Multiple sequence alignment - TraesCS2B01G191700

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS2B01G191700 chr2B 100.000 3149 0 0 1 3149 166812270 166815418 0.000000e+00 5816.0
1 TraesCS2B01G191700 chr2B 95.023 663 24 4 174 830 166835475 166834816 0.000000e+00 1033.0
2 TraesCS2B01G191700 chr2B 93.276 580 19 6 2537 3113 166830362 166830924 0.000000e+00 837.0
3 TraesCS2B01G191700 chr2D 92.907 2002 84 28 1099 3083 116597236 116595276 0.000000e+00 2857.0
4 TraesCS2B01G191700 chr2D 85.274 584 69 12 1186 1760 116620279 116619704 1.260000e-163 586.0
5 TraesCS2B01G191700 chr2D 83.536 577 83 12 1192 1762 116776868 116776298 2.150000e-146 529.0
6 TraesCS2B01G191700 chr5B 92.473 837 51 8 1 832 36407046 36406217 0.000000e+00 1186.0
7 TraesCS2B01G191700 chr5B 92.115 837 49 10 1 830 347393697 347392871 0.000000e+00 1164.0
8 TraesCS2B01G191700 chr5B 84.884 344 40 9 1 338 11304299 11304636 1.400000e-88 337.0
9 TraesCS2B01G191700 chr6B 90.952 851 50 19 1 841 413939025 413938192 0.000000e+00 1120.0
10 TraesCS2B01G191700 chr6B 95.455 44 2 0 3106 3149 638241206 638241249 1.570000e-08 71.3
11 TraesCS2B01G191700 chr6B 100.000 28 0 0 2168 2195 526478275 526478302 6.000000e-03 52.8
12 TraesCS2B01G191700 chr6B 100.000 28 0 0 2168 2195 718384630 718384603 6.000000e-03 52.8
13 TraesCS2B01G191700 chr1D 90.888 845 55 16 1 832 481450760 481451595 0.000000e+00 1114.0
14 TraesCS2B01G191700 chr5D 90.834 851 48 17 1 832 390547587 390548426 0.000000e+00 1112.0
15 TraesCS2B01G191700 chr5D 85.591 347 32 13 1 338 543495349 543495686 6.460000e-92 348.0
16 TraesCS2B01G191700 chr5D 100.000 28 0 0 2168 2195 267842736 267842709 6.000000e-03 52.8
17 TraesCS2B01G191700 chr7B 90.476 840 50 17 1 829 34165164 34164344 0.000000e+00 1081.0
18 TraesCS2B01G191700 chr6D 84.401 827 84 32 23 827 111021386 111022189 0.000000e+00 771.0
19 TraesCS2B01G191700 chr6D 100.000 28 0 0 2168 2195 139569757 139569784 6.000000e-03 52.8
20 TraesCS2B01G191700 chr3D 84.625 800 75 30 49 828 589698140 589698911 0.000000e+00 752.0
21 TraesCS2B01G191700 chr1A 83.237 865 85 39 1 829 559047378 559048218 0.000000e+00 739.0
22 TraesCS2B01G191700 chr2A 90.796 565 26 10 1503 2057 117850118 117849570 0.000000e+00 732.0
23 TraesCS2B01G191700 chr2A 94.903 412 21 0 1099 1510 117850696 117850285 0.000000e+00 645.0
24 TraesCS2B01G191700 chr2A 86.923 520 46 14 2446 2960 117848413 117847911 5.900000e-157 564.0
25 TraesCS2B01G191700 chr2A 84.022 557 80 9 1207 1760 118222048 118221498 7.740000e-146 527.0
26 TraesCS2B01G191700 chr2A 85.106 517 64 9 1251 1762 118213891 118213383 1.670000e-142 516.0
27 TraesCS2B01G191700 chr2A 95.726 234 8 2 2200 2432 117848624 117848392 2.970000e-100 375.0
28 TraesCS2B01G191700 chr2A 95.045 222 11 0 1099 1320 117851266 117851045 1.800000e-92 350.0
29 TraesCS2B01G191700 chr2A 91.489 141 8 3 964 1104 117851425 117851289 1.150000e-44 191.0
30 TraesCS2B01G191700 chr2A 86.232 138 11 3 967 1104 117908386 117908257 3.270000e-30 143.0
31 TraesCS2B01G191700 chr2A 100.000 32 0 0 1099 1130 117908240 117908209 3.390000e-05 60.2
32 TraesCS2B01G191700 chr2A 100.000 31 0 0 1321 1351 117850727 117850697 1.220000e-04 58.4
33 TraesCS2B01G191700 chr2A 100.000 28 0 0 2168 2195 15846339 15846366 6.000000e-03 52.8
34 TraesCS2B01G191700 chrUn 84.805 487 64 7 1207 1689 460200235 460200715 6.110000e-132 481.0
35 TraesCS2B01G191700 chr6A 97.561 41 1 0 3109 3149 318469381 318469341 1.570000e-08 71.3
36 TraesCS2B01G191700 chr6A 95.455 44 1 1 3107 3149 22832996 22832953 5.640000e-08 69.4
37 TraesCS2B01G191700 chr6A 95.455 44 1 1 3107 3149 105387070 105387027 5.640000e-08 69.4
38 TraesCS2B01G191700 chr3A 97.561 41 1 0 3109 3149 729162601 729162561 1.570000e-08 71.3
39 TraesCS2B01G191700 chr7A 90.566 53 2 3 3099 3149 573071436 573071487 2.030000e-07 67.6
40 TraesCS2B01G191700 chr7A 91.837 49 2 2 3102 3149 579316615 579316662 2.030000e-07 67.6
41 TraesCS2B01G191700 chr7A 93.333 45 3 0 3105 3149 626942284 626942240 2.030000e-07 67.6
42 TraesCS2B01G191700 chr1B 91.667 48 2 2 3102 3149 549588204 549588249 7.290000e-07 65.8
43 TraesCS2B01G191700 chr7D 100.000 28 0 0 2168 2195 168245216 168245243 6.000000e-03 52.8
44 TraesCS2B01G191700 chr3B 100.000 28 0 0 2168 2195 43050346 43050373 6.000000e-03 52.8


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 TraesCS2B01G191700 chr2B 166812270 166815418 3148 False 5816.000000 5816 100.000000 1 3149 1 chr2B.!!$F1 3148
1 TraesCS2B01G191700 chr2B 166834816 166835475 659 True 1033.000000 1033 95.023000 174 830 1 chr2B.!!$R1 656
