Multiple sequence alignment - TraesCS5A01G305600

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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 TraesCS5A01G305600 chr5A 100.000 2354 0 0 1 2354 514187480 514185127 0.000000e+00 4348.0
1 TraesCS5A01G305600 chr5A 98.256 172 1 2 393 564 51800691 51800860 1.370000e-77 300.0
2 TraesCS5A01G305600 chr5A 89.222 167 17 1 398 564 494977278 494977113 8.530000e-50 207.0
3 TraesCS5A01G305600 chr5D 90.419 908 73 12 1426 2331 408337307 408336412 0.000000e+00 1182.0
4 TraesCS5A01G305600 chr5D 88.708 983 43 27 557 1506 408338236 408337289 0.000000e+00 1138.0
5 TraesCS5A01G305600 chr5D 86.686 338 22 7 1 318 408338666 408338332 1.030000e-93 353.0
6 TraesCS5A01G305600 chr5D 81.657 169 24 6 1697 1863 408336139 408335976 1.470000e-27 134.0
7 TraesCS5A01G305600 chr5B 88.298 846 51 23 579 1415 489840212 489839406 0.000000e+00 970.0
8 TraesCS5A01G305600 chr5B 88.547 585 50 11 1417 1997 489825335 489824764 0.000000e+00 693.0
9 TraesCS5A01G305600 chr5B 92.073 328 25 1 2022 2348 489823716 489823389 5.930000e-126 460.0
10 TraesCS5A01G305600 chr5B 98.266 173 3 0 392 564 674428224 674428396 1.060000e-78 303.0
11 TraesCS5A01G305600 chr5B 83.891 329 30 19 1 318 489840623 489840307 2.290000e-75 292.0
12 TraesCS5A01G305600 chr5B 77.124 306 45 15 1746 2037 489822800 489822506 1.130000e-33 154.0
13 TraesCS5A01G305600 chr7A 99.419 172 1 0 393 564 13184451 13184280 1.760000e-81 313.0
14 TraesCS5A01G305600 chr7A 98.837 172 2 0 393 564 133627894 133627723 8.170000e-80 307.0
15 TraesCS5A01G305600 chr4B 97.674 172 4 0 393 564 430396367 430396538 1.770000e-76 296.0
16 TraesCS5A01G305600 chr4B 87.755 49 5 1 1841 1888 339453469 339453421 3.270000e-04 56.5
17 TraesCS5A01G305600 chr1B 96.350 137 5 0 428 564 580621946 580622082 2.350000e-55 226.0
18 TraesCS5A01G305600 chr1B 98.734 79 1 0 394 472 580621930 580621852 8.770000e-30 141.0
19 TraesCS5A01G305600 chr3A 79.191 173 30 5 395 564 667493931 667493762 5.320000e-22 115.0
20 TraesCS5A01G305600 chr2D 78.049 205 30 11 1674 1873 28562796 28562602 5.320000e-22 115.0
21 TraesCS5A01G305600 chr7D 77.778 189 34 8 1698 1883 21255164 21254981 2.470000e-20 110.0
22 TraesCS5A01G305600 chr6A 77.465 142 22 6 1751 1888 83331636 83331771 2.510000e-10 76.8
23 TraesCS5A01G305600 chr2B 74.479 192 40 5 1694 1877 494370588 494370778 9.020000e-10 75.0
24 TraesCS5A01G305600 chr2B 91.111 45 3 1 1845 1888 653981079 653981035 2.530000e-05 60.2
25 TraesCS5A01G305600 chr1A 97.619 42 1 0 523 564 468609980 468610021 3.250000e-09 73.1
26 TraesCS5A01G305600 chr6D 81.081 74 14 0 1719 1792 3322949 3323022 2.530000e-05 60.2
27 TraesCS5A01G305600 chr6D 81.081 74 14 0 1719 1792 3328820 3328893 2.530000e-05 60.2
28 TraesCS5A01G305600 chr2A 83.824 68 6 5 461 526 211485019 211484955 2.530000e-05 60.2


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 TraesCS5A01G305600 chr5A 514185127 514187480 2353 True 4348.000000 4348 100.000000 1 2354 1 chr5A.!!$R2 2353
1 TraesCS5A01G305600 chr5D 408335976 408338666 2690 True 701.750000 1182 86.867500 1 2331 4 chr5D.!!$R1 2330
2 TraesCS5A01G305600 chr5B 489839406 489840623 1217 True 631.000000 970 86.094500 1 1415 2 chr5B.!!$R2 1414
3 TraesCS5A01G305600 chr5B 489822506 489825335 2829 True 435.666667 693 85.914667 1417 2348 3 chr5B.!!$R1 931

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
463 516 0.03716 TTCCCTAACCAAACGCCCTC 59.963 55.0 0.0 0.0 0.0 4.3 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1617 1785 0.179936 GAGAGAGGGTGATTGCCTGG 59.82 60.0 0.0 0.0 0.0 4.45 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
130 131 4.452733 CCTGCCTCGACGGGGAAC 62.453 72.222 20.60 0.12 31.89 3.62
215 233 2.844839 GATCCACGGGAGGAGGGG 60.845 72.222 0.00 0.00 41.90 4.79
252 270 2.918616 GCTCGACGAGATTATTACGCT 58.081 47.619 28.43 0.00 0.00 5.07
318 339 3.960102 GGCCTCCATTTCAACCATCATTA 59.040 43.478 0.00 0.00 0.00 1.90
320 341 5.104982 GGCCTCCATTTCAACCATCATTAAA 60.105 40.000 0.00 0.00 0.00 1.52
321 342 6.408434 GGCCTCCATTTCAACCATCATTAAAT 60.408 38.462 0.00 0.00 0.00 1.40
