Multiple sequence alignment - TraesCS4A01G459000

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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 TraesCS4A01G459000 chr4A 100.000 2549 0 0 1 2549 724525309 724522761 0.000000e+00 4708
1 TraesCS4A01G459000 chr4A 93.079 419 25 4 2131 2549 705527714 705527300 6.030000e-171 610
2 TraesCS4A01G459000 chr7D 94.831 1954 88 9 600 2549 94497478 94495534 0.000000e+00 3037
3 TraesCS4A01G459000 chr7D 85.946 555 67 7 56 600 13071625 13071072 1.310000e-162 582
4 TraesCS4A01G459000 chr7D 85.018 554 67 8 56 600 13032143 13031597 1.330000e-152 549
5 TraesCS4A01G459000 chr4D 94.063 1954 100 13 601 2549 459886443 459884501 0.000000e+00 2952
6 TraesCS4A01G459000 chr2D 93.899 1967 87 11 589 2549 16065474 16067413 0.000000e+00 2937
7 TraesCS4A01G459000 chr1B 93.337 1951 117 10 600 2549 641549867 641547929 0.000000e+00 2870
8 TraesCS4A01G459000 chr1B 93.194 382 22 3 591 970 302243310 302242931 2.220000e-155 558
9 TraesCS4A01G459000 chr3A 92.418 1952 116 13 601 2549 164803399 164801477 0.000000e+00 2756
10 TraesCS4A01G459000 chr3A 91.155 1956 109 22 600 2549 120653864 120655761 0.000000e+00 2595
11 TraesCS4A01G459000 chr3A 94.133 375 21 1 597 970 722406051 722405677 1.020000e-158 569
12 TraesCS4A01G459000 chr7A 93.068 1861 113 10 601 2456 118579718 118581567 0.000000e+00 2708
13 TraesCS4A01G459000 chr7A 89.351 601 59 4 1 600 12433368 12432772 0.000000e+00 750
14 TraesCS4A01G459000 chr7A 89.351 601 59 4 1 600 12438168 12437572 0.000000e+00 750
15 TraesCS4A01G459000 chr7A 76.250 640 102 27 1 600 12655534 12654905 6.900000e-76 294
16 TraesCS4A01G459000 chr1D 94.620 1710 83 7 601 2304 25464319 25466025 0.000000e+00 2639
17 TraesCS4A01G459000 chr3D 93.863 1711 95 10 600 2304 546485994 546487700 0.000000e+00 2569
18 TraesCS4A01G459000 chr5D 93.353 1715 98 10 599 2304 44511941 44513648 0.000000e+00 2521
19 TraesCS4A01G459000 chr6A 93.392 454 26 3 2096 2549 608672257 608672706 0.000000e+00 669
20 TraesCS4A01G459000 chr2B 90.974 421 33 2 613 1029 13181563 13181982 1.710000e-156 562
21 TraesCS4A01G459000 chr5B 92.424 396 25 4 578 970 75245362 75244969 6.160000e-156 560


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 TraesCS4A01G459000 chr4A 724522761 724525309 2548 True 4708 4708 100.000 1 2549 1 chr4A.!!$R2 2548
1 TraesCS4A01G459000 chr7D 94495534 94497478 1944 True 3037 3037 94.831 600 2549 1 chr7D.!!$R3 1949
2 TraesCS4A01G459000 chr7D 13071072 13071625 553 True 582 582 85.946 56 600 1 chr7D.!!$R2 544
3 TraesCS4A01G459000 chr7D 13031597 13032143 546 True 549 549 85.018 56 600 1 chr7D.!!$R1 544
4 TraesCS4A01G459000 chr4D 459884501 459886443 1942 True 2952 2952 94.063 601 2549 1 chr4D.!!$R1 1948
5 TraesCS4A01G459000 chr2D 16065474 16067413 1939 False 2937 2937 93.899 589 2549 1 chr2D.!!$F1 1960
6 TraesCS4A01G459000 chr1B 641547929 641549867 1938 True 2870 2870 93.337 600 2549 1 chr1B.!!$R2 1949
7 TraesCS4A01G459000 chr3A 164801477 164803399 1922 True 2756 2756 92.418 601 2549 1 chr3A.!!$R1 1948
8 TraesCS4A01G459000 chr3A 120653864 120655761 1897 False 2595 2595 91.155 600 2549 1 chr3A.!!$F1 1949
9 TraesCS4A01G459000 chr7A 118579718 118581567 1849 False 2708 2708 93.068 601 2456 1 chr7A.!!$F1 1855
10 TraesCS4A01G459000 chr7A 12432772 12433368 596 True 750 750 89.351 1 600 1 chr7A.!!$R1 599
11 TraesCS4A01G459000 chr7A 12437572 12438168 596 True 750 750 89.351 1 600 1 chr7A.!!$R2 599
12 TraesCS4A01G459000 chr7A 12654905 12655534 629 True 294 294 76.250 1 600 1 chr7A.!!$R3 599
13 TraesCS4A01G459000 chr1D 25464319 25466025 1706 False 2639 2639 94.620 601 2304 1 chr1D.!!$F1 1703
14 TraesCS4A01G459000 chr3D 546485994 546487700 1706 False 2569 2569 93.863 600 2304 1 chr3D.!!$F1 1704
15 TraesCS4A01G459000 chr5D 44511941 44513648 1707 False 2521 2521 93.353 599 2304 1 chr5D.!!$F1 1705

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
459 463 0.10741 AGACAGGCCGAACAAACACA 60.107 50.0 0.0 0.0 0.0 3.72 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2334 2696 0.532862 CTCTCACCCGTGTGCAAACT 60.533 55.0 5.28 0.0 42.46 2.66 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
