Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 242 of 333
Found at i:79744553 original size:20 final size:20
Alignment explanation
Indices: 79744528--79744584 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
79744518 TTATGAATAC
*
79744528 ATCATGTGCATTTCATA-CA
1 ATCATGTGCATATCATATCA
79744547 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
79744568 ATCATGT--ATATCATATC
1 ATCATGTGCATATCATATC
79744585 CCACGTATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 23 0.66
21 2 0.06
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:79748009 original size:34 final size:34
Alignment explanation
Indices: 79747956--79748024 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
79747946 ATTAAGAGAG
*
79747956 ATAGCAGTGTTTGATGGAATAGTGGATGTAGTCA
1 ATAGCAGTGTTTGACGGAATAGTGGATGTAGTCA
*
79747990 ATAGTAGTGTTTGACGGAATAGTGGATGTAGTCA
1 ATAGCAGTGTTTGACGGAATAGTGGATGTAGTCA
79748024 A
1 A
79748025 AGATCTCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.30, C:0.06, G:0.32, T:0.32
Consensus pattern (34 bp):
ATAGCAGTGTTTGACGGAATAGTGGATGTAGTCA
Found at i:79749575 original size:26 final size:27
Alignment explanation
Indices: 79749546--79749601 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
79749536 TACCAGAGGT
* *
79749546 AAAATTGTTAAAATTTTA-TCGGGGTA
1 AAAATCGTTAAAATTTTAGTAGGGGTA
79749572 AAAATCGTTAAAATTTTAGTAGGGGTA
1 AAAATCGTTAAAATTTTAGTAGGGGTA
79749599 AAA
1 AAA
79749602 TAGAGAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 17 0.63
27 10 0.37
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.34
Consensus pattern (27 bp):
AAAATCGTTAAAATTTTAGTAGGGGTA
Found at i:79749978 original size:30 final size:30
Alignment explanation
Indices: 79749942--79750003 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
79749932 GGAGTGATTG
79749942 TCACTCTACCGAAAACTAGAGAGAATTTAT
1 TCACTCTACCGAAAACTAGAGAGAATTTAT
79749972 TCACTCTACCGAAAACTAGAGAGAATTTAT
1 TCACTCTACCGAAAACTAGAGAGAATTTAT
79750002 TC
1 TC
79750004 TCAACTATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (30 bp):
TCACTCTACCGAAAACTAGAGAGAATTTAT
Found at i:79750410 original size:13 final size:14
Alignment explanation
Indices: 79750376--79750425 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
79750366 TTGGTTTAAA
79750376 AAATT-ATTTAATT
1 AAATTAATTTAATT
*
79750389 GAAAATTAATTTAGTT
1 --AAATTAATTTAATT
*
79750405 -AATTAAATTAATT
1 AAATTAATTTAATT
79750418 AAATTAAT
1 AAATTAAT
79750426 AGAATAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
13 11 0.38
14 6 0.21
15 5 0.17
16 7 0.24
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (14 bp):
AAATTAATTTAATT
Found at i:79750415 original size:9 final size:9
Alignment explanation
Indices: 79750391--79750425 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
79750381 ATTTAATTGA
79750391 AAATTAATT
1 AAATTAATT
* *
79750400 TAGTTAATT
1 AAATTAATT
79750409 AAATTAATT
1 AAATTAATT
79750418 AAATTAAT
1 AAATTAAT
79750426 AGAATAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (9 bp):
AAATTAATT
Found at i:79768040 original size:20 final size:21
Alignment explanation
Indices: 79768003--79768041 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
79767993 CTCTCTACCA
*
79768003 TAAAATTTTCAGAATTTATAG
1 TAAAATCTTCAGAATTTATAG
79768024 TAAAATCTTCA-AATTTAT
1 TAAAATCTTCAGAATTTAT
79768042 CCCTATTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (21 bp):
TAAAATCTTCAGAATTTATAG
Found at i:79772773 original size:15 final size:15
Alignment explanation
Indices: 79772753--79772782 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
79772743 AATAATAATT
79772753 ATAATAGTAAAAATA
1 ATAATAGTAAAAATA
*
79772768 ATAATAGTAATAATA
1 ATAATAGTAAAAATA
79772783 GCTAAGTAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
ATAATAGTAAAAATA
Found at i:79772877 original size:15 final size:15
Alignment explanation
