Multiple sequence alignment - TraesCS2A01G114600

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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 TraesCS2A01G114600 chr2A 100.000 2306 0 0 1 2306 65476992 65474687 0.000000e+00 4259.0
1 TraesCS2A01G114600 chr2A 92.915 621 18 12 1697 2306 655772786 655772181 0.000000e+00 880.0
2 TraesCS2A01G114600 chr2A 91.817 611 36 10 1698 2306 634875411 634876009 0.000000e+00 839.0
3 TraesCS2A01G114600 chr2A 91.080 213 18 1 406 617 535728471 535728259 1.040000e-73 287.0
4 TraesCS2A01G114600 chr2D 90.370 1028 67 18 602 1613 64015578 64014567 0.000000e+00 1321.0
5 TraesCS2A01G114600 chr2D 85.217 920 77 33 718 1587 63914157 63913247 0.000000e+00 891.0
6 TraesCS2A01G114600 chr2D 91.127 417 24 6 907 1318 64010895 64011303 9.310000e-154 553.0
7 TraesCS2A01G114600 chr2D 90.418 407 26 5 907 1306 63908526 63908926 7.300000e-145 523.0
8 TraesCS2A01G114600 chr2D 91.579 190 11 3 130 315 63914701 63914513 8.170000e-65 257.0
9 TraesCS2A01G114600 chr2D 90.909 187 15 2 130 315 64015863 64015678 1.370000e-62 250.0
10 TraesCS2A01G114600 chr2D 93.382 136 8 1 1 135 64016062 64015927 1.400000e-47 200.0
11 TraesCS2A01G114600 chr2D 87.786 131 13 3 593 721 63914424 63914295 1.430000e-32 150.0
12 TraesCS2A01G114600 chr2D 91.089 101 9 0 307 407 64015656 64015556 1.110000e-28 137.0
13 TraesCS2A01G114600 chr2B 88.707 1036 65 30 602 1609 100030583 100029572 0.000000e+00 1218.0
14 TraesCS2A01G114600 chr2B 91.089 404 26 5 907 1306 100024657 100025054 2.610000e-149 538.0
15 TraesCS2A01G114600 chr2B 90.995 211 18 1 408 617 33542711 33542921 1.350000e-72 283.0
16 TraesCS2A01G114600 chr2B 84.694 294 19 13 130 407 100030844 100030561 1.050000e-68 270.0
17 TraesCS2A01G114600 chr1A 98.200 611 10 1 1697 2306 23453245 23452635 0.000000e+00 1066.0
18 TraesCS2A01G114600 chr1A 90.026 391 34 4 1916 2306 510834520 510834905 3.420000e-138 501.0
19 TraesCS2A01G114600 chr1A 88.172 93 5 5 1609 1697 37395297 37395207 3.130000e-19 106.0
20 TraesCS2A01G114600 chr5A 96.880 609 19 0 1698 2306 619009013 619009621 0.000000e+00 1020.0
21 TraesCS2A01G114600 chr5A 87.879 132 15 1 5 135 41438237 41438106 1.100000e-33 154.0
22 TraesCS2A01G114600 chr4A 97.035 607 14 4 1702 2306 584387612 584387008 0.000000e+00 1018.0
23 TraesCS2A01G114600 chr4A 88.141 312 31 3 1000 1305 681178998 681178687 1.300000e-97 366.0
24 TraesCS2A01G114600 chr4A 91.509 212 14 4 408 616 620449223 620449013 2.900000e-74 289.0
25 TraesCS2A01G114600 chr4A 84.000 100 10 3 1598 1696 174806979 174807073 8.770000e-15 91.6
26 TraesCS2A01G114600 chr6A 94.272 611 19 12 1697 2306 64256803 64257398 0.000000e+00 920.0
27 TraesCS2A01G114600 chr6A 94.108 611 18 9 1697 2306 50186512 50185919 0.000000e+00 913.0
28 TraesCS2A01G114600 chr6A 93.607 610 22 10 1698 2306 5281857 5282450 0.000000e+00 894.0
29 TraesCS2A01G114600 chr6A 95.933 418 14 3 1693 2109 32239140 32239555 0.000000e+00 675.0
30 TraesCS2A01G114600 chr7A 91.909 618 32 14 1694 2306 12226981 12226377 0.000000e+00 848.0
31 TraesCS2A01G114600 chr7A 93.137 204 14 0 408 611 29267093 29266890 1.340000e-77 300.0
32 TraesCS2A01G114600 chr7A 91.469 211 17 1 408 617 300473083 300472873 2.900000e-74 289.0
33 TraesCS2A01G114600 chr4D 88.141 312 31 3 1000 1305 474918674 474918985 1.300000e-97 366.0
34 TraesCS2A01G114600 chr4D 89.247 93 5 2 1608 1696 66528129 66528220 6.730000e-21 111.0
35 TraesCS2A01G114600 chr4B 87.781 311 32 3 1001 1305 599356977 599356667 2.180000e-95 359.0
36 TraesCS2A01G114600 chr5B 92.453 212 13 3 408 616 227946625 227946414 1.340000e-77 300.0
37 TraesCS2A01G114600 chr5B 81.481 108 19 1 8 114 694151224 694151331 1.130000e-13 87.9
38 TraesCS2A01G114600 chr1B 91.204 216 17 2 403 616 513461536 513461751 2.240000e-75 292.0
39 TraesCS2A01G114600 chr3A 91.509 212 16 2 407 616 564426575 564426364 8.060000e-75 291.0
40 TraesCS2A01G114600 chr3A 91.080 213 17 2 406 616 522180744 522180532 1.040000e-73 287.0
41 TraesCS2A01G114600 chr7B 91.270 126 10 1 5 129 698864877 698865002 1.100000e-38 171.0
42 TraesCS2A01G114600 chr7B 87.629 97 7 5 1602 1696 3885524 3885431 8.710000e-20 108.0
43 TraesCS2A01G114600 chr6B 90.476 126 11 1 5 129 640868549 640868674 5.100000e-37 165.0
44 TraesCS2A01G114600 chr3D 90.164 122 11 1 15 135 36632373 36632252 8.530000e-35 158.0
45 TraesCS2A01G114600 chr3B 87.597 129 13 3 15 140 59238908 59238780 1.850000e-31 147.0
46 TraesCS2A01G114600 chr3B 88.525 122 11 2 15 135 59238485 59238366 6.640000e-31 145.0
47 TraesCS2A01G114600 chr6D 85.345 116 16 1 7 121 418280096 418280211 4.020000e-23 119.0


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 TraesCS2A01G114600 chr2A 65474687 65476992 2305 True 4259.000000 4259 100.0000 1 2306 1 chr2A.!!$R1 2305
1 TraesCS2A01G114600 chr2A 655772181 655772786 605 True 880.000000 880 92.9150 1697 2306 1 chr2A.!!$R3 609