54 55 6.542821 TGGTTTATGCAATTAGATAGAGGGG 58.457 40.000 0.00 0.00 0.00 4.79
64 65 7.094592 GCAATTAGATAGAGGGGCAATTAGAAC 60.095 40.741 0.00 0.00 0.00 3.01
71 72 2.582636 AGGGGCAATTAGAACTGATGGT 59.417 45.455 0.00 0.00 0.00 3.55
81 84 3.690460 AGAACTGATGGTTTAGCCTTGG 58.310 45.455 0.00 0.00 38.41 3.61
101 104 7.695201 GCCTTGGACTAAAATGTTATTCGTAAC 59.305 37.037 0.00 0.00 0.00 2.50
113 116 6.808829 TGTTATTCGTAACATGTACCCTAGG 58.191 40.000 0.06 0.06 35.27 3.02
115 118 5.945144 ATTCGTAACATGTACCCTAGGTT 57.055 39.130 8.29 0.00 37.09 3.50
124 127 6.939622 ACATGTACCCTAGGTTAGTAACAAC 58.060 40.000 14.81 0.00 37.09 3.32
125 128 6.497954 ACATGTACCCTAGGTTAGTAACAACA 59.502 38.462 14.81 0.64 37.09 3.33
129 132 8.096414 TGTACCCTAGGTTAGTAACAACAATTC 58.904 37.037 14.81 0.00 37.09 2.17
157 160 5.749620 TGTGCAACATTGAATTTGATTTGC 58.250 33.333 0.00 0.00 45.67 3.68
160 163 7.172703 TGTGCAACATTGAATTTGATTTGCATA 59.827 29.630 9.11 4.31 45.67 3.14
173 176 9.675464 ATTTGATTTGCATATTGGATCAAGTTT 57.325 25.926 0.00 0.00 37.82 2.66
239 243 6.680874 TGCAAGCATTTGAAAAAGAAACAT 57.319 29.167 0.00 0.00 36.36 2.71
241 245 5.842327 GCAAGCATTTGAAAAAGAAACATCG 59.158 36.000 0.00 0.00 36.36 3.84
245 249 7.844482 AGCATTTGAAAAAGAAACATCGAAAG 58.156 30.769 0.00 0.00 0.00 2.62
259 263 3.518992 TCGAAAGAAAATCTGGGGGTT 57.481 42.857 0.00 0.00 37.03 4.11
275 279 3.262405 GGGGGTTGGGGAATTAAGTTTTC 59.738 47.826 0.00 0.00 0.00 2.29
296 300 1.727062 AGGATGGGCTAGATGGACAG 58.273 55.000 0.00 0.00 0.00 3.51
301 305 2.551270 TGGGCTAGATGGACAGAAGTT 58.449 47.619 0.00 0.00 0.00 2.66
315 319 2.576615 AGAAGTTTCTGAAGTGTGGGC 58.423 47.619 0.00 0.00 35.89 5.36
334 338 4.078922 TGGGCAATTAAGTTATGGGGATGA 60.079 41.667 0.00 0.00 0.00 2.92
338 342 5.278660 GCAATTAAGTTATGGGGATGAGCTG 60.279 44.000 0.00 0.00 0.00 4.24
340 344 0.475906 AGTTATGGGGATGAGCTGGC 59.524 55.000 0.00 0.00 0.00 4.85
356 360 0.179048 TGGCGATGCTCTTACCCATG 60.179 55.000 0.00 0.00 0.00 3.66
376 380 5.581874 CCATGCAAATTTAGGCTTAGTTTGG 59.418 40.000 18.79 3.93 32.08 3.28
388 392 3.364068 GCTTAGTTTGGAGTCGTTGAAGC 60.364 47.826 0.00 0.00 0.00 3.86
389 393 2.622064 AGTTTGGAGTCGTTGAAGCT 57.378 45.000 0.00 0.00 0.00 3.74
390 394 2.213499 AGTTTGGAGTCGTTGAAGCTG 58.787 47.619 0.00 0.00 0.00 4.24
391 395 1.940613 GTTTGGAGTCGTTGAAGCTGT 59.059 47.619 0.00 0.00 0.00 4.40
392 396 1.581934 TTGGAGTCGTTGAAGCTGTG 58.418 50.000 0.00 0.00 0.00 3.66
394 398 1.134521 TGGAGTCGTTGAAGCTGTGTT 60.135 47.619 0.00 0.00 0.00 3.32
395 399 1.261619 GGAGTCGTTGAAGCTGTGTTG 59.738 52.381 0.00 0.00 0.00 3.33
438 442 8.572855 AATCAAAAATTGAAACAAAAGTGGGA 57.427 26.923 0.00 0.00 43.95 4.37
439 443 7.986085 TCAAAAATTGAAACAAAAGTGGGAA 57.014 28.000 0.00 0.00 36.59 3.97
440 444 8.396272 TCAAAAATTGAAACAAAAGTGGGAAA 57.604 26.923 0.00 0.00 36.59 3.13
441 445 8.510505 TCAAAAATTGAAACAAAAGTGGGAAAG 58.489 29.630 0.00 0.00 36.59 2.62
442 446 8.510505 CAAAAATTGAAACAAAAGTGGGAAAGA 58.489 29.630 0.00 0.00 0.00 2.52
443 447 7.609760 AAATTGAAACAAAAGTGGGAAAGAC 57.390 32.000 0.00 0.00 0.00 3.01
444 448 5.730296 TTGAAACAAAAGTGGGAAAGACA 57.270 34.783 0.00 0.00 0.00 3.41
445 449 5.323371 TGAAACAAAAGTGGGAAAGACAG 57.677 39.130 0.00 0.00 0.00 3.51
446 450 4.159506 TGAAACAAAAGTGGGAAAGACAGG 59.840 41.667 0.00 0.00 0.00 4.00
447 451 2.031870 ACAAAAGTGGGAAAGACAGGC 58.968 47.619 0.00 0.00 0.00 4.85
448 452 1.341209 CAAAAGTGGGAAAGACAGGCC 59.659 52.381 0.00 0.00 0.00 5.19
449 453 0.537371 AAAGTGGGAAAGACAGGCCG 60.537 55.000 0.00 0.00 0.00 6.13
450 454 1.415672 AAGTGGGAAAGACAGGCCGA 61.416 55.000 0.00 0.00 0.00 5.54
451 455 1.072505 GTGGGAAAGACAGGCCGAA 59.927 57.895 0.00 0.00 0.00 4.30
452 456 1.072505 TGGGAAAGACAGGCCGAAC 59.927 57.895 0.00 0.00 0.00 3.95
453 457 1.072505 GGGAAAGACAGGCCGAACA 59.927 57.895 0.00 0.00 0.00 3.18
454 458 0.536460 GGGAAAGACAGGCCGAACAA 60.536 55.000 0.00 0.00 0.00 2.83
455 459 1.314730 GGAAAGACAGGCCGAACAAA 58.685 50.000 0.00 0.00 0.00 2.83
456 460 1.001706 GGAAAGACAGGCCGAACAAAC 60.002 52.381 0.00 0.00 0.00 2.93
457 461 1.673920 GAAAGACAGGCCGAACAAACA 59.326 47.619 0.00 0.00 0.00 2.83
458 462 1.021968 AAGACAGGCCGAACAAACAC 58.978 50.000 0.00 0.00 0.00 3.32
