Multiple sequence alignment - TraesCS7B01G448400

Loading Multiple Alignment...

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 TraesCS7B01G448400 chr7B 100.000 2954 0 0 1 2954 711188713 711191666 0.000000e+00 5456.0
1 TraesCS7B01G448400 chr7B 93.915 493 19 5 1 484 721655550 721656040 0.000000e+00 734.0
2 TraesCS7B01G448400 chr7B 93.413 501 14 4 1 483 251765943 251765444 0.000000e+00 725.0
3 TraesCS7B01G448400 chr7B 97.222 36 1 0 1139 1174 711189745 711189780 8.840000e-06 62.1
4 TraesCS7B01G448400 chr7B 97.222 36 1 0 1033 1068 711189851 711189886 8.840000e-06 62.1
5 TraesCS7B01G448400 chr7A 87.898 942 64 23 1241 2157 709771949 709772865 0.000000e+00 1062.0
6 TraesCS7B01G448400 chr7A 83.016 683 78 18 2287 2954 70092562 70091903 4.240000e-163 584.0
7 TraesCS7B01G448400 chr7A 86.252 531 35 25 510 1014 709770297 709770815 2.590000e-150 542.0
8 TraesCS7B01G448400 chr7A 81.709 667 78 26 2290 2933 281563091 281563736 1.570000e-142 516.0
9 TraesCS7B01G448400 chr7A 91.608 143 7 3 1070 1207 709770823 709770965 3.000000e-45 193.0
10 TraesCS7B01G448400 chr7D 89.399 849 47 23 1472 2286 617064842 617065681 0.000000e+00 1029.0
11 TraesCS7B01G448400 chr7D 82.734 695 77 26 2284 2954 603845542 603844867 1.970000e-161 579.0
12 TraesCS7B01G448400 chr7D 82.040 657 56 27 2285 2899 518568076 518567440 1.220000e-138 503.0
13 TraesCS7B01G448400 chr7D 92.982 342 14 3 673 1014 617064491 617064822 9.510000e-135 490.0
14 TraesCS7B01G448400 chr7D 91.860 86 7 0 1906 1991 617068754 617068839 1.440000e-23 121.0
15 TraesCS7B01G448400 chr7D 95.833 48 1 1 2205 2251 617069036 617069083 3.160000e-10 76.8
16 TraesCS7B01G448400 chr4A 95.519 491 14 6 1 484 740847275 740847764 0.000000e+00 778.0
17 TraesCS7B01G448400 chr4A 85.526 684 70 13 2286 2954 182696923 182697592 0.000000e+00 688.0
18 TraesCS7B01G448400 chr4A 84.882 549 67 10 2364 2899 718789344 718789889 9.310000e-150 540.0
19 TraesCS7B01G448400 chr4A 85.774 478 47 10 2496 2954 628205000 628204525 1.230000e-133 486.0
20 TraesCS7B01G448400 chr4A 92.163 319 25 0 2636 2954 634392270 634391952 4.490000e-123 451.0
21 TraesCS7B01G448400 chr5B 97.685 432 10 0 53 484 693128845 693128414 0.000000e+00 743.0
22 TraesCS7B01G448400 chr3D 86.377 690 74 10 2279 2954 544405380 544406063 0.000000e+00 736.0
23 TraesCS7B01G448400 chr2B 93.852 488 23 6 1 483 737270609 737271094 0.000000e+00 728.0
24 TraesCS7B01G448400 chr2B 85.498 662 74 12 2290 2933 407987877 407987220 0.000000e+00 671.0
25 TraesCS7B01G448400 chr2B 83.895 683 88 13 2290 2954 258680251 258680929 1.490000e-177 632.0
26 TraesCS7B01G448400 chr2B 86.680 518 49 9 2454 2954 19419582 19419068 9.250000e-155 556.0
27 TraesCS7B01G448400 chr2B 85.882 340 32 7 2393 2718 691411509 691411172 6.060000e-92 348.0
28 TraesCS7B01G448400 chr3B 93.083 506 17 10 1 489 685231538 685231034 0.000000e+00 725.0
29 TraesCS7B01G448400 chr2D 89.913 575 41 7 2393 2954 346152728 346153298 0.000000e+00 725.0
30 TraesCS7B01G448400 chrUn 93.293 492 26 7 1 487 235700593 235701082 0.000000e+00 719.0
31 TraesCS7B01G448400 chrUn 88.462 416 35 4 2550 2954 324123929 324123516 9.510000e-135 490.0
32 TraesCS7B01G448400 chr6B 92.915 494 23 7 1 483 703821626 703822118 0.000000e+00 708.0
33 TraesCS7B01G448400 chr6B 86.261 575 54 11 2397 2954 261447132 261446566 4.210000e-168 601.0
34 TraesCS7B01G448400 chr1A 92.562 484 28 4 1 483 460594005 460593529 0.000000e+00 688.0
35 TraesCS7B01G448400 chr1A 78.551 690 90 26 2290 2954 559621506 559622162 4.590000e-108 401.0
36 TraesCS7B01G448400 chr6D 88.256 579 48 12 2393 2954 446712019 446711444 0.000000e+00 675.0
37 TraesCS7B01G448400 chr3A 83.724 682 92 12 2289 2954 38017642 38016964 6.950000e-176 627.0
38 TraesCS7B01G448400 chr5D 87.621 517 45 10 2454 2954 445032876 445032363 1.530000e-162 582.0
39 TraesCS7B01G448400 chr5D 83.036 672 67 26 2290 2933 70213675 70214327 1.540000e-157 566.0
40 TraesCS7B01G448400 chr5A 85.565 478 49 9 2495 2954 64788274 64788749 1.590000e-132 483.0
41 TraesCS7B01G448400 chr1B 80.116 689 90 27 2289 2954 662166915 662166251 1.240000e-128 470.0
42 TraesCS7B01G448400 chr6A 79.352 494 65 21 2286 2760 88595991 88595516 2.210000e-81 313.0