322 343 6.703165 GCCTCCATTTCAACCATCATTAAATC 59.297 38.462 0.00 0.00 0.00 2.17
324 345 7.070322 CCTCCATTTCAACCATCATTAAATCCT 59.930 37.037 0.00 0.00 0.00 3.24
350 371 7.484993 AAAAAGATCAACATCATTCATCCCA 57.515 32.000 0.00 0.00 0.00 4.37
351 372 7.484993 AAAAGATCAACATCATTCATCCCAA 57.515 32.000 0.00 0.00 0.00 4.12
352 373 7.484993 AAAGATCAACATCATTCATCCCAAA 57.515 32.000 0.00 0.00 0.00 3.28
353 374 7.484993 AAGATCAACATCATTCATCCCAAAA 57.515 32.000 0.00 0.00 0.00 2.44
354 375 7.484993 AGATCAACATCATTCATCCCAAAAA 57.515 32.000 0.00 0.00 0.00 1.94
355 376 7.553334 AGATCAACATCATTCATCCCAAAAAG 58.447 34.615 0.00 0.00 0.00 2.27
356 377 6.040209 TCAACATCATTCATCCCAAAAAGG 57.960 37.500 0.00 0.00 37.03 3.11
362 383 7.662669 ACATCATTCATCCCAAAAAGGAAAAAG 59.337 33.333 0.00 0.00 40.04 2.27
366 405 6.806668 TCATCCCAAAAAGGAAAAAGAGTT 57.193 33.333 0.00 0.00 40.04 3.01
367 406 7.194112 TCATCCCAAAAAGGAAAAAGAGTTT 57.806 32.000 0.00 0.00 40.04 2.66
403 456 2.640684 CGGTGCGCAAAAATGCTAG 58.359 52.632 14.00 0.00 0.00 3.42
404 457 0.167908 CGGTGCGCAAAAATGCTAGA 59.832 50.000 14.00 0.00 0.00 2.43
406 459 1.200020 GGTGCGCAAAAATGCTAGACT 59.800 47.619 14.00 0.00 0.00 3.24
407 460 2.351738 GGTGCGCAAAAATGCTAGACTT 60.352 45.455 14.00 0.00 0.00 3.01
408 461 3.119990 GGTGCGCAAAAATGCTAGACTTA 60.120 43.478 14.00 0.00 0.00 2.24
409 462 3.846335 GTGCGCAAAAATGCTAGACTTAC 59.154 43.478 14.00 0.00 0.00 2.34
410 463 3.091417 GCGCAAAAATGCTAGACTTACG 58.909 45.455 0.30 0.00 0.00 3.18
411 464 3.424433 GCGCAAAAATGCTAGACTTACGT 60.424 43.478 0.30 0.00 0.00 3.57
412 465 4.201647 GCGCAAAAATGCTAGACTTACGTA 60.202 41.667 0.30 0.00 0.00 3.57
413 466 5.669357 GCGCAAAAATGCTAGACTTACGTAA 60.669 40.000 7.94 7.94 0.00 3.18
414 467 6.475207 CGCAAAAATGCTAGACTTACGTAAT 58.525 36.000 8.76 0.00 0.00 1.89
415 468 6.408039 CGCAAAAATGCTAGACTTACGTAATG 59.592 38.462 8.76 5.91 0.00 1.90
416 469 6.194692 GCAAAAATGCTAGACTTACGTAATGC 59.805 38.462 8.76 7.16 0.00 3.56
417 470 7.464358 CAAAAATGCTAGACTTACGTAATGCT 58.536 34.615 8.76 11.24 0.00 3.79
418 471 6.589830 AAATGCTAGACTTACGTAATGCTG 57.410 37.500 8.76 0.00 0.00 4.41
419 472 4.713824 TGCTAGACTTACGTAATGCTGT 57.286 40.909 8.76 2.91 0.00 4.40
420 473 5.068234 TGCTAGACTTACGTAATGCTGTT 57.932 39.130 8.76 0.00 0.00 3.16
421 474 6.198650 TGCTAGACTTACGTAATGCTGTTA 57.801 37.500 8.76 0.00 0.00 2.41
422 475 6.032094 TGCTAGACTTACGTAATGCTGTTAC 58.968 40.000 8.76 3.41 0.00 2.50
446 499 7.620397 CGTATCCTACGTAATCCTTCTTTTC 57.380 40.000 0.00 0.00 46.41 2.29
447 500 6.640092 CGTATCCTACGTAATCCTTCTTTTCC 59.360 42.308 0.00 0.00 46.41 3.13
448 501 5.349061 TCCTACGTAATCCTTCTTTTCCC 57.651 43.478 0.00 0.00 0.00 3.97
449 502 5.028131 TCCTACGTAATCCTTCTTTTCCCT 58.972 41.667 0.00 0.00 0.00 4.20
450 503 6.197168 TCCTACGTAATCCTTCTTTTCCCTA 58.803 40.000 0.00 0.00 0.00 3.53
451 504 6.669154 TCCTACGTAATCCTTCTTTTCCCTAA 59.331 38.462 0.00 0.00 0.00 2.69
452 505 6.760298 CCTACGTAATCCTTCTTTTCCCTAAC 59.240 42.308 0.00 0.00 0.00 2.34
453 506 5.494724 ACGTAATCCTTCTTTTCCCTAACC 58.505 41.667 0.00 0.00 0.00 2.85
454 507 5.013391 ACGTAATCCTTCTTTTCCCTAACCA 59.987 40.000 0.00 0.00 0.00 3.67
455 508 5.941647 CGTAATCCTTCTTTTCCCTAACCAA 59.058 40.000 0.00 0.00 0.00 3.67
456 509 6.431852 CGTAATCCTTCTTTTCCCTAACCAAA 59.568 38.462 0.00 0.00 0.00 3.28
457 510 6.665992 AATCCTTCTTTTCCCTAACCAAAC 57.334 37.500 0.00 0.00 0.00 2.93
458 511 4.139038 TCCTTCTTTTCCCTAACCAAACG 58.861 43.478 0.00 0.00 0.00 3.60
459 512 3.305131 CCTTCTTTTCCCTAACCAAACGC 60.305 47.826 0.00 0.00 0.00 4.84
460 513 2.232399 TCTTTTCCCTAACCAAACGCC 58.768 47.619 0.00 0.00 0.00 5.68
461 514 1.271379 CTTTTCCCTAACCAAACGCCC 59.729 52.381 0.00 0.00 0.00 6.13
462 515 0.479378 TTTCCCTAACCAAACGCCCT 59.521 50.000 0.00 0.00 0.00 5.19
463 516 0.037160 TTCCCTAACCAAACGCCCTC 59.963 55.000 0.00 0.00 0.00 4.30
464 517 1.378119 CCCTAACCAAACGCCCTCC 60.378 63.158 0.00 0.00 0.00 4.30
465 518 1.378119 CCTAACCAAACGCCCTCCC 60.378 63.158 0.00 0.00 0.00 4.30
466 519 1.378119 CTAACCAAACGCCCTCCCC 60.378 63.158 0.00 0.00 0.00 4.81
467 520 2.831894 CTAACCAAACGCCCTCCCCC 62.832 65.000 0.00 0.00 0.00 5.40
