Multiple sequence alignment - TraesCS7B01G497200

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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 TraesCS7B01G497200 chr7B 100.000 2492 0 0 1 2492 747832927 747830436 0.000000e+00 4602.0
1 TraesCS7B01G497200 chr7B 96.231 1698 28 6 701 2370 744609926 744608237 0.000000e+00 2748.0
2 TraesCS7B01G497200 chr7B 91.739 460 35 2 815 1271 749137927 749137468 9.720000e-179 636.0
3 TraesCS7B01G497200 chr7B 92.212 321 19 5 389 708 500229609 500229294 1.360000e-122 449.0
4 TraesCS7B01G497200 chr7B 89.399 283 7 9 1 260 744610306 744610024 3.970000e-88 335.0
5 TraesCS7B01G497200 chr7B 92.045 176 13 1 159 333 399214310 399214135 1.910000e-61 246.0
6 TraesCS7B01G497200 chr7B 96.241 133 4 1 2360 2492 744606139 744606008 1.500000e-52 217.0
7 TraesCS7B01G497200 chr7B 93.578 109 6 1 325 433 744610025 744609918 7.130000e-36 161.0
8 TraesCS7B01G497200 chr7B 92.105 38 3 0 102 139 612606058 612606095 1.000000e-03 54.7
9 TraesCS7B01G497200 chr7D 88.496 1582 96 42 935 2491 632461059 632459539 0.000000e+00 1834.0
10 TraesCS7B01G497200 chr7D 85.347 662 62 10 1240 1885 632842363 632843005 0.000000e+00 652.0
11 TraesCS7B01G497200 chr7D 93.478 276 16 2 924 1197 632842093 632842368 2.310000e-110 409.0
12 TraesCS7B01G497200 chr7D 90.110 273 19 3 702 966 632461332 632461060 5.100000e-92 348.0
13 TraesCS7B01G497200 chr7D 81.703 317 30 15 1904 2217 632848180 632848471 3.200000e-59 239.0
14 TraesCS7B01G497200 chr7A 90.686 408 38 0 1175 1582 734570591 734570998 6.060000e-151 544.0
15 TraesCS7B01G497200 chr2B 97.810 274 6 0 427 700 237318280 237318553 8.070000e-130 473.0
16 TraesCS7B01G497200 chr2B 94.828 290 14 1 421 710 672027591 672027879 3.780000e-123 451.0
17 TraesCS7B01G497200 chr2B 95.736 258 9 2 159 415 650480923 650481179 4.960000e-112 414.0
18 TraesCS7B01G497200 chr2B 94.961 258 11 2 159 415 500650983 500651239 1.070000e-108 403.0
19 TraesCS7B01G497200 chr2B 100.000 30 0 0 131 160 500650933 500650962 3.460000e-04 56.5
20 TraesCS7B01G497200 chr2B 100.000 30 0 0 131 160 650480873 650480902 3.460000e-04 56.5
21 TraesCS7B01G497200 chr6D 96.454 282 9 1 427 707 226017442 226017723 4.850000e-127 464.0
22 TraesCS7B01G497200 chr5A 96.429 280 10 0 425 704 29181213 29180934 1.750000e-126 462.0
23 TraesCS7B01G497200 chr3B 96.416 279 9 1 427 705 811698084 811697807 2.260000e-125 459.0
24 TraesCS7B01G497200 chr3B 94.574 258 12 2 159 415 229471799 229471543 4.990000e-107 398.0
25 TraesCS7B01G497200 chr3B 100.000 31 0 0 130 160 229471850 229471820 9.630000e-05 58.4
26 TraesCS7B01G497200 chr6A 95.775 284 11 1 418 701 133802831 133803113 8.120000e-125 457.0
27 TraesCS7B01G497200 chr6A 95.753 259 8 3 159 415 40219441 40219698 4.960000e-112 414.0
28 TraesCS7B01G497200 chr6A 100.000 31 0 0 101 131 374054084 374054054 9.630000e-05 58.4
29 TraesCS7B01G497200 chr6A 100.000 30 0 0 131 160 40219391 40219420 3.460000e-04 56.5
30 TraesCS7B01G497200 chr6B 95.760 283 11 1 423 705 680301077 680300796 2.920000e-124 455.0
31 TraesCS7B01G497200 chr1B 92.357 314 21 2 388 701 416826634 416826944 6.320000e-121 444.0
32 TraesCS7B01G497200 chr1B 100.000 31 0 0 102 132 127395363 127395333 9.630000e-05 58.4
33 TraesCS7B01G497200 chr4D 95.455 176 7 1 159 333 15063762 15063937 1.890000e-71 279.0
34 TraesCS7B01G497200 chr4D 87.640 178 18 3 158 333 54665404 54665229 1.170000e-48 204.0
35 TraesCS7B01G497200 chr2D 100.000 32 0 0 101 132 384091555 384091586 2.680000e-05 60.2
36 TraesCS7B01G497200 chr5B 100.000 31 0 0 101 131 72179329 72179299 9.630000e-05 58.4
37 TraesCS7B01G497200 chr4A 90.698 43 4 0 89 131 525724930 525724972 9.630000e-05 58.4
38 TraesCS7B01G497200 chr3D 100.000 31 0 0 101 131 191562829 191562859 9.630000e-05 58.4
39 TraesCS7B01G497200 chr3A 100.000 31 0 0 101 131 122180019 122180049 9.630000e-05 58.4


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 TraesCS7B01G497200 chr7B 747830436 747832927 2491 True 4602.00 4602 100.00000 1 2492 1 chr7B.!!$R3 2491
1 TraesCS7B01G497200 chr7B 744606008 744610306 4298 True 865.25 2748 93.86225 1 2492 4 chr7B.!!$R5 2491
2 TraesCS7B01G497200 chr7D 632459539 632461332 1793 True 1091.00 1834 89.30300 702 2491 2 chr7D.!!$R1 1789
3 TraesCS7B01G497200 chr7D 632842093 632843005 912 False 530.50 652 89.41250 924 1885 2 chr7D.!!$F2 961

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
298 322 0.232816 GTTGGTTGCATGCAAAAGCG 59.767 50.0 33.42 0.0 37.7 4.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1584 1653 3.281158 CATTGTGCACACTATGGGATCA 58.719 45.455 21.56 0.1 39.65 2.92 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
48 49 2.496899 ATACAGGCTCCAACAACAGG 57.503 50.000 0.00 0.00 0.00 4.00
70 71 5.672194 AGGTAAGGTGGTGGATATCAAATCT 59.328 40.000 4.83 0.00 0.00 2.40
116 117 0.970937 TTGGCTACTCCCTCCGTCTG 60.971 60.000 0.00 0.00 0.00 3.51
124 125 1.838077 CTCCCTCCGTCTGGGTTTATT 59.162 52.381 0.00 0.00 44.84 1.40
170 193 1.152830 GCCCCTCTCGATCTCCTCT 59.847 63.158 0.00 0.00 0.00 3.69
173 196 1.178534 CCCTCTCGATCTCCTCTGCC 61.179 65.000 0.00 0.00 0.00 4.85
260 284 4.344102 CCAGCTGTAGGCAATAACTACCTA 59.656 45.833 13.81 0.00 44.79 3.08
261 285 5.509840 CCAGCTGTAGGCAATAACTACCTAG 60.510 48.000 13.81 0.00 44.79 3.02
