Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 46 of 172
Found at i:12193251 original size:23 final size:24
Alignment explanation
Indices: 12193198--12193256 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 24
12193188 ATGGTATTTT
12193198 AATTTTAATAAAATATTTAAATTA
1 AATTTTAATAAAATATTTAAATTA
*
12193222 ACA--TTAATTAAAT-TTTAAATTA
1 A-ATTTTAATAAAATATTTAAATTA
12193244 AATTTTAA-AAAAT
1 AATTTTAATAAAAT
12193257 TCTCTTTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
21 1 0.03
22 14 0.47
23 13 0.43
24 1 0.03
25 1 0.03
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
AATTTTAATAAAATATTTAAATTA
Found at i:12195637 original size:42 final size:43
Alignment explanation
Indices: 12195535--12195682 Score: 176
Period size: 42 Copynumber: 3.4 Consensus size: 43
12195525 AATGTGATAT
** *
12195535 CGTGTAAGACCACGTCTGGGATGTTGGCATCGATTTGA-GATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATAT-ATGA-TTA
*
12195579 CGTGTAAGACCATGTCTGGGACATTGGCATC-ATATATGATTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATATGATTA
* * *
12195621 CGTGTAAGACC-CTGTCTGGGACAATGGCATCGTTATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATATGATTA
*
12195664 CATGTAAGACCACGTCTGG
1 CGTGTAAGACCACGTCTGG
12195683 AACGTTGACA
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
42 32 0.35
43 30 0.33
44 29 0.32
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATATATGATTA
Found at i:12198905 original size:40 final size:40
Alignment explanation
Indices: 12198839--12198936 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 40
12198829 GGATTAATTC
* * **
12198839 GATGAGGCACTAGGTGCC-AA-T-TTACTTCGGTTTAGCA
1 GATGAGACACTGGGTGCCAAATTATTACTTCGAATTAGCA
* * *
12198876 GATGAGACACTGGGTGTCAAATTATTACTTCGAATTATCC
1 GATGAGACACTGGGTGCCAAATTATTACTTCGAATTAGCA
*
12198916 GATGAGGCACTGGGTGCCAAA
1 GATGAGACACTGGGTGCCAAA
12198937 CTGGCGTGTT
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
37 15 0.31
38 2 0.04
39 1 0.02
40 31 0.63
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (40 bp):
GATGAGACACTGGGTGCCAAATTATTACTTCGAATTAGCA
Found at i:12201192 original size:13 final size:13
Alignment explanation
Indices: 12201174--12201201 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
12201164 TGAATGATGT
12201174 TTTGATAATATAA
1 TTTGATAATATAA
12201187 TTTGATAATATAA
1 TTTGATAATATAA
12201200 TT
1 TT
12201202 GCAGTACCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (13 bp):
TTTGATAATATAA
Found at i:12214053 original size:7 final size:7
Alignment explanation
Indices: 12214041--12214066 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
12214031 TCTAAAATGG
12214041 ATGCTGT
1 ATGCTGT
12214048 ATGCTGT
1 ATGCTGT
12214055 ATGCTGT
1 ATGCTGT
12214062 ATGCT
1 ATGCT
12214067 TTTGCAGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.15, G:0.27, T:0.42
Consensus pattern (7 bp):
ATGCTGT
Found at i:12218042 original size:43 final size:43
Alignment explanation
Indices: 12217976--12218198 Score: 168
Period size: 43 Copynumber: 5.2 Consensus size: 43
12217966 GCGGCGTAGT
*
12217976 GCCGTTAAAGAACATGACCTTTAGCGACG-TTTTACCCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGACGCTTTTA-CCACAAAC
* * * *
12218019 GCCGCTAAAGAACGTGATCTTTAGCGGCGCTTTTATCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGACGCTTTTACCACAAAC
* * * * * ** *
12218062 ACTGCTAAAGGACATGACATTTAGTGGTGCTTTTATCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGACGCTTTTACCACAAAC
** * * * *
12218105 GCCATTAAAGAGA-ATAACCTTTAGTGGCGCTTTTATCACAAAC
1 GCCGCTAAAGA-ACATGACCTTTAGCGACGCTTTTACCACAAAC
* * **
12218148 GCCGCTATAGATA-ATGACTTTTAGCG--GCTTTTTTTCACAAAC
1 GCCGCTAAAGA-ACATGACCTTTAGCGACGC-TTTTACCACAAAC
12218190 GCCGCTAAA
1 GCCGCTAAA
12218199 AGTACCATTC
Statistics
Matches: 147, Mismatches: 30, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
41 2 0.01
42 20 0.14
43 119 0.81
44 6 0.04
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAGCGACGCTTTTACCACAAAC
Found at i:12218102 original size:86 final size:85
Alignment explanation
Indices: 12217981--12218198 Score: 201
Period size: 86 Copynumber: 2.5 Consensus size: 85
12217971 GTAGTGCCGT
* * * * * * *
12217981 TAAAGA-ACATGACCTTTAGCGACGTTTTACCCACAAACGCCGCTAAAGA-ACGTGATCTTTAGC
1 TAAAGATA-ATGACATTTAGCGGCTTTTTA-TCACAAACGCCGCTAAAGAGA-ATAACCTTTAGC
*
12218044 GGCGCTTTTATCACAAACACTGC
63 GGCGCTTTTATCACAAACACCGC
* * ** *
12218067 TAAAGGA-CATGACATTTAGTGG-TGCTTTTATCACAAACGCCATTAAAGAGAATAACCTTTAGT
1 TAAA-GATAATGACATTTAGCGGCT--TTTTATCACAAACGCCGCTAAAGAGAATAACCTTTAGC
*
12218130 GGCGCTTTTATCACAAACGCCGC
63 GGCGCTTTTATCACAAACACCGC
* * *
12218153 TATAGATAATGACTTTTAGCGGCTTTTTTTCACAAACGCCGCTAAA
1 TAAAGATAATGACATTTAGCGGCTTTTTATCACAAACGCCGCTAAA
12218199 AGTACCATTC
Statistics
Matches: 105, Mismatches: 21, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
85 21 0.20
86 75 0.71
87 9 0.09
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (85 bp):
TAAAGATAATGACATTTAGCGGCTTTTTATCACAAACGCCGCTAAAGAGAATAACCTTTAGCGGC
GCTTTTATCACAAACACCGC
Found at i:12222224 original size:20 final size:20
Alignment explanation
Indices: 12222157--12222224 Score: 52
Period size: 20 Copynumber: 3.5 Consensus size: 20
12222147 ATTTAAATAC
12222157 ATAATTTTTGAAAAT--TT-G
1 ATAATTTTT-AAAATAATTAG
*
12222175 AGTAATATTTAAAATAATTAG
1 A-TAATTTTTAAAATAATTAG
* ** *
12222196 ATAAATTTTAAAATTTTTAT
1 ATAATTTTTAAAATAATTAG
12222216 ATAATTTTT
1 ATAATTTTT
12222225 TATGTAAGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
18 6 0.15
19 7 0.18
20 24 0.62
21 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (20 bp):
ATAATTTTTAAAATAATTAG
Found at i:12222699 original size:7 final size:7
Alignment explanation
Indices: 12222689--12222812 Score: 76
Period size: 7 Copynumber: 17.7 Consensus size: 7
12222679 CCCTAAACAT
12222689 TAAACCA
1 TAAACCA
*
12222696 TAAACCC
1 TAAACCA
* *
12222703 TAAGCCCC
1 TAA-ACCA
12222711 TAAACCA
1 TAAACCA
12222718 TAAACCA
1 TAAACCA
**
12222725 TAAACTT
1 TAAACCA
12222732 TAAA-CA
1 TAAACCA
* *
12222738 CTAAGCCC
1 -TAAACCA
12222746 TAAACCA
1 TAAACCA
*
12222753 TAAACCC
1 TAAACCA
* *
12222760 TAACCCT
1 TAAACCA
12222767 TAAACGC-
1 TAAAC-CA
12222774 TAAA-CA
1 TAAACCA
12222780 CTAAACCA
1 -TAAACCA
12222788 TAAACC-
1 TAAACCA
* *
12222794 TACACCC
1 TAAACCA
12222801 TAAACCA
1 TAAACCA
12222808 TAAAC
1 TAAAC
12222813 ACTAAATTCT
Statistics
Matches: 90, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
5 1 0.01
6 5 0.06
7 74 0.82
8 10 0.11
ACGTcount: A:0.47, C:0.34, G:0.02, T:0.17
Consensus pattern (7 bp):
TAAACCA
Found at i:12222703 original size:21 final size:21
Alignment explanation
Indices: 12222678--12222771 Score: 68
Period size: 21 Copynumber: 4.4 Consensus size: 21
12222668 TTAAAATTAG
12222678 ACCCTAAACATTAAACCATAA
1 ACCCTAAACATTAAACCATAA
* **
12222699 ACCCTAAGCCCCTAAACCATAA
1 ACCCTAA-ACATTAAACCATAA
* *
12222721 ACCATAAACTTTAAA-CACTAA
1 ACCCTAAACATTAAACCA-TAA
* *
12222742 GCCCTAAACCA-TAAACCCT-A
1 ACCCTAAA-CATTAAACCATAA
12222762 ACCCTTAAAC
1 ACCC-TAAAC
12222772 GCTAAACACT
Statistics
Matches: 56, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
20 7 0.12
21 30 0.54
22 19 0.34
ACGTcount: A:0.46, C:0.34, G:0.02, T:0.18
Consensus pattern (21 bp):
ACCCTAAACATTAAACCATAA
Found at i:12222749 original size:14 final size:13
Alignment explanation
Indices: 12222689--12222873 Score: 102
Period size: 14 Copynumber: 13.3 Consensus size: 13
12222679 CCCTAAACAT
12222689 TAAACCATAAACCC
1 TAAACC-TAAACCC
* *
12222703 TAAGCCCCTAAACCA
1 TAA--ACCTAAACCC
**
12222718 TAAACCATAAACTT
1 TAAACC-TAAACCC
*
12222732 TAAACACTAAGCCC
1 TAAAC-CTAAACCC
12222746 TAAACCATAAACCC
1 TAAACC-TAAACCC
* *
12222760 TAACCCTTAAACGC
1 TAAACC-TAAACCC
*
12222774 TAAACACTAAACCA
1 TAAAC-CTAAACCC
*
12222788 TAAACCTACACCC
1 TAAACCTAAACCC
*
12222801 TAAACCATAAACAC
1 TAAACC-TAAACCC
* * *
12222815 TAAATTCTTAACAC
1 TAAA-CCTAAACCC
*
12222829 TAAATCATAAACCC
1 TAAA-CCTAAACCC
*
12222843 CAAACCTTAAA-CC
1 TAAACC-TAAACCC
*
12222856 TACACCCTAAACCC
1 TA-AACCTAAACCC
12222870 TAAA
1 TAAA
12222874 TATATATTAC
Statistics
Matches: 130, Mismatches: 30, Indels: 23
0.71 0.16 0.13
Matches are distributed among these distances:
13 24 0.18
14 92 0.71
15 12 0.09
16 2 0.02
ACGTcount: A:0.46, C:0.34, G:0.02, T:0.18
Consensus pattern (13 bp):
TAAACCTAAACCC
Found at i:12222754 original size:35 final size:35
Alignment explanation
Indices: 12222689--12222793 Score: 129
Period size: 35 Copynumber: 3.0 Consensus size: 35
12222679 CCCTAAACAT
* *
12222689 TAAACCATAAACCCTAAGCCCCTAAACCATAAACCA
1 TAAACCTTAAACACTAAG-CCCTAAACCATAAACCA
* *
12222725 TAAACTTTAAACACTAAGCCCTAAACCATAAACCC
1 TAAACCTTAAACACTAAGCCCTAAACCATAAACCA
* * * *
12222760 TAACCCTTAAACGCTAAACACTAAACCATAAACC
1 TAAACCTTAAACACTAAGCCCTAAACCATAAACC
12222794 TACACCCTAA
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
35 45 0.75
36 15 0.25
ACGTcount: A:0.47, C:0.33, G:0.03, T:0.17
Consensus pattern (35 bp):
TAAACCTTAAACACTAAGCCCTAAACCATAAACCA
Found at i:12222801 original size:35 final size:33
Alignment explanation
Indices: 12222710--12222818 Score: 121
Period size: 35 Copynumber: 3.2 Consensus size: 33
12222700 CCCTAAGCCC
* * * *
12222710 CTAAACCATAAACCATAAACTTTAAACACTAAGCC
1 CTAAACCATAAACC-TAACCCTTAAAC-CTAAACA
12222745 CTAAACCATAAACCCTAACCCTTAAACGCTAAACA
1 CTAAACCATAAA-CCTAACCCTTAAAC-CTAAACA
12222780 CTAAACCATAAACCTACACCC-TAAACCATAAACA
1 CTAAACCATAAACCTA-ACCCTTAAACC-TAAACA
12222814 CTAAA
1 CTAAA
12222819 TTCTTAACAC
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
33 1 0.02
34 20 0.30
35 43 0.65
36 2 0.03
ACGTcount: A:0.49, C:0.32, G:0.02, T:0.17
Consensus pattern (33 bp):
CTAAACCATAAACCTAACCCTTAAACCTAAACA
Found at i:12222818 original size:7 final size:6
Alignment explanation
Indices: 12222709--12222873 Score: 60
Period size: 7 Copynumber: 24.0 Consensus size: 6
12222699 ACCCTAAGCC
* *
12222709 CCTAAA CCATAAA CCATAAA CTTTAAA CACTAAGC CCTAAA CCATAAA
1 CCTAAA CC-TAAA CC-TAAA C-CTAAA C-CTAA-A CCTAAA CC-TAAA
* *
12222757 CCCTAAC CCTTAAA CGCTAAA CACTAAA CCATAAA CCTACAC CCTAAA
1 -CCTAAA CC-TAAA C-CTAAA C-CTAAA CC-TAAA CCTA-AA CCTAAA
* * * *
12222805 CCATAAA CACTAAA TTCTTAA CACTAAA TCATAAA CCCCAAA CCTTAAA
1 CC-TAAA C-CTAAA -CCTAAA C-CTAAA -CCTAAA -CCTAAA CC-TAAA
*
12222854 CCTACAC CCTAAA CCCTAAA
1 CCTA-AA CCTAAA -CCTAAA
12222874 TATATATTAC
Statistics
Matches: 121, Mismatches: 21, Indels: 33
0.69 0.12 0.19
Matches are distributed among these distances:
6 17 0.14
7 98 0.81
8 6 0.05
ACGTcount: A:0.47, C:0.33, G:0.01, T:0.19
Consensus pattern (6 bp):
CCTAAA
Found at i:12222848 original size:55 final size:55
Alignment explanation
Indices: 12222743--12222849 Score: 128
Period size: 55 Copynumber: 1.9 Consensus size: 55
12222733 AAACACTAAG
* * *
12222743 CCCTAAACCATAAACCCTAACCCTTAAACGCTAAACACTAAACCATAAACCTACA
1 CCCTAAACCATAAACACTAACCCTTAAACACTAAACACTAAACCACAAACCTACA
** *
12222798 CCCTAAACCATAAACACTAAATTCTT-AACACTAAATCA-TAAACCCCAAACCT
1 CCCTAAACCATAAACACT-AACCCTTAAACACTAAA-CACTAAACCACAAACCT
12222850 TAAACCTACA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
55 37 0.84
56 7 0.16
ACGTcount: A:0.46, C:0.35, G:0.01, T:0.19
Consensus pattern (55 bp):
CCCTAAACCATAAACACTAACCCTTAAACACTAAACACTAAACCACAAACCTACA
Found at i:12223147 original size:14 final size:14
Alignment explanation
Indices: 12223128--12223168 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
12223118 TCCTAAACCC
12223128 TTAAACCATAAACA
1 TTAAACCATAAACA
* *
12223142 TTAAACCTTAAATA
1 TTAAACCATAAACA
*
12223156 TTAAACCCTAAAC
1 TTAAACCATAAAC
12223169 CCTAAAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (14 bp):
