Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 289 of 311
Found at i:94066818 original size:23 final size:24
Alignment explanation
Indices: 94066785--94066835 Score: 95
Period size: 23 Copynumber: 2.2 Consensus size: 24
94066775 TCAAATAACA
94066785 AAAAAATATATATTATATAATATT
1 AAAAAATATATATTATATAATATT
94066809 AAAAAA-ATATATTATATAATATT
1 AAAAAATATATATTATATAATATT
94066832 AAAA
1 AAAA
94066836 TTTTAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
AAAAAATATATATTATATAATATT
Found at i:94083818 original size:35 final size:35
Alignment explanation
Indices: 94083772--94083842 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
94083762 CACCCGAGAG
94083772 CCTAATAAACTTCACCAGCAATTATTTGATTAACC
1 CCTAATAAACTTCACCAGCAATTATTTGATTAACC
94083807 CCTAATAAACTTCACCAGCAATTATTTGATTAACC
1 CCTAATAAACTTCACCAGCAATTATTTGATTAACC
94083842 C
1 C
94083843 TGCATATTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.31
Consensus pattern (35 bp):
CCTAATAAACTTCACCAGCAATTATTTGATTAACC
Found at i:94084973 original size:19 final size:18
Alignment explanation
Indices: 94084942--94085045 Score: 93
Period size: 18 Copynumber: 5.5 Consensus size: 18
94084932 TTTAAGTTTT
*
94084942 TTTTTATGATTTTTATAG
1 TTTTTATAATTTTTATAG
*
94084960 TTTTTATAATTTTTTATAA
1 TTTTTATAA-TTTTTATAG
* * * *
94084979 TTTTGATACTTGTAATAG
1 TTTTTATAATTTTTATAG
94084997 TTTTTATAATTTTTATGAG
1 TTTTTATAATTTTTAT-AG
94085016 TTTTTATAGAATTTTGT-TATG
1 TTTTTAT--AATTTT-TATA-G
94085037 TTTTTATAA
1 TTTTTATAA
94085046 AAAAATTAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
18 26 0.38
19 26 0.38
20 1 0.01
21 15 0.22
22 1 0.01
ACGTcount: A:0.27, C:0.01, G:0.10, T:0.62
Consensus pattern (18 bp):
TTTTTATAATTTTTATAG
Found at i:94084982 original size:9 final size:9
Alignment explanation
Indices: 94084942--94085023 Score: 74
Period size: 9 Copynumber: 8.9 Consensus size: 9
94084932 TTTAAGTTTT
*
94084942 TTTTTATGA
1 TTTTTATAA
*
94084951 TTTTTATAG
1 TTTTTATAA
94084960 TTTTTATAA
1 TTTTTATAA
94084969 TTTTTTATAA
1 -TTTTTATAA
* *
94084979 TTTTGATAC
1 TTTTTATAA
* * *
94084988 TTGTAATAG
1 TTTTTATAA
94084997 TTTTTATAA
1 TTTTTATAA
*
94085006 TTTTTATGAG
1 TTTTTAT-AA
94085016 TTTTTATA
1 TTTTTATA
94085024 GAATTTTGTT
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
9 42 0.71
10 17 0.29
ACGTcount: A:0.27, C:0.01, G:0.09, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:94085177 original size:18 final size:18
Alignment explanation
Indices: 94085134--94085177 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
94085124 ATTTTCATAT
*
94085134 TTTTTAAATATTTAATAA
1 TTTTTATATATTTAATAA
* *
94085152 GTTATATATATTTAATAA
1 TTTTTATATATTTAATAA
94085170 TTTTTATA
1 TTTTTATA
94085178 AAAAAATAGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTTTATATATTTAATAA
Found at i:94085358 original size:14 final size:14
Alignment explanation
Indices: 94085339--94085365 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
94085329 ATTAATACAA
94085339 GAACTTAATTAAAT
1 GAACTTAATTAAAT
94085353 GAACTTAATTAAA
1 GAACTTAATTAAA
94085366 ATTTTAAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (14 bp):
GAACTTAATTAAAT
Found at i:94086444 original size:15 final size:17
Alignment explanation
Indices: 94086426--94086458 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
94086416 AAATTAAATA
94086426 TAAATTTA-A-AATACT
1 TAAATTTATATAATACT
94086441 TAAATTTATATAATACT
1 TAAATTTATATAATACT
94086458 T
1 T
94086459 TTATAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATTTATATAATACT
Found at i:94093902 original size:59 final size:58
Alignment explanation
Indices: 94093814--94093926 Score: 199
Period size: 59 Copynumber: 1.9 Consensus size: 58
94093804 AACAAATCTA
* *
94093814 AAATAAATAATAAAATTTGAATTTGAATTTAAAATATATTTTAAAATAATTGATGAAT
1 AAATAAATAATAAAATTTCAATTTCAATTTAAAATATATTTTAAAATAATTGATGAAT
94093872 AAATAAATAATAAAAATTTCAATTTCAATTTAAAATATATTTTAAAATAATTGAT
1 AAATAAATAAT-AAAATTTCAATTTCAATTTAAAATATATTTTAAAATAATTGAT
94093927 ATTAGCTATA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
58 11 0.21
59 41 0.79
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (58 bp):
AAATAAATAATAAAATTTCAATTTCAATTTAAAATATATTTTAAAATAATTGATGAAT
Found at i:94098570 original size:28 final size:28
Alignment explanation
Indices: 94098538--94098639 Score: 159
Period size: 28 Copynumber: 3.6 Consensus size: 28
94098528 CAAATATGGT
*
94098538 ACTTAGTGTACGAAATATTGAGAATGGC
1 ACTTAGTGTACGAAATATTGAGAATGAC
94098566 ACTTAGTGTACGAAATATTGAGAATGAC
1 ACTTAGTGTACGAAATATTGAGAATGAC
* *
94098594 ACTTAGTGTGCGAGATATTGAGAATGAC
1 ACTTAGTGTACGAAATATTGAGAATGAC
* *
94098622 ACTTAGTGTGCAAAATAT
1 ACTTAGTGTACGAAATAT
94098640 CGAATGATTC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 69 1.00
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (28 bp):
ACTTAGTGTACGAAATATTGAGAATGAC
Found at i:94099240 original size:11 final size:11
Alignment explanation
Indices: 94099224--94099249 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
94099214 TGTGAAAGAG
94099224 TAAATTTGTAA
1 TAAATTTGTAA
94099235 TAAATTTGTAA
1 TAAATTTGTAA
94099246 TAAA
1 TAAA
94099250 GAATGTGCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (11 bp):
TAAATTTGTAA
Found at i:94099807 original size:23 final size:23
Alignment explanation
Indices: 94099784--94099828 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
94099774 AATTTAAAAT
94099784 TTTAAAAT-TTTT-AAAATATTAA
1 TTTAAAATATTTTCAAAA-ATTAA
94099806 TTTAAAATATTTTCAAAAATTAA
1 TTTAAAATATTTTCAAAAATTAA
94099829 AAATGTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.38
23 9 0.43
24 4 0.19
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TTTAAAATATTTTCAAAAATTAA
Found at i:94101568 original size:24 final size:26
Alignment explanation
Indices: 94101522--94101571 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
94101512 GTAAGACAAT
94101522 TTAAAATAGAGGACATATATATAATA
1 TTAAAATAGAGGACATATATATAATA
*
94101548 TTAAAATAG-GTA-ATATATATAATA
1 TTAAAATAGAGGACATATATATAATA
94101572 AATACTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.52
25 2 0.09
26 9 0.39
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.34
Consensus pattern (26 bp):
TTAAAATAGAGGACATATATATAATA
Found at i:94101696 original size:25 final size:23
Alignment explanation
Indices: 94101678--94101776 Score: 67
Period size: 25 Copynumber: 4.1 Consensus size: 23
94101668 ATAAGACAAT
94101678 TTTAAAATAATATATATAAAGAAA
1 TTTAAAATAA-ATATATAAAGAAA
* **
94101702 TTTAAAATAAATAT-T-AGGAGG
1 TTTAAAATAAATATATAAAGAAA
* * *
94101723 CTCAAAATAATATGATGTAAAAGAAA
1 TTTAAAATAA-AT-ATAT-AAAGAAA
*
94101749 TTTAAAATAAATAATGTAAAAGAAA
1 TTTAAAATAAAT-ATAT-AAAGAAA
94101774 TTT
1 TTT
94101777 TAAAGTGAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
21 11 0.19
22 3 0.05
23 6 0.10
24 11 0.19
25 17 0.29
26 11 0.19
ACGTcount: A:0.57, C:0.02, G:0.10, T:0.31
Consensus pattern (23 bp):
TTTAAAATAAATATATAAAGAAA
Found at i:94101755 original size:26 final size:25
Alignment explanation
Indices: 94101726--94101776 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
94101716 TAGGAGGCTC
*
94101726 AAAATAATATGATGTAAAAGAAATTT
1 AAAATAA-ATAATGTAAAAGAAATTT
94101752 AAAATAAATAATGTAAAAGAAATTT
1 AAAATAAATAATGTAAAAGAAATTT
94101777 TAAAGTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (25 bp):
AAAATAAATAATGTAAAAGAAATTT
Found at i:94101778 original size:26 final size:26
Alignment explanation
Indices: 94101726--94101806 Score: 87
Period size: 26 Copynumber: 3.1 Consensus size: 26
94101716 TAGGAGGCTC
*
94101726 AAAATAATATGATGTAAAAGAAATTT
1 AAAATAATATAATGTAAAAGAAATTT
94101752 AAAATAA-ATAATGTAAAAGAAATTTT
1 AAAATAATATAATGTAAAAGAAA-TTT
* *
94101778 AAAGTGAATA-ACATGTAAAA-CAATTT
1 AAAAT-AATATA-ATGTAAAAGAAATTT
94101804 AAA
1 AAA
94101807 CCAAGTAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
25 14 0.29
26 20 0.42
27 5 0.10
28 9 0.19
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.28
Consensus pattern (26 bp):
AAAATAATATAATGTAAAAGAAATTT
Found at i:94104207 original size:40 final size:40
Alignment explanation
Indices: 94103995--94104200 Score: 324
Period size: 40 Copynumber: 5.2 Consensus size: 40
94103985 AACCCAAGTA
* * *
94103995 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* * *
94104034 CCTTCGGGACTTAGCCCGGATATAATTACTAGAACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
94104074 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
94104114 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
94104154 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
94104194 CCTTCGG
1 CCTTCGG
94104201 ATCTTAGTCC
Statistics
Matches: 151, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 13 0.09
40 138 0.91
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:94104207 original size:80 final size:80
Alignment explanation
Indices: 94103995--94104200 Score: 360
Period size: 80 Copynumber: 2.6 Consensus size: 80
94103985 AACCCAAGTA
* *
94103995 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
*
94104059 TTACTAGAACAAATG
66 TCACTAGAACAAATG
94104074 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
*
94104139 TCACTAGCACAAATG
66 TCACTAGAACAAATG
*
94104154 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGG
94104201 ATCTTAGTCC
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
79 13 0.11
80 108 0.89
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
TCACTAGAACAAATG
Found at i:94105631 original size:13 final size:13
Alignment explanation
Indices: 94105615--94105642 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
94105605 TTTATTATTT
94105615 TTAACACAAAATA
1 TTAACACAAAATA
94105628 TTAACACAAAATA
1 TTAACACAAAATA
94105641 TT
1 TT
94105643 TATAATATGT
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:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:94108825 original size:24 final size:26
Alignment explanation
Indices: 94108779--94108828 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
94108769 GTAAGACAAT
94108779 TTAAAATAGAGGACATATATATAATA
1 TTAAAATAGAGGACATATATATAATA
*
94108805 TTAAAATAG-GTA-ATATATATAATA
1 TTAAAATAGAGGACATATATATAATA
