Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold39
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: 4724573
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 178835 characters in sequence are not A, C, G, or T
File 12 of 27
Found at i:1895759 original size:17 final size:18
Alignment explanation
Indices: 1895730--1895775 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
1895720 TTTCTGTTTT
1895730 TTTATTATTTTTTTCTTGG
1 TTTATT-TTTTTTTCTTGG
*
1895749 TTT-TTTTTTTTTTTTGG
1 TTTATTTTTTTTTCTTGG
1895766 TTTATTTTTT
1 TTTATTTTTT
1895776 GGGTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 14 0.56
18 8 0.32
19 3 0.12
ACGTcount: A:0.07, C:0.02, G:0.09, T:0.83
Consensus pattern (18 bp):
TTTATTTTTTTTTCTTGG
Found at i:1895762 original size:30 final size:29
Alignment explanation
Indices: 1895726--1895789 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
1895716 CCCCTTTCTG
* *
1895726 TTTTTTTATT-ATTT-TTTTCTTGGTTTTT
1 TTTTTTTTTTGATTTATTTT-TTGGGTTTT
*
1895754 TTTTTTTTTTGGTTTATTTTTTGGGTTTT
1 TTTTTTTTTTGATTTATTTTTTGGGTTTT
1895783 TTTTTTT
1 TTTTTTT
1895790 GGGTTTTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 9 0.29
29 18 0.58
30 4 0.13
ACGTcount: A:0.05, C:0.02, G:0.11, T:0.83
Consensus pattern (29 bp):
TTTTTTTTTTGATTTATTTTTTGGGTTTT
Found at i:1895773 original size:12 final size:12
Alignment explanation
Indices: 1895754--1895798 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 12
1895744 CTTGGTTTTT
*
1895754 TTTTTTTTTTGG
1 TTTTTTTTTGGG
1895766 TTTATTTTTTGGG
1 TTT-TTTTTTGGG
1895779 TTTTTTTTTTTGGG
1 --TTTTTTTTTGGG
1895793 TTTTTT
1 TTTTTT
1895799 CTATTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
12 9 0.31
13 8 0.28
14 9 0.31
15 3 0.10
ACGTcount: A:0.02, C:0.00, G:0.18, T:0.80
Consensus pattern (12 bp):
TTTTTTTTTGGG
Found at i:1895822 original size:17 final size:17
Alignment explanation
Indices: 1895739--1895827 Score: 60
Period size: 17 Copynumber: 5.1 Consensus size: 17
1895729 TTTTATTATT
*
1895739 TTTTTCTTGGTTTTTTTT
1 TTTTT-TTGGTTTTTTTG
1895757 TTTTTTTGGTTTATTTT-
1 TTTTTTTGGTTT-TTTTG
*
1895774 TTGGGTTTTT--TTTTTTGGG
1 TT---TTTTTGGTTTTTT-TG
*
1895793 TTTTTTCT-ATTTTTTTG
1 TTTTTT-TGGTTTTTTTG
1895810 TTTTTTTGGTTTTTTTG
1 TTTTTTTGGTTTTTTTG
1895827 T
1 T
1895828 GTATAAAGGA
Statistics
Matches: 59, Mismatches: 3, Indels: 19
0.73 0.04 0.23
Matches are distributed among these distances:
16 5 0.08
17 29 0.49
18 18 0.31
19 2 0.03
20 5 0.08
ACGTcount: A:0.02, C:0.02, G:0.16, T:0.80
Consensus pattern (17 bp):
TTTTTTTGGTTTTTTTG
Found at i:1898006 original size:13 final size:13
Alignment explanation
Indices: 1897988--1898012 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1897978 TCTTTCCTTC
1897988 TTGCCTCATCATG
1 TTGCCTCATCATG
1898001 TTGCCTCATCAT
1 TTGCCTCATCAT
1898013 ATTTAGAAAG
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:0.16, C:0.32, G:0.12, T:0.40
Consensus pattern (13 bp):
TTGCCTCATCATG
Found at i:1898177 original size:198 final size:198
Alignment explanation
Indices: 1897839--1898203 Score: 721
Period size: 198 Copynumber: 1.8 Consensus size: 198
1897829 CAAGCCTTGC
1897839 AATTAGCCATGTGGTATGATACAACATGTATTGCCTGAGTCTTTTAGCTGTCCAAACCAAGCCAC
1 AATTAGCCATGTGGTATGATACAACATGTATTGCCTGAGTCTTTTAGCTGTCCAAACCAAGCCAC
*
1897904 AACATAACTTCTCGACTACAGGGTAATTGTACTTGCATTCTGTGAATTTTTTGCTTAAGTAGTAG
66 AACATAACTTCTCGACTACAGGGTAATTGCACTTGCATTCTGTGAATTTTTTGCTTAAGTAGTAG
1897969 ATTGCTTGTTCTTTCCTTCTTGCCTCATCATGTTGCCTCATCATATTTAGAAAGTAGGATCTTAG
131 ATTGCTTGTTCTTTCCTTCTTGCCTCATCATGTTGCCTCATCATATTTAGAAAGTAGGATCTTAG
1898034 CCT
196 CCT
1898037 AATTAGCCATGTGGTATGATACAACATGTATTGCCTGAGTCTTTTAGCTGTCCAAACCAAGCCAC
1 AATTAGCCATGTGGTATGATACAACATGTATTGCCTGAGTCTTTTAGCTGTCCAAACCAAGCCAC
1898102 AACATAACTTCTCGACTACAGGGTAATTGCACTTGCATTCTGTGAATTTTTTGCTTAAGTAGTAG
66 AACATAACTTCTCGACTACAGGGTAATTGCACTTGCATTCTGTGAATTTTTTGCTTAAGTAGTAG
1898167 ATTGCTTGTTCTTTCCTTCTTGCCTCATCATGTTGCC
131 ATTGCTTGTTCTTTCCTTCTTGCCTCATCATGTTGCC
1898204 CCAATACACA
Statistics
Matches: 166, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
198 166 1.00
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (198 bp):
AATTAGCCATGTGGTATGATACAACATGTATTGCCTGAGTCTTTTAGCTGTCCAAACCAAGCCAC
AACATAACTTCTCGACTACAGGGTAATTGCACTTGCATTCTGTGAATTTTTTGCTTAAGTAGTAG
ATTGCTTGTTCTTTCCTTCTTGCCTCATCATGTTGCCTCATCATATTTAGAAAGTAGGATCTTAG
CCT
Found at i:1900074 original size:51 final size:51
Alignment explanation
Indices: 1900005--1900105 Score: 202
Period size: 51 Copynumber: 2.0 Consensus size: 51
1899995 TGACCTAAAG
1900005 ATTGCCTCATCTTCTGGCTATGGATCATTCTTGCCTGCTGCTTCCTTGACT
1 ATTGCCTCATCTTCTGGCTATGGATCATTCTTGCCTGCTGCTTCCTTGACT
1900056 ATTGCCTCATCTTCTGGCTATGGATCATTCTTGCCTGCTGCTTCCTTGAC
1 ATTGCCTCATCTTCTGGCTATGGATCATTCTTGCCTGCTGCTTCCTTGAC
1900106 AGTGCATTAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.12, C:0.30, G:0.18, T:0.41
Consensus pattern (51 bp):
ATTGCCTCATCTTCTGGCTATGGATCATTCTTGCCTGCTGCTTCCTTGACT
Found at i:1910055 original size:20 final size:20
Alignment explanation
Indices: 1910030--1910104 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
1910020 TAAAAGACAT
*
1910030 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTCAAG
1910050 AATGTATCGATACATTCATA-
1 AATGTATCGATACATTCA-AG
*
1910070 CATGTATCGATACATTCAAG
1 AATGTATCGATACATTCAAG
*
1910090 AATGTATTGATACAT
1 AATGTATCGATACAT
1910105 CTGGGTACTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAG
Found at i:1910091 original size:40 final size:39
Alignment explanation
Indices: 1910027--1910104 Score: 129
Period size: 40 Copynumber: 2.0 Consensus size: 39
1910017 GGGTAAAAGA
*
1910027 CATAATGTATCGATACATTGAAGAATGTATCGATACATT
1 CATAATGTATCGATACATTCAAGAATGTATCGATACATT
*
1910066 CATACATGTATCGATACATTCAAGAATGTATTGATACAT
1 CATA-ATGTATCGATACATTCAAGAATGTATCGATACAT
1910105 CTGGGTACTT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 4 0.11
40 32 0.89
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTCAAGAATGTATCGATACATT
Found at i:1916646 original size:85 final size:85
Alignment explanation
Indices: 1916501--1916736 Score: 262
Period size: 85 Copynumber: 2.8 Consensus size: 85
1916491 TCCTGGGAAA
* * * * * *
1916501 CAACCTTTATCTCTTTGTCTACCTATTGGCTCAATCCTAGG-AGACACCTTTACCGTATGGTGAC
1 CAACCTTTATCTCTTTGTTTACCTATCGGCTCAGTCCTCGGTAGACACCATTACCCTATGGTGAC
*
1916565 TTGTCAGCTTCA-TCTCCAAT
66 CTGTCAGC-TCAGTCTCCAAT
* * * *
1916585 CAACCTTCATCTTTTTGTTTACTTGTCGGCTCAGTCCTCGGTAGACACCATTACCCTATGGTGAC
1 CAACCTTTATCTCTTTGTTTACCTATCGGCTCAGTCCTCGGTAGACACCATTACCCTATGGTGAC
* ****
1916650 CTGTCAGCTCAGTTTTTGGT
66 CTGTCAGCTCAGTCTCCAAT
* * *
1916670 CAACCTTTATCTCATTGTTTACCTATCGGCTCAGTCCTCGGTAAAC-CCATTACCCCTATGGTAA
1 CAACCTTTATCTCTTTGTTTACCTATCGGCTCAGTCCTCGGTAGACACCATTA-CCCTATGGTGA
1916734 CCT
65 CCT
1916737 TTATCTCATT
Statistics
Matches: 126, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
84 42 0.33
85 84 0.67
ACGTcount: A:0.20, C:0.29, G:0.15, T:0.36
Consensus pattern (85 bp):
CAACCTTTATCTCTTTGTTTACCTATCGGCTCAGTCCTCGGTAGACACCATTACCCTATGGTGAC
CTGTCAGCTCAGTCTCCAAT
Found at i:1917132 original size:435 final size:435
Alignment explanation
Indices: 1916322--1917606 Score: 2462
Period size: 435 Copynumber: 3.0 Consensus size: 435
1916312 TCTTCCAAAA
1916322 TTAAATGGGAAATTAAGCAATCTCTAAGGGTCTTAGATGACAGACTACCACATCTTCATAAGAAT
1 TTAAATGGGAAATTAAGCAATCTCTAAGGGTCTTAGATGACAGACTACCACATCTTCATAAGAAT
*
1916387 CCATCCTCTATTAACCACATTCAATCAAGTCCATTCTTGCTTGGTTGTGCTCGATTAGGCCTCAC
66 CCATCCTCTATTGACCACATTCAATCAAGTCCATTCTTGCTTGGTTGTGCTCGATTAGGCCTCAC
*
1916452 TCCGAACATCTTATATCCCTTGTTCGCCTGTCGGCTTAGTCCTGGGAAACAACCTTTATCTCTTT
131 TCCGAACATCTTATATCCCTTGTTCGCCTGTCGGCTTAGTCCTAGGAAACAACCTTTATCTCTTT
1916517 GTCTACCTATTGGCTCAATCCTAGGAGACACCTTTACCGTATGGTGACTTGTCAGCTTCATCTCC
196 GTCTACCTATTGGCTCAATCCTAGGAGACACCTTTACCGTATGGTGACTTGTCAGCTTCATCTCC
* *
1916582 AATCAACCTTCATCTTTTTGTTTACTTGTCGGCTCAGTCCTCGGTAGACACCATTACCCTATGGT
261 AATCAACCTTCATCTTTTTGTTTACTTGTCCGCTCAGTCCTTGGTAGACACCATTACCCTATGGT
*
1916647 GACCTGTCAGCTCAGTTTTTGGTCAACCTTTATCTCATTGTTTACCTATCGGCTCAGTCCTCGGT
326 GACCTGTCAGCTCAGTTTTTGGTCAACCTTTATCTCATTGTTTACCTATCGGCTCAGTCCCCGGT
1916712 AAACCCATTACCCCTATGGTAACCTTTATCTCATTTAATTCATCT
391 AAACCCATTACCCCTATGGTAACCTTTATCTCATTTAATTCATCT
* *
1916757 TTAAATGGGAAATTAAGCAATCTCTAAGGGTCTTAGATGACAAACTACCGCATCTTCATAAGAAT
1 TTAAATGGGAAATTAAGCAATCTCTAAGGGTCTTAGATGACAGACTACCACATCTTCATAAGAAT
1916822 CCATCCTCTATTGACCACATTCAATCAAGTCCATTCTTGCTTGGTTGTGCTCGATTAGGCCTCAC
66 CCATCCTCTATTGACCACATTCAATCAAGTCCATTCTTGCTTGGTTGTGCTCGATTAGGCCTCAC
1916887 TCCGAACATCTTATATCCCTTGTTCGCCTGTCGGCTTAGTCCTAGGAAACAACCTTTATCTCTTT
131 TCCGAACATCTTATATCCCTTGTTCGCCTGTCGGCTTAGTCCTAGGAAACAACCTTTATCTCTTT
*
1916952 GTCTACCTATTGGCTCAATCCTAGGAGACACCTTTACCGTATGGTGACTTGTTAGCTTCATCTCC
196 GTCTACCTATTGGCTCAATCCTAGGAGACACCTTTACCGTATGGTGACTTGTCAGCTTCATCTCC
1917017 AATCAACCTTCATCTTTTTGTTTACTTGTCCGCTCAGTCCTTGGTAGACACCATTACCCTATGGT
261 AATCAACCTTCATCTTTTTGTTTACTTGTCCGCTCAGTCCTTGGTAGACACCATTACCCTATGGT
*
1917082 GACCTGTCAACTCAGTTTTTGGTCAACCTTTATCTCATTGTTTACCTATCGGCTCAGTCCCCGGT
326 GACCTGTCAGCTCAGTTTTTGGTCAACCTTTATCTCATTGTTTACCTATCGGCTCAGTCCCCGGT
1917147 AAACCCATTACCCCTATGGTAACCTTTATCTCATTTAATTCATCT
391 AAACCCATTACCCCTATGGTAACCTTTATCTCATTTAATTCATCT
*
1917192 TTAAATGGGAAATTAAGCAATCTCTAAGGGTCTGAGATGACAGACTACCACATCTTCATAAGAAT
1 TTAAATGGGAAATTAAGCAATCTCTAAGGGTCTTAGATGACAGACTACCACATCTTCATAAGAAT
*
1917257 CCATCCTCTGTTGACCACATTCAATCAAGTCCATTCTTGCTTGGTTGTGCTCGATTAGGCCTCAC
66 CCATCCTCTATTGACCACATTCAATCAAGTCCATTCTTGCTTGGTTGTGCTCGATTAGGCCTCAC
1917322 TCCGAACATCTTATATCCCTTGTTCGCCTGTCGGCTTAGTCCTAGGAAACAACCTTTATCTCTTT
131 TCCGAACATCTTATATCCCTTGTTCGCCTGTCGGCTTAGTCCTAGGAAACAACCTTTATCTCTTT
1917387 GTCTACCTATTGGCTCAATCCTAGGAGACACCTTTACCGTATGGTGACTTGTCAGCTTCATCTCC
196 GTCTACCTATTGGCTCAATCCTAGGAGACACCTTTACCGTATGGTGACTTGTCAGCTTCATCTCC
1917452 AATCAACCTTCATCTTTTTGTTTACTTGTCCGCTCAGTCCTTGGTAGACACCATTACCCTATGGT
261 AATCAACCTTCATCTTTTTGTTTACTTGTCCGCTCAGTCCTTGGTAGACACCATTACCCTATGGT
1917517 GACCTGTCAGCTCAGTTTTTGGTCAACCTTTATCTCATTGTTTACCTATCGGCTCAGTCCCCGGT
326 GACCTGTCAGCTCAGTTTTTGGTCAACCTTTATCTCATTGTTTACCTATCGGCTCAGTCCCCGGT
*
1917582 AAACCCATTACCCTTATGGTAACCT
391 AAACCCATTACCCCTATGGTAACCT
1917607 ATTAGCTTAG
Statistics
Matches: 834, Mismatches: 16, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
435 834 1.00
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.34
Consensus pattern (435 bp):
TTAAATGGGAAATTAAGCAATCTCTAAGGGTCTTAGATGACAGACTACCACATCTTCATAAGAAT
CCATCCTCTATTGACCACATTCAATCAAGTCCATTCTTGCTTGGTTGTGCTCGATTAGGCCTCAC
TCCGAACATCTTATATCCCTTGTTCGCCTGTCGGCTTAGTCCTAGGAAACAACCTTTATCTCTTT
GTCTACCTATTGGCTCAATCCTAGGAGACACCTTTACCGTATGGTGACTTGTCAGCTTCATCTCC
AATCAACCTTCATCTTTTTGTTTACTTGTCCGCTCAGTCCTTGGTAGACACCATTACCCTATGGT
GACCTGTCAGCTCAGTTTTTGGTCAACCTTTATCTCATTGTTTACCTATCGGCTCAGTCCCCGGT
AAACCCATTACCCCTATGGTAACCTTTATCTCATTTAATTCATCT
Found at i:1917543 original size:85 final size:84
Alignment explanation
Indices: 1917371--1918057 Score: 398
Period size: 85 Copynumber: 8.3 Consensus size: 84
1917361 TCCTAGGAAA
* * * * * * *
1917371 CAACCTTTATCTCTTTGTCTACCTATTGGCTCAAT-CCTAGG-AGACACCTTTACCGTATGGTGA
1 CAACCTTCATCTTTTTGTTTACCTA-TCGCTCAGTCCCT-GGTAGACACCATTACCCTATGGTGA
* * * ***
1917434 CTTGTCAGCTTCA-TCTCCAAT
64 CCTATTAGC-TCAGTCTCTGGT
* * *
1917455 CAACCTTCATCTTTTTGTTTACTTGTCCGCTCAGTCCTTGGTAGACACCATTACCCTATGGTGAC
1 CAACCTTCATCTTTTTGTTTACCTAT-CGCTCAGTCCCTGGTAGACACCATTACCCTATGGTGAC
* * * *
1917520 CTGTCAGCTCAGTTTTTGGT
65 CTATTAGCTCAGTCTCTGGT
* ** * * *
1917540 CAACCTTTATCTCATTGTTTACCTATCGGCTCAGTCCCCGGTAAAC-CCATTACCCTTATGGTAA
1 CAACCTTCATCTTTTTGTTTACCTATC-GCTCAGTCCCTGGTAGACACCATTACCC-TATGGTGA
* * *
1917604 CCTATTAGCTTAGTTTGTGGT
64 CCTATTAGCTCAGTCTCTGGT
* ** * ** * * * *
1917625 TAACCTTCATCTCATTGTTTACCTATTGTCTTTGTCACTAGTAAAC-CCATTACCTTTATGGTGA
1 CAACCTTCATCTTTTTGTTTACCTATCG-CTCAGTCCCTGGTAGACACCATTACC-CTATGGTGA
* * *
1917689 CCTGTTAGCTTAGTCTCTAGT
64 CCTATTAGCTCAGTCTCTGGT
* * ** * * * *
1917710 TAACCTCCATCTCATTGTTTATCTGTCAGCCCAGTCCTTGGTAGACACCATTACCCCTATGGTGA
1 CAACCTTCATCTTTTTGTTTACCTATC-GCTCAGTCCCTGGTAGACACCATTA-CCCTATGGTGA
**
1917775 CCTATTAGCTCAGTCTCCAGT
64 CCTATTAGCTCAGTCTCTGGT
* * *
1917796 TAA-CTTCATC-ATTTGTTTACCTAT--CT--GT---T--TAG--ACCTTTACACCTATGGTGAC
1 CAACCTTCATCTTTTTGTTTACCTATCGCTCAGTCCCTGGTAGACACCATTAC-CCTATGGTGAC
1917848 CTATTAGCTCAGTC-CTTGGT
65 CTATTAGCTCAGTCTC-TGGT
* *
1917868 CAACCTTCATC-TTTTGTTTACCTGTCGACTCAGTCCCTGGTA-A-ATCCCTTATCCCT-TGGTG
1 CAACCTTCATCTTTTTGTTTACCTATCG-CTCAGTCCCTGGTAGACA-CCATTA-CCCTATGGTG
*
1917929 ACCTATCAGCTCAGTCTCTGGT
63 ACCTATTAGCTCAGTCTCTGGT
** * * * * *
1917951 CAACCTTCATCTTTTCATTTACCTATTGGCTTAGTCCCTGGTA-AAACCCTTACACCTATGGTGG
1 CAACCTTCATCTTTTTGTTTACCTA-TCGCTCAGTCCCTGGTAGACACCATTAC-CCTATGGTGA
* * * * *
1918015 CTTGTCAACTTAGTC-CTCGGT
64 CCTATTAGCTCAGTCTCT-GGT
*
1918036 CAACCTTCATCTTCTTGTTTAC
1 CAACCTTCATCTTTTTGTTTAC
1918058 ATGTTGGCTT
Statistics
Matches: 484, Mismatches: 85, Indels: 67
0.76 0.13 0.11
Matches are distributed among these distances:
71 2 0.00
72 35 0.07
73 19 0.04
74 3 0.01
76 3 0.01
78 2 0.00
79 2 0.00
