Multiple sequence alignment - TraesCS6B01G268600

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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 TraesCS6B01G268600 chr6B 100.000 1855 0 0 905 2759 482844098 482842244 0.000000e+00 3352.0
1 TraesCS6B01G268600 chr6B 98.190 1271 19 1 905 2175 482807209 482808475 0.000000e+00 2217.0
2 TraesCS6B01G268600 chr6B 88.644 1136 108 6 939 2057 653232600 653233731 0.000000e+00 1363.0
3 TraesCS6B01G268600 chr6B 100.000 485 0 0 1 485 482845002 482844518 0.000000e+00 896.0
4 TraesCS6B01G268600 chr6B 98.945 379 4 0 107 485 482826491 482826113 0.000000e+00 678.0
5 TraesCS6B01G268600 chr6B 99.454 183 1 0 2577 2759 482808324 482808506 1.580000e-87 333.0
6 TraesCS6B01G268600 chr6B 95.775 71 3 0 36 106 171190936 171191006 6.240000e-22 115.0
7 TraesCS6B01G268600 chr1A 98.584 1271 14 2 905 2175 266885987 266887253 0.000000e+00 2244.0
8 TraesCS6B01G268600 chrUn 97.896 1283 14 2 905 2175 289564882 289563601 0.000000e+00 2207.0
9 TraesCS6B01G268600 chrUn 97.275 367 4 2 120 485 460548673 460549034 3.900000e-173 617.0
10 TraesCS6B01G268600 chrUn 95.801 381 10 2 105 485 377222538 377222164 6.530000e-171 610.0
11 TraesCS6B01G268600 chr6A 97.718 1271 20 5 905 2175 73513207 73514468 0.000000e+00 2178.0
12 TraesCS6B01G268600 chr6A 96.804 1283 29 4 905 2175 158421458 158420176 0.000000e+00 2132.0
13 TraesCS6B01G268600 chr6A 96.259 1283 26 6 905 2175 47630986 47632258 0.000000e+00 2084.0
14 TraesCS6B01G268600 chr6A 90.747 1178 82 9 906 2057 33376391 33377567 0.000000e+00 1546.0
15 TraesCS6B01G268600 chr6A 100.000 381 0 0 2186 2566 73515464 73515844 0.000000e+00 704.0
16 TraesCS6B01G268600 chr6A 97.895 380 7 1 106 485 158422419 158422041 0.000000e+00 656.0
17 TraesCS6B01G268600 chr6A 99.454 183 1 0 2577 2759 47632107 47632289 1.580000e-87 333.0
18 TraesCS6B01G268600 chr6A 99.454 183 1 0 2577 2759 73514317 73514499 1.580000e-87 333.0
19 TraesCS6B01G268600 chr6A 98.907 183 2 0 2577 2759 158420327 158420145 7.370000e-86 327.0
20 TraesCS6B01G268600 chr7A 97.194 1283 23 2 905 2175 28239827 28241108 0.000000e+00 2158.0
21 TraesCS6B01G268600 chr7A 98.907 183 2 0 2577 2759 28240957 28241139 7.370000e-86 327.0
22 TraesCS6B01G268600 chr2A 97.662 1155 20 2 905 2059 167356230 167355083 0.000000e+00 1977.0
23 TraesCS6B01G268600 chr2A 90.870 1172 76 10 906 2057 111441817 111442977 0.000000e+00 1543.0
24 TraesCS6B01G268600 chr2A 100.000 381 0 0 2186 2566 70021342 70020962 0.000000e+00 704.0
25 TraesCS6B01G268600 chr2A 96.316 380 7 3 107 485 70025660 70025287 3.900000e-173 617.0
26 TraesCS6B01G268600 chr2A 93.438 381 25 0 2186 2566 111446019 111445639 1.430000e-157 566.0
27 TraesCS6B01G268600 chr2A 93.733 367 22 1 2200 2566 111444035 111444400 1.440000e-152 549.0
28 TraesCS6B01G268600 chr2A 100.000 183 0 0 2577 2759 70023465 70023283 3.400000e-89 339.0
29 TraesCS6B01G268600 chr3A 97.604 1127 14 2 1061 2175 742300333 742301458 0.000000e+00 1919.0
30 TraesCS6B01G268600 chr3A 100.000 62 0 0 45 106 541207482 541207421 6.240000e-22 115.0
31 TraesCS6B01G268600 chr3B 93.248 1170 60 5 906 2057 680330764 680329596 0.000000e+00 1705.0
32 TraesCS6B01G268600 chr3B 98.950 381 4 0 2186 2566 5524138 5523758 0.000000e+00 682.0
33 TraesCS6B01G268600 chr3B 98.163 381 7 0 2186 2566 5524458 5524078 0.000000e+00 665.0
34 TraesCS6B01G268600 chr3B 97.113 381 11 0 2186 2566 5523818 5523438 0.000000e+00 643.0
35 TraesCS6B01G268600 chr2B 90.970 1185 85 7 906 2070 723353291 723352109 0.000000e+00 1576.0
36 TraesCS6B01G268600 chr2B 97.361 379 5 1 107 485 616527988 616527615 8.330000e-180 640.0
37 TraesCS6B01G268600 chr2B 99.454 183 1 0 2577 2759 616525666 616525484 1.580000e-87 333.0
38 TraesCS6B01G268600 chr2B 97.183 71 2 0 36 106 246000347 246000277 1.340000e-23 121.0
39 TraesCS6B01G268600 chr2B 100.000 62 0 0 45 106 160700255 160700194 6.240000e-22 115.0
40 TraesCS6B01G268600 chr5A 98.684 380 5 0 106 485 641774211 641773832 0.000000e+00 675.0
41 TraesCS6B01G268600 chr5A 98.907 183 2 0 2577 2759 641772555 641772373 7.370000e-86 327.0
42 TraesCS6B01G268600 chr7B 98.417 379 6 0 107 485 75060401 75060023 0.000000e+00 667.0
43 TraesCS6B01G268600 chr7B 96.658 389 6 3 99 485 628737682 628738065 8.330000e-180 640.0
44 TraesCS6B01G268600 chr7B 98.777 327 4 0 2186 2512 75054962 75054636 1.420000e-162 582.0
45 TraesCS6B01G268600 chr7B 99.454 183 1 0 2577 2759 75058326 75058144 1.580000e-87 333.0
46 TraesCS6B01G268600 chr7B 99.454 183 0 1 2577 2759 628740233 628740414 5.700000e-87 331.0
47 TraesCS6B01G268600 chr5B 94.459 379 20 1 2189 2566 707463235 707462857 1.420000e-162 582.0
48 TraesCS6B01G268600 chr5B 93.122 378 23 3 2189 2566 707463552 707463178 4.020000e-153 551.0
49 TraesCS6B01G268600 chr4B 95.833 72 3 0 35 106 551231046 551231117 1.740000e-22 117.0
50 TraesCS6B01G268600 chr4B 100.000 62 0 0 45 106 13405251 13405190 6.240000e-22 115.0