262 286 4.039366 AGCTGTAGGCAATAACTACCTAGC 59.961 45.833 0.00 0.00 44.79 3.42
263 287 4.547532 CTGTAGGCAATAACTACCTAGCG 58.452 47.826 0.00 0.00 39.99 4.26
264 288 2.528041 AGGCAATAACTACCTAGCGC 57.472 50.000 0.00 0.00 29.98 5.92
265 289 2.040178 AGGCAATAACTACCTAGCGCT 58.960 47.619 17.26 17.26 29.98 5.92
266 290 2.135933 GGCAATAACTACCTAGCGCTG 58.864 52.381 22.90 6.70 0.00 5.18
267 291 2.483188 GGCAATAACTACCTAGCGCTGT 60.483 50.000 22.90 13.38 0.00 4.40
268 292 3.243636 GGCAATAACTACCTAGCGCTGTA 60.244 47.826 22.90 13.86 0.00 2.74
269 293 3.734735 GCAATAACTACCTAGCGCTGTAC 59.265 47.826 22.90 0.00 0.00 2.90
271 295 1.457346 AACTACCTAGCGCTGTACGT 58.543 50.000 22.90 12.64 46.11 3.57
272 296 0.731417 ACTACCTAGCGCTGTACGTG 59.269 55.000 22.90 8.34 46.11 4.49
273 297 0.731417 CTACCTAGCGCTGTACGTGT 59.269 55.000 22.90 10.08 46.11 4.49
274 298 0.448990 TACCTAGCGCTGTACGTGTG 59.551 55.000 22.90 1.51 46.11 3.82
275 299 1.211969 CCTAGCGCTGTACGTGTGT 59.788 57.895 22.90 0.00 46.11 3.72
276 300 1.071019 CCTAGCGCTGTACGTGTGTG 61.071 60.000 22.90 0.00 46.11 3.82
277 301 0.386858 CTAGCGCTGTACGTGTGTGT 60.387 55.000 22.90 0.00 46.11 3.72
278 302 0.873721 TAGCGCTGTACGTGTGTGTA 59.126 50.000 22.90 0.00 46.11 2.90
279 303 0.386858 AGCGCTGTACGTGTGTGTAG 60.387 55.000 10.39 0.00 46.11 2.74
280 304 0.662374 GCGCTGTACGTGTGTGTAGT 60.662 55.000 0.00 0.00 46.11 2.73
281 305 1.762419 CGCTGTACGTGTGTGTAGTT 58.238 50.000 0.00 0.00 36.87 2.24
282 306 1.450533 CGCTGTACGTGTGTGTAGTTG 59.549 52.381 0.00 0.00 36.87 3.16
283 307 1.790623 GCTGTACGTGTGTGTAGTTGG 59.209 52.381 0.00 0.00 0.00 3.77
284 308 2.800629 GCTGTACGTGTGTGTAGTTGGT 60.801 50.000 0.00 0.00 0.00 3.67
285 309 3.450578 CTGTACGTGTGTGTAGTTGGTT 58.549 45.455 0.00 0.00 0.00 3.67
286 310 3.188492 TGTACGTGTGTGTAGTTGGTTG 58.812 45.455 0.00 0.00 0.00 3.77
287 311 1.011333 ACGTGTGTGTAGTTGGTTGC 58.989 50.000 0.00 0.00 0.00 4.17
288 312 1.010580 CGTGTGTGTAGTTGGTTGCA 58.989 50.000 0.00 0.00 0.00 4.08
289 313 1.601903 CGTGTGTGTAGTTGGTTGCAT 59.398 47.619 0.00 0.00 0.00 3.96
290 314 2.601979 CGTGTGTGTAGTTGGTTGCATG 60.602 50.000 0.00 0.00 0.00 4.06
291 315 1.336440 TGTGTGTAGTTGGTTGCATGC 59.664 47.619 11.82 11.82 0.00 4.06
292 316 1.336440 GTGTGTAGTTGGTTGCATGCA 59.664 47.619 18.46 18.46 0.00 3.96
293 317 2.027385 TGTGTAGTTGGTTGCATGCAA 58.973 42.857 28.80 28.80 0.00 4.08
294 318 2.428530 TGTGTAGTTGGTTGCATGCAAA 59.571 40.909 33.42 17.56 37.70 3.68
295 319 3.118992 TGTGTAGTTGGTTGCATGCAAAA 60.119 39.130 33.42 22.34 37.70 2.44
296 320 3.490526 GTGTAGTTGGTTGCATGCAAAAG 59.509 43.478 33.42 0.00 37.70 2.27
297 321 1.585297 AGTTGGTTGCATGCAAAAGC 58.415 45.000 33.42 24.51 37.70 3.51
298 322 0.232816 GTTGGTTGCATGCAAAAGCG 59.767 50.000 33.42 0.00 37.70 4.68
299 323 0.879400 TTGGTTGCATGCAAAAGCGG 60.879 50.000 33.42 0.00 37.70 5.52
300 324 1.006337 GGTTGCATGCAAAAGCGGA 60.006 52.632 33.42 8.42 37.70 5.54
301 325 1.010419 GGTTGCATGCAAAAGCGGAG 61.010 55.000 33.42 0.00 37.70 4.63
302 326 1.373246 TTGCATGCAAAAGCGGAGC 60.373 52.632 30.19 0.00 43.83 4.70
321 345 2.345991 GGCAACCGGCTACTGTGA 59.654 61.111 0.00 0.00 44.01 3.58
322 346 1.078426 GGCAACCGGCTACTGTGAT 60.078 57.895 0.00 0.00 44.01 3.06
323 347 1.369091 GGCAACCGGCTACTGTGATG 61.369 60.000 0.00 0.00 44.01 3.07
324 348 1.982073 GCAACCGGCTACTGTGATGC 61.982 60.000 0.00 0.00 40.25 3.91
325 349 0.391661 CAACCGGCTACTGTGATGCT 60.392 55.000 0.00 0.00 0.00 3.79
346 370 4.798574 CTTTGGAATTCACAAGTGCCTAC 58.201 43.478 7.93 0.00 0.00 3.18
358 382 8.029782 TCACAAGTGCCTACCAATAGTATTAT 57.970 34.615 0.00 0.00 0.00 1.28
401 425 4.015872 GTCGATAGGCCCAATAAATCCA 57.984 45.455 0.00 0.00 31.65 3.41
422 446 2.018515 GACGGAGGGAGTACTTCTCTG 58.981 57.143 23.36 23.36 36.51 3.35
424 448 2.225066 ACGGAGGGAGTACTTCTCTGTT 60.225 50.000 24.26 14.76 42.50 3.16
425 449 2.164624 CGGAGGGAGTACTTCTCTGTTG 59.835 54.545 19.64 9.45 36.51 3.33
426 450 3.432378 GGAGGGAGTACTTCTCTGTTGA 58.568 50.000 19.73 0.00 36.51 3.18
427 451 3.445805 GGAGGGAGTACTTCTCTGTTGAG 59.554 52.174 19.73 0.00 36.51 3.02
428 452 3.436243 AGGGAGTACTTCTCTGTTGAGG 58.564 50.000 0.01 0.00 42.40 3.86
429 453 2.093921 GGGAGTACTTCTCTGTTGAGGC 60.094 54.545 0.01 0.00 42.40 4.70
430 454 2.829120 GGAGTACTTCTCTGTTGAGGCT 59.171 50.000 0.00 0.00 42.40 4.58
431 455 4.017808 GGAGTACTTCTCTGTTGAGGCTA 58.982 47.826 0.00 0.00 42.40 3.93
432 456 4.097286 GGAGTACTTCTCTGTTGAGGCTAG 59.903 50.000 0.00 0.00 42.40 3.42
433 457 4.668636 AGTACTTCTCTGTTGAGGCTAGT 58.331 43.478 0.00 0.00 40.58 2.57
434 458 4.703093 AGTACTTCTCTGTTGAGGCTAGTC 59.297 45.833 0.00 0.00 40.58 2.59
435 459 3.501349 ACTTCTCTGTTGAGGCTAGTCA 58.499 45.455 0.00 0.00 40.58 3.41
436 460 4.093011 ACTTCTCTGTTGAGGCTAGTCAT 58.907 43.478 0.00 0.00 40.58 3.06
437 461 5.265191 ACTTCTCTGTTGAGGCTAGTCATA 58.735 41.667 0.00 0.00 40.58 2.15
438 462 5.359576 ACTTCTCTGTTGAGGCTAGTCATAG 59.640 44.000 0.00 0.00 40.58 2.23
439 463 4.861196 TCTCTGTTGAGGCTAGTCATAGT 58.139 43.478 0.00 0.00 40.58 2.12
440 464 4.642437 TCTCTGTTGAGGCTAGTCATAGTG 59.358 45.833 0.00 0.00 40.58 2.74
441 465 3.701542 TCTGTTGAGGCTAGTCATAGTGG 59.298 47.826 0.00 0.00 0.00 4.00
442 466 3.701542 CTGTTGAGGCTAGTCATAGTGGA 59.298 47.826 0.00 0.00 0.00 4.02