81 2 0.00
83 40 0.08
84 96 0.20
85 242 0.50
86 36 0.07
87 2 0.00
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.38
Consensus pattern (84 bp):
CAACCTTCATCTTTTTGTTTACCTATCGCTCAGTCCCTGGTAGACACCATTACCCTATGGTGACC
TATTAGCTCAGTCTCTGGT
Found at i:1917975 original size:42 final size:40
Alignment explanation
Indices: 1917846--1917976 Score: 113
Period size: 42 Copynumber: 3.1 Consensus size: 40
1917836 ACCTATGGTG
*
1917846 ACCTATTAGCTCAGTCCTTGGTCAACCTTCATCTTTTGTTT
1 ACCTATCAGCTCAGTCC-TGGTCAACCTTCATCTTTTGTTT
* * ** * *
1917887 ACCTGTC-GACTCAGTCCCTGGTAAATCCCTT-ATCCCTTGGTG
1 ACCTATCAG-CTCAGT-CCTGGTCAA--CCTTCATCTTTTGTTT
*
1917929 ACCTATCAGCTCAGTCTCTGGTCAACCTTCATCTTTTCATTT
1 ACCTATCAGCTCAGTC-CTGGTCAACCTTCATCTTTT-GTTT
1917971 ACCTAT
1 ACCTAT
1917977 TGGCTTAGTC
Statistics
Matches: 68, Mismatches: 14, Indels: 15
0.70 0.14 0.15
Matches are distributed among these distances:
40 5 0.07
41 23 0.34
42 35 0.51
43 5 0.07
ACGTcount: A:0.18, C:0.31, G:0.13, T:0.38
Consensus pattern (40 bp):
ACCTATCAGCTCAGTCCTGGTCAACCTTCATCTTTTGTTT
Found at i:1918065 original size:85 final size:82
Alignment explanation
Indices: 1917832--1918089 Score: 261
Period size: 85 Copynumber: 3.1 Consensus size: 82
1917822 GTTTAGACCT
* * * * *
1917832 TTACACCTATGGTGACCTATTAGCTCAGTCCTTGGTCAACCTTCATCTTTTGTTTACCTGTCGAC
1 TTAC-CCT-TGGTGACCTATCAACTCAGTCCTCGGTCAACCTTCATCTTTTGTTTACCTGTTGGC
* *
1917897 TCAGTCCCTGGTAAATCCC
64 TTAGTCCCTGGTAAAACCC
* * *
1917916 TTATCCCTTGGTGACCTATCAGCTCAGT-CTCTGGTCAACCTTCATCTTTTCATTTACCTATTGG
1 TTA-CCCTTGGTGACCTATCAACTCAGTCCTC-GGTCAACCTTCATCTTTT-GTTTACCTGTTGG
1917980 CTTAGTCCCTGGTAAAACCC
63 CTTAGTCCCTGGTAAAACCC
* * * * *
1918000 TTACACCTATGGTGGCTTGTCAACTTAGTCCTCGGTCAACCTTCATCTTCTTGTTTACATGTTGG
1 TTAC-CCT-TGGTGACCTATCAACTCAGTCCTCGGTCAACCTTCATCTT-TTGTTTACCTGTTGG
*
1918065 CTTTA-T-CCTCGGTAAACCCC
63 C-TTAGTCCCT-GGTAAAACCC
1918085 TTACC
1 TTACC
1918090 TTTTTTGGTG
Statistics
Matches: 148, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
82 2 0.01
83 38 0.26
84 43 0.29
85 57 0.39
86 8 0.05
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.37
Consensus pattern (82 bp):
TTACCCTTGGTGACCTATCAACTCAGTCCTCGGTCAACCTTCATCTTTTGTTTACCTGTTGGCTT
AGTCCCTGGTAAAACCC
Found at i:1919352 original size:166 final size:163
Alignment explanation
Indices: 1919154--1919641 Score: 558
Period size: 166 Copynumber: 3.0 Consensus size: 163
1919144 AATTATGAGA
** ** * *
1919154 TTTT-TTCTCCGTAAATGTTTTCGGGAGGATTTTTCTTAATTTTTAATTTTTAAAATTCATCTAA
1 TTTTCTTCTCCGTAAAT-TTTTTTGG-GGATTTTTCTTGGTTTTTAATTTTTAAAATTTATCAAA
* * **
1919218 TACTATTATTTAATTCATATTAGCTTAGTTTTCAAAAAAAT-ATTCATTTTCATGAGTTTTTCCT
64 TATTATTATTTATTTCATATTAAATTAGTTTTCAAAAAAATCATTCATTTTCATGAGTTTTTCCT
1919282 TTTTTCCTTGAAATTCTCCTATTTTCAAAGTACAAAG
129 TTTTTCCTTGAAATT-TCCTATTTTCAAA-TACAAAG
* *
1919319 TTTTCTTCTCCGTAAATTTTTTTAAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTTTTAAAA
1 TTTTCTTCTCCGTAAATTTTTTT--GGGGATTTTTCTTGGTTTTTAATTTTTAAAATTTATCAAA
* *
1919384 TATTATTATTTATTTCATATTAAATT--TTTTTAAAAAAATTCATTCATTTTCATGAGTTTTTCA
64 TATTATTATTTATTTCATATTAAATTAGTTTTCAAAAAAA-TCATTCATTTTCATGAGTTTTTCC
* * * *
1919447 TTTTTACCTTGAAATTTCTCTATTTTTGAAATACAGAT
128 TTTTTTCCTTGAAATTTC-CTA-TTTTCAAATACAAAG
* **
1919485 TTTTCTACTTTGTAAATTTTTTTGGGTAGATTTTTCTTGGTTTTTAATTTTTAAAATTTATCAAA
1 TTTTCTTCTCCGTAAATTTTTTTGGG--GATTTTTCTTGGTTTTTAATTTTTAAAATTTATCAAA
* * * *
1919550 TGTTATTATTTATTTCATATTAAATCAGTTTTC-AAAAATTCACTCATGTTT-ATGAGTTTTT-C
64 TATTATTATTTATTTCATATTAAATTAGTTTTCAAAAAAATCATTCAT-TTTCATGAGTTTTTCC
* * *
1919612 ATTTTTCCTTCAAATTTTCCTATTTCCAAA
128 TTTTTTCCTTGAAA-TTTCCTATTTTCAAA
1919642 AAATCGTGTT
Statistics
Matches: 276, Mismatches: 34, Indels: 27
0.82 0.10 0.08
Matches are distributed among these distances:
164 20 0.07
165 25 0.09
166 210 0.76
167 17 0.06
168 4 0.01
ACGTcount: A:0.28, C:0.11, G:0.08, T:0.53
Consensus pattern (163 bp):
TTTTCTTCTCCGTAAATTTTTTTGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTTATCAAATA
TTATTATTTATTTCATATTAAATTAGTTTTCAAAAAAATCATTCATTTTCATGAGTTTTTCCTTT
TTTCCTTGAAATTTCCTATTTTCAAATACAAAG
Found at i:1925217 original size:18 final size:19
Alignment explanation
Indices: 1925174--1925221 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
1925164 ATTTAGCTTA
* *
1925174 TTTTTTCTATTTTCTTTCTT
1 TTTTTTCT-TTTCCTTTCAT
1925194 TTTTTTCTTTTCCTTT-AT
1 TTTTTTCTTTTCCTTTCAT
1925212 TTTTTTCTTT
1 TTTTTTCTTT
1925222 ATTTTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 11 0.42
19 7 0.27
20 8 0.31
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTTCTTTTCCTTTCAT
Found at i:1925228 original size:13 final size:13
Alignment explanation
Indices: 1925181--1925229 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
1925171 TTATTTTTTC
*
1925181 TATTTTCTTTCTT
1 TATTTTTTTTCTT
*
1925194 TTTTTTCTTTTCCTT
1 TATTTT-TTTT-CTT
1925209 TA-TTTTTTTCTT
1 TATTTTTTTTCTT
1925221 TATTTTTTT
1 TATTTTTTT
1925230 ATCCACTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 5 0.17
13 15 0.50
14 6 0.20
15 4 0.13
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (13 bp):
TATTTTTTTTCTT
Found at i:1925229 original size:12 final size:12
Alignment explanation
Indices: 1925181--1925229 Score: 53
Period size: 14 Copynumber: 3.8 Consensus size: 12
1925171 TTATTTTTTC
1925181 TATTTTCTTTCTTT
1 TATTTT-TTTC-TT
*
1925195 TTTTTCTTTTCCTT
1 TATTT-TTTT-CTT
1925209 TATTTTTTTCTT
1 TATTTTTTTCTT
1925221 TATTTTTTT
1 TATTTTTTT
1925230 ATCCACTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 12 0.39
13 4 0.13
14 13 0.42
15 2 0.06
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (12 bp):
TATTTTTTTCTT
Found at i:1925877 original size:166 final size:166
Alignment explanation
Indices: 1925610--1926039 Score: 481
Period size: 166 Copynumber: 2.6 Consensus size: 166
1925600 ATAAACTGAG
* * ** * *
1925610 AAAA-CCCCTCAAAAATGTTTGTGGAATGGAAAACTCG-AGTTTTCGAAAACAAAAGAATTTCAA
1 AAAACCCCCCCAAAAATATTTACGGAATAGAAAACTCGAATTTTTC-AAAACAAAAGAATTTCAA
* *
1925673 --ATAAAAATG--AA---ATGAAAATAAAT-AATATTTTGAAAACTGATTTACTATGATTTAAAT
65 GGAAAAAAATGAAAACTCATGAAAATAAATGAAT-TTTTCAAAACTGATTTACTATGATTTAAAT
* * * *
1925730 AAAGATATTTTATGATTATTAAAAATTTTGAACTAAGA
129 AAAGATATTTGAAGAATATTAAAAATTTTGAACCAAGA
* * * * *
1925768 AAAATTCCCCCTAAAAATATTTACGGAATGGAAAACT-TAATTTTTCAAAA-ATAAGCAATTTCA
1 AAAA-CCCCCCCAAAAATATTTACGGAATAGAAAACTCGAATTTTTCAAAACAAAAG-AATTTCA
*
1925831 AGGAAAAAAATGAAAACTTATGAAAATAAATGAATTTTTCAAAACTGATTTACTATGATTTAAAT
64 AGGAAAAAAATGAAAACTCATGAAAATAAATGAATTTTTCAAAACTGATTTACTATGATTTAAAT
* * *
1925896 GATGATATTTGAAGAATATTAAAAATTTTGAACCGAGA
129 AAAGATATTTGAAGAATATTAAAAATTTTGAACCAAGA
* * * * * *
1925934 AAAACCCCCCCGAAAATATTTATGGAATAGAAAACTCGATTTTTTGAAAACAAAAGAATTTTAGG
1 AAAACCCCCCCAAAAATATTTACGGAATAGAAAACTCGAATTTTTCAAAACAAAAGAATTTCAAG
*
1925999 GAAAAAAATGAAAACTCAT-AAAATAAATGAATTTTACAAAA
66 GAAAAAAATGAAAACTCATGAAAATAAATGAATTTTTCAAAA
1926040 TTTATAGAAA
Statistics
Matches: 228, Mismatches: 30, Indels: 21
0.82 0.11 0.08
Matches are distributed among these distances:
158 8 0.04
159 12 0.05
160 32 0.14
161 8 0.04
163 2 0.01
165 48 0.21
166 111 0.49
167 7 0.03
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.30
Consensus pattern (166 bp):
AAAACCCCCCCAAAAATATTTACGGAATAGAAAACTCGAATTTTTCAAAACAAAAGAATTTCAAG
GAAAAAAATGAAAACTCATGAAAATAAATGAATTTTTCAAAACTGATTTACTATGATTTAAATAA
AGATATTTGAAGAATATTAAAAATTTTGAACCAAGA
Found at i:1929950 original size:90 final size:90
Alignment explanation
Indices: 1929806--1930134 Score: 394
Period size: 91 Copynumber: 3.6 Consensus size: 90
1929796 GCACTGACCA
* * * * * *
1929806 CACATTCCCCAATCATATCC-CTTTTCGTTAACCACTAGATAGTATTGACGCATCATATAATCCA
1 CACATTTCCCAATCATATCCTC-TTTC-TCAACCACTAGATGGTACTAATGCATCATATAATCCA
1929870 AGATCTTCGGGGCAAGGATATCCCAAC
64 AGATCTTCGGGGCAAGGATATCCCAAC
*
1929897 CACATTTCCCAATCATATCCTCTTTCTTAACCACTAGATGGTACTAATGCATCATATAATCCAAG
1 CACATTTCCCAATCATATCCTCTTTCTCAACCACTAGATGGTACTAATGCATCATATAATCCAAG
* *
1929962 ATCTCCGTGGCAAGGATATCCCAAC
66 ATCTTCGGGGCAAGGATATCCCAAC
* * * *
1929987 CACATTTTGCCAATCATATCTTCTTTCTCAACCACTAGATGGTACTGATGCATTATATAAATCCA
1 CACA-TTTCCCAATCATATCCTCTTTCTCAACCACTAGATGGTACTAATGCATCATAT-AATCCA
* *
1930052 AGATC-TCTGGGGCAAAGATATCCTAAC
64 AGATCTTC-GGGGCAAGGATATCCCAAC
* * * *
1930079 CGCATATTCCTAATCATATCATTTTTCCTCAACCACTAGATGGTA-TCAATGCATCA
1 CACAT-TTCCCAATCATATCCTCTTT-CTCAACCACTAGATGGTACT-AATGCATCA
1930135 CAAAGCTTGG
Statistics
Matches: 208, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
90 62 0.30
91 73 0.35
92 48 0.23
93 25 0.12
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (90 bp):
CACATTTCCCAATCATATCCTCTTTCTCAACCACTAGATGGTACTAATGCATCATATAATCCAAG
ATCTTCGGGGCAAGGATATCCCAAC
Found at i:1930045 original size:91 final size:90
Alignment explanation
Indices: 1929835--1930123 Score: 391
Period size: 90 Copynumber: 3.2 Consensus size: 90
1929825 CCTTTTCGTT
* * * *
1929835 AACCACTAGATAGTATTGACGCATCATATAATCCAAGATCTTCGGGGCAAGGATATCCCAACCAC
1 AACCACTAGATGGTACTGATGCATCATATAATCCAAGATCTCCGGGGCAAGGATATCCCAACCAC
* * *
1929900 ATTTCCCAATCATATCCTCTTTCTT
66 ATTTTCCAATCATATCTTCTTTCTC
* *
1929925 AACCACTAGATGGTACTAATGCATCATATAATCCAAGATCTCCGTGGCAAGGATATCCCAACCAC
1 AACCACTAGATGGTACTGATGCATCATATAATCCAAGATCTCCGGGGCAAGGATATCCCAACCAC
1929990 ATTTTGCCAATCATATCTTCTTTCTC
66 ATTTT-CCAATCATATCTTCTTTCTC
* * * * *
1930016 AACCACTAGATGGTACTGATGCATTATATAAATCCAAGATCTCTGGGGCAAAGATATCCTAACCG
1 AACCACTAGATGGTACTGATGCATCATAT-AATCCAAGATCTCCGGGGCAAGGATATCCCAACCA
*
1930081 CATATTCCTAATCATATCATT-TTTCCTC
65 CATTTTCC-AATCATATC-TTCTTT-CTC
1930109 AACCACTAGATGGTA
1 AACCACTAGATGGTA
1930124 TCAATGCATC
Statistics
Matches: 177, Mismatches: 17, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
90 63 0.36
91 47 0.27
92 47 0.27
93 20 0.11
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (90 bp):
AACCACTAGATGGTACTGATGCATCATATAATCCAAGATCTCCGGGGCAAGGATATCCCAACCAC
ATTTTCCAATCATATCTTCTTTCTC
Found at i:1930535 original size:20 final size:20
Alignment explanation
Indices: 1930506--1930567 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
1930496 TATCGGTATA
*
1930506 ATAAGTGAATGTATCGATAC
1 ATAAGGGAATGTATCGATAC
*
1930526 ATAAGGGAATGTATCAATAC
1 ATAAGGGAATGTATCGATAC
** *
1930546 ATATTTGAAATGTATCGATAC
1 ATA-AGGGAATGTATCGATAC
1930567 A
1 A
1930568 GGACCATGTC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
20 21 0.60
21 14 0.40
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ATAAGGGAATGTATCGATAC
Found at i:1930659 original size:31 final size:32
Alignment explanation
Indices: 1930624--1930704 Score: 110
Period size: 32 Copynumber: 2.6 Consensus size: 32
1930614 TACATTTTTC
*
1930624 ATTATATGGATACATTCT-GGGTTTTGACCTA
1 ATTATATTGATACATTCTAGGGTTTTGACCTA
* *
1930655 ATTATATTGATACATTCTAGGTTTTTGGCCTA
1 ATTATATTGATACATTCTAGGGTTTTGACCTA
* *
1930687 AATGTATTGATACATTCT
1 ATTATATTGATACATTCT
1930705 TCATTGTGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 17 0.39
32 27 0.61
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.44
Consensus pattern (32 bp):
ATTATATTGATACATTCTAGGGTTTTGACCTA
Found at i:1932821 original size:141 final size:141
Alignment explanation
Indices: 1932567--1932827 Score: 432
Period size: 141 Copynumber: 1.9 Consensus size: 141
1932557 CTAGAAAGCG
* *
1932567 ATTTTTCGAGATTTTTAAAATATTTTTAGATAAACCCTCTTTGAGTCACCTTTCTAATAGTACCT
1 ATTTTTCGAGATTTTTAAAATATTTTTAGATAAACCATCTTTGAGTCACCTTTCTAACAGTACCT
* *
1932632 TGTCCATTCTCCAAAACCTTCAAACTAACTTAAAATAAATTCAGAAAATAGGACAGTACCTTTCT
66 TGTCCATTCTCCAAAACCTTCAAACTAACTCAAAACAAATTCAGAAAATAGGACAGTACCTTTCT
1932697 AACAAAAAGTA
131 AACAAAAAGTA
* *
1932708 ATTTTTTGAGATTTTTAAAATATTTTTAGATAAACCATCTTTGAGTCACCTTTCTAACAGTATCT
1 ATTTTTCGAGATTTTTAAAATATTTTTAGATAAACCATCTTTGAGTCACCTTTCTAACAGTACCT
* * * *
1932773 TGTCCGTTCTCTAAAACCTTCAAACTAACTCAAAACAAATTTAGAAAATGGGACA
66 TGTCCATTCTCCAAAACCTTCAAACTAACTCAAAACAAATTCAGAAAATAGGACA
1932828 ACGCGATGTT
Statistics
Matches: 110, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
141 110 1.00
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (141 bp):
ATTTTTCGAGATTTTTAAAATATTTTTAGATAAACCATCTTTGAGTCACCTTTCTAACAGTACCT
TGTCCATTCTCCAAAACCTTCAAACTAACTCAAAACAAATTCAGAAAATAGGACAGTACCTTTCT
AACAAAAAGTA
Found at i:1935384 original size:40 final size:40
Alignment explanation
Indices: 1935274--1935385 Score: 118
Period size: 40 Copynumber: 2.8 Consensus size: 40
1935264 ATCAGTTTTG
* *
1935274 CCCTAGCCAACCTTTTAATTGGTTGACTTTGTTAATTTCG
1 CCCTAGCCAACCTTTTAATTGGTTGACTTTATTAATTTCA
* * * * * **
1935314 CCCTTGTCAACCCTTATACTT-GTTGGCTTTATTGGTTTCA
1 CCCTAGCCAA-CCTTTTAATTGGTTGACTTTATTAATTTCA
*
1935354 CCCTGGCCAACCTTTTAATTGGTTGACTTTAT
1 CCCTAGCCAACCTTTTAATTGGTTGACTTTAT
1935386 CAGTTTTGTC
Statistics
Matches: 56, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
39 8 0.14
40 40 0.71
41 8 0.14
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.43
Consensus pattern (40 bp):
CCCTAGCCAACCTTTTAATTGGTTGACTTTATTAATTTCA
Found at i:1935404 original size:80 final size:80
Alignment explanation
Indices: 1935255--1935419 Score: 190
Period size: 80 Copynumber: 2.1 Consensus size: 80
1935245 TAGGCAACTC
