Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 375 of 433
Found at i:117411564 original size:14 final size:14
Alignment explanation
Indices: 117411547--117411578 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
117411537 CCATAGACAT
*
117411547 TAAACCTTAAATCC
1 TAAACCTTAAACCC
117411561 TAAACCTTAAACCC
1 TAAACCTTAAACCC
117411575 TAAA
1 TAAA
117411579 ATAAAATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAACCTTAAACCC
Found at i:117411886 original size:40 final size:40
Alignment explanation
Indices: 117411824--117411951 Score: 170
Period size: 40 Copynumber: 3.2 Consensus size: 40
117411814 TTTTTTTGGG
117411824 GCATTTTT-AGAAAAGCGCCGCTAATGCTC-AGTCTATAGCA
1 GCATTTTTCA-AAAAGCGCCGCTAATGCTCGA-TCTATAGCA
* * * *
117411864 GTATTTTTCAAAAAGCGTCGCTAATGCTCGATCTTTAGCT
1 GCATTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCA
*
117411904 GCATTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCG
1 GCATTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCA
*
117411944 GCGTTTTT
1 GCATTTTT
117411952 TTATCCAAAT
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
40 75 0.97
41 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (40 bp):
GCATTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCA
Found at i:117412784 original size:83 final size:83
Alignment explanation
Indices: 117412644--117412810 Score: 212
Period size: 83 Copynumber: 2.0 Consensus size: 83
117412634 GGGCCTGATT
* * * *
117412644 GTAACGGATGGCCTTCGTGTGTGCATCTCAAGTTATGTTTGAGCATTTTTTGAGGTGAAACCAAG
1 GTAACAGATGGCCTTCGAGTGTGCATCTCAAGTTATGTTTGAGCATTTGTCGAGGTGAAACC-AG
*
117412709 G-GGTAGAGAGGATTTTCA
65 GAGGTAGAGAGGATCTTCA
** * *
117412727 GTAACAGATGGCCTTCGAGTGTGCATCTCGGGTTGCT-TTTGAGCATTTGTCGGGGTGAAACCAG
1 GTAACAGATGGCCTTCGAGTGTGCATCTCAAGTT-ATGTTTGAGCATTTGTCGAGGTGAAACCAG
117412791 GAAGGTAGAGAGGATCTTCA
65 G-AGGTAGAGAGGATCTTCA
117412811 CTTGTCCACT
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
82 3 0.04
83 52 0.72
84 17 0.24
ACGTcount: A:0.23, C:0.15, G:0.32, T:0.30
Consensus pattern (83 bp):
GTAACAGATGGCCTTCGAGTGTGCATCTCAAGTTATGTTTGAGCATTTGTCGAGGTGAAACCAGG
AGGTAGAGAGGATCTTCA
Found at i:117416544 original size:22 final size:23
Alignment explanation
Indices: 117416502--117416544 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
117416492 ACCAAAGAAT
*
117416502 AAAATGAATAATATAAACAATTC
1 AAAATGAATAATAGAAACAATTC
117416525 AAAATGAATAAT-GAAACAAT
1 AAAATGAATAATAGAAACAAT
117416545 ATTAAACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (23 bp):
AAAATGAATAATAGAAACAATTC
Found at i:117417022 original size:22 final size:22
Alignment explanation
Indices: 117416938--117417105 Score: 117
Period size: 22 Copynumber: 7.2 Consensus size: 22
117416928 AACTTAAAAC
*
117416938 AAAT-AATAATAAAACAATTTT
1 AAATAAATAATAAAACAATTTA
* *
117416959 AAATAAAT-A-AAAAGAGTTTA
1 AAATAAATAATAAAACAATTTA
**
117416979 AAATTAGGTATATAAAACAATTTA
1 AAA-TAAATA-ATAAAACAATTTA
* *
117417003 AAATAAGTAATAGAACAATTTA
1 AAATAAATAATAAAACAATTTA
*
117417025 AAATAAATAATACATGAAAGAATTTA
1 AAATAAATAAT--A--AAACAATTTA
*
117417051 AAATAAATAATATAGAAATCACTTTAA
1 AAATAAAT-A-ATA-AAA-CAATTT-A
*
117417078 AAATAAAATAATAAAACAGTTTA
1 AAAT-AAATAATAAAACAATTTA
117417101 AAATA
1 AAATA
117417106 TAGGGTCAAG
Statistics
Matches: 118, Mismatches: 15, Indels: 27
0.74 0.09 0.17
Matches are distributed among these distances:
20 11 0.09
21 8 0.07
22 26 0.22
23 11 0.09
24 18 0.15
25 7 0.06
26 24 0.20
27 7 0.06
28 6 0.05
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (22 bp):
AAATAAATAATAAAACAATTTA
Found at i:117417076 original size:26 final size:26
Alignment explanation
Indices: 117416993--117417105 Score: 98
Period size: 26 Copynumber: 4.6 Consensus size: 26
117416983 TAGGTATATA
*
117416993 AAACAATTTAAAATAAGTAAT--A-G
1 AAACAATTTAAAATAAATAATACATG
117417016 -AACAATTTAAAATAAATAATACATG
1 AAACAATTTAAAATAAATAATACATG
* *
117417041 AAAGAATTTAAAATAAATAATATA-G
1 AAACAATTTAAAATAAATAATACATG
* *
117417066 AAATCACTTTAAAA-ATAA-AATA-ATA
1 AAA-CAATTTAAAATA-AATAATACATG
*
117417091 AAACAGTTTAAAATA
1 AAACAATTTAAAATA
117417106 TAGGGTCAAG
Statistics
Matches: 75, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
22 19 0.25
24 11 0.15
25 14 0.19
26 31 0.41
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (26 bp):
AAACAATTTAAAATAAATAATACATG
Found at i:117417932 original size:17 final size:18
Alignment explanation
Indices: 117417910--117417944 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
117417900 AGATTCAAAG
*
117417910 TAAAATAATAAT-AATAA
1 TAAAATAAAAATGAATAA
117417927 TAAAATAAAAATGAATAA
1 TAAAATAAAAATGAATAA
117417945 ATGAACCACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
TAAAATAAAAATGAATAA
Found at i:117424475 original size:42 final size:42
Alignment explanation
Indices: 117424428--117424546 Score: 134
Period size: 42 Copynumber: 2.8 Consensus size: 42
117424418 CACACAATCC
*
117424428 GCGACACAGTCGTGTGTATCAAGTCAGTGAGTTACACG-GTCT
1 GCGACACAGTCGTGTGTATCAAGTCAGTGAGTTACACGCCT-T
* * * *
117424470 GCGACACGGTCGTGTTTATCAAGTTAGAGAGTTACACGCCTT
1 GCGACACAGTCGTGTGTATCAAGTCAGTGAGTTACACGCCTT
* * *
117424512 ACGACACAATCATGTG-ATCTAAGTCAGTGAGTTAC
1 GCGACACAGTCGTGTGTATC-AAGTCAGTGAGTTAC
117424547 CCTGTTTAAG
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
41 3 0.05
42 59 0.94
43 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (42 bp):
GCGACACAGTCGTGTGTATCAAGTCAGTGAGTTACACGCCTT
Found at i:117425796 original size:37 final size:37
Alignment explanation
Indices: 117425745--117425818 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
117425735 GTACAATTGA
* *
117425745 GGTAACACAGCCTGAATTTAGCACATTCAAGGTAAAC
1 GGTAACACAACCTGAATTCAGCACATTCAAGGTAAAC
* *
117425782 GGTAACACAACCTGAATTCGGCATATTCAAGGTAAAC
1 GGTAACACAACCTGAATTCAGCACATTCAAGGTAAAC
117425819 AATACTTGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (37 bp):
GGTAACACAACCTGAATTCAGCACATTCAAGGTAAAC
Found at i:117426064 original size:13 final size:12
Alignment explanation
Indices: 117426042--117426074 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
117426032 ATCATTTTCT
117426042 AAAAAATTGAAA
1 AAAAAATTGAAA
117426054 AAAAAACTTGAAA
1 AAAAAA-TTGAAA
117426067 AAAAAATT
1 AAAAAATT
117426075 AGTAAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.18
Consensus pattern (12 bp):
AAAAAATTGAAA
Found at i:117426650 original size:6 final size:6
Alignment explanation
Indices: 117426641--117426687 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
117426631 ATATTTTATT
117426641 TATTTC TATTTC TATTTC TATTTC TATTTC TATTTC TATTTC TATTT
1 TATTTC TATTTC TATTTC TATTTC TATTTC TATTTC TATTTC TATTT
117426688 TTTTGTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTC
Found at i:117426696 original size:6 final size:6
Alignment explanation
Indices: 117426687--117426784 Score: 69
Period size: 6 Copynumber: 16.7 Consensus size: 6
117426677 TATTTCTATT
* *
117426687 TTTTTG TTTTTTA TTTTTG TTTTCG --TTT- TTTTTG TTTTTG TTTTT-
1 TTTTTG -TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
* * * * * * *
117426732 TTTTTC TTCTTTG TTTTTG CTTTTG CTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTG TT-TTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
117426781 TTTT
1 TTTT
117426785 ATTATGCATT
Statistics
Matches: 78, Mismatches: 8, Indels: 11
0.80 0.08 0.11
Matches are distributed among these distances:
4 2 0.03
5 8 0.10
6 58 0.74
7 10 0.13
ACGTcount: A:0.05, C:0.05, G:0.08, T:0.82
Consensus pattern (6 bp):
TTTTTG
Found at i:117426703 original size:15 final size:14
Alignment explanation
Indices: 117426685--117426779 Score: 59
Period size: 15 Copynumber: 6.4 Consensus size: 14
117426675 TCTATTTCTA
117426685 TTTTTTTG-TTTTT
1 TTTTTTTGTTTTTT
* *
117426698 TATTTTTGTTTTCGT
1 TTTTTTTGTTTT-TT
117426713 TTTTTTTGTTTTTGT
1 TTTTTTTGTTTTT-T
117426728 TTTTTTT-TTCTTCTT
1 TTTTTTTGTT-TT-TT
*
117426743 TGTTTTTGCTTTTGCTT
1 TTTTTTTG-TTTT--TT
* *
117426760 TTATTTTTATTTTTA
1 TT-TTTTTGTTTTTT
117426775 TTTTT
1 TTTTT
117426780 ATTTTATTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
13 7 0.11
14 8 0.12
15 32 0.49
16 3 0.05
17 10 0.15
18 5 0.08
ACGTcount: A:0.04, C:0.05, G:0.08, T:0.82
Consensus pattern (14 bp):
TTTTTTTGTTTTTT
Found at i:117426719 original size:28 final size:27
Alignment explanation
Indices: 117426685--117426737 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 27
117426675 TCTATTTCTA
117426685 TTTTTTTGTTTTT-TATTTTTGTTTTCGT
1 TTTTTTTGTTTTTGT-TTTTT-TTTTCGT
117426713 TTTTTTTGTTTTTGTTTTTTTTTTC
1 TTTTTTTGTTTTTGTTTTTTTTTTC
117426738 TTCTTTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 5 0.21
28 18 0.75
29 1 0.04
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.85
Consensus pattern (27 bp):
TTTTTTTGTTTTTGTTTTTTTTTTCGT
Found at i:117426734 original size:30 final size:28
Alignment explanation
Indices: 117426680--117426784 Score: 81
Period size: 30 Copynumber: 3.6 Consensus size: 28
117426670 CTATTTCTAT
*
117426680 TTCTATTTTTTTGTTTT-TTATTTTTGTT-
1 TTCT-TTTTTTTGTTTTGTT-TTTTTTTTC
117426708 TTCGTTTTTTTTGTTTTTGTTTTTTTTTTC
1 TTC-TTTTTTTTG-TTTTGTTTTTTTTTTC
* *
117426738 TTCTTTGTTTTTGCTTTTGCTTTTATTTTTA
1 TTCTTT-TTTTTG-TTTTG-TTTTTTTTTTC
*
117426769 TT-TTTATTTTTATTTT
1 TTCTTT-TTTTTGTTTT
117426785 ATTATGCATT
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
28 11 0.17
29 19 0.29
30 24 0.37
31 11 0.17
ACGTcount: A:0.06, C:0.06, G:0.08, T:0.81
Consensus pattern (28 bp):
TTCTTTTTTTTGTTTTGTTTTTTTTTTC
Found at i:117426787 original size:5 final size:6
Alignment explanation
Indices: 117426622--117426784 Score: 68
Period size: 6 Copynumber: 27.3 Consensus size: 6
117426612 ATTGATTTTA
* * * * *
117426622 TTTAGT TTTATAT TTTA-- TTTATT TCTATT TCTATT TCTATT TCTATT
1 TTTATT TTTAT-T TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * * * * *
117426669 TCTATT TCTATT TCTA-T TTT-TT TGT-TT TTTATT TTTGTTT TCGTTTTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTT-ATT T--TTATT
* * * * ** **
117426717 TTTGTT TTTGTT TTT-TT TTTCTT CTTTGTT TTTGCT TTTGCT TTTATT
1 TTTATT TTTATT TTTATT TTTATT -TTTATT TTTATT TTTATT TTTATT
117426765 TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TT
117426785 ATTATGCATT
Statistics
Matches: 136, Mismatches: 11, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
4 4 0.03
5 15 0.11
6 98 0.72
7 13 0.10
8 4 0.03
9 2 0.01
ACGTcount: A:0.10, C:0.07, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:117428742 original size:41 final size:41
Alignment explanation
Indices: 117428648--117429013 Score: 350
Period size: 41 Copynumber: 9.0 Consensus size: 41
117428638 TTTTAAAATT
* * ** *
117428648 CAGAGCAATAGCGGCGTTTTAAAAAAAACGCCGGTAAAAA-
1 CAGAGCATTAGCGGCGTTTTTAGTAAAACGCCGCTAAAAAC
* ** * *
117428688 CAGAACAACAGCGGCGTTTTTTACTAAAACGCAGCTAAAAA-
1 CAGAGCATTAGCGGCG-TTTTTAGTAAAACGCCGCTAAAAAC
* * **
117428729 TAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGTTTTTAGTAAAACGCCGCTAAAAAC
* * *
117428770 TAGAGTATTAGCGGCG-CTTTAGGTAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGTTTTTA-GTAAAACGCCGCTAAAAAC
* *
117428811 CAGAGTATTAGCGGCG-CTTTATGTAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGTTTTTA-GTAAAACGCCGCTAAAAAC
** * *
117428852 CAGAGCATTAGCGATG-CTTTAGGTAAAACGCCGGTAAAAAC
1 CAGAGCATTAGCGGCGTTTTTA-GTAAAACGCCGCTAAAAAC
* *
117428893 C-GAGCATTAGCGGTGCTTTCTA-TAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCG-TTTTTAGTAAAACGCCGCTAAAAAC