459 463 0.107410 AGACAGGCCGAACAAACACA 60.107 50.000 0.00 0.00 0.00 3.72
460 464 0.736053 GACAGGCCGAACAAACACAA 59.264 50.000 0.00 0.00 0.00 3.33
461 465 1.133407 GACAGGCCGAACAAACACAAA 59.867 47.619 0.00 0.00 0.00 2.83
462 466 1.546476 ACAGGCCGAACAAACACAAAA 59.454 42.857 0.00 0.00 0.00 2.44
463 467 2.167487 ACAGGCCGAACAAACACAAAAT 59.833 40.909 0.00 0.00 0.00 1.82
464 468 3.381908 ACAGGCCGAACAAACACAAAATA 59.618 39.130 0.00 0.00 0.00 1.40
465 469 3.980775 CAGGCCGAACAAACACAAAATAG 59.019 43.478 0.00 0.00 0.00 1.73
466 470 3.005367 AGGCCGAACAAACACAAAATAGG 59.995 43.478 0.00 0.00 0.00 2.57
467 471 2.729360 GCCGAACAAACACAAAATAGGC 59.271 45.455 0.00 0.00 0.00 3.93
468 472 3.797184 GCCGAACAAACACAAAATAGGCA 60.797 43.478 0.00 0.00 40.43 4.75
469 473 3.733727 CCGAACAAACACAAAATAGGCAC 59.266 43.478 0.00 0.00 0.00 5.01
470 474 4.355437 CGAACAAACACAAAATAGGCACA 58.645 39.130 0.00 0.00 0.00 4.57
471 475 4.800993 CGAACAAACACAAAATAGGCACAA 59.199 37.500 0.00 0.00 0.00 3.33
472 476 5.289675 CGAACAAACACAAAATAGGCACAAA 59.710 36.000 0.00 0.00 0.00 2.83
473 477 6.415798 AACAAACACAAAATAGGCACAAAC 57.584 33.333 0.00 0.00 0.00 2.93
474 478 5.482908 ACAAACACAAAATAGGCACAAACA 58.517 33.333 0.00 0.00 0.00 2.83
475 479 6.112058 ACAAACACAAAATAGGCACAAACAT 58.888 32.000 0.00 0.00 0.00 2.71
476 480 6.597280 ACAAACACAAAATAGGCACAAACATT 59.403 30.769 0.00 0.00 0.00 2.71
477 481 6.843069 AACACAAAATAGGCACAAACATTC 57.157 33.333 0.00 0.00 0.00 2.67
478 482 6.160576 ACACAAAATAGGCACAAACATTCT 57.839 33.333 0.00 0.00 0.00 2.40
479 483 5.984926 ACACAAAATAGGCACAAACATTCTG 59.015 36.000 0.00 0.00 0.00 3.02
480 484 5.984926 CACAAAATAGGCACAAACATTCTGT 59.015 36.000 0.00 0.00 0.00 3.41
481 485 6.144402 CACAAAATAGGCACAAACATTCTGTC 59.856 38.462 0.00 0.00 0.00 3.51
482 486 5.391312 AAATAGGCACAAACATTCTGTCC 57.609 39.130 0.00 0.00 0.00 4.02
483 487 2.363306 AGGCACAAACATTCTGTCCA 57.637 45.000 0.00 0.00 0.00 4.02
484 488 2.665165 AGGCACAAACATTCTGTCCAA 58.335 42.857 0.00 0.00 0.00 3.53
485 489 3.233507 AGGCACAAACATTCTGTCCAAT 58.766 40.909 0.00 0.00 0.00 3.16
486 490 3.642848 AGGCACAAACATTCTGTCCAATT 59.357 39.130 0.00 0.00 0.00 2.32
487 491 4.101430 AGGCACAAACATTCTGTCCAATTT 59.899 37.500 0.00 0.00 0.00 1.82
488 492 5.304101 AGGCACAAACATTCTGTCCAATTTA 59.696 36.000 0.00 0.00 0.00 1.40
489 493 6.014327 AGGCACAAACATTCTGTCCAATTTAT 60.014 34.615 0.00 0.00 0.00 1.40
490 494 6.650390 GGCACAAACATTCTGTCCAATTTATT 59.350 34.615 0.00 0.00 0.00 1.40
491 495 7.816995 GGCACAAACATTCTGTCCAATTTATTA 59.183 33.333 0.00 0.00 0.00 0.98
492 496 8.647226 GCACAAACATTCTGTCCAATTTATTAC 58.353 33.333 0.00 0.00 0.00 1.89
493 497 9.689976 CACAAACATTCTGTCCAATTTATTACA 57.310 29.630 0.00 0.00 0.00 2.41
501 505 8.682128 TCTGTCCAATTTATTACAAAATTCGC 57.318 30.769 0.00 0.00 37.03 4.70
502 506 8.300286 TCTGTCCAATTTATTACAAAATTCGCA 58.700 29.630 0.00 0.00 37.03 5.10
503 507 8.233692 TGTCCAATTTATTACAAAATTCGCAC 57.766 30.769 0.00 0.00 37.03 5.34
504 508 7.867909 TGTCCAATTTATTACAAAATTCGCACA 59.132 29.630 0.00 0.00 37.03 4.57
505 509 8.159709 GTCCAATTTATTACAAAATTCGCACAC 58.840 33.333 0.00 0.00 37.03 3.82
506 510 8.085296 TCCAATTTATTACAAAATTCGCACACT 58.915 29.630 0.00 0.00 37.03 3.55
507 511 8.372521 CCAATTTATTACAAAATTCGCACACTC 58.627 33.333 0.00 0.00 37.03 3.51
508 512 8.372521 CAATTTATTACAAAATTCGCACACTCC 58.627 33.333 0.00 0.00 37.03 3.85
509 513 6.561737 TTATTACAAAATTCGCACACTCCA 57.438 33.333 0.00 0.00 0.00 3.86
510 514 4.902443 TTACAAAATTCGCACACTCCAA 57.098 36.364 0.00 0.00 0.00 3.53
511 515 3.354089 ACAAAATTCGCACACTCCAAG 57.646 42.857 0.00 0.00 0.00 3.61
512 516 2.687935 ACAAAATTCGCACACTCCAAGT 59.312 40.909 0.00 0.00 0.00 3.16
513 517 3.880490 ACAAAATTCGCACACTCCAAGTA 59.120 39.130 0.00 0.00 0.00 2.24
514 518 4.336993 ACAAAATTCGCACACTCCAAGTAA 59.663 37.500 0.00 0.00 0.00 2.24
515 519 5.163602 ACAAAATTCGCACACTCCAAGTAAA 60.164 36.000 0.00 0.00 0.00 2.01
516 520 4.749245 AATTCGCACACTCCAAGTAAAG 57.251 40.909 0.00 0.00 0.00 1.85
517 521 3.462483 TTCGCACACTCCAAGTAAAGA 57.538 42.857 0.00 0.00 0.00 2.52
518 522 2.750948 TCGCACACTCCAAGTAAAGAC 58.249 47.619 0.00 0.00 0.00 3.01
