Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_062587
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: 299474
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Found at i:38490 original size:27 final size:27
Alignment explanation
Indices: 38452--38511 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
38442 TAACAACAGA
38452 GCATCCCTCTCAAATATTAGAGCTCTT
1 GCATCCCTCTCAAATATTAGAGCTCTT
38479 GCATCCCTCTCAAATATTAGAGCTCTT
1 GCATCCCTCTCAAATATTAGAGCTCTT
38506 GCATCC
1 GCATCC
38512 GCACAGCGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.25, C:0.32, G:0.12, T:0.32
Consensus pattern (27 bp):
GCATCCCTCTCAAATATTAGAGCTCTT
Left flanking sequence: Indices 37952 -- 38451
ACCGTGGGTAAGCAGTATTATTTTTATGAACCGCCCGAAAGAAAGATTTATCTATGCCGGTATTT
CACAATAGTCGCCGGGATCAGAGAATTAGACAAACCCCCCTCCGGTTAGTAAGAATATTAAAGCT
AAACAACAGCGACTGGTTGTAGGGCGTATAGCAACATAACAAGAATTGACACGATGAAAATCAGT
GCATTTAAACCACTCCTGAGGCACTGAAAGTGTAATATCCGCATCCTAAGGTTTTATGCATCAGA
ATTGATCAATACCGTTCATGTGATCGTAAGCTAGTTGCTCAATAACGTAGTGAAAGGCGCTGACG
AAGTGAAGTAATACCGGGCTTTTTATGCCACTTTTTAGTACTCGATAGCGAAAGATACACAAGGC
TGGGAAAGATTTACTTTAAAGGGCCTACATTCGTCTCTGTAAGCATTATAATCAACAACGCTTGA
CATAGTTTAATAAGATTCTTTAACAGCTTTCCGCTTAACAACAGA
Right flanking sequence: Indices 38512 -- 39011
GCACAGCGGATTCGAGAGCGGCATTTTAAGCATCTCCTTCAGCGCACATTGCCACCAATCTCCGT
GGTTTTTCAATGGATTTCCTCGTAAACGAGTTTATCTTTTGACCAAAAGCGTACTTTACCGTGGG
TTTTCTCTCATAAAGAGATTGATTCGTCAGAACAGATTCTCTTCCGCATACGGGCGGGATGCGAG
GCTCGACGAGCGGGGGCAGTTGTTTGAGCAGCAGATGAAACTGGAATGAAATAAAGTAATAAGAG
AATGCGGCTGTTTTAACGGCAAGGCACCTTAATATGACATTATTTAAGAGATATATTCATTCTCT
TTCTGCGGAACTAGACCTCCCAGAACAACAAGCACTTATTGCAACCAATGCCACCCGCCAATCAA
TGCTTCAATGGACTCAGCTGCTTCATCCTCCCTTTCAGGCTTTTGACTCCGCGAGGGTGCATCGT
AAATGGGCATCTTGATCCGTAACTCGACCCTTCGAAAATGCTCCT
Found at i:65925 original size:17 final size:17
Alignment explanation
Indices: 65899--65931 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
65889 TTCCTATCTC
65899 TAAAGGGGC-TTACCCA
1 TAAAGGGGCTTTACCCA
65915 TAAAGGGGGCTTTACCC
1 TAAA-GGGGCTTTACCC
65932 TGACACAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 5 0.33
18 6 0.40
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.21
Consensus pattern (17 bp):
TAAAGGGGCTTTACCCA
