Multiple sequence alignment - TraesCS6A01G001000

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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 TraesCS6A01G001000 chr6A 100.000 3404 0 0 1 3404 636753 640156 0.000000e+00 6287.0
1 TraesCS6A01G001000 chr6A 89.375 320 18 11 2605 2924 615298 614995 4.120000e-104 388.0
2 TraesCS6A01G001000 chr6A 91.209 91 2 2 3264 3353 614593 614508 5.970000e-23 119.0
3 TraesCS6A01G001000 chr3B 85.493 2523 168 92 995 3382 772895258 772897717 0.000000e+00 2449.0
4 TraesCS6A01G001000 chr3B 82.206 281 37 9 2645 2924 772893025 772893293 2.640000e-56 230.0
5 TraesCS6A01G001000 chr6B 88.595 1587 107 41 1451 2998 3882320 3880769 0.000000e+00 1860.0
6 TraesCS6A01G001000 chr6B 83.973 730 53 26 2715 3404 4138174 4138879 2.860000e-180 641.0
7 TraesCS6A01G001000 chr6B 82.983 476 42 23 980 1421 3882939 3882469 8.850000e-106 394.0
8 TraesCS6A01G001000 chr6B 82.379 454 38 27 12 447 3883770 3883341 1.160000e-94 357.0
9 TraesCS6A01G001000 chr6B 81.768 181 15 12 3202 3370 420517079 420517253 5.930000e-28 135.0
10 TraesCS6A01G001000 chr6B 81.667 180 15 12 3202 3369 139853164 139852991 2.130000e-27 134.0
11 TraesCS6A01G001000 chr6D 86.507 1549 90 51 974 2462 2272867 2274356 0.000000e+00 1592.0
12 TraesCS6A01G001000 chr6D 93.355 301 19 1 2715 3014 2244535 2244235 8.670000e-121 444.0
13 TraesCS6A01G001000 chr6D 84.134 479 40 19 2547 3014 2274405 2274858 6.750000e-117 431.0
14 TraesCS6A01G001000 chr6D 83.951 486 36 30 1 462 2271978 2272445 8.730000e-116 427.0
15 TraesCS6A01G001000 chr6D 96.703 182 5 1 3202 3382 2244110 2243929 5.520000e-78 302.0
16 TraesCS6A01G001000 chr6D 96.703 182 5 1 3202 3382 2274983 2275164 5.520000e-78 302.0
17 TraesCS6A01G001000 chr6D 88.757 169 12 6 665 827 2272471 2272638 2.070000e-47 200.0
18 TraesCS6A01G001000 chr5A 90.152 132 12 1 2840 2970 486768426 486768557 1.620000e-38 171.0
19 TraesCS6A01G001000 chr5B 83.766 154 11 10 3225 3370 678552459 678552606 2.130000e-27 134.0
20 TraesCS6A01G001000 chr2A 80.556 144 26 2 1734 1876 16419810 16419952 3.590000e-20 110.0
21 TraesCS6A01G001000 chr2D 79.861 144 27 2 1734 1876 13896802 13896660 1.670000e-18 104.0
22 TraesCS6A01G001000 chr2D 83.696 92 9 4 3264 3354 633491555 633491641 7.830000e-12 82.4


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 TraesCS6A01G001000 chr6A 636753 640156 3403 False 6287.000000 6287 100.000000 1 3404 1 chr6A.!!$F1 3403
1 TraesCS6A01G001000 chr6A 614508 615298 790 True 253.500000 388 90.292000 2605 3353 2 chr6A.!!$R1 748
2 TraesCS6A01G001000 chr3B 772893025 772897717 4692 False 1339.500000 2449 83.849500 995 3382 2 chr3B.!!$F1 2387
3 TraesCS6A01G001000 chr6B 3880769 3883770 3001 True 870.333333 1860 84.652333 12 2998 3 chr6B.!!$R2 2986
4 TraesCS6A01G001000 chr6B 4138174 4138879 705 False 641.000000 641 83.973000 2715 3404 1 chr6B.!!$F1 689
5 TraesCS6A01G001000 chr6D 2271978 2275164 3186 False 590.400000 1592 88.010400 1 3382 5 chr6D.!!$F1 3381
6 TraesCS6A01G001000 chr6D 2243929 2244535 606 True 373.000000 444 95.029000 2715 3382 2 chr6D.!!$R1 667

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
827 888 0.031817 ATCAATGCAAGGGGAAGGGG 60.032 55.0 0.0 0.0 0.0 4.79 F
830 891 0.041684 AATGCAAGGGGAAGGGGAAG 59.958 55.0 0.0 0.0 0.0 3.46 F
1631 3109 0.039764 TCGGCAGAAGAAGGAGGAGA 59.960 55.0 0.0 0.0 0.0 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1628 3106 0.762461 CCCCACCTCCTCTCCATCTC 60.762 65.0 0.00 0.0 0.00 2.75 R
2374 3862 1.030488 GGGATGTCGAGGTCTGACGA 61.030 60.0 1.07 0.0 39.22 4.20 R
2970 4524 0.175302 CTAGGCTCACAGGTGCTGAG 59.825 60.0 0.00 0.0 38.59 3.35 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
73 75 1.587034 GCGTAAAGCGTACTCCATGAC 59.413 52.381 0.00 0.00 43.66 3.06
82 84 3.861131 GCGTACTCCATGACAAGTGAAGT 60.861 47.826 0.00 0.00 0.00 3.01
151 157 5.358725 CCTGAATGAATGAATGATGTGTGGA 59.641 40.000 0.00 0.00 0.00 4.02
204 210 0.820074 CCGTGGCACCCAACAACTTA 60.820 55.000 12.86 0.00 34.18 2.24
