Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 306 of 438
Found at i:95642028 original size:39 final size:40
Alignment explanation
Indices: 95641970--95642163 Score: 132
Period size: 40 Copynumber: 4.9 Consensus size: 40
95641960 ACCCAAGTAT
* *
95641970 CTTCGGGAT-TTAG-CCGGATATAACCTCTCGCACAA-GGC
1 CTTCGGG-TCTTAGCCCGGATATAACCACTAGCACAATGGC
* *** * *
95642008 CTTCGGGTCTTTGCCCGGATATGGTCACTAGCATAATTGC
1 CTTCGGGTCTTAGCCCGGATATAACCACTAGCACAATGGC
* *
95642048 CTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAAT-GC
1 CTTCGGGTCTTAGCCCGGATATAACCACTAGCAC-AATGGC
* * *** *
95642088 CTTCGGGACTGAGCCCGGA-ATTAGTAACTCGCACAAAT-GC
1 CTTCGGGTCTTAGCCCGGATA-TAACCACTAGCAC-AATGGC
* *
95642128 CTTCGGGACTTAGCCCGGA-ATTAATCACTAGCACAA
1 CTTCGGGTCTTAGCCCGGATA-TAACCACTAGCACAA
95642164 ATGTCTTCGG
Statistics
Matches: 130, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
37 1 0.01
38 10 0.08
39 19 0.15
40 97 0.75
41 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACCACTAGCACAATGGC
Found at i:95642053 original size:40 final size:40
Alignment explanation
Indices: 95642006--95642179 Score: 176
Period size: 40 Copynumber: 4.3 Consensus size: 40
95641996 CTCGCACAAG
* * * *
95642006 GCCTTCGGGTCTTTGCCCGGATATGGTC-ACTAGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTAGCACAAAT
95642046 GCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAAT
* * * *
95642086 GCCTTCGGGACTGAGCCCGGA-ATTAGTAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATA-TAGCAACTAGCACAAAT
* *
95642126 GCCTTCGGGACTTAGCCCGGA-ATTAATC-ACTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATA-T-AGCAACTAGCACAAAT
* *
95642166 GTCTTCGGGACTTA
1 GCCTTCGGGTCTTA
95642180 ACCCCGTTAG
Statistics
Matches: 118, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
39 2 0.02
40 115 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAAT
Found at i:95649330 original size:40 final size:40
Alignment explanation
Indices: 95649285--95649452 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
95649275 CGGAATATAA
95649285 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
95649325 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
95649365 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
95649405 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
95649445 CCGGATAT
1 CCGGATAT
95649453 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:95649435 original size:80 final size:80
Alignment explanation
Indices: 95649301--95649450 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
95649291 ATAACCACGT
* *
95649301 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
95649366 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
95649381 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
95649444 CCCGGAT
64 CCCGGAT
95649451 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:95657326 original size:40 final size:40
Alignment explanation
Indices: 95657281--95657447 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
95657271 CGGAATATAA
95657281 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
95657321 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
95657361 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
95657401 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
95657440 CCGGATAT
1 CCGGATAT
95657448 CATTCAATTT
Statistics
Matches: 102, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
39 14 0.14
40 88 0.86
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:95657431 original size:80 final size:79
Alignment explanation
Indices: 95657297--95657445 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
95657287 ATAACCACGT
*
95657297 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-CTTAGCC
95657362 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
95657377 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGCTTAGC
95657440 CCGGAT
64 CCGGAT
95657446 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.25
80 46 0.75
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:95661666 original size:27 final size:27
Alignment explanation
Indices: 95661644--95661732 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
95661634 AGAATTACTG
95661644 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTTGGTTTACAAAATTACCA
* * **
95661671 AAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCTTGGTTTACAAAATTACCA
** *
95661698 AAATACCCTTGGTTTGTAAAGTTACCA
1 AAATACCCTTGGTTTACAAAATTACCA
95661725 AAATACCC
1 AAATACCC
95661733 CTGATTTGTG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATACCCTTGGTTTACAAAATTACCA
Found at i:95661723 original size:54 final size:54
Alignment explanation
Indices: 95661644--95661793 Score: 176
Period size: 54 Copynumber: 2.8 Consensus size: 54
95661634 AGAATTACTG
**
95661644 AAATACCCTTGGTTTACAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGA-TTTGTAAAATTACCA
* * *
95661698 AAATACCCTTGGTTTGTAAAGTTACCAAAATACCCCTGATTTGTGAAATTACCG
1 AAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCA
* **** * *
95661752 AAACACCCTCAACTTGTAAAATTACCAAAGTACCCCCGATTT
1 AAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGATTT
95661794 ACAGAATTAT
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 81 0.99
55 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (54 bp):
AAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACCA
Found at i:95661740 original size:27 final size:27
Alignment explanation
Indices: 95661661--95661793 Score: 144
Period size: 27 Copynumber: 4.9 Consensus size: 27
95661651 CTTGGTTTAC
95661661 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
* *
95661688 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
*
95661715 AAAGTTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * * * *
95661742 GAAATTACCGAAACA-CCCTCAACTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
* *
95661769 AAAATTACCAAAGTACCCCCGATTT
1 AAAATTACCAAAATACCCCTGATTT
95661794 ACAGAATTAT
Statistics
Matches: 85, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
26 4 0.05
27 78 0.92
28 3 0.04
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:95661801 original size:27 final size:27
Alignment explanation
Indices: 95661769--95661829 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
95661759 CTCAACTTGT
95661769 AAAATTACCAAAGTACCCCCGATTTAC
1 AAAATTACCAAAGTACCCCCGATTTAC
* * *** *
95661796 AGAATTATCATTTTACCCTCGATTTAC
1 AAAATTACCAAAGTACCCCCGATTTAC
95661823 AAAATTA
1 AAAATTA
95661830 TTGAAATACC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAGTACCCCCGATTTAC
Found at i:95661855 original size:27 final size:27
Alignment explanation
Indices: 95661825--95661938 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
95661815 CGATTTACAA
* *
95661825 AATTATTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
95661852 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* **
95661879 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
95661906 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
95661933 AATTAC
1 AATTAC
95661939 CATTTTGCCC
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:95661891 original size:54 final size:54
Alignment explanation
Indices: 95661833--95661940 Score: 164
Period size: 54 Copynumber: 2.0 Consensus size: 54
95661823 AAAATTATTG
*
95661833 AAATACCCCTATAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAA-TACCA
1 AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTA-AAATTACCA
* * *
95661887 AAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACCA
1 AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTACCA
95661941 TTTTGCCCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
53 3 0.06
54 46 0.94
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.24
Consensus pattern (54 bp):
AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTACCA
Found at i:95662757 original size:27 final size:26
Alignment explanation
Indices: 95662666--95662777 Score: 84
Period size: 27 Copynumber: 4.2 Consensus size: 26
95662656 TGCCACGTAT
* *
95662666 TCTGTTA-AGTGGCTTTGCCACAATA
1 TCTGTTATGGTGGCTCTGCCACAATA
* ** * *
95662691 TCTGTTGCTATTGGCTATGCCATAAATA
1 TCTGTT-ATGGTGGCTCTGCCA-CAATA
95662719 TCTGTTCA-GGTGGCTCTGCCACAATA
1 TCTGTT-ATGGTGGCTCTGCCACAATA
* *
95662745 TCTGTATATGGTGACTCTGTCACAATA
1 TCTGT-TATGGTGGCTCTGCCACAATA
*
95662772 TTTGTT
1 TCTGTT
95662778 CTGGCAACCA
Statistics
Matches: 69, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
25 6 0.09
26 11 0.16
27 42 0.61
28 10 0.14
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (26 bp):
TCTGTTATGGTGGCTCTGCCACAATA
Found at i:95662908 original size:6 final size:6
Alignment explanation
Indices: 95662899--95663153 Score: 103
Period size: 6 Copynumber: 41.3 Consensus size: 6
95662889 TTGCATTCAC
* * * * *
95662899 ATTCTG ATTCTA ATTCT- ATTACCTG ATACAG ATTCTG ATTCT- ATCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
95662949 ATTCTG ATTCTG ATTCTG ATTTTG ATTCTG ATTCTG -TTACCTG ATACTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG
* * * * * *
95662998 ATTATA ATTCTG -TCACCTA ACTCTT ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
** * * * *
95663047 -TTACCTG ACACTG ATTTTG ATTCTG -TCACCTA ATTCTA ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
* * * * *
95663097 ACTCTG ATTCT- ATCACCTG ATTCTG ATTCTG ATCCTT ATTTTG ATTCT-
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
95663145 AGTTCTG AT
1 A-TTCTG AT
95663154 AATGTTTCTT
Statistics
Matches: 183, Mismatches: 43, Indels: 46
0.67 0.16 0.17
Matches are distributed among these distances:
5 14 0.08
6 144 0.79
7 17 0.09
8 8 0.04
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.46
Consensus pattern (6 bp):
ATTCTG
Found at i:95662932 original size:25 final size:25
