Multiple sequence alignment - TraesCS3D01G293200

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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 TraesCS3D01G293200 chr3D 100.000 2732 0 0 1 2732 403351586 403354317 0.000000e+00 5046
1 TraesCS3D01G293200 chr3D 93.028 1420 51 14 541 1944 403693085 403694472 0.000000e+00 2030
2 TraesCS3D01G293200 chr3D 90.143 700 66 3 2035 2732 518258189 518257491 0.000000e+00 907
3 TraesCS3D01G293200 chr3D 89.700 699 68 3 2037 2732 280259690 280258993 0.000000e+00 889
4 TraesCS3D01G293200 chr3D 88.302 701 76 5 2035 2732 287734402 287733705 0.000000e+00 835
5 TraesCS3D01G293200 chr3D 86.016 379 30 11 1 365 403692723 403693092 4.270000e-103 385
6 TraesCS3D01G293200 chr3B 93.989 1414 59 12 541 1944 529796614 529798011 0.000000e+00 2117
7 TraesCS3D01G293200 chr3B 92.141 369 23 4 1 365 529796255 529796621 1.450000e-142 516
8 TraesCS3D01G293200 chr3B 91.477 176 7 1 365 540 236971397 236971564 4.550000e-58 235
9 TraesCS3D01G293200 chr3A 93.477 1395 63 12 571 1944 525628057 525629444 0.000000e+00 2047
10 TraesCS3D01G293200 chr3A 92.857 1428 58 19 541 1943 525297180 525298588 0.000000e+00 2032
11 TraesCS3D01G293200 chr3A 91.570 344 16 8 32 365 525296847 525297187 1.920000e-126 462
12 TraesCS3D01G293200 chr3A 83.954 349 34 13 1 345 525627724 525628054 5.680000e-82 315
13 TraesCS3D01G293200 chr7A 92.183 678 49 4 2054 2729 145513689 145514364 0.000000e+00 955
14 TraesCS3D01G293200 chr1D 88.857 700 74 4 2036 2732 260782316 260783014 0.000000e+00 857
15 TraesCS3D01G293200 chr1D 88.793 696 74 3 2035 2728 241026183 241026876 0.000000e+00 850
16 TraesCS3D01G293200 chr4A 88.953 697 72 5 2035 2728 285195860 285195166 0.000000e+00 856
17 TraesCS3D01G293200 chr4D 88.412 699 79 2 2035 2732 287461706 287461009 0.000000e+00 841
18 TraesCS3D01G293200 chr5D 88.617 694 73 4 2036 2728 246978757 246978069 0.000000e+00 839
19 TraesCS3D01G293200 chr2A 97.740 177 4 0 365 541 616201881 616201705 3.420000e-79 305
20 TraesCS3D01G293200 chr2B 93.182 176 4 1 365 540 654953195 654953028 4.520000e-63 252
21 TraesCS3D01G293200 chr7B 92.614 176 5 1 365 540 735316596 735316763 2.100000e-61 246
22 TraesCS3D01G293200 chr4B 92.614 176 5 1 365 540 295589448 295589281 2.100000e-61 246
23 TraesCS3D01G293200 chr4B 92.614 176 5 1 365 540 315097019 315097186 2.100000e-61 246
24 TraesCS3D01G293200 chr4B 92.614 176 5 1 365 540 339410955 339411122 2.100000e-61 246
25 TraesCS3D01G293200 chr4B 91.477 176 7 1 365 540 299602069 299601902 4.550000e-58 235
26 TraesCS3D01G293200 chr4B 91.477 176 7 1 365 540 421808702 421808869 4.550000e-58 235
27 TraesCS3D01G293200 chr4B 89.773 176 10 1 365 540 388084914 388085081 4.580000e-53 219
28 TraesCS3D01G293200 chr4B 97.414 116 3 0 425 540 205388598 205388713 5.970000e-47 198
29 TraesCS3D01G293200 chr5B 92.045 176 6 1 365 540 218757021 218757188 9.780000e-60 241
30 TraesCS3D01G293200 chr5B 92.045 176 6 1 365 540 221614982 221614815 9.780000e-60 241
31 TraesCS3D01G293200 chr5B 90.909 176 8 1 365 540 631699307 631699474 2.120000e-56 230
32 TraesCS3D01G293200 chr6B 91.111 180 8 1 365 544 251607547 251607718 1.260000e-58 237


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 TraesCS3D01G293200 chr3D 403351586 403354317 2731 False 5046.0 5046 100.0000 1 2732 1 chr3D.!!$F1 2731
1 TraesCS3D01G293200 chr3D 403692723 403694472 1749 False 1207.5 2030 89.5220 1 1944 2 chr3D.!!$F2 1943
2 TraesCS3D01G293200 chr3D 518257491 518258189 698 True 907.0 907 90.1430 2035 2732 1 chr3D.!!$R3 697
3 TraesCS3D01G293200 chr3D 280258993 280259690 697 True 889.0 889 89.7000 2037 2732 1 chr3D.!!$R1 695
4 TraesCS3D01G293200 chr3D 287733705 287734402 697 True 835.0 835 88.3020 2035 2732 1 chr3D.!!$R2 697
5 TraesCS3D01G293200 chr3B 529796255 529798011 1756 False 1316.5 2117 93.0650 1 1944 2 chr3B.!!$F2 1943
6 TraesCS3D01G293200 chr3A 525296847 525298588 1741 False 1247.0 2032 92.2135 32 1943 2 chr3A.!!$F1 1911
7 TraesCS3D01G293200 chr3A 525627724 525629444 1720 False 1181.0 2047 88.7155 1 1944 2 chr3A.!!$F2 1943
8 TraesCS3D01G293200 chr7A 145513689 145514364 675 False 955.0 955 92.1830 2054 2729 1 chr7A.!!$F1 675
9 TraesCS3D01G293200 chr1D 260782316 260783014 698 False 857.0 857 88.8570 2036 2732 1 chr1D.!!$F2 696