443 467 3.701542 TGTTGAGGCTAGTCATAGTGGAG 59.298 47.826 0.00 0.00 0.00 3.86
444 468 3.953542 TGAGGCTAGTCATAGTGGAGA 57.046 47.619 0.00 0.00 0.00 3.71
445 469 3.826524 TGAGGCTAGTCATAGTGGAGAG 58.173 50.000 0.00 0.00 0.00 3.20
446 470 3.203263 TGAGGCTAGTCATAGTGGAGAGT 59.797 47.826 0.00 0.00 0.00 3.24
447 471 4.412528 TGAGGCTAGTCATAGTGGAGAGTA 59.587 45.833 0.00 0.00 0.00 2.59
448 472 5.104067 TGAGGCTAGTCATAGTGGAGAGTAA 60.104 44.000 0.00 0.00 0.00 2.24
449 473 5.134661 AGGCTAGTCATAGTGGAGAGTAAC 58.865 45.833 0.00 0.00 0.00 2.50
450 474 5.103855 AGGCTAGTCATAGTGGAGAGTAACT 60.104 44.000 0.00 0.00 0.00 2.24
451 475 5.595133 GGCTAGTCATAGTGGAGAGTAACTT 59.405 44.000 0.00 0.00 0.00 2.66
452 476 6.771749 GGCTAGTCATAGTGGAGAGTAACTTA 59.228 42.308 0.00 0.00 0.00 2.24
453 477 7.040961 GGCTAGTCATAGTGGAGAGTAACTTAG 60.041 44.444 0.00 0.00 0.00 2.18
454 478 7.716123 GCTAGTCATAGTGGAGAGTAACTTAGA 59.284 40.741 0.00 0.00 0.00 2.10
455 479 7.868906 AGTCATAGTGGAGAGTAACTTAGAC 57.131 40.000 0.00 0.00 33.07 2.59
456 480 7.635648 AGTCATAGTGGAGAGTAACTTAGACT 58.364 38.462 0.00 0.00 35.89 3.24
457 481 8.770322 AGTCATAGTGGAGAGTAACTTAGACTA 58.230 37.037 0.00 0.00 37.46 2.59
458 482 9.048446 GTCATAGTGGAGAGTAACTTAGACTAG 57.952 40.741 0.00 0.00 31.58 2.57
459 483 8.770322 TCATAGTGGAGAGTAACTTAGACTAGT 58.230 37.037 0.00 0.00 0.00 2.57
462 486 8.791327 AGTGGAGAGTAACTTAGACTAGTAAC 57.209 38.462 0.00 0.00 0.00 2.50
463 487 8.381636 AGTGGAGAGTAACTTAGACTAGTAACA 58.618 37.037 0.00 0.00 0.00 2.41
464 488 9.176460 GTGGAGAGTAACTTAGACTAGTAACAT 57.824 37.037 0.00 0.00 0.00 2.71
496 520 9.519191 TGTTACTAGTGTATGTTACTACCTTCA 57.481 33.333 5.39 0.00 0.00 3.02
500 524 9.917887 ACTAGTGTATGTTACTACCTTCATAGT 57.082 33.333 0.00 0.00 38.89 2.12
502 526 8.008513 AGTGTATGTTACTACCTTCATAGTGG 57.991 38.462 0.00 0.00 36.09 4.00
503 527 7.069578 AGTGTATGTTACTACCTTCATAGTGGG 59.930 40.741 0.00 0.00 36.09 4.61
504 528 6.899075 TGTATGTTACTACCTTCATAGTGGGT 59.101 38.462 0.00 0.00 36.09 4.51
505 529 8.060689 TGTATGTTACTACCTTCATAGTGGGTA 58.939 37.037 0.00 0.00 36.09 3.69
510 534 5.517322 CTACCTTCATAGTGGGTAGTGTC 57.483 47.826 9.46 0.00 44.30 3.67
511 535 3.786553 ACCTTCATAGTGGGTAGTGTCA 58.213 45.455 0.00 0.00 0.00 3.58
512 536 4.362677 ACCTTCATAGTGGGTAGTGTCAT 58.637 43.478 0.00 0.00 0.00 3.06
513 537 5.525484 ACCTTCATAGTGGGTAGTGTCATA 58.475 41.667 0.00 0.00 0.00 2.15
514 538 5.598830 ACCTTCATAGTGGGTAGTGTCATAG 59.401 44.000 0.00 0.00 0.00 2.23
515 539 5.833667 CCTTCATAGTGGGTAGTGTCATAGA 59.166 44.000 0.00 0.00 0.00 1.98
516 540 6.495181 CCTTCATAGTGGGTAGTGTCATAGAT 59.505 42.308 0.00 0.00 0.00 1.98
517 541 6.901081 TCATAGTGGGTAGTGTCATAGATG 57.099 41.667 0.00 0.00 0.00 2.90
518 542 6.373759 TCATAGTGGGTAGTGTCATAGATGT 58.626 40.000 0.00 0.00 0.00 3.06
519 543 6.265422 TCATAGTGGGTAGTGTCATAGATGTG 59.735 42.308 0.00 0.00 0.00 3.21
520 544 3.706594 AGTGGGTAGTGTCATAGATGTGG 59.293 47.826 0.00 0.00 0.00 4.17
521 545 3.451178 GTGGGTAGTGTCATAGATGTGGT 59.549 47.826 0.00 0.00 0.00 4.16
522 546 4.647853 GTGGGTAGTGTCATAGATGTGGTA 59.352 45.833 0.00 0.00 0.00 3.25
523 547 5.128171 GTGGGTAGTGTCATAGATGTGGTAA 59.872 44.000 0.00 0.00 0.00 2.85
524 548 5.128171 TGGGTAGTGTCATAGATGTGGTAAC 59.872 44.000 0.00 0.00 0.00 2.50
543 567 8.995027 TGGTAACATAGATGCCTTCATTTATT 57.005 30.769 0.00 0.00 46.17 1.40
553 577 9.905713 AGATGCCTTCATTTATTACTTTGTAGA 57.094 29.630 0.00 0.00 31.96 2.59
554 578 9.937175 GATGCCTTCATTTATTACTTTGTAGAC 57.063 33.333 0.00 0.00 31.96 2.59
555 579 9.686683 ATGCCTTCATTTATTACTTTGTAGACT 57.313 29.630 0.00 0.00 0.00 3.24
556 580 9.162764 TGCCTTCATTTATTACTTTGTAGACTC 57.837 33.333 0.00 0.00 0.00 3.36
557 581 9.162764 GCCTTCATTTATTACTTTGTAGACTCA 57.837 33.333 0.00 0.00 0.00 3.41
568 592 7.325660 ACTTTGTAGACTCATTATGCATTGG 57.674 36.000 3.54 0.00 0.00 3.16
569 593 6.319658 ACTTTGTAGACTCATTATGCATTGGG 59.680 38.462 3.54 0.00 0.00 4.12
570 594 5.628797 TGTAGACTCATTATGCATTGGGA 57.371 39.130 3.54 0.00 0.00 4.37
571 595 6.000246 TGTAGACTCATTATGCATTGGGAA 58.000 37.500 3.54 0.00 0.00 3.97
572 596 6.057533 TGTAGACTCATTATGCATTGGGAAG 58.942 40.000 3.54 0.00 0.00 3.46
573 597 3.887716 AGACTCATTATGCATTGGGAAGC 59.112 43.478 3.54 0.00 0.00 3.86
574 598 2.620115 ACTCATTATGCATTGGGAAGCG 59.380 45.455 3.54 0.00 0.00 4.68
575 599 2.620115 CTCATTATGCATTGGGAAGCGT 59.380 45.455 3.54 0.00 0.00 5.07
576 600 3.023119 TCATTATGCATTGGGAAGCGTT 58.977 40.909 3.54 0.00 0.00 4.84
577 601 4.203226 TCATTATGCATTGGGAAGCGTTA 58.797 39.130 3.54 0.00 0.00 3.18
578 602 4.826733 TCATTATGCATTGGGAAGCGTTAT 59.173 37.500 3.54 0.00 0.00 1.89
579 603 4.566545 TTATGCATTGGGAAGCGTTATG 57.433 40.909 3.54 0.00 0.00 1.90
580 604 1.832883 TGCATTGGGAAGCGTTATGT 58.167 45.000 0.00 0.00 0.00 2.29
581 605 1.472082 TGCATTGGGAAGCGTTATGTG 59.528 47.619 0.00 0.00 0.00 3.21
582 606 1.742831 GCATTGGGAAGCGTTATGTGA 59.257 47.619 0.00 0.00 0.00 3.58
583 607 2.358898 GCATTGGGAAGCGTTATGTGAT 59.641 45.455 0.00 0.00 0.00 3.06
584 608 3.563808 GCATTGGGAAGCGTTATGTGATA 59.436 43.478 0.00 0.00 0.00 2.15
585 609 4.319766 GCATTGGGAAGCGTTATGTGATAG 60.320 45.833 0.00 0.00 0.00 2.08
586 610 4.481368 TTGGGAAGCGTTATGTGATAGT 57.519 40.909 0.00 0.00 0.00 2.12
587 611 5.601583 TTGGGAAGCGTTATGTGATAGTA 57.398 39.130 0.00 0.00 0.00 1.82
