Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 71 of 128
Found at i:23074268 original size:25 final size:24
Alignment explanation
Indices: 23074240--23074301 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
23074230 AATAAAGATA
*
23074240 AAATATTTAAATCCAAATATTTTAC
1 AAATATTAAAAT-CAAATATTTTAC
** *
23074265 AAATTAAAAAAATCAAATATTTTGC
1 AAA-TATTAAAATCAAATATTTTAC
*
23074290 AAATATTCAAAT
1 AAATATTAAAAT
23074302 TTTACTCTAC
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
24 6 0.21
25 17 0.59
26 6 0.21
ACGTcount: A:0.53, C:0.10, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATATTAAAATCAAATATTTTAC
Found at i:23078896 original size:7 final size:7
Alignment explanation
Indices: 23078884--23078910 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
23078874 ATTTCATATT
23078884 AATTTTA
1 AATTTTA
23078891 AATTTTA
1 AATTTTA
23078898 AATTTTA
1 AATTTTA
23078905 AATTTT
1 AATTTT
23078911 TTTTATAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
AATTTTA
Found at i:23083502 original size:25 final size:25
Alignment explanation
Indices: 23083474--23083528 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
23083464 TCATTAAGTC
*
23083474 AATTAATATATA-TTTTAAAATAATT
1 AATTAATATAAATTTTTAAAA-AATT
**
23083499 AATTTTTATAAATTTTTAAAAAATT
1 AATTAATATAAATTTTTAAAAAATT
23083524 -ATTAA
1 AATTAA
23083529 AATTTTAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
24 3 0.12
25 13 0.54
26 8 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
AATTAATATAAATTTTTAAAAAATT
Found at i:23083547 original size:20 final size:19
Alignment explanation
Indices: 23083507--23083550 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
23083497 TTAATTTTTA
* *
23083507 TAAATTTTTAAAAAATTAT
1 TAAAATTTTAAAAAATAAT
23083526 TAAAATTTTAAAAAATAAAT
1 TAAAATTTTAAAAAAT-AAT
23083546 TAAAA
1 TAAAA
23083551 ATTAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAATTTTAAAAAATAAT
Found at i:23083555 original size:19 final size:19
Alignment explanation
Indices: 23083514--23083555 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
23083504 TTATAAATTT
* *
23083514 TTAAAAAATTATTAAAATT
1 TTAAAAAATAATTAAAATA
23083533 TTAAAAAATAAATTAAAA-A
1 TTAAAAAAT-AATTAAAATA
23083552 TTAA
1 TTAA
23083556 TATAAAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TTAAAAAATAATTAAAATA
Found at i:23083872 original size:19 final size:20
Alignment explanation
Indices: 23083836--23083873 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23083826 TTTTTTTGAA
**
23083836 ATTTTTAAACTTTAATTAAT
1 ATTTTTAAAAGTTAATTAAT
23083856 ATTTTTAAAAGTT-ATTAA
1 ATTTTTAAAAGTTAATTAA
23083874 AAACATTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (20 bp):
ATTTTTAAAAGTTAATTAAT
Found at i:23085112 original size:43 final size:43
Alignment explanation
Indices: 23085065--23085372 Score: 359
Period size: 43 Copynumber: 7.2 Consensus size: 43
23085055 TAAATAATGT
* *
23085065 CGCTAAAGATCATGACCTTTAGCGGCGCATTTCTCACAAACGC
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGC
* * * *
23085108 CGCTAAAGACCAAGACCTTTAGCAGCGCTTTAAC-CACAAACGC
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTT-TCTCACAAACGC
** * * *
23085151 CATTAAAGACCAAGACCTTTAGCGGCGCTTTTCTCACAAATGC
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGC
* * *
23085194 CGCTAAAGACCAAGACCTTTAGCGGCGCTTTAAC-CACAAACGC
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTT-TCTCACAAACGC
* * *
23085237 CGCTATAGAACATGAGCTTTAGCGGCGCTTTTCCCACAAACGC
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGC
* * * *
23085280 CGCTATAGAACATGAGCTTTAGCGGCGCTTTTCCCACAACCGC
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGC
* * *
23085323 CGCTAAAGAACATGATCTTTAGCGACGCTTTTATCACAAACGC
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGC
*
23085366 AGCTAAA
1 CGCTAAA
23085373 AATACAACTC
Statistics
Matches: 234, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
42 2 0.01
43 230 0.98
44 2 0.01
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (43 bp):
CGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGC
Found at i:23085170 original size:86 final size:86
Alignment explanation
Indices: 23085065--23085372 Score: 418
Period size: 86 Copynumber: 3.6 Consensus size: 86
23085055 TAAATAATGT
* *
23085065 CGCTAAAGATCATGACCTTTAGCGGCGCATTTCTCACAAACGCCGCTAAAGACCAAGACCTTTAG
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCAAGACCTTTAG
*
23085130 CAGCGCTTTAACCACAAACGC
66 CGGCGCTTTAACCACAAACGC
** * * *
23085151 CATTAAAGACCAAGACCTTTAGCGGCGCTTTTCTCACAAATGCCGCTAAAGACCAAGACCTTTAG
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCAAGACCTTTAG
23085216 CGGCGCTTTAACCACAAACGC
66 CGGCGCTTTAACCACAAACGC
* * * * * * *
23085237 CGCTATAGAACATGAGCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACATGAGCTTTAG
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCAAGACCTTTAG
** *
23085302 CGGCGCTTTTCCCACAACCGC
66 CGGCGCTTTAACCACAAACGC
* * * *
23085323 CGCTAAAGAACATGATCTTTAGCGACGCTTTTATCACAAACGCAGCTAAA
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAA
23085373 AATACAACTC
Statistics
Matches: 193, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
86 193 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (86 bp):
CGCTAAAGAACATGACCTTTAGCGGCGCTTTTCTCACAAACGCCGCTAAAGACCAAGACCTTTAG
CGGCGCTTTAACCACAAACGC
Found at i:23085386 original size:129 final size:128
Alignment explanation
Indices: 23085065--23085413 Score: 380
Period size: 129 Copynumber: 2.7 Consensus size: 128
23085055 TAAATAATGT
* * * *
23085065 CGCTAAAGATCATGACCTTTAGCGGCGCATTTCTCACAAACGCCGCTAAAGACCAAGACCTTTAG
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAAC-AGACCTTTAG
* * * * *
23085130 CAGCGCTTTAACCACAAACGCCATTAAAGACCAAGACCTTTAGCGGCGCTTTTCTCACAAATGC
65 CGGCGCTTTAACCACAAACGCCACTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCACAAACGC
* * * * * *
23085194 CGCTAAAGACCAAGACCTTTAGCGGCGCTTTAACCACAAACGCCGCTATAGAACATGAGCTTTAG
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACA-GACCTTTAG
** * * * * *
23085259 CGGCGCTTTTCCCACAAACGCCGCTATAGAACATGAGCTTTAGCGGCGCTTTTCCCACAACCGC
65 CGGCGCTTTAACCACAAACGCCACTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCACAAACGC
* * * *
23085323 CGCTAAAGAACATGATCTTTAGCGACGCTTTTATCACAAACGCAGCTAAAAATACA-ACTCTTTA
1 CGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGA-ACAGAC-CTTTA
* *
23085387 GCGGCG-TTTATA-GAAAAACGCCACTAA
64 GCGGCGCTTTA-ACCACAAACGCCACTAA
23085414 TTTTAACAAA
Statistics
Matches: 179, Mismatches: 37, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
128 16 0.09
129 160 0.89
130 3 0.02
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (128 bp):
CGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACAGACCTTTAGC
GGCGCTTTAACCACAAACGCCACTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCACAAACGC
Found at i:23086370 original size:40 final size:40
Alignment explanation
Indices: 23086307--23086390 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
23086297 TAGCTTGAAC
* * *
23086307 ATCAACACTTCAATATTTAATATGTAAGGAATTATCAAAA
1 ATCAACACTTCAATATTTAATATGCAAGAAATTAACAAAA
* *
23086347 ATCAACATTTCAATAATTT-ATATGCAAGAAATTAACACAA
1 ATCAACACTTCAAT-ATTTAATATGCAAGAAATTAACAAAA
23086387 ATCA
1 ATCA
23086391 TGTATAATGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
40 34 0.89
41 4 0.11
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (40 bp):
ATCAACACTTCAATATTTAATATGCAAGAAATTAACAAAA
Found at i:23086519 original size:46 final size:45
Alignment explanation
Indices: 23086450--23087040 Score: 813
Period size: 46 Copynumber: 12.9 Consensus size: 45
23086440 TATAATGTAT
23086450 TCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCC
1 TCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCC
* * *
23086495 ATTCGCTGCCAAGTACAGGAAGACAAGATCTGCTATCCTCGATCTCC
1 -TCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATC-CC
**
23086542 TCCGCTGCCAAATACAGGAAGATGAGATCTGCTATCTTCGATCCCC
1 TCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGAT-CCC
*
23086588 TCCACTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCC
1 TCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCC
* * *
23086633 TTCCGCTGCCAAATAAAGGTAGACAAGATCTGATATCTTCGATCTCC
1 -TCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATC-CC
* * *
23086680 TCCGCTACCAAATACATGAAGACAAGATATGCTATCTTCGATCCC
1 TCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCC
* *
23086725 TTCCGCTGCCAAATACAGGAAGACAAGATCTACTATATTCGATCCC
1 -TCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCC
* **
23086771 ATCCGCTGCCAAATATAGGAAGACAAGATCTAATATCTTCGATCCC
1 -TCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCC
* *
23086817 TTCCGCTGCCAAAGATAGGAAGACAAGATCTGCTATCTTCGATCTCC
1 -TCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATC-CC
* *
23086864 TCCCCTGCCAAATACAGGAAGACAAGATCAGCTATCTTCGATCGCC
1 TCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATC-CC
* *
23086910 TTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCCTCGATCTCC
1 TCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATC-CC
** * *
23086956 TCCGCTGCCAAATACATAAAGATAAGATCTACTATCTTCGATCCCC
1 TCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGAT-CCC
* *
23087002 TCTGGTGCCAAATACAGGAAGACAAGATCTGCTATCTTC
1 TCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTC
23087041 NNNNNNNNNN
Statistics
Matches: 482, Mismatches: 56, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
45 5 0.01
46 469 0.97
47 8 0.02
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (45 bp):
TCCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCCC
Found at i:23091656 original size:41 final size:41
Alignment explanation
Indices: 23091592--23091702 Score: 114
Period size: 41 Copynumber: 2.7 Consensus size: 41
23091582 TGTTTTTGCA
* * * * * *
23091592 GCGCTTTTTCAAAAACACTGCTAAAGCCCTGAACATTAGTG
1 GCGCTTCTTGAAAAACGCCGCTAAAGCCCTGAACACTAGCG
* ** *
23091633 GCGCTTCTTGGAAAACGCCGCTAAAGATCTGAGCACTAGCG
1 GCGCTTCTTGAAAAACGCCGCTAAAGCCCTGAACACTAGCG
* *
23091674 GCGCTTTTTTAAAAACGCCGCTAAAGCCC
1 GCGCTTCTTGAAAAACGCCGCTAAAGCCC
23091703 CGAAAGGTAG
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (41 bp):
GCGCTTCTTGAAAAACGCCGCTAAAGCCCTGAACACTAGCG
Found at i:23093404 original size:14 final size:14
Alignment explanation
Indices: 23093385--23093414 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
23093375 TTAGAGAACT
23093385 AGATTATGCAATTA
1 AGATTATGCAATTA
23093399 AGATTATGCAATTA
1 AGATTATGCAATTA
23093413 AG
1 AG
23093415 CCCTGGATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (14 bp):
AGATTATGCAATTA
Found at i:23098672 original size:108 final size:108
Alignment explanation
Indices: 23098470--23098686 Score: 373
Period size: 108 Copynumber: 2.0 Consensus size: 108
23098460 ACATTAGCAT
23098470 TTGGCCAAAGCAACCTTCCACAAAGATCACCTCGTAAGAGATTTCAAGACTATCAGCAGCCAAGG
1 TTGGCCAAAGCAACCTTCCACAAAGATCACCTCGTAAGAGATTTCAAGACTATCAGCAGCCAAGG
*
23098535 ACCATCAACAACCAAGGACTAGTTGAGAACTCCAAACCCGACA