* ** *
117428933 CAGAGCATTAGCGGCGCTTTGGGTAAAACGTCGCTAAAAAC
1 CAGAGCATTAGCGGCGTTTTTAGTAAAACGCCGCTAAAAAC
* * *
117428974 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGTTAAAAA
1 CAGAGCATTAGCGGCGTTTTTAGTAAAACGCCGCTAAAAA
117429014 TCCCATAACC
Statistics
Matches: 279, Mismatches: 40, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
40 68 0.24
41 208 0.75
42 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (41 bp):
CAGAGCATTAGCGGCGTTTTTAGTAAAACGCCGCTAAAAAC
Found at i:117428902 original size:122 final size:123
Alignment explanation
Indices: 117428649--117429013 Score: 432
Period size: 122 Copynumber: 3.0 Consensus size: 123
117428639 TTTAAAATTC
* * * * * * ** * *
117428649 AGAGCAATAGCGGCGTTTTAAAAAAAACGCCGGTAAAAA-CAGAACAACAGCGGCGTTTTTTA-C
1 AGAGCATTAGCGGCGCTTTAGATAAAACGCCGCTAAAAACCAGAGCATTAGCGGCG--CTTTAGG
* * *
117428712 TAAAACGCAGCTAAAAA-TAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACT
64 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACT
* * * *
117428771 AGAGTATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGTATTAGCGGCGCTTTATGTA
1 AGAGCATTAGCGGCGCTTTAGATAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTA
** *
117428836 AAACGCCGCTAAAAACCAGAGCATTAGCGATGCTTTAGGTAAAACGCCGGTAAAAAC-
66 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACT
* * ** *
117428893 CGAGCATTAGCGGTGCTTTCTATAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTGGGTA
1 AGAGCATTAGCGGCGCTTTAGATAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTA
* * *
117428958 AAACGTCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGTTAAAAA
66 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAA
117429014 TCCCATAACC
Statistics
Matches: 207, Mismatches: 33, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
121 4 0.02
122 155 0.75
123 48 0.23
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (123 bp):
AGAGCATTAGCGGCGCTTTAGATAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTA
AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACT
Found at i:117428926 original size:163 final size:163
Alignment explanation
Indices: 117428712--117429013 Score: 471
Period size: 163 Copynumber: 1.9 Consensus size: 163
117428702 CGTTTTTTAC
* * * *
117428712 TAAAACGCAGCTAAAAATAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACTAGAGTA
1 TAAAACGCAGCTAAAAACAGAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAACCAGAGCA
*
117428777 TTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGTATTAGCGGCGCTTTAT-GTAAAACG
66 TTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTT-TGGTAAAACG
117428841 CCGCTAAAAACCAGAGCATTAGCGATGCTTTAGG
130 CCGCTAAAAACCAGAGCATTAGCGATGCTTTAGG
* * * * *
117428875 TAAAACGCCGGTAAAAACCGAGCATTAGCGGTGCTTTCTATAAAACGCCGCTAAAAACCAGAGCA
1 TAAAACGCAGCTAAAAACAGAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAACCAGAGCA
* *
117428940 TTAGCGGCGCTTTGGGTAAAACGTCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGC
66 TTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGC
*
117429005 CGTTAAAAA
131 CGCTAAAAA
117429014 TCCCATAACC
Statistics
Matches: 125, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
162 1 0.01
163 124 0.99
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.21
Consensus pattern (163 bp):
TAAAACGCAGCTAAAAACAGAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAACCAGAGCA
TTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGC
CGCTAAAAACCAGAGCATTAGCGATGCTTTAGG
Found at i:117429193 original size:14 final size:14
Alignment explanation
Indices: 117429171--117429210 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
117429161 TTAATTATCA
* *
117429171 TTATAGTTTAAGGT
1 TTATGGTTTAAGAT
117429185 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
*
117429199 ATATGGTTTAAG
1 TTATGGTTTAAG
117429211 CAGGTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:117430105 original size:15 final size:15
Alignment explanation
Indices: 117430085--117430116 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
117430075 TTTAATTTAG
*
117430085 AAGATAAATGTATAT
1 AAGATAAATATATAT
117430100 AAGATAAATATATAT
1 AAGATAAATATATAT
117430115 AA
1 AA
117430117 ATATTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:117430116 original size:10 final size:10
Alignment explanation
Indices: 117430103--117430148 Score: 56
Period size: 10 Copynumber: 4.3 Consensus size: 10
117430093 TGTATATAAG
117430103 ATAAATATAT
1 ATAAATATAT
117430113 ATAAATATTATT
1 ATAAATA-TA-T
*
117430125 TTAAAATATAT
1 AT-AAATATAT
117430136 ATAAATATAT
1 ATAAATATAT
117430146 ATA
1 ATA
117430149 TGAAAAGTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
10 18 0.58
11 4 0.13
12 4 0.13
13 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
ATAAATATAT
Found at i:117433753 original size:132 final size:132
Alignment explanation
Indices: 117433533--117433782 Score: 475
Period size: 132 Copynumber: 1.9 Consensus size: 132
117433523 TGGTGATTCC
117433533 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTATGTTTCTATCCAACTTATGTGTTTAGTGT
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTATGTTTCTATCCAACTTATGTGTTTAGTGT
117433598 GGACTTAGATTGATTTAAGAGTTTAATG-TGTCTTGTTGCTCACGTTTTATATAATAAAATTGTT
66 GGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGTT
117433662 AT
131 AT
117433664 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTT-ATGTTTCTATCCAACTTATGTGTTTAGTG
*
117433729 TGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
65 TGGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATAT
117433783 TGTTGAATTC
Statistics
Matches: 116, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
131 35 0.30
132 57 0.49
133 24 0.21
ACGTcount: A:0.20, C:0.10, G:0.19, T:0.52
Consensus pattern (132 bp):
ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTATGTTTCTATCCAACTTATGTGTTTAGTGT
GGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGTT
AT
Found at i:117442055 original size:42 final size:40
Alignment explanation
Indices: 117441860--117442207 Score: 281
Period size: 42 Copynumber: 8.4 Consensus size: 40
117441850 ACTGGGCAAA
* * *
117441860 TTAGCGGCGTTTTTTAAAAAAACGCCGCTAAAAGTACAGGTCT
1 TTAGCGGCG-TTTTT-AAAAAGCGCCGCT-AAAGTCCTGGTCT
** * *
117441903 TATAGCGGTTTTTTTAAAAAGCGCCGCTAAAAGTACAGGTC-
1 T-TAGCGGCGTTTTTAAAAAGCGCCGCT-AAAGTCCTGGTCT
* * *
117441944 TAAGCGGCGTTTTTATAAAAGCG-CGCTAAAGTACAGGTCT
1 TTAGCGGCGTTTTTA-AAAAGCGCCGCTAAAGTCCTGGTCT
* *
117441984 ATAGTGGCGTTTTT-AAAAGCGCCGCTAAAGTCCTGGTCT
1 TTAGCGGCGTTTTTAAAAAGCGCCGCTAAAGTCCTGGTCT
* * *
117442023 TTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGGTCTTGATCT
1 TTAGCGGCG-TTTT-TAAAAAGCGCCGCTAAA-GTCCTGGTCT
* * *
117442066 TT-GCCGGCGTTTTTTAAGAGCACCGCTAAAGGTCCTGGTCT
1 TTAG-CGGCGTTTTTAAAAAGCGCCGCTAAA-GTCCTGGTCT
* * * *
117442107 TTTGTGGCGTTCTTTTAAGAGCGCCGCTAAAGGTCCTGGTCT
1 TTAGCGGCGTT-TTTAAAAAGCGCCGCTAAA-GTCCTGGTCT
* * * *
117442149 TTCGCGGCGCTTTTTTAAAAAACGCTGCTAAAGATCATGGTCT
1 TTAGCGGCG--TTTTTAAAAAGCGCCGCTAAAG-TCCTGGTCT
*
117442192 TTAGCGGCCTTTTTAA
1 TTAGCGGCGTTTTTAA
117442208 GTATTAGCGG
Statistics
Matches: 258, Mismatches: 33, Indels: 30
0.80 0.10 0.09
Matches are distributed among these distances:
38 7 0.03
39 34 0.13
40 30 0.12
41 46 0.18
42 82 0.32
43 51 0.20
44 8 0.03
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (40 bp):
TTAGCGGCGTTTTTAAAAAGCGCCGCTAAAGTCCTGGTCT
Found at i:117442132 original size:83 final size:83
Alignment explanation
Indices: 117441860--117442204 Score: 237
Period size: 83 Copynumber: 4.2 Consensus size: 83
117441850 ACTGGGCAAA
* * * * * * *
117441860 TTAGCGGCG-TTTTTTAAAAAAACGCCGCTAAAAGTACAGGTCTTATAGCGG-TTTTTTTAAAAA
1 TTAGCGGCGCTTTTAT-AAAAAACGCCGCTAAAGGTCCTGATCTT-TCGCGGCGTTTTTT-AAAA
* * *
117441923 GCGCCGCTAAAAGTACAGGTC-
63 GCACCGCT-AAAGTCCTGGTCT
* * * * * * * * * *
117441944 TAAGCGGCGTTTTTAT-AAAAGCG-CGCTAAA-GTACAGGTCTATAGTGGCG-TTTTTAAAAGCG
1 TTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGGTCCTGATCTTTCGCGGCGTTTTTTAAAAGCA
117442005 CCGCTAAAGTCCTGGTCT
66 CCGCTAAAGTCCTGGTCT
* *
117442023 TTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGGTCTTGATCTTT-GCCGGCGTTTTTTAAGAGC
1 TTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGGTCCTGATCTTTCG-CGGCGTTTTTTAAAAGC
117442087 ACCGCTAAAGGTCCTGGTCT
65 ACCGCTAAA-GTCCTGGTCT
* * * * * *
117442107 TTTGTGGCG-TTCTT-TTAAGAGCGCCGCTAAAGGTCCTGGTCTTTCGCGGCGCTTTTTTAAAA-
1 TTAGCGGCGCTT-TTATAAAAAACGCCGCTAAAGGTCCTGATCTTTCGCGGCG-TTTTTTAAAAG
* *
117442169 AACGCTGCTAAAGATCATGGTCT
64 CAC-C-GCTAAAG-TCCTGGTCT
117442192 TTAGCGGC-CTTTT
1 TTAGCGGCGCTTTT
117442205 TAAGTATTAG
Statistics
Matches: 214, Mismatches: 31, Indels: 32
0.77 0.11 0.12
Matches are distributed among these distances:
78 10 0.05
79 26 0.12
80 16 0.07
81 18 0.08
82 18 0.08
83 58 0.27
84 41 0.19
85 27 0.13
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (83 bp):
TTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGGTCCTGATCTTTCGCGGCGTTTTTTAAAAGCA
CCGCTAAAGTCCTGGTCT
Found at i:117442162 original size:126 final size:122
Alignment explanation
Indices: 117441948--117442181 Score: 326
Period size: 126 Copynumber: 1.9 Consensus size: 122
117441938 CAGGTCTAAG
*
117441948 CGGCGTTTTTATAAAAGCGCGCTAAAGTACAGGTCTATAGTGGCGTTTTTAAAAGCGCCGCTAAA
1 CGGCGTTTTTATAAAAGCCCGCTAAAGTACAGGTCTATAGTGGCGTTTTTAAAAGCGCCGCTAAA
117442013 GTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGGTCTTGATCTTTGC
66 GTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGGTCTTGATCTTTGC
* * * * * *
117442070 CGGCGTTTTT-TAAGAGCACCGCTAAAGGTCCTGGTCTTTTGTGGCGTTCTTTTAAGAGCGCCGC
1 CGGCGTTTTTATAAAAGC-CCGCTAAA-GTACAGGTCTATAGTGGCG-T-TTTTAAAAGCGCCGC
* * *
117442134 TAAAGGTCCTGGTCTTTCGCGGCGCTTTTTTAAAAAACGCTGCTAAAG
62 TAAA-GTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAG
117442182 ATCATGGTCT
Statistics
Matches: 97, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
121 6 0.06
122 17 0.18
123 15 0.15
124 1 0.01
125 18 0.19
126 40 0.41
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (122 bp):
CGGCGTTTTTATAAAAGCCCGCTAAAGTACAGGTCTATAGTGGCGTTTTTAAAAGCGCCGCTAAA
GTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGGTCTTGATCTTTGC
Found at i:117453469 original size:40 final size:40
Alignment explanation
Indices: 117453414--117453638 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
117453404 TATTCGGATG
117453414 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
117453454 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
117453497 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
117453537 ATTTCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
117453577 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
117453617 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
117453639 TACTTGGTTT
Statistics
Matches: 165, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 14 0.08
40 112 0.68
41 1 0.01
43 38 0.23
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:117453557 original size:83 final size:80
Alignment explanation
Indices: 117453418--117453638 Score: 295
Period size: 83 Copynumber: 2.7 Consensus size: 80
117453408 CGGATGATAT
* * *
117453418 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
117453483 TGCGAGTAGTTACTATAC
66 TGC--G-AGTTACTATAC
* *
117453501 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATTTCCGGGCTAAGACCCGAAGGCATGTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
*
117453566 TGCGAGTTACTATAT
66 TGCGAGTTACTATAC
