Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 171 of 325
Found at i:55556005 original size:6 final size:6
Alignment explanation
Indices: 55555996--55556149 Score: 84
Period size: 6 Copynumber: 24.8 Consensus size: 6
55555986 TTGCATTTAC
* * * * *
55555996 ATTCTG ATTCTG ATTCT- ATTACCTA ATACTA ATTCTG ATTCT- ATCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
55556046 ATTCTG ATTTTA ATTCTG ATTCTG ATTCTG -TTACGTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG
* * *
55556095 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG -TCCCCTG ATTCTG ATTCTG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
55556145 ATTCT
1 ATTCT
55556150 CATTTTAATT
Statistics
Matches: 115, Mismatches: 18, Indels: 30
0.71 0.11 0.18
Matches are distributed among these distances:
5 9 0.08
6 87 0.76
7 12 0.10
8 7 0.06
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (6 bp):
ATTCTG
Found at i:55556031 original size:31 final size:31
Alignment explanation
Indices: 55555996--55556100 Score: 99
Period size: 31 Copynumber: 3.4 Consensus size: 31
55555986 TTGCATTTAC
*
55555996 ATTCTGATTCTGATTCTATTACCTAATACTA
1 ATTCTGATTCTGATTCTATTACCTGATACTA
* **
55556027 ATTCTGATTCT-ATCACCTAATT--CTGATTTTA
1 ATTCTGATTCTGAT--TCT-ATTACCTGATACTA
* * *
55556058 ATTCTGATTCTGATTCTGTTACGTGATACTG
1 ATTCTGATTCTGATTCTATTACCTGATACTA
55556089 ATTCTGATTCTG
1 ATTCTGATTCTG
55556101 TCACCTAATT
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
29 2 0.03
30 4 0.07
31 45 0.78
32 4 0.07
33 3 0.05
ACGTcount: A:0.24, C:0.18, G:0.11, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTATTACCTGATACTA
Found at i:55556062 original size:25 final size:25
Alignment explanation
Indices: 55555996--55556054 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
55555986 TTGCATTTAC
*
55555996 ATTCTGATTCTGATTCTATTACCTA
1 ATTCTGATTCTGATTCTATCACCTA
* *
55556021 ATACTAATTCTGATTCTATCACCTA
1 ATTCTGATTCTGATTCTATCACCTA
55556046 ATTCTGATT
1 ATTCTGATT
55556055 TTAATTCTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTATCACCTA
Found at i:55556091 original size:25 final size:25
Alignment explanation
Indices: 55556058--55556149 Score: 139
Period size: 25 Copynumber: 3.7 Consensus size: 25
55556048 TCTGATTTTA
* *
55556058 ATTCTGATTCTGATTCTGTTACGTG
1 ATTCTGATTCTGATTCTGTCACCTG
* *
55556083 ATACTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTG
*
55556108 ATTCTGATTCTGATTCTGTCCCCTG
1 ATTCTGATTCTGATTCTGTCACCTG
55556133 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
55556150 CATTTTAATT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 60 1.00
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTG
Found at i:55556093 original size:62 final size:62
Alignment explanation
Indices: 55555991--55556125 Score: 198
Period size: 62 Copynumber: 2.2 Consensus size: 62
55555981 TGGGATTGCA
55555991 TTTACATTCTGATTCTGATTCTATTACCTAATACTAATTCTGATTCTATCACCTAATTCTGAT
1 TTTA-ATTCTGATTCTGATTCTATTACCTAATACTAATTCTGATTCTATCACCTAATTCTGAT
* * * * *
55556054 TTTAATTCTGATTCTGATTCTGTTACGTGATACTGATTCTGATTCTGTCACCTAATTCTGAT
1 TTTAATTCTGATTCTGATTCTATTACCTAATACTAATTCTGATTCTATCACCTAATTCTGAT
* *
55556116 TCTGATTCTG
1 TTTAATTCTG
55556126 TCCCCTGATT
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
62 61 0.94
63 4 0.06
ACGTcount: A:0.23, C:0.19, G:0.11, T:0.47
Consensus pattern (62 bp):
TTTAATTCTGATTCTGATTCTATTACCTAATACTAATTCTGATTCTATCACCTAATTCTGAT
Found at i:55556149 original size:31 final size:31
Alignment explanation
Indices: 55556027--55556125 Score: 96
Period size: 31 Copynumber: 3.2 Consensus size: 31
55556017 CCTAATACTA
* * *
55556027 ATTCTGATTCTATCACCTAATTCTGATTTTA
1 ATTCTGATTCTGTCACCTAATTCTGATTCTG
* * *
55556058 ATTCTGATTCTG--ATTCT-GTTACGTGATACTG
1 ATTCTGATTCTGTCA-CCTAATT-C-TGATTCTG
55556089 ATTCTGATTCTGTCACCTAATTCTGATTCTG
1 ATTCTGATTCTGTCACCTAATTCTGATTCTG
55556120 ATTCTG
1 ATTCTG
55556126 TCCCCTGATT
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
29 3 0.06
30 3 0.06
31 41 0.77
32 3 0.06
33 3 0.06
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.46
Consensus pattern (31 bp):
ATTCTGATTCTGTCACCTAATTCTGATTCTG
Found at i:55556945 original size:49 final size:50
Alignment explanation
Indices: 55556812--55557002 Score: 253
Period size: 49 Copynumber: 3.9 Consensus size: 50
55556802 TTGTGGTGTT
* *
55556812 ACATGTGTAGTACTAACTGCAGGCTACTATGTGTACCAAATAGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTC
* * ** *
55556862 ACATGTGCAGTACTAAGTGCAGGCTACTACGTGTATGAGATGGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTC
*
55556912 AC-TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTT-GGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTC
* * *
55556960 GCATGTGTAGTACTAAGT-CTAGGCTACTATGCGTACCGGATAG
1 ACATGTGTAGTACTAAGTGC-AGGCTACTATGTGTACCAGATAG
55557003 CTTCGGTTAC
Statistics
Matches: 123, Mismatches: 16, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
48 6 0.05
49 72 0.59
50 45 0.37
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTC
Found at i:55557221 original size:16 final size:15
Alignment explanation
Indices: 55557200--55557229 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
55557190 GAATGGAGTA
55557200 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
55557216 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
55557230 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:55561631 original size:27 final size:27
Alignment explanation
Indices: 55561595--55561920 Score: 319
Period size: 27 Copynumber: 12.1 Consensus size: 27
55561585 GTCGTTAAGA
*
55561595 CCCTGGTTTGTAAAATTATCGAAATAC
1 CCCTAGTTTGTAAAATTATCGAAATAC
* *
55561622 CCGTGGTTTGTAAAATTATCGAAATAC
1 CCCTAGTTTGTAAAATTATCGAAATAC
* *
55561649 CCCT-GATTT-TAAAATTACCAAAATA-
1 CCCTAG-TTTGTAAAATTATCGAAATAC
*
55561674 CCCTCAGTTTGTAAAATTATCAAAATAC
1 CCCT-AGTTTGTAAAATTATCGAAATAC
*
55561702 CCCCAGTTTGTAAAATTA-CTGAAATAC
1 CCCTAGTTTGTAAAATTATC-GAAATAC
* * **
55561729 CCCCAATTTGTAAAATTATTAAAATAC
1 CCCTAGTTTGTAAAATTATCGAAATAC
* *
55561756 CCC-AGTTTGTAAAACTACCGAAATAC
1 CCCTAGTTTGTAAAATTATCGAAATAC
* *
55561782 CCCTGGTTTGTAAAATTTTCGAAATAC
1 CCCTAGTTTGTAAAATTATCGAAATAC
* *
55561809 CCCCAATTTGTAAAATTA-CTGAAATAC
1 CCCTAGTTTGTAAAATTATC-GAAATAC
55561836 CCCTAGTTTGTAAAATTATCGAAATAC
1 CCCTAGTTTGTAAAATTATCGAAATAC
* * **
55561863 CCTTA-TAGTGTAAAATTATTAAAATA-
1 CCCTAGT-TTGTAAAATTATCGAAATAC
* *
55561889 CCCTTGTAGTGTAAAATTA-CAGAAATAC
1 CCCTAGT-TTGTAAAATTATC-GAAATAC
55561917 CCCT
1 CCCT
55561921 TTATGGCAAA
Statistics
Matches: 252, Mismatches: 33, Indels: 27
0.81 0.11 0.09
Matches are distributed among these distances:
25 4 0.02
26 45 0.18
27 195 0.77
28 8 0.03
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
CCCTAGTTTGTAAAATTATCGAAATAC
Found at i:55561762 original size:80 final size:80
Alignment explanation
Indices: 55561600--55561864 Score: 381
Period size: 80 Copynumber: 3.3 Consensus size: 80
55561590 TAAGACCCTG
* **
55561600 GTTTGTAAAATTATCGAAATACCCGTGGTTTGTAAAATTATCGAAATACCCCTGATTT-TAAAAT
1 GTTTGTAAAATTATCGAAATACCCCTGGTTTGTAAAATTATCGAAATACCCCCAATTTGTAAAAT
*
55561664 TACCAAAATACCCTCA
66 TACTAAAATACCC-CA
* **
55561680 GTTTGTAAAATTATCAAAATACCCCCAGTTTGTAAAATTA-CTGAAATACCCCCAATTTGTAAAA
1 GTTTGTAAAATTATCGAAATACCCCTGGTTTGTAAAATTATC-GAAATACCCCCAATTTGTAAAA
*
55561744 TTATTAAAATACCCCA
65 TTACTAAAATACCCCA
* * *
55561760 GTTTGTAAAACTACCGAAATACCCCTGGTTTGTAAAATTTTCGAAATACCCCCAATTTGTAAAAT
1 GTTTGTAAAATTATCGAAATACCCCTGGTTTGTAAAATTATCGAAATACCCCCAATTTGTAAAAT
*
55561825 TACTGAAATACCCCTA
66 TACTAAAATACCCC-A
55561841 GTTTGTAAAATTATCGAAATACCC
1 GTTTGTAAAATTATCGAAATACCC
55561865 TTATAGTGTA
Statistics
Matches: 163, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
79 1 0.01
80 121 0.74
81 41 0.25
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (80 bp):
GTTTGTAAAATTATCGAAATACCCCTGGTTTGTAAAATTATCGAAATACCCCCAATTTGTAAAAT
TACTAAAATACCCCA
Found at i:55561791 original size:107 final size:107
Alignment explanation
Indices: 55561600--55561864 Score: 365
Period size: 107 Copynumber: 2.5 Consensus size: 107
55561590 TAAGACCCTG
* * * *
55561600 GTTTGTAAAATTA-TCGAAATACCCGTGGTTTGTAAAATTATCGAAATACCCCTGATTTTAAAAT
1 GTTTGTAAAATTACT-GAAATACCCCTAGTTTGTAAAATTATCGAAATACCCCAGATTTTAAAAC
55561664 TACCAAAATACCCTCAGTTTGTAAAATTATCAAAATACCCCCA
65 TACCAAAATACCCTCAGTTTGTAAAATTATCAAAATACCCCCA
* * **
55561707 GTTTGTAAAATTACTGAAATACCCCCAATTTGTAAAATTATTAAAATACCCCAG-TTTGTAAAAC
1 GTTTGTAAAATTACTGAAATACCCCTAGTTTGTAAAATTATCGAAATACCCCAGATTT-TAAAAC
* * * *
55561771 TACCGAAATACCC-CTGGTTTGTAAAATTTTCGAAATACCCCCA
65 TACCAAAATACCCTC-AGTTTGTAAAATTATCAAAATACCCCCA
*
55561814 ATTTGTAAAATTACTGAAATACCCCTAGTTTGTAAAATTATCGAAATACCC
1 GTTTGTAAAATTACTGAAATACCCCTAGTTTGTAAAATTATCGAAATACCC
55561865 TTATAGTGTA
Statistics
Matches: 138, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
106 4 0.03
107 133 0.96
108 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (107 bp):
GTTTGTAAAATTACTGAAATACCCCTAGTTTGTAAAATTATCGAAATACCCCAGATTTTAAAACT
ACCAAAATACCCTCAGTTTGTAAAATTATCAAAATACCCCCA
Found at i:55564896 original size:5 final size:5
Alignment explanation
Indices: 55564886--55564916 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
55564876 CAATATGAGA
55564886 TATGT TATGT TATGT TATGT TATGT TATGT T
1 TATGT TATGT TATGT TATGT TATGT TATGT T
55564917 TCATTTACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (5 bp):
TATGT
Found at i:55566643 original size:40 final size:40
Alignment explanation
Indices: 55566570--55566786 Score: 242
Period size: 40 Copynumber: 5.5 Consensus size: 40
55566560 ACCCAAGCAT
* *
55566570 CTTCGGGAT-TTAG-CCGGATATAACGACTTGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
*
55566609 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAGTGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
55566649 CTTCGGGTCTTAGCCCGGTTATAACAACTCGCACAAGTGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* * * *
55566689 CTTCGGGTCTTAGCCCGGTTATAATC-ATTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACAAATGC
* * * * * *
55566729 CTTCGGGACATGGCCCGGATATACCAACTTGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
55566769 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
