Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_065230
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: 422215
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Found at i:51093 original size:15 final size:16
Alignment explanation
Indices: 51073--51115 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
51063 CGGATGGACA
51073 GATCGACTGT-CGCAT
1 GATCGACTGTGCGCAT
*
51088 GATCGAGTGTGAGCGCAT
1 GATCGACTGT--GCGCAT
51106 GATCGACTGT
1 GATCGACTGT
51116 TAAGGTAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 9 0.39
18 14 0.61
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.26
Consensus pattern (16 bp):
GATCGACTGTGCGCAT
Left flanking sequence: Indices 50573 -- 51072
ACCTGTATTCGATACTGGGTCATTCATAGCAAACCTATACCTTCCCTATTTACTTTACTCGACGA
ATTAAGGGGTTTGGTTATTCGTCAGCACGGGTTTAGCTTCCTCTTCCTCTTGGATTGCGTCAACC
GCTCAAGTGAAGCCAAAAAGGGAGGATTTCCGAAAGGCTCCGATCCAGTTAAAATCCGTTTAAGC
TAAAAGCACCGGTTTTCTCCCCAGGCAAAGGCCAGTCAACAGCCAGTCCACAAGAGAACCCCGAA
ACGGGAGCAAACCCCCCTTCTACCTTTCTTTCTTTCAGAACCTTTCTCGCCTGCCGTTAAATGAA
AGTTTATTTGAGTTCCCAATGGCTGGTGAAAGTTAAATAGGAGACCTCAAGCTGCCATACTTGAC
TAGAACCGAAGGAAGATCTCTCACACCGGCAATGGAAACTAGATGTCAACGAGCGGCACATAATT
GAAATTGGACAACCTCACCCCCCAGTGAATGTAGTCGGATGGACA
Right flanking sequence: Indices 51116 -- 51615
TAAGGTAGGACCTTCAACAAAGAGAGTTGATCAACAAGTTCAGACTATTTTCTGTCAATTCGGCT
GTCCTCTCATTTCTATTATAAAATCAAATGTCTTGAATCATTCGATATAAGGGCTTCACTTCAAA
GAGGCATAGGAACAATGTCCCGAAACTGAAGATGAGACTGAAAGCTGCCATACGAGATTAGAGAA
TAGAAAGTAAGGAACTGTTAGAAATGGAATATGGATCTTGCCCATATATATGTACTTTATTTTAT
CTTCTTTCTTGTCGGATTCTCTGGGGGATAAAGAAAAAGTATATGCCCCGGACTCGCGATTTGGG
GATTTCCCTGGCTAGGATGCTAAAGATCGGATGCTGCCTCCTTTAAGGAAGGTGCCTAGCCTTGC
TAAAGGACATGCTACCACCCTACCAAAGCCGACAAAGTAAAGCAGGAAAGTCATCAGGTGACGAA
GACGGAGGAAAGGCAAAAAAGGTCAATAAAAGCTTCTTATGTGGC
Found at i:56410 original size:21 final size:21
Alignment explanation
Indices: 56384--56446 Score: 117
Period size: 21 Copynumber: 3.0 Consensus size: 21
56374 AAGACCCGCT
56384 TTCTTGAGAGAGAAGCCTATG
1 TTCTTGAGAGAGAAGCCTATG
*
56405 TTCTTGAGAGAGAACCCTATG
1 TTCTTGAGAGAGAAGCCTATG
56426 TTCTTGAGAGAGAAGCCTATG
1 TTCTTGAGAGAGAAGCCTATG
56447 GACCCTTTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (21 bp):
TTCTTGAGAGAGAAGCCTATG
Left flanking sequence: Indices 55884 -- 56383
TAGGAGATGCACGAATATTTATTCGATGTCTAGTTCCACCTATAAGATTCTTTAATTTGAACCCT
ATAACGTCATCCCCCTTATGGGAAGAACAGCCTTCGATTTACGGGCTGAAAGCGGACATAGCAAC
ATCCTACCGAAACATCAGACACGCGCCTTCAGCCGGATTGGCATACCTAATCGAGCATCATCTGC
TATTCACCAGCAGAGCTTTGCAGCTTATTCTTCCCTCTCCAGTTGAGGAAGTTTACTAGCTCGAC
CAAAGGTAGGGAGAGGGAGAGGAAGGGTGCCGACAACCCTAGATATCTATTAAAAAAGGGCAGGC
TAGGAGGTTCTGTTACTGAACTCGAACCCACTAAGCGGGATCCCTTGCCTGGTCTTACAGCTCAA
AAAGGAGGATGAAGAATTGGGAGCCCAGTTCCTCATGCCAATAAGGGGTATTAGACCCTACCCGC
AGGGAGTACGCTTGAACGGCACTATACTACCCACTAAGACCCGCT
Right flanking sequence: Indices 56447 -- 56946
GACCCTTTCTCAATCTCAATAGGAATTGAGGGAGCTCATGGGGACTTCTAGCTACAGGACCAGTT
ACTAGTCCTCAAGAAAGATCAGATCACGCAGATCTTCCGCTTAAATCCACCTATGGAATATCTTG
CGGAAACTACTCTCTTGACACAATTTGCATCAAAAAACACGGGGTTTATGGAATTTGTGTAGTCC
GGGACAGAGACTAAATATATAGTTTCGTACCTTAGAGTTTCAATATAGGAGTCGGAAGCGAGAGA
TTAGAGAATAGAAAGTAAGGAACTGTCTGAAAGTTTGTCCCTTCAAAGCCAACTTCGTCTCTGAA
CTCAAGCCTTCCCTTTGACCCGCGTATCCTATCTGTAACCGAACCTGCGGGAAAGCCTACTGAAG
AAGGAAAAGCAACCATATCTCCTTGGCAAACAAGACGGAACCGAAGCTATGTGCATAGTCTTACC
CCTGCCCAATCTACTCAAAGGATTAGAGATCATGAACGAGAAAAT
Found at i:107315 original size:18 final size:17
Alignment explanation