2 TraesCS2A01G114600 chr2A 634875411 634876009 598 False 839.000000 839 91.8170 1698 2306 1 chr2A.!!$F1 608
3 TraesCS2A01G114600 chr2D 64014567 64016062 1495 True 477.000000 1321 91.4375 1 1613 4 chr2D.!!$R2 1612
4 TraesCS2A01G114600 chr2D 63913247 63914701 1454 True 432.666667 891 88.1940 130 1587 3 chr2D.!!$R1 1457
5 TraesCS2A01G114600 chr2B 100029572 100030844 1272 True 744.000000 1218 86.7005 130 1609 2 chr2B.!!$R1 1479
6 TraesCS2A01G114600 chr1A 23452635 23453245 610 True 1066.000000 1066 98.2000 1697 2306 1 chr1A.!!$R1 609
7 TraesCS2A01G114600 chr5A 619009013 619009621 608 False 1020.000000 1020 96.8800 1698 2306 1 chr5A.!!$F1 608
8 TraesCS2A01G114600 chr4A 584387008 584387612 604 True 1018.000000 1018 97.0350 1702 2306 1 chr4A.!!$R1 604
9 TraesCS2A01G114600 chr6A 64256803 64257398 595 False 920.000000 920 94.2720 1697 2306 1 chr6A.!!$F3 609
10 TraesCS2A01G114600 chr6A 50185919 50186512 593 True 913.000000 913 94.1080 1697 2306 1 chr6A.!!$R1 609
11 TraesCS2A01G114600 chr6A 5281857 5282450 593 False 894.000000 894 93.6070 1698 2306 1 chr6A.!!$F1 608
12 TraesCS2A01G114600 chr7A 12226377 12226981 604 True 848.000000 848 91.9090 1694 2306 1 chr7A.!!$R1 612

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
509 613 0.105709 CCGGCCCCATCCCTTAAAAT 60.106 55.0 0.0 0.0 0.0 1.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1614 1919 0.037017 CCCACAACAACGGGGTATCA 59.963 55.0 0.0 0.0 38.95 2.15 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
224 296 9.426837 CAACAACATAATTGGATCAGAACAAAT 57.573 29.630 0.00 0.00 0.00 2.32
364 468 5.313712 TCAAACTTCTAGCCCACTTTAAGG 58.686 41.667 0.00 0.00 0.00 2.69
366 470 6.043474 TCAAACTTCTAGCCCACTTTAAGGTA 59.957 38.462 0.00 0.00 0.00 3.08
381 485 6.655425 ACTTTAAGGTAAAGATTGGAGTGAGC 59.345 38.462 13.33 0.00 46.19 4.26
384 488 3.054802 AGGTAAAGATTGGAGTGAGCCTG 60.055 47.826 0.00 0.00 0.00 4.85
414 518 2.754658 GGAGGAAGCCGGACGAGA 60.755 66.667 5.05 0.00 0.00 4.04
415 519 2.490685 GAGGAAGCCGGACGAGAC 59.509 66.667 5.05 0.00 0.00 3.36
416 520 2.035940 AGGAAGCCGGACGAGACT 59.964 61.111 5.05 0.00 0.00 3.24
417 521 1.596895 GAGGAAGCCGGACGAGACTT 61.597 60.000 5.05 0.00 0.00 3.01
418 522 1.446272 GGAAGCCGGACGAGACTTG 60.446 63.158 5.05 0.00 0.00 3.16
419 523 2.048127 AAGCCGGACGAGACTTGC 60.048 61.111 5.05 0.00 0.00 4.01
420 524 3.591254 AAGCCGGACGAGACTTGCC 62.591 63.158 5.05 0.00 0.00 4.52
421 525 4.070552 GCCGGACGAGACTTGCCT 62.071 66.667 5.05 0.00 0.00 4.75
422 526 2.125912 CCGGACGAGACTTGCCTG 60.126 66.667 0.00 0.00 0.00 4.85
423 527 2.811317 CGGACGAGACTTGCCTGC 60.811 66.667 0.00 0.00 0.00 4.85
424 528 2.659610 GGACGAGACTTGCCTGCT 59.340 61.111 0.00 0.00 0.00 4.24
425 529 1.446966 GGACGAGACTTGCCTGCTC 60.447 63.158 0.00 0.00 0.00 4.26
426 530 1.446966 GACGAGACTTGCCTGCTCC 60.447 63.158 0.00 0.00 0.00 4.70
427 531 2.125350 CGAGACTTGCCTGCTCCC 60.125 66.667 0.00 0.00 0.00 4.30
428 532 2.270527 GAGACTTGCCTGCTCCCC 59.729 66.667 0.00 0.00 0.00 4.81
429 533 3.334054 AGACTTGCCTGCTCCCCC 61.334 66.667 0.00 0.00 0.00 5.40
447 551 3.928769 CGCGTGCATCCATCCGTG 61.929 66.667 0.00 0.00 0.00 4.94
448 552 4.241999 GCGTGCATCCATCCGTGC 62.242 66.667 0.00 0.00 41.61 5.34
449 553 2.512286 CGTGCATCCATCCGTGCT 60.512 61.111 0.00 0.00 41.78 4.40
450 554 2.528743 CGTGCATCCATCCGTGCTC 61.529 63.158 0.00 0.00 41.78 4.26
451 555 2.182842 GTGCATCCATCCGTGCTCC 61.183 63.158 0.00 0.00 41.78 4.70
452 556 2.592861 GCATCCATCCGTGCTCCC 60.593 66.667 0.00 0.00 38.30 4.30
453 557 2.280389 CATCCATCCGTGCTCCCG 60.280 66.667 0.00 0.00 0.00 5.14
454 558 4.241555 ATCCATCCGTGCTCCCGC 62.242 66.667 0.00 0.00 0.00 6.13
463 567 4.830765 TGCTCCCGCATACGTGGC 62.831 66.667 0.00 0.21 42.25 5.01
464 568 4.830765 GCTCCCGCATACGTGGCA 62.831 66.667 13.38 0.00 41.87 4.92
465 569 2.108976 CTCCCGCATACGTGGCAT 59.891 61.111 13.38 0.00 41.87 4.40
466 570 1.365999 CTCCCGCATACGTGGCATA 59.634 57.895 13.38 0.00 41.87 3.14
467 571 0.249699 CTCCCGCATACGTGGCATAA 60.250 55.000 13.38 0.00 41.87 1.90
468 572 0.394938 TCCCGCATACGTGGCATAAT 59.605 50.000 13.38 0.00 41.87 1.28
469 573 1.202710 TCCCGCATACGTGGCATAATT 60.203 47.619 13.38 0.00 41.87 1.40
470 574 1.606668 CCCGCATACGTGGCATAATTT 59.393 47.619 13.38 0.00 41.87 1.82
471 575 2.809119 CCCGCATACGTGGCATAATTTA 59.191 45.455 13.38 0.00 41.87 1.40
472 576 3.251245 CCCGCATACGTGGCATAATTTAA 59.749 43.478 13.38 0.00 41.87 1.52
473 577 4.083003 CCCGCATACGTGGCATAATTTAAT 60.083 41.667 13.38 0.00 41.87 1.40
474 578 5.457140 CCGCATACGTGGCATAATTTAATT 58.543 37.500 13.38 0.00 35.59 1.40
475 579 5.341993 CCGCATACGTGGCATAATTTAATTG 59.658 40.000 13.38 0.00 35.59 2.32
476 580 5.341993 CGCATACGTGGCATAATTTAATTGG 59.658 40.000 13.38 0.00 33.53 3.16
477 581 6.442952 GCATACGTGGCATAATTTAATTGGA 58.557 36.000 0.00 0.00 0.00 3.53
478 582 6.920758 GCATACGTGGCATAATTTAATTGGAA 59.079 34.615 0.00 0.00 0.00 3.53