Indices: 79772857--79772887 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
79772847 AAAAGTATTA
79772857 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
79772872 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
79772887 A
1 A
79772888 GAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAGTAATAAAT
Found at i:79772975 original size:16 final size:17
Alignment explanation
Indices: 79772956--79772993 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
79772946 AAAAGGAAAT
*
79772956 AATAATGTGGTAA-AAA
1 AATAATATGGTAATAAA
*
79772972 AATAATATGTTAATAAA
1 AATAATATGGTAATAAA
79772989 AATAA
1 AATAA
79772994 CAGTAGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.29
Consensus pattern (17 bp):
AATAATATGGTAATAAA
Found at i:79773009 original size:3 final size:3
Alignment explanation
Indices: 79773003--79773062 Score: 61
Period size: 3 Copynumber: 20.3 Consensus size: 3
79772993 ACAGTAGTAG
* * * *
79773003 TAA TAA TAA -AA -AA GTAA TAG TAA TAA AAA TAA AAA TAA AAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
79773047 TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T
79773063 GTTAATGGCA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
2 4 0.09
3 41 0.87
4 2 0.04
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:79774147 original size:19 final size:19
Alignment explanation
Indices: 79774123--79774160 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
79774113 TTTTGGGCTG
79774123 TTGGGTATTTTAGTTTGGT
1 TTGGGTATTTTAGTTTGGT
79774142 TTGGGTATTTTAGTTTGGT
1 TTGGGTATTTTAGTTTGGT
79774161 GGGCCGGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.32, T:0.58
Consensus pattern (19 bp):
TTGGGTATTTTAGTTTGGT
Found at i:79774496 original size:26 final size:26
Alignment explanation
Indices: 79774467--79774574 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
79774457 TGATACAAAT
*
79774467 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
79774493 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
79774519 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
79774545 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
79774571 TGAT
1 TGAT
79774575 TGGAATTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:79777345 original size:8 final size:8
Alignment explanation
Indices: 79777332--79777369 Score: 67
Period size: 8 Copynumber: 4.8 Consensus size: 8
79777322 AATTATTTTA
79777332 AAATATAT
1 AAATATAT
79777340 AAATATAT
1 AAATATAT
79777348 AAATATAT
1 AAATATAT
79777356 AAATATAT
1 AAATATAT
*
79777364 CAATAT
1 AAATAT
79777370 TCAAATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (8 bp):
AAATATAT
Found at i:79780320 original size:20 final size:22
Alignment explanation
Indices: 79780297--79780343 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
79780287 TGAATAATGC
79780297 ATAA-GAAC-TTAAAATAAATA
1 ATAAGGAACTTTAAAATAAATA
*
79780317 ATAAAAGGAGCTTTAAAATAAATA
1 AT--AAGGAACTTTAAAATAAATA
79780341 ATA
1 ATA
79780344 TATAAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
20 2 0.09
22 3 0.14
23 3 0.14
24 14 0.64
ACGTcount: A:0.62, C:0.04, G:0.09, T:0.26
Consensus pattern (22 bp):
ATAAGGAACTTTAAAATAAATA
Found at i:79782308 original size:45 final size:43
Alignment explanation
Indices: 79782239--79782351 Score: 129
Period size: 44 Copynumber: 2.6 Consensus size: 43
79782229 TTTAATCTAT
* **
79782239 TCCACTGCAACTTCAGGGAAATAAGATCCTATGT-CTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA--CT-TGTACTTCAACCTGC
*
79782284 TCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGT-ACTTCAACCTGC
* *
79782328 TCCATTGCAACTTCAAGGAGATAA
1 TCCACTGCAACTTCAGGGAGATAA
79782352 TGTATCACCC
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
42 3 0.05
43 2 0.03
44 30 0.51
45 24 0.41
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTGTACTTCAACCTGC
Found at i:79783717 original size:46 final size:47
Alignment explanation