208 214 2.364002 GTGGCACCCAACAACTTACATT 59.636 45.455 6.29 0.00 34.18 2.71
306 317 4.336889 AGCCACGCTGTTATATGTATGT 57.663 40.909 0.00 0.00 37.57 2.29
309 320 3.807071 CCACGCTGTTATATGTATGTGCA 59.193 43.478 0.00 0.00 0.00 4.57
312 323 4.690748 ACGCTGTTATATGTATGTGCATCC 59.309 41.667 0.00 0.00 0.00 3.51
313 324 4.690280 CGCTGTTATATGTATGTGCATCCA 59.310 41.667 0.00 0.00 0.00 3.41
315 326 6.549061 GCTGTTATATGTATGTGCATCCATG 58.451 40.000 0.00 0.00 0.00 3.66
321 366 2.279741 GTATGTGCATCCATGTGTCGT 58.720 47.619 0.00 0.00 0.00 4.34
324 369 1.447663 TGCATCCATGTGTCGTCGG 60.448 57.895 0.00 0.00 0.00 4.79
356 403 2.781646 GCGTTTGAGTGAAACCGAAAAG 59.218 45.455 0.00 0.00 40.94 2.27
358 405 3.486875 CGTTTGAGTGAAACCGAAAAGCT 60.487 43.478 0.00 0.00 40.94 3.74
377 425 4.809815 GCTAAGCTAAGCTCATTTCCAG 57.190 45.455 0.00 0.00 38.25 3.86
384 432 4.944317 GCTAAGCTCATTTCCAGGTTAACT 59.056 41.667 5.42 0.00 34.31 2.24
436 486 7.697352 CAAGAATTGTGTTCTTTGTTATGCA 57.303 32.000 0.00 0.00 42.34 3.96
477 531 0.890683 CCACCAGGTTCATTTCCAGC 59.109 55.000 0.00 0.00 0.00 4.85
493 547 1.016130 CAGCGAACCGATCAACAGCT 61.016 55.000 0.00 0.00 0.00 4.24
495 549 1.137086 AGCGAACCGATCAACAGCTAT 59.863 47.619 0.00 0.00 0.00 2.97
498 552 3.741344 GCGAACCGATCAACAGCTATAAT 59.259 43.478 0.00 0.00 0.00 1.28
499 553 4.376413 GCGAACCGATCAACAGCTATAATG 60.376 45.833 0.00 0.00 0.00 1.90
500 554 4.376413 CGAACCGATCAACAGCTATAATGC 60.376 45.833 0.00 0.00 0.00 3.56
503 557 2.476241 CGATCAACAGCTATAATGCGCA 59.524 45.455 14.96 14.96 38.13 6.09
518 572 2.802667 CGCAATTCGCTCGAGGTGG 61.803 63.158 15.58 0.00 39.08 4.61
519 573 3.093278 CAATTCGCTCGAGGTGGC 58.907 61.111 15.58 0.00 0.00 5.01
521 575 2.660064 AATTCGCTCGAGGTGGCCT 61.660 57.895 15.58 0.00 36.03 5.19
522 576 2.579684 AATTCGCTCGAGGTGGCCTC 62.580 60.000 15.58 0.00 46.44 4.70
530 584 2.847234 AGGTGGCCTCACGTTGGA 60.847 61.111 3.32 0.00 44.50 3.53
532 586 2.040544 GGTGGCCTCACGTTGGATG 61.041 63.158 3.32 0.00 44.50 3.51
533 587 2.040544 GTGGCCTCACGTTGGATGG 61.041 63.158 3.32 0.00 33.87 3.51
534 588 2.220586 TGGCCTCACGTTGGATGGA 61.221 57.895 3.32 0.00 0.00 3.41
535 589 1.002624 GGCCTCACGTTGGATGGAA 60.003 57.895 8.41 0.00 0.00 3.53
536 590 1.305930 GGCCTCACGTTGGATGGAAC 61.306 60.000 8.41 0.00 0.00 3.62
545 599 2.912366 GTTGGATGGAACGAAACGAAC 58.088 47.619 0.00 0.00 0.00 3.95
546 600 1.515081 TGGATGGAACGAAACGAACC 58.485 50.000 0.00 0.00 0.00 3.62
548 602 1.421382 GATGGAACGAAACGAACCGA 58.579 50.000 0.00 0.00 0.00 4.69
550 604 1.649664 TGGAACGAAACGAACCGAAA 58.350 45.000 0.00 0.00 0.00 3.46
553 607 2.365948 GAACGAAACGAACCGAAAACC 58.634 47.619 0.00 0.00 0.00 3.27
555 609 0.576328 CGAAACGAACCGAAAACCGA 59.424 50.000 0.00 0.00 41.76 4.69
556 610 1.396316 CGAAACGAACCGAAAACCGAG 60.396 52.381 0.00 0.00 41.76 4.63
557 611 1.594397 GAAACGAACCGAAAACCGAGT 59.406 47.619 0.00 0.00 41.76 4.18
558 612 0.932399 AACGAACCGAAAACCGAGTG 59.068 50.000 0.00 0.00 41.76 3.51
559 613 1.203313 CGAACCGAAAACCGAGTGC 59.797 57.895 0.00 0.00 41.76 4.40
562 616 1.265905 GAACCGAAAACCGAGTGCATT 59.734 47.619 0.00 0.00 41.76 3.56
563 617 1.314730 ACCGAAAACCGAGTGCATTT 58.685 45.000 0.00 0.00 41.76 2.32
564 618 1.001815 ACCGAAAACCGAGTGCATTTG 60.002 47.619 0.00 0.00 41.76 2.32
566 620 1.418373 GAAAACCGAGTGCATTTGCC 58.582 50.000 0.00 0.00 41.18 4.52
567 621 1.000274 GAAAACCGAGTGCATTTGCCT 60.000 47.619 0.00 0.00 41.18 4.75
568 622 1.039856 AAACCGAGTGCATTTGCCTT 58.960 45.000 0.00 0.00 41.18 4.35
569 623 1.039856 AACCGAGTGCATTTGCCTTT 58.960 45.000 0.00 0.00 41.18 3.11
570 624 0.314935 ACCGAGTGCATTTGCCTTTG 59.685 50.000 0.00 0.00 41.18 2.77
571 625 0.597568 CCGAGTGCATTTGCCTTTGA 59.402 50.000 0.00 0.00 41.18 2.69
572 626 1.666888 CCGAGTGCATTTGCCTTTGAC 60.667 52.381 0.00 0.00 41.18 3.18
574 628 1.615392 GAGTGCATTTGCCTTTGACCT 59.385 47.619 0.00 0.00 41.18 3.85
575 629 1.342174 AGTGCATTTGCCTTTGACCTG 59.658 47.619 0.00 0.00 41.18 4.00
577 631 2.028748 GTGCATTTGCCTTTGACCTGAT 60.029 45.455 0.00 0.00 41.18 2.90
