Multiple sequence alignment - TraesCS1A01G308700

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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 TraesCS1A01G308700 chr1A 100.000 2459 0 0 1 2459 499784906 499782448 0.000000e+00 4542.0
1 TraesCS1A01G308700 chr1B 87.515 1714 105 33 792 2459 543496866 543495216 0.000000e+00 1879.0
2 TraesCS1A01G308700 chr1B 91.538 260 17 4 448 703 543497210 543496952 1.080000e-93 353.0
3 TraesCS1A01G308700 chr1D 92.000 1075 44 19 791 1863 404137550 404136516 0.000000e+00 1471.0
4 TraesCS1A01G308700 chr1D 88.686 601 45 10 1875 2459 404135933 404135340 0.000000e+00 712.0
5 TraesCS1A01G308700 chr1D 82.161 398 22 21 8 384 404138154 404137785 1.850000e-76 296.0
6 TraesCS1A01G308700 chr1D 93.939 66 1 2 475 537 404137785 404137720 2.010000e-16 97.1
7 TraesCS1A01G308700 chr6A 80.392 153 19 10 1847 1994 599681684 599681830 3.340000e-19 106.0
8 TraesCS1A01G308700 chr4D 81.818 99 12 5 1900 1995 49887593 49887498 7.290000e-11 78.7
9 TraesCS1A01G308700 chr4D 82.895 76 5 5 1922 1995 75803263 75803332 7.340000e-06 62.1


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 TraesCS1A01G308700 chr1A 499782448 499784906 2458 True 4542.000 4542 100.0000 1 2459 1 chr1A.!!$R1 2458
1 TraesCS1A01G308700 chr1B 543495216 543497210 1994 True 1116.000 1879 89.5265 448 2459 2 chr1B.!!$R1 2011
2 TraesCS1A01G308700 chr1D 404135340 404138154 2814 True 644.025 1471 89.1965 8 2459 4 chr1D.!!$R1 2451

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
470 492 0.030908 CGATTCCCCGCTGTACTCTC 59.969 60.0 0.0 0.0 0.0 3.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2274 2988 0.614697 CAAACCCCACCATCCCTTCC 60.615 60.0 0.0 0.0 0.0 3.46 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
53 54 3.299503 GGGTAGTTGGTCGGGTTATCTA 58.700 50.000 0.00 0.00 0.00 1.98
54 55 3.899980 GGGTAGTTGGTCGGGTTATCTAT 59.100 47.826 0.00 0.00 0.00 1.98
55 56 4.021632 GGGTAGTTGGTCGGGTTATCTATC 60.022 50.000 0.00 0.00 0.00 2.08
56 57 4.831710 GGTAGTTGGTCGGGTTATCTATCT 59.168 45.833 0.00 0.00 0.00 1.98
72 73 4.778579 TCTATCTTGTAGCGGTGTAGTCT 58.221 43.478 0.00 0.00 0.00 3.24
74 75 3.570926 TCTTGTAGCGGTGTAGTCTTG 57.429 47.619 0.00 0.00 0.00 3.02
93 94 1.152881 GGGGAGCAGCATCGGAATT 60.153 57.895 0.00 0.00 0.00 2.17
94 95 0.108585 GGGGAGCAGCATCGGAATTA 59.891 55.000 0.00 0.00 0.00 1.40
95 96 1.230324 GGGAGCAGCATCGGAATTAC 58.770 55.000 0.00 0.00 0.00 1.89
156 167 4.455877 GTCTTATCATGGAATTTAGGGGCG 59.544 45.833 0.00 0.00 0.00 6.13
172 183 1.574428 GCGTTGTGCAAATCTCGGT 59.426 52.632 0.00 0.00 45.45 4.69
176 187 3.112580 CGTTGTGCAAATCTCGGTTTTT 58.887 40.909 0.00 0.00 0.00 1.94
185 196 1.727022 CTCGGTTTTTGCGCTGCAG 60.727 57.895 10.11 10.11 40.61 4.41
189 200 0.301388 GGTTTTTGCGCTGCAGTTTG 59.699 50.000 16.64 6.98 40.61 2.93
190 201 0.315301 GTTTTTGCGCTGCAGTTTGC 60.315 50.000 16.64 17.02 45.29 3.68
211 222 2.791158 CGTGTCTGCTTGGTTTGTGTTC 60.791 50.000 0.00 0.00 0.00 3.18
212 223 2.163412 GTGTCTGCTTGGTTTGTGTTCA 59.837 45.455 0.00 0.00 0.00 3.18
213 224 2.423185 TGTCTGCTTGGTTTGTGTTCAG 59.577 45.455 0.00 0.00 0.00 3.02
215 226 1.406539 CTGCTTGGTTTGTGTTCAGCT 59.593 47.619 0.00 0.00 0.00 4.24
216 227 1.405105 TGCTTGGTTTGTGTTCAGCTC 59.595 47.619 0.00 0.00 0.00 4.09
217 228 1.269257 GCTTGGTTTGTGTTCAGCTCC 60.269 52.381 0.00 0.00 0.00 4.70
218 229 2.023673 CTTGGTTTGTGTTCAGCTCCA 58.976 47.619 0.00 0.00 0.00 3.86
219 230 2.136298 TGGTTTGTGTTCAGCTCCAA 57.864 45.000 0.00 0.00 0.00 3.53
220 231 2.451490 TGGTTTGTGTTCAGCTCCAAA 58.549 42.857 0.00 0.00 0.00 3.28
221 232 2.828520 TGGTTTGTGTTCAGCTCCAAAA 59.171 40.909 0.00 0.00 0.00 2.44
222 233 3.450457 TGGTTTGTGTTCAGCTCCAAAAT 59.550 39.130 0.00 0.00 0.00 1.82
223 234 3.803778 GGTTTGTGTTCAGCTCCAAAATG 59.196 43.478 0.00 0.00 0.00 2.32
224 235 2.798976 TGTGTTCAGCTCCAAAATGC 57.201 45.000 0.00 0.00 0.00 3.56
