Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 41 of 290
Found at i:13516791 original size:81 final size:80
Alignment explanation
Indices: 13516671--13516845 Score: 273
Period size: 81 Copynumber: 2.2 Consensus size: 80
13516661 AACCCAAGTA
* * * *
13516671 CCTTTGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
13516735 TCACTTAGCACAAATG
66 TCAC-TAGCACAAATG
*
13516751 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCTCAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
13516815 GTCACTAGCACAAATG
65 GTCACTAGCACAAATG
13516831 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
13516846 TCAGATATCA
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
80 38 0.43
81 49 0.56
82 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTAGCACAAATG
Found at i:13516853 original size:40 final size:40
Alignment explanation
Indices: 13516671--13516845 Score: 273
Period size: 40 Copynumber: 4.4 Consensus size: 40
13516661 AACCCAAGTA
* * *
13516671 CCTTTGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
13516710 CCTTCGGGTCTTAGCCCGGATATAGTCACTTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAC-TAGCACAAATG
*
13516751 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
13516791 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
13516831 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
13516846 TCAGATATCA
Statistics
Matches: 126, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
39 11 0.09
40 76 0.60
41 39 0.31
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:13524835 original size:40 final size:40
Alignment explanation
Indices: 13524706--13524888 Score: 264
Period size: 40 Copynumber: 4.6 Consensus size: 40
13524696 AACCCATGTA
* *
13524706 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
13524745 CCTTC-GGATCTTAGCCCGGATATAGTCACTTAGCACAAATG
1 CCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAATG
* *
13524786 CCTTCGGGACTTAGCCCGGATACAGTCACTAGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
13524826 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
13524866 CCTTCGGGACTTAGCTCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
13524889 CATTCGAATA
Statistics
Matches: 130, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
38 3 0.02
39 9 0.07
40 80 0.62
41 35 0.27
42 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:13526696 original size:18 final size:18
Alignment explanation
Indices: 13526673--13526707 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13526663 GTCGTGTGTG
*
13526673 CCACACGGGCGTGTGGAT
1 CCACACGAGCGTGTGGAT
13526691 CCACACGAGCGTGTGGA
1 CCACACGAGCGTGTGGA
13526708 ATTTTGGGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.29, G:0.37, T:0.14
Consensus pattern (18 bp):
CCACACGAGCGTGTGGAT
Found at i:13535573 original size:40 final size:40
Alignment explanation
Indices: 13535508--13535599 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 40
13535498 ATTATGTTTG
* * *
13535508 GCACTTAGTGTGCGCATCGAGATAGCTTCGGCTATATAAA
1 GCACTTAGTGTGAGAATCGAGATAGCTTCGACTATATAAA
**
13535548 GCACTTAGTGTGAGAATCG-GAATAGCTTCGACTATATATG
1 GCACTTAGTGTGAGAATCGAG-ATAGCTTCGACTATATAAA
13535588 GCACTTAGTGTG
1 GCACTTAGTGTG
13535600 CGAGACTGAG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.02
40 45 0.98
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (40 bp):
GCACTTAGTGTGAGAATCGAGATAGCTTCGACTATATAAA
Found at i:13535623 original size:81 final size:82
Alignment explanation
Indices: 13535506--13535683 Score: 188
Period size: 81 Copynumber: 2.2 Consensus size: 82
13535496 CGATTATGTT
* *
13535506 TGGCACTTAGTGTGCGCATCGAGATAGCTTCGGCTAT-ATAAAGCACTTAGTGTGAGA-ATCG-G
1 TGGCACTTAGTGTGCGCATCGAGATAGATTCAGCTATGA-AAAGCACTTAGTGTGAGAGAT-GAG
13535568 AATAGCTTC-GACTAT-ATA
64 AATAGCTTCTG-CTATGATA
* * * * *
13535586 TGGCACTTAGTGTGCG-AGACTGAGATAGATTCAGCTATGAAATGTACTTAGTGTGTGAGATGAT
1 TGGCACTTAGTGTGCGCA-TC-GAGATAGATTCAGCTATGAAAAGCACTTAGTGTGAGAGATGAG
* *
13535650 AATAGCTTCTGCTATGCTT
64 AATAGCTTCTGCTATGATA
13535669 TGGCACTTAGTGTGC
1 TGGCACTTAGTGTGC
13535684 AAGATATCGA
Statistics
Matches: 82, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
79 1 0.01
80 17 0.21
81 31 0.38
82 16 0.20
83 17 0.21
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (82 bp):
TGGCACTTAGTGTGCGCATCGAGATAGATTCAGCTATGAAAAGCACTTAGTGTGAGAGATGAGAA
TAGCTTCTGCTATGATA
Found at i:13548789 original size:43 final size:43
Alignment explanation
Indices: 13548723--13548982 Score: 308
Period size: 43 Copynumber: 6.0 Consensus size: 43
13548713 TATATGTGAT
*
13548723 ATCGATATGTGATTACGTGTAAGACAACGTCTGGGACGTTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
* * * *
13548766 ATCAATATGTGATTACGTATAAGACCACGTCTGCGATGTTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
* **
13548809 ATCGATATGTGATTATGTGTAAGACCACGTCTAAGACGTTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
* * * *
13548852 ATCGATATGTGATTACGCGTAAGGCCACATCTGGGATGTTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
* * * *
13548895 ATCAATATGTGTTTACGAGTAAGACC-CTGTCTGGGATAG-TGGC
1 ATCGATATGTGATTACGTGTAAGACCAC-GTCTGGGA-CGTTGGC
* * * *
13548938 ATCGATATGAGGTTACATGTAAGACCACATCTGGGACGTTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
13548981 AT
1 AT
13548983 TGTATGATAT
Statistics
Matches: 182, Mismatches: 31, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
42 2 0.01
43 178 0.98
44 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (43 bp):
ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
Found at i:13548959 original size:129 final size:129
Alignment explanation
Indices: 13548723--13548982 Score: 346
Period size: 129 Copynumber: 2.0 Consensus size: 129
13548713 TATATGTGAT
* *
13548723 ATCGATATGTGATTACGTGTAAGACAACGTCTGGGACGTTGGCATCAATATGTGATTACGTATAA
1 ATCGATATGTGATTACGCGTAAGACAACATCTGGGACGTTGGCATCAATATGTGATTACGTATAA
* ** *
13548788 GACCACGTCTGCGATGTTGGCATCGATATGTGATTATGTGTAAGACCACGTCTAAGACGTTGGC
66 GACCACGTCTGCGATGTTGGCATCGATATGAGATTACATGTAAGACCACATCTAAGACGTTGGC
* * * *
13548852 ATCGATATGTGATTACGCGTAAGGCCACATCTGGGATGTTGGCATCAATATGTGTTTACG-AGTA
1 ATCGATATGTGATTACGCGTAAGACAACATCTGGGACGTTGGCATCAATATGTGATTACGTA-TA
* * **
13548916 AGACC-CTGTCTGGGATAG-TGGCATCGATATGAGGTTACATGTAAGACCACATCTGGGACGTTG
65 AGACCAC-GTCTGCGAT-GTTGGCATCGATATGAGATTACATGTAAGACCACATCTAAGACGTTG
13548979 GC
128 GC
13548981 AT
1 AT
13548983 TGTATGATAT
Statistics
Matches: 114, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
128 2 0.02
129 111 0.97
130 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (129 bp):
ATCGATATGTGATTACGCGTAAGACAACATCTGGGACGTTGGCATCAATATGTGATTACGTATAA
GACCACGTCTGCGATGTTGGCATCGATATGAGATTACATGTAAGACCACATCTAAGACGTTGGC
Found at i:13549952 original size:34 final size:34
Alignment explanation
Indices: 13549914--13549990 Score: 145
Period size: 34 Copynumber: 2.3 Consensus size: 34
13549904 GTACCTGCAC
*
13549914 ATATATATTTATGCACATGATGTGTTGGTATGAT
1 ATATATATTTATACACATGATGTGTTGGTATGAT
13549948 ATATATATTTATACACATGATGTGTTGGTATGAT
1 ATATATATTTATACACATGATGTGTTGGTATGAT
13549982 ATATATATT
1 ATATATATT
13549991 ATCTCAAGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.32, C:0.05, G:0.17, T:0.45
Consensus pattern (34 bp):
ATATATATTTATACACATGATGTGTTGGTATGAT
Found at i:13555831 original size:47 final size:47
Alignment explanation
Indices: 13555778--13555969 Score: 258
Period size: 47 Copynumber: 4.1 Consensus size: 47
13555768 TTAGGATTTT
* * *
13555778 AATGTGATGAATGTGAACATACGGATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCGTATGTGAGATAAGGCCGAATGGCC
*
13555825 AATGTGATGAATGTGAACATGCGTATGTGCGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCGTATGTGAGATAAGGCCGAATGGCC
* * *
13555872 AATATGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCGTATGTGAGATAAGGCCGAATGGCC
* ** * * * *
13555919 GATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCT
1 AATGTGATGAATGTGAACATGCGTATGTGAGATAAGGCCGAATGGCC
13555966 AATG
1 AATG
13555970 CGAAATGTGT
Statistics
Matches: 131, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.25
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCGTATGTGAGATAAGGCCGAATGGCC
Found at i:13556079 original size:46 final size:46
Alignment explanation
Indices: 13555943--13556079 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
13555933 GAACATGTAT
* *
13555943 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
13555989 ATATGAGATAAAGCCGAATGGCTGATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
13556035 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
13556080 TGTATATATA
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:13557889 original size:40 final size:40
Alignment explanation
Indices: 13557567--13557878 Score: 455
Period size: 40 Copynumber: 7.8 Consensus size: 40
13557557 GAGAATTGAG
*
13557567 AGTGATATACCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
13557607 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
13557647 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTCCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
13557687 AGTGATGTATCCGGGCTAAGTTCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
13557727 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
13557767 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* ** *
13557807 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCCTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
13557847 GGT-ATTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGA-TATATCCGGGCTAAGTCCCGAAGAGCA
13557879 ATCATGCTGG
Statistics
Matches: 243, Mismatches: 28, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 1 0.00
