Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 197 of 362
Found at i:66171386 original size:24 final size:24
Alignment explanation
Indices: 66171335--66171429 Score: 122
Period size: 24 Copynumber: 4.0 Consensus size: 24
66171325 GCTTTATCAT
*
66171335 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
66171360 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
66171384 ATAACTAGGACATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
66171407 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
66171430 GCACTTCCTC
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
23 21 0.34
24 28 0.46
25 12 0.20
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:66171410 original size:23 final size:23
Alignment explanation
Indices: 66171356--66171428 Score: 110
Period size: 23 Copynumber: 3.1 Consensus size: 23
66171346 CCTAGCCTCT
*
66171356 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
66171379 TTTTAATAACTAGGACATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
66171403 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
66171426 TTT
1 TTT
66171429 TGCACTTCCT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 24 0.55
24 20 0.45
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:66171504 original size:20 final size:20
Alignment explanation
Indices: 66171479--66171543 Score: 103
Period size: 20 Copynumber: 3.2 Consensus size: 20
66171469 ATGAATACAC
66171479 CATGTGCATATCATACATAT
1 CATGTGCATATCATACATAT
* *
66171499 CATGTGCATATCATGCATGT
1 CATGTGCATATCATACATAT
*
66171519 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAT
66171539 CATGT
1 CATGT
66171544 TTATCAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (20 bp):
CATGTGCATATCATACATAT
Found at i:66171510 original size:11 final size:11
Alignment explanation
Indices: 66171479--66171532 Score: 62
Period size: 11 Copynumber: 5.3 Consensus size: 11
66171469 ATGAATACAC
66171479 CATGTGCATAT
1 CATGTGCATAT
*
66171490 CA--TACATAT
1 CATGTGCATAT
66171499 CATGTGCATAT
1 CATGTGCATAT
*
66171510 CA--TGCATGT
1 CATGTGCATAT
66171519 CATGTGCATAT
1 CATGTGCATAT
66171530 CAT
1 CAT
66171533 ACATACCATG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
9 16 0.46
11 19 0.54
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (11 bp):
CATGTGCATAT
Found at i:66173799 original size:11 final size:11
Alignment explanation
Indices: 66173783--66173816 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
66173773 ATAATAATAA
66173783 TTATAAAAATT
1 TTATAAAAATT
66173794 TTATAAAAATT
1 TTATAAAAATT
66173805 TTATAAAAATT
1 TTATAAAAATT
66173816 T
1 T
66173817 CAAATATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TTATAAAAATT
Found at i:66173921 original size:19 final size:18
Alignment explanation
Indices: 66173884--66173927 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
66173874 ATACTTACAG
66173884 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
66173901 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
66173920 TACTAATT
1 TAATAATT
66173928 AAAATTTCAT
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:66175186 original size:39 final size:39
Alignment explanation
Indices: 66175128--66175284 Score: 115
Period size: 39 Copynumber: 4.0 Consensus size: 39
66175118 TTCAGTGATG
* **
66175128 TATATCTGGACTTAGGGT-CCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCCGCAGGCT-TGTGCTGGAAT
* * * * *
66175167 TATATCCGGACTTAAGGT-CCTCAGGCTACGTGTTGGAAA
1 TATATCCGGACTTAAAGTCCCGCAGGCT-TGTGCTGGAAT
* * * *
66175206 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTTAAAGTCCCGCAGGCTT-GTGCTGGAAT
** *
66175245 TATA-CCGGGTTTAAATTCCCGCAGGCTTGTGCTGGTAAT
1 TATATCCGGACTTAAAGTCCCGCAGGCTTGTGCTGG-AAT
66175284 T
1 T
66175285 GGTTTCAAGT
Statistics
Matches: 94, Mismatches: 20, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
38 16 0.17
39 78 0.83
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCCGCAGGCTTGTGCTGGAAT
Found at i:66181746 original size:39 final size:39
Alignment explanation
Indices: 66181692--66181817 Score: 198
Period size: 39 Copynumber: 3.2 Consensus size: 39
66181682 TTCAGTGATG
66181692 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
66181731 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * * *
66181770 TATATCCGGACTTAAGGTCCACAGGCTACGTGCTAGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
66181809 TATGTCCGG
1 TATATCCGG
66181818 GCTAAAGTCC
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:66181831 original size:78 final size:78
Alignment explanation
Indices: 66181692--66181835 Score: 191
Period size: 78 Copynumber: 1.8 Consensus size: 78
66181682 TTCAGTGATG
* * * * * **
66181692 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCACAGGCTACGTGCTAGAAATATATCCGGACTTAAAGTCCGCAGGC
66181757 TATGTGCTGGAAT
66 TATGTGCTGGAAT
* *
66181770 TATATCCGGACTTAAGGTCCACAGGCTACGTGCTAGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATATCCGGACTTAAGGTCCACAGGCTACGTGCTAGAAATATATCCGGACTTAAAGT-CCGCAGG
66181834 CT
65 CT
66181836 TCGAGCTGGT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
77 4 0.07
78 52 0.93
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCACAGGCTACGTGCTAGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGTGCTGGAAT
Found at i:66181834 original size:39 final size:39
Alignment explanation
Indices: 66181692--66181835 Score: 146
Period size: 39 Copynumber: 3.7 Consensus size: 39
66181682 TTCAGTGATG
** * * *
66181692 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTAGAAA
** * * *
66181731 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTAGAAA
* *
66181770 TATATCCGGACTTAAGGTCCACAGGCTACGTGCTAGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTAGAAA
* *
66181809 TATGTCCGGGC-TAAAGTCCCGCAGGCT
1 TATATCCGGACTTAAAGT-CCGCAGGCT
66181836 TCGAGCTGGT
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 5 0.05
39 90 0.95
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTAGAAA
Found at i:66181844 original size:78 final size:78
Alignment explanation
Indices: 66181692--66181855 Score: 190
Period size: 78 Copynumber: 2.1 Consensus size: 78
66181682 TTCAGTGATG
* * * * * **
66181692 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCACAGGCTACGTGCTAGAAATATATCCGGACTTAAAGTCCGCAGGC
*
66181757 TATGTGCTGGAAT
66 TATGAGCTGGAAT
* *
66181770 TATATCCGGACTTAAGGTCCACAGGCTACGTGCTAGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATATCCGGACTTAAGGTCCACAGGCTACGTGCTAGAAATATATCCGGACTTAAAGT-CCGCAGG
*
66181834 CT-TCGAGCTGGTAT
65 CTAT-GAGCTGGAAT
66181848 TATA-CCGG
1 TATATCCGG
66181856 GTTTAAATTC
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
77 9 0.12
78 64 0.88
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCACAGGCTACGTGCTAGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGAGCTGGAAT
Found at i:66184818 original size:29 final size:28
Alignment explanation
Indices: 66184765--66184821 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
66184755 TATTTTATTG
66184765 TTAATTTTCTTATTATTTTAAAGCATTT
1 TTAATTTTCTTATTATTTTAAAGCATTT
*
66184793 TTAATTTTTTTATTATTTTAGAAGCATTT
1 TTAATTTTCTTATTATTTTA-AAGCATTT
66184822 GCTTGTTAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 19 0.70
29 8 0.30
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.61
Consensus pattern (28 bp):
TTAATTTTCTTATTATTTTAAAGCATTT
Found at i:66187675 original size:27 final size:27
Alignment explanation
Indices: 66187638--66187842 Score: 209
Period size: 27 Copynumber: 7.6 Consensus size: 27
66187628 TAAATTGTAC
*
66187638 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
66187665 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
66187692 TGCACTAAGTGTGCGAAATGA-AATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
66187717 ATGCACTAAGTGTGCGAATTGACCATG-
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
66187744 CGACACTAAGTGTGCGAGTTGACTATGT
1 AG-CACTAAGTGTGCGATTTGACTATGT
*
66187772 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
66187800 GGCACTAAGTGTGCGAGGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
66187828 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
66187843 GACTTAATAT
Statistics
Matches: 153, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
26 23 0.15
27 82 0.54
28 48 0.31
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:66187733 original size:53 final size:54
Alignment explanation
Indices: 66187639--66187815 Score: 198
Period size: 53 Copynumber: 3.3 Consensus size: 54
66187629 AAATTGTACA
** * * *
66187639 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAAATGACAATGTAGCACTAAGTGTGCGATTTGACCATGTC
*
66187693 GCACTAAGTGTGCGAAATGA-AATG-ATGCACTAAGTGTGCGAATTGACCATG-C
1 GCACTAAGTGTGCGAAATGACAATGTA-GCACTAAGTGTGCGATTTGACCATGTC
** * ** *
66187745 GACACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 G-CACTAAGTGTGCGAAATGACAATGTAGCACTAAGTGTGCGA-TTTGACCATGTC
66187801 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
66187816 GGTTGATTAT
Statistics
Matches: 104, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
52 2 0.02
53 44 0.42
54 35 0.34
55 22 0.21
56 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAAATGACAATGTAGCACTAAGTGTGCGATTTGACCATGTC
Found at i:66187751 original size:80 final size:80
Alignment explanation
Indices: 66187639--66187787 Score: 219
Period size: 80 Copynumber: 1.9 Consensus size: 80
66187629 AAATTGTACA
* * * * * *
66187639 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGAATTGACCATGGAGCACTAAGTGTGCGAGTTGACCATGTAGCACTAAGTGT
66187704 GCGAAATGAAATGAT
66 GCGAAATGAAATGAT
*
66187719 GCACTAAGTGTGCGAATTGACCATGCGA-CACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGAATTGACCATG-GAGCACTAAGTGTGCGAGTTGACCATGTAGCACTAAGTG
66187783 TGCGA
65 TGCGA
66187788 GTTTGATTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 60 0.98
81 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (80 bp):
GCACTAAGTGTGCGAATTGACCATGGAGCACTAAGTGTGCGAGTTGACCATGTAGCACTAAGTGT
GCGAAATGAAATGAT
Found at i:66195769 original size:27 final size:27
Alignment explanation
Indices: 66195732--66195933 Score: 214
Period size: 27 Copynumber: 7.6 Consensus size: 27
66195722 TAAATTGTAC
*
66195732 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
66195759 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
66195786 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
66195812 ATGCACTAAGTGTGCGAATTGACCA--T
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
66195838 -GCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
66195864 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
66195892 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
66195919 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
66195934 GACTTAATAT
Statistics
Matches: 149, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
