Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_056358
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: 425282
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Found at i:10 original size:5 final size:5
Alignment explanation
Indices: 1--25 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1 TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA
26 GGAGATGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Left flanking sequence: None
Right flanking sequence: Indices 26 -- 525
GGAGATGCCGGGCCTTGACCCCAAGTTCATCACCTTGCAGTAAAACATGGTGCACGTCCAGTAAA
ACAAGCTCAAAGGCGATTCAGACCTGAGCTGGTCCCGAGGATCGAAGCAGAAGTCAATAAGCTCA
TCGAAGCAGCCGCTCCCTTAGGAAGGTCAAGTATCCTACTTGGATTTACAGTATTGTTCCTGTGA
AGAAGAAGAATAGACAGATCCGAGTGTGTGTCGACTTTAGAGACCTCAACCACGCATGTCCTAAG
GATGACTTTCCACTTCCTATAACAGATCTTATGGTCGATGCCACCACAGGGCATGAAGCTTTAAC
TTTCATGGATGGCTCTTCCGGATACAACCAAATTCGCATGGCACCGCGAGATGAAGAAATGACAG
CTTTTCGCACGCCTAAGGGTATCTACTGTTACAAAGTAATGCCTTTCGGGTTGAAGAATGCTGGA
GCGACGTACCAGAGAGCTATGCAAAAGATCTTCGACGACATATTG
Found at i:3026 original size:12 final size:12
Alignment explanation
Indices: 3009--3034 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2999 TCGAAAGGTT
3009 ATGAATCGATTA
1 ATGAATCGATTA
3021 ATGAATCGATTA
1 ATGAATCGATTA
3033 AT
1 AT
3035 AAGTCCAATC
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:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (12 bp):
ATGAATCGATTA
Left flanking sequence: Indices 2509 -- 3008
CCTCATTGGTGCCACCAAGGAGGCCCCACATCCCAGTATCATCCGATACTACTTCGAATTCGGGT
CGAGTTTACGTTAACCCAATCGCTGAGGGAAGATCGGCGGGGGCTTCAGAGGTAGGGATCGGTAG
TGTGCCCAAGAATTCTCATCTGGTACCCAATGCTACCCAACCTGGTTCACGCATAAGCAAGCCAG
TATGTATACCGGTTCGCCATTTACCAAAGAGCGAGATGCTACTCCTGTTTACGGCGGCGGAGGGA
AAGAACACAAAACAAAAAAATTAGAGAGAGGGTAGCCAGTCTATCTCAAATAAAGGGACACGGTG
ACACCTCTCTAATCCATGTTCTCCAATAGATTGACCCGCAATAATACCTACGGCTTCTCCCAATT
CGACTAGGTCACCATGAGTAGGACTGCGGCCATAACATAATCGACAGATCCAAGATGTACTCTTG
CAAGTAAAGGGGGTTCGAATAGATATTGGTTGTGTTCGAAAGGTT
Right flanking sequence: Indices 3035 -- 3534
AAGTCCAATCCCAATATCTTGATTTCGAGTGGCAATGCATTGTGGACCCATATATATATCATCCG
CTAATACACGACCAATTAATGTTTGGATAAAAATGCGTTCCGGCATCATCCCATTTCGAGGACTC
ACAAAAAGACCTCGTATGGTGCCACAATCTGTTCGACGCACAACAATGTGTTGAACTACTTCAAC
AAGTCTCCGCGTGAGATATCCAGCATCTGATGTTCGTACAGCAGTATCTACAACTCCTTTCCGGG
CTCCATAGCAAGAAATGATATATTCTGTTAAAGAGAGTCCTTCGCGTAAATTACTTTGAATGGGT
AAATCAATCATTTGTCCTTGGGGATCCGACATTAATCCTCTCATACCTATTAATTGATGTACCTG
AGATGCATTTCCTCTAGCTCCCGAAAAAGACATTATATGAACTGGGTTAAAATAAAAGGGTCAGT
CATTCTAAAATTAGGATTCATTTCTTGTCGCAAATATTCACTTGT
Found at i:123341 original size:21 final size:21
Alignment explanation
Indices: 123308--123355 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
123298 GTAAGCTTCT
* *
123308 CTTTCAGCTTCTGTAA-GGTAG
1 CTTTCAGCATCTGCAAGGGT-G
*
123329 CTTTCTGCATCTGCAAGGGTG
1 CTTTCAGCATCTGCAAGGGTG
123350 CTTTCA
1 CTTTCA
123356 TCAATATCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (21 bp):
CTTTCAGCATCTGCAAGGGTG
Left flanking sequence: Indices 122808 -- 123307
GTCCGTAAAAGCCCTCTTTTAGTCGCCAGAGAGGGATAGGCTATGTAAGTAGAATAGTTCCCGCA
TCCAAGAAAAAATTAGTAATCTTAATGGCTGCCTGAGTCCACCTTGCGATTGGGTACAATAAGTA
GGCCGTGTGAATCTACCACGAAATAAGGTAATAAGTAAGTTGACTGAGTGCATCCGGGATGGAAT
CCCAGACTAGGGGCGCGGTAAACTTCTTGAATGAAAGGTAGACGTTGGGCTAGAGTCGGTTCTAT
GCTTTTTGCTATAGGGGGTTGGCAAAAAAGAAGAAATTCCATTCCAACCTTCGTAAAATAGGGTT
ACTAGGTTTTCCATATAGGGAGACAGAGAAAGGTAAGATCGGTGCCCTCTAACTTCCGCTAGGGC
TAAACAAGCTAGTGCATAAAAAAGGGACTTCCTATTGTGGGTGAGAGGAATGGGAGTGAGATTGA
GTCCGAGGGGTGTGATGACGAACTTAAAGAAAATTGTAAGCTTCT
Right flanking sequence: Indices 123356 -- 123855
TCAATATCTTCTTCTGCTAGGACTGCCTTTCGATAGCTTCTTCCAGGGAAGTTGAGGACCGGGAT
TTGAGCTTTAATAAAGTTCTTTCTTTAGACTGTGTTTCAAGCTTAGATCACTTCTTTGAAGCCAT
CTGAGATAGCTTCTATACGAGAACCCTCTAGAGATGCCTTGGTTGAACTCGGCTTCTATCACCTT
GTAGTTTCAGGTTCGCTATCTTGGACTCGCATTCTATAGTAACTTTCCCTTAGTTTAGGAGGGAT
GAAATCCCGTGTATTAGGAGGGAGCTGCTTCGATGCCATGCTTTCGGGACGGTCGTCCCCTTTAC
CACTTATATCTGGTCTTTGATTTGGTTAAGTCAGTGATTGGAAATCAAAGCAAGGTCCGTGAAGC
CAATGAAGTCGCGGGGTCAGCAGGTCAATCCGTTGGTCTAGGGGTAGGTTGGCGAGGAGTTAATC
GATATCTGGAATGAGTTCCCCTTCATTAATGGGTCTTCCTTAACT
Found at i:126316 original size:5 final size:5
Alignment explanation
Indices: 126302--126356 Score: 101
Period size: 5 Copynumber: 11.0 Consensus size: 5
126292 AGGGCTTTTT
*
126302 CTATA GTATA CTATA CTATA CTATA CTATA CTATA CTATA CTATA CTATA
1 CTATA CTATA CTATA CTATA CTATA CTATA CTATA CTATA CTATA CTATA
126352 CTATA
1 CTATA
126357 GGCTGCTTCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.40, C:0.18, G:0.02, T:0.40
Consensus pattern (5 bp):
CTATA
Left flanking sequence: Indices 125802 -- 126301
TTTTATTTAAGGAACTGCTGCTACTCGTTTCACTATATGAGAAGGGGGCGAAGAGCACTCTACTT
TCTAGTCTAGTGTACCTTAGCTACTCCTTGAGACCTTTCACTTGTTGGTGTAGGGTCCGTTCTAT
ATTCTCCTCCCTCTTAGGGCGGGGGACCTCTCTCTTCCTTTCTTGAAAGAGGAACGAACAAGAGA
ACAAAACTGGCCTCCATACTCATCATCTCTTCTTAGGGTCCTTGCTTGCTTCTTAGCGCTCGCTC
CAACTTTCTATTTGCTTAAAACTCTATGAGGCGGTCCCAACATCTCCTCACTGAAAAAGAGAGAA
TACCAGTTCGCAGGGATGAGACCTAGGTACCACCTATTCGATAGGGATTCGTATTTATATGAGCA
GGTGGATAGGGCTAATTCCAACTCAAAGCCCCATCCAATTAAAGATCTGGGCGCAGTGTCGAGAA
AGAATAGACAAGCCGGTGAAGACACCTCTCTTAGAAGGGCTTTTT
Right flanking sequence: Indices 126357 -- 126856
GGCTGCTTCAACTTTTCCACTTTCGAGACCGACTCCCGAAGGAAAAGTAGGTTGCATGCTTTTCG
CCCTTCCTTTTTTCTCTTTTCATCTCGAGCTCCCTTCGTAAAATTACTCGACTACCTGGGCGGCT
GAAACCTTCTGATTTGACCTTGGGTAAGAAGAAAGCATACTAGCCACGGAGTCTTCGCCCCAACA
CTTTAAGAGTCAAGCAACTCCGCTTCAGCTGTCAACGCCATCTTGCTTTGGATCCTGCTGAAATT
GTTCAAGCGGGCGAAGACGGTGGGTTCCCAAAGCACTCCGGTGGAGTGGGGCCTAGCGCTGCTGT
GCAGCCTGCTACTTGGGACATCTTCAACCGCCCTCTCAGGGTCGCGAAGGACCTTGTTGTTTCCA
GCCTCAATTGCCTGCGAGAAATAAGCTAGAGATATAAGGCATTTGTAGAAGCAGCTGCATAGCTT
GAAGTCCCCGAAAGGTAATAAAAAGGAGCCTATAGACATAGACAT
Found at i:137035 original size:13 final size:13
Alignment explanation
Indices: 136988--137025 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
136978 AAGCTTAGGG
*
136988 CTTCTTC-CTTCC
1 CTTCTTCACTTCT
*
137000 CCTCTTCACTTCT
1 CTTCTTCACTTCT
137013 CTTCTTCACTTCT
1 CTTCTTCACTTCT
137026 TTGTTTCACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.05, C:0.45, G:0.00, T:0.50
Consensus pattern (13 bp):