** * * *
1935255 GTTGGCTTTATCAGTTTTGCCCTAGCCAACCTTTTAATTGGTTGACTTTGTTAATTTCGCCCTTG
1 GTTGGCTTTATCAGTTTCACCCTAGCCAACCTTTTAATTGGTTGACTTTATCAATTTCGCCCATG
1935320 TCAACCCTTA-TACTT
66 TCAA-CCTTACTACTT
** * * * *
1935335 GTTGGCTTTATTGGTTTCACCCTGGCCAACCTTTTAATTGGTTGACTTTATCAGTTTTG-TCATG
1 GTTGGCTTTATCAGTTTCACCCTAGCCAACCTTTTAATTGGTTGACTTTATCAATTTCGCCCATG
*
1935399 ATCAACCTTACTATTT
66 -TCAACCTTACTACTT
1935415 GTTGG
1 GTTGG
1935420 TTTTTTCGAT
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
79 8 0.11
80 63 0.89
ACGTcount: A:0.18, C:0.21, G:0.17, T:0.44
Consensus pattern (80 bp):
GTTGGCTTTATCAGTTTCACCCTAGCCAACCTTTTAATTGGTTGACTTTATCAATTTCGCCCATG
TCAACCTTACTACTT
Found at i:1935778 original size:42 final size:42
Alignment explanation
Indices: 1935726--1935865 Score: 140
Period size: 42 Copynumber: 3.3 Consensus size: 42
1935716 AGTAAATCTT
*
1935726 TTTATCCTTTGGTGACTTGTCAATTCAATCTTGGTCAACTTC
1 TTTATCCTTTGTTGACTTGTCAATTCAATCTTGGTCAACTTC
* * ** * * *
1935768 TTTATCCTTTGTTTACTTATCGGCTT-AGTCTTGGGT-AAATCC
1 TTTATCCTTTGTTGACTTGTC-AATTCAATCTT-GGTCAACTTC
* * *
1935810 TTTTATCCTTTGTTGACTTGACAGTTCATTCTTGGTCAACTTC
1 -TTTATCCTTTGTTGACTTGTCAATTCAATCTTGGTCAACTTC
1935853 TTTATCCTTTGTT
1 TTTATCCTTTGTT
1935866 TACATGTTGG
Statistics
Matches: 77, Mismatches: 16, Indels: 10
0.75 0.16 0.10
Matches are distributed among these distances:
42 45 0.58
43 32 0.42
ACGTcount: A:0.16, C:0.20, G:0.14, T:0.49
Consensus pattern (42 bp):
TTTATCCTTTGTTGACTTGTCAATTCAATCTTGGTCAACTTC
Found at i:1935783 original size:85 final size:85
Alignment explanation
Indices: 1935638--1935988 Score: 391
Period size: 85 Copynumber: 4.1 Consensus size: 85
1935628 TCAAGTATCA
* * ** * * *
1935638 CCTTTTATCCTTTGTTGACTTGTCGGTTAAATCCCGATTAAC--CTTTCAATCCTTTATTTACCT
1 CCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTTGGTCAACTTCTTT--ATCCTTTGTTTACCT
* * * * *
1935701 ATCAGCTCAATCCAGAGTAAAT
64 ATCGGCTTAGTCCTGGGTAAAT
* * * *
1935723 CTTTTTATCCTTTGGTGACTTGTCAATTCAATCTTGGTCAACTTCTTTATCCTTTGTTTACTTAT
1 CCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTTGGTCAACTTCTTTATCCTTTGTTTACCTAT
*
1935788 CGGCTTAGTCTTGGGTAAAT
66 CGGCTTAGTCCTGGGTAAAT
* * * *
1935808 CCTTTTATCCTTTGTTGACTTGACAGTTCATTCTTGGTCAACTTCTTTATCCTTTGTTTACATGT
1 CCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTTGGTCAACTTCTTTATCCTTTGTTTACCTAT
*
1935873 TGGCTTAGTCCTGGGTAAAT
66 CGGCTTAGTCCTGGGTAAAT
* * ** * *
1935893 CCTTTTATCCTTTGTTGACTGGTCGGTTCAATCAAGATCAACTTCTTTATCCTTTGTTTACCTGT
1 CCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTTGGTCAACTTCTTTATCCTTTGTTTACCTAT
** *
1935958 CAACTTAGTCATGGGTAAAT
66 CGGCTTAGTCCTGGGTAAAT
1935978 CCTTTTATCCT
1 CCTTTTATCCT
1935989 AGTTAACTTT
Statistics
Matches: 226, Mismatches: 38, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
85 222 0.98
87 4 0.02
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.45
Consensus pattern (85 bp):
CCTTTTATCCTTTGTTGACTTGTCAGTTCAATCTTGGTCAACTTCTTTATCCTTTGTTTACCTAT
CGGCTTAGTCCTGGGTAAAT
Found at i:1935820 original size:43 final size:43
Alignment explanation
Indices: 1935768--1935908 Score: 146
Period size: 43 Copynumber: 3.3 Consensus size: 43
1935758 GGTCAACTTC
1935768 TTTATCCTTTGTTTACTTATCGGCTTAGTCTTGGGTAAATCCT
1 TTTATCCTTTGTTTACTTATCGGCTTAGTCTTGGGTAAATCCT
* * * * *
1935811 TTTATCCTTTGTTGACTTGA-CAG-TTCATTCTT-GGTCAA-CTT
1 TTTATCCTTTGTTTACTT-ATCGGCTT-AGTCTTGGGTAAATCCT
* * * *
1935852 CTTTATCCTTTGTTTACATGTTGGCTTAGTCCTGGGTAAATCCT
1 -TTTATCCTTTGTTTACTTATCGGCTTAGTCTTGGGTAAATCCT
1935896 TTTATCCTTTGTT
1 TTTATCCTTTGTT
1935909 GACTGGTCGG
Statistics
Matches: 77, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
41 2 0.03
42 28 0.36
43 44 0.57
44 3 0.04
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.50
Consensus pattern (43 bp):
TTTATCCTTTGTTTACTTATCGGCTTAGTCTTGGGTAAATCCT
Found at i:1936027 original size:61 final size:61
Alignment explanation
Indices: 1935932--1936047 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 61
1935922 AATCAAGATC
* **
1935932 AACTTCTTTATCCTTTGTTTACCTGTCAACTTAGTCATGGGTAAATCCTTTTATCCTAGTT
1 AACTTCTTTATCCTTTGTTTACCTATCAACTTAGTCACAGGTAAATCCTTTTATCCTAGTT
* * * *
1935993 AACTTTTTTATCCTTTGTTTACCTATCGACTTAGTCCCAGGTAAATCTTTTTATC
1 AACTTCTTTATCCTTTGTTTACCTATCAACTTAGTCACAGGTAAATCCTTTTATC
1936048 ATTTGTTAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.47
Consensus pattern (61 bp):
AACTTCTTTATCCTTTGTTTACCTATCAACTTAGTCACAGGTAAATCCTTTTATCCTAGTT
Found at i:1936112 original size:146 final size:146
Alignment explanation
Indices: 1935847--1936134 Score: 362
Period size: 146 Copynumber: 2.0 Consensus size: 146
1935837 ATTCTTGGTC
* * * ** * *
1935847 AACTTCTTTATCCTTTGTTTACATGTTGGCTTAGTCCTGGGTAAATCCTTTTATCCTTTGTTGAC
1 AACTTCTTTATCCTTTGTTTACATATCGACTTAGTCCCAGGTAAATCCTTTTATCATTTGTTAAC
* * **
1935912 TGGTCGGTTCAATCAAGATCAACTTCTTTATCCTTTGTTTACCTGTCAACTTAGTCATGGGTAAA
66 TGGTCAGTTCAATCAAGATCAACTTCTTTATCCTTTGTTTACCTATCAACTTAGTCACAGGTAAA
1935977 TCCTTTTATCCTAGTT
131 TCCTTTTATCCTAGTT
* * *
1935993 AACTTTTTTATCCTTTGTTTACCTATCGACTTAGTCCCAGGTAAATCTTTTTATCATTTGTTAAC
1 AACTTCTTTATCCTTTGTTTACATATCGACTTAGTCCCAGGTAAATCCTTTTATCATTTGTTAAC
* * ** * * * *
1936058 TTGTCAGTTTAATTCCTG-TCAACTTCTTTATCCTTTGTTTATCTATCGATTTAGTCCCAGGTAA
66 TGGTCAGTTCAA-TCAAGATCAACTTCTTTATCCTTTGTTTACCTATCAACTTAGTCACAGGTAA
1936122 ATCCTTTTATCCT
130 ATCCTTTTATCCT
1936135 TTGTTAACCT
Statistics
Matches: 119, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
146 116 0.97
147 3 0.03
ACGTcount: A:0.20, C:0.21, G:0.12, T:0.46
Consensus pattern (146 bp):
AACTTCTTTATCCTTTGTTTACATATCGACTTAGTCCCAGGTAAATCCTTTTATCATTTGTTAAC
TGGTCAGTTCAATCAAGATCAACTTCTTTATCCTTTGTTTACCTATCAACTTAGTCACAGGTAAA
TCCTTTTATCCTAGTT
Found at i:1936132 original size:43 final size:43
Alignment explanation
Indices: 1935997--1936139 Score: 141
Period size: 43 Copynumber: 3.3 Consensus size: 43
1935987 CTAGTTAACT
* *
1935997 TTTTTATCCTTTGTTTACCTATCGACTTAGTCCCAGGTAAATC
1 TTTTTATCCTTTGTTTAACTATCGATTTAGTCCCAGGTAAATC
* * * * * *
1936040 TTTTTATCATTTG-TTAACTTGTC-AGTTTAATTCC-TGTCAA-C
1 TTTTTATCCTTTGTTTAAC-TATCGA-TTTAGTCCCAGGTAAATC
*
1936081 TTCTTTATCCTTTGTTTATCTATCGATTTAGTCCCAGGTAAATC
1 TT-TTTATCCTTTGTTTAACTATCGATTTAGTCCCAGGTAAATC
*
1936125 CTTTTATCCTTTGTT
1 TTTTTATCCTTTGTT
1936140 AACCTATTGT
Statistics
Matches: 77, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
41 3 0.04
42 29 0.38
43 43 0.56
44 2 0.03
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.50
Consensus pattern (43 bp):
TTTTTATCCTTTGTTTAACTATCGATTTAGTCCCAGGTAAATC
Found at i:1937803 original size:332 final size:331
Alignment explanation
Indices: 1937236--1937996 Score: 859
Period size: 332 Copynumber: 2.3 Consensus size: 331
1937226 AGTTTTTAAC
* * ** * *
1937236 TTCAAAATTCTTCAAATATTATTATTTAATTATAATTAAATTAGTTTTCCAAAATCCCTTTTGTT
1 TTCAAAATTCATCAAATATTA-TAATTAATTA-AATTAAATTAGTTTTAAAAAATTCC-TTTATT
* * * * *
1937301 TCATAAGTTTTTCA--TTTTTCCATT-AAATTCTTCATATTTTTGAAATATGGAATTTTCTTCTC
63 TCATAAGTTTTTCATTTTTTTCC-TTGAAATTC-TCCTATTCTAGAAATATAGAATTTTCTACTC
* * * * * *
1937363 CGTAAATTTTTTCGAGAGGATTTTTATCGGTTCAAAATTTTTAATATTCATCAAATATTATTATT
126 CGTAAATGTTTTCGAGAGGATTTTTATCAGTTCAAAATTTTTAAAATTCATAAAATATCATCATT
* * *
1937428 TTACTCATATTAAATCAGTTTTGAAAAATCCATTTATTTTCATGAGTTTTTTC-ATTTTTCCTTA
191 TAACTCACATTAAATCAGTTTTGAAAAATCCATTTATTTTCATGAATTTTTTCAATTTTTCCTTA
* *
1937492 AAATTCCCTTA-TTTCTAAAATACGGAGTTTTCTACTCCGTAAATGTTTGCGCAGGGATTTGTCT
256 AAATTCCCTTATTTTC-AAAATACGGAGTGTTCTACTCCATAAATGTTTGCGCAGGGATTTGTCT
*
1937556 TGGTTTATAATT
320 TAGTTTATAATT
* *
1937568 TTCAAAATTCATCAAATATTATCATATAATTCAAATTAAATTAGTTTTGAAAAATTCCTTTATTT
1 TTCAAAATTCATCAAATATTATAAT-TAATT-AAATTAAATTAGTTTTAAAAAATTCCTTTATTT
* * *
1937633 CATTAGTTTTTCATTTTTTTCCTTGAAATTCTCCTATCTCTAG-AATATAGAGTTTTCTACTCTG
64 CATAAGTTTTTCATTTTTTTCCTTGAAATTCTCCTAT-TCTAGAAATATAGAATTTTCTACTCCG
* * * * *
1937697 TAAATGTTTTC-AGGGGGATTTTTCTTAGTTTATAATTTTTAAAATTCATAAAATATCATCATTT
128 TAAATGTTTTCGA-GAGGATTTTTATCAGTTCAAAATTTTTAAAATTCATAAAATATCATCATTT
* * *
1937761 AACTCACATTAAATCAGTTTTGAAAAATTGCTTTTA-TTTCATGAATTTTTTCAAATTTTTTCTT
192 AACTCACATTAAATCAGTTTTGAAAAA-TCCATTTATTTTCATGAATTTTTTC-AATTTTTCCTT
* * * * * ** *
1937825 GAAATTCTCTTGTTTTCAAAATATGGAGTGTTCTACTCCATAAATGTTTTCGGGGGGATTTTTCT
255 AAAATTCCCTTATTTTCAAAATACGGAGTGTTCTACTCCATAAATGTTTGCGCAGGGATTTGTCT
1937890 TAGTTTATAATT
320 TAGTTTATAATT
* * * *
1937902 TTTAAAATTCATCAAA-ATT-TAATTAA-T--ACTAAATTAGCTTTAAAAAATTCATTTATTTTC
1 TTCAAAATTCATCAAATATTATAATTAATTAAATTAAATTAGTTTTAAAAAATTCCTTTA-TTTC
*
1937962 ATAAGTTTTTCATTTTTTT--TTGAAATTTTCCTATT
65 ATAAGTTTTTCATTTTTTTCCTTGAAATTCTCCTATT
1937997 TTCAAAAATC
Statistics
Matches: 366, Mismatches: 51, Indels: 31
0.82 0.11 0.07
Matches are distributed among these distances:
325 1 0.00
326 14 0.04
327 24 0.07
328 22 0.06
330 1 0.00
331 24 0.07
332 165 0.45
333 26 0.07
334 85 0.23
335 4 0.01
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.48
Consensus pattern (331 bp):
TTCAAAATTCATCAAATATTATAATTAATTAAATTAAATTAGTTTTAAAAAATTCCTTTATTTCA
TAAGTTTTTCATTTTTTTCCTTGAAATTCTCCTATTCTAGAAATATAGAATTTTCTACTCCGTAA
ATGTTTTCGAGAGGATTTTTATCAGTTCAAAATTTTTAAAATTCATAAAATATCATCATTTAACT
CACATTAAATCAGTTTTGAAAAATCCATTTATTTTCATGAATTTTTTCAATTTTTCCTTAAAATT
CCCTTATTTTCAAAATACGGAGTGTTCTACTCCATAAATGTTTGCGCAGGGATTTGTCTTAGTTT
ATAATT
Found at i:1938060 original size:156 final size:160
Alignment explanation
Indices: 1937272--1938068 Score: 567
Period size: 166 Copynumber: 4.9 Consensus size: 160
1937262 TAATTATAAT
** * * * ** *
1937272 TAAATTAGTTTTCCAAAATCCCTTTTGTTTCATAAGTTTTTCATTTTTCCATT-AAATTCTTCAT
1 TAAATTAGTTTTGAAAAAT-TCATTTATTTCATAAGTTTTTCATTTTT-TTTTGAAATTC-TCCT
* * * * * * * * * * ** * *
1937336 ATTTTTGAAATATGGAATTTTCTTCTCCGTAAATTTTTTCGAGAGGATTTTTATCGGTTCAAAAT
63 A-TTTTCAAAAATAGAGTTTTCTACTCCATAAATGTTTTAG-GGGGATTTTTCTTAGTTTATAAT
* * * * * *
1937401 TTTTAATATTCATCAAATATTATTATTTTACTCATA
126 TTTTAAAATTCATAAAATA-TATCAATTAACTCACA
* * * ** *
1937437 TTAAATCAGTTTTGAAAAATCCATTTATTTTCATGAGTTTTTTCATTTTTCCTTAAAATTC-CCT
1 -TAAATTAGTTTTGAAAAATTCATTTA-TTTCATAAG-TTTTTCATTTTTTTTTGAAATTCTCCT
* * ** * * *
1937501 -TATTTCTAAAATACGGAGTTTTCTACTCCGTAAATGTTTGCGCAGGGATTTGTCTTGGTTTATA
63 AT-TTTCAAAAATA--GAGTTTTCTACTCCATAAATGTTTTAG-GGGGATTTTTCTTAGTTTATA
* * * *
1937565 ATTTTCAAAATTCATCAAATATTATC-ATATAATTCAAA
124 ATTTTTAAAATTCATAAAATA-TATCAAT-TAACTCACA
* *
1937603 TTAAATTAGTTTTGAAAAATTCCTTTATTTCATTAGTTTTTCATTTTTTTCCTTGAAATTCTCCT
1 -TAAATTAGTTTTGAAAAATTCATTTATTTCATAAGTTTTTCATTTTTTT--TTGAAATTCTCCT
* * **
1937668 A-TCTCTAGAATATAGAGTTTTCTACTCTGTAAATGTTTTCAGGGGGATTTTTCTTAGTTTATAA
63 ATTTTC-A-AAAATAGAGTTTTCTACTCCATAAATGTTTT-AGGGGGATTTTTCTTAGTTTATAA
*
1937732 TTTTTAAAATTCATAAAATATCATCATTTAACTCACA
125 TTTTTAAAATTCATAAAATAT-ATCAATTAACTCACA
* * * *
1937769 TTAAATCAGTTTTGAAAAATTGCTTTTATTTCATGAATTTTTTCAAATTTTTTCTTGAAATTCTC
1 -TAAATTAGTTTTGAAAAATT-CATTTATTTCAT-AAGTTTTTC--ATTTTTTTTTGAAATTCTC
* * * * *
1937834 TTGTTTTCAAAATATGGAGTGTTCTACTCCATAAATGTTTTCGGGGGGATTTTTCTTAGTTTATA
61 CTATTTTCAAAA-ATAGAGTTTTCTACTCCATAAATGTTTT-AGGGGGATTTTTCTTAGTTTATA
1937899 ATTTTTAAAATTCATCAAAAT-T-T-AATTAA-T-AC-
124 ATTTTTAAAATTCAT-AAAATATATCAATTAACTCACA
* * *
1937931 TAAATTAGCTTTAAAAAATTCATTTATTTTCATAAGTTTTTCATTTTTTTTTGAAATTTTCCTAT
1 TAAATTAGTTTTGAAAAATTCATTTA-TTTCATAAGTTTTTCATTTTTTTTTGAAATTCTCCTAT
* * * * * **
1937996 TTTCAAAAATCGA-TTTTCTATTCCATAAATATTTTTGGGTGGATGTTTCTCGGTTTA-ACATTT
65 TTTCAAAAATAGAGTTTTCTACTCCATAAATGTTTTAGGG-GGATTTTTCTTAGTTTATA-ATTT
1938059 TTAAAATTCA
128 TTAAAATTCA
1938069 CCTAACATTG
Statistics
Matches: 521, Mismatches: 84, Indels: 62
0.78 0.13 0.09
Matches are distributed among these distances:
155 4 0.01
156 47 0.09
157 4 0.01
158 27 0.05
160 13 0.02
161 23 0.04
163 3 0.01
164 20 0.04
165 22 0.04
166 219 0.42
167 36 0.07
168 88 0.17
169 8 0.02
170 7 0.01
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.48
Consensus pattern (160 bp):
TAAATTAGTTTTGAAAAATTCATTTATTTCATAAGTTTTTCATTTTTTTTTGAAATTCTCCTATT
TTCAAAAATAGAGTTTTCTACTCCATAAATGTTTTAGGGGGATTTTTCTTAGTTTATAATTTTTA
AAATTCATAAAATATATCAATTAACTCACA
Found at i:1940550 original size:297 final size:297
Alignment explanation
Indices: 1940011--1940553 Score: 675
Period size: 297 Copynumber: 1.8 Consensus size: 297
1940001 CGCATATAGG
* * * * *
1940011 GGGCATTTTCGTGATTTTTCTAGAATGGAGTCCTAATTTGTCACTAGGTCACTTTTATGCCAAAG
1 GGGCATTTTCATAATTTTTCTAAAATGGAGTCCTAATTTGTCACCAGGTCACTTCTATGCCAAAG
* *
1940076 GTATGTATTAGGCATCAATTTGCTTTTCCTTTGTAAGTCCTTTAGGATTATTAGGTACTTTCATA
66 GTATGTATTAGGCATCAATTTGCTTTTCCTTTGTAAGTCCTTTAGGATTACTAGGAACTTTCATA
* * * *
1940141 TAGAAGGTATACCCATAGGGGCATTTTCATGATTTTTCTAGAACCAAGTCCTAATTTGTCACCGG
131 TAGAAGGTATACCCATAAGGGCATTTTCATAATTTTTCTACAACCAAGTCCTAATTTGTCACAGG
* * * *
1940206 ATCACATCTATGCCGAAGGTACGTATTATGCATAGGTTTGCTTTTTCTTTTTAAGTTCTTTAGGG
196 ATCACATCTATGCCGAAGGTACGTATTAGGCATAAGTTCGATTTTTCTTTTTAAGTTCTTTAGGG
1940271 TTACCAAGATACTTCTATGTTAAAGGTATACTTAGAA
261 TTACCAAGATACTTCTATGTTAAAGGTATACTTAGAA
* * ** * ** *
1940308 GGGCATTTTCATAATTTTTCTAAAATTGAGTCCTAATTTGTCACCGGGTTTCTTCTGTGCTGAGG
1 GGGCATTTTCATAATTTTTCTAAAATGGAGTCCTAATTTGTCACCAGGTCACTTCTATGCCAAAG
*