24 21 0.14
26 1 0.01
27 103 0.69
28 24 0.16
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:66203888 original size:27 final size:27
Alignment explanation
Indices: 66203851--66204055 Score: 216
Period size: 27 Copynumber: 7.6 Consensus size: 27
66203841 TAAATTGTAC
*
66203851 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
66203878 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
66203905 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
66203931 ATGCACTAAGTGTGCGAATTGACCATG-
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
66203958 CGACACTAAGTGTGCGAGTTGACTATGT
1 AG-CACTAAGTGTGCGATTTGACTATGT
*
66203986 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
66204014 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
66204041 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
66204056 GACTTAATAT
Statistics
Matches: 152, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 126 0.83
28 25 0.16
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:66203912 original size:54 final size:54
Alignment explanation
Indices: 66203852--66204055 Score: 241
Period size: 54 Copynumber: 3.8 Consensus size: 54
66203842 AAATTGTACA
* * *
66203852 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTC
** ** *
66203906 GCACTAAGTGTGCGAAATGAAAATG-ATGCACTAAGTGTGCGAATTGACCATG-C
1 GCACTAAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTC
** *
66203959 GACACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 G-CACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTC
* * *
66204015 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
66204056 GACTTAATAT
Statistics
Matches: 127, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.02
54 79 0.62
55 45 0.35
56 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTC
Found at i:66209456 original size:50 final size:50
Alignment explanation
Indices: 66209384--66209583 Score: 222
Period size: 50 Copynumber: 4.0 Consensus size: 50
66209374 ACATGCGACA
*
66209384 AATTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 AATTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
** ** * * * *
66209434 AACCATTTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTTATCG
1 AATTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
* * * * * *
66209484 AAGTTATCGGGTACGCATAGTAGCCTGCACTTACTACTACACATGCGACC-
1 AA-TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
* * *
66209534 AATTATCCGGTATAAGTAGTAGCCTGTACTTAGTACTACACACGTGACCT
1 AATTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
66209584 CACAATAGAT
Statistics
Matches: 120, Mismatches: 28, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
49 38 0.32
50 47 0.39
51 35 0.29
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (50 bp):
AATTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
Found at i:66209850 original size:27 final size:27
Alignment explanation
Indices: 66209810--66209863 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
66209800 AGGTACAACC
* *
66209810 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
66209837 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
66209864 TCATATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:66215970 original size:30 final size:29
Alignment explanation
Indices: 66215936--66215992 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
66215926 ATAGTATCAT
*
66215936 ATCTTGGATTTCTTTATTCTGGGTTTCTCA
1 ATCTTGGATTTCATTATTC-GGGTTTCTCA
*
66215966 ATCTTGGATTTCATTATTCGGTTTTCT
1 ATCTTGGATTTCATTATTCGGGTTTCT
66215993 TTATCTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.14, C:0.16, G:0.16, T:0.54
Consensus pattern (29 bp):
ATCTTGGATTTCATTATTCGGGTTTCTCA
Found at i:66220288 original size:46 final size:46
Alignment explanation
Indices: 66220234--66220407 Score: 167
Period size: 46 Copynumber: 3.7 Consensus size: 46
66220224 TCATCCCGTA
* *
66220234 GCCGATGCATATCCCAGACATGTCTTACACT-G-ACTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCAC-T-CATCTCGAG
* *
66220280 GCCGATGCATGTCCCAAACATGTCTTACACTAGCACTCATCTCGAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCGAG
* * * *
66220326 GCCGATGCCATGTCCCAGACATGATCTTACAATGGCTCTCATAAT--ATG
1 GCCGATG-CATGTCCCAGACATG-TCTTACACTAGCACTCAT-CTCGA-G
* * *
66220374 GCTGATCCATGTCCCAAACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
66220408 TCACATAAGT
Statistics
Matches: 107, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
46 53 0.50
47 31 0.29
48 22 0.21
49 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCGAG
Found at i:66222500 original size:32 final size:32
Alignment explanation
Indices: 66222464--66222529 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
66222454 AATTGAGTAG
66222464 TGAATTGGATGGTATTTGGATGTTATGGAATA
1 TGAATTGGATGGTATTTGGATGTTATGGAATA
66222496 TGAATTGGATGGTATTTGGATGTTATGGAATA
1 TGAATTGGATGGTATTTGGATGTTATGGAATA
66222528 TG
1 TG
66222530 TATGAAATGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.41
Consensus pattern (32 bp):
TGAATTGGATGGTATTTGGATGTTATGGAATA
Found at i:66222523 original size:16 final size:16
Alignment explanation
Indices: 66222472--66222523 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
66222462 AGTGAATTGG
66222472 ATGGTATTTGGATGTT
1 ATGGTATTTGGATGTT
* * * *
66222488 ATGGAATATGAAT-TGG
1 ATGGTATTTGGATGT-T
66222504 ATGGTATTTGGATGTT
1 ATGGTATTTGGATGTT
66222520 ATGG
1 ATGG
66222524 AATATGTATG
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
15 1 0.04
16 24 0.92
17 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.42
Consensus pattern (16 bp):
ATGGTATTTGGATGTT
Found at i:66226245 original size:24 final size:24
Alignment explanation
Indices: 66226213--66226269 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
66226203 TAAGGGGGTC
*
66226213 TAGGTCCACTTATCGACCCAACCG
1 TAGGTCCACTTACCGACCCAACCG
66226237 TAGGTCCACTTACCGACCCAACCG
1 TAGGTCCACTTACCGACCCAACCG
66226261 TAGGTCCAC
1 TAGGTCCAC
66226270 AGTAGTCTCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.25, C:0.39, G:0.18, T:0.19
Consensus pattern (24 bp):
TAGGTCCACTTACCGACCCAACCG
Found at i:66227073 original size:12 final size:12
Alignment explanation
Indices: 66227053--66227092 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
66227043 ATAACGGCAT
* *
66227053 AGAAAGAAAGAA
1 AGAAGGAAAAAA
66227065 AGAAGGAAAAAA
1 AGAAGGAAAAAA
*
66227077 AGAAGAAAAAAA
1 AGAAGGAAAAAA
66227089 AGAA
1 AGAA
66227093 TAACCGTGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AGAAGGAAAAAA
Found at i:66233946 original size:27 final size:27
Alignment explanation
Indices: 66233909--66233965 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
66233899 CATCTCATAA
66233909 GGGCATATCAGTCATTTTA-CAATGTAG
1 GGGCATATCAGTCATTTTATCAAT-TAG
*
66233936 GGGCATTTCAGTCATTTTATCAATTAG
1 GGGCATATCAGTCATTTTATCAATTAG
66233963 GGG
1 GGG
66233966 GTCTAGGTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (27 bp):
GGGCATATCAGTCATTTTATCAATTAG
Found at i:66235405 original size:31 final size:31
Alignment explanation
Indices: 66235362--66235445 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
66235352 TTAGTCTTGA
66235362 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
*
66235392 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
*
66235423 CATATCACTAGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
66235446 ACTGTAAACG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:66235516 original size:42 final size:42
Alignment explanation
Indices: 66235469--66235560 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
66235459 CGGCCCTTAG
*
66235469 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
66235511 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
66235553 GCCCATTT
1 GCCCATTT
66235561 GGGGAGACTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:66235736 original size:25 final size:25
Alignment explanation
Indices: 66235708--66235777 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
66235698 CTCTTTTAAT
*
66235708 AACTGGGGTAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
66235733 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
66235758 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
66235778 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 38 0.90
26 4 0.10
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:66236672 original size:27 final size:27
Alignment explanation
Indices: 66236572--66236655 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
66236562 AGGCATATTC
* *
66236572 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
66236599 GTCACTTTACCCTACAGGGGCTTTGCG
1 GTCACTTTACCCTACAGGGGCTTTACG
66236626 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
66236653 GTC
1 GTC
66236656 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:66236747 original size:27 final size:27
Alignment explanation
Indices: 66236694--66237080 Score: 176
Period size: 27 Copynumber: 14.3 Consensus size: 27
66236684 CTTCATCCTA
* * * * * *
66236694 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * *
66236721 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
** * *
66236748 CAATCGTATTTCCA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTATAAA-T
* *
66236777 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTATAAAT
* * * *
66236804 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
** ** * *
66236831 TGAGGGTATTTCGGTAATTTCA-AAAA
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * * *
66236857 CCAGTGGCATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTAGTAATTTTATAAAT
* * *
66236884 CTAGGGGTATTTTTGTAATTTTACAAAT
1 C-AAGGGTATTTTAGTAATTTTATAAAT
** * *
66236912 TGAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* ** *
66236939 CAAGGGCATTTTACCAATTTTACAAA-
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
66236965 CTAGGGTATTTTGGTAATTTTACT-AAT
1 CAAGGGTATTTTAGTAATTTTA-TAAAT
* * *
66236992 CGAGGGTATTTTGGTAATTTTGTAAA-
1 CAAGGGTATTTTAGTAATTTTATAAAT
*
66237018 CTAAGGGTATTTTAGTAATTTTGTAAAT
1 C-AAGGGTATTTTAGTAATTTTATAAAT
* **** * *
66237046 CGAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
66237073 CAAGGGTA
1 CAAGGGTA
66237081 AAACAATAAT
Statistics
Matches: 282, Mismatches: 64, Indels: 28
0.75 0.17 0.07
Matches are distributed among these distances:
26 27 0.10
27 222 0.79
28 20 0.07
29 13 0.05
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAT
Found at i:66236869 original size:54 final size:53
Alignment explanation
Indices: 66236807--66237053 Score: 208
Period size: 54 Copynumber: 4.6 Consensus size: 53
66236797 TGTAAATTAG
** * *
66236807 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCAAAAACCA
1 GGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTGGTAATTTTAAAAACCA
* * * ***
66236860 GTGGCATTTTGGTAATTTTACAAA-CTAGGGGTATTTTTGTAATTTTACAAATTGA