94108829 AATACTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.52
25 2 0.09
26 9 0.39
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.34
Consensus pattern (26 bp):
TTAAAATAGAGGACATATATATAATA
Found at i:94108967 original size:24 final size:24
Alignment explanation
Indices: 94108935--94109033 Score: 80
Period size: 25 Copynumber: 4.1 Consensus size: 24
94108925 ATAAGACAAT
*
94108935 TTTAAAAT-AATATATATAAAGAAA
1 TTTAAAATAAATATGTA-AAAGAAA
* **
94108959 TTTAAAATAAATAT-T--AGGAGG
1 TTTAAAATAAATATGTAAAAGAAA
* *
94108980 CTCAAAATAATAATATGTAAAAGAAA
1 TTTAAAAT-A-AATATGTAAAAGAAA
94109006 TTTAAAATAAATAATGTAAAAGAAA
1 TTTAAAATAAAT-ATGTAAAAGAAA
94109031 TTT
1 TTT
94109034 TAAAGTGAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
21 9 0.16
22 1 0.02
23 5 0.09
24 13 0.22
25 21 0.36
26 9 0.16
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (24 bp):
TTTAAAATAAATATGTAAAAGAAA
Found at i:94109013 original size:26 final size:26
Alignment explanation
Indices: 94108983--94109063 Score: 87
Period size: 26 Copynumber: 3.1 Consensus size: 26
94108973 TAGGAGGCTC
94108983 AAAATAATAATATGTAAAAGAAATTT
1 AAAATAATAATATGTAAAAGAAATTT
94109009 AAAAT-A-AATAATGTAAAAGAAATTTT
1 AAAATAATAAT-ATGTAAAAGAAA-TTT
* * *
94109035 AAAGTGAATAACATGTAAAA-CAATTT
1 AAAAT-AATAATATGTAAAAGAAATTT
94109061 AAA
1 AAA
94109064 CCAAGTAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
24 3 0.06
25 13 0.28
26 18 0.38
27 2 0.04
28 9 0.19
29 2 0.04
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.28
Consensus pattern (26 bp):
AAAATAATAATATGTAAAAGAAATTT
Found at i:94109031 original size:14 final size:13
Alignment explanation
Indices: 94108991--94109031 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 13
94108981 TCAAAATAAT
94108991 AATATGTAAAAGA
1 AATATGTAAAAGA
*
94109004 AAT-T-TAAAATA
1 AATATGTAAAAGA
94109015 AATAATGTAAAAGA
1 AAT-ATGTAAAAGA
94109029 AAT
1 AAT
94109032 TTTAAAGTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
11 9 0.39
12 1 0.04
13 4 0.17
14 9 0.39
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (13 bp):
AATATGTAAAAGA
Found at i:94109653 original size:26 final size:25
Alignment explanation
Indices: 94109617--94109668 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
94109607 TAGATGGTAT
**
94109617 ATATACATAAAAGTGTAAAATAAATA
1 ATATACATAAAA-CCTAAAATAAATA
*
94109643 ATATATATAAAACCTAAAATAAATA
1 ATATACATAAAACCTAAAATAAATA
94109668 A
1 A
94109669 CAATAAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (25 bp):
ATATACATAAAACCTAAAATAAATA
Found at i:94115389 original size:23 final size:23
Alignment explanation
Indices: 94115362--94115406 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
94115352 TCCCTTGGAT
94115362 GTATCATAATTTAGTGTGTATAA
1 GTATCATAATTTAGTGTGTATAA
94115385 GTATCATAATTTAGTGTGTATA
1 GTATCATAATTTAGTGTGTATA
94115407 TATATACACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.44
Consensus pattern (23 bp):
GTATCATAATTTAGTGTGTATAA
Found at i:94117240 original size:23 final size:21
Alignment explanation
Indices: 94117201--94117244 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
94117191 TTCATAAAAT
94117201 TTTAAAATAAAGATATAATTTA
1 TTTAAAATAAAGATAT-ATTTA
**
94117223 TTTAAAATCAAATTTATATTTA
1 TTTAAAAT-AAAGATATATTTA
94117245 ACATATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
TTTAAAATAAAGATATATTTA
Found at i:94119757 original size:6 final size:6
Alignment explanation
Indices: 94119746--94119812 Score: 134
Period size: 6 Copynumber: 11.2 Consensus size: 6
94119736 TTTATACCAT
94119746 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA
94119794 TATGTA TATGTA TATGTA T
1 TATGTA TATGTA TATGTA T
94119813 GTAACGTCCC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 61 1.00
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (6 bp):
TATGTA
Found at i:94120581 original size:13 final size:14
Alignment explanation
Indices: 94120565--94120600 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
94120555 CAATCTCATA
94120565 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
94120578 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
94120591 TCTC-ATTTCA
1 TCTCAATTTCA
94120601 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:94120590 original size:18 final size:19
Alignment explanation
Indices: 94120552--94120592 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
94120542 TGGTTCATGT
94120552 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
94120571 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
94120589 TTTC
1 TTTC
94120593 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:94122481 original size:4 final size:4
Alignment explanation
Indices: 94122472--94122502 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
94122462 CCTTTTCTCC
94122472 CTTT CTTT CTTT CTTT CTTT CCTTT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CT
94122503 CCCCTGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
CTTT
Found at i:94123087 original size:6 final size:6
Alignment explanation
Indices: 94123076--94123150 Score: 150
Period size: 6 Copynumber: 12.5 Consensus size: 6
94123066 GGTCATTACA
94123076 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
94123124 ATGTAT ATGTAT ATGTAT ATGTAT ATG
1 ATGTAT ATGTAT ATGTAT ATGTAT ATG
94123151 CGATCTGATG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 69 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.49
Consensus pattern (6 bp):
ATGTAT
Found at i:94129476 original size:18 final size:18
Alignment explanation
Indices: 94129420--94129488 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 18
94129410 ACTCTTTAAT
*
94129420 GTCAGTTATTCAGTAAC-
1 GTCAATTATTCAGTAACA
* * *
94129437 GATAAATTATCCAGTAATA
1 G-TCAATTATTCAGTAACA
*
94129456 GTCAATTATTCAGTAGCA
1 GTCAATTATTCAGTAACA
*
94129474 GTCAGTTATTCAGTA
1 GTCAATTATTCAGTA
94129489 CCTTTATTTA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
17 1 0.02
18 39 0.95
19 1 0.02
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (18 bp):
GTCAATTATTCAGTAACA
Found at i:94130776 original size:17 final size:15
Alignment explanation
Indices: 94130748--94130781 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
94130738 TCCCTATTTC
94130748 TCCCTTTTCTTTCTT
1 TCCCTTTTCTTTCTT
94130763 TCCCTTTTTCCTTTCTT
1 TCCC-TTTT-CTTTCTT
94130780 TC
1 TC
94130782 TTTCTCCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 4 0.24
17 9 0.53
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (15 bp):
TCCCTTTTCTTTCTT
Found at i:94130796 original size:25 final size:25
Alignment explanation
Indices: 94130753--94130801 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
94130743 ATTTCTCCCT
*
94130753 TTTCTTTCTTTCCCTTTTTCCTTTC
1 TTTCTTTCTTCCCCTTTTTCCTTTC
*
94130778 TTTCTTTC-TCCCCTGTTTTTCTTT
1 TTTCTTTCTTCCCCT-TTTTCCTTT
94130802 TCTATTCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.00, C:0.31, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTCTTTCTTCCCCTTTTTCCTTTC
Found at i:94131249 original size:24 final size:24
Alignment explanation
Indices: 94131222--94131278 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
94131212 TATATTTTTG
94131222 TACATTTGTACAATATCAATATCA
1 TACATTTGTACAATATCAATATCA
*
94131246 TACATTTTTACAATATCAATATCA
1 TACATTTGTACAATATCAATATCA
*
94131270 TACAATTGT
1 TACATTTGT
94131279 CATACTTTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (24 bp):
TACATTTGTACAATATCAATATCA
Found at i:94135498 original size:24 final size:23
Alignment explanation
Indices: 94135449--94135502 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
94135439 TACTTTAAGT
* *
94135449 AAATTTTGATAAAACTCAGCTGA
1 AAATTTTGATAAAAATCACCTGA
* *
94135472 AAATTTTGCTAAAAATCCCCTGTA
1 AAATTTTGATAAAAATCACCTG-A
94135496 AAATTTT
1 AAATTTT
94135503 TAACTCTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (23 bp):
AAATTTTGATAAAAATCACCTGA
Found at i:94141276 original size:25 final size:25
Alignment explanation
Indices: 94141246--94141304 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
94141236 GGAAGCTCCG
*
94141246 AAGAGCCATTAACAGGAATCTTACA
1 AAGAGCCATTAACAGGAATCTCACA
94141271 AAGAGCCATTAACAGGAATCTCACA
1 AAGAGCCATTAACAGGAATCTCACA
94141296 AAGAGCCAT
1 AAGAGCCAT
94141305 ATAAAGGGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.17
Consensus pattern (25 bp):
AAGAGCCATTAACAGGAATCTCACA
Found at i:94144286 original size:15 final size:17
Alignment explanation
Indices: 94144266--94144305 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
94144256 AATCCTTTAA
94144266 AAATTATAAAAATA-T-
1 AAATTATAAAAATAGTG
*
94144281 AAATTATTAAAATAGTG
1 AAATTATAAAAATAGTG
94144298 AAATTATA
1 AAATTATA
94144306 TTTTTATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 1 0.05
17 7 0.33
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (17 bp):
AAATTATAAAAATAGTG
Found at i:94144683 original size:8 final size:8
Alignment explanation
Indices: 94144670--94144695 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
94144660 TTGTTACGTA
94144670 CAATTTCC
1 CAATTTCC
94144678 CAATTTCC
1 CAATTTCC
94144686 CAATTTCC
1 CAATTTCC
94144694 CA
1 CA
94144696 TTCCCATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.38, G:0.00, T:0.35
Consensus pattern (8 bp):
CAATTTCC
Found at i:94153515 original size:17 final size:16
Alignment explanation
Indices: 94153489--94153520 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
94153479 GAATACAATG
94153489 ATAATAAGATGATTAA
1 ATAATAAGATGATTAA
94153505 ATAAGTAAGATGATTA
1 ATAA-TAAGATGATTA
94153521 TTTTGAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (16 bp):
ATAATAAGATGATTAA
Found at i:94156233 original size:21 final size:21
Alignment explanation
Indices: 94156169--94156234 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
94156159 TTTTTCTTAG
94156169 ATTATATATTATTATT-AATT-
1 ATTAT-TATTATTATTAAATTA
** *
94156189 ATTATTATGGTT-TTATATTAA
1 ATTATTATTATTATTAAATT-A
94156210 ATTATTATTATTATTAAATTA
1 ATTATTATTATTATTAAATTA
94156231 ATTA
1 ATTA
94156235 AGATAGTAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
18 2 0.06
19 8 0.22
20 5 0.14
21 15 0.42
22 6 0.17
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (21 bp):
