Multiple sequence alignment - TraesCS4A01G117000

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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 TraesCS4A01G117000 chr4A 100.000 3104 0 0 1 3104 142343381 142346484 0.000000e+00 5733
1 TraesCS4A01G117000 chr4A 86.131 137 15 2 2 137 563224780 563224647 8.970000e-31 145
2 TraesCS4A01G117000 chr4B 92.994 2612 86 41 532 3104 407808966 407806413 0.000000e+00 3720
3 TraesCS4A01G117000 chr4B 73.828 661 150 20 1427 2078 267670065 267670711 1.110000e-59 241
4 TraesCS4A01G117000 chr4B 90.419 167 7 4 150 316 407809173 407809016 8.720000e-51 211
5 TraesCS4A01G117000 chr4B 96.774 124 4 0 317 440 12626160 12626037 1.130000e-49 207
6 TraesCS4A01G117000 chr4D 92.119 2728 71 43 439 3104 328186263 328183618 0.000000e+00 3714
7 TraesCS4A01G117000 chr4D 88.285 239 22 5 48 285 328186501 328186268 6.550000e-72 281
8 TraesCS4A01G117000 chr4D 73.973 657 156 12 1427 2078 246517872 246517226 5.140000e-63 252
9 TraesCS4A01G117000 chr4D 86.232 138 13 4 2 137 8594102 8593969 8.970000e-31 145
10 TraesCS4A01G117000 chr4D 86.029 136 18 1 2 137 336131571 336131437 8.970000e-31 145
11 TraesCS4A01G117000 chr5D 96.456 649 20 1 1045 1693 358593094 358592449 0.000000e+00 1068
12 TraesCS4A01G117000 chr5D 86.500 200 8 4 550 744 358593287 358593102 5.250000e-48 202
13 TraesCS4A01G117000 chr2D 75.201 871 159 45 1243 2074 83859537 83860389 2.940000e-95 359
14 TraesCS4A01G117000 chr2D 86.765 136 14 3 2 137 524003838 524003969 6.940000e-32 148
15 TraesCS4A01G117000 chr2D 86.765 136 12 4 4 137 317028248 317028379 2.490000e-31 147
16 TraesCS4A01G117000 chr2A 76.686 682 114 34 1426 2074 84646555 84647224 1.380000e-88 337
17 TraesCS4A01G117000 chr2A 96.032 126 5 0 317 442 199328889 199328764 4.060000e-49 206
18 TraesCS4A01G117000 chr2B 74.492 886 166 46 1243 2086 135775625 135776492 2.310000e-86 329
19 TraesCS4A01G117000 chr7B 98.374 123 2 0 317 439 642210897 642210775 1.870000e-52 217
20 TraesCS4A01G117000 chr6A 96.800 125 4 0 317 441 116339233 116339357 3.140000e-50 209
21 TraesCS4A01G117000 chr6A 96.800 125 4 0 317 441 585963368 585963244 3.140000e-50 209
22 TraesCS4A01G117000 chr7A 97.500 120 3 0 317 436 22156340 22156221 4.060000e-49 206
23 TraesCS4A01G117000 chr1A 96.748 123 4 0 317 439 471791931 471792053 4.060000e-49 206
24 TraesCS4A01G117000 chr1A 86.131 137 15 3 2 137 575464865 575464998 8.970000e-31 145
25 TraesCS4A01G117000 chr3B 96.000 125 5 0 317 441 698622949 698622825 1.460000e-48 204
26 TraesCS4A01G117000 chr1B 90.789 152 9 5 301 451 228160964 228160817 6.790000e-47 198
27 TraesCS4A01G117000 chr5B 86.029 136 16 3 2 137 678133461 678133329 3.230000e-30 143
28 TraesCS4A01G117000 chr3A 83.444 151 19 5 3 151 708105090 708105236 5.400000e-28 135


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 TraesCS4A01G117000 chr4A 142343381 142346484 3103 False 5733.0 5733 100.0000 1 3104 1 chr4A.!!$F1 3103
1 TraesCS4A01G117000 chr4B 407806413 407809173 2760 True 1965.5 3720 91.7065 150 3104 2 chr4B.!!$R2 2954
2 TraesCS4A01G117000 chr4B 267670065 267670711 646 False 241.0 241 73.8280 1427 2078 1 chr4B.!!$F1 651
3 TraesCS4A01G117000 chr4D 328183618 328186501 2883 True 1997.5 3714 90.2020 48 3104 2 chr4D.!!$R4 3056
4 TraesCS4A01G117000 chr4D 246517226 246517872 646 True 252.0 252 73.9730 1427 2078 1 chr4D.!!$R2 651
5 TraesCS4A01G117000 chr5D 358592449 358593287 838 True 635.0 1068 91.4780 550 1693 2 chr5D.!!$R1 1143
6 TraesCS4A01G117000 chr2D 83859537 83860389 852 False 359.0 359 75.2010 1243 2074 1 chr2D.!!$F1 831
7 TraesCS4A01G117000 chr2A 84646555 84647224 669 False 337.0 337 76.6860 1426 2074 1 chr2A.!!$F1 648
8 TraesCS4A01G117000 chr2B 135775625 135776492 867 False 329.0 329 74.4920 1243 2086 1 chr2B.!!$F1 843

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
813 826 0.033991 TTGAGGAGGAGGAGGACGAG 60.034 60.0 0.0 0.0 0.0 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2536 2612 0.032615 AGACCAAGCCACCAAACCAA 60.033 50.0 0.0 0.0 0.0 3.67 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