Left flanking sequence: Indices 65399 -- 65898
TCAGTTTCTCTGAGGCTCTCAAGCTGAGAGAAAGTGTTTGGATGATTTTTGCATGGTTTCAGGGC
GCTTTGAGAAATAGAATATCTTATGTTCTCCTAATATCGATAGGCAAGTTGCTTATTTCTGTGTG
CTCTAGGCTTGACAAGCTAAACAGAAAAACTTTTTTTGGTAAAAATAAGAGGAAGATCCATCTTG
CTAATTAGGATTTGGTGTGTAGACCAAAAGGTATGGGCGCCGGAGTTTCCTCTCGTTGAGATTTT
GGCAATCTCGTGCGGGTTGAAGCAAGCATTAGATATGGGCCTTTCTTCTCTGATGCTGGAGTCAG
ACGCGACGCTCAGGCGGTTGTCTTTGCATTGAATGAAGAGGAGAGAAGCGCGCAAACAGTGTCGG
ACGTTACTTAGGCAATGCCGACCGGCACTTCAACCACTGAAATAGCAGCAAATTCTTTTTAAAAT
TCTCAATGTTGCCTCAATAAAGCAGCTAGGCCGTTTTCCTATCTC
Right flanking sequence: Indices 65932 -- 66431
TGACACAAGTAGTCTCCGCGGCTATACTATATCAAATAGCCTATAGCGCTACTGTACTTGTTTTT
TTTTGTCTGGTTCTTTGCTAGCCAGACACCTGTCAACCAACCATCCTGCAACTATAAGTTCTTTC
GCAAGCCAAGCCAATATCCCTTGATCCGCCCGAGGAGAATCCGAGTGAAAGCAGCAACCAGCGTG
ATAGTAGCGTGTGTCAGCAAACAACTCTAAGCTGAACTGATTACAGATAGGTAGTGCATTCTCTG
AGGTGAGTGAAGTGCCCTACTTCTATCTTACGGGTAGTGGTAGTGTAGCTGGGCTATTGATCCTG
GTGAAGGAGCCCTATCAATCAAGTAAAGGCCGGGCGAGGGGTGATAGAATAGCAAGCAGGGTAAC
TTACGCAAGCAAAGGAAAAGACCCTTCCGACGACGCAGCAGCCAACCACCTATTCGAGCCTGCAA
AAATCTATGTGAACAACTAGGGGCCCGCGATTACTAAGGATCGAT
Found at i:87448 original size:11 final size:12
Alignment explanation
Indices: 87429--87454 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
87419 GTAACCGGTG
87429 AAATAAAAAAGA
1 AAATAAAAAAGA
87441 AAATAAAAAAGA
1 AAATAAAAAAGA
87453 AA
1 AA
87455 GAAATTTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
AAATAAAAAAGA
Left flanking sequence: Indices 86929 -- 87428
TAAATGATGTTAGGATCGGCCGGCTCGTTCTCGGAATCCTAAAATAAAACAGAGACAGAACGGAT
TGTTTCAATGACATATCTAATCAGACTGAATAGGATTTGAAGAGCTGTCACGATCATTCACATCA
ATTTCAGCAGGCAGGAAGGGCGCGGAAGCTACCGTTTCTAGAATGCAAGCAAGGTAGCTTGCTTA
CTCTCCTAGTAGCGTACGTTGGCGGCAAGGAAGGAGGCATTGGAAAAACTAGACCATACTAAAGT
AAAGAGGCATTCGGGAAGCTACTAGTCGCTTCTGGCGAAGCTTATAGAAGGCCGACCGCTACATA
GAGAGATCCATATACTATACCAGTCATGAGCGATAGCGAAGCCTAGAGAGGCGGAAGCAGTAGCT
TCTAGGACGAAGCCGAGCCGATAGTCGGGCGAAGGAAGCGAGACCAAGCCGAGCCACTAGTGGAG
TGGCGAAGGAGGCCTACTATACGTATACTGGATTAGTAACCGGTG
Right flanking sequence: Indices 87455 -- 87954
GAAATTTCAGTGAACTATTGAACAGTGTGATTGATCAGACAAGTACCAAGGGCTTTCGGTAGACT
TCTTTCATTTCCGAATTAGCTTGCGAAAAGTCCTTGCATTAGTATGAGTTCGTTGACCGCGTAAG