55566787 TTATCATCCG
Statistics
Matches: 152, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
38 1 0.01
39 12 0.08
40 138 0.91
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:55567179 original size:13 final size:13
Alignment explanation
Indices: 55567161--55567185 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55567151 ATCAAACTCA
55567161 TTATATATATATT
1 TTATATATATATT
55567174 TTATATATATAT
1 TTATATATATAT
55567186 ACTTTGGCTA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTATATATATATT
Found at i:55574101 original size:22 final size:22
Alignment explanation
Indices: 55574073--55574116 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
55574063 AAATGGCTTT
55574073 CAGGCCAAAATTAAGTTATGAC
1 CAGGCCAAAATTAAGTTATGAC
55574095 CAGGCCAAAATTAAGTTATGAC
1 CAGGCCAAAATTAAGTTATGAC
55574117 ATAGTATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (22 bp):
CAGGCCAAAATTAAGTTATGAC
Found at i:55574941 original size:35 final size:35
Alignment explanation
Indices: 55574871--55574941 Score: 81
Period size: 35 Copynumber: 2.0 Consensus size: 35
55574861 ATGTGAAATG
* * * *
55574871 TTTGGAAATGTGATTTATGGCATGATTGTGTAATT
1 TTTGGAAATGTGATCTATGGCATGAATGAGGAATT
*
55574906 TTTGGAAATGTGATCTATTG-ATGAGATGAGGAATT
1 TTTGGAAATGTGATCTATGGCATGA-ATGAGGAATT
55574941 T
1 T
55574942 GAGTATAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
34 4 0.13
35 26 0.87
ACGTcount: A:0.28, C:0.03, G:0.27, T:0.42
Consensus pattern (35 bp):
TTTGGAAATGTGATCTATGGCATGAATGAGGAATT
Found at i:55577931 original size:17 final size:18
Alignment explanation
Indices: 55577909--55577950 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
55577899 TTTTTATCAT
*
55577909 TTATCATTTA-TCGGGCA
1 TTATCATTTATTCAGGCA
55577926 TTATCATTTATTTCAGGCA
1 TTATCATTTA-TTCAGGCA
55577945 TTATCA
1 TTATCA
55577951 CCTATCGAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.45
19 12 0.55
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.45
Consensus pattern (18 bp):
TTATCATTTATTCAGGCA
Found at i:55581167 original size:46 final size:46
Alignment explanation
Indices: 55581100--55581271 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
55581090 AACCCGCCCC
* *
55581100 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
* * * * *
55581146 TAAGTGAACTCAGACTCAACTCAATGAGTTCGGATGCCTAGTTACATTTCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCA-TCCA
* * *
55581197 -CA---AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
55581239 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
55581272 ATGCTCAACC
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
46 57 0.56
47 25 0.25
48 1 0.01
49 1 0.01
50 5 0.05
51 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
Found at i:55581213 original size:93 final size:93
Alignment explanation
Indices: 55581106--55581275 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
55581096 CCCCTAAGTG
* * * *
55581106 AACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCAGACTCAACTCAAT
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
55581171 GAGTTCGGATGCCTAGTTACATTTCACA
66 GAGTTCGGATGCCTAGTTACATTTCACA
* *
55581199 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
55581264 GAGTTCGGATGC
66 GAGTTCGGATGC
55581276 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCACA
Found at i:55583207 original size:86 final size:85
Alignment explanation
Indices: 55583058--55583214 Score: 208
Period size: 86 Copynumber: 1.8 Consensus size: 85
55583048 ATGCAGTACA
* * **
55583058 AGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGAAAAGGTCTTACACAAAATC
1 AGACATGGTCTTACACGTAATCAAATATCGATGCCAAAGTCCCAGAAAAGGTCTTACACAAAATC
55583123 AAATATGATGCTGATGTCCC
66 AAATATGATGCTGATGTCCC
* * * *
55583143 AGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAAGTCTCAGACATGGTCTTACACAAAA
1 AGACATGGTCTTACACGT-AATC-AAATATCGATGCCAAAGTCCCAGAAAAGGTCTTACACAAAA
*
55583207 TCACATAT
64 TCAAATAT
55583215 CGGAATCCTA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
85 16 0.26
86 43 0.70
87 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (85 bp):
AGACATGGTCTTACACGTAATCAAATATCGATGCCAAAGTCCCAGAAAAGGTCTTACACAAAATC
AAATATGATGCTGATGTCCC
Found at i:55589148 original size:21 final size:21
Alignment explanation
Indices: 55589111--55589153 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 21
55589101 CAAATATGCA
55589111 ACAAAAACTAATCAAT-CAAT
1 ACAAAAACTAATCAATCCAAT
55589131 ACAAAAA-TATATCAAATCCAAT
1 ACAAAAACTA-ATC-AATCCAAT
55589153 A
1 A
55589154 TTTCAAGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 2 0.10
20 10 0.50
21 3 0.15
22 5 0.25
ACGTcount: A:0.60, C:0.19, G:0.00, T:0.21
Consensus pattern (21 bp):
ACAAAAACTAATCAATCCAAT
Found at i:55589939 original size:47 final size:47
Alignment explanation
Indices: 55589844--55589962 Score: 139
Period size: 47 Copynumber: 2.5 Consensus size: 47
55589834 CGATAAGTAT
* * * * *
55589844 CTATACCATGGCCTGTAGCCAAATCAAGGTGACTTATCCCAGAGTAC
1 CTATACCATGGCCAGTAGCCAAATCAAGATAACTCATCCCAGAATAC
* ***
55589891 CTATACCATGGCCAGTAGCCAAATCAAGATAACTCCTCTTTGAATAC
1 CTATACCATGGCCAGTAGCCAAATCAAGATAACTCATCCCAGAATAC
* *
55589938 CTATACCCTGGCCCGTAGCCAAATC
1 CTATACCATGGCCAGTAGCCAAATC
55589963 TTGATATTAT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 61 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (47 bp):
CTATACCATGGCCAGTAGCCAAATCAAGATAACTCATCCCAGAATAC
Found at i:55591893 original size:46 final size:45
Alignment explanation
Indices: 55591791--55591942 Score: 168
Period size: 46 Copynumber: 3.3 Consensus size: 45
55591781 GTTATTGGAG
* *
55591791 AGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACG-A
1 AGCCAGTGTAAGA-CATGTCT-GGACAT-GCATTGGCCTTGAGATGTA
*
55591838 GAGCTAGTGTAAGACATGTCTGCGACATGCATTGGCCTTGAGATGTA
1 -AGCCAGTGTAAGACATGTCTG-GACATGCATTGGCCTTGAGATGTA
* *
55591885 AGCCAGTGTAAGACATGTCTGGTACATGGATCGG-CTATGAGATGT-
1 AGCCAGTGTAAGACATGTCTGG-ACATGCATTGGCCT-TGAGATGTA
55591930 -GCCAGTGTAAGAC
1 AGCCAGTGTAAGAC
55591943 TATCGGCTAT
Statistics
Matches: 94, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
44 13 0.14
45 3 0.03
46 53 0.56
47 13 0.14
48 12 0.13
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (45 bp):
AGCCAGTGTAAGACATGTCTGGACATGCATTGGCCTTGAGATGTA
Found at i:55591948 original size:30 final size:30
Alignment explanation
Indices: 55591914--55591975 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
55591904 TGGTACATGG
*
55591914 ATCGGCTATGAGATGTGCCAGTGTAAGACT
1 ATCGGCTATGAGATGTGCCAATGTAAGACT
*
55591944 ATCGGCTATGAGATGTGTCAATGTAAGACT
1 ATCGGCTATGAGATGTGCCAATGTAAGACT
55591974 AT
1 AT
55591976 GTCTGGGACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
ATCGGCTATGAGATGTGCCAATGTAAGACT
Found at i:55592073 original size:49 final size:47
Alignment explanation
Indices: 55592008--55592137 Score: 154
Period size: 47 Copynumber: 2.7 Consensus size: 47
55591998 AGATATGTGA
* **
55592008 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTACGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-AACTCGA-T-CGAT
* * * * *
55592058 -AGCCAGTGTAAGACCATGTTTGGAAAATGGCATCAACTTGATGGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTCGATCGAT
55592104 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
55592138 TTGCATTATA
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
46 3 0.04
47 31 0.46
48 4 0.06
49 30 0.44
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTCGATCGAT
Found at i:55592135 original size:47 final size:50
Alignment explanation
Indices: 55591965--55592137 Score: 160
Period size: 49 Copynumber: 3.5 Consensus size: 50
55591955 GATGTGTCAA
* * * * ** *
55591965 TGTAAGACTATGTCTGGGACACGGTATCGACAC-AGATATGTGA-GAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGA-ACTCGAT-TACGATGAGCCAG
**
55592015 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTACGAT-AGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGAACTCGATTACGATGAGCCAG
* * * * *
55592064 TGTAAGACCATGTTTGGAAAATGGCATC-AACTTGA-T-GGATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGAACTCGATTACGATGAGCCAG
55592111 TGTAAGACCATGTCTGGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
55592138 TTGCATTATA
Statistics
Matches: 101, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
46 3 0.03
47 31 0.31
48 4 0.04
49 34 0.34
50 29 0.29
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (50 bp):
TGTAAGACCATGTCTGGGACATGGCATCGAACTCGATTACGATGAGCCAG
Found at i:55596840 original size:34 final size:34
Alignment explanation
Indices: 55596802--55596881 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 34
55596792 TACTGAATTA
* *
55596802 GGCTAAGGCCCACACTGGTACTGTTACTG-TAATG
1 GGCTAAGGCCCACACTGATACTGCTACTGTTAA-G
*
55596836 GGCTAAGGCCCACACTGATATTGCTACTGTTAAG
1 GGCTAAGGCCCACACTGATACTGCTACTGTTAAG
*
55596870 GGCTTAGGCCCA
1 GGCTAAGGCCCA
55596882 GACTATTTGC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 38 0.93
35 3 0.07
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (34 bp):
GGCTAAGGCCCACACTGATACTGCTACTGTTAAG
Found at i:55614339 original size:27 final size:26
Alignment explanation
Indices: 55614291--55614350 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
55614281 GCTAGGCTAC
*
55614291 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
55614318 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
55614344 CAGATAT
1 CAGATAT
55614351 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:55616241 original size:42 final size:43
Alignment explanation
Indices: 55616170--55616301 Score: 144
Period size: 42 Copynumber: 3.1 Consensus size: 43
55616160 ATGTAATAAA
* * * * *
55616170 ATATCGATGCCACTGTTCCAGATAGGGTCTTACACGAAATCAT
1 ATATCAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAT
*
55616213 ATA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAC
1 ATATCAATGCCAATGTCCCAGACATGGTCTTACACG-AAATCAT
* * *
55616256 AAATCAATGCCAACGTCCCAGACGTGG-CTTACACGATAA-CAT
1 ATATCAATGCCAATGTCCCAGACATGGTCTTACACGA-AATCAT
55616298 ATAT
1 ATAT
55616302 TGAAATACTA
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
42 33 0.44
43 21 0.28
44 21 0.28
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (43 bp):
ATATCAATGCCAATGTCCCAGACATGGTCTTACACGAAATCAT