29 30 5.753713 CAGTTGACTGAGACTTCGTTATG 57.246 43.478 5.19 0.00 46.59 1.90
30 31 5.223382 CAGTTGACTGAGACTTCGTTATGT 58.777 41.667 5.19 0.00 46.59 2.29
31 32 5.343593 CAGTTGACTGAGACTTCGTTATGTC 59.656 44.000 5.19 0.00 46.59 3.06
32 33 5.241949 AGTTGACTGAGACTTCGTTATGTCT 59.758 40.000 0.00 0.00 45.06 3.41
38 39 4.343811 AGACTTCGTTATGTCTCAGTCG 57.656 45.455 0.00 0.00 39.04 4.18
39 40 4.001652 AGACTTCGTTATGTCTCAGTCGA 58.998 43.478 0.00 0.00 39.04 4.20
40 41 4.636648 AGACTTCGTTATGTCTCAGTCGAT 59.363 41.667 0.00 0.00 39.04 3.59
41 42 5.816258 AGACTTCGTTATGTCTCAGTCGATA 59.184 40.000 0.00 0.00 39.04 2.92
42 43 5.808403 ACTTCGTTATGTCTCAGTCGATAC 58.192 41.667 0.00 0.00 0.00 2.24
43 44 5.585445 ACTTCGTTATGTCTCAGTCGATACT 59.415 40.000 0.00 0.00 35.91 2.12
44 45 6.760298 ACTTCGTTATGTCTCAGTCGATACTA 59.240 38.462 0.00 0.00 33.48 1.82
45 46 7.441760 ACTTCGTTATGTCTCAGTCGATACTAT 59.558 37.037 0.00 0.00 33.48 2.12
46 47 7.348808 TCGTTATGTCTCAGTCGATACTATC 57.651 40.000 0.00 0.00 33.48 2.08
67 68 6.555463 ATCTTCCTTTGATTTTGCATGGAT 57.445 33.333 0.00 0.00 0.00 3.41
71 72 8.199449 TCTTCCTTTGATTTTGCATGGATATTC 58.801 33.333 0.00 0.00 0.00 1.75
143 144 1.732732 CGTTTGAGTGAGACCTAGCCG 60.733 57.143 0.00 0.00 0.00 5.52
147 148 1.304547 AGTGAGACCTAGCCGCACT 60.305 57.895 11.82 11.82 39.30 4.40
179 180 1.190763 GCAAAACAGCGCAGAAATGTG 59.809 47.619 11.47 0.00 0.00 3.21
238 239 3.297134 TCTGAAAAAGCAAGTGGGAGT 57.703 42.857 0.00 0.00 0.00 3.85
341 342 3.826754 CTCCTCTGCCGTGCGCTA 61.827 66.667 9.73 0.00 38.78 4.26
342 343 3.764810 CTCCTCTGCCGTGCGCTAG 62.765 68.421 9.73 1.71 38.78 3.42
343 344 4.880537 CCTCTGCCGTGCGCTAGG 62.881 72.222 9.73 13.39 38.78 3.02
344 345 4.135153 CTCTGCCGTGCGCTAGGT 62.135 66.667 19.77 0.00 38.78 3.08
345 346 4.435436 TCTGCCGTGCGCTAGGTG 62.435 66.667 19.77 14.01 38.78 4.00
346 347 4.435436 CTGCCGTGCGCTAGGTGA 62.435 66.667 19.77 8.78 38.78 4.02
347 348 4.735132 TGCCGTGCGCTAGGTGAC 62.735 66.667 19.77 3.61 38.78 3.67
349 350 4.415332 CCGTGCGCTAGGTGACGT 62.415 66.667 9.73 0.00 0.00 4.34
350 351 2.430244 CGTGCGCTAGGTGACGTT 60.430 61.111 9.73 0.00 0.00 3.99
351 352 2.716828 CGTGCGCTAGGTGACGTTG 61.717 63.158 9.73 0.00 0.00 4.10
352 353 2.048597 TGCGCTAGGTGACGTTGG 60.049 61.111 9.73 0.00 0.00 3.77
353 354 2.813908 GCGCTAGGTGACGTTGGG 60.814 66.667 0.00 0.08 0.00 4.12
354 355 2.654877 CGCTAGGTGACGTTGGGT 59.345 61.111 0.00 0.00 0.00 4.51
355 356 1.445582 CGCTAGGTGACGTTGGGTC 60.446 63.158 0.00 0.00 46.27 4.46
362 363 2.028484 GACGTTGGGTCGCTGACA 59.972 61.111 10.14 0.00 35.61 3.58
363 364 1.374252 GACGTTGGGTCGCTGACAT 60.374 57.895 10.14 0.00 35.61 3.06
364 365 1.626654 GACGTTGGGTCGCTGACATG 61.627 60.000 10.14 0.00 35.61 3.21
365 366 1.667830 CGTTGGGTCGCTGACATGT 60.668 57.895 0.00 0.00 33.68 3.21
366 367 1.868997 GTTGGGTCGCTGACATGTG 59.131 57.895 1.15 0.00 33.68 3.21
367 368 1.302431 TTGGGTCGCTGACATGTGG 60.302 57.895 1.15 0.00 33.68 4.17
368 369 2.436646 GGGTCGCTGACATGTGGG 60.437 66.667 1.15 0.00 33.68 4.61
369 370 3.127533 GGTCGCTGACATGTGGGC 61.128 66.667 1.15 6.31 33.68 5.36
370 371 3.127533 GTCGCTGACATGTGGGCC 61.128 66.667 1.15 0.00 32.09 5.80
371 372 3.635191 TCGCTGACATGTGGGCCA 61.635 61.111 1.15 0.00 0.00 5.36
372 373 3.129502 CGCTGACATGTGGGCCAG 61.130 66.667 6.40 5.40 0.00 4.85
373 374 2.352422 GCTGACATGTGGGCCAGA 59.648 61.111 6.40 5.95 0.00 3.86
374 375 1.077212 GCTGACATGTGGGCCAGAT 60.077 57.895 10.95 10.95 0.00 2.90
375 376 0.682209 GCTGACATGTGGGCCAGATT 60.682 55.000 14.43 5.77 0.00 2.40
376 377 1.843368 CTGACATGTGGGCCAGATTT 58.157 50.000 14.43 7.89 0.00 2.17
377 378 1.747355 CTGACATGTGGGCCAGATTTC 59.253 52.381 19.84 19.84 0.00 2.17
378 379 1.106285 GACATGTGGGCCAGATTTCC 58.894 55.000 14.43 2.28 0.00 3.13
379 380 0.324645 ACATGTGGGCCAGATTTCCC 60.325 55.000 14.43 0.00 42.93 3.97
383 384 4.344237 GGGCCAGATTTCCCACAG 57.656 61.111 4.39 0.00 42.18 3.66
384 385 1.691219 GGGCCAGATTTCCCACAGA 59.309 57.895 4.39 0.00 42.18 3.41
