Multiple sequence alignment - TraesCS6D01G296000

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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 TraesCS6D01G296000 chr6D 100.000 3458 0 0 1 3458 407210272 407206815 0.000000e+00 6386.0
1 TraesCS6D01G296000 chr6D 93.757 849 29 14 1 829 354545116 354544272 0.000000e+00 1253.0
2 TraesCS6D01G296000 chr6D 89.403 1038 43 25 1 1014 148078389 148077395 0.000000e+00 1245.0
3 TraesCS6D01G296000 chr6D 90.219 961 30 23 26 960 60170356 60169434 0.000000e+00 1195.0
4 TraesCS6D01G296000 chr6D 94.253 783 35 2 26 808 409482944 409482172 0.000000e+00 1188.0
5 TraesCS6D01G296000 chr6D 90.629 875 35 10 147 1014 30067750 30068584 0.000000e+00 1118.0
6 TraesCS6D01G296000 chr6D 87.093 798 35 23 1173 1955 406345927 406345183 0.000000e+00 841.0
7 TraesCS6D01G296000 chr6D 87.011 716 44 17 2161 2874 406345178 406344510 0.000000e+00 761.0
8 TraesCS6D01G296000 chr6D 94.608 204 7 2 2884 3083 406344459 406344256 2.590000e-81 313.0
9 TraesCS6D01G296000 chr6D 90.367 218 17 3 3244 3458 406344138 406343922 2.030000e-72 283.0
10 TraesCS6D01G296000 chr6D 93.878 49 2 1 3193 3241 406344256 406344209 4.790000e-09 73.1
11 TraesCS6D01G296000 chr6B 90.280 1965 100 49 1039 2960 611349579 611347663 0.000000e+00 2486.0
12 TraesCS6D01G296000 chr6B 79.038 811 110 42 122 907 548386730 548385955 5.150000e-138 501.0
13 TraesCS6D01G296000 chr6B 96.639 119 4 0 2990 3108 611347664 611347546 7.570000e-47 198.0
14 TraesCS6D01G296000 chr6B 90.977 133 7 2 3105 3237 611347187 611347060 1.280000e-39 174.0
15 TraesCS6D01G296000 chr6B 93.333 75 5 0 3259 3333 611346799 611346725 1.010000e-20 111.0
16 TraesCS6D01G296000 chr6B 84.211 76 4 4 936 1004 654635252 654635326 2.230000e-07 67.6
17 TraesCS6D01G296000 chr6A 89.976 1646 73 53 1039 2640 552833686 552832089 0.000000e+00 2041.0
18 TraesCS6D01G296000 chr6A 85.567 291 26 11 2641 2920 552828848 552828563 1.210000e-74 291.0
19 TraesCS6D01G296000 chr6A 88.073 218 21 2 3236 3449 552827987 552827771 1.590000e-63 254.0
20 TraesCS6D01G296000 chr6A 95.455 110 4 1 2994 3102 552828263 552828154 1.280000e-39 174.0
21 TraesCS6D01G296000 chr6A 84.211 114 9 2 3136 3241 552828153 552828041 6.110000e-18 102.0
22 TraesCS6D01G296000 chr5D 90.307 1011 27 10 26 1014 513527100 513528061 0.000000e+00 1258.0
23 TraesCS6D01G296000 chr5D 97.368 228 6 0 581 808 242951997 242951770 4.190000e-104 388.0
24 TraesCS6D01G296000 chr1D 89.313 1048 27 18 1 1014 335078176 335079172 0.000000e+00 1236.0
25 TraesCS6D01G296000 chr2D 89.448 1014 35 24 26 1014 61801946 61802912 0.000000e+00 1214.0
26 TraesCS6D01G296000 chr2D 88.686 1043 39 14 1 1014 589321706 589320714 0.000000e+00 1199.0
27 TraesCS6D01G296000 chr2D 95.694 720 21 1 99 808 594200406 594199687 0.000000e+00 1149.0
28 TraesCS6D01G296000 chr7D 90.000 980 34 30 26 975 101554241 101553296 0.000000e+00 1208.0
29 TraesCS6D01G296000 chr7D 85.063 395 21 7 576 964 638191557 638191919 5.450000e-98 368.0
30 TraesCS6D01G296000 chr7D 77.926 299 55 9 1407 1701 133226803 133226512 3.550000e-40 176.0
31 TraesCS6D01G296000 chr5A 93.631 785 39 8 26 808 553456527 553457302 0.000000e+00 1162.0
32 TraesCS6D01G296000 chr7A 90.608 905 25 11 26 911 553041255 553042118 0.000000e+00 1146.0
33 TraesCS6D01G296000 chr7A 87.875 833 51 19 1 808 34138032 34137225 0.000000e+00 933.0
34 TraesCS6D01G296000 chr7A 78.114 297 58 6 1407 1701 131835154 131834863 7.620000e-42 182.0
35 TraesCS6D01G296000 chr4A 87.055 1012 91 25 1 991 152770988 152771980 0.000000e+00 1107.0
36 TraesCS6D01G296000 chr4A 88.528 863 79 14 1 854 657082419 657083270 0.000000e+00 1027.0
37 TraesCS6D01G296000 chrUn 88.915 866 64 19 7 854 377802819 377801968 0.000000e+00 1038.0
38 TraesCS6D01G296000 chr3A 94.872 663 26 5 147 808 395556451 395555796 0.000000e+00 1029.0
39 TraesCS6D01G296000 chr2B 85.438 776 77 23 149 911 21533000 21533752 0.000000e+00 774.0
40 TraesCS6D01G296000 chr7B 90.370 270 19 2 1 264 646341185 646340917 7.100000e-92 348.0