CTTCTTCACTTCT
Left flanking sequence: Indices 136488 -- 136987
CTGAAGGCCTAGACCCCAGACGCGAAAACAACTCGAAGAATCTATTTCAATCTACAATCCTAGAC
GCGACAGCAACCTAAAACGCGACATTCCTTGGGATCAGACATTGGTACCCCGTCTCAATCCCAAA
TCGTCTGGTAGTGGAAAATCGTTTGGTATTATCTCGATGGTACAAAGCGTCTGCTGTCAAATGGG
ATCCATTTCTTACTATTTTATATGTCACTTCGGAGCAAGTGAAGTTACTGCAGAATTGCTTAGAC
TTGCTTGATTGGACTAGCTGGACTTAGCGGATTTACCCCCTCTTGCTTTGTCTGCCCCCCTCTTT
ACCCCCATATCCCCGCTGCGTGGGCGTCCAGGAAGTAAACTCAAAACGAATATAAAACAACTTCT
TAATGCTTTGGCCGCGGAAGAGGAAGAACAAGAGTCTGGTTGCGCTTCGGGACTACTTACCCTAC
AACTGTTAAATAAAACCCTCTTCCCTTAGTATAGTAAGCTTAGGG
Right flanking sequence: Indices 137026 -- 137525
TTGTTTCACTAGATGGAACTCAAAAGCGTAAACTCAACTCGAACCTCTAGAGAGTGGGAATCAAA
CGCTTAGAGCTTGCCTTCTCTCTGTCCTTTTCCTTGCCCTAGGCGGGACAAGCAAATGCTTTCCT
TTCTTTTCGGGAATATAATCAGGCTTCTGCATTTCGGTGTTCTCGTCAATAGAGGAGTTGGCTAT
CGTGGTATGGGGTTCGCGGACGGCGATCACACTTCTTCCTTGGGTATAAGTGGGAGTAAGGTCTG
TAGAATCTTTCCCGCTAGGTCCCTTTCTCGTTCTTGAGCTAGACGACCTGCTATGAGGAATGCCC
TTGATCTCACTCTCATATGAGCTAAGGGGTCAGCATAGATAGCAGCTCTTTTGTCCCTCGCGGGA
TCATTGCTTTGTTGGCAAGCTTAGACTTAGAAAAGAGAGGAGAGTTGGAAAGAGAGCTGATATGA
GGAAGGCACATTTAGGGCTTTCCCTTGAAGAGTGCCGCTCTATCC
Found at i:141447 original size:39 final size:39
Alignment explanation
Indices: 141393--141510 Score: 227
Period size: 39 Copynumber: 3.0 Consensus size: 39
141383 CTATTTTCTA
141393 TTCACTCATGATCTGGCCTGGTCGACCCGATCATGATAT
1 TTCACTCATGATCTGGCCTGGTCGACCCGATCATGATAT
141432 TTCACTCATGATCTGGCCTGGTCGACCCGATCATGATAT
1 TTCACTCATGATCTGGCCTGGTCGACCCGATCATGATAT
*
141471 TTCACTCATGATCTGGCCTGGTCGACCCAATCATGATAT
1 TTCACTCATGATCTGGCCTGGTCGACCCGATCATGATAT
141510 T
1 T
141511 GAAGGATGGG
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.31
Consensus pattern (39 bp):
TTCACTCATGATCTGGCCTGGTCGACCCGATCATGATAT
Left flanking sequence: Indices 140893 -- 141392
CACCTATGTAGAGTAGATCGTTCAACACCTGCGGCACAAACCCATTTTCTTTTTGACCTATTGGT
CCTAGTATCATAGGCGACCGAACGGCCGCCCCCTAATTACTAGACCAACCTGCTATAATAATTCC
ATAAACACCTAGCGAAGATATGGCAAACAAATAAAGTAGCCCTATGTTCGGATCTGACAATACCA
TACCATAATCAAAAGGTACAACGGCCCGAGCGACCAGACTTAACATAAATGTAGCCACTGGAGCC
ATTCTAAAAAGGGAGAAATTAGCACTACTTGGTGAAATAGGTTCTTTTAGAATCAATTTCAAACC
ATCTGCTAGAGGTTGTAACAATCCAAAGGATCCCACTACATCAGGACCCTTTCGACGTTGCACAA
AAGCCATTACTTTACGTTCAGCTAGCACTAAAAAGGCTACTCCGAGTAGAAGTGGTAGAATTATT
CCAAGTATTTCAGTTGGAACAGCAATGTACATTTTCTATTTTCTA
Right flanking sequence: Indices 141511 -- 142010
GAAGGATGGGACCTTTTCTCGATGGGTTTAAAACCACCTTTCTGGCTTGACTAAGCACCCTTGCG
AGCATTTTAATCTTATTATATATATGCTAATACGATTTGAGGACTTCAAGTTGTAGGAAGCAATA
GTGCTTTAAGGAGTAGAAGCTGCTCTGTTAGTGAAAGCGGTTAGTTTTAGTAGGAAAAGTATAGC
GTATAAGGGGGTACCCCTCCTGAAACCTGGAGCTAGAGGGGCTTTTCTCTGTATGCACTAACGAG
TATTCCATGCAGTAATGTTGGTTAGACGAAGACTGATGTATAATCTAAGATAGCGGACGATCATA
CAGACTCTTTTTCGTCTGCACCGTCTTATCAGTGAAAGGAAGCGCGCACTCTCCTTCTTATCTTA
ATAGTAGCCGCCCTTCCTTTGATATCTTCTGATATATTGAGAATGCTGCAGTAGTTTGCTTTCAC
TTCGTCATGGTGTGAGTGGTTCCGGGCTTATGTATCCACGATTTC
Found at i:159389 original size:24 final size:24
Alignment explanation
Indices: 159356--159407 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
159346 AACCGAGTAT
*
159356 AAGACGTTATATAGACAATCCTAC
1 AAGACATTATATAGACAATCCTAC
*
159380 AAGACATTATATATACAATCCTAC
1 AAGACATTATATAGACAATCCTAC
159404 AAGA
1 AAGA
159408 AAAAATCACC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.19, G:0.10, T:0.25
Consensus pattern (24 bp):
AAGACATTATATAGACAATCCTAC
Left flanking sequence: Indices 158856 -- 159355
GCAAATCTTTGGTTTCATCAACAACAAGTTTTGAGAGTTCAAGTAAAGACAGGTTATATAAAATA
GTCTTCTTCACGGCGATTGGTTGTTTTGTTGTCCAAGTCGAGTAGAGTAAGTTGCAGCTTTCATG
GTGGCGAGTCACTATTACTTGTGGCTTGAGCCGGGAGGGGCTTTCCTGGTGATGCGTATGCGCCT
TTTTCAAAACTCGATCGACGGGAAGGGCTAAAAGAAAACCCTGCATGGAATTGGTCGAAGGGTAG
TACACGAATCAATCCACCATGCATAAGTAGAAAAAGAAAGCAACAGCACCAGGGCATAGTGAAAC
CATTCCTTCACTCCTTAAAAACCGAAGCTTTGAACCTATCACATGACGGCGAAATCACTCACGTG
CAGTTCGTTCTCAGTAGCCTACGTCCTTTCTGAACCTATCCTAAAGCCTGGCACCTATACTTGCT
CCAGTAATGAGGGAAAGAAAGAGGTTAAAGTCTTGAACCGAGTAT
Right flanking sequence: Indices 159408 -- 159907
AAAAATCACCTAAGGAGGGCTACCTTCCATCTCGTTCACCAGGTATAGAAAAAGACTACATTTTA
GCATTAAATAATCTCTCAAGGAGAAGCCAAGGAGAAAGATTGATGTTGCCTATCCCCTACGGGAT
TCGAACCCGTGTCTTCGACATGAAAAGCCGATGTCCTAACCACTAGACGAAAGGGACCAATTCTT
CATATATCTCAGCTTCGAGAATGGATTCTTTCTATACGCAATTCAAGTTGTGTTCATGTTGGCGA
TTGATGATGTGAATTCGGCGGGGGTTTGACCAACAGACCAACAGTAAGTACTGCACACTTCTCCC
TCATATGCTTCTCCAACTTCACCCCCTCGGGGCTGGGAACATGCTTTCAATGTATACTATATAAT
TGATTTGAACCCGGGACTTTCAATGTATACTATATAATTGATTTGAACCCGGGACTTTCAATGTA
TAGTATATAATTGATTTTCATTCTCAAGTAGGAAAATCTTCAGGT
Found at i:159827 original size:38 final size:38
Alignment explanation
Indices: 159776--159879 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
159766 TGGGAACATG
159776 CTTTCAATGTATACTATATAATTGATTTGAACCCGGGA
1 CTTTCAATGTATACTATATAATTGATTTGAACCCGGGA
159814 CTTTCAATGTATACTATATAATTGATTTGAACCCGGGA
1 CTTTCAATGTATACTATATAATTGATTTGAACCCGGGA
*
159852 CTTTCAATGTATAGTATATAATTGATTT
1 CTTTCAATGTATACTATATAATTGATTT
159880 TCATTCTCAA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.40
Consensus pattern (38 bp):
CTTTCAATGTATACTATATAATTGATTTGAACCCGGGA
Left flanking sequence: Indices 159276 -- 159775
TGAACCTATCCTAAAGCCTGGCACCTATACTTGCTCCAGTAATGAGGGAAAGAAAGAGGTTAAAG
TCTTGAACCGAGTATAAGACGTTATATAGACAATCCTACAAGACATTATATATACAATCCTACAA
GAAAAAATCACCTAAGGAGGGCTACCTTCCATCTCGTTCACCAGGTATAGAAAAAGACTACATTT
TAGCATTAAATAATCTCTCAAGGAGAAGCCAAGGAGAAAGATTGATGTTGCCTATCCCCTACGGG
ATTCGAACCCGTGTCTTCGACATGAAAAGCCGATGTCCTAACCACTAGACGAAAGGGACCAATTC
TTCATATATCTCAGCTTCGAGAATGGATTCTTTCTATACGCAATTCAAGTTGTGTTCATGTTGGC
GATTGATGATGTGAATTCGGCGGGGGTTTGACCAACAGACCAACAGTAAGTACTGCACACTTCTC
CCTCATATGCTTCTCCAACTTCACCCCCTCGGGGCTGGGAACATG
Right flanking sequence: Indices 159880 -- 160379
TCATTCTCAAGTAGGAAAATCTTCAGGTGCCCTAAAAATGTTATGAGGTGTTCGGAAATGGTTGA
AGTAGTTGAATAGGAGGATTACTATGACTATAGCCCTTGGTAAATTTACCAAAGACGAAAAGGAT
TTATTTGATCTTATGGATGACTGGTTACGGAGGGACCGTTTTGTTTTTGTAGGCTGGTCCGGTTT
ATTGCTCTTTCCTTGTGCCTATTTCGCTTTAGGGGGTTGGTTCACAGGTACAACCTTTGTAACTT
CATGGTATACTCATGGATTGGCCAGTTCCTATTTGGAGGGCTGCAATTTCTTAACGGCTGCAGTT
TCTACACCTGCTAATAGTTTAGCACATTCTTTGTTGTTACTCTGGGGTCCTGAAGCACAAGGAGA