1940373 GTATGTATTAGGCAT-AGGTTTGCTTTTCCTTT-TAAGTCCTTTAAGG-TTACTAGGAAACTTTC
66 GTATGTATTAGGCATCA-ATTTGCTTTTCCTTTGTAAGTCCTTT-AGGATTACTAGG-AACTTTC
* * ** * *
1940435 ATATCA-AAGGTATATCCATAAGGGTATTTTTGTAACTTTTT-TACAACTAAGTCCTTATTTGTC
128 ATAT-AGAAGGTATACCCATAAGGGCATTTTCATAA-TTTTTCTACAACCAAGTCCTAATTTGTC
* * * * *
1940498 ACTAGG-TCACTTCTATGCTGAGGGTATGTATTAGGGATAAGTTCGATTTTTCTTTT
191 AC-AGGATCACATCTATGCCGAAGGTACGTATTAGGCATAAGTTCGATTTTTCTTTT
1940554 ATTTTTCAAT
Statistics
Matches: 205, Mismatches: 35, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
296 18 0.09
297 179 0.87
298 8 0.04
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (297 bp):
GGGCATTTTCATAATTTTTCTAAAATGGAGTCCTAATTTGTCACCAGGTCACTTCTATGCCAAAG
GTATGTATTAGGCATCAATTTGCTTTTCCTTTGTAAGTCCTTTAGGATTACTAGGAACTTTCATA
TAGAAGGTATACCCATAAGGGCATTTTCATAATTTTTCTACAACCAAGTCCTAATTTGTCACAGG
ATCACATCTATGCCGAAGGTACGTATTAGGCATAAGTTCGATTTTTCTTTTTAAGTTCTTTAGGG
TTACCAAGATACTTCTATGTTAAAGGTATACTTAGAA
Found at i:1940553 original size:148 final size:146
Alignment explanation
Indices: 1940011--1940554 Score: 499
Period size: 148 Copynumber: 3.7 Consensus size: 146
1940001 CGCATATAGG
* * * * * *
1940011 GGGCATTTTCGTGATTTTTCTAGAA-TGGAGTCCTAATTTGTCACTAGGTCACTTTTATGCCAAA
1 GGGCATTTTCATAATTTTTCTAAAACT-AAGTCCTAATTTGTCACTAGGTCACTTCTATGCCGAA
*
1940075 GGTATGTATTAGGCATCAA-TTTGCTTTTCCTTTGTAAGTCCTTT-AGGATTATTAGG-TACTTT
65 GGTATGTATTAGGCAT-AAGTTTGCTTTTCCTTT-TAAGTCCTTTAAGG-TTACTAGGATACTTT
*
1940137 CATATAGAAGGTATACCCATAG
127 CATATA-AAGGTATA-CCATAA
* * * * *
1940159 GGGCATTTTCATGATTTTTCTAGAACCAAGTCCTAATTTGTCAC-CGGATCACATCTATGCCGAA
1 GGGCATTTTCATAATTTTTCTAAAACTAAGTCCTAATTTGTCACTAGG-TCACTTCTATGCCGAA
* * * * * * * *
1940223 GGTACGTATTATGCATAGGTTTGCTTTTTCTTTTTAAGTTCTTTAGGGTTACCAAGATAC-TTCT
65 GGTATGTATTAGGCATAAGTTTGC-TTTTCCTTTTAAGTCCTTTAAGGTTACTAGGATACTTTC-
* * *
1940287 ATGTTAAAGGTATACTTAGAA
128 AT-ATAAAGGTATAC-CATAA
* * ** ** * * *
1940308 GGGCATTTTCATAATTTTTCTAAAATTGAGTCCTAATTTGTCACCGGGTTTCTTCTGTGCTGAGG
1 GGGCATTTTCATAATTTTTCTAAAACTAAGTCCTAATTTGTCACTAGGTCACTTCTATGCCGAAG
* *
1940373 GTATGTATTAGGCATAGGTTTGCTTTTCCTTTTAAGTCCTTTAAGGTTACTAGGAAACTTTCATA
66 GTATGTATTAGGCATAAGTTTGCTTTTCCTTTTAAGTCCTTTAAGGTTACTAGGATACTTTCATA
1940438 TCAAAGGTATATCCATAA
131 T-AAAGGTATA-CCATAA
* ** * * * *
1940456 GGGTATTTTTGTAACTTTTT-TACAACTAAGTCCTTATTTGTCACTAGGTCACTTCTATGCTGAG
1 GGGCATTTTCATAA-TTTTTCTAAAACTAAGTCCTAATTTGTCACTAGGTCACTTCTATGCCGAA
* * * *
1940520 GGTATGTATTAGGGATAAGTTCGATTTTTCTTTTA
65 GGTATGTATTAGGCATAAGTTTGCTTTTCCTTTTA
1940555 TTTTTCAATT
Statistics
Matches: 322, Mismatches: 60, Indels: 28
0.79 0.15 0.07
Matches are distributed among these distances:
147 4 0.01
148 209 0.65
149 105 0.33
150 4 0.01
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (146 bp):
GGGCATTTTCATAATTTTTCTAAAACTAAGTCCTAATTTGTCACTAGGTCACTTCTATGCCGAAG
GTATGTATTAGGCATAAGTTTGCTTTTCCTTTTAAGTCCTTTAAGGTTACTAGGATACTTTCATA
TAAAGGTATACCATAA
Found at i:1943169 original size:16 final size:15
Alignment explanation
Indices: 1943137--1943184 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
1943127 GCTGGTTCAT
1943137 CCAACCTTTTTTCTTTG
1 CCAA-CTTTTTT-TTTG
1943154 CCAACTCTTTTTTTTG
1 CCAACT-TTTTTTTTG
* *
1943170 TCAACTTTTTATTTG
1 CCAACTTTTTTTTTG
1943185 ATTTTTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 8 0.29
16 11 0.39
17 9 0.32
ACGTcount: A:0.15, C:0.23, G:0.06, T:0.56
Consensus pattern (15 bp):
CCAACTTTTTTTTTG
Found at i:1950057 original size:18 final size:18
Alignment explanation
Indices: 1950034--1950078 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
1950024 TGTTGACATT
*
1950034 GTGCTTGGTAGTTCAAAC
1 GTGCTTGGTAATTCAAAC
*
1950052 GTGCTTAGTAATTCAAAC
1 GTGCTTGGTAATTCAAAC
*
1950070 ATGCTTGGT
1 GTGCTTGGT
1950079 CGATTATTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (18 bp):
GTGCTTGGTAATTCAAAC
Found at i:1956254 original size:7 final size:7
Alignment explanation
Indices: 1956222--1956257 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
1956212 CCTATCAAAG
1956222 TTTGA-A
1 TTTGACA
*
1956228 TTTGAAA
1 TTTGACA
1956235 TTTGACA
1 TTTGACA
1956242 TTTGACA
1 TTTGACA
1956249 TTTGACA
1 TTTGACA
1956256 TT
1 TT
1956258 AATATGAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
6 5 0.18
7 23 0.82
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.47
Consensus pattern (7 bp):
TTTGACA
Found at i:1956586 original size:20 final size:21
Alignment explanation
Indices: 1956558--1956609 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1956548 ATAAGCCTTA
*
1956558 GTATTGATACATTCA-TTTTT
1 GTATTGATACATTCACTTGTT
* *
1956578 GTATCGATACATTGACTTGTT
1 GTATTGATACATTCACTTGTT
1956599 GTATTGATACA
1 GTATTGATACA
1956610 AATTATAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 13 0.48
21 14 0.52
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (21 bp):
GTATTGATACATTCACTTGTT
Found at i:1959382 original size:165 final size:164
Alignment explanation
Indices: 1958813--1959535 Score: 724
Period size: 166 Copynumber: 4.4 Consensus size: 164
1958803 TTTTCTTTTC
* * ** * *
1958813 CGTAAATGTTTTCG-GGGGGTTTTTCACGGTTTTTAATTTTTAAAATTAATCAAATATGATTATT
1 CGTAAAT-TTTTTGAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATT
* * *
1958877 TAATTCATATTAAATTATTTTTCAAAAAAATCATTCATTTTCATTCATTTTTCTTTTTTTCCTTA
65 TAATTCATATTAAATTATTTTTC-AAAAATTCATTCATTTTCACTCATTTTTCTTTTTTTCCTTG
* ** * * *
1958942 AAATTATCCTATTCTCCAAATACGGAGTTTTCCACTA
129 AAATT-TCCTATTTTTAAAATACGAAGTTTTCTACTT
* *
1958979 CGTAAATTTTTTGAGGCGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAATATTATTATTT
1 CGTAAATTTTTTGAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTT
* ** * * * *
1959044 AATTCATATTAAATTTGTTTTTTTAAAATTCAATCATTTTCA-TGAGTTTTTTTATTTTTTCTTT
66 AATTCATATTAAA-TTATTTTTCAAAAATTCATTCATTTTCACTCA-TTTTTCT-TTTTTTCCTT
* *
1959108 GAAATTTCCCTATTTTTGAAATACGAAGTTTTTTACTT
128 GAAATTT-CCTATTTTTAAAATACGAAGTTTTCTACTT
* * * * *
1959146 CGTAAATATTTTTTATGGGATTTTTCTTGGTTTTTAAATTTTAAAATTCATCAAATATAATTTTT
1 CGTAAAT-TTTTTGAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATT
* * * * *
1959211 TATTTCATATTAAATCATTTTTCAAAAATTCATTCATTTTTA-TGAGTTTTTCTTTTTTTTCTTG
65 TAATTCATATTAAATTATTTTTCAAAAATTCATTCATTTTCACTCA-TTTTTCTTTTTTTCCTTG
* * *
1959275 AAA-TTCCTTTGTTTTTAAAATATGAAATTTTCTACTT
129 AAATTTCC--TATTTTTAAAATACGAAGTTTTCTACTT
* * *
1959312 CGTAAATTTTTTCGAGGGGA-TTTTCTTAGTTTTTAATTTTTAAAATTTATGAAATATTATTATT
1 CGTAAATTTTTT-GAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATT
* * *
1959376 TATTTCATATTAAATTATTTTTCAAAAATTCACTCATTTTCACTCATTTTTCGTTTTTTCCTTGA
65 TAATTCATATTAAATTATTTTTCAAAAATTCATTCATTTTCACTCATTTTTCTTTTTTTCCTTGA
* * ** *
1959441 AATTTTGCTATCTTTGAAAAGCCG-AGTTTT-TAACTC
130 AA-TTTCCTAT-TTTTAAAATACGAAGTTTTCT-ACTT
* * * ** * *
1959477 CGTAAATGTTTTCG-GGAGAATTTTTCTTGATTTAAAATTTTTGAAATTCATCTAATATT
1 CGTAAAT-TTTTTGAGG-GGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATT
1959536 GTCATTTTAA
Statistics
Matches: 462, Mismatches: 78, Indels: 34
0.80 0.14 0.06
Matches are distributed among these distances:
164 5 0.01
165 130 0.28
166 178 0.39
167 86 0.19
168 63 0.14
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.52
Consensus pattern (164 bp):
CGTAAATTTTTTGAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTATTT
AATTCATATTAAATTATTTTTCAAAAATTCATTCATTTTCACTCATTTTTCTTTTTTTCCTTGAA
ATTTCCTATTTTTAAAATACGAAGTTTTCTACTT
Found at i:1959926 original size:13 final size:13
Alignment explanation
Indices: 1959896--1959943 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
1959886 AGGTTTAGCT
*
1959896 AAAAAA-AAAGAG
1 AAAAAAGAAAGAA
*
1959908 AAAAAAGAGAGAA
1 AAAAAAGAAAGAA
*
1959921 AGAAAAGAAAGAA
1 AAAAAAGAAAGAA
1959934 AAAAAAGAAA
1 AAAAAAGAAA
1959944 TAGGGTCAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 6 0.20
13 24 0.80
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAGAA
Found at i:1959942 original size:9 final size:9
Alignment explanation
Indices: 1959897--1959943 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
1959887 GGTTTAGCTA
1959897 AAAAAAAAG
1 AAAAAAAAG
*
1959906 AGAAAAAAG
1 AAAAAAAAG
* *
1959915 -AGAGAAAG
1 AAAAAAAAG
*
1959923 AAAAGAAAG
1 AAAAAAAAG
1959932 AAAAAAAAG
1 AAAAAAAAG
1959941 AAA
1 AAA
1959944 TAGGGTCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
8 5 0.16
9 26 0.84
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:1962578 original size:21 final size:21
Alignment explanation
Indices: 1962548--1962587 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
1962538 GAGATGCTGG
1962548 ACATAT-AAAAAATGCATGAA
1 ACATATAAAAAAATGCATGAA
1962568 ACATAATAAAAAAATGCATG
1 ACAT-ATAAAAAAATGCATG
1962588 GTCAAAGGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 2 0.11
22 12 0.67
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (21 bp):
ACATATAAAAAAATGCATGAA
Found at i:1964743 original size:13 final size:13
Alignment explanation
Indices: 1964725--1964749 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1964715 ATAATGCACA
1964725 GTATCGATACATT
1 GTATCGATACATT
1964738 GTATCGATACAT
1 GTATCGATACAT
1964750 GACCACTATA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1964854 original size:19 final size:21
Alignment explanation
Indices: 1964829--1964882 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
1964819 CCTTAACTAT
1964829 TTGTATCGATACAT-A-CAAGA
1 TTGTATCGATACATGACCAA-A
1964849 -TGTATCGATACATGACCAAA
1 TTGTATCGATACATGACCAAA
1964869 TTGTATCGATACAT
1 TTGTATCGATACAT
1964883 TGGCTTGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 13 0.42
20 2 0.06
21 16 0.52
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (21 bp):
TTGTATCGATACATGACCAAA
Found at i:2147092 original size:52 final size:51
Alignment explanation
Indices: 2146951--2147099 Score: 217
Period size: 52 Copynumber: 2.9 Consensus size: 51
2146941 CGAAATATGA
*
2146951 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTTTCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
2147003 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
* **
2147055 AAATTTTCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
2147100 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.95
53 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:2147106 original size:13 final size:13
Alignment explanation
Indices: 2147088--2147112 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2147078 CAAAGATCAG
2147088 TGTATCGATACAA
1 TGTATCGATACAA
2147101 TGTATCGATACA
1 TGTATCGATACA
2147113 TTTAAGTGAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2147190 original size:33 final size:33
Alignment explanation
Indices: 2147153--2147219 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2147143 AGTAGCTTAA
2147153 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
2147186 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
2147219 A
1 A
2147220 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:2147193 original size:13 final size:13
Alignment explanation
Indices: 2147175--2147199 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2147165 CAAAAAAATA
2147175 TGTATCGATACAT
1 TGTATCGATACAT
2147188 TGTATCGATACA
1 TGTATCGATACA
2147200 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2148728 original size:52 final size:51
Alignment explanation
Indices: 2148651--2148806 Score: 177
Period size: 52 Copynumber: 3.2 Consensus size: 51
2148641 AAGCTGAGAA
* *
2148651 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGG
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGG
* * *
2148703 AAAAGGTGCCAATATGCTGATTCAAGGCCAACTATATTGGAC-T-----T--
1 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGG
*
2148747 AAAGGTGCC-ATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGATGG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGG
2148797 AAAGGTGCCA
1 AAAGGTGCCA
2148807 CCGACTTGTG
Statistics
Matches: 85, Mismatches: 9, Indels: 20
0.75 0.08 0.18
Matches are distributed among these distances:
42 27 0.32
43 10 0.12
46 1 0.01
48 1 0.01
50 9 0.11
51 1 0.01
52 31 0.36
53 5 0.06
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (51 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGG
Found at i:2148768 original size:42 final size:43
Alignment explanation
Indices: 2148704--2148792 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 43
2148694 TAAAGATGGA
*
2148704 AAAGGTGCCAATATGCTGATTCAAGGCCAACTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAACTACATTGGACTT
* * *
2148747 AAAGGTGCC-ATGTGCTGATTCAAGGTCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAACTACATTGGACTT
2148789 AAAG
1 AAAG
2148793 ATGGAAAGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 33 0.79
43 9 0.21
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAACTACATTGGACTT
Found at i:2148899 original size:83 final size:84
Alignment explanation
Indices: 2148797--2149018 Score: 219
Period size: 83 Copynumber: 2.7 Consensus size: 84
2148787 TTAAAGATGG
* * * *
2148797 AAAGG-TGCCACCGACTTGTGTGGCTTGCGAAAGGGTGGCC-CT-AATTTTGGGC-TTTG-AAGG
1 AAAGGTTGCCACTGACTTGTG-GGCTTGCGAAAAGAT-GCCACTGAATTGTGGGCTTTTGAAAGG
*
2148857 TTGCCACT-ACTTGTGGGCTTTT
64 GTGCCACTAACTTGT-GGC-TTT
