Multiple sequence alignment - TraesCS7D01G079200

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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 TraesCS7D01G079200 chr7D 100.000 4313 0 0 1 4313 46811895 46807583 0.000000e+00 7965.0
1 TraesCS7D01G079200 chr7D 96.491 57 2 0 643 699 46811305 46811249 1.280000e-15 95.3
2 TraesCS7D01G079200 chr4A 93.427 3621 142 27 783 4313 660756026 660752412 0.000000e+00 5280.0
3 TraesCS7D01G079200 chr4A 93.422 3466 142 26 920 4313 660769731 660766280 0.000000e+00 5059.0
4 TraesCS7D01G079200 chr4A 82.249 169 22 5 1122 1289 602336129 602336290 5.820000e-29 139.0
5 TraesCS7D01G079200 chr7A 88.564 3454 257 60 920 4305 48908637 48905254 0.000000e+00 4063.0
6 TraesCS7D01G079200 chrUn 89.918 972 41 17 783 1697 289198644 289199615 0.000000e+00 1199.0
7 TraesCS7D01G079200 chrUn 90.851 470 28 6 3853 4313 49217022 49216559 2.200000e-172 616.0
8 TraesCS7D01G079200 chrUn 90.851 470 28 6 3853 4313 273547414 273546951 2.200000e-172 616.0
9 TraesCS7D01G079200 chr2A 90.093 646 61 3 3 647 404942915 404942272 0.000000e+00 835.0
10 TraesCS7D01G079200 chr2A 89.214 649 64 6 3 647 396189348 396189994 0.000000e+00 806.0
11 TraesCS7D01G079200 chr4D 88.527 645 74 0 3 647 375391351 375391995 0.000000e+00 782.0
12 TraesCS7D01G079200 chr4D 85.567 97 12 2 2994 3089 3234448 3234353 2.740000e-17 100.0
13 TraesCS7D01G079200 chr5B 87.771 646 77 2 3 647 37392375 37391731 0.000000e+00 754.0
14 TraesCS7D01G079200 chr4B 87.616 646 77 3 3 647 533735312 533734669 0.000000e+00 747.0
15 TraesCS7D01G079200 chr4B 83.333 96 16 0 2994 3089 2687108 2687203 5.940000e-14 89.8
16 TraesCS7D01G079200 chr5D 87.481 647 79 2 2 647 21279533 21280178 0.000000e+00 745.0
17 TraesCS7D01G079200 chr5D 87.917 629 75 1 2 630 460698035 460698662 0.000000e+00 739.0
18 TraesCS7D01G079200 chr3D 87.152 646 81 2 3 647 87336182 87335538 0.000000e+00 732.0
19 TraesCS7D01G079200 chr6A 87.092 643 81 2 6 647 76619869 76619228 0.000000e+00 726.0
20 TraesCS7D01G079200 chr6A 74.224 1160 229 46 1061 2176 8598633 8599766 5.160000e-114 422.0
21 TraesCS7D01G079200 chr6D 90.780 141 13 0 1049 1189 8259466 8259326 5.690000e-44 189.0
22 TraesCS7D01G079200 chr3B 90.698 129 10 1 643 771 793247246 793247372 2.060000e-38 171.0


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 TraesCS7D01G079200 chr7D 46807583 46811895 4312 True 4030.15 7965 98.2455 1 4313 2 chr7D.!!$R1 4312
1 TraesCS7D01G079200 chr4A 660752412 660756026 3614 True 5280.00 5280 93.4270 783 4313 1 chr4A.!!$R1 3530
2 TraesCS7D01G079200 chr4A 660766280 660769731 3451 True 5059.00 5059 93.4220 920 4313 1 chr4A.!!$R2 3393
3 TraesCS7D01G079200 chr7A 48905254 48908637 3383 True 4063.00 4063 88.5640 920 4305 1 chr7A.!!$R1 3385
4 TraesCS7D01G079200 chrUn 289198644 289199615 971 False 1199.00 1199 89.9180 783 1697 1 chrUn.!!$F1 914
5 TraesCS7D01G079200 chr2A 404942272 404942915 643 True 835.00 835 90.0930 3 647 1 chr2A.!!$R1 644
6 TraesCS7D01G079200 chr2A 396189348 396189994 646 False 806.00 806 89.2140 3 647 1 chr2A.!!$F1 644
7 TraesCS7D01G079200 chr4D 375391351 375391995 644 False 782.00 782 88.5270 3 647 1 chr4D.!!$F1 644
8 TraesCS7D01G079200 chr5B 37391731 37392375 644 True 754.00 754 87.7710 3 647 1 chr5B.!!$R1 644
9 TraesCS7D01G079200 chr4B 533734669 533735312 643 True 747.00 747 87.6160 3 647 1 chr4B.!!$R1 644
10 TraesCS7D01G079200 chr5D 21279533 21280178 645 False 745.00 745 87.4810 2 647 1 chr5D.!!$F1 645
11 TraesCS7D01G079200 chr5D 460698035 460698662 627 False 739.00 739 87.9170 2 630 1 chr5D.!!$F2 628
12 TraesCS7D01G079200 chr3D 87335538 87336182 644 True 732.00 732 87.1520 3 647 1 chr3D.!!$R1 644
13 TraesCS7D01G079200 chr6A 76619228 76619869 641 True 726.00 726 87.0920 6 647 1 chr6A.!!$R1 641
14 TraesCS7D01G079200 chr6A 8598633 8599766 1133 False 422.00 422 74.2240 1061 2176 1 chr6A.!!$F1 1115

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
896 900 0.030908 CGACGCACCTCCTATCCTTC 59.969 60.000 0.0 0.0 0.0 3.46 F
906 913 0.753262 CCTATCCTTCACCCACGGAG 59.247 60.000 0.0 0.0 0.0 4.63 F
1563 1625 1.080705 GTGCGAGGTCTACGTGCTT 60.081 57.895 0.0 0.0 0.0 3.91 F
2753 2821 0.108804 ACGGATTGCGTGACGAAGAT 60.109 50.000 10.1 0.0 0.0 2.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2682 2750 0.107410 TCCCAGTGTCAAAGTTGCGT 60.107 50.0 0.00 0.0 0.00 5.24 R