40 242 1.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:13562147 original size:29 final size:29
Alignment explanation
Indices: 13562112--13562185 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
13562102 GTTGTGAGAT
* *
13562112 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
13562141 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
13562170 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
13562186 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:13565631 original size:47 final size:47
Alignment explanation
Indices: 13565578--13565764 Score: 275
Period size: 47 Copynumber: 4.0 Consensus size: 47
13565568 TTAGGATTTT
** *
13565578 AATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
13565625 AATGTGATGAATGTGAACATGCGTATGTGCGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
13565672 AATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGTC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
13565719 GATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
13565765 TAATACGAAA
Statistics
Matches: 129, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 129 1.00
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:13565861 original size:46 final size:46
Alignment explanation
Indices: 13565743--13565879 Score: 175
Period size: 46 Copynumber: 3.0 Consensus size: 46
13565733 GAACATGTAT
* * * *
13565743 ATATGTGGTAAGGCCGAATGGCTAATACGAAATGTGTTTGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
13565789 ATATGAGATAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
13565835 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
13565880 TGTATATATA
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.35, C:0.09, G:0.30, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:13569376 original size:43 final size:43
Alignment explanation
Indices: 13569315--13569527 Score: 189
Period size: 43 Copynumber: 5.0 Consensus size: 43
13569305 TGTAATATCA
* * *
13569315 ATATGTGATTATGTGTAAGACAACGTCTGGAATGTTGGCATTG
1 ATATGTGATTACGTGTAAGACAACGTCTGGAACGTTGGCATCG
* *
13569358 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACAACGTCTGGAACGTTGGCATCG
** *
13569401 ATATGTGATTACGTGTAAGACCGCGTCT-AAGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACAACGTCTGGA-ACGTTGGCATCG
* ** * *
13569444 ATATGTGTTTACAAGTAAGAC-CCTGTCTGGGACAG-TGGCATCG
1 ATATGTGATTACGTGTAAGACAAC-GTCTGGAAC-GTTGGCATCG
* ** * * * * *
13569487 ATGTCAGGTTACATGTAAGACCACATCTGGGACGTTGGCAT
1 ATATGTGATTACGTGTAAGACAACGTCTGGAACGTTGGCAT
13569528 TGTATGATAT
Statistics
Matches: 143, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
42 2 0.01
43 139 0.97
44 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (43 bp):
ATATGTGATTACGTGTAAGACAACGTCTGGAACGTTGGCATCG
Found at i:13569462 original size:86 final size:86
Alignment explanation
Indices: 13569315--13569488 Score: 219
Period size: 86 Copynumber: 2.0 Consensus size: 86
13569305 TGTAATATCA
* * * * **
13569315 ATATGTGATTATGTGTAAGACAACGTCTGGAATGTTGGCATTGATATGTGATTACGTGTAAGACC
1 ATATGTGATTACGTGTAAGACAACGTCTAGAACGTTGGCATCGATATGTGATTACAAGTAAGACC
13569380 AC-GTCTGGGAC-GTTGGCATCG
66 -CTGTCTGGGACAG-TGGCATCG
** *
13569401 ATATGTGATTACGTGTAAGACCGCGTCTA-AGACGTTGGCATCGATATGTGTTTACAAGTAAGAC
1 ATATGTGATTACGTGTAAGACAACGTCTAGA-ACGTTGGCATCGATATGTGATTACAAGTAAGAC
13569465 CCTGTCTGGGACAGTGGCATCG
65 CCTGTCTGGGACAGTGGCATCG
13569487 AT
1 AT
13569489 GTCAGGTTAC
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
85 2 0.03
86 73 0.96
87 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (86 bp):
ATATGTGATTACGTGTAAGACAACGTCTAGAACGTTGGCATCGATATGTGATTACAAGTAAGACC
CTGTCTGGGACAGTGGCATCG
Found at i:13569504 original size:86 final size:86
Alignment explanation
Indices: 13569348--13569527 Score: 211
Period size: 86 Copynumber: 2.1 Consensus size: 86
13569338 CGTCTGGAAT
* ** **
13569348 GTTGGCATTGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTAC
1 GTTGGCATCGATATGTGATTACAAGTAAGACCACGTCTGGGACGTTGGCATCGATATCAGATTAC
* * *
13569413 GTGTAAGACCGCGTCTAAGAC
66 ATGTAAGACCACATCTAAGAC
* * *
13569434 GTTGGCATCGATATGTGTTTACAAGTAAGACC-CTGTCTGGGACAG-TGGCATCGATGTCAGGTT
1 GTTGGCATCGATATGTGATTACAAGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATCAGATT
**
13569497 ACATGTAAGACCACATCTGGGAC
64 ACATGTAAGACCACATCTAAGAC
13569520 GTTGGCAT
1 GTTGGCAT
13569528 TGTATGATAT
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
85 1 0.01
86 77 0.97
87 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.28
Consensus pattern (86 bp):
GTTGGCATCGATATGTGATTACAAGTAAGACCACGTCTGGGACGTTGGCATCGATATCAGATTAC
ATGTAAGACCACATCTAAGAC
Found at i:13569663 original size:18 final size:18
Alignment explanation
Indices: 13569640--13569675 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
13569630 AGGTATGAGA
13569640 TAGCTTATTTCCTATTTG
1 TAGCTTATTTCCTATTTG
13569658 TAGCTTATTTCCTATTTG
1 TAGCTTATTTCCTATTTG
13569676 AAATAAGGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.56
Consensus pattern (18 bp):
TAGCTTATTTCCTATTTG
Found at i:13570483 original size:34 final size:34
Alignment explanation
Indices: 13570440--13570518 Score: 149
Period size: 34 Copynumber: 2.3 Consensus size: 34
13570430 GTACTTGCAC
*
13570440 ATATATATATTTATGCACATGATGTGTTGGTATG
1 ATATATATATTTATACACATGATGTGTTGGTATG
13570474 ATATATATATTTATACACATGATGTGTTGGTATG
1 ATATATATATTTATACACATGATGTGTTGGTATG
13570508 ATATATATATT
1 ATATATATATT
13570519 ATCTCAAGAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.46
Consensus pattern (34 bp):
ATATATATATTTATACACATGATGTGTTGGTATG
Found at i:13573304 original size:40 final size:40
Alignment explanation
Indices: 13573249--13573469 Score: 358
Period size: 40 Copynumber: 5.6 Consensus size: 40
13573239 TATTCGAATG
*
13573249 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
13573289 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
13573329 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
13573369 ATATCC-GGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
13573408 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
13573448 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
13573470 TACTTGGGTT
Statistics
Matches: 170, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 51 0.30
40 117 0.69
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:13573417 original size:79 final size:79
Alignment explanation
Indices: 13573249--13573469 Score: 363
Period size: 79 Copynumber: 2.8 Consensus size: 79
13573239 TATTCGAATG
*
13573249 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC-GGCTAAGTCCCGAAGGCA
13573314 TTTGTGCTAGTGACT
65 TTTGTGCTAGTGACT
13573329 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGCTAAGTCCCGAAGGCAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGCTAAGTCCCGAAGGCAT
*
13573394 TTGTGCTATTGACT
66 TTGTGCTAGTGACT
* * * *
13573408 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTG-CTATATCCGGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGCTAAGTCCCGAAGG
13573470 TACTTGGGTT
Statistics
Matches: 134, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
79 87 0.65
80 47 0.35
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGCTAAGTCCCGAAGGCAT
TTGTGCTAGTGACT
Found at i:13581372 original size:40 final size:40
Alignment explanation
Indices: 13581317--13581498 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
13581307 TATTCGAATG
*
13581317 ATATCCGGGCTAAGTCCCGAAGGCATTTTTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
13581357 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
13581397 ATATCCGTGCCAAGTCCCGAAGGCATTTGTGCTATTAACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
13581437 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
13581477 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
13581499 TACTTGGGTT
Statistics
Matches: 126, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 13 0.10
40 112 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:13594772 original size:42 final size:43
Alignment explanation
Indices: 13594700--13594796 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 43
13594690 TTCTATTTTA
*
13594700 CGTGTAAGACCATGTTTGGGACATCAGCATC-ATATCTGATTT
1 CGTGTAAGACCATGTTTGGGACATCAGCATCGATATCTGATTG
* * * *
13594742 CGTGTAAGACCCTGTTTGGGACAGT-GGCATCGATGTTTGATTG
1 CGTGTAAGACCATGTTTGGGACA-TCAGCATCGATATCTGATTG
*
13594785 CATGTAAGACCA
1 CGTGTAAGACCA
13594797 CATTTAGGAC
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
42 27 0.59
43 19 0.41
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCATGTTTGGGACATCAGCATCGATATCTGATTG
Found at i:13597655 original size:16 final size:16
Alignment explanation
Indices: 13597634--13597671 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
13597624 ACAATGATAC
13597634 ACCTCATTGTATGTAA
1 ACCTCATTGTATGTAA
13597650 ACCTCATTGTATGTAA
1 ACCTCATTGTATGTAA
13597666 ACCTCA
1 ACCTCA
13597672 ATTGAATTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (16 bp):
ACCTCATTGTATGTAA
Found at i:13598236 original size:14 final size:14
Alignment explanation
Indices: 13598217--13598270 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 14
13598207 TAAGGTTTGG
13598217 TATGAATTGATTGA
1 TATGAATTGATTGA
13598231 TATGAATTGATTG-
1 TATGAATTGATTGA
13598244 -ATGAATTGA--GA
1 TATGAATTGATTGA
* *
13598255 TTTGAAATGATTGA
1 TATGAATTGATTGA
13598269 TA
1 TA
13598271 ATGTTATAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
10 1 0.03
12 16 0.48
14 16 0.48
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (14 bp):
TATGAATTGATTGA
Found at i:13602995 original size:38 final size:38
Alignment explanation