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 TraesCS7B01G448400 chr7B 711188713 711191666 2953 False 1860.066667 5456 98.1480 1 2954 3 chr7B.!!$F2 2953
1 TraesCS7B01G448400 chr7A 709770297 709772865 2568 False 599.000000 1062 88.5860 510 2157 3 chr7A.!!$F2 1647
2 TraesCS7B01G448400 chr7A 70091903 70092562 659 True 584.000000 584 83.0160 2287 2954 1 chr7A.!!$R1 667
3 TraesCS7B01G448400 chr7A 281563091 281563736 645 False 516.000000 516 81.7090 2290 2933 1 chr7A.!!$F1 643
4 TraesCS7B01G448400 chr7D 603844867 603845542 675 True 579.000000 579 82.7340 2284 2954 1 chr7D.!!$R2 670
5 TraesCS7B01G448400 chr7D 518567440 518568076 636 True 503.000000 503 82.0400 2285 2899 1 chr7D.!!$R1 614
6 TraesCS7B01G448400 chr7D 617064491 617069083 4592 False 429.200000 1029 92.5185 673 2286 4 chr7D.!!$F1 1613
7 TraesCS7B01G448400 chr4A 182696923 182697592 669 False 688.000000 688 85.5260 2286 2954 1 chr4A.!!$F1 668
8 TraesCS7B01G448400 chr4A 718789344 718789889 545 False 540.000000 540 84.8820 2364 2899 1 chr4A.!!$F2 535
9 TraesCS7B01G448400 chr3D 544405380 544406063 683 False 736.000000 736 86.3770 2279 2954 1 chr3D.!!$F1 675
10 TraesCS7B01G448400 chr2B 407987220 407987877 657 True 671.000000 671 85.4980 2290 2933 1 chr2B.!!$R2 643
11 TraesCS7B01G448400 chr2B 258680251 258680929 678 False 632.000000 632 83.8950 2290 2954 1 chr2B.!!$F1 664
12 TraesCS7B01G448400 chr2B 19419068 19419582 514 True 556.000000 556 86.6800 2454 2954 1 chr2B.!!$R1 500
13 TraesCS7B01G448400 chr3B 685231034 685231538 504 True 725.000000 725 93.0830 1 489 1 chr3B.!!$R1 488
14 TraesCS7B01G448400 chr2D 346152728 346153298 570 False 725.000000 725 89.9130 2393 2954 1 chr2D.!!$F1 561
15 TraesCS7B01G448400 chr6B 261446566 261447132 566 True 601.000000 601 86.2610 2397 2954 1 chr6B.!!$R1 557
16 TraesCS7B01G448400 chr1A 559621506 559622162 656 False 401.000000 401 78.5510 2290 2954 1 chr1A.!!$F1 664
17 TraesCS7B01G448400 chr6D 446711444 446712019 575 True 675.000000 675 88.2560 2393 2954 1 chr6D.!!$R1 561
18 TraesCS7B01G448400 chr3A 38016964 38017642 678 True 627.000000 627 83.7240 2289 2954 1 chr3A.!!$R1 665
19 TraesCS7B01G448400 chr5D 445032363 445032876 513 True 582.000000 582 87.6210 2454 2954 1 chr5D.!!$R1 500
20 TraesCS7B01G448400 chr5D 70213675 70214327 652 False 566.000000 566 83.0360 2290 2933 1 chr5D.!!$F1 643
21 TraesCS7B01G448400 chr1B 662166251 662166915 664 True 470.000000 470 80.1160 2289 2954 1 chr1B.!!$R1 665

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
665 699 0.175989 GGGTTCAGATCCACGAGACC 59.824 60.0 0.0 0.0 0.0 3.85 F
1355 2350 0.033504 TTCCTCGTCAGCACCAAGAC 59.966 55.0 0.0 0.0 0.0 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1838 2847 0.313043 GAGGTCTCCGTTCGTGTCAA 59.687 55.0 0.00 0.0 0.0 3.18 R
2818 4038 1.076332 GCTCAGTTGACGCGGTAATT 58.924 50.0 12.47 0.0 0.0 1.40 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
186 202 0.959553 CACCCGTATCTATGCCGACT 59.040 55.000 0.00 0.00 0.00 4.18
193 209 2.044806 ATCTATGCCGACTGCCACCC 62.045 60.000 0.00 0.00 40.16 4.61
323 339 1.067582 GTCTGGGATAAGCCGACGG 59.932 63.158 10.29 10.29 37.63 4.79
436 452 1.823041 GACTAGGCCGACGGTAGCT 60.823 63.158 16.73 0.00 0.00 3.32
464 480 1.865865 ATATTTGGCTGTCGGCGTAG 58.134 50.000 6.85 8.19 42.94 3.51
483 499 1.229082 AGCCCTGTTCCGGTAGTGA 60.229 57.895 0.00 0.00 0.00 3.41
484 500 0.617820 AGCCCTGTTCCGGTAGTGAT 60.618 55.000 0.00 0.00 0.00 3.06
486 502 1.742750 GCCCTGTTCCGGTAGTGATTC 60.743 57.143 0.00 0.00 0.00 2.52
487 503 1.134491 CCCTGTTCCGGTAGTGATTCC 60.134 57.143 0.00 0.00 0.00 3.01
488 504 1.470979 CCTGTTCCGGTAGTGATTCCG 60.471 57.143 0.00 0.00 45.42 4.30
489 505 1.203994 CTGTTCCGGTAGTGATTCCGT 59.796 52.381 0.00 0.00 44.51 4.69
490 506 1.619827 TGTTCCGGTAGTGATTCCGTT 59.380 47.619 0.00 0.00 44.51 4.44
491 507 1.997606 GTTCCGGTAGTGATTCCGTTG 59.002 52.381 0.00 0.00 44.51 4.10
492 508 1.548081 TCCGGTAGTGATTCCGTTGA 58.452 50.000 0.00 0.00 44.51 3.18
493 509 2.104967 TCCGGTAGTGATTCCGTTGAT 58.895 47.619 0.00 0.00 44.51 2.57
494 510 3.289836 TCCGGTAGTGATTCCGTTGATA 58.710 45.455 0.00 0.00 44.51 2.15
495 511 3.700539 TCCGGTAGTGATTCCGTTGATAA 59.299 43.478 0.00 0.00 44.51 1.75