** * *
2148879 AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAATATGCCACTGACTTGTGGGCTTTTGAAAGGGT
1 AAAGGTTGCCACTGACTTGTGGGCTTGCGAAAAGATGCCACTGAATTGTGGGCTTTTGAAAGGGT
2148944 GCCACTAACTTGTGGCTTT
66 GCCACTAACTTGTGGCTTT
** *
2148963 -AAGGTTGCCACTGACTTG-GGGCTTTTGAAAAGGGTGCCACT-AACTTGTGGGCTTTT
1 AAAGGTTGCCACTGACTTGTGGGCTTGCGAAAA-GATGCCACTGAA-TTGTGGGCTTTT
2149019 AAGAAAAAGA
Statistics
Matches: 120, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
81 3 0.03
82 31 0.26
83 59 0.49
84 7 0.06
85 14 0.12
86 6 0.05
ACGTcount: A:0.19, C:0.18, G:0.30, T:0.32
Consensus pattern (84 bp):
AAAGGTTGCCACTGACTTGTGGGCTTGCGAAAAGATGCCACTGAATTGTGGGCTTTTGAAAGGGT
GCCACTAACTTGTGGCTTT
Found at i:2148904 original size:54 final size:56
Alignment explanation
Indices: 2148798--2149017 Score: 267
Period size: 54 Copynumber: 4.0 Consensus size: 56
2148788 TAAAGATGGA
* ** *
2148798 AAGG-TGCCACCGACTTGTGTGGCTTGCGAAAGGGTGGCC-CTAA-TTTTGGGCTTTG
1 AAGGTTGCCACTGACTTGTG-GGCTTTTGAAAGGGT-GCCACTAACTTGTGGGCTTTG
* *
2148853 AAGGTTGCCACT-ACTTGTGGGCTTTT-AAAGGTTGCCACTGACTTGTGGGCTTTTG
1 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAGGGTGCCACTAACTTGTGGGC-TTTG
**
2148908 AAAATATGCCACTGACTTGTGGGCTTTTGAAAGGGTGCCACTAACTTGT-GGCTTT-
1 AAGGT-TGCCACTGACTTGTGGGCTTTTGAAAGGGTGCCACTAACTTGTGGGCTTTG
2148963 AAGGTTGCCACTGACTTG-GGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTT
1 AAGGTTGCCACTGACTTGTGGGCTTTTG-AAAGGGTGCCACTAACTTGTGGGCTTT
2149018 TAAGAAAAAG
Statistics
Matches: 144, Mismatches: 12, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
52 3 0.02
53 18 0.12
54 45 0.31
55 27 0.19
56 16 0.11
57 17 0.12
58 18 0.12
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.32
Consensus pattern (56 bp):
AAGGTTGCCACTGACTTGTGGGCTTTTGAAAGGGTGCCACTAACTTGTGGGCTTTG
Found at i:2148927 original size:29 final size:29
Alignment explanation
Indices: 2148858--2149230 Score: 227
Period size: 29 Copynumber: 12.8 Consensus size: 29
2148848 CTTTGAAGGT
* *
2148858 TGCCACT-ACTTGTGGGCTTTT-AAAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAAAGA
*
2148885 TGCCACTGACTTGTGGGCTTTTGAAAATA
1 TGCCACTGACTTGTGGGCTTTTGAAAAGA
* *
2148914 TGCCACTGACTTGTGGGCTTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAAAGA
* * *
2148943 TGCCACTAACTTGT-GGC-TTT--AAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAAAGA
*
2148968 TGCCACTGACTTG-GGGCTTTTGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAAA-GA
*
2148997 TGCCACTAACTTGTGGGCTTTTAAGAAAAAGA
1 TGCCACTGACTTGTGGGCTTTT--G-AAAAGA
* * **
2149029 -GCTGCA-TAGAGTTG-GAGCTTACAAAAGAAAAAGA
1 TGC--CACT-GACTTGTGGGCTT----TTG-AAAAGA
* * * *
2149063 GGTGCCACGGAGTTGTGGACTTTGGAAAAGA
1 --TGCCACTGACTTGTGGGCTTTTGAAAAGA
* * * *
2149094 TGGCCACCGACTT-TGGGCTTTCGGAAAGGG
1 T-GCCACTGACTTGTGGGCTTT-TGAAAAGA
* * *
2149124 TGCCACTGATTTG-GGGC-TTTG-AAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAAAGA
*
2149150 TGCCACTGACTTGTGGGCTTTTGAAAAAAA
1 TGCCACTGACTTGTGGGCTTTTG-AAAAGA
*
2149180 TGCCACTGACTTGTGGGC-TTTGAAAAAAA
1 TGCCACTGACTTGTGGGCTTTTG-AAAAGA
*
2149209 TGCCACTGACTTGTGGACTTTT
1 TGCCACTGACTTGTGGGCTTTT
2149231 AAAGGTGATG
Statistics
Matches: 278, Mismatches: 37, Indels: 59
0.74 0.10 0.16
Matches are distributed among these distances:
25 19 0.07
26 19 0.07
27 15 0.05
28 25 0.09
29 104 0.37
30 47 0.17
31 8 0.03
32 9 0.03
33 10 0.04
34 8 0.03
35 8 0.03
36 4 0.01
37 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (29 bp):
TGCCACTGACTTGTGGGCTTTTGAAAAGA
Found at i:2150679 original size:4 final size:4
Alignment explanation
Indices: 2150670--2150774 Score: 51
Period size: 4 Copynumber: 26.2 Consensus size: 4
2150660 CCCTTTTTTG
*
2150670 TGTT TGTT TGTT T-TT TTTAT TGTT T-TT TGTT T-TT T-TT T-TT TGCTT
1 TGTT TGTT TGTT TGTT TGT-T TGTT TGTT TGTT TGTT TGTT TGTT TG-TT
* * * * *
2150715 TTTT TTTT TGTT TGTTT TTTT TGTT TCATT AGTT T-TT TCGTTT TGTT
1 TGTT TGTT TGTT TG-TT TGTT TGTT T-GTT TGTT TGTT T-G-TT TGTT
*
2150762 TTTT TGTT TGTT T
1 TGTT TGTT TGTT T
2150775 TGGAGGGACG
Statistics
Matches: 80, Mismatches: 11, Indels: 20
0.72 0.10 0.18
Matches are distributed among these distances:
3 18 0.22
4 47 0.59
5 12 0.15
6 3 0.04
ACGTcount: A:0.03, C:0.03, G:0.13, T:0.81
Consensus pattern (4 bp):
TGTT
Found at i:2150685 original size:17 final size:15
Alignment explanation
Indices: 2150672--2150736 Score: 76
Period size: 17 Copynumber: 4.1 Consensus size: 15
2150662 CTTTTTTGTG
2150672 TTTGTTTGTTTTTTT
1 TTTGTTTGTTTTTTT
*
2150687 TATTGTTTTTTGTTTTT
1 T-TTGTTTGTT-TTTTT
*
2150704 TTTTTTTGCTTTTTTTT
1 TTTGTTTG--TTTTTTT
2150721 TTTGTTTGTTTTTTT
1 TTTGTTTGTTTTTTT
2150736 T
1 T
2150737 GTTTCATTAG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
15 9 0.21
16 13 0.31
17 18 0.43
18 2 0.05
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.86
Consensus pattern (15 bp):
TTTGTTTGTTTTTTT
Found at i:2150686 original size:20 final size:18
Alignment explanation
Indices: 2150663--2150775 Score: 81
Period size: 19 Copynumber: 6.1 Consensus size: 18
2150653 CCGGACCCCC
*
2150663 TTTTTTGTGTTTGTTTGTT
1 TTTTTTTTGTTT-TTTGTT
2150682 TTTTTTATTGTTTTTTGTT
1 TTTTTT-TTGTTTTTTGTT
2150701 TTTTTTTT-TTGCTTTT-TT
1 TTTTTTTTGTT--TTTTGTT
2150719 TTTTTGTTTGTTTTTT-TT
1 TTTTT-TTTGTTTTTTGTT
** *
2150737 GTTTCATTAGTTTTTTCGTT
1 -TTTTTTTTGTTTTTT-GTT
* *
2150757 TTGTTTTT-TTGTTTGTT
1 TTTTTTTTGTTTTTTGTT
2150774 TT
1 TT
2150776 GGAGGGACGC
Statistics
Matches: 77, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
17 7 0.09
18 29 0.38
19 32 0.42
20 9 0.12
ACGTcount: A:0.03, C:0.03, G:0.13, T:0.81
Consensus pattern (18 bp):
TTTTTTTTGTTTTTTGTT
Found at i:2150708 original size:13 final size:13
Alignment explanation
Indices: 2150663--2150775 Score: 93
Period size: 13 Copynumber: 8.2 Consensus size: 13
2150653 CCGGACCCCC
*
2150663 TTTTTTGTGTTTGT
1 TTTTTTTTGTTT-T
*
2150677 TTGTTTTTT-TTAT
1 TT-TTTTTTGTTTT
*
2150690 TGTTTTTTGTTTT
1 TTTTTTTTGTTTT
*
2150703 TTTTTTTTGCTTT
1 TTTTTTTTGTTTT
*
2150716 TTTTTTTTGTTTG
1 TTTTTTTTGTTTT
2150729 TTTTTTTTGTTTCAT
1 TTTTTTTTGTTT--T
*
2150744 TAGTTTTTTCGTTTT
1 T--TTTTTTTGTTTT
*
2150759 GTTTTTTTGTTTGT
1 TTTTTTTTGTTT-T
2150773 TTT
1 TTT
2150776 GGAGGGACGC
Statistics
Matches: 79, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
12 6 0.08
13 49 0.62
14 7 0.09
15 7 0.09
17 10 0.13
ACGTcount: A:0.03, C:0.03, G:0.13, T:0.81
Consensus pattern (13 bp):
TTTTTTTTGTTTT
Found at i:2150717 original size:30 final size:28
Alignment explanation
Indices: 2150663--2150770 Score: 114
Period size: 26 Copynumber: 3.8 Consensus size: 28
2150653 CCGGACCCCC
*
2150663 TTTTTTGTGTTTGTTTGTTTT-TTTTATTG
1 TTTTTTGT-TTT-TTTTTTTTGTTTTATTG
*
2150692 TTTTTTGTTTTTTTTTTTTGCTTT-TT-
1 TTTTTTGTTTTTTTTTTTTGTTTTATTG
* *
2150718 TTTTTTGTTTGTTTTTTTTGTTTCATTAG
1 TTTTTTGTTTTTTTTTTTTGTTTTATT-G
*
2150747 TTTTTTCGTTTTGTTTTTTTGTTT
1 TTTTTT-GTTTTTTTTTTTTGTTT
2150771 GTTTTGGAGG
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
26 21 0.31
27 11 0.16
28 6 0.09
29 14 0.21
30 15 0.22
ACGTcount: A:0.03, C:0.03, G:0.13, T:0.81
Consensus pattern (28 bp):
TTTTTTGTTTTTTTTTTTTGTTTTATTG
Found at i:2150752 original size:1 final size:1
Alignment explanation
Indices: 2150680--2150736 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
2150670 TGTTTGTTTG
* * * ** * *
2150680 TTTTTTTTATTGTTTTTTGTTTTTTTTTTTTGCTTTTTTTTTTTGTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2150737 GTTTCATTAG
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.88
Consensus pattern (1 bp):
T
Found at i:2155724 original size:16 final size:16
Alignment explanation
Indices: 2155703--2155800 Score: 92
Period size: 16 Copynumber: 6.1 Consensus size: 16
2155693 CTTGGCTTTA
2155703 GGTTCTCTCGGGTTCG
1 GGTTCTCTCGGGTTCG
* *
2155719 GGTTCTTTCAGGTTCG
1 GGTTCTCTCGGGTTCG
*
2155735 GGTTCTTTCGGGTTCG
1 GGTTCTCTCGGGTTCG
* * *
2155751 AGCTT-TTTTGGGTTCG
1 -GGTTCTCTCGGGTTCG
*
2155767 GGCTT-TCTCGAGTTCG
1 GG-TTCTCTCGGGTTCG
*
2155783 GGTTGTCTCGGGTTCG
1 GGTTCTCTCGGGTTCG
2155799 GG
1 GG
2155801 CTATTTCAGG
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
15 3 0.04
16 63 0.91
17 3 0.04
ACGTcount: A:0.03, C:0.19, G:0.37, T:0.41
Consensus pattern (16 bp):
GGTTCTCTCGGGTTCG
Found at i:2155812 original size:16 final size:16
Alignment explanation
Indices: 2155710--2155813 Score: 84
Period size: 16 Copynumber: 6.5 Consensus size: 16
2155700 TTAGGTTCTC
*
2155710 TCGGGTTCGGGTTCTT
1 TCGGGTTCGGGCTCTT
* *
2155726 TCAGGTTCGGGTTCTT
1 TCGGGTTCGGGCTCTT
* *
2155742 TCGGGTTCGAGCTTTT
1 TCGGGTTCGGGCTCTT
*
2155758 TTGGGTTCGGGCT-TT
1 TCGGGTTCGGGCTCTT
* * * *
2155773 CTCGAGTTCGGGTTGTC
1 -TCGGGTTCGGGCTCTT
*
2155790 TCGGGTTCGGGCTATT
1 TCGGGTTCGGGCTCTT
*
2155806 TCAGGTTC
1 TCGGGTTC
2155814 AAATAATTTT
Statistics
Matches: 70, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
15 2 0.03
16 67 0.96
17 1 0.01
ACGTcount: A:0.05, C:0.19, G:0.35, T:0.41
Consensus pattern (16 bp):
TCGGGTTCGGGCTCTT
Found at i:2157390 original size:29 final size:28
Alignment explanation
Indices: 2157341--2157396 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
2157331 TGATGTCTTA
2157341 ATTAAATATTTTCATACATGAAATTTTTT
1 ATTAAATATTTTCATACATG-AATTTTTT
* *
2157370 ATTAGAAT-TTTTTATAGATGAATTTTT
1 ATTA-AATATTTTCATACATGAATTTTT
2157397 CTTTTTTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.29
29 14 0.58
30 3 0.12
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.54
Consensus pattern (28 bp):
ATTAAATATTTTCATACATGAATTTTTT
Found at i:2158306 original size:13 final size:13
Alignment explanation
Indices: 2158288--2158314 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2158278 ATCCTTCATA
2158288 TATCGATACAATG
1 TATCGATACAATG
2158301 TATCGATACAATG
1 TATCGATACAATG
2158314 T
1 T
2158315 GAGTTTTAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:2158383 original size:19 final size:20
Alignment explanation
Indices: 2158359--2158409 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
2158349 TATTTTAGTG
*
2158359 TGTATCGATACAATG-AACA
1 TGTATCGATACAAAGTAACA
*
2158378 TGTATCGATACAAAGTAATA
1 TGTATCGATACAAAGTAACA
2158398 TGTATCGATACA
1 TGTATCGATACA
2158410 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (20 bp):
TGTATCGATACAAAGTAACA
Found at i:2161085 original size:13 final size:13
Alignment explanation
Indices: 2161067--2161091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2161057 AAAGAACGCA
2161067 ATATCGATACAAT
1 ATATCGATACAAT
2161080 ATATCGATACAA
1 ATATCGATACAA
2161092 AGAACGCAGT
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:0.08, T:0.28
Consensus pattern (13 bp):
ATATCGATACAAT
Found at i:2161094 original size:33 final size:33
Alignment explanation
Indices: 2161052--2161143 Score: 130
Period size: 33 Copynumber: 2.8 Consensus size: 33
2161042 CCCTTGTATT
*
2161052 GATACAAAGAACGCAATATCGATACAATATATC
1 GATACAAAGAACGCAGTATCGATACAATATATC
* *
2161085 GATACAAAGAACGCAGTATCGATAAAATGTATC
1 GATACAAAGAACGCAGTATCGATACAATATATC
** *
2161118 GATATTAAGAACTCAGTATCGATACA
1 GATACAAAGAACGCAGTATCGATACA
2161144 TCTGGGTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.46, C:0.16, G:0.15, T:0.23
Consensus pattern (33 bp):
GATACAAAGAACGCAGTATCGATACAATATATC
Found at i:2161356 original size:19 final size:19
Alignment explanation
Indices: 2161332--2161377 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
2161322 AACTAAGAAC
*
2161332 AATCATCAAAAAATCACAA
1 AATCATAAAAAAATCACAA
2161351 AATCATAAAAAAATCACAA
1 AATCATAAAAAAATCACAA
2161370 AATCATAA
1 AATCATAA
2161378 GATCAATCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.65, C:0.17, G:0.00, T:0.17
Consensus pattern (19 bp):
AATCATAAAAAAATCACAA
Found at i:2165428 original size:19 final size:19
Alignment explanation
Indices: 2165404--2165461 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 19
2165394 TTTGTATTGA
2165404 TACATTGTATCGATACATG
1 TACATTGTATCGATACATG
* *
2165423 TACATTATATTGATACATG
1 TACATTGTATCGATACATG
*
2165442 GACAATTGTATCGATACATG
1 TAC-ATTGTATCGATACATG
2165462 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (19 bp):
TACATTGTATCGATACATG
Found at i:2165515 original size:20 final size:20
Alignment explanation
Indices: 2165490--2165543 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
2165480 CTACTGCTGT
*
2165490 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
*
2165510 TTGTATTGATACATGATGAA
1 TTGTATCGATACATGATGAA
2165530 TTGTATCGATACAT
1 TTGTATCGATACAT
2165544 TGCTTGTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:2167807 original size:20 final size:21
Alignment explanation
Indices: 2167765--2167807 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2167755 TATTAAAAAG
*
2167765 TTAGCTAATGAAAATAATGAA
1 TTAGCTAATGAAAACAATGAA
2167786 TTAGCTAA-GAAAAACAAT-AA
1 TTAGCTAATG-AAAACAATGAA
2167806 TT
1 TT
2167808 TGCATGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.53, C:0.07, G:0.12, T:0.28
Consensus pattern (21 bp):
TTAGCTAATGAAAACAATGAA
Found at i:2173614 original size:52 final size:52
Alignment explanation
Indices: 2173536--2173664 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
2173526 CGAAATATGA
2173536 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