578 632 2.028839 TGCATTTGCCTTTGACCTGATG 60.029 45.455 0.00 0.00 41.18 3.07
596 650 2.469274 TGAGCAGAAGAAGAGCAAGG 57.531 50.000 0.00 0.00 0.00 3.61
597 651 1.085893 GAGCAGAAGAAGAGCAAGGC 58.914 55.000 0.00 0.00 0.00 4.35
598 652 0.322366 AGCAGAAGAAGAGCAAGGCC 60.322 55.000 0.00 0.00 0.00 5.19
599 653 0.607489 GCAGAAGAAGAGCAAGGCCA 60.607 55.000 5.01 0.00 0.00 5.36
601 655 2.444421 CAGAAGAAGAGCAAGGCCATT 58.556 47.619 5.01 0.00 0.00 3.16
602 656 2.163815 CAGAAGAAGAGCAAGGCCATTG 59.836 50.000 5.01 8.08 42.20 2.82
603 657 2.165998 GAAGAAGAGCAAGGCCATTGT 58.834 47.619 5.01 0.00 41.29 2.71
604 658 1.831580 AGAAGAGCAAGGCCATTGTC 58.168 50.000 5.01 7.32 41.29 3.18
605 659 1.074405 AGAAGAGCAAGGCCATTGTCA 59.926 47.619 5.01 0.00 41.29 3.58
607 661 0.610232 AGAGCAAGGCCATTGTCACC 60.610 55.000 5.01 0.00 41.29 4.02
609 663 0.610232 AGCAAGGCCATTGTCACCTC 60.610 55.000 5.01 0.00 41.29 3.85
612 666 2.242043 CAAGGCCATTGTCACCTCTTT 58.758 47.619 5.01 0.00 33.95 2.52
614 668 3.806949 AGGCCATTGTCACCTCTTTAA 57.193 42.857 5.01 0.00 0.00 1.52
615 669 4.322057 AGGCCATTGTCACCTCTTTAAT 57.678 40.909 5.01 0.00 0.00 1.40
616 670 4.273318 AGGCCATTGTCACCTCTTTAATC 58.727 43.478 5.01 0.00 0.00 1.75
618 672 4.096984 GGCCATTGTCACCTCTTTAATCAG 59.903 45.833 0.00 0.00 0.00 2.90
624 678 6.419484 TGTCACCTCTTTAATCAGTCTGAA 57.581 37.500 6.64 0.00 0.00 3.02
637 691 7.814264 AATCAGTCTGAAAATATTAGCAGGG 57.186 36.000 6.64 7.49 0.00 4.45
642 696 7.001073 AGTCTGAAAATATTAGCAGGGGAATC 58.999 38.462 14.15 3.59 0.00 2.52
647 701 4.917906 ATATTAGCAGGGGAATCCTCAC 57.082 45.455 0.32 0.00 46.12 3.51
669 724 2.987149 CGGGGATTGATTAGATTCGACG 59.013 50.000 0.00 0.00 0.00 5.12
670 725 3.552273 CGGGGATTGATTAGATTCGACGT 60.552 47.826 0.00 0.00 0.00 4.34
712 767 0.107800 GAAACGGAGGAACCCTAGCC 60.108 60.000 0.00 0.00 31.76 3.93
714 769 1.551019 AACGGAGGAACCCTAGCCAC 61.551 60.000 0.00 0.00 31.76 5.01
716 771 0.396695 CGGAGGAACCCTAGCCACTA 60.397 60.000 0.00 0.00 31.76 2.74
717 772 1.758123 CGGAGGAACCCTAGCCACTAT 60.758 57.143 0.00 0.00 31.76 2.12
720 775 2.630580 GAGGAACCCTAGCCACTATCAG 59.369 54.545 0.00 0.00 31.76 2.90
721 776 2.022918 AGGAACCCTAGCCACTATCAGT 60.023 50.000 0.00 0.00 28.47 3.41
722 777 2.103263 GGAACCCTAGCCACTATCAGTG 59.897 54.545 0.00 0.00 45.53 3.66
791 852 4.036941 AGGCTGGCTAGATAGGTAGTAC 57.963 50.000 0.13 0.00 0.00 2.73
823 884 3.266772 ACTCACTATCAATGCAAGGGGAA 59.733 43.478 0.00 0.00 0.00 3.97
826 887 2.091665 ACTATCAATGCAAGGGGAAGGG 60.092 50.000 0.00 0.00 0.00 3.95
827 888 0.031817 ATCAATGCAAGGGGAAGGGG 60.032 55.000 0.00 0.00 0.00 4.79
828 889 1.145900 TCAATGCAAGGGGAAGGGGA 61.146 55.000 0.00 0.00 0.00 4.81
830 891 0.041684 AATGCAAGGGGAAGGGGAAG 59.958 55.000 0.00 0.00 0.00 3.46
831 892 1.878799 ATGCAAGGGGAAGGGGAAGG 61.879 60.000 0.00 0.00 0.00 3.46
832 893 3.100111 CAAGGGGAAGGGGAAGGG 58.900 66.667 0.00 0.00 0.00 3.95
833 894 2.204464 AAGGGGAAGGGGAAGGGG 60.204 66.667 0.00 0.00 0.00 4.79
836 897 2.317378 GGGGAAGGGGAAGGGGAAG 61.317 68.421 0.00 0.00 0.00 3.46
837 898 2.317378 GGGAAGGGGAAGGGGAAGG 61.317 68.421 0.00 0.00 0.00 3.46
838 899 2.317378 GGAAGGGGAAGGGGAAGGG 61.317 68.421 0.00 0.00 0.00 3.95
849 961 1.380302 GGGAAGGGAAGCTGCTTCA 59.620 57.895 35.27 0.00 41.77 3.02
884 996 1.983119 TTCCCACGGCTCCATCCATC 61.983 60.000 0.00 0.00 0.00 3.51
909 1021 1.039068 TCGTCACTGTCCGGGTTTTA 58.961 50.000 0.00 0.00 0.00 1.52
915 1027 1.890489 ACTGTCCGGGTTTTAATTGCC 59.110 47.619 0.00 0.00 0.00 4.52
1033 2279 3.307059 GCAGGTAAAGCTTCTTCTCTCCA 60.307 47.826 0.00 0.00 0.00 3.86
1034 2280 4.625083 GCAGGTAAAGCTTCTTCTCTCCAT 60.625 45.833 0.00 0.00 0.00 3.41
1042 2288 4.128643 GCTTCTTCTCTCCATCCATCTTG 58.871 47.826 0.00 0.00 0.00 3.02
1051 2297 3.483421 TCCATCCATCTTGATGCATGTC 58.517 45.455 2.46 0.00 40.66 3.06
1115 2378 1.006102 AGAGCAACAAGGACGACGG 60.006 57.895 0.00 0.00 0.00 4.79
1116 2379 1.300697 GAGCAACAAGGACGACGGT 60.301 57.895 0.00 0.00 0.00 4.83
1117 2380 1.557443 GAGCAACAAGGACGACGGTG 61.557 60.000 0.00 0.00 0.00 4.94