2 TraesCS2B01G191700 chr2B 166830362 166830924 562 False 837.000000 837 93.276000 2537 3113 1 chr2B.!!$F2 576
3 TraesCS2B01G191700 chr2D 116595276 116597236 1960 True 2857.000000 2857 92.907000 1099 3083 1 chr2D.!!$R1 1984
4 TraesCS2B01G191700 chr2D 116619704 116620279 575 True 586.000000 586 85.274000 1186 1760 1 chr2D.!!$R2 574
5 TraesCS2B01G191700 chr2D 116776298 116776868 570 True 529.000000 529 83.536000 1192 1762 1 chr2D.!!$R3 570
6 TraesCS2B01G191700 chr5B 36406217 36407046 829 True 1186.000000 1186 92.473000 1 832 1 chr5B.!!$R1 831
7 TraesCS2B01G191700 chr5B 347392871 347393697 826 True 1164.000000 1164 92.115000 1 830 1 chr5B.!!$R2 829
8 TraesCS2B01G191700 chr6B 413938192 413939025 833 True 1120.000000 1120 90.952000 1 841 1 chr6B.!!$R1 840
9 TraesCS2B01G191700 chr1D 481450760 481451595 835 False 1114.000000 1114 90.888000 1 832 1 chr1D.!!$F1 831
10 TraesCS2B01G191700 chr5D 390547587 390548426 839 False 1112.000000 1112 90.834000 1 832 1 chr5D.!!$F1 831
11 TraesCS2B01G191700 chr7B 34164344 34165164 820 True 1081.000000 1081 90.476000 1 829 1 chr7B.!!$R1 828
12 TraesCS2B01G191700 chr6D 111021386 111022189 803 False 771.000000 771 84.401000 23 827 1 chr6D.!!$F1 804
13 TraesCS2B01G191700 chr3D 589698140 589698911 771 False 752.000000 752 84.625000 49 828 1 chr3D.!!$F1 779
14 TraesCS2B01G191700 chr1A 559047378 559048218 840 False 739.000000 739 83.237000 1 829 1 chr1A.!!$F1 828
15 TraesCS2B01G191700 chr2A 118221498 118222048 550 True 527.000000 527 84.022000 1207 1760 1 chr2A.!!$R2 553
16 TraesCS2B01G191700 chr2A 118213383 118213891 508 True 516.000000 516 85.106000 1251 1762 1 chr2A.!!$R1 511
17 TraesCS2B01G191700 chr2A 117847911 117851425 3514 True 416.485714 732 93.554571 964 2960 7 chr2A.!!$R3 1996

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
909 990 0.240945 AATCTTTTCACGCGCCTTGG 59.759 50.000 5.73 0.0 0.00 3.61 F
921 1002 0.671251 CGCCTTGGGTTTTGTTGCTA 59.329 50.000 0.00 0.0 0.00 3.49 F
991 1072 0.824759 ACCTGATAACCTCCGTCAGC 59.175 55.000 0.00 0.0 38.38 4.26 F
1847 2712 1.378762 CGAACCTGGGGAACATGGT 59.621 57.895 0.00 0.0 33.73 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1997 2862 0.167470 CCACTGTCTCATGCGCAAAG 59.833 55.000 17.11 15.83 0.0 2.77 R
2003 2868 0.319900 ACACGTCCACTGTCTCATGC 60.320 55.000 0.00 0.00 0.0 4.06 R
2010 2875 1.068127 GAGTACCAACACGTCCACTGT 59.932 52.381 0.00 0.00 0.0 3.55 R
2942 4675 1.503818 GACGAAGCAAAGCCGTGGAA 61.504 55.000 0.00 0.00 36.6 3.53 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
465 519 1.566018 AACTAGCGCACGACTTTGCC 61.566 55.000 11.47 0.00 39.53 4.52
637 700 6.812656 GGAAAAAGAAAAACGTAACCCAGAAA 59.187 34.615 0.00 0.00 0.00 2.52
773 852 1.059657 CAAAGCGCATCCAACGAACG 61.060 55.000 11.47 0.00 0.00 3.95
777 856 1.131826 CGCATCCAACGAACGGAAC 59.868 57.895 0.00 0.00 35.77 3.62
833 914 8.506437 TGACTGAAATGTAGCAAAAGTGATTAG 58.494 33.333 0.00 0.00 0.00 1.73
834 915 8.621532 ACTGAAATGTAGCAAAAGTGATTAGA 57.378 30.769 0.00 0.00 0.00 2.10
835 916 9.066892 ACTGAAATGTAGCAAAAGTGATTAGAA 57.933 29.630 0.00 0.00 0.00 2.10
836 917 9.334693 CTGAAATGTAGCAAAAGTGATTAGAAC 57.665 33.333 0.00 0.00 0.00 3.01
837 918 9.066892 TGAAATGTAGCAAAAGTGATTAGAACT 57.933 29.630 0.00 0.00 0.00 3.01
840 921 7.596749 TGTAGCAAAAGTGATTAGAACTAGC 57.403 36.000 0.00 0.00 0.00 3.42
841 922 6.594159 TGTAGCAAAAGTGATTAGAACTAGCC 59.406 38.462 0.00 0.00 0.00 3.93
842 923 5.560724 AGCAAAAGTGATTAGAACTAGCCA 58.439 37.500 0.00 0.00 0.00 4.75
843 924 5.412904 AGCAAAAGTGATTAGAACTAGCCAC 59.587 40.000 0.00 0.00 0.00 5.01
844 925 5.412904 GCAAAAGTGATTAGAACTAGCCACT 59.587 40.000 10.21 10.21 33.86 4.00
845 926 6.621596 GCAAAAGTGATTAGAACTAGCCACTG 60.622 42.308 14.09 7.99 33.25 3.66
846 927 5.746990 AAGTGATTAGAACTAGCCACTGT 57.253 39.130 14.09 6.70 33.25 3.55
847 928 6.852420 AAGTGATTAGAACTAGCCACTGTA 57.148 37.500 14.09 0.00 33.25 2.74
848 929 7.425224 AAGTGATTAGAACTAGCCACTGTAT 57.575 36.000 14.09 2.99 33.25 2.29
849 930 7.045126 AGTGATTAGAACTAGCCACTGTATC 57.955 40.000 13.22 0.00 32.41 2.24
850 931 6.836527 AGTGATTAGAACTAGCCACTGTATCT 59.163 38.462 13.22 0.00 32.41 1.98
851 932 7.343316 AGTGATTAGAACTAGCCACTGTATCTT 59.657 37.037 13.22 0.00 32.41 2.40
852 933 8.630917 GTGATTAGAACTAGCCACTGTATCTTA 58.369 37.037 0.00 0.00 0.00 2.10
853 934 9.368416 TGATTAGAACTAGCCACTGTATCTTAT 57.632 33.333 0.00 0.00 0.00 1.73
854 935 9.849166 GATTAGAACTAGCCACTGTATCTTATC 57.151 37.037 0.00 0.00 0.00 1.75
