Multiple sequence alignment - TraesCS7B01G137100

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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 TraesCS7B01G137100 chr7B 100.000 2852 0 0 1 2852 169297729 169300580 0.000000e+00 5267
1 TraesCS7B01G137100 chr7B 98.643 2431 11 4 441 2852 446152841 446155268 0.000000e+00 4287
2 TraesCS7B01G137100 chr7B 98.396 2431 12 3 438 2852 245983999 245986418 0.000000e+00 4248
3 TraesCS7B01G137100 chr7B 97.859 2429 30 3 440 2852 582235321 582237743 0.000000e+00 4178
4 TraesCS7B01G137100 chr7B 97.656 2432 25 4 438 2852 156960751 156963167 0.000000e+00 4146
5 TraesCS7B01G137100 chr7B 97.653 2429 11 3 440 2852 263144461 263142063 0.000000e+00 4128
6 TraesCS7B01G137100 chr7B 98.705 2239 10 2 630 2852 446171847 446174082 0.000000e+00 3956
7 TraesCS7B01G137100 chr5B 98.558 2428 13 2 441 2852 513600268 513602689 0.000000e+00 4270
8 TraesCS7B01G137100 chr5B 94.304 1264 14 11 439 1702 105693368 105692163 0.000000e+00 1882
9 TraesCS7B01G137100 chr4A 98.437 2431 19 2 441 2852 535873667 535871237 0.000000e+00 4261
10 TraesCS7B01G137100 chr4A 97.818 2429 12 3 440 2852 35615016 35612613 0.000000e+00 4154
11 TraesCS7B01G137100 chr2A 97.860 2430 27 5 439 2852 568410551 568408131 0.000000e+00 4176
12 TraesCS7B01G137100 chr2A 97.614 2431 16 4 441 2852 61657794 61660201 0.000000e+00 4130
13 TraesCS7B01G137100 chr4B 97.570 2428 30 4 441 2852 15939349 15936935 0.000000e+00 4130
14 TraesCS7B01G137100 chr7A 97.488 2428 9 3 441 2852 204164365 204166756 0.000000e+00 4098
15 TraesCS7B01G137100 chr7A 96.423 2432 9 6 438 2852 462962318 462964688 0.000000e+00 3938
16 TraesCS7B01G137100 chr7A 98.689 1830 8 1 1039 2852 424544001 424542172 0.000000e+00 3232
17 TraesCS7B01G137100 chr7A 96.840 443 7 1 6 441 216833441 216833883 0.000000e+00 734
18 TraesCS7B01G137100 chr6B 97.722 2239 11 7 630 2852 417231859 417234073 0.000000e+00 3816
19 TraesCS7B01G137100 chr6B 92.105 418 24 4 32 441 131121325 131120909 5.300000e-162 580
20 TraesCS7B01G137100 chr1A 98.861 2020 7 1 849 2852 252511204 252509185 0.000000e+00 3589
21 TraesCS7B01G137100 chr3B 91.278 1651 62 27 441 2073 780336913 780335327 0.000000e+00 2176
22 TraesCS7B01G137100 chr3B 82.932 498 39 25 441 919 780311969 780311499 9.510000e-110 407
23 TraesCS7B01G137100 chr3B 93.750 224 8 4 440 660 366143301 366143521 5.890000e-87 331
24 TraesCS7B01G137100 chr7D 98.624 436 6 0 6 441 204873322 204873757 0.000000e+00 773
25 TraesCS7B01G137100 chr6A 91.216 444 22 7 6 441 73664867 73664433 3.170000e-164 588


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 TraesCS7B01G137100 chr7B 169297729 169300580 2851 False 5267 5267 100.000 1 2852 1 chr7B.!!$F2 2851
1 TraesCS7B01G137100 chr7B 446152841 446155268 2427 False 4287 4287 98.643 441 2852 1 chr7B.!!$F4 2411
2 TraesCS7B01G137100 chr7B 245983999 245986418 2419 False 4248 4248 98.396 438 2852 1 chr7B.!!$F3 2414
3 TraesCS7B01G137100 chr7B 582235321 582237743 2422 False 4178 4178 97.859 440 2852 1 chr7B.!!$F6 2412
4 TraesCS7B01G137100 chr7B 156960751 156963167 2416 False 4146 4146 97.656 438 2852 1 chr7B.!!$F1 2414
5 TraesCS7B01G137100 chr7B 263142063 263144461 2398 True 4128 4128 97.653 440 2852 1 chr7B.!!$R1 2412
6 TraesCS7B01G137100 chr7B 446171847 446174082 2235 False 3956 3956 98.705 630 2852 1 chr7B.!!$F5 2222
7 TraesCS7B01G137100 chr5B 513600268 513602689 2421 False 4270 4270 98.558 441 2852 1 chr5B.!!$F1 2411
8 TraesCS7B01G137100 chr5B 105692163 105693368 1205 True 1882 1882 94.304 439 1702 1 chr5B.!!$R1 1263
9 TraesCS7B01G137100 chr4A 535871237 535873667 2430 True 4261 4261 98.437 441 2852 1 chr4A.!!$R2 2411
10 TraesCS7B01G137100 chr4A 35612613 35615016 2403 True 4154 4154 97.818 440 2852 1 chr4A.!!$R1 2412
11 TraesCS7B01G137100 chr2A 568408131 568410551 2420 True 4176 4176 97.860 439 2852 1 chr2A.!!$R1 2413
12 TraesCS7B01G137100 chr2A 61657794 61660201 2407 False 4130 4130 97.614 441 2852 1 chr2A.!!$F1 2411
13 TraesCS7B01G137100 chr4B 15936935 15939349 2414 True 4130 4130 97.570 441 2852 1 chr4B.!!$R1 2411
14 TraesCS7B01G137100 chr7A 204164365 204166756 2391 False 4098 4098 97.488 441 2852 1 chr7A.!!$F1 2411
15 TraesCS7B01G137100 chr7A 462962318 462964688 2370 False 3938 3938 96.423 438 2852 1 chr7A.!!$F3 2414
16 TraesCS7B01G137100 chr7A 424542172 424544001 1829 True 3232 3232 98.689 1039 2852 1 chr7A.!!$R1 1813
17 TraesCS7B01G137100 chr6B 417231859 417234073 2214 False 3816 3816 97.722 630 2852 1 chr6B.!!$F1 2222
18 TraesCS7B01G137100 chr1A 252509185 252511204 2019 True 3589 3589 98.861 849 2852 1 chr1A.!!$R1 2003
19 TraesCS7B01G137100 chr3B 780335327 780336913 1586 True 2176 2176 91.278 441 2073 1 chr3B.!!$R2 1632

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
24 25 0.041238 CTCCTCCTCCCCAGTGTGTA 59.959 60.0 0.0 0.0 0.0 2.9 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2023 2153 1.367471 CCAGACGTCTGACCAGCAA 59.633 57.895 40.21 0.0 46.59 3.91 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
17 18 2.955246 AGCCTCTCCTCCTCCCCA 60.955 66.667 0.00 0.00 0.00 4.96
18 19 2.445654 GCCTCTCCTCCTCCCCAG 60.446 72.222 0.00 0.00 0.00 4.45
