Multiple sequence alignment - TraesCS5B01G116600

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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 TraesCS5B01G116600 chr5B 100.000 3324 0 0 1 3324 201285442 201288765 0.000000e+00 6139.0
1 TraesCS5B01G116600 chr5B 79.654 231 37 4 536 765 498510371 498510592 1.230000e-34 158.0
2 TraesCS5B01G116600 chr5A 95.964 1536 46 4 834 2362 261910523 261912049 0.000000e+00 2479.0
3 TraesCS5B01G116600 chr5A 92.689 424 17 6 2666 3084 261912911 261913325 1.710000e-167 599.0
4 TraesCS5B01G116600 chr5A 94.212 311 10 3 2359 2665 261912345 261912651 5.020000e-128 468.0
5 TraesCS5B01G116600 chr5A 94.800 250 12 1 3075 3324 261914698 261914946 4.020000e-104 388.0
6 TraesCS5B01G116600 chr5D 94.858 1303 43 8 878 2179 159297824 159296545 0.000000e+00 2013.0
7 TraesCS5B01G116600 chr5D 96.084 664 14 6 2181 2841 159296486 159295832 0.000000e+00 1072.0
8 TraesCS5B01G116600 chr5D 93.663 505 23 6 2823 3323 159295812 159295313 0.000000e+00 747.0
9 TraesCS5B01G116600 chr5D 82.396 409 42 11 9 400 159299577 159299972 2.470000e-86 329.0
10 TraesCS5B01G116600 chr7D 88.148 405 29 11 1 400 54041959 54042349 6.500000e-127 464.0
11 TraesCS5B01G116600 chr6D 87.901 405 28 10 1 400 457683314 457683702 1.090000e-124 457.0
12 TraesCS5B01G116600 chr6D 82.620 397 49 9 428 807 457683571 457683964 1.910000e-87 333.0
13 TraesCS5B01G116600 chr3D 87.654 405 31 11 1 400 595888756 595888366 1.410000e-123 453.0
14 TraesCS5B01G116600 chr3D 88.889 369 27 8 2 366 1218594 1218236 3.040000e-120 442.0
15 TraesCS5B01G116600 chr3D 83.602 372 38 12 430 778 588730630 588730259 8.890000e-86 327.0
16 TraesCS5B01G116600 chr3D 83.824 272 32 4 536 807 565116311 565116570 7.120000e-62 248.0
17 TraesCS5B01G116600 chr3D 79.115 407 37 16 430 807 1218330 1217943 1.540000e-58 237.0
18 TraesCS5B01G116600 chr3D 81.273 267 29 9 430 675 416560018 416560284 2.620000e-46 196.0
19 TraesCS5B01G116600 chr3D 91.489 47 3 1 660 705 577415863 577415909 2.770000e-06 63.9
20 TraesCS5B01G116600 chr3B 85.096 416 34 11 1 400 52460977 52460574 1.860000e-107 399.0
21 TraesCS5B01G116600 chr3B 99.087 219 2 0 2621 2839 289747495 289747713 8.640000e-106 394.0
22 TraesCS5B01G116600 chr3B 84.116 277 29 7 536 812 739361081 739361342 1.530000e-63 254.0
23 TraesCS5B01G116600 chr2D 85.185 405 27 16 1 400 14562945 14563321 5.200000e-103 385.0
24 TraesCS5B01G116600 chr2D 85.714 392 25 10 9 397 43222034 43222397 5.200000e-103 385.0
25 TraesCS5B01G116600 chr2D 87.220 313 27 10 1 309 381384526 381384829 8.830000e-91 344.0
26 TraesCS5B01G116600 chr2D 85.902 305 26 10 9 309 381692031 381691740 3.220000e-80 309.0
27 TraesCS5B01G116600 chr2D 87.189 281 23 4 127 400 635765087 635764813 1.160000e-79 307.0
28 TraesCS5B01G116600 chr2D 85.614 285 28 5 523 807 92909429 92909700 1.510000e-73 287.0
29 TraesCS5B01G116600 chr2D 79.156 403 41 12 430 807 33788937 33788553 4.290000e-59 239.0
30 TraesCS5B01G116600 chr2D 76.555 418 39 21 430 807 25876366 25876764 1.230000e-39 174.0
31 TraesCS5B01G116600 chr2D 78.073 301 31 13 523 807 578501792 578502073 1.230000e-34 158.0
32 TraesCS5B01G116600 chr2D 95.745 94 4 0 430 523 43222278 43222371 5.740000e-33 152.0
33 TraesCS5B01G116600 chr2D 95.699 93 4 0 430 522 63375588 63375496 2.070000e-32 150.0
34 TraesCS5B01G116600 chr2D 94.737 95 5 0 430 524 68657044 68657138 7.430000e-32 148.0
35 TraesCS5B01G116600 chr2D 74.913 287 37 21 536 807 68691964 68692230 7.590000e-17 99.0
36 TraesCS5B01G116600 chr3A 82.245 383 47 14 430 794 749656094 749656473 8.950000e-81 311.0
37 TraesCS5B01G116600 chr3A 81.679 262 32 11 536 794 691076254 691076502 1.560000e-48 204.0
38 TraesCS5B01G116600 chrUn 86.397 272 25 4 536 807 26489772 26489513 1.510000e-73 287.0
39 TraesCS5B01G116600 chr7A 79.082 392 39 11 428 778 17776481 17776092 2.580000e-56 230.0
40 TraesCS5B01G116600 chr1D 78.601 243 23 5 536 777 26419600 26419386 2.080000e-27 134.0
41 TraesCS5B01G116600 chr7B 83.217 143 13 5 431 562 614592169 614592311 1.620000e-23 121.0
