Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004597.1 Hibiscus syriacus cultivar Beakdansim tig00010271_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 225727
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 2 of 2
Found at i:185806 original size:231 final size:232
Alignment explanation
Indices: 185132--185837 Score: 1164
Period size: 233 Copynumber: 3.0 Consensus size: 232
185122 AAAGTTTATA
* * * *
185132 ATGAGAAGAACTTATTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTCGCTTA
1 ATGAGAAGAATTTGTTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTTGCTTG
* * *
185197 AGGGATTGACATTTTAAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAAGGGAGAAGAA
66 AGGGATTAACATTTT-CAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAGGGGAGAAGAA
* *
185262 GTTCATAATGAGAAGAACTTGTTCGACCTATTGCTAGATTCACAATACTTCGAATCAGTAACACC
130 GTTCATAATGAGAAGAACTTGTTTGACCTATTGCTAGATTCACAACACTTCGAATCAGTAACACC
*
185327 TCACTTAAGGGATTAACATTTCCAAAAGAAAAATCACG
195 TCACTTAAGGGATCAACATTTCCAAAAGAAAAATCACG
* *
185365 ATGAGAAGAATTTGTTTGACCTATCACTCGATTCACGATATTTTGAATCAGTGACGCCTTGCTTG
1 ATGAGAAGAATTTGTTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTTGCTTG
*
185430 AGGGATTAACATTTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAAGGGGAGAAGAA
66 AGGGATTAACATTTTC-AATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAGGGGAGAAGAA
185495 GTTCATAATGAGAAGAACTTGTTTGACCTATTGCTAGATTCACAACACTTCGAATCAGTAACACC
130 GTTCATAATGAGAAGAACTTGTTTGACCTATTGCTAGATTCACAACACTTCGAATCAGTAACACC
**
185560 TCACTTAAGGGATCAACATTTTTAAAAGAAAAATCACG
195 TCACTTAAGGGATCAACATTTCCAAAAGAAAAATCACG
185598 ATGAGAAGAATTTGTTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTTGCTTG
1 ATGAGAAGAATTTGTTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTTGCTTG
*
185663 A-GGATTAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGGGGGAGAAGAAG
66 AGGGATTAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAGGGGAGAAGAAG
* * * *
185727 TTCATAATGAGAAGAACTTATTTGACATATTGCTAGATTCACAACACTTCGAATCAGCAATACCT
131 TTCATAATGAGAAGAACTTGTTTGACCTATTGCTAGATTCACAACACTTCGAATCAGTAACACCT
* * * *
185792 CACTAAATGGATCAACATTTCCAGAAG-AAAATCACA
196 CACTTAAGGGATCAACATTTCCAAAAGAAAAATCACG
185828 ATGAGAAGAA
1 ATGAGAAGAA
185838 CCTGCGACTT
Statistics
Matches: 443, Mismatches: 29, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
230 18 0.04
231 130 0.29
232 14 0.03
233 281 0.63
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.27
Consensus pattern (232 bp):
ATGAGAAGAATTTGTTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTTGCTTG
AGGGATTAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAGGGGAGAAGAAG
TTCATAATGAGAAGAACTTGTTTGACCTATTGCTAGATTCACAACACTTCGAATCAGTAACACCT
CACTTAAGGGATCAACATTTCCAAAAGAAAAATCACG
Found at i:189037 original size:14 final size:14
Alignment explanation
Indices: 189018--189044 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
189008 TCTATGCATT
189018 TTTGCATTATATTC
1 TTTGCATTATATTC
189032 TTTGCATTATATT
1 TTTGCATTATATT
189045 ATTTATTCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.11, G:0.07, T:0.59
Consensus pattern (14 bp):
TTTGCATTATATTC
Found at i:192285 original size:14 final size:14
Alignment explanation
Indices: 192275--192313 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
192265 CCTAAAATAA
192275 AAAGAAAAAAAAAG
1 AAAGAAAAAAAAAG
192289 AAAGAAAAAGAAAAAGG
1 AAAG-AAAA-AAAAA-G
192306 AAAGAAAA
1 AAAGAAAA
192314 TGAGAGGTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.18
15 4 0.18
16 9 0.41
17 5 0.23
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAAAG
Found at i:192288 original size:10 final size:10
Alignment explanation
Indices: 192268--192313 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
192258 TATTACGCCT
192268 AAAATAAAAAG
1 AAAA-AAAAAG
192279 AAAAAAAAAG