TTTTACTCGTTGGTGTCAATTGGGTGGTCTGTGGACTTTTGTTGCTCTCCACGGCGCTTTCGGAC
TAATAGGTTTCATGTTACGTCAATTCGAACTTGCTCGATCTGTTC
Found at i:163284 original size:12 final size:11
Alignment explanation
Indices: 163267--163297 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
163257 TAATCCAGAC
163267 ATATATATCAT
1 ATATATATCAT
163278 AATATATATCAT
1 -ATATATATCAT
163290 ATATATAT
1 ATATATAT
163298 GGACATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (11 bp):
ATATATATCAT
Left flanking sequence: Indices 162767 -- 163266
ATGTATTCATGATAAAATCCCCCATGATGGAGTTTATTCCAACGATAGAGGGATTAAATGGTATA
GTTCATTTGTTGGTAGTTTGGAGGATTAAAAGCATGACTATTGCTTTCCAATTGGCTGTTTTTGC
ATTAATTGCTACTTCATCAATCTTATTGATTAGCGTACCCGTTGTATTTGCTTCCCCTGGCGGTT
GGTCGAGTAACAAAAATGTTGTATTTTCCGGTACATCTTTATGGATTGGATTAGTTTTTCTGGTG
GGTATACTTAATTCTCTCATCTCTTGAACCTATTCATCTCAGCTCCAAAAATAAATGACCCCCCC
CCCCCGAATTCTTTTTGGTTGTGAGACACATTAAAATTTAATATTAATCTAAGTCCCTAAAATAT
AAATAAAGAAAAAAAATGATAGGGGGGTCAAACTAAAAAAAAAATGAATAAAATACTTGCAATGC
CCCTCTGAAGAAATTGGCCCGGCACTACACAAATATAATCCAGAC
Right flanking sequence: Indices 163298 -- 163797
GGACATATTATGTATCAAGAACTAAAAAAAATGCGGATATAGTCGAATGGTAAAATTTCTCTTTG
CCAAGGAGAAGACGCGGGTTCGATTCCCGCTATCCGCCATATAGTGAAGTCATTCCTTTAATCAT
ATTAAATGGTATAGTTGACTGTGATAGACTCCCATCCCAAAACAAAAGGTAATTAATTACTAGTT
AACAGAGTCAAACCTAATAAAAAAAAGATGTTGCGGAGACAGGATTTGAACCCGTGGCCTCAAGG
TTATGAGCCTTGCGAGCTACCAAACTGCTCTACCCCGCGCTAAAGAGAAGAACTGAAAACTAATA
AAAAACAAGAATTGAATGCGACCCTCTACCATATCTGTACAAATAGAATAGCCCATTTATACAGA
ATGGTAAAGGGGCTCTCTATGATCGATGATCATAGAAATGAAGGGAGATTTTTATCTTACCAACT
TGATCTTGTTGCCCCTGGCAACAAACATGCATGAACCATTTCACG
Found at i:185833 original size:17 final size:17
Alignment explanation
Indices: 185799--185846 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 17
185789 GGGATCACTA
*
185799 ACTAATACTAATCGAAT
1 ACTAATACTAATAGAAT
185816 ACTAAT-CTAATAGAA-
1 ACTAATACTAATAGAAT
*
185831 A-T-ATAGTAATAGAAT
1 ACTAATACTAATAGAAT
185846 A
1 A
185847 GAAAAGAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 2 0.07
14 9 0.33
15 2 0.07
16 8 0.30
17 6 0.22
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.29
Consensus pattern (17 bp):
ACTAATACTAATAGAAT
Left flanking sequence: Indices 185299 -- 185798
ACCCCCTCTTCTTGCGCCAAAGATCTTACCATTTCCGAAGGAACTGGAGTTCTATCTCTTTTCCA
TTCAAGAGTTCTTATGTGTTTTCACGCCCCTTTGAAACCCCGAAAAATGGACAAATTCCTTTTAT
TAGCAACACATACAAGATGCGTCACTACAAAAAGGATAATGGTAACCCCACCTACTTCATTCATG
AATTTCATAGTAATAGAAATACATGTCCTACCGAGACAGAATTTGTAACTTGCTATCCTCTTGCC
GAACAGGCAAAGATTTACCTCCGTGGAAAGGATGATTGATTCAGATCGACATGAAAGTCCAACTA
CATTGCATTGCCAGAATCCATGTTGCATATTTGAAAGAGGTTGACCTCCTTGCTTCTCTCATGGT
ACAATCCTCTTCCCGCCGAGCCCCCTTTCTCCTCAGTCCACAGAGACAAAATTAGGACTGATGCC
AACGGTTCTTCATGGAAGAAAGGGCTCACTAAGCCGGGATCACTA
Right flanking sequence: Indices 185847 -- 186346
GAAAAGAACTGTCTTTTCTGTATACTTTCCCCGGTTTCGTTGCTACCGCCCGCCGCAATCAATCG
GATTATATAGATATCCCTTCAATAAACATAGGTCATCGAAAGGATCTCGGAGACCCACCAAAGCA
CGAAAGCCAGAATCTTTCAGAAAATGGATTCCTATTCGAAGAGTGCATAACCGCATGGATAAGCT
CACACTAACCCGTCAATTTGGGATCCAATTCGATATTTTCCTTGGGAGGTATCGGGAAGGAATTG
GAATGTAATAATATCGATTCATACAGAAGAAAAGGTTCTCTATTGAGTCAAACACTGTCTCTATG
GGATAGGGAAGAAGAAAAAATGGAAGATTTCATATAATACTTTTGATCGAAAAAGCAATCTGATT
TATTTCGTACCCCTCGCTCAATGAGAAAATGAGTCAAAATCTACAGGATCAAACCTATGGGACTT
AAGGAATGATATAAAAAAGAGAGGGAAAAATATTAAATAAAAAAA
Found at i:186358 original size:16 final size:18
Alignment explanation
Indices: 186327--186364 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
186317 AAAGAGAGGG
186327 AAAAATATTAAATAAA-A
1 AAAAATATTAAATAAATA
*
186344 AAAAATA-TAAGTAAATA
1 AAAAATATTAAATAAATA
186361 AAAA
1 AAAA
186365 GGAAGTAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (18 bp):
AAAAATATTAAATAAATA
Left flanking sequence: Indices 185827 -- 186326
AGAAATATAGTAATAGAATAGAAAAGAACTGTCTTTTCTGTATACTTTCCCCGGTTTCGTTGCTA
CCGCCCGCCGCAATCAATCGGATTATATAGATATCCCTTCAATAAACATAGGTCATCGAAAGGAT
CTCGGAGACCCACCAAAGCACGAAAGCCAGAATCTTTCAGAAAATGGATTCCTATTCGAAGAGTG
CATAACCGCATGGATAAGCTCACACTAACCCGTCAATTTGGGATCCAATTCGATATTTTCCTTGG
GAGGTATCGGGAAGGAATTGGAATGTAATAATATCGATTCATACAGAAGAAAAGGTTCTCTATTG
AGTCAAACACTGTCTCTATGGGATAGGGAAGAAGAAAAAATGGAAGATTTCATATAATACTTTTG
ATCGAAAAAGCAATCTGATTTATTTCGTACCCCTCGCTCAATGAGAAAATGAGTCAAAATCTACA
GGATCAAACCTATGGGACTTAAGGAATGATATAAAAAAGAGAGGG
Right flanking sequence: Indices 186365 -- 186864
GGAAGTAGAAGAGCCCAGATTCCAAATGAACAAATTCAAACTTGAAAAGGATCTTTCTGATTCTC
GAAGAATGGGGGGCAAAGGGATTGATCGAGAAAGATCTCTTGTTCTTATTAGAAGATCGTGATTG
GATCCGCATATGTTTGGTTCCGCATATGTTTGGTAAAGAGAATAATCTTCTCCATTTGAGAATAA
TCAAAAAGAAAAATGGAAAGTGTTCAATTGAAACATGAAAACGTCACTAAATTGGTCCTAGTTAC
TCTTCGGGACGGAGTGGAAGAAAGGAGGAGATTCTCGAACGAGCAAAAGGATCCAATGACTTCGA
AAGAATTGAACGAGGAGCCGTATGAGGTGAAAATCTCATGTATGGTTCTGTAGAGTGGCAGTAAG
GGTGACTTATCTGTCAACTTTTCCACTATCACCCCCAAAAAACCAAACTCTGCCTTACGTAAAGT
TGCCAGAGTACGATTAACCTCTGGATTTGAAATCACTGCTTATAT
Found at i:186516 original size:16 final size:16
Alignment explanation
Indices: 186492--186528 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
186482 AAGATCGTGA
*
186492 TTGGATCCGCATATGT
1 TTGGTTCCGCATATGT
186508 TTGGTTCCGCATATGT
1 TTGGTTCCGCATATGT
186524 TTGGT
1 TTGGT
186529 AAAGAGAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.14, C:0.16, G:0.27, T:0.43
Consensus pattern (16 bp):
TTGGTTCCGCATATGT
Left flanking sequence: Indices 185992 -- 186491
TTCAGAAAATGGATTCCTATTCGAAGAGTGCATAACCGCATGGATAAGCTCACACTAACCCGTCA
ATTTGGGATCCAATTCGATATTTTCCTTGGGAGGTATCGGGAAGGAATTGGAATGTAATAATATC
GATTCATACAGAAGAAAAGGTTCTCTATTGAGTCAAACACTGTCTCTATGGGATAGGGAAGAAGA
AAAAATGGAAGATTTCATATAATACTTTTGATCGAAAAAGCAATCTGATTTATTTCGTACCCCTC
GCTCAATGAGAAAATGAGTCAAAATCTACAGGATCAAACCTATGGGACTTAAGGAATGATATAAA
AAAGAGAGGGAAAAATATTAAATAAAAAAAAATATAAGTAAATAAAAAGGAAGTAGAAGAGCCCA
GATTCCAAATGAACAAATTCAAACTTGAAAAGGATCTTTCTGATTCTCGAAGAATGGGGGGCAAA
GGGATTGATCGAGAAAGATCTCTTGTTCTTATTAGAAGATCGTGA
Right flanking sequence: Indices 186529 -- 187028
AAAGAGAATAATCTTCTCCATTTGAGAATAATCAAAAAGAAAAATGGAAAGTGTTCAATTGAAAC
ATGAAAACGTCACTAAATTGGTCCTAGTTACTCTTCGGGACGGAGTGGAAGAAAGGAGGAGATTC
TCGAACGAGCAAAAGGATCCAATGACTTCGAAAGAATTGAACGAGGAGCCGTATGAGGTGAAAAT
CTCATGTATGGTTCTGTAGAGTGGCAGTAAGGGTGACTTATCTGTCAACTTTTCCACTATCACCC