855 936 8.998277 TTAGAACTAGCCACTGTATCTTATCT 57.002 34.615 0.00 0.00 0.00 1.98
856 937 7.906199 AGAACTAGCCACTGTATCTTATCTT 57.094 36.000 0.00 0.00 0.00 2.40
857 938 8.998277 AGAACTAGCCACTGTATCTTATCTTA 57.002 34.615 0.00 0.00 0.00 2.10
858 939 8.852135 AGAACTAGCCACTGTATCTTATCTTAC 58.148 37.037 0.00 0.00 0.00 2.34
859 940 7.204496 ACTAGCCACTGTATCTTATCTTACG 57.796 40.000 0.00 0.00 0.00 3.18
860 941 6.771749 ACTAGCCACTGTATCTTATCTTACGT 59.228 38.462 0.00 0.00 0.00 3.57
861 942 7.935755 ACTAGCCACTGTATCTTATCTTACGTA 59.064 37.037 0.00 0.00 0.00 3.57
862 943 6.968250 AGCCACTGTATCTTATCTTACGTAC 58.032 40.000 0.00 0.00 0.00 3.67
863 944 6.771749 AGCCACTGTATCTTATCTTACGTACT 59.228 38.462 0.00 0.00 0.00 2.73
864 945 6.856938 GCCACTGTATCTTATCTTACGTACTG 59.143 42.308 0.00 0.00 0.00 2.74
865 946 6.856938 CCACTGTATCTTATCTTACGTACTGC 59.143 42.308 0.00 0.00 0.00 4.40
866 947 6.856938 CACTGTATCTTATCTTACGTACTGCC 59.143 42.308 0.00 0.00 0.00 4.85
867 948 6.544931 ACTGTATCTTATCTTACGTACTGCCA 59.455 38.462 0.00 0.00 0.00 4.92
868 949 7.230913 ACTGTATCTTATCTTACGTACTGCCAT 59.769 37.037 0.00 0.00 0.00 4.40
869 950 7.368059 TGTATCTTATCTTACGTACTGCCATG 58.632 38.462 0.00 0.00 0.00 3.66
870 951 4.617959 TCTTATCTTACGTACTGCCATGC 58.382 43.478 0.00 0.00 0.00 4.06
871 952 2.979814 ATCTTACGTACTGCCATGCA 57.020 45.000 0.00 0.00 36.92 3.96
872 953 2.979814 TCTTACGTACTGCCATGCAT 57.020 45.000 0.00 0.00 38.13 3.96
873 954 2.549926 TCTTACGTACTGCCATGCATG 58.450 47.619 20.19 20.19 38.13 4.06
874 955 2.093711 TCTTACGTACTGCCATGCATGT 60.094 45.455 24.58 9.25 38.13 3.21
875 956 3.131400 TCTTACGTACTGCCATGCATGTA 59.869 43.478 24.58 12.60 38.13 2.29
876 957 2.620251 ACGTACTGCCATGCATGTAT 57.380 45.000 24.58 9.75 38.13 2.29
877 958 2.212652 ACGTACTGCCATGCATGTATG 58.787 47.619 24.58 16.12 38.13 2.39
878 959 2.158971 ACGTACTGCCATGCATGTATGA 60.159 45.455 23.57 5.28 38.13 2.15
879 960 3.069289 CGTACTGCCATGCATGTATGAT 58.931 45.455 23.57 9.08 38.13 2.45
880 961 3.124128 CGTACTGCCATGCATGTATGATC 59.876 47.826 23.57 15.02 38.13 2.92
881 962 2.511659 ACTGCCATGCATGTATGATCC 58.488 47.619 23.57 12.27 38.13 3.36
882 963 1.816835 CTGCCATGCATGTATGATCCC 59.183 52.381 23.57 10.12 38.13 3.85
883 964 1.180029 GCCATGCATGTATGATCCCC 58.820 55.000 23.57 4.45 0.00 4.81
884 965 1.272313 GCCATGCATGTATGATCCCCT 60.272 52.381 23.57 0.00 0.00 4.79
885 966 2.443416 CCATGCATGTATGATCCCCTG 58.557 52.381 23.57 2.79 0.00 4.45
886 967 2.224942 CCATGCATGTATGATCCCCTGT 60.225 50.000 23.57 0.00 0.00 4.00
887 968 2.936919 TGCATGTATGATCCCCTGTC 57.063 50.000 0.00 0.00 0.00 3.51
888 969 2.126057 TGCATGTATGATCCCCTGTCA 58.874 47.619 0.00 0.00 0.00 3.58
889 970 2.509131 TGCATGTATGATCCCCTGTCAA 59.491 45.455 0.00 0.00 0.00 3.18
890 971 3.053768 TGCATGTATGATCCCCTGTCAAA 60.054 43.478 0.00 0.00 0.00 2.69
891 972 3.953612 GCATGTATGATCCCCTGTCAAAA 59.046 43.478 0.00 0.00 0.00 2.44
892 973 4.586001 GCATGTATGATCCCCTGTCAAAAT 59.414 41.667 0.00 0.00 0.00 1.82
893 974 5.278660 GCATGTATGATCCCCTGTCAAAATC 60.279 44.000 0.00 0.00 0.00 2.17
894 975 5.715439 TGTATGATCCCCTGTCAAAATCT 57.285 39.130 0.00 0.00 0.00 2.40
895 976 6.078456 TGTATGATCCCCTGTCAAAATCTT 57.922 37.500 0.00 0.00 0.00 2.40
896 977 6.493166 TGTATGATCCCCTGTCAAAATCTTT 58.507 36.000 0.00 0.00 0.00 2.52
897 978 6.953520 TGTATGATCCCCTGTCAAAATCTTTT 59.046 34.615 0.00 0.00 0.00 2.27
898 979 5.982890 TGATCCCCTGTCAAAATCTTTTC 57.017 39.130 0.00 0.00 0.00 2.29
899 980 5.392995 TGATCCCCTGTCAAAATCTTTTCA 58.607 37.500 0.00 0.00 0.00 2.69
900 981 5.243730 TGATCCCCTGTCAAAATCTTTTCAC 59.756 40.000 0.00 0.00 0.00 3.18
901 982 3.568007 TCCCCTGTCAAAATCTTTTCACG 59.432 43.478 0.00 0.00 0.00 4.35
902 983 3.308530 CCCTGTCAAAATCTTTTCACGC 58.691 45.455 0.00 0.00 0.00 5.34
903 984 2.973224 CCTGTCAAAATCTTTTCACGCG 59.027 45.455 3.53 3.53 0.00 6.01
904 985 2.380660 TGTCAAAATCTTTTCACGCGC 58.619 42.857 5.73 0.00 0.00 6.86
905 986 1.713932 GTCAAAATCTTTTCACGCGCC 59.286 47.619 5.73 0.00 0.00 6.53
906 987 1.606668 TCAAAATCTTTTCACGCGCCT 59.393 42.857 5.73 0.00 0.00 5.52
907 988 2.034053 TCAAAATCTTTTCACGCGCCTT 59.966 40.909 5.73 0.00 0.00 4.35
908 989 2.050477 AAATCTTTTCACGCGCCTTG 57.950 45.000 5.73 0.00 0.00 3.61
909 990 0.240945 AATCTTTTCACGCGCCTTGG 59.759 50.000 5.73 0.00 0.00 3.61
910 991 1.586154 ATCTTTTCACGCGCCTTGGG 61.586 55.000 5.73 0.00 0.00 4.12
911 992 2.517402 TTTTCACGCGCCTTGGGT 60.517 55.556 5.73 0.00 46.00 4.51
912 993 2.070654 CTTTTCACGCGCCTTGGGTT 62.071 55.000 5.73 0.00 42.70 4.11