10 TraesCS3D01G293200 chr1D 241026183 241026876 693 False 850.0 850 88.7930 2035 2728 1 chr1D.!!$F1 693
11 TraesCS3D01G293200 chr4A 285195166 285195860 694 True 856.0 856 88.9530 2035 2728 1 chr4A.!!$R1 693
12 TraesCS3D01G293200 chr4D 287461009 287461706 697 True 841.0 841 88.4120 2035 2732 1 chr4D.!!$R1 697
13 TraesCS3D01G293200 chr5D 246978069 246978757 688 True 839.0 839 88.6170 2036 2728 1 chr5D.!!$R1 692

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
464 486 0.041312 CGTTCCACGCCTCAAAACTG 60.041 55.0 0.0 0.0 33.65 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2023 2089 0.323725 ATGTCATCGCCTTGCCCTTT 60.324 50.0 0.0 0.0 0.0 3.11 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
23 28 4.301637 ACACACCAAAAGAAAATCGGAC 57.698 40.909 0.00 0.00 0.00 4.79
43 48 1.912371 GACGCCTTAGTGCCAACTGC 61.912 60.000 0.00 0.00 37.19 4.40
80 85 0.729690 GCCGCAGAAACAGGATCTTC 59.270 55.000 0.00 0.00 0.00 2.87
108 113 0.819259 TTGCAGTGGCCAGTGTCTTC 60.819 55.000 35.27 22.00 40.13 2.87
109 114 1.072159 GCAGTGGCCAGTGTCTTCT 59.928 57.895 35.27 12.94 34.32 2.85
121 129 2.834549 AGTGTCTTCTACATGGGACTGG 59.165 50.000 0.00 0.00 41.10 4.00
152 160 1.299541 ACCAAACTGAACGCACTCAG 58.700 50.000 9.87 9.87 46.94 3.35
163 171 0.318699 CGCACTCAGTTCTCACCGAA 60.319 55.000 0.00 0.00 0.00 4.30
255 263 2.770802 CTCCACATCTCTGTCCATCCTT 59.229 50.000 0.00 0.00 31.62 3.36
260 268 5.163269 CCACATCTCTGTCCATCCTTCATTA 60.163 44.000 0.00 0.00 31.62 1.90
261 269 6.351711 CACATCTCTGTCCATCCTTCATTAA 58.648 40.000 0.00 0.00 31.62 1.40
274 282 3.191371 CCTTCATTAAGACCCACACAAGC 59.809 47.826 0.00 0.00 34.37 4.01
330 352 4.459685 CCACCTCCGGACTATACTAATCAG 59.540 50.000 0.00 0.00 0.00 2.90
360 382 2.989253 CCCAAAACCACGGCCTCC 60.989 66.667 0.00 0.00 0.00 4.30
361 383 2.989253 CCAAAACCACGGCCTCCC 60.989 66.667 0.00 0.00 0.00 4.30
362 384 2.203422 CAAAACCACGGCCTCCCA 60.203 61.111 0.00 0.00 0.00 4.37
363 385 2.203437 AAAACCACGGCCTCCCAC 60.203 61.111 0.00 0.00 0.00 4.61
364 386 4.636435 AAACCACGGCCTCCCACG 62.636 66.667 0.00 0.00 0.00 4.94
389 411 3.077339 CGGAGCTTGAAGCAAAACG 57.923 52.632 20.45 13.29 45.56 3.60
390 412 0.307760 CGGAGCTTGAAGCAAAACGT 59.692 50.000 20.45 0.00 45.56 3.99
391 413 1.268539 CGGAGCTTGAAGCAAAACGTT 60.269 47.619 20.45 0.00 45.56 3.99
392 414 2.119457 GGAGCTTGAAGCAAAACGTTG 58.881 47.619 20.45 0.00 45.56 4.10
393 415 2.119457 GAGCTTGAAGCAAAACGTTGG 58.881 47.619 20.45 0.00 45.56 3.77
394 416 1.202405 AGCTTGAAGCAAAACGTTGGG 60.202 47.619 20.45 0.00 45.56 4.12
395 417 1.208259 CTTGAAGCAAAACGTTGGGC 58.792 50.000 14.60 14.60 35.10 5.36
397 419 1.660264 GAAGCAAAACGTTGGGCGG 60.660 57.895 15.95 0.81 46.52 6.13
398 420 3.145422 AAGCAAAACGTTGGGCGGG 62.145 57.895 15.95 0.00 46.52 6.13
400 422 4.656117 CAAAACGTTGGGCGGGCC 62.656 66.667 14.65 14.65 46.52 5.80
406 428 3.712907 GTTGGGCGGGCCAGTCTA 61.713 66.667 23.18 5.95 37.98 2.59
407 429 3.399181 TTGGGCGGGCCAGTCTAG 61.399 66.667 23.18 0.00 37.98 2.43
418 440 3.311486 GCCAGTCTAGCCAAGCTATAG 57.689 52.381 0.00 0.00 40.54 1.31
419 441 2.894126 GCCAGTCTAGCCAAGCTATAGA 59.106 50.000 3.21 0.00 40.54 1.98
420 442 3.322254 GCCAGTCTAGCCAAGCTATAGAA 59.678 47.826 3.21 0.00 40.54 2.10
421 443 4.202264 GCCAGTCTAGCCAAGCTATAGAAA 60.202 45.833 3.21 0.00 40.54 2.52
422 444 5.685075 GCCAGTCTAGCCAAGCTATAGAAAA 60.685 44.000 3.21 0.00 40.54 2.29
423 445 6.529220 CCAGTCTAGCCAAGCTATAGAAAAT 58.471 40.000 3.21 0.00 40.54 1.82
424 446 6.995091 CCAGTCTAGCCAAGCTATAGAAAATT 59.005 38.462 3.21 0.00 40.54 1.82
425 447 8.150945 CCAGTCTAGCCAAGCTATAGAAAATTA 58.849 37.037 3.21 0.00 40.54 1.40
426 448 9.202273 CAGTCTAGCCAAGCTATAGAAAATTAG 57.798 37.037 3.21 0.00 40.54 1.73
427 449 9.148879 AGTCTAGCCAAGCTATAGAAAATTAGA 57.851 33.333 3.21 0.80 40.54 2.10
428 450 9.765795 GTCTAGCCAAGCTATAGAAAATTAGAA 57.234 33.333 3.21 0.00 40.54 2.10
441 463 7.462571 AGAAAATTAGAAATTACCCTTGCGT 57.537 32.000 0.00 0.00 0.00 5.24
442 464 7.892609 AGAAAATTAGAAATTACCCTTGCGTT 58.107 30.769 0.00 0.00 0.00 4.84
443 465 7.812669 AGAAAATTAGAAATTACCCTTGCGTTG 59.187 33.333 0.00 0.00 0.00 4.10
444 466 6.827586 AATTAGAAATTACCCTTGCGTTGA 57.172 33.333 0.00 0.00 0.00 3.18
445 467 5.616488 TTAGAAATTACCCTTGCGTTGAC 57.384 39.130 0.00 0.00 0.00 3.18
446 468 2.482721 AGAAATTACCCTTGCGTTGACG 59.517 45.455 0.00 0.00 43.27 4.35