519 523 2.364324 TCGCACACTCCAAGTAAAGACT 59.636 45.455 0.00 0.00 37.59 3.24
520 524 2.476619 CGCACACTCCAAGTAAAGACTG 59.523 50.000 0.00 0.00 35.52 3.51
521 525 2.808543 GCACACTCCAAGTAAAGACTGG 59.191 50.000 0.00 0.00 35.52 4.00
522 526 3.494398 GCACACTCCAAGTAAAGACTGGA 60.494 47.826 0.00 0.00 35.52 3.86
523 527 4.703897 CACACTCCAAGTAAAGACTGGAA 58.296 43.478 0.00 0.00 35.52 3.53
524 528 5.308825 CACACTCCAAGTAAAGACTGGAAT 58.691 41.667 0.00 0.00 35.52 3.01
525 529 6.464222 CACACTCCAAGTAAAGACTGGAATA 58.536 40.000 0.00 0.00 35.52 1.75
526 530 7.106239 CACACTCCAAGTAAAGACTGGAATAT 58.894 38.462 0.00 0.00 35.52 1.28
527 531 7.065085 CACACTCCAAGTAAAGACTGGAATATG 59.935 40.741 0.00 0.00 35.52 1.78
528 532 7.106239 CACTCCAAGTAAAGACTGGAATATGT 58.894 38.462 0.00 0.00 35.52 2.29
529 533 7.607991 CACTCCAAGTAAAGACTGGAATATGTT 59.392 37.037 0.00 0.00 35.52 2.71
530 534 7.607991 ACTCCAAGTAAAGACTGGAATATGTTG 59.392 37.037 0.00 0.00 35.52 3.33
531 535 6.884295 TCCAAGTAAAGACTGGAATATGTTGG 59.116 38.462 0.00 0.00 35.52 3.77
532 536 6.659242 CCAAGTAAAGACTGGAATATGTTGGT 59.341 38.462 0.00 0.00 35.52 3.67
533 537 7.362056 CCAAGTAAAGACTGGAATATGTTGGTG 60.362 40.741 0.00 0.00 35.52 4.17
534 538 6.180472 AGTAAAGACTGGAATATGTTGGTGG 58.820 40.000 0.00 0.00 33.41 4.61
535 539 4.927267 AAGACTGGAATATGTTGGTGGA 57.073 40.909 0.00 0.00 0.00 4.02
536 540 5.456921 AAGACTGGAATATGTTGGTGGAT 57.543 39.130 0.00 0.00 0.00 3.41
537 541 4.785301 AGACTGGAATATGTTGGTGGATG 58.215 43.478 0.00 0.00 0.00 3.51
538 542 4.228210 AGACTGGAATATGTTGGTGGATGT 59.772 41.667 0.00 0.00 0.00 3.06
539 543 4.934356 ACTGGAATATGTTGGTGGATGTT 58.066 39.130 0.00 0.00 0.00 2.71
540 544 4.949856 ACTGGAATATGTTGGTGGATGTTC 59.050 41.667 0.00 0.00 0.00 3.18
541 545 4.928263 TGGAATATGTTGGTGGATGTTCA 58.072 39.130 0.00 0.00 0.00 3.18
542 546 4.704540 TGGAATATGTTGGTGGATGTTCAC 59.295 41.667 0.00 0.00 36.95 3.18
543 547 4.949856 GGAATATGTTGGTGGATGTTCACT 59.050 41.667 0.00 0.00 37.75 3.41
544 548 5.418840 GGAATATGTTGGTGGATGTTCACTT 59.581 40.000 0.00 0.00 37.75 3.16
545 549 6.071391 GGAATATGTTGGTGGATGTTCACTTT 60.071 38.462 0.00 0.00 37.75 2.66
546 550 6.916360 ATATGTTGGTGGATGTTCACTTTT 57.084 33.333 0.00 0.00 37.75 2.27
547 551 4.647424 TGTTGGTGGATGTTCACTTTTC 57.353 40.909 0.00 0.00 37.75 2.29
548 552 4.277476 TGTTGGTGGATGTTCACTTTTCT 58.723 39.130 0.00 0.00 37.75 2.52
549 553 4.709397 TGTTGGTGGATGTTCACTTTTCTT 59.291 37.500 0.00 0.00 37.75 2.52
550 554 5.163561 TGTTGGTGGATGTTCACTTTTCTTC 60.164 40.000 0.00 0.00 37.75 2.87
551 555 4.531854 TGGTGGATGTTCACTTTTCTTCA 58.468 39.130 0.00 0.00 37.75 3.02
552 556 4.580167 TGGTGGATGTTCACTTTTCTTCAG 59.420 41.667 0.00 0.00 37.75 3.02
553 557 4.540824 GTGGATGTTCACTTTTCTTCAGC 58.459 43.478 0.00 0.00 34.98 4.26
554 558 4.036734 GTGGATGTTCACTTTTCTTCAGCA 59.963 41.667 0.00 0.00 34.98 4.41
555 559 4.828939 TGGATGTTCACTTTTCTTCAGCAT 59.171 37.500 0.00 0.00 0.00 3.79
556 560 5.302568 TGGATGTTCACTTTTCTTCAGCATT 59.697 36.000 0.00 0.00 0.00 3.56
557 561 5.632347 GGATGTTCACTTTTCTTCAGCATTG 59.368 40.000 0.00 0.00 0.00 2.82
558 562 4.362279 TGTTCACTTTTCTTCAGCATTGC 58.638 39.130 0.00 0.00 0.00 3.56
559 563 3.272439 TCACTTTTCTTCAGCATTGCG 57.728 42.857 2.38 0.00 0.00 4.85
560 564 2.618241 TCACTTTTCTTCAGCATTGCGT 59.382 40.909 2.38 0.00 0.00 5.24
561 565 2.722629 CACTTTTCTTCAGCATTGCGTG 59.277 45.455 2.38 2.62 0.00 5.34
570 574 4.874534 CATTGCGTGCCAAAGGAG 57.125 55.556 0.00 0.00 36.92 3.69
571 575 2.256391 CATTGCGTGCCAAAGGAGA 58.744 52.632 0.00 0.00 36.92 3.71
572 576 0.597568 CATTGCGTGCCAAAGGAGAA 59.402 50.000 0.00 0.00 36.92 2.87
573 577 0.598065 ATTGCGTGCCAAAGGAGAAC 59.402 50.000 0.00 0.00 36.92 3.01
574 578 0.749818 TTGCGTGCCAAAGGAGAACA 60.750 50.000 0.00 0.00 0.00 3.18
575 579 0.537143 TGCGTGCCAAAGGAGAACAT 60.537 50.000 0.00 0.00 0.00 2.71
576 580 0.598065 GCGTGCCAAAGGAGAACATT 59.402 50.000 0.00 0.00 0.00 2.71
577 581 1.810151 GCGTGCCAAAGGAGAACATTA 59.190 47.619 0.00 0.00 0.00 1.90
578 582 2.159517 GCGTGCCAAAGGAGAACATTAG 60.160 50.000 0.00 0.00 0.00 1.73
579 583 2.159517 CGTGCCAAAGGAGAACATTAGC 60.160 50.000 0.00 0.00 0.00 3.09
580 584 2.819608 GTGCCAAAGGAGAACATTAGCA 59.180 45.455 0.00 0.00 30.74 3.49