Alignment explanation
Indices: 95662904--95662965 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
95662894 TTCACATTCT
* * *
95662904 GATTCTAATTCTATTACCTGATACA
1 GATTCTGATTCTATCACCTAATACA
* *
95662929 GATTCTGATTCTATCACCTAATTCT
1 GATTCTGATTCTATCACCTAATACA
95662954 GATTCTGATTCT
1 GATTCTGATTCT
95662966 GATTTTGATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.44
Consensus pattern (25 bp):
GATTCTGATTCTATCACCTAATACA
Found at i:95662977 original size:62 final size:62
Alignment explanation
Indices: 95662899--95663129 Score: 273
Period size: 62 Copynumber: 3.6 Consensus size: 62
95662889 TTGCATTCAC
* * *
95662899 ATTCTGATTCTAATTCTATTACCTGATACAGATTCTGATTCTATCACCTAATTCTGATTCTGATT
1 ATTCTGATTCTGATTCTATTACCTGATACTGATTCTGATTCTGTCACCTAATTCT-A-----ATT
95662964 CTG
60 CTG
* * * * * *
95662967 ATTTTGATTCTGATTCTGTTACCTGATACTGATTATAATTCTGTCACCTAACTCTTATTCTG
1 ATTCTGATTCTGATTCTATTACCTGATACTGATTCTGATTCTGTCACCTAATTCTAATTCTG
* * *
95663029 ATTCTGATTCTGATTCTGTTACCTGACACTGATTTTGATTCTGTCACCTAATTCTAATTCTG
1 ATTCTGATTCTGATTCTATTACCTGATACTGATTCTGATTCTGTCACCTAATTCTAATTCTG
* * *
95663091 ATTCTGACTCTGATTCTATCACCTGATTCTGATTCTGAT
1 ATTCTGATTCTGATTCTATTACCTGATACTGATTCTGAT
95663130 CCTTATTTTG
Statistics
Matches: 142, Mismatches: 21, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
62 95 0.67
68 47 0.33
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.45
Consensus pattern (62 bp):
ATTCTGATTCTGATTCTATTACCTGATACTGATTCTGATTCTGTCACCTAATTCTAATTCTG
Found at i:95662999 original size:25 final size:24
Alignment explanation
Indices: 95662971--95663034 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 24
95662961 ATTCTGATTT
* *
95662971 TGATTCTGATTCTGTTACCTGATAC
1 TGATTCTGATTCTGTCACCTAAT-C
* *
95662996 TGATTATAATTCTGTCACCTAACTC
1 TGATTCTGATTCTGTCACCTAA-TC
*
95663021 TTATTCTGATTCTG
1 TGATTCTGATTCTG
95663035 ATTCTGATTC
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
25 30 0.97
26 1 0.03
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.45
Consensus pattern (24 bp):
TGATTCTGATTCTGTCACCTAATC
Found at i:95663014 original size:68 final size:67
Alignment explanation
Indices: 95662899--95663107 Score: 266
Period size: 68 Copynumber: 3.2 Consensus size: 67
95662889 TTGCATTCAC
* * * * *
95662899 ATTCTGATTCTAATTCTATTACCTGATACAGATTCTGATTCTATCACCTAATTCTGATTCTGATT
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTATGATTCTGTCACCTAATTCT-ATTCTGATT
95662964 CTG
65 CTG
* * *
95662967 ATTTTGATTCTGATTCTGTTACCTGATACTGATTATAATTCTGTCACCTAA--C---TCTTATTC
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTATGATTCTGTCACCTAATTCTATTCTGATTC
95663027 TG
66 TG
* *
95663029 ATTCTGATTCTGATTCTGTTACCTGACACTGATTTTGATTCTGTCACCTAATTCTAATTCTGATT
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTATGATTCTGTCACCTAATTCT-ATTCTGATT
95663094 CTG
65 CTG
*
95663097 ACTCTGATTCT
1 ATTCTGATTCT
95663108 ATCACCTGAT
Statistics
Matches: 121, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
62 56 0.46
64 1 0.01
66 1 0.01
68 63 0.52
ACGTcount: A:0.22, C:0.21, G:0.11, T:0.45
Consensus pattern (67 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTGATTATGATTCTGTCACCTAATTCTATTCTGATTC
TG
Found at i:95663054 original size:25 final size:25
Alignment explanation
Indices: 95663026--95663096 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
95663016 AACTCTTATT
*
95663026 CTGATTCTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGATTCTGTCAC
** *
95663051 CTGACACTGATTTTGATTCTGTCAC
1 CTGATTCTGATTCTGATTCTGTCAC
* *
95663076 CTAATTCTAATTCTGATTCTG
1 CTGATTCTGATTCTGATTCTG
95663097 ACTCTGATTC
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (25 bp):
CTGATTCTGATTCTGATTCTGTCAC
Found at i:95663068 original size:37 final size:37
Alignment explanation
Indices: 95662989--95663071 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
95662979 ATTCTGTTAC
* * *
95662989 CTGATACTGATTATAATTCTGTCACCTAACTCTTATT
1 CTGATTCTGATTATAATTCTGTCACCTAACACTGATT
* * * *
95663026 CTGATTCTGATTCTGATTCTGTTACCTGACACTGATT
1 CTGATTCTGATTATAATTCTGTCACCTAACACTGATT
*
95663063 TTGATTCTG
1 CTGATTCTG
95663072 TCACCTAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.45
Consensus pattern (37 bp):
CTGATTCTGATTATAATTCTGTCACCTAACACTGATT
Found at i:95663142 original size:37 final size:37
Alignment explanation
Indices: 95663057--95663145 Score: 115
Period size: 37 Copynumber: 2.4 Consensus size: 37
95663047 TTACCTGACA
* *
95663057 CTGATTTTGATTCTGTCACCTAATTCTAATTCTGATT
1 CTGATTTTGATTCTATCACCTAATTCTAATTCTGATC
* * * *
95663094 CTGACTCTGATTCTATCACCTGATTCTGATTCTGATC
1 CTGATTTTGATTCTATCACCTAATTCTAATTCTGATC
*
95663131 CTTATTTTGATTCTA
1 CTGATTTTGATTCTA
95663146 GTTCTGATAA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.20, C:0.21, G:0.11, T:0.47
Consensus pattern (37 bp):
CTGATTTTGATTCTATCACCTAATTCTAATTCTGATC
Found at i:95665025 original size:27 final size:27
Alignment explanation
Indices: 95665003--95665145 Score: 160
Period size: 27 Copynumber: 5.3 Consensus size: 27
95664993 AGAATTACTG
**
95665003 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCA
* * *
95665030 AAATACCCCTGCTTTGTAAAATTACCC
1 AAATACCCTTGGTTTGTAAAATTACCA
*
95665057 AAATACCCTTAGTTTGTAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCA
* * * *
95665084 AAATACCCTTGATGTGTGAAATTACCG
1 AAATACCCTTGGTTTGTAAAATTACCA
* **
95665111 AAATACCCTCGACTTGTAAAATTACCA
1 AAATACCCTTGGTTTGTAAAATTACCA
*
95665138 AAGTACCC
1 AAATACCC
95665146 CCGATTTACA
Statistics
Matches: 96, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 96 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATACCCTTGGTTTGTAAAATTACCA
Found at i:95665214 original size:27 final size:27
Alignment explanation
Indices: 95665192--95665298 Score: 151
Period size: 27 Copynumber: 4.0 Consensus size: 27
95665182 AAAATTATTG
* * *
95665192 AAATACCTCTGTAGGGTAGAATTACTA
1 AAATACCCCTATAGGGTAGAATTACCA
95665219 AAATACCCCTATAGGGTAGAATTACCA
1 AAATACCCCTATAGGGTAGAATTACCA
* * *
95665246 AAATACCCTTATAGGGTAGAAATACCG
1 AAATACCCCTATAGGGTAGAATTACCA
*
95665273 AAATACCCCTGTAGGGTAGAATTACC
1 AAATACCCCTATAGGGTAGAATTACC
95665299 GAGATACCTT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (27 bp):
AAATACCCCTATAGGGTAGAATTACCA
Found at i:95665317 original size:27 final size:27
Alignment explanation
Indices: 95665191--95665325 Score: 139
Period size: 27 Copynumber: 5.0 Consensus size: 27
95665181 CAAAATTATT
*
95665191 GAAATA-CCTCTGTAGGGTAGAATTACT
1 GAAATACCCT-TGTAGGGTAGAATTACC
* * *
95665218 AAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
95665245 AAAATACCCTTATAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
*
95665272 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
95665299 GAGATACCTTTGT-GAGGTAAAATTACC
1 GAAATACCCTTGTAG-GGTAGAATTACC
95665326 ATTTTGCCCT
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 89 0.97
28 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTACC
Found at i:95665890 original size:22 final size:22
Alignment explanation
Indices: 95665838--95665898 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
95665828 GCCAATTATT
* *
95665838 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
95665860 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
95665882 CTGATTATGGCTGTGTG
1 CTGATTATGGCTCTGTG
95665899 TCAAACATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
21 1 0.03
22 30 0.94
23 1 0.03
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.33
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:95666090 original size:27 final size:26
Alignment explanation
Indices: 95666060--95666166 Score: 88
Period size: 27 Copynumber: 4.0 Consensus size: 26
95666050 TATTCTGTTA
*
95666060 AGTGGCTTTGCCACATTATCTGTTTCT
1 AGTGGCTTTGCCACAATATCTG-TTCT
*
95666087 AGTGGCTATGCCACAAATATCTGTTCT
1 AGTGGCTTTGCCAC-AATATCTGTTCT
* * * *
95666114 GGTAGTTTTGCCACAATATTTGTATCT
1 AGTGGCTTTGCCACAATATCTGT-TCT
* * * **
95666141 GGTGACTCTATCACAATATCTGTTCT
1 AGTGGCTTTGCCACAATATCTGTTCT
95666167 GGTAGGCATG
Statistics
Matches: 64, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
26 11 0.17
27 46 0.72
28 7 0.11
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (26 bp):
AGTGGCTTTGCCACAATATCTGTTCT
Found at i:95666124 original size:54 final size:53
Alignment explanation
Indices: 95666066--95666171 Score: 131
Period size: 54 Copynumber: 2.0 Consensus size: 53
95666056 GTTAAGTGGC
* * * *
95666066 TTTGCCACATTATCTGTTTCTAGTGGCTATGCCACAAATATCTGTTCTGGTAGT
1 TTTGCCACAATATCTGTATCTAGTGACTATACCAC-AATATCTGTTCTGGTAGT
* * * *
95666120 TTTGCCACAATATTTGTATCTGGTGACTCTATCACAATATCTGTTCTGGTAG
1 TTTGCCACAATATCTGTATCTAGTGACTATACCACAATATCTGTTCTGGTAG
95666172 GCATGCTGCA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
53 17 0.39
54 27 0.61
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.41
Consensus pattern (53 bp):
TTTGCCACAATATCTGTATCTAGTGACTATACCACAATATCTGTTCTGGTAGT
Found at i:95666297 original size:6 final size:6
Alignment explanation
Indices: 95666286--95666445 Score: 89
Period size: 6 Copynumber: 25.8 Consensus size: 6
95666276 TTGCGTTCAC
* * * *
95666286 ATTCTG ATTCTG ATTCTG -TTACCTG ATACGG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
95666336 ATTTTG ATTCTG ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * *
95666385 A-TCTTG -TCACCTA ACTCTG ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG
1 ATTC-TG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG
95666435 ATTCTG ATTCT
1 ATTCTG ATTCT
95666446 TTCACCTAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 34
0.68 0.12 0.20
Matches are distributed among these distances:
5 9 0.08
6 91 0.78
7 12 0.10
8 5 0.04
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (6 bp):
ATTCTG
Found at i:95666319 original size:25 final size:25