385 386 0.681243 GGGCCAGATTTCCCACAGAC 60.681 60.000 4.39 0.00 42.18 3.51
386 387 0.681243 GGCCAGATTTCCCACAGACC 60.681 60.000 0.00 0.00 0.00 3.85
387 388 0.681243 GCCAGATTTCCCACAGACCC 60.681 60.000 0.00 0.00 0.00 4.46
388 389 0.698238 CCAGATTTCCCACAGACCCA 59.302 55.000 0.00 0.00 0.00 4.51
389 390 1.614317 CCAGATTTCCCACAGACCCAC 60.614 57.143 0.00 0.00 0.00 4.61
390 391 1.073763 CAGATTTCCCACAGACCCACA 59.926 52.381 0.00 0.00 0.00 4.17
391 392 1.995542 AGATTTCCCACAGACCCACAT 59.004 47.619 0.00 0.00 0.00 3.21
392 393 2.094675 GATTTCCCACAGACCCACATG 58.905 52.381 0.00 0.00 0.00 3.21
393 394 0.850100 TTTCCCACAGACCCACATGT 59.150 50.000 0.00 0.00 0.00 3.21
394 395 0.400213 TTCCCACAGACCCACATGTC 59.600 55.000 0.00 0.00 35.43 3.06
395 396 0.766288 TCCCACAGACCCACATGTCA 60.766 55.000 0.00 0.00 37.73 3.58
396 397 0.321919 CCCACAGACCCACATGTCAG 60.322 60.000 0.00 0.00 37.73 3.51
397 398 0.397941 CCACAGACCCACATGTCAGT 59.602 55.000 0.00 0.00 37.73 3.41
398 399 1.516161 CACAGACCCACATGTCAGTG 58.484 55.000 0.00 2.97 43.32 3.66
407 408 2.337583 CACATGTCAGTGGTAGAACGG 58.662 52.381 0.00 0.00 35.88 4.44
408 409 1.337823 ACATGTCAGTGGTAGAACGGC 60.338 52.381 0.00 0.00 0.00 5.68
409 410 0.973632 ATGTCAGTGGTAGAACGGCA 59.026 50.000 0.00 0.00 0.00 5.69
410 411 0.317160 TGTCAGTGGTAGAACGGCAG 59.683 55.000 0.00 0.00 0.00 4.85
411 412 0.389948 GTCAGTGGTAGAACGGCAGG 60.390 60.000 0.00 0.00 0.00 4.85
412 413 1.741770 CAGTGGTAGAACGGCAGGC 60.742 63.158 0.00 0.00 0.00 4.85
413 414 1.913762 AGTGGTAGAACGGCAGGCT 60.914 57.895 0.00 0.00 0.00 4.58
414 415 1.741770 GTGGTAGAACGGCAGGCTG 60.742 63.158 10.94 10.94 0.00 4.85
415 416 2.820037 GGTAGAACGGCAGGCTGC 60.820 66.667 30.93 30.93 44.08 5.25
424 425 4.752879 GCAGGCTGCCGAACGGTA 62.753 66.667 28.87 9.39 37.42 4.02
430 431 4.349682 TGCCGAACGGTAGAGGAT 57.650 55.556 14.63 0.00 37.65 3.24
431 432 2.112898 TGCCGAACGGTAGAGGATC 58.887 57.895 14.63 0.00 37.65 3.36
432 433 1.363080 GCCGAACGGTAGAGGATCC 59.637 63.158 14.63 2.48 37.65 3.36
433 434 1.108132 GCCGAACGGTAGAGGATCCT 61.108 60.000 16.13 16.13 37.65 3.24
434 435 0.953003 CCGAACGGTAGAGGATCCTC 59.047 60.000 31.27 31.27 43.03 3.71
435 436 0.587285 CGAACGGTAGAGGATCCTCG 59.413 60.000 31.51 23.95 46.90 4.63
436 437 0.311477 GAACGGTAGAGGATCCTCGC 59.689 60.000 31.51 26.82 46.90 5.03
437 438 1.445716 AACGGTAGAGGATCCTCGCG 61.446 60.000 31.51 23.81 46.90 5.87
438 439 2.646143 GGTAGAGGATCCTCGCGC 59.354 66.667 31.51 24.37 46.90 6.86
439 440 2.252855 GTAGAGGATCCTCGCGCG 59.747 66.667 31.51 26.76 46.90 6.86
440 441 2.203167 TAGAGGATCCTCGCGCGT 60.203 61.111 31.51 18.80 46.90 6.01
441 442 2.252346 TAGAGGATCCTCGCGCGTC 61.252 63.158 31.51 19.57 46.90 5.19
442 443 4.632458 GAGGATCCTCGCGCGTCC 62.632 72.222 30.98 27.51 33.06 4.79
444 445 4.632458 GGATCCTCGCGCGTCCTC 62.632 72.222 30.98 20.37 0.00 3.71
445 446 3.587933 GATCCTCGCGCGTCCTCT 61.588 66.667 30.98 11.95 0.00 3.69
446 447 3.530398 GATCCTCGCGCGTCCTCTC 62.530 68.421 30.98 16.70 0.00 3.20
449 450 4.244802 CTCGCGCGTCCTCTCCTC 62.245 72.222 30.98 0.00 0.00 3.71
454 455 3.462678 GCGTCCTCTCCTCCCCAC 61.463 72.222 0.00 0.00 0.00 4.61
455 456 3.141488 CGTCCTCTCCTCCCCACG 61.141 72.222 0.00 0.00 0.00 4.94
456 457 2.760385 GTCCTCTCCTCCCCACGG 60.760 72.222 0.00 0.00 0.00 4.94
457 458 2.944954 TCCTCTCCTCCCCACGGA 60.945 66.667 0.00 0.00 36.45 4.69
508 509 0.595310 GGCACGGCGAGAGAGATAAC 60.595 60.000 16.62 0.00 0.00 1.89
532 533 2.092429 CCCGAATCCCCAAAATCAGAGA 60.092 50.000 0.00 0.00 0.00 3.10
535 536 2.338577 ATCCCCAAAATCAGAGAGCG 57.661 50.000 0.00 0.00 0.00 5.03
536 537 0.392998 TCCCCAAAATCAGAGAGCGC 60.393 55.000 0.00 0.00 0.00 5.92
537 538 0.677731 CCCCAAAATCAGAGAGCGCA 60.678 55.000 11.47 0.00 0.00 6.09
538 539 0.449388 CCCAAAATCAGAGAGCGCAC 59.551 55.000 11.47 2.25 0.00 5.34
607 608 2.126734 CGCCGCTGCAGAAAAAGG 60.127 61.111 20.43 12.60 37.32 3.11
609 610 3.041701 CCGCTGCAGAAAAAGGCA 58.958 55.556 20.43 0.00 38.52 4.75
684 690 2.499685 GTGCCGTCGCCTCCTATT 59.500 61.111 0.00 0.00 0.00 1.73