42 TraesCS5B01G116600 chr4D 92.683 41 3 0 665 705 483430292 483430252 3.580000e-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 TraesCS5B01G116600 chr5B 201285442 201288765 3323 False 6139.000000 6139 100.000000 1 3324 1 chr5B.!!$F1 3323
1 TraesCS5B01G116600 chr5A 261910523 261914946 4423 False 983.500000 2479 94.416250 834 3324 4 chr5A.!!$F1 2490
2 TraesCS5B01G116600 chr5D 159295313 159297824 2511 True 1277.333333 2013 94.868333 878 3323 3 chr5D.!!$R1 2445
3 TraesCS5B01G116600 chr6D 457683314 457683964 650 False 395.000000 457 85.260500 1 807 2 chr6D.!!$F1 806
4 TraesCS5B01G116600 chr3D 1217943 1218594 651 True 339.500000 442 84.002000 2 807 2 chr3D.!!$R3 805

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
446 451 0.108329 ATGGCCACGAAACGGTAGAG 60.108 55.0 8.16 0.0 0.0 2.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2428 2822 0.314935 GACACCCGTTTCGGTCACTA 59.685 55.0 7.4 0.0 46.8 2.74 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
19 21 0.918983 CAACCTTAGAGGGCCCATCA 59.081 55.000 27.56 4.52 40.58 3.07
63 65 2.616363 CCCCCATAGGTACCCCGA 59.384 66.667 8.74 0.00 35.12 5.14
89 92 1.803366 AACCTCTCCGTGACACGACC 61.803 60.000 28.83 0.00 46.05 4.79
106 109 3.423154 CGAAGCAAGGCCCGTGTC 61.423 66.667 0.00 0.00 0.00 3.67
303 308 1.071385 GTTGAGCCCTGGATCGATGAT 59.929 52.381 0.54 0.00 32.52 2.45
393 398 1.893808 GCATAGACATGGCACCCCG 60.894 63.158 0.00 0.00 32.36 5.73
411 416 3.124921 CGGACCATGGCCACGAAC 61.125 66.667 8.16 0.00 0.00 3.95
412 417 2.351276 GGACCATGGCCACGAACT 59.649 61.111 8.16 0.00 0.00 3.01
413 418 1.303317 GGACCATGGCCACGAACTT 60.303 57.895 8.16 0.00 0.00 2.66
414 419 1.305930 GGACCATGGCCACGAACTTC 61.306 60.000 8.16 0.00 0.00 3.01
415 420 1.303317 ACCATGGCCACGAACTTCC 60.303 57.895 8.16 0.00 0.00 3.46
416 421 2.046285 CCATGGCCACGAACTTCCC 61.046 63.158 8.16 0.00 0.00 3.97
417 422 1.002134 CATGGCCACGAACTTCCCT 60.002 57.895 8.16 0.00 0.00 4.20
418 423 0.609131 CATGGCCACGAACTTCCCTT 60.609 55.000 8.16 0.00 0.00 3.95
419 424 0.112412 ATGGCCACGAACTTCCCTTT 59.888 50.000 8.16 0.00 0.00 3.11
420 425 0.821711 TGGCCACGAACTTCCCTTTG 60.822 55.000 0.00 0.00 0.00 2.77
421 426 0.822121 GGCCACGAACTTCCCTTTGT 60.822 55.000 0.00 0.00 0.00 2.83
422 427 0.591659 GCCACGAACTTCCCTTTGTC 59.408 55.000 0.00 0.00 0.00 3.18
423 428 1.961793 CCACGAACTTCCCTTTGTCA 58.038 50.000 0.00 0.00 0.00 3.58
424 429 2.294074 CCACGAACTTCCCTTTGTCAA 58.706 47.619 0.00 0.00 0.00 3.18
425 430 2.032924 CCACGAACTTCCCTTTGTCAAC 59.967 50.000 0.00 0.00 0.00 3.18
426 431 1.937899 ACGAACTTCCCTTTGTCAACG 59.062 47.619 0.00 0.00 0.00 4.10
427 432 2.206750 CGAACTTCCCTTTGTCAACGA 58.793 47.619 0.00 0.00 0.00 3.85
428 433 2.806244 CGAACTTCCCTTTGTCAACGAT 59.194 45.455 0.00 0.00 0.00 3.73
429 434 3.363970 CGAACTTCCCTTTGTCAACGATG 60.364 47.826 0.00 0.00 0.00 3.84
430 435 2.504367 ACTTCCCTTTGTCAACGATGG 58.496 47.619 0.00 0.00 0.00 3.51
431 436 1.200020 CTTCCCTTTGTCAACGATGGC 59.800 52.381 0.00 0.00 0.00 4.40
432 437 0.608035 TCCCTTTGTCAACGATGGCC 60.608 55.000 0.00 0.00 0.00 5.36
433 438 0.893270 CCCTTTGTCAACGATGGCCA 60.893 55.000 8.56 8.56 0.00 5.36
434 439 0.240945 CCTTTGTCAACGATGGCCAC 59.759 55.000 8.16 0.47 0.00 5.01
435 440 0.110238 CTTTGTCAACGATGGCCACG 60.110 55.000 21.20 21.20 0.00 4.94
436 441 0.533085 TTTGTCAACGATGGCCACGA 60.533 50.000 27.07 9.96 34.70 4.35
437 442 0.533085 TTGTCAACGATGGCCACGAA 60.533 50.000 27.07 12.52 34.70 3.85
438 443 0.533085 TGTCAACGATGGCCACGAAA 60.533 50.000 27.07 13.15 34.70 3.46
439 444 0.110373 GTCAACGATGGCCACGAAAC 60.110 55.000 27.07 18.60 34.70 2.78
440 445 1.154488 CAACGATGGCCACGAAACG 60.154 57.895 27.07 20.24 34.70 3.60
441 446 2.322081 AACGATGGCCACGAAACGG 61.322 57.895 27.07 8.00 34.70 4.44
442 447 2.740826 CGATGGCCACGAAACGGT 60.741 61.111 8.16 0.00 0.00 4.83
443 448 1.446445 CGATGGCCACGAAACGGTA 60.446 57.895 8.16 0.00 0.00 4.02
444 449 1.418342 CGATGGCCACGAAACGGTAG 61.418 60.000 8.16 0.00 0.00 3.18