TTAAACCATAAACA
Found at i:12223516 original size:116 final size:118
Alignment explanation
Indices: 12223310--12223536 Score: 332
Period size: 116 Copynumber: 1.9 Consensus size: 118
12223300 TATAGCGGCG
** * ** * *
12223310 TTTTTCAACAAGCGCCACTAATTCTCAATCTATTACGGCTTTTTTTTAAGAAGTGCTGTTAATGC
1 TTTTTCAACAAGCGCCACTAATTCTCAATCTATTACGGCTGCTTTTTAAAAAACGCCGCTAATGC
12223375 CACTAAAGCTCAACAACAAAAGACGTCGTTTTGCTCAACTTTTTTGCGGTGTT
66 CACTAAAGCTCAACAACAAAAGACGTCGTTTTGCTCAACTTTTTTGCGGTGTT
* * * *
12223428 TTTTTGAA-AAGCGCCGCTAATTCTCAATCTATTGCGGC-GCTTTTTAAAAAACGCCGCTAATGT
1 TTTTTCAACAAGCGCCACTAATTCTCAATCTATTACGGCTGCTTTTTAAAAAACGCCGCTAATGC
*
12223491 CACTAAAGCTCAACAACAAACGACGTCGTTTTGCTCAACTTTTTTG
66 CACTAAAGCTCAACAACAAAAGACGTCGTTTTGCTCAACTTTTTTG
12223537 TGGCATTTTC
Statistics
Matches: 97, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
116 62 0.64
117 28 0.29
118 7 0.07
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.34
Consensus pattern (118 bp):
TTTTTCAACAAGCGCCACTAATTCTCAATCTATTACGGCTGCTTTTTAAAAAACGCCGCTAATGC
CACTAAAGCTCAACAACAAAAGACGTCGTTTTGCTCAACTTTTTTGCGGTGTT
Found at i:12223642 original size:155 final size:152
Alignment explanation
Indices: 12223440--12223736 Score: 432
Period size: 155 Copynumber: 1.9 Consensus size: 152
12223430 TTTGAAAAGC
* *
12223440 GCCGCTAATTCTCAATCTATTGCGGCGCTTTTTAAAAAACGCCGCTAATGTCACTAAAGCTCAAC
1 GCCGCTAATGCTCAATCTATTGCGGCGCTTTTTAAAAAACGCCGCTAATGCCACTAAAGCTCAAC
12223505 AACAAACGACGTCGTTTTGCTCAACTTTTTTGTGGCATTTTCCAAAAAGCGCAACTAATGCTCGA
66 AACAAACGACGT-GTTTTGCTCAA--TTTTTGTGGCATTTTCCAAAAAGCGCAACTAATGCTCGA
* *
12223570 TCTATAGCGGTGTTTCTCAAATATT
128 TCTATAACGATGTTTCTCAAATATT
* * * *
12223595 GCCGCTAATGCTCGATCTATTGTGGCGCTTTTTAAAAAGCGCTGCTAATGCCACTAAAGCTCAAC
1 GCCGCTAATGCTCAATCTATTGCGGCGCTTTTTAAAAAACGCCGCTAATGCCACTAAAGCTCAAC
* * * ** **
12223660 ATCAAACTACGTGTTTTGCTCAATTTTTGTGTCATTTTCTGAAAAGCGCCGCTAATGCTCGATCT
66 AACAAACGACGTGTTTTGCTCAATTTTTGTGGCATTTTCCAAAAAGCGCAACTAATGCTCGATCT
12223725 ATAACGATGTTT
131 ATAACGATGTTT
12223737 GTTTTAGAAA
Statistics
Matches: 127, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
152 47 0.37
154 11 0.09
155 69 0.54
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (152 bp):
GCCGCTAATGCTCAATCTATTGCGGCGCTTTTTAAAAAACGCCGCTAATGCCACTAAAGCTCAAC
AACAAACGACGTGTTTTGCTCAATTTTTGTGGCATTTTCCAAAAAGCGCAACTAATGCTCGATCT
ATAACGATGTTTCTCAAATATT
Found at i:12225817 original size:25 final size:25
Alignment explanation
Indices: 12225788--12225922 Score: 128
Period size: 25 Copynumber: 5.4 Consensus size: 25
12225778 TTTATGTGGT
12225788 GCTTTTGTGGCAAATTTTCTGAAAA
1 GCTTTTGTGGCAAATTTTCTGAAAA
*
12225813 ACTTTTGTGGCAAATTCTT-TGAAAA
1 GCTTTTGTGGCAAATT-TTCTGAAAA
* *
12225838 GCTTTTGTGGCGAATTCTCTGAAAA
1 GCTTTTGTGGCAAATTTTCTGAAAA
* * * * *
12225863 GCCTTTGTGACAAACTCTCTAAAAA
1 GCTTTTGTGGCAAATTTTCTGAAAA
* * * * *
12225888 GCCTTTGTGACAAACTCTCTAAAAA
1 GCTTTTGTGGCAAATTTTCTGAAAA
*
12225913 GCCTTTGTGG
1 GCTTTTGTGG
12225923 TGAATTATTC
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
24 1 0.01
25 95 0.97
26 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (25 bp):
GCTTTTGTGGCAAATTTTCTGAAAA
Found at i:12225870 original size:50 final size:50
Alignment explanation
Indices: 12225788--12225922 Score: 162
Period size: 50 Copynumber: 2.7 Consensus size: 50
12225778 TTTATGTGGT
* * * * * *
12225788 GCTTTTGTGGCAAATTTTCTGAAAAACTTTTGTGGCAAATTCTTTGAAAA
1 GCTTTTGTGGCAAATTCTCTGAAAAGCCTTTGTGGCAAACTCTCTAAAAA
* *
12225838 GCTTTTGTGGCGAATTCTCTGAAAAGCCTTTGTGACAAACTCTCTAAAAA
1 GCTTTTGTGGCAAATTCTCTGAAAAGCCTTTGTGGCAAACTCTCTAAAAA
* * * *
12225888 GCCTTTGTGACAAACTCTCTAAAAAGCCTTTGTGG
1 GCTTTTGTGGCAAATTCTCTGAAAAGCCTTTGTGG
12225923 TGAATTATTC
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (50 bp):
GCTTTTGTGGCAAATTCTCTGAAAAGCCTTTGTGGCAAACTCTCTAAAAA
Found at i:12227312 original size:4 final size:4
Alignment explanation
Indices: 12227303--12227327 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
12227293 TTTCATTTTG
12227303 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
12227328 ACCTTGATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:12227735 original size:18 final size:18
Alignment explanation
Indices: 12227709--12227751 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
12227699 AAAAGTTGTT
*
12227709 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
12227727 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
12227745 TTTATAT
1 TTTATAT
12227752 TTTAAATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:12233616 original size:19 final size:19
Alignment explanation
Indices: 12233592--12233628 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
12233582 ATTAAAAAAT
12233592 TATTTTTTAATAAATTTTA
1 TATTTTTTAATAAATTTTA
12233611 TATTTTTTAATAAATTTT
1 TATTTTTTAATAAATTTT
12233629 TAAAAGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TATTTTTTAATAAATTTTA
Found at i:12239250 original size:19 final size:19
Alignment explanation
Indices: 12239228--12239283 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 19
12239218 AATATTTGAA
12239228 AATTTAACATAAATTTTGT
1 AATTTAACATAAATTTTGT
* *
12239247 AATTTTAAC-TATATTTTTTT
1 AA-TTTAACATA-AATTTTGT
* *
12239267 TATTTAATATAAATTTT
1 AATTTAACATAAATTTT
12239284 ATTACTATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (19 bp):
AATTTAACATAAATTTTGT
Found at i:12239639 original size:3 final size:3
Alignment explanation
Indices: 12239631--12239693 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
12239621 ACCATGAAGG
12239631 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
12239679 GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA
12239694 ATAGAGCTAC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:12242416 original size:17 final size:17
Alignment explanation
Indices: 12242406--12242439 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
12242396 AAATATGAGT
12242406 TTGGGTTAAATTGAATA
1 TTGGGTTAAATTGAATA
12242423 TTGGGTTAAATTGAATA
1 TTGGGTTAAATTGAATA
12242440 ACATAAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (17 bp):
TTGGGTTAAATTGAATA
Found at i:12247669 original size:26 final size:26
Alignment explanation
Indices: 12247640--12247699 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
12247630 CCCCCAGCTT
* *
12247640 AATTTTGACGATTTTACCCTTGGTAA
1 AATTTTGACGATTTTACCCCTAGTAA
*
12247666 AATTTTGACGATTTTGCCCCTAGTAA
1 AATTTTGACGATTTTACCCCTAGTAA
12247692 AATTTTGA
1 AATTTTGA
12247700 GAAAATATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (26 bp):
AATTTTGACGATTTTACCCCTAGTAA
Found at i:12249556 original size:14 final size:14
Alignment explanation
Indices: 12249537--12249567 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
12249527 TGCATTTAAT
12249537 AAATTCAATCAAAC
1 AAATTCAATCAAAC
*
12249551 AAATTCAATCAACC
1 AAATTCAATCAAAC
12249565 AAA
1 AAA
12249568 CAGACATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATTCAATCAAAC
Found at i:12253905 original size:13 final size:13
Alignment explanation
Indices: 12253887--12253911 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12253877 TATTTTAATA
12253887 TTATTTTGTGTGT
1 TTATTTTGTGTGT
12253900 TTATTTTGTGTG
1 TTATTTTGTGTG
12253912 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:12255521 original size:41 final size:40
Alignment explanation
Indices: 12255476--12255829 Score: 457
Period size: 41 Copynumber: 8.7 Consensus size: 40
12255466 CGGACGTTAC
12255476 GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGAA-TAATTCAGACTTTAA
12255517 GTCTAGCAGGCTTAATGCCGGTG-ATACATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGAATA-A-TTCAGACTTTAA
*
12255558 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGA-ATAATTCAGACTTTAA
*
12255599 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGA-ATAATTCAGACTTTAA
12255640 GTCTAGCAGGCTTAATGCCGGTG-ATACATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGAATA-A-TTCAGACTTTAA
* *
12255681 GTCTAACAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGA-ATAATTCAGACTTTAA
* *
12255722 GTCTAGCAGGCTTAATGCCGGTG-ATACATTTCAGACTATAT
1 GTCTAGCAGGCTTAATGCCGGTGAATA-A-TTCAGACTTTAA
* *
12255763 GTCTAGCAGGC-TAAGTGCCGGTGTACTGAA-TCAGGCTTTAA
1 GTCTAGCAGGCTTAA-TGCCGGTG-AAT-AATTCAGACTTTAA
* **
12255804 GCCTAGCAGGCAAAATGCCGGTGAAT
1 GTCTAGCAGGCTTAATGCCGGTGAAT
12255830 CTGTTTAAAT
Statistics
Matches: 283, Mismatches: 15, Indels: 31
0.86 0.05 0.09
Matches are distributed among these distances:
39 8 0.03
40 7 0.02
41 257 0.91
42 2 0.01
43 8 0.03
44 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (40 bp):
GTCTAGCAGGCTTAATGCCGGTGAATAATTCAGACTTTAA
Found at i:12255576 original size:82 final size:83
Alignment explanation
Indices: 12255476--12255829 Score: 517
Period size: 82 Copynumber: 4.3 Consensus size: 83
12255466 CGGACGTTAC
12255476 GTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGT
1 GTCTAGCAGGCTTAATGCCGGTGAA-TACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGT
12255539 GATACATTTCAGACTTTAA
65 GATACATTTCAGACTTTAA
*
12255558 GTCTAGCAGGCTTAATGCCGGTG-ATATATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTGAATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
*
12255622 ATATATTTCAGACTTTAA
66 ATACATTTCAGACTTTAA
*
12255640 GTCTAGCAGGCTTAATGCCGGTG-ATACATTTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTGAATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
*
12255704 ATATATTTCAGACTTTAA
66 ATACATTTCAGACTTTAA
* *
12255722 GTCTAGCAGGCTTAATGCCGGTG-ATACATTTCAGACTATATGTCTAGCAGGC-TAAGTGCCGGT
1 GTCTAGCAGGCTTAATGCCGGTGAATACATTTCAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGT
* *
12255785 G-TAC-TGAATCAGGCTTTAA
65 GATACAT--TTCAGACTTTAA
* **
12255804 GCCTAGCAGGCAAAATGCCGGTGAAT
1 GTCTAGCAGGCTTAATGCCGGTGAAT
12255830 CTGTTTAAAT
Statistics
Matches: 254, Mismatches: 12, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
80 3 0.01
81 7 0.03
82 242 0.95
83 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (83 bp):
GTCTAGCAGGCTTAATGCCGGTGAATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
ATACATTTCAGACTTTAA
Found at i:12255695 original size:123 final size:123
Alignment explanation
Indices: 12255476--12255785 Score: 543
Period size: 123 Copynumber: 2.5 Consensus size: 123
12255466 CGGACGTTAC
*
12255476 GTCTAGCAGGCTTAATGCCGGTGA-AGTAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTGATA-TATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
*
12255540 ATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
65 ATACATTTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
12255599 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
1 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
12255664 TACATTTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
66 TACATTTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
* * *
12255722 GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTG
12255786 TACTGAATCA
Statistics
Matches: 180, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
122 3 0.02
123 176 0.98
124 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (123 bp):
GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
TACATTTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
Found at i:12255802 original size:123 final size:122
Alignment explanation
Indices: 12255476--12255827 Score: 541
Period size: 123 Copynumber: 2.9 Consensus size: 122
12255466 CGGACGTTAC
12255476 GTCTAGCAGGCTTAATGCCGGTGAAGTAA-TTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTG-A-TAATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
12255540 ATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