479 583 7.598493 GCATACGTGGCATAATTTAATTGGAAT 59.402 33.333 0.00 0.00 0.00 3.01
483 587 9.877178 ACGTGGCATAATTTAATTGGAATAAAA 57.123 25.926 0.00 0.00 0.00 1.52
492 596 9.554395 AATTTAATTGGAATAAAATAAGGCCCG 57.446 29.630 0.00 0.00 0.00 6.13
493 597 5.545063 AATTGGAATAAAATAAGGCCCGG 57.455 39.130 0.00 0.00 0.00 5.73
494 598 2.312390 TGGAATAAAATAAGGCCCGGC 58.688 47.619 0.00 0.00 0.00 6.13
506 610 3.100514 CCCGGCCCCATCCCTTAA 61.101 66.667 0.00 0.00 0.00 1.85
507 611 2.695970 CCCGGCCCCATCCCTTAAA 61.696 63.158 0.00 0.00 0.00 1.52
508 612 1.308326 CCGGCCCCATCCCTTAAAA 59.692 57.895 0.00 0.00 0.00 1.52
509 613 0.105709 CCGGCCCCATCCCTTAAAAT 60.106 55.000 0.00 0.00 0.00 1.82
510 614 1.691163 CCGGCCCCATCCCTTAAAATT 60.691 52.381 0.00 0.00 0.00 1.82
511 615 2.425102 CCGGCCCCATCCCTTAAAATTA 60.425 50.000 0.00 0.00 0.00 1.40
512 616 2.890945 CGGCCCCATCCCTTAAAATTAG 59.109 50.000 0.00 0.00 0.00 1.73
513 617 3.239449 GGCCCCATCCCTTAAAATTAGG 58.761 50.000 0.00 0.00 0.00 2.69
537 641 7.560796 GGGGGAGATGATTAGATTAGAAAGA 57.439 40.000 0.00 0.00 0.00 2.52
538 642 7.978925 GGGGGAGATGATTAGATTAGAAAGAA 58.021 38.462 0.00 0.00 0.00 2.52
539 643 8.440771 GGGGGAGATGATTAGATTAGAAAGAAA 58.559 37.037 0.00 0.00 0.00 2.52
540 644 9.853177 GGGGAGATGATTAGATTAGAAAGAAAA 57.147 33.333 0.00 0.00 0.00 2.29
575 679 3.669354 CGTAGGATGAAGTGGGAGC 57.331 57.895 0.00 0.00 0.00 4.70
576 680 0.824109 CGTAGGATGAAGTGGGAGCA 59.176 55.000 0.00 0.00 0.00 4.26
577 681 1.471676 CGTAGGATGAAGTGGGAGCAC 60.472 57.143 0.00 0.00 0.00 4.40
578 682 0.824109 TAGGATGAAGTGGGAGCACG 59.176 55.000 0.00 0.00 0.00 5.34
579 683 1.450312 GGATGAAGTGGGAGCACGG 60.450 63.158 0.00 0.00 0.00 4.94
580 684 1.596934 GATGAAGTGGGAGCACGGA 59.403 57.895 0.00 0.00 0.00 4.69
581 685 0.179000 GATGAAGTGGGAGCACGGAT 59.821 55.000 0.00 0.00 0.00 4.18
582 686 0.107508 ATGAAGTGGGAGCACGGATG 60.108 55.000 0.00 0.00 0.00 3.51
583 687 1.450312 GAAGTGGGAGCACGGATGG 60.450 63.158 0.00 0.00 0.00 3.51
584 688 1.899437 GAAGTGGGAGCACGGATGGA 61.899 60.000 0.00 0.00 0.00 3.41
585 689 1.488705 AAGTGGGAGCACGGATGGAA 61.489 55.000 0.00 0.00 0.00 3.53
586 690 1.450312 GTGGGAGCACGGATGGAAG 60.450 63.158 0.00 0.00 0.00 3.46
587 691 2.514824 GGGAGCACGGATGGAAGC 60.515 66.667 0.00 0.00 0.00 3.86
588 692 2.268920 GGAGCACGGATGGAAGCA 59.731 61.111 0.00 0.00 0.00 3.91
589 693 1.153086 GGAGCACGGATGGAAGCAT 60.153 57.895 0.00 0.00 0.00 3.79
590 694 1.442526 GGAGCACGGATGGAAGCATG 61.443 60.000 0.00 0.00 0.00 4.06
591 695 0.462581 GAGCACGGATGGAAGCATGA 60.463 55.000 0.00 0.00 0.00 3.07
592 696 0.463295 AGCACGGATGGAAGCATGAG 60.463 55.000 0.00 0.00 0.00 2.90
593 697 1.442526 GCACGGATGGAAGCATGAGG 61.443 60.000 0.00 0.00 0.00 3.86
594 698 0.178767 CACGGATGGAAGCATGAGGA 59.821 55.000 0.00 0.00 0.00 3.71
595 699 0.467384 ACGGATGGAAGCATGAGGAG 59.533 55.000 0.00 0.00 0.00 3.69
596 700 0.250209 CGGATGGAAGCATGAGGAGG 60.250 60.000 0.00 0.00 0.00 4.30
597 701 0.110104 GGATGGAAGCATGAGGAGGG 59.890 60.000 0.00 0.00 0.00 4.30
598 702 1.135094 GATGGAAGCATGAGGAGGGA 58.865 55.000 0.00 0.00 0.00 4.20
599 703 1.072015 GATGGAAGCATGAGGAGGGAG 59.928 57.143 0.00 0.00 0.00 4.30
600 704 1.148048 GGAAGCATGAGGAGGGAGC 59.852 63.158 0.00 0.00 0.00 4.70
601 705 1.630126 GGAAGCATGAGGAGGGAGCA 61.630 60.000 0.00 0.00 0.00 4.26
602 706 0.179051 GAAGCATGAGGAGGGAGCAG 60.179 60.000 0.00 0.00 0.00 4.24
603 707 0.913451 AAGCATGAGGAGGGAGCAGT 60.913 55.000 0.00 0.00 0.00 4.40
604 708 1.145819 GCATGAGGAGGGAGCAGTC 59.854 63.158 0.00 0.00 0.00 3.51
605 709 1.620739 GCATGAGGAGGGAGCAGTCA 61.621 60.000 0.00 0.00 0.00 3.41
606 710 0.907486 CATGAGGAGGGAGCAGTCAA 59.093 55.000 0.00 0.00 0.00 3.18
607 711 1.134461 CATGAGGAGGGAGCAGTCAAG 60.134 57.143 0.00 0.00 0.00 3.02
608 712 1.220477 GAGGAGGGAGCAGTCAAGC 59.780 63.158 0.00 0.00 0.00 4.01
609 713 2.250741 GAGGAGGGAGCAGTCAAGCC 62.251 65.000 0.00 0.00 34.23 4.35
610 714 2.125350 GAGGGAGCAGTCAAGCCG 60.125 66.667 0.00 0.00 34.23 5.52
611 715 3.672295 GAGGGAGCAGTCAAGCCGG 62.672 68.421 0.00 0.00 34.23 6.13
612 716 3.706373 GGGAGCAGTCAAGCCGGA 61.706 66.667 5.05 0.00 34.23 5.14
613 717 2.586792 GGAGCAGTCAAGCCGGAT 59.413 61.111 5.05 0.00 34.23 4.18
614 718 1.522580 GGAGCAGTCAAGCCGGATC 60.523 63.158 5.05 0.00 34.23 3.36
615 719 1.522580 GAGCAGTCAAGCCGGATCC 60.523 63.158 5.05 0.00 34.23 3.36
616 720 2.892425 GCAGTCAAGCCGGATCCG 60.892 66.667 27.65 27.65 39.44 4.18
617 721 2.892640 CAGTCAAGCCGGATCCGA 59.107 61.111 35.42 12.46 42.83 4.55
618 722 1.227089 CAGTCAAGCCGGATCCGAG 60.227 63.158 35.42 24.46 42.83 4.63
619 723 1.379977 AGTCAAGCCGGATCCGAGA 60.380 57.895 35.42 22.25 42.83 4.04
620 724 0.970937 AGTCAAGCCGGATCCGAGAA 60.971 55.000 35.42 12.69 42.83 2.87
621 725 0.108329 GTCAAGCCGGATCCGAGAAA 60.108 55.000 35.42 13.42 42.83 2.52
622 726 0.175760 TCAAGCCGGATCCGAGAAAG 59.824 55.000 35.42 18.77 42.83 2.62
623 727 1.153349 AAGCCGGATCCGAGAAAGC 60.153 57.895 35.42 27.16 42.83 3.51