2743 2811 0.741221 GGAGCCACCATCTTCGTCAC 60.741 60.0 0.00 0.0 38.79 3.67 R
3162 3230 0.394192 CCAGTGCTCTTCCAGTGTCA 59.606 55.0 0.00 0.0 34.98 3.58 R
3613 3704 1.093159 AGTCCTGTACGACACGGATC 58.907 55.0 4.09 0.0 35.28 3.36 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
139 140 6.204882 ACTTTTCTCCATTAAACAGAACCGAG 59.795 38.462 0.00 0.00 0.00 4.63
301 305 5.299531 GCTGTTTTTCTTTGACTTACTCCCT 59.700 40.000 0.00 0.00 0.00 4.20
302 306 6.513556 GCTGTTTTTCTTTGACTTACTCCCTC 60.514 42.308 0.00 0.00 0.00 4.30
322 326 5.745294 CCCTCTCATAAAATGCAAACATTCG 59.255 40.000 0.00 0.00 45.90 3.34
325 329 7.967854 CCTCTCATAAAATGCAAACATTCGTAA 59.032 33.333 0.00 0.00 45.90 3.18
337 341 7.900864 TGCAAACATTCGTAAGTCGTAATTATG 59.099 33.333 0.00 0.00 40.80 1.90
369 373 2.441750 TGAGCCTACCAGGAACAAAAGT 59.558 45.455 0.00 0.00 37.67 2.66
370 374 2.814336 GAGCCTACCAGGAACAAAAGTG 59.186 50.000 0.00 0.00 37.67 3.16
402 406 4.005650 TCTGAGATGATGTCTGGCAAAAC 58.994 43.478 0.00 0.00 37.29 2.43
403 407 3.084039 TGAGATGATGTCTGGCAAAACC 58.916 45.455 0.00 0.00 37.29 3.27
421 425 0.318107 CCTGCTTCAACCTGTTTGCG 60.318 55.000 0.00 0.00 34.88 4.85
439 443 1.004504 GCGATCACCTTCGAAGCAATC 60.005 52.381 19.99 17.83 41.62 2.67
461 465 8.668353 CAATCTTATACAGTACATTGCACAAGT 58.332 33.333 0.00 0.00 0.00 3.16
472 476 5.804639 ACATTGCACAAGTTGATAGGTCTA 58.195 37.500 10.54 0.00 0.00 2.59
480 484 6.091441 CACAAGTTGATAGGTCTAAACTGAGC 59.909 42.308 10.54 0.00 33.30 4.26
491 495 4.755123 GTCTAAACTGAGCAAGCAAGGTTA 59.245 41.667 0.00 0.41 0.00 2.85
510 514 6.944096 AGGTTAGACTCATTACCTTTGGTAC 58.056 40.000 0.00 0.00 37.97 3.34
544 548 2.604914 GGTGTCATTGATACACTCTGCG 59.395 50.000 14.46 0.00 45.26 5.18
596 600 1.548582 CCTTTGTCACTTCAGCCCCAT 60.549 52.381 0.00 0.00 0.00 4.00
630 634 3.755905 TGGCGTTGATAAAAATGAGCTGA 59.244 39.130 0.00 0.00 0.00 4.26
647 651 1.076339 GAAAATCCATCCGGCCCCA 60.076 57.895 0.00 0.00 0.00 4.96
648 652 0.469892 GAAAATCCATCCGGCCCCAT 60.470 55.000 0.00 0.00 0.00 4.00
649 653 0.856982 AAAATCCATCCGGCCCCATA 59.143 50.000 0.00 0.00 0.00 2.74
650 654 0.112412 AAATCCATCCGGCCCCATAC 59.888 55.000 0.00 0.00 0.00 2.39
651 655 1.065410 AATCCATCCGGCCCCATACA 61.065 55.000 0.00 0.00 0.00 2.29
652 656 1.779061 ATCCATCCGGCCCCATACAC 61.779 60.000 0.00 0.00 0.00 2.90
653 657 2.751731 CCATCCGGCCCCATACACA 61.752 63.158 0.00 0.00 0.00 3.72
654 658 1.455849 CATCCGGCCCCATACACAT 59.544 57.895 0.00 0.00 0.00 3.21
655 659 0.606401 CATCCGGCCCCATACACATC 60.606 60.000 0.00 0.00 0.00 3.06
656 660 1.779061 ATCCGGCCCCATACACATCC 61.779 60.000 0.00 0.00 0.00 3.51
657 661 2.113139 CGGCCCCATACACATCCC 59.887 66.667 0.00 0.00 0.00 3.85
658 662 2.751731 CGGCCCCATACACATCCCA 61.752 63.158 0.00 0.00 0.00 4.37
659 663 1.618030 GGCCCCATACACATCCCAA 59.382 57.895 0.00 0.00 0.00 4.12
660 664 0.188342 GGCCCCATACACATCCCAAT 59.812 55.000 0.00 0.00 0.00 3.16
661 665 1.331214 GCCCCATACACATCCCAATG 58.669 55.000 0.00 0.00 38.93 2.82
662 666 1.999648 CCCCATACACATCCCAATGG 58.000 55.000 0.00 0.00 38.90 3.16
663 667 1.331214 CCCATACACATCCCAATGGC 58.669 55.000 0.00 0.00 38.04 4.40
664 668 0.953727 CCATACACATCCCAATGGCG 59.046 55.000 0.00 0.00 37.19 5.69
665 669 1.679139 CATACACATCCCAATGGCGT 58.321 50.000 0.00 0.00 37.19 5.68
666 670 2.023673 CATACACATCCCAATGGCGTT 58.976 47.619 0.00 0.00 37.19 4.84
667 671 1.458398 TACACATCCCAATGGCGTTG 58.542 50.000 12.54 12.54 37.19 4.10
668 672 0.251121 ACACATCCCAATGGCGTTGA 60.251 50.000 20.72 2.00 40.37 3.18
669 673 1.105457 CACATCCCAATGGCGTTGAT 58.895 50.000 20.72 4.46 40.37 2.57
670 674 2.296792 CACATCCCAATGGCGTTGATA 58.703 47.619 20.72 8.42 40.37 2.15
671 675 2.687425 CACATCCCAATGGCGTTGATAA 59.313 45.455 20.72 5.99 40.37 1.75
672 676 3.130164 CACATCCCAATGGCGTTGATAAA 59.870 43.478 20.72 3.59 40.37 1.40
673 677 3.766591 ACATCCCAATGGCGTTGATAAAA 59.233 39.130 20.72 1.90 40.37 1.52
674 678 4.221703 ACATCCCAATGGCGTTGATAAAAA 59.778 37.500 20.72 0.23 40.37 1.94
675 679 5.104982 ACATCCCAATGGCGTTGATAAAAAT 60.105 36.000 20.72 2.45 40.37 1.82
676 680 6.097554 ACATCCCAATGGCGTTGATAAAAATA 59.902 34.615 20.72 0.00 40.37 1.40
677 681 6.531503 TCCCAATGGCGTTGATAAAAATAA 57.468 33.333 20.72 0.00 40.37 1.40
678 682 6.568869 TCCCAATGGCGTTGATAAAAATAAG 58.431 36.000 20.72 0.00 40.37 1.73
679 683 5.234116 CCCAATGGCGTTGATAAAAATAAGC 59.766 40.000 20.72 0.00 40.37 3.09
680 684 6.042143 CCAATGGCGTTGATAAAAATAAGCT 58.958 36.000 20.72 0.00 40.37 3.74
