Multiple sequence alignment - TraesCS7B01G140500

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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 TraesCS7B01G140500 chr7B 100.000 3672 0 0 1 3672 178408487 178404816 0.000000e+00 6782.0
1 TraesCS7B01G140500 chr7D 95.074 1218 40 4 2471 3672 220515173 220516386 0.000000e+00 1899.0
2 TraesCS7B01G140500 chr7D 88.366 1083 53 27 693 1741 220513420 220514463 0.000000e+00 1234.0
3 TraesCS7B01G140500 chr7D 96.326 626 20 3 1 625 548559836 548560459 0.000000e+00 1026.0
4 TraesCS7B01G140500 chr7D 88.312 308 23 8 1731 2030 220514482 220514784 1.250000e-94 357.0
5 TraesCS7B01G140500 chr7D 90.809 272 17 4 2143 2406 220514786 220515057 1.250000e-94 357.0
6 TraesCS7B01G140500 chr7D 79.085 306 40 14 3326 3615 618328894 618329191 4.840000e-44 189.0
7 TraesCS7B01G140500 chr7D 100.000 29 0 0 614 642 614307497 614307525 2.000000e-03 54.7
8 TraesCS7B01G140500 chr7A 89.850 1133 50 27 922 2033 232748768 232749856 0.000000e+00 1395.0
9 TraesCS7B01G140500 chr7A 99.040 625 6 0 1 625 663751822 663751198 0.000000e+00 1122.0
10 TraesCS7B01G140500 chr7A 87.386 880 52 14 2104 2929 232749855 232750729 0.000000e+00 955.0
11 TraesCS7B01G140500 chr7A 94.108 611 23 4 3075 3672 232750742 232751352 0.000000e+00 917.0
12 TraesCS7B01G140500 chr7A 94.536 183 10 0 686 868 232748586 232748768 2.160000e-72 283.0
13 TraesCS7B01G140500 chr4A 99.201 626 5 0 1 626 606355650 606356275 0.000000e+00 1129.0
14 TraesCS7B01G140500 chr4A 99.040 625 6 0 1 625 373805260 373805884 0.000000e+00 1122.0
15 TraesCS7B01G140500 chr4A 90.580 138 13 0 2939 3076 517406493 517406630 2.250000e-42 183.0
16 TraesCS7B01G140500 chr4A 91.837 49 2 2 2069 2117 83770859 83770813 2.370000e-07 67.6
17 TraesCS7B01G140500 chr2B 98.089 628 12 0 1 628 345451858 345451231 0.000000e+00 1094.0
18 TraesCS7B01G140500 chr2B 91.304 138 12 0 2939 3076 442788071 442788208 4.840000e-44 189.0
19 TraesCS7B01G140500 chr2B 86.765 68 6 3 2032 2098 24931749 24931684 5.090000e-09 73.1
20 TraesCS7B01G140500 chr1B 95.788 641 11 1 1 625 258837514 258838154 0.000000e+00 1020.0
21 TraesCS7B01G140500 chr1B 90.580 138 13 0 2939 3076 414090890 414091027 2.250000e-42 183.0
22 TraesCS7B01G140500 chr1B 89.362 47 5 0 2071 2117 4044877 4044831 3.960000e-05 60.2
23 TraesCS7B01G140500 chr6B 93.016 630 40 4 1 629 60484702 60484076 0.000000e+00 917.0
24 TraesCS7B01G140500 chr3A 91.374 626 51 3 1 625 341605513 341606136 0.000000e+00 854.0
25 TraesCS7B01G140500 chr3A 84.375 64 2 5 2032 2089 56670189 56670250 5.120000e-04 56.5
26 TraesCS7B01G140500 chr6D 84.325 504 59 16 111 602 272798496 272798991 3.320000e-130 475.0
27 TraesCS7B01G140500 chr6D 94.595 74 4 0 553 626 167261632 167261559 8.330000e-22 115.0
28 TraesCS7B01G140500 chr4B 92.029 138 11 0 2939 3076 135218071 135218208 1.040000e-45 195.0
29 TraesCS7B01G140500 chr3D 91.304 138 12 0 2939 3076 537154841 537154704 4.840000e-44 189.0
30 TraesCS7B01G140500 chr3D 91.304 46 3 1 2069 2114 346308794 346308750 1.100000e-05 62.1
31 TraesCS7B01G140500 chr3D 97.222 36 1 0 2027 2062 391635554 391635519 1.100000e-05 62.1
32 TraesCS7B01G140500 chr1D 91.304 138 12 0 2939 3076 463381927 463382064 4.840000e-44 189.0
33 TraesCS7B01G140500 chr5B 90.647 139 13 0 2938 3076 490757552 490757414 6.260000e-43 185.0
34 TraesCS7B01G140500 chr1A 90.580 138 13 0 2939 3076 566481030 566481167 2.250000e-42 183.0
35 TraesCS7B01G140500 chr2D 84.337 83 6 5 2032 2112 468866618 468866541 1.410000e-09 75.0
36 TraesCS7B01G140500 chr5D 93.023 43 3 0 2069 2111 477322239 477322197 3.060000e-06 63.9
37 TraesCS7B01G140500 chr5A 95.000 40 2 0 2069 2108 544787906 544787945 3.060000e-06 63.9
38 TraesCS7B01G140500 chr2A 81.707 82 9 4 2028 2106 65400788 65400866 3.060000e-06 63.9
39 TraesCS7B01G140500 chr3B 94.872 39 1 1 2021 2059 349274660 349274697 3.960000e-05 60.2
40 TraesCS7B01G140500 chr3B 90.698 43 4 0 2020 2062 534275755 534275797 1.420000e-04 58.4
41 TraesCS7B01G140500 chr3B 92.500 40 1 2 2022 2059 798547407 798547446 5.120000e-04 56.5
42 TraesCS7B01G140500 chr3B 92.308 39 2 1 2075 2113 407105343 407105306 2.000000e-03 54.7
43 TraesCS7B01G140500 chr4D 100.000 31 0 0 2029 2059 455628468 455628498 1.420000e-04 58.4


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 TraesCS7B01G140500 chr7B 178404816 178408487 3671 True 6782.00 6782 100.00000 1 3672 1 chr7B.!!$R1 3671