* * *
2173588 AAATTTACCTGCATGTATCTATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
2173640 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2173665 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:2173752 original size:20 final size:20
Alignment explanation
Indices: 2173723--2173780 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
2173713 GCAGTAGCTT
2173723 AAAT-TGTATCGATACAAAA
1 AAATATGTATCGATACAAAA
*
2173742 AAATATGTATCGATACAACA
1 AAATATGTATCGATACAAAA
***
2173762 CTTTATGTATCGATACAAA
1 AAATATGTATCGATACAAA
2173781 TCGTTGAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (20 bp):
AAATATGTATCGATACAAAA
Found at i:2175331 original size:13 final size:13
Alignment explanation
Indices: 2175313--2175341 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2175303 AAAACCCAGA
2175313 TGTATCGATACAT
1 TGTATCGATACAT
2175326 TGTATCGATACAT
1 TGTATCGATACAT
2175339 TGT
1 TGT
2175342 GACAATACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2178088 original size:49 final size:49
Alignment explanation
Indices: 2177929--2178384 Score: 565
Period size: 49 Copynumber: 9.6 Consensus size: 49
2177919 GATGTCAACG
*
2177929 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATA
* *
2177981 TGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
*
2178024 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* * *
2178073 TGCTGATTCAAGGCCAGCGT--ATCGGGCTT----A--AAGGTGCCAATG
1 TGCTGATTCAAGGCCAGC-TACATTGGACTTAAAGATGAAGGTGCCAATA
2178115 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* * *
2178164 TGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
*
2178207 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* *
2178256 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* * * *
2178305 TGCTGATTCAAGGCTAGCTATATTGGACTTAAAGATAAAGGTACCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
* *
2178354 TGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTA
2178385 GAAGGGTTGC
Statistics
Matches: 356, Mismatches: 27, Indels: 45
0.83 0.06 0.11
Matches are distributed among these distances:
41 1 0.00
42 28 0.08
43 86 0.24
44 1 0.00
45 1 0.00
47 3 0.01
48 8 0.02
49 199 0.56
50 1 0.00
52 28 0.08
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
Found at i:2178239 original size:183 final size:185
Alignment explanation
Indices: 2177928--2178389 Score: 696
Period size: 183 Copynumber: 2.5 Consensus size: 185
2177918 GGATGTCAAC
*
2177928 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATATGCTGATTCAAG
2177993 GCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
63 GCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
* *
2178058 ATGAAGATGCCAATATGCTGATTCAAGGCCAGCGT-ATCGGGC-T-TAAAGGTGCCAAT
128 ATGAAGATGCCAATATGCTGAGTCAAGGCCAGC-TAATCGGACTTATAAAGGTGCCAAT
2178114 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
*
2178179 AGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
66 AGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
* * *
2178244 AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
131 AAGATGCCAATATGCTGAGTCAAGGCCAGCTA-ATCGGACTT----ATAAAGGTGCCAAT
* * * * *
2178304 ATGCTGATTCAAGGCTAGCTATATTGGACTTAAAGATAAAGGTACCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
*
2178369 AGCTATATTGGGCTTAGAAGG
66 AGCTATATTGGACTTA-AAGG
2178390 GTTGCCACCG
Statistics
Matches: 253, Mismatches: 14, Indels: 13
0.90 0.05 0.05
Matches are distributed among these distances:
182 1 0.00
183 118 0.47
184 5 0.02
185 2 0.01
186 36 0.14
190 87 0.34
191 4 0.02
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (185 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
AGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
AAGATGCCAATATGCTGAGTCAAGGCCAGCTAATCGGACTTATAAAGGTGCCAAT
Found at i:2178245 original size:92 final size:92
Alignment explanation
Indices: 2177928--2178389 Score: 692
Period size: 92 Copynumber: 4.9 Consensus size: 92
2177918 GGATGTCAAC
*
2177928 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATATGCTGATTCAAG
2177993 GCCAGCTATATTGGACTTAAAGGTGCCAAT
63 GCCAGCTATATTGGACTTAAAGGTGCCAAT
*
2178023 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
* * *
2178088 AGC-GTATCGGGCTTAAAGGTGCCAAT
66 AGCTATATTGGACTTAAAGGTGCCAAT
2178114 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
*
2178179 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCTATATTGGACTTAAAGGTGCCAAT
* *
2178206 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
*
2178271 AGCTACATTGGACTTAAAGATAAAGGTGCCAAT
66 AGCTATATTGGAC-T-----TAAAGGTGCCAAT
* * * * *
2178304 ATGCTGATTCAAGGCTAGCTATATTGGACTTAAAGATAAAGGTACCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
*
2178369 AGCTATATTGGGCTTAGAAGG
66 AGCTATATTGGACTTA-AAGG
2178390 GTTGCCACCG
Statistics
Matches: 337, Mismatches: 22, Indels: 18
0.89 0.06 0.05
Matches are distributed among these distances:
91 87 0.26
92 125 0.37
93 5 0.01
94 1 0.00
95 36 0.11
97 1 0.00
98 82 0.24
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
AGCTATATTGGACTTAAAGGTGCCAAT
Found at i:2178428 original size:33 final size:35
Alignment explanation
Indices: 2178384--2178453 Score: 108
Period size: 33 Copynumber: 2.1 Consensus size: 35
2178374 TATTGGGCTT
2178384 AGAAGGGTTGCCACCGACTTGCGTGGGCTTT-GGA
1 AGAAGGGTTGCCACCGACTTGCGTGGGCTTTAGGA
* *
2178418 AGAA-GGTTGCCACTGACTTGTGTGGGCTTTAGGA
1 AGAAGGGTTGCCACCGACTTGCGTGGGCTTTAGGA
2178452 AG
1 AG
2178454 GGAGAAAGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 24 0.73
34 9 0.27
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.26
Consensus pattern (35 bp):
AGAAGGGTTGCCACCGACTTGCGTGGGCTTTAGGA
Found at i:2178543 original size:29 final size:29
Alignment explanation
Indices: 2178458--2178539 Score: 123
Period size: 28 Copynumber: 2.9 Consensus size: 29
2178448 AGGAAGGGAG
* * *
2178458 AAAGATGCCACGGAGTTGTGGAC-TTAAA
1 AAAGATGCCACTGACTTGTGGACTTTGAA
2178486 AAAGATGCCACTGACTTGTGGACTTTGAA
1 AAAGATGCCACTGACTTGTGGACTTTGAA
2178515 AAAGATGCCACTGACTTGTGG-CTTT
1 AAAGATGCCACTGACTTGTGGACTTT
2178540 TGAAGGGTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
28 25 0.50
29 25 0.50
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (29 bp):
AAAGATGCCACTGACTTGTGGACTTTGAA
Found at i:2179884 original size:1 final size:1
Alignment explanation
Indices: 2179878--2179927 Score: 55
Period size: 1 Copynumber: 50.0 Consensus size: 1
2179868 GTTGTTGTTG
* * * * *
2179878 TTTTTTTTTTGTTTTGTTTTTTTTTGTTTTTTTTTCTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2179928 GTGGAGGATG
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.04, G:0.06, T:0.90
Consensus pattern (1 bp):
T
Found at i:2179897 original size:15 final size:14
Alignment explanation
Indices: 2179872--2179927 Score: 76
Period size: 15 Copynumber: 3.9 Consensus size: 14
2179862 GTTGTTGTTG
*
2179872 TTGTTGTTTTTTTT
1 TTGTTTTTTTTTTT
2179886 TTGTTTTGTTTTTTT
1 TTGTTTT-TTTTTTT
2179901 TTGTTTTTTTTTCTT
1 TTGTTTTTTTTT-TT
*
2179916 TTCTTTTTTTTT
1 TTGTTTTTTTTT
2179928 GTGGAGGATG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 11 0.29
15 27 0.71
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.88
Consensus pattern (14 bp):
TTGTTTTTTTTTTT
Found at i:2179917 original size:25 final size:25
Alignment explanation
Indices: 2179879--2179929 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
2179869 TTGTTGTTGT
* *
2179879 TTTTTTTTTGTTTTGTTTTTTTTTG
1 TTTTTTTTTCTTTTCTTTTTTTTTG
2179904 TTTTTTTTTCTTTTCTTTTTTTTTG
1 TTTTTTTTTCTTTTCTTTTTTTTTG
2179929 T
1 T
2179930 GGAGGATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.00, C:0.04, G:0.08, T:0.88
Consensus pattern (25 bp):
TTTTTTTTTCTTTTCTTTTTTTTTG
Found at i:2193837 original size:52 final size:52
Alignment explanation
Indices: 2193759--2193887 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
2193749 CGAAATATGA
2193759 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
2193811 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
2193863 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2193888 AAGATCAGTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:2193914 original size:13 final size:13
Alignment explanation
Indices: 2193896--2193920 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2193886 CAAAGATCAG
2193896 TGTATCGATACAA
1 TGTATCGATACAA
2193909 TGTATCGATACA
1 TGTATCGATACA
2193921 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2193988 original size:20 final size:20
Alignment explanation
Indices: 2193959--2194016 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
2193949 GCAGTAGCTT
2193959 AAAT-TGTATCGATACAAAA
1 AAATATGTATCGATACAAAA
*
2193978 AAATATGTATCGATACAACA
1 AAATATGTATCGATACAAAA
***
2193998 CTTTATGTATCGATACAAA
1 AAATATGTATCGATACAAA
2194017 TCGTTGAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (20 bp):
AAATATGTATCGATACAAAA
Found at i:2195565 original size:13 final size:13
Alignment explanation
Indices: 2195547--2195585 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
2195537 AAAACCCAGA
2195547 TGTATCAATACAT
1 TGTATCAATACAT
*
2195560 TGTATCGATACAT
1 TGTATCAATACAT
2195573 TGTGA-CAATACAT
1 TGT-ATCAATACAT
2195586 GGGTTACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 22 0.96
14 1 0.04
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (13 bp):
TGTATCAATACAT
Found at i:2196029 original size:13 final size:13
Alignment explanation
Indices: 2196011--2196049 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
2196001 AAAACCCAGA
2196011 TGTATCAATACAT
1 TGTATCAATACAT
*
2196024 TGTATCGATACAT
1 TGTATCAATACAT
2196037 TGTGA-CAATACAT
1 TGT-ATCAATACAT
2196050 GGGTTACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 22 0.96
14 1 0.04
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (13 bp):
TGTATCAATACAT
Found at i:2200626 original size:52 final size:52
Alignment explanation
Indices: 2200426--2200606 Score: 326
Period size: 52 Copynumber: 3.5 Consensus size: 52
2200416 TGAAATATGA
*
2200426 AAATTCGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
2200478 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
2200530 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
2200582 AAATTTCCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2200607 AAGATTAGTG
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 125 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:2200716 original size:19 final size:19
Alignment explanation
Indices: 2200692--2200756 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
2200682 AGCGATACAT
2200692 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
2200711 TGTATCGAT---AGA--T-
1 TGTATCGATACAAAACTTA
*
2200724 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
*
2200743 TGCATCGATACAAA
1 TGTATCGATACAAA
2200757 TCGTTGAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
13 9 0.25
14 1 0.03
16 4 0.11
18 1 0.03
19 21 0.58
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:2200726 original size:32 final size:32
Alignment explanation
Indices: 2200684--2200754 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
2200674 AGCTTCGTAG
*
2200684 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGCAT
* *
2200716 CGATAGATTGTATCGATACAACACTTATGCAT
1 CGATACATTGTATCGATACAAAACTTATGCAT
2200748 CGATACA
1 CGATACA
2200755 AATCGTTGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGCAT
Found at i:2204387 original size:13 final size:13
Alignment explanation
Indices: 2204369--2204396 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2204359 ATACAAAGAT
2204369 CAATGTATCGATA
1 CAATGTATCGATA
2204382 CAATGTATCGATA
1 CAATGTATCGATA
2204395 CA
1 CA
2204397 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2204459 original size:13 final size:13
Alignment explanation
Indices: 2204441--2204492 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
2204431 AGCTTCGTAG
2204441 CGATACATTGTAT
1 CGATACATTGTAT
2204454 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
2204473 CGATACATTGTAT
1 CGATACATTGTAT
2204486 CGATACA
1 CGATACA
2204493 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:2204473 original size:19 final size:19
Alignment explanation
Indices: 2204449--2204513 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
2204439 AGCGATACAT
2204449 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
2204468 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
2204481 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
2204500 TGTATCGATACAAA
1 TGTATCGATACAAA
2204514 TCGTTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:2204482 original size:32 final size:32
Alignment explanation
Indices: 2204441--2204511 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
2204431 AGCTTCGTAG
2204441 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
2204473 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
2204505 CGATACA
1 CGATACA
2204512 AATCGTTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:2214348 original size:52 final size:52
Alignment explanation
Indices: 2214270--2214470 Score: 332
Period size: 52 Copynumber: 3.9 Consensus size: 52
2214260 CGAAATATGA
*
