Multiple sequence alignment - TraesCS1B01G378700

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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 TraesCS1B01G378700 chr1B 100.000 2411 0 0 1 2411 611130483 611132893 0.000000e+00 4453.0
1 TraesCS1B01G378700 chr1B 84.343 1469 136 56 737 2161 608463158 608461740 0.000000e+00 1352.0
2 TraesCS1B01G378700 chr1B 81.746 1386 137 58 706 2033 606839635 606840962 0.000000e+00 1051.0
3 TraesCS1B01G378700 chr1B 86.788 772 63 17 705 1465 610965299 610966042 0.000000e+00 824.0
4 TraesCS1B01G378700 chr1B 91.927 545 34 8 873 1413 607429653 607429115 0.000000e+00 754.0
5 TraesCS1B01G378700 chr1B 86.090 532 58 12 1 526 629109169 629109690 2.090000e-155 558.0
6 TraesCS1B01G378700 chr1B 83.733 584 57 17 1482 2031 610966021 610966600 3.550000e-143 518.0
7 TraesCS1B01G378700 chr1B 74.478 431 57 21 1746 2151 494552677 494552275 1.160000e-28 137.0
8 TraesCS1B01G378700 chr1B 86.301 73 7 3 2177 2247 494552279 494552208 2.570000e-10 76.8
9 TraesCS1B01G378700 chr1A 90.554 1355 84 26 644 1974 542358128 542359462 0.000000e+00 1753.0
10 TraesCS1B01G378700 chr1A 89.607 712 61 8 710 1414 541463642 541462937 0.000000e+00 893.0
11 TraesCS1B01G378700 chr1A 84.901 861 82 28 737 1555 456650737 456651591 0.000000e+00 826.0
12 TraesCS1B01G378700 chr1A 86.908 718 60 19 705 1414 541319058 541319749 0.000000e+00 774.0
13 TraesCS1B01G378700 chr1A 94.815 135 7 0 2027 2161 542359478 542359612 6.750000e-51 211.0
14 TraesCS1B01G378700 chr1A 85.965 171 8 4 2177 2333 542359598 542359766 4.120000e-38 169.0
15 TraesCS1B01G378700 chr1D 88.183 1244 75 35 960 2161 446558446 446559659 0.000000e+00 1417.0
16 TraesCS1B01G378700 chr1D 87.872 940 84 16 873 1807 445317456 445318370 0.000000e+00 1077.0
17 TraesCS1B01G378700 chr1D 86.783 976 98 19 710 1664 445387273 445386308 0.000000e+00 1059.0
18 TraesCS1B01G378700 chr1D 89.331 703 52 19 725 1410 446436822 446437518 0.000000e+00 861.0
19 TraesCS1B01G378700 chr1D 87.747 253 12 5 2177 2411 446559645 446559896 6.560000e-71 278.0
20 TraesCS1B01G378700 chr1D 82.500 160 25 3 737 895 355825013 355825170 1.160000e-28 137.0
21 TraesCS1B01G378700 chr4D 87.786 524 60 3 1 522 478229025 478228504 5.700000e-171 610.0
22 TraesCS1B01G378700 chr4A 87.287 527 66 1 1 526 638136347 638135821 3.430000e-168 601.0
23 TraesCS1B01G378700 chr4A 87.671 73 6 3 2177 2247 723878433 723878362 5.520000e-12 82.4
24 TraesCS1B01G378700 chr4A 86.301 73 7 3 2177 2247 674317717 674317788 2.570000e-10 76.8
25 TraesCS1B01G378700 chr7D 86.604 530 63 7 1 526 535745757 535745232 1.610000e-161 579.0
26 TraesCS1B01G378700 chr7D 77.599 808 101 33 1376 2151 16676085 16676844 1.330000e-112 416.0
27 TraesCS1B01G378700 chr6A 86.616 523 56 9 2 522 79706221 79705711 1.250000e-157 566.0
28 TraesCS1B01G378700 chr5B 85.714 525 66 5 1 522 428662873 428663391 1.630000e-151 545.0
29 TraesCS1B01G378700 chr5B 75.776 805 116 38 1376 2151 667131414 667130660 1.380000e-87 333.0
30 TraesCS1B01G378700 chr5B 82.938 211 27 8 1821 2024 10091072 10090864 5.290000e-42 182.0
31 TraesCS1B01G378700 chr3B 85.389 527 66 9 1 522 572803432 572803952 9.810000e-149 536.0
32 TraesCS1B01G378700 chr3B 82.629 213 30 6 1818 2024 775129178 775128967 5.290000e-42 182.0
33 TraesCS1B01G378700 chr3B 87.671 73 6 3 2177 2247 729775582 729775511 5.520000e-12 82.4
34 TraesCS1B01G378700 chr7A 84.831 534 68 10 1 524 594898106 594897576 2.120000e-145 525.0
35 TraesCS1B01G378700 chr2A 83.871 527 71 6 1 522 485039184 485039701 7.750000e-135 490.0
36 TraesCS1B01G378700 chr2A 83.099 213 29 6 1818 2024 24792441 24792230 1.140000e-43 187.0
37 TraesCS1B01G378700 chr2A 81.481 216 29 9 1818 2024 644823235 644823448 1.480000e-37 167.0
38 TraesCS1B01G378700 chr2A 88.462 52 6 0 1758 1809 24792542 24792491 2.000000e-06 63.9
39 TraesCS1B01G378700 chr3A 75.946 819 104 44 1376 2151 722492543 722491775 3.840000e-88 335.0
40 TraesCS1B01G378700 chr3A 75.000 428 50 23 1751 2151 691428118 691427721 6.950000e-31 145.0
41 TraesCS1B01G378700 chr3A 87.671 73 6 3 2177 2247 722491779 722491708 5.520000e-12 82.4
