Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: MT122971
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 186172
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Found at i:4161 original size:27 final size:27
Alignment explanation
Indices: 4123--4179 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
4113 TTCGACCTAC
4123 AGGTACGAAGTCTCTGCGCTTGCGCAG
1 AGGTACGAAGTCTCTGCGCTTGCGCAG
4150 AGGTACGAAGTCTCTGCGCTTGCGCAG
1 AGGTACGAAGTCTCTGCGCTTGCGCAG
4177 AGG
1 AGG
4180 GAGAGTGGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.19, C:0.25, G:0.35, T:0.21
Consensus pattern (27 bp):
AGGTACGAAGTCTCTGCGCTTGCGCAG
Left flanking sequence: Indices 3623 -- 4122
CATAGGACCACTCCATGTGGTTACCCTACAAGGAGGTACGTAGGGGAGAAGGGTAGACCCCAGTT
TTTCAATCCTTTACTAGATACAGATGATGTAGACAGAATACGAAGATTCTCCAGGGTCCGCGATA
AGTAAATTGGAAAATTCCCATCATCTTCAACTTAGCCGGTTCTCGCTCTTTATAGCAGCTTAGCC
CGCTTCGACCAGGAATCTGTCAAGTTAGTAGCTAATAGTAGCTAATAAGAGAGTCTCACCCTCCC
GCGTGATCCCGCAGCGCAAGCATCTCCATAAGGAAGTCATCACCTTCTAACAGAAAAGTAACCCA
CAAGGTAAGGAAAGAAAGCAGAAATAAAAGGCGAGAGCATAGTGATCACCGGCGCTTTTCGTGGG
GGAAGCAGAGGTACGAAGTCGTTTGTTCGTTTTTACCTATGTGAAGTTGAACATAGTACAGAGAT
TCGTTTCAAACGTTTACAACGAATAGTTCAACTCATTCGACCTAC
Right flanking sequence: Indices 4180 -- 4679
GAGAGTGGATGTTATCGGTTACTAGATTTGGGCCAAGTAAATAATTTTTGGTAAATATAAGAGAA
TTTTATTATGATTTTGACAAAGTTATTTTCAAATGCAGAGAAGGTCACCCTAATATCTTGGCGTG
GTATCTTTGAAGGTACCAGACGGCTAAAGGGATTACTCTTGCGAGTCCCTTTAGTCGTTCTATCA
GTTTAAGTTGGACTTCATTTTCGCGAACTGTTGTTAGAATGGGACGAAAGTCTGGTTTCATTATA
TTGAAAGCAGTGTGGCGTAAGTCTTCAGCGATACTATGCTTCCAAACATGATCAGCTTTCTAGGG
CTACCTGTGGTCATTCCTTCTTATGTCCGAAAGGTTATTAGAAGGCATGACTCCAGGTCTGATCA
GTGGGTCATAATTGGTTTGGTATTTGTAGAATCATACCTTTGGCGAAGAAAGTTTCTTCGTCACT
GTTTGAATCTATAACTACTCCATCAAGTGATATTGATTCTGTAAA
Found at i:6283 original size:9 final size:9
Alignment explanation
Indices: 6269--6302 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
6259 CCGGATCTAC
6269 TACTAGATA
1 TACTAGATA
6278 TACTAGATA
1 TACTAGATA
6287 TACTAGATA
1 TACTAGATA
6296 TACTAGA
1 TACTAGA
6303 GGTCAAGCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (9 bp):
TACTAGATA
Left flanking sequence: Indices 5769 -- 6268
AGGACTGTGCTCCGTAATTGGATGTCACAGTGGCTTGATTGGGTCTATTGGTACTATTCGACTGA
GACAGTGTCCATTGAGGTACGAAGTCACTCGACCGTAAGGTCGAGGGGCTACCGCCAACTCATTC
TGTTCAACGAATCTTTCAATTGCAGTCGACCAAACCGATTGAAGCAAGCATGAGTAGTATCCCTT
CCTTCGTTGTCCCTTTCTTATTTAGAATATCTCTTTGGCTACCAACTCAAAGGCGGTAAGATTTG
GAACCCAGAGAAAAATCCGAAATAACATCTGAATCGGATATTCAGTTGTTCAATCTGCGGGTGCT
TTGAAAAGCTTTATTCCCGTGTAGACATTATTTGACGAATTCGGAAGAAAGGGAATAAAAATAAT
CCACAGAGTCGACTGATGCATCTATACTATTGAGTTGAGAGAAAGAAAAGATGGGACTAGTTTGC
TACTCCTACTAATAAGAACCTAACAGAAGATCCATCCGGATCTAC
Right flanking sequence: Indices 6303 -- 6802
GGTCAAGCGGCTCCCCTTACGTAGATAGATGGTCCCTGCTTGTCTGGCGAACTAGGCAATTTCCT
TGGGTACGGTTCATTCTAAACGATTTTTCACCCTCTGGTCAATGATAGTCTATATGGCAAAACGC
TATAGGAGACACGTGTACACCGACGGAATACCTTCTGCGACTATCATGGCTAGGGTAATAATTCG
TATATAACAACATCTAATTGCGTATATCCTAAGTCCAATGTGAATGAGAATGGATAAGAGGCTCG
TGGGATTGACGTGAGGGGGCAGGGATGGCTATATTTATGAACTCCGGGCGAATATGAAGCGCATG
GGTAGAAATTCCGAATTCGCTTTGTCTACGAACAACTCATTTTCAACTATGTTACAGAAATGAGT
ATCAAAACGAACAACGAATAGTTCAACTCATTTCGTGTAACTATGTTACACTCATTTCGTACCTT
AGTTGCCACTGATCGATTCATCTATAGCCTAGGCTTCATCCATGC
Found at i:27767 original size:9 final size:9
Alignment explanation
Indices: 27753--27779 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
27743 GGTCTGGACC
27753 CTACTACTT
1 CTACTACTT
27762 CTACTACTT
1 CTACTACTT
27771 CTACTACTT
1 CTACTACTT