2214270 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
*
2214322 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
* *
2214374 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
**
2214426 AAATTTGCCTGCATGTATCGATACAAAG-ATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGTAT-AGTGTATCGATACA
2214471 ATGTATCGAT
Statistics
Matches: 141, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
51 2 0.01
52 139 0.99
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
Found at i:2214477 original size:13 final size:13
Alignment explanation
Indices: 2214459--2214483 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2214449 CAAAGATCAG
2214459 TGTATCGATACAA
1 TGTATCGATACAA
2214472 TGTATCGATACA
1 TGTATCGATACA
2214484 TTTAAGTGAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2214669 original size:21 final size:21
Alignment explanation
Indices: 2214628--2214669 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2214618 GTTGGGACCT
*
2214628 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
2214649 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
2214670 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:2215834 original size:10 final size:10
Alignment explanation
Indices: 2215819--2215902 Score: 64
Period size: 10 Copynumber: 8.3 Consensus size: 10
2215809 TTTATACCCA
2215819 AAAAAAAAAG
1 AAAAAAAAAG
**
2215829 -AAAAAAACC
1 AAAAAAAAAG
*
2215838 AAAAAAAAAC
1 AAAAAAAAAG
* *
2215848 AACAAAAAAT
1 AAAAAAAAAG
2215858 AAAAAAACAA-
1 AAAAAAA-AAG
2215868 AAAAAAACAAG
1 AAAAAAA-AAG
*
2215879 AAAAAAATAG
1 AAAAAAAAAG
*
2215889 CAAAAAAATAG
1 -AAAAAAAAAG
2215900 AAA
1 AAA
2215903 GGGGTCCAGA
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
9 7 0.11
10 37 0.59
11 19 0.30
ACGTcount: A:0.83, C:0.08, G:0.05, T:0.04
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:2215856 original size:15 final size:14
Alignment explanation
Indices: 2215818--2215874 Score: 71
Period size: 14 Copynumber: 4.1 Consensus size: 14
2215808 CTTTATACCC
*
2215818 AAAAA-AAAAAGAA
1 AAAAACAAAAAAAA
*
2215831 AAAAACCAAAAAAA
1 AAAAACAAAAAAAA
*
2215845 AACAACAAAAAATAA
1 AAAAACAAAAAA-AA
2215860 AAAAACAAAAAAAA
1 AAAAACAAAAAAAA
2215874 A
1 A
2215875 CAAGAAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
13 5 0.14
14 19 0.51
15 13 0.35
ACGTcount: A:0.88, C:0.09, G:0.02, T:0.02
Consensus pattern (14 bp):
AAAAACAAAAAAAA
Found at i:2215864 original size:29 final size:28
Alignment explanation
Indices: 2215822--2215884 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
2215812 ATACCCAAAA
2215822 AAAAAAGAAAAAAACCAAAAAAAAACAAC
1 AAAAAAGAAAAAAA-CAAAAAAAAACAAC
* *
2215851 AAAAAATAAAAAAACAAAAAAAAACAAG
1 AAAAAAGAAAAAAACAAAAAAAAACAAC
2215879 AAAAAA
1 AAAAAA
2215885 ATAGCAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 19 0.59
29 13 0.41
ACGTcount: A:0.86, C:0.10, G:0.03, T:0.02
Consensus pattern (28 bp):
AAAAAAGAAAAAAACAAAAAAAAACAAC
Found at i:2215882 original size:18 final size:18
Alignment explanation
Indices: 2215819--2215872 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
2215809 TTTATACCCA
*
2215819 AAAAAAAAAGAAAAAAACC
1 AAAAAAAAACAAAAAAA-C
2215838 AAAAAAAAACAACAAAAA-
1 AAAAAAAAACAA-AAAAAC
*
2215856 ATAAAAAAACAAAAAAA
1 AAAAAAAAACAAAAAAA
2215873 AACAAGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 5 0.16
18 11 0.34
19 11 0.34
20 5 0.16
ACGTcount: A:0.87, C:0.09, G:0.02, T:0.02
Consensus pattern (18 bp):
AAAAAAAAACAAAAAAAC
Found at i:2215893 original size:29 final size:29
Alignment explanation
Indices: 2215819--2215887 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
2215809 TTTATACCCA
*
2215819 AAAAAAAAAGAAAAAAACCAAAAAAAAAC
1 AAAAAAAAATAAAAAAACCAAAAAAAAAC
*
2215848 AACAAAAAATAAAAAAA-CAAAAAAAAAC
1 AAAAAAAAATAAAAAAACCAAAAAAAAAC
2215876 AAGAAAAAAATA
1 AA-AAAAAAATA
2215888 GCAAAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 13 0.36
29 23 0.64
ACGTcount: A:0.86, C:0.09, G:0.03, T:0.03
Consensus pattern (29 bp):
AAAAAAAAATAAAAAAACCAAAAAAAAAC
Found at i:2215896 original size:1 final size:1
Alignment explanation
Indices: 2215818--2215885 Score: 55
Period size: 1 Copynumber: 68.0 Consensus size: 1
2215808 CTTTATACCC
* ** * * * * * *
2215818 AAAAAAAAAAGAAAAAAACCAAAAAAAAACAACAAAAAATAAAAAAACAAAAAAAAACAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2215883 AAA
1 AAA
2215886 TAGCAAAAAA
Statistics
Matches: 51, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.87, C:0.09, G:0.03, T:0.01
Consensus pattern (1 bp):
A
Found at i:2217148 original size:28 final size:28
Alignment explanation
Indices: 2217103--2217967 Score: 948
Period size: 28 Copynumber: 30.5 Consensus size: 28
2217093 TGTTCATGTC
*
2217103 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
** * * *
2217131 TTCAAAGCCCTTATGTTAGGGGCA-CCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* * *
2217159 TTCAAAGCCCATAAGTGAGTAGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
2217187 TTCAAAGCCCACAAGTCAATGACACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
2217215 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
2217243 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2217271 TTTAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2217299 TTTAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
2217327 TTCCAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2217355 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2217383 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
2217411 TTCAAAGCCCACAAGTCAATGGAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
* * *
2217440 TTCAAAGCCCACATGTTAGTGGTATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2217468 TTCAAAGCCCACAAGTCAGTGTCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2217496 TTCAAAGCCCACGCAAGTCAATGGCA-CTTT
1 TTCAAAGCCCA--CAAGTCAGTGGCATC-CT
* *
2217526 TTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
** *
2217555 TTTGAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * * *
2217583 TTCAAAGCCTACAAGTTAGTGTCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
* *
2217612 TTCAAAGCCCACAAGTTAGTGACATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
2217640 TTCAAAACCCACAAGTCATTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
* * *
2217669 TTCAATGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2217697 TTCAAAGCCTACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
*
2217726 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2217754 TTCAAAGCCCACAAGTCAATGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
* *
2217783 TTCAAAGCCCACAACTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
2217811 TTCAAAGCCCATAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
* * *
2217840 TTCAAA-CCCTATAAGTTAGTGGCATCTT
1 TTCAAAGCCC-ACAAGTCAGTGGCATCCT
*
2217868 TTCAAAGCCCACAAGTCAGTGGCA-CTTT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
* *
2217896 TTCAAAGCCCATAAATCAGTGGCA-CTCT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
**
2217924 TTCAAAGCCCACAAGTCAGTGGCACTTTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
2217953 TTCAAAGCCCACAAG
1 TTCAAAGCCCACAAG
2217968 CTAGTGGTAA
Statistics
Matches: 718, Mismatches: 101, Indels: 35
0.84 0.12 0.04
Matches are distributed among these distances:
27 3 0.00
28 507 0.71
29 184 0.26
30 24 0.03
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:2217470 original size:57 final size:57
Alignment explanation
Indices: 2217103--2218045 Score: 1116
Period size: 57 Copynumber: 16.5 Consensus size: 57
2217093 TGTTCATGTC
** * * * *
2217103 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCTTATGTTAGGGGCAC-CAT
1 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * * * *
2217159 TTCAAAGCCCATAAGTGAGTAGCATCCTTTCAAAGCCCACAAGTCAATGACAC-CCT
1 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
2217215 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCCTT
1 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * * *
2217272 TT-AAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTTAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
2217327 TTCCAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
2217383 TTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGAACTCTT
1 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
2217440 TTCAAAGCCCACATGTTAGTGGTATCCTTTCAAAGCCCACAAGTCAGTGTCAC-CCT
1 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
2217496 TTCAAAGCCCACGCAAGTCAATGGCA-CTTTTTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCA--CAAGTTAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCACTCTT
** * * * * *
2217555 TTTGAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCTACAAGTTAGTGTCACTCTT
1 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
2217612 TTCAAAGCCCACAAGTTAGTGACATCCTTTCAAAACCCACAAGTCATTGGCACTCTT
1 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
2217669 TTCAATGCCCACAAGTTAGTGGCACCCTTTCAAAGCCTACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
*
2217726 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAATGGCACTCTT
1 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
2217783 TTCAAAGCCCACAACTCAGTGGCACCCTTTCAAAGCCCATAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
2217840 TTCAAA-CCCTATAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACT-TT
1 TTCAAAGCCC-ACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
2217896 TTCAAAGCCCATAAATCAGTGGCA-CTCTTTCAAAGCCCACAAGTCAGTGGCACTTTT
1 TTCAAAGCCCACAAGTTAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * * **
2217953 TTCAAAGCCCACAAGCTAGTGGTAACTCTTTTCAAAGCGCACACGAGTTGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTTAGTGG-CA-TCCTTTCAAAGC-C-CACAAGTCAGTGGC-ACTCTT
*
2218015 TTCAAAGCCCACATAAGTTGGTGGCA-CCTTT
1 TTCAAAGCCCAC--AAGTTAGTGGCATCCTTT
2218046 TTAAAGAAAA
Statistics
Matches: 767, Mismatches: 99, Indels: 37
0.85 0.11 0.04
Matches are distributed among these distances:
55 5 0.01
56 300 0.39
57 364 0.47
58 35 0.05
59 20 0.03
60 2 0.00
61 15 0.02
62 17 0.02
63 1 0.00
64 8 0.01
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (57 bp):
TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:2218932 original size:20 final size:20
Alignment explanation
Indices: 2218909--2219033 Score: 106
Period size: 20 Copynumber: 5.7 Consensus size: 20
2218899 AAGTACCCAG
2218909 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
2218929 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
2218949 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
2218969 ATGTATCGATACATTCTATCCTTTTTCCCA
1 ATGTATCGAT--A--C-A---TTTTT--CA
2218999 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
2219020 ATGTATCGATACAT
1 ATGTATCGATACAT
2219034 CTAGTTAAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
20 56 0.67
21 2 0.02
22 1 0.01
23 5 0.06
25 1 0.01
26 1 0.01
27 1 0.01
28 4 0.05
29 1 0.01
30 2 0.02
31 10 0.12
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2225931 original size:19 final size:19
Alignment explanation
Indices: 2225907--2225975 Score: 138
Period size: 19 Copynumber: 3.6 Consensus size: 19
2225897 AGTGATACAT
2225907 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
2225926 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
2225945 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
2225964 TGTATCGATACA
1 TGTATCGATACA
2225976 GTTACTTGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:2226354 original size:19 final size:19
Alignment explanation
Indices: 2226311--2226379 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 19
2226301 CACACCCATA
*
2226311 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
2226331 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
2226350 TGTATCGATACATGGACAAT
1 TGTATCGATACATGTTC-AT
2226370 TGTATCGATA
1 TGTATCGATA
2226380 AATGAAACTG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 17 0.39
20 26 0.59
21 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.39
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:2226437 original size:20 final size:20
Alignment explanation
Indices: 2226412--2226465 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
2226402 CTACCACTAT
*
2226412 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
*
2226432 TTGTATCAATACATGATGAA
1 TTGTATCGATACATGATGAA
2226452 TTGTATCGATACAT
1 TTGTATCGATACAT
2226466 TGCTTGTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:2227780 original size:49 final size:47
Alignment explanation
Indices: 2227722--2228129 Score: 235
Period size: 49 Copynumber: 8.8 Consensus size: 47
2227712 AAGAAAAATA
** *
2227722 CCAATGTGCTGAGACAAGGCCAACGACATTGGGCTTAGGAATGTGGGTG
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTA--AATGTGGGTG
* * * *
2227771 CCAATGTGCTGATTCAAGGCTAGTGACATTGGTCTTAAATATGACGGTG
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAATGTG--GGTG
* * * * *
2227820 CCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAA-GATGAAGATG
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAATG-TG--GGTG
*
2227869 CCAATGTGCTGATTCAAGGCCAGCAACATTGGGCTT--A------TG
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAATGTGGGTG
* * * *
