Multiple sequence alignment - TraesCS7A01G041400

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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 TraesCS7A01G041400 chr7A 100.000 2766 0 0 1 2766 19253302 19250537 0.000000e+00 5108.0
1 TraesCS7A01G041400 chr7A 94.678 714 34 4 2055 2766 510397286 510396575 0.000000e+00 1105.0
2 TraesCS7A01G041400 chr7A 94.258 714 38 3 2055 2766 554758305 554759017 0.000000e+00 1088.0
3 TraesCS7A01G041400 chr7A 90.995 633 36 8 1249 1872 19215794 19215174 0.000000e+00 833.0
4 TraesCS7A01G041400 chr7A 84.244 311 29 16 1131 1425 19418193 19418499 4.510000e-73 285.0
5 TraesCS7A01G041400 chr7A 81.682 333 32 19 1118 1425 19372092 19372420 1.640000e-62 250.0
6 TraesCS7A01G041400 chr7A 83.942 274 28 13 1131 1393 19377594 19377862 5.920000e-62 248.0
7 TraesCS7A01G041400 chr7A 90.714 140 10 2 1570 1709 19418494 19418630 1.690000e-42 183.0
8 TraesCS7A01G041400 chr7A 94.624 93 5 0 1617 1709 19235615 19235523 7.980000e-31 145.0
9 TraesCS7A01G041400 chr7A 85.600 125 17 1 1932 2055 37698249 37698125 2.240000e-26 130.0
10 TraesCS7A01G041400 chr7A 81.579 114 9 5 1522 1632 19382748 19382852 1.770000e-12 84.2
11 TraesCS7A01G041400 chr7D 87.620 1349 75 27 624 1912 18879568 18878252 0.000000e+00 1482.0
12 TraesCS7A01G041400 chr7D 84.087 553 44 18 1 542 18880662 18880143 6.880000e-136 494.0
13 TraesCS7A01G041400 chr7D 76.209 517 77 28 996 1482 18926577 18927077 5.960000e-57 231.0
14 TraesCS7A01G041400 chr7D 90.541 148 11 1 1562 1709 18927007 18927151 2.810000e-45 193.0
15 TraesCS7A01G041400 chr7D 85.039 127 19 0 1929 2055 13069270 13069396 2.240000e-26 130.0
16 TraesCS7A01G041400 chr7D 85.484 124 18 0 1932 2055 164631098 164630975 2.240000e-26 130.0
17 TraesCS7A01G041400 chr6A 95.512 713 30 2 2055 2766 80792626 80791915 0.000000e+00 1138.0
18 TraesCS7A01G041400 chr6A 94.538 714 37 2 2055 2766 251804189 251804902 0.000000e+00 1101.0
19 TraesCS7A01G041400 chr6A 94.390 713 35 3 2055 2766 433956564 433955856 0.000000e+00 1090.0
20 TraesCS7A01G041400 chr5A 94.530 713 37 2 2055 2766 143477059 143476348 0.000000e+00 1099.0
21 TraesCS7A01G041400 chr1A 94.398 714 38 2 2055 2766 264119104 264119817 0.000000e+00 1096.0
22 TraesCS7A01G041400 chr4A 94.382 712 38 2 2055 2766 454700982 454701691 0.000000e+00 1092.0
23 TraesCS7A01G041400 chr4A 86.540 1003 68 23 941 1912 713120013 713120979 0.000000e+00 1042.0
24 TraesCS7A01G041400 chr4A 84.153 366 27 16 1167 1511 713140329 713140684 2.660000e-85 326.0
25 TraesCS7A01G041400 chr4A 78.598 528 64 28 995 1482 713830007 713830525 1.240000e-78 303.0
26 TraesCS7A01G041400 chr4A 93.333 165 11 0 1638 1802 713140676 713140840 7.650000e-61 244.0
27 TraesCS7A01G041400 chr4A 88.298 188 7 5 1522 1709 713830430 713830602 7.760000e-51 211.0
28 TraesCS7A01G041400 chr4A 90.541 148 14 0 1562 1709 713399601 713399748 2.170000e-46 196.0
29 TraesCS7A01G041400 chr4A 76.546 388 53 20 995 1359 713399182 713399554 7.870000e-41 178.0
30 TraesCS7A01G041400 chr4A 86.916 107 4 2 807 912 713119916 713120013 8.100000e-21 111.0
31 TraesCS7A01G041400 chr3A 94.250 713 40 1 2055 2766 489602308 489603020 0.000000e+00 1088.0
32 TraesCS7A01G041400 chr3A 79.787 94 13 4 283 370 456722176 456722083 2.300000e-06 63.9
33 TraesCS7A01G041400 chr2A 84.672 137 21 0 1919 2055 83861800 83861664 1.340000e-28 137.0
34 TraesCS7A01G041400 chr2D 85.827 127 18 0 1929 2055 548611089 548611215 4.810000e-28 135.0
35 TraesCS7A01G041400 chr2D 85.156 128 17 2 1929 2055 633084639 633084765 2.240000e-26 130.0
36 TraesCS7A01G041400 chr5D 85.600 125 18 0 1929 2053 458756868 458756992 6.220000e-27 132.0
37 TraesCS7A01G041400 chr4D 86.066 122 16 1 1934 2055 505324621 505324501 2.240000e-26 130.0
38 TraesCS7A01G041400 chr1D 84.677 124 19 0 1932 2055 320210961 320210838 1.040000e-24 124.0


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 TraesCS7A01G041400 chr7A 19250537 19253302 2765 True 5108.0 5108 100.0000 1 2766 1 chr7A.!!$R3 2765
1 TraesCS7A01G041400 chr7A 510396575 510397286 711 True 1105.0 1105 94.6780 2055 2766 1 chr7A.!!$R5 711
2 TraesCS7A01G041400 chr7A 554758305 554759017 712 False 1088.0 1088 94.2580 2055 2766 1 chr7A.!!$F4 711
3 TraesCS7A01G041400 chr7A 19215174 19215794 620 True 833.0 833 90.9950 1249 1872 1 chr7A.!!$R1 623
4 TraesCS7A01G041400 chr7D 18878252 18880662 2410 True 988.0 1482 85.8535 1 1912 2 chr7D.!!$R2 1911
5 TraesCS7A01G041400 chr7D 18926577 18927151 574 False 212.0 231 83.3750 996 1709 2 chr7D.!!$F2 713
6 TraesCS7A01G041400 chr6A 80791915 80792626 711 True 1138.0 1138 95.5120 2055 2766 1 chr6A.!!$R1 711
7 TraesCS7A01G041400 chr6A 251804189 251804902 713 False 1101.0 1101 94.5380 2055 2766 1 chr6A.!!$F1 711
8 TraesCS7A01G041400 chr6A 433955856 433956564 708 True 1090.0 1090 94.3900 2055 2766 1 chr6A.!!$R2 711
9 TraesCS7A01G041400 chr5A 143476348 143477059 711 True 1099.0 1099 94.5300 2055 2766 1 chr5A.!!$R1 711
