0.00 0.00 0.00 0.98
427 431 6.394809 CCACGGGCTTCTTAAAAATTGTATT 58.605 36.000 0.00 0.00 0.00 1.89
428 432 5.623596 GCCACGGGCTTCTTAAAAATTGTAT 60.624 40.000 7.58 0.00 46.69 2.29
429 433 4.321378 GCCACGGGCTTCTTAAAAATTGTA 60.321 41.667 7.58 0.00 46.69 2.41
430 434 3.554129 GCCACGGGCTTCTTAAAAATTGT 60.554 43.478 7.58 0.00 46.69 2.71
431 435 2.993220 GCCACGGGCTTCTTAAAAATTG 59.007 45.455 7.58 0.00 46.69 2.32
432 436 3.313012 GCCACGGGCTTCTTAAAAATT 57.687 42.857 7.58 0.00 46.69 1.82
448 452 0.167251 CAATACCCGTTCGTTGCCAC 59.833 55.000 0.00 0.00 0.00 5.01
449 453 0.250381 ACAATACCCGTTCGTTGCCA 60.250 50.000 0.00 0.00 0.00 4.92
450 454 1.394572 GTACAATACCCGTTCGTTGCC 59.605 52.381 0.00 0.00 0.00 4.52
451 455 2.340337 AGTACAATACCCGTTCGTTGC 58.660 47.619 0.00 0.00 0.00 4.17
452 456 4.737054 ACTAGTACAATACCCGTTCGTTG 58.263 43.478 0.00 0.00 0.00 4.10
453 457 5.391312 AACTAGTACAATACCCGTTCGTT 57.609 39.130 0.00 0.00 0.00 3.85
454 458 6.699575 ATAACTAGTACAATACCCGTTCGT 57.300 37.500 0.00 0.00 0.00 3.85
480 484 9.681062 CTTAATGAGTACCAAGGAGGAAAATTA 57.319 33.333 0.00 0.00 41.22 1.40
481 485 8.390921 TCTTAATGAGTACCAAGGAGGAAAATT 58.609 33.333 0.00 0.00 41.22 1.82
482 486 7.928873 TCTTAATGAGTACCAAGGAGGAAAAT 58.071 34.615 0.00 0.00 41.22 1.82
483 487 7.324388 TCTTAATGAGTACCAAGGAGGAAAA 57.676 36.000 0.00 0.00 41.22 2.29
484 488 6.945636 TCTTAATGAGTACCAAGGAGGAAA 57.054 37.500 0.00 0.00 41.22 3.13
485 489 6.126768 CCATCTTAATGAGTACCAAGGAGGAA 60.127 42.308 0.00 0.00 36.47 3.36
486 490 5.366768 CCATCTTAATGAGTACCAAGGAGGA 59.633 44.000 0.00 0.00 36.47 3.71
487 491 5.366768 TCCATCTTAATGAGTACCAAGGAGG 59.633 44.000 0.00 0.00 38.11 4.30
488 492 6.485830 TCCATCTTAATGAGTACCAAGGAG 57.514 41.667 0.00 0.00 34.61 3.69
489 493 6.214615 TGTTCCATCTTAATGAGTACCAAGGA 59.785 38.462 0.00 0.00 34.61 3.36
490 494 6.414732 TGTTCCATCTTAATGAGTACCAAGG 58.585 40.000 0.00 0.00 34.61 3.61
491 495 7.921786 TTGTTCCATCTTAATGAGTACCAAG 57.078 36.000 0.00 0.00 34.61 3.61
492 496 7.942341 ACTTTGTTCCATCTTAATGAGTACCAA 59.058 33.333 0.00 0.00 34.61 3.67
493 497 7.458397 ACTTTGTTCCATCTTAATGAGTACCA 58.542 34.615 0.00 0.00 34.61 3.25
494 498 7.923414 ACTTTGTTCCATCTTAATGAGTACC 57.077 36.000 0.00 0.00 34.61 3.34
495 499 9.431887 TGTACTTTGTTCCATCTTAATGAGTAC 57.568 33.333 0.00 0.00 36.83 2.73
497 501 8.918202 TTGTACTTTGTTCCATCTTAATGAGT 57.082 30.769 0.00 0.00 34.61 3.41
498 502 9.612620 GTTTGTACTTTGTTCCATCTTAATGAG 57.387 33.333 0.00 0.00 34.61 2.90
499 503 9.126151 TGTTTGTACTTTGTTCCATCTTAATGA 57.874 29.630 0.00 0.00 34.61 2.57
500 504 9.743057 TTGTTTGTACTTTGTTCCATCTTAATG 57.257 29.630 0.00 0.00 0.00 1.90
502 506 9.959749 GATTGTTTGTACTTTGTTCCATCTTAA 57.040 29.630 0.00 0.00 0.00 1.85