66 ACCATCAACAACCAAGGACCAGTTGAGAACTCCAAACCCGACA
*
23098578 TTGGCCAAAGCAACCTTCCACAAAGATCACCTCGTAAGAGATTTCAAGACTATCAGCAGTCAAGG
1 TTGGCCAAAGCAACCTTCCACAAAGATCACCTCGTAAGAGATTTCAAGACTATCAGCAGCCAAGG
* * *
23098643 ACCATTAACAACCCAA-GACCAGTTTAGAACTCCAAACCTGACA
66 ACCATCAACAA-CCAAGGACCAGTTGAGAACTCCAAACCCGACA
23098686 T
1 T
23098687 AACACCAATA
Statistics
Matches: 103, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
108 99 0.96
109 4 0.04
ACGTcount: A:0.38, C:0.29, G:0.16, T:0.18
Consensus pattern (108 bp):
TTGGCCAAAGCAACCTTCCACAAAGATCACCTCGTAAGAGATTTCAAGACTATCAGCAGCCAAGG
ACCATCAACAACCAAGGACCAGTTGAGAACTCCAAACCCGACA
Found at i:23104648 original size:12 final size:13
Alignment explanation
Indices: 23104626--23104656 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
23104616 GATATGAAAT
23104626 AAAAACAAAAAAA
1 AAAAACAAAAAAA
23104639 AAAAACAAAAAAA
1 AAAAACAAAAAAA
23104652 AAAAA
1 AAAAA
23104657 GGTTAGTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAACAAAAAAA
Found at i:23107011 original size:2 final size:2
Alignment explanation
Indices: 23107006--23107050 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
23106996 TTTGCTCAAT
* *
23107006 TC TC TC TT TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
23107048 TC T
1 TC T
23107051 TGCTGTAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:23108247 original size:15 final size:15
Alignment explanation
Indices: 23108200--23108247 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
23108190 AAAATATATA
23108200 TTTATATTATTTTAAT
1 TTTATA-TATTTTAAT
*
23108216 TTTATAT-TTAATAAT
1 TTTATATATT-TTAAT
*
23108231 TTTATATATTTTTAT
1 TTTATATATTTTAAT
23108246 TT
1 TT
23108248 ATTAAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
14 2 0.07
15 17 0.63
16 8 0.30
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTATATATTTTAAT
Found at i:23111814 original size:44 final size:44
Alignment explanation
Indices: 23111761--23111856 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 44
23111751 ATATTACTTT
* * *
23111761 AATCCGCTCCACTACGACTTCAGGGAGATAGGATTATCAGCTCC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTATCAGCTCC
* ** * *
23111805 AATTTGCTCCACTGTAACTTCAGGGAGATAAGATTATCGGCTTC
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGATTATCAGCTCC
23111849 AATCTGCT
1 AATCTGCT
23111857 TCTTTACACT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (44 bp):
AATCTGCTCCACTACAACTTCAGGGAGATAAGATTATCAGCTCC
Found at i:23112027 original size:132 final size:132
Alignment explanation
Indices: 23111869--23112194 Score: 444
Period size: 132 Copynumber: 2.5 Consensus size: 132
23111859 TTTACACTTG
* * *
23111869 AAGATAAGATTTGCCGTC-TTGAATCTGCTCCGCTACTACTTAGGGAGACAAGATCTG-TAAT-T
1 AAGATAAGATTTGTCGTCTTTG-ATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGCT-ATCT
* * * *
23111931 TCCAACCTATTCCACTGCTGAC-CAGGGGGACAAGGCTCGGTGACTTAAATCTGCTTCCTACTAT
64 T-CAACCTACTCCACTGCTG-CTCAGGGAGACAAGGCTCGATGACTTAAATCTGCTTCCCACTAT
23111995 CCTGGA
127 CCTGGA
* *
23112001 AAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGGTCTGCTATCTTC
1 AAGATAAGATTTGTCGTCTTTGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGCTATCTTC
** * * * *
23112066 AACCTACTCTGCTGCTGCTCAGGGAGACTAGGTTCGATGGCTTAAATCTGCTTCCCACTATCTTG
66 AACCTACTCCACTGCTGCTCAGGGAGACAAGGCTCGATGACTTAAATCTGCTTCCCACTATCCTG
23112131 GA
131 GA
*
23112133 AAGATAAGATTTGTCGTCTTTGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTACTATC
1 AAGATAAGATTTGTCGTCTTTGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGCTATC
23112195 CTTACTGATC
Statistics
Matches: 172, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
131 1 0.01
132 165 0.96
133 6 0.03
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.31
Consensus pattern (132 bp):
AAGATAAGATTTGTCGTCTTTGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGCTATCTTC
AACCTACTCCACTGCTGCTCAGGGAGACAAGGCTCGATGACTTAAATCTGCTTCCCACTATCCTG
GA
Found at i:23112050 original size:44 final size:44
Alignment explanation
Indices: 23112002--23112186 Score: 112
Period size: 44 Copynumber: 4.2 Consensus size: 44
23111992 TATCCTGGAA
*
23112002 AGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGGG
* * * * * * ** * *
23112046 AGATAAGGTCTG-CTATCTTCAACCTACTCTGCTGCTGCTCAGGG
1 AGATAAGATTTGTC-GTCTTTAATCTGCTCCACTACTGCTTAGGG
* * * * *
23112090 AGACT-AGGTTCGAT-GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGA-TAAGATTTG-TCGTCTTTAATCTGC-T-CCACTACTGCTTAGG-G
* *
23112134 AGATAAGATTTGTCGTCTTTGATCTGCTCCGCTACTGCTTAGGG
1 AGATAAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGGG
23112178 AGATAAGAT
1 AGATAAGAT
23112187 CTACTATCCT
Statistics
Matches: 99, Mismatches: 30, Indels: 24
0.65 0.20 0.16
Matches are distributed among these distances:
42 5 0.05
43 7 0.07
44 79 0.80
45 5 0.05
46 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.33
Consensus pattern (44 bp):
AGATAAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGGG
Found at i:23113041 original size:17 final size:18
Alignment explanation
Indices: 23113021--23113058 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
23113011 TATTTTCAAG
* *
23113021 AATAACATATTCAATA-A
1 AATAAAATATGCAATACA
23113038 AATAAAATATGCAATACA
1 AATAAAATATGCAATACA
23113056 AAT
1 AAT
23113059 CAAGAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.61, C:0.11, G:0.03, T:0.26
Consensus pattern (18 bp):
AATAAAATATGCAATACA
Found at i:23120788 original size:25 final size:24
Alignment explanation
Indices: 23120750--23120804 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
23120740 TTCCTGATAT
* *
23120750 ATGGCTATCCGGAGCTTCCCGATTA
1 ATGGCTATCAGGAGCTACCCG-TTA
*
23120775 ATGGCTATTAGGAGCTACCCGTTA
1 ATGGCTATCAGGAGCTACCCGTTA
*
23120799 TTGGCT
1 ATGGCT
23120805 CGCATGAGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.20, C:0.24, G:0.25, T:0.31
Consensus pattern (24 bp):
ATGGCTATCAGGAGCTACCCGTTA
Found at i:23124156 original size:17 final size:17
Alignment explanation
Indices: 23124131--23124165 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
23124121 TAGAATTGGG
* *
23124131 TTGAGAAAATTATTTAA
1 TTGAAAAAATAATTTAA
23124148 TTGAAAAAATAATTTAA
1 TTGAAAAAATAATTTAA
23124165 T
1 T
23124166 AAATAATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (17 bp):
TTGAAAAAATAATTTAA
Found at i:23125894 original size:27 final size:25
Alignment explanation
Indices: 23125864--23125918 Score: 58
Period size: 27 Copynumber: 2.0 Consensus size: 25
23125854 TTTTATTATC
23125864 AAAG-TATGCTTTGTTTTTTTAACAAAA
1 AAAGATATGC-TT-TTTTTTTAA-AAAA
23125891 AAAGAATTATGCTTTTTTTTTAAAAAA
1 AAAG-A-TATGCTTTTTTTTTAAAAAA
23125918 A
1 A
23125919 TTTTAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
27 9 0.36
28 9 0.36
29 2 0.08
30 5 0.20
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (25 bp):
AAAGATATGCTTTTTTTTTAAAAAA
Found at i:23128403 original size:23 final size:23
Alignment explanation
Indices: 23128377--23128428 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
23128367 TGATTTTTAA
*
23128377 ATTTTGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
*
23128400 ATTTAGGATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
23128423 ATTTAG
1 ATTTAG
23128429 GAAAAATCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:23128404 original size:13 final size:13
Alignment explanation
Indices: 23128386--23128428 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
23128376 AATTTTGAAT
23128386 TATTTAGTGATAA
1 TATTTAGTGATAA
23128399 TATTTAG-GAT--
1 TATTTAGTGATAA
23128409 TATTTAGTGATAA
1 TATTTAGTGATAA
23128422 TATTTAG
1 TATTTAG
23128429 GAAAAATCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:23128429 original size:23 final size:23
Alignment explanation
Indices: 23128384--23128430 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
23128374 TAAATTTTGA
23128384 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
23128407 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
23128430 A
1 A
23128431 AAAATCTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (23 bp):
ATTATTTAGTGATAATATTTAGG
Found at i:23135837 original size:18 final size:18
Alignment explanation
Indices: 23135814--23135851 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
23135804 ACCCAGGGAG
23135814 ACATGCTCGGTCGAATAA
1 ACATGCTCGGTCGAATAA
23135832 ACATGCTCGGTCGAATAA
1 ACATGCTCGGTCGAATAA
23135850 AC
1 AC
23135852 CCTCGATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (18 bp):
ACATGCTCGGTCGAATAA
Found at i:23142826 original size:17 final size:18
Alignment explanation
Indices: 23142796--23142832 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
23142786 GTTTGAAAAA
23142796 AATAAAATATATATAAAT
1 AATAAAATATATATAAAT
23142814 AATAAAA-ATATATAAAT
1 AATAAAATATATATAAAT
23142831 AA
1 AA
23142833 AAGTATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AATAAAATATATATAAAT
Found at i:23148612 original size:31 final size:32
Alignment explanation
Indices: 23148574--23148635 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
23148564 GGCCCATTTT
23148574 TATTTTAAAAAT-TTTAAAAAATTAAAAAAAG
1 TATTTTAAAAATATTTAAAAAATTAAAAAAAG
* *
23148605 TATTTTAAAAATATTTTAAAATTTAAAAAAA
1 TATTTTAAAAATATTTAAAAAATTAAAAAAA
23148636 TTAAAAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 12 0.43
32 16 0.57
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (32 bp):
TATTTTAAAAATATTTAAAAAATTAAAAAAAG
Found at i:23148634 original size:41 final size:41
Alignment explanation
Indices: 23148574--23148666 Score: 168
Period size: 41 Copynumber: 2.2 Consensus size: 41
23148564 GGCCCATTTT
*
23148574 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATTTAAAAAAATTAAAAAAAGTATTTTAAAAA
23148616 TATTTTAAAATTTAAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTTAAAAAAATTAAAAAAAGTATTTTAAAAA
23148657 TATTTTAAAA
1 TATTTTAAAA
23148667 ATACCCATAT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 44 0.88
42 6 0.12
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (41 bp):
TATTTTAAAATTTAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:23148655 original size:12 final size:11
Alignment explanation
Indices: 23148574--23148669 Score: 80
Period size: 11 Copynumber: 9.2 Consensus size: 11
23148564 GGCCCATTTT
23148574 TATTTT-AAAA
1 TATTTTAAAAA
23148584 -ATTTTAAAAA
1 TATTTTAAAAA
**
23148594 -ATTAAAAAAA
1 TATTTTAAAAA
23148604 GTATTTTAAAAA
1 -TATTTTAAAAA
23148616 TATTTT--AAA
1 TATTTTAAAAA
23148625 -A-TTTAAAAA
1 TATTTTAAAAA
* **
23148634 AATTAAAAAAA
1 TATTTTAAAAA
23148645 GTATTTTAAAAA
1 -TATTTTAAAAA
23148657 TATTTTAAAAA
1 TATTTTAAAAA
23148668 TA
1 TA
23148670 CCCATATTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
7 3 0.04
8 1 0.01
9 11 0.16
10 13 0.19
11 25 0.36
12 16 0.23
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:23153937 original size:55 final size:56
Alignment explanation
Indices: 23153876--23154146 Score: 273
Period size: 55 Copynumber: 4.9 Consensus size: 56
23153866 CACATGCTTA
* * * *