GGCAATCCATCTTGATGACGAATTCCACGATAACAAGAAATAGAAATTAATCGTTCGATGTCTGC
TCGTTCTCCCCTCTTCAATTCCCAATGAACAACATGATCTTGACCTATCATTTGTTCAATTTGGT
CGATCTGATACTTAGTTAACTCTTTTATCTTTATGTTCCCACTGATACCTAATCGATAACGAACC
TGAATGGCTTTTTTAGGTCCAATTCCATCAATTTTTGTTGAGGCAATTCTTACTTGTTCATCGGC
AACTGATCTAGCTCCTGAAATATATGACATTCTTGATCCTTCCTTTTACTAGTCTTCTCGGCTGG
AATCAAAAATGGGGTGTCTCCTCTCTGATGATCTTTTCTATAGGT
Found at i:130045 original size:31 final size:29
Alignment explanation
Indices: 129992--130067 Score: 73
Period size: 31 Copynumber: 2.5 Consensus size: 29
129982 GTTGGAAAAA
* *
129992 AAGTAAAACTCCCTCTCCCTAAC-AGTCGAGT
1 AAGT-AAACTCCCT-TCCCTAACAAGT-AAGC
*
130023 AAGTGAAACTCCCTTACTCTAACAAGTAAGC
1 AAGT-AAACTCCCTT-CCCTAACAAGTAAGC
130054 AAGTAAACTCCCTT
1 AAGTAAACTCCCTT
130068 TGAATCTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
30 11 0.28
31 25 0.64
32 3 0.08
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.24
Consensus pattern (29 bp):
AAGTAAACTCCCTTCCCTAACAAGTAAGC
Left flanking sequence: Indices 129492 -- 129991
ACTTTAGGAGAGTCATATTTTCTGGTACGTCCATCTACTTATAAGCGGCCGGCTATGTTCTCTAA
ACTCATCTATTTCCTCTCGGCTCTCAGCGCAACGAGAAAGGATTCCCCAATAGCTGAGATTGGTA
CTAGAATTCGCGAATCTAGAGAGCACCAACGATGTTGACCGGGAGGGAAAGGAGCAATTAAAGCC
TTTCATCTCAATCAAATGACCGAAATGGAGACTCTATTCTTGTTGGCAAATGCAAATACGAATCC
ACTGATTTCCATCCCCATGTTCTCTGAGCAATGACCTTTGTTTCCAACAGTAATGGAGATTTGTT
GCAAACTGTCTCCGAATCCCGTGCTTTTCAAGTAAGCACCAACTCCTGTGATGTGTATTCCCCTC
CAGAGTCTGTCCTCAAACATGGCTTTCTTTGCCTTGACTTTATAAGTTTCATTCTCCACTAAGCT
TCTGAACTCTATGAATTTTTGAAAGATTTCGGACCGTTGGAAAAA
Right flanking sequence: Indices 130068 -- 130567
TGAATCTTATCCATTGAAGAAGACAGACTTCAAGACTGAAACCCGCCCTTTATTATTATATTATT
AGTAAGATAGGTTTGGAACTCGGGCTATAGTTATACTATATGCCCGGGCTTTTCTCGCTTGTTGC
TTTCTTTCTTCGCATGCTTTCGCGCATTTTTAAAAAATTTTTCTTCTGGGGCGAACTCCCTATCT
TGATCGAAGTCCTGAAAGGCTTGGTTATGGTAGTCCCTCGGTCTATAAGATGTAGGCTTATCAAG
CTGAGGGAATTGCATAGTCAAGAGGAACTAAGTGCTGGTGATCGGAGCGTGGGGAACTCAGGCCG
CTGGTAGTAGAGGCAATGCAATTGAACCAATTTCCTTACACTCTAGCTGAGGGAGAGACTTTACC
TTTACTTAGAGAGGGGCAGCAATACTACTATGCTCTTCGGTGCTCGTAGGTTGACTTCCCTTATG
CACCCAGCCGCTTCACTAATGTGAATAGGTTATACAGAAGGGTGA
Found at i:132627 original size:39 final size:39
Alignment explanation