486 539 2.583472 CTGATTTTCAGGGTGGGCC 58.417 57.895 0.00 0.00 40.71 5.80
501 554 3.335711 GCCCCAGCCTCCACTAAT 58.664 61.111 0.00 0.00 0.00 1.73
502 555 2.539983 GCCCCAGCCTCCACTAATA 58.460 57.895 0.00 0.00 0.00 0.98
503 556 1.068121 GCCCCAGCCTCCACTAATAT 58.932 55.000 0.00 0.00 0.00 1.28
504 557 1.003696 GCCCCAGCCTCCACTAATATC 59.996 57.143 0.00 0.00 0.00 1.63
505 558 1.630878 CCCCAGCCTCCACTAATATCC 59.369 57.143 0.00 0.00 0.00 2.59
506 559 2.338809 CCCAGCCTCCACTAATATCCA 58.661 52.381 0.00 0.00 0.00 3.41
507 560 2.711009 CCCAGCCTCCACTAATATCCAA 59.289 50.000 0.00 0.00 0.00 3.53
508 561 3.331889 CCCAGCCTCCACTAATATCCAAT 59.668 47.826 0.00 0.00 0.00 3.16
509 562 4.202609 CCCAGCCTCCACTAATATCCAATT 60.203 45.833 0.00 0.00 0.00 2.32
510 563 4.763793 CCAGCCTCCACTAATATCCAATTG 59.236 45.833 0.00 0.00 0.00 2.32
511 564 5.456619 CCAGCCTCCACTAATATCCAATTGA 60.457 44.000 7.12 0.00 0.00 2.57
512 565 6.064060 CAGCCTCCACTAATATCCAATTGAA 58.936 40.000 7.12 0.00 0.00 2.69
513 566 6.206243 CAGCCTCCACTAATATCCAATTGAAG 59.794 42.308 7.12 0.00 0.00 3.02
514 567 5.474876 GCCTCCACTAATATCCAATTGAAGG 59.525 44.000 7.12 0.00 0.00 3.46
515 568 6.691491 GCCTCCACTAATATCCAATTGAAGGA 60.691 42.308 7.12 0.00 39.97 3.36
517 570 7.392673 CCTCCACTAATATCCAATTGAAGGATG 59.607 40.741 7.12 0.00 45.25 3.51
518 571 6.716628 TCCACTAATATCCAATTGAAGGATGC 59.283 38.462 7.12 0.00 45.25 3.91
519 572 6.071728 CCACTAATATCCAATTGAAGGATGCC 60.072 42.308 7.12 0.00 45.25 4.40
520 573 6.491062 CACTAATATCCAATTGAAGGATGCCA 59.509 38.462 7.12 0.00 45.25 4.92
521 574 7.014518 CACTAATATCCAATTGAAGGATGCCAA 59.985 37.037 7.12 0.00 45.25 4.52
522 575 5.796424 ATATCCAATTGAAGGATGCCAAC 57.204 39.130 7.12 0.00 45.25 3.77
523 576 3.173953 TCCAATTGAAGGATGCCAACT 57.826 42.857 7.12 0.00 0.00 3.16
524 577 3.091545 TCCAATTGAAGGATGCCAACTC 58.908 45.455 7.12 0.00 0.00 3.01
525 578 2.827322 CCAATTGAAGGATGCCAACTCA 59.173 45.455 7.12 0.00 0.00 3.41
526 579 3.449737 CCAATTGAAGGATGCCAACTCAT 59.550 43.478 7.12 0.00 0.00 2.90
527 580 4.081309 CCAATTGAAGGATGCCAACTCATT 60.081 41.667 7.12 0.00 0.00 2.57
528 581 5.484715 CAATTGAAGGATGCCAACTCATTT 58.515 37.500 0.00 0.00 0.00 2.32
529 582 4.789012 TTGAAGGATGCCAACTCATTTC 57.211 40.909 0.00 0.00 0.00 2.17
530 583 3.765381 TGAAGGATGCCAACTCATTTCA 58.235 40.909 0.00 0.00 0.00 2.69
531 584 4.346730 TGAAGGATGCCAACTCATTTCAT 58.653 39.130 0.00 0.00 0.00 2.57
532 585 4.773674 TGAAGGATGCCAACTCATTTCATT 59.226 37.500 0.00 0.00 0.00 2.57
533 586 4.996788 AGGATGCCAACTCATTTCATTC 57.003 40.909 0.00 0.00 0.00 2.67
534 587 3.379372 AGGATGCCAACTCATTTCATTCG 59.621 43.478 0.00 0.00 0.00 3.34
535 588 3.129287 GGATGCCAACTCATTTCATTCGT 59.871 43.478 0.00 0.00 0.00 3.85
536 589 4.335315 GGATGCCAACTCATTTCATTCGTA 59.665 41.667 0.00 0.00 0.00 3.43
537 590 5.163663 GGATGCCAACTCATTTCATTCGTAA 60.164 40.000 0.00 0.00 0.00 3.18
538 591 5.295431 TGCCAACTCATTTCATTCGTAAG 57.705 39.130 0.00 0.00 0.00 2.34
620 682 0.320421 GTCGGTTAAGCAGCTGTGGA 60.320 55.000 16.64 0.00 0.00 4.02
622 684 0.517316 CGGTTAAGCAGCTGTGGAAC 59.483 55.000 16.64 15.39 37.35 3.62
625 687 0.250295 TTAAGCAGCTGTGGAACGCT 60.250 50.000 16.64 0.32 44.91 5.07
671 733 3.446570 GCTGTGCCACTCCATGCC 61.447 66.667 0.00 0.00 0.00 4.40
672 734 2.353958 CTGTGCCACTCCATGCCT 59.646 61.111 0.00 0.00 0.00 4.75
673 735 1.748122 CTGTGCCACTCCATGCCTC 60.748 63.158 0.00 0.00 0.00 4.70
674 736 2.439156 GTGCCACTCCATGCCTCC 60.439 66.667 0.00 0.00 0.00 4.30
675 737 2.934932 TGCCACTCCATGCCTCCA 60.935 61.111 0.00 0.00 0.00 3.86
676 738 2.311070 TGCCACTCCATGCCTCCAT 61.311 57.895 0.00 0.00 0.00 3.41
677 739 1.527844 GCCACTCCATGCCTCCATC 60.528 63.158 0.00 0.00 0.00 3.51
678 740 1.917495 CCACTCCATGCCTCCATCA 59.083 57.895 0.00 0.00 0.00 3.07
679 741 0.477204 CCACTCCATGCCTCCATCAT 59.523 55.000 0.00 0.00 0.00 2.45
714 776 2.260743 GTTCCCGTCTCGTGGTCC 59.739 66.667 0.00 0.00 0.00 4.46
777 851 1.687563 CCTGCCATCAATCATGCTGA 58.312 50.000 0.47 0.47 0.00 4.26
778 852 2.239400 CCTGCCATCAATCATGCTGAT 58.761 47.619 4.72 4.72 39.09 2.90
779 853 2.229062 CCTGCCATCAATCATGCTGATC 59.771 50.000 7.05 0.00 35.76 2.92