1 G-GGTATTTTGGTAATTTTACAAACCGA-GGGTATTTTGGTAATTTTA-AAAACCA
* * * *** * *
66236915 GGGTATTTTAGTAATTTTACAAACCAAGGGCATTTTACCAATTTTACAAACTA
1 GGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTGGTAATTTTAAAAACCA
* * ** *
66236968 GGGTATTTTGGTAATTTTACTAATCGAGGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTGGTAATTTTAAAAAC-CA
* ** *
66237022 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAACCGAGGGTA
66237054 AAACAGTAAT
Statistics
Matches: 154, Mismatches: 35, Indels: 9
0.78 0.18 0.05
Matches are distributed among these distances:
53 46 0.30
54 101 0.66
55 7 0.05
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTGGTAATTTTAAAAACCA
Found at i:66236906 original size:81 final size:81
Alignment explanation
Indices: 66236804--66237011 Score: 303
Period size: 81 Copynumber: 2.6 Consensus size: 81
66236794 CTTTGTAAAT
*
66236804 TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCAAAAACC-AGTGGCATT
1 TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCAAAAACCAAG-GGCATT
***
66236868 TTGGTAATTTTACAAAC
65 TTACCAATTTTACAAAC
* * * *
66236885 TAGGGGTATTTTTGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTACAAACCAAGGGCATTT
1 TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCAAAAACCAAGGGCATTT
66236950 TACCAATTTTACAAAC
66 TACCAATTTTACAAAC
* *
66236966 TA-GGGTATTTTGGTAATTTTACTAATCGAGGGTATTTTGGTAATTT
1 TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTT
66237012 TGTAAACTAA
Statistics
Matches: 114, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
80 40 0.35
81 72 0.63
82 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
TAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCAAAAACCAAGGGCATTT
TACCAATTTTACAAAC
Found at i:66237063 original size:54 final size:54
Alignment explanation
Indices: 66236962--66237125 Score: 163
Period size: 54 Copynumber: 3.1 Consensus size: 54
66236952 CCAATTTTAC
* *** *
66236962 AAACT-AGGGTATTTTGGTAATTTTACT-AATCGAGGGTATTTTGGTAATTTTGT
1 AAACTAAGGGTATTTTAGTAATTTTA-TAAATCGAGGGTAAAATGGTAATTCTGT
* **
66237015 AAACTAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGT
1 AAACTAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGT
**** * *
66237069 AAA-TCAAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAATGGTAATTCTGT
1 AAACT-AAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGT
66237123 AAA
1 AAA
66237126 TCGAGGGTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
53 7 0.08
54 84 0.92
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.35
Consensus pattern (54 bp):
AAACTAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGT
Found at i:66237081 original size:27 final size:27
Alignment explanation
Indices: 66237031--66237161 Score: 190
Period size: 27 Copynumber: 4.9 Consensus size: 27
66237021 AGGGTATTTT
*
66237031 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
66237058 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
66237085 AATAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
66237112 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
66237139 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
66237162 CTTTGGTAAT
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:66237198 original size:81 final size:81
Alignment explanation
Indices: 66236989--66237199 Score: 215
Period size: 81 Copynumber: 2.6 Consensus size: 81
66236979 TAATTTTACT
* * * * *
66236989 AATCGAGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAATTTGGTAATTTTATAAATTGAGGGTATTTTAGTAATTCTGTAAATCGAGGGTA
*
66237054 AAACAGTAATTCTGTA
66 AAACAGTAATTCTATA
* ***** * * *** *
66237070 AATCAAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTA
1 AATCGAGGGTAATTTGGTAATTTTATAAATTGAGGGTATTTTAGTAATTCTGTAAATCGAGGGTA
*
66237135 AAACGGTAATTCTATA
66 AAACAGTAATTCTATA
* * * *
66237151 AATCGAGGGTACTTTGGTAATTTTACAATTTGAGGGCATTTTAGTAATT
1 AATCGAGGGTAATTTGGTAATTTTATAAATTGAGGGTATTTTAGTAATT
66237200 TGGTAAACTA
Statistics
Matches: 95, Mismatches: 35, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
81 95 1.00
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (81 bp):
AATCGAGGGTAATTTGGTAATTTTATAAATTGAGGGTATTTTAGTAATTCTGTAAATCGAGGGTA
AAACAGTAATTCTATA
Found at i:66237396 original size:9 final size:9
Alignment explanation
Indices: 66237382--66237407 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
66237372 ATTGGACTCG
66237382 TAGGCCCAT
1 TAGGCCCAT
66237391 TAGGCCCAT
1 TAGGCCCAT
66237400 TAGGCCCA
1 TAGGCCCA
66237408 CATGACCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.35, G:0.23, T:0.19
Consensus pattern (9 bp):
TAGGCCCAT
Found at i:66245140 original size:21 final size:20
Alignment explanation
Indices: 66245099--66245143 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
66245089 CAGGGACTAA
* *
66245099 AATGAAAAGTTGTAAAATTT
1 AATGAAAAATTCTAAAATTT
66245119 AATGAAAAATTCTAAAATTT
1 AATGAAAAATTCTAAAATTT
*
66245139 TATGA
1 AATGA
66245144 GTACATGTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.36
Consensus pattern (20 bp):
AATGAAAAATTCTAAAATTT
Found at i:66247432 original size:43 final size:43
Alignment explanation
Indices: 66247367--66247531 Score: 130
Period size: 43 Copynumber: 3.9 Consensus size: 43
66247357 CGTACAATGC
* *
66247367 CAAC-GTCCCAGACATGGTCTTACATGTAATCACATATCGATG
1 CAACTGTCCCAGACAGGGTCTTACACGTAATCACATATCGATG
* * **
66247409 -ACACTGTCCCAGATAGGGTCTTACACG-AA-CTCAT-TTAATG
1 CA-ACTGTCCCAGACAGGGTCTTACACGTAATCACATATCGATG
* *
66247449 CTAA-TGTCCCAGACATGGTCTTACACGTAAATCACAAATCGATG
1 C-AACTGTCCCAGACAGGGTCTTACACGT-AATCACATATCGATG
* * *
66247493 CCAAC-ATCCCAGA-TGTGGTCTTACACGAAATCACATATC
1 -CAACTGTCCCAGACAG-GGTCTTACACGTAATCACATATC
66247532 AAAATCCTAT
Statistics
Matches: 95, Mismatches: 17, Indels: 21
0.71 0.13 0.16
Matches are distributed among these distances:
40 25 0.26
41 6 0.06
42 7 0.07
43 32 0.34
44 24 0.25
45 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (43 bp):
CAACTGTCCCAGACAGGGTCTTACACGTAATCACATATCGATG
Found at i:66247513 original size:84 final size:83
Alignment explanation
Indices: 66247362--66247521 Score: 225
Period size: 84 Copynumber: 1.9 Consensus size: 83
66247352 AAGCTCGTAC
* * *
66247362 AATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATATCGATGACACTGTCCCAGATAGGG
1 AATGCCAACGTCCCAGACATGGTCTTACACGTAATCACAAATCGATGACACTATCCCAGATAGGG
66247427 TCTTACACGAACTCATTT
66 TCTTACACGAACTCATTT
* * *
66247445 AATGCTAATGTCCCAGACATGGTCTTACACGTAAATCACAAATCGATGCCAAC-ATCCCAGAT-G
1 AATGCCAACGTCCCAGACATGGTCTTACACGT-AATCACAAATCGATGAC-ACTATCCCAGATAG
66247508 TGGTCTTACACGAA
64 -GGTCTTACACGAA
66247522 ATCACATATC
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
83 30 0.44
84 36 0.53
85 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (83 bp):
AATGCCAACGTCCCAGACATGGTCTTACACGTAATCACAAATCGATGACACTATCCCAGATAGGG
TCTTACACGAACTCATTT
Found at i:66251996 original size:47 final size:48
Alignment explanation
Indices: 66251925--66252153 Score: 163
Period size: 47 Copynumber: 4.9 Consensus size: 48
66251915 GGGGTAAGGT
* * *
66251925 GCCGATGCCATGTTCTAGACATGGTCTTACACTGGCTCAT-AT-TTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-ATCATCTGCAA
* * * * **
66251972 GTCGATGCCATGTCCCATACATGGTCTTACATTGACTATCATCTGGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTGCAA
* *
66252020 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACGTCTTG-AG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAT-CATC-TGCAA
* * * * * *
66252066 GCTGATG-CATGACCCAAACAT-GTCTTACACTAGC-ACTCGTCT-CGAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TCATCTGC-AA
* * *
66252112 GCCAATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT
66252154 AATGTGGCTG
Statistics
Matches: 142, Mismatches: 29, Indels: 21
0.74 0.15 0.11
Matches are distributed among these distances:
45 2 0.01
46 57 0.40
47 60 0.42
48 23 0.16
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTGCAA
Found at i:66252073 original size:46 final size:45
Alignment explanation
Indices: 66252023--66252190 Score: 165
Period size: 46 Copynumber: 3.6 Consensus size: 45
66252013 TCTGGTAGCC
66252023 GATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTTGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCTTGAGGCT
* * * * * * *
66252069 GATGCATGACCCAAACATGTCTTACACTAGCACTCGTCTCGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-TTCGTCTTGAGGCT
* * * ** *
66252115 AATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCGTCTTGAGGCT
*
66252163 GATGCATGTTCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
66252191 AGCTCACAAT
Statistics
Matches: 95, Mismatches: 23, Indels: 8
0.75 0.18 0.06
Matches are distributed among these distances:
46 50 0.53
47 24 0.25
48 21 0.22
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCTTGAGGCT
Found at i:66271298 original size:22 final size:22
Alignment explanation
Indices: 66271272--66271315 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
66271262 GAAAATAATC
66271272 AAAATTAATCAAAATTAATTAT
1 AAAATTAATCAAAATTAATTAT
* *
66271294 AAAATTAATTAAAATTCATTAT
1 AAAATTAATCAAAATTAATTAT
66271316 GTTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAATTAATCAAAATTAATTAT
Found at i:66271314 original size:10 final size:10
Alignment explanation
Indices: 66271263--66271314 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
66271253 AAATCTGTTG
*
66271263 AAAA-TAATC
1 AAAATTAATT
*
66271272 AAAATTAATC
1 AAAATTAATT
66271282 AAAATTAATTAT
1 AAAATTAA-T-T
66271294 AAAATTAATT
1 AAAATTAATT
*
66271304 AAAATTCATT
1 AAAATTAATT
66271314 A
1 A
66271315 TGTTAATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
9 4 0.11
10 24 0.63
11 2 0.05
12 8 0.21
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTAATT
Found at i:66279885 original size:16 final size:16
Alignment explanation
Indices: 66279864--66279900 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
66279854 CGACAAATCA
*
66279864 CGAAATGCCAGAAAGC
1 CGAAATGCCAAAAAGC
66279880 CGAAATGCCAAAAAGC
1 CGAAATGCCAAAAAGC
66279896 CGAAA
1 CGAAA
66279901 GTTTGGCTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.49, C:0.24, G:0.22, T:0.05
Consensus pattern (16 bp):
CGAAATGCCAAAAAGC
Found at i:66280144 original size:28 final size:29
Alignment explanation
Indices: 66280104--66280159 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
66280094 ATTGCATGAC
66280104 TATGAATGTGA-TTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
66280132 TATGAATGTGATTTGGGCCTAATGGGCC
1 TATGAATGTGATTTGGGCCTAATGGGCC
66280160 TAATAGGCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.23, C:0.14, G:0.32, T:0.30
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATGGGCCA
Found at i:66284081 original size:40 final size:40
Alignment explanation
Indices: 66284036--66284227 Score: 226
Period size: 40 Copynumber: 4.8 Consensus size: 40
