Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_039596
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: 484916
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Found at i:50562 original size:14 final size:16
Alignment explanation
Indices: 50543--50582 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
50533 TCACTCCCTT
50543 GAACAGGAACT-AG-A
1 GAACAGGAACTCAGAA
50557 GAACA-GAACTCAGAA
1 GAACAGGAACTCAGAA
50572 GAA-AGGAACTC
1 GAACAGGAACTC
50583 CAGCAAGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 5 0.22
14 8 0.35
15 10 0.43
ACGTcount: A:0.50, C:0.17, G:0.25, T:0.07
Consensus pattern (16 bp):
GAACAGGAACTCAGAA
Left flanking sequence: Indices 50043 -- 50542
CTCCGCAAAGAAGAGCTAACTTCTAACTCCCAGCTACCGAAGGAAGAAGGGAATTCTAGAGGAAG
GGGAAGAGTTCGTACAGGCTCGGAATTCTATTCATAGGAAGAAGTAGGTAATGCAATTAAAGGAA
AGCTATATGGAATGGCCCTTTCTCTTGTTTCCTTCTCGTATAGCTGGAAAACTTAGTCTTTTCTA
AAGGCTTTCCCCGCAGGAGATGAGATTTGATAAGATCGGATTTCCTTTCCTCAGGAACTACTAGA
AGTAGAGGAACTGGAACAAGAAGAACAACTAATTTCATTACCTTTCCCGAAGAAAGAATAAACAG
AAAATGGCACATCTACAATGGAACTTTTAAAAGCAATAAACTAGATGCATCTAATGGGATGCACG
CAGAGAGGAGACTGTGGGACTGTCTCCAAAGAGCTGGTTGTGAATAGGAATTCATTATTGTTAGT
AAGACTCCCTTCCTCGATTCCTCCTTCTCCCGGTTTCACTCCCTT
Right flanking sequence: Indices 50583 -- 51082
CAGCAAGAAGAACTAATAGCTATCGGAACTCTAAAACAACTTTAAGCGAACAAGAGCAATTTAAT
TACATTGCCTTAACTTACTAACTAGACTGGCTCTTCCTCTGACATGGAATCTACTTTTTTTTTAA
GAAAATAAGAGTTAATTGCTTCGCACCTTGCTCTTCGCTACGCACCTAGTCTTATCGCTTTAGAG
GTAGGACTATTGGGTGAGTCCTCCGGATCTGTCCCTCGAACTCAGAACTCTGGAACTACTAACAA
GAGGAAGCACTATAAGAAGACTAACTCAACAGCTACAGGAACCCTAGAAAGAACTCTATAGCACT
GTAAGTCAACACAAGAGTAGCTCGTCCCCAGGAAATGAGGGTAGAGCTATTTCATTGCCTCGCTA
CTTTTTATACAACCTCGCCCTTCAAAGCTATCGGGAATTCATTCTAGCAATTAACATTGCCTTGA
ACCGAAATCCGAGACTCTTGAATCAGCTGCTTTCTCATCTGCTCT
Found at i:126881 original size:16 final size:14
Alignment explanation
Indices: 126860--126899 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
126850 TCCCATGAAT
126860 CACTGCTTTCTGCAC
1 CACTGCTTTC-GCAC
126875 GCACTGCTTTCGCAC
1 -CACTGCTTTCGCAC
*
126890 CACGGCTTTC
1 CACTGCTTTC
126900 CGCTTAATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.39
15 4 0.17
16 10 0.43
ACGTcount: A:0.12, C:0.40, G:0.17, T:0.30
Consensus pattern (14 bp):
CACTGCTTTCGCAC
Left flanking sequence: Indices 126360 -- 126859
CTGCGCTCTAAGGCTATCATAGTAATGCCAGCATGGTTACATCTAACTGCCTACTGGGCAAGCTT
CCACTTCAAAGTCACCTGATTTGGCACCAGCCAAAGGAGTAGGAGCATGGGCACTGGGAAAAGAT