ATTATTATTATTATTAAATTA
Found at i:94156492 original size:13 final size:12
Alignment explanation
Indices: 94156464--94156497 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
94156454 AAATAGATAT
94156464 TTATTATAATAA
1 TTATTATAATAA
*
94156476 TTATTATATTAAA
1 TTATTATAAT-AA
94156489 TTATTATAA
1 TTATTATAA
94156498 AACTAACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TTATTATAATAA
Found at i:94156872 original size:7 final size:7
Alignment explanation
Indices: 94156856--94156890 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
94156846 ATTTAATCCG
94156856 AATT-TT
1 AATTATT
94156862 AATTATT
1 AATTATT
94156869 AATTATT
1 AATTATT
94156876 AATTATT
1 AATTATT
94156883 AATTATT
1 AATTATT
94156890 A
1 A
94156891 TATTCTGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.14
7 24 0.86
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AATTATT
Found at i:94157551 original size:20 final size:19
Alignment explanation
Indices: 94157510--94157556 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
94157500 TGTTACTGAA
* *
94157510 TGATATTG-ATAAATTGAT
1 TGATATTGAAAAAATTGAC
94157528 TGATATTGAAAAATATTGAC
1 TGATATTGAAAAA-ATTGAC
94157548 TGATATTGA
1 TGATATTGA
94157557 GCTTGGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.32
19 3 0.12
20 14 0.56
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.40
Consensus pattern (19 bp):
TGATATTGAAAAAATTGAC
Found at i:94158431 original size:38 final size:37
Alignment explanation
Indices: 94158370--94158469 Score: 119
Period size: 39 Copynumber: 2.6 Consensus size: 37
94158360 ATCGTGATCT
* * * * *
94158370 GAAGCCCGAAGTCTAGCTGAAGCACATGTGCTAAGCGG
1 GAAGCCCGAAGGCTAACTGAAGCACAAGTGCTAAAC-A
*
94158408 GAAGCCCGAAGGCTAACTAAAGCACACAAGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAG--CACAAGTGCTAAACA
94158447 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
94158470 TCATCAGAGC
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
37 1 0.02
38 19 0.36
39 21 0.40
40 12 0.23
ACGTcount: A:0.36, C:0.25, G:0.27, T:0.12
Consensus pattern (37 bp):
GAAGCCCGAAGGCTAACTGAAGCACAAGTGCTAAACA
Found at i:94158908 original size:21 final size:22
Alignment explanation
Indices: 94158868--94158908 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
94158858 TTCCAAATAA
* *
94158868 AACATTATATCATTTCTAATTC
1 AACATTATATCAATTATAATTC
94158890 AACATT-TATCAATTATAAT
1 AACATTATATCAATTATAAT
94158909 CGGGCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
AACATTATATCAATTATAATTC
Found at i:94161280 original size:21 final size:21
Alignment explanation
Indices: 94161251--94161295 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
94161241 CGGGCTCTCA
*
94161251 ACATGGCCGTGTGACCTAGCG
1 ACATCGCCGTGTGACCTAGCG
* * *
94161272 ACATCGCCGTTTGATCTAGTG
1 ACATCGCCGTGTGACCTAGCG
94161293 ACA
1 ACA
94161296 CAACCGTGTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (21 bp):
ACATCGCCGTGTGACCTAGCG
Found at i:94163489 original size:86 final size:86
Alignment explanation
Indices: 94163391--94163573 Score: 206
Period size: 86 Copynumber: 2.1 Consensus size: 86
94163381 AAATTTAAAC
* ** * * * *
94163391 TTAAAAATAATTATAT-TGTATATTTATATTAAGCTTTTAATCGAGTTGGTATTACAAGTTAATC
1 TTAAAAA-AATTATATATCTATACATATA-TAAGCTTCTAATCAAGTTGATATTACAAGTTAACC
* **
94163455 GGGCATTAATTTAGTTGAGAAAT
64 GGGAACCAATTTAGTTGAGAAAT
* *
94163478 TTAAAAAAATTATATATCTATACATATATGAGCTTCTAATTAAGTTGATATTACAAGTTAACCGG
1 TTAAAAAAATTATATATCTATACATATATAAGCTTCTAATCAAGTTGATATTACAAGTTAACCGG
*
94163543 GAACCAATTTATTTGAGAAAT
66 GAACCAATTTAGTTGAGAAAT
*
94163564 TACAAAAAAA
1 T-TAAAAAAA
94163574 AATGTCATTT
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
86 57 0.71
87 23 0.29
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.38
Consensus pattern (86 bp):
TTAAAAAAATTATATATCTATACATATATAAGCTTCTAATCAAGTTGATATTACAAGTTAACCGG
GAACCAATTTAGTTGAGAAAT
Found at i:94165745 original size:20 final size:20
Alignment explanation
Indices: 94165668--94165749 Score: 71
Period size: 20 Copynumber: 4.0 Consensus size: 20
94165658 TATTAAGGAT
*
94165668 TTTATTTAGATTTAATCTTATGA
1 TTTATTTATATTT-ATCTT-T-A
*
94165691 TTTATTT-TCATTTATATTTA
1 TTTATTTAT-ATTTATCTTTA
94165711 TTTATCCTTA-A-TTATCTTTA
1 TTTAT--TTATATTTATCTTTA
94165731 TTTATTTATATTTATCTTT
1 TTTATTTATATTTATCTTT
94165750 TAGAATTTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
18 3 0.06
19 1 0.02
20 27 0.54
21 2 0.04
22 6 0.12
23 11 0.22
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTATTTATATTTATCTTTA
Found at i:94182710 original size:18 final size:18
Alignment explanation
Indices: 94182684--94182718 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
94182674 TGTTTTTTAT
* *
94182684 TGTTTATATTATTTGTAA
1 TGTTAATATTAATTGTAA
94182702 TGTTAATATTAATTGTA
1 TGTTAATATTAATTGTA
94182719 TCATTTGTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (18 bp):
TGTTAATATTAATTGTAA
Found at i:94183062 original size:25 final size:23
Alignment explanation
Indices: 94183033--94183097 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
94183023 AATAAAAAAC
*
94183033 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
94183058 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
94183079 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
94183098 AATAATGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:94183096 original size:19 final size:20
Alignment explanation
Indices: 94183059--94183097 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
94183049 TCAAATACAT
94183059 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
94183079 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
94183098 AATAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:94183667 original size:16 final size:17
Alignment explanation
Indices: 94183646--94183678 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
94183636 ATTTAAATAC
94183646 ATTTTTAAACAT-TAAT
1 ATTTTTAAACATATAAT
*
94183662 ATTTTTATACATATAAT
1 ATTTTTAAACATATAAT
94183679 TTCTTTTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTTTAAACATATAAT
Found at i:94184631 original size:132 final size:130
Alignment explanation
Indices: 94184436--94185207 Score: 567
Period size: 132 Copynumber: 5.9 Consensus size: 130
94184426 TAGCTTTATA
* * * * * *
94184436 ATCATTCATTCAAAAATTCTTCAAAACGAAGATGAGATTCGATGTTTGGCAATTCGCGGAATCGT
1 ATCATTCTTTTAAAAATTCTTTAAAACGAAGACGAAATTCGATATTTGGCAATTCGCGGAATCGT
* *
94184501 GCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAACCGAATATCACTTTAAAATTTC
66 GCCCTAACGTGCTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTTAAAATTTC
* * * *
94184566 ATTAATGTCTTTTAAAAATTCTTTAAAATGAAGACGAAATTTGGTATTTGGCAATTCGCGGAATC
1 A-TCAT-TCTTTTAAAAATTCTTTAAAACGAAGACGAAATTCGATATTTGGCAATTCGCGGAATC
* * * * * * *
94184631 GTACCCTAACGTGCTGGGTTGCAATTCCGAGTTTGCTGAAAATAATCAAATATCACTTCAAGATT
64 GTGCCCTAACGTGCTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTTAAAATT
94184696 TC
129 TC
* * *
94184698 ATCATTCATTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGT
1 ATCATTCTTTTAAAAATTCTTTAAAACGAAGACGAAATTCGATATTTGGCAATTCGCGGAATCGT
* * * *
94184763 GCTCTAACGTGCTGGGTTACAATTTCGCGTTCGCTCAAAATAATCGAATATCAC-TTCAAATTTC
66 GCCCTAACGTGCTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTTAAAATTTC
* * * * * * * * * *
94184827 ACTCGTATCTTCTAAAAATCCCTTAAAACGAAGGC-AATACTCGGTGTTTGACGATTCG-GGAAT
1 A-TCAT-TCTTTTAAAAATTCTTTAAAACGAAGACGAA-ATTCGATATTTGGCAATTCGCGGAAT
* * * * ** * * * ***
94184890 CATGCCCTATCGCGTTGGGTTGTGATTTCTCGTTTGGTCAAAACAATCGAATATTC-CTTTAGGT
63 CGTGCCCTAACGTGCTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATA-TCACTTTAAAA
94184954 TTTC
127 TTTC
* * ** ** * * * * * *
94184958 ACTCATTTTTTTAAGAAA-ACATTTTAAAACGAAGGTGATGTCCAATGTTTGGCGATTTG-AGAA
1 A-TCATTCTTTTAA-AAATTC--TTTAAAACGAAGACGAAATTCGATATTTGGCAATTCGCGGAA
* * * * * * * * * * *
94185021 TCGTGACCTATCGTGCTGGGTTGCGCATTT-TC-TTTGGTTCAAAACAATTGAAGATCCCTTCAG
62 TCGTGCCCTAACGTGCTGGGTTGC-AATTTCGCGTTT-GCTCAAAATAATCGAATATCACTTTAA
*
94185084 AGTTTC
125 AATTTC
* ** * * *
94185090 ACTCACATT-TTTTAAAAACTCTAAAAAATGAA-A-GAAACGTTCGATGTTTGGCAATTCGGGGA
1 A-T--CATTCTTTTAAAAATTCTTTAAAACGAAGACGAAA--TTCGATATTTGGCAATTCGCGGA
* * * * *
94185152 ATAGTGCCCTATCGTGCTGGGTTGCAATCTCCCGTTTGTTCAAAATAATCGAATAT
61 ATCGTGCCCTAACGTGCTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATAT
94185208 TTCTTCGAAA
Statistics
Matches: 509, Mismatches: 111, Indels: 42
0.77 0.17 0.06
Matches are distributed among these distances:
129 10 0.02
130 162 0.32
131 89 0.17
132 229 0.45
133 15 0.03
134 4 0.01
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (130 bp):
ATCATTCTTTTAAAAATTCTTTAAAACGAAGACGAAATTCGATATTTGGCAATTCGCGGAATCGT
GCCCTAACGTGCTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTTAAAATTTC
Found at i:94191843 original size:11 final size:11
Alignment explanation
Indices: 94191829--94191859 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
94191819 AGGAGCTCGA
94191829 AAAGAAGAAAG
1 AAAGAAGAAAG
94191840 AAAGAAGAAAG
1 AAAGAAGAAAG
94191851 AAAGAAGAA
1 AAAGAAGAA
94191860 GAGCACGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (11 bp):
AAAGAAGAAAG
Found at i:94194429 original size:18 final size:18
Alignment explanation
Indices: 94194403--94194437 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
94194393 GTTTTTTTAT
* *
94194403 TGTTTATATTATTTGTAA
1 TGTTAATATTAATTGTAA
94194421 TGTTAATATTAATTGTA
1 TGTTAATATTAATTGTA
94194438 TCATTTGTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (18 bp):
TGTTAATATTAATTGTAA
Found at i:94194733 original size:16 final size:17
Alignment explanation
Indices: 94194712--94194744 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
94194702 ATTTAAATAC
94194712 ATTTTTAAACAT-TAAT
1 ATTTTTAAACATATAAT
*
94194728 ATTTTTATACATATAAT
1 ATTTTTAAACATATAAT
94194745 TTCTTTTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTTTAAACATATAAT
Found at i:94195706 original size:132 final size:130
Alignment explanation
Indices: 94195504--94195895 Score: 547
Period size: 132 Copynumber: 3.0 Consensus size: 130
94195494 TAGCTTTATA
* * * * * *