41 TraesCS6D01G296000 chr7B 78.788 297 56 6 1407 1701 94311537 94311246 3.520000e-45 193.0
42 TraesCS6D01G296000 chr5B 83.654 208 13 10 818 1014 665716590 665716787 3.550000e-40 176.0


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 TraesCS6D01G296000 chr6D 407206815 407210272 3457 True 6386.00 6386 100.00000 1 3458 1 chr6D.!!$R4 3457
1 TraesCS6D01G296000 chr6D 354544272 354545116 844 True 1253.00 1253 93.75700 1 829 1 chr6D.!!$R3 828
2 TraesCS6D01G296000 chr6D 148077395 148078389 994 True 1245.00 1245 89.40300 1 1014 1 chr6D.!!$R2 1013
3 TraesCS6D01G296000 chr6D 60169434 60170356 922 True 1195.00 1195 90.21900 26 960 1 chr6D.!!$R1 934
4 TraesCS6D01G296000 chr6D 409482172 409482944 772 True 1188.00 1188 94.25300 26 808 1 chr6D.!!$R5 782
5 TraesCS6D01G296000 chr6D 30067750 30068584 834 False 1118.00 1118 90.62900 147 1014 1 chr6D.!!$F1 867
6 TraesCS6D01G296000 chr6D 406343922 406345927 2005 True 454.22 841 90.59140 1173 3458 5 chr6D.!!$R6 2285
7 TraesCS6D01G296000 chr6B 611346725 611349579 2854 True 742.25 2486 92.80725 1039 3333 4 chr6B.!!$R2 2294
8 TraesCS6D01G296000 chr6B 548385955 548386730 775 True 501.00 501 79.03800 122 907 1 chr6B.!!$R1 785
9 TraesCS6D01G296000 chr6A 552827771 552833686 5915 True 572.40 2041 88.65640 1039 3449 5 chr6A.!!$R1 2410
10 TraesCS6D01G296000 chr5D 513527100 513528061 961 False 1258.00 1258 90.30700 26 1014 1 chr5D.!!$F1 988
11 TraesCS6D01G296000 chr1D 335078176 335079172 996 False 1236.00 1236 89.31300 1 1014 1 chr1D.!!$F1 1013
12 TraesCS6D01G296000 chr2D 61801946 61802912 966 False 1214.00 1214 89.44800 26 1014 1 chr2D.!!$F1 988
13 TraesCS6D01G296000 chr2D 589320714 589321706 992 True 1199.00 1199 88.68600 1 1014 1 chr2D.!!$R1 1013
14 TraesCS6D01G296000 chr2D 594199687 594200406 719 True 1149.00 1149 95.69400 99 808 1 chr2D.!!$R2 709
15 TraesCS6D01G296000 chr7D 101553296 101554241 945 True 1208.00 1208 90.00000 26 975 1 chr7D.!!$R1 949
16 TraesCS6D01G296000 chr5A 553456527 553457302 775 False 1162.00 1162 93.63100 26 808 1 chr5A.!!$F1 782
17 TraesCS6D01G296000 chr7A 553041255 553042118 863 False 1146.00 1146 90.60800 26 911 1 chr7A.!!$F1 885
18 TraesCS6D01G296000 chr7A 34137225 34138032 807 True 933.00 933 87.87500 1 808 1 chr7A.!!$R1 807
19 TraesCS6D01G296000 chr4A 152770988 152771980 992 False 1107.00 1107 87.05500 1 991 1 chr4A.!!$F1 990
20 TraesCS6D01G296000 chr4A 657082419 657083270 851 False 1027.00 1027 88.52800 1 854 1 chr4A.!!$F2 853
21 TraesCS6D01G296000 chrUn 377801968 377802819 851 True 1038.00 1038 88.91500 7 854 1 chrUn.!!$R1 847
22 TraesCS6D01G296000 chr3A 395555796 395556451 655 True 1029.00 1029 94.87200 147 808 1 chr3A.!!$R1 661
23 TraesCS6D01G296000 chr2B 21533000 21533752 752 False 774.00 774 85.43800 149 911 1 chr2B.!!$F1 762

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
963 1181 0.038892 ATTTTTGCGCACTGCTGGAG 60.039 50.0 11.12 0.0 46.63 3.86 F
1744 1993 0.245266 TCGGCTGCGTGTTAAGATCA 59.755 50.0 0.00 0.0 0.00 2.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2271 2524 0.612229 AGTAGACCTCGTCGTCCTCA 59.388 55.0 0.0 0.0 37.67 3.86 R
3226 7445 0.175073 ACCGGCGACCAAGTAGAATC 59.825 55.0 9.3 0.0 0.00 2.52 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
119 121 3.726517 GCCACGCGCACAGAACAT 61.727 61.111 5.73 0.00 37.47 2.71
129 131 1.014044 CACAGAACATAGCCACGCGT 61.014 55.000 5.58 5.58 0.00 6.01
427 473 1.478510 GTCTCATCACCGACATGGACT 59.521 52.381 0.00 0.00 42.00 3.85
714 773 1.592223 GGACAACACCGAGGAGGAG 59.408 63.158 0.00 0.00 45.00 3.69
808 937 7.173562 AGTTGCACCGTAGTTCTATCTATCTAG 59.826 40.741 0.00 0.00 0.00 2.43
811 940 7.041303 TGCACCGTAGTTCTATCTATCTAGTTG 60.041 40.741 0.00 0.00 0.00 3.16
812 941 7.299586 CACCGTAGTTCTATCTATCTAGTTGC 58.700 42.308 0.00 0.00 0.00 4.17
813 942 6.996879 ACCGTAGTTCTATCTATCTAGTTGCA 59.003 38.462 0.00 0.00 0.00 4.08
814 943 7.041235 ACCGTAGTTCTATCTATCTAGTTGCAC 60.041 40.741 0.00 0.00 0.00 4.57
815 944 7.299586 CGTAGTTCTATCTATCTAGTTGCACC 58.700 42.308 0.00 0.00 0.00 5.01