1 AAAAAAAAAG
*
192289 AAAGAAAAAG
1 AAAAAAAAAG
*
192299 AAAAAGGAAAG
1 AAAAA-AAAAG
192310 AAAA
1 AAAA
192314 TGAGAGGTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
10 19 0.61
11 12 0.39
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:192308 original size:17 final size:15
Alignment explanation
Indices: 192275--192313 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
192265 CCTAAAATAA
192275 AAAG-AAAAAAAAAG
1 AAAGAAAAAAAAAAG
192289 AAAGAAAAAGAAAAAGG
1 AAAGAAAAA-AAAAA-G
192306 AAAGAAAA
1 AAAGAAAA
192314 TGAGAGGTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.18
15 4 0.18
16 5 0.23
17 9 0.41
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAAAAAG
Found at i:193504 original size:136 final size:136
Alignment explanation
Indices: 193246--193934 Score: 862
Period size: 136 Copynumber: 5.1 Consensus size: 136
193236 TGAACTGATC
* * * *
193246 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCACCCGAAAAAGGGAAAAGAAGTTCATAA
1 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAA
* * * ** * * * * *
193311 TGAGAATAGCTTGTTCAATTTATCACTCGATTCACGACATTTCGAATTAGTGGCGCCTCGCTTGA
66 TGAGAAGAACTTGTTCGACCTATCGCTCGATTCACGATATTTCGAATCAGTGACGCCTCGCTTAA
193376 GGGATT
131 GGGATT
*
193382 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGTGGGAGAAGAAGTTCATAA
1 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAA
* ** * * *
193447 TGAGAAGAGCTTGTTCGACCTATCGCTCGATTCACGATATTTTAAATCAGCGACGCCTCACTTTA
66 TGAGAAGAACTTGTTCGACCTATCGCTCGATTCACGATATTTCGAATCAGTGACGCCTCGCTTAA
193512 GGGATT
131 GGGATT
* *
193518 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTTATCCGAAAGAGGGAGAAGAGGTTCATAA
1 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAA
* * * * ** * * *
193583 TGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAATATTTTGAAGCAGCAATGTCTCGCTTGA
66 TGAGAAGAACTTGTTCGACCTATCGCTCGATTCACGATATTTCGAATCAGTGACGCCTCGCTTAA
193648 GGGATT
131 GGGATT
* * * * * *
193654 GATATTTCCATTGGAGAGTTCATAATGAG-AGAATCTCCTCCGAAAGAGGGAG-AGAAAGTTTAT
1 AACATTTCAAATGGAGAGTTCATAATGAGAAGAA-CTCATCCGAAAGAGGGAGAAG-AAGTTCAT
* * * *
193717 AATGAGAAGAACTTATTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTCGCTT
64 AATGAGAAGAACTTGTTCGACCTATCGCTCGATTCACGATATTTCGAATCAGTGACGCCTCGCTT
193782 AAGGGATT
129 AAGGGATT
* *
193790 GACATTTTAAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAA-AGGGAGAAGAAGTTCAT
1 AACA-TTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGA-AAGAGGGAGAAGAAGTTCAT
* * * * * * *
193854 AATGAGAAGAACTTGTTCGACCTATTGCTAGATTCACAATACTTCGAATCAGTAACACCTCACTT
64 AATGAGAAGAACTTGTTCGACCTATCGCTCGATTCACGATATTTCGAATCAGTGACGCCTCGCTT
193919 AAGGGATT
129 AAGGGATT
193927 AACATTTC
1 AACATTTC
193935 CAAAAGAAAA
Statistics
Matches: 476, Mismatches: 71, Indels: 12
0.85 0.13 0.02
Matches are distributed among these distances:
135 6 0.01
136 354 0.74
137 108 0.23
138 8 0.02
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (136 bp):
AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCGACCTATCGCTCGATTCACGATATTTCGAATCAGTGACGCCTCGCTTAA
GGGATT
Found at i:194020 original size:96 final size:96
Alignment explanation
Indices: 193855--194034 Score: 234
Period size: 96 Copynumber: 1.9 Consensus size: 96
193845 GAAGTTCATA
**
193855 ATGAGAAGAACTTGTTCGACCTATTGCTAGATTCACAATACTTCGAATCAGTAACACCTCACTTA
1 ATGAGAAGAACTTGTTCGACCTATCACTAGATTCACAATACTTCGAATCAGTAACACCTCACTTA
193920 AGGGATTAACATTTCCAAAAGAAAAATCACG
66 AGGGATTAACATTTCCAAAAGAAAAATCACG
* * * * * * * * ** *
193951 ATGAGAAGAATTTGTTTGACCTATCACTCGATTCACGATATTTTGAATCAGTGACGCCTTGCTTG
1 ATGAGAAGAACTTGTTCGACCTATCACTAGATTCACAATACTTCGAATCAGTAACACCTCACTTA
*
194016 AGGGATTAACATTTTCAAA
66 AGGGATTAACATTTCCAAA
194035 TGGAGAGTTC
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
96 70 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (96 bp):
