Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 255 of 378
Found at i:76452926 original size:46 final size:46
Alignment explanation
Indices: 76452859--76452980 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
76452849 CGCCCCTAAG
* * * *
76452859 TGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
* *
76452905 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
76452951 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
76452981 TGCTCAACAA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
Found at i:76455050 original size:21 final size:21
Alignment explanation
Indices: 76455024--76455065 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
76455014 CTTAATGAGT
76455024 TTATTTTTAAAAGAAACAAAC
1 TTATTTTTAAAAGAAACAAAC
76455045 TTATTTTTAAAAGAAACAAAC
1 TTATTTTTAAAAGAAACAAAC
76455066 GCGACCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (21 bp):
TTATTTTTAAAAGAAACAAAC
Found at i:76459537 original size:20 final size:21
Alignment explanation
Indices: 76459512--76459551 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
76459502 TCTTTGAAAC
76459512 AGGGC-ACACGCCTGTGTGGA
1 AGGGCAACACGCCTGTGTGGA
*
76459532 AGGGCAACACGCTTGTGTGG
1 AGGGCAACACGCCTGTGTGG
76459552 CCACTTCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.23, G:0.40, T:0.17
Consensus pattern (21 bp):
AGGGCAACACGCCTGTGTGGA
Found at i:76460362 original size:18 final size:18
Alignment explanation
Indices: 76460339--76460375 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
76460329 CAGTTGATAG
76460339 TGTGATTGATATCTCTGA
1 TGTGATTGATATCTCTGA
76460357 TGTGATTGATATCTCTGA
1 TGTGATTGATATCTCTGA
76460375 T
1 T
76460376 CTCCGTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.46
Consensus pattern (18 bp):
TGTGATTGATATCTCTGA
Found at i:76460819 original size:46 final size:45
Alignment explanation
Indices: 76460723--76460939 Score: 226
Period size: 46 Copynumber: 4.7 Consensus size: 45
76460713 GGGGTAAGTT
* * *
76460723 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATTTC-ATA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTACATCTCGA-G
76460769 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TACATCTCGAG
* *
76460815 GCCGATGCATGTCCCAGACATGTCTTACACTAGCGCTA-ATCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-G-GCTACATCTCGAG
* * *
76460861 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-ACAT-CTCGAG
* *
76460909 GCCGATGTATGTCCCAGACATGTTTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
76460940 AGCTCACACA
Statistics
Matches: 149, Mismatches: 12, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
44 12 0.08
45 14 0.09
46 69 0.46
47 32 0.21
48 21 0.14
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTACATCTCGAG
Found at i:76460912 original size:94 final size:92
Alignment explanation
Indices: 76460723--76460947 Score: 273
Period size: 94 Copynumber: 2.4 Consensus size: 92
76460713 GGGGTAAGTT
*
76460723 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATTTCATAGCCGATGCATGTCCCAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACACATCTCATAGCCGATGCATGTCCCAG
*
76460786 ACATGTCTTACACTGGCTTACATCTCGAG
64 ACATGTCTTACACTGGCTTACATATCGAG
*
76460815 GCCGATGCATGTCCCAGACATGTCTTACACTAGCGCTA-ATCTCA-ATGCCGATGCCATGTCCCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCAC-ACATCTCATA-GCCGATG-CATGTCCCA
*
76460878 GACATGGTCTTACACTGGCTCT-CATAAT-GTG
63 GACAT-GTCTTACACTGGCT-TACAT-ATCGAG
* * *
76460909 GCCGATGTATGTCCCAGACATGTTTTACACTAGCTCACA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACACA
76460948 CAAGTGTCCC
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
90 10 0.09
91 16 0.14
92 20 0.17
93 16 0.14
94 53 0.45
95 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACACATCTCATAGCCGATGCATGTCCCAGAC
ATGTCTTACACTGGCTTACATATCGAG
Found at i:76476818 original size:31 final size:29
Alignment explanation
Indices: 76476770--76476844 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 29
76476760 TTGTAAAAAG
*
76476770 TTTTGATAAATTATATTTAAGTTCATTAAA
1 TTTTAATAAATTATATTTAAGTT-ATTAAA
* * *
76476800 TTATTAATAATTTATATTTTAGTTATTTAA
1 TT-TTAATAAATTATATTTAAGTTATTAAA
76476830 TTTTAA-AAAGTTATA
1 TTTTAATAAA-TTATA
76476845 AAATAATTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
28 2 0.05
29 9 0.24
30 9 0.24
31 18 0.47
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.53
Consensus pattern (29 bp):
TTTTAATAAATTATATTTAAGTTATTAAA
Found at i:76482814 original size:24 final size:24
Alignment explanation
Indices: 76482787--76482832 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
76482777 ACACTCACTT
*
76482787 AATC-ATGGTCTAATTGCTATTTTG
1 AATCTATGG-CTAATTGCGATTTTG
*
76482811 AATCTTTGGCTAATTGCGATTT
1 AATCTATGGCTAATTGCGATTT
76482833 AAGTCCCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.24, C:0.13, G:0.17, T:0.46
Consensus pattern (24 bp):
AATCTATGGCTAATTGCGATTTTG
Found at i:76493958 original size:24 final size:23
Alignment explanation
Indices: 76493929--76493985 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
76493919 AACCTCATAA
*
76493929 TGAGCTGATAACAGTAAGCTCGAT
1 TGAGCTGA-AACAGGAAGCTCGAT
* *
76493953 TGAGCTGGAAACGGGAAGCTCTAT
1 TGAGCT-GAAACAGGAAGCTCGAT
76493977 TGAGCTGAA
1 TGAGCTGAA
76493986 TAGTAAGTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.10
24 24 0.83
25 2 0.07
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.23
Consensus pattern (23 bp):
TGAGCTGAAACAGGAAGCTCGAT
Found at i:76499966 original size:25 final size:25
Alignment explanation
Indices: 76499913--76499966 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
76499903 AACATGATTT
* * ** *
76499913 CTCTGGAAATCCTTTGTGGCTAATT
1 CTCTGGAAAGCCTTTATGGAAAATA
76499938 CTCTGGAAAGCCTTTATGGAAAATA
1 CTCTGGAAAGCCTTTATGGAAAATA
76499963 CTCT
1 CTCT
76499967 AAAAGTCTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (25 bp):
CTCTGGAAAGCCTTTATGGAAAATA
Found at i:76502932 original size:40 final size:39
Alignment explanation
Indices: 76502867--76503070 Score: 230
Period size: 40 Copynumber: 5.1 Consensus size: 39
76502857 CGGAATACAA
* *
76502867 CCGGATATAACCAC-ACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAA-CACTA-GCACAAATGCCTTCGGGTCTTAGC
* *
76502907 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* *
76502947 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
76502987 CCGGATATAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
76503027 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGC
76503067 CCGG
1 CCGG
76503071 GTATCATTCA
Statistics
Matches: 143, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:76503225 original size:64 final size:64
Alignment explanation
Indices: 76503157--76503472 Score: 146
Period size: 64 Copynumber: 5.1 Consensus size: 64
76503147 GAACACAAAC
76503157 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * **
76503221 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCGA-ACACA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTC-ATACACA
* *
76503277 AAC
62 CAT
76503280 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * **
76503344 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCGA-ACACA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTC-ATACACA
* *
76503400 AAC
62 CAT
76503403 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
76503467 ATATCA
1 ATATCA
76503473 ATAATCATTA
Statistics
Matches: 162, Mismatches: 64, Indels: 52
0.58 0.23 0.19
Matches are distributed among these distances:
58 2 0.01
59 46 0.28
60 16 0.10
61 14 0.09
62 14 0.09
63 16 0.10
64 52 0.32
65 2 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:76503258 original size:123 final size:123
Alignment explanation
Indices: 76503039--76503623 Score: 1098
Period size: 123 Copynumber: 4.8 Consensus size: 123
76503029 GGATATAATT
* * * * * * *
76503039 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
76503104 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
76503162 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
76503227 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
76503285 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
76503350 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
76503408 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
76503473 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
*
76503531 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTATCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
76503596 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
76503624 CACATAATTC
Statistics
Matches: 454, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 454 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
Found at i:76513994 original size:25 final size:25
Alignment explanation
Indices: 76513965--76514021 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
76513955 CTTATCAATT
**
76513965 CTCAGCTTGTATAAGCTTACCATTA
1 CTCAGCTTACATAAGCTTACCATTA
* *
76513990 TTCAGCTTACATGAGCTTACCATTA
1 CTCAGCTTACATAAGCTTACCATTA
76514015 CTCAGCT
1 CTCAGCT
76514022 CATATGAGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.35
Consensus pattern (25 bp):
CTCAGCTTACATAAGCTTACCATTA
Found at i:76514028 original size:25 final size:25
Alignment explanation