445 450 0.108520 GATGGCCACGAAACGGTAGA 60.109 55.000 8.16 0.00 0.00 2.59
446 451 0.108329 ATGGCCACGAAACGGTAGAG 60.108 55.000 8.16 0.00 0.00 2.43
447 452 2.098831 GGCCACGAAACGGTAGAGC 61.099 63.158 0.00 0.00 0.00 4.09
448 453 2.098831 GCCACGAAACGGTAGAGCC 61.099 63.158 0.00 0.00 0.00 4.70
449 454 1.447314 CCACGAAACGGTAGAGCCC 60.447 63.158 0.00 0.00 0.00 5.19
450 455 1.590147 CACGAAACGGTAGAGCCCT 59.410 57.895 0.00 0.00 0.00 5.19
451 456 0.736325 CACGAAACGGTAGAGCCCTG 60.736 60.000 0.00 0.00 0.00 4.45
452 457 1.153628 CGAAACGGTAGAGCCCTGG 60.154 63.158 0.00 0.00 0.00 4.45
453 458 1.601419 CGAAACGGTAGAGCCCTGGA 61.601 60.000 0.00 0.00 0.00 3.86
454 459 0.831307 GAAACGGTAGAGCCCTGGAT 59.169 55.000 0.00 0.00 0.00 3.41
455 460 0.831307 AAACGGTAGAGCCCTGGATC 59.169 55.000 0.00 0.00 0.00 3.36
456 461 1.392710 AACGGTAGAGCCCTGGATCG 61.393 60.000 0.00 0.00 35.44 3.69
457 462 1.528542 CGGTAGAGCCCTGGATCGA 60.529 63.158 0.00 0.00 35.44 3.59
458 463 0.896019 CGGTAGAGCCCTGGATCGAT 60.896 60.000 0.00 0.00 35.44 3.59
459 464 0.605589 GGTAGAGCCCTGGATCGATG 59.394 60.000 0.54 0.00 35.44 3.84
460 465 1.621992 GTAGAGCCCTGGATCGATGA 58.378 55.000 0.54 0.00 35.44 2.92
461 466 1.271102 GTAGAGCCCTGGATCGATGAC 59.729 57.143 0.54 0.00 35.44 3.06
462 467 1.006805 GAGCCCTGGATCGATGACG 60.007 63.158 0.54 0.00 41.26 4.35
463 468 1.739338 GAGCCCTGGATCGATGACGT 61.739 60.000 0.54 0.00 40.69 4.34
464 469 1.592669 GCCCTGGATCGATGACGTG 60.593 63.158 0.54 0.00 40.69 4.49
465 470 1.068083 CCCTGGATCGATGACGTGG 59.932 63.158 0.54 2.41 40.69 4.94
466 471 1.592669 CCTGGATCGATGACGTGGC 60.593 63.158 0.54 0.00 40.69 5.01
467 472 1.946156 CTGGATCGATGACGTGGCG 60.946 63.158 0.54 0.00 40.69 5.69
468 473 2.104331 GGATCGATGACGTGGCGT 59.896 61.111 0.54 0.00 45.10 5.68
469 474 1.357690 GGATCGATGACGTGGCGTA 59.642 57.895 0.54 0.00 41.37 4.42
470 475 0.660595 GGATCGATGACGTGGCGTAG 60.661 60.000 0.54 0.00 41.37 3.51
471 476 0.660595 GATCGATGACGTGGCGTAGG 60.661 60.000 0.54 0.00 41.37 3.18
472 477 2.071844 ATCGATGACGTGGCGTAGGG 62.072 60.000 0.00 0.00 41.37 3.53
473 478 2.585247 GATGACGTGGCGTAGGGC 60.585 66.667 0.00 1.39 41.37 5.19
474 479 4.508128 ATGACGTGGCGTAGGGCG 62.508 66.667 0.00 0.00 41.37 6.13
483 488 2.989824 CGTAGGGCGGGGATCGAT 60.990 66.667 0.00 0.00 42.43 3.59
484 489 2.657237 GTAGGGCGGGGATCGATG 59.343 66.667 0.54 0.00 42.43 3.84
485 490 1.906824 GTAGGGCGGGGATCGATGA 60.907 63.158 0.54 0.00 42.43 2.92
486 491 1.906824 TAGGGCGGGGATCGATGAC 60.907 63.158 0.54 0.00 42.43 3.06
487 492 4.664677 GGGCGGGGATCGATGACG 62.665 72.222 0.54 5.59 42.43 4.35
488 493 3.912907 GGCGGGGATCGATGACGT 61.913 66.667 0.54 0.00 42.43 4.34
489 494 2.658593 GCGGGGATCGATGACGTG 60.659 66.667 0.54 0.00 42.43 4.49
490 495 2.027605 CGGGGATCGATGACGTGG 59.972 66.667 0.54 0.00 42.43 4.94
491 496 2.280186 GGGGATCGATGACGTGGC 60.280 66.667 0.54 0.00 40.69 5.01
492 497 2.499205 GGGATCGATGACGTGGCA 59.501 61.111 0.54 0.00 40.69 4.92
493 498 1.153449 GGGATCGATGACGTGGCAA 60.153 57.895 0.54 0.00 40.69 4.52
494 499 1.154205 GGGATCGATGACGTGGCAAG 61.154 60.000 0.54 0.00 40.69 4.01
495 500 0.179111 GGATCGATGACGTGGCAAGA 60.179 55.000 0.54 0.00 40.69 3.02
496 501 1.539065 GGATCGATGACGTGGCAAGAT 60.539 52.381 0.54 0.00 40.69 2.40
497 502 1.789464 GATCGATGACGTGGCAAGATC 59.211 52.381 0.54 8.21 40.69 2.75
498 503 0.179111 TCGATGACGTGGCAAGATCC 60.179 55.000 7.60 0.00 40.69 3.36
499 504 0.460109 CGATGACGTGGCAAGATCCA 60.460 55.000 7.60 2.62 34.56 3.41
500 505 1.807755 CGATGACGTGGCAAGATCCAT 60.808 52.381 7.60 7.34 38.57 3.41
501 506 1.600957 GATGACGTGGCAAGATCCATG 59.399 52.381 7.60 0.80 46.15 3.66
502 507 0.392863 TGACGTGGCAAGATCCATGG 60.393 55.000 4.97 4.97 45.25 3.66
503 508 1.077501 ACGTGGCAAGATCCATGGG 60.078 57.895 13.02 0.00 45.25 4.00
504 509 2.484062 CGTGGCAAGATCCATGGGC 61.484 63.158 13.02 6.64 39.02 5.36
505 510 2.129785 GTGGCAAGATCCATGGGCC 61.130 63.158 19.05 19.05 44.82 5.80
506 511 2.279743 GGCAAGATCCATGGGCCA 59.720 61.111 20.47 9.61 44.01 5.36