Indices: 107284--107324 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
107274 ACCAATTACA
*
107284 TAAAGAGGTTAAACCCT
1 TAAAGAGGTCAAACCCT
107301 TAAACGAGGTCAAACCCT
1 TAAA-GAGGTCAAACCCT
*
107319 GAAAGA
1 TAAAGA
107325 AAGTAAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.44, C:0.20, G:0.20, T:0.17
Consensus pattern (17 bp):
TAAAGAGGTCAAACCCT
Left flanking sequence: Indices 106784 -- 107283
AAAGCACGAACGGAAGCTGGGACCTCCTGATCGCGTAAGGTATCCAACGAGAGAAGCCATAAGTC
AGCACAGCTTTGTCACCTGTATCCGGATCCTGGATATAAATTTGACTACCCGGAAGAGCAGAAGA
AATGGGATTCTTGTTCACACGAAACCAAAGGGGTGCTTGAGCACGCCAACCACGGGTACGTGTAT
GGAACGGAAGCGGCATACGACTGGTCACAGGACAGACCGAGTCGGAGCCGTGAACACGAACTCGA
CCCTCGAAAGGTGGAGCGATCGAGTCGGAATAGGACGGACCTACGAAAATGGGATGATTTCGAAC
GATAGGATCGGACTGTAAGCACAACTTTCGAAATAGAGTAATCATGGATGGAACTTGTTATTAGA
ATAGAAGACCAGAAATCAGACAATAGCAGAGCAGCCAGGGAATGAGGAACAAGGTTAACCAACTG
TATTTTACCTCATTACATCCCCTTCCTTTCAATTAACCAATTACA
Right flanking sequence: Indices 107325 -- 107824
AAGTAAAACCACTTAAATGTAAGACTATGGATTCAATCCAGCCCGCTTTGCGAGCTAACTTGTAA
AGAAGATGTAGCTACTCGCCCATGGCGGACGAGGCCCAGAGAAGGGCAAAGGACTCATTTCTTTT
TGATCCCAAACGAGAAGAGAGAACAAACGGCGATTACTAATAGCCGGTGGAGATTGGAAATGTCC
CAACCAACATAGCTTGCTAGCTGAAGGAGCTGCCAGAGCAGAGGAAGCGAACCGCCTTGACTTAT
TCGATTCTCCTTCTTCACCGTTCGAAAAGAAGTGGATTGGCGCACGTCTTCCTATGAAATCGATT
ATGTTTCCCCATCAAGCCCGTTTCCTTACTCGAGATATCTGAGATAGCCCCGTCAACTAATAACT
TATAATAGACGAGCCCATTATCCTTCTGTTTTGAACTTGCTTCTTGGTACAAGGGGAGGGGCGAA
GAATTCGAGTTCTAGTTCTGCTTTTGCCTAATTTTTAGTATCGCT
Found at i:108564 original size:14 final size:14
Alignment explanation
Indices: 108545--108571 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
108535 TTGCCCGCGA
108545 GAAAGCGTTCTAAT
1 GAAAGCGTTCTAAT
108559 GAAAGCGTTCTAA
1 GAAAGCGTTCTAA
108572 CGATAAGCTG
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:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (14 bp):
GAAAGCGTTCTAAT
Left flanking sequence: Indices 108045 -- 108544
CCTATTACCGTTTCGCTGCTTGTTCTTCCCCTTCGCCTGAGAATAATAAATTACCTTCGATGGGA
GCTTACTCTTACTTAAGTAAGAGGGAAACTCGCTTGCCCACTGGAAAGACTGAAACTTGAAAACG
GAGGTAAGATTTTTCTTATTCTTCCTAAAAAAGAGGACTGTGTAACTAGGGTGAGAAGCGAGCTG
AGCTGCCACGGATTGCTCCTTCGATTGCTTGAAACCTCTTTGCTGAAAGTGAAAGTGAATACATG
AGAAAGACTAGAGACCCAGCTGGAGGATGCCCACTTTGAGAATCAATATCAGAGTCAGCAACCCT
TGAGTAGCCTAGCCCATGAATGAGTAGAAGAGGGTTCCTCGCCCAATTCCATAGGGATTCTAAAG
AAAAAGCAATCTCTATCGACCAAGCCCTTCCCACTAATCCCGTCTGCGCTTTTCTAAGATTCGGT
TGCTACCCCGAGACGAAAGCCCTGGACAGCTATCCTTGCCCGCGA
Right flanking sequence: Indices 108572 -- 109071
CGATAAGCTGAAAGTCCTTACTAAACTCTCAGGACAGAATGACAGACCGACCCTTCCCCTTCGCT
ACCGACGGTTTAGGCAAGCTGAAGGAAGTGGGTCAAATGCCATTTCTATAGTATAGGATTCAGTG
TTCAAGGGCTCAGTAGGTAAGCAGAGTCGGTTTGTTAGCGCCTTCCGGAGTTTTCTAGTCTTCTC
TCCGTCCCGATTGCCGCTAGTCAGTAGCTCGCTTCCGGAGAAACTACATTCAACAGGAGAAACGA
AACTTTGAATAGAAAATAGAAGGATCAGTGCCCGTAGCAGTCCTGGAGTTAGGTTATGATGGTCG
TGATGAGCTCTACTAGAAAGAAAATCTCTTCTATTCATAGAGGAAGTGCTATCTAAGGGGCTTCT
AAGCCCAGCCCTTGAATTCCGTTCCGTAGTTCAGTCCGGAACTCCAGATGTGTAAGTAGCGGCCA
AGCGGCTCTGTCCTTTTCAAAGAGGTTATCCTTCTCTGTCCCCGC
Found at i:112314 original size:19 final size:19
Alignment explanation
Indices: 112290--112327 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
112280 CGGAATCTGA
*
112290 AACCCTTTGGTGTTACTGC
1 AACCCTTTGGGGTTACTGC
112309 AACCCTTTGGGGTTACTGC
1 AACCCTTTGGGGTTACTGC
112328 TGGAAACTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.26, G:0.24, T:0.34
Consensus pattern (19 bp):
AACCCTTTGGGGTTACTGC