496 512 3.800506 CCGGTAGTGATTCCGTTGATAAC 59.199 47.826 0.00 0.00 44.51 1.89
497 513 4.441079 CCGGTAGTGATTCCGTTGATAACT 60.441 45.833 0.00 0.00 44.51 2.24
498 514 4.503007 CGGTAGTGATTCCGTTGATAACTG 59.497 45.833 0.00 0.00 41.58 3.16
499 515 5.657474 GGTAGTGATTCCGTTGATAACTGA 58.343 41.667 0.00 0.00 0.00 3.41
500 516 5.519206 GGTAGTGATTCCGTTGATAACTGAC 59.481 44.000 0.00 0.00 0.00 3.51
501 517 4.174009 AGTGATTCCGTTGATAACTGACG 58.826 43.478 0.00 0.00 36.61 4.35
502 518 4.082408 AGTGATTCCGTTGATAACTGACGA 60.082 41.667 0.00 0.00 38.99 4.20
503 519 4.031426 GTGATTCCGTTGATAACTGACGAC 59.969 45.833 0.00 0.00 38.99 4.34
504 520 3.646611 TTCCGTTGATAACTGACGACA 57.353 42.857 0.00 0.00 38.99 4.35
505 521 3.646611 TCCGTTGATAACTGACGACAA 57.353 42.857 0.00 0.00 38.99 3.18
506 522 3.311106 TCCGTTGATAACTGACGACAAC 58.689 45.455 0.00 0.00 38.99 3.32
551 567 4.398358 TCAACTCCGACTTGTAGTAGGATG 59.602 45.833 8.77 6.29 46.52 3.51
552 568 4.232188 ACTCCGACTTGTAGTAGGATGA 57.768 45.455 8.77 0.00 46.52 2.92
553 569 4.794334 ACTCCGACTTGTAGTAGGATGAT 58.206 43.478 8.77 0.00 46.52 2.45
554 570 4.580995 ACTCCGACTTGTAGTAGGATGATG 59.419 45.833 8.77 1.59 46.52 3.07
555 571 4.788679 TCCGACTTGTAGTAGGATGATGA 58.211 43.478 4.79 0.00 43.63 2.92
556 572 5.386060 TCCGACTTGTAGTAGGATGATGAT 58.614 41.667 4.79 0.00 43.63 2.45
557 573 5.833667 TCCGACTTGTAGTAGGATGATGATT 59.166 40.000 4.79 0.00 43.63 2.57
558 574 6.016192 TCCGACTTGTAGTAGGATGATGATTC 60.016 42.308 4.79 0.00 43.63 2.52
563 582 7.563188 ACTTGTAGTAGGATGATGATTCAGACT 59.437 37.037 0.00 0.00 34.73 3.24
575 594 6.544931 TGATGATTCAGACTGATTGATTTCCC 59.455 38.462 5.87 0.00 0.00 3.97
578 597 6.950041 TGATTCAGACTGATTGATTTCCCTTT 59.050 34.615 5.87 0.00 0.00 3.11
580 599 7.601705 TTCAGACTGATTGATTTCCCTTTTT 57.398 32.000 5.87 0.00 0.00 1.94
582 601 7.006509 TCAGACTGATTGATTTCCCTTTTTCT 58.993 34.615 0.00 0.00 0.00 2.52
591 610 6.242396 TGATTTCCCTTTTTCTACGGATTCA 58.758 36.000 0.00 0.00 0.00 2.57
615 634 6.428771 CAGTTTTGAATTCAAATTGCAGGGAT 59.571 34.615 29.13 9.07 44.30 3.85
620 639 1.064621 CAAATTGCAGGGATCGGCG 59.935 57.895 0.00 0.00 36.88 6.46
638 657 4.087510 GGCGACGCCTTTAAATAAAAGT 57.912 40.909 31.30 0.00 46.69 2.66
639 658 4.093514 GGCGACGCCTTTAAATAAAAGTC 58.906 43.478 31.30 0.00 46.69 3.01
640 659 4.378666 GGCGACGCCTTTAAATAAAAGTCA 60.379 41.667 31.30 0.00 46.69 3.41
641 660 5.329493 GCGACGCCTTTAAATAAAAGTCAT 58.671 37.500 9.14 0.00 42.68 3.06
642 661 5.451342 GCGACGCCTTTAAATAAAAGTCATC 59.549 40.000 9.14 4.60 42.68 2.92
643 662 5.963586 CGACGCCTTTAAATAAAAGTCATCC 59.036 40.000 12.24 0.00 42.68 3.51
644 663 6.402766 CGACGCCTTTAAATAAAAGTCATCCA 60.403 38.462 12.24 0.00 42.68 3.41
646 665 7.312899 ACGCCTTTAAATAAAAGTCATCCAAG 58.687 34.615 0.00 0.00 42.68 3.61
653 687 6.840780 AATAAAAGTCATCCAAGGGTTCAG 57.159 37.500 0.00 0.00 0.00 3.02
665 699 0.175989 GGGTTCAGATCCACGAGACC 59.824 60.000 0.00 0.00 0.00 3.85
667 701 1.135333 GGTTCAGATCCACGAGACCTC 59.865 57.143 0.00 0.00 0.00 3.85
692 726 1.291877 CTCTTTTCGTCGTGGGCAGG 61.292 60.000 0.00 0.00 0.00 4.85
705 739 1.202879 TGGGCAGGAAAGAAATCACGT 60.203 47.619 0.00 0.00 0.00 4.49
706 740 2.039216 TGGGCAGGAAAGAAATCACGTA 59.961 45.455 0.00 0.00 0.00 3.57
707 741 2.418976 GGGCAGGAAAGAAATCACGTAC 59.581 50.000 0.00 0.00 0.00 3.67
708 742 2.093783 GGCAGGAAAGAAATCACGTACG 59.906 50.000 15.01 15.01 0.00 3.67
736 770 0.605319 ACGCGAAAGGATGCCAAAGA 60.605 50.000 15.93 0.00 0.00 2.52
791 831 2.292828 AGAGCTAAGCCAAAGCCAAA 57.707 45.000 0.00 0.00 41.02 3.28
792 832 2.165998 AGAGCTAAGCCAAAGCCAAAG 58.834 47.619 0.00 0.00 41.02 2.77
793 833 0.605083 AGCTAAGCCAAAGCCAAAGC 59.395 50.000 0.00 0.00 41.02 3.51
794 834 0.390340 GCTAAGCCAAAGCCAAAGCC 60.390 55.000 0.00 0.00 41.25 4.35
795 835 0.968405 CTAAGCCAAAGCCAAAGCCA 59.032 50.000 0.00 0.00 41.25 4.75
796 836 1.344114 CTAAGCCAAAGCCAAAGCCAA 59.656 47.619 0.00 0.00 41.25 4.52
800 840 0.886043 CCAAAGCCAAAGCCAAAGCC 60.886 55.000 0.00 0.00 41.25 4.35
855 895 1.951602 CACTCCGGATACACCATACGA 59.048 52.381 3.57 0.00 44.37 3.43
1006 1046 2.969238 GGATCCTGGCGATGCACG 60.969 66.667 3.84 0.00 39.08 5.34
1015 1055 2.125952 CGATGCACGCCAGAGACA 60.126 61.111 0.00 0.00 34.51 3.41