CCAAAAAACCAAACTCTGCCTTACGTAAAGTTGCCAGAGTACGATTAACCTCTGGATTTGAAATC
ACTGCTTATATACCTGGTATTGGCCATAATTCACAAGAACATTCTGTAGTCTTAGTAAGAGGGGG
AAGGGTTAAGGATTTACCCGGTGTGAGATATCACATTGTTCGAGGAACCCTAGATGCTGTCGGAG
TAAAGGATCGTCAACAAGGGCGTTCTAGTGCGTTGTAGATTCTTA
Found at i:188353 original size:17 final size:17
Alignment explanation
Indices: 188331--188364 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
188321 CCTATTCATG
*
188331 GAGATTCCGTAAATATT
1 GAGATTCCATAAATATT
188348 GAGATTCCATAAATATT
1 GAGATTCCATAAATATT
188365 CCATTTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (17 bp):
GAGATTCCATAAATATT
Left flanking sequence: Indices 187831 -- 188330
CCCGATATAGCAGTAAAAGCAAGGCGTGTAGGTGGATCGACTCATCAAGTTCCCATTGAAATAGG
ATCCACACAAGGAAAAGCACTTGCCATTCGTTGGTTATTATCGGCATCCCGAAAACGTCCGGGTC
GAAATATGGCTTTCAAATTAAGTTCCGAATTAGTGGATGCTGCAAAAGGGAGTGGCGAGGCCATA
CGCAAAAAGGAAGAGACTCATAGAATGGCAGAGGCAAATAGAGCTTTTGCACATTTTCGTTAATC
CATAAACAGGATCTATATATAGACACATAGATCCATGGATCCATACATCTCGATCAGAAAAGAAT
CAAGAGAATAAAGAAAGAATCGAAATTGATCGATATATTTCTCGAAACAAACGAAAAGGAAACGA
AAGATGAAAGAGAAATCATGGATCAACTAAGCCCTCTCGAGGACTTGCTTAAGAATAAGAAAGAG
GAACCTCATGTAAATACCATGGAATAAGGTTTGATCCTATTCATG
Right flanking sequence: Indices 188365 -- 188864
CCATTTCAAAAATAGAAAGTTCGAAACAATGGGGATTTTTTTGGAAATTGGATGCAGTTACTAAT
TCATGATCTGGCATGTACAGAATGAAAACTTCATTCTCGATTCTACGAGAATTTTTATGATCATT
TGCTTCTCTTCGATGGAAGTTTTATGAGTGTATCCTAATTTTTTGCCTAATTCTTCTTCTGATGG
TCGATTCAACCTCTGATCAAAAAGTTGGTTATATTTCATCTCCTCAACAAGTTTAGTAATGAGCA
TAACGGCCCTATTGTTCCGATGGAGAGAAGAACCTATGATTAGCTTTTCGGGAAATTTCCAAACT
CAACGAAATCTTTCAATTTCTTATTTTACTATGTTCAACTCTATGTATTCCTCTATCCGTAGAGT
ACGTTGAATGTACAGAAATGGCTATAACAGAGTTTCTCTTATTCGTCTTAACAGCTACTCTAGGA
GGAATGTTTTTATGCGGTGCTAACGATTTAATAACTATCTTTGTA
Found at i:193729 original size:18 final size:18
Alignment explanation
Indices: 193708--193764 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
193698 GTCACGATCG
**
193708 ATATCGTCGTTAGCATCA
1 ATATCGTCACTAGCATCA
193726 ATATCGTCACTAGCATCA
1 ATATCGTCACTAGCATCA
* * *
193744 ATTTTGTCACTATCATCA
1 ATATCGTCACTAGCATCA
193762 ATA
1 ATA
193765 AAAAAACCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.35
Consensus pattern (18 bp):
ATATCGTCACTAGCATCA
Left flanking sequence: Indices 193208 -- 193707
TCTGTGTAATACTAATCGATAGGGCCTCATTGGTAAGTGCTACAAGATCTCGTGCATTGGAACCC
ATGGTTATGGACCCAAATCCATTAGTATGGGACTTTTTCTTTTCCAAGTGAAATCCCCTAGTATA
TGAAAGAGTGAAAAAGTGCTTTCGTTGTTGTGGAATAAGAAGCCTTCGTATCTTAATGCACGTAT
TTAATTTATTCGGGGCTAGTAGAACGGGATCCGCTTTTTGGGGAATATGAGTCGAAGCAATAACA
AGAATATTTCTAGTGGAACATCTTTCACAATCCCTGGAGAGACGGTTCACTAATAAACATAAGTA
ATTCGACTCATTCACATCCAGATCATGAATGTTTGGAATCCATATTATGCAAGGAGACATTGCTT
TTGCTAATTCGAATTGAAGGGTGATATAAAATCGGTCTATTTCCGACATCATATCCATAGCAGCA
TTCATCAGAGTTAGCCGCTCCAGCTCCGTATCAAGGTCACGATCG
Right flanking sequence: Indices 193765 -- 194264
AAAAAACCTTTAGTCTTGTTATCCGTTCAGAAATATCGTAATCAAAGGAACATAGGAGTTTGTCG
CTAGGTATTTGACCAAATAGGACCGTCCAGTTCCTAGAGAACCTATCACTAAAATACCCCTAGAG
GGGGATAAGGCTAAGCGGAGCGAAAAGGGTTTTTCATGAGATGGGAAATGAAAACTATTATCCCC
ACACGAGGTTTGTGAATAAGTGATTGTCTGATAATGAGCAAGGGATATCCGTCTTTCTGCTAAAC
AGGATGTATTGAACTCATAATTCATTAGATACTTTTTATGAATGTCAACTAAGTATCGTAAGTAA
ATTGCTCCCGGTTGTTCAATCATTTCAAAACCAGAGCCATTCTTTGATAAATGATCACTATGAGT
CAGACTCAATAGAATTTGATCAATCCTTTTTTCTGTCGTTAAGGTGGAGAACTGAACCAAGAATT
CTCTTTCTTCATCATCAATCGAATCACTGTTCGCGACCCAGGATT
Found at i:196172 original size:24 final size:22
Alignment explanation
Indices: 196085--196174 Score: 76
Period size: 21 Copynumber: 4.1 Consensus size: 22
196075 ACTCACAAAG
* *
196085 AAAAAAGGAAGTGAGTTAGACA
1 AAAAAAAGAAGTGACTTAGACA
* ** *
196107 AAAAGAA-AAGCAACTTGGAC-
1 AAAAAAAGAAGTGACTTAGACA
*
196127 AAAAAAAGAAGTGACTTGGACA
1 AAAAAAAGAAGTGACTTAGACA
*
196149 AAAAGAAACGAAGTGGCTTAGACA
1 AAAA-AAA-GAAGTGACTTAGACA
196173 AA
1 AA
196175 TCTTTTTTGT
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
20 6 0.11
21 20 0.38
22 9 0.17
23 3 0.06
24 15 0.28
ACGTcount: A:0.54, C:0.10, G:0.23, T:0.12
Consensus pattern (22 bp):
AAAAAAAGAAGTGACTTAGACA
Left flanking sequence: Indices 195585 -- 196084
GTCCATACGTAAAATCAGAATTATTGATACGGGCATTTTCCACATAAAAAGGGAATCTTCTGTTA
CAATAGAAGGAGAAGCGATGTGGATTATTCAAGAATCGAACTCGATTTGCTTTATAAAAAGAAGA
TATCAATGAACTTCTATGAAACAGTTTCACGGGATTCAGCCAATTGTTTTGATCGTGGAATATCA
TTGAGAAATAGGAATCCGTGTTATCAAAGGATTTCCTGCGATTCTTTCGAGTATGGAATGAGTCA
ATCATCCACTTTGGTATCTTATTGAACAAAAATGGTGATATTCTTCCTCCGTTGATCAAGAATTT
CGATTTTTGGGAAGTATCATGATCATCCAATAAGAAAGCTTTCCATTTTTTCAAATGAACGATTT
GAAGACCTATTGATTCTAACAACTGATTGCAGAGTTGATCATTCGGACCTTTCAATTCATAGATA
TAGATCTCGGACCTATGAATGGGGATATTCCCGAAACTCACAAAG
Right flanking sequence: Indices 196175 -- 196674
TCTTTTTTGTCGATAACCTCAGACCAATCAATCGAATATTGATTAATACTTAATCGATCGAACAC
TACTTGAAAATGGCTCTTCTGCTCAGAAACGAAATGTTCCAAATGTTCCTGGAAATTCTTGCTCC
CATTGGACCATTTGTATCTATATGCATCAGGATCCCGATTCATGGATCTCTCGGTTCGAGAAATA
AAAATAAGAGGATCAAACCATTTCTTCTGACTCTTTTTCAAATTCGATAAATGTGGGTTGATCGT
ATATTTCATTAGAGTTCTATGATTCATAGTATCCTTTCCTATTTGATCCCCTTGAATTCGGGAAT
ATCTATCTTTCTTTCTTGTGTCATATTTCTAGTTTCGATCGGTTAATAAGAAATTACCCCTACTT
CTCTCGAAAGAGTAGATCACATCCACTTTCCTATGAAAGAAGCCGCCCTACTCACCAACCTTTTC
ACAAACATTTCCAGAAAGAATGCTTTGGATGGCAGCTTCGCTCCA
Found at i:235521 original size:17 final size:17
Alignment explanation
Indices: 235499--235534 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
235489 TCGTATGCCT
235499 ATTATACAGTATTACTA
1 ATTATACAGTATTACTA
*
235516 ATTATACAGTCTTACTA
1 ATTATACAGTATTACTA
235533 AT
1 AT
235535 AGTTCATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.42
Consensus pattern (17 bp):
ATTATACAGTATTACTA
Left flanking sequence: Indices 234999 -- 235498
AAATAAGGCAAACACAAAGGCTAACAACTCAAGCAATCTGCCTTTCTCTGTGTTGAAGAAGCACG
GGAAGCAGAGGCACCAATGGTAGCATCAGTGGTTCAAGTGCAGTGGGTAACAATAATTCCAAATG
AAGGGTTGGAGGCTCCGCTTTCTCTTTCGTTTGAGACTGGGCAGCCCCCTTCCCTTATTCGTACT
CCGTACAAGCAGCAGGACTGGACTAAAAAGGTATTAAAGGCGAAGTATGCTGCTTAGTTTCGTAG
CTCCGTTTGCCAGGCTAGGCTCATCAACTGAGATTCCCAATTGCCGGTATCATTGAAAACTTGTG
ATTCCGGTCAAGACTGACTAAGGCGATAGAGAGAATTCCTATTGAGTTACCTTTCTTGGGATAAC
ACCCATTGATCTAACAGCATGGGATATTCTCACAAGAGCTGATTCAATCGGGTTAACAGCATCGG
GTATTCTCACTGCTAGCAATCCAGTTAGTTAGGTTTCGTATGCCT