503 507 9.126151 TGATTGTTTGTACTTTGTTCCATCTTA 57.874 29.630 0.00 0.00 0.00 2.10
504 508 8.006298 TGATTGTTTGTACTTTGTTCCATCTT 57.994 30.769 0.00 0.00 0.00 2.40
505 509 7.581213 TGATTGTTTGTACTTTGTTCCATCT 57.419 32.000 0.00 0.00 0.00 2.90
506 510 8.081633 TCATGATTGTTTGTACTTTGTTCCATC 58.918 33.333 0.00 0.00 0.00 3.51
507 511 7.950512 TCATGATTGTTTGTACTTTGTTCCAT 58.049 30.769 0.00 0.00 0.00 3.41
508 512 7.340122 TCATGATTGTTTGTACTTTGTTCCA 57.660 32.000 0.00 0.00 0.00 3.53
509 513 8.134895 TCTTCATGATTGTTTGTACTTTGTTCC 58.865 33.333 0.00 0.00 0.00 3.62
510 514 8.958043 GTCTTCATGATTGTTTGTACTTTGTTC 58.042 33.333 0.00 0.00 0.00 3.18
511 515 8.465999 TGTCTTCATGATTGTTTGTACTTTGTT 58.534 29.630 0.00 0.00 0.00 2.83
512 516 7.995289 TGTCTTCATGATTGTTTGTACTTTGT 58.005 30.769 0.00 0.00 0.00 2.83
513 517 8.344831 TCTGTCTTCATGATTGTTTGTACTTTG 58.655 33.333 0.00 0.00 0.00 2.77
514 518 8.450578 TCTGTCTTCATGATTGTTTGTACTTT 57.549 30.769 0.00 0.00 0.00 2.66
515 519 7.933577 TCTCTGTCTTCATGATTGTTTGTACTT 59.066 33.333 0.00 0.00 0.00 2.24
516 520 7.445121 TCTCTGTCTTCATGATTGTTTGTACT 58.555 34.615 0.00 0.00 0.00 2.73
517 521 7.658179 TCTCTGTCTTCATGATTGTTTGTAC 57.342 36.000 0.00 0.00 0.00 2.90
518 522 7.933577 AGTTCTCTGTCTTCATGATTGTTTGTA 59.066 33.333 0.00 0.00 0.00 2.41
519 523 6.769822 AGTTCTCTGTCTTCATGATTGTTTGT 59.230 34.615 0.00 0.00 0.00 2.83
520 524 7.041576 TCAGTTCTCTGTCTTCATGATTGTTTG 60.042 37.037 0.00 0.00 41.91 2.93
521 525 6.994496 TCAGTTCTCTGTCTTCATGATTGTTT 59.006 34.615 0.00 0.00 41.91 2.83
522 526 6.528321 TCAGTTCTCTGTCTTCATGATTGTT 58.472 36.000 0.00 0.00 41.91 2.83
523 527 6.106648 TCAGTTCTCTGTCTTCATGATTGT 57.893 37.500 0.00 0.00 41.91 2.71
524 528 7.430992 TTTCAGTTCTCTGTCTTCATGATTG 57.569 36.000 0.00 0.00 41.91 2.67
525 529 6.149142 GCTTTCAGTTCTCTGTCTTCATGATT 59.851 38.462 0.00 0.00 41.91 2.57
526 530 5.642919 GCTTTCAGTTCTCTGTCTTCATGAT 59.357 40.000 0.00 0.00 41.91 2.45
527 531 4.993584 GCTTTCAGTTCTCTGTCTTCATGA 59.006 41.667 0.00 0.00 41.91 3.07
528 532 4.153835 GGCTTTCAGTTCTCTGTCTTCATG 59.846 45.833 0.00 0.00 41.91 3.07
529 533 4.322567 GGCTTTCAGTTCTCTGTCTTCAT 58.677 43.478 0.00 0.00 41.91 2.57
530 534 3.733337 GGCTTTCAGTTCTCTGTCTTCA 58.267 45.455 0.00 0.00 41.91 3.02
531 535 2.734079 CGGCTTTCAGTTCTCTGTCTTC 59.266 50.000 0.00 0.00 41.91 2.87
532 536 2.548920 CCGGCTTTCAGTTCTCTGTCTT 60.549 50.000 0.00 0.00 41.91 3.01
533 537 1.001406 CCGGCTTTCAGTTCTCTGTCT 59.999 52.381 0.00 0.00 41.91 3.41
534 538 1.433534 CCGGCTTTCAGTTCTCTGTC 58.566 55.000 0.00 0.00 41.91 3.51
535 539 0.603975 GCCGGCTTTCAGTTCTCTGT 60.604 55.000 22.15 0.00 41.91 3.41
536 540 1.301677 GGCCGGCTTTCAGTTCTCTG 61.302 60.000 28.56 0.00 42.54 3.35
