Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 19 of 259
Found at i:5452794 original size:41 final size:40
Alignment explanation
Indices: 5452749--5452870 Score: 124
Period size: 40 Copynumber: 3.1 Consensus size: 40
5452739 AGCGGCGTTT
5452749 TTAGCGGCG-TTTGGACAAAAAACGCCACTAAAAATCAAGCA
1 TTAGCGGCGCTTT-GA-AAAAAACGCCACTAAAAATCAAGCA
* * ** *
5452790 TTAGCGGCGCTTTTATAAAAACGCCACTAAAGGTCGAGCA
1 TTAGCGGCGCTTTGAAAAAAACGCCACTAAAAATCAAGCA
** * *
5452830 TTAGCGGCGCTTT-TTAGAAACGCCGCTAAAAAT-AAGCA
1 TTAGCGGCGCTTTGAAAAAAACGCCACTAAAAATCAAGCA
5452868 TTA
1 TTA
5452871 CCGGTGTTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
38 7 0.10
39 15 0.22
40 34 0.49
41 10 0.14
42 3 0.04
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.22
Consensus pattern (40 bp):
TTAGCGGCGCTTTGAAAAAAACGCCACTAAAAATCAAGCA
Found at i:5452819 original size:40 final size:39
Alignment explanation
Indices: 5452766--5452870 Score: 149
Period size: 40 Copynumber: 2.7 Consensus size: 39
5452756 CGTTTGGACA
5452766 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTTAT
1 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTT-T
** *
5452806 AAAAACGCCACTAAAGGTCGAGCATTAGCGGCGCTTTTT
1 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTTT
* *
5452845 AGAAACGCCGCTAAAAAT-AAGCATTA
1 AAAAACGCCACTAAAAATCAAGCATTA
5452871 CCGGTGTTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 7 0.12
39 15 0.26
40 35 0.61
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (39 bp):
AAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTTT
Found at i:5453017 original size:41 final size:41
Alignment explanation
Indices: 5452935--5453136 Score: 325
Period size: 41 Copynumber: 5.0 Consensus size: 41
5452925 TGAGTTTTTG
*
5452935 GGGCCTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATTCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* *
5452975 GGGCCTTTAGCGGCATTTTTGAATAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* *
5453016 GGGCCTTTAGCGGCGTTTGTGAAGAAGCGCCACTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* *
5453057 GGGCCTTTAGTGGCGTTTTGGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
*
5453098 GGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
5453137 CCGCTTTTGA
Statistics
Matches: 148, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 22 0.15
41 126 0.85
ACGTcount: A:0.18, C:0.24, G:0.30, T:0.28
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
Found at i:5453601 original size:14 final size:15
Alignment explanation
Indices: 5453573--5453605 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
5453563 AAGGTTTATA
5453573 GATTATGGAATTAGG
1 GATTATGGAATTAGG
5453588 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
5453602 GATT
1 GATT
5453606 TTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:5454366 original size:13 final size:13
Alignment explanation
Indices: 5454348--5454374 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5454338 ATAAATAAAT
5454348 AAATTAATGTAAC
1 AAATTAATGTAAC
5454361 AAATTAATGTAAC
1 AAATTAATGTAAC
5454374 A
1 A
5454375 GATTGACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (13 bp):
AAATTAATGTAAC
Found at i:5458316 original size:43 final size:43
Alignment explanation
Indices: 5458256--5458346 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
5458246 CTTTGAGTTC
* * * *
5458256 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
*
5458298 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATATTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
5458341 ATTACC
1 ATTACC
5458347 TTGCATATGT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
Found at i:5458784 original size:42 final size:43
Alignment explanation
Indices: 5458619--5458865 Score: 308
Period size: 42 Copynumber: 5.8 Consensus size: 43
5458609 AAGATATATT
**
5458619 TTTAGCGGCGTTTGTGTTAAAAGCGCCGCTAAAGGTCTAT--TC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCT-TGGTC
* * * * *
5458661 TATAGCAGCGTTTGTGGGAAAAAGCGCCGCTAAAGCTCAAT-ATC
1 TTTAGCGGCGTTTGTGGG-AAAAGCGCCGCTAAAGGTC-TTGGTC
*
5458705 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
5458748 TTTAGCGGCGTTTGTGGG-GAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * *
5458790 TTTAGTGGCGTTTGTAGGG--AAGCGACGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGT-GGGAAAAGCGCCGCTAAAGGTCTTGGTC
5458832 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
5458866 TTAGCGACGC
Statistics
Matches: 179, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
41 3 0.02
42 86 0.48
43 72 0.40
44 18 0.10
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:5458847 original size:127 final size:127
Alignment explanation
Indices: 5458619--5458865 Score: 322
Period size: 127 Copynumber: 1.9 Consensus size: 127
5458609 AAGATATATT
*
5458619 TTTAGCGGCGTTTGTGTTAAAAGCGCCGCTAAAGGTCTATTCTATAGCAGCGTTTGTGGGAAAAA
1 TTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCTATTCTATAGCAGCGTTTGTGGG--AAA
* *
5458684 GCGCCGCTAAAGCTCAATATCTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGGTC
64 GCGACGCTAAAGCTCAATATCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
** * **
5458748 TTTAGCGGCGTTTGTG-GGGAAGCGCCGCTAAAGGTCT-TGGTCTTTAGTGGCGTTTGTAGGG-A
1 TTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCTAT--TCTATAGCAGCGTTTGT-GGGAA
* *
5458810 AGCGACGCTAAAGGTC-ATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
63 AGCGACGCTAAAGCTCAAT-ATCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
5458866 TTAGCGACGC
Statistics
Matches: 104, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
126 2 0.02
127 51 0.49
128 18 0.17
129 30 0.29
130 3 0.03
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (127 bp):
TTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCTATTCTATAGCAGCGTTTGTGGGAAAGC
GACGCTAAAGCTCAATATCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:5458947 original size:22 final size:21
Alignment explanation
Indices: 5458913--5458957 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
5458903 TTTAGTGGCG
* *
5458913 CTAAAAAATGCCGCTAAAGGC
1 CTAAAAAACGCCGCTAAAAGC
5458934 CTAAAAAAGCGCCGCTAAAAGC
1 CTAAAAAA-CGCCGCTAAAAGC
5458956 CT
1 CT
5458958 GTTTTGGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.42, C:0.27, G:0.18, T:0.13
Consensus pattern (21 bp):
CTAAAAAACGCCGCTAAAAGC
Found at i:5459030 original size:25 final size:25
Alignment explanation
Indices: 5458981--5459040 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
5458971 GATGCATAAC
*
5458981 AACATATAAGAATATGATAAT-AAA
1 AACATATATGAATATGATAATAAAA
*
5459005 AACATATATGCATAATGAT-ATGAAAA
1 AACATATATGAAT-ATGATAAT-AAAA
5459031 ATACATATAT
1 A-ACATATAT
5459041 ATATATAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 13 0.43
25 5 0.17
26 4 0.13
27 8 0.27
ACGTcount: A:0.57, C:0.07, G:0.08, T:0.28
Consensus pattern (25 bp):
AACATATATGAATATGATAATAAAA
Found at i:5465144 original size:215 final size:212
Alignment explanation
Indices: 5464776--5465189 Score: 747
Period size: 215 Copynumber: 1.9 Consensus size: 212
5464766 AATACATACA
5464776 ATATCTATAACACCCCAAACCCAACCTAGACGTTATGGCAGAATCTGGCGTGTCACATTAAAATG
1 ATATCTATAACACCCCAAACCCAACCTAGACGTTATGGCAGAATCTGGCGTGTCACATTAAAATG
*
5464841 CTTTTCGAAAAAAAACTGTCTTATTAATAAATCTCGCTTGAAAGATAAAAGCCCCTTTTGTTTAA
66 CTTTTCGAAAAAAAACTGTCTTATTAATAAATCTCGCTTGAAAGATAAAAGCCCATTTTGTTTAA
5464906 TTCTAAAGTCAACTTAATTATTTGTTAACCATTTTAAACCAGCCTTACTTTTAAAAACATGTTTG
131 TTCTAAAGTCAACTTAATTATTTGTTAACCATTTTAAACCAGCCTTACTTTTAAAAACATGTTTG
5464971 TTGCAGAAGCATTTCTG
196 TTGCAGAAGCATTTCTG
* * * *
5464988 ATATCTATAACACCCCAAATCCGACCTAGACGTTATGGCCGAATCTGGCGTGTCACTTTAAAATG
1 ATATCTATAACACCCCAAACCCAACCTAGACGTTATGGCAGAATCTGGCGTGTCACATTAAAATG
*
5465053 TTTTTTCGAAAAAAAACTTTGTCTTATTAATAAATCTCGCTTGAAAGATAAAAGCCCATTTTGTT
66 -CTTTTCGAAAAAAAAC--TGTCTTATTAATAAATCTCGCTTGAAAGATAAAAGCCCATTTTGTT
5465118 TAATTCTAAAGTCAACTTAATTATTTGTTAACCATTTTAAACCAGCCTTACTTTTAAAAACATGT
128 TAATTCTAAAGTCAACTTAATTATTTGTTAACCATTTTAAACCAGCCTTACTTTTAAAAACATGT
5465183 TTGTTGC
193 TTGTTGC
5465190 GAAAACGTGA
Statistics
Matches: 193, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
212 61 0.32
213 15 0.08
215 117 0.61
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (212 bp):
ATATCTATAACACCCCAAACCCAACCTAGACGTTATGGCAGAATCTGGCGTGTCACATTAAAATG
CTTTTCGAAAAAAAACTGTCTTATTAATAAATCTCGCTTGAAAGATAAAAGCCCATTTTGTTTAA
TTCTAAAGTCAACTTAATTATTTGTTAACCATTTTAAACCAGCCTTACTTTTAAAAACATGTTTG
TTGCAGAAGCATTTCTG
Found at i:5465571 original size:33 final size:33
Alignment explanation
Indices: 5465526--5465606 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
5465516 CGCATCAATA
*
5465526 TGGGCCTAAGCCCATTACAATAATGATGACACT
1 TGGGCCTTAGCCCATTACAATAATGATGACACT
*
5465559 TGGGCCTTAGCCCATTACAATAATGATGGCACT
1 TGGGCCTTAGCCCATTACAATAATGATGACACT
5465592 TGGGCCTTAGCCCAT
1 TGGGCCTTAGCCCAT
5465607 AGTAGCCTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (33 bp):
TGGGCCTTAGCCCATTACAATAATGATGACACT
Found at i:5469797 original size:10 final size:10
Alignment explanation
Indices: 5469778--5469827 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
5469768 TGAAATTCTA
5469778 AAAGATAAAT
1 AAAGATAAAT
5469788 ACAA-ATAAAT
1 A-AAGATAAAT
5469798 AAAGATAAAT
1 AAAGATAAAT
5469808 AAAGATAAAT
1 AAAGATAAAT
5469818 GAAA-ATAAAT
1 -AAAGATAAAT
5469828 CCTAAAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:5471023 original size:13 final size:12
Alignment explanation
Indices: 5470995--5471028 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
5470985 ATTAAAATTT
*
5470995 TGAATATAATCA
1 TGAATATAAGCA
5471007 TGAATATCAAGCA
1 TGAATAT-AAGCA
5471020 TGAATATAA
1 TGAATATAA
5471029 CCATTTCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (12 bp):
TGAATATAAGCA
Found at i:5471814 original size:42 final size:42
Alignment explanation
Indices: 5471695--5471823 Score: 150
Period size: 42 Copynumber: 3.0 Consensus size: 42
5471685 CACATAGTAC
* * *
5471695 CATACCAATGCCATATCCTAGATATGGTCTTACATGTAATCT
1 CATACCGATGCCATATCCCAGATATGGTCTTACACGTAATCT
** * * * * *
5471737 TGTATCGAAGCCAATAGCCCAGCTATGGTCTTACACGAAATCT
1 CATACCGATGCC-ATATCCCAGATATGGTCTTACACGTAATCT
*
5471780 CATACCGATGCCATATCCCAAATATGGTCTTACACGTAATCT
1 CATACCGATGCCATATCCCAGATATGGTCTTACACGTAATCT
5471822 CA
1 CA
5471824 ATAACCTTAA
Statistics
Matches: 68, Mismatches: 18, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
42 35 0.51
43 33 0.49
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (42 bp):
CATACCGATGCCATATCCCAGATATGGTCTTACACGTAATCT
Found at i:5473560 original size:29 final size:29
Alignment explanation
Indices: 5473497--5473561 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
5473487 TAATTAAAAT
* *
5473497 AAAAATAATAAGAAAAGAAATAAAATTAA
1 AAAAATAAAAAGAAAAGAAATAAAATAAA
* * *
5473526 ATAAATAAAAAG-CAAGAAATTAAATAAGA
1 AAAAATAAAAAGAAAAGAAATAAAATAA-A
5473555 AAAAATA
1 AAAAATA
5473562 TATCAAATCT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
28 12 0.41
29 17 0.59
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.17
Consensus pattern (29 bp):
AAAAATAAAAAGAAAAGAAATAAAATAAA
Found at i:5475299 original size:21 final size:21
Alignment explanation
Indices: 5475273--5475315 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
5475263 GGTTCGCTGT
*
5475273 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
5475294 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
5475315 A
1 A
5475316 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:5475315 original size:16 final size:16
Alignment explanation
Indices: 5475296--5475328 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
5475286 TGTATTGGAT
*
5475296 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
5475312 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
5475328 T
1 T
5475329 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:5475373 original size:45 final size:44
Alignment explanation
Indices: 5475307--5475401 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
5475297 GGATTAGAGG
* *
5475307 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
5475352 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
5475396 TGTAAT
1 TGTAAT
5475402 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:5475584 original size:18 final size:17
Alignment explanation
Indices: 5475563--5475597 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5475553 TTATTATTTA
*
5475563 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
5475581 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
5475598 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:5475591 original size:28 final size:27
Alignment explanation
Indices: 5475521--5475593 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
5475511 TTTATTATCA
*
5475521 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
5475549 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
5475576 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