Alignment explanation
Indices: 95666291--95666353 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
95666281 TTCACATTCT
* *
95666291 GATTCTGATTCTGTTACCTGATACG
1 GATTCTGATTCTGTCACCTAATACG
***
95666316 GATTCTGATTCTGTCACCTAATTTT
1 GATTCTGATTCTGTCACCTAATACG
95666341 GATTCTGATTCTG
1 GATTCTGATTCTG
95666354 ATTCTGATTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.44
Consensus pattern (25 bp):
GATTCTGATTCTGTCACCTAATACG
Found at i:95666347 original size:56 final size:56
Alignment explanation
Indices: 95666286--95666476 Score: 258
Period size: 56 Copynumber: 3.3 Consensus size: 56
95666276 TTGCGTTCAC
*
95666286 ATTCTGATTCTGATTCTGTTACCTGATACGGATTCTGATTCTGTCACCTAATTTTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAA---T--TT-TG
* *
95666348 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGA-TCTTGTCACCTAACTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTC-TGTCACCTAATTTTG
*
95666404 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTTTCACCTAATTTTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTTTG
* *
95666460 ATTTTGATTCTAATTCT
1 ATTCTGATTCTGATTCT
95666477 CATTTTGATT
Statistics
Matches: 119, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
56 67 0.56
57 3 0.03
61 2 0.02
62 47 0.39
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.47
Consensus pattern (56 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTTTG
Found at i:95666349 original size:37 final size:37
Alignment explanation
Indices: 95666308--95666386 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
95666298 ATTCTGTTAC
**
95666308 CTGATACGGATTCTGATTCTGTCACCTAATTTTGATT
1 CTGATACGGATTCTGATTCTGTCACCTAATACTGATT
* * * *
95666345 CTGATTCTGATTCTGATTCTGTTACCTGATACTGATT
1 CTGATACGGATTCTGATTCTGTCACCTAATACTGATT
95666382 CTGAT
1 CTGAT
95666387 CTTGTCACCT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.20, C:0.19, G:0.16, T:0.44
Consensus pattern (37 bp):
CTGATACGGATTCTGATTCTGTCACCTAATACTGATT
Found at i:95666361 original size:62 final size:62
Alignment explanation
Indices: 95666286--95666476 Score: 279
Period size: 62 Copynumber: 3.2 Consensus size: 62
95666276 TTGCGTTCAC
*
95666286 ATTCTGATTCTGATTCTGTTACCTGATACGGATTCTGATTCTGTCACCTAATTTTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTTTGATTCTG
*
95666348 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGA-TCTTGTCACCT-A-----ACTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTC-TGTCACCTAATTTTGATTCTG
* *
95666404 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTTTCACCTAATTTTGATTTTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTTTGATTCTG
*
95666466 ATTCTAATTCT
1 ATTCTGATTCT
95666477 CATTTTGATT
Statistics
Matches: 115, Mismatches: 6, Indels: 16
0.84 0.04 0.12
Matches are distributed among these distances:
56 50 0.43
57 3 0.03
61 3 0.03
62 59 0.51
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.47
Consensus pattern (62 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTCACCTAATTTTGATTCTG
Found at i:95666373 original size:25 final size:26
Alignment explanation
Indices: 95666345--95666470 Score: 116
Period size: 25 Copynumber: 4.8 Consensus size: 26
95666335 AATTTTGATT
95666345 CTGATTCTGATTCTGATTCTGTT-AC
1 CTGATTCTGATTCTGATTCTGTTAAC
*
95666370 CTGATACTGATTCTGA-TCTTGTCACCTAAC
1 CTGATTCTGATTCTGATTC-TGT----TAAC
95666400 TCTGATTCTGATTCTGATTCTGTT-AC
1 -CTGATTCTGATTCTGATTCTGTTAAC
* *
95666426 CTGATACTGATTCTGATTCT-TTCAC
1 CTGATTCTGATTCTGATTCTGTTAAC
* * *
95666451 CTAATTTTGATTTTGATTCT
1 CTGATTCTGATTCTGATTCT
95666471 AATTCTCATT
Statistics
Matches: 85, Mismatches: 7, Indels: 18
0.77 0.06 0.16
Matches are distributed among these distances:
24 4 0.05
25 55 0.65
26 2 0.02
27 1 0.01
29 1 0.01
30 2 0.02
31 18 0.21
32 2 0.02
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.47
Consensus pattern (26 bp):
CTGATTCTGATTCTGATTCTGTTAAC
Found at i:95666474 original size:18 final size:18
Alignment explanation
Indices: 95666460--95666494 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
95666450 CCTAATTTTG
95666460 ATTTTGATTCTAATTCTC
1 ATTTTGATTCTAATTCTC
*
95666478 ATTTTGATTCTAGTTCT
1 ATTTTGATTCTAATTCT
95666495 GATAATGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.14, G:0.09, T:0.57
Consensus pattern (18 bp):
ATTTTGATTCTAATTCTC
Found at i:95674265 original size:43 final size:44
Alignment explanation
Indices: 95674204--95674378 Score: 148
Period size: 43 Copynumber: 4.1 Consensus size: 44
95674194 AAATCTCGTA
* * * *
95674204 CAATGCCAAC-GTCCTAGACGTGGTCTTGCATGTAATCAAATAT
1 CAATGCCAACTGTCCCAGACGTGGTCTTACACGAAATCAAATAT
* * *
95674247 CAATGCC-ACTGTCCTAGACAG-GGTCTTACACAAAATCAAAT-G
1 CAATGCCAACTGTCCCAGAC-GTGGTCTTACACGAAATCAAATAT
* * * * * *
95674289 CGATGCCGA-TGTCCCAAACATGGTCTTACATGAAAATCTCAA-AT
1 CAATGCCAACTGTCCCAGACGTGGTCTTACACG-AAATC-AAATAT
*
95674333 CAATGCCAA-TGTCCCAGACGTGGTCTTACACGAAATCACATAT
1 CAATGCCAACTGTCCCAGACGTGGTCTTACACGAAATCAAATAT
95674376 CAA
1 CAA
95674379 AAATTCTATG
Statistics
Matches: 104, Mismatches: 20, Indels: 16
0.74 0.14 0.11
Matches are distributed among these distances:
42 26 0.25
43 48 0.46
44 30 0.29
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.24
Consensus pattern (44 bp):
CAATGCCAACTGTCCCAGACGTGGTCTTACACGAAATCAAATAT
Found at i:95674314 original size:42 final size:41
Alignment explanation
Indices: 95674245--95674370 Score: 126
Period size: 44 Copynumber: 3.0 Consensus size: 41
95674235 GTAATCAAAT
* * * *
95674245 ATCAATGCCACTGTCCTAGACAGGGTCTTACACAAAATCAA
1 ATCAATGCCAATGTCCCAAACATGGTCTTACACAAAATCAA
* * *
95674286 ATGCGATGCCGATGTCCCAAACATGGTCTTACATGAAAATCTCAA
1 AT-CAATGCCAATGTCCCAAACATGGTCTTACA-CAAAA--TCAA
* * *
95674331 ATCAATGCCAATGTCCCAGACGTGGTCTTACACGAAATCA
1 ATCAATGCCAATGTCCCAAACATGGTCTTACACAAAATCA
95674371 CATATCAAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
41 5 0.07
42 24 0.35
43 7 0.10
44 26 0.38
45 6 0.09
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (41 bp):
ATCAATGCCAATGTCCCAAACATGGTCTTACACAAAATCAA
Found at i:95678039 original size:39 final size:39
Alignment explanation
Indices: 95677985--95678059 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
95677975 TTTAAGTCTC
95677985 CTTCACCGAAACTCCATAGTTTCAACTTCTCCAAGCAGA
1 CTTCACCGAAACTCCATAGTTTCAACTTCTCCAAGCAGA
* *
95678024 CTTCACTGAAACTCCATAGTTTCAACTTCTCTAAGC
1 CTTCACCGAAACTCCATAGTTTCAACTTCTCCAAGC
95678060 TTCGGCCTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.29
Consensus pattern (39 bp):
CTTCACCGAAACTCCATAGTTTCAACTTCTCCAAGCAGA
Found at i:95680153 original size:47 final size:44
Alignment explanation
Indices: 95680041--95680199 Score: 151
Period size: 46 Copynumber: 3.4 Consensus size: 44
95680031 TCACTGGTGT
* *
95680041 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATT-ATGA-
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGG---CATTGA-GAC
95680087 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGAC
* * * * *
95680133 GAGTGCTAGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAGAC
1 GA--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAC
95680179 GTAAGCCAGTGTAAGACATGT
1 G--AGCCAGTGTAAGACATGT
95680200 GTAACACCTT
Statistics
Matches: 97, Mismatches: 8, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
45 6 0.06
46 46 0.47
47 27 0.28
48 18 0.19
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (44 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAC
Found at i:95682204 original size:29 final size:29
Alignment explanation
Indices: 95682161--95682298 Score: 181
Period size: 29 Copynumber: 4.8 Consensus size: 29
95682151 CTTGGAATTA
* *
95682161 ATTTGGGCC-AGATGGGCCATATTAACATG
1 ATTTGGGCCTA-ATGGGCCATATGAACGTG
95682190 ATTTGGGCCTAATGGGCCATATGAACGTG
1 ATTTGGGCCTAATGGGCCATATGAACGTG
*
95682219 ATTTGGGCCTAATGAGCCATATGAACGTG
1 ATTTGGGCCTAATGGGCCATATGAACGTG
* * *
95682248 ATTTGGGCCTAATAGGCCATATGAATGAG
1 ATTTGGGCCTAATGGGCCATATGAACGTG
* *
95682277 A-TTGGGCCTAGTGGGCAATATG
1 ATTTGGGCCTAATGGGCCATATG
95682299 CATGTATGTA
Statistics
Matches: 98, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 18 0.18
29 79 0.81
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
ATTTGGGCCTAATGGGCCATATGAACGTG
Found at i:95682994 original size:11 final size:11
Alignment explanation
Indices: 95682978--95683003 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
95682968 ATTGTATGTA
95682978 TGATATTATTG
1 TGATATTATTG
95682989 TGATATTATTG
1 TGATATTATTG
95683000 TGAT
1 TGAT
95683004 GTGGGCTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:95683788 original size:50 final size:48
Alignment explanation
Indices: 95683693--95683856 Score: 169
Period size: 46 Copynumber: 3.5 Consensus size: 48
95683683 GTGTTACAAT
* * *
95683693 ATGTCTGGGACAT-GCATCGGCTACGA-GAT--GTGTCAGTGTAAGACC
1 ATGTCTGGGACATGGCATCAGC-ACGATGATAAGAGCCAGTGTAAGACC
* * * *
95683738 ATGTCTAGGACATGGCATCAGCACGAATAGGTGAGAGCTAGTGTAAGACC
1 ATGTCTGGGACATGGCATCAGCACG-AT-GATAAGAGCCAGTGTAAGACC
* *
95683788 ATGTCTGGGACATGGCATC--CTCGATGATAATAGCCAGTGTAAGACC
1 ATGTCTGGGACATGGCATCAGCACGATGATAAGAGCCAGTGTAAGACC
*
95683834 ATGTCCGGGACATGGCATCAGCA
1 ATGTCTGGGACATGGCATCAGCA
95683857 ACTTGCCCCA
Statistics
Matches: 97, Mismatches: 14, Indels: 13
0.78 0.11 0.10
Matches are distributed among these distances:
45 15 0.15
46 43 0.44
47 2 0.02
48 6 0.06
50 31 0.32
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (48 bp):
ATGTCTGGGACATGGCATCAGCACGATGATAAGAGCCAGTGTAAGACC
Found at i:95686809 original size:29 final size:30
Alignment explanation
Indices: 95686777--95686839 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
95686767 CACGGGCCGC
*
95686777 CACATGGTTGTGTGCCACACACG-CCACCT
1 CACATGGTCGTGTGCCACACACGACCACCT
* *
95686806 CACATGGTCGTGTGCCATACACGACCACTT
1 CACATGGTCGTGTGCCACACACGACCACCT