913 994 1.668101 TTTTCACGCGCCTTGGGTTT 61.668 50.000 5.73 0.00 42.70 3.27
914 995 1.668101 TTTCACGCGCCTTGGGTTTT 61.668 50.000 5.73 0.00 42.70 2.43
915 996 2.343163 TTCACGCGCCTTGGGTTTTG 62.343 55.000 5.73 0.00 42.70 2.44
916 997 2.831284 ACGCGCCTTGGGTTTTGT 60.831 55.556 5.73 0.00 41.69 2.83
917 998 2.415426 CGCGCCTTGGGTTTTGTT 59.585 55.556 0.00 0.00 0.00 2.83
918 999 1.948635 CGCGCCTTGGGTTTTGTTG 60.949 57.895 0.00 0.00 0.00 3.33
919 1000 2.243957 GCGCCTTGGGTTTTGTTGC 61.244 57.895 0.00 0.00 0.00 4.17
920 1001 1.441311 CGCCTTGGGTTTTGTTGCT 59.559 52.632 0.00 0.00 0.00 3.91
921 1002 0.671251 CGCCTTGGGTTTTGTTGCTA 59.329 50.000 0.00 0.00 0.00 3.49
922 1003 1.067821 CGCCTTGGGTTTTGTTGCTAA 59.932 47.619 0.00 0.00 0.00 3.09
923 1004 2.288763 CGCCTTGGGTTTTGTTGCTAAT 60.289 45.455 0.00 0.00 0.00 1.73
924 1005 3.066380 GCCTTGGGTTTTGTTGCTAATG 58.934 45.455 0.00 0.00 0.00 1.90
925 1006 3.244044 GCCTTGGGTTTTGTTGCTAATGA 60.244 43.478 0.00 0.00 0.00 2.57
926 1007 4.742138 GCCTTGGGTTTTGTTGCTAATGAA 60.742 41.667 0.00 0.00 0.00 2.57
927 1008 5.550290 CCTTGGGTTTTGTTGCTAATGAAT 58.450 37.500 0.00 0.00 0.00 2.57
928 1009 5.997129 CCTTGGGTTTTGTTGCTAATGAATT 59.003 36.000 0.00 0.00 0.00 2.17
929 1010 6.147656 CCTTGGGTTTTGTTGCTAATGAATTC 59.852 38.462 0.00 0.00 0.00 2.17
930 1011 5.546526 TGGGTTTTGTTGCTAATGAATTCC 58.453 37.500 2.27 0.00 0.00 3.01
931 1012 4.935205 GGGTTTTGTTGCTAATGAATTCCC 59.065 41.667 2.27 0.00 0.00 3.97
932 1013 5.279960 GGGTTTTGTTGCTAATGAATTCCCT 60.280 40.000 2.27 0.00 0.00 4.20
933 1014 5.639082 GGTTTTGTTGCTAATGAATTCCCTG 59.361 40.000 2.27 0.00 0.00 4.45
934 1015 4.454728 TTGTTGCTAATGAATTCCCTGC 57.545 40.909 2.27 3.22 0.00 4.85
935 1016 2.760092 TGTTGCTAATGAATTCCCTGCC 59.240 45.455 2.27 0.00 0.00 4.85
936 1017 3.026694 GTTGCTAATGAATTCCCTGCCT 58.973 45.455 2.27 0.00 0.00 4.75
937 1018 3.386932 TGCTAATGAATTCCCTGCCTT 57.613 42.857 2.27 0.00 0.00 4.35
938 1019 3.711863 TGCTAATGAATTCCCTGCCTTT 58.288 40.909 2.27 0.00 0.00 3.11
939 1020 3.448301 TGCTAATGAATTCCCTGCCTTTG 59.552 43.478 2.27 0.00 0.00 2.77
940 1021 3.739209 GCTAATGAATTCCCTGCCTTTGC 60.739 47.826 2.27 0.00 38.26 3.68
941 1022 2.242882 ATGAATTCCCTGCCTTTGCT 57.757 45.000 2.27 0.00 38.71 3.91
942 1023 2.014010 TGAATTCCCTGCCTTTGCTT 57.986 45.000 2.27 0.00 38.71 3.91
943 1024 1.895131 TGAATTCCCTGCCTTTGCTTC 59.105 47.619 2.27 0.00 38.71 3.86
944 1025 2.174360 GAATTCCCTGCCTTTGCTTCT 58.826 47.619 0.00 0.00 38.71 2.85
945 1026 2.315720 ATTCCCTGCCTTTGCTTCTT 57.684 45.000 0.00 0.00 38.71 2.52
946 1027 2.086610 TTCCCTGCCTTTGCTTCTTT 57.913 45.000 0.00 0.00 38.71 2.52
947 1028 2.086610 TCCCTGCCTTTGCTTCTTTT 57.913 45.000 0.00 0.00 38.71 2.27
948 1029 2.397597 TCCCTGCCTTTGCTTCTTTTT 58.602 42.857 0.00 0.00 38.71 1.94
949 1030 2.365293 TCCCTGCCTTTGCTTCTTTTTC 59.635 45.455 0.00 0.00 38.71 2.29
950 1031 2.366590 CCCTGCCTTTGCTTCTTTTTCT 59.633 45.455 0.00 0.00 38.71 2.52
951 1032 3.181462 CCCTGCCTTTGCTTCTTTTTCTT 60.181 43.478 0.00 0.00 38.71 2.52
952 1033 4.053983 CCTGCCTTTGCTTCTTTTTCTTC 58.946 43.478 0.00 0.00 38.71 2.87
953 1034 4.441913 CCTGCCTTTGCTTCTTTTTCTTCA 60.442 41.667 0.00 0.00 38.71 3.02
954 1035 4.432712 TGCCTTTGCTTCTTTTTCTTCAC 58.567 39.130 0.00 0.00 38.71 3.18
955 1036 3.487207 GCCTTTGCTTCTTTTTCTTCACG 59.513 43.478 0.00 0.00 33.53 4.35
956 1037 4.733523 GCCTTTGCTTCTTTTTCTTCACGA 60.734 41.667 0.00 0.00 33.53 4.35
957 1038 5.339990 CCTTTGCTTCTTTTTCTTCACGAA 58.660 37.500 0.00 0.00 0.00 3.85
958 1039 5.979517 CCTTTGCTTCTTTTTCTTCACGAAT 59.020 36.000 0.00 0.00 0.00 3.34
959 1040 6.074676 CCTTTGCTTCTTTTTCTTCACGAATG 60.075 38.462 0.00 0.00 0.00 2.67
960 1041 4.858935 TGCTTCTTTTTCTTCACGAATGG 58.141 39.130 0.00 0.00 0.00 3.16
961 1042 4.578516 TGCTTCTTTTTCTTCACGAATGGA 59.421 37.500 0.00 0.00 0.00 3.41
962 1043 5.149977 GCTTCTTTTTCTTCACGAATGGAG 58.850 41.667 0.00 0.00 31.81 3.86
969 1050 3.165875 TCTTCACGAATGGAGAGTTCCT 58.834 45.455 0.00 0.00 44.36 3.36
991 1072 0.824759 ACCTGATAACCTCCGTCAGC 59.175 55.000 0.00 0.00 38.38 4.26
1006 1087 2.182825 GTCAGCGTCACCGTGTATAAG 58.817 52.381 0.00 0.00 36.15 1.73
1054 1135 1.476488 GGCAACTCCTCTCTCTCACTC 59.524 57.143 0.00 0.00 0.00 3.51
1090 1171 3.429141 CTTGCCAGCAGCCACTCG 61.429 66.667 0.00 0.00 42.71 4.18
1223 1335 3.379445 GCCCCGACTCGAGTTCCA 61.379 66.667 21.08 0.00 0.00 3.53
1401 2083 2.652530 GGCGGTCTCACGGTGTTA 59.347 61.111 8.17 0.00 0.00 2.41
1847 2712 1.378762 CGAACCTGGGGAACATGGT 59.621 57.895 0.00 0.00 33.73 3.55
1997 2862 9.772973 TCATTAGTGTATAATTATGGGTGTGTC 57.227 33.333 8.28 0.00 0.00 3.67