27780 TTGAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.44
Consensus pattern (9 bp):
CTACTACTT
Left flanking sequence: Indices 27253 -- 27752
CTTTCAATGGCTCCCTTAATTATGTGCGAGGAATTGCCCTATTGAGTAATGGGAAGCGGGCTAGT
CCCCGAAAATGCCCCGCCCGTAAGTTCCTTTGTCGTTGGGGAAAAAAAAGAAAGAGATTTTTTTG
AGAAAAGAAATTCTGCCTTTTTTGATCCCATGCTTTCCGTTGGTCAACAACCAACGAAAATCTCT
AGACTTCTTCACTACTCGTACAGGCTTGACGGAGTTAAGCTGTATTGAGGGAATCATCTTATAAA
ATCAAAATACGGTGCAACGAATTTTCCGCTTTGATGAAGCTAGTCTGAACTCAAGTTCCAGTAAT
ATAGCTTCGACTTCGTCTAGTAGTTCATTCGGAACTAGTAGTACTGGGATTCAAAATCCTACGAA
TCAATCTACTACGACTATTCACGATTTTAGTCTTCGGTCGTCCAGTACTCAGGTTGATGGGAGTG
GTTCGAGTATTTCGAATAATCATGGTATTTTTGAAGGTCTGGACC
Right flanking sequence: Indices 27780 -- 28279
TTGAAAATATAGCGGACTACCTAAGGGGTGAAATCTTTGAGTCCGTTCAAAAAGTCTTCCAAAAT
CATTGTTCAGATGAAAACAAATTACTCGCAATCAGCGAAAATTTGCATAATGATGAAGACAGCAC
GGGTTTTCTAAGAGAAATTTTAGAACATTTAAAAGACAAACAGGGTGAGCACTATGACTTTGCCC
TAAAACAATTTAACGTGATTGTAGGGGGGACACCTCCGACGATCACCAGTCCACTTGAACAATTT
GAAATAATCCCATTGATTCCTATGAAAATAGGAAACTTCTATTTCTCATTCACAAATCCATCTTT
GTTTATGCTACTAACTCTCAGTTTGGTCCTACTTTTGGTTTATTTTGTTACTAAAAAGGGAGGAG
GAAACTCAGTACCAAATGCTTGGCAATCCTTGGTAGAGCTTATTTATGATTTCGTGCTGAACCCG
GTAAACGAACAAATAGGTGGTCTTTCCGGAAATGTTAAACAAAAG
Found at i:47065 original size:12 final size:12
Alignment explanation
Indices: 47048--47072 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47038 GCAGAATGCC
47048 TTTGAGATTCAA
1 TTTGAGATTCAA
47060 TTTGAGATTCAA
1 TTTGAGATTCAA
47072 T
1 T
47073 CAATGCGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TTTGAGATTCAA
Left flanking sequence: Indices 46548 -- 47047
CGCAGCCAGTTCAATGTCAGCTATATTCTTCCACGTTCAAATCTAAGTCAAGCAGTCCAGCAGAG
ACTACCGGAATAAAAAGAATGACATCCGTAAAAGAGAAAAAGGCACTCTTTAGGCCTAATCAATT
AAGATTAAATTAAGGAAGCATTCCAATATTTTCAAAACCTTATTGTTATTTTTCATCGGATAGGC
AAAGTTTGAATCAAAGCCAGGCGGCTGGATGGAATGAAGCTCTCCCCTTTGGATAGGGCTCGACT
GACCAGAAAGAGAGTCCCCTATCCTATATTGTTATATTGTCTATTTGATTTTCAGGGCTTTGCAC
TTGAAAGAGATTCCCTTATTATTAGCTTGGGTACACCTTACTTTATGCTAGCTCTGGATGGAAGA
CTGCCTTATCTTATATTTATTGTATTTCTTCCCGGATGGGTGACCACTTTTTCTTTGAGAATACG
AAAGGCCACTGCCGAATCCTTATCCTTGCTTAAGTGCAGAATGCC
Right flanking sequence: Indices 47073 -- 47572
CAATGCGAATTGATTTACCTAGGCTTGACGGATTGTCCTAGCTTTTCATATACGTGGAATGAAAT
ATGAATTAGTAATTCTTGATCCAATCCTGAACAAATGAACAATTGACTTAGGTCCTTGTACGCCG
CGGCTCACCATTTTAGGTTAGGAATAAGGGTGAATCCCGCTTGAAGTCAACTAAGTAAGCCTGGA
AGCGAGAGGTACGAAGGTCACTCGACAGGGGATAAAGTCGCTCGACATAGAGTTGCATCGGATCC
TTCTCCAAAAGAGTGCCTTTGCCCGGCTATCGGTTTTTCTCGAAATAACGCCTTTGAAAAAAAAA
GAATGCTACTTACCAAGGCGACTCTAGAGATTCCAGAAAGTAAGAAGAAGCGTCCGACTATCTAT
CTCATACCTGTCCATCAATCCGATAAGGGGCTATCTTCCTCTATCAAAGAGCGTATTCTCTAACA
CCCCTCAAGGCAATTTCCCCATACTTTTTTTTCCCATGAGCATGG
Found at i:56270 original size:8 final size:8
Alignment explanation
Indices: 56254--56290 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
56244 CGGCATTCTC
56254 TCTTATTT
1 TCTTATTT
*
56262 TCTTCTTT
1 TCTTATTT
56270 TCTTATTT
1 TCTTATTT
*
56278 TCTTCTTT
1 TCTTATTT
56286 TCTTA
1 TCTTA
56291 AATATCAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (8 bp):
TCTTATTT
Left flanking sequence: Indices 55754 -- 56253
TGAGCAGAACGAAATGGCTTCTCTAATAAATCGACTTCCTAAGGAAGAACTTAAAGACGTAATTG
GGGAAAACTCCATTCGAAAGCCACTAAACGAGTTCAACGCAGAGCAGCAAGCACGGTTAATGGAT
CTCGCTATTAACCACTTTTCATTAAAGAATGATATTATTTCGAAAATGAAATTGCTTTATCCTAA
GGATGAATGGGAATTTACTAAAGTGATTCGAGAGGCATTCTTTCTGGGGCGACAAAAAGATCGGG
AGTCTTCCTTGGAAGATCTCCAAAAGATGCTTTACGCTTTAAAGGAAAATGGAAAATATGCGAGT
TGTGCACAAAGGCTACGATATAACATTTCAAATTGGAATTGGAAATCCTAAAAAGGTCTTATTAC