19 20 3.114390 CCTCTCCTCCTCCCCAGT 58.886 66.667 0.00 0.00 0.00 4.00
20 21 1.382420 CCTCTCCTCCTCCCCAGTG 60.382 68.421 0.00 0.00 0.00 3.66
21 22 1.390125 CTCTCCTCCTCCCCAGTGT 59.610 63.158 0.00 0.00 0.00 3.55
22 23 0.975040 CTCTCCTCCTCCCCAGTGTG 60.975 65.000 0.00 0.00 0.00 3.82
23 24 1.229336 CTCCTCCTCCCCAGTGTGT 60.229 63.158 0.00 0.00 0.00 3.72
24 25 0.041238 CTCCTCCTCCCCAGTGTGTA 59.959 60.000 0.00 0.00 0.00 2.90
25 26 0.490017 TCCTCCTCCCCAGTGTGTAA 59.510 55.000 0.00 0.00 0.00 2.41
26 27 1.080498 TCCTCCTCCCCAGTGTGTAAT 59.920 52.381 0.00 0.00 0.00 1.89
27 28 2.316677 TCCTCCTCCCCAGTGTGTAATA 59.683 50.000 0.00 0.00 0.00 0.98
28 29 3.112263 CCTCCTCCCCAGTGTGTAATAA 58.888 50.000 0.00 0.00 0.00 1.40
29 30 3.521937 CCTCCTCCCCAGTGTGTAATAAA 59.478 47.826 0.00 0.00 0.00 1.40
30 31 4.514401 CTCCTCCCCAGTGTGTAATAAAC 58.486 47.826 0.00 0.00 0.00 2.01
31 32 4.172807 TCCTCCCCAGTGTGTAATAAACT 58.827 43.478 0.00 0.00 0.00 2.66
32 33 5.343715 TCCTCCCCAGTGTGTAATAAACTA 58.656 41.667 0.00 0.00 0.00 2.24
33 34 5.786457 TCCTCCCCAGTGTGTAATAAACTAA 59.214 40.000 0.00 0.00 0.00 2.24
34 35 6.445786 TCCTCCCCAGTGTGTAATAAACTAAT 59.554 38.462 0.00 0.00 0.00 1.73
35 36 7.624478 TCCTCCCCAGTGTGTAATAAACTAATA 59.376 37.037 0.00 0.00 0.00 0.98
36 37 8.269317 CCTCCCCAGTGTGTAATAAACTAATAA 58.731 37.037 0.00 0.00 0.00 1.40
37 38 9.847224 CTCCCCAGTGTGTAATAAACTAATAAT 57.153 33.333 0.00 0.00 0.00 1.28
38 39 9.621629 TCCCCAGTGTGTAATAAACTAATAATG 57.378 33.333 0.00 0.00 0.00 1.90
39 40 8.349983 CCCCAGTGTGTAATAAACTAATAATGC 58.650 37.037 0.00 0.00 0.00 3.56
40 41 9.120538 CCCAGTGTGTAATAAACTAATAATGCT 57.879 33.333 0.00 0.00 0.00 3.79
41 42 9.935682 CCAGTGTGTAATAAACTAATAATGCTG 57.064 33.333 0.00 0.00 0.00 4.41
42 43 9.438291 CAGTGTGTAATAAACTAATAATGCTGC 57.562 33.333 0.00 0.00 0.00 5.25
43 44 9.173021 AGTGTGTAATAAACTAATAATGCTGCA 57.827 29.630 4.13 4.13 0.00 4.41
44 45 9.781834 GTGTGTAATAAACTAATAATGCTGCAA 57.218 29.630 6.36 0.00 0.00 4.08
52 53 8.915871 AAACTAATAATGCTGCAATAGTTGTG 57.084 30.769 22.46 10.41 34.73 3.33
53 54 6.498304 ACTAATAATGCTGCAATAGTTGTGC 58.502 36.000 6.36 0.00 42.55 4.57
54 55 5.587388 AATAATGCTGCAATAGTTGTGCT 57.413 34.783 6.36 0.00 42.69 4.40
55 56 3.498927 AATGCTGCAATAGTTGTGCTC 57.501 42.857 6.36 0.00 42.69 4.26
56 57 1.894881 TGCTGCAATAGTTGTGCTCA 58.105 45.000 0.00 0.00 42.69 4.26
57 58 2.439409 TGCTGCAATAGTTGTGCTCAT 58.561 42.857 0.00 0.00 42.69 2.90
58 59 3.608796 TGCTGCAATAGTTGTGCTCATA 58.391 40.909 0.00 0.00 42.69 2.15
59 60 4.009002 TGCTGCAATAGTTGTGCTCATAA 58.991 39.130 0.00 0.00 42.69 1.90
60 61 4.142622 TGCTGCAATAGTTGTGCTCATAAC 60.143 41.667 0.00 1.89 42.69 1.89
61 62 4.142622 GCTGCAATAGTTGTGCTCATAACA 60.143 41.667 11.15 0.08 42.69 2.41
62 63 5.449588 GCTGCAATAGTTGTGCTCATAACAT 60.450 40.000 11.15 2.03 42.69 2.71
63 64 5.882553 TGCAATAGTTGTGCTCATAACATG 58.117 37.500 11.15 0.00 42.69 3.21
64 65 5.415389 TGCAATAGTTGTGCTCATAACATGT 59.585 36.000 11.15 0.00 42.69 3.21
65 66 6.072008 TGCAATAGTTGTGCTCATAACATGTT 60.072 34.615 16.68 16.68 42.69 2.71
66 67 6.470235 GCAATAGTTGTGCTCATAACATGTTC 59.530 38.462 15.85 0.34 39.00 3.18
67 68 7.627088 GCAATAGTTGTGCTCATAACATGTTCT 60.627 37.037 15.85 1.74 39.00 3.01
68 69 8.882736 CAATAGTTGTGCTCATAACATGTTCTA 58.117 33.333 15.85 6.57 35.27 2.10
69 70 9.448438 AATAGTTGTGCTCATAACATGTTCTAA 57.552 29.630 15.85 0.00 35.27 2.10
70 71 7.928307 AGTTGTGCTCATAACATGTTCTAAT 57.072 32.000 15.85 0.00 35.27 1.73
72 73 9.618890 AGTTGTGCTCATAACATGTTCTAATAT 57.381 29.630 15.85 0.00 35.27 1.28
103 104 9.748708 TGAAATTCTGTTGAAGTAGGAAATTTG 57.251 29.630 0.00 0.00 35.44 2.32
104 105 9.750125 GAAATTCTGTTGAAGTAGGAAATTTGT 57.250 29.630 0.00 0.00 35.44 2.83
105 106 9.750125 AAATTCTGTTGAAGTAGGAAATTTGTC 57.250 29.630 0.00 0.00 35.44 3.18
106 107 6.539649 TCTGTTGAAGTAGGAAATTTGTCG 57.460 37.500 0.00 0.00 0.00 4.35
107 108 6.285224 TCTGTTGAAGTAGGAAATTTGTCGA 58.715 36.000 0.00 0.00 0.00 4.20
108 109 6.764085 TCTGTTGAAGTAGGAAATTTGTCGAA 59.236 34.615 0.00 0.00 0.00 3.71
109 110 7.281324 TCTGTTGAAGTAGGAAATTTGTCGAAA 59.719 33.333 0.00 0.00 0.00 3.46
110 111 7.936584 TGTTGAAGTAGGAAATTTGTCGAAAT 58.063 30.769 0.00 0.00 32.87 2.17
111 112 9.058174 TGTTGAAGTAGGAAATTTGTCGAAATA 57.942 29.630 0.00 0.00 31.18 1.40
112 113 9.543018 GTTGAAGTAGGAAATTTGTCGAAATAG 57.457 33.333 0.00 0.00 31.18 1.73
113 114 8.263940 TGAAGTAGGAAATTTGTCGAAATAGG 57.736 34.615 0.00 0.00 31.18 2.57
114 115 6.679327 AGTAGGAAATTTGTCGAAATAGGC 57.321 37.500 0.00 0.00 31.18 3.93
115 116 4.983671 AGGAAATTTGTCGAAATAGGCC 57.016 40.909 0.00 0.00 31.18 5.19
116 117 3.377172 AGGAAATTTGTCGAAATAGGCCG 59.623 43.478 0.00 0.00 31.18 6.13
117 118 3.375922 GGAAATTTGTCGAAATAGGCCGA 59.624 43.478 0.00 0.00 31.18 5.54
163 164 9.730705 AATATTTGTGTATACCATCATGAGAGG 57.269 33.333 13.85 13.85 0.00 3.69
164 165 6.806668 TTTGTGTATACCATCATGAGAGGA 57.193 37.500 20.48 3.22 0.00 3.71
165 166 7.379059 TTTGTGTATACCATCATGAGAGGAT 57.621 36.000 20.48 10.18 0.00 3.24
166 167 6.596309 TGTGTATACCATCATGAGAGGATC 57.404 41.667 20.48 9.75 0.00 3.36
198 199 9.851686 ATTTTATATGATTACTGCAGAGTTGGA 57.148 29.630 23.35 0.00 33.21 3.53
199 200 9.679661 TTTTATATGATTACTGCAGAGTTGGAA 57.320 29.630 23.35 4.66 33.21 3.53