Left flanking sequence: Indices 111790 -- 112289
TGTCAACCGAGTTCTTGCTTTTGGATTCAATCCTTGGTAAAGTGTTCGATCTCGTGGAGAGGTAC
GCCTCTAAAAGAAAAGAGAGTAGATATAGGCTCGAGAATAGGCTTGATGAACAAACAGCCGATAC
GGAATCTGAGCCAAAAAGCCAAGCCCTTGAACTTCACTCCTAGGCCATTCAACAAATCTGGCGCG
AAAAGTAAATCCGATTTCGGTCAGATCTTCAGGAGCTTCCGAATTTTTAGGTTAGTTAGGCGCCT
GGCCGAAGGTTGAAAGAATGATTCGGGGTCAGAGGAAGGGGGCAGCATTAAACCTTTCCTCTATC
AAAGAAGACTAACCCTTTGATTTTATTCAATGGTGGTTTCTACAAGAGATTCAACGACAAGGGGG
GCTATTAGTAGGATATGAAGCTTGAAATGGAAAGGTAAGGGTGAGAAAAAGAGGCCAAACGAGAT
ACGCTCGAATGAGCTAGCCGACTACGAGATCAGTCCGGAATCTGA
Right flanking sequence: Indices 112328 -- 112827
TGGAAACTCCTGAACATATAACTCTGCATGGTAAGAGGATATACAAGCTAAAGAAACATACGTCC
TGGTCGGAAAGAAGGGAATTTAGTGCTGGTAGAGCTGCCCGGTATAAGTAGGAATCTCTCTCCAG
GGCCATAGCAGCAACACCATGTAGTTACCAATTATGCTAAGCAACTTAACCGAGGAACTGGCCGA
AGTCATCAACATATTAGTAACAGAACACTGATCAGCCGGGTTCTTGAAACTCCTCGTATTTAAGG
AGCTACTTTCCCTCTTCTGCCTTCCGTCGCCTTAAGACAAGACTCAAAGCGGCGATCCAAGAAGT
TCCCTTAATGATAGTGAACTAAGGTTTTGAAAATACTCGTCCAAAGCGTCAAGTAGGAATGATCG
GTGAAATCCGCCTTCCTTGCCTTACCGACTTAAAGCAGTTAATAATATCTGTCTGCCTGCCTCAA
TGCTCGCTGACTTACTGGCCACGTTACTGAGTTCCTAGGAACGAG
Found at i:114117 original size:42 final size:42
Alignment explanation
Indices: 114058--114147 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
114048 ATCCTTACTC
* *
114058 CCCCCGCTCCCGGAGCCGCTCGTTCTCCTCCCGCAAGGCCTT
1 CCCCCGTTCTCGGAGCCGCTCGTTCTCCTCCCGCAAGGCCTT
* * *
114100 CTCCCGTTCTCGGAGCCGCTCGTTCTCCTCCTGCAGGGCCTT
1 CCCCCGTTCTCGGAGCCGCTCGTTCTCCTCCCGCAAGGCCTT
114142 CCCCCG
1 CCCCCG
114148 CTCCAGGAGG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.06, C:0.50, G:0.22, T:0.22
Consensus pattern (42 bp):
CCCCCGTTCTCGGAGCCGCTCGTTCTCCTCCCGCAAGGCCTT
Left flanking sequence: Indices 113558 -- 114057
CCAAGGAAAGGAAAAGGTTACTTCCGGATCAAGGATAATAAATAAAATTGAAACAAGATAAAATC
GTATATCGAAACGACTTCTGGCATCACCGAAAGGATCGAAACCACATTCATAGGCCGACAATTTT
TCTGGATAGGTTGAACTATTGGAAGCAAATGGAAAAGGAACACCGAGTGGGATCAAAGAAACTAG
CGGACTGATCACTAAATAGATACAAATAGGTGCAAATTCTGACATCACCACAGCCCACTTGGTTC
TTTCGCTCCTTGCTCGCGGAGCGGCATAACGGAAAAAAGTCGGAATTCTACAATTTCGTGGTCCG
CTGGGCGAACGCCTCAGATTGAGATCGTAGAAACATGAGCTTGTGATATAGCTACACCTAATTCC
GGACCGGTTAATGCAAGAACTATAAATAAAGGACCAGGATCTCCTATAAATAAATAAAAGATCAT
CCATACATAGCATAGTCCAAGTGAACCCACCTAAAATCCTTACTC
Right flanking sequence: Indices 114148 -- 114647
CTCCAGGAGGCGGTTACATTCCGCGTCTAGCGCTGCATTATACTCCTCTACCGCCTCCTTTTTGT
CTTGGTCGAGTTCTTGCGCCATCTCCAGGTCCTCCTCGGGGAAGTCTAGTTCATTTTTCGCGGCG
GCAATAAGTTGGTCCGTGCGCTCCTGCCACGCGGGTCCCTGATCGGGCAAGGATCTCCGGTAGTT
TGCTTCGTTGACCAGGTTTTCCGCGCGTTCCAGGGAATCTTGCGCACGGCGGCAGCACTCCCTGC
TCGCCTCGTCGCACTCTTCTATTTCACGACGTAGCTGGGGAAGGTTTGGTCCGTCGCTCTCGTCG
TGAGCGTCTTCCACCGTGCCGGGGTCAGCCTCCGCCACTATTTCCTCGGCGTTTGGCCCGTTAGG
ATTCATAAATAATCCTACAAATCCGAACGAGCCAAAAAGAAAAGTGACAAGGTGGAATAAAGCGG
CGCTCGAAAAAGACACTTTCATTGCTCTTATTATTCGTCTTAAGA
Found at i:175593 original size:19 final size:19
Alignment explanation
Indices: 175557--175611 Score: 62
Period size: 17 Copynumber: 3.0 Consensus size: 19
175547 ACTAAAGGGG
*
175557 TTATGAGTTAGAAG-AGTTA
1 TTATGAGTTA-TAGCAGTTA
175576 TTATGAGTTATAGCAG-T-
1 TTATGAGTTATAGCAGTTA
*
175593 TTAAGAGTTATAGCAGTTA
1 TTATGAGTTATAGCAGTTA
175612 GGGAGTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 15 0.48
18 4 0.13
19 12 0.39
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.38
Consensus pattern (19 bp):
TTATGAGTTATAGCAGTTA
Left flanking sequence: Indices 175057 -- 175556