1017 1057 1.374631 GATGCACGCCAGAGACACA 60.375 57.895 0.00 0.00 0.00 3.72
1018 1058 0.742281 GATGCACGCCAGAGACACAT 60.742 55.000 0.00 0.00 0.00 3.21
1019 1059 1.022982 ATGCACGCCAGAGACACATG 61.023 55.000 0.00 0.00 0.00 3.21
1021 1061 1.375140 CACGCCAGAGACACATGCT 60.375 57.895 0.00 0.00 0.00 3.79
1022 1062 0.952497 CACGCCAGAGACACATGCTT 60.952 55.000 0.00 0.00 0.00 3.91
1023 1063 0.671781 ACGCCAGAGACACATGCTTC 60.672 55.000 0.00 0.00 0.00 3.86
1024 1064 0.671472 CGCCAGAGACACATGCTTCA 60.671 55.000 0.00 0.00 0.00 3.02
1025 1065 0.801251 GCCAGAGACACATGCTTCAC 59.199 55.000 0.00 0.00 0.00 3.18
1026 1066 1.446907 CCAGAGACACATGCTTCACC 58.553 55.000 0.00 0.00 0.00 4.02
1027 1067 1.002888 CCAGAGACACATGCTTCACCT 59.997 52.381 0.00 0.00 0.00 4.00
1028 1068 2.551721 CCAGAGACACATGCTTCACCTT 60.552 50.000 0.00 0.00 0.00 3.50
1029 1069 2.740981 CAGAGACACATGCTTCACCTTC 59.259 50.000 0.00 0.00 0.00 3.46
1030 1070 1.728971 GAGACACATGCTTCACCTTCG 59.271 52.381 0.00 0.00 0.00 3.79
1031 1071 0.798776 GACACATGCTTCACCTTCGG 59.201 55.000 0.00 0.00 0.00 4.30
1032 1072 1.237285 ACACATGCTTCACCTTCGGC 61.237 55.000 0.00 0.00 0.00 5.54
1033 1073 1.675641 ACATGCTTCACCTTCGGCC 60.676 57.895 0.00 0.00 0.00 6.13
1034 1074 2.044946 ATGCTTCACCTTCGGCCC 60.045 61.111 0.00 0.00 0.00 5.80
1035 1075 2.905996 ATGCTTCACCTTCGGCCCA 61.906 57.895 0.00 0.00 0.00 5.36
1036 1076 2.044946 GCTTCACCTTCGGCCCAT 60.045 61.111 0.00 0.00 0.00 4.00
1037 1077 2.115291 GCTTCACCTTCGGCCCATC 61.115 63.158 0.00 0.00 0.00 3.51
1038 1078 1.604378 CTTCACCTTCGGCCCATCT 59.396 57.895 0.00 0.00 0.00 2.90
1039 1079 0.830648 CTTCACCTTCGGCCCATCTA 59.169 55.000 0.00 0.00 0.00 1.98
1040 1080 0.539986 TTCACCTTCGGCCCATCTAC 59.460 55.000 0.00 0.00 0.00 2.59
1041 1081 1.146263 CACCTTCGGCCCATCTACC 59.854 63.158 0.00 0.00 0.00 3.18
1042 1082 1.003051 ACCTTCGGCCCATCTACCT 59.997 57.895 0.00 0.00 0.00 3.08
1043 1083 1.049289 ACCTTCGGCCCATCTACCTC 61.049 60.000 0.00 0.00 0.00 3.85
1044 1084 1.749033 CTTCGGCCCATCTACCTCC 59.251 63.158 0.00 0.00 0.00 4.30
1045 1085 1.759459 CTTCGGCCCATCTACCTCCC 61.759 65.000 0.00 0.00 0.00 4.30
1046 1086 3.242291 CGGCCCATCTACCTCCCC 61.242 72.222 0.00 0.00 0.00 4.81
1047 1087 3.242291 GGCCCATCTACCTCCCCG 61.242 72.222 0.00 0.00 0.00 5.73
1048 1088 2.446036 GCCCATCTACCTCCCCGT 60.446 66.667 0.00 0.00 0.00 5.28
1049 1089 2.508751 GCCCATCTACCTCCCCGTC 61.509 68.421 0.00 0.00 0.00 4.79
1050 1090 2.201022 CCCATCTACCTCCCCGTCG 61.201 68.421 0.00 0.00 0.00 5.12
1051 1091 2.201022 CCATCTACCTCCCCGTCGG 61.201 68.421 3.60 3.60 0.00 4.79
1052 1092 2.521224 ATCTACCTCCCCGTCGGC 60.521 66.667 5.50 0.00 0.00 5.54
1053 1093 3.369410 ATCTACCTCCCCGTCGGCA 62.369 63.158 5.50 0.00 0.00 5.69
1054 1094 3.834799 CTACCTCCCCGTCGGCAC 61.835 72.222 5.50 0.00 0.00 5.01
1055 1095 4.682334 TACCTCCCCGTCGGCACA 62.682 66.667 5.50 0.00 0.00 4.57
1057 1097 4.323477 CCTCCCCGTCGGCACAAA 62.323 66.667 5.50 0.00 0.00 2.83
1058 1098 2.742372 CTCCCCGTCGGCACAAAG 60.742 66.667 5.50 0.00 0.00 2.77
1067 1107 2.872028 CGGCACAAAGCTGTTGTTC 58.128 52.632 10.38 7.05 44.86 3.18
1068 1108 0.929824 CGGCACAAAGCTGTTGTTCG 60.930 55.000 10.38 12.39 44.86 3.95
1116 1156 4.035102 GGCTTCACCTTCGGCCCT 62.035 66.667 0.00 0.00 38.77 5.19
1157 1202 2.201022 CCATCTACCTCCCCGTCGG 61.201 68.421 3.60 3.60 0.00 4.79
1158 1203 2.521224 ATCTACCTCCCCGTCGGC 60.521 66.667 5.50 0.00 0.00 5.54
1207 1252 2.811101 CCTTCGAGATGCTCCGCT 59.189 61.111 0.00 0.00 0.00 5.52
1210 1255 1.150567 CTTCGAGATGCTCCGCTTGG 61.151 60.000 0.00 0.00 0.00 3.61
1211 1256 1.604147 TTCGAGATGCTCCGCTTGGA 61.604 55.000 0.00 0.00 40.32 3.53
1270 2265 4.680537 AGTGGTCGCGGGAGGACT 62.681 66.667 6.13 4.91 34.82 3.85
1276 2271 4.856607 CGCGGGAGGACTTCGCTC 62.857 72.222 0.00 1.88 46.23 5.03
1288 2283 2.454832 CTTCGCTCACCAGCCCTTCA 62.455 60.000 0.00 0.00 43.56 3.02
1298 2293 1.133699 CCAGCCCTTCAATGCCTATGA 60.134 52.381 0.00 0.00 0.00 2.15
1321 2316 2.868331 CGTCGTACTCCGTGCACG 60.868 66.667 31.77 31.77 37.94 5.34
1324 2319 3.172575 CGTACTCCGTGCACGCTG 61.173 66.667 33.17 26.76 38.18 5.18
1325 2320 2.257371 GTACTCCGTGCACGCTGA 59.743 61.111 33.17 23.63 38.18 4.26
1326 2321 1.801913 GTACTCCGTGCACGCTGAG 60.802 63.158 31.18 31.18 38.18 3.35