TCTTTTCTGCATATTTACTATACAACACGTATGTTCCACTTTGGATTTGGTCATGCAAGAGACCC
CCCGGTAGAGTTAAGTTCGGACTCGCTTTCGTAAGCGGCATTCTC
Right flanking sequence: Indices 56291 -- 56790
AATATCAAGAATTTCATTATGGAACTTTCTCCCCGAGCTGCGGAACTAACAAGTCTATTAGAAAG
TCGAATTAGCAACTTTTACACGAATTTTCAAGTGGATGAAATCGGTCGAGTGGTCTCAGTTGGAG
ATGGGATTGCACGTGTTTATGGATTGAACGAGATTCAAGCTGGGGAAATGGTTGAATTTGCCAGC
GGTGTGAAAGGAATAGCCTTGAATCTTGAGAATGAGAATGTAGGGATTGTTGTCTTTGGTAGTGA
TACTGCTATTAAAGAAGGAGATCTTGTCAAGCGCACTGGATCTATTGTGGATGTTCCTGCGGGAA
AGGCTATGCTAGGGCGTGTGGTCGATGGCTTGGGAGTACCTATTGATGGAAGGGGGGCTCTAAGC
GATCACGAGCGAAGACGTGTTGAAGTGAAAGCCCCTGGGATTATTGAACGTAAATCAGTGCACGA
GCCTATGCAAACAGGTTTAAAAGCGGTAGATAGCCTGGTTCCTAT
Found at i:56275 original size:16 final size:16
Alignment explanation
Indices: 56254--56290 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
56244 CGGCATTCTC
56254 TCTTATTTTCTTCTTT
1 TCTTATTTTCTTCTTT
56270 TCTTATTTTCTTCTTT
1 TCTTATTTTCTTCTTT
56286 TCTTA
1 TCTTA
56291 AATATCAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (16 bp):
TCTTATTTTCTTCTTT
Left flanking sequence: Indices 55754 -- 56253
TGAGCAGAACGAAATGGCTTCTCTAATAAATCGACTTCCTAAGGAAGAACTTAAAGACGTAATTG
GGGAAAACTCCATTCGAAAGCCACTAAACGAGTTCAACGCAGAGCAGCAAGCACGGTTAATGGAT
CTCGCTATTAACCACTTTTCATTAAAGAATGATATTATTTCGAAAATGAAATTGCTTTATCCTAA
GGATGAATGGGAATTTACTAAAGTGATTCGAGAGGCATTCTTTCTGGGGCGACAAAAAGATCGGG
AGTCTTCCTTGGAAGATCTCCAAAAGATGCTTTACGCTTTAAAGGAAAATGGAAAATATGCGAGT
TGTGCACAAAGGCTACGATATAACATTTCAAATTGGAATTGGAAATCCTAAAAAGGTCTTATTAC
TCTTTTCTGCATATTTACTATACAACACGTATGTTCCACTTTGGATTTGGTCATGCAAGAGACCC
CCCGGTAGAGTTAAGTTCGGACTCGCTTTCGTAAGCGGCATTCTC
Right flanking sequence: Indices 56291 -- 56790
AATATCAAGAATTTCATTATGGAACTTTCTCCCCGAGCTGCGGAACTAACAAGTCTATTAGAAAG
TCGAATTAGCAACTTTTACACGAATTTTCAAGTGGATGAAATCGGTCGAGTGGTCTCAGTTGGAG
ATGGGATTGCACGTGTTTATGGATTGAACGAGATTCAAGCTGGGGAAATGGTTGAATTTGCCAGC
GGTGTGAAAGGAATAGCCTTGAATCTTGAGAATGAGAATGTAGGGATTGTTGTCTTTGGTAGTGA
TACTGCTATTAAAGAAGGAGATCTTGTCAAGCGCACTGGATCTATTGTGGATGTTCCTGCGGGAA
AGGCTATGCTAGGGCGTGTGGTCGATGGCTTGGGAGTACCTATTGATGGAAGGGGGGCTCTAAGC
GATCACGAGCGAAGACGTGTTGAAGTGAAAGCCCCTGGGATTATTGAACGTAAATCAGTGCACGA
GCCTATGCAAACAGGTTTAAAAGCGGTAGATAGCCTGGTTCCTAT
Found at i:143913 original size:32 final size:32
Alignment explanation
Indices: 143872--143937 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
143862 CATCTATTTT
143872 CATTGTTCAAATCTTTGACAACACGAAAAAAC
1 CATTGTTCAAATCTTTGACAACACGAAAAAAC
* *
143904 CATTGTTCAACTCTTTGACAACATGAAAAAAC
1 CATTGTTCAAATCTTTGACAACACGAAAAAAC
143936 CA
1 CA
143938 AAAGCTCTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (32 bp):
CATTGTTCAAATCTTTGACAACACGAAAAAAC
Left flanking sequence: Indices 143372 -- 143871
GGGCTGTTCGCCCATTAAAGCGGTACGTGAGCTGGGTTCAGAACGTCGTGAGACAGTTCGGTCCA
TATCCGGTGTGGGCGTTAGAGCATTGAGAGGACCTTTCCCTAGTACGAGAGGACCGGGAAGGACG
CACCTCTGGTGTACCAGTTATCGTGCCCACGGTAAACGCTGGGTAGCCAAGTGCGGAGCGGATAA
CTGCTGAAAGCATCTAAGTAGTAAGCCCACCCCAAGATGAGTGCTCTCCTATTCCGACTTCCCCA
GAGCTTCCGGTAGCACAGCCGAGACAGCGACGGGTTCTCTGCCCCTGCGGGGATGGAGCGACAGA
AGTTTTTTTGAGAATTCAAGAGAAGGTCACGGCGAGACGAGCCGTTTATCATTACGATAGGTGTC
AAGTGGAAGTGCAGTGATGTATGCAGCTGAGGCATCCTAACAGACCGGTAGACTTGAACCTTGTT
CCTACATGACCTGATCAATTCGATCAGGCACTCGCCATCTATTTT
Right flanking sequence: Indices 143938 -- 144437
AAAGCTCTGCCCTCCCTCTCTATCTATCCAAGGGATGGAAGGGCAGAGGCCTTTGGTGTCCCCTA
CAGCCAAGAATTGGGGTCTCACAATCACTAGCCAATATGCTTTTCTCTCATGCCTTTCTTCGTTC
ATGGTTCGATATTCTGGTGTCCTAGGCGTAGAGGAACCACACCAATCCATCCCGAACTTGGTGGT
TAAACTCTACTGCGGTGACGATACTGTAGGGGAGGTCCTGCGGAAAAATAGCTCGACGCCAGGAT
