Multiple sequence alignment - TraesCS4D01G124600

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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 TraesCS4D01G124600 chr4D 100.000 2850 0 0 1 2850 108908246 108905397 0.000000e+00 5264.0
1 TraesCS4D01G124600 chr4D 95.161 124 6 0 1877 2000 120692546 120692669 2.240000e-46 196.0
2 TraesCS4D01G124600 chr4D 95.161 124 6 0 1877 2000 337136097 337135974 2.240000e-46 196.0
3 TraesCS4D01G124600 chrUn 95.841 1082 28 7 808 1878 414079929 414081004 0.000000e+00 1733.0
4 TraesCS4D01G124600 chrUn 87.727 220 3 3 2006 2206 414081007 414081221 4.750000e-58 235.0
5 TraesCS4D01G124600 chrUn 91.228 57 3 2 2201 2256 472997560 472997615 3.040000e-10 76.8
6 TraesCS4D01G124600 chr4A 95.841 1082 28 7 808 1878 467306952 467308027 0.000000e+00 1733.0
7 TraesCS4D01G124600 chr4A 85.016 614 52 11 2247 2847 467313323 467313909 3.160000e-164 588.0
8 TraesCS4D01G124600 chr4A 88.192 271 7 4 2006 2256 467308030 467308295 1.660000e-77 300.0
9 TraesCS4D01G124600 chr4A 92.857 168 12 0 510 677 83761117 83760950 7.890000e-61 244.0
10 TraesCS4D01G124600 chr4A 90.476 42 1 2 2364 2404 733665745 733665784 5.000000e-03 52.8
11 TraesCS4D01G124600 chr4B 96.219 1058 34 3 807 1862 167913497 167914550 0.000000e+00 1727.0
12 TraesCS4D01G124600 chr4B 90.402 646 56 5 2180 2824 167916026 167916666 0.000000e+00 845.0
13 TraesCS4D01G124600 chr4B 95.152 165 8 0 510 674 605928940 605929104 7.830000e-66 261.0
14 TraesCS4D01G124600 chr4B 93.805 113 2 1 2004 2116 167915918 167916025 6.320000e-37 165.0
15 TraesCS4D01G124600 chr3D 98.242 512 9 0 1 512 582523173 582522662 0.000000e+00 896.0
16 TraesCS4D01G124600 chr3D 97.605 167 4 0 508 674 582522537 582522371 1.290000e-73 287.0
17 TraesCS4D01G124600 chr3D 97.600 125 3 0 1876 2000 160615859 160615983 6.180000e-52 215.0
18 TraesCS4D01G124600 chr3D 97.600 125 3 0 1876 2000 588697588 588697464 6.180000e-52 215.0
19 TraesCS4D01G124600 chr3D 95.161 124 6 0 1877 2000 254739863 254739740 2.240000e-46 196.0
20 TraesCS4D01G124600 chr7B 93.529 510 32 1 1 509 7443196 7443705 0.000000e+00 758.0
21 TraesCS4D01G124600 chr7B 96.364 165 6 0 510 674 463534718 463534554 3.620000e-69 272.0
22 TraesCS4D01G124600 chr7B 94.545 165 8 1 510 674 7443834 7443997 1.310000e-63 254.0
23 TraesCS4D01G124600 chr7D 93.177 513 31 4 1 512 435414483 435413974 0.000000e+00 750.0
24 TraesCS4D01G124600 chr7A 93.191 514 27 6 1 512 78436675 78436168 0.000000e+00 749.0
25 TraesCS4D01G124600 chr5B 93.137 510 29 5 1 509 540353041 540353545 0.000000e+00 743.0
26 TraesCS4D01G124600 chr5B 94.048 168 6 3 510 674 540353676 540353842 4.710000e-63 252.0
27 TraesCS4D01G124600 chr2A 92.383 512 26 9 1 509 38514297 38514798 0.000000e+00 717.0
28 TraesCS4D01G124600 chr5D 91.813 513 36 4 1 509 524934146 524934656 0.000000e+00 710.0
29 TraesCS4D01G124600 chr5D 92.751 469 28 6 47 512 371285969 371285504 0.000000e+00 673.0
30 TraesCS4D01G124600 chr5D 94.615 130 7 0 545 674 371285444 371285315 4.810000e-48 202.0
31 TraesCS4D01G124600 chr1D 91.813 513 37 4 1 512 143364194 143363686 0.000000e+00 710.0
32 TraesCS4D01G124600 chr1D 93.711 159 8 2 516 674 143363518 143363362 1.320000e-58 237.0
33 TraesCS4D01G124600 chr1D 92.105 152 9 3 1876 2026 465522129 465521980 8.000000e-51 211.0
34 TraesCS4D01G124600 chr1D 96.000 125 5 0 1876 2000 270226890 270226766 1.340000e-48 204.0
35 TraesCS4D01G124600 chr6D 97.581 124 3 0 1877 2000 109243519 109243642 2.220000e-51 213.0
36 TraesCS4D01G124600 chr5A 93.846 130 8 0 1877 2006 557575299 557575170 2.240000e-46 196.0
37 TraesCS4D01G124600 chr6B 89.103 156 13 3 516 670 644835842 644835994 1.040000e-44 191.0


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 TraesCS4D01G124600 chr4D 108905397 108908246 2849 True 5264.000000 5264 100.000000 1 2850 1 chr4D.!!$R1 2849
1 TraesCS4D01G124600 chrUn 414079929 414081221 1292 False 984.000000 1733 91.784000 808 2206 2 chrUn.!!$F2 1398
2 TraesCS4D01G124600 chr4A 467306952 467308295 1343 False 1016.500000 1733 92.016500 808 2256 2 chr4A.!!$F3 1448
3 TraesCS4D01G124600 chr4A 467313323 467313909 586 False 588.000000 588 85.016000 2247 2847 1 chr4A.!!$F1 600
4 TraesCS4D01G124600 chr4B 167913497 167916666 3169 False 912.333333 1727 93.475333 807 2824 3 chr4B.!!$F2 2017