64 ATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
12255599 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
1 GTCTAGCAGGCTTAATGCCGGTGATA-ATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
*
12255664 TACATTTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
65 TACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
* *
12255722 GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTGATA-ATTTCAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTG
* * * **
12255786 -TAC-TGAATCAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
64 ATACAT--TTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
12255828 ATCTGTTTAA
Statistics
Matches: 214, Mismatches: 10, Indels: 10
0.91 0.04 0.04
Matches are distributed among these distances:
121 3 0.01
122 8 0.04
123 203 0.95
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (122 bp):
GTCTAGCAGGCTTAATGCCGGTGATAATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGAT
ACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
Found at i:12261704 original size:13 final size:13
Alignment explanation
Indices: 12261686--12261710 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12261676 TATTTTAATA
12261686 TTATTTTGTGTGT
1 TTATTTTGTGTGT
12261699 TTATTTTGTGTG
1 TTATTTTGTGTG
12261711 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:12263319 original size:41 final size:40
Alignment explanation
Indices: 12263274--12263627 Score: 448
Period size: 41 Copynumber: 8.7 Consensus size: 40
12263264 CGGACGTTAC
12263274 GTCTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGAA-TAATTCAGACTTTAA
12263315 GTCTAGCAGGCTTAATGCCGGTG-ATACATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGAATA-A-TTCAGACTTTAA
*
12263356 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGA-ATAATTCAGACTTTAA
*
12263397 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGA-ATAATTCAGACTTTAA
12263438 GTCTAGCAGGCTTAATGCCGGTG-ATACATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGAATA-A-TTCAGACTTTAA
** *
12263479 GTCTAATAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGA-ATAATTCAGACTTTAA
* *
12263520 GTCTAGCAGGCTTAATGCCGGTG-ATACATTTCAGACTATAT
1 GTCTAGCAGGCTTAATGCCGGTGAATA-A-TTCAGACTTTAA
* *
12263561 GTCTAGCAGGC-TAAGTGCCGGTGTACTGAA-TCAGGCTTTAA
1 GTCTAGCAGGCTTAA-TGCCGGTG-AAT-AATTCAGACTTTAA
* **
12263602 GCCTAGCAGGCAAAATGCCGGTGAAT
1 GTCTAGCAGGCTTAATGCCGGTGAAT
12263628 CTGTTTAAAT
Statistics
Matches: 281, Mismatches: 17, Indels: 31
0.85 0.05 0.09
Matches are distributed among these distances:
39 8 0.03
40 7 0.02
41 255 0.91
42 2 0.01
43 8 0.03
44 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.31
Consensus pattern (40 bp):
GTCTAGCAGGCTTAATGCCGGTGAATAATTCAGACTTTAA
Found at i:12263374 original size:82 final size:83
Alignment explanation
Indices: 12263274--12263627 Score: 508
Period size: 82 Copynumber: 4.3 Consensus size: 83
12263264 CGGACGTTAC
12263274 GTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGT
1 GTCTAGCAGGCTTAATGCCGGTGAA-TACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGT
12263337 GATACATTTCAGACTTTAA
65 GATACATTTCAGACTTTAA
*
12263356 GTCTAGCAGGCTTAATGCCGGTG-ATATATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTGAATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
*
12263420 ATATATTTCAGACTTTAA
66 ATACATTTCAGACTTTAA
**
12263438 GTCTAGCAGGCTTAATGCCGGTG-ATACATTTCAGACTTTAAGTCTAATAGGCTTAATGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTGAATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
*
12263502 ATATATTTCAGACTTTAA
66 ATACATTTCAGACTTTAA
* *
12263520 GTCTAGCAGGCTTAATGCCGGTG-ATACATTTCAGACTATATGTCTAGCAGGC-TAAGTGCCGGT
1 GTCTAGCAGGCTTAATGCCGGTGAATACATTTCAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGT
* *
12263583 G-TAC-TGAATCAGGCTTTAA
65 GATACAT--TTCAGACTTTAA
* **
12263602 GCCTAGCAGGCAAAATGCCGGTGAAT
1 GTCTAGCAGGCTTAATGCCGGTGAAT
12263628 CTGTTTAAAT
Statistics
Matches: 252, Mismatches: 14, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
80 3 0.01
81 7 0.03
82 240 0.95
83 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.31
Consensus pattern (83 bp):
GTCTAGCAGGCTTAATGCCGGTGAATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
ATACATTTCAGACTTTAA
Found at i:12263493 original size:123 final size:123
Alignment explanation
Indices: 12263274--12263583 Score: 534
Period size: 123 Copynumber: 2.5 Consensus size: 123
12263264 CGGACGTTAC
*
12263274 GTCTAGCAGGCTTAATGCCGGTGA-AGTAATTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTGATA-TATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
*
12263338 ATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
65 ATACATTTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
12263397 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
1 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
*
12263462 TACATTTCAGACTTTAAGTCTAATAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
66 TACATTTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
* * *
12263520 GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTG
12263584 TACTGAATCA
Statistics
Matches: 179, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
122 3 0.02
123 175 0.98
124 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (123 bp):
GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
TACATTTCAGACTTTAAGTCTAACAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
Found at i:12263600 original size:123 final size:122
Alignment explanation
Indices: 12263274--12263625 Score: 532
Period size: 123 Copynumber: 2.9 Consensus size: 122
12263264 CGGACGTTAC
12263274 GTCTAGCAGGCTTAATGCCGGTGAAGTAA-TTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTG-A-TAATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
12263338 ATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
64 ATACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
12263397 GTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
1 GTCTAGCAGGCTTAATGCCGGTGATA-ATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
**
12263462 TACATTTCAGACTTTAAGTCTAATAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
65 TACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
* *
12263520 GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTGATA-ATTTCAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTG
* * * **
12263584 -TAC-TGAATCAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
64 ATACAT--TTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
12263626 ATCTGTTTAA
Statistics
Matches: 212, Mismatches: 12, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
121 3 0.01
122 8 0.04
123 201 0.95
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (122 bp):
GTCTAGCAGGCTTAATGCCGGTGATAATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGAT
ACATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATATATTTCAGACTTTAA
Found at i:12276048 original size:98 final size:98
Alignment explanation
Indices: 12275879--12276075 Score: 367
Period size: 98 Copynumber: 2.0 Consensus size: 98
12275869 GTGCAATAAA
12275879 ACTTTAAAAGAACATCTACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACGATT
1 ACTTTAAAAGAACATCTACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACGATT
*
12275944 CTTCTAAAATCCCAAACTCGGAATATTTCATTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCATTT
*
12275977 ACTTTAAAAGAACATCTACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCTACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACGATT
*
12276042 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCATTT
12276075 A
1 A
12276076 TTATTTTTAG
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCTACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACGATT
CCTCTAAAATCCCAAACTCGGAATATTTCATTT
Found at i:12278591 original size:44 final size:44
Alignment explanation
Indices: 12278543--12279123 Score: 200
Period size: 44 Copynumber: 13.2 Consensus size: 44
12278533 TATCTTGGAA
* *
12278543 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * *
12278587 AGATAAGA-TCTACAATCTTCAACCTTCTCCACTGCTGCTCAGGG
1 AGATAAGATTC-GCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * * **
12278631 AGACAAGGCTT-GGTGGCTTAAATCTGCTTCCCACTA-T-CTTAGAA
1 AGATAA-GATTCGCAGTCTTCAATCTGC-T-CCACTACTGCTTAGGG
* * * *
12278675 AGATAAGATTCACCGTCTTCGATCTGTTCCACTACTGCTTAGGG
1 AGATAAGATTCGCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * *
12278719 AGATAAGA-TCTACAATCTTCAACCTTCTCCACTGCTGCTCAGGG
1 AGATAAGATTC-GCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * *
12278763 AGACAAGGCTT-G--GTGGTTCAAATCTACTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTCGCAGT-CTTC-AATCTGC-T-CCACTACTGCTTAGG-G
* *
12278807 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * *
12278851 AGATAAGA-TCTACAATATTCAACCTTCTCCACTACTGCTCAGGA
1 AGATAAGATTC-GCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * ** * *
12278895 AAACAAGGCTT-GGTGGC-TCAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTCGCAGTCTTC-AATCTGC-T-CCACTACTGCTTAGG-G
* * * *
12278939 AGATAAGATTCACCGCCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * *
12278983 AAATAAGA-TCTACAATCTTCAACCTTCTCCACTGCTGCTCAGGG
1 AGATAAGATTC-GCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * ** * *
12279027 AGACAAGGCTT-GGTGGC-TCAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTCGCAGTCTTC-AATCTGC-T-CCACTACTGCTTAGG-G
* *
12279071 AGATAAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCGCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
12279115 AGATAAGAT
1 AGATAAGAT
12279124 CACTGGTTAC
Statistics
Matches: 376, Mismatches: 115, Indels: 92
0.64 0.20 0.16
Matches are distributed among these distances:
42 25 0.07
43 41 0.11
44 258 0.69
45 25 0.07
46 27 0.07
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (44 bp):
AGATAAGATTCGCAGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:12278618 original size:132 final size:132
Alignment explanation
Indices: 12278433--12279124 Score: 1170
Period size: 132 Copynumber: 5.2 Consensus size: 132
12278423 TTTTAATCCA
** * *
12278433 CTCCACTACCACTTCAGGGAGATAAGACTAGATACAATCTTCAACCTTCTCCACTGCTGCTCAAG
1 CTCCACTACTGCTT-AGGGAGATAAGA-T--CTACAATCTTCAACCTTCTCCACTGCTGCTCAGG
12278498 GAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTC
62 GAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTC
12278563 GATCTG
127 GATCTG
12278569 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAGGGAGA
* *
12278634 CAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTAGAAAGATAAGATTCACCGTCTTCGATC
66 CAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATC
12278699 TG
131 TG
*
12278701 TTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAGGGAGA
*
12278766 CAAGGCTTGGTGG-TTCAAATCTACTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGAT
66 CAAGGCTTGGTGGCTT-AAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGAT
12278830 CTG
130 CTG
* * * *
12278833 CTCCACTACTGCTTAGGGAGATAAGATCTACAATATTCAACCTTCTCCACTACTGCTCAGGAAAA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAGGGAGA
* * *
12278898 CAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCACCGCCTTCGATC
66 CAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATC
12278963 TG
131 TG
*
12278965 CTCCACTACTGCTTAGGGAAATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAGGGAGA
* *
12279030 CAAGGCTTGGTGGCTCAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCTGTCTTCGATC
66 CAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATC
12279095 TG
131 TG
12279097 CTCCACTACTGCTTAGGGAGATAAGATC
1 CTCCACTACTGCTTAGGGAGATAAGATC
12279125 ACTGGTTACC