ATGAGAAGAACTTGTTCGACCTATCACTAGATTCACAATACTTCGAATCAGTAACACCTCACTTA
AGGGATTAACATTTCCAAAAGAAAAATCACG
Found at i:194022 original size:233 final size:233
Alignment explanation
Indices: 193718--194426 Score: 1202
Period size: 233 Copynumber: 3.0 Consensus size: 233
193708 AAAGTTTATA
* * * *
193718 ATGAGAAGAACTTATTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTCGCTTA
1 ATGAGAAGAATTTGTTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTTGCTTG
* * *
193783 AGGGATTGACATTTTAAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAAGGGAGAAGAA
66 AGGGATTAACATTTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAGGGGAGAAGAA
* *
193848 GTTCATAATGAGAAGAACTTGTTCGACCTATTGCTAGATTCACAATACTTCGAATCAGTAACACC
131 GTTCATAATGAGAAGAACTTGTTTGACCTATTGCTAGATTCACAACACTTCGAATCAGTAACACC
*
193913 TCACTTAAGGGATTAACATTTCCAAAAGAAAAATCACG
196 TCACTTAAGGGATCAACATTTCCAAAAGAAAAATCACG
* *
193951 ATGAGAAGAATTTGTTTGACCTATCACTCGATTCACGATATTTTGAATCAGTGACGCCTTGCTTG
1 ATGAGAAGAATTTGTTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTTGCTTG
*
194016 AGGGATTAACATTTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAAGGGGAGAAGAA
66 AGGGATTAACATTTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAGGGGAGAAGAA
194081 GTTCATAATGAGAAGAACTTGTTTGACCTATTGCTAGATTCACAACACTTCGAATCAGTAACACC
131 GTTCATAATGAGAAGAACTTGTTTGACCTATTGCTAGATTCACAACACTTCGAATCAGTAACACC
**
194146 TCACTTAAGGGATCAACATTTTTAAAAGAAAAATCACG
196 TCACTTAAGGGATCAACATTTCCAAAAGAAAAATCACG
194184 ATGAGAAGAATTTGTTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTTGCTTG
1 ATGAGAAGAATTTGTTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTTGCTTG
*
194249 AGGGATTAACATTTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGGGGGAGAAGAA
66 AGGGATTAACATTTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAGGGGAGAAGAA
* * * *
194314 GTTCATAATGAGAAGAACTTATTTGACATATTGCTAGATTCACAACACTTCGAATCAGCAATACC
131 GTTCATAATGAGAAGAACTTGTTTGACCTATTGCTAGATTCACAACACTTCGAATCAGTAACACC
* * * *
194379 TCACTAAATGGATCAACATTTCCAGAAGAAAAATCACA
196 TCACTTAAGGGATCAACATTTCCAAAAGAAAAATCACG
194417 ATGAGAAGAA
1 ATGAGAAGAA
194427 CCTGCGACTT
Statistics
Matches: 447, Mismatches: 29, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
233 447 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.27
Consensus pattern (233 bp):
ATGAGAAGAATTTGTTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTTGCTTG
AGGGATTAACATTTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAAGGGGAGAAGAA
GTTCATAATGAGAAGAACTTGTTTGACCTATTGCTAGATTCACAACACTTCGAATCAGTAACACC
TCACTTAAGGGATCAACATTTCCAAAAGAAAAATCACG
Found at i:194253 original size:96 final size:96
Alignment explanation
Indices: 194088--194263 Score: 244
Period size: 96 Copynumber: 1.8 Consensus size: 96
194078 GAAGTTCATA
**
194088 ATGAGAAGAACTTGTTTGACCTATTGCTAGATTCACAACACTTCGAATCAGTAACACCTCACTTA
1 ATGAGAAGAACTTGTTTGACCTATCACTAGATTCACAACACTTCGAATCAGTAACACCTCACTTA
194153 AGGGATCAACATTTTTAAAAGAAAAATCACG
66 AGGGATCAACATTTTTAAAAGAAAAATCACG
* * * * * * ** *
194184 ATGAGAAGAATTTGTTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTTGCTTG
1 ATGAGAAGAACTTGTTTGACCTATCACTAGATTCACAACACTTCGAATCAGTAACACCTCACTTA
*
194249 AGGGATTAACATTTT
66 AGGGATCAACATTTT
194264 CAAATGGAGA
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
96 68 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (96 bp):
ATGAGAAGAACTTGTTTGACCTATCACTAGATTCACAACACTTCGAATCAGTAACACCTCACTTA
AGGGATCAACATTTTTAAAAGAAAAATCACG
Found at i:198929 original size:3 final size:3
Alignment explanation
Indices: 198921--198974 Score: 81
Period size: 3 Copynumber: 18.0 Consensus size: 3
198911 TTAATATATT
* * *
198921 TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
198969 TAA TAA
1 TAA TAA
198975 ATAAATCAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:199338 original size:124 final size:122