TGAATCGATCCAGCTCTGGTAACAAAGCAGTAGGCAAGCCTTAGTGTGGACCATCCATACCTCTA
AGCCCGAGACTTTTTCTCCTCGGATCGGAGCGCACCACGGGATGCTTTGTGAACAGCCCCCTCTG
CTGGTCCCGCTGCAGTTATATGAGCTGCCCCCTCTGTTCAATACCGATACCTGTCAGATTCCATA
GCTGATGAATCTCTTTCTTTTGAAACTCTTTCCCTTGATCGTCACGCAAGACGCTTTTCCGGCAC
AAACCTAGTAGTTATTTGTCCTGCCGATCTTGGGGGAACTGATGACACTGATGCTCCAAGACCAA
GAGTTTTCACAGCCAAAGCTATTGAAGCAGCTCCCTCCCATGAAT
Right flanking sequence: Indices 126900 -- 127399
CGCTTAATAGATAAAACAAAGTCCTATCCCAGTTGATCGAGCTGAATCCACCCCCAGCATCTCAA
GTTCTTAGGCGGGCAGGTGCATCAGCCTCTTCTTTCTTGTTTCCGACAGGGCTAGTGTAGCTAGC
CGCACAAGCCTCTGACCTGTACTCCAAAAAGGGAAGGTGAGGGGCTTAGAAACGGGTAGATAGAC
TAGACCAAGAAGAAGAAAAGAAAGCGCAACTATACTAGGCGAGGGAGGCTACACCCGTAGGAGCC
GACCGATTGTCGCTATAGTAGGTTTGCTATCTTTTTCGAGTGCAGTGAGTAAAGTAGCTAGTTAA
CCTTACCGAGGCTGGCAGCTCCTCCATAGTAACATAGTAACAAAAAAGGCCCCCATAACCACACG
GGAGGGTAGGTCAGATTCAACTGGATGGTCACGCTTCTTCGAGCCTAAATTGGAGGAAAGCTGGT
TCCGTGAGTAGCCTATAAAAACAAGGGCGACTCCCAATGGCTTTT
Found at i:213120 original size:30 final size:28
Alignment explanation
Indices: 213079--213160 Score: 103
Period size: 27 Copynumber: 2.9 Consensus size: 28
213069 TGGGATTCAG
* *
213079 AGGATTCGCAGCCGGTTGCTGCTCCGCA
1 AGGATTGGCAGCAGGTTGCTGCTCCGCA
* *
213107 TCAGGATTGGCAGCAGGTTGC-CCTCCGGA
1 --AGGATTGGCAGCAGGTTGCTGCTCCGCA
213136 AGGATTGGCAGCAGGTTGCTGCTCC
1 AGGATTGGCAGCAGGTTGCTGCTCC
213161 TGCGGATTGC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 19 0.41
28 4 0.09
29 6 0.13
30 17 0.37
ACGTcount: A:0.16, C:0.28, G:0.34, T:0.22
Consensus pattern (28 bp):
AGGATTGGCAGCAGGTTGCTGCTCCGCA
Left flanking sequence: Indices 212579 -- 213078
GGTCCTGCATCCACCAAGAACATTTCTTCCCTTAAGCGTAAAACTTCAGATTGTAAGGCCTTTCC
ACTACATAAGAATAAACTTGAATTAGATCTTGGAAATGATCGACTCAAATAGATGCTCATCATAA
GCTTTTTTTTCCTCCTCTTCCTGTTCTATTGATCAGAAGCATCCAGCAGCGCCACGGAATGGACC
TAATCACCACCCCTCCCTATTTGAGTGAGGTCTTGTGCCACATTGGAGGACACTTGCAAGCTTGG
GAGGTGGGGTAGGATCTCTTGAAAATATGGACTCTTAGATCCCAGTCTTTCGAGACTTTGTCGGA
TCTCGCCCATATTTTCCGACCCATGTCTCTCCTCCAATAAGTGGGTAAGGCTTTCGGCCTGAACC
TCACTAGGTGGACGGATCCTGAGATCCGAACAGATGTCTTGGATGTGATCCGCTATGGAAATACT
AGTTAAAACCCGATGACCATATTGGTCGATAGGGTTGGGATTCAG
Right flanking sequence: Indices 213161 -- 213660
TGCGGATTGCTTGATGAGCCCCCATGTGCATCTCCGGAGATACCATTTGACCCATTGTAAACCCA
ATAAAGGATGAACAAAAAAAGACTAGCATCTCAGGAAGGCCAAGCTGCAAAAGTAGTAAGCGTGT
TCCCGAAGAGATGAGAATCTGTTGGCATTTTGGTAGGGGTAGGAGGATCCCAAAGTGGGAGCAAA