2003 2868 3.848272 AATTATGGGTGTGTCTTTGCG 57.152 42.857 0.00 0.00 0.00 4.85
2010 2875 0.867746 GTGTGTCTTTGCGCATGAGA 59.132 50.000 12.75 15.56 0.00 3.27
2037 2902 1.956477 ACGTGTTGGTACTCGGTAGTT 59.044 47.619 0.00 0.00 43.49 2.24
2038 2903 2.287788 ACGTGTTGGTACTCGGTAGTTG 60.288 50.000 0.00 0.00 43.49 3.16
2039 2904 2.064014 GTGTTGGTACTCGGTAGTTGC 58.936 52.381 0.00 0.00 37.15 4.17
2040 2905 1.965643 TGTTGGTACTCGGTAGTTGCT 59.034 47.619 0.00 0.00 37.15 3.91
2041 2906 2.288579 TGTTGGTACTCGGTAGTTGCTG 60.289 50.000 0.00 0.00 37.15 4.41
2042 2907 0.892755 TGGTACTCGGTAGTTGCTGG 59.107 55.000 0.00 0.00 37.15 4.85
2133 3859 2.247111 TGAATGTATGGGGGCCAGAAAT 59.753 45.455 4.39 0.00 36.75 2.17
2161 3887 4.910458 ACCACTGCAATAAACTACTCCT 57.090 40.909 0.00 0.00 0.00 3.69
2164 3890 5.013183 ACCACTGCAATAAACTACTCCTTCT 59.987 40.000 0.00 0.00 0.00 2.85
2165 3891 5.352569 CCACTGCAATAAACTACTCCTTCTG 59.647 44.000 0.00 0.00 0.00 3.02
2166 3892 5.934625 CACTGCAATAAACTACTCCTTCTGT 59.065 40.000 0.00 0.00 0.00 3.41
2167 3893 6.091441 CACTGCAATAAACTACTCCTTCTGTC 59.909 42.308 0.00 0.00 0.00 3.51
2168 3894 5.168569 TGCAATAAACTACTCCTTCTGTCG 58.831 41.667 0.00 0.00 0.00 4.35
2169 3895 5.169295 GCAATAAACTACTCCTTCTGTCGT 58.831 41.667 0.00 0.00 0.00 4.34
2170 3896 5.638234 GCAATAAACTACTCCTTCTGTCGTT 59.362 40.000 0.00 0.00 0.00 3.85
2171 3897 6.147328 GCAATAAACTACTCCTTCTGTCGTTT 59.853 38.462 0.00 0.00 37.21 3.60
2172 3898 7.307811 GCAATAAACTACTCCTTCTGTCGTTTT 60.308 37.037 0.00 0.00 35.75 2.43
2202 3929 8.537016 ACACTACACTAGAGCCAAATACATTTA 58.463 33.333 0.00 0.00 0.00 1.40
2291 4018 4.911514 TTTCTGGTTAACACTTGCCTTC 57.088 40.909 8.10 0.00 0.00 3.46
2542 4270 5.818678 TTACCACATTCTAGACCAGTTGT 57.181 39.130 0.00 0.00 0.00 3.32
2670 4400 2.224549 CGCAACCAACTTTATTCGACCA 59.775 45.455 0.00 0.00 0.00 4.02
2671 4401 3.304123 CGCAACCAACTTTATTCGACCAA 60.304 43.478 0.00 0.00 0.00 3.67
2672 4402 3.978855 GCAACCAACTTTATTCGACCAAC 59.021 43.478 0.00 0.00 0.00 3.77
2673 4403 4.261447 GCAACCAACTTTATTCGACCAACT 60.261 41.667 0.00 0.00 0.00 3.16
2674 4404 5.735070 GCAACCAACTTTATTCGACCAACTT 60.735 40.000 0.00 0.00 0.00 2.66
2675 4405 6.270064 CAACCAACTTTATTCGACCAACTTT 58.730 36.000 0.00 0.00 0.00 2.66
2676 4406 7.419204 CAACCAACTTTATTCGACCAACTTTA 58.581 34.615 0.00 0.00 0.00 1.85
2677 4407 7.754851 ACCAACTTTATTCGACCAACTTTAT 57.245 32.000 0.00 0.00 0.00 1.40
2678 4408 8.173542 ACCAACTTTATTCGACCAACTTTATT 57.826 30.769 0.00 0.00 0.00 1.40
2679 4409 8.294577 ACCAACTTTATTCGACCAACTTTATTC 58.705 33.333 0.00 0.00 0.00 1.75
2680 4410 7.480542 CCAACTTTATTCGACCAACTTTATTCG 59.519 37.037 0.00 0.00 0.00 3.34
2681 4411 7.894376 ACTTTATTCGACCAACTTTATTCGA 57.106 32.000 0.00 0.00 38.67 3.71
2682 4412 7.736447 ACTTTATTCGACCAACTTTATTCGAC 58.264 34.615 0.00 0.00 40.06 4.20
2683 4413 6.651755 TTATTCGACCAACTTTATTCGACC 57.348 37.500 0.00 0.00 40.06 4.79
2942 4675 6.793505 AAGGTAAAGATCGGTGAATCTACT 57.206 37.500 0.00 0.00 34.90 2.57
2966 4699 1.668151 GGCTTTGCTTCGTCGGAGT 60.668 57.895 1.73 0.00 0.00 3.85
3117 4857 9.961264 TTAATTACCCTATGTATGTTGTGTTGA 57.039 29.630 0.00 0.00 0.00 3.18
3118 4858 8.871629 AATTACCCTATGTATGTTGTGTTGAA 57.128 30.769 0.00 0.00 0.00 2.69
3119 4859 8.871629 ATTACCCTATGTATGTTGTGTTGAAA 57.128 30.769 0.00 0.00 0.00 2.69
3120 4860 8.693120 TTACCCTATGTATGTTGTGTTGAAAA 57.307 30.769 0.00 0.00 0.00 2.29
3121 4861 7.775053 ACCCTATGTATGTTGTGTTGAAAAT 57.225 32.000 0.00 0.00 0.00 1.82
3122 4862 8.871629 ACCCTATGTATGTTGTGTTGAAAATA 57.128 30.769 0.00 0.00 0.00 1.40
3123 4863 9.474313 ACCCTATGTATGTTGTGTTGAAAATAT 57.526 29.630 0.00 0.00 0.00 1.28
3124 4864 9.734620 CCCTATGTATGTTGTGTTGAAAATATG 57.265 33.333 0.00 0.00 0.00 1.78
3127 4867 8.915871 ATGTATGTTGTGTTGAAAATATGAGC 57.084 30.769 0.00 0.00 0.00 4.26
3128 4868 7.880105 TGTATGTTGTGTTGAAAATATGAGCA 58.120 30.769 0.00 0.00 0.00 4.26
3129 4869 8.355913 TGTATGTTGTGTTGAAAATATGAGCAA 58.644 29.630 0.00 0.00 0.00 3.91
3130 4870 9.357652 GTATGTTGTGTTGAAAATATGAGCAAT 57.642 29.630 0.00 0.00 0.00 3.56
3131 4871 8.836268 ATGTTGTGTTGAAAATATGAGCAATT 57.164 26.923 0.00 0.00 0.00 2.32
3132 4872 8.659925 TGTTGTGTTGAAAATATGAGCAATTT 57.340 26.923 0.00 0.00 0.00 1.82
3133 4873 9.755804 TGTTGTGTTGAAAATATGAGCAATTTA 57.244 25.926 0.00 0.00 0.00 1.40
3135 4875 8.755696 TGTGTTGAAAATATGAGCAATTTACC 57.244 30.769 0.00 0.00 0.00 2.85
3136 4876 8.363390 TGTGTTGAAAATATGAGCAATTTACCA 58.637 29.630 0.00 0.00 0.00 3.25
3137 4877 9.202273 GTGTTGAAAATATGAGCAATTTACCAA 57.798 29.630 0.00 0.00 0.00 3.67