685 691 1.591863 GTGCCGTCGCCTCCTATTC 60.592 63.158 0.00 0.00 0.00 1.75
686 692 1.756950 TGCCGTCGCCTCCTATTCT 60.757 57.895 0.00 0.00 0.00 2.40
687 693 1.007154 GCCGTCGCCTCCTATTCTC 60.007 63.158 0.00 0.00 0.00 2.87
688 694 1.735376 GCCGTCGCCTCCTATTCTCA 61.735 60.000 0.00 0.00 0.00 3.27
689 695 0.744874 CCGTCGCCTCCTATTCTCAA 59.255 55.000 0.00 0.00 0.00 3.02
690 696 1.269309 CCGTCGCCTCCTATTCTCAAG 60.269 57.143 0.00 0.00 0.00 3.02
718 731 1.602237 CACTCCCCATTACCACGCT 59.398 57.895 0.00 0.00 0.00 5.07
808 821 0.041833 TCCAGTTGAGGAGGAGGAGG 59.958 60.000 0.00 0.00 32.77 4.30
809 822 0.041833 CCAGTTGAGGAGGAGGAGGA 59.958 60.000 0.00 0.00 0.00 3.71
810 823 1.190643 CAGTTGAGGAGGAGGAGGAC 58.809 60.000 0.00 0.00 0.00 3.85
811 824 0.323908 AGTTGAGGAGGAGGAGGACG 60.324 60.000 0.00 0.00 0.00 4.79
812 825 0.323542 GTTGAGGAGGAGGAGGACGA 60.324 60.000 0.00 0.00 0.00 4.20
813 826 0.033991 TTGAGGAGGAGGAGGACGAG 60.034 60.000 0.00 0.00 0.00 4.18
873 895 2.759973 GCTGCCCCCTTTTAGCCC 60.760 66.667 0.00 0.00 0.00 5.19
1059 1081 0.465097 CCATGCTGATGGTGGTCCTC 60.465 60.000 0.00 0.00 43.98 3.71
1368 1390 2.362120 TTCCTCGTCTCCGACCCC 60.362 66.667 0.00 0.00 38.40 4.95
1827 1873 1.591863 GATACAGAAGTCGGCGCCC 60.592 63.158 23.46 7.92 0.00 6.13
2122 2168 0.108567 ACCAACCAACCGCAAACAAC 60.109 50.000 0.00 0.00 0.00 3.32
2246 2306 1.900486 TCCTCCTTCCCGTTCTCTTTC 59.100 52.381 0.00 0.00 0.00 2.62
2302 2362 3.927142 CCACTCCTAGATTGTTCGTGTTC 59.073 47.826 0.00 0.00 0.00 3.18
2319 2392 4.481463 GTGTTCGTCCCACATATTTTTGG 58.519 43.478 0.00 0.00 33.00 3.28
2322 2395 3.004171 TCGTCCCACATATTTTTGGTCG 58.996 45.455 0.00 0.00 32.91 4.79
2365 2438 9.747898 AAAAAGGTCATTTGTATCATACTACCA 57.252 29.630 0.00 0.00 0.00 3.25
2395 2468 0.179043 AGAGCTGCAGCCTCATCATG 60.179 55.000 34.39 0.00 43.38 3.07
2396 2469 1.152943 AGCTGCAGCCTCATCATGG 60.153 57.895 34.39 0.00 43.38 3.66
2424 2497 4.394729 TGGTGATGGTGATGATGATGATG 58.605 43.478 0.00 0.00 0.00 3.07
2426 2499 5.222048 TGGTGATGGTGATGATGATGATGAT 60.222 40.000 0.00 0.00 0.00 2.45
2517 2592 4.275936 CGTCTTCCCCTTAAATGGCAATAG 59.724 45.833 0.00 0.00 0.00 1.73
2528 2604 7.389053 CCTTAAATGGCAATAGTATCTCACTCC 59.611 40.741 0.00 0.00 38.80 3.85
2534 2610 4.798924 GCAATAGTATCTCACTCCCTGCTG 60.799 50.000 0.00 0.00 38.80 4.41
2535 2611 2.541233 AGTATCTCACTCCCTGCTGT 57.459 50.000 0.00 0.00 28.33 4.40
2536 2612 2.826488 AGTATCTCACTCCCTGCTGTT 58.174 47.619 0.00 0.00 28.33 3.16
2537 2613 3.177228 AGTATCTCACTCCCTGCTGTTT 58.823 45.455 0.00 0.00 28.33 2.83
2538 2614 2.486472 ATCTCACTCCCTGCTGTTTG 57.514 50.000 0.00 0.00 0.00 2.93
2597 2679 3.235157 ACGGTGGCAATCAATCAATTG 57.765 42.857 0.00 0.00 39.22 2.32
2678 2760 2.104572 AACGCTGCTGGCAGAAGAGA 62.105 55.000 30.08 2.18 46.30 3.10
2679 2761 1.375140 CGCTGCTGGCAGAAGAGAA 60.375 57.895 27.04 0.00 46.30 2.87
2713 2795 1.191535 CTACTCCATGGACCGGTTCA 58.808 55.000 20.35 20.35 0.00 3.18
2720 2802 0.255890 ATGGACCGGTTCATTGGGAG 59.744 55.000 23.47 0.00 0.00 4.30
2721 2803 1.077716 GGACCGGTTCATTGGGAGG 60.078 63.158 9.42 0.00 0.00 4.30
2722 2804 1.077716 GACCGGTTCATTGGGAGGG 60.078 63.158 9.42 0.00 0.00 4.30
2723 2805 1.540367 ACCGGTTCATTGGGAGGGA 60.540 57.895 0.00 0.00 0.00 4.20
2727 2809 0.756815 GGTTCATTGGGAGGGATGGC 60.757 60.000 0.00 0.00 0.00 4.40
2816 2902 2.545742 GGCTGACACCAACAACCATTTC 60.546 50.000 0.00 0.00 0.00 2.17
2821 2907 0.958822 ACCAACAACCATTTCGAGCC 59.041 50.000 0.00 0.00 0.00 4.70
2823 2909 1.068333 CCAACAACCATTTCGAGCCTG 60.068 52.381 0.00 0.00 0.00 4.85
2844 2930 2.026734 ACTCGCGATCTGCCGATG 59.973 61.111 10.36 0.00 42.08 3.84
2950 3049 4.716977 GGGGAGGACGTGGAGGGT 62.717 72.222 0.00 0.00 0.00 4.34
2951 3050 2.606826 GGGAGGACGTGGAGGGTT 60.607 66.667 0.00 0.00 0.00 4.11
2952 3051 2.663196 GGAGGACGTGGAGGGTTG 59.337 66.667 0.00 0.00 0.00 3.77
2953 3052 2.047179 GAGGACGTGGAGGGTTGC 60.047 66.667 0.00 0.00 0.00 4.17
2954 3053 2.847234 AGGACGTGGAGGGTTGCA 60.847 61.111 0.00 0.00 0.00 4.08