507 512 1.831286 GGCAAGATCCATGGGCCAG 60.831 63.158 20.47 4.05 44.01 4.85
508 513 1.831286 GCAAGATCCATGGGCCAGG 60.831 63.158 13.78 12.92 0.00 4.45
509 514 1.925120 CAAGATCCATGGGCCAGGA 59.075 57.895 21.71 21.77 38.50 3.86
510 515 0.466922 CAAGATCCATGGGCCAGGAC 60.467 60.000 21.71 15.44 36.60 3.85
511 516 0.625683 AAGATCCATGGGCCAGGACT 60.626 55.000 21.71 17.12 36.60 3.85
512 517 0.268869 AGATCCATGGGCCAGGACTA 59.731 55.000 21.71 4.95 36.60 2.59
513 518 1.132267 AGATCCATGGGCCAGGACTAT 60.132 52.381 21.71 10.01 36.60 2.12
514 519 1.004044 GATCCATGGGCCAGGACTATG 59.996 57.143 21.71 11.95 36.60 2.23
515 520 1.228367 CCATGGGCCAGGACTATGC 60.228 63.158 21.71 0.00 0.00 3.14
516 521 1.228367 CATGGGCCAGGACTATGCC 60.228 63.158 14.11 4.04 44.59 4.40
517 522 2.822637 ATGGGCCAGGACTATGCCG 61.823 63.158 13.78 0.00 46.31 5.69
518 523 3.161450 GGGCCAGGACTATGCCGA 61.161 66.667 4.39 0.00 46.31 5.54
519 524 2.109181 GGCCAGGACTATGCCGAC 59.891 66.667 0.00 0.00 35.08 4.79
520 525 2.279517 GCCAGGACTATGCCGACG 60.280 66.667 0.00 0.00 0.00 5.12
521 526 2.417516 CCAGGACTATGCCGACGG 59.582 66.667 10.29 10.29 0.00 4.79
560 590 2.277949 ACGCGGATCGATGACGTG 60.278 61.111 23.18 23.18 41.67 4.49
571 601 1.067565 CGATGACGTGGGCATAGCTAT 60.068 52.381 0.00 0.00 34.56 2.97
572 602 2.341257 GATGACGTGGGCATAGCTATG 58.659 52.381 26.42 26.42 36.78 2.23
629 659 2.660552 CCTGACGCCGTCAAACGT 60.661 61.111 21.56 0.00 42.26 3.99
716 746 2.739292 GTAGGCATATTTCTCGCGACA 58.261 47.619 3.71 0.00 0.00 4.35
729 759 3.733960 CGACACCGACGGCTGAGA 61.734 66.667 15.39 0.00 38.22 3.27
740 770 1.660355 GGCTGAGATATGCCGACGA 59.340 57.895 0.00 0.00 39.71 4.20
742 772 0.387878 GCTGAGATATGCCGACGAGG 60.388 60.000 0.00 0.00 44.97 4.63
768 798 1.067565 CGGCACAGATGGATATACGCT 60.068 52.381 0.00 0.00 0.00 5.07
773 803 3.058224 CACAGATGGATATACGCTGACGA 60.058 47.826 13.01 0.00 43.93 4.20
775 805 3.189495 CAGATGGATATACGCTGACGACT 59.811 47.826 2.25 0.00 43.93 4.18
807 837 2.343758 GCTTGAGCTGGGACGTCA 59.656 61.111 18.91 0.00 38.21 4.35
808 838 1.739562 GCTTGAGCTGGGACGTCAG 60.740 63.158 18.91 8.97 38.21 3.51
814 844 2.573869 CTGGGACGTCAGCATCGT 59.426 61.111 18.91 0.91 44.27 3.73
821 851 2.941453 ACGTCAGCATCGTCAGTTAT 57.059 45.000 0.00 0.00 36.85 1.89
822 852 3.232213 ACGTCAGCATCGTCAGTTATT 57.768 42.857 0.00 0.00 36.85 1.40
823 853 3.179830 ACGTCAGCATCGTCAGTTATTC 58.820 45.455 0.00 0.00 36.85 1.75
824 854 3.119459 ACGTCAGCATCGTCAGTTATTCT 60.119 43.478 0.00 0.00 36.85 2.40
825 855 3.241553 CGTCAGCATCGTCAGTTATTCTG 59.758 47.826 0.00 0.00 44.85 3.02
858 888 5.428496 AAACTATTCATCATCATGCCACG 57.572 39.130 0.00 0.00 0.00 4.94
900 930 5.648960 TGATGTCAGCATGCTAAAGAAATGA 59.351 36.000 22.19 9.00 35.07 2.57
995 1025 2.046314 CACCTTACCCCGCACCAG 60.046 66.667 0.00 0.00 0.00 4.00
997 1027 2.267961 CCTTACCCCGCACCAGAC 59.732 66.667 0.00 0.00 0.00 3.51
1000 1030 4.642488 TACCCCGCACCAGACCCA 62.642 66.667 0.00 0.00 0.00 4.51
1026 1056 5.650703 GGTTTATGTTATGTACACTGGCCTT 59.349 40.000 3.32 0.00 40.19 4.35
1077 1107 3.245407 CCCCTTTGAACATTCTCCTCCTT 60.245 47.826 0.00 0.00 0.00 3.36
1095 1125 2.279851 CCATAATGTCGGCCGCGA 60.280 61.111 23.51 9.72 0.00 5.87
1279 1309 2.693864 CCATGGCAGAGGACCCCT 60.694 66.667 0.00 0.00 36.03 4.79
1301 1331 2.601367 CCCCCACCAGCCAACAAG 60.601 66.667 0.00 0.00 0.00 3.16
1303 1333 2.520458 CCCACCAGCCAACAAGGA 59.480 61.111 0.00 0.00 41.22 3.36
1400 1430 1.668047 CGTCCAGGAACCAAGTACGAC 60.668 57.143 0.00 0.00 0.00 4.34
1583 1613 1.202806 TCTGTTCCCAGCTGGTTCTTG 60.203 52.381 30.63 15.44 38.66 3.02
1616 1646 4.265056 GGCGGGTTCAGTGGTGGT 62.265 66.667 0.00 0.00 0.00 4.16
1638 1668 2.105930 GCACCTCCTCTAGCGCAG 59.894 66.667 11.47 5.22 0.00 5.18
1883 1920 2.741433 ATGCATGCATGGTCCATCC 58.259 52.632 31.74 9.80 35.03 3.51
1907 1944 5.006649 CGCATCGATCTTTTAACTTGGATCA 59.993 40.000 0.00 0.00 35.62 2.92
2015 2052 4.702131 AGATATTGACTTCCTTTGGTGTGC 59.298 41.667 0.00 0.00 0.00 4.57
2019 2056 1.166531 ACTTCCTTTGGTGTGCGCTC 61.167 55.000 9.73 5.51 0.00 5.03