AAAGTTAGGGGAGCAGTGTAACTGCCATCAACTCCTATAACTCTTTTCCTTAAGTTTAGGTTAGT
TCCCTCTTAATTAGGTATTCTGCAGAGTTCCGACCTAGAACTCCCTTATAAACTAGAAAGCTAAC
TCGAACTCGTAACTCAATTAATTTAAGTTACAGGTATGATAAATATAAGTTACTGTTATTAGGCA
CATCCTTCTTTCTTGTCCTTGTTGGGGAATCCTATATCTTTTAAGAAAAAAGAAGTTTTAAGTCC
TCTCCTTTGCAGTCGAGTTACTTTATTCCTCATAGCTTCACTCTTTTCTTTTAGTTCCCTACGGG
GTTAAGTTAAAGTCTTATTATTATTGATATTCCCCCTACGGGGAGGTTACCGTTATTATTATTAA
TAGAATTCTAATTAGTTACCAGTAAAGTATTATTAGGTATTAAAAGTATTTTTAGTTAGGGGTGT
AACTGGGGGGTCTGGGGGCACTCCCCCGGAACTAAACTAAAGGGG
Right flanking sequence: Indices 175612 -- 176111
GGGAGTTATGAGTTGCTAATTGTCATTCTCTTTAGTTCCCTACGGGGTAGTTACAGGTATGATAA
ATATAAATCTTAGTTACCGGTATTAGAAATATAAGTAATATAAATATATTGGTAGTTACAGATAT
TCTTAATTTGGTGGAACTGGGGGGTCTGGCGCAGTGTAACTGCCCCCGGAACTGGTTTAAAGAAG
AGTTAATTGTCTTAATCTTTAGAAACTAATAGCTAGAAAAACAGGCTATTCCATCTAAGGCATAA
CATGAACCGAGGAATCCAACCAAATAGGAATGAATAGGCATGTGGGAACAGCATTGCTTGCATTG
ATTCAATTGATTTGAAGCGGCGGTTATACTATACATACAGACATAGTTTTCACTAGGGGTTTTTA
CCGAGTTGGTCACAAGCCCGTCAGAAGCAACCTCAGCAGAAAGCCACTCTTCCAGAGTCTCGTCC
ATCGTCTGCTTAGGCGACTATTTAATAGCCTTTAGATCTGCCTGT
Found at i:195547 original size:39 final size:39
Alignment explanation
Indices: 195504--195582 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
195494 CGATTTTCTA
* *
195504 TTCACTCATGATCTGGCCTGGTCGACTCGATCATGATAT
1 TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
195543 TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
1 TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
195582 T
1 T
195583 GAAGGATGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.33
Consensus pattern (39 bp):
TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
Left flanking sequence: Indices 195004 -- 195503
GCCCACACCTGTGTAGAGTGGATCGTTCAACACCTGCGGCACAAACCCATTTTTGACCTATTGGT
CCTAGTATCATAGGCGACCGAACGGCCGCCCCCTAATTACTAGACCAACCTGCTATAATAATTCC
ATAAACACCTAGCGAAGATATGGCAAACAAATAAAGTAGCCCTATGTTCGAATCTGACAATACCA
TACCATAATCAAAAGGTACAACGGCCCGAGCAACCAGACTTAACATAAATGTAGTCACTGGAGCC
ATTCTAAAAAGGGAGAAATTAGCACTACTTGGTGAAATAGGTTCTTTTAGAATCAATTTCAAACC
ATCTGCTAGAGGTTGTAACAATCCGAACGATCCCACTACATCAGGACCCTTTCGACGTTGCACAA
AAGCCATTACTTTACGTTCAGCTAGCACTAAAAAGGCTACTCCTAGTAGAAGTGGTAGAATTATT
CCAAGTATTTCGGCTGGAACAGCTATGTACGTTTTCGATTTTCTA
Right flanking sequence: Indices 195583 -- 196082
GAAGGATGGGACCTTTTCTCGAAAAACTCCGGATCCAGAGAAGAGTTGAAGATGGTGCAACATCG
AATCCTGTTACCTTACTTCGAATGGAATCTTAGCCCGCCTCACTTGCTTTCTGTACTGCATAAGG
GCCATAAGGGCATAAGCGAAGTCAAGGGATTTCCTTCTAACTAGTGGCTGAGAGTAAGCAAGCTA
CCTTCATTCAACAGATTTGTGGTTGAGTCAATAACATGCTCTGGGTCGGGAATCTTTGCTCTTCT
CTTTTGCATTTCCGCTGCCTGCGTTCTTCTTCGTGTCCGTCCGTATCGCAAAGCTGGTCGACGCC
AGCTGTAATGGTTGAAAATAGGGGGCCAACCAAGACCCCTACCCTAATCAAGCTTTGTTCGATAA
AGCAAACGAGTCGTTCCGACAACTTCGGACCAGATTAACCCTTTTGAATTAGCCGATCTTACAAA
ATCGATCGGGCGGGGGTGATTAGCGGAGAAAAGAATCGCTGAGAG
Found at i:213774 original size:18 final size:18
Alignment explanation
Indices: 213734--213776 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
213724 ACCGCCCTGC
213734 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
213753 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
213770 CATAGTC
1 CATAGTC
213777 AACAAGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.23
17 1 0.05
18 16 0.73
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.35
Consensus pattern (18 bp):
CATAGTCGCGAGCTGTTT
Left flanking sequence: Indices 213234 -- 213733
GAAAGCTTCTTTTTCAAGTGTCAGTAGCGGAACGTTCTGTCAATCGGGGAAGGTTTTTGGTGACA