447 469 1.886886 AATTACCCTTGCGTTGACGT 58.113 45.000 5.36 0.00 42.22 4.34
448 470 1.886886 ATTACCCTTGCGTTGACGTT 58.113 45.000 5.36 0.00 42.22 3.99
449 471 1.219646 TTACCCTTGCGTTGACGTTC 58.780 50.000 5.36 0.00 42.22 3.95
450 472 0.600782 TACCCTTGCGTTGACGTTCC 60.601 55.000 5.36 0.00 42.22 3.62
451 473 1.890041 CCCTTGCGTTGACGTTCCA 60.890 57.895 5.36 0.00 42.22 3.53
452 474 1.278637 CCTTGCGTTGACGTTCCAC 59.721 57.895 5.36 0.00 42.22 4.02
462 484 4.914291 CGTTCCACGCCTCAAAAC 57.086 55.556 0.00 0.00 33.65 2.43
463 485 2.317230 CGTTCCACGCCTCAAAACT 58.683 52.632 0.00 0.00 33.65 2.66
464 486 0.041312 CGTTCCACGCCTCAAAACTG 60.041 55.000 0.00 0.00 33.65 3.16
465 487 0.310854 GTTCCACGCCTCAAAACTGG 59.689 55.000 0.00 0.00 0.00 4.00
466 488 0.181587 TTCCACGCCTCAAAACTGGA 59.818 50.000 0.00 0.00 0.00 3.86
467 489 0.250295 TCCACGCCTCAAAACTGGAG 60.250 55.000 0.00 0.00 0.00 3.86
475 497 4.086706 CCTCAAAACTGGAGGTACAACT 57.913 45.455 0.00 0.00 45.59 3.16
476 498 5.223449 CCTCAAAACTGGAGGTACAACTA 57.777 43.478 0.00 0.00 45.59 2.24
477 499 4.995487 CCTCAAAACTGGAGGTACAACTAC 59.005 45.833 0.00 0.00 45.59 2.73
478 500 4.624015 TCAAAACTGGAGGTACAACTACG 58.376 43.478 0.00 0.00 0.00 3.51
479 501 4.341806 TCAAAACTGGAGGTACAACTACGA 59.658 41.667 0.00 0.00 0.00 3.43
480 502 4.942761 AAACTGGAGGTACAACTACGAA 57.057 40.909 0.00 0.00 0.00 3.85
481 503 4.942761 AACTGGAGGTACAACTACGAAA 57.057 40.909 0.00 0.00 0.00 3.46
482 504 4.942761 ACTGGAGGTACAACTACGAAAA 57.057 40.909 0.00 0.00 0.00 2.29
483 505 5.479124 ACTGGAGGTACAACTACGAAAAT 57.521 39.130 0.00 0.00 0.00 1.82
484 506 5.476614 ACTGGAGGTACAACTACGAAAATC 58.523 41.667 0.00 0.00 0.00 2.17
485 507 4.824289 TGGAGGTACAACTACGAAAATCC 58.176 43.478 0.00 0.00 0.00 3.01
486 508 4.529377 TGGAGGTACAACTACGAAAATCCT 59.471 41.667 0.00 0.00 0.00 3.24
487 509 4.868734 GGAGGTACAACTACGAAAATCCTG 59.131 45.833 0.00 0.00 0.00 3.86
488 510 4.251268 AGGTACAACTACGAAAATCCTGC 58.749 43.478 0.00 0.00 0.00 4.85
489 511 4.020485 AGGTACAACTACGAAAATCCTGCT 60.020 41.667 0.00 0.00 0.00 4.24
490 512 5.186409 AGGTACAACTACGAAAATCCTGCTA 59.814 40.000 0.00 0.00 0.00 3.49
491 513 5.519206 GGTACAACTACGAAAATCCTGCTAG 59.481 44.000 0.00 0.00 0.00 3.42
492 514 4.504858 ACAACTACGAAAATCCTGCTAGG 58.495 43.478 0.00 0.00 36.46 3.02
493 515 4.020485 ACAACTACGAAAATCCTGCTAGGT 60.020 41.667 0.00 0.00 36.53 3.08
494 516 4.820894 ACTACGAAAATCCTGCTAGGTT 57.179 40.909 0.00 0.00 36.53 3.50
495 517 4.504858 ACTACGAAAATCCTGCTAGGTTG 58.495 43.478 0.00 0.00 36.53 3.77
496 518 2.711542 ACGAAAATCCTGCTAGGTTGG 58.288 47.619 0.00 0.00 36.53 3.77
497 519 2.017049 CGAAAATCCTGCTAGGTTGGG 58.983 52.381 0.00 0.00 36.53 4.12
498 520 1.751351 GAAAATCCTGCTAGGTTGGGC 59.249 52.381 0.00 0.00 36.53 5.36
499 521 0.394352 AAATCCTGCTAGGTTGGGCG 60.394 55.000 0.00 0.00 36.53 6.13
500 522 2.270874 AATCCTGCTAGGTTGGGCGG 62.271 60.000 0.00 0.00 36.53 6.13
501 523 4.489771 CCTGCTAGGTTGGGCGGG 62.490 72.222 0.00 0.00 46.59 6.13
505 527 4.489771 CTAGGTTGGGCGGGCCAG 62.490 72.222 23.18 7.88 37.98 4.85
523 545 4.947147 GGCACGTGTTGGCCCTCA 62.947 66.667 18.38 0.00 45.27 3.86
524 546 3.660111 GCACGTGTTGGCCCTCAC 61.660 66.667 18.38 14.84 0.00 3.51
528 550 4.278956 GTGTTGGCCCTCACGTAG 57.721 61.111 0.00 0.00 0.00 3.51
529 551 2.033194 GTGTTGGCCCTCACGTAGC 61.033 63.158 0.00 0.00 0.00 3.58
530 552 2.214216 TGTTGGCCCTCACGTAGCT 61.214 57.895 0.00 0.00 0.00 3.32
531 553 1.448013 GTTGGCCCTCACGTAGCTC 60.448 63.158 0.00 0.00 0.00 4.09
532 554 2.656069 TTGGCCCTCACGTAGCTCC 61.656 63.158 0.00 0.00 0.00 4.70
533 555 4.208686 GGCCCTCACGTAGCTCCG 62.209 72.222 0.00 0.00 0.00 4.63
534 556 4.874977 GCCCTCACGTAGCTCCGC 62.875 72.222 0.00 0.00 0.00 5.54
535 557 4.208686 CCCTCACGTAGCTCCGCC 62.209 72.222 0.00 0.00 0.00 6.13
536 558 4.208686 CCTCACGTAGCTCCGCCC 62.209 72.222 0.00 0.00 0.00 6.13
537 559 4.208686 CTCACGTAGCTCCGCCCC 62.209 72.222 0.00 0.00 0.00 5.80
538 560 4.753662 TCACGTAGCTCCGCCCCT 62.754 66.667 0.00 0.00 0.00 4.79
539 561 4.514577 CACGTAGCTCCGCCCCTG 62.515 72.222 0.00 0.00 0.00 4.45
542 564 4.228567 GTAGCTCCGCCCCTGCTC 62.229 72.222 0.00 0.00 38.15 4.26
560 582 3.066190 CCACGTACGCCTCCTCCA 61.066 66.667 16.72 0.00 0.00 3.86
861 893 1.810412 GCCCACGCCTGAAACCTATAG 60.810 57.143 0.00 0.00 0.00 1.31