816 945 6.320494 AGTTCTATCTATCTAGTTGCACCG 57.680 41.667 0.00 0.00 0.00 4.94
817 946 5.828859 AGTTCTATCTATCTAGTTGCACCGT 59.171 40.000 0.00 0.00 0.00 4.83
818 947 6.996879 AGTTCTATCTATCTAGTTGCACCGTA 59.003 38.462 0.00 0.00 0.00 4.02
819 948 7.173562 AGTTCTATCTATCTAGTTGCACCGTAG 59.826 40.741 0.00 0.00 0.00 3.51
820 949 6.531923 TCTATCTATCTAGTTGCACCGTAGT 58.468 40.000 0.00 0.00 0.00 2.73
821 950 6.996879 TCTATCTATCTAGTTGCACCGTAGTT 59.003 38.462 0.00 0.00 0.00 2.24
822 951 5.496133 TCTATCTAGTTGCACCGTAGTTC 57.504 43.478 0.00 0.00 0.00 3.01
823 952 5.191426 TCTATCTAGTTGCACCGTAGTTCT 58.809 41.667 0.00 0.00 0.00 3.01
824 953 6.351711 TCTATCTAGTTGCACCGTAGTTCTA 58.648 40.000 0.00 0.00 0.00 2.10
825 954 6.996879 TCTATCTAGTTGCACCGTAGTTCTAT 59.003 38.462 0.00 0.00 0.00 1.98
826 955 5.496133 TCTAGTTGCACCGTAGTTCTATC 57.504 43.478 0.00 0.00 0.00 2.08
827 956 5.191426 TCTAGTTGCACCGTAGTTCTATCT 58.809 41.667 0.00 0.00 0.00 1.98
828 957 6.351711 TCTAGTTGCACCGTAGTTCTATCTA 58.648 40.000 0.00 0.00 0.00 1.98
829 958 6.996879 TCTAGTTGCACCGTAGTTCTATCTAT 59.003 38.462 0.00 0.00 0.00 1.98
830 959 6.074544 AGTTGCACCGTAGTTCTATCTATC 57.925 41.667 0.00 0.00 0.00 2.08
831 960 5.828859 AGTTGCACCGTAGTTCTATCTATCT 59.171 40.000 0.00 0.00 0.00 1.98
832 961 6.996879 AGTTGCACCGTAGTTCTATCTATCTA 59.003 38.462 0.00 0.00 0.00 1.98
833 962 7.666388 AGTTGCACCGTAGTTCTATCTATCTAT 59.334 37.037 0.00 0.00 0.00 1.98
834 963 7.379098 TGCACCGTAGTTCTATCTATCTATG 57.621 40.000 0.00 0.00 0.00 2.23
835 964 6.127980 TGCACCGTAGTTCTATCTATCTATGC 60.128 42.308 0.00 0.00 0.00 3.14
836 965 6.094325 GCACCGTAGTTCTATCTATCTATGCT 59.906 42.308 0.00 0.00 0.00 3.79
837 966 7.362229 GCACCGTAGTTCTATCTATCTATGCTT 60.362 40.741 0.00 0.00 0.00 3.91
863 1024 5.049612 CGAACTATCTATCTAGTTGCACCGA 60.050 44.000 1.47 0.00 41.00 4.69
864 1025 6.348622 CGAACTATCTATCTAGTTGCACCGAT 60.349 42.308 1.47 0.00 41.00 4.18
865 1026 6.260870 ACTATCTATCTAGTTGCACCGATG 57.739 41.667 0.00 0.00 0.00 3.84
866 1027 5.770663 ACTATCTATCTAGTTGCACCGATGT 59.229 40.000 0.00 0.00 0.00 3.06
867 1028 6.940867 ACTATCTATCTAGTTGCACCGATGTA 59.059 38.462 0.00 0.00 0.00 2.29
868 1029 6.650427 ATCTATCTAGTTGCACCGATGTAA 57.350 37.500 0.00 0.00 0.00 2.41
869 1030 6.459670 TCTATCTAGTTGCACCGATGTAAA 57.540 37.500 0.00 0.00 31.71 2.01
943 1161 4.123497 TGTTATAGAATGAGCGCACTGT 57.877 40.909 11.47 1.77 0.00 3.55
949 1167 6.683974 ATAGAATGAGCGCACTGTATTTTT 57.316 33.333 11.47 0.00 0.00 1.94
950 1168 4.726416 AGAATGAGCGCACTGTATTTTTG 58.274 39.130 11.47 0.00 0.00 2.44
956 1174 2.050477 GCACTGTATTTTTGCGCACT 57.950 45.000 11.12 0.00 0.00 4.40
957 1175 1.715519 GCACTGTATTTTTGCGCACTG 59.284 47.619 11.12 3.96 0.00 3.66
958 1176 1.715519 CACTGTATTTTTGCGCACTGC 59.284 47.619 11.12 0.00 46.70 4.40
960 1178 1.980844 CTGTATTTTTGCGCACTGCTG 59.019 47.619 11.12 0.00 46.63 4.41
961 1179 1.335780 TGTATTTTTGCGCACTGCTGG 60.336 47.619 11.12 0.00 46.63 4.85
962 1180 1.068610 GTATTTTTGCGCACTGCTGGA 60.069 47.619 11.12 0.00 46.63 3.86
963 1181 0.038892 ATTTTTGCGCACTGCTGGAG 60.039 50.000 11.12 0.00 46.63 3.86
964 1182 2.682256 TTTTTGCGCACTGCTGGAGC 62.682 55.000 11.12 0.00 46.63 4.70
978 1196 4.017877 GAGCTGCGCGTGCTGTTT 62.018 61.111 27.96 15.97 41.30 2.83
979 1197 3.527360 GAGCTGCGCGTGCTGTTTT 62.527 57.895 27.96 13.76 41.30 2.43
980 1198 2.655044 GCTGCGCGTGCTGTTTTT 60.655 55.556 25.54 0.00 43.34 1.94
981 1199 1.369930 GCTGCGCGTGCTGTTTTTA 60.370 52.632 25.54 2.29 43.34 1.52
982 1200 1.330080 GCTGCGCGTGCTGTTTTTAG 61.330 55.000 25.54 12.87 43.34 1.85
983 1201 1.330080 CTGCGCGTGCTGTTTTTAGC 61.330 55.000 23.16 0.00 43.34 3.09
984 1202 2.417553 GCGCGTGCTGTTTTTAGCG 61.418 57.895 15.02 3.15 46.61 4.26
985 1203 2.417553 CGCGTGCTGTTTTTAGCGC 61.418 57.895 0.00 0.00 46.61 5.92
987 1205 4.130857 GTGCTGTTTTTAGCGCGG 57.869 55.556 8.83 0.00 46.61 6.46
988 1206 2.080636 GTGCTGTTTTTAGCGCGGC 61.081 57.895 8.83 0.00 46.61 6.53
989 1207 2.258013 TGCTGTTTTTAGCGCGGCT 61.258 52.632 8.83 8.38 46.61 5.52