Indices: 79783611--79783732 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 47
79783601 TGTCTTCGAC
** * *
79783611 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
*
79783661 ATAGG-CTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 AT-GGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
79783707 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
79783733 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
45 2 0.03
46 32 0.50
50 28 0.44
51 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:79784123 original size:16 final size:16
Alignment explanation
Indices: 79784102--79784136 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
79784092 GCCCCTAAAT
79784102 TTTCACATATTTGCAC
1 TTTCACATATTTGCAC
79784118 TTTCACATATTTGCAC
1 TTTCACATATTTGCAC
79784134 TTT
1 TTT
79784137 TGCCTCAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.23, G:0.06, T:0.49
Consensus pattern (16 bp):
TTTCACATATTTGCAC
Found at i:79785075 original size:44 final size:45
Alignment explanation
Indices: 79784976--79785093 Score: 132
Period size: 44 Copynumber: 2.6 Consensus size: 45
79784966 TGGCTTTGAT
* * **
79784976 CTGCTTCACTGCAACTTCAGGGAGATAAGATCCGTTATCTTCAGT
1 CTGCTCCACTACAACTTCAGGGAGATAAGATCCGTTATCTTCAAC
* * *
79785021 TTGCTCCACTACAATTTCAGGGAGATAAGA-CTTGTTA-CTTCAAC
1 CTGCTCCACTACAACTTCAGGGAGATAAGATC-CGTTATCTTCAAC
* *
79785065 CTGCTCCACTATAACTTCAGAGAGATAAG
1 CTGCTCCACTACAACTTCAGGGAGATAAG
79785094 GTTTGTTTTG
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
44 31 0.51
45 30 0.49
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.30
Consensus pattern (45 bp):
CTGCTCCACTACAACTTCAGGGAGATAAGATCCGTTATCTTCAAC
Found at i:79785203 original size:122 final size:122
Alignment explanation
Indices: 79784984--79785221 Score: 300
Period size: 122 Copynumber: 2.0 Consensus size: 122
79784974 ATCTGCTTCA
** * * *
79784984 CTGCAACTTCAGGGAGATAAGATCCGTTATCTTCAGTTTGCTCCACTACAATTTCAGGGAGATAA
1 CTGCAACTTCAAAGAGATAAGATCAGCTATCTTCAGTCTGCTCCACTACAATTTCAGGGAGATAA
* * * *
79785049 GACTTGTTACTTCAACCTGCTCCACTATAACTTCA-GAGAGATAAGGTTTGTTTTGAT
66 GACATGTGACTTCAACCTACTCCACTACAACTTCAGGA-AGATAAGGTTTGTTTTGAT
* * * *
79785106 CTGCAACTTCAAAGAGATAAGATCAGCTGTCTTCAGTCTGCTCCTCTGCAACTTT-AGGTAGATA
1 CTGCAACTTCAAAGAGATAAGATCAGCTATCTTCAGTCTGCTCCACTACAA-TTTCAGGGAGATA
* * *
79785170 AGACATGTGGCTTTAACCTACTCCACTGCAACTTCAGGAAGATAAGGTTTGT
65 AGACATGTGACTTCAACCTACTCCACTACAACTTCAGGAAGATAAGGTTTGT
79785222 GATTTGTAGC
Statistics
Matches: 98, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
122 93 0.95
123 5 0.05
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (122 bp):
CTGCAACTTCAAAGAGATAAGATCAGCTATCTTCAGTCTGCTCCACTACAATTTCAGGGAGATAA
GACATGTGACTTCAACCTACTCCACTACAACTTCAGGAAGATAAGGTTTGTTTTGAT
Found at i:79793747 original size:27 final size:26
Alignment explanation
Indices: 79793717--79793893 Score: 149
Period size: 27 Copynumber: 6.5 Consensus size: 26
79793707 AAATTGTTCA
* *
79793717 GCACTAAGTGTGCGATTCGACTTTGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
79793744 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
79793771 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
* *
79793798 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTG
* *
79793826 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTG
* * *
79793853 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTG
*
79793880 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
79793894 GGCTCAATAT
Statistics
Matches: 124, Mismatches: 21, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 98 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:79793840 original size:82 final size:81
Alignment explanation
Indices: 79793717--79793872 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
79793707 AAATTGTTCA
* * * * *
79793717 GCACTAAGTGTGCGATTCGACTTTGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