Statistics
Matches: 526, Mismatches: 28, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
131 2 0.00
132 498 0.95
133 1 0.00
134 1 0.00
135 12 0.02
136 12 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (132 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAGGGAGA
CAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATC
TG
Found at i:12290643 original size:98 final size:98
Alignment explanation
Indices: 12290474--12290670 Score: 376
Period size: 98 Copynumber: 2.0 Consensus size: 98
12290464 GTGCAATAAA
12290474 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
*
12290539 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCATTT
*
12290572 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCATGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
12290637 CCTCTAAAATCCCAAACTCGGAATATTTCATTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCATTT
12290670 A
1 A
12290671 TTATTTTTAG
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 97 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
CCTCTAAAATCCCAAACTCGGAATATTTCATTT
Found at i:12298239 original size:11 final size:11
Alignment explanation
Indices: 12298219--12298255 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
12298209 GACTGGGCCC
*
12298219 ATATTAAATAT
1 ATATTTAATAT
12298230 ATATTTAATAT
1 ATATTTAATAT
*
12298241 ATATATAATAT
1 ATATTTAATAT
12298252 ATAT
1 ATAT
12298256 ATTTGATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
ATATTTAATAT
Found at i:12298244 original size:13 final size:13
Alignment explanation
Indices: 12298222--12298259 Score: 55
Period size: 11 Copynumber: 3.2 Consensus size: 13
12298212 TGGGCCCATA
12298222 TTAA-ATATATAT
1 TTAATATATATAT
12298234 TTAATATATATA-
1 TTAATATATATAT
12298246 -TAATATATATAT
1 TTAATATATATAT
12298258 TT
1 TT
12298260 GATTAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
11 11 0.48
12 4 0.17
13 8 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTAATATATATAT
Found at i:12298256 original size:11 final size:11
Alignment explanation
Indices: 12298225--12298257 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
12298215 GCCCATATTA
*
12298225 AATATATATTT
1 AATATATATAT
12298236 AATATATATAT
1 AATATATATAT
12298247 AATATATATAT
1 AATATATATAT
12298258 TTGATTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AATATATATAT
Found at i:12298298 original size:24 final size:25
Alignment explanation
Indices: 12298224--12298308 Score: 102
Period size: 25 Copynumber: 3.5 Consensus size: 25
12298214 GGCCCATATT
* * * *
12298224 AAATATATATTT-AATATATATATA
1 AAATATATATTTGATTAAAAATAAA
*
12298248 ATATATATATTTGATTAAAAATAAA
1 AAATATATATTTGATTAAAAATAAA
*
12298273 AAATATATATTTGATTAAAATTAAA
1 AAATATATATTTGATTAAAAATAAA
12298298 AAA-ATATATTT
1 AAATATATATTT
12298309 AATATATAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
24 19 0.36
25 34 0.64
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
AAATATATATTTGATTAAAAATAAA
Found at i:12300424 original size:3 final size:3
Alignment explanation
Indices: 12300416--12300447 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
12300406 TTAATGTCAG
12300416 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
12300448 GTTTGTTGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:12305583 original size:21 final size:22
Alignment explanation
Indices: 12305554--12305599 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
12305544 CAAATTCCTC
12305554 TTAAAAAAAGCTTTAATTTT-TT
1 TTAAAAAAAGC-TTAATTTTATT
12305576 TTAAAAAAAGCTTAATTTTATT
1 TTAAAAAAAGCTTAATTTTATT
12305598 TT
1 TT
12305600 TTTGAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (22 bp):
TTAAAAAAAGCTTAATTTTATT
Found at i:12306735 original size:7 final size:7
Alignment explanation
Indices: 12306725--12306749 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
12306715 TTATTATTTA
12306725 GTATTAT
1 GTATTAT
12306732 GTATTAT
1 GTATTAT
12306739 GTATTAT
1 GTATTAT
12306746 GTAT
1 GTAT
12306750 ATAACTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
GTATTAT
Found at i:12307295 original size:29 final size:29
Alignment explanation
Indices: 12307244--12307312 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
12307234 ACGACGCAGA
12307244 CCCATCAACAACGCCCACACAATCACTC-GG
1 CCCATCAAC-ACGCCCACACAATCAC-CAGG
* *
12307274 CCCATCAACATGCCCATACAATCACCAGG
1 CCCATCAACACGCCCACACAATCACCAGG
*
12307303 CCCAGCAACA
1 CCCATCAACA
12307313 GCACTGACAC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 1 0.03
29 25 0.71
30 9 0.26
ACGTcount: A:0.35, C:0.45, G:0.10, T:0.10
Consensus pattern (29 bp):
CCCATCAACACGCCCACACAATCACCAGG
Found at i:12307704 original size:22 final size:21
Alignment explanation
Indices: 12307678--12307729 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
12307668 CAACAACCAG
*
12307678 ATCCCCTACCGGAGGAACCAAA
1 ATCCCC-ACCGGAGCAACCAAA
* *
12307700 ATCCCCGCCGGAGCAACCACA
1 ATCCCCACCGGAGCAACCAAA
*
12307721 ACCCCCACC
1 ATCCCCACC
12307730 AGAAGCTGGA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.31, C:0.48, G:0.15, T:0.06
Consensus pattern (21 bp):
ATCCCCACCGGAGCAACCAAA
Found at i:12311312 original size:126 final size:126
Alignment explanation
Indices: 12311078--12311368 Score: 422
Period size: 126 Copynumber: 2.3 Consensus size: 126
12311068 TCAGGCCAAA
* *
12311078 CAGGAGCTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAAAGC
1 CAGGAGCTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
** *
12311143 ATCCTGTTTAAAACGTTTTTGACACTATTTGCTTAGAAACGTCTACTCAAAATTATTTTTT
66 ATCCTACTTAAAACGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTT
* * * * * *
12311204 CAGGAGCTACTGTAGCAAAAGTGCGTCTACGTGGGAGCTTCTTTCAGTACTTTTGTTGACGATGC
1 CAGGAGCTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
* * * * *
12311269 ATTCTACTTAAAGCGTTTTTGACACTATTTTCTCAGAATCGTCTTCTCAAAATTATTTTTT
66 ATCCTACTTAAAACGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTT
*
12311330 CAGGA-CTACTGTAGTAAAAGAGCATCCACGTGGGAGCTT
1 CAGGAGCTACTGTAGCAAAAGAGCATCCACGTGGGAGCTT
12311369 TTTTAAATTA
Statistics
Matches: 146, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
125 30 0.21
126 116 0.79
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (126 bp):
CAGGAGCTACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
ATCCTACTTAAAACGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTT
Found at i:12311554 original size:96 final size:96
Alignment explanation
Indices: 12311405--12311707 Score: 396
Period size: 97 Copynumber: 3.2 Consensus size: 96
12311395 ACTAACCCTA
* *
12311405 AACCCCAAACCCTAATTTATTTGAGTTTTTCCTTAAAAACCCTAAACCCTAAACTCTAATCTAAT
1 AACCCTAAACCCTAATTTATTTGAGTTTTTCCTTAAAAACCCTAAACACTAAAC-CTAATCTAAT
12311470 TTTTTAAAAATTTATAATTAATTTACTCAAGT
65 TTTTTAAAAATTTATAATTAATTTACTCAAGT
* * *
12311502 AACCCTAAACCCGAATTTATTTGA-TTTTTCCTTAAAAACCCTTAACATTAAACCTTAATCTAAT
1 AACCCTAAACCCTAATTTATTTGAGTTTTTCCTTAAAAACCCTAAACACTAAACC-TAATCTAA-
*
12311566 TTTTTTAAAAATTTTTAATTAATTTACTCAAGT
64 TTTTTTAAAAATTTATAATTAATTTACTCAAGT
* * * * * * *
12311599 AACCCTAAACCCTAATTTAATTAATTTTTTCTTTAAAAACCATAAACACAAAACCTAATCCAA-T
1 AACCCTAAACCCTAATTTATTTGAGTTTTTCCTTAAAAACCCTAAACACTAAACCTAATCTAATT
* * * * *
12311663 TTTGAAAATTTTATAATTAATTTAATTAA-A
66 TTTTAAAAATTTATAATTAATTTACTCAAGT
12311693 AACCCTAAACCCTAA
1 AACCCTAAACCCTAA
12311708 ACTCTTATTT
Statistics
Matches: 182, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
94 15 0.08
95 26 0.14
96 34 0.19
97 82 0.45
98 25 0.14
ACGTcount: A:0.41, C:0.19, G:0.02, T:0.38
Consensus pattern (96 bp):
AACCCTAAACCCTAATTTATTTGAGTTTTTCCTTAAAAACCCTAAACACTAAACCTAATCTAATT
TTTTAAAAATTTATAATTAATTTACTCAAGT
Found at i:12311788 original size:27 final size:29
Alignment explanation
Indices: 12311736--12311794 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
12311726 TTTTCTTTAA
12311736 AACCTTAAACCTAAAAACCCCAAAACCCT
1 AACCTTAAACCTAAAAACCCCAAAACCCT
12311765 AACCTTAAACC-AAAAACCCC-AAACCCT
1 AACCTTAAACCTAAAAACCCCAAAACCCT
12311792 AAC
1 AAC
12311795 TAGTAGGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 10 0.33
28 9 0.30
29 11 0.37
ACGTcount: A:0.49, C:0.39, G:0.00, T:0.12
Consensus pattern (29 bp):
AACCTTAAACCTAAAAACCCCAAAACCCT
Found at i:12314390 original size:22 final size:22
Alignment explanation
Indices: 12314359--12314431 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 22
12314349 TCGCATTACA
12314359 CATATTATCACATAAATTTTAAG
1 CATA-TATCACATAAATTTTAAG
**
12314382 CATATATCAC---AATGCT---
1 CATATATCACATAAATTTTAAG
*
12314398 CATATAATCACATAACTTTTAAG
1 CATAT-ATCACATAAATTTTAAG
12314421 CATATATCACA
1 CATATATCACA
12314432 ATACTCATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 15
0.66 0.09 0.26
Matches are distributed among these distances:
16 5 0.13
17 5 0.13
19 4 0.11
20 3 0.08
22 12 0.32
23 9 0.24
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.34
Consensus pattern (22 bp):
CATATATCACATAAATTTTAAG
Found at i:12314402 original size:39 final size:39
Alignment explanation
Indices: 12314336--12314477 Score: 196
Period size: 39 Copynumber: 3.6 Consensus size: 39
12314326 TCATATTCAC
* * * *
12314336 TTTTAAGCATATATCGCATTACACATATTATCACATAAA
1 TTTTAAGCATATATCACAATACTCATATAATCACATAAA
* *
12314375 TTTTAAGCATATATCACAATGCTCATATAATCACATAAC
1 TTTTAAGCATATATCACAATACTCATATAATCACATAAA
12314414 TTTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTTAAGCATATATCACAATACTCATATAATCACATAA-A
* *
12314454 -TTCAAGCATATATCATAATACTCA
1 TTTTAAGCATATATCACAATACTCA
12314478 AAAACATGTT
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.42, C:0.20, G:0.04, T:0.34
Consensus pattern (39 bp):
TTTTAAGCATATATCACAATACTCATATAATCACATAAA
Found at i:12315767 original size:18 final size:18
Alignment explanation
Indices: 12315746--12315805 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
12315736 TGATGCAATC
12315746 GAGGAAGAAGATGTAGAT
1 GAGGAAGAAGATGTAGAT
* *
12315764 GAGGAAGAAGATAT-GACC
1 GAGGAAGAAGATGTAGA-T
12315782 GAGGAAGAAGATGTATG-T
1 GAGGAAGAAGATGTA-GAT
12315800 GAGGAA
1 GAGGAA
12315806 TAAGGGACAG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 2 0.06
18 32 0.91
20 1 0.03
ACGTcount: A:0.43, C:0.03, G:0.38, T:0.15
Consensus pattern (18 bp):
GAGGAAGAAGATGTAGAT
Found at i:12322874 original size:25 final size:25
Alignment explanation
Indices: 12322845--12322913 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 25
12322835 GTTTCGACCC
12322845 ACAGCTCGTGAGAGCATACCGATTT
1 ACAGCTCGTGAGAGCATACCGATTT
* *
12322870 ACAGCTTGTGAGAGCATATCGATTT
1 ACAGCTCGTGAGAGCATACCGATTT
* *
12322895 ACGGCTCGTGTGAGCATAC
1 ACAGCTCGTGAGAGCATAC
12322914 TTGTGCAAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (25 bp):
ACAGCTCGTGAGAGCATACCGATTT
Found at i:12328099 original size:7 final size:7
Alignment explanation
Indices: 12328087--12328118 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
12328077 CATTTATACT
12328087 TTTTAAA
1 TTTTAAA
12328094 TTTTAAA
1 TTTTAAA
12328101 TTTTAAA
1 TTTTAAA
12328108 TTTTAAA
1 TTTTAAA
12328115 TTTT
1 TTTT
12328119 GTTATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TTTTAAA
Found at i:12328413 original size:13 final size:15
Alignment explanation
Indices: 12328378--12328414 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
12328368 TATGCTTACT
12328378 TATATATTTATATACA
1 TATAT-TTTATATACA
12328394 TATATTTTATATA-A
1 TATATTTTATATACA
12328408 TA-ATTTT
1 TATATTTT
12328415 GAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.24
14 3 0.14
15 8 0.38
16 5 0.24
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
TATATTTTATATACA
Found at i:12328877 original size:109 final size:109