51 TraesCS6B01G268600 chr4A 95.775 71 3 0 36 106 594423844 594423914 6.240000e-22 115.0
52 TraesCS6B01G268600 chr4A 94.444 72 4 0 35 106 63803316 63803387 8.080000e-21 111.0
53 TraesCS6B01G268600 chr4A 98.387 62 1 0 45 106 617368679 617368618 2.900000e-20 110.0
54 TraesCS6B01G268600 chr3D 97.297 37 1 0 1 37 354899012 354898976 2.290000e-06 63.9
55 TraesCS6B01G268600 chr3D 96.970 33 1 0 906 938 134859494 134859462 3.840000e-04 56.5
56 TraesCS6B01G268600 chr3D 96.970 33 1 0 906 938 382776117 382776085 3.840000e-04 56.5
57 TraesCS6B01G268600 chr3D 96.970 33 1 0 906 938 451200906 451200938 3.840000e-04 56.5
58 TraesCS6B01G268600 chr2D 96.970 33 1 0 906 938 152653699 152653667 3.840000e-04 56.5


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 TraesCS6B01G268600 chr6B 482842244 482845002 2758 True 2124.000000 3352 100.000000 1 2759 2 chr6B.!!$R2 2758
1 TraesCS6B01G268600 chr6B 653232600 653233731 1131 False 1363.000000 1363 88.644000 939 2057 1 chr6B.!!$F2 1118
2 TraesCS6B01G268600 chr6B 482807209 482808506 1297 False 1275.000000 2217 98.822000 905 2759 2 chr6B.!!$F3 1854
3 TraesCS6B01G268600 chr1A 266885987 266887253 1266 False 2244.000000 2244 98.584000 905 2175 1 chr1A.!!$F1 1270
4 TraesCS6B01G268600 chrUn 289563601 289564882 1281 True 2207.000000 2207 97.896000 905 2175 1 chrUn.!!$R1 1270
5 TraesCS6B01G268600 chr6A 33376391 33377567 1176 False 1546.000000 1546 90.747000 906 2057 1 chr6A.!!$F1 1151
6 TraesCS6B01G268600 chr6A 47630986 47632289 1303 False 1208.500000 2084 97.856500 905 2759 2 chr6A.!!$F2 1854
7 TraesCS6B01G268600 chr6A 73513207 73515844 2637 False 1071.666667 2178 99.057333 905 2759 3 chr6A.!!$F3 1854
8 TraesCS6B01G268600 chr6A 158420145 158422419 2274 True 1038.333333 2132 97.868667 106 2759 3 chr6A.!!$R1 2653
9 TraesCS6B01G268600 chr7A 28239827 28241139 1312 False 1242.500000 2158 98.050500 905 2759 2 chr7A.!!$F1 1854
10 TraesCS6B01G268600 chr2A 167355083 167356230 1147 True 1977.000000 1977 97.662000 905 2059 1 chr2A.!!$R2 1154
11 TraesCS6B01G268600 chr2A 111441817 111444400 2583 False 1046.000000 1543 92.301500 906 2566 2 chr2A.!!$F1 1660
12 TraesCS6B01G268600 chr2A 70020962 70025660 4698 True 553.333333 704 98.772000 107 2759 3 chr2A.!!$R3 2652
13 TraesCS6B01G268600 chr3A 742300333 742301458 1125 False 1919.000000 1919 97.604000 1061 2175 1 chr3A.!!$F1 1114
14 TraesCS6B01G268600 chr3B 680329596 680330764 1168 True 1705.000000 1705 93.248000 906 2057 1 chr3B.!!$R1 1151
15 TraesCS6B01G268600 chr3B 5523438 5524458 1020 True 663.333333 682 98.075333 2186 2566 3 chr3B.!!$R2 380
16 TraesCS6B01G268600 chr2B 723352109 723353291 1182 True 1576.000000 1576 90.970000 906 2070 1 chr2B.!!$R3 1164
17 TraesCS6B01G268600 chr2B 616525484 616527988 2504 True 486.500000 640 98.407500 107 2759 2 chr2B.!!$R4 2652
18 TraesCS6B01G268600 chr5A 641772373 641774211 1838 True 501.000000 675 98.795500 106 2759 2 chr5A.!!$R1 2653
19 TraesCS6B01G268600 chr7B 75054636 75060401 5765 True 527.333333 667 98.882667 107 2759 3 chr7B.!!$R1 2652
20 TraesCS6B01G268600 chr7B 628737682 628740414 2732 False 485.500000 640 98.056000 99 2759 2 chr7B.!!$F1 2660
21 TraesCS6B01G268600 chr5B 707462857 707463552 695 True 566.500000 582 93.790500 2189 2566 2 chr5B.!!$R1 377

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
25 26 0.032678 AGCATCCATCCTTCTACGCG 59.967 55.000 3.53 3.53 0.00 6.01 F
96 97 0.032678 CGATGCATACGGCCTCTCTT 59.967 55.000 0.00 0.00 43.89 2.85 F
1461 2184 1.201647 CCGGAGCAGTTAGTTCTTCGA 59.798 52.381 0.00 0.00 0.00 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1327 2050 2.048127 GACAAGAAGGCGGCGACT 60.048 61.111 10.88 10.88 0.00 4.18 R
1586 3192 2.668632 GGACCACTGGCGGAATCA 59.331 61.111 0.00 0.00 0.00 2.57 R
2511 4156 0.034477 ACCCAGAAAATACTGCCCGG 60.034 55.000 0.00 0.00 36.67 5.73 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
23 24 4.191544 TCAAAAGCATCCATCCTTCTACG 58.808 43.478 0.00 0.00 0.00 3.51
24 25 2.246719 AAGCATCCATCCTTCTACGC 57.753 50.000 0.00 0.00 0.00 4.42
25 26 0.032678 AGCATCCATCCTTCTACGCG 59.967 55.000 3.53 3.53 0.00 6.01
26 27 1.560860 GCATCCATCCTTCTACGCGC 61.561 60.000 5.73 0.00 0.00 6.86
27 28 0.032678 CATCCATCCTTCTACGCGCT 59.967 55.000 5.73 0.00 0.00 5.92
28 29 0.753262 ATCCATCCTTCTACGCGCTT 59.247 50.000 5.73 0.00 0.00 4.68
29 30 0.102481 TCCATCCTTCTACGCGCTTC 59.898 55.000 5.73 0.00 0.00 3.86
30 31 0.876342 CCATCCTTCTACGCGCTTCC 60.876 60.000 5.73 0.00 0.00 3.46
31 32 0.876342 CATCCTTCTACGCGCTTCCC 60.876 60.000 5.73 0.00 0.00 3.97
32 33 2.029307 ATCCTTCTACGCGCTTCCCC 62.029 60.000 5.73 0.00 0.00 4.81
33 34 2.577059 CTTCTACGCGCTTCCCCA 59.423 61.111 5.73 0.00 0.00 4.96
34 35 1.810030 CTTCTACGCGCTTCCCCAC 60.810 63.158 5.73 0.00 0.00 4.61
35 36 2.227089 CTTCTACGCGCTTCCCCACT 62.227 60.000 5.73 0.00 0.00 4.00
36 37 1.823169 TTCTACGCGCTTCCCCACTT 61.823 55.000 5.73 0.00 0.00 3.16
37 38 1.375523 CTACGCGCTTCCCCACTTT 60.376 57.895 5.73 0.00 0.00 2.66