2956 3055 3.050275 GACGTGGAGGGTTGCAGC 61.050 66.667 0.00 0.00 0.00 5.25
2957 3056 4.988598 ACGTGGAGGGTTGCAGCG 62.989 66.667 0.00 0.00 0.00 5.18
2989 3090 1.805945 GGACTTGTGAGCTACCGCG 60.806 63.158 0.00 0.00 42.32 6.46
3091 3196 7.966246 TCTTTTGCAAATCATTATTGTGCTT 57.034 28.000 13.65 0.00 33.74 3.91
3093 3198 8.497554 TCTTTTGCAAATCATTATTGTGCTTTC 58.502 29.630 13.65 0.00 33.74 2.62
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 5.009710 ACATAACGAAGTCTCAGTCAACTGA 59.990 40.000 12.07 12.07 46.61 3.41
7 8 5.223382 ACATAACGAAGTCTCAGTCAACTG 58.777 41.667 3.69 3.69 45.00 3.16
8 9 5.241949 AGACATAACGAAGTCTCAGTCAACT 59.758 40.000 0.00 0.00 45.00 3.16
9 10 5.462405 AGACATAACGAAGTCTCAGTCAAC 58.538 41.667 0.00 0.00 45.00 3.18
10 11 5.707242 AGACATAACGAAGTCTCAGTCAA 57.293 39.130 0.00 0.00 45.00 3.18
17 18 4.001652 TCGACTGAGACATAACGAAGTCT 58.998 43.478 0.00 0.00 45.00 3.24
18 19 4.337985 TCGACTGAGACATAACGAAGTC 57.662 45.455 0.00 0.00 45.00 3.01
19 20 5.585445 AGTATCGACTGAGACATAACGAAGT 59.415 40.000 0.00 0.00 40.30 3.01
20 21 6.050454 AGTATCGACTGAGACATAACGAAG 57.950 41.667 0.00 0.00 38.81 3.79
21 22 7.656542 AGATAGTATCGACTGAGACATAACGAA 59.343 37.037 4.48 0.00 38.81 3.85
22 23 7.153315 AGATAGTATCGACTGAGACATAACGA 58.847 38.462 4.48 0.00 38.81 3.85
23 24 7.354025 AGATAGTATCGACTGAGACATAACG 57.646 40.000 4.48 0.00 38.81 3.18
24 25 8.231837 GGAAGATAGTATCGACTGAGACATAAC 58.768 40.741 4.48 0.00 38.81 1.89
25 26 8.158132 AGGAAGATAGTATCGACTGAGACATAA 58.842 37.037 4.48 0.00 38.81 1.90
26 27 7.681679 AGGAAGATAGTATCGACTGAGACATA 58.318 38.462 4.48 0.00 38.81 2.29
27 28 6.539173 AGGAAGATAGTATCGACTGAGACAT 58.461 40.000 4.48 0.00 38.81 3.06
28 29 5.931294 AGGAAGATAGTATCGACTGAGACA 58.069 41.667 4.48 0.00 38.81 3.41
29 30 6.870971 AAGGAAGATAGTATCGACTGAGAC 57.129 41.667 4.48 0.00 36.28 3.36
30 31 7.054751 TCAAAGGAAGATAGTATCGACTGAGA 58.945 38.462 4.48 4.26 36.28 3.27
31 32 7.265647 TCAAAGGAAGATAGTATCGACTGAG 57.734 40.000 4.48 2.38 36.28 3.35
32 33 7.825331 ATCAAAGGAAGATAGTATCGACTGA 57.175 36.000 4.48 4.30 36.28 3.41
33 34 8.879342 AAATCAAAGGAAGATAGTATCGACTG 57.121 34.615 4.48 0.00 36.28 3.51
34 35 9.319143 CAAAATCAAAGGAAGATAGTATCGACT 57.681 33.333 4.48 2.13 39.92 4.18
35 36 8.064814 GCAAAATCAAAGGAAGATAGTATCGAC 58.935 37.037 4.48 3.33 0.00 4.20
36 37 7.768582 TGCAAAATCAAAGGAAGATAGTATCGA 59.231 33.333 4.48 0.00 0.00 3.59
37 38 7.919690 TGCAAAATCAAAGGAAGATAGTATCG 58.080 34.615 4.48 0.00 0.00 2.92
38 39 9.674824 CATGCAAAATCAAAGGAAGATAGTATC 57.325 33.333 1.55 1.55 0.00 2.24
39 40 8.636213 CCATGCAAAATCAAAGGAAGATAGTAT 58.364 33.333 0.00 0.00 0.00 2.12
40 41 7.833682 TCCATGCAAAATCAAAGGAAGATAGTA 59.166 33.333 0.00 0.00 0.00 1.82
41 42 6.664816 TCCATGCAAAATCAAAGGAAGATAGT 59.335 34.615 0.00 0.00 0.00 2.12
42 43 7.104043 TCCATGCAAAATCAAAGGAAGATAG 57.896 36.000 0.00 0.00 0.00 2.08
43 44 7.664552 ATCCATGCAAAATCAAAGGAAGATA 57.335 32.000 0.00 0.00 31.19 1.98
44 45 6.555463 ATCCATGCAAAATCAAAGGAAGAT 57.445 33.333 0.00 0.00 31.19 2.40
45 46 7.664552 ATATCCATGCAAAATCAAAGGAAGA 57.335 32.000 0.00 0.00 31.19 2.87
46 47 7.982919 TGAATATCCATGCAAAATCAAAGGAAG 59.017 33.333 0.00 0.00 31.19 3.46
116 117 6.016943 GCTAGGTCTCACTCAAACGATATAGT 60.017 42.308 0.00 0.00 0.00 2.12
123 124 1.732732 CGGCTAGGTCTCACTCAAACG 60.733 57.143 0.00 0.00 0.00 3.60
125 126 0.246635 GCGGCTAGGTCTCACTCAAA 59.753 55.000 0.00 0.00 0.00 2.69
130 131 1.139947 GAGTGCGGCTAGGTCTCAC 59.860 63.158 0.00 0.00 0.00 3.51
143 144 6.343226 TGTTTTGCAAATTTGTTAGAGTGC 57.657 33.333 19.03 3.88 0.00 4.40
147 148 4.026145 GCGCTGTTTTGCAAATTTGTTAGA 60.026 37.500 19.03 2.39 0.00 2.10
179 180 5.516339 CGAACCAGATTTTGTATTTCATGCC 59.484 40.000 0.00 0.00 0.00 4.40
225 226 1.435256 ACCACTACTCCCACTTGCTT 58.565 50.000 0.00 0.00 0.00 3.91
226 227 2.320681 TACCACTACTCCCACTTGCT 57.679 50.000 0.00 0.00 0.00 3.91
227 228 3.412237 TTTACCACTACTCCCACTTGC 57.588 47.619 0.00 0.00 0.00 4.01
238 239 7.759489 ATCACTTTGCTCAATTTTACCACTA 57.241 32.000 0.00 0.00 0.00 2.74
286 287 4.400961 AGGCAGCTCGCTTGGGTC 62.401 66.667 7.85 0.00 41.91 4.46