* * *
117453581 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTG-CGATATCC-GGCTAA-ATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGA-CCCGAAGG
117453639 TACTTGGTTT
Statistics
Matches: 126, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
78 1 0.01
79 14 0.11
80 45 0.36
81 3 0.02
83 63 0.50
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
TGCGAGTTACTATAC
Found at i:117460828 original size:49 final size:49
Alignment explanation
Indices: 117460750--117460995 Score: 258
Period size: 49 Copynumber: 5.0 Consensus size: 49
117460740 GTAGCCGAAG
* * * * *
117460750 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCCA
1 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* *
117460799 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AA
* * * * * *
117460849 CCATCTGATACAAGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * ** * * *
117460899 GTTATCAGGTATGCATAGTAGCCTGCATTTAGTACTACACATGCGACCAA
1 -CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * *
117460949 CAATCCGGTACACGTAGTAGCCTGCATTTAGTACTACACACGTGACC
1 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
117460996 TTACAATAGC
Statistics
Matches: 161, Mismatches: 33, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
49 80 0.50
50 46 0.29
51 35 0.22
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:117463308 original size:15 final size:16
Alignment explanation
Indices: 117463279--117463310 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
117463269 AACAGAGAAG
117463279 CCAAGAATAAAGAAAT
1 CCAAGAATAAAGAAAT
117463295 CCAAG-ATAAAGAAAT
1 CCAAGAATAAAGAAAT
117463310 C
1 C
117463311 TATGATACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.59, C:0.16, G:0.12, T:0.12
Consensus pattern (16 bp):
CCAAGAATAAAGAAAT
Found at i:117466127 original size:51 final size:49
Alignment explanation
Indices: 117466009--117466197 Score: 236
Period size: 49 Copynumber: 3.8 Consensus size: 49
117465999 AAGCTATCTA
* *
117466009 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCA-
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTAT-CAG
* * *
117466058 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAG
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCAG
* * ** *
117466109 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAAAATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAG
* *
117466158 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
117466198 TCACAATAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
49 74 0.62
50 8 0.07
51 38 0.32
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (49 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAG
Found at i:117466170 original size:100 final size:100
Alignment explanation
Indices: 117466009--117466195 Score: 338
Period size: 100 Copynumber: 1.9 Consensus size: 100
117465999 AAGCTATCTA
**
117466009 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAAAATCCAGTACACGTAGTAGCCT
117466074 GCACTTAGTACTACACACGTGATCGAAGTTATCAG
66 GCACTTAGTACTACACACGTGATCGAAGTTATCAG
**
117466109 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAAAATCTGGTACACGTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAAAATCCAGTACACGTAGTAGCCT
117466174 GCACTTAGTACTACACACGTGA
66 GCACTTAGTACTACACACGTGA
117466196 CCTCACAATA
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (100 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAAAATCCAGTACACGTAGTAGCCT
GCACTTAGTACTACACACGTGATCGAAGTTATCAG
Found at i:117469355 original size:48 final size:48
Alignment explanation
Indices: 117469223--117469539 Score: 198
Period size: 48 Copynumber: 6.6 Consensus size: 48
117469213 AGTAAATTGT
* * * * *
117469223 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTGTCGAGGC
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCCAGAC
* ** * *
117469271 TGATGCCATATCCCAGACATGGTCTTACACAAGCTCTTATCTCCATAC
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCCAGAC
* **
117469319 TGATGCCATGTCCCAGACATGGTCTTACTCTGGCTCTCAT-AACATTG-C
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCCA--GAC
** * ** *
117469367 TGATGCCATGTTTCA-ATCATGGTCTTACATTGGCTCTCAT-AACATTG-T
1 TGATGCCATGTCCCAGA-CATGGTCTTACACTGGCTCTCATCTCCA--GAC
* * * * ** *
117469415 TGATGCCATGTTCTAAACATGGTCTTACACTGGCTCTCATAAT-GTGGC
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-CTCCAGAC
* * * * * *** *
117469463 CGATGCCTTGTTCCAAACATGGTCTTACACTGGCTCTCATAATATGGTC
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-CTCCAGAC
*
117469512 -GATGCCATGTCCCATACATGGTCTTACA
1 TGATGCCATGTCCCAGACATGGTCTTACA
117469540 TTCGCACACA
Statistics
Matches: 222, Mismatches: 39, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
47 4 0.02
48 215 0.97
49 3 0.01
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.32
Consensus pattern (48 bp):
TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCCAGAC
Found at i:117469388 original size:96 final size:95
Alignment explanation
Indices: 117469223--117469539 Score: 291
Period size: 96 Copynumber: 3.3 Consensus size: 95
117469213 AGTAAATTGT
* * ** * *
117469223 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTGTCGA-GGCTGATGCCATATCCCAG
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAC-ATGGCTGATGCCATGTTCCA-
* **
117469287 ACATGGTCTTACACAAGCTCTTATCTCCA-TAC
64 ACATGGTCTTACACAAGCTCTCAT-AACATTAC
* * *
117469319 TGATGCCATGTCCCAGACATGGTCTTACTCTGGCTCTCATAACATTGCTGATGCCATGTTTCAAT
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATGGCTGATGCCATGTTCCAA-
*** **
117469384 CATGGTCTTACATTGGCTCTCATAACATTGT
65 CATGGTCTTACACAAGCTCTCATAACATTAC
* * * ** * *
117469415 TGATGCCATGTTCTAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCTTGTTCCAAA
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATGGCTGATGCCATGTTCC-AA
** *
117469480 CATGGTCTTACACTGGCTCTCATAATATGGT-C
65 CATGGTCTTACACAAGCTCTCATAACAT--TAC
*
117469512 -GATGCCATGTCCCATACATGGTCTTACA
1 TGATGCCATGTCCCAGACATGGTCTTACA
117469540 TTCGCACACA
Statistics
Matches: 182, Mismatches: 33, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
95 4 0.02
96 175 0.96
97 2 0.01
98 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.32
Consensus pattern (95 bp):
TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACATGGCTGATGCCATGTTCCAAC
ATGGTCTTACACAAGCTCTCATAACATTAC
Found at i:117470946 original size:28 final size:28
Alignment explanation
Indices: 117470900--117470966 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
117470890 TTTAAAACCC
*
117470900 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
117470927 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
117470955 TAGGGGTAATTT
1 TAGGGGTAATTT
117470967 TGTGATCTAC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 7 0.18
28 31 0.82
ACGTcount: A:0.19, C:0.09, G:0.27, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:117472619 original size:20 final size:20
Alignment explanation
Indices: 117472596--117472633 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
117472586 CACATCCAAA
*
117472596 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
117472616 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
117472634 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:117485362 original size:40 final size:39
Alignment explanation
Indices: 117485287--117485415 Score: 145
Period size: 38 Copynumber: 3.3 Consensus size: 39
117485277 GCAAGGTATA
* * * *
117485287 AAACCCAAACATAACACCAGCACGAAGCCTACGGGACTTT
1 AAACCCAGATATAATACCAGCACGAAGCCTGCGGGA-TTT
* * *
117485327 AAACTCAGATATAATACCAGCACTAGGCCTGCGGGATTT
1 AAACCCAGATATAATACCAGCACGAAGCCTGCGGGATTT
* *
117485366 -AACCCGGATATATTACCAGCACGAAGCCTGCGGGATTT
1 AAACCCAGATATAATACCAGCACGAAGCCTGCGGGATTT
*
117485404 -AACCCGGATATA
1 AAACCCAGATATA
117485416 TTTTCAGCAT
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
38 45 0.58
39 3 0.04
40 29 0.38
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (39 bp):
AAACCCAGATATAATACCAGCACGAAGCCTGCGGGATTT
Found at i:117485437 original size:38 final size:38
Alignment explanation
Indices: 117485302--117485417 Score: 160
Period size: 38 Copynumber: 3.0 Consensus size: 38
117485292 CAAACATAAC
* * * *
117485302 ACCAGCACGAAGCCTACGGGACTTTAAACTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGATATATT
* *
117485342 ACCAGCACTAGGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
117485380 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
117485418 TTCAGCATAT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 47 0.69
39 3 0.04
40 18 0.26
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.22
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
Found at i:117488944 original size:25 final size:25
Alignment explanation
Indices: 117488916--117488963 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
117488906 TTATACCATG
* * *
117488916 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
117488941 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
117488964 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:117489032 original size:20 final size:20
Alignment explanation
Indices: 117489007--117489065 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
117488997 TAAATATGGT
117489007 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
117489027 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
117489047 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
117489066 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:117489047 original size:11 final size:11
Alignment explanation
Indices: 117489011--117489065 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
117489001 TATGGTATGT
117489011 ATGATATGCAC
1 ATGATATGCAC
* *
117489022 ATGAAATG--T
1 ATGATATGCAC
117489031 ATGATATGCAC
1 ATGATATGCAC
*
117489042 ATGATATG--T
1 ATGATATGCAC
117489051 ATGATATGCAC
1 ATGATATGCAC
117489062 ATGA
1 ATGA
117489066 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:117489143 original size:24 final size:24
Alignment explanation
Indices: 117489116--117489282 Score: 239
Period size: 24 Copynumber: 7.0 Consensus size: 24
117489106 GAGGAAGTGA
*
117489116 AAAAGGGCTTATGCCCCAGTTACC
1 AAAAGGGCTTATGCCCCAGTTATC
117489140 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
117489164 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
117489188 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
117489211 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * * *
117489235 GAAAGGGATTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
117489259 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
117489283 ATGATAAAGC
Statistics
Matches: 132, Mismatches: 8, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
23 23 0.17
24 99 0.75
25 10 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:117489233 original size:71 final size:71
Alignment explanation
Indices: 117489116--117489283 Score: 239
Period size: 71 Copynumber: 2.3 Consensus size: 71
117489106 GAGGAAGTGA
* *
117489116 AAAAGGGCTTATGCCCCAGTTACCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAGGGCTTATGCCCCAGTTATCAAAAGGGATTATGCCCC
117489181 AGTTATC
65 AGTTATC
** *
117489188 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTGAAAGGGATTTTGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGATTATGCCCCA
*
117489253 GTTATT
66 GTTATC
*
117489259 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
117489284 TGATAAAGCA
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.61