94195504 ATCATTCATTCAAAAATTCTTCAAAACGAAGACGAGATTCGATATTTGGCAATTCACGAAATCAT
1 ATCATTCATTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGT
* *
94195569 GCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAACCGAATATCACTTCAAAATTTC
66 GCCCTAACGTGCTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTC
* * *
94195634 ATTCATGT-ATTTTAAAAATTCTTTAAAATGATGACGAAATTTGATATTTGGCAATTCGCGGAAT
1 A-TCAT-TCA-TTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAAT
* * * * * *
94195698 CGTACCCTAACGTGCTGGGTTGCAATTCCGAGTTTGCTGAAAATAATCAAATATC-CTTTCAAGA
63 CGTGCCCTAACGTGCTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCAC-TTCAAAA
94195762 TTTC
127 TTTC
94195766 ATCATTCATTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGT
1 ATCATTCATTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGT
* * *
94195831 GCTCTAACGTGCTGGGTTACAATTTCGCGTTCGCTCAAAATAATCGAATATCACTTC-AAATTTC
66 GCCCTAACGTGCTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTC
94195895 A
1 A
94195896 CTTGTATCTT
Statistics
Matches: 227, Mismatches: 29, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
129 7 0.03
130 103 0.45
131 12 0.05
132 105 0.46
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (130 bp):
ATCATTCATTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGT
GCCCTAACGTGCTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTC
Found at i:94195838 original size:130 final size:129
Alignment explanation
Indices: 94195504--94195895 Score: 545
Period size: 130 Copynumber: 3.0 Consensus size: 129
94195494 TAGCTTTATA
* * * * * *
94195504 ATCATTCATTCAAAAATTCTTCAAAACGAAGACGAGATTCGATATTTGGCAATTCACGAAATCAT
1 ATCATTCATTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGT
* *
94195569 GCCCTAACGTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAACCGAATATCACTTCAAAATTTC
66 GCCCTAACGTGCTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTC-AAATTTC
* * *
94195634 ATTCATGT-ATTTTAAAAATTCTTTAAAATGATGACGAAATTTGATATTTGGCAATTCGCGGAAT
1 A-TCAT-TCA-TTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAAT
* * * * *
94195698 CGTACCCTAACGTGCTGGGTTGCAATTCCGAGTTTGCTGAAAATAATCAAATATC-CTTTCAAGA
63 CGTGCCCTAACGTGCTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCAC-TTCAA-A
94195762 TTTC
126 TTTC
94195766 ATCATTCATTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGT
1 ATCATTCATTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGT
* * *
94195831 GCTCTAACGTGCTGGGTTACAATTTCGCGTTCGCTCAAAATAATCGAATATCACTTCAAATTTC
66 GCCCTAACGTGCTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAATTTC
94195895 A
1 A
94195896 CTTGTATCTT
Statistics
Matches: 228, Mismatches: 27, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
129 6 0.03
130 105 0.46
131 14 0.06
132 103 0.45
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (129 bp):
ATCATTCATTCAAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGT
GCCCTAACGTGCTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAATTTC
Found at i:94195957 original size:130 final size:131
Alignment explanation
Indices: 94195515--94196011 Score: 524
Period size: 130 Copynumber: 3.8 Consensus size: 131
94195505 TCATTCATTC
* * * * *
94195515 AAAAATTCTTCAAAACGAAGACGAGATTCGATATTTGGCAATTCACGAAATCATGCCCTAACGTG
1 AAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCATGCCCTAACGTG
* * *
94195580 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAACCGAATATCACTTCAAAATTTCATTCATGTAT-
66 CTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTC-AAATTTCA--CTTGTATC
94195644 TT-T
128 TTCT
* * * *
94195647 AAAAATTCTTTAAAATGATGACGAAATTTGATATTTGGCAATTCGCGGAATCGTACCCTAACGTG
1 AAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCATGCCCTAACGTG
* * * * **
94195712 CTGGGTTGCAATTCCGAGTTTGCTGAAAATAATCAAATATC-CTTTCAAGATTTCA-TCAT-TCA
66 CTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCAC-TTCAA-ATTTCACTTGTATC-
94195774 TTC-
128 TTCT
* *
94195777 AAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCGTGCTCTAACGTG
1 AAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCATGCCCTAACGTG
* *
94195842 CTGGGTTACAATTTCGCGTTCGCTCAAAATAATCGAATATCACTTCAAATTTCACTTGTATCTTC
66 CTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAATTTCACTTGTATCTTC
94195907 T
131 T
* * * * * * * * * * *
94195908 AAAAATCCCTTAAAACGAAGGC-AATACTCGATGTTTGACGATTCG-GGAATCATGTCCTATCGC
1 AAAAATTCTTTAAAACGAAGACGAA-ATTTGATATTTGGCAATTCGCGGAATCATGCCCTAACGT
*** * * *
94195971 GCTGGGTTTTGATTTCTCGTTTGGTCAAAACAATCGAATAT
65 GCTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATAT
94196012 TCCTTTAGGT
Statistics
Matches: 305, Mismatches: 50, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
128 1 0.00
129 7 0.02
130 157 0.51
131 40 0.13
132 100 0.33
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (131 bp):
AAAAATTCTTTAAAACGAAGACGAAATTTGATATTTGGCAATTCGCGGAATCATGCCCTAACGTG
CTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAATTTCACTTGTATCTTC
T
Found at i:94196090 original size:132 final size:132
Alignment explanation
Indices: 94195938--94196176 Score: 288
Period size: 132 Copynumber: 1.8 Consensus size: 132
94195928 GCAATACTCG
* * * **
94195938 ATGTTTGACGATTCGGGAATCATGTCCTATCGCGCTGGGTTTTG-ATTTCTCGTTTGG-TCAAAA
1 ATGTTTGACGATTCGAGAATCATGCCCTATCGCGCTGAGTTGCGCATTT-TC-TTTGGTTCAAAA
* * *
94196001 CAATCGAATATTCCTTTAGG-TTTTCACTCAT-TTTTTTAAGAAAACATTTTAAAACGAAGGTGA
64 CAATCGAAGA-TCCCTTAGGAGTTTCACTCATATTTTTTAA-AAAACATTTTAAAACGAAGGTGA
94196064 TGTCCA
127 TGTCCA
* * * *
94196070 ATGTTTGGCGATTTGAGAATCGTGCCCTATCGTGCTGAGTTGCGCATTTTCTTTGGTTCAAAACA
1 ATGTTTGACGATTCGAGAATCATGCCCTATCGCGCTGAGTTGCGCATTTTCTTTGGTTCAAAACA
* *
94196135 ATTGAAGATCCCTTCGGAGTTTCACTCATATTTTTTAAAAAA
66 ATCGAAGATCCCTTAGGAGTTTCACTCATATTTTTTAAAAAA
94196177 TCTAAAAAAT
Statistics
Matches: 89, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
131 12 0.13
132 65 0.73
133 12 0.13
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (132 bp):
ATGTTTGACGATTCGAGAATCATGCCCTATCGCGCTGAGTTGCGCATTTTCTTTGGTTCAAAACA
ATCGAAGATCCCTTAGGAGTTTCACTCATATTTTTTAAAAAACATTTTAAAACGAAGGTGATGTC
CA
Found at i:94198250 original size:22 final size:22
Alignment explanation
Indices: 94198206--94198250 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
94198196 TTAATCATTA
**
94198206 TTATTCAGTATCAGTCATTTAT
1 TTATTCAGTATCAGTCAAATAT
94198228 TTATTCAGTAAT-AGTCAAATAT
1 TTATTCAGT-ATCAGTCAAATAT
94198250 T
1 T
94198251 CGGTAGCAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (22 bp):
TTATTCAGTATCAGTCAAATAT
Found at i:94198397 original size:6 final size:6
Alignment explanation
Indices: 94198388--94198419 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
94198378 CACCGTAATG
*
94198388 GTAACA GTAACA GTAGCA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GT
94198420 CAGGTACAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:94199766 original size:138 final size:135
Alignment explanation
Indices: 94199522--94199771 Score: 308
Period size: 137 Copynumber: 1.8 Consensus size: 135
94199512 CTTTTATGTT
* * *
94199522 TTAATTATATTATAATATAATATTATTCTTAAATAATAAGTAAGTATACATGTATATTACAAATG
1 TTAATTATATTATAAAATAATAATATTCTTAAATAATAAGTAAATATACATG-ATATTACAAATG
* *
94199587 TATATATATCATTGGTACACATATAAATTATTATTACCACACACTTGTCTTTATTTAATTATTTA
65 TATATAAATCATTAGTACACATATAAATTATTATTACCACACACTTGTCTTTATTTAATTATTTA
94199652 CTTGAA
130 CTTGAA
94199658 TTAATTA-ATTATAAAATAATAATATTTACTTAAATAATAAGTAAATACATACATG-TATTACAA
1 TTAATTATATTATAAAATAATAATA-TT-CTTAAATAATAAGTAAAT--ATACATGATATTACAA
* * * ** * *
94199721 ATGTATGTACAAT-ATTTATTACACATGTATTTTATTTTTATCACACACTTG
62 ATGTATATA-AATCA-TTAGTACACATATAAATTATTATTACCACACACTTG
94199772 GCATTCACTT
Statistics
Matches: 96, Mismatches: 12, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
135 15 0.16
136 9 0.09
137 34 0.35
138 31 0.32
139 7 0.07
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.43
Consensus pattern (135 bp):
TTAATTATATTATAAAATAATAATATTCTTAAATAATAAGTAAATATACATGATATTACAAATGT
ATATAAATCATTAGTACACATATAAATTATTATTACCACACACTTGTCTTTATTTAATTATTTAC
TTGAA
Found at i:94202692 original size:21 final size:21
Alignment explanation
Indices: 94202666--94202722 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
94202656 TGATCAGAAT
94202666 ACGACACATAAAGTGCATAAA
1 ACGACACATAAAGTGCATAAA
* * *
94202687 ACGACACA-CAAGATGCCTAAT
1 ACGACACATAAAG-TGCATAAA
94202708 ACGACACATAAAGTG
1 ACGACACATAAAGTG
94202723 TCTGATCGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 3 0.10
21 24 0.80
22 3 0.10
ACGTcount: A:0.47, C:0.23, G:0.16, T:0.14
Consensus pattern (21 bp):
ACGACACATAAAGTGCATAAA
Found at i:94209367 original size:30 final size:30
Alignment explanation
Indices: 94209307--94209367 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
94209297 TAGTTATGTT
* * *
94209307 TGTGAAAAGTTAATTGCTTAATAGATTAGC
1 TGTGAAAAGTTAATTACTTAACAGACTAGC
*
94209337 TGTGAAAAGCTT-ATTACTTAACAGCCTAGC
1 TGTGAAAAG-TTAATTACTTAACAGACTAGC
94209367 T
1 T
94209368 TTCAAGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (30 bp):
TGTGAAAAGTTAATTACTTAACAGACTAGC
Found at i:94209860 original size:54 final size:57
Alignment explanation
Indices: 94209734--94209862 Score: 140
Period size: 54 Copynumber: 2.3 Consensus size: 57
94209724 TTCATATAAT
* ** * *
94209734 AATAATTATATTAAGAATTTTATTAAATTATATATTATTTTATTAAATTATATTTAAT
1 AATAATTATATTAA-AATATGGTTAAAATATATATTATTTTATTAAATTATATTTAAC
* * *
94209792 AATAATTATGTTAAAATATGGTTAAAATATTTATT-TTTTATT-AATT-TTTTTAAC
1 AATAATTATATTAAAATATGGTTAAAATATATATTATTTTATTAAATTATATTTAAC
94209846 AATAATCT-TATTAAAAT
1 AATAAT-TATATTAAAAT
94209863 TTAATAACAA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
54 20 0.33
55 5 0.08
56 7 0.11
57 16 0.26
58 13 0.21
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (57 bp):
AATAATTATATTAAAATATGGTTAAAATATATATTATTTTATTAAATTATATTTAAC
Found at i:94210051 original size:16 final size:16
Alignment explanation
Indices: 94210039--94210070 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
94210029 GATTACAGTT
94210039 CTATTCAATTACAGCC
1 CTATTCAATTACAGCC
*
94210055 CTATTCCATTACAGCC
1 CTATTCAATTACAGCC
94210071 AACCAAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.34, G:0.06, T:0.31