5 TraesCS4D01G124600 chr3D 582522371 582523173 802 True 591.500000 896 97.923500 1 674 2 chr3D.!!$R3 673
6 TraesCS4D01G124600 chr7B 7443196 7443997 801 False 506.000000 758 94.037000 1 674 2 chr7B.!!$F1 673
7 TraesCS4D01G124600 chr7D 435413974 435414483 509 True 750.000000 750 93.177000 1 512 1 chr7D.!!$R1 511
8 TraesCS4D01G124600 chr7A 78436168 78436675 507 True 749.000000 749 93.191000 1 512 1 chr7A.!!$R1 511
9 TraesCS4D01G124600 chr5B 540353041 540353842 801 False 497.500000 743 93.592500 1 674 2 chr5B.!!$F1 673
10 TraesCS4D01G124600 chr2A 38514297 38514798 501 False 717.000000 717 92.383000 1 509 1 chr2A.!!$F1 508
11 TraesCS4D01G124600 chr5D 524934146 524934656 510 False 710.000000 710 91.813000 1 509 1 chr5D.!!$F1 508
12 TraesCS4D01G124600 chr5D 371285315 371285969 654 True 437.500000 673 93.683000 47 674 2 chr5D.!!$R1 627
13 TraesCS4D01G124600 chr1D 143363362 143364194 832 True 473.500000 710 92.762000 1 674 2 chr1D.!!$R3 673

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
895 1081 0.179056 CTCTTGTGTGGTTCACCGGT 60.179 55.0 0.0 0.0 45.61 5.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1990 3528 0.178912 ACCTAACCAGTCCCTCCGTT 60.179 55.0 0.0 0.0 0.0 4.44 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
509 519 3.181479 TGGAGATTGGTAGTTCGATTCCG 60.181 47.826 0.00 0.00 37.07 4.30
682 861 6.266168 CATCTAGATGTGACAGACCCTATC 57.734 45.833 22.42 0.00 34.23 2.08
683 862 4.730966 TCTAGATGTGACAGACCCTATCC 58.269 47.826 0.00 0.00 0.00 2.59
684 863 3.697190 AGATGTGACAGACCCTATCCT 57.303 47.619 0.00 0.00 0.00 3.24
685 864 4.000928 AGATGTGACAGACCCTATCCTT 57.999 45.455 0.00 0.00 0.00 3.36
686 865 5.144159 AGATGTGACAGACCCTATCCTTA 57.856 43.478 0.00 0.00 0.00 2.69
687 866 5.721225 AGATGTGACAGACCCTATCCTTAT 58.279 41.667 0.00 0.00 0.00 1.73
688 867 6.864421 AGATGTGACAGACCCTATCCTTATA 58.136 40.000 0.00 0.00 0.00 0.98
689 868 6.951198 AGATGTGACAGACCCTATCCTTATAG 59.049 42.308 0.00 0.00 35.73 1.31
690 869 6.027025 TGTGACAGACCCTATCCTTATAGT 57.973 41.667 0.00 0.00 34.36 2.12
691 870 6.441222 TGTGACAGACCCTATCCTTATAGTT 58.559 40.000 0.00 0.00 34.36 2.24
692 871 6.323996 TGTGACAGACCCTATCCTTATAGTTG 59.676 42.308 0.00 0.00 34.36 3.16
693 872 6.550108 GTGACAGACCCTATCCTTATAGTTGA 59.450 42.308 0.00 0.00 34.36 3.18
694 873 6.778069 TGACAGACCCTATCCTTATAGTTGAG 59.222 42.308 0.00 0.00 34.36 3.02
695 874 6.684538 ACAGACCCTATCCTTATAGTTGAGT 58.315 40.000 0.00 0.00 34.36 3.41
696 875 7.133483 ACAGACCCTATCCTTATAGTTGAGTT 58.867 38.462 0.00 0.00 34.36 3.01
697 876 7.624077 ACAGACCCTATCCTTATAGTTGAGTTT 59.376 37.037 0.00 0.00 34.36 2.66
698 877 7.928706 CAGACCCTATCCTTATAGTTGAGTTTG 59.071 40.741 0.00 0.00 34.36 2.93
699 878 7.624077 AGACCCTATCCTTATAGTTGAGTTTGT 59.376 37.037 0.00 0.00 34.36 2.83
700 879 7.793036 ACCCTATCCTTATAGTTGAGTTTGTC 58.207 38.462 0.00 0.00 34.36 3.18
701 880 7.402071 ACCCTATCCTTATAGTTGAGTTTGTCA 59.598 37.037 0.00 0.00 34.36 3.58
702 881 8.432805 CCCTATCCTTATAGTTGAGTTTGTCAT 58.567 37.037 0.00 0.00 34.36 3.06
703 882 9.265901 CCTATCCTTATAGTTGAGTTTGTCATG 57.734 37.037 0.00 0.00 34.36 3.07
704 883 6.985188 TCCTTATAGTTGAGTTTGTCATGC 57.015 37.500 0.00 0.00 34.17 4.06
705 884 6.472016 TCCTTATAGTTGAGTTTGTCATGCA 58.528 36.000 0.00 0.00 34.17 3.96
706 885 7.112122 TCCTTATAGTTGAGTTTGTCATGCAT 58.888 34.615 0.00 0.00 34.17 3.96
707 886 7.611467 TCCTTATAGTTGAGTTTGTCATGCATT 59.389 33.333 0.00 0.00 34.17 3.56
708 887 8.246180 CCTTATAGTTGAGTTTGTCATGCATTT 58.754 33.333 0.00 0.00 34.17 2.32
711 890 5.451908 AGTTGAGTTTGTCATGCATTTACG 58.548 37.500 0.00 0.00 34.17 3.18
712 891 5.008613 AGTTGAGTTTGTCATGCATTTACGT 59.991 36.000 0.00 0.00 34.17 3.57
713 892 5.431420 TGAGTTTGTCATGCATTTACGTT 57.569 34.783 0.00 0.00 0.00 3.99
714 893 5.448438 TGAGTTTGTCATGCATTTACGTTC 58.552 37.500 0.00 0.00 0.00 3.95
715 894 5.238432 TGAGTTTGTCATGCATTTACGTTCT 59.762 36.000 0.00 0.00 0.00 3.01
716 895 6.425417 TGAGTTTGTCATGCATTTACGTTCTA 59.575 34.615 0.00 0.00 0.00 2.10
717 896 7.041712 TGAGTTTGTCATGCATTTACGTTCTAA 60.042 33.333 0.00 0.00 0.00 2.10
718 897 7.644490 AGTTTGTCATGCATTTACGTTCTAAA 58.356 30.769 0.00 0.00 0.00 1.85
719 898 8.296713 AGTTTGTCATGCATTTACGTTCTAAAT 58.703 29.630 0.00 0.00 0.00 1.40
720 899 8.911662 GTTTGTCATGCATTTACGTTCTAAATT 58.088 29.630 0.00 0.00 0.00 1.82
721 900 9.469807 TTTGTCATGCATTTACGTTCTAAATTT 57.530 25.926 0.00 0.00 0.00 1.82