Alignment explanation
Indices: 199122--199404 Score: 344
Period size: 124 Copynumber: 2.3 Consensus size: 122
199112 GTTGAATAAA
* *
199122 TTCTTCTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGTTGGGGATGATGTTGACCTA
1 TTCTT-TCTTT-TTCAGATGAGTTCTTCTCATTATGAACTTTCTGTTGGGGATGATGCTAACCTA
* * * * *
199187 TTTCCTTATGTGATAGAGTCATTCAAAAGGTTAAATAAGCTCTTCTCATTATGAACTTC
64 TCTACTTATGTGATAGAATCATGCAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTC
* * *
199246 TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTT-T-TCTGGAAATGTTGATGCTAATC
1 TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTGT-TGG---GGATGATGCTAACC
* * * *
199309 TATCTACTTCTGTGATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTC
62 TATCTACTTATGTGATAGAATCATGCAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTC
199370 TTC-TTC---TTCAGATGAGTTCTTCTCATTATGAACTT
1 TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTT
199405 CTTTTTCTTC
Statistics
Matches: 141, Mismatches: 14, Indels: 12
0.84 0.08 0.07
Matches are distributed among these distances:
120 30 0.21
121 4 0.03
122 30 0.21
123 8 0.06
124 69 0.49
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.43
Consensus pattern (122 bp):
TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTGTTGGGGATGATGCTAACCTATC
TACTTATGTGATAGAATCATGCAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTC
Found at i:199391 original size:36 final size:36
Alignment explanation
Indices: 199351--199439 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 36
199341 TTGAACAAGC
* *
199351 TCTTCTCATTGTGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAAT
*
199387 TCTTCTCATTATGAACTTCTTTTTCTTCAGATGAAT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAAT
199423 TCTTCTCATTATGAACT
1 TCTTCTCATTATGAACT
199440 CTACCTGGCA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.20, C:0.21, G:0.10, T:0.48
Consensus pattern (36 bp):
TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAAT
Found at i:199568 original size:38 final size:39
Alignment explanation
Indices: 199493--199595 Score: 145
Period size: 38 Copynumber: 2.6 Consensus size: 39
199483 AGGTTGAACA
199493 AATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGACG
1 AATTCTTCTCATTATGAAC----TCTTCCTTCTTCAGATGACG
199536 AATTCTTCTCATTATGAACTCTT-CTTCTTCAGATGACG
1 AATTCTTCTCATTATGAACTCTTCCTTCTTCAGATGACG
* *
199574 AGTTCTTCTGATTATGAACTCT
1 AATTCTTCTCATTATGAACTCT
199596 ATCTGGCAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
38 35 0.60
39 4 0.07
43 19 0.33
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.44
Consensus pattern (39 bp):
AATTCTTCTCATTATGAACTCTTCCTTCTTCAGATGACG
Found at i:199579 original size:19 final size:19
Alignment explanation
Indices: 199521--199582 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
199511 CTTATTCTTC
199521 CTTCTTCAGATGACGAATT
1 CTTCTTCAGATGACGAATT
* **
199540 CTTC-TCATTATGAAC-TCTT
1 CTTCTTCA-GATG-ACGAATT
*
199559 CTTCTTCAGATGACGAGTT
1 CTTCTTCAGATGACGAATT
199578 CTTCT
1 CTTCT
199583 GATTATGAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
18 5 0.15
19 23 0.70
20 5 0.15
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (19 bp):
CTTCTTCAGATGACGAATT
Found at i:199615 original size:154 final size:147
Alignment explanation
Indices: 199334--199710 Score: 573
Period size: 154 Copynumber: 2.5 Consensus size: 147
199324 TAGAATTATG
* *
199334 CAAAAGGTTGAACAAGCTCTTCTCATTGTGAAC--TTCTT-CTTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
199396 TATGAACTTCTTTTTCTTCAGATGAATTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCA
66 TATGAAC-TCTTCTTCTTCAGATGAATTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCA
199461 TCAAATGATGAATTTAAA
130 TCAAATGATGAATTTAAA
*
199479 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGACGAATTCTTC
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTT-TTCTTCCTTCTTCAGATGA-G--TTCTTC
* *
199544 TCATTATGAACTCTTCTTCTTCAGATGACGAGTTCTTCTGATTATGAACTCTATCTGGCAATGTT
62 TCATTATGAACTCTTCTTCTTCAGATGA--A-TTCTTCTCATTATGAACTCTACCTGGCAATGTT
*
199609 AATCCATCAATTGATGAATTTAAA
124 AATCCATCAAATGATGAATTTAAA
199633 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTT-TTCTTCCTTCTTCAGATGAGTTCTTCTCA
199698 TTATGAACT-TTCT
65 TTATGAACTCTTCT
199711 GGAAAAGCTG
Statistics
Matches: 212, Mismatches: 10, Indels: 15
0.89 0.04 0.06
Matches are distributed among these distances:
145 30 0.14
148 5 0.02
149 13 0.06
150 5 0.02
151 34 0.16
152 17 0.08
153 2 0.01
154 106 0.50
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (147 bp):
CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTCTTCTTCTTCAGATGAATTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCAT
CAAATGATGAATTTAAA
Found at i:199704 original size:113 final size:113
Alignment explanation
Indices: 199538--200403 Score: 1234
Period size: 113 Copynumber: 7.7 Consensus size: 113
199528 AGATGACGAA
** * * * *
199538 TTCTTCTCATTATGAAC-TCTTCTT-CTTC-AGATGACGAGTTCTTCTGATTATGAACTCTATCT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA-GATGAGTTCTTCTCATTATGAACTTTCTCT
* * * * * **
199600 GGCAATGTTAATCCATCAATTGATGAATTTAAACAAAAGGTTGAACAAG
65 GGAAAAGCTGATCCATCAAGTGATGAATTTAGGCAAAAGGTTGAACAAG
199649 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TT-TCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
199712 GAAAAGCTGATCCATCAATTGATGAATTCAGGCAAAAGGTTGAACAAG
66 GAAAAGCTGATCCATCAAGTGATGAATTTAGGCAAAAGGTTGAACAAG
199760 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
199825 GAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAGTGATGAATTTAGGCAAAAGGTTGAACAAG
* *
199873 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGCGTTCTTCTCATTATGAACTTCCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * * * *
199938 G-AAAGTTTGATCCATCAAGTGATG-GTTTTGAACAAAAAGTTGAACAAA
66 GAAAAG-CTGATCCATCAAGTGATGAATTTAG-GCAAAAGGTTGAACAAG
* *
199986 TTCTTCTCATTATGAA--T-TTATT-CTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TTC
* * * * * **
200047 -CTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAG
62 TCTGGAAAAGCTGATCCATCAAGTGATGAATTTAGGCAAAAGGTTGAACAAG
200098 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
200163 GAAAAGCTGATCCATCAATTGATGAATTCAGGCAAAAGGTTGAACAAG
66 GAAAAGCTGATCCATCAAGTGATGAATTTAGGCAAAAGGTTGAACAAG
200211 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
*
200276 GAAAAGCTGATCCATCAAGTGATGAATTTAGGCAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAGTGATGAATTTAGGCAAAAGGTTGAACAAG
200324 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
200389 GAAATGTTGATCCAT
66 GAAAAGCTGATCCAT
200404 TGTTATGGAT
Statistics
Matches: 689, Mismatches: 48, Indels: 34
0.89 0.06 0.04
Matches are distributed among these distances:
109 11 0.02
110 4 0.01
111 120 0.17
112 90 0.13
113 447 0.65
114 2 0.00
115 4 0.01
116 11 0.02
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAGCTGATCCATCAAGTGATGAATTTAGGCAAAAGGTTGAACAAG
Found at i:200104 original size:338 final size:335
Alignment explanation
Indices: 199536--200403 Score: 1272
Period size: 338 Copynumber: 2.6 Consensus size: 335
199526 TCAGATGACG
*
199536 AATTCTTCTCATTATGAA---C-TCTT-CTTCTTCAGATGACGAGTTCTTCTGATTATGAAC-TC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG-C--GTTCTTCTCATTATGAACTTC
* * * * *
199595 TATCTGGCAA-TGTTAATCCATCAATTGATGAATTTAAACAAAAGGTTGAACAAGTTCTTCTCAT
63 -CTCTGGAAAGT-TTGATCCATCAAGTGATGAATTT-AACAAAAGGTTGAACAAATTCTTCTCAT
* * *
199659 TATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGGAAAAGCTGATC
125 TATGAAC-TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTGGAAATGTTGATC
* **
199724 CATCAATTGATGAATTCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTT
189 CATCAAATGATGAATTCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTT
199789 CTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTC
254 CTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTC
199854 AGGCAAAAGGTTGAACA
319 AGGCAAAAGGTTGAACA
199871 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGCGTTCTTCTCATTATGAACTTCCTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGCGTTCTTCTCATTATGAACTTCCTC
** *
199936 TGGAAAGTTTGATCCATCAAGTGATGGTTTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGA
66 TGGAAAGTTTGATCCATCAAGTGATGAATTT-AACAAAAGGTTGAACAAATTCTTCTCATTATGA
* * *
200001 A-T-TTATT-CTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCC
130 ACTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-T-CCTGGAAATGTTGATCC
*
200063 ATCAAATGATGAATTTAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
190 ATCAAATGATGAATTCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
*
200128 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAATTGATGAATTCA
255 TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTCA
200193 GGCAAAAGGTTGAACA
320 GGCAAAAGGTTGAACA
* * *
200209 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGCGTTCTTCTCATTATGAACTTCCTC
* *
200274 TGGAAAAG-CTGATCCATCAAGTGATGAATTTAGGCAAAAGGTTGAACAAATTCTTCTCATTATG
66 TGG-AAAGTTTGATCCATCAAGTGATGAATTTA-ACAAAAGGTTGAACAAATTCTTCTCATTATG
200338 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTGATCCA
129 AAC-TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTC-CTGGAAATGTTGATCCA
200403 T
191 T
200404 TGTTATGGAT
Statistics
Matches: 481, Mismatches: 32, Indels: 36
0.88 0.06 0.07
Matches are distributed among these distances:
333 11 0.02
334 4 0.01
335 19 0.04
336 21 0.04
337 77 0.16
338 274 0.57
339 46 0.10
340 14 0.03
341 4 0.01
342 11 0.02
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (335 bp):
AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGCGTTCTTCTCATTATGAACTTCCTC
TGGAAAGTTTGATCCATCAAGTGATGAATTTAACAAAAGGTTGAACAAATTCTTCTCATTATGAA
CTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTGGAAATGTTGATCCATCAAA
TGATGAATTCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
TGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAA
AGGTTGAACA
Found at i:200289 original size:451 final size:448
Alignment explanation
Indices: 199536--200403 Score: 1621
Period size: 451 Copynumber: 1.9 Consensus size: 448
199526 TCAGATGACG
* * *
199536 AATTCTTCTCATTATGAACTCTTCTTCTTCAGATGACGAGTTCTTCTGATTATGAACTCTATCTG
1 AATTCTTCTCATTATGAACTATTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTG
*
199601 GCAATGTTAATCCATCAATTGATGAATTTAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
66 GCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
199666 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGGAAAAGCTGATCCATCAAT
131 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGGAAAAGCTGATCCATCAAT
199731 TGATGAATTCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
196 TGATGAATTCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
199796 TGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAA
261 TGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAA
*
199861 AGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGCGTTCTTCTCATTAT
326 AGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTAT
199926 GAACTTCCTCTGGAAA-GTTTGATCCATCAAGTGATGGTTTTGAACAAAAAGTTGAACA
391 GAACTTCCTCTGGAAATG-TTGATCCATCAAGTGATGGTTTTGAACAAAAAGTTGAACA
*
199984 AATTCTTCTCATTATGAATTTATTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCT
1 AATTCTTCTCATTATGAA-CTATTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCT
200049 GGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAA
65 GGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAA
200114 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATC
130 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TT-TCTGGAAAAGCTGATCCATC
200179 AATTGATGAATTCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
193 AATTGATGAATTCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
*
200244 AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTTAGGC
258 AGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTCAGGC
200309 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
323 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
200374 TATGAACTTTCTCTGGAAATGTTGATCCAT
388 TATGAACTTCCTCTGGAAATGTTGATCCAT
200404 TGTTATGGAT
Statistics
Matches: 408, Mismatches: 8, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
448 18 0.04
449 147 0.36
450 2 0.00
451 240 0.59
452 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (448 bp):
AATTCTTCTCATTATGAACTATTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTG
GCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTGGAAAAGCTGATCCATCAAT
TGATGAATTCAGGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
TGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAA
AGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTAT
GAACTTCCTCTGGAAATGTTGATCCATCAAGTGATGGTTTTGAACAAAAAGTTGAACA
Found at i:201277 original size:115 final size:115
Alignment explanation
Indices: 201101--201416 Score: 535
Period size: 115 Copynumber: 2.8 Consensus size: 115
201091 GATCATGTAG
* * * *
201101 TTCATCTTTTAATTCCAATGATTGGTTCTGTAG-TTCCTACCAAACCAGATCAAATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAAATAACTCAAAG
201165 AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
66 AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
*
201215 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATATCAAACCAGATCAAATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAAATAACTCAAAG
*
201280 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
66 AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
** *
201330 TTCATCTTTCAAATTTAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAAATAACTCAAAG
*
201395 AACACTTCCATAAGATGCTATT
66 AACACTTCCAGAAGATGCTATT
201417 AGCACATTTA
Statistics
Matches: 190, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
114 30 0.16
115 160 0.84
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.34
Consensus pattern (115 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAAATAACTCAAAG
AACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
Found at i:201464 original size:83 final size:83
Alignment explanation
Indices: 201368--201589 Score: 345
Period size: 83 Copynumber: 2.7 Consensus size: 83
201358 TGTGGTTTCA
* * * **
201368 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCATAAGATGCTATTAGCACATTTATCTTTT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCC
**
201433 AAATTCAATGATTGGTTT
66 AAATTCAATGATTAATTT
* *
201451 TACCAAACCAGATCAGATAACTTAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCC
*
201516 AAATTTAATGATTAATTT
66 AAATTCAATGATTAATTT
*
201534 TACCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
201590 GGCATTTGTT
Statistics
Matches: 127, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 127 1.00
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.28
Consensus pattern (83 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCC
AAATTCAATGATTAATTT
Found at i:202598 original size:19 final size:19
Alignment explanation
Indices: 202574--202699 Score: 68
Period size: 19 Copynumber: 6.6 Consensus size: 19
202564 TTCATAGAAG
202574 AATAAATTGAATTTTCGAA
1 AATAAATTGAATTTTCGAA
*
202593 AATAAATTGAA-TCTC--A
1 AATAAATTGAATTTTCGAA
*
202609 AATAAATTGAA-CTT-G-A
1 AATAAATTGAATTTTCGAA
* * * *
202625 AATAGATAGAATTTT-TATC
1 AATAAATTGAATTTTCGA-A
* *
202644 AATAAATTATGTTAATTCATAGAA