5475594 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:5475725 original size:16 final size:17
Alignment explanation
Indices: 5475699--5475740 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
5475689 AAACATAATT
5475699 ATTATAAATATAT-TTTA
1 ATTA-AAATATATATTTA
5475716 ATTAAAATATATAATTTA
1 ATTAAAATATAT-ATTTA
5475734 A-TAAAAT
1 ATTAAAAT
5475741 TCTTAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.35
17 10 0.43
18 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTAAAATATATATTTA
Found at i:5475733 original size:18 final size:17
Alignment explanation
Indices: 5475706--5475740 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5475696 ATTATTATAA
*
5475706 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
5475724 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
5475741 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:5475746 original size:143 final size:147
Alignment explanation
Indices: 5475482--5475752 Score: 478
Period size: 143 Copynumber: 1.9 Consensus size: 147
5475472 ATGATTATTG
5475482 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
5475547 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
5475612 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
5475631 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
5475693 ATAATTATTA-TAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
5475753 ATATTCTTAT
Statistics
Matches: 120, Mismatches: 2, Indels: 6
0.94 0.02 0.05
Matches are distributed among these distances:
143 49 0.41
144 42 0.35
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:5475949 original size:17 final size:17
Alignment explanation
Indices: 5475905--5475956 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
5475895 CTCAAATCAT
*
5475905 AATATATGATTATAACT-
1 AATATATGATT-TAATTA
5475922 AATA-A-GATTTAATTA
1 AATATATGATTTAATTA
*
5475937 AATATATGATTTAATAA
1 AATATATGATTTAATTA
5475954 AAT
1 AAT
5475957 TTAAAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
14 4 0.13
15 8 0.27
16 2 0.07
17 16 0.53
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (17 bp):
AATATATGATTTAATTA
Found at i:5476140 original size:92 final size:92
Alignment explanation
Indices: 5475989--5476182 Score: 286
Period size: 92 Copynumber: 2.1 Consensus size: 92
5475979 GATTATAGTT
* *
5475989 TATGAATTTGTATAATTTAAAATAATAATTATTACATATAATTTAATAATAATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATAATTATTACATATAATTTAATAATAATATATAATTTCAT
* *
5476054 AAAATTCTTGATAATAAAAATTTTCTTA
66 AAAATTCTTAATAAT-AAAATGTTCTTA
* *
5476082 TATGAATTTATACAATTTAAAATAATTAA-TATTA-ATATAA-TTATATAGTGATATATAATTTC
1 TATGAATTTATACAATTTAAAATAA-TAATTATTACATATAATTTA-ATAATAATATATAATTTC
5476144 ATAAAATTCTTAATAATAAAATGTTCTTA
64 ATAAAATTCTTAATAATAAAATGTTCTTA
5476173 TATGAATTTA
1 TATGAATTTA
5476183 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 24 0.26
92 38 0.41
93 28 0.30
94 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATAATTATTACATATAATTTAATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:5477234 original size:23 final size:23
Alignment explanation
Indices: 5477208--5477259 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
5477198 AGCATTTTGA
5477208 ATCCAACAGCTATAAAGAATAGC
1 ATCCAACAGCTATAAAGAATAGC
5477231 ATCCAACAGCTATAAAGAATAGC
1 ATCCAACAGCTATAAAGAATAGC
5477254 ATCCAA
1 ATCCAA
5477260 AGCCAGCCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.48, C:0.23, G:0.12, T:0.17
Consensus pattern (23 bp):
ATCCAACAGCTATAAAGAATAGC
Found at i:5480989 original size:144 final size:144
Alignment explanation
Indices: 5480764--5481920 Score: 1794
Period size: 144 Copynumber: 8.0 Consensus size: 144
5480754 TGTGACCTGA
* * * * * *
5480764 AAGCCAATTGGAGGATAGATTCAAAT-TAATCAAATTCGTTAGTCTCCCAATATCTTCTGGAATG
1 AAGCCTATTGGAGGATAGA-TCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATG
* * * **
5480828 GGTCCACTAAGTTGGTTGCTTTGAAGGAACAACGAGTTAAGATTGGTTAAGTTGCTGACAGAAGA
65 GATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGA
* *
5480893 TGGTATTAGACCAAC
130 TGGGATTGGACCAAC
* * * * * *
5480908 AAGACTATTGGAGGATAGATCCAATTCAAGCAAATTCGTTAGTCTCCCAATATCTTCTGGAATAG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
* * * *
5480973 ATTCATTAAGTTGGTTGATTTGAAGGAACAACGAGGTAAGATTGGTTAAGTTGCTGACAGAAGAT
66 ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
*
5481038 GGTATTGGACCAAC
131 GGGATTGGACCAAC
* *
5481052 AAGACTATTGGAGGATAGATCCAATTCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
* *
5481117 ATCCATCAAGTTGGTTGCTTTGAAGGTCCAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
66 ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
5481182 GGGATTGGACCAAC
131 GGGATTGGACCAAC
* * *
5481196 AAGCCTATTGTAGGATAGATCGAATGCAACCAAATTCGTTAATCTCCCAATTTCTTGTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
* *
5481261 ATCCATCAAGTTGGTTGCTTTGAAGGTCCAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
66 ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
5481326 GGGATTGGACCAAC
131 GGGATTGGACCAAC
** *
5481340 AAGCCTATTGTCGGATAGATCGAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
* * * *
5481405 ATCCACTAAGTTGGTTGCTTTGAAGGTCCAACGAGGTAAGATTGGTTAAGTTGCTGACCGAAGAT
66 ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
*
5481470 GGTATTGGACCAAC
131 GGGATTGGACCAAC
* * * *
5481484 AAGACTATTGGAGGATAGATCCAATTCAACCAAATTCGTTAGTCTCCCAATATCTTCTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
*
5481549 ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTAGCTGACAGAAGAT
66 ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
5481614 GGGATTGGACCAAC
131 GGGATTGGACCAAC
* *
5481628 AAGCCTATTGGAGGATAGATCTAATGCAACCAAATTCTTTAGTCTCCCAATTTCTTGTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
*
5481693 ATCCATTAAGTTTGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
66 ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
*
5481758 GAGATTGGACCAAC
131 GGGATTGGACCAAC
* * *
5481772 AAGCCTATTGGAGGATAGATCTAATGCAACCAAATTCCTTAGTCTCCAAATTTCTTGTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
* *
5481837 ATCCAATAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGAAAGAAGAT
66 ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
*
5481902 GGGATTGGACCAAT
131 GGGATTGGACCAAC
5481916 AAGCC
1 AAGCC
5481921 CGTTGTTTGA
Statistics
Matches: 948, Mismatches: 64, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
143 5 0.01
144 943 0.99
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (144 bp):
AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
ATCCATTAAGTTGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
GGGATTGGACCAAC
Found at i:5484883 original size:14 final size:13
Alignment explanation
Indices: 5484864--5484919 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 13
5484854 AAAATATGTA
5484864 ATAATATAAATCAT
1 ATAATATAAAT-AT
5484878 ATAATAATAAAATAT
1 ATAAT-AT-AAATAT
5484893 ATGTAATA-AAATAT
1 A--TAATATAAATAT
5484907 ATAATAT-AATAT
1 ATAATATAAATAT
5484919 A
1 A
5484920 AAAAGAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
12 11 0.30
14 12 0.32
15 5 0.14
16 5 0.14
17 4 0.11
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (13 bp):
ATAATATAAATAT
Found at i:5484884 original size:17 final size:15
Alignment explanation
Indices: 5484854--5484912 Score: 75
Period size: 14 Copynumber: 3.9 Consensus size: 15
5484844 TTTACAAATA
*
5484854 AAAATATGTAATAAT
1 AAAATATATAATAAT
5484869 ATAAATCATATAATAAT
1 A-AAAT-ATATAATAAT
*
5484886 AAAATATAT-GTAAT
1 AAAATATATAATAAT
5484900 AAAATATATAATA
1 AAAATATATAATA
5484913 TAATATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
14 13 0.34
15 7 0.18
16 8 0.21
17 10 0.26
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (15 bp):
AAAATATATAATAAT
Found at i:5484895 original size:34 final size:33
Alignment explanation
Indices: 5484830--5484923 Score: 106
Period size: 34 Copynumber: 2.9 Consensus size: 33
5484820 TAGGATAAAG
*
5484830 GTAATAAAAT--ATAATTTACA-AATAAAAATAT
1 GTAATAAAATAAATAATATA-ATAATAAAAATAT
* *
5484861 GTAATAATATAAATCATATAATAATAAAATATAT
1 GTAATAAAATAAATAATATAATAATAAAA-ATAT
*
5484895 GTAATAAAATATATAATATAAT-ATAAAAA
1 GTAATAAAATAAATAATATAATAATAAAAA
5484924 GAATAATATT
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
31 9 0.17
32 2 0.04
33 19 0.36
34 23 0.43
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (33 bp):
GTAATAAAATAAATAATATAATAATAAAAATAT
Found at i:5484911 original size:12 final size:12
Alignment explanation
Indices: 5484876--5484919 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
5484866 AATATAAATC
5484876 ATATAATAATAAA
1 ATAT-ATAATAAA
5484889 ATATATGTAATAAA
1 ATATA--TAATAAA
*
5484903 ATATATAATATA
1 ATATATAATAAA
5484915 ATATA
1 ATATA
5484920 AAAAGAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 12 0.43
13 4 0.14
14 12 0.43
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (12 bp):
ATATATAATAAA
Found at i:5484916 original size:17 final size:16
Alignment explanation
Indices: 5484831--5484917 Score: 56
Period size: 17 Copynumber: 5.3 Consensus size: 16
5484821 AGGATAAAGG
*
5484831 TAATAAAATATAATTTA
1 TAATAAAATAT-ATATA
* *
5484848 CAAATAAAA-ATATGTAA
1 -TAATAAAATATATAT-A
5484865 TAATATAAATCATATA-A
1 TAATA-AAAT-ATATATA
*
5484882 TAAT-AAA-ATATATG
1 TAATAAAATATATATA
5484896 TAATAAAATATATAATA
1 TAATAAAATATAT-ATA
5484913 TAATA
1 TAATA
5484918 TAAAAAGAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
13 5 0.09
14 4 0.07
15 6 0.11
16 11 0.20
17 18 0.33
18 7 0.13
19 4 0.07
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (16 bp):
TAATAAAATATATATA
Found at i:5485042 original size:21 final size:21
Alignment explanation
Indices: 5485018--5485058 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5485008 TAATTTTATA
5485018 AATAAAAT-ATATAATAATATG
1 AATAAAATAATAT-ATAATATG
*
5485039 AATAATATAATATATAATAT
1 AATAAAATAATATATAATAT
5485059 ATAAAAATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
AATAAAATAATATATAATATG
Found at i:5485048 original size:17 final size:15
Alignment explanation
Indices: 5485018--5485246 Score: 101
Period size: 15 Copynumber: 15.4 Consensus size: 15
5485008 TAATTTTATA
*
5485018 AATAAAATATATAAT
1 AATATAATATATAAT
5485033 AATATGAATAATATAAT
1 AATAT-AAT-ATATAAT
*
5485050 -ATATAATATATAAA
1 AATATAATATATAAT
* *
5485064 AATACT-ATGTACTAAA
1 AATA-TAATATA-TAAT
5485080 ACATATAATATA-AATGT
1 A-ATATAATATATAA--T
5485097 AA-ATAATATATACAT
1 AATATAATATATA-AT
* *
5485112 -ATAAAAGTATATGAAA
1 AATATAA-TATAT-AAT
*
5485128 AATTAAAAATATATAAT
1 AA-T-ATAATATATAAT
*
5485145 AATATAATAGATAA-
1 AATATAATATATAAT
5485159 AATATAATA-A-AAT
1 AATATAATATATAAT
5485172 AA-ATAATATAT-AT
1 AATATAATATATAAT
* *
5485185 AATGAAAATACAT-AT
1 AAT-ATAATATATAAT
*
5485200 AATAT-ATA-GTAA-
1 AATATAATATATAAT
* *
5485212 AATACAATATAAAAT
1 AATATAATATATAAT
* *
5485227 AA-AAAATATATAAA
1 AATATAATATATAAT
5485241 AATATA
1 AATATA
5485247 TGATAAAAAA
Statistics
Matches: 166, Mismatches: 21, Indels: 54
0.69 0.09 0.22
Matches are distributed among these distances:
12 13 0.08
13 15 0.09
14 30 0.18
15 53 0.32
16 23 0.14
17 22 0.13
18 6 0.04
19 4 0.02
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAATATATAAT
Found at i:5485080 original size:56 final size:53
Alignment explanation
Indices: 5485019--5485207 Score: 134
Period size: 50 Copynumber: 3.7 Consensus size: 53
5485009 AATTTTATAA
*
5485019 ATAAAATATATAATAATATGAATAATATAATATATAATATATAAAAATACTATG
1 ATAAAATATATAATAATATGAATAATATAATATATAAAATATAAAAATA-TATG
* * * *
5485073 TACTAAAACATATAATATAAATG--TAA-ATAATATAT-ACATATAAAAGTATATG
1 -A-TAAAATATATAATA-ATATGAATAATATAATATATAAAATATAAAAATATATG
* * *
5485125 A-AAAAT-TA-AA-AATATATAATAATATAATAGATAAAATATAATAAA-ATA-A
1 ATAAAATATATAATAATAT-GAATAATATAATATATAAAATATAA-AAATATATG
* *
5485174 ATAATATATATAATGA-A--AATACATATAATATATA
1 ATAAAATATATAATAATATGAATA-ATATAATATATA
5485208 GTAAAATACA
Statistics
Matches: 107, Mismatches: 14, Indels: 31
0.70 0.09 0.20
Matches are distributed among these distances:
45 3 0.03
46 1 0.01
47 2 0.02
48 5 0.05
49 17 0.16
50 25 0.23
51 5 0.05
52 7 0.07
53 12 0.11
54 9 0.08
55 4 0.04
56 13 0.12
57 4 0.04
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.33
Consensus pattern (53 bp):
ATAAAATATATAATAATATGAATAATATAATATATAAAATATAAAAATATATG
Found at i:5485205 original size:24 final size:21
Alignment explanation
Indices: 5485126--5485284 Score: 90
Period size: 19 Copynumber: 7.8 Consensus size: 21
5485116 AAGTATATGA
5485126 AAAATTAAA-AATATATAATAAT
1 AAAA-TAAATAATATAT-ATAAT
* *
5485148 ATAATAGATAA-A-ATATAAT
1 AAAATAAATAATATATATAAT
5485167 AAAATAAATAATATATATAAT
1 AAAATAAATAATATATATAAT
* *
5485188 GAAAATACAT-ATAATATATAGT
1 -AAAATAAATAAT-ATATATAAT
*
5485210 AAAATACAAT-ATA-AAATAA-
1 AAAATA-AATAATATATATAAT
* * *
5485229 AAAATATATAAAAATATATGAT
1 AAAATAAAT-AATATATATAAT
*
5485251 -AAA-AAAT-ATATTAGATAAT
1 AAAATAAATAATA-TATATAAT
5485270 -AAA-AAATAATATATA
1 AAAATAAATAATATATA
5485285 CACTATTTTA
Statistics
Matches: 107, Mismatches: 18, Indels: 27