588 612 5.601583 TGGGAAGCGTTATGTGATAGTAA 57.398 39.130 0.00 0.00 0.00 2.24
589 613 5.353938 TGGGAAGCGTTATGTGATAGTAAC 58.646 41.667 0.00 0.00 0.00 2.50
590 614 5.105269 TGGGAAGCGTTATGTGATAGTAACA 60.105 40.000 0.00 0.00 31.83 2.41
591 615 5.989777 GGGAAGCGTTATGTGATAGTAACAT 59.010 40.000 0.00 0.00 41.14 2.71
592 616 7.149973 GGGAAGCGTTATGTGATAGTAACATA 58.850 38.462 0.00 0.00 39.05 2.29
593 617 7.817962 GGGAAGCGTTATGTGATAGTAACATAT 59.182 37.037 0.00 0.00 39.57 1.78
594 618 9.204570 GGAAGCGTTATGTGATAGTAACATATT 57.795 33.333 0.00 0.00 39.57 1.28
618 642 5.599999 TGTTACTCTATTTGCCTCTCTCC 57.400 43.478 0.00 0.00 0.00 3.71
619 643 5.273208 TGTTACTCTATTTGCCTCTCTCCT 58.727 41.667 0.00 0.00 0.00 3.69
620 644 5.361285 TGTTACTCTATTTGCCTCTCTCCTC 59.639 44.000 0.00 0.00 0.00 3.71
621 645 3.987745 ACTCTATTTGCCTCTCTCCTCA 58.012 45.455 0.00 0.00 0.00 3.86
622 646 4.555689 ACTCTATTTGCCTCTCTCCTCAT 58.444 43.478 0.00 0.00 0.00 2.90
623 647 4.968080 ACTCTATTTGCCTCTCTCCTCATT 59.032 41.667 0.00 0.00 0.00 2.57
624 648 6.139671 ACTCTATTTGCCTCTCTCCTCATTA 58.860 40.000 0.00 0.00 0.00 1.90
625 649 6.613271 ACTCTATTTGCCTCTCTCCTCATTAA 59.387 38.462 0.00 0.00 0.00 1.40
626 650 6.821388 TCTATTTGCCTCTCTCCTCATTAAC 58.179 40.000 0.00 0.00 0.00 2.01
627 651 5.707066 ATTTGCCTCTCTCCTCATTAACT 57.293 39.130 0.00 0.00 0.00 2.24
628 652 6.814954 ATTTGCCTCTCTCCTCATTAACTA 57.185 37.500 0.00 0.00 0.00 2.24
629 653 5.599999 TTGCCTCTCTCCTCATTAACTAC 57.400 43.478 0.00 0.00 0.00 2.73
630 654 4.873010 TGCCTCTCTCCTCATTAACTACT 58.127 43.478 0.00 0.00 0.00 2.57
631 655 5.273208 TGCCTCTCTCCTCATTAACTACTT 58.727 41.667 0.00 0.00 0.00 2.24
632 656 5.127845 TGCCTCTCTCCTCATTAACTACTTG 59.872 44.000 0.00 0.00 0.00 3.16
633 657 5.596845 CCTCTCTCCTCATTAACTACTTGC 58.403 45.833 0.00 0.00 0.00 4.01
634 658 5.452636 CCTCTCTCCTCATTAACTACTTGCC 60.453 48.000 0.00 0.00 0.00 4.52
635 659 5.023452 TCTCTCCTCATTAACTACTTGCCA 58.977 41.667 0.00 0.00 0.00 4.92
636 660 5.086104 TCTCCTCATTAACTACTTGCCAC 57.914 43.478 0.00 0.00 0.00 5.01
637 661 4.530553 TCTCCTCATTAACTACTTGCCACA 59.469 41.667 0.00 0.00 0.00 4.17
638 662 5.189736 TCTCCTCATTAACTACTTGCCACAT 59.810 40.000 0.00 0.00 0.00 3.21
639 663 5.428253 TCCTCATTAACTACTTGCCACATC 58.572 41.667 0.00 0.00 0.00 3.06
640 664 5.045942 TCCTCATTAACTACTTGCCACATCA 60.046 40.000 0.00 0.00 0.00 3.07
641 665 5.824624 CCTCATTAACTACTTGCCACATCAT 59.175 40.000 0.00 0.00 0.00 2.45
642 666 6.017605 CCTCATTAACTACTTGCCACATCATC 60.018 42.308 0.00 0.00 0.00 2.92
643 667 6.413892 TCATTAACTACTTGCCACATCATCA 58.586 36.000 0.00 0.00 0.00 3.07
644 668 7.056006 TCATTAACTACTTGCCACATCATCAT 58.944 34.615 0.00 0.00 0.00 2.45
645 669 7.557358 TCATTAACTACTTGCCACATCATCATT 59.443 33.333 0.00 0.00 0.00 2.57
646 670 7.701539 TTAACTACTTGCCACATCATCATTT 57.298 32.000 0.00 0.00 0.00 2.32
647 671 6.594788 AACTACTTGCCACATCATCATTTT 57.405 33.333 0.00 0.00 0.00 1.82
648 672 6.594788 ACTACTTGCCACATCATCATTTTT 57.405 33.333 0.00 0.00 0.00 1.94
649 673 6.392354 ACTACTTGCCACATCATCATTTTTG 58.608 36.000 0.00 0.00 0.00 2.44
650 674 3.998341 ACTTGCCACATCATCATTTTTGC 59.002 39.130 0.00 0.00 0.00 3.68
651 675 3.965379 TGCCACATCATCATTTTTGCT 57.035 38.095 0.00 0.00 0.00 3.91
652 676 4.274602 TGCCACATCATCATTTTTGCTT 57.725 36.364 0.00 0.00 0.00 3.91
653 677 5.402997 TGCCACATCATCATTTTTGCTTA 57.597 34.783 0.00 0.00 0.00 3.09
654 678 5.979993 TGCCACATCATCATTTTTGCTTAT 58.020 33.333 0.00 0.00 0.00 1.73
655 679 5.813157 TGCCACATCATCATTTTTGCTTATG 59.187 36.000 0.00 0.00 0.00 1.90
656 680 5.813672 GCCACATCATCATTTTTGCTTATGT 59.186 36.000 0.00 0.00 0.00 2.29
657 681 6.237996 GCCACATCATCATTTTTGCTTATGTG 60.238 38.462 0.00 0.00 41.50 3.21
658 682 7.229228 CACATCATCATTTTTGCTTATGTGG 57.771 36.000 0.00 0.00 39.34 4.17
659 683 5.813672 ACATCATCATTTTTGCTTATGTGGC 59.186 36.000 0.00 0.00 0.00 5.01
660 684 5.402997 TCATCATTTTTGCTTATGTGGCA 57.597 34.783 0.00 0.00 37.97 4.92
661 685 5.979993 TCATCATTTTTGCTTATGTGGCAT 58.020 33.333 0.00 0.00 39.54 4.40
662 686 6.044046 TCATCATTTTTGCTTATGTGGCATC 58.956 36.000 0.00 0.00 39.54 3.91
663 687 5.664294 TCATTTTTGCTTATGTGGCATCT 57.336 34.783 0.00 0.00 39.54 2.90
664 688 6.772360 TCATTTTTGCTTATGTGGCATCTA 57.228 33.333 0.00 0.00 39.54 1.98
665 689 7.350744 TCATTTTTGCTTATGTGGCATCTAT 57.649 32.000 0.00 0.00 39.54 1.98
666 690 7.204604 TCATTTTTGCTTATGTGGCATCTATG 58.795 34.615 0.00 0.00 39.54 2.23
667 691 6.528537 TTTTTGCTTATGTGGCATCTATGT 57.471 33.333 0.00 0.00 39.54 2.29
668 692 6.528537 TTTTGCTTATGTGGCATCTATGTT 57.471 33.333 0.00 0.00 39.54 2.71
669 693 7.637631 TTTTGCTTATGTGGCATCTATGTTA 57.362 32.000 0.00 0.00 39.54 2.41
670 694 6.618287 TTGCTTATGTGGCATCTATGTTAC 57.382 37.500 0.00 0.00 39.54 2.50
671 695 5.928976 TGCTTATGTGGCATCTATGTTACT 58.071 37.500 0.00 0.00 34.56 2.24
672 696 7.061566 TGCTTATGTGGCATCTATGTTACTA 57.938 36.000 0.00 0.00 34.56 1.82
673 697 6.929049 TGCTTATGTGGCATCTATGTTACTAC 59.071 38.462 0.00 0.00 34.56 2.73
674 698 6.369065 GCTTATGTGGCATCTATGTTACTACC 59.631 42.308 0.00 0.00 0.00 3.18
675 699 7.612065 TTATGTGGCATCTATGTTACTACCT 57.388 36.000 0.00 0.00 0.00 3.08
676 700 8.715190 TTATGTGGCATCTATGTTACTACCTA 57.285 34.615 0.00 0.00 0.00 3.08
677 701 7.798710 ATGTGGCATCTATGTTACTACCTAT 57.201 36.000 0.00 0.00 0.00 2.57