936 970 4.017808 ACTACCACTCTAGCCACTTACTG 58.982 47.826 0.00 0.00 0.00 2.74
977 1011 1.435515 CACCCACCAACCAACAACG 59.564 57.895 0.00 0.00 0.00 4.10
1319 1364 2.693762 CGGCGTACAAGGAGACGGA 61.694 63.158 0.00 0.00 39.46 4.69
1321 1366 1.582968 GCGTACAAGGAGACGGACA 59.417 57.895 0.00 0.00 39.46 4.02
1360 1405 1.297689 GAGTGCACCATCTGCCTCA 59.702 57.895 14.63 0.00 46.51 3.86
1461 1506 4.702081 GCGTCCAGCTCGTCGTGT 62.702 66.667 0.00 0.00 44.04 4.49
1774 1836 4.763593 CGTTTTCGCCATTCGCAT 57.236 50.000 0.00 0.00 37.30 4.73
1805 1867 0.544833 ATCTTGCATTTGGGTGGCCA 60.545 50.000 0.00 0.00 0.00 5.36
1806 1868 0.762082 TCTTGCATTTGGGTGGCCAA 60.762 50.000 7.24 0.00 0.00 4.52
1807 1869 0.108207 CTTGCATTTGGGTGGCCAAA 59.892 50.000 7.24 0.00 42.68 3.28
1886 1951 1.968017 CTGGCGCTTGTGGATGTGT 60.968 57.895 7.64 0.00 0.00 3.72
1912 1978 3.150767 AGCTCACCCATATCTCTCGTAC 58.849 50.000 0.00 0.00 0.00 3.67
1915 1981 4.320641 GCTCACCCATATCTCTCGTACTTC 60.321 50.000 0.00 0.00 0.00 3.01
1946 2012 8.342327 AGAAGGGATCATGGATATATAAAGGG 57.658 38.462 0.00 0.00 0.00 3.95
1947 2013 6.521527 AGGGATCATGGATATATAAAGGGC 57.478 41.667 0.00 0.00 0.00 5.19
1948 2014 6.223374 AGGGATCATGGATATATAAAGGGCT 58.777 40.000 0.00 0.00 0.00 5.19
1949 2015 6.684694 AGGGATCATGGATATATAAAGGGCTT 59.315 38.462 0.00 0.00 0.00 4.35
1950 2016 7.187150 AGGGATCATGGATATATAAAGGGCTTT 59.813 37.037 0.00 0.00 36.63 3.51
1951 2017 7.286316 GGGATCATGGATATATAAAGGGCTTTG 59.714 40.741 0.00 0.00 34.23 2.77
1952 2018 7.201857 GGATCATGGATATATAAAGGGCTTTGC 60.202 40.741 0.00 0.00 34.23 3.68
1953 2019 6.793478 TCATGGATATATAAAGGGCTTTGCT 58.207 36.000 0.00 0.00 34.23 3.91
1954 2020 7.927788 TCATGGATATATAAAGGGCTTTGCTA 58.072 34.615 0.00 0.00 34.23 3.49
1955 2021 8.049117 TCATGGATATATAAAGGGCTTTGCTAG 58.951 37.037 0.00 0.00 34.23 3.42
1956 2022 7.568128 TGGATATATAAAGGGCTTTGCTAGA 57.432 36.000 0.00 0.00 34.23 2.43
1957 2023 7.394816 TGGATATATAAAGGGCTTTGCTAGAC 58.605 38.462 0.00 0.00 34.23 2.59
1958 2024 6.535508 GGATATATAAAGGGCTTTGCTAGACG 59.464 42.308 0.00 0.00 34.23 4.18
1959 2025 3.629142 ATAAAGGGCTTTGCTAGACGT 57.371 42.857 0.00 0.00 34.23 4.34
1960 2026 4.748277 ATAAAGGGCTTTGCTAGACGTA 57.252 40.909 0.00 0.00 34.23 3.57
1961 2027 3.412237 AAAGGGCTTTGCTAGACGTAA 57.588 42.857 0.00 0.00 29.87 3.18
1962 2028 4.501071 TAAAGGGCTTTGCTAGACGTAAG 58.499 43.478 0.00 0.00 37.40 2.34
1963 2029 4.020839 TAAAGGGCTTTGCTAGACGTAAGT 60.021 41.667 0.00 0.00 43.47 2.24
1964 2030 5.185635 TAAAGGGCTTTGCTAGACGTAAGTA 59.814 40.000 0.00 0.00 41.86 2.24
1965 2031 6.295236 TAAAGGGCTTTGCTAGACGTAAGTAA 60.295 38.462 0.00 0.00 41.86 2.24
1966 2032 7.740567 TAAAGGGCTTTGCTAGACGTAAGTAAA 60.741 37.037 11.41 11.41 41.86 2.01
1999 2065 3.122937 GCTTACGTGAAAGCTGGATTG 57.877 47.619 14.43 0.00 46.74 2.67
2000 2066 2.729156 GCTTACGTGAAAGCTGGATTGC 60.729 50.000 14.43 0.00 46.74 3.56
2001 2067 2.472695 TACGTGAAAGCTGGATTGCT 57.527 45.000 0.00 0.00 46.40 3.91
2002 2068 2.472695 ACGTGAAAGCTGGATTGCTA 57.527 45.000 0.00 0.00 43.24 3.49
2003 2069 2.991250 ACGTGAAAGCTGGATTGCTAT 58.009 42.857 0.00 0.00 43.24 2.97
2004 2070 2.679837 ACGTGAAAGCTGGATTGCTATG 59.320 45.455 0.00 0.00 43.24 2.23
2005 2071 2.938451 CGTGAAAGCTGGATTGCTATGA 59.062 45.455 0.00 0.00 43.24 2.15
2006 2072 3.562973 CGTGAAAGCTGGATTGCTATGAT 59.437 43.478 0.00 0.00 43.24 2.45
2007 2073 4.554134 CGTGAAAGCTGGATTGCTATGATG 60.554 45.833 0.00 0.00 43.24 3.07
2008 2074 4.337555 GTGAAAGCTGGATTGCTATGATGT 59.662 41.667 0.00 0.00 43.24 3.06
2009 2075 4.337274 TGAAAGCTGGATTGCTATGATGTG 59.663 41.667 0.00 0.00 43.24 3.21
2010 2076 3.851458 AGCTGGATTGCTATGATGTGA 57.149 42.857 0.00 0.00 42.10 3.58
2011 2077 4.368565 AGCTGGATTGCTATGATGTGAT 57.631 40.909 0.00 0.00 42.10 3.06
2012 2078 4.072839 AGCTGGATTGCTATGATGTGATG 58.927 43.478 0.00 0.00 42.10 3.07
2013 2079 4.070009 GCTGGATTGCTATGATGTGATGA 58.930 43.478 0.00 0.00 0.00 2.92
2014 2080 4.700692 GCTGGATTGCTATGATGTGATGAT 59.299 41.667 0.00 0.00 0.00 2.45
2015 2081 5.183331 GCTGGATTGCTATGATGTGATGATT 59.817 40.000 0.00 0.00 0.00 2.57
2016 2082 6.569179 TGGATTGCTATGATGTGATGATTG 57.431 37.500 0.00 0.00 0.00 2.67
2017 2083 5.475564 TGGATTGCTATGATGTGATGATTGG 59.524 40.000 0.00 0.00 0.00 3.16
2018 2084 5.105877 GGATTGCTATGATGTGATGATTGGG 60.106 44.000 0.00 0.00 0.00 4.12