624 728 2.589159 GCCGGATCCGAGAAAGCC 60.589 66.667 35.42 10.32 42.83 4.35
628 732 1.676678 CGGATCCGAGAAAGCCCTCA 61.677 60.000 30.62 0.00 42.83 3.86
766 1012 3.874543 AGAACAAATGTACGTTGCTGTCA 59.125 39.130 0.00 0.00 0.00 3.58
793 1039 7.549842 TCGAATACCGAAACATCAAGGAATTAA 59.450 33.333 0.00 0.00 45.43 1.40
794 1040 7.638683 CGAATACCGAAACATCAAGGAATTAAC 59.361 37.037 0.00 0.00 41.76 2.01
795 1041 7.931578 ATACCGAAACATCAAGGAATTAACA 57.068 32.000 0.00 0.00 0.00 2.41
797 1043 5.048294 ACCGAAACATCAAGGAATTAACACC 60.048 40.000 0.00 0.00 0.00 4.16
799 1045 6.442952 CGAAACATCAAGGAATTAACACCAA 58.557 36.000 3.18 0.00 0.00 3.67
800 1046 7.090173 CGAAACATCAAGGAATTAACACCAAT 58.910 34.615 3.18 0.00 0.00 3.16
801 1047 8.240682 CGAAACATCAAGGAATTAACACCAATA 58.759 33.333 3.18 0.00 0.00 1.90
870 1134 2.025767 CTCTCAGTGCTCCCCATCCG 62.026 65.000 0.00 0.00 0.00 4.18
871 1135 3.083349 TCAGTGCTCCCCATCCGG 61.083 66.667 0.00 0.00 0.00 5.14
872 1136 4.864334 CAGTGCTCCCCATCCGGC 62.864 72.222 0.00 0.00 0.00 6.13
874 1138 4.195334 GTGCTCCCCATCCGGCAT 62.195 66.667 0.00 0.00 37.05 4.40
875 1139 3.877450 TGCTCCCCATCCGGCATC 61.877 66.667 0.00 0.00 0.00 3.91
876 1140 4.650377 GCTCCCCATCCGGCATCC 62.650 72.222 0.00 0.00 0.00 3.51
970 1267 1.963172 TCGATCGAAGGTAGCTAGCA 58.037 50.000 24.01 4.44 0.00 3.49
982 1279 4.403113 AGGTAGCTAGCAAGTAAGGAAGAC 59.597 45.833 24.01 0.00 0.00 3.01
1284 1582 2.372690 CGTCAAGAACCGCGACCAG 61.373 63.158 8.23 0.00 0.00 4.00
1357 1655 6.928348 TCCTATTCTAGCCGGATAAATTCA 57.072 37.500 5.05 0.00 0.00 2.57
1434 1739 5.411361 ACGATTATGCATGTGTTGTACTGTT 59.589 36.000 10.16 0.00 0.00 3.16
1461 1766 6.394809 TGTGTGATGTAGTATGTAACTGTGG 58.605 40.000 0.00 0.00 39.39 4.17
1466 1771 3.449737 TGTAGTATGTAACTGTGGGCCTC 59.550 47.826 4.53 0.49 39.39 4.70
1475 1780 0.617413 CTGTGGGCCTCTGTCAGAAT 59.383 55.000 4.53 0.00 0.00 2.40
1484 1789 4.381411 GCCTCTGTCAGAATATGTAACCC 58.619 47.826 3.67 0.00 0.00 4.11
1502 1807 1.567537 CGTGTGCACTTAACGGTGG 59.432 57.895 19.41 0.00 37.65 4.61
1515 1820 8.066000 GCACTTAACGGTGGAAAATATATGTAC 58.934 37.037 0.00 0.00 37.65 2.90
1545 1850 6.069705 ACCGGGGTTTAAAATCTCTGATTA 57.930 37.500 6.32 0.00 0.00 1.75
1546 1851 6.486941 ACCGGGGTTTAAAATCTCTGATTAA 58.513 36.000 6.32 0.00 0.00 1.40
1559 1864 8.430801 AATCTCTGATTAAGAAACTTGGATCG 57.569 34.615 0.00 0.00 33.37 3.69
1562 1867 3.621268 TGATTAAGAAACTTGGATCGCCG 59.379 43.478 0.00 0.00 36.79 6.46
1563 1868 3.322211 TTAAGAAACTTGGATCGCCGA 57.678 42.857 0.00 0.00 36.79 5.54
1564 1869 2.178912 AAGAAACTTGGATCGCCGAA 57.821 45.000 0.00 0.00 36.79 4.30
1565 1870 2.178912 AGAAACTTGGATCGCCGAAA 57.821 45.000 0.00 0.00 36.79 3.46
1566 1871 2.711542 AGAAACTTGGATCGCCGAAAT 58.288 42.857 0.00 0.00 36.79 2.17
1568 1873 4.258543 AGAAACTTGGATCGCCGAAATAA 58.741 39.130 0.00 0.00 36.79 1.40
1569 1874 4.698304 AGAAACTTGGATCGCCGAAATAAA 59.302 37.500 0.00 0.00 36.79 1.40
1570 1875 5.357032 AGAAACTTGGATCGCCGAAATAAAT 59.643 36.000 0.00 0.00 36.79 1.40
1571 1876 5.576447 AACTTGGATCGCCGAAATAAATT 57.424 34.783 0.00 0.00 36.79 1.82
1572 1877 5.576447 ACTTGGATCGCCGAAATAAATTT 57.424 34.783 0.00 0.00 36.79 1.82
1573 1878 5.339990 ACTTGGATCGCCGAAATAAATTTG 58.660 37.500 0.00 0.00 36.79 2.32
1574 1879 4.974368 TGGATCGCCGAAATAAATTTGT 57.026 36.364 0.00 0.00 36.79 2.83
1575 1880 5.317733 TGGATCGCCGAAATAAATTTGTT 57.682 34.783 0.00 0.00 36.79 2.83
1576 1881 5.715070 TGGATCGCCGAAATAAATTTGTTT 58.285 33.333 12.14 12.14 36.79 2.83
1577 1882 6.159988 TGGATCGCCGAAATAAATTTGTTTT 58.840 32.000 13.31 7.35 36.79 2.43
1578 1883 7.313646 TGGATCGCCGAAATAAATTTGTTTTA 58.686 30.769 13.31 0.41 36.79 1.52
1579 1884 7.273815 TGGATCGCCGAAATAAATTTGTTTTAC 59.726 33.333 13.31 6.36 36.79 2.01
1580 1885 6.931243 TCGCCGAAATAAATTTGTTTTACC 57.069 33.333 13.31 1.93 32.71 2.85
1581 1886 6.444633 TCGCCGAAATAAATTTGTTTTACCA 58.555 32.000 13.31 0.00 32.71 3.25
1582 1887 6.921857 TCGCCGAAATAAATTTGTTTTACCAA 59.078 30.769 13.31 0.00 32.71 3.67
1583 1888 7.437267 TCGCCGAAATAAATTTGTTTTACCAAA 59.563 29.630 13.31 0.00 38.58 3.28
1584 1889 7.738176 CGCCGAAATAAATTTGTTTTACCAAAG 59.262 33.333 13.31 0.95 37.71 2.77
1585 1890 8.012809 GCCGAAATAAATTTGTTTTACCAAAGG 58.987 33.333 13.31 9.61 37.71 3.11
1586 1891 9.047371 CCGAAATAAATTTGTTTTACCAAAGGT 57.953 29.630 13.31 0.00 37.71 3.50
1590 1895 8.911918 ATAAATTTGTTTTACCAAAGGTTCCC 57.088 30.769 0.00 0.00 37.71 3.97
1591 1896 4.757019 TTTGTTTTACCAAAGGTTCCCC 57.243 40.909 0.00 0.00 37.09 4.81
1592 1897 2.680251 TGTTTTACCAAAGGTTCCCCC 58.320 47.619 0.00 0.00 37.09 5.40
1593 1898 1.614903 GTTTTACCAAAGGTTCCCCCG 59.385 52.381 0.00 0.00 37.09 5.73
1594 1899 0.540133 TTTACCAAAGGTTCCCCCGC 60.540 55.000 0.00 0.00 37.09 6.13
1595 1900 2.429235 TTACCAAAGGTTCCCCCGCC 62.429 60.000 0.00 0.00 37.09 6.13
1596 1901 3.979497 CCAAAGGTTCCCCCGCCT 61.979 66.667 0.00 0.00 38.74 5.52