95686836 CACA
1 CACA
95686840 CGACCATGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.24, C:0.37, G:0.19, T:0.21
Consensus pattern (30 bp):
CACATGGTCGTGTGCCACACACGACCACCT
Found at i:95688136 original size:43 final size:43
Alignment explanation
Indices: 95688089--95688176 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
95688079 TCTTAGTGAT
95688089 TTTTATTATTTATGCCTCATTACCTTAAGCACTGATGGTTGAA
1 TTTTATTATTTATGCCTCATTACCTTAAGCACTGATGGTTGAA
*
95688132 TTTTATTATTTATGTCTCATTACCTTAAGCACTGATGGTTGAA
1 TTTTATTATTTATGCCTCATTACCTTAAGCACTGATGGTTGAA
95688175 TT
1 TT
95688177 ACTTGATTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.47
Consensus pattern (43 bp):
TTTTATTATTTATGCCTCATTACCTTAAGCACTGATGGTTGAA
Found at i:95692127 original size:163 final size:163
Alignment explanation
Indices: 95691857--95692173 Score: 483
Period size: 163 Copynumber: 1.9 Consensus size: 163
95691847 CAAAACCAAA
* * *
95691857 TCATTAGATGGATTTTATTGCTCCAAGAATTCAACATCGAGATTCGAGACAAGAAGGGATACAGA
1 TCATTAGATGGATTTTACTACTCCAAGAATTCAACATCAAGATTCGAGACAAGAAGGGATACAGA
*
95691922 AACTTAGTGGCTAACCACTTGAGTAGGTTAAAAACACCTTGTGATGACACTCCTATAAAGGATGA
66 AACTTAGTGGCTAACCACATGAGTAGGTTAAAAACACCTTGTGATGACACTCCTATAAAGGATGA
95691987 GTTTCCTGATGAGGGCCTATTTTCGACTAAGAC
131 GTTTCCTGATGAGGGCCTATTTTCGACTAAGAC
* ** * * * *
95692020 TCATTAGATGGATTTTACTACTTCAAGAATTTGACATCAAGCTTCGAGATACGAAGGGATGC-GA
1 TCATTAGATGGATTTTACTACTCCAAGAATTCAACATCAAGATTCGAGACAAGAAGGGATACAG-
* * *
95692084 AAACTTGGTGGTTGACCACATGAGTAGGTTAAAAACACCTTGTGATGACACTCCTATAAAGGATG
65 AAACTTAGTGGCTAACCACATGAGTAGGTTAAAAACACCTTGTGATGACACTCCTATAAAGGATG
*
95692149 AGTTTCCTGATGATGGCCTATTTTC
130 AGTTTCCTGATGAGGGCCTATTTTC
95692174 AGCGAAAGTG
Statistics
Matches: 138, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
162 1 0.01
163 137 0.99
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (163 bp):
TCATTAGATGGATTTTACTACTCCAAGAATTCAACATCAAGATTCGAGACAAGAAGGGATACAGA
AACTTAGTGGCTAACCACATGAGTAGGTTAAAAACACCTTGTGATGACACTCCTATAAAGGATGA
GTTTCCTGATGAGGGCCTATTTTCGACTAAGAC
Found at i:95696291 original size:105 final size:105
Alignment explanation
Indices: 95696109--95696301 Score: 228
Period size: 105 Copynumber: 1.8 Consensus size: 105
95696099 AAAATTAAGA
* * *
95696109 GTGTGTTGGGCTGAGTAACCGTGGTAGGGTGCTAGGGTTGTCATTCCACTTCGCATCAAAAGAGC
1 GTGTGTTGGGCTGAGTAACCGAGGTAGGGTGCTAGGGTTGTCATCCCACTTCACATCAAAAGAGC
* *
95696174 CAAAACGCTCTTAACCAAAAATAGTATAATAATAAAATAG
66 CAAAACACTCTTAACAAAAAATAGTATAATAATAAAATAG
* ** * *
95696214 GTGTGTTGGGTTGAGTAATTGAGGT-GAGGTGCCT-GGGTTGTCATCCCTCTTCACATCAAAAGG
1 GTGTGTTGGGCTGAGTAACCGAGGTAG-GGTG-CTAGGGTTGTCATCCCACTTCACATCAAAAGA
* * * *
95696277 GTCAATACATTCTTAAGAAAAAATA
64 GCCAAAACACTCTTAACAAAAAATA
95696302 CAAAAAAAAT
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
104 1 0.01
105 69 0.96
106 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (105 bp):
GTGTGTTGGGCTGAGTAACCGAGGTAGGGTGCTAGGGTTGTCATCCCACTTCACATCAAAAGAGC
CAAAACACTCTTAACAAAAAATAGTATAATAATAAAATAG
Found at i:95700253 original size:59 final size:62
Alignment explanation
Indices: 95700182--95700313 Score: 146
Period size: 64 Copynumber: 2.1 Consensus size: 62
95700172 AAACAACATG
* *
95700182 AGTCCAAATAAACA-ATGA-AAACAT-TACAACAAGATTATAATAAAAAAA-ACAAAAGTAAA
1 AGTCCAAATAAACACATGACAAA-ATAAACAACAACATTATAATAAAAAAACACAAAAGTAAA
* * * *
95700241 AGTCCAAGTAAACAGCATGAGTCGAAGTAAACAACAACATTATAATAAAAAAACACATAAGTAAA
1 AGTCCAAATAAACA-CATGA--CAAAATAAACAACAACATTATAATAAAAAAACACAAAAGTAAA
95700306 AGTCCAAA
1 AGTCCAAA
95700314 ATACAACAGA
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
59 13 0.22
61 4 0.07
63 1 0.02
64 24 0.41
65 17 0.29
ACGTcount: A:0.59, C:0.14, G:0.10, T:0.17
Consensus pattern (62 bp):
AGTCCAAATAAACACATGACAAAATAAACAACAACATTATAATAAAAAAACACAAAAGTAAA
Found at i:95700380 original size:22 final size:23
Alignment explanation
Indices: 95700352--95700400 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
95700342 AAAAAAGAAC
95700352 ACAACAAAAATCAAAT-AAA-CAA
1 ACAACAAAAA-CAAATCAAACCAA
*
95700374 ACAACAATAACAAATCAAACCAA
1 ACAACAAAAACAAATCAAACCAA
95700397 ACAA
1 ACAA
95700401 ATAACAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 5 0.21
22 12 0.50
23 7 0.29
ACGTcount: A:0.69, C:0.22, G:0.00, T:0.08
Consensus pattern (23 bp):
ACAACAAAAACAAATCAAACCAA
Found at i:95700403 original size:21 final size:19
Alignment explanation
Indices: 95700349--95700407 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 19
95700339 AAAAAAAAAG
95700349 AACACAACAAA-AATCAAATA
1 AACA-AACAAATAA-CAAATA
95700369 AACAAACAACAATAACAAATCA
1 AACAAAC-A-AATAACAAAT-A
95700391 AACCAAACAAATAACAA
1 AA-CAAACAAATAACAA
95700408 TAACACATCA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
19 3 0.09
20 5 0.15
21 15 0.44
22 6 0.18
23 5 0.15
ACGTcount: A:0.69, C:0.22, G:0.00, T:0.08
Consensus pattern (19 bp):
AACAAACAAATAACAAATA
Found at i:95700424 original size:27 final size:27
Alignment explanation
Indices: 95700359--95700418 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
95700349 AACACAACAA
*
95700359 AAATCAAA-TAAACAAACAACAATAAC
1 AAATCAAACCAAACAAACAACAATAAC
*
95700385 AAATCAAACCAAACAAATAACAATAAC
1 AAATCAAACCAAACAAACAACAATAAC
*
95700412 ACATCAA
1 AAATCAA
95700419 TTCAAAAACC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.67, C:0.22, G:0.00, T:0.12
Consensus pattern (27 bp):
AAATCAAACCAAACAAACAACAATAAC
Found at i:95703887 original size:23 final size:23
Alignment explanation
Indices: 95703833--95703914 Score: 94
Period size: 23 Copynumber: 3.5 Consensus size: 23
95703823 TCATCTCGTA
*
95703833 AGAGCTTACTGTTCTCAGCTC-AT
1 AGAGCTTACTGTT-TTAGCTCGAT
* *
95703856 ATGAACTTACTGTTTTAGCTCGTT
1 A-GAGCTTACTGTTTTAGCTCGAT
* *
95703880 AGAGCTTACCGTTTTAGCTCAAT
1 AGAGCTTACTGTTTTAGCTCGAT
95703903 AGAGCTTACTGT
1 AGAGCTTACTGT
95703915 CCATCAGCTC
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
23 36 0.73
24 13 0.27
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (23 bp):
AGAGCTTACTGTTTTAGCTCGAT
Found at i:95707657 original size:18 final size:18
Alignment explanation
Indices: 95707634--95707671 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
95707624 ATATAGTTTA
*
95707634 TATTCGATTTATTCAAAT
1 TATTCGAGTTATTCAAAT
*
95707652 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCAAAT
95707670 TA
1 TA
95707672 GAAAATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (18 bp):
TATTCGAGTTATTCAAAT
Found at i:95718565 original size:5 final size:5
Alignment explanation
Indices: 95718555--95718595 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
95718545 AATGGTTAAA
**
95718555 TTTCT TTTC- TTT-T TTTAA TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
95718596 GAAGTGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
4 6 0.19
5 25 0.81
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:95719080 original size:2 final size:2
Alignment explanation
Indices: 95719075--95719109 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
95719065 ACCAATGGAG
*
95719075 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
95719110 TAATTTGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:95719348 original size:21 final size:20
Alignment explanation
Indices: 95719306--95719378 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 20
95719296 AATCATACTA
* * *
95719306 ATTTTTATATTTTTTGTGAT
1 ATTTTTATAATTTTGGTAAT
95719326 ATTTTTATAATTTTGGTTAAT
1 ATTTTTATAATTTTGG-TAAT
*
95719347 A-TTTTATAAATTT--TAATT
1 ATTTTTATAATTTTGGTAA-T
*
95719365 AATTTTATAATTTT
1 ATTTTTATAATTTT
95719379 TATGCTTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
17 3 0.07
18 2 0.04
19 11 0.24
20 25 0.56
21 4 0.09
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
ATTTTTATAATTTTGGTAAT
Found at i:95720558 original size:27 final size:27
Alignment explanation
Indices: 95720523--95720612 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
95720513 TCCATGAAGC
* *
95720523 CATTTCTTTCATATTGTGCCACAAAGG
1 CATTCCTTTCATATTGCGCCACAAAGG
* * * *
95720550 CGTTCCTTTCGTATTGCGTCACAAAAG
1 CATTCCTTTCATATTGCGCCACAAAGG
* *
95720577 CATTCCTTTCATATTGCACCACAAAGA
1 CATTCCTTTCATATTGCGCCACAAAGG
95720604 CATTCCTTT
1 CATTCCTTT
95720613 AAGGTTCGTC
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.36
Consensus pattern (27 bp):
CATTCCTTTCATATTGCGCCACAAAGG
Found at i:95721569 original size:6 final size:6
Alignment explanation
Indices: 95721558--95721668 Score: 68
Period size: 6 Copynumber: 17.8 Consensus size: 6
95721548 TATCAAAACT
* *
95721558 AGAATC AGAATC AGAATC AGAATT AGGTAA-- AGAAATT AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AG-AATC AGAATC AGAATC
* * *
95721607 AGTATC AGGTAA-C AGAATC AAAATC AGAATC AGTATC AGGTAA-C AGAATC
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
*
95721657 AAAAATC AGAAT
1 -AGAATC AGAAT
95721669 GTGAATGCAA
Statistics
Matches: 83, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
5 7 0.08
6 58 0.70
7 14 0.17
8 4 0.05
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:95721602 original size:31 final size:32
Alignment explanation
Indices: 95721560--95721668 Score: 143
Period size: 31 Copynumber: 3.5 Consensus size: 32
95721550 TCAAAACTAG
* *
95721560 AATCAGAATCAGAATCAGAATTAGGTAA-AGA
1 AATCAGAATCAGAATCAGTATCAGGTAACAGA
*
95721591 AATTAGAATCAGAATCAGTATCAGGTAACAG-
1 AATCAGAATCAGAATCAGTATCAGGTAACAGA
*
95721622 AATCAAAATCAGAATCAGTATCAGGTAACAG-
1 AATCAGAATCAGAATCAGTATCAGGTAACAGA
*
95721653 AATCAAAAATCAGAAT
1 AATC-AGAATCAGAAT
95721669 GTGAATGCAA
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
31 58 0.82
32 13 0.18
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (32 bp):
AATCAGAATCAGAATCAGTATCAGGTAACAGA
Found at i:95721624 original size:19 final size:19