42 TraesCS1B01G378700 chr5A 84.038 213 27 6 1818 2024 131654461 131654672 5.260000e-47 198.0
43 TraesCS1B01G378700 chr7B 82.710 214 28 8 1818 2024 469017976 469018187 5.290000e-42 182.0
44 TraesCS1B01G378700 chr7B 81.517 211 30 7 1821 2024 603522157 603521949 5.330000e-37 165.0
45 TraesCS1B01G378700 chr7B 87.500 72 6 3 2177 2246 425856229 425856159 1.990000e-11 80.5
46 TraesCS1B01G378700 chr7B 89.062 64 3 4 2186 2247 691515615 691515554 2.570000e-10 76.8
47 TraesCS1B01G378700 chr2B 81.308 214 31 7 1818 2024 726407054 726407265 5.330000e-37 165.0
48 TraesCS1B01G378700 chr2B 74.769 432 51 29 1746 2150 710353524 710353924 8.990000e-30 141.0
49 TraesCS1B01G378700 chr4B 90.476 63 3 3 2187 2247 317669016 317669077 1.990000e-11 80.5


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 TraesCS1B01G378700 chr1B 611130483 611132893 2410 False 4453.0 4453 100.000000 1 2411 1 chr1B.!!$F2 2410
1 TraesCS1B01G378700 chr1B 608461740 608463158 1418 True 1352.0 1352 84.343000 737 2161 1 chr1B.!!$R2 1424
2 TraesCS1B01G378700 chr1B 606839635 606840962 1327 False 1051.0 1051 81.746000 706 2033 1 chr1B.!!$F1 1327
3 TraesCS1B01G378700 chr1B 607429115 607429653 538 True 754.0 754 91.927000 873 1413 1 chr1B.!!$R1 540
4 TraesCS1B01G378700 chr1B 610965299 610966600 1301 False 671.0 824 85.260500 705 2031 2 chr1B.!!$F4 1326
5 TraesCS1B01G378700 chr1B 629109169 629109690 521 False 558.0 558 86.090000 1 526 1 chr1B.!!$F3 525
6 TraesCS1B01G378700 chr1A 541462937 541463642 705 True 893.0 893 89.607000 710 1414 1 chr1A.!!$R1 704
7 TraesCS1B01G378700 chr1A 456650737 456651591 854 False 826.0 826 84.901000 737 1555 1 chr1A.!!$F1 818
8 TraesCS1B01G378700 chr1A 541319058 541319749 691 False 774.0 774 86.908000 705 1414 1 chr1A.!!$F2 709
9 TraesCS1B01G378700 chr1A 542358128 542359766 1638 False 711.0 1753 90.444667 644 2333 3 chr1A.!!$F3 1689
10 TraesCS1B01G378700 chr1D 445317456 445318370 914 False 1077.0 1077 87.872000 873 1807 1 chr1D.!!$F2 934
11 TraesCS1B01G378700 chr1D 445386308 445387273 965 True 1059.0 1059 86.783000 710 1664 1 chr1D.!!$R1 954
12 TraesCS1B01G378700 chr1D 446436822 446437518 696 False 861.0 861 89.331000 725 1410 1 chr1D.!!$F3 685
13 TraesCS1B01G378700 chr1D 446558446 446559896 1450 False 847.5 1417 87.965000 960 2411 2 chr1D.!!$F4 1451
14 TraesCS1B01G378700 chr4D 478228504 478229025 521 True 610.0 610 87.786000 1 522 1 chr4D.!!$R1 521
15 TraesCS1B01G378700 chr4A 638135821 638136347 526 True 601.0 601 87.287000 1 526 1 chr4A.!!$R1 525
16 TraesCS1B01G378700 chr7D 535745232 535745757 525 True 579.0 579 86.604000 1 526 1 chr7D.!!$R1 525
17 TraesCS1B01G378700 chr7D 16676085 16676844 759 False 416.0 416 77.599000 1376 2151 1 chr7D.!!$F1 775
18 TraesCS1B01G378700 chr6A 79705711 79706221 510 True 566.0 566 86.616000 2 522 1 chr6A.!!$R1 520
19 TraesCS1B01G378700 chr5B 428662873 428663391 518 False 545.0 545 85.714000 1 522 1 chr5B.!!$F1 521
20 TraesCS1B01G378700 chr5B 667130660 667131414 754 True 333.0 333 75.776000 1376 2151 1 chr5B.!!$R2 775
21 TraesCS1B01G378700 chr3B 572803432 572803952 520 False 536.0 536 85.389000 1 522 1 chr3B.!!$F1 521
22 TraesCS1B01G378700 chr7A 594897576 594898106 530 True 525.0 525 84.831000 1 524 1 chr7A.!!$R1 523
23 TraesCS1B01G378700 chr2A 485039184 485039701 517 False 490.0 490 83.871000 1 522 1 chr2A.!!$F1 521
24 TraesCS1B01G378700 chr3A 722491708 722492543 835 True 208.7 335 81.808500 1376 2247 2 chr3A.!!$R2 871

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
500 515 0.034896 CCGTGCTGGACAAGTTAGGT 59.965 55.0 0.0 0.0 42.0 3.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2378 2606 3.053842 ACCAGATGCCAACAGAATCATCT 60.054 43.478 0.0 0.0 44.44 2.9 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 24 3.813529 AACAGAAATTTCGCTCGAAGG 57.186 42.857 12.42 0.00 35.38 3.46
25 26 3.399330 ACAGAAATTTCGCTCGAAGGAA 58.601 40.909 12.42 0.00 35.38 3.36
26 27 3.813166 ACAGAAATTTCGCTCGAAGGAAA 59.187 39.130 12.42 11.55 36.66 3.13
27 28 4.274950 ACAGAAATTTCGCTCGAAGGAAAA 59.725 37.500 12.42 0.74 35.93 2.29
28 29 4.613031 CAGAAATTTCGCTCGAAGGAAAAC 59.387 41.667 12.42 8.69 35.93 2.43