38 39 0.953960 CTACGCGCTTCCCCACTTTT 60.954 55.000 5.73 0.00 0.00 2.27
39 40 0.535553 TACGCGCTTCCCCACTTTTT 60.536 50.000 5.73 0.00 0.00 1.94
68 69 3.878667 GGGATTCCCCGGCCTCTG 61.879 72.222 11.02 0.00 44.02 3.35
69 70 4.570874 GGATTCCCCGGCCTCTGC 62.571 72.222 0.00 0.00 0.00 4.26
70 71 3.797353 GATTCCCCGGCCTCTGCA 61.797 66.667 0.00 0.00 40.13 4.41
71 72 3.099170 ATTCCCCGGCCTCTGCAT 61.099 61.111 0.00 0.00 40.13 3.96
72 73 3.125376 ATTCCCCGGCCTCTGCATC 62.125 63.158 0.00 0.00 40.13 3.91
74 75 4.559063 CCCCGGCCTCTGCATCAG 62.559 72.222 0.00 0.00 40.13 2.90
75 76 3.473647 CCCGGCCTCTGCATCAGA 61.474 66.667 0.00 0.00 38.25 3.27
76 77 2.815945 CCCGGCCTCTGCATCAGAT 61.816 63.158 0.00 0.00 39.92 2.90
77 78 1.301558 CCGGCCTCTGCATCAGATC 60.302 63.158 0.00 0.00 39.92 2.75
78 79 1.664017 CGGCCTCTGCATCAGATCG 60.664 63.158 0.00 0.00 39.92 3.69
79 80 1.744639 GGCCTCTGCATCAGATCGA 59.255 57.895 0.00 0.00 39.92 3.59
80 81 0.321021 GGCCTCTGCATCAGATCGAT 59.679 55.000 0.00 0.00 39.92 3.59
89 90 1.657594 CATCAGATCGATGCATACGGC 59.342 52.381 0.54 9.84 44.95 5.68
90 91 0.038251 TCAGATCGATGCATACGGCC 60.038 55.000 0.54 0.00 43.89 6.13
91 92 0.037882 CAGATCGATGCATACGGCCT 60.038 55.000 0.54 10.93 43.89 5.19
92 93 0.244994 AGATCGATGCATACGGCCTC 59.755 55.000 0.54 11.04 43.89 4.70
93 94 0.244994 GATCGATGCATACGGCCTCT 59.755 55.000 0.54 0.00 43.89 3.69
94 95 0.244994 ATCGATGCATACGGCCTCTC 59.755 55.000 15.33 0.00 43.89 3.20
95 96 0.823769 TCGATGCATACGGCCTCTCT 60.824 55.000 15.33 0.00 43.89 3.10
96 97 0.032678 CGATGCATACGGCCTCTCTT 59.967 55.000 0.00 0.00 43.89 2.85
97 98 1.269723 CGATGCATACGGCCTCTCTTA 59.730 52.381 0.00 0.00 43.89 2.10
98 99 2.094494 CGATGCATACGGCCTCTCTTAT 60.094 50.000 0.00 0.00 43.89 1.73
99 100 3.615110 CGATGCATACGGCCTCTCTTATT 60.615 47.826 0.00 0.00 43.89 1.40
100 101 4.380550 CGATGCATACGGCCTCTCTTATTA 60.381 45.833 0.00 0.00 43.89 0.98
101 102 4.948341 TGCATACGGCCTCTCTTATTAA 57.052 40.909 0.00 0.00 43.89 1.40
102 103 5.284861 TGCATACGGCCTCTCTTATTAAA 57.715 39.130 0.00 0.00 43.89 1.52
103 104 5.054477 TGCATACGGCCTCTCTTATTAAAC 58.946 41.667 0.00 0.00 43.89 2.01
292 293 7.064253 GTCTACGCATTTTCTATTTACTGTGGT 59.936 37.037 0.00 0.00 0.00 4.16
327 329 2.741985 CGCATCGGTGGTCAAGCA 60.742 61.111 0.00 0.00 0.00 3.91
1327 2050 3.733960 CTGACCTCGTCGGCGACA 61.734 66.667 35.62 22.60 42.81 4.35
1461 2184 1.201647 CCGGAGCAGTTAGTTCTTCGA 59.798 52.381 0.00 0.00 0.00 3.71
1605 3211 3.699134 GATTCCGCCAGTGGTCCCC 62.699 68.421 11.74 0.00 0.00 4.81
2329 3974 4.776647 GGCACGTTTGGCGGATGC 62.777 66.667 0.00 0.00 46.52 3.91
2331 3976 3.418913 CACGTTTGGCGGATGCGA 61.419 61.111 12.10 0.00 46.52 5.10
2332 3977 2.666862 ACGTTTGGCGGATGCGAA 60.667 55.556 12.10 0.00 46.52 4.70
2333 3978 2.098298 CGTTTGGCGGATGCGAAG 59.902 61.111 12.10 0.00 44.10 3.79
2346 3991 2.962569 CGAAGCGGAGAGGTGTGA 59.037 61.111 0.00 0.00 0.00 3.58
2347 3992 1.444553 CGAAGCGGAGAGGTGTGAC 60.445 63.158 0.00 0.00 0.00 3.67
2348 3993 1.079750 GAAGCGGAGAGGTGTGACC 60.080 63.158 0.00 0.00 38.99 4.02
2349 3994 2.820767 GAAGCGGAGAGGTGTGACCG 62.821 65.000 0.00 0.00 44.90 4.79
2350 3995 3.371063 GCGGAGAGGTGTGACCGA 61.371 66.667 0.00 0.00 46.94 4.69
2351 3996 2.878429 CGGAGAGGTGTGACCGAG 59.122 66.667 0.00 0.00 46.94 4.63
2352 3997 2.701780 CGGAGAGGTGTGACCGAGG 61.702 68.421 0.00 0.00 46.94 4.63
2353 3998 2.352032 GGAGAGGTGTGACCGAGGG 61.352 68.421 0.00 0.00 44.90 4.30
2354 3999 1.606889 GAGAGGTGTGACCGAGGGT 60.607 63.158 0.00 0.00 44.90 4.34
2368 4013 4.892291 GGGTCCCCTCCGGCCATA 62.892 72.222 2.24 0.00 31.37 2.74
2369 4014 3.557290 GGTCCCCTCCGGCCATAC 61.557 72.222 2.24 0.00 0.00 2.39
2370 4015 3.557290 GTCCCCTCCGGCCATACC 61.557 72.222 2.24 0.00 0.00 2.73
2379 4024 3.914094 GGCCATACCGAAACCACC 58.086 61.111 0.00 0.00 0.00 4.61
2380 4025 1.751544 GGCCATACCGAAACCACCC 60.752 63.158 0.00 0.00 0.00 4.61
2381 4026 1.751544 GCCATACCGAAACCACCCC 60.752 63.158 0.00 0.00 0.00 4.95
2382 4027 1.077285 CCATACCGAAACCACCCCC 60.077 63.158 0.00 0.00 0.00 5.40
2383 4028 1.568118 CCATACCGAAACCACCCCCT 61.568 60.000 0.00 0.00 0.00 4.79
2384 4029 0.330267 CATACCGAAACCACCCCCTT 59.670 55.000 0.00 0.00 0.00 3.95
2385 4030 0.622136 ATACCGAAACCACCCCCTTC 59.378 55.000 0.00 0.00 0.00 3.46
2386 4031 1.491274 TACCGAAACCACCCCCTTCC 61.491 60.000 0.00 0.00 0.00 3.46
2387 4032 2.836187 CCGAAACCACCCCCTTCCA 61.836 63.158 0.00 0.00 0.00 3.53
2388 4033 1.602605 CGAAACCACCCCCTTCCAC 60.603 63.158 0.00 0.00 0.00 4.02
2389 4034 1.539665 GAAACCACCCCCTTCCACA 59.460 57.895 0.00 0.00 0.00 4.17
2390 4035 0.539669 GAAACCACCCCCTTCCACAG 60.540 60.000 0.00 0.00 0.00 3.66
2391 4036 2.656698 AAACCACCCCCTTCCACAGC 62.657 60.000 0.00 0.00 0.00 4.40
2392 4037 3.579302 CCACCCCCTTCCACAGCA 61.579 66.667 0.00 0.00 0.00 4.41
2393 4038 2.520458 CACCCCCTTCCACAGCAA 59.480 61.111 0.00 0.00 0.00 3.91
2394 4039 1.604593 CACCCCCTTCCACAGCAAG 60.605 63.158 0.00 0.00 0.00 4.01