Indices: 13602946--13603018 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
13602936 AAGACCATTC
*
13602946 CTGGGATATGGCATC-ATTATGAGACTTCATGTAAGTAT
1 CTGGGATATGGCATCGA-TATAAGACTTCATGTAAGTAT
*
13602984 CTGGGATATGGCATCGATATAAGATTTCATGTAAG
1 CTGGGATATGGCATCGATATAAGACTTCATGTAAG
13603019 ACCATAACTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
38 31 0.97
39 1 0.03
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (38 bp):
CTGGGATATGGCATCGATATAAGACTTCATGTAAGTAT
Found at i:13607435 original size:28 final size:28
Alignment explanation
Indices: 13607359--13607435 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 28
13607349 TATATATGTA
* *
13607359 TATGGCACTTAGTGTGAAAAATATTAAG
1 TATGGCACTTAGTGTGAGAGATATTAAG
* * * *
13607387 AATGGCACTTGGTGTGTGAGATATTGAG
1 TATGGCACTTAGTGTGAGAGATATTAAG
* *
13607415 TATGGAACTTAGTGTGCGAGA
1 TATGGCACTTAGTGTGAGAGA
13607436 CATCGAAGAT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.31
Consensus pattern (28 bp):
TATGGCACTTAGTGTGAGAGATATTAAG
Found at i:13609528 original size:81 final size:81
Alignment explanation
Indices: 13609411--13609571 Score: 209
Period size: 81 Copynumber: 2.0 Consensus size: 81
13609401 TAAAATAACC
* *
13609411 TAATACCCCTGTAGGGTAAAATGATCGTAATACCCCTGTAGGGTAAAATAACCGTAATACCCCTG
1 TAATACCCCTGTAGGGTAAAATGACCGTAATACCCCTGTAAGGTAAAATAACCGTAATACCCCTG
* *
13609476 TAGGGTAAAATGACTG
66 CAGGGCAAAATGACTG
* * * *
13609492 TAATA-CCCTCGTAGGG-AGAAATGACCGTAATGCCCCTGTAAGGTAAAATGACCGTGATACCCT
1 TAATACCCCT-GTAGGGTA-AAATGACCGTAATACCCCTGTAAGGTAAAATAACCGTAATACCCC
*
13609555 TGCATGGCAAAATGACT
64 TGCAGGGCAAAATGACT
13609572 AGCCCTTAGG
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 5 0.07
81 64 0.93
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (81 bp):
TAATACCCCTGTAGGGTAAAATGACCGTAATACCCCTGTAAGGTAAAATAACCGTAATACCCCTG
CAGGGCAAAATGACTG
Found at i:13609541 original size:27 final size:27
Alignment explanation
Indices: 13609398--13609553 Score: 183
Period size: 27 Copynumber: 5.8 Consensus size: 27
13609388 ACCCCAGAAT
*
13609398 AGGTAAAATAACC-TAATACCCCTGTA
1 AGGTAAAATGACCGTAATACCCCTGTA
* *
13609424 GGGTAAAATGATCGTAATACCCCTGTA
1 AGGTAAAATGACCGTAATACCCCTGTA
* *
13609451 GGGTAAAATAACCGTAATACCCCTGTA
1 AGGTAAAATGACCGTAATACCCCTGTA
* *
13609478 GGGTAAAATGACTGTAATA-CCCTCGT-
1 AGGTAAAATGACCGTAATACCCCT-GTA
* *
13609504 AGGGAGAAATGACCGTAATGCCCCTGTA
1 AGGTA-AAATGACCGTAATACCCCTGTA
*
13609532 AGGTAAAATGACCGTGATACCC
1 AGGTAAAATGACCGTAATACCC
13609554 TTGCATGGCA
Statistics
Matches: 111, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
26 17 0.15
27 86 0.77
28 8 0.07
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (27 bp):
AGGTAAAATGACCGTAATACCCCTGTA
Found at i:13609554 original size:54 final size:55
Alignment explanation
Indices: 13609399--13609554 Score: 221
Period size: 54 Copynumber: 2.9 Consensus size: 55
13609389 CCCCAGAATA
*
13609399 GGTAAAATAACC-TAATACCCCTGTAGGGTAAAATGATCGTAATACCC-CTGTAG
1 GGTAAAATAACCGTAATACCCCTGTAGGGTAAAATGACCGTAATACCCTCTGTAG
*
13609452 GGTAAAATAACCGTAATACCCCTGTAGGGTAAAATGACTGTAATACCCTC-GTAG
1 GGTAAAATAACCGTAATACCCCTGTAGGGTAAAATGACCGTAATACCCTCTGTAG
* * * *
13609506 GG-AGAAATGACCGTAATGCCCCTGTAAGGTAAAATGACCGTGATACCCT
1 GGTA-AAATAACCGTAATACCCCTGTAGGGTAAAATGACCGTAATACCCT
13609555 TGCATGGCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
53 13 0.14
54 79 0.85
55 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (55 bp):
GGTAAAATAACCGTAATACCCCTGTAGGGTAAAATGACCGTAATACCCTCTGTAG
Found at i:13612233 original size:25 final size:25
Alignment explanation
Indices: 13612204--13612321 Score: 125
Period size: 26 Copynumber: 4.7 Consensus size: 25
13612194 AGCTCTATTA
* *
13612204 AGCTTTCCGATTATGGCTCTTTGTG
1 AGCTTCCCGATTATGGCTCTCTGTG
*
13612229 AGCTTCCCGATTAAAGGCTCTCTGTG
1 AGCTTCCCGATT-ATGGCTCTCTGTG
* *
13612255 AGCTTCCTGATTAATGGCTCTCCG-G
1 AGCTTCCCGATT-ATGGCTCTCTGTG
*
13612280 AGCTTCCCGA-TATGGCTCGCT-TG
1 AGCTTCCCGATTATGGCTCTCTGTG
*
13612303 AACTTCCCGATATATGGCT
1 AGCTTCCCGAT-TATGGCT
13612322 ATTTGGAGCT
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
23 18 0.23
24 1 0.01
25 28 0.35
26 32 0.41
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (25 bp):
AGCTTCCCGATTATGGCTCTCTGTG
Found at i:13612330 original size:48 final size:50
Alignment explanation
Indices: 13612210--13612348 Score: 135
Period size: 48 Copynumber: 2.8 Consensus size: 50
13612200 ATTAAGCTTT
* *
13612210 CCGATTATGGCTCTTTGTGAGCTTCCCGATTAAAGGCTCTCTGTGAGCTTC
1 CCGATTATGGCTCTTTG-GAGCTTCCCGATTAAAGGCTCGCTGTGAACTTC
* ** *
13612261 CTGATTAATGGCTCTCCGGAGCTTCCCGA-T-ATGGCTCGCT-TGAACTTC
1 CCGATT-ATGGCTCTTTGGAGCTTCCCGATTAAAGGCTCGCTGTGAACTTC
* *
13612309 CCGATATATGGCTATTTGGAGCTACCCG-TTATAA-GCTCGC
1 CCGAT-TATGGCTCTTTGGAGCTTCCCGATTA-AAGGCTCGC
13612349 ACAAGTTTCC
Statistics
Matches: 71, Mismatches: 12, Indels: 12
0.75 0.13 0.13
Matches are distributed among these distances:
48 29 0.41
49 15 0.21
50 2 0.03
51 16 0.23
52 9 0.13
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.32
Consensus pattern (50 bp):
CCGATTATGGCTCTTTGGAGCTTCCCGATTAAAGGCTCGCTGTGAACTTC
Found at i:13615005 original size:9 final size:9
Alignment explanation
Indices: 13614991--13615015 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13614981 AACCATTCAA
13614991 TCATTCATT
1 TCATTCATT
13615000 TCATTCATT
1 TCATTCATT
13615009 TCATTCA
1 TCATTCA
13615016 AAATAATCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (9 bp):
TCATTCATT
Found at i:13618251 original size:2 final size:2
Alignment explanation
Indices: 13618246--13618276 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
13618236 TGTGAAAGTC
13618246 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13618277 TCTGAAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:13618681 original size:39 final size:39
Alignment explanation
Indices: 13618638--13618731 Score: 152
Period size: 39 Copynumber: 2.4 Consensus size: 39
13618628 AAAGACCCGT
* *
13618638 AGGCTATATGCTGGAATTATACCCGGACTTAAGGTCCGC
1 AGGCTATGTGCTGGAATTATAACCGGACTTAAGGTCCGC
*
13618677 AGGCTATGTGCTGGAATTATAATCGGACTTAAGGTCCGC
1 AGGCTATGTGCTGGAATTATAACCGGACTTAAGGTCCGC
*
13618716 AGGCTACGTGCTGGAA
1 AGGCTATGTGCTGGAA
13618732 ATATGTCCGG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 51 1.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.26
Consensus pattern (39 bp):
AGGCTATGTGCTGGAATTATAACCGGACTTAAGGTCCGC
Found at i:13622260 original size:53 final size:54
Alignment explanation
Indices: 13622174--13622381 Score: 193
Period size: 53 Copynumber: 3.9 Consensus size: 54
13622164 TTCTTTTTTT
* ** * *
13622174 AAACTTACCATTGCCATATCTTGACATGGTCTTACGTGGTATCCCTGCCTTATG
1 AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * * * *
13622228 -AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
* ** * ** * *
13622282 TAGTTTATCAATGCCATGTTTTGACATGGTCTTACATGGTTTCCTTGCCTTGTG
1 AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * * * *
13622336 AAACTTAACAATGTCATGCCTTGGCATTGTCTTACTTGGTATCCTT
1 AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
13622382 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 31, Indels: 4
0.78 0.20 0.03
Matches are distributed among these distances:
53 44 0.36
54 37 0.31
55 40 0.33
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (54 bp):
AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:13636118 original size:40 final size:40
Alignment explanation
Indices: 13636048--13636225 Score: 288
Period size: 40 Copynumber: 4.5 Consensus size: 40
13636038 AAACCAAGTA
* * * *
13636048 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
13636087 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
13636127 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
13636167 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
13636207 CCTTCGGGACTTAACCCGG
1 CCTTCGGGACTTAGCCCGG
13636226 TTATCATCCG
Statistics
Matches: 132, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 14 0.11
40 118 0.89
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:13647071 original size:8 final size:8
Alignment explanation
Indices: 13647058--13647087 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
13647048 AATTAAGGGA
13647058 AAAATTGC
1 AAAATTGC
13647066 AAAATTGC
1 AAAATTGC
13647074 AAAATTGC
1 AAAATTGC
13647082 AAAATT
1 AAAATT
13647088 TACTTAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.53, C:0.10, G:0.10, T:0.27
Consensus pattern (8 bp):
AAAATTGC
Found at i:13649242 original size:19 final size:16
Alignment explanation
Indices: 13649200--13649259 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 16
13649190 TATTCATTTC
13649200 AATTCAA-ATAATCAATA
1 AATTCAATATAAT--ATA
*
13649217 TATTCAATATATATATA
1 AATTCAATATA-ATATA
13649234 TCAATTCAAT-TAATATA
1 --AATTCAATATAATATA
13649251 AATTCAATA
1 AATTCAATA
13649260 AATTCATCAC
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
15 8 0.22
17 14 0.39
18 5 0.14
19 9 0.25
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTCAATATAATATA
Found at i:13650058 original size:16 final size:15
Alignment explanation
Indices: 13650033--13650067 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
13650023 TTCTTTCTTT
13650033 TATTATTATATAATA
1 TATTATTATATAATA
13650048 TATTATATATATAATA
1 TATTAT-TATATAATA
13650064 TATT
1 TATT
13650068 TACTTAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATTATTATATAATA
Found at i:13651411 original size:17 final size:17
Alignment explanation
Indices: 13651366--13651416 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
13651356 ATTATAATAT
** *
13651366 TTTATTAATTTTAAATA
1 TTTATTAATAATAAAAA