96 101 6.978343 AAAGTATATGCAAAGCGACAAGTA 57.022 33.333 0.00 0.00 0.00 2.24
193 200 2.028930 GGTGACGAGGATATCCCATGTC 60.029 54.545 22.54 22.54 40.00 3.06
321 336 0.318441 ACACGCATAGCTCACAGTGT 59.682 50.000 10.80 10.80 37.91 3.55
327 342 2.871637 GCATAGCTCACAGTGTGTCCAA 60.872 50.000 22.29 8.16 34.79 3.53
337 352 0.865769 GTGTGTCCAACGCCTACAAG 59.134 55.000 0.00 0.00 32.84 3.16
356 371 0.962356 GAACTGACATGTGGCCCAGG 60.962 60.000 1.15 1.74 0.00 4.45
365 380 2.763215 TGGCCCAGGGACACAATC 59.237 61.111 11.42 0.00 34.69 2.67
388 403 2.126071 CCACGCGGACACTCGATT 60.126 61.111 12.47 0.00 0.00 3.34
405 420 0.107897 ATTCAGCGGCATACGTCCAA 60.108 50.000 1.45 0.00 46.52 3.53
413 428 0.958382 GCATACGTCCAAAGGCACCA 60.958 55.000 0.00 0.00 0.00 4.17
414 429 0.802494 CATACGTCCAAAGGCACCAC 59.198 55.000 0.00 0.00 0.00 4.16
419 434 1.883275 CGTCCAAAGGCACCACATTTA 59.117 47.619 0.00 0.00 0.00 1.40
433 448 3.243569 CCACATTTAAACGCCCAGACAAA 60.244 43.478 0.00 0.00 0.00 2.83
437 452 6.088883 CACATTTAAACGCCCAGACAAATTAC 59.911 38.462 0.00 0.00 0.00 1.89
486 501 2.331451 GCACCAAACTGACCGTGC 59.669 61.111 0.00 0.00 44.17 5.34
487 502 2.186826 GCACCAAACTGACCGTGCT 61.187 57.895 3.88 0.00 46.32 4.40
500 515 0.034896 CCGTGCTGGACAAGTTAGGT 59.965 55.000 0.00 0.00 42.00 3.08
504 519 1.071699 TGCTGGACAAGTTAGGTCACC 59.928 52.381 0.00 0.00 37.00 4.02
508 523 3.576982 CTGGACAAGTTAGGTCACCTGTA 59.423 47.826 6.61 0.00 37.00 2.74
527 542 9.095065 CACCTGTAGTGTATTTAACTCATAACC 57.905 37.037 0.00 0.00 41.93 2.85
528 543 8.818860 ACCTGTAGTGTATTTAACTCATAACCA 58.181 33.333 0.00 0.00 0.00 3.67
529 544 9.661563 CCTGTAGTGTATTTAACTCATAACCAA 57.338 33.333 0.00 0.00 0.00 3.67
535 550 9.864034 GTGTATTTAACTCATAACCAATCATCG 57.136 33.333 0.00 0.00 0.00 3.84
536 551 9.607988 TGTATTTAACTCATAACCAATCATCGT 57.392 29.630 0.00 0.00 0.00 3.73
537 552 9.864034 GTATTTAACTCATAACCAATCATCGTG 57.136 33.333 0.00 0.00 0.00 4.35
538 553 7.915293 TTTAACTCATAACCAATCATCGTGT 57.085 32.000 0.00 0.00 0.00 4.49
539 554 9.607988 ATTTAACTCATAACCAATCATCGTGTA 57.392 29.630 0.00 0.00 0.00 2.90
540 555 8.642908 TTAACTCATAACCAATCATCGTGTAG 57.357 34.615 0.00 0.00 0.00 2.74
541 556 6.222038 ACTCATAACCAATCATCGTGTAGT 57.778 37.500 0.00 0.00 0.00 2.73
542 557 6.640518 ACTCATAACCAATCATCGTGTAGTT 58.359 36.000 0.00 0.00 0.00 2.24
543 558 6.757010 ACTCATAACCAATCATCGTGTAGTTC 59.243 38.462 0.00 0.00 0.00 3.01
544 559 6.046593 TCATAACCAATCATCGTGTAGTTCC 58.953 40.000 0.00 0.00 0.00 3.62
545 560 2.888594 ACCAATCATCGTGTAGTTCCG 58.111 47.619 0.00 0.00 0.00 4.30
546 561 2.232941 ACCAATCATCGTGTAGTTCCGT 59.767 45.455 0.00 0.00 0.00 4.69
547 562 2.603110 CCAATCATCGTGTAGTTCCGTG 59.397 50.000 0.00 0.00 0.00 4.94
548 563 3.250744 CAATCATCGTGTAGTTCCGTGT 58.749 45.455 0.00 0.00 0.00 4.49
549 564 2.341318 TCATCGTGTAGTTCCGTGTG 57.659 50.000 0.00 0.00 0.00 3.82
550 565 0.713883 CATCGTGTAGTTCCGTGTGC 59.286 55.000 0.00 0.00 0.00 4.57
551 566 0.389426 ATCGTGTAGTTCCGTGTGCC 60.389 55.000 0.00 0.00 0.00 5.01
552 567 2.369629 CGTGTAGTTCCGTGTGCCG 61.370 63.158 0.00 0.00 0.00 5.69
553 568 1.007038 GTGTAGTTCCGTGTGCCGA 60.007 57.895 0.00 0.00 39.56 5.54
554 569 1.007336 GTGTAGTTCCGTGTGCCGAG 61.007 60.000 0.00 0.00 39.56 4.63
555 570 2.092882 GTAGTTCCGTGTGCCGAGC 61.093 63.158 0.00 0.00 39.56 5.03
556 571 3.291101 TAGTTCCGTGTGCCGAGCC 62.291 63.158 0.00 0.00 39.56 4.70
557 572 4.980805 GTTCCGTGTGCCGAGCCA 62.981 66.667 0.00 0.00 39.56 4.75
558 573 4.243008 TTCCGTGTGCCGAGCCAA 62.243 61.111 0.00 0.00 39.56 4.52
559 574 3.545124 TTCCGTGTGCCGAGCCAAT 62.545 57.895 0.00 0.00 39.56 3.16
560 575 3.803082 CCGTGTGCCGAGCCAATG 61.803 66.667 0.00 0.00 39.56 2.82
561 576 4.465512 CGTGTGCCGAGCCAATGC 62.466 66.667 0.00 0.00 39.56 3.56
562 577 4.465512 GTGTGCCGAGCCAATGCG 62.466 66.667 0.00 0.00 44.33 4.73
584 599 4.718940 GGCAACCAAACTAAGTGCATAT 57.281 40.909 0.00 0.00 0.00 1.78
585 600 5.828299 GGCAACCAAACTAAGTGCATATA 57.172 39.130 0.00 0.00 0.00 0.86
586 601 6.391227 GGCAACCAAACTAAGTGCATATAT 57.609 37.500 0.00 0.00 0.00 0.86
587 602 6.805713 GGCAACCAAACTAAGTGCATATATT 58.194 36.000 0.00 0.00 0.00 1.28