ACACCTGGAGATATCAGAAGTGAGAATGCTGACATGAGTAACGATAAATCCTGTGAAAAACACGA
TCGCCTGCCAGTGGAAGGCTTTCTGCGTTCAGTCAATCTACGCAGAGTGAATCGGTCCCTAAGGA
ACCCCCGAAAGGGCTGCCGTCCGATGGGTACACGAAAGTGACGAAGTTGCTTTGACTACAGAACC
ATGCCTATCTGTTGGAGCGAATTGGATGATCGGGCCGAGGGCTGCCCCCTCTTCCCCTCACTCTC
CTTTCCCTAATATGAACCTTGAGTCATCAAAGCCTTTCTGACTCGGCCTGGCCCGGTCGCCCTAC
GCGACTGGCGCTTCAAAAGGCGAAACTCTCGTCGTAGTTTGGCGACCTAAGGGGCCCTTAGTCTT
TTGATTAGAGTAGGGGTCGCGAGAGAGCAGAGCGTACCGCCCTGC
Right flanking sequence: Indices 213777 -- 214276
AACAAGGTTGAAACTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTGACC
GTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTCGAA
GGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAGGAA
AGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAACAC
GATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAGGTCGGAAGGAGAAGTGTTATAAGCTTTGA
ATGGAAGCCCCGGTAAACGGCGGCAGTAACTCTAACTGTCCTAAGGTAGCGAAATTCCTTGTCGC
ATAAGTAGCGACCTGCACGAATGGTGTAACGACTGCCCCGCTGTCTCCGACATGGACCCGGTGAA
ATTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACGGTA
Found at i:215182 original size:21 final size:21
Alignment explanation
Indices: 215156--215197 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
215146 CTTCCTCATT
215156 CGACTACCACAAGAAAGAGAA
1 CGACTACCACAAGAAAGAGAA
215177 CGACTACCACAAGAAAGAGAA
1 CGACTACCACAAGAAAGAGAA
215198 GTGGAAGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.19, T:0.05
Consensus pattern (21 bp):
CGACTACCACAAGAAAGAGAA
Left flanking sequence: Indices 214656 -- 215155
CAGGCTGATGACTCCCAAGAGCTCTTATCGACGGAGTCGTTTGGCACCTCGATGTCGACTCATCA
CATCCTGGGGTTGAAGAAGGTCCCAAGGGTTCGGTTGTTCGCCGATTCAAGTGGTACGTGAGTTG
GGTTTAGAACGTCGTGAGACAGTTCGGTTCCTATCTACCGTTGGTGTTAAAGGGAGAACTGCGAG
GAGCCAACCCTAGTACGAGAGGACTGGGTTGGGCCAACCTATGGTGTACCGGTTGTTATGCCAAT
AGCAGCGCCGGGCAGCTAAGTTGGTATGGAAGAACTGCAGCTCTGCGGGAAATCCTTCTCTATAC
AAGTTCTCGGAAGAGGTTTTAGAACAGAACTTCGATAGGCGAGAGGTGTAAGCACCGCGAGGTGT
GAAGCGATCTCGTACTAAACAACTTTACATAACTGAAAGAAAGTAAAACTCTTACTGCAATTGCG
GTCAGTCTCGATAACTCTTTAGTTGCCGCAACATACTTCCTCATT
Right flanking sequence: Indices 215198 -- 215697
GTGGAAGAAGCGGGGTAGAGGAATTGGTCGACTCATCAGGCTCATGACCTGAAGACTGCAGGTTC
GAATCCTGTCCCCGCCTAATAAAATAACTCAAATTACTTGAGATGCATTTGTAGGTATTGGTCGG
TTACAGCTGGTGTATTTCTACACGCCATAGATAGCATGGATTGGGAAAGAGTACGGCTGATTTAT
CACCCTTCAGTTGAAGTAGGTTTTATTTGTGACAACTTTCGTCACCGTCTTTCTTATACTAGTGG
ATTGAAGGTAGTTTACTTGCTTACTTGTTAATGTACTTAACCGGTATCAATTAAAATAGGTTTAC
CAAGAGTTTTACCTATTTGGAGAAGAACTTCGCTTAGCCTTTCTCTAGTAGTTCTTCCCCTCACT
ACGCTTCGCTTGACTTGAGTTGAGAAGAGTCATATTCATATTCTTTTTTTAAACTCCCCGTAATG
CTTGTATTCCCTGCTTTTTTCTTCCTTTCGTGTTATATAGGTGAT
Found at i:234755 original size:39 final size:39
Alignment explanation
Indices: 234701--234777 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
234691 ATCTGCAGAT
234701 AAATACCCCTACTATAAAACGTACTCTTTAGAGAAAAAA
1 AAATACCCCTACTATAAAACGTACTCTTTAGAGAAAAAA
234740 AAATACCCCTACTATAAAACGTACTCTTTAGAGAAAAA
1 AAATACCCCTACTATAAAACGTACTCTTTAGAGAAAAA
234778 TTAATATTCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.48, C:0.21, G:0.08, T:0.23
Consensus pattern (39 bp):
AAATACCCCTACTATAAAACGTACTCTTTAGAGAAAAAA
Left flanking sequence: Indices 234201 -- 234700
TGTATAACCGGTCTTGGCAAGAACGCCTTCTTATAGAAGAAGCTGCGATGAAGCGAATCTCTCAT
CTGGAACCCTCTCATTGCCAGCTTGACGGCTTGACTGCATTACCTTCCTCACCTTCCCTTTCTTT
GTCCCTTAACTGCTGACAGCAAGCATTCCTGGAGCTAGTAATCTGCCAAAGAATATAAAAGAGAA
GTTGCATCCTAATCCGCTCCTGGTGGAAGGGTTGAAGGAGGAATTGCACAATGTGCTATCAAATC