1158 2439 0.325203 AGGAGGAAGAGGAGGAGCAC 60.325 60.000 0.00 0.00 0.00 4.40
1164 2445 1.965754 AAGAGGAGGAGCACCATCGC 61.966 60.000 2.07 0.00 38.94 4.58
1208 2504 1.153489 CGTGTGAGCAGGAGGATGG 60.153 63.158 0.00 0.00 32.67 3.51
1232 2528 1.196104 AAGCCATTGCCATTGCTGGT 61.196 50.000 0.00 0.00 45.10 4.00
1236 2532 1.404986 CCATTGCCATTGCTGGTGAAG 60.405 52.381 0.00 0.00 45.10 3.02
1237 2533 1.546923 CATTGCCATTGCTGGTGAAGA 59.453 47.619 0.00 0.00 45.10 2.87
1238 2534 1.250328 TTGCCATTGCTGGTGAAGAG 58.750 50.000 0.00 0.00 45.10 2.85
1239 2535 0.609957 TGCCATTGCTGGTGAAGAGG 60.610 55.000 0.00 0.00 45.10 3.69
1240 2536 0.322816 GCCATTGCTGGTGAAGAGGA 60.323 55.000 0.00 0.00 45.10 3.71
1241 2537 1.747709 CCATTGCTGGTGAAGAGGAG 58.252 55.000 0.00 0.00 37.79 3.69
1275 2577 0.809241 GCCTGAGCAGATCGTCAAGG 60.809 60.000 0.00 0.00 39.53 3.61
1441 2773 1.123861 TCTCAACCCTCAGCAGCAGT 61.124 55.000 0.00 0.00 0.00 4.40
1442 2774 0.954449 CTCAACCCTCAGCAGCAGTG 60.954 60.000 0.00 0.00 0.00 3.66
1444 2776 2.149383 AACCCTCAGCAGCAGTGGA 61.149 57.895 7.45 0.00 0.00 4.02
1584 3053 3.517140 GCGCCATTGCCGGAATCA 61.517 61.111 5.05 0.00 0.00 2.57
1620 3098 4.351938 CCGTCACCGTCGGCAGAA 62.352 66.667 12.28 0.00 41.48 3.02
1621 3099 2.805353 CGTCACCGTCGGCAGAAG 60.805 66.667 12.28 8.48 0.00 2.85
1622 3100 2.649034 GTCACCGTCGGCAGAAGA 59.351 61.111 12.28 0.00 0.00 2.87
1623 3101 1.006571 GTCACCGTCGGCAGAAGAA 60.007 57.895 12.28 0.00 0.00 2.52
1624 3102 1.009389 GTCACCGTCGGCAGAAGAAG 61.009 60.000 12.28 0.00 0.00 2.85
1625 3103 1.738099 CACCGTCGGCAGAAGAAGG 60.738 63.158 12.28 1.69 41.87 3.46
1626 3104 1.906824 ACCGTCGGCAGAAGAAGGA 60.907 57.895 12.28 0.00 39.16 3.36
1627 3105 1.153745 CCGTCGGCAGAAGAAGGAG 60.154 63.158 0.00 0.00 39.16 3.69
1628 3106 1.153745 CGTCGGCAGAAGAAGGAGG 60.154 63.158 0.00 0.00 0.00 4.30
1629 3107 1.595993 CGTCGGCAGAAGAAGGAGGA 61.596 60.000 0.00 0.00 0.00 3.71
1630 3108 0.174617 GTCGGCAGAAGAAGGAGGAG 59.825 60.000 0.00 0.00 0.00 3.69
1631 3109 0.039764 TCGGCAGAAGAAGGAGGAGA 59.960 55.000 0.00 0.00 0.00 3.71
1632 3110 1.118838 CGGCAGAAGAAGGAGGAGAT 58.881 55.000 0.00 0.00 0.00 2.75
1633 3111 1.202510 CGGCAGAAGAAGGAGGAGATG 60.203 57.143 0.00 0.00 0.00 2.90
1634 3112 1.140652 GGCAGAAGAAGGAGGAGATGG 59.859 57.143 0.00 0.00 0.00 3.51
1709 3196 0.996762 GAGGAGGAGGAGGAGGAGGA 60.997 65.000 0.00 0.00 0.00 3.71
1712 3199 0.105709 GAGGAGGAGGAGGAGGAAGG 60.106 65.000 0.00 0.00 0.00 3.46
2464 3970 9.999660 CTCTACTCTCTTACTGTACATATACCA 57.000 37.037 0.00 0.00 0.00 3.25
2471 3977 9.352191 CTCTTACTGTACATATACCAGTTACCT 57.648 37.037 0.00 0.00 30.36 3.08
2475 3981 7.952671 ACTGTACATATACCAGTTACCTGATG 58.047 38.462 0.00 0.00 41.50 3.07
2480 3986 0.328258 ACCAGTTACCTGATGGCCAC 59.672 55.000 8.16 2.36 41.50 5.01
2505 4027 6.125029 CCTTCTCCCAGATTTTGTGTATGAT 58.875 40.000 0.00 0.00 0.00 2.45
2506 4028 6.261826 CCTTCTCCCAGATTTTGTGTATGATC 59.738 42.308 0.00 0.00 0.00 2.92
2637 4167 0.393537 GCATACACTTCCAGCAGCCT 60.394 55.000 0.00 0.00 0.00 4.58
2679 4209 2.035632 AGCTATTCCTTCTCCACCTCG 58.964 52.381 0.00 0.00 0.00 4.63
2680 4210 1.069358 GCTATTCCTTCTCCACCTCGG 59.931 57.143 0.00 0.00 0.00 4.63
2681 4211 2.667470 CTATTCCTTCTCCACCTCGGA 58.333 52.381 0.00 0.00 43.61 4.55
2685 4215 0.533032 CCTTCTCCACCTCGGACTTC 59.467 60.000 0.00 0.00 39.64 3.01
2686 4216 1.257743 CTTCTCCACCTCGGACTTCA 58.742 55.000 0.00 0.00 39.64 3.02
2693 4223 1.519455 CCTCGGACTTCATCGGCAC 60.519 63.158 0.00 0.00 0.00 5.01
2701 4231 3.322318 TTCATCGGCACCATCGGCA 62.322 57.895 0.00 0.00 0.00 5.69
2708 4238 2.264480 CACCATCGGCACCTCGAA 59.736 61.111 0.00 0.00 42.69 3.71
2710 4240 2.283529 ACCATCGGCACCTCGAACT 61.284 57.895 0.00 0.00 42.69 3.01
2711 4241 1.079127 CCATCGGCACCTCGAACTT 60.079 57.895 0.00 0.00 42.69 2.66
2739 4274 2.158726 TCAATGGCGTAAGTAATCCCCC 60.159 50.000 0.00 0.00 41.68 5.40
2970 4524 4.931661 ATTGAATCAGTGGATGCCAATC 57.068 40.909 0.00 0.00 34.92 2.67
3005 4591 6.005198 TGAGCCTAGCTAGTTCTCCTTATAC 58.995 44.000 25.23 9.95 39.88 1.47