837 912 4.043073 GTCCTCTTCCGCTATAAGAAACG 58.957 47.826 0.00 0.00 32.77 3.60
858 933 1.134699 TGATGAGGATGCCAGTTCGTC 60.135 52.381 0.00 0.00 0.00 4.20
876 951 0.687757 TCCCATCCCTCAGTTCCTCG 60.688 60.000 0.00 0.00 0.00 4.63
896 971 2.632377 GAATCTCGCCATGAAACCAGA 58.368 47.619 0.00 0.00 0.00 3.86
914 995 1.287730 GACAAGCAGTCGAGCACCTG 61.288 60.000 0.00 0.00 37.53 4.00
917 998 4.385405 GCAGTCGAGCACCTGCCT 62.385 66.667 13.28 0.00 46.55 4.75
918 999 2.433838 CAGTCGAGCACCTGCCTG 60.434 66.667 0.00 0.00 43.38 4.85
919 1000 4.385405 AGTCGAGCACCTGCCTGC 62.385 66.667 0.00 0.00 43.38 4.85
934 1015 2.810887 TGCGCGCAGATGACTGAC 60.811 61.111 33.09 0.00 46.03 3.51
935 1016 3.558411 GCGCGCAGATGACTGACC 61.558 66.667 29.10 0.00 46.03 4.02
936 1017 2.887568 CGCGCAGATGACTGACCC 60.888 66.667 8.75 0.00 46.03 4.46
937 1018 2.265739 GCGCAGATGACTGACCCA 59.734 61.111 0.30 0.00 46.03 4.51
943 1024 1.808945 CAGATGACTGACCCAGCAAAC 59.191 52.381 0.00 0.00 46.03 2.93
953 1034 2.226674 GACCCAGCAAACTAGCAAGAAC 59.773 50.000 0.00 0.00 36.85 3.01
954 1035 2.158608 ACCCAGCAAACTAGCAAGAACT 60.159 45.455 0.00 0.00 36.85 3.01
965 1046 1.784062 CAAGAACTTCCGCTGCTCG 59.216 57.895 0.00 0.00 38.08 5.03
979 1060 2.252346 GCTCGGCTCGGTCGATCTA 61.252 63.158 1.19 0.00 39.46 1.98
980 1061 1.570475 CTCGGCTCGGTCGATCTAC 59.430 63.158 1.19 0.00 39.46 2.59
984 1065 1.448922 GGCTCGGTCGATCTACTGCT 61.449 60.000 1.30 0.00 0.00 4.24
985 1066 0.382515 GCTCGGTCGATCTACTGCTT 59.617 55.000 1.30 0.00 0.00 3.91
986 1067 1.862008 GCTCGGTCGATCTACTGCTTG 60.862 57.143 1.30 0.00 0.00 4.01
987 1068 1.671328 CTCGGTCGATCTACTGCTTGA 59.329 52.381 1.30 0.00 0.00 3.02
1254 1347 2.516460 GACCTCTCCGGCGAGCTA 60.516 66.667 16.26 0.00 35.94 3.32
1257 1350 2.631580 CCTCTCCGGCGAGCTATCC 61.632 68.421 16.26 0.00 35.94 2.59
1419 1524 8.021396 GTGTGTGTACCAAGGAAGAAATTAATC 58.979 37.037 0.00 0.00 0.00 1.75
1431 1536 0.932399 AATTAATCCGTACCGCGCAC 59.068 50.000 8.75 0.00 39.71 5.34
1529 1696 0.991920 TCCCTCCAACCAAGCTTAGG 59.008 55.000 0.00 6.00 0.00 2.69
1533 1700 3.230976 CCTCCAACCAAGCTTAGGTTTT 58.769 45.455 22.77 8.00 46.85 2.43
1555 1723 2.147958 GGTACCGAGCAAACATTGACA 58.852 47.619 0.00 0.00 0.00 3.58
1652 1820 6.102321 ACCCTCTCTCATGGACATCATTTATT 59.898 38.462 0.00 0.00 32.92 1.40
1681 1849 7.581213 ATGTTCTTCAATTGTGTCCAACTTA 57.419 32.000 5.13 0.00 32.26 2.24
1725 1894 1.414538 GGTATCCCCAGTCCATCAGGA 60.415 57.143 0.00 0.00 43.21 3.86
1737 1906 6.183361 CCAGTCCATCAGGATTTATGTCCTAA 60.183 42.308 0.00 0.00 46.85 2.69
1754 1923 8.823220 ATGTCCTAAACTTAATATTGGTGCTT 57.177 30.769 0.00 0.00 0.00 3.91
1792 1962 4.616181 ATTATTTCAGACTTTTCGGCGG 57.384 40.909 7.21 0.00 0.00 6.13
1803 1973 1.293924 TTTCGGCGGTGTTCGTTAAA 58.706 45.000 7.21 0.00 41.72 1.52
1806 1976 0.179210 CGGCGGTGTTCGTTAAATGG 60.179 55.000 0.00 0.00 41.72 3.16
1829 1999 5.163395 GGAAGGAGATGTTTTCCTCGACTAT 60.163 44.000 0.00 0.00 44.24 2.12
1883 2053 2.513753 TGATGTGCCGGTCATTTTCTT 58.486 42.857 1.90 0.00 0.00 2.52
1894 2064 2.814336 GTCATTTTCTTGGAGCGAAGGT 59.186 45.455 0.00 0.00 46.54 3.50
1911 2081 4.698575 GAAGGTGCTCAGTAAGGATAAGG 58.301 47.826 0.00 0.00 0.00 2.69
1912 2082 2.436173 AGGTGCTCAGTAAGGATAAGGC 59.564 50.000 0.00 0.00 0.00 4.35
1917 2087 4.238514 GCTCAGTAAGGATAAGGCATACG 58.761 47.826 0.00 0.00 0.00 3.06
1918 2088 4.262079 GCTCAGTAAGGATAAGGCATACGT 60.262 45.833 0.00 0.00 0.00 3.57
1919 2089 5.196341 TCAGTAAGGATAAGGCATACGTG 57.804 43.478 0.00 0.00 0.00 4.49
1920 2090 4.647853 TCAGTAAGGATAAGGCATACGTGT 59.352 41.667 0.00 0.00 0.00 4.49
1921 2091 4.745125 CAGTAAGGATAAGGCATACGTGTG 59.255 45.833 8.09 8.09 0.00 3.82
1922 2092 3.906720 AAGGATAAGGCATACGTGTGT 57.093 42.857 14.10 0.00 0.00 3.72
1933 2103 2.935481 TACGTGTGTGTGTGTGTGTA 57.065 45.000 0.00 0.00 0.00 2.90
1961 2131 7.933215 AGGTGTATATATGCTCGTGTATGTA 57.067 36.000 2.37 0.00 0.00 2.29
1962 2132 7.986562 AGGTGTATATATGCTCGTGTATGTAG 58.013 38.462 2.37 0.00 0.00 2.74
2045 3238 4.695455 GCAACACACACTATAAGTCACCAT 59.305 41.667 0.00 0.00 0.00 3.55
2092 3285 3.071479 GGCAAATCCACAAACTCGTAGA 58.929 45.455 0.00 0.00 34.01 2.59