10 TraesCS7A01G041400 chr1A 264119104 264119817 713 False 1096.0 1096 94.3980 2055 2766 1 chr1A.!!$F1 711
11 TraesCS7A01G041400 chr4A 454700982 454701691 709 False 1092.0 1092 94.3820 2055 2766 1 chr4A.!!$F1 711
12 TraesCS7A01G041400 chr4A 713119916 713120979 1063 False 576.5 1042 86.7280 807 1912 2 chr4A.!!$F2 1105
13 TraesCS7A01G041400 chr4A 713140329 713140840 511 False 285.0 326 88.7430 1167 1802 2 chr4A.!!$F3 635
14 TraesCS7A01G041400 chr4A 713830007 713830602 595 False 257.0 303 83.4480 995 1709 2 chr4A.!!$F5 714
15 TraesCS7A01G041400 chr3A 489602308 489603020 712 False 1088.0 1088 94.2500 2055 2766 1 chr3A.!!$F1 711

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
542 554 0.0293 CTTGGGTCACAAAGCACGTG 59.971 55.0 12.28 12.28 38.91 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1960 2613 0.168128 CGTGACTGGGCCGATTTTTC 59.832 55.0 0.0 0.0 0.0 2.29 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
62 63 3.507233 ACACTGGAATATGTGCCTTGTTG 59.493 43.478 0.00 0.00 37.68 3.33
148 158 2.204136 ACCAGGACCCAGATGGCA 60.204 61.111 0.00 0.00 37.64 4.92
149 159 1.620589 ACCAGGACCCAGATGGCAT 60.621 57.895 0.00 0.00 37.64 4.40
226 236 1.325640 CATGGTTCTTCGAGACGCATG 59.674 52.381 0.00 0.00 0.00 4.06
227 237 0.389817 TGGTTCTTCGAGACGCATGG 60.390 55.000 0.00 0.00 0.00 3.66
229 239 1.447838 TTCTTCGAGACGCATGGCC 60.448 57.895 0.00 0.00 0.00 5.36
234 244 1.880340 CGAGACGCATGGCCTTCTC 60.880 63.158 3.32 6.57 33.46 2.87
281 291 3.559655 GGTCCATTTTGTCAAAGGTTTGC 59.440 43.478 0.00 0.00 38.05 3.68
288 298 3.857157 TGTCAAAGGTTTGCTACTCCT 57.143 42.857 0.00 0.00 38.05 3.69
300 310 5.798125 TTGCTACTCCTTCTGATCCATAG 57.202 43.478 0.00 0.00 0.00 2.23
307 317 7.682787 ACTCCTTCTGATCCATAGTAATTGT 57.317 36.000 0.00 0.00 0.00 2.71
308 318 8.095452 ACTCCTTCTGATCCATAGTAATTGTT 57.905 34.615 0.00 0.00 0.00 2.83
311 321 6.769822 CCTTCTGATCCATAGTAATTGTTGCT 59.230 38.462 0.00 0.00 0.00 3.91
313 323 9.330063 CTTCTGATCCATAGTAATTGTTGCTAA 57.670 33.333 0.00 0.00 31.64 3.09
314 324 9.851686 TTCTGATCCATAGTAATTGTTGCTAAT 57.148 29.630 0.00 0.00 31.64 1.73
315 325 9.851686 TCTGATCCATAGTAATTGTTGCTAATT 57.148 29.630 0.00 0.00 31.64 1.40
328 338 9.691362 AATTGTTGCTAATTTAACCTTGTACTG 57.309 29.630 0.00 0.00 0.00 2.74
329 339 8.453238 TTGTTGCTAATTTAACCTTGTACTGA 57.547 30.769 0.00 0.00 0.00 3.41
330 340 8.453238 TGTTGCTAATTTAACCTTGTACTGAA 57.547 30.769 0.00 0.00 0.00 3.02
331 341 9.073475 TGTTGCTAATTTAACCTTGTACTGAAT 57.927 29.630 0.00 0.00 0.00 2.57
332 342 9.556030 GTTGCTAATTTAACCTTGTACTGAATC 57.444 33.333 0.00 0.00 0.00 2.52
333 343 8.856153 TGCTAATTTAACCTTGTACTGAATCA 57.144 30.769 0.00 0.00 0.00 2.57
334 344 8.946085 TGCTAATTTAACCTTGTACTGAATCAG 58.054 33.333 8.98 8.98 37.52 2.90
337 347 7.687941 ATTTAACCTTGTACTGAATCAGTGG 57.312 36.000 24.74 18.81 45.01 4.00
352 362 9.234827 CTGAATCAGTGGCAATTAATATGGATA 57.765 33.333 1.31 0.00 0.00 2.59
424 435 6.300354 CAAAGAGTTGGTGAAGACGTATTT 57.700 37.500 0.00 0.00 0.00 1.40
425 436 5.924475 AAGAGTTGGTGAAGACGTATTTG 57.076 39.130 0.00 0.00 0.00 2.32
438 450 5.880341 AGACGTATTTGCCAGATAAAAAGC 58.120 37.500 0.00 0.00 0.00 3.51
442 454 2.346099 TTGCCAGATAAAAAGCGCAC 57.654 45.000 11.47 0.00 0.00 5.34
445 457 2.253603 GCCAGATAAAAAGCGCACAAG 58.746 47.619 11.47 0.00 0.00 3.16
447 459 3.492313 CCAGATAAAAAGCGCACAAGAC 58.508 45.455 11.47 0.00 0.00 3.01
450 462 4.556135 CAGATAAAAAGCGCACAAGACATG 59.444 41.667 11.47 0.00 0.00 3.21
453 465 0.385029 AAAGCGCACAAGACATGCAA 59.615 45.000 11.47 0.00 43.57 4.08
456 468 1.951510 CGCACAAGACATGCAACCT 59.048 52.632 0.00 0.00 43.57 3.50
458 470 1.774639 GCACAAGACATGCAACCTTG 58.225 50.000 18.51 18.51 42.88 3.61
460 472 2.481795 GCACAAGACATGCAACCTTGTT 60.482 45.455 21.44 10.18 45.59 2.83
461 473 3.374745 CACAAGACATGCAACCTTGTTC 58.625 45.455 21.44 4.90 45.59 3.18
462 474 3.023119 ACAAGACATGCAACCTTGTTCA 58.977 40.909 19.48 0.00 45.59 3.18
463 475 3.638160 ACAAGACATGCAACCTTGTTCAT 59.362 39.130 19.48 4.43 45.59 2.57
465 477 6.902182 ACAAGACATGCAACCTTGTTCATGT 61.902 40.000 19.48 17.12 45.59 3.21
466 478 3.005050 AGACATGCAACCTTGTTCATGTG 59.995 43.478 19.80 4.35 46.45 3.21
467 479 2.063266 CATGCAACCTTGTTCATGTGC 58.937 47.619 0.00 0.00 33.55 4.57
470 482 1.925946 GCAACCTTGTTCATGTGCGAC 60.926 52.381 0.00 0.00 0.00 5.19
475 487 0.534877 TTGTTCATGTGCGACCTGCT 60.535 50.000 0.00 0.00 46.63 4.24
503 515 0.965866 TCGACGAATGAGGCTGAGGT 60.966 55.000 0.00 0.00 0.00 3.85
514 526 0.107945 GGCTGAGGTCGCTGAAATCT 60.108 55.000 0.00 0.00 0.00 2.40
516 528 1.649664 CTGAGGTCGCTGAAATCTGG 58.350 55.000 0.00 0.00 0.00 3.86
519 531 0.036010 AGGTCGCTGAAATCTGGTGG 60.036 55.000 0.00 0.00 0.00 4.61
536 548 2.100749 GGTGGAAACTTGGGTCACAAAG 59.899 50.000 0.00 0.00 38.91 2.77
542 554 0.029300 CTTGGGTCACAAAGCACGTG 59.971 55.000 12.28 12.28 38.91 4.49