Indices: 76513978--76514034 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
76513968 AGCTTGTATA
* *
76513978 AGCTTACCATTATTCAGCTTACATG
1 AGCTTACCATTACTCAGCTCACATG
*
76514003 AGCTTACCATTACTCAGCTCATATG
1 AGCTTACCATTACTCAGCTCACATG
76514028 AGCTTAC
1 AGCTTAC
76514035 TGATTACAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.33
Consensus pattern (25 bp):
AGCTTACCATTACTCAGCTCACATG
Found at i:76514054 original size:24 final size:25
Alignment explanation
Indices: 76514017--76514083 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 25
76514007 TACCATTACT
* * * *
76514017 CAGCTCATATGAGCTTACTGATT-A
1 CAGCTCGTAAGAGCATACCGATTCA
76514041 CAGCTCGTAAGAGCATACCGATTCA
1 CAGCTCGTAAGAGCATACCGATTCA
* **
76514066 GAGCTCGTATTAGCATAC
1 CAGCTCGTAAGAGCATAC
76514084 ATGTGCAGGA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
24 19 0.54
25 16 0.46
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (25 bp):
CAGCTCGTAAGAGCATACCGATTCA
Found at i:76517047 original size:40 final size:40
Alignment explanation
Indices: 76516984--76517170 Score: 162
Period size: 40 Copynumber: 4.7 Consensus size: 40
76516974 CATTGGAATG
* * *
76516984 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTATT
* * * *
76517024 ATATCCGGGCTAAGACCCAAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-ATGCAAGTTATT
* * **
76517064 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTATT
* * * * *
76517104 AAATCCGGGTTAAGACCCGAAGGCAATCATGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGC-AAGTTATT
* * * *
76517144 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
76517171 CGAGCGAGTC
Statistics
Matches: 119, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
39 3 0.03
40 112 0.94
41 4 0.03
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTATT
Found at i:76517118 original size:80 final size:80
Alignment explanation
Indices: 76516984--76517137 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
76516974 CATTGGAATG
* * ** *
76516984 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCAAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCAAAGGCA
* *
76517049 TTCGTGCGAGTTGTT
66 ATCATGCGAGTTGTT
* * * * *
76517064 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCAAAGGCA
76517129 ATCATGCGA
66 ATCATGCGA
76517138 ATCACTATAA
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
80 62 1.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCAAAGGCA
ATCATGCGAGTTGTT
Found at i:76517152 original size:80 final size:80
Alignment explanation
Indices: 76516988--76517170 Score: 195
Period size: 80 Copynumber: 2.3 Consensus size: 80
76516978 GGAATGATAT
* ** * * *
76516988 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCAAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCAAAGGCAATCA
* *** *
76517053 TGCGAGTTGTTATAT
66 TGCGAATCACTATAA
* * * * * *
76517068 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCA
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCAAAGGCAATCA
76517133 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* *
76517148 CCGGGCTAGGTCCCGAAGACAAT
1 CCGGGCTAAGTCCCGAAGGCAAT
76517171 CGAGCGAGTC
Statistics
Matches: 82, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCAAAGGCAATCA
TGCGAATCACTATAA
Found at i:76519709 original size:20 final size:18
Alignment explanation
Indices: 76519662--76519760 Score: 66
Period size: 17 Copynumber: 5.5 Consensus size: 18
76519652 CAAGATAAAC
76519662 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
76519679 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
76519699 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
76519718 ATTAAGA-TAAGTA-TTAA-
1 ATTAA-ATTAA-TATTTAAT
*
76519735 ATTAAATTAA-ATTAAAT
1 ATTAAATTAATATTTAAT
76519752 ATTAAATTA
1 ATTAAATTA
76519761 TTAAAATAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 20
0.71 0.08 0.22
Matches are distributed among these distances:
15 1 0.02
16 4 0.06
17 25 0.38
18 3 0.05
19 14 0.22
20 18 0.28
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:76519776 original size:22 final size:21
Alignment explanation
Indices: 76519718--76519774 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 21
76519708 ATAAAATACT
* *
76519718 ATTAAGATAAGTATTAAATTAA
1 ATTAAAATAAATATTAAATT-A
*
76519740 ATTAAATTAAATATTAAATT-
1 ATTAAAATAAATATTAAATTA
76519760 ATTAAAAT-AATATTA
1 ATTAAAATAAATATTA
76519775 TTTTTGGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 7 0.23
20 7 0.23
22 17 0.55
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (21 bp):
ATTAAAATAAATATTAAATTA
Found at i:76535477 original size:93 final size:93
Alignment explanation
Indices: 76535349--76535519 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
76535339 GCCAATAAGT
* * *
76535349 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
76535414 CGAGCTCGGATGCCTAGTCACATCTCTC
66 CGAGCTCGGATGCCTAGTCACATCTCTC
*
76535442 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
76535507 CGAGTTCGGATGC
66 CGAGCTCGGATGC
76535520 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTCACATCTCTC
Found at i:76535516 original size:46 final size:46
Alignment explanation
Indices: 76535343--76535516 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
76535333 TAACCCGCCA
* * *
76535343 ATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
*
76535389 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTCAC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A-TC-C
*** *
76535435 ATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCC
1 ATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
*
76535482 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
76535517 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 66 0.60
47 31 0.28
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
Found at i:76539179 original size:18 final size:20
Alignment explanation
Indices: 76539156--76539204 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 20
76539146 TTTTCATATA
76539156 TTATATT-TATATAA-TTTT-
1 TTATATTATAT-TAAGTTTTG
76539174 TTATATTATATTAAGTTTTG
1 TTATATTATATTAAGTTTTG
76539194 TTATACTTATA
1 TTATA-TTATA
76539205 AAAATATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 10 0.37
19 7 0.26
20 5 0.19
21 5 0.19
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (20 bp):
TTATATTATATTAAGTTTTG
Found at i:76543688 original size:17 final size:17
Alignment explanation
Indices: 76543666--76543698 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
76543656 GTCCCCTCTA
76543666 GATATAA-AGAATAAAAT
1 GATATAATA-AATAAAAT
76543683 GATATAATAAATAAAA
1 GATATAATAAATAAAA
76543699 AGTTTATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (17 bp):
GATATAATAAATAAAAT
Found at i:76543973 original size:17 final size:17
Alignment explanation
Indices: 76543951--76544003 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
76543941 TTGGTGAATT
*
76543951 GTATCGCCTGGCGGATA
1 GTATCGCCTAGCGGATA
*
76543968 GTATCGCCTAGTGGATA
1 GTATCGCCTAGCGGATA
** *
76543985 GTATTACCTAGCAGATA
1 GTATCGCCTAGCGGATA
76544002 GT
1 GT
76544004 TTCACCTAGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (17 bp):
GTATCGCCTAGCGGATA
Found at i:76547379 original size:46 final size:46
Alignment explanation
Indices: 76547329--76547500 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
76547319 TGGTTGAGCA
*
76547329 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
76547375 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
76547422 TCCGAACTCGTTGAGTTGAGT-CGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
76547467 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
76547501 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 23 0.22
46 47 0.45
47 24 0.23
49 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:76547484 original size:92 final size:93
Alignment explanation
Indices: 76547326--76547495 Score: 288
Period size: 92 Copynumber: 1.8 Consensus size: 93
76547316 GGATGGTTGA
* *
76547326 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
76547391 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
76547419 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
76547483 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
76547496 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 48 0.67
93 24 0.33
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:76547762 original size:19 final size:20
Alignment explanation
Indices: 76547725--76547762 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
76547715 ATAAGGTGGT
76547725 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
76547745 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
76547763 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:76554941 original size:45 final size:46
Alignment explanation
Indices: 76554890--76555014 Score: 198
Period size: 46 Copynumber: 2.7 Consensus size: 46
76554880 TGGTTGAGCA
*
76554890 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
76554935 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
76554981 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
76555015 GGGGCGGGTT
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
45 34 0.47
46 39 0.53
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:76555275 original size:19 final size:20