GCTGATAAAAAATAAACTTGGTACGGAGTACGATAGAGAAAATAATAAGGTTTAGGAGAATCGTT
TTTTCCTTTAAGTGTTTGGTCGTGCTGTCGATGCTAGTTCGAATGCCCTTTCTCATTTATGATAA
CGTTTATCTCCTTCTTCTGGGGCATACTACTAATCTCTTTTTTGGCCATTCGCGATCGAGCACAA
CCTAAGTTGTACGCCTACATAACCTACCTCCCCAAGGGACGAAGGTATCAGATCTATGTAGTTCT
TAACCCATTTTGTTATACCAGTTCCTGTACTGAGCTAGAGTCAAG
Found at i:289821 original size:18 final size:18
Alignment explanation
Indices: 289781--289823 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
289771 ACCGCCCTGC
289781 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
289800 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
289817 CATAGTC
1 CATAGTC
289824 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 289281 -- 289780
TCAAGTGATTCACCGAAGCGACGAGACCTTGAAAGTTGCTTTTTCAAGTGTCAGTAGCGGGACGT
TCTGTCAATCGGGGAAGGTTTTTGGTGACAACACCTGGAGATATCAGAAGTGAGAATGCTGACAT
GAGTAACGAGAAATCCTGCGAAAAACACGATCGCCTGCCAGTGGAAGGCTTTCTGCGTTCAGTCA
ATCTACGCAGAGTGAATCGGTCCCTAAGGAAGCCCCGAAAGGGCTGCCGTCCGATGGGTACACGA
AAGTGACGAAGTTGCTTTGACTACAGAACCATGCCTGTCTGTTGGAGTGAATTGGATGATCGGGC
CGAGGGCTGCCCCCTCTTCCCCTCACTCTCCTTTCCCTAATATGAACCTTGAGTCATCAAAGCCT
TTCTGACTCGGCCTGGCCCGGTCGCCCTACGCGACTGGCGCTTCAAAAGGTAGTTTACTTGCTTA
CTCGTTAGAGTAGGGGTCGCGAGAGAGCAGAGCGTACCGCCCTGC
Right flanking sequence: Indices 289824 -- 290323
AACAAGGTTGAAACTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTGACC
GTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTCGAA
GGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAGGAA
AGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAACAC
GATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAGGTCGGAAGGAGAAGTGTTATAAGCTTTGA
ATGGAAGCCCCGGTAAACGGCGGCAGTAACTCTAACTGTCCTAAGGTAGCGAAATTCCTTGTCGC
ATAAGTAGCGACCTGCACGAATGGTGTAACGACTGCCCCGCTGTCTCCGACATGGACCCGGTGAA
ATTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACGGTA
Found at i:297047 original size:18 final size:18
Alignment explanation
Indices: 297020--297055 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
297010 AACAACAAGG
* *
297020 CTTGTTAACATCCGAAGA
1 CTTGTGAACAGCCGAAGA
297038 CTTGTGAACAGCCGAAGA
1 CTTGTGAACAGCCGAAGA
297056 AGAGGATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (18 bp):
CTTGTGAACAGCCGAAGA
Left flanking sequence: Indices 296520 -- 297019
AGAGCTCTCGTTAGCCCAAAGGTCCCCAAAAGACTTGCAGTCGAGCGCACGCAAAAGATCCAGGC
CTTTTTGTTTGAGTGGGATTTCGCTTCTTTTGATCCTCCGTCTGAGCCGTTGGGTGGAAGATAAA