2019 2085 4.710313 TGCTATGATGTGATGATTGGGA 57.290 40.909 0.00 0.00 0.00 4.37
2020 2086 4.648651 TGCTATGATGTGATGATTGGGAG 58.351 43.478 0.00 0.00 0.00 4.30
2021 2087 4.348754 TGCTATGATGTGATGATTGGGAGA 59.651 41.667 0.00 0.00 0.00 3.71
2022 2088 5.163174 TGCTATGATGTGATGATTGGGAGAA 60.163 40.000 0.00 0.00 0.00 2.87
2023 2089 5.766670 GCTATGATGTGATGATTGGGAGAAA 59.233 40.000 0.00 0.00 0.00 2.52
2024 2090 6.263842 GCTATGATGTGATGATTGGGAGAAAA 59.736 38.462 0.00 0.00 0.00 2.29
2025 2091 7.201848 GCTATGATGTGATGATTGGGAGAAAAA 60.202 37.037 0.00 0.00 0.00 1.94
2026 2092 6.519679 TGATGTGATGATTGGGAGAAAAAG 57.480 37.500 0.00 0.00 0.00 2.27
2027 2093 5.419788 TGATGTGATGATTGGGAGAAAAAGG 59.580 40.000 0.00 0.00 0.00 3.11
2028 2094 4.088634 TGTGATGATTGGGAGAAAAAGGG 58.911 43.478 0.00 0.00 0.00 3.95
2029 2095 3.099141 TGATGATTGGGAGAAAAAGGGC 58.901 45.455 0.00 0.00 0.00 5.19
2030 2096 2.692709 TGATTGGGAGAAAAAGGGCA 57.307 45.000 0.00 0.00 0.00 5.36
2031 2097 2.969628 TGATTGGGAGAAAAAGGGCAA 58.030 42.857 0.00 0.00 0.00 4.52
2032 2098 2.899256 TGATTGGGAGAAAAAGGGCAAG 59.101 45.455 0.00 0.00 0.00 4.01
2033 2099 1.715785 TTGGGAGAAAAAGGGCAAGG 58.284 50.000 0.00 0.00 0.00 3.61
2046 2112 1.597742 GGCAAGGCGATGACATGTAT 58.402 50.000 0.00 0.00 0.00 2.29
2047 2113 1.949525 GGCAAGGCGATGACATGTATT 59.050 47.619 0.00 0.00 0.00 1.89
2051 2117 4.776743 CAAGGCGATGACATGTATTTAGC 58.223 43.478 0.00 1.08 0.00 3.09
2057 2123 5.458015 CGATGACATGTATTTAGCGTAGGA 58.542 41.667 0.00 0.00 0.00 2.94
2083 2149 1.413227 GGCCTGACCTAGACACCCTAT 60.413 57.143 0.00 0.00 34.51 2.57
2085 2151 2.425102 GCCTGACCTAGACACCCTATCT 60.425 54.545 0.00 0.00 0.00 1.98
2150 2216 4.608948 AGATACCGACTGAAATCATCCC 57.391 45.455 0.00 0.00 0.00 3.85
2255 2323 2.581216 TCACTCGGAGTACAGAAGGT 57.419 50.000 10.87 0.00 0.00 3.50
2268 2336 1.550976 CAGAAGGTCTACAGTCACCCC 59.449 57.143 0.00 0.00 32.45 4.95
2335 2404 3.454371 AATAGCAGGCGTTACCAGTAG 57.546 47.619 0.00 0.00 43.14 2.57
2476 2549 2.501723 ACATATCCAGTCGACAAGCCTT 59.498 45.455 19.50 0.00 0.00 4.35
2497 2570 2.125326 CGGCACCGAGATGTAGGGA 61.125 63.158 2.01 0.00 42.83 4.20
2557 2630 0.242017 GTGTACAACCTCGCCGTAGT 59.758 55.000 0.00 0.00 0.00 2.73
2689 2765 4.441356 GCAGTTTTTGGTCTCCATCAACAA 60.441 41.667 10.90 0.00 31.84 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
43 48 1.283793 CTGGCGCCAGTTTGACAAG 59.716 57.895 42.09 19.48 39.10 3.16
108 113 1.224592 GGTGGCCAGTCCCATGTAG 59.775 63.158 5.11 0.00 37.20 2.74
109 114 1.136961 TTGGTGGCCAGTCCCATGTA 61.137 55.000 13.98 0.00 37.20 2.29
121 129 0.539518 AGTTTGGTTTGGTTGGTGGC 59.460 50.000 0.00 0.00 0.00 5.01
152 160 2.383527 CGGCTGCTTCGGTGAGAAC 61.384 63.158 0.00 0.00 34.66 3.01
216 224 1.045911 AGGAGGATCTCTCGGTTGCC 61.046 60.000 0.00 0.00 43.34 4.52
255 263 2.554344 GGGCTTGTGTGGGTCTTAATGA 60.554 50.000 0.00 0.00 0.00 2.57
260 268 2.113139 CGGGCTTGTGTGGGTCTT 59.887 61.111 0.00 0.00 0.00 3.01
261 269 3.168528 ACGGGCTTGTGTGGGTCT 61.169 61.111 0.00 0.00 0.00 3.85
364 386 2.669569 TTCAAGCTCCGCCACTGC 60.670 61.111 0.00 0.00 0.00 4.40
365 387 2.684843 GCTTCAAGCTCCGCCACTG 61.685 63.158 0.71 0.00 38.45 3.66
366 388 2.359230 GCTTCAAGCTCCGCCACT 60.359 61.111 0.71 0.00 38.45 4.00
367 389 1.795170 TTTGCTTCAAGCTCCGCCAC 61.795 55.000 11.57 0.00 42.97 5.01
368 390 1.106351 TTTTGCTTCAAGCTCCGCCA 61.106 50.000 11.57 0.00 42.97 5.69
369 391 0.664466 GTTTTGCTTCAAGCTCCGCC 60.664 55.000 11.57 0.00 42.97 6.13
370 392 0.998727 CGTTTTGCTTCAAGCTCCGC 60.999 55.000 11.57 0.00 42.97 5.54
371 393 0.307760 ACGTTTTGCTTCAAGCTCCG 59.692 50.000 11.57 9.63 42.97 4.63
372 394 2.119457 CAACGTTTTGCTTCAAGCTCC 58.881 47.619 11.57 0.00 42.97 4.70
373 395 2.119457 CCAACGTTTTGCTTCAAGCTC 58.881 47.619 11.57 0.00 42.97 4.09
374 396 1.202405 CCCAACGTTTTGCTTCAAGCT 60.202 47.619 11.57 0.00 42.97 3.74
375 397 1.208259 CCCAACGTTTTGCTTCAAGC 58.792 50.000 1.04 1.04 42.82 4.01
376 398 1.208259 GCCCAACGTTTTGCTTCAAG 58.792 50.000 0.00 0.00 0.00 3.02
377 399 0.526524 CGCCCAACGTTTTGCTTCAA 60.527 50.000 14.74 0.00 36.87 2.69
378 400 1.064946 CGCCCAACGTTTTGCTTCA 59.935 52.632 14.74 0.00 36.87 3.02
379 401 1.660264 CCGCCCAACGTTTTGCTTC 60.660 57.895 14.74 0.00 41.42 3.86
380 402 2.415426 CCGCCCAACGTTTTGCTT 59.585 55.556 14.74 0.00 41.42 3.91
381 403 3.601685 CCCGCCCAACGTTTTGCT 61.602 61.111 14.74 0.00 41.42 3.91