2102 3295 8.114331 TCCACAAACTCGTAGATAAAGTCTAA 57.886 34.615 0.00 0.00 41.00 2.10
2106 3299 8.800332 ACAAACTCGTAGATAAAGTCTAAAGGA 58.200 33.333 0.00 0.00 41.00 3.36
2154 3347 6.892456 GGATTAGGGAAGAAAACAAGAGGAAT 59.108 38.462 0.00 0.00 0.00 3.01
2191 3384 7.039293 ACAGATTTTAGGTTAATTGGGTTGACC 60.039 37.037 0.00 0.00 44.61 4.02
2211 3404 0.173708 TTTTGTGTCGGTGGTTTGGC 59.826 50.000 0.00 0.00 0.00 4.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
173 191 1.306296 CCCACCAAATCCACCGGAT 59.694 57.895 9.46 0.00 45.46 4.18
244 262 3.057033 GGGCCGATAGAGAAAGCGTAATA 60.057 47.826 0.00 0.00 39.76 0.98
246 264 1.068127 GGGCCGATAGAGAAAGCGTAA 59.932 52.381 0.00 0.00 39.76 3.18
252 270 1.397390 GGACCGGGCCGATAGAGAAA 61.397 60.000 30.79 0.00 39.76 2.52
327 348 7.484993 TTGGGATGAATGATGTTGATCTTTT 57.515 32.000 0.00 0.00 0.00 2.27
328 349 7.484993 TTTGGGATGAATGATGTTGATCTTT 57.515 32.000 0.00 0.00 0.00 2.52
329 350 7.484993 TTTTGGGATGAATGATGTTGATCTT 57.515 32.000 0.00 0.00 0.00 2.40
330 351 7.364408 CCTTTTTGGGATGAATGATGTTGATCT 60.364 37.037 0.00 0.00 0.00 2.75
331 352 6.759827 CCTTTTTGGGATGAATGATGTTGATC 59.240 38.462 0.00 0.00 0.00 2.92
332 353 6.441284 TCCTTTTTGGGATGAATGATGTTGAT 59.559 34.615 0.00 0.00 36.20 2.57
333 354 5.779260 TCCTTTTTGGGATGAATGATGTTGA 59.221 36.000 0.00 0.00 36.20 3.18
334 355 6.040209 TCCTTTTTGGGATGAATGATGTTG 57.960 37.500 0.00 0.00 36.20 3.33
335 356 6.684897 TTCCTTTTTGGGATGAATGATGTT 57.315 33.333 0.00 0.00 35.07 2.71
336 357 6.684897 TTTCCTTTTTGGGATGAATGATGT 57.315 33.333 0.00 0.00 35.07 3.06
337 358 7.879160 TCTTTTTCCTTTTTGGGATGAATGATG 59.121 33.333 0.00 0.00 35.07 3.07
338 359 7.976712 TCTTTTTCCTTTTTGGGATGAATGAT 58.023 30.769 0.00 0.00 35.07 2.45
339 360 7.071071 ACTCTTTTTCCTTTTTGGGATGAATGA 59.929 33.333 0.00 0.00 35.07 2.57
340 361 7.219322 ACTCTTTTTCCTTTTTGGGATGAATG 58.781 34.615 0.00 0.00 35.07 2.67
341 362 7.379059 ACTCTTTTTCCTTTTTGGGATGAAT 57.621 32.000 0.00 0.00 35.07 2.57
342 363 6.806668 ACTCTTTTTCCTTTTTGGGATGAA 57.193 33.333 0.00 0.00 35.07 2.57
343 364 6.806668 AACTCTTTTTCCTTTTTGGGATGA 57.193 33.333 0.00 0.00 35.07 2.92
344 365 7.047271 TCAAACTCTTTTTCCTTTTTGGGATG 58.953 34.615 0.00 0.00 35.07 3.51
345 366 7.092891 ACTCAAACTCTTTTTCCTTTTTGGGAT 60.093 33.333 0.00 0.00 35.07 3.85
346 367 6.212589 ACTCAAACTCTTTTTCCTTTTTGGGA 59.787 34.615 0.00 0.00 36.20 4.37
347 368 6.313658 CACTCAAACTCTTTTTCCTTTTTGGG 59.686 38.462 0.00 0.00 36.20 4.12
348 369 7.096551 TCACTCAAACTCTTTTTCCTTTTTGG 58.903 34.615 0.00 0.00 37.10 3.28
349 370 8.707938 ATCACTCAAACTCTTTTTCCTTTTTG 57.292 30.769 0.00 0.00 0.00 2.44
350 371 7.981789 GGATCACTCAAACTCTTTTTCCTTTTT 59.018 33.333 0.00 0.00 0.00 1.94
351 372 7.417911 GGGATCACTCAAACTCTTTTTCCTTTT 60.418 37.037 0.00 0.00 0.00 2.27
352 373 6.040955 GGGATCACTCAAACTCTTTTTCCTTT 59.959 38.462 0.00 0.00 0.00 3.11
353 374 5.536538 GGGATCACTCAAACTCTTTTTCCTT 59.463 40.000 0.00 0.00 0.00 3.36
354 375 5.073428 GGGATCACTCAAACTCTTTTTCCT 58.927 41.667 0.00 0.00 0.00 3.36
355 376 4.218635 GGGGATCACTCAAACTCTTTTTCC 59.781 45.833 0.00 0.00 0.00 3.13
356 377 4.083271 CGGGGATCACTCAAACTCTTTTTC 60.083 45.833 0.00 0.00 0.00 2.29
362 383 0.744771 GCCGGGGATCACTCAAACTC 60.745 60.000 2.18 0.00 0.00 3.01
366 405 3.781307 CGGCCGGGGATCACTCAA 61.781 66.667 20.10 0.00 0.00 3.02
385 438 0.167908 TCTAGCATTTTTGCGCACCG 59.832 50.000 11.12 0.00 40.27 4.94
386 439 1.200020 AGTCTAGCATTTTTGCGCACC 59.800 47.619 11.12 0.00 40.27 5.01
388 441 3.424302 CGTAAGTCTAGCATTTTTGCGCA 60.424 43.478 5.66 5.66 40.27 6.09
423 476 6.927936 GGGAAAAGAAGGATTACGTAGGATAC 59.072 42.308 0.00 0.00 38.50 2.24
424 477 6.842807 AGGGAAAAGAAGGATTACGTAGGATA 59.157 38.462 0.00 0.00 0.00 2.59
425 478 5.666265 AGGGAAAAGAAGGATTACGTAGGAT 59.334 40.000 0.00 0.00 0.00 3.24
426 479 5.028131 AGGGAAAAGAAGGATTACGTAGGA 58.972 41.667 0.00 0.00 0.00 2.94
427 480 5.354842 AGGGAAAAGAAGGATTACGTAGG 57.645 43.478 0.00 0.00 0.00 3.18
428 481 6.760298 GGTTAGGGAAAAGAAGGATTACGTAG 59.240 42.308 0.00 0.00 0.00 3.51
429 482 6.213195 TGGTTAGGGAAAAGAAGGATTACGTA 59.787 38.462 0.00 0.00 0.00 3.57
430 483 5.013391 TGGTTAGGGAAAAGAAGGATTACGT 59.987 40.000 0.00 0.00 0.00 3.57