Alignment explanation
Indices: 95721600--95721657 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
95721590 AAATTAGAAT
95721600 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
*
95721619 CAGAATCA--A--A---AT
1 CAGAATCAGTATCAGGTAA
95721631 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCAGGTAA
95721650 CAGAATCA
1 CAGAATCA
95721658 AAAATCAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 9 0.30
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
19 17 0.57
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (19 bp):
CAGAATCAGTATCAGGTAA
Found at i:95721847 original size:27 final size:27
Alignment explanation
Indices: 95721805--95721906 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
95721795 GCTCAGTTAT
* * *
95721805 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGAAA
95721832 CAGATATTGTGGCAGAGCCACCA-AAA
1 CAGATATTGTGGCAGAGCCACCAGAAA
*
95721858 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAGAAA
* *
95721886 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
95721907 TTAACAGAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 8 0.12
27 50 0.75
28 9 0.13
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGAAA
Found at i:95722602 original size:27 final size:27
Alignment explanation
Indices: 95722572--95722799 Score: 282
Period size: 27 Copynumber: 8.4 Consensus size: 27
95722562 TACCCCACAA
* * *
95722572 GGTATCTCGATAATTCCACCCTATAGG
1 GGTATTTCGATAATTCTACCCTACAGG
*
95722599 GGTATTT-TAGTAATTCTACCCTACAGG
1 GGTATTTCGA-TAATTCTACCCTACAGG
* *
95722626 GGTATTTCGGTAATTCTACCTTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
*
95722653 GGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* *
95722680 GGTATTTCGGTAATTCTACCCTATAGG
1 GGTATTTCGATAATTCTACCCTACAGG
*
95722707 GGTATTTC-AGTAATTCTACCCTATAGG
1 GGTATTTCGA-TAATTCTACCCTACAGG
*
95722734 GGTATTTC-AGTAATTCTACCCTACAAG
1 GGTATTTCGA-TAATTCTACCCTACAGG
* * *
95722761 GGTATTCCGGTAATTCTACCCTACAGT
1 GGTATTTCGATAATTCTACCCTACAGG
95722788 GGTATTTCGATA
1 GGTATTTCGATA
95722800 TTTTACAAAT
Statistics
Matches: 175, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 174 0.99
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTATTTCGATAATTCTACCCTACAGG
Found at i:95722708 original size:81 final size:81
Alignment explanation
Indices: 95722579--95722796 Score: 312
Period size: 81 Copynumber: 2.7 Consensus size: 81
95722569 CAAGGTATCT
* * **
95722579 CGATAATTCCACCCTATAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
1 CGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
*
95722644 CCTTACAGGGGTATTG
66 CCCTACAGGGGTATTG
* *
95722660 CGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTA
1 CGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
* *
95722725 CCCTATAGGGGTATTT
66 CCCTACAGGGGTATTG
* * *
95722741 C-AGTAATTCTACCCTACAAGGGTATTCCGGTAATTCTACCCTACAGTGGTATTTCG
1 CGA-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCG
95722797 ATATTTTACA
Statistics
Matches: 122, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
80 1 0.01
81 121 0.99
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (81 bp):
CGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
CCCTACAGGGGTATTG
Found at i:95722836 original size:27 final size:27
Alignment explanation
Indices: 95722788--95722964 Score: 128
Period size: 27 Copynumber: 6.6 Consensus size: 27
95722778 ACCCTACAGT
* *
95722788 GGTATTTCGAT-ATTTTACAAATC-GA
1 GGTATTTTGATAATTTTACAAATCAAA
*
95722813 GAGTATTTTGATAATTTCACAAATCAAA
1 G-GTATTTTGATAATTTTACAAATCAAA
* * * **
95722841 GGTATTTTGGTAATTTTACAAGTTAGG
1 GGTATTTTGATAATTTTACAAATCAAA
* * **
95722868 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGATAATTTTACAAATCAAA
* **
95722895 GGTATTTT-AGTAATTTTACAAACCAGG
1 GGTATTTTGA-TAATTTTACAAATCAAA
* ** *
95722922 GGTATTTTGGTAATTTTACTGATC-GA
1 GGTATTTTGATAATTTTACAAATCAAA
*
95722948 GGTATTTTGGTAATTTT
1 GGTATTTTGATAATTTT
95722965 GTAAACTAAG
Statistics
Matches: 129, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
25 1 0.01
26 27 0.21
27 99 0.77
28 2 0.02
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
GGTATTTTGATAATTTTACAAATCAAA
Found at i:95722873 original size:54 final size:54
Alignment explanation
Indices: 95722815--95722964 Score: 194
Period size: 54 Copynumber: 2.8 Consensus size: 54
95722805 CAAATCGAGA
* * * ***
95722815 GTATTTTGATAATTTCACAAATCAAAGGTATTTTGGTAATTTTACAAGTTAGGG
1 GTATTTTGGTAATTTTACAAATCAGAGGTATTTTGGTAATTTTACAAACCAGGG
* * *
95722869 GTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTACAAATCAGAGGTATTTTGGTAATTTTACAAACCAGGG
**
95722923 GTATTTTGGTAATTTTACTGATC-GAGGTATTTTGGTAATTTT
1 GTATTTTGGTAATTTTACAAATCAGAGGTATTTTGGTAATTTT
95722965 GTAAACTAAG
Statistics
Matches: 82, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
53 17 0.21
54 65 0.79
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (54 bp):
GTATTTTGGTAATTTTACAAATCAGAGGTATTTTGGTAATTTTACAAACCAGGG
Found at i:95722909 original size:81 final size:80
Alignment explanation
Indices: 95722815--95722964 Score: 203
Period size: 81 Copynumber: 1.9 Consensus size: 80
95722805 CAAATCGAGA
* * *
95722815 GTATTTTGATAATTTCACAAATCAAAGGTATTTTGGTAATTTTACAAGTTAGGGGTATTTTGGTA
1 GTATTTTGATAATTTCACAAACCAAAGGTATTTTGGTAATTTTAC-AGATAGAGGTATTTTGGTA
95722880 ATTTTACAAACCAGGG
65 ATTTTACAAACCAGGG
* ** * *
95722896 GTATTTT-AGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACTGATCGAGGTATTTTGGTA
1 GTATTTTGA-TAATTTCACAAACCAAAGGTATTTTGGTAATTTTACAGATAGAGGTATTTTGGTA
95722960 ATTTT
65 ATTTT
95722965 GTAAACTAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
80 21 0.35
81 39 0.65
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (80 bp):
GTATTTTGATAATTTCACAAACCAAAGGTATTTTGGTAATTTTACAGATAGAGGTATTTTGGTAA
TTTTACAAACCAGGG
Found at i:95723285 original size:27 final size:27
Alignment explanation
Indices: 95722985--95723278 Score: 453
Period size: 27 Copynumber: 10.9 Consensus size: 27
95722975 GGTATTTCAA
* * *
95722985 TAATTTTGTAAATCGAGGATAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACAG
*
95723012 TAATTCTGTAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACAG
* *
95723039 TAATTCTATAAATCGAGGGTAAAATAG
1 TAATTCTGTAAATCGAGGGTAAAACAG
*
95723066 TAATTCTATAAATCGAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAACAG
95723093 TAATTCTGTAAATCGAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAACAG
*
95723120 TAATTCTGTAAATCGAGGGTAAAATAG
1 TAATTCTGTAAATCGAGGGTAAAACAG
95723147 TAATTCTGTAAATCGAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAACAG
* **
95723174 TAATTCTATAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACAG
* *
95723201 TAATTTTGTAAATCGAGGGTAAAACAA
1 TAATTCTGTAAATCGAGGGTAAAACAG
* *
95723228 TAATTCTATAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACAG
95723255 TAATTCTGTAAATCGAGGGTAAAA
1 TAATTCTGTAAATCGAGGGTAAAA
95723279 TGGTAATCCT
Statistics
Matches: 245, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 245 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.28
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACAG
Found at i:95723323 original size:27 final size:27
Alignment explanation
Indices: 95723293--95723387 Score: 102
Period size: 27 Copynumber: 3.5 Consensus size: 27
95723283 AATCCTATCT
* *
95723293 TATTTCAGTAATTTTACAACTCGAGGA
1 TATTTCAGTAATTTTACAAATCGAGGG
** * *
95723320 TATTTGGGTAATTTTATAAATCGGGGG
1 TATTTCAGTAATTTTACAAATCGAGGG
* *
95723347 TACTTT-GGTAATTTTACAAGTCGAGGG
1 TA-TTTCAGTAATTTTACAAATCGAGGG
95723374 TATTTCAGTAATTT
1 TATTTCAGTAATTT
95723388 GGTAAACTAA
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.05
27 50 0.89
28 3 0.05
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
TATTTCAGTAATTTTACAAATCGAGGG
Found at i:95729690 original size:64 final size:64
Alignment explanation
Indices: 95729617--95729747 Score: 262
Period size: 64 Copynumber: 2.0 Consensus size: 64
95729607 TAAGATGATG
95729617 TCAACTTCATCCCAAAGGAAACACCTTCAATCCTTTTTAACCACTAACCCCAAGAAACTCCTAT
1 TCAACTTCATCCCAAAGGAAACACCTTCAATCCTTTTTAACCACTAACCCCAAGAAACTCCTAT
95729681 TCAACTTCATCCCAAAGGAAACACCTTCAATCCTTTTTAACCACTAACCCCAAGAAACTCCTAT
1 TCAACTTCATCCCAAAGGAAACACCTTCAATCCTTTTTAACCACTAACCCCAAGAAACTCCTAT
95729745 TCA
1 TCA
95729748 CAAGTTTGAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.36, C:0.34, G:0.05, T:0.25
Consensus pattern (64 bp):
TCAACTTCATCCCAAAGGAAACACCTTCAATCCTTTTTAACCACTAACCCCAAGAAACTCCTAT
Found at i:95733295 original size:40 final size:40
Alignment explanation
Indices: 95733128--95733295 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
95733118 CGGAATATAA
* ** * *
95733128 CCGGATATAATCACGTGCACAAATGCCCTCGGGTCTTAGC
1 CCGGATATAAACACCAGCACAATTGCCTTCGGGTCTTAGC
*
95733168 CCGGATAGAATA-ACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAA-ACAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
** * *
95733208 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAACACCAGCACAATTGCCTTCGGGTCTTAGC
** * *
95733248 CCGGATATAAATTCCAGCATAATTGCCTTCGGGGCTTAGC
1 CCGGATATAAACACCAGCACAATTGCCTTCGGGTCTTAGC
95733288 CCGGATAT
1 CCGGATAT
95733296 CATTCAATTT
Statistics
Matches: 105, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
39 2 0.02
40 101 0.96
41 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAAACACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:95736491 original size:49 final size:49
Alignment explanation
Indices: 95736416--95736513 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 49
95736406 TTATGTATGA
* *
95736416 AAAGTCATTGGTTATATACCTATTATACACATGAAAAATAAGATTCACT
1 AAAGTCATTGGTTATATACATATTATACACATGAAAAACAAGATTCACT
* *
95736465 AAAGTCATTGGTTATATACATGTTATATACATGAAAAACAAGATTCACT
1 AAAGTCATTGGTTATATACATATTATACACATGAAAAACAAGATTCACT
95736514 CTCAAAGTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (49 bp):