681 685 6.019640 CCAATGGCGTTGATAAAAATAAGCTG 60.020 38.462 20.72 0.00 40.37 4.24
682 686 5.888691 TGGCGTTGATAAAAATAAGCTGA 57.111 34.783 0.00 0.00 0.00 4.26
683 687 6.260870 TGGCGTTGATAAAAATAAGCTGAA 57.739 33.333 0.00 0.00 0.00 3.02
684 688 6.682746 TGGCGTTGATAAAAATAAGCTGAAA 58.317 32.000 0.00 0.00 0.00 2.69
685 689 7.148641 TGGCGTTGATAAAAATAAGCTGAAAA 58.851 30.769 0.00 0.00 0.00 2.29
686 690 7.816995 TGGCGTTGATAAAAATAAGCTGAAAAT 59.183 29.630 0.00 0.00 0.00 1.82
687 691 8.321005 GGCGTTGATAAAAATAAGCTGAAAATC 58.679 33.333 0.00 0.00 0.00 2.17
688 692 8.321005 GCGTTGATAAAAATAAGCTGAAAATCC 58.679 33.333 0.00 0.00 0.00 3.01
689 693 9.352784 CGTTGATAAAAATAAGCTGAAAATCCA 57.647 29.630 0.00 0.00 0.00 3.41
693 697 9.185192 GATAAAAATAAGCTGAAAATCCATCCG 57.815 33.333 0.00 0.00 0.00 4.18
694 698 5.520376 AAATAAGCTGAAAATCCATCCGG 57.480 39.130 0.00 0.00 0.00 5.14
695 699 2.514458 AAGCTGAAAATCCATCCGGT 57.486 45.000 0.00 0.00 0.00 5.28
696 700 2.044123 AGCTGAAAATCCATCCGGTC 57.956 50.000 0.00 0.00 0.00 4.79
697 701 1.025041 GCTGAAAATCCATCCGGTCC 58.975 55.000 0.00 0.00 0.00 4.46
698 702 1.680338 CTGAAAATCCATCCGGTCCC 58.320 55.000 0.00 0.00 0.00 4.46
699 703 0.107410 TGAAAATCCATCCGGTCCCG 60.107 55.000 0.00 0.00 39.44 5.14
709 713 3.057337 CGGTCCCGGAGACTTTGT 58.943 61.111 18.67 0.00 45.54 2.83
710 714 1.374252 CGGTCCCGGAGACTTTGTG 60.374 63.158 18.67 4.96 45.54 3.33
711 715 1.752833 GGTCCCGGAGACTTTGTGT 59.247 57.895 18.67 0.00 45.54 3.72
712 716 0.971386 GGTCCCGGAGACTTTGTGTA 59.029 55.000 18.67 0.00 45.54 2.90
713 717 1.067071 GGTCCCGGAGACTTTGTGTAG 60.067 57.143 18.67 0.00 45.54 2.74
714 718 1.067071 GTCCCGGAGACTTTGTGTAGG 60.067 57.143 0.73 0.00 42.69 3.18
715 719 1.203087 TCCCGGAGACTTTGTGTAGGA 60.203 52.381 0.73 0.00 0.00 2.94
716 720 1.621814 CCCGGAGACTTTGTGTAGGAA 59.378 52.381 0.73 0.00 0.00 3.36
717 721 2.038033 CCCGGAGACTTTGTGTAGGAAA 59.962 50.000 0.73 0.00 0.00 3.13
718 722 3.064931 CCGGAGACTTTGTGTAGGAAAC 58.935 50.000 0.00 0.00 0.00 2.78
719 723 3.493699 CCGGAGACTTTGTGTAGGAAACA 60.494 47.826 0.00 0.00 35.06 2.83
720 724 4.315803 CGGAGACTTTGTGTAGGAAACAT 58.684 43.478 0.00 0.00 41.10 2.71
721 725 4.389077 CGGAGACTTTGTGTAGGAAACATC 59.611 45.833 0.00 0.00 41.10 3.06
722 726 5.552178 GGAGACTTTGTGTAGGAAACATCT 58.448 41.667 0.00 0.00 41.10 2.90
723 727 5.409826 GGAGACTTTGTGTAGGAAACATCTG 59.590 44.000 0.00 0.00 41.10 2.90
724 728 6.174720 AGACTTTGTGTAGGAAACATCTGA 57.825 37.500 0.00 0.00 41.10 3.27
725 729 6.591935 AGACTTTGTGTAGGAAACATCTGAA 58.408 36.000 0.00 0.00 41.10 3.02
726 730 7.054124 AGACTTTGTGTAGGAAACATCTGAAA 58.946 34.615 0.00 0.00 41.10 2.69
727 731 7.012421 AGACTTTGTGTAGGAAACATCTGAAAC 59.988 37.037 0.00 0.00 41.10 2.78
728 732 6.601613 ACTTTGTGTAGGAAACATCTGAAACA 59.398 34.615 0.00 0.00 41.10 2.83
729 733 6.618287 TTGTGTAGGAAACATCTGAAACAG 57.382 37.500 0.00 0.00 41.10 3.16
730 734 5.063204 TGTGTAGGAAACATCTGAAACAGG 58.937 41.667 0.00 0.00 41.10 4.00
731 735 4.455877 GTGTAGGAAACATCTGAAACAGGG 59.544 45.833 0.00 0.00 41.10 4.45
732 736 2.519013 AGGAAACATCTGAAACAGGGC 58.481 47.619 0.00 0.00 31.51 5.19
733 737 1.200020 GGAAACATCTGAAACAGGGCG 59.800 52.381 0.00 0.00 31.51 6.13
734 738 1.200020 GAAACATCTGAAACAGGGCGG 59.800 52.381 0.00 0.00 31.51 6.13
735 739 0.400213 AACATCTGAAACAGGGCGGA 59.600 50.000 0.00 0.00 31.51 5.54
736 740 0.620556 ACATCTGAAACAGGGCGGAT 59.379 50.000 0.00 0.00 31.51 4.18
737 741 1.004745 ACATCTGAAACAGGGCGGATT 59.995 47.619 0.00 0.00 31.51 3.01
738 742 2.094675 CATCTGAAACAGGGCGGATTT 58.905 47.619 0.00 0.00 31.51 2.17
739 743 1.533625 TCTGAAACAGGGCGGATTTG 58.466 50.000 0.00 0.00 31.51 2.32
740 744 1.073125 TCTGAAACAGGGCGGATTTGA 59.927 47.619 0.00 0.00 31.51 2.69
741 745 1.200020 CTGAAACAGGGCGGATTTGAC 59.800 52.381 0.00 0.00 0.00 3.18
742 746 1.202879 TGAAACAGGGCGGATTTGACT 60.203 47.619 0.00 0.00 0.00 3.41
743 747 1.886542 GAAACAGGGCGGATTTGACTT 59.113 47.619 0.00 0.00 0.00 3.01
744 748 1.534729 AACAGGGCGGATTTGACTTC 58.465 50.000 0.00 0.00 0.00 3.01
745 749 0.322546 ACAGGGCGGATTTGACTTCC 60.323 55.000 0.00 0.00 0.00 3.46
746 750 0.035056 CAGGGCGGATTTGACTTCCT 60.035 55.000 0.00 0.00 0.00 3.36
747 751 0.253327 AGGGCGGATTTGACTTCCTC 59.747 55.000 0.00 0.00 0.00 3.71
748 752 0.253327 GGGCGGATTTGACTTCCTCT 59.747 55.000 0.00 0.00 0.00 3.69