0.70 0.12 0.18
Matches are distributed among these distances:
18 4 0.04
19 36 0.34
20 15 0.14
21 27 0.25
22 25 0.23
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (21 bp):
AAAATAAATAATATATATAAT
Found at i:5485207 original size:43 final size:41
Alignment explanation
Indices: 5485126--5485273 Score: 114
Period size: 41 Copynumber: 3.6 Consensus size: 41
5485116 AAGTATATGA
* *
5485126 AAAATTAAA-AATATATAATAATATAATAGATAAAATATAAT
1 AAAA-TAAATAATATATAATAATAAAATACATAAAATATAAT
*
5485167 AAAATAAATAATATAT-ATAATGAAAATACATATAATATATAGT
1 AAAATAAATAATATATAATAAT-AAAATACATA-AA-ATATAAT
*
5485210 AAAATACAAT-ATA-A-AATAA-AAAATATATAAAA-AT-AT
1 AAAATA-AATAATATATAATAATAAAATACATAAAATATAAT
** *
5485246 ATGATAAAAAATATATTAGATAATAAAA
1 AAAATAAATAATATA-TA-ATAATAAAA
5485274 AATAATATAT
Statistics
Matches: 87, Mismatches: 8, Indels: 24
0.73 0.07 0.20
Matches are distributed among these distances:
35 2 0.02
36 8 0.09
37 3 0.03
38 1 0.01
39 3 0.03
40 22 0.25
41 23 0.26
42 7 0.08
43 15 0.17
44 3 0.03
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (41 bp):
AAAATAAATAATATATAATAATAAAATACATAAAATATAAT
Found at i:5485228 original size:55 final size:56
Alignment explanation
Indices: 5485133--5485238 Score: 146
Period size: 55 Copynumber: 1.9 Consensus size: 56
5485123 TGAAAAATTA
* * *
5485133 AAAATATATAATAATATAATAGATAAAATATAATAAAATAAATAATATATATAATG
1 AAAATACATAATAATATAATAGATAAAATAAAATAAAATAAAAAATATATATAATG
5485189 AAAATACAT-ATAATAT-ATAG-TAAAATACAATATAAAATAAAAAATATATA
1 AAAATACATAATAATATAATAGATAAAATA-AA-ATAAAATAAAAAATATATA
5485239 AAAATATATG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
53 7 0.16
54 5 0.11
55 25 0.56
56 8 0.18
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (56 bp):
AAAATACATAATAATATAATAGATAAAATAAAATAAAATAAAAAATATATATAATG
Found at i:5485236 original size:14 final size:12
Alignment explanation
Indices: 5485132--5485260 Score: 63
Period size: 12 Copynumber: 10.8 Consensus size: 12
5485122 ATGAAAAATT
5485132 AAAAATAT-AT-
1 AAAAATATAATA
*
5485142 AATAATATAATA
1 AAAAATATAATA
5485154 GATAAAATATAAT-
1 -A-AAAATATAATA
5485167 -AAAATA-AATA
1 AAAAATATAATA
* *
5485177 ATATATATAATGA
1 AAAAATATAAT-A
5485190 AAATACATATAATA
1 AAA-A-ATATAATA
* * * *
5485204 TATAGTAAAATA
1 AAAAATATAATA
* * *
5485216 CAATATAAAATA
1 AAAAATATAATA
5485228 AAAAATAT-ATA
1 AAAAATATAATA
*
5485239 AAAATATATGATA
1 AAAA-ATATAATA
5485252 AAAAATATA
1 AAAAATATA
5485261 TTAGATAATA
Statistics
Matches: 89, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
9 3 0.03
10 13 0.15
11 13 0.15
12 30 0.34
13 12 0.13
14 11 0.12
15 7 0.08
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (12 bp):
AAAAATATAATA
Found at i:5485242 original size:12 final size:11
Alignment explanation
Indices: 5485225--5485261 Score: 56
Period size: 11 Copynumber: 3.2 Consensus size: 11
5485215 ACAATATAAA
5485225 ATAAAAAATAT
1 ATAAAAAATAT
5485236 ATAAAAATATAT
1 ATAAAAA-ATAT
5485248 GATAAAAAATAT
1 -ATAAAAAATAT
5485260 AT
1 AT
5485262 TAGATAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 9 0.38
12 8 0.33
13 7 0.29
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (11 bp):
ATAAAAAATAT
Found at i:5485257 original size:31 final size:31
Alignment explanation
Indices: 5485110--5485258 Score: 89
Period size: 31 Copynumber: 4.8 Consensus size: 31
5485100 TAATATATAC
* *
5485110 ATATAAAAGTATATG---AAAAATTAAAAAT
1 ATATAAAAATATATGATAAAAAATAAAAAAT
* * *
5485138 ATATAATAATATAATAGATAAAATATAATAAA-
1 ATATAAAAATAT-AT-GATAAAAAATAAAAAAT
* *
5485170 ATA-AATAATATAT-ATAATGAAAATACATATAAT
1 ATATAAAAATATATGATAA--AAAATA-A-AAAAT
* *
5485203 ATATAGTAAAATACA--ATATAAAATAAAAAAT
1 ATATA--AAAATATATGATAAAAAATAAAAAAT
5485234 ATATAAAAATATATGATAAAAAATA
1 ATATAAAAATATATGATAAAAAATA
5485259 TATTAGATAA
Statistics
Matches: 92, Mismatches: 14, Indels: 27
0.69 0.11 0.20
Matches are distributed among these distances:
28 14 0.15
29 9 0.10
30 8 0.09
31 27 0.29
32 6 0.07
33 18 0.20
34 1 0.01
35 3 0.03
36 6 0.07
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (31 bp):
ATATAAAAATATATGATAAAAAATAAAAAAT
Found at i:5487429 original size:14 final size:14
Alignment explanation
Indices: 5487382--5487429 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
5487372 GTACAAATGG
* *
5487382 AATGGTAGGAACGA
1 AATGGTAAGAACAA
*
5487396 AAGGGTAAGAACAA
1 AATGGTAAGAACAA
*
5487410 AATGGTATGAACAA
1 AATGGTAAGAACAA
*
5487424 ATTGGT
1 AATGGT
5487430 CGGTTTAGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.46, C:0.06, G:0.29, T:0.19
Consensus pattern (14 bp):
AATGGTAAGAACAA
Found at i:5493945 original size:12 final size:12
Alignment explanation
Indices: 5493930--5493958 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
5493920 CGATTTTTTT
5493930 ATTTTTTTTCGA
1 ATTTTTTTTCGA
5493942 ATTTTTTTTCGA
1 ATTTTTTTTCGA
5493954 ATTTT
1 ATTTT
5493959 ATTTATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.69
Consensus pattern (12 bp):
ATTTTTTTTCGA
Found at i:5494361 original size:14 final size:14
Alignment explanation
Indices: 5494344--5494383 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
5494334 CGAATGGAAT
*
5494344 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
*
5494358 GGTAGGAACAAAAT
1 GGTAGGAACAAAAG
*
5494372 GGTAAGAACAAA
1 GGTAGGAACAAA
5494384 TTGGTCGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.33, T:0.10
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:5494388 original size:14 final size:14
Alignment explanation
Indices: 5494341--5494388 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
5494331 GTACGAATGG
* *
5494341 AATGGTAGGAACGA
1 AATGGTAAGAACAA
* *
5494355 AAGGGTAGGAACAA
1 AATGGTAAGAACAA
5494369 AATGGTAAGAACAA
1 AATGGTAAGAACAA
*
5494383 ATTGGT
1 AATGGT
5494389 CGATTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.46, C:0.06, G:0.31, T:0.17
Consensus pattern (14 bp):
AATGGTAAGAACAA
Found at i:5508161 original size:144 final size:144
Alignment explanation
Indices: 5507957--5508220 Score: 474
Period size: 144 Copynumber: 1.8 Consensus size: 144
5507947 AGATCTAATT
* *
5507957 CAACCAAATTCGTTAGTCTCCCAATATCTTCTGGAATGGATCCATTAAGTTGGTTTCTTTGAAGG
1 CAACCAAATTCGTTAGTCTCCCAATATCTTCTGGAATGGATCCATCAAGTTGGTTGCTTTGAAGG
* *
5508022 GACAACGGGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTGGACCAAAAAGATAACTGGG
66 AACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTGGACCAAAAAGATAACTGGG
5508087 GGATAGATTCAGTG
131 GGATAGATTCAGTG
5508101 CAACCAAATTCGTTAGTCTCCCAATATCTTCTGGAATGGATCCATCAAGTTGGTTGCTTTGAAGG
1 CAACCAAATTCGTTAGTCTCCCAATATCTTCTGGAATGGATCCATCAAGTTGGTTGCTTTGAAGG
* *
5508166 AACAACGAGGCAAGATTGGTTAAGTTGCTGATAGATGATGGGATTGGACCAAAAA
66 AACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTGGACCAAAAA
5508221 ACCAATTGTT
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
144 114 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (144 bp):
CAACCAAATTCGTTAGTCTCCCAATATCTTCTGGAATGGATCCATCAAGTTGGTTGCTTTGAAGG
AACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTGGACCAAAAAGATAACTGGG
GGATAGATTCAGTG
Found at i:5510597 original size:34 final size:35
Alignment explanation
Indices: 5510553--5510619 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
5510543 CAGTAAAATA
* * *
5510553 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACAGGAAAATATTTTAC
*
5510587 TTTTCTGTAAAATGACTTACAGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACAGGAAAATATTTT
5510620 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACAGGAAAATATTTTAC
Found at i:5510606 original size:20 final size:20
Alignment explanation
Indices: 5510568--5510606 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5510558 CGTAAAATGA
**
5510568 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
5510588 TTTCTGTAAAATGACTTAC
1 TTTCTGGAAAATGACTTAC
5510607 AGGAAAATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:5515469 original size:22 final size:23
Alignment explanation
Indices: 5515430--5515478 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
5515420 ATGCATAGCG
*
5515430 TATATATAAAAACGTATACGTA-A
1 TATATATAAAAACATATA-GTATA
*
5515453 TATA-ATAAAAATATATAGTATA
1 TATATATAAAAACATATAGTATA
5515475 TATA
1 TATA
5515479 CATGTTAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 3 0.13
22 16 0.70
23 4 0.17
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (23 bp):
TATATATAAAAACATATAGTATA
Found at i:5519103 original size:27 final size:27
Alignment explanation
Indices: 5519073--5519644 Score: 704
Period size: 27 Copynumber: 21.2 Consensus size: 27
5519063 AAAGTACTCC
**
5519073 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5519100 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * **
5519127 CGATTTTTAAAATTATTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5519154 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5519181 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5519208 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
5519235 CGATTTATAGAATTATTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5519262 C-AGTTTACAAAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5519289 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
5519316 CAATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5519343 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5519370 C-AGTTTATAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5519397 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
5519424 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5519451 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
5519478 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5519505 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
5519532 CGATTTGTAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
5519559 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5519586 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5519613 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5519640 TGATT
1 CGATT
5519645 GTGAAATTAC
Statistics
Matches: 471, Mismatches: 64, Indels: 20
0.85 0.12 0.04
Matches are distributed among these distances:
26 5 0.01
27 461 0.98
28 5 0.01
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:5519222 original size:108 final size:108
Alignment explanation
Indices: 5519073--5519644 Score: 835
Period size: 108 Copynumber: 5.3 Consensus size: 108
5519063 AAAGTACTCC
* * * ** *
5519073 CGATTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTTTAAA
1 CGATTTACAGAATTACCATTTTACCCTCGATTTTTAAAATTACCGTTTTACCCTCGATTTACAGA
*
5519138 ATTATTGTTTTACCCTC-GATTTACAGAATTACCGTTTTACCCT
66 ATTACTGTTTTACCCTCAG-TTTACAGAATTACCGTTTTACCCT
* * *
5519181 CGATTTATAGAATTACCGTTTTACCCTCGATTTTTAAAATTACCGTTTTACCCTCGATTTATAGA
1 CGATTTACAGAATTACCATTTTACCCTCGATTTTTAAAATTACCGTTTTACCCTCGATTTACAGA
* *
5519246 ATTATTGTTTTACCCTCAGTTTACAAAATTACCGTTTTACCCT
66 ATTACTGTTTTACCCTCAGTTTACAGAATTACCGTTTTACCCT
*
5519289 CGATTTACAGAATTACCATTTTACCCTCAATTTTTAAAATTACCGTTTTACCCTCGATTTACAGA
1 CGATTTACAGAATTACCATTTTACCCTCGATTTTTAAAATTACCGTTTTACCCTCGATTTACAGA
* *
5519354 ATTACCGTTTTACCCTCAGTTTATAGAATTACCGTTTTACCCT
66 ATTACTGTTTTACCCTCAGTTTACAGAATTACCGTTTTACCCT
* * * **
5519397 CGATTTATAGAATTACCGTTTTACCCTC-A-GTTTACAGAATTACTATTTTACCCTCGATTTACA
1 CGATTTACAGAATTACCATTTTACCCTCGATTTTTA-A-AATTACCGTTTTACCCTCGATTTACA
**
5519460 GAATTACTGTTTTACCCTCAGTTTACAGAATTATTGTTTTACCCT
64 GAATTACTGTTTTACCCTCAGTTTACAGAATTACCGTTTTACCCT
* * *
5519505 CGATTTACAGAATTACCATTTTACCCTCGATTTGTAAAATTATCGTTTTACCCTTGATTTACAGA
1 CGATTTACAGAATTACCATTTTACCCTCGATTTTTAAAATTACCGTTTTACCCTCGATTTACAGA
* * *
5519570 ATTACTGGTTTACCCTCAGTTTACAAAATTATCGTTTTACCCT
66 ATTACTGTTTTACCCTCAGTTTACAGAATTACCGTTTTACCCT
*
5519613 CGATTTACAGAATTACCATTTTACCCTTGATT
1 CGATTTACAGAATTACCATTTTACCCTCGATT
5519645 GTGAAATTAC
Statistics
Matches: 422, Mismatches: 37, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
106 4 0.01
107 2 0.00
108 410 0.97
109 3 0.01
110 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.41
Consensus pattern (108 bp):
CGATTTACAGAATTACCATTTTACCCTCGATTTTTAAAATTACCGTTTTACCCTCGATTTACAGA
ATTACTGTTTTACCCTCAGTTTACAGAATTACCGTTTTACCCT
Found at i:5519679 original size:27 final size:27
Alignment explanation
Indices: 5519649--5519826 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
5519639 TTGATTGTGA
5519649 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
5519676 AATT-TTCGAAATACCCCTATAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * *
5519703 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
5519730 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
5519757 AATTA-TCGAAATACCCTTGTAGGGTAA
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * * *
5519784 AAATACCGAAATACTCCTGTAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
5519811 AATTACCGAGATACCC
1 AATTACTGAAATACCC
5519827 TTTTGAGGTA
Statistics
Matches: 124, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.01
27 122 0.98