200 201 8.662781 TTATATGATTACTGCAGAGTTGGAAC 57.337 34.615 23.35 3.89 33.21 3.62
201 202 4.350368 TGATTACTGCAGAGTTGGAACA 57.650 40.909 23.35 6.43 33.21 3.18
202 203 4.318332 TGATTACTGCAGAGTTGGAACAG 58.682 43.478 23.35 0.00 42.39 3.16
203 204 2.839486 TACTGCAGAGTTGGAACAGG 57.161 50.000 23.35 0.00 42.39 4.00
204 205 0.109342 ACTGCAGAGTTGGAACAGGG 59.891 55.000 23.35 0.00 42.39 4.45
205 206 0.397941 CTGCAGAGTTGGAACAGGGA 59.602 55.000 8.42 0.00 42.39 4.20
206 207 0.397941 TGCAGAGTTGGAACAGGGAG 59.602 55.000 0.00 0.00 42.39 4.30
207 208 0.687354 GCAGAGTTGGAACAGGGAGA 59.313 55.000 0.00 0.00 42.39 3.71
208 209 1.072331 GCAGAGTTGGAACAGGGAGAA 59.928 52.381 0.00 0.00 42.39 2.87
209 210 2.873649 GCAGAGTTGGAACAGGGAGAAG 60.874 54.545 0.00 0.00 42.39 2.85
210 211 1.349357 AGAGTTGGAACAGGGAGAAGC 59.651 52.381 0.00 0.00 42.39 3.86
211 212 1.072331 GAGTTGGAACAGGGAGAAGCA 59.928 52.381 0.00 0.00 42.39 3.91
212 213 1.707427 AGTTGGAACAGGGAGAAGCAT 59.293 47.619 0.00 0.00 42.39 3.79
213 214 2.108952 AGTTGGAACAGGGAGAAGCATT 59.891 45.455 0.00 0.00 42.39 3.56
214 215 3.330701 AGTTGGAACAGGGAGAAGCATTA 59.669 43.478 0.00 0.00 42.39 1.90
215 216 4.079253 GTTGGAACAGGGAGAAGCATTAA 58.921 43.478 0.00 0.00 42.39 1.40
216 217 3.955471 TGGAACAGGGAGAAGCATTAAG 58.045 45.455 0.00 0.00 0.00 1.85
217 218 3.587061 TGGAACAGGGAGAAGCATTAAGA 59.413 43.478 0.00 0.00 0.00 2.10
218 219 4.228210 TGGAACAGGGAGAAGCATTAAGAT 59.772 41.667 0.00 0.00 0.00 2.40
219 220 5.428457 TGGAACAGGGAGAAGCATTAAGATA 59.572 40.000 0.00 0.00 0.00 1.98
220 221 6.101734 TGGAACAGGGAGAAGCATTAAGATAT 59.898 38.462 0.00 0.00 0.00 1.63
221 222 6.652900 GGAACAGGGAGAAGCATTAAGATATC 59.347 42.308 0.00 0.00 0.00 1.63
222 223 7.385894 AACAGGGAGAAGCATTAAGATATCT 57.614 36.000 0.00 0.00 0.00 1.98
223 224 7.385894 ACAGGGAGAAGCATTAAGATATCTT 57.614 36.000 21.28 21.28 39.85 2.40
224 225 7.810260 ACAGGGAGAAGCATTAAGATATCTTT 58.190 34.615 22.60 4.04 37.40 2.52
225 226 7.936301 ACAGGGAGAAGCATTAAGATATCTTTC 59.064 37.037 22.60 12.86 37.40 2.62
226 227 7.117523 CAGGGAGAAGCATTAAGATATCTTTCG 59.882 40.741 22.60 12.44 37.40 3.46
227 228 7.015682 AGGGAGAAGCATTAAGATATCTTTCGA 59.984 37.037 22.60 10.19 37.40 3.71
228 229 7.330700 GGGAGAAGCATTAAGATATCTTTCGAG 59.669 40.741 22.60 11.67 37.40 4.04
229 230 8.085296 GGAGAAGCATTAAGATATCTTTCGAGA 58.915 37.037 22.60 1.99 37.40 4.04
230 231 9.638239 GAGAAGCATTAAGATATCTTTCGAGAT 57.362 33.333 22.60 7.42 37.40 2.75
231 232 9.421806 AGAAGCATTAAGATATCTTTCGAGATG 57.578 33.333 22.60 17.45 37.40 2.90
232 233 8.545229 AAGCATTAAGATATCTTTCGAGATGG 57.455 34.615 22.60 6.31 37.40 3.51
233 234 6.593382 AGCATTAAGATATCTTTCGAGATGGC 59.407 38.462 22.60 14.19 37.40 4.40
234 235 6.593382 GCATTAAGATATCTTTCGAGATGGCT 59.407 38.462 22.60 0.00 37.40 4.75
235 236 7.118971 GCATTAAGATATCTTTCGAGATGGCTT 59.881 37.037 22.60 0.00 37.40 4.35
236 237 8.655092 CATTAAGATATCTTTCGAGATGGCTTC 58.345 37.037 22.60 0.00 37.40 3.86
237 238 5.798125 AGATATCTTTCGAGATGGCTTCA 57.202 39.130 0.00 0.00 0.00 3.02
238 239 5.782047 AGATATCTTTCGAGATGGCTTCAG 58.218 41.667 0.00 0.00 0.00 3.02
239 240 5.538053 AGATATCTTTCGAGATGGCTTCAGA 59.462 40.000 0.00 0.00 0.00 3.27
240 241 3.961480 TCTTTCGAGATGGCTTCAGAA 57.039 42.857 3.03 5.40 0.00 3.02
241 242 4.478206 TCTTTCGAGATGGCTTCAGAAT 57.522 40.909 3.03 0.00 0.00 2.40
242 243 4.437239 TCTTTCGAGATGGCTTCAGAATC 58.563 43.478 3.03 0.00 0.00 2.52
243 244 3.893326 TTCGAGATGGCTTCAGAATCA 57.107 42.857 3.03 0.00 0.00 2.57
244 245 4.412796 TTCGAGATGGCTTCAGAATCAT 57.587 40.909 3.03 0.26 0.00 2.45
245 246 3.987547 TCGAGATGGCTTCAGAATCATC 58.012 45.455 14.31 14.31 37.02 2.92
246 247 3.065655 CGAGATGGCTTCAGAATCATCC 58.934 50.000 16.80 10.90 37.35 3.51
247 248 3.493873 CGAGATGGCTTCAGAATCATCCA 60.494 47.826 16.80 8.62 37.35 3.41
248 249 4.458397 GAGATGGCTTCAGAATCATCCAA 58.542 43.478 16.80 0.00 37.35 3.53
249 250 4.863548 AGATGGCTTCAGAATCATCCAAA 58.136 39.130 16.80 0.00 37.35 3.28
250 251 4.888239 AGATGGCTTCAGAATCATCCAAAG 59.112 41.667 16.80 0.00 37.35 2.77
251 252 4.038271 TGGCTTCAGAATCATCCAAAGT 57.962 40.909 0.00 0.00 0.00 2.66
252 253 5.178096 TGGCTTCAGAATCATCCAAAGTA 57.822 39.130 0.00 0.00 0.00 2.24
253 254 5.759059 TGGCTTCAGAATCATCCAAAGTAT 58.241 37.500 0.00 0.00 0.00 2.12
254 255 5.591472 TGGCTTCAGAATCATCCAAAGTATG 59.409 40.000 0.00 0.00 0.00 2.39
265 266 1.576356 CAAAGTATGGAGCTCTCGCC 58.424 55.000 14.64 0.00 36.60 5.54
266 267 0.103208 AAAGTATGGAGCTCTCGCCG 59.897 55.000 14.64 0.00 34.60 6.46
267 268 2.355244 GTATGGAGCTCTCGCCGC 60.355 66.667 14.64 0.00 34.60 6.53
268 269 2.519541 TATGGAGCTCTCGCCGCT 60.520 61.111 14.64 0.00 41.15 5.52
280 281 4.660938 GCCGCTCCCCACCAAACT 62.661 66.667 0.00 0.00 0.00 2.66
281 282 2.672996 CCGCTCCCCACCAAACTG 60.673 66.667 0.00 0.00 0.00 3.16
282 283 2.429930 CGCTCCCCACCAAACTGA 59.570 61.111 0.00 0.00 0.00 3.41
283 284 1.002134 CGCTCCCCACCAAACTGAT 60.002 57.895 0.00 0.00 0.00 2.90
284 285 0.609131 CGCTCCCCACCAAACTGATT 60.609 55.000 0.00 0.00 0.00 2.57
285 286 1.177401 GCTCCCCACCAAACTGATTC 58.823 55.000 0.00 0.00 0.00 2.52
286 287 1.547675 GCTCCCCACCAAACTGATTCA 60.548 52.381 0.00 0.00 0.00 2.57
287 288 2.162681 CTCCCCACCAAACTGATTCAC 58.837 52.381 0.00 0.00 0.00 3.18