749 753 1.340114 GGGCGGATTTGACTTCCTCTT 60.340 52.381 0.00 0.00 0.00 2.85
750 754 2.010497 GGCGGATTTGACTTCCTCTTC 58.990 52.381 0.00 0.00 0.00 2.87
751 755 2.010497 GCGGATTTGACTTCCTCTTCC 58.990 52.381 0.00 0.00 0.00 3.46
752 756 2.271800 CGGATTTGACTTCCTCTTCCG 58.728 52.381 0.00 0.00 38.71 4.30
753 757 2.353803 CGGATTTGACTTCCTCTTCCGT 60.354 50.000 0.00 0.00 39.71 4.69
754 758 3.119245 CGGATTTGACTTCCTCTTCCGTA 60.119 47.826 0.00 0.00 39.71 4.02
755 759 4.441634 CGGATTTGACTTCCTCTTCCGTAT 60.442 45.833 0.00 0.00 39.71 3.06
756 760 5.221185 CGGATTTGACTTCCTCTTCCGTATA 60.221 44.000 0.00 0.00 39.71 1.47
757 761 6.579865 GGATTTGACTTCCTCTTCCGTATAA 58.420 40.000 0.00 0.00 0.00 0.98
758 762 7.217906 GGATTTGACTTCCTCTTCCGTATAAT 58.782 38.462 0.00 0.00 0.00 1.28
759 763 7.385478 GGATTTGACTTCCTCTTCCGTATAATC 59.615 40.741 0.00 0.00 0.00 1.75
760 764 7.419711 TTTGACTTCCTCTTCCGTATAATCT 57.580 36.000 0.00 0.00 0.00 2.40
761 765 6.392625 TGACTTCCTCTTCCGTATAATCTG 57.607 41.667 0.00 0.00 0.00 2.90
762 766 5.203060 ACTTCCTCTTCCGTATAATCTGC 57.797 43.478 0.00 0.00 0.00 4.26
763 767 4.649674 ACTTCCTCTTCCGTATAATCTGCA 59.350 41.667 0.00 0.00 0.00 4.41
764 768 4.585955 TCCTCTTCCGTATAATCTGCAC 57.414 45.455 0.00 0.00 0.00 4.57
765 769 3.958147 TCCTCTTCCGTATAATCTGCACA 59.042 43.478 0.00 0.00 0.00 4.57
766 770 4.038042 TCCTCTTCCGTATAATCTGCACAG 59.962 45.833 0.00 0.00 0.00 3.66
767 771 4.038042 CCTCTTCCGTATAATCTGCACAGA 59.962 45.833 2.25 2.25 42.37 3.41
768 772 5.188327 TCTTCCGTATAATCTGCACAGAG 57.812 43.478 6.50 0.00 41.33 3.35
769 773 4.887655 TCTTCCGTATAATCTGCACAGAGA 59.112 41.667 6.50 0.00 41.33 3.10
770 774 5.359860 TCTTCCGTATAATCTGCACAGAGAA 59.640 40.000 6.50 2.05 41.33 2.87
771 775 4.933330 TCCGTATAATCTGCACAGAGAAC 58.067 43.478 6.50 1.45 41.33 3.01
772 776 4.051922 CCGTATAATCTGCACAGAGAACC 58.948 47.826 6.50 0.00 41.33 3.62
773 777 4.202161 CCGTATAATCTGCACAGAGAACCT 60.202 45.833 6.50 0.00 41.33 3.50
774 778 4.979197 CGTATAATCTGCACAGAGAACCTC 59.021 45.833 6.50 0.00 41.33 3.85
775 779 5.221145 CGTATAATCTGCACAGAGAACCTCT 60.221 44.000 6.50 0.00 42.11 3.69
819 823 1.359848 CGTGTTACATGTCTCAGGCC 58.640 55.000 0.00 0.00 0.00 5.19
830 834 2.027745 TGTCTCAGGCCTTGATTCTGAC 60.028 50.000 0.00 8.66 34.68 3.51
832 836 1.280133 CTCAGGCCTTGATTCTGACCA 59.720 52.381 0.00 0.00 34.68 4.02
842 846 2.225091 TGATTCTGACCAGCCCAACAAT 60.225 45.455 0.00 0.00 0.00 2.71
845 849 1.962807 TCTGACCAGCCCAACAATTTG 59.037 47.619 0.00 0.00 0.00 2.32
848 852 0.673437 ACCAGCCCAACAATTTGACG 59.327 50.000 2.79 0.00 34.24 4.35
893 897 2.728817 CCGACGCACCTCCTATCC 59.271 66.667 0.00 0.00 0.00 2.59
894 898 1.828660 CCGACGCACCTCCTATCCT 60.829 63.158 0.00 0.00 0.00 3.24
895 899 1.392710 CCGACGCACCTCCTATCCTT 61.393 60.000 0.00 0.00 0.00 3.36
896 900 0.030908 CGACGCACCTCCTATCCTTC 59.969 60.000 0.00 0.00 0.00 3.46
897 901 1.112113 GACGCACCTCCTATCCTTCA 58.888 55.000 0.00 0.00 0.00 3.02
906 913 0.753262 CCTATCCTTCACCCACGGAG 59.247 60.000 0.00 0.00 0.00 4.63
952 974 1.186200 CCATTCTCTCCGTCACTCCA 58.814 55.000 0.00 0.00 0.00 3.86
958 980 2.675423 TCCGTCACTCCACCGAGG 60.675 66.667 0.00 0.00 40.77 4.63
966 988 1.757340 CTCCACCGAGGTAGGGTCC 60.757 68.421 0.00 0.00 34.97 4.46
1018 1041 2.293318 ATGGCTCCTCCGTGCAAGA 61.293 57.895 0.00 0.00 37.80 3.02
1153 1176 2.283894 TCTCCTCCAGCGGCTTCA 60.284 61.111 0.00 0.00 0.00 3.02
1521 1583 1.221840 CAAGGTGGTGCGCCTCTAT 59.778 57.895 18.96 4.38 44.35 1.98
1563 1625 1.080705 GTGCGAGGTCTACGTGCTT 60.081 57.895 0.00 0.00 0.00 3.91
1617 1682 4.221422 GCCAGGACGATGCCGCTA 62.221 66.667 0.00 0.00 39.95 4.26
1659 1724 2.383527 CGACCAGAGCGTCTTTGCC 61.384 63.158 0.00 0.00 34.65 4.52
1851 1919 1.114627 TCTCCGCTGTGTGCTCATAT 58.885 50.000 0.00 0.00 40.11 1.78
1879 1947 1.306141 ATTCTGCGAGACCCCCTGA 60.306 57.895 0.00 0.00 0.00 3.86
1906 1974 2.895372 GGGACCTACATTGCCGCG 60.895 66.667 0.00 0.00 0.00 6.46
2125 2193 3.118149 TGGCAGCATGATTACTCATCACT 60.118 43.478 0.00 0.00 45.12 3.41
2210 2278 3.526931 GGACATCATCTTCTCGTCCAA 57.473 47.619 0.00 0.00 44.55 3.53
2216 2284 3.165875 TCATCTTCTCGTCCAAGTCCTT 58.834 45.455 0.00 0.00 0.00 3.36
2682 2750 5.092554 TCGTGGTTCTTGCCTATAAATCA 57.907 39.130 0.00 0.00 0.00 2.57
2709 2777 1.717032 TTGACACTGGGAGCTACACT 58.283 50.000 0.00 0.00 0.00 3.55
2714 2782 1.414181 CACTGGGAGCTACACTATGGG 59.586 57.143 0.00 0.00 0.00 4.00
2743 2811 2.237751 CGGAGGCTAACGGATTGCG 61.238 63.158 0.00 0.00 0.00 4.85