GATAAAAAGCTTAACACCTCTCATTCTTATTACTTTTTCAATATGAAAACGAAAAAAAAAAAAAA
AAATGAAAAATCAAAAGGTCGTTTTATTCAAAACCCCAATCCAATTGTGACATCCCTTCTCTCCC
ACTTCACACCTCGGAACGCACCCTTCTTATAGACTTATAGAGATAAACGCGCTTTCACATCTTCT
TAACCCGAAATGGCTGGGGAGAGGAAAGGTTCCTGTTTTTGAGGG
Found at i:148142 original size:21 final size:20
Alignment explanation
Indices: 148101--148139 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
148091 CCCGTTATCC
*
148101 AATAAAAACCTAAAATTCCT
1 AATAAAAACCTAAAATCCCT
148121 AATAATAAACC-AAAATCCC
1 AATAA-AAACCTAAAATCCC
148140 CTACACGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.56, C:0.23, G:0.00, T:0.21
Consensus pattern (20 bp):
AATAAAAACCTAAAATCCCT
Left flanking sequence: Indices 147601 -- 148100
AATAATGGATCCGGATCCTAAAAATAATAATGCTTTGGAATAAGCATGAGTAATCAAATGAAATA
AAGCGCTTCGATAAGACCCCATACCTAGAGCTAACATCATATAACCCAATTGGGACATTGTGGAA
TAGGCTAAACCTCTCTTAATGTCTTGTTGAGCAAGAGCTAAAGTAGCTCCTAATAATACTGTTAT
TATTCCTATAACCGAGATCAAATACATTATGTAAGGTATAACTCTGAAAAGAGGAAGAAGCCGAG
CTACAAGAAAAATCCCCGCCGCTACCATAGTAGCAGCATGTATAAGAGCCGAAATAGGAGTAGGC
CCCTCCATGGCATCAGGTAACCATATATGAAGGGGAAATTGGGCGGATTTAGCAACTGCACCGGC
AAATAAGAGAACAGCGCATAACGTAATAAATAGAAAATTTACCTCATTATTATAAATCAAGTTAG
TGAATATTTCGAATAAATCCCTAAATTCGAAACTCCCCGTTATCC
Right flanking sequence: Indices 148140 -- 148639
CTACACGATTAGTTACAAACGCTTTTTGACAAGCATTTGCCGCAACAGGTCGTGTAAACCAAAAT
CCTATTAATAGATAGGAACACAGCCCAACCAATTCCCAAAAAATATAAATTTGTATCAAATTGGA
ACTAGTAACTAATCCCAACATGGAAGTACTGAAAAAACTCATATAAACAAAAAATCTCAAATATC
CTTGATCATGAGCCATATAATTATCACTATAAATAAGAACCATAATTCCAACAGTAGTGATTAAT
ATTGACATAATAGAAGTAAGTGGGTCGATCAAGTATCCGAAGTCTAAAGAAAAATCATTATTGAT
GATCCAAGACCATCCATATTGATAAAAAGAACTGCTATTGATTTGCTGAATAGACAGGGAGATTG
AAAAAATCATGACTATGCTTAACAATAAAACACTCTGAAAAGCCCACATACGGCGAAAACTTTTT
GTTGCCGTTGGAAAAAGAATAAGTCCCGCTCCTATTAACATAGGG
Found at i:149127 original size:14 final size:14
Alignment explanation
Indices: 149108--149135 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
149098 TATTTTATTT
149108 TTTATTAAGTTCAA
1 TTTATTAAGTTCAA
149122 TTTATTAAGTTCAA
1 TTTATTAAGTTCAA
149136 CTAATTTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
TTTATTAAGTTCAA
Left flanking sequence: Indices 148608 -- 149107
AAAGAATAAGTCCCGCTCCTATTAACATAGGGACTGGAAGTGGAATGAAAGGTATGATCCACGCA
TATTCATATGTCTGTTCCATAAAAAAGTTTTGAATTCTTAATTAATTGTTTCCGATTCACCGGAT
CTTACCTCTTTTGAAAGGAGTCAATAAAAAGTAAAAATATGAACTAACTTAAACTTATTTTCCAT
TTTAATCGAATTTTCTATTCTTACTTATTCTGAGTCTTTGCTAAATACTTCAACTATTGAAATCA
CAAAGTTACAATTGGTCAAATGATATGAAAGGGATTAATTACTAATCTCCTTTGAAATAGGCCTA
TTTTTGATCCAAGTTTGACCAAAGATAGTGAATCGAGCGGGGATTCAAGTTTTTCATTTCCTGAA
GTAAAAACGCGGTTCTTATCTTTAAACCTTTCGAGGTATTTTATTGCATGTAAATGAAATGTGGA
ACCATAAAAAAAAATCGAATATTTTTGGGATTCCTTATTTTATTT
Right flanking sequence: Indices 149136 -- 149635
CTAATTTTCTTTCTTCATTTCTACGGAAAAGCCAATTATCAAATTCTATAGGTATAGATTTTTTG
AATCAAAAAGAATGGGAAATTGGGAAATAAAGATACCAGTCACTAGAGAATCTTTTCTTTTTTAC
GATTATGAATGTTTTATGGAATAGAAAGACTTGAAAAAACGCATATTGGCCTTCTGTTTTTATTT
CCAGTATTCTGCAATTTTGACATATCTTTTACCTATCTCGATAATGTTTTATTTGAGGAGAACAC
TATTAGCTCGAAAATAAATATGTATTAAAAAGAATTCGTTTTGAACAATAGATGTCTTTCACATC
CAGCTATAACAATGAGTAATTTTTGAATTTATAAATGGCAGTTCCAAAAAAACGCACTTCGACAT
CAAAAAAGCGTATTCGTAAAAATATTTGGAAAGGGAAGGGGTATTGGATAGCATTAAAGGCTTTT
TCGTTAGCGAAATCTCTTTCTACCGGGAATTCAAAAAGTTTTTTT
Found at i:149850 original size:16 final size:16
Alignment explanation
Indices: 149829--149862 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
149819 CGCTTTTCTG
149829 ATTGATATAGT-AAATA