28 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:5519717 original size:54 final size:54
Alignment explanation
Indices: 5519649--5519828 Score: 227
Period size: 54 Copynumber: 3.3 Consensus size: 54
5519639 TTGATTGTGA
* ** *
5519649 AATTACTGAAATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
5519703 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
5519757 AATTA-TCGAAATACCCTTGTAGGGTAAAAATACCGAAATACTCCTGTAGGATAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
5519811 AATTACCGAGATACCCTT
1 AATTACTGAAATACCCTT
5519829 TTGAGGTAAA
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 107 0.99
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:5519842 original size:81 final size:81
Alignment explanation
Indices: 5519657--5519826 Score: 243
Period size: 81 Copynumber: 2.1 Consensus size: 81
5519647 GAAATTACTG
* * * *
5519657 AAATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTA
1 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAAAAATACCGAAATACCCTTA
5519722 TAGGATAGAATTACCA
66 TAGGATAGAATTACCA
* *
5519738 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAAAAATACCGAAATACTCC-T
1 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAAAAATACCGAAATAC-CCTT
* *
5519802 GTAGGATAGAATTACCG
65 ATAGGATAGAATTACCA
*
5519819 AGATACCC
1 AAATACCC
5519827 TTTTGAGGTA
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 77 0.97
82 2 0.03
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.25
Consensus pattern (81 bp):
AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAAAAATACCGAAATACCCTTA
TAGGATAGAATTACCA
Found at i:5520081 original size:27 final size:26
Alignment explanation
Indices: 5520043--5520128 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 26
5520033 CGGAGGAAGC
5520043 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
5520070 GTTCTGGTGGCTGTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * *
5520096 GTATCTGGTGACTCTGTCACGATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
5520123 GTTCTG
1 GTTCTG
5520129 TCAGCCATGC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 13 0.25
27 40 0.75
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:5520256 original size:6 final size:6
Alignment explanation
Indices: 5520247--5520387 Score: 132
Period size: 6 Copynumber: 23.2 Consensus size: 6
5520237 TTGCATTCAC
*
5520247 ATTCTG ATTCTG ATTCTG -TTACGTA ATTCTG ATTCTG -TTACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATT-CTG ATTCTG
* * *
5520296 ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG
5520345 ATAT-TG ATTCTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG A
1 AT-TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG A
5520388 GTCTCATTTT
Statistics
Matches: 113, Mismatches: 8, Indels: 28
0.76 0.05 0.19
Matches are distributed among these distances:
5 10 0.09
6 90 0.80
7 9 0.08
8 4 0.04
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:5520308 original size:43 final size:42
Alignment explanation
Indices: 5520247--5520387 Score: 151
Period size: 43 Copynumber: 3.2 Consensus size: 42
5520237 TTGCATTCAC
5520247 ATTCTGATTCTGATTCTGTTACGTAATTCTGATTCTGTTACTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTGATTCTGTTACTG
*
5520290 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATT-CTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTGATTCTG-TTACTG
* *
5520333 ATTCTGTTACTAATATTGATTCTGATT-CTGATTCTGATTCTGTTACTG
1 ATTCTG--A-T--T-CTGATTCTG-TTACTAATTCTGATTCTGTTACTG
5520381 ATTCTGA
1 ATTCTGA
5520388 GTCTCATTTT
Statistics
Matches: 84, Mismatches: 4, Indels: 17
0.80 0.04 0.16
Matches are distributed among these distances:
43 43 0.51
44 3 0.04
45 1 0.01
46 2 0.02
47 2 0.02
48 24 0.29
49 8 0.10
50 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (42 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTGATTCTGTTACTG
Found at i:5522356 original size:27 final size:27
Alignment explanation
Indices: 5522326--5522923 Score: 740
Period size: 27 Copynumber: 22.2 Consensus size: 27
5522316 AAAGTATTCC
*
5522326 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5522353 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
5522380 CGATTTTTAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5522407 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5522434 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5522461 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** * *
5522488 TGATTTTTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5522515 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
5522542 C-AGTTTACAAAATTACCATTTTACCAT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5522569 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5522596 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5522623 CGATTTACAGAATTACCGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
5522650 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
**
5522677 CGATTTACAGAATTACTATTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* **
5522703 CCAGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5522731 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5522758 CAATTTACAGAATTACTG-TTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5522784 CGATTTACAGAATTACCGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
5522811 CGATTTGTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
5522838 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
5522865 C-AGTTTACAAAATTATCGTTTTACACT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5522892 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5522919 TGATT
1 CGATT
5522924 GTGAAATTAC
Statistics
Matches: 493, Mismatches: 67, Indels: 22
0.85 0.12 0.04
Matches are distributed among these distances:
26 30 0.06
27 457 0.93
28 6 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:5522992 original size:54 final size:54
Alignment explanation
Indices: 5522928--5523123 Score: 243
Period size: 54 Copynumber: 3.6 Consensus size: 54
5522918 TTGATTGTGA
* * * *
5522928 AATTACTGAAATACCCCTGTAGGGTAGAATTTCCGAAATACCCCTATAGTGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
5522982 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
5523036 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACTCTTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
5523090 AATTACTGAGATACCCTGGT-GAGGTAAAATTACC
1 AATTACTGAAATACCCTTGTAG-GGTAGAATTACC
5523124 ATTTTTCCCC
Statistics
Matches: 122, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
53 2 0.02
54 119 0.98
55 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:5523115 original size:27 final size:27
Alignment explanation
Indices: 5522928--5523106 Score: 207
Period size: 27 Copynumber: 6.6 Consensus size: 27
5522918 TTGATTGTGA
*
5522928 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * * * *
5522955 AATTTCCGAAATACCCCTATAGTGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
5522982 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCTTGTAGGGTAG
** *
5523009 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
5523036 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAG
* * *
5523063 AAATACCGAAATACTCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
*
5523090 AATTACTGAGATACCCT
1 AATTACTGAAATACCCT
5523107 GGTGAGGTAA
Statistics
Matches: 126, Mismatches: 24, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
27 126 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:5523121 original size:81 final size:82
Alignment explanation
Indices: 5522928--5523105 Score: 243
Period size: 81 Copynumber: 2.2 Consensus size: 82
5522918 TTGATTGTGA
* * *
5522928 AATTACTGAAATACCCCTGTAGGGTAGAATT-TCCGAAATACCCCTATAGTGTAGAATTACTGAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTATCCGAAATACCCCTATAGGGTAGAAATACCGAA
5522992 ATACCCTTATAGGATAG
66 ATACCCTTATAGGATAG
** * *
5523009 AATTACCAAAATACCCCTGTAGGGTAGAATTAT-CGAAATACCCTTGTAGGGTAGAAATACCGAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTATCCGAAATACCCCTATAGGGTAGAAATACCGAA
* * *
5523073 ATACTCTTGTAGGGTAG
66 ATACCCTTATAGGATAG
*
5523090 AATTACTGAGATACCC
1 AATTACTGAAATACCC
5523106 TGGTGAGGTA
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 82 0.99
82 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (82 bp):
AATTACTGAAATACCCCTGTAGGGTAGAATTATCCGAAATACCCCTATAGGGTAGAAATACCGAA
ATACCCTTATAGGATAG
Found at i:5523360 original size:27 final size:26
Alignment explanation
Indices: 5523322--5523408 Score: 111
Period size: 27 Copynumber: 3.3 Consensus size: 26
5523312 CGGAGGAAGA
5523322 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
5523349 GTTCTGGTGGCTGTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * *
5523375 GTATCTGGTGACTCTGTCACGATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
5523402 GTTCTGG
1 GTTCTGG
5523409 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 14 0.26
27 40 0.74
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:5523559 original size:19 final size:19
Alignment explanation
Indices: 5523535--5523605 Score: 70
Period size: 19 Copynumber: 3.5 Consensus size: 19
5523525 CATTCTGATA
5523535 CTGATTCTGTCACGTAATT
1 CTGATTCTGTCACGTAATT
* *
5523554 CTGATTCTGTTACTGATTCTGATT
1 CTGATTCTGTCAC-G----TAATT
*
5523578 CTGATTCTGTCACCTAATT
1 CTGATTCTGTCACGTAATT
5523597 CTGATTCTG
1 CTGATTCTG
5523606 ATTCTGATTC
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
19 25 0.60
20 1 0.02
24 16 0.38
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.45
Consensus pattern (19 bp):
CTGATTCTGTCACGTAATT
Found at i:5523562 original size:6 final size:6
Alignment explanation
Indices: 5523551--5523672 Score: 119
Period size: 6 Copynumber: 20.2 Consensus size: 6
5523541 CTGTCACGTA
* *
5523551 ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
5523600 ATTCTG ATTCTG ATTCTG -TTAATA ATAT-TG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG
5523648 ATTCTG ATTCTG -TTACTG ATTCTG A
1 ATTCTG ATTCTG ATT-CTG ATTCTG A
5523673 GTCTCATTTT
Statistics
Matches: 98, Mismatches: 7, Indels: 22
0.77 0.06 0.17
Matches are distributed among these distances:
5 8 0.08
6 81 0.83
7 7 0.07
8 2 0.02
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:5523574 original size:18 final size:19
Alignment explanation
Indices: 5523529--5523672 Score: 113
Period size: 18 Copynumber: 7.5 Consensus size: 19
5523519 CATTCACATT
* *
5523529 CTGATACTGATTCTG-TCA
1 CTGATTCTGATTCTGATTA
*
5523547 CGTAATTCTGATTCTG-TTA
1 C-TGATTCTGATTCTGATTA
5523566 CTGATTCTGATTCTGATT-
1 CTGATTCTGATTCTGATTA
* *
5523584 CTG-TCACCTAATTCTGATT-
1 CTGAT--TCTGATTCTGATTA
5523603 CTGATTCTGATTCTGTTAATAATA
1 CTGATTCTGATTCTG---AT--TA
*
5523627 TTGATTCTGATTCTGATT-
1 CTGATTCTGATTCTGATTA
5523645 CTGATTCTGATTCTG-TTA
1 CTGATTCTGATTCTGATTA
5523663 CTGATTCTGA
1 CTGATTCTGA
5523673 GTCTCATTTT
Statistics
Matches: 104, Mismatches: 10, Indels: 24
0.75 0.07 0.17
Matches are distributed among these distances:
17 3 0.03
18 49 0.47
19 32 0.31
20 1 0.01
21 4 0.04
23 1 0.01
24 14 0.13
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.47
Consensus pattern (19 bp):
CTGATTCTGATTCTGATTA
Found at i:5523587 original size:43 final size:43
Alignment explanation
Indices: 5523526--5523671 Score: 165
Period size: 43 Copynumber: 3.4 Consensus size: 43
5523516 TTGCATTCAC
*
5523526 ATTCTGATACTGATTCTGTCACGTAATTCTGATTCTG-TTACTG
1 ATTCTGATACTGATTCTGTCACCTAATTCTGATTCTGATT-CTG
*
5523569 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTG
1 ATTCTGATACTGATTCTGTCACCTAATTCTGATTCTGATTCTG
* * * * *
5523612 ATTCTGTTAATAATAT-TG--ATTCTGATTCTGATTCTGATTCTG
1 ATTCTGATACTGAT-TCTGTCA-CCTAATTCTGATTCTGATTCTG
*
5523654 ATTCTGTTACTGATTCTG
1 ATTCTGATACTGATTCTG
5523672 AGTCTCATTT
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
41 2 0.02
42 34 0.38
43 50 0.56
44 3 0.03
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.47
Consensus pattern (43 bp):
ATTCTGATACTGATTCTGTCACCTAATTCTGATTCTGATTCTG
Found at i:5525682 original size:27 final size:27
Alignment explanation
Indices: 5525610--5526203 Score: 729
Period size: 27 Copynumber: 22.2 Consensus size: 27
5525600 AAAGTATTCC
**
5525610 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5525637 CG-TTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
5525663 CAATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5525690 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5525717 C-AGTTTACAGAATTACCGTTTTACCAT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5525744 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** * *
5525771 TGATTTTTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5525798 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
5525825 C-AGTTTACAAAATTACCATTTTACCAT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5525852 CGATTTACAGAATTACCG-TTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5525878 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5525905 TGATTTACAGAATTACCGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