990 1208 1.797537 GCTGTTTTTAGCGCGGCTG 60.798 57.895 8.83 0.00 40.10 4.85
991 1209 1.154225 CTGTTTTTAGCGCGGCTGG 60.154 57.895 8.83 0.00 40.10 4.85
992 1210 1.573829 CTGTTTTTAGCGCGGCTGGA 61.574 55.000 8.83 0.00 40.10 3.86
993 1211 1.134694 GTTTTTAGCGCGGCTGGAG 59.865 57.895 8.83 0.00 40.10 3.86
994 1212 2.686816 TTTTTAGCGCGGCTGGAGC 61.687 57.895 8.83 0.00 40.10 4.70
1029 1247 4.368808 CGTGTTCGGCGCCTGTTG 62.369 66.667 26.68 9.07 0.00 3.33
1030 1248 3.276846 GTGTTCGGCGCCTGTTGT 61.277 61.111 26.68 0.00 0.00 3.32
1031 1249 2.515057 TGTTCGGCGCCTGTTGTT 60.515 55.556 26.68 0.00 0.00 2.83
1032 1250 2.051345 GTTCGGCGCCTGTTGTTG 60.051 61.111 26.68 6.92 0.00 3.33
1033 1251 3.283684 TTCGGCGCCTGTTGTTGG 61.284 61.111 26.68 6.06 0.00 3.77
1034 1252 3.758973 TTCGGCGCCTGTTGTTGGA 62.759 57.895 26.68 8.76 0.00 3.53
1035 1253 3.726517 CGGCGCCTGTTGTTGGAG 61.727 66.667 26.68 0.00 0.00 3.86
1036 1254 2.281484 GGCGCCTGTTGTTGGAGA 60.281 61.111 22.15 0.00 0.00 3.71
1037 1255 1.675641 GGCGCCTGTTGTTGGAGAT 60.676 57.895 22.15 0.00 0.00 2.75
1041 1259 0.807496 GCCTGTTGTTGGAGATGCTC 59.193 55.000 0.00 0.00 0.00 4.26
1051 1269 6.452494 TGTTGGAGATGCTCTTAGTACTAC 57.548 41.667 0.91 0.00 0.00 2.73
1052 1270 5.360144 TGTTGGAGATGCTCTTAGTACTACC 59.640 44.000 0.91 0.00 0.00 3.18
1054 1272 4.888239 TGGAGATGCTCTTAGTACTACCAC 59.112 45.833 0.91 0.00 0.00 4.16
1090 1309 2.159324 GCCTAATCAAGCTTGCAACCTC 60.159 50.000 21.99 5.77 0.00 3.85
1092 1311 3.128242 CCTAATCAAGCTTGCAACCTCTG 59.872 47.826 21.99 5.98 0.00 3.35
1121 1340 3.917380 CGCTTCTTATATCTTGCTCCTCG 59.083 47.826 0.00 0.00 0.00 4.63
1185 1409 2.757508 CCCTCTGCTCTGCTCCGA 60.758 66.667 0.00 0.00 0.00 4.55
1236 1468 0.978146 CCCCTGACCCTCGAGTGATT 60.978 60.000 12.31 0.00 0.00 2.57
1239 1471 1.827969 CCTGACCCTCGAGTGATTTCT 59.172 52.381 12.31 0.00 0.00 2.52
1308 1546 1.871126 GCTTCTGGTTCTTGGCTGGC 61.871 60.000 0.00 0.00 0.00 4.85
1347 1585 2.318908 TGATTTTGCACCTCTTTGGCT 58.681 42.857 0.00 0.00 40.22 4.75
1359 1597 3.551496 TTTGGCTGCAGGGGAGACG 62.551 63.158 17.12 0.00 0.00 4.18
1361 1599 4.154347 GGCTGCAGGGGAGACGAG 62.154 72.222 17.12 0.00 0.00 4.18
1362 1600 4.154347 GCTGCAGGGGAGACGAGG 62.154 72.222 17.12 0.00 0.00 4.63
1363 1601 2.363018 CTGCAGGGGAGACGAGGA 60.363 66.667 5.57 0.00 0.00 3.71
1364 1602 2.363018 TGCAGGGGAGACGAGGAG 60.363 66.667 0.00 0.00 0.00 3.69
1365 1603 3.151022 GCAGGGGAGACGAGGAGG 61.151 72.222 0.00 0.00 0.00 4.30
1366 1604 2.443016 CAGGGGAGACGAGGAGGG 60.443 72.222 0.00 0.00 0.00 4.30
1367 1605 2.617538 AGGGGAGACGAGGAGGGA 60.618 66.667 0.00 0.00 0.00 4.20
1368 1606 2.123640 GGGGAGACGAGGAGGGAG 60.124 72.222 0.00 0.00 0.00 4.30
1369 1607 2.123640 GGGAGACGAGGAGGGAGG 60.124 72.222 0.00 0.00 0.00 4.30
1370 1608 2.123640 GGAGACGAGGAGGGAGGG 60.124 72.222 0.00 0.00 0.00 4.30
1371 1609 2.691779 GGAGACGAGGAGGGAGGGA 61.692 68.421 0.00 0.00 0.00 4.20
1372 1610 1.152839 GAGACGAGGAGGGAGGGAG 60.153 68.421 0.00 0.00 0.00 4.30
1373 1611 1.619975 AGACGAGGAGGGAGGGAGA 60.620 63.158 0.00 0.00 0.00 3.71
1728 1977 4.129737 ACTCACCATCGCCGTCGG 62.130 66.667 6.99 6.99 36.13 4.79
1740 1989 2.726691 CCGTCGGCTGCGTGTTAAG 61.727 63.158 0.00 0.00 0.00 1.85
1742 1991 1.076533 CGTCGGCTGCGTGTTAAGAT 61.077 55.000 0.00 0.00 0.00 2.40
1743 1992 0.645868 GTCGGCTGCGTGTTAAGATC 59.354 55.000 0.00 0.00 0.00 2.75
1744 1993 0.245266 TCGGCTGCGTGTTAAGATCA 59.755 50.000 0.00 0.00 0.00 2.92
1745 1994 1.134818 TCGGCTGCGTGTTAAGATCAT 60.135 47.619 0.00 0.00 0.00 2.45
1746 1995 1.665679 CGGCTGCGTGTTAAGATCATT 59.334 47.619 0.00 0.00 0.00 2.57
1747 1996 2.285834 CGGCTGCGTGTTAAGATCATTC 60.286 50.000 0.00 0.00 0.00 2.67
1748 1997 2.677836 GGCTGCGTGTTAAGATCATTCA 59.322 45.455 0.00 0.00 0.00 2.57
1750 1999 4.201950 GGCTGCGTGTTAAGATCATTCATT 60.202 41.667 0.00 0.00 0.00 2.57
1751 2000 4.966366 GCTGCGTGTTAAGATCATTCATTC 59.034 41.667 0.00 0.00 0.00 2.67
1752 2001 5.142635 TGCGTGTTAAGATCATTCATTCG 57.857 39.130 0.00 0.00 0.00 3.34
1754 2003 5.350091 TGCGTGTTAAGATCATTCATTCGAA 59.650 36.000 0.00 0.00 35.05 3.71