Alignment explanation
Indices: 12328687--12329125 Score: 731
Period size: 109 Copynumber: 4.1 Consensus size: 109
12328677 TATGCATACT
*
12328687 AATATCC-TTTAAAAAATTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
* * *
12328751 CAAATGTGCTGGGTTTCGATTTTTTTCGTTCGACCAAATAGGCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
*
12328795 AATATCCTTTTAAAAATTTCACAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
* * *
12328860 CTAATGTGCTAGGTTTCGATTTTTCTCATTCAACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* *
12328904 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTTCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
*
12328969 CTAATGTGCTGGGTTTCAATTTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* *
12329013 AATATCCTTTTAAAAATTTCAAAATAAAGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
*
12329078 CTAATGTGCTGGGTTTCG--GTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
12329120 AATATC
1 AATATC
12329126 ATTCTAAATT
Statistics
Matches: 309, Mismatches: 21, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
107 29 0.09
108 7 0.02
109 273 0.88
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (109 bp):
AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
Found at i:12336840 original size:64 final size:63
Alignment explanation
Indices: 12336718--12336882 Score: 221
Period size: 64 Copynumber: 2.6 Consensus size: 63
12336708 GCAAACAAAC
* * *
12336718 ATTCGAACCACATATGTA-T-AATTTACA-ACATTAAAATTCAGCTCAAAGAATTTGTAACCTAT
1 ATTCGAACCACATATGTATTAAAATT-CATACATT-AAATTCAACTCAAAGAATTGGTAACCTAT
12336780 ATTCGAACCACATATGTATGTAAAATTCATACATTAAATTCAACTCAAA-AACTTGGTAACCTAT
1 ATTCGAACCACATATGTAT-TAAAATTCATACATTAAATTCAACTCAAAGAA-TTGGTAACCTAT
*
12336844 ATTTGAACCACATATGTATATAAAATTCATACATTAAAT
1 ATTCGAACCACATATGTAT-TAAAATTCATACATTAAAT
12336883 ATAGCTGAAG
Statistics
Matches: 93, Mismatches: 5, Indels: 8
0.88 0.05 0.08
Matches are distributed among these distances:
62 18 0.19
63 2 0.02
64 64 0.69
65 9 0.10
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (63 bp):
ATTCGAACCACATATGTATTAAAATTCATACATTAAATTCAACTCAAAGAATTGGTAACCTAT
Found at i:12338004 original size:28 final size:28
Alignment explanation
Indices: 12337971--12338027 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
12337961 TTTGTTTGTT
12337971 TTTATTATAATAA-CTTTATAATATATTA
1 TTTATTATAATAACCTTTATAAT-TATTA
*
12337999 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATAATAACCTTTATAATTATTA
12338027 T
1 T
12338028 AAAAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATAACCTTTATAATTATTA
Found at i:12338238 original size:14 final size:15
Alignment explanation
Indices: 12338219--12338248 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
12338209 TCACGAAACT
12338219 TTCACACAT-ATAAA
1 TTCACACATAATAAA
12338233 TTCACACATAATAAA
1 TTCACACATAATAAA
12338248 T
1 T
12338249 ACAGAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:12344306 original size:44 final size:42
Alignment explanation
Indices: 12344256--12344488 Score: 147
Period size: 44 Copynumber: 5.4 Consensus size: 42
12344246 TACCTCCCTA
* *
12344256 AAGTTGCAGTGGAGCGGATTAAAAACACAGACCTTATCTCTCTG
1 AAGTTGCAGTGGAGCAGA-TAAAAAC-CAGATCTTATCTCTCTG
* *** *
12344300 AAGTTGCAGTAGAGCAGATCGCATCCAG-TCTTATCT-TCCTG
1 AAGTTGCAGTGGAGCAGATAAAAACCAGATCTTATCTCT-CTG
* * *
12344341 TAGTTGCAGTGGAGCAGACAGAAGAAACCA-ATCCTATCTC-CTTG
1 AAGTTGCAGTGGAGCAG--ATAA-AAACCAGATCTTATCTCTC-TG
* *
12344385 AAGTTGCAGTAGG-GCGGATTAAAAAAACCACAGATCTCATCTCTCTG
1 AAGTTGCAGT-GGAGCAGA-T--AAAAA-C-CAGATCTTATCTCTCTG
* * * * *
12344432 AAGTTGTAGTAGAGCAGAT-CAAATCA-ATCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATAAAAACCAGATCTTATCTCTCTG
12344472 AAGTTGCAGTGGAGCAG
1 AAGTTGCAGTGGAGCAG
12344489 GTTGAAGATA
Statistics
Matches: 144, Mismatches: 29, Indels: 36
0.69 0.14 0.17
Matches are distributed among these distances:
40 28 0.19
41 27 0.19
42 4 0.03
43 8 0.06
44 44 0.31
45 5 0.03
46 4 0.03
47 23 0.16
48 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (42 bp):
AAGTTGCAGTGGAGCAGATAAAAACCAGATCTTATCTCTCTG
Found at i:12344487 original size:40 final size:42
Alignment explanation
Indices: 12344240--12344533 Score: 145
Period size: 44 Copynumber: 6.8 Consensus size: 42
12344230 CAGAAGAAAC
* * * * * * *
12344240 CAATCCTACCTCCCTAAAGTTGCAGTGGAGCGGATTAAAAACA
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCAAGATA
* * * *
12344283 CAGACCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC--GCATC
1 CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAG-ATA
* * * *
12344325 CAGTCTTATCTTCCTGTAGTTGCAGTGGAGCAGA-CAGAAGAAA
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC--AAGATA
* * * * * *
12344368 CCAATCCTATCTCCTTGAAGTTGCAGTAGG-GCGGATTAAAAAAACCA
1 -CAATCTTATCTCCCTGAAGTTGCAGT-GGAGCAGA-T--CAAGA-TA
* * * *
12344415 CAGATCTCATCTCTCTGAAGTTGTAGTAGAGCAGATCAA-AT-
1 CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAGATA
* *
12344456 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATA
1 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATCAAGATA
12344499 CAAGTCTTA-CTTCCCT-AAGGTTGCAGTGGAGCAGA
1 CAA-TCTTATC-TCCCTGAA-GTTGCAGTGGAGCAGA
12344534 CTAAAACCAC
Statistics
Matches: 186, Mismatches: 44, Indels: 42
0.68 0.16 0.15
Matches are distributed among these distances:
40 27 0.15
41 32 0.17
42 5 0.03
43 12 0.06
44 77 0.41
45 2 0.01
46 7 0.04
47 24 0.13
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (42 bp):
CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAGATA
Found at i:12344525 original size:131 final size:128
Alignment explanation
Indices: 12344230--12344488 Score: 360
Period size: 129 Copynumber: 2.0 Consensus size: 128
12344220 GTTAATTAGG
* *
12344230 CAGAAGAAACCAATCCTACCTCCCTAAAGTTGCAGTGGAGCGGATTAAAAACACAGACCTTATCT
1 CAGAAGAAACCAATCCTATCTCCCT-AAGTTGCAGTGGAGCGGATTAAAAACACAGACCTCATCT
** * * *
12344295 CTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTTCCTGTAGTTGCAGTGGAGCAGA
65 CTCTGAAGTTGCAGTAGAGCAGATCAAATCCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* *
12344359 CAGAAGAAACCAATCCTATCTCCTTGAAGTTGCAGTAGG-GCGGATTAAAAAAACCACAGATCTC
1 CAGAAGAAACCAATCCTATCTCCCT-AAGTTGCAGT-GGAGCGGATT--AAAAA-CACAGACCTC
*
12344423 ATCTCTCTGAAGTTGTAGTAGAGCAGATCAAAT-CAATCTTATCTCCCTGAAGTTGCAGTGGAGC
61 ATCTCTCTGAAGTTGCAGTAGAGCAGATCAAATCCAATCTTATCTCCCTGAAGTTGCAGTGGAGC
12344487 AG
126 AG
12344489 GTTGAAGATA
Statistics
Matches: 115, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
129 40 0.35
130 2 0.02
131 35 0.30
132 38 0.33
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (128 bp):
CAGAAGAAACCAATCCTATCTCCCTAAGTTGCAGTGGAGCGGATTAAAAACACAGACCTCATCTC
TCTGAAGTTGCAGTAGAGCAGATCAAATCCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
Found at i:12346421 original size:13 final size:15
Alignment explanation
Indices: 12346386--12346422 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
12346376 TATGCTTACT
12346386 TATATATTTATATACA
1 TATAT-TTTATATACA
12346402 TATATTTTATATA-A
1 TATATTTTATATACA
12346416 TA-ATTTT
1 TATATTTT
12346423 GAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.24
14 3 0.14
15 8 0.38
16 5 0.24
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
TATATTTTATATACA
Found at i:12346933 original size:108 final size:109
Alignment explanation
Indices: 12346695--12347032 Score: 574
Period size: 108 Copynumber: 3.1 Consensus size: 109
12346685 TACGCATACT
* *
12346695 AATATCCTTTAAAAAATTTCAAAATAAGGCAATGTTTTACGTTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
* *
12346760 CAAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAACCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* *
12346804 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
12346869 CTAAT-TGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
*
12346912 AATATCCTTTTAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
*
12346977 CTAATGTGCTGGGTTTCG--GTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
*
12347019 AATATCCTTCTAAA
1 AATATCCTTTTAAA
12347033 TTTTAATCCA
Statistics
Matches: 218, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
107 36 0.17
108 104 0.48
109 78 0.36
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (109 bp):
AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
Found at i:12365654 original size:20 final size:20
Alignment explanation
Indices: 12365618--12365659 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
12365608 TTAAAGTAGT
12365618 AATTAGTAAATAAAAGA-AA
1 AATTAGTAAATAAAAGACAA
**
12365637 AATTAAGTAAATTGAAGACAA
1 AATT-AGTAAATAAAAGACAA
12365658 AA
1 AA
12365660 GAAAGATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 11 0.58
21 4 0.21
ACGTcount: A:0.64, C:0.02, G:0.12, T:0.21
Consensus pattern (20 bp):
AATTAGTAAATAAAAGACAA
Found at i:12369646 original size:17 final size:17
Alignment explanation
Indices: 12369624--12369666 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
12369614 CTTCGTCAGT
12369624 CACACGGCCGTGTCCCG
1 CACACGGCCGTGTCCCG
12369641 CACACGGCCGTGTCCCG
1 CACACGGCCGTGTCCCG
12369658 CACACGGCC
1 CACACGGCC
12369667 AACTACACGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.14, C:0.49, G:0.28, T:0.09
Consensus pattern (17 bp):
CACACGGCCGTGTCCCG
Found at i:12376027 original size:96 final size:94
Alignment explanation
Indices: 12375745--12376232 Score: 509
Period size: 95 Copynumber: 5.1 Consensus size: 94
12375735 ACAACCAAAA
* * * *
12375745 TTTTCATCACACTATTTTAATTTACCTATTTTATAATTTAGCACACCCCCTCCCTTACACTCTTT
1 TTTTCATCATACTCTTTAAATTTACCTATTTGATAATTTAGCACACCCCCTCCCTTACACTCTTT
* ** *
12375810 GTTTAACA-AAATGGCCAAAAAA-TGGAAC
66 ATTTAACATAAATGGTAAAAAAACT-GAAT
12375838 TTTTCATCATACTCTTTAAATTTACCTATTTGATAATTGAGCAATGAGCACACCCCCTCCCTTAC
1 TTTTCATCATACTCTTTAAATTTACCTATTTGATAATT------T-AGCACACCCCCTCCCTTAC
* * *
12375903 ACTCTTTGTGTAGCATAAATGGTCAAAAAAACTGAAT
59 ACTCTTTATTTAACATAAATGGT-AAAAAAACTGAAT
* * * *
12375940 TTTTCATCAAGACTCTTTAAATTTACTTATTTGATAATTTAGCACACCCCCTTCCTTACATTCTT
1 TTTTCATC-ATACTCTTTAAATTTACCTATTTGATAATTTAGCACACCCCCTCCCTTACACTCTT
*
12376005 TATTTAACAAAAATGGTAAAAAAA-TGGAAT
65 TATTTAACATAAATGGTAAAAAAACT-GAAT
* * * *
12376035 TTTTCATCATACACTTTAAATTTACCTATTTGATAATTGAGCACA-CCCCTCCCTTTCACTCATT
1 TTTTCATCATACTCTTTAAATTTACCTATTTGATAATTTAGCACACCCCCTCCCTTACACTCTTT
* *
12376099 ATTTAACATAAATGATAAAAAAAAACTAAAT
66 ATTTAACATAAATGGT--AAAAAAACTGAAT
* * * * * * * *
12376130 TTTTCATCAAACTCTTTTAATTTATCTATTTGATAATTGAGCACA-CCTCTTCCTTAACCCTTTT
1 TTTTCATCATACTCTTTAAATTTACCTATTTGATAATTTAGCACACCCCCTCCCTT-ACACTCTT
* * *
12376194 TATTTAACATAAATAGTAAAAATACCGAAT
65 TATTTAACATAAATGGTAAAAAAACTGAAT
*
12376224 ATTTCATCA
1 TTTTCATCA
12376233 CACTTTTTTT
Statistics
Matches: 335, Mismatches: 44, Indels: 31
0.82 0.11 0.08
Matches are distributed among these distances:
93 63 0.19
94 52 0.16
95 78 0.23
96 56 0.17
97 1 0.00
99 1 0.00
100 32 0.10
101 6 0.02
102 17 0.05
103 29 0.09
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.38
Consensus pattern (94 bp):
TTTTCATCATACTCTTTAAATTTACCTATTTGATAATTTAGCACACCCCCTCCCTTACACTCTTT
ATTTAACATAAATGGTAAAAAAACTGAAT
Found at i:12376199 original size:189 final size:190
Alignment explanation
Indices: 12375745--12376215 Score: 567
Period size: 189 Copynumber: 2.4 Consensus size: 190
12375735 ACAACCAAAA
* * * * * *
12375745 TTTTCATCACACTATTTTAATTTACCTATTTTATAATTTAGCACACCCCCTCCCTTACACTCTTT
1 TTTTCATCAAACTCTTTTAATTTA-CTATTTGATAATTTAGCACACCCCCTTCCTTACCCTTTTT
* ** *
12375810 GTTTAAC-AAAATGGCCAAAAAATGGAACTTTTCATCATACTCTTTAAATTTACCTATTTGATAA
65 ATTTAACAAAAATGGTAAAAAAATGGAACTTTTCATCATACACTTTAAATTTACCTATTTGATAA
* * * * * *