722 901 8.446489 TGTCATGCATTTACGTTCTAAATTTG 57.554 30.769 0.00 0.00 0.00 2.32
723 902 8.079203 TGTCATGCATTTACGTTCTAAATTTGT 58.921 29.630 0.00 0.00 0.00 2.83
724 903 8.575454 GTCATGCATTTACGTTCTAAATTTGTC 58.425 33.333 0.00 0.00 0.00 3.18
725 904 8.293157 TCATGCATTTACGTTCTAAATTTGTCA 58.707 29.630 0.00 0.00 0.00 3.58
726 905 7.845617 TGCATTTACGTTCTAAATTTGTCAC 57.154 32.000 0.00 0.00 0.00 3.67
727 906 7.644490 TGCATTTACGTTCTAAATTTGTCACT 58.356 30.769 0.00 0.00 0.00 3.41
728 907 7.589587 TGCATTTACGTTCTAAATTTGTCACTG 59.410 33.333 0.00 0.00 0.00 3.66
729 908 7.409343 GCATTTACGTTCTAAATTTGTCACTGC 60.409 37.037 0.00 0.00 0.00 4.40
730 909 6.606234 TTACGTTCTAAATTTGTCACTGCA 57.394 33.333 0.00 0.00 0.00 4.41
731 910 5.689383 ACGTTCTAAATTTGTCACTGCAT 57.311 34.783 0.00 0.00 0.00 3.96
732 911 5.689819 ACGTTCTAAATTTGTCACTGCATC 58.310 37.500 0.00 0.00 0.00 3.91
733 912 5.470098 ACGTTCTAAATTTGTCACTGCATCT 59.530 36.000 0.00 0.00 0.00 2.90
734 913 6.649141 ACGTTCTAAATTTGTCACTGCATCTA 59.351 34.615 0.00 0.00 0.00 1.98
735 914 7.172532 ACGTTCTAAATTTGTCACTGCATCTAA 59.827 33.333 0.00 0.00 0.00 2.10
736 915 7.478667 CGTTCTAAATTTGTCACTGCATCTAAC 59.521 37.037 0.00 0.00 0.00 2.34
737 916 7.377766 TCTAAATTTGTCACTGCATCTAACC 57.622 36.000 0.00 0.00 0.00 2.85
738 917 6.939730 TCTAAATTTGTCACTGCATCTAACCA 59.060 34.615 0.00 0.00 0.00 3.67
739 918 6.594788 AAATTTGTCACTGCATCTAACCAT 57.405 33.333 0.00 0.00 0.00 3.55
740 919 5.824904 ATTTGTCACTGCATCTAACCATC 57.175 39.130 0.00 0.00 0.00 3.51
741 920 4.558226 TTGTCACTGCATCTAACCATCT 57.442 40.909 0.00 0.00 0.00 2.90
742 921 3.865446 TGTCACTGCATCTAACCATCTG 58.135 45.455 0.00 0.00 0.00 2.90
743 922 3.515104 TGTCACTGCATCTAACCATCTGA 59.485 43.478 0.00 0.00 0.00 3.27
744 923 4.020307 TGTCACTGCATCTAACCATCTGAA 60.020 41.667 0.00 0.00 0.00 3.02
745 924 4.331168 GTCACTGCATCTAACCATCTGAAC 59.669 45.833 0.00 0.00 0.00 3.18
746 925 3.624861 CACTGCATCTAACCATCTGAACC 59.375 47.826 0.00 0.00 0.00 3.62
747 926 3.264193 ACTGCATCTAACCATCTGAACCA 59.736 43.478 0.00 0.00 0.00 3.67
748 927 3.609853 TGCATCTAACCATCTGAACCAC 58.390 45.455 0.00 0.00 0.00 4.16
749 928 3.008923 TGCATCTAACCATCTGAACCACA 59.991 43.478 0.00 0.00 0.00 4.17
750 929 3.624861 GCATCTAACCATCTGAACCACAG 59.375 47.826 0.00 0.00 46.97 3.66
751 930 3.981071 TCTAACCATCTGAACCACAGG 57.019 47.619 0.00 0.00 45.76 4.00
752 931 3.248024 TCTAACCATCTGAACCACAGGT 58.752 45.455 0.00 0.00 45.76 4.00
754 933 2.276732 ACCATCTGAACCACAGGTTG 57.723 50.000 6.10 0.00 46.95 3.77
755 934 1.494721 ACCATCTGAACCACAGGTTGT 59.505 47.619 6.10 0.00 46.95 3.32
756 935 2.091885 ACCATCTGAACCACAGGTTGTT 60.092 45.455 6.10 0.00 46.95 2.83
757 936 2.958355 CCATCTGAACCACAGGTTGTTT 59.042 45.455 6.10 0.00 46.95 2.83
758 937 3.004734 CCATCTGAACCACAGGTTGTTTC 59.995 47.826 6.10 0.00 46.95 2.78
759 938 2.285083 TCTGAACCACAGGTTGTTTCG 58.715 47.619 6.10 0.00 46.95 3.46
760 939 0.736053 TGAACCACAGGTTGTTTCGC 59.264 50.000 6.10 0.00 46.95 4.70
761 940 1.021968 GAACCACAGGTTGTTTCGCT 58.978 50.000 6.10 0.00 46.95 4.93
762 941 1.404035 GAACCACAGGTTGTTTCGCTT 59.596 47.619 6.10 0.00 46.95 4.68
763 942 1.470051 ACCACAGGTTGTTTCGCTTT 58.530 45.000 0.00 0.00 27.29 3.51
764 943 1.134175 ACCACAGGTTGTTTCGCTTTG 59.866 47.619 0.00 0.00 27.29 2.77
765 944 1.134175 CCACAGGTTGTTTCGCTTTGT 59.866 47.619 0.00 0.00 0.00 2.83
766 945 2.356382 CCACAGGTTGTTTCGCTTTGTA 59.644 45.455 0.00 0.00 0.00 2.41
767 946 3.004315 CCACAGGTTGTTTCGCTTTGTAT 59.996 43.478 0.00 0.00 0.00 2.29
768 947 4.214545 CCACAGGTTGTTTCGCTTTGTATA 59.785 41.667 0.00 0.00 0.00 1.47
769 948 5.144359 CACAGGTTGTTTCGCTTTGTATAC 58.856 41.667 0.00 0.00 0.00 1.47
770 949 4.817464 ACAGGTTGTTTCGCTTTGTATACA 59.183 37.500 0.08 0.08 0.00 2.29
771 950 5.144359 CAGGTTGTTTCGCTTTGTATACAC 58.856 41.667 4.68 0.00 0.00 2.90
772 951 5.049680 CAGGTTGTTTCGCTTTGTATACACT 60.050 40.000 4.68 0.00 0.00 3.55
773 952 6.146510 CAGGTTGTTTCGCTTTGTATACACTA 59.853 38.462 4.68 0.00 0.00 2.74
774 953 6.146673 AGGTTGTTTCGCTTTGTATACACTAC 59.853 38.462 4.68 0.00 0.00 2.73
775 954 6.146673 GGTTGTTTCGCTTTGTATACACTACT 59.853 38.462 4.68 0.00 0.00 2.57
776 955 7.307573 GGTTGTTTCGCTTTGTATACACTACTT 60.308 37.037 4.68 0.00 0.00 2.24
777 956 7.718272 TGTTTCGCTTTGTATACACTACTTT 57.282 32.000 4.68 0.00 0.00 2.66
778 957 8.145316 TGTTTCGCTTTGTATACACTACTTTT 57.855 30.769 4.68 0.00 0.00 2.27