2753 2821 0.108804 ACGGATTGCGTGACGAAGAT 60.109 50.000 10.10 0.00 0.00 2.40
3136 3204 0.459585 GCTCGTGATTCCGTTGGCTA 60.460 55.000 0.00 0.00 0.00 3.93
3146 3214 1.206132 TCCGTTGGCTATTGACGATGT 59.794 47.619 0.00 0.00 38.99 3.06
3153 3221 1.533338 GCTATTGACGATGTCGGACGT 60.533 52.381 1.73 1.73 44.95 4.34
3162 3230 3.624861 ACGATGTCGGACGTATCTTACTT 59.375 43.478 2.20 0.00 44.95 2.24
3177 3245 3.641436 TCTTACTTGACACTGGAAGAGCA 59.359 43.478 0.00 0.00 37.43 4.26
3231 3299 2.147150 GAGACCGTATACCCGACTACC 58.853 57.143 0.00 0.00 0.00 3.18
3290 3379 6.460781 TCTTCAGCTTAGTTCGTCCAAATTA 58.539 36.000 0.00 0.00 0.00 1.40
3317 3406 4.962151 GCAACGTCAGTACTTTTGAACTTC 59.038 41.667 0.00 0.00 0.00 3.01
3334 3423 7.461182 TGAACTTCAACAAAGGAAGAAGAAA 57.539 32.000 8.96 0.00 43.46 2.52
3362 3451 1.921243 TGTATGATTGACGTGCTCCG 58.079 50.000 0.00 0.00 44.03 4.63
3387 3476 5.482006 CAGAATGTCACACTAGTCCATCAA 58.518 41.667 0.00 0.00 0.00 2.57
3439 3528 7.398332 AGTCAAATCAAGATTTTGAAGGCCTAT 59.602 33.333 5.16 0.00 45.82 2.57
3613 3704 6.019479 GCACTTCACTCTAGTTATTGATTCCG 60.019 42.308 0.00 0.00 0.00 4.30
3618 3709 5.859114 CACTCTAGTTATTGATTCCGATCCG 59.141 44.000 0.00 0.00 0.00 4.18
3654 3745 7.175293 GGACTAGTAGACCTGTCATATTCGATT 59.825 40.741 10.97 0.00 0.00 3.34
3736 3829 5.856126 ATGTTACCGTGTTGTTATCACTG 57.144 39.130 0.00 0.00 34.14 3.66
3760 3853 1.995376 TGAAGGCTTTTTCTGGGGTC 58.005 50.000 0.00 0.00 0.00 4.46
3834 3927 4.813027 ACAATTTGGTAGCTTTGCTCATG 58.187 39.130 0.00 0.00 40.44 3.07
3863 3956 8.038944 AGCCTCAGTTTTCGTATTACAGATTAA 58.961 33.333 0.00 0.00 0.00 1.40
3907 4001 2.648059 AGACAGCACTCCATAATTGCC 58.352 47.619 0.00 0.00 36.91 4.52
3908 4002 2.025981 AGACAGCACTCCATAATTGCCA 60.026 45.455 0.00 0.00 36.91 4.92
3931 4025 9.763465 GCCAAAATTTCTTATGTTCATCAAATG 57.237 29.630 0.00 0.00 0.00 2.32
3945 4039 6.438186 TCATCAAATGGTAGGCATCTATCA 57.562 37.500 0.00 0.00 40.51 2.15
3960 4054 5.480073 GCATCTATCAGGGAGACAGAGTTAT 59.520 44.000 0.00 0.00 0.00 1.89
3961 4055 6.014669 GCATCTATCAGGGAGACAGAGTTATT 60.015 42.308 0.00 0.00 0.00 1.40
3962 4056 7.601856 CATCTATCAGGGAGACAGAGTTATTC 58.398 42.308 0.00 0.00 0.00 1.75
3963 4057 4.927978 ATCAGGGAGACAGAGTTATTCG 57.072 45.455 0.00 0.00 0.00 3.34
3979 4073 7.116519 AGAGTTATTCGTAAGTTCTTTGAGTGC 59.883 37.037 0.00 0.00 39.48 4.40
3990 4084 0.308684 TTTGAGTGCGCTTTGAGCTG 59.691 50.000 9.73 0.00 39.60 4.24
4057 4155 2.977914 TCCTGCAATTGAGTCAGCTAC 58.022 47.619 10.34 0.00 0.00 3.58
4097 4204 8.739972 CCATTAACTGTTAAAGCCAGTATTTCT 58.260 33.333 16.14 0.00 42.17 2.52
4138 4245 2.514458 TTTCTTCTGCCATTCTCCCC 57.486 50.000 0.00 0.00 0.00 4.81
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.881065 CCTACTGAAATCAATTCCTCAGTCAA 59.119 38.462 11.47 0.00 43.92 3.18
139 140 7.044181 TGAACATGATCAAGTCAGTATCCTTC 58.956 38.462 3.70 0.00 40.92 3.46
301 305 8.511321 ACTTACGAATGTTTGCATTTTATGAGA 58.489 29.630 0.00 0.00 44.61 3.27
302 306 8.673626 ACTTACGAATGTTTGCATTTTATGAG 57.326 30.769 0.00 0.00 44.61 2.90
337 341 5.717178 TCCTGGTAGGCTCATATCTGATAAC 59.283 44.000 0.81 0.00 34.61 1.89
369 373 8.958779 AGACATCATCTCAGAGGAACAGTCCA 62.959 46.154 13.21 0.00 38.98 4.02
370 374 3.450457 ACATCATCTCAGAGGAACAGTCC 59.550 47.826 0.00 0.00 45.35 3.85
402 406 0.318107 CGCAAACAGGTTGAAGCAGG 60.318 55.000 1.02 0.00 39.87 4.85
403 407 0.662619 TCGCAAACAGGTTGAAGCAG 59.337 50.000 1.02 0.00 39.87 4.24
421 425 6.701841 TGTATAAGATTGCTTCGAAGGTGATC 59.298 38.462 25.77 9.79 35.56 2.92
439 443 8.028540 TCAACTTGTGCAATGTACTGTATAAG 57.971 34.615 2.75 7.69 36.60 1.73
461 465 5.178797 GCTTGCTCAGTTTAGACCTATCAA 58.821 41.667 0.00 0.00 0.00 2.57
472 476 3.565902 GTCTAACCTTGCTTGCTCAGTTT 59.434 43.478 0.00 0.00 0.00 2.66
480 484 5.491982 AGGTAATGAGTCTAACCTTGCTTG 58.508 41.667 5.98 0.00 39.32 4.01
491 495 4.159879 CCTCGTACCAAAGGTAATGAGTCT 59.840 45.833 18.02 0.00 40.12 3.24
522 526 2.939103 GCAGAGTGTATCAATGACACCC 59.061 50.000 2.42 0.00 46.89 4.61
544 548 4.140876 AGGATAGTAAGAGGGGAGGAAGAC 60.141 50.000 0.00 0.00 0.00 3.01
596 600 1.003696 TCAACGCCATTGGGATGTGTA 59.996 47.619 4.53 0.00 38.98 2.90
630 634 0.856982 TATGGGGCCGGATGGATTTT 59.143 50.000 5.05 0.00 37.49 1.82
647 651 2.023673 CAACGCCATTGGGATGTGTAT 58.976 47.619 4.53 0.00 35.59 2.29
648 652 1.003696 TCAACGCCATTGGGATGTGTA 59.996 47.619 4.53 0.00 38.98 2.90