*
13651383 TTT-TTAAAAATAAAAA
1 TTTATTAATAATAAAAA
13651399 TTTATTAATAATATAAAA
1 TTTATTAATAATA-AAAA
13651417 AATTGAGCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 12 0.44
17 11 0.41
18 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTATTAATAATAAAAA
Found at i:13654764 original size:29 final size:28
Alignment explanation
Indices: 13654722--13654805 Score: 107
Period size: 28 Copynumber: 3.0 Consensus size: 28
13654712 CACTTTGTGC
*
13654722 TATTCTAGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
13654751 TATTCTGGTTTG-TTTGGAAGGATTATAT
1 TATTCTGGTGTGTTTTGG-AGGATTATAT
* *
13654779 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
13654806 CTGGTGTGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
28 32 0.67
29 16 0.33
ACGTcount: A:0.21, C:0.04, G:0.27, T:0.48
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:13655061 original size:21 final size:21
Alignment explanation
Indices: 13655037--13655095 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
13655027 CGTATTTTAG
13655037 GCACCTTGTGTGTCGTATCAA
1 GCACCTTGTGTGTCGTATCAA
* * * *
13655058 GCACCTCGTGTATCGTTTCAG
1 GCACCTTGTGTGTCGTATCAA
*
13655079 GCA-CTTATGTGTCGTAT
1 GCACCTTGTGTGTCGTAT
13655096 ACTGATCAGG
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
20 10 0.33
21 20 0.67
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.36
Consensus pattern (21 bp):
GCACCTTGTGTGTCGTATCAA
Found at i:13656335 original size:46 final size:48
Alignment explanation
Indices: 13656177--13656345 Score: 152
Period size: 46 Copynumber: 3.5 Consensus size: 48
13656167 TGGTTGGACC
*
13656177 ATGGCATCA-A-TATGATATGTGA-TCTGTGTAAGACCATAGCTGGGCT
1 ATGGCATCAGAGTGTGATATGTGATTC-GTGTAAGACCATAGCTGGGCT
* * * * *
13656223 ATGGCATCAGAGATATGTGATTACGTGCTTCCGTATAAGACCATATCTGGGAT
1 ATGGCATCAGAG---TGTGA-TATGTGATT-CGTGTAAGACCATAGCTGGGCT
*
13656276 ATGGCATC--AGTGTGATATGTGATTCGTGTAAGACCATGGCTGGGCT
1 ATGGCATCAGAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
* *
13656322 ATGGC-TACGGTGTGTGATATGTGA
1 ATGGCAT-CAGAGTGTGATATGTGA
13656346 CTATGTACAA
Statistics
Matches: 99, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
45 1 0.01
46 33 0.33
47 8 0.08
48 18 0.18
51 6 0.06
52 5 0.05
53 27 0.27
54 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (48 bp):
ATGGCATCAGAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
Found at i:13673198 original size:14 final size:15
Alignment explanation
Indices: 13673181--13673213 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
13673171 CAATGAGAAC
*
13673181 AACAAAGACAAAA-A
1 AACAAACACAAAAGA
13673195 AACAAACACAAAAGA
1 AACAAACACAAAAGA
13673210 AACA
1 AACA
13673214 TTTTTAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.76, C:0.18, G:0.06, T:0.00
Consensus pattern (15 bp):
AACAAACACAAAAGA
Found at i:13673658 original size:17 final size:17
Alignment explanation
Indices: 13673636--13673668 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13673626 AAGCTTATTG
13673636 TTTTTTTAGTTTTTTAA
1 TTTTTTTAGTTTTTTAA
*
13673653 TTTTTTTATTTTTTTA
1 TTTTTTTAGTTTTTTA
13673669 CTTAGTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTTTAGTTTTTTAA
Found at i:13676148 original size:13 final size:12
Alignment explanation
Indices: 13676132--13676174 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
13676122 ATAATATATT
*
13676132 ATTTTATAATTTT
1 ATTTT-TAATTTA
*
13676145 ATTTTTTATTTA
1 ATTTTTAATTTA
13676157 ATATTTTAATTTA
1 AT-TTTTAATTTA
13676170 ATTTT
1 ATTTT
13676175 AATAATGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
ATTTTTAATTTA
Found at i:13676308 original size:154 final size:153
Alignment explanation
Indices: 13676002--13676308 Score: 327
Period size: 154 Copynumber: 2.0 Consensus size: 153
13675992 GTTTTTAAAA
* * *
13676002 AATATTTTAATTTAATTTTAACAATGCATACTTTATCCGGATGAAGTATGTATTAGCAGATTCAG
1 AATATTTTAATTTAATTTTAACAATGCATACTTTATCCGGATGAAGTACGCATTAGCAGATTCAC
* *****
13676067 TAATATGATTATATATATACGCATGTATCACATTATAATAATTTTTATTTCCCAAATAATATATT
66 TAATATGATTATATATATACGCATGTATCACATTACAATAAACAAAATTT-CCAAATAATATATT
** * *** *
13676132 ATTTTATAATTTTATTTTTTATTT
130 ACCTAATAATAACATTTCTTATTT
* * *
13676156 AATATTTTAATTTAATTTTAATAATGCATATTTTATTCGGATGAAGTACGCATTAGCAGATTCAC
1 AATATTTTAATTTAATTTTAACAATGCATACTTTATCCGGATGAAGTACGCATTAGCAGATTCAC
* *
13676221 TAATATGATTATATATATATACACGCATGTATCACATTACAA-AAACAAAATTT-TAAATACT-T
66 TAATATGA-T-TATATATAT--ACGCATGTATCACATTACAATAAACAAAATTTCCAAATAATAT
13676283 A-TACCTAATAA-AACATGTATCTTATT
127 ATTACCTAATAATAACAT-T-TCTTATT
13676309 ACAATAATAG
Statistics
Matches: 126, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
152 2 0.02
153 8 0.06
154 75 0.60
155 7 0.06
156 9 0.07
157 6 0.05
158 19 0.15
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (153 bp):
AATATTTTAATTTAATTTTAACAATGCATACTTTATCCGGATGAAGTACGCATTAGCAGATTCAC
TAATATGATTATATATATACGCATGTATCACATTACAATAAACAAAATTTCCAAATAATATATTA
CCTAATAATAACATTTCTTATTT
Found at i:13677312 original size:3 final size:3
Alignment explanation
Indices: 13677304--13677341 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
13677294 AAGAGGTCTC
13677304 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
13677342 ATATGTGTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:13686853 original size:32 final size:32
Alignment explanation
Indices: 13686812--13686876 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
13686802 AAGAAGCAAA
13686812 ACCTACTACGAACACTGAGAATGCGGTAAAGG
1 ACCTACTACGAACACTGAGAATGCGGTAAAGG
13686844 ACCTACTACGAACACTGAGAATGCGGTAAAGG
1 ACCTACTACGAACACTGAGAATGCGGTAAAGG
13686876 A
1 A
13686877 AGAAACAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.22, G:0.25, T:0.15
Consensus pattern (32 bp):
ACCTACTACGAACACTGAGAATGCGGTAAAGG
Found at i:13690735 original size:16 final size:19
Alignment explanation
Indices: 13690687--13690748 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 19
13690677 TTTAGTCATA
13690687 TAATAAATTATTAATATAAT
1 TAATAAATTATTAATAT-AT
13690707 TAATATAATTTATT-AT-T-T
1 TAATA-AA-TTATTAATATAT
*
13690725 TAATAAATTATTTAATATTT
1 TAATAAATTA-TTAATATAT
13690745 TAAT
1 TAAT
13690749 TATATTTTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
16 3 0.08
17 4 0.11
18 8 0.22
19 1 0.03
20 11 0.31
21 4 0.11
22 5 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TAATAAATTATTAATATAT
Found at i:13690818 original size:15 final size:15
Alignment explanation
Indices: 13690798--13690854 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
13690788 ATTCAATATT
13690798 AATATTTTAATAATA
1 AATATTTTAATAATA
*
13690813 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
13690832 AATATATTAATAATA
1 AATATTTTAATAATA
13690847 AATATTTT
1 AATATTTT
13690855 GTAATATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 18 0.53
16 1 0.03
17 2 0.06
18 2 0.06
19 11 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:13696243 original size:16 final size:16
Alignment explanation
Indices: 13696207--13696246 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
13696197 GAATTACATT
*
13696207 TTAATTATATTATTATA
1 TTAATT-TATAATTATA
*
13696224 TTAATTTATAATTTTA
1 TTAATTTATAATTATA
13696240 TTAATTT
1 TTAATTT
13696247 CAAAAAGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTAATTTATAATTATA
Found at i:13697990 original size:29 final size:29
Alignment explanation
Indices: 13697957--13698016 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
13697947 TAATACTAAC
* *
13697957 TTATAACACTATTAAAATA-AATGATTAAA
1 TTATAACA-AATTAAAATATAAGGATTAAA
**
13697986 TTATATTAAATTAAAATATAAGGATTAAA
1 TTATAACAAATTAAAATATAAGGATTAAA
13698015 TT
1 TT
13698017 TTAAATTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.38
Consensus pattern (29 bp):
TTATAACAAATTAAAATATAAGGATTAAA
Found at i:13698405 original size:30 final size:30
Alignment explanation
Indices: 13698371--13698430 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
13698361 GGTAGGTGGT
13698371 GAAATAGATTTATTTTCATACCTCTAATTA
1 GAAATAGATTTATTTTCATACCTCTAATTA
13698401 GAAATAGATTTATTTTCATACCTCTAATTA
1 GAAATAGATTTATTTTCATACCTCTAATTA
13698431 AGGGGTCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (30 bp):
GAAATAGATTTATTTTCATACCTCTAATTA
Found at i:13702363 original size:4 final size:4
Alignment explanation
Indices: 13702349--13702395 Score: 58
Period size: 4 Copynumber: 11.5 Consensus size: 4
13702339 TCTACTTCGT
* * *
13702349 TTTA CTTA TTTA TTTA TTTA TTTA TTTTG TTTA ATTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TT
13702396 ATTAATTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
4 33 0.92
5 3 0.08
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:13702890 original size:3 final size:3
Alignment explanation
Indices: 13702864--13702904 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
13702854 ATTTACTTAT
* *
13702864 TTA TTA TT- TTA TTT TTA TGA -TA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13702905 CATCATTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 3 0.09
3 29 0.91
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13703656 original size:136 final size:137
Alignment explanation
Indices: 13703410--13703662 Score: 318
Period size: 136 Copynumber: 1.9 Consensus size: 137
13703400 TTTGAAAATC
* * * *
13703410 GGCAATATTTCGCATTTAGGAAATTCGAGAAATCGTACTCTAACTTATGGGGTCTCGATTTTCTC
1 GGCAATATTCCGCATTTAGGAAACTCGAGAAATCGTACCCTAACTTACGGGGTCTCGATTTTCTC
*** *
13703475 GTTAAACCTAAATAGTCGAATATCCCTTCAAATTTCAAAATACATGA-ATTTTAATTTTAAACAA
66 GTTAAACCTAAATAAAAGAATATCCCTTCAAATTTCAAAACACATGAGATTTTAATTTTAAACAA
13703539 AAATAAA
131 AAATAAA
* *