72 34 0.39
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGATTATGCCCCA
GTTATC
Found at i:117489497 original size:31 final size:31
Alignment explanation
Indices: 117489462--117489525 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
117489452 CGTTTACAGT
117489462 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
117489493 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
117489524 AA
1 AA
117489526 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:117499582 original size:93 final size:93
Alignment explanation
Indices: 117499423--117499593 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
117499413 GCCCCTAAGT
* * * * *
117499423 GAACTCGGACTCAACTTAACAAGCTCGGGCGTTCGCATGCATAAATGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
117499488 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
117499516 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
117499581 CGAGTTCGGATGC
66 CGAGTTCGGATGC
117499594 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:117499583 original size:46 final size:45
Alignment explanation
Indices: 117499418--117499590 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 45
117499408 AACCCGCCCC
* * * * *
117499418 TAAGTGAACTCGGACTCAACTTAACAAGCTCGGGCGTTCGCATGCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT-CA
* * *
117499464 TAAATGAACTTGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATC-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCA
* *
117499512 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT-CA
117499557 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
117499591 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 57 0.55
47 28 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCA
Found at i:117499609 original size:46 final size:44
Alignment explanation
Indices: 117499468--117499609 Score: 128
Period size: 46 Copynumber: 3.1 Consensus size: 44
117499458 CATGCATAAA
*
117499468 TGAACTTGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT-AG
* * * *
117499515 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCTAG
117499561 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CTAG
117499607 TGA
1 TGA
117499610 CATGTCACTT
Statistics
Matches: 78, Mismatches: 10, Indels: 15
0.76 0.10 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 33 0.42
47 30 0.38
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCTAG
Found at i:117500047 original size:30 final size:30
Alignment explanation
Indices: 117500013--117500072 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
117500003 ATTTAATACG
117500013 AACTTTAAG-AAAATTACACTTTTGCCCCTA
1 AACTTT-AGCAAAATTACACTTTTGCCCCTA
* *
117500043 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAGCAAAATTACACTTTTGCCCCTA
117500073 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTAGCAAAATTACACTTTTGCCCCTA
Found at i:117507389 original size:29 final size:29
Alignment explanation
Indices: 117507346--117507407 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
117507336 AGCTACGTAG
117507346 ACACCCATCGACAAGAGTTCTTGAGTCTA
1 ACACCCATCGACAAGAGTTCTTGAGTCTA
* *
117507375 ACACCTATCGGCAAGAGTTCTTGAGTCTA
1 ACACCCATCGACAAGAGTTCTTGAGTCTA
117507404 ACAC
1 ACAC
117507408 AGAGTGATAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (29 bp):
ACACCCATCGACAAGAGTTCTTGAGTCTA
Found at i:117523457 original size:41 final size:41
Alignment explanation
Indices: 117523364--117523686 Score: 358
Period size: 41 Copynumber: 8.0 Consensus size: 41
117523354 TTTTAAAATT
* * **
117523364 CAGAGCAATAGCAGCG-TTTTAAAAAAACGCCTG-TAAAAA-
1 CAGAGCATTAGCGGCGCTTTTAGTAAAACGCC-GCTAAAAAC
* ** * *
117523403 CAGAACAACAGCGGCGTTTTTTACTAAAACGCCGCTAAAAA-
1 CAGAGCATTAGCGGCG-CTTTTAGTAAAACGCCGCTAAAAAC
***
117523444 CAGAGCATTAGCGGCGCTTCCGGTAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTAAAAAC
* *
117523485 CAGAGCATTAGCGGCGC-TTTAGGTAAAACGTCGGTAAAAAC
1 CAGAGCATTAGCGGCGCTTTTA-GTAAAACGCCGCTAAAAAC
*
117523526 CAGAGCATTAACGGCGCTTTCTA-T-AAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTT-TAGTAAAACGCCGCTAAAAAC
* **
117523566 AAG-GCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTAAAAAC
*
117523606 CAGAGCATTAGCGGCGC-TTTGGATAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTTAG-TAAAACGCCGCTAAAAAC
*
117523647 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAA
1 CAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTAAAAA
117523687 TCCCATAACC
Statistics
Matches: 245, Mismatches: 27, Indels: 22
0.83 0.09 0.07
Matches are distributed among these distances:
39 29 0.12
40 59 0.24
41 148 0.60
42 7 0.03
43 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (41 bp):
CAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTAAAAAC
Found at i:117523554 original size:121 final size:122
Alignment explanation
Indices: 117523427--117523686 Score: 420
Period size: 121 Copynumber: 2.1 Consensus size: 122
117523417 CGTTTTTTAC
117523427 TAAAACGCCGCTAAAAAC-AGAGCATTAGCGGCGCTTCCGGTAAAACGCCGCTAAAAACCAGAGC
1 TAAAACGCCGCTAAAAACAAG-GCATTAGCGGCGCTTCCGGTAAAACGCCGCTAAAAACCAGAGC
* *
117523491 ATTAGCGGCGCTTTAGG-TAAAACGTCGGTAAAAACCAGAGCATTAACGGCGCTTTCT-A
65 ATTAGCGGCGCTTT-GGATAAAACGCCGCTAAAAACCAGAGCATTAACGGCGCTTT-TGA
*
117523549 T-AAACGCCGCTAAAAACAAGGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGCA
1 TAAAACGCCGCTAAAAACAAGGCATTAGCGGCGCTTCCGGTAAAACGCCGCTAAAAACCAGAGCA
* *
117523613 TTAGCGGCGCTTTGGATAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
66 TTAGCGGCGCTTTGGATAAAACGCCGCTAAAAACCAGAGCATTAACGGCGCTTTTGA
117523670 TAAAACGCCGCTAAAAA
1 TAAAACGCCGCTAAAAA
117523687 TCCCATAACC
Statistics
Matches: 129, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
120 3 0.02
121 108 0.84
122 18 0.14
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.18
Consensus pattern (122 bp):
TAAAACGCCGCTAAAAACAAGGCATTAGCGGCGCTTCCGGTAAAACGCCGCTAAAAACCAGAGCA
TTAGCGGCGCTTTGGATAAAACGCCGCTAAAAACCAGAGCATTAACGGCGCTTTTGA
Found at i:117526390 original size:18 final size:17
Alignment explanation
Indices: 117526369--117526411 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
117526359 ATCTTAATGA
117526369 TGATGATGATGTTGATAC
1 TGATGATGATGTTGAT-C
*
117526387 TGATGTTGATGTTGATC
1 TGATGATGATGTTGATC
117526404 TCGATGAT
1 T-GATGAT
117526412 TATACCCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42
Consensus pattern (17 bp):
TGATGATGATGTTGATC
Found at i:117528436 original size:133 final size:133
Alignment explanation
Indices: 117528198--117528449 Score: 486
Period size: 133 Copynumber: 1.9 Consensus size: 133
117528188 TGGTGATTCC
117528198 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
*
117528263 TGGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGT
66 TGGACTTAGATTGATTTAAGAGTTTAATGCTATCTTGTTGCTCACGTTTTATATAATAAAATTGT
117528328 TAT
131 TAT
117528331 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
1 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
*
117528396 TGGACTTAGATTGATTTAAGAGTTTATTGCTATCTTGTTGCTCACGTTTTATAT
66 TGGACTTAGATTGATTTAAGAGTTTAATGCTATCTTGTTGCTCACGTTTTATAT
117528450 TGTTGAATTC
Statistics
Matches: 117, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 117 1.00
ACGTcount: A:0.20, C:0.10, G:0.18, T:0.51
Consensus pattern (133 bp):
ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTG
TGGACTTAGATTGATTTAAGAGTTTAATGCTATCTTGTTGCTCACGTTTTATATAATAAAATTGT
TAT
Found at i:117534533 original size:25 final size:28
Alignment explanation
Indices: 117534484--117534534 Score: 72
Period size: 25 Copynumber: 1.9 Consensus size: 28
117534474 GGTTCGTCAG
117534484 GATGTAGATGAAGATATTTACGATTTAT
1 GATGTAGATGAAGATATTTACGATTTAT
*
117534512 GATGTAG-T-AAGAT-TTTATGATTT
1 GATGTAGATGAAGATATTTACGATTT
117534535 TTTATTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 9 0.41
26 5 0.23
27 1 0.05
28 7 0.32
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (28 bp):
GATGTAGATGAAGATATTTACGATTTAT
Found at i:117535628 original size:17 final size:19
Alignment explanation
Indices: 117535606--117535643 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
117535596 ATCTATCAAG
117535606 TATT-AATAA-ATTTTTAC
1 TATTAAATAATATTTTTAC
117535623 TATTAAATAATATTTTTAC
1 TATTAAATAATATTTTTAC
117535642 TA
1 TA
117535644 CTATATTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 5 0.26
19 10 0.53
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTAAATAATATTTTTAC
Found at i:117536639 original size:85 final size:84
Alignment explanation
Indices: 117536538--117536729 Score: 267
Period size: 85 Copynumber: 2.3 Consensus size: 84
117536528 TTAGCGGCAT
* *
117536538 TTTTTAAAAAAACGCCGCTAAAAGTACAGGTCTATAGCGGTGTTTTTTACAAAAGCGCCGCTAAA
1 TTTTTATAAAAACGCCGCTAAAAGTACAGGTCTATAGCGGCG-TTTTTACAAAAGCGCCGCTAAA
117536603 AGTACAGGTCTACAGCGGCG
65 AGTACAGGTCTACAGCGGCG
* * * *
117536623 TTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTATAGTGGCGTTTTTATAAAAGCGCCGCTAAAG
1 TTTTTATAAAAACGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTACAAAAGCGCCGCTAAAA
* * **
117536688 GTCCTGGTCTTTAGCGGCG
66 GTACAGGTCTACAGCGGCG
*
117536707 CTTTTATAAAAAACGCCGCTAAA
1 TTTTTAT-AAAAACGCCGCTAAA
117536730 GGTCTTGATC
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
84 42 0.45
85 52 0.55
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (84 bp):
TTTTTATAAAAACGCCGCTAAAAGTACAGGTCTATAGCGGCGTTTTTACAAAAGCGCCGCTAAAA
GTACAGGTCTACAGCGGCG
Found at i:117536697 original size:127 final size:127
Alignment explanation
Indices: 117536538--117536856 Score: 349
Period size: 127 Copynumber: 2.5 Consensus size: 127
117536528 TTAGCGGCAT
* * * * * * * *
117536538 TTTTTAAAAAAACGCCGCTAAAAGTACAGGTCTATAGCGGTG-TTTTTTACAAAAGCGCCGCTAA
1 TTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTTTA-AAAAACGCCGCTAA
* *
117536602 AAGTAC-AGGTCTACAG-CGGCGTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTATAGTGGCG
65 AAGT-CTAGATCT-CAGCCGGCGTTTTTATAAAAGCACCGCTAAAAGTACAGGTCTATAGTGGCG
*
117536665 TTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAA
1 TTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAAA
* * ** * * * * * * *
117536730 GGTCTTGATCTTTGCCGGCGTTTTTTTAAGAGCACCGCTAAAGGTCCTGGTCTTTTGTGGCG
66 AGTCTAGATCTCAGCCGGCGTTTTTATAAAAGCACCGCTAAAAGTACAGGTCTATAGTGGCG
* * *
117536792 TTCTTT-TAAGAGCGCCGCTAAAGGTCCTGGTCTTTCGCGGCGCTTTTTTAAAAAACGCTGCTAA
1 TT-TTTATAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAA
117536856 A
65 A
117536857 GATCATGGTC
Statistics
Matches: 162, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
126 2 0.01
127 151 0.93
128 9 0.06
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (127 bp):
TTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAAA
AGTCTAGATCTCAGCCGGCGTTTTTATAAAAGCACCGCTAAAAGTACAGGTCTATAGTGGCG
Found at i:117536784 original size:42 final size:41
Alignment explanation
Indices: 117536531--117536881 Score: 261
Period size: 42 Copynumber: 8.3 Consensus size: 41
117536521 GGGCAAATTA
* * * * * * *
117536531 GCGGCATTTTTTAAAAAAACGCCGCTAAAAGTACAGGTCTATA
1 GCGGCGTTTTTT-TAAAAGCGCCGCTAAAGGTCCTGGTCT-TT
* * * * * **
117536574 GCGGTGTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTACA
1 GCGGCGTTTTTT-TAAAAGCGCCGCTAAAGGTCCTGGTCT-TT
* * * * *
117536617 GCGGCGTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTATA
1 GCGGCGTTTTTTTAAAAGCGCCGCTAAAGGTCCTGGTCT-TT
* *
117536659 GTGGCGTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTTT
1 GCGGCGTTTTTTTAAAAGCGCCGCTAAAGGTCCTGGTCTTT
* * * * *
117536700 AGCGGCGCTTTTATAAAAAACGCCGCTAAAGGTCTTGATCTTT
1 -GCGGCG-TTTTTTTAAAAGCGCCGCTAAAGGTCCTGGTCTTT
* *
117536743 GCCGGCGTTTTTTTAAGAGCACCGCTAAAGGTCCTGGTCTTTT
1 G-CGGCGTTTTTTTAAAAGCGCCGCTAAAGGTCCTGGTC-TTT
* * *
117536786 GTGGCGTTCTTTTAAGAGCGCCGCTAAAGGTCCTGGTCTTT
1 GCGGCGTTTTTTTAAAAGCGCCGCTAAAGGTCCTGGTCTTT
* * * * *
117536827 CGCGGCGCTTTTTTAAAAAACGCTGCTAAAGATCATGGTCTTT
1 -GCGGCG-TTTTTTTAAAAGCGCCGCTAAAGGTCCTGGTCTTT
*
117536870 AGCGGCCTTTTT
1 -GCGGCGTTTTT
117536882 AAGTATTAGC
Statistics
Matches: 261, Mismatches: 41, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
41 4 0.02
42 138 0.53
43 119 0.46
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (41 bp):
GCGGCGTTTTTTTAAAAGCGCCGCTAAAGGTCCTGGTCTTT
Found at i:117536857 original size:127 final size:127
Alignment explanation
Indices: 117536618--117536857 Score: 356
Period size: 127 Copynumber: 1.9 Consensus size: 127
117536608 AGGTCTACAG
*
117536618 CGGCGTTTTTATAAAAGCGCCGCTAAAAGTACAGGTCTATAGTGGCGTTTTTATAAAAGCGCCGC
1 CGGCGTTTTTATAAAAGCACCGCTAAAAGTACAGGTCTATAGTGGCGTTTTTATAAAAGCGCCGC
117536683 TAAAGGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGGTCTTGATCTTTGC
66 TAAAGGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGGTCTTGATCTTTGC
* * * * * * * *
117536745 CGGCGTTTTTTTAAGAGCACCGCTAAAGGTCCTGGTCTTTTGTGGCGTTCTTT-TAAGAGCGCCG
1 CGGCGTTTTTATAAAAGCACCGCTAAAAGTACAGGTCTATAGTGGCGTT-TTTATAAAAGCGCCG
* * *
117536809 CTAAAGGTCCTGGTCTTTCGCGGCGCTTTTTTAAAAAACGCTGCTAAAG
65 CTAAAGGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAG
117536858 ATCATGGTCT
Statistics
Matches: 100, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
127 97 0.97
128 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (127 bp):
CGGCGTTTTTATAAAAGCACCGCTAAAAGTACAGGTCTATAGTGGCGTTTTTATAAAAGCGCCGC
TAAAGGTCCTGGTCTTTAGCGGCGCTTTTATAAAAAACGCCGCTAAAGGTCTTGATCTTTGC
Found at i:117541239 original size:6 final size:6
Alignment explanation
Indices: 117541228--117541258 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
117541218 TAAGAGTAAC
117541228 AAGAAT AAGAAT AAGAAT AAGAAT AAGAAT A
1 AAGAAT AAGAAT AAGAAT AAGAAT AAGAAT A
117541259 GTAATAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAGAAT
Found at i:117541264 original size:18 final size:19
Alignment explanation
Indices: 117541222--117541274 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
117541212 AAGAAATAAG
*
117541222 AGTAACAAGAATAAGAATA
1 AGTAATAAGAATAAGAATA
117541241 AG-AATAAGAATAAGAAT-
1 AGTAATAAGAATAAGAATA
*
117541258 AGTAATAATAA-AAGAAT
1 AGTAATAAGAATAAGAAT
117541275 TAAAATAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 8 0.26
18 21 0.68
19 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.15, T:0.19
Consensus pattern (19 bp):
AGTAATAAGAATAAGAATA
Found at i:117549506 original size:47 final size:47
Alignment explanation
Indices: 117549322--117549595 Score: 413
Period size: 49 Copynumber: 5.7 Consensus size: 47
117549312 AAGATTCTAC
117549322 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAT
1 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGAT
117549371 GTGATGAATGTGAAAGCGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 GTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGAT
117549420 GTGATGAATGTGAAAGCGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 GTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGAT
*
117549469 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAAT
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * * * * *
117549516 GTGATGAATGTGAAAGTGTATATATGCGATAGGGCCGAGTGGCCAAC
1 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* *
117549563 GTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GTGATGAATGTGAAAGTGTATATATGTGATAAG
117549596 TCCCGAAGGG
Statistics
Matches: 213, Mismatches: 10, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
47 102 0.48
49 108 0.51
51 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
Found at i:117564999 original size:6 final size:6
Alignment explanation
Indices: 117564988--117565014 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
117564978 TTACTATCTC
117564988 TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTT
117565015 GCCACAAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:117566490 original size:13 final size:13
Alignment explanation
Indices: 117566472--117566501 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
117566462 AGTATCGGGG
117566472 GCATATTAAGTCC
1 GCATATTAAGTCC
117566485 GCATATTAAGTCC
1 GCATATTAAGTCC
117566498 GCAT
1 GCAT
117566502 TATTCGTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (13 bp):
GCATATTAAGTCC
Found at i:117567758 original size:11 final size:11
Alignment explanation
Indices: 117567713--117567760 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
117567703 ATTAAATTAA
*
117567713 TAAAATACTAT
1 TAAAATAATAT
*
117567724 TAAGATAAGTAT
1 TAAAATAA-TAT
*
117567736 TAAATTTAATAT
1 TAAA-ATAATAT
117567748 TAAAATAATAT
1 TAAAATAATAT
117567759 TA
1 TA
117567761 TTTTTGGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
11 14 0.47
12 13 0.43
13 3 0.10
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (11 bp):
TAAAATAATAT
Found at i:117568051 original size:20 final size:20
Alignment explanation
Indices: 117568015--117568052 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
117568005 ACCCAATTCA
*
117568015 ATCGGTTTTTGGGTCTTGGT
1 ATCGGTTTTTGGCTCTTGGT
117568035 ATCGG-TTTTGAGCTCTTG
1 ATCGGTTTTTG-GCTCTTG
117568053 AGCCCAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.08, C:0.13, G:0.32, T:0.47
Consensus pattern (20 bp):
ATCGGTTTTTGGCTCTTGGT
Found at i:117572431 original size:46 final size:46
Alignment explanation
Indices: 117572379--117572698 Score: 453
Period size: 46 Copynumber: 7.0 Consensus size: 46
117572369 AGTGTGCTCT
* *
117572379 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
117572425 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
117572471 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
117572517 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * * *
117572563 ATGACGGGAAATCAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
117572609 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
117572655 ATGATA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
117572699 TCATGTCAAA
Statistics
Matches: 253, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 252 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:117573005 original size:16 final size:17
Alignment explanation
Indices: 117572984--117573016 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
117572974 ATGATGGTGC
117572984 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
117573000 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
117573017 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:117574023 original size:26 final size:26
Alignment explanation
Indices: 117573979--117574036 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
117573969 TTAAACATTC
*
117573979 AATTATAATTTCACATTTCAAGTAAA
1 AATTATAATTTCACATTTCAAGCAAA
117574005 AATTATAATTTCACATTTCAAGCAAA
1 AATTATAATTTCACATTTCAAGCAAA
*
117574031 CATTAT
1 AATTAT
117574037 TCAGACTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.45, C:0.14, G:0.03, T:0.38
Consensus pattern (26 bp):
AATTATAATTTCACATTTCAAGCAAA
Found at i:117580983 original size:13 final size:13
Alignment explanation
Indices: 117580974--117581001 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
117580964 TCCCGTGTCC
117580974 CTAACCCGTGTAA
1 CTAACCCGTGTAA
117580987 CTAACCCGTGTAA
1 CTAACCCGTGTAA
117581000 CT
1 CT
117581002 CTCTATTTAT
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:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (13 bp):
CTAACCCGTGTAA
Found at i:117581136 original size:13 final size:13
Alignment explanation
Indices: 117581118--117581142 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
117581108 GTGCAGACTT
117581118 CACACGCCCATGA
1 CACACGCCCATGA
117581131 CACACGCCCATG
1 CACACGCCCATG
117581143 TCCCTAGGCC
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:0.28, C:0.48, G:0.16, T:0.08
Consensus pattern (13 bp):
CACACGCCCATGA
Found at i:117587286 original size:14 final size:17
Alignment explanation
Indices: 117587247--117587299 Score: 88
Period size: 17 Copynumber: 3.0 Consensus size: 17
117587237 ATATCATATC
117587247 ATATCATATCTAAGATT
1 ATATCATATCTAAGATT
117587264 ATATCATATCTAAGATTT
1 ATATCATATCTAAGA-TT
117587282 CATATCATATCTAAGATT
1 -ATATCATATCTAAGATT
117587300 GCATATACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
17 15 0.44
18 4 0.12
19 15 0.44
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.42
Consensus pattern (17 bp):
ATATCATATCTAAGATT
Found at i:117587288 original size:19 final size:19
Alignment explanation
Indices: 117587245--117587305 Score: 99
Period size: 19 Copynumber: 3.3 Consensus size: 19
117587235 GCATATCATA
117587245 TCATATCATATCTAAGA-T
1 TCATATCATATCTAAGATT
117587263 T-ATATCATATCTAAGATT
1 TCATATCATATCTAAGATT
117587281 TCATATCATATCTAAGATT
1 TCATATCATATCTAAGATT
*
117587300 GCATAT
1 TCATAT
117587306 ACTTAAAGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
17 15 0.38
18 3 0.08
19 22 0.55
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.41
Consensus pattern (19 bp):
TCATATCATATCTAAGATT
Found at i:117587839 original size:87 final size:86
Alignment explanation
Indices: 117587699--117587863 Score: 201
Period size: 87 Copynumber: 1.9 Consensus size: 86
117587689 ACAATACAGA
*
117587699 GATGCCAAATCATCTTAGGTCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTGTGTCTTCA
1 GATGCCAAATCATCTTAGGTCTGCTTCA-CGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCA
*
117587764 ATTTGCTCCTTGTGAACACAAG
65 ATCTGCTCCTTGTGAACACAAG
* * *
117587786 GATGCCAAATCATCTT-GGATCTGCTTCA-GTAAAATCATC-TGAAGGTCAGATCTGCTATGTCT
1 GATGCCAAATCATCTTAGG-TCTGCTTCACGT-AAA-CA-CGTGAAAGCCAAATCTGCTATGTCT
* *
117587848 TTAATCTGCTTCTTGT
62 TCAATCTGCTCCTTGT
117587864 AAACTTATGA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
85 2 0.03
86 5 0.07
87 59 0.88
88 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (86 bp):
GATGCCAAATCATCTTAGGTCTGCTTCACGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCAA
TCTGCTCCTTGTGAACACAAG
Found at i:117588053 original size:261 final size:256
Alignment explanation
Indices: 117587589--117588101 Score: 715
Period size: 261 Copynumber: 2.0 Consensus size: 256
117587579 CATGGTCCTC
* *
117587589 AATCTGCTCATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATCTGCTCTCCGTCGAACACA
1 AATCTGCTCATTGCAAACTCAAGACTGTCATGTTGATATCTTCAATCTGCTCTCCGCCGAACACA
* * * *
117587654 GAGACGCCAAATCTGCTTCTTCGATTTGTTTTCTGACAATACAGAGATGCCAAATCATCTTAGGT
66 GAGACGCCAAATCAGCTTCTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGAT
* * *
117587719 CTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTGTGTCTTCAATTTGCTCCTTGTGAACACA
131 CTGCTTCAGCGTAAACACGTGAAAACCAAATCAGCTATGTCTTCAATTTGCTCCTTGTGAACACA
*
117587784 AGGATGCCAAATCATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTCAGATCTGCTATGTCTT
196 AGGATGCCAAACCATCTTGGATCTGCTTCAG-----TCATCTGAAGGTCAGATCTGCTATGTCTT
117587849 T
256 T
* * * * * *
117587850 AATCTGCTTC-TTGTAAACTTATGACTGTCCTGTTGATATCTTCAATCTGCTCTGCGCCGAATAC
1 AATCTGC-TCATTGCAAACTCAAGACTGTCATGTTGATATCTTCAATCTGCTCTCCGCCGAACAC
* *