649 653 0.251121 TCAACGCCATTGGGATGTGT 60.251 50.000 4.53 0.00 38.98 3.72
650 654 1.105457 ATCAACGCCATTGGGATGTG 58.895 50.000 4.53 0.00 38.98 3.21
651 655 2.727123 TATCAACGCCATTGGGATGT 57.273 45.000 4.53 0.00 38.98 3.06
652 656 4.383850 TTTTATCAACGCCATTGGGATG 57.616 40.909 4.53 0.43 38.98 3.51
653 657 5.612725 ATTTTTATCAACGCCATTGGGAT 57.387 34.783 4.53 1.32 38.98 3.85
654 658 6.531503 TTATTTTTATCAACGCCATTGGGA 57.468 33.333 4.53 0.00 38.98 4.37
655 659 5.234116 GCTTATTTTTATCAACGCCATTGGG 59.766 40.000 4.53 0.00 38.98 4.12
656 660 6.019640 CAGCTTATTTTTATCAACGCCATTGG 60.020 38.462 0.00 0.00 38.98 3.16
657 661 6.751425 TCAGCTTATTTTTATCAACGCCATTG 59.249 34.615 0.00 0.00 39.94 2.82
658 662 6.862209 TCAGCTTATTTTTATCAACGCCATT 58.138 32.000 0.00 0.00 0.00 3.16
659 663 6.449635 TCAGCTTATTTTTATCAACGCCAT 57.550 33.333 0.00 0.00 0.00 4.40
660 664 5.888691 TCAGCTTATTTTTATCAACGCCA 57.111 34.783 0.00 0.00 0.00 5.69
661 665 7.575332 TTTTCAGCTTATTTTTATCAACGCC 57.425 32.000 0.00 0.00 0.00 5.68
662 666 8.321005 GGATTTTCAGCTTATTTTTATCAACGC 58.679 33.333 0.00 0.00 0.00 4.84
663 667 9.352784 TGGATTTTCAGCTTATTTTTATCAACG 57.647 29.630 0.00 0.00 0.00 4.10
667 671 9.185192 CGGATGGATTTTCAGCTTATTTTTATC 57.815 33.333 0.00 0.00 0.00 1.75
668 672 8.143835 CCGGATGGATTTTCAGCTTATTTTTAT 58.856 33.333 0.00 0.00 37.49 1.40
669 673 7.123547 ACCGGATGGATTTTCAGCTTATTTTTA 59.876 33.333 9.46 0.00 39.21 1.52
670 674 6.070824 ACCGGATGGATTTTCAGCTTATTTTT 60.071 34.615 9.46 0.00 39.21 1.94
671 675 5.422012 ACCGGATGGATTTTCAGCTTATTTT 59.578 36.000 9.46 0.00 39.21 1.82
672 676 4.956075 ACCGGATGGATTTTCAGCTTATTT 59.044 37.500 9.46 0.00 39.21 1.40
673 677 4.536765 ACCGGATGGATTTTCAGCTTATT 58.463 39.130 9.46 0.00 39.21 1.40
674 678 4.137543 GACCGGATGGATTTTCAGCTTAT 58.862 43.478 9.46 0.00 39.21 1.73
675 679 3.541632 GACCGGATGGATTTTCAGCTTA 58.458 45.455 9.46 0.00 39.21 3.09
676 680 2.369394 GACCGGATGGATTTTCAGCTT 58.631 47.619 9.46 0.00 39.21 3.74
677 681 1.408822 GGACCGGATGGATTTTCAGCT 60.409 52.381 9.46 0.00 39.21 4.24
678 682 1.025041 GGACCGGATGGATTTTCAGC 58.975 55.000 9.46 0.00 39.21 4.26
679 683 1.680338 GGGACCGGATGGATTTTCAG 58.320 55.000 9.46 0.00 39.21 3.02
680 684 0.107410 CGGGACCGGATGGATTTTCA 60.107 55.000 9.46 0.00 39.21 2.69
681 685 2.702847 CGGGACCGGATGGATTTTC 58.297 57.895 9.46 0.00 39.21 2.29
682 686 4.977393 CGGGACCGGATGGATTTT 57.023 55.556 9.46 0.00 39.21 1.82
692 696 1.374252 CACAAAGTCTCCGGGACCG 60.374 63.158 16.57 3.25 45.54 4.79
693 697 0.971386 TACACAAAGTCTCCGGGACC 59.029 55.000 16.57 0.00 45.54 4.46
694 698 1.067071 CCTACACAAAGTCTCCGGGAC 60.067 57.143 13.42 13.42 44.80 4.46
695 699 1.203087 TCCTACACAAAGTCTCCGGGA 60.203 52.381 0.00 0.00 0.00 5.14
696 700 1.263356 TCCTACACAAAGTCTCCGGG 58.737 55.000 0.00 0.00 0.00 5.73
697 701 3.064931 GTTTCCTACACAAAGTCTCCGG 58.935 50.000 0.00 0.00 0.00 5.14
698 702 3.724374 TGTTTCCTACACAAAGTCTCCG 58.276 45.455 0.00 0.00 0.00 4.63
699 703 5.409826 CAGATGTTTCCTACACAAAGTCTCC 59.590 44.000 0.00 0.00 40.19 3.71
700 704 6.223852 TCAGATGTTTCCTACACAAAGTCTC 58.776 40.000 0.00 0.00 40.19 3.36
701 705 6.174720 TCAGATGTTTCCTACACAAAGTCT 57.825 37.500 0.00 0.00 40.19 3.24
702 706 6.861065 TTCAGATGTTTCCTACACAAAGTC 57.139 37.500 0.00 0.00 40.19 3.01
703 707 6.601613 TGTTTCAGATGTTTCCTACACAAAGT 59.398 34.615 0.00 0.00 40.19 2.66
704 708 7.026631 TGTTTCAGATGTTTCCTACACAAAG 57.973 36.000 0.00 0.00 40.19 2.77
705 709 6.039270 CCTGTTTCAGATGTTTCCTACACAAA 59.961 38.462 0.00 0.00 40.19 2.83
706 710 5.530915 CCTGTTTCAGATGTTTCCTACACAA 59.469 40.000 0.00 0.00 40.19 3.33
707 711 5.063204 CCTGTTTCAGATGTTTCCTACACA 58.937 41.667 0.00 0.00 40.19 3.72
708 712 4.455877 CCCTGTTTCAGATGTTTCCTACAC 59.544 45.833 0.00 0.00 40.19 2.90
709 713 4.651778 CCCTGTTTCAGATGTTTCCTACA 58.348 43.478 0.00 0.00 41.97 2.74
710 714 3.440522 GCCCTGTTTCAGATGTTTCCTAC 59.559 47.826 0.00 0.00 32.44 3.18
711 715 3.686016 GCCCTGTTTCAGATGTTTCCTA 58.314 45.455 0.00 0.00 32.44 2.94
712 716 2.519013 GCCCTGTTTCAGATGTTTCCT 58.481 47.619 0.00 0.00 32.44 3.36
713 717 1.200020 CGCCCTGTTTCAGATGTTTCC 59.800 52.381 0.00 0.00 32.44 3.13
714 718 1.200020 CCGCCCTGTTTCAGATGTTTC 59.800 52.381 0.00 0.00 32.44 2.78
715 719 1.202879 TCCGCCCTGTTTCAGATGTTT 60.203 47.619 0.00 0.00 32.44 2.83
716 720 0.400213 TCCGCCCTGTTTCAGATGTT 59.600 50.000 0.00 0.00 32.44 2.71
717 721 0.620556 ATCCGCCCTGTTTCAGATGT 59.379 50.000 0.00 0.00 32.44 3.06