1 ATTGATATA-TAAAATA
149845 ATTGATATATAAAATA
1 ATTGATATATAAAATA
149861 AT
1 AT
149863 AGAATTAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 16 0.94
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (16 bp):
ATTGATATATAAAATA
Left flanking sequence: Indices 149329 -- 149828
TTCCAGTATTCTGCAATTTTGACATATCTTTTACCTATCTCGATAATGTTTTATTTGAGGAGAAC
ACTATTAGCTCGAAAATAAATATGTATTAAAAAGAATTCGTTTTGAACAATAGATGTCTTTCACA
TCCAGCTATAACAATGAGTAATTTTTGAATTTATAAATGGCAGTTCCAAAAAAACGCACTTCGAC
ATCAAAAAAGCGTATTCGTAAAAATATTTGGAAAGGGAAGGGGTATTGGATAGCATTAAAGGCTT
TTTCGTTAGCGAAATCTCTTTCTACCGGGAATTCAAAAAGTTTTTTTGTACGCCAAACCCCAAAA
AATAAGTAATAAAACGTTAAAATAATTTGAATCAACTTGAAAAAAAAAAAAATAATGCAATTATT
CTTAAATTATTCAATTAGATAATAATTGAATAATTTAACGATTTCCCCTTCCTATTTGATATTGA
TTAACTCACCAATCCATATGTAATGGAACTCTATTCGCTTTTCTG
Right flanking sequence: Indices 149863 -- 150362
AGAATTAGGAAATCCTCTATTTACTATATCAATCACTGAATAATAACTTTTTTGTTCACAAAAGA
ATAAAGATCATTTCTATTCCAAGGTGGGAAGTTTTATTTTCCCCATCGACCTATTTGAAGAATTA
AATGAAAAAAAAAAAAAAAAAAAATTCTATATTTGCATCTCTATAGCTATAGAAGAACGTATATA
AAAATCTTTAGTGAAAGTGAAAAACTCATTGAAATTTATTGATTCTATTTTGAAACCTTTTTGTT
TTGTCGACCTTTCTCACTTTTGATTTTCTCTGAATTATTATATAGTCCCCCATATATATCTTGCC
CTTAACCCAATAGAGAAAATTGATTAATGAAATTTTGTATGGCTAATTTTGAATTTTGAGCGATA
AAAAATGGGTTCTTTTCTTTCTATTTTGTCGTCAAAATCCCTTTTTTGTTTTATTTTAGATTTCT
AATTTAGATTTCTAAAAAAAAAAAATAAGAAATTGCTGCTTAAAC
Found at i:150325 original size:13 final size:13
Alignment explanation
Indices: 150307--150332 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
150297 TTTGTTTTAT
150307 TTTAGATTTCTAA
1 TTTAGATTTCTAA
150320 TTTAGATTTCTAA
1 TTTAGATTTCTAA
150333 AAAAAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (13 bp):
TTTAGATTTCTAA
Left flanking sequence: Indices 149807 -- 150306
TGGAACTCTATTCGCTTTTCTGATTGATATAGTAAATAATTGATATATAAAATAATAGAATTAGG
AAATCCTCTATTTACTATATCAATCACTGAATAATAACTTTTTTGTTCACAAAAGAATAAAGATC
ATTTCTATTCCAAGGTGGGAAGTTTTATTTTCCCCATCGACCTATTTGAAGAATTAAATGAAAAA
AAAAAAAAAAAAAAATTCTATATTTGCATCTCTATAGCTATAGAAGAACGTATATAAAAATCTTT
AGTGAAAGTGAAAAACTCATTGAAATTTATTGATTCTATTTTGAAACCTTTTTGTTTTGTCGACC
TTTCTCACTTTTGATTTTCTCTGAATTATTATATAGTCCCCCATATATATCTTGCCCTTAACCCA
ATAGAGAAAATTGATTAATGAAATTTTGTATGGCTAATTTTGAATTTTGAGCGATAAAAAATGGG
TTCTTTTCTTTCTATTTTGTCGTCAAAATCCCTTTTTTGTTTTAT
Right flanking sequence: Indices 150333 -- 150832
AAAAAAAAAATAAGAAATTGCTGCTTAAACAATGAAAACAAATTTGTTTCACTCTAGTCCTTATT
CCTTAATTTGAGTATAGAACGGTTTAGTTACAAGAGTTGAATTCTGAATTCGAGGAAAGCATAAA
ATATAGGAAAGTCCCAGGTTAAATAAAAAAACTAAGACTCTAAACTCAAATCGAAAATAATGAAC
CTTCAACCTCAAATTCCTATTTGAACAACTTTTTATTGTTATTGATCCATTTGAATCATTACTAA
ACTAAAATAGCTTACTCAATCTCGACGATTGCTTATTCATAGGCTATTATGAGTTCAAGACAGGC
CGCTATGGTGAAATTGGTAGACACGCTGCTCTTAGGAAGCAGTGCTAATGCATCTCGGTTCGAGT
CCGAGTGGCGGCATACCATCTTCTAAAAAGGATAAATAGATCTTATAATGAATTCAATTCCCGAT
TTCCATTTTCGAATTATGTAATTAAGGGACTCTTATTTTTTAAGA
Found at i:161690 original size:18 final size:18
Alignment explanation
Indices: 161667--161703 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
161657 CCCCCTTTTC
161667 TCAATTATTTGATAATTA
1 TCAATTATTTGATAATTA
161685 TCAATTATTTGATAATTA
1 TCAATTATTTGATAATTA
161703 T
1 T
161704 TAATACCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (18 bp):
TCAATTATTTGATAATTA
Left flanking sequence: Indices 161167 -- 161666
GCAAATAACGTTGCAAGAACAAATCTAGTTCTGCTTCCGTGTTGCTTTTGTATTGTTTTTTAGTT
TTACCCTTTTTTGTGTCTGATTCCGCGTAATCTTTTTCAAGATCGTTTTGATGTTTTGAGAAAAC
AGGGCCCCGATTTTCTTTGTTTTCTATACTCGATCCATGCTCTCTTTGACTTGCGGGTTCTTTTG
CTTCTTGAATTCTATTTTTTTTTTTTTTATTTGATGGTATAAAAAAGTTTTGTTTTTGGTTTTGA