779 958 9.258826 TGTTTCGCTTTGTATACACTACTTTTA 57.741 29.630 4.68 0.00 0.00 1.52
805 984 9.474313 AAAATATAATGAAGTCCCTAGTTTGCA 57.526 29.630 0.00 0.00 0.00 4.08
806 985 9.646522 AAATATAATGAAGTCCCTAGTTTGCAT 57.353 29.630 0.00 0.00 0.00 3.96
810 989 7.775053 AATGAAGTCCCTAGTTTGCATAAAA 57.225 32.000 0.00 0.00 0.00 1.52
811 990 6.817765 TGAAGTCCCTAGTTTGCATAAAAG 57.182 37.500 0.00 0.00 0.00 2.27
889 1075 1.507141 CGGGCACTCTTGTGTGGTTC 61.507 60.000 5.22 0.00 45.44 3.62
895 1081 0.179056 CTCTTGTGTGGTTCACCGGT 60.179 55.000 0.00 0.00 45.61 5.28
1093 1280 3.107642 ACGTTCTCCATCGTTTCAACT 57.892 42.857 0.00 0.00 36.93 3.16
1434 1621 4.517703 CGCCTCGAGGACGACGAC 62.518 72.222 35.69 14.09 43.81 4.34
1537 1724 1.571919 GGCATGTACGTCATCCTCAC 58.428 55.000 0.00 0.00 34.09 3.51
1574 1761 9.543018 CGAGTTTACTTAATTGATTTGAACCTC 57.457 33.333 0.00 0.00 0.00 3.85
1783 1970 0.742281 CTCCTCCATGCACGGTGAAG 60.742 60.000 13.29 0.03 0.00 3.02
1817 2004 2.580815 CCACGGAGCAGCATCTCA 59.419 61.111 0.00 0.00 34.84 3.27
1878 3416 8.715088 AGTTCCATTTTTGTTGTATACTCGTAC 58.285 33.333 4.17 0.00 0.00 3.67
1879 3417 8.715088 GTTCCATTTTTGTTGTATACTCGTACT 58.285 33.333 4.17 0.00 0.00 2.73
1880 3418 8.470040 TCCATTTTTGTTGTATACTCGTACTC 57.530 34.615 4.17 0.00 0.00 2.59
1881 3419 7.546667 TCCATTTTTGTTGTATACTCGTACTCC 59.453 37.037 4.17 0.00 0.00 3.85
1882 3420 7.332430 CCATTTTTGTTGTATACTCGTACTCCA 59.668 37.037 4.17 0.00 0.00 3.86
1883 3421 8.879759 CATTTTTGTTGTATACTCGTACTCCAT 58.120 33.333 4.17 0.00 0.00 3.41
1884 3422 8.470040 TTTTTGTTGTATACTCGTACTCCATC 57.530 34.615 4.17 0.00 0.00 3.51
1885 3423 5.762825 TGTTGTATACTCGTACTCCATCC 57.237 43.478 4.17 0.00 0.00 3.51
1886 3424 4.274214 TGTTGTATACTCGTACTCCATCCG 59.726 45.833 4.17 0.00 0.00 4.18
1887 3425 4.077300 TGTATACTCGTACTCCATCCGT 57.923 45.455 4.17 0.00 0.00 4.69
1888 3426 4.454678 TGTATACTCGTACTCCATCCGTT 58.545 43.478 4.17 0.00 0.00 4.44
1889 3427 4.512944 TGTATACTCGTACTCCATCCGTTC 59.487 45.833 4.17 0.00 0.00 3.95
1890 3428 2.125773 ACTCGTACTCCATCCGTTCT 57.874 50.000 0.00 0.00 0.00 3.01
1891 3429 1.743958 ACTCGTACTCCATCCGTTCTG 59.256 52.381 0.00 0.00 0.00 3.02
1892 3430 2.014857 CTCGTACTCCATCCGTTCTGA 58.985 52.381 0.00 0.00 0.00 3.27
1893 3431 2.422479 CTCGTACTCCATCCGTTCTGAA 59.578 50.000 0.00 0.00 0.00 3.02
1894 3432 3.021695 TCGTACTCCATCCGTTCTGAAT 58.978 45.455 0.00 0.00 0.00 2.57
1895 3433 3.446161 TCGTACTCCATCCGTTCTGAATT 59.554 43.478 0.00 0.00 0.00 2.17
1896 3434 4.641541 TCGTACTCCATCCGTTCTGAATTA 59.358 41.667 0.00 0.00 0.00 1.40
1897 3435 4.738740 CGTACTCCATCCGTTCTGAATTAC 59.261 45.833 0.00 0.00 0.00 1.89
1898 3436 5.450137 CGTACTCCATCCGTTCTGAATTACT 60.450 44.000 0.00 0.00 0.00 2.24
1899 3437 5.422214 ACTCCATCCGTTCTGAATTACTT 57.578 39.130 0.00 0.00 0.00 2.24
1900 3438 5.178797 ACTCCATCCGTTCTGAATTACTTG 58.821 41.667 0.00 0.00 0.00 3.16
1901 3439 5.160607 TCCATCCGTTCTGAATTACTTGT 57.839 39.130 0.00 0.00 0.00 3.16
1902 3440 5.175859 TCCATCCGTTCTGAATTACTTGTC 58.824 41.667 0.00 0.00 0.00 3.18
1903 3441 5.046591 TCCATCCGTTCTGAATTACTTGTCT 60.047 40.000 0.00 0.00 0.00 3.41
1904 3442 5.643777 CCATCCGTTCTGAATTACTTGTCTT 59.356 40.000 0.00 0.00 0.00 3.01
1905 3443 6.816640 CCATCCGTTCTGAATTACTTGTCTTA 59.183 38.462 0.00 0.00 0.00 2.10
1906 3444 7.010552 CCATCCGTTCTGAATTACTTGTCTTAG 59.989 40.741 0.00 0.00 0.00 2.18
1907 3445 7.223260 TCCGTTCTGAATTACTTGTCTTAGA 57.777 36.000 0.00 0.00 0.00 2.10
1908 3446 7.837863 TCCGTTCTGAATTACTTGTCTTAGAT 58.162 34.615 0.00 0.00 0.00 1.98
1909 3447 8.311836 TCCGTTCTGAATTACTTGTCTTAGATT 58.688 33.333 0.00 0.00 0.00 2.40
1910 3448 8.936864 CCGTTCTGAATTACTTGTCTTAGATTT 58.063 33.333 0.00 0.00 0.00 2.17
1911 3449 9.746711 CGTTCTGAATTACTTGTCTTAGATTTG 57.253 33.333 0.00 0.00 0.00 2.32
1922 3460 8.407064 ACTTGTCTTAGATTTGTCTAGATACGG 58.593 37.037 0.00 0.00 0.00 4.02
1923 3461 8.515695 TTGTCTTAGATTTGTCTAGATACGGA 57.484 34.615 0.00 0.00 0.00 4.69
1924 3462 8.693120 TGTCTTAGATTTGTCTAGATACGGAT 57.307 34.615 0.00 0.00 0.00 4.18
1925 3463 8.568794 TGTCTTAGATTTGTCTAGATACGGATG 58.431 37.037 0.00 0.00 0.00 3.51
1926 3464 8.569641 GTCTTAGATTTGTCTAGATACGGATGT 58.430 37.037 0.00 0.00 0.00 3.06
1927 3465 9.788889 TCTTAGATTTGTCTAGATACGGATGTA 57.211 33.333 0.00 0.00 34.45 2.29
1942 3480 8.988064 ATACGGATGTATCTAGCACTAAAATG 57.012 34.615 0.00 0.00 36.56 2.32