1328 2323 4.056125 CTCCGTGCACGCTGAGGA 62.056 66.667 33.17 22.20 38.18 3.71
1336 2331 1.069765 CACGCTGAGGAACACACCT 59.930 57.895 0.00 0.00 43.64 4.00
1339 2334 0.951040 CGCTGAGGAACACACCTTCC 60.951 60.000 0.00 0.00 40.73 3.46
1355 2350 0.033504 TTCCTCGTCAGCACCAAGAC 59.966 55.000 0.00 0.00 0.00 3.01
1366 2361 0.708370 CACCAAGACGATTGACGACG 59.292 55.000 6.69 0.00 45.77 5.12
1367 2362 0.594602 ACCAAGACGATTGACGACGA 59.405 50.000 0.00 0.00 45.77 4.20
1368 2363 1.201647 ACCAAGACGATTGACGACGAT 59.798 47.619 0.00 0.00 45.77 3.73
1369 2364 1.583856 CCAAGACGATTGACGACGATG 59.416 52.381 0.00 0.00 45.77 3.84
1370 2365 1.007011 CAAGACGATTGACGACGATGC 60.007 52.381 0.00 0.00 45.77 3.91
1371 2366 0.525668 AGACGATTGACGACGATGCC 60.526 55.000 0.00 0.00 45.77 4.40
1372 2367 0.800683 GACGATTGACGACGATGCCA 60.801 55.000 0.00 0.00 45.77 4.92
1373 2368 1.076533 ACGATTGACGACGATGCCAC 61.077 55.000 0.00 0.00 45.77 5.01
1374 2369 1.752501 CGATTGACGACGATGCCACC 61.753 60.000 0.00 0.00 45.77 4.61
1375 2370 1.752501 GATTGACGACGATGCCACCG 61.753 60.000 0.00 0.00 0.00 4.94
1398 2393 1.569493 CACCTTCGCCTTTGACACG 59.431 57.895 0.00 0.00 0.00 4.49
1404 2399 0.878523 TCGCCTTTGACACGGTGAAG 60.879 55.000 16.29 8.04 36.91 3.02
1407 2402 0.868406 CCTTTGACACGGTGAAGCTC 59.132 55.000 16.29 2.17 0.00 4.09
1532 2527 3.714001 CCAGCTCTGCTCCTGCCA 61.714 66.667 0.00 0.00 36.40 4.92
1533 2528 2.350134 CAGCTCTGCTCCTGCCAA 59.650 61.111 0.00 0.00 36.40 4.52
1535 2530 3.132801 GCTCTGCTCCTGCCAAGC 61.133 66.667 0.00 0.00 38.12 4.01
1665 2660 1.635817 CCACCCTGGTCTACATGGGG 61.636 65.000 12.34 0.00 40.07 4.96
1718 2713 4.510711 CCTCTCCATTGATGAAGACAATCG 59.489 45.833 0.00 0.00 36.07 3.34
1741 2736 1.674611 GCACGTGAATGAGGACGACG 61.675 60.000 22.23 0.00 38.94 5.12
1742 2737 0.109919 CACGTGAATGAGGACGACGA 60.110 55.000 10.90 0.00 38.94 4.20
1743 2738 0.109873 ACGTGAATGAGGACGACGAC 60.110 55.000 0.00 0.00 38.94 4.34
1788 2783 0.326048 AGGAGGGAGATGTGGGTCTG 60.326 60.000 0.00 0.00 0.00 3.51
1807 2816 1.424493 GCACGGCTGCTGTGTCTATC 61.424 60.000 34.49 18.82 42.21 2.08
1808 2817 0.174389 CACGGCTGCTGTGTCTATCT 59.826 55.000 28.91 0.00 36.14 1.98
1809 2818 0.457851 ACGGCTGCTGTGTCTATCTC 59.542 55.000 14.35 0.00 0.00 2.75
1810 2819 0.743688 CGGCTGCTGTGTCTATCTCT 59.256 55.000 0.00 0.00 0.00 3.10
1811 2820 1.950216 CGGCTGCTGTGTCTATCTCTA 59.050 52.381 0.00 0.00 0.00 2.43
1812 2821 2.287308 CGGCTGCTGTGTCTATCTCTAC 60.287 54.545 0.00 0.00 0.00 2.59
1838 2847 1.830477 GACCACATTCTCTCTCAGCCT 59.170 52.381 0.00 0.00 0.00 4.58
1851 2860 1.300620 CAGCCTTGACACGAACGGA 60.301 57.895 0.00 0.00 0.00 4.69
1886 2895 1.675641 GCAGCTGTCGGGTGGAATT 60.676 57.895 16.64 0.00 43.02 2.17
1927 2936 2.754002 ACCACTAAGTCGTTCCTAGCTC 59.246 50.000 0.00 0.00 0.00 4.09
1929 2938 3.427773 CCACTAAGTCGTTCCTAGCTCAC 60.428 52.174 0.00 0.00 0.00 3.51
2039 3074 2.610438 ACACCCAGGCTGATTCATTT 57.390 45.000 17.94 0.00 0.00 2.32
2100 3136 2.289547 ACCATTTTCGTCGACAACAAGG 59.710 45.455 17.16 11.80 0.00 3.61
2104 3140 5.064707 CCATTTTCGTCGACAACAAGGATAT 59.935 40.000 17.16 0.00 0.00 1.63
2106 3142 6.636666 TTTTCGTCGACAACAAGGATATAC 57.363 37.500 17.16 0.00 0.00 1.47
2107 3143 3.943958 TCGTCGACAACAAGGATATACG 58.056 45.455 17.16 0.00 0.00 3.06
2188 3224 3.072622 AGGTGAGGAGAACAGTAAAACCC 59.927 47.826 0.00 0.00 0.00 4.11
2248 3285 3.016031 ACAAACATTGACAGTGCTCACA 58.984 40.909 2.63 0.00 0.00 3.58
2277 3314 1.019278 ACATTCGTGGACGTCATGGC 61.019 55.000 18.91 0.00 40.80 4.40
2556 3655 4.809958 TCTAAACGGTGTGTCGAAATTCAA 59.190 37.500 0.00 0.00 0.00 2.69
2586 3706 1.957186 CCGTTGAAACCCTCGCGAA 60.957 57.895 11.33 0.00 0.00 4.70
2639 3771 7.148523 GGGATGTTTCGACGAACTAGTTTAAAT 60.149 37.037 10.38 0.00 0.00 1.40
2655 3787 9.277565 CTAGTTTAAATATCAATGTGTGTGCAC 57.722 33.333 10.75 10.75 45.44 4.57
2680 3812 2.864343 GACTATATTGCCGCGTCAACTT 59.136 45.455 4.03 0.00 0.00 2.66
2722 3938 3.821033 AGTCCTGCCAACTAAACATCAAC 59.179 43.478 0.00 0.00 0.00 3.18
2757 3973 1.067425 ACTACATTGTCGCGCCAACTA 60.067 47.619 4.03 0.00 0.00 2.24
2778 3996 6.064060 ACTAAGCATATGTGTGTGCCAATAT 58.936 36.000 4.29 0.00 42.79 1.28
2818 4038 5.606505 TCAATGTGTGTGCAACTAGACTAA 58.393 37.500 0.00 0.00 38.04 2.24