383 405 4.656117 GGCCCGCCCAACGTTTTG 62.656 66.667 0.00 0.00 41.42 2.44
389 411 3.682292 CTAGACTGGCCCGCCCAAC 62.682 68.421 0.00 0.00 44.81 3.77
390 412 3.399181 CTAGACTGGCCCGCCCAA 61.399 66.667 0.00 0.00 44.81 4.12
397 419 0.761802 ATAGCTTGGCTAGACTGGCC 59.238 55.000 22.30 22.30 44.66 5.36
398 420 2.894126 TCTATAGCTTGGCTAGACTGGC 59.106 50.000 1.43 1.43 44.66 4.85
399 421 5.537300 TTTCTATAGCTTGGCTAGACTGG 57.463 43.478 0.00 0.00 44.66 4.00
400 422 9.202273 CTAATTTTCTATAGCTTGGCTAGACTG 57.798 37.037 0.00 0.00 44.66 3.51
401 423 9.148879 TCTAATTTTCTATAGCTTGGCTAGACT 57.851 33.333 0.00 0.00 44.66 3.24
402 424 9.765795 TTCTAATTTTCTATAGCTTGGCTAGAC 57.234 33.333 0.00 0.00 44.66 2.59
415 437 9.185680 ACGCAAGGGTAATTTCTAATTTTCTAT 57.814 29.630 0.00 0.00 46.39 1.98
416 438 8.570068 ACGCAAGGGTAATTTCTAATTTTCTA 57.430 30.769 0.00 0.00 46.39 2.10
417 439 7.462571 ACGCAAGGGTAATTTCTAATTTTCT 57.537 32.000 0.00 0.00 46.39 2.52
418 440 7.810759 TCAACGCAAGGGTAATTTCTAATTTTC 59.189 33.333 0.00 0.00 46.39 2.29
419 441 7.597369 GTCAACGCAAGGGTAATTTCTAATTTT 59.403 33.333 0.00 0.00 46.39 1.82
420 442 7.088272 GTCAACGCAAGGGTAATTTCTAATTT 58.912 34.615 0.00 0.00 46.39 1.82
421 443 6.617879 GTCAACGCAAGGGTAATTTCTAATT 58.382 36.000 0.00 0.00 46.39 1.40
422 444 5.163794 CGTCAACGCAAGGGTAATTTCTAAT 60.164 40.000 0.00 0.00 46.39 1.73
423 445 4.152759 CGTCAACGCAAGGGTAATTTCTAA 59.847 41.667 0.00 0.00 46.39 2.10
424 446 3.680937 CGTCAACGCAAGGGTAATTTCTA 59.319 43.478 0.00 0.00 46.39 2.10
425 447 2.482721 CGTCAACGCAAGGGTAATTTCT 59.517 45.455 0.00 0.00 46.39 2.52
426 448 2.224784 ACGTCAACGCAAGGGTAATTTC 59.775 45.455 1.81 0.00 44.43 2.17
427 449 2.223745 ACGTCAACGCAAGGGTAATTT 58.776 42.857 1.81 0.00 44.43 1.82
428 450 1.886886 ACGTCAACGCAAGGGTAATT 58.113 45.000 1.81 0.00 44.43 1.40
429 451 1.802365 GAACGTCAACGCAAGGGTAAT 59.198 47.619 1.81 0.00 44.43 1.89
430 452 1.219646 GAACGTCAACGCAAGGGTAA 58.780 50.000 1.81 0.00 44.43 2.85
431 453 0.600782 GGAACGTCAACGCAAGGGTA 60.601 55.000 1.81 0.00 44.43 3.69
432 454 1.890510 GGAACGTCAACGCAAGGGT 60.891 57.895 1.81 0.00 44.43 4.34
433 455 1.890041 TGGAACGTCAACGCAAGGG 60.890 57.895 1.81 0.00 44.43 3.95
434 456 1.278637 GTGGAACGTCAACGCAAGG 59.721 57.895 1.81 0.00 44.43 3.61
435 457 4.893241 GTGGAACGTCAACGCAAG 57.107 55.556 1.81 0.00 44.43 4.01
446 468 0.310854 CCAGTTTTGAGGCGTGGAAC 59.689 55.000 0.00 0.00 0.00 3.62
447 469 0.181587 TCCAGTTTTGAGGCGTGGAA 59.818 50.000 0.00 0.00 34.30 3.53
448 470 0.250295 CTCCAGTTTTGAGGCGTGGA 60.250 55.000 0.00 0.00 35.93 4.02
449 471 1.237285 CCTCCAGTTTTGAGGCGTGG 61.237 60.000 0.00 0.00 42.75 4.94
450 472 2.247790 CCTCCAGTTTTGAGGCGTG 58.752 57.895 0.00 0.00 42.75 5.34
451 473 4.800554 CCTCCAGTTTTGAGGCGT 57.199 55.556 0.00 0.00 42.75 5.68
455 477 4.684703 CGTAGTTGTACCTCCAGTTTTGAG 59.315 45.833 0.00 0.00 0.00 3.02
456 478 4.341806 TCGTAGTTGTACCTCCAGTTTTGA 59.658 41.667 0.00 0.00 0.00 2.69
457 479 4.624015 TCGTAGTTGTACCTCCAGTTTTG 58.376 43.478 0.00 0.00 0.00 2.44
458 480 4.942761 TCGTAGTTGTACCTCCAGTTTT 57.057 40.909 0.00 0.00 0.00 2.43
459 481 4.942761 TTCGTAGTTGTACCTCCAGTTT 57.057 40.909 0.00 0.00 0.00 2.66
460 482 4.942761 TTTCGTAGTTGTACCTCCAGTT 57.057 40.909 0.00 0.00 0.00 3.16
461 483 4.942761 TTTTCGTAGTTGTACCTCCAGT 57.057 40.909 0.00 0.00 0.00 4.00
462 484 4.868734 GGATTTTCGTAGTTGTACCTCCAG 59.131 45.833 0.00 0.00 0.00 3.86
463 485 4.529377 AGGATTTTCGTAGTTGTACCTCCA 59.471 41.667 0.00 0.00 0.00 3.86
464 486 4.868734 CAGGATTTTCGTAGTTGTACCTCC 59.131 45.833 0.00 0.00 0.00 4.30
465 487 4.329256 GCAGGATTTTCGTAGTTGTACCTC 59.671 45.833 0.00 0.00 0.00 3.85
466 488 4.020485 AGCAGGATTTTCGTAGTTGTACCT 60.020 41.667 0.00 0.00 0.00 3.08
467 489 4.251268 AGCAGGATTTTCGTAGTTGTACC 58.749 43.478 0.00 0.00 0.00 3.34
468 490 5.519206 CCTAGCAGGATTTTCGTAGTTGTAC 59.481 44.000 0.00 0.00 37.67 2.90
469 491 5.186409 ACCTAGCAGGATTTTCGTAGTTGTA 59.814 40.000 8.91 0.00 37.67 2.41
470 492 4.020485 ACCTAGCAGGATTTTCGTAGTTGT 60.020 41.667 8.91 0.00 37.67 3.32
471 493 4.504858 ACCTAGCAGGATTTTCGTAGTTG 58.495 43.478 8.91 0.00 37.67 3.16
472 494 4.820894 ACCTAGCAGGATTTTCGTAGTT 57.179 40.909 8.91 0.00 37.67 2.24
473 495 4.504858 CAACCTAGCAGGATTTTCGTAGT 58.495 43.478 8.91 0.00 37.67 2.73