543 555 0.678366 TTGGGTCACAAAGCACGTGT 60.678 50.000 18.38 0.68 35.79 4.49
544 556 1.092921 TGGGTCACAAAGCACGTGTC 61.093 55.000 18.38 9.62 35.79 3.67
546 558 1.275657 GTCACAAAGCACGTGTCGG 59.724 57.895 18.38 7.22 35.79 4.79
547 559 2.052237 CACAAAGCACGTGTCGGC 60.052 61.111 18.38 1.83 0.00 5.54
549 561 2.972505 CAAAGCACGTGTCGGCCT 60.973 61.111 18.38 1.69 0.00 5.19
550 562 2.972505 AAAGCACGTGTCGGCCTG 60.973 61.111 18.38 0.00 0.00 4.85
551 563 3.750373 AAAGCACGTGTCGGCCTGT 62.750 57.895 18.38 0.00 0.00 4.00
552 564 2.372040 AAAGCACGTGTCGGCCTGTA 62.372 55.000 18.38 0.00 0.00 2.74
553 565 2.765250 AAGCACGTGTCGGCCTGTAG 62.765 60.000 18.38 0.00 0.00 2.74
554 566 2.649034 CACGTGTCGGCCTGTAGT 59.351 61.111 7.58 0.00 0.00 2.73
556 568 0.599204 CACGTGTCGGCCTGTAGTTT 60.599 55.000 7.58 0.00 0.00 2.66
557 569 0.961019 ACGTGTCGGCCTGTAGTTTA 59.039 50.000 0.00 0.00 0.00 2.01
558 570 1.547372 ACGTGTCGGCCTGTAGTTTAT 59.453 47.619 0.00 0.00 0.00 1.40
559 571 2.754552 ACGTGTCGGCCTGTAGTTTATA 59.245 45.455 0.00 0.00 0.00 0.98
561 573 3.451526 GTGTCGGCCTGTAGTTTATACC 58.548 50.000 0.00 0.00 0.00 2.73
563 575 3.131577 TGTCGGCCTGTAGTTTATACCTG 59.868 47.826 0.00 0.00 0.00 4.00
564 576 3.382546 GTCGGCCTGTAGTTTATACCTGA 59.617 47.826 0.00 0.00 0.00 3.86
567 579 4.098960 CGGCCTGTAGTTTATACCTGAAGA 59.901 45.833 0.00 0.00 0.00 2.87
570 582 6.483640 GGCCTGTAGTTTATACCTGAAGATTG 59.516 42.308 0.00 0.00 0.00 2.67
571 583 6.017852 GCCTGTAGTTTATACCTGAAGATTGC 60.018 42.308 0.00 0.00 0.00 3.56
572 584 7.047891 CCTGTAGTTTATACCTGAAGATTGCA 58.952 38.462 0.00 0.00 0.00 4.08
574 586 7.620880 TGTAGTTTATACCTGAAGATTGCACT 58.379 34.615 0.00 0.00 0.00 4.40
575 587 8.100791 TGTAGTTTATACCTGAAGATTGCACTT 58.899 33.333 0.00 0.00 0.00 3.16
576 588 7.383102 AGTTTATACCTGAAGATTGCACTTG 57.617 36.000 0.00 0.00 0.00 3.16
587 599 4.614673 GCACTTGCACGGAGTTTG 57.385 55.556 0.00 0.00 41.61 2.93
588 600 1.658409 GCACTTGCACGGAGTTTGC 60.658 57.895 0.00 0.00 41.61 3.68
589 601 2.024918 CACTTGCACGGAGTTTGCT 58.975 52.632 0.00 0.00 41.61 3.91
591 603 1.195448 CACTTGCACGGAGTTTGCTAG 59.805 52.381 5.18 5.18 41.61 3.42
593 605 1.195448 CTTGCACGGAGTTTGCTAGTG 59.805 52.381 0.00 0.00 41.61 2.74
594 606 1.497722 GCACGGAGTTTGCTAGTGC 59.502 57.895 3.12 3.12 45.23 4.40
596 608 0.792640 CACGGAGTTTGCTAGTGCAG 59.207 55.000 0.00 0.00 46.55 4.41
597 609 2.533475 CACGGAGTTTGCTAGTGCAGG 61.533 57.143 0.00 0.00 46.55 4.85
611 623 2.673523 CAGGGTCTGCTTCCTGGG 59.326 66.667 0.00 0.00 44.99 4.45
612 624 2.612115 AGGGTCTGCTTCCTGGGG 60.612 66.667 0.00 0.00 31.11 4.96
613 625 2.610859 GGGTCTGCTTCCTGGGGA 60.611 66.667 0.00 0.00 0.00 4.81
614 626 2.231380 GGGTCTGCTTCCTGGGGAA 61.231 63.158 0.00 0.00 39.66 3.97
615 627 1.002011 GGTCTGCTTCCTGGGGAAC 60.002 63.158 0.00 0.00 36.71 3.62
616 628 1.761174 GTCTGCTTCCTGGGGAACA 59.239 57.895 0.00 0.00 36.71 3.18
617 629 0.110486 GTCTGCTTCCTGGGGAACAA 59.890 55.000 0.00 0.00 36.71 2.83
618 630 0.850100 TCTGCTTCCTGGGGAACAAA 59.150 50.000 0.00 0.00 36.71 2.83
619 631 0.961753 CTGCTTCCTGGGGAACAAAC 59.038 55.000 0.00 0.00 36.71 2.93
620 632 0.260230 TGCTTCCTGGGGAACAAACA 59.740 50.000 0.00 0.00 36.71 2.83
621 633 1.342474 TGCTTCCTGGGGAACAAACAA 60.342 47.619 0.00 0.00 36.71 2.83
629 1134 1.686741 GGGGAACAAACAAGGTGTCCA 60.687 52.381 0.00 0.00 0.00 4.02
704 1211 2.516930 CCACCGCATCCATCACCC 60.517 66.667 0.00 0.00 0.00 4.61
714 1221 0.617535 TCCATCACCCACCATCGTCT 60.618 55.000 0.00 0.00 0.00 4.18
717 1224 0.826715 ATCACCCACCATCGTCTCTG 59.173 55.000 0.00 0.00 0.00 3.35
744 1251 2.434185 GTCTCGTCAATGGCGCCA 60.434 61.111 34.80 34.80 0.00 5.69
779 1294 2.994699 CCATTCCCCGCACCACTA 59.005 61.111 0.00 0.00 0.00 2.74
835 1369 3.367190 GGTACAGGACGAAGAAGAGAACC 60.367 52.174 0.00 0.00 0.00 3.62
856 1390 1.268488 CGATCTCAAGTCTCAGCTCCG 60.268 57.143 0.00 0.00 0.00 4.63
903 1437 2.730524 GCTCTGCTCTCCCTCCCAC 61.731 68.421 0.00 0.00 0.00 4.61
918 1452 1.653094 CCCACACACACACACACACC 61.653 60.000 0.00 0.00 0.00 4.16
921 1455 0.906066 ACACACACACACACACCCTA 59.094 50.000 0.00 0.00 0.00 3.53
927 1461 0.179094 ACACACACACCCTACACACG 60.179 55.000 0.00 0.00 0.00 4.49
953 1506 1.550524 TGCTTGGCGATCTTCTGTACT 59.449 47.619 0.00 0.00 0.00 2.73
962 1515 0.811915 TCTTCTGTACTGAGCTCGCC 59.188 55.000 9.64 0.00 0.00 5.54
1076 1635 2.716017 CGCCTCTTCTCGCCTCCTT 61.716 63.158 0.00 0.00 0.00 3.36
1103 1662 6.005583 GTAACTAACCAGCTTTGTTTACCC 57.994 41.667 3.86 0.00 31.35 3.69
1104 1663 4.173290 ACTAACCAGCTTTGTTTACCCA 57.827 40.909 3.86 0.00 0.00 4.51
1106 1665 1.995376 ACCAGCTTTGTTTACCCAGG 58.005 50.000 0.00 0.00 0.00 4.45
1107 1666 0.603065 CCAGCTTTGTTTACCCAGGC 59.397 55.000 0.00 0.00 0.00 4.85
1108 1667 1.620822 CAGCTTTGTTTACCCAGGCT 58.379 50.000 0.00 0.00 0.00 4.58
1109 1668 1.963515 CAGCTTTGTTTACCCAGGCTT 59.036 47.619 0.00 0.00 0.00 4.35
1110 1669 3.153919 CAGCTTTGTTTACCCAGGCTTA 58.846 45.455 0.00 0.00 0.00 3.09