2841 4061 0.736325 ACCGCGTCAACTGAGCATAC 60.736 55.000 4.92 0.00 0.00 2.39
2880 4111 5.593909 TCCTGCCAACTAAATATCAATGTGG 59.406 40.000 0.00 0.00 0.00 4.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
67 83 4.479993 GCGCTGTCCATCTGCCCT 62.480 66.667 0.00 0.00 37.66 5.19
123 139 1.810606 CGACCAGGAGCTATGCCGAT 61.811 60.000 0.00 0.00 0.00 4.18
203 219 1.517276 CGACGTCAAATCTATGCGGAC 59.483 52.381 17.16 0.00 0.00 4.79
206 222 3.360765 GCTAACGACGTCAAATCTATGCG 60.361 47.826 17.16 0.00 0.00 4.73
389 405 2.503546 GACAGCTAGCTCCTGGCC 59.496 66.667 16.15 0.00 38.77 5.36
436 452 3.138304 GACAGCCAAATATATGCCGACA 58.862 45.455 0.00 0.00 0.00 4.35
464 480 1.218316 CACTACCGGAACAGGGCTC 59.782 63.158 9.46 0.00 35.02 4.70
483 499 4.182693 TGTCGTCAGTTATCAACGGAAT 57.817 40.909 0.00 0.00 37.35 3.01
484 500 3.646611 TGTCGTCAGTTATCAACGGAA 57.353 42.857 0.00 0.00 37.35 4.30
486 502 3.700130 GTTGTCGTCAGTTATCAACGG 57.300 47.619 0.00 0.00 37.05 4.44
499 515 3.365565 GCAAAATATTGGGACGTTGTCGT 60.366 43.478 0.00 0.00 43.83 4.34
500 516 3.168193 GCAAAATATTGGGACGTTGTCG 58.832 45.455 0.00 0.00 38.80 4.35
501 517 3.507786 GGCAAAATATTGGGACGTTGTC 58.492 45.455 0.00 0.00 37.02 3.18
502 518 2.094957 CGGCAAAATATTGGGACGTTGT 60.095 45.455 6.68 0.00 37.02 3.32
503 519 2.525055 CGGCAAAATATTGGGACGTTG 58.475 47.619 6.68 0.00 37.02 4.10
504 520 1.135228 GCGGCAAAATATTGGGACGTT 60.135 47.619 14.22 0.00 37.02 3.99
505 521 0.454196 GCGGCAAAATATTGGGACGT 59.546 50.000 14.22 0.00 37.02 4.34
506 522 0.738389 AGCGGCAAAATATTGGGACG 59.262 50.000 9.80 9.80 37.02 4.79
507 523 1.748493 TCAGCGGCAAAATATTGGGAC 59.252 47.619 1.45 0.00 37.02 4.46
508 524 2.136298 TCAGCGGCAAAATATTGGGA 57.864 45.000 1.45 0.00 37.02 4.37
515 531 1.474077 GGAGTTGATCAGCGGCAAAAT 59.526 47.619 1.45 0.00 0.00 1.82
551 567 6.771749 AGGGAAATCAATCAGTCTGAATCATC 59.228 38.462 6.64 1.52 0.00 2.92
552 568 6.670617 AGGGAAATCAATCAGTCTGAATCAT 58.329 36.000 6.64 0.00 0.00 2.45
553 569 6.070951 AGGGAAATCAATCAGTCTGAATCA 57.929 37.500 6.64 0.00 0.00 2.57
554 570 7.401955 AAAGGGAAATCAATCAGTCTGAATC 57.598 36.000 6.64 0.00 0.00 2.52
555 571 7.787623 AAAAGGGAAATCAATCAGTCTGAAT 57.212 32.000 6.64 0.00 0.00 2.57
556 572 7.506938 AGAAAAAGGGAAATCAATCAGTCTGAA 59.493 33.333 6.64 0.00 0.00 3.02
557 573 7.006509 AGAAAAAGGGAAATCAATCAGTCTGA 58.993 34.615 4.68 4.68 0.00 3.27
558 574 7.224522 AGAAAAAGGGAAATCAATCAGTCTG 57.775 36.000 0.00 0.00 0.00 3.51
563 582 6.242396 TCCGTAGAAAAAGGGAAATCAATCA 58.758 36.000 0.00 0.00 30.66 2.57
575 594 9.463443 AATTCAAAACTGAATCCGTAGAAAAAG 57.537 29.630 1.06 0.00 37.52 2.27
578 597 8.160521 TGAATTCAAAACTGAATCCGTAGAAA 57.839 30.769 5.45 0.00 37.52 2.52
580 599 7.737972 TTGAATTCAAAACTGAATCCGTAGA 57.262 32.000 18.45 0.00 37.52 2.59
632 651 5.576563 TCTGAACCCTTGGATGACTTTTA 57.423 39.130 0.00 0.00 0.00 1.52
633 652 4.453480 TCTGAACCCTTGGATGACTTTT 57.547 40.909 0.00 0.00 0.00 2.27
636 655 2.507471 GGATCTGAACCCTTGGATGACT 59.493 50.000 0.00 0.00 0.00 3.41
637 656 2.239654 TGGATCTGAACCCTTGGATGAC 59.760 50.000 1.16 0.00 0.00 3.06
638 657 2.239654 GTGGATCTGAACCCTTGGATGA 59.760 50.000 1.16 0.00 0.00 2.92
639 658 2.648059 GTGGATCTGAACCCTTGGATG 58.352 52.381 1.16 0.00 0.00 3.51
640 659 1.210478 CGTGGATCTGAACCCTTGGAT 59.790 52.381 1.16 0.00 0.00 3.41
641 660 0.613260 CGTGGATCTGAACCCTTGGA 59.387 55.000 1.16 0.00 0.00 3.53
642 661 0.613260 TCGTGGATCTGAACCCTTGG 59.387 55.000 1.16 0.00 0.00 3.61
643 662 1.550524 TCTCGTGGATCTGAACCCTTG 59.449 52.381 1.16 0.00 0.00 3.61
644 663 1.550976 GTCTCGTGGATCTGAACCCTT 59.449 52.381 1.16 0.00 0.00 3.95
646 665 0.175989 GGTCTCGTGGATCTGAACCC 59.824 60.000 1.16 0.00 0.00 4.11
665 699 1.396543 CGACGAAAAGAGCGGACGAG 61.397 60.000 0.00 0.00 35.81 4.18
667 701 1.728426 ACGACGAAAAGAGCGGACG 60.728 57.895 0.00 0.00 38.10 4.79
692 726 5.219804 CGTCTTCTCGTACGTGATTTCTTTC 60.220 44.000 19.53 6.88 34.48 2.62
705 739 0.512518 TTTCGCGTCGTCTTCTCGTA 59.487 50.000 5.77 0.00 0.00 3.43
706 740 0.725118 CTTTCGCGTCGTCTTCTCGT 60.725 55.000 5.77 0.00 0.00 4.18
707 741 1.396543 CCTTTCGCGTCGTCTTCTCG 61.397 60.000 5.77 0.00 0.00 4.04
708 742 0.109873 TCCTTTCGCGTCGTCTTCTC 60.110 55.000 5.77 0.00 0.00 2.87