Found at i:55616287 original size:43 final size:42
Alignment explanation
Indices: 55616195--55616291 Score: 133
Period size: 44 Copynumber: 2.3 Consensus size: 42
55616185 TTCCAGATAG
* * *
55616195 GGTCTTACACGAAATCATATACAATGCCAATGTCCCAGACAT
1 GGTCTTACACGAAATCACAAACAATGCCAACGTCCCAGACAT
*
55616237 GGTCTTACACGTAAATCACAAATCAATGCCAACGTCCCAGACGT
1 GGTCTTACACG-AAATCACAAA-CAATGCCAACGTCCCAGACAT
55616281 GG-CTTACACGA
1 GGTCTTACACGA
55616292 TAACATATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
42 12 0.24
43 16 0.33
44 21 0.43
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (42 bp):
GGTCTTACACGAAATCACAAACAATGCCAACGTCCCAGACAT
Found at i:55622859 original size:40 final size:40
Alignment explanation
Indices: 55622815--55622986 Score: 258
Period size: 40 Copynumber: 4.3 Consensus size: 40
55622805 GCTCCTCGTT
* *
55622815 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
55622855 CAAATGCCTTCGGGACTTAACCCGGACTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
55622895 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
55622935 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
55622974 CAAATGCCTTCGG
1 CAAATGCCTTCGG
55622987 ATCTTAGTCC
Statistics
Matches: 122, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 34 0.28
40 87 0.71
41 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:55622999 original size:79 final size:81
Alignment explanation
Indices: 55622815--55623032 Score: 277
Period size: 80 Copynumber: 2.7 Consensus size: 81
55622805 GCTCCTCGTT
*
55622815 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
55622879 GACTTAGTAACTCGCA
66 GAATTAGTAACTCGCA
* * *
55622895 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
55622958 GAATTAGTATCTCGCA
66 GAATTAGTAACTCGCA
* * * * *
55622974 CAAATGCCTTC-GGATCTTAGTCCGGA-TATGGTCACTTAGTACAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAAC-TCGCACAAATGCCTTCGGGACTTA
55623033 GGCCGGACAT
Statistics
Matches: 120, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 4 0.03
79 56 0.47
80 58 0.48
81 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GAATTAGTAACTCGCA
Found at i:55630954 original size:118 final size:119
Alignment explanation
Indices: 55630749--55630970 Score: 299
Period size: 118 Copynumber: 1.9 Consensus size: 119
55630739 TCCTCGTTCA
* *
55630749 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
*
55630814 ATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * **
55630868 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
55630930 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
55630971 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
117 4 0.04
118 66 0.73
119 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:55630970 original size:40 final size:40
Alignment explanation
Indices: 55630747--55630970 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
55630737 GCTCCTCGTT
* *
55630747 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
55630787 CAAATGCCTTCGGGACTTAACCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
55630827 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
55630867 C-AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
55630905 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
55630946 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55630971 CATCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
38 24 0.15
39 21 0.13
40 107 0.65
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:55634013 original size:43 final size:44
Alignment explanation
Indices: 55633935--55634070 Score: 122
Period size: 43 Copynumber: 3.2 Consensus size: 44
55633925 AGCTCGTACA
* * * *
55633935 ATGCCAATGTCCCAGAC-GTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAATGTTCTAGACAG-GGTCTTAAACGTAAATCAAATATCG
* * *
55633978 ATGCTACTG-TCTCAGACAGGGTCTTAAACG-AAATCATATA-CG
1 ATGCCAATGTTCT-AGACAGGGTCTTAAACGTAAATCAAATATCG
* *
55634020 ATGCCAATGTTCTAGACATGGTCTTACACGTAAATCAGAA-ATCG
1 ATGCCAATGTTCTAGACAGGGTCTTAAACGTAAATCA-AATATCG
55634064 ATGCCAA
1 ATGCCAA
55634071 CGTCCCAGAC
Statistics
Matches: 74, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
42 25 0.34
43 38 0.51
44 11 0.15
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.26
Consensus pattern (44 bp):
ATGCCAATGTTCTAGACAGGGTCTTAAACGTAAATCAAATATCG
Found at i:55634087 original size:86 final size:85
Alignment explanation
Indices: 55633935--55634094 Score: 198
Period size: 86 Copynumber: 1.9 Consensus size: 85
55633925 AGCTCGTACA
* * * *
55633935 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCTACTGTCTCAGACAGGGT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCAACTGTCCCAGACAGGGT
55634000 CTTAAACGAAATCATATACG
66 CTTAAACGAAATCATATACG
* * **
55634020 ATGCCAATGTTCTAGACATGGTCTTACACGTAAATCAGAA-ATCGATGCCAAC-GTCCCAGACCT
1 ATGCCAATGTCCCAGACATGGTCTTACACGT-AATCA-AATATCGATG-CAACTGTCCCAGACAG
*
55634083 GGTCTTACACGA
63 GGTCTTAAACGA
55634095 TAACACATAT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
85 27 0.43
86 31 0.49
87 5 0.08
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (85 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCAACTGTCCCAGACAGGGT
CTTAAACGAAATCATATACG
Found at i:55636890 original size:71 final size:71
Alignment explanation
Indices: 55636769--55636962 Score: 298
Period size: 71 Copynumber: 2.7 Consensus size: 71
55636759 AGGACCAGGG
* *
55636769 TTGCGATAAGTATCAGACTAAAATAAGTAAGTAGCTAAAATGCTACAGTATATGCCCAAGGTTTG
1 TTGCAATAAGTATCAAACTAAAATAAGTAAGTAGCTAAAATGCTACAGTATATGCCCAAGGTTTG
55636834 ATACCC
66 ATACCC
* *
55636840 TTGCAATAAGTATGAAACTAAAATAAGTAAGTAGCTAAAATGCTATAGTATATGCCCAAGGTTTG
1 TTGCAATAAGTATCAAACTAAAATAAGTAAGTAGCTAAAATGCTACAGTATATGCCCAAGGTTTG
55636905 ATACCC
66 ATACCC
** * * * *
55636911 TTGCCGTAAGTATCAAAGTGAAATAAGTTAGTAGCTAAAATGCTACATTATA
1 TTGCAATAAGTATCAAACTAAAATAAGTAAGTAGCTAAAATGCTACAGTATA
55636963 AGGACTAGGT
Statistics
Matches: 111, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 111 1.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (71 bp):
TTGCAATAAGTATCAAACTAAAATAAGTAAGTAGCTAAAATGCTACAGTATATGCCCAAGGTTTG
ATACCC
Found at i:55641032 original size:43 final size:42
Alignment explanation
Indices: 55640943--55641037 Score: 120
Period size: 43 Copynumber: 2.2 Consensus size: 42
55640933 TAAGATTACG
* * *
55640943 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTTG
1 TGTAAGACCATAGCTGGGATATGGCATCGATACGAGACTTTA
* *
55640985 TGTAAGACCATAGCTGGGCTATTGGCATCGATACGGGA-TTTCA
1 TGTAAGACCATAGCTGGGATA-TGGCATCGATACGAGACTTT-A
55641028 TGTAAGACCA
1 TGTAAGACCA
55641038 CCATATCTAC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
42 22 0.48
43 24 0.52
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATAGCTGGGATATGGCATCGATACGAGACTTTA
Found at i:55648562 original size:17 final size:17
Alignment explanation
Indices: 55648540--55648574 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
55648530 ACGGTAGAAG
55648540 AGTGTTCTTTTTGGATT
1 AGTGTTCTTTTTGGATT
55648557 AGTGTTCTTTTTGGATT
1 AGTGTTCTTTTTGGATT
55648574 A
1 A
55648575 AGTATTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.14, C:0.06, G:0.23, T:0.57
Consensus pattern (17 bp):
AGTGTTCTTTTTGGATT
Found at i:55649409 original size:26 final size:26
Alignment explanation
Indices: 55649335--55649411 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
55649325 CATATACTAA
* * *
55649335 TACTGGCAGCTTTGCTGCGTTACTGT
1 TACTGGCAGCTTTGCTGCGATATTAT
* *
55649361 TACTGGCAACTCTGCTGCGATATTAT
1 TACTGGCAGCTTTGCTGCGATATTAT
*
55649387 TACTGGTAGCTTTGCTGCGATATTA
1 TACTGGCAGCTTTGCTGCGATATTA
55649412 GTGTGTTGGC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCGATATTAT
Found at i:55661521 original size:11 final size:11
Alignment explanation
Indices: 55661505--55661531 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
55661495 TAATTTCATG
55661505 TTTTATGATTA
1 TTTTATGATTA
55661516 TTTTATGATTA
1 TTTTATGATTA
55661527 TTTTA
1 TTTTA
55661532 AGGTCTATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (11 bp):
TTTTATGATTA
Found at i:55662808 original size:46 final size:46
Alignment explanation
Indices: 55662741--55662916 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
55662731 TATTTGGGCA
55662741 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
55662787 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* * *
55662834 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
55662880 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55662917 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.61
47 31 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:55662896 original size:93 final size:93
Alignment explanation
Indices: 55662737--55662909 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
55662727 GGGATATTTG
* *
55662737 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55662802 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
55662830 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55662895 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
55662910 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:55665914 original size:14 final size:14
Alignment explanation
Indices: 55665838--55665916 Score: 61
Period size: 15 Copynumber: 5.4 Consensus size: 14
55665828 GTATCTTGGG
*
55665838 TTTCTTTATCCTGGA
1 TTTCTTTATTC-GGA
* *
55665853 TCTCTTTATTCTAGA
1 TTTCTTTATTC-GGA
*
55665868 TTTCTTTATTCCGGG
1 TTTCTTTATT-CGGA
*
55665883 TTTC-TTATCTTGGA
1 TTTCTTTAT-TCGGA
*
55665897 TTTCTTTATTCGGT
1 TTTCTTTATTCGGA
55665911 TTTCTT
1 TTTCTT
55665917 GTTATCTTTG
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
14 19 0.37
15 31 0.61
16 1 0.02
ACGTcount: A:0.11, C:0.18, G:0.13, T:0.58
Consensus pattern (14 bp):
TTTCTTTATTCGGA
Found at i:55668339 original size:46 final size:46
Alignment explanation
Indices: 55668284--55668459 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
55668274 TATTTGGGCA
55668284 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
55668330 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* *
55668377 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
55668423 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55668460 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.60