79793781 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
79793798 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
79793863 TGCGAGTTGA
65 TGCGAATTGA
79793873 TTATATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 18 0.28
82 46 0.72
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:79793884 original size:82 final size:81
Alignment explanation
Indices: 79793715--79793893 Score: 198
Period size: 82 Copynumber: 2.2 Consensus size: 81
79793705 TTAAATTGTT
* * * * *
79793715 CAGCACTAAGTGTGCGATTCGACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGT
1 CAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGT
*
79793780 GTGCGAATTGACCATG
66 GTGCGAATTGACCATA
* ** *
79793796 CGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAA
1 CAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAA
* **
79793860 GTGTGCGAGTTGATTATA
64 GTGTGCGAATTGACCATA
* *
79793878 TAGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCG
79793894 GGCTCAATAT
Statistics
Matches: 80, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 19 0.24
82 61 0.76
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
CAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGT
GTGCGAATTGACCATA
Found at i:79810684 original size:56 final size:56
Alignment explanation
Indices: 79810593--79810715 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
79810583 GAGATTGGCG
* * *
79810593 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
79810650 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
79810705 CTGAGTGTGCG
1 CTAAGTGTGCG
79810716 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:79810702 original size:27 final size:28
Alignment explanation
Indices: 79810593--79810715 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
79810583 GAGATTGGCG
* * * *
79810593 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
79810622 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
79810650 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
79810678 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
79810705 CTGAGTGTGCG
1 CTAAGTGTGCG
79810716 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:79810726 original size:27 final size:27
Alignment explanation
Indices: 79810618--79810728 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
79810608 TAAATTGTAC
* * *
79810618 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
79810646 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
79810674 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
79810701 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
79810728 A
1 A
79810729 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:79814362 original size:40 final size:40
Alignment explanation
Indices: 79814304--79814601 Score: 433
Period size: 40 Copynumber: 7.5 Consensus size: 40
79814294 CGGATGATAA
* * *
79814304 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
79814344 CCAGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
79814384 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
79814424 TCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
79814464 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
79814504 ACGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
79814544 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
79814584 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
79814602 TACTTGGTTT
Statistics
Matches: 235, Mismatches: 19, Indels: 9
0.89 0.07 0.03
Matches are distributed among these distances:
39 18 0.08
40 215 0.91
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:79816737 original size:65 final size:65
Alignment explanation
Indices: 79816638--79816780 Score: 180
Period size: 65 Copynumber: 2.2 Consensus size: 65
79816628 CATCAGGATG
* ** **
79816638 CTCACAAAGAGTTGTATTTGTGTTTGCAACATATG-CAGTATCACAACTGATCATAAAACAGGAC