718 722 1.755179 AATCCGCCCTGTTTCAGATG 58.245 50.000 0.00 0.00 32.44 2.90
719 723 2.094675 CAAATCCGCCCTGTTTCAGAT 58.905 47.619 0.00 0.00 32.44 2.90
720 724 1.073125 TCAAATCCGCCCTGTTTCAGA 59.927 47.619 0.00 0.00 32.44 3.27
721 725 1.200020 GTCAAATCCGCCCTGTTTCAG 59.800 52.381 0.00 0.00 0.00 3.02
722 726 1.202879 AGTCAAATCCGCCCTGTTTCA 60.203 47.619 0.00 0.00 0.00 2.69
723 727 1.534729 AGTCAAATCCGCCCTGTTTC 58.465 50.000 0.00 0.00 0.00 2.78
724 728 1.886542 GAAGTCAAATCCGCCCTGTTT 59.113 47.619 0.00 0.00 0.00 2.83
725 729 1.534729 GAAGTCAAATCCGCCCTGTT 58.465 50.000 0.00 0.00 0.00 3.16
726 730 0.322546 GGAAGTCAAATCCGCCCTGT 60.323 55.000 0.00 0.00 0.00 4.00
727 731 0.035056 AGGAAGTCAAATCCGCCCTG 60.035 55.000 0.00 0.00 42.03 4.45
728 732 0.253327 GAGGAAGTCAAATCCGCCCT 59.747 55.000 0.00 0.00 42.03 5.19
729 733 0.253327 AGAGGAAGTCAAATCCGCCC 59.747 55.000 0.00 0.00 42.03 6.13
730 734 2.010497 GAAGAGGAAGTCAAATCCGCC 58.990 52.381 0.00 0.00 42.03 6.13
731 735 2.010497 GGAAGAGGAAGTCAAATCCGC 58.990 52.381 0.00 0.00 42.03 5.54
732 736 2.271800 CGGAAGAGGAAGTCAAATCCG 58.728 52.381 0.00 0.00 42.03 4.18
733 737 3.336138 ACGGAAGAGGAAGTCAAATCC 57.664 47.619 0.00 0.00 37.22 3.01
734 738 8.145122 AGATTATACGGAAGAGGAAGTCAAATC 58.855 37.037 0.00 0.00 0.00 2.17
735 739 7.928706 CAGATTATACGGAAGAGGAAGTCAAAT 59.071 37.037 0.00 0.00 0.00 2.32
736 740 7.265673 CAGATTATACGGAAGAGGAAGTCAAA 58.734 38.462 0.00 0.00 0.00 2.69
737 741 6.683110 GCAGATTATACGGAAGAGGAAGTCAA 60.683 42.308 0.00 0.00 0.00 3.18
738 742 5.221263 GCAGATTATACGGAAGAGGAAGTCA 60.221 44.000 0.00 0.00 0.00 3.41
739 743 5.221263 TGCAGATTATACGGAAGAGGAAGTC 60.221 44.000 0.00 0.00 0.00 3.01
740 744 4.649674 TGCAGATTATACGGAAGAGGAAGT 59.350 41.667 0.00 0.00 0.00 3.01
741 745 4.985409 GTGCAGATTATACGGAAGAGGAAG 59.015 45.833 0.00 0.00 0.00 3.46
742 746 4.404394 TGTGCAGATTATACGGAAGAGGAA 59.596 41.667 0.00 0.00 0.00 3.36
743 747 3.958147 TGTGCAGATTATACGGAAGAGGA 59.042 43.478 0.00 0.00 0.00 3.71
744 748 4.038042 TCTGTGCAGATTATACGGAAGAGG 59.962 45.833 0.00 0.00 31.41 3.69
745 749 5.009110 TCTCTGTGCAGATTATACGGAAGAG 59.991 44.000 2.06 0.00 36.76 2.85
746 750 4.887655 TCTCTGTGCAGATTATACGGAAGA 59.112 41.667 2.06 0.00 36.76 2.87
747 751 5.188327 TCTCTGTGCAGATTATACGGAAG 57.812 43.478 2.06 0.00 36.76 3.46
748 752 5.348986 GTTCTCTGTGCAGATTATACGGAA 58.651 41.667 2.06 0.00 36.76 4.30
749 753 4.202121 GGTTCTCTGTGCAGATTATACGGA 60.202 45.833 2.06 0.00 36.76 4.69
750 754 4.051922 GGTTCTCTGTGCAGATTATACGG 58.948 47.826 2.06 0.00 36.76 4.02
751 755 4.938080 AGGTTCTCTGTGCAGATTATACG 58.062 43.478 2.06 0.00 36.76 3.06
752 756 6.155475 AGAGGTTCTCTGTGCAGATTATAC 57.845 41.667 2.06 0.00 39.62 1.47
765 769 0.534412 CATGCCGACAGAGGTTCTCT 59.466 55.000 0.00 0.00 42.11 3.10
766 770 1.086634 GCATGCCGACAGAGGTTCTC 61.087 60.000 6.36 0.00 0.00 2.87
767 771 1.078848 GCATGCCGACAGAGGTTCT 60.079 57.895 6.36 0.00 0.00 3.01
768 772 2.109126 GGCATGCCGACAGAGGTTC 61.109 63.158 23.48 0.00 0.00 3.62
769 773 2.045926 GGCATGCCGACAGAGGTT 60.046 61.111 23.48 0.00 0.00 3.50
770 774 4.101448 GGGCATGCCGACAGAGGT 62.101 66.667 29.90 0.00 36.85 3.85
772 776 3.958147 AACGGGCATGCCGACAGAG 62.958 63.158 29.90 17.73 36.85 3.35
773 777 3.950794 GAACGGGCATGCCGACAGA 62.951 63.158 29.90 0.00 36.85 3.41
774 778 3.499737 GAACGGGCATGCCGACAG 61.500 66.667 29.90 21.74 36.85 3.51
775 779 4.015406 AGAACGGGCATGCCGACA 62.015 61.111 29.90 0.00 36.85 4.35
776 780 3.499737 CAGAACGGGCATGCCGAC 61.500 66.667 29.90 19.37 36.85 4.79
780 784 3.512516 GAGGCAGAACGGGCATGC 61.513 66.667 9.90 9.90 39.25 4.06
781 785 2.046023 TGAGGCAGAACGGGCATG 60.046 61.111 1.56 0.00 35.46 4.06
801 805 2.744202 CAAGGCCTGAGACATGTAACAC 59.256 50.000 5.69 0.00 0.00 3.32
819 823 1.815003 GTTGGGCTGGTCAGAATCAAG 59.185 52.381 1.65 0.00 0.00 3.02
830 834 0.673437 ACGTCAAATTGTTGGGCTGG 59.327 50.000 0.00 0.00 35.29 4.85
832 836 3.219281 ACTTACGTCAAATTGTTGGGCT 58.781 40.909 0.00 0.00 35.29 5.19
842 846 2.669434 GCTTATGCGGACTTACGTCAAA 59.331 45.455 0.00 0.00 42.05 2.69
845 849 1.206523 GGCTTATGCGGACTTACGTC 58.793 55.000 0.00 0.00 40.82 4.34
848 852 1.583054 CTGGGCTTATGCGGACTTAC 58.417 55.000 0.00 0.00 40.82 2.34
890 894 1.903877 CTGCTCCGTGGGTGAAGGAT 61.904 60.000 0.00 0.00 30.98 3.24
893 897 1.079543 CTCTGCTCCGTGGGTGAAG 60.080 63.158 0.00 0.00 0.00 3.02