1 TraesCS7B01G140500 chr7D 548559836 548560459 623 False 1026.00 1026 96.32600 1 625 1 chr7D.!!$F1 624
2 TraesCS7B01G140500 chr7D 220513420 220516386 2966 False 961.75 1899 90.64025 693 3672 4 chr7D.!!$F4 2979
3 TraesCS7B01G140500 chr7A 663751198 663751822 624 True 1122.00 1122 99.04000 1 625 1 chr7A.!!$R1 624
4 TraesCS7B01G140500 chr7A 232748586 232751352 2766 False 887.50 1395 91.47000 686 3672 4 chr7A.!!$F1 2986
5 TraesCS7B01G140500 chr4A 606355650 606356275 625 False 1129.00 1129 99.20100 1 626 1 chr4A.!!$F3 625
6 TraesCS7B01G140500 chr4A 373805260 373805884 624 False 1122.00 1122 99.04000 1 625 1 chr4A.!!$F1 624
7 TraesCS7B01G140500 chr2B 345451231 345451858 627 True 1094.00 1094 98.08900 1 628 1 chr2B.!!$R2 627
8 TraesCS7B01G140500 chr1B 258837514 258838154 640 False 1020.00 1020 95.78800 1 625 1 chr1B.!!$F1 624
9 TraesCS7B01G140500 chr6B 60484076 60484702 626 True 917.00 917 93.01600 1 629 1 chr6B.!!$R1 628
10 TraesCS7B01G140500 chr3A 341605513 341606136 623 False 854.00 854 91.37400 1 625 1 chr3A.!!$F2 624

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
648 669 0.105039 GGAATGGAGGGAGCAGTACG 59.895 60.0 0.00 0.00 0.00 3.67 F
655 676 0.107654 AGGGAGCAGTACGGAATTGC 60.108 55.0 0.00 0.00 38.09 3.56 F
753 783 0.108898 AGATGACAGCAGAGCGTGTC 60.109 55.0 11.82 11.82 42.93 3.67 F
2071 2185 0.245266 TAAGAGCATTGACGCCGTCA 59.755 50.0 17.22 17.22 41.09 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2110 2224 0.034767 TCCCGTCCTCATCTACGTGT 60.035 55.000 0.00 0.0 37.40 4.49 R
2318 2440 0.036010 CTGGTTTCTCCACTGCCGAT 60.036 55.000 0.00 0.0 41.93 4.18 R
2450 2599 0.322187 AGGGCGTAAATTGAGGCGTT 60.322 50.000 1.43 0.0 0.00 4.84 R
3634 3833 2.265739 GTGATGCTGCCGGACTCA 59.734 61.111 5.05 0.0 0.00 3.41 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
234 235 2.711542 CGCTTGGAGAATACTGGGTTT 58.288 47.619 0.00 0.00 0.00 3.27
629 650 1.472728 CCGGACGGAGGGAGTATTTTG 60.473 57.143 4.40 0.00 37.50 2.44
630 651 1.472728 CGGACGGAGGGAGTATTTTGG 60.473 57.143 0.00 0.00 0.00 3.28
631 652 1.835531 GGACGGAGGGAGTATTTTGGA 59.164 52.381 0.00 0.00 0.00 3.53
632 653 2.237893 GGACGGAGGGAGTATTTTGGAA 59.762 50.000 0.00 0.00 0.00 3.53
633 654 3.118000 GGACGGAGGGAGTATTTTGGAAT 60.118 47.826 0.00 0.00 0.00 3.01
634 655 3.877508 GACGGAGGGAGTATTTTGGAATG 59.122 47.826 0.00 0.00 0.00 2.67
635 656 3.214328 CGGAGGGAGTATTTTGGAATGG 58.786 50.000 0.00 0.00 0.00 3.16
636 657 3.118038 CGGAGGGAGTATTTTGGAATGGA 60.118 47.826 0.00 0.00 0.00 3.41
637 658 4.464947 GGAGGGAGTATTTTGGAATGGAG 58.535 47.826 0.00 0.00 0.00 3.86
638 659 4.464947 GAGGGAGTATTTTGGAATGGAGG 58.535 47.826 0.00 0.00 0.00 4.30
639 660 3.205282 AGGGAGTATTTTGGAATGGAGGG 59.795 47.826 0.00 0.00 0.00 4.30
640 661 3.204382 GGGAGTATTTTGGAATGGAGGGA 59.796 47.826 0.00 0.00 0.00 4.20
641 662 4.464947 GGAGTATTTTGGAATGGAGGGAG 58.535 47.826 0.00 0.00 0.00 4.30
642 663 3.885901 GAGTATTTTGGAATGGAGGGAGC 59.114 47.826 0.00 0.00 0.00 4.70
643 664 2.925966 ATTTTGGAATGGAGGGAGCA 57.074 45.000 0.00 0.00 0.00 4.26
644 665 2.220653 TTTTGGAATGGAGGGAGCAG 57.779 50.000 0.00 0.00 0.00 4.24
645 666 1.075601 TTTGGAATGGAGGGAGCAGT 58.924 50.000 0.00 0.00 0.00 4.40
646 667 1.965414 TTGGAATGGAGGGAGCAGTA 58.035 50.000 0.00 0.00 0.00 2.74
647 668 1.204146 TGGAATGGAGGGAGCAGTAC 58.796 55.000 0.00 0.00 0.00 2.73
648 669 0.105039 GGAATGGAGGGAGCAGTACG 59.895 60.000 0.00 0.00 0.00 3.67
649 670 0.105039 GAATGGAGGGAGCAGTACGG 59.895 60.000 0.00 0.00 0.00 4.02
650 671 0.325296 AATGGAGGGAGCAGTACGGA 60.325 55.000 0.00 0.00 0.00 4.69
651 672 0.325296 ATGGAGGGAGCAGTACGGAA 60.325 55.000 0.00 0.00 0.00 4.30
652 673 0.325296 TGGAGGGAGCAGTACGGAAT 60.325 55.000 0.00 0.00 0.00 3.01
653 674 0.831307 GGAGGGAGCAGTACGGAATT 59.169 55.000 0.00 0.00 0.00 2.17
654 675 1.473434 GGAGGGAGCAGTACGGAATTG 60.473 57.143 0.00 0.00 0.00 2.32
655 676 0.107654 AGGGAGCAGTACGGAATTGC 60.108 55.000 0.00 0.00 38.09 3.56
661 682 4.043037 AGCAGTACGGAATTGCTAGTAC 57.957 45.455 6.13 6.94 45.67 2.73
662 683 2.787680 GCAGTACGGAATTGCTAGTACG 59.212 50.000 0.00 0.00 42.84 3.67
663 684 3.369385 CAGTACGGAATTGCTAGTACGG 58.631 50.000 5.07 5.59 42.84 4.02
664 685 3.065786 CAGTACGGAATTGCTAGTACGGA 59.934 47.826 5.07 0.00 42.84 4.69
665 686 2.865343 ACGGAATTGCTAGTACGGAG 57.135 50.000 5.07 0.00 0.00 4.63