288 289 1.203001 TCCCCACCAAACTGATTCACC 60.203 52.381 0.00 0.00 0.00 4.02
289 290 1.480312 CCCCACCAAACTGATTCACCA 60.480 52.381 0.00 0.00 0.00 4.17
290 291 2.528564 CCCACCAAACTGATTCACCAT 58.471 47.619 0.00 0.00 0.00 3.55
291 292 3.563261 CCCCACCAAACTGATTCACCATA 60.563 47.826 0.00 0.00 0.00 2.74
292 293 4.280819 CCCACCAAACTGATTCACCATAT 58.719 43.478 0.00 0.00 0.00 1.78
293 294 4.098349 CCCACCAAACTGATTCACCATATG 59.902 45.833 0.00 0.00 0.00 1.78
294 295 4.098349 CCACCAAACTGATTCACCATATGG 59.902 45.833 20.68 20.68 42.17 2.74
309 310 5.551305 CCATATGGTCCAGATGTAAGTGA 57.449 43.478 22.07 0.00 31.98 3.41
310 311 5.545588 CCATATGGTCCAGATGTAAGTGAG 58.454 45.833 22.07 4.40 31.98 3.51
311 312 5.512060 CCATATGGTCCAGATGTAAGTGAGG 60.512 48.000 22.07 3.70 31.98 3.86
312 313 2.187958 TGGTCCAGATGTAAGTGAGGG 58.812 52.381 0.00 0.00 0.00 4.30
313 314 2.225522 TGGTCCAGATGTAAGTGAGGGA 60.226 50.000 0.00 0.00 0.00 4.20
314 315 3.041946 GGTCCAGATGTAAGTGAGGGAT 58.958 50.000 0.00 0.00 0.00 3.85
315 316 4.223953 GGTCCAGATGTAAGTGAGGGATA 58.776 47.826 0.00 0.00 0.00 2.59
316 317 4.841246 GGTCCAGATGTAAGTGAGGGATAT 59.159 45.833 0.00 0.00 0.00 1.63
317 318 5.279708 GGTCCAGATGTAAGTGAGGGATATG 60.280 48.000 0.00 0.00 0.00 1.78
318 319 5.305644 GTCCAGATGTAAGTGAGGGATATGT 59.694 44.000 0.00 0.00 0.00 2.29
319 320 6.493802 GTCCAGATGTAAGTGAGGGATATGTA 59.506 42.308 0.00 0.00 0.00 2.29
320 321 7.015292 GTCCAGATGTAAGTGAGGGATATGTAA 59.985 40.741 0.00 0.00 0.00 2.41
321 322 7.734865 TCCAGATGTAAGTGAGGGATATGTAAT 59.265 37.037 0.00 0.00 0.00 1.89
322 323 8.378565 CCAGATGTAAGTGAGGGATATGTAATT 58.621 37.037 0.00 0.00 0.00 1.40
323 324 9.429359 CAGATGTAAGTGAGGGATATGTAATTC 57.571 37.037 0.00 0.00 0.00 2.17
324 325 9.159254 AGATGTAAGTGAGGGATATGTAATTCA 57.841 33.333 0.00 0.00 0.00 2.57
325 326 9.950496 GATGTAAGTGAGGGATATGTAATTCAT 57.050 33.333 0.00 0.00 40.25 2.57
333 334 9.910267 TGAGGGATATGTAATTCATAATGATGG 57.090 33.333 0.00 0.00 41.57 3.51
334 335 9.911788 GAGGGATATGTAATTCATAATGATGGT 57.088 33.333 0.00 0.00 41.57 3.55
335 336 9.690913 AGGGATATGTAATTCATAATGATGGTG 57.309 33.333 0.00 0.00 41.57 4.17
336 337 9.466497 GGGATATGTAATTCATAATGATGGTGT 57.534 33.333 0.00 0.00 41.57 4.16
341 342 9.639563 ATGTAATTCATAATGATGGTGTACCAA 57.360 29.630 7.97 0.00 41.43 3.67
352 353 4.985538 TGGTGTACCAAACGAACAATTT 57.014 36.364 0.24 0.00 44.35 1.82
353 354 5.326200 TGGTGTACCAAACGAACAATTTT 57.674 34.783 0.24 0.00 44.35 1.82
354 355 6.446781 TGGTGTACCAAACGAACAATTTTA 57.553 33.333 0.24 0.00 44.35 1.52
355 356 6.860080 TGGTGTACCAAACGAACAATTTTAA 58.140 32.000 0.24 0.00 44.35 1.52
356 357 6.750963 TGGTGTACCAAACGAACAATTTTAAC 59.249 34.615 0.24 0.00 44.35 2.01
357 358 6.974048 GGTGTACCAAACGAACAATTTTAACT 59.026 34.615 0.00 0.00 35.64 2.24
358 359 7.488792 GGTGTACCAAACGAACAATTTTAACTT 59.511 33.333 0.00 0.00 35.64 2.66
359 360 8.315341 GTGTACCAAACGAACAATTTTAACTTG 58.685 33.333 0.00 0.00 0.00 3.16
360 361 8.027771 TGTACCAAACGAACAATTTTAACTTGT 58.972 29.630 0.00 0.00 38.44 3.16
361 362 7.892778 ACCAAACGAACAATTTTAACTTGTT 57.107 28.000 12.14 12.14 46.55 2.83
362 363 8.983307 ACCAAACGAACAATTTTAACTTGTTA 57.017 26.923 12.25 0.00 44.56 2.41
363 364 9.420551 ACCAAACGAACAATTTTAACTTGTTAA 57.579 25.926 12.25 2.22 44.56 2.01
367 368 9.642327 AACGAACAATTTTAACTTGTTAAACCT 57.358 25.926 15.58 6.39 44.56 3.50
368 369 9.642327 ACGAACAATTTTAACTTGTTAAACCTT 57.358 25.926 15.58 10.75 44.56 3.50
372 373 9.945904 ACAATTTTAACTTGTTAAACCTTTCCA 57.054 25.926 15.58 3.45 33.10 3.53
376 377 9.810545 TTTTAACTTGTTAAACCTTTCCATCTG 57.189 29.630 15.58 0.00 0.00 2.90
377 378 5.453567 ACTTGTTAAACCTTTCCATCTGC 57.546 39.130 0.00 0.00 0.00 4.26
378 379 4.892934 ACTTGTTAAACCTTTCCATCTGCA 59.107 37.500 0.00 0.00 0.00 4.41
379 380 5.010012 ACTTGTTAAACCTTTCCATCTGCAG 59.990 40.000 7.63 7.63 0.00 4.41
380 381 3.255642 TGTTAAACCTTTCCATCTGCAGC 59.744 43.478 9.47 0.00 0.00 5.25
381 382 2.299326 AAACCTTTCCATCTGCAGCT 57.701 45.000 9.47 0.00 0.00 4.24
382 383 2.299326 AACCTTTCCATCTGCAGCTT 57.701 45.000 9.47 0.00 0.00 3.74
383 384 1.831580 ACCTTTCCATCTGCAGCTTC 58.168 50.000 9.47 0.00 0.00 3.86
384 385 1.101331 CCTTTCCATCTGCAGCTTCC 58.899 55.000 9.47 0.00 0.00 3.46
385 386 1.615116 CCTTTCCATCTGCAGCTTCCA 60.615 52.381 9.47 0.00 0.00 3.53
386 387 2.165167 CTTTCCATCTGCAGCTTCCAA 58.835 47.619 9.47 0.00 0.00 3.53
387 388 2.291209 TTCCATCTGCAGCTTCCAAA 57.709 45.000 9.47 0.00 0.00 3.28
388 389 2.519771 TCCATCTGCAGCTTCCAAAT 57.480 45.000 9.47 0.00 0.00 2.32
389 390 2.097036 TCCATCTGCAGCTTCCAAATG 58.903 47.619 9.47 5.57 0.00 2.32
390 391 1.136305 CCATCTGCAGCTTCCAAATGG 59.864 52.381 9.47 11.29 0.00 3.16
391 392 1.822990 CATCTGCAGCTTCCAAATGGT 59.177 47.619 9.47 0.00 36.34 3.55
392 393 2.877097 TCTGCAGCTTCCAAATGGTA 57.123 45.000 9.47 0.00 36.34 3.25
393 394 3.370840 TCTGCAGCTTCCAAATGGTAT 57.629 42.857 9.47 0.00 36.34 2.73
394 395 3.700538 TCTGCAGCTTCCAAATGGTATT 58.299 40.909 9.47 0.00 36.34 1.89
395 396 3.696051 TCTGCAGCTTCCAAATGGTATTC 59.304 43.478 9.47 0.00 36.34 1.75
396 397 3.698040 CTGCAGCTTCCAAATGGTATTCT 59.302 43.478 0.00 0.00 36.34 2.40
397 398 3.444742 TGCAGCTTCCAAATGGTATTCTG 59.555 43.478 0.00 4.79 36.34 3.02