CTAACCTTTTCATTTGTATTCAAATTTAAAAGAAGGAATTTACTTGGTATAATCCACGGTTTTAT
TTTATAGACATTAGAAAGTAGTAAAAATTCTGGGAAGAACCAAAATTCCAGATTCAATATGGGAC
GATTAAATACTTTTTCATTCAGTCCCATCCAATCAAAAAAGACTTTTTTCGAATTTTTTTGAGTT
TTTTCTGGATTTTGATGAGTTGTAAGATAAAAACCCCCCCTTTTC
Right flanking sequence: Indices 161704 -- 162203
TAATACCAATTTGAGTATTTGGATTACTGTTGGTATCGATCTTAACCCAGGCCTCAATATCTCCT
TTTTGTCTAAGAGAAAAATGGAGAATTTTCCAATCAAAATATTTTCTATCGAGATTTTTTTCTAT
ATCTAGAATATTGCCTTTTCTTAGATAATTATTGATATGCAGATTGCCGGACATATCAACAAAGT
TGTGTTTGGACGGGTTGAAATTATATGAAATTTCGAAGTTCTTTTTGACTTGAAAGGGTAATCTA
GAAATAAATGAGTCATTTTTTTTTTCATAATTAATCGATTTAGATGCTAAAAGATCATATCTATA
ACATTTTTTAAAATTATCTTTTTCGTTTGATAATGAATAGAGTTTCAAATCATTTTCTTTTTTGT
AATGACTTAATTGATTTTTTTCATATGAATTCCATTTGTTTAAGTTTCTATTTTTATTTTGAGTC
ATACAACTTTGATTAACTTTAGTTCGCCATTTTTTTGGCATTAAT
Found at i:167592 original size:32 final size:32
Alignment explanation
Indices: 167556--167621 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
167546 GCAGAGCTTT
167556 TGGTTTTTTCATGTTGTCAAAGAGTTGAACAA
1 TGGTTTTTTCATGTTGTCAAAGAGTTGAACAA
* *
167588 TGGTTTTTTCGTGTTGTCAAAGATTTGAACAA
1 TGGTTTTTTCATGTTGTCAAAGAGTTGAACAA
167620 TG
1 TG
167622 AAAATAGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.42
Consensus pattern (32 bp):
TGGTTTTTTCATGTTGTCAAAGAGTTGAACAA
Left flanking sequence: Indices 167056 -- 167555
CCCTCAAAAACAGGAACCTTTCCTCTCCCCAGCCATTTCGGGTTAAGAAGATGTGAAAGCGCGTT
TATCTCTATAAGTCTATAAGAAGGGTGCGTTCCGAGGTGTGAAGTGGGAGAGAAGGGATGTCACA
ATTGGATTGGGGTTTTGAATAAAACGACCTTTTGATTTTTCATTTTTTTTTTTTTTTTTCGTTTT
CATATTGAAAAAGTAATAAGAATGAGAGGTGTTAAGCTTTTTATCATCCTGGCGTCGAGCTATTT
TTCCGCAGGACCTCCCCTACAGTATCGTCACCGCAGTAGAGTTTAACCACCAAGTTCGGGATGGA
TTGGTGTGGTTCCTCTACGCCTAGGACACCAGAATATCGAACCATGAACGAAGAAAGGCATGAGA
GAAAAGCATATTGGCTAGTGATTGTGAGACCCCAATTCTTGGCTGTAGGGGACACCAAAGGCCTC
TGCCCTTCCATCCCTTGGATAGATAGAGAGGGAGGGCAGAGCTTT
Right flanking sequence: Indices 167622 -- 168121
AAAATAGATGGCGAGTGCCTGATCGAATTGATCAGGTCATGTAGGAACAAGGTTCAAGTCTACCG
GTCTGTTAGGATGCCTCAGCTGCATACATCACTGCACTTCCACTTGACACCTATCGTAATGATAA
ACGGCTCGTCTCGCCGTGACCTTCTCTTGAATTCTCAAAAAAACTTCTGTCGCTCCATCCCCGCA
GGGGCAGAGAACCCGTCGCTGTCTCGGCTGTGCTACCGGAAGCTCTGGGGAAGTCGGAATAGGAG
AGCACTCATCTTGGGGTGGGCTTACTACTTAGATGCTTTCAGCAGTTATCCGCTCCGCACTTGGC
TACCCAGCGTTTACCGTGGGCACGATAACTGGTACACCAGAGGTGCGTCCTTCCCGGTCCTCTCG
TACTAGGGAAAGGTCCTCTCAATGCTCTAACGCCCACACCGGATATGGACCGAACTGTCTCACGA
CGTTCTGAACCCAGCTCACGTACCGCTTTAATGGGCGAACAGCCC
Found at i:175370 original size:18 final size:18
Alignment explanation
Indices: 175347--175387 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
175337 CTAACTAATA
175347 CTAATCTAATATAATAGT
1 CTAATCTAATATAATAGT
175365 CTAATCTAATATAATAGT
1 CTAATCTAATATAATAGT
175383 CTAAT
1 CTAAT
175388 ATATCTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (18 bp):
CTAATCTAATATAATAGT
Left flanking sequence: Indices 174847 -- 175346
TCGGAAATAGGATTGACTACCGATTCCGAAGGAACTGGAGTTACATCTCTTTTCCATTCAAGAGT
TCTTATGCGTTTCCACGCCCCTTTGAGACCCCGAAAAATGGACAAATTCCTTTTCTTAGGAACAC
ATACAAGATTCGTCACTACAAAAAGGATAATGGTAACCCTACCATTAACTACTTCATTTATGAAT
TTCATAGTAATAGAAATACATGTCCTACCGAGACAGAATTTGGAACTTGCTATCCTCTTGCCTAG
CAGGCAAAGATTTACCTCCGTGGAAAGGATGATTCATTCGGATCGACATGAGAGTCCAACTACAT
TACCAGAATCCATGTTGTATATTTGAAAGAGGTTGACCTCCTTGCTTCTCTCATGGTACACTCCT
CTTCCCGCCGAGCCCCCTTTCTCCTCGGTCCACAGAGACAAAATGTAGGACTGGTGCCAACAGTT
CATCACGGAAGAAAGGACTCACTAAGTCGGGATCACTAACTAATA
Right flanking sequence: Indices 175388 -- 175887
ATATCTAATATAATAGAAAATACTAATATAATAGAAAAGAACTGTCTTTTCTGTATACTTTCCCC