667 688 3.282021 ACGGAATTGCTAGTACGGAGTA 58.718 45.455 5.07 0.00 45.11 2.59
682 703 3.518590 CGGAGTAGCAAAATTCCGTAGT 58.481 45.455 8.79 0.00 45.58 2.73
683 704 3.930848 CGGAGTAGCAAAATTCCGTAGTT 59.069 43.478 8.79 0.00 45.58 2.24
684 705 4.390909 CGGAGTAGCAAAATTCCGTAGTTT 59.609 41.667 8.79 0.00 45.58 2.66
685 706 5.106830 CGGAGTAGCAAAATTCCGTAGTTTT 60.107 40.000 8.79 0.00 45.58 2.43
686 707 6.567132 CGGAGTAGCAAAATTCCGTAGTTTTT 60.567 38.462 8.79 0.00 45.58 1.94
749 779 0.457509 ACGAAGATGACAGCAGAGCG 60.458 55.000 0.00 0.00 0.00 5.03
753 783 0.108898 AGATGACAGCAGAGCGTGTC 60.109 55.000 11.82 11.82 42.93 3.67
780 810 0.880278 ACACACTGACGTCCATGTGC 60.880 55.000 32.81 5.38 45.08 4.57
790 820 3.792047 CCATGTGCACGACGGCTG 61.792 66.667 13.13 2.68 34.04 4.85
803 833 2.124736 GGCTGCGGGTGATTAGCA 60.125 61.111 0.00 0.00 37.89 3.49
874 904 1.896694 CTCCGCTTTGCCTCTCTCT 59.103 57.895 0.00 0.00 0.00 3.10
889 919 4.280677 CCTCTCTCTCTCTCTCTCTCTCTC 59.719 54.167 0.00 0.00 0.00 3.20
890 920 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.00 0.00 3.10
892 922 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
893 923 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
894 924 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
895 925 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
896 926 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
897 927 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
898 928 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
899 929 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
900 930 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
901 931 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
902 932 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
903 933 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
904 934 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
905 935 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
906 936 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
907 937 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
908 938 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
909 939 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
910 940 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
911 941 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
912 942 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
913 943 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
914 944 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
915 945 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
916 946 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
917 947 4.892345 TCTCTCTCTCTCTCTCTCTCTCTG 59.108 50.000 0.00 0.00 0.00 3.35
918 948 4.871822 TCTCTCTCTCTCTCTCTCTCTGA 58.128 47.826 0.00 0.00 0.00 3.27
919 949 4.892345 TCTCTCTCTCTCTCTCTCTCTGAG 59.108 50.000 0.00 0.00 43.96 3.35
920 950 3.963374 TCTCTCTCTCTCTCTCTCTGAGG 59.037 52.174 4.59 0.00 42.86 3.86
958 988 1.091771 CCACGAGTCCATGTCCATGC 61.092 60.000 1.64 0.00 37.49 4.06
995 1025 0.676736 GTCCTAGAAGATCCAGGCGG 59.323 60.000 0.00 0.00 0.00 6.13
1029 1059 3.986006 GCAGCAGCAGCAGCCAAA 61.986 61.111 7.26 0.00 46.35 3.28
1039 1069 0.480252 AGCAGCCAAACCTTCCTTCT 59.520 50.000 0.00 0.00 0.00 2.85
1108 1153 2.117156 GCAGCCGATCCATGCAAGT 61.117 57.895 0.00 0.00 39.75 3.16
1116 1161 1.315257 ATCCATGCAAGTCGCCCAAC 61.315 55.000 0.00 0.00 41.33 3.77
1121 1166 1.034838 TGCAAGTCGCCCAACAAGTT 61.035 50.000 0.00 0.00 41.33 2.66
1130 1175 1.526575 CCCAACAAGTTGAGGCGCAT 61.527 55.000 10.83 0.00 42.93 4.73
1525 1592 0.682292 GCTCTCCTGCAGGGTATACC 59.318 60.000 32.23 13.99 40.67 2.73
1545 1612 3.258872 ACCTACCAACATACACACGCTTA 59.741 43.478 0.00 0.00 0.00 3.09
1552 1619 4.939509 ACATACACACGCTTAATTCCAC 57.060 40.909 0.00 0.00 0.00 4.02
1573 1644 2.700897 CGGACCTATTCTCCCTGTGATT 59.299 50.000 0.00 0.00 0.00 2.57
1574 1645 3.134804 CGGACCTATTCTCCCTGTGATTT 59.865 47.826 0.00 0.00 0.00 2.17
1581 1652 7.789831 ACCTATTCTCCCTGTGATTTATACAGA 59.210 37.037 6.70 0.00 46.52 3.41
1629 1700 0.834612 TGACAGTTTGAGGGTTCGGT 59.165 50.000 0.00 0.00 0.00 4.69
1696 1767 5.862924 TGCTTAGCTAACATTCTTCACAC 57.137 39.130 5.60 0.00 0.00 3.82
1744 1847 9.922305 GAATAGTTGCATCAGTTATTCAGTTAC 57.078 33.333 9.01 0.00 33.23 2.50
1772 1878 9.832445 TTATGTTCTACTCATAATTTCACCCTC 57.168 33.333 0.00 0.00 34.27 4.30