1755 2004 6.128418 TGCGTGTTAAGATCATTCATTCGAAA 60.128 34.615 0.00 0.00 34.01 3.46
1756 2005 6.907212 GCGTGTTAAGATCATTCATTCGAAAT 59.093 34.615 0.00 0.00 34.01 2.17
1757 2006 7.097289 GCGTGTTAAGATCATTCATTCGAAATG 60.097 37.037 0.00 1.51 34.01 2.32
1758 2007 7.374228 CGTGTTAAGATCATTCATTCGAAATGG 59.626 37.037 0.00 0.00 34.01 3.16
1759 2008 7.166473 GTGTTAAGATCATTCATTCGAAATGGC 59.834 37.037 0.00 0.00 34.01 4.40
1760 2009 4.478843 AGATCATTCATTCGAAATGGCG 57.521 40.909 0.00 0.00 34.01 5.69
1761 2010 2.473530 TCATTCATTCGAAATGGCGC 57.526 45.000 0.00 0.00 34.01 6.53
1762 2011 1.114842 CATTCATTCGAAATGGCGCG 58.885 50.000 0.00 0.00 34.01 6.86
1763 2012 0.592247 ATTCATTCGAAATGGCGCGC 60.592 50.000 25.94 25.94 34.01 6.86
1764 2013 2.591129 TTCATTCGAAATGGCGCGCC 62.591 55.000 42.35 42.35 0.00 6.53
1767 2016 4.751093 TCGAAATGGCGCGCCTGA 62.751 61.111 45.79 31.50 36.94 3.86
1768 2017 3.798650 CGAAATGGCGCGCCTGAA 61.799 61.111 45.79 30.28 36.94 3.02
1770 2019 1.139520 GAAATGGCGCGCCTGAATT 59.860 52.632 45.79 34.42 36.94 2.17
1771 2020 0.458370 GAAATGGCGCGCCTGAATTT 60.458 50.000 45.79 39.21 36.94 1.82
1772 2021 0.458370 AAATGGCGCGCCTGAATTTC 60.458 50.000 45.79 21.40 36.94 2.17
1774 2023 1.718757 ATGGCGCGCCTGAATTTCTC 61.719 55.000 45.79 19.89 36.94 2.87
1775 2024 2.109126 GGCGCGCCTGAATTTCTCT 61.109 57.895 41.71 0.00 0.00 3.10
1776 2025 1.061570 GCGCGCCTGAATTTCTCTG 59.938 57.895 23.24 0.00 0.00 3.35
1777 2026 1.639298 GCGCGCCTGAATTTCTCTGT 61.639 55.000 23.24 0.00 0.00 3.41
1778 2027 0.371645 CGCGCCTGAATTTCTCTGTC 59.628 55.000 0.00 0.00 0.00 3.51
1779 2028 1.731720 GCGCCTGAATTTCTCTGTCT 58.268 50.000 0.00 0.00 0.00 3.41
1780 2029 2.079925 GCGCCTGAATTTCTCTGTCTT 58.920 47.619 0.00 0.00 0.00 3.01
1781 2030 2.095053 GCGCCTGAATTTCTCTGTCTTC 59.905 50.000 0.00 0.00 0.00 2.87
1782 2031 3.594134 CGCCTGAATTTCTCTGTCTTCT 58.406 45.455 0.00 0.00 0.00 2.85
1783 2032 3.999663 CGCCTGAATTTCTCTGTCTTCTT 59.000 43.478 0.00 0.00 0.00 2.52
1911 2160 2.110967 CAGCTGCACCAAGATCGGG 61.111 63.158 0.00 5.06 0.00 5.14
2269 2522 2.668889 AGTGCTCCGACGACGACT 60.669 61.111 9.28 0.92 42.66 4.18
2270 2523 2.202324 GTGCTCCGACGACGACTC 60.202 66.667 9.28 0.00 42.66 3.36
2271 2524 2.358369 TGCTCCGACGACGACTCT 60.358 61.111 9.28 0.00 42.66 3.24
2274 2539 1.710919 CTCCGACGACGACTCTGAG 59.289 63.158 9.28 2.45 42.66 3.35
2495 2765 2.031012 TGCTCACCTTGACCGCAG 59.969 61.111 0.00 0.00 0.00 5.18
2503 2773 0.519077 CCTTGACCGCAGAAAGAAGC 59.481 55.000 0.00 0.00 0.00 3.86
2507 2777 1.168714 GACCGCAGAAAGAAGCCAAT 58.831 50.000 0.00 0.00 0.00 3.16
2523 2793 4.583871 AGCCAATCATCTTTCTCGTTCTT 58.416 39.130 0.00 0.00 0.00 2.52
2585 2871 3.798202 CCAGTAGCTTAATCTGGGTGTC 58.202 50.000 14.83 0.00 43.30 3.67
2606 2892 9.167311 GGTGTCTGATGTAAACTTAATCTGATT 57.833 33.333 8.14 8.14 32.93 2.57
2675 6202 5.499004 AGATGGTGTTTACATGTACCAGT 57.501 39.130 20.05 9.83 45.49 4.00
2685 6212 2.288213 ACATGTACCAGTGTCAGTGTCG 60.288 50.000 0.00 0.00 0.00 4.35
2687 6214 0.666577 GTACCAGTGTCAGTGTCGGC 60.667 60.000 6.91 0.00 0.00 5.54
2774 6312 4.448732 GGAGCTTTGTGGTGCTTTTATTTG 59.551 41.667 0.00 0.00 39.91 2.32
2780 6318 1.611006 TGGTGCTTTTATTTGCGCTGA 59.389 42.857 9.73 0.00 39.38 4.26
2809 6352 0.957395 ACGACATGGACGGACGTACT 60.957 55.000 16.32 0.00 35.49 2.73
2841 6384 3.622756 CGCTCCTCGTCATGCATC 58.377 61.111 0.00 0.00 0.00 3.91
2842 6385 1.953138 CGCTCCTCGTCATGCATCC 60.953 63.158 0.00 0.00 0.00 3.51
2843 6386 1.144716 GCTCCTCGTCATGCATCCA 59.855 57.895 0.00 0.00 0.00 3.41
2844 6387 0.250209 GCTCCTCGTCATGCATCCAT 60.250 55.000 0.00 0.00 0.00 3.41
2863 6410 0.888619 TCCATCCATCTATCGGACGC 59.111 55.000 0.00 0.00 34.69 5.19
2952 6800 0.458889 ATGTCAACGCAATGCATGGC 60.459 50.000 16.64 16.64 0.00 4.40
2959 6807 1.655885 CGCAATGCATGGCCAGTACA 61.656 55.000 20.50 9.80 0.00 2.90
2972 6820 2.364324 GCCAGTACACCCTCGATTGATA 59.636 50.000 0.00 0.00 0.00 2.15
3102 6951 3.321968 GTGCCATCTTTTCAGAAAAGGGT 59.678 43.478 28.05 17.78 46.11 4.34
3104 6953 3.306294 GCCATCTTTTCAGAAAAGGGTGG 60.306 47.826 31.86 31.86 46.11 4.61