AAGTTCTTCGGGTGGAGGGGAAGAGTAGGTGGTTTTTCCACTTAATCTTACTATACGGCAATGGG
AAGTCTTTATTGGGCAAGGTCAAATGGGATTGAATACATCGCTTAGGTACCCGCAGATTCTAAAT
AAGATTCTAAGTCATCGGTTTACGAGAATAGAATCCAGCTAGTAAAGCTAGTAAATTGACTTCAA
CACTTTTGTATTTTCTAATTCATTCTCCAGGGGAATCCATTTTGAAAGAAATAGAATGCTATTGC
TAATATCATTCCACCTTAACTCTTTTGATCGAAGGAAGGTCGAATCCTTCTCTCAGGGCCCCCTT
CCTCACCTCCTGTAATAGCTGTGGATTTAGGCTTTAACAACAAGG
Right flanking sequence: Indices 297056 -- 297555
AGAGGATTTTTTGTTTATACCGATACGTGGGGAAGAACTCGCTTTCCTCCGGAATAAAGGGCAAA
ACAAGAGAAGATCGGGAATTACAAGCAAGGGGCGGAGCGAACCTCTTGCGTAAAATAGAATGAAT
TGCTTGCCCGCAACTTCGCTCCGAGGGTTAGGATCAAGGGTCGTAATCGGGCAGTCGGGAGTAAC
ATCAAGCTCGGACGTTCTCGACAAGCCAGTACCACTGGACCAAAAACGGGGATGCCCATTGTGAA
GGCCGGGTGGCATTCCAAGGCTTTTGGCATATTGATTGCCAAAAAGAACCTGTCCTATATACCGC
TAAATGAAAGGAATAAAGCATAGCATATTAGCCCTACATGTATCACCGAAATCGGTAGGTTAGAC
ATTTGAATTTAACTTATCCTCTCCATTTAGTAATTGAGTTCTTTCACTTTCCGTGTCGAGTGGTA
AAGTTCCACTCATTCCCTCCCCGAATCCATCTGCACCCAGCCAAA
Found at i:330399 original size:24 final size:24
Alignment explanation
Indices: 330362--330421 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
330352 CTCTTCTGAT
*
330362 TCAGATGT-AGCTTCTTCTCATTCA
1 TCAGATGTGA-CTTCTGCTCATTCA
330386 TCAGATGTGACTTCTGCTCATTCA
1 TCAGATGTGACTTCTGCTCATTCA
*
330410 GCAGATGTGACT
1 TCAGATGTGACT
330422 CCTTTTCTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
24 32 0.97
25 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (24 bp):
TCAGATGTGACTTCTGCTCATTCA
Left flanking sequence: Indices 329862 -- 330361
TATGCTTTCGAAAGAAAGATGATATTCGACAGTCTCTTTTCGTTGTAGGAAACCGTCGAAATAGC
AAAGACAGAGCTGACGGTTTTTCCTCAATCAAATCAGCAACTGCCTAATAAAACGGCCACCTATG
TTTATTTTGAAACCCCTAAGAAGAAAGAAATTCTAAGATGAAAACACTTTACAAAGTGAGGCTTG
GCGTGGCCCTAAATACGCGAAAGCAAGGCGGGGCTTTAACTACTTTAAATCCGCCTATCTTTATA
AGTTCGAGCTTGAGTTCGATTTTATATCCGCTTCAAAACCGTTCATGTTCGTATTCTTATTTGTT
TAATCGTTCCCGATCGAATCCTCCTTTTATCTTGAACCGTCCGTCTTCTCCTCGTAAGTCTTTCT
TATGTGTCAAAGTGTGGATTTCAGATAGTCAGAAAGGGGACATCATGGTGCTATATCCGAAGGGG
AGAAAGCCACTTTTCTCTCGTTCCTATTCTTCTATCTCTTCTGAT
Right flanking sequence: Indices 330422 -- 330921
CCTTTTCTTAAATATTATTTCGTAAGGTTGATCTTTATTTCTACCTTTTTAGGTATTTTTTATAT
TCTTTGTCTGAAATTCAACTTGATGGATTTCTTTCATGCCTTACTTTCAAAGGTTGGGTTCTCTC
TGGGCGGTCGAGCCCTATCCTTTGCTCTAAGAGGGTTGGGCTGCTCAGCAGGGCTTGCCTTGACT
GTATACTTTGCTTTACGAGCGCTGCTCACATACCAAAACCATATGATGTCCCCTGAATCCCCCAG
TTTGAGTGGGTCAAAAGTCGAACAATTTCTTTTGGGAGACTCCCCTGTTCCTTCTATCTCCCCTG