2179 2217 8.278482 CACTCTTTCTTTGTGCTTAATTTCTG 57.722 34.615 0.00 0.00 0.00 3.02
2196 2291 9.868277 TTAATTTCTGTTTTATATGTGCCCTTG 57.132 29.630 0.00 0.00 0.00 3.61
2338 2433 4.873827 TGGTTCTAATCGTTCAGCCATTAC 59.126 41.667 0.00 0.00 0.00 1.89
2427 2821 2.413837 ACGAGTGTACCACATTCAAGC 58.586 47.619 0.00 0.00 34.92 4.01
2428 2822 2.037251 ACGAGTGTACCACATTCAAGCT 59.963 45.455 0.00 0.00 34.92 3.74
2429 2823 3.257375 ACGAGTGTACCACATTCAAGCTA 59.743 43.478 0.00 0.00 34.92 3.32
2430 2824 3.859961 CGAGTGTACCACATTCAAGCTAG 59.140 47.826 0.00 0.00 34.92 3.42
2466 2860 0.808755 CGGTGTATCCAAACAAGCCC 59.191 55.000 0.00 0.00 35.57 5.19
2485 2879 4.459337 AGCCCTCAAGAAAAAGAAATACCG 59.541 41.667 0.00 0.00 0.00 4.02
2603 3000 2.759973 TGGCAGGGGACGCTAGAG 60.760 66.667 0.00 0.00 0.00 2.43
2637 3034 1.283029 ACCTAGCAGTGCATCCATGTT 59.717 47.619 19.20 0.00 0.00 2.71
2687 3344 0.030101 GTTTAAAGTGGCAGCGCACA 59.970 50.000 11.47 2.05 0.00 4.57
2822 3479 2.032981 CGCCACCCCATGATTAAGC 58.967 57.895 0.00 0.00 0.00 3.09
2823 3480 0.466189 CGCCACCCCATGATTAAGCT 60.466 55.000 0.00 0.00 0.00 3.74
2824 3481 1.322442 GCCACCCCATGATTAAGCTC 58.678 55.000 0.00 0.00 0.00 4.09
2825 3482 1.133668 GCCACCCCATGATTAAGCTCT 60.134 52.381 0.00 0.00 0.00 4.09
2826 3483 2.856222 CCACCCCATGATTAAGCTCTC 58.144 52.381 0.00 0.00 0.00 3.20
2827 3484 2.441001 CCACCCCATGATTAAGCTCTCT 59.559 50.000 0.00 0.00 0.00 3.10
2828 3485 3.495806 CCACCCCATGATTAAGCTCTCTC 60.496 52.174 0.00 0.00 0.00 3.20
2872 3573 1.004560 TGACTGCTGGTAGCTGCAC 60.005 57.895 20.75 13.44 42.95 4.57
2884 3585 2.108514 GCTGCACGCCTGCTTATGA 61.109 57.895 9.13 0.00 44.57 2.15
2888 3589 0.097674 GCACGCCTGCTTATGACTTG 59.902 55.000 0.00 0.00 40.63 3.16
2919 3622 4.471904 TTGGTGTACACATGATCTCCTC 57.528 45.455 26.51 6.49 0.00 3.71
2947 3650 2.024176 TGTGTCTACCCTGGACATGT 57.976 50.000 0.00 0.00 44.04 3.21
2971 3674 4.403432 ACCTGAACAATAGGAAATGGCATG 59.597 41.667 0.00 0.00 38.71 4.06
3015 3722 3.187058 GCACCACCGCCATAACTG 58.813 61.111 0.00 0.00 0.00 3.16
3021 3728 0.250793 CACCGCCATAACTGGGTGTA 59.749 55.000 1.00 0.00 43.36 2.90
3068 3775 3.368948 GGAAAAACTTTGGAGTGGTTGCA 60.369 43.478 0.00 0.00 35.91 4.08
3108 5197 7.499232 GCAAAGATCTAGGGTTTATGTGTGTAT 59.501 37.037 0.00 0.00 0.00 2.29
3117 5206 5.390613 GGTTTATGTGTGTATTGTGAGTGC 58.609 41.667 0.00 0.00 0.00 4.40
3177 5266 3.694072 CGAATGACCCAAGAAGCCAATTA 59.306 43.478 0.00 0.00 0.00 1.40
3279 5368 9.331282 ACAAAATCTGGCTTGAACTCTATATAC 57.669 33.333 0.00 0.00 0.00 1.47
3300 5389 2.260844 TGTGTTGAGCTCCCTCTTTG 57.739 50.000 12.15 0.00 38.93 2.77
3320 5409 2.742053 TGCCTTTCTGCGATTACAAGTC 59.258 45.455 0.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 1.004277 GTGTTGTGATGGGCCCTCTAA 59.996 52.381 25.70 13.72 0.00 2.10
17 19 2.974692 AATGCCGCCAGGTGTTGTGA 62.975 55.000 0.00 0.00 40.50 3.58
19 21 2.203480 AATGCCGCCAGGTGTTGT 60.203 55.556 0.00 0.00 40.50 3.32
63 65 0.469331 TCACGGAGAGGTTGACAGGT 60.469 55.000 0.00 0.00 0.00 4.00
66 68 0.387929 GTGTCACGGAGAGGTTGACA 59.612 55.000 0.00 0.00 37.20 3.58
89 92 3.423154 GACACGGGCCTTGCTTCG 61.423 66.667 10.35 0.00 0.00 3.79
238 243 3.467803 GACGGCTTTGTCTTAGGCATAT 58.532 45.455 0.00 0.00 38.02 1.78
271 276 3.411351 CTCAACCGTTCCGTGGCG 61.411 66.667 0.00 0.00 0.00 5.69
285 290 0.683412 CATCATCGATCCAGGGCTCA 59.317 55.000 0.00 0.00 0.00 4.26
396 401 1.305930 GGAAGTTCGTGGCCATGGTC 61.306 60.000 24.78 10.20 0.00 4.02
397 402 1.303317 GGAAGTTCGTGGCCATGGT 60.303 57.895 24.78 7.32 0.00 3.55
398 403 2.046285 GGGAAGTTCGTGGCCATGG 61.046 63.158 24.78 7.63 0.00 3.66
399 404 0.609131 AAGGGAAGTTCGTGGCCATG 60.609 55.000 19.62 19.62 0.00 3.66
400 405 0.112412 AAAGGGAAGTTCGTGGCCAT 59.888 50.000 9.72 0.00 0.00 4.40
401 406 0.821711 CAAAGGGAAGTTCGTGGCCA 60.822 55.000 0.00 0.00 0.00 5.36
402 407 0.822121 ACAAAGGGAAGTTCGTGGCC 60.822 55.000 0.00 0.00 0.00 5.36
403 408 0.591659 GACAAAGGGAAGTTCGTGGC 59.408 55.000 0.00 0.00 0.00 5.01
404 409 1.961793 TGACAAAGGGAAGTTCGTGG 58.038 50.000 0.00 0.00 0.00 4.94