Right flanking sequence: Indices 235535 -- 236034
AGTTCATAGTATCTAATCTGATTTGAGAACGGAATTAAAATAAAGCGAAAAGCTGAACGAAAGAA
ATAGGTCAAACTGCATGCAATCGACAGCCAAAAGAGAGAAGCCAGTCGCGGCACACTGACTATAT
CCTACCCCGGTGACCAGAGTAATTTCCCTCGCCTTGATGTTGAATAGAACTAAGCTCCTCCTAGA
TAGATTCATTTTGTTGACCTTGATTCCAGACACCATGAATGCGCCGCTTTCTCGATCCAATCTCG
CACTTGGTCTGATCGCACCCTAGATCAAGTTGTAACCGAAGTAGACCAAGAAGGGAGTGGAATGA
TGATTACCGTCTCTTGGATCTCATGGTTTGGAGCAAGCTCCGCTTTCCTTTCACTTGGCACGGGA
ATAATAGAAAAGCACTCTTTGGTGGATGGCCCCCTATCTCTTAAAGCTTCTATGCGACCTATTTA
GCTATTTATTGGTGCCTTTGCTTCCTTCCCTTCCCGCGGCTTCTT
Found at i:238278 original size:5 final size:5
Alignment explanation
Indices: 238268--238298 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
238258 TTAATAACCC
238268 TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT T
1 TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT T
238299 AAAGGCTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TTTGT
Left flanking sequence: Indices 237768 -- 238267
AGGATGCCTGACCAGGGTTTAGATCTTTGGTCAATCCATCATTGGCTAAGCCATTTCTTTCGGAC
TTGGCCGATGAACAATTCACCTCGATTCTTCCTTTTTGCTAAGAATCAAGGACTGAATCGTCAAT
GGATAAAGAGGATTATATTGATTCGAGCCTCTCCTTTATATAAAGCTATTCCAGTCAGAGACTGT
CTCCCAAGAGCCCAAAGTCTTCGACTAATTGGAGCAAGAGCAGCGAGAGCAGCAAGAAGGGGTTA
TGTACACGCCGAAGTCACTTAACTTTTTGTACTAATTTCGTCCTTTGGAGGTAGCATATATGTAG
CAGCCTCTTCCAATCCACGAGTGGAGTCCGGATCCAAGCTAAGGCTGTCTGGGGAGGGCCAACCT
TAGTGAGCAGCTTATCTAACCTATTAAGTTAAGATAAAAGCAGAGGTCTTGCTCATGGATCCAGT
GGAGAAGCTCTCGGAAAGACATCAATCCGTGGATATTAATAACCC
Right flanking sequence: Indices 238299 -- 238798
AAAGGCTTCCACCGGCTTCCCATTTCTAGATCATTCATATTGAGTGACGTAGCCCATTTCGTTAA
CAAATAGGGGTGGCATCAGAAAGATCACCCGATCGAGGACTTTTCTTTGCGCCACTCGATTGAAA
AGGAAAGGCGAGTTTCCATCCATAAGCATTCGCAGGTACCTCGAGGGACAAAGCACGGAATGAAA
GATTCTTCATCTGCGGCAATGTTAATTGGCCGATGGATTCCGAGTGACTAACTTACTTGACAGAA
GACTGATCAGCTTACTTTGAAAATGGCTTGAGAGAGACGGATAGAACCTCTTCTCTTCCTGTGCC
TGAGTGATGGCTTTCCAGAGGAGATTGCTTTCAAGACCAGAGGCGCAGATGATAGTTTCAAGGAC
ATGGGCAGAGGATCCCGATTCAAAAAAGAAAATCACCTGACGGAGGCACCCACCTAGCCTATGAC
AAAAGGAGACCTTTCCGAGGGTTAGGATCAAGGGTTAGTCGAGCT
Found at i:258003 original size:6 final size:6
Alignment explanation
Indices: 257992--258022 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
257982 AAGACGACCG
257992 AGAAAT AGAAAT AGAAAT AGAAAT AGAAAT A
1 AGAAAT AGAAAT AGAAAT AGAAAT AGAAAT A
258023 AAGGCTCCGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AGAAAT
Left flanking sequence: Indices 257492 -- 257991
CACTCAAGAGCCTCTTCAGGAGCGGAGGCTTTCAGTATCCATCTCTGCGGATATCTCCACTTCAT
TTTCCATTAGACTATCTAAAGCTCGAGAATGCAGCTCTCGCATCTCAGCACTCTCAAAGGACGAA
CGCAGCTACTTTTGCCCCCTCAAACATTCTTTTTGAAATTGATCTAATATTGTTGAATGCATTTC
TCTTACCAGTGCCTTTCGTTGTTCTAGATCGACGAGGGGAGTAAACCATCCGAACGAGAGTTCAG
ACCAATCCCATTCATCCTGGTCTGATCCGAAGGTATCTTGTTGAATGAATTGATCCATTGTTGTA
TGCCTTACTTCTTAGTTTCTTTTTTCCTACTTGAATCCGCCGTACTTCCTTTGATTACTCCTGAG
ATATAGTGGAAAGATTTTGTTATGGTGGAGAGTGGGGAGTGAAAACACCAATGCAGCAGAGAACG
ACCGCATGAATCGGAATCCACTTAACTTATTAAGAAAGACGACCG
Right flanking sequence: Indices 258023 -- 258522
AAGGCTCCGCGTTCTCCAAGTGGTTGATCTTAGCTTAGCGTGCTAGCCGCTGCTTCATTTCGTAT
AGTGATAACGCTTTCTCTTTCTTAGGGCTCCGCCCCCCTTGTATAGGTTGGGGAACTTTGGTTAC
GCGGCTTTCTATTATAGAGGTCTTTTTTCTCTGACTTGACTCAGCTTGACCTACTTGACTCAGCG
GTTAGAGTATCGCTTTCATACGGCGAGAGTCATTGGTTCAAATCCAATAGTAGGTAAAACCGGCC
GAAACCCCTGCTTTTGCCAGCATGACAGCAAGCACGGACTGGCAGCAAGGAGTCAACTGAATGAC
CAAAGCATCGGTTGCTTCCACTTGTGGTCTTCTTCGATCGCCTTGACACATCTTTCCAGGAACCC
CCCCTCTATTCTTCTTTTCATCTATGTGGGCTGCCTGCCCCGTCCCGAATAGACGAACAGGAACA
AGCTGAAGAAAGGCGCGAGAGAGAGAGAGTTGAGTATCAACCCAC
Found at i:273354 original size:10 final size:10
Alignment explanation
Indices: 273339--273366 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
273329 AATTCCTTCT
273339 CTTTGAAGCC
1 CTTTGAAGCC
273349 CTTTGAAGCC
1 CTTTGAAGCC
273359 CTTTGAAG
1 CTTTGAAG
273367 TGAAGATAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (10 bp):
CTTTGAAGCC
Left flanking sequence: Indices 272839 -- 273338
ATACCCGCTACTAAGGATTGAAAGTAGCACAATCGGCTATAGAACTCCAGATCTACGAATAGCCG
CGGGCAAGCCGCCCCTTTAACAAGCAAGTAGCTAGCTTCCACCTTACTTAATAGCAAGGCGCGAA
AGCCTTCGCCTATAGCTTCTACTTCTACTTAGCAGCCCAAATAAAGTACCCCTGCTTCCTTTAAG
ATAAGAGGCTAGTACTAAAGCTACTAAAGCGAGTATACAGGCATTTGCCCGATTGCTTTAAGAAA
CGCTTTACCTCCTACTTTCACCTGCCCTTGTCATCCATTTCTCCCCCCGCATCCGGTTCTACCTG
TCATATGATTGCTGGCCCCGTATCAGGCAGGAGCGCTCTACTAGGTTTCACTCCGTTCCTCTCAT
TCCCACCGGTTCCGACAAGATCGAGAAGGTGAGCTCTTCGCCCAACCCAATACTTATCTTCCCCT
TTTCTCTGGGACAATGAAGGGTGGTGGTTTATGTAAATTCCTTCT
Right flanking sequence: Indices 273367 -- 273866
TGAAGATAGGATTTCATGGTTCGGGATAAGTTCAGTCGATAAACCGATCGACCCGCCTGTTAATA
CATATATAATATGGATTGGGATTCCTCTCTTCAATTCCGTTCAAAGGCGGTAGGGTGAATTGACG
AAGAGAGGGTGGAACTTGGACATTTACTTCATTGTCAGCTCAACACCCGGCACACAAAGATTTCT
CTGCCTCCCTTAGCTGCCTAGCTAGCTTCTTTCAATCGCGTAGCTACCAGTCCTAGCAAAGACAA
GACAGTGGGTCCAACCATGCCCATCTCTTTCTCTTCTGCTTTCGGTATTAAGGGAATTCTTTACC
AGCTTGCTTGAGTGAATGAAGAGTATTGATTTCTTTCTGTCTTCGCTCTTGCCTATGCCTTAGCA
ACCGGTGCTCCAGGTCTTTATGGGTAAACCAAAGAAAATATAACGGCTTAAAGACTAGGCCTGCG
CTTACCTTTAATGGCTTTTGGATGGCTCTTGCCTCTTGCCCTACC
Found at i:299578 original size:16 final size:16
Alignment explanation
Indices: 299554--299585 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
299544 GACGGGGCAG
299554 ACTAACCACTTTAGCA
1 ACTAACCACTTTAGCA
*
299570 ACTAGCCACTTTAGCA
1 ACTAACCACTTTAGCA
299586 GTTCGAAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.31, G:0.09, T:0.25
Consensus pattern (16 bp):
ACTAACCACTTTAGCA
Left flanking sequence: Indices 299054 -- 299553
CAAGGTCTTTGGGGCTATCTCCCATCTACTCATCATGGGGCGGAATCTCCACTCCCCCGAAGGAA
ATGTGGGTTCGTTCCTGAACCAAGGAGGCATTCGTCAGCGTAGGAAGGCCGACCACGCTCTGTTT
GTCAAGAAAAGGGAAGGAACAAAGGTCGTTTCATCGATTCTTCAACATTATCAATAAATAGATCG
ACCCATAGGATAAAGGGGATGGAAGAGACAGAGGAATTTCATCTTGGATTCAACTCATTTCTGGC
AATGAATGGCTGCCCGCTGGCGAATGATTGATCGTGTTGCCATAAGCATCGAAATCAATGGGATA
GTAAAATGGAGGAGTAGGACAGCCAAACGAGATGTGGCTGCTTCCGCGCAAGAGAAAGAGAGGCC
CCGAGTCTGTTCCGATTCAAACCGGCCGAGTGGATCGTCGAACCGACAACTCAGCTTCTCAGGCC
AAGACTGTATCCTGGTCGGACAGTGCTTTCACACTGACGGGGCAG
Right flanking sequence: Indices 299586 -- 300085
GTTCGAAGGACCAATTCACTTCTAAAAGAGCCTATTCGGGGCATTCATGTCCACCCTCTTATTCC