3081 4715 1.328680 CAAGGAGCCGATGACAAATCG 59.671 52.381 0.82 0.82 40.86 3.34
3096 4730 2.978452 AATCGGCGGCTCTGAATCGG 62.978 60.000 7.21 0.00 32.98 4.18
3114 4748 3.201290 TCGGGCGTTAAACTTAAACACA 58.799 40.909 0.00 0.00 0.00 3.72
3127 4768 6.313744 ACTTAAACACACATGCTTTAGGTC 57.686 37.500 0.00 0.00 0.00 3.85
3132 4776 3.815401 ACACACATGCTTTAGGTCAGTTC 59.185 43.478 0.00 0.00 0.00 3.01
3136 4780 4.756642 CACATGCTTTAGGTCAGTTCAAGA 59.243 41.667 0.00 0.00 0.00 3.02
3377 5061 6.627087 TTCCATCAGTATTCTGGAAAGTCT 57.373 37.500 0.91 0.00 44.06 3.24
3378 5062 5.982356 TCCATCAGTATTCTGGAAAGTCTG 58.018 41.667 0.00 0.00 41.59 3.51
3379 5063 4.574013 CCATCAGTATTCTGGAAAGTCTGC 59.426 45.833 0.00 0.00 41.59 4.26
3380 5064 4.890158 TCAGTATTCTGGAAAGTCTGCA 57.110 40.909 0.00 0.00 41.59 4.41
3381 5065 5.426689 TCAGTATTCTGGAAAGTCTGCAT 57.573 39.130 0.00 0.00 41.59 3.96
3382 5066 6.544928 TCAGTATTCTGGAAAGTCTGCATA 57.455 37.500 0.00 0.00 41.59 3.14
3383 5067 6.577103 TCAGTATTCTGGAAAGTCTGCATAG 58.423 40.000 0.00 0.00 41.59 2.23
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
73 75 4.336433 ACACAACATCCTTCACTTCACTTG 59.664 41.667 0.00 0.00 0.00 3.16
82 84 2.102420 ACGTCTCACACAACATCCTTCA 59.898 45.455 0.00 0.00 0.00 3.02
110 112 5.362556 TTCAGGAAGAAAAAGAAGCATCG 57.637 39.130 0.00 0.00 32.05 3.84
151 157 1.961277 CGTCGCTGTTGCTTCCCTT 60.961 57.895 0.00 0.00 36.97 3.95
235 241 8.109705 TGCATAACACAAGACACAATAAGAAT 57.890 30.769 0.00 0.00 0.00 2.40
239 245 7.686438 AGATGCATAACACAAGACACAATAA 57.314 32.000 0.00 0.00 0.00 1.40
240 246 8.829612 CATAGATGCATAACACAAGACACAATA 58.170 33.333 0.00 0.00 0.00 1.90
241 247 7.337689 ACATAGATGCATAACACAAGACACAAT 59.662 33.333 0.00 0.00 0.00 2.71
243 249 6.092533 CACATAGATGCATAACACAAGACACA 59.907 38.462 0.00 0.00 0.00 3.72
244 250 6.092670 ACACATAGATGCATAACACAAGACAC 59.907 38.462 0.00 0.00 0.00 3.67
245 251 6.172630 ACACATAGATGCATAACACAAGACA 58.827 36.000 0.00 0.00 0.00 3.41
246 252 6.668541 ACACATAGATGCATAACACAAGAC 57.331 37.500 0.00 0.00 0.00 3.01
247 253 6.403527 GCAACACATAGATGCATAACACAAGA 60.404 38.462 0.00 0.00 44.62 3.02
248 254 5.740569 GCAACACATAGATGCATAACACAAG 59.259 40.000 0.00 0.00 44.62 3.16
285 295 4.058124 CACATACATATAACAGCGTGGCT 58.942 43.478 0.00 0.00 40.77 4.75
286 296 3.363970 GCACATACATATAACAGCGTGGC 60.364 47.826 0.00 0.00 0.00 5.01
301 312 2.279741 ACGACACATGGATGCACATAC 58.720 47.619 0.00 0.00 0.00 2.39
306 317 1.447663 CCGACGACACATGGATGCA 60.448 57.895 0.00 0.00 0.00 3.96
309 320 0.824109 ATCACCGACGACACATGGAT 59.176 50.000 0.00 0.00 0.00 3.41
312 323 0.992072 GTCATCACCGACGACACATG 59.008 55.000 0.00 0.00 0.00 3.21
313 324 0.108804 GGTCATCACCGACGACACAT 60.109 55.000 0.00 0.00 36.73 3.21
315 326 4.164252 GGTCATCACCGACGACAC 57.836 61.111 0.00 0.00 36.73 3.67
324 369 0.716108 CTCAAACGCTCGGTCATCAC 59.284 55.000 0.00 0.00 0.00 3.06
356 403 3.563390 CCTGGAAATGAGCTTAGCTTAGC 59.437 47.826 16.83 16.83 39.88 3.09
358 405 4.844349 ACCTGGAAATGAGCTTAGCTTA 57.156 40.909 8.58 4.24 39.88 3.09
376 424 5.700402 AATACCTGCTGATCAGTTAACCT 57.300 39.130 23.38 3.18 41.25 3.50
377 425 5.758784 GGTAATACCTGCTGATCAGTTAACC 59.241 44.000 23.38 14.78 41.25 2.85
384 432 5.132502 CCAAATGGTAATACCTGCTGATCA 58.867 41.667 11.16 0.00 39.58 2.92
396 444 8.522830 CACAATTCTTGTAGACCAAATGGTAAT 58.477 33.333 4.79 0.08 45.59 1.89
436 486 4.571984 GGTTGCAAAAGCAAAACAGAGATT 59.428 37.500 0.00 0.00 0.00 2.40
462 516 2.619013 GTTCGCTGGAAATGAACCTG 57.381 50.000 0.00 0.00 36.79 4.00
468 522 1.368641 TGATCGGTTCGCTGGAAATG 58.631 50.000 0.00 0.00 33.05 2.32
470 524 1.153353 GTTGATCGGTTCGCTGGAAA 58.847 50.000 0.00 0.00 33.05 3.13
473 527 1.970917 GCTGTTGATCGGTTCGCTGG 61.971 60.000 0.00 0.00 0.00 4.85
476 530 1.571919 ATAGCTGTTGATCGGTTCGC 58.428 50.000 0.00 0.00 0.00 4.70
477 531 4.376413 GCATTATAGCTGTTGATCGGTTCG 60.376 45.833 0.00 0.00 0.00 3.95
503 557 2.125106 GGCCACCTCGAGCGAATT 60.125 61.111 6.99 0.00 0.00 2.17
514 568 2.040544 CATCCAACGTGAGGCCACC 61.041 63.158 5.01 0.00 40.12 4.61