1943 3481 7.050970 ACGGATGTATCTAGCACTAAAATGA 57.949 36.000 0.00 0.00 0.00 2.57
1944 3482 7.497595 ACGGATGTATCTAGCACTAAAATGAA 58.502 34.615 0.00 0.00 0.00 2.57
1945 3483 8.150945 ACGGATGTATCTAGCACTAAAATGAAT 58.849 33.333 0.00 0.00 0.00 2.57
1946 3484 8.993121 CGGATGTATCTAGCACTAAAATGAATT 58.007 33.333 0.00 0.00 0.00 2.17
1989 3527 8.438676 AGATAAATCCAAGACAAGTAATTCGG 57.561 34.615 0.00 0.00 0.00 4.30
1990 3528 8.265055 AGATAAATCCAAGACAAGTAATTCGGA 58.735 33.333 0.00 0.00 0.00 4.55
1991 3529 8.801882 ATAAATCCAAGACAAGTAATTCGGAA 57.198 30.769 0.00 0.00 0.00 4.30
1992 3530 6.496338 AATCCAAGACAAGTAATTCGGAAC 57.504 37.500 0.00 0.00 0.00 3.62
2037 3575 3.441163 CCAGATGCAACAAATTCGATGG 58.559 45.455 0.00 0.00 0.00 3.51
2096 3638 9.099454 ACTACTCGTTTATTTTCTGAATGGATC 57.901 33.333 0.00 0.00 0.00 3.36
2157 3699 4.320129 CGTTGATATGTGCCAAACTTCACA 60.320 41.667 0.00 0.00 45.81 3.58
2294 3852 3.066760 CGAGAAGGGCTCTTGTTTTTGTT 59.933 43.478 1.79 0.00 41.66 2.83
2314 3872 4.774726 TGTTAGAGAGGAGCTGATTCTGTT 59.225 41.667 0.00 0.00 0.00 3.16
2333 3891 8.911918 TTCTGTTGGCTGTTTCTTATAACTAA 57.088 30.769 0.00 0.00 0.00 2.24
2340 3907 9.344772 TGGCTGTTTCTTATAACTAACAAAAGA 57.655 29.630 8.29 0.00 30.87 2.52
2341 3908 9.827411 GGCTGTTTCTTATAACTAACAAAAGAG 57.173 33.333 8.29 0.00 30.87 2.85
2349 3916 6.780706 ATAACTAACAAAAGAGTCCGTGTG 57.219 37.500 0.00 0.00 0.00 3.82
2353 3920 2.706890 ACAAAAGAGTCCGTGTGTTGT 58.293 42.857 0.00 0.00 0.00 3.32
2362 3929 6.640518 AGAGTCCGTGTGTTGTAATTGATAT 58.359 36.000 0.00 0.00 0.00 1.63
2457 4024 1.384502 AATGAGGCAGGATCGGGGA 60.385 57.895 0.00 0.00 0.00 4.81
2510 4077 2.486982 GGGGGTTAGAGCGTTCTTTTTC 59.513 50.000 7.22 0.00 34.79 2.29
2534 4101 8.169839 TCTTCTTTCTATTTAACGATGACACG 57.830 34.615 0.00 0.00 39.31 4.49
2535 4102 8.024865 TCTTCTTTCTATTTAACGATGACACGA 58.975 33.333 0.00 0.00 37.03 4.35
2572 4139 8.548877 TCTTTAACTATAGAGGCAATTTCAGGT 58.451 33.333 6.78 0.00 0.00 4.00
2599 4167 5.418840 TGAATAAGAAATGAAGAAGCACCCC 59.581 40.000 0.00 0.00 0.00 4.95
2667 4235 1.026182 TCATGTGCATGGAGAACCGC 61.026 55.000 11.68 0.00 39.24 5.68
2725 4296 9.851686 TTGTTTGAATAGATCATTACATAGCCT 57.148 29.630 0.00 0.00 38.03 4.58
2833 4404 2.908634 CTTGTTGAAGCGCTGTGTTAG 58.091 47.619 12.58 0.48 0.00 2.34
2842 4413 2.666508 AGCGCTGTGTTAGAATACGTTG 59.333 45.455 10.39 0.00 0.00 4.10
2847 4418 5.227391 CGCTGTGTTAGAATACGTTGTCTAG 59.773 44.000 0.00 0.00 0.00 2.43
2848 4419 6.091437 GCTGTGTTAGAATACGTTGTCTAGT 58.909 40.000 0.00 0.00 0.00 2.57
2849 4420 6.585322 GCTGTGTTAGAATACGTTGTCTAGTT 59.415 38.462 0.00 0.00 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
536 712 1.593196 CAGCCAAGTTTCTCCGTTGA 58.407 50.000 0.00 0.00 0.00 3.18
674 853 7.793036 ACAAACTCAACTATAAGGATAGGGTC 58.207 38.462 0.00 0.00 39.63 4.46
675 854 7.402071 TGACAAACTCAACTATAAGGATAGGGT 59.598 37.037 0.00 0.00 39.63 4.34
676 855 7.792032 TGACAAACTCAACTATAAGGATAGGG 58.208 38.462 0.00 0.00 39.63 3.53
677 856 9.265901 CATGACAAACTCAACTATAAGGATAGG 57.734 37.037 0.00 0.00 39.63 2.57
678 857 8.768955 GCATGACAAACTCAACTATAAGGATAG 58.231 37.037 0.00 0.00 40.92 2.08
679 858 8.264347 TGCATGACAAACTCAACTATAAGGATA 58.736 33.333 0.00 0.00 30.60 2.59
680 859 7.112122 TGCATGACAAACTCAACTATAAGGAT 58.888 34.615 0.00 0.00 30.60 3.24
681 860 6.472016 TGCATGACAAACTCAACTATAAGGA 58.528 36.000 0.00 0.00 30.60 3.36
682 861 6.741992 TGCATGACAAACTCAACTATAAGG 57.258 37.500 0.00 0.00 30.60 2.69
685 864 8.387354 CGTAAATGCATGACAAACTCAACTATA 58.613 33.333 0.00 0.00 30.60 1.31
686 865 7.094805 ACGTAAATGCATGACAAACTCAACTAT 60.095 33.333 0.00 0.00 30.60 2.12
687 866 6.203915 ACGTAAATGCATGACAAACTCAACTA 59.796 34.615 0.00 0.00 30.60 2.24
688 867 5.008613 ACGTAAATGCATGACAAACTCAACT 59.991 36.000 0.00 0.00 30.60 3.16
689 868 5.212194 ACGTAAATGCATGACAAACTCAAC 58.788 37.500 0.00 0.00 30.60 3.18
690 869 5.431420 ACGTAAATGCATGACAAACTCAA 57.569 34.783 0.00 0.00 30.60 3.02
691 870 5.238432 AGAACGTAAATGCATGACAAACTCA 59.762 36.000 0.00 0.00 0.00 3.41
692 871 5.689819 AGAACGTAAATGCATGACAAACTC 58.310 37.500 0.00 0.00 0.00 3.01
693 872 5.689383 AGAACGTAAATGCATGACAAACT 57.311 34.783 0.00 0.00 0.00 2.66
694 873 7.845617 TTTAGAACGTAAATGCATGACAAAC 57.154 32.000 0.00 0.00 0.00 2.93
695 874 9.469807 AAATTTAGAACGTAAATGCATGACAAA 57.530 25.926 0.00 0.00 0.00 2.83
696 875 8.910666 CAAATTTAGAACGTAAATGCATGACAA 58.089 29.630 0.00 0.00 0.00 3.18