1773 1879 7.496346 TGTTCTACTCATAATTTCACCCTCT 57.504 36.000 0.00 0.00 0.00 3.69
1777 1883 9.434275 TTCTACTCATAATTTCACCCTCTCATA 57.566 33.333 0.00 0.00 0.00 2.15
1781 1887 6.299141 TCATAATTTCACCCTCTCATAAGGC 58.701 40.000 0.00 0.00 34.88 4.35
1783 1889 3.914426 TTTCACCCTCTCATAAGGCTC 57.086 47.619 0.00 0.00 34.88 4.70
1791 1897 5.122519 CCCTCTCATAAGGCTCTTTTCTTC 58.877 45.833 0.00 0.00 34.88 2.87
1792 1898 5.104569 CCCTCTCATAAGGCTCTTTTCTTCT 60.105 44.000 0.00 0.00 34.88 2.85
1793 1899 6.098982 CCCTCTCATAAGGCTCTTTTCTTCTA 59.901 42.308 0.00 0.00 34.88 2.10
1794 1900 7.365117 CCCTCTCATAAGGCTCTTTTCTTCTAA 60.365 40.741 0.00 0.00 34.88 2.10
1829 1935 8.582437 CAAACATTTGATATCTCTGCCCAATAT 58.418 33.333 3.98 0.00 40.55 1.28
1846 1952 7.181845 TGCCCAATATATAGTGTCATCACCATA 59.818 37.037 9.19 0.00 44.83 2.74
1926 2039 0.958382 TGTTGGCAGCGGTTATGACC 60.958 55.000 0.00 0.00 42.87 4.02
1998 2111 3.132289 TCGATGTCTATTTGGAGGTCACC 59.868 47.826 0.00 0.00 0.00 4.02
2033 2147 6.683974 ATGGCATTCAGTTTAGTGATGTAC 57.316 37.500 0.00 0.00 0.00 2.90
2035 2149 5.874810 TGGCATTCAGTTTAGTGATGTACTC 59.125 40.000 0.00 0.00 40.89 2.59
2036 2150 5.294552 GGCATTCAGTTTAGTGATGTACTCC 59.705 44.000 0.00 0.00 40.89 3.85
2037 2151 5.294552 GCATTCAGTTTAGTGATGTACTCCC 59.705 44.000 0.00 0.00 40.89 4.30
2038 2152 6.644347 CATTCAGTTTAGTGATGTACTCCCT 58.356 40.000 0.00 0.00 40.89 4.20
2040 2154 4.710375 TCAGTTTAGTGATGTACTCCCTCC 59.290 45.833 0.00 0.00 40.89 4.30
2041 2155 3.700038 AGTTTAGTGATGTACTCCCTCCG 59.300 47.826 0.00 0.00 40.89 4.63
2042 2156 3.377253 TTAGTGATGTACTCCCTCCGT 57.623 47.619 0.00 0.00 40.89 4.69
2043 2157 1.765230 AGTGATGTACTCCCTCCGTC 58.235 55.000 0.00 0.00 33.17 4.79
2044 2158 0.745468 GTGATGTACTCCCTCCGTCC 59.255 60.000 0.00 0.00 0.00 4.79
2046 2160 1.453762 GATGTACTCCCTCCGTCCCG 61.454 65.000 0.00 0.00 0.00 5.14
2047 2161 2.044551 GTACTCCCTCCGTCCCGT 60.045 66.667 0.00 0.00 0.00 5.28
2048 2162 1.224592 GTACTCCCTCCGTCCCGTA 59.775 63.158 0.00 0.00 0.00 4.02
2049 2163 0.394352 GTACTCCCTCCGTCCCGTAA 60.394 60.000 0.00 0.00 0.00 3.18
2050 2164 0.552848 TACTCCCTCCGTCCCGTAAT 59.447 55.000 0.00 0.00 0.00 1.89
2051 2165 0.552848 ACTCCCTCCGTCCCGTAATA 59.447 55.000 0.00 0.00 0.00 0.98
2052 2166 1.146566 ACTCCCTCCGTCCCGTAATAT 59.853 52.381 0.00 0.00 0.00 1.28
2053 2167 2.376518 ACTCCCTCCGTCCCGTAATATA 59.623 50.000 0.00 0.00 0.00 0.86
2054 2168 3.181429 ACTCCCTCCGTCCCGTAATATAA 60.181 47.826 0.00 0.00 0.00 0.98
2055 2169 3.424703 TCCCTCCGTCCCGTAATATAAG 58.575 50.000 0.00 0.00 0.00 1.73
2056 2170 3.074390 TCCCTCCGTCCCGTAATATAAGA 59.926 47.826 0.00 0.00 0.00 2.10
2057 2171 3.442977 CCCTCCGTCCCGTAATATAAGAG 59.557 52.174 0.00 0.00 0.00 2.85
2058 2172 3.119566 CCTCCGTCCCGTAATATAAGAGC 60.120 52.174 0.00 0.00 0.00 4.09
2059 2173 3.489355 TCCGTCCCGTAATATAAGAGCA 58.511 45.455 0.00 0.00 0.00 4.26
2060 2174 4.084287 TCCGTCCCGTAATATAAGAGCAT 58.916 43.478 0.00 0.00 0.00 3.79
2061 2175 4.525487 TCCGTCCCGTAATATAAGAGCATT 59.475 41.667 0.00 0.00 0.00 3.56
2062 2176 4.625742 CCGTCCCGTAATATAAGAGCATTG 59.374 45.833 0.00 0.00 0.00 2.82
2063 2177 5.466819 CGTCCCGTAATATAAGAGCATTGA 58.533 41.667 0.00 0.00 0.00 2.57
2064 2178 5.345202 CGTCCCGTAATATAAGAGCATTGAC 59.655 44.000 0.00 0.00 0.00 3.18
2065 2179 5.345202 GTCCCGTAATATAAGAGCATTGACG 59.655 44.000 0.00 0.00 0.00 4.35
2066 2180 4.091509 CCCGTAATATAAGAGCATTGACGC 59.908 45.833 0.00 0.00 0.00 5.19
2067 2181 4.091509 CCGTAATATAAGAGCATTGACGCC 59.908 45.833 0.00 0.00 0.00 5.68
2068 2182 4.201494 CGTAATATAAGAGCATTGACGCCG 60.201 45.833 0.00 0.00 0.00 6.46
2069 2183 2.882927 TATAAGAGCATTGACGCCGT 57.117 45.000 0.00 0.00 0.00 5.68
2070 2184 1.571919 ATAAGAGCATTGACGCCGTC 58.428 50.000 10.96 10.96 0.00 4.79
2071 2185 0.245266 TAAGAGCATTGACGCCGTCA 59.755 50.000 17.22 17.22 41.09 4.35
2077 2191 3.007516 TTGACGCCGTCAACAACG 58.992 55.556 27.27 0.00 45.88 4.10
2091 2205 6.581370 CGTCAACAACGCTCTTATATTATGG 58.419 40.000 0.00 0.00 45.76 2.74
2092 2206 6.346598 CGTCAACAACGCTCTTATATTATGGG 60.347 42.308 0.00 0.00 45.76 4.00
2093 2207 6.704493 GTCAACAACGCTCTTATATTATGGGA 59.296 38.462 0.00 0.00 0.00 4.37
2094 2208 6.704493 TCAACAACGCTCTTATATTATGGGAC 59.296 38.462 0.00 0.00 0.00 4.46
2095 2209 5.227908 ACAACGCTCTTATATTATGGGACG 58.772 41.667 0.00 0.00 0.00 4.79
2096 2210 4.451629 ACGCTCTTATATTATGGGACGG 57.548 45.455 0.00 0.00 0.00 4.79
2097 2211 4.084287 ACGCTCTTATATTATGGGACGGA 58.916 43.478 0.00 0.00 0.00 4.69