Indices: 132584--132662 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
132574 CGATTTTCTA
* *
132584 TTCACTCATGATCTGGCCTGGTCGACTCGATCATGATAT
1 TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
132623 TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
1 TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
132662 T
1 T
132663 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 132084 -- 132583
GCCCACACCTGTGTAGAGTAGATCGTTCAACACCTGCGGCACAAACCTATTTTTGACCTATTGGT
CCTAGTATCATAGGCGACCGAACGGCCGCCCCCTAATTACTAGACCAACCTGCTATAATAATTCC
ATAAACACCTAGCGAAGATATGGCAAACAAATAAAGTAGCCCTATGTTCGAATCTGACAATACCA
TACCATAATCAAAAGGTACAACGGCCCGAGCAACCAGACTTAACATAAATGTAGTCACTGGAGCC
ATTCTAAAAAGGGAGAAATTAGCACTACTTGGTGAAATAGGTTCTTTTAGAATCAATTTCAAACC
ATCCGCTAGAGGTTGTAACAATCCGAACGCTCCCACTACATCAGGACCCTTTCGACGTTGCACAA
AAGCCATTACTTTACGTTCAGCTAGCACTAAAAAGGCTACTCCTAGTAGAAGTGGTAGAATTATT
CCAAGTATTTCGGCTGGAACAGCTATGTACGTTTTCGATTTTCTA
Right flanking sequence: Indices 132663 -- 133162
GAAGGATGGGACCTTTTCTCGAAAAACTCCGGATCGAGTTGAAGGTGGTGCAACATCGAATCTTG
TTACCTTACTTCGAATGGAATCTTAGCCCGCCTCACTTGCTTTCTGTACTGCATAAGGTTCTGAA
AGAAAGTAAAGGGATTTCCTTCTAACTAGTGGCTGAGAGTAAGCAAGCTACCTTCATTCAACAGA
TTTGTGGTTGAGTCAATAAGGGTCGGGAATCTTTGCTCTTCTCTTTTGCATTTCCGCTGCCTGCG
TTCTTCTTCGTGTCCGTACGTATCGCAAAGCTGGTCGACGCCAGCTGTAATGGTTCATTTCGGGA
GTTTGAACACCATCCCAAAAATACAACCCTGTCAAAGGTATTTAACCTTCCTTCCTTCTGAGTGG
AAATCCAATCCCGTTTTGTCTTTTTTGCATAAAAACCAAACTAATAATATATATATATATTTCTT
TTAAACCCGTTCTTCCGACCCCTCCAAAAATGACCTTCTCCAGTG
Found at i:168079 original size:18 final size:18
Alignment explanation
Indices: 168056--168092 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
168046 GGTTTTCTTG
168056 TTGATGATAGTGACGATA
1 TTGATGATAGTGACGATA
168074 TTGATGATAGTGACGATA
1 TTGATGATAGTGACGATA
168092 T
1 T
168093 CGGCCGTGAC
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:0.32, C:0.05, G:0.27, T:0.35
Consensus pattern (18 bp):
TTGATGATAGTGACGATA
Left flanking sequence: Indices 167556 -- 168055
CTCGAACAGTGATTCGATTGGTGATAAAGAAAGAGAATTCTTGGTTCAGTTCTCCACCTTAACGA
CAGAAAAAAGGATTGATCAAATTCTATTGAGTCTGACTCATAGTGATCATTTATCAAAGAATGAC
TCTGGTTATCAAATGATTGAACAACCGGGAGCAATTTACTTACGATACTTAGTTGACATTCATAA
AAAGTATCTAATGAATTATGAGTTCAATACATCCTGTTTAGCAGAAAGGCGGATATTCCTTGCTC