5525932 C-AGTTAAAGAATTACCGTTTTACCAT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5525958 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
5525985 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5526012 CGATTTACAGAATTACCG-TTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5526038 CAATTTACAGAATTACTG-TTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5526064 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5526091 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
5526118 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5526145 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
5526172 CGATTTACAGAATTAGCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5526199 TGATT
1 CGATT
5526204 GTGAAATTAC
Statistics
Matches: 484, Mismatches: 71, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
26 120 0.25
27 360 0.74
28 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:5526215 original size:160 final size:161
Alignment explanation
Indices: 5525628--5526186 Score: 799
Period size: 160 Copynumber: 3.5 Consensus size: 161
5525618 AGAATTACTA
* ** *
5525628 TTTTACCCTCG-TTTACAGAATTACCGTTTTACCCTCAATTTTTAAAATTACCGTTTTACCCTCG
1 TTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAAAATTACCATTTTACCCTCG
* *
5525692 ATTTACAGAATTATCGTTTTACCCTC-AGTTTACAGAATTACCGTTTTACCATCGATTTACAGAA
66 ATTTACAGAATTACCG-TTTACCCTCGAGTTTACAGAATTACCGTTTTACCCTCGATTTACAGAA
* *
5525756 TTACCGTTTTACCCTTGATTTTTAAAATTACCA
130 TTACCGTTTTACCCTCGA-TTTTAAAATTACCG
*
5525789 TTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAAAATTACCATTTTACCATCG
1 TTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAAAATTACCATTTTACCCTCG
* *
5525854 ATTTACAGAATTACCGTTTACCCTCGATTTTTA-A-AATTACCGTTTTACCCTTGATTTACAGAA
66 ATTTACAGAATTACCGTTTACCCTCGA-GTTTACAGAATTACCGTTTTACCCTCGATTTACAGAA
* * *
5525917 TTACCGTTTTACCTTC-AGTTAAAGAATTACCG
130 TTACCGTTTTACCCTCGATTTTAA-AATTACCG
* * * *
5525949 TTTTACCATCGATTTACAGAATTACTGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCG
1 TTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAAAATTACCATTTTACCCTCG
* *
5526014 ATTTACAGAATTACCGTTTACCCTC-AATTTACAGAATTACTG-TTTACCCTCGATTTACAGAAT
66 ATTTACAGAATTACCGTTTACCCTCGAGTTTACAGAATTACCGTTTTACCCTCGATTTACAGAAT
5526077 TACCGTTTTACCCTCGATTTGTAAAATTACCG
131 TACCGTTTTACCCTCGATTT-TAAAATTACCG
* * * * *
5526109 TTTTACCCTTGATTTACAGAATTACTGGTTTACCCTCAGTTTACAAAATTATCGTTTTACCCTCG
1 TTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAAAATTACCATTTTACCCTCG
5526174 ATTTACAGAATTA
66 ATTTACAGAATTA
5526187 GCATTTTACC
Statistics
Matches: 358, Mismatches: 32, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
158 4 0.01
159 40 0.11
160 182 0.51
161 63 0.18
162 65 0.18
163 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (161 bp):
TTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAAAATTACCATTTTACCCTCG
ATTTACAGAATTACCGTTTACCCTCGAGTTTACAGAATTACCGTTTTACCCTCGATTTACAGAAT
TACCGTTTTACCCTCGATTTTAAAATTACCG
Found at i:5526388 original size:27 final size:27
Alignment explanation
Indices: 5526208--5526402 Score: 223
Period size: 27 Copynumber: 7.2 Consensus size: 27
5526198 TTGATTGTGA
*
5526208 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * * *
5526235 AATTTCTGAAATACCCCTATAGTGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
5526262 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCTTGTAGGGTAG
** *
5526289 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
5526316 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAG
* * *
5526343 AAATACCGAAATACTCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
5526370 AATTACTGAGATACCCTTGT-GAGGTAA
1 AATTACTGAAATACCCTTGTAG-GGTAG
5526397 AATTAC
1 AATTAC
5526403 CATTTTCCCC
Statistics
Matches: 142, Mismatches: 23, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 141 0.99
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:5526640 original size:27 final size:26
Alignment explanation
Indices: 5526602--5526688 Score: 111
Period size: 27 Copynumber: 3.3 Consensus size: 26
5526592 CGGAGGAAGC
5526602 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
5526629 GTTCTGGTGGCTGTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * *
5526655 GTATCTGGTGACTCTGTCACGATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
5526682 GTTCTGG
1 GTTCTGG
5526689 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 14 0.26
27 40 0.74
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:5526815 original size:6 final size:6
Alignment explanation
Indices: 5526806--5526934 Score: 106
Period size: 6 Copynumber: 21.2 Consensus size: 6
5526796 TTGCATTCAC
* * * *
5526806 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG AT--TCTG
*
5526856 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG
*
5526904 ATTCTT ATTCTG ATTCTG -TTACTG ATTCTG A
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG A
5526935 GTCTCATTTT
Statistics
Matches: 99, Mismatches: 12, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
5 7 0.07
6 82 0.83
7 7 0.07
8 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:5526834 original size:25 final size:25
Alignment explanation
Indices: 5526806--5526873 Score: 127
Period size: 25 Copynumber: 2.7 Consensus size: 25
5526796 TTGCATTCAC
*
5526806 ATTCTGATTCTGATTCTGTCACGTA
1 ATTCTGATTCTGATTCTGTCACCTA
5526831 ATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
5526856 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
5526874 ATTCTGTTAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:5526894 original size:30 final size:31
Alignment explanation
Indices: 5526831--5526908 Score: 124
Period size: 30 Copynumber: 2.5 Consensus size: 31
5526821 CTGTCACGTA
5526831 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTG
*
5526862 ATTCTGATTCTGATTCTGTTA-CTAATAT-TG
1 ATTCTGATTCTGATTCTGTCACCTAAT-TCTG
5526892 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
5526909 TATTCTGATT
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
30 24 0.53
31 21 0.47
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTG
Found at i:5528883 original size:53 final size:52
Alignment explanation
Indices: 5528836--5528936 Score: 134
Period size: 53 Copynumber: 2.0 Consensus size: 52
5528826 AATTACCAAA
* *
5528836 GTATT-CC-CGATTTACAGAATTACTTTTTACCCTCGATTTACAGAATTACC
1 GTATTACCTCGATTTACAAAATTACGTTTTACCCTCGATTTACAGAATTACC
* **
5528886 GTTTTACCCTCGATTTTTAAAATTACGTTTTACCCTCGATTTACAGAATTA
1 GTATTA-CCTCGATTTACAAAATTACGTTTTACCCTCGATTTACAGAATTA
5528937 TTTTATTACA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
50 4 0.09
52 2 0.05
53 37 0.86
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.41
Consensus pattern (52 bp):
GTATTACCTCGATTTACAAAATTACGTTTTACCCTCGATTTACAGAATTACC
Found at i:5528898 original size:27 final size:26
Alignment explanation
Indices: 5528843--5528936 Score: 143
Period size: 26 Copynumber: 3.6 Consensus size: 26
5528833 AAAGTATTCC
*
5528843 CGATTTACAGAATTACTTTTTACCCT
1 CGATTTACAGAATTACGTTTTACCCT
5528869 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTA-CGTTTTACCCT
** *
5528896 CGATTTTTAAAATTACGTTTTACCCT
1 CGATTTACAGAATTACGTTTTACCCT
5528922 CGATTTACAGAATTA
1 CGATTTACAGAATTA
5528937 TTTTATTACA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
26 38 0.63
27 22 0.37
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (26 bp):
CGATTTACAGAATTACGTTTTACCCT
Found at i:5529067 original size:1 final size:1
Alignment explanation
Indices: 5529061--5529104 Score: 88
Period size: 1 Copynumber: 44.0 Consensus size: 1
5529051 CAGAATTACC
5529061 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
5529105 ACCTCAGTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:5529130 original size:27 final size:27
Alignment explanation
Indices: 5529112--5529271 Score: 150
Period size: 26 Copynumber: 6.1 Consensus size: 27
5529102 TTTACCTCAG
5529112 TTTACAGAATTACTATTTTACCCTCGA
1 TTTACAGAATTACTATTTTACCCTCGA
**
5529139 TTTACAGAATTACCGTTTTACCCTC-A
1 TTTACAGAATTACTATTTTACCCTCGA
** * * *
5529165 TTTGTAAAATTACTGTTTTACCCTTGA
1 TTTACAGAATTACTATTTTACCCTCGA
*
5529192 TTTACAGAATTACT-GTTTACCCTC-A
1 TTTACAGAATTACTATTTTACCCTCGA
* ** *
5529217 GTTTACAAAATTA-TCGTTTACACTCGA
1 -TTTACAGAATTACTATTTTACCCTCGA
* *
5529244 TTTACAGAATTACCA-TTTACCCTTGA
1 TTTACAGAATTACTATTTTACCCTCGA
5529270 TT
1 TT
5529272 GTGAAATTAC
Statistics
Matches: 109, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
25 2 0.02
26 71 0.65
27 36 0.33
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (27 bp):
TTTACAGAATTACTATTTTACCCTCGA
Found at i:5529184 original size:53 final size:52
Alignment explanation
Indices: 5529119--5529283 Score: 192
Period size: 53 Copynumber: 3.2 Consensus size: 52
5529109 CAGTTTACAG
*
5529119 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCATTTGTAA
1 AATTACTGTTTTACCCTCGATTTACAGAATTACCG-TTTACCCTCATTTGTAA
* * **
5529172 AATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTACCCTCAGTTTACAA
1 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTACCCTCA-TTTGTAA
* * * *
5529225 AATTA-TCG-TTTACACTCGATTTACAGAATTACCATTTACCCTTGA-TTGTGA
1 AATTACT-GTTTTACCCTCGATTTACAGAATTACCGTTTACCC-TCATTTGTAA
5529276 AATTACTG
1 AATTACTG
5529284 AAATACCCCT
Statistics
Matches: 95, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
51 9 0.09
52 41 0.43
53 45 0.47
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.41
Consensus pattern (52 bp):
AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTACCCTCATTTGTAA
Found at i:5529246 original size:52 final size:52
Alignment explanation
Indices: 5529102--5529266 Score: 192
Period size: 53 Copynumber: 3.2 Consensus size: 52
5529092 TTTTTTTTTT
* **
5529102 TTTA-CCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCG
1 TTTACCCTCAGTTTACAAAATTA-TCGTTTACCCTCGATTTACAGAATTACCG
** * *
5529154 TTTTACCCTCA-TTTGTAAAATTA-CTGTTTTACCCTTGATTTACAGAATTACTG
1 -TTTACCCTCAGTTTACAAAATTATC-G-TTTACCCTCGATTTACAGAATTACCG
* *
5529207 TTTACCCTCAGTTTACAAAATTATCGTTTACACTCGATTTACAGAATTACCA
1 TTTACCCTCAGTTTACAAAATTATCGTTTACCCTCGATTTACAGAATTACCG
5529259 TTTACCCT
1 TTTACCCT
5529267 TGATTGTGAA
Statistics
Matches: 94, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
52 40 0.43
53 48 0.51
54 6 0.06
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.41
Consensus pattern (52 bp):
TTTACCCTCAGTTTACAAAATTATCGTTTACCCTCGATTTACAGAATTACCG
Found at i:5529306 original size:27 final size:27
Alignment explanation
Indices: 5529276--5529467 Score: 196
Period size: 27 Copynumber: 7.2 Consensus size: 27
5529266 TTGATTGTGA
5529276 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
5529303 AATTTCCGAAATA-CCCTATAGTGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
5529329 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
5529356 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
5529383 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * *
5529410 AAATACCGAAATA-CTCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
5529436 AATTACTGAGATA-CCCTGT-GAGGTAA
1 AATTACTGAAATACCCCTGTAG-GGTAG
5529462 AATTAC
1 AATTAC
5529468 CATTTTTCCC
Statistics
Matches: 135, Mismatches: 26, Indels: 9
0.79 0.15 0.05
Matches are distributed among these distances:
25 1 0.01
26 58 0.43
27 76 0.56
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:5529319 original size:53 final size:54
Alignment explanation
Indices: 5529276--5529468 Score: 218
Period size: 53 Copynumber: 3.6 Consensus size: 54
5529266 TTGATTGTGA
* *
5529276 AATTACTGAAATACCCCTGTAGGGTAGAATTTCCGAAATACCCT-ATAGTGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCTGATAGTGTAG
* * * *
5529329 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTG-TAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATA-CCCTGATAGTGTAG
* * *
5529383 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACTCTG-TAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCTGATAGTGTAG
* *
5529436 AATTACTGAGATACCC-TGT-GAGGTAAAATTACC
1 AATTACTGAAATACCCTTGTAG-GGTAGAATTACC
5529469 ATTTTTCCCT
Statistics
Matches: 121, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
51 1 0.01
52 13 0.11
53 61 0.50
54 46 0.38
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCTGATAGTGTAG
Found at i:5529450 original size:80 final size:80
Alignment explanation
Indices: 5529276--5529451 Score: 230
Period size: 80 Copynumber: 2.2 Consensus size: 80
5529266 TTGATTGTGA
* * *
5529276 AATTACTGAAATACCCCTGTAGGGTAGAATTTCCGAAATACCCTATAGTGTAGAATTACTGAAAT
1 AATTACTGAAATACCCCTGTAGGGTAGAATTTCCGAAATACCCTATAGGGTAGAAATACCGAAAT
5529341 ACCCTTATAGGATAG
66 ACCCTTATAGGATAG
** *
5529356 AATTACCAAAATACCCCTGTAGGGTAGAATTAT-CGAAATACCCTTGTAGGGTAGAAATACCGAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATT-TCCGAAATACCC-TATAGGGTAGAAATACCGAA
* * *
5529420 ATACTC-TGTAGGGTAG
64 ATACCCTTATAGGATAG
*
5529436 AATTACTGAGATACCC
1 AATTACTGAAATACCC
5529452 TGTGAGGTAA
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