225 236 2.309613 TGTGTTCAGCTCCAAAATGCT 58.690 42.857 0.00 0.00 40.54 3.79
229 240 3.704151 AGCTCCAAAATGCTGGCC 58.296 55.556 0.00 0.00 38.21 5.36
230 241 2.182537 GCTCCAAAATGCTGGCCG 59.817 61.111 0.00 0.00 36.32 6.13
231 242 2.887360 CTCCAAAATGCTGGCCGG 59.113 61.111 7.41 7.41 36.32 6.13
249 260 3.746492 GCCGGAGTACATTGTATGGATTC 59.254 47.826 5.05 0.00 33.60 2.52
266 277 1.642112 TTCCATTTGGCATGCTTGGA 58.358 45.000 18.92 19.98 34.74 3.53
267 278 0.896923 TCCATTTGGCATGCTTGGAC 59.103 50.000 18.92 0.10 31.67 4.02
268 279 0.108041 CCATTTGGCATGCTTGGACC 60.108 55.000 18.92 0.00 0.00 4.46
269 280 0.899720 CATTTGGCATGCTTGGACCT 59.100 50.000 18.92 0.00 0.00 3.85
271 282 0.968405 TTTGGCATGCTTGGACCTTC 59.032 50.000 18.92 0.00 0.00 3.46
272 283 0.112995 TTGGCATGCTTGGACCTTCT 59.887 50.000 18.92 0.00 0.00 2.85
274 285 1.318158 GGCATGCTTGGACCTTCTGG 61.318 60.000 18.92 0.00 39.83 3.86
288 308 2.353803 CCTTCTGGAACTTCGGTGGTAG 60.354 54.545 0.00 0.00 34.57 3.18
289 309 0.606604 TCTGGAACTTCGGTGGTAGC 59.393 55.000 0.00 0.00 0.00 3.58
290 310 0.608640 CTGGAACTTCGGTGGTAGCT 59.391 55.000 0.00 0.00 0.00 3.32
296 316 1.623811 ACTTCGGTGGTAGCTGTGATT 59.376 47.619 0.00 0.00 0.00 2.57
312 332 1.160137 GATTTCTGAACTGCGCTGGT 58.840 50.000 18.98 12.62 0.00 4.00
320 340 0.598158 AACTGCGCTGGTGCAAATTG 60.598 50.000 18.98 1.56 45.74 2.32
321 341 1.007038 CTGCGCTGGTGCAAATTGT 60.007 52.632 9.73 0.00 45.74 2.71
323 343 1.286880 GCGCTGGTGCAAATTGTCT 59.713 52.632 0.00 0.00 39.64 3.41
344 366 1.134226 GTACAGTTGTTGGACGACGG 58.866 55.000 0.00 0.00 37.57 4.79
349 371 0.580104 GTTGTTGGACGACGGAACAG 59.420 55.000 0.00 0.00 31.50 3.16
366 388 1.409064 ACAGAACTCAAGTCGACAGCA 59.591 47.619 19.50 0.00 0.00 4.41
369 391 3.309682 CAGAACTCAAGTCGACAGCAAAA 59.690 43.478 19.50 0.00 0.00 2.44
384 406 1.941975 GCAAAACCAACAGCTGCATTT 59.058 42.857 15.27 6.45 33.19 2.32
385 407 2.286536 GCAAAACCAACAGCTGCATTTG 60.287 45.455 15.27 17.30 34.59 2.32
386 408 2.937799 CAAAACCAACAGCTGCATTTGT 59.062 40.909 15.27 0.40 30.43 2.83
387 409 2.514205 AACCAACAGCTGCATTTGTC 57.486 45.000 15.27 0.00 0.00 3.18
388 410 0.311790 ACCAACAGCTGCATTTGTCG 59.688 50.000 15.27 2.23 0.00 4.35
389 411 0.387622 CCAACAGCTGCATTTGTCGG 60.388 55.000 15.27 0.00 0.00 4.79
390 412 0.592637 CAACAGCTGCATTTGTCGGA 59.407 50.000 15.27 0.00 0.00 4.55
391 413 1.001487 CAACAGCTGCATTTGTCGGAA 60.001 47.619 15.27 0.00 0.00 4.30
392 414 1.538047 ACAGCTGCATTTGTCGGAAT 58.462 45.000 15.27 0.00 0.00 3.01
393 415 1.470098 ACAGCTGCATTTGTCGGAATC 59.530 47.619 15.27 0.00 0.00 2.52
394 416 1.741706 CAGCTGCATTTGTCGGAATCT 59.258 47.619 0.00 0.00 0.00 2.40
395 417 2.938451 CAGCTGCATTTGTCGGAATCTA 59.062 45.455 0.00 0.00 0.00 1.98
396 418 3.374988 CAGCTGCATTTGTCGGAATCTAA 59.625 43.478 0.00 0.00 0.00 2.10
397 419 4.009675 AGCTGCATTTGTCGGAATCTAAA 58.990 39.130 1.02 0.00 0.00 1.85
398 420 4.098416 GCTGCATTTGTCGGAATCTAAAC 58.902 43.478 0.00 0.00 0.00 2.01
399 421 4.379394 GCTGCATTTGTCGGAATCTAAACA 60.379 41.667 0.00 0.00 0.00 2.83
400 422 5.295431 TGCATTTGTCGGAATCTAAACAG 57.705 39.130 0.00 0.00 0.00 3.16
401 423 4.155826 TGCATTTGTCGGAATCTAAACAGG 59.844 41.667 0.00 0.00 0.00 4.00
402 424 4.438744 GCATTTGTCGGAATCTAAACAGGG 60.439 45.833 0.00 0.00 0.00 4.45
403 425 4.627284 TTTGTCGGAATCTAAACAGGGA 57.373 40.909 0.00 0.00 0.00 4.20
404 426 4.837093 TTGTCGGAATCTAAACAGGGAT 57.163 40.909 0.00 0.00 0.00 3.85
405 427 4.402056 TGTCGGAATCTAAACAGGGATC 57.598 45.455 0.00 0.00 0.00 3.36
406 428 3.134081 TGTCGGAATCTAAACAGGGATCC 59.866 47.826 1.92 1.92 0.00 3.36
407 429 3.134081 GTCGGAATCTAAACAGGGATCCA 59.866 47.826 15.23 0.00 0.00 3.41
408 430 3.973973 TCGGAATCTAAACAGGGATCCAT 59.026 43.478 15.23 2.55 0.00 3.41
409 431 5.011738 GTCGGAATCTAAACAGGGATCCATA 59.988 44.000 15.23 0.00 0.00 2.74
410 432 5.785423 TCGGAATCTAAACAGGGATCCATAT 59.215 40.000 15.23 0.00 0.00 1.78