3138 4878 9.770097 TGTTGAAAATATGAGCAATTTACCAAA 57.230 25.926 0.00 0.00 0.00 3.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
327 361 9.941325 TCATTTTCATAACAAATGCCACTATTT 57.059 25.926 1.27 0.00 40.19 1.40
457 511 1.872952 GTGCAATTTTGGGGCAAAGTC 59.127 47.619 0.00 0.00 39.57 3.01
465 519 4.804108 TCACGATAAAGTGCAATTTTGGG 58.196 39.130 18.18 9.48 41.61 4.12
557 617 5.622346 TTTTATGGGTTTTTGGCTGAGTT 57.378 34.783 0.00 0.00 0.00 3.01
604 666 9.357652 GTTACGTTTTTCTTTTTCCTTTTACCT 57.642 29.630 0.00 0.00 0.00 3.08
637 700 5.046663 TGCTTCTTGGGTTGTTTTCTTCTTT 60.047 36.000 0.00 0.00 0.00 2.52
773 852 8.600449 TTTATTTTGTGGTCAATCAATGTTCC 57.400 30.769 0.00 0.00 33.32 3.62
822 903 6.534634 ACAGTGGCTAGTTCTAATCACTTTT 58.465 36.000 0.00 2.36 33.80 2.27
833 914 7.804129 CGTAAGATAAGATACAGTGGCTAGTTC 59.196 40.741 0.00 0.00 43.02 3.01
834 915 7.284944 ACGTAAGATAAGATACAGTGGCTAGTT 59.715 37.037 0.00 0.00 43.62 2.24
835 916 6.771749 ACGTAAGATAAGATACAGTGGCTAGT 59.228 38.462 0.00 0.00 43.62 2.57
836 917 7.204496 ACGTAAGATAAGATACAGTGGCTAG 57.796 40.000 0.00 0.00 43.62 3.42
837 918 7.935755 AGTACGTAAGATAAGATACAGTGGCTA 59.064 37.037 0.00 0.00 43.62 3.93
838 919 6.771749 AGTACGTAAGATAAGATACAGTGGCT 59.228 38.462 0.00 0.00 43.62 4.75
839 920 6.856938 CAGTACGTAAGATAAGATACAGTGGC 59.143 42.308 0.00 0.00 43.62 5.01
840 921 6.856938 GCAGTACGTAAGATAAGATACAGTGG 59.143 42.308 0.00 0.00 43.62 4.00
841 922 6.856938 GGCAGTACGTAAGATAAGATACAGTG 59.143 42.308 0.00 0.00 43.62 3.66
842 923 6.544931 TGGCAGTACGTAAGATAAGATACAGT 59.455 38.462 0.00 0.00 43.62 3.55
843 924 6.967135 TGGCAGTACGTAAGATAAGATACAG 58.033 40.000 0.00 0.00 43.62 2.74
844 925 6.947644 TGGCAGTACGTAAGATAAGATACA 57.052 37.500 0.00 0.00 43.62 2.29
845 926 6.308282 GCATGGCAGTACGTAAGATAAGATAC 59.692 42.308 0.00 0.00 43.62 2.24
846 927 6.015772 TGCATGGCAGTACGTAAGATAAGATA 60.016 38.462 0.00 0.00 35.85 1.98
847 928 5.221441 TGCATGGCAGTACGTAAGATAAGAT 60.221 40.000 0.00 0.00 35.85 2.40
848 929 4.098807 TGCATGGCAGTACGTAAGATAAGA 59.901 41.667 0.00 0.00 35.85 2.10
849 930 4.368315 TGCATGGCAGTACGTAAGATAAG 58.632 43.478 0.00 0.00 35.85 1.73
850 931 4.394439 TGCATGGCAGTACGTAAGATAA 57.606 40.909 0.00 0.00 35.85 1.75
851 932 4.202212 ACATGCATGGCAGTACGTAAGATA 60.202 41.667 29.41 0.00 43.65 1.98
852 933 2.979814 TGCATGGCAGTACGTAAGAT 57.020 45.000 0.00 0.00 35.85 2.40
853 934 2.093711 ACATGCATGGCAGTACGTAAGA 60.094 45.455 29.41 0.00 43.65 2.10
854 935 2.279741 ACATGCATGGCAGTACGTAAG 58.720 47.619 29.41 0.88 43.65 2.34
855 936 2.394930 ACATGCATGGCAGTACGTAA 57.605 45.000 29.41 0.00 43.65 3.18
856 937 3.068873 TCATACATGCATGGCAGTACGTA 59.931 43.478 29.41 11.27 43.65 3.57
857 938 2.158971 TCATACATGCATGGCAGTACGT 60.159 45.455 29.41 9.36 43.65 3.57
858 939 2.482864 TCATACATGCATGGCAGTACG 58.517 47.619 29.41 6.71 43.65 3.67
859 940 3.438087 GGATCATACATGCATGGCAGTAC 59.562 47.826 29.41 15.88 43.65 2.73
860 941 3.559811 GGGATCATACATGCATGGCAGTA 60.560 47.826 29.41 13.77 43.65 2.74
861 942 2.511659 GGATCATACATGCATGGCAGT 58.488 47.619 29.41 11.93 43.65 4.40
862 943 1.816835 GGGATCATACATGCATGGCAG 59.183 52.381 29.41 17.88 43.65 4.85
863 944 1.548355 GGGGATCATACATGCATGGCA 60.548 52.381 29.41 17.53 44.86 4.92
864 945 1.180029 GGGGATCATACATGCATGGC 58.820 55.000 29.41 11.51 0.00 4.40
865 946 2.224942 ACAGGGGATCATACATGCATGG 60.225 50.000 29.41 12.93 0.00 3.66
866 947 3.079578 GACAGGGGATCATACATGCATG 58.920 50.000 25.09 25.09 0.00 4.06
867 948 2.712627 TGACAGGGGATCATACATGCAT 59.287 45.455 0.00 0.00 0.00 3.96
868 949 2.126057 TGACAGGGGATCATACATGCA 58.874 47.619 0.00 0.00 0.00 3.96
869 950 2.936919 TGACAGGGGATCATACATGC 57.063 50.000 0.00 0.00 0.00 4.06
870 951 6.066690 AGATTTTGACAGGGGATCATACATG 58.933 40.000 0.00 0.00 0.00 3.21
871 952 6.271585 AGATTTTGACAGGGGATCATACAT 57.728 37.500 0.00 0.00 0.00 2.29
872 953 5.715439 AGATTTTGACAGGGGATCATACA 57.285 39.130 0.00 0.00 0.00 2.29
873 954 7.122650 TGAAAAGATTTTGACAGGGGATCATAC 59.877 37.037 0.00 0.00 0.00 2.39
874 955 7.122650 GTGAAAAGATTTTGACAGGGGATCATA 59.877 37.037 3.24 0.00 34.94 2.15
875 956 6.018469 TGAAAAGATTTTGACAGGGGATCAT 58.982 36.000 0.00 0.00 0.00 2.45
876 957 5.243730 GTGAAAAGATTTTGACAGGGGATCA 59.756 40.000 3.24 0.00 34.94 2.92
877 958 5.619981 CGTGAAAAGATTTTGACAGGGGATC 60.620 44.000 8.09 0.00 34.57 3.36
878 959 4.218417 CGTGAAAAGATTTTGACAGGGGAT 59.782 41.667 8.09 0.00 34.57 3.85
879 960 3.568007 CGTGAAAAGATTTTGACAGGGGA 59.432 43.478 8.09 0.00 34.57 4.81
880 961 3.857010 GCGTGAAAAGATTTTGACAGGGG 60.857 47.826 8.09 0.00 34.57 4.79