1128 1716 3.119792 GCTTACTTGTTGTCGAACTCTCG 59.880 47.826 0.00 0.00 46.87 4.04
1200 1790 2.047179 GAACCACTCCTCGGCCAC 60.047 66.667 2.24 0.00 0.00 5.01
1201 1791 3.934391 GAACCACTCCTCGGCCACG 62.934 68.421 2.24 0.00 42.74 4.94
1519 2130 4.373116 GGGTCAGCGGCGTCTTCA 62.373 66.667 9.37 0.00 0.00 3.02
1822 2466 7.485595 GTGCTCTAGTTTCAGTAAGCTAGTTAC 59.514 40.741 8.31 6.96 43.38 2.50
1835 2479 1.413077 CTAGTTACTACTGCCCCTGCC 59.587 57.143 0.00 0.00 35.78 4.85
1836 2480 0.252742 AGTTACTACTGCCCCTGCCT 60.253 55.000 0.00 0.00 36.33 4.75
1907 2560 2.349817 CGTTCACTTGCTTGCTTACCTG 60.350 50.000 0.00 0.00 0.00 4.00
1912 2565 4.515191 TCACTTGCTTGCTTACCTGTTTAG 59.485 41.667 0.00 0.00 0.00 1.85
1913 2566 4.515191 CACTTGCTTGCTTACCTGTTTAGA 59.485 41.667 0.00 0.00 0.00 2.10
1914 2567 4.757149 ACTTGCTTGCTTACCTGTTTAGAG 59.243 41.667 0.00 0.00 0.00 2.43
1915 2568 3.074412 TGCTTGCTTACCTGTTTAGAGC 58.926 45.455 0.00 0.00 0.00 4.09
1916 2569 3.074412 GCTTGCTTACCTGTTTAGAGCA 58.926 45.455 0.00 0.00 41.19 4.26
1917 2570 3.691609 GCTTGCTTACCTGTTTAGAGCAT 59.308 43.478 0.00 0.00 42.29 3.79
1918 2571 4.201861 GCTTGCTTACCTGTTTAGAGCATC 60.202 45.833 0.00 0.00 42.29 3.91
1929 2582 2.280052 GAGCATCTCCAGAGCCGC 60.280 66.667 0.00 1.23 0.00 6.53
1930 2583 4.218578 AGCATCTCCAGAGCCGCG 62.219 66.667 0.00 0.00 32.76 6.46
1931 2584 4.521062 GCATCTCCAGAGCCGCGT 62.521 66.667 4.92 0.00 0.00 6.01
1932 2585 2.279120 CATCTCCAGAGCCGCGTC 60.279 66.667 4.92 0.00 0.00 5.19
1933 2586 3.532155 ATCTCCAGAGCCGCGTCC 61.532 66.667 4.92 0.00 0.00 4.79
1945 2598 3.292159 GCGTCCCCAGCCGTTTTT 61.292 61.111 0.00 0.00 0.00 1.94
1946 2599 2.951458 CGTCCCCAGCCGTTTTTC 59.049 61.111 0.00 0.00 0.00 2.29
1947 2600 1.599797 CGTCCCCAGCCGTTTTTCT 60.600 57.895 0.00 0.00 0.00 2.52
1948 2601 1.574702 CGTCCCCAGCCGTTTTTCTC 61.575 60.000 0.00 0.00 0.00 2.87
1949 2602 1.302192 TCCCCAGCCGTTTTTCTCG 60.302 57.895 0.00 0.00 0.00 4.04
1950 2603 2.561373 CCCAGCCGTTTTTCTCGC 59.439 61.111 0.00 0.00 0.00 5.03
1951 2604 2.173382 CCAGCCGTTTTTCTCGCG 59.827 61.111 0.00 0.00 0.00 5.87
1952 2605 2.499732 CAGCCGTTTTTCTCGCGC 60.500 61.111 0.00 0.00 0.00 6.86
1953 2606 3.723348 AGCCGTTTTTCTCGCGCC 61.723 61.111 0.00 0.00 0.00 6.53
1955 2608 4.439472 CCGTTTTTCTCGCGCCGG 62.439 66.667 0.00 1.71 0.00 6.13
1967 2620 2.576847 CGCCGGCGCAGAAAAATC 60.577 61.111 38.48 0.00 34.03 2.17
1968 2621 2.576847 GCCGGCGCAGAAAAATCG 60.577 61.111 12.58 0.00 34.03 3.34
1969 2622 2.100216 CCGGCGCAGAAAAATCGG 59.900 61.111 10.83 6.37 0.00 4.18
1970 2623 2.576847 CGGCGCAGAAAAATCGGC 60.577 61.111 10.83 0.00 43.86 5.54
1971 2624 2.202610 GGCGCAGAAAAATCGGCC 60.203 61.111 10.83 0.00 41.93 6.13
1972 2625 2.202610 GCGCAGAAAAATCGGCCC 60.203 61.111 0.30 0.00 0.00 5.80
1973 2626 2.988688 GCGCAGAAAAATCGGCCCA 61.989 57.895 0.30 0.00 0.00 5.36
1974 2627 1.137404 CGCAGAAAAATCGGCCCAG 59.863 57.895 0.00 0.00 0.00 4.45
1975 2628 1.586154 CGCAGAAAAATCGGCCCAGT 61.586 55.000 0.00 0.00 0.00 4.00
1976 2629 0.171231 GCAGAAAAATCGGCCCAGTC 59.829 55.000 0.00 0.00 0.00 3.51
1977 2630 1.533625 CAGAAAAATCGGCCCAGTCA 58.466 50.000 0.00 0.00 0.00 3.41
1978 2631 1.200020 CAGAAAAATCGGCCCAGTCAC 59.800 52.381 0.00 0.00 0.00 3.67
1979 2632 0.168128 GAAAAATCGGCCCAGTCACG 59.832 55.000 0.00 0.00 0.00 4.35
1980 2633 1.862602 AAAAATCGGCCCAGTCACGC 61.863 55.000 0.00 0.00 0.00 5.34
1981 2634 3.545124 AAATCGGCCCAGTCACGCA 62.545 57.895 0.00 0.00 0.00 5.24
1982 2635 2.819984 AAATCGGCCCAGTCACGCAT 62.820 55.000 0.00 0.00 0.00 4.73
1983 2636 3.740128 ATCGGCCCAGTCACGCATC 62.740 63.158 0.00 0.00 0.00 3.91
1985 2638 4.408821 GGCCCAGTCACGCATCCA 62.409 66.667 0.00 0.00 0.00 3.41
1986 2639 2.821366 GCCCAGTCACGCATCCAG 60.821 66.667 0.00 0.00 0.00 3.86
1987 2640 2.124983 CCCAGTCACGCATCCAGG 60.125 66.667 0.00 0.00 0.00 4.45
1988 2641 2.659063 CCCAGTCACGCATCCAGGA 61.659 63.158 0.00 0.00 0.00 3.86
1989 2642 1.153489 CCAGTCACGCATCCAGGAG 60.153 63.158 0.00 0.00 0.00 3.69
1990 2643 1.812922 CAGTCACGCATCCAGGAGC 60.813 63.158 0.00 0.00 0.00 4.70
1991 2644 2.512515 GTCACGCATCCAGGAGCC 60.513 66.667 0.00 0.00 0.00 4.70
1992 2645 3.785859 TCACGCATCCAGGAGCCC 61.786 66.667 0.00 0.00 0.00 5.19
1995 2648 3.933722 CGCATCCAGGAGCCCGAT 61.934 66.667 0.00 0.00 0.00 4.18
1996 2649 2.512896 GCATCCAGGAGCCCGATT 59.487 61.111 0.00 0.00 0.00 3.34
1997 2650 1.152881 GCATCCAGGAGCCCGATTT 60.153 57.895 0.00 0.00 0.00 2.17
1998 2651 0.753111 GCATCCAGGAGCCCGATTTT 60.753 55.000 0.00 0.00 0.00 1.82
1999 2652 1.312815 CATCCAGGAGCCCGATTTTC 58.687 55.000 0.00 0.00 0.00 2.29
2000 2653 0.918983 ATCCAGGAGCCCGATTTTCA 59.081 50.000 0.00 0.00 0.00 2.69
2001 2654 0.918983 TCCAGGAGCCCGATTTTCAT 59.081 50.000 0.00 0.00 0.00 2.57
2002 2655 1.134098 TCCAGGAGCCCGATTTTCATC 60.134 52.381 0.00 0.00 0.00 2.92
2011 2664 2.022520 GATTTTCATCGACCCGGGC 58.977 57.895 24.08 13.09 0.00 6.13
2012 2665 1.444917 GATTTTCATCGACCCGGGCC 61.445 60.000 24.08 9.30 0.00 5.80