Consensus pattern (16 bp):
CTATTCAATTACAGCC
Found at i:94210449 original size:24 final size:22
Alignment explanation
Indices: 94210393--94210450 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
94210383 AAATTAGTTA
*
94210393 TTTTATTACAAGTGTACATATC
1 TTTTATTACAAATGTACATATC
94210415 TATTTATTACAAATGTACCAATAGT-
1 T-TTTATTACAAATGTA-C-ATA-TC
94210440 TTTTATTACAA
1 TTTTATTACAA
94210451 TTGTCATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
22 1 0.03
23 14 0.45
24 11 0.35
25 4 0.13
26 1 0.03
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (22 bp):
TTTTATTACAAATGTACATATC
Found at i:94210698 original size:3 final size:3
Alignment explanation
Indices: 94210690--94210757 Score: 70
Period size: 3 Copynumber: 23.3 Consensus size: 3
94210680 ATATGAAACC
* ** *
94210690 ATA ATA ATA ATA ATA ATA ATA ATA AT- TTA AT- ATA A-A ACC ATA CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
94210735 ATA ATTA ATA ATA ATA ATA ATA A
1 ATA A-TA ATA ATA ATA ATA ATA A
94210758 AATCTTAGAA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
2 5 0.09
3 46 0.85
4 3 0.06
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:94210720 original size:39 final size:40
Alignment explanation
Indices: 94210665--94210755 Score: 139
Period size: 39 Copynumber: 2.3 Consensus size: 40
94210655 ATACCAATTA
* * *
94210665 AATAATTATAACTTAATATGAAACCATAATAATAA-TAAT
1 AATAATAATAATTTAATATAAAACCATAATAATAATTAAT
*
94210704 AATAATAATAATTTAATATAAAACCATACTAATAATTAAT
1 AATAATAATAATTTAATATAAAACCATAATAATAATTAAT
94210744 AATAATAATAAT
1 AATAATAATAAT
94210756 AAAATCTTAG
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 31 0.66
40 16 0.34
ACGTcount: A:0.58, C:0.07, G:0.01, T:0.34
Consensus pattern (40 bp):
AATAATAATAATTTAATATAAAACCATAATAATAATTAAT
Found at i:94222555 original size:19 final size:17
Alignment explanation
Indices: 94222523--94222565 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
94222513 CTACTTGTGC
*
94222523 ATTTATGTTTTGAACTTG
1 ATTTATGTTATGAA-TTG
94222541 ATTTGATGTTATGAATTG
1 ATTT-ATGTTATGAATTG
*
94222559 AATTATG
1 ATTTATG
94222566 ATAATACCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 10 0.45
19 9 0.41
ACGTcount: A:0.28, C:0.02, G:0.19, T:0.51
Consensus pattern (17 bp):
ATTTATGTTATGAATTG
Found at i:94224810 original size:14 final size:14
Alignment explanation
Indices: 94224791--94224820 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
94224781 TTATATCGAG
94224791 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
94224805 ACCAATCCAATTCA
1 ACCAATCCAAATCA
94224819 AC
1 AC
94224821 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:94226619 original size:34 final size:32
Alignment explanation
Indices: 94226570--94226647 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 32
94226560 ATAAACATGA
* *
94226570 TAAAAAAAATAAATTA-TTCGATACACTCATTTTT
1 TAAAATAAATAAATTATTTC-ATA-AAT-ATTTTT
94226604 T-AAATAAATATAATTATTTCATAAATATTTTT
1 TAAAATAAATA-AATTATTTCATAAATATTTTT
94226636 TAAAATAAATAA
1 TAAAATAAATAA
94226648 TATAACTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
32 8 0.21
33 19 0.49
34 9 0.23
35 3 0.08
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.41
Consensus pattern (32 bp):
TAAAATAAATAAATTATTTCATAAATATTTTT
Found at i:94231190 original size:29 final size:29
Alignment explanation
Indices: 94231157--94231214 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
94231147 TTCATGACTT
94231157 CCCCTATATTTCATTAGTTCATTTTTTGG
1 CCCCTATATTTCATTAGTTCATTTTTTGG
94231186 CCCCTATATTTCATTAGTTCATTTTTTGG
1 CCCCTATATTTCATTAGTTCATTTTTTGG
94231215 GTTAAAGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.21, G:0.10, T:0.52
Consensus pattern (29 bp):
CCCCTATATTTCATTAGTTCATTTTTTGG
Found at i:94231961 original size:45 final size:44
Alignment explanation
Indices: 94231912--94232004 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 44
94231902 TCTTAGGTTA
94231912 AATTTGATATTTAATTTTAATCTTTATATTTTTATAATATTATT
1 AATTTGATATTTAATTTTAATCTTTATATTTTTATAATATTATT
94231956 CAATTTGATATTTAATTTTAATCTTTATATTTTTATAATATTATT
1 -AATTTGATATTTAATTTTAATCTTTATATTTTTATAATATTATT
94232001 AATT
1 AATT
94232005 AATCTAGATA
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 4 0.08
45 44 0.92
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (44 bp):
AATTTGATATTTAATTTTAATCTTTATATTTTTATAATATTATT
Found at i:94232839 original size:20 final size:20
Alignment explanation
Indices: 94232816--94232857 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
94232806 TTTTTTTAAA
* *
94232816 TTAAAAATTATTAAAATTAT
1 TTAAAAAGTATGAAAATTAT
*
94232836 TTAAAAAGTATGAAATTTAT
1 TTAAAAAGTATGAAAATTAT
94232856 TT
1 TT
94232858 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
TTAAAAAGTATGAAAATTAT
Found at i:94233139 original size:16 final size:16
Alignment explanation
Indices: 94233100--94233139 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
94233090 TATTTAGTTC
94233100 GCTGTAATAAAATAGA
1 GCTGTAATAAAATAGA
* * *
94233116 ACTATAATATAATAGA
1 GCTGTAATAAAATAGA
94233132 GCTGTAAT
1 GCTGTAAT
94233140 TATTAATTTA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (16 bp):
GCTGTAATAAAATAGA
Found at i:94251908 original size:2 final size:2
Alignment explanation
Indices: 94251901--94251927 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
94251891 CCGTATTCAC
94251901 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
94251928 AATTAAGGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:94253790 original size:17 final size:17
Alignment explanation
Indices: 94253768--94253804 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
94253758 ATAGAGATAT
94253768 AAACTAATATAATGGTG
1 AAACTAATATAATGGTG
94253785 AAACTAATATAATGGTG
1 AAACTAATATAATGGTG
94253802 AAA
1 AAA
94253805 TTGCATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.27
Consensus pattern (17 bp):
AAACTAATATAATGGTG
Found at i:94256593 original size:31 final size:31
Alignment explanation
Indices: 94256558--94256634 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
94256548 CACCACCATG
* *
94256558 CACCCACGAACGGCTTCGCTCCACACCAGCA
1 CACCCACGAATGGCTTCGCCCCACACCAGCA
* * * *
94256589 CACCCACGAATGGATTCTCCCCACGCTAGCA
1 CACCCACGAATGGCTTCGCCCCACACCAGCA
94256620 CACCCACGAATGGCT
1 CACCCACGAATGGCT
94256635 CCTCCTCCAC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.26, C:0.44, G:0.17, T:0.13
Consensus pattern (31 bp):
CACCCACGAATGGCTTCGCCCCACACCAGCA
Found at i:94257357 original size:13 final size:13
Alignment explanation
Indices: 94257339--94257370 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
94257329 ATAGTTTAAT
94257339 AATAAAATAAAGA
1 AATAAAATAAAGA
*
94257352 AATAAAATAAATA
1 AATAAAATAAAGA
94257365 AATAAA
1 AATAAA
94257371 TGAAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (13 bp):
AATAAAATAAAGA
Found at i:94257365 original size:17 final size:17
Alignment explanation
Indices: 94257343--94257379 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
94257333 TTTAATAATA
94257343 AAATAAAGAAATAAAAT
1 AAATAAAGAAATAAAAT
* *
94257360 AAATAAATAAATGAAAT
1 AAATAAAGAAATAAAAT
94257377 AAA
1 AAA
94257380 AGAAATGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (17 bp):
AAATAAAGAAATAAAAT
Found at i:94257437 original size:4 final size:4
Alignment explanation
Indices: 94257428--94257458 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
94257418 AGAACACGGG
94257428 AGAA AGAA AGGAA AGAA AGAA AGAA AGAA AG
1 AGAA AGAA A-GAA AGAA AGAA AGAA AGAA AG
94257459 GGAGAAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:94258685 original size:15 final size:15
Alignment explanation
Indices: 94258662--94258709 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
94258652 TATCAAATTT
94258662 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
94258677 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
94258692 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
94258706 ATAT
1 ATAT
94258710 ATTATATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:94259362 original size:18 final size:19
Alignment explanation
Indices: 94259341--94259381 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
94259331 AATGAAATGA
94259341 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
94259359 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
94259378 GAAA
1 GAAA
94259382 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:94260238 original size:2 final size:2
Alignment explanation
Indices: 94260233--94260257 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
94260223 TTTTTTCAAA
94260233 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
94260258 AAAAGAAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:94265162 original size:19 final size:18
Alignment explanation
Indices: 94265138--94265183 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
94265128 CTTTTTTAGT
*
94265138 TTTGCATTCATCTCATGCA
1 TTTGCATTCATCGCAT-CA
94265157 TTTGCATTTCATCGCATCA
1 TTTGCA-TTCATCGCATCA
*
94265176 TGTGCATT
1 TTTGCATT
94265184 AAATTTCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 13 0.54
20 9 0.38
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (18 bp):
TTTGCATTCATCGCATCA
Found at i:94273649 original size:134 final size:134
Alignment explanation
Indices: 94273408--94273666 Score: 385
Period size: 134 Copynumber: 1.9 Consensus size: 134
94273398 GATGGTGTAA
* *
94273408 CAGACTGAAAATTACAGATATTATCTCCCTAAGTAGTAGTAGAACAGATCGAAGACGGTGAATCT
1 CAGACTGAAAATTACAGATATTATCTCCCTAAGCAGTAGTAGAACAGATCGAAGACGGCGAATCT
* **
94273473 TATCTCCATGTATAGGCAATAGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAAGTTGGCAGT
66 TATCTCCATGCATAGAAAATAGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAAGTTGGCAGT
94273538 GGAG
131 GGAG
* * * * *
94273542 CAGACTGAAAATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTGCGAATCT
1 CAGACTGAAAATTACAGATATTATCTCCCTAAGCAGTAGTAGAACAGATCGAAGACGGCGAATCT
* * *
94273607 TATCTCTATGCATCA-AAAATGGAGCAGATTTAAGCCATTAGCCTTATCTCCCTGAAGTTG
66 TATCTCCATGCAT-AGAAAATAGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAAGTTG
94273667 TAGTGTAGTA
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