117587914 AGAGATGCCAAATCAGTTTCTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGA
65 AGAGACGCCAAATCAGCTTCTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGA
* * * * * * *
117587979 TTTGCTTCAGTGTAAGCATGTGAAAACTAAATCAGCTATGTCTTCGATTTGTTCCTTGT-AAGCA
130 TCTGCTTCAGCGTAAACACGTGAAAACCAAATCAGCTATGTCTTCAATTTGCTCCTTGTGAA-CA
*
117588043 CAAGGATGCCAAACCATCTTGGATCTGCTTCAGTCATCTGAAGGTTAGATCTGCTATGT
194 CAAGGATGCCAAACCATCTTGGATCTGCTTCAGTCATCTGAAGGTCAGATCTGCTATGT
117588102 ATCTGCTCTC
Statistics
Matches: 224, Mismatches: 26, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
256 25 0.11
260 2 0.01
261 195 0.87
262 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (256 bp):
AATCTGCTCATTGCAAACTCAAGACTGTCATGTTGATATCTTCAATCTGCTCTCCGCCGAACACA
GAGACGCCAAATCAGCTTCTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGAT
CTGCTTCAGCGTAAACACGTGAAAACCAAATCAGCTATGTCTTCAATTTGCTCCTTGTGAACACA
AGGATGCCAAACCATCTTGGATCTGCTTCAGTCATCTGAAGGTCAGATCTGCTATGTCTTT
Found at i:117588382 original size:205 final size:200
Alignment explanation
Indices: 117587933--117588460 Score: 914
Period size: 205 Copynumber: 2.6 Consensus size: 200
117587923 AAATCAGTTT
117587933 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGT-GTAAGCA
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCA-TCGTAAGCA
* * *
117587997 TGTGAAAACTAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
* *
117588062 TGGATCTGCTTCAGTCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGAT
130 TGGATCTACTTCAGTCATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAGAT
117588127 GCCAGA
195 GCCAGA
*
117588133 CTTCGATTTGTTCTCTAACAATACAAAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
117588198 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
117588263 GGATCTATTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGG
131 GGATCTACTTCAG--T---CATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGG
117588328 AGATGCCAGA
191 AGATGCCAGA
*
117588338 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
*
117588403 GTGAAAGCCAAATAAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAA
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAA
117588461 ACATGCCAAA
Statistics
Matches: 312, Mismatches: 10, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
199 1 0.00
200 135 0.43
202 1 0.00
205 175 0.56
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (200 bp):
CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTACTTCAGTCATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAGATG
CCAGA
Found at i:117588459 original size:46 final size:46
Alignment explanation
Indices: 117588409--117588557 Score: 129
Period size: 46 Copynumber: 3.1 Consensus size: 46
117588399 GCACGTGAAA
* *
117588409 GCCAAATAAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGAT
1 GCCAAATAAGCTATGTTTTAGATTTGTTCCTTGTAAGCACAAGGAT
* * * * ** * *
117588455 GCCAAA-ACATGCCAAATCATTTTAGATTTGCTTCATCGTAAGCACGTGAAA
1 GCCAAATA-A-G-C-TAT-GTTTTAGATTTG-TTCCTTGTAAGCACAAGGAT
* *
117588506 GCCAAATCAGCTATGTTTTTGATTTGTTCCTTGTAAGCACAAGGAT
1 GCCAAATAAGCTATGTTTTAGATTTGTTCCTTGTAAGCACAAGGAT
117588552 GCCAAA
1 GCCAAA
117588558 CCATCTTGGA
Statistics
Matches: 76, Mismatches: 20, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
45 1 0.01
46 27 0.36
47 11 0.14
48 3 0.04
49 3 0.04
50 10 0.13
51 21 0.28
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (46 bp):
GCCAAATAAGCTATGTTTTAGATTTGTTCCTTGTAAGCACAAGGAT
Found at i:117588532 original size:97 final size:97
Alignment explanation
Indices: 117588366--117588557 Score: 348
Period size: 97 Copynumber: 2.0 Consensus size: 97
117588356 CAATACAGAG
117588366 ATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATAAGCTATGTCTTCGA
1 ATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATAAGCTATGTCTTCGA
117588431 TTTGTTCCTTGTAAGCACAAGGATGCCAAAAC
66 TTTGTTCCTTGTAAGCACAAGGATGCCAAAAC
* * * *
117588463 ATGCCAAATCATTTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGCTATGTTTTTGA
1 ATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATAAGCTATGTCTTCGA
117588528 TTTGTTCCTTGTAAGCACAAGGATGCCAAA
66 TTTGTTCCTTGTAAGCACAAGGATGCCAAA
117588558 CCATCTTGGA
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
97 91 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (97 bp):
ATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATAAGCTATGTCTTCGA
TTTGTTCCTTGTAAGCACAAGGATGCCAAAAC
Found at i:117588707 original size:302 final size:302
Alignment explanation
Indices: 117588161--117588762 Score: 1096
Period size: 302 Copynumber: 2.0 Consensus size: 302
117588151 CAATACAAAG
117588161 ATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGA
1 ATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGA
*
117588226 TTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTATTTCAGTATAAACATCTGAAG
66 TTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAG
117588291 GTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGATTTGTTCTCTGA
131 GTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGATTTGTTCTCTGA
* *
117588356 CAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATAAGCT
196 CAATACAAAGATGCCAAATCATCTTAGATTTGATTCATCGTAAGCACGTGAAAGCCAAATAAGCT
117588421 ATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAAAC
261 ATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAAAC
* * *
117588463 ATGCCAAATCATTTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGCTATGTTTTTGA
1 ATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGA
*
117588528 TTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAG
66 TTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAG
* ** *
117588593 GTTAGATCTGCTATGTATCTGCTCTTTGTCGAAATGGATATGCCAGACTTCGATTTGTTCTCTGA
131 GTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGATTTGTTCTCTGA
*
117588658 CAATACAAAGATGCCAAATCATCTTAGATTTGATTCATCGTAAGCACGTGAAAGCCAAATCAGCT
196 CAATACAAAGATGCCAAATCATCTTAGATTTGATTCATCGTAAGCACGTGAAAGCCAAATAAGCT
117588723 ATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAA
261 ATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAA
117588763 CCATCTTGGA
Statistics
Matches: 288, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
302 288 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (302 bp):
ATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGA
TTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAG
GTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGATTTGTTCTCTGA
CAATACAAAGATGCCAAATCATCTTAGATTTGATTCATCGTAAGCACGTGAAAGCCAAATAAGCT
ATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAAAC
Found at i:117589760 original size:24 final size:24
Alignment explanation
Indices: 117589726--117589780 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 24
117589716 GGCCTCTCCA
117589726 TTTTTTCTTTTTTCTC-TTTTCTT
1 TTTTTTCTTTTTTCTCTTTTTCTT
117589749 TTTTTTCTTTTTTTCTCTTTTTCTT
1 TTTTTTC-TTTTTTCTCTTTTTCTT
117589774 TTCTTTT
1 TT-TTTT
117589781 TTCCTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 7 0.24
24 9 0.31
25 9 0.31
26 4 0.14
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (24 bp):
TTTTTTCTTTTTTCTCTTTTTCTT
Found at i:117589774 original size:30 final size:30
Alignment explanation
Indices: 117589726--117589791 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 30
117589716 GGCCTCTCCA
* *
117589726 TTTTTTCTTTTTTCTCTTTTCTTTTTTTTCT
1 TTTTTTCTCTTTTCTCTTTTC-TTTTTTCCT
117589757 TTTTTTCTCTTTT-TCTTTTCTTTTTTCCT
1 TTTTTTCTCTTTTCTCTTTTCTTTTTTCCT
117589786 TTTTTT
1 TTTTTT
117589792 TTGAAATAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 14 0.42
30 7 0.21
31 12 0.36
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (30 bp):
TTTTTTCTCTTTTCTCTTTTCTTTTTTCCT
Found at i:117589787 original size:8 final size:7
Alignment explanation
Indices: 117589726--117589790 Score: 62
Period size: 8 Copynumber: 8.9 Consensus size: 7
117589716 GGCCTCTCCA
117589726 TTTTTTC
1 TTTTTTC
117589733 TTTTTTC
1 TTTTTTC
*
117589740 TCTTTTCTT
1 T-TTTT-TC
117589749 TTTTTTC
1 TTTTTTC
117589756 TTTTTTTC
1 -TTTTTTC
117589764 TCTTTTTC
1 T-TTTTTC
117589772 --TTTTC
1 TTTTTTC
117589777 TTTTTTCC
1 TTTTTT-C
117589785 TTTTTT
1 TTTTTT
117589791 TTTGAAATAG
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
5 5 0.10
7 14 0.29
8 28 0.57
9 2 0.04
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:117589792 original size:30 final size:31
Alignment explanation
Indices: 117589726--117589791 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 31
117589716 GGCCTCTCCA
* *
117589726 TTTTTTCTTTTTTCTCTTTTCTTTTTTTTCT
1 TTTTTTCTCTTTTCTCTTTTCTTTTTTCTCT
117589757 TTTTTTCTCTTTT-TCTTTTCTTTTTTC-CT
1 TTTTTTCTCTTTTCTCTTTTCTTTTTTCTCT
117589786 TTTTTT
1 TTTTTT
117589792 TTGAAATAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 8 0.24
30 13 0.39
31 12 0.36
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (31 bp):
TTTTTTCTCTTTTCTCTTTTCTTTTTTCTCT
Found at i:117595523 original size:14 final size:17
Alignment explanation
Indices: 117595484--117595536 Score: 88
Period size: 17 Copynumber: 3.0 Consensus size: 17
117595474 ATATCATATC
117595484 ATATCATATCTAAGATT
1 ATATCATATCTAAGATT
117595501 ATATCATATCTAAGATTT
1 ATATCATATCTAAGA-TT
117595519 CATATCATATCTAAGATT
1 -ATATCATATCTAAGATT
117595537 GCATATACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
17 15 0.44
18 4 0.12
19 15 0.44
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.42
Consensus pattern (17 bp):
ATATCATATCTAAGATT
Found at i:117595525 original size:19 final size:19
Alignment explanation
Indices: 117595482--117595542 Score: 99
Period size: 19 Copynumber: 3.3 Consensus size: 19
117595472 GCATATCATA
117595482 TCATATCATATCTAAGA-T
1 TCATATCATATCTAAGATT
117595500 T-ATATCATATCTAAGATT
1 TCATATCATATCTAAGATT
117595518 TCATATCATATCTAAGATT
1 TCATATCATATCTAAGATT
*
117595537 GCATAT
1 TCATAT
117595543 ACTTAAAGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
17 15 0.38
18 3 0.08
19 22 0.55
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.41
Consensus pattern (19 bp):
TCATATCATATCTAAGATT
Found at i:117596742 original size:28 final size:28
Alignment explanation
Indices: 117596696--117596764 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
117596686 TTTAAAACCC
*
117596696 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
117596723 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
117596751 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
117596765 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:117598614 original size:19 final size:18
Alignment explanation
Indices: 117598577--117598620 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
117598567 ATACATACAG
117598577 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
117598594 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
117598613 TACTAATT
1 TAATAATT
117598621 AAAATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:117600734 original size:87 final size:87
Alignment explanation
Indices: 117600594--117600758 Score: 208
Period size: 87 Copynumber: 1.9 Consensus size: 87
117600584 ACAATACAGA
** *
117600594 GATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTGTGTCTTCA
1 GATGCCAAATCATCTTAGATCTGCTTCAGCAAAAACACGTGAAAGCCAAATCTGCTATGTCTTCA
*
117600659 ATTTGCTCCTTGTGAACACAAG
66 ATCTGCTCCTTGTGAACACAAG
* * * *
117600681 GATGCCAAATCATCTTGGATCTGCTTCAG-AAAAATCATC-TGAAGGTCAGATCTGCTATGTCTT
1 GATGCCAAATCATCTTAGATCTGCTTCAGCAAAAA-CA-CGTGAAAGCCAAATCTGCTATGTCTT