66284026 ATAACCACAA
* * *
66284036 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
66284076 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
66284116 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * *
66284156 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
66284196 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
66284228 CATTCAAATG
Statistics
Matches: 142, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 137 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:66293333 original size:22 final size:22
Alignment explanation
Indices: 66293308--66293355 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
66293298 TGTAGGGCTC
*
66293308 ACACACCCGTGTGGTCTAAGGG
1 ACACACCCGTGTGGTCCAAGGG
66293330 ACACACCCGTGTGGTCCAAGGG
1 ACACACCCGTGTGGTCCAAGGG
66293352 ACAC
1 ACAC
66293356 GTCCATAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.25, C:0.31, G:0.29, T:0.15
Consensus pattern (22 bp):
ACACACCCGTGTGGTCCAAGGG
Found at i:66297738 original size:42 final size:42
Alignment explanation
Indices: 66297671--66297790 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 42
66297661 AGGGTTACCC
* **
66297671 AGATTACGTGTAAGACCATATCTGGGATATGGCATCGATATG
1 AGATTACGTGTAAGACCATATCTGGGATATGGCATCAATACA
* * * *
66297713 AGACTT-CGTGTAAGACCAAAGCTGGGTTATTGGCGTCAATACA
1 AGA-TTACGTGTAAGACCATATCTGGGATA-TGGCATCAATACA
*
66297756 AGATTACATGTAAGACCATATCTGGGATATGGCAT
1 AGATTACGTGTAAGACCATATCTGGGATATGGCAT
66297791 TGGTACGGTA
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
42 30 0.48
43 33 0.52
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.28
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATATCTGGGATATGGCATCAATACA
Found at i:66300142 original size:54 final size:54
Alignment explanation
Indices: 66300078--66300509 Score: 209
Period size: 54 Copynumber: 7.9 Consensus size: 54
66300068 AATACTTTAG
*
66300078 TTTACTAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGA
1 TTTA-TAAAATTACCGAAATACCCTTAGTTTGTAAAATTACTGAAATACCCTCGA
* * * * *
66300133 TTTGTAAAATTACTGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCTCGA
1 TTTATAAAATTACCGAAATACCCTTAG-TTTGTAAAATTACTGAAA-TACCCTCGA
* * * *** * * * ** *
66300187 TTTACAGAATTACAGTTTTACCC-TCGATTTATAGAATTACT-ATTTTACCCTTGA
1 TTTATAAAATTACCGAAATACCCTTAG-TTTGTAAAATTACTGA-AATACCCTCGA
* * *** * ***
66300241 TTTATAGAATTACTGTTTTACCCTT-GATT-TACAGAATTACTGTTTTACCCTCGA
1 TTTATAAAATTACCGAAATACCCTTAGTTTGTA-A-AATTACTGAAATACCCTCGA
* ** ** *
66300295 TTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCC-CTA
1 TTTATAAAATTACCGAAATACCCTTAGTTTGTAAAATTACTGAAATACCCTCGA
* * * * * *
66300348 GTTTGTAAAATTATCAAAATACCCTTAGTTTGTGAAATTACCGAAATACCCTCAA
1 -TTTATAAAATTACCGAAATACCCTTAGTTTGTAAAATTACTGAAATACCCTCGA
* * * * * *
66300403 TTTGTAAAATTTCCAAAATACCCCT-GATT-TACAAAGTTA-TAGAAATACCCTTGA
1 TTTATAAAATTACCGAAATACCCTTAGTTTGTA-AAA-TTACT-GAAATACCCTCGA
* ** * * **
66300457 CTTTCTAAAAATTATAGAAATACCATTGGTTTACAAAATTACTGAAATACCCT
1 -TTTAT-AAAATTACCGAAATACCCTTAGTTTGTAAAATTACTGAAATACCCT
66300510 TAGTTTGTAG
Statistics
Matches: 294, Mismatches: 62, Indels: 41
0.74 0.16 0.10
Matches are distributed among these distances:
52 3 0.01
53 18 0.06
54 220 0.75
55 16 0.05
56 29 0.10
57 7 0.02
58 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (54 bp):
TTTATAAAATTACCGAAATACCCTTAGTTTGTAAAATTACTGAAATACCCTCGA
Found at i:66300159 original size:27 final size:27
Alignment explanation
Indices: 66300083--66300509 Score: 181
Period size: 27 Copynumber: 15.7 Consensus size: 27
66300073 TTTAGTTTAC
* *
66300083 TAAAATTACCGAAATACCCT-TAGTTTG
1 TAAAATTACTGAAATACCCTCGA-TTTG
*
66300110 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* *
66300137 TAAAATTACTGAAATACCTTCGACTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* *
66300164 TAAAATTAC-CAAAGTACCCTCGATTTA
1 TAAAATTACTGAAA-TACCCTCGATTTG
* * * *** *
66300191 CAGAATTACAGTTTTACCCTCGATTTA
1 TAAAATTACTGAAATACCCTCGATTTG
* ** * *
66300218 TAGAATTACT-ATTTTACCCTTGATTTA
1 TAAAATTACTGA-AATACCCTCGATTTG
* *** * *
66300245 TAGAATTACTGTTTTACCCTTGATTTA
1 TAAAATTACTGAAATACCCTCGATTTG
* * *** *
66300272 CAGAATTACTGTTTTACCCTCGATTTA
1 TAAAATTACTGAAATACCCTCGATTTG
* * *
66300299 CAAAATTACTAAAATACCCT-TAGTTTG
1 TAAAATTACTGAAATACCCTCGA-TTTG
** *
66300326 TAAAATTACCAAAATACCC-CTAGTTTG
1 TAAAATTACTGAAATACCCTCGA-TTTG
* *
66300353 TAAAATTA-TCAAAATACCCT-TAGTTTG
1 TAAAATTACT-GAAATACCCTCGA-TTTG
* * *
66300380 TGAAATTACCGAAATACCCTCAATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* ** *
66300407 TAAAATTTCCAAAATACCC-CTGATTTA
1 TAAAATTACTGAAATACCCTC-GATTTG
* * * *
66300434 CAAAGTTA-TAGAAATACCCTTGACTTTC
1 TAAAATTACT-GAAATACCCTCGA-TTTG
* * * *
66300462 TAAAAATTA-TAGAAATACCATTGGTTTA
1 T-AAAATTACT-GAAATACCCTCGATTTG
*
66300490 CAAAATTACTGAAATACCCT
1 TAAAATTACTGAAATACCCT
66300510 TAGTTTGTAG
Statistics
Matches: 327, Mismatches: 56, Indels: 34
0.78 0.13 0.08
Matches are distributed among these distances:
26 5 0.02
27 294 0.90
28 9 0.03
29 19 0.06
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGATTTG
Found at i:66300360 original size:81 final size:82
Alignment explanation
Indices: 66300124--66300344 Score: 241
Period size: 81 Copynumber: 2.7 Consensus size: 82
66300114 AATACTGAAA
* * * * * *
66300124 TACCCTCGATTTGTAAAATTACTGAAATA-CCTTCGACTTGTAAAATTACCAAAGTACCCTCGAT
1 TACCCTCGATTTATAAAATTACTAAAATACCCTTAGATTTGTAAAATTACCAAAATACCCTAGAT
*
66300188 TTACAGAATTACAGTTT
66 TTACAGAATTACTGTTT
* *** * * ***** *
66300205 TACCCTCGATTTATAGAATTACTATTTTACCCTT-GATTTATAGAATTACTGTTTTACCCTTGAT
1 TACCCTCGATTTATAAAATTACTAAAATACCCTTAGATTTGTAAAATTACCAAAATACCCTAGAT
66300269 TTACAGAATTACTGTTT
66 TTACAGAATTACTGTTT
*
66300286 TACCCTCGATTTACAAAATTACTAAAATACCCTTAG-TTTGTAAAATTACCAAAATACCC
1 TACCCTCGATTTATAAAATTACTAAAATACCCTTAGATTTGTAAAATTACCAAAATACCC
66300345 CTAGTTTGTA
Statistics
Matches: 110, Mismatches: 28, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
81 105 0.95
82 5 0.05
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.37
Consensus pattern (82 bp):
TACCCTCGATTTATAAAATTACTAAAATACCCTTAGATTTGTAAAATTACCAAAATACCCTAGAT
TTACAGAATTACTGTTT
Found at i:66300371 original size:81 final size:80
Alignment explanation
Indices: 66300286--66300536 Score: 188
Period size: 81 Copynumber: 3.1 Consensus size: 80
66300276 ATTACTGTTT
66300286 TACCCTCGA-TTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGT
1 TACCCT-GACTTT-CAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGT
66300350 TTGTAAAATTATCAAAA
64 TTGTAAAATTATCAAAA
* * ** ** * * * *
66300367 TACCCTTAGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTTCCAAAATACCCCT-GAT
1 TACCCTGACTTT-CAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTT
66300431 T-TACAAAGTTAT-AGAAA
65 TGTA-AAA-TTATCA-AAA
* * ** ** *
66300448 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTA
1 TACCC-TGACTTTC--AAAATTACTA-AAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTA
* * *
66300512 GTTTGTAGATTTACCAAAA
62 GTTTGTAAAATTATCAAAA
*
66300531 CACCCT
1 TACCCT
66300537 TGTAGGATGA
Statistics
Matches: 128, Mismatches: 31, Indels: 21
0.71 0.17 0.12
Matches are distributed among these distances:
79 2 0.02
80 8 0.06
81 62 0.48
82 6 0.05
83 43 0.34
84 5 0.04
85 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (80 bp):
TACCCTGACTTTCAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTT
GTAAAATTATCAAAA
Found at i:66300599 original size:27 final size:27
Alignment explanation
Indices: 66300556--66300629 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
66300546 AAATGACTAA
*
66300556 AATACCCCTATTA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
66300583 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
*
66300610 AATACCCCTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
66300630 TGATGAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 3 0.08
27 35 0.90
28 1 0.03
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:66301822 original size:25 final size:25
Alignment explanation
Indices: 66301793--66301840 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
66301783 TTATAATATG
* * *
66301793 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
66301818 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
66301841 GTTTATATAT
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:66301902 original size:20 final size:20
Alignment explanation
Indices: 66301877--66301947 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
66301867 ATTTTGATAA
*
66301877 ACATGATATGTAAGATATGC
1 ACATGATATGTATGATATGC
*
66301897 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
66301917 ACAGGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
66301937 ACATGAGATGT
1 ACATGATATGT
66301948 TCATAAATGC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.30
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:66302098 original size:25 final size:24
Alignment explanation
Indices: 66301994--66302185 Score: 259
Period size: 23 Copynumber: 8.0 Consensus size: 24
66301984 AGGAAGTGCA
*
66301994 AAAGGGCTTATGCCCCAGTTAT-C
1 AAAGGGCTTATGCCCCAGTTATAT
66302017 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
66302040 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
66302063 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
66302088 GAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
66302113 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
*
66302137 AAAGGGCTTTTGCCCCAGTTACTA-
1 AAAGGGCTTATGCCCCAGTTA-TAT
*
66302161 AAAGAGGC-TAGGCCTCCAGTTATAT
1 AAAG-GGCTTATGCC-CCAGTTATAT
66302186 GATAAAGCAG
Statistics
Matches: 156, Mismatches: 7, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
23 67 0.43
24 31 0.20
25 58 0.37
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:66302412 original size:31 final size:31
Alignment explanation
Indices: 66302377--66302440 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
66302367 TGTTTACAGT
* *
66302377 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
* **
66302408 AAAGGCTTTAGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
66302439 AA
1 AA
66302441 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:66315223 original size:34 final size:34
Alignment explanation
Indices: 66315180--66315294 Score: 140
Period size: 34 Copynumber: 3.4 Consensus size: 34
66315170 GCATGACTGC
*
66315180 TACTGATACTATGATAGGCTAAGGCCCTAATGCA
1 TACTGATACTATGATGGGCTAAGGCCCTAATGCA
* * *
66315214 TACTGATACTTTAATGGGCTAAGGCCATAATGCA
1 TACTGATACTATGATGGGCTAAGGCCCTAATGCA
* * * *
66315248 TACTGATATTGTGATGGGCTAGGGCCCTACTGCA
1 TACTGATACTATGATGGGCTAAGGCCCTAATGCA
*
66315282 TATTTGATACTAT
1 TA-CTGATACTAT
66315295 ACTGAGATGG
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
34 60 0.90
35 7 0.10