134 110 0.99
135 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (134 bp):
CAGACTGAAAATTACAGATATTATCTCCCTAAGCAGTAGTAGAACAGATCGAAGACGGCGAATCT
TATCTCCATGCATAGAAAATAGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAAGTTGGCAGT
GGAG
Found at i:94273696 original size:88 final size:87
Alignment explanation
Indices: 94273604--94274055 Score: 265
Period size: 88 Copynumber: 5.1 Consensus size: 87
94273594 AGACTGCGAA
* * *
94273604 TCTTATCTCTATGCATCAAAAATGGAGCAGATTTAAGCCATTAGCCTTATCTCCCTGAAGTTGTA
1 TCTTATCTCCATGAATCAACAATGGAGCAGA-TTAAGCCATTAGCCTTATCTCCCTGAAGTTGTA
*
94273669 GTGTAGTAGGCTCAAGATACAAG
65 GTGGAGTAGGCTCAAGATACAAG
* ** ** * ** * **
94273692 TCTTATCTCCCTGAAGT-TGCAGCGGAGCAGACTAA-AAATTGCAGATCTTATCTCCCT-AAGCA
1 TCTTATCTCCATGAA-TCAACAATGGAGCAGATTAAGCCATT--AG-CCTTATCTCCCTGAAGTT
* ** *
94273754 GTAGTGGAGCAGG-TCGAAGACGGCAAA
62 GTAGTGGAGTAGGCTC-AAGA-TACAAG
* * * *
94273781 TCTTATCTCCATGTATCATCAATAGAGCAGATTATAGCCACTAGCCTTATCTCCCTGAAGTTGTA
1 TCTTATCTCCATGAATCAACAATGGAGCAGATTA-AGCCATTAGCCTTATCTCCCTGAAGTTGTA
94273846 GTGGAGTAGGCTCAAGATACAAG
65 GTGGAGTAGGCTCAAGATACAAG
* ** ** * ** * * **
94273869 TCTTATCTCCCTGAAGT-GGCAGCGGAGCAGACTAA-AAATTACAGATCTTATCTCCCT-CAGCA
1 TCTTATCTCCATGAA-TCAACAATGGAGCAGATTAAGCCATT--AG-CCTTATCTCCCTGAAGTT
* * * **
94273931 GTAGTGGAAT-TGATCGAAGATGGTGAA-
62 GTAGTGGAGTAGGCTC-AAGAT--ACAAG
* * * * *
94273958 TCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAGCCACTAACCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCCATGAATCAACAATGGAGCAGA-TTAAGCCATTAGCCTTATCTCCCTGAAGTTGTA
* * *
94274023 GTGAAGCAGACTCAAGATACAAG
65 GTGGAGTAGGCTCAAGATACAAG
94274046 TCTTATCTCC
1 TCTTATCTCC
94274056 TTGAGGTTAC
Statistics
Matches: 260, Mismatches: 80, Indels: 48
0.67 0.21 0.12
Matches are distributed among these distances:
86 5 0.02
87 11 0.04
88 120 0.46
89 110 0.42
90 10 0.04
91 4 0.02
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (87 bp):
TCTTATCTCCATGAATCAACAATGGAGCAGATTAAGCCATTAGCCTTATCTCCCTGAAGTTGTAG
TGGAGTAGGCTCAAGATACAAG
Found at i:94273757 original size:177 final size:177
Alignment explanation
Indices: 94273515--94274075 Score: 811
Period size: 177 Copynumber: 3.2 Consensus size: 177
94273505 AGCCACTAGC
* * *
94273515 CTTATCTCCCTGAAGTTGGCAGTGGAGCAGACTGAAAATTATAGATCTTATCTCCCTAAGCAGTA
1 CTTATCTCCCTGAAGTT-GCAGCGGAGCAGACTAAAAATTACAGATCTTATCTCCCTAAGCAGTA
* * * *
94273580 GTGGAGCAGATCGAAGACTGCGAATCTTATCTCTATGCATCAAAAATGGAGCAGATTTAAGCCAT
65 GTGGAGCAGATCGAAGACTGCGAATCTTATCTCCATGTATCAACAATGGAGCAGATTTAAGCCAC
*
94273645 TAGCCTTATCTCCCTGAAGTTGTAGTGTAGTAGGCTCAAGATACAAGT
130 TAGCCTTATCTCCCTGAAGTTGTAGTGAAGTAGGCTCAAGATACAAGT
*
94273693 CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAAATTGCAGATCTTATCTCCCTAAGCAGTAG
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAAATTACAGATCTTATCTCCCTAAGCAGTAG
* * * * *
94273758 TGGAGCAGGTCGAAGACGGCAAATCTTATCTCCATGTATCATCAATAGAGCAGA-TTATAGCCAC
66 TGGAGCAGATCGAAGACTGCGAATCTTATCTCCATGTATCAACAATGGAGCAGATTTA-AGCCAC
*
94273822 TAGCCTTATCTCCCTGAAGTTGTAGTGGAGTAGGCTCAAGATACAAGT
130 TAGCCTTATCTCCCTGAAGTTGTAGTGAAGTAGGCTCAAGATACAAGT
* *
94273870 CTTATCTCCCTGAAGTGGCAGCGGAGCAGACTAAAAATTACAGATCTTATCTCCCTCAGCAGTAG
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAAATTACAGATCTTATCTCCCTAAGCAGTAG
*** * *
94273935 TGGAATTGATCGAAGA-TGGTGAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAGCCAC
66 TGGAGCAGATCGAAGACT-GCGAATCTTATCTCCATGTATCAACAATGGAGCAGATTTAAGCCAC
* * * *
94273999 TAACCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTCAAGATACAAGT
130 TAGCCTTATCTCCCTGAAGTTGTAGTGAAGTAGGCTCAAGATACAAGT
* * * *
94274047 CTTATCTCCTTGAGGTTACAGTGGAGCAG
1 CTTATCTCCCTGAAGTTGCAGCGGAGCAG
94274076 GTTGAAGTTA
Statistics
Matches: 344, Mismatches: 36, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
176 3 0.01
177 321 0.93
178 20 0.06
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (177 bp):
CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAAATTACAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCGAAGACTGCGAATCTTATCTCCATGTATCAACAATGGAGCAGATTTAAGCCACT
AGCCTTATCTCCCTGAAGTTGTAGTGAAGTAGGCTCAAGATACAAGT
Found at i:94273874 original size:44 final size:44
Alignment explanation
Indices: 94273649--94273925 Score: 152
Period size: 44 Copynumber: 6.2 Consensus size: 44
94273639 AGCCATTAGC
* *
94273649 CTTATCTCCCTGAAGTTGTAGTGTAGTAGGCTCAAGATACAAGT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGCTCAAGATACAAGT
* * * * * *
94273693 CTTATCTCCCTGAAGTTGCAGCGGAGCAGACTAAAAATTGC-AGAT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGCTCAAGA-TACAAG-T
** ** *
94273738 CTTATCTCCCT-AAGCAGTAGTGGAGCAGG-TCGAAGACGGCAAAT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGCTC-AAGA-TACAAGT
* * ** * * * * ** * *
94273782 CTTATCTCCATGTA-TCATCAATAGAGCA-GATTATAGCCACTAGC
1 CTTATCTCCCTGAAGTTGT-AGTGGAGCAGGCTCA-AGATACAAGT
*
94273826 CTTATCTCCCTGAAGTTGTAGTGGAGTAGGCTCAAGATACAAGT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGCTCAAGATACAAGT
* * * * * *
94273870 CTTATCTCCCTGAAGTGGCAGCGGAGCAGACTAAAAATTAC-AGAT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGCTCAAGA-TACAAG-T
94273915 CTTATCTCCCT
1 CTTATCTCCCT
94273926 CAGCAGTAGT
Statistics
Matches: 169, Mismatches: 52, Indels: 23
0.69 0.21 0.09
Matches are distributed among these distances:
43 1 0.01
44 122 0.72
45 46 0.27
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGTAGTGGAGCAGGCTCAAGATACAAGT
Found at i:94274403 original size:29 final size:31
Alignment explanation
Indices: 94274370--94274428 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
94274360 CGAACGACTT
94274370 TTCTCCACAC-C-AGCACACCCATGAATGGA
1 TTCTCCACACGCTAGCACACCCATGAATGGA
*
94274399 TTCTCCCCACGCTAGCACACCCATGAATGG
1 TTCTCCACACGCTAGCACACCCATGAATGG
94274429 CTCCTCCTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 9 0.33
30 1 0.04
31 17 0.63
ACGTcount: A:0.27, C:0.39, G:0.15, T:0.19
Consensus pattern (31 bp):
TTCTCCACACGCTAGCACACCCATGAATGGA
Found at i:94274868 original size:17 final size:17
Alignment explanation
Indices: 94274846--94274879 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
94274836 ATTTGTGCCC
*
94274846 TAGCAGAGTAGAAAGGG
1 TAGCAGAATAGAAAGGG
94274863 TAGCAGAATAGAAAGGG
1 TAGCAGAATAGAAAGGG
94274880 AGAAAACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.38, T:0.12
Consensus pattern (17 bp):
TAGCAGAATAGAAAGGG
Found at i:94285831 original size:38 final size:38
Alignment explanation
Indices: 94285739--94285846 Score: 137
Period size: 38 Copynumber: 2.8 Consensus size: 38
94285729 GGCTTAAAGA
** * *
94285739 CCCGCAGGCTTCA-TGCTGGTAAAATATCTGGGTTAAAT
1 CCCGCAGGCTT-AGTGCTGGTATTATATCCGGGATAAAT
*
94285777 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCTTAGTGCTGGTATTATATCCGGGATAAAT
* *
94285815 CCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 CCCGCAGGCTTAGTGCTGGTATTATATCCGGG
94285847 CCTTCGTGCC
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (38 bp):
CCCGCAGGCTTAGTGCTGGTATTATATCCGGGATAAAT
Found at i:94285930 original size:64 final size:64
Alignment explanation
Indices: 94285851--94285974 Score: 230
Period size: 64 Copynumber: 1.9 Consensus size: 64
94285841 TTCGGGCCTT
94285851 CGTGCCTAGCAGGCTTCATGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATAC
1 CGTGCCTAGCAGGCTTCATGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATAC
* *
94285915 CGTGCCTAGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGTAGGCTTC
1 CGTGCCTAGCAGGCTTCATGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTC
94285975 GTGCCGGTGA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.12, C:0.26, G:0.31, T:0.31
Consensus pattern (64 bp):
CGTGCCTAGCAGGCTTCATGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATAC
Found at i:94285976 original size:43 final size:43
Alignment explanation
Indices: 94285915--94286150 Score: 373
Period size: 43 Copynumber: 5.5 Consensus size: 43
94285905 GGCTTCATAC
*
94285915 CGTGCCTAGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTT
1 CGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTT
* * *
94285958 CGTGCCTAGTAGGCTTCGTGCCGGTGATGTGTATTCAGGCTTT
1 CGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTT
94286001 CGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTT
1 CGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTT
* *
94286044 CGTGCCTAGCAGGCTTCATGCCGTTGATGTGTATTCGGGCCTT
1 CGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTT
* * ** *
94286087 CGTGCCTAGCAGACATAATGCCGGTGATGTGTATTTGGGCCTT
1 CGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTT
94286130 CGTGCCTAGCAGGCTTCGTGC
1 CGTGCCTAGCAGGCTTCGTGC
94286151 TTAGCAGACG
Statistics
Matches: 175, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 175 1.00
ACGTcount: A:0.12, C:0.24, G:0.33, T:0.31
Consensus pattern (43 bp):
CGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTT
Found at i:94286003 original size:107 final size:105
Alignment explanation
Indices: 94285818--94286017 Score: 310
Period size: 107 Copynumber: 1.9 Consensus size: 105
94285808 GATAAATCCC
*
94285818 GCAGGCCTAGTGCTGGTATTATATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCTGGTGATGTGT
1 GCAGGCCTAGTGCTGGTATTATATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGT
*
94285883 ATTCGGGCCTTCGTGCCTAGCAGGCTTCATACCGTGCCTA
66 ATTCAGGCCTTCGTGCCTAGCAGGCTTCATACCGTGCCTA
* * * * *
94285923 GCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGCCGGTGATGT
1 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGT
*
94285988 GTATTCAGGCTTTCGTGCCTAGCAGGCTTC
64 GTATTCAGGCCTTCGTGCCTAGCAGGCTTC
94286018 GTGCCGGTGA
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
105 15 0.18
106 2 0.02
107 68 0.80
ACGTcount: A:0.12, C:0.24, G:0.32, T:0.32
Consensus pattern (105 bp):
GCAGGCCTAGTGCTGGTATTATATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGT
ATTCAGGCCTTCGTGCCTAGCAGGCTTCATACCGTGCCTA
Found at i:94286148 original size:16 final size:16
Alignment explanation
Indices: 94286127--94286157 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
94286117 GTATTTGGGC
94286127 CTTCGTGCCTAGCAGG
1 CTTCGTGCCTAGCAGG
*
94286143 CTTCGTGCTTAGCAG