3156 7367 1.533338 GCAAGATCAATCAGCTTGGCG 60.533 52.381 0.00 0.00 39.42 5.69
3242 7540 3.556365 GCTTTAGATTCTACTTGGTCGCC 59.444 47.826 0.00 0.00 0.00 5.54
3269 7730 3.766591 AGGTCTGGATGGCGATAGAATAG 59.233 47.826 0.00 0.00 39.76 1.73
3276 7737 0.889306 GGCGATAGAATAGCTCCGGT 59.111 55.000 0.00 0.00 39.76 5.28
3314 7778 2.280052 GCTCTGAGCTGCGATCCC 60.280 66.667 21.93 0.00 38.45 3.85
3333 7797 1.068474 CGTGCTAACTTTGAGACGGG 58.932 55.000 0.00 0.00 0.00 5.28
3347 7811 2.806818 GAGACGGGTTTTTCTGAACCTC 59.193 50.000 6.73 0.00 46.63 3.85
3358 7822 7.360185 GGTTTTTCTGAACCTCTACGATTTCTC 60.360 40.741 0.00 0.00 44.55 2.87
3401 7865 3.264897 CGTGCCATGGCTACGAGC 61.265 66.667 36.96 21.33 43.07 5.03
3421 7885 2.869192 GCCGATCTTTCTTGATCAGGAC 59.131 50.000 7.09 0.00 42.01 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
129 131 2.683933 GAGGTTGCGAGGGGAGGA 60.684 66.667 0.00 0.00 0.00 3.71
427 473 4.662961 CTGAGCGTGGTCGGCACA 62.663 66.667 0.00 0.00 37.56 4.57
708 767 4.384318 CCATCATCATCATCATCCTCCTCC 60.384 50.000 0.00 0.00 0.00 4.30
714 773 3.869832 CGCTACCATCATCATCATCATCC 59.130 47.826 0.00 0.00 0.00 3.51
808 937 6.074544 AGATAGATAGAACTACGGTGCAAC 57.925 41.667 0.00 0.00 0.00 4.17
811 940 6.094325 AGCATAGATAGATAGAACTACGGTGC 59.906 42.308 0.00 0.00 0.00 5.01
812 941 7.618502 AGCATAGATAGATAGAACTACGGTG 57.381 40.000 0.00 0.00 0.00 4.94
813 942 8.638629 AAAGCATAGATAGATAGAACTACGGT 57.361 34.615 0.00 0.00 0.00 4.83
814 943 7.906010 CGAAAGCATAGATAGATAGAACTACGG 59.094 40.741 0.00 0.00 0.00 4.02
815 944 8.657729 TCGAAAGCATAGATAGATAGAACTACG 58.342 37.037 0.00 0.00 0.00 3.51
818 947 9.073475 AGTTCGAAAGCATAGATAGATAGAACT 57.927 33.333 0.00 0.00 38.66 3.01
829 958 9.727859 ACTAGATAGATAGTTCGAAAGCATAGA 57.272 33.333 0.00 0.00 31.89 1.98
832 961 7.596995 GCAACTAGATAGATAGTTCGAAAGCAT 59.403 37.037 0.00 0.00 42.68 3.79
833 962 6.918569 GCAACTAGATAGATAGTTCGAAAGCA 59.081 38.462 0.00 0.00 42.68 3.91
834 963 6.918569 TGCAACTAGATAGATAGTTCGAAAGC 59.081 38.462 0.00 0.00 42.68 3.51
835 964 7.380065 GGTGCAACTAGATAGATAGTTCGAAAG 59.620 40.741 0.00 0.00 42.68 2.62
836 965 7.201145 GGTGCAACTAGATAGATAGTTCGAAA 58.799 38.462 0.00 0.00 42.68 3.46
837 966 6.512903 CGGTGCAACTAGATAGATAGTTCGAA 60.513 42.308 0.00 0.00 42.68 3.71
939 1157 1.608590 AGCAGTGCGCAAAAATACAGT 59.391 42.857 14.00 0.00 46.13 3.55
943 1161 1.199789 CTCCAGCAGTGCGCAAAAATA 59.800 47.619 14.00 0.00 46.13 1.40
964 1182 1.330080 GCTAAAAACAGCACGCGCAG 61.330 55.000 5.73 0.00 41.40 5.18
966 1184 2.417553 CGCTAAAAACAGCACGCGC 61.418 57.895 5.73 0.00 41.88 6.86
967 1185 2.417553 GCGCTAAAAACAGCACGCG 61.418 57.895 3.53 3.53 41.88 6.01
968 1186 2.417553 CGCGCTAAAAACAGCACGC 61.418 57.895 5.56 0.00 39.84 5.34
969 1187 1.792057 CCGCGCTAAAAACAGCACG 60.792 57.895 5.56 0.00 44.51 5.34
970 1188 2.080636 GCCGCGCTAAAAACAGCAC 61.081 57.895 5.56 0.00 41.88 4.40
971 1189 2.254051 GCCGCGCTAAAAACAGCA 59.746 55.556 5.56 0.00 41.88 4.41
972 1190 1.797537 CAGCCGCGCTAAAAACAGC 60.798 57.895 5.56 0.00 36.40 4.40
973 1191 1.154225 CCAGCCGCGCTAAAAACAG 60.154 57.895 5.56 0.00 36.40 3.16
974 1192 1.573829 CTCCAGCCGCGCTAAAAACA 61.574 55.000 5.56 0.00 36.40 2.83
975 1193 1.134694 CTCCAGCCGCGCTAAAAAC 59.865 57.895 5.56 0.00 36.40 2.43
976 1194 2.686816 GCTCCAGCCGCGCTAAAAA 61.687 57.895 5.56 0.00 36.40 1.94
977 1195 3.124921 GCTCCAGCCGCGCTAAAA 61.125 61.111 5.56 0.00 36.40 1.52
1012 1230 4.368808 CAACAGGCGCCGAACACG 62.369 66.667 23.20 9.09 0.00 4.49
1013 1231 2.830285 AACAACAGGCGCCGAACAC 61.830 57.895 23.20 0.00 0.00 3.32
1014 1232 2.515057 AACAACAGGCGCCGAACA 60.515 55.556 23.20 0.00 0.00 3.18
1015 1233 2.051345 CAACAACAGGCGCCGAAC 60.051 61.111 23.20 0.00 0.00 3.95
1016 1234 3.283684 CCAACAACAGGCGCCGAA 61.284 61.111 23.20 0.00 0.00 4.30
1017 1235 4.243008 TCCAACAACAGGCGCCGA 62.243 61.111 23.20 6.54 0.00 5.54
1018 1236 3.726517 CTCCAACAACAGGCGCCG 61.727 66.667 23.20 18.60 0.00 6.46
1019 1237 1.675641 ATCTCCAACAACAGGCGCC 60.676 57.895 21.89 21.89 0.00 6.53