GGTTCCGTTGCTACCGCGGGCTTTACGCAATCGATCGGATTAGATAGATATCCCTTCAACATAGG
TCATCGAAAGGATCTCGGAGACCCACCAAAGTACGAAAGCCAGGATCTTTCAGAAAACGGATTCC
TATTCAAAGAGTGCATAACCGCATGGATAAGCTCACACTAACCCGTCAATTTGGGATCCAAATTA
GAGATTTTCCTTGGGAGGTATCGGGAAGGATTTGGAATGGAATAATATCGATTCATACAGAAGAA
AAGGTTCTCTATTGATTCAAACACTGTACCTATGGGATAGGGATCGAGGAAGGGGAAAAACCGAA
GATTTCACATGGTACTTTTATCAATCTGATTTATTTCGTACCTTTCGTTCAATGAGAAAATGGGT
CAAATTCTACAGGATCAAACCTATGGGACTTAAGGAATGATATAA
Found at i:175398 original size:40 final size:42
Alignment explanation
Indices: 175341--175421 Score: 114
Period size: 40 Copynumber: 2.0 Consensus size: 42
175331 GGATCACTAA
**
175341 CTAATACTAATCTAATATAATAGTCTAAT-CTAATATAATAGT
1 CTAATACTAATCTAATATAATAG-AAAATACTAATATAATAGT
175383 CTAATA-T-ATCTAATATAATAGAAAATACTAATATAATAG
1 CTAATACTAATCTAATATAATAGAAAATACTAATATAATAG
175422 AAAAGAACTG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
39 3 0.08
40 26 0.72
41 1 0.03
42 6 0.17
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (42 bp):
CTAATACTAATCTAATATAATAGAAAATACTAATATAATAGT
Left flanking sequence: Indices 174841 -- 175340
CCCCTATCGGAAATAGGATTGACTACCGATTCCGAAGGAACTGGAGTTACATCTCTTTTCCATTC
AAGAGTTCTTATGCGTTTCCACGCCCCTTTGAGACCCCGAAAAATGGACAAATTCCTTTTCTTAG
GAACACATACAAGATTCGTCACTACAAAAAGGATAATGGTAACCCTACCATTAACTACTTCATTT
ATGAATTTCATAGTAATAGAAATACATGTCCTACCGAGACAGAATTTGGAACTTGCTATCCTCTT
GCCTAGCAGGCAAAGATTTACCTCCGTGGAAAGGATGATTCATTCGGATCGACATGAGAGTCCAA
CTACATTACCAGAATCCATGTTGTATATTTGAAAGAGGTTGACCTCCTTGCTTCTCTCATGGTAC
ACTCCTCTTCCCGCCGAGCCCCCTTTCTCCTCGGTCCACAGAGACAAAATGTAGGACTGGTGCCA
ACAGTTCATCACGGAAGAAAGGACTCACTAAGTCGGGATCACTAA
Right flanking sequence: Indices 175422 -- 175921
AAAAGAACTGTCTTTTCTGTATACTTTCCCCGGTTCCGTTGCTACCGCGGGCTTTACGCAATCGA
TCGGATTAGATAGATATCCCTTCAACATAGGTCATCGAAAGGATCTCGGAGACCCACCAAAGTAC
GAAAGCCAGGATCTTTCAGAAAACGGATTCCTATTCAAAGAGTGCATAACCGCATGGATAAGCTC
ACACTAACCCGTCAATTTGGGATCCAAATTAGAGATTTTCCTTGGGAGGTATCGGGAAGGATTTG
GAATGGAATAATATCGATTCATACAGAAGAAAAGGTTCTCTATTGATTCAAACACTGTACCTATG
GGATAGGGATCGAGGAAGGGGAAAAACCGAAGATTTCACATGGTACTTTTATCAATCTGATTTAT
TTCGTACCTTTCGTTCAATGAGAAAATGGGTCAAATTCTACAGGATCAAACCTATGGGACTTAAG
GAATGATATAAAAAAAAGAGAGGGAAAATATTCATATTAAATAAA
Found at i:175415 original size:18 final size:19
Alignment explanation
Indices: 175352--175425 Score: 73
Period size: 18 Copynumber: 3.9 Consensus size: 19
175342 TAATACTAAT
**
175352 CTAATATAATAGTCTAAT-
1 CTAATATAATAGTAAAATA
*
175370 CTAATATAATAGTCTAATATA
1 CTAATATAATAG--TAAAATA
175391 TCTAATATAATAG-AAAATA
1 -CTAATATAATAGTAAAATA
175410 CTAATATAATAG-AAAA
1 CTAATATAATAGTAAAA
175426 GAACTGTCTT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
18 28 0.58
19 5 0.10
20 3 0.06
22 12 0.25
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (19 bp):
CTAATATAATAGTAAAATA
Left flanking sequence: Indices 174852 -- 175351
AATAGGATTGACTACCGATTCCGAAGGAACTGGAGTTACATCTCTTTTCCATTCAAGAGTTCTTA
TGCGTTTCCACGCCCCTTTGAGACCCCGAAAAATGGACAAATTCCTTTTCTTAGGAACACATACA
AGATTCGTCACTACAAAAAGGATAATGGTAACCCTACCATTAACTACTTCATTTATGAATTTCAT
AGTAATAGAAATACATGTCCTACCGAGACAGAATTTGGAACTTGCTATCCTCTTGCCTAGCAGGC
AAAGATTTACCTCCGTGGAAAGGATGATTCATTCGGATCGACATGAGAGTCCAACTACATTACCA
GAATCCATGTTGTATATTTGAAAGAGGTTGACCTCCTTGCTTCTCTCATGGTACACTCCTCTTCC
CGCCGAGCCCCCTTTCTCCTCGGTCCACAGAGACAAAATGTAGGACTGGTGCCAACAGTTCATCA
CGGAAGAAAGGACTCACTAAGTCGGGATCACTAACTAATACTAAT
Right flanking sequence: Indices 175426 -- 175925
GAACTGTCTTTTCTGTATACTTTCCCCGGTTCCGTTGCTACCGCGGGCTTTACGCAATCGATCGG