1 CTTCGTGCCTAGCAG
94286158 ACGTAATGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.29, G:0.29, T:0.29
Consensus pattern (16 bp):
CTTCGTGCCTAGCAGG
Found at i:94289690 original size:47 final size:45
Alignment explanation
Indices: 94289619--94289978 Score: 262
Period size: 47 Copynumber: 7.7 Consensus size: 45
94289609 TGATTTGTGC
*
94289619 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCATATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATA-TATGAGA
* * *
94289665 GCTAGTGTAAGATCATGTCTGGGACATGGCATC-GGCATCCAGACT-AGG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAT--ATA-TGAGA
*
94289713 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCATATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATA-TATGAGA
* * * *
94289759 GCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCACAGAGATGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CATATATGAGA
* * * * * *
94289807 GCCAGAGTAAGACATGTCTGGGACATGCATCGGCCTTGGCAGA-GATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAT---ATATGAGA
* * * * * * * * * *
94289854 GCCAGTGTAAGACGTGTTTGGGGCACGCATC-GGC-TAAAAGTTGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATATATG-AGA
* *
94289898 GCTAGTGTAAGACATGTATGGGACATGTATCAGCACGCATATATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG--C-CATATATGAGA
*
94289946 GCCAGTGTAAGATCATGTCTGGGACATGGCATC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
94289979 GACAATTTAT
Statistics
Matches: 246, Mismatches: 45, Indels: 42
0.74 0.14 0.13
Matches are distributed among these distances:
42 2 0.01
43 1 0.00
44 25 0.10
45 5 0.02
46 41 0.17
47 87 0.35
48 59 0.24
49 22 0.09
50 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATATATGAGA
Found at i:94289784 original size:94 final size:93
Alignment explanation
Indices: 94289619--94289979 Score: 376
Period size: 94 Copynumber: 3.9 Consensus size: 93
94289609 TGATTTGTGC
* *
94289619 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCATATTATGAGAGCTAGTGTAAGATCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGATCATGTC
* *
94289684 TGGGACATGGCATCGGCATCCAGACTAGG
66 TGGGACATGGCATCGGCAT-CAGAATAGT
* * *
94289713 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCATATTATGAGAGCTAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGATCATGTC
* *
94289778 TAGGACATGGCATCAGCA-CAGAGATGAGT
66 TGGGACATGGCATCGGCATCAGA-AT-AGT
* * * * *** *
94289807 GCCAGAGTAAGACATGTCTGGGACATGCATCGGCCTTGGCA-GAGATAGCCAGTGTAAGA-CGTG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGAG--AGCCAGTGTAAGATCATG
* * * * *
94289870 TTTGGGGCA-CGCATCGGC-T-AAAAGTTGT
64 TCTGGGACATGGCATCGGCATCAGAA-TAGT
* *
94289898 GCTAGTGTAAGACATGTATGGGACATGTATCAGCACGCATA-TATGAGAGCCAGTGTAAGATCAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG--C-CATATTATGAGAGCCAGTGTAAGATCAT
94289962 GTCTGGGACATGGCATCG
63 GTCTGGGACATGGCATCG
94289980 ACAATTTATC
Statistics
Matches: 219, Mismatches: 36, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
91 31 0.14
92 20 0.09
93 23 0.11
94 133 0.61
95 12 0.05
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGATCATGTC
TGGGACATGGCATCGGCATCAGAATAGT
Found at i:94289872 original size:141 final size:137
Alignment explanation
Indices: 94289619--94289979 Score: 399
Period size: 141 Copynumber: 2.6 Consensus size: 137
94289609 TGATTTGTGC
*
94289619 GCTAGTGTAAGACATGTCTAGGACATGCATCAGC-CATATTATGAGAGCTAGTGTAAGATCATGT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCACATA-TATGAGAGCCAGTGTAAGATCATGT
* * *
94289683 CTGGGACATGGCATCGGCATCCAGACTAGGGCTAGTGTAAGACATGTTTGGGACATGCATCAGCC
65 CTGGGACATGGCATCGGCATCCAGAATA-GGCCAGTGTAAGACATGTTTGGGACACGCATC-GCC
**
94289748 ATATTA-TGAGA
128 -TAAAAGT-AGA
* * * *
94289759 GCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCACAGAGATGAGTGCCAGAGTAAGA-CATG
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCAGCACATATATGAGAGCCAGTGTAAGATCATG
* * * *
94289823 TCTGGGACAT-GCATCGGCCTTGGCAGAGATA-GCCAGTGTAAGACGTGTTTGGGGCACGCATCG
64 TCTGGGACATGGCATCGG-CAT-CCAGA-ATAGGCCAGTGTAAGACATGTTTGGGACACGCATCG
* * *
94289886 GCTAAAAGTTGT
126 CCTAAAAGTAGA
* * *
94289898 GCTAGTGTAAGACATGTATGGGACATGTATCAGCACGCATATATGAGAGCCAGTGTAAGATCATG
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCA--CATATATGAGAGCCAGTGTAAGATCATG
94289963 TCTGGGACATGGCATCG
64 TCTGGGACATGGCATCG
94289980 ACAATTTATC
Statistics
Matches: 186, Mismatches: 24, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
137 8 0.04
138 12 0.06
139 35 0.19
140 36 0.19
141 63 0.34
142 27 0.15
143 5 0.03
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (137 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCAGCACATATATGAGAGCCAGTGTAAGATCATGTC
TGGGACATGGCATCGGCATCCAGAATAGGCCAGTGTAAGACATGTTTGGGACACGCATCGCCTAA
AAGTAGA
Found at i:94305225 original size:30 final size:30
Alignment explanation
Indices: 94305191--94305247 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
94305181 AATTAATTTT
* *
94305191 CAGGCATAGGGGTAAAATGGTCATTTTGCA
1 CAGGCATAAGGGCAAAATGGTCATTTTGCA
*
94305221 CAGGCCTAAGGGCAAAATGGTCATTTT
1 CAGGCATAAGGGCAAAATGGTCATTTT
94305248 ACCAAAGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (30 bp):
CAGGCATAAGGGCAAAATGGTCATTTTGCA
Found at i:94305745 original size:46 final size:45
Alignment explanation
Indices: 94305597--94305858 Score: 172
Period size: 46 Copynumber: 5.6 Consensus size: 45
94305587 TTTGTACGCT
* * * * *
94305597 AGTGTAAGACATGTCTGGGACATACATCAGC-CATATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTC-CA-GACGAGAGCC
* *
94305643 AGTGTAAGATCATGTCTGGGACATGGCATCGGCATCCAGACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TCCAGACGAGAGCC
*
94305691 AGTGTAAGACATGTCTGGGACATGCATCGGCTCGGCAGA-GATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTC--CAGACGAGAGCC
* * * * * * *
94305737 AGTATAAGACGTGTCTGGGACACGCATCGGCT-AAGA-GTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTCCAGACG-AGAGCC
* * * * * * *
94305781 AGTGTAAGATATGTCTGGGAAATACATCAGCACACATATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTC-C--AGACGAGAGCC
*
94305829 AGTGTAAGACCATGTTTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
94305859 AGCAATTTAT
Statistics
Matches: 167, Mismatches: 35, Indels: 24
0.74 0.15 0.11
Matches are distributed among these distances:
43 4 0.02
44 26 0.16
45 2 0.01
46 50 0.30
47 32 0.19
48 35 0.21
49 13 0.08
50 5 0.03
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCCAGACGAGAGCC
Found at i:94307954 original size:47 final size:46
Alignment explanation
Indices: 94307845--94307955 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 46
94307835 CCGGGATAAG
*
94307845 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAG-A
* *
94307892 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCA-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-T-AGA
94307939 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
94307956 ATTCAATGTC
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 1 0.02
49 1 0.02
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (46 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGA
Found at i:94308727 original size:4 final size:4
Alignment explanation
Indices: 94308718--94308746 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
94308708 CCCTTTTCTA
94308718 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
94308747 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:94311270 original size:33 final size:34
Alignment explanation
Indices: 94311233--94311298 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
94311223 AAAGGCAGCC
94311233 AAAAAGAAAAAAAAAGTAAAAA-AAT-AAACAAAT
1 AAAAAGAAAAAAAAA-TAAAAACAATAAAACAAAT
* *
94311266 AAAAATAAAAAAGAATAAAAACAATAAAACAAA
1 AAAAAGAAAAAAAAATAAAAACAATAAAACAAA
94311299 GGTCATGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 6 0.21
33 16 0.55
34 7 0.24
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.09
Consensus pattern (34 bp):
AAAAAGAAAAAAAAATAAAAACAATAAAACAAAT
Found at i:94311291 original size:9 final size:8
Alignment explanation
Indices: 94311241--94311294 Score: 56
Period size: 8 Copynumber: 6.5 Consensus size: 8
94311231 CCAAAAAGAA
94311241 AAAAAAAGT
1 AAAAAAA-T
94311250 AAAAAAAT
1 AAAAAAAT
*
94311258 AAACAAAT
1 AAAAAAAT
94311266 AAAAATAA-
1 AAAAA-AAT
*
94311274 AAAAGAAT
1 AAAAAAAT
94311282 AAAAACAAT
1 AAAAA-AAT
94311291 AAAA
1 AAAA
94311295 CAAAGGTCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
7 2 0.05
8 20 0.53
9 16 0.42
ACGTcount: A:0.81, C:0.04, G:0.04, T:0.11
Consensus pattern (8 bp):
AAAAAAAT
Found at i:94314838 original size:17 final size:17
Alignment explanation
Indices: 94314813--94314845 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
94314803 TGAGACCAAA
*
94314813 TAAATAAATCAAAAAAT
1 TAAAAAAATCAAAAAAT
94314830 TAAAAAAATCAAAAAA
1 TAAAAAAATCAAAAAA
94314846 ATCCTCAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (17 bp):
TAAAAAAATCAAAAAAT
Found at i:94315997 original size:171 final size:171
Alignment explanation
Indices: 94315708--94316687 Score: 1277
Period size: 171 Copynumber: 5.7 Consensus size: 171
94315698 GTGAATTCAT
* * * * *
94315708 AGATCTCATCTCCCTAAGATAGTAGTGGAGCAGATCGAATA-CAGTGAAACTTATCTT-CTAAAG
1 AGATCTCATCTCCCTGAGATAGTAGTGGAGCAGATCGAAGATGA-CGAATCTTATCTTCCT-AAG
* * * *
94315771 GTAGTAGGGGAGAAAATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGTAAGAGAGCAGGTTGAA
64 GTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAA
* *
94315836 GATTGTAGTCTTATCTTCCTGAGGTAGTAAGGAAGTAAACTAA
129 GATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTAA
* *
94315879 AGATCTCATCTCCCTGAGATAGTAGTGGAGCAGATCGAAGATGATGAATCTTATCTTTCTAAGGT
1 AGATCTCATCTCCCTGAGATAGTAGTGGAGCAGATCGAAGATGACGAATCTTATCTTCCTAAGGT
* *
94315944 GGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA
66 AGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA
*
94316009 TTGTAGTCTTGTCTTCCTGAGGTAGCAAGGAAGCAAACTAA
131 TTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTAA
* * *
94316050 AGATCTCATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCAAGGT
1 AGATCTCATCTCCCTGAGATAGTAGTGGAGCAGATCGAAGATGACGAATCTTATCTTCCTAAGGT
* * * * * *
94316115 AGTAGGGGAGCAGATTTTAACCACTAGCCTTATCTCTCTAAAGTAGCAAGAGAACAGGTTGAAGA