588 603 6.697019 GGCAACCAAACTAAGTGCATATATTG 59.303 38.462 0.00 0.00 0.00 1.90
589 604 6.697019 GCAACCAAACTAAGTGCATATATTGG 59.303 38.462 13.83 13.83 41.35 3.16
591 606 7.954666 ACCAAACTAAGTGCATATATTGGTT 57.045 32.000 14.79 8.50 45.02 3.67
592 607 8.361169 ACCAAACTAAGTGCATATATTGGTTT 57.639 30.769 14.79 12.57 45.02 3.27
593 608 8.811994 ACCAAACTAAGTGCATATATTGGTTTT 58.188 29.630 14.79 3.23 45.02 2.43
594 609 9.651913 CCAAACTAAGTGCATATATTGGTTTTT 57.348 29.630 12.39 0.00 36.04 1.94
598 613 9.695155 ACTAAGTGCATATATTGGTTTTTACCT 57.305 29.630 0.00 0.00 0.00 3.08
599 614 9.950680 CTAAGTGCATATATTGGTTTTTACCTG 57.049 33.333 0.00 0.00 0.00 4.00
600 615 7.954666 AGTGCATATATTGGTTTTTACCTGT 57.045 32.000 0.00 0.00 0.00 4.00
601 616 8.361169 AGTGCATATATTGGTTTTTACCTGTT 57.639 30.769 0.00 0.00 0.00 3.16
602 617 8.811994 AGTGCATATATTGGTTTTTACCTGTTT 58.188 29.630 0.00 0.00 0.00 2.83
603 618 9.430623 GTGCATATATTGGTTTTTACCTGTTTT 57.569 29.630 0.00 0.00 0.00 2.43
611 626 8.426881 TTGGTTTTTACCTGTTTTTATTCAGC 57.573 30.769 0.00 0.00 0.00 4.26
612 627 6.987404 TGGTTTTTACCTGTTTTTATTCAGCC 59.013 34.615 0.00 0.00 0.00 4.85
613 628 6.987404 GGTTTTTACCTGTTTTTATTCAGCCA 59.013 34.615 0.00 0.00 0.00 4.75
614 629 7.170828 GGTTTTTACCTGTTTTTATTCAGCCAG 59.829 37.037 0.00 0.00 0.00 4.85
615 630 5.975693 TTACCTGTTTTTATTCAGCCAGG 57.024 39.130 0.00 0.00 43.98 4.45
616 631 2.562738 ACCTGTTTTTATTCAGCCAGGC 59.437 45.455 1.84 1.84 42.53 4.85
617 632 2.827921 CCTGTTTTTATTCAGCCAGGCT 59.172 45.455 8.70 8.70 40.77 4.58
618 633 4.016444 CCTGTTTTTATTCAGCCAGGCTA 58.984 43.478 15.64 0.00 36.40 3.93
619 634 4.462483 CCTGTTTTTATTCAGCCAGGCTAA 59.538 41.667 15.64 9.63 36.40 3.09
620 635 5.047377 CCTGTTTTTATTCAGCCAGGCTAAA 60.047 40.000 15.64 6.55 36.40 1.85
621 636 6.351286 CCTGTTTTTATTCAGCCAGGCTAAAT 60.351 38.462 15.64 15.14 36.40 1.40
622 637 6.397272 TGTTTTTATTCAGCCAGGCTAAATG 58.603 36.000 19.24 6.07 36.40 2.32
623 638 4.654091 TTTATTCAGCCAGGCTAAATGC 57.346 40.909 19.24 0.00 36.40 3.56
624 639 2.148446 ATTCAGCCAGGCTAAATGCA 57.852 45.000 15.64 0.00 45.15 3.96
625 640 1.921982 TTCAGCCAGGCTAAATGCAA 58.078 45.000 15.64 0.00 45.15 4.08
626 641 2.148446 TCAGCCAGGCTAAATGCAAT 57.852 45.000 15.64 0.00 45.15 3.56
627 642 3.295585 TCAGCCAGGCTAAATGCAATA 57.704 42.857 15.64 0.00 45.15 1.90
628 643 3.216800 TCAGCCAGGCTAAATGCAATAG 58.783 45.455 15.64 0.00 45.15 1.73
629 644 3.117926 TCAGCCAGGCTAAATGCAATAGA 60.118 43.478 15.64 0.00 45.15 1.98
630 645 3.252701 CAGCCAGGCTAAATGCAATAGAG 59.747 47.826 15.64 0.00 45.15 2.43
631 646 3.137176 AGCCAGGCTAAATGCAATAGAGA 59.863 43.478 14.18 0.00 45.15 3.10
632 647 4.077822 GCCAGGCTAAATGCAATAGAGAT 58.922 43.478 3.29 0.00 45.15 2.75
633 648 4.522022 GCCAGGCTAAATGCAATAGAGATT 59.478 41.667 3.29 0.00 45.15 2.40
634 649 5.010415 GCCAGGCTAAATGCAATAGAGATTT 59.990 40.000 3.29 0.00 45.15 2.17
635 650 6.675987 CCAGGCTAAATGCAATAGAGATTTC 58.324 40.000 12.65 0.00 45.15 2.17
636 651 6.263842 CCAGGCTAAATGCAATAGAGATTTCA 59.736 38.462 12.65 0.00 45.15 2.69
637 652 7.201848 CCAGGCTAAATGCAATAGAGATTTCAA 60.202 37.037 12.65 0.00 45.15 2.69
638 653 7.646922 CAGGCTAAATGCAATAGAGATTTCAAC 59.353 37.037 12.65 0.00 45.15 3.18
639 654 6.920210 GGCTAAATGCAATAGAGATTTCAACC 59.080 38.462 12.65 0.00 45.15 3.77
640 655 7.416664 GGCTAAATGCAATAGAGATTTCAACCA 60.417 37.037 12.65 0.00 45.15 3.67
641 656 7.975616 GCTAAATGCAATAGAGATTTCAACCAA 59.024 33.333 12.65 0.00 42.31 3.67
642 657 9.859427 CTAAATGCAATAGAGATTTCAACCAAA 57.141 29.630 0.00 0.00 0.00 3.28
646 661 5.698832 CAATAGAGATTTCAACCAAACGCA 58.301 37.500 0.00 0.00 0.00 5.24
653 668 1.115467 TCAACCAAACGCACCCATTT 58.885 45.000 0.00 0.00 0.00 2.32
662 677 0.309302 CGCACCCATTTCGTTTCACA 59.691 50.000 0.00 0.00 0.00 3.58
680 700 2.995077 ATCGGGGCCTGGATGCAAA 61.995 57.895 13.58 0.00 0.00 3.68
685 705 0.614812 GGGCCTGGATGCAAATTGTT 59.385 50.000 0.84 0.00 0.00 2.83
703 724 0.179234 TTGACACGGCAGGAAGACAA 59.821 50.000 0.00 0.00 0.00 3.18
721 742 3.822192 CACGCCTCCACGATCCGA 61.822 66.667 0.00 0.00 36.70 4.55
751 772 3.370527 CCCTTGGACCAATCAGATAACGT 60.371 47.826 7.54 0.00 0.00 3.99
820 844 1.958715 CGCACCACACATCCAACGA 60.959 57.895 0.00 0.00 0.00 3.85