* *
117600744 TAATCTGCTTCTTGT
64 CAATCTGCTCCTTGT
117600759 AAACTTATGA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
86 3 0.05
87 62 0.94
88 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (87 bp):
GATGCCAAATCATCTTAGATCTGCTTCAGCAAAAACACGTGAAAGCCAAATCTGCTATGTCTTCA
ATCTGCTCCTTGTGAACACAAG
Found at i:117601171 original size:200 final size:202
Alignment explanation
Indices: 117600828--117601359 Score: 926
Period size: 205 Copynumber: 2.6 Consensus size: 202
117600818 AAATCAGTTT
* *
117600828 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATTATCTTAGATTTGCTTCAGT-GTAAGCA
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCA-TCGTAAGCA
* *
117600892 TGTGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
*
117600957 TGGATCTGCTTCAG-T-CATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATCGAAATGGAG
130 TGGATCTACTTCAGATACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATCGAAATGGAG
117601020 ATGCCAAA
195 ATGCCAAA
*
117601028 CTTCGATTTGTTCTCTGACAATACAGATATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
117601093 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
117601158 GGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
131 GGATCTACTTCAG-AT--ACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATCGAAATGG
*
117601223 AGATGCCAGA
193 AGATGCCAAA
117601233 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
*
117601298 GTGAAAGCCAAATAAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCAT
117601360 GCCAAATCAT
Statistics
Matches: 316, Mismatches: 10, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
199 1 0.00
200 135 0.43
202 1 0.00
205 179 0.57
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (202 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTACTTCAGATACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCATCGAAATGGAGA
TGCCAAA
Found at i:117601354 original size:46 final size:46
Alignment explanation
Indices: 117601304--117601452 Score: 120
Period size: 46 Copynumber: 3.1 Consensus size: 46
117601294 GCACGTGAAA
* *
117601304 GCCAAATAAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGAT
1 GCCAAATAAGCTATGTTTTAGATTTGTTCCTTGTAAGCACAAGGAT
* * * * * * ** * *
117601350 GCCAAACCATGCCAAATCATTTTAGATTTGCTTCATCGTAAGCACGTGAAA
1 GCCAAA-TAAG-C-TAT-GTTTTAGATTTG-TTCCTTGTAAGCACAAGGAT
*
117601401 GCCAAATCAA-CTATGTTTTTGATTTGTTCCTTGTAAGCACAAGGAT
1 GCCAAAT-AAGCTATGTTTTAGATTTGTTCCTTGTAAGCACAAGGAT
117601447 GCCAAA
1 GCCAAA
117601453 CCATCTTGGA
Statistics
Matches: 74, Mismatches: 23, Indels: 12
0.68 0.21 0.11
Matches are distributed among these distances:
46 26 0.35
47 12 0.16
48 3 0.04
49 3 0.04
50 9 0.12
51 21 0.28
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (46 bp):
GCCAAATAAGCTATGTTTTAGATTTGTTCCTTGTAAGCACAAGGAT
Found at i:117601427 original size:97 final size:97
Alignment explanation
Indices: 117601261--117601456 Score: 349
Period size: 97 Copynumber: 2.0 Consensus size: 97
117601251 CAATACAGAG
117601261 ATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATAAGCTATGTCTTCGA
1 ATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATAAGCTATGTCTTCGA
117601326 TTTGTTCCTTGTAAGCACAAGGATGCCAAACC
66 TTTGTTCCTTGTAAGCACAAGGATGCCAAACC
* * *
117601358 ATGCCAAATCATTTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAA-CTATGTTTTTG
1 ATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAAT-AAGCTATGTCTTCG
117601422 ATTTGTTCCTTGTAAGCACAAGGATGCCAAACC
65 ATTTGTTCCTTGTAAGCACAAGGATGCCAAACC
117601455 AT
1 AT
117601457 CTTGGATCTG
Statistics
Matches: 95, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
97 93 0.98
98 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (97 bp):
ATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATAAGCTATGTCTTCGA
TTTGTTCCTTGTAAGCACAAGGATGCCAAACC
Found at i:117601602 original size:302 final size:302
Alignment explanation
Indices: 117601056--117601661 Score: 1095
Period size: 302 Copynumber: 2.0 Consensus size: 302
117601046 CAATACAGAT
*
117601056 ATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGA
1 ATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAACTATGTCTTCGA
117601121 TTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAG
66 TTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAG
* *
117601186 GTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGATTTGTTCTCTGA
131 GTGAGATCTGCTATGTATCTGCTCTCCATCGAAATGGAGATGCCAGACTTCGATTTGTTCTCTGA
* *
117601251 CAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATAAGCT
196 CAATACAAAGATGCCAAATCATCTTAGATTTGATTCATCGTAAGCACGTGAAAGCCAAATAAGCT
117601316 ATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACC
261 ATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACC
* * *
117601358 ATGCCAAATCATTTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAACTATGTTTTTGA
1 ATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAACTATGTCTTCGA
*
117601423 TTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAG
66 TTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAG
* *
117601488 GTGAGATCTGCTATGTATCTGCTCTCTATCGAAATGGATATGCCAGACTTCGATTTGTTCTCTGA
131 GTGAGATCTGCTATGTATCTGCTCTCCATCGAAATGGAGATGCCAGACTTCGATTTGTTCTCTGA
* *
117601553 CAATACAAATATGCCAAATCATCTTAGATTTGATTCATCGTAAGCACGTGAAAGCCAAATCAGCT
196 CAATACAAAGATGCCAAATCATCTTAGATTTGATTCATCGTAAGCACGTGAAAGCCAAATAAGCT
117601618 ATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACC
261 ATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACC
117601660 AT
1 AT
117601662 CTTGGATCTT
Statistics
Matches: 291, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
302 291 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (302 bp):
ATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCAACTATGTCTTCGA
TTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAG
GTGAGATCTGCTATGTATCTGCTCTCCATCGAAATGGAGATGCCAGACTTCGATTTGTTCTCTGA
CAATACAAAGATGCCAAATCATCTTAGATTTGATTCATCGTAAGCACGTGAAAGCCAAATAAGCT
ATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACC
Found at i:117602633 original size:7 final size:7
Alignment explanation
Indices: 117602621--117602691 Score: 74
Period size: 7 Copynumber: 9.9 Consensus size: 7
117602611 GGCCTCTCCA
117602621 TTTTTTC
1 TTTTTTC
117602628 TTTTTTC
1 TTTTTTC
117602635 TTTTTTC
1 TTTTTTC
*
117602642 TCTTTTC
1 TTTTTTC
117602649 TTTTTT-
1 TTTTTTC
117602655 TTTCTTT-
1 TTT-TTTC
*
117602662 TTTTCTTT
1 TTTT-TTC
117602670 TTCTTTTC
1 TT-TTTTC
117602678 TTTTTTCC
1 TTTTTT-C
117602686 TTTTTT
1 TTTTTT
117602692 TTTGAAATAG
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
6 4 0.07
7 37 0.66
8 13 0.23
9 2 0.04
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTC
Found at i:117602660 original size:24 final size:26
Alignment explanation
Indices: 117602623--117602692 Score: 101
Period size: 25 Copynumber: 2.7 Consensus size: 26
117602613 CCTCTCCATT
117602623 TTTTCTTTTTTC-TTTTTTCTCTTTTC
1 TTTTCTTTTTTCTTTTTTTCT-TTTTC
117602649 -TTT-TTTTTTCTTTTTTTCTTTTTC
1 TTTTCTTTTTTCTTTTTTTCTTTTTC
117602673 TTTTCTTTTTTCCTTTTTTT
1 TTTTCTTTTTT-CTTTTTTT
117602693 TTGAAATAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
24 12 0.30
25 14 0.35
26 6 0.15
27 8 0.20
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (26 bp):
TTTTCTTTTTTCTTTTTTTCTTTTTC
Found at i:117608462 original size:19 final size:19
Alignment explanation
Indices: 117608420--117608499 Score: 137
Period size: 19 Copynumber: 4.3 Consensus size: 19
117608410 CATATCATAT
117608420 CATATCATATCTAAGATT-
1 CATATCATATCTAAGATTG
117608438 -ATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
117608456 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
*
117608475 CATATCATATCTAGGATTG
1 CATATCATATCTAAGATTG
117608494 CATATC
1 CATATC
117608500 CTTAAAGATT
Statistics
Matches: 59, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
17 17 0.29
19 42 0.71
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:117609015 original size:43 final size:42
Alignment explanation
Indices: 117608860--117609016 Score: 140
Period size: 43 Copynumber: 3.6 Consensus size: 42
117608850 TGTGTTTTTG
* * *
117608860 TGTAAGACCACGTCTGGGACGTTGGCATCGACT-TATGATTTACA
1 TGTAAGA-CACGTCTAGGAAGTTGGCATCGA-TATTTGA-TTACA
* * * *
117608904 TGTAGGACAATGTCTAGGAAGTTGGCATC-ATATTTGATTTCG
1 TGTAAGAC-ACGTCTAGGAAGTTGGCATCGATATTTGATTACA
* *
117608946 TGTAAGACCCTGTCTGGGATAG-TGGCATCGATATTTGATTACA
1 TGTAAGACAC-GTCTAGGA-AGTTGGCATCGATATTTGATTACA
*
117608989 TGTAAGATCACGTCTAGGACGTTGGCAT
1 TGTAAGA-CACGTCTAGGAAGTTGGCAT
117609017 TGTACGAGCT
Statistics
Matches: 90, Mismatches: 16, Indels: 15
0.74 0.13 0.12
Matches are distributed among these distances:
42 26 0.29
43 39 0.43
44 25 0.28
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTAAGACACGTCTAGGAAGTTGGCATCGATATTTGATTACA
Found at i:117610127 original size:55 final size:55
Alignment explanation
Indices: 117610025--117610130 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 55
117610015 GCCTGGGTAG
*
117610025 ACCACACGATCATACACACGAGTGTGTGCTAGGCCGTATGGCAAAGTCAGTTTCA
1 ACCACACGATCATACACACGAGTGTGTGCTAGGCCATATGGCAAAGTCAGTTTCA
* * * * *
117610080 ACCACACGATCGTACACACGGGTGTGTGGTCA-GCCATGTGGCCAAGTCAGT
1 ACCACACGATCATACACACGAGTGTGTGCT-AGGCCATATGGCAAAGTCAGT
117610131 AGCCTCCCTA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
55 43 0.98
56 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (55 bp):
ACCACACGATCATACACACGAGTGTGTGCTAGGCCATATGGCAAAGTCAGTTTCA
Found at i:117611729 original size:14 final size:14
Alignment explanation
Indices: 117611710--117611740 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
117611700 TCTCCTTGGC
*
117611710 CGGTTCGGTTCACT
1 CGGTTCGGTTCAAT
117611724 CGGTTCGGTTCAAT
1 CGGTTCGGTTCAAT
117611738 CGG
1 CGG
117611741 ACCATTTTTT
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:0.10, C:0.26, G:0.32, T:0.32
Consensus pattern (14 bp):
CGGTTCGGTTCAAT
Found at i:117617545 original size:27 final size:27
Alignment explanation
Indices: 117617489--117617545 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
117617479 AAGTTGTTCG
* *
117617489 AAAATAAGAAAAATAAAGTAAATAACT
1 AAAATAAGAAAAATAAAATAAAGAACT
**
117617516 AAAATAAGAAATTTAAGAATAAAGAA-T
1 AAAATAAGAAAAATAA-AATAAAGAACT
117617543 AAA
1 AAA
117617546 TATTCAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (27 bp):
AAAATAAGAAAAATAAAATAAAGAACT
Found at i:117623832 original size:13 final size:13
Alignment explanation
Indices: 117623814--117623838 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
117623804 TCCATTGGCT
117623814 TTTCTAATAAAGG
1 TTTCTAATAAAGG
117623827 TTTCTAATAAAG
1 TTTCTAATAAAG
117623839 CAACTTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (13 bp):
TTTCTAATAAAGG
Found at i:117627770 original size:21 final size:21
Alignment explanation
Indices: 117627726--117627771 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
117627716 ATGCATGAAT
* *
117627726 TTAATTATTTGAAATTTACTA
1 TTAATTATTTAAAATTTACAA
*
117627747 TTAATTATTTAAAATTTTCAA
1 TTAATTATTTAAAATTTACAA
117627768 TTAA
1 TTAA
117627772 CAAATTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.52
Consensus pattern (21 bp):
TTAATTATTTAAAATTTACAA
Found at i:117631393 original size:18 final size:18
Alignment explanation
Indices: 117631370--117631436 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
117631360 ATAATGAAAC
117631370 ATTATGATAATAATATAT
1 ATTATGATAATAATATAT
* *