405 410 2.286184 CGTTGACAAAGGGAAGTTCGTG 60.286 50.000 0.00 0.00 0.00 4.35
406 411 1.937899 CGTTGACAAAGGGAAGTTCGT 59.062 47.619 0.00 0.00 0.00 3.85
407 412 2.206750 TCGTTGACAAAGGGAAGTTCG 58.793 47.619 1.16 0.00 0.00 3.95
408 413 3.058224 CCATCGTTGACAAAGGGAAGTTC 60.058 47.826 1.16 0.00 0.00 3.01
409 414 2.884639 CCATCGTTGACAAAGGGAAGTT 59.115 45.455 1.16 0.00 0.00 2.66
410 415 2.504367 CCATCGTTGACAAAGGGAAGT 58.496 47.619 1.16 0.00 0.00 3.01
411 416 1.200020 GCCATCGTTGACAAAGGGAAG 59.800 52.381 1.16 0.00 0.00 3.46
412 417 1.243902 GCCATCGTTGACAAAGGGAA 58.756 50.000 1.16 0.00 0.00 3.97
413 418 0.608035 GGCCATCGTTGACAAAGGGA 60.608 55.000 0.00 0.00 0.00 4.20
414 419 0.893270 TGGCCATCGTTGACAAAGGG 60.893 55.000 0.00 0.00 0.00 3.95
415 420 0.240945 GTGGCCATCGTTGACAAAGG 59.759 55.000 9.72 0.00 0.00 3.11
416 421 0.110238 CGTGGCCATCGTTGACAAAG 60.110 55.000 9.72 0.00 0.00 2.77
417 422 0.533085 TCGTGGCCATCGTTGACAAA 60.533 50.000 21.61 4.03 0.00 2.83
418 423 0.533085 TTCGTGGCCATCGTTGACAA 60.533 50.000 21.61 9.89 0.00 3.18
419 424 0.533085 TTTCGTGGCCATCGTTGACA 60.533 50.000 21.61 5.20 0.00 3.58
420 425 0.110373 GTTTCGTGGCCATCGTTGAC 60.110 55.000 21.61 15.90 0.00 3.18
421 426 1.561717 CGTTTCGTGGCCATCGTTGA 61.562 55.000 21.61 8.56 0.00 3.18
422 427 1.154488 CGTTTCGTGGCCATCGTTG 60.154 57.895 21.61 6.59 0.00 4.10
423 428 2.322081 CCGTTTCGTGGCCATCGTT 61.322 57.895 21.61 0.00 0.00 3.85
424 429 2.157305 TACCGTTTCGTGGCCATCGT 62.157 55.000 21.61 8.82 0.00 3.73
425 430 1.418342 CTACCGTTTCGTGGCCATCG 61.418 60.000 9.72 15.20 0.00 3.84
426 431 0.108520 TCTACCGTTTCGTGGCCATC 60.109 55.000 9.72 1.29 0.00 3.51
427 432 0.108329 CTCTACCGTTTCGTGGCCAT 60.108 55.000 9.72 0.00 0.00 4.40
428 433 1.290955 CTCTACCGTTTCGTGGCCA 59.709 57.895 0.00 0.00 0.00 5.36
429 434 2.098831 GCTCTACCGTTTCGTGGCC 61.099 63.158 0.00 0.00 0.00 5.36
430 435 2.098831 GGCTCTACCGTTTCGTGGC 61.099 63.158 0.00 0.00 0.00 5.01
431 436 1.447314 GGGCTCTACCGTTTCGTGG 60.447 63.158 0.00 0.00 40.62 4.94
432 437 0.736325 CAGGGCTCTACCGTTTCGTG 60.736 60.000 0.00 0.00 40.62 4.35
433 438 1.590147 CAGGGCTCTACCGTTTCGT 59.410 57.895 0.00 0.00 40.62 3.85
434 439 1.153628 CCAGGGCTCTACCGTTTCG 60.154 63.158 0.00 0.00 40.62 3.46
435 440 0.831307 ATCCAGGGCTCTACCGTTTC 59.169 55.000 0.00 0.00 40.62 2.78
436 441 0.831307 GATCCAGGGCTCTACCGTTT 59.169 55.000 0.00 0.00 40.62 3.60
437 442 1.392710 CGATCCAGGGCTCTACCGTT 61.393 60.000 0.00 0.00 40.62 4.44
438 443 1.828660 CGATCCAGGGCTCTACCGT 60.829 63.158 0.00 0.00 40.62 4.83
439 444 0.896019 ATCGATCCAGGGCTCTACCG 60.896 60.000 0.00 0.00 40.62 4.02
440 445 0.605589 CATCGATCCAGGGCTCTACC 59.394 60.000 0.00 0.00 37.93 3.18
441 446 1.271102 GTCATCGATCCAGGGCTCTAC 59.729 57.143 0.00 0.00 0.00 2.59
442 447 1.621992 GTCATCGATCCAGGGCTCTA 58.378 55.000 0.00 0.00 0.00 2.43
443 448 1.459455 CGTCATCGATCCAGGGCTCT 61.459 60.000 0.00 0.00 39.71 4.09
444 449 1.006805 CGTCATCGATCCAGGGCTC 60.007 63.158 0.00 0.00 39.71 4.70
445 450 1.758514 ACGTCATCGATCCAGGGCT 60.759 57.895 0.00 0.00 40.62 5.19
446 451 1.592669 CACGTCATCGATCCAGGGC 60.593 63.158 0.00 0.00 40.62 5.19
447 452 1.068083 CCACGTCATCGATCCAGGG 59.932 63.158 0.00 0.00 40.62 4.45
448 453 1.592669 GCCACGTCATCGATCCAGG 60.593 63.158 0.00 0.00 40.62 4.45
449 454 1.946156 CGCCACGTCATCGATCCAG 60.946 63.158 0.00 0.00 40.62 3.86
450 455 1.378124 TACGCCACGTCATCGATCCA 61.378 55.000 0.00 0.00 41.54 3.41
451 456 0.660595 CTACGCCACGTCATCGATCC 60.661 60.000 0.00 0.00 41.54 3.36
452 457 0.660595 CCTACGCCACGTCATCGATC 60.661 60.000 0.00 0.00 41.54 3.69
453 458 1.359117 CCTACGCCACGTCATCGAT 59.641 57.895 7.49 0.00 41.54 3.59
454 459 2.767445 CCCTACGCCACGTCATCGA 61.767 63.158 7.49 0.00 41.54 3.59
455 460 2.278596 CCCTACGCCACGTCATCG 60.279 66.667 0.00 0.00 41.54 3.84
456 461 2.585247 GCCCTACGCCACGTCATC 60.585 66.667 0.00 0.00 41.54 2.92
457 462 4.508128 CGCCCTACGCCACGTCAT 62.508 66.667 0.00 0.00 41.54 3.06
466 471 2.989824 ATCGATCCCCGCCCTACG 60.990 66.667 0.00 0.00 43.15 3.51