GGGGGATGGACGGTGACGAAGCCACCTCTAACCTCCCTAATCGGGGGGAAGAAAACCAAGCGCCA
GGTAGGAATGAGGCGGGCGCCGCTTCGTCGGCACAACCCCCAATAGGGGGGGATGACAATCCGTC
TTCTTCCTTTTTTAAGGGGATTTTTGAGCCGGGGGAAGAAATCAA
Found at i:351758 original size:15 final size:15
Alignment explanation
Indices: 351738--351768 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
351728 AAAAAAGAGC
*
351738 AATTAATATTACTAT
1 AATTAAGATTACTAT
351753 AATTAAGATTACTAT
1 AATTAAGATTACTAT
351768 A
1 A
351769 TATCTCATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (15 bp):
AATTAAGATTACTAT
Left flanking sequence: Indices 351238 -- 351737
ATTGATCAGAAGAAACGTCCACTTCCCCCCCTTATGCTATGGAGGTCGTTAGCGCTACCAACCAG
TGTATTTGTTCTTCTGCTTGTCCGCTATCTTTAAAATGCCTTCTGTCAGTATGAGTGAGCGTCTT
TCCCAGCTCCCGGTCTTTCTAAACAACAACGGGTTCTAAGAAATTCAGCCTTGTCATGGCTGGTT
GAGGTTAGAATTCATAAAGGTGGGTAGAGATGGCTGCAGTAGATTCTTCCGACCGAGTCCCAGTA
GCAGAGTCTTGAGGCACGGATCTAACGGCAAGGGAATCAGCGGCTGATCGCGATTCATCAGTCGC
AATTCTCCCAGCAGCTATCCATTTGAGTTCGCCAGTCAATGACTGAGCTGTGATTGCATAGGTGG
TAGAGCAAGCTGGAGCGGAGGCAGCCTATTCTTCTTATTGCTAACAGCCTATTAGGGAAAAAAGT
ATAGTAAGAAGCAACAGGAGAAGAAAGACAGAAAGAAAAAAGAGC
Right flanking sequence: Indices 351769 -- 352268
TATCTCATTTTGCTTCGATGTTCTCGTTCTTGTCCTTTCCTCATCCTTGCTGCTTTGTGCCTCTT
GTGCTTTTATCAGCGCGTGGCACCCTGTAACAATGAATTGAGCTTGGCTCTGTCTGTCCTTCAGT
TTGTCTTGCTTCATTTCTTTGCCTTGGAGCTGTTCTTCTCTTCGGCAATCCGCCCTAAGGTAGCT
AGGTAGTTCCTGAGTTAGGAGTTAGAGTTGTAGCGGATAAAAGATCTTATATCTTATATATATAG
TTCCTCTTTCCTTGCTTCTTAGTTTGTCTAGGAGCAGGAGTAAGAAGTCATAAGTAGTGGTGAAT
CCGTGTAGCTGTCAATTTCACGAGAAAAAATACATGTTAGTTAGAAGCACTATGTTATACAATAG
AAAATATGTTTAGGGAGTACTCTGATTTTTACGATTTAGATTTTAACGAGATGGAGATTTTATTA
AAGAGAAAATTATGAGTGATAATTACTCTTTATCTCCTCTAAAGC
Found at i:361537 original size:15 final size:15
Alignment explanation
Indices: 361514--361543 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
361504 CCCTACTAAT
*
361514 GTATTGTATAGTAGG
1 GTATAGTATAGTAGG
361529 GTATAGTATAGTAGG
1 GTATAGTATAGTAGG
361544 CGAGCGAGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.37
Consensus pattern (15 bp):
GTATAGTATAGTAGG
Left flanking sequence: Indices 361014 -- 361513
GGTCGCTCGGGCCGTTGTACCTTTTGATTATGGTATGGTATTGTCAGATTCGAACATAGGGCTAC
TTTATTTGTTTGCCATATCTTCGTTAGGTGTTTATGGAATTATTACAGCAGGTTGGTCTAGTAAT
TAGGGGGCGGCCGTTCGGTCGCCTATGATACTAGGACCAATAGGTCAAAAATGGGTTTGTGCCGC
AGGTGTTGAACGATCTACTCTACACAGGTGTGGGCTTACAGGGCTAGGGCTCATAAACCCTTTCT
TTCATTCAAAAAGAGGGCCCTGGTCGGTCACTTTTCCGGGCCGGGATCGATAAGTGGAAGTCATA