AAAGTCATTGGTTATATACATATTATACACATGAAAAACAAGATTCACT
Found at i:95744542 original size:30 final size:30
Alignment explanation
Indices: 95744506--95744587 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
95744496 CATGACACAT
* *
95744506 GGGCGTGTGGCCTACCCGTGTGTTTAACAC
1 GGGCGTGTGGCCTACCCGTGTGTCTAACAA
* *
95744536 GGGCGTGTGACCTACTCGTGTGTCTAACAA
1 GGGCGTGTGGCCTACCCGTGTGTCTAACAA
* * **
95744566 GGGTGCGTGGATTACCCGTGTG
1 GGGCGTGTGGCCTACCCGTGTG
95744588 GAAGTGCCTA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.15, C:0.23, G:0.35, T:0.27
Consensus pattern (30 bp):
GGGCGTGTGGCCTACCCGTGTGTCTAACAA
Found at i:95754834 original size:26 final size:26
Alignment explanation
Indices: 95754801--95754855 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
95754791 CCCTCTTTGA
95754801 TCAATAAAGTACATTTTATATTGCTT
1 TCAATAAAGTACATTTTATATTGCTT
*
95754827 TCAATAAAGTGCATTTTATATTGCTT
1 TCAATAAAGTACATTTTATATTGCTT
95754853 TCA
1 TCA
95754856 TATTTTTAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.45
Consensus pattern (26 bp):
TCAATAAAGTACATTTTATATTGCTT
Found at i:95758433 original size:27 final size:28
Alignment explanation
Indices: 95758403--95758459 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
95758393 TTTGTGTATT
*
95758403 TGTGAAA-GAGGGACTAAATTGTAAAAA
1 TGTGAAACGAGGGACTAAAGTGTAAAAA
* *
95758430 TGTGAAACTTAGGGGCTAAAGTGTAAAAA
1 TGTGAAAC-GAGGGACTAAAGTGTAAAAA
95758459 T
1 T
95758460 TCCCAAATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 7 0.28
29 18 0.72
ACGTcount: A:0.44, C:0.05, G:0.26, T:0.25
Consensus pattern (28 bp):
TGTGAAACGAGGGACTAAAGTGTAAAAA
Found at i:95758893 original size:43 final size:42
Alignment explanation
Indices: 95758811--95758966 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 42
95758801 TGTGACTACA
* *
95758811 TGTAAGACCATGTCTGGGACATTGGCATTGTATTTTGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTA-TATGATTATG
*
95758854 TGTAAGACCATGTCTGGGACATTGGCACCGTTATATGATT-TCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-TATATGATTAT-G
* * * * * **
95758897 TGTAAGA-CACTGTCTAGGATAGTGGCATCGATATGTGATAACA
1 TGTAAGACCA-TGTCTGGGACATTGGCATCG-TATATGATTATG
* *
95758940 TGTAAGACCATATCTGGGATA-TGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
95758967 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
42 9 0.10
43 81 0.86
44 4 0.04
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTATG
Found at i:95759126 original size:22 final size:22
Alignment explanation
Indices: 95759101--95759145 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
95759091 AGTATTTGAA
95759101 AAGGGAAGTATTTGATGAACTC
1 AAGGGAAGTATTTGATGAACTC
95759123 AAGGGAAGTATTTGATGAACTC
1 AAGGGAAGTATTTGATGAACTC
95759145 A
1 A
95759146 CTTACGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.09, G:0.27, T:0.27
Consensus pattern (22 bp):
AAGGGAAGTATTTGATGAACTC
Found at i:95761194 original size:18 final size:18
Alignment explanation
Indices: 95761149--95761194 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
95761139 ATGCTAGAAC
95761149 TTATATG-TTTAATATTA
1 TTATATGATTTAATATTA
* *
95761166 -TAAATGTATTTAATTTTA
1 TTATATG-ATTTAATATTA
95761184 TTATATGATTT
1 TTATATGATTT
95761195 TTTTCTTGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
16 5 0.22
18 13 0.57
19 5 0.22
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.59
Consensus pattern (18 bp):
TTATATGATTTAATATTA
Found at i:95764620 original size:40 final size:40
Alignment explanation
Indices: 95764556--95764634 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
95764546 ATACGGTACC
* * *
95764556 ACTTGGTGTGTAGGGTTGGATGGGTTGATTTTATCCCCAT
1 ACTTGGTGTGTAGGGCTGGATGGGTCGATTTCATCCCCAT
*
95764596 ACTTGGTGTGTAGGGCTGGGTGGGTCGATTTCATCCCCA
1 ACTTGGTGTGTAGGGCTGGATGGGTCGATTTCATCCCCA
95764635 CATGGTGTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.14, C:0.16, G:0.34, T:0.35
Consensus pattern (40 bp):
ACTTGGTGTGTAGGGCTGGATGGGTCGATTTCATCCCCAT
Found at i:95772251 original size:46 final size:46
Alignment explanation
Indices: 95772201--95772373 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
95772191 TGGTTGAGCA
*
95772201 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
95772247 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
95772294 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
95772340 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
95772374 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:95772357 original size:93 final size:93
Alignment explanation
Indices: 95772198--95772368 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
95772188 GGATGGTTGA
* *
95772198 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
95772263 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
95772291 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
95772356 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
95772369 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:95772635 original size:19 final size:20
Alignment explanation
Indices: 95772598--95772635 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
95772588 ATAAGGTGGT
95772598 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
95772618 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
95772636 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:95779829 original size:46 final size:46
Alignment explanation
Indices: 95779779--95779951 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
95779769 TGGTTGAGCA
*
95779779 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
95779825 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
95779872 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
95779918 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
95779952 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:95779935 original size:93 final size:93
Alignment explanation
Indices: 95779776--95779946 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
95779766 GGATGGTTGA
* *
95779776 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
95779841 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
95779869 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
95779934 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
95779947 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:95780213 original size:19 final size:20
Alignment explanation
Indices: 95780176--95780213 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
95780166 ATAAGGTGGT
95780176 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
95780196 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
95780214 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:95782253 original size:40 final size:40
Alignment explanation
Indices: 95782189--95782267 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
95782179 ATACGGTACC
*
95782189 ACTTGGTGTATAGGGTTGGATGGGTCGATTAT-ATCCCCAT
1 ACTTGGTGTATAGGGCTGGATGGGTCGATT-TCATCCCCAT
* * *
95782229 ACTTGGTGTGTAGGGCTGGGTGGGTTGATTTCATCCCCA
1 ACTTGGTGTATAGGGCTGGATGGGTCGATTTCATCCCCA
95782268 CATGGTGTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.03
40 33 0.97
ACGTcount: A:0.16, C:0.16, G:0.33, T:0.34
Consensus pattern (40 bp):
ACTTGGTGTATAGGGCTGGATGGGTCGATTTCATCCCCAT
Found at i:95783374 original size:37 final size:37
Alignment explanation
Indices: 95783333--95783481 Score: 253
Period size: 37 Copynumber: 4.0 Consensus size: 37
95783323 TGGTAATTTC
*
95783333 AAGACTTATGTCATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
95783370 AAGACTTATGTAATGTTTTTAATTATGTAATGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
* *
95783407 AATACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
95783444 AATACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
95783481 A
1 A
95783482 TTCGGTTAAT
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.47
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:95783380 original size:20 final size:19
Alignment explanation
Indices: 95783355--95783458 Score: 81
Period size: 20 Copynumber: 5.5 Consensus size: 19
95783345 ATGTTTTTAA
*
95783355 TTATGTAGTGATTCAAAGAC
1 TTATGTAATGATTCAAA-AC
***
95783375 TTATGTAATG-TTTTTAA-
1 TTATGTAATGATTCAAAAC
95783392 TTATGTAATGATTCAAATAC
1 TTATGTAATGATTCAAA-AC
***
95783412 TTATGTAAT-ATTTTTAA-
1 TTATGTAATGATTCAAAAC
*
95783429 TTATGTAGTGATTCAAATAC
1 TTATGTAATGATTCAAA-AC
95783449 TTATGTAATG
1 TTATGTAATG
95783459 TTTTTAATTA
Statistics
Matches: 63, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
17 18 0.29
18 9 0.14
19 9 0.14
20 27 0.43
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (19 bp):
TTATGTAATGATTCAAAAC
Found at i:95783397 original size:17 final size:17
Alignment explanation
Indices: 95783338--95783472 Score: 72
Period size: 17 Copynumber: 7.4 Consensus size: 17
95783328 ATTTCAAGAC
*
95783338 TTATGTCATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
95783355 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
95783374 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
** *
95783392 TTATGTAATGATTCAAATAC
1 TTATGTAATG-TT--TTTAA
*
95783412 TTATGTAATATTTTTAA
1 TTATGTAATGTTTTTAA
* ** *
95783429 TTATGTAGTGATTCAAATAC
1 TTATGTAATG-TT--TTTAA
95783449 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
95783466 TTATGTA
1 TTATGTA
95783473 GTGATTCAAT
Statistics
Matches: 84, Mismatches: 25, Indels: 18
0.66 0.20 0.14
Matches are distributed among these distances:
17 37 0.44
18 8 0.10
19 8 0.10
20 31 0.37
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.50
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:95783500 original size:9 final size:9
Alignment explanation
Indices: 95783480--95783520 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