840 870 4.263572 CACGCCCACCTTCCCACA 62.264 66.667 0.00 0.00 0.00 4.17
905 953 2.027314 CTCGGCGCTCATCTCCTG 59.973 66.667 7.64 0.00 0.00 3.86
955 1003 2.158696 CCTCACTCCAATCCAATCTCCC 60.159 54.545 0.00 0.00 0.00 4.30
956 1004 2.507058 CTCACTCCAATCCAATCTCCCA 59.493 50.000 0.00 0.00 0.00 4.37
962 1013 3.077391 TCCAATCCAATCTCCCAAACCTT 59.923 43.478 0.00 0.00 0.00 3.50
965 1016 3.721087 TCCAATCTCCCAAACCTTCTC 57.279 47.619 0.00 0.00 0.00 2.87
967 1018 2.310052 CCAATCTCCCAAACCTTCTCCT 59.690 50.000 0.00 0.00 0.00 3.69
971 1039 1.988846 CTCCCAAACCTTCTCCTCCTT 59.011 52.381 0.00 0.00 0.00 3.36
974 1042 2.290577 CCCAAACCTTCTCCTCCTTCTG 60.291 54.545 0.00 0.00 0.00 3.02
1562 1676 9.679661 TTAGATGAAAATGTTGGCTATCTGTTA 57.320 29.630 0.00 0.00 0.00 2.41
1564 1678 9.193806 AGATGAAAATGTTGGCTATCTGTTATT 57.806 29.630 0.00 0.00 0.00 1.40
1614 1728 2.005451 CTTGTATGTGAGCCTGTCAGC 58.995 52.381 0.00 0.00 35.13 4.26
1629 1743 1.398390 GTCAGCGAATGTGATTCACCC 59.602 52.381 14.05 3.13 39.22 4.61
1695 1811 8.601476 CCGGTTTAATCTACTGTGTCTTAAATC 58.399 37.037 0.00 0.00 0.00 2.17
1703 1824 5.344207 ACTGTGTCTTAAATCGCTTCAAC 57.656 39.130 0.00 0.00 0.00 3.18
1718 1839 7.023197 TCGCTTCAACTTTTTAGCTTAAACT 57.977 32.000 0.00 0.00 0.00 2.66
1889 2065 3.873361 CACCTGTACCATGATGCTAACAG 59.127 47.826 10.98 10.98 35.29 3.16
1956 2132 7.261325 ACTGCTCATAGAGTACATACTGTTTG 58.739 38.462 0.00 0.00 36.50 2.93
1957 2133 7.122799 ACTGCTCATAGAGTACATACTGTTTGA 59.877 37.037 5.24 8.39 36.02 2.69
1993 2170 0.038435 TTTGTTGTCGCATGCCATGG 60.038 50.000 13.15 7.63 0.00 3.66
2083 2281 1.954528 CAGGTGAAACTGCTGCAGG 59.045 57.895 31.00 14.81 35.51 4.85
2108 2306 3.333680 AGGAAGGTGAACATATGTTGGGT 59.666 43.478 25.42 1.08 38.56 4.51
2151 2359 3.862642 GCTGGAAAGATATCCTGTAGCGG 60.863 52.174 0.00 0.00 40.35 5.52
2157 2365 4.374689 AGATATCCTGTAGCGGAAGAGA 57.625 45.455 0.00 0.00 36.49 3.10
2161 2369 4.762289 ATCCTGTAGCGGAAGAGAATTT 57.238 40.909 0.00 0.00 36.49 1.82
2162 2370 4.553330 TCCTGTAGCGGAAGAGAATTTT 57.447 40.909 0.00 0.00 0.00 1.82
2163 2371 4.906618 TCCTGTAGCGGAAGAGAATTTTT 58.093 39.130 0.00 0.00 0.00 1.94
2187 2395 7.692908 TTTGTTTGAAAATTAGCGAAAGAGG 57.307 32.000 0.00 0.00 0.00 3.69
2188 2396 6.627395 TGTTTGAAAATTAGCGAAAGAGGA 57.373 33.333 0.00 0.00 0.00 3.71
2189 2397 7.214467 TGTTTGAAAATTAGCGAAAGAGGAT 57.786 32.000 0.00 0.00 0.00 3.24
2190 2398 7.657336 TGTTTGAAAATTAGCGAAAGAGGATT 58.343 30.769 0.00 0.00 0.00 3.01
2247 2457 1.379576 GCTTCCCCTGCAGAGCAAT 60.380 57.895 17.39 0.00 38.41 3.56
2248 2458 1.664321 GCTTCCCCTGCAGAGCAATG 61.664 60.000 17.39 0.00 38.41 2.82
2264 2488 4.890088 AGCAATGTCTTGTTGAATGCAAT 58.110 34.783 0.00 0.00 36.22 3.56
2299 2527 1.359474 TCCTAGCCAAGGTGAGAGACT 59.641 52.381 2.79 0.00 46.62 3.24
2344 2572 3.807622 CCTTCTTTGAACTGCAGAACGTA 59.192 43.478 23.35 1.48 0.00 3.57
2345 2573 4.084328 CCTTCTTTGAACTGCAGAACGTAG 60.084 45.833 23.35 11.67 0.00 3.51
2378 2606 4.922206 ACCTGTCTTAAGATCCATTTGCA 58.078 39.130 8.75 0.00 0.00 4.08
2379 2607 4.946157 ACCTGTCTTAAGATCCATTTGCAG 59.054 41.667 8.75 8.27 0.00 4.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 3.199677 TCTTGTTTTCCTTCGAGCGAAA 58.800 40.909 6.77 5.22 33.34 3.46
15 16 6.590677 AGTTACTATCTTGTTTTCCTTCGAGC 59.409 38.462 0.00 0.00 0.00 5.03
69 74 6.729391 TGTCGCTTTGCATATACTTTTACA 57.271 33.333 0.00 0.00 0.00 2.41
77 82 6.536941 TGATTGTACTTGTCGCTTTGCATATA 59.463 34.615 0.00 0.00 0.00 0.86
96 101 8.781196 CAGCAAGCAGTTTATATAGATGATTGT 58.219 33.333 16.50 7.10 38.98 2.71
184 189 1.143684 CAGGGAATTCGGACATGGGAT 59.856 52.381 0.00 0.00 0.00 3.85
193 200 2.436646 AGCGTGCAGGGAATTCGG 60.437 61.111 8.72 0.00 0.00 4.30
321 336 1.414919 AGTTCTTGTAGGCGTTGGACA 59.585 47.619 0.00 0.00 0.00 4.02
327 342 2.037251 ACATGTCAGTTCTTGTAGGCGT 59.963 45.455 0.00 0.00 0.00 5.68
337 352 0.962356 CCTGGGCCACATGTCAGTTC 60.962 60.000 0.00 0.00 0.00 3.01
356 371 1.137404 GTGGCATGCGATTGTGTCC 59.863 57.895 12.44 0.00 0.00 4.02
379 394 0.459899 TATGCCGCTGAATCGAGTGT 59.540 50.000 0.00 0.00 0.00 3.55
388 403 0.739462 CTTTGGACGTATGCCGCTGA 60.739 55.000 0.00 0.00 41.42 4.26