398 399 3.445096 GCAGCTTCCAAATGGTATTCTGT 59.555 43.478 0.00 0.00 36.34 3.41
399 400 4.640201 GCAGCTTCCAAATGGTATTCTGTA 59.360 41.667 0.00 0.00 36.34 2.74
400 401 5.300286 GCAGCTTCCAAATGGTATTCTGTAT 59.700 40.000 0.00 0.00 36.34 2.29
401 402 6.486657 GCAGCTTCCAAATGGTATTCTGTATA 59.513 38.462 0.00 0.00 36.34 1.47
402 403 7.013274 GCAGCTTCCAAATGGTATTCTGTATAA 59.987 37.037 0.00 0.00 36.34 0.98
403 404 8.345565 CAGCTTCCAAATGGTATTCTGTATAAC 58.654 37.037 0.00 0.00 36.34 1.89
404 405 8.275040 AGCTTCCAAATGGTATTCTGTATAACT 58.725 33.333 0.00 0.00 36.34 2.24
405 406 8.345565 GCTTCCAAATGGTATTCTGTATAACTG 58.654 37.037 0.00 0.00 36.34 3.16
406 407 9.396022 CTTCCAAATGGTATTCTGTATAACTGT 57.604 33.333 0.00 0.00 36.34 3.55
407 408 8.958119 TCCAAATGGTATTCTGTATAACTGTC 57.042 34.615 0.00 0.00 36.34 3.51
408 409 8.768397 TCCAAATGGTATTCTGTATAACTGTCT 58.232 33.333 0.00 0.00 36.34 3.41
409 410 9.046296 CCAAATGGTATTCTGTATAACTGTCTC 57.954 37.037 0.00 0.00 0.00 3.36
410 411 9.599866 CAAATGGTATTCTGTATAACTGTCTCA 57.400 33.333 0.00 0.00 0.00 3.27
411 412 9.823647 AAATGGTATTCTGTATAACTGTCTCAG 57.176 33.333 0.00 0.00 37.52 3.35
426 427 7.964604 ACTGTCTCAGTTTATTGTACCTTTC 57.035 36.000 0.00 0.00 42.59 2.62
427 428 7.736893 ACTGTCTCAGTTTATTGTACCTTTCT 58.263 34.615 0.00 0.00 42.59 2.52
428 429 7.657761 ACTGTCTCAGTTTATTGTACCTTTCTG 59.342 37.037 0.00 0.00 42.59 3.02
429 430 7.506114 TGTCTCAGTTTATTGTACCTTTCTGT 58.494 34.615 0.00 0.00 0.00 3.41
430 431 7.441157 TGTCTCAGTTTATTGTACCTTTCTGTG 59.559 37.037 0.00 0.00 0.00 3.66
431 432 7.656137 GTCTCAGTTTATTGTACCTTTCTGTGA 59.344 37.037 0.00 0.00 0.00 3.58
432 433 7.872993 TCTCAGTTTATTGTACCTTTCTGTGAG 59.127 37.037 0.00 0.00 0.00 3.51
433 434 7.732025 TCAGTTTATTGTACCTTTCTGTGAGA 58.268 34.615 0.00 0.00 0.00 3.27
434 435 8.375506 TCAGTTTATTGTACCTTTCTGTGAGAT 58.624 33.333 0.00 0.00 0.00 2.75
435 436 9.653287 CAGTTTATTGTACCTTTCTGTGAGATA 57.347 33.333 0.00 0.00 0.00 1.98
692 696 3.027412 CTCTTCTTCCTGGTAGCTGCTA 58.973 50.000 5.02 5.02 0.00 3.49
2023 2153 1.140312 TCCTCAGGTTCTGCTGGTTT 58.860 50.000 0.00 0.00 0.00 3.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.955246 TGGGGAGGAGGAGAGGCT 60.955 66.667 0.00 0.00 0.00 4.58
1 2 2.445654 CTGGGGAGGAGGAGAGGC 60.446 72.222 0.00 0.00 0.00 4.70
5 6 0.041238 TACACACTGGGGAGGAGGAG 59.959 60.000 0.00 0.00 0.00 3.69
6 7 0.490017 TTACACACTGGGGAGGAGGA 59.510 55.000 0.00 0.00 0.00 3.71
7 8 1.584724 ATTACACACTGGGGAGGAGG 58.415 55.000 0.00 0.00 0.00 4.30
8 9 4.225267 AGTTTATTACACACTGGGGAGGAG 59.775 45.833 0.00 0.00 0.00 3.69
9 10 4.172807 AGTTTATTACACACTGGGGAGGA 58.827 43.478 0.00 0.00 0.00 3.71
10 11 4.569719 AGTTTATTACACACTGGGGAGG 57.430 45.455 0.00 0.00 0.00 4.30
11 12 9.847224 ATTATTAGTTTATTACACACTGGGGAG 57.153 33.333 0.00 0.00 0.00 4.30
12 13 9.621629 CATTATTAGTTTATTACACACTGGGGA 57.378 33.333 0.00 0.00 0.00 4.81
13 14 8.349983 GCATTATTAGTTTATTACACACTGGGG 58.650 37.037 0.00 0.00 0.00 4.96
14 15 9.120538 AGCATTATTAGTTTATTACACACTGGG 57.879 33.333 0.00 0.00 0.00 4.45
15 16 9.935682 CAGCATTATTAGTTTATTACACACTGG 57.064 33.333 0.00 0.00 0.00 4.00
16 17 9.438291 GCAGCATTATTAGTTTATTACACACTG 57.562 33.333 0.00 0.00 0.00 3.66
17 18 9.173021 TGCAGCATTATTAGTTTATTACACACT 57.827 29.630 0.00 0.00 0.00 3.55
18 19 9.781834 TTGCAGCATTATTAGTTTATTACACAC 57.218 29.630 0.00 0.00 0.00 3.82
27 28 7.489113 GCACAACTATTGCAGCATTATTAGTTT 59.511 33.333 13.69 7.05 39.93 2.66
28 29 6.974622 GCACAACTATTGCAGCATTATTAGTT 59.025 34.615 0.00 5.45 39.93 2.24
29 30 6.319658 AGCACAACTATTGCAGCATTATTAGT 59.680 34.615 0.00 0.00 42.83 2.24
30 31 6.732154 AGCACAACTATTGCAGCATTATTAG 58.268 36.000 0.00 0.00 42.83 1.73
31 32 6.318396 TGAGCACAACTATTGCAGCATTATTA 59.682 34.615 0.00 0.00 42.83 0.98
32 33 5.125900 TGAGCACAACTATTGCAGCATTATT 59.874 36.000 0.00 0.00 42.83 1.40
33 34 4.641541 TGAGCACAACTATTGCAGCATTAT 59.358 37.500 0.00 0.00 42.83 1.28
34 35 4.009002 TGAGCACAACTATTGCAGCATTA 58.991 39.130 0.00 0.00 42.83 1.90
35 36 2.821378 TGAGCACAACTATTGCAGCATT 59.179 40.909 0.00 0.00 42.83 3.56
36 37 2.439409 TGAGCACAACTATTGCAGCAT 58.561 42.857 0.00 0.00 42.83 3.79
37 38 1.894881 TGAGCACAACTATTGCAGCA 58.105 45.000 0.00 0.00 42.83 4.41
38 39 4.142622 TGTTATGAGCACAACTATTGCAGC 60.143 41.667 0.00 0.00 42.83 5.25
39 40 5.550232 TGTTATGAGCACAACTATTGCAG 57.450 39.130 0.00 0.00 42.83 4.41
40 41 5.415389 ACATGTTATGAGCACAACTATTGCA 59.585 36.000 0.00 0.00 42.83 4.08
41 42 5.883661 ACATGTTATGAGCACAACTATTGC 58.116 37.500 0.00 0.00 40.52 3.56
42 43 7.755591 AGAACATGTTATGAGCACAACTATTG 58.244 34.615 11.95 0.00 0.00 1.90
43 44 7.928307 AGAACATGTTATGAGCACAACTATT 57.072 32.000 11.95 0.00 0.00 1.73
44 45 9.618890 ATTAGAACATGTTATGAGCACAACTAT 57.381 29.630 15.84 0.00 0.00 2.12
46 47 7.928307 ATTAGAACATGTTATGAGCACAACT 57.072 32.000 15.84 5.31 0.00 3.16
77 78 9.748708 CAAATTTCCTACTTCAACAGAATTTCA 57.251 29.630 0.00 0.00 0.00 2.69
78 79 9.750125 ACAAATTTCCTACTTCAACAGAATTTC 57.250 29.630 0.00 0.00 0.00 2.17
79 80 9.750125 GACAAATTTCCTACTTCAACAGAATTT 57.250 29.630 0.00 0.00 0.00 1.82
80 81 8.076178 CGACAAATTTCCTACTTCAACAGAATT 58.924 33.333 0.00 0.00 0.00 2.17
81 82 7.444183 TCGACAAATTTCCTACTTCAACAGAAT 59.556 33.333 0.00 0.00 0.00 2.40