23153876 ATTATGATATGTGCA-TAATGAAACTAGTAAGCATGATTATATACATGCATACCCT
1 ATTATGATATGTGCACTAATGAAACTAGTAAGCATCACTATGTACATGCATGCCCT
* * * * * *
23153931 ATTATGATATGTGCA-GAATAAAACTAGTGAGCATGACTATGTACATGCATGCTCA
1 ATTATGATATGTGCACTAATGAAACTAGTAAGCATCACTATGTACATGCATGCCCT
* * *
23153986 ATTTTTATATGTGCACT-ATGAAACTAGTAAGCATCACTATGTACATGCATGCTCT
1 ATTATGATATGTGCACTAATGAAACTAGTAAGCATCACTATGTACATGCATGCCCT
* * * * * *
23154041 ATTTTGATATGTGCACTTA-GAAACTAATGATCATCACTATGTACATGCATGCCTT
1 ATTATGATATGTGCACTAATGAAACTAGTAAGCATCACTATGTACATGCATGCCCT
* * *
23154096 ATTATGATATTTGCACTATAT-ACATGTCTAGTGAGCATCACTATGTACATG
1 ATTATGATATGTGCACTA-ATGA-A--ACTAGTAAGCATCACTATGTACATG
23154147 GTTGTTACAT
Statistics
Matches: 182, Mismatches: 27, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
55 156 0.86
56 3 0.02
57 1 0.01
59 22 0.12
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (56 bp):
ATTATGATATGTGCACTAATGAAACTAGTAAGCATCACTATGTACATGCATGCCCT
Found at i:23154111 original size:110 final size:109
Alignment explanation
Indices: 23153868--23154146 Score: 303
Period size: 110 Copynumber: 2.5 Consensus size: 109
23153858 TATTAATGCA
* * *
23153868 CATGCTTAATTATGATATGTGCA-TAATGAAACTAGTAAGCATGATTATATACATGCATACCCTA
1 CATGCTT-ATTATGATATGTGCACT-ATGAAACTAGTAAGCATCACTATGTACATGCATACCCTA
* *
23153932 TTATGATATGTGCAGAATAAAACTAGTGAGCATGACTATGTACATG
64 TTATGATATGTGCAGAATAAAACTAATGAGCATCACTATGTACATG
* * * * *
23153978 CATGCTCAATTTTTATATGTGCACTATGAAACTAGTAAGCATCACTATGTACATGCATGCTCTAT
1 CATGCT-TATTATGATATGTGCACTATGAAACTAGTAAGCATCACTATGTACATGCATACCCTAT
* ** *
23154043 TTTGATATGTGCA-CTTAGAAACTAATGATCATCACTATGTACATG
65 TATGATATGTGCAGAATA-AAACTAATGAGCATCACTATGTACATG
* *
23154088 CATGCCTTATTATGATATTTGCACTAT-ATACATGTCTAGTGAGCATCACTATGTACATG
1 CATG-CTTATTATGATATGTGCACTATGA-A-A---CTAGTAAGCATCACTATGTACATG
23154147 GTTGTTACAT
Statistics
Matches: 141, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
109 3 0.02
110 111 0.79
111 4 0.03
114 23 0.16
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Consensus pattern (109 bp):
CATGCTTATTATGATATGTGCACTATGAAACTAGTAAGCATCACTATGTACATGCATACCCTATT
ATGATATGTGCAGAATAAAACTAATGAGCATCACTATGTACATG
Found at i:23165175 original size:23 final size:23
Alignment explanation
Indices: 23165145--23165226 Score: 85
Period size: 23 Copynumber: 3.4 Consensus size: 23
23165135 CAGCTCGTAT
*
23165145 GAGCTTACCGTTTCAGGTT-TATA
1 GAGCTTACCGTTTCA-GTTCGATA
*
23165168 GAGCTTACCGTTTTAGTTCGATA
1 GAGCTTACCGTTTCAGTTCGATA
* *
23165191 GAGCTTACCGTTTATCAGCTCGAAAA
1 GAGCTTACCG-TT-TCAGTTCG-ATA
23165217 GAGCTTACCG
1 GAGCTTACCG
23165227 ATCATGGCTC
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.06
23 27 0.54
24 2 0.04
25 6 0.12
26 12 0.24
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGTTCGATA
Found at i:23165226 original size:26 final size:23
Alignment explanation
Indices: 23165167--23165244 Score: 75
Period size: 23 Copynumber: 3.2 Consensus size: 23
23165157 TCAGGTTTAT
* *
23165167 AGAGCTTACCGTTTTAGTTCGAT
1 AGAGCTTACCGTTTTAGCTCGAA
23165190 AGAGCTTACCGTTTATCAGCTCGAAA
1 AGAGCTTACCGTTT-T-AGCTCG-AA
** *
23165216 AGAGCTTACCGATCATGGCTCGAA
1 AGAGCTTACCG-TTTTAGCTCGAA
23165240 AGAGC
1 AGAGC
23165245 AGAAATGACA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
23 14 0.30
24 8 0.17
25 10 0.22
26 13 0.28
27 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (23 bp):
AGAGCTTACCGTTTTAGCTCGAA
Found at i:23165236 original size:25 final size:25
Alignment explanation
Indices: 23165185--23165244 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
23165175 CCGTTTTAGT
* * *
23165185 TCGATAGAGCTTACCGTTTATCAGC
1 TCGAAAGAGCTTACCGATCATCAGC
*
23165210 TCGAAAAGAGCTTACCGATCAT-GGC
1 TCG-AAAGAGCTTACCGATCATCAGC
23165235 TCGAAAGAGC
1 TCGAAAGAGC
23165245 AGAAATGACA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 7 0.23
25 8 0.27
26 15 0.50
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (25 bp):
TCGAAAGAGCTTACCGATCATCAGC
Found at i:23166016 original size:18 final size:18
Alignment explanation
Indices: 23165981--23166016 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23165971 AGTCAATTCT
* *
23165981 CCGGCCATTGTTGTAATC
1 CCGGCCATTGCTGAAATC
23165999 CCGGCCATTGCTGAAATC
1 CCGGCCATTGCTGAAATC
23166017 GTACAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.31, G:0.22, T:0.28
Consensus pattern (18 bp):
CCGGCCATTGCTGAAATC
Found at i:23166069 original size:11 final size:11
Alignment explanation
Indices: 23166055--23166081 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
23166045 TTAAAAAAAT
23166055 AAAATTATTTA
1 AAAATTATTTA
23166066 AAAATTATTTA
1 AAAATTATTTA
23166077 AAAAT
1 AAAAT
23166082 AGGGATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AAAATTATTTA
Found at i:23166122 original size:51 final size:51
Alignment explanation
Indices: 23166078--23166177 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
23166068 AATTATTTAA
23166078 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAGATT
* * * *
23166129 AAATATGGATTTGAGAGAAATTTGGAAGGAATTTGAGAGCAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGA
23166178 GGAAATTGAG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.27, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:23166162 original size:22 final size:23
Alignment explanation
Indices: 23166137--23166205 Score: 81
Period size: 22 Copynumber: 3.0 Consensus size: 23
23166127 TTAAATATGG
23166137 ATTTGAGAGAAATTTGGA-AGGA
1 ATTTGAGAGAAATTTGGAGAGGA
23166159 ATTTGAGAGCAAA-TT-GAGAGGA
1 ATTTGAGAG-AAATTTGGAGAGGA
*
23166181 AATTGAGAGGAAATTTGAGAGAGGA
1 ATTTGAGA-GAAATTTG-GAGAGGA
23166206 TTAGTTTGTG
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
21 2 0.05
22 25 0.62
23 6 0.15
25 7 0.17
ACGTcount: A:0.42, C:0.01, G:0.33, T:0.23
Consensus pattern (23 bp):
ATTTGAGAGAAATTTGGAGAGGA
Found at i:23166205 original size:14 final size:11
Alignment explanation
Indices: 23166102--23166201 Score: 68
Period size: 11 Copynumber: 9.4 Consensus size: 11
23166092 GAGAAATTTA
23166102 AGAGGAAATTG
1 AGAGGAAATTG
*
23166113 AGAGCAAATTG
1 AGAGGAAATTG
**
23166124 AGATTAAA-T-
1 AGAGGAAATTG
* *
23166133 A-TGG-ATTTG
1 AGAGGAAATTG
23166142 AGA-GAAATTTG
1 AGAGGAAA-TTG
*
23166153 -GAAGGAATTTG
1 AG-AGGAAATTG
*
23166164 AGAGCAAATTG
1 AGAGGAAATTG
23166175 AGAGGAAATTG
1 AGAGGAAATTG
23166186 AGAGGAAATTTG
1 AGAGGAAA-TTG
23166198 AGAG
1 AGAG
23166202 AGGATTAGTT
Statistics
Matches: 67, Mismatches: 13, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
7 1 0.01
8 1 0.01
9 3 0.04
10 3 0.04
11 48 0.72
12 11 0.16
ACGTcount: A:0.43, C:0.02, G:0.31, T:0.24
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:23168597 original size:25 final size:24
Alignment explanation
Indices: 23168560--23168606 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
23168550 TAGATTTTTT
23168560 TTTTATGTATAATG-ATGTAGATAA
1 TTTTATGTATAATGTATG-AGATAA
*
23168584 TTTTATTGTTTAATGTATGAGAT
1 TTTTA-TGTATAATGTATGAGAT
23168607 GATGGTTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 5 0.25
25 12 0.60
26 3 0.15
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
TTTTATGTATAATGTATGAGATAA
Found at i:23174232 original size:43 final size:42
Alignment explanation
Indices: 23174146--23174515 Score: 402
Period size: 43 Copynumber: 8.7 Consensus size: 42
23174136 NNNNNNNNNN
* *
23174146 CAGACAGGGTCTTACAC--AAATCA-AATACGATGCCAATGTCC
1 CAGACATGGTCTTACACGTAAA-CACAAT-CGATGCCAACGTCC
23174187 CAGACATGGTCTTACACGTAAACACAAGTCGATGCCAACGTCC
1 CAGACATGGTCTTACACGTAAACACAA-TCGATGCCAACGTCC
* * *
23174230 CAGACGTGGTCTTACATGTAATCACATATCGATGCC-ACTGTCC
1 CAGACATGGTCTTACACGTAAACACA-ATCGATGCCAAC-GTCC
* *
23174273 CAGACAGGGTCTTACAC--AAATCA-AATACGATGCCAATGTCC
1 CAGACATGGTCTTACACGTAAA-CACAAT-CGATGCCAACGTCC
23174314 CAGACATGGTCTTACACGTAAACACAAGTCGATGCCAACGTCC
1 CAGACATGGTCTTACACGTAAACACAA-TCGATGCCAACGTCC
* * *
23174357 CAGACGTGGTCTTACATGTAATCACATATCGATGCC-ACTGTCC
1 CAGACATGGTCTTACACGTAAACACA-ATCGATGCCAAC-GTCC
* *
23174400 CAGACAGGGTCTTACAC--AAATCA-AATACGATGCCAATGTCC
1 CAGACATGGTCTTACACGTAAA-CACAAT-CGATGCCAACGTCC
23174441 CAGACATGGTCTTACACGTAAACACAAGTCGATGCCAACGTCC
1 CAGACATGGTCTTACACGTAAACACAA-TCGATGCCAACGTCC
* **
23174484 TAGACATGGTCTTACACAAAAACACATATCGA
1 CAGACATGGTCTTACACGTAAACACA-ATCGA
23174516 AATCCTATGT
Statistics
Matches: 281, Mismatches: 25, Indels: 44
0.80 0.07 0.13
Matches are distributed among these distances:
40 4 0.01
41 76 0.27
42 16 0.06
43 179 0.64
44 6 0.02
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (42 bp):
CAGACATGGTCTTACACGTAAACACAATCGATGCCAACGTCC
Found at i:23174500 original size:84 final size:83
Alignment explanation
Indices: 23174146--23174503 Score: 440
Period size: 84 Copynumber: 4.2 Consensus size: 83
23174136 NNNNNNNNNN
*
23174146 CAGACAGGGTCTTACACAAATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAACA
1 CAGACATGGTCTTACACAAATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAACA
23174211 CAAGTCGATGCCAACGTCC
66 CAA-TCGATGCCAACGTCC
* ** * * *
23174230 CAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAGGGTCTTACAC--AAA
1 CAGACATGGTCTTACA-CAAATCAAATA-CGATGCCAATGTCCCAGACATGGTCTTACACGTAAA
*
23174293 TCA-AATACGATGCCAATGTCC
64 -CACAAT-CGATGCCAACGTCC
* * *
23174314 CAGACATGGTCTTACACGTAAA-CACAAGT-CGATGCCAACGTCCCAGACGTGGTCTTACATGTA
1 CAGACATGGTCTTACAC--AAATCA-AA-TACGATGCCAATGTCCCAGACATGGTCTTACACGTA
*
23174377 ATCACATATCGATGCC-ACTGTCC
62 AACACA-ATCGATGCCAAC-GTCC
*
23174400 CAGACAGGGTCTTACACAAATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAACA
1 CAGACATGGTCTTACACAAATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAACA
23174465 CAAGTCGATGCCAACGTCC
66 CAA-TCGATGCCAACGTCC
*
23174484 TAGACATGGTCTTACACAAA
1 CAGACATGGTCTTACACAAA
23174504 AACACATATC
Statistics
Matches: 231, Mismatches: 26, Indels: 34
0.79 0.09 0.12
Matches are distributed among these distances:
83 3 0.01
84 146 0.63
85 20 0.09
86 60 0.26
87 2 0.01
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.22
Consensus pattern (83 bp):
CAGACATGGTCTTACACAAATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAACA
CAATCGATGCCAACGTCC
Found at i:23174515 original size:127 final size:127
Alignment explanation
Indices: 23174146--23174499 Score: 690
Period size: 127 Copynumber: 2.8 Consensus size: 127
23174136 NNNNNNNNNN
23174146 CAGACAGGGTCTTACACAAATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAACA
1 CAGACAGGGTCTTACACAAATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAACA
23174211 CAAGTCGATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCC
66 CAAGTCGATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCC
23174273 CAGACAGGGTCTTACACAAATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAACA
1 CAGACAGGGTCTTACACAAATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAACA
23174338 CAAGTCGATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCC
66 CAAGTCGATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCC
23174400 CAGACAGGGTCTTACACAAATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAACA
1 CAGACAGGGTCTTACACAAATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAACA
* *
23174465 CAAGTCGATGCCAACGTCCTAGACATGGTCTTACA
66 CAAGTCGATGCCAACGTCCCAGACGTGGTCTTACA
23174500 CAAAAACACA
Statistics
Matches: 225, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
127 225 1.00
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (127 bp):
CAGACAGGGTCTTACACAAATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTAAACA
CAAGTCGATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCC
Found at i:23181573 original size:22 final size:24
Alignment explanation
Indices: 23181545--23181607 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 24
23181535 CATCCTGCTA
23181545 TTTTTTTTACTATTTT-TTGTTG-
1 TTTTTTTTACTATTTTCTTGTTGC
*
23181567 -TTTTTTTATTATTTTCTTGTTGC
1 TTTTTTTTACTATTTTCTTGTTGC
23181590 TGTTTTTTTCACTATTTT
1 T-TTTTTTT-ACTATTTT
23181608 ACTACCATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 14 0.41
22 6 0.18
25 7 0.21
26 7 0.21
ACGTcount: A:0.10, C:0.08, G:0.08, T:0.75
Consensus pattern (24 bp):
TTTTTTTTACTATTTTCTTGTTGC
Found at i:23183865 original size:88 final size:90
Alignment explanation
Indices: 23183773--23183956 Score: 223
Period size: 88 Copynumber: 2.1 Consensus size: 90
23183763 TTTCTTCTTC
* * * * *
23183773 TTTTTTT-CATTCAATTGAGTACTTAAAATTTTAAAATGTACCAAAAAGA-TCCTTAAACTTTTT
1 TTTTTTTACACTCAATTGAGTACTTAAAATTTAAAAATGCACCAAAAAGACT-CTCAAAATTTTT
* * *
23183836 TAAAA-ATACAATTAAG-CCCTTGTT
65 CAAAACAAACAATTAAGTCCCTGGTT
* * * *
23183860 TTTTTTAACACTCAATTGAGTACTTGAACTTTAAAAATGCATCAAAAAGACTCTCAAAATTTTTC
1 TTTTTTTACACTCAATTGAGTACTTAAAATTTAAAAATGCACCAAAAAGACTCTCAAAATTTTTC
23183925 AAAACAAACAATTAAGTCCCTGGTT
66 AAAACAAACAATTAAGTCCCTGGTT
23183950 TTTTTTT
1 TTTTTTT
23183957 CTTTTTTTGC
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
87 6 0.08
88 50 0.62
89 11 0.14
90 13 0.16
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.40
Consensus pattern (90 bp):
TTTTTTTACACTCAATTGAGTACTTAAAATTTAAAAATGCACCAAAAAGACTCTCAAAATTTTTC
AAAACAAACAATTAAGTCCCTGGTT
Found at i:23184165 original size:28 final size:28
Alignment explanation
Indices: 23184124--23184189 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
23184114 ATTTATAAAA
*
23184124 AATAAAAGTTATAAAAATGA-TTAAATTAT
1 AATAAAA-ATATAAAAAT-ATTTAAATTAT
*
23184153 AATAAAAATATAAAAATATTTAAATTTT
1 AATAAAAATATAAAAATATTTAAATTAT
*
23184181 ATTAAAAAT
1 AATAAAAAT
23184190 TAGAAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 1 0.03
28 25 0.76
29 7 0.21
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (28 bp):
AATAAAAATATAAAAATATTTAAATTAT
Found at i:23184268 original size:30 final size:30
Alignment explanation
Indices: 23184205--23184268 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
23184195 AAAAAATTGT
* **
23184205 AAAATCATAAAAAAATTGTAAAATTTTATA
1 AAAATCATAAAAAAATTATAAAATCATATA
*
23184235 AAAATCTTAAAAAAATTATAAAATGCATA-A
1 AAAATCATAAAAAAATTATAAAAT-CATATA
23184265 AAAA
1 AAAA
23184269 GACCCTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 27 0.93
31 2 0.07
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (30 bp):
AAAATCATAAAAAAATTATAAAATCATATA
Found at i:23184535 original size:18 final size:19
Alignment explanation
Indices: 23184512--23184548 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
23184502 NNNNNNNNNN
23184512 AATATTTAAT-ATTTTTAT
1 AATATTTAATAATTTTTAT
*
23184530 AATATTTATTAATTTTTAT
1 AATATTTAATAATTTTTAT
23184549 TTTTATCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
AATATTTAATAATTTTTAT
Found at i:23186730 original size:11 final size:10
Alignment explanation
Indices: 23186706--23186742 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
23186696 AGTAAGTCTG
*
23186706 AAAAATATTC
1 AAAAAAATTC
23186716 AAAAAAATTC
1 AAAAAAATTC
*
23186726 AAAAAAATTT
1 AAAAAAATTC
23186736 AAAAAAA
1 AAAAAAA
23186743 ATTCGTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:23186743 original size:11 final size:11
Alignment explanation
Indices: 23186706--23186745 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
23186696 AGTAAGTCTG
23186706 AAAAATATTCAA
1 AAAAAT-TTCAA
23186718 AAAAA-TTCAA
1 AAAAATTTCAA
*
23186728 AAAAATTTAAA
1 AAAAATTTCAA
23186739 AAAAATT
1 AAAAATT
23186746 CGTGAAATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 10 0.38
11 11 0.42
12 5 0.19
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (11 bp):
AAAAATTTCAA
Found at i:23186743 original size:21 final size:22
Alignment explanation
Indices: 23186706--23186746 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
23186696 AGTAAGTCTG
*
23186706 AAAAATATTCAAAAAAATTCAA
1 AAAAATATTAAAAAAAATTCAA
23186728 AAAAAT-TTAAAAAAAATTC
1 AAAAATATTAAAAAAAATTC
23186747 GTGAAATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAAAATATTAAAAAAAATTCAA
Found at i:23187910 original size:18 final size:18
Alignment explanation
Indices: 23187889--23187951 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 18
23187879 AGATTGAGAA
*
23187889 TGAAAAAGAAAGAGAGTT
1 TGAAAAAGAAAAAGAGTT
**
23187907 TG-AAAAGAAATCGAG--
1 TGAAAAAGAAAAAGAGTT
23187922 TGAAAAAAGAAAAAGAGTT
1 TG-AAAAAGAAAAAGAGTT
*
23187941 TGCAAAAGAAA
1 TGAAAAAGAAA
23187952 CGAGTGAAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
15 2 0.06
17 22 0.61
18 10 0.28
19 2 0.06
ACGTcount: A:0.59, C:0.03, G:0.24, T:0.14
Consensus pattern (18 bp):
TGAAAAAGAAAAAGAGTT
Found at i:23187913 original size:35 final size:35
Alignment explanation
Indices: 23187891--23187964 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 35
23187881 ATTGAGAATG
*
23187891 AAAAAGAAAGAGAGTTTG-AAAAGAAATCGAGTGA
1 AAAAAGAAAAAGAGTTTGCAAAAGAAATCGAGTGA
23187925 AAAAAGAAAAAGAGTTTGCAAAAGAAA-CGAGTGA
1 AAAAAGAAAAAGAGTTTGCAAAAGAAATCGAGTGA
*
23187959 AGAAAG
1 AAAAAG
23187965 CAATCAAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 29 0.78
35 8 0.22
ACGTcount: A:0.58, C:0.04, G:0.26, T:0.12
Consensus pattern (35 bp):
AAAAAGAAAAAGAGTTTGCAAAAGAAATCGAGTGA
Found at i:23243983 original size:23 final size:23
Alignment explanation
Indices: 23243951--23243994 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
23243941 AAAAATGCTA
*
23243951 AAAATCATTTAAAATTAAAAAAT
1 AAAATAATTTAAAATTAAAAAAT
* *
23243974 AAAATAATTTGAATTTAAAAA
1 AAAATAATTTAAAATTAAAAA
23243995 TATATATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (23 bp):
AAAATAATTTAAAATTAAAAAAT
Found at i:23248153 original size:21 final size:20
Alignment explanation
Indices: 23248106--23248158 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
23248096 TCCATTTTTT
*
23248106 CTAATCTCACCGCTATAGTA
1 CTAATCTCACCGCTACAGTA
*
23248126 TTCAATCTCACCGCTACAGTAA
1 CT-AATCTCACCGCTACAGT-A
23248148 CTAATCTCACC
1 CTAATCTCACC
23248159 ACCACCGCTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 25 0.89
22 2 0.07
ACGTcount: A:0.30, C:0.34, G:0.08, T:0.28
Consensus pattern (20 bp):
CTAATCTCACCGCTACAGTA
Found at i:23250036 original size:21 final size:21
Alignment explanation
Indices: 23250012--23250077 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
23250002 ATGAAATGAT
*
23250012 TCTTTTCAATCCATTGTTTTC
1 TCTTTTCAATCAATTGTTTTC
*
23250033 TCTTTACAATCAATTGTTTTGC
1 TCTTTTCAATCAATTGTTTT-C
* **
23250055 TGTTTT-AATTTATTGTTTTC
1 TCTTTTCAATCAATTGTTTTC
23250075 TCT
1 TCT
23250078 ATCTACTGAT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 3 0.08
21 29 0.78
22 5 0.14
ACGTcount: A:0.17, C:0.17, G:0.08, T:0.59
Consensus pattern (21 bp):
TCTTTTCAATCAATTGTTTTC
Found at i:23257092 original size:36 final size:37
Alignment explanation
Indices: 23257023--23257092 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 37
23257013 TAGATTTCTT
* *
23257023 ATATCATTATATTAAATTATTTAAATATTATTTAAAA
1 ATATCATTATAGTAAATTATTTAAATATAATTTAAAA
23257060 ATATCATTATAGTAAA-TATTTAAATATAATTTA
1 ATATCATTATAGTAAATTATTTAAATATAATTTA
23257093 TTATTATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 16 0.52
37 15 0.48
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (37 bp):
ATATCATTATAGTAAATTATTTAAATATAATTTAAAA
Found at i:23257388 original size:13 final size:13
Alignment explanation
Indices: 23257370--23257394 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23257360 TTCCAAACCA
23257370 AACTTTTCAAAAG
1 AACTTTTCAAAAG
23257383 AACTTTTCAAAA
1 AACTTTTCAAAA
23257395 TTGGCCCTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (13 bp):
AACTTTTCAAAAG
Found at i:23259490 original size:3 final size:3
Alignment explanation
Indices: 23259475--23259593 Score: 111
Period size: 3 Copynumber: 39.3 Consensus size: 3
23259465 TAGGTTTTTT
* * * *
23259475 TTA TT- TTA ATA TTA TTA ATA TTG TTA -TA TTGCA TTA TTA CTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT--A TTA TTA TTA TTA
*
23259519 GTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
23259566 TCTA CTA TGGTA TTA TTA TTA TTA TTA T
1 T-TA TTA T--TA TTA TTA TTA TTA TTA T
23259594 AACAATGTAT
Statistics
Matches: 95, Mismatches: 12, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
2 6 0.06
3 83 0.87
5 6 0.06
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:23259859 original size:15 final size:14
Alignment explanation
Indices: 23259839--23259870 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
23259829 TTTCAAAATT
23259839 TACTTATATATATCA
1 TACTTATATATAT-A
23259854 TACTTATATATATA
1 TACTTATATATATA
23259868 TAC
1 TAC
23259871 ATATTTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (14 bp):
TACTTATATATATA
Found at i:23261625 original size:109 final size:108
Alignment explanation
Indices: 23261430--23261853 Score: 588
Period size: 109 Copynumber: 3.9 Consensus size: 108
23261420 AGAATTCAAG
* * * * * * * *
23261430 AGGATATTTGGCTACTTGGTTAAACGAG--AAATAGACACCCAGCACATTAGGGCACG-TTCCTC
1 AGGATACTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGTTTTCTC
* * *
23261492 GCATTTCCCAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATTTTT-AA
* *
23261536 AGGATA-TTTGACTATTTGGCTGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGTTTTCT
1 AGGATACTTAG-CTATTTGGTTGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGTTTTCT
23261600 CGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATTTTTAAA
65 CGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATTTTT-AA
23261645 AGGATACTTAGCTATTTGGTTGAACGAGAAAAATCG-AACCCAACACATTAGGGCACGTTTTCTC
1 AGGATACTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGTTTTCTC
23261709 GAATTTCCAAACGCAAAATATTGCCTTATTTTTGAAATTTTTAA
66 GAATTTCCAAACGCAAAATATTGCCTTA-TTTTGAAATTTTTAA
* * **
23261753 AGGATACTTAGCTATTTGGTTGAACGAGAAAAATCGAAGCCCAGCACATTAGGGCTTGTTTTCTC
1 AGGATACTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGTTTTCTC
* * * *
23261818 GAATTTCCAAACGCTATATATTGCCTCATTTAGAAA
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTGAAA
23261854 AATTTTCCTT
Statistics
Matches: 289, Mismatches: 22, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
105 3 0.01
106 20 0.07