518 572 1.635663 CGTTCCATCCAACGTGAGGC 61.636 60.000 2.51 0.00 43.41 4.70
519 573 2.456000 CGTTCCATCCAACGTGAGG 58.544 57.895 0.00 0.00 43.41 3.86
525 579 2.350102 GGTTCGTTTCGTTCCATCCAAC 60.350 50.000 0.00 0.00 0.00 3.77
526 580 1.874872 GGTTCGTTTCGTTCCATCCAA 59.125 47.619 0.00 0.00 0.00 3.53
527 581 1.515081 GGTTCGTTTCGTTCCATCCA 58.485 50.000 0.00 0.00 0.00 3.41
529 583 1.421382 TCGGTTCGTTTCGTTCCATC 58.579 50.000 0.00 0.00 0.00 3.51
530 584 1.868469 TTCGGTTCGTTTCGTTCCAT 58.132 45.000 0.00 0.00 0.00 3.41
532 586 2.365948 GTTTTCGGTTCGTTTCGTTCC 58.634 47.619 0.00 0.00 0.00 3.62
533 587 2.365948 GGTTTTCGGTTCGTTTCGTTC 58.634 47.619 0.00 0.00 0.00 3.95
534 588 1.267483 CGGTTTTCGGTTCGTTTCGTT 60.267 47.619 0.00 0.00 34.75 3.85
535 589 0.301388 CGGTTTTCGGTTCGTTTCGT 59.699 50.000 0.00 0.00 34.75 3.85
536 590 0.576328 TCGGTTTTCGGTTCGTTTCG 59.424 50.000 0.00 0.00 39.77 3.46
537 591 1.594397 ACTCGGTTTTCGGTTCGTTTC 59.406 47.619 0.00 0.00 39.77 2.78
539 593 0.932399 CACTCGGTTTTCGGTTCGTT 59.068 50.000 0.00 0.00 39.77 3.85
540 594 1.493134 GCACTCGGTTTTCGGTTCGT 61.493 55.000 0.00 0.00 39.77 3.85
541 595 1.203313 GCACTCGGTTTTCGGTTCG 59.797 57.895 0.00 0.00 39.77 3.95
542 596 0.872388 ATGCACTCGGTTTTCGGTTC 59.128 50.000 0.00 0.00 39.77 3.62
543 597 1.314730 AATGCACTCGGTTTTCGGTT 58.685 45.000 0.00 0.00 39.77 4.44
544 598 1.001815 CAAATGCACTCGGTTTTCGGT 60.002 47.619 0.00 0.00 39.77 4.69
545 599 1.685302 CAAATGCACTCGGTTTTCGG 58.315 50.000 0.00 0.00 39.77 4.30
546 600 1.052287 GCAAATGCACTCGGTTTTCG 58.948 50.000 0.00 0.00 41.59 3.46
548 602 1.039856 AGGCAAATGCACTCGGTTTT 58.960 45.000 7.80 0.00 44.36 2.43
550 604 1.039856 AAAGGCAAATGCACTCGGTT 58.960 45.000 7.80 0.00 44.36 4.44
553 607 1.666888 GGTCAAAGGCAAATGCACTCG 60.667 52.381 7.80 0.00 44.36 4.18
555 609 1.342174 CAGGTCAAAGGCAAATGCACT 59.658 47.619 7.80 0.00 44.36 4.40
556 610 1.340889 TCAGGTCAAAGGCAAATGCAC 59.659 47.619 7.80 0.00 44.36 4.57
557 611 1.702182 TCAGGTCAAAGGCAAATGCA 58.298 45.000 7.80 0.00 44.36 3.96
558 612 2.231964 TCATCAGGTCAAAGGCAAATGC 59.768 45.455 0.00 0.00 41.14 3.56
559 613 3.675228 GCTCATCAGGTCAAAGGCAAATG 60.675 47.826 0.00 0.00 0.00 2.32
562 616 1.202915 TGCTCATCAGGTCAAAGGCAA 60.203 47.619 0.00 0.00 0.00 4.52
563 617 0.401356 TGCTCATCAGGTCAAAGGCA 59.599 50.000 0.00 0.00 0.00 4.75
564 618 1.093159 CTGCTCATCAGGTCAAAGGC 58.907 55.000 0.00 0.00 39.15 4.35
566 620 3.935315 TCTTCTGCTCATCAGGTCAAAG 58.065 45.455 0.00 0.00 43.06 2.77
567 621 4.040829 TCTTCTTCTGCTCATCAGGTCAAA 59.959 41.667 0.00 0.00 43.06 2.69
568 622 3.580022 TCTTCTTCTGCTCATCAGGTCAA 59.420 43.478 0.00 0.00 43.06 3.18
569 623 3.168292 TCTTCTTCTGCTCATCAGGTCA 58.832 45.455 0.00 0.00 43.06 4.02
570 624 3.784338 CTCTTCTTCTGCTCATCAGGTC 58.216 50.000 0.00 0.00 43.06 3.85
571 625 2.093553 GCTCTTCTTCTGCTCATCAGGT 60.094 50.000 0.00 0.00 43.06 4.00
572 626 2.093606 TGCTCTTCTTCTGCTCATCAGG 60.094 50.000 0.00 0.00 43.06 3.86
574 628 3.597255 CTTGCTCTTCTTCTGCTCATCA 58.403 45.455 0.00 0.00 0.00 3.07
575 629 2.937799 CCTTGCTCTTCTTCTGCTCATC 59.062 50.000 0.00 0.00 0.00 2.92
577 631 1.610102 GCCTTGCTCTTCTTCTGCTCA 60.610 52.381 0.00 0.00 0.00 4.26
578 632 1.085893 GCCTTGCTCTTCTTCTGCTC 58.914 55.000 0.00 0.00 0.00 4.26
596 650 4.702131 ACTGATTAAAGAGGTGACAATGGC 59.298 41.667 0.00 0.00 0.00 4.40
597 651 6.093219 CAGACTGATTAAAGAGGTGACAATGG 59.907 42.308 0.00 0.00 0.00 3.16
598 652 6.875726 TCAGACTGATTAAAGAGGTGACAATG 59.124 38.462 0.00 0.00 0.00 2.82
599 653 7.009179 TCAGACTGATTAAAGAGGTGACAAT 57.991 36.000 0.00 0.00 0.00 2.71
601 655 6.419484 TTCAGACTGATTAAAGAGGTGACA 57.581 37.500 5.87 0.00 0.00 3.58
602 656 7.730364 TTTTCAGACTGATTAAAGAGGTGAC 57.270 36.000 5.87 0.00 0.00 3.67
612 666 7.939039 CCCCTGCTAATATTTTCAGACTGATTA 59.061 37.037 5.87 0.88 0.00 1.75
614 668 6.101734 TCCCCTGCTAATATTTTCAGACTGAT 59.898 38.462 5.87 0.00 0.00 2.90
615 669 5.428457 TCCCCTGCTAATATTTTCAGACTGA 59.572 40.000 14.57 0.00 0.00 3.41
616 670 5.684704 TCCCCTGCTAATATTTTCAGACTG 58.315 41.667 14.57 0.00 0.00 3.51