1597 1902 2.361230 CAAAGGTTCCCCCGCCTC 60.361 66.667 0.00 0.00 38.74 4.70
1598 1903 2.856988 AAAGGTTCCCCCGCCTCA 60.857 61.111 0.00 0.00 38.74 3.86
1599 1904 2.238701 AAAGGTTCCCCCGCCTCAT 61.239 57.895 0.00 0.00 38.74 2.90
1600 1905 1.800229 AAAGGTTCCCCCGCCTCATT 61.800 55.000 0.00 0.00 38.74 2.57
1601 1906 1.800229 AAGGTTCCCCCGCCTCATTT 61.800 55.000 0.00 0.00 38.74 2.32
1602 1907 1.304962 GGTTCCCCCGCCTCATTTT 60.305 57.895 0.00 0.00 0.00 1.82
1603 1908 0.033894 GGTTCCCCCGCCTCATTTTA 60.034 55.000 0.00 0.00 0.00 1.52
1604 1909 1.411074 GGTTCCCCCGCCTCATTTTAT 60.411 52.381 0.00 0.00 0.00 1.40
1605 1910 2.384828 GTTCCCCCGCCTCATTTTATT 58.615 47.619 0.00 0.00 0.00 1.40
1606 1911 2.065899 TCCCCCGCCTCATTTTATTG 57.934 50.000 0.00 0.00 0.00 1.90
1607 1912 1.566703 TCCCCCGCCTCATTTTATTGA 59.433 47.619 0.00 0.00 0.00 2.57
1608 1913 2.024846 TCCCCCGCCTCATTTTATTGAA 60.025 45.455 0.00 0.00 0.00 2.69
1609 1914 2.100749 CCCCCGCCTCATTTTATTGAAC 59.899 50.000 0.00 0.00 0.00 3.18
1610 1915 3.023832 CCCCGCCTCATTTTATTGAACT 58.976 45.455 0.00 0.00 0.00 3.01
1611 1916 4.204012 CCCCGCCTCATTTTATTGAACTA 58.796 43.478 0.00 0.00 0.00 2.24
1612 1917 4.275936 CCCCGCCTCATTTTATTGAACTAG 59.724 45.833 0.00 0.00 0.00 2.57
1613 1918 5.123227 CCCGCCTCATTTTATTGAACTAGA 58.877 41.667 0.00 0.00 0.00 2.43
1614 1919 5.765182 CCCGCCTCATTTTATTGAACTAGAT 59.235 40.000 0.00 0.00 0.00 1.98
1615 1920 6.293626 CCCGCCTCATTTTATTGAACTAGATG 60.294 42.308 0.00 0.00 0.00 2.90
1616 1921 6.483307 CCGCCTCATTTTATTGAACTAGATGA 59.517 38.462 0.00 0.00 0.00 2.92
1617 1922 7.173907 CCGCCTCATTTTATTGAACTAGATGAT 59.826 37.037 0.00 0.00 0.00 2.45
1618 1923 9.208022 CGCCTCATTTTATTGAACTAGATGATA 57.792 33.333 0.00 0.00 0.00 2.15
1622 1927 9.793259 TCATTTTATTGAACTAGATGATACCCC 57.207 33.333 0.00 0.00 0.00 4.95
1623 1928 8.721478 CATTTTATTGAACTAGATGATACCCCG 58.279 37.037 0.00 0.00 0.00 5.73
1624 1929 6.989155 TTATTGAACTAGATGATACCCCGT 57.011 37.500 0.00 0.00 0.00 5.28
1625 1930 5.888982 ATTGAACTAGATGATACCCCGTT 57.111 39.130 0.00 0.00 0.00 4.44
1626 1931 4.665833 TGAACTAGATGATACCCCGTTG 57.334 45.455 0.00 0.00 0.00 4.10
1627 1932 4.028131 TGAACTAGATGATACCCCGTTGT 58.972 43.478 0.00 0.00 0.00 3.32
1628 1933 4.468510 TGAACTAGATGATACCCCGTTGTT 59.531 41.667 0.00 0.00 0.00 2.83
1629 1934 4.402056 ACTAGATGATACCCCGTTGTTG 57.598 45.455 0.00 0.00 0.00 3.33
1630 1935 3.773119 ACTAGATGATACCCCGTTGTTGT 59.227 43.478 0.00 0.00 0.00 3.32
1631 1936 2.985896 AGATGATACCCCGTTGTTGTG 58.014 47.619 0.00 0.00 0.00 3.33
1632 1937 2.014128 GATGATACCCCGTTGTTGTGG 58.986 52.381 0.00 0.00 0.00 4.17
1633 1938 0.037017 TGATACCCCGTTGTTGTGGG 59.963 55.000 0.00 0.00 45.58 4.61
1673 1978 8.862325 ATATTCAGTTAGAATTGGTTGTGTGA 57.138 30.769 0.00 0.00 44.48 3.58
1674 1979 7.581213 ATTCAGTTAGAATTGGTTGTGTGAA 57.419 32.000 0.00 0.00 44.48 3.18
1675 1980 7.397892 TTCAGTTAGAATTGGTTGTGTGAAA 57.602 32.000 0.00 0.00 0.00 2.69
1676 1981 6.791303 TCAGTTAGAATTGGTTGTGTGAAAC 58.209 36.000 0.00 0.00 37.35 2.78
1849 2156 2.049435 TCAGCGTTCTGAGGAAGCA 58.951 52.632 0.66 0.00 43.95 3.91
1938 2257 8.939929 CACTCTGCTATTTTATCTCTTTTCACA 58.060 33.333 0.00 0.00 0.00 3.58
2001 2320 3.522731 CTCTCAGGCCGACTCCCG 61.523 72.222 0.00 0.00 38.18 5.14
2028 2347 2.223200 CTGAGCAGCTCGCCTCTTCA 62.223 60.000 17.81 0.00 44.04 3.02
2192 2511 0.391661 ACGCATCGTCCAAATGCTCT 60.392 50.000 6.53 0.00 45.82 4.09
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
49 50 9.480053 AAACTACTTTTCATGTTGGATCAAATG 57.520 29.630 0.00 0.00 0.00 2.32
121 123 7.970614 GTGAAATCTTTAGGTTTAGCCAAGATG 59.029 37.037 2.43 0.00 38.38 2.90
175 247 8.352942 GTTGAGACAACTGAAAATTGTTCCTAT 58.647 33.333 7.28 0.00 40.36 2.57
364 468 3.274288 CCAGGCTCACTCCAATCTTTAC 58.726 50.000 0.00 0.00 0.00 2.01
366 470 1.707427 ACCAGGCTCACTCCAATCTTT 59.293 47.619 0.00 0.00 0.00 2.52
381 485 2.125269 CCGTCCGGCTTTACCAGG 60.125 66.667 0.00 0.00 39.03 4.45
384 488 1.891722 TTCCTCCGTCCGGCTTTACC 61.892 60.000 0.00 0.00 34.68 2.85
407 511 1.446966 GAGCAGGCAAGTCTCGTCC 60.447 63.158 0.00 0.00 0.00 4.79
408 512 1.446966 GGAGCAGGCAAGTCTCGTC 60.447 63.158 0.00 0.00 0.00 4.20
409 513 2.659610 GGAGCAGGCAAGTCTCGT 59.340 61.111 0.00 0.00 0.00 4.18
410 514 2.125350 GGGAGCAGGCAAGTCTCG 60.125 66.667 0.00 0.00 0.00 4.04
411 515 2.270527 GGGGAGCAGGCAAGTCTC 59.729 66.667 0.00 0.00 0.00 3.36
412 516 3.334054 GGGGGAGCAGGCAAGTCT 61.334 66.667 0.00 0.00 0.00 3.24
430 534 3.928769 CACGGATGGATGCACGCG 61.929 66.667 3.53 3.53 0.00 6.01
431 535 4.241999 GCACGGATGGATGCACGC 62.242 66.667 0.00 0.00 41.65 5.34
432 536 2.512286 AGCACGGATGGATGCACG 60.512 61.111 0.00 0.00 44.59 5.34
433 537 2.182842 GGAGCACGGATGGATGCAC 61.183 63.158 0.00 0.00 44.59 4.57
434 538 2.190313 GGAGCACGGATGGATGCA 59.810 61.111 0.00 0.00 44.59 3.96
435 539 2.592861 GGGAGCACGGATGGATGC 60.593 66.667 0.00 0.00 42.39 3.91
436 540 2.280389 CGGGAGCACGGATGGATG 60.280 66.667 0.00 0.00 0.00 3.51