108 126 0.44
109 137 0.47
110 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (108 bp):
AGGATACTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGTTTTCTC
GAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATTTTTAA
Found at i:23262576 original size:12 final size:12
Alignment explanation
Indices: 23262561--23262609 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
23262551 ACGTGTAAAT
*
23262561 ATAATGATAGTA
1 ATAATAATAGTA
* *
23262573 ATAATGATATTA
1 ATAATAATAGTA
* *
23262585 GTAATAATACTA
1 ATAATAATAGTA
23262597 ATAATAATAGTA
1 ATAATAATAGTA
23262609 A
1 A
23262610 GGATATTAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.53, C:0.02, G:0.10, T:0.35
Consensus pattern (12 bp):
ATAATAATAGTA
Found at i:23262607 original size:21 final size:21
Alignment explanation
Indices: 23262574--23262626 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
23262564 ATGATAGTAA
* * *
23262574 TAATGATATTAGTAATAATAC
1 TAATAATAATAGTAAGAATAC
* *
23262595 TAATAATAATAGTAAGGATAT
1 TAATAATAATAGTAAGAATAC
23262616 TAATAATAATA
1 TAATAATAATA
23262627 ACATTAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (21 bp):
TAATAATAATAGTAAGAATAC
Found at i:23262632 original size:15 final size:16
Alignment explanation
Indices: 23262614--23262653 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
23262604 TAGTAAGGAT
23262614 ATTAATAATAAT-AAC
1 ATTAATAATAATGAAC
23262629 ATTAA-AATAATGAAC
1 ATTAATAATAATGAAC
*
23262644 A-AAATAATAA
1 ATTAATAATAA
23262654 AATTGCTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.28
Consensus pattern (16 bp):
ATTAATAATAATGAAC
Found at i:23264503 original size:45 final size:45
Alignment explanation
Indices: 23264452--23264807 Score: 383
Period size: 45 Copynumber: 7.9 Consensus size: 45
23264442 TTCATTGTTT
* * * *
23264452 TTCGATCTGCTTCGCTGCTAGTATAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* *
23264497 TTCGATCTACTTCGCTGCCAATACAGGAAGATAAGATCTGCTATT
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * *
23264542 TTCGATCTACTTCACTGCCAATACATGAAGACAAGACCTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * *
23264587 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAATATTTGCTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* *
23264632 TTC-AGTCTACTTTGCTGCCAATACAGGAAGACAAGACCTGCTATC
1 TTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * * * * * * *
23264677 TTTGATCTATTTCAC-GCCAATCCATGAAGACAAGATTTGTTTTC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* ** * ** *
23264721 CTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATC
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
* * * * *
23264766 TTCGATCCACTTCACTACCAATATAGGAAGACAGGATCTGCT
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
23264808 GCTTTTCAAC
Statistics
Matches: 254, Mismatches: 54, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
44 35 0.14
45 218 0.86
46 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (45 bp):
TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
Found at i:23264641 original size:135 final size:134
Alignment explanation
Indices: 23264452--23264807 Score: 455
Period size: 134 Copynumber: 2.6 Consensus size: 134
23264442 TTCATTGTTT
* *
23264452 TTCGATCTGCTTCGCTGCTAGTATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCA
1 TTCGATCTACTTCGCTGCCAGTATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCA
*
23264517 ATACAGGAAGATAAGATCTGCTAT-TTTCGATCTACTTCACTGCCAATACATGAAGACAAGACCT
66 ATACAGGAAGACAAGATCTGCTATCTTT-GATCTACTTCAC-GCCAATACATGAAGACAAGACCT
23264581 GCTATC
129 GCTATC
* * * *
23264587 TTCGATCTACTTCGCTGCCAGTACAGGAAGACAATATTTGCTATCTTC-AGTCTACTTTGCTGCC
1 TTCGATCTACTTCGCTGCCAGTATAGGAAGACAAGATCTGCTATCTTCGA-TCTACTTCGCTGCC
* * * **
23264651 AATACAGGAAGACAAGACCTGCTATCTTTGATCTATTTCACGCCAATCCATGAAGACAAGATTTG
65 AATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGACCTG
* *
23264716 TTTTC
130 CTATC
* ** * * * * *
23264721 CTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTCGATCCACTTCACTACCA
1 TTCGATCTACTTCGCTGCCAGTATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCA
* *
23264786 ATATAGGAAGACAGGATCTGCT
66 ATACAGGAAGACAAGATCTGCT
23264808 GCTTTTCAAC
Statistics
Matches: 189, Mismatches: 29, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
134 95 0.50
135 91 0.48
136 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (134 bp):
TTCGATCTACTTCGCTGCCAGTATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCA
ATACAGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGACCTGC
TATC
Found at i:23267482 original size:16 final size:16
Alignment explanation
Indices: 23267461--23267493 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
23267451 TCTCGCATGA
23267461 TAGTCACATTGTGCAT
1 TAGTCACATTGTGCAT
23267477 TAGTCACATTGTGCAT
1 TAGTCACATTGTGCAT
23267493 T
1 T
23267494 TGTGCCGTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (16 bp):
TAGTCACATTGTGCAT
Found at i:23268372 original size:19 final size:17
Alignment explanation
Indices: 23268350--23268392 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 17
23268340 GTGAAATTTG
23268350 ATGCATGCAATGAAATGTA
1 ATGCATGC-ATGAAATG-A
23268369 ATGCAGATGCATGAAATGA
1 ATGC--ATGCATGAAATGA
23268388 ATGCA
1 ATGCA
23268393 AAAAGAGACG
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 1 0.05
19 9 0.41
20 8 0.36
21 4 0.18
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (17 bp):
ATGCATGCATGAAATGA
Found at i:23269982 original size:106 final size:107
Alignment explanation
Indices: 23269790--23269992 Score: 264
Period size: 106 Copynumber: 1.9 Consensus size: 107
23269780 TGGATTAAGA
* * * * *
23269790 TTTAAGAGGATATTTGGCTATTTGGTCAAACGAAAAAATAGAAGCCCAGCATATTAGGGCACGTT
1 TTTAAGAGGATATTCGGCTATTTGGTCAAACGAAAAAATAGAAACCCAACACATTAGGGAACGTT
* * *
23269855 TCCTCTAATTTCTAAACGCAAAATATTACCTTACTCTGAAAT
66 TCCTCGAATTCCCAAACGCAAAATATTACCTTACTCTGAAAT
** * *
23269897 TTTAA-AGGATATTCGGCTATTTGGTTGAACGAAAAAATCGAAACCCAACACATTATGGAACGTT
1 TTTAAGAGGATATTCGGCTATTTGGTCAAACGAAAAAATAGAAACCCAACACATTAGGGAACGTT
* * *
23269961 TTCTCGAATTCCCAAATGCAAAATATTGCCTT
66 TCCTCGAATTCCCAAACGCAAAATATTACCTT
23269993 TATTATTTTT
Statistics
Matches: 81, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
106 76 0.94
107 5 0.06
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (107 bp):
TTTAAGAGGATATTCGGCTATTTGGTCAAACGAAAAAATAGAAACCCAACACATTAGGGAACGTT
TCCTCGAATTCCCAAACGCAAAATATTACCTTACTCTGAAAT
Found at i:23271005 original size:106 final size:107
Alignment explanation
Indices: 23270816--23271014 Score: 312
Period size: 106 Copynumber: 1.9 Consensus size: 107
23270806 ATAATAAAGG
* * * *
23270816 CAATATTTTGTATTTGGGAATTCGAGAAAGCGTGCCCTAATGTGTTGGGTTTCGATTTTTTCGTT
1 CAATATTTTGCATTTGGAAATTCGAGAAAGCGTGCCCTAATGTGCTGGGCTTCGATTTTTTCGTT
*
23270881 CGACCAAATAGCCGAATATCCT-TTAAAATTTCAGAGTAAGA
66 CGACCAAATAGCCAAATATCCTCTTAAAATTTCAGAGTAAGA
*
23270922 CAATATTTTGCGTTTGGAAATTCGAGGAAA-CGTGCCCTAATGTGCTGGGCTTCGATTTTTTCGT
1 CAATATTTTGCATTTGGAAATTCGA-GAAAGCGTGCCCTAATGTGCTGGGCTTCGATTTTTTCGT
*
23270986 TTGACCAAATAGCCAAATATCCTCTTAAA
65 TCGACCAAATAGCCAAATATCCTCTTAAA
23271015 TCTTAATCCA
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
106 75 0.89
107 9 0.11
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (107 bp):
CAATATTTTGCATTTGGAAATTCGAGAAAGCGTGCCCTAATGTGCTGGGCTTCGATTTTTTCGTT
CGACCAAATAGCCAAATATCCTCTTAAAATTTCAGAGTAAGA
Found at i:23273217 original size:125 final size:125
Alignment explanation
Indices: 23273088--23273352 Score: 530
Period size: 125 Copynumber: 2.1 Consensus size: 125
23273078 ATTTAATAAT
23273088 AATAAATAATTTAATCACATTTTAATATAATTTTTGTTAAAAATAATTTAATAAAATAATATATA
1 AATAAATAATTTAATCACATTTTAATATAATTTTTGTTAAAAATAATTTAATAAAATAATATATA
23273153 ATCTGCTTTATTATTTTTAAACTGCAATGCATATTTAATGTGTTAAAATATCATTAGCGA
66 ATCTGCTTTATTATTTTTAAACTGCAATGCATATTTAATGTGTTAAAATATCATTAGCGA
23273213 AATAAATAATTTAATCACATTTTAATATAATTTTTGTTAAAAATAATTTAATAAAATAATATATA
1 AATAAATAATTTAATCACATTTTAATATAATTTTTGTTAAAAATAATTTAATAAAATAATATATA
23273278 ATCTGCTTTATTATTTTTAAACTGCAATGCATATTTAATGTGTTAAAATATCATTAGCGA
66 ATCTGCTTTATTATTTTTAAACTGCAATGCATATTTAATGTGTTAAAATATCATTAGCGA
23273338 AATAAATAATTTAAT
1 AATAAATAATTTAAT
23273353 TTTCTTCTAA
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 140 1.00
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (125 bp):
AATAAATAATTTAATCACATTTTAATATAATTTTTGTTAAAAATAATTTAATAAAATAATATATA
ATCTGCTTTATTATTTTTAAACTGCAATGCATATTTAATGTGTTAAAATATCATTAGCGA
Found at i:23273580 original size:21 final size:21
Alignment explanation
Indices: 23273555--23273608 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
23273545 TGATTTGTTA
*
23273555 TTTTTGCTACTGTTTTTTCA-
1 TTTTTGCTACTGTTTTCTCAC
*
23273575 TGTTTTGCTATTGTTTTCTCAC
1 T-TTTTGCTACTGTTTTCTCAC
*
23273597 TTTTTGCCACTG
1 TTTTTGCTACTG
23273609 CCTTCCATCC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.09, C:0.19, G:0.13, T:0.59
Consensus pattern (21 bp):
TTTTTGCTACTGTTTTCTCAC
Found at i:23274573 original size:15 final size:14
Alignment explanation
Indices: 23274533--23274574 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
23274523 GAATGCATGT
23274533 ATAAATATCACAATA
1 ATAAATA-CACAATA
*
23274548 ACAAATA-ACAATA
1 ATAAATACACAATA
23274561 ATAAATACGACAAT
1 ATAAATAC-ACAAT
23274575 TGTATAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 12 0.52
15 11 0.48
ACGTcount: A:0.62, C:0.14, G:0.02, T:0.21
Consensus pattern (14 bp):
ATAAATACACAATA
Found at i:23274697 original size:16 final size:16
Alignment explanation
Indices: 23274671--23274722 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
23274661 AAAAAATATG
* *
23274671 AAAACATAAATCAACA
1 AAAAAATAAATAAACA
*
23274687 AACAAATAAATAAACA
1 AAAAAATAAATAAACA
*
23274703 AAAAAAT--ATAAAGA
1 AAAAAATAAATAAACA
23274717 AAAAAA
1 AAAAAA
23274723 GTGCATAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 12 0.39
16 19 0.61
ACGTcount: A:0.77, C:0.10, G:0.02, T:0.12
Consensus pattern (16 bp):
AAAAAATAAATAAACA
Found at i:23276612 original size:132 final size:132
Alignment explanation
Indices: 23276464--23277036 Score: 939
Period size: 132 Copynumber: 4.3 Consensus size: 132
23276454 GCTTTAATTT
*
23276464 GCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAG
1 GCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
*
23276529 ATAAGATCTACAATCTTCAACCTACTCCTCTGCTGCTCAAGGAGACAAGGCTTGGTGGCTTAAAT
66 ATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAAGGAGACAAGGCTTGGTGGCTTAAAT
23276594 CA
131 CA
* *
23276596 GCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACAACTGCTTAGAGAG
1 GCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
* *
23276661 GTAAGATCTACAATCTTCAGCCTACTCCGCTGCTGCTCAAGGAGACAAGGCTTGGTGGCTTAAAT
66 ATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAAGGAGACAAGGCTTGGTGGCTTAAAT
23276726 CA
131 CA
* * *
23276728 GCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTATTTGATCTACTCCACTACTGCTTAGGGAG