2098 2212 4.710375 ACGCTCTTATATTATGGGACGGAT 59.290 41.667 0.00 0.00 0.00 4.18
2099 2213 5.043903 CGCTCTTATATTATGGGACGGATG 58.956 45.833 0.00 0.00 0.00 3.51
2100 2214 5.360591 GCTCTTATATTATGGGACGGATGG 58.639 45.833 0.00 0.00 0.00 3.51
2101 2215 5.128827 GCTCTTATATTATGGGACGGATGGA 59.871 44.000 0.00 0.00 0.00 3.41
2102 2216 6.351881 GCTCTTATATTATGGGACGGATGGAA 60.352 42.308 0.00 0.00 0.00 3.53
2103 2217 7.635971 GCTCTTATATTATGGGACGGATGGAAT 60.636 40.741 0.00 0.00 0.00 3.01
2104 2218 8.847982 TCTTATATTATGGGACGGATGGAATA 57.152 34.615 0.00 0.00 0.00 1.75
2105 2219 8.924303 TCTTATATTATGGGACGGATGGAATAG 58.076 37.037 0.00 0.00 0.00 1.73
2106 2220 8.618240 TTATATTATGGGACGGATGGAATAGT 57.382 34.615 0.00 0.00 0.00 2.12
2107 2221 9.717994 TTATATTATGGGACGGATGGAATAGTA 57.282 33.333 0.00 0.00 0.00 1.82
2108 2222 8.798975 ATATTATGGGACGGATGGAATAGTAT 57.201 34.615 0.00 0.00 0.00 2.12
2109 2223 9.892444 ATATTATGGGACGGATGGAATAGTATA 57.108 33.333 0.00 0.00 0.00 1.47
2110 2224 8.618240 ATTATGGGACGGATGGAATAGTATAA 57.382 34.615 0.00 0.00 0.00 0.98
2111 2225 5.733620 TGGGACGGATGGAATAGTATAAC 57.266 43.478 0.00 0.00 0.00 1.89
2112 2226 5.149239 TGGGACGGATGGAATAGTATAACA 58.851 41.667 0.00 0.00 0.00 2.41
2113 2227 5.011329 TGGGACGGATGGAATAGTATAACAC 59.989 44.000 0.00 0.00 0.00 3.32
2114 2228 5.159209 GGACGGATGGAATAGTATAACACG 58.841 45.833 0.00 0.00 0.00 4.49
2123 2237 8.107399 TGGAATAGTATAACACGTAGATGAGG 57.893 38.462 0.00 0.00 0.00 3.86
2125 2239 8.235905 GGAATAGTATAACACGTAGATGAGGAC 58.764 40.741 0.00 0.00 0.00 3.85
2132 2246 0.517755 CGTAGATGAGGACGGGATCG 59.482 60.000 0.00 0.00 43.02 3.69
2271 2388 1.141053 ACAAGACGAGCCCTCAAGTTT 59.859 47.619 0.00 0.00 0.00 2.66
2275 2392 1.273886 GACGAGCCCTCAAGTTTCTCT 59.726 52.381 0.00 0.00 0.00 3.10
2300 2422 0.319211 TTCAGGTGTACACGAAGCCG 60.319 55.000 19.41 4.56 42.50 5.52
2318 2440 1.079127 GTTCAGCTTGCTCCCGCTA 60.079 57.895 0.00 0.00 34.58 4.26
2398 2520 5.578336 GCAATTTAGAATCAAGTGCTTTCCC 59.422 40.000 0.00 0.00 41.05 3.97
2428 2577 2.572333 AAAGGATCGGTGCCCCCATG 62.572 60.000 0.00 0.00 0.00 3.66
2439 2588 0.251077 GCCCCCATGGAGATGCTTAG 60.251 60.000 15.22 0.00 35.39 2.18
2447 2596 0.610687 GGAGATGCTTAGGCGCCTAT 59.389 55.000 35.60 22.88 42.25 2.57
2450 2599 1.694150 AGATGCTTAGGCGCCTATTGA 59.306 47.619 35.60 20.70 42.25 2.57
2468 2617 0.098200 GAACGCCTCAATTTACGCCC 59.902 55.000 0.00 0.00 0.00 6.13
2517 2690 3.157087 ACTGAATTTGATGGGTGTCACC 58.843 45.455 14.13 14.13 37.60 4.02
2537 2710 9.616156 TGTCACCTTTTTGAGTTAAGTAACATA 57.384 29.630 4.14 0.00 38.62 2.29
2651 2824 1.418097 TTCCTGGGTTCAGCAGCAGA 61.418 55.000 0.00 0.00 39.61 4.26
2763 2936 2.470821 GCATTCATCAAATCCAGCTGC 58.529 47.619 8.66 0.00 0.00 5.25
2812 2985 1.402259 CGCGGCATGGGTTAATTTGTA 59.598 47.619 0.00 0.00 0.00 2.41
2813 2986 2.540769 CGCGGCATGGGTTAATTTGTAG 60.541 50.000 0.00 0.00 0.00 2.74
2814 2987 2.425668 GCGGCATGGGTTAATTTGTAGT 59.574 45.455 0.00 0.00 0.00 2.73
2815 2988 3.628487 GCGGCATGGGTTAATTTGTAGTA 59.372 43.478 0.00 0.00 0.00 1.82
2859 3032 9.628500 AGAAAGAATAATTTACTGTACATCCCC 57.372 33.333 0.00 0.00 0.00 4.81
2883 3056 7.147479 CCCTCCTAACCTTTGAGAGAAATCATA 60.147 40.741 0.00 0.00 0.00 2.15
2944 3130 6.266558 ACCCATGTACATATCTCTCAAGTCTC 59.733 42.308 8.32 0.00 0.00 3.36
2972 3158 6.482641 TCGAGATTCCACTACAGACTACATAC 59.517 42.308 0.00 0.00 0.00 2.39
2981 3167 4.530710 ACAGACTACATACGGAGCAAAA 57.469 40.909 0.00 0.00 0.00 2.44
2985 3171 5.580691 CAGACTACATACGGAGCAAAATGAA 59.419 40.000 0.00 0.00 0.00 2.57
2995 3181 5.066505 ACGGAGCAAAATGAATGAATCTACC 59.933 40.000 0.00 0.00 0.00 3.18
3001 3187 7.500559 AGCAAAATGAATGAATCTACCCTCTAC 59.499 37.037 0.00 0.00 0.00 2.59
3125 3314 9.967451 TGATGAAGGTTCTGGTTGTTATTATTA 57.033 29.630 0.00 0.00 0.00 0.98
3240 3437 4.881850 CCAGTGACAACTTTAACAGTTCCT 59.118 41.667 0.00 0.00 44.60 3.36
3275 3472 4.142049 TGGGACAGTTTTCAAACATGTTCC 60.142 41.667 12.39 17.26 41.28 3.62
3287 3484 5.104527 TCAAACATGTTCCGGGATATCTTCT 60.105 40.000 12.39 0.00 0.00 2.85
3375 3572 3.177997 ACACAACAACAAATCAAGCCC 57.822 42.857 0.00 0.00 0.00 5.19
3589 3788 3.062763 CTCTGCAGAGATCAAAACACGT 58.937 45.455 35.69 0.00 44.74 4.49
3592 3791 1.400242 GCAGAGATCAAAACACGTGCC 60.400 52.381 17.22 0.00 0.00 5.01
3634 3833 1.760405 AATGAGGGTCAAGGGAAGGT 58.240 50.000 0.00 0.00 0.00 3.50