448 552 0.249699 TTATGCCACGTATGCGGGAG 60.250 55.000 7.15 0.00 45.97 4.30
449 553 0.394938 ATTATGCCACGTATGCGGGA 59.605 50.000 7.15 0.00 45.97 5.14
450 554 1.234821 AATTATGCCACGTATGCGGG 58.765 50.000 8.39 2.48 43.45 6.13
451 555 4.475763 TTAAATTATGCCACGTATGCGG 57.524 40.909 8.39 0.00 43.45 5.69
452 556 5.341993 CCAATTAAATTATGCCACGTATGCG 59.658 40.000 0.19 0.19 44.93 4.73
453 557 6.442952 TCCAATTAAATTATGCCACGTATGC 58.557 36.000 2.46 2.46 0.00 3.14
457 561 9.877178 TTTTATTCCAATTAAATTATGCCACGT 57.123 25.926 0.00 0.00 0.00 4.49
466 570 9.554395 CGGGCCTTATTTTATTCCAATTAAATT 57.446 29.630 0.84 0.00 32.09 1.82
467 571 8.154203 CCGGGCCTTATTTTATTCCAATTAAAT 58.846 33.333 0.84 2.74 33.66 1.40
468 572 7.501844 CCGGGCCTTATTTTATTCCAATTAAA 58.498 34.615 0.84 0.00 0.00 1.52
469 573 6.463190 GCCGGGCCTTATTTTATTCCAATTAA 60.463 38.462 8.12 0.00 0.00 1.40
470 574 5.011227 GCCGGGCCTTATTTTATTCCAATTA 59.989 40.000 8.12 0.00 0.00 1.40
471 575 4.202315 GCCGGGCCTTATTTTATTCCAATT 60.202 41.667 8.12 0.00 0.00 2.32
472 576 3.323691 GCCGGGCCTTATTTTATTCCAAT 59.676 43.478 8.12 0.00 0.00 3.16
473 577 2.696187 GCCGGGCCTTATTTTATTCCAA 59.304 45.455 8.12 0.00 0.00 3.53
474 578 2.312390 GCCGGGCCTTATTTTATTCCA 58.688 47.619 8.12 0.00 0.00 3.53
475 579 1.616865 GGCCGGGCCTTATTTTATTCC 59.383 52.381 30.86 0.00 46.69 3.01
489 593 2.231540 TTTTAAGGGATGGGGCCGGG 62.232 60.000 2.18 0.00 0.00 5.73
490 594 0.105709 ATTTTAAGGGATGGGGCCGG 60.106 55.000 0.00 0.00 0.00 6.13
491 595 1.788229 AATTTTAAGGGATGGGGCCG 58.212 50.000 0.00 0.00 0.00 6.13
492 596 3.239449 CCTAATTTTAAGGGATGGGGCC 58.761 50.000 0.00 0.00 0.00 5.80
513 617 7.560796 TCTTTCTAATCTAATCATCTCCCCC 57.439 40.000 0.00 0.00 0.00 5.40
514 618 9.853177 TTTTCTTTCTAATCTAATCATCTCCCC 57.147 33.333 0.00 0.00 0.00 4.81
540 644 4.885325 TCCTACGGCTGTCTTTTTCTTTTT 59.115 37.500 0.00 0.00 0.00 1.94
541 645 4.457466 TCCTACGGCTGTCTTTTTCTTTT 58.543 39.130 0.00 0.00 0.00 2.27
542 646 4.081322 TCCTACGGCTGTCTTTTTCTTT 57.919 40.909 0.00 0.00 0.00 2.52
543 647 3.764237 TCCTACGGCTGTCTTTTTCTT 57.236 42.857 0.00 0.00 0.00 2.52
544 648 3.260884 TCATCCTACGGCTGTCTTTTTCT 59.739 43.478 0.00 0.00 0.00 2.52
545 649 3.596214 TCATCCTACGGCTGTCTTTTTC 58.404 45.455 0.00 0.00 0.00 2.29
546 650 3.695830 TCATCCTACGGCTGTCTTTTT 57.304 42.857 0.00 0.00 0.00 1.94
547 651 3.008049 ACTTCATCCTACGGCTGTCTTTT 59.992 43.478 0.00 0.00 0.00 2.27
548 652 2.567615 ACTTCATCCTACGGCTGTCTTT 59.432 45.455 0.00 0.00 0.00 2.52
549 653 2.093973 CACTTCATCCTACGGCTGTCTT 60.094 50.000 0.00 0.00 0.00 3.01
550 654 1.478510 CACTTCATCCTACGGCTGTCT 59.521 52.381 0.00 0.00 0.00 3.41
551 655 1.471676 CCACTTCATCCTACGGCTGTC 60.472 57.143 0.00 0.00 0.00 3.51
552 656 0.537188 CCACTTCATCCTACGGCTGT 59.463 55.000 2.42 2.42 0.00 4.40
553 657 0.179073 CCCACTTCATCCTACGGCTG 60.179 60.000 0.00 0.00 0.00 4.85
554 658 0.325296 TCCCACTTCATCCTACGGCT 60.325 55.000 0.00 0.00 0.00 5.52
555 659 0.105039 CTCCCACTTCATCCTACGGC 59.895 60.000 0.00 0.00 0.00 5.68
556 660 0.105039 GCTCCCACTTCATCCTACGG 59.895 60.000 0.00 0.00 0.00 4.02
557 661 0.824109 TGCTCCCACTTCATCCTACG 59.176 55.000 0.00 0.00 0.00 3.51
558 662 1.471676 CGTGCTCCCACTTCATCCTAC 60.472 57.143 0.00 0.00 39.86 3.18
559 663 0.824109 CGTGCTCCCACTTCATCCTA 59.176 55.000 0.00 0.00 39.86 2.94
560 664 1.599047 CGTGCTCCCACTTCATCCT 59.401 57.895 0.00 0.00 39.86 3.24
561 665 1.450312 CCGTGCTCCCACTTCATCC 60.450 63.158 0.00 0.00 39.86 3.51
562 666 0.179000 ATCCGTGCTCCCACTTCATC 59.821 55.000 0.00 0.00 39.86 2.92
563 667 0.107508 CATCCGTGCTCCCACTTCAT 60.108 55.000 0.00 0.00 39.86 2.57
564 668 1.296392 CATCCGTGCTCCCACTTCA 59.704 57.895 0.00 0.00 39.86 3.02
565 669 1.450312 CCATCCGTGCTCCCACTTC 60.450 63.158 0.00 0.00 39.86 3.01
566 670 1.488705 TTCCATCCGTGCTCCCACTT 61.489 55.000 0.00 0.00 39.86 3.16
567 671 1.903877 CTTCCATCCGTGCTCCCACT 61.904 60.000 0.00 0.00 39.86 4.00
568 672 1.450312 CTTCCATCCGTGCTCCCAC 60.450 63.158 0.00 0.00 38.62 4.61
569 673 2.989639 CTTCCATCCGTGCTCCCA 59.010 61.111 0.00 0.00 0.00 4.37
570 674 2.514824 GCTTCCATCCGTGCTCCC 60.515 66.667 0.00 0.00 0.00 4.30
571 675 1.153086 ATGCTTCCATCCGTGCTCC 60.153 57.895 0.00 0.00 0.00 4.70
572 676 0.462581 TCATGCTTCCATCCGTGCTC 60.463 55.000 0.00 0.00 0.00 4.26
573 677 0.463295 CTCATGCTTCCATCCGTGCT 60.463 55.000 0.00 0.00 0.00 4.40
574 678 1.442526 CCTCATGCTTCCATCCGTGC 61.443 60.000 0.00 0.00 0.00 5.34
575 679 0.178767 TCCTCATGCTTCCATCCGTG 59.821 55.000 0.00 0.00 0.00 4.94
576 680 0.467384 CTCCTCATGCTTCCATCCGT 59.533 55.000 0.00 0.00 0.00 4.69
577 681 0.250209 CCTCCTCATGCTTCCATCCG 60.250 60.000 0.00 0.00 0.00 4.18
578 682 0.110104 CCCTCCTCATGCTTCCATCC 59.890 60.000 0.00 0.00 0.00 3.51
579 683 1.072015 CTCCCTCCTCATGCTTCCATC 59.928 57.143 0.00 0.00 0.00 3.51
580 684 1.138568 CTCCCTCCTCATGCTTCCAT 58.861 55.000 0.00 0.00 0.00 3.41
581 685 1.630126 GCTCCCTCCTCATGCTTCCA 61.630 60.000 0.00 0.00 0.00 3.53