TAAGGAAAACTTCGCCCAATCCCTGTCTATCTTGGCTACCATGTCATGAGGGCATTCGATGCATC
AACAATTGGCATTGCCTCATATTCAATCAAGGAGTATGCGCGGGAGTAGACATATAGAAATCGAC
ATTGAAAGTCAACGTCGTCAGGTAGTATTCAAAATCTGAACTTCTAATGCGAGGTTTGCTCCTAG
GAAAGTTCCCCAGTCGTTAGTTTTCCGGTCAGCGCTGGACATTAGCTTCTATGGTAAATAGGTCC
CTATGCTCTCTGAATCTACTTGTATATAGTCCTCGAGCGCTCCAAGCCGAGCACTAAATTGACAT
TGATCTTTCCACCCGCTGGTTGACAGATTGAGTACAAATCAAGGTGTAAAAAAGGACATAAGGAC
CTTCGATGAGGGTTGCCTCGCGTCAGTCGCTGTGGCGTGGAGAGG
Found at i:305160 original size:5 final size:5
Alignment explanation
Indices: 305150--305194 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
305140 CCATACGGCC
305150 TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA
1 TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA TGTTA
305195 AAGGGTTGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
TGTTA
Left flanking sequence: Indices 304650 -- 305149
CACCCTGTCCCCGACATTGTTCTCCGACGATGTCCCCTGGGCGAAAGGGACCACCATTCTCTTTC
TTTCTTCAATCGTTCCGATCAGGACAAGTCGGTTGGTTCCTTTCTTCCTCCTATCTAGAAATTCT
CTGTCTTCGTTCGTGATCATGTTGGGCGAAAGGTAGTTGTAGAGGAGCGGCTGTGAAACGGCGAT
TCCCCCTTTCCATTTCAGTAGGGAGGGCCTCCTTCCCCACCATTCCGGCCTATTATTGATAGGGA
TTTTACCGATGCTGAAGGTAGCTTACTTACCAAGTCACCCACTTGTTGAGAAGCTAGTCGCCAGA
AAGAAGCGACGAGGAAGCGAAGCTGTCTACGAAGCTTTGCTCCCCCCCCTGTAGTCGTCAGCTCA
TTCTTGACAGATCCGATCGGGTGCTCATAATCTGGAGTAAAAGGATTCGAACCTTTGCATGCCGG
TACCAAAAACCGATGCCTTACCACTTGGCTATACTCCATACGGCC
Right flanking sequence: Indices 305195 -- 305694
AAGGGTTGGTTGCGGGAACCGACGGTGACGAAGGTTACCGGGCCGATGCGGCCGGTTACCGGGAA
CCGCAAGGTTGCAAGGTTCCCGGGAAACGACGTTCCCTTTGTTTTGTAAAGTAGGCCTTTTTATA
ACTAATTAGAGTTGACATGAGATGGATCACGGAAGAAGACGTATTCGATGAATGAATGATTCAAT
CCCTTCCTACTCACAAGGGTTCTTCTATTGAAGAGGTTCCCCTTCTTCTATGTGAGGTGGGGCGT
ACGTAAGAGCGGAACCTAGATAGAACGCGGAGCGCCGGCCCCGGCCGCCGATACAGTTACCATGC
TTACCAGCTCAACCCATTGCCGCCTATAGTATAGATGGGAGGTAGGCGATGGTAGCTTTCTTCTC
TTCTCCTAGGCTACCTGCACATCTTATTCGCGAAGAAAGGGCAGCAAGCGGTTCTTCGCTTAGTA
GAGCTACCTGCCGCCGGTGACTTTCTCAGGACTTCGCAGGAGAAG
Found at i:326443 original size:5 final size:5
Alignment explanation
Indices: 326433--326477 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
326423 GTCAGGAAGC
326433 CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA
1 CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA
326478 GAAGGCTAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (5 bp):
CTTTA
Left flanking sequence: Indices 325933 -- 326432
GCTTGAAGAGTCCGCCTCACTGAAGATGCTCAAATACAGGCCGAAGCCTTGGAGGTCGAACTTGT
TACCCAAGATCCTCCTACTGTGCATGAGGTGCAACTTTCTGCTGAAGAACCTGCTACCGAAGATG
CAGCTCATTGCTGTGTAGTCACAGAGAATGTATGCTCTAAGTCTGAATCAAAAGACAAGGCGAAC
CTTACTCAACCTGAGGATTCCCGTCGGACCCTTCTCGCCCTGATGAACAAGAAGCTGTGGGTTAA
GAGTCTAAAGAAGTACTGGAGGTAAAAGTTTTCCTGTTCCTGTGCCTGAGGGAAGGAAAAGACAG
TCAAGTCAAGATGAAGTAGGAATGAACCCATTTGACTTGGAAAGGAGTCTCTTTCATAACCGTCG
AGATTTCCGCTAGTCAAACTGACTTGAGGAATAAACTGACTAGTCGGTAGTAAAGCGCCGAAGTC
TTCCTAGTGGAGTCAGGCTAATGACAGTTAGATGAGTCAGGAAGC
Right flanking sequence: Indices 326478 -- 326977
GAAGGCTAAGCTAAGGCTTTCAATCCAAAGCAGAGAAGAAATAAAAGTGAACTATATTCATAGTA
ATAAAGAAGATTATTTCAAATTGTTCAGTAAAAGGAAGCGAACAAAGTCCACTTTCTAACTTTCC
ATAGAATTACCAATTTAGTATAAAGTTTCACTTGTACTTTAATAAAATAAGTGACACATCAATGA
ATGAATTGAAAAGGAAAACAAGTTAACTCTATTTATAGGAATCAATGGGATTATTGGTGCATCCA
TGGTTGATGCTTCGAGAAACTACTTCTCTCTTCCTTAGACAGGGGAATAAATGAATAAATAGAAG
TCCCCCGAATCGATGGGATTGATTATTCCATAGTGTTCAGGCAAGGAAGGAGTTCTAGTTAGAGC
TAGGGAATTTAAGCTTTCCTCTACTTATCAGTTGATAAAGGAGGAACCTACTAATAGGAATATGG
ATAAGATTCTGAAACTAAGTCAATGAGCGGAACAATTCACTAATT
Found at i:340204 original size:23 final size:23
Alignment explanation
Indices: 340178--340223 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
340168 CCATCCTTAC
340178 CTTAAGCGTGAAGCCCATGAAAG
1 CTTAAGCGTGAAGCCCATGAAAG
* *
340201 CTTAAGCGTGCAGCCTATGAAAG
1 CTTAAGCGTGAAGCCCATGAAAG
340224 GTTGATCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.20
Consensus pattern (23 bp):
CTTAAGCGTGAAGCCCATGAAAG
Left flanking sequence: Indices 339678 -- 340177
GAGTTCAGTTCCTAATTCCCGAAGCCTCCCTATTTGACGTTGACGAAAGAAAGGGGGCTTGGGCT
GAAGGACGGGCTTTCAACAACAAGAACCTACCACTATGTTCGCTAACACCTATCAGACAGCAGAC
TGACTAGCTGACCTAACCAACTAATCGCTGACAGAGCAGACTTGCTTGCCCGCGCTGATTGGCTT
GCTTTGCTGAGGAATGGAGTTGGTGGACAGACAAAATCCCAACCTGGACACAGCGATTTGAAAGA
GCAGAGATTGGAGATTGATTCAATTCAATAGCTTTGGACAGAGACAGCCGGGTGTGAGCAACTCT
CGTACTCTATTTACTGGATCGTGCGTGATTGATGGATTCCTCTTTTACTAGCTAGTGCTATATCT
ATGGATTGAGTCAGGCAAGTTATGTTAGATATTGATCGAGGAAGGCTGCTTTCTAGTCTAGGAAG
GCGATGGGGCAAGATCTCAGTCAACAGGAAAACAGCCATCCTTAC
Right flanking sequence: Indices 340224 -- 340723
GTTGATCTATCCTTCAATAAAACATCATTCCAGGGAAAGGTCAAAGTCACTCTAAGTCAGCTCCA
GAAATCATTCCATGAGCCGTTAGGACAGCAGCCCTCCATGCATCAACCTTCAATCACCTCTTAAG
CTAGGGCGATCATCTCAGTCATTGTCATGAATCCGCTGTTGAATATGCCTCGGGAGAAAAAGAAG
GGAGTACGAAAGAAAGACTTCTTGGAAGACAGGGCCTTTCTTCAATCTAAGCTCAAAACGGAAAC
TATTGAAATAGAAAAGAAGTAAGGTAAGGACGATGGTGGAGTGAAAAAGAAAAGGCTGAGCCGGG
ACAACAAAAGAGCCCAATGATAAGAAATTAAATGATCAGAGATGGATTGCACGTGTAATCATAGT
AAAAAAGCGAATATTGATTGAGTCAAGCTCGTGAAAGCGATATCTAATAGGGGCAGGTACAAAAC
CGAAGATCCATTAATGAATTGTAGAGATTTAGTTGGTATCCATTG
Found at i:343851 original size:24 final size:24
Alignment explanation
Indices: 343824--343870 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
343814 AGAGGACGTA
343824 TCAGTACAT-TACTTATTGACGGTC
1 TCAGTACATCTA-TTATTGACGGTC
343848 TCAGTACATCTATTATTGACGGT
1 TCAGTACATCTATTATTGACGGT
343871 ATGAAGATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (24 bp):
TCAGTACATCTATTATTGACGGTC
Left flanking sequence: Indices 343324 -- 343823
AATCAACCGGGAATCCCACCTTTCACATTCTACATCTGCTACTGCTGGAGTGGATAATGCCTCCA
CTACCTGTGCCAGCAAACAAAGAAATACTCTAAAAAAAGGCTAGGTGTCCATGCCACCAACCAAC
TCCTGAAAGAAAAACAATATAGCTTCTCCGGCAAACCACTAGAAGTACCCATCGAGTCGAGCAAT
GATCCAATTGGAGAAGCAAGCTGCTCTTTGTCACCCCTTGGGACCAAGAACAAGCTCCAAAGAAG
AAGAAGGAAGTAAATCTTTCTTTATTCTACTACCTTGCCGGTTAGCTTTTCTTTCTTTATTCTAA
TATACGTTCATCAATAGCTTCAATCAGTAGAGCTAGTCTTATCTCGTTCTCGCCCTACGACTAGT
AGTGCGCTCACTGCCTACGGTTCTTGAACGAAAGTATGTGACTACTCTTTGTCAGCTTGCCTTTA
TTTTAGGCTCTTGATGCTTCATTGCTCTTACGGTAAGAGGACGTA
Right flanking sequence: Indices 343871 -- 344370
ATGAAGATGCTAAGAAGACGTATATGATTAATATATCCTCCGCCCTTCTTTCTCTTTGTAGTTGG