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
188 189 2.994995 TGTGTGGGTCGCCGAGAT 60.995 61.111 0.00 0.00 0.00 2.75
629 650 0.105039 CGTACTGCTCCCTCCATTCC 59.895 60.000 0.00 0.00 0.00 3.01
630 651 0.105039 CCGTACTGCTCCCTCCATTC 59.895 60.000 0.00 0.00 0.00 2.67
631 652 0.325296 TCCGTACTGCTCCCTCCATT 60.325 55.000 0.00 0.00 0.00 3.16
632 653 0.325296 TTCCGTACTGCTCCCTCCAT 60.325 55.000 0.00 0.00 0.00 3.41
633 654 0.325296 ATTCCGTACTGCTCCCTCCA 60.325 55.000 0.00 0.00 0.00 3.86
634 655 0.831307 AATTCCGTACTGCTCCCTCC 59.169 55.000 0.00 0.00 0.00 4.30
635 656 1.941325 CAATTCCGTACTGCTCCCTC 58.059 55.000 0.00 0.00 0.00 4.30
636 657 0.107654 GCAATTCCGTACTGCTCCCT 60.108 55.000 0.00 0.00 33.20 4.20
637 658 0.107654 AGCAATTCCGTACTGCTCCC 60.108 55.000 0.95 0.00 42.73 4.30
638 659 2.159085 ACTAGCAATTCCGTACTGCTCC 60.159 50.000 9.58 0.00 42.73 4.70
639 660 3.166489 ACTAGCAATTCCGTACTGCTC 57.834 47.619 9.58 0.00 42.73 4.26
641 662 2.787680 CGTACTAGCAATTCCGTACTGC 59.212 50.000 0.00 0.00 36.29 4.40
642 663 3.065786 TCCGTACTAGCAATTCCGTACTG 59.934 47.826 0.00 0.00 32.25 2.74
643 664 3.282021 TCCGTACTAGCAATTCCGTACT 58.718 45.455 0.00 0.00 32.25 2.73
644 665 3.065925 ACTCCGTACTAGCAATTCCGTAC 59.934 47.826 0.00 0.00 0.00 3.67
645 666 3.282021 ACTCCGTACTAGCAATTCCGTA 58.718 45.455 0.00 0.00 0.00 4.02
646 667 2.097825 ACTCCGTACTAGCAATTCCGT 58.902 47.619 0.00 0.00 0.00 4.69
647 668 2.865343 ACTCCGTACTAGCAATTCCG 57.135 50.000 0.00 0.00 0.00 4.30
648 669 3.067742 TGCTACTCCGTACTAGCAATTCC 59.932 47.826 11.05 0.00 41.89 3.01
649 670 4.303086 TGCTACTCCGTACTAGCAATTC 57.697 45.455 11.05 0.00 41.89 2.17
650 671 4.730949 TTGCTACTCCGTACTAGCAATT 57.269 40.909 18.32 0.00 46.33 2.32
653 674 4.730949 ATTTTGCTACTCCGTACTAGCA 57.269 40.909 9.76 9.76 42.88 3.49
654 675 4.507021 GGAATTTTGCTACTCCGTACTAGC 59.493 45.833 5.19 5.19 36.65 3.42
655 676 4.738740 CGGAATTTTGCTACTCCGTACTAG 59.261 45.833 1.25 0.00 44.60 2.57
656 677 4.675510 CGGAATTTTGCTACTCCGTACTA 58.324 43.478 1.25 0.00 44.60 1.82
657 678 3.518590 CGGAATTTTGCTACTCCGTACT 58.481 45.455 1.25 0.00 44.60 2.73
658 679 3.920112 CGGAATTTTGCTACTCCGTAC 57.080 47.619 1.25 0.00 44.60 3.67
662 683 5.874895 AAACTACGGAATTTTGCTACTCC 57.125 39.130 0.00 0.00 0.00 3.85
749 779 1.134521 TCAGTGTGTGGTTCCTGACAC 60.135 52.381 12.66 12.66 42.40 3.67
753 783 0.179084 ACGTCAGTGTGTGGTTCCTG 60.179 55.000 0.00 0.00 0.00 3.86
790 820 0.175760 TCTCTGTGCTAATCACCCGC 59.824 55.000 0.00 0.00 45.03 6.13
793 823 2.164624 ACTCGTCTCTGTGCTAATCACC 59.835 50.000 0.00 0.00 45.03 4.02
803 833 0.881796 TGCATCGAACTCGTCTCTGT 59.118 50.000 0.00 0.00 40.80 3.41
868 898 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
874 904 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
889 919 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
890 920 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
892 922 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
893 923 5.009911 CAGAGAGAGAGAGAGAGAGAGAGAG 59.990 52.000 0.00 0.00 0.00 3.20
894 924 4.892345 CAGAGAGAGAGAGAGAGAGAGAGA 59.108 50.000 0.00 0.00 0.00 3.10
895 925 4.892345 TCAGAGAGAGAGAGAGAGAGAGAG 59.108 50.000 0.00 0.00 0.00 3.20
896 926 4.871822 TCAGAGAGAGAGAGAGAGAGAGA 58.128 47.826 0.00 0.00 0.00 3.10
909 939 2.118132 GCTCAGGCCTCAGAGAGAG 58.882 63.158 21.38 15.96 44.31 3.20
910 940 4.353325 GCTCAGGCCTCAGAGAGA 57.647 61.111 21.38 6.19 33.74 3.10
920 950 2.237534 GAGTGACAGAGGGCTCAGGC 62.238 65.000 0.00 0.00 37.82 4.85
958 988 2.870372 GCAGCGGCTTTACCTGTG 59.130 61.111 0.00 0.00 36.96 3.66
1023 1053 1.783365 AGGAAGAAGGAAGGTTTGGCT 59.217 47.619 0.00 0.00 0.00 4.75
1024 1054 2.163509 GAGGAAGAAGGAAGGTTTGGC 58.836 52.381 0.00 0.00 0.00 4.52
1025 1055 2.427506 CGAGGAAGAAGGAAGGTTTGG 58.572 52.381 0.00 0.00 0.00 3.28
1029 1059 0.836400 TGGCGAGGAAGAAGGAAGGT 60.836 55.000 0.00 0.00 0.00 3.50
1039 1069 1.070786 GTTGGTGTCTGGCGAGGAA 59.929 57.895 0.00 0.00 0.00 3.36
1108 1153 1.896660 GCCTCAACTTGTTGGGCGA 60.897 57.895 21.11 2.67 31.87 5.54
1116 1161 1.444895 GCCAATGCGCCTCAACTTG 60.445 57.895 4.18 0.00 0.00 3.16
1525 1592 6.417191 AATTAAGCGTGTGTATGTTGGTAG 57.583 37.500 0.00 0.00 0.00 3.18
1545 1612 2.438392 GGGAGAATAGGTCCGTGGAATT 59.562 50.000 0.00 0.00 34.56 2.17
1552 1619 1.776662 TCACAGGGAGAATAGGTCCG 58.223 55.000 0.00 0.00 34.56 4.79
1581 1652 8.857694 AAGGCAAATTGAAAAGATCATTTCAT 57.142 26.923 22.71 9.65 45.77 2.57