Alignment explanation
Indices: 76555238--76555275 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
76555228 ATAAGGTGGT
76555238 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
76555258 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
76555276 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:76560150 original size:28 final size:28
Alignment explanation
Indices: 76560098--76560152 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
76560088 ATGGATACCG
* * **
76560098 TTTACTTATCATACTTTTGGCGGATACT
1 TTTACTAATCAAACTTTTGAAGGATACT
76560126 TTTACTAATCAAACTTTTGAAGGATAC
1 TTTACTAATCAAACTTTTGAAGGATAC
76560153 CCTTGCTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (28 bp):
TTTACTAATCAAACTTTTGAAGGATACT
Found at i:76560617 original size:25 final size:25
Alignment explanation
Indices: 76560580--76560649 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
76560570 TTAGGGCCAG
* *
76560580 ACAGAATATGCCACAAAGGCAACAT
1 ACAGATTACGCCACAAAGGCAACAT
* **
76560605 ACAGATTACGCCACAAATGCGTCAT
1 ACAGATTACGCCACAAAGGCAACAT
* *
76560630 ACGGATTACACCACAAAGGC
1 ACAGATTACGCCACAAAGGC
76560650 TAGCAGAATG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.41, C:0.27, G:0.17, T:0.14
Consensus pattern (25 bp):
ACAGATTACGCCACAAAGGCAACAT
Found at i:76560723 original size:21 final size:21
Alignment explanation
Indices: 76560664--76560731 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
76560654 AGAATGGTAC
* *
76560664 AAAGGCAATATCAGATGCCAG
1 AAAGGCCATATCAGATGCCAT
* * *
76560685 AAA-GTC-TAACATAATGCCAT
1 AAAGGCCATATCA-GATGCCAT
76560705 AAAGGCCATATCAGATGCCAT
1 AAAGGCCATATCAGATGCCAT
76560726 AAAGGC
1 AAAGGC
76560732 TAACCGAATG
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 4 0.11
20 10 0.28
21 18 0.50
22 4 0.11
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.18
Consensus pattern (21 bp):
AAAGGCCATATCAGATGCCAT
Found at i:76560744 original size:20 final size:19
Alignment explanation
Indices: 76560678--76560744 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 19
76560668 GCAATATCAG
* * *
76560678 ATGCCAGAAAGTCTAACATA
1 ATGCCATAAAGGCTAAC-CA
* *
76560698 ATGCCATAAAGGCCATATCA
1 ATGCCATAAAGGCTA-ACCA
76560718 GATGCCATAAAGGCTAACCGA
1 -ATGCCATAAAGGCTAACC-A
76560739 ATGCCA
1 ATGCCA
76560745 CAAGGGCTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
20 21 0.57
21 16 0.43
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (19 bp):
ATGCCATAAAGGCTAACCA
Found at i:76560757 original size:41 final size:41
Alignment explanation
Indices: 76560644--76560757 Score: 129
Period size: 41 Copynumber: 2.8 Consensus size: 41
76560634 ATTACACCAC
* **
76560644 AAAGGCTAGCAGAATGGTACAAAGGCAATATCAGATGCCAG
1 AAAGGCTAACAGAATGCCACAAAGGCAATATCAGATGCCAG
* * * * *
76560685 AAAGTCTAACATAATGCCATAAAGGCCATATCAGATGCCAT
1 AAAGGCTAACAGAATGCCACAAAGGCAATATCAGATGCCAG
* * *
76560726 AAAGGCTAACCGAATGCCACAAGGGCTATATC
1 AAAGGCTAACAGAATGCCACAAAGGCAATATC
76560758 TAAATACGAC
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.18
Consensus pattern (41 bp):
AAAGGCTAACAGAATGCCACAAAGGCAATATCAGATGCCAG
Found at i:76562257 original size:26 final size:26
Alignment explanation
Indices: 76562228--76562358 Score: 253
Period size: 26 Copynumber: 5.0 Consensus size: 26
76562218 TGATACAAAT
76562228 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
76562254 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
76562280 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
76562306 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
76562332 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
76562358 T
1 T
76562359 AATGGGAATT
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:76563199 original size:54 final size:54
Alignment explanation
Indices: 76563117--76563278 Score: 229
Period size: 54 Copynumber: 3.0 Consensus size: 54
76563107 TGGAGGAAGC
76563117 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * *
76563171 GTCCTGGTAGCAATGCCAAAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * * * *
76563225 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTGACTCCGTCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCT
76563278 G
1 G
76563279 GCAGCCTCGC
Statistics
Matches: 96, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
53 13 0.14
54 83 0.86
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:76563256 original size:32 final size:27
Alignment explanation
Indices: 76563120--76563278 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
76563110 AGGAAGCGTC
*
76563120 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
76563147 CTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACATATATCTGAT
* ** *
76563173 CCTGGTAGCAATGCCA-AAATTATCTGAT
1 -CTGGTGGCTCTGCCACATA-TATCTGAT
*
76563201 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
76563228 CTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
* * *
76563255 CTGGTGACTCCGTCACA-ATATCTG
1 CTGGTGGCTCTGCCACATATATCTG
76563279 GCAGCCTCGC
Statistics
Matches: 112, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
26 10 0.09
27 98 0.88
28 4 0.04
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:76570214 original size:28 final size:29
Alignment explanation
Indices: 76570182--76570247 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
76570172 TATTGTGTCT
76570182 ATATTTTTATACTATTA-AC-TATATATAC
1 ATATTTTTATA-TATTATACGTATATATAC
* * *
76570210 TTATTTTATTTATATTATACGTATATATGC
1 ATATTTT-TATATATTATACGTATATATAC
76570240 ATATTTTT
1 ATATTTTT
76570248 GCAAGTTCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
28 11 0.35
29 6 0.19
30 14 0.45
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (29 bp):
ATATTTTTATATATTATACGTATATATAC
Found at i:76580261 original size:10 final size:10
Alignment explanation
Indices: 76580234--76580283 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
76580224 TGAAATTCTA
76580234 AAAGATAAAT
1 AAAGATAAAT
*
76580244 ATAA-ATAATT
1 A-AAGATAAAT
76580254 AAAGATAAAT
1 AAAGATAAAT
76580264 AAAGATAAAT
1 AAAGATAAAT
76580274 GAAA-ATAAAT
1 -AAAGATAAAT
76580284 CCTAGAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:76580772 original size:29 final size:28
Alignment explanation
Indices: 76580707--76580763 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
76580697 TATGATTCAG
76580707 TGTAAAAAAATTTCCATTGTTTGAAATT
1 TGTAAAAAAATTTCCATTGTTTGAAATT
76580735 TGTAAAAAAATTTCCATTGTTTGAAATT
1 TGTAAAAAAATTTCCATTGTTTGAAATT
76580763 T
1 T
76580764 TTTATAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.44
Consensus pattern (28 bp):
TGTAAAAAAATTTCCATTGTTTGAAATT
Found at i:76581241 original size:173 final size:173
Alignment explanation
Indices: 76581005--76581355 Score: 657
Period size: 173 Copynumber: 2.0 Consensus size: 173
76580995 GTCACACAAC
76581005 AATTCAATTTTGTTGTTTTGGTCACCAACGAGTTAACGTAAAAATAGAAACACCCAAAATAAAAA
1 AATTCAATTTTGTTGTTTTGGTCACCAACGAGTTAACGTAAAAATAGAAACACCCAAAATAAAAA
76581070 ATAATTGATTGACCAAAAAAGACAAAATTAAATAATTGAGTTATTATTTTGTAACTTTTTATAAT
66 ATAATTGATTGACCAAAAAAGACAAAATTAAATAATTGAGTTATTATTTTGTAACTTTTTATAAT
*
76581135 TGAGAGAAAGAAAACATAGTTGGATGGATATTAATATGATTTA
131 TGAGAGAAAGAAAACATAGTTGGATGGATATTAATATAATTTA
* * *
76581178 AATTTAATTTTGTTGTTTTGGTCACCAACGAGTTAACGTAAAAATTGGAACACCCAAAATAAAAA
1 AATTCAATTTTGTTGTTTTGGTCACCAACGAGTTAACGTAAAAATAGAAACACCCAAAATAAAAA
76581243 ATAATTGATTGACCAAAAAAGACAAAATTAAATAATTGAGTTATTATTTTGTAACTTTTTATAAT
66 ATAATTGATTGACCAAAAAAGACAAAATTAAATAATTGAGTTATTATTTTGTAACTTTTTATAAT
*
76581308 TGAGAGAAAGAGAACATAGTTGGATGGATATTAATATAATTTA
131 TGAGAGAAAGAAAACATAGTTGGATGGATATTAATATAATTTA
76581351 AATTC
1 AATTC
76581356 TATCAAAATT
Statistics
Matches: 172, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
173 172 1.00
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.34
Consensus pattern (173 bp):
AATTCAATTTTGTTGTTTTGGTCACCAACGAGTTAACGTAAAAATAGAAACACCCAAAATAAAAA
ATAATTGATTGACCAAAAAAGACAAAATTAAATAATTGAGTTATTATTTTGTAACTTTTTATAAT
TGAGAGAAAGAAAACATAGTTGGATGGATATTAATATAATTTA
Found at i:76587079 original size:46 final size:46
Alignment explanation
Indices: 76587029--76587201 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
76587019 TGGTTGAGCA
*
76587029 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
76587075 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
76587122 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
76587168 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
76587202 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 60 0.56
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:76587185 original size:93 final size:93
Alignment explanation
Indices: 76587026--76587196 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
76587016 GGATGGTTGA
*
76587026 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
76587091 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
76587119 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC-CGAACTCGTTGAG
76587183 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
76587197 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:76587463 original size:19 final size:20
Alignment explanation
Indices: 76587426--76587463 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