13703546 GGCAATATTCCGTATTTA-GAAACTCGAGAAAGTCGTGCCCTAACTTACGGGGTCTCGATTCTTT
1 GGCAATATTCCGCATTTAGGAAACTCGAGAAA-TCGTACCCTAACTTACGGGGTCTCGA-T-TTT
** *
13703610 CTCGTTGGATCTAAATAAAAGAATAT-CCTTCTAAA-TT-AAAACACATGAGATTT
63 CTCGTTAAACCTAAATAAAAGAATATCCCTTC-AAATTTCAAAACACATGAGATTT
13703663 CAAAAATAAA
Statistics
Matches: 99, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
135 12 0.12
136 49 0.49
137 12 0.12
138 26 0.26
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (137 bp):
GGCAATATTCCGCATTTAGGAAACTCGAGAAATCGTACCCTAACTTACGGGGTCTCGATTTTCTC
GTTAAACCTAAATAAAAGAATATCCCTTCAAATTTCAAAACACATGAGATTTTAATTTTAAACAA
AAATAAA
Found at i:13708320 original size:10 final size:10
Alignment explanation
Indices: 13708305--13708392 Score: 72
Period size: 10 Copynumber: 8.4 Consensus size: 10
13708295 TTCACTTCCT
*
13708305 AAAAAAAATA
1 AAAAAAAAGA
13708315 AAAAAAACA-A
1 AAAAAAA-AGA
13708325 AAAAACAAA-A
1 AAAAA-AAAGA
*
13708335 AAACAAAAGA
1 AAAAAAAAGA
13708345 AAAAGAAAAGA
1 AAAA-AAAAGA
*
13708356 AAAGAAAAGA
1 AAAAAAAAGA
13708366 AAAGAACAAAGA
1 AAA-AA-AAAGA
*
13708378 AAAATAAGAGA
1 AAAA-AAAAGA
13708389 AAAA
1 AAAA
13708393 GAGGCCGCCA
Statistics
Matches: 66, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
9 3 0.05
10 32 0.48
11 22 0.33
12 9 0.14
ACGTcount: A:0.83, C:0.05, G:0.10, T:0.02
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:13708326 original size:7 final size:8
Alignment explanation
Indices: 13708315--13708342 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
13708305 AAAAAAAATA
13708315 AAAAAAAC
1 AAAAAAAC
13708323 AAAAAAAC
1 AAAAAAAC
13708331 AAAAAAAC
1 AAAAAAAC
13708339 AAAA
1 AAAA
13708343 GAAAAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:13708353 original size:5 final size:5
Alignment explanation
Indices: 13708334--13708371 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
13708324 AAAAAACAAA
*
13708334 AAAAC AAAAG AAAAAG AAAAG AAAAG AAAAG AAAAG AA
1 AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AA
13708372 CAAAGAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:13708353 original size:16 final size:16
Alignment explanation
Indices: 13708314--13708368 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
13708304 TAAAAAAAAT
13708314 AAAA-AAAACAAAA-A
1 AAAAGAAAACAAAAGA
*
13708328 AACAAAAAAACAAAAGA
1 AA-AAGAAAACAAAAGA
*
13708345 AAAAGAAAAGAAAAG-
1 AAAAGAAAACAAAAGA
13708360 AAAAGAAAA
1 AAAAGAAAA
13708369 GAACAAAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
14 2 0.06
15 11 0.31
16 20 0.56
17 3 0.08
ACGTcount: A:0.85, C:0.05, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAGAAAACAAAAGA
Found at i:13708365 original size:15 final size:16
Alignment explanation
Indices: 13708334--13708391 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
13708324 AAAAAACAAA
*
13708334 AAAACAAAAGAAAAAG
1 AAAAGAAAAGAAAAAG
13708350 AAAAGAAAAG-AAAAG
1 AAAAGAAAAGAAAAAG
*
13708365 AAAAGAACAAAGAAAAAT
1 AAAAG-A-AAAGAAAAAG
*
13708383 AAGAGAAAA
1 AAAAGAAAA
13708392 AGAGGCCGCC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 10 0.28
16 13 0.36
17 5 0.14
18 8 0.22
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.02
Consensus pattern (16 bp):
AAAAGAAAAGAAAAAG
Found at i:13708380 original size:33 final size:34
Alignment explanation
Indices: 13708326--13708391 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 34
13708316 AAAAAACAAA
13708326 AAAACAAAAAAACAAAAGAAAAAGAAAAGAAAAG
1 AAAACAAAAAAACAAAAGAAAAAGAAAAGAAAAG
* * * *
13708360 AAAAGAAAAGAAC-AAAGAAAAATAAGAGAAAA
1 AAAACAAAAAAACAAAAGAAAAAGAAAAGAAAA
13708392 AGAGGCCGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 17 0.61
34 11 0.39
ACGTcount: A:0.80, C:0.05, G:0.14, T:0.02
Consensus pattern (34 bp):
AAAACAAAAAAACAAAAGAAAAAGAAAAGAAAAG
Found at i:13708386 original size:26 final size:25
Alignment explanation
Indices: 13708324--13708391 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 25
13708314 AAAAAAAACA
*
13708324 AAAAAACAAAAAAACAAAAGAAAAAG
1 AAAAAA-AAGAAAACAAAAGAAAAAG
*
13708350 AAAAGAAAAGAAAAGAAAAGAACAAAG
1 AAAA-AAAAGAAAACAAAAGAA-AAAG
13708377 AAAAATAAGAGAAAA
1 AAAAA-AA-AGAAAA
13708392 AGAGGCCGCC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
26 18 0.50
27 12 0.33
28 6 0.17
ACGTcount: A:0.81, C:0.04, G:0.13, T:0.01
Consensus pattern (25 bp):
AAAAAAAAGAAAACAAAAGAAAAAG
Found at i:13711724 original size:143 final size:143
Alignment explanation
Indices: 13711453--13711725 Score: 334
Period size: 143 Copynumber: 1.9 Consensus size: 143
13711443 AAGATGGCGG
* * * * *
13711453 ATCTTATCTTTCTGAAGTTGCAGTGGAGGAGATTGAGGCCATCAGCCTTATCTCCCTGAAGTTGC
1 ATCTTATCTTTCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC
* * * ** *
13711518 AGCGGAGCAGACTGAAGACAGTAAACATTGTTTCCCTGATACCGCAGTGGAACAGATTAAAGCTA
66 AGCGAAACAGACTAAAGACAGTAAACATCATTTCCCTGATACCGCAGTGGAACAGATGAAAGCTA
13711583 CAAATTATAGCGA
131 CAAATTATAGCGA
*
13711596 ATCTTATCTTTCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTTAAAGTTGC
1 ATCTTATCTTTCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC
* * * * ** * *
13711661 TGCGAAATAGACTAAAGATAGTGAATC-TCATTTCCCTGA-AGTTGCAGTGGAGCAGATGGAAGC
66 AGCGAAACAGACTAAAGACAGT-AAACATCATTTCCCTGATA-CCGCAGTGGAACAGATGAAAGC
13711724 TA
129 TA
13711726 TGAGTTACGA
Statistics
Matches: 108, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
142 1 0.01
143 104 0.96
144 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (143 bp):
ATCTTATCTTTCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC
AGCGAAACAGACTAAAGACAGTAAACATCATTTCCCTGATACCGCAGTGGAACAGATGAAAGCTA
CAAATTATAGCGA
Found at i:13711966 original size:143 final size:143
Alignment explanation
Indices: 13711739--13712115 Score: 531
Period size: 143 Copynumber: 2.6 Consensus size: 143
13711729 GTTACGAACC
* * * * *
13711739 TTATCTCCCTAAAGTTACAGTGGAGGAGACTAAAGATAGTGAATCTTATTTCATTGACGTTGTAA
1 TTATCTCCCTAAAGTTACAGCGGAGCAGACTGAAGATAGTGAATCTTATTTCCTTGACGTTGTAG
* * *
13711804 TGAAATAGATTAAAACTACAAATTATGGCGGATCTTAT-CTTCTTGAAGTTGCAGTGAAGCAGAT
66 TGGAATAGATTAAAGCTACAAATTATGGCAGATCTTATCCTT-TTGAAGTTGCAGTGAAGCAGAT
* *
13711868 TGAAGCCACCAGCT
130 TGAAGCCACCAACA
* * * *
13711882 TTATCTCCCTGAAGTTGCAGCAGAGTAGACTGAAGATAGTGAATCTTATTTCCTTGACGTTGTAG
1 TTATCTCCCTAAAGTTACAGCGGAGCAGACTGAAGATAGTGAATCTTATTTCCTTGACGTTGTAG
* * *
13711947 TGGAATAGATTAAAGCTACAAATTATGGCAGATTTTATCCTTTTGAAGTTGCAGTGGAGTAGATT
66 TGGAATAGATTAAAGCTACAAATTATGGCAGATCTTATCCTTTTGAAGTTGCAGTGAAGCAGATT
13712012 GAAGCCACCAACA
131 GAAGCCACCAACA
* * ** *
13712025 TTATCTCCCTAAAGTTACAGCGGAGCAGATTGAAGACAACGAATCTTATTTCCTTGACGTTGCAG
1 TTATCTCCCTAAAGTTACAGCGGAGCAGACTGAAGATAGTGAATCTTATTTCCTTGACGTTGTAG
*
13712090 TGGAACAGATTAAAGCTACAAATTAT
66 TGGAATAGATTAAAGCTACAAATTAT
13712116 AGAAATCTTA
Statistics
Matches: 207, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
143 204 0.99
144 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.31
Consensus pattern (143 bp):
TTATCTCCCTAAAGTTACAGCGGAGCAGACTGAAGATAGTGAATCTTATTTCCTTGACGTTGTAG
TGGAATAGATTAAAGCTACAAATTATGGCAGATCTTATCCTTTTGAAGTTGCAGTGAAGCAGATT
GAAGCCACCAACA
Found at i:13713660 original size:4 final size:4
Alignment explanation
Indices: 13713646--13713692 Score: 58
Period size: 4 Copynumber: 11.5 Consensus size: 4
13713636 TCTACTTCGT
* * *
13713646 TTTA CTTA TTTA TTTA TTTA TTTA TTTTG TTTA GTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TT
13713693 ATTAATTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
4 33 0.92
5 3 0.08
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:13714055 original size:21 final size:21
Alignment explanation
Indices: 13714029--13714069 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13714019 TTTAAGTTAA
*
13714029 TATTATTTTTATTTTTATATC
1 TATTATTTATATTTTTATATC
*
13714050 TATTATTTATCTTTTTATAT
1 TATTATTTATATTTTTATAT
13714070 TTAAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (21 bp):
TATTATTTATATTTTTATATC
Found at i:13714170 original size:8 final size:7
Alignment explanation
Indices: 13714157--13714230 Score: 50
Period size: 6 Copynumber: 10.6 Consensus size: 7
13714147 TATATGTGTT
13714157 TTATTTA
1 TTATTTA
13714164 CTTATTTA
1 -TTATTTA
13714172 TTATTTTA
1 TTA-TTTA
13714180 TT-TTTA
1 TTATTTA
*
13714186 TGATATTA
1 TTAT-TTA
13714194 TTACTATTA
1 TTA-T-TTA
13714203 TTA-TTA
1 TTATTTA
13714209 TTA-TTA
1 TTATTTA
*
13714215 -TAATTA
1 TTATTTA
13714221 TTATTT-
1 TTATTTA
13714227 TTAT
1 TTAT
13714231 CATTAAAAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
5 2 0.04
6 21 0.37
7 8 0.14
8 18 0.32
9 8 0.14
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (7 bp):
TTATTTA
Found at i:13714195 original size:3 final size:3
Alignment explanation
Indices: 13714169--13714235 Score: 66
Period size: 3 Copynumber: 23.0 Consensus size: 3
13714159 ATTTACTTAT
* * *
13714169 TTA TTA TT- TTA TTT TTA TGA -TA TTA TTA CTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
13714215 TAA TTA TTA TTT TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA
13714236 AAAAAAACAA
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
2 3 0.06
3 47 0.94
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:13718296 original size:39 final size:39
Alignment explanation
Indices: 13718250--13718350 Score: 132
Period size: 39 Copynumber: 2.6 Consensus size: 39
13718240 GCTCTGATGA
* *
13718250 GCTTCAGTTAGCCTTCGGGATT-TCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCT-GTTTAGCACTTATGT
*
13718289 GCTTCAGTTTGCCTTCGGGCTTCTGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTATGT
** *
13718328 GCTTCAACTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