1629 1700 1.028130 ATTCTGCTGCTCGATCGAGA 58.972 50.000 41.45 26.65 44.53 4.04
1705 1776 8.217111 TGATGCAACTATTCCACCATTAGATAA 58.783 33.333 0.00 0.00 0.00 1.75
1707 1778 6.604171 TGATGCAACTATTCCACCATTAGAT 58.396 36.000 0.00 0.00 0.00 1.98
1709 1780 5.824624 ACTGATGCAACTATTCCACCATTAG 59.175 40.000 0.00 0.00 0.00 1.73
1769 1875 5.988287 AGAAGAAAAGAGCCTTATGAGAGG 58.012 41.667 0.00 0.00 39.93 3.69
1772 1878 7.545965 TCGTTTAGAAGAAAAGAGCCTTATGAG 59.454 37.037 0.00 0.00 0.00 2.90
1773 1879 7.383687 TCGTTTAGAAGAAAAGAGCCTTATGA 58.616 34.615 0.00 0.00 0.00 2.15
1777 1883 7.308649 GGAAATCGTTTAGAAGAAAAGAGCCTT 60.309 37.037 0.00 0.00 0.00 4.35
1781 1887 9.170584 GTTTGGAAATCGTTTAGAAGAAAAGAG 57.829 33.333 0.00 0.00 0.00 2.85
1783 1889 8.850454 TGTTTGGAAATCGTTTAGAAGAAAAG 57.150 30.769 0.00 0.00 0.00 2.27
1793 1899 9.573133 GAGATATCAAATGTTTGGAAATCGTTT 57.427 29.630 5.32 0.00 35.69 3.60
1794 1900 8.960591 AGAGATATCAAATGTTTGGAAATCGTT 58.039 29.630 5.32 0.26 38.66 3.85
1864 1977 6.278363 GCACATTGCATCTCCAAAAGAATAT 58.722 36.000 0.00 0.00 44.26 1.28
1926 2039 2.943033 GTCTCCCCATGTTATTCGGTTG 59.057 50.000 0.00 0.00 0.00 3.77
1998 2111 4.202503 ACTGAATGCCATATTACCTCCAGG 60.203 45.833 0.00 0.00 42.17 4.45
2041 2155 5.345202 CGTCAATGCTCTTATATTACGGGAC 59.655 44.000 0.00 0.00 0.00 4.46
2042 2156 5.466819 CGTCAATGCTCTTATATTACGGGA 58.533 41.667 0.00 0.00 0.00 5.14
2043 2157 4.091509 GCGTCAATGCTCTTATATTACGGG 59.908 45.833 0.00 0.00 0.00 5.28
2044 2158 4.091509 GGCGTCAATGCTCTTATATTACGG 59.908 45.833 0.00 0.00 34.52 4.02
2046 2160 4.684703 ACGGCGTCAATGCTCTTATATTAC 59.315 41.667 6.77 0.00 34.52 1.89
2047 2161 4.878439 ACGGCGTCAATGCTCTTATATTA 58.122 39.130 6.77 0.00 34.52 0.98
2048 2162 3.728845 ACGGCGTCAATGCTCTTATATT 58.271 40.909 6.77 0.00 34.52 1.28
2049 2163 3.243737 TGACGGCGTCAATGCTCTTATAT 60.244 43.478 37.53 0.00 39.78 0.86
2050 2164 2.100087 TGACGGCGTCAATGCTCTTATA 59.900 45.455 37.53 12.12 39.78 0.98
2051 2165 1.134818 TGACGGCGTCAATGCTCTTAT 60.135 47.619 37.53 0.00 39.78 1.73
2052 2166 0.245266 TGACGGCGTCAATGCTCTTA 59.755 50.000 37.53 13.44 39.78 2.10
2053 2167 0.602638 TTGACGGCGTCAATGCTCTT 60.603 50.000 41.78 5.08 45.88 2.85
2054 2168 1.005037 TTGACGGCGTCAATGCTCT 60.005 52.632 41.78 5.91 45.88 4.09
2055 2169 3.561429 TTGACGGCGTCAATGCTC 58.439 55.556 41.78 17.53 45.88 4.26
2068 2182 6.704493 TCCCATAATATAAGAGCGTTGTTGAC 59.296 38.462 0.00 0.00 0.00 3.18
2069 2183 6.704493 GTCCCATAATATAAGAGCGTTGTTGA 59.296 38.462 0.00 0.00 0.00 3.18
2070 2184 6.346598 CGTCCCATAATATAAGAGCGTTGTTG 60.347 42.308 0.00 0.00 0.00 3.33
2071 2185 5.694910 CGTCCCATAATATAAGAGCGTTGTT 59.305 40.000 0.00 0.00 0.00 2.83
2072 2186 5.227908 CGTCCCATAATATAAGAGCGTTGT 58.772 41.667 0.00 0.00 0.00 3.32
2073 2187 4.625742 CCGTCCCATAATATAAGAGCGTTG 59.374 45.833 0.00 0.00 0.00 4.10
2074 2188 4.525487 TCCGTCCCATAATATAAGAGCGTT 59.475 41.667 0.00 0.00 0.00 4.84
2075 2189 4.084287 TCCGTCCCATAATATAAGAGCGT 58.916 43.478 0.00 0.00 0.00 5.07
2076 2190 4.713824 TCCGTCCCATAATATAAGAGCG 57.286 45.455 0.00 0.00 0.00 5.03
2077 2191 5.128827 TCCATCCGTCCCATAATATAAGAGC 59.871 44.000 0.00 0.00 0.00 4.09
2078 2192 6.791867 TCCATCCGTCCCATAATATAAGAG 57.208 41.667 0.00 0.00 0.00 2.85
2079 2193 7.749377 ATTCCATCCGTCCCATAATATAAGA 57.251 36.000 0.00 0.00 0.00 2.10
2080 2194 8.705594 ACTATTCCATCCGTCCCATAATATAAG 58.294 37.037 0.00 0.00 0.00 1.73
2081 2195 8.618240 ACTATTCCATCCGTCCCATAATATAA 57.382 34.615 0.00 0.00 0.00 0.98
2082 2196 9.892444 ATACTATTCCATCCGTCCCATAATATA 57.108 33.333 0.00 0.00 0.00 0.86
2083 2197 8.798975 ATACTATTCCATCCGTCCCATAATAT 57.201 34.615 0.00 0.00 0.00 1.28
2084 2198 9.717994 TTATACTATTCCATCCGTCCCATAATA 57.282 33.333 0.00 0.00 0.00 0.98
2085 2199 8.483758 GTTATACTATTCCATCCGTCCCATAAT 58.516 37.037 0.00 0.00 0.00 1.28
2086 2200 7.455323 TGTTATACTATTCCATCCGTCCCATAA 59.545 37.037 0.00 0.00 0.00 1.90
2087 2201 6.955267 TGTTATACTATTCCATCCGTCCCATA 59.045 38.462 0.00 0.00 0.00 2.74
2088 2202 5.783360 TGTTATACTATTCCATCCGTCCCAT 59.217 40.000 0.00 0.00 0.00 4.00
2089 2203 5.011329 GTGTTATACTATTCCATCCGTCCCA 59.989 44.000 0.00 0.00 0.00 4.37
2090 2204 5.476614 GTGTTATACTATTCCATCCGTCCC 58.523 45.833 0.00 0.00 0.00 4.46
2091 2205 5.159209 CGTGTTATACTATTCCATCCGTCC 58.841 45.833 0.00 0.00 0.00 4.79
2092 2206 5.766222 ACGTGTTATACTATTCCATCCGTC 58.234 41.667 0.00 0.00 0.00 4.79