431 484 5.493809 TGGTTAGGGAAAAGAAGGATTACG 58.506 41.667 0.00 0.00 0.00 3.18
432 485 7.574404 CGTTTGGTTAGGGAAAAGAAGGATTAC 60.574 40.741 0.00 0.00 0.00 1.89
433 486 6.431852 CGTTTGGTTAGGGAAAAGAAGGATTA 59.568 38.462 0.00 0.00 0.00 1.75
434 487 5.243060 CGTTTGGTTAGGGAAAAGAAGGATT 59.757 40.000 0.00 0.00 0.00 3.01
435 488 4.765339 CGTTTGGTTAGGGAAAAGAAGGAT 59.235 41.667 0.00 0.00 0.00 3.24
436 489 4.139038 CGTTTGGTTAGGGAAAAGAAGGA 58.861 43.478 0.00 0.00 0.00 3.36
437 490 3.305131 GCGTTTGGTTAGGGAAAAGAAGG 60.305 47.826 0.00 0.00 0.00 3.46
438 491 3.305131 GGCGTTTGGTTAGGGAAAAGAAG 60.305 47.826 0.00 0.00 0.00 2.85
439 492 2.624364 GGCGTTTGGTTAGGGAAAAGAA 59.376 45.455 0.00 0.00 0.00 2.52
440 493 2.232399 GGCGTTTGGTTAGGGAAAAGA 58.768 47.619 0.00 0.00 0.00 2.52
441 494 1.271379 GGGCGTTTGGTTAGGGAAAAG 59.729 52.381 0.00 0.00 0.00 2.27
442 495 1.133419 AGGGCGTTTGGTTAGGGAAAA 60.133 47.619 0.00 0.00 0.00 2.29
443 496 0.479378 AGGGCGTTTGGTTAGGGAAA 59.521 50.000 0.00 0.00 0.00 3.13
444 497 0.037160 GAGGGCGTTTGGTTAGGGAA 59.963 55.000 0.00 0.00 0.00 3.97
445 498 1.681076 GAGGGCGTTTGGTTAGGGA 59.319 57.895 0.00 0.00 0.00 4.20
446 499 1.378119 GGAGGGCGTTTGGTTAGGG 60.378 63.158 0.00 0.00 0.00 3.53
447 500 1.378119 GGGAGGGCGTTTGGTTAGG 60.378 63.158 0.00 0.00 0.00 2.69
448 501 1.378119 GGGGAGGGCGTTTGGTTAG 60.378 63.158 0.00 0.00 0.00 2.34
449 502 2.758434 GGGGAGGGCGTTTGGTTA 59.242 61.111 0.00 0.00 0.00 2.85
450 503 4.295199 GGGGGAGGGCGTTTGGTT 62.295 66.667 0.00 0.00 0.00 3.67
468 521 2.583472 GGCCCACCCTGAAAATCAG 58.417 57.895 0.00 0.32 43.91 2.90
469 522 4.863415 GGCCCACCCTGAAAATCA 57.137 55.556 0.00 0.00 0.00 2.57
484 537 1.003696 GATATTAGTGGAGGCTGGGGC 59.996 57.143 0.00 0.00 37.82 5.80
485 538 1.630878 GGATATTAGTGGAGGCTGGGG 59.369 57.143 0.00 0.00 0.00 4.96
486 539 2.338809 TGGATATTAGTGGAGGCTGGG 58.661 52.381 0.00 0.00 0.00 4.45
487 540 4.647564 ATTGGATATTAGTGGAGGCTGG 57.352 45.455 0.00 0.00 0.00 4.85
488 541 5.624159 TCAATTGGATATTAGTGGAGGCTG 58.376 41.667 5.42 0.00 0.00 4.85
489 542 5.912149 TCAATTGGATATTAGTGGAGGCT 57.088 39.130 5.42 0.00 0.00 4.58
490 543 5.474876 CCTTCAATTGGATATTAGTGGAGGC 59.525 44.000 5.42 0.00 0.00 4.70
491 544 6.841601 TCCTTCAATTGGATATTAGTGGAGG 58.158 40.000 5.42 0.00 0.00 4.30
492 545 7.094463 GCATCCTTCAATTGGATATTAGTGGAG 60.094 40.741 5.42 0.00 41.94 3.86
493 546 6.716628 GCATCCTTCAATTGGATATTAGTGGA 59.283 38.462 5.42 0.00 41.94 4.02
494 547 6.071728 GGCATCCTTCAATTGGATATTAGTGG 60.072 42.308 5.42 0.00 41.94 4.00
495 548 6.491062 TGGCATCCTTCAATTGGATATTAGTG 59.509 38.462 5.42 0.00 41.94 2.74
496 549 6.613699 TGGCATCCTTCAATTGGATATTAGT 58.386 36.000 5.42 0.00 41.94 2.24
497 550 7.232127 AGTTGGCATCCTTCAATTGGATATTAG 59.768 37.037 5.42 0.00 41.94 1.73
498 551 7.068702 AGTTGGCATCCTTCAATTGGATATTA 58.931 34.615 5.42 0.00 41.94 0.98
499 552 5.901276 AGTTGGCATCCTTCAATTGGATATT 59.099 36.000 5.42 0.00 41.94 1.28
500 553 5.461327 AGTTGGCATCCTTCAATTGGATAT 58.539 37.500 5.42 0.00 41.94 1.63
501 554 4.870636 AGTTGGCATCCTTCAATTGGATA 58.129 39.130 5.42 0.00 41.94 2.59
502 555 3.703052 GAGTTGGCATCCTTCAATTGGAT 59.297 43.478 5.42 0.00 44.44 3.41
503 556 3.091545 GAGTTGGCATCCTTCAATTGGA 58.908 45.455 5.42 0.00 38.06 3.53
504 557 2.827322 TGAGTTGGCATCCTTCAATTGG 59.173 45.455 5.42 0.00 0.00 3.16
505 558 4.730949 ATGAGTTGGCATCCTTCAATTG 57.269 40.909 0.00 0.00 0.00 2.32
506 559 5.246656 TGAAATGAGTTGGCATCCTTCAATT 59.753 36.000 0.00 0.00 27.79 2.32
507 560 4.773674 TGAAATGAGTTGGCATCCTTCAAT 59.226 37.500 0.00 0.00 27.79 2.57
508 561 4.151121 TGAAATGAGTTGGCATCCTTCAA 58.849 39.130 0.00 0.00 27.79 2.69
509 562 3.765381 TGAAATGAGTTGGCATCCTTCA 58.235 40.909 0.00 0.00 0.00 3.02
510 563 4.996788 ATGAAATGAGTTGGCATCCTTC 57.003 40.909 0.00 0.00 0.00 3.46
511 564 4.142315 CGAATGAAATGAGTTGGCATCCTT 60.142 41.667 0.00 0.00 0.00 3.36
512 565 3.379372 CGAATGAAATGAGTTGGCATCCT 59.621 43.478 0.00 0.00 0.00 3.24
513 566 3.129287 ACGAATGAAATGAGTTGGCATCC 59.871 43.478 0.00 0.00 0.00 3.51
514 567 4.361451 ACGAATGAAATGAGTTGGCATC 57.639 40.909 0.00 0.00 0.00 3.91