2395 4040 2.084930 ACCCCCTTCCACAGCAAGT 61.085 57.895 0.00 0.00 0.00 3.16
2396 4041 0.770557 ACCCCCTTCCACAGCAAGTA 60.771 55.000 0.00 0.00 0.00 2.24
2397 4042 0.322546 CCCCCTTCCACAGCAAGTAC 60.323 60.000 0.00 0.00 0.00 2.73
2398 4043 0.322546 CCCCTTCCACAGCAAGTACC 60.323 60.000 0.00 0.00 0.00 3.34
2399 4044 0.693049 CCCTTCCACAGCAAGTACCT 59.307 55.000 0.00 0.00 0.00 3.08
2400 4045 1.611673 CCCTTCCACAGCAAGTACCTG 60.612 57.143 0.00 0.00 36.41 4.00
2401 4046 1.347707 CCTTCCACAGCAAGTACCTGA 59.652 52.381 4.82 0.00 34.47 3.86
2402 4047 2.613977 CCTTCCACAGCAAGTACCTGAG 60.614 54.545 4.82 0.00 34.47 3.35
2403 4048 0.321671 TCCACAGCAAGTACCTGAGC 59.678 55.000 4.82 0.00 34.47 4.26
2404 4049 1.016130 CCACAGCAAGTACCTGAGCG 61.016 60.000 4.82 0.00 34.47 5.03
2405 4050 1.016130 CACAGCAAGTACCTGAGCGG 61.016 60.000 4.82 0.86 39.35 5.52
2407 4052 0.320771 CAGCAAGTACCTGAGCGGTT 60.321 55.000 0.00 0.00 46.37 4.44
2408 4053 0.396811 AGCAAGTACCTGAGCGGTTT 59.603 50.000 0.00 0.00 46.37 3.27
2409 4054 0.517316 GCAAGTACCTGAGCGGTTTG 59.483 55.000 0.00 0.00 46.37 2.93
2410 4055 1.876416 GCAAGTACCTGAGCGGTTTGA 60.876 52.381 0.00 0.00 46.37 2.69
2411 4056 1.798813 CAAGTACCTGAGCGGTTTGAC 59.201 52.381 0.00 0.00 46.37 3.18
2412 4057 0.038526 AGTACCTGAGCGGTTTGACG 60.039 55.000 0.00 0.00 46.37 4.35
2413 4058 1.012486 GTACCTGAGCGGTTTGACGG 61.012 60.000 0.00 0.00 46.37 4.79
2414 4059 1.180456 TACCTGAGCGGTTTGACGGA 61.180 55.000 0.00 0.00 46.37 4.69
2415 4060 1.079127 CCTGAGCGGTTTGACGGAT 60.079 57.895 0.00 0.00 0.00 4.18
2416 4061 0.673644 CCTGAGCGGTTTGACGGATT 60.674 55.000 0.00 0.00 0.00 3.01
2417 4062 0.443869 CTGAGCGGTTTGACGGATTG 59.556 55.000 0.00 0.00 0.00 2.67
2418 4063 1.134694 GAGCGGTTTGACGGATTGC 59.865 57.895 0.00 0.00 0.00 3.56
2419 4064 1.573829 GAGCGGTTTGACGGATTGCA 61.574 55.000 0.00 0.00 0.00 4.08
2420 4065 1.442017 GCGGTTTGACGGATTGCAC 60.442 57.895 0.00 0.00 0.00 4.57
2421 4066 1.209127 CGGTTTGACGGATTGCACC 59.791 57.895 0.00 0.00 0.00 5.01
2422 4067 1.584495 GGTTTGACGGATTGCACCC 59.416 57.895 0.00 0.00 0.00 4.61
2423 4068 1.175983 GGTTTGACGGATTGCACCCA 61.176 55.000 5.30 0.00 0.00 4.51
2424 4069 0.671251 GTTTGACGGATTGCACCCAA 59.329 50.000 5.30 0.00 35.01 4.12
2425 4070 0.671251 TTTGACGGATTGCACCCAAC 59.329 50.000 5.30 0.00 32.95 3.77
2426 4071 0.179004 TTGACGGATTGCACCCAACT 60.179 50.000 5.30 0.00 32.95 3.16
2427 4072 0.179004 TGACGGATTGCACCCAACTT 60.179 50.000 5.30 0.00 32.95 2.66
2428 4073 0.521735 GACGGATTGCACCCAACTTC 59.478 55.000 5.30 0.00 32.95 3.01
2429 4074 0.110486 ACGGATTGCACCCAACTTCT 59.890 50.000 5.30 0.00 32.95 2.85
2430 4075 0.523072 CGGATTGCACCCAACTTCTG 59.477 55.000 5.30 0.00 32.95 3.02
2431 4076 0.890683 GGATTGCACCCAACTTCTGG 59.109 55.000 0.00 0.00 45.97 3.86
2438 4083 3.121030 CCAACTTCTGGGAGCGCG 61.121 66.667 0.00 0.00 42.17 6.86
2439 4084 2.357517 CAACTTCTGGGAGCGCGT 60.358 61.111 8.43 0.00 0.00 6.01
2440 4085 2.357517 AACTTCTGGGAGCGCGTG 60.358 61.111 8.43 0.00 0.00 5.34
2441 4086 3.165160 AACTTCTGGGAGCGCGTGT 62.165 57.895 8.43 0.00 0.00 4.49
2442 4087 3.114616 CTTCTGGGAGCGCGTGTG 61.115 66.667 8.43 0.00 0.00 3.82
2443 4088 4.680237 TTCTGGGAGCGCGTGTGG 62.680 66.667 8.43 0.00 0.00 4.17
2473 4118 3.310307 GCACCCCACGGCCAAAAT 61.310 61.111 2.24 0.00 0.00 1.82
2474 4119 2.656055 CACCCCACGGCCAAAATG 59.344 61.111 2.24 0.00 0.00 2.32
2475 4120 1.905843 CACCCCACGGCCAAAATGA 60.906 57.895 2.24 0.00 0.00 2.57
2476 4121 1.152440 ACCCCACGGCCAAAATGAA 60.152 52.632 2.24 0.00 0.00 2.57
2477 4122 1.291906 CCCCACGGCCAAAATGAAC 59.708 57.895 2.24 0.00 0.00 3.18
2478 4123 1.080839 CCCACGGCCAAAATGAACG 60.081 57.895 2.24 0.00 0.00 3.95
2479 4124 1.519751 CCCACGGCCAAAATGAACGA 61.520 55.000 2.24 0.00 0.00 3.85
2480 4125 0.312416 CCACGGCCAAAATGAACGAA 59.688 50.000 2.24 0.00 0.00 3.85
2481 4126 1.269309 CCACGGCCAAAATGAACGAAA 60.269 47.619 2.24 0.00 0.00 3.46
2482 4127 2.609244 CCACGGCCAAAATGAACGAAAT 60.609 45.455 2.24 0.00 0.00 2.17
2483 4128 2.661195 CACGGCCAAAATGAACGAAATC 59.339 45.455 2.24 0.00 0.00 2.17
2484 4129 2.258755 CGGCCAAAATGAACGAAATCC 58.741 47.619 2.24 0.00 0.00 3.01
2485 4130 2.258755 GGCCAAAATGAACGAAATCCG 58.741 47.619 0.00 0.00 45.44 4.18
2486 4131 2.094957 GGCCAAAATGAACGAAATCCGA 60.095 45.455 0.00 0.00 41.76 4.55
2487 4132 2.914838 GCCAAAATGAACGAAATCCGAC 59.085 45.455 0.00 0.00 41.76 4.79
2488 4133 3.610585 GCCAAAATGAACGAAATCCGACA 60.611 43.478 0.00 0.00 41.76 4.35
2489 4134 4.541779 CCAAAATGAACGAAATCCGACAA 58.458 39.130 0.00 0.00 41.76 3.18
2490 4135 4.381566 CCAAAATGAACGAAATCCGACAAC 59.618 41.667 0.00 0.00 41.76 3.32
2491 4136 3.449322 AATGAACGAAATCCGACAACG 57.551 42.857 0.00 0.00 41.76 4.10
2492 4137 2.137129 TGAACGAAATCCGACAACGA 57.863 45.000 0.00 0.00 42.66 3.85
2493 4138 2.471818 TGAACGAAATCCGACAACGAA 58.528 42.857 0.00 0.00 42.66 3.85
2494 4139 2.219216 TGAACGAAATCCGACAACGAAC 59.781 45.455 0.00 0.00 42.66 3.95
2495 4140 0.780002 ACGAAATCCGACAACGAACG 59.220 50.000 0.00 0.00 42.66 3.95