82 83 6.764085 TCGACAAATTTCCTACTTCAACAGAA 59.236 34.615 0.00 0.00 0.00 3.02
83 84 6.285224 TCGACAAATTTCCTACTTCAACAGA 58.715 36.000 0.00 0.00 0.00 3.41
84 85 6.539649 TCGACAAATTTCCTACTTCAACAG 57.460 37.500 0.00 0.00 0.00 3.16
85 86 6.928979 TTCGACAAATTTCCTACTTCAACA 57.071 33.333 0.00 0.00 0.00 3.33
86 87 9.543018 CTATTTCGACAAATTTCCTACTTCAAC 57.457 33.333 0.00 0.00 33.95 3.18
87 88 8.726988 CCTATTTCGACAAATTTCCTACTTCAA 58.273 33.333 0.00 0.00 33.95 2.69
88 89 7.148306 GCCTATTTCGACAAATTTCCTACTTCA 60.148 37.037 0.00 0.00 33.95 3.02
89 90 7.187480 GCCTATTTCGACAAATTTCCTACTTC 58.813 38.462 0.00 0.00 33.95 3.01
90 91 6.095021 GGCCTATTTCGACAAATTTCCTACTT 59.905 38.462 0.00 0.00 33.95 2.24
91 92 5.589050 GGCCTATTTCGACAAATTTCCTACT 59.411 40.000 0.00 0.00 33.95 2.57
92 93 5.503520 CGGCCTATTTCGACAAATTTCCTAC 60.504 44.000 0.00 0.00 33.95 3.18
93 94 4.573201 CGGCCTATTTCGACAAATTTCCTA 59.427 41.667 0.00 0.00 33.95 2.94
94 95 3.377172 CGGCCTATTTCGACAAATTTCCT 59.623 43.478 0.00 0.00 33.95 3.36
95 96 3.375922 TCGGCCTATTTCGACAAATTTCC 59.624 43.478 0.00 0.00 33.95 3.13
96 97 4.609691 TCGGCCTATTTCGACAAATTTC 57.390 40.909 0.00 0.00 33.95 2.17
137 138 9.730705 CCTCTCATGATGGTATACACAAATATT 57.269 33.333 5.01 0.00 0.00 1.28
138 139 9.104713 TCCTCTCATGATGGTATACACAAATAT 57.895 33.333 5.01 0.00 0.00 1.28
139 140 8.491045 TCCTCTCATGATGGTATACACAAATA 57.509 34.615 5.01 0.00 0.00 1.40
140 141 7.379059 TCCTCTCATGATGGTATACACAAAT 57.621 36.000 5.01 0.00 0.00 2.32
141 142 6.806668 TCCTCTCATGATGGTATACACAAA 57.193 37.500 5.01 0.00 0.00 2.83
142 143 6.784473 AGATCCTCTCATGATGGTATACACAA 59.216 38.462 5.01 0.00 0.00 3.33
143 144 6.318112 AGATCCTCTCATGATGGTATACACA 58.682 40.000 5.01 0.90 0.00 3.72
144 145 6.849085 AGATCCTCTCATGATGGTATACAC 57.151 41.667 5.01 0.00 0.00 2.90
145 146 9.552695 AAATAGATCCTCTCATGATGGTATACA 57.447 33.333 5.01 0.00 0.00 2.29
172 173 9.851686 TCCAACTCTGCAGTAATCATATAAAAT 57.148 29.630 14.67 0.00 30.14 1.82
173 174 9.679661 TTCCAACTCTGCAGTAATCATATAAAA 57.320 29.630 14.67 0.00 30.14 1.52
174 175 9.109393 GTTCCAACTCTGCAGTAATCATATAAA 57.891 33.333 14.67 0.00 30.14 1.40
175 176 8.264347 TGTTCCAACTCTGCAGTAATCATATAA 58.736 33.333 14.67 0.00 30.14 0.98
176 177 7.791029 TGTTCCAACTCTGCAGTAATCATATA 58.209 34.615 14.67 0.00 30.14 0.86
177 178 6.653020 TGTTCCAACTCTGCAGTAATCATAT 58.347 36.000 14.67 0.00 30.14 1.78
178 179 6.048732 TGTTCCAACTCTGCAGTAATCATA 57.951 37.500 14.67 0.00 30.14 2.15
179 180 4.910195 TGTTCCAACTCTGCAGTAATCAT 58.090 39.130 14.67 0.00 30.14 2.45
180 181 4.318332 CTGTTCCAACTCTGCAGTAATCA 58.682 43.478 14.67 3.34 30.14 2.57
181 182 3.686726 CCTGTTCCAACTCTGCAGTAATC 59.313 47.826 14.67 0.00 30.14 1.75
182 183 3.560025 CCCTGTTCCAACTCTGCAGTAAT 60.560 47.826 14.67 0.00 30.14 1.89
183 184 2.224523 CCCTGTTCCAACTCTGCAGTAA 60.225 50.000 14.67 0.00 30.14 2.24
184 185 1.347707 CCCTGTTCCAACTCTGCAGTA 59.652 52.381 14.67 0.00 30.14 2.74
185 186 0.109342 CCCTGTTCCAACTCTGCAGT 59.891 55.000 14.67 0.00 0.00 4.40
186 187 0.397941 TCCCTGTTCCAACTCTGCAG 59.602 55.000 7.63 7.63 0.00 4.41
187 188 0.397941 CTCCCTGTTCCAACTCTGCA 59.602 55.000 0.00 0.00 0.00 4.41
188 189 0.687354 TCTCCCTGTTCCAACTCTGC 59.313 55.000 0.00 0.00 0.00 4.26
189 190 2.873649 GCTTCTCCCTGTTCCAACTCTG 60.874 54.545 0.00 0.00 0.00 3.35
190 191 1.349357 GCTTCTCCCTGTTCCAACTCT 59.651 52.381 0.00 0.00 0.00 3.24
191 192 1.072331 TGCTTCTCCCTGTTCCAACTC 59.928 52.381 0.00 0.00 0.00 3.01
192 193 1.140312 TGCTTCTCCCTGTTCCAACT 58.860 50.000 0.00 0.00 0.00 3.16
193 194 2.206576 ATGCTTCTCCCTGTTCCAAC 57.793 50.000 0.00 0.00 0.00 3.77
194 195 2.978156 AATGCTTCTCCCTGTTCCAA 57.022 45.000 0.00 0.00 0.00 3.53
195 196 3.587061 TCTTAATGCTTCTCCCTGTTCCA 59.413 43.478 0.00 0.00 0.00 3.53
196 197 4.222124 TCTTAATGCTTCTCCCTGTTCC 57.778 45.455 0.00 0.00 0.00 3.62
197 198 7.449247 AGATATCTTAATGCTTCTCCCTGTTC 58.551 38.462 0.00 0.00 0.00 3.18
198 199 7.385894 AGATATCTTAATGCTTCTCCCTGTT 57.614 36.000 0.00 0.00 0.00 3.16
199 200 7.385894 AAGATATCTTAATGCTTCTCCCTGT 57.614 36.000 16.50 0.00 33.79 4.00
200 201 7.117523 CGAAAGATATCTTAATGCTTCTCCCTG 59.882 40.741 18.23 0.00 34.61 4.45
201 202 7.015682 TCGAAAGATATCTTAATGCTTCTCCCT 59.984 37.037 18.23 0.00 34.61 4.20
202 203 7.155328 TCGAAAGATATCTTAATGCTTCTCCC 58.845 38.462 18.23 0.00 34.61 4.30
203 204 8.085296 TCTCGAAAGATATCTTAATGCTTCTCC 58.915 37.037 18.23 0.00 40.84 3.71
204 205 9.638239 ATCTCGAAAGATATCTTAATGCTTCTC 57.362 33.333 18.23 8.60 40.57 2.87
205 206 9.421806 CATCTCGAAAGATATCTTAATGCTTCT 57.578 33.333 18.23 0.02 40.38 2.85
206 207 8.655092 CCATCTCGAAAGATATCTTAATGCTTC 58.345 37.037 18.23 9.93 40.38 3.86
207 208 7.118971 GCCATCTCGAAAGATATCTTAATGCTT 59.881 37.037 18.23 1.53 40.38 3.91
208 209 6.593382 GCCATCTCGAAAGATATCTTAATGCT 59.407 38.462 18.23 2.29 40.38 3.79
209 210 6.593382 AGCCATCTCGAAAGATATCTTAATGC 59.407 38.462 18.23 11.80 40.38 3.56
210 211 8.545229 AAGCCATCTCGAAAGATATCTTAATG 57.455 34.615 18.23 14.82 40.38 1.90
211 212 8.370940 TGAAGCCATCTCGAAAGATATCTTAAT 58.629 33.333 18.23 3.82 40.38 1.40
212 213 7.726216 TGAAGCCATCTCGAAAGATATCTTAA 58.274 34.615 18.23 6.66 40.38 1.85
213 214 7.231519 TCTGAAGCCATCTCGAAAGATATCTTA 59.768 37.037 18.23 2.90 40.38 2.10