GATAGCGGCAGGATTAGAGGTAAGAAGGACAGATAGGCTAGGATTAGATGTGGCTTCTAGACGAG
GTGCTGAGGATAGAGGTAGAAAGTCTACCCCTTATGACATCCCTTGAGCTTTTCCTTCATGCACT
GGGAGAGTCAAAAGGACTTCTAACTTTCTTGGTTGATAGTTCGATCTAACTGCATGTCTTTCTGG
ATCTTTCACCCAGAGATATATAGCTAACTAAGGCAGTCTGGATGCTAGCACAATTGACCTCGCAG
GTAGCTATCGGACCAGGCTGCACCTGCTGCTCAAGGAACAAAGCCTCCATCTACCACCTCGGCTC
AGAAGACAGATCCAGAACCACAAACCCAACCAAGAGTAGCAGATGCTAGACCTGTAGATCCAGTA
CCCCCTCCAGTTCAGAATCAGCCCGCAATTCCTGAACCTGTGGAT
Found at i:349410 original size:12 final size:12
Alignment explanation
Indices: 349371--349413 Score: 68
Period size: 12 Copynumber: 3.5 Consensus size: 12
349361 TAGTGCCCTT
349371 TATAATTTATAA
1 TATAATTTATAA
*
349383 TATAACTTTCTAA
1 TATAA-TTTATAA
349396 TATAATTTATAA
1 TATAATTTATAA
349408 TATAAT
1 TATAAT
349414 ATAAGGCCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 17 0.61
13 11 0.39
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (12 bp):
TATAATTTATAA
Left flanking sequence: Indices 348871 -- 349370
AGTCAGAAGAAAGACTAAAGCACCTGCCTAGCGCTTGCCGACATCGTTCGAAGTAGCTAGCCAGC
CACTTCTCACTGGTTTAAGTTATCCAAATCTTGAGTTTATAGTACAGTCCGCTTTGGTTATTGCT
ATACCCTCTCTAGACAAACGATTTGATTCAAGCCACTACACTACTGGTACAGTAGCACCCTGCTT
TAATAATAGCATAAGCGCCCCGGAACCCTACTCAGTAAAGAAGGGGACTCCCTAAACGAGATTGC
TAGTTGGTATGGAGGTACTAGCTTTGCTTGCTTCCTAGTCAAATATGCCCTATCTGAAAACCTTT
AATATGAATGGTAAAAGACTAAAATAAAGAAACTTCCTTCAGATTGCTCGAACCACGTAACCTAA
TCAATGCGCCTATTCCCCTAAATAAAGACAAAAGGGATTCGCTGCTTGGCTATAGTTGAATTCAC
TCCTAGGCCTGAAAAATCGCATTTTCTCGCATGTTTAGTGCCCTT
Right flanking sequence: Indices 349414 -- 349913
ATAAGGCCTGGTGGCCTGTGTTCAAAAGCTTTTCACTATCGAAAAGAGGGCATATAGTCCTTCAT
ACAGGAAAGATCGATGATGACTGTTGCAAGAGTGGATACCCTTTCCGACAAAGGAGGGGAATCGT
ACTGATAGAAAAGGAATTCCACATAGCGAATTACATAACCTCCTACTCCTCTGTCTACCTGTACC
CGAGTGCTTAACGGGAGGAGAGATCTTTCATAAAGAAAGAGCATATCGAACTTGATATCCCATAT
CGAAGAGACCAAGCACGGGATGAGCCCAAAGCAAGCAACAAGGGATGAGCGGGCGACTCTTCTAA
AGGAAGAAGGGATTCGCTAATGGCAAGAGGGAAATTGCTAATTAACGATACTTATTCCGGATGCC
CGATCCCAGAGGGCAGATTGTCCCATATACTTAGAGCAAGAGGAATCGGGTGAAATAGAAACCTA
CTGTGATTTCCCCTTGGTAGAATGGTAGGGTGTTGCCCCGATAGT
Found at i:362937 original size:16 final size:16
Alignment explanation
Indices: 362916--362947 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
362906 ACCTAAATAG
362916 CATAATATAAGAAAGA
1 CATAATATAAGAAAGA
362932 CATAATATAAGAAAGA
1 CATAATATAAGAAAGA
362948 GTAGTAGCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.19
Consensus pattern (16 bp):
CATAATATAAGAAAGA
Left flanking sequence: Indices 362416 -- 362915
ATAATAGGATAAGCCAGATTTTTCCTTTTTGTGAAAGCAGAGATGGAACGATTGATAGATGGTGT
ACATAGGGGCTATTCTCTATGGGCCCTTCAAGTATGCTTCTTTTTTTCCTTTAGAGGTCGGATAA
CATCAGGTAACAAAACATTGCACTAAATGCTTGGCCTGGAAAGGTTTGATTCAAAGAGATGGGTA
TCCGTTCCGAAGAGCTTCTTTCCCCTTCCCCTATGGTCTTGATCCTTTCCATAGGTACTACTCCA
CGGTACCAGATGTGAGTGAAAGAATGGCTTTGCTCTAGGTCTATCTGCTCCAGATAAAGAGATGT
ATGGAATGCCTCACCCGGTCAATGATGAAATTTATAAAAAATATAGTCATACATAGAGATACCCT
ATCTGAAGGGTTCTCGGTAAGAACATACAGAAGTAACCAAACCACAGTTCCATGCGTTGATCAGT
CATTAGGGAAACCTTCCGCTGTCTTGAGGAATGGGACCTAAATAG
Right flanking sequence: Indices 362948 -- 363447
GTAGTAGCCGAACCAACTGACATAGCTAGATCATCATCAAAAGAAGAGGCTTCCTTTCGCTCTCA
AGTGCTAGTAAAAAATCAAGGAGCCTTCAACGTCGCGTGCGGATATGTTGAATGTTTTAAGCATC
AAGATTGTGTTGGTGCTAAGTCAGCTGTACTAAATGCATTGGATGCCTGGGCAACTGCATCGATC
CCATTCCTACTTTTCTTGCGTCCCTCCATCCCAGATCTCTAGGAACAGCAACACCATTAATCGAA
CGAGTCCGGATGAGTGAGATAGGTCTCGTTCCTTTGTTCTTTCTACAGCTACTCGGTCAATGAAG
ACGGAATCAAGGCTAGCTCTCTCAGTCCCATTCCTGATCAAATAACATCCCAAAAGAACGAACAA
AGAATGGAAGGCAGCATCGTGTGTCGAAGGGGATCCATGTTCCAGTAATTGGTGTAAAAAGATGT
TCTTTATGGTCAAGGAAGATAGGGTTCTTTCGGTCTTTCCTTTCT
Found at i:363807 original size:6 final size:6
Alignment explanation
Indices: 363796--363843 Score: 96
Period size: 6 Copynumber: 8.0 Consensus size: 6
363786 TCGTTGTGCC
363796 TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT
1 TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT
363844 AAGGGCTGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (6 bp):
TACTAT
Left flanking sequence: Indices 363296 -- 363795
AGTCCCATTCCTGATCAAATAACATCCCAAAAGAACGAACAAAGAATGGAAGGCAGCATCGTGTG
TCGAAGGGGATCCATGTTCCAGTAATTGGTGTAAAAAGATGTTCTTTATGGTCAAGGAAGATAGG
GTTCTTTCGGTCTTTCCTTTCTTTCTATCGTTCCCGCACGTAGACTAGTAGTGCGCTCACTGCCT
ATGCTTACGTTCTTCCCATTCGTTTTTAGCCTACCTTCTTTAGTTAACAAGTCGGGGTTCGCCTG
CCTCACCTACCTTGCAAAATTGGATATTCCTTTGACAAACCAGCATATGAGAGCATGCATCTTGC
TCTCTCCAAGAGTGTCCTGTTCATCCGTTCTGCAATTCCATTCTGCTGTGGTGTATGTCTCACAG
TGCAGTGTCTAGCAATGCCTTCATTCTTGCAGAACTCATTAAACTCACCTGAGCAGAATTCTAGA
CCATTGTCAGTCCTCAAGCGCTTTGCTTGACCTGATCGTTGTGCC
Right flanking sequence: Indices 363844 -- 364343
AAGGGCTGGTGGTGCGTTGACCAGCTCTGAGTTCCGTTTGCCGGGCCCTTGACGGTAGGCTATAC
AGCAGGCTAGAGACTTATGCTGTGCGCTTGCGATGAATTCTTGGCTCCCGGTTAAACAACTGGAC
CATTGAGTAACTGCTCTGTAAGACTACTGAACGACTAGTCCGTGGGGCTAGACCATTGTTCCACG
GGGGATTCTTACTCTACTGCAGATACTTACCTTCTTTCTTCGAGGAGCACAATCAACAGCACTTC
CAACGCCTTCATCGGAGCAAAAGCGGGCAAGGGAAGTAGCCTTTTTCGGATAAATTTATGTAGGA
TCAGCCTGGTTCTTGGACGTATTTCACAGAAGTCTACATCCCATCAACCTTCCAAGGTCCCAAGG
CAACAACTCAACTAGAGACAAAGTCGATGGGATTTCAGGCTAACTTAGGCTTTGTTGGTACAACA
ACCTTTCAGCTATTATGGATCGAAAAAGATTTCGACAACAATACT
Found at i:368401 original size:25 final size:25
Alignment explanation
Indices: 368373--368422 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
368363 ATCATTCCTT
368373 TATGTACGAAAGTTAGAATCCTCTC
1 TATGTACGAAAGTTAGAATCCTCTC
368398 TATGTACGAAAGTTAGAATCCTCTC
1 TATGTACGAAAGTTAGAATCCTCTC
368423 GTGCGTACGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (25 bp):
TATGTACGAAAGTTAGAATCCTCTC
Left flanking sequence: Indices 367873 -- 368372
GCAGAAGTCCCCCGGTGGAGTGGGATCAGAAAGATCAGAGTTGAGGAAGACTGTGCGACGTGGGT
GACCATAATAGGTGAGCCTTTGAATTTGAATCCGTCCTCCCAGCTTGGTTGAAGGTTCCGTGCAG
TGGCCGTCTCACCATTCAGATTAAGCCTTGGACTTCCTTCTTCTACTCCGTTAGCGAGAAGGAAA
GGAATAAAAACCACTATTTTCAGGCCTTCTGTTTCAGTCGTGTAAGAGCTCCTCTTCGGATGGTC
GAGCTAGCTCTTCTGCCTTCAAAGTCAACCGGAACTCCTGCTCTTTCTGGACAGCAAGCATCATA
GCCCCAAAAATTCGTTATCATAGTTTTGTGCTACGAAGGAAACTCCAAAAAGCGTAGGATTTACT
ATTCCACCTAAGCGCTTTCTTCCTCGAAAGCAAATCGCTATGATCGACCTTTCGGATGAATGAAG
CCAGAAGCTAAGGGCTTTGTTAGAGTGCTTTGCCAATCATTCCTT
Right flanking sequence: Indices 368423 -- 368922