405 420 1.000394 GGCGTTTAAATGTGGTGCCTT 60.000 47.619 9.12 0.00 38.00 4.35
413 428 4.864704 ATTTGTCTGGGCGTTTAAATGT 57.135 36.364 9.12 0.00 0.00 2.71
414 429 5.285134 CGTAATTTGTCTGGGCGTTTAAATG 59.715 40.000 2.87 2.87 0.00 2.32
419 434 2.224784 GTCGTAATTTGTCTGGGCGTTT 59.775 45.455 0.00 0.00 0.00 3.60
433 448 6.870971 AATACACAAAAGTGGTGTCGTAAT 57.129 33.333 0.94 0.00 45.89 1.89
437 452 6.030849 TGAAAAATACACAAAAGTGGTGTCG 58.969 36.000 0.94 0.00 45.89 4.35
486 501 2.368875 ACAGGTGACCTAACTTGTCCAG 59.631 50.000 2.59 0.00 35.67 3.86
487 502 2.404559 ACAGGTGACCTAACTTGTCCA 58.595 47.619 2.59 0.00 35.67 4.02
512 527 9.607988 ACACGATGATTGGTTATGAGTTAAATA 57.392 29.630 0.00 0.00 0.00 1.40
522 537 5.047847 CGGAACTACACGATGATTGGTTAT 58.952 41.667 0.00 0.00 0.00 1.89
523 538 4.082081 ACGGAACTACACGATGATTGGTTA 60.082 41.667 0.00 0.00 0.00 2.85
524 539 3.259064 CGGAACTACACGATGATTGGTT 58.741 45.455 0.00 0.00 0.00 3.67
526 541 2.603110 CACGGAACTACACGATGATTGG 59.397 50.000 0.00 0.00 0.00 3.16
527 542 3.060761 CACACGGAACTACACGATGATTG 59.939 47.826 0.00 0.00 0.00 2.67
528 543 3.250744 CACACGGAACTACACGATGATT 58.749 45.455 0.00 0.00 0.00 2.57
529 544 2.876091 CACACGGAACTACACGATGAT 58.124 47.619 0.00 0.00 0.00 2.45
530 545 1.667756 GCACACGGAACTACACGATGA 60.668 52.381 0.00 0.00 0.00 2.92
531 546 0.713883 GCACACGGAACTACACGATG 59.286 55.000 0.00 0.00 0.00 3.84
532 547 0.389426 GGCACACGGAACTACACGAT 60.389 55.000 0.00 0.00 0.00 3.73
533 548 1.007038 GGCACACGGAACTACACGA 60.007 57.895 0.00 0.00 0.00 4.35
534 549 2.369629 CGGCACACGGAACTACACG 61.370 63.158 0.00 0.00 39.42 4.49
535 550 1.007038 TCGGCACACGGAACTACAC 60.007 57.895 0.00 0.00 44.45 2.90
536 551 1.287815 CTCGGCACACGGAACTACA 59.712 57.895 0.00 0.00 44.45 2.74
537 552 2.092882 GCTCGGCACACGGAACTAC 61.093 63.158 0.00 0.00 44.45 2.73
538 553 2.260434 GCTCGGCACACGGAACTA 59.740 61.111 0.00 0.00 44.45 2.24
539 554 4.681978 GGCTCGGCACACGGAACT 62.682 66.667 0.00 0.00 44.45 3.01
540 555 4.980805 TGGCTCGGCACACGGAAC 62.981 66.667 0.00 0.00 44.45 3.62
541 556 3.545124 ATTGGCTCGGCACACGGAA 62.545 57.895 0.00 0.00 44.45 4.30
542 557 4.015406 ATTGGCTCGGCACACGGA 62.015 61.111 0.00 0.00 44.45 4.69
543 558 3.803082 CATTGGCTCGGCACACGG 61.803 66.667 0.00 0.00 44.45 4.94
544 559 4.465512 GCATTGGCTCGGCACACG 62.466 66.667 0.00 0.00 46.11 4.49
545 560 4.465512 CGCATTGGCTCGGCACAC 62.466 66.667 0.00 0.00 38.10 3.82
555 570 1.667510 GTTTGGTTGCCCGCATTGG 60.668 57.895 0.00 0.00 37.55 3.16
556 571 0.600557 TAGTTTGGTTGCCCGCATTG 59.399 50.000 0.00 0.00 0.00 2.82
557 572 1.272212 CTTAGTTTGGTTGCCCGCATT 59.728 47.619 0.00 0.00 0.00 3.56
558 573 0.887933 CTTAGTTTGGTTGCCCGCAT 59.112 50.000 0.00 0.00 0.00 4.73
559 574 0.466555 ACTTAGTTTGGTTGCCCGCA 60.467 50.000 0.00 0.00 0.00 5.69
560 575 0.039527 CACTTAGTTTGGTTGCCCGC 60.040 55.000 0.00 0.00 0.00 6.13
561 576 0.039527 GCACTTAGTTTGGTTGCCCG 60.040 55.000 0.00 0.00 0.00 6.13
562 577 1.036707 TGCACTTAGTTTGGTTGCCC 58.963 50.000 0.00 0.00 0.00 5.36
563 578 4.718940 ATATGCACTTAGTTTGGTTGCC 57.281 40.909 0.00 0.00 0.00 4.52
564 579 6.697019 CCAATATATGCACTTAGTTTGGTTGC 59.303 38.462 0.00 0.00 0.00 4.17
565 580 7.771183 ACCAATATATGCACTTAGTTTGGTTG 58.229 34.615 8.94 0.00 42.02 3.77
566 581 7.954666 ACCAATATATGCACTTAGTTTGGTT 57.045 32.000 8.94 0.00 42.02 3.67
567 582 7.954666 AACCAATATATGCACTTAGTTTGGT 57.045 32.000 8.94 8.94 45.49 3.67
568 583 9.651913 AAAAACCAATATATGCACTTAGTTTGG 57.348 29.630 7.85 7.85 38.61 3.28
572 587 9.695155 AGGTAAAAACCAATATATGCACTTAGT 57.305 29.630 0.00 0.00 0.00 2.24
573 588 9.950680 CAGGTAAAAACCAATATATGCACTTAG 57.049 33.333 0.00 0.00 0.00 2.18
574 589 9.469097 ACAGGTAAAAACCAATATATGCACTTA 57.531 29.630 0.00 0.00 0.00 2.24
575 590 8.361169 ACAGGTAAAAACCAATATATGCACTT 57.639 30.769 0.00 0.00 0.00 3.16
576 591 7.954666 ACAGGTAAAAACCAATATATGCACT 57.045 32.000 0.00 0.00 0.00 4.40
577 592 8.996024 AAACAGGTAAAAACCAATATATGCAC 57.004 30.769 0.00 0.00 0.00 4.57
585 600 9.051679 GCTGAATAAAAACAGGTAAAAACCAAT 57.948 29.630 0.00 0.00 35.05 3.16
586 601 7.496263 GGCTGAATAAAAACAGGTAAAAACCAA 59.504 33.333 0.00 0.00 35.05 3.67