618 672 6.207614 GGATTCCCCTGCTAATATTTTCAGAC 59.792 42.308 14.57 0.00 0.00 3.51
637 691 3.987638 ATCCCCGGTGAGGATTCC 58.012 61.111 4.98 0.00 41.52 3.01
642 696 2.047061 TCTAATCAATCCCCGGTGAGG 58.953 52.381 0.00 0.00 40.63 3.86
647 701 3.326747 GTCGAATCTAATCAATCCCCGG 58.673 50.000 0.00 0.00 0.00 5.73
656 710 1.129326 CGCCCACGTCGAATCTAATC 58.871 55.000 0.00 0.00 33.53 1.75
694 749 0.838987 TGGCTAGGGTTCCTCCGTTT 60.839 55.000 0.00 0.00 34.61 3.60
712 767 1.275666 TCACCCACCCACTGATAGTG 58.724 55.000 2.05 2.05 45.53 2.74
714 769 1.141657 CCATCACCCACCCACTGATAG 59.858 57.143 0.00 0.00 0.00 2.08
716 771 0.846427 ACCATCACCCACCCACTGAT 60.846 55.000 0.00 0.00 0.00 2.90
717 772 1.463214 ACCATCACCCACCCACTGA 60.463 57.895 0.00 0.00 0.00 3.41
720 775 1.002134 CTCACCATCACCCACCCAC 60.002 63.158 0.00 0.00 0.00 4.61
721 776 1.463214 ACTCACCATCACCCACCCA 60.463 57.895 0.00 0.00 0.00 4.51
722 777 1.002134 CACTCACCATCACCCACCC 60.002 63.158 0.00 0.00 0.00 4.61
723 778 0.036010 CTCACTCACCATCACCCACC 60.036 60.000 0.00 0.00 0.00 4.61
775 836 5.383476 TGGACTTGTACTACCTATCTAGCC 58.617 45.833 0.00 0.00 0.00 3.93
791 852 5.007430 GCATTGATAGTGAGTGATGGACTTG 59.993 44.000 0.00 0.00 33.83 3.16
823 884 1.230314 CTTCCCTTCCCCTTCCCCT 60.230 63.158 0.00 0.00 0.00 4.79
826 887 1.304617 CAGCTTCCCTTCCCCTTCC 59.695 63.158 0.00 0.00 0.00 3.46
827 888 1.379176 GCAGCTTCCCTTCCCCTTC 60.379 63.158 0.00 0.00 0.00 3.46
828 889 1.438686 AAGCAGCTTCCCTTCCCCTT 61.439 55.000 0.21 0.00 0.00 3.95
830 891 1.379176 GAAGCAGCTTCCCTTCCCC 60.379 63.158 22.88 0.00 34.71 4.81
831 892 0.033699 ATGAAGCAGCTTCCCTTCCC 60.034 55.000 28.73 6.74 39.51 3.97
832 893 1.064832 AGATGAAGCAGCTTCCCTTCC 60.065 52.381 28.73 14.56 39.51 3.46
833 894 2.416680 AGATGAAGCAGCTTCCCTTC 57.583 50.000 28.73 21.87 39.51 3.46
836 897 3.949842 AAAAAGATGAAGCAGCTTCCC 57.050 42.857 28.73 20.74 39.25 3.97
884 996 2.201732 CCCGGACAGTGACGAATAATG 58.798 52.381 0.73 0.00 0.00 1.90
915 1027 3.373748 TGTAATGTTTATGGACTGCTGCG 59.626 43.478 0.00 0.00 0.00 5.18
946 1058 8.022550 TGCATCACATTTGTAACAACAAGATAG 58.977 33.333 0.00 0.00 0.00 2.08
952 1064 5.254339 TGTGCATCACATTTGTAACAACA 57.746 34.783 0.00 0.00 39.62 3.33
1034 2280 3.588210 ATGGACATGCATCAAGATGGA 57.412 42.857 11.66 9.31 43.22 3.41
1042 2288 5.404366 GCATATTGTTGAATGGACATGCATC 59.596 40.000 0.00 0.00 33.18 3.91
1051 2297 6.566141 TCAAGACATGCATATTGTTGAATGG 58.434 36.000 14.36 0.00 37.02 3.16
1132 2395 0.757188 TCCTCTTCCTCCTCCATCGC 60.757 60.000 0.00 0.00 0.00 4.58
1185 2466 4.357947 TCCTGCTCACACGCCGAC 62.358 66.667 0.00 0.00 0.00 4.79
1229 2525 0.041833 CCTCCTCCTCCTCTTCACCA 59.958 60.000 0.00 0.00 0.00 4.17
1232 2528 0.032615 GCTCCTCCTCCTCCTCTTCA 60.033 60.000 0.00 0.00 0.00 3.02
1236 2532 2.133641 GCTGCTCCTCCTCCTCCTC 61.134 68.421 0.00 0.00 0.00 3.71
1237 2533 2.042025 GCTGCTCCTCCTCCTCCT 60.042 66.667 0.00 0.00 0.00 3.69
1238 2534 2.364842 TGCTGCTCCTCCTCCTCC 60.365 66.667 0.00 0.00 0.00 4.30
1239 2535 3.092780 GCTGCTGCTCCTCCTCCTC 62.093 68.421 8.53 0.00 36.03 3.71
1240 2536 3.082701 GCTGCTGCTCCTCCTCCT 61.083 66.667 8.53 0.00 36.03 3.69
1241 2537 4.173924 GGCTGCTGCTCCTCCTCC 62.174 72.222 15.64 0.00 39.59 4.30
1363 2689 2.273449 CATGGTGGTGGAGGAGGC 59.727 66.667 0.00 0.00 0.00 4.70
1378 2710 1.482182 TGCTAGCTCGTCAATGTCCAT 59.518 47.619 17.23 0.00 0.00 3.41
1404 2736 3.918220 GCTGCGCATCCGTCTTCG 61.918 66.667 12.24 0.00 36.67 3.79
1413 2745 2.437359 GGGTTGAGAGCTGCGCAT 60.437 61.111 12.24 0.00 0.00 4.73
1441 2773 4.329545 GCACACCGGCTTCCTCCA 62.330 66.667 0.00 0.00 0.00 3.86
1471 2922 3.622756 GATGCTCGTCATCGGCAG 58.377 61.111 5.07 0.00 41.82 4.85
1605 3074 1.006571 TTCTTCTGCCGACGGTGAC 60.007 57.895 16.73 0.00 0.00 3.67
1616 3085 3.638160 CTCTCCATCTCCTCCTTCTTCTG 59.362 52.174 0.00 0.00 0.00 3.02
1620 3098 2.177669 CTCCTCTCCATCTCCTCCTTCT 59.822 54.545 0.00 0.00 0.00 2.85
1621 3099 2.597455 CTCCTCTCCATCTCCTCCTTC 58.403 57.143 0.00 0.00 0.00 3.46