2013 2666 3.961838 TTTTCATCGACCCGGGCCG 62.962 63.158 24.87 24.87 0.00 6.13
2016 2669 4.235762 CATCGACCCGGGCCGAAT 62.236 66.667 35.79 20.56 38.36 3.34
2017 2670 3.476419 ATCGACCCGGGCCGAATT 61.476 61.111 35.79 18.28 38.36 2.17
2018 2671 3.038945 ATCGACCCGGGCCGAATTT 62.039 57.895 35.79 17.45 38.36 1.82
2019 2672 1.688269 ATCGACCCGGGCCGAATTTA 61.688 55.000 35.79 13.52 38.36 1.40
2020 2673 1.449956 CGACCCGGGCCGAATTTAA 60.450 57.895 26.77 0.00 0.00 1.52
2021 2674 1.708193 CGACCCGGGCCGAATTTAAC 61.708 60.000 26.77 10.04 0.00 2.01
2022 2675 1.708193 GACCCGGGCCGAATTTAACG 61.708 60.000 30.79 7.64 0.00 3.18
2023 2676 2.405997 CCGGGCCGAATTTAACGC 59.594 61.111 30.79 0.00 0.00 4.84
2024 2677 2.405997 CGGGCCGAATTTAACGCC 59.594 61.111 24.41 0.00 0.00 5.68
2025 2678 2.405997 GGGCCGAATTTAACGCCG 59.594 61.111 0.00 0.00 0.00 6.46
2026 2679 2.405997 GGCCGAATTTAACGCCGG 59.594 61.111 0.00 0.00 44.34 6.13
2028 2681 2.022207 CCGAATTTAACGCCGGCG 59.978 61.111 44.88 44.88 46.03 6.46
2043 2696 3.587095 GCGGACCTAAGCCAAACC 58.413 61.111 0.00 0.00 0.00 3.27
2044 2697 2.044555 GCGGACCTAAGCCAAACCC 61.045 63.158 0.00 0.00 0.00 4.11
2045 2698 1.743995 CGGACCTAAGCCAAACCCG 60.744 63.158 0.00 0.00 0.00 5.28
2046 2699 1.378119 GGACCTAAGCCAAACCCGG 60.378 63.158 0.00 0.00 0.00 5.73
2100 2753 3.623703 GACCCGTCCAAAGAGCCCC 62.624 68.421 0.00 0.00 0.00 5.80
2108 2761 1.460255 CAAAGAGCCCCACCCAAGA 59.540 57.895 0.00 0.00 0.00 3.02
2113 2766 0.251787 GAGCCCCACCCAAGAACATT 60.252 55.000 0.00 0.00 0.00 2.71
2126 2779 6.183361 ACCCAAGAACATTCCTAGAAGAAGTT 60.183 38.462 0.00 0.00 0.00 2.66
2144 2797 6.289064 AGAAGTTACCTTTCAATCGACTTGT 58.711 36.000 0.00 0.00 36.20 3.16
2145 2798 6.766467 AGAAGTTACCTTTCAATCGACTTGTT 59.234 34.615 0.00 0.00 36.20 2.83
2146 2799 6.937436 AGTTACCTTTCAATCGACTTGTTT 57.063 33.333 0.00 0.00 36.20 2.83
2149 2802 5.576447 ACCTTTCAATCGACTTGTTTGTT 57.424 34.783 0.00 0.00 36.20 2.83
2235 2888 1.153349 CCGCCAGGAGACCTAAAGC 60.153 63.158 0.00 0.00 41.02 3.51
2357 3010 0.184451 CCCTGCATTACTGAGGGCAT 59.816 55.000 0.00 0.00 40.22 4.40
2435 3089 0.796312 CCTGTTATCCACACACGCAC 59.204 55.000 0.00 0.00 0.00 5.34
2661 3318 3.252974 AGTTGCGATCTTTTCCGATCT 57.747 42.857 0.00 0.00 38.09 2.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 3.951037 TGACTAGCAAGCCACAAAGAAAA 59.049 39.130 0.00 0.00 0.00 2.29
19 20 3.315191 GTGACTAGCAAGCCACAAAGAAA 59.685 43.478 0.00 0.00 36.23 2.52
20 21 2.878406 GTGACTAGCAAGCCACAAAGAA 59.122 45.455 0.00 0.00 36.23 2.52
21 22 2.158827 TGTGACTAGCAAGCCACAAAGA 60.159 45.455 0.00 0.00 42.33 2.52
28 29 0.321671 TCCAGTGTGACTAGCAAGCC 59.678 55.000 0.00 0.00 0.00 4.35
73 74 8.663911 CCTTTAGCAAATTCTCAAAACAAAACA 58.336 29.630 0.00 0.00 0.00 2.83
74 75 8.878769 TCCTTTAGCAAATTCTCAAAACAAAAC 58.121 29.630 0.00 0.00 0.00 2.43
79 80 8.919661 CAGATTCCTTTAGCAAATTCTCAAAAC 58.080 33.333 0.00 0.00 0.00 2.43
148 158 2.513738 AGCTGTACCCTGAGAGAGAGAT 59.486 50.000 0.00 0.00 0.00 2.75
149 159 1.919654 AGCTGTACCCTGAGAGAGAGA 59.080 52.381 0.00 0.00 0.00 3.10
226 236 2.899339 GCATCGCTGGAGAAGGCC 60.899 66.667 0.00 0.00 0.00 5.19
227 237 1.886777 GAGCATCGCTGGAGAAGGC 60.887 63.158 0.00 0.00 39.88 4.35
248 258 2.859273 AAATGGACCGAGCCTCAGCG 62.859 60.000 0.00 0.00 46.67 5.18
258 268 3.726291 AACCTTTGACAAAATGGACCG 57.274 42.857 11.99 0.00 0.00 4.79
261 271 4.751767 AGCAAACCTTTGACAAAATGGA 57.248 36.364 11.99 0.00 40.55 3.41
281 291 8.865090 ACAATTACTATGGATCAGAAGGAGTAG 58.135 37.037 0.00 0.00 0.00 2.57
288 298 9.851686 ATTAGCAACAATTACTATGGATCAGAA 57.148 29.630 0.00 0.00 0.00 3.02
307 317 9.290988 TGATTCAGTACAAGGTTAAATTAGCAA 57.709 29.630 0.00 0.00 0.00 3.91
308 318 8.856153 TGATTCAGTACAAGGTTAAATTAGCA 57.144 30.769 0.00 0.00 0.00 3.49
311 321 9.226606 CCACTGATTCAGTACAAGGTTAAATTA 57.773 33.333 18.59 0.00 43.43 1.40
313 323 6.151144 GCCACTGATTCAGTACAAGGTTAAAT 59.849 38.462 18.59 0.00 43.43 1.40
314 324 5.472137 GCCACTGATTCAGTACAAGGTTAAA 59.528 40.000 18.59 0.00 43.43 1.52
315 325 5.001232 GCCACTGATTCAGTACAAGGTTAA 58.999 41.667 18.59 0.00 43.43 2.01
316 326 4.041075 TGCCACTGATTCAGTACAAGGTTA 59.959 41.667 18.59 7.27 43.43 2.85
317 327 3.181445 TGCCACTGATTCAGTACAAGGTT 60.181 43.478 18.59 0.00 43.43 3.50
318 328 2.371841 TGCCACTGATTCAGTACAAGGT 59.628 45.455 18.59 0.00 43.43 3.50
319 329 3.057969 TGCCACTGATTCAGTACAAGG 57.942 47.619 18.59 15.89 43.43 3.61
320 330 5.633830 AATTGCCACTGATTCAGTACAAG 57.366 39.130 25.89 14.16 43.43 3.16
321 331 7.701539 ATTAATTGCCACTGATTCAGTACAA 57.298 32.000 24.95 24.95 43.43 2.41
322 332 8.839343 CATATTAATTGCCACTGATTCAGTACA 58.161 33.333 18.59 16.24 43.43 2.90
323 333 8.292448 CCATATTAATTGCCACTGATTCAGTAC 58.708 37.037 18.59 14.03 43.43 2.73
324 334 8.217111 TCCATATTAATTGCCACTGATTCAGTA 58.783 33.333 18.59 4.30 43.43 2.74
325 335 7.062322 TCCATATTAATTGCCACTGATTCAGT 58.938 34.615 13.61 13.61 46.51 3.41