582 686 1.148048 GCTCCCTCCTCATGCTTCC 59.852 63.158 0.00 0.00 0.00 3.46
583 687 0.179051 CTGCTCCCTCCTCATGCTTC 60.179 60.000 0.00 0.00 0.00 3.86
584 688 0.913451 ACTGCTCCCTCCTCATGCTT 60.913 55.000 0.00 0.00 0.00 3.91
585 689 1.306825 ACTGCTCCCTCCTCATGCT 60.307 57.895 0.00 0.00 0.00 3.79
586 690 1.145819 GACTGCTCCCTCCTCATGC 59.854 63.158 0.00 0.00 0.00 4.06
587 691 0.907486 TTGACTGCTCCCTCCTCATG 59.093 55.000 0.00 0.00 0.00 3.07
588 692 1.202330 CTTGACTGCTCCCTCCTCAT 58.798 55.000 0.00 0.00 0.00 2.90
589 693 1.548357 GCTTGACTGCTCCCTCCTCA 61.548 60.000 0.00 0.00 0.00 3.86
590 694 1.220477 GCTTGACTGCTCCCTCCTC 59.780 63.158 0.00 0.00 0.00 3.71
591 695 2.297129 GGCTTGACTGCTCCCTCCT 61.297 63.158 0.00 0.00 0.00 3.69
592 696 2.270527 GGCTTGACTGCTCCCTCC 59.729 66.667 0.00 0.00 0.00 4.30
593 697 2.125350 CGGCTTGACTGCTCCCTC 60.125 66.667 0.00 0.00 0.00 4.30
594 698 3.710722 CCGGCTTGACTGCTCCCT 61.711 66.667 0.00 0.00 0.00 4.20
595 699 2.932130 GATCCGGCTTGACTGCTCCC 62.932 65.000 0.00 0.00 0.00 4.30
596 700 1.522580 GATCCGGCTTGACTGCTCC 60.523 63.158 0.00 0.00 0.00 4.70
597 701 1.522580 GGATCCGGCTTGACTGCTC 60.523 63.158 0.00 0.00 0.00 4.26
598 702 2.586792 GGATCCGGCTTGACTGCT 59.413 61.111 0.00 0.00 0.00 4.24
599 703 2.892425 CGGATCCGGCTTGACTGC 60.892 66.667 26.95 0.00 35.56 4.40
600 704 1.227089 CTCGGATCCGGCTTGACTG 60.227 63.158 32.79 9.95 40.25 3.51
601 705 0.970937 TTCTCGGATCCGGCTTGACT 60.971 55.000 32.79 0.00 40.25 3.41
602 706 0.108329 TTTCTCGGATCCGGCTTGAC 60.108 55.000 32.79 0.00 40.25 3.18
603 707 0.175760 CTTTCTCGGATCCGGCTTGA 59.824 55.000 32.79 21.55 40.25 3.02
604 708 1.432270 GCTTTCTCGGATCCGGCTTG 61.432 60.000 32.79 19.78 40.25 4.01
605 709 1.153349 GCTTTCTCGGATCCGGCTT 60.153 57.895 32.79 0.00 40.25 4.35
606 710 2.501610 GCTTTCTCGGATCCGGCT 59.498 61.111 32.79 0.00 40.25 5.52
607 711 2.589159 GGCTTTCTCGGATCCGGC 60.589 66.667 32.79 25.88 40.25 6.13
608 712 2.109181 GGGCTTTCTCGGATCCGG 59.891 66.667 32.79 22.83 40.25 5.14
609 713 1.068250 GAGGGCTTTCTCGGATCCG 59.932 63.158 28.62 28.62 41.35 4.18
610 714 0.105778 CTGAGGGCTTTCTCGGATCC 59.894 60.000 0.00 0.00 41.44 3.36
611 715 0.827368 ACTGAGGGCTTTCTCGGATC 59.173 55.000 14.67 0.00 41.44 3.36
612 716 1.280457 AACTGAGGGCTTTCTCGGAT 58.720 50.000 14.67 3.97 41.44 4.18
613 717 1.825474 CTAACTGAGGGCTTTCTCGGA 59.175 52.381 14.67 0.00 41.44 4.55
614 718 1.550976 ACTAACTGAGGGCTTTCTCGG 59.449 52.381 8.72 8.72 43.77 4.63
615 719 3.320673 AACTAACTGAGGGCTTTCTCG 57.679 47.619 0.00 0.00 36.61 4.04
616 720 4.174762 CGTAACTAACTGAGGGCTTTCTC 58.825 47.826 0.00 0.00 0.00 2.87
617 721 3.577415 ACGTAACTAACTGAGGGCTTTCT 59.423 43.478 0.00 0.00 0.00 2.52
618 722 3.678548 CACGTAACTAACTGAGGGCTTTC 59.321 47.826 0.00 0.00 0.00 2.62
619 723 3.070590 ACACGTAACTAACTGAGGGCTTT 59.929 43.478 0.00 0.00 0.00 3.51
620 724 2.631545 ACACGTAACTAACTGAGGGCTT 59.368 45.455 0.00 0.00 0.00 4.35
621 725 2.245582 ACACGTAACTAACTGAGGGCT 58.754 47.619 0.00 0.00 0.00 5.19
622 726 2.738013 ACACGTAACTAACTGAGGGC 57.262 50.000 0.00 0.00 0.00 5.19
623 727 6.205101 AGATTACACGTAACTAACTGAGGG 57.795 41.667 0.00 0.00 0.00 4.30
624 728 8.671921 TCTTAGATTACACGTAACTAACTGAGG 58.328 37.037 0.00 0.00 0.00 3.86
654 758 6.870965 GCGTGATTAGTATCATTCTCCTCAAT 59.129 38.462 0.00 0.00 42.49 2.57
666 770 4.845387 TCGAGAAGTGCGTGATTAGTATC 58.155 43.478 0.00 0.00 0.00 2.24
793 1039 7.039993 GGGACTTGTTCTTTTGTATATTGGTGT 60.040 37.037 0.00 0.00 0.00 4.16
794 1040 7.176690 AGGGACTTGTTCTTTTGTATATTGGTG 59.823 37.037 0.00 0.00 27.25 4.17
795 1041 7.238710 AGGGACTTGTTCTTTTGTATATTGGT 58.761 34.615 0.00 0.00 27.25 3.67
799 1045 8.888579 CGATAGGGACTTGTTCTTTTGTATAT 57.111 34.615 0.00 0.00 41.75 0.86
871 1135 2.343101 TGCGTTTATATAGGCGGATGC 58.657 47.619 9.14 0.00 41.71 3.91
872 1136 4.180817 TGATGCGTTTATATAGGCGGATG 58.819 43.478 15.62 0.00 35.68 3.51
873 1137 4.159693 TCTGATGCGTTTATATAGGCGGAT 59.840 41.667 12.30 12.30 38.05 4.18
874 1138 3.508402 TCTGATGCGTTTATATAGGCGGA 59.492 43.478 9.14 7.21 0.00 5.54
875 1139 3.845178 TCTGATGCGTTTATATAGGCGG 58.155 45.455 9.14 0.00 0.00 6.13
876 1140 7.700322 ATAATCTGATGCGTTTATATAGGCG 57.300 36.000 3.91 4.35 0.00 5.52
970 1267 7.951245 TCTTCTTCTTCCTAGTCTTCCTTACTT 59.049 37.037 0.00 0.00 0.00 2.24
982 1279 4.808364 CGCCATCTTTCTTCTTCTTCCTAG 59.192 45.833 0.00 0.00 0.00 3.02
1146 1443 1.381928 CCTCGTAGTAGCGCTCCCAA 61.382 60.000 16.34 0.00 0.00 4.12
1307 1605 7.399191 AGAATATTACCGACCAAGATGGCTATA 59.601 37.037 0.00 0.00 42.67 1.31
1308 1606 6.213600 AGAATATTACCGACCAAGATGGCTAT 59.786 38.462 0.00 0.00 42.67 2.97
1434 1739 6.436218 ACAGTTACATACTACATCACACAGGA 59.564 38.462 0.00 0.00 34.56 3.86
1461 1766 4.381411 GGTTACATATTCTGACAGAGGCC 58.619 47.826 5.10 0.00 0.00 5.19
1466 1771 4.566759 CACACGGGTTACATATTCTGACAG 59.433 45.833 0.00 0.00 0.00 3.51
1475 1780 2.843401 AAGTGCACACGGGTTACATA 57.157 45.000 21.04 0.00 36.20 2.29