678 702 6.993079 TGTGGCATCTATGTTACTACCTATG 58.007 40.000 0.00 0.00 0.00 2.23
679 703 6.553476 TGTGGCATCTATGTTACTACCTATGT 59.447 38.462 0.00 0.00 0.00 2.29
680 704 7.070696 TGTGGCATCTATGTTACTACCTATGTT 59.929 37.037 0.00 0.00 0.00 2.71
681 705 8.582437 GTGGCATCTATGTTACTACCTATGTTA 58.418 37.037 0.00 0.00 0.00 2.41
682 706 8.582437 TGGCATCTATGTTACTACCTATGTTAC 58.418 37.037 0.00 0.00 0.00 2.50
683 707 8.804204 GGCATCTATGTTACTACCTATGTTACT 58.196 37.037 0.00 0.00 0.00 2.24
684 708 9.843334 GCATCTATGTTACTACCTATGTTACTC 57.157 37.037 0.00 0.00 0.00 2.59
694 718 8.680039 ACTACCTATGTTACTCTCACTATGAC 57.320 38.462 0.00 0.00 0.00 3.06
695 719 6.963083 ACCTATGTTACTCTCACTATGACC 57.037 41.667 0.00 0.00 0.00 4.02
696 720 6.432581 ACCTATGTTACTCTCACTATGACCA 58.567 40.000 0.00 0.00 0.00 4.02
697 721 6.547880 ACCTATGTTACTCTCACTATGACCAG 59.452 42.308 0.00 0.00 0.00 4.00
698 722 4.720649 TGTTACTCTCACTATGACCAGC 57.279 45.455 0.00 0.00 0.00 4.85
699 723 3.447586 TGTTACTCTCACTATGACCAGCC 59.552 47.826 0.00 0.00 0.00 4.85
725 749 0.540365 AAGGGACAAGTGCATGTGGG 60.540 55.000 0.00 0.00 32.57 4.61
1440 1509 1.336424 TGCGACGAGTGCAGAAATACA 60.336 47.619 0.00 0.00 37.44 2.29
1496 1565 8.677148 ATCCGCAATAACTGTGATTAATTAGT 57.323 30.769 0.00 0.00 37.79 2.24
1584 1653 0.541392 TCATGCGCCTGGAGTAATGT 59.459 50.000 12.90 0.00 0.00 2.71
1963 2045 3.805422 AGTTGTAAAAGATGACGCGTGAA 59.195 39.130 20.70 4.70 0.00 3.18
2257 2390 1.843851 CCTCCCAGTGCCTATAAACCA 59.156 52.381 0.00 0.00 0.00 3.67
2310 2443 1.998315 GCATGCTGTCAGTACTGTCTG 59.002 52.381 21.99 19.81 36.85 3.51
2338 2471 3.754965 TGCCTAGAGTCAATGCAAACTT 58.245 40.909 0.00 0.00 0.00 2.66
2412 4654 4.022849 GCCATTTCACAAGTGCTAAAGAGT 60.023 41.667 0.00 0.00 0.00 3.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
48 49 9.574516 AAATAGATTTGATATCCACCACCTTAC 57.425 33.333 0.00 0.00 0.00 2.34
116 117 2.381752 ATGGCAGGCCTAATAAACCC 57.618 50.000 3.98 0.00 36.94 4.11
124 125 4.788925 AAAACATACTATGGCAGGCCTA 57.211 40.909 3.98 0.00 36.94 3.93
260 284 0.386858 CTACACACACGTACAGCGCT 60.387 55.000 2.64 2.64 46.11 5.92
261 285 0.662374 ACTACACACACGTACAGCGC 60.662 55.000 0.00 0.00 46.11 5.92
263 287 1.790623 CCAACTACACACACGTACAGC 59.209 52.381 0.00 0.00 0.00 4.40
264 288 3.088194 ACCAACTACACACACGTACAG 57.912 47.619 0.00 0.00 0.00 2.74
265 289 3.188492 CAACCAACTACACACACGTACA 58.812 45.455 0.00 0.00 0.00 2.90
266 290 2.033492 GCAACCAACTACACACACGTAC 60.033 50.000 0.00 0.00 0.00 3.67
267 291 2.203401 GCAACCAACTACACACACGTA 58.797 47.619 0.00 0.00 0.00 3.57
268 292 1.011333 GCAACCAACTACACACACGT 58.989 50.000 0.00 0.00 0.00 4.49
269 293 1.010580 TGCAACCAACTACACACACG 58.989 50.000 0.00 0.00 0.00 4.49
270 294 2.858260 GCATGCAACCAACTACACACAC 60.858 50.000 14.21 0.00 0.00 3.82
271 295 1.336440 GCATGCAACCAACTACACACA 59.664 47.619 14.21 0.00 0.00 3.72
272 296 1.336440 TGCATGCAACCAACTACACAC 59.664 47.619 20.30 0.00 0.00 3.82
273 297 1.685148 TGCATGCAACCAACTACACA 58.315 45.000 20.30 0.00 0.00 3.72
274 298 2.791383 TTGCATGCAACCAACTACAC 57.209 45.000 28.80 0.00 0.00 2.90
275 299 3.715495 CTTTTGCATGCAACCAACTACA 58.285 40.909 31.99 12.76 35.46 2.74
276 300 2.476241 GCTTTTGCATGCAACCAACTAC 59.524 45.455 31.99 13.62 46.58 2.73
277 301 2.753296 GCTTTTGCATGCAACCAACTA 58.247 42.857 31.99 14.30 46.58 2.24
278 302 1.585297 GCTTTTGCATGCAACCAACT 58.415 45.000 31.99 0.00 46.58 3.16
291 315 3.669344 TTGCCCGCTCCGCTTTTG 61.669 61.111 0.00 0.00 0.00 2.44
292 316 3.670377 GTTGCCCGCTCCGCTTTT 61.670 61.111 0.00 0.00 0.00 2.27
303 327 2.536997 ATCACAGTAGCCGGTTGCCC 62.537 60.000 1.90 0.00 42.71 5.36
304 328 1.078426 ATCACAGTAGCCGGTTGCC 60.078 57.895 1.90 0.00 42.71 4.52
305 329 1.982073 GCATCACAGTAGCCGGTTGC 61.982 60.000 1.90 0.00 41.71 4.17
306 330 0.391661 AGCATCACAGTAGCCGGTTG 60.392 55.000 1.90 0.00 0.00 3.77
307 331 0.324943 AAGCATCACAGTAGCCGGTT 59.675 50.000 1.90 0.00 0.00 4.44
308 332 0.324943 AAAGCATCACAGTAGCCGGT 59.675 50.000 1.90 0.00 0.00 5.28
309 333 0.729116 CAAAGCATCACAGTAGCCGG 59.271 55.000 0.00 0.00 0.00 6.13
310 334 0.729116 CCAAAGCATCACAGTAGCCG 59.271 55.000 0.00 0.00 0.00 5.52
311 335 2.113860 TCCAAAGCATCACAGTAGCC 57.886 50.000 0.00 0.00 0.00 3.93
312 336 4.156556 TGAATTCCAAAGCATCACAGTAGC 59.843 41.667 2.27 0.00 0.00 3.58
313 337 5.181811 TGTGAATTCCAAAGCATCACAGTAG 59.818 40.000 2.27 0.00 43.79 2.57
314 338 5.069318 TGTGAATTCCAAAGCATCACAGTA 58.931 37.500 2.27 0.00 43.79 2.74
315 339 3.890756 TGTGAATTCCAAAGCATCACAGT 59.109 39.130 2.27 0.00 43.79 3.55
316 340 4.508461 TGTGAATTCCAAAGCATCACAG 57.492 40.909 2.27 0.00 43.79 3.66
317 341 4.341806 ACTTGTGAATTCCAAAGCATCACA 59.658 37.500 14.14 3.01 46.12 3.58
318 342 4.682860 CACTTGTGAATTCCAAAGCATCAC 59.317 41.667 14.14 0.00 40.53 3.06
319 343 4.796946 GCACTTGTGAATTCCAAAGCATCA 60.797 41.667 14.14 0.00 0.00 3.07
320 344 3.676646 GCACTTGTGAATTCCAAAGCATC 59.323 43.478 14.14 3.94 0.00 3.91
321 345 3.555586 GGCACTTGTGAATTCCAAAGCAT 60.556 43.478 21.35 5.80 0.00 3.79
322 346 2.224018 GGCACTTGTGAATTCCAAAGCA 60.224 45.455 21.35 7.41 0.00 3.91
323 347 2.036346 AGGCACTTGTGAATTCCAAAGC 59.964 45.455 14.14 15.55 27.25 3.51
324 348 4.321230 GGTAGGCACTTGTGAATTCCAAAG 60.321 45.833 13.10 13.10 41.75 2.77