411 433 5.877012 CGGAATCTAAACAGGGATCCATATG 59.123 44.000 15.23 11.46 0.00 1.78
412 434 6.295859 CGGAATCTAAACAGGGATCCATATGA 60.296 42.308 15.23 2.47 0.00 2.15
413 435 7.582242 CGGAATCTAAACAGGGATCCATATGAT 60.582 40.741 15.23 0.84 36.01 2.45
414 436 7.555554 GGAATCTAAACAGGGATCCATATGATG 59.444 40.741 15.23 4.58 32.41 3.07
423 445 2.167217 CCATATGATGGGGCCTGGT 58.833 57.895 3.65 0.00 46.86 4.00
424 446 0.484212 CCATATGATGGGGCCTGGTT 59.516 55.000 3.65 0.00 46.86 3.67
425 447 1.710244 CCATATGATGGGGCCTGGTTA 59.290 52.381 3.65 0.00 46.86 2.85
426 448 2.291153 CCATATGATGGGGCCTGGTTAG 60.291 54.545 3.65 0.00 46.86 2.34
427 449 0.771127 TATGATGGGGCCTGGTTAGC 59.229 55.000 0.84 0.00 0.00 3.09
428 450 0.995675 ATGATGGGGCCTGGTTAGCT 60.996 55.000 0.84 0.00 0.00 3.32
429 451 1.149401 GATGGGGCCTGGTTAGCTC 59.851 63.158 0.84 0.00 0.00 4.09
430 452 2.666596 GATGGGGCCTGGTTAGCTCG 62.667 65.000 0.84 0.00 0.00 5.03
431 453 3.081409 GGGGCCTGGTTAGCTCGA 61.081 66.667 0.84 0.00 0.00 4.04
432 454 2.501610 GGGCCTGGTTAGCTCGAG 59.498 66.667 8.45 8.45 0.00 4.04
433 455 2.058595 GGGCCTGGTTAGCTCGAGA 61.059 63.158 18.75 0.00 0.00 4.04
434 456 1.403687 GGGCCTGGTTAGCTCGAGAT 61.404 60.000 18.75 13.81 0.00 2.75
435 457 0.032815 GGCCTGGTTAGCTCGAGATC 59.967 60.000 18.75 0.00 0.00 2.75
436 458 0.032815 GCCTGGTTAGCTCGAGATCC 59.967 60.000 18.75 9.24 0.00 3.36
437 459 1.403814 CCTGGTTAGCTCGAGATCCA 58.596 55.000 18.75 13.84 0.00 3.41
438 460 1.339610 CCTGGTTAGCTCGAGATCCAG 59.660 57.143 24.41 24.41 41.17 3.86
439 461 0.747255 TGGTTAGCTCGAGATCCAGC 59.253 55.000 18.75 10.76 35.73 4.85
441 463 1.000717 GGTTAGCTCGAGATCCAGCTC 60.001 57.143 18.75 0.00 42.60 4.09
442 464 1.000717 GTTAGCTCGAGATCCAGCTCC 60.001 57.143 18.75 0.00 42.60 4.70
443 465 0.476338 TAGCTCGAGATCCAGCTCCT 59.524 55.000 18.75 2.44 42.60 3.69
444 466 1.108727 AGCTCGAGATCCAGCTCCTG 61.109 60.000 18.75 0.00 42.60 3.86
470 492 0.030908 CGATTCCCCGCTGTACTCTC 59.969 60.000 0.00 0.00 0.00 3.20
474 496 1.682684 CCCCGCTGTACTCTCTGGT 60.683 63.158 0.00 0.00 0.00 4.00
475 497 1.513158 CCCGCTGTACTCTCTGGTG 59.487 63.158 0.00 0.00 0.00 4.17
476 498 1.251527 CCCGCTGTACTCTCTGGTGT 61.252 60.000 0.00 0.00 0.00 4.16
534 558 3.118454 GTGGTGGATGGCACGTCG 61.118 66.667 0.00 0.00 0.00 5.12
536 560 4.760047 GGTGGATGGCACGTCGCT 62.760 66.667 9.31 0.00 41.91 4.93
537 561 3.188786 GTGGATGGCACGTCGCTC 61.189 66.667 9.31 1.67 41.91 5.03
538 562 3.381983 TGGATGGCACGTCGCTCT 61.382 61.111 9.31 0.00 41.91 4.09
539 563 2.125512 GGATGGCACGTCGCTCTT 60.126 61.111 9.31 0.44 41.91 2.85
540 564 2.456119 GGATGGCACGTCGCTCTTG 61.456 63.158 9.31 0.00 41.91 3.02
541 565 1.738099 GATGGCACGTCGCTCTTGT 60.738 57.895 9.31 0.00 41.91 3.16
542 566 1.959899 GATGGCACGTCGCTCTTGTG 61.960 60.000 9.31 0.00 41.91 3.33
543 567 2.661866 GGCACGTCGCTCTTGTGT 60.662 61.111 9.31 0.00 41.91 3.72
544 568 2.546321 GCACGTCGCTCTTGTGTG 59.454 61.111 0.00 0.00 37.77 3.82
545 569 2.546321 CACGTCGCTCTTGTGTGC 59.454 61.111 0.00 0.00 0.00 4.57
546 570 2.661866 ACGTCGCTCTTGTGTGCC 60.662 61.111 0.00 0.00 0.00 5.01
547 571 2.661537 CGTCGCTCTTGTGTGCCA 60.662 61.111 0.00 0.00 0.00 4.92
548 572 2.243957 CGTCGCTCTTGTGTGCCAA 61.244 57.895 0.00 0.00 0.00 4.52
549 573 1.279840 GTCGCTCTTGTGTGCCAAC 59.720 57.895 0.00 0.00 0.00 3.77
550 574 1.153269 TCGCTCTTGTGTGCCAACA 60.153 52.632 0.00 0.00 0.00 3.33
551 575 0.746204 TCGCTCTTGTGTGCCAACAA 60.746 50.000 1.81 1.81 38.27 2.83
552 576 0.311790 CGCTCTTGTGTGCCAACAAT 59.688 50.000 2.14 0.00 39.25 2.71
553 577 1.535028 CGCTCTTGTGTGCCAACAATA 59.465 47.619 2.14 0.00 39.25 1.90
554 578 2.162208 CGCTCTTGTGTGCCAACAATAT 59.838 45.455 2.14 0.00 39.25 1.28
555 579 3.504863 GCTCTTGTGTGCCAACAATATG 58.495 45.455 2.14 0.00 39.25 1.78
556 580 3.674138 GCTCTTGTGTGCCAACAATATGG 60.674 47.826 2.14 0.00 39.25 2.74