13718351 AGATCACGAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 53 0.98
40 1 0.02
ACGTcount: A:0.13, C:0.24, G:0.24, T:0.40
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTATGT
Found at i:13718331 original size:21 final size:20
Alignment explanation
Indices: 13718274--13718333 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 20
13718264 TCGGGATTTC
13718274 GTTTAGCACTTGTGTGCTTCA
1 GTTTAGCACTT-TGTGCTTCA
* * *
13718295 GTTT-GC-CTTCGGGCTTCT
1 GTTTAGCACTTTGTGCTTCA
13718313 GTTTAGCACTTATGTGCTTCA
1 GTTTAGCACTT-TGTGCTTCA
13718334 ACTAGACTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
18 10 0.33
19 5 0.17
20 5 0.17
21 10 0.33
ACGTcount: A:0.12, C:0.22, G:0.23, T:0.43
Consensus pattern (20 bp):
GTTTAGCACTTTGTGCTTCA
Found at i:13723526 original size:10 final size:10
Alignment explanation
Indices: 13723499--13723558 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
13723489 TGAAATTCTA
13723499 AAAGATAAAT
1 AAAGATAAAT
13723509 ACAA-ATAAAT
1 A-AAGATAAAT
*
13723519 AAAGATAATT
1 AAAGATAAAT
13723529 AAAGATAAAT
1 AAAGATAAAT
*
13723539 GAAGATAAAT
1 AAAGATAAAT
13723549 GAAA-ATAAAT
1 -AAAGATAAAT
13723559 CCTAGAATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.05
10 37 0.86
11 4 0.09
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:13724194 original size:8 final size:8
Alignment explanation
Indices: 13724181--13724223 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
13724171 TACCTCATTC
13724181 TTCTTTTT
1 TTCTTTTT
13724189 TTCTTTTT
1 TTCTTTTT
*
13724197 TT-TCCTTT
1 TTCT-TTTT
13724205 TTCTTTTT
1 TTCTTTTT
13724213 TTCTCTTTT
1 TTCT-TTTT
13724222 TT
1 TT
13724224 ATTCTATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
7 1 0.03
8 22 0.73
9 7 0.23
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (8 bp):
TTCTTTTT
Found at i:13724198 original size:9 final size:9
Alignment explanation
Indices: 13724184--13724242 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
13724174 CTCATTCTTC
13724184 TTTTTTTCT
1 TTTTTTTCT
13724193 TTTTTTTC-
1 TTTTTTTCT
*
13724201 -CTTTTTCT
1 TTTTTTTCT
13724209 TTTTTTCTCT
1 TTTTTT-TCT
13724219 TTTTTATTCT
1 TTTTT-TTCT
* *
13724229 ATTTATTTAT
1 -TTTTTTTCT
13724239 TTTT
1 TTTT
13724243 ACTTAGGAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
7 6 0.15
9 15 0.38
10 14 0.35
11 5 0.12
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:13724220 original size:16 final size:16
Alignment explanation
Indices: 13724181--13724222 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
13724171 TACCTCATTC
*
13724181 TTCTTTTTTTCTTTTT
1 TTCTCTTTTTCTTTTT
13724197 TT-TCCTTTTTCTTTTT
1 TTCT-CTTTTTCTTTTT
13724213 TTCTCTTTTT
1 TTCTCTTTTT
13724223 TATTCTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 1 0.04
16 21 0.91
17 1 0.04
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTCTCTTTTTCTTTTT
Found at i:13725088 original size:12 final size:12
Alignment explanation
Indices: 13725071--13725124 Score: 65
Period size: 12 Copynumber: 4.3 Consensus size: 12
13725061 GCATCCAAAA
13725071 AAAATAATAAAT
1 AAAATAATAAAT
13725083 AAAATAATAAAT
1 AAAATAATAAAT
*
13725095 AGTAA-AATAAAT
1 A-AAATAATAAAT
13725107 AAAATAAAATAAAT
1 AAAAT--AATAAAT
13725121 AAAA
1 AAAA
13725125 AAATTAGGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
11 2 0.06
12 21 0.58
13 2 0.06
14 11 0.31
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (12 bp):
AAAATAATAAAT
Found at i:13725111 original size:9 final size:9
Alignment explanation
Indices: 13725076--13725128 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
13725066 CAAAAAAAAT
13725076 AATAAATAA
1 AATAAATAA
13725085 AAT-AAT-A
1 AATAAATAA
*
13725092 AAT-AGTAA
1 AATAAATAA
13725100 AATAAATAA
1 AATAAATAA
13725109 AATAAA-ATA
1 AATAAATA-A
13725118 AATAAA-AA
1 AATAAATAA
13725126 AAT
1 AAT
13725129 TAGGTTGCCT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
7 6 0.15
8 12 0.31
9 21 0.54
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (9 bp):
AATAAATAA
Found at i:13728849 original size:20 final size:20
Alignment explanation
Indices: 13728826--13728865 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13728816 TGAAATTCTA
*
13728826 AAAGATAAATACAAATAAAT
1 AAAGATAAATAAAAATAAAT
*
13728846 AAAGATAATTAAAAATAAAT
1 AAAGATAAATAAAAATAAAT
13728866 CCTAGAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:13731993 original size:9 final size:9
Alignment explanation
Indices: 13731979--13732012 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
13731969 TATAAATATA
13731979 TTATTATTG
1 TTATTATTG
13731988 TTATTATTG
1 TTATTATTG
13731997 TTATTATTG
1 TTATTATTG
13732006 TTATTAT
1 TTATTAT
13732013 ATTACAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (9 bp):
TTATTATTG
Found at i:13733676 original size:18 final size:18
Alignment explanation
Indices: 13733655--13733709 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
13733645 ACTGCTACGA
*
13733655 AATAATTGACTGTTATTG
1 AATAAATGACTGTTATTG
* *
13733673 AATAAATGACTGATACTG
1 AATAAATGACTGTTATTG
* *
13733691 AATAAATGAATATTATTG
1 AATAAATGACTGTTATTG
13733709 A
1 A
13733710 TTAACCGATT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (18 bp):
AATAAATGACTGTTATTG
Found at i:13736855 original size:39 final size:39
Alignment explanation
Indices: 13736797--13736873 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 39
13736787 TGGGGTTTCA
* ** *
13736797 GTTTAGCTCTGATGAGCTTCAGTTAGCCTTCGGGCTTCC
1 GTTTAGCACTGATGAGCTTCAACTAGACTTCGGGCTTCC
* *
13736836 GTTTAGCACTTATGTGCTTCAACTAGACTTCGGGCTTC
1 GTTTAGCACTGATGAGCTTCAACTAGACTTCGGGCTTC
13736874 AGACCACGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (39 bp):
GTTTAGCACTGATGAGCTTCAACTAGACTTCGGGCTTCC
Found at i:13746453 original size:40 final size:40
Alignment explanation
Indices: 13746393--13746616 Score: 279
Period size: 40 Copynumber: 5.5 Consensus size: 40
13746383 TATTTGGATG
* *
13746393 ATATTCGGGCTAAGTCCCGAAGGTATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
13746433 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
13746476 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
13746516 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
13746556 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
13746596 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
13746617 ATACTTGGGT
Statistics
Matches: 161, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 13 0.08
40 111 0.69
41 1 0.01
43 36 0.22
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:13746537 original size:83 final size:80
Alignment explanation
Indices: 13746398--13746616 Score: 282
Period size: 83 Copynumber: 2.7 Consensus size: 80
13746388 GGATGATATT
* * **
13746398 CGGGCTAAGTCCCGAAGGTATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCAT
13746463 GCGAGTAGTTG-CCATACC
66 GC---TAG-TGACCATACC
*
13746481 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCAT
* *
13746546 GCTAGTGACTATATC
66 GCTAGTGACCATACC
* * *
13746561 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
13746617 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
79 16 0.13
80 44 0.35
81 2 0.02
83 62 0.50
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCAT
GCTAGTGACCATACC
Found at i:13749281 original size:42 final size:42
Alignment explanation
Indices: 13749218--13749392 Score: 178
Period size: 42 Copynumber: 4.0 Consensus size: 42
13749208 CTTCGTTTTC
** * *
13749218 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
* *
13749261 T-GATGCCATAGCCTAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
13749302 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT---AT-TCACATA
*
13749351 TCGATGCCATAACCCAGCTAT-GTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
13749391 TC
1 TC
13749393 TCACTGATGC
Statistics
Matches: 114, Mismatches: 10, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
40 9 0.08
41 2 0.02
42 62 0.54
43 1 0.01
45 2 0.02
46 1 0.01
48 11 0.10
49 26 0.23
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:13749473 original size:47 final size:46
Alignment explanation
Indices: 13749304--13749470 Score: 201
Period size: 47 Copynumber: 3.6 Consensus size: 46
13749294 TTCATATATC
* * *
13749304 GATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATAT
1 GATGCCATATCCCAGATATGGTCTTACACGT-ATCACATATCACA-CT
* * * *
13749352 CGATGCCATAACCCAGCTAT-GTCTTACACGAATCACATATCTCACT
1 -GATGCCATATCCCAGATATGGTCTTACACGTATCACATATCACACT
* * *
13749398 GATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACACT
1 GATGCCATATCCCAGATATGGTCTTACAC-GTATCACATATCACACT
13749445 GATGCCATATCCCAGATATGGTCTTA
1 GATGCCATATCCCAGATATGGTCTTA
13749471 TACGGAAATC
Statistics
Matches: 105, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
45 17 0.16
46 9 0.09
47 51 0.49
48 10 0.10
49 18 0.17
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (46 bp):
GATGCCATATCCCAGATATGGTCTTACACGTATCACATATCACACT
Found at i:13749527 original size:31 final size:31
Alignment explanation
Indices: 13749492--13749609 Score: 155
Period size: 31 Copynumber: 3.8 Consensus size: 31
13749482 CTTGTCACTT
* * *
13749492 GTAGCTGAAACTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
13749523 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
13749554 GTAGCCGGAGCAACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
13749585 GTAGCAGAAGCTATCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
13749610 TGTCATTTGT
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:13749684 original size:50 final size:51
Alignment explanation
Indices: 13749592--13749713 Score: 219
Period size: 50 Copynumber: 2.4 Consensus size: 51