326 336 7.514784 TCCATATTAATTGCCACTGATTCAG 57.485 36.000 12.17 12.17 37.52 3.02
327 337 9.234827 CTATCCATATTAATTGCCACTGATTCA 57.765 33.333 0.00 0.00 0.00 2.57
328 338 8.680903 CCTATCCATATTAATTGCCACTGATTC 58.319 37.037 0.00 0.00 0.00 2.52
329 339 8.393259 TCCTATCCATATTAATTGCCACTGATT 58.607 33.333 0.00 0.00 0.00 2.57
330 340 7.932134 TCCTATCCATATTAATTGCCACTGAT 58.068 34.615 0.00 0.00 0.00 2.90
331 341 7.237471 TCTCCTATCCATATTAATTGCCACTGA 59.763 37.037 0.00 0.00 0.00 3.41
332 342 7.397221 TCTCCTATCCATATTAATTGCCACTG 58.603 38.462 0.00 0.00 0.00 3.66
333 343 7.459125 TCTCTCCTATCCATATTAATTGCCACT 59.541 37.037 0.00 0.00 0.00 4.00
334 344 7.624549 TCTCTCCTATCCATATTAATTGCCAC 58.375 38.462 0.00 0.00 0.00 5.01
335 345 7.459125 ACTCTCTCCTATCCATATTAATTGCCA 59.541 37.037 0.00 0.00 0.00 4.92
336 346 7.856415 ACTCTCTCCTATCCATATTAATTGCC 58.144 38.462 0.00 0.00 0.00 4.52
402 413 5.277828 GCAAATACGTCTTCACCAACTCTTT 60.278 40.000 0.00 0.00 0.00 2.52
418 429 3.482110 GCGCTTTTTATCTGGCAAATACG 59.518 43.478 0.00 0.00 0.00 3.06
424 435 1.242989 TGTGCGCTTTTTATCTGGCA 58.757 45.000 9.73 0.00 0.00 4.92
425 436 2.095263 TCTTGTGCGCTTTTTATCTGGC 60.095 45.455 9.73 0.00 0.00 4.85
438 450 0.311790 AAGGTTGCATGTCTTGTGCG 59.688 50.000 0.00 0.00 45.37 5.34
442 454 3.713858 TGAACAAGGTTGCATGTCTTG 57.286 42.857 17.20 17.20 42.37 3.02
445 457 3.311106 CACATGAACAAGGTTGCATGTC 58.689 45.455 16.74 0.00 45.82 3.06
447 459 2.063266 GCACATGAACAAGGTTGCATG 58.937 47.619 0.00 14.33 42.75 4.06
450 462 0.310543 TCGCACATGAACAAGGTTGC 59.689 50.000 0.00 0.00 0.00 4.17
453 465 0.108585 AGGTCGCACATGAACAAGGT 59.891 50.000 0.00 0.00 0.00 3.50
456 468 0.534877 AGCAGGTCGCACATGAACAA 60.535 50.000 0.00 0.00 46.13 2.83
458 470 0.110056 CAAGCAGGTCGCACATGAAC 60.110 55.000 0.00 0.00 46.13 3.18
460 472 2.327343 GCAAGCAGGTCGCACATGA 61.327 57.895 0.00 0.00 46.13 3.07
461 473 2.177531 GCAAGCAGGTCGCACATG 59.822 61.111 0.00 0.00 46.13 3.21
462 474 2.033141 AGCAAGCAGGTCGCACAT 59.967 55.556 0.00 0.00 46.13 3.21
463 475 2.974148 CAGCAAGCAGGTCGCACA 60.974 61.111 0.00 0.00 46.13 4.57
465 477 2.666190 GACAGCAAGCAGGTCGCA 60.666 61.111 0.00 0.00 46.13 5.10
466 478 3.782244 CGACAGCAAGCAGGTCGC 61.782 66.667 20.39 0.00 46.25 5.19
470 482 2.049156 TCGACGACAGCAAGCAGG 60.049 61.111 0.00 0.00 0.00 4.85
503 515 2.151202 GTTTCCACCAGATTTCAGCGA 58.849 47.619 0.00 0.00 0.00 4.93
514 526 0.626382 TGTGACCCAAGTTTCCACCA 59.374 50.000 0.00 0.00 0.00 4.17
516 528 2.481276 GCTTTGTGACCCAAGTTTCCAC 60.481 50.000 0.00 0.00 33.75 4.02
519 531 2.794631 CGTGCTTTGTGACCCAAGTTTC 60.795 50.000 0.00 0.00 33.75 2.78
536 548 2.809601 CTACAGGCCGACACGTGC 60.810 66.667 17.22 7.72 0.00 5.34
542 554 3.382546 TCAGGTATAAACTACAGGCCGAC 59.617 47.826 0.00 0.00 0.00 4.79
543 555 3.634504 TCAGGTATAAACTACAGGCCGA 58.365 45.455 0.00 0.00 0.00 5.54
544 556 4.098960 TCTTCAGGTATAAACTACAGGCCG 59.901 45.833 0.00 0.00 0.00 6.13
546 558 6.017852 GCAATCTTCAGGTATAAACTACAGGC 60.018 42.308 0.00 0.00 0.00 4.85
547 559 7.011482 GTGCAATCTTCAGGTATAAACTACAGG 59.989 40.741 0.00 0.00 0.00 4.00
549 561 7.620880 AGTGCAATCTTCAGGTATAAACTACA 58.379 34.615 0.00 0.00 0.00 2.74
550 562 8.391106 CAAGTGCAATCTTCAGGTATAAACTAC 58.609 37.037 0.00 0.00 0.00 2.73
551 563 7.065803 GCAAGTGCAATCTTCAGGTATAAACTA 59.934 37.037 0.00 0.00 41.59 2.24
552 564 6.127897 GCAAGTGCAATCTTCAGGTATAAACT 60.128 38.462 0.00 0.00 41.59 2.66
553 565 6.030228 GCAAGTGCAATCTTCAGGTATAAAC 58.970 40.000 0.00 0.00 41.59 2.01
554 566 6.194796 GCAAGTGCAATCTTCAGGTATAAA 57.805 37.500 0.00 0.00 41.59 1.40
570 582 1.658409 GCAAACTCCGTGCAAGTGC 60.658 57.895 0.00 0.00 41.80 4.40
571 583 1.195448 CTAGCAAACTCCGTGCAAGTG 59.805 52.381 0.00 0.00 44.74 3.16
572 584 1.202651 ACTAGCAAACTCCGTGCAAGT 60.203 47.619 0.00 0.00 44.74 3.16
574 586 1.225855 CACTAGCAAACTCCGTGCAA 58.774 50.000 0.00 0.00 44.74 4.08
575 587 1.227999 GCACTAGCAAACTCCGTGCA 61.228 55.000 7.71 0.00 45.55 4.57
576 588 1.497722 GCACTAGCAAACTCCGTGC 59.502 57.895 0.00 0.00 42.48 5.34
596 608 2.231380 TTCCCCAGGAAGCAGACCC 61.231 63.158 0.00 0.00 36.71 4.46
597 609 1.002011 GTTCCCCAGGAAGCAGACC 60.002 63.158 0.00 0.00 42.88 3.85
598 610 0.110486 TTGTTCCCCAGGAAGCAGAC 59.890 55.000 0.00 0.00 42.88 3.51
599 611 0.850100 TTTGTTCCCCAGGAAGCAGA 59.150 50.000 0.00 0.00 42.88 4.26
600 612 0.961753 GTTTGTTCCCCAGGAAGCAG 59.038 55.000 0.00 0.00 42.88 4.24
601 613 0.260230 TGTTTGTTCCCCAGGAAGCA 59.740 50.000 0.00 0.00 42.88 3.91
602 614 1.341209 CTTGTTTGTTCCCCAGGAAGC 59.659 52.381 0.00 0.00 42.88 3.86
603 615 1.963515 CCTTGTTTGTTCCCCAGGAAG 59.036 52.381 0.00 0.00 42.88 3.46
604 616 1.289530 ACCTTGTTTGTTCCCCAGGAA 59.710 47.619 0.00 0.00 39.66 3.36
605 617 0.930726 ACCTTGTTTGTTCCCCAGGA 59.069 50.000 0.00 0.00 0.00 3.86
606 618 1.039856 CACCTTGTTTGTTCCCCAGG 58.960 55.000 0.00 0.00 0.00 4.45
607 619 1.681264 GACACCTTGTTTGTTCCCCAG 59.319 52.381 0.00 0.00 0.00 4.45