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (34 bp):
TACTGATACTATGATGGGCTAAGGCCCTAATGCA
Found at i:66317008 original size:30 final size:30
Alignment explanation
Indices: 66316974--66317034 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
66316964 TTCCCGAGCC
66316974 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
66317004 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
66317034 T
1 T
66317035 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:66329150 original size:47 final size:47
Alignment explanation
Indices: 66329087--66329215 Score: 150
Period size: 47 Copynumber: 2.7 Consensus size: 47
66329077 TGCGAATAAA
* * **** *
66329087 ACCTTGATTTGGCTACGGGCCATGATATATGTATTTTGGGAGGAGTT
1 ACCTTGATTTGGCTACGGGCCATGATATAGGTACTCCAAGAGAAGTT
* *
66329134 ACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAAGATAAGTT
1 ACCTTGATTTGGCTACGGGCCATGATATAGGTACTCCAAGAGAAGTT
* * *
66329181 ACCTTGATTTGGCTACGGGTCATGATGTAAGTACT
1 ACCTTGATTTGGCTACGGGCCATGATATAGGTACT
66329216 TACCCATTGT
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.33
Consensus pattern (47 bp):
ACCTTGATTTGGCTACGGGCCATGATATAGGTACTCCAAGAGAAGTT
Found at i:66335557 original size:29 final size:29
Alignment explanation
Indices: 66335488--66335588 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
66335478 TACCTATATC
* * *
66335488 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
66335516 T-GCCCATTAGGCCCAAATCAC-TTGTATA
1 TGGCCCATTAGGCCCAAATCACATT-TATA
*
66335544 TGGCCCATTTGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* *
66335573 TGGCTCGTTAGGCCCA
1 TGGCCCATTAGGCCCA
66335589 GTCATATTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
27 14 0.23
28 10 0.16
29 36 0.58
30 2 0.03
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:66337119 original size:16 final size:16
Alignment explanation
Indices: 66337094--66337138 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
66337084 AAGTTCGGGA
*
66337094 TTTCGAGATTTTTGGG
1 TTTCGGGATTTTTGGG
66337110 TTTCGGGATTTTTGGG
1 TTTCGGGATTTTTGGG
**
66337126 TTTATGGATTTTT
1 TTTCGGGATTTTT
66337139 AGGGCGTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.11, C:0.04, G:0.29, T:0.56
Consensus pattern (16 bp):
TTTCGGGATTTTTGGG
Found at i:66342578 original size:4 final size:4
Alignment explanation
Indices: 66342569--66342598 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
66342559 GAGATCATTC
*
66342569 TACA TACA TACA TACA TACA TATA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TA
66342599 TATATATGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (4 bp):
TACA
Found at i:66342603 original size:12 final size:12
Alignment explanation
Indices: 66342569--66342605 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
66342559 GAGATCATTC
*
66342569 TACATACATACA
1 TACATACATATA
66342581 TACATACATATA
1 TACATACATATA
*
66342593 TACATATATATA
1 TACATACATATA
66342605 T
1 T
66342606 GCTGAACCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (12 bp):
TACATACATATA
Found at i:66342677 original size:139 final size:135
Alignment explanation
Indices: 66342497--66342774 Score: 520
Period size: 139 Copynumber: 2.0 Consensus size: 135
66342487 CTACAATTAT
66342497 GTACTTGTGACCAAGGAAATGTTACATTCAGTCCCTTAATCACTTAACACAATTTAATGTGTGAG
1 GTACTTGTGACCAAGGAAATGTTACATTCAGTCCCTTAATCACTTAACACAATTTAATGTGTGAG
66342562 ATCATTCTACATACATACATACATACATATATACATATATATATGCTGAACCTCAGAAAAACTAG
66 ATCA-T-T-C-TACATACATACATACATATATACATATATATATGCTGAACCTCAGAAAAACTAG
66342627 AGAAAGGCA
127 AGAAAGGCA
66342636 GTACTTGTGACCAAGGAAATGTTACATTCAGTCCCTTAATCACTTAACACAATTTAATGTGTGAG
1 GTACTTGTGACCAAGGAAATGTTACATTCAGTCCCTTAATCACTTAACACAATTTAATGTGTGAG
66342701 ATCATTCTACATACATACATACATATATACATATATATATGCTGAACCTCAGAAAAACTAGAGAA
66 ATCATTCTACATACATACATACATATATACATATATATATGCTGAACCTCAGAAAAACTAGAGAA
66342766 AGGCA
131 AGGCA
66342771 GTAC
1 GTAC
66342775 AAAGATACAA
Statistics
Matches: 139, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
135 67 0.48
136 1 0.01
137 1 0.01
138 1 0.01
139 69 0.50
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (135 bp):
GTACTTGTGACCAAGGAAATGTTACATTCAGTCCCTTAATCACTTAACACAATTTAATGTGTGAG
ATCATTCTACATACATACATACATATATACATATATATATGCTGAACCTCAGAAAAACTAGAGAA
AGGCA
Found at i:66343570 original size:17 final size:19
Alignment explanation
Indices: 66343548--66343585 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
66343538 GGTCAGCTTA
66343548 CATGTTTAAC-T-CATATG
1 CATGTTTAACTTACATATG
66343565 CATGTTTAACTTACATATG
1 CATGTTTAACTTACATATG
66343584 CA
1 CA
66343586 ATGATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.53
18 1 0.05
19 8 0.42
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (19 bp):
CATGTTTAACTTACATATG
Found at i:66345573 original size:16 final size:16
Alignment explanation
Indices: 66345552--66345582 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
66345542 GGATTATTAT
66345552 AAAAAATAATTTAATA
1 AAAAAATAATTTAATA
66345568 AAAAAATAATTTAAT
1 AAAAAATAATTTAAT
66345583 CATATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAAAATAATTTAATA
Found at i:66345648 original size:53 final size:53
Alignment explanation
Indices: 66345524--66345634 Score: 143
Period size: 53 Copynumber: 2.1 Consensus size: 53
66345514 TTATTATTAT
* * **
66345524 TATAATTAAATTTTAATAGGATTATTATAAAAAATAATTTAATAAAAAAATAA
1 TATAATCATATTTTAATATAATTATTATAAAAAATAATTTAATAAAAAAATAA
* *
66345577 TTTAATCATATTTTAATATAATTATTATTAAATAA-AATTTAATAAAAATAATAA
1 TATAATCATATTTTAATATAATTATTA-TAAAAAATAATTTAATAAAAA-AATAA
66345631 TATA
1 TATA
66345635 CAATTTAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
53 35 0.71
54 14 0.29
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (53 bp):
TATAATCATATTTTAATATAATTATTATAAAAAATAATTTAATAAAAAAATAA
Found at i:66357357 original size:40 final size:40
Alignment explanation
Indices: 66357313--66357462 Score: 108
Period size: 40 Copynumber: 3.8 Consensus size: 40
66357303 ACACTAGCCT
*
66357313 GAAGCCTGCTAGGCACTAAGC-CTGATA-ATTACACCGACAC
1 GAAGCCTGCTAGGCACTAAGCTC-GATAGA-TACACCAACAC
* * **
66357353 GAAGCTTGCTAGGCATTAAGCTCGATAGATACATTAACAC
1 GAAGCCTGCTAGGCACTAAGCTCGATAGATACACCAACAC
* * ** * * * * * *
66357393 GAACCCTGCTAGGCATTGGGCCCAATAGAAACACTAGCAT
1 GAAGCCTGCTAGGCACTAAGCTCGATAGATACACCAACAC
*
66357433 GAAGCCTGCTAGGCAC-AAGGCCCGATAGAT
1 GAAGCCTGCTAGGCACTAA-GCTCGATAGAT
66357463 TACAGTACAC
Statistics
Matches: 86, Mismatches: 21, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
40 84 0.98
41 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.19
Consensus pattern (40 bp):
GAAGCCTGCTAGGCACTAAGCTCGATAGATACACCAACAC
Found at i:66365332 original size:47 final size:47
Alignment explanation
Indices: 66365278--66365682 Score: 675
Period size: 47 Copynumber: 8.6 Consensus size: 47
66365268 TATTTGAATA
66365278 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* **
66365325 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCTAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
66365372 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
66365421 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
66365468 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
66365515 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
66365562 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
66365609 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
66365656 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
66365683 TCCCGAAGGG
Statistics
Matches: 340, Mismatches: 16, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
47 296 0.87
49 44 0.13
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:66368614 original size:47 final size:44
Alignment explanation
Indices: 66368564--66368712 Score: 147
Period size: 46 Copynumber: 3.2 Consensus size: 44
66368554 CCTAAACACG
66368564 GTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAGACAT
1 GTCTTACACTGGCT-ATATCTCAAGTCGATG-CATGTCCCAGACAT
* * *
66368610 GGTCTTACACTGACTATCATTTCGTAA-CCGATGCATGTCCCAGACAT
1 -GTCTTACACTGGCTAT-ATCTC--AAGTCGATGCATGTCCCAGACAT
* * * *
66368657 GTCTTACATTGGCTTACATCTTGAGGTCGATGCATGTCCCAGACAT
1 GTCTTACACTGGC-TATATC-TCAAGTCGATGCATGTCCCAGACAT
*
66368703 GCCTTACACT
1 GTCTTACACT
66368713 AGCTTACGAA
Statistics
Matches: 84, Mismatches: 12, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
45 1 0.01
46 42 0.50
47 34 0.40
48 5 0.06
49 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.30
Consensus pattern (44 bp):
GTCTTACACTGGCTATATCTCAAGTCGATGCATGTCCCAGACAT
Found at i:66368789 original size:31 final size:31
Alignment explanation
Indices: 66368754--66368816 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
66368744 AGTATCCAAT
*
66368754 TTACCTCCTAAGGTTCCAACGGAATTTTTAC
1 TTACCTCCTAAGGTTCCAACGAAATTTTTAC
66368785 TTACCTCCTAAGGTTCCAACGAAATTTTTAC
1 TTACCTCCTAAGGTTCCAACGAAATTTTTAC
66368816 T
1 T
66368817 ATCTCATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (31 bp):
TTACCTCCTAAGGTTCCAACGAAATTTTTAC
Found at i:66372397 original size:21 final size:21
Alignment explanation
Indices: 66372351--66372399 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
66372341 TATTTCTTGC
* *
66372351 ATTTATTACGTGTGTTCAATT
1 ATTTCTTACGCGTGTTCAATT
*
66372372 ATTTCTTACGCGTGTTCCATT
1 ATTTCTTACGCGTGTTCAATT
66372393 ATTTCTT
1 ATTTCTT
66372400 GCATATGTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.18, C:0.16, G:0.12, T:0.53
Consensus pattern (21 bp):
ATTTCTTACGCGTGTTCAATT
Found at i:66376797 original size:76 final size:76
Alignment explanation
Indices: 66376707--66376863 Score: 305
Period size: 76 Copynumber: 2.1 Consensus size: 76
66376697 GCTGTTTAGG
66376707 TGGAAAAAATTAAGAGTTGTGTTCATTTGGTCTGCTACGTGGTCAAATGCAATTCGATCCTCAGA
1 TGGAAAAAATTAAGAGTTGTGTTCATTTGGTCTGCTACGTGGTCAAATGCAATTCGATCCTCAGA
66376772 GACTATTGTTC
66 GACTATTGTTC
66376783 TGGAAAAAATTAAGAGTTGTGTTCATTTGGTCTGCTACGTGGTCAAATGCAATTCGATCCTCAGA
1 TGGAAAAAATTAAGAGTTGTGTTCATTTGGTCTGCTACGTGGTCAAATGCAATTCGATCCTCAGA
66376848 GACTATTGTTC
66 GACTATTGTTC
*
66376859 CGGAA
1 TGGAA
66376864 CGGGGGCTTA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 80 1.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (76 bp):
TGGAAAAAATTAAGAGTTGTGTTCATTTGGTCTGCTACGTGGTCAAATGCAATTCGATCCTCAGA
GACTATTGTTC
Found at i:66379851 original size:47 final size:47
Alignment explanation
Indices: 66379798--66379982 Score: 280
Period size: 47 Copynumber: 3.9 Consensus size: 47
66379788 TTAGGATTTT
* * *
66379798 AATGTGATGAATATGAACATGCGTATGTGTGATAAGGCCGAATGACC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGACC
* * * *
66379845 AATGTGATGAATGTGAACATGCGTATGTGCGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGACC
*
66379892 AATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGACC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGACC
* *
66379939 AATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATG
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATG
66379983 GCTAATGCGA
Statistics
Matches: 128, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 128 1.00
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGACC
Found at i:66380099 original size:46 final size:46
Alignment explanation
Indices: 66379963--66380099 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
66379953 GAACATGTAT
* * * * *
66379963 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGTTAG
1 ATATGTGGTAAAGCCAAATGGCTAATGTGAAATGTGTATGAGATGG
* * *
66380009 ATATGAGATAAAGCCAAATGGCTAATGTGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGTGAAATGTGTATGAGATGG
* *
66380055 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGTGAAATGTGTATGAGATG
66380100 TGTATATATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.35, C:0.08, G:0.30, T:0.27
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGTGAAATGTGTATGAGATGG
Found at i:66383558 original size:18 final size:17
Alignment explanation
Indices: 66383537--66383570 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
66383527 ACATGTGTTA
66383537 AAATAAAATTCATATATC
1 AAATAAAATT-ATATATC
*
66383555 AAATTAAATTATATAT
1 AAATAAAATTATATAT
66383571 ATTTACCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATAAAATTATATATC
Found at i:66383606 original size:5 final size:5
Alignment explanation
Indices: 66383596--66383660 Score: 130
Period size: 5 Copynumber: 13.0 Consensus size: 5
66383586 AAGTAAATGT
66383596 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
66383646 TATTA TATTA TATTA
1 TATTA TATTA TATTA
66383661 GTTTAATAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 60 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:66384498 original size:30 final size:30
Alignment explanation
Indices: 66384464--66384520 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
66384454 TATAAAACTT
66384464 ATTTTATTATTATTTTAAAGGCATTTGTTA
1 ATTTTATTATTATTTTAAAGGCATTTGTTA
* *
66384494 ATTTTTTTATTATTTTAAAGGTATTTG
1 ATTTTATTATTATTTTAAAGGCATTTG
66384521 CTTATTAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.60
Consensus pattern (30 bp):
ATTTTATTATTATTTTAAAGGCATTTGTTA
Found at i:66386687 original size:19 final size:20
Alignment explanation
Indices: 66386650--66386687 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
66386640 ATAGGGACAA
*
66386650 TATGATTAAATTATGATGTG
1 TATGATTAAATGATGATGTG
*
66386670 TATG-TTAAATGATTATGT
1 TATGATTAAATGATGATGT
66386688 AAATGTTCGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (20 bp):
TATGATTAAATGATGATGTG
Found at i:66392582 original size:19 final size:20
Alignment explanation
Indices: 66392558--66392595 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
66392548 TAGTCTTAAA
*
66392558 ATAAAATAA-AAGTAAAAAC
1 ATAAAATAATAAATAAAAAC
66392577 ATAAAATAATAAATAAAAA
1 ATAAAATAATAAATAAAAA
66392596 TTTTTAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (20 bp):
ATAAAATAATAAATAAAAAC
Found at i:66401331 original size:46 final size:46
Alignment explanation
Indices: 66401281--66401456 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
66401271 TGGTTGAGCA
66401281 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
66401327 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
66401372 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
66401420 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66401457 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:66401437 original size:93 final size:93
Alignment explanation
Indices: 66401278--66401449 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
66401268 GGATGGTTGA
* * *
66401278 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
66401343 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
66401371 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
66401436 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
66401450 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:66408912 original size:46 final size:46
Alignment explanation
Indices: 66408862--66409037 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
66408852 TGGTTGAGCA
66408862 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
66408908 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
66408953 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
66409001 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66409038 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:66409018 original size:93 final size:93
Alignment explanation
Indices: 66408859--66409030 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
66408849 GGATGGTTGA
* *
66408859 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
66408924 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
66408952 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
66409017 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
66409031 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:66412332 original size:46 final size:45
Alignment explanation
Indices: 66412219--66412385 Score: 160
Period size: 46 Copynumber: 3.6 Consensus size: 45
66412209 AAGCTGACAC
* * * **
66412219 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-T-T-TCTCTCAATTCCGATG
* *
66412267 CATGTCCCAAACATTTCTTACACTAGCTTTCGTCTCAATTCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTTC-TCTCAATTCCGATG
*
66412313 CATGTCCCAGACATGTCTTACACTGGC--TCTCAT-AATGTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTTCTC-TCAAT-T--CCGATG
*
66412359 CATGTCCCAGACATATCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
66412386 ACACATATCA
Statistics
Matches: 102, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
43 5 0.05
44 4 0.04
45 1 0.01
46 67 0.66
47 1 0.01
48 24 0.24
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTTTCTCTCAATTCCGATG
Found at i:66415364 original size:41 final size:40
Alignment explanation
Indices: 66415308--66415412 Score: 147
Period size: 44 Copynumber: 2.5 Consensus size: 40
66415298 TTTTATCTTA
* *
66415308 GAAAAAATAATTTAAAAAGAGAAGATAATCTTGGGTTGTT
1 GAAAAAACAATTTAAAAAGAGAAGATAATCTTGGATTGTT
66415348 GAAAAAAACAATTTAAAAAGAGGAGAAGATAATCTTGGATTGTT
1 G-AAAAAACAATTT-AAAA-A-GAGAAGATAATCTTGGATTGTT
*
66415392 GAAAAAAGAATTTAAAAAGAG
1 GAAAAAACAATTTAAAAAGAG
66415413 CAGAAGATAA
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
40 4 0.07
41 12 0.21
42 8 0.14
43 12 0.21
44 22 0.38
ACGTcount: A:0.52, C:0.03, G:0.20, T:0.25
Consensus pattern (40 bp):
GAAAAAACAATTTAAAAAGAGAAGATAATCTTGGATTGTT
Found at i:66415434 original size:43 final size:42
Alignment explanation
Indices: 66415308--66415434 Score: 168
Period size: 43 Copynumber: 3.0 Consensus size: 42
66415298 TTTTATCTTA
*
66415308 GAAAAAATAATTT-AAAA-AGAGAAGATAATCTTGGGTTGTT
1 GAAAAAACAATTTAAAAAGAGAGAAGATAATCTTGGGTTGTT
*
66415348 GAAAAAAACAATTTAAAAAGAGGAGAAGATAATCTTGGATTGTT
1 G-AAAAAACAATTTAAAAAGA-GAGAAGATAATCTTGGGTTGTT
* * *
66415392 GAAAAAAGAATTTAAAAAGAGCAGAAGATAAACATGGGTTGTT
1 GAAAAAACAATTTAAAAAGAG-AGAAGATAATCTTGGGTTGTT
66415435 TTTTTTACCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
40 1 0.01
41 11 0.14
42 5 0.07
43 37 0.49
44 22 0.29
ACGTcount: A:0.50, C:0.04, G:0.21, T:0.25
Consensus pattern (42 bp):
GAAAAAACAATTTAAAAAGAGAGAAGATAATCTTGGGTTGTT
Found at i:66423810 original size:40 final size:40
Alignment explanation
Indices: 66423726--66423833 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
66423716 TGAGTGATAT
* * * * *
66423726 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAC
66423766 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTATAC
* * * *
66423806 CCGGGTTAAGACCCAAAGGCAATTGTGC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC
66423834 TTGTGGTTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 56 0.97
41 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAC
Found at i:66430090 original size:30 final size:30
Alignment explanation
Indices: 66430056--66430116 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
66430046 CATTTAATAC
* *
66430056 AAACTTTAGAAAAATTACACTTTTGCCCCT
1 AAACTTTAGAAAAACTACACTTTCGCCCCT
* * *
66430086 AAACTTTTGCATAACTACACTTTCGCCCCT
1 AAACTTTAGAAAAACTACACTTTCGCCCCT
66430116 A
1 A
66430117 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.33
Consensus pattern (30 bp):
AAACTTTAGAAAAACTACACTTTCGCCCCT
Found at i:66431817 original size:682 final size:680
Alignment explanation
Indices: 66430493--66431824 Score: 2344
Period size: 682 Copynumber: 2.0 Consensus size: 680
66430483 TGTGGGATCG
**
66430493 TGTAACAGCCCAATTTTAGCTTAAATCAGAATAGTGGTTTTGGAACCACAAATATGAGATCAAAA
1 TGTAACAGCCCAATTTTAGCTTAAATCAGAATAGTGGTTTCAGAACCACAAATATGAGATCAAAA
* *
66430558 AATTATTTTAATATTATTTTTTGTGTTTACAGCATGTGTATATATATGTGTAAAAATTTCGTGAG
66 AATTATTTTAATATTATTTTTGGTGTTTACAGCATGTGAATATATATGTGTAAAAATTTCGTGAG
* * *
66430623 CTAATTTTATCGTTTAATAGCTCAATTTGAGAAAAAATACTTAATAGCGTAAAATGCAAAAGTTG
131 CTAATTTTATCGTTTAATAGCTCAATTTGAAAAAAAAAACATAATAGCGTAAAATGCAAAAGTTG
66430688 CATTCTACTTGTTTAAAGTGCTTAATTGCCATGTCTTATTAAATTAAAGGTCCTTATGTTGTAAT
196 CATTCTACTTGTTTAAAGTGCTTAATTGCCATGTCTTATTAAATTAAAGGTCCTTATGTTGTAAT
*
66430753 TAGACCATTGATAGTGGAATTTGACATAAATGGGCATTACATGGATGATATTAAATGTTTTATAT
261 TAGACCATTGATAGTGGAATTTGACATAAATGGGCATTAAATGGATGATATTAAATGTTTTATAT
* *
66430818 TAAGGTTAAAATGGTAATTAGGTTATTAAGTTAATATTAAATAAAAAAAGTTAAAATAAGCCCAA
326 TAAGGTTAAAATGGTAATTAGGCTATTAAGTTAATAATAAATAAAAAAAGTTAAAATAAGCCCAA
*
66430883 ATTATCATCATCTTCACCGAAAATAAAAAGAAAAAGAAGCTTAGACTATGTTTTAGGGTTCTACC
391 ATTATCATCATCTTCACCGAAAATAAAAAGAAAAAGAAGCTTAGAATATGTTTTAGGGTTCTACC
* *
66430948 CTTTGAAGCTTTGATTGAGGTATGTTTCGAGCTCGGTTTTTGATGATTTTTATGTTTTTGTGATC
456 CTTTGAAGCTTTGATTGAGGTATGTTTCGAGCTCGATTTTTGATGATTTTTATGTTTTTGTCATC
66431013 GTTACTTTGAGTACTAGCTAGCCCGTGCCCTAATTTTTGAATTGGTTGATAAATTTGTGAGCTTC
521 GTTACTTTGAGTACTAGCTAGCCCGTGCCCTAATTTTTGAATTGGTTGATAAATTTGTGAGCTTC
* *
66431078 CATTGATGATAGCTTGATTTTTTTGAATGTTGATGATGGAGAATGAATAATTGTTGATAGATTTT
586 CATTGATGATAGCTTGATTTTTTTGAATGTTGATGATGGAGAATGAAGAACTGTTGATAGATTTT
66431143 CAGGGACGAATATCCCTAAGGGGGAAGAGT
651 CAGGGACGAATATCCCTAAGGGGGAAGAGT
* * * *
66431173 TGTAATAGCCCAGTTTTAGCTTAAATTAGAATAGTGGTTTCAGAATCACAAATACT-AGATCAAA
1 TGTAACAGCCCAATTTTAGCTTAAATCAGAATAGTGGTTTCAGAACCACAAATA-TGAGATCAAA
* *
66431237 AAATTATTTTAATATTATTTTTGGTGTTTGCAGCATGTGAATATATATGTGTGAAAATTTCGTGA
65 AAATTATTTTAATATTATTTTTGGTGTTTACAGCATGTGAATATATATGTGTAAAAATTTCGTGA
*
66431302 GCTAATTTTATCGTTTAATAGCTCAATTTTAGAAAAAAAAAACATAATCGCGTAAAATGCAAAAG
130 GCTAATTTTATCGTTTAATAGCTCAA-TTT-GAAAAAAAAAACATAATAGCGTAAAATGCAAAAG
*
66431367 TTGCATTCTACTTGTTTAAAGTGCTTAATTGCCATGTCTTATTAAATTAAAGTTCCTTATGTTGT
193 TTGCATTCTACTTGTTTAAAGTGCTTAATTGCCATGTCTTATTAAATTAAAGGTCCTTATGTTGT