810 850 4.536316 TCGAGGACGAGGTAGAGC 57.464 61.111 0.00 0.00 43.81 4.09
855 895 1.106944 CGGGCAACAGGTTCACCTTT 61.107 55.000 0.00 0.00 46.09 3.11
883 923 4.384647 GGAAGAATAGGTCTGCTCATGGTT 60.385 45.833 0.00 0.00 36.40 3.67
1006 1046 0.801251 GTGAAGCATGTGTCTCTGGC 59.199 55.000 0.00 0.00 0.00 4.85
1026 1066 1.749033 GGAGGTAGATGGGCCGAAG 59.251 63.158 0.00 0.00 0.00 3.79
1027 1067 1.764854 GGGAGGTAGATGGGCCGAA 60.765 63.158 0.00 0.00 0.00 4.30
1028 1068 2.122989 GGGAGGTAGATGGGCCGA 60.123 66.667 0.00 0.00 0.00 5.54
1029 1069 3.242291 GGGGAGGTAGATGGGCCG 61.242 72.222 0.00 0.00 0.00 6.13
1030 1070 3.242291 CGGGGAGGTAGATGGGCC 61.242 72.222 0.00 0.00 0.00 5.80
1031 1071 2.446036 ACGGGGAGGTAGATGGGC 60.446 66.667 0.00 0.00 0.00 5.36
1032 1072 2.201022 CGACGGGGAGGTAGATGGG 61.201 68.421 0.00 0.00 0.00 4.00
1033 1073 2.201022 CCGACGGGGAGGTAGATGG 61.201 68.421 5.81 0.00 38.47 3.51
1034 1074 2.857744 GCCGACGGGGAGGTAGATG 61.858 68.421 17.22 0.00 38.47 2.90
1035 1075 2.521224 GCCGACGGGGAGGTAGAT 60.521 66.667 17.22 0.00 38.47 1.98
1036 1076 4.051167 TGCCGACGGGGAGGTAGA 62.051 66.667 17.22 0.00 38.47 2.59
1037 1077 3.834799 GTGCCGACGGGGAGGTAG 61.835 72.222 17.22 0.00 38.47 3.18
1038 1078 4.682334 TGTGCCGACGGGGAGGTA 62.682 66.667 17.22 0.00 38.47 3.08
1040 1080 4.323477 TTTGTGCCGACGGGGAGG 62.323 66.667 17.22 0.00 38.47 4.30
1041 1081 2.742372 CTTTGTGCCGACGGGGAG 60.742 66.667 17.22 0.00 38.47 4.30
1044 1084 3.726517 CAGCTTTGTGCCGACGGG 61.727 66.667 17.22 0.00 44.23 5.28
1045 1085 2.542907 AACAGCTTTGTGCCGACGG 61.543 57.895 10.29 10.29 44.23 4.79
1046 1086 1.369209 CAACAGCTTTGTGCCGACG 60.369 57.895 0.00 0.00 44.23 5.12
1047 1087 0.100503 AACAACAGCTTTGTGCCGAC 59.899 50.000 12.87 0.00 44.23 4.79
1048 1088 0.380378 GAACAACAGCTTTGTGCCGA 59.620 50.000 12.87 0.00 44.23 5.54
1049 1089 0.929824 CGAACAACAGCTTTGTGCCG 60.930 55.000 12.87 14.17 44.23 5.69
1050 1090 0.594796 CCGAACAACAGCTTTGTGCC 60.595 55.000 12.87 8.62 44.23 5.01
1051 1091 0.100503 ACCGAACAACAGCTTTGTGC 59.899 50.000 12.87 10.78 43.29 4.57
1052 1092 1.670811 AGACCGAACAACAGCTTTGTG 59.329 47.619 12.87 1.59 32.22 3.33
1053 1093 2.038387 AGACCGAACAACAGCTTTGT 57.962 45.000 8.03 8.03 0.00 2.83
1054 1094 2.287009 GGAAGACCGAACAACAGCTTTG 60.287 50.000 6.98 6.98 0.00 2.77
1055 1095 1.947456 GGAAGACCGAACAACAGCTTT 59.053 47.619 0.00 0.00 0.00 3.51
1056 1096 1.594331 GGAAGACCGAACAACAGCTT 58.406 50.000 0.00 0.00 0.00 3.74
1057 1097 0.250338 GGGAAGACCGAACAACAGCT 60.250 55.000 0.00 0.00 36.97 4.24
1058 1098 1.235281 GGGGAAGACCGAACAACAGC 61.235 60.000 0.00 0.00 41.60 4.40
1059 1099 0.107831 TGGGGAAGACCGAACAACAG 59.892 55.000 0.00 0.00 41.60 3.16
1060 1100 0.768622 ATGGGGAAGACCGAACAACA 59.231 50.000 0.00 0.00 41.60 3.33
1061 1101 1.165270 CATGGGGAAGACCGAACAAC 58.835 55.000 0.00 0.00 41.60 3.32
1062 1102 0.608035 GCATGGGGAAGACCGAACAA 60.608 55.000 0.00 0.00 41.60 2.83
1063 1103 1.002624 GCATGGGGAAGACCGAACA 60.003 57.895 0.00 0.00 41.60 3.18
1064 1104 1.026718 CAGCATGGGGAAGACCGAAC 61.027 60.000 0.00 0.00 41.60 3.95
1065 1105 1.299648 CAGCATGGGGAAGACCGAA 59.700 57.895 0.00 0.00 41.60 4.30
1066 1106 2.989639 CAGCATGGGGAAGACCGA 59.010 61.111 0.00 0.00 41.60 4.69
1092 1132 4.394712 AAGGTGAAGCCCCGCGAG 62.395 66.667 8.23 0.00 38.26 5.03
1121 1161 0.394565 GGGATTGAGAGTATGCCGCT 59.605 55.000 0.00 0.00 0.00 5.52
1123 1163 2.301296 AGATGGGATTGAGAGTATGCCG 59.699 50.000 0.00 0.00 36.38 5.69
1125 1165 4.530161 AGGTAGATGGGATTGAGAGTATGC 59.470 45.833 0.00 0.00 0.00 3.14
1157 1202 0.595825 GGTGAACAGCAGCTTTGTGC 60.596 55.000 0.00 0.72 44.35 4.57
1158 1203 0.031178 GGGTGAACAGCAGCTTTGTG 59.969 55.000 0.00 0.00 44.32 3.33
1188 1233 2.656651 CGGAGCATCTCGAAGGCG 60.657 66.667 0.00 0.00 39.35 5.52
1224 1269 4.301027 GACCTATCCTGCGGCGGG 62.301 72.222 22.11 22.11 0.00 6.13
1225 1270 4.301027 GGACCTATCCTGCGGCGG 62.301 72.222 9.78 0.65 42.45 6.13
1261 2256 2.182030 GTGAGCGAAGTCCTCCCG 59.818 66.667 0.00 0.00 0.00 5.14
1275 2270 1.304381 GGCATTGAAGGGCTGGTGA 60.304 57.895 0.00 0.00 0.00 4.02
1276 2271 0.034186 TAGGCATTGAAGGGCTGGTG 60.034 55.000 16.30 0.00 41.71 4.17
1308 2303 1.801913 CTCAGCGTGCACGGAGTAC 60.802 63.158 37.47 21.86 41.61 2.73
1321 2316 2.934083 GGAAGGTGTGTTCCTCAGC 58.066 57.895 0.00 0.00 42.57 4.26