537 541 1.003233 GGCCGGCTTTCAGTTCTCT 60.003 57.895 28.56 0.00 0.00 3.10
538 542 0.606673 AAGGCCGGCTTTCAGTTCTC 60.607 55.000 28.56 4.97 0.00 2.87
539 543 0.178990 AAAGGCCGGCTTTCAGTTCT 60.179 50.000 25.34 8.11 0.00 3.01
540 544 0.673985 AAAAGGCCGGCTTTCAGTTC 59.326 50.000 25.34 5.51 0.00 3.01
541 545 0.389025 CAAAAGGCCGGCTTTCAGTT 59.611 50.000 25.34 12.60 0.00 3.16
542 546 0.467290 TCAAAAGGCCGGCTTTCAGT 60.467 50.000 25.34 10.19 0.00 3.41
543 547 0.890683 ATCAAAAGGCCGGCTTTCAG 59.109 50.000 25.34 19.00 0.00 3.02
544 548 1.000731 CAATCAAAAGGCCGGCTTTCA 59.999 47.619 25.34 11.92 0.00 2.69
545 549 1.713597 CAATCAAAAGGCCGGCTTTC 58.286 50.000 25.34 8.90 0.00 2.62
546 550 0.320683 GCAATCAAAAGGCCGGCTTT 60.321 50.000 28.56 24.07 0.00 3.51
547 551 1.187567 AGCAATCAAAAGGCCGGCTT 61.188 50.000 28.56 18.19 0.00 4.35
548 552 1.187567 AAGCAATCAAAAGGCCGGCT 61.188 50.000 28.56 9.77 0.00 5.52
549 553 0.737367 GAAGCAATCAAAAGGCCGGC 60.737 55.000 21.18 21.18 0.00 6.13
550 554 0.108662 GGAAGCAATCAAAAGGCCGG 60.109 55.000 0.00 0.00 0.00 6.13
551 555 0.108662 GGGAAGCAATCAAAAGGCCG 60.109 55.000 0.00 0.00 0.00 6.13
552 556 1.205655 GAGGGAAGCAATCAAAAGGCC 59.794 52.381 0.00 0.00 0.00 5.19
553 557 1.895131 TGAGGGAAGCAATCAAAAGGC 59.105 47.619 0.00 0.00 0.00 4.35
554 558 4.562143 CCTTTGAGGGAAGCAATCAAAAGG 60.562 45.833 0.00 0.00 41.11 3.11
555 559 4.563061 CCTTTGAGGGAAGCAATCAAAAG 58.437 43.478 0.00 0.00 41.11 2.27
556 560 4.605640 CCTTTGAGGGAAGCAATCAAAA 57.394 40.909 0.00 0.00 41.11 2.44
569 573 7.533289 TTTTGGTTAAATACTCCCTTTGAGG 57.467 36.000 0.00 0.00 46.01 3.86
571 575 8.541899 AGTTTTTGGTTAAATACTCCCTTTGA 57.458 30.769 0.00 0.00 34.37 2.69
572 576 9.687210 GTAGTTTTTGGTTAAATACTCCCTTTG 57.313 33.333 0.00 0.00 38.47 2.77
573 577 8.863086 GGTAGTTTTTGGTTAAATACTCCCTTT 58.137 33.333 0.00 0.00 38.47 3.11
750 755 2.625823 CCAACGTGGCGCCTGATTT 61.626 57.895 29.70 12.54 0.00 2.17
883 888 3.726631 GACGAGTGAGAGCGAGCGG 62.727 68.421 0.00 0.00 0.00 5.52
1339 1344 2.223782 CCAGCAGCAAAACAAGTTAGCA 60.224 45.455 11.25 0.00 0.00 3.49
1623 1654 8.205131 TGTTCTTTTTCAGTTAACACCTACTC 57.795 34.615 8.61 0.00 0.00 2.59
1720 1786 8.136057 AGCATCAGAGATAAATTCAGTTAACG 57.864 34.615 0.00 0.00 0.00 3.18
1870 1936 2.154462 CACAGTTCACACCTTCATCCC 58.846 52.381 0.00 0.00 0.00 3.85
2711 2889 6.791867 TGCTACTTCCAACTATGTCAGTAT 57.208 37.500 0.00 0.00 36.04 2.12
2895 3078 6.522054 CAGTAAGTTCCTAGGTTCAGTTTCA 58.478 40.000 9.08 0.00 0.00 2.69
2950 3133 5.355350 GGAGTGAACTGCTGCACTAATATTT 59.645 40.000 0.00 0.00 44.77 1.40
3066 3249 0.976641 AGAACAAGATGGCGGTGAGA 59.023 50.000 0.00 0.00 0.00 3.27


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

AutoCloner maintained by Alex Coulton.