881 962 3.308530 GCGTGAAAAGATTTTGACAGGG 58.691 45.455 8.09 0.00 34.57 4.45
882 963 2.973224 CGCGTGAAAAGATTTTGACAGG 59.027 45.455 0.00 2.96 34.57 4.00
883 964 2.401720 GCGCGTGAAAAGATTTTGACAG 59.598 45.455 8.43 3.20 34.57 3.51
884 965 2.380660 GCGCGTGAAAAGATTTTGACA 58.619 42.857 8.43 0.00 34.57 3.58
885 966 1.713932 GGCGCGTGAAAAGATTTTGAC 59.286 47.619 8.43 0.00 32.11 3.18
886 967 1.606668 AGGCGCGTGAAAAGATTTTGA 59.393 42.857 8.43 0.00 0.00 2.69
887 968 2.050477 AGGCGCGTGAAAAGATTTTG 57.950 45.000 8.43 0.00 0.00 2.44
888 969 2.393764 CAAGGCGCGTGAAAAGATTTT 58.606 42.857 8.43 0.00 0.00 1.82
889 970 1.335872 CCAAGGCGCGTGAAAAGATTT 60.336 47.619 8.43 0.00 0.00 2.17
890 971 0.240945 CCAAGGCGCGTGAAAAGATT 59.759 50.000 8.43 0.00 0.00 2.40
891 972 1.586154 CCCAAGGCGCGTGAAAAGAT 61.586 55.000 8.43 0.00 0.00 2.40
892 973 2.258013 CCCAAGGCGCGTGAAAAGA 61.258 57.895 8.43 0.00 0.00 2.52
893 974 2.070654 AACCCAAGGCGCGTGAAAAG 62.071 55.000 8.43 0.00 0.00 2.27
894 975 1.668101 AAACCCAAGGCGCGTGAAAA 61.668 50.000 8.43 0.00 0.00 2.29
895 976 1.668101 AAAACCCAAGGCGCGTGAAA 61.668 50.000 8.43 0.00 0.00 2.69
896 977 2.122167 AAAACCCAAGGCGCGTGAA 61.122 52.632 8.43 0.00 0.00 3.18
897 978 2.517402 AAAACCCAAGGCGCGTGA 60.517 55.556 8.43 0.00 0.00 4.35
898 979 2.354539 CAAAACCCAAGGCGCGTG 60.355 61.111 8.43 2.53 0.00 5.34
899 980 2.419739 AACAAAACCCAAGGCGCGT 61.420 52.632 8.43 0.00 0.00 6.01
900 981 1.948635 CAACAAAACCCAAGGCGCG 60.949 57.895 0.00 0.00 0.00 6.86
901 982 2.243957 GCAACAAAACCCAAGGCGC 61.244 57.895 0.00 0.00 0.00 6.53
902 983 0.671251 TAGCAACAAAACCCAAGGCG 59.329 50.000 0.00 0.00 0.00 5.52
903 984 2.900716 TTAGCAACAAAACCCAAGGC 57.099 45.000 0.00 0.00 0.00 4.35
904 985 4.599047 TCATTAGCAACAAAACCCAAGG 57.401 40.909 0.00 0.00 0.00 3.61
905 986 6.147656 GGAATTCATTAGCAACAAAACCCAAG 59.852 38.462 7.93 0.00 0.00 3.61
906 987 5.994668 GGAATTCATTAGCAACAAAACCCAA 59.005 36.000 7.93 0.00 0.00 4.12
907 988 5.512232 GGGAATTCATTAGCAACAAAACCCA 60.512 40.000 7.93 0.00 0.00 4.51
908 989 4.935205 GGGAATTCATTAGCAACAAAACCC 59.065 41.667 7.93 0.00 0.00 4.11
909 990 5.639082 CAGGGAATTCATTAGCAACAAAACC 59.361 40.000 7.93 0.00 0.00 3.27
910 991 5.120674 GCAGGGAATTCATTAGCAACAAAAC 59.879 40.000 7.93 0.00 0.00 2.43
911 992 5.237048 GCAGGGAATTCATTAGCAACAAAA 58.763 37.500 7.93 0.00 0.00 2.44
912 993 4.322650 GGCAGGGAATTCATTAGCAACAAA 60.323 41.667 7.93 0.00 0.00 2.83
913 994 3.195396 GGCAGGGAATTCATTAGCAACAA 59.805 43.478 7.93 0.00 0.00 2.83
914 995 2.760092 GGCAGGGAATTCATTAGCAACA 59.240 45.455 7.93 0.00 0.00 3.33
915 996 3.026694 AGGCAGGGAATTCATTAGCAAC 58.973 45.455 7.93 0.00 0.00 4.17
916 997 3.386932 AGGCAGGGAATTCATTAGCAA 57.613 42.857 7.93 0.00 0.00 3.91
917 998 3.386932 AAGGCAGGGAATTCATTAGCA 57.613 42.857 7.93 0.00 0.00 3.49
918 999 3.739209 GCAAAGGCAGGGAATTCATTAGC 60.739 47.826 7.93 5.41 40.72 3.09
919 1000 3.703052 AGCAAAGGCAGGGAATTCATTAG 59.297 43.478 7.93 0.00 44.61 1.73
920 1001 3.711863 AGCAAAGGCAGGGAATTCATTA 58.288 40.909 7.93 0.00 44.61 1.90
921 1002 2.543635 AGCAAAGGCAGGGAATTCATT 58.456 42.857 7.93 0.00 44.61 2.57
922 1003 2.242882 AGCAAAGGCAGGGAATTCAT 57.757 45.000 7.93 0.00 44.61 2.57
923 1004 1.895131 GAAGCAAAGGCAGGGAATTCA 59.105 47.619 7.93 0.00 44.61 2.57
924 1005 2.174360 AGAAGCAAAGGCAGGGAATTC 58.826 47.619 0.00 0.00 44.61 2.17
925 1006 2.315720 AGAAGCAAAGGCAGGGAATT 57.684 45.000 0.00 0.00 44.61 2.17
926 1007 2.315720 AAGAAGCAAAGGCAGGGAAT 57.684 45.000 0.00 0.00 44.61 3.01
927 1008 2.086610 AAAGAAGCAAAGGCAGGGAA 57.913 45.000 0.00 0.00 44.61 3.97
928 1009 2.086610 AAAAGAAGCAAAGGCAGGGA 57.913 45.000 0.00 0.00 44.61 4.20
929 1010 2.366590 AGAAAAAGAAGCAAAGGCAGGG 59.633 45.455 0.00 0.00 44.61 4.45
930 1011 3.740631 AGAAAAAGAAGCAAAGGCAGG 57.259 42.857 0.00 0.00 44.61 4.85
931 1012 4.505556 GTGAAGAAAAAGAAGCAAAGGCAG 59.494 41.667 0.00 0.00 44.61 4.85
932 1013 4.432712 GTGAAGAAAAAGAAGCAAAGGCA 58.567 39.130 0.00 0.00 44.61 4.75
933 1014 3.487207 CGTGAAGAAAAAGAAGCAAAGGC 59.513 43.478 0.00 0.00 41.61 4.35
934 1015 4.920376 TCGTGAAGAAAAAGAAGCAAAGG 58.080 39.130 0.00 0.00 0.00 3.11
935 1016 6.074676 CCATTCGTGAAGAAAAAGAAGCAAAG 60.075 38.462 0.00 0.00 42.91 2.77
936 1017 5.748152 CCATTCGTGAAGAAAAAGAAGCAAA 59.252 36.000 0.00 0.00 42.91 3.68
937 1018 5.067153 TCCATTCGTGAAGAAAAAGAAGCAA 59.933 36.000 0.00 0.00 42.91 3.91
938 1019 4.578516 TCCATTCGTGAAGAAAAAGAAGCA 59.421 37.500 0.00 0.00 42.91 3.91
939 1020 5.049405 TCTCCATTCGTGAAGAAAAAGAAGC 60.049 40.000 0.00 0.00 42.91 3.86