467 472 1.906824 TCATCGATCCCCGCCCTAC 60.907 63.158 0.00 0.00 38.37 3.18
468 473 1.906824 GTCATCGATCCCCGCCCTA 60.907 63.158 0.00 0.00 38.37 3.53
469 474 3.234730 GTCATCGATCCCCGCCCT 61.235 66.667 0.00 0.00 38.37 5.19
470 475 4.664677 CGTCATCGATCCCCGCCC 62.665 72.222 0.00 0.00 39.71 6.13
471 476 3.912907 ACGTCATCGATCCCCGCC 61.913 66.667 0.00 0.00 40.62 6.13
472 477 2.658593 CACGTCATCGATCCCCGC 60.659 66.667 0.00 0.00 40.62 6.13
473 478 2.027605 CCACGTCATCGATCCCCG 59.972 66.667 0.00 0.22 40.62 5.73
474 479 2.280186 GCCACGTCATCGATCCCC 60.280 66.667 0.00 0.00 40.62 4.81
475 480 1.153449 TTGCCACGTCATCGATCCC 60.153 57.895 0.00 0.00 40.62 3.85
476 481 0.179111 TCTTGCCACGTCATCGATCC 60.179 55.000 0.00 0.00 40.62 3.36
477 482 1.789464 GATCTTGCCACGTCATCGATC 59.211 52.381 0.00 0.00 40.62 3.69
478 483 1.539065 GGATCTTGCCACGTCATCGAT 60.539 52.381 0.00 0.00 40.62 3.59
479 484 0.179111 GGATCTTGCCACGTCATCGA 60.179 55.000 0.00 0.00 40.62 3.59
480 485 0.460109 TGGATCTTGCCACGTCATCG 60.460 55.000 0.00 0.00 43.34 3.84
481 486 1.600957 CATGGATCTTGCCACGTCATC 59.399 52.381 0.00 0.00 41.56 2.92
482 487 1.671979 CATGGATCTTGCCACGTCAT 58.328 50.000 0.00 0.00 41.56 3.06
483 488 0.392863 CCATGGATCTTGCCACGTCA 60.393 55.000 5.56 0.00 41.56 4.35
484 489 1.097547 CCCATGGATCTTGCCACGTC 61.098 60.000 15.22 0.00 41.56 4.34
485 490 1.077501 CCCATGGATCTTGCCACGT 60.078 57.895 15.22 0.00 41.56 4.49
486 491 2.484062 GCCCATGGATCTTGCCACG 61.484 63.158 15.22 0.00 41.56 4.94
487 492 2.129785 GGCCCATGGATCTTGCCAC 61.130 63.158 20.47 0.00 41.56 5.01
488 493 2.279743 GGCCCATGGATCTTGCCA 59.720 61.111 20.47 0.00 41.76 4.92
489 494 1.831286 CTGGCCCATGGATCTTGCC 60.831 63.158 15.22 17.57 42.49 4.52
490 495 1.831286 CCTGGCCCATGGATCTTGC 60.831 63.158 15.22 7.42 0.00 4.01
491 496 0.466922 GTCCTGGCCCATGGATCTTG 60.467 60.000 15.22 0.00 34.58 3.02
492 497 0.625683 AGTCCTGGCCCATGGATCTT 60.626 55.000 15.22 0.58 34.58 2.40
493 498 0.268869 TAGTCCTGGCCCATGGATCT 59.731 55.000 15.22 12.12 34.58 2.75
494 499 1.004044 CATAGTCCTGGCCCATGGATC 59.996 57.143 15.22 5.26 34.58 3.36
495 500 1.070604 CATAGTCCTGGCCCATGGAT 58.929 55.000 15.22 0.00 34.58 3.41
496 501 1.708993 GCATAGTCCTGGCCCATGGA 61.709 60.000 15.22 2.12 0.00 3.41
497 502 1.228367 GCATAGTCCTGGCCCATGG 60.228 63.158 4.14 4.14 0.00 3.66
498 503 1.228367 GGCATAGTCCTGGCCCATG 60.228 63.158 0.00 0.00 41.90 3.66
499 504 2.822637 CGGCATAGTCCTGGCCCAT 61.823 63.158 0.00 0.00 44.90 4.00
500 505 3.479203 CGGCATAGTCCTGGCCCA 61.479 66.667 0.00 0.00 44.90 5.36
501 506 3.161450 TCGGCATAGTCCTGGCCC 61.161 66.667 0.00 0.00 44.90 5.80
502 507 2.109181 GTCGGCATAGTCCTGGCC 59.891 66.667 0.00 0.00 44.27 5.36
503 508 2.279517 CGTCGGCATAGTCCTGGC 60.280 66.667 0.00 0.00 38.28 4.85
504 509 2.417516 CCGTCGGCATAGTCCTGG 59.582 66.667 0.00 0.00 0.00 4.45
539 544 4.624117 TCATCGATCCGCGTCGCC 62.624 66.667 12.44 0.00 41.22 5.54
593 623 1.226491 CTACACCGACGGGCTAACG 60.226 63.158 20.00 1.62 36.48 3.18
607 637 2.089887 TTTGACGGCGTCAGGCTACA 62.090 55.000 36.94 22.27 43.69 2.74
716 746 1.364171 GCATATCTCAGCCGTCGGT 59.636 57.895 13.94 0.00 0.00 4.69
753 783 3.189495 AGTCGTCAGCGTATATCCATCTG 59.811 47.826 0.00 0.00 39.49 2.90
758 788 4.608951 AGAAAAGTCGTCAGCGTATATCC 58.391 43.478 0.00 0.00 39.49 2.59
768 798 0.592637 TCGGCGTAGAAAAGTCGTCA 59.407 50.000 6.85 0.00 36.76 4.35
773 803 1.735559 GCCGTCGGCGTAGAAAAGT 60.736 57.895 22.50 0.00 39.62 2.66
802 832 2.941453 ATAACTGACGATGCTGACGT 57.059 45.000 0.00 0.00 46.58 4.34
829 859 9.831737 GGCATGATGATGAATAGTTTATTACAC 57.168 33.333 0.00 0.00 0.00 2.90
830 860 9.571816 TGGCATGATGATGAATAGTTTATTACA 57.428 29.630 0.00 0.00 0.00 2.41
831 861 9.831737 GTGGCATGATGATGAATAGTTTATTAC 57.168 33.333 0.00 0.00 0.00 1.89
832 862 8.720562 CGTGGCATGATGATGAATAGTTTATTA 58.279 33.333 0.00 0.00 0.00 0.98
912 942 9.733556 CTGTACTAGATGGATGTACTAGAAGAT 57.266 37.037 0.00 0.00 37.85 2.40
917 947 7.604927 GGACTCTGTACTAGATGGATGTACTAG 59.395 44.444 0.00 0.00 37.85 2.57