325 349 3.572255 GGTAGGCACTTGTGAATTCCAAA 59.428 43.478 2.27 0.00 41.75 3.28
358 382 4.775253 ACCAAAACAGAAAGACCAAGGAAA 59.225 37.500 0.00 0.00 0.00 3.13
398 422 0.702902 AAGTACTCCCTCCGTCTGGA 59.297 55.000 0.00 0.00 43.88 3.86
401 425 1.917568 AGAGAAGTACTCCCTCCGTCT 59.082 52.381 16.95 6.24 45.96 4.18
422 446 3.954904 TCTCCACTATGACTAGCCTCAAC 59.045 47.826 0.00 0.00 0.00 3.18
424 448 3.203263 ACTCTCCACTATGACTAGCCTCA 59.797 47.826 0.00 0.00 0.00 3.86
425 449 3.827722 ACTCTCCACTATGACTAGCCTC 58.172 50.000 0.00 0.00 0.00 4.70
426 450 3.963476 ACTCTCCACTATGACTAGCCT 57.037 47.619 0.00 0.00 0.00 4.58
427 451 5.134661 AGTTACTCTCCACTATGACTAGCC 58.865 45.833 0.00 0.00 0.00 3.93
428 452 6.702716 AAGTTACTCTCCACTATGACTAGC 57.297 41.667 0.00 0.00 0.00 3.42
429 453 9.048446 GTCTAAGTTACTCTCCACTATGACTAG 57.952 40.741 0.00 0.00 0.00 2.57
430 454 8.770322 AGTCTAAGTTACTCTCCACTATGACTA 58.230 37.037 0.00 0.00 35.61 2.59
431 455 7.635648 AGTCTAAGTTACTCTCCACTATGACT 58.364 38.462 0.00 0.00 34.02 3.41
432 456 7.868906 AGTCTAAGTTACTCTCCACTATGAC 57.131 40.000 0.00 0.00 0.00 3.06
433 457 8.770322 ACTAGTCTAAGTTACTCTCCACTATGA 58.230 37.037 0.00 0.00 0.00 2.15
434 458 8.967664 ACTAGTCTAAGTTACTCTCCACTATG 57.032 38.462 0.00 0.00 0.00 2.23
436 460 9.883142 GTTACTAGTCTAAGTTACTCTCCACTA 57.117 37.037 0.00 0.00 0.00 2.74
437 461 8.381636 TGTTACTAGTCTAAGTTACTCTCCACT 58.618 37.037 0.00 0.00 31.82 4.00
438 462 8.558973 TGTTACTAGTCTAAGTTACTCTCCAC 57.441 38.462 0.00 0.00 31.82 4.02
470 494 9.519191 TGAAGGTAGTAACATACACTAGTAACA 57.481 33.333 0.00 0.00 33.13 2.41
474 498 9.917887 ACTATGAAGGTAGTAACATACACTAGT 57.082 33.333 0.00 0.00 33.29 2.57
476 500 9.128404 CCACTATGAAGGTAGTAACATACACTA 57.872 37.037 0.00 0.00 33.29 2.74
477 501 7.069578 CCCACTATGAAGGTAGTAACATACACT 59.930 40.741 0.00 0.00 33.29 3.55
478 502 7.147776 ACCCACTATGAAGGTAGTAACATACAC 60.148 40.741 0.00 0.00 33.29 2.90
479 503 6.899075 ACCCACTATGAAGGTAGTAACATACA 59.101 38.462 0.00 0.00 33.29 2.29
480 504 7.357429 ACCCACTATGAAGGTAGTAACATAC 57.643 40.000 0.00 0.00 33.29 2.39
481 505 8.701908 CTACCCACTATGAAGGTAGTAACATA 57.298 38.462 7.19 0.00 45.39 2.29
482 506 7.598759 CTACCCACTATGAAGGTAGTAACAT 57.401 40.000 7.19 0.00 45.39 2.71
489 513 4.938028 TGACACTACCCACTATGAAGGTA 58.062 43.478 0.00 0.00 35.02 3.08
490 514 3.786553 TGACACTACCCACTATGAAGGT 58.213 45.455 0.00 0.00 37.69 3.50
491 515 5.833667 TCTATGACACTACCCACTATGAAGG 59.166 44.000 0.00 0.00 0.00 3.46
492 516 6.961360 TCTATGACACTACCCACTATGAAG 57.039 41.667 0.00 0.00 0.00 3.02
493 517 6.839134 ACATCTATGACACTACCCACTATGAA 59.161 38.462 0.00 0.00 0.00 2.57
494 518 6.265422 CACATCTATGACACTACCCACTATGA 59.735 42.308 0.00 0.00 0.00 2.15
495 519 6.450545 CACATCTATGACACTACCCACTATG 58.549 44.000 0.00 0.00 0.00 2.23
496 520 5.540337 CCACATCTATGACACTACCCACTAT 59.460 44.000 0.00 0.00 0.00 2.12
497 521 4.893524 CCACATCTATGACACTACCCACTA 59.106 45.833 0.00 0.00 0.00 2.74
498 522 3.706594 CCACATCTATGACACTACCCACT 59.293 47.826 0.00 0.00 0.00 4.00
499 523 3.451178 ACCACATCTATGACACTACCCAC 59.549 47.826 0.00 0.00 0.00 4.61
500 524 3.719871 ACCACATCTATGACACTACCCA 58.280 45.455 0.00 0.00 0.00 4.51
501 525 5.128171 TGTTACCACATCTATGACACTACCC 59.872 44.000 0.00 0.00 0.00 3.69
502 526 6.216801 TGTTACCACATCTATGACACTACC 57.783 41.667 0.00 0.00 0.00 3.18
503 527 8.847196 TCTATGTTACCACATCTATGACACTAC 58.153 37.037 0.00 0.00 43.06 2.73
504 528 8.990163 TCTATGTTACCACATCTATGACACTA 57.010 34.615 0.00 0.00 43.06 2.74
505 529 7.898014 TCTATGTTACCACATCTATGACACT 57.102 36.000 0.00 0.00 43.06 3.55
506 530 7.116948 GCATCTATGTTACCACATCTATGACAC 59.883 40.741 11.34 0.00 43.06 3.67
507 531 7.154656 GCATCTATGTTACCACATCTATGACA 58.845 38.462 11.34 0.00 43.06 3.58
508 532 6.591834 GGCATCTATGTTACCACATCTATGAC 59.408 42.308 11.34 6.85 43.06 3.06
509 533 6.498303 AGGCATCTATGTTACCACATCTATGA 59.502 38.462 11.34 0.99 43.06 2.15
510 534 6.705302 AGGCATCTATGTTACCACATCTATG 58.295 40.000 0.00 0.00 43.06 2.23
511 535 6.942163 AGGCATCTATGTTACCACATCTAT 57.058 37.500 0.00 0.00 43.06 1.98
512 536 6.326323 TGAAGGCATCTATGTTACCACATCTA 59.674 38.462 0.00 0.00 43.06 1.98
513 537 5.130975 TGAAGGCATCTATGTTACCACATCT 59.869 40.000 0.00 0.00 43.06 2.90
514 538 5.368145 TGAAGGCATCTATGTTACCACATC 58.632 41.667 0.00 0.00 43.06 3.06
515 539 5.372343 TGAAGGCATCTATGTTACCACAT 57.628 39.130 0.00 0.00 46.07 3.21
516 540 4.835284 TGAAGGCATCTATGTTACCACA 57.165 40.909 0.00 0.00 37.31 4.17
517 541 6.699575 AAATGAAGGCATCTATGTTACCAC 57.300 37.500 0.00 0.00 32.35 4.16
518 542 8.995027 AATAAATGAAGGCATCTATGTTACCA 57.005 30.769 0.00 0.00 32.35 3.25
527 551 9.905713 TCTACAAAGTAATAAATGAAGGCATCT 57.094 29.630 0.00 0.00 32.35 2.90
528 552 9.937175 GTCTACAAAGTAATAAATGAAGGCATC 57.063 33.333 0.00 0.00 32.35 3.91
529 553 9.686683 AGTCTACAAAGTAATAAATGAAGGCAT 57.313 29.630 0.00 0.00 35.92 4.40
530 554 9.162764 GAGTCTACAAAGTAATAAATGAAGGCA 57.837 33.333 0.00 0.00 0.00 4.75
531 555 9.162764 TGAGTCTACAAAGTAATAAATGAAGGC 57.837 33.333 0.00 0.00 0.00 4.35
542 566 8.892723 CCAATGCATAATGAGTCTACAAAGTAA 58.107 33.333 0.00 0.00 0.00 2.24
543 567 7.498900 CCCAATGCATAATGAGTCTACAAAGTA 59.501 37.037 0.00 0.00 0.00 2.24
544 568 6.319658 CCCAATGCATAATGAGTCTACAAAGT 59.680 38.462 0.00 0.00 0.00 2.66