66431432 AATTAGACCATTGATAGTGGAATTTGACATAAATGGGCATTAAATGGATGATATTAAATGTTTTA
258 AATTAGACCATTGATAGTGGAATTTGACATAAATGGGCATTAAATGGATGATATTAAATGTTTTA
*
66431497 TATTAAGGTTAAAATGGTAATTAGGCTATTAAGTTAATAATAAATAAATAAAGTTAAAATAAGCC
323 TATTAAGGTTAAAATGGTAATTAGGCTATTAAGTTAATAATAAATAAAAAAAGTTAAAATAAGCC
* *
66431562 TAAATTATCATCATCTTCACTGAAAATAAAAAGAAAAAGAAGCTTAGAATATGTTTTAGGGTT-T
388 CAAATTATCATCATCTTCACCGAAAATAAAAAGAAAAAGAAGCTTAGAATATGTTTTAGGGTTCT
*
66431626 GGCCCTTTGAAGCTTTGATTGAGGTATGTTTCGAGCTCGATTTTTGATGATTTTTATGTTTTTGT
453 -ACCCTTTGAAGCTTTGATTGAGGTATGTTTCGAGCTCGATTTTTGATGATTTTTATGTTTTTGT
*
66431691 CATCGTTGCTTTGAGTACTAGCTAGCCCGTGCCCTAATTTTTGAATTGGTTGATAAATTTGTGAG
517 CATCGTTACTTTGAGTACTAGCTAGCCCGTGCCCTAATTTTTGAATTGGTTGATAAATTTGTGAG
* *
66431756 TTTCCATTGATGATAGCTTGATTTTTTTGAATGTTGATGATGGAGGATGAAGAACTGTTGATAGA
582 CTTCCATTGATGATAGCTTGATTTTTTTGAATGTTGATGATGGAGAATGAAGAACTGTTGATAGA
66431821 TTTT
647 TTTT
66431825 AATGTTTTGT
Statistics
Matches: 618, Mismatches: 30, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
680 143 0.23
681 5 0.01
682 470 0.76
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (680 bp):
TGTAACAGCCCAATTTTAGCTTAAATCAGAATAGTGGTTTCAGAACCACAAATATGAGATCAAAA
AATTATTTTAATATTATTTTTGGTGTTTACAGCATGTGAATATATATGTGTAAAAATTTCGTGAG
CTAATTTTATCGTTTAATAGCTCAATTTGAAAAAAAAAACATAATAGCGTAAAATGCAAAAGTTG
CATTCTACTTGTTTAAAGTGCTTAATTGCCATGTCTTATTAAATTAAAGGTCCTTATGTTGTAAT
TAGACCATTGATAGTGGAATTTGACATAAATGGGCATTAAATGGATGATATTAAATGTTTTATAT
TAAGGTTAAAATGGTAATTAGGCTATTAAGTTAATAATAAATAAAAAAAGTTAAAATAAGCCCAA
ATTATCATCATCTTCACCGAAAATAAAAAGAAAAAGAAGCTTAGAATATGTTTTAGGGTTCTACC
CTTTGAAGCTTTGATTGAGGTATGTTTCGAGCTCGATTTTTGATGATTTTTATGTTTTTGTCATC
GTTACTTTGAGTACTAGCTAGCCCGTGCCCTAATTTTTGAATTGGTTGATAAATTTGTGAGCTTC
CATTGATGATAGCTTGATTTTTTTGAATGTTGATGATGGAGAATGAAGAACTGTTGATAGATTTT
CAGGGACGAATATCCCTAAGGGGGAAGAGT
Found at i:66465903 original size:20 final size:20
Alignment explanation
Indices: 66465878--66465922 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
66465868 AGGGAATAAA
* *
66465878 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTATAAAATTTG
*
66465898 ATGAAAAATTATAAAATTTT
1 ATGAAAAATTATAAAATTTG
66465918 ATGAA
1 ATGAA
66465923 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTATAAAATTTG
Found at i:66471580 original size:40 final size:39
Alignment explanation
Indices: 66471530--66471743 Score: 221
Period size: 40 Copynumber: 5.4 Consensus size: 39
66471520 CTCGCACAAG
* * * *
66471530 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGA-ATTGTAACTAGCACAAAT
* * * *** *
66471570 GCCTTTGGGTCTTAGCCCGTATATAACAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGA-ATTGTAACTAGCACAAAT
* *
66471610 GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACCAAT
1 GCCTTCGGGACTTAGCCCGGAATT-GTAACTAGCACAAAT
*
66471650 GCCTTCGGGACTTAGCCCGTAATTTGTAACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAA-TTGTAACTAGCACAAAT
* * *
66471690 GCCTTCGGGACTTAGCCCGGAATTAATCACTAGCACACAT
1 GCCTTCGGGACTTAGCCCGGAATT-GTAACTAGCACAAAT
*
66471730 GTCTTCGGGACTTA
1 GCCTTCGGGACTTA
66471744 ACCCCGTTAG
Statistics
Matches: 148, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
39 4 0.03
40 142 0.96
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGACTTAGCCCGGAATTGTAACTAGCACAAAT
Found at i:66471651 original size:80 final size:80
Alignment explanation
Indices: 66471494--66471743 Score: 274
Period size: 80 Copynumber: 3.1 Consensus size: 80
66471484 ACCCAAGTAT
* * * * * *
66471494 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGG-ATATGG
1 CTTCGGGACTTAGCCCGTATATAACAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAG
* *
66471556 TCACTAGCATAAATGC
65 TAACTAGCACAAATGC
* *
66471572 CTTTGGGTCTTAGCCCGTATATAACAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
1 CTTCGGGACTTAGCCCGTATATAACAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
66471637 AACTCGCACCAATGC
66 AACTAGCACAAATGC
*** * *
66471652 CTTCGGGACTTAGCCCGTA-ATTTGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAA
1 CTTCGGGACTTAGCCCGTATA-TAACAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
* * *
66471716 TCACTAGCACACATGT
65 TAACTAGCACAAATGC
66471732 CTTCGGGACTTA
1 CTTCGGGACTTA
66471744 ACCCCGTTAG
Statistics
Matches: 144, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
78 10 0.07
79 19 0.13
80 113 0.78
81 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGTATATAACAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
AACTAGCACAAATGC
Found at i:66471705 original size:120 final size:119
Alignment explanation
Indices: 66471519--66471743 Score: 285
Period size: 120 Copynumber: 1.9 Consensus size: 119
66471509 GGATATAACC
* * * * * *
66471519 ACTCGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGCCTTTGGGTCTTA
1 ACTCGCACAAGGCCTTCGGGACTTAGCCCGAATATGGTAACTAGCACAAATGCCTTCGGGACTTA
* *
66471584 GCCC-GTATATAA-CAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
66 GCCCGGAAT-TAATC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
66471638 ACTCGCACCAATGCCTTCGGGACTTAGCCCGTAAT-TTGTAACTAGCACAAATGCCTTCGGGACT
1 ACTCGCA-CAAGGCCTTCGGGACTTAGCCCG-AATATGGTAACTAGCACAAATGCCTTCGGGACT
* *
66471702 TAGCCCGGAATTAATCACTAGCACACATGTCTTCGGGACTTA
64 TAGCCCGGAATTAATCACTAGCACAAATGCCTTCGGGACTTA
66471744 ACCCCGTTAG
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
119 7 0.08
120 77 0.86
121 6 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
ACTCGCACAAGGCCTTCGGGACTTAGCCCGAATATGGTAACTAGCACAAATGCCTTCGGGACTTA
GCCCGGAATTAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:66479304 original size:34 final size:34
Alignment explanation
Indices: 66479258--66479347 Score: 110
Period size: 34 Copynumber: 2.6 Consensus size: 34
66479248 TTGAATAGTT
* **
66479258 TGGGCCTAAGCCCATATCAGTCGCAATATCAATG
1 TGGGCCTTAGCCCATATCAGTAACAATATCAATG
*
66479292 TGGGCCTTAGCCCA-ATACAGTAACAATATCAGTG
1 TGGGCCTTAGCCCATAT-CAGTAACAATATCAATG
* *
66479326 TGGGCCTTAGCCGATTTCAGTA
1 TGGGCCTTAGCCCATATCAGTA
66479348 CGGTATCCAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
33 2 0.04
34 45 0.94
35 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (34 bp):
TGGGCCTTAGCCCATATCAGTAACAATATCAATG
Found at i:66479665 original size:26 final size:26
Alignment explanation
Indices: 66479629--66479690 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
66479619 CATATATCAC
*
66479629 ATAGGGGTATTTTCGTTATTTACCTT
1 ATAGGGGTATTTTCGTTATTTACCTA
66479655 ATAGGGGTATTTTCGTTATTTACCTA
1 ATAGGGGTATTTTCGTTATTTACCTA
66479681 ATAGGGGTAT
1 ATAGGGGTAT
66479691 AATAGTCATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.23, C:0.10, G:0.23, T:0.45
Consensus pattern (26 bp):
ATAGGGGTATTTTCGTTATTTACCTA
Found at i:66484310 original size:21 final size:20
Alignment explanation
Indices: 66484280--66484319 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
66484270 TTTTGAAATA
*
66484280 GGGCACACGCCTGTGTGGAT
1 GGGCACACGCCCGTGTGGAT
66484300 GGGCAGCACGCCCGTGTGGA
1 GGGCA-CACGCCCGTGTGGA
66484320 ATTTGAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.15, C:0.28, G:0.42, T:0.15
Consensus pattern (20 bp):
GGGCACACGCCCGTGTGGAT
Found at i:66485570 original size:48 final size:47
Alignment explanation
Indices: 66485454--66485574 Score: 156
Period size: 47 Copynumber: 2.6 Consensus size: 47
66485444 GTGTAATGCT
* *
66485454 GACGCCATGTCCCAGACATGGTCTTACATTAGCTTATCCATCAAGTC
1 GACGCCATGTCCCAGACATGGTCTTACATTAGCTTATCAATCAAGCC
* * *
66485501 GATGCCATGTCCTAGACATGGTCTTACATTA-C-TATCAAAATCGAGGCC
1 GACGCCATGTCCCAGACATGGTCTTACATTAGCTTATC--AATC-AAGCC
66485549 GACGCCATGTCCCAGACATGGTCTTA
1 GACGCCATGTCCCAGACATGGTCTTA
66485575 AACTAGCCCT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
45 4 0.06
46 1 0.02
47 32 0.50
48 27 0.42
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (47 bp):
GACGCCATGTCCCAGACATGGTCTTACATTAGCTTATCAATCAAGCC
Found at i:66490709 original size:21 final size:20
Alignment explanation
Indices: 66490680--66490719 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
66490670 CTTTGAAACA
66490680 GGGCACACGCCCGTGTGGAT
1 GGGCACACGCCCGTGTGGAT
*
66490700 GGGCAACACGCCTGTGTGGA
1 GGGC-ACACGCCCGTGTGGA
66490720 ACTTGAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.28, G:0.40, T:0.15
Consensus pattern (20 bp):
GGGCACACGCCCGTGTGGAT
Found at i:66492037 original size:46 final size:44
Alignment explanation
Indices: 66491951--66492070 Score: 152
Period size: 46 Copynumber: 2.6 Consensus size: 44
66491941 ACATATCTGT
* *
66491951 GCCGATGCTACGTCCCAGACATGGTCTTACACTGACACATCTCGTA-
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTGACACATCTC-AAG
* *
66491997 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATCTCAAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCAAG
66492043 GCCGATGCATGTCCCAGACATGTCTTAC
1 GCCGATGCATGTCCCAGACATGTCTTAC
66492071 GCTATCACAC
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
44 12 0.18
45 12 0.18
46 42 0.64
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACACATCTCAAG
Found at i:66493285 original size:24 final size:23
Alignment explanation
Indices: 66493252--66493310 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
66493242 ACAGATCCAT
*
66493252 TGAAGAAGGTCGAAAAGGATGTAAA
1 TGAA-AAGGTC-AAAAGGATATAAA
* *
66493277 TGAAAAGGTCAAAATGATATCAA
1 TGAAAAGGTCAAAAGGATATAAA
*
66493300 CGAAAAGGTCA
1 TGAAAAGGTCA
66493311 GTATCTCATC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 20 0.67
24 6 0.20
25 4 0.13
ACGTcount: A:0.49, C:0.08, G:0.25, T:0.17
Consensus pattern (23 bp):
TGAAAAGGTCAAAAGGATATAAA
Found at i:66501944 original size:50 final size:46
Alignment explanation
Indices: 66501868--66501989 Score: 136
Period size: 46 Copynumber: 2.6 Consensus size: 46
66501858 TGTCTTCGAC
** * * *
66501868 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTTAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC----ATATATCTGAT
* *
66501918 ATGGGCTTACATGGCTCATTCTTGTCTCCAAAGCCATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTGAT
*
66501964 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
66501990 CTGTCCTATC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 33 0.53
50 29 0.47
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTGAT
Found at i:66508660 original size:50 final size:46
Alignment explanation
Indices: 66508589--66508710 Score: 136
Period size: 46 Copynumber: 2.6 Consensus size: 46
66508579 TGTCTTCGAC
** * *
66508589 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC----ATATATCTAAT
* * *
66508639 ATGGGCTTACATGGCTCATTCCTGTCTCTAAAGCCATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTAAT
*
66508685 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
66508711 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 34 0.54
50 29 0.46