316 317 4.459089 GGCAGAGGAGCCGTGTCC 62.459 72.222 0.00 0.00 46.12 4.02
333 334 2.430244 AACGTCACCTAGCGCACG 60.430 61.111 11.47 12.58 38.24 5.34
334 335 2.380410 CCAACGTCACCTAGCGCAC 61.380 63.158 11.47 0.00 0.00 5.34
335 336 2.048597 CCAACGTCACCTAGCGCA 60.049 61.111 11.47 0.00 0.00 6.09
336 337 2.813908 CCCAACGTCACCTAGCGC 60.814 66.667 0.00 0.00 0.00 5.92
337 338 1.445582 GACCCAACGTCACCTAGCG 60.446 63.158 0.00 0.00 41.54 4.26
338 339 1.445582 CGACCCAACGTCACCTAGC 60.446 63.158 0.00 0.00 42.07 3.42
339 340 1.445582 GCGACCCAACGTCACCTAG 60.446 63.158 0.00 0.00 42.07 3.02
340 341 1.904865 AGCGACCCAACGTCACCTA 60.905 57.895 0.00 0.00 42.07 3.08
341 342 3.231736 AGCGACCCAACGTCACCT 61.232 61.111 0.00 0.00 42.07 4.00
342 343 3.041940 CAGCGACCCAACGTCACC 61.042 66.667 0.00 0.00 42.07 4.02
343 344 2.028484 TCAGCGACCCAACGTCAC 59.972 61.111 0.00 0.00 42.07 3.67
344 345 2.028484 GTCAGCGACCCAACGTCA 59.972 61.111 0.00 0.00 42.07 4.35
345 346 1.374252 ATGTCAGCGACCCAACGTC 60.374 57.895 0.00 0.00 38.21 4.34
346 347 1.667830 CATGTCAGCGACCCAACGT 60.668 57.895 6.30 0.00 35.59 3.99
347 348 1.667830 ACATGTCAGCGACCCAACG 60.668 57.895 0.00 0.00 0.00 4.10
348 349 1.577328 CCACATGTCAGCGACCCAAC 61.577 60.000 0.00 0.00 0.00 3.77
349 350 1.302431 CCACATGTCAGCGACCCAA 60.302 57.895 0.00 0.00 0.00 4.12
350 351 2.347114 CCACATGTCAGCGACCCA 59.653 61.111 0.00 0.00 0.00 4.51
351 352 2.436646 CCCACATGTCAGCGACCC 60.437 66.667 0.00 0.00 0.00 4.46
352 353 3.127533 GCCCACATGTCAGCGACC 61.128 66.667 0.00 0.00 0.00 4.79
353 354 3.127533 GGCCCACATGTCAGCGAC 61.128 66.667 9.83 2.32 0.00 5.19
354 355 3.610619 CTGGCCCACATGTCAGCGA 62.611 63.158 0.00 5.97 0.00 4.93
355 356 2.881539 ATCTGGCCCACATGTCAGCG 62.882 60.000 0.00 0.00 0.00 5.18
356 357 0.682209 AATCTGGCCCACATGTCAGC 60.682 55.000 0.00 7.90 0.00 4.26
357 358 1.747355 GAAATCTGGCCCACATGTCAG 59.253 52.381 0.00 0.00 0.00 3.51
358 359 1.616725 GGAAATCTGGCCCACATGTCA 60.617 52.381 0.00 0.00 0.00 3.58
359 360 1.106285 GGAAATCTGGCCCACATGTC 58.894 55.000 0.00 0.00 0.00 3.06
360 361 0.324645 GGGAAATCTGGCCCACATGT 60.325 55.000 0.00 0.00 44.07 3.21
361 362 2.508361 GGGAAATCTGGCCCACATG 58.492 57.895 0.00 0.00 44.07 3.21
366 367 0.681243 GTCTGTGGGAAATCTGGCCC 60.681 60.000 0.00 0.00 44.93 5.80
367 368 0.681243 GGTCTGTGGGAAATCTGGCC 60.681 60.000 0.00 0.00 0.00 5.36
368 369 0.681243 GGGTCTGTGGGAAATCTGGC 60.681 60.000 0.00 0.00 0.00 4.85
369 370 0.698238 TGGGTCTGTGGGAAATCTGG 59.302 55.000 0.00 0.00 0.00 3.86
370 371 1.073763 TGTGGGTCTGTGGGAAATCTG 59.926 52.381 0.00 0.00 0.00 2.90
371 372 1.444933 TGTGGGTCTGTGGGAAATCT 58.555 50.000 0.00 0.00 0.00 2.40
372 373 2.094675 CATGTGGGTCTGTGGGAAATC 58.905 52.381 0.00 0.00 0.00 2.17
373 374 1.428912 ACATGTGGGTCTGTGGGAAAT 59.571 47.619 0.00 0.00 0.00 2.17
374 375 0.850100 ACATGTGGGTCTGTGGGAAA 59.150 50.000 0.00 0.00 0.00 3.13
375 376 0.400213 GACATGTGGGTCTGTGGGAA 59.600 55.000 1.15 0.00 34.92 3.97
376 377 0.766288 TGACATGTGGGTCTGTGGGA 60.766 55.000 1.15 0.00 38.61 4.37
377 378 0.321919 CTGACATGTGGGTCTGTGGG 60.322 60.000 1.15 0.00 38.61 4.61
378 379 0.397941 ACTGACATGTGGGTCTGTGG 59.602 55.000 1.15 0.00 44.82 4.17
387 388 2.337583 CCGTTCTACCACTGACATGTG 58.662 52.381 1.15 0.00 37.66 3.21
388 389 1.337823 GCCGTTCTACCACTGACATGT 60.338 52.381 0.00 0.00 0.00 3.21
389 390 1.337728 TGCCGTTCTACCACTGACATG 60.338 52.381 0.00 0.00 0.00 3.21
390 391 0.973632 TGCCGTTCTACCACTGACAT 59.026 50.000 0.00 0.00 0.00 3.06
391 392 0.317160 CTGCCGTTCTACCACTGACA 59.683 55.000 0.00 0.00 0.00 3.58
392 393 0.389948 CCTGCCGTTCTACCACTGAC 60.390 60.000 0.00 0.00 0.00 3.51
393 394 1.972198 CCTGCCGTTCTACCACTGA 59.028 57.895 0.00 0.00 0.00 3.41
394 395 1.741770 GCCTGCCGTTCTACCACTG 60.742 63.158 0.00 0.00 0.00 3.66
395 396 1.913762 AGCCTGCCGTTCTACCACT 60.914 57.895 0.00 0.00 0.00 4.00
396 397 1.741770 CAGCCTGCCGTTCTACCAC 60.742 63.158 0.00 0.00 0.00 4.16
397 398 2.662596 CAGCCTGCCGTTCTACCA 59.337 61.111 0.00 0.00 0.00 3.25