545 569 6.543465 TCCCAATGCATAATGAGTCTACAAAG 59.457 38.462 0.00 0.00 0.00 2.77
546 570 6.422333 TCCCAATGCATAATGAGTCTACAAA 58.578 36.000 0.00 0.00 0.00 2.83
547 571 6.000246 TCCCAATGCATAATGAGTCTACAA 58.000 37.500 0.00 0.00 0.00 2.41
548 572 5.628797 TCCCAATGCATAATGAGTCTACA 57.371 39.130 0.00 0.00 0.00 2.74
549 573 5.049129 GCTTCCCAATGCATAATGAGTCTAC 60.049 44.000 0.00 0.00 0.00 2.59
550 574 5.065914 GCTTCCCAATGCATAATGAGTCTA 58.934 41.667 0.00 0.00 0.00 2.59
551 575 3.887716 GCTTCCCAATGCATAATGAGTCT 59.112 43.478 0.00 0.00 0.00 3.24
552 576 3.304257 CGCTTCCCAATGCATAATGAGTC 60.304 47.826 0.00 0.00 0.00 3.36
553 577 2.620115 CGCTTCCCAATGCATAATGAGT 59.380 45.455 0.00 0.00 0.00 3.41
554 578 2.620115 ACGCTTCCCAATGCATAATGAG 59.380 45.455 0.00 0.00 0.00 2.90
555 579 2.653726 ACGCTTCCCAATGCATAATGA 58.346 42.857 0.00 0.00 0.00 2.57
556 580 3.441496 AACGCTTCCCAATGCATAATG 57.559 42.857 0.00 0.00 0.00 1.90
557 581 4.584325 ACATAACGCTTCCCAATGCATAAT 59.416 37.500 0.00 0.00 0.00 1.28
558 582 3.951037 ACATAACGCTTCCCAATGCATAA 59.049 39.130 0.00 0.00 0.00 1.90
559 583 3.314913 CACATAACGCTTCCCAATGCATA 59.685 43.478 0.00 0.00 0.00 3.14
560 584 2.099592 CACATAACGCTTCCCAATGCAT 59.900 45.455 0.00 0.00 0.00 3.96
561 585 1.472082 CACATAACGCTTCCCAATGCA 59.528 47.619 0.00 0.00 0.00 3.96
562 586 1.742831 TCACATAACGCTTCCCAATGC 59.257 47.619 0.00 0.00 0.00 3.56
563 587 4.816385 ACTATCACATAACGCTTCCCAATG 59.184 41.667 0.00 0.00 0.00 2.82
564 588 5.036117 ACTATCACATAACGCTTCCCAAT 57.964 39.130 0.00 0.00 0.00 3.16
565 589 4.481368 ACTATCACATAACGCTTCCCAA 57.519 40.909 0.00 0.00 0.00 4.12
566 590 5.105269 TGTTACTATCACATAACGCTTCCCA 60.105 40.000 0.00 0.00 34.60 4.37
567 591 5.353938 TGTTACTATCACATAACGCTTCCC 58.646 41.667 0.00 0.00 34.60 3.97
568 592 8.758633 ATATGTTACTATCACATAACGCTTCC 57.241 34.615 0.00 0.00 39.88 3.46
592 616 8.371699 GGAGAGAGGCAAATAGAGTAACATAAT 58.628 37.037 0.00 0.00 0.00 1.28
593 617 7.565398 AGGAGAGAGGCAAATAGAGTAACATAA 59.435 37.037 0.00 0.00 0.00 1.90
594 618 7.069986 AGGAGAGAGGCAAATAGAGTAACATA 58.930 38.462 0.00 0.00 0.00 2.29
595 619 5.902431 AGGAGAGAGGCAAATAGAGTAACAT 59.098 40.000 0.00 0.00 0.00 2.71
596 620 5.273208 AGGAGAGAGGCAAATAGAGTAACA 58.727 41.667 0.00 0.00 0.00 2.41
597 621 5.361285 TGAGGAGAGAGGCAAATAGAGTAAC 59.639 44.000 0.00 0.00 0.00 2.50
598 622 5.519808 TGAGGAGAGAGGCAAATAGAGTAA 58.480 41.667 0.00 0.00 0.00 2.24
599 623 5.130705 TGAGGAGAGAGGCAAATAGAGTA 57.869 43.478 0.00 0.00 0.00 2.59
600 624 3.987745 TGAGGAGAGAGGCAAATAGAGT 58.012 45.455 0.00 0.00 0.00 3.24
601 625 5.549742 AATGAGGAGAGAGGCAAATAGAG 57.450 43.478 0.00 0.00 0.00 2.43
602 626 6.613271 AGTTAATGAGGAGAGAGGCAAATAGA 59.387 38.462 0.00 0.00 0.00 1.98
603 627 6.825610 AGTTAATGAGGAGAGAGGCAAATAG 58.174 40.000 0.00 0.00 0.00 1.73
604 628 6.814954 AGTTAATGAGGAGAGAGGCAAATA 57.185 37.500 0.00 0.00 0.00 1.40
605 629 5.707066 AGTTAATGAGGAGAGAGGCAAAT 57.293 39.130 0.00 0.00 0.00 2.32
606 630 5.721960 AGTAGTTAATGAGGAGAGAGGCAAA 59.278 40.000 0.00 0.00 0.00 3.68
607 631 5.273208 AGTAGTTAATGAGGAGAGAGGCAA 58.727 41.667 0.00 0.00 0.00 4.52
608 632 4.873010 AGTAGTTAATGAGGAGAGAGGCA 58.127 43.478 0.00 0.00 0.00 4.75
609 633 5.596845 CAAGTAGTTAATGAGGAGAGAGGC 58.403 45.833 0.00 0.00 0.00 4.70
610 634 5.452636 GGCAAGTAGTTAATGAGGAGAGAGG 60.453 48.000 0.00 0.00 0.00 3.69
611 635 5.127845 TGGCAAGTAGTTAATGAGGAGAGAG 59.872 44.000 0.00 0.00 0.00 3.20
612 636 5.023452 TGGCAAGTAGTTAATGAGGAGAGA 58.977 41.667 0.00 0.00 0.00 3.10
613 637 5.112686 GTGGCAAGTAGTTAATGAGGAGAG 58.887 45.833 0.00 0.00 0.00 3.20
614 638 4.530553 TGTGGCAAGTAGTTAATGAGGAGA 59.469 41.667 0.00 0.00 0.00 3.71
615 639 4.832248 TGTGGCAAGTAGTTAATGAGGAG 58.168 43.478 0.00 0.00 0.00 3.69
616 640 4.901197 TGTGGCAAGTAGTTAATGAGGA 57.099 40.909 0.00 0.00 0.00 3.71
617 641 5.185454 TGATGTGGCAAGTAGTTAATGAGG 58.815 41.667 0.00 0.00 0.00 3.86
618 642 6.539826 TGATGATGTGGCAAGTAGTTAATGAG 59.460 38.462 0.00 0.00 0.00 2.90
619 643 6.413892 TGATGATGTGGCAAGTAGTTAATGA 58.586 36.000 0.00 0.00 0.00 2.57
620 644 6.682423 TGATGATGTGGCAAGTAGTTAATG 57.318 37.500 0.00 0.00 0.00 1.90
621 645 7.886629 AATGATGATGTGGCAAGTAGTTAAT 57.113 32.000 0.00 0.00 0.00 1.40
622 646 7.701539 AAATGATGATGTGGCAAGTAGTTAA 57.298 32.000 0.00 0.00 0.00 2.01
623 647 7.701539 AAAATGATGATGTGGCAAGTAGTTA 57.298 32.000 0.00 0.00 0.00 2.24
624 648 6.594788 AAAATGATGATGTGGCAAGTAGTT 57.405 33.333 0.00 0.00 0.00 2.24
625 649 6.392354 CAAAAATGATGATGTGGCAAGTAGT 58.608 36.000 0.00 0.00 0.00 2.73
626 650 5.290158 GCAAAAATGATGATGTGGCAAGTAG 59.710 40.000 0.00 0.00 0.00 2.57
627 651 5.047164 AGCAAAAATGATGATGTGGCAAGTA 60.047 36.000 0.00 0.00 0.00 2.24
628 652 3.998341 GCAAAAATGATGATGTGGCAAGT 59.002 39.130 0.00 0.00 0.00 3.16
629 653 4.250464 AGCAAAAATGATGATGTGGCAAG 58.750 39.130 0.00 0.00 0.00 4.01
630 654 4.274602 AGCAAAAATGATGATGTGGCAA 57.725 36.364 0.00 0.00 0.00 4.52
631 655 3.965379 AGCAAAAATGATGATGTGGCA 57.035 38.095 0.00 0.00 0.00 4.92
632 656 5.813672 ACATAAGCAAAAATGATGATGTGGC 59.186 36.000 0.00 0.00 0.00 5.01
633 657 7.229228 CACATAAGCAAAAATGATGATGTGG 57.771 36.000 14.08 0.34 39.34 4.17
634 658 6.237996 GCCACATAAGCAAAAATGATGATGTG 60.238 38.462 14.69 14.69 41.53 3.21