581 585 3.445096 GTGCCAAAGGAGAACATTAGCAT 59.555 43.478 0.00 0.00 33.96 3.79
582 586 4.640201 GTGCCAAAGGAGAACATTAGCATA 59.360 41.667 0.00 0.00 33.96 3.14
583 587 5.300286 GTGCCAAAGGAGAACATTAGCATAT 59.700 40.000 0.00 0.00 33.96 1.78
584 588 5.893255 TGCCAAAGGAGAACATTAGCATATT 59.107 36.000 0.00 0.00 29.16 1.28
585 589 6.039717 TGCCAAAGGAGAACATTAGCATATTC 59.960 38.462 0.00 0.00 29.16 1.75
586 590 6.264067 GCCAAAGGAGAACATTAGCATATTCT 59.736 38.462 0.00 0.00 34.11 2.40
587 591 7.201857 GCCAAAGGAGAACATTAGCATATTCTT 60.202 37.037 0.00 0.00 31.58 2.52
588 592 8.689972 CCAAAGGAGAACATTAGCATATTCTTT 58.310 33.333 0.00 0.00 31.58 2.52
589 593 9.727627 CAAAGGAGAACATTAGCATATTCTTTC 57.272 33.333 0.00 0.00 31.58 2.62
590 594 9.466497 AAAGGAGAACATTAGCATATTCTTTCA 57.534 29.630 0.00 0.00 31.58 2.69
591 595 9.638176 AAGGAGAACATTAGCATATTCTTTCAT 57.362 29.630 0.00 0.00 31.58 2.57
622 626 2.567169 GGTTAATCAGCCTTTTGCCCTT 59.433 45.455 0.00 0.00 42.71 3.95
649 653 2.157738 GTCCATCTGCTCAGTTTTGCT 58.842 47.619 0.00 0.00 0.00 3.91
724 728 0.534412 CATGAACTCTGCCGTCTCCT 59.466 55.000 0.00 0.00 0.00 3.69
759 763 1.229082 ACTCGGCCCTTACAGGTGA 60.229 57.895 0.00 0.00 31.93 4.02
769 773 0.541063 TTACAGGTGAGACCAGGCGA 60.541 55.000 0.00 0.00 41.95 5.54
830 864 3.005539 TGGGACCCAGCAGAGAGC 61.006 66.667 9.95 0.00 46.19 4.09
902 942 1.378646 TGACCACGGCGAGAGAGAT 60.379 57.895 16.62 0.00 0.00 2.75
1041 1094 1.514553 CACCTCGCAGATGCAGAGA 59.485 57.895 20.55 4.96 41.04 3.10
1155 1208 2.009051 CCATTCTATGTGTGCAGCGAA 58.991 47.619 0.00 0.00 0.00 4.70
1270 1543 3.140325 TCTTTCTTTGGGTCGATGCTT 57.860 42.857 0.00 0.00 0.00 3.91
1298 1629 6.471146 ACAAGACTCTGATAAATGAACTGCT 58.529 36.000 0.00 0.00 0.00 4.24
1552 1896 7.549842 TGAAAATGTATGGAAAGGCATGAATTG 59.450 33.333 0.00 0.00 0.00 2.32
1834 2188 1.217916 TCCAATTAGGCCCATTCGGA 58.782 50.000 0.00 5.82 37.29 4.55
1849 2203 1.738099 CGGAGGTTCTCTTGCGTGG 60.738 63.158 0.00 0.00 30.86 4.94
1861 2216 6.385649 TCTCTTGCGTGGTTTTCTATTTTT 57.614 33.333 0.00 0.00 0.00 1.94
1941 2296 5.659440 TTGAATTATTCCAGAGCCAAACC 57.341 39.130 2.22 0.00 0.00 3.27
1986 2341 8.158169 TGGAGCTGTTAAATATTTGATAGCAG 57.842 34.615 30.10 19.90 41.25 4.24
2076 2434 1.002544 GCTCTGGCAGAGGTTTACACT 59.997 52.381 37.73 0.00 42.54 3.55
2200 2560 4.051932 GGGACTCGAACCCAGGAT 57.948 61.111 18.78 0.00 46.05 3.24
2259 2619 1.208052 GCTAGGACAGATGGCAAGACA 59.792 52.381 0.00 0.00 0.00 3.41
2260 2620 2.355108 GCTAGGACAGATGGCAAGACAA 60.355 50.000 0.00 0.00 0.00 3.18
2334 2696 6.316640 TCAAAAACAATAGTGAGACCGTGAAA 59.683 34.615 0.00 0.00 0.00 2.69
2376 2738 5.046950 AGTGGTTTTCCTTTGTTTTGCACTA 60.047 36.000 0.00 0.00 41.38 2.74
2419 2781 6.581712 AGGTTGAAAATGTATGTTTGCACTT 58.418 32.000 0.00 0.00 0.00 3.16
2423 2785 6.757237 TGAAAATGTATGTTTGCACTTCCAT 58.243 32.000 0.00 0.00 0.00 3.41
2437 2799 7.658525 TGCACTTCCATATGATTTTGGTTAT 57.341 32.000 3.65 0.00 34.48 1.89
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
54 55 5.358160 AGGCTAAACCATCAGTTCTAATTGC 59.642 40.000 0.00 0.00 43.14 3.56
64 65 3.356529 AGTCCAAGGCTAAACCATCAG 57.643 47.619 0.00 0.00 43.14 2.90
71 72 8.455682 CGAATAACATTTTAGTCCAAGGCTAAA 58.544 33.333 9.93 9.93 36.85 1.85
101 104 6.938507 TGTTGTTACTAACCTAGGGTACATG 58.061 40.000 14.81 1.51 33.12 3.21
201 204 5.611796 TGCTTGCATACAAACTTAGTCTG 57.388 39.130 0.00 0.00 34.74 3.51
202 205 6.824305 AATGCTTGCATACAAACTTAGTCT 57.176 33.333 8.61 0.00 34.74 3.24
239 243 3.153919 CAACCCCCAGATTTTCTTTCGA 58.846 45.455 0.00 0.00 0.00 3.71
241 245 2.567169 CCCAACCCCCAGATTTTCTTTC 59.433 50.000 0.00 0.00 0.00 2.62
245 249 0.411848 TCCCCAACCCCCAGATTTTC 59.588 55.000 0.00 0.00 0.00 2.29
251 255 1.361197 ACTTAATTCCCCAACCCCCAG 59.639 52.381 0.00 0.00 0.00 4.45
259 263 5.483583 CCATCCTTGAAAACTTAATTCCCCA 59.516 40.000 0.00 0.00 0.00 4.96
275 279 1.770658 TGTCCATCTAGCCCATCCTTG 59.229 52.381 0.00 0.00 0.00 3.61
296 300 2.297701 TGCCCACACTTCAGAAACTTC 58.702 47.619 0.00 0.00 0.00 3.01
301 305 4.469657 ACTTAATTGCCCACACTTCAGAA 58.530 39.130 0.00 0.00 0.00 3.02
305 309 5.394115 CCCATAACTTAATTGCCCACACTTC 60.394 44.000 0.00 0.00 0.00 3.01