CGCTGCATCGAATGCCCTGTTTGGCTCTTTGATCGAAGGAGCTGTTAGGGGAATGGGATTGATGG
AAGAATTGGACAAATAAATACTGTTTGCGACGAATACGCTGCTAGTCTTTTGGATGCGGGATTTC
CGCTCTTAGGGGAAGATCCGCTCTTTTAGCCCACTTTTTTAGACATCTATTAGACCGTAGGGCAC
GAACGGAGTGGTTTAACACTTTTGTCCAATTCCTCATCTGCAGAT
Right flanking sequence: Indices 234778 -- 235277
TTAATATTCCCCTACTTAATATGAAAAATAATACTTAAGCATTGGCAATCCTCCCCGGAAAAGAC
GAATCCCAATAGCCTGAAGCTCTCTACATTGAGATAGTAGAAACATACTCATATATAGAGAGATA
TCCAAGGGTCAGGCAAAGGGAGGATTGTAGAAAAAAAAAGACTCGTTTATTAAATAAACATTCAT
AAATCAACTAGCCAACTTAGGACTAGGTACGCTCGATGGTAACTCCTGAGTCTAATTTCGGACTA
GCCAGCGGGGGGAGAGATATATTGGTTTTATGTTGCAACCCAACGTAGGACTTGGAACCTCCAAG
CCTACGAAAAAAAACACGTTCTATAATAATAATTTCCTATGACCTATAAGACTGATTTAGTAGAA
AAATGTTCGTTGGATCGCCTTGTGTATGATATCGGTATAGTATACTATAGTTTCTGGGAATATTT
TCCAGGATTAACTGAACAAAAGGTTATAGAAATTCAGAATAGTGT
Found at i:257181 original size:21 final size:20
Alignment explanation
Indices: 257151--257190 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
257141 AACCCAAAGT
257151 TATATTCGTAGGTCGGTTAC
1 TATATTCGTAGGTCGGTTAC
*
257171 TATATATCGTAGGTTGGTTA
1 TATAT-TCGTAGGTCGGTTA
257191 GGTCGGCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.10, G:0.25, T:0.42
Consensus pattern (20 bp):
TATATTCGTAGGTCGGTTAC
Left flanking sequence: Indices 256651 -- 257150
GGATACGTGAGTCACCGCCTAACTATCAGCCTATACCCAAAAACGAGAAAGGGTAAAAAACTCGA
TCAACCCCTGTCTTCCATGGATTATTTGATTACGTAGTTCGACTGGATAGTTTAACCTGGGATTA
GAGCCCATATATGTGTACCTGGAGGGGCTTGTACCCTAGAGGTTGCCAATCTATCGATACCAGAC
TCAACTCTAATAATATAAAAAAGAAGTGAGTAAACTCCATAACGTAAAAAGACCGAAATTAGACC
ACTAAAGCGACGACCTAGAAGGGTACCCCTTCAACCCCTATAATTGCTTGCTGAAGGACAACTCT
GGGAAGCTTGAAAAAGACCAAATAACAGTAACATAATCACAATATCATAGATTAGGCCGAACATT
TCATTCTACTTAAGAAAAGAGGCCAAAATAGAATGTGCAACTCAGCCCTTGACCCTTTGGGATGC
GATTGATCTGTTTTTCCAACTAGACTTTTCAACCTAACCCAAAGT
Right flanking sequence: Indices 257191 -- 257690
GGTCGGCTTGCCTCTAACCTGCTCTCATGACTGCTAGATTACATACTTGACTTTTGTTCCTTCCT
GCGTTTATATTTTTCATTGTCTTGAACCTTTATTTTTTCTCTTCGGTGACTCCCTCTCCTTTCCC
TGCGCCCGCGGTCAAGCTACTTCGTTCCTTTCATCAATCAAGCTACTTCGTTCCTTTCATCAATC
AAGCTACTTCGTTCCTTTCATCAATCAAGCTACTTCGTTCCTTTCAGTCGAGCGAGTCTAGCTCC
CCTGCTTGCTTTAGAAATGGAGGGCTAAATAGCGCCTAGCTCCCAGTCATAACAGTTGGAAACGC
ACGGCTAGGTCAATCAGCATAAGAAGAATCCGACGCTGAGGATTGACTCTTCTCTTTTTAAGGAG
TTTTCTTAGTCTTTTCTTGGAGCTAGAGCATCTAGGTCTTTTATGATATGATATTGAATCATTCC
TTCTTCGTTTACAGCAAAAAATAAGACTTACCTATGGAATGAATG
Found at i:257361 original size:26 final size:26
Alignment explanation
Indices: 257332--257431 Score: 200
Period size: 26 Copynumber: 3.8 Consensus size: 26
257322 GCGCCCGCGG
257332 TCAAGCTACTTCGTTCCTTTCATCAA
1 TCAAGCTACTTCGTTCCTTTCATCAA
257358 TCAAGCTACTTCGTTCCTTTCATCAA
1 TCAAGCTACTTCGTTCCTTTCATCAA
257384 TCAAGCTACTTCGTTCCTTTCATCAA
1 TCAAGCTACTTCGTTCCTTTCATCAA
257410 TCAAGCTACTTCGTTCCTTTCA
1 TCAAGCTACTTCGTTCCTTTCA
257432 GTCGAGCGAG
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.22, C:0.31, G:0.08, T:0.39
Consensus pattern (26 bp):
TCAAGCTACTTCGTTCCTTTCATCAA
Left flanking sequence: Indices 256832 -- 257331
TATCGATACCAGACTCAACTCTAATAATATAAAAAAGAAGTGAGTAAACTCCATAACGTAAAAAG
ACCGAAATTAGACCACTAAAGCGACGACCTAGAAGGGTACCCCTTCAACCCCTATAATTGCTTGC
TGAAGGACAACTCTGGGAAGCTTGAAAAAGACCAAATAACAGTAACATAATCACAATATCATAGA
TTAGGCCGAACATTTCATTCTACTTAAGAAAAGAGGCCAAAATAGAATGTGCAACTCAGCCCTTG
ACCCTTTGGGATGCGATTGATCTGTTTTTCCAACTAGACTTTTCAACCTAACCCAAAGTTATATT
CGTAGGTCGGTTACTATATATCGTAGGTTGGTTAGGTCGGCTTGCCTCTAACCTGCTCTCATGAC
TGCTAGATTACATACTTGACTTTTGTTCCTTCCTGCGTTTATATTTTTCATTGTCTTGAACCTTT