ATTAGATAGATATCCCTTCAACATAGGTCATCGAAAGGATCTCGGAGACCCACCAAAGTACGAAA
GCCAGGATCTTTCAGAAAACGGATTCCTATTCAAAGAGTGCATAACCGCATGGATAAGCTCACAC
TAACCCGTCAATTTGGGATCCAAATTAGAGATTTTCCTTGGGAGGTATCGGGAAGGATTTGGAAT
GGAATAATATCGATTCATACAGAAGAAAAGGTTCTCTATTGATTCAAACACTGTACCTATGGGAT
AGGGATCGAGGAAGGGGAAAAACCGAAGATTTCACATGGTACTTTTATCAATCTGATTTATTTCG
TACCTTTCGTTCAATGAGAAAATGGGTCAAATTCTACAGGATCAAACCTATGGGACTTAAGGAAT
GATATAAAAAAAAGAGAGGGAAAATATTCATATTAAATAAATATG
Found at i:176965 original size:16 final size:16
Alignment explanation
Indices: 176944--176976 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
176934 CTATTCTAGC
176944 ATTTAACGCTCTAAGG
1 ATTTAACGCTCTAAGG
176960 ATTTAACGCTCTAAGG
1 ATTTAACGCTCTAAGG
176976 A
1 A
176977 ATTACCCAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (16 bp):
ATTTAACGCTCTAAGG
Left flanking sequence: Indices 176444 -- 176943
CCAACTATTTAATGAAATAGAGTTTCGTATTACTCCTGCCTATCGGCGAACTTGGAACCCCGTAA
TGGCGAATGGGAAGTCGTCTTGCTCGTAAGCTGCGGTTTTTGGGAGTCTATGAAGTTGCGGCCTC
GGGCTTGGTTGCCTCAAAGTCTCGATGAAGTGCTTGAACAACTAGATCAACGTTGGCTTGGGATT
TTTCGGACTTGCTTGGAGAAGGACTTAGATGTTCGGGCACACCTTGCAATTGCTTGTTTGTTTGG
TCTTCGCCCCTACTACTTAACCGCGTCCTCTTCTTCGCTTCGCGAGCTTATTTCAAGGGTCTTAG
AGGGGTCTACGCAGCTTCCCCTTGTCGGGGAAGCTGCTACTTAAACTCAATTCTATGTAATCTAT
TCGAAACTCTAATCTATTCTTTCTGTGGTTATTTCTGTTTGAACGAATTTCAGCTGAACTCTATG
AATACTGTGCAATAGATTCATTCAGTAACTCAACTCTATTCTAGC
Right flanking sequence: Indices 176977 -- 177476
ATTACCCAGCCATGAATAAATTACCCAGTGAGAATGTGTATCGATCGAAAGCCCCAACCAAGGCA
AGTCCACCGACTTCGCAAAGTCCTCGAGGTACAACCATAATTGTCTACGAACTTCGAAAATTGGA
CTGGCATATATGATGGTTAAAAGAAAAGCTTGCTTATCCTTTAACTTCACCACCGCATGTATTGT
CTGTGGTGACATATATACCACATCCAAATCCATCACACCATCATCCCAACACAACCATATACCCC
TGCGTAGCCTACAGGGTCAGAGATACAATTCCTAGAAAAATTCCACTTCTTAATAACCCTTTTTG
CACGGACACCGGAGATCCGAGGTTCGACAACAGCCAAAATCGATGGCTTCAAGTTTCTTAGCAAG
TCCTTTGAGTTACGCAGGAAGGACTTTTTCCCTGCTCCTCTACTGTTCCATAGGATTCAATCCAT
TAACAATATTGTCAACGGTTTCAAGTTCCATCTTCTCACTTGAGG
Found at i:179795 original size:17 final size:17
Alignment explanation
Indices: 179775--179819 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
179765 TCGCTACTAT
179775 TGAACTCCACCTACTTC
1 TGAACTCCACCTACTTC
*
179792 TGAACACCACCTACTTC
1 TGAACTCCACCTACTTC
*
179809 TAAACTCCACC
1 TGAACTCCACC
179820 AACAGGCTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.29, C:0.42, G:0.04, T:0.24
Consensus pattern (17 bp):
TGAACTCCACCTACTTC
Left flanking sequence: Indices 179275 -- 179774
AGTTGTCGCTTCAATCCATTCGGATCTGCGCTCTATCACGACCCCCCCCCGTTGGGGACGTCGTT
CTCAATGCCCGTCTTCGCCTACGCTCACACGTACATTCTATATATTATTTAATAGGAGTATAAGC
TCCATTCACGGAGATCTAATTGGAAATAGTGTTGAATCAAATCGATGCTAGAGCAGTGCTAGTGC
CGTTCCTTCTTTTAAAGACCATGACTTGTTGATACCCTCGTTCCCAGCAGTATGTATCGGATCCC
ACGTCGTTTGTTGCTCGAGAAGGTTTCAGCCTTTCTTGCTTGGTCAATTTCTCGTAATCATCGAT
ACTTTATTGAGGACTTTCTTTGAATAGTATACAATCTACTAAAAGAGTAACAACACTAGTGACAC
CCGATCACCTCTTCTGAAAAGCCGAGATTGTCTCGTCGCTGATTAGGCCCGTCACTTCGCCCTAT
ATAGAAAGGAGCCTCGGAAGTAACCTACGTACTGTTCGCTACTAT
Right flanking sequence: Indices 179820 -- 180319
AACAGGCTCTGAGGCAATAGCAAAGTGAAGTAGGAGGACTTATGAAGGTTCACCGCCAGGCCTCA
CATGCGAACGAAGCAGCAGGTAGATCTTGGATTCACTACTATAAATATTATTAATAGATAATAGA
TAATAGAAGTAACGAATCGAAACTCATAGTCAACTCTATCGAGATTCCTAATTCACTTTCATTAA
ATTCAAATAAAAGAAAGAAAAATAAAGTACTAGCACGTATGGCTACTATTGCAGATAGAGAAAGG
CTCGCTCAAGTTGTAAACGAAATACCGCGACTAGAAAACGAACTGCCCCCACTCTTCGCCTATAA
CCGACACAGGTGGGTCATCCGCGTAGCTGCAAAGTAGGTGTAATATTGGCTAACATAACAAGCAA
AGGCCGTTAGGCGAACAGAGGTGGGCCTAGAGTCATCAAAGAACTGAATACGTTTCTGGTTGACT
AAACAACCGGGAATAAAACTCAACAACATGTGCCTGTAGGATTTC
Done.