95783470 GTAGTGATTC
*
95783480 AATTCGGTT
1 AATTCGGGT
*
95783489 AATTAGGGT
1 AATTCGGGT
*
95783498 AATTCGGTT
1 AATTCGGGT
95783507 AATTCGGGT
1 AATTCGGGT
95783516 AATTC
1 AATTC
95783521 AATTAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (9 bp):
AATTCGGGT
Found at i:95783503 original size:18 final size:18
Alignment explanation
Indices: 95783480--95783520 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
95783470 GTAGTGATTC
95783480 AATTCGGTTAATTAGGGT
1 AATTCGGTTAATTAGGGT
*
95783498 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTAGGGT
95783516 AATTC
1 AATTC
95783521 AATTAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (18 bp):
AATTCGGTTAATTAGGGT
Found at i:95783526 original size:18 final size:18
Alignment explanation
Indices: 95783487--95783528 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
95783477 TTCAATTCGG
**
95783487 TTAATTAGGGTAATTCGG
1 TTAATTAGGGTAATTCAA
*
95783505 TTAATTCGGGTAATTCAA
1 TTAATTAGGGTAATTCAA
95783523 TTAATT
1 TTAATT
95783529 TTTAACCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (18 bp):
TTAATTAGGGTAATTCAA
Found at i:95804033 original size:6 final size:6
Alignment explanation
Indices: 95804022--95804064 Score: 59
Period size: 6 Copynumber: 6.8 Consensus size: 6
95804012 TAAAGGAGAA
*
95804022 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAA GATAGAGT GAAGA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA-AGA-T GAAGA
95804065 GATGGAGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
6 25 0.76
7 6 0.18
8 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.35, T:0.14
Consensus pattern (6 bp):
GAAGAT
Found at i:95804037 original size:15 final size:15
Alignment explanation
Indices: 95803989--95804054 Score: 59
Period size: 15 Copynumber: 4.6 Consensus size: 15
95803979 AGTGACATAC
* *
95803989 GAAGGAGATGAAGTT
1 GAAGAAGATGAAGAT
* *
95804004 GCAGAAGATAAAGGA-
1 GAAGAAGATGAA-GAT
95804019 GAAGAAGATGAAGAT
1 GAAGAAGATGAAGAT
95804034 ---GAAGATGAAGAT
1 GAAGAAGATGAAGAT
95804046 GAAGAAGAT
1 GAAGAAGAT
95804055 AGAGTGAAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
12 12 0.30
14 2 0.05
15 25 0.62
16 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.35, T:0.14
Consensus pattern (15 bp):
GAAGAAGATGAAGAT
Found at i:95807198 original size:20 final size:20
Alignment explanation
Indices: 95807173--95807216 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
95807163 TAAATTTAAT
95807173 TTTAATATAATATTTGGTAA
1 TTTAATATAATATTTGGTAA
* * *
95807193 TTTAATTTAATTTTTGTTAA
1 TTTAATATAATATTTGGTAA
95807213 TTTA
1 TTTA
95807217 GTACTTAAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (20 bp):
TTTAATATAATATTTGGTAA
Found at i:95814323 original size:20 final size:20
Alignment explanation
Indices: 95814298--95814336 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
95814288 CTATTTGCAA
95814298 ATTTTAATTATTT-AAAAAAT
1 ATTTT-ATTATTTGAAAAAAT
*
95814318 ATTTTATTTTTTGAAAAAA
1 ATTTTATTATTTGAAAAAA
95814337 AAATATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
ATTTTATTATTTGAAAAAAT
Found at i:95824630 original size:26 final size:26
Alignment explanation
Indices: 95824593--95824674 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
95824583 TGATACAAAT
* *
95824593 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
95824619 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
95824645 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
95824671 TGAT
1 TGAT
95824675 GAGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:95828184 original size:26 final size:26
Alignment explanation
Indices: 95828109--95828192 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
95828099 TGATACAAAT
* *
95828109 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
95828135 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
95828161 TGATAATGGGTTAGGTAAAGGTTTTA
1 TGATAATGGGTTAGGTAAATGTTTCA
95828187 TGATAA
1 TGATAA
95828193 GAATTTCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:95831053 original size:13 final size:11
Alignment explanation
Indices: 95831018--95831056 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
95831008 TTATGGAATG
*
95831018 ATTTTGTGAAA
1 ATTTCGTGAAA
95831029 ATTTCGTGAAA
1 ATTTCGTGAAA
95831040 ATTTCGTTTGAAA
1 ATTTCG--TGAAA
95831053 ATTT
1 ATTT
95831057 TGATGTTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 16 0.64
13 9 0.36
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.46
Consensus pattern (11 bp):
ATTTCGTGAAA
Found at i:95832152 original size:42 final size:42
Alignment explanation
Indices: 95832105--95832206 Score: 143
Period size: 42 Copynumber: 2.4 Consensus size: 42
95832095 TTAGGGTTTT
**
95832105 TGAGACTAT-GTGTAAGACCATATCTGGGATATGGTGTCAATA
1 TGAGACT-TCGTGTAAGACCATATCTGGGATATGGCATCAATA
* *
95832147 TGAGACTTCATGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCAATA
*
95832189 TGAGATTTCGTGTAAGAC
1 TGAGACTTCGTGTAAGAC
95832207 TACGAGATCC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 1 0.02
42 52 0.98
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (42 bp):
TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCAATA
Found at i:95836679 original size:40 final size:40
Alignment explanation
Indices: 95836586--95836802 Score: 278
Period size: 40 Copynumber: 5.5 Consensus size: 40
95836576 AAGCCAAGTA
* * *
95836586 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
95836624 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
95836664 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
95836704 CCCTCGGGACTTAGCCCGGATGTAATAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
95836744 CCTTCGGGACTTAGCCCGTATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
95836784 CCTTTGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
95836803 TTATCATCCG
Statistics
Matches: 159, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
38 12 0.08
39 17 0.11
40 130 0.82
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:95837857 original size:17 final size:17
Alignment explanation
Indices: 95837835--95837869 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
95837825 ACTTTCGGTT
95837835 ATGATGAACAAAGATGG
1 ATGATGAACAAAGATGG
95837852 ATGATGAACAAAGATGG
1 ATGATGAACAAAGATGG
95837869 A
1 A
95837870 CAAAACTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.06, G:0.29, T:0.17
Consensus pattern (17 bp):
ATGATGAACAAAGATGG
Found at i:95837991 original size:26 final size:26
Alignment explanation
Indices: 95837960--95838041 Score: 128
Period size: 26 Copynumber: 3.2 Consensus size: 26
95837950 TGAAATGCCC
95837960 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* * *
95837986 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
95838012 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
95838038 ATCA
1 ATCA
95838042 ATTTGTACCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:95838976 original size:46 final size:46
Alignment explanation
Indices: 95838926--95839101 Score: 164
Period size: 46 Copynumber: 3.8 Consensus size: 46
95838916 TGGTTGAGCA
95838926 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
95838972 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
95839017 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
95839065 -CTCGAGCTCATTGAGTTGAGTCTGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
95839102 GTGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 62 0.58
47 27 0.25
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:95839082 original size:93 final size:93
Alignment explanation
Indices: 95838923--95839094 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
95838913 GGATGGTTGA
* *
95838923 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
95838988 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
95839016 GCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG-CTCGAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCATTGAG
*
95839080 TTGAGTCTGAGTTCG
65 TTGAGTCCGAGTTCG
95839095 CTTATGGGTG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:95846087 original size:46 final size:46
Alignment explanation
Indices: 95846037--95846212 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
95846027 TGGTTGAGCA
95846037 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
95846083 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
95846128 CATCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
95846176 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
95846213 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 63 0.59
47 27 0.25
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:95846193 original size:93 final size:93
Alignment explanation
Indices: 95846034--95846205 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
95846024 GGATGGTTGA
* *
95846034 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
95846099 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
95846127 GCATCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
95846192 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
95846206 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:95855478 original size:17 final size:17
Alignment explanation
Indices: 95855456--95855490 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
95855446 ACTTTCGGTT
95855456 ATGATGAACAAAGATGG
1 ATGATGAACAAAGATGG
95855473 ATGATGAACAAAGATGG
1 ATGATGAACAAAGATGG
95855490 A
1 A
95855491 CAAAACTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.06, G:0.29, T:0.17
Consensus pattern (17 bp):
ATGATGAACAAAGATGG
Found at i:95855612 original size:26 final size:26
Alignment explanation
Indices: 95855581--95855662 Score: 128
Period size: 26 Copynumber: 3.2 Consensus size: 26