697 876 8.079203 ACAAATTTAGAACGTAAATGCATGACA 58.921 29.630 0.00 0.00 0.00 3.58
698 877 8.447787 ACAAATTTAGAACGTAAATGCATGAC 57.552 30.769 0.00 0.31 0.00 3.06
699 878 8.293157 TGACAAATTTAGAACGTAAATGCATGA 58.707 29.630 0.00 0.00 0.00 3.07
700 879 8.365210 GTGACAAATTTAGAACGTAAATGCATG 58.635 33.333 0.00 0.00 0.00 4.06
701 880 8.296713 AGTGACAAATTTAGAACGTAAATGCAT 58.703 29.630 0.00 0.00 0.00 3.96
702 881 7.589587 CAGTGACAAATTTAGAACGTAAATGCA 59.410 33.333 0.00 0.00 0.00 3.96
703 882 7.409343 GCAGTGACAAATTTAGAACGTAAATGC 60.409 37.037 0.00 1.15 0.00 3.56
704 883 7.589587 TGCAGTGACAAATTTAGAACGTAAATG 59.410 33.333 0.00 0.00 0.00 2.32
705 884 7.644490 TGCAGTGACAAATTTAGAACGTAAAT 58.356 30.769 0.00 0.00 0.00 1.40
706 885 7.017498 TGCAGTGACAAATTTAGAACGTAAA 57.983 32.000 0.00 0.00 0.00 2.01
707 886 6.606234 TGCAGTGACAAATTTAGAACGTAA 57.394 33.333 0.00 0.00 0.00 3.18
708 887 6.649141 AGATGCAGTGACAAATTTAGAACGTA 59.351 34.615 0.00 0.00 0.00 3.57
709 888 5.470098 AGATGCAGTGACAAATTTAGAACGT 59.530 36.000 0.00 0.00 0.00 3.99
710 889 5.931532 AGATGCAGTGACAAATTTAGAACG 58.068 37.500 0.00 0.00 0.00 3.95
711 890 7.750903 GGTTAGATGCAGTGACAAATTTAGAAC 59.249 37.037 0.00 0.00 0.00 3.01
712 891 7.446931 TGGTTAGATGCAGTGACAAATTTAGAA 59.553 33.333 0.00 0.00 0.00 2.10
713 892 6.939730 TGGTTAGATGCAGTGACAAATTTAGA 59.060 34.615 0.00 0.00 0.00 2.10
714 893 7.144722 TGGTTAGATGCAGTGACAAATTTAG 57.855 36.000 0.00 0.00 0.00 1.85
715 894 7.611467 AGATGGTTAGATGCAGTGACAAATTTA 59.389 33.333 0.00 0.00 0.00 1.40
716 895 6.435277 AGATGGTTAGATGCAGTGACAAATTT 59.565 34.615 0.00 0.00 0.00 1.82
717 896 5.948162 AGATGGTTAGATGCAGTGACAAATT 59.052 36.000 0.00 0.00 0.00 1.82
718 897 5.356190 CAGATGGTTAGATGCAGTGACAAAT 59.644 40.000 0.00 0.00 0.00 2.32
719 898 4.696877 CAGATGGTTAGATGCAGTGACAAA 59.303 41.667 0.00 0.00 0.00 2.83
720 899 4.020307 TCAGATGGTTAGATGCAGTGACAA 60.020 41.667 0.00 0.00 0.00 3.18
721 900 3.515104 TCAGATGGTTAGATGCAGTGACA 59.485 43.478 0.00 0.00 0.00 3.58
722 901 4.128925 TCAGATGGTTAGATGCAGTGAC 57.871 45.455 0.00 0.00 0.00 3.67
723 902 4.507710 GTTCAGATGGTTAGATGCAGTGA 58.492 43.478 0.00 0.00 0.00 3.41
724 903 3.624861 GGTTCAGATGGTTAGATGCAGTG 59.375 47.826 0.00 0.00 0.00 3.66
725 904 3.264193 TGGTTCAGATGGTTAGATGCAGT 59.736 43.478 0.00 0.00 0.00 4.40
726 905 3.624861 GTGGTTCAGATGGTTAGATGCAG 59.375 47.826 0.00 0.00 0.00 4.41
727 906 3.008923 TGTGGTTCAGATGGTTAGATGCA 59.991 43.478 0.00 0.00 0.00 3.96
728 907 3.609853 TGTGGTTCAGATGGTTAGATGC 58.390 45.455 0.00 0.00 0.00 3.91
729 908 4.194640 CCTGTGGTTCAGATGGTTAGATG 58.805 47.826 0.00 0.00 46.27 2.90
730 909 3.846588 ACCTGTGGTTCAGATGGTTAGAT 59.153 43.478 0.00 0.00 46.27 1.98
731 910 3.248024 ACCTGTGGTTCAGATGGTTAGA 58.752 45.455 0.00 0.00 46.27 2.10
732 911 3.703001 ACCTGTGGTTCAGATGGTTAG 57.297 47.619 0.00 0.00 46.27 2.34
733 912 3.137544 ACAACCTGTGGTTCAGATGGTTA 59.862 43.478 0.00 0.00 43.05 2.85
734 913 2.091885 ACAACCTGTGGTTCAGATGGTT 60.092 45.455 0.00 0.00 43.05 3.67
735 914 1.494721 ACAACCTGTGGTTCAGATGGT 59.505 47.619 0.00 0.00 43.05 3.55
736 915 2.276732 ACAACCTGTGGTTCAGATGG 57.723 50.000 0.00 0.00 43.05 3.51
744 923 1.134175 CAAAGCGAAACAACCTGTGGT 59.866 47.619 0.00 0.00 37.65 4.16
745 924 1.134175 ACAAAGCGAAACAACCTGTGG 59.866 47.619 0.00 0.00 0.00 4.17
746 925 2.559998 ACAAAGCGAAACAACCTGTG 57.440 45.000 0.00 0.00 0.00 3.66
747 926 4.817464 TGTATACAAAGCGAAACAACCTGT 59.183 37.500 2.20 0.00 0.00 4.00
748 927 5.049680 AGTGTATACAAAGCGAAACAACCTG 60.050 40.000 7.25 0.00 0.00 4.00
749 928 5.061179 AGTGTATACAAAGCGAAACAACCT 58.939 37.500 7.25 0.00 0.00 3.50
750 929 5.352643 AGTGTATACAAAGCGAAACAACC 57.647 39.130 7.25 0.00 0.00 3.77
751 930 7.113704 AGTAGTGTATACAAAGCGAAACAAC 57.886 36.000 7.25 0.00 0.00 3.32
752 931 7.718272 AAGTAGTGTATACAAAGCGAAACAA 57.282 32.000 7.25 0.00 0.00 2.83
753 932 7.718272 AAAGTAGTGTATACAAAGCGAAACA 57.282 32.000 7.25 0.00 0.00 2.83
779 958 9.474313 TGCAAACTAGGGACTTCATTATATTTT 57.526 29.630 0.00 0.00 41.75 1.82
780 959 9.646522 ATGCAAACTAGGGACTTCATTATATTT 57.353 29.630 0.00 0.00 41.75 1.40
784 963 9.474313 TTTTATGCAAACTAGGGACTTCATTAT 57.526 29.630 0.00 0.00 41.75 1.28
785 964 8.871629 TTTTATGCAAACTAGGGACTTCATTA 57.128 30.769 0.00 0.00 41.75 1.90
786 965 7.669722 TCTTTTATGCAAACTAGGGACTTCATT 59.330 33.333 0.00 0.00 41.75 2.57