ATTATCAGACAATCACTTATTCACAAACCTCCTGTGGGGCTAATAGTTTTCATTTCCCATCTCAT
GGAAAACCCTTTTCGCTCCGTTTAGCCCTATCCCTCTCTAGGGGTATTTTAGTGATAGGTTCTAT
AGGAACTGGACGATCCTATTTGGTCAAATACCTAGCGACAAACTCCTATGTTCCTTTCATTACAG
TATTTCTGAACAAGTTCCTGGATAACAAGCCCAAGGGTTTTCTTG
Right flanking sequence: Indices 168093 -- 168592
CGGCCGTGACCTTGATACGGAGCTGGAGCTTCTAACTATGATGAATGCGCTAACTATGGATATGA
TGCCGGAAATAGACCTATTTTATATCACCCTTCAATTCGAATTAGCAAAAGCAATGTCTCCTTGC
ATAATATGGATTCCAAACATTCATGATCTGGATGTGAATGAGTCGAATTACTTATCCCTCGGTTT
ATTAGTGAACTATCTCTCCAGGGATTGTGAAAGATGTTCCACTAGAAATATTCTTGTTATTGCTT
CGACTCATATTCCCCAAAAAGTGGATCCCGCTCTAATAGCTCCGAATAAATTAAATACATGCATT
AAGATACGAAGGCTTCTTATTCCACAACAACGAAAGCACTTTTTCACTCTTTCATATACTAGGGG
ATTTCACTTGGAAAAGAAAATGTTCTATACTAATGGATTCGGGTCCATAACCATGGGTTCCAATG
TACGAGATCTTGTAGCACTTACCGATGAGGCCCTATCGATTAGTA
Found at i:205413 original size:30 final size:30
Alignment explanation
Indices: 205377--205437 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
205367 CTCTGCTCCC
205377 CCCAAAAAAGATGAAAGACTTGTAAGAAAT
1 CCCAAAAAAGATGAAAGACTTGTAAGAAAT
205407 CCCAAAAAAGATGAAAGACTTGTAAGAAAT
1 CCCAAAAAAGATGAAAGACTTGTAAGAAAT
205437 C
1 C
205438 GCCGGTTGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.52, C:0.15, G:0.16, T:0.16
Consensus pattern (30 bp):
CCCAAAAAAGATGAAAGACTTGTAAGAAAT
Left flanking sequence: Indices 204877 -- 205376
TCTGATGCGTGAGATCGGAGAAGGTATTTCGGCCTAAGAACTGCACACCGAGCCCGATGGACAGT
TCGCGTCGCCTATCCTCGTCCCGCATTAGGGGTTGTGGCAGTTCCGGAATTTCCGGTGGGGGCGG
GGGGGGAGAGAGGGGTTCTGGCAACTCGGCCTCCTCGGGCGGGGCGGGGTAAAACTCGATTGGAT
TACCCCCAGTGGTTGAATAAGACAAGGCCACTTTAGCGGGCTCACAAAAAAGAAGAAGCAAGGCC
ACGATAAAAAAGGAAGGAGGTAACTTGTCCTCAAAAAGAGGATCCCCCTTCATCTTAAGCAGAAT
GAAGGGAATCATGATCAAATGGAAGATGATCATAATTCCTGCCGGGCTCATCGAACTAAATTCAA
AGACAGGGGGCTGGCTCGGTACAAGTTCTACAGGACCCGATGTGAGGAATATCCATTCTAGCACT
TTTACAATCATTTGGTTTGGTTCATTTTTTGACTGCTCTGCTCCC
Right flanking sequence: Indices 205438 -- 205937
GCCGGTTGGGTTGGTCCAACCAAGAAAGACATGGGAATCTCACATTGGGCATTGCTTGAGCTGCT
TCCCCGGTCATACTAAGTATGGTTCCGTGAGAGATCCCGAAAAAGGACTTTCTAATCGGATCAGC
TTTTCTGTACCATTCTTAAGACCACCAAGCCCTCTCGAATGAGTTCTACTATAGAAGCTTTCAAC
GTACACCCAGGGACAAATCTTTCACTCACTGAGAAATGAAACCCTGTGACTAGATCGTCCTGAAG