566 590 4.049546 CCAACAATATGGCATGGAAGTG 57.950 45.455 10.98 2.18 32.78 3.16
567 591 3.181473 CCAACAATATGGCATGGAAGTGG 60.181 47.826 10.98 8.44 32.78 4.00
568 592 3.386932 ACAATATGGCATGGAAGTGGT 57.613 42.857 10.98 0.00 0.00 4.16
569 593 4.518278 ACAATATGGCATGGAAGTGGTA 57.482 40.909 10.98 0.00 0.00 3.25
570 594 4.865905 ACAATATGGCATGGAAGTGGTAA 58.134 39.130 10.98 0.00 0.00 2.85
571 595 5.457686 ACAATATGGCATGGAAGTGGTAAT 58.542 37.500 10.98 0.00 0.00 1.89
572 596 5.536161 ACAATATGGCATGGAAGTGGTAATC 59.464 40.000 10.98 0.00 0.00 1.75
573 597 3.668141 ATGGCATGGAAGTGGTAATCA 57.332 42.857 0.00 0.00 0.00 2.57
574 598 3.668141 TGGCATGGAAGTGGTAATCAT 57.332 42.857 0.00 0.00 0.00 2.45
602 668 5.202765 TGCTATGATGATCAATTGTTGGGT 58.797 37.500 5.13 0.00 0.00 4.51
606 672 7.040201 GCTATGATGATCAATTGTTGGGTACAT 60.040 37.037 5.13 6.87 36.44 2.29
607 673 9.506018 CTATGATGATCAATTGTTGGGTACATA 57.494 33.333 5.13 7.53 36.44 2.29
608 674 7.806409 TGATGATCAATTGTTGGGTACATAG 57.194 36.000 5.13 0.00 36.44 2.23
609 675 7.345691 TGATGATCAATTGTTGGGTACATAGT 58.654 34.615 5.13 0.00 36.44 2.12
637 707 1.324736 CGCCAGCTCGTTGAACTATTC 59.675 52.381 0.00 0.00 0.00 1.75
638 711 1.666189 GCCAGCTCGTTGAACTATTCC 59.334 52.381 0.00 0.00 0.00 3.01
749 822 7.671495 AAAACATCTTCACCATAAAAATGCC 57.329 32.000 0.00 0.00 0.00 4.40
839 946 4.762251 AGAGGGAAAGTTGTCATTGCTTAC 59.238 41.667 0.00 0.00 0.00 2.34
850 957 5.105063 TGTCATTGCTTACGATCTCTCTTG 58.895 41.667 0.00 0.00 0.00 3.02
912 1019 1.702886 AGTTGCTTCATCGTGACGAG 58.297 50.000 14.71 5.98 39.91 4.18
933 1040 1.823899 GCCCGGACAGCAATTAGGG 60.824 63.158 0.73 2.66 41.65 3.53
966 1074 2.846827 TCCATTTCTTTCCCTCTCCCTC 59.153 50.000 0.00 0.00 0.00 4.30
973 1081 3.478274 CCCTCTCCCTCCAGCAGC 61.478 72.222 0.00 0.00 0.00 5.25
976 1084 2.757508 TCTCCCTCCAGCAGCTCG 60.758 66.667 0.00 0.00 0.00 5.03
1461 1569 3.187022 TGCTCATGAACAACAAGTGATCG 59.813 43.478 0.00 0.00 31.77 3.69
1462 1570 3.425359 GCTCATGAACAACAAGTGATCGG 60.425 47.826 0.00 0.00 31.77 4.18
1471 1579 0.459237 CAAGTGATCGGCGAGCTTCT 60.459 55.000 26.28 19.85 0.00 2.85
1484 1592 2.396601 GAGCTTCTCTGATCTGATGCG 58.603 52.381 2.43 0.00 38.07 4.73
1523 1631 1.147600 GGGACCGGTGAAGTGTTGT 59.852 57.895 14.63 0.00 0.00 3.32
1524 1632 0.883370 GGGACCGGTGAAGTGTTGTC 60.883 60.000 14.63 0.00 0.00 3.18
1525 1633 0.883370 GGACCGGTGAAGTGTTGTCC 60.883 60.000 14.63 0.00 35.91 4.02
1599 1707 7.322664 ACTGGTTTTGCTGTAATATTGGATTG 58.677 34.615 0.00 0.00 0.00 2.67
1616 1726 0.677414 TTGGATGCGAATGCTCTGCA 60.677 50.000 0.00 0.00 44.86 4.41
1627 1737 0.802222 TGCTCTGCATACGCGAAGTC 60.802 55.000 15.93 0.00 42.97 3.01
1645 1758 3.748083 AGTCCTGGCTGCAATATGTATG 58.252 45.455 0.50 0.00 0.00 2.39
1654 1767 3.693654 TGCAATATGTATGCTGCGTTTG 58.306 40.909 0.00 0.00 44.14 2.93
1664 1777 1.397343 TGCTGCGTTTGTTTCGTTGTA 59.603 42.857 0.00 0.00 0.00 2.41
1671 1784 5.141568 GCGTTTGTTTCGTTGTATGTATGT 58.858 37.500 0.00 0.00 0.00 2.29
1672 1785 6.073927 TGCGTTTGTTTCGTTGTATGTATGTA 60.074 34.615 0.00 0.00 0.00 2.29
1673 1786 6.957077 GCGTTTGTTTCGTTGTATGTATGTAT 59.043 34.615 0.00 0.00 0.00 2.29
1674 1787 7.479291 GCGTTTGTTTCGTTGTATGTATGTATT 59.521 33.333 0.00 0.00 0.00 1.89
1675 1788 8.772221 CGTTTGTTTCGTTGTATGTATGTATTG 58.228 33.333 0.00 0.00 0.00 1.90
1676 1789 9.601971 GTTTGTTTCGTTGTATGTATGTATTGT 57.398 29.630 0.00 0.00 0.00 2.71
1810 1924 3.708563 AATGGATATTTTTCGCACCCG 57.291 42.857 0.00 0.00 0.00 5.28
1834 1968 5.399013 GCCGTTTCAATTTACTTAGCATGT 58.601 37.500 0.00 0.00 0.00 3.21
2009 2715 9.727859 ATATGTTTGTTACTGTACCACACATAA 57.272 29.630 20.66 10.19 36.29 1.90
2060 2770 0.466189 GGGTGAATGGACGGATGCAT 60.466 55.000 0.00 0.00 38.79 3.96
2078 2788 7.600375 CGGATGCATCATATAGTTAACAAGAGT 59.400 37.037 27.25 0.00 0.00 3.24
2080 2790 8.613060 ATGCATCATATAGTTAACAAGAGTGG 57.387 34.615 8.61 0.00 0.00 4.00