13749582 CAGGTAGCAG
*
13749592 AAGCTATCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCA
1 AAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCA
*
13749643 AAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGTGTAGCCG
1 AAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCA
13749693 AAGCTATCACTTATCACTTGT
1 AAGCTATCACTTATCACTTGT
13749714 TGCCATGGTC
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
50 49 0.72
51 19 0.28
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (51 bp):
AAGCTATCACTTATCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCA
Found at i:13751861 original size:20 final size:23
Alignment explanation
Indices: 13751822--13751872 Score: 74
Period size: 20 Copynumber: 2.4 Consensus size: 23
13751812 AGATATAAAT
13751822 GTTTTTAAAATAATAATTG-TTA
1 GTTTTTAAAATAATAATTGTTTA
13751844 GTTTTTAAAA-AA-AATTGTTTA
1 GTTTTTAAAATAATAATTGTTTA
13751865 -TTTTTAAA
1 GTTTTTAAA
13751873 TATTTTCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 13 0.46
21 5 0.18
22 10 0.36
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (23 bp):
GTTTTTAAAATAATAATTGTTTA
Found at i:13752275 original size:19 final size:17
Alignment explanation
Indices: 13752251--13752290 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
13752241 ATTTAATTTG
13752251 TATTATTTGTAGTTCTAAT
1 TATTATTTGTA-TT-TAAT
*
13752270 TATTATTTTTATTTAAT
1 TATTATTTGTATTTAAT
13752287 TATT
1 TATT
13752291 TTTTAGGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 2 0.10
19 10 0.50
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (17 bp):
TATTATTTGTATTTAAT
Found at i:13753214 original size:51 final size:51
Alignment explanation
Indices: 13753150--13753285 Score: 155
Period size: 51 Copynumber: 2.7 Consensus size: 51
13753140 TGGAAACATG
*
13753150 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* * * ** * * ** *
13753201 ATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGTA
1 ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* *
13753252 ATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 ATCTTAAAAGATATGATATTATAATCTTAGAGAT
13753286 TTGATGGTAG
Statistics
Matches: 66, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (51 bp):
ATCTTAAAAGATATGATATTATAATCTTAGAGATCTTAGATAAGATATGGA
Found at i:13755142 original size:96 final size:96
Alignment explanation
Indices: 13754969--13755255 Score: 441
Period size: 96 Copynumber: 3.0 Consensus size: 96
13754959 GTGTCCGAGG
* * * * * *
13754969 AAGTTTGTTATCGATGGGAATGATCGAGCAGATACGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTTATCGAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
*
13755034 AAAAGCCGAAGCCAAGAGGGTAAAGAGGAGC
66 TAAAGCCGAAGCCAAGAGGGTAAAGAGGAGC
*
13755065 AAGTCTGTCATCGAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTTATCGAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
* *
13755130 TAAAGACGAAGCCAAGAGGGCAAAGAGGAGC
66 TAAAGCCGAAGCCAAGAGGGTAAAGAGGAGC
* *
13755161 AACTCTGTTATCGCAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTTATCGAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
*
13755226 TAAAGCCGAAACCAAGAGGGCT-AAGAGGAG
66 TAAAGCCGAAGCCAAGAGGG-TAAAGAGGAG
13755256 AAAAAAGAAG
Statistics
Matches: 174, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
96 174 1.00
ACGTcount: A:0.35, C:0.17, G:0.34, T:0.13
Consensus pattern (96 bp):
AAGTCTGTTATCGAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
TAAAGCCGAAGCCAAGAGGGTAAAGAGGAGC
Found at i:13756229 original size:51 final size:51
Alignment explanation
Indices: 13756165--13756300 Score: 146
Period size: 51 Copynumber: 2.7 Consensus size: 51
13756155 TGGAAACATG
*
13756165 ATCTTAAAAGATATAATATTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTAAAAGATATAATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* * * ** * * ** *
13756216 ATCTTATAAGATATTATTTTATAAGATTACATATCTTATCTAAGATATGTA
1 ATCTTAAAAGATATAATATTATAATCTTAGAGATCTTAGATAAGATATGGA
* * *
13756267 ATCTTAGAAGATATGATATTATATTCTTAGAGAT
1 ATCTTAAAAGATATAATATTATAATCTTAGAGAT
13756301 TTGATGGTAG
Statistics
Matches: 66, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (51 bp):
ATCTTAAAAGATATAATATTATAATCTTAGAGATCTTAGATAAGATATGGA
Found at i:13757747 original size:19 final size:19
Alignment explanation
Indices: 13757723--13757761 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
13757713 CTCAGCAGTA
13757723 AGTTTTAATAAAAATGTTT
1 AGTTTTAATAAAAATGTTT
13757742 AGTTTTAATAAAAATGTTT
1 AGTTTTAATAAAAATGTTT
13757761 A
1 A
13757762 CTCTAATCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (19 bp):
AGTTTTAATAAAAATGTTT
Found at i:13757768 original size:18 final size:19
Alignment explanation
Indices: 13757728--13757768 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
13757718 CAGTAAGTTT
* *
13757728 TAATAAAAATGTTTAGTTT
1 TAATAAAAATGTTTAGCTC
13757747 TAATAAAAATGTTTA-CTC
1 TAATAAAAATGTTTAGCTC
13757765 TAAT
1 TAAT
13757769 CAACAGGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (19 bp):
TAATAAAAATGTTTAGCTC
Found at i:13761733 original size:2 final size:2
Alignment explanation
Indices: 13761721--13761753 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
13761711 ATTAAGTTAT
*
13761721 TA TA T- TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13761754 ATGGTTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13762878 original size:48 final size:48
Alignment explanation
Indices: 13762823--13763100 Score: 297
Period size: 48 Copynumber: 5.8 Consensus size: 48
13762813 ATTTGGGTGA
* *
13762823 TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACATTGT
1 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGT
* * * *
13762871 TATGTGAGCCAGTGTAAGACCATGTCTAGGACATTGCATCGGCATTGT
1 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGT
* ** * ** *
13762919 TATGTGAGCTAGTGTAAGACCATGTTTGAAACATGGCATTGATGTTGA
1 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGT
* * ***
13762967 TATGTGTGCTAGTGTAAGACCATGTCTGGGACATGACATCGACAACAT
1 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGT
* * * * **
13763015 T-TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGTATCGGCCTTAA
1 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGT
* * * *
13763062 CATGTGAACTAGTGTAAGACCACGTCTGGGCCATGGCAT
1 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
13763101 TGGTAAATTA
Statistics
Matches: 187, Mismatches: 42, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
47 37 0.20
48 150 0.80
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (48 bp):
TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGT
Found at i:13763628 original size:30 final size:30
Alignment explanation
Indices: 13763592--13763706 Score: 126
Period size: 30 Copynumber: 3.8 Consensus size: 30
13763582 ACTTTTCTCA
* * *
13763592 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAAATCC
13763622 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTCTCCACCACCAAATCC
** * *
13763652 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-CTCCACCACCAAATCC
*
13763682 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-CTCCACCACCA
13763707 CTTGTACCTA
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
29 3 0.04
30 70 0.96
ACGTcount: A:0.27, C:0.48, G:0.04, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTCTCCACCACCAAATCC
Found at i:13764240 original size:23 final size:23
Alignment explanation
Indices: 13764203--13764332 Score: 72
Period size: 23 Copynumber: 5.5 Consensus size: 23
13764193 CCTTTTTTGT
13764203 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
13764226 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
13764248 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* *
13764271 TATTACGTATATATATATT-ATACTA
1 TATTA--TATATAT-TCTTAATATTA
* *
13764296 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
13764321 TATTATTTATAT
1 TATTATATATAT
13764333 ATATATATTT
Statistics
Matches: 81, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
21 3 0.04
22 15 0.19
23 26 0.32
24 6 0.07
25 26 0.32
26 2 0.02
27 3 0.04
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:13764296 original size:25 final size:26
Alignment explanation
Indices: 13764268--13764338 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 26
13764258 ATTTTAAATT
*
13764268 CTATATTACGTATATATATATT-ATA
1 CTATATTATGTATATATATATTAATA
* *
13764293 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATTAATA
* *
13764318 TTATATTATTTATATATATAT
1 CTATATTATGTATATATATAT
13764339 ATTTTTTACA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
24 2 0.05
25 34 0.92
26 1 0.03
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.55
Consensus pattern (26 bp):
CTATATTATGTATATATATATTAATA
Found at i:13764381 original size:27 final size:27
Alignment explanation
Indices: 13764289--13764389 Score: 71
Period size: 27 Copynumber: 3.6 Consensus size: 27
13764279 ATATATATAT
* *
13764289 TATACTATTTTATGTATATATCTTTAATAT
1 TATATTATTTTATGTATATATC-TT-A-AC
* * *
13764319 TATATTATTTATATATATATATTTTTTAC
1 TATATTATTT-TATGTATATA-TCTTAAC
* *
13764348 -ATGTTATCTTATGTATATATCTTAAC
1 TATATTATTTTATGTATATATCTTAAC
*
13764374 TATATTA-TGTATGTAT
1 TATATTATTTTATGTAT
13764390 TTTTAACACT
Statistics
Matches: 55, Mismatches: 13, Indels: 10
0.71 0.17 0.13
Matches are distributed among these distances:
26 12 0.22
27 14 0.25
28 7 0.13
29 1 0.02
30 9 0.16
31 11 0.20
32 1 0.02
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.56
Consensus pattern (27 bp):
TATATTATTTTATGTATATATCTTAAC
Found at i:13764382 original size:22 final size:24
Alignment explanation
Indices: 13764356--13764414 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