66 AGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA
* * *
94316180 TTGTAGTCTTATCTTCTTGAGGTA-CTAAGGAAGCTGACTGAAGATTGA
131 TTGTAGTCTTATCTTCCTGAGGTAGC-AAGGAA---G-C--AA-ACTAA
* * * *
94316228 AGATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATCGAAGATGATGAATCTTATCTTCCTAAGGT
1 AGATCTCATCTCCCTGAGATAGTAGTGGAGCAGATCGAAGATGACGAATCTTATCTTCCTAAGGT
* * * *
94316292 AGTAGGGAAGCAGATTTTATCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA
66 AGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA
*
94316357 TTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGA
131 TTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACT--A-A
* * * * *
94316401 TTGTAGACCTTATCTCCCT-AAATAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCTG
1 ----AGATCTCATCTCCCTGAGATAGTAGTGGAGCAGATCGAAGATGACGAATCTTATCTTCCTA
*
94316465 AGGTAGCAGGGGAGCATATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTG
62 AGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTG
94316530 AAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTAA
127 AAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTAA
* * * * * * *
94316575 AGATCTCATCTCCCTGAGATAGCAGTGGAGTAGATCAAAGACGGCGAATCTTGTCTTCCCAAGGT
1 AGATCTCATCTCCCTGAGATAGTAGTGGAGCAGATCGAAGATGACGAATCTTATCTTCCTAAGGT
** * * *
94316640 AGCAGGGGAGCAGATTTTAGATAGCAGCCTTATCTCCCTGAAGTAGCA
66 AGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCA
94316688 GTGGAGAAGA
Statistics
Matches: 717, Mismatches: 72, Indels: 40
0.86 0.09 0.05
Matches are distributed among these distances:
170 16 0.02
171 384 0.54
172 3 0.00
173 2 0.00
174 3 0.00
175 2 0.00
176 1 0.00
177 286 0.40
178 20 0.03
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (171 bp):
AGATCTCATCTCCCTGAGATAGTAGTGGAGCAGATCGAAGATGACGAATCTTATCTTCCTAAGGT
AGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA
TTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAAACTAA
Found at i:94316368 original size:44 final size:44
Alignment explanation
Indices: 94316157--94316562 Score: 188
Period size: 44 Copynumber: 9.2 Consensus size: 44
94316147 TCTCTCTAAA
* * *
94316157 GTAGCAAGAGAACAGGTTGAAGATTGTAGTCTTATCTTCTTGAG
1 GTAGCAAGAGAGCAGATTGAAGATTGTAGTCTTATCTTCCTGAG
* * * * *
94316201 GTA-CTAAG-GAAGCTGACTGAAGATTGAAGATCTTATCTCCCTAAG
1 GTAGC-AAGAG-AGCAGATTGAAGATTGTAG-TCTTATCTTCCTGAG
* * * *
94316246 CAGTAG--TG-GAGCAGATCGAAGA-TGATGAATCTTATCTTCCTAAG
1 --GTAGCAAGAGAGCAGATTGAAGATTG-T-AGTCTTATCTTCCTGAG
* * ** ***** *
94316290 GTAG-TAGGGAAGCAGATTTTATCCACTAGCCTTATC-TCTCTGAG
1 GTAGCAAGAG-AGCAGATTGAAGATTGTAGTCTTATCTTC-CTGAG
*
94316334 GTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAG
1 GTAGCAAGAGAGCAGATTGAAGATTGTAGTCTTATCTTCCTGAG
* * * *
94316378 GTAGCAAG-GAAGCAGACTGAAGATTGTAGACCTTATCTCCCT-AA
1 GTAGCAAGAG-AGCAGATTGAAGATTGTAG-TCTTATCTTCCTGAG
* * * * * * *
94316422 ATAG-TAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCTGAG
1 GTAGCAAG-AGAGCAGATTGAAGATTG-TAGTCTTATCTTCCTGAG
* * * ** ***** *
94316467 GTAGCAGGGGAGCATATTTTAGCCACCAGCCTTATC-TCTCTGAG
1 GTAGCAAGAGAGCAGATTGAAGATTGTAGTCTTATCTTC-CTGAG
*
94316511 GTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAG
1 GTAGCAAGAGAGCAGATTGAAGATTGTAGTCTTATCTTCCTGAG
94316555 GTAGCAAG
1 GTAGCAAG
94316563 GAAGCAAACT
Statistics
Matches: 260, Mismatches: 78, Indels: 48
0.67 0.20 0.12
Matches are distributed among these distances:
42 4 0.02
43 12 0.05
44 183 0.70
45 57 0.22
46 1 0.00
47 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (44 bp):
GTAGCAAGAGAGCAGATTGAAGATTGTAGTCTTATCTTCCTGAG
Found at i:94316578 original size:44 final size:44
Alignment explanation
Indices: 94315972--94316578 Score: 170
Period size: 44 Copynumber: 13.9 Consensus size: 44
94315962 AGCCACCAGC
**
94315972 CTTATC-TCTCTGAGGTAGCAA-GAGAGCAGGTTGAAGATTGTAGT
1 CTTATCTTC-CTGAGGTAGCAAGGA-AGCAGACTGAAGATTGTAGT
* *
94316016 CTTGTCTTCCTGAGGTAGCAAGGAAGCAAACT-AA-A--G-A-T
1 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGT
* * * * * * *
94316054 CTCATCTCCCTGAGATAGC-AGTGGAGCAGA-TCGAAGATGGCGAAT
1 CTTATCTTCCTGAGGTAGCAAG-GAAGCAGACT-GAAGATTG-TAGT
** * * * * * * * *
94316099 CTTATCTTCCCAAGGTAGTAGGGGAGCAGATTTTAACCA--CTAGC
1 CTTATCTTCCTGAGGTAGCAAGGAAGCAGA-CTGAA-GATTGTAGT
* * **
94316143 CTTATC-TCTCTAAAGTAGCAAGAGAA-CAGGTTGAAGATTGTAGT
1 CTTATCTTC-CTGAGGTAGCAAG-GAAGCAGACTGAAGATTGTAGT
* * *
94316187 CTTATCTTCTTGAGGTA-CTAAGGAAGCTGACTGAAGATTGAAGAT
1 CTTATCTTCCTGAGGTAGC-AAGGAAGCAGACTGAAGATTGTAG-T
* * * *
94316232 CTTATCTCCCTAAGCAGTAG--TGG-AGCAGA-TCGAAGA-TGATGAAT
1 CTTATCTTCCTGAG--GTAGCAAGGAAGCAGACT-GAAGATTG-T-AGT
* * * * ** ***** *
94316276 CTTATCTTCCTAAGGTAGTAGGGAAGCAGATTTTATCCACTAGC
1 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGT
**
94316320 CTTATC-TCTCTGAGGTAGCAA-GAGAGCAGGTTGAAGATTGTAGT
1 CTTATCTTC-CTGAGGTAGCAAGGA-AGCAGACTGAAGATTGTAGT
*
94316364 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGAC
1 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAG-T
* ** * * * * *
94316409 CTTATCTCCCT-AAATAG-TAGTGGAGCAGA-TCGAAGATGGCGAAT
1 CTTATCTTCCTGAGGTAGCAAG-GAAGCAGACT-GAAGATTG-TAGT
* * * * ** ***** *
94316453 CTTATCTTCCTGAGGTAGCAGGGGAGCATATTTTAGCCACCAGC
1 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGT
**
94316497 CTTATC-TCTCTGAGGTAGCAA-GAGAGCAGGTTGAAGATTGTAGT
1 CTTATCTTC-CTGAGGTAGCAAGGA-AGCAGACTGAAGATTGTAGT
* *
94316541 CTTATCTTCCTGAGGTAGCAAGGAAGCAAACTAAAGAT
1 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGAT
94316579 CTCATCTCCC
Statistics
Matches: 402, Mismatches: 112, Indels: 98
0.66 0.18 0.16
Matches are distributed among these distances:
37 3 0.01
38 22 0.05
39 3 0.01
40 2 0.00
42 7 0.02
43 25 0.06
44 244 0.61
45 85 0.21
46 6 0.01
47 5 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTAGT
Found at i:94316783 original size:45 final size:45
Alignment explanation
Indices: 94316668--94316773 Score: 176
Period size: 45 Copynumber: 2.4 Consensus size: 45
94316658 AGATAGCAGC
* * *
94316668 CTTATCTCCCTGAAGTAGCAGTGGAGAAGATTAAGGACGGTGATT
1 CTTATCTCCTTGAAGTAGCAGTGGAGAAGACTAAGGACAGTGATT
*
94316713 CTTATCTCCTTGAAGTAGCAGTGGAGAAGACTGAGGACAGTGATT
1 CTTATCTCCTTGAAGTAGCAGTGGAGAAGACTAAGGACAGTGATT
94316758 CTTATCTCCTTGAAGT
1 CTTATCTCCTTGAAGT
94316774 TCTAGTGGAG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (45 bp):
CTTATCTCCTTGAAGTAGCAGTGGAGAAGACTAAGGACAGTGATT
Found at i:94324084 original size:30 final size:30
Alignment explanation
Indices: 94324050--94324106 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
94324040 TAACTCAAAA
94324050 TTTTGAAAAATTACAATTTTGCCCCTAAAC
1 TTTTGAAAAATTACAATTTTGCCCCTAAAC
* * * *
94324080 TTTTGCATATTTACACTTTTGCCCCTA
1 TTTTGAAAAATTACAATTTTGCCCCTA
94324107 GGCTCGGGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCTAAAC
Found at i:94333603 original size:12 final size:12
Alignment explanation
Indices: 94333573--94333604 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
94333563 TATATATTTT
94333573 AAAATT-ATATA
1 AAAATTAATATA
94333584 AAAA-TAATATA
1 AAAATTAATATA
94333595 AAAATTAATA
1 AAAATTAATA
94333605 CGAGCGGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 1 0.05
11 13 0.68
12 5 0.26
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:94341131 original size:18 final size:18
Alignment explanation
Indices: 94341103--94341150 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
94341093 GTTAAAAAAA
94341103 AAAAATA-TTTTTATCCT
1 AAAAATACTTTTTATCCT
*
94341120 -AAAATACTTTTTATTCT
1 AAAAATACTTTTTATCCT
94341137 AAAAATACTTTTTA
1 AAAAATACTTTTTA
94341151 AAAGTAATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 6 0.21
17 9 0.32
18 13 0.46
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (18 bp):
AAAAATACTTTTTATCCT
Found at i:94342949 original size:21 final size:20
Alignment explanation
Indices: 94342925--94342982 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
94342915 TTTTGCTCTG
94342925 CTCTGCTGCCATCGCTGC-TGC
1 CTCTGCT-CCATCGCT-CATGC
*
94342946 CTCTGCCTCCCTCGCTCATGC
1 CTCTG-CTCCATCGCTCATGC
*
94342967 CTCTGCCTCCCTCGCT
1 CTCTG-CTCCATCGCT
94342983 GTTGCAGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
20 1 0.03
21 31 0.91
22 2 0.06
ACGTcount: A:0.03, C:0.50, G:0.17, T:0.29
Consensus pattern (20 bp):
CTCTGCTCCATCGCTCATGC
Found at i:94342994 original size:21 final size:21
Alignment explanation
Indices: 94342936--94343026 Score: 80
Period size: 21 Copynumber: 4.3 Consensus size: 21
94342926 TCTGCTGCCA
*
94342936 TCGCTGCTGC-CTCTGCCTCCC
1 TCGCTGCTGCAGT-TGCCTCCC
*
94342957 TCGCT-CATGC-CTCTGCCTCCC
1 TCGCTGC-TGCAGT-TGCCTCCC
*
94342978 TCGCTGTTGCAGTTGCCTCCC
1 TCGCTGCTGCAGTTGCCTCCC
* *
94342999 TAGCTGCTGCCGTTGCCTCCC
1 TCGCTGCTGCAGTTGCCTCCC
*
94343020 TCTCTGC
1 TCGCTGC
94343027 CACCTCCGCT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
20 1 0.02
21 58 0.97
22 1 0.02
ACGTcount: A:0.03, C:0.46, G:0.20, T:0.31
Consensus pattern (21 bp):
TCGCTGCTGCAGTTGCCTCCC
Found at i:94344829 original size:10 final size:10
Alignment explanation
Indices: 94344814--94344848 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
94344804 TTTGTACATA
94344814 ATATGCCATG
1 ATATGCCATG
94344824 ATATGCACATG
1 ATATGC-CATG
94344835 ATATGCCATG
1 ATATGCCATG
94344845 ATAT
1 ATAT
94344849 ATACATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (10 bp):
ATATGCCATG
Found at i:94344833 original size:21 final size:21
Alignment explanation
Indices: 94344809--94344848 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
94344799 ACTGATTTGT
94344809 ACATAATATGCCATGATATGC
1 ACATAATATGCCATGATATGC
*
94344830 ACATGATATGCCATGATAT
1 ACATAATATGCCATGATAT
94344849 ATACATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (21 bp):
ACATAATATGCCATGATATGC
Found at i:94344854 original size:21 final size:20
Alignment explanation
Indices: 94344808--94344860 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
94344798 TACTGATTTG
*
94344808 TACATAATATGCCATGATATG
1 TACAT-ATATGCCATGATATA
*
94344829 CACATGATATGCCATGATATA
1 TACAT-ATATGCCATGATATA
94344850 TACATATATGC
1 TACATATATGC
94344861 ATGGGTTGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (20 bp):
TACATATATGCCATGATATA
Done.