398 399 2.820037 GCAGCCTGCCGTTCTACC 60.820 66.667 5.06 0.00 37.42 3.18
407 408 4.752879 TACCGTTCGGCAGCCTGC 62.753 66.667 8.55 8.55 44.08 4.85
408 409 2.509336 CTACCGTTCGGCAGCCTG 60.509 66.667 10.54 3.19 0.00 4.85
409 410 2.678934 TCTACCGTTCGGCAGCCT 60.679 61.111 10.54 0.00 0.00 4.58
410 411 2.202756 CTCTACCGTTCGGCAGCC 60.203 66.667 11.32 0.00 0.00 4.85
411 412 2.017559 ATCCTCTACCGTTCGGCAGC 62.018 60.000 11.32 0.00 0.00 5.25
412 413 0.030908 GATCCTCTACCGTTCGGCAG 59.969 60.000 11.32 8.13 0.00 4.85
413 414 1.389609 GGATCCTCTACCGTTCGGCA 61.390 60.000 11.32 0.00 0.00 5.69
414 415 1.108132 AGGATCCTCTACCGTTCGGC 61.108 60.000 9.02 0.00 0.00 5.54
415 416 0.953003 GAGGATCCTCTACCGTTCGG 59.047 60.000 31.11 9.81 39.80 4.30
416 417 0.587285 CGAGGATCCTCTACCGTTCG 59.413 60.000 33.70 18.63 40.69 3.95
417 418 0.311477 GCGAGGATCCTCTACCGTTC 59.689 60.000 33.70 11.23 40.69 3.95
418 419 1.445716 CGCGAGGATCCTCTACCGTT 61.446 60.000 33.70 2.66 40.69 4.44
419 420 1.892862 CGCGAGGATCCTCTACCGT 60.893 63.158 33.70 3.47 40.69 4.83
420 421 2.947542 CGCGAGGATCCTCTACCG 59.052 66.667 33.70 27.74 40.69 4.02
421 422 2.646143 GCGCGAGGATCCTCTACC 59.354 66.667 33.70 22.01 40.69 3.18
422 423 2.252855 CGCGCGAGGATCCTCTAC 59.747 66.667 33.70 25.26 40.69 2.59
423 424 2.203167 ACGCGCGAGGATCCTCTA 60.203 61.111 39.36 0.00 40.69 2.43
424 425 3.587933 GACGCGCGAGGATCCTCT 61.588 66.667 39.36 18.70 40.69 3.69
425 426 4.632458 GGACGCGCGAGGATCCTC 62.632 72.222 39.36 29.15 39.55 3.71
427 428 4.632458 GAGGACGCGCGAGGATCC 62.632 72.222 39.36 31.06 0.00 3.36
428 429 3.530398 GAGAGGACGCGCGAGGATC 62.530 68.421 39.36 25.77 0.00 3.36
429 430 3.587933 GAGAGGACGCGCGAGGAT 61.588 66.667 39.36 19.03 0.00 3.24
432 433 4.244802 GAGGAGAGGACGCGCGAG 62.245 72.222 39.36 10.29 0.00 5.03
437 438 3.462678 GTGGGGAGGAGAGGACGC 61.463 72.222 0.00 0.00 0.00 5.19
438 439 3.141488 CGTGGGGAGGAGAGGACG 61.141 72.222 0.00 0.00 0.00 4.79
439 440 2.760385 CCGTGGGGAGGAGAGGAC 60.760 72.222 0.00 0.00 34.06 3.85
440 441 2.944954 TCCGTGGGGAGGAGAGGA 60.945 66.667 0.00 0.00 37.43 3.71
450 451 4.821589 GAAGAGCGGCTCCGTGGG 62.822 72.222 25.49 0.00 42.09 4.61
451 452 3.708220 GAGAAGAGCGGCTCCGTGG 62.708 68.421 25.49 0.00 42.09 4.94
452 453 2.202676 GAGAAGAGCGGCTCCGTG 60.203 66.667 25.49 0.00 42.09 4.94
453 454 1.816863 TTTGAGAAGAGCGGCTCCGT 61.817 55.000 25.49 14.57 42.09 4.69
454 455 1.079819 TTTGAGAAGAGCGGCTCCG 60.080 57.895 25.49 3.56 43.09 4.63
455 456 0.742635 CCTTTGAGAAGAGCGGCTCC 60.743 60.000 25.49 11.95 34.71 4.70
456 457 1.365368 GCCTTTGAGAAGAGCGGCTC 61.365 60.000 22.13 22.13 34.71 4.70
457 458 1.376553 GCCTTTGAGAAGAGCGGCT 60.377 57.895 0.00 0.00 34.71 5.52
458 459 2.744768 CGCCTTTGAGAAGAGCGGC 61.745 63.158 11.51 0.00 43.03 6.53
459 460 3.479370 CGCCTTTGAGAAGAGCGG 58.521 61.111 11.51 0.00 43.03 5.52
460 461 2.103042 CCCGCCTTTGAGAAGAGCG 61.103 63.158 12.07 12.07 44.66 5.03
461 462 0.742635 CTCCCGCCTTTGAGAAGAGC 60.743 60.000 0.00 0.00 34.71 4.09
462 463 0.107945 CCTCCCGCCTTTGAGAAGAG 60.108 60.000 0.00 0.00 34.71 2.85
463 464 0.544357 TCCTCCCGCCTTTGAGAAGA 60.544 55.000 0.00 0.00 34.71 2.87
532 533 3.068560 TCGGTTTTATTACTTGTGCGCT 58.931 40.909 9.73 0.00 0.00 5.92
535 536 3.844099 CGCTTCGGTTTTATTACTTGTGC 59.156 43.478 0.00 0.00 0.00 4.57
536 537 4.399978 CCGCTTCGGTTTTATTACTTGTG 58.600 43.478 0.00 0.00 42.73 3.33
537 538 4.673534 CCGCTTCGGTTTTATTACTTGT 57.326 40.909 0.00 0.00 42.73 3.16
666 672 2.973180 GAATAGGAGGCGACGGCACC 62.973 65.000 26.65 26.65 42.47 5.01
667 673 1.591863 GAATAGGAGGCGACGGCAC 60.592 63.158 24.23 17.31 42.47 5.01
668 674 1.735376 GAGAATAGGAGGCGACGGCA 61.735 60.000 24.23 2.51 42.47 5.69
669 675 1.007154 GAGAATAGGAGGCGACGGC 60.007 63.158 14.41 14.41 38.90 5.68
670 676 0.744874 TTGAGAATAGGAGGCGACGG 59.255 55.000 0.00 0.00 0.00 4.79
684 690 1.971357 GAGTGGGGTTGAGACTTGAGA 59.029 52.381 0.00 0.00 0.00 3.27
685 691 1.002544 GGAGTGGGGTTGAGACTTGAG 59.997 57.143 0.00 0.00 0.00 3.02
686 692 1.056660 GGAGTGGGGTTGAGACTTGA 58.943 55.000 0.00 0.00 0.00 3.02