47 32 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:55668439 original size:93 final size:93
Alignment explanation
Indices: 55668280--55668452 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
55668270 TGGATATTTG
* *
55668280 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55668345 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
55668373 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55668438 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
55668453 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:55670962 original size:43 final size:43
Alignment explanation
Indices: 55670852--55670965 Score: 106
Period size: 43 Copynumber: 2.7 Consensus size: 43
55670842 TGATTGACGA
** * * ***
55670852 GTAAGACCACGTTTGGGGCGTTGGCA-TCATATTTGATTTTGT
1 GTAAGACCATATTTGGGACGTTGGCATTGATATTTGATTACAT
* * * *
55670894 GTAAGACCCTATCTAGGATAG-TGGCATTGATATTTGATTACAT
1 GTAAGACCATATTTGGGA-CGTTGGCATTGATATTTGATTACAT
55670937 GTAAGACCATATTTGGGACGTTGGCATTG
1 GTAAGACCATATTTGGGACGTTGGCATTG
55670966 TATGAGCTTT
Statistics
Matches: 54, Mismatches: 15, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
42 18 0.33
43 36 0.67
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (43 bp):
GTAAGACCATATTTGGGACGTTGGCATTGATATTTGATTACAT
Found at i:55673829 original size:40 final size:40
Alignment explanation
Indices: 55673774--55673885 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 40
55673764 CGGAATTTAA
* * ** *
55673774 CCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACATAAC
*
55673814 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACATAAC
*
55673854 CCGGATT-TAGTAACTCGCACCAATGCCTTCGG
1 CCGG-TTATAGTAACTCGCACAAATGCCTTCGG
55673886 ATCTTAGTCC
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
40 62 0.97
41 2 0.03
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACATAAC
Found at i:55676983 original size:15 final size:15
Alignment explanation
Indices: 55676963--55676993 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
55676953 GAGAACTTTC
55676963 TCCCATGGAGATACT
1 TCCCATGGAGATACT
55676978 TCCCATGGAGATACT
1 TCCCATGGAGATACT
55676993 T
1 T
55676994 TCAAGAACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (15 bp):
TCCCATGGAGATACT
Found at i:55685553 original size:40 final size:40
Alignment explanation
Indices: 55685498--55685722 Score: 299
Period size: 40 Copynumber: 5.6 Consensus size: 40
55685488 TATTCGGATG
*
55685498 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
55685538 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
55685578 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTACT
* * *
55685621 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
55685661 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
55685701 ATATCC-GACTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
55685723 TACTTGGGTT
Statistics
Matches: 160, Mismatches: 22, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
39 12 0.08
40 113 0.71
43 35 0.22
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:55685741 original size:83 final size:80
Alignment explanation
Indices: 55685498--55685722 Score: 353
Period size: 83 Copynumber: 2.8 Consensus size: 80
55685488 TATTCGGATG
*
55685498 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
55685563 TTTGTGCTAGTGACT
66 TTTGTGCTAGTGACT
* *
55685578 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTGCTATATCCGGGCTAAGTCCCGAAG
55685643 GCATTTGTGCTAGTGACT
63 GCATTTGTGCTAGTGACT
* * * *
55685661 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTGCTATATCC-GACTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
55685723 TACTTGGGTT
Statistics
Matches: 133, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
79 14 0.11
80 43 0.32
81 1 0.01
82 1 0.01
83 74 0.56
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTAGTGACT
Found at i:55687401 original size:45 final size:45
Alignment explanation
Indices: 55687333--55687448 Score: 155
Period size: 45 Copynumber: 2.5 Consensus size: 45
55687323 CCTGAGCTAA
* *
55687333 TGAACAGTAAGCTC-TATTAAGCTGAAACGGTAAGCT-CTATCGAGC
1 TGAACAGTAAGCTCATA-TGAGCTGAAACGGTAAGCTCCAAT-GAGC
55687378 TGAACAGTAAGCTCATATGAGCTGAAACGGTAAGCTCCAATGAGC
1 TGAACAGTAAGCTCATATGAGCTGAAACGGTAAGCTCCAATGAGC
*
55687423 TGAAAATAGTAAGCTCATATGAGCTG
1 TG--AACAGTAAGCTCATATGAGCTG
55687449 TGGTGAGTCT
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
45 38 0.59
46 5 0.08
47 21 0.33
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (45 bp):
TGAACAGTAAGCTCATATGAGCTGAAACGGTAAGCTCCAATGAGC
Found at i:55687444 original size:24 final size:23
Alignment explanation
Indices: 55687335--55687448 Score: 128
Period size: 23 Copynumber: 5.0 Consensus size: 23
55687325 TGAGCTAATG
*
55687335 AACAGTAAGCTC-TATTAAGCTGA
1 AACAGTAAGCTCATA-TGAGCTGA
*
55687358 AACGGTAAGCTC-TATCGAGCTG-
1 AACAGTAAGCTCATAT-GAGCTGA
55687380 AACAGTAAGCTCATATGAGCTGA
1 AACAGTAAGCTCATATGAGCTGA
*
55687403 AACGGTAAGCTCCA-ATGAGCTGAA
1 AACAGTAAGCT-CATATGAGCTG-A
*
55687427 AATAGTAAGCTCATATGAGCTG
1 AACAGTAAGCTCATATGAGCTG
55687449 TGGTGAGTCT
Statistics
Matches: 79, Mismatches: 6, Indels: 11
0.82 0.06 0.11
Matches are distributed among these distances:
22 18 0.23
23 41 0.52
24 20 0.25
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (23 bp):
AACAGTAAGCTCATATGAGCTGA
Found at i:55690500 original size:19 final size:20
Alignment explanation
Indices: 55690468--55690506 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
55690458 TATGACAAAG
55690468 AATGATATGAATG-TATATA
1 AATGATATGAATGTTATATA
55690487 AATGA-ATGATATGTTATATA
1 AATGATATGA-ATGTTATATA
55690507 TGCTCATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 8 0.44
20 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (20 bp):
AATGATATGAATGTTATATA
Found at i:55692159 original size:47 final size:47
Alignment explanation
Indices: 55692090--55692351 Score: 214
Period size: 47 Copynumber: 5.6 Consensus size: 47
55692080 TAAGGTGCCA
*
55692090 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGCCG
* * *
55692137 ATGCCATGTCCCTGACATGGTCTTACACTGACT-ATCATCTCGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-CATCTC-AAGCCG
* * * *
55692185 ATG-CATGTCCCAAACAT-GTCTTACACTGGCTTACGTCTCATGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCA-AGCCG
* * *** *** *
55692231 AT-TCATGTCCCAAACAT-GTCTTACACTAATTCTTGTCTCAGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCA-AGCCG
* * * ***
55692277 ATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-CTCAAGCCG
*
55692325 ATG-CATGTCCCAGAAAT-GTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
55692352 AGCCAAAAAT
Statistics
Matches: 175, Mismatches: 32, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
46 72 0.41
47 74 0.42
48 28 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGCCG
Found at i:55692231 original size:46 final size:47
Alignment explanation
Indices: 55692094--55692351 Score: 196
Period size: 46 Copynumber: 5.5 Consensus size: 47
55692084 GTGCCAATGC
* * * *
55692094 CATGTCCCAGACATGGTCTTACACTGGCTCACATCTCA-AGTCGATG
1 CATGTCCCAAACATGGTCTTACACTGGCTTACATCTCATGGCCGATG
** * * *
55692140 CCATGTCCCTGACATGGTCTTACACTGAC-TATCATCTCGTAGCCGATG
1 -CATGTCCCAAACATGGTCTTACACTGGCTTA-CATCTCATGGCCGATG
* *
55692188 CATGTCCCAAACAT-GTCTTACACTGGCTTACGTCTCATGGCCGATT
1 CATGTCCCAAACATGGTCTTACACTGGCTTACATCTCATGGCCGATG
** *
55692234 CATGTCCCAAACAT-GTCTTACACT-AATT-CTTGTCTCA-GTGCCGATG
1 CATGTCCCAAACATGGTCTTACACTGGCTTAC--ATCTCATG-GCCGATG
* * * *
55692280 CCATGTTCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATG
1 -CATGTCCCAAACATGGTCTTACACTGGCT-TACAT-CTCATGGCCGATG
55692328 CATGTCCCAGAA-AT-GTCTTACACT
1 CATGTCCCA-AACATGGTCTTACACT
55692352 AGCCAAAAAT
Statistics
Matches: 174, Mismatches: 24, Indels: 27
0.77 0.11 0.12
Matches are distributed among these distances:
44 1 0.01
45 3 0.02
46 71 0.41
47 68 0.39
48 26 0.15
49 3 0.02
50 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
CATGTCCCAAACATGGTCTTACACTGGCTTACATCTCATGGCCGATG
Found at i:55695291 original size:13 final size:13
Alignment explanation
Indices: 55695273--55695297 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55695263 CCCAGGGGAC
55695273 ACATGGCTGTGTA
1 ACATGGCTGTGTA
55695286 ACATGGCTGTGT
1 ACATGGCTGTGT
55695298 GTCACACACG
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:0.20, C:0.16, G:0.32, T:0.32
Consensus pattern (13 bp):
ACATGGCTGTGTA
Found at i:55702381 original size:46 final size:46
Alignment explanation
Indices: 55702248--55702466 Score: 185
Period size: 46 Copynumber: 4.7 Consensus size: 46
55702238 GTAAGGTGCT
* * *
55702248 GATGCCATGTCCCAGACATGGTCTTACACT-GACTATCCTCTTGTA-GTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCTCGTCTCG-AGGTC
* * **
55702296 GATGCATGTCCCAGACATATCTTACACTAGCT-TATGTCTCGAGGGG
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCGAGGTC
***
55702342 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCGATACC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCGAGGTC
* * * * *
55702388 GATGCCATGTCCCAGACATGGTCTTACGCTGGCTCTCATAAT-GTGGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGT-CTCGAGGTC
* *
55702436 GATGCATGTCCCAAACATATCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
55702467 CAAAAATACC
Statistics
Matches: 140, Mismatches: 24, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
45 2 0.01
46 68 0.49
47 43 0.31
48 26 0.19
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCGAGGTC
Found at i:55702837 original size:30 final size:30
Alignment explanation
Indices: 55702802--55702859 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
55702792 AAATTCACAT
* *
55702802 CTTTGGTAAAATGACCATTTTGCCCCTAAA
1 CTTTGGCAAAATGACCATTTTACCCCTAAA
55702832 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
55702860 CGCTCGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAAA
Found at i:55708607 original size:6 final size:6
Alignment explanation
Indices: 55708596--55708621 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
55708586 ATTATTGATC
55708596 TTATTA TTATTA TTATTA TTATTA TT
1 TTATTA TTATTA TTATTA TTATTA TT
55708622 TTCCTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTATTA
Found at i:55708608 original size:9 final size:9
Alignment explanation
Indices: 55708596--55708621 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
55708586 ATTATTGATC
55708596 TTATTATTA
1 TTATTATTA
55708605 TTATTATTA
1 TTATTATTA
55708614 TTATTATT
1 TTATTATT
55708622 TTCCTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTATTATTA
Found at i:55708667 original size:16 final size:16
Alignment explanation
Indices: 55708638--55708668 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55708628 ATTTACTTAT
*
55708638 TTATTTATTTATTTCG
1 TTATTTATTCATTTCG
55708654 TTATTTATTCATTTC
1 TTATTTATTCATTTC
55708669 TTTAATTAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.10, G:0.03, T:0.68
Consensus pattern (16 bp):
TTATTTATTCATTTCG
Found at i:55710266 original size:5 final size:5
Alignment explanation
Indices: 55710256--55710313 Score: 62
Period size: 5 Copynumber: 11.2 Consensus size: 5
55710246 CCATTGAGTC
* * * *
55710256 TATTT TATTT TATTT TATTT TATTTGT TCTTT TCTTT TCTTT TAATT TATTT
1 TATTT TATTT TATTT TATTT TA-TT-T TATTT TATTT TATTT TATTT TATTT
55710308 TATTT T
1 TATTT T
55710314 TCTAGTTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
5 41 0.87
6 4 0.09
7 2 0.04
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:55712538 original size:43 final size:43
Alignment explanation
Indices: 55712472--55712629 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
55712462 TATGTGTTAT
* * *
55712472 CGTGTAAAACCATGTCTTGGATGTTGGCATCGAATTATGATTTA
1 CGTGTAAGACCACGTCTGGGATGTTGGCATCGAATT-TGATTTA
*
55712516 CGTGTAAGACCACGTCT-GGATGTTGGCATCGTATTTGATTT-
1 CGTGTAAGACCACGTCTGGGATGTTGGCATCGAATTTGATTTA
* *
55712557 CGTGTAAGACC-CTATCTGGGACAG-TGGCATCGATATTTGA-TTA
1 CGTGTAAGACCAC-GTCTGGGA-TGTTGGCATCGA-ATTTGATTTA
* * *
55712600 CATGTAAGACTACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGATGTTGGCAT
55712630 TGTACGAGCT
Statistics
Matches: 97, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
40 1 0.01
41 14 0.14
42 20 0.21
43 46 0.47
44 16 0.16
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGATGTTGGCATCGAATTTGATTTA
Found at i:55715385 original size:11 final size:11
Alignment explanation
Indices: 55715369--55715405 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
55715359 AAGCCCATTG
55715369 GGCCCAGTTTT
1 GGCCCAGTTTT
*
55715380 GGCCCA--TTG
1 GGCCCAGTTTT
55715389 GGCCCAGTTTT
1 GGCCCAGTTTT
55715400 GGCCCA
1 GGCCCA
55715406 TCTGGCCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.11, C:0.32, G:0.30, T:0.27
Consensus pattern (11 bp):
GGCCCAGTTTT
Found at i:55715419 original size:20 final size:20
Alignment explanation
Indices: 55715361--55715406 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
55715351 TGGTCCGTAA
55715361 GCCCATTGGGCCCAGTTTTG
1 GCCCATTGGGCCCAGTTTTG
55715381 GCCCATTGGGCCCAGTTTTG
1 GCCCATTGGGCCCAGTTTTG
55715401 GCCCAT
1 GCCCAT
55715407 CTGGCCCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.11, C:0.33, G:0.28, T:0.28
Consensus pattern (20 bp):
GCCCATTGGGCCCAGTTTTG
Found at i:55718594 original size:46 final size:46
Alignment explanation
Indices: 55718544--55718669 Score: 209
Period size: 46 Copynumber: 2.7 Consensus size: 46
55718534 TGGTTGAGCA
*
55718544 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
55718590 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
55718636 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
55718670 GGGGCGGTTT
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 2 0.03
46 73 0.97
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:55722734 original size:40 final size:40
Alignment explanation
Indices: 55722658--55722921 Score: 370
Period size: 40 Copynumber: 6.6 Consensus size: 40
55722648 CAAACTCAAG
* * * * *
55722658 TGCCTTCTGGATTTAG-CCGGATAT-AGCAACTCGCACAGA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAA
* *
55722697 TGCCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* *
55722737 AGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* *
55722777 TGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
55722817 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* *
55722857 TGCCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* *
55722897 TGCCCTCGGGACTTAACCCGGATAT
1 TGCCTTCGGGACTTAGCCCGGATAT
55722922 CATTCGAATA
Statistics
Matches: 204, Mismatches: 19, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
39 13 0.06
40 188 0.92
41 3 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
Found at i:55722887 original size:120 final size:120
Alignment explanation
Indices: 55722658--55722921 Score: 415
Period size: 120 Copynumber: 2.2 Consensus size: 120
55722648 CAAACTCAAG
* * * * *
55722658 TGCCTTCTGGATTTAG-CCGGATATAGCAACTCGCACAGATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
*
55722722 AGTCAATAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAA
66 AATCAATAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAA
55722777 TGCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATA
1 TGCCTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATA
* *
55722841 TAATCAATAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAA
65 TAATCAATAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAA
* *
55722897 TGCCCTCGGGACTTAACCCGGATAT
1 TGCCTTCGGGACTTAGCCCGGATAT
55722922 CATTCGAATA
Statistics
Matches: 133, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
119 14 0.11
120 118 0.89
121 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (120 bp):
TGCCTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
AATCAATAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAA
Found at i:55726407 original size:27 final size:27
Alignment explanation
Indices: 55726356--55726681 Score: 125
Period size: 27 Copynumber: 12.1 Consensus size: 27
55726346 CAAAACAGTT
* * *
55726356 ATTTTACCCTAC-AGGGATATGTCGGTC
1 ATTTTACACTACAAGGG-TATTTCGGTA
*
55726383 ATTTTACACTATAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
* *
55726410 ATTTTACACTACAAGGATATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGGTA
* * * *
55726437 ATTTTACA-AATC-AGGAATGTTTCAGTA
1 ATTTTACACTA-CAAGG-GTATTTCGGTA
* **
55726464 ATTTTACA-AATCAAGGGTATTTCATTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* ** *
55726491 ATTTTACA-AATTGAGGGTATTTCGATA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* * * *
55726518 ATTTTACA-AATCGAGGGTGTTTTGGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* * * **
55726545 ATTTTACA-AATTAGGGGTATTTTAGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* * **
55726572 ATTTTACA-AATCGAGGGTATTTTAGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
* * * * *
55726599 ATTTCACAAT-CGAGGGTATTTTGATA
1 ATTTTACACTACAAGGGTATTTCGGTA
* **
55726625 ATTTTACA-AATGAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
* * *
55726651 ATTTTACA-AATCGAGGGTGTTTCGGTA
1 ATTTTACACTA-CAAGGGTATTTCGGTA
55726678 ATTT
1 ATTT
55726682 CAAAAATTAG
Statistics
Matches: 251, Mismatches: 41, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
26 48 0.19
27 196 0.78
28 7 0.03
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGGTA
Found at i:55726678 original size:133 final size:135
Alignment explanation
Indices: 55726427--55726736 Score: 441
Period size: 133 Copynumber: 2.3 Consensus size: 135
55726417 ACTACAAGGA
* *
55726427 TATTTCGATAATTTTACAAATC-A-GGAATGTTTCAGTAATTTTACAAATCAAGGGTATTTCATT
1 TATTTCAATAATTTTACAAATCGAGGGAAT-TTT-AGTAATTTCACAAATCAAGGGTATTTCATT
* * *
55726490 AATTTTACAAATTGAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTTGGTAATTTTACAAA
64 AATTTTACAAATTGAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCGGTAATTTCAAAAA
55726555 TTAGGGG
129 TTAGGGG
* * * * *
55726562 TATTTTAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTCAC-AATCGAGGGTATTTTGA-TA
1 TATTTCAATAATTTTACAAATCGAGGGAATTTTAGTAATTTCACAAATCAAGGGTA-TTTCATTA
*
55726625 ATTTTACAAA-TGAGGGTATTTCGGTAATTTTACAAATCGAGGGTGTTTCGGTAATTTCAAAAAT
65 ATTTTACAAATTGAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCGGTAATTTCAAAAAT
55726689 TAGGGG
130 TAGGGG
* *
55726695 TATTTCAATAATTTTACAAATCGAGGGCATTTCAGTAATTTC
1 TATTTCAATAATTTTACAAATCGAGGGAATTTTAGTAATTTC
55726737 TCTTTATTAT
Statistics
Matches: 157, Mismatches: 15, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
133 94 0.60
134 22 0.14
135 33 0.21
136 4 0.03
137 4 0.03
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (135 bp):
TATTTCAATAATTTTACAAATCGAGGGAATTTTAGTAATTTCACAAATCAAGGGTATTTCATTAA
TTTTACAAATTGAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCGGTAATTTCAAAAATT
AGGGG
Found at i:55726688 original size:27 final size:27
Alignment explanation
Indices: 55726396--55726735 Score: 332
Period size: 27 Copynumber: 12.7 Consensus size: 27
55726386 TTACACTATA
* *
55726396 AGGGTATTTCGGTAATTTTAC-ACTACA
1 AGGGTATTTCGGTAATTTTACAAAT-CG
* *
55726423 AGGATATTTCGATAATTTTACAAATC-
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * *
55726449 AGGAATGTTTCAGTAATTTTACAAATCA
1 AGG-GTATTTCGGTAATTTTACAAATCG
** *
55726477 AGGGTATTTCATTAATTTTACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
55726504 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
55726531 AGGGTGTTTTGGTAATTTTACAAAT-T
1 AGGGTATTTCGGTAATTTTACAAATCG
**
55726557 AGGGGTATTTTAGTAATTTTACAAATCG
1 A-GGGTATTTCGGTAATTTTACAAATCG
** *
55726585 AGGGTATTTTAGTAATTTCAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
55726611 AGGGTATTTTGATAATTTTACAAAT-G
1 AGGGTATTTCGGTAATTTTACAAATCG
55726637 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * *
55726664 AGGGTGTTTCGGTAATTTCAAAAAT-T
1 AGGGTATTTCGGTAATTTTACAAATCG
**
55726690 AGGGGTATTTCAATAATTTTACAAATCG
1 A-GGGTATTTCGGTAATTTTACAAATCG
* *
55726718 AGGGCATTTCAGTAATTT
1 AGGGTATTTCGGTAATTT
55726736 CTCTTTATTA
Statistics
Matches: 265, Mismatches: 39, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
26 52 0.20
27 206 0.78
28 7 0.03
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:55728505 original size:40 final size:40
Alignment explanation
Indices: 55728461--55728725 Score: 340
Period size: 40 Copynumber: 6.7 Consensus size: 40
55728451 GCTCCTCGTT
*
55728461 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