515 568 5.647658 TCTTACGAATGAAATGAGTTGGCAT 59.352 36.000 0.00 0.00 0.00 4.40
516 569 5.000591 TCTTACGAATGAAATGAGTTGGCA 58.999 37.500 0.00 0.00 0.00 4.92
517 570 5.545658 TCTTACGAATGAAATGAGTTGGC 57.454 39.130 0.00 0.00 0.00 4.52
538 591 9.361712 GCACCTACGAAAATATTTTTACGTATC 57.638 33.333 23.82 14.89 34.54 2.24
539 592 8.057742 CGCACCTACGAAAATATTTTTACGTAT 58.942 33.333 23.82 14.17 34.54 3.06
540 593 7.062839 ACGCACCTACGAAAATATTTTTACGTA 59.937 33.333 22.89 22.89 34.13 3.57
541 594 6.128580 ACGCACCTACGAAAATATTTTTACGT 60.129 34.615 23.05 23.05 35.63 3.57
542 595 6.242829 ACGCACCTACGAAAATATTTTTACG 58.757 36.000 14.45 15.49 36.70 3.18
543 596 7.367997 CGTACGCACCTACGAAAATATTTTTAC 59.632 37.037 14.45 8.04 41.75 2.01
544 597 7.062839 ACGTACGCACCTACGAAAATATTTTTA 59.937 33.333 16.72 3.91 41.75 1.52
545 598 6.128580 ACGTACGCACCTACGAAAATATTTTT 60.129 34.615 16.72 2.92 41.75 1.94
546 599 5.348451 ACGTACGCACCTACGAAAATATTTT 59.652 36.000 16.72 13.24 41.75 1.82
547 600 4.864247 ACGTACGCACCTACGAAAATATTT 59.136 37.500 16.72 0.00 41.75 1.40
548 601 4.266029 CACGTACGCACCTACGAAAATATT 59.734 41.667 16.72 0.00 41.75 1.28
549 602 3.792956 CACGTACGCACCTACGAAAATAT 59.207 43.478 16.72 0.00 41.75 1.28
550 603 3.170505 CACGTACGCACCTACGAAAATA 58.829 45.455 16.72 0.00 41.75 1.40
551 604 1.987770 CACGTACGCACCTACGAAAAT 59.012 47.619 16.72 0.00 41.75 1.82
552 605 1.407434 CACGTACGCACCTACGAAAA 58.593 50.000 16.72 0.00 41.75 2.29
553 606 1.003262 GCACGTACGCACCTACGAAA 61.003 55.000 16.72 0.00 41.75 3.46
554 607 1.442520 GCACGTACGCACCTACGAA 60.443 57.895 16.72 0.00 41.75 3.85
555 608 2.176546 GCACGTACGCACCTACGA 59.823 61.111 16.72 0.00 41.75 3.43
620 682 3.899981 TTGATGGCCAGCGAGCGTT 62.900 57.895 17.68 0.00 0.00 4.84
622 684 3.570638 CTTGATGGCCAGCGAGCG 61.571 66.667 24.88 4.06 0.00 5.03
625 687 0.179065 CATCTCTTGATGGCCAGCGA 60.179 55.000 17.68 14.48 44.63 4.93
671 733 4.778579 AGTTTCACATGGAGATGATGGAG 58.221 43.478 0.00 0.00 33.36 3.86
672 734 4.384537 GGAGTTTCACATGGAGATGATGGA 60.385 45.833 0.00 0.00 33.36 3.41
673 735 3.881688 GGAGTTTCACATGGAGATGATGG 59.118 47.826 0.00 0.00 33.36 3.51
674 736 4.575236 CAGGAGTTTCACATGGAGATGATG 59.425 45.833 0.00 0.00 33.36 3.07
675 737 4.226846 ACAGGAGTTTCACATGGAGATGAT 59.773 41.667 0.00 0.00 33.36 2.45
676 738 3.584406 ACAGGAGTTTCACATGGAGATGA 59.416 43.478 0.00 0.00 33.36 2.92
677 739 3.947868 ACAGGAGTTTCACATGGAGATG 58.052 45.455 0.00 0.00 35.49 2.90
678 740 4.566488 GGAACAGGAGTTTCACATGGAGAT 60.566 45.833 0.00 0.00 38.30 2.75
679 741 3.244561 GGAACAGGAGTTTCACATGGAGA 60.245 47.826 0.00 0.00 38.30 3.71
777 851 5.503662 TGCGCATTTGTTAATCTGATGAT 57.496 34.783 5.66 0.00 33.70 2.45
778 852 4.961435 TGCGCATTTGTTAATCTGATGA 57.039 36.364 5.66 0.00 0.00 2.92
779 853 5.097529 ACTTGCGCATTTGTTAATCTGATG 58.902 37.500 12.75 0.00 0.00 3.07
837 912 1.293924 CGAACTGGCATCCTCATCAC 58.706 55.000 0.00 0.00 0.00 3.06
858 933 0.687757 TCGAGGAACTGAGGGATGGG 60.688 60.000 0.00 0.00 41.55 4.00
876 951 2.352960 GTCTGGTTTCATGGCGAGATTC 59.647 50.000 0.00 0.00 0.00 2.52
896 971 1.301244 CAGGTGCTCGACTGCTTGT 60.301 57.895 0.00 0.00 0.00 3.16
916 997 2.507769 TCAGTCATCTGCGCGCAG 60.508 61.111 46.54 46.54 44.86 5.18
917 998 2.810887 GTCAGTCATCTGCGCGCA 60.811 61.111 34.12 34.12 41.10 6.09
918 999 3.558411 GGTCAGTCATCTGCGCGC 61.558 66.667 27.26 27.26 41.10 6.86
919 1000 2.887568 GGGTCAGTCATCTGCGCG 60.888 66.667 0.00 0.00 41.10 6.86
920 1001 1.812922 CTGGGTCAGTCATCTGCGC 60.813 63.158 0.00 0.00 41.10 6.09
921 1002 1.812922 GCTGGGTCAGTCATCTGCG 60.813 63.158 0.00 0.00 41.10 5.18
922 1003 0.321919 TTGCTGGGTCAGTCATCTGC 60.322 55.000 0.00 0.00 41.10 4.26
923 1004 1.808945 GTTTGCTGGGTCAGTCATCTG 59.191 52.381 0.00 0.00 42.54 2.90
924 1005 1.701847 AGTTTGCTGGGTCAGTCATCT 59.298 47.619 0.00 0.00 33.43 2.90
925 1006 2.191128 AGTTTGCTGGGTCAGTCATC 57.809 50.000 0.00 0.00 33.43 2.92
926 1007 2.616510 GCTAGTTTGCTGGGTCAGTCAT 60.617 50.000 0.00 0.00 33.43 3.06
927 1008 1.270839 GCTAGTTTGCTGGGTCAGTCA 60.271 52.381 0.00 0.00 33.43 3.41
928 1009 1.270839 TGCTAGTTTGCTGGGTCAGTC 60.271 52.381 0.00 0.00 33.43 3.51