1 GCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
*
23276793 ATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAAT
66 ATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAAGGAGACAAGGCTTGGTGGCTTAAAT
*
23276858 CT
131 CA
* * * * *
23276860 GCTTCTCACTATCTTAGAAAGATAAGATTTTCCATCTTTAATCTGCTCCACTACTGCCTAGGGAG
1 GCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
* * ** * *
23276925 ACAAGATCTACAATCTTCAGCCTACTCTACTGCTACTCAGGGAGACAAGGCTTGGTGGCTTAAAT
66 ATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAAGGAGACAAGGCTTGGTGGCTTAAAT
*
23276990 CT
131 CA
23276992 GCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTG
1 GCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTG
23277037 TCTCGCTGTC
Statistics
Matches: 409, Mismatches: 32, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 409 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (132 bp):
GCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAG
ATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAAGGAGACAAGGCTTGGTGGCTTAAAT
CA
Found at i:23288464 original size:24 final size:24
Alignment explanation
Indices: 23288435--23288480 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
23288425 ATCATCTTTT
*
23288435 GCTGCTCATT-CATTTGCTTTTGAA
1 GCTGCTC-TTGCATTTCCTTTTGAA
23288459 GCTGCTCTTGCATTTCCTTTTG
1 GCTGCTCTTGCATTTCCTTTTG
23288481 GGATTGTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (24 bp):
GCTGCTCTTGCATTTCCTTTTGAA
Found at i:23292488 original size:16 final size:16
Alignment explanation
Indices: 23292441--23292488 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
23292431 ATAGAAAGTA
23292441 TAATATATATATATACG
1 TAATATATATATA-ACG
23292458 TACATATATATATAACG
1 TA-ATATATATATAACG
*
23292475 TAATAAATATATAA
1 TAATATATATATAA
23292489 ATCATAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 11 0.38
17 7 0.24
18 11 0.38
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (16 bp):
TAATATATATATAACG
Found at i:23297274 original size:22 final size:22
Alignment explanation
Indices: 23297249--23297293 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
23297239 TTAACCTTGA
23297249 AATGGTTAAGTAAATTTTGACT
1 AATGGTTAAGTAAATTTTGACT
23297271 AATGGTTAAGTAAATTTTGACT
1 AATGGTTAAGTAAATTTTGACT
23297293 A
1 A
23297294 TCTCTGGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (22 bp):
AATGGTTAAGTAAATTTTGACT
Found at i:23303837 original size:31 final size:31
Alignment explanation
Indices: 23303802--23303926 Score: 91
Period size: 31 Copynumber: 4.1 Consensus size: 31
23303792 TTGGTAGAAG
*
23303802 TTAGGTCCTAAACTTGGCAATTGTTCCCACA
1 TTAGGTCCTGAACTTGGCAATTGTTCCCACA
* * * *
23303833 TTAGGACCTGCACTTGGTAGCTT-TTCCCACA
1 TTAGGTCCTGAACTTGGCA-ATTGTTCCCACA
** *
23303864 TT-GGTGCCTGAACTT--CTTTTTGGT-CCA-A
1 TTAGGT-CCTGAACTTGGC-AATTGTTCCCACA
*
23303892 GTTAGGGCCTGAACTTGGCAATTGTTCCCACA
1 -TTAGGTCCTGAACTTGGCAATTGTTCCCACA
23303924 TTA
1 TTA
23303927 AGGCTTGAAC
Statistics
Matches: 69, Mismatches: 15, Indels: 20
0.66 0.14 0.19
Matches are distributed among these distances:
28 1 0.01
29 16 0.23
30 9 0.13
31 40 0.58
32 3 0.04
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (31 bp):
TTAGGTCCTGAACTTGGCAATTGTTCCCACA
Found at i:23303908 original size:91 final size:91
Alignment explanation
Indices: 23303748--23303926 Score: 268
Period size: 91 Copynumber: 2.0 Consensus size: 91
23303738 TTATTTGGGG
* * * *
23303748 CCTGAACTTGGAAACTTTTCCCACATTGGGGTCTGAACTTTTTTTTGGTAGAAGTTAGGTCCTAA
1 CCTGAACTTGGAAACTTTTCCCACATTGGGGCCTGAACTTCTTTTTGGTACAAGTTAGGGCCTAA
23303813 ACTTGGCAATTGTTCCCACATTAGGA
66 ACTTGGCAATTGTTCCCACATTAGGA
* * * * * *
23303839 CCTGCACTTGGTAGCTTTTCCCACATTGGTGCCTGAACTTCTTTTTGGTCCAAGTTAGGGCCTGA
1 CCTGAACTTGGAAACTTTTCCCACATTGGGGCCTGAACTTCTTTTTGGTACAAGTTAGGGCCTAA
23303904 ACTTGGCAATTGTTCCCACATTA
66 ACTTGGCAATTGTTCCCACATTA
23303927 AGGCTTGAAC
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
91 78 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (91 bp):
CCTGAACTTGGAAACTTTTCCCACATTGGGGCCTGAACTTCTTTTTGGTACAAGTTAGGGCCTAA
ACTTGGCAATTGTTCCCACATTAGGA
Found at i:23311637 original size:43 final size:43
Alignment explanation
Indices: 23311514--23311640 Score: 114
Period size: 43 Copynumber: 3.0 Consensus size: 43
23311504 GATGCCGCTT
* * *
23311514 AAGATCATGTTCTTTAGCGGAGCTTGGTA-AAAAAACGCCACTA
1 AAGATAATGTTCTTTAGCGGAGCTT-TTATAAAAAACGCCACAA
* * * * * ** *
23311557 TAGATCATGTTCTTTAGCGGCGCTTTCATCACGAACGCCGCGAA
1 AAGATAATGTTCTTTAGCGGAGCTTTTATAAAAAACGCCAC-AA
*
23311601 AAG-TAATGTTCTTTAGCGGTGCTTTTATAAAAAACGCCAC
1 AAGATAATGTTCTTTAGCGGAGCTTTTATAAAAAACGCCAC
23311641 TAATTTTGGG
Statistics
Matches: 65, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
42 1 0.02
43 61 0.94
44 3 0.05
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (43 bp):
AAGATAATGTTCTTTAGCGGAGCTTTTATAAAAAACGCCACAA
Found at i:23312051 original size:21 final size:21
Alignment explanation
Indices: 23312027--23312075 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
23312017 GCTTCTCTCG
23312027 CTGCTTCTCGCGCTGCAGCCT
1 CTGCTTCTCGCGCTGCAGCCT
* *
23312048 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCGCGCTGCAGCCT
23312069 CTGCTTC
1 CTGCTTC
23312076 CTTCGTTGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.04, C:0.41, G:0.20, T:0.35
Consensus pattern (21 bp):
CTGCTTCTCGCGCTGCAGCCT
Found at i:23313920 original size:7 final size:7
Alignment explanation
Indices: 23313908--23313939 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
23313898 CAGAAATAGC
23313908 AAAACAG
1 AAAACAG
23313915 AAAACAG
1 AAAACAG
*
23313922 AAAATAG
1 AAAACAG
23313929 AAAACAG
1 AAAACAG
23313936 AAAA
1 AAAA
23313940 TAAAGAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.75, C:0.09, G:0.12, T:0.03
Consensus pattern (7 bp):
AAAACAG
Found at i:23313922 original size:21 final size:21
Alignment explanation
Indices: 23313896--23313939 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
23313886 CACTTCATTC
23313896 AACAG-AAATAGCAAAACAGAA
1 AACAGAAAATAG-AAAACAGAA
23313917 AACAGAAAATAGAAAACAGAA
1 AACAGAAAATAGAAAACAGAA
23313938 AA
1 AA
23313940 TAAAGAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.70, C:0.11, G:0.14, T:0.05
Consensus pattern (21 bp):
AACAGAAAATAGAAAACAGAA
Found at i:23313954 original size:15 final size:14
Alignment explanation
Indices: 23313915--23313954 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
23313905 AGCAAAACAG
*
23313915 AAAACAGAAAATAG
1 AAAACAGAAAATAA
23313929 AAAACAGAAAATAA
1 AAAACAGAAAATAA
*
23313943 AGAAACATAAAA
1 A-AAACAGAAAA
23313955 ATGGTATAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 14 0.61
15 9 0.39
ACGTcount: A:0.75, C:0.07, G:0.10, T:0.07
Consensus pattern (14 bp):
AAAACAGAAAATAA
Found at i:23313985 original size:18 final size:19
Alignment explanation
Indices: 23313943--23313991 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
23313933 CAGAAAATAA
* *
23313943 AGAAACATAAAAATGGTAT
1 AGAAACATAAAAATGCTAG
*
23313962 AGAAACAT-AACATGCTAG
1 AGAAACATAAAAATGCTAG
*
23313980 AGAAACAGAAAA
1 AGAAACATAAAA
23313992 TTTTGTGTCC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.59, C:0.10, G:0.16, T:0.14
Consensus pattern (19 bp):
AGAAACATAAAAATGCTAG
Found at i:23314772 original size:6 final size:6
Alignment explanation
Indices: 23314761--23314789 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
23314751 TCAATTCTGT
23314761 ATATAC ATATAC ATATAC ATATAC ATATA
1 ATATAC ATATAC ATATAC ATATAC ATATA
23314790 TATACATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:23315189 original size:18 final size:18
Alignment explanation
Indices: 23315143--23315194 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
23315133 GTATTATGTC
*
23315143 GGGTTTGGGGAACTGTTAG
1 GGGTTT-GGGAAATGTTAG
* * *
23315162 GGATTAGGGAAATTTTAG
1 GGGTTTGGGAAATGTTAG
23315180 GGGTTTGGGAGAATG
1 GGGTTTGGGA-AATG
23315195 AGAGGTTGGG
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.23, C:0.02, G:0.44, T:0.31
Consensus pattern (18 bp):
GGGTTTGGGAAATGTTAG
Found at i:23316301 original size:48 final size:47
Alignment explanation
Indices: 23316203--23316299 Score: 131
Period size: 47 Copynumber: 2.1 Consensus size: 47
23316193 GTTTTGTTAA
* * **
23316203 TTTAGGTAATATTTAAAAAAATTAGATAAAATTATCAATTTCAGTTT
1 TTTAAGTAATATTTAAAAAAATTAGATAAAAATAAAAATTTCAGTTT
* * *
23316250 TTTAAGTAATATTTATAAAAATTAGGTAAAAATAAAAATTTTAGTTT
1 TTTAAGTAATATTTAAAAAAATTAGATAAAAATAAAAATTTCAGTTT
23316297 TTT
1 TTT
23316300 TATTTTTTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.44
Consensus pattern (47 bp):
TTTAAGTAATATTTAAAAAAATTAGATAAAAATAAAAATTTCAGTTT
Found at i:23316313 original size:16 final size:16
Alignment explanation
Indices: 23316288--23316321 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
23316278 AAAATAAAAA
23316288 TTTTAGTTTTTTTATT
1 TTTTAGTTTTTTTATT
*
23316304 TTTTATTTTTTTTATT
1 TTTTAGTTTTTTTATT
23316320 TT
1 TT
23316322 CATTTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (16 bp):
TTTTAGTTTTTTTATT
Found at i:23316332 original size:16 final size:16
Alignment explanation
Indices: 23316294--23316332 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
23316284 AAAATTTTAG
*
23316294 TTTTTTTATTTTTTAT
1 TTTTTTTATTTTTCAT
23316310 TTTTTTTA-TTTTCAT
1 TTTTTTTATTTTTCAT
23316325 TTTATTTT
1 TTT-TTTT
23316333 TTGTAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTTATTTTTCAT
Found at i:23316400 original size:16 final size:14
Alignment explanation
Indices: 23316371--23316397 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23316361 TTTACAATTC
23316371 CAAATTATTATATT
1 CAAATTATTATATT
23316385 CAAATTATTATAT
1 CAAATTATTATAT
23316398 ATTGCATATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
CAAATTATTATATT
Found at i:23316550 original size:14 final size:14
Alignment explanation
Indices: 23316531--23316557 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23316521 ATAACCCAAT
23316531 CCCTAACCCCTAAC
1 CCCTAACCCCTAAC
23316545 CCCTAACCCCTAA
1 CCCTAACCCCTAA
23316558 ACCTTATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.56, G:0.00, T:0.15
Consensus pattern (14 bp):
CCCTAACCCCTAAC
Found at i:23316674 original size:7 final size:7
Alignment explanation
Indices: 23316664--23316708 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
23316654 CATCTAACAT
23316664 CTAACCC
1 CTAACCC
23316671 CTAA--C
1 CTAACCC
23316676 CTAACCC
1 CTAACCC
23316683 CTAA--C
1 CTAACCC
23316688 CTAACCC
1 CTAACCC
*
23316695 CTAATCC
1 CTAACCC
23316702 CTAACCC
1 CTAACCC
23316709 ATAAACCTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
5 10 0.31
7 22 0.69
ACGTcount: A:0.31, C:0.51, G:0.00, T:0.18
Consensus pattern (7 bp):
CTAACCC
Found at i:23316681 original size:12 final size:12
Alignment explanation
Indices: 23316664--23316708 Score: 72
Period size: 12 Copynumber: 3.6 Consensus size: 12
23316654 CATCTAACAT
23316664 CTAACCCCTAAC
1 CTAACCCCTAAC
23316676 CTAACCCCTAAC
1 CTAACCCCTAAC