55728501 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
55728541 CAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
55728581 CAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
55728621 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
55728660 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
55728701 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55728726 CATCATTCAA
Statistics
Matches: 201, Mismatches: 19, Indels: 10
0.87 0.08 0.04
Matches are distributed among these distances:
38 2 0.01
39 31 0.15
40 155 0.77
41 13 0.06
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:55728724 original size:119 final size:121
Alignment explanation
Indices: 55728461--55728725 Score: 342
Period size: 119 Copynumber: 2.2 Consensus size: 121
55728451 GCTCCTCGTT
*
55728461 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* * *
55728525 GATTTAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCA
66 GAATTAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATATAGTAACTAGCA
* * * *
55728581 CAAATGCCTTCGGGAATTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* * ** * * *
55728644 GAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA
66 GAATTAGTAACTCGCACAAATGCCTTCGGGA-ATTAACCCGGATATAGTAAC-TAGCA
55728701 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55728726 CATCATTCAA
Statistics
Matches: 125, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
118 3 0.02
119 65 0.52
120 55 0.44
121 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (121 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GAATTAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATATAGTAACTAGCA
Found at i:55734317 original size:40 final size:40
Alignment explanation
Indices: 55734241--55734372 Score: 194
Period size: 40 Copynumber: 3.3 Consensus size: 40
55734231 ATTCGAATTG
* * *
55734241 ATAACCGGGCTAAG-CCCAAAGGCATTTTTGCCAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
55734280 ATATCCGGGCTAAGTACCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
55734320 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
55734360 ATAACCGGGCTAA
1 ATAACCGGGCTAA
55734373 TTACTATAAC
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 13 0.16
40 69 0.84
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:55734378 original size:18 final size:18
Alignment explanation
Indices: 55734355--55734390 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
55734345 ATTGTGCGAG
55734355 TTACTATAACCGGGCTAA
1 TTACTATAACCGGGCTAA
55734373 TTACTATAACCGGGCTAA
1 TTACTATAACCGGGCTAA
55734391 GTCCCGAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (18 bp):
TTACTATAACCGGGCTAA
Found at i:55734405 original size:58 final size:58
Alignment explanation
Indices: 55734315--55734430 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
55734305 TTTGTGCGAG
55734315 TTACTATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAA
1 TTACTATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAA
*
55734373 TTACTATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAA
1 TTACTATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAA
55734431 GTCCCGAAGG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.23
Consensus pattern (58 bp):
TTACTATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAA
Found at i:55740138 original size:41 final size:43
Alignment explanation
Indices: 55740078--55740204 Score: 145
Period size: 43 Copynumber: 3.0 Consensus size: 43
55740068 CATAGGATTC
*
55740078 CGATATGTG-TTATCATGTAAGACCACGTCTGGGACATTGGCAT
1 CGATATATGATTA-CATGTAAGACCACGTCTGGGACATTGGCAT
* * * *
55740121 -G-TATATGATTTCGTGTAAGACC-CTGTCTGGGATAGTGGCAT
1 CGATATATGATTACATGTAAGACCAC-GTCTGGGACATTGGCAT
* *
55740162 CGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATATGATTACATGTAAGACCACGTCTGGGACATTGGCAT
55740205 TGTACGAGCT
Statistics
Matches: 68, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
40 1 0.01
41 30 0.44
42 4 0.06
43 32 0.47
44 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
CGATATATGATTACATGTAAGACCACGTCTGGGACATTGGCAT
Found at i:55742311 original size:46 final size:47
Alignment explanation
Indices: 55742163--55742477 Score: 231
Period size: 46 Copynumber: 6.7 Consensus size: 47
55742153 TATTTGTGTT
* *
55742163 CCAGTGTAAGACATGTTTGGGACAT-GCATCGG-CTAC-ATTATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGGCATCGGCCT-CGA-GATGAGAG
* * * * *
55742209 CTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGAG
1 CCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTCGAGATGAGAG
*
55742257 CTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATGTA-AG
1 CCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATG-AGAG
*
55742303 CCAGTGTAAGACATGTCTGGGACAT-GCATCGG-CTACGAGAT--GTG
1 CCAGTGTAAGACATGTCTGGGACATGGCATCGGCCT-CGAGATGAGAG
* * ** ** ** * *
55742347 TCAGTGTAAGACCATGTCCGGGACATGGTGTTAGCCTCGATTTCAATAG
1 CCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTCGAGAT-GAGAG
* * * * *
55742396 TCAGTGTAAGACCGTGTCTGGGACATAGCATC-GACT--TGATGGATGAG
1 CCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTCGAGAT-GA-GAG
55742443 CCAGTGTAAGACTATGTCTGGGACATGGCATCGGC
1 CCAGTGTAAGAC-ATGTCTGGGACATGGCATCGGC
55742478 ATTATACCAT
Statistics
Matches: 213, Mismatches: 40, Indels: 30
0.75 0.14 0.11
Matches are distributed among these distances:
44 11 0.05
45 15 0.07
46 72 0.34
47 59 0.28
48 27 0.13
49 29 0.14
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
CCAGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATGAGAG
Found at i:55746878 original size:49 final size:49
Alignment explanation
Indices: 55746809--55747293 Score: 718
Period size: 49 Copynumber: 10.1 Consensus size: 49
55746799 GAAATGATAG
55746809 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
55746858 TAAGGCCTTATGGCTGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
55746905 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
55746954 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
55747001 TAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
55747050 TAGGGCCTAATGGCCGATATGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
55747097 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * *
55747146 CAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
55747193 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * * *
55747242 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAAT-TGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
55747290 TAAG
1 TAAG
55747294 TCCCGAAGGG
Statistics
Matches: 392, Mismatches: 36, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
47 175 0.45
48 7 0.02
49 210 0.54
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:55746973 original size:96 final size:96
Alignment explanation
Indices: 55746809--55747293 Score: 781
Period size: 96 Copynumber: 5.0 Consensus size: 96
55746799 GAAATGATAG
* * *
55746809 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTTATGGCTG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
55746874 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
*
55746905 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
55746970 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
*
55747001 TAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
*
55747066 ATATGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * *
55747097 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
*
55747162 ACGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * *
55747193 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
* * *
55747258 ACGTGATGGATGTGAAAGTGTATAAATTGTGA
66 ATGTGATGAATGTGAAAGTGTATATA-TGTGA
55747290 TAAG
1 TAAG
55747294 TCCCGAAGGG
Statistics
Matches: 373, Mismatches: 15, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
96 364 0.98
97 9 0.02
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:55755507 original size:28 final size:28
Alignment explanation
Indices: 55755467--55755536 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
55755457 ATAGTAAGTC
*
55755467 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
55755495 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
55755523 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55755537 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:55759706 original size:46 final size:46
Alignment explanation
Indices: 55759656--55759828 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
55759646 TGGTTGAGCA
55759656 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55759702 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
55759747 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55759795 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
55759829 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:55759812 original size:93 final size:93
Alignment explanation
Indices: 55759653--55759823 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
55759643 GGATGGTTGA
* * *
55759653 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
55759718 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
55759746 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
55759811 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
55759824 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55765243 original size:46 final size:46
Alignment explanation
Indices: 55765193--55765365 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
55765183 TGGTTGAGCA
55765193 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55765239 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
55765284 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
55765332 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
55765366 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:55765349 original size:93 final size:93
Alignment explanation
Indices: 55765190--55765360 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
55765180 GGATGGTTGA
* *
55765190 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55765255 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
55765283 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55765348 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