1484 1789 0.876777 TCCACCGTTAAGTGCACACG 60.877 55.000 21.04 19.46 36.38 4.49
1502 1807 6.583806 CCCGGTACTCACGTACATATATTTTC 59.416 42.308 0.00 0.00 46.20 2.29
1515 1820 2.453983 TTTAAACCCCGGTACTCACG 57.546 50.000 0.00 0.00 0.00 4.35
1545 1850 2.178912 TTCGGCGATCCAAGTTTCTT 57.821 45.000 11.76 0.00 0.00 2.52
1546 1851 2.178912 TTTCGGCGATCCAAGTTTCT 57.821 45.000 11.76 0.00 0.00 2.52
1557 1862 6.444633 TGGTAAAACAAATTTATTTCGGCGA 58.555 32.000 4.99 4.99 35.98 5.54
1559 1864 8.012809 CCTTTGGTAAAACAAATTTATTTCGGC 58.987 33.333 0.00 0.00 39.39 5.54
1585 1890 2.067365 ATAAAATGAGGCGGGGGAAC 57.933 50.000 0.00 0.00 0.00 3.62
1586 1891 2.024846 TCAATAAAATGAGGCGGGGGAA 60.025 45.455 0.00 0.00 0.00 3.97
1587 1892 1.566703 TCAATAAAATGAGGCGGGGGA 59.433 47.619 0.00 0.00 0.00 4.81
1588 1893 2.065899 TCAATAAAATGAGGCGGGGG 57.934 50.000 0.00 0.00 0.00 5.40
1589 1894 3.023832 AGTTCAATAAAATGAGGCGGGG 58.976 45.455 0.00 0.00 0.00 5.73
1590 1895 5.123227 TCTAGTTCAATAAAATGAGGCGGG 58.877 41.667 0.00 0.00 0.00 6.13
1591 1896 6.483307 TCATCTAGTTCAATAAAATGAGGCGG 59.517 38.462 0.00 0.00 0.00 6.13
1592 1897 7.482654 TCATCTAGTTCAATAAAATGAGGCG 57.517 36.000 0.00 0.00 0.00 5.52
1596 1901 9.793259 GGGGTATCATCTAGTTCAATAAAATGA 57.207 33.333 0.00 0.00 0.00 2.57
1597 1902 8.721478 CGGGGTATCATCTAGTTCAATAAAATG 58.279 37.037 0.00 0.00 0.00 2.32
1598 1903 8.437575 ACGGGGTATCATCTAGTTCAATAAAAT 58.562 33.333 0.00 0.00 0.00 1.82
1599 1904 7.798071 ACGGGGTATCATCTAGTTCAATAAAA 58.202 34.615 0.00 0.00 0.00 1.52
1600 1905 7.369551 ACGGGGTATCATCTAGTTCAATAAA 57.630 36.000 0.00 0.00 0.00 1.40
1601 1906 6.989155 ACGGGGTATCATCTAGTTCAATAA 57.011 37.500 0.00 0.00 0.00 1.40
1602 1907 6.325545 ACAACGGGGTATCATCTAGTTCAATA 59.674 38.462 0.00 0.00 0.00 1.90
1603 1908 5.130477 ACAACGGGGTATCATCTAGTTCAAT 59.870 40.000 0.00 0.00 0.00 2.57
1604 1909 4.468510 ACAACGGGGTATCATCTAGTTCAA 59.531 41.667 0.00 0.00 0.00 2.69
1605 1910 4.028131 ACAACGGGGTATCATCTAGTTCA 58.972 43.478 0.00 0.00 0.00 3.18
1606 1911 4.667519 ACAACGGGGTATCATCTAGTTC 57.332 45.455 0.00 0.00 0.00 3.01
1607 1912 4.224370 ACAACAACGGGGTATCATCTAGTT 59.776 41.667 0.00 0.00 0.00 2.24
1608 1913 3.773119 ACAACAACGGGGTATCATCTAGT 59.227 43.478 0.00 0.00 0.00 2.57
1609 1914 4.119862 CACAACAACGGGGTATCATCTAG 58.880 47.826 0.00 0.00 0.00 2.43
1610 1915 3.118555 CCACAACAACGGGGTATCATCTA 60.119 47.826 0.00 0.00 0.00 1.98
1611 1916 2.355716 CCACAACAACGGGGTATCATCT 60.356 50.000 0.00 0.00 0.00 2.90
1612 1917 2.014128 CCACAACAACGGGGTATCATC 58.986 52.381 0.00 0.00 0.00 2.92
1613 1918 1.340600 CCCACAACAACGGGGTATCAT 60.341 52.381 0.00 0.00 38.95 2.45
1614 1919 0.037017 CCCACAACAACGGGGTATCA 59.963 55.000 0.00 0.00 38.95 2.15
1615 1920 0.325602 TCCCACAACAACGGGGTATC 59.674 55.000 0.00 0.00 43.29 2.24
1616 1921 0.772384 TTCCCACAACAACGGGGTAT 59.228 50.000 0.00 0.00 43.29 2.73
1617 1922 0.549950 TTTCCCACAACAACGGGGTA 59.450 50.000 0.00 0.00 43.29 3.69
1618 1923 0.105913 ATTTCCCACAACAACGGGGT 60.106 50.000 0.00 0.00 43.29 4.95
1619 1924 1.044611 AATTTCCCACAACAACGGGG 58.955 50.000 0.00 0.00 43.29 5.73
1620 1925 2.900716 AAATTTCCCACAACAACGGG 57.099 45.000 0.00 0.00 44.60 5.28
1647 1952 9.952030 TCACACAACCAATTCTAACTGAATATA 57.048 29.630 0.00 0.00 43.99 0.86
1648 1953 8.862325 TCACACAACCAATTCTAACTGAATAT 57.138 30.769 0.00 0.00 43.99 1.28
1649 1954 8.684386 TTCACACAACCAATTCTAACTGAATA 57.316 30.769 0.00 0.00 43.99 1.75
1650 1955 7.581213 TTCACACAACCAATTCTAACTGAAT 57.419 32.000 0.00 0.00 46.49 2.57
1651 1956 7.094162 TGTTTCACACAACCAATTCTAACTGAA 60.094 33.333 0.00 0.00 33.71 3.02
1652 1957 6.375736 TGTTTCACACAACCAATTCTAACTGA 59.624 34.615 0.00 0.00 29.87 3.41
1653 1958 6.559810 TGTTTCACACAACCAATTCTAACTG 58.440 36.000 0.00 0.00 29.87 3.16
1654 1959 6.767524 TGTTTCACACAACCAATTCTAACT 57.232 33.333 0.00 0.00 29.87 2.24
1655 1960 7.199766 TCATGTTTCACACAACCAATTCTAAC 58.800 34.615 0.00 0.00 39.50 2.34
1656 1961 7.340122 TCATGTTTCACACAACCAATTCTAA 57.660 32.000 0.00 0.00 39.50 2.10
1657 1962 6.951062 TCATGTTTCACACAACCAATTCTA 57.049 33.333 0.00 0.00 39.50 2.10
1658 1963 5.850557 TCATGTTTCACACAACCAATTCT 57.149 34.783 0.00 0.00 39.50 2.40
1659 1964 8.761575 ATATTCATGTTTCACACAACCAATTC 57.238 30.769 0.00 0.00 39.50 2.17
1660 1965 9.558396 AAATATTCATGTTTCACACAACCAATT 57.442 25.926 0.00 0.00 39.50 2.32
1805 2111 3.181459 TGTCTTTTGATTCCGGTGTCTCA 60.181 43.478 0.00 0.00 0.00 3.27
1849 2156 5.241064 GTGGTAGATGTATGACCGTCTATGT 59.759 44.000 0.00 0.00 35.86 2.29
1938 2257 2.575279 AGATGCTGAAGATTCACCCAGT 59.425 45.455 0.00 0.00 32.90 4.00
2001 2320 1.703438 CGAGCTGCTCAGGATTGCAC 61.703 60.000 27.46 0.00 35.20 4.57
2028 2347 1.689273 GCATCCAACTCCTAGATCGGT 59.311 52.381 0.00 0.00 0.00 4.69
2192 2511 5.720371 ATTGCTTGTGTTGCTACCATTTA 57.280 34.783 0.00 0.00 0.00 1.40


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

AutoCloner maintained by Alex Coulton.