2496 4141 0.515717 CGAAATCCGACAACGAACGC 60.516 55.000 0.00 0.00 42.66 4.84
2497 4142 0.509499 GAAATCCGACAACGAACGCA 59.491 50.000 0.00 0.00 42.66 5.24
2498 4143 0.233848 AAATCCGACAACGAACGCAC 59.766 50.000 0.00 0.00 42.66 5.34
2499 4144 1.882682 AATCCGACAACGAACGCACG 61.883 55.000 0.00 0.48 42.66 5.34
2520 4165 3.740397 CGTCACGTCCGGGCAGTA 61.740 66.667 6.96 0.00 0.00 2.74
2521 4166 2.890371 GTCACGTCCGGGCAGTAT 59.110 61.111 6.96 0.00 0.00 2.12
2522 4167 1.217244 GTCACGTCCGGGCAGTATT 59.783 57.895 6.96 0.00 0.00 1.89
2523 4168 0.390735 GTCACGTCCGGGCAGTATTT 60.391 55.000 6.96 0.00 0.00 1.40
2524 4169 0.322322 TCACGTCCGGGCAGTATTTT 59.678 50.000 6.96 0.00 0.00 1.82
2525 4170 0.725117 CACGTCCGGGCAGTATTTTC 59.275 55.000 6.96 0.00 0.00 2.29
2526 4171 0.611714 ACGTCCGGGCAGTATTTTCT 59.388 50.000 6.96 0.00 0.00 2.52
2527 4172 1.006832 CGTCCGGGCAGTATTTTCTG 58.993 55.000 6.96 0.00 38.35 3.02
2528 4173 1.379527 GTCCGGGCAGTATTTTCTGG 58.620 55.000 0.00 0.00 36.12 3.86
2529 4174 0.254747 TCCGGGCAGTATTTTCTGGG 59.745 55.000 0.00 0.00 36.12 4.45
2530 4175 0.034477 CCGGGCAGTATTTTCTGGGT 60.034 55.000 0.00 0.00 36.12 4.51
2531 4176 1.615919 CCGGGCAGTATTTTCTGGGTT 60.616 52.381 0.00 0.00 36.12 4.11
2532 4177 2.167662 CGGGCAGTATTTTCTGGGTTT 58.832 47.619 0.00 0.00 36.12 3.27
2533 4178 2.560981 CGGGCAGTATTTTCTGGGTTTT 59.439 45.455 0.00 0.00 36.12 2.43
2534 4179 3.366985 CGGGCAGTATTTTCTGGGTTTTC 60.367 47.826 0.00 0.00 36.12 2.29
2535 4180 3.832490 GGGCAGTATTTTCTGGGTTTTCT 59.168 43.478 0.00 0.00 36.12 2.52
2536 4181 4.321974 GGGCAGTATTTTCTGGGTTTTCTG 60.322 45.833 0.00 0.00 36.12 3.02
2537 4182 4.237724 GCAGTATTTTCTGGGTTTTCTGC 58.762 43.478 0.00 0.00 38.76 4.26
2538 4183 4.809673 CAGTATTTTCTGGGTTTTCTGCC 58.190 43.478 0.00 0.00 0.00 4.85
2539 4184 4.524328 CAGTATTTTCTGGGTTTTCTGCCT 59.476 41.667 0.00 0.00 0.00 4.75
2540 4185 4.524328 AGTATTTTCTGGGTTTTCTGCCTG 59.476 41.667 0.00 0.00 0.00 4.85
2541 4186 1.703411 TTTCTGGGTTTTCTGCCTGG 58.297 50.000 0.00 0.00 0.00 4.45
2542 4187 0.850100 TTCTGGGTTTTCTGCCTGGA 59.150 50.000 0.00 0.00 0.00 3.86
2543 4188 0.850100 TCTGGGTTTTCTGCCTGGAA 59.150 50.000 0.00 0.00 0.00 3.53
2544 4189 1.216678 TCTGGGTTTTCTGCCTGGAAA 59.783 47.619 0.00 0.00 33.98 3.13
2545 4190 2.038659 CTGGGTTTTCTGCCTGGAAAA 58.961 47.619 0.00 5.59 41.17 2.29
2546 4191 2.634453 CTGGGTTTTCTGCCTGGAAAAT 59.366 45.455 0.00 0.00 43.85 1.82
2547 4192 2.368221 TGGGTTTTCTGCCTGGAAAATG 59.632 45.455 0.00 0.00 43.85 2.32
2548 4193 2.289631 GGGTTTTCTGCCTGGAAAATGG 60.290 50.000 0.00 0.00 43.85 3.16
2549 4194 2.368548 GGTTTTCTGCCTGGAAAATGGT 59.631 45.455 0.00 0.00 43.85 3.55
2550 4195 3.576550 GGTTTTCTGCCTGGAAAATGGTA 59.423 43.478 0.00 0.00 43.85 3.25
2551 4196 4.321974 GGTTTTCTGCCTGGAAAATGGTAG 60.322 45.833 0.00 0.00 43.85 3.18
2552 4197 4.380843 TTTCTGCCTGGAAAATGGTAGA 57.619 40.909 0.00 0.00 41.96 2.59
2554 4199 4.380843 TCTGCCTGGAAAATGGTAGAAA 57.619 40.909 0.00 0.00 41.01 2.52
2555 4200 4.735369 TCTGCCTGGAAAATGGTAGAAAA 58.265 39.130 0.00 0.00 41.01 2.29
2556 4201 5.332743 TCTGCCTGGAAAATGGTAGAAAAT 58.667 37.500 0.00 0.00 41.01 1.82
2557 4202 5.185635 TCTGCCTGGAAAATGGTAGAAAATG 59.814 40.000 0.00 0.00 41.01 2.32
2558 4203 4.183865 GCCTGGAAAATGGTAGAAAATGC 58.816 43.478 0.00 0.00 0.00 3.56
2559 4204 4.322650 GCCTGGAAAATGGTAGAAAATGCA 60.323 41.667 0.00 0.00 0.00 3.96
2560 4205 5.627503 GCCTGGAAAATGGTAGAAAATGCAT 60.628 40.000 0.00 0.00 0.00 3.96
2561 4206 6.406849 GCCTGGAAAATGGTAGAAAATGCATA 60.407 38.462 0.00 0.00 0.00 3.14
2562 4207 6.980397 CCTGGAAAATGGTAGAAAATGCATAC 59.020 38.462 0.00 0.00 0.00 2.39
2563 4208 6.559810 TGGAAAATGGTAGAAAATGCATACG 58.440 36.000 0.00 0.00 0.00 3.06
2564 4209 5.977129 GGAAAATGGTAGAAAATGCATACGG 59.023 40.000 0.00 0.00 0.00 4.02
2565 4210 6.183360 GGAAAATGGTAGAAAATGCATACGGA 60.183 38.462 0.00 0.00 0.00 4.69
2602 4247 9.509855 GTATGCAATTATCGGAAACACATAAAA 57.490 29.630 0.00 0.00 0.00 1.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.818546 CGTAGAAGGATGGATGCTTTTGAT 59.181 41.667 0.00 0.00 38.63 2.57
2 3 3.242870 GCGTAGAAGGATGGATGCTTTTG 60.243 47.826 0.00 0.00 38.63 2.44
5 6 1.539065 CGCGTAGAAGGATGGATGCTT 60.539 52.381 0.00 0.00 41.35 3.91
7 8 1.560860 GCGCGTAGAAGGATGGATGC 61.561 60.000 8.43 0.00 0.00 3.91
8 9 0.032678 AGCGCGTAGAAGGATGGATG 59.967 55.000 8.43 0.00 0.00 3.51
9 10 0.753262 AAGCGCGTAGAAGGATGGAT 59.247 50.000 8.43 0.00 0.00 3.41
10 11 0.102481 GAAGCGCGTAGAAGGATGGA 59.898 55.000 8.43 0.00 0.00 3.41
11 12 0.876342 GGAAGCGCGTAGAAGGATGG 60.876 60.000 8.43 0.00 0.00 3.51
12 13 0.876342 GGGAAGCGCGTAGAAGGATG 60.876 60.000 8.43 0.00 0.00 3.51
13 14 1.442148 GGGAAGCGCGTAGAAGGAT 59.558 57.895 8.43 0.00 0.00 3.24
14 15 2.718073 GGGGAAGCGCGTAGAAGGA 61.718 63.158 8.43 0.00 0.00 3.36
15 16 2.202892 GGGGAAGCGCGTAGAAGG 60.203 66.667 8.43 0.00 0.00 3.46
16 17 1.810030 GTGGGGAAGCGCGTAGAAG 60.810 63.158 8.43 0.00 0.00 2.85