308 312 3.132111 CCCCATAACTTAATTGCCCACAC 59.868 47.826 0.00 0.00 0.00 3.82
310 314 3.637769 TCCCCATAACTTAATTGCCCAC 58.362 45.455 0.00 0.00 0.00 4.61
315 319 5.242393 CCAGCTCATCCCCATAACTTAATTG 59.758 44.000 0.00 0.00 0.00 2.32
334 338 1.144936 GGTAAGAGCATCGCCAGCT 59.855 57.895 0.00 0.00 46.82 4.24
338 342 1.510480 GCATGGGTAAGAGCATCGCC 61.510 60.000 0.00 0.00 42.67 5.54
340 344 1.667236 TTGCATGGGTAAGAGCATCG 58.333 50.000 0.00 0.00 42.67 3.84
356 360 6.025749 ACTCCAAACTAAGCCTAAATTTGC 57.974 37.500 0.00 0.00 0.00 3.68
376 380 1.933853 ACAACACAGCTTCAACGACTC 59.066 47.619 0.00 0.00 0.00 3.36
388 392 3.976793 AAGAAGCATGTCACAACACAG 57.023 42.857 0.00 0.00 38.48 3.66
389 393 4.717233 AAAAGAAGCATGTCACAACACA 57.283 36.364 0.00 0.00 38.48 3.72
390 394 8.970691 ATTATAAAAGAAGCATGTCACAACAC 57.029 30.769 0.00 0.00 38.48 3.32
391 395 8.791675 TGATTATAAAAGAAGCATGTCACAACA 58.208 29.630 0.00 0.00 40.38 3.33
392 396 9.624697 TTGATTATAAAAGAAGCATGTCACAAC 57.375 29.630 0.00 0.00 0.00 3.32
419 423 7.164803 TGTCTTTCCCACTTTTGTTTCAATTT 58.835 30.769 0.00 0.00 0.00 1.82
421 425 6.293004 TGTCTTTCCCACTTTTGTTTCAAT 57.707 33.333 0.00 0.00 0.00 2.57
434 438 1.072505 GTTCGGCCTGTCTTTCCCA 59.927 57.895 0.00 0.00 0.00 4.37
435 439 0.536460 TTGTTCGGCCTGTCTTTCCC 60.536 55.000 0.00 0.00 0.00 3.97
436 440 1.001706 GTTTGTTCGGCCTGTCTTTCC 60.002 52.381 0.00 0.00 0.00 3.13
437 441 1.673920 TGTTTGTTCGGCCTGTCTTTC 59.326 47.619 0.00 0.00 0.00 2.62
438 442 1.404035 GTGTTTGTTCGGCCTGTCTTT 59.596 47.619 0.00 0.00 0.00 2.52
439 443 1.021968 GTGTTTGTTCGGCCTGTCTT 58.978 50.000 0.00 0.00 0.00 3.01
440 444 0.107410 TGTGTTTGTTCGGCCTGTCT 60.107 50.000 0.00 0.00 0.00 3.41
441 445 0.736053 TTGTGTTTGTTCGGCCTGTC 59.264 50.000 0.00 0.00 0.00 3.51
442 446 1.178276 TTTGTGTTTGTTCGGCCTGT 58.822 45.000 0.00 0.00 0.00 4.00
443 447 2.285827 TTTTGTGTTTGTTCGGCCTG 57.714 45.000 0.00 0.00 0.00 4.85
444 448 3.005367 CCTATTTTGTGTTTGTTCGGCCT 59.995 43.478 0.00 0.00 0.00 5.19
445 449 3.313690 CCTATTTTGTGTTTGTTCGGCC 58.686 45.455 0.00 0.00 0.00 6.13
446 450 2.729360 GCCTATTTTGTGTTTGTTCGGC 59.271 45.455 0.00 0.00 0.00 5.54
447 451 3.733727 GTGCCTATTTTGTGTTTGTTCGG 59.266 43.478 0.00 0.00 0.00 4.30
448 452 4.355437 TGTGCCTATTTTGTGTTTGTTCG 58.645 39.130 0.00 0.00 0.00 3.95
449 453 6.091441 TGTTTGTGCCTATTTTGTGTTTGTTC 59.909 34.615 0.00 0.00 0.00 3.18
450 454 5.934625 TGTTTGTGCCTATTTTGTGTTTGTT 59.065 32.000 0.00 0.00 0.00 2.83
451 455 5.482908 TGTTTGTGCCTATTTTGTGTTTGT 58.517 33.333 0.00 0.00 0.00 2.83
452 456 6.601741 ATGTTTGTGCCTATTTTGTGTTTG 57.398 33.333 0.00 0.00 0.00 2.93
453 457 7.011295 CAGAATGTTTGTGCCTATTTTGTGTTT 59.989 33.333 0.00 0.00 0.00 2.83
454 458 6.479660 CAGAATGTTTGTGCCTATTTTGTGTT 59.520 34.615 0.00 0.00 0.00 3.32
455 459 5.984926 CAGAATGTTTGTGCCTATTTTGTGT 59.015 36.000 0.00 0.00 0.00 3.72
456 460 6.456447 CAGAATGTTTGTGCCTATTTTGTG 57.544 37.500 0.00 0.00 0.00 3.33
475 479 9.134734 GCGAATTTTGTAATAAATTGGACAGAA 57.865 29.630 0.00 0.00 37.72 3.02
476 480 8.300286 TGCGAATTTTGTAATAAATTGGACAGA 58.700 29.630 0.00 0.00 37.72 3.41
477 481 8.372521 GTGCGAATTTTGTAATAAATTGGACAG 58.627 33.333 0.00 0.00 37.72 3.51
478 482 7.867909 TGTGCGAATTTTGTAATAAATTGGACA 59.132 29.630 0.00 0.00 37.72 4.02
479 483 8.159709 GTGTGCGAATTTTGTAATAAATTGGAC 58.840 33.333 0.00 0.00 37.72 4.02
480 484 8.085296 AGTGTGCGAATTTTGTAATAAATTGGA 58.915 29.630 0.00 0.00 37.72 3.53
481 485 8.238481 AGTGTGCGAATTTTGTAATAAATTGG 57.762 30.769 0.00 0.00 37.72 3.16
482 486 8.372521 GGAGTGTGCGAATTTTGTAATAAATTG 58.627 33.333 0.00 0.00 37.72 2.32
483 487 8.085296 TGGAGTGTGCGAATTTTGTAATAAATT 58.915 29.630 0.00 0.00 39.68 1.82
484 488 7.598278 TGGAGTGTGCGAATTTTGTAATAAAT 58.402 30.769 0.00 0.00 0.00 1.40
485 489 6.971602 TGGAGTGTGCGAATTTTGTAATAAA 58.028 32.000 0.00 0.00 0.00 1.40
486 490 6.561737 TGGAGTGTGCGAATTTTGTAATAA 57.438 33.333 0.00 0.00 0.00 1.40
487 491 6.205853 ACTTGGAGTGTGCGAATTTTGTAATA 59.794 34.615 0.00 0.00 0.00 0.98
488 492 5.009610 ACTTGGAGTGTGCGAATTTTGTAAT 59.990 36.000 0.00 0.00 0.00 1.89
489 493 4.336993 ACTTGGAGTGTGCGAATTTTGTAA 59.663 37.500 0.00 0.00 0.00 2.41
490 494 3.880490 ACTTGGAGTGTGCGAATTTTGTA 59.120 39.130 0.00 0.00 0.00 2.41