2098 2808 2.509964 GTGGGGAAGTATCTTCCATGGT 59.490 50.000 23.97 0.00 40.32 3.55
2103 2813 4.200092 GGAAGTATCTTCCATGGTGAACC 58.800 47.826 19.68 6.65 38.45 3.62
2108 2818 2.338809 TCTTCCATGGTGAACCTCACT 58.661 47.619 12.58 0.00 46.19 3.41
2109 2819 2.711009 TCTTCCATGGTGAACCTCACTT 59.289 45.455 12.58 0.00 46.19 3.16
2110 2820 2.859165 TCCATGGTGAACCTCACTTC 57.141 50.000 12.58 0.00 46.19 3.01
2111 2821 2.054021 TCCATGGTGAACCTCACTTCA 58.946 47.619 12.58 0.00 46.19 3.02
2120 2830 6.152379 GGTGAACCTCACTTCATTCATTTTC 58.848 40.000 6.74 0.00 46.19 2.29
2122 2832 7.428826 GTGAACCTCACTTCATTCATTTTCTT 58.571 34.615 0.00 0.00 43.73 2.52
2125 2835 7.587037 ACCTCACTTCATTCATTTTCTTTGA 57.413 32.000 0.00 0.00 0.00 2.69
2156 2866 0.539438 TTCATTTGGCAGGCCTTCGT 60.539 50.000 0.00 0.00 36.94 3.85
2202 2912 4.402793 GGCTAGACTAGAAGTGGTGAATCA 59.597 45.833 13.91 0.00 0.00 2.57
2217 2927 2.027285 TGAATCACCGGCTTCTTCATCA 60.027 45.455 0.00 0.00 0.00 3.07
2229 2939 1.278985 TCTTCATCAGCCGGTGAATGT 59.721 47.619 1.90 0.00 39.19 2.71
2238 2948 1.024579 CCGGTGAATGTGCAGGGTAC 61.025 60.000 0.00 0.00 0.00 3.34
2273 2987 1.575447 GGTCCCCTCCCATTTGCTCT 61.575 60.000 0.00 0.00 0.00 4.09
2274 2988 0.394899 GTCCCCTCCCATTTGCTCTG 60.395 60.000 0.00 0.00 0.00 3.35
2331 3045 5.005740 AGTAGCAGTTGCATCAAGAAATCA 58.994 37.500 6.90 0.00 45.16 2.57
2395 3124 4.084328 CGATCTCCAACACACTTTTGAGTC 60.084 45.833 0.00 0.00 0.00 3.36
2434 3163 1.076192 AGCCCTTTGTCAGCTGCAT 59.924 52.632 9.47 0.00 34.99 3.96
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 2.200373 ACCCAACAGGCAACAGTATC 57.800 50.000 0.00 0.00 40.58 2.24
17 18 2.642807 ACTACCCAACAGGCAACAGTAT 59.357 45.455 0.00 0.00 40.58 2.12
53 54 3.119101 CCAAGACTACACCGCTACAAGAT 60.119 47.826 0.00 0.00 0.00 2.40
54 55 2.230508 CCAAGACTACACCGCTACAAGA 59.769 50.000 0.00 0.00 0.00 3.02
55 56 2.607187 CCAAGACTACACCGCTACAAG 58.393 52.381 0.00 0.00 0.00 3.16
56 57 1.274167 CCCAAGACTACACCGCTACAA 59.726 52.381 0.00 0.00 0.00 2.41
72 73 4.113815 CCGATGCTGCTCCCCCAA 62.114 66.667 0.00 0.00 0.00 4.12
74 75 2.631012 AATTCCGATGCTGCTCCCCC 62.631 60.000 0.00 0.00 0.00 5.40
93 94 5.591067 CACAACCAAAAGAAACCAGGTAGTA 59.409 40.000 0.00 0.00 31.10 1.82
94 95 4.401202 CACAACCAAAAGAAACCAGGTAGT 59.599 41.667 0.00 0.00 31.10 2.73
95 96 4.202111 CCACAACCAAAAGAAACCAGGTAG 60.202 45.833 0.00 0.00 31.10 3.18
156 167 4.436365 CAAAAACCGAGATTTGCACAAC 57.564 40.909 0.00 0.00 30.62 3.32
169 180 1.145162 AAACTGCAGCGCAAAAACCG 61.145 50.000 15.27 0.00 38.41 4.44
172 183 2.005220 GCAAACTGCAGCGCAAAAA 58.995 47.368 15.27 0.00 44.26 1.94
179 190 1.369689 CAGACACGCAAACTGCAGC 60.370 57.895 15.27 0.00 45.36 5.25
185 196 0.100503 AACCAAGCAGACACGCAAAC 59.899 50.000 0.00 0.00 0.00 2.93
189 200 0.592247 CACAAACCAAGCAGACACGC 60.592 55.000 0.00 0.00 0.00 5.34
190 201 0.732571 ACACAAACCAAGCAGACACG 59.267 50.000 0.00 0.00 0.00 4.49
191 202 2.163412 TGAACACAAACCAAGCAGACAC 59.837 45.455 0.00 0.00 0.00 3.67
212 223 2.345760 CGGCCAGCATTTTGGAGCT 61.346 57.895 2.24 0.00 40.87 4.09
213 224 2.182537 CGGCCAGCATTTTGGAGC 59.817 61.111 2.24 0.00 40.87 4.70
215 226 1.678635 CTCCGGCCAGCATTTTGGA 60.679 57.895 2.24 0.00 40.87 3.53
216 227 0.679640 TACTCCGGCCAGCATTTTGG 60.680 55.000 2.24 0.00 41.35 3.28
217 228 0.451783 GTACTCCGGCCAGCATTTTG 59.548 55.000 2.24 0.00 0.00 2.44
218 229 0.037590 TGTACTCCGGCCAGCATTTT 59.962 50.000 2.24 0.00 0.00 1.82
219 230 0.255890 ATGTACTCCGGCCAGCATTT 59.744 50.000 2.24 0.00 0.00 2.32
220 231 0.255890 AATGTACTCCGGCCAGCATT 59.744 50.000 2.24 2.35 0.00 3.56
221 232 0.464373 CAATGTACTCCGGCCAGCAT 60.464 55.000 2.24 0.00 0.00 3.79
222 233 1.078497 CAATGTACTCCGGCCAGCA 60.078 57.895 2.24 0.00 0.00 4.41
223 234 0.177141 TACAATGTACTCCGGCCAGC 59.823 55.000 2.24 0.00 0.00 4.85
224 235 2.483876 CATACAATGTACTCCGGCCAG 58.516 52.381 2.24 0.00 0.00 4.85