80 60 0.73
81 22 0.27
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (80 bp):
AATTACTGAAATACCCCTGTAGGGTAGAATTTCCGAAATACCCTATAGGGTAGAAATACCGAAAT
ACCCTTATAGGATAG
Found at i:5529706 original size:26 final size:25
Alignment explanation
Indices: 5529668--5529745 Score: 93
Period size: 27 Copynumber: 3.0 Consensus size: 25
5529658 GAGGAAGTTC
5529668 TGGCTATGCACAATATCTGTTCTGG
1 TGGCTATGCACAATATCTGTTCTGG
*
5529693 TGGCTGTGCCACAATATCTGTATCTGG
1 TGGCTATG-CACAATATCTGT-TCTGG
* * *
5529720 TGACTCTGTCACGATATCTGTTCTGG
1 TGGCTATG-CACAATATCTGTTCTGG
5529746 CAGCCATGCT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
25 7 0.15
26 17 0.37
27 22 0.48
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (25 bp):
TGGCTATGCACAATATCTGTTCTGG
Found at i:5529736 original size:27 final size:26
Alignment explanation
Indices: 5529676--5529745 Score: 95
Period size: 27 Copynumber: 2.7 Consensus size: 26
5529666 TCTGGCTATG
* *
5529676 CACAATATCTGTTCTGGTGGCTGTGC
1 CACAATATCTGTTCTGGTGACTCTGC
*
5529702 CACAATATCTGTATCTGGTGACTCTGT
1 CACAATATCTGT-TCTGGTGACTCTGC
*
5529729 CACGATATCTGTTCTGG
1 CACAATATCTGTTCTGG
5529746 CAGCCATGCT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 17 0.44
27 22 0.56
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
CACAATATCTGTTCTGGTGACTCTGC
Found at i:5529888 original size:24 final size:24
Alignment explanation
Indices: 5529861--5529943 Score: 83
Period size: 24 Copynumber: 3.8 Consensus size: 24
5529851 TTGCATTCAC
5529861 ATTCT-ATTCTGATTCTGTCACGT
1 ATTCTGATTCTGATTCTGTCACGT
*
5529884 AATTCTAATTCTG-TTC--T---G-
1 -ATTCTGATTCTGATTCTGTCACGT
*
5529902 ATTCTGATTCTGATTCTGTCACCT
1 ATTCTGATTCTGATTCTGTCACGT
5529926 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
5529944 ATTCTGTTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
17 11 0.22
18 3 0.06
19 1 0.02
20 1 0.02
22 1 0.02
24 26 0.53
25 6 0.12
ACGTcount: A:0.18, C:0.20, G:0.13, T:0.48
Consensus pattern (24 bp):
ATTCTGATTCTGATTCTGTCACGT
Found at i:5529892 original size:6 final size:6
Alignment explanation
Indices: 5529885--5530010 Score: 120
Period size: 6 Copynumber: 21.2 Consensus size: 6
5529875 CTGTCACGTA
* *
5529885 ATTCTA ATTCTG -TTCTG ATTCTG ATTCTG ATTCTG -TCACCT- ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* * *
5529932 ATTCTG ATTCTG ATTCTG -TTAATA ATAT-TG ATTCTG ATTCTG ATTCTA
1 ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG
5529980 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG A
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG A
5530011 GTCTCATTTT
Statistics
Matches: 101, Mismatches: 8, Indels: 22
0.77 0.06 0.17
Matches are distributed among these distances:
5 13 0.13
6 81 0.80
7 6 0.06
8 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:5531968 original size:27 final size:27
Alignment explanation
Indices: 5531938--5532527 Score: 740
Period size: 27 Copynumber: 22.2 Consensus size: 27
5531928 AAAGTATTCC
**
5531938 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5531965 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5531992 C-ATTTTTAAAATTA-CGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5532017 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5532044 C-AGTTTACAGAATTACCGTTTTA-CCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5532070 CGATTTACAGAATTA-CGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** * *
5532096 TGATTTTTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5532123 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5532150 C-AGTTTACA-AATTACCATTTTACCAT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5532176 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5532203 CGATTTTA-A-AATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
5532229 GGATTTACAGAATTACCGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5532256 C-AGTTACAGAATTACCGTTTTACCAT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5532282 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
5532309 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5532336 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5532363 CAATTTACAGAATTACTG-TTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5532389 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5532416 CGATTTGTAAAATTA-CGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
5532442 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5532469 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5532496 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5532523 TGATT
1 CGATT
5532528 GTGAAATTAC
Statistics
Matches: 488, Mismatches: 56, Indels: 38
0.84 0.10 0.07
Matches are distributed among these distances:
25 23 0.05
26 166 0.34
27 293 0.60
28 6 0.01
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:5532081 original size:53 final size:53
Alignment explanation
Indices: 5531941--5532522 Score: 761
Period size: 53 Copynumber: 10.9 Consensus size: 53
5531931 GTATTCCCGA
** *
5531941 TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCATT
1 TTTACA-AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCA-G
*
5531996 TTTA-AAATTA-CGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAG
1 TTTACAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* *
5532047 TTTACAGAATTACCGTTTTA-CCTCGATTTACAGAATTA-CGTTTTACCCTTGATT
1 TTTACA-AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCC-TCA-G
*
5532101 TTTA-AAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
1 TTTACAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * *
5532153 TTTACAAATTACCATTTTACCATCGATTTACAGAATTACCGTTTTACCCTCGAT
1 TTTACAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-AG
* *
5532207 TTTA-AAATTACCGTTTTACCCTGGATTTACAGAATTACCGTTTTACCTTCAG
1 TTTACAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* *
5532259 -TTACAGAATTACCGTTTTACCATCGATTTACAGAATTACTGTTTTACCCTCAG
1 TTTACA-AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
** *
5532312 TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAA
1 TTTACA-AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * *
5532366 TTTACAGAATTACTG-TTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGAT
1 TTTACA-AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-AG
* * *
5532420 TTGTA-AAATTA-CGTTTTACCCTTGATTTACAGAATTACTGGTTTACCCTCAG
1 TT-TACAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* *
5532472 TTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCT
1 TTTAC-AAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
5532523 TGATTGTGAA
Statistics
Matches: 473, Mismatches: 36, Indels: 37
0.87 0.07 0.07
Matches are distributed among these distances:
51 9 0.02
52 70 0.15
53 261 0.55
54 127 0.27
55 6 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (53 bp):
TTTACAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
Found at i:5532549 original size:27 final size:28
Alignment explanation
Indices: 5532532--5532708 Score: 156
Period size: 27 Copynumber: 6.6 Consensus size: 28
5532522 TTGATTGTGA
*
5532532 AATTACTGAAATACCCCTG-TAGGGTAG
1 AATTACTGAAATACCCCTGATAGTGTAG
*
5532559 AATTTCTGAAATACCCCT-ATAGTGTAG
1 AATTACTGAAATACCCCTGATAGTGTAG
*
5532586 AATTACTGAAATA-CCCTTATAG-GATAG
1 AATTACTGAAATACCCCTGATAGTG-TAG
** *
5532613 AATTACCAAAATACCCCTG-TAGGGTAG
1 AATTACTGAAATACCCCTGATAGTGTAG
* *
5532640 AATTA-TCGAAATACCCTTG-TAGGGTAG
1 AATTACT-GAAATACCCCTGATAGTGTAG
* * * *
5532667 AAATACCGAAATA-CTCTG-TAGGGTAG
1 AATTACTGAAATACCCCTGATAGTGTAG
*
5532693 AATTACTGAGATACCC
1 AATTACTGAAATACCC
5532709 TTGTGAGGTA
Statistics
Matches: 125, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
26 26 0.21
27 94 0.75
28 5 0.04
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (28 bp):
AATTACTGAAATACCCCTGATAGTGTAG
Found at i:5532600 original size:54 final size:54
Alignment explanation
Indices: 5532532--5532726 Score: 243
Period size: 54 Copynumber: 3.6 Consensus size: 54
5532522 TTGATTGTGA
* * * * *
5532532 AATTACTGAAATACCCCTGTAGGGTAGAATTTCTGAAATACCCCTATAGTGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
5532586 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
5532640 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATA-CTCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
5532693 AATTACTGAGATACCCTTGT-GAGGTAAAATTACC
1 AATTACTGAAATACCCTTGTAG-GGTAGAATTACC
5532727 ATTTTCCCCT
Statistics
Matches: 122, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 1 0.01
53 40 0.33
54 81 0.66
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:5532634 original size:81 final size:80
Alignment explanation
Indices: 5532540--5532698 Score: 221
Period size: 81 Copynumber: 2.0 Consensus size: 80
5532530 GAAATTACTG
* * *
5532540 AAATACCCCTGTAGGGTAGAATT-TCTGAAATACCCCTATAGTGTAGAATTACTGAAATACCCTT
1 AAATACCCCTGTAGGGTAGAATTATC-GAAATACCCCTATAGGGTAGAAATACCGAAATACCC-T
5532604 ATAGGATAGAATTACCA
64 ATAGGATAGAATTACCA
* * * *
5532621 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATACCGAAATACTCTGT
1 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAATACCCTAT
*
5532686 AGGGTAGAATTAC
66 AGGATAGAATTAC
5532699 TGAGATACCC
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
80 14 0.20
81 53 0.77
82 2 0.03
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (80 bp):
AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAATACCCTAT
AGGATAGAATTACCA
Found at i:5532961 original size:27 final size:26
Alignment explanation
Indices: 5532923--5533009 Score: 111
Period size: 27 Copynumber: 3.3 Consensus size: 26
5532913 CGGAGGAAGC
5532923 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
5532950 GTTCTGGTGGCTGTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * *
5532976 GTATCTGGTGACTCTGTCACGATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
5533003 GTTCTGG
1 GTTCTGG
5533010 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 14 0.26
27 40 0.74
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:5533136 original size:6 final size:6
Alignment explanation
Indices: 5533127--5533249 Score: 103
Period size: 6 Copynumber: 20.2 Consensus size: 6
5533117 TTGCATTCAC
* * * *
5533127 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG AT--TCTG
*
5533177 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG
5533225 ATTCTG ATTCTG -TTACTG ATTCTG A
1 ATTCTG ATTCTG ATT-CTG ATTCTG A
5533250 GTCTCATTTT
Statistics
Matches: 95, Mismatches: 10, Indels: 24
0.74 0.08 0.19
Matches are distributed among these distances:
5 7 0.07
6 78 0.82
7 7 0.07
8 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:5533155 original size:25 final size:25
Alignment explanation
Indices: 5533127--5533194 Score: 127
Period size: 25 Copynumber: 2.7 Consensus size: 25
5533117 TTGCATTCAC
*
5533127 ATTCTGATTCTGATTCTGTCACGTA
1 ATTCTGATTCTGATTCTGTCACCTA
5533152 ATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
5533177 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
5533195 ATTCTGTTAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:5533215 original size:30 final size:31
Alignment explanation
Indices: 5533152--5533230 Score: 126
Period size: 30 Copynumber: 2.6 Consensus size: 31
5533142 CTGTCACGTA
5533152 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTG
*
5533183 ATTCTGATTCTGATTCTGTTA-CTAATAT-TG
1 ATTCTGATTCTGATTCTGTCACCTAAT-TCTG
5533213 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
5533231 ATTCTGTTAC
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
30 25 0.54
31 21 0.46
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTG
Found at i:5535221 original size:53 final size:52
Alignment explanation
Indices: 5535183--5535764 Score: 665
Period size: 53 Copynumber: 11.0 Consensus size: 52
5535173 AGTATTCCCG
*
5535183 ATTTACAGAATTACTATTTTACCTCGATTTACAGAATTACCGTTTTACCCTC
1 ATTTACAGAATTACCATTTTACCTCGATTTACAGAATTACCGTTTTACCCTC
** * * *
5535235 ATTTTTAAAATTACCGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTC
1 ATTTACAGAATTACCATTTTA-CCTCGATTTACAGAATTACCGTTTTACCCTC
* * *
5535288 AGTTACAGAATTACCGTTTTACCATCGATTTACA-AATTACCGTTTTACCCTTG
1 ATTTACAGAATTACCATTTTACC-TCGATTTACAGAATTACCGTTTTACCC-TC
** *
5535341 ATTTTTAAAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC
1 ATTTACAGAATTACCATTTTA-CCTCGATTTACAGAATTACCGTTTTACCCTC
5535394 AGTTTACA-AATTACCATTTTACCATCGATTTACAGAATTACCGTTTTACCCTC
1 A-TTTACAGAATTACCATTTTACC-TCGATTTACAGAATTACCGTTTTACCCTC
** * * *
5535447 GATTTTTAAAATTACCGTTTTACC-CTGATTTACAGAATTACCGTTTTACCTTC
1 -ATTTACAGAATTACCATTTTACCTC-GATTTACAGAATTACCGTTTTACCCTC
* * *
5535500 AGTTACAGAATTACCGTTTTACCATCGATTTACAGAATTACTGTTTTACCCTC
1 ATTTACAGAATTACCATTTTACC-TCGATTTACAGAATTACCGTTTTACCCTC
*
5535553 AGTTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC
1 A-TTTACAGAATTACCATTTTA-CCTCGATTTACAGAATTACCGTTTTACCCTC
5535607 AATTTACAGAA-TA-C-TGTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC
1 -ATTTACAGAATTACCAT-TTTA-CCTCGATTTACAGAATTACCGTTTTACCCTC