76587416 ATAAGGTGGT
76587426 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
76587446 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
76587464 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:76592338 original size:28 final size:28
Alignment explanation
Indices: 76592286--76592340 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
76592276 ATGGATACCG
* * **
76592286 TTTACTTATCATACTTTTGGCGGATACT
1 TTTACTAATCAAACTTTTGAAGGATACT
76592314 TTTACTAATCAAACTTTTGAAGGATAC
1 TTTACTAATCAAACTTTTGAAGGATAC
76592341 CCTTGCTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (28 bp):
TTTACTAATCAAACTTTTGAAGGATACT
Found at i:76592805 original size:25 final size:25
Alignment explanation
Indices: 76592768--76592837 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
76592758 TTAGGGCCAG
* *
76592768 ACAGAATATGCCACAAAGGCAACAT
1 ACAGATTACGCCACAAAGGCAACAT
* **
76592793 ACAGATTACGCCACAAATGCGTCAT
1 ACAGATTACGCCACAAAGGCAACAT
* *
76592818 ACGGATTACACCACAAAGGC
1 ACAGATTACGCCACAAAGGC
76592838 TAGCAGAATG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.41, C:0.27, G:0.17, T:0.14
Consensus pattern (25 bp):
ACAGATTACGCCACAAAGGCAACAT
Found at i:76592932 original size:20 final size:20
Alignment explanation
Indices: 76592828--76592941 Score: 88
Period size: 20 Copynumber: 5.6 Consensus size: 20
76592818 ACGGATTACA
*
76592828 CCACAAAGGCTAGCAGAATG
1 CCACAAAGGCTAACAGAATG
** *
76592848 GTACAAAGGCAATATCAG-ATG
1 CCACAAAGGC--TAACAGAATG
* * *
76592869 CCAGAAAGTCTAACATAATG
1 CCACAAAGGCTAACAGAATG
* *
76592889 CCATAAAGGCCATATCAG-ATG
1 CCACAAAGG-C-TAACAGAATG
76592910 CCACAAAGGCTAACAGAATG
1 CCACAAAGGCTAACAGAATG
*
76592930 CCACAAGGGCTA
1 CCACAAAGGCTA
76592942 TATCTAAATA
Statistics
Matches: 72, Mismatches: 16, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
19 9 0.12
20 33 0.46
21 21 0.29
22 9 0.12
ACGTcount: A:0.41, C:0.23, G:0.21, T:0.15
Consensus pattern (20 bp):
CCACAAAGGCTAACAGAATG
Found at i:76592945 original size:41 final size:41
Alignment explanation
Indices: 76592828--76592945 Score: 146
Period size: 41 Copynumber: 2.9 Consensus size: 41
76592818 ACGGATTACA
* **
76592828 CCACAAAGGCTAGCAGAATGGTACAAAGGCAATATCAGATG
1 CCACAAAGGCTAACAGAATGCCACAAAGGCAATATCAGATG
* * * * *
76592869 CCAGAAAGTCTAACATAATGCCATAAAGGCCATATCAGATG
1 CCACAAAGGCTAACAGAATGCCACAAAGGCAATATCAGATG
* *
76592910 CCACAAAGGCTAACAGAATGCCACAAGGGCTATATC
1 CCACAAAGGCTAACAGAATGCCACAAAGGCAATATC
76592946 TAAATACGAC
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (41 bp):
CCACAAAGGCTAACAGAATGCCACAAAGGCAATATCAGATG
Found at i:76594453 original size:26 final size:26
Alignment explanation
Indices: 76594415--76594515 Score: 184
Period size: 26 Copynumber: 3.9 Consensus size: 26
76594405 TGATACAAAT
*
76594415 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
76594441 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
76594467 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
76594493 TGATAATGGGTTAGGTAAATGTT
1 TGATAATGGGTTAGGTAAATGTT
76594516 TCATAATGGG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:76596160 original size:27 final size:27
Alignment explanation
Indices: 76596120--76596278 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
76596110 AGGAAGCGTC
*
76596120 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
76596147 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
76596173 CCTGGTGGCTATGCCAAAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
76596201 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
76596228 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
76596255 CTGGTGACTCCGTCACAA-TATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
76596279 GCAGTCTCGC
Statistics
Matches: 115, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
26 11 0.10
27 100 0.87
28 4 0.03
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:76596199 original size:54 final size:54
Alignment explanation
Indices: 76596117--76596278 Score: 247
Period size: 54 Copynumber: 3.0 Consensus size: 54
76596107 TGGAGGAAGC
76596117 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
76596171 GTCCTGGTGGCTATGCCAAAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * * * *
76596225 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTGACTCCGTCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCT
76596278 G
1 G
76596279 GCAGTCTCGC
Statistics
Matches: 100, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
53 13 0.13
54 87 0.87
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:76605490 original size:28 final size:29
Alignment explanation
Indices: 76605458--76605523 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
76605448 TATTGTGTTT
76605458 ATATTTTTATACTATTA-AC-TATATATAC
1 ATATTTTTATA-TATTATACGTATATATAC
* * *
76605486 TTATTTTATTTATATTATACGTATATATGC
1 ATATTTT-TATATATTATACGTATATATAC
76605516 ATATTTTT
1 ATATTTTT
76605524 GCAAGTTCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
28 11 0.35
29 6 0.19
30 14 0.45
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (29 bp):
ATATTTTTATATATTATACGTATATATAC
Found at i:76617168 original size:353 final size:353
Alignment explanation
Indices: 76616522--76617195 Score: 1330
Period size: 353 Copynumber: 1.9 Consensus size: 353
76616512 ATTGAACTAG
76616522 TTTATTTATCTATTAAGCCCGAGAAGTTAAGGAAGGAGAAACAAGCAAGGGCAAAGCCAAGGACA
1 TTTATTTATCTATTAAGCCCGAGAAGTTAAGGAAGGAGAAACAAGCAAGGGCAAAGCCAAGGACA
76616587 TCGAGTAGCCAGGTCGGAACCGTTATACTCAACGCAAGGTAAGTCCTTAAGCACTTGTTGTGAGA
66 TCGAGTAGCCAGGTCGGAACCGTTATACTCAACGCAAGGTAAGTCCTTAAGCACTTGTTGTGAGA
76616652 ACTCCTTGGATAGATATTTTTCGGAGTGATTCTCCTATTTATTAATATGACCATATGTACAATTT
131 ACTCCTTGGATAGATATTTTTCGGAGTGATTCTCCTATTTATTAATATGACCATATGTACAATTT
76616717 GAATTCAGTAAATTGCTTTACCATGATGAATTGACATAGGGCACAATGTGTGCAAAGATTATGTG
196 GAATTCAGTAAATTGCTTTACCATGATGAATTGACATAGGGCACAATGTGTGCAAAGATTATGTG
76616782 GCACTATGTGTGCCGATTGGGAGGTTGAGGCATGAGGCTATCTCAAATGCACTATGTGTGCAATT
261 GCACTATGTGTGCCGATTGGGAGGTTGAGGCATGAGGCTATCTCAAATGCACTATGTGTGCAATT
76616847 AATGCACTATGTACAATTTGAGAACTCC
326 AATGCACTATGTACAATTTGAGAACTCC
76616875 TTTATTTATCTATTAAGCCCGAGAAGTTAAGGAAGGAGAAACAAGCAAGGGCAAAGCCAAGGACA
1 TTTATTTATCTATTAAGCCCGAGAAGTTAAGGAAGGAGAAACAAGCAAGGGCAAAGCCAAGGACA
*
76616940 TCGAGTAGCCGGGTCGGAACCGTTATACTCAACGCAAGGTAAGTCCTTAAGCACTTGTTGTGAGA
66 TCGAGTAGCCAGGTCGGAACCGTTATACTCAACGCAAGGTAAGTCCTTAAGCACTTGTTGTGAGA
76617005 ACTCCTTGGATAGATATTTTTCGGAGTGATTCTCCTATTTATTAATATGACCATATGTACAATTT
131 ACTCCTTGGATAGATATTTTTCGGAGTGATTCTCCTATTTATTAATATGACCATATGTACAATTT
*
76617070 GAATTCAGTAAATTGGTTTACCATGATGAATTGACATAGGGCACAATGTGTGCAAAGATTATGTG
196 GAATTCAGTAAATTGCTTTACCATGATGAATTGACATAGGGCACAATGTGTGCAAAGATTATGTG
76617135 GCACTATGTGTGCCGATTGGGAGGTTGAGGCATGAGGCTATCTCAAATGCACTATGTGTGC
261 GCACTATGTGTGCCGATTGGGAGGTTGAGGCATGAGGCTATCTCAAATGCACTATGTGTGC
76617196 GATTTACTAT
Statistics
Matches: 319, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
353 319 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (353 bp):
TTTATTTATCTATTAAGCCCGAGAAGTTAAGGAAGGAGAAACAAGCAAGGGCAAAGCCAAGGACA
TCGAGTAGCCAGGTCGGAACCGTTATACTCAACGCAAGGTAAGTCCTTAAGCACTTGTTGTGAGA
ACTCCTTGGATAGATATTTTTCGGAGTGATTCTCCTATTTATTAATATGACCATATGTACAATTT
GAATTCAGTAAATTGCTTTACCATGATGAATTGACATAGGGCACAATGTGTGCAAAGATTATGTG
GCACTATGTGTGCCGATTGGGAGGTTGAGGCATGAGGCTATCTCAAATGCACTATGTGTGCAATT
AATGCACTATGTACAATTTGAGAACTCC
Found at i:76617215 original size:24 final size:24
Alignment explanation
Indices: 76617183--76617245 Score: 108
Period size: 24 Copynumber: 2.6 Consensus size: 24
76617173 TATCTCAAAT
76617183 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
* *
76617207 GCACTATGTGTGCAATTTGCTATG
1 GCACTATGTGTGCGATTTACTATG
76617231 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
76617246 ACATAATAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:76618924 original size:10 final size:10
Alignment explanation
Indices: 76618897--76618946 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
76618887 TGAAATTCTA
76618897 AAAGATAAAT
1 AAAGATAAAT
*
76618907 ACAA-ATAATT
1 A-AAGATAAAT
76618917 AAAGATAAAT
1 AAAGATAAAT
76618927 AAAGATAAAT
1 AAAGATAAAT
76618937 GAAA-ATAAAT
1 -AAAGATAAAT
76618947 CCTAGAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:76619878 original size:173 final size:173
Alignment explanation
Indices: 76619642--76619992 Score: 668
Period size: 173 Copynumber: 2.0 Consensus size: 173
76619632 GTCACACAAC
76619642 AATTCAATTTTGTTGTTTTGGTCACCAACGAGTTAACGTAAAAATGGAAACACCCAAAATAAAAA
1 AATTCAATTTTGTTGTTTTGGTCACCAACGAGTTAACGTAAAAATGGAAACACCCAAAATAAAAA
*
76619707 ATAATTGATTGACCAAAAAAGACAAAATTAAATAATTGAGTTATTATTTTGTAACTTTTTATAAT
66 ATAATTGATTGACCAAAAAAGACAAAATTAAATAATTGAGTTATTATTTTCTAACTTTTTATAAT
76619772 TGAGAGAAAGAAAACATAGTTGGATGGATATTAATATAATTTA
131 TGAGAGAAAGAAAACATAGTTGGATGGATATTAATATAATTTA
76619815 AATTCAATTTTGTTGTTTTGGTCACCAACGAGTTAACGTAAAAATTGG-AACACCCAAAATAAAA
1 AATTCAATTTTGTTGTTTTGGTCACCAACGAGTTAACGTAAAAA-TGGAAACACCCAAAATAAAA
76619879 AATAATTGATTGACCAAAAAAGACAAAATTAAATAATTGAGTTATTATTTTCTAACTTTTTATAA
65 AATAATTGATTGACCAAAAAAGACAAAATTAAATAATTGAGTTATTATTTTCTAACTTTTTATAA
*
76619944 TTGAGAGAAAGAGAACATAGTTGGATGGATATTAATATAATTTA