1326 2321 0.391597 TGACGAGGAAGGTGTGTTCC 59.608 55.000 0.00 0.00 45.76 3.62
1328 2323 0.249911 GCTGACGAGGAAGGTGTGTT 60.250 55.000 0.00 0.00 0.00 3.32
1336 2331 0.033504 GTCTTGGTGCTGACGAGGAA 59.966 55.000 0.00 0.00 0.00 3.36
1355 2350 1.631072 GTGGCATCGTCGTCAATCG 59.369 57.895 0.00 0.00 41.41 3.34
1357 2352 1.809619 CGGTGGCATCGTCGTCAAT 60.810 57.895 12.96 0.00 0.00 2.57
1358 2353 2.431771 CGGTGGCATCGTCGTCAA 60.432 61.111 12.96 0.00 0.00 3.18
1359 2354 3.336715 CTCGGTGGCATCGTCGTCA 62.337 63.158 20.91 0.00 0.00 4.35
1370 2365 4.760047 CGAAGGTGGCCTCGGTGG 62.760 72.222 3.32 0.00 39.35 4.61
1398 2393 1.959226 TTTCCACGCGAGCTTCACC 60.959 57.895 15.93 0.00 0.00 4.02
1404 2399 3.016474 GAGCAGTTTCCACGCGAGC 62.016 63.158 15.93 3.27 0.00 5.03
1407 2402 3.777925 CCGAGCAGTTTCCACGCG 61.778 66.667 3.53 3.53 0.00 6.01
1532 2527 2.592993 TAGGCAGAGTTGGGCGCTT 61.593 57.895 7.64 0.00 35.71 4.68
1533 2528 3.003173 TAGGCAGAGTTGGGCGCT 61.003 61.111 7.64 0.00 35.71 5.92
1535 2530 1.741770 GTGTAGGCAGAGTTGGGCG 60.742 63.158 0.00 0.00 35.71 6.13
1541 2536 3.760035 CGGCGGTGTAGGCAGAGT 61.760 66.667 0.00 0.00 36.37 3.24
1718 2713 1.375908 TCCTCATTCACGTGCTGCC 60.376 57.895 11.67 0.00 0.00 4.85
1741 2736 1.452833 GGGCTTGATCAGGGCAGTC 60.453 63.158 28.66 10.63 34.60 3.51
1742 2737 1.919600 GAGGGCTTGATCAGGGCAGT 61.920 60.000 28.66 17.39 34.60 4.40
1743 2738 1.153005 GAGGGCTTGATCAGGGCAG 60.153 63.158 28.66 10.43 34.60 4.85
1807 2816 3.926616 AGAATGTGGTCAAACGGTAGAG 58.073 45.455 0.00 0.00 0.00 2.43
1808 2817 3.576982 AGAGAATGTGGTCAAACGGTAGA 59.423 43.478 0.00 0.00 0.00 2.59
1809 2818 3.926616 AGAGAATGTGGTCAAACGGTAG 58.073 45.455 0.00 0.00 0.00 3.18
1810 2819 3.576982 AGAGAGAATGTGGTCAAACGGTA 59.423 43.478 0.00 0.00 0.00 4.02
1811 2820 2.368875 AGAGAGAATGTGGTCAAACGGT 59.631 45.455 0.00 0.00 0.00 4.83
1812 2821 2.996621 GAGAGAGAATGTGGTCAAACGG 59.003 50.000 0.00 0.00 0.00 4.44
1838 2847 0.313043 GAGGTCTCCGTTCGTGTCAA 59.687 55.000 0.00 0.00 0.00 3.18
1851 2860 2.408241 GCCGCTAGTCGTGAGGTCT 61.408 63.158 5.97 0.00 36.19 3.85
1927 2936 1.135315 CCAAAATGCCACAGGATCGTG 60.135 52.381 13.73 13.73 36.61 4.35
1929 2938 1.462616 TCCAAAATGCCACAGGATCG 58.537 50.000 0.00 0.00 0.00 3.69
1980 2989 6.317088 ACATAGAATGCAACGAAACTGAATG 58.683 36.000 0.00 0.00 0.00 2.67
2016 3051 1.915489 TGAATCAGCCTGGGTGTACAT 59.085 47.619 23.89 9.05 32.43 2.29
2017 3052 1.357137 TGAATCAGCCTGGGTGTACA 58.643 50.000 23.89 18.27 32.43 2.90
2039 3074 8.722394 TGAAAACATAACGCAATACATTCACTA 58.278 29.630 0.00 0.00 0.00 2.74
2045 3080 9.469807 TTTTCTTGAAAACATAACGCAATACAT 57.530 25.926 4.61 0.00 0.00 2.29
2080 3116 2.546368 TCCTTGTTGTCGACGAAAATGG 59.454 45.455 8.90 11.94 0.00 3.16
2104 3140 7.279615 AGGGTCATGAAATTATCAATGACGTA 58.720 34.615 0.00 0.00 41.91 3.57
2106 3142 6.564686 CGAGGGTCATGAAATTATCAATGACG 60.565 42.308 0.00 0.00 41.91 4.35
2107 3143 6.483307 TCGAGGGTCATGAAATTATCAATGAC 59.517 38.462 0.00 6.17 42.54 3.06
2168 3204 4.081322 TGGGTTTTACTGTTCTCCTCAC 57.919 45.455 0.00 0.00 0.00 3.51
2170 3206 6.459670 TTTTTGGGTTTTACTGTTCTCCTC 57.540 37.500 0.00 0.00 0.00 3.71
2248 3285 4.215399 ACGTCCACGAATGTCATTTCATTT 59.785 37.500 6.03 0.00 43.02 2.32
2531 3630 5.293814 TGAATTTCGACACACCGTTTAGAAA 59.706 36.000 0.00 0.00 33.48 2.52
2540 3639 3.058501 ACGGATTTGAATTTCGACACACC 60.059 43.478 0.00 0.00 0.00 4.16
2586 3706 5.649831 GTGGGATCTATTTTTGAAGAGCACT 59.350 40.000 0.00 0.00 32.75 4.40
2655 3787 2.228103 TGACGCGGCAATATAGTCTAGG 59.772 50.000 15.11 0.00 33.40 3.02
2680 3812 8.630037 CAGGACTATTGACACACACATATACTA 58.370 37.037 0.00 0.00 0.00 1.82
2722 3938 3.007979 TGTAGTCTAGTTGCACACACG 57.992 47.619 0.00 0.00 0.00 4.49
2757 3973 5.221303 GGAATATTGGCACACACATATGCTT 60.221 40.000 1.58 0.00 41.74 3.91
2778 3996 4.832266 ACATTGATGTTTAGTTGGCAGGAA 59.168 37.500 0.00 0.00 37.90 3.36
2818 4038 1.076332 GCTCAGTTGACGCGGTAATT 58.924 50.000 12.47 0.00 0.00 1.40
2841 4061 3.262420 GGCAGGACTAGTTACACACATG 58.738 50.000 0.00 0.00 0.00 3.21
2880 4111 2.678336 GGCAATGTAGTCTAGTTGCACC 59.322 50.000 22.09 9.59 46.46 5.01


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

AutoCloner maintained by Alex Coulton.