55765361 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55770952 original size:27 final size:27
Alignment explanation
Indices: 55770922--55771040 Score: 157
Period size: 27 Copynumber: 4.4 Consensus size: 27
55770912 GGGGCAAAAT
* * *
55770922 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
55770949 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
55770976 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
55771003 GGTAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
55771030 GGTAATTCTAC
1 GGTAATTCTAC
55771041 AACTTATCCA
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:55777653 original size:25 final size:25
Alignment explanation
Indices: 55777625--55777678 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
55777615 ACCAGCCTTA
*
55777625 CACCATGTGGGGAGACTACTTGACC
1 CACCATGTGGGGAGACTACTCGACC
55777650 CACCATGTGGGGAGACTACTCGACC
1 CACCATGTGGGGAGACTACTCGACC
55777675 CACC
1 CACC
55777679 CAATCGCTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.24, C:0.33, G:0.26, T:0.17
Consensus pattern (25 bp):
CACCATGTGGGGAGACTACTCGACC
Found at i:55777764 original size:27 final size:26
Alignment explanation
Indices: 55777716--55777775 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
55777706 GCGAGGCTGC
*
55777716 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
55777743 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
55777769 CAGATAT
1 CAGATAT
55777776 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:55778587 original size:54 final size:54
Alignment explanation
Indices: 55778515--55778633 Score: 177
Period size: 54 Copynumber: 2.2 Consensus size: 54
55778505 AGGGGCAAAA
55778515 TGGTAATTT-TACCCTACAAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTT
1 TGGT-ATTTCTACCCTACAAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTT
* * *
55778569 TGGTATTTCTACCCTACAAAGGTATTTTGGTAATTCTATCCTACAGGGGTATTT
1 TGGTATTTCTACCCTACAAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTT
* *
55778623 CGGTAATTCTA
1 TGGTATTTCTA
55778634 TAACTTATCC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
53 4 0.07
54 55 0.93
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.38
Consensus pattern (54 bp):
TGGTATTTCTACCCTACAAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTT
Found at i:55778634 original size:27 final size:27
Alignment explanation
Indices: 55778516--55778633 Score: 146
Period size: 27 Copynumber: 4.4 Consensus size: 27
55778506 GGGGCAAAAT
* *
55778516 GGTAATTTTACCCTACAAAGGTATCTC
1 GGTAATTCTACCCTACAAAGGTATTTC
** *
55778543 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAAGGTATTTC
* *
55778570 GGTATTTCTACCCTACAAAGGTATTTT
1 GGTAATTCTACCCTACAAAGGTATTTC
* **
55778597 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAAGGTATTTC
55778624 GGTAATTCTA
1 GGTAATTCTA
55778634 TAACTTATCC
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAAGGTATTTC
Found at i:55781357 original size:46 final size:44
Alignment explanation
Indices: 55781281--55781397 Score: 130
Period size: 46 Copynumber: 2.6 Consensus size: 44
55781271 GCTAGTGTAT
* * *
55781281 GACATGTCTGGGACATGCATCAGCCTCGAGATGTAAGCCAGTGCAA
1 GACATGTCTGGGACATGCATCAGACTCGAGATCT--GCCAGTACAA
* *
55781327 GACATGTCTGGGACATGCATCA-ACTACGAGATCTGTCAGTATAA
1 GACATGTCTGGGACATGCATCAGACT-CGAGATCTGCCAGTACAA
55781371 GACCATGTCTGGGACATGGCATC-GACT
1 GA-CATGTCTGGGACAT-GCATCAGACT
55781398 TGATGGATGA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
44 9 0.15
45 16 0.26
46 37 0.60
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (44 bp):
GACATGTCTGGGACATGCATCAGACTCGAGATCTGCCAGTACAA
Found at i:55784194 original size:46 final size:46
Alignment explanation
Indices: 55784144--55784319 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
55784134 TGGTTGAGCA
55784144 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55784190 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
55784235 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55784283 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55784320 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:55784300 original size:93 final size:93
Alignment explanation
Indices: 55784141--55784312 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55784131 GGATGGTTGA
* *
55784141 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55784206 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
55784234 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55784299 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
55784313 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55798144 original size:9 final size:10
Alignment explanation
Indices: 55798119--55798143 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
55798109 AAAAATCTGG
55798119 AAAAAATTTT
1 AAAAAATTTT
55798129 AAAAAATTTT
1 AAAAAATTTT
55798139 AAAAA
1 AAAAA
55798144 TATTATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:55798262 original size:12 final size:12
Alignment explanation
Indices: 55798244--55798273 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
55798234 ATTTTAGGTG
55798244 ATTCTTCTTCTT
1 ATTCTTCTTCTT
*
55798256 TTTCTTCTTCTT
1 ATTCTTCTTCTT
55798268 ATTCTT
1 ATTCTT
55798274 ATTGTAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (12 bp):
ATTCTTCTTCTT
Found at i:55798420 original size:34 final size:33
Alignment explanation
Indices: 55798372--55798449 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 33
55798362 TTATACATTT
55798372 AATTTTTAAATTAGTTTTAAATAATTTATT-TT-A
1 AATTTTTAAATTAGTTTTAAA-AATTT-TTATTCA
* *
55798405 AATTTTTGGAATTAGTTTTTAAAATTTTTATTCA
1 AATTTTT-AAATTAGTTTTAAAAATTTTTATTCA
55798439 AATTTTTAAAT
1 AATTTTTAAAT
55798450 AAAATTAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
32 2 0.05
33 17 0.44
34 20 0.51
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.56
Consensus pattern (33 bp):
AATTTTTAAATTAGTTTTAAAAATTTTTATTCA
Found at i:55800450 original size:23 final size:22
Alignment explanation
Indices: 55800412--55800553 Score: 115
Period size: 22 Copynumber: 6.2 Consensus size: 22
55800402 GATATGTTGA
55800412 AGGGTATATTGGTTGTGTTTGG
1 AGGGTATATTGGTTGTGTTTGG
***
55800434 AGGGTATACTTGGTTGTGTTCAA
1 AGGGTATA-TTGGTTGTGTTTGG
** *
55800457 AGCTTATATATATGGTTTTGTTTGG
1 AG--GGTATAT-TGGTTGTGTTTGG
* * *
55800482 AGGATATATTTAGTTATGTTTGG
1 AGGGTATA-TTGGTTGTGTTTGG
55800505 A-GGTATATATGGTTGTGTTTGG
1 AGGGTATAT-TGGTTGTGTTTGG
* *
55800527 AGGGTAAATTAGTTGTGTTTGG
1 AGGGTATATTGGTTGTGTTTGG
*
55800549 TGGGT
1 AGGGT
55800554 GATAGTTTTA
Statistics
Matches: 95, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
21 1 0.01
22 41 0.43
23 36 0.38
24 2 0.02
25 15 0.16
ACGTcount: A:0.20, C:0.02, G:0.33, T:0.45
Consensus pattern (22 bp):
AGGGTATATTGGTTGTGTTTGG
Found at i:55800524 original size:45 final size:44
Alignment explanation
Indices: 55800463--55800548 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 44
55800453 TCAAAGCTTA
* *
55800463 TATATATGGTTTTGTTTGGAGGATATATTTAGTTATGTTTGGAGG
1 TATATATGGTTGTGTTTGGAGGATA-AATTAGTTATGTTTGGAGG
* *
55800508 TATATATGGTTGTGTTTGGAGGGTAAATTAGTTGTGTTTGG
1 TATATATGGTTGTGTTTGGAGGATAAATTAGTTATGTTTGG
55800549 TGGGTGATAG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 14 0.38
45 23 0.62
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (44 bp):
TATATATGGTTGTGTTTGGAGGATAAATTAGTTATGTTTGGAGG
Found at i:55804265 original size:27 final size:27
Alignment explanation
Indices: 55804235--55804351 Score: 119
Period size: 27 Copynumber: 4.3 Consensus size: 27
55804225 ATCGATTTAC
** *
55804235 AAAATTATTGAAATACCCCTATAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
** *
55804262 AAAATTACTAAAATACCCCTGTAAGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
55804289 AGAAA-TACCGAAATACCCCTGTAGGGT
1 A-AAATTACCGAAATACCCCTGTAGGGT
* * * * *
55804316 AGAATTATCGAGATACCCTTGTGGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
55804343 AAAATTACC
1 AAAATTACC
55804352 ATTTTGCCCC
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
26 2 0.03
27 69 0.93
28 3 0.04
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTGTAGGGT
Found at i:55804574 original size:27 final size:26
Alignment explanation
Indices: 55804536--55804623 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 26
55804526 ATGGAGGAAG
*
55804536 TGTTCTGGTGGCTATGCCACAAATATC
1 TGTTCTGGTGGCTCTGCCAC-AATATC
* *
55804563 TGTTCTGGTGGCTCTACCATAATATC
1 TGTTCTGGTGGCTCTGCCACAATATC
* *
55804589 TGTATCTGGTGACTCTGTCACAATATC
1 TGT-TCTGGTGGCTCTGCCACAATATC
55804616 TGTTCTGG
1 TGTTCTGG
55804624 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 14 0.26
27 39 0.74
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
TGTTCTGGTGGCTCTGCCACAATATC
Found at i:55804750 original size:6 final size:6
Alignment explanation
Indices: 55804741--55804803 Score: 58
Period size: 6 Copynumber: 10.3 Consensus size: 6
55804731 TTGCATTCAC
* * *
55804741 ATTCTG ATTCTG ATTCT- ATCACCTG ATTCTG ATTCTG ATTCTC ATTTTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
55804790 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
55804804 AATGTTTCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
5 3 0.07
6 38 0.83
7 3 0.07
8 2 0.04
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:55807130 original size:15 final size:15
Alignment explanation
Indices: 55807110--55807142 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
55807100 TCGAATCCAG
55807110 AACTTCAGCACAA-AA
1 AACTTCA-CACAACAA
55807125 AACTTCACACAACAA
1 AACTTCACACAACAA
55807140 AAC
1 AAC
55807143 ATCCAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.55, C:0.30, G:0.03, T:0.12
Consensus pattern (15 bp):
AACTTCACACAACAA
Found at i:55808883 original size:22 final size:22
Alignment explanation
Indices: 55808858--55808933 Score: 62
Period size: 24 Copynumber: 3.3 Consensus size: 22
55808848 TCTGAGAGTT
*
55808858 ATTGAATCTAGAGCTTTGTATA
1 ATTGAACCTAGAGCTTTGTATA
* * * * *
55808880 ATTGAAAGCTTATAGCTCTGAGAGTT
1 ATTG-AA-CCTAGAGCTTTG-TA-TA
55808906 ATTGAACCTAGAGCTTTGTATA
1 ATTGAACCTAGAGCTTTGTATA
55808928 ATTGAA
1 ATTGAA
55808934 AACTCCTATT
Statistics
Matches: 39, Mismatches: 11, Indels: 8
0.67 0.19 0.14