225 236 1.140052 CCATACAATGTACTCCGGCCA 59.860 52.381 2.24 0.00 0.00 5.36
226 237 1.414919 TCCATACAATGTACTCCGGCC 59.585 52.381 0.00 0.00 0.00 6.13
227 238 2.902705 TCCATACAATGTACTCCGGC 57.097 50.000 0.00 0.00 0.00 6.13
228 239 4.202315 TGGAATCCATACAATGTACTCCGG 60.202 45.833 0.00 0.00 0.00 5.14
229 240 4.956085 TGGAATCCATACAATGTACTCCG 58.044 43.478 0.00 0.00 0.00 4.63
230 241 7.255590 CCAAATGGAATCCATACAATGTACTCC 60.256 40.741 16.10 0.00 44.40 3.85
231 242 7.651808 CCAAATGGAATCCATACAATGTACTC 58.348 38.462 16.10 0.00 44.40 2.59
249 260 0.108041 GGTCCAAGCATGCCAAATGG 60.108 55.000 15.66 17.38 38.53 3.16
266 277 0.396811 CCACCGAAGTTCCAGAAGGT 59.603 55.000 0.00 0.00 35.89 3.50
267 278 0.396811 ACCACCGAAGTTCCAGAAGG 59.603 55.000 0.00 0.00 0.00 3.46
268 279 2.931320 GCTACCACCGAAGTTCCAGAAG 60.931 54.545 0.00 0.00 0.00 2.85
269 280 1.001633 GCTACCACCGAAGTTCCAGAA 59.998 52.381 0.00 0.00 0.00 3.02
271 282 0.608640 AGCTACCACCGAAGTTCCAG 59.391 55.000 0.00 0.00 0.00 3.86
272 283 0.320374 CAGCTACCACCGAAGTTCCA 59.680 55.000 0.00 0.00 0.00 3.53
274 285 1.000506 TCACAGCTACCACCGAAGTTC 59.999 52.381 0.00 0.00 0.00 3.01
288 308 1.727213 GCGCAGTTCAGAAATCACAGC 60.727 52.381 0.30 0.00 0.00 4.40
289 309 1.802960 AGCGCAGTTCAGAAATCACAG 59.197 47.619 11.47 0.00 0.00 3.66
290 310 1.532437 CAGCGCAGTTCAGAAATCACA 59.468 47.619 11.47 0.00 0.00 3.58
296 316 2.253758 GCACCAGCGCAGTTCAGAA 61.254 57.895 11.47 0.00 0.00 3.02
312 332 5.574891 ACAACTGTACAAGACAATTTGCA 57.425 34.783 0.00 0.00 37.70 4.08
320 340 3.244579 GTCGTCCAACAACTGTACAAGAC 59.755 47.826 0.00 0.00 0.00 3.01
321 341 3.450578 GTCGTCCAACAACTGTACAAGA 58.549 45.455 0.00 0.00 0.00 3.02
323 343 2.195096 CGTCGTCCAACAACTGTACAA 58.805 47.619 0.00 0.00 0.00 2.41
344 366 2.473235 GCTGTCGACTTGAGTTCTGTTC 59.527 50.000 17.92 0.00 0.00 3.18
349 371 3.546218 GGTTTTGCTGTCGACTTGAGTTC 60.546 47.826 17.92 3.00 0.00 3.01
366 388 3.197265 GACAAATGCAGCTGTTGGTTTT 58.803 40.909 16.64 5.72 0.00 2.43
369 391 0.311790 CGACAAATGCAGCTGTTGGT 59.688 50.000 16.64 6.17 0.00 3.67
384 406 3.134081 GGATCCCTGTTTAGATTCCGACA 59.866 47.826 0.00 0.00 0.00 4.35
385 407 3.134081 TGGATCCCTGTTTAGATTCCGAC 59.866 47.826 9.90 0.00 0.00 4.79
386 408 3.380393 TGGATCCCTGTTTAGATTCCGA 58.620 45.455 9.90 0.00 0.00 4.55
387 409 3.838244 TGGATCCCTGTTTAGATTCCG 57.162 47.619 9.90 0.00 0.00 4.30
388 410 7.020827 TCATATGGATCCCTGTTTAGATTCC 57.979 40.000 9.90 0.00 0.00 3.01
389 411 8.503458 CATCATATGGATCCCTGTTTAGATTC 57.497 38.462 9.90 0.00 32.57 2.52
406 428 2.881403 GCTAACCAGGCCCCATCATATG 60.881 54.545 0.00 0.00 0.00 1.78
407 429 1.355720 GCTAACCAGGCCCCATCATAT 59.644 52.381 0.00 0.00 0.00 1.78
408 430 0.771127 GCTAACCAGGCCCCATCATA 59.229 55.000 0.00 0.00 0.00 2.15
409 431 0.995675 AGCTAACCAGGCCCCATCAT 60.996 55.000 0.00 0.00 0.00 2.45
410 432 1.619363 AGCTAACCAGGCCCCATCA 60.619 57.895 0.00 0.00 0.00 3.07
411 433 1.149401 GAGCTAACCAGGCCCCATC 59.851 63.158 0.00 0.00 0.00 3.51
412 434 2.746375 CGAGCTAACCAGGCCCCAT 61.746 63.158 0.00 0.00 0.00 4.00
413 435 3.399181 CGAGCTAACCAGGCCCCA 61.399 66.667 0.00 0.00 0.00 4.96
414 436 3.081409 TCGAGCTAACCAGGCCCC 61.081 66.667 0.00 0.00 0.00 5.80
415 437 1.403687 ATCTCGAGCTAACCAGGCCC 61.404 60.000 7.81 0.00 0.00 5.80
416 438 0.032815 GATCTCGAGCTAACCAGGCC 59.967 60.000 7.81 0.00 0.00 5.19
417 439 0.032815 GGATCTCGAGCTAACCAGGC 59.967 60.000 7.81 0.00 0.00 4.85
418 440 1.339610 CTGGATCTCGAGCTAACCAGG 59.660 57.143 24.98 14.48 40.50 4.45
419 441 1.269517 GCTGGATCTCGAGCTAACCAG 60.270 57.143 26.70 26.70 43.18 4.00
420 442 0.747255 GCTGGATCTCGAGCTAACCA 59.253 55.000 7.81 12.56 43.18 3.67
421 443 3.579066 GCTGGATCTCGAGCTAACC 57.421 57.895 7.81 8.61 43.18 2.85
426 448 1.363443 CAGGAGCTGGATCTCGAGC 59.637 63.158 7.81 6.12 46.23 5.03
459 481 2.440539 AAACACCAGAGAGTACAGCG 57.559 50.000 0.00 0.00 0.00 5.18
470 492 3.119316 TGGTACAAGTTGCAAAACACCAG 60.119 43.478 0.00 0.00 31.92 4.00
534 558 3.504863 CATATTGTTGGCACACAAGAGC 58.495 45.455 16.34 0.00 40.38 4.09
535 559 4.100707 CCATATTGTTGGCACACAAGAG 57.899 45.455 16.34 10.51 40.38 2.85
545 569 3.181473 CCACTTCCATGCCATATTGTTGG 60.181 47.826 0.00 0.00 39.94 3.77
546 570 3.448301 ACCACTTCCATGCCATATTGTTG 59.552 43.478 0.00 0.00 0.00 3.33
547 571 3.711863 ACCACTTCCATGCCATATTGTT 58.288 40.909 0.00 0.00 0.00 2.83
548 572 3.386932 ACCACTTCCATGCCATATTGT 57.613 42.857 0.00 0.00 0.00 2.71
549 573 5.535783 TGATTACCACTTCCATGCCATATTG 59.464 40.000 0.00 0.00 0.00 1.90
550 574 5.704354 TGATTACCACTTCCATGCCATATT 58.296 37.500 0.00 0.00 0.00 1.28
551 575 5.323382 TGATTACCACTTCCATGCCATAT 57.677 39.130 0.00 0.00 0.00 1.78
552 576 4.787135 TGATTACCACTTCCATGCCATA 57.213 40.909 0.00 0.00 0.00 2.74
553 577 3.668141 TGATTACCACTTCCATGCCAT 57.332 42.857 0.00 0.00 0.00 4.40
554 578 3.289836 CATGATTACCACTTCCATGCCA 58.710 45.455 0.00 0.00 0.00 4.92
555 579 3.996150 CATGATTACCACTTCCATGCC 57.004 47.619 0.00 0.00 0.00 4.40
557 581 5.335426 GCATAGCATGATTACCACTTCCATG 60.335 44.000 0.00 0.00 38.04 3.66
558 582 4.763793 GCATAGCATGATTACCACTTCCAT 59.236 41.667 0.00 0.00 0.00 3.41
559 583 4.136796 GCATAGCATGATTACCACTTCCA 58.863 43.478 0.00 0.00 0.00 3.53
560 584 4.392940 AGCATAGCATGATTACCACTTCC 58.607 43.478 0.00 0.00 0.00 3.46
561 585 6.875726 TCATAGCATAGCATGATTACCACTTC 59.124 38.462 0.00 0.00 0.00 3.01
562 586 6.772605 TCATAGCATAGCATGATTACCACTT 58.227 36.000 0.00 0.00 0.00 3.16
563 587 6.364568 TCATAGCATAGCATGATTACCACT 57.635 37.500 0.00 0.00 0.00 4.00
564 588 6.820152 TCATCATAGCATAGCATGATTACCAC 59.180 38.462 0.00 0.00 35.94 4.16
565 589 6.949715 TCATCATAGCATAGCATGATTACCA 58.050 36.000 0.00 0.00 35.94 3.25
566 590 7.713942 TGATCATCATAGCATAGCATGATTACC 59.286 37.037 0.00 1.30 34.90 2.85
567 591 8.658499 TGATCATCATAGCATAGCATGATTAC 57.342 34.615 0.00 8.35 34.90 1.89
568 592 9.847224 ATTGATCATCATAGCATAGCATGATTA 57.153 29.630 0.00 7.15 34.90 1.75
569 593 8.753497 ATTGATCATCATAGCATAGCATGATT 57.247 30.769 0.00 0.00 34.90 2.57
570 594 8.624776 CAATTGATCATCATAGCATAGCATGAT 58.375 33.333 0.00 0.00 36.50 2.45
571 595 7.610305 ACAATTGATCATCATAGCATAGCATGA 59.390 33.333 13.59 6.59 33.43 3.07
572 596 7.762382 ACAATTGATCATCATAGCATAGCATG 58.238 34.615 13.59 0.00 0.00 4.06
573 597 7.939784 ACAATTGATCATCATAGCATAGCAT 57.060 32.000 13.59 0.00 0.00 3.79
574 598 7.308951 CCAACAATTGATCATCATAGCATAGCA 60.309 37.037 13.59 0.00 0.00 3.49
602 668 0.325272 TGGCGCCAACCAACTATGTA 59.675 50.000 30.74 0.00 36.55 2.29
606 672 2.671619 GCTGGCGCCAACCAACTA 60.672 61.111 32.09 4.31 39.86 2.24
607 673 4.586235 AGCTGGCGCCAACCAACT 62.586 61.111 32.09 18.95 39.86 3.16
608 674 4.043200 GAGCTGGCGCCAACCAAC 62.043 66.667 32.09 16.95 39.86 3.77
637 707 3.069586 GGACAGGTTGAAAAGGGAAAAGG 59.930 47.826 0.00 0.00 0.00 3.11
638 711 3.243401 CGGACAGGTTGAAAAGGGAAAAG 60.243 47.826 0.00 0.00 0.00 2.27
724 797 7.718753 TGGCATTTTTATGGTGAAGATGTTTTT 59.281 29.630 0.00 0.00 0.00 1.94
725 798 7.222872 TGGCATTTTTATGGTGAAGATGTTTT 58.777 30.769 0.00 0.00 0.00 2.43
726 799 6.767456 TGGCATTTTTATGGTGAAGATGTTT 58.233 32.000 0.00 0.00 0.00 2.83
727 800 6.357579 TGGCATTTTTATGGTGAAGATGTT 57.642 33.333 0.00 0.00 0.00 2.71
728 801 5.999205 TGGCATTTTTATGGTGAAGATGT 57.001 34.783 0.00 0.00 0.00 3.06
729 802 7.670009 TTTTGGCATTTTTATGGTGAAGATG 57.330 32.000 0.00 0.00 0.00 2.90
749 822 4.508861 CCAAGTTGAACTCTGCCAATTTTG 59.491 41.667 3.87 0.00 0.00 2.44
839 946 5.641209 ACAGGTCAAAAATCAAGAGAGATCG 59.359 40.000 0.00 0.00 0.00 3.69
892 999 2.061773 CTCGTCACGATGAAGCAACTT 58.938 47.619 0.00 0.00 34.61 2.66
912 1019 1.718757 CTAATTGCTGTCCGGGCTGC 61.719 60.000 28.88 28.88 0.00 5.25
933 1040 5.809051 GGAAAGAAATGGACTGATTGATTGC 59.191 40.000 0.00 0.00 0.00 3.56
966 1074 3.429080 GAGAGAGCCGAGCTGCTGG 62.429 68.421 7.01 5.59 42.95 4.85
973 1081 0.107214 AGAGACCAGAGAGAGCCGAG 60.107 60.000 0.00 0.00 0.00 4.63
976 1084 1.675720 GGCAGAGACCAGAGAGAGCC 61.676 65.000 0.00 0.00 0.00 4.70
1190 1298 4.770362 TGGGGAGGTCGATGGCGA 62.770 66.667 0.00 0.00 45.71 5.54
1191 1299 4.530857 GTGGGGAGGTCGATGGCG 62.531 72.222 0.00 0.00 39.35 5.69
1192 1300 4.530857 CGTGGGGAGGTCGATGGC 62.531 72.222 0.00 0.00 0.00 4.40
1193 1301 2.573609 GAACGTGGGGAGGTCGATGG 62.574 65.000 0.00 0.00 0.00 3.51
1194 1302 1.153628 GAACGTGGGGAGGTCGATG 60.154 63.158 0.00 0.00 0.00 3.84
1195 1303 2.356780 GGAACGTGGGGAGGTCGAT 61.357 63.158 0.00 0.00 0.00 3.59
1461 1569 0.743688 TCAGATCAGAGAAGCTCGCC 59.256 55.000 0.00 0.00 35.36 5.54
1462 1570 2.396601 CATCAGATCAGAGAAGCTCGC 58.603 52.381 0.00 0.00 35.36 5.03
1471 1579 1.069636 CGATCGACGCATCAGATCAGA 60.070 52.381 10.26 0.00 40.39 3.27
1510 1618 0.944311 CGGAGGACAACACTTCACCG 60.944 60.000 0.00 0.00 0.00 4.94
1525 1633 1.026718 GCACCATTTCCTCACCGGAG 61.027 60.000 9.46 0.00 44.28 4.63
1599 1707 3.817787 TGCAGAGCATTCGCATCC 58.182 55.556 0.00 0.00 42.27 3.51
1616 1726 1.141881 CAGCCAGGACTTCGCGTAT 59.858 57.895 5.77 0.00 0.00 3.06
1627 1737 2.228103 CAGCATACATATTGCAGCCAGG 59.772 50.000 0.96 0.00 42.62 4.45
1645 1758 2.093972 TACAACGAAACAAACGCAGC 57.906 45.000 0.00 0.00 0.00 5.25
1650 1763 9.601971 ACAATACATACATACAACGAAACAAAC 57.398 29.630 0.00 0.00 0.00 2.93
1654 1767 9.365311 GCATACAATACATACATACAACGAAAC 57.635 33.333 0.00 0.00 0.00 2.78
1672 1785 9.650539 TTAAAGCAATTTGTGTATGCATACAAT 57.349 25.926 34.93 24.09 44.11 2.71
1673 1786 8.920665 GTTAAAGCAATTTGTGTATGCATACAA 58.079 29.630 34.93 22.96 44.11 2.41
1674 1787 7.272299 CGTTAAAGCAATTTGTGTATGCATACA 59.728 33.333 31.03 31.03 42.45 2.29
1675 1788 7.483375 TCGTTAAAGCAATTTGTGTATGCATAC 59.517 33.333 26.72 26.72 42.45 2.39
1676 1789 7.483375 GTCGTTAAAGCAATTTGTGTATGCATA 59.517 33.333 1.16 1.16 42.45 3.14
1677 1790 6.307800 GTCGTTAAAGCAATTTGTGTATGCAT 59.692 34.615 3.79 3.79 42.45 3.96
1678 1791 5.627367 GTCGTTAAAGCAATTTGTGTATGCA 59.373 36.000 0.00 0.00 42.45 3.96
1679 1792 5.219768 CGTCGTTAAAGCAATTTGTGTATGC 60.220 40.000 0.00 0.00 40.34 3.14
1743 1857 3.741476 CCAAGGAAGCAGCGCACC 61.741 66.667 11.47 4.77 0.00 5.01
1810 1924 4.428615 TGCTAAGTAAATTGAAACGGCC 57.571 40.909 0.00 0.00 0.00 6.13
1991 2697 8.597662 TCTTTCTTTATGTGTGGTACAGTAAC 57.402 34.615 0.00 0.00 43.80 2.50
2009 2715 9.765795 GTATGCATGTAGTATTACCTCTTTCTT 57.234 33.333 10.16 0.00 0.00 2.52
2060 2770 7.402071 ACTTCCCCACTCTTGTTAACTATATGA 59.598 37.037 7.22 0.00 0.00 2.15
2078 2788 2.509548 CACCATGGAAGATACTTCCCCA 59.490 50.000 21.47 10.21 37.79 4.96
2080 2790 4.200092 GTTCACCATGGAAGATACTTCCC 58.800 47.826 21.47 9.47 37.79 3.97
2098 2808 7.587037 AAGAAAATGAATGAAGTGAGGTTCA 57.413 32.000 0.00 0.00 40.68 3.18
2120 2830 8.003784 GCCAAATGAAGTTCGTAATTTTCAAAG 58.996 33.333 0.00 0.00 33.71 2.77
2122 2832 6.980978 TGCCAAATGAAGTTCGTAATTTTCAA 59.019 30.769 0.00 0.00 33.71 2.69
2125 2835 5.925969 CCTGCCAAATGAAGTTCGTAATTTT 59.074 36.000 0.00 0.00 0.00 1.82
2176 2886 2.356382 CACCACTTCTAGTCTAGCCTCG 59.644 54.545 1.60 0.00 0.00 4.63
2202 2912 4.625800 GCTGATGAAGAAGCCGGT 57.374 55.556 1.90 0.00 33.12 5.28
2217 2927 2.360350 CCTGCACATTCACCGGCT 60.360 61.111 0.00 0.00 0.00 5.52
2229 2939 1.369692 CTCCAACACGTACCCTGCA 59.630 57.895 0.00 0.00 0.00 4.41
2238 2948 1.429463 GACCAACTAGCTCCAACACG 58.571 55.000 0.00 0.00 0.00 4.49
2273 2987 1.077298 AAACCCCACCATCCCTTCCA 61.077 55.000 0.00 0.00 0.00 3.53
2274 2988 0.614697 CAAACCCCACCATCCCTTCC 60.615 60.000 0.00 0.00 0.00 3.46
2395 3124 3.074369 GGGCCAATTTGACGGGGG 61.074 66.667 4.39 0.00 0.00 5.40
2434 3163 4.926832 TCAAGCGAACAATACAATTCTCGA 59.073 37.500 0.00 0.00 0.00 4.04


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

AutoCloner maintained by Alex Coulton.