95855571 TGAAATGCCC
95855581 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* * *
95855607 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
95855633 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
95855659 ATCA
1 ATCA
95855663 ATTTGTACCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:95858430 original size:51 final size:53
Alignment explanation
Indices: 95858372--95858480 Score: 159
Period size: 52 Copynumber: 2.1 Consensus size: 53
95858362 ATTTTTAGGT
* *
95858372 CATTTTCA-TTTTGGAGAAAACCACATTCATTTTCAAATGATTCC-ATTTCTC
1 CATTTTCATTTTTGAAGAAAACCACAATCATTTTCAAATGATTCCAATTTCTC
* * *
95858423 TATTTTCATTTTTGAAGAAAACCATAATCATTTTCAAATGTTTCCAATTTCTC
1 CATTTTCATTTTTGAAGAAAACCACAATCATTTTCAAATGATTCCAATTTCTC
95858476 CATTT
1 CATTT
95858481 CACCATTTCT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
51 7 0.14
52 32 0.64
53 11 0.22
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.44
Consensus pattern (53 bp):
CATTTTCATTTTTGAAGAAAACCACAATCATTTTCAAATGATTCCAATTTCTC
Found at i:95860826 original size:29 final size:29
Alignment explanation
Indices: 95860793--95860923 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
95860783 GTGACGAGAT
95860793 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
95860822 TGGCACTAAGTGTGCATGCTGG-AATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
95860850 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
95860879 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
95860908 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
95860924 AAATCGAGTA
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
28 27 0.31
29 59 0.69
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:95860856 original size:28 final size:29
Alignment explanation
Indices: 95860793--95860864 Score: 128
Period size: 28 Copynumber: 2.5 Consensus size: 29
95860783 GTGACGAGAT
*
95860793 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
95860822 TGGCACTAAGTGTGCATGCTGG-AATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
95860850 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
95860865 GAGCTCGAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 21 0.50
29 21 0.50
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:95868706 original size:29 final size:29
Alignment explanation
Indices: 95868673--95868804 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
95868663 GTGACGAGAT
95868673 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
95868702 TGGCACTAAGTGTGCATGCTGGGAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
95868731 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
95868760 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
95868789 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
95868805 AAATCGAGTA
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:95882715 original size:40 final size:40
Alignment explanation
Indices: 95882628--95882778 Score: 123
Period size: 40 Copynumber: 3.8 Consensus size: 40
95882618 AATTGAATGA
* * * **
95882628 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* * *
95882668 TAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
95882709 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
* *
95882748 TATCAGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
95882779 AAATCGTGAT
Statistics
Matches: 89, Mismatches: 14, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.06
40 81 0.91
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:95884377 original size:15 final size:15
Alignment explanation
Indices: 95884357--95884389 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
95884347 CAATTGTTGG
95884357 AAAAATTCAGTTTGA
1 AAAAATTCAGTTTGA
95884372 AAAAATTCAGTTTGA
1 AAAAATTCAGTTTGA
95884387 AAA
1 AAA
95884390 CGGTTTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.30
Consensus pattern (15 bp):
AAAAATTCAGTTTGA
Found at i:95885369 original size:23 final size:23
Alignment explanation
Indices: 95885340--95885402 Score: 126
Period size: 23 Copynumber: 2.7 Consensus size: 23
95885330 GAAACAATTT
95885340 TTTTATTTTGAAAATGATCGACA
1 TTTTATTTTGAAAATGATCGACA
95885363 TTTTATTTTGAAAATGATCGACA
1 TTTTATTTTGAAAATGATCGACA
95885386 TTTTATTTTGAAAATGA
1 TTTTATTTTGAAAATGA
95885403 AAACGATGGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (23 bp):
TTTTATTTTGAAAATGATCGACA
Found at i:95886287 original size:3 final size:3
Alignment explanation
Indices: 95886281--95886351 Score: 126
Period size: 3 Copynumber: 24.0 Consensus size: 3
95886271 CTAACAACAT
*
95886281 TAA TAA TGA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
95886328 TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
95886352 AGGTAGAGAA
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 1 0.02
3 64 0.98
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:95886553 original size:26 final size:26
Alignment explanation
Indices: 95886518--95886664 Score: 186
Period size: 26 Copynumber: 5.7 Consensus size: 26
95886508 AATAAAATGA
*
95886518 AATATATAAAACAATTTAAAAGAAAT
1 AATATATAAAACAATTTAAAATAAAT
* *
95886544 AATATATAAAATAATTTGAAATAAAT
1 AATATATAAAACAATTTAAAATAAAT
* * *
95886570 AACATATAAGACAATTTAAAATAACT
1 AATATATAAAACAATTTAAAATAAAT
* **
95886596 AGTATATAAAATGATTTAAAATAAAT
1 AATATATAAAACAATTTAAAATAAAT
* *
95886622 AGTATATAAAACAGTTTAAAATAAAT
1 AATATATAAAACAATTTAAAATAAAT
*
95886648 AATATATAAAATAATTT
1 AATATATAAAACAATTT
95886665 GAAGCTAAAA
Statistics
Matches: 101, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (26 bp):
AATATATAAAACAATTTAAAATAAAT
Found at i:95886586 original size:52 final size:52
Alignment explanation
Indices: 95886521--95886667 Score: 213
Period size: 52 Copynumber: 2.8 Consensus size: 52
95886511 AAAATGAAAT
*
95886521 ATATAAAACAATTTAAAAGAAATAATATATAAAATAATTTGAAATAAATAAC
1 ATATAAAACAATTTAAAATAAATAATATATAAAATAATTTGAAATAAATAAC
* * * * * **
95886573 ATATAAGACAATTTAAAATAACTAGTATATAAAATGATTTAAAATAAATAGT
1 ATATAAAACAATTTAAAATAAATAATATATAAAATAATTTGAAATAAATAAC
*
95886625 ATATAAAACAGTTTAAAATAAATAATATATAAAATAATTTGAA
1 ATATAAAACAATTTAAAATAAATAATATATAAAATAATTTGAA
95886668 GCTAAAAGGC
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 81 1.00
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.31
Consensus pattern (52 bp):
ATATAAAACAATTTAAAATAAATAATATATAAAATAATTTGAAATAAATAAC
Found at i:95888178 original size:44 final size:44
Alignment explanation
Indices: 95888088--95888525 Score: 152
Period size: 44 Copynumber: 9.9 Consensus size: 44
95888078 AGGAATTGTC
* * * * *
95888088 GCTTCAATCTGCTCCACTGTATCCTTAGGGAGATTAGACTCGTA
1 GCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGACTCATA
* ** *
95888132 GCTTCAATTTGCTCCACTGCAACTTTAGGGAGATAAGGTTTATA
1 GCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGACTCATA
* * * * * **
95888176 GCTTTAATCTGCTCTACTACAACTTTAGAGAGATAAGATTTGGTA
1 GCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGA-CTCATA
* ** * * * *
95888221 TCCCCGATCTACTCCACTACAAC-TTCGAGGAGATAAGA-TC-TA
1 GCTTCAATCTGCTCCACTGCAACTTTAG-GGAGATAAGACTCATA
* * * ** * **
95888263 ACTTCAATCTGCTCTACTGCAACTTTAGGGAGTTGGGATTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGACTCATA
* ** * * *
95888307 ACTTTTGACCTGCTCCACTGCAACTTCAGGGAGATAAGGCATGCCATA
1 GC-TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGAC-T--CATA
* * * * ** * ** *
95888355 ACTTCAATCCG-TCCCATTGCAACTTCAGGG-GTATGGGATTTGTG
1 GCTTCAATCTGCT-CCACTGCAACTTTAGGGAG-ATAAGACTCATA
* * * ** * *
95888399 GCTTCAATCTACTCTACCGCAACTTCGGGGAGATAGGA-TCCGCTA
1 GCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGACT-C-ATA
* * * ** * *
95888444 TCTTCAA-CGTGCTCCACTGTAACTTTAGGGAGATAGGGTTAATG
1 GCTTCAATC-TGCTCCACTGCAACTTTAGGGAGATAAGACTCATA
* * *
95888488 GCTTTAATCTACTCCACTGCAACTTTAAGGAGATAAGA
1 GCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGA
95888526 TTCGCCATGG
Statistics
Matches: 284, Mismatches: 92, Indels: 36
0.69 0.22 0.09
Matches are distributed among these distances:
42 25 0.09
43 6 0.02
44 132 0.46
45 88 0.31
46 5 0.02
47 24 0.08
48 4 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
GCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGACTCATA
Found at i:95889481 original size:53 final size:53
Alignment explanation
Indices: 95889381--95889481 Score: 121
Period size: 53 Copynumber: 1.9 Consensus size: 53
95889371 ACCCCTTTGG
* * ***
95889381 TCTCAAGGTGCCCTTTGCGGGTTTTCGCCTTGGACTCTCTTTTTTTTTTGAGC
1 TCTCAAAGTGCCCTTTGCGGGTTTTCGCATTGGACTCTCTCCCTTTTTTGAGC
* * * *
95889434 TCTCAAAGTGCCTTTTGCGGGTTTTCGTATTGGCCTTTCTCCCTTTTT
1 TCTCAAAGTGCCCTTTGCGGGTTTTCGCATTGGACTCTCTCCCTTTTT
95889482 AGGTGAAGTA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
53 39 1.00
ACGTcount: A:0.08, C:0.25, G:0.21, T:0.47
Consensus pattern (53 bp):
TCTCAAAGTGCCCTTTGCGGGTTTTCGCATTGGACTCTCTCCCTTTTTTGAGC
Found at i:95895642 original size:19 final size:20
Alignment explanation
Indices: 95895618--95895657 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
95895608 TGTGATTTTT
95895618 AATGCATAT-GATGCGATGA
1 AATGCATATGGATGCGATGA
*
95895637 AATGCATATGGATGGGATGA
1 AATGCATATGGATGCGATGA
95895657 A
1 A
95895658 TGTAGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.07, G:0.30, T:0.25
Consensus pattern (20 bp):
AATGCATATGGATGCGATGA
Found at i:95900389 original size:40 final size:40
Alignment explanation
Indices: 95900330--95900460 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
95900320 CGGGACTTTA
* * *
95900330 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
95900370 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
95900410 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
95900450 CCCGGATATAA
1 CCCGGATATAA
95900461 TTTCAGCATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Done.