929 1010 0.764890 TGCTAGTTTGCTGGGTCAGT 59.235 50.000 0.00 0.00 33.43 3.41
930 1011 1.808945 CTTGCTAGTTTGCTGGGTCAG 59.191 52.381 0.00 0.00 34.12 3.51
931 1012 1.419762 TCTTGCTAGTTTGCTGGGTCA 59.580 47.619 0.00 0.00 0.00 4.02
932 1013 2.185004 TCTTGCTAGTTTGCTGGGTC 57.815 50.000 0.00 0.00 0.00 4.46
933 1014 2.158608 AGTTCTTGCTAGTTTGCTGGGT 60.159 45.455 0.00 0.00 0.00 4.51
934 1015 2.508526 AGTTCTTGCTAGTTTGCTGGG 58.491 47.619 0.00 0.00 0.00 4.45
935 1016 3.057946 GGAAGTTCTTGCTAGTTTGCTGG 60.058 47.826 2.25 0.00 0.00 4.85
936 1017 3.364366 CGGAAGTTCTTGCTAGTTTGCTG 60.364 47.826 2.25 0.00 0.00 4.41
937 1018 2.808543 CGGAAGTTCTTGCTAGTTTGCT 59.191 45.455 2.25 0.00 0.00 3.91
943 1024 0.723981 GCAGCGGAAGTTCTTGCTAG 59.276 55.000 18.44 14.59 35.56 3.42
965 1046 1.008309 GCAGTAGATCGACCGAGCC 60.008 63.158 3.94 0.00 0.00 4.70
973 1054 1.336332 CCCGGATCAAGCAGTAGATCG 60.336 57.143 0.73 0.00 41.16 3.69
979 1060 4.473520 CGGCCCGGATCAAGCAGT 62.474 66.667 0.73 0.00 0.00 4.40
1135 1216 1.305046 AGTACTGGTAGTGCCCGCT 60.305 57.895 0.00 0.00 36.04 5.52
1233 1326 3.707640 CTCGCCGGAGAGGTCCTCT 62.708 68.421 25.99 22.01 44.28 3.69
1303 1396 1.522569 GCATGCTACCGAACCTCCT 59.477 57.895 11.37 0.00 0.00 3.69
1483 1588 2.981560 CTGCCCAATGCGCGAAAGT 61.982 57.895 12.10 0.00 45.60 2.66
1529 1696 1.677052 TGTTTGCTCGGTACCCAAAAC 59.323 47.619 14.16 14.49 31.11 2.43
1533 1700 1.072489 TCAATGTTTGCTCGGTACCCA 59.928 47.619 6.25 0.00 0.00 4.51
1545 1712 3.791973 TCACGCCTTTTGTCAATGTTT 57.208 38.095 0.00 0.00 0.00 2.83
1555 1723 7.778470 TGTTTGAATTTATTTCACGCCTTTT 57.222 28.000 0.00 0.00 43.99 2.27
1578 1746 2.504681 GTTGGGCGCTCGCATTTG 60.505 61.111 16.36 0.00 44.11 2.32
1617 1785 0.179936 GAGAGAGGGTGATTGCCTGG 59.820 60.000 0.00 0.00 0.00 4.45
1620 1788 1.476471 CCATGAGAGAGGGTGATTGCC 60.476 57.143 0.00 0.00 0.00 4.52
1652 1820 7.815840 TGGACACAATTGAAGAACATAAAGA 57.184 32.000 13.59 0.00 0.00 2.52
1681 1849 1.076632 CCTCCTACGAGCCTGTCCT 60.077 63.158 0.00 0.00 34.49 3.85
1691 1859 0.592148 GATACCGCTGTCCTCCTACG 59.408 60.000 0.00 0.00 0.00 3.51
1728 1897 9.914834 AAGCACCAATATTAAGTTTAGGACATA 57.085 29.630 0.00 0.00 0.00 2.29
1786 1956 0.791422 CATTTAACGAACACCGCCGA 59.209 50.000 0.00 0.00 43.32 5.54
1792 1962 5.411669 ACATCTCCTTCCATTTAACGAACAC 59.588 40.000 0.00 0.00 0.00 3.32
1803 1973 3.519510 TCGAGGAAAACATCTCCTTCCAT 59.480 43.478 3.12 0.00 43.65 3.41
1806 1976 4.195225 AGTCGAGGAAAACATCTCCTTC 57.805 45.455 0.00 0.00 43.65 3.46
1829 1999 2.254546 AAGTCATCAAACGCACCTCA 57.745 45.000 0.00 0.00 0.00 3.86
1834 2004 4.275689 AGATTGACAAAGTCATCAAACGCA 59.724 37.500 0.12 0.00 42.40 5.24
1890 2060 3.118223 GCCTTATCCTTACTGAGCACCTT 60.118 47.826 0.00 0.00 0.00 3.50
1894 2064 4.262036 CGTATGCCTTATCCTTACTGAGCA 60.262 45.833 0.00 0.00 0.00 4.26
1911 2081 0.934496 ACACACACACACACGTATGC 59.066 50.000 0.00 0.00 0.00 3.14
1912 2082 1.930503 ACACACACACACACACGTATG 59.069 47.619 0.00 0.00 0.00 2.39
1917 2087 5.347635 CACCTATATACACACACACACACAC 59.652 44.000 0.00 0.00 0.00 3.82
1918 2088 5.011227 ACACCTATATACACACACACACACA 59.989 40.000 0.00 0.00 0.00 3.72
1919 2089 5.475719 ACACCTATATACACACACACACAC 58.524 41.667 0.00 0.00 0.00 3.82
1920 2090 5.731957 ACACCTATATACACACACACACA 57.268 39.130 0.00 0.00 0.00 3.72
1961 2131 3.247006 ACAATACAATCGAAGTCGCCT 57.753 42.857 0.00 0.00 39.60 5.52
1962 2132 5.652744 AATACAATACAATCGAAGTCGCC 57.347 39.130 0.00 0.00 39.60 5.54
1993 2163 3.504906 AGTCATGCCAAAGATTGACACTG 59.495 43.478 4.90 0.00 40.69 3.66
2028 3221 4.122776 GGAGCATGGTGACTTATAGTGTG 58.877 47.826 0.00 0.00 0.00 3.82
2062 3255 1.543642 TGGATTTGCCTCCCCTCCA 60.544 57.895 0.00 0.00 37.63 3.86
2063 3256 1.076705 GTGGATTTGCCTCCCCTCC 60.077 63.158 0.00 0.00 37.63 4.30
2102 3295 4.884961 TGGCTAGGATAAACTCTCTCCTT 58.115 43.478 0.00 0.00 39.99 3.36
2191 3384 1.801025 GCCAAACCACCGACACAAAAG 60.801 52.381 0.00 0.00 0.00 2.27
2211 3404 6.441274 CCTAAAAACATGGCAGCTATATGTG 58.559 40.000 9.57 0.00 35.39 3.21
2239 3432 8.576442 ACGGATTGACTTTCACATCTAAATTTT 58.424 29.630 0.00 0.00 0.00 1.82


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

AutoCloner maintained by Alex Coulton.