2227908 CCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAA-GATGAAGTG
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAATG-TG-GGTG
* * * *
2227956 CCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAA-GATGAGGATG
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAATG-TG-GG-TG
** * *
2228005 CCAACATGTTGATTCAAGGCCAGCAACATTGGGCTT--A------TG
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAATGTGGGTG
* * * * *
2228044 CCAATGTGTTGATTCAAGGCCAACGATATTGGTCTTAAA-GATAAAGGTG
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAATG-T--GGGTG
* * * *
2228093 CCAATATGCTAATTCAAGGCCAGCGATATTGGACTTA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTA
2228130 GAAGAAGACA
Statistics
Matches: 287, Mismatches: 49, Indels: 46
0.75 0.13 0.12
Matches are distributed among these distances:
39 66 0.23
41 2 0.01
47 7 0.02
48 41 0.14
49 171 0.60
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (47 bp):
CCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAATGTGGGTG
Found at i:2227921 original size:39 final size:39
Alignment explanation
Indices: 2227866--2227944 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
2227856 AAAGATGAAG
*
2227866 ATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGGCTT
1 ATGCCAATGTGCTGATTCAAGGCCAACAACATTGGGCTT
* * *
2227905 ATGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTT
1 ATGCCAATGTGCTGATTCAAGGCCAACAACATTGGGCTT
2227944 A
1 A
2227945 AAGATGAAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (39 bp):
ATGCCAATGTGCTGATTCAAGGCCAACAACATTGGGCTT
Found at i:2228018 original size:136 final size:136
Alignment explanation
Indices: 2227769--2228134 Score: 579
Period size: 136 Copynumber: 2.7 Consensus size: 136
2227759 GGAATGTGGG
* * ** * *
2227769 TGCCAATGTGCTGATTCAAGGCTAGTGACATTGGTCTTAAATATGACGGTGCCAATATGCTGATT
1 TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGA-AGTGCCAATATGCTGATT
**
2227834 CAAGGCCAGCGATATCGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCAACATT
65 CAAGGCCAGCGATATCGGACTTAAAGATGAAGATGCCAACATGCTGATTCAAGGCCAGCAACATT
2227899 GGGCTTA
130 GGGCTTA
2227906 TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATTC
1 TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATTC
* *
2227971 AAGGCCAGCGATATCGGACTTAAAGATGAGGATGCCAACATGTTGATTCAAGGCCAGCAACATTG
66 AAGGCCAGCGATATCGGACTTAAAGATGAAGATGCCAACATGCTGATTCAAGGCCAGCAACATTG
2228036 GGCTTA
131 GGCTTA
* * *
2228042 TGCCAATGTGTTGATTCAAGGCCAACGATATTGGTCTTAAAGATAAAGGTGCCAATATGCTAATT
1 TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAA-GTGCCAATATGCTGATT
*
2228107 CAAGGCCAGCGATATTGGACTTAGAAGA
65 CAAGGCCAGCGATATCGGACTTA-AAGA
2228135 AGACACCACC
Statistics
Matches: 213, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
136 130 0.61
137 79 0.37
138 4 0.02
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (136 bp):
TGCCAATGTGTTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGTGCCAATATGCTGATTC
AAGGCCAGCGATATCGGACTTAAAGATGAAGATGCCAACATGCTGATTCAAGGCCAGCAACATTG
GGCTTA
Found at i:2228063 original size:88 final size:88
Alignment explanation
Indices: 2227954--2228116 Score: 229
Period size: 88 Copynumber: 1.9 Consensus size: 88
2227944 AAAGATGAAG
* * * *
2227954 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGAT-GAGGATGCCAACATGTTGAT
1 TGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATAAAGG-TGCCAACATGCTAAT
2228018 TCAAGGCCAGCAACATTGGGCTTA
65 TCAAGGCCAGCAACATTGGGCTTA
* * * * *
2228042 TGCCAATGTGTTGATTCAAGGCCAACGATATTGGTCTTAAAGATAAAGGTGCCAATATGCTAATT
1 TGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATAAAGGTGCCAACATGCTAATT
2228107 CAAGGCCAGC
66 CAAGGCCAGC
2228117 GATATTGGAC
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
88 62 0.95
89 3 0.05
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (88 bp):
TGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATAAAGGTGCCAACATGCTAATT
CAAGGCCAGCAACATTGGGCTTA
Found at i:2228208 original size:30 final size:30
Alignment explanation
Indices: 2228146--2228433 Score: 187
Period size: 30 Copynumber: 9.6 Consensus size: 30
2228136 GACACCACCA
* * * *
2228146 ACTTGTGTGCTTTTG--AAGGTTACCACTA
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
2228174 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
** * *
2228204 ACTTGTGGGCTTAAAAGGAAAAAGAGTGCCACGG
1 ACTTGTGGGCTT---TTG-AAAAGGGTGCCACTG
* ** * * *
2228238 AGTTGTGGGCTTAAAAGGAAAAAGATGCCACGG
1 ACTTGTGGGCTT---TTGAAAAGGGTGCCACTG
* *
2228271 ACTTGTGGACTTTTG--AAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* * * *
2228299 ATTTGTGGGC-TTTGAAAAATGGCGTCACTG
1 ACTTGTGGGCTTTTG-AAAAGGGTGCCACTG
* * *
2228329 ACTTGTGGGGTTTTG--AAGGTTGCCACTA
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* * *
2228357 ACTTGTGGGCTTTGGAAAA-GATGCCACTA
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* *
2228386 ACTTATGGGCTTTTGAAGAGGGTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
*
2228416 ACTTGTGGGCTTTGGAAA
1 ACTTGTGGGCTTTTGAAA
2228434 TGATGCCACA
Statistics
Matches: 204, Mismatches: 43, Indels: 24
0.75 0.16 0.09
Matches are distributed among these distances:
27 4 0.02
28 53 0.26
29 25 0.12
30 65 0.32
31 4 0.02
33 23 0.11
34 30 0.15
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.30
Consensus pattern (30 bp):
ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
Found at i:2228277 original size:33 final size:34
Alignment explanation
Indices: 2228189--2228278 Score: 146
Period size: 34 Copynumber: 2.7 Consensus size: 34
2228179 TGGGCTTTTG
* *
2228189 AAAAGGGTGCCACTGACTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGACTTGTGGGCTTAAAAGGA
*
2228223 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGACTTGTGGGCTTAAAAGGA
2228257 AAAAGA-TGCCACGGACTTGTGG
1 AAAAGAGTGCCACGGACTTGTGG
2228279 ACTTTTGAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 15 0.29
34 37 0.71
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.19
Consensus pattern (34 bp):
AAAAGAGTGCCACGGACTTGTGGGCTTAAAAGGA
Found at i:2228414 original size:59 final size:57
Alignment explanation
Indices: 2228146--2228442 Score: 249
Period size: 58 Copynumber: 5.0 Consensus size: 57
2228136 GACACCACCA
* * * * *
2228146 ACTTGTGTGCTTTTGAAGGTTACCACTAACTTGTGGGCTTTTGAAAAGGGTGCCACTG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAA-GATGCCACTG
** * * *
2228204 ACTTGTGGGCTTAAAAGGAAAAAGAG-TGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGATGCCA
1 ACTTGTGGGCTT---TTG---AAG-GTTGCCACTGACTTGTGGGCTT---TGG-AAAAGATGCCA
*
2228268 CGG
55 CTG
* *
2228271 ACTTGTGGACTTTTGAAGGTTGCCACTGATTTGTGGGCTTT-GAAAA-ATGGCGTCACTG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGAT-GC--CACTG
* * *
2228329 ACTTGTGGGGTTTTGAAGGTTGCCACTAACTTGTGGGCTTTGGAAAAGATGCCACTA
1 ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTG
* * *
2228386 ACTTATGGGCTTTTGAAGAGGGTGCCACTGACTTGTGGGCTTTGGAAATGATGCCAC
1 ACTTGTGGGCTTTTG-A-AGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCAC
2228443 AACCAACGAA
Statistics
Matches: 192, Mismatches: 28, Indels: 37
0.75 0.11 0.14
Matches are distributed among these distances:
55 2 0.01
56 6 0.03
57 18 0.09
58 53 0.28
59 43 0.22
60 3 0.02
61 22 0.11
64 20 0.10
65 1 0.01
67 20 0.10
68 4 0.02
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (57 bp):
ACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTG
Found at i:2237920 original size:28 final size:28
Alignment explanation
Indices: 2237877--2238774 Score: 1044
Period size: 28 Copynumber: 31.5 Consensus size: 28
2237867 TGTTCATCTC
2237877 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
2237905 TTAAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
** * *
2237933 TTCAAAGCCCTTAAGTCAGGGGCACCAT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
2237961 TTCAAAGCCCATAAGTCAGTAGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
2237989 TTCAAAGCCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
2238017 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
2238045 TTCAAAGCCCACAATTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
2238073 TTTAAAGCCCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
2238101 TTTAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
2238129 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
2238157 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
2238185 TTCAAATCCCACAAGTCAATGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * *
2238214 TTCAAAGCCCACAAGTTAGTGGTATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
2238242 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
**
2238270 TTCAAAGCCCACGCAAGTCAGTGGCACTTT
1 TTCAAAGCCCA--CAAGTCAGTGGCACCCT
* *
2238300 TTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
2238329 TTCGAAGCCCACAAGTCTGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
2238357 TTCAAAGCCTACAAGTTAGTGTCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * *
2238386 TTCAAAGCCCACAAGTTAGTGACATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
2238414 TTCAAAGCCCACAAGTCATTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
*
2238443 TTCAAAGCCCACAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
2238471 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * *
2238500 TTCAAAGCCCATAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
2238528 TTCAAAGCCCACAAGTCAATGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* **
2238557 TTCAAAGCCCACAACTCAGTGGCACTGT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
2238585 TTCAAAGCCCACAAGTCAGTGACACTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
2238613 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * *
2238642 TTCAAAGTCCACAAG-CTAGTGGTAACTCT
1 TTCAAAGCCCACAAGTC-AGTGG-CACCCT
* *
2238671 TTCAAAGCCCATAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
2238700 TTCAAAGCCCACAAG-CTAGTGGTAACTCT
1 TTCAAAGCCCACAAGTC-AGTGG-CACCCT
* * *
2238729 TTGCAAAGCGCACACGAGTCGGTGGCAACTCTT
1 TT-CAAAGC-C-CACAAGTCAGTGGC-AC-CCT
2238762 TTCAAAGCCCACA
1 TTCAAAGCCCACA
2238775 TAAGTTGGTG
Statistics
Matches: 742, Mismatches: 107, Indels: 40
0.83 0.12 0.04
Matches are distributed among these distances:
28 473 0.64
29 207 0.28
30 39 0.05
31 2 0.00
32 17 0.02
33 4 0.01
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:2238243 original size:57 final size:57
Alignment explanation
Indices: 2237877--2238774 Score: 1105
Period size: 57 Copynumber: 15.7 Consensus size: 57
2237867 TGTTCATCTC
* *
2237877 TTCAAAGCCCACAAGTCAGTGGCACCCTTTAAAAGCCCACAAGTCAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
** * * * * *
2237933 TTCAAAGCCCTTAAGTCAGGGGCACCATTTCAAAGCCCATAAGTCAGTAGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
2237989 TTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
2238045 TTCAAAGCCCACAATTCAGTGGCACCCTTTTAAAGCCCATAAGTCAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
2238102 TT-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
2238157 TTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAATCCCACAAGTCAATGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * * *
2238214 TTCAAAGCCCACAAGTTAGTGGTATCCTTTCAAAGCCCACAAGTTAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
** *
2238270 TTCAAAGCCCACGCAAGTCAGTGGCACTTTTTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCA--CAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * * *
2238329 TTCGAAGCCCACAAGTCTGTGGCACCCTTTCAAAGCCTACAAGTTAGTGTCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
2238386 TTCAAAGCCCACAAGTTAGTGACATCCTTTCAAAGCCCACAAGTCATTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
*
2238443 TTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
2238500 TTCAAAGCCCATAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAATGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* ** *
2238557 TTCAAAGCCCACAACTCAGTGGCACTGTTTCAAAGCCCACAAGTCAGTGACACTC-T
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
2238613 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGTCCACAAG-CTAGTGGTAACTC-T
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTC-AGTGG-CACTCTT
* * *
2238671 TTCAAAGCCCATAAGTCAGTGGCACTCTTTTCAAAGCCCACAAG-CTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTC-AGTGG-CACTCTT
* * * *
2238730 TGCAAAGCGCACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACA
1 TTCAAAGC-C-CACAAGTCAGTGGC-AC-CCTTTCAAAGCCCACA
2238775 TAAGTTGGTG
Statistics
Matches: 740, Mismatches: 89, Indels: 20
0.87 0.10 0.02
Matches are distributed among these distances:
55 4 0.01
56 275 0.37
57 313 0.42
58 97 0.13
59 20 0.03
60 1 0.00
61 11 0.01
62 19 0.03
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (57 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:2239680 original size:20 final size:20
Alignment explanation
Indices: 2239657--2239731 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
2239647 AAGAACCCAG
2239657 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
2239677 ATGTAACGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
2239697 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
2239717 ATGTATCGATACATT
1 ATGTATCGATACATT
2239732 CTATCCTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Done.