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTAAT
Found at i:66520633 original size:93 final size:93
Alignment explanation
Indices: 66520525--66520695 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
66520515 GCCCCTAAGT
* *
66520525 GAACTCAGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCAAACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
66520590 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
66520618 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
66520683 CGAGTTCGGATGC
66 CGAGTTCGGATGC
66520696 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:66520692 original size:46 final size:46
Alignment explanation
Indices: 66520520--66520692 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
66520510 AACCCGCCCC
* * * *
66520520 TAAGTGAACTCAGACTCAACTCAACAAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
66520566 TAAGTGAACTCAAACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
66520614 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
66520659 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
66520693 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 58 0.56
47 27 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:66527221 original size:22 final size:22
Alignment explanation
Indices: 66527196--66527247 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
66527186 AGGTCAACGC
*
66527196 CGTAGACAGGACAACACATAGT
1 CGTAAACAGGACAACACATAGT
* *
66527218 CGTAAACAGGATAGCACATAG-
1 CGTAAACAGGACAACACATAGT
66527239 CTGTAAACA
1 C-GTAAACA
66527248 TCGCAGCAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.15
Consensus pattern (22 bp):
CGTAAACAGGACAACACATAGT
Found at i:66527699 original size:41 final size:41
Alignment explanation
Indices: 66527641--66527754 Score: 165
Period size: 41 Copynumber: 2.8 Consensus size: 41
66527631 CCGGTAGATT
* * *
66527641 CACGGTCATCAAGCAACCATGCGATCCTTAATCGGTGGATC
1 CACGGTCGTCAAGCAACCATGCGATCCTCAATCGGTGGACC
* *
66527682 TACGGTCGTCAAGCAACCATGTGATCCTCAATCGGTGGACC
1 CACGGTCGTCAAGCAACCATGCGATCCTCAATCGGTGGACC
* *
66527723 CACGGTTGTCAAGCAACCATGCAATCCTCAAT
1 CACGGTCGTCAAGCAACCATGCGATCCTCAAT
66527755 TTCTTCCTCC
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (41 bp):
CACGGTCGTCAAGCAACCATGCGATCCTCAATCGGTGGACC
Found at i:66528044 original size:27 final size:27
Alignment explanation
Indices: 66527992--66528380 Score: 246
Period size: 27 Copynumber: 14.4 Consensus size: 27
66527982 TTTCACCCTA
* * *
66527992 CAAGGGTGTTTTGGTAAATCTATAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
66528018 CTAAGGGTATTTTGGTAATTTTGTAAAC
1 C-AAGGGTATTTTGGTAATTTTATAAAT
* *
66528046 CAATGGTATTTCT-ATAATTTT-TGAAAGT
1 CAAGGGTATTT-TGGTAATTTTAT-AAA-T
66528074 CAAGGGTATTTCT-GTAATTTTATAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAT
* *
66528101 CAGGGGTATTCT-GTAATTTT-TCCAAAT
1 CAAGGGTATTTTGGTAATTTTAT--AAAT
* **
66528128 CAATGGTATTTTGGTAATTTTCCAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
66528155 C-AGCGGTATTTTTGTAATTTTACAAAT
1 CAAG-GGTATTTTGGTAATTTTATAAAT
* *
66528182 CGAGGGTATTTTGGGTAATTTTATAAGT
1 CAAGGGTATTTT-GGTAATTTTATAAAT
* *** *
66528210 CGAGGGTATTTCAATAATTTTACAAAGT
1 CAAGGGTATTTTGGTAATTTTATAAA-T
* * * * * *
66528238 CGAGAGTATTTCGGTGATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
*
66528265 C-AGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
*
66528290 CTAGGGGTATTTTGGTAATTTTGAT--AT
1 C-AAGGGTATTTTGGTAATTTT-ATAAAT
* * * *
66528317 CGAGGGTATTTTGGAAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
** *
66528344 CAAGGGTA-TTCAGTAATTTTGTAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
66528369 CTAAGGGTATTT
1 C-AAGGGTATTT
66528381 CAGTAATTCT
Statistics
Matches: 295, Mismatches: 46, Indels: 43
0.77 0.12 0.11
Matches are distributed among these distances:
25 4 0.01
26 71 0.24
27 139 0.47
28 80 0.27
29 1 0.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAT
Found at i:66528145 original size:54 final size:54
Alignment explanation
Indices: 66528020--66528311 Score: 245
Period size: 55 Copynumber: 5.4 Consensus size: 54
66528010 TCTATAAACT
* * ** * *
66528020 AAGGGTATTTTGGTAATTTTGTAAACCAATGGTATTTCTATAATTTTTGAAAGTC
1 AAGGGTATTTTGGTAATTTTATAAATCAGCGGTATTTCTGTAATTTTTCAAA-TC
*
66528075 AAGGGTATTTCT-GTAATTTTATAAATCAGGGGTA-TTCTGTAATTTTTCCAAATC
1 AAGGGTATTT-TGGTAATTTTATAAATCAGCGGTATTTCTGTAATTTTT-CAAATC
* ** * *
66528129 AATGGTATTTTGGTAATTTTCCAAATCAGCGGTATTTTTGTAATTTTACAAATC
1 AAGGGTATTTTGGTAATTTTATAAATCAGCGGTATTTCTGTAATTTTTCAAATC
* * ** *
66528183 GAGGGTATTTTGGGTAATTTTATAAGTCGAG-GGTATTTCAATAATTTTACAAAGTC
1 AAGGGTATTTT-GGTAATTTTATAAATC-AGCGGTATTTCTGTAATTTTTCAAA-TC
* * * * * * *
66528239 GAGAGTATTTCGGTGATTTCACAAATCAG-GGTATTT-TGGTAATTTTACAAA-C
1 AAGGGTATTTTGGTAATTTTATAAATCAGCGGTATTTCT-GTAATTTTTCAAATC
*
66528291 TAGGGGTATTTTGGTAATTTT
1 -AAGGGTATTTTGGTAATTTT
66528312 GATATCGAGG
Statistics
Matches: 194, Mismatches: 34, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
52 1 0.01
53 15 0.08
54 78 0.40
55 86 0.44
56 14 0.07
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (54 bp):
AAGGGTATTTTGGTAATTTTATAAATCAGCGGTATTTCTGTAATTTTTCAAATC
Found at i:66532959 original size:32 final size:32
Alignment explanation
Indices: 66532918--66532987 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
66532908 GATGAGTCAG
*
66532918 AAAA-ATAATTTAATATTATTTTTCCATTTTT
1 AAAATATAATTTAATATTATTTTTCCATGTTT
66532949 AAAATATAATTTAATATTATTTTTCCATGTTT
1 AAAATATAATTTAATATTATTTTTCCATGTTT
66532981 AAAATAT
1 AAAATAT
66532988 GTGAATTGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 4 0.11
32 33 0.89
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.51
Consensus pattern (32 bp):
AAAATATAATTTAATATTATTTTTCCATGTTT
Found at i:66535972 original size:27 final size:27
Alignment explanation
Indices: 66535836--66535980 Score: 166
Period size: 27 Copynumber: 5.4 Consensus size: 27
66535826 TGGATAAGTT
*
66535836 GTAGAATTACCGAAATACCAC-TGTAAG
1 GTAGAATTACCGAAATACC-CTTGTAGG
* *
66535863 GTAGAATTATCGAAATACCTTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
66535890 GTAGAATTACCGAAATACCCTTATAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* * * *
66535917 ATAGAATTACTGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* * *
66535944 GTAGAATTATCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
66535971 GTAAAATTAC
1 GTAGAATTAC
66535981 TATTGTTAAA
Statistics
Matches: 99, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
27 99 1.00
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.28
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCTTGTAGG
Found at i:66536664 original size:27 final size:26
Alignment explanation
Indices: 66536620--66536671 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
66536610 CTCGCTGCAA
*
66536620 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
66536647 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
66536672 GCAGCTCCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:66536736 original size:33 final size:32
Alignment explanation
Indices: 66536687--66536750 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
66536677 TCCGCTGCAA
* *
66536687 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
66536720 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
66536751 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:66536764 original size:27 final size:26
Alignment explanation
Indices: 66536712--66536771 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
66536702 ACATATATAT
*
66536712 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
66536738 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
66536765 ATATCTG
1 ATATCTG
66536772 GCAGCTCGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:66537595 original size:41 final size:41
Alignment explanation
Indices: 66537534--66537656 Score: 174
Period size: 41 Copynumber: 3.0 Consensus size: 41
66537524 AAAAGCCACC
*
66537534 GGTGGATCCACGGTCGTCAAGCAACCATGTGATCCTTAATT
1 GGTGGATCCACGGTCGTCAAGCAACCATGTGATCCTCAATT
* * *
66537575 GGTGGATCCACGGTCATCAAGCAACCATGCGATCCTCAATC
1 GGTGGATCCACGGTCGTCAAGCAACCATGTGATCCTCAATT
* * **
66537616 GGTAGATCTATAGTCGTCAAGCAACCATGTGATCCTCAATT
1 GGTGGATCCACGGTCGTCAAGCAACCATGTGATCCTCAATT
66537657 TCTTCGTCCG
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (41 bp):
GGTGGATCCACGGTCGTCAAGCAACCATGTGATCCTCAATT
Found at i:66537946 original size:27 final size:27
Alignment explanation
Indices: 66537893--66538280 Score: 271
Period size: 27 Copynumber: 14.4 Consensus size: 27
66537883 TTTCACCCTA
* * * *
66537893 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * * *
66537920 CAAGGGTATTTCGATAATTTTAAAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * **
66537947 CAATGGTATTTTTGTAATTTTTGAAAGT
1 CAAGGGTATTTTGGTAATTTTACAAA-T
* **
66537975 -AAAGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
* ** *
66538001 TAAGGGTATTTTTATAATTTTCCAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *** *
66538028 AAAGGGTATTTCAATAATTTTCCAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
66538055 C-AGGAGTATTTTGGTAATTTTACAAAT
1 CAAGG-GTATTTTGGTAATTTTACAAAT
** * ** *
66538082 TGAGGGTAATTCAGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * **
66538109 CGAGGGTATTTTGGTAATTTTATAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
66538136 CGAGGGTATTTTGGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
66538163 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
66538190 CAGGGGTATTTTGGTAATTTTGCTAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** ** *
66538217 TGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* ** *
66538244 CAAGGGTA-TTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
66538270 CAAGGGTATTT
1 CAAGGGTATTT
66538281 CAGTAATTCT
Statistics
Matches: 295, Mismatches: 59, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
26 30 0.10
27 261 0.88
28 4 0.01
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:66545421 original size:40 final size:40
Alignment explanation
Indices: 66545349--66545518 Score: 223
Period size: 40 Copynumber: 4.2 Consensus size: 40
66545339 TATGTGCACA
* * * * *
66545349 GCATTCGTGAGGGTTATTATAACCAGGTTAAGTCTCGAAG
1 GCATTCGTGCGAGTTATTATAACCGGGCTAAGTCCCGAAG
* * * *
66545389 GCAATCATGCGGGTTATTATAACTGGGCTAAGTCCCGAAG
1 GCATTCGTGCGAGTTATTATAACCGGGCTAAGTCCCGAAG
*
66545429 GCATTCGTGCGAGTTATTATAACCGGGCTAAGTCCCAAAG
1 GCATTCGTGCGAGTTATTATAACCGGGCTAAGTCCCGAAG
* * *
66545469 GCATTCGTGCGAGTTATTATTACCGGGTTAAGTCTCGAAG
1 GCATTCGTGCGAGTTATTATAACCGGGCTAAGTCCCGAAG
66545509 GCATTCGTGC
1 GCATTCGTGC
66545519 TGGTTGTTAC
Statistics
Matches: 114, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 114 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (40 bp):
GCATTCGTGCGAGTTATTATAACCGGGCTAAGTCCCGAAG
Done.