214 215 6.041409 TCTGAAGCCATCTCGAAAGATATCTT 59.959 38.462 12.37 12.37 40.38 2.40
215 216 5.538053 TCTGAAGCCATCTCGAAAGATATCT 59.462 40.000 0.00 0.00 40.38 1.98
216 217 5.777802 TCTGAAGCCATCTCGAAAGATATC 58.222 41.667 0.00 0.00 40.38 1.63
217 218 5.798125 TCTGAAGCCATCTCGAAAGATAT 57.202 39.130 0.00 0.00 40.38 1.63
218 219 5.598416 TTCTGAAGCCATCTCGAAAGATA 57.402 39.130 0.00 0.00 40.38 1.98
219 220 4.478206 TTCTGAAGCCATCTCGAAAGAT 57.522 40.909 0.00 0.00 43.24 2.40
220 221 3.961480 TTCTGAAGCCATCTCGAAAGA 57.039 42.857 0.00 0.00 39.12 2.52
221 222 4.186926 TGATTCTGAAGCCATCTCGAAAG 58.813 43.478 2.88 0.00 0.00 2.62
222 223 4.206477 TGATTCTGAAGCCATCTCGAAA 57.794 40.909 2.88 0.00 0.00 3.46
223 224 3.893326 TGATTCTGAAGCCATCTCGAA 57.107 42.857 2.88 0.00 0.00 3.71
224 225 3.244009 GGATGATTCTGAAGCCATCTCGA 60.244 47.826 23.04 0.00 36.55 4.04
225 226 3.065655 GGATGATTCTGAAGCCATCTCG 58.934 50.000 23.04 0.00 36.55 4.04
226 227 4.082665 TGGATGATTCTGAAGCCATCTC 57.917 45.455 23.04 17.26 36.55 2.75
227 228 4.515028 TTGGATGATTCTGAAGCCATCT 57.485 40.909 23.04 2.60 36.55 2.90
228 229 4.643784 ACTTTGGATGATTCTGAAGCCATC 59.356 41.667 19.11 19.11 35.81 3.51
229 230 4.607239 ACTTTGGATGATTCTGAAGCCAT 58.393 39.130 2.88 5.59 0.00 4.40
230 231 4.038271 ACTTTGGATGATTCTGAAGCCA 57.962 40.909 2.88 2.07 0.00 4.75
231 232 6.069684 CATACTTTGGATGATTCTGAAGCC 57.930 41.667 2.88 0.00 0.00 4.35
263 264 4.660938 AGTTTGGTGGGGAGCGGC 62.661 66.667 0.00 0.00 0.00 6.53
264 265 2.484287 ATCAGTTTGGTGGGGAGCGG 62.484 60.000 0.00 0.00 0.00 5.52
265 266 0.609131 AATCAGTTTGGTGGGGAGCG 60.609 55.000 0.00 0.00 0.00 5.03
266 267 1.177401 GAATCAGTTTGGTGGGGAGC 58.823 55.000 0.00 0.00 0.00 4.70
267 268 2.162681 GTGAATCAGTTTGGTGGGGAG 58.837 52.381 0.00 0.00 0.00 4.30
268 269 1.203001 GGTGAATCAGTTTGGTGGGGA 60.203 52.381 0.00 0.00 0.00 4.81
269 270 1.256812 GGTGAATCAGTTTGGTGGGG 58.743 55.000 0.00 0.00 0.00 4.96
270 271 1.993956 TGGTGAATCAGTTTGGTGGG 58.006 50.000 0.00 0.00 0.00 4.61
271 272 4.098349 CCATATGGTGAATCAGTTTGGTGG 59.902 45.833 14.09 0.00 0.00 4.61
272 273 5.252969 CCATATGGTGAATCAGTTTGGTG 57.747 43.478 14.09 0.00 0.00 4.17
287 288 5.512060 CCTCACTTACATCTGGACCATATGG 60.512 48.000 20.68 20.68 42.17 2.74
288 289 5.512060 CCCTCACTTACATCTGGACCATATG 60.512 48.000 16.28 16.28 0.00 1.78
289 290 4.594920 CCCTCACTTACATCTGGACCATAT 59.405 45.833 0.00 0.00 0.00 1.78
290 291 3.967326 CCCTCACTTACATCTGGACCATA 59.033 47.826 0.00 0.00 0.00 2.74
291 292 2.774234 CCCTCACTTACATCTGGACCAT 59.226 50.000 0.00 0.00 0.00 3.55
292 293 2.187958 CCCTCACTTACATCTGGACCA 58.812 52.381 0.00 0.00 0.00 4.02
293 294 2.467880 TCCCTCACTTACATCTGGACC 58.532 52.381 0.00 0.00 0.00 4.46
294 295 5.305644 ACATATCCCTCACTTACATCTGGAC 59.694 44.000 0.00 0.00 0.00 4.02
295 296 5.467738 ACATATCCCTCACTTACATCTGGA 58.532 41.667 0.00 0.00 0.00 3.86
296 297 5.815233 ACATATCCCTCACTTACATCTGG 57.185 43.478 0.00 0.00 0.00 3.86
297 298 9.429359 GAATTACATATCCCTCACTTACATCTG 57.571 37.037 0.00 0.00 0.00 2.90
298 299 9.159254 TGAATTACATATCCCTCACTTACATCT 57.841 33.333 0.00 0.00 0.00 2.90
299 300 9.950496 ATGAATTACATATCCCTCACTTACATC 57.050 33.333 0.00 0.00 37.46 3.06
307 308 9.910267 CCATCATTATGAATTACATATCCCTCA 57.090 33.333 0.00 0.00 40.56 3.86
308 309 9.911788 ACCATCATTATGAATTACATATCCCTC 57.088 33.333 0.00 0.00 40.56 4.30
309 310 9.690913 CACCATCATTATGAATTACATATCCCT 57.309 33.333 0.00 0.00 40.56 4.20
310 311 9.466497 ACACCATCATTATGAATTACATATCCC 57.534 33.333 0.00 0.00 40.56 3.85
315 316 9.639563 TTGGTACACCATCATTATGAATTACAT 57.360 29.630 1.05 0.00 46.97 2.29
316 317 9.467796 TTTGGTACACCATCATTATGAATTACA 57.532 29.630 1.05 0.00 46.97 2.41
317 318 9.730420 GTTTGGTACACCATCATTATGAATTAC 57.270 33.333 1.05 0.00 46.97 1.89
318 319 8.616942 CGTTTGGTACACCATCATTATGAATTA 58.383 33.333 1.05 0.00 46.97 1.40
319 320 7.338196 TCGTTTGGTACACCATCATTATGAATT 59.662 33.333 1.05 0.00 46.97 2.17
320 321 6.826231 TCGTTTGGTACACCATCATTATGAAT 59.174 34.615 1.05 0.00 46.97 2.57
321 322 6.174049 TCGTTTGGTACACCATCATTATGAA 58.826 36.000 1.05 0.00 46.97 2.57
322 323 5.735766 TCGTTTGGTACACCATCATTATGA 58.264 37.500 1.05 0.00 46.97 2.15
323 324 6.128145 TGTTCGTTTGGTACACCATCATTATG 60.128 38.462 1.05 0.00 46.97 1.90
324 325 5.941058 TGTTCGTTTGGTACACCATCATTAT 59.059 36.000 1.05 0.00 46.97 1.28
325 326 5.306394 TGTTCGTTTGGTACACCATCATTA 58.694 37.500 1.05 0.00 46.97 1.90
326 327 4.138290 TGTTCGTTTGGTACACCATCATT 58.862 39.130 1.05 0.00 46.97 2.57
327 328 3.745799 TGTTCGTTTGGTACACCATCAT 58.254 40.909 1.05 0.00 46.97 2.45
328 329 3.195471 TGTTCGTTTGGTACACCATCA 57.805 42.857 1.05 0.00 46.97 3.07
329 330 4.759516 ATTGTTCGTTTGGTACACCATC 57.240 40.909 1.05 0.00 46.97 3.51
330 331 5.523438 AAATTGTTCGTTTGGTACACCAT 57.477 34.783 1.05 0.00 46.97 3.55
331 332 4.985538 AAATTGTTCGTTTGGTACACCA 57.014 36.364 0.00 0.00 45.94 4.17
332 333 6.974048 AGTTAAAATTGTTCGTTTGGTACACC 59.026 34.615 0.00 0.00 39.29 4.16
333 334 7.974243 AGTTAAAATTGTTCGTTTGGTACAC 57.026 32.000 0.00 0.00 39.29 2.90
334 335 8.027771 ACAAGTTAAAATTGTTCGTTTGGTACA 58.972 29.630 0.00 0.00 37.61 2.90
335 336 8.397215 ACAAGTTAAAATTGTTCGTTTGGTAC 57.603 30.769 2.28 0.00 37.61 3.34