2093 2207 5.779529 ACGTGTTATACTATTCCATCCGT 57.220 39.130 0.00 0.00 0.00 4.69
2094 2208 7.137490 TCTACGTGTTATACTATTCCATCCG 57.863 40.000 0.00 0.00 0.00 4.18
2095 2209 8.737175 TCATCTACGTGTTATACTATTCCATCC 58.263 37.037 0.00 0.00 0.00 3.51
2096 2210 9.776158 CTCATCTACGTGTTATACTATTCCATC 57.224 37.037 0.00 0.00 0.00 3.51
2097 2211 8.740906 CCTCATCTACGTGTTATACTATTCCAT 58.259 37.037 0.00 0.00 0.00 3.41
2098 2212 7.940688 TCCTCATCTACGTGTTATACTATTCCA 59.059 37.037 0.00 0.00 0.00 3.53
2099 2213 8.235905 GTCCTCATCTACGTGTTATACTATTCC 58.764 40.741 0.00 0.00 0.00 3.01
2100 2214 7.956403 CGTCCTCATCTACGTGTTATACTATTC 59.044 40.741 0.00 0.00 34.48 1.75
2101 2215 7.094890 CCGTCCTCATCTACGTGTTATACTATT 60.095 40.741 0.00 0.00 37.40 1.73
2102 2216 6.370994 CCGTCCTCATCTACGTGTTATACTAT 59.629 42.308 0.00 0.00 37.40 2.12
2103 2217 5.698089 CCGTCCTCATCTACGTGTTATACTA 59.302 44.000 0.00 0.00 37.40 1.82
2104 2218 4.514441 CCGTCCTCATCTACGTGTTATACT 59.486 45.833 0.00 0.00 37.40 2.12
2105 2219 4.320057 CCCGTCCTCATCTACGTGTTATAC 60.320 50.000 0.00 0.00 37.40 1.47
2106 2220 3.817084 CCCGTCCTCATCTACGTGTTATA 59.183 47.826 0.00 0.00 37.40 0.98
2107 2221 2.621998 CCCGTCCTCATCTACGTGTTAT 59.378 50.000 0.00 0.00 37.40 1.89
2108 2222 2.019249 CCCGTCCTCATCTACGTGTTA 58.981 52.381 0.00 0.00 37.40 2.41
2109 2223 0.815734 CCCGTCCTCATCTACGTGTT 59.184 55.000 0.00 0.00 37.40 3.32
2110 2224 0.034767 TCCCGTCCTCATCTACGTGT 60.035 55.000 0.00 0.00 37.40 4.49
2111 2225 1.267261 GATCCCGTCCTCATCTACGTG 59.733 57.143 0.00 0.00 37.40 4.49
2112 2226 1.606903 GATCCCGTCCTCATCTACGT 58.393 55.000 0.00 0.00 37.40 3.57
2113 2227 0.517755 CGATCCCGTCCTCATCTACG 59.482 60.000 0.00 0.00 38.80 3.51
2114 2228 0.241481 GCGATCCCGTCCTCATCTAC 59.759 60.000 0.00 0.00 38.24 2.59
2123 2237 0.103208 AGTGAGATTGCGATCCCGTC 59.897 55.000 10.50 2.72 38.24 4.79
2125 2239 1.932604 GCTAGTGAGATTGCGATCCCG 60.933 57.143 10.50 0.00 39.16 5.14
2232 2349 4.286297 TGTAGGAAACCCTTGTCATCTG 57.714 45.455 0.00 0.00 35.26 2.90
2271 2388 5.242171 TCGTGTACACCTGAAACATAAGAGA 59.758 40.000 20.11 3.62 0.00 3.10
2275 2392 4.449743 GCTTCGTGTACACCTGAAACATAA 59.550 41.667 20.11 0.00 0.00 1.90
2318 2440 0.036010 CTGGTTTCTCCACTGCCGAT 60.036 55.000 0.00 0.00 41.93 4.18
2352 2474 4.457257 GCAGGAACTTCTAAAGAATGCAGT 59.543 41.667 9.33 0.00 34.60 4.40
2361 2483 9.295825 TGATTCTAAATTGCAGGAACTTCTAAA 57.704 29.630 0.00 0.00 34.60 1.85
2428 2577 0.610687 ATAGGCGCCTAAGCATCTCC 59.389 55.000 38.14 1.46 39.83 3.71
2450 2599 0.322187 AGGGCGTAAATTGAGGCGTT 60.322 50.000 1.43 0.00 0.00 4.84
2468 2617 9.855021 TTCTTCTTCTTTGAAACAGGTAAAAAG 57.145 29.630 0.00 0.00 0.00 2.27
2554 2727 0.668401 GCATCAGCCTGCCAAACAAC 60.668 55.000 0.00 0.00 36.10 3.32
2651 2824 2.770802 CTCATGAGGATGAAGACTGGGT 59.229 50.000 15.38 0.00 38.17 4.51
2745 2918 2.693591 CTGGCAGCTGGATTTGATGAAT 59.306 45.455 17.12 0.00 0.00 2.57
2763 2936 1.321474 TTCTTTCTTGGTGCTGCTGG 58.679 50.000 0.00 0.00 0.00 4.85
2812 2985 9.217278 CTTTCTTATATCATGCAAGCATCTACT 57.783 33.333 4.24 0.00 33.90 2.57
2813 2986 9.212641 TCTTTCTTATATCATGCAAGCATCTAC 57.787 33.333 4.24 0.00 33.90 2.59
2814 2987 9.783081 TTCTTTCTTATATCATGCAAGCATCTA 57.217 29.630 4.24 0.81 33.90 1.98
2815 2988 8.687292 TTCTTTCTTATATCATGCAAGCATCT 57.313 30.769 4.24 0.00 33.90 2.90
2842 3015 6.126565 GGTTAGGAGGGGATGTACAGTAAATT 60.127 42.308 0.33 0.00 0.00 1.82
2859 3032 7.436673 CGTATGATTTCTCTCAAAGGTTAGGAG 59.563 40.741 0.00 0.00 0.00 3.69
2883 3056 3.368495 GCACAACCTTTTCGAAATTCGT 58.632 40.909 15.34 5.38 41.35 3.85
2944 3130 5.317733 AGTCTGTAGTGGAATCTCGAAAG 57.682 43.478 0.00 0.00 0.00 2.62
2961 3147 5.109210 TCATTTTGCTCCGTATGTAGTCTG 58.891 41.667 0.00 0.00 0.00 3.51
2972 3158 5.506317 GGGTAGATTCATTCATTTTGCTCCG 60.506 44.000 0.00 0.00 0.00 4.63
2985 3171 8.811017 CAGACATATTGTAGAGGGTAGATTCAT 58.189 37.037 0.00 0.00 0.00 2.57
2995 3181 7.014711 AGGATGTACACAGACATATTGTAGAGG 59.985 40.741 0.00 0.00 40.18 3.69
3001 3187 6.988580 ACATGAGGATGTACACAGACATATTG 59.011 38.462 0.00 0.00 41.27 1.90
3240 3437 6.775142 TGAAAACTGTCCCAGAAAATATGTCA 59.225 34.615 0.00 0.00 35.18 3.58
3375 3572 6.558771 TGGTTGTACATGTCATCTGAAAAG 57.441 37.500 0.00 0.00 0.00 2.27
3589 3788 3.707458 TGGTACCGGAATGCGGCA 61.707 61.111 14.43 4.58 0.00 5.69
3634 3833 2.265739 GTGATGCTGCCGGACTCA 59.734 61.111 5.05 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.