GTGCGTACGCCCACCTTGAAATGAATTCTTCATCCGCACCCCACAAATTTTCTAAAAATAGAAAA
TGCGAGACTAAGGTACTTATTGTATGGGGAATAATAATTCATCAATATGAAGGGACCAGGACCAT
CGATAAGAATCTTTCTCGTTCTTTCCTTTCTAAATCTAAAGAATTTCCTTCGTAATGTTGCAGCA
TCCTTTAAGTGAGTTGGGGGACGTCTTTGTATAGTAGGGGTACGCCGCCGACGAATAATAGGTAC
CCCCACACCCCCGGCAGAGTTAGTGAGCCGTGTAATAGGCGACCATTTCGCGCGGTTCGGGGGGC
ACTTTAGCCGCCGTCGCCCGACAGCGTCTTGACCCTTATCCAATTTTTGGGCCAATTCCCCCTTC
GTACTACCAAAAAATGAGATTCTTGCCGAATCCGAGTTTGCTGCTCCAACCATTACCAAACTAAT
ACCTATTCCGTTTAGTACTTCAGGTGCTTCTGTTGCGTATAATGT
Found at i:386920 original size:5 final size:5
Alignment explanation
Indices: 386910--386970 Score: 122
Period size: 5 Copynumber: 12.2 Consensus size: 5
386900 CTGACTTTTC
386910 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT
1 ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT ACTAT
386960 ACTAT ACTAT A
1 ACTAT ACTAT A
386971 TAGGGCTACC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 56 1.00
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (5 bp):
ACTAT
Left flanking sequence: Indices 386410 -- 386909
ACTTCCTTTTCACTTCTTTCCTTAGTTCCGTCCTGATCAGTCCTATTTGTCCCATCTGTCTTATC
TCGTTCGGCTTGCATACTCTGTATGGCCTTAGCGAGCGTTGCGATCTCTCTTTCGCTCCCCTCCT
TCTTACTTCGTCCTAACCATGAGTTCTTTCCTGCACTAGCTTGTTTAACGCGTATAGCAGGTTTA
GGAGCAGCAGTAGGAGGGCTTGGCTCTTCTTTGACTACCGACTTCCGACTGAATGAGTTGCCGAG
TTCAAAGCTAAAGATCGGGGAAAGGTGCGGCAGACTTTAGGCTTTTCTAGTTATTCTTTGTTCTT
AGCTGAGGAAGAAAGAAAGTCGGCGATTCTTCCTTTACTGACTTCCCTCTTTCCTCTCGAATTAC
TTCTGGTACCTGAAAGTAGGTTAGCTGGCTCCGTCTTCCGACTTCAGACAGGGGGAGTGGGACCA
GGCTTAGTAGAGTTGGCGGGCTTGCCGACTTTTCACTGACTTTTC
Right flanking sequence: Indices 386971 -- 387470
TAGGGCTACCTTTACCCATTTTGAACAAGCTCGGAACTGCAGCCTGCGCCTTTGTGACACCGATT
CCCTTTTTGATTTGATGAATTCGTAAAAGAGCTTGAAGCGACTCCTTCTCTTATTGTTTAATAAA
TAAGGTAGGTAGGTATAGGAGAAAGAGAGCGAAGCGACTTGTTCTTGTGATTGGTACGGGTGGCC
GTACGCGAGTGGCGCTATCCGGTGCACGAGTTAGGCGACCCGATGGGCCTTATAGTTAGGGAAAG
TCAGATTCCACTTATGCTGGGAAACCAGGGACTAAGAACCTTACGATAGCACGCTTATATACCCG
TTGGAGTAAAGTAAGAACCGATAGCCAAAGAGATTATAGCGTAGGCTGACTAACTCCTTATTAAT
TCTAGCTCTAAACCCAAGTCTAACTGCAAGTTTTTTAATGTTTTCTTCTTTTTCTTTTTTCCGGT
ATGCCGCTCCGCGAGCAAGGAGCGAGAAAGCCAAGTGGGCTGTGG
Found at i:414515 original size:10 final size:10
Alignment explanation
Indices: 414502--414532 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
414492 AAATTTTGCT
414502 TTTGATAGCC
1 TTTGATAGCC
414512 TTTGATAGCC
1 TTTGATAGCC
414522 TTTGATAGCC
1 TTTGATAGCC
414532 T
1 T
414533 ATGGGGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (10 bp):
TTTGATAGCC
Left flanking sequence: Indices 414002 -- 414501
TCAAGTGAGGAAGAAAATAAGTCCACTGACAGTACCTGTTTACCTTTTTCCAACTCGAGACTCAT
CTTAGTGGCTCTGCTGTCCCAACAAATGTGGCAATTTCAGGTAGAAAATTGTTGGAACACATTTT
AACTGCAGACTGCTATGTTAACTTCTCAGGGCATTGGAGATTCACATTCTCTCCTTGTTATAAAG
TCATTGACGCTTTCATTGCATTGGCTCTTTCTCGAATGTCTGCTAAATCCATTATGGAGACCTTT
TTCTTTGAGCTTACAAATTGGGCTAAGAAGGCTCTTTGTAGGTCATCCCATGTATGAATCGAACC
TGGTTGTAGTTGGGTATACCAGGTAAAAGCGGACCCCATTTGATGGAGCAGCTGGTGCCCTAGAG
TTCTCATCTTGAGAGATTGAACGATTAGCAAAGCGTCCTCCACAAGCTGAGTCAAAATGTGGCAA
ATGTTCTTGAGGCGGGCCATTGATGCCATTTCTCAAAATTTTGCT
Right flanking sequence: Indices 414533 -- 415032
ATGGGGAAAGGGGAAAGGAATTGTGTCATAATAGGCCGGATAGGGCTTCCCCAAGAACGGGGGGA
TTGATAAGCAGACTGGAAGAGTTGCTATTAGGCAGCTGACTTTGAGGTCGCCCCCTTCGGGAGAG
GCTCCTCAGGAGAGGAACCAAAGTCAAAAGTCCGTTGTTCTCCACTCTAGAATATTCTTCCTTAA
CCCGAGCCAAGGCCTTTGGTATTGGTCTTGCCACCCTTGGAACTTGAATGGTTTTCTGGATCTTG
ACTTTAGATGATTGGATTGGCAATAGAGGATTCTTCCTTTGGGGAACTTGGAGGACTATCCTCTC
TTCTCTCTGATTCCAGTCCATAACTTCCTTGAATATAGCTCAGTAACTGCTGTCATCATGACTGA
CTCGGTGACAGTCAAATTGATTGGAATTATTCCAATCATAATCTGTATGTATTGGAAGGGTCGAG
GGAGGTGAGCTAAAGTGAAATGATGAGGAGGCCCGGAAAGCTGGT
Found at i:418702 original size:8 final size:8
Alignment explanation
Indices: 418689--418714 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
418679 GGGATCGCCC
418689 ATGTGTTA
1 ATGTGTTA
418697 ATGTGTTA
1 ATGTGTTA
418705 ATGTGTTA
1 ATGTGTTA
418713 AT
1 AT
418715 AAGGGCGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (8 bp):
ATGTGTTA
Left flanking sequence: Indices 418189 -- 418688
TGATCTCTTCCCTCTTCACATGAACTTTCAGAGTCCCTATCTAATAGTCACCTCCCTCCCTTCCC
TTCCCTCTAAGGCTAAGGTGGTGTCAACCAAAGGCGCAAGAAGTTCTCACATGAATAGACGTTTG
AATATTCGCTCAGTACTTGAACCTTCGATCACTCGGATTCGTCGTTCACCTTCTCAAACCGACGA
AGCCTACTCGAACTTCTCCCTGCCACCATACCTGAATGAAGGAAACTAATAGCTAGAAAAACAGG
CTATTCCATCTAAGGCATAACATGAACCGAGGAATCCAACCAAATAGGAATTCATAGGCATGTGG
GAACAGCATTGCTTGCATTGATTCAATTGATTTGAAGCGGCGGAAGCTCGAAGACCAGGCAAGGC
AGGAAGCTTTTGGCCATATTCCTAGGGTCTTGCTTGGGGACGGACACCATTGGTTAGAAGATGTT
CGAAACCTGGACTTCCTATCTAAAGTAGGAATTGAGGGATCGCCC
Right flanking sequence: Indices 418715 -- 419214
AAGGGCGGAGCTTCCTCGCTTTCCCTTTTTGGATGTCTACACGGCTTAATCCCCTCCGTCCGCTT
GCCTGCCCGGGCATTCCACTTAATGACAAAAGAAGTGGAAAAGAAAGTAAACCCGAAGTACCTAA
GGAATGGGTTCAGTTCCTGTTCTGGGATAACAAGAGATCTAACGAAAGCGAAAGATCTGATATGT
TCGACTTATCTGGAGCCAATGAAAGGCAGCAACATAAGGCGATCCAAGAGATGCGTGTTCTATAA
GGCGAGGAAAGAGGCTTCAAGGAAAGAATTCATCACATTTCTTCCTATTCATATAGTTGAGACTG
ATTCGTGAGCTCTATGCCACGTACCTTTCCTTTACAGGTAAGCATCACCTTTCAGCTTCCTTGTT
CACACTTCCCTTCTTCTTGGGAAGCATGTCAACAATCTTTCGTGAAGAGCTACCTGCATATTTAA
CGGTCGGTGCGAAGTTAGCGAAGCTGGGCTCATTTATGATCCGCT
Found at i:425208 original size:5 final size:5
Alignment explanation
Indices: 425198--425282 Score: 170
Period size: 5 Copynumber: 17.0 Consensus size: 5
425188 CGCATGGACC
425198 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
425248 TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 80 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Left flanking sequence: Indices 424698 -- 425197
GAGGTCTGCATTCAATAGATTAACCTTCCCCTCGTAGGTCGATTTGTGAAAGGCTCTCAACCCCA
AACGTGAGACCAGTTGTTCGAAAATCGGTGCATGAACGACTGGGGGCAAGGATCACCGTTCCAAC
TAAAAGAAGATCAGTTGGCTGGGGGCAACTCAAGACTCTCGAGCTTCTACTGACCCAGTGGATAC
TGCTAATGGAGGAATCGCATCGCAAAAGCAGATAGTCATAACCATGAAGATCTCTACAGAGTTTT
CGGAAGGAGTATTTACTCTTACTTCGTATCATATTACCGAAACCGATGAAGAAACTCAAGTCGAG
GAAGACGCGGAAGAGGCGCCGCCTGAACTTGAAGAGGGGGTTAAGTCTACCGACAGTCAATTTGG
GGACAGAAGATGATCCTAGACCAACCTATGTGAGCGCACTCCTTACCCCCGAAGAAGAAGCAGCT
TATGTGCAGCTCTTGATGGAGTATAGAGATGTATTCGCATGGACC
Right flanking sequence: None
Done.