336 337 8.983307 AACAAGTTAAAATTGTTCGTTTGGTA 57.017 26.923 12.15 0.00 45.33 3.25
337 338 7.892778 AACAAGTTAAAATTGTTCGTTTGGT 57.107 28.000 12.15 0.00 45.33 3.67
341 342 9.642327 AGGTTTAACAAGTTAAAATTGTTCGTT 57.358 25.926 18.39 3.72 45.33 3.85
342 343 9.642327 AAGGTTTAACAAGTTAAAATTGTTCGT 57.358 25.926 18.39 7.99 45.33 3.85
346 347 9.945904 TGGAAAGGTTTAACAAGTTAAAATTGT 57.054 25.926 16.99 6.35 43.89 2.71
350 351 9.810545 CAGATGGAAAGGTTTAACAAGTTAAAA 57.189 29.630 16.99 3.73 43.89 1.52
351 352 7.923878 GCAGATGGAAAGGTTTAACAAGTTAAA 59.076 33.333 12.68 12.68 41.23 1.52
352 353 7.068839 TGCAGATGGAAAGGTTTAACAAGTTAA 59.931 33.333 1.46 1.46 33.63 2.01
353 354 6.547880 TGCAGATGGAAAGGTTTAACAAGTTA 59.452 34.615 0.00 0.00 0.00 2.24
354 355 5.362430 TGCAGATGGAAAGGTTTAACAAGTT 59.638 36.000 0.00 0.00 0.00 2.66
355 356 4.892934 TGCAGATGGAAAGGTTTAACAAGT 59.107 37.500 0.00 0.00 0.00 3.16
356 357 5.452078 TGCAGATGGAAAGGTTTAACAAG 57.548 39.130 0.00 0.00 0.00 3.16
357 358 4.261994 GCTGCAGATGGAAAGGTTTAACAA 60.262 41.667 20.43 0.00 0.00 2.83
358 359 3.255642 GCTGCAGATGGAAAGGTTTAACA 59.744 43.478 20.43 0.00 0.00 2.41
359 360 3.507622 AGCTGCAGATGGAAAGGTTTAAC 59.492 43.478 20.43 0.00 0.00 2.01
360 361 3.766545 AGCTGCAGATGGAAAGGTTTAA 58.233 40.909 20.43 0.00 0.00 1.52
361 362 3.439857 AGCTGCAGATGGAAAGGTTTA 57.560 42.857 20.43 0.00 0.00 2.01
362 363 2.299326 AGCTGCAGATGGAAAGGTTT 57.701 45.000 20.43 0.00 0.00 3.27
363 364 2.165998 GAAGCTGCAGATGGAAAGGTT 58.834 47.619 20.43 0.00 33.33 3.50
364 365 1.615384 GGAAGCTGCAGATGGAAAGGT 60.615 52.381 20.43 0.00 0.00 3.50
365 366 1.101331 GGAAGCTGCAGATGGAAAGG 58.899 55.000 20.43 0.00 0.00 3.11
366 367 1.830279 TGGAAGCTGCAGATGGAAAG 58.170 50.000 20.43 0.00 0.00 2.62
367 368 2.291209 TTGGAAGCTGCAGATGGAAA 57.709 45.000 20.43 3.44 0.00 3.13
368 369 2.291209 TTTGGAAGCTGCAGATGGAA 57.709 45.000 20.43 1.82 0.00 3.53
369 370 2.097036 CATTTGGAAGCTGCAGATGGA 58.903 47.619 20.43 0.00 28.90 3.41
370 371 1.136305 CCATTTGGAAGCTGCAGATGG 59.864 52.381 20.43 15.56 42.28 3.51
371 372 1.822990 ACCATTTGGAAGCTGCAGATG 59.177 47.619 20.43 10.09 38.94 2.90
372 373 2.226962 ACCATTTGGAAGCTGCAGAT 57.773 45.000 20.43 8.90 38.94 2.90
373 374 2.877097 TACCATTTGGAAGCTGCAGA 57.123 45.000 20.43 0.00 38.94 4.26
374 375 3.698040 AGAATACCATTTGGAAGCTGCAG 59.302 43.478 10.11 10.11 38.94 4.41
375 376 3.444742 CAGAATACCATTTGGAAGCTGCA 59.555 43.478 3.01 0.00 38.94 4.41
376 377 3.445096 ACAGAATACCATTTGGAAGCTGC 59.555 43.478 3.01 0.00 38.94 5.25
377 378 6.949352 ATACAGAATACCATTTGGAAGCTG 57.051 37.500 3.01 7.57 38.94 4.24
378 379 8.275040 AGTTATACAGAATACCATTTGGAAGCT 58.725 33.333 3.01 0.00 38.94 3.74
379 380 8.345565 CAGTTATACAGAATACCATTTGGAAGC 58.654 37.037 3.01 0.00 38.94 3.86
380 381 9.396022 ACAGTTATACAGAATACCATTTGGAAG 57.604 33.333 3.01 0.00 38.94 3.46
381 382 9.391006 GACAGTTATACAGAATACCATTTGGAA 57.609 33.333 3.01 0.00 38.94 3.53
382 383 8.768397 AGACAGTTATACAGAATACCATTTGGA 58.232 33.333 3.01 0.00 38.94 3.53
383 384 8.964476 AGACAGTTATACAGAATACCATTTGG 57.036 34.615 0.00 0.00 42.17 3.28
384 385 9.599866 TGAGACAGTTATACAGAATACCATTTG 57.400 33.333 0.00 0.00 0.00 2.32
385 386 9.823647 CTGAGACAGTTATACAGAATACCATTT 57.176 33.333 0.00 0.00 0.00 2.32
386 387 8.982723 ACTGAGACAGTTATACAGAATACCATT 58.017 33.333 0.00 0.00 42.59 3.16
387 388 8.540507 ACTGAGACAGTTATACAGAATACCAT 57.459 34.615 0.00 0.00 42.59 3.55
388 389 7.956328 ACTGAGACAGTTATACAGAATACCA 57.044 36.000 0.00 0.00 42.59 3.25
403 404 7.657761 ACAGAAAGGTACAATAAACTGAGACAG 59.342 37.037 0.00 0.00 37.52 3.51
404 405 7.441157 CACAGAAAGGTACAATAAACTGAGACA 59.559 37.037 0.00 0.00 0.00 3.41
405 406 7.656137 TCACAGAAAGGTACAATAAACTGAGAC 59.344 37.037 0.00 0.00 0.00 3.36
406 407 7.732025 TCACAGAAAGGTACAATAAACTGAGA 58.268 34.615 0.00 0.00 0.00 3.27
407 408 7.872993 TCTCACAGAAAGGTACAATAAACTGAG 59.127 37.037 0.00 0.00 0.00 3.35
408 409 7.732025 TCTCACAGAAAGGTACAATAAACTGA 58.268 34.615 0.00 0.00 0.00 3.41
409 410 7.962964 TCTCACAGAAAGGTACAATAAACTG 57.037 36.000 0.00 0.00 0.00 3.16
426 427 9.265901 CCCTGTTCTAACAATAATATCTCACAG 57.734 37.037 0.00 0.00 38.66 3.66
427 428 8.768397 ACCCTGTTCTAACAATAATATCTCACA 58.232 33.333 0.00 0.00 38.66 3.58
428 429 9.614792 AACCCTGTTCTAACAATAATATCTCAC 57.385 33.333 0.00 0.00 38.66 3.51
429 430 9.613428 CAACCCTGTTCTAACAATAATATCTCA 57.387 33.333 0.00 0.00 38.66 3.27
430 431 9.614792 ACAACCCTGTTCTAACAATAATATCTC 57.385 33.333 0.00 0.00 38.66 2.75
431 432 9.396022 CACAACCCTGTTCTAACAATAATATCT 57.604 33.333 0.00 0.00 38.66 1.98
432 433 8.129211 GCACAACCCTGTTCTAACAATAATATC 58.871 37.037 0.00 0.00 38.66 1.63
433 434 7.834181 AGCACAACCCTGTTCTAACAATAATAT 59.166 33.333 0.00 0.00 38.66 1.28
434 435 7.120579 CAGCACAACCCTGTTCTAACAATAATA 59.879 37.037 0.00 0.00 38.66 0.98
435 436 6.010219 AGCACAACCCTGTTCTAACAATAAT 58.990 36.000 0.00 0.00 38.66 1.28
436 437 5.240623 CAGCACAACCCTGTTCTAACAATAA 59.759 40.000 0.00 0.00 38.66 1.40
1265 1379 4.917385 TGTCCATTGCTTGTATAAGTGGT 58.083 39.130 0.90 0.00 36.27 4.16
2023 2153 1.367471 CCAGACGTCTGACCAGCAA 59.633 57.895 40.21 0.00 46.59 3.91


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

AutoCloner maintained by Alex Coulton.