12375874 TTGAGCAATGAGCACACCCCCTCCCTTACACTCTTTGTGTAGCATAAATGGTCAAAAAAACTGAA
130 TT-----ATGAGCACACCCCCTCCCTTACACTCATTATGTAACATAAATGATAAAAAAAACTAAA
12375939 T
190 T
* *
12375940 TTTTCATCAAGACTCTTTAAATTTACTTATTTGATAATTTAGCACACCCCCTTCCTTA-CATTCT
1 TTTTCATCAA-ACTCTTTTAATTTAC-TATTTGATAATTTAGCACACCCCCTTCCTTACCCTT-T
*
12376004 TTATTTAACAAAAATGGTAAAAAAATGGAATTTTTCATCATACACTTTAAATTTACCTATTTGAT
63 TTATTTAACAAAAATGGTAAAAAAATGGAACTTTTCATCATACACTTTAAATTTACCTATTTGAT
* *
12376069 AA-T-TGAGCACA-CCCCTCCCTTTCACTCATTATTTAACATAAATGATAAAAAAAAACTAAAT
128 AATTATGAGCACACCCCCTCCCTTACACTCATTATGTAACATAAATGAT-AAAAAAAACTAAAT
* *
12376130 TTTTCATCAAACTCTTTTAATTTATCTATTTGATAATTGAGCACA-CCTCTTCCTTAACCCTTTT
1 TTTTCATCAAACTCTTTTAATTTA-CTATTTGATAATTTAGCACACCCCCTTCCTT-ACCCTTTT
* *
12376194 TATTTAACATAAATAGTAAAAA
64 TATTTAACAAAAATGGTAAAAA
12376216 TACCGAATAT
Statistics
Matches: 241, Mismatches: 27, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
188 9 0.04
189 83 0.34
190 34 0.14
195 11 0.05
196 51 0.21
197 53 0.22
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.38
Consensus pattern (190 bp):
TTTTCATCAAACTCTTTTAATTTACTATTTGATAATTTAGCACACCCCCTTCCTTACCCTTTTTA
TTTAACAAAAATGGTAAAAAAATGGAACTTTTCATCATACACTTTAAATTTACCTATTTGATAAT
TATGAGCACACCCCCTCCCTTACACTCATTATGTAACATAAATGATAAAAAAAACTAAAT
Found at i:12380769 original size:11 final size:10
Alignment explanation
Indices: 12380744--12380777 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
12380734 ACTACGATAG
12380744 TAATTTCCAT
1 TAATTTCCAT
12380754 TAATTTCCAGT
1 TAATTTCCA-T
12380765 TAATTTCCAT
1 TAATTTCCAT
12380775 TAA
1 TAA
12380778 CTCGAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.32, C:0.18, G:0.03, T:0.47
Consensus pattern (10 bp):
TAATTTCCAT
Found at i:12388718 original size:25 final size:25
Alignment explanation
Indices: 12388690--12388745 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
12388680 AAGTATTATA
12388690 CAGAGAACA-TAAATGTGCTAATAAT
1 CAGAGAACACT-AATGTGCTAATAAT
* *
12388715 CAGAGAGCACTGATGTGCTAATAAT
1 CAGAGAACACTAATGTGCTAATAAT
12388740 CAGAGA
1 CAGAGA
12388746 GCACGCTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 27 0.96
26 1 0.04
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.21
Consensus pattern (25 bp):
CAGAGAACACTAATGTGCTAATAAT
Found at i:12388746 original size:25 final size:25
Alignment explanation
Indices: 12388702--12388749 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
12388692 GAGAACATAA
12388702 ATGTGCTAATAATCAGAGAGCACTG
1 ATGTGCTAATAATCAGAGAGCACTG
12388727 ATGTGCTAATAATCAGAGAGCAC
1 ATGTGCTAATAATCAGAGAGCAC
12388750 GCTAAACTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (25 bp):
ATGTGCTAATAATCAGAGAGCACTG
Found at i:12389801 original size:50 final size:48
Alignment explanation
Indices: 12389701--12390136 Score: 476
Period size: 50 Copynumber: 8.6 Consensus size: 48
12389691 TTTTCTGTAC
* * * ** *
12389701 TGCCAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTT--ATGGGACCTCTCATCTCGG
* * *
12389751 TGCCCATGCTATGTCCTAGACATGGTCTTATGGGAGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAT-GG-GACCTCTCATCTCGG
*
12389801 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTT--ATGGGACCTCTCATCTCGG
* *
12389851 TGCCAACGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTT--ATGGGACCTCTCATCTCGG
12389901 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTT--ATGGGACCTCTCATCTCGG
* *
12389951 TGCCAATGCCATGTCCCAAACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTT--ATGGGACCTCTCATCTCGG
* * *
12390001 TGCCAATGCCATGTCCTAGACATAGTCTTATATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTC-T-TATGGGACCTCTCATCTCGG
* * * **
12390051 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAATTTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTT--ATGGGACCTCTC---ATCTC---GG
12390107 TGCCAATGCCATGTCCCAGACATGGTCTTA
1 TGCCAATGCCATGTCCCAGACATGGTCTTA
12390137 CACTGGCTCA
Statistics
Matches: 340, Mismatches: 32, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 296 0.87
51 3 0.01
52 3 0.01
53 3 0.01
54 1 0.00
56 28 0.08
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTATGGGACCTCTCATCTCGG
Found at i:12389818 original size:100 final size:100
Alignment explanation
Indices: 12389701--12390138 Score: 581
Period size: 100 Copynumber: 4.3 Consensus size: 100
12389691 TTTTCTGTAC
* * * ** * * * *
12389701 TGCCAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCTATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
* **
12389766 CTAGACATGGTCTTATGGGAGACCTCTCATCTCGG
66 CCAGACATGGTCTTACAGGAGACCTCTCATCTCGG
* *
12389801 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGTCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
12389866 CCAGACATGGTCTTACATGG-GACCTCTCATCTCGG
66 CCAGACATGGTCTTACA-GGAGACCTCTCATCTCGG
*
12389901 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
* *
12389966 CCAAACATGGTCTTACATGAGACCTCTCATCTCGG
66 CCAGACATGGTCTTACAGGAGACCTCTCATCTCGG
* * * *
12390001 TGCCAATGCCATGTCCTAGACATAGTCTTATATGGGACCTCTCATCTTGGTGCCAACGCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
* * **
12390066 CCAGACATGGTCTTACATGAGACCTCTCATAATTTCAATAA
66 CCAGACATGGTCTTACAGGAGACCTCTC---ATCTC---GG
12390107 TGCCAATGCCATGTCCCAGACATGGTCTTACA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA
12390139 CTGGCTCACA
Statistics
Matches: 299, Mismatches: 31, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
99 1 0.00
100 263 0.88
101 2 0.01
103 4 0.01
106 29 0.10
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (100 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
CCAGACATGGTCTTACAGGAGACCTCTCATCTCGG
Found at i:12389974 original size:150 final size:150
Alignment explanation
Indices: 12389701--12390095 Score: 569
Period size: 150 Copynumber: 2.6 Consensus size: 150
12389691 TTTTCTGTAC
* * * * ** * * *
12389701 TGCCAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCTATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTC
* *
12389766 CTAGACATGGTCTT--ATGGGAGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCT
66 CCAGACATGGTCTTACAT-GG-GACCTCTCATCTCGGTGCCAACGCCATGTCCCAAACATGGTCT
*
12389829 TACATGGGACCTCTCATCTCGG
129 TACATGAGACCTCTCATCTCGG
*
12389851 TGCCAACGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTC
*
12389916 CCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCAAACATGGTCTTA
66 CCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAACATGGTCTTA
12389981 CATGAGACCTCTCATCTCGG
131 CATGAGACCTCTCATCTCGG
* * * * * *
12390001 TGCCAATGCCATGTCCTAGACATAGTCTTATATGGGACCTCTCATCTTGGTGCCAACGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTC
*
12390066 CCAGACATGGTCTTACATGAGACCTCTCAT
66 CCAGACATGGTCTTACATGGGACCTCTCAT
12390096 AATTTCAATA
Statistics
Matches: 221, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
150 217 0.98
151 2 0.01
152 2 0.01
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (150 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTC
CCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAACATGGTCTTA
CATGAGACCTCTCATCTCGG
Found at i:12402025 original size:40 final size:39
Alignment explanation
Indices: 12401970--12402189 Score: 194
Period size: 40 Copynumber: 5.5 Consensus size: 39
12401960 TTTTCCAAGC
* *
12401970 TGTGTATCAGAAAAGCTCCCATGTGAGTTTATGGATAAGT
1 TGTGTATCAGCAAAGCTCCC-TGTGAGCTTATGGATAAGT
**
12402010 TGTGTATCAGCAAAGCTCTCCTGTGAGCTTATGGATAAAC
1 TGTGTATCAGCAAAGCTC-CCTGTGAGCTTATGGATAAGT
* *
12402050 TGTGTATCAGTAAAGTTTCCCTGTGAGCTTATGGATAAGT
1 TGTGTATCAGCAAAG-CTCCCTGTGAGCTTATGGATAAGT
* * *
12402090 TGTGTATCAACACAA-CTTCCCTGTGAGC-TAAGGACAAGT
1 TGTGTATCAGCA-AAGC-TCCCTGTGAGCTTATGGATAAGT
* * * * *
12402129 TGTGTGTCA-AAGAAGCTCCCCACGTGAGCTTAAGTGATGAAGC
1 TGTGTATCAGCA-AAGCT-CCC-TGTGAGCTTATG-GAT-AAGT
*
12402172 TGTGTATCAGCGAAGCTC
1 TGTGTATCAGCAAAGCTC
12402190 TCCATGCAAC
Statistics
Matches: 147, Mismatches: 22, Indels: 20
0.78 0.12 0.11
Matches are distributed among these distances:
38 4 0.03
39 21 0.14
40 93 0.63
41 10 0.07
42 3 0.02
43 16 0.11
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (39 bp):
TGTGTATCAGCAAAGCTCCCTGTGAGCTTATGGATAAGT
Found at i:12402113 original size:80 final size:80
Alignment explanation
Indices: 12401969--12402192 Score: 224
Period size: 80 Copynumber: 2.8 Consensus size: 80
12401959 ATTTTCCAAG
* *
12401969 CTGTGTATCAGAAAAGCTCCCATGTGAGTTTATGGATAAGTTGTGTATCAGCAAAGCTCTCCTGT
1 CTGTGTATCAGAAAAGCTCCCATGTGAGCTTATGGATAAGTTGTGTATCAACAAAGCTCTCCTGT
12402034 GAGCTTATGGATAAA
66 GAGCTTATGGATAAA
* *
12402049 CTGTGTATCAGTAAAGTTTCCC-TGTGAGCTTATGGATAAGTTGTGTATCAACACAA-CT-TCCC
1 CTGTGTATCAGAAAAG-CTCCCATGTGAGCTTATGGATAAGTTGTGTATCAACA-AAGCTCT-CC
* * *
12402111 TGTGAGC-TAAGGACAAG
63 TGTGAGCTTATGGATAAA
* * * * * * *
12402128 TTGTGTGTCA-AAGAAGCTCCCCACGTGAGCTTAAGTGATGAAGCTGTGTATCAGCGAAGCTCTC
1 CTGTGTATCAGAA-AAGCT-CCCATGTGAGCTTATG-GAT-AAGTTGTGTATCAACAAAGCTCTC
12402192 C
62 C
12402193 ATGCAACTTT
Statistics
Matches: 118, Mismatches: 16, Indels: 18
0.78 0.11 0.12
Matches are distributed among these distances:
78 2 0.02
79 22 0.19
80 65 0.55
81 11 0.09
82 17 0.14
83 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (80 bp):
CTGTGTATCAGAAAAGCTCCCATGTGAGCTTATGGATAAGTTGTGTATCAACAAAGCTCTCCTGT
GAGCTTATGGATAAA
Found at i:12404969 original size:21 final size:21
Alignment explanation
Indices: 12404939--12404987 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
12404929 ATGTCCCAGG
* *
12404939 GGCGACGATGGGCAAACCTTA
1 GGCGATGATGGGCAAACCTCA
12404960 GGCGATGATGGGCAAACCTCA
1 GGCGATGATGGGCAAACCTCA
12404981 GGCGATG
1 GGCGATG
12404988 CTAAGTTTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.22, G:0.37, T:0.14
Consensus pattern (21 bp):
GGCGATGATGGGCAAACCTCA
Found at i:12408662 original size:11 final size:11
Alignment explanation
Indices: 12408646--12408744 Score: 61
Period size: 11 Copynumber: 9.4 Consensus size: 11
12408636 ATTTTTTTAA
12408646 TTTTAAAATAT
1 TTTTAAAATAT
12408657 TTTTAAAATAAT
1 TTTTAAAAT-AT
* *
12408669 TTTT---TTAA
1 TTTTAAAATAT
12408677 TTTTAAAATAT
1 TTTTAAAATAT
12408688 TTTTAAAATACTT
1 TTTTAAAATA--T
**
12408701 TTTTTTAAT-T
1 TTTTAAAATAT
*
12408711 TTTT----TAA
1 TTTTAAAATAT
12408718 TTTTAAAATAT
1 TTTTAAAATAT
12408729 TTTTAAAATACT
1 TTTTAAAATA-T
12408741 TTTT
1 TTTT
12408745 TTAATTTTTA
Statistics
Matches: 68, Mismatches: 8, Indels: 23
0.69 0.08 0.23
Matches are distributed among these distances:
6 1 0.01
7 4 0.06
8 5 0.07
9 1 0.01
10 5 0.07
11 33 0.49
12 11 0.16
13 8 0.12
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:12408674 original size:31 final size:32
Alignment explanation
Indices: 12408636--12408712 Score: 138
Period size: 31 Copynumber: 2.4 Consensus size: 32
12408626 AAATATATTT
12408636 ATTTTTTTAATTTTAAAATATTTTTAAAATA-
1 ATTTTTTTAATTTTAAAATATTTTTAAAATAC
12408667 ATTTTTTTAATTTTAAAATATTTTTAAAATAC
1 ATTTTTTTAATTTTAAAATATTTTTAAAATAC
*
12408699 TTTTTTTTAATTTT
1 ATTTTTTTAATTTT
12408713 TTTAATTTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
31 31 0.70
32 13 0.30
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (32 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:12408710 original size:41 final size:40
Alignment explanation
Indices: 12408665--12408753 Score: 169
Period size: 41 Copynumber: 2.2 Consensus size: 40
12408655 ATTTTTAAAA
12408665 TAATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTT
1 TAATTTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTT
12408706 TAATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTT
1 TAATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTT
12408746 TAATTTTT
1 TAATTTTT