787 966 7.175104 TCTTTTATGCAAACTAGGGACTTCAT 58.825 34.615 0.00 0.00 41.75 2.57
788 967 6.539173 TCTTTTATGCAAACTAGGGACTTCA 58.461 36.000 0.00 0.00 41.75 3.02
789 968 7.448748 TTCTTTTATGCAAACTAGGGACTTC 57.551 36.000 0.00 0.00 41.75 3.01
790 969 7.505923 AGTTTCTTTTATGCAAACTAGGGACTT 59.494 33.333 0.00 0.00 38.34 3.01
791 970 7.004691 AGTTTCTTTTATGCAAACTAGGGACT 58.995 34.615 0.00 0.00 38.34 3.85
792 971 7.215719 AGTTTCTTTTATGCAAACTAGGGAC 57.784 36.000 0.00 0.00 38.34 4.46
793 972 9.528489 AATAGTTTCTTTTATGCAAACTAGGGA 57.472 29.630 9.91 0.00 42.82 4.20
801 980 9.474920 CCACTGAAAATAGTTTCTTTTATGCAA 57.525 29.630 15.90 0.00 43.13 4.08
802 981 8.087750 CCCACTGAAAATAGTTTCTTTTATGCA 58.912 33.333 15.90 0.00 43.13 3.96
803 982 7.063426 GCCCACTGAAAATAGTTTCTTTTATGC 59.937 37.037 15.90 8.47 43.13 3.14
804 983 7.545615 GGCCCACTGAAAATAGTTTCTTTTATG 59.454 37.037 15.90 7.43 43.13 1.90
805 984 7.310423 GGGCCCACTGAAAATAGTTTCTTTTAT 60.310 37.037 19.95 0.00 43.13 1.40
806 985 6.014925 GGGCCCACTGAAAATAGTTTCTTTTA 60.015 38.462 19.95 0.00 43.13 1.52
807 986 5.221641 GGGCCCACTGAAAATAGTTTCTTTT 60.222 40.000 19.95 0.00 43.13 2.27
808 987 4.283467 GGGCCCACTGAAAATAGTTTCTTT 59.717 41.667 19.95 1.14 43.13 2.52
809 988 3.832490 GGGCCCACTGAAAATAGTTTCTT 59.168 43.478 19.95 1.48 43.13 2.52
810 989 3.431415 GGGCCCACTGAAAATAGTTTCT 58.569 45.455 19.95 0.00 43.13 2.52
811 990 2.163613 CGGGCCCACTGAAAATAGTTTC 59.836 50.000 24.92 8.68 43.04 2.78
939 1126 2.029073 CAAGGCTCGTGTCACGGT 59.971 61.111 24.33 5.21 42.81 4.83
1432 1619 4.754667 GGGCCCTTGGTCGTCGTC 62.755 72.222 17.04 0.00 0.00 4.20
1434 1621 3.952628 GAAGGGCCCTTGGTCGTCG 62.953 68.421 41.94 0.00 36.26 5.12
1515 1702 1.520564 GGATGACGTACATGCCGCA 60.521 57.895 0.00 0.00 40.64 5.69
1537 1724 1.203994 AGTAAACTCGATCGTGGTGGG 59.796 52.381 20.14 5.94 0.00 4.61
1574 1761 1.867233 CATAGCTTCGTCGGAATTGGG 59.133 52.381 0.00 0.00 0.00 4.12
1783 1970 3.542742 GCGTGTAGCGACGGAAGC 61.543 66.667 0.00 0.20 44.77 3.86
1878 3416 5.178797 ACAAGTAATTCAGAACGGATGGAG 58.821 41.667 0.00 0.00 0.00 3.86
1879 3417 5.046591 AGACAAGTAATTCAGAACGGATGGA 60.047 40.000 0.00 0.00 0.00 3.41
1880 3418 5.178797 AGACAAGTAATTCAGAACGGATGG 58.821 41.667 0.00 0.00 0.00 3.51
1881 3419 6.727824 AAGACAAGTAATTCAGAACGGATG 57.272 37.500 0.00 0.00 0.00 3.51
1882 3420 7.837863 TCTAAGACAAGTAATTCAGAACGGAT 58.162 34.615 0.00 0.00 0.00 4.18
1883 3421 7.223260 TCTAAGACAAGTAATTCAGAACGGA 57.777 36.000 0.00 0.00 0.00 4.69
1884 3422 8.480643 AATCTAAGACAAGTAATTCAGAACGG 57.519 34.615 0.00 0.00 0.00 4.44
1885 3423 9.746711 CAAATCTAAGACAAGTAATTCAGAACG 57.253 33.333 0.00 0.00 0.00 3.95
1896 3434 8.407064 CCGTATCTAGACAAATCTAAGACAAGT 58.593 37.037 0.00 0.00 36.98 3.16
1897 3435 8.622157 TCCGTATCTAGACAAATCTAAGACAAG 58.378 37.037 0.00 0.00 36.98 3.16
1898 3436 8.515695 TCCGTATCTAGACAAATCTAAGACAA 57.484 34.615 0.00 0.00 36.98 3.18
1899 3437 8.568794 CATCCGTATCTAGACAAATCTAAGACA 58.431 37.037 0.00 0.00 36.98 3.41
1900 3438 8.569641 ACATCCGTATCTAGACAAATCTAAGAC 58.430 37.037 0.00 0.00 36.98 3.01
1901 3439 8.693120 ACATCCGTATCTAGACAAATCTAAGA 57.307 34.615 0.00 0.00 36.98 2.10
1917 3455 8.803235 TCATTTTAGTGCTAGATACATCCGTAT 58.197 33.333 0.00 0.00 41.16 3.06
1918 3456 8.173542 TCATTTTAGTGCTAGATACATCCGTA 57.826 34.615 0.00 0.00 0.00 4.02
1919 3457 7.050970 TCATTTTAGTGCTAGATACATCCGT 57.949 36.000 0.00 0.00 0.00 4.69
1920 3458 7.946655 TTCATTTTAGTGCTAGATACATCCG 57.053 36.000 0.00 0.00 0.00 4.18
1931 3469 8.958119 TCCGTATCTAAATTCATTTTAGTGCT 57.042 30.769 5.33 0.00 44.78 4.40
1932 3470 9.599322 CATCCGTATCTAAATTCATTTTAGTGC 57.401 33.333 5.33 0.00 44.78 4.40
1951 3489 9.749340 TCTTGGATTTATCTAGATACATCCGTA 57.251 33.333 33.19 26.65 46.32 4.02
1952 3490 8.524487 GTCTTGGATTTATCTAGATACATCCGT 58.476 37.037 33.19 10.18 46.32 4.69
1953 3491 8.523658 TGTCTTGGATTTATCTAGATACATCCG 58.476 37.037 33.19 25.69 46.32 4.18
1963 3501 9.542462 CCGAATTACTTGTCTTGGATTTATCTA 57.458 33.333 0.00 0.00 0.00 1.98
1964 3502 8.265055 TCCGAATTACTTGTCTTGGATTTATCT 58.735 33.333 0.00 0.00 0.00 1.98
1965 3503 8.433421 TCCGAATTACTTGTCTTGGATTTATC 57.567 34.615 0.00 0.00 0.00 1.75
1966 3504 8.674607 GTTCCGAATTACTTGTCTTGGATTTAT 58.325 33.333 0.00 0.00 0.00 1.40
1967 3505 7.148540 CGTTCCGAATTACTTGTCTTGGATTTA 60.149 37.037 0.00 0.00 0.00 1.40
1968 3506 6.348213 CGTTCCGAATTACTTGTCTTGGATTT 60.348 38.462 0.00 0.00 0.00 2.17