894 898 0.541063 TACTCTGCTCCGTGGGTGAA 60.541 55.000 0.00 0.00 0.00 3.18
895 899 0.965866 CTACTCTGCTCCGTGGGTGA 60.966 60.000 0.00 0.00 0.00 4.02
896 900 0.965866 TCTACTCTGCTCCGTGGGTG 60.966 60.000 0.00 0.00 0.00 4.61
897 901 0.033011 ATCTACTCTGCTCCGTGGGT 60.033 55.000 0.00 0.00 0.00 4.51
906 913 1.946650 GCGGCGTGATCTACTCTGC 60.947 63.158 9.37 0.00 39.01 4.26
1004 1027 1.743252 GCCTTCTTGCACGGAGGAG 60.743 63.158 21.58 3.30 0.00 3.69
1204 1227 2.359967 CGGGGTCTGGGAGGAAGAC 61.360 68.421 0.00 0.00 42.79 3.01
1445 1507 3.136123 CATGGTTCTGCGGCCAGG 61.136 66.667 2.24 0.00 39.61 4.45
1563 1625 0.485543 TCCAGTACCCTGTGGAGTCA 59.514 55.000 0.00 0.00 37.96 3.41
1616 1681 1.638589 AGTAATTGGTTGCCCAGGCTA 59.361 47.619 10.58 0.00 43.15 3.93
1617 1682 0.409484 AGTAATTGGTTGCCCAGGCT 59.591 50.000 10.58 0.00 43.15 4.58
1659 1724 2.671070 CAGTACACCTGGCCCTGG 59.329 66.667 4.90 4.90 37.54 4.45
1783 1848 0.905357 AGCTCTGTTATCCGCCAGTT 59.095 50.000 0.00 0.00 0.00 3.16
1815 1880 3.679389 GGAGATGTCTTTGAAGAGGCAA 58.321 45.455 0.00 0.00 34.49 4.52
1851 1919 2.102578 TCTCGCAGAATCCAGATGTCA 58.897 47.619 0.00 0.00 34.09 3.58
2103 2171 3.118149 AGTGATGAGTAATCATGCTGCCA 60.118 43.478 10.96 0.00 46.90 4.92
2125 2193 2.362503 AGGTCTCCGCGTCATGGA 60.363 61.111 4.92 0.00 0.00 3.41
2184 2252 3.956848 ACGAGAAGATGATGTCCTCATGA 59.043 43.478 0.00 0.00 44.83 3.07
2356 2424 0.534203 GAGAGGACAACACGGGCAAA 60.534 55.000 0.00 0.00 0.00 3.68
2682 2750 0.107410 TCCCAGTGTCAAAGTTGCGT 60.107 50.000 0.00 0.00 0.00 5.24
2709 2777 2.510411 CGGATGCTGCACCCCATA 59.490 61.111 7.64 0.00 0.00 2.74
2743 2811 0.741221 GGAGCCACCATCTTCGTCAC 60.741 60.000 0.00 0.00 38.79 3.67
3029 3097 3.131396 CCTCGGCCATCATTAAGTGTAC 58.869 50.000 2.24 0.00 0.00 2.90
3136 3204 2.617308 AGATACGTCCGACATCGTCAAT 59.383 45.455 0.00 0.00 40.70 2.57
3146 3214 4.005650 AGTGTCAAGTAAGATACGTCCGA 58.994 43.478 0.00 0.00 35.15 4.55
3153 3221 5.480422 TGCTCTTCCAGTGTCAAGTAAGATA 59.520 40.000 0.00 0.00 0.00 1.98
3162 3230 0.394192 CCAGTGCTCTTCCAGTGTCA 59.606 55.000 0.00 0.00 34.98 3.58
3290 3379 2.450609 AAAGTACTGACGTTGCCGAT 57.549 45.000 0.00 0.00 37.88 4.18
3317 3406 6.039717 TCACCATCTTTCTTCTTCCTTTGTTG 59.960 38.462 0.00 0.00 0.00 3.33
3334 3423 5.052481 CACGTCAATCATACATCACCATCT 58.948 41.667 0.00 0.00 0.00 2.90
3362 3451 2.028112 TGGACTAGTGTGACATTCTGCC 60.028 50.000 0.00 0.00 0.00 4.85
3387 3476 8.970020 TGATGGAAGACACTGCAAAATAAATAT 58.030 29.630 0.00 0.00 0.00 1.28
3439 3528 1.754745 GCACTTGGACTGGACTGGA 59.245 57.895 0.00 0.00 0.00 3.86
3485 3576 3.943381 CGAGGTAAAACTATTTGGGGGAC 59.057 47.826 0.00 0.00 0.00 4.46
3613 3704 1.093159 AGTCCTGTACGACACGGATC 58.907 55.000 4.09 0.00 35.28 3.36
3618 3709 3.620821 GGTCTACTAGTCCTGTACGACAC 59.379 52.174 0.00 0.00 35.07 3.67
3654 3745 2.939756 TGCACAACGCTAAAGAAACTGA 59.060 40.909 0.00 0.00 43.06 3.41
3760 3853 7.814264 AATAGCCCATGAATCTGAACTTTAG 57.186 36.000 0.00 0.00 0.00 1.85
3834 3927 5.408356 TGTAATACGAAAACTGAGGCTCTC 58.592 41.667 16.72 3.28 0.00 3.20
3931 4025 2.829120 GTCTCCCTGATAGATGCCTACC 59.171 54.545 0.00 0.00 0.00 3.18
3945 4039 5.262804 ACTTACGAATAACTCTGTCTCCCT 58.737 41.667 0.00 0.00 0.00 4.20
3960 4054 2.220133 GCGCACTCAAAGAACTTACGAA 59.780 45.455 0.30 0.00 0.00 3.85
3961 4055 1.790623 GCGCACTCAAAGAACTTACGA 59.209 47.619 0.30 0.00 0.00 3.43
3962 4056 1.792949 AGCGCACTCAAAGAACTTACG 59.207 47.619 11.47 0.00 0.00 3.18
3963 4057 3.879932 AAGCGCACTCAAAGAACTTAC 57.120 42.857 11.47 0.00 0.00 2.34
3990 4084 4.202441 AGTCATGCAAACCCACTGATATC 58.798 43.478 0.00 0.00 0.00 1.63
4057 4155 6.223852 ACAGTTAATGGATATCTTACCTGCG 58.776 40.000 2.05 0.00 0.00 5.18
4097 4204 8.055181 AGAAAAATTGATATACTGCTCAAGGGA 58.945 33.333 0.00 0.00 35.04 4.20
4256 4371 8.950210 CATAATCAAACTTCAGCTTTTCTAGGA 58.050 33.333 0.00 0.00 0.00 2.94
4258 4373 8.734386 ACCATAATCAAACTTCAGCTTTTCTAG 58.266 33.333 0.00 0.00 0.00 2.43
4259 4374 8.635765 ACCATAATCAAACTTCAGCTTTTCTA 57.364 30.769 0.00 0.00 0.00 2.10
4260 4375 7.530426 ACCATAATCAAACTTCAGCTTTTCT 57.470 32.000 0.00 0.00 0.00 2.52
4261 4376 9.294030 CATACCATAATCAAACTTCAGCTTTTC 57.706 33.333 0.00 0.00 0.00 2.29
4265 4380 6.125029 AGCATACCATAATCAAACTTCAGCT 58.875 36.000 0.00 0.00 0.00 4.24
4266 4381 6.382869 AGCATACCATAATCAAACTTCAGC 57.617 37.500 0.00 0.00 0.00 4.26


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

AutoCloner maintained by Alex Coulton.