12408754 AAAATAAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 14 0.29
41 34 0.71
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (40 bp):
TAATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTT
Found at i:12408765 original size:21 final size:21
Alignment explanation
Indices: 12408727--12408766 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12408717 ATTTTAAAAT
**
12408727 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
12408748 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
12408767 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:12408773 original size:22 final size:21
Alignment explanation
Indices: 12408726--12408784 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
12408716 AATTTTAAAA
* *
12408726 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAAATTTTTG
12408746 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
12408769 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
12408785 GGGCCGGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:12412551 original size:40 final size:38
Alignment explanation
Indices: 12412514--12412690 Score: 160
Period size: 39 Copynumber: 4.5 Consensus size: 38
12412504 ATATCCGGAC
12412514 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGT
* * *
12412553 TAAGCCCCGAAGGCCTTTGTGCGAGGTACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCC-GGT
* * *
12412593 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCC-GGT
* * * *
12412633 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCC-GGT
*
12412672 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
12412691 AACGAGGAGC
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 61 0.51
40 58 0.49
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (38 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGT
Found at i:12412572 original size:39 final size:39
Alignment explanation
Indices: 12412520--12412690 Score: 193
Period size: 40 Copynumber: 4.3 Consensus size: 39
12412510 GGACTAAGAT
*
12412520 CCGAAGGCATTTGTGCGAGATACAAATTCC-GGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
12412559 CCGAAGGCCTTTGTGCGAGGTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
* * *
12412599 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
12412639 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
12412678 CCGAAGGCATTTG
1 CCGAAGGCATTTG
12412691 AACGAGGAGC
Statistics
Matches: 114, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
39 56 0.49
40 58 0.51
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:12412603 original size:79 final size:79
Alignment explanation
Indices: 12412467--12412690 Score: 220
Period size: 79 Copynumber: 2.8 Consensus size: 79
12412457 TTGAATGCTG
* * * * * * * * *
12412467 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGCCCCGAAGGCATTGTGCGAGGT-ACTAAAACCGGGCTAAG-TCCCGAAGGCATT
12412531 TGTGCGAGATA-CAAA
64 TGTGCGAGATATCAAA
* * *
12412546 TTCC-GGTTAAGCCCCGAAGGCCTTTGTGCGAGGTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* * *
12412610 CGTGCGAGTTATTAAA
64 TGTGCGAGATATCAAA
* * * *
12412626 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGCCCCGAAGGCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
12412691 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
78 1 0.01
79 88 0.73
80 32 0.26
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGCCCCGAAGGCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATATCAAA
Found at i:12412708 original size:79 final size:79
Alignment explanation
Indices: 12412547--12412723 Score: 196
Period size: 79 Copynumber: 2.2 Consensus size: 79
12412537 AGATACAAAT
* * * *
12412547 TCCGGTTAAGCCCCGAAGGCCTTTGTGCGAGGTACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGTTAAGTCCCGAAGGCCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
** * *
12412612 TGCGAGTTATTAAA
66 AACGAGTGACTAAA
* * * *
12412626 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCC-GGTTAAGTCCCGAAGGCCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
12412690 GAACGAG-GAGCTATA
65 GAACGAGTGA-CTAAA
*
12412705 TCCGGTTAAATCCCGAAGG
1 TCCGGTTAAGTCCCGAAGG
12412724 TACGTGATTT
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
78 16 0.20
79 51 0.62
80 15 0.18
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGTTAAGTCCCGAAGGCCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
AACGAGTGACTAAA
Found at i:12419055 original size:18 final size:17
Alignment explanation
Indices: 12419028--12419084 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
12419018 TACTTCATTT
12419028 TTTTTA-ATTTTATGAA
1 TTTTTATATTTTATGAA
*
12419044 CTTTTTATATTTTTTG-A
1 -TTTTTATATTTTATGAA
12419061 TTTTTAAATATTTTAT-AA
1 TTTTT--ATATTTTATGAA
12419079 TTTTTA
1 TTTTTA
12419085 AATTATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
16 6 0.18
17 7 0.21
18 21 0.62
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (17 bp):
TTTTTATATTTTATGAA
Found at i:12419085 original size:18 final size:17
Alignment explanation
Indices: 12419045--12419097 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
12419035 TTTTATGAAC
* *
12419045 TTTTTATAT-TTTTTGA
1 TTTTTAAATATTTTTAA
12419061 TTTTTAAATATTTTATAA
1 TTTTTAAATATTTT-TAA
12419079 TTTTTAAATTATTTTTAA
1 TTTTTAAA-TATTTTTAA
12419097 T
1 T
12419098 GTGAGATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 8 0.25
17 4 0.12
18 14 0.44
19 6 0.19
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTTTAAATATTTTTAA
Found at i:12428395 original size:25 final size:25
Alignment explanation
Indices: 12428334--12428422 Score: 101
Period size: 25 Copynumber: 3.6 Consensus size: 25
12428324 GCTTGAACTT
*
12428334 CCCGATATATGACTATCCGGAGCTC
1 CCCGATATATGGCTATCCGGAGCTC
12428359 CCCGATATATGGCTATCCGGAGCTC
1 CCCGATATATGGCTATCCGGAGCTC
* * * *
12428384 CTCGAT-TAATGGCTCTTCGGAGCTA
1 CCCGATAT-ATGGCTATCCGGAGCTC
*
12428409 CCCGTTATA-GGCTA
1 CCCGATATATGGCTA
12428423 GCACGAGCTT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
24 5 0.09
25 48 0.89
26 1 0.02
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.27
Consensus pattern (25 bp):
CCCGATATATGGCTATCCGGAGCTC
Found at i:12433485 original size:21 final size:20
Alignment explanation
Indices: 12433461--12433515 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
12433451 AAACCTAGGG
12433461 TTTTACAGGAAATTAAC-TGGA
1 TTTTACAGGAAA--AACTTGGA
* *
12433482 TTTTATAGGAAAAACTTGGG
1 TTTTACAGGAAAAACTTGGA
12433502 TCTTTACAGGAAAA
1 T-TTTACAGGAAAA
12433516 GTCATTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 3 0.10
20 4 0.14
21 22 0.76
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (20 bp):
TTTTACAGGAAAAACTTGGA
Found at i:12442564 original size:26 final size:25
Alignment explanation
Indices: 12442535--12442600 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 25
12442525 ATATCCTCAT
12442535 TTATGTTAATTATAAAT-ATAAATATA
1 TTAT-TTAATTATAAATAAT-AATATA
* *
12442561 TTATTT-TTTATAAATAATATTATA
1 TTATTTAATTATAAATAATAATATA
*
12442585 TTATATTAATTTTAAA
1 TTAT-TTAATTATAAA
12442601 AATTATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
24 17 0.52
25 6 0.18
26 10 0.30
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
TTATTTAATTATAAATAATAATATA
Found at i:12442989 original size:9 final size:9
Alignment explanation
Indices: 12442975--12443105 Score: 68
Period size: 10 Copynumber: 13.7 Consensus size: 9
12442965 ATACAAATAA
12442975 ATAAAAATT
1 ATAAAAATT
12442984 ATAAAAATT
1 ATAAAAATT
**
12442993 ATTAAATTTT
1 A-TAAAAATT
*
12443003 AATAAAAAAT
1 -ATAAAAATT
12443013 ATAAAATAATAT
1 AT-AAA-AAT-T
* *
12443025 TTAAAACTT
1 ATAAAAATT
*
12443034 ATTATAAATT
1 A-TAAAAATT
*
12443044 AGAAAAAATT
1 A-TAAAAATT
*
12443054 ATAAAAATC
1 ATAAAAATT
12443063 ATAAAAAATT
1 AT-AAAAATT
**
12443073 A-AAATTTT
1 ATAAAAATT
12443081 ATAAAAATCT
1 ATAAAAAT-T
12443091 -TAAAAATTT
1 ATAAAAA-TT
12443100 ATAAAA
1 ATAAAA
12443106 TATAGAAAAA
Statistics
Matches: 90, Mismatches: 21, Indels: 21
0.68 0.16 0.16
Matches are distributed among these distances:
8 6 0.07
9 32 0.36
10 44 0.49
11 6 0.07
12 2 0.02
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (9 bp):
ATAAAAATT
Found at i:12442998 original size:19 final size:19
Alignment explanation
Indices: 12442957--12443105 Score: 81
Period size: 19 Copynumber: 7.7 Consensus size: 19
12442947 GACATGTGGC
* * *
12442957 AAAAATTGATACAAATAAAT
1 AAAAATT-ATAAAAATTATT
12442977 AAAAATTATAAAAATTATT
1 AAAAATTATAAAAATTATT
** * *
12442996 AAATTTTAATAAAAAATATA
1 AAAAATT-ATAAAAATTATT
* *
12443016 AAATAATATTTAAAACTTATT
1 AAA-AAT-TATAAAAATTATT
* *
12443037 ATAAATTAGAAAAAATTA-T
1 AAAAATTA-TAAAAATTATT
*
12443056 AAAAATCATAAAAA--ATT
1 AAAAATTATAAAAATTATT
* *
12443073 AAAATTTTATAAAAA-TCTT
1 AAAA-ATTATAAAAATTATT
12443092 AAAAATTTATAAAA
1 AAAAA-TTATAAAA
12443106 TATAGAAAAA
Statistics
Matches: 97, Mismatches: 24, Indels: 17
0.70 0.17 0.12
Matches are distributed among these distances:
16 1 0.01
17 5 0.05
18 13 0.13
19 36 0.37
20 30 0.31
21 11 0.11
22 1 0.01
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (19 bp):
AAAAATTATAAAAATTATT
Found at i:12443180 original size:19 final size:20
Alignment explanation
Indices: 12443153--12443203 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
12443143 AAGTTTTAAG
*
12443153 AAAATTATAAAATAT-GT-AA
1 AAAAATATAAAAT-TCGTAAA
*
12443172 AGAAATATAAAATTCGTAAA
1 AAAAATATAAAATTCGTAAA
12443192 AAAAATATAAAA
1 AAAAATATAAAA
12443204 ATTACTATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 1 0.04
19 13 0.48
20 13 0.48
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (20 bp):
AAAAATATAAAATTCGTAAA
Found at i:12443444 original size:28 final size:28
Alignment explanation
Indices: 12443411--12443467 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
12443401 TTTTTTTCTA
12443411 ATTTTTA-GAAAATTTCAA-ATATTTTTAT
1 ATTTTTATGAAAATTT-AATA-ATTTTTAT
*
12443439 ATTTTTATTAAAATTTAATAATTTTTAT
1 ATTTTTATGAAAATTTAATAATTTTTAT
12443467 A
1 A
12443468 ACTTTTATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (28 bp):
ATTTTTATGAAAATTTAATAATTTTTAT
Found at i:12443464 original size:29 final size:28
Alignment explanation
Indices: 12443402--12443474 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 28
12443392 TTTTATATTT
* *
12443402 TTTTTTCTAATTTTTAGAAAATTTCAAA
1 TTTTTTATAATTTTTAGAAAATTTAAAA
*
12443430 TATTTTTAT-ATTTTTATTAAAATTTAATAA
1 T-TTTTTATAATTTTTA-GAAAATTTAA-AA
*
12443460 -TTTTTATAACTTTTA
1 TTTTTTATAATTTTTA
12443475 TTGATTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
28 15 0.41
29 20 0.54
30 2 0.05
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (28 bp):
TTTTTTATAATTTTTAGAAAATTTAAAA
Found at i:12443498 original size:9 final size:9
Alignment explanation
Indices: 12443431--12443499 Score: 54
Period size: 9 Copynumber: 7.7 Consensus size: 9
12443421 AATTTCAAAT
12443431 ATTTTTAT-
1 ATTTTTATA
12443439 ATTTTTATTAA
1 ATTTTTA-T-A
* *
12443450 AATTTAATA
1 ATTTTTATA
12443459 ATTTTTATA
1 ATTTTTATA
* *
12443468 ACTTTTATTG
1 ATTTTTA-TA
12443478 ATTTTTAT-
1 ATTTTTATA
12443486 -TTTTTATA
1 ATTTTTATA
12443494 ATTTTT
1 ATTTTT
12443500 TGTCACATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
7 7 0.15
8 7 0.15
9 21 0.44
10 8 0.17
11 5 0.10
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (9 bp):
ATTTTTATA
Found at i:12443792 original size:92 final size:88
Alignment explanation
Indices: 12443663--12443984 Score: 305
Period size: 89 Copynumber: 3.6 Consensus size: 88
12443653 TTGAGTGCCC
* * * * * *
12443663 AAAAAAAAGTAAGGGCTTAATTGCTTTTTGTGAAAAAAATTTGAGGGCCTTTTTGATTCATTTTG
1 AAAAAAAAGCAGGGGCTTAATGGCTTTTT-TG-AAAAAGTTTGAGGGCATTTTTGATGCATTTTG
*