1969 3507 5.121768 CGTTCCGAATTACTTGTCTTGGATT 59.878 40.000 0.00 0.00 0.00 3.01
1970 3508 4.630069 CGTTCCGAATTACTTGTCTTGGAT 59.370 41.667 0.00 0.00 0.00 3.41
1971 3509 3.991773 CGTTCCGAATTACTTGTCTTGGA 59.008 43.478 0.00 0.00 0.00 3.53
1972 3510 3.124636 CCGTTCCGAATTACTTGTCTTGG 59.875 47.826 0.00 0.00 0.00 3.61
1973 3511 3.991773 TCCGTTCCGAATTACTTGTCTTG 59.008 43.478 0.00 0.00 0.00 3.02
1974 3512 4.243270 CTCCGTTCCGAATTACTTGTCTT 58.757 43.478 0.00 0.00 0.00 3.01
1975 3513 3.368116 CCTCCGTTCCGAATTACTTGTCT 60.368 47.826 0.00 0.00 0.00 3.41
1976 3514 2.928116 CCTCCGTTCCGAATTACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
1977 3515 2.354403 CCCTCCGTTCCGAATTACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
1978 3516 2.093869 TCCCTCCGTTCCGAATTACTTG 60.094 50.000 0.00 0.00 0.00 3.16
1979 3517 2.093816 GTCCCTCCGTTCCGAATTACTT 60.094 50.000 0.00 0.00 0.00 2.24
1980 3518 1.479730 GTCCCTCCGTTCCGAATTACT 59.520 52.381 0.00 0.00 0.00 2.24
1981 3519 1.479730 AGTCCCTCCGTTCCGAATTAC 59.520 52.381 0.00 0.00 0.00 1.89
1982 3520 1.479323 CAGTCCCTCCGTTCCGAATTA 59.521 52.381 0.00 0.00 0.00 1.40
1983 3521 0.249398 CAGTCCCTCCGTTCCGAATT 59.751 55.000 0.00 0.00 0.00 2.17
1984 3522 1.614241 CCAGTCCCTCCGTTCCGAAT 61.614 60.000 0.00 0.00 0.00 3.34
1985 3523 2.280552 CCAGTCCCTCCGTTCCGAA 61.281 63.158 0.00 0.00 0.00 4.30
1986 3524 2.678934 CCAGTCCCTCCGTTCCGA 60.679 66.667 0.00 0.00 0.00 4.55
1987 3525 1.252904 TAACCAGTCCCTCCGTTCCG 61.253 60.000 0.00 0.00 0.00 4.30
1988 3526 0.535797 CTAACCAGTCCCTCCGTTCC 59.464 60.000 0.00 0.00 0.00 3.62
1989 3527 0.535797 CCTAACCAGTCCCTCCGTTC 59.464 60.000 0.00 0.00 0.00 3.95
1990 3528 0.178912 ACCTAACCAGTCCCTCCGTT 60.179 55.000 0.00 0.00 0.00 4.44
1991 3529 0.706433 TACCTAACCAGTCCCTCCGT 59.294 55.000 0.00 0.00 0.00 4.69
1992 3530 1.400737 CTACCTAACCAGTCCCTCCG 58.599 60.000 0.00 0.00 0.00 4.63
1993 3531 1.121378 GCTACCTAACCAGTCCCTCC 58.879 60.000 0.00 0.00 0.00 4.30
1994 3532 1.121378 GGCTACCTAACCAGTCCCTC 58.879 60.000 0.00 0.00 0.00 4.30
1995 3533 0.416231 TGGCTACCTAACCAGTCCCT 59.584 55.000 0.00 0.00 0.00 4.20
1996 3534 0.831307 CTGGCTACCTAACCAGTCCC 59.169 60.000 0.79 0.00 46.95 4.46
2001 3539 0.252513 TCTGGCTGGCTACCTAACCA 60.253 55.000 2.00 0.00 0.00 3.67
2002 3540 1.132500 ATCTGGCTGGCTACCTAACC 58.868 55.000 2.00 0.00 0.00 2.85
2092 3634 1.964223 TGGCTTGATCTACTCCGATCC 59.036 52.381 0.00 0.00 39.20 3.36
2093 3635 2.605823 CGTGGCTTGATCTACTCCGATC 60.606 54.545 0.00 0.00 40.13 3.69
2094 3636 1.338337 CGTGGCTTGATCTACTCCGAT 59.662 52.381 0.00 0.00 0.00 4.18
2095 3637 0.738975 CGTGGCTTGATCTACTCCGA 59.261 55.000 0.00 0.00 0.00 4.55
2096 3638 0.872021 GCGTGGCTTGATCTACTCCG 60.872 60.000 0.00 0.00 0.00 4.63
2157 3699 1.520787 GACCGGACCGAATGCGAAT 60.521 57.895 17.49 0.00 46.80 3.34
2294 3852 3.703556 CCAACAGAATCAGCTCCTCTCTA 59.296 47.826 0.00 0.00 0.00 2.43
2314 3872 9.344772 TCTTTTGTTAGTTATAAGAAACAGCCA 57.655 29.630 10.73 0.00 34.80 4.75
2333 3891 2.706890 ACAACACACGGACTCTTTTGT 58.293 42.857 0.00 0.00 0.00 2.83
2340 3907 8.780846 TTTATATCAATTACAACACACGGACT 57.219 30.769 0.00 0.00 0.00 3.85
2341 3908 9.997482 ATTTTATATCAATTACAACACACGGAC 57.003 29.630 0.00 0.00 0.00 4.79
2427 3994 0.320771 GCCTCATTCCTCACGTGTGT 60.321 55.000 16.51 0.00 0.00 3.72
2433 4000 1.539929 CGATCCTGCCTCATTCCTCAC 60.540 57.143 0.00 0.00 0.00 3.51
2457 4024 4.953781 TTCCATCCCTTGAATCTTCCTT 57.046 40.909 0.00 0.00 0.00 3.36
2495 4062 9.490379 AATAGAAAGAAGAAAAAGAACGCTCTA 57.510 29.630 0.00 0.00 0.00 2.43
2510 4077 8.169839 TCGTGTCATCGTTAAATAGAAAGAAG 57.830 34.615 0.00 0.00 0.00 2.85
2570 4137 9.508567 GTGCTTCTTCATTTCTTATTCATTACC 57.491 33.333 0.00 0.00 0.00 2.85
2572 4139 8.686334 GGGTGCTTCTTCATTTCTTATTCATTA 58.314 33.333 0.00 0.00 0.00 1.90
2667 4235 4.855388 CCGATAATCGAATACTTGGTACGG 59.145 45.833 0.00 0.00 43.74 4.02
2718 4286 2.153645 TGCTTTGTGTGTGAGGCTATG 58.846 47.619 0.00 0.00 0.00 2.23
2719 4287 2.038952 TCTGCTTTGTGTGTGAGGCTAT 59.961 45.455 0.00 0.00 0.00 2.97
2725 4296 1.302366 CTGCTCTGCTTTGTGTGTGA 58.698 50.000 0.00 0.00 0.00 3.58
2750 4321 1.522569 GCCATCTCGCCCTAACAGT 59.477 57.895 0.00 0.00 0.00 3.55
2824 4395 6.091437 ACTAGACAACGTATTCTAACACAGC 58.909 40.000 0.00 0.00 0.00 4.40


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

AutoCloner maintained by Alex Coulton.