130 TTGAGAGAAAGAAAACATAGTTGGATGGATATTAATATAATTTA
76619988 AATTC
1 AATTC
76619993 TATCAAAATT
Statistics
Matches: 175, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
173 172 0.98
174 3 0.02
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (173 bp):
AATTCAATTTTGTTGTTTTGGTCACCAACGAGTTAACGTAAAAATGGAAACACCCAAAATAAAAA
ATAATTGATTGACCAAAAAAGACAAAATTAAATAATTGAGTTATTATTTTCTAACTTTTTATAAT
TGAGAGAAAGAAAACATAGTTGGATGGATATTAATATAATTTA
Found at i:76621642 original size:38 final size:38
Alignment explanation
Indices: 76621591--76621666 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
76621581 TCCACCAAAA
76621591 GCAGGATTGATAACCTCCCAATTGTCTGAAATGGTGAT
1 GCAGGATTGATAACCTCCCAATTGTCTGAAATGGTGAT
76621629 GCAGGATTGATAACCTCCCAATTGTCTGAAATGGTGAT
1 GCAGGATTGATAACCTCCCAATTGTCTGAAATGGTGAT
76621667 AGAGTTGGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (38 bp):
GCAGGATTGATAACCTCCCAATTGTCTGAAATGGTGAT
Found at i:76625464 original size:39 final size:39
Alignment explanation
Indices: 76625359--76625467 Score: 164
Period size: 39 Copynumber: 2.8 Consensus size: 39
76625349 ATATTTATCT
* * *
76625359 GGACTTAGGGTCCGCAGGCTATGTGCTAGAATTATATCC
1 GGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACC
*
76625398 AGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACC
1 GGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACC
* *
76625437 GGACTTAAGGTCCGCAGACTACGTGCTGGAA
1 GGACTTAAGGTCCGCAGGCTATGTGCTGGAA
76625468 ATATGTCTAG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 63 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
GGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACC
Found at i:76625504 original size:78 final size:77
Alignment explanation
Indices: 76625359--76625515 Score: 174
Period size: 78 Copynumber: 2.0 Consensus size: 77
76625349 ATATTTATCT
* * * * * *
76625359 GGACTTAGGGTCCGCAGGCTATGTGCTAGAATTATATCCAGACTTAAGGTCCGCAGGCTATGTGC
1 GGACTTAAGGTCCGCAGACTACGTGCTAGAAATATATCCAGACTTAAAGTCCGCAGGCTATGAGC
76625424 TGGAATTATAACC
66 TGGAATTAT-ACC
* * * *
76625437 GGACTTAAGGTCCGCAGACTACGTGCTGGAAATATGTCTAGGC-TAAAGTCCCGCAGGCT-TCGA
1 GGACTTAAGGTCCGCAGACTACGTGCTAGAAATATATCCAGACTTAAAGT-CCGCAGGCTAT-GA
*
76625500 GCTGGTATTATACC
64 GCTGGAATTATACC
76625514 GG
1 GG
76625516 GTTTAAATTC
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
77 11 0.17
78 55 0.83
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (77 bp):
GGACTTAAGGTCCGCAGACTACGTGCTAGAAATATATCCAGACTTAAAGTCCGCAGGCTATGAGC
TGGAATTATACC
Found at i:76629754 original size:82 final size:82
Alignment explanation
Indices: 76629654--76629808 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 82
76629644 TTTGATTGCA
* * *
76629654 CTAATAATTCCTGAATCAATTAGATTACTAATT-ACTTAGCCAGTAATTAATTTGGA-AAATATG
1 CTAATAATTCCTAAATCAATTAGACTACTAATTGA-TTAGCCAGTAATTAATTT-GACAAACATG
*
76629717 TTTACTAATTGACATTACG
64 TTTACCAATTGACATTACG
* * *
76629736 CTAATAATTCCTAAATCAATTTGACTAGTAATTGATTAGCTAGTAATTAATTTGACAAACATGTT
1 CTAATAATTCCTAAATCAATTAGACTACTAATTGATTAGCCAGTAATTAATTTGACAAACATGTT
76629801 TACCAATT
66 TACCAATT
76629809 AACAATCTCT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
81 2 0.03
82 61 0.95
83 1 0.02
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (82 bp):
CTAATAATTCCTAAATCAATTAGACTACTAATTGATTAGCCAGTAATTAATTTGACAAACATGTT
TACCAATTGACATTACG
Found at i:76631661 original size:27 final size:27
Alignment explanation
Indices: 76631577--76631666 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
76631567 AACATATCAG
* *
76631577 AAAAGAATAGCCTTTGTGGTGAAGCCT
1 AAAAGAATAGCCTTTGTGGTGAAGTCA
* *
76631604 AAAAGAATAGCCTTTGTGGTGTA-TTA
1 AAAAGAATAGCCTTTGTGGTGAAGTCA
* **
76631630 CAAAAGAATAGCCTTTATGGCAAAGTCA
1 -AAAAGAATAGCCTTTGTGGTGAAGTCA
76631658 AAAAGAATA
1 AAAAGAATA
76631667 AATTTTGTGG
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
27 50 0.96
28 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (27 bp):
AAAAGAATAGCCTTTGTGGTGAAGTCA
Found at i:76631689 original size:27 final size:27
Alignment explanation
Indices: 76631658--76631729 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 27
76631648 GGCAAAGTCA
* *
76631658 AAAAGAATAAATTTTGTGGCGTATTAT
1 AAAAGAATAAACTTTGTGACGTATTAT
* * * *
76631685 GAAAGAACAACCTTTGTGACGTATTCT
1 AAAAGAATAAACTTTGTGACGTATTAT
**
76631712 AAAAGAATAGGCTTTGTG
1 AAAAGAATAAACTTTGTG
76631730 GTGCACTCTG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.32
Consensus pattern (27 bp):
AAAAGAATAAACTTTGTGACGTATTAT
Found at i:76631691 original size:54 final size:54
Alignment explanation
Indices: 76631577--76631683 Score: 133
Period size: 54 Copynumber: 2.0 Consensus size: 54
76631567 AACATATCAG
* ** * ** *
76631577 AAAAGAATAGCCTTTGTGGTGAAGCCTAAAAGAATAGCCTTTGTGGTGTATTAC
1 AAAAGAATAGCCTTTATGGCAAAGCCAAAAAGAATAAACTTTGTGGCGTATTAC
* *
76631631 AAAAGAATAGCCTTTATGGCAAAGTCAAAAAGAATAAATTTTGTGGCGTATTA
1 AAAAGAATAGCCTTTATGGCAAAGCCAAAAAGAATAAACTTTGTGGCGTATTA
76631684 TGAAAGAACA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.29
Consensus pattern (54 bp):
AAAAGAATAGCCTTTATGGCAAAGCCAAAAAGAATAAACTTTGTGGCGTATTAC
Found at i:76631728 original size:54 final size:54
Alignment explanation
Indices: 76631602--76631730 Score: 123
Period size: 54 Copynumber: 2.4 Consensus size: 54
76631592 GTGGTGAAGC
* * * * *
76631602 CTAAAAGAATAGCCTTTGTGGTGTATTACAAAAGAATAGCCTTTATGGCAAAGT
1 CTAAAAGAATAGACTTTGTGGCGTATTACAAAAGAACAACCTTTATGACAAAGT
* * * ** * ** *
76631656 CAAAAAGAATAAATTTTGTGGCGTATTATGAAAGAACAACCTTTGTGACGTATT
1 CTAAAAGAATAGACTTTGTGGCGTATTACAAAAGAACAACCTTTATGACAAAGT
*
76631710 CTAAAAGAATAGGCTTTGTGG
1 CTAAAAGAATAGACTTTGTGG
76631731 TGCACTCTGA
Statistics
Matches: 57, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (54 bp):
CTAAAAGAATAGACTTTGTGGCGTATTACAAAAGAACAACCTTTATGACAAAGT
Found at i:76632965 original size:43 final size:43
Alignment explanation
Indices: 76632880--76632965 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
76632870 TATCCTAGAA
* * * * *
76632880 GAAAAAAGAATTTAAAAAGAGGAGAATATAATATTGGGTTGTT
1 GAAAAAAGAATTTAAAAAAAGAAGAAGATAATAATGGCTTGTT
76632923 GAAAAAAGAATTTAAAAAAAGAAGAAGATAA-ACATGGCTTGTT
1 GAAAAAAGAATTTAAAAAAAGAAGAAGATAATA-ATGGCTTGTT
76632966 TGATTTACCT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.03
43 36 0.97
ACGTcount: A:0.52, C:0.02, G:0.21, T:0.24
Consensus pattern (43 bp):
GAAAAAAGAATTTAAAAAAAGAAGAAGATAATAATGGCTTGTT
Found at i:76633896 original size:17 final size:17
Alignment explanation
Indices: 76633852--76633890 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
76633842 GCCATAGCAT
*
76633852 TTCCAAGTGTTCATTAA
1 TTCCAAGTATTCATTAA
76633869 TTCCAAGTATTCATTAA
1 TTCCAAGTATTCATTAA
76633886 TTCCA
1 TTCCA
76633891 CATATTGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.41
Consensus pattern (17 bp):
TTCCAAGTATTCATTAA
Found at i:76634979 original size:36 final size:36
Alignment explanation
Indices: 76634932--76635029 Score: 126
Period size: 36 Copynumber: 2.7 Consensus size: 36
76634922 TATGATTATC
76634932 GATATTCTGATTTGCATGTTAAGCATG-CTATATTCT
1 GATATTCTGATTTGCATGTTAAGCATGTC-ATATTCT
*
76634968 GATATTCTGATTTGCATGTTAAGCATGTCATATTTT
1 GATATTCTGATTTGCATGTTAAGCATGTCATATTCT
* * * * *
76635004 AATATTTTGATTCGCGTGTAAAGCAT
1 GATATTCTGATTTGCATGTTAAGCAT
76635030 ACCACTGAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
36 54 0.98
37 1 0.02
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (36 bp):
GATATTCTGATTTGCATGTTAAGCATGTCATATTCT
Found at i:76641720 original size:2 final size:2
Alignment explanation
Indices: 76641713--76641740 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
76641703 GGTAAGTGCG
76641713 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
76641741 AGGGGTGAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:76642120 original size:19 final size:19
Alignment explanation
Indices: 76642057--76642124 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
76642047 TTTTAGAAAA
76642057 TTTTT-AAAA-TTTTAACTT
1 TTTTTAAAAATTTTTAA-TT
* * * *
76642075 GTTTTATATATTCTTTAGATA
1 TTTTTAAAAATT-TTTA-ATT
76642096 TTTTTAAAAATTTTTAATT
1 TTTTTAAAAATTTTTAATT
76642115 TTTTTAAAAA
1 TTTTTAAAAA
76642125 ATATAAATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
18 4 0.11
19 14 0.37
20 5 0.13
21 14 0.37
22 1 0.03
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTTTAAAAATTTTTAATT
Found at i:76642133 original size:19 final size:19
Alignment explanation
Indices: 76642096--76642135 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
76642086 TCTTTAGATA
* * *
76642096 TTTTTAAAAATTTTTAATT
1 TTTTTAAAAAATATAAATT
76642115 TTTTTAAAAAATATAAATT
1 TTTTTAAAAAATATAAATT
76642134 TT
1 TT
76642136 GAAATTTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTTAAAAAATATAAATT
Found at i:76642255 original size:9 final size:9
Alignment explanation
Indices: 76642241--76642278 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
76642231 TACCAATTCG
76642241 TTATTCGAA
1 TTATTCGAA
*
76642250 TTATTCAAA
1 TTATTCGAA
*
76642259 TTATTCGAG
1 TTATTCGAA
76642268 TTATTCGAA
1 TTATTCGAA
76642277 TT
1 TT
76642279 GTAAAATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (9 bp):
TTATTCGAA
Found at i:76643256 original size:24 final size:24
Alignment explanation