12443728 AAAGTTTAAGTAT-CCAATTAAGTGCAAA
64 AAAGTTCAAGT-TCCCAATTAAGTG---A
*
12443756 AAAAAAAAGCAGGGGTTTAATGGCTTTTATTGAAAAAGTTTGAGGGCATTTTTGATGCATTTTGA
1 AAAAAAAAGCAGGGGCTTAATGGCTTTT-TTGAAAAAGTTTGAGGGCATTTTTGATGCATTTTGA
*
12443821 AAGTTCAAGTTCCCAATTGAGTGA
65 AAGTTCAAGTTCCCAATTAAGTGA
* * *
12443845 AAAAAAAAGCAGAGGCTTAATGGCTTTTTTTGAAAAAGTTTAAGGGTCGTTTTT-ATGCATTTTT
1 AAAAAAAAGCAGGGGCTTAATGGC-TTTTTTGAAAAAGTTTGAGGG-CATTTTTGATGCA-TTTT
* * * * *
12443909 AAAAGTTCAAGTGCCTAATTGAGTGGG
63 GAAAGTTCAAGTTCCCAATTAAGT-GA
* ** *
12443936 AAAAAAAA--AGGAGCTTAATTACTTTTTT-AAGAAAGTTTGGGGGC-TTTTT
1 AAAAAAAAGCAGGGGCTTAATGGCTTTTTTGAA-AAAGTTTGAGGGCATTTTT
12443985 ACACCTTGAA
Statistics
Matches: 199, Mismatches: 23, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
86 5 0.03
87 3 0.02
88 16 0.08
89 54 0.27
90 35 0.18
91 10 0.05
92 49 0.25
93 26 0.13
94 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.35
Consensus pattern (88 bp):
AAAAAAAAGCAGGGGCTTAATGGCTTTTTTGAAAAAGTTTGAGGGCATTTTTGATGCATTTTGAA
AGTTCAAGTTCCCAATTAAGTGA
Found at i:12443903 original size:89 final size:90
Alignment explanation
Indices: 12443632--12443984 Score: 330
Period size: 92 Copynumber: 3.9 Consensus size: 90
12443622 AGATCAACAA
* * * * * * *
12443632 TTTGACAGATCAAGTACCCAATTGAGTGCCCAAAAAAAAGTA-AGGGCTTAATTGCTTTTTGTGA
1 TTTGAAAGTTCAAGTTCCCAATTGAGTG-CAAAAAAAAAGCAGA-GGCTTAATGGCTTTTTTTG-
* * *
12443696 AAAAAATTTGAGGGCCTTTTTGATTCAT
63 AAAAAGTTTGAGGGCATTTTTGATGCAT
* * * * *
12443724 TTTGAAAGTTTAAGTAT-CCAATTAAGTGCAAAAAAAAAAAGCAGGGGTTTAATGGCTTTTATTG
1 TTTGAAAGTTCAAGT-TCCCAATTGAGTGC--AAAAAAAAAGCAGAGGCTTAATGGCTTTTTTTG
12443788 AAAAAGTTTGAGGGCATTTTTGATGCAT
63 AAAAAGTTTGAGGGCATTTTTGATGCAT
12443816 TTTGAAAGTTCAAGTTCCCAATTGAGTG-AAAAAAAAAGCAGAGGCTTAATGGCTTTTTTTGAAA
1 TTTGAAAGTTCAAGTTCCCAATTGAGTGCAAAAAAAAAGCAGAGGCTTAATGGCTTTTTTTGAAA
* *
12443880 AAGTTTAAGGGTCGTTTTT-ATGCATT
66 AAGTTTGAGGG-CATTTTTGATGCA-T
* * * * **
12443906 TTTAAAAGTTCAAGTGCCTAATTGAGTGGGAAAAAAAAAG--GA-GCTTAATTAC-TTTTTT-AA
1 TTTGAAAGTTCAAGTTCCCAATTGAGT-GCAAAAAAAAAGCAGAGGCTTAATGGCTTTTTTTGAA
*
12443966 GAAAGTTTGGGGGC-TTTTT
65 -AAAGTTTGAGGGCATTTTT
12443985 ACACCTTGAA
Statistics
Matches: 222, Mismatches: 29, Indels: 26
0.80 0.10 0.09
Matches are distributed among these distances:
86 5 0.02
87 3 0.01
88 16 0.07
89 56 0.25
90 33 0.15
91 3 0.01
92 81 0.36
93 25 0.11
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (90 bp):
TTTGAAAGTTCAAGTTCCCAATTGAGTGCAAAAAAAAAGCAGAGGCTTAATGGCTTTTTTTGAAA
AAGTTTGAGGGCATTTTTGATGCAT
Found at i:12444432 original size:23 final size:23
Alignment explanation
Indices: 12444384--12444426 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
12444374 TTTCGAAAAG
*
12444384 TTTTATTATTAATCATTTAGTCA
1 TTTTATTATTAATCATTTAATCA
*
12444407 TTTTATTATT-ATTATTTAAT
1 TTTTATTATTAATCATTTAAT
12444427 GGATTTGGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (23 bp):
TTTTATTATTAATCATTTAATCA
Found at i:12454716 original size:45 final size:44
Alignment explanation
Indices: 12454667--12454759 Score: 132
Period size: 45 Copynumber: 2.1 Consensus size: 44
12454657 ATTAATAGTA
12454667 TTTATCATGATGCCATAACATATTTCAACTATAATCTTACTCATT
1 TTTATCATGATGCCATAACATATTTCAACTATAATCTTACTC-TT
* * * **
12454712 TTTATCATGATGCCATAACATCTTTTAGCTATGGTCTTACTCTT
1 TTTATCATGATGCCATAACATATTTCAACTATAATCTTACTCTT
12454756 TTTA
1 TTTA
12454760 GGCGTATAGC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 6 0.14
45 37 0.86
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.45
Consensus pattern (44 bp):
TTTATCATGATGCCATAACATATTTCAACTATAATCTTACTCTT
Found at i:12464861 original size:45 final size:44
Alignment explanation
Indices: 12464782--12464874 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 44
12464772 AACAGATACT
* *
12464782 CGGTGGATTCAGCCATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCCATAGCAACCACCTTACTAATCAATGATGTC
* *
12464826 CGGTGGAATCAGCACATATCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGC-CATAGCAACCACCTTACTAATCAATGATGTC
12464871 CGGT
1 CGGT
12464875 TCACATAGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
44 12 0.27
45 32 0.73
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (44 bp):
CGGTGGAATCAGCCATAGCAACCACCTTACTAATCAATGATGTC
Found at i:12464938 original size:51 final size:50
Alignment explanation
Indices: 12464871--12465066 Score: 191
Period size: 51 Copynumber: 3.9 Consensus size: 50
12464861 CAATGATGTT
* * *
12464871 CGGTTCACATAGTAGCCTGCACATAGTACTACACATATGACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACATGACCA-TACCATC
* * * * *
12464922 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACATGA-CCATACCATC
* * * * *
12464973 TGGTACGCATAGTAGCCTGCACATAGTACT--ACATATGCAACC-TATCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACATG--ACCATACCA-TC
* *
12465023 CGGTACACGTAATAGCCTGCACATAGTACTACACACGTGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACATGACCAT
12465067 CACTTTCACT
Statistics
Matches: 114, Mismatches: 24, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
49 7 0.06
50 32 0.28
51 68 0.60
52 7 0.06
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACATGACCATACCATC
Found at i:12465054 original size:101 final size:100
Alignment explanation
Indices: 12464878--12465062 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 100
12464868 GTTCGGTTCA
*
12464878 CATAGTAGCCTGCACATAGTACTACACATATGACCATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTA-ACATATGACCA-TACCATCCGATACACGTAATAGCCTGCA
12464943 CATAGTACTACACACGTGATCGAAACTATCTGGTACG
64 CATAGTACTACACACGTGATCGAAACTATCTGGTACG
* *
12464980 CATAGTAGCCTGCACATAGTACT-ACATATGCAACC-TATCATTCCGGTACACGTAATAGCCTGC
1 CATAGTAGCCTGCACATAGTACTAACATATG--ACCATACCA-TCCGATACACGTAATAGCCTGC
12465043 ACATAGTACTACACACGTGA
63 ACATAGTACTACACACGTGA
12465063 CCATCACTTT
Statistics
Matches: 77, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
100 11 0.14
101 40 0.52
102 26 0.34
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (100 bp):
CATAGTAGCCTGCACATAGTACTAACATATGACCATACCATCCGATACACGTAATAGCCTGCACA
TAGTACTACACACGTGATCGAAACTATCTGGTACG
Found at i:12477871 original size:6 final size:7
Alignment explanation
Indices: 12477854--12477879 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
12477844 GCCATGATCT
12477854 TTTTTTC
1 TTTTTTC
12477861 TTTTTTC
1 TTTTTTC
12477868 TTTTTTC
1 TTTTTTC
12477875 TTTTT
1 TTTTT
12477880 ATTTATTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:12480446 original size:31 final size:31
Alignment explanation
Indices: 12480408--12480469 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
12480398 AGGCAAATTA
12480408 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
12480439 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
12480470 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:12493035 original size:23 final size:23
Alignment explanation
Indices: 12493008--12493061 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
12492998 AAACAATGAC
12493008 TTAGTTTATTTGGTGGGCAAAGA
1 TTAGTTTATTTGGTGGGCAAAGA
12493031 TTAGTTTATTTGGTGGGCAAAGA
1 TTAGTTTATTTGGTGGGCAAAGA
12493054 TTATGTTT
1 TTA-GTTT
12493062 TTGTAGTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 26 0.87
24 4 0.13
ACGTcount: A:0.24, C:0.04, G:0.28, T:0.44
Consensus pattern (23 bp):
TTAGTTTATTTGGTGGGCAAAGA
Found at i:12493105 original size:13 final size:13
Alignment explanation
Indices: 12493087--12493122 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
12493077 TGAGAAGAGA
12493087 GAAAAATAAAAGG
1 GAAAAATAAAAGG
12493100 GAAAAATAAAA-G
1 GAAAAATAAAAGG
12493112 G-AAAATAAAAG
1 GAAAAATAAAAG
12493123 AAAAAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 9 0.41
12 2 0.09
13 11 0.50
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.08
Consensus pattern (13 bp):
GAAAAATAAAAGG
Found at i:12493129 original size:13 final size:11
Alignment explanation
Indices: 12493086--12493136 Score: 61
Period size: 11 Copynumber: 4.6 Consensus size: 11
12493076 ATGAGAAGAG
12493086 AGAAAAATAAA
1 AGAAAAATAAA
12493097 AGGGAAAAATAAA
1 A--GAAAAATAAA
*
12493110 AGGAAAATAAA
1 AGAAAAATAAA
12493121 AG-AAAA-AAA
1 AGAAAAATAAA
12493130 AGAAAAA
1 AGAAAAA
12493137 AAATTAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
9 5 0.14
10 8 0.22
11 12 0.33
13 11 0.31
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (11 bp):
AGAAAAATAAA
Found at i:12493925 original size:15 final size:15
Alignment explanation
Indices: 12493905--12493935 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12493895 CGATTGAGGT
12493905 TGTGGTAGGAGGATG
1 TGTGGTAGGAGGATG
12493920 TGTGGTAGGAGGATG
1 TGTGGTAGGAGGATG
12493935 T
1 T
12493936 TTAGACTATT
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:0.19, C:0.00, G:0.52, T:0.29
Consensus pattern (15 bp):
TGTGGTAGGAGGATG
Found at i:12495680 original size:33 final size:33
Alignment explanation
Indices: 12495639--12495735 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 33
12495629 GCATCCACAG
*
12495639 AGTAAGTTCGTTGGGGCAGTAAACAGGGAATAA
1 AGTAAGTTCGTTGGGACAGTAAACAGGGAATAA
** * * *
12495672 AGTAAGTTCACTGGGATAGTAAACATGGAATAG
1 AGTAAGTTCGTTGGGACAGTAAACAGGGAATAA
12495705 AGTAAGTTCGTTGGGACAGTAAACACGGGAA
1 AGTAAGTTCGTTGGGACAGTAAACA-GGGAA
12495736 GTCTGCTGGG
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
33 49 0.92
34 4 0.08
ACGTcount: A:0.37, C:0.10, G:0.31, T:0.22
Consensus pattern (33 bp):
AGTAAGTTCGTTGGGACAGTAAACAGGGAATAA
Found at i:12503289 original size:26 final size:26
Alignment explanation
Indices: 12503260--12503317 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
12503250 CATTATGTTA
* *
12503260 GAAAGTCTCGAAATCTCTATTTAATT
1 GAAAGACTAGAAATCTCTATTTAATT
12503286 GAAAGACTAGAAATCTCTATTTAATT
1 GAAAGACTAGAAATCTCTATTTAATT
*
12503312 AAAAGA
1 GAAAGA
12503318 ATTGTATATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (26 bp):
GAAAGACTAGAAATCTCTATTTAATT
Found at i:12504726 original size:12 final size:12
Alignment explanation
Indices: 12504709--12504750 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
12504699 GCCACATGGC
*
12504709 CGTGTGGTAGGT
1 CGTGTGCTAGGT
12504721 CGTGTGCTAGGT
1 CGTGTGCTAGGT
* *
12504733 CGTGTGCCAGAT
1 CGTGTGCTAGGT
12504745 CGTGTG
1 CGTGTG
12504751 ACACACATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.10, C:0.17, G:0.43, T:0.31
Consensus pattern (12 bp):
CGTGTGCTAGGT
Found at i:12521326 original size:16 final size:16
Alignment explanation
Indices: 12521305--12521340 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
12521295 AAAATTTCAA
*
12521305 CATGGGTTATTTAATT
1 CATGGGTTATTTAACT
12521321 CATGGGTTATTTAACT
1 CATGGGTTATTTAACT
12521337 CATG
1 CATG
12521341 AGCTTTAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.44
Consensus pattern (16 bp):
CATGGGTTATTTAACT
Found at i:12526985 original size:75 final size:75
Alignment explanation
Indices: 12526884--12527032 Score: 226
Period size: 75 Copynumber: 2.0 Consensus size: 75
12526874 GATCGAGTTA
* *
12526884 ACCGACAGTATTGAATGTGAGCCCAGCTCTAGCTGGATAAACCAACAATGTTTGCACCCAACGCT
1 ACCGACAATATTAAATGTGAGCCCAGCTCTAGCTGGATAAACCAACAATGTTTGCACCCAACGCT
*
12526949 CGTCGGATAT
66 AGTCGGATAT
* * ** *
12526959 ACCGACAATATTAAATGTGAGCCCAGCTCTAGTTGGATGAACCAACGGTGTTTGCACCCAGCGCT
1 ACCGACAATATTAAATGTGAGCCCAGCTCTAGCTGGATAAACCAACAATGTTTGCACCCAACGCT
12527024 AGTCGGATA
66 AGTCGGATA
12527033 AATCGACGAT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 66 1.00
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.23
Consensus pattern (75 bp):
ACCGACAATATTAAATGTGAGCCCAGCTCTAGCTGGATAAACCAACAATGTTTGCACCCAACGCT
AGTCGGATAT
Done.