1020 1238 1.503542 CATCTCCAACAACAGGCGC 59.496 57.895 0.00 0.00 0.00 6.53
1021 1239 0.957395 AGCATCTCCAACAACAGGCG 60.957 55.000 0.00 0.00 0.00 5.52
1022 1240 0.807496 GAGCATCTCCAACAACAGGC 59.193 55.000 0.00 0.00 0.00 4.85
1030 1248 7.584794 TAGTGGTAGTACTAAGAGCATCTCCAA 60.585 40.741 3.61 0.00 36.89 3.53
1031 1249 6.126565 TAGTGGTAGTACTAAGAGCATCTCCA 60.127 42.308 3.61 1.64 36.89 3.86
1032 1250 6.297582 TAGTGGTAGTACTAAGAGCATCTCC 58.702 44.000 3.61 0.00 36.89 3.71
1033 1251 6.993902 ACTAGTGGTAGTACTAAGAGCATCTC 59.006 42.308 3.61 0.00 40.79 2.75
1034 1252 6.902408 ACTAGTGGTAGTACTAAGAGCATCT 58.098 40.000 3.61 4.41 42.63 2.90
1035 1253 8.674263 TTACTAGTGGTAGTACTAAGAGCATC 57.326 38.462 5.39 0.00 40.76 3.91
1036 1254 9.643735 AATTACTAGTGGTAGTACTAAGAGCAT 57.356 33.333 5.39 0.00 40.76 3.79
1051 1269 2.135933 GGCGCTGCTAATTACTAGTGG 58.864 52.381 7.64 0.00 0.00 4.00
1052 1270 3.099267 AGGCGCTGCTAATTACTAGTG 57.901 47.619 7.64 0.00 0.00 2.74
1054 1272 5.470368 TGATTAGGCGCTGCTAATTACTAG 58.530 41.667 16.74 0.00 0.00 2.57
1090 1309 2.309528 TATAAGAAGCGCCACCACAG 57.690 50.000 2.29 0.00 0.00 3.66
1092 1311 3.113260 AGATATAAGAAGCGCCACCAC 57.887 47.619 2.29 0.00 0.00 4.16
1121 1340 2.202676 CCTGTCCGAGAAGCGAGC 60.203 66.667 0.00 0.00 44.57 5.03
1170 1394 1.433064 GAGTCGGAGCAGAGCAGAG 59.567 63.158 0.00 0.00 0.00 3.35
1171 1395 2.049185 GGAGTCGGAGCAGAGCAGA 61.049 63.158 0.00 0.00 0.00 4.26
1178 1402 2.438614 CTCCTCGGAGTCGGAGCA 60.439 66.667 19.55 6.67 38.78 4.26
1219 1447 1.827969 AGAAATCACTCGAGGGTCAGG 59.172 52.381 15.72 0.00 0.00 3.86
1236 1468 1.406903 GCCGCCTACCTACCTTAGAA 58.593 55.000 0.00 0.00 0.00 2.10
1239 1471 0.325484 TTGGCCGCCTACCTACCTTA 60.325 55.000 11.61 0.00 0.00 2.69
1308 1546 3.204827 CGCAATTCCCCGCTCCAG 61.205 66.667 0.00 0.00 0.00 3.86
1347 1585 2.363018 CTCCTCGTCTCCCCTGCA 60.363 66.667 0.00 0.00 0.00 4.41
1359 1597 0.996762 TCCTCTCTCCCTCCCTCCTC 60.997 65.000 0.00 0.00 0.00 3.71
1360 1598 0.998945 CTCCTCTCTCCCTCCCTCCT 60.999 65.000 0.00 0.00 0.00 3.69
1361 1599 1.541672 CTCCTCTCTCCCTCCCTCC 59.458 68.421 0.00 0.00 0.00 4.30
1362 1600 0.996762 TCCTCCTCTCTCCCTCCCTC 60.997 65.000 0.00 0.00 0.00 4.30
1363 1601 0.998945 CTCCTCCTCTCTCCCTCCCT 60.999 65.000 0.00 0.00 0.00 4.20
1364 1602 1.541672 CTCCTCCTCTCTCCCTCCC 59.458 68.421 0.00 0.00 0.00 4.30
1365 1603 1.152546 GCTCCTCCTCTCTCCCTCC 60.153 68.421 0.00 0.00 0.00 4.30
1366 1604 0.032615 TTGCTCCTCCTCTCTCCCTC 60.033 60.000 0.00 0.00 0.00 4.30
1367 1605 0.641601 ATTGCTCCTCCTCTCTCCCT 59.358 55.000 0.00 0.00 0.00 4.20
1368 1606 0.758123 CATTGCTCCTCCTCTCTCCC 59.242 60.000 0.00 0.00 0.00 4.30
1369 1607 0.758123 CCATTGCTCCTCCTCTCTCC 59.242 60.000 0.00 0.00 0.00 3.71
1370 1608 0.758123 CCCATTGCTCCTCCTCTCTC 59.242 60.000 0.00 0.00 0.00 3.20
1371 1609 0.693767 CCCCATTGCTCCTCCTCTCT 60.694 60.000 0.00 0.00 0.00 3.10
1372 1610 1.704007 CCCCCATTGCTCCTCCTCTC 61.704 65.000 0.00 0.00 0.00 3.20
1373 1611 1.695597 CCCCCATTGCTCCTCCTCT 60.696 63.158 0.00 0.00 0.00 3.69
1592 1830 2.107750 CAGGTCGAGCATGCGGAT 59.892 61.111 18.15 0.00 0.00 4.18
1728 1977 4.542662 ATGAATGATCTTAACACGCAGC 57.457 40.909 0.00 0.00 0.00 5.25
1729 1978 5.005682 TCGAATGAATGATCTTAACACGCAG 59.994 40.000 0.00 0.00 0.00 5.18
1736 1985 6.429624 CGCCATTTCGAATGAATGATCTTAA 58.570 36.000 9.40 0.00 33.20 1.85
1740 1989 2.975851 GCGCCATTTCGAATGAATGATC 59.024 45.455 9.40 0.00 33.20 2.92
1742 1991 1.267982 CGCGCCATTTCGAATGAATGA 60.268 47.619 0.00 0.00 33.20 2.57
1743 1992 1.114842 CGCGCCATTTCGAATGAATG 58.885 50.000 0.00 0.00 33.20 2.67
1744 1993 0.592247 GCGCGCCATTTCGAATGAAT 60.592 50.000 23.24 0.00 33.20 2.57
1745 1994 1.226267 GCGCGCCATTTCGAATGAA 60.226 52.632 23.24 0.00 0.00 2.57
1746 1995 2.403186 GCGCGCCATTTCGAATGA 59.597 55.556 23.24 0.00 0.00 2.57
1747 1996 2.651863 GGCGCGCCATTTCGAATG 60.652 61.111 43.55 0.00 35.81 2.67
1757 2006 2.109126 AGAGAAATTCAGGCGCGCC 61.109 57.895 42.34 42.34 0.00 6.53
1758 2007 1.061570 CAGAGAAATTCAGGCGCGC 59.938 57.895 25.94 25.94 0.00 6.86