1622 3100 1.220236 CCTCCTCTCCATCTCCTCCTT 59.780 57.143 0.00 0.00 0.00 3.36
1623 3101 0.859760 CCTCCTCTCCATCTCCTCCT 59.140 60.000 0.00 0.00 0.00 3.69
1624 3102 0.560688 ACCTCCTCTCCATCTCCTCC 59.439 60.000 0.00 0.00 0.00 4.30
1625 3103 1.703411 CACCTCCTCTCCATCTCCTC 58.297 60.000 0.00 0.00 0.00 3.71
1626 3104 0.264359 CCACCTCCTCTCCATCTCCT 59.736 60.000 0.00 0.00 0.00 3.69
1627 3105 0.762461 CCCACCTCCTCTCCATCTCC 60.762 65.000 0.00 0.00 0.00 3.71
1628 3106 0.762461 CCCCACCTCCTCTCCATCTC 60.762 65.000 0.00 0.00 0.00 2.75
1629 3107 1.316266 CCCCACCTCCTCTCCATCT 59.684 63.158 0.00 0.00 0.00 2.90
1630 3108 1.768077 CCCCCACCTCCTCTCCATC 60.768 68.421 0.00 0.00 0.00 3.51
1631 3109 2.263099 CTCCCCCACCTCCTCTCCAT 62.263 65.000 0.00 0.00 0.00 3.41
1632 3110 2.874245 TCCCCCACCTCCTCTCCA 60.874 66.667 0.00 0.00 0.00 3.86
1633 3111 2.041405 CTCCCCCACCTCCTCTCC 60.041 72.222 0.00 0.00 0.00 3.71
1634 3112 2.041405 CCTCCCCCACCTCCTCTC 60.041 72.222 0.00 0.00 0.00 3.20
1668 3146 1.524393 CAGCGCCACCATGCAGATA 60.524 57.895 2.29 0.00 0.00 1.98
2166 3654 1.881252 GTATGCCCACACGTAGCGG 60.881 63.158 0.00 0.00 0.00 5.52
2374 3862 1.030488 GGGATGTCGAGGTCTGACGA 61.030 60.000 1.07 0.00 39.22 4.20
2379 3867 1.040339 GCTGAGGGATGTCGAGGTCT 61.040 60.000 0.00 0.00 0.00 3.85
2388 3876 2.171237 TGTTGTCTATGGCTGAGGGATG 59.829 50.000 0.00 0.00 0.00 3.51
2423 3923 7.745717 AGAGAGTAGAGAACAGCAGAGTATAT 58.254 38.462 0.00 0.00 0.00 0.86
2471 3977 2.308722 GGGAGAAGGGTGGCCATCA 61.309 63.158 20.00 0.00 0.00 3.07
2475 3981 1.575447 AATCTGGGAGAAGGGTGGCC 61.575 60.000 0.00 0.00 0.00 5.36
2480 3986 3.160679 ACACAAAATCTGGGAGAAGGG 57.839 47.619 0.00 0.00 30.48 3.95
2637 4167 7.860009 TAGCTAAGCTAGGTATCAACCAACCTA 60.860 40.741 0.00 1.57 45.45 3.08
2679 4209 1.154205 CGATGGTGCCGATGAAGTCC 61.154 60.000 0.00 0.00 0.00 3.85
2680 4210 1.154205 CCGATGGTGCCGATGAAGTC 61.154 60.000 0.00 0.00 0.00 3.01
2681 4211 1.153369 CCGATGGTGCCGATGAAGT 60.153 57.895 0.00 0.00 0.00 3.01
2685 4215 3.576356 GTGCCGATGGTGCCGATG 61.576 66.667 0.00 0.00 0.00 3.84
2686 4216 4.856801 GGTGCCGATGGTGCCGAT 62.857 66.667 0.00 0.00 0.00 4.18
2693 4223 1.079127 AAGTTCGAGGTGCCGATGG 60.079 57.895 0.00 0.00 38.45 3.51
2701 4231 3.536956 TTGACAAGACAAGTTCGAGGT 57.463 42.857 0.00 0.00 0.00 3.85
2706 4236 2.290641 ACGCCATTGACAAGACAAGTTC 59.709 45.455 0.00 0.00 33.22 3.01
2708 4238 1.967319 ACGCCATTGACAAGACAAGT 58.033 45.000 0.00 0.00 33.22 3.16
2710 4240 3.472652 ACTTACGCCATTGACAAGACAA 58.527 40.909 0.00 0.00 0.00 3.18
2711 4241 3.120321 ACTTACGCCATTGACAAGACA 57.880 42.857 0.00 0.00 0.00 3.41
2765 4300 2.038007 AGGGCGAGAAGAGCTCCA 59.962 61.111 10.93 0.00 40.70 3.86
2970 4524 0.175302 CTAGGCTCACAGGTGCTGAG 59.825 60.000 0.00 0.00 38.59 3.35
3005 4591 5.503662 TTTGCATGTAGCCATTGTAGATG 57.496 39.130 0.00 0.00 44.83 2.90
3043 4677 4.106029 CTTGCTGAAAGGATTCCATGTG 57.894 45.455 5.29 0.00 30.66 3.21
3072 4706 1.741401 CAGAGCCGCCGATTTGTCA 60.741 57.895 0.00 0.00 0.00 3.58
3096 4730 4.147479 GCATGTGTGTTTAAGTTTAACGCC 59.853 41.667 13.92 7.51 35.65 5.68
3114 4748 4.973168 TCTTGAACTGACCTAAAGCATGT 58.027 39.130 0.00 0.00 0.00 3.21
3127 4768 3.312828 CGTCTCCAGACTTCTTGAACTG 58.687 50.000 5.21 0.00 42.66 3.16
3132 4776 2.297597 AGAACCGTCTCCAGACTTCTTG 59.702 50.000 5.21 0.00 42.66 3.02
3136 4780 2.228343 CGTTAGAACCGTCTCCAGACTT 59.772 50.000 5.21 0.00 42.66 3.01
3148 4792 7.859377 TGATATCATCTACGTTTCGTTAGAACC 59.141 37.037 0.00 0.00 41.54 3.62
3186 4831 5.188555 TGTCTTTCAGCTATCTCCTTGACAT 59.811 40.000 0.00 0.00 0.00 3.06
3375 5059 5.008712 CCGTTCACTACTATGTCTATGCAGA 59.991 44.000 0.00 0.00 0.00 4.26
3376 5060 5.008712 TCCGTTCACTACTATGTCTATGCAG 59.991 44.000 0.00 0.00 0.00 4.41
3377 5061 4.885325 TCCGTTCACTACTATGTCTATGCA 59.115 41.667 0.00 0.00 0.00 3.96
3378 5062 5.434352 TCCGTTCACTACTATGTCTATGC 57.566 43.478 0.00 0.00 0.00 3.14
3379 5063 7.260558 TCTTCCGTTCACTACTATGTCTATG 57.739 40.000 0.00 0.00 0.00 2.23


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

AutoCloner maintained by Alex Coulton.