117631388 ATTATGTTAACTTTATATAT
1 ATTATGATAA--TAATATAT
* *
117631408 ATAAGTTATAATAATATAT
1 ATTA-TGATAATAATATAT
* *
117631427 GTTATAATAA
1 ATTATGATAA
117631437 AAAAATGATA
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
18 14 0.38
19 9 0.24
20 10 0.27
21 4 0.11
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.46
Consensus pattern (18 bp):
ATTATGATAATAATATAT
Found at i:117631430 original size:15 final size:15
Alignment explanation
Indices: 117631406--117631436 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
117631396 AACTTTATAT
117631406 ATATAAGTTATAATA
1 ATATAAGTTATAATA
*
117631421 ATATATGTTATAATA
1 ATATAAGTTATAATA
117631436 A
1 A
117631437 AAAAATGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (15 bp):
ATATAAGTTATAATA
Found at i:117632763 original size:19 final size:19
Alignment explanation
Indices: 117632728--117632800 Score: 69
Period size: 19 Copynumber: 3.8 Consensus size: 19
117632718 AAGATGGCAA
*
117632728 AGATGGGAAAT-AAATATG
1 AGATGAGAAATGAAATATG
117632746 AGATGAGAAATGAAATATG
1 AGATGAGAAATGAAATATG
* * *
117632765 AAATGATGAAATGAGATGTG
1 AGATGA-GAAATGAAATATG
*
117632785 A-ATTGTGAAATGAAAT
1 AGA-TGAGAAATGAAAT
117632801 CAAGTATTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
18 10 0.22
19 22 0.48
20 14 0.30
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.25
Consensus pattern (19 bp):
AGATGAGAAATGAAATATG
Found at i:117642327 original size:21 final size:21
Alignment explanation
Indices: 117642302--117642366 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
117642292 TAGCCTTCGG
*
117642302 GCTTCCGTTTAGCATTTATGT
1 GCTTCCGTTTAGCACTTATGT
* * * *
117642323 GCTTCAG-TTAGC-GTT-CGG
1 GCTTCCGTTTAGCACTTATGT
*
117642341 GCTTCCGTTTAGCACTTATTT
1 GCTTCCGTTTAGCACTTATGT
117642362 GCTTC
1 GCTTC
117642367 AGCTAGACTT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
18 7 0.22
19 7 0.22
20 7 0.22
21 11 0.34
ACGTcount: A:0.12, C:0.23, G:0.22, T:0.43
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:117642330 original size:39 final size:39
Alignment explanation
Indices: 117642284--117642368 Score: 143
Period size: 39 Copynumber: 2.2 Consensus size: 39
117642274 GCTCTGATGA
*
117642284 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCATTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
117642323 GCTTCAGTTAGCGTTCGGGCTTCCGTTTAGCACTTATTT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
117642362 GCTTCAG
1 GCTTCAG
117642369 CTAGACTTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.13, C:0.24, G:0.24, T:0.40
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:117642848 original size:12 final size:12
Alignment explanation
Indices: 117642833--117642858 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
117642823 TATATTAGTG
117642833 AATACTACTTGA
1 AATACTACTTGA
117642845 AATACTACTTGA
1 AATACTACTTGA
117642857 AA
1 AA
117642859 GTATGAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (12 bp):
AATACTACTTGA
Found at i:117643071 original size:64 final size:64
Alignment explanation
Indices: 117642994--117643123 Score: 260
Period size: 64 Copynumber: 2.0 Consensus size: 64
117642984 GCAGGGAATG
117642994 TTAGATGTTTCTAAAGGGGTTATATTGAATTTTTTTCTTTAAAAAAATAATTATATTACAAAAT
1 TTAGATGTTTCTAAAGGGGTTATATTGAATTTTTTTCTTTAAAAAAATAATTATATTACAAAAT
117643058 TTAGATGTTTCTAAAGGGGTTATATTGAATTTTTTTCTTTAAAAAAATAATTATATTACAAAAT
1 TTAGATGTTTCTAAAGGGGTTATATTGAATTTTTTTCTTTAAAAAAATAATTATATTACAAAAT
117643122 TT
1 TT
117643124 TTTGGACTAC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (64 bp):
TTAGATGTTTCTAAAGGGGTTATATTGAATTTTTTTCTTTAAAAAAATAATTATATTACAAAAT
Found at i:117647328 original size:46 final size:46
Alignment explanation
Indices: 117647275--117647449 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
117647265 AGATTTGTGT
117647275 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATG-GTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAG-A
117647321 GCCAGTGTAAGACCATGTCTGGGACATAGCATCGG---CATTGA-GACGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT-ATGA-GA
* * *
117647367 GGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGA
1 --GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
* *
117647415 GCTAATGTAAGACATGTCTGGGACATGCATCGGCC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC
117647450 TCGAGATGTT
Statistics
Matches: 113, Mismatches: 5, Indels: 22
0.81 0.04 0.16
Matches are distributed among these distances:
45 5 0.04
46 53 0.47
47 29 0.26
48 21 0.19
49 5 0.04
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
Found at i:117647396 original size:94 final size:92
Alignment explanation
Indices: 117647278--117647448 Score: 272
Period size: 94 Copynumber: 1.8 Consensus size: 92
117647268 TTTGTGTGCC
* * *
117647278 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATG-GTAGCCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAG-AGCCAATGTAAGA-CATGTCTG
117647342 GGACATAGCATCGGCATTGAGACGAGGGCT
64 GGACAT-GCATCGGCATTGAGACGAGGGCT
*
117647372 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCTAATGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAATGTAAGACATGTCTGGG
117647437 ACATGCATCGGC
66 ACATGCATCGGC
117647449 CTCGAGATGT
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
92 8 0.11
93 14 0.19
94 49 0.68
95 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAATGTAAGACATGTCTGGG
ACATGCATCGGCATTGAGACGAGGGCT
Found at i:117649058 original size:30 final size:30
Alignment explanation
Indices: 117649022--117649181 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
117649012 GACAAGATTG
* * * * *
117649022 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
117649052 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
117649080 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
117649109 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
117649139 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
117649168 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
117649182 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:117649149 original size:59 final size:57
Alignment explanation
Indices: 117649022--117649181 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
117649012 GACAAGATTG
* * * * * *
117649022 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
117649080 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
117649139 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
117649182 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:117656892 original size:28 final size:28
Alignment explanation
Indices: 117656823--117656925 Score: 100
Period size: 28 Copynumber: 3.6 Consensus size: 28
117656813 GACAAGATTG
* * * *
117656823 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
117656853 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* * *
117656881 GCACTAAGTGTGCGAG-CTGAAAATCTATA
1 GCACTAAGTGTGCGAGTTTG--ATTATATA
117656910 GCACTAAGTGTGCGAG
1 GCACTAAGTGTGCGAG
117656926 CTGAAAATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.03
28 22 0.34
29 22 0.34
30 18 0.28
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:117656919 original size:29 final size:29
Alignment explanation
Indices: 117656823--117656987 Score: 172
Period size: 29 Copynumber: 5.5 Consensus size: 29
117656813 GACAAGATTG
* * * * *
117656823 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
* *
117656853 GCACTAAGTGTGCGAGTTTG--ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATATATA
*
117656881 GCACTAAGTGTGCGAGCTGAAAATCTATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
117656910 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTA
1 GCACTAAGTGTGCGAGCTG-AAA-ATAT---A-TA
117656945 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
117656974 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
117656988 GATTCACTAT
Statistics
Matches: 117, Mismatches: 9, Indels: 19
0.81 0.06 0.13
Matches are distributed among these distances:
27 2 0.02
28 20 0.17
29 42 0.36
30 19 0.16
31 5 0.04
33 4 0.03
34 4 0.03
35 21 0.18
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:117656954 original size:35 final size:35
Alignment explanation
Indices: 117656879--117656979 Score: 151
Period size: 35 Copynumber: 3.1 Consensus size: 35
117656869 TTTGATTATA
*
117656879 TAGCACTAAGTGTGCGAGCTG-AAA-ATCT---A-
1 TAGCACTAAGTGTGCGAGCTGAAAATATATAGCAC
117656908 TAGCACTAAGTGTGCGAGCTGAAAATATATAGCAC
1 TAGCACTAAGTGTGCGAGCTGAAAATATATAGCAC
117656943 TAGCACTAAGTGTGCGAGCTGAAAATATATAGCAC
1 TAGCACTAAGTGTGCGAGCTGAAAATATATAGCAC
117656978 TA
1 TA
117656980 AGTGTGCGGA
Statistics
Matches: 65, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
29 21 0.32
30 3 0.05
31 3 0.05
34 1 0.02
35 37 0.57
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.24
Consensus pattern (35 bp):
TAGCACTAAGTGTGCGAGCTGAAAATATATAGCAC
Found at i:117660060 original size:20 final size:20
Alignment explanation
Indices: 117660035--117660074 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
117660025 TATTTCAGAG
117660035 TAAGATTTGAGTACTGAGGA
1 TAAGATTTGAGTACTGAGGA
117660055 TAAGATTTGAGTACTGAGGA
1 TAAGATTTGAGTACTGAGGA
117660075 ACTCTAGGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.30, T:0.30
Consensus pattern (20 bp):
TAAGATTTGAGTACTGAGGA
Found at i:117670374 original size:39 final size:39
Alignment explanation
Indices: 117670331--117670427 Score: 149
Period size: 39 Copynumber: 2.5 Consensus size: 39
117670321 GCTCTGATGA
117670331 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
117670370 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGTACTTATTT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* * *
117670409 CCTTCAGCTAGACTTCGGG
1 GCTTCAGTTAGCCTTCGGG
117670428 TTTTAGATCA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.13, C:0.26, G:0.23, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:117674937 original size:27 final size:26
Alignment explanation
Indices: 117674900--117675014 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
117674890 AGCATGGCTG
* *
117674900 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
117674926 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
117674954 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
117674981 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
117675008 CTAGAAC
1 CCAGAAC
117675015 GCTTCCTCCA
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 5 0.06
27 57 0.72
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:117674963 original size:54 final size:54
Alignment explanation
Indices: 117674900--117675014 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
117674890 AGCATGGCTG
*
117674900 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
117674954 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
*
117675008 CTAGAAC
1 CCAGAAC
117675015 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:117676667 original size:26 final size:26
Alignment explanation
Indices: 117676631--117676740 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
117676621 CATGAAATTC
117676631 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
117676657 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
117676683 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
117676709 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
117676735 TTATCA
1 TTATCA
117676741 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Done.