491 495 2.687935 ACTTGGAGTGTGCGAATTTTGT 59.312 40.909 0.00 0.00 0.00 2.83
492 496 3.354089 ACTTGGAGTGTGCGAATTTTG 57.646 42.857 0.00 0.00 0.00 2.44
493 497 5.298276 TCTTTACTTGGAGTGTGCGAATTTT 59.702 36.000 0.00 0.00 0.00 1.82
494 498 4.819630 TCTTTACTTGGAGTGTGCGAATTT 59.180 37.500 0.00 0.00 0.00 1.82
495 499 4.213482 GTCTTTACTTGGAGTGTGCGAATT 59.787 41.667 0.00 0.00 0.00 2.17
496 500 3.746492 GTCTTTACTTGGAGTGTGCGAAT 59.254 43.478 0.00 0.00 0.00 3.34
497 501 3.128349 GTCTTTACTTGGAGTGTGCGAA 58.872 45.455 0.00 0.00 0.00 4.70
498 502 2.364324 AGTCTTTACTTGGAGTGTGCGA 59.636 45.455 0.00 0.00 29.00 5.10
499 503 2.476619 CAGTCTTTACTTGGAGTGTGCG 59.523 50.000 0.00 0.00 31.97 5.34
500 504 2.808543 CCAGTCTTTACTTGGAGTGTGC 59.191 50.000 0.00 0.00 31.97 4.57
501 505 4.336889 TCCAGTCTTTACTTGGAGTGTG 57.663 45.455 0.00 0.00 31.97 3.82
502 506 5.568620 ATTCCAGTCTTTACTTGGAGTGT 57.431 39.130 0.00 0.00 35.62 3.55
503 507 7.106239 ACATATTCCAGTCTTTACTTGGAGTG 58.894 38.462 0.00 0.00 35.62 3.51
504 508 7.259088 ACATATTCCAGTCTTTACTTGGAGT 57.741 36.000 0.00 0.00 35.62 3.85
505 509 7.066284 CCAACATATTCCAGTCTTTACTTGGAG 59.934 40.741 0.00 0.00 35.62 3.86
506 510 6.884295 CCAACATATTCCAGTCTTTACTTGGA 59.116 38.462 0.00 0.00 31.97 3.53
507 511 6.659242 ACCAACATATTCCAGTCTTTACTTGG 59.341 38.462 0.00 0.00 31.97 3.61
508 512 7.362056 CCACCAACATATTCCAGTCTTTACTTG 60.362 40.741 0.00 0.00 31.97 3.16
509 513 6.659242 CCACCAACATATTCCAGTCTTTACTT 59.341 38.462 0.00 0.00 31.97 2.24
510 514 6.012858 TCCACCAACATATTCCAGTCTTTACT 60.013 38.462 0.00 0.00 35.91 2.24
511 515 6.177610 TCCACCAACATATTCCAGTCTTTAC 58.822 40.000 0.00 0.00 0.00 2.01
512 516 6.381498 TCCACCAACATATTCCAGTCTTTA 57.619 37.500 0.00 0.00 0.00 1.85
513 517 5.255397 TCCACCAACATATTCCAGTCTTT 57.745 39.130 0.00 0.00 0.00 2.52
514 518 4.927267 TCCACCAACATATTCCAGTCTT 57.073 40.909 0.00 0.00 0.00 3.01
515 519 4.228210 ACATCCACCAACATATTCCAGTCT 59.772 41.667 0.00 0.00 0.00 3.24
516 520 4.526970 ACATCCACCAACATATTCCAGTC 58.473 43.478 0.00 0.00 0.00 3.51
517 521 4.591321 ACATCCACCAACATATTCCAGT 57.409 40.909 0.00 0.00 0.00 4.00
518 522 4.949238 TGAACATCCACCAACATATTCCAG 59.051 41.667 0.00 0.00 0.00 3.86
519 523 4.704540 GTGAACATCCACCAACATATTCCA 59.295 41.667 0.00 0.00 0.00 3.53
520 524 4.949856 AGTGAACATCCACCAACATATTCC 59.050 41.667 0.00 0.00 37.76 3.01
521 525 6.515272 AAGTGAACATCCACCAACATATTC 57.485 37.500 0.00 0.00 37.76 1.75
522 526 6.916360 AAAGTGAACATCCACCAACATATT 57.084 33.333 0.00 0.00 37.76 1.28
523 527 6.721208 AGAAAAGTGAACATCCACCAACATAT 59.279 34.615 0.00 0.00 37.76 1.78
524 528 6.068010 AGAAAAGTGAACATCCACCAACATA 58.932 36.000 0.00 0.00 37.76 2.29
525 529 4.895297 AGAAAAGTGAACATCCACCAACAT 59.105 37.500 0.00 0.00 37.76 2.71
526 530 4.277476 AGAAAAGTGAACATCCACCAACA 58.723 39.130 0.00 0.00 37.76 3.33
527 531 4.918810 AGAAAAGTGAACATCCACCAAC 57.081 40.909 0.00 0.00 37.76 3.77
528 532 4.952957 TGAAGAAAAGTGAACATCCACCAA 59.047 37.500 0.00 0.00 37.76 3.67
529 533 4.531854 TGAAGAAAAGTGAACATCCACCA 58.468 39.130 0.00 0.00 37.76 4.17
530 534 4.557496 GCTGAAGAAAAGTGAACATCCACC 60.557 45.833 0.00 0.00 37.76 4.61
531 535 4.036734 TGCTGAAGAAAAGTGAACATCCAC 59.963 41.667 0.00 0.00 37.32 4.02
532 536 4.206375 TGCTGAAGAAAAGTGAACATCCA 58.794 39.130 0.00 0.00 0.00 3.41
533 537 4.836125 TGCTGAAGAAAAGTGAACATCC 57.164 40.909 0.00 0.00 0.00 3.51
534 538 5.118203 GCAATGCTGAAGAAAAGTGAACATC 59.882 40.000 0.00 0.00 0.00 3.06
535 539 4.986659 GCAATGCTGAAGAAAAGTGAACAT 59.013 37.500 0.00 0.00 0.00 2.71
536 540 4.362279 GCAATGCTGAAGAAAAGTGAACA 58.638 39.130 0.00 0.00 0.00 3.18
537 541 3.423206 CGCAATGCTGAAGAAAAGTGAAC 59.577 43.478 2.94 0.00 0.00 3.18
538 542 3.066621 ACGCAATGCTGAAGAAAAGTGAA 59.933 39.130 2.94 0.00 0.00 3.18
539 543 2.618241 ACGCAATGCTGAAGAAAAGTGA 59.382 40.909 2.94 0.00 0.00 3.41
540 544 2.722629 CACGCAATGCTGAAGAAAAGTG 59.277 45.455 2.94 0.00 0.00 3.16
541 545 3.004024 CACGCAATGCTGAAGAAAAGT 57.996 42.857 2.94 0.00 0.00 2.66
553 557 0.597568 TTCTCCTTTGGCACGCAATG 59.402 50.000 0.00 0.00 0.00 2.82
554 558 0.598065 GTTCTCCTTTGGCACGCAAT 59.402 50.000 0.00 0.00 0.00 3.56