474 496 3.871594 CCAACCTAGCAGGATTTTCGTAG 59.128 47.826 8.91 0.00 37.67 3.51
475 497 3.370103 CCCAACCTAGCAGGATTTTCGTA 60.370 47.826 8.91 0.00 37.67 3.43
476 498 2.618045 CCCAACCTAGCAGGATTTTCGT 60.618 50.000 8.91 0.00 37.67 3.85
477 499 2.017049 CCCAACCTAGCAGGATTTTCG 58.983 52.381 8.91 0.00 37.67 3.46
478 500 1.751351 GCCCAACCTAGCAGGATTTTC 59.249 52.381 8.91 0.00 37.67 2.29
479 501 1.852633 GCCCAACCTAGCAGGATTTT 58.147 50.000 8.91 0.00 37.67 1.82
480 502 0.394352 CGCCCAACCTAGCAGGATTT 60.394 55.000 8.91 0.00 37.67 2.17
481 503 1.224592 CGCCCAACCTAGCAGGATT 59.775 57.895 8.91 0.00 37.67 3.01
482 504 2.746375 CCGCCCAACCTAGCAGGAT 61.746 63.158 8.91 0.00 37.67 3.24
483 505 3.399181 CCGCCCAACCTAGCAGGA 61.399 66.667 8.91 0.00 37.67 3.86
484 506 4.489771 CCCGCCCAACCTAGCAGG 62.490 72.222 1.16 1.16 42.49 4.85
488 510 4.489771 CTGGCCCGCCCAACCTAG 62.490 72.222 0.00 0.00 44.81 3.02
507 529 3.660111 GTGAGGGCCAACACGTGC 61.660 66.667 17.22 0.18 0.00 5.34
511 533 2.033194 GCTACGTGAGGGCCAACAC 61.033 63.158 19.21 19.21 0.00 3.32
512 534 2.167398 GAGCTACGTGAGGGCCAACA 62.167 60.000 6.18 2.21 35.19 3.33
513 535 1.448013 GAGCTACGTGAGGGCCAAC 60.448 63.158 6.18 2.23 35.19 3.77
514 536 2.656069 GGAGCTACGTGAGGGCCAA 61.656 63.158 6.18 0.00 35.19 4.52
515 537 3.075005 GGAGCTACGTGAGGGCCA 61.075 66.667 6.18 0.00 35.19 5.36
516 538 4.208686 CGGAGCTACGTGAGGGCC 62.209 72.222 11.15 0.00 35.19 5.80
533 555 4.468689 GTACGTGGGAGCAGGGGC 62.469 72.222 0.00 0.00 41.61 5.80
534 556 4.143333 CGTACGTGGGAGCAGGGG 62.143 72.222 7.22 0.00 0.00 4.79
535 557 4.814294 GCGTACGTGGGAGCAGGG 62.814 72.222 17.90 0.00 0.00 4.45
536 558 4.814294 GGCGTACGTGGGAGCAGG 62.814 72.222 17.90 0.00 0.00 4.85
537 559 3.701604 GAGGCGTACGTGGGAGCAG 62.702 68.421 17.90 0.00 0.00 4.24
538 560 3.755628 GAGGCGTACGTGGGAGCA 61.756 66.667 17.90 0.00 0.00 4.26
539 561 4.509737 GGAGGCGTACGTGGGAGC 62.510 72.222 17.90 0.00 0.00 4.70
540 562 2.754658 AGGAGGCGTACGTGGGAG 60.755 66.667 17.90 0.00 0.00 4.30
541 563 2.753043 GAGGAGGCGTACGTGGGA 60.753 66.667 17.90 0.00 0.00 4.37
542 564 3.834799 GGAGGAGGCGTACGTGGG 61.835 72.222 17.90 0.00 0.00 4.61
543 565 3.066190 TGGAGGAGGCGTACGTGG 61.066 66.667 17.90 0.00 0.00 4.94
1805 1867 6.001460 TCCGTATTTCACACCTCTGAATTTT 58.999 36.000 0.00 0.00 30.19 1.82
1806 1868 5.556915 TCCGTATTTCACACCTCTGAATTT 58.443 37.500 0.00 0.00 30.19 1.82
1807 1869 5.160607 TCCGTATTTCACACCTCTGAATT 57.839 39.130 0.00 0.00 30.19 2.17
1864 1928 3.848301 ATCCACAAGCGCCAGTGCA 62.848 57.895 20.72 9.79 37.32 4.57
1886 1951 3.387962 AGAGATATGGGTGAGCTCCAAA 58.612 45.455 12.15 0.00 37.87 3.28
1915 1981 3.008835 TCCATGATCCCTTCTTTGCAG 57.991 47.619 0.00 0.00 0.00 4.41
1944 2010 2.381725 ACTTACGTCTAGCAAAGCCC 57.618 50.000 0.00 0.00 0.00 5.19
1945 2011 7.710766 ATATTTACTTACGTCTAGCAAAGCC 57.289 36.000 0.00 0.00 0.00 4.35
1946 2012 9.032420 AGAATATTTACTTACGTCTAGCAAAGC 57.968 33.333 0.00 0.00 0.00 3.51
1949 2015 9.655769 CGTAGAATATTTACTTACGTCTAGCAA 57.344 33.333 0.00 0.00 0.00 3.91
1950 2016 8.830580 ACGTAGAATATTTACTTACGTCTAGCA 58.169 33.333 16.04 0.00 38.08 3.49
1954 2020 8.286097 GCCTACGTAGAATATTTACTTACGTCT 58.714 37.037 24.15 9.40 41.80 4.18
1955 2021 8.286097 AGCCTACGTAGAATATTTACTTACGTC 58.714 37.037 24.15 13.11 41.80 4.34
1956 2022 8.159344 AGCCTACGTAGAATATTTACTTACGT 57.841 34.615 24.15 21.12 43.59 3.57
1980 2046 2.744202 AGCAATCCAGCTTTCACGTAAG 59.256 45.455 0.00 0.00 43.70 2.34
1981 2047 2.778299 AGCAATCCAGCTTTCACGTAA 58.222 42.857 0.00 0.00 43.70 3.18
1982 2048 2.472695 AGCAATCCAGCTTTCACGTA 57.527 45.000 0.00 0.00 43.70 3.57
1983 2049 2.472695 TAGCAATCCAGCTTTCACGT 57.527 45.000 0.00 0.00 43.70 4.49
1984 2050 2.938451 TCATAGCAATCCAGCTTTCACG 59.062 45.455 0.00 0.00 43.70 4.35
1985 2051 4.337555 ACATCATAGCAATCCAGCTTTCAC 59.662 41.667 0.00 0.00 43.70 3.18
1986 2052 4.337274 CACATCATAGCAATCCAGCTTTCA 59.663 41.667 0.00 0.00 43.70 2.69
1987 2053 4.577693 TCACATCATAGCAATCCAGCTTTC 59.422 41.667 0.00 0.00 43.70 2.62
1988 2054 4.529897 TCACATCATAGCAATCCAGCTTT 58.470 39.130 0.00 0.00 43.70 3.51
1989 2055 4.160642 TCACATCATAGCAATCCAGCTT 57.839 40.909 0.00 0.00 43.70 3.74
1991 2057 4.070009 TCATCACATCATAGCAATCCAGC 58.930 43.478 0.00 0.00 0.00 4.85
1992 2058 6.349363 CCAATCATCACATCATAGCAATCCAG 60.349 42.308 0.00 0.00 0.00 3.86