ATTTTTTCTCTTCGGTGACTCCCTCTCCTTTCCCTGCGCCCGCGG
Right flanking sequence: Indices 257432 -- 257931
GTCGAGCGAGTCTAGCTCCCCTGCTTGCTTTAGAAATGGAGGGCTAAATAGCGCCTAGCTCCCAG
TCATAACAGTTGGAAACGCACGGCTAGGTCAATCAGCATAAGAAGAATCCGACGCTGAGGATTGA
CTCTTCTCTTTTTAAGGAGTTTTCTTAGTCTTTTCTTGGAGCTAGAGCATCTAGGTCTTTTATGA
TATGATATTGAATCATTCCTTCTTCGTTTACAGCAAAAAATAAGACTTACCTATGGAATGAATGG
GAAAGCAGCTGCTTAGACATAGCCGCTATCGCCCATGGCAAGGGTGAGTCTTTTCTTGATTTGCT
TGCTCGAGGAAATTTATTCTGATTCCCCTTTCTTTTCTTTTTATTAGTTTTAGGGTTGGGTCTGG
CAGAGAGGAAGTACAATCAGCTACACCCGCCCTTGTGCCTCGTCAACTGCTTATCTTTTTTCCAT
TCACTTAGCCGGTGCTTCAGGTGGAACTGCTCATGTTGGGCATCC
Found at i:280316 original size:22 final size:22
Alignment explanation
Indices: 280276--280319 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
280266 TATAAATCAA
*
280276 ATATAGATGAGTAATTCAAAGT
1 ATATAGATGAGTAAATCAAAGT
280298 ATATAGATGA-TGAAATCAAAGT
1 ATATAGATGAGT-AAATCAAAGT
280320 CAGTCGTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.48, C:0.05, G:0.18, T:0.30
Consensus pattern (22 bp):
ATATAGATGAGTAAATCAAAGT
Left flanking sequence: Indices 279776 -- 280275
CTATCCGAGTGAGTCCCAGTCTGGGAGAAGGGGGGGCCATCTGTTTCAGAAGGTCCGAAGATTCA
TTTCAAAAAACAGGAATGTCAGAGCAGTTAGTCCGCATGTCCCTAACTACCTTGTTCCTGATTGG
ATTGCTTTCTTAGTGTGGCATCTTTTTGTTCGCTGTCCACTGGTGATATTATCATATCATATATA
AATGTAGATAGAGAAAGAGGCTAAGCTAAGCCTACGTAACGCTATGGGAACAGCTTTTTTTGTCC
GCTTTCAGCTATGCTATATAGATGCGCTACCTTGTGAAAGAAAACATCATATGTAAGTAAGTAGC
ATCTAGAATAGAATCCAGAGCTGCTAAGAAAAAAAAAAAAATATTTCGAGAAAGAGGCTATAAAC
CATTGAATTGTGTCGATTCGAGCTAGCTTCAGGTCTTCTTCAATCAGAAAGTCATGCCTTTTCAC
TATAGTAAGGGATTCGATCCATATCACAAAACATATATAAATCAA
Right flanking sequence: Indices 280320 -- 280819
CAGTCGTCTATCAGTTATGGAGTTGAGAGTCACCTTTGTTGCTTCTTTTGTCTCCTACGGTTATG
CTAAGATATATTAAAATGTGCATTCAACCTATATTTCCCCTTTTCTATTGTACAGATGCCTATTC
ATTTCTGCGTAAAGCTCCCCCTTTCCTTTCTTCAAATATCTCATTTCTCAGTCTTGACTACTTCG
GGCACGGCGCGCAACGGAACAGAAAATGAAAGCAAAGAAATCTAGCCTCGTATTCCAAATAATCG
ACCAAGGAATGAAGGGATCCGTTTTGATAGATCCCGTTTTGGCTTTCATATGGCAGATGGTCCGG
TGCCTTTTCATATATGTAATGATGGCGCCCTAGGATTACACACCACGCAAGGCGGGCAAAGCCAT
TCAAATTTCACTACCTAACGGAGGAGCGTGATAACCTCTTTGTAATAAAGGAATTCATTCACCCT
TTCCATCGGCTAGGAACAGTTGTTTGGATTGGACATACGTCACAG
Found at i:281923 original size:14 final size:14
Alignment explanation
Indices: 281904--281931 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
281894 CCATCCCTTC
281904 TTCTCGAATATGTA
1 TTCTCGAATATGTA
281918 TTCTCGAATATGTA
1 TTCTCGAATATGTA
281932 CTCTTATTTC
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:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (14 bp):
TTCTCGAATATGTA
Left flanking sequence: Indices 281404 -- 281903
AACCTTTTATTTGCTGTGATCTCGATCCTGTTCCGATTCGGATTTCCTTTTGTAGTGGATAGCAT
CCCCTTATTGTCTTCACTAGCGTTTTCTTTTTATGTCCCGGAGCAGTCGCCTTATTCAAAACTAT
AACGATTATAGCTGCTGTACAAGAAATAGATTATATTAGTAGTAAACTATAAGACTTTTGCTTCT
AATATTGAAAATGAAGCTTCATCTCTTACCTGCGGATTTTAGTGCTTTTGAAGTGCATCTCGCGG
CCAACAAGCTCTAGTGACTGCCTCGATCAAAAGCCCTTAACCTCCTTCCTATTTGAGGATGATAC
CCGGGAACAATCCTAGATCAATGAAAGCAACCGAAGCATAGCAAGGGGAGCTTTAGCTTCTTCAT
CATGTCATTCTTCTGCTAGATGAGCCCATAAGCAATCGTAGGGCTTCCAAGCCCGACTATACTAG
ATTGGACCCTTCTGTATCTACTCTACAGAAAATAACCATCCCTTC
Right flanking sequence: Indices 281932 -- 282431
CTCTTATTTCATAGAAATGAACCATCTCGCCTTTCTCTACGCTGCCCGGTTCGTCAGGAAGGTAG
ACAATTACCACATAATAAGCAAGCAAGGCCTCATCCTCGGGTAGCATTCATCGGTGGTAGGGTGG
CGTCCCTGAAATAATAACTCTTTAATAGGCACCGCCTCGTCGAAGAAAGATATCTATTGAGTATG