940 1021 6.203723 ACTCTCCATTCGTGAAGAAAAAGAAG 59.796 38.462 0.00 0.00 42.91 2.85
941 1022 6.055588 ACTCTCCATTCGTGAAGAAAAAGAA 58.944 36.000 0.00 0.00 42.91 2.52
942 1023 5.611374 ACTCTCCATTCGTGAAGAAAAAGA 58.389 37.500 0.00 0.00 42.91 2.52
943 1024 5.931441 ACTCTCCATTCGTGAAGAAAAAG 57.069 39.130 0.00 0.00 42.91 2.27
944 1025 5.238650 GGAACTCTCCATTCGTGAAGAAAAA 59.761 40.000 0.00 0.00 41.96 1.94
945 1026 4.755123 GGAACTCTCCATTCGTGAAGAAAA 59.245 41.667 0.00 0.00 41.96 2.29
946 1027 4.040461 AGGAACTCTCCATTCGTGAAGAAA 59.960 41.667 0.00 0.00 45.24 2.52
947 1028 3.578716 AGGAACTCTCCATTCGTGAAGAA 59.421 43.478 0.00 0.00 45.24 2.52
948 1029 3.165875 AGGAACTCTCCATTCGTGAAGA 58.834 45.455 0.00 0.00 45.24 2.87
949 1030 3.601443 AGGAACTCTCCATTCGTGAAG 57.399 47.619 0.00 0.00 45.24 3.02
969 1050 3.552875 CTGACGGAGGTTATCAGGTAGA 58.447 50.000 0.00 0.00 36.92 2.59
1006 1087 0.396811 ACTGGCAAGTGGGTGAGTAC 59.603 55.000 0.00 0.00 34.48 2.73
1033 1114 0.534873 GTGAGAGAGAGGAGTTGCCC 59.465 60.000 0.00 0.00 37.37 5.36
1034 1115 1.476488 GAGTGAGAGAGAGGAGTTGCC 59.524 57.143 0.00 0.00 0.00 4.52
1035 1116 2.166829 TGAGTGAGAGAGAGGAGTTGC 58.833 52.381 0.00 0.00 0.00 4.17
1037 1118 3.826157 CAGTTGAGTGAGAGAGAGGAGTT 59.174 47.826 0.00 0.00 0.00 3.01
1038 1119 3.420893 CAGTTGAGTGAGAGAGAGGAGT 58.579 50.000 0.00 0.00 0.00 3.85
1039 1120 2.164219 GCAGTTGAGTGAGAGAGAGGAG 59.836 54.545 0.00 0.00 0.00 3.69
1040 1121 2.166829 GCAGTTGAGTGAGAGAGAGGA 58.833 52.381 0.00 0.00 0.00 3.71
1041 1122 2.170166 AGCAGTTGAGTGAGAGAGAGG 58.830 52.381 0.00 0.00 0.00 3.69
1054 1135 1.276421 AGCTGGTGGTAGTAGCAGTTG 59.724 52.381 1.37 0.00 45.44 3.16
1090 1171 3.132111 AGCTAGCTAAGAGAGAAGTTGCC 59.868 47.826 17.69 0.00 0.00 4.52
1091 1172 4.359706 GAGCTAGCTAAGAGAGAAGTTGC 58.640 47.826 19.38 0.00 0.00 4.17
1149 1258 1.268794 CCAGATACGACGAGCAGAAGG 60.269 57.143 0.00 0.00 0.00 3.46
1223 1335 4.052229 CCCAGTCGACGACGCCTT 62.052 66.667 21.44 1.82 37.67 4.35
1401 2083 4.115199 GCCTTGTCCTCGGGGCAT 62.115 66.667 0.00 0.00 43.59 4.40
1426 2108 1.372623 GGAACGTCGGCTCGAACTT 60.373 57.895 0.00 0.00 37.72 2.66
1513 2369 1.064654 GTCGAATGCCTGGAAATGCTC 59.935 52.381 0.00 0.00 0.00 4.26
1565 2421 4.932105 TGCCCTTGTTGGTGGCCC 62.932 66.667 0.00 0.00 44.72 5.80
1765 2630 2.583441 CCAACCAGCCGAGACCAGA 61.583 63.158 0.00 0.00 0.00 3.86
1810 2675 2.048597 CACGGCCACGAGTAGCAA 60.049 61.111 2.24 0.00 44.60 3.91
1847 2712 4.916041 AGAAATCTGATCAAGGTGTCCA 57.084 40.909 0.00 0.00 0.00 4.02
1997 2862 0.167470 CCACTGTCTCATGCGCAAAG 59.833 55.000 17.11 15.83 0.00 2.77
2003 2868 0.319900 ACACGTCCACTGTCTCATGC 60.320 55.000 0.00 0.00 0.00 4.06
2010 2875 1.068127 GAGTACCAACACGTCCACTGT 59.932 52.381 0.00 0.00 0.00 3.55
2037 2902 4.465632 AAACATATCGTGTACTCCAGCA 57.534 40.909 0.00 0.00 41.14 4.41
2038 2903 4.444720 GCTAAACATATCGTGTACTCCAGC 59.555 45.833 0.00 0.00 41.14 4.85
2039 2904 5.833082 AGCTAAACATATCGTGTACTCCAG 58.167 41.667 0.00 0.00 41.14 3.86
2040 2905 5.505159 CGAGCTAAACATATCGTGTACTCCA 60.505 44.000 0.00 0.00 41.14 3.86
2041 2906 4.910456 CGAGCTAAACATATCGTGTACTCC 59.090 45.833 0.00 0.00 41.14 3.85
2042 2907 5.508872 ACGAGCTAAACATATCGTGTACTC 58.491 41.667 0.00 0.00 45.83 2.59
2107 3833 1.133513 GGCCCCCATACATTCATGTCA 60.134 52.381 0.00 0.00 41.97 3.58
2170 3896 5.284861 TGGCTCTAGTGTAGTGTCAAAAA 57.715 39.130 0.00 0.00 31.76 1.94
2171 3897 4.948341 TGGCTCTAGTGTAGTGTCAAAA 57.052 40.909 0.00 0.00 31.76 2.44
2172 3898 4.948341 TTGGCTCTAGTGTAGTGTCAAA 57.052 40.909 1.60 0.00 39.87 2.69
2188 3914 6.496911 ACAAGGGAAACTAAATGTATTTGGCT 59.503 34.615 0.27 0.00 32.26 4.75
2202 3929 5.869649 AACATAAAAGCACAAGGGAAACT 57.130 34.783 0.00 0.00 0.00 2.66
2291 4018 7.642669 ACTGTAATGAATATGCTTGGAATTCG 58.357 34.615 0.00 0.00 33.28 3.34
2523 4251 5.178797 CCTTACAACTGGTCTAGAATGTGG 58.821 45.833 0.00 0.00 33.95 4.17
2670 4400 8.546322 AGTCCTAATAAAGGGTCGAATAAAGTT 58.454 33.333 0.00 0.00 46.55 2.66
2671 4401 8.087303 AGTCCTAATAAAGGGTCGAATAAAGT 57.913 34.615 0.00 0.00 46.55 2.66
2672 4402 8.959705 AAGTCCTAATAAAGGGTCGAATAAAG 57.040 34.615 0.00 0.00 46.55 1.85
2694 4424 7.933215 AGCACCCGACTTTAAATTAATAAGT 57.067 32.000 2.41 2.41 34.97 2.24
2714 4444 2.099756 AGAAGGCAGACACAAAAAGCAC 59.900 45.455 0.00 0.00 0.00 4.40
2942 4675 1.503818 GACGAAGCAAAGCCGTGGAA 61.504 55.000 0.00 0.00 36.60 3.53
2979 4712 3.935203 AGTCAATGCAAGTTATCACTCGG 59.065 43.478 0.00 0.00 30.45 4.63


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

AutoCloner maintained by Alex Coulton.