1993 2059 5.475564 CCAATCATCACATCATAGCAATCCA 59.524 40.000 0.00 0.00 0.00 3.41
1994 2060 5.105877 CCCAATCATCACATCATAGCAATCC 60.106 44.000 0.00 0.00 0.00 3.01
1995 2061 5.708697 TCCCAATCATCACATCATAGCAATC 59.291 40.000 0.00 0.00 0.00 2.67
1996 2062 5.637127 TCCCAATCATCACATCATAGCAAT 58.363 37.500 0.00 0.00 0.00 3.56
1997 2063 5.051409 TCCCAATCATCACATCATAGCAA 57.949 39.130 0.00 0.00 0.00 3.91
1998 2064 4.348754 TCTCCCAATCATCACATCATAGCA 59.651 41.667 0.00 0.00 0.00 3.49
1999 2065 4.903054 TCTCCCAATCATCACATCATAGC 58.097 43.478 0.00 0.00 0.00 2.97
2000 2066 7.812690 TTTTCTCCCAATCATCACATCATAG 57.187 36.000 0.00 0.00 0.00 2.23
2001 2067 7.286087 CCTTTTTCTCCCAATCATCACATCATA 59.714 37.037 0.00 0.00 0.00 2.15
2002 2068 6.097839 CCTTTTTCTCCCAATCATCACATCAT 59.902 38.462 0.00 0.00 0.00 2.45
2003 2069 5.419788 CCTTTTTCTCCCAATCATCACATCA 59.580 40.000 0.00 0.00 0.00 3.07
2004 2070 5.163478 CCCTTTTTCTCCCAATCATCACATC 60.163 44.000 0.00 0.00 0.00 3.06
2005 2071 4.713321 CCCTTTTTCTCCCAATCATCACAT 59.287 41.667 0.00 0.00 0.00 3.21
2006 2072 4.088634 CCCTTTTTCTCCCAATCATCACA 58.911 43.478 0.00 0.00 0.00 3.58
2007 2073 3.118992 GCCCTTTTTCTCCCAATCATCAC 60.119 47.826 0.00 0.00 0.00 3.06
2008 2074 3.099141 GCCCTTTTTCTCCCAATCATCA 58.901 45.455 0.00 0.00 0.00 3.07
2009 2075 3.099141 TGCCCTTTTTCTCCCAATCATC 58.901 45.455 0.00 0.00 0.00 2.92
2010 2076 3.188880 TGCCCTTTTTCTCCCAATCAT 57.811 42.857 0.00 0.00 0.00 2.45
2011 2077 2.692709 TGCCCTTTTTCTCCCAATCA 57.307 45.000 0.00 0.00 0.00 2.57
2012 2078 2.234661 CCTTGCCCTTTTTCTCCCAATC 59.765 50.000 0.00 0.00 0.00 2.67
2013 2079 2.259917 CCTTGCCCTTTTTCTCCCAAT 58.740 47.619 0.00 0.00 0.00 3.16
2014 2080 1.715785 CCTTGCCCTTTTTCTCCCAA 58.284 50.000 0.00 0.00 0.00 4.12
2015 2081 0.831711 GCCTTGCCCTTTTTCTCCCA 60.832 55.000 0.00 0.00 0.00 4.37
2016 2082 1.877576 CGCCTTGCCCTTTTTCTCCC 61.878 60.000 0.00 0.00 0.00 4.30
2017 2083 0.893727 TCGCCTTGCCCTTTTTCTCC 60.894 55.000 0.00 0.00 0.00 3.71
2018 2084 1.135286 CATCGCCTTGCCCTTTTTCTC 60.135 52.381 0.00 0.00 0.00 2.87
2019 2085 0.890683 CATCGCCTTGCCCTTTTTCT 59.109 50.000 0.00 0.00 0.00 2.52
2020 2086 0.887933 TCATCGCCTTGCCCTTTTTC 59.112 50.000 0.00 0.00 0.00 2.29
2021 2087 0.603065 GTCATCGCCTTGCCCTTTTT 59.397 50.000 0.00 0.00 0.00 1.94
2022 2088 0.539438 TGTCATCGCCTTGCCCTTTT 60.539 50.000 0.00 0.00 0.00 2.27
2023 2089 0.323725 ATGTCATCGCCTTGCCCTTT 60.324 50.000 0.00 0.00 0.00 3.11
2024 2090 1.033746 CATGTCATCGCCTTGCCCTT 61.034 55.000 0.00 0.00 0.00 3.95
2025 2091 1.452651 CATGTCATCGCCTTGCCCT 60.453 57.895 0.00 0.00 0.00 5.19
2026 2092 0.463654 TACATGTCATCGCCTTGCCC 60.464 55.000 0.00 0.00 0.00 5.36
2027 2093 1.597742 ATACATGTCATCGCCTTGCC 58.402 50.000 0.00 0.00 0.00 4.52
2028 2094 3.698029 AAATACATGTCATCGCCTTGC 57.302 42.857 0.00 0.00 0.00 4.01
2029 2095 4.609113 CGCTAAATACATGTCATCGCCTTG 60.609 45.833 0.00 0.00 0.00 3.61
2030 2096 3.494626 CGCTAAATACATGTCATCGCCTT 59.505 43.478 0.00 0.00 0.00 4.35
2031 2097 3.059884 CGCTAAATACATGTCATCGCCT 58.940 45.455 0.00 0.00 0.00 5.52
2032 2098 2.800544 ACGCTAAATACATGTCATCGCC 59.199 45.455 0.00 0.00 0.00 5.54
2033 2099 4.090066 CCTACGCTAAATACATGTCATCGC 59.910 45.833 0.00 0.00 0.00 4.58
2046 2112 3.321111 CAGGCCTAAGATCCTACGCTAAA 59.679 47.826 3.98 0.00 0.00 1.85
2047 2113 2.891580 CAGGCCTAAGATCCTACGCTAA 59.108 50.000 3.98 0.00 0.00 3.09
2051 2117 1.614413 GGTCAGGCCTAAGATCCTACG 59.386 57.143 3.98 0.00 0.00 3.51
2083 2149 2.312140 ACTCTAGGGCAGTGTCCTTAGA 59.688 50.000 24.02 20.09 40.97 2.10
2085 2151 2.042569 TGACTCTAGGGCAGTGTCCTTA 59.957 50.000 24.02 10.00 43.94 2.69
2150 2216 1.078759 GTCGAGTGGATTGCACCTCG 61.079 60.000 17.44 17.44 35.91 4.63
2255 2323 2.187958 CATCTTGGGGGTGACTGTAGA 58.812 52.381 0.00 0.00 0.00 2.59
2268 2336 1.308069 CCTGACCGTTGCCATCTTGG 61.308 60.000 0.00 0.00 41.55 3.61
2335 2404 1.067142 TGTGAGTTATGACTGGGACGC 60.067 52.381 0.00 0.00 35.88 5.19
2476 2549 1.452953 CCTACATCTCGGTGCCGCTA 61.453 60.000 5.64 0.00 39.59 4.26
2519 2592 3.308866 ACACACAAGTTTACGAGTTCAGC 59.691 43.478 0.00 0.00 0.00 4.26
2557 2630 0.413832 AGGAGGAGGCAGTGTCCTAA 59.586 55.000 2.36 0.00 45.00 2.69
2689 2765 1.106944 CAAACCACCGCCAGAAACCT 61.107 55.000 0.00 0.00 0.00 3.50


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

AutoCloner maintained by Alex Coulton.