587 602 6.987404 GGCTGAATAAAAACAGGTAAAAACCA 59.013 34.615 0.00 0.00 35.05 3.67
588 603 6.987404 TGGCTGAATAAAAACAGGTAAAAACC 59.013 34.615 0.00 0.00 35.05 3.27
589 604 7.170828 CCTGGCTGAATAAAAACAGGTAAAAAC 59.829 37.037 0.00 0.00 40.36 2.43
590 605 7.213678 CCTGGCTGAATAAAAACAGGTAAAAA 58.786 34.615 0.00 0.00 40.36 1.94
591 606 6.740122 GCCTGGCTGAATAAAAACAGGTAAAA 60.740 38.462 12.43 0.00 45.48 1.52
592 607 5.279256 GCCTGGCTGAATAAAAACAGGTAAA 60.279 40.000 12.43 0.00 45.48 2.01
593 608 4.219725 GCCTGGCTGAATAAAAACAGGTAA 59.780 41.667 12.43 0.00 45.48 2.85
594 609 3.761752 GCCTGGCTGAATAAAAACAGGTA 59.238 43.478 12.43 0.00 45.48 3.08
595 610 2.562738 GCCTGGCTGAATAAAAACAGGT 59.437 45.455 12.43 0.00 45.48 4.00
596 611 2.827921 AGCCTGGCTGAATAAAAACAGG 59.172 45.455 22.71 0.00 46.24 4.00
597 612 5.643379 TTAGCCTGGCTGAATAAAAACAG 57.357 39.130 30.83 0.00 40.10 3.16
598 613 6.397272 CATTTAGCCTGGCTGAATAAAAACA 58.603 36.000 30.80 8.75 41.71 2.83
599 614 5.291858 GCATTTAGCCTGGCTGAATAAAAAC 59.708 40.000 30.80 17.54 41.71 2.43
600 615 5.046735 TGCATTTAGCCTGGCTGAATAAAAA 60.047 36.000 30.80 22.02 41.71 1.94
601 616 4.465660 TGCATTTAGCCTGGCTGAATAAAA 59.534 37.500 30.80 22.64 41.71 1.52
602 617 4.022603 TGCATTTAGCCTGGCTGAATAAA 58.977 39.130 30.80 22.96 41.71 1.40
603 618 3.630168 TGCATTTAGCCTGGCTGAATAA 58.370 40.909 30.80 21.67 41.71 1.40
604 619 3.295585 TGCATTTAGCCTGGCTGAATA 57.704 42.857 30.80 18.29 41.71 1.75
605 620 2.148446 TGCATTTAGCCTGGCTGAAT 57.852 45.000 30.83 28.94 43.84 2.57
606 621 1.921982 TTGCATTTAGCCTGGCTGAA 58.078 45.000 30.83 28.03 44.83 3.02
607 622 2.148446 ATTGCATTTAGCCTGGCTGA 57.852 45.000 30.83 20.85 44.83 4.26
608 623 3.216800 TCTATTGCATTTAGCCTGGCTG 58.783 45.455 30.83 16.00 44.83 4.85
609 624 3.137176 TCTCTATTGCATTTAGCCTGGCT 59.863 43.478 26.52 26.52 44.83 4.75
610 625 3.480470 TCTCTATTGCATTTAGCCTGGC 58.520 45.455 11.65 11.65 44.83 4.85
611 626 6.263842 TGAAATCTCTATTGCATTTAGCCTGG 59.736 38.462 0.00 0.00 44.83 4.45
612 627 7.268199 TGAAATCTCTATTGCATTTAGCCTG 57.732 36.000 0.00 0.00 44.83 4.85
613 628 7.201857 GGTTGAAATCTCTATTGCATTTAGCCT 60.202 37.037 0.00 0.00 44.83 4.58
614 629 6.920210 GGTTGAAATCTCTATTGCATTTAGCC 59.080 38.462 0.00 0.00 44.83 3.93
615 630 7.483307 TGGTTGAAATCTCTATTGCATTTAGC 58.517 34.615 0.00 0.00 45.96 3.09
616 631 9.859427 TTTGGTTGAAATCTCTATTGCATTTAG 57.141 29.630 0.00 0.00 30.37 1.85
617 632 9.638239 GTTTGGTTGAAATCTCTATTGCATTTA 57.362 29.630 0.00 0.00 30.37 1.40
618 633 7.329226 CGTTTGGTTGAAATCTCTATTGCATTT 59.671 33.333 0.00 0.00 30.37 2.32
619 634 6.808212 CGTTTGGTTGAAATCTCTATTGCATT 59.192 34.615 0.00 0.00 30.37 3.56
620 635 6.324819 CGTTTGGTTGAAATCTCTATTGCAT 58.675 36.000 0.00 0.00 30.37 3.96
621 636 5.698832 CGTTTGGTTGAAATCTCTATTGCA 58.301 37.500 0.00 0.00 0.00 4.08
622 637 4.558860 GCGTTTGGTTGAAATCTCTATTGC 59.441 41.667 0.00 0.00 0.00 3.56
623 638 5.569059 GTGCGTTTGGTTGAAATCTCTATTG 59.431 40.000 0.00 0.00 0.00 1.90
624 639 5.335661 GGTGCGTTTGGTTGAAATCTCTATT 60.336 40.000 0.00 0.00 0.00 1.73
625 640 4.156008 GGTGCGTTTGGTTGAAATCTCTAT 59.844 41.667 0.00 0.00 0.00 1.98
626 641 3.500680 GGTGCGTTTGGTTGAAATCTCTA 59.499 43.478 0.00 0.00 0.00 2.43
627 642 2.293399 GGTGCGTTTGGTTGAAATCTCT 59.707 45.455 0.00 0.00 0.00 3.10
628 643 2.607038 GGGTGCGTTTGGTTGAAATCTC 60.607 50.000 0.00 0.00 0.00 2.75
629 644 1.339929 GGGTGCGTTTGGTTGAAATCT 59.660 47.619 0.00 0.00 0.00 2.40
630 645 1.067821 TGGGTGCGTTTGGTTGAAATC 59.932 47.619 0.00 0.00 0.00 2.17
631 646 1.115467 TGGGTGCGTTTGGTTGAAAT 58.885 45.000 0.00 0.00 0.00 2.17
632 647 1.115467 ATGGGTGCGTTTGGTTGAAA 58.885 45.000 0.00 0.00 0.00 2.69
633 648 1.115467 AATGGGTGCGTTTGGTTGAA 58.885 45.000 0.00 0.00 0.00 2.69
634 649 1.067821 GAAATGGGTGCGTTTGGTTGA 59.932 47.619 0.00 0.00 0.00 3.18
635 650 1.496934 GAAATGGGTGCGTTTGGTTG 58.503 50.000 0.00 0.00 0.00 3.77
636 651 0.031449 CGAAATGGGTGCGTTTGGTT 59.969 50.000 0.00 0.00 0.00 3.67
637 652 1.104577 ACGAAATGGGTGCGTTTGGT 61.105 50.000 0.00 0.00 34.12 3.67
638 653 0.031449 AACGAAATGGGTGCGTTTGG 59.969 50.000 0.00 0.00 44.77 3.28
639 654 3.560826 AACGAAATGGGTGCGTTTG 57.439 47.368 0.00 0.00 44.77 2.93