Indices: 76643203--76643256 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
76643193 TTTTAATTAA
* *
76643203 ATTTTATAAATAATTAATATTTAT
1 ATTTTAAAAATAATTAAAATTTAT
*
76643227 -TGTTTAAAAATATTTAAAATTTAT
1 AT-TTTAAAAATAATTAAAATTTAT
76643251 ATTTTA
1 ATTTTA
76643257 TATATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 1 0.04
24 23 0.92
25 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTTTAAAAATAATTAAAATTTAT
Found at i:76643488 original size:26 final size:27
Alignment explanation
Indices: 76643445--76643498 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
76643435 TTAAACTAAA
*
76643445 TTTTTTAAAGAAACTTTTTAAAAATAT
1 TTTTTTAAAGAAACTTTTCAAAAATAT
* * *
76643472 TTTTTTACAGTAA-TTTTCAAAAGTAT
1 TTTTTTAAAGAAACTTTTCAAAAATAT
76643498 T
1 T
76643499 GCCAAACTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (27 bp):
TTTTTTAAAGAAACTTTTCAAAAATAT
Found at i:76648809 original size:18 final size:19
Alignment explanation
Indices: 76648786--76648823 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
76648776 TTCATGGATT
*
76648786 AAACATGCTATCA-ATTAC
1 AAACATACTATCATATTAC
*
76648804 AAACATATTATCATATTAC
1 AAACATACTATCATATTAC
76648823 A
1 A
76648824 CATATTGAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.32
Consensus pattern (19 bp):
AAACATACTATCATATTAC
Found at i:76649180 original size:48 final size:43
Alignment explanation
Indices: 76649110--76649268 Score: 117
Period size: 42 Copynumber: 3.6 Consensus size: 43
76649100 GTACATATAC
* * * *
76649110 CGATGCTATATCCCAAATATGGTCTTATACGAAGTCTCATGTCGATGT
1 CGATGCCATGTCCCAGACATGGTCTTATACGAAGTCTCA--TC-A--T
* * *
76649158 CGATGCCATGTCCTAGACATGGTCTTATAC-AGGGCCTCA-CAT
1 CGATGCCATGTCCCAGACATGGTCTTATACGA-AGTCTCATCAT
* *
76649200 CGATGCCATGTCCCAGACATGGTCTTACACGAAATCTCAT-AT
1 CGATGCCATGTCCCAGACATGGTCTTATACGAAGTCTCATCAT
* * * * *
76649242 CAACGCCATATCCTAGATATGGTCTTA
1 CGATGCCATGTCCCAGACATGGTCTTA
76649269 CATGAAATCA
Statistics
Matches: 91, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
42 57 0.63
43 1 0.01
44 1 0.01
45 1 0.01
47 1 0.01
48 30 0.33
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (43 bp):
CGATGCCATGTCCCAGACATGGTCTTATACGAAGTCTCATCAT
Found at i:76651483 original size:30 final size:30
Alignment explanation
Indices: 76651449--76651511 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
76651439 ACTTATTTTA
76651449 TTGTTAATT-TTGTTATTATTTTAAAGGCAT
1 TTGTT-ATTATTGTTATTATTTTAAAGGCAT
* *
76651479 TTGTTATTATTTTTATTATTTTAGAGGCAT
1 TTGTTATTATTGTTATTATTTTAAAGGCAT
76651509 TTG
1 TTG
76651512 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 3 0.10
30 27 0.90
ACGTcount: A:0.24, C:0.03, G:0.14, T:0.59
Consensus pattern (30 bp):
TTGTTATTATTGTTATTATTTTAAAGGCAT
Found at i:76656680 original size:12 final size:12
Alignment explanation
Indices: 76656663--76656687 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
76656653 TAAAAATGTA
76656663 AAAATCATCAAG
1 AAAATCATCAAG
76656675 AAAATCATCAAG
1 AAAATCATCAAG
76656687 A
1 A
76656688 TCACTTACAT
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:76660737 original size:6 final size:6
Alignment explanation
Indices: 76660719--76660806 Score: 74
Period size: 6 Copynumber: 14.3 Consensus size: 6
76660709 AAGAAACATT
*
76660719 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGGTG AT-AGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * *
76660768 ATTAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
76660807 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
5 5 0.08
6 52 0.79
7 6 0.09
8 3 0.05
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:76660740 original size:18 final size:18
Alignment explanation
Indices: 76660719--76660806 Score: 74
Period size: 19 Copynumber: 4.8 Consensus size: 18
76660709 AAGAAACATT
76660719 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
*
76660737 ATCAGAATCAGAATCAGGTG
1 ATCAGAATCAGAATCA-G-A
*
76660757 AT-AGAATCAGAATTAGA
1 ATCAGAATCAGAATCAGA
*
76660774 ATCAGTATCAGGTAA-CAGA
1 ATCAGAATCA-G-AATCAGA
*
76660793 ATCAAAATCAGAAT
1 ATCAGAATCAGAAT
76660807 GTGAATGCAA
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
17 4 0.07
18 22 0.39
19 26 0.46
20 4 0.07
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:76660765 original size:31 final size:31
Alignment explanation
Indices: 76660727--76660806 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
76660717 TTATCAGAAC
*
76660727 TAGAATCAGAATCAGAATCAGAATCAGGTGA
1 TAGAATCAGAATCAGAATCAGAATCAGGTAA
* *
76660758 TAGAATCAGAATTAGAATCAGTATCAGGTAA
1 TAGAATCAGAATCAGAATCAGAATCAGGTAA
* *
76660789 CAGAATCAAAATCAGAAT
1 TAGAATCAGAATCAGAAT
76660807 GTGAATGCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.21
Consensus pattern (31 bp):
TAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:76660974 original size:27 final size:27
Alignment explanation
Indices: 76660926--76660977 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
76660916 GTGAGGCTGC
*
76660926 CAGATATTGTGACGAAGTCACCAGATG
1 CAGATATTGTGACGAAGCCACCAGATG
* * *
76660953 CAGATATTGTGGCTAGGCCACCAGA
1 CAGATATTGTGACGAAGCCACCAGA
76660978 ACACACACAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGACGAAGCCACCAGATG
Found at i:76661005 original size:2 final size:2
Alignment explanation
Indices: 76661000--76661037 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
76660990 ACACACACAC
76661000 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
76661038 GTGGCGAAGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:76661389 original size:27 final size:27
Alignment explanation
Indices: 76661359--76661502 Score: 134
Period size: 27 Copynumber: 5.3 Consensus size: 27
76661349 GGGGTAAAAT
* *
76661359 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
76661386 GGTAATTCTACCCTAC-AGAAGTATTTC
1 GGTAATTTTACCCTACAAG-GGTATTTC
* *
76661413 AGTAATTCTACCCTAC-AGAGGTATTTC
1 GGTAATTTTACCCTACAAG-GGTATTTC
76661440 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
76661467 AGT-ATTTCTACGCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
**
76661494 AATAATTTT
1 GGTAATTTT
76661503 GTAAATCGAG
Statistics
Matches: 102, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
26 5 0.05
27 91 0.89
28 6 0.06
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:76661491 original size:54 final size:54
Alignment explanation
Indices: 76661360--76661493 Score: 173
Period size: 54 Copynumber: 2.5 Consensus size: 54
76661350 GGGTAAAATG
* * *
76661360 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGAAGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGAAGTATTTCA
* *
76661414 GTAATTCTACCCTAC-AGAGGTATTTCGGTATTTCTACCCTACA-AGGGTATTTCA
1 GTAATTCTACCCTACAAG-GGTATTTCGGTAATTCTACCCTACAGA-AGTATTTCA
* *
76661468 GTATTTCTACGCTACAAGGGTATTTC
1 GTAATTCTACCCTACAAGGGTATTTC
76661494 AATAATTTTG
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
53 3 0.04
54 65 0.93
55 2 0.03
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.34
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGAAGTATTTCA
Found at i:76661622 original size:27 final size:27
Alignment explanation
Indices: 76661532--76661716 Score: 148
Period size: 27 Copynumber: 6.9 Consensus size: 27
76661522 GTAATTCTGT
*
76661532 AATCAGGGGTACTTTGGTAATTTTA-A
1 AATCAGGGGTATTTTGGTAATTTTACA
***
76661558 AAGTC-GAGGGTATTTCAATAATTTTACA
1 AA-TCAG-GGGTATTTTGGTAATTTTACA
** * *
76661586 GGTC-GAGGGTATTTTAGTAATTTCACA
1 AATCAG-GGGTATTTTGGTAATTTTACA
76661613 AATCAGGGGTATTTTGGTAATTTTACA
1 AATCAGGGGTATTTTGGTAATTTTACA
* *
76661640 AA-CTAAGGGTATTTTGGTAATTTTATA
1 AATC-AGGGGTATTTTGGTAATTTTACA
* * *
76661667 AA-CAAAGGGTAGTTTAGTAATTTTACA
1 AATC-AGGGGTATTTTGGTAATTTTACA
*
76661694 AA-CAAAGGGTATTTTGGTAATTT
1 AATC-AGGGGTATTTTGGTAATTT
76661717 GGTAAACTAA
Statistics
Matches: 133, Mismatches: 21, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
26 4 0.03
27 127 0.95
28 2 0.02
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (27 bp):
AATCAGGGGTATTTTGGTAATTTTACA
Found at i:76661661 original size:81 final size:81
Alignment explanation
Indices: 76661532--76661716 Score: 205
Period size: 81 Copynumber: 2.3 Consensus size: 81
76661522 GTAATTCTGT
* * * ** *
76661532 AATCAGGGGTACTTTGGTAATTTTAAAAGTCGAGGGTATTTCAATAATTTTACAGGTC-GAGGGT
1 AATCAGGGGTATTTTGGTAATTTTAAAACTCAAGGGTATTTCAATAATTTTACA-AACAAAGGGT
*
76661596 ATTTTAGTAATTTCACA
65 AGTTTAGTAATTTCACA
*** *
76661613 AATCAGGGGTATTTTGGTAATTTTACAAACT-AAGGGTATTTTGGTAATTTTATAAACAAAGGGT
1 AATCAGGGGTATTTTGGTAATTTTA-AAACTCAAGGGTATTTCAATAATTTTACAAACAAAGGGT
*
76661677 AGTTTAGTAATTTTACA
65 AGTTTAGTAATTTCACA
*
76661694 AA-CAAAGGGTATTTTGGTAATTT
1 AATC-AGGGGTATTTTGGTAATTT
76661717 GGTAAACTAA
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
80 2 0.02
81 82 0.93
82 4 0.05
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (81 bp):
AATCAGGGGTATTTTGGTAATTTTAAAACTCAAGGGTATTTCAATAATTTTACAAACAAAGGGTA
GTTTAGTAATTTCACA
Found at i:76661723 original size:27 final size:27
Alignment explanation
Indices: 76661591--76661716 Score: 173
Period size: 27 Copynumber: 4.7 Consensus size: 27
76661581 TTACAGGTCG
* *
76661591 AGGGTATTTTAGTAATTTCACAAATC-A
1 AGGGTATTTTGGTAATTTTACAAA-CAA
* *
76661618 GGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTACAAACAA
*
76661645 AGGGTATTTTGGTAATTTTATAAACAA
1 AGGGTATTTTGGTAATTTTACAAACAA
* *
76661672 AGGGTAGTTTAGTAATTTTACAAACAA
1 AGGGTATTTTGGTAATTTTACAAACAA
76661699 AGGGTATTTTGGTAATTT
1 AGGGTATTTTGGTAATTT
76661717 GGTAAACTAA
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 86 0.99
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAACAA
Found at i:76667934 original size:20 final size:20
Alignment explanation
Indices: 76667911--76667958 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
76667901 AAATCCAAAT
76667911 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
* * *
76667931 TAAACTCCTGAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
76667951 TAAGAATA
1 TAA-AATA
76667959 TTAATGTGGC
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.25
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:76671493 original size:40 final size:40
Alignment explanation
Indices: 76671438--76671657 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
76671428 TATTCGGATG
* * *
76671438 ATATCCAGGCTAAGTCCCAAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
76671478 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
76671518 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
76671558 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
76671598 ATAT-CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
76671637 AT-TCC-GGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
76671658 TACTTGGGTT
Statistics
Matches: 169, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
38 15 0.09
39 33 0.20
40 121 0.72
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:76679424 original size:40 final size:40
Alignment explanation
Indices: 76679369--76679588 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
76679359 TATTCGGATG
*
76679369 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
76679409 ATATCCGGGCTAAGT-CCGAAGGC-TTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
76679447 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
76679487 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
76679527 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
76679567 ATATCC-GGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
76679589 TACTTGGGTT
Statistics
Matches: 171, Mismatches: 6, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
38 29 0.17
39 30 0.18
40 110 0.64
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:76681955 original size:20 final size:21
Alignment explanation
Indices: 76681926--76681969 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
76681916 ACATATAAAG
*
76681926 AAAAACTTATAAT-TATTTTT
1 AAAAACTTATAATGAATTTTT
* *
76681946 AAAAATTTATTATGAATTTTT
1 AAAAACTTATAATGAATTTTT
76681967 AAA
1 AAA
76681970 GTCAGAACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
AAAAACTTATAATGAATTTTT
Found at i:76682954 original size:47 final size:49
Alignment explanation
Indices: 76682835--76683010 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 49
76682825 AACCTGCCCC
* *
76682835 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-GTTCACATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACATCCA
**
76682881 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACATCCA
* * * *
76682929 TCA-CGAACTCGGACTCAACTCAACGAGTTC--A-GACATTTGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
*
76682974 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
76683011 TCAACCATCC
Statistics
Matches: 109, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 3 0.03
46 57 0.52
47 26 0.24
48 4 0.04
49 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
Found at i:76682955 original size:93 final size:93
Alignment explanation
Indices: 76682840--76683010 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
76682830 GCCCCTAAGT
* * *
76682840 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
76682905 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* ** *
76682933 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
76682998 CGAGTTCGGATGC
66 CGAGTTCGGATGC
76683011 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:76683464 original size:30 final size:30
Alignment explanation
Indices: 76683430--76683489 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
76683420 ATTTAATACG
76683430 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
76683460 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
76683490 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:76692277 original size:16 final size:15
Alignment explanation
Indices: 76692245--76692288 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
76692235 TGGTAATAAC
76692245 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
76692261 TTATTATAATATATAT
1 TAATTATAAT-TATAT
*
76692277 TAATTATTATTA
1 TAATTATAATTA
76692289 ACTTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:76692288 original size:22 final size:22
Alignment explanation
Indices: 76692245--76692286 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
76692235 TGGTAATAAC
76692245 TAATATATAATTATATTTATTA
1 TAATATATAATTATATTTATTA
76692267 TAATATAT-ATTA-A-TTATTA
1 TAATATATAATTATATTTATTA
76692286 T
1 T
76692287 TAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATATATAATTATATTTATTA
Found at i:76693350 original size:29 final size:29
Alignment explanation
Indices: 76693317--76693374 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
76693307 ATGACCTAGG
76693317 GCAGATGAAGAGTTAGTTCATGAATTTTA
1 GCAGATGAAGAGTTAGTTCATGAATTTTA
76693346 GCAGATGAAGAGTTAGTTCATGAATTTTA
1 GCAGATGAAGAGTTAGTTCATGAATTTTA
76693375 TGTGAATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.34
Consensus pattern (29 bp):
GCAGATGAAGAGTTAGTTCATGAATTTTA
Found at i:76695705 original size:18 final size:18
Alignment explanation
Indices: 76695679--76695719 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
76695669 CATAATTTTG
*
76695679 GGAAGAATGTTTTCTAAA
1 GGAATAATGTTTTCTAAA
*
76695697 GGAATAATGTTTTCTGAA
1 GGAATAATGTTTTCTAAA
76695715 GGAAT
1 GGAAT
76695720 TTTTCAAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (18 bp):
GGAATAATGTTTTCTAAA
Found at i:76699631 original size:25 final size:25
Alignment explanation
Indices: 76699597--76699645 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
76699587 TCTTAAAATA
76699597 AAAAAAAATTAATTACCATTTGAAT
1 AAAAAAAATTAATTACCATTTGAAT
76699622 AAAAAAAATTAATTACCATTTGAA
1 AAAAAAAATTAATTACCATTTGAA
76699646 CTAAGTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.57, C:0.08, G:0.04, T:0.31
Consensus pattern (25 bp):
AAAAAAAATTAATTACCATTTGAAT
Found at i:76699929 original size:18 final size:18
Alignment explanation
Indices: 76699903--76699948 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
76699893 AATATATAGA
*
76699903 ATAACATTTGCATAAAGT
1 ATAAAATTTGCATAAAGT
*
76699921 ATAAAATTTTGTATAAAGT
1 ATAAAA-TTTGCATAAAGT
*
76699940 ATGAAATTT
1 ATAAAATTT
76699949 ATACATTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (18 bp):
ATAAAATTTGCATAAAGT
Found at i:76699936 original size:19 final size:19
Alignment explanation
Indices: 76699909--76699948 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
76699899 TAGAATAACA
76699909 TTTGCATAAAGTATAAAAT
1 TTTGCATAAAGTATAAAAT
* *
76699928 TTTGTATAAAGTATGAAAT
1 TTTGCATAAAGTATAAAAT
76699947 TT
1 TT
76699949 ATACATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (19 bp):
TTTGCATAAAGTATAAAAT
Found at i:76704921 original size:46 final size:45
Alignment explanation
Indices: 76704871--76705046 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
76704861 TGGTTGAGCA
76704871 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * * *
76704917 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGACGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
76704964 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
76705010 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
76705047 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:76705027 original size:93 final size:93
Alignment explanation
Indices: 76704868--76705038 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
76704858 GGATGGTTGA
* *
76704868 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
76704933 TGAGTCCGAGTTCGAGAGACGTAACTAG
66 TGAGTCCGAGTTCGAGAGACGTAACTAG
* *
76704961 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
76705026 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
76705039 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGACGTAACTAG
Found at i:76709566 original size:40 final size:40
Alignment explanation
Indices: 76709507--76709714 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
76709497 CAATTGAATG
* * * *
76709507 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
76709547 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * * **
76709587 ACATCCGGGCTAAGACCTGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
76709627 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
76709667 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
76709707 ATATCCGG
1 ATATCCGG
76709715 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 28, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
39 2 0.01