ACGGATGCGACGGGAAGAAATGGCATTTGGAAGTGTTGCTGACTTAACATTTAGGTTTCGGCATA
ACAAAGCTTGCACTGTCTTTTCGCACTTAGGCGCACAGCGTGCAATTGGTAATGATTCCACTACG
GTGCCACAAATTCGTAAACTGATCCTAAGGAATCGTTGTTGTTCATTGGATTCCAGAGGAACGAC
TTCGTTAGGATTGGGGAATTGCTGCGATTCTTCCTGAATAGCCTG
Found at i:292405 original size:18 final size:18
Alignment explanation
Indices: 292365--292407 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
292355 ACCGCCCTGC
292365 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
292384 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
292401 CATAGTC
1 CATAGTC
292408 AACAAGGTTT
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 291865 -- 292364
GAAAGCTTTTTTTTCAAGTGTCAGTAGCGGAACGTTCTGTCAATCGGGGAAGGTTTTTGGTGACA
ACACCTGGAGATATCAGAAGTGAGAATGCTGACATGAGTAACGAAAAATCCTGTGAAAAACACGA
TCGCCTGCCAGTGGAAGGCTTTCTGCGTTCAGTCAATCTACGCAGAGTGAATCGGTCCCTAAGGA
ACCCCCGAAAGGGCTGCCGTCCGATGGGTACACGAAAGTGACGAAGTTGCTTTGACTACAGAACC
ATGCCTGTCTGTTGGAGCGAATTGAATGATCGGGCCGAGGGCAGCCCCCTCTTCCCCTCACTCTC
CTTTCCCTAATATGAACCTTGAGTCATCAAAGCCTTTCTGACTCGGCCTGGCCCGGTCGCCCTAC
GCGACTGGCGCTTCAAAAGACGAAACTCTCGTCGTAGTTTGGCGACCTAAGGGGCCTTTACTCTT
TTGATTAGAGTAGGGGTCGCGAGAGAGCAGAGCGTACCGCCCTGC
Right flanking sequence: Indices 292408 -- 292907
AACAAGGTTTAAACTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTGACC
GTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTCGAA
GGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAGGAA
AGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAACAC
GATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAGGTCGGAAGGAGAAGTGTTATAAGCTTTGA
ATGGAAGCCCCGGTAAACGGCGGCAGTAACTCTAACTGTCCTAAGGTAGCGAAATTCCTTGTCGC
ATAAGTAGCGACCTGCACGAATGGTGTAACGACTGCCCCGCTGTCTCCGACATGGACCCGGTGAA
ATTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACGGTA
Found at i:299169 original size:26 final size:23
Alignment explanation
Indices: 299121--299173 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
299111 AGGAATGGGT
299121 GAACGGGAAACCTGTTGTTAGGA
1 GAACGGGAAACCTGTTGTTAGGA
299144 GAACGGGAAACCTGTTGTTAGGA
1 GAACGGGAAACCTGTTGTTAGGA
*
299167 GGACGGG
1 GAACGGG
299174 GCCTGTTGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.28, C:0.13, G:0.40, T:0.19
Consensus pattern (23 bp):
GAACGGGAAACCTGTTGTTAGGA