642 657 0.309612 GTGAAACGAAATGGGTGCGT 59.690 50.000 0.00 0.00 40.35 5.24
646 661 1.810151 CCGATGTGAAACGAAATGGGT 59.190 47.619 0.00 0.00 42.39 4.51
653 668 2.046700 GGCCCCGATGTGAAACGA 60.047 61.111 0.00 0.00 42.39 3.85
662 677 2.302517 ATTTGCATCCAGGCCCCGAT 62.303 55.000 0.00 0.00 0.00 4.18
680 700 1.202758 TCTTCCTGCCGTGTCAACAAT 60.203 47.619 0.00 0.00 0.00 2.71
685 705 0.531974 GTTGTCTTCCTGCCGTGTCA 60.532 55.000 0.00 0.00 0.00 3.58
703 724 4.129737 CGGATCGTGGAGGCGTGT 62.130 66.667 0.00 0.00 0.00 4.49
721 742 0.991355 TTGGTCCAAGGGGTGTCACT 60.991 55.000 0.00 0.00 34.93 3.41
751 772 1.537889 ATCCGTGGGAGGTGGTTCA 60.538 57.895 0.00 0.00 34.05 3.18
777 799 2.202743 TTGGGATCGAGCTTCGCG 60.203 61.111 0.00 0.00 40.21 5.87
778 800 2.174319 GGTTGGGATCGAGCTTCGC 61.174 63.158 0.00 0.00 40.21 4.70
783 806 2.202892 GGACGGTTGGGATCGAGC 60.203 66.667 0.00 0.00 0.00 5.03
820 844 3.728373 GGGAAGGTGGGCGTGGAT 61.728 66.667 0.00 0.00 0.00 3.41
838 864 1.065551 GTGAGCTTTGCCTTTTCGTGT 59.934 47.619 0.00 0.00 0.00 4.49
840 870 0.307760 CGTGAGCTTTGCCTTTTCGT 59.692 50.000 0.00 0.00 0.00 3.85
925 973 4.537688 TGGATTGGAGTGAGGAAGAAGAAT 59.462 41.667 0.00 0.00 0.00 2.40
955 1003 4.068599 GTTCAGAAGGAGGAGAAGGTTTG 58.931 47.826 0.00 0.00 0.00 2.93
956 1004 3.073209 GGTTCAGAAGGAGGAGAAGGTTT 59.927 47.826 0.00 0.00 0.00 3.27
962 1013 1.273324 GGGAGGTTCAGAAGGAGGAGA 60.273 57.143 0.00 0.00 0.00 3.71
965 1016 1.901085 CGGGAGGTTCAGAAGGAGG 59.099 63.158 0.00 0.00 0.00 4.30
1614 1728 3.490896 CACGATAGGGTGAATCACATTCG 59.509 47.826 15.86 17.20 40.90 3.34
1629 1743 7.099764 AGTTGGGATAATAGAATGCACGATAG 58.900 38.462 0.00 0.00 46.19 2.08
1695 1811 8.840867 CATAGTTTAAGCTAAAAAGTTGAAGCG 58.159 33.333 2.95 0.00 39.94 4.68
1735 1858 8.391106 AGCAAAATTACTACTGATGACGAAATC 58.609 33.333 0.00 0.00 0.00 2.17
1842 2015 4.395231 GGGTTATTTACAACAGTCAGGAGC 59.605 45.833 0.00 0.00 0.00 4.70
1889 2065 4.157289 TCGTCTATATCCTGATTTACCCGC 59.843 45.833 0.00 0.00 0.00 6.13
1957 2133 8.869897 CGACAACAAATATGATACAGTTGTACT 58.130 33.333 14.82 0.00 46.48 2.73
2083 2281 4.396166 CCAACATATGTTCACCTTCCTGAC 59.604 45.833 18.25 0.00 35.83 3.51
2136 2344 4.374689 TCTCTTCCGCTACAGGATATCT 57.625 45.455 2.05 0.00 40.48 1.98
2161 2369 8.599774 CCTCTTTCGCTAATTTTCAAACAAAAA 58.400 29.630 0.00 0.00 32.99 1.94
2162 2370 7.976734 TCCTCTTTCGCTAATTTTCAAACAAAA 59.023 29.630 0.00 0.00 0.00 2.44
2163 2371 7.484975 TCCTCTTTCGCTAATTTTCAAACAAA 58.515 30.769 0.00 0.00 0.00 2.83
2164 2372 7.033530 TCCTCTTTCGCTAATTTTCAAACAA 57.966 32.000 0.00 0.00 0.00 2.83
2165 2373 6.627395 TCCTCTTTCGCTAATTTTCAAACA 57.373 33.333 0.00 0.00 0.00 2.83
2166 2374 9.788960 ATAATCCTCTTTCGCTAATTTTCAAAC 57.211 29.630 0.00 0.00 0.00 2.93
2169 2377 9.832445 ACTATAATCCTCTTTCGCTAATTTTCA 57.168 29.630 0.00 0.00 0.00 2.69
2173 2381 9.614792 ACAAACTATAATCCTCTTTCGCTAATT 57.385 29.630 0.00 0.00 0.00 1.40
2174 2382 9.262358 GACAAACTATAATCCTCTTTCGCTAAT 57.738 33.333 0.00 0.00 0.00 1.73
2175 2383 8.475639 AGACAAACTATAATCCTCTTTCGCTAA 58.524 33.333 0.00 0.00 0.00 3.09
2176 2384 8.008513 AGACAAACTATAATCCTCTTTCGCTA 57.991 34.615 0.00 0.00 0.00 4.26
2177 2385 6.879400 AGACAAACTATAATCCTCTTTCGCT 58.121 36.000 0.00 0.00 0.00 4.93
2178 2386 8.819643 ATAGACAAACTATAATCCTCTTTCGC 57.180 34.615 0.00 0.00 39.70 4.70
2206 2416 6.832384 AGCATTATGGACAAGATCAAAGACAT 59.168 34.615 0.00 0.00 0.00 3.06
2247 2457 5.771153 TCTTCATTGCATTCAACAAGACA 57.229 34.783 0.00 0.00 33.14 3.41
2248 2458 6.211515 AGTTCTTCATTGCATTCAACAAGAC 58.788 36.000 0.00 0.17 35.67 3.01
2264 2488 6.560003 TGGCTAGGATTTCATAGTTCTTCA 57.440 37.500 1.72 0.00 33.20 3.02
2344 2572 9.274206 GATCTTAAGACAGGTAAGAACAAAACT 57.726 33.333 7.48 0.00 40.15 2.66
2345 2573 8.504815 GGATCTTAAGACAGGTAAGAACAAAAC 58.495 37.037 7.48 0.00 40.15 2.43
2355 2583 6.061022 TGCAAATGGATCTTAAGACAGGTA 57.939 37.500 7.48 0.00 0.00 3.08
2378 2606 3.053842 ACCAGATGCCAACAGAATCATCT 60.054 43.478 0.00 0.00 44.44 2.90
2379 2607 3.285484 ACCAGATGCCAACAGAATCATC 58.715 45.455 0.00 0.00 36.49 2.92


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

AutoCloner maintained by Alex Coulton.