17 18 1.823169 AAGTGGGGAAGCGCGTAGAA 61.823 55.000 8.43 0.00 0.00 2.10
18 19 1.823169 AAAGTGGGGAAGCGCGTAGA 61.823 55.000 8.43 0.00 0.00 2.59
19 20 0.953960 AAAAGTGGGGAAGCGCGTAG 60.954 55.000 8.43 0.00 0.00 3.51
20 21 0.535553 AAAAAGTGGGGAAGCGCGTA 60.536 50.000 8.43 0.00 0.00 4.42
21 22 1.826487 AAAAAGTGGGGAAGCGCGT 60.826 52.632 8.43 0.00 0.00 6.01
22 23 3.039134 AAAAAGTGGGGAAGCGCG 58.961 55.556 0.00 0.00 0.00 6.86
52 53 4.570874 GCAGAGGCCGGGGAATCC 62.571 72.222 2.18 0.00 0.00 3.01
53 54 3.125376 ATGCAGAGGCCGGGGAATC 62.125 63.158 2.18 0.00 40.13 2.52
54 55 3.099170 ATGCAGAGGCCGGGGAAT 61.099 61.111 2.18 0.00 40.13 3.01
55 56 3.797353 GATGCAGAGGCCGGGGAA 61.797 66.667 2.18 0.00 40.13 3.97
57 58 4.559063 CTGATGCAGAGGCCGGGG 62.559 72.222 2.18 0.00 40.13 5.73
58 59 2.728443 GATCTGATGCAGAGGCCGGG 62.728 65.000 2.18 0.00 44.08 5.73
59 60 1.301558 GATCTGATGCAGAGGCCGG 60.302 63.158 0.00 0.00 44.08 6.13
60 61 1.664017 CGATCTGATGCAGAGGCCG 60.664 63.158 0.00 3.49 44.08 6.13
61 62 0.321021 ATCGATCTGATGCAGAGGCC 59.679 55.000 0.00 0.00 44.08 5.19
62 63 3.910817 ATCGATCTGATGCAGAGGC 57.089 52.632 0.00 0.00 44.08 4.70
70 71 1.404717 GGCCGTATGCATCGATCTGAT 60.405 52.381 16.69 0.00 43.89 2.90
71 72 0.038251 GGCCGTATGCATCGATCTGA 60.038 55.000 16.69 0.00 43.89 3.27
72 73 0.037882 AGGCCGTATGCATCGATCTG 60.038 55.000 16.69 0.00 43.89 2.90
73 74 0.244994 GAGGCCGTATGCATCGATCT 59.755 55.000 16.69 13.27 41.45 2.75
74 75 2.743195 GAGGCCGTATGCATCGATC 58.257 57.895 16.69 9.76 41.45 3.69
75 76 4.996976 GAGGCCGTATGCATCGAT 57.003 55.556 16.69 0.00 41.45 3.59
79 80 5.483685 TTAATAAGAGAGGCCGTATGCAT 57.516 39.130 3.79 3.79 43.89 3.96
80 81 4.948341 TTAATAAGAGAGGCCGTATGCA 57.052 40.909 0.00 0.00 43.89 3.96
81 82 5.054477 TGTTTAATAAGAGAGGCCGTATGC 58.946 41.667 0.00 0.00 40.16 3.14
82 83 6.537301 TGTTGTTTAATAAGAGAGGCCGTATG 59.463 38.462 0.00 0.00 0.00 2.39
83 84 6.537660 GTGTTGTTTAATAAGAGAGGCCGTAT 59.462 38.462 0.00 0.00 0.00 3.06
84 85 5.870978 GTGTTGTTTAATAAGAGAGGCCGTA 59.129 40.000 0.00 0.00 0.00 4.02
85 86 4.694037 GTGTTGTTTAATAAGAGAGGCCGT 59.306 41.667 0.00 0.00 0.00 5.68
86 87 4.935808 AGTGTTGTTTAATAAGAGAGGCCG 59.064 41.667 0.00 0.00 0.00 6.13
87 88 6.655425 AGAAGTGTTGTTTAATAAGAGAGGCC 59.345 38.462 0.00 0.00 0.00 5.19
88 89 7.674471 AGAAGTGTTGTTTAATAAGAGAGGC 57.326 36.000 0.00 0.00 0.00 4.70
89 90 9.495572 AGAAGAAGTGTTGTTTAATAAGAGAGG 57.504 33.333 0.00 0.00 0.00 3.69
92 93 9.798885 CGAAGAAGAAGTGTTGTTTAATAAGAG 57.201 33.333 0.00 0.00 0.00 2.85
93 94 8.770828 CCGAAGAAGAAGTGTTGTTTAATAAGA 58.229 33.333 0.00 0.00 0.00 2.10
94 95 8.557029 ACCGAAGAAGAAGTGTTGTTTAATAAG 58.443 33.333 0.00 0.00 0.00 1.73
95 96 8.441312 ACCGAAGAAGAAGTGTTGTTTAATAA 57.559 30.769 0.00 0.00 0.00 1.40
96 97 8.981647 GTACCGAAGAAGAAGTGTTGTTTAATA 58.018 33.333 0.00 0.00 0.00 0.98
97 98 6.937436 ACCGAAGAAGAAGTGTTGTTTAAT 57.063 33.333 0.00 0.00 0.00 1.40
98 99 6.817641 TGTACCGAAGAAGAAGTGTTGTTTAA 59.182 34.615 0.00 0.00 0.00 1.52
99 100 6.339730 TGTACCGAAGAAGAAGTGTTGTTTA 58.660 36.000 0.00 0.00 0.00 2.01
100 101 5.180271 TGTACCGAAGAAGAAGTGTTGTTT 58.820 37.500 0.00 0.00 0.00 2.83
101 102 4.761975 TGTACCGAAGAAGAAGTGTTGTT 58.238 39.130 0.00 0.00 0.00 2.83
102 103 4.395959 TGTACCGAAGAAGAAGTGTTGT 57.604 40.909 0.00 0.00 0.00 3.32
103 104 4.025145 GGTTGTACCGAAGAAGAAGTGTTG 60.025 45.833 0.00 0.00 0.00 3.33
281 282 3.648339 ACGTACGTCACCACAGTAAAT 57.352 42.857 16.72 0.00 0.00 1.40
313 315 1.374252 GACGTGCTTGACCACCGAT 60.374 57.895 0.00 0.00 32.10 4.18
327 329 2.901813 TGGTTTGACCACCGACGT 59.098 55.556 0.00 0.00 44.79 4.34
1327 2050 2.048127 GACAAGAAGGCGGCGACT 60.048 61.111 10.88 10.88 0.00 4.18
1586 3192 2.668632 GGACCACTGGCGGAATCA 59.331 61.111 0.00 0.00 0.00 2.57
1674 3289 2.782045 CTCGTCGTCGTCGTCGCTA 61.782 63.158 15.28 0.80 44.86 4.26
2307 3952 2.338257 CGCCAAACGTGCCCAATT 59.662 55.556 0.00 0.00 36.87 2.32
2308 3953 3.679738 CCGCCAAACGTGCCCAAT 61.680 61.111 0.00 0.00 41.42 3.16
2309 3954 4.877619 TCCGCCAAACGTGCCCAA 62.878 61.111 0.00 0.00 41.42 4.12
2310 3955 4.652131 ATCCGCCAAACGTGCCCA 62.652 61.111 0.00 0.00 41.42 5.36
2311 3956 4.114997 CATCCGCCAAACGTGCCC 62.115 66.667 0.00 0.00 41.42 5.36
2312 3957 4.776647 GCATCCGCCAAACGTGCC 62.777 66.667 0.00 0.00 37.70 5.01
2314 3959 2.832818 CTTCGCATCCGCCAAACGTG 62.833 60.000 0.00 0.00 41.42 4.49
2315 3960 2.666862 TTCGCATCCGCCAAACGT 60.667 55.556 0.00 0.00 41.42 3.99
2316 3961 2.098298 CTTCGCATCCGCCAAACG 59.902 61.111 0.00 0.00 43.15 3.60
2317 3962 2.202479 GCTTCGCATCCGCCAAAC 60.202 61.111 0.00 0.00 33.11 2.93
2318 3963 3.798650 CGCTTCGCATCCGCCAAA 61.799 61.111 0.00 0.00 33.11 3.28
2322 3967 4.873129 TCTCCGCTTCGCATCCGC 62.873 66.667 0.00 0.00 0.00 5.54
2323 3968 2.656651 CTCTCCGCTTCGCATCCG 60.657 66.667 0.00 0.00 0.00 4.18
2324 3969 2.279784 CCTCTCCGCTTCGCATCC 60.280 66.667 0.00 0.00 0.00 3.51
2325 3970 1.880340 CACCTCTCCGCTTCGCATC 60.880 63.158 0.00 0.00 0.00 3.91
2326 3971 2.185350 CACCTCTCCGCTTCGCAT 59.815 61.111 0.00 0.00 0.00 4.73