Left flanking sequence: Indices 298621 -- 299120
GTTATTTAAAACCAATAACAACGTAAAAAACACGTGGTTTTGCATGTAGGTGAAGGGTCAAATTG
ATCAAAAAAGGAACGCTCTCACTAAGTAAAACGGCTTTTCTAGGTTTTGTAGCTAGGGCTAGATG
GATTTCGTGTCAAAAGAAAAACGAGTGAAAAGACCATTTCAAGCAAAAAAGACGGGGTTTTAGAC
TTTTTTCCAAAAAGCATGCCACTTCACTTCTTATTCACTTCCTCACTTTGTTTACTTCGTAACCT
TTGGTATTGCGTCTCATCCAGGTGATTAATATCACGTCATAGCATTTCTTCCCCTGCTTCTGAAA
GAAAAGAATCATATGACTTACCTAGGCGGTTGTACCACTTGAAAGGTGACATTGAAGAAGCTGAA
TCGAAACTTATACGATATTGTAGAGAACCACTCTGAGTCTTTATTCCCCTAGTCTTCTTCGCATC
CTTACTTACCTCCTTATACTACTGTAAGCATATGAAGGAATGGGT
Right flanking sequence: Indices 299174 -- 299474
GCCTGTTGCCAAGGAGAACGGATAACATGGAAAGACAAGGAATACAAGGAAAGACAAGGAAAGCG
TGGGAGTTGCCGGGGTAACCTCCCTCTCCGGTCGAGTAACCTTCTACCTCTCCTTGTTGCCGAGG
AATTCCATTCCTATTAAAATTCCCGGGAAAGTCGACTTTGTTCGATAGTTCCCATCTCTCGATCA
CCCCACAAGAGAAGCCACTCGAACGAATAGCTCCTTTCTTGCCGTGGAATTCCTCAAAGCTATAA
TATAAATGGAATTCTCCCTTGACTCGATCTTTAAAAAAATT
Found at i:299230 original size:10 final size:10
Alignment explanation
Indices: 299202--299236 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
299192 CGGATAACAT
299202 GGAAAGACAA
1 GGAAAGACAA
*
299212 GG-AATACAA
1 GGAAAGACAA
299221 GGAAAGACAA
1 GGAAAGACAA
299231 GGAAAG
1 GGAAAG
299237 CGTGGGAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.57, C:0.09, G:0.31, T:0.03
Consensus pattern (10 bp):
GGAAAGACAA
Left flanking sequence: Indices 298702 -- 299201
TCTCACTAAGTAAAACGGCTTTTCTAGGTTTTGTAGCTAGGGCTAGATGGATTTCGTGTCAAAAG
AAAAACGAGTGAAAAGACCATTTCAAGCAAAAAAGACGGGGTTTTAGACTTTTTTCCAAAAAGCA
TGCCACTTCACTTCTTATTCACTTCCTCACTTTGTTTACTTCGTAACCTTTGGTATTGCGTCTCA
TCCAGGTGATTAATATCACGTCATAGCATTTCTTCCCCTGCTTCTGAAAGAAAAGAATCATATGA
CTTACCTAGGCGGTTGTACCACTTGAAAGGTGACATTGAAGAAGCTGAATCGAAACTTATACGAT
ATTGTAGAGAACCACTCTGAGTCTTTATTCCCCTAGTCTTCTTCGCATCCTTACTTACCTCCTTA
TACTACTGTAAGCATATGAAGGAATGGGTGAACGGGAAACCTGTTGTTAGGAGAACGGGAAACCT
GTTGTTAGGAGGACGGGGCCTGTTGCCAAGGAGAACGGATAACAT
Right flanking sequence: Indices 299237 -- 299474
CGTGGGAGTTGCCGGGGTAACCTCCCTCTCCGGTCGAGTAACCTTCTACCTCTCCTTGTTGCCGA
GGAATTCCATTCCTATTAAAATTCCCGGGAAAGTCGACTTTGTTCGATAGTTCCCATCTCTCGAT
CACCCCACAAGAGAAGCCACTCGAACGAATAGCTCCTTTCTTGCCGTGGAATTCCTCAAAGCTAT
AATATAAATGGAATTCTCCCTTGACTCGATCTTTAAAAAAATT
Done.