1 AATAAA-T-TG--AATT-TTCGAA
202668 GAATAAATTGAATTTTCGAA
1 -AATAAATTGAATTTTCGAA
202688 AATAAATTGAAT
1 AATAAATTGAAT
202700 CTCAAATAAA
Statistics
Matches: 81, Mismatches: 15, Indels: 22
0.69 0.13 0.19
Matches are distributed among these distances:
16 23 0.28
17 2 0.02
18 3 0.04
19 28 0.35
20 5 0.06
21 5 0.06
23 6 0.07
24 2 0.02
25 7 0.09
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (19 bp):
AATAAATTGAATTTTCGAA
Found at i:202715 original size:95 final size:95
Alignment explanation
Indices: 202552--202732 Score: 362
Period size: 95 Copynumber: 1.9 Consensus size: 95
202542 ACTTATTTCA
202552 AAATTATGTTAATTCATAGAAGAATAAATTGAATTTTCGAAAATAAATTGAATCTCAAATAAATT
1 AAATTATGTTAATTCATAGAAGAATAAATTGAATTTTCGAAAATAAATTGAATCTCAAATAAATT
202617 GAACTTGAAATAGATAGAATTTTTATCAAT
66 GAACTTGAAATAGATAGAATTTTTATCAAT
202647 AAATTATGTTAATTCATAGAAGAATAAATTGAATTTTCGAAAATAAATTGAATCTCAAATAAATT
1 AAATTATGTTAATTCATAGAAGAATAAATTGAATTTTCGAAAATAAATTGAATCTCAAATAAATT
202712 GAACTTGAAATAGATAGAATT
66 GAACTTGAAATAGATAGAATT
202733 GTATTCAAAG
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 86 1.00
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (95 bp):
AAATTATGTTAATTCATAGAAGAATAAATTGAATTTTCGAAAATAAATTGAATCTCAAATAAATT
GAACTTGAAATAGATAGAATTTTTATCAAT
Found at i:202771 original size:95 final size:95
Alignment explanation
Indices: 202552--202756 Score: 283
Period size: 95 Copynumber: 2.2 Consensus size: 95
202542 ACTTATTTCA
** * *
202552 AAATTATGTTAATTCATAGAAGAATAAATTGAATTTTCGAAAATAAATTGAATCTCAAATAAATT
1 AAATTATGACAATACATAGAAGAAAAAATTGAATTTTCGAAAATAAATTGAATCTCAAATAAATT
*
202617 GAACTTGAAATAGATAGAATTTTTATCAAT
66 GAACTTGAAATAGATAGAATTTATATCAAT
** * *
202647 AAATTATGTTAATTCATAGAAGAATAAATTGAATTTTCGAAAATAAATTGAATCTCAAATAAATT
1 AAATTATGACAATACATAGAAGAAAAAATTGAATTTTCGAAAATAAATTGAATCTCAAATAAATT
202712 GAACTTGAAATAGATAGAATTGTAT-TC-A-
66 GAACTTGAAATAGATAGAATT-TATATCAAT
*
202740 AAGTTATGACAA-ACATA
1 AAATTATGACAATACATA
202757 AGATTGATAA
Statistics
Matches: 104, Mismatches: 5, Indels: 5
0.91 0.04 0.04
Matches are distributed among these distances:
92 4 0.04
93 9 0.09
94 1 0.01
95 88 0.85
96 2 0.02
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (95 bp):
AAATTATGACAATACATAGAAGAAAAAATTGAATTTTCGAAAATAAATTGAATCTCAAATAAATT
GAACTTGAAATAGATAGAATTTATATCAAT
Found at i:213646 original size:26 final size:26
Alignment explanation
Indices: 213590--213646 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
213580 TATTAATAAG
* *
213590 AAAATATATACATACTATGAAAATAA
1 AAAATATATAAATACTATGAAAAGAA
* *
213616 TAAATATATAAAATA-TTTGAAAAGAA
1 AAAATATAT-AAATACTATGAAAAGAA
213642 AAAAT
1 AAAAT
213647 TGTAAATTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (26 bp):
AAAATATATAAATACTATGAAAAGAA
Found at i:215615 original size:3 final size:3
Alignment explanation
Indices: 215586--215656 Score: 79
Period size: 3 Copynumber: 23.0 Consensus size: 3
215576 ATGGGTTTTG
* * * *
215586 TAA TAT TAA TAAA TAA TATA TAT TAA TAA TAA TAA TAA TTA TAA TTA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
215633 TAA TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
215657 ATTTTAAAAT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
3 50 0.89
4 6 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:218251 original size:26 final size:26
Alignment explanation
Indices: 218192--218252 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
218182 TAAGGCACAT
* *
218192 AATTAATTATGATGATTAGGATAAAA
1 AATTAATTATGATCACTAGGATAAAA
*
218218 AGTTTAATTATGATCACTA-GATTAAAA
1 A-ATTAATTATGATCACTAGGA-TAAAA
218245 AATTAATT
1 AATTAATT
218253 TCTATATTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 9 0.31
27 20 0.69
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.38
Consensus pattern (26 bp):
AATTAATTATGATCACTAGGATAAAA
Done.