23316688 CTAACCCCTAATCC
1 CTAACCCCTAA--C
23316702 CTAACCC
1 CTAACCC
23316709 ATAAACCTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 23 0.74
14 8 0.26
ACGTcount: A:0.31, C:0.51, G:0.00, T:0.18
Consensus pattern (12 bp):
CTAACCCCTAAC
Found at i:23316764 original size:14 final size:15
Alignment explanation
Indices: 23316742--23316775 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
23316732 CTTAAACTAG
*
23316742 AATCCCTAA-TCCAT
1 AATCTCTAATTCCAT
23316756 AATCTCTAATTCCAT
1 AATCTCTAATTCCAT
23316771 AATCT
1 AATCT
23316776 ATAAAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (15 bp):
AATCTCTAATTCCAT
Found at i:23317136 original size:114 final size:114
Alignment explanation
Indices: 23316936--23317521 Score: 1172
Period size: 114 Copynumber: 5.1 Consensus size: 114
23316926 TATTTGAAAT
23316936 GGCTTAGGTATTTTTGCGGCGCCTTCCCAAAAACGCCGATAAAGCCCTGAGCATTAGCGGCGCCT
1 GGCTTAGGTATTTTTGCGGCGCCTTCCCAAAAACGCCGATAAAGCCCTGAGCATTAGCGGCGCCT
23317001 ACTTAAAAACGCCACTAAATCCCCGAAAGCTTAGAAAACGGCGTCGTTG
66 ACTTAAAAACGCCACTAAATCCCCGAAAGCTTAGAAAACGGCGTCGTTG
23317050 GGCTTAGGTATTTTTGCGGCGCCTTCCCAAAAACGCCGATAAAGCCCTGAGCATTAGCGGCGCCT
1 GGCTTAGGTATTTTTGCGGCGCCTTCCCAAAAACGCCGATAAAGCCCTGAGCATTAGCGGCGCCT
23317115 ACTTAAAAACGCCACTAAATCCCCGAAAGCTTAGAAAACGGCGTCGTTG
66 ACTTAAAAACGCCACTAAATCCCCGAAAGCTTAGAAAACGGCGTCGTTG
23317164 GGCTTAGGTATTTTTGCGGCGCCTTCCCAAAAACGCCGATAAAGCCCTGAGCATTAGCGGCGCCT
1 GGCTTAGGTATTTTTGCGGCGCCTTCCCAAAAACGCCGATAAAGCCCTGAGCATTAGCGGCGCCT
23317229 ACTTAAAAACGCCACTAAATCCCCGAAAGCTTAGAAAACGGCGTCGTTG
66 ACTTAAAAACGCCACTAAATCCCCGAAAGCTTAGAAAACGGCGTCGTTG
23317278 GGCTTAGGTATTTTTGCGGCGCCTTCCCAAAAACGCCGATAAAGCCCTGAGCATTAGCGGCGCCT
1 GGCTTAGGTATTTTTGCGGCGCCTTCCCAAAAACGCCGATAAAGCCCTGAGCATTAGCGGCGCCT
23317343 ACTTAAAAACGCCACTAAATCCCCGAAAGCTTAGAAAACGGCGTCGTTG
66 ACTTAAAAACGCCACTAAATCCCCGAAAGCTTAGAAAACGGCGTCGTTG
23317392 GGCTTAGGTATTTTTGCGGCGCCTTCCCAAAAACGCCGATAAAGCCCTGAGCATTAGCGGCGCCT
1 GGCTTAGGTATTTTTGCGGCGCCTTCCCAAAAACGCCGATAAAGCCCTGAGCATTAGCGGCGCCT
23317457 ACTTAAAAACGCCACTAAATCCCCGAAAGCTTAGAAAACGGCGTCGTTG
66 ACTTAAAAACGCCACTAAATCCCCGAAAGCTTAGAAAACGGCGTCGTTG
23317506 GGCTTAGGTATTTTTG
1 GGCTTAGGTATTTTTG
23317522 AGCATTAGCG
Statistics
Matches: 472, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 472 1.00
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (114 bp):
GGCTTAGGTATTTTTGCGGCGCCTTCCCAAAAACGCCGATAAAGCCCTGAGCATTAGCGGCGCCT
ACTTAAAAACGCCACTAAATCCCCGAAAGCTTAGAAAACGGCGTCGTTG
Found at i:23318864 original size:101 final size:99
Alignment explanation
Indices: 23318598--23318894 Score: 366
Period size: 100 Copynumber: 3.0 Consensus size: 99
23318588 ATAGCTAGTA
* * * *
23318598 GTGCCGCCACATTTAGAGTTGACACCAAGAGAAATTTTTTTTACTGATTTTGGTGCCTCCACATG
1 GTGCCGCCACATTTAGAGTTGGCA-CTAGGGAATTTTTTTTTACTGATTTTGGTGCCTCCACATG
* *
23318663 AAGAGGCGACACCAAAAAATTCCAAAAAAAATTATAG
65 AAGAGGCGACACCGAAAAATT--AAAAAAATTTATAG
* * * *
23318700 GTGTCGTCACATTTGGAGTTGGCATTA-GGAATTTTTTTTTA-TAGATTTTGGTGCCTCCACATG
1 GTGCCGCCACATTTAGAGTTGGCACTAGGGAATTTTTTTTTACT-GATTTTGGTGCCTCCACATG
* **
23318763 ATGAGGCGACACCGAAAAGGTAAAAAAATTTACT-G
65 AAGAGGCGACACCGAAAAATTAAAAAAATTTA-TAG
* *
23318798 GTGCCGCCACATCTAAAGTTGGCACTAGGGGAATTTCTTTTTTACTGATTTTGGTGCCTCCACAT
1 GTGCCGCCACATTTAGAGTTGGCACTA-GGGAATTT-TTTTTTACTGATTTTGGTGCCTCCACAT
*
23318863 GAAGAGGCGGCACCGAAAAATTAAAAAAATTT
64 GAAGAGGCGACACCGAAAAATTAAAAAAATTT
23318895 TAAAAAAATT
Statistics
Matches: 166, Mismatches: 23, Indels: 13
0.82 0.11 0.06
Matches are distributed among these distances:
98 32 0.19
99 2 0.01
100 56 0.34
101 55 0.33
102 21 0.13
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (99 bp):
GTGCCGCCACATTTAGAGTTGGCACTAGGGAATTTTTTTTTACTGATTTTGGTGCCTCCACATGA
AGAGGCGACACCGAAAAATTAAAAAAATTTATAG
Found at i:23318993 original size:111 final size:112
Alignment explanation
Indices: 23318783--23318988 Score: 272
Period size: 111 Copynumber: 1.8 Consensus size: 112
23318773 ACCGAAAAGG
*
23318783 TAAAAAAATTTACTGGTGCCGCCACATCTAAAGTTGGCACTAGGGGAATTTCTTTTTTACTGATT
1 TAAAAAAATTTACTGGTGCCGCCACATCTAAAGTTGGCACCAGGGGAATTTCTTTTTTACTGATT
* **
23318848 TTGGTGCCTCCACATGAAGAGGCGGCACCGAAAAATTAAAAAAATTT
66 TTGGTGACTCCACATGAAGAGGCAACACCGAAAAATTAAAAAAATTT
* * * ** *
23318895 TAAAAAAA-TTATTGGTGTCGGCACATCTTGAGTTGGCACCAGGGGAATTT-TTTTAAATTATTG
1 TAAAAAAATTTACTGGTGCCGCCACATCTAAAGTTGGCACCAGGGGAATTTCTTTT---TTACTG
*
23318958 ATTTTGGTGACTCCACTTGAAGAGGCAACAC
63 ATTTTGGTGACTCCACATGAAGAGGCAACAC
23318989 AAAAAAAAAG
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
110 4 0.05
111 36 0.45
112 8 0.10
113 32 0.40
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (112 bp):
TAAAAAAATTTACTGGTGCCGCCACATCTAAAGTTGGCACCAGGGGAATTTCTTTTTTACTGATT
TTGGTGACTCCACATGAAGAGGCAACACCGAAAAATTAAAAAAATTT
Found at i:23319003 original size:113 final size:112
Alignment explanation
Indices: 23318783--23319007 Score: 265
Period size: 113 Copynumber: 2.0 Consensus size: 112
23318773 ACCGAAAAGG
*
23318783 TAAAAAAATTTACTGGTGCCGCCACATCTAAAGTTGGCACTAGGGGAATTTCTTTTTTACTGATT
1 TAAAAAAATTTACTGGTGCCGCCACATCTAAAGTTGGCACCAGGGGAATTTCTTTTTTACTGATT
* ** * **
23318848 TTGGTGCCTCCACATGAAGAGGCGGCACCGAAAAATTAAAAAAATTT
66 TTGGTGACTCCACATGAAGAGGCAACACCAAAAAAAAAAAAAAATTT
* * * ** *
23318895 TAAAAAAA-TTATTGGTGTCGGCACATCTTGAGTTGGCACCAGGGGAATTT-TTTTAAATTATTG
1 TAAAAAAATTTACTGGTGCCGCCACATCTAAAGTTGGCACCAGGGGAATTTCTTTT---TTACTG
* *
23318958 ATTTTGGTGACTCCACTTGAAGAGGCAACACAAAAAAAAAGAAAAAAATT
63 ATTTTGGTGACTCCACATGAAGAGGCAACACCAAAAAAAA-AAAAAAATT
23319008 ACACCGGTGC
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
110 4 0.04
111 36 0.38
112 8 0.09
113 37 0.39
114 9 0.10
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (112 bp):
TAAAAAAATTTACTGGTGCCGCCACATCTAAAGTTGGCACCAGGGGAATTTCTTTTTTACTGATT
TTGGTGACTCCACATGAAGAGGCAACACCAAAAAAAAAAAAAAATTT
Found at i:23321304 original size:12 final size:12
Alignment explanation
Indices: 23321289--23321328 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
23321279 TTGCATATAT
23321289 TACATAATAATA
1 TACATAATAATA
23321301 TACATAATAATA
1 TACATAATAATA
23321313 TACATATATATATA
1 TACATA-ATA-ATA
23321327 TA
1 TA
23321329 TATATAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 18 0.69
13 3 0.12
14 5 0.19
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (12 bp):
TACATAATAATA
Found at i:23323211 original size:112 final size:110
Alignment explanation
Indices: 23323071--23323340 Score: 418
Period size: 112 Copynumber: 2.4 Consensus size: 110
23323061 AAAAAAATTT
*
23323071 TTTTTTTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACACGAAATTTTTTTTTT
1 TTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACACG-AA---TTTTTTT
*
23323136 TATTTTTTTT-GTGTCAGAATCAGATAAAAAATACGAAAAAA-ATAAAA
62 TATTTTTTTTCGTGTCAGAATCAGATAAAAAATACGAAAAAATAAAAAA
*
23323183 TTTTTTTTGGGTGCTGGCCTGGCAATGGCCGGCACCCAGTACACAGTACACGAATTTTTTTTATT
1 TTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACACGAATTTTTTTTATT
*
23323248 TTTTTTCGTGTCAGAATTAGATAAAAAATACGAAAAAATAAAAAA
66 TTTTTTCGTGTCAGAATCAGATAAAAAATACGAAAAAATAAAAAA
****
23323293 AAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTA
1 TTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTA
23323341 GAAAGAAAAA
Statistics
Matches: 147, Mismatches: 9, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
108 17 0.12
109 30 0.20
110 48 0.33
111 2 0.01
112 50 0.34
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (110 bp):
TTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACACGAATTTTTTTTATT
TTTTTTCGTGTCAGAATCAGATAAAAAATACGAAAAAATAAAAAA
Found at i:23323319 original size:110 final size:110
Alignment explanation
Indices: 23323075--23323340 Score: 410
Period size: 110 Copynumber: 2.4 Consensus size: 110
23323065 AAATTTTTTT
*
23323075 TTTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACACGAAATTTTTTTTTTTATT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACACGAAA--TTTTTTTTTATT
* ****
23323140 TTTTTTGTGTCAGAATCAGATAAAAAATACGAAAAAAATAAAATTTT
64 TTTTTTGTGTCAGAATCAGATAAAAAATACGAAAAAAAAAAAAAAAA
*
23323187 TTTTGGGTGCTGGCCTGGCAATGGCCGGCACCCAGTACACAGTACACG-AA-TTTTTTTTATTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACACGAAATTTTTTTTTATTTT
*
23323250 TTTTCGTGTCAGAATTAGATAAAAAATACGAAAAAATAAAAAAAAAA
66 TTTT-GTGTCAGAATCAGATAAAAAATACGAAAAAA-AAAAAAAAAA
23323297 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTA
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTA
23323341 GAAAGAAAAA
Statistics
Matches: 143, Mismatches: 9, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
108 17 0.12
109 30 0.21
110 48 0.34
111 2 0.01
112 46 0.32
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (110 bp):
TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACACGAAATTTTTTTTTATTTT
TTTTGTGTCAGAATCAGATAAAAAATACGAAAAAAAAAAAAAAAA
Found at i:23323740 original size:110 final size:111
Alignment explanation
Indices: 23323345--23323881 Score: 716
Period size: 121 Copynumber: 4.8 Consensus size: 111
23323335 ACAGTAGAAA
* * *
23323345 GAAAAAAAATTTAAATTTTTTTTCTTTCTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCA
1 GAAAAAAAA--TAATTTTTTTTTC-GTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCA
*
23323410 CCCAAAAAATTTTTTTTTTTTAATTTTTTTCATATTTTTTTATCTGATTCTGACAC
63 CCC--AAAA--TTTTTTTTTT-A-TTTTTTCGTA-TTTTTTATCTGATTCTGACAC
* * *
23323466 GAAAAAAAATTTAAATTTTTTTTCTTTCTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCA
1 GAAAAAAAA--TAATTTTTTTTTC-GTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCA
*
23323531 CCCAAAATTTTTTTTTTATTTTTTTCGTATTTTTTATCTGATTATGACAC
63 CCCAAAATTTTTTTTTTA-TTTTTTCGTATTTTTTATCTGATTCTGACAC
* * *
23323581 GAAAGAAAATAAATTTTTTTTTCGTGTATTGTGTACTGGGTGCCCGCCATTGACAGGCCAGCACC
1 GAAAAAAAAT-AATTTTTTTTTCGTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACC
23323646 CAAAATTTTTTTTTTATTTTTTCGTATTTTTTATCTGATTCTGACAC
65 CAAAATTTTTTTTTTATTTTTTCGTATTTTTTATCTGATTCTGACAC
* *
23323693 -AAAAAAAATAATTTTTTTTTCATGTATTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC
1 GAAAAAAAATAATTTTTTTTTCGTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC
23323757 AAAA-------TTT-TTTTTT-GTATTTTTTATCTGATTCTGACAC
66 AAAATTTTTTTTTTATTTTTTCGTATTTTTTATCTGATTCTGACAC
*
23323794 GAAAAAAATAAAATTTTTTTTTCGTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACC
1 GAAAAAAA-ATAATTTTTTTTTCGTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACC
*
23323859 CAAAAATTTTTTTTTTGTTTTTT
65 C-AAAATTTTTTTTTTATTTTTT
23323882 TTTTCTTTTT
Statistics
Matches: 389, Mismatches: 15, Indels: 33
0.89 0.03 0.08
Matches are distributed among these distances:
101 24 0.06
102 13 0.03
103 57 0.15
104 4 0.01
110 57 0.15
111 11 0.03
112 36 0.09
113 55 0.14
114 11 0.03
115 28 0.07
116 11 0.03
117 10 0.03
119 4 0.01
121 68 0.17
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.43
Consensus pattern (111 bp):
GAAAAAAAATAATTTTTTTTTCGTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC
AAAATTTTTTTTTTATTTTTTCGTATTTTTTATCTGATTCTGACAC
Found at i:23323778 original size:101 final size:105
Alignment explanation
Indices: 23323445--23323883 Score: 548
Period size: 103 Copynumber: 4.1 Consensus size: 105
23323435 TTTTTCATAT
* * *
23323445 TTTTTTATCTGATTCTGACACGAAAAAAAATTTAAA-TTTTTTTTCTTTCTACTGTGTACTGGGT
1 TTTTTTATCTGATTCTGACACG-AAAAAAA-TAAAATTTTTTTTTC-ATGTACTGTGTACTGGGT
*
23323509 GCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTATTTTTTTCGTA
63 GCCGGCCATTGACAGGCCAGCACCCAAAA------ATTT-TTTTTTT-GTA
* * *
23323560 TTTTTTATCTGATTATGACACGAAAGAAAAT-AAATTTTTTTTTCGTGTATTGTGTACTGGGTGC
1 TTTTTTATCTGATTCTGACACGAAA-AAAATAAAATTTTTTTTTCATGTACTGTGTACTGGGTGC
* *
23323624 CCGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTATTTTTTCGTA
65 CGGCCATTGACAGGCCAGCACCCAAAA-----ATTTT-TTTTTT-GTA
* *
23323672 TTTTTTATCTGATTCTGACAC-AAAAAAA-ATAATTTTTTTTTCATGTATTGTGTACTGGGTGCC
1 TTTTTTATCTGATTCTGACACGAAAAAAATAAAATTTTTTTTTCATGTACTGTGTACTGGGTGCC
23323735 GGCCATTGACAGGCCAGCACCC-AAAA-TTTTTTTTTGTA
66 GGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTTGTA
*
23323773 TTTTTTATCTGATTCTGACACGAAAAAAATAAAATTTTTTTTTCGTGTACTGTGTACTGGGTGCC
1 TTTTTTATCTGATTCTGACACGAAAAAAATAAAATTTTTTTTTCATGTACTGTGTACTGGGTGCC
*
23323838 GGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTTGTT
66 GGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTTGTA
23323878 TTTTTT
1 TTTTTT
23323884 TTCTTTTTTG
Statistics
Matches: 302, Mismatches: 14, Indels: 26
0.88 0.04 0.08
Matches are distributed among these distances:
101 24 0.08
102 13 0.04
103 57 0.19
104 4 0.01
105 17 0.06
109 3 0.01
110 57 0.19
111 4 0.01
112 39 0.13
113 46 0.15
114 13 0.04
115 25 0.08
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.43
Consensus pattern (105 bp):
TTTTTTATCTGATTCTGACACGAAAAAAATAAAATTTTTTTTTCATGTACTGTGTACTGGGTGCC
GGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTTGTA
Found at i:23323856 original size:213 final size:220
Alignment explanation
Indices: 23323347--23323881 Score: 746
Period size: 213 Copynumber: 2.4 Consensus size: 220
23323337 AGTAGAAAGA
* *
23323347 AAAAAAATTTAAA-TTTTTTTTCTTTCTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCAC
1 AAAAAAA--TAAATTTTTTTTTC-GTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCAC
23323411 CCAAAAAATTTTTTTTTTTTAATTTTTTTCATATTTTTTTATCTGATTCTGACACGAAAAAAAAT
63 CC-AAAAA--TTTTTTTTTT-A-TTTTTTCATATTTTTTTATCTGATTCTGACACGAAAAAAAA-
*
23323476 TTAAATTTTTTTTCTTTCTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTT
122 TTAAATTTTTTTTCTATCTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA---
23323541 TTTTTTTATTTTTTTCGTATTTTTTATCTGATTATGACACG
184 ----TTTATTTTTTTCGTATTTTTTATCTGATTATGACACG
* *
23323582 AAAGAAAATAAATTTTTTTTTCGTGTATTGTGTACTGGGTGCCCGCCATTGACAGGCCAGCACCC
1 AAA-AAAATAAATTTTTTTTTCGTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC
* *
23323647 -AAAATTTTTTTTTTATTTTTTCGTA-TTTTTTATCTGATTCTGACAC-AAAAAAAA-TAATTTT
65 AAAAATTTTTTTTTTATTTTTTCATATTTTTTTATCTGATTCTGACACGAAAAAAAATTAAATTT
* *
23323708 TTTTTC-ATGTATTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA-TT-TTTTTTT
130 TTTTTCTATCTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTATTTTTTT
*
23323770 -GTATTTTTTATCTGATTCTGACACG
195 CGTATTTTTTATCTGATTATGACACG
23323795 AAAAAAATAAAATTTTTTTTTCGTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC
1 AAAAAAAT-AAATTTTTTTTTCGTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC
*
23323860 AAAAATTTTTTTTTTGTTTTTT
65 AAAAATTTTTTTTTTATTTTTT
23323882 TTTTCTTTTT
Statistics
Matches: 283, Mismatches: 13, Indels: 29
0.87 0.04 0.09
Matches are distributed among these distances:
212 5 0.02
213 81 0.29
214 27 0.10
215 2 0.01
223 44 0.16
224 12 0.04
226 8 0.03
227 21 0.07
228 9 0.03
229 1 0.00
230 10 0.04
232 4 0.01
234 43 0.15
235 12 0.04
236 4 0.01
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.43
Consensus pattern (220 bp):
AAAAAAATAAATTTTTTTTTCGTGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCA
AAAATTTTTTTTTTATTTTTTCATATTTTTTTATCTGATTCTGACACGAAAAAAAATTAAATTTT
TTTTCTATCTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTATTTTTTTC
GTATTTTTTATCTGATTATGACACG
Found at i:23325187 original size:36 final size:38
Alignment explanation
Indices: 23325095--23325190 Score: 106
Period size: 40 Copynumber: 2.5 Consensus size: 38
23325085 GGGCGCAACT
* *
23325095 TTCGTCAGCTTATCTGACTAGTGCTAGGCACATCATTATA
1 TTCGTCAGTTTATCTGACTAGCGCTAGGCACA-CA-TATA
* * * *
23325135 TTTGCCAGTTTATCTGACTAGCGTTAGGCACA-A-ATC
1 TTCGTCAGTTTATCTGACTAGCGCTAGGCACACATATA
23325171 TTCGTCAGTTTATCTGACTA
1 TTCGTCAGTTTATCTGACTA
23325191 ATATTGGCAC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
36 20 0.42
38 1 0.02
40 27 0.56
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (38 bp):
TTCGTCAGTTTATCTGACTAGCGCTAGGCACACATATA
Found at i:23328585 original size:28 final size:27
Alignment explanation
Indices: 23328546--23328724 Score: 187
Period size: 28 Copynumber: 6.4 Consensus size: 27
23328536 ACATGTCATA
* *
23328546 AAAAGGAAGCCTTTGTGGTGATTTATG
1 AAAAGGAAGCCTTTGTGGCGATCTATG
*
23328573 AAAAGAGAAGCCTTTGTGGCGATCTATA
1 AAAAG-GAAGCCTTTGTGGCGATCTATG
*
23328601 AAAAGGGAAGCCTTTGTGGCGATCTATA
1 AAAA-GGAAGCCTTTGTGGCGATCTATG
* *
23328629 AAAAGGAAAGCCTTTATGGCGATCAATG
1 AAAAGG-AAGCCTTTGTGGCGATCTATG
* **
23328657 AAAATGGAGGCCTTTGTCCCGATCTATG
1 AAAA-GGAAGCCTTTGTGGCGATCTATG
* * **
23328685 AAAAGAGAGGTCTTTGTGGTAATCTATG
1 AAAAG-GAAGCCTTTGTGGCGATCTATG
*
23328713 AAATGGAAGCCT
1 AAAAGGAAGCCT
23328725 GCATGGAATA
Statistics
Matches: 128, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
27 13 0.10
28 112 0.88
29 3 0.02
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (27 bp):
AAAAGGAAGCCTTTGTGGCGATCTATG
Found at i:23332873 original size:16 final size:19
Alignment explanation
Indices: 23332852--23332892 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
23332842 GAGTCTTGTG
23332852 TTTAT-ATTATAA-A-ATA
1 TTTATAATTATAATATATA
23332868 TTTATAAATTATAATATATA
1 TTTAT-AATTATAATATATA
23332888 TTTAT
1 TTTAT
23332893 TATTGGACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 5 0.24
18 7 0.33
19 1 0.05
20 8 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTATAATTATAATATATA
Found at i:23334642 original size:21 final size:21
Alignment explanation
Indices: 23334618--23334660 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
23334608 ATTAATGTTC
* *
23334618 ACTCTTTTGTATAGGGTAATA
1 ACTCTTTTGTATAAGCTAATA
23334639 ACTCTTTTGTATAAGCTAATA
1 ACTCTTTTGTATAAGCTAATA
23334660 A
1 A
23334661 TTGTCAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.42
Consensus pattern (21 bp):
ACTCTTTTGTATAAGCTAATA
Found at i:23336335 original size:13 final size:13
Alignment explanation
Indices: 23336317--23336342 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23336307 CATGCAAATT
23336317 AAAGAAAGAAAAG
1 AAAGAAAGAAAAG
23336330 AAAGAAAGAAAAG
1 AAAGAAAGAAAAG
23336343 GAGAAGAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAAG
Found at i:23339618 original size:18 final size:20
Alignment explanation
Indices: 23339595--23339632 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
23339585 TTTAAGTGAT
23339595 TTTTGA-AAA-AAAAATTAA
1 TTTTGATAAAGAAAAATTAA
*
23339613 TTTTGATAAAGTAAAATTAA
1 TTTTGATAAAGAAAAATTAA
23339633 ATTAATCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 3 0.18
20 8 0.47
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (20 bp):
TTTTGATAAAGAAAAATTAA
Found at i:23340133 original size:37 final size:37
Alignment explanation
Indices: 23340070--23340161 Score: 98
Period size: 37 Copynumber: 2.4 Consensus size: 37
23340060 ATTCCAAAAA
*
23340070 TAATATTATTTTAATAGTTTAATATTAAATTAA-ATT
1 TAATATTATCTTAATAGTTTAATATTAAATTAATATT
* *
23340106 TAATACTTATCTTAATAGTATT-TTATTAATTTAATATT
1 TAATA-TTATCTTAATAGT-TTAATATTAAATTAATATT
*
23340144 AAAGTGATTATCTTAATA
1 TAA-T-ATTATCTTAATA
23340162 TGAAATTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
36 5 0.11
37 22 0.47
38 7 0.15
39 12 0.26
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.51
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTAATATTAAATTAATATT
Found at i:23341614 original size:13 final size:13
Alignment explanation
Indices: 23341596--23341621 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23341586 GGTTTTCTCC
23341596 AAAATGAAAATGA
1 AAAATGAAAATGA
23341609 AAAATGAAAATGA
1 AAAATGAAAATGA
23341622 CCTGAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAATGAAAATGA
Found at i:23343096 original size:23 final size:23
Alignment explanation
Indices: 23343070--23343113 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
23343060 TTTGAGACTA
23343070 AAATTGAAATTAACCAATGGTCT
1 AAATTGAAATTAACCAATGGTCT
*
23343093 AAATTGCAATTAACCAATGGT
1 AAATTGAAATTAACCAATGGT
23343114 ACAAAACAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.30
Consensus pattern (23 bp):
AAATTGAAATTAACCAATGGTCT
Found at i:23347500 original size:78 final size:78
Alignment explanation
Indices: 23347418--23347612 Score: 309
Period size: 78 Copynumber: 2.5 Consensus size: 78
23347408 AAAATATATA
*
23347418 AATTGAATTCAAGGTATGAATTTTATATATGTATATGTGACGTTCGAATATATATGTATATACAT
1 AATTGAATTAAAGGTATGAATTTTATATATGTATATGTGACGTTCGAATATATATGTATATACAT
23347483 GTATAAGTTTTTG
66 GTATAAGTTTTTG
* * *
23347496 AATTGAATTAAAGGTATGAATTGTATATATGTATAAGTGAGGTTCGAATATATATGTATATACAT
1 AATTGAATTAAAGGTATGAATTTTATATATGTATATGTGACGTTCGAATATATATGTATATACAT
*
23347561 GTATAATTTTTTG
66 GTATAAGTTTTTG
* * * *
23347574 AATTGTATTAAAGGTATGAATCTTACATATGTATGTGTG
1 AATTGAATTAAAGGTATGAATTTTATATATGTATATGTG
23347613 TGATTCGAAT
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 106 1.00
ACGTcount: A:0.35, C:0.04, G:0.18, T:0.43
Consensus pattern (78 bp):
AATTGAATTAAAGGTATGAATTTTATATATGTATATGTGACGTTCGAATATATATGTATATACAT
GTATAAGTTTTTG
Found at i:23347620 original size:78 final size:76
Alignment explanation
Indices: 23347418--23347671 Score: 296
Period size: 78 Copynumber: 3.3 Consensus size: 76
23347408 AAAATATATA
*
23347418 AATTGAATTCAAGGTATGAATTTTATATATGTATATGTGACGTTCGAATATATATGTATATACAT
1 AATTGAATTAAAGGTATGAA-TTTATATATGTATATGTGA-GTTCGAATATATATGTATATACAT
23347483 GTATAAGTTTTTG
64 GTATAAGTTTTTG
*
23347496 AATTGAATTAAAGGTATGAATTGTATATATGTATAAGTGAGGTTCGAATATATATGTATATACAT
1 AATTGAATTAAAGGTATGAATT-TATATATGTATATGTGA-GTTCGAATATATATGTATATACAT
*
23347561 GTATAATTTTTTG
64 GTATAAGTTTTTG
* * * * * *
23347574 AATTGTATTAAAGGTATGAATCTTACATATGTATGTGTGTGATTCG-A-ATAGATGTATATTCAT
1 AATTGAATTAAAGGTATGAAT-TTATATATGTATATGTGAG-TTCGAATATATATGTATATACAT
* * * **
23347637 ATACAGGTACTTG
64 GTATAAGTTTTTG
* *
23347650 AGTTGAATTAAAAGTATGAATT
1 AATTGAATTAAAGGTATGAATT
23347672 GTAAATACTT
Statistics
Matches: 153, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
75 1 0.01
76 39 0.25
77 4 0.03
78 108 0.71
79 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (76 bp):
AATTGAATTAAAGGTATGAATTTATATATGTATATGTGAGTTCGAATATATATGTATATACATGT
ATAAGTTTTTG
Done.