609 621 1.037493 GGACACCTTGTTTGTTCCCC 58.963 55.000 0.00 0.00 0.00 4.81
610 622 1.770294 TGGACACCTTGTTTGTTCCC 58.230 50.000 0.00 0.00 0.00 3.97
611 623 4.368315 GAAATGGACACCTTGTTTGTTCC 58.632 43.478 0.00 0.00 0.00 3.62
612 624 4.368315 GGAAATGGACACCTTGTTTGTTC 58.632 43.478 0.00 0.00 0.00 3.18
613 625 3.181480 CGGAAATGGACACCTTGTTTGTT 60.181 43.478 0.00 0.00 0.00 2.83
614 626 2.360801 CGGAAATGGACACCTTGTTTGT 59.639 45.455 0.00 0.00 0.00 2.83
615 627 2.621055 TCGGAAATGGACACCTTGTTTG 59.379 45.455 0.00 0.00 0.00 2.93
616 628 2.621526 GTCGGAAATGGACACCTTGTTT 59.378 45.455 0.00 0.00 34.56 2.83
617 629 2.227194 GTCGGAAATGGACACCTTGTT 58.773 47.619 0.00 0.00 34.56 2.83
618 630 1.876416 CGTCGGAAATGGACACCTTGT 60.876 52.381 0.00 0.00 34.04 3.16
619 631 0.796312 CGTCGGAAATGGACACCTTG 59.204 55.000 0.00 0.00 34.04 3.61
620 632 0.321298 CCGTCGGAAATGGACACCTT 60.321 55.000 4.91 0.00 35.91 3.50
621 633 1.189524 TCCGTCGGAAATGGACACCT 61.190 55.000 12.68 0.00 38.19 4.00
704 1211 1.142748 GAGGGCAGAGACGATGGTG 59.857 63.158 0.00 0.00 0.00 4.17
714 1221 2.039624 GAGACAGGGGAGGGCAGA 59.960 66.667 0.00 0.00 0.00 4.26
717 1224 3.462678 GACGAGACAGGGGAGGGC 61.463 72.222 0.00 0.00 0.00 5.19
801 1316 2.294791 GTCCTGTACCTCGATGGATGAG 59.705 54.545 7.76 0.00 39.71 2.90
802 1317 2.307768 GTCCTGTACCTCGATGGATGA 58.692 52.381 7.76 0.00 39.71 2.92
804 1319 1.133884 TCGTCCTGTACCTCGATGGAT 60.134 52.381 7.76 0.00 39.71 3.41
805 1320 0.253894 TCGTCCTGTACCTCGATGGA 59.746 55.000 7.76 0.00 39.71 3.41
835 1369 1.066908 GGAGCTGAGACTTGAGATCGG 59.933 57.143 0.00 0.00 0.00 4.18
856 1390 2.967615 GAGCTTATCCACGCGGGC 60.968 66.667 12.47 2.83 36.21 6.13
903 1437 1.295792 GTAGGGTGTGTGTGTGTGTG 58.704 55.000 0.00 0.00 0.00 3.82
918 1452 4.485554 GCAGAGAGCGTGTGTAGG 57.514 61.111 0.00 0.00 0.00 3.18
927 1461 0.461693 AAGATCGCCAAGCAGAGAGC 60.462 55.000 0.00 0.00 46.19 4.09
953 1506 1.892819 CTTTCCTCCTGGCGAGCTCA 61.893 60.000 15.40 0.00 37.27 4.26
962 1515 2.747855 GCACCGGCTTTCCTCCTG 60.748 66.667 0.00 0.00 36.96 3.86
976 1529 1.142778 GAGAGAGTTCGATGCGGCAC 61.143 60.000 4.03 0.00 0.00 5.01
988 1541 1.954362 GCAGCCATGGTCGAGAGAGT 61.954 60.000 14.67 0.00 43.49 3.24
1056 1615 2.574399 GAGGCGAGAAGAGGCGTT 59.426 61.111 0.00 0.00 39.33 4.84
1103 1662 3.131396 AGTTCGACAACAAGTAAGCCTG 58.869 45.455 0.00 0.00 34.60 4.85
1104 1663 3.069729 AGAGTTCGACAACAAGTAAGCCT 59.930 43.478 0.00 0.00 34.60 4.58
1106 1665 4.632740 GAGAGTTCGACAACAAGTAAGC 57.367 45.455 0.00 0.00 34.60 3.09
1128 1716 1.656441 GATGCCGCCATGAATGACC 59.344 57.895 0.00 0.00 0.00 4.02
1150 1739 1.375140 CCTGCGAGCACACAGACAT 60.375 57.895 0.33 0.00 35.90 3.06
1491 2102 3.706373 CTGACCCCTCCGTGGTGG 61.706 72.222 0.00 0.00 35.85 4.61
1492 2103 4.394712 GCTGACCCCTCCGTGGTG 62.395 72.222 0.00 0.00 35.85 4.17
1664 2290 2.711922 CCTCCTCCCGGACGAACAG 61.712 68.421 0.73 0.00 34.92 3.16
1746 2373 3.868077 GCACTAGTAGTTCTTGATGCTGG 59.132 47.826 0.00 0.00 0.00 4.85
1822 2466 2.439104 GGAGAGGCAGGGGCAGTAG 61.439 68.421 0.00 0.00 43.71 2.57
1907 2560 2.801342 CGGCTCTGGAGATGCTCTAAAC 60.801 54.545 1.35 0.00 0.00 2.01
1912 2565 2.280052 GCGGCTCTGGAGATGCTC 60.280 66.667 1.35 0.00 0.00 4.26
1913 2566 4.218578 CGCGGCTCTGGAGATGCT 62.219 66.667 0.00 0.00 0.00 3.79
1914 2567 4.521062 ACGCGGCTCTGGAGATGC 62.521 66.667 12.47 3.53 0.00 3.91
1915 2568 2.279120 GACGCGGCTCTGGAGATG 60.279 66.667 12.47 0.00 0.00 2.90
1916 2569 3.532155 GGACGCGGCTCTGGAGAT 61.532 66.667 13.91 0.00 0.00 2.75
1930 2583 1.574702 CGAGAAAAACGGCTGGGGAC 61.575 60.000 0.00 0.00 0.00 4.46
1931 2584 1.302192 CGAGAAAAACGGCTGGGGA 60.302 57.895 0.00 0.00 0.00 4.81
1932 2585 2.978018 GCGAGAAAAACGGCTGGGG 61.978 63.158 0.00 0.00 0.00 4.96
1933 2586 2.561373 GCGAGAAAAACGGCTGGG 59.439 61.111 0.00 0.00 0.00 4.45
1934 2587 2.173382 CGCGAGAAAAACGGCTGG 59.827 61.111 0.00 0.00 0.00 4.85
1935 2588 2.499732 GCGCGAGAAAAACGGCTG 60.500 61.111 12.10 0.00 0.00 4.85
1938 2591 4.439472 CCGGCGCGAGAAAAACGG 62.439 66.667 12.10 7.45 35.01 4.44
1950 2603 2.576847 GATTTTTCTGCGCCGGCG 60.577 61.111 43.13 43.13 44.10 6.46
1951 2604 2.576847 CGATTTTTCTGCGCCGGC 60.577 61.111 19.07 19.07 40.52 6.13
1952 2605 2.100216 CCGATTTTTCTGCGCCGG 59.900 61.111 4.18 3.58 0.00 6.13
1953 2606 2.576847 GCCGATTTTTCTGCGCCG 60.577 61.111 4.18 0.00 0.00 6.46
1954 2607 2.202610 GGCCGATTTTTCTGCGCC 60.203 61.111 4.18 0.00 0.00 6.53
1955 2608 2.202610 GGGCCGATTTTTCTGCGC 60.203 61.111 0.00 0.00 0.00 6.09
1956 2609 1.137404 CTGGGCCGATTTTTCTGCG 59.863 57.895 0.00 0.00 0.00 5.18
1957 2610 0.171231 GACTGGGCCGATTTTTCTGC 59.829 55.000 0.00 0.00 0.00 4.26
1958 2611 1.200020 GTGACTGGGCCGATTTTTCTG 59.800 52.381 0.00 0.00 0.00 3.02
1959 2612 1.534729 GTGACTGGGCCGATTTTTCT 58.465 50.000 0.00 0.00 0.00 2.52
1960 2613 0.168128 CGTGACTGGGCCGATTTTTC 59.832 55.000 0.00 0.00 0.00 2.29
1961 2614 1.862602 GCGTGACTGGGCCGATTTTT 61.863 55.000 0.00 0.00 0.00 1.94