40 134 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:76709650 original size:80 final size:80
Alignment explanation
Indices: 76709509--76709714 Score: 218
Period size: 80 Copynumber: 2.6 Consensus size: 80
76709499 ATTGAATGAT
* * ** * ** * *
76709509 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGG-CAT
*
76709573 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
76709589 ATCCGGGCTAAGACCTGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCATT
** *
76709654 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
76709669 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGG
76709715 TTGTATTCCG
Statistics
Matches: 105, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
79 2 0.02
80 101 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:76717487 original size:28 final size:26
Alignment explanation
Indices: 76717450--76717502 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
76717440 TCACTAAAGT
76717450 TTTGACGAGCTAAGGGTTCACTAGTCTA
1 TTTGACGAGCT--GGGTTCACTAGTCTA
* *
76717478 TTTGGCGAGCTGGGTTCGCTAGTCT
1 TTTGACGAGCTGGGTTCACTAGTCT
76717503 GTGTGGTGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 13 0.57
28 10 0.43
ACGTcount: A:0.17, C:0.19, G:0.30, T:0.34
Consensus pattern (26 bp):
TTTGACGAGCTGGGTTCACTAGTCTA
Found at i:76717516 original size:26 final size:26
Alignment explanation
Indices: 76717463--76717519 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
76717453 GACGAGCTAA
* *
76717463 GGGTTCACTAGTCTATTTGGCGAGCT
1 GGGTTCACTAGTCTATGTGGCGACCT
* * *
76717489 GGGTTCGCTAGTCTGTGTGGTGACCT
1 GGGTTCACTAGTCTATGTGGCGACCT
76717515 GGGTT
1 GGGTT
76717520 GGCCAGGTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.11, C:0.18, G:0.37, T:0.35
Consensus pattern (26 bp):
GGGTTCACTAGTCTATGTGGCGACCT
Found at i:76727864 original size:28 final size:28
Alignment explanation
Indices: 76727833--76727888 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
76727823 AAACAAATGT
76727833 TTTAGCTCT-ACTTTATGCGAGCTCTCTA
1 TTTAGCTCTGA-TTTATGCGAGCTCTCTA
* *
76727861 TTTAGCTCTGATTTGTGCGAGCTTTCTA
1 TTTAGCTCTGATTTATGCGAGCTCTCTA
76727889 CCTGTGTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (28 bp):
TTTAGCTCTGATTTATGCGAGCTCTCTA
Found at i:76728236 original size:14 final size:14
Alignment explanation
Indices: 76728217--76728243 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
76728207 TGCGAGTTCC
76728217 TTTTAAAAGAAAGT
1 TTTTAAAAGAAAGT
76728231 TTTTAAAAGAAAG
1 TTTTAAAAGAAAG
76728244 GATTTCTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (14 bp):
TTTTAAAAGAAAGT
Found at i:76729970 original size:45 final size:45
Alignment explanation
Indices: 76729921--76730091 Score: 245
Period size: 45 Copynumber: 3.8 Consensus size: 45
76729911 TACTAGAAAC
*
76729921 GAGTAAGACCATGACTAAAAGACGTTATGGCATTACTATTCTATA
1 GAGTAAGACCATGACTAAAAGACGTTATGGCATCACTATTCTATA
* * * *
76729966 GAGTAAGACCATGACTGAAAGATGTTATGGTATCACTATTCTATC
1 GAGTAAGACCATGACTAAAAGACGTTATGGCATCACTATTCTATA
* * *
76730011 GAGTAAGACCATGACTAAAAGACATTATGGCATCACGATTCTATT
1 GAGTAAGACCATGACTAAAAGACGTTATGGCATCACTATTCTATA
*
76730056 GAGTAAGACCAT-AGCTAAAAGACGCTATGGCATCAC
1 GAGTAAGACCATGA-CTAAAAGACGTTATGGCATCAC
76730092 GAATCAAAGG
Statistics
Matches: 112, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
44 1 0.01
45 111 0.99
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (45 bp):
GAGTAAGACCATGACTAAAAGACGTTATGGCATCACTATTCTATA
Found at i:76730108 original size:45 final size:44
Alignment explanation
Indices: 76730014--76730183 Score: 126
Period size: 45 Copynumber: 3.7 Consensus size: 44
76730004 TTCTATCGAG
* * * ** *
76730014 TAAGACCATGACTAAAAGACATTATGGCATCACGATTCTATTGAG
1 TAAGACCATG-CTAAAAGACACTATGGCATCACGAATCAAAGGAA
*
76730059 TAAGACCATAGCTAAAAGACGCTATGGCATCACGAATCAAAGGAA
1 TAAGACCAT-GCTAAAAGACACTATGGCATCACGAATCAAAGGAA
* * * * *
76730104 TAAGACTATGGTTGAAAGACACTATGGCAACTCGACGGAA-AAAATGAA
1 TAAGACCAT-GCTAAAAGACACTATGGC-A-TC-AC-GAATCAAAGGAA
* * *
76730152 TAAGACCATGATTGAAAGACACTGTGGCATCA
1 TAAGACCATG-CTAAAAGACACTATGGCATCA
76730184 AGACGAGAAT
Statistics
Matches: 103, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
45 60 0.58
46 4 0.04
47 4 0.04
48 32 0.31
49 3 0.03
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.21
Consensus pattern (44 bp):
TAAGACCATGCTAAAAGACACTATGGCATCACGAATCAAAGGAA
Found at i:76730108 original size:90 final size:90
Alignment explanation
Indices: 76729917--76730132 Score: 236
Period size: 90 Copynumber: 2.4 Consensus size: 90
76729907 ACCATACTAG
* * * *
76729917 AAACGAGTAAGACCATGACTAAAAGACGTTATGGCATTACTATTCTATAGAGTAAGACCATGACT
1 AAACGAATAAGACCATGACTAAAAGACATTATGGCATCACGATTCTATAGAGTAAGACCATGACT
* * * * * *
76729982 GAAAGATGTTATGGTATCACTATTC
66 AAAAGACGCTATGGCATCACGAATC
* * * *
76730007 TATCGAGTAAGACCATGACTAAAAGACATTATGGCATCACGATTCTATTGAGTAAGACCAT-AGC
1 AAACGAATAAGACCATGACTAAAAGACATTATGGCATCACGATTCTATAGAGTAAGACCATGA-C
76730071 TAAAAGACGCTATGGCATCACGAATC
65 TAAAAGACGCTATGGCATCACGAATC
* * ** * *
76730097 AAAGGAATAAGACTATGGTTGAAAGACACTATGGCA
1 AAACGAATAAGACCATGACTAAAAGACATTATGGCA
76730133 ACTCGACGGA
Statistics
Matches: 104, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
89 1 0.01
90 103 0.99
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.25
Consensus pattern (90 bp):
AAACGAATAAGACCATGACTAAAAGACATTATGGCATCACGATTCTATAGAGTAAGACCATGACT
AAAAGACGCTATGGCATCACGAATC
Found at i:76730212 original size:45 final size:47
Alignment explanation
Indices: 76730102--76730218 Score: 139
Period size: 48 Copynumber: 2.5 Consensus size: 47
76730092 GAATCAAAGG
* ** *
76730102 AATAAGACTATGGTTGAAAGACACTATGGCAACTCGACGGAAAAAATG
1 AATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGG-AAAAATA
* * * *
76730150 AATAAGACCATGATTGAAAGACACTGTGGCATCAAGAC-G-AGAATA
1 AATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGGAAAAATA
76730195 AATAAGACCATGGTTGAAAGACAC
1 AATAAGACCATGGTTGAAAGACAC
76730219 CATGTCATAT
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
45 27 0.45
47 1 0.02
48 32 0.53
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.18
Consensus pattern (47 bp):
AATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGGAAAAATA
Found at i:76732299 original size:40 final size:40
Alignment explanation
Indices: 76732254--76732420 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
76732244 CGGAATATAA
76732254 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
76732294 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
76732334 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
76732374 CCGGATATAATTC-C-AGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAA-TCACTAGCACAAATGCCTTCGGG-TCTTAGC
76732413 CCGGATAT
1 CCGGATAT
76732421 CATTCAATTT
Statistics
Matches: 104, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
39 29 0.28
40 74 0.71
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:76739747 original size:40 final size:40
Alignment explanation
Indices: 76739702--76739869 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
76739692 CGGAATATAA
76739702 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
76739742 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
76739782 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
76739822 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
76739862 CCGGATAT
1 CCGGATAT
76739870 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:76739852 original size:80 final size:80
Alignment explanation
Indices: 76739718--76739867 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
76739708 ATAATCACGT
*
76739718 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
76739782 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
76739798 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
76739861 CCCGGAT
64 CCCGGAT
76739868 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:76741802 original size:52 final size:52
Alignment explanation
Indices: 76741745--76741850 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
76741735 GATTTTGAGT
76741745 AAAAATGCAAAATAGGGATTTATTTGTGAAAATGTGTGGTTAAATGCATGAA
1 AAAAATGCAAAATAGGGATTTATTTGTGAAAATGTGTGGTTAAATGCATGAA
*
76741797 AAAAATGCAAAATAGGGATTTATTTGTGAAAATGTGTGGTTAAATGTATGAA
1 AAAAATGCAAAATAGGGATTTATTTGTGAAAATGTGTGGTTAAATGCATGAA
76741849 AA
1 AA
76741851 GTTGATAAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.31
Consensus pattern (52 bp):
AAAAATGCAAAATAGGGATTTATTTGTGAAAATGTGTGGTTAAATGCATGAA
Found at i:76743562 original size:43 final size:43
Alignment explanation
Indices: 76743514--76743657 Score: 173
Period size: 43 Copynumber: 3.3 Consensus size: 43
76743504 GAGATGAGAC
* * * **
76743514 TACATGTAAGATCATGTTTGGGACATTGGTATCGGTATATGAT
1 TACATGTAAGACCATGTCTGGGACATTGGCATCAATATATGAT
* * *
76743557 TACATGTAAGACCATCTCTGGGACATTGGCAT-TATCATATAAT
1 TACATGTAAGACCATGTCTGGGACATTGGCATCAAT-ATATGAT
* *
76743600 TTCATGTAAGACCATGTCTGGGACATTGGCATCAATATGTGAT
1 TACATGTAAGACCATGTCTGGGACATTGGCATCAATATATGAT
*
76743643 AACATGTAAGACCAT
1 TACATGTAAGACCAT
76743658 ACCTGGGATA
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
42 1 0.01
43 82 0.96
44 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (43 bp):
TACATGTAAGACCATGTCTGGGACATTGGCATCAATATATGAT
Done.