TTCGCGATTCCTCTTCTTTACTCCTCCTTACTTGAAGATTGAACCTCAAAACTCTTTTATTTCGA
CCTCTATTAAGCTAGTTTTACAGGGTGATCCTGACTAAACCAAAGTACCGTGACTCAAGGGGCAT
GATCGCAAGGCCGAATCTTTTAATGTAGGGACTTCACCAGACCCGAACTTATCCTCTTAACTATG
AGTCGCCATCTTCAATTTTCTTTGTAGCCGATATCTTTCCTCCGCACCTACAAGGAGCTATATGC
ACCTCTTGTCTAATTGATCACAAGTCAAGGAAGAAGAATCTCTGG
Found at i:318994 original size:16 final size:17
Alignment explanation
Indices: 318973--319006 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
318963 ACCAAGCACT
318973 AGGCGCTAACA-GACAA
1 AGGCGCTAACAGGACAA
318989 AGGCGCTAACAGGACAA
1 AGGCGCTAACAGGACAA
319006 A
1 A
319007 AAACAAGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.44, C:0.24, G:0.26, T:0.06
Consensus pattern (17 bp):
AGGCGCTAACAGGACAA
Left flanking sequence: Indices 318473 -- 318972
CTTAACACATGCAAGTCGAACGTGATTTTCGGGGAAAATCTAAGCTTTGTAAAGAGCTGCTCGTT
AGCTAGCAAATCCGCTATGGTCTATGGTCTCCTAATAAGCGTACTACCTAGAAAGCTCAGTAATT
GGAAAAGAAACAGAACTAGAACAAGAAAGCGGTGGGTTTCGGGCTTGCGAGTGCCTATCTATTCT
AACTTCCTACTAGCTAGTGGAGCGAGTATTACATAACCTTGACTGATAAGGAGAGGAGTACTGAA
CATTAAGCTAAAGAGGAGTCTATGCATGTCGAGCAGAGATAAGACCAGTGCGAGATATGAGATCG
AGAGCATACTAGCACAGTTATAGAACATAACCGCGAGGTGCAACCTCTATTCCAAGAAAAGACTT
AAGAGGTCCAAGATCCTTCATATCTTAAAGGCCAGCTGATCCTTAAGAAAAGAAACGAAATGGCA
TCAGCCCCATCTCCAGAGATAATAAATCGACATATACCAAGCACT
Right flanking sequence: Indices 319007 -- 319506
AAACAAGCTTCGAACGAGAATGAAAAGATCGAGAGTACGTTCAGTGGTTGTTGAGTTGTCTTGGC
CTACTGAATAGAGAGTTGAATTGACTAAGCGCCCCGTTTGCTGGGCCTACAGAGAGAGAGTTACG
TGTAGTCAACTCGGTGGGGTATTCTCAATCGGCGAAGCCTCGCTACAGTCACAGCTACAACAGCT
AACAACAGAGCGGATATCACGCAGCGGATATATCGGTTGTTAACATCGGGTGCTAAAAGAAAGCA
ACACGAATTCTCTTATATAACGAGATCCTATTATCTTACATAACCGGCGACAGGGGTCTCTGGCT
TGAAAGATGGCTTTATCCGGAGGTCTCTTCATCGGCCCCAACCGAGGGAGGGAAAACGCAGGTGC
ATTAGATGCTTCATTTGTTTATGTTTGCTCGCCCACAGATGAATGACATATTGGATGTTGGATGT
TAAAGTGAGAACTTTTTGGGAAAAGCAACCAACCTCTAGGAACCT
Found at i:408657 original size:17 final size:17
Alignment explanation
Indices: 408635--408671 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
408625 GCACAGATTC
*
408635 CCTATAAATAAAAATTT
1 CCTATAAAGAAAAATTT
*
408652 CCTATAAAGAAAGATTT
1 CCTATAAAGAAAAATTT
408669 CCT
1 CCT
408672 CTCTTCCCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.16, G:0.05, T:0.32
Consensus pattern (17 bp):
CCTATAAAGAAAAATTT
Left flanking sequence: Indices 408135 -- 408634
TTTCATCTCTTATTGCTCCAGCTCCTAAGGAATGAGATTAGCTTGATTACGCACCAGATTTACTT
TTAGTTACTGAAAGCGCTGATGAACGATCTTCCTTATTTTAGGATGCAACTCGGATTCCTCCTTC
ACGGCTTGAAGCCGGATAGCTTGAAGCTTAAGGGCTCTCGGAATTCCCTTTCAAGCTTTCTCGAG
TCACCCTAACGTAACGGCTAAGAGAACTTGGCTAACTTCGATCAATTCCACGACTTTCCATCCTT
CTTGTGTTGTGAGAGTTTCAGATTAAGGGGATGCGAGTCATCAGTTCTTTCCTCCTAGTCTAGGC
TTTAGGCCTGATAGTTCATTCTCGAGGATCACTGAACTTGGCTTACTTCTTACTGAATGCCGTAC
TTAGAGTTATCCCACTCGGGGTGAGCTCTTAGCGATTAGTCAGTCCGGGTCCAGCTAGTCTTGCA
CTTTCAGACCGGTCCTTCAAACAAAGGCTTAGTAAGCACAGATTC
Right flanking sequence: Indices 408672 -- 409171
CTCTTCCCCAGAATTAGAATGCTTTCCTTAGCTAATACTGATTGATTCACCGCATCTTCTCGTTC
ATTACATTAGGAGATCTAACCAAGCACTCGAAATGCGACATTGACTAAAGAAGGTAGACAAAAAG
GCAAACTAGAGAAAAAGCCAAGCTGACTGAATTAAATATGTAAGCGGATTGGTGTGGAACTAGAT
CCTCTGTTAGAGTTACAGTTGTTGTGTAGCCGGGTTCACCCCCAATGATACGAAGGGCTAGCTTT
GCTACCCGAAAAGGCTACTTGCTTGCGGGACCCTTTCGTTTTCGAGTTTGCCCATACTTTTTGTT
TGAACAGATATTATGTTAGTGTTCCGTCTTAGGTCGAAAAGAAAAAAGAATTGCGTAAATAACTC
GTCAGAGTCACGATCTACTAAAAGGCAAGTAGCTTGATTGGTTCGAATCCAATTCGTGAGATGGT
TTCTTTTCTTCTTTTTTTCCGGTATGCCGCTCCGCGAACAAGGAG
Done.