Matches are distributed among these distances:
22 11 0.28
23 3 0.08
24 17 0.44
25 3 0.08
26 5 0.13
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.37
Consensus pattern (22 bp):
ATTGAACCTAGAGCTTTGTATA
Found at i:55808919 original size:48 final size:48
Alignment explanation
Indices: 55808843--55808934 Score: 166
Period size: 48 Copynumber: 1.9 Consensus size: 48
55808833 TAACAATCAC
* *
55808843 ATAGGTCTGAGAGTTATTGAATCTAGAGCTTTGTATAATTGAAAGCTT
1 ATAGCTCTGAGAGTTATTGAACCTAGAGCTTTGTATAATTGAAAGCTT
55808891 ATAGCTCTGAGAGTTATTGAACCTAGAGCTTTGTATAATTGAAA
1 ATAGCTCTGAGAGTTATTGAACCTAGAGCTTTGTATAATTGAAA
55808935 ACTCCTATTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.36
Consensus pattern (48 bp):
ATAGCTCTGAGAGTTATTGAACCTAGAGCTTTGTATAATTGAAAGCTT
Found at i:55812952 original size:18 final size:18
Alignment explanation
Indices: 55812929--55812963 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
55812919 GGGACAGCGC
55812929 CTGTTGAACCTCAACCAT
1 CTGTTGAACCTCAACCAT
55812947 CTGTTGAACCTCAACCA
1 CTGTTGAACCTCAACCA
55812964 GACTGCTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.34, G:0.11, T:0.26
Consensus pattern (18 bp):
CTGTTGAACCTCAACCAT
Found at i:55815960 original size:40 final size:40
Alignment explanation
Indices: 55815866--55816010 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
55815856 TACTCGAATG
* *
55815866 ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
55815907 ACATCTGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
55815947 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
55815987 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
55816011 CTTGTGCGAG
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.69
41 26 0.29
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:55816035 original size:39 final size:40
Alignment explanation
Indices: 55815917--55816035 Score: 114
Period size: 40 Copynumber: 3.0 Consensus size: 40
55815907 ACATCTGGAC
* * * * * *
55815917 TAAGATCCGAAGGCATTTGTGCTAGCGACTATATCCGGGC
1 TAAGACCCGAAGGCACTTATGCGAGTGACTATATCCGGGT
* * * *
55815957 TAAGTCCCGAAGGCATTTATGCTAGTGACCATATCCGGGT
1 TAAGACCCGAAGGCACTTATGCGAGTGACTATATCCGGGT
* **
55815997 TAAGACCCGAAGGC-CTTGTGCGAGTGGTTATATCCGGGT
1 TAAGACCCGAAGGCACTTATGCGAGTGACTATATCCGGGT
55816036 AAACCCCGAA
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
39 19 0.29
40 47 0.71
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TAAGACCCGAAGGCACTTATGCGAGTGACTATATCCGGGT
Found at i:55817844 original size:40 final size:40
Alignment explanation
Indices: 55817760--55817984 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
55817750 TTGAATGATG
* * * *
55817760 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
55817800 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55817840 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55817879 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
55817919 TCCGGGTTAAGTCCCGAAGACATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
55817960 -CCGGGCTATGTCCCGAAGGCCTTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55817985 AACGAGGAGA
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 118 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55818002 original size:80 final size:80
Alignment explanation
Indices: 55817799--55818016 Score: 196
Period size: 79 Copynumber: 2.8 Consensus size: 80
55817789 AAGTGACCAT
* ** * * * *
55817799 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGAACGAG-TGAATAAATCCGGGTTAAGTCCCGAAGACA
55817861 TTGGTGCGAGTTACTAA
64 TTGGTGCGAGTTACTAA
* ** * *
55817878 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGACATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGAATAAATCCGGGTTAAGTCCCGAAGACATT
*
55817943 TGTGCGAGTTACTATA
66 GGTGCGAGTTACTA-A
* * * * *
55817959 A-CCGGGCTATGTCCCGAAGGCCTTTGAACGAG-GAGATATATCC-GGTTAAATTCCGAAG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-ATAAATCCGGGTTAAGTCCCGAAG
55818017 GTACGTGATT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.02
79 58 0.49
80 56 0.47
81 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGAATAAATCCGGGTTAAGTCCCGAAGACATT
GGTGCGAGTTACTAA
Found at i:55822451 original size:24 final size:23
Alignment explanation
Indices: 55822292--55822451 Score: 90
Period size: 24 Copynumber: 6.6 Consensus size: 23
55822282 AATGACATTG
* *
55822292 GCACTAAGTGTACGGATTTTGAAT
1 GCACTATGTGTGCGGA-TTTGAAT
* *
55822316 GCCAC-ATGTGTGTGGAATTGAAT
1 G-CACTATGTGTGCGGATTTGAAT
*
55822339 AGCACTATGTGTGCTGATTTGAAT
1 -GCACTATGTGTGCGGATTTGAAT
* * * *
55822363 GTCAATACAAGTGTGTC-GATTTCTAAG
1 G-CACT--ATGTGTG-CGGATTT-GAAT
* * **
55822390 GCACTATGTGTGCGGGTTAGCGT
1 GCACTATGTGTGCGGATTTGAAT
*
55822413 GGCACTAAGTGTGCGGATTTGAAT
1 -GCACTATGTGTGCGGATTTGAAT
55822437 AGCACTATGTGTGCG
1 -GCACTATGTGTGCG
55822452 AAATCGATTG
Statistics
Matches: 100, Mismatches: 26, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
23 11 0.11
24 68 0.68
25 3 0.03
26 14 0.14
27 4 0.04
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.32
Consensus pattern (23 bp):
GCACTATGTGTGCGGATTTGAAT
Found at i:55837124 original size:12 final size:12
Alignment explanation
Indices: 55837107--55837131 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55837097 TACGAATTTG
55837107 GCCAAATGTATT
1 GCCAAATGTATT
55837119 GCCAAATGTATT
1 GCCAAATGTATT
55837131 G
1 G
55837132 GCTTATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (12 bp):
GCCAAATGTATT
Found at i:55857064 original size:43 final size:42
Alignment explanation
Indices: 55857016--55857097 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 42
55857006 TCCCAGACTT
* * * *
55857016 GGTCTTACATGTAATCAAACATCGATGCCACTGTCTCAGATAA
1 GGTCTTACACGAAATCAAACA-CGATGCCAATGTCCCAGATAA
*
55857059 GGTCTTACACGAAATCAAATACGATGCCAATGTCCCAGA
1 GGTCTTACACGAAATCAAACACGATGCCAATGTCCCAGA
55857098 CATCACCTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 16 0.47
43 18 0.53
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAACACGATGCCAATGTCCCAGATAA
Found at i:55859657 original size:79 final size:82
Alignment explanation
Indices: 55859540--55859724 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
55859530 GCTACTCGTT
* * *
55859540 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
55859603 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
55859620 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
55859683 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
55859700 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55859725 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:55859724 original size:40 final size:40
Alignment explanation
Indices: 55859521--55859724 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
55859511 CAGAATTTAA
** *
55859521 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
55859561 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
55859601 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55859640 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
55859680 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
55859720 CCGGA
1 CCGGA
55859725 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:55864810 original size:46 final size:46
Alignment explanation
Indices: 55864745--55864839 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
55864735 ATAAATGTGT
*
55864745 GTGGTGAGCTTGGTTAAATAAGTCAGCTTGAATAATGGTCTAGTTG
1 GTGGTGAGCTTGGTTAAATAAGTCAGCTTGAATAATGCTCTAGTTG
*
55864791 GTGGTGAGCTTGGTTAAATAAGTCAGCTTGAATAATGCTTTAGTTG
1 GTGGTGAGCTTGGTTAAATAAGTCAGCTTGAATAATGCTCTAGTTG
55864837 GTG
1 GTG
55864840 TATGCGATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.25, C:0.08, G:0.31, T:0.36
Consensus pattern (46 bp):
GTGGTGAGCTTGGTTAAATAAGTCAGCTTGAATAATGCTCTAGTTG
Found at i:55871601 original size:8 final size:8
Alignment explanation
Indices: 55871588--55871617 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
55871578 AGTCCTTAAT
55871588 TCACAAAA
1 TCACAAAA
55871596 TCACAAAA
1 TCACAAAA
55871604 TCACAAAA
1 TCACAAAA
55871612 TACACA
1 T-CACA
55871618 TAATTTGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13
Consensus pattern (8 bp):
TCACAAAA
Found at i:55873372 original size:18 final size:19
Alignment explanation
Indices: 55873338--55873381 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
55873328 TATACTAATT
55873338 ATATATGATGTAAATGAAA
1 ATATATGATGTAAATGAAA
*
55873357 ATATATG-TGTATATGAAA
1 ATATATGATGTAAATGAAA
55873375 AGTATAT
1 A-TATAT
55873382 TTGGCCAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (19 bp):
ATATATGATGTAAATGAAA
Found at i:55884550 original size:27 final size:27
Alignment explanation
Indices: 55884515--55884669 Score: 179
Period size: 27 Copynumber: 5.7 Consensus size: 27
55884505 GACTGAAAAA
*
55884515 CCCTCATAGGGTAAAATGGCCGAAATAC
1 CCCT-ATAGGGTAAAATGACCGAAATAC
55884543 CCCTATAGGGTAAAATGACCGAAATAC
1 CCCTATAGGGTAAAATGACCGAAATAC
*
55884570 CCCCATAGGG-AAGAATGACCGAAATAC
1 CCCTATAGGGTAA-AATGACCGAAATAC
* *
55884597 CCCCATAGGGTAAAATGACAGAAATA-
1 CCCTATAGGGTAAAATGACCGAAATAC
* * *
55884623 CCCTAGTAGGATAAAATGACTGTAATAC
1 CCCTA-TAGGGTAAAATGACCGAAATAC
* * *
55884651 TCCTATAAGGTGAAATGAC
1 CCCTATAGGGTAAAATGAC
55884670 TATTTTACCC
Statistics
Matches: 112, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
26 6 0.05
27 96 0.86
28 10 0.09
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (27 bp):
CCCTATAGGGTAAAATGACCGAAATAC
Found at i:55884769 original size:27 final size:27
Alignment explanation
Indices: 55884663--55884787 Score: 135
Period size: 27 Copynumber: 4.6 Consensus size: 27
55884653 CTATAAGGTG
* *
55884663 AAATGACTATTTTACCCTTATGTGATA
1 AAATGACTATTTTGCCCTTATGTGGTA
*
55884690 AACTGACTATTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
* *
55884717 AAATGAC-AGTTTTGCCGTTATATGGTA
1 AAATGACTA-TTTTGCCCTTATGTGGTA
* * *
55884744 AAATAACTAATTTGCCCTTAGGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
* * *
55884771 AGATTACTGTTTTGCCC
1 AAATGACTATTTTGCCC
55884788 CTACGTCATG
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 1 0.01
27 79 0.98
28 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (27 bp):
AAATGACTATTTTGCCCTTATGTGGTA
Done.