1759 2008 0.371645 GACAGAGAAATTCAGGCGCG 59.628 55.000 0.00 0.00 0.00 6.86
1760 2009 1.731720 AGACAGAGAAATTCAGGCGC 58.268 50.000 0.00 0.00 0.00 6.53
1761 2010 3.594134 AGAAGACAGAGAAATTCAGGCG 58.406 45.455 0.00 0.00 0.00 5.52
1762 2011 4.999950 TGAAGAAGACAGAGAAATTCAGGC 59.000 41.667 0.00 0.00 0.00 4.85
1763 2012 6.348376 GCTTGAAGAAGACAGAGAAATTCAGG 60.348 42.308 0.00 0.00 0.00 3.86
1764 2013 6.601264 GCTTGAAGAAGACAGAGAAATTCAG 58.399 40.000 0.00 0.00 0.00 3.02
1767 2016 4.083590 GCGCTTGAAGAAGACAGAGAAATT 60.084 41.667 0.00 0.00 0.00 1.82
1768 2017 3.434984 GCGCTTGAAGAAGACAGAGAAAT 59.565 43.478 0.00 0.00 0.00 2.17
1770 2019 2.408050 GCGCTTGAAGAAGACAGAGAA 58.592 47.619 0.00 0.00 0.00 2.87
1771 2020 1.667177 CGCGCTTGAAGAAGACAGAGA 60.667 52.381 5.56 0.00 0.00 3.10
1772 2021 0.712775 CGCGCTTGAAGAAGACAGAG 59.287 55.000 5.56 0.00 0.00 3.35
1774 2023 1.131420 GCGCGCTTGAAGAAGACAG 59.869 57.895 26.67 0.00 0.00 3.51
1775 2024 2.657757 CGCGCGCTTGAAGAAGACA 61.658 57.895 30.48 0.00 0.00 3.41
1776 2025 2.094724 CGCGCGCTTGAAGAAGAC 59.905 61.111 30.48 0.00 0.00 3.01
1777 2026 3.777925 GCGCGCGCTTGAAGAAGA 61.778 61.111 44.38 0.00 38.26 2.87
2269 2522 0.900421 TAGACCTCGTCGTCCTCAGA 59.100 55.000 0.00 0.00 37.67 3.27
2270 2523 1.008329 GTAGACCTCGTCGTCCTCAG 58.992 60.000 0.00 0.00 37.67 3.35
2271 2524 0.612229 AGTAGACCTCGTCGTCCTCA 59.388 55.000 0.00 0.00 37.67 3.86
2475 2745 2.738521 CGGTCAAGGTGAGCACGG 60.739 66.667 8.06 0.00 44.51 4.94
2503 2773 5.862811 GTCAAGAACGAGAAAGATGATTGG 58.137 41.667 0.00 0.00 0.00 3.16
2523 2793 1.887854 TGAACGACCATAGGAACGTCA 59.112 47.619 11.47 9.31 37.91 4.35
2675 6202 0.943835 CATTGACGCCGACACTGACA 60.944 55.000 1.06 0.00 0.00 3.58
2685 6212 1.940613 GGGTAGAATGACATTGACGCC 59.059 52.381 5.14 2.69 0.00 5.68
2687 6214 3.198068 CCAGGGTAGAATGACATTGACG 58.802 50.000 5.14 0.00 0.00 4.35
2780 6318 1.066605 GTCCATGTCGTATGTACCGCT 59.933 52.381 0.00 0.00 0.00 5.52
2789 6332 0.726827 GTACGTCCGTCCATGTCGTA 59.273 55.000 0.00 0.00 36.24 3.43
2841 6384 2.159184 CGTCCGATAGATGGATGGATGG 60.159 54.545 0.00 0.00 38.59 3.51
2842 6385 2.736719 GCGTCCGATAGATGGATGGATG 60.737 54.545 3.62 0.00 41.84 3.51
2843 6386 1.478510 GCGTCCGATAGATGGATGGAT 59.521 52.381 3.62 0.00 41.84 3.41
2844 6387 0.888619 GCGTCCGATAGATGGATGGA 59.111 55.000 3.62 0.00 41.84 3.41
2952 6800 4.280929 TGATATCAATCGAGGGTGTACTGG 59.719 45.833 1.98 0.00 34.60 4.00
2959 6807 4.562347 GCTGTCATGATATCAATCGAGGGT 60.562 45.833 9.99 0.00 34.60 4.34
2972 6820 2.515523 GGCCTGCGCTGTCATGAT 60.516 61.111 9.73 0.00 34.44 2.45
3133 7344 2.031807 CCAAGCTGATTGATCTTGCGAG 59.968 50.000 7.30 0.00 41.83 5.03
3224 7443 1.679680 CCGGCGACCAAGTAGAATCTA 59.320 52.381 9.30 0.00 0.00 1.98
3225 7444 0.460311 CCGGCGACCAAGTAGAATCT 59.540 55.000 9.30 0.00 0.00 2.40
3226 7445 0.175073 ACCGGCGACCAAGTAGAATC 59.825 55.000 9.30 0.00 0.00 2.52
3227 7446 0.175073 GACCGGCGACCAAGTAGAAT 59.825 55.000 9.30 0.00 0.00 2.40
3229 7448 1.592400 CTGACCGGCGACCAAGTAGA 61.592 60.000 9.30 0.00 0.00 2.59
3230 7449 1.153823 CTGACCGGCGACCAAGTAG 60.154 63.158 9.30 0.00 0.00 2.57
3231 7450 2.642254 CCTGACCGGCGACCAAGTA 61.642 63.158 9.30 0.00 0.00 2.24
3232 7451 4.003788 CCTGACCGGCGACCAAGT 62.004 66.667 9.30 0.00 0.00 3.16
3233 7452 3.934391 GACCTGACCGGCGACCAAG 62.934 68.421 9.30 1.75 35.61 3.61
3242 7540 2.187946 GCCATCCAGACCTGACCG 59.812 66.667 0.00 0.00 0.00 4.79
3269 7730 3.842925 TTGTGGCCAGAACCGGAGC 62.843 63.158 12.06 2.15 0.00 4.70
3276 7737 4.467082 AGCATCAAATATTTGTGGCCAGAA 59.533 37.500 27.42 12.06 38.27 3.02
3314 7778 1.068474 CCCGTCTCAAAGTTAGCACG 58.932 55.000 0.00 0.00 0.00 5.34
3333 7797 7.385478 AGAGAAATCGTAGAGGTTCAGAAAAAC 59.615 37.037 0.00 0.00 43.63 2.43
3347 7811 4.267452 GCTGCTTCTTCAGAGAAATCGTAG 59.733 45.833 0.00 0.00 41.19 3.51
3358 7822 2.879002 TATCTCGGCTGCTTCTTCAG 57.121 50.000 0.00 0.00 37.15 3.02
3401 7865 3.119291 CGTCCTGATCAAGAAAGATCGG 58.881 50.000 0.00 5.92 45.81 4.18


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

AutoCloner maintained by Alex Coulton.