13764346 ACATGTTATC
13764356 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
13764378 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
13764403 TTATGTACATAT
1 TTATGTATATAT
13764415 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:13764404 original size:25 final size:25
Alignment explanation
Indices: 13764372--13764420 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
13764362 ATATATCTTA
**
13764372 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
13764397 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
13764421 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:13764600 original size:16 final size:15
Alignment explanation
Indices: 13764576--13764623 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
13764566 TAATTATTAT
*
13764576 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
13764592 TATTTTAATATTTTA
1 TATTTTAATATTTTA
13764607 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
13764623 T
1 T
13764624 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:13764611 original size:7 final size:8
Alignment explanation
Indices: 13764576--13764627 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
13764566 TAATTATTAT
*
13764576 TATTCTAA
1 TATTTTAA
*
13764584 TATTTTGA
1 TATTTTAA
13764592 TATTTTAA
1 TATTTTAA
13764600 TATTTT-A
1 TATTTTAA
13764607 TATTTTATA
1 TATTTTA-A
*
13764616 TATTTTAT
1 TATTTTAA
13764624 TATT
1 TATT
13764628 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:13768356 original size:15 final size:17
Alignment explanation
Indices: 13768336--13768369 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13768326 ATAAATAGAC
13768336 AAAAT-ATTAA-AATTA
1 AAAATAATTAATAATTA
13768351 AAAATAATTAATAATTA
1 AAAATAATTAATAATTA
13768368 AA
1 AA
13768370 TAAAAAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 5 0.29
17 7 0.41
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATAATTAATAATTA
Found at i:13770402 original size:121 final size:121
Alignment explanation
Indices: 13770123--13770461 Score: 452
Period size: 121 Copynumber: 2.8 Consensus size: 121
13770113 ATCGAGGTGG
** * * * * *
13770123 TTACATGTTTGAATTATCTTTTGGCTTTCAAGATAAGTTC-CTTCTTAAAATATTATGCTTGTGA
1 TTACATGTTTGAACAATC-TTTAGCTTTCGAGATAAGTTCGATT-TTAAAATGTTATGCATGTGA
*
13770187 GTTTGCTTCTCTGCCTGTGCTTCTTGTTCGGT-TTTGCTTACTCTAAAATTGAGGCGA
64 GTTTGCTTCTCTGCCTGTGCTTCTTGTTCGGTATTTGCTGACTCTAAAATTGAGGCGA
* *
13770244 TTACATGTTTGAACAATCTTTAGCTTTTGAGATAAGTTCGATTTTAAAATGTTATGCGTGTGAGT
1 TTACATGTTTGAACAATCTTTAGCTTTCGAGATAAGTTCGATTTTAAAATGTTATGCATGTGAGT
* * * *
13770309 TTGCATCTCTGCCAAG-GCTTCTTGTTCGGTATTTTCTGACTCTAGAATTGA-GCTGA
66 TTGCTTCTCTGCC-TGTGCTTCTTGTTCGGTATTTGCTGACTCTAAAATTGAGGC-GA
* * *
13770365 TTACATGTTTGAACAATCTTTAGCTTTCGAGATAAGTTTGGTTTTAAAATGTTATTCATGTGAGT
1 TTACATGTTTGAACAATCTTTAGCTTTCGAGATAAGTTCGATTTTAAAATGTTATGCATGTGAGT
*
13770430 TTGCTTCTCTGCCTGTGCTTCTTGTTCAGTAT
66 TTGCTTCTCTGCCTGTGCTTCTTGTTCGGTAT
13770462 AGATTGCCAT
Statistics
Matches: 192, Mismatches: 21, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
120 67 0.35
121 125 0.65
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.44
Consensus pattern (121 bp):
TTACATGTTTGAACAATCTTTAGCTTTCGAGATAAGTTCGATTTTAAAATGTTATGCATGTGAGT
TTGCTTCTCTGCCTGTGCTTCTTGTTCGGTATTTGCTGACTCTAAAATTGAGGCGA
Found at i:13773912 original size:2 final size:2
Alignment explanation
Indices: 13773905--13773935 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13773895 CCCATTACTC
13773905 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13773936 GCTTCTGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13779506 original size:25 final size:25
Alignment explanation
Indices: 13779449--13779654 Score: 90
Period size: 25 Copynumber: 8.3 Consensus size: 25
13779439 CTTTTCATTT
13779449 ATGGCTCTTATGAGCTT-CTCGA-TA
1 ATGGCTCTTATGAGCTTCCT-GATTA
**
13779473 ACTTACTCTTATGAGCTTCCTGATTA
1 A-TGGCTCTTATGAGCTTCCTGATTA
**
13779499 ATGGCTCTCCTGAGCTTCCTGA-TA
1 ATGGCTCTTATGAGCTTCCTGATTA
* * * * *
13779523 TTGACTCACT-TGAACTTCTTGATTA
1 ATGGCTC-TTATGAGCTTCCTGATTA
* **
13779548 AAGGCTCTTTCATGAGCTTCCCAATTA
1 ATGGCTC-TT-ATGAGCTTCCTGATTA
**
13779575 ATGGCTC-TCGGAGCTT-CTCGA-TA
1 ATGGCTCTTATGAGCTTCCT-GATTA
* *
13779598 TTGGCTCATATGAGCTTTCC-G-TTA
1 ATGGCTCTTATGAGC-TTCCTGATTA
** *
13779622 CATGGCTCACATGAGCTTCCCG-TTA
1 -ATGGCTCTTATGAGCTTCCTGATTA
13779647 TATGGCTC
1 -ATGGCTC
13779655 AAAAGAGCTT
Statistics
Matches: 136, Mismatches: 32, Indels: 27
0.70 0.16 0.14
Matches are distributed among these distances:
23 9 0.07
24 37 0.27
25 67 0.49
26 6 0.04
27 17 0.12
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (25 bp):
ATGGCTCTTATGAGCTTCCTGATTA
Found at i:13779655 original size:25 final size:25
Alignment explanation
Indices: 13779558--13779664 Score: 94
Period size: 25 Copynumber: 4.4 Consensus size: 25
13779548 AAGGCTCTTT
* *
13779558 CATGAGCTTCCCAATTA-ATGGCTCT
1 CATGAGCTTCCC-GTTATATGGCTCA
* * *
13779583 C-GGAGCTTCTCGATAT-TGGCTCA
1 CATGAGCTTCCCGTTATATGGCTCA
* * *
13779606 TATGAGCTTTCCGTTACATGGCTCA
1 CATGAGCTTCCCGTTATATGGCTCA
13779631 CATGAGCTTCCCGTTATATGGCTCA
1 CATGAGCTTCCCGTTATATGGCTCA
* *
13779656 AAAGAGCTT
1 CATGAGCTT
13779665 TCTGTTTATG
Statistics
Matches: 63, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
23 8 0.13
24 18 0.29
25 37 0.59
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (25 bp):
CATGAGCTTCCCGTTATATGGCTCA
Found at i:13781547 original size:51 final size:50
Alignment explanation
Indices: 13781457--13781556 Score: 123
Period size: 51 Copynumber: 1.9 Consensus size: 50
13781447 AGAAATGGTG
13781457 AAATAGAGAAATAGGAAATATTTGGAAATAATTAAGGTTTTATCCAAAATGA
1 AAATAGAGAAATA-GAAATATTTGGAAATAATT-AGGTTTTATCCAAAATGA
* *
13781509 AAATGGAGAAAT-GAAATCATTTGGAAATGAATGT-GGTTTTCTCCAAAA
1 AAATAGAGAAATAGAAAT-ATTTGGAAAT-AAT-TAGGTTTTATCCAAAA
13781557 AAAAATAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
50 5 0.12
51 23 0.53
52 14 0.33
53 1 0.02
ACGTcount: A:0.46, C:0.06, G:0.19, T:0.29
Consensus pattern (50 bp):
AAATAGAGAAATAGAAATATTTGGAAATAATTAGGTTTTATCCAAAATGA
Found at i:13783434 original size:15 final size:15
Alignment explanation
Indices: 13783414--13783443 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13783404 GAGTCGATTT
*
13783414 GACTACAACCGGTTC
1 GACTACAACCAGTTC
13783429 GACTACAACCAGTTC
1 GACTACAACCAGTTC
13783444 AATCTAAGCT
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:0.33, G:0.17, T:0.20
Consensus pattern (15 bp):
GACTACAACCAGTTC
Found at i:13792395 original size:20 final size:19
Alignment explanation
Indices: 13792367--13792423 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
13792357 ATCTGTTCTA
13792367 ATTAATATAAATATATTTT
1 ATTAATATAAATATATTTT
*
13792386 ATTAAATATATAA-ATATTAAT
1 ATT-AATATA-AATATATT-TT
13792407 ATTAATATAAAT-TATTT
1 ATTAATATAAATATATTT
13792424 ATTGAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
19 9 0.28
20 17 0.53
21 6 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTAATATAAATATATTTT
Found at i:13800080 original size:28 final size:29
Alignment explanation
Indices: 13800011--13800080 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 29
13800001 ATAACTCTTG
* * *
13800011 ATTTTAGAATTTAAAGTGTTAAGTTTAAT
1 ATTTTAGTATTTAAAATGTTAAGTTTAAA
* *
13800040 ATTTAAAGT-TTTAAAAT-TTGAGTTTAAA
1 ATTT-TAGTATTTAAAATGTTAAGTTTAAA
13800068 ATTTTAGTATTTA
1 ATTTTAGTATTTA
13800081 TTTACCATTA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
27 3 0.09
28 17 0.52
29 11 0.33
30 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (29 bp):
ATTTTAGTATTTAAAATGTTAAGTTTAAA
Found at i:13800673 original size:24 final size:26
Alignment explanation
Indices: 13800610--13800673 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
13800600 TATAGTGACT
13800610 AGTTTTTAAAAGAAGATATGGATGGG
1 AGTTTTTAAAAGAAGATATGGATGGG
*
13800636 AGTTTTTAAAAGAAGATATGG-TTGG
1 AGTTTTTAAAAGAAGATATGGATGGG
*
13800661 -GTTTTTAATAGAA
1 AGTTTTTAAAAGAA
13800674 AGTCAATTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 12 0.33
25 3 0.08
26 21 0.58
ACGTcount: A:0.38, C:0.00, G:0.27, T:0.36
Consensus pattern (26 bp):
AGTTTTTAAAAGAAGATATGGATGGG
Found at i:13804301 original size:31 final size:31
Alignment explanation
Indices: 13804266--13804333 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
13804256 AAAAAAAACC
*
13804266 CAGTGATTTAAATAAAAATTTTCAAATAATT
1 CAGTGATTTAAATAAAAACTTTCAAATAATT
* *
13804297 CAGTGGTTTAAATGAAAACTTTCAAATAATT
1 CAGTGATTTAAATAAAAACTTTCAAATAATT
*
13804328 AAGTGA
1 CAGTGA
13804334 CTATTTTGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (31 bp):
CAGTGATTTAAATAAAAACTTTCAAATAATT
Found at i:13811256 original size:17 final size:18
Alignment explanation
Indices: 13811234--13811267 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
13811224 TATTGAGGGA
13811234 TTTGGGGAA-GTAAAAGT
1 TTTGGGGAAGGTAAAAGT
13811251 TTTGGGGAAGGTAAAAG
1 TTTGGGGAAGGTAAAAG
13811268 GAAAAAAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.35, C:0.00, G:0.38, T:0.26
Consensus pattern (18 bp):
TTTGGGGAAGGTAAAAGT
Found at i:13813715 original size:19 final size:19
Alignment explanation
Indices: 13813691--13813743 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
13813681 TGATGATAAC
13813691 TTTTAATGTTTAATTTGAG
1 TTTTAATGTTTAATTTGAG
13813710 TTTTAATGTTTAATTTGAG
1 TTTTAATGTTTAATTTGAG
*
13813729 TTTTAA-GGTTAATTT
1 TTTTAATGTTTAATTT
13813744 AATAAAAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 8 0.24
19 25 0.76
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.58
Consensus pattern (19 bp):
TTTTAATGTTTAATTTGAG
Done.