687 693 0.036875 GGGAGTGGGGTTGAGACTTG 59.963 60.000 0.00 0.00 0.00 3.16
688 694 1.134438 GGGGAGTGGGGTTGAGACTT 61.134 60.000 0.00 0.00 0.00 3.01
689 695 1.539124 GGGGAGTGGGGTTGAGACT 60.539 63.158 0.00 0.00 0.00 3.24
690 696 1.208165 ATGGGGAGTGGGGTTGAGAC 61.208 60.000 0.00 0.00 0.00 3.36
718 731 2.688666 AGAGGGCATCCAGGCGAA 60.689 61.111 0.00 0.00 45.36 4.70
808 821 0.753848 CCTCCTCCTCCTTCCTCGTC 60.754 65.000 0.00 0.00 0.00 4.20
809 822 1.308326 CCTCCTCCTCCTTCCTCGT 59.692 63.158 0.00 0.00 0.00 4.18
810 823 2.131067 GCCTCCTCCTCCTTCCTCG 61.131 68.421 0.00 0.00 0.00 4.63
811 824 2.131067 CGCCTCCTCCTCCTTCCTC 61.131 68.421 0.00 0.00 0.00 3.71
812 825 2.042435 CGCCTCCTCCTCCTTCCT 60.042 66.667 0.00 0.00 0.00 3.36
813 826 2.042843 TCGCCTCCTCCTCCTTCC 60.043 66.667 0.00 0.00 0.00 3.46
854 867 1.754621 GGCTAAAAGGGGGCAGCTC 60.755 63.158 0.00 0.00 34.41 4.09
1790 1836 0.673985 CTCCATCCACCGCTCGATAA 59.326 55.000 0.00 0.00 0.00 1.75
1791 1837 0.179001 TCTCCATCCACCGCTCGATA 60.179 55.000 0.00 0.00 0.00 2.92
1827 1873 4.271816 AGCTCGTAGATGCGCCCG 62.272 66.667 4.18 0.00 36.18 6.13
2110 2156 3.800531 AGTAGTAGTGTTGTTTGCGGTT 58.199 40.909 0.00 0.00 0.00 4.44
2111 2157 3.464111 AGTAGTAGTGTTGTTTGCGGT 57.536 42.857 0.00 0.00 0.00 5.68
2122 2168 9.930693 AGGAAAAGAATCTTTGTAGTAGTAGTG 57.069 33.333 9.21 0.00 0.00 2.74
2302 2362 2.745281 ACGACCAAAAATATGTGGGACG 59.255 45.455 14.42 14.42 41.29 4.79
2319 2392 3.408288 TTGTAGCACCAAACAAACGAC 57.592 42.857 0.00 0.00 32.86 4.34
2362 2435 2.428890 GCAGCTCTGTAGAGTGTATGGT 59.571 50.000 10.36 0.00 43.85 3.55
2364 2437 3.704512 CTGCAGCTCTGTAGAGTGTATG 58.295 50.000 0.00 6.13 44.51 2.39
2365 2438 2.100584 GCTGCAGCTCTGTAGAGTGTAT 59.899 50.000 31.33 0.00 44.51 2.29
2435 2508 8.511126 TCCCTCCCTCTGCTTTTATTTATTTAT 58.489 33.333 0.00 0.00 0.00 1.40
2436 2509 7.878495 TCCCTCCCTCTGCTTTTATTTATTTA 58.122 34.615 0.00 0.00 0.00 1.40
2437 2510 6.741724 TCCCTCCCTCTGCTTTTATTTATTT 58.258 36.000 0.00 0.00 0.00 1.40
2438 2511 6.341408 TCCCTCCCTCTGCTTTTATTTATT 57.659 37.500 0.00 0.00 0.00 1.40
2439 2512 5.163045 CCTCCCTCCCTCTGCTTTTATTTAT 60.163 44.000 0.00 0.00 0.00 1.40
2440 2513 4.166144 CCTCCCTCCCTCTGCTTTTATTTA 59.834 45.833 0.00 0.00 0.00 1.40
2441 2514 3.053320 CCTCCCTCCCTCTGCTTTTATTT 60.053 47.826 0.00 0.00 0.00 1.40
2442 2515 2.511637 CCTCCCTCCCTCTGCTTTTATT 59.488 50.000 0.00 0.00 0.00 1.40
2517 2592 3.265791 CAAACAGCAGGGAGTGAGATAC 58.734 50.000 0.00 0.00 0.00 2.24
2528 2604 0.104671 CCACCAAACCAAACAGCAGG 59.895 55.000 0.00 0.00 0.00 4.85
2534 2610 0.539518 ACCAAGCCACCAAACCAAAC 59.460 50.000 0.00 0.00 0.00 2.93
2535 2611 0.827368 GACCAAGCCACCAAACCAAA 59.173 50.000 0.00 0.00 0.00 3.28
2536 2612 0.032615 AGACCAAGCCACCAAACCAA 60.033 50.000 0.00 0.00 0.00 3.67
2537 2613 0.754957 CAGACCAAGCCACCAAACCA 60.755 55.000 0.00 0.00 0.00 3.67
2538 2614 0.755327 ACAGACCAAGCCACCAAACC 60.755 55.000 0.00 0.00 0.00 3.27
2597 2679 0.954452 GGGGATGGATGTGCGAATTC 59.046 55.000 0.00 0.00 0.00 2.17
2713 2795 0.481567 CATGAGCCATCCCTCCCAAT 59.518 55.000 0.00 0.00 0.00 3.16
2720 2802 1.876156 GATTTCGACATGAGCCATCCC 59.124 52.381 0.00 0.00 0.00 3.85
2721 2803 1.528586 CGATTTCGACATGAGCCATCC 59.471 52.381 0.00 0.00 43.02 3.51
2722 2804 1.070309 GCGATTTCGACATGAGCCATC 60.070 52.381 0.00 0.00 43.02 3.51
2723 2805 0.940126 GCGATTTCGACATGAGCCAT 59.060 50.000 0.00 0.00 43.02 4.40
2727 2809 0.302890 GCCAGCGATTTCGACATGAG 59.697 55.000 0.00 0.00 43.02 2.90
2794 2880 1.172180 ATGGTTGTTGGTGTCAGCCG 61.172 55.000 0.00 0.00 38.67 5.52
2821 2907 2.229589 GCAGATCGCGAGTGCTCAG 61.230 63.158 29.41 15.11 39.65 3.35
2823 2909 2.959071 GGCAGATCGCGAGTGCTC 60.959 66.667 32.78 23.43 43.84 4.26
2989 3090 3.607370 AAAAGGAGGAGACGGGCGC 62.607 63.158 0.00 0.00 0.00 6.53
2992 3093 0.173708 CTCGAAAAGGAGGAGACGGG 59.826 60.000 0.00 0.00 0.00 5.28
2993 3094 3.723554 CTCGAAAAGGAGGAGACGG 57.276 57.895 0.00 0.00 0.00 4.79


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

AutoCloner maintained by Alex Coulton.