2327 3972 3.303135 ACACCTCTCCGCTTCGCA 61.303 61.111 0.00 0.00 0.00 5.10
2328 3973 2.811317 CACACCTCTCCGCTTCGC 60.811 66.667 0.00 0.00 0.00 4.70
2329 3974 1.444553 GTCACACCTCTCCGCTTCG 60.445 63.158 0.00 0.00 0.00 3.79
2330 3975 1.079750 GGTCACACCTCTCCGCTTC 60.080 63.158 0.00 0.00 34.73 3.86
2331 3976 2.932234 CGGTCACACCTCTCCGCTT 61.932 63.158 0.00 0.00 35.66 4.68
2332 3977 3.374402 CGGTCACACCTCTCCGCT 61.374 66.667 0.00 0.00 35.66 5.52
2333 3978 3.343788 CTCGGTCACACCTCTCCGC 62.344 68.421 0.00 0.00 42.28 5.54
2334 3979 2.701780 CCTCGGTCACACCTCTCCG 61.702 68.421 0.00 0.00 43.65 4.63
2335 3980 2.352032 CCCTCGGTCACACCTCTCC 61.352 68.421 0.00 0.00 35.66 3.71
2336 3981 1.606889 ACCCTCGGTCACACCTCTC 60.607 63.158 0.00 0.00 35.66 3.20
2337 3982 2.526628 ACCCTCGGTCACACCTCT 59.473 61.111 0.00 0.00 35.66 3.69
2362 4007 1.751544 GGGTGGTTTCGGTATGGCC 60.752 63.158 0.00 0.00 0.00 5.36
2363 4008 1.751544 GGGGTGGTTTCGGTATGGC 60.752 63.158 0.00 0.00 0.00 4.40
2364 4009 1.077285 GGGGGTGGTTTCGGTATGG 60.077 63.158 0.00 0.00 0.00 2.74
2365 4010 0.330267 AAGGGGGTGGTTTCGGTATG 59.670 55.000 0.00 0.00 0.00 2.39
2366 4011 0.622136 GAAGGGGGTGGTTTCGGTAT 59.378 55.000 0.00 0.00 0.00 2.73
2367 4012 1.491274 GGAAGGGGGTGGTTTCGGTA 61.491 60.000 0.00 0.00 0.00 4.02
2368 4013 2.837326 GGAAGGGGGTGGTTTCGGT 61.837 63.158 0.00 0.00 0.00 4.69
2369 4014 2.035155 GGAAGGGGGTGGTTTCGG 59.965 66.667 0.00 0.00 0.00 4.30
2370 4015 1.602605 GTGGAAGGGGGTGGTTTCG 60.603 63.158 0.00 0.00 0.00 3.46
2371 4016 0.539669 CTGTGGAAGGGGGTGGTTTC 60.540 60.000 0.00 0.00 0.00 2.78
2372 4017 1.541672 CTGTGGAAGGGGGTGGTTT 59.458 57.895 0.00 0.00 0.00 3.27
2373 4018 3.146828 GCTGTGGAAGGGGGTGGTT 62.147 63.158 0.00 0.00 0.00 3.67
2374 4019 3.580319 GCTGTGGAAGGGGGTGGT 61.580 66.667 0.00 0.00 0.00 4.16
2375 4020 3.145473 TTGCTGTGGAAGGGGGTGG 62.145 63.158 0.00 0.00 0.00 4.61
2376 4021 1.604593 CTTGCTGTGGAAGGGGGTG 60.605 63.158 0.00 0.00 0.00 4.61
2377 4022 0.770557 TACTTGCTGTGGAAGGGGGT 60.771 55.000 4.05 0.00 0.00 4.95
2378 4023 0.322546 GTACTTGCTGTGGAAGGGGG 60.323 60.000 4.05 0.00 0.00 5.40
2379 4024 0.322546 GGTACTTGCTGTGGAAGGGG 60.323 60.000 4.05 0.00 0.00 4.79
2380 4025 0.693049 AGGTACTTGCTGTGGAAGGG 59.307 55.000 4.05 0.00 27.25 3.95
2381 4026 1.347707 TCAGGTACTTGCTGTGGAAGG 59.652 52.381 0.00 0.00 34.60 3.46
2382 4027 2.693069 CTCAGGTACTTGCTGTGGAAG 58.307 52.381 0.00 0.00 34.60 3.46
2383 4028 1.270839 GCTCAGGTACTTGCTGTGGAA 60.271 52.381 0.00 0.00 34.60 3.53
2384 4029 0.321671 GCTCAGGTACTTGCTGTGGA 59.678 55.000 0.00 0.00 34.60 4.02
2385 4030 1.016130 CGCTCAGGTACTTGCTGTGG 61.016 60.000 0.00 0.00 34.60 4.17
2386 4031 1.016130 CCGCTCAGGTACTTGCTGTG 61.016 60.000 0.00 2.73 34.60 3.66
2387 4032 1.293498 CCGCTCAGGTACTTGCTGT 59.707 57.895 0.00 0.00 34.60 4.40
2388 4033 4.192000 CCGCTCAGGTACTTGCTG 57.808 61.111 0.00 0.00 34.60 4.41
2398 4043 0.443869 CAATCCGTCAAACCGCTCAG 59.556 55.000 0.00 0.00 0.00 3.35
2399 4044 1.573829 GCAATCCGTCAAACCGCTCA 61.574 55.000 0.00 0.00 0.00 4.26
2400 4045 1.134694 GCAATCCGTCAAACCGCTC 59.865 57.895 0.00 0.00 0.00 5.03
2401 4046 1.599518 TGCAATCCGTCAAACCGCT 60.600 52.632 0.00 0.00 0.00 5.52
2402 4047 1.442017 GTGCAATCCGTCAAACCGC 60.442 57.895 0.00 0.00 0.00 5.68
2403 4048 1.209127 GGTGCAATCCGTCAAACCG 59.791 57.895 0.00 0.00 0.00 4.44
2404 4049 1.175983 TGGGTGCAATCCGTCAAACC 61.176 55.000 0.00 0.00 0.00 3.27
2405 4050 0.671251 TTGGGTGCAATCCGTCAAAC 59.329 50.000 0.00 0.00 0.00 2.93
2406 4051 0.671251 GTTGGGTGCAATCCGTCAAA 59.329 50.000 0.00 0.00 0.00 2.69
2407 4052 0.179004 AGTTGGGTGCAATCCGTCAA 60.179 50.000 0.00 0.00 0.00 3.18
2408 4053 0.179004 AAGTTGGGTGCAATCCGTCA 60.179 50.000 0.00 0.00 0.00 4.35
2409 4054 0.521735 GAAGTTGGGTGCAATCCGTC 59.478 55.000 0.00 0.00 0.00 4.79
2410 4055 0.110486 AGAAGTTGGGTGCAATCCGT 59.890 50.000 0.00 0.00 0.00 4.69
2411 4056 0.523072 CAGAAGTTGGGTGCAATCCG 59.477 55.000 0.00 0.00 0.00 4.18
2412 4057 0.890683 CCAGAAGTTGGGTGCAATCC 59.109 55.000 0.00 0.00 43.75 3.01
2422 4067 2.357517 ACGCGCTCCCAGAAGTTG 60.358 61.111 5.73 0.00 0.00 3.16
2423 4068 2.357517 CACGCGCTCCCAGAAGTT 60.358 61.111 5.73 0.00 0.00 2.66
2424 4069 3.616721 ACACGCGCTCCCAGAAGT 61.617 61.111 5.73 0.00 0.00 3.01
2425 4070 3.114616 CACACGCGCTCCCAGAAG 61.115 66.667 5.73 0.00 0.00 2.85
2426 4071 4.680237 CCACACGCGCTCCCAGAA 62.680 66.667 5.73 0.00 0.00 3.02
2456 4101 3.310307 ATTTTGGCCGTGGGGTGC 61.310 61.111 0.00 0.00 34.97 5.01
2457 4102 1.467678 TTCATTTTGGCCGTGGGGTG 61.468 55.000 0.00 0.00 34.97 4.61
2458 4103 1.152440 TTCATTTTGGCCGTGGGGT 60.152 52.632 0.00 0.00 34.97 4.95
2459 4104 1.291906 GTTCATTTTGGCCGTGGGG 59.708 57.895 0.00 0.00 0.00 4.96
2460 4105 1.080839 CGTTCATTTTGGCCGTGGG 60.081 57.895 0.00 0.00 0.00 4.61
2461 4106 0.312416 TTCGTTCATTTTGGCCGTGG 59.688 50.000 0.00 0.00 0.00 4.94
2462 4107 2.126914 TTTCGTTCATTTTGGCCGTG 57.873 45.000 0.00 0.00 0.00 4.94