995 1025 5.587443 GTGTACATAACATAAACCCTGGGTC 59.413 44.000 20.85 1.90 41.10 4.46
997 1027 5.588648 CAGTGTACATAACATAAACCCTGGG 59.411 44.000 12.28 12.28 41.10 4.45
1000 1030 5.190677 GCCAGTGTACATAACATAAACCCT 58.809 41.667 0.00 0.00 41.10 4.34
1004 1034 6.717289 AGAAGGCCAGTGTACATAACATAAA 58.283 36.000 5.01 0.00 41.10 1.40
1026 1056 3.006430 TCTGCGTTTCATGTAGGTTGAGA 59.994 43.478 0.00 0.00 0.00 3.27
1077 1107 2.279851 CGCGGCCGACATTATGGA 60.280 61.111 33.48 0.00 36.29 3.41
1186 1216 1.140407 CTTCTCCGGATGCGAACGTC 61.140 60.000 8.71 0.00 0.00 4.34
1195 1225 4.162690 GCGGTGGCTTCTCCGGAT 62.163 66.667 3.57 0.00 44.82 4.18
1322 1352 1.233019 CTCTGGTTGCTGTTGTGAGG 58.767 55.000 0.00 0.00 0.00 3.86
1376 1406 2.027625 CTTGGTTCCTGGACGTCGC 61.028 63.158 9.92 3.20 0.00 5.19
1400 1430 2.816958 CACCGCAGCTGCTACTGG 60.817 66.667 34.22 28.62 38.16 4.00
1461 1491 1.669760 TTTCCCGCGCAAAGACGAT 60.670 52.632 8.75 0.00 34.06 3.73
1616 1646 2.759973 CTAGAGGAGGTGCCGCCA 60.760 66.667 13.34 0.00 43.43 5.69
1638 1668 4.740822 AACCATGTGCCGGCCTCC 62.741 66.667 26.77 12.70 0.00 4.30
1883 1920 4.857871 TCCAAGTTAAAAGATCGATGCG 57.142 40.909 0.54 0.00 0.00 4.73
2015 2052 4.389576 GGCCGTGCAACAAGAGCG 62.390 66.667 0.00 0.00 35.74 5.03
2019 2056 0.602638 TCTACTGGCCGTGCAACAAG 60.603 55.000 10.01 0.00 35.74 3.16
2179 2217 5.102313 GCACTTCAAGGGCACATATAAAAC 58.898 41.667 6.81 0.00 45.95 2.43
2196 2291 6.902341 TGAAAATATCACTGTTCTGCACTTC 58.098 36.000 0.00 0.00 31.50 3.01
2338 2433 5.449177 GCTAAATGGTTTCTTTCGGATCCTG 60.449 44.000 10.75 3.62 0.00 3.86
2427 2821 0.316204 ACACCCGTTTCGGTCACTAG 59.684 55.000 7.40 0.00 46.80 2.57
2428 2822 0.314935 GACACCCGTTTCGGTCACTA 59.685 55.000 7.40 0.00 46.80 2.74
2429 2823 1.068585 GACACCCGTTTCGGTCACT 59.931 57.895 7.40 0.00 46.80 3.41
2430 2824 2.305127 CGACACCCGTTTCGGTCAC 61.305 63.158 7.40 0.00 46.80 3.67
2466 2860 4.459337 AGGGCGGTATTTCTTTTTCTTGAG 59.541 41.667 0.00 0.00 0.00 3.02
2485 2879 2.099756 GACAAAATATCCAGTGCAGGGC 59.900 50.000 0.00 0.00 0.00 5.19
2539 2936 9.809096 CTCTAGCATTCTCTCTATTTTACACAA 57.191 33.333 0.00 0.00 0.00 3.33
2637 3034 5.922053 ACATGCAAGATTAGATCTGTAGCA 58.078 37.500 5.18 7.45 42.52 3.49
2687 3344 4.740902 AGCTCCTTTCACCTACCAATTTT 58.259 39.130 0.00 0.00 0.00 1.82
2822 3479 3.381590 TCACGAGAGAGAGAGAGAGAGAG 59.618 52.174 0.00 0.00 0.00 3.20
2823 3480 3.361786 TCACGAGAGAGAGAGAGAGAGA 58.638 50.000 0.00 0.00 0.00 3.10
2824 3481 3.801114 TCACGAGAGAGAGAGAGAGAG 57.199 52.381 0.00 0.00 0.00 3.20
2825 3482 4.441792 CATTCACGAGAGAGAGAGAGAGA 58.558 47.826 0.00 0.00 30.88 3.10
2826 3483 3.002656 GCATTCACGAGAGAGAGAGAGAG 59.997 52.174 0.00 0.00 30.88 3.20
2827 3484 2.942376 GCATTCACGAGAGAGAGAGAGA 59.058 50.000 0.00 0.00 30.88 3.10
2828 3485 2.945008 AGCATTCACGAGAGAGAGAGAG 59.055 50.000 0.00 0.00 30.88 3.20
2872 3573 1.939974 TAGCAAGTCATAAGCAGGCG 58.060 50.000 0.00 0.00 0.00 5.52
2884 3585 9.627123 ATGTGTACACCAAATATATTAGCAAGT 57.373 29.630 22.91 0.00 0.00 3.16
2905 3608 7.120285 CACAACTAAATTGAGGAGATCATGTGT 59.880 37.037 0.00 0.00 41.23 3.72
2906 3609 7.120285 ACACAACTAAATTGAGGAGATCATGTG 59.880 37.037 0.00 0.00 41.49 3.21
2919 3622 5.411669 GTCCAGGGTAGACACAACTAAATTG 59.588 44.000 0.00 0.00 44.60 2.32
2947 3650 5.186256 TGCCATTTCCTATTGTTCAGGTA 57.814 39.130 0.00 0.00 34.56 3.08
3015 3722 5.314529 GGAAGGCCTCTAAAATATACACCC 58.685 45.833 5.23 0.00 0.00 4.61
3021 3728 3.181443 CCCACGGAAGGCCTCTAAAATAT 60.181 47.826 5.23 0.00 0.00 1.28
3068 3775 5.978814 AGATCTTTGCTAATACGACACCTT 58.021 37.500 0.00 0.00 0.00 3.50
3108 5197 2.418368 AAACTCACCAGCACTCACAA 57.582 45.000 0.00 0.00 0.00 3.33
3117 5206 7.496529 TTGATGAGAAGTTAAAACTCACCAG 57.503 36.000 0.00 0.00 42.18 4.00
3258 5347 8.147058 CACAAGTATATAGAGTTCAAGCCAGAT 58.853 37.037 0.00 0.00 0.00 2.90
3279 5368 2.551459 CAAAGAGGGAGCTCAACACAAG 59.449 50.000 17.19 0.00 0.00 3.16
3300 5389 2.742053 TGACTTGTAATCGCAGAAAGGC 59.258 45.455 0.00 0.00 43.58 4.35


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

AutoCloner maintained by Alex Coulton.