555 559 0.749818 TGTTCTCCTTTGGCACGCAA 60.750 50.000 0.00 0.00 0.00 4.85
556 560 0.537143 ATGTTCTCCTTTGGCACGCA 60.537 50.000 0.00 0.00 0.00 5.24
557 561 0.598065 AATGTTCTCCTTTGGCACGC 59.402 50.000 0.00 0.00 0.00 5.34
558 562 2.159517 GCTAATGTTCTCCTTTGGCACG 60.160 50.000 0.00 0.00 35.56 5.34
559 563 2.819608 TGCTAATGTTCTCCTTTGGCAC 59.180 45.455 0.00 0.00 38.97 5.01
560 564 3.153369 TGCTAATGTTCTCCTTTGGCA 57.847 42.857 0.00 0.00 40.70 4.92
561 565 6.264067 AGAATATGCTAATGTTCTCCTTTGGC 59.736 38.462 0.00 0.00 39.32 4.52
562 566 7.814264 AGAATATGCTAATGTTCTCCTTTGG 57.186 36.000 0.00 0.00 39.32 3.28
563 567 9.727627 GAAAGAATATGCTAATGTTCTCCTTTG 57.272 33.333 0.00 0.00 41.78 2.77
564 568 9.466497 TGAAAGAATATGCTAATGTTCTCCTTT 57.534 29.630 0.00 0.00 41.78 3.11
565 569 9.638176 ATGAAAGAATATGCTAATGTTCTCCTT 57.362 29.630 0.00 0.00 41.78 3.36
587 591 9.487442 AGGCTGATTAACCCTTTTTAATATGAA 57.513 29.630 0.00 0.00 32.81 2.57
588 592 9.487442 AAGGCTGATTAACCCTTTTTAATATGA 57.513 29.630 0.00 0.00 35.50 2.15
610 614 0.603065 CACCACTAAGGGCAAAAGGC 59.397 55.000 0.00 0.00 43.89 4.35
622 626 1.827344 CTGAGCAGATGGACACCACTA 59.173 52.381 0.00 0.00 35.80 2.74
649 653 2.274437 GAGCACAATTCGCATCTGAGA 58.726 47.619 0.00 0.00 0.00 3.27
706 710 1.205893 GAAGGAGACGGCAGAGTTCAT 59.794 52.381 0.00 0.00 0.00 2.57
759 763 2.336478 CGTCTCTGTCGCCTGGTCT 61.336 63.158 0.00 0.00 0.00 3.85
769 773 6.369065 GTCTGAATAAAATTGGTCGTCTCTGT 59.631 38.462 0.00 0.00 0.00 3.41
831 865 1.869754 GCAACGACTCTCTGCTCAACA 60.870 52.381 0.00 0.00 33.20 3.33
832 866 0.787183 GCAACGACTCTCTGCTCAAC 59.213 55.000 0.00 0.00 33.20 3.18
833 867 0.664466 CGCAACGACTCTCTGCTCAA 60.664 55.000 0.00 0.00 33.82 3.02
834 868 1.081175 CGCAACGACTCTCTGCTCA 60.081 57.895 0.00 0.00 33.82 4.26
835 869 1.803519 CCGCAACGACTCTCTGCTC 60.804 63.158 0.00 0.00 33.82 4.26
836 870 2.259818 CCGCAACGACTCTCTGCT 59.740 61.111 0.00 0.00 33.82 4.24
837 871 2.811317 CCCGCAACGACTCTCTGC 60.811 66.667 0.00 0.00 0.00 4.26
838 872 1.734477 CACCCGCAACGACTCTCTG 60.734 63.158 0.00 0.00 0.00 3.35
839 873 2.201022 ACACCCGCAACGACTCTCT 61.201 57.895 0.00 0.00 0.00 3.10
840 874 2.022129 CACACCCGCAACGACTCTC 61.022 63.158 0.00 0.00 0.00 3.20
841 875 2.029073 CACACCCGCAACGACTCT 59.971 61.111 0.00 0.00 0.00 3.24
842 876 2.758770 TAGCACACCCGCAACGACTC 62.759 60.000 0.00 0.00 0.00 3.36
843 877 2.167398 ATAGCACACCCGCAACGACT 62.167 55.000 0.00 0.00 0.00 4.18
844 878 0.458889 TATAGCACACCCGCAACGAC 60.459 55.000 0.00 0.00 0.00 4.34
896 936 3.197614 TCACCGCCGTGATCTCTC 58.802 61.111 3.61 0.00 44.20 3.20
1155 1208 1.411074 GCCCCGATTCTTACCCCATTT 60.411 52.381 0.00 0.00 0.00 2.32
1270 1543 5.914898 TCATTTATCAGAGTCTTGTCCGA 57.085 39.130 0.00 0.00 0.00 4.55
1298 1629 4.245660 CAACCATTCTTCACGCTCTTCTA 58.754 43.478 0.00 0.00 0.00 2.10
1307 1638 2.029649 AGCATGCACAACCATTCTTCAC 60.030 45.455 21.98 0.00 0.00 3.18
1552 1896 9.143631 CAATTTCAAGATTACAAATTCCTCCAC 57.856 33.333 0.00 0.00 29.17 4.02
1834 2188 1.947456 GAAAACCACGCAAGAGAACCT 59.053 47.619 0.00 0.00 43.62 3.50
2028 2385 5.239087 GGCACATTTTCATGACATTTTGGTT 59.761 36.000 0.00 0.00 34.11 3.67
2063 2421 1.880027 GGCACCAAGTGTAAACCTCTG 59.120 52.381 0.00 0.00 35.75 3.35
2076 2434 7.814264 AAATGTTCATTTATTTTGGCACCAA 57.186 28.000 8.73 0.00 0.00 3.67
2178 2538 4.452733 GGGTTCGAGTCCCCAGCG 62.453 72.222 14.49 0.00 40.88 5.18
2200 2560 2.897846 CACCACAAACCCACGCGA 60.898 61.111 15.93 0.00 0.00 5.87
2259 2619 2.858644 TCCTTCCCTACCCATGTCATT 58.141 47.619 0.00 0.00 0.00 2.57
2260 2620 2.587060 TCCTTCCCTACCCATGTCAT 57.413 50.000 0.00 0.00 0.00 3.06
2334 2696 0.532862 CTCTCACCCGTGTGCAAACT 60.533 55.000 5.28 0.00 42.46 2.66
2346 2708 3.288092 ACAAAGGAAAACCACTCTCACC 58.712 45.455 0.00 0.00 0.00 4.02
2376 2738 4.044308 ACCTTCCAACCCTCCAAAATTTT 58.956 39.130 0.00 0.00 0.00 1.82
2419 2781 7.230510 GTGCCACTATAACCAAAATCATATGGA 59.769 37.037 2.13 0.00 39.12 3.41
2423 2785 7.068103 CCAAGTGCCACTATAACCAAAATCATA 59.932 37.037 0.00 0.00 0.00 2.15
2437 2799 2.059490 ACCCTAAACCAAGTGCCACTA 58.941 47.619 0.00 0.00 0.00 2.74


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

AutoCloner maintained by Alex Coulton.