2463 4108 2.352323 GGATTTCGTTCATTTTGGCCGT 60.352 45.455 0.00 0.00 0.00 5.68
2464 4109 2.258755 GGATTTCGTTCATTTTGGCCG 58.741 47.619 0.00 0.00 0.00 6.13
2465 4110 2.094957 TCGGATTTCGTTCATTTTGGCC 60.095 45.455 0.00 0.00 40.32 5.36
2466 4111 2.914838 GTCGGATTTCGTTCATTTTGGC 59.085 45.455 0.00 0.00 40.32 4.52
2467 4112 4.153958 TGTCGGATTTCGTTCATTTTGG 57.846 40.909 0.00 0.00 40.32 3.28
2468 4113 4.086524 CGTTGTCGGATTTCGTTCATTTTG 59.913 41.667 0.00 0.00 40.32 2.44
2469 4114 4.024725 TCGTTGTCGGATTTCGTTCATTTT 60.025 37.500 0.00 0.00 40.32 1.82
2470 4115 3.495377 TCGTTGTCGGATTTCGTTCATTT 59.505 39.130 0.00 0.00 40.32 2.32
2471 4116 3.061322 TCGTTGTCGGATTTCGTTCATT 58.939 40.909 0.00 0.00 40.32 2.57
2472 4117 2.679450 TCGTTGTCGGATTTCGTTCAT 58.321 42.857 0.00 0.00 40.32 2.57
2473 4118 2.137129 TCGTTGTCGGATTTCGTTCA 57.863 45.000 0.00 0.00 40.32 3.18
2474 4119 2.716704 CGTTCGTTGTCGGATTTCGTTC 60.717 50.000 0.00 0.00 40.32 3.95
2475 4120 1.190763 CGTTCGTTGTCGGATTTCGTT 59.809 47.619 0.00 0.00 40.32 3.85
2476 4121 0.780002 CGTTCGTTGTCGGATTTCGT 59.220 50.000 0.00 0.00 40.32 3.85
2477 4122 0.515717 GCGTTCGTTGTCGGATTTCG 60.516 55.000 0.00 0.00 40.90 3.46
2478 4123 0.509499 TGCGTTCGTTGTCGGATTTC 59.491 50.000 0.00 0.00 37.69 2.17
2479 4124 0.233848 GTGCGTTCGTTGTCGGATTT 59.766 50.000 0.00 0.00 37.69 2.17
2480 4125 1.857364 GTGCGTTCGTTGTCGGATT 59.143 52.632 0.00 0.00 37.69 3.01
2481 4126 2.369629 CGTGCGTTCGTTGTCGGAT 61.370 57.895 0.00 0.00 37.69 4.18
2482 4127 3.025743 CGTGCGTTCGTTGTCGGA 61.026 61.111 0.00 0.00 37.69 4.55
2483 4128 3.324671 ACGTGCGTTCGTTGTCGG 61.325 61.111 0.00 0.00 41.37 4.79
2503 4148 2.552585 AATACTGCCCGGACGTGACG 62.553 60.000 0.73 2.24 0.00 4.35
2504 4149 0.390735 AAATACTGCCCGGACGTGAC 60.391 55.000 0.73 0.00 0.00 3.67
2505 4150 0.322322 AAAATACTGCCCGGACGTGA 59.678 50.000 0.73 0.00 0.00 4.35
2506 4151 0.725117 GAAAATACTGCCCGGACGTG 59.275 55.000 0.73 0.00 0.00 4.49
2507 4152 0.611714 AGAAAATACTGCCCGGACGT 59.388 50.000 0.73 0.00 0.00 4.34
2508 4153 1.006832 CAGAAAATACTGCCCGGACG 58.993 55.000 0.73 0.00 0.00 4.79
2509 4154 1.379527 CCAGAAAATACTGCCCGGAC 58.620 55.000 0.73 0.00 36.67 4.79
2510 4155 0.254747 CCCAGAAAATACTGCCCGGA 59.745 55.000 0.73 0.00 36.67 5.14
2511 4156 0.034477 ACCCAGAAAATACTGCCCGG 60.034 55.000 0.00 0.00 36.67 5.73
2512 4157 1.834188 AACCCAGAAAATACTGCCCG 58.166 50.000 0.00 0.00 36.67 6.13
2513 4158 3.832490 AGAAAACCCAGAAAATACTGCCC 59.168 43.478 0.00 0.00 36.67 5.36
2514 4159 4.809673 CAGAAAACCCAGAAAATACTGCC 58.190 43.478 0.00 0.00 36.67 4.85
2515 4160 4.237724 GCAGAAAACCCAGAAAATACTGC 58.762 43.478 0.00 0.00 40.55 4.40
2516 4161 4.524328 AGGCAGAAAACCCAGAAAATACTG 59.476 41.667 0.00 0.00 37.61 2.74
2517 4162 4.524328 CAGGCAGAAAACCCAGAAAATACT 59.476 41.667 0.00 0.00 0.00 2.12
2518 4163 4.321974 CCAGGCAGAAAACCCAGAAAATAC 60.322 45.833 0.00 0.00 0.00 1.89
2519 4164 3.831911 CCAGGCAGAAAACCCAGAAAATA 59.168 43.478 0.00 0.00 0.00 1.40
2520 4165 2.634453 CCAGGCAGAAAACCCAGAAAAT 59.366 45.455 0.00 0.00 0.00 1.82
2521 4166 2.038659 CCAGGCAGAAAACCCAGAAAA 58.961 47.619 0.00 0.00 0.00 2.29
2522 4167 1.216678 TCCAGGCAGAAAACCCAGAAA 59.783 47.619 0.00 0.00 0.00 2.52
2523 4168 0.850100 TCCAGGCAGAAAACCCAGAA 59.150 50.000 0.00 0.00 0.00 3.02
2524 4169 0.850100 TTCCAGGCAGAAAACCCAGA 59.150 50.000 0.00 0.00 0.00 3.86
2525 4170 1.703411 TTTCCAGGCAGAAAACCCAG 58.297 50.000 0.77 0.00 32.90 4.45
2526 4171 2.166907 TTTTCCAGGCAGAAAACCCA 57.833 45.000 10.34 0.00 40.04 4.51
2527 4172 2.289631 CCATTTTCCAGGCAGAAAACCC 60.290 50.000 15.03 0.00 45.72 4.11
2528 4173 2.368548 ACCATTTTCCAGGCAGAAAACC 59.631 45.455 15.03 0.00 45.72 3.27
2529 4174 3.751479 ACCATTTTCCAGGCAGAAAAC 57.249 42.857 15.03 0.00 45.72 2.43
2530 4175 4.735369 TCTACCATTTTCCAGGCAGAAAA 58.265 39.130 15.06 15.06 46.63 2.29
2531 4176 4.380843 TCTACCATTTTCCAGGCAGAAA 57.619 40.909 0.00 0.00 33.98 2.52
2532 4177 4.380843 TTCTACCATTTTCCAGGCAGAA 57.619 40.909 0.00 0.00 35.46 3.02
2533 4178 4.380843 TTTCTACCATTTTCCAGGCAGA 57.619 40.909 0.00 0.00 0.00 4.26
2534 4179 5.413499 CATTTTCTACCATTTTCCAGGCAG 58.587 41.667 0.00 0.00 0.00 4.85
2535 4180 4.322650 GCATTTTCTACCATTTTCCAGGCA 60.323 41.667 0.00 0.00 0.00 4.75
2536 4181 4.183865 GCATTTTCTACCATTTTCCAGGC 58.816 43.478 0.00 0.00 0.00 4.85
2537 4182 5.404466 TGCATTTTCTACCATTTTCCAGG 57.596 39.130 0.00 0.00 0.00 4.45
2538 4183 6.692681 CGTATGCATTTTCTACCATTTTCCAG 59.307 38.462 3.54 0.00 0.00 3.86
2539 4184 6.405286 CCGTATGCATTTTCTACCATTTTCCA 60.405 38.462 3.54 0.00 0.00 3.53
2540 4185 5.977129 CCGTATGCATTTTCTACCATTTTCC 59.023 40.000 3.54 0.00 0.00 3.13
2541 4186 6.791303 TCCGTATGCATTTTCTACCATTTTC 58.209 36.000 3.54 0.00 0.00 2.29
2542 4187 6.767524 TCCGTATGCATTTTCTACCATTTT 57.232 33.333 3.54 0.00 0.00 1.82
2576 4221 9.509855 TTTTATGTGTTTCCGATAATTGCATAC 57.490 29.630 0.00 0.00 0.00 2.39


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

AutoCloner maintained by Alex Coulton.