** * * * * *
5535659 GATTTGTAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGGTTTACCCTC
1 -ATTTACAGAATTACCATTTTA-CCTCGATTTACAGAATTACCGTTTTACCCTC
* * * *
5535713 AGTTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTA-CATTTTACCCT
1 A-TTTACAGAATTACCATTTTA-CCTCGATTTACAGAATTACCGTTTTACCCT
5535765 TGATTGTGAA
Statistics
Matches: 461, Mismatches: 49, Indels: 39
0.84 0.09 0.07
Matches are distributed among these distances:
51 1 0.00
52 98 0.21
53 197 0.43
54 161 0.35
55 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (52 bp):
ATTTACAGAATTACCATTTTACCTCGATTTACAGAATTACCGTTTTACCCTC
Found at i:5535273 original size:27 final size:27
Alignment explanation
Indices: 5535181--5535769 Score: 736
Period size: 27 Copynumber: 22.2 Consensus size: 27
5535171 AAAGTATTCC
**
5535181 CGATTTACAGAATTACTATTTTA-CCT
1 CGATTTACAGAATTACCGTTTTACCCT
5535207 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5535234 C-ATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5535260 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5535287 C-AGTTACAGAATTACCGTTTTACCAT
1 CGATTTACAGAATTACCGTTTTACCCT
5535313 CGATTTACA-AATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** * *
5535339 TGATTTTTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5535366 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5535393 C-AGTTTACA-AATTACCATTTTACCAT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5535419 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5535446 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5535473 -GATTTACAGAATTACCGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5535499 C-AGTTACAGAATTACCGTTTTACCAT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5535525 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
5535552 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5535579 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5535606 CAATTTACAGAA-TACTG-TTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5535631 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5535658 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
5535685 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5535712 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5535739 CGATTTACAGAATTA-CATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5535765 TGATT
1 CGATT
5535770 GTGAAATTAC
Statistics
Matches: 485, Mismatches: 63, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
25 19 0.04
26 182 0.38
27 282 0.58
28 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:5535441 original size:133 final size:133
Alignment explanation
Indices: 5535181--5535769 Score: 716
Period size: 133 Copynumber: 4.4 Consensus size: 133
5535171 AAAGTATTCC
** * ** *
5535181 CGATTTACAGAATTACTATTTTA-CCTCGATTTACAGAATTACCGTTTTACCCTC-ATTTTTAAA
1 CGATTTACA-AATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGA
* *
5535244 ATTACCGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAGTTACAGAATTACCGTTTTA
65 ATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCATTTACAGAATTACCGTTTTA
*
5535309 CCAT
130 CCCT
* ** *
5535313 CGATTTACAAATTACCGTTTTACCCTTGATTTTTAAAATTACCATTTTACCCTCGATTTACAGAA
1 CGATTTACAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAA
* *
5535378 TTACCGTTTTACCCTC-AGTTTACA-AATTACCATTTTACCATCGATTTACAGAATTACCGTTTT
66 TTACCGTTTTACCCTCGA-TTTACAGAATTACCGTTTTACCCTC-ATTTACAGAATTACCGTTTT
5535441 ACCCT
129 ACCCT
* * *
5535446 CGATTTTTA-AAATTACCGTTTTACCCT-GATTTACAGAATTACCGTTTTACCTTC-AGTTACAG
1 CGA--TTTACAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAG
* * **
5535508 AATTACCGTTTTACCATCGATTTACAGAATTACTGTTTTACCCTCAGTTTACAGAATTACTATTT
64 AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCA-TTTACAGAATTACCGTTT
5535573 TACCCT
128 TACCCT
*
5535579 CGATTTACAGAATTACCGTTTTACCCTCAATTTACAGAA-TA-C-TGTTTACCCTCGATTTACAG
1 CGATTTACA-AATTACCGTTTTACCCTCGATTTACAGAATTACCAT-TTTACCCTCGATTTACAG
** * * * *
5535641 AATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGGTT
64 AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCC-TCATTTACAGAATTACCGTTT
5535706 TACCCT
128 TACCCT
* *
5535712 C-AGTTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTA-CATTTTACCCTTGATT
1 CGA-TTTAC-AAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATT
5535770 GTGAAATTAC
Statistics
Matches: 397, Mismatches: 41, Indels: 36
0.84 0.09 0.08
Matches are distributed among these distances:
131 16 0.04
132 93 0.23
133 237 0.60
134 46 0.12
135 5 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (133 bp):
CGATTTACAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAA
TTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCATTTACAGAATTACCGTTTTAC
CCT
Found at i:5535779 original size:106 final size:108
Alignment explanation
Indices: 5535184--5535769 Score: 845
Period size: 106 Copynumber: 5.5 Consensus size: 108
5535174 GTATTCCCGA
** *
5535184 TTTACAGAATTACTATTTTACC-TCGATTTACAGAATTACCGTTTTACCC-TCATTTTTAAAATT
1 TTTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTTGATTTTTAAAATT
*
5535247 ACCGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAG
66 ACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
5535290 -TTACAGAATTACCGTTTTACCATCGATTTACA-AATTACCGTTTTACCCTTGATTTTTAAAATT
1 TTTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTTGATTTTTAAAATT
*
5535353 ACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
66 ACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* *
5535396 TTTACA-AATTACCATTTTACCATCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATT
1 TTTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTTGATTTTTAAAATT
*
5535460 ACCGTTTTACCCT-GATTTACAGAATTACCGTTTTACCTTCAG
66 ACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * *
5535502 -TTACAGAATTACCGTTTTACCATCGATTTACAGAATTACTGTTTTACCC-TCA-GTTTACAGAA
1 TTTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTTGATTTTTA-A-AA
** *
5535564 TTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAA
64 TTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * * *
5535609 TTTACAGAA-TACTG-TTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTGTAAAATT
1 TTTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTTGATTTTTAAAATT
* * *
5535672 ACCGTTTTACCCTTGATTTACAGAATTACTGGTTTACCCTCAG
66 ACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * * *
5535715 TTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTA-CATTTTACCCTTGATT
1 TTTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTTGATT
5535770 GTGAAATTAC
Statistics
Matches: 431, Mismatches: 36, Indels: 25
0.88 0.07 0.05
Matches are distributed among these distances:
104 4 0.01
105 42 0.10
106 254 0.59
107 97 0.23
108 34 0.08
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (108 bp):
TTTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTTGATTTTTAAAATT
ACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
Found at i:5535804 original size:27 final size:27
Alignment explanation
Indices: 5535774--5535968 Score: 223
Period size: 27 Copynumber: 7.2 Consensus size: 27
5535764 TTGATTGTGA
*
5535774 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * * *
5535801 AATTTCTGAAATACCCCTATAGTGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
5535828 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCTTGTAGGGTAG
** *
5535855 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
5535882 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAG
* * *
5535909 AAATACCGAAATACTCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
5535936 AATTACTGAGATACCCTTGT-GAGGTAA
1 AATTACTGAAATACCCTTGTAG-GGTAG
5535963 AATTAC
1 AATTAC
5535969 CATTTTCCCC
Statistics
Matches: 142, Mismatches: 23, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 141 0.99
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:5536205 original size:27 final size:26
Alignment explanation
Indices: 5536167--5536253 Score: 111
Period size: 27 Copynumber: 3.3 Consensus size: 26
5536157 CGGAGGAAGC
5536167 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
5536194 GTTCTGGTGGCTGTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * *
5536220 GTATCTGGTGACTCTGTCACGATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
5536247 GTTCTGG
1 GTTCTGG
5536254 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 14 0.26
27 40 0.74
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:5536380 original size:6 final size:6
Alignment explanation
Indices: 5536371--5536499 Score: 115
Period size: 6 Copynumber: 21.2 Consensus size: 6
5536361 TTGCATTCAC
* * * *
5536371 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG AT--TCTG
*
5536421 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG
5536469 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG A
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG A
5536500 GTCTCATTTT
Statistics
Matches: 101, Mismatches: 10, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
5 7 0.07
6 84 0.83
7 7 0.07
8 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:5536399 original size:25 final size:25
Alignment explanation
Indices: 5536371--5536438 Score: 127
Period size: 25 Copynumber: 2.7 Consensus size: 25
5536361 TTGCATTCAC
*
5536371 ATTCTGATTCTGATTCTGTCACGTA
1 ATTCTGATTCTGATTCTGTCACCTA
5536396 ATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
5536421 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
5536439 ATTCTGTTAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:5538466 original size:27 final size:27
Alignment explanation
Indices: 5538436--5539029 Score: 756
Period size: 27 Copynumber: 22.2 Consensus size: 27
5538426 AAAGTATTCC
**
5538436 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5538463 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5538490 C-ATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5538516 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5538543 C-AGTTTACAGAATTACCGTTTTACCAT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5538570 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** * *
5538597 TGATTTTTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5538624 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5538651 C-AGTTTACA-AATTACCATTTTACCAT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5538677 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5538704 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5538731 -GATTTACAGAATTACCGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
5538757 C-AGTTAAAGAATTACCGTTTTACCAT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5538783 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
5538810 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5538837 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5538864 CAATTTACAGAATTACTG-TTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5538890 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5538917 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
5538944 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5538971 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
5538998 CGATTTACAGAATTAGCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5539025 TGATT
1 CGATT
5539030 GTGAAATTAC
Statistics
Matches: 489, Mismatches: 65, Indels: 26
0.84 0.11 0.04
Matches are distributed among these distances:
26 118 0.24
27 368 0.75
28 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:5538578 original size:107 final size:107
Alignment explanation
Indices: 5538439--5539024 Score: 867
Period size: 107 Copynumber: 5.5 Consensus size: 107
5538429 GTATTCCCGA
** *
5538439 TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCATTTTTAAAATTA
1 TTTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTCATTTTTAAAATTA
*
5538504 CCGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAG
66 CCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
*
5538546 TTTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTTGATTTTTAAAATT
1 TTTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCC-TCATTTTTAAAATT
*
5538611 ACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
65 ACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
*
5538654 TTTACA-AATTACCATTTTACCATCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATT
1 TTTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTC-ATTTTTAAAATT
*
5538718 ACCGTTTTACCCT-GATTTACAGAATTACCGTTTTACCTTCAG
65 ACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * *
5538760 -TTAAAGAATTACCGTTTTACCATCGATTTACAGAATTACTGTTTTACCCTCA-GTTTACAGAAT
1 TTTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTCATTTTTA-A-AAT
** *
5538823 TACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAA
64 TACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * *
5538867 TTTACAGAATTACTG-TTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTGTAAAATT
1 TTTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTC-ATTTTTAAAATT
* * *
5538931 ACCGTTTTACCCTTGATTTACAGAATTACTGGTTTACCCTCAG