635 659 5.813672 GCCACATAAGCAAAAATGATGATGT 59.186 36.000 0.00 0.00 0.00 3.06
636 660 5.813157 TGCCACATAAGCAAAAATGATGATG 59.187 36.000 0.00 0.00 37.28 3.07
637 661 5.979993 TGCCACATAAGCAAAAATGATGAT 58.020 33.333 0.00 0.00 37.28 2.45
638 662 5.402997 TGCCACATAAGCAAAAATGATGA 57.597 34.783 0.00 0.00 37.28 2.92
639 663 6.046593 AGATGCCACATAAGCAAAAATGATG 58.953 36.000 0.00 0.00 44.83 3.07
640 664 6.229936 AGATGCCACATAAGCAAAAATGAT 57.770 33.333 0.00 0.00 44.83 2.45
641 665 5.664294 AGATGCCACATAAGCAAAAATGA 57.336 34.783 0.00 0.00 44.83 2.57
642 666 6.982141 ACATAGATGCCACATAAGCAAAAATG 59.018 34.615 0.00 0.00 44.83 2.32
643 667 7.116075 ACATAGATGCCACATAAGCAAAAAT 57.884 32.000 0.00 0.00 44.83 1.82
644 668 6.528537 ACATAGATGCCACATAAGCAAAAA 57.471 33.333 0.00 0.00 44.83 1.94
645 669 6.528537 AACATAGATGCCACATAAGCAAAA 57.471 33.333 0.00 0.00 44.83 2.44
646 670 6.828273 AGTAACATAGATGCCACATAAGCAAA 59.172 34.615 0.00 0.00 44.83 3.68
647 671 6.356556 AGTAACATAGATGCCACATAAGCAA 58.643 36.000 0.00 0.00 44.83 3.91
648 672 5.928976 AGTAACATAGATGCCACATAAGCA 58.071 37.500 0.00 0.00 45.94 3.91
649 673 6.369065 GGTAGTAACATAGATGCCACATAAGC 59.631 42.308 0.00 0.00 0.00 3.09
650 674 7.671302 AGGTAGTAACATAGATGCCACATAAG 58.329 38.462 0.00 0.00 0.00 1.73
651 675 7.612065 AGGTAGTAACATAGATGCCACATAA 57.388 36.000 0.00 0.00 0.00 1.90
652 676 8.749354 CATAGGTAGTAACATAGATGCCACATA 58.251 37.037 0.00 0.00 0.00 2.29
653 677 7.235606 ACATAGGTAGTAACATAGATGCCACAT 59.764 37.037 0.00 0.00 0.00 3.21
654 678 6.553476 ACATAGGTAGTAACATAGATGCCACA 59.447 38.462 0.00 0.00 0.00 4.17
655 679 6.994221 ACATAGGTAGTAACATAGATGCCAC 58.006 40.000 0.00 0.00 0.00 5.01
656 680 7.612065 AACATAGGTAGTAACATAGATGCCA 57.388 36.000 0.00 0.00 0.00 4.92
657 681 8.804204 AGTAACATAGGTAGTAACATAGATGCC 58.196 37.037 0.00 0.00 0.00 4.40
658 682 9.843334 GAGTAACATAGGTAGTAACATAGATGC 57.157 37.037 0.00 0.00 0.00 3.91
668 692 9.775854 GTCATAGTGAGAGTAACATAGGTAGTA 57.224 37.037 0.00 0.00 0.00 1.82
669 693 7.720515 GGTCATAGTGAGAGTAACATAGGTAGT 59.279 40.741 0.00 0.00 0.00 2.73
670 694 7.720074 TGGTCATAGTGAGAGTAACATAGGTAG 59.280 40.741 0.00 0.00 0.00 3.18
671 695 7.580007 TGGTCATAGTGAGAGTAACATAGGTA 58.420 38.462 0.00 0.00 0.00 3.08
672 696 6.432581 TGGTCATAGTGAGAGTAACATAGGT 58.567 40.000 0.00 0.00 0.00 3.08
673 697 6.515862 GCTGGTCATAGTGAGAGTAACATAGG 60.516 46.154 0.00 0.00 0.00 2.57
674 698 6.442952 GCTGGTCATAGTGAGAGTAACATAG 58.557 44.000 0.00 0.00 0.00 2.23
675 699 5.302059 GGCTGGTCATAGTGAGAGTAACATA 59.698 44.000 0.00 0.00 0.00 2.29
676 700 4.100189 GGCTGGTCATAGTGAGAGTAACAT 59.900 45.833 0.00 0.00 0.00 2.71
677 701 3.447586 GGCTGGTCATAGTGAGAGTAACA 59.552 47.826 0.00 0.00 0.00 2.41
678 702 3.702045 AGGCTGGTCATAGTGAGAGTAAC 59.298 47.826 0.00 0.00 0.00 2.50
679 703 3.701542 CAGGCTGGTCATAGTGAGAGTAA 59.298 47.826 6.61 0.00 0.00 2.24
680 704 3.053619 TCAGGCTGGTCATAGTGAGAGTA 60.054 47.826 15.73 0.00 0.00 2.59
681 705 2.106566 CAGGCTGGTCATAGTGAGAGT 58.893 52.381 6.61 0.00 0.00 3.24
682 706 2.382882 TCAGGCTGGTCATAGTGAGAG 58.617 52.381 15.73 0.00 0.00 3.20
683 707 2.532250 TCAGGCTGGTCATAGTGAGA 57.468 50.000 15.73 0.00 0.00 3.27
684 708 2.741228 GCTTCAGGCTGGTCATAGTGAG 60.741 54.545 15.73 0.90 38.06 3.51
685 709 1.208052 GCTTCAGGCTGGTCATAGTGA 59.792 52.381 15.73 0.00 38.06 3.41
686 710 1.065926 TGCTTCAGGCTGGTCATAGTG 60.066 52.381 15.73 0.00 42.39 2.74
687 711 1.279496 TGCTTCAGGCTGGTCATAGT 58.721 50.000 15.73 0.00 42.39 2.12
688 712 2.286872 CTTGCTTCAGGCTGGTCATAG 58.713 52.381 15.73 5.98 42.39 2.23
689 713 1.065199 CCTTGCTTCAGGCTGGTCATA 60.065 52.381 15.73 0.00 42.39 2.15
690 714 0.323178 CCTTGCTTCAGGCTGGTCAT 60.323 55.000 15.73 0.00 42.39 3.06
691 715 1.073722 CCTTGCTTCAGGCTGGTCA 59.926 57.895 15.73 7.38 42.39 4.02
692 716 1.676967 CCCTTGCTTCAGGCTGGTC 60.677 63.158 15.73 4.70 42.39 4.02
693 717 2.156098 TCCCTTGCTTCAGGCTGGT 61.156 57.895 15.73 0.00 42.39 4.00
694 718 1.676967 GTCCCTTGCTTCAGGCTGG 60.677 63.158 15.73 0.00 42.39 4.85
695 719 0.538057 TTGTCCCTTGCTTCAGGCTG 60.538 55.000 8.58 8.58 42.39 4.85
696 720 0.251077 CTTGTCCCTTGCTTCAGGCT 60.251 55.000 0.00 0.00 42.39 4.58
697 721 0.538287 ACTTGTCCCTTGCTTCAGGC 60.538 55.000 0.00 0.00 42.22 4.85
698 722 1.242076 CACTTGTCCCTTGCTTCAGG 58.758 55.000 0.00 0.00 0.00 3.86
699 723 0.595095 GCACTTGTCCCTTGCTTCAG 59.405 55.000 0.00 0.00 33.26 3.02
725 749 6.936968 AATGGATGTATAGGGAAGGTAGAC 57.063 41.667 0.00 0.00 0.00 2.59
1432 1501 9.167311 GTACTCCATGAATTCTGTTGTATTTCT 57.833 33.333 7.05 0.00 0.00 2.52
1496 1565 4.764679 ATTGTATGCAAGAAGAAACGCA 57.235 36.364 1.90 0.00 38.10 5.24
1584 1653 3.281158 CATTGTGCACACTATGGGATCA 58.719 45.455 21.56 0.10 39.65 2.92
1690 1759 4.887655 TGTTTCTCAAAGAAGGGTCCTTTC 59.112 41.667 5.59 5.59 35.37 2.62
1963 2045 5.597806 TGTGTTCTCTTCGACAACATACTT 58.402 37.500 0.00 0.00 32.80 2.24
2050 2132 8.522830 CCCACTTGTTTCAAAGAATATGTATGT 58.477 33.333 0.00 0.00 0.00 2.29
2051 2133 7.489113 GCCCACTTGTTTCAAAGAATATGTATG 59.511 37.037 0.00 0.00 0.00 2.39
2310 2443 3.556004 GCATTGACTCTAGGCATCCTACC 60.556 52.174 0.00 0.00 34.61 3.18
2412 4654 1.753930 TCGACTATCAGCCGGTTGTA 58.246 50.000 18.51 8.97 0.00 2.41


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

AutoCloner maintained by Alex Coulton.