1962 2615 2.332654 GCGTGACTGGGCCGATTTT 61.333 57.895 0.00 0.00 0.00 1.82
1963 2616 2.746277 GCGTGACTGGGCCGATTT 60.746 61.111 0.00 0.00 0.00 2.17
1964 2617 3.329542 ATGCGTGACTGGGCCGATT 62.330 57.895 0.00 0.00 0.00 3.34
1965 2618 3.740128 GATGCGTGACTGGGCCGAT 62.740 63.158 0.00 0.00 0.00 4.18
1966 2619 4.451150 GATGCGTGACTGGGCCGA 62.451 66.667 0.00 0.00 0.00 5.54
1968 2621 4.408821 TGGATGCGTGACTGGGCC 62.409 66.667 0.00 0.00 0.00 5.80
1969 2622 2.821366 CTGGATGCGTGACTGGGC 60.821 66.667 0.00 0.00 0.00 5.36
1970 2623 2.124983 CCTGGATGCGTGACTGGG 60.125 66.667 0.00 0.00 0.00 4.45
1971 2624 1.153489 CTCCTGGATGCGTGACTGG 60.153 63.158 0.00 0.00 0.00 4.00
1972 2625 1.812922 GCTCCTGGATGCGTGACTG 60.813 63.158 0.00 0.00 0.00 3.51
1973 2626 2.581354 GCTCCTGGATGCGTGACT 59.419 61.111 0.00 0.00 0.00 3.41
1974 2627 2.512515 GGCTCCTGGATGCGTGAC 60.513 66.667 0.00 0.00 0.00 3.67
1975 2628 3.785859 GGGCTCCTGGATGCGTGA 61.786 66.667 0.00 0.00 0.00 4.35
1978 2631 2.947938 AAATCGGGCTCCTGGATGCG 62.948 60.000 0.00 0.00 0.00 4.73
1979 2632 0.753111 AAAATCGGGCTCCTGGATGC 60.753 55.000 0.00 3.15 0.00 3.91
1980 2633 1.312815 GAAAATCGGGCTCCTGGATG 58.687 55.000 0.00 0.00 0.00 3.51
1981 2634 0.918983 TGAAAATCGGGCTCCTGGAT 59.081 50.000 0.00 0.00 0.00 3.41
1982 2635 0.918983 ATGAAAATCGGGCTCCTGGA 59.081 50.000 0.00 0.00 0.00 3.86
1983 2636 1.312815 GATGAAAATCGGGCTCCTGG 58.687 55.000 0.00 0.00 0.00 4.45
1984 2637 0.940126 CGATGAAAATCGGGCTCCTG 59.060 55.000 0.20 0.00 40.12 3.86
1985 2638 0.830648 TCGATGAAAATCGGGCTCCT 59.169 50.000 8.13 0.00 43.64 3.69
1986 2639 0.938008 GTCGATGAAAATCGGGCTCC 59.062 55.000 8.13 0.00 43.64 4.70
1987 2640 0.938008 GGTCGATGAAAATCGGGCTC 59.062 55.000 8.13 0.00 43.64 4.70
1988 2641 0.463833 GGGTCGATGAAAATCGGGCT 60.464 55.000 8.13 0.00 43.64 5.19
1989 2642 1.772063 CGGGTCGATGAAAATCGGGC 61.772 60.000 8.13 2.58 43.64 6.13
1990 2643 1.157870 CCGGGTCGATGAAAATCGGG 61.158 60.000 8.13 0.00 43.64 5.14
1991 2644 1.157870 CCCGGGTCGATGAAAATCGG 61.158 60.000 14.18 0.00 43.64 4.18
1992 2645 1.772063 GCCCGGGTCGATGAAAATCG 61.772 60.000 24.63 1.75 44.73 3.34
1993 2646 1.444917 GGCCCGGGTCGATGAAAATC 61.445 60.000 24.63 0.00 0.00 2.17
1994 2647 1.453197 GGCCCGGGTCGATGAAAAT 60.453 57.895 24.63 0.00 0.00 1.82
1995 2648 2.045731 GGCCCGGGTCGATGAAAA 60.046 61.111 24.63 0.00 0.00 2.29
2002 2655 1.449956 TTAAATTCGGCCCGGGTCG 60.450 57.895 41.36 41.36 45.47 4.79
2003 2656 1.708193 CGTTAAATTCGGCCCGGGTC 61.708 60.000 24.63 21.34 0.00 4.46
2004 2657 1.746239 CGTTAAATTCGGCCCGGGT 60.746 57.895 24.63 1.77 0.00 5.28
2005 2658 3.103875 CGTTAAATTCGGCCCGGG 58.896 61.111 19.09 19.09 0.00 5.73
2006 2659 2.405997 GCGTTAAATTCGGCCCGG 59.594 61.111 1.90 0.00 0.00 5.73
2007 2660 2.405997 GGCGTTAAATTCGGCCCG 59.594 61.111 0.00 0.00 45.61 6.13
2011 2664 2.022207 CGCCGGCGTTAAATTCGG 59.978 61.111 39.71 8.63 44.70 4.30
2012 2665 2.022207 CCGCCGGCGTTAAATTCG 59.978 61.111 43.12 24.12 37.81 3.34
2013 2666 1.061411 GTCCGCCGGCGTTAAATTC 59.939 57.895 43.12 22.02 37.81 2.17
2014 2667 2.400962 GGTCCGCCGGCGTTAAATT 61.401 57.895 43.12 0.00 37.81 1.82
2015 2668 1.958902 TAGGTCCGCCGGCGTTAAAT 61.959 55.000 43.12 27.57 40.50 1.40
2016 2669 2.164865 TTAGGTCCGCCGGCGTTAAA 62.165 55.000 43.12 26.96 40.50 1.52
2017 2670 2.561549 CTTAGGTCCGCCGGCGTTAA 62.562 60.000 43.12 30.85 40.50 2.01
2018 2671 3.067439 TTAGGTCCGCCGGCGTTA 61.067 61.111 43.12 30.03 40.50 3.18
2019 2672 4.446413 CTTAGGTCCGCCGGCGTT 62.446 66.667 43.12 28.08 40.50 4.84
2025 2678 2.044555 GGTTTGGCTTAGGTCCGCC 61.045 63.158 0.00 0.00 46.46 6.13
2026 2679 2.044555 GGGTTTGGCTTAGGTCCGC 61.045 63.158 0.00 0.00 0.00 5.54
2027 2680 1.743995 CGGGTTTGGCTTAGGTCCG 60.744 63.158 0.00 0.00 0.00 4.79
2028 2681 1.378119 CCGGGTTTGGCTTAGGTCC 60.378 63.158 0.00 0.00 0.00 4.46
2029 2682 4.313819 CCGGGTTTGGCTTAGGTC 57.686 61.111 0.00 0.00 0.00 3.85
2039 2692 4.572571 TTCCAGCGTGCCGGGTTT 62.573 61.111 2.18 0.00 0.00 3.27
2049 2702 7.785115 TACCCTAGGTAGATAGCTTCCAGCG 62.785 52.000 8.29 0.00 40.99 5.18
2050 2703 2.829120 CCCTAGGTAGATAGCTTCCAGC 59.171 54.545 8.29 0.00 42.84 4.85
2051 2704 4.120946 ACCCTAGGTAGATAGCTTCCAG 57.879 50.000 8.29 2.02 34.27 3.86
2100 2753 5.165961 TCTTCTAGGAATGTTCTTGGGTG 57.834 43.478 0.00 0.00 0.00 4.61
2126 2779 6.687081 AACAAACAAGTCGATTGAAAGGTA 57.313 33.333 12.53 0.00 41.83 3.08
2144 2797 2.994990 CCGTCGAGTGGGAAACAAA 58.005 52.632 0.00 0.00 0.00 2.83
2145 2798 4.762825 CCGTCGAGTGGGAAACAA 57.237 55.556 0.00 0.00 0.00 2.83
2235 2888 3.726517 CGTTTGCCTGCGGAGTGG 61.727 66.667 2.36 0.00 0.00 4.00
2319 2972 5.393787 GCAGGGTTTAAGGTACATTTAAGGC 60.394 44.000 0.00 0.00 0.00 4.35
2435 3089 0.657840 GGAGGCGGTCGATTGAATTG 59.342 55.000 0.00 0.00 0.00 2.32
2661 3318 3.191162 CCGCAAGAAACCATGATCAAAGA 59.809 43.478 0.00 0.00 43.02 2.52


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

AutoCloner maintained by Alex Coulton.