1 CTCACAAAGAGCTGTATTTGTGTCCGCAACATATGCCAG-ATCACAACCAATCATAAAACAGGAC
79816702 A
65 A
* * * * *
79816703 CTCACAAAGAGCTGTGTTTGTGTCCGCAATATATGCCAGATCACAACCAATCATATACCAGGGCA
1 CTCACAAAGAGCTGTATTTGTGTCCGCAACATATGCCAGATCACAACCAATCATAAAACAGGACA
79816768 CTCACAAAGAGCT
1 CTCACAAAGAGCT
79816781 ACGGTAGTCC
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
65 64 0.96
66 3 0.04
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.24
Consensus pattern (65 bp):
CTCACAAAGAGCTGTATTTGTGTCCGCAACATATGCCAGATCACAACCAATCATAAAACAGGACA
Found at i:79818418 original size:40 final size:40
Alignment explanation
Indices: 79818367--79818447 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
79818357 GCATTTTCCA
79818367 TGTACACACAGCTAGGGGACACACGGCTGTATGCAGATTT
1 TGTACACACAGCTAGGGGACACACGGCTGTATGCAGATTT
79818407 TGTACACACAGCTAGGGGACACACGGCTGTATGCAGATTT
1 TGTACACACAGCTAGGGGACACACGGCTGTATGCAGATTT
79818447 T
1 T
79818448 TCTTACATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
TGTACACACAGCTAGGGGACACACGGCTGTATGCAGATTT
Found at i:79822826 original size:32 final size:32
Alignment explanation
Indices: 79822785--79822848 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
79822775 TAAGTTCATA
*
79822785 AACAAATGAATGTCTTTAAATTGAATTATATG
1 AACAAATGAATGCCTTTAAATTGAATTATATG
79822817 AACAAATGAATGCCTTTAAATTGAATTATATG
1 AACAAATGAATGCCTTTAAATTGAATTATATG
79822849 TGCTTACTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (32 bp):
AACAAATGAATGCCTTTAAATTGAATTATATG
Found at i:79826588 original size:47 final size:46
Alignment explanation
Indices: 79826523--79826690 Score: 182
Period size: 46 Copynumber: 3.6 Consensus size: 46
79826513 ATTGTTGGCT
*
79826523 AGTGTAAGACATGTCTGGGACATGCATCGGCCA-TATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATTA-TACGAGAGCC
* *
79826569 AGTGTAAGACCATGTCTGGGACATGGCATTGG-CATTGATACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATT-ATACGAGAGCC
* * *
79826617 AGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGAGACGTA-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAT-TATACG-AGAGCC
* *
79826663 AGTGTAAGACATGTTTGGGACATACATC
1 AGTGTAAGACATGTCTGGGACATGCATC
79826691 AGCTACGAGA
Statistics
Matches: 107, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
46 50 0.47
47 32 0.30
48 24 0.22
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATTATACGAGAGCC
Found at i:79826673 original size:46 final size:48
Alignment explanation
Indices: 79826520--79826788 Score: 229
Period size: 47 Copynumber: 5.8 Consensus size: 48
79826510 GTTATTGTTG
*
79826520 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAT--ATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCC-TCGA-GATGAGA
* * * * * *
79826566 GCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGATACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGAGA
*
79826614 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATG-AGA
* * * *
79826660 GCTAGTGTAAGA-CATGTTTGGGACAT-ACATCAG-CTACGAGATGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGAGA
* * * * * *
79826706 GTTAGTGTAAGACCATATCTGGGACATGGCAT-TGACTTGAGATGTGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGAGA
* *
79826753 G-TCAGTGTCAGATCATGTCTGGGACATGGCATCGGC
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGC
79826789 ACCTTACCCA
Statistics
Matches: 185, Mismatches: 26, Indels: 22
0.79 0.11 0.09
Matches are distributed among these distances:
45 3 0.02
46 74 0.40
47 77 0.42
48 30 0.16
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGAGA
Found at i:79826772 original size:140 final size:141
Alignment explanation
Indices: 79826520--79826788 Score: 348
Period size: 140 Copynumber: 1.9 Consensus size: 141
79826510 GTTATTGTTG
* * * * *
79826520 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATACATCAGCCAGATGATGAGAGCCAGTGTAAGACCATATC
* *
79826585 TGGGACATGGCATTGGCATