Multiple sequence alignment - TraesCS7B01G003500

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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 TraesCS7B01G003500 chr7B 100.000 2381 0 0 1 2381 1330541 1332921 0.000000e+00 4397.0
1 TraesCS7B01G003500 chr7B 86.023 880 85 15 794 1657 1364321 1365178 0.000000e+00 909.0
2 TraesCS7B01G003500 chr7B 91.304 92 7 1 713 804 1364121 1364211 8.940000e-25 124.0
3 TraesCS7B01G003500 chr5B 83.454 1656 216 32 695 2328 711328894 711327275 0.000000e+00 1487.0
4 TraesCS7B01G003500 chr5B 92.495 946 59 4 695 1640 711309033 711308100 0.000000e+00 1343.0
5 TraesCS7B01G003500 chr5B 93.364 648 37 1 1740 2381 711307770 711307123 0.000000e+00 953.0
6 TraesCS7B01G003500 chr5B 88.106 227 13 2 1 223 711329443 711329227 8.440000e-65 257.0
7 TraesCS7B01G003500 chr5B 91.026 78 7 0 828 905 711305717 711305640 3.240000e-19 106.0
8 TraesCS7B01G003500 chr4A 88.469 529 55 5 794 1317 606590894 606591421 3.340000e-178 634.0
9 TraesCS7B01G003500 chr4A 76.142 591 109 19 1515 2079 606591427 606592011 5.010000e-72 281.0
10 TraesCS7B01G003500 chr4A 94.690 113 6 0 692 804 606590677 606590789 2.430000e-40 176.0
11 TraesCS7B01G003500 chr4A 97.872 47 1 0 1867 1913 555807319 555807365 5.450000e-12 82.4
12 TraesCS7B01G003500 chr5D 90.196 51 5 0 243 293 9120329 9120379 1.530000e-07 67.6
13 TraesCS7B01G003500 chrUn 86.667 60 7 1 1634 1692 416282272 416282213 5.490000e-07 65.8


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7B01G003500 chr7B 1330541 1332921 2380 False 4397.000000 4397 100.000000 1 2381 1 chr7B.!!$F1 2380
1 TraesCS7B01G003500 chr7B 1364121 1365178 1057 False 516.500000 909 88.663500 713 1657 2 chr7B.!!$F2 944
2 TraesCS7B01G003500 chr5B 711327275 711329443 2168 True 872.000000 1487 85.780000 1 2328 2 chr5B.!!$R2 2327
3 TraesCS7B01G003500 chr5B 711305640 711309033 3393 True 800.666667 1343 92.295000 695 2381 3 chr5B.!!$R1 1686
4 TraesCS7B01G003500 chr4A 606590677 606592011 1334 False 363.666667 634 86.433667 692 2079 3 chr4A.!!$F2 1387

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
557 651 0.040067 CTCGCTTTGGTGCCAGTTTC 60.04 55.0 0.0 0.0 0.0 2.78 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1983 2676 0.034198 TCTGACCGCGACAAATCCAA 59.966 50.0 8.23 0.0 0.0 3.53 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
35 36 7.391554 TCCATTGAGGATTATAGCTATGTTTGC 59.608 37.037 16.77 6.20 43.07 3.68
61 66 7.331026 TGTTTGTTTGTTCCCATTTACAATCA 58.669 30.769 0.00 0.00 34.52 2.57
85 90 3.290308 ACGCTGCTATATACTGTGCTC 57.710 47.619 0.00 0.00 0.00 4.26
86 91 2.887783 ACGCTGCTATATACTGTGCTCT 59.112 45.455 0.00 0.00 0.00 4.09
96 101 7.492669 GCTATATACTGTGCTCTGTTTTCTTCA 59.507 37.037 3.58 0.00 0.00 3.02
105 110 5.007626 TGCTCTGTTTTCTTCATGTGTGTAC 59.992 40.000 0.00 0.00 0.00 2.90
119 124 5.574891 TGTGTGTACTTGAGCAAACAAAT 57.425 34.783 0.00 0.00 30.68 2.32
166 171 7.814264 AGTTTTCATCTTTCATGTCTTCTGT 57.186 32.000 0.00 0.00 0.00 3.41
167 172 7.646314 AGTTTTCATCTTTCATGTCTTCTGTG 58.354 34.615 0.00 0.00 0.00 3.66
168 173 7.500227 AGTTTTCATCTTTCATGTCTTCTGTGA 59.500 33.333 0.00 0.00 0.00 3.58
169 174 7.806409 TTTCATCTTTCATGTCTTCTGTGAA 57.194 32.000 0.00 0.00 0.00 3.18
170 175 7.806409 TTCATCTTTCATGTCTTCTGTGAAA 57.194 32.000 0.00 0.00 38.95 2.69
171 176 7.806409 TCATCTTTCATGTCTTCTGTGAAAA 57.194 32.000 0.00 0.00 40.23 2.29
184 189 7.604164 GTCTTCTGTGAAAATTCAGTCCATCTA 59.396 37.037 0.00 0.00 37.98 1.98
197 202 7.733773 TCAGTCCATCTAAGATGGTTTTCTA 57.266 36.000 2.61 0.00 40.06 2.10
215 220 4.326600 TCTACCCCTATATACGGTGCAT 57.673 45.455 6.92 0.00 0.00 3.96
219 224 4.161876 ACCCCTATATACGGTGCATTACA 58.838 43.478 0.00 0.00 0.00 2.41
223 228 6.071221 CCCCTATATACGGTGCATTACAGTTA 60.071 42.308 0.00 0.00 38.65 2.24
224 229 7.380536 CCCTATATACGGTGCATTACAGTTAA 58.619 38.462 0.00 0.00 38.65 2.01
226 231 9.431887 CCTATATACGGTGCATTACAGTTAATT 57.568 33.333 0.00 0.00 38.65 1.40
228 233 4.695217 ACGGTGCATTACAGTTAATTGG 57.305 40.909 2.81 0.00 33.79 3.16
230 235 4.155280 ACGGTGCATTACAGTTAATTGGAC 59.845 41.667 2.81 0.00 33.79 4.02
231 236 4.394920 CGGTGCATTACAGTTAATTGGACT 59.605 41.667 2.81 0.00 0.00 3.85
233 238 5.095490 GTGCATTACAGTTAATTGGACTGC 58.905 41.667 15.91 15.91 46.53 4.40
235 240 5.242615 TGCATTACAGTTAATTGGACTGCAA 59.757 36.000 21.12 14.24 46.53 4.08
237 242 6.644592 GCATTACAGTTAATTGGACTGCAAAA 59.355 34.615 17.33 12.79 46.53 2.44
238 243 7.170658 GCATTACAGTTAATTGGACTGCAAAAA 59.829 33.333 17.33 11.09 46.53 1.94
239 244 9.206870 CATTACAGTTAATTGGACTGCAAAAAT 57.793 29.630 18.35 12.29 46.53 1.82
241 246 7.713764 ACAGTTAATTGGACTGCAAAAATTC 57.286 32.000 18.35 0.00 46.53 2.17
250 344 5.296283 TGGACTGCAAAAATTCACCAAAATG 59.704 36.000 0.00 0.00 0.00 2.32
256 350 7.914465 TGCAAAAATTCACCAAAATGTAAGAC 58.086 30.769 0.00 0.00 0.00 3.01
265 359 5.289675 CACCAAAATGTAAGACGTTTTTGCA 59.710 36.000 13.03 10.07 42.72 4.08
266 360 5.518487 ACCAAAATGTAAGACGTTTTTGCAG 59.482 36.000 13.03 5.81 42.72 4.41
270 364 3.930618 TGTAAGACGTTTTTGCAGTTCG 58.069 40.909 0.00 0.00 0.00 3.95
281 375 4.742438 TTTGCAGTTCGAATTGGACTAC 57.258 40.909 20.52 5.68 0.00 2.73
288 382 5.619607 CAGTTCGAATTGGACTACAAAAACG 59.380 40.000 12.50 0.00 43.46 3.60
292 386 5.524646 TCGAATTGGACTACAAAAACGTCTT 59.475 36.000 0.00 0.00 43.46 3.01
293 387 6.700960 TCGAATTGGACTACAAAAACGTCTTA 59.299 34.615 0.00 0.00 43.46 2.10
294 388 7.385752 TCGAATTGGACTACAAAAACGTCTTAT 59.614 33.333 0.00 0.00 43.46 1.73
295 389 8.649841 CGAATTGGACTACAAAAACGTCTTATA 58.350 33.333 0.00 0.00 43.46 0.98
353 447 9.840690 TTATTATTTAGGGTTTAGGGTTTTGGT 57.159 29.630 0.00 0.00 0.00 3.67
354 448 7.779754 TTATTTAGGGTTTAGGGTTTTGGTC 57.220 36.000 0.00 0.00 0.00 4.02
355 449 2.688902 AGGGTTTAGGGTTTTGGTCC 57.311 50.000 0.00 0.00 0.00 4.46
356 450 1.202964 AGGGTTTAGGGTTTTGGTCCG 60.203 52.381 0.00 0.00 0.00 4.79
357 451 1.202915 GGGTTTAGGGTTTTGGTCCGA 60.203 52.381 0.00 0.00 0.00 4.55
358 452 2.156917 GGTTTAGGGTTTTGGTCCGAG 58.843 52.381 0.00 0.00 0.00 4.63
359 453 2.224597 GGTTTAGGGTTTTGGTCCGAGA 60.225 50.000 0.00 0.00 0.00 4.04
360 454 3.560668 GGTTTAGGGTTTTGGTCCGAGAT 60.561 47.826 0.00 0.00 0.00 2.75
361 455 4.323715 GGTTTAGGGTTTTGGTCCGAGATA 60.324 45.833 0.00 0.00 0.00 1.98
362 456 5.247862 GTTTAGGGTTTTGGTCCGAGATAA 58.752 41.667 0.00 0.00 0.00 1.75
363 457 5.502089 TTAGGGTTTTGGTCCGAGATAAA 57.498 39.130 0.00 0.00 0.00 1.40
364 458 4.586306 AGGGTTTTGGTCCGAGATAAAT 57.414 40.909 0.00 0.00 0.00 1.40
365 459 4.524053 AGGGTTTTGGTCCGAGATAAATC 58.476 43.478 0.00 0.00 0.00 2.17
366 460 4.227527 AGGGTTTTGGTCCGAGATAAATCT 59.772 41.667 0.00 0.00 40.50 2.40
380 474 5.174395 AGATAAATCTCTCTGTGTGTGTGC 58.826 41.667 0.00 0.00 29.30 4.57
381 475 3.482156 AAATCTCTCTGTGTGTGTGCT 57.518 42.857 0.00 0.00 0.00 4.40
382 476 2.739885 ATCTCTCTGTGTGTGTGCTC 57.260 50.000 0.00 0.00 0.00 4.26
383 477 1.697284 TCTCTCTGTGTGTGTGCTCT 58.303 50.000 0.00 0.00 0.00 4.09
384 478 2.034878 TCTCTCTGTGTGTGTGCTCTT 58.965 47.619 0.00 0.00 0.00 2.85
385 479 3.222603 TCTCTCTGTGTGTGTGCTCTTA 58.777 45.455 0.00 0.00 0.00 2.10
386 480 3.829026 TCTCTCTGTGTGTGTGCTCTTAT 59.171 43.478 0.00 0.00 0.00 1.73
387 481 5.010282 TCTCTCTGTGTGTGTGCTCTTATA 58.990 41.667 0.00 0.00 0.00 0.98
388 482 5.654209 TCTCTCTGTGTGTGTGCTCTTATAT 59.346 40.000 0.00 0.00 0.00 0.86
389 483 5.654497 TCTCTGTGTGTGTGCTCTTATATG 58.346 41.667 0.00 0.00 0.00 1.78
390 484 5.418840 TCTCTGTGTGTGTGCTCTTATATGA 59.581 40.000 0.00 0.00 0.00 2.15
391 485 6.097412 TCTCTGTGTGTGTGCTCTTATATGAT 59.903 38.462 0.00 0.00 0.00 2.45
392 486 6.643388 TCTGTGTGTGTGCTCTTATATGATT 58.357 36.000 0.00 0.00 0.00 2.57
393 487 7.781056 TCTGTGTGTGTGCTCTTATATGATTA 58.219 34.615 0.00 0.00 0.00 1.75
394 488 8.424133 TCTGTGTGTGTGCTCTTATATGATTAT 58.576 33.333 0.00 0.00 0.00 1.28
395 489 8.962884 TGTGTGTGTGCTCTTATATGATTATT 57.037 30.769 0.00 0.00 0.00 1.40
443 537 4.363138 GAATGATCCATTCCTTTTTCCGC 58.637 43.478 8.13 0.00 42.90 5.54
444 538 3.085952 TGATCCATTCCTTTTTCCGCT 57.914 42.857 0.00 0.00 0.00 5.52
445 539 3.430453 TGATCCATTCCTTTTTCCGCTT 58.570 40.909 0.00 0.00 0.00 4.68
446 540 3.443681 TGATCCATTCCTTTTTCCGCTTC 59.556 43.478 0.00 0.00 0.00 3.86
447 541 2.870175 TCCATTCCTTTTTCCGCTTCA 58.130 42.857 0.00 0.00 0.00 3.02
448 542 3.226777 TCCATTCCTTTTTCCGCTTCAA 58.773 40.909 0.00 0.00 0.00 2.69
449 543 3.639094 TCCATTCCTTTTTCCGCTTCAAA 59.361 39.130 0.00 0.00 0.00 2.69
450 544 4.283212 TCCATTCCTTTTTCCGCTTCAAAT 59.717 37.500 0.00 0.00 0.00 2.32
451 545 4.627035 CCATTCCTTTTTCCGCTTCAAATC 59.373 41.667 0.00 0.00 0.00 2.17
452 546 5.473039 CATTCCTTTTTCCGCTTCAAATCT 58.527 37.500 0.00 0.00 0.00 2.40
453 547 4.503741 TCCTTTTTCCGCTTCAAATCTG 57.496 40.909 0.00 0.00 0.00 2.90
454 548 4.141287 TCCTTTTTCCGCTTCAAATCTGA 58.859 39.130 0.00 0.00 0.00 3.27
455 549 4.023193 TCCTTTTTCCGCTTCAAATCTGAC 60.023 41.667 0.00 0.00 0.00 3.51
456 550 4.261572 CCTTTTTCCGCTTCAAATCTGACA 60.262 41.667 0.00 0.00 0.00 3.58
457 551 5.452078 TTTTTCCGCTTCAAATCTGACAT 57.548 34.783 0.00 0.00 0.00 3.06
458 552 4.424061 TTTCCGCTTCAAATCTGACATG 57.576 40.909 0.00 0.00 0.00 3.21
459 553 2.358957 TCCGCTTCAAATCTGACATGG 58.641 47.619 0.00 0.00 0.00 3.66
460 554 1.202222 CCGCTTCAAATCTGACATGGC 60.202 52.381 0.00 0.00 0.00 4.40
461 555 1.469703 CGCTTCAAATCTGACATGGCA 59.530 47.619 0.00 0.00 0.00 4.92
462 556 2.095110 CGCTTCAAATCTGACATGGCAA 60.095 45.455 1.11 0.00 0.00 4.52
463 557 3.428452 CGCTTCAAATCTGACATGGCAAT 60.428 43.478 1.11 0.00 0.00 3.56
464 558 3.863424 GCTTCAAATCTGACATGGCAATG 59.137 43.478 1.11 0.00 39.89 2.82
465 559 3.513680 TCAAATCTGACATGGCAATGC 57.486 42.857 1.11 0.00 37.29 3.56
466 560 3.093814 TCAAATCTGACATGGCAATGCT 58.906 40.909 1.11 0.00 37.29 3.79
467 561 3.512329 TCAAATCTGACATGGCAATGCTT 59.488 39.130 1.11 0.00 37.29 3.91
468 562 4.020928 TCAAATCTGACATGGCAATGCTTT 60.021 37.500 1.11 0.00 37.29 3.51
469 563 3.795623 ATCTGACATGGCAATGCTTTC 57.204 42.857 1.11 0.00 37.29 2.62
470 564 2.516906 TCTGACATGGCAATGCTTTCA 58.483 42.857 1.11 0.00 37.29 2.69
471 565 3.093814 TCTGACATGGCAATGCTTTCAT 58.906 40.909 1.11 0.00 37.29 2.57
472 566 3.119280 TCTGACATGGCAATGCTTTCATG 60.119 43.478 17.28 17.28 41.74 3.07
474 568 3.007074 TGACATGGCAATGCTTTCATGTT 59.993 39.130 22.65 11.53 46.73 2.71
475 569 3.998341 GACATGGCAATGCTTTCATGTTT 59.002 39.130 22.65 7.58 46.73 2.83
476 570 3.998341 ACATGGCAATGCTTTCATGTTTC 59.002 39.130 18.34 0.00 45.19 2.78
477 571 3.747854 TGGCAATGCTTTCATGTTTCA 57.252 38.095 4.82 0.00 32.23 2.69
478 572 4.069300 TGGCAATGCTTTCATGTTTCAA 57.931 36.364 4.82 0.00 32.23 2.69
479 573 4.059511 TGGCAATGCTTTCATGTTTCAAG 58.940 39.130 4.82 0.00 32.23 3.02
480 574 3.120442 GGCAATGCTTTCATGTTTCAAGC 60.120 43.478 4.82 12.03 42.81 4.01
484 578 3.708890 TGCTTTCATGTTTCAAGCAGTG 58.291 40.909 15.58 0.00 46.22 3.66
485 579 3.130869 TGCTTTCATGTTTCAAGCAGTGT 59.869 39.130 15.58 0.00 46.22 3.55
486 580 4.337836 TGCTTTCATGTTTCAAGCAGTGTA 59.662 37.500 15.58 0.24 46.22 2.90
487 581 5.009911 TGCTTTCATGTTTCAAGCAGTGTAT 59.990 36.000 15.58 0.00 46.22 2.29
488 582 6.206438 TGCTTTCATGTTTCAAGCAGTGTATA 59.794 34.615 15.58 0.00 46.22 1.47
489 583 7.094248 TGCTTTCATGTTTCAAGCAGTGTATAT 60.094 33.333 15.58 0.00 46.22 0.86
490 584 7.756722 GCTTTCATGTTTCAAGCAGTGTATATT 59.243 33.333 13.30 0.00 42.18 1.28
491 585 9.282247 CTTTCATGTTTCAAGCAGTGTATATTC 57.718 33.333 0.00 0.00 0.00 1.75
492 586 7.920160 TCATGTTTCAAGCAGTGTATATTCA 57.080 32.000 0.00 0.00 0.00 2.57
493 587 8.510243 TCATGTTTCAAGCAGTGTATATTCAT 57.490 30.769 0.00 0.00 0.00 2.57
494 588 8.615211 TCATGTTTCAAGCAGTGTATATTCATC 58.385 33.333 0.00 0.00 0.00 2.92
495 589 8.618677 CATGTTTCAAGCAGTGTATATTCATCT 58.381 33.333 0.00 0.00 0.00 2.90
496 590 8.565896 TGTTTCAAGCAGTGTATATTCATCTT 57.434 30.769 0.00 0.00 0.00 2.40
497 591 8.668353 TGTTTCAAGCAGTGTATATTCATCTTC 58.332 33.333 0.00 0.00 0.00 2.87
498 592 8.668353 GTTTCAAGCAGTGTATATTCATCTTCA 58.332 33.333 0.00 0.00 0.00 3.02
499 593 8.791327 TTCAAGCAGTGTATATTCATCTTCAA 57.209 30.769 0.00 0.00 0.00 2.69
500 594 8.791327 TCAAGCAGTGTATATTCATCTTCAAA 57.209 30.769 0.00 0.00 0.00 2.69
501 595 9.399797 TCAAGCAGTGTATATTCATCTTCAAAT 57.600 29.630 0.00 0.00 0.00 2.32
521 615 8.853077 TCAAATATGAAGGATACCATCACATC 57.147 34.615 0.00 0.00 35.96 3.06
522 616 8.663167 TCAAATATGAAGGATACCATCACATCT 58.337 33.333 0.00 0.00 35.96 2.90
523 617 8.727910 CAAATATGAAGGATACCATCACATCTG 58.272 37.037 0.00 0.00 35.96 2.90
524 618 7.803487 ATATGAAGGATACCATCACATCTGA 57.197 36.000 0.00 0.00 35.96 3.27
525 619 5.955961 TGAAGGATACCATCACATCTGAA 57.044 39.130 0.00 0.00 37.17 3.02
526 620 6.312141 TGAAGGATACCATCACATCTGAAA 57.688 37.500 0.00 0.00 37.17 2.69
527 621 6.720309 TGAAGGATACCATCACATCTGAAAA 58.280 36.000 0.00 0.00 37.17 2.29
528 622 7.348815 TGAAGGATACCATCACATCTGAAAAT 58.651 34.615 0.00 0.00 37.17 1.82
529 623 8.493607 TGAAGGATACCATCACATCTGAAAATA 58.506 33.333 0.00 0.00 37.17 1.40
530 624 9.342308 GAAGGATACCATCACATCTGAAAATAA 57.658 33.333 0.00 0.00 37.17 1.40
531 625 9.872684 AAGGATACCATCACATCTGAAAATAAT 57.127 29.630 0.00 0.00 37.17 1.28
532 626 9.512588 AGGATACCATCACATCTGAAAATAATC 57.487 33.333 0.00 0.00 37.17 1.75
533 627 9.512588 GGATACCATCACATCTGAAAATAATCT 57.487 33.333 0.00 0.00 0.00 2.40
537 631 9.775854 ACCATCACATCTGAAAATAATCTCTAG 57.224 33.333 0.00 0.00 0.00 2.43
538 632 8.719648 CCATCACATCTGAAAATAATCTCTAGC 58.280 37.037 0.00 0.00 0.00 3.42
539 633 9.491675 CATCACATCTGAAAATAATCTCTAGCT 57.508 33.333 0.00 0.00 0.00 3.32
540 634 9.709495 ATCACATCTGAAAATAATCTCTAGCTC 57.291 33.333 0.00 0.00 0.00 4.09
541 635 7.864882 TCACATCTGAAAATAATCTCTAGCTCG 59.135 37.037 0.00 0.00 0.00 5.03
542 636 6.644592 ACATCTGAAAATAATCTCTAGCTCGC 59.355 38.462 0.00 0.00 0.00 5.03
543 637 6.398234 TCTGAAAATAATCTCTAGCTCGCT 57.602 37.500 0.00 0.00 0.00 4.93
544 638 6.810911 TCTGAAAATAATCTCTAGCTCGCTT 58.189 36.000 0.00 0.00 0.00 4.68
545 639 7.268586 TCTGAAAATAATCTCTAGCTCGCTTT 58.731 34.615 0.00 0.00 0.00 3.51
546 640 7.223582 TCTGAAAATAATCTCTAGCTCGCTTTG 59.776 37.037 0.00 0.00 0.00 2.77
547 641 6.258727 TGAAAATAATCTCTAGCTCGCTTTGG 59.741 38.462 0.00 0.00 0.00 3.28
548 642 4.946478 ATAATCTCTAGCTCGCTTTGGT 57.054 40.909 0.00 0.00 0.00 3.67
549 643 2.593346 ATCTCTAGCTCGCTTTGGTG 57.407 50.000 0.00 0.00 0.00 4.17
550 644 0.108615 TCTCTAGCTCGCTTTGGTGC 60.109 55.000 0.00 0.00 0.00 5.01
551 645 1.079127 TCTAGCTCGCTTTGGTGCC 60.079 57.895 0.00 0.00 0.00 5.01
552 646 1.375908 CTAGCTCGCTTTGGTGCCA 60.376 57.895 0.00 0.00 0.00 4.92
553 647 1.364626 CTAGCTCGCTTTGGTGCCAG 61.365 60.000 0.00 0.00 0.00 4.85
554 648 2.111999 TAGCTCGCTTTGGTGCCAGT 62.112 55.000 0.00 0.00 0.00 4.00
555 649 2.555547 GCTCGCTTTGGTGCCAGTT 61.556 57.895 0.00 0.00 0.00 3.16
556 650 2.032981 CTCGCTTTGGTGCCAGTTT 58.967 52.632 0.00 0.00 0.00 2.66
557 651 0.040067 CTCGCTTTGGTGCCAGTTTC 60.040 55.000 0.00 0.00 0.00 2.78
558 652 0.465460 TCGCTTTGGTGCCAGTTTCT 60.465 50.000 0.00 0.00 0.00 2.52
559 653 0.040067 CGCTTTGGTGCCAGTTTCTC 60.040 55.000 0.00 0.00 0.00 2.87
560 654 0.040067 GCTTTGGTGCCAGTTTCTCG 60.040 55.000 0.00 0.00 0.00 4.04
561 655 1.593196 CTTTGGTGCCAGTTTCTCGA 58.407 50.000 0.00 0.00 0.00 4.04
562 656 2.154462 CTTTGGTGCCAGTTTCTCGAT 58.846 47.619 0.00 0.00 0.00 3.59
563 657 1.808411 TTGGTGCCAGTTTCTCGATC 58.192 50.000 0.00 0.00 0.00 3.69
564 658 0.389817 TGGTGCCAGTTTCTCGATCG 60.390 55.000 9.36 9.36 0.00 3.69
565 659 0.108804 GGTGCCAGTTTCTCGATCGA 60.109 55.000 18.32 18.32 0.00 3.59
566 660 0.992802 GTGCCAGTTTCTCGATCGAC 59.007 55.000 15.15 5.01 0.00 4.20
567 661 0.888619 TGCCAGTTTCTCGATCGACT 59.111 50.000 15.15 7.60 0.00 4.18
568 662 1.272781 GCCAGTTTCTCGATCGACTG 58.727 55.000 21.52 21.52 39.29 3.51
570 664 2.921634 CAGTTTCTCGATCGACTGGA 57.078 50.000 20.99 12.71 36.68 3.86
571 665 2.791567 CAGTTTCTCGATCGACTGGAG 58.208 52.381 20.99 10.13 36.68 3.86
572 666 1.133407 AGTTTCTCGATCGACTGGAGC 59.867 52.381 15.15 2.33 30.27 4.70
573 667 1.135373 GTTTCTCGATCGACTGGAGCA 60.135 52.381 15.15 0.00 30.27 4.26
574 668 0.735471 TTCTCGATCGACTGGAGCAG 59.265 55.000 15.15 1.73 37.52 4.24
575 669 1.299014 CTCGATCGACTGGAGCAGC 60.299 63.158 15.15 0.00 34.37 5.25
576 670 2.279120 CGATCGACTGGAGCAGCC 60.279 66.667 10.26 0.00 34.37 4.85
577 671 2.279120 GATCGACTGGAGCAGCCG 60.279 66.667 0.00 0.00 38.62 5.52
578 672 4.521062 ATCGACTGGAGCAGCCGC 62.521 66.667 0.00 0.00 37.28 6.53
596 690 3.746949 CTGCTCCCGCCTGTGGATC 62.747 68.421 0.00 0.00 34.43 3.36
597 691 3.474570 GCTCCCGCCTGTGGATCT 61.475 66.667 0.00 0.00 0.00 2.75
598 692 2.818132 CTCCCGCCTGTGGATCTC 59.182 66.667 0.00 0.00 0.00 2.75
599 693 1.760086 CTCCCGCCTGTGGATCTCT 60.760 63.158 0.00 0.00 0.00 3.10
600 694 0.468214 CTCCCGCCTGTGGATCTCTA 60.468 60.000 0.00 0.00 0.00 2.43
601 695 0.755698 TCCCGCCTGTGGATCTCTAC 60.756 60.000 0.00 0.00 0.00 2.59
602 696 0.757188 CCCGCCTGTGGATCTCTACT 60.757 60.000 0.00 0.00 0.00 2.57
604 698 0.671251 CGCCTGTGGATCTCTACTCC 59.329 60.000 0.00 0.00 0.00 3.85
605 699 0.671251 GCCTGTGGATCTCTACTCCG 59.329 60.000 0.00 0.00 35.41 4.63
606 700 0.671251 CCTGTGGATCTCTACTCCGC 59.329 60.000 0.00 0.00 42.47 5.54
607 701 0.309302 CTGTGGATCTCTACTCCGCG 59.691 60.000 0.00 0.00 44.58 6.46
608 702 1.008309 GTGGATCTCTACTCCGCGC 60.008 63.158 0.00 0.00 35.41 6.86
609 703 2.194212 TGGATCTCTACTCCGCGCC 61.194 63.158 0.00 0.00 35.41 6.53
610 704 2.194212 GGATCTCTACTCCGCGCCA 61.194 63.158 0.00 0.00 0.00 5.69
611 705 1.008309 GATCTCTACTCCGCGCCAC 60.008 63.158 0.00 0.00 0.00 5.01
612 706 2.409241 GATCTCTACTCCGCGCCACC 62.409 65.000 0.00 0.00 0.00 4.61
613 707 3.449227 CTCTACTCCGCGCCACCA 61.449 66.667 0.00 0.00 0.00 4.17
615 709 2.509336 CTACTCCGCGCCACCAAG 60.509 66.667 0.00 0.00 0.00 3.61
616 710 3.296709 CTACTCCGCGCCACCAAGT 62.297 63.158 0.00 0.71 0.00 3.16
636 777 4.803426 CCGGTCTGCTCCAGCGAC 62.803 72.222 12.35 12.35 45.83 5.19
661 802 4.794648 CGGCGGCAATGGGAGGAA 62.795 66.667 10.53 0.00 0.00 3.36
662 803 3.140814 GGCGGCAATGGGAGGAAC 61.141 66.667 3.07 0.00 0.00 3.62
664 805 2.409870 GCGGCAATGGGAGGAACTG 61.410 63.158 0.00 0.00 41.55 3.16
665 806 1.750399 CGGCAATGGGAGGAACTGG 60.750 63.158 0.00 0.00 41.55 4.00
666 807 2.054453 GGCAATGGGAGGAACTGGC 61.054 63.158 0.00 0.00 41.55 4.85
667 808 2.409870 GCAATGGGAGGAACTGGCG 61.410 63.158 0.00 0.00 41.55 5.69
668 809 1.750399 CAATGGGAGGAACTGGCGG 60.750 63.158 0.00 0.00 41.55 6.13
669 810 3.645268 AATGGGAGGAACTGGCGGC 62.645 63.158 0.00 0.00 41.55 6.53
686 827 3.121030 CCGCGCTTGAGGTTGAGG 61.121 66.667 5.56 0.00 0.00 3.86
692 833 0.676151 GCTTGAGGTTGAGGCTGAGG 60.676 60.000 0.00 0.00 0.00 3.86
750 939 4.766375 TCGGTGGGAATGTAGAAATTCTC 58.234 43.478 0.00 0.00 37.52 2.87
751 940 4.469945 TCGGTGGGAATGTAGAAATTCTCT 59.530 41.667 0.00 0.00 37.82 3.10
752 941 4.811557 CGGTGGGAATGTAGAAATTCTCTC 59.188 45.833 0.00 0.00 37.82 3.20
828 1250 3.601435 TCGTCTCACCAAAACAAGTCAA 58.399 40.909 0.00 0.00 0.00 3.18
906 1329 5.474876 CCTATAAATTGATGCTTCCCAGTCC 59.525 44.000 0.00 0.00 0.00 3.85
937 1363 3.244078 ACCAACATCGACTTGCTTGTCTA 60.244 43.478 0.00 0.00 35.00 2.59
963 1394 1.411394 CGCAGCAACCAAACATCAAG 58.589 50.000 0.00 0.00 0.00 3.02
997 1430 1.142965 GCCACCACCAACACCAAAC 59.857 57.895 0.00 0.00 0.00 2.93
1054 1487 1.690633 CTCCTGGCCCTGGCTTCTA 60.691 63.158 8.29 0.00 41.60 2.10
1059 1492 0.918799 TGGCCCTGGCTTCTATCCAA 60.919 55.000 8.29 0.00 41.60 3.53
1065 1498 2.628657 GCTTCTATCCAAGCGCGC 59.371 61.111 26.66 26.66 39.55 6.86
1101 1534 3.799286 TTCACCGGCAATGGCACCA 62.799 57.895 7.75 0.00 43.71 4.17
1107 1540 4.424566 GCAATGGCACCAGCACCG 62.425 66.667 0.00 0.00 44.61 4.94
1144 1577 0.103755 TTGCACTTTGAATGGCGCAA 59.896 45.000 10.83 0.00 37.05 4.85
1259 1698 1.669115 CCGACTGTCTGTGCTTGGG 60.669 63.158 6.21 0.00 0.00 4.12
1287 1726 4.265056 GGTGGTGGCCTTGTCGGT 62.265 66.667 3.32 0.00 34.25 4.69
1350 1795 3.804329 GCCCGCATCCCCAACCTA 61.804 66.667 0.00 0.00 0.00 3.08
1422 1867 1.654954 GCTCAATGAGTGCTGGCTGG 61.655 60.000 12.29 0.00 34.02 4.85
1518 1963 7.443302 AATCTGCCATACTAGCCATATGTAT 57.557 36.000 1.24 0.00 0.00 2.29
1646 2094 9.909644 AGTAAGTATTTATAGCATCTACAACCG 57.090 33.333 0.00 0.00 0.00 4.44
1649 2097 7.214381 AGTATTTATAGCATCTACAACCGCAA 58.786 34.615 0.00 0.00 0.00 4.85
1653 2101 2.436417 AGCATCTACAACCGCAAACAT 58.564 42.857 0.00 0.00 0.00 2.71
1663 2111 3.025287 ACCGCAAACATCAAAATCCAC 57.975 42.857 0.00 0.00 0.00 4.02
1669 2118 2.236489 ACATCAAAATCCACCCCCAG 57.764 50.000 0.00 0.00 0.00 4.45
1674 2123 2.075355 AAAATCCACCCCCAGACGCA 62.075 55.000 0.00 0.00 0.00 5.24
1703 2152 4.622456 CCGGGCGCACACACAAAC 62.622 66.667 11.77 0.00 0.00 2.93
1722 2180 2.201732 ACAGTGATCGACAACACACAC 58.798 47.619 17.22 0.00 39.18 3.82
1734 2192 5.514559 CGACAACACACACAAAATTGATTCA 59.485 36.000 0.00 0.00 0.00 2.57
1815 2502 3.645975 CAACGCGTTTGGCTCCGT 61.646 61.111 24.21 0.00 40.44 4.69
1983 2676 0.874390 GGTGCACGTGATGTCAATGT 59.126 50.000 22.23 0.00 0.00 2.71
2020 2713 3.134623 TCAGAGCCGATGACATAAACCAT 59.865 43.478 0.00 0.00 0.00 3.55
2021 2714 3.879295 CAGAGCCGATGACATAAACCATT 59.121 43.478 0.00 0.00 0.00 3.16
2104 2797 3.361977 GCCAACGTCCACCGCAAT 61.362 61.111 0.00 0.00 41.42 3.56
2165 2858 2.847959 CATGTCGTGCCATATTTGCA 57.152 45.000 0.00 0.00 36.12 4.08
2172 2865 2.877786 CGTGCCATATTTGCATAGGACA 59.122 45.455 0.33 0.00 41.46 4.02
2209 2902 5.423290 TCACTTCTGCCTCAGATGAAGATTA 59.577 40.000 14.16 0.00 40.39 1.75
2314 3007 8.870075 ACCTTTTTACTATTTCTTGCAGATCT 57.130 30.769 0.00 0.00 0.00 2.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
61 66 4.218635 AGCACAGTATATAGCAGCGTACAT 59.781 41.667 0.00 0.00 0.00 2.29
85 90 7.015226 TCAAGTACACACATGAAGAAAACAG 57.985 36.000 0.00 0.00 29.80 3.16
86 91 6.458206 GCTCAAGTACACACATGAAGAAAACA 60.458 38.462 0.00 0.00 32.35 2.83
96 101 5.574891 TTTGTTTGCTCAAGTACACACAT 57.425 34.783 0.00 0.00 0.00 3.21
105 110 6.675026 TCTCTCATCAATTTGTTTGCTCAAG 58.325 36.000 0.00 0.00 35.16 3.02
141 146 8.777413 CACAGAAGACATGAAAGATGAAAACTA 58.223 33.333 0.00 0.00 0.00 2.24
162 167 7.679783 TCTTAGATGGACTGAATTTTCACAGA 58.320 34.615 0.00 0.00 37.54 3.41
163 168 7.912056 TCTTAGATGGACTGAATTTTCACAG 57.088 36.000 0.00 0.00 39.65 3.66
164 169 7.337689 CCATCTTAGATGGACTGAATTTTCACA 59.662 37.037 31.57 0.00 41.64 3.58
165 170 7.337942 ACCATCTTAGATGGACTGAATTTTCAC 59.662 37.037 38.67 0.00 41.64 3.18
166 171 7.405292 ACCATCTTAGATGGACTGAATTTTCA 58.595 34.615 38.67 0.00 41.64 2.69
167 172 7.872113 ACCATCTTAGATGGACTGAATTTTC 57.128 36.000 38.67 0.00 41.64 2.29
168 173 8.655935 AAACCATCTTAGATGGACTGAATTTT 57.344 30.769 38.67 25.55 41.64 1.82
169 174 8.655935 AAAACCATCTTAGATGGACTGAATTT 57.344 30.769 38.67 26.13 41.64 1.82
170 175 8.112183 AGAAAACCATCTTAGATGGACTGAATT 58.888 33.333 38.67 22.68 41.64 2.17
171 176 7.637511 AGAAAACCATCTTAGATGGACTGAAT 58.362 34.615 38.67 21.45 41.64 2.57
197 202 4.161876 TGTAATGCACCGTATATAGGGGT 58.838 43.478 22.27 11.92 35.61 4.95
199 204 5.401531 ACTGTAATGCACCGTATATAGGG 57.598 43.478 17.99 17.99 37.27 3.53
215 220 9.255304 GAATTTTTGCAGTCCAATTAACTGTAA 57.745 29.630 15.21 15.21 44.22 2.41
219 224 6.705825 GGTGAATTTTTGCAGTCCAATTAACT 59.294 34.615 8.34 0.00 32.49 2.24
223 228 5.033589 TGGTGAATTTTTGCAGTCCAATT 57.966 34.783 0.00 0.00 32.49 2.32
224 229 4.686191 TGGTGAATTTTTGCAGTCCAAT 57.314 36.364 0.00 0.00 32.49 3.16
226 231 4.478206 TTTGGTGAATTTTTGCAGTCCA 57.522 36.364 0.00 0.00 0.00 4.02
228 233 6.362210 ACATTTTGGTGAATTTTTGCAGTC 57.638 33.333 0.00 0.00 0.00 3.51
230 235 8.063630 GTCTTACATTTTGGTGAATTTTTGCAG 58.936 33.333 0.00 0.00 0.00 4.41
231 236 7.254252 CGTCTTACATTTTGGTGAATTTTTGCA 60.254 33.333 0.00 0.00 0.00 4.08
232 237 7.062848 CGTCTTACATTTTGGTGAATTTTTGC 58.937 34.615 0.00 0.00 0.00 3.68
233 238 8.125728 ACGTCTTACATTTTGGTGAATTTTTG 57.874 30.769 0.00 0.00 0.00 2.44
235 240 8.710835 AAACGTCTTACATTTTGGTGAATTTT 57.289 26.923 0.00 0.00 0.00 1.82
237 242 8.599774 CAAAAACGTCTTACATTTTGGTGAATT 58.400 29.630 11.33 0.00 38.47 2.17
238 243 7.254286 GCAAAAACGTCTTACATTTTGGTGAAT 60.254 33.333 17.78 0.00 41.02 2.57
239 244 6.035112 GCAAAAACGTCTTACATTTTGGTGAA 59.965 34.615 17.78 0.00 41.02 3.18
241 246 5.289675 TGCAAAAACGTCTTACATTTTGGTG 59.710 36.000 17.78 0.40 41.02 4.17
250 344 4.186241 TCGAACTGCAAAAACGTCTTAC 57.814 40.909 0.00 0.00 0.00 2.34
256 350 3.179599 GTCCAATTCGAACTGCAAAAACG 59.820 43.478 0.00 0.00 0.00 3.60
265 359 5.295045 ACGTTTTTGTAGTCCAATTCGAACT 59.705 36.000 0.00 0.00 31.81 3.01
266 360 5.504392 ACGTTTTTGTAGTCCAATTCGAAC 58.496 37.500 0.00 0.00 31.81 3.95
327 421 9.840690 ACCAAAACCCTAAACCCTAAATAATAA 57.159 29.630 0.00 0.00 0.00 1.40
328 422 9.478238 GACCAAAACCCTAAACCCTAAATAATA 57.522 33.333 0.00 0.00 0.00 0.98
329 423 7.400915 GGACCAAAACCCTAAACCCTAAATAAT 59.599 37.037 0.00 0.00 0.00 1.28
330 424 6.725369 GGACCAAAACCCTAAACCCTAAATAA 59.275 38.462 0.00 0.00 0.00 1.40
331 425 6.255287 GGACCAAAACCCTAAACCCTAAATA 58.745 40.000 0.00 0.00 0.00 1.40
332 426 5.088730 GGACCAAAACCCTAAACCCTAAAT 58.911 41.667 0.00 0.00 0.00 1.40
333 427 4.482030 GGACCAAAACCCTAAACCCTAAA 58.518 43.478 0.00 0.00 0.00 1.85
334 428 3.498301 CGGACCAAAACCCTAAACCCTAA 60.498 47.826 0.00 0.00 0.00 2.69
335 429 2.040145 CGGACCAAAACCCTAAACCCTA 59.960 50.000 0.00 0.00 0.00 3.53
336 430 1.202964 CGGACCAAAACCCTAAACCCT 60.203 52.381 0.00 0.00 0.00 4.34
337 431 1.202915 TCGGACCAAAACCCTAAACCC 60.203 52.381 0.00 0.00 0.00 4.11
338 432 2.156917 CTCGGACCAAAACCCTAAACC 58.843 52.381 0.00 0.00 0.00 3.27
339 433 3.130280 TCTCGGACCAAAACCCTAAAC 57.870 47.619 0.00 0.00 0.00 2.01
340 434 5.502089 TTATCTCGGACCAAAACCCTAAA 57.498 39.130 0.00 0.00 0.00 1.85
341 435 5.502089 TTTATCTCGGACCAAAACCCTAA 57.498 39.130 0.00 0.00 0.00 2.69
342 436 5.427481 AGATTTATCTCGGACCAAAACCCTA 59.573 40.000 0.00 0.00 29.30 3.53
343 437 4.227527 AGATTTATCTCGGACCAAAACCCT 59.772 41.667 0.00 0.00 29.30 4.34
344 438 4.524053 AGATTTATCTCGGACCAAAACCC 58.476 43.478 0.00 0.00 29.30 4.11
345 439 5.736486 GAGATTTATCTCGGACCAAAACC 57.264 43.478 4.12 0.00 43.29 3.27
357 451 5.046735 AGCACACACACAGAGAGATTTATCT 60.047 40.000 0.00 0.00 40.50 1.98
358 452 5.174395 AGCACACACACAGAGAGATTTATC 58.826 41.667 0.00 0.00 0.00 1.75
359 453 5.046735 AGAGCACACACACAGAGAGATTTAT 60.047 40.000 0.00 0.00 0.00 1.40
360 454 4.281941 AGAGCACACACACAGAGAGATTTA 59.718 41.667 0.00 0.00 0.00 1.40
361 455 3.070734 AGAGCACACACACAGAGAGATTT 59.929 43.478 0.00 0.00 0.00 2.17
362 456 2.632028 AGAGCACACACACAGAGAGATT 59.368 45.455 0.00 0.00 0.00 2.40
363 457 2.246469 AGAGCACACACACAGAGAGAT 58.754 47.619 0.00 0.00 0.00 2.75
364 458 1.697284 AGAGCACACACACAGAGAGA 58.303 50.000 0.00 0.00 0.00 3.10
365 459 2.522836 AAGAGCACACACACAGAGAG 57.477 50.000 0.00 0.00 0.00 3.20
366 460 5.418840 TCATATAAGAGCACACACACAGAGA 59.581 40.000 0.00 0.00 0.00 3.10
367 461 5.654497 TCATATAAGAGCACACACACAGAG 58.346 41.667 0.00 0.00 0.00 3.35
368 462 5.659440 TCATATAAGAGCACACACACAGA 57.341 39.130 0.00 0.00 0.00 3.41
369 463 6.915544 AATCATATAAGAGCACACACACAG 57.084 37.500 0.00 0.00 0.00 3.66
370 464 8.962884 AATAATCATATAAGAGCACACACACA 57.037 30.769 0.00 0.00 0.00 3.72
421 515 4.098501 AGCGGAAAAAGGAATGGATCATTC 59.901 41.667 11.06 11.06 46.52 2.67
422 516 4.026052 AGCGGAAAAAGGAATGGATCATT 58.974 39.130 0.00 0.00 36.72 2.57
423 517 3.635591 AGCGGAAAAAGGAATGGATCAT 58.364 40.909 0.00 0.00 0.00 2.45
424 518 3.085952 AGCGGAAAAAGGAATGGATCA 57.914 42.857 0.00 0.00 0.00 2.92
425 519 3.443681 TGAAGCGGAAAAAGGAATGGATC 59.556 43.478 0.00 0.00 0.00 3.36
426 520 3.430453 TGAAGCGGAAAAAGGAATGGAT 58.570 40.909 0.00 0.00 0.00 3.41
427 521 2.870175 TGAAGCGGAAAAAGGAATGGA 58.130 42.857 0.00 0.00 0.00 3.41
428 522 3.658757 TTGAAGCGGAAAAAGGAATGG 57.341 42.857 0.00 0.00 0.00 3.16
429 523 5.346822 CAGATTTGAAGCGGAAAAAGGAATG 59.653 40.000 0.00 0.00 0.00 2.67
430 524 5.243730 TCAGATTTGAAGCGGAAAAAGGAAT 59.756 36.000 0.00 0.00 0.00 3.01
431 525 4.582656 TCAGATTTGAAGCGGAAAAAGGAA 59.417 37.500 0.00 0.00 0.00 3.36
432 526 4.023193 GTCAGATTTGAAGCGGAAAAAGGA 60.023 41.667 0.00 0.00 34.49 3.36
433 527 4.229876 GTCAGATTTGAAGCGGAAAAAGG 58.770 43.478 0.00 0.00 34.49 3.11
434 528 4.858935 TGTCAGATTTGAAGCGGAAAAAG 58.141 39.130 0.00 0.00 34.49 2.27
435 529 4.909696 TGTCAGATTTGAAGCGGAAAAA 57.090 36.364 0.00 0.00 34.49 1.94
436 530 4.321156 CCATGTCAGATTTGAAGCGGAAAA 60.321 41.667 0.00 0.00 34.49 2.29
437 531 3.191162 CCATGTCAGATTTGAAGCGGAAA 59.809 43.478 0.00 0.00 34.49 3.13
438 532 2.749076 CCATGTCAGATTTGAAGCGGAA 59.251 45.455 0.00 0.00 34.49 4.30
439 533 2.358957 CCATGTCAGATTTGAAGCGGA 58.641 47.619 0.00 0.00 34.49 5.54
440 534 1.202222 GCCATGTCAGATTTGAAGCGG 60.202 52.381 0.00 0.00 34.49 5.52
441 535 1.469703 TGCCATGTCAGATTTGAAGCG 59.530 47.619 0.00 0.00 34.49 4.68
442 536 3.581024 TTGCCATGTCAGATTTGAAGC 57.419 42.857 0.00 0.00 34.49 3.86
443 537 3.863424 GCATTGCCATGTCAGATTTGAAG 59.137 43.478 0.00 0.00 34.49 3.02
444 538 3.512329 AGCATTGCCATGTCAGATTTGAA 59.488 39.130 4.70 0.00 34.49 2.69
445 539 3.093814 AGCATTGCCATGTCAGATTTGA 58.906 40.909 4.70 0.00 32.28 2.69
446 540 3.520290 AGCATTGCCATGTCAGATTTG 57.480 42.857 4.70 0.00 32.28 2.32
447 541 4.020928 TGAAAGCATTGCCATGTCAGATTT 60.021 37.500 4.70 0.00 32.28 2.17
448 542 3.512329 TGAAAGCATTGCCATGTCAGATT 59.488 39.130 4.70 0.00 32.28 2.40
449 543 3.093814 TGAAAGCATTGCCATGTCAGAT 58.906 40.909 4.70 0.00 32.28 2.90
450 544 2.516906 TGAAAGCATTGCCATGTCAGA 58.483 42.857 4.70 0.00 32.28 3.27
451 545 3.186909 CATGAAAGCATTGCCATGTCAG 58.813 45.455 14.56 2.85 36.12 3.51
452 546 2.563620 ACATGAAAGCATTGCCATGTCA 59.436 40.909 19.80 12.55 44.41 3.58
453 547 3.241067 ACATGAAAGCATTGCCATGTC 57.759 42.857 19.80 8.27 44.41 3.06
455 549 3.997681 TGAAACATGAAAGCATTGCCATG 59.002 39.130 18.82 18.82 42.19 3.66
456 550 4.274602 TGAAACATGAAAGCATTGCCAT 57.725 36.364 4.70 0.00 30.68 4.40
457 551 3.747854 TGAAACATGAAAGCATTGCCA 57.252 38.095 4.70 0.00 30.68 4.92
458 552 3.120442 GCTTGAAACATGAAAGCATTGCC 60.120 43.478 4.70 0.00 44.53 4.52
459 553 4.061570 GCTTGAAACATGAAAGCATTGC 57.938 40.909 16.59 0.00 44.53 3.56
464 558 3.709987 ACACTGCTTGAAACATGAAAGC 58.290 40.909 0.00 9.68 45.20 3.51
465 559 9.282247 GAATATACACTGCTTGAAACATGAAAG 57.718 33.333 0.00 0.00 0.00 2.62
466 560 8.791675 TGAATATACACTGCTTGAAACATGAAA 58.208 29.630 0.00 0.00 0.00 2.69
467 561 8.334263 TGAATATACACTGCTTGAAACATGAA 57.666 30.769 0.00 0.00 0.00 2.57
468 562 7.920160 TGAATATACACTGCTTGAAACATGA 57.080 32.000 0.00 0.00 0.00 3.07
469 563 8.618677 AGATGAATATACACTGCTTGAAACATG 58.381 33.333 0.00 0.00 0.00 3.21
470 564 8.743085 AGATGAATATACACTGCTTGAAACAT 57.257 30.769 0.00 0.00 0.00 2.71
471 565 8.565896 AAGATGAATATACACTGCTTGAAACA 57.434 30.769 0.00 0.00 0.00 2.83
472 566 8.668353 TGAAGATGAATATACACTGCTTGAAAC 58.332 33.333 0.00 0.00 0.00 2.78
473 567 8.791327 TGAAGATGAATATACACTGCTTGAAA 57.209 30.769 0.00 0.00 0.00 2.69
474 568 8.791327 TTGAAGATGAATATACACTGCTTGAA 57.209 30.769 0.00 0.00 0.00 2.69
475 569 8.791327 TTTGAAGATGAATATACACTGCTTGA 57.209 30.769 0.00 0.00 0.00 3.02
495 589 9.288576 GATGTGATGGTATCCTTCATATTTGAA 57.711 33.333 12.41 0.00 38.75 2.69
496 590 8.663167 AGATGTGATGGTATCCTTCATATTTGA 58.337 33.333 12.41 0.00 38.75 2.69
497 591 8.727910 CAGATGTGATGGTATCCTTCATATTTG 58.272 37.037 12.41 12.69 38.75 2.32
498 592 8.663167 TCAGATGTGATGGTATCCTTCATATTT 58.337 33.333 12.41 6.87 38.75 1.40
499 593 8.211030 TCAGATGTGATGGTATCCTTCATATT 57.789 34.615 12.41 4.27 38.75 1.28
500 594 7.803487 TCAGATGTGATGGTATCCTTCATAT 57.197 36.000 11.48 11.48 40.33 1.78
501 595 7.616528 TTCAGATGTGATGGTATCCTTCATA 57.383 36.000 0.00 5.83 39.34 2.15
502 596 6.505048 TTCAGATGTGATGGTATCCTTCAT 57.495 37.500 0.00 0.00 39.34 2.57
503 597 5.955961 TTCAGATGTGATGGTATCCTTCA 57.044 39.130 0.00 1.14 35.72 3.02
504 598 7.814264 ATTTTCAGATGTGATGGTATCCTTC 57.186 36.000 0.00 0.00 30.85 3.46
505 599 9.872684 ATTATTTTCAGATGTGATGGTATCCTT 57.127 29.630 0.00 0.00 30.85 3.36
506 600 9.512588 GATTATTTTCAGATGTGATGGTATCCT 57.487 33.333 0.00 0.00 30.85 3.24
507 601 9.512588 AGATTATTTTCAGATGTGATGGTATCC 57.487 33.333 0.00 0.00 30.85 2.59
511 605 9.775854 CTAGAGATTATTTTCAGATGTGATGGT 57.224 33.333 0.00 0.00 30.85 3.55
512 606 8.719648 GCTAGAGATTATTTTCAGATGTGATGG 58.280 37.037 0.00 0.00 30.85 3.51
513 607 9.491675 AGCTAGAGATTATTTTCAGATGTGATG 57.508 33.333 0.00 0.00 30.85 3.07
514 608 9.709495 GAGCTAGAGATTATTTTCAGATGTGAT 57.291 33.333 0.00 0.00 30.85 3.06
515 609 7.864882 CGAGCTAGAGATTATTTTCAGATGTGA 59.135 37.037 0.00 0.00 0.00 3.58
516 610 7.359097 GCGAGCTAGAGATTATTTTCAGATGTG 60.359 40.741 0.00 0.00 0.00 3.21
517 611 6.644592 GCGAGCTAGAGATTATTTTCAGATGT 59.355 38.462 0.00 0.00 0.00 3.06
518 612 6.867816 AGCGAGCTAGAGATTATTTTCAGATG 59.132 38.462 0.00 0.00 0.00 2.90
519 613 6.991938 AGCGAGCTAGAGATTATTTTCAGAT 58.008 36.000 0.00 0.00 0.00 2.90
520 614 6.398234 AGCGAGCTAGAGATTATTTTCAGA 57.602 37.500 0.00 0.00 0.00 3.27
521 615 7.343691 CAAAGCGAGCTAGAGATTATTTTCAG 58.656 38.462 0.00 0.00 0.00 3.02
522 616 6.258727 CCAAAGCGAGCTAGAGATTATTTTCA 59.741 38.462 0.00 0.00 0.00 2.69
523 617 6.258947 ACCAAAGCGAGCTAGAGATTATTTTC 59.741 38.462 0.00 0.00 0.00 2.29
524 618 6.037610 CACCAAAGCGAGCTAGAGATTATTTT 59.962 38.462 0.00 0.00 0.00 1.82
525 619 5.525378 CACCAAAGCGAGCTAGAGATTATTT 59.475 40.000 0.00 0.00 0.00 1.40
526 620 5.053145 CACCAAAGCGAGCTAGAGATTATT 58.947 41.667 0.00 0.00 0.00 1.40
527 621 4.626042 CACCAAAGCGAGCTAGAGATTAT 58.374 43.478 0.00 0.00 0.00 1.28
528 622 3.738281 GCACCAAAGCGAGCTAGAGATTA 60.738 47.826 0.00 0.00 0.00 1.75
529 623 2.898705 CACCAAAGCGAGCTAGAGATT 58.101 47.619 0.00 0.00 0.00 2.40
530 624 1.472376 GCACCAAAGCGAGCTAGAGAT 60.472 52.381 0.00 0.00 0.00 2.75
531 625 0.108615 GCACCAAAGCGAGCTAGAGA 60.109 55.000 0.00 0.00 0.00 3.10
532 626 1.086634 GGCACCAAAGCGAGCTAGAG 61.087 60.000 0.00 0.00 34.64 2.43
533 627 1.079127 GGCACCAAAGCGAGCTAGA 60.079 57.895 0.00 0.00 34.64 2.43
534 628 1.364626 CTGGCACCAAAGCGAGCTAG 61.365 60.000 0.00 0.00 33.66 3.42
535 629 1.375908 CTGGCACCAAAGCGAGCTA 60.376 57.895 0.00 0.00 33.66 3.32
536 630 2.670934 CTGGCACCAAAGCGAGCT 60.671 61.111 0.00 0.00 33.66 4.09
537 631 2.075426 AAACTGGCACCAAAGCGAGC 62.075 55.000 0.00 0.00 43.15 5.03
538 632 0.040067 GAAACTGGCACCAAAGCGAG 60.040 55.000 0.00 0.00 44.64 5.03
539 633 0.465460 AGAAACTGGCACCAAAGCGA 60.465 50.000 0.00 0.00 34.64 4.93
540 634 0.040067 GAGAAACTGGCACCAAAGCG 60.040 55.000 0.00 0.00 34.64 4.68
541 635 0.040067 CGAGAAACTGGCACCAAAGC 60.040 55.000 0.00 0.00 0.00 3.51
542 636 1.593196 TCGAGAAACTGGCACCAAAG 58.407 50.000 0.00 0.00 0.00 2.77
543 637 2.151202 GATCGAGAAACTGGCACCAAA 58.849 47.619 0.00 0.00 0.00 3.28
544 638 1.808411 GATCGAGAAACTGGCACCAA 58.192 50.000 0.00 0.00 0.00 3.67
545 639 0.389817 CGATCGAGAAACTGGCACCA 60.390 55.000 10.26 0.00 0.00 4.17
546 640 0.108804 TCGATCGAGAAACTGGCACC 60.109 55.000 15.15 0.00 0.00 5.01
547 641 0.992802 GTCGATCGAGAAACTGGCAC 59.007 55.000 20.09 0.00 0.00 5.01
548 642 0.888619 AGTCGATCGAGAAACTGGCA 59.111 50.000 20.09 0.00 0.00 4.92
549 643 1.272781 CAGTCGATCGAGAAACTGGC 58.727 55.000 20.09 3.85 36.36 4.85
551 645 2.791567 CTCCAGTCGATCGAGAAACTG 58.208 52.381 20.09 20.98 39.04 3.16
552 646 1.133407 GCTCCAGTCGATCGAGAAACT 59.867 52.381 20.09 9.87 0.00 2.66
553 647 1.135373 TGCTCCAGTCGATCGAGAAAC 60.135 52.381 20.09 7.36 0.00 2.78
554 648 1.133216 CTGCTCCAGTCGATCGAGAAA 59.867 52.381 20.09 3.66 0.00 2.52
555 649 0.735471 CTGCTCCAGTCGATCGAGAA 59.265 55.000 20.09 0.00 0.00 2.87
556 650 1.719725 GCTGCTCCAGTCGATCGAGA 61.720 60.000 20.09 11.67 33.43 4.04
557 651 1.299014 GCTGCTCCAGTCGATCGAG 60.299 63.158 20.09 7.80 33.43 4.04
558 652 2.775856 GGCTGCTCCAGTCGATCGA 61.776 63.158 15.15 15.15 33.43 3.59
559 653 2.279120 GGCTGCTCCAGTCGATCG 60.279 66.667 9.36 9.36 33.43 3.69
593 687 1.008309 GTGGCGCGGAGTAGAGATC 60.008 63.158 8.83 0.00 0.00 2.75
594 688 2.491022 GGTGGCGCGGAGTAGAGAT 61.491 63.158 8.83 0.00 0.00 2.75
596 690 2.890847 CTTGGTGGCGCGGAGTAGAG 62.891 65.000 8.83 0.00 0.00 2.43
597 691 2.992689 TTGGTGGCGCGGAGTAGA 60.993 61.111 8.83 0.00 0.00 2.59
598 692 2.509336 CTTGGTGGCGCGGAGTAG 60.509 66.667 8.83 0.00 0.00 2.57
599 693 3.291101 GACTTGGTGGCGCGGAGTA 62.291 63.158 8.83 0.00 0.00 2.59
600 694 4.681978 GACTTGGTGGCGCGGAGT 62.682 66.667 8.83 4.87 0.00 3.85
608 702 4.003788 AGACCGGCGACTTGGTGG 62.004 66.667 9.30 0.00 38.99 4.61
609 703 2.738521 CAGACCGGCGACTTGGTG 60.739 66.667 9.30 0.00 38.99 4.17
610 704 4.681978 GCAGACCGGCGACTTGGT 62.682 66.667 9.30 0.00 42.42 3.67
611 705 4.379243 AGCAGACCGGCGACTTGG 62.379 66.667 9.30 0.00 39.27 3.61
612 706 2.811317 GAGCAGACCGGCGACTTG 60.811 66.667 9.30 4.14 39.27 3.16
613 707 4.070552 GGAGCAGACCGGCGACTT 62.071 66.667 9.30 0.00 39.27 3.01
615 709 4.803426 CTGGAGCAGACCGGCGAC 62.803 72.222 9.30 1.53 39.27 5.19
619 713 4.803426 GTCGCTGGAGCAGACCGG 62.803 72.222 0.00 0.00 42.21 5.28
644 785 4.794648 TTCCTCCCATTGCCGCCG 62.795 66.667 0.00 0.00 0.00 6.46
645 786 3.140814 GTTCCTCCCATTGCCGCC 61.141 66.667 0.00 0.00 0.00 6.13
646 787 2.044946 AGTTCCTCCCATTGCCGC 60.045 61.111 0.00 0.00 0.00 6.53
647 788 1.750399 CCAGTTCCTCCCATTGCCG 60.750 63.158 0.00 0.00 0.00 5.69
648 789 2.054453 GCCAGTTCCTCCCATTGCC 61.054 63.158 0.00 0.00 0.00 4.52
649 790 2.409870 CGCCAGTTCCTCCCATTGC 61.410 63.158 0.00 0.00 0.00 3.56
650 791 1.750399 CCGCCAGTTCCTCCCATTG 60.750 63.158 0.00 0.00 0.00 2.82
651 792 2.677228 CCGCCAGTTCCTCCCATT 59.323 61.111 0.00 0.00 0.00 3.16
652 793 4.115199 GCCGCCAGTTCCTCCCAT 62.115 66.667 0.00 0.00 0.00 4.00
668 809 3.793144 CTCAACCTCAAGCGCGGC 61.793 66.667 8.83 0.00 0.00 6.53
669 810 3.121030 CCTCAACCTCAAGCGCGG 61.121 66.667 8.83 0.00 0.00 6.46
670 811 3.793144 GCCTCAACCTCAAGCGCG 61.793 66.667 0.00 0.00 0.00 6.86
681 822 1.483827 CTCATGTAGCCTCAGCCTCAA 59.516 52.381 0.00 0.00 41.25 3.02
686 827 3.574396 TGGTATACTCATGTAGCCTCAGC 59.426 47.826 2.25 0.00 40.32 4.26
750 939 5.007385 AGGTACGTTGCAAGTATAAGGAG 57.993 43.478 0.00 0.00 0.00 3.69
751 940 5.172934 CAAGGTACGTTGCAAGTATAAGGA 58.827 41.667 14.76 0.00 0.00 3.36
752 941 4.331717 CCAAGGTACGTTGCAAGTATAAGG 59.668 45.833 20.30 1.88 0.00 2.69
828 1250 2.858344 GTGCTCTCGTGCGTACATATTT 59.142 45.455 4.09 0.00 35.36 1.40
906 1329 0.809636 TCGATGTTGGTGCCTATGCG 60.810 55.000 0.00 0.00 41.78 4.73
937 1363 4.873810 TGGTTGCTGCGGCTGTGT 62.874 61.111 20.27 0.00 39.59 3.72
963 1394 2.683362 GGTGGCTAACTGGCTATTGTTC 59.317 50.000 0.00 0.00 42.34 3.18
1020 1453 1.601197 GAGGATCGCGGCTAGGAGA 60.601 63.158 6.13 0.00 0.00 3.71
1111 1544 3.737172 GCAATTGCCACCGCGAGT 61.737 61.111 20.06 0.00 38.08 4.18
1144 1577 2.280797 ACACACACCAAGCGCGAT 60.281 55.556 12.10 0.00 0.00 4.58
1155 1588 3.623960 CCGGTTGAAGTTTAAGACACACA 59.376 43.478 0.00 0.00 0.00 3.72
1287 1726 4.108299 ACGCCATCGGGAATGCCA 62.108 61.111 0.00 0.00 40.69 4.92
1422 1867 1.079266 CAGAGTGTGAGCCTGCCTC 60.079 63.158 0.00 0.00 41.15 4.70
1588 2035 1.024579 GGCCCACACGACAAGTATGG 61.025 60.000 0.00 0.00 46.80 2.74
1646 2094 2.615240 GGGGGTGGATTTTGATGTTTGC 60.615 50.000 0.00 0.00 0.00 3.68
1649 2097 2.111613 TCTGGGGGTGGATTTTGATGTT 59.888 45.455 0.00 0.00 0.00 2.71
1653 2101 0.037590 CGTCTGGGGGTGGATTTTGA 59.962 55.000 0.00 0.00 0.00 2.69
1701 2150 2.607635 GTGTGTGTTGTCGATCACTGTT 59.392 45.455 15.44 0.00 35.82 3.16
1703 2152 2.200899 TGTGTGTGTTGTCGATCACTG 58.799 47.619 15.44 0.00 35.82 3.66
1709 2158 4.686839 TCAATTTTGTGTGTGTTGTCGA 57.313 36.364 0.00 0.00 0.00 4.20
1710 2159 5.514559 TGAATCAATTTTGTGTGTGTTGTCG 59.485 36.000 0.00 0.00 0.00 4.35
1722 2180 7.524912 TGTTTGTGGTTGTTGAATCAATTTTG 58.475 30.769 0.00 0.00 0.00 2.44
1734 2192 6.867662 TTGAAAATGTTGTTTGTGGTTGTT 57.132 29.167 0.00 0.00 0.00 2.83
1815 2502 0.252330 TCCACGGGTTATGGACAGGA 60.252 55.000 0.00 0.00 41.47 3.86
1858 2545 3.144120 CTCTACCTCGCCAGCGCAT 62.144 63.158 11.47 0.00 39.59 4.73
1896 2588 1.945354 GAATCGAGTCCCGTGAGCCA 61.945 60.000 0.28 0.00 39.75 4.75
1983 2676 0.034198 TCTGACCGCGACAAATCCAA 59.966 50.000 8.23 0.00 0.00 3.53
2148 2841 2.877786 CCTATGCAAATATGGCACGACA 59.122 45.455 4.60 0.00 45.23 4.35
2150 2843 3.138304 GTCCTATGCAAATATGGCACGA 58.862 45.455 4.60 0.00 45.23 4.35
2153 2846 4.535781 AGTTGTCCTATGCAAATATGGCA 58.464 39.130 4.94 4.94 46.66 4.92
2165 2858 0.175760 ACGCATGCGAGTTGTCCTAT 59.824 50.000 43.72 16.84 42.83 2.57
2172 2865 0.512952 GAAGTGAACGCATGCGAGTT 59.487 50.000 43.72 29.54 42.83 3.01
2209 2902 1.982660 TCTTGTGAGAGACTCCGTGT 58.017 50.000 0.00 0.00 0.00 4.49
2314 3007 4.457603 AGTGCACGGTCAAAATAATTAGCA 59.542 37.500 12.01 0.00 0.00 3.49


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

AutoCloner maintained by Alex Coulton.