AAAAAGAGATCTTTCTCTTCGCACCTCAGATCCAGAGGAAGGGTAGCTTGTCAAGCTGGCCTATA
TAAAATATATATAAATTCTTTATATATATATAAAGATTCACTGTCTTTTAACCGGCTGTTCTTCT
TTGTCAACGCTACTAAGGACCTATGGGTTAGCCTACCCTACTAAT
Right flanking sequence: Indices 361544 -- 362043
CGAGCGAGTTAGCGAAGACGCTTAGGCTAATAGATAAGAGAGCGTCAGTGCGTAGCCTTCATTCT
ACTACGCTACGCAAAGGTTACGAAGTCACTTAGCTCGACGTTAGGAGAGTCAAGGGGGAAGGCCA
TACCTACATAGAAGAACCGCTGTTCGCTGACTTTCTAAGGTCTAACCTTTCGCTCCCCTACTGAA
AAGGGGCACAAAGCCGCTTTGCACCACTGATAGACTACTTAAGATTCCATTCAAAAGGCCCTACT
TAGTTTCGCAAGCCTTTGTCATTGTCAGTCAACTAAGTAGGGCCTGAGGCCCCCTGCGAATCCGT
AAATCTGAGGAGCATGCCGCAACAAAAGGATGGTCCCCTATGCATTTCATTCTTTCCGGAAGGGA
AAAAAAAAGTACCCCCATCATGGTGAACCTCTCCTTGTGATCGGGATGAGGTAGATGCCTCCCAG
CTGGGGGGCGGATCGAATCGGAGTTTCCTTAGGTAGCCACCGACC
Found at i:386049 original size:22 final size:22
Alignment explanation
Indices: 385994--386041 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
385984 TTTATTATAA
*
385994 ATATAAATCAAAAAAGAGATTCT
1 ATATATAT-AAAAAAGAGATTCT
*
386017 TTATATATAAAAAAGA-ATTCT
1 ATATATATAAAAAAGAGATTCT
386038 ATAT
1 ATAT
386042 TAGTTAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 8 0.36
22 8 0.36
23 6 0.27
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.33
Consensus pattern (22 bp):
ATATATATAAAAAAGAGATTCT
Left flanking sequence: Indices 385494 -- 385993
AATGGCGAAAACTAAAAAAAAAAAGGTTTCCCGGTAGAACCCCATTTCGCCCAAGTTGTTGCGAA
ACCGGAAAAAAGAAGCGGTTTTTCGCACAGCTTGCTCATAGTGCAGGTCCCACTTGTATATTGTA
TTTGGCCCAAGAAGCATCGGACAGGTTGGAGTTCTTACCTTCTTGGGACTCCATGGACCAAGATC
TGCTTTCATTATATGGGCAATATCGATCTACTTACTTTAGTAGATCATATGGATGTAGAAAAAGC
TTCTGATTTTGATGAATTGGAAACATCTCTTTTCCATTTTTATTTACCTAGTTCATATCTTTGTT
TCGTGTGTTCCCGGGAGGAATTCGATCTTTTCAATCTCGGGATACCACCTAAATAACTGCTGCCA
GAGAGTCAAATAGGTCGGGAAGAAAGAGTCTGAGGTCGGGTCGGACGACATACATCTTGGTTGGT
TCCACCACCACTAGAGATTTAACTAATATATAATCTTTATTATAA
Right flanking sequence: Indices 386042 -- 386541
TAGTTAAATAGCTGCAAGACCAAAACAGGGTGCAAAAAACCGAAAGCCCTTCTTTTAAGTTCCTC
CCAGATACATGGCTTACATACCCGGCTCAACATTCTTGGAAAACAATCGAATCGAGGGTCCGGAG
GAGAATTGGCCATTCAATCTTGTAAACTAATTGAGACCGAAATTGGAAAAAGAGATACGAACGGA
GAGGAATAACCAATCGATGAAAGAACATGAAACCATTCTGTTTCAATAGAGGTACGAGAAACGGT
TGGGGGCAATGAAGTAGGTGAAGTGGTTGGATTTTGCGAGCTGTTCCAACCACTGCTGGATGTGA
TTCCAAGAGCCAAACGAGAATGAATACCACACAGAAGAGTCAAGACCAGGCTCCCTAATGGAATG
TTTAACCGATCCATTCCGGATCGACCGAATTGGTACGGAAGTTGTAACATGGAAAAACCACAGAA
AACACAACTTATTTGAATAACCCGGTGACCTACCAATTGTAGAAG
Done.