65 ACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * * * *
5538974 TTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTAGCATTTTACCCT
1 TTTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCT
5539025 TGATTGTGAA
Statistics
Matches: 434, Mismatches: 35, Indels: 19
0.89 0.07 0.04
Matches are distributed among these distances:
104 4 0.01
105 6 0.01
106 87 0.20
107 227 0.52
108 107 0.25
109 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (107 bp):
TTTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTCATTTTTAAAATTA
CCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
Found at i:5539214 original size:27 final size:27
Alignment explanation
Indices: 5539034--5539228 Score: 223
Period size: 27 Copynumber: 7.2 Consensus size: 27
5539024 TTGATTGTGA
*
5539034 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * * *
5539061 AATTTCTGAAATACCCCTATAGTGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
5539088 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCTTGTAGGGTAG
** *
5539115 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
5539142 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAG
* * *
5539169 AAATACCGAAATACTCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
5539196 AATTACTGAGATACCCTTGT-GAGGTAA
1 AATTACTGAAATACCCTTGTAG-GGTAG
5539223 AATTAC
1 AATTAC
5539229 CATTTTCCCC
Statistics
Matches: 142, Mismatches: 23, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 141 0.99
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:5539465 original size:27 final size:26
Alignment explanation
Indices: 5539427--5539513 Score: 111
Period size: 27 Copynumber: 3.3 Consensus size: 26
5539417 CGGAGGAAGC
5539427 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
5539454 GTTCTGGTGGCTGTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * *
5539480 GTATCTGGTGACTCTGTCACGATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
5539507 GTTCTGG
1 GTTCTGG
5539514 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 14 0.26
27 40 0.74
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:5539640 original size:6 final size:6
Alignment explanation
Indices: 5539631--5539758 Score: 106
Period size: 6 Copynumber: 21.2 Consensus size: 6
5539621 TTGCATTCAC
* * * *
5539631 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG AT--TCTG
*
5539681 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG
5539729 ATTCT- ATTCTG ATTCTG -TTACTG ATTCTG A
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG A
5539759 GTCTCATTTT
Statistics
Matches: 99, Mismatches: 10, Indels: 26
0.73 0.07 0.19
Matches are distributed among these distances:
5 12 0.12
6 77 0.78
7 7 0.07
8 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:5539659 original size:25 final size:25
Alignment explanation
Indices: 5539631--5539698 Score: 127
Period size: 25 Copynumber: 2.7 Consensus size: 25
5539621 TTGCATTCAC
*
5539631 ATTCTGATTCTGATTCTGTCACGTA
1 ATTCTGATTCTGATTCTGTCACCTA
5539656 ATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
5539681 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
5539699 ATTCTGTTAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:5539719 original size:30 final size:31
Alignment explanation
Indices: 5539656--5539733 Score: 124
Period size: 30 Copynumber: 2.5 Consensus size: 31
5539646 CTGTCACGTA
5539656 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTG
*
5539687 ATTCTGATTCTGATTCTGTTA-CTAATAT-TG
1 ATTCTGATTCTGATTCTGTCACCTAAT-TCTG
5539717 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
5539734 ATTCTGATTC
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
30 24 0.53
31 21 0.47
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTG
Found at i:5541723 original size:27 final size:27
Alignment explanation
Indices: 5541693--5542237 Score: 668
Period size: 27 Copynumber: 20.2 Consensus size: 27
5541683 AAAGTATTCC
*
5541693 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5541720 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5541747 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5541774 CGATTTACAGAATTATCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5541801 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5541828 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** * *
5541855 TGATTTTTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5541882 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
5541909 C-AGTTTACAAAATTACCATTTTACCAT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5541936 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
5541963 TGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5541990 CGATTTACAGAATTACCGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5542017 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5542044 CGATTTACAGAATTACTGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* **
5542070 CCAGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5542098 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
5542125 CGATTTGTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
5542152 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
5542179 C-AGTTTACAAAATTATCGTTTTACACT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5542206 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5542233 TGATT
1 CGATT
5542238 GTGAAATTAC
Statistics
Matches: 445, Mismatches: 63, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.01
27 433 0.97
28 6 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:5541865 original size:108 final size:108
Alignment explanation
Indices: 5541696--5542232 Score: 742
Period size: 108 Copynumber: 5.0 Consensus size: 108
5541686 GTATTCCCGA
*
5541696 TTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATT
1 TTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTTTAAAATT
* *
5541761 ACCGTTTTACCCTCGATTTACAGAATTATCATTTTACCCTCAG
66 ACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* *
5541804 TTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTTGATTTTTAAAATT
1 TTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTTTAAAATT
*
5541869 ACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
66 ACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* ** * *
5541912 TTTACAAAATTACCATTTTACCATCGATTTACAGAATTACCATTTTACCCTTGATTTTTAAAATT
1 TTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTTTAAAATT
*
5541977 ACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCTTCAG
66 ACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* ** *
5542020 TTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACTGTTTTACCC-CCA-GTTTACAGAA
1 TTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTTTA-A-AA
** *
5542083 TTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGAT
64 TTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTC-AG
* * * * **
5542129 TTGTA-A-AATTACTGTTTTACCCTTGATTTACAGAATTACTGGTTTACCC-TCAGTTTACAAAA
1 TT-TACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTGA-TTTTTAAAA
* * *
5542191 TTATCGTTTTACACTCGATTTACAGAATTACCATTTTACCCT
64 TTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
5542233 TGATTGTGAA
Statistics
Matches: 386, Mismatches: 37, Indels: 12
0.89 0.09 0.03
Matches are distributed among these distances:
106 4 0.01
107 2 0.01
108 371 0.96
109 5 0.01
110 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (108 bp):
TTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTTTAAAATT
ACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
Found at i:5542272 original size:27 final size:27
Alignment explanation
Indices: 5542242--5542419 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
5542232 TTGATTGTGA
5542242 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
5542269 AATTTCCGAAATACCCCTATAGTGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
5542296 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** *
5542323 AATTACCAAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
5542350 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * * *
5542377 AAATACCGAAATACTCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
5542404 AATTACTGAGATACCC
1 AATTACTGAAATACCC
5542420 TGGTGAGGTA
Statistics
Matches: 123, Mismatches: 26, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:5542306 original size:54 final size:53
Alignment explanation
Indices: 5542242--5542437 Score: 225
Period size: 54 Copynumber: 3.6 Consensus size: 53
5542232 TTGATTGTGA
* * *
5542242 AATTACTGAAATACCCCTGTAGGGTAGAATTTCCGAAATACCCCTATAGTGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAG-GTAG
* * *
5542296 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGT-AGGTAG
* * *
5542350 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACTCTTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTA-GGTAG
* * *
5542404 AATTACTGAGATACCCTGGT-GAGGTAAAATTACC
1 AATTACTGAAATACCCTTGTAG-GGTAGAATTACC
5542438 ATTTTTCCCT
Statistics
Matches: 121, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
53 3 0.02
54 115 0.95
55 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (53 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGTAG
Found at i:5542418 original size:81 final size:81
Alignment explanation
Indices: 5542242--5542419 Score: 232
Period size: 81 Copynumber: 2.2 Consensus size: 81
5542232 TTGATTGTGA
* * * *
5542242 AATTACTGAAATACCCCTGTAGGGTAGAATTTCCGAAATACCCCTATAGTGTAGAATTACTGAAA
1 AATTACTGAAATACCCCTGTAAGGTAGAATTTCCGAAATACCCCTATAGGGTAGAAATACCGAAA
5542307 TACCCTTATAGGATAG
66 TACCCTTATAGGATAG
** * *
5542323 AATTACCAAAATACCCCTGTAAGGTAGAATTAT-CGAAATACCCTTGTAGGGTAGAAATACCGAA
1 AATTACTGAAATACCCCTGTAAGGTAGAATT-TCCGAAATACCCCTATAGGGTAGAAATACCGAA
* * *
5542387 ATACTCTTGTAGGGTAG
65 ATACCCTTATAGGATAG
*
5542404 AATTACTGAGATACCC
1 AATTACTGAAATACCC
5542420 TGGTGAGGTA
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 81 0.99
82 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (81 bp):
AATTACTGAAATACCCCTGTAAGGTAGAATTTCCGAAATACCCCTATAGGGTAGAAATACCGAAA
TACCCTTATAGGATAG
Found at i:5542674 original size:27 final size:26
Alignment explanation
Indices: 5542636--5542722 Score: 111
Period size: 27 Copynumber: 3.3 Consensus size: 26
5542626 CGGAGGAAGA
5542636 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
5542663 GTTCTGGTGGCTGTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * *
5542689 GTATCTGGTGACTCTGTCACGATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
5542716 GTTCTGG
1 GTTCTGG
5542723 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 14 0.26
27 40 0.74
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:5542889 original size:6 final size:6
Alignment explanation
Indices: 5542865--5542992 Score: 113
Period size: 6 Copynumber: 21.2 Consensus size: 6
5542855 CTGTCACGTA
* * *
5542865 ATTCTA ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* * *
5542914 ATTCTG ATTCTG ATTCTG -TTAATA ATAT-TG ATTCTG ATTCTG ATTCTA
1 ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG
5542962 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG A
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG A
5542993 GTCTCATTTT
Statistics
Matches: 101, Mismatches: 10, Indels: 22
0.76 0.08 0.17
Matches are distributed among these distances:
5 8 0.08
6 84 0.83
7 7 0.07
8 2 0.02
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:5542901 original size:43 final size:43
Alignment explanation
Indices: 5542840--5542991 Score: 139
Period size: 43 Copynumber: 3.4 Consensus size: 43
5542830 TTGCATTCAC
* *
5542840 ATTCTAATACTGATTCTGTCACGTAATTCTAATTCTG-TTACTG
1 ATTCTGATACTGATTCTGTCACCTAATTCTAATTCTGATT-CTG
* *
5542883 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTG
1 ATTCTGATACTGATTCTGTCACCTAATTCTAATTCTGATTCTG
* * *
5542926 ATTCTGTTAATAATATTGATTCTG--ATTCTGATTCTAATTCTGATTCTG
1 ATTCTG------ATACTGATTCTGTCA-CCTAATTCTAATTCTGATTCTG
*
5542974 ATTCTGTTACTGATTCTG
1 ATTCTGATACTGATTCTG
5542992 AGTCTCATTT
Statistics
Matches: 90, Mismatches: 11, Indels: 17
0.76 0.09 0.14
Matches are distributed among these distances:
42 10 0.11
43 42 0.47
44 2 0.02
47 1 0.01
48 25 0.28
49 10 0.11
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.47
Consensus pattern (43 bp):
ATTCTGATACTGATTCTGTCACCTAATTCTAATTCTGATTCTG
Found at i:5542913 original size:19 final size:19
Alignment explanation
Indices: 5542843--5542919 Score: 64
Period size: 19 Copynumber: 3.8 Consensus size: 19
5542833 CATTCACATT
*
5542843 CTAATACTGATTCTGTCAC
1 CTAATTCTGATTCTGTCAC
* * *
5542862 GTAATTCTAATTCTGTTACTGATT
1 CTAATTCTGATTCTG-T-C--A-C
*
5542886 CTGATTCTGATTCTGTCAC
1 CTAATTCTGATTCTGTCAC
5542905 CTAATTCTGATTCTG
1 CTAATTCTGATTCTG
5542920 ATTCTGATTC
Statistics
Matches: 44, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
19 26 0.59
20 2 0.05
21 1 0.02
22 1 0.02
23 2 0.05
24 12 0.27
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.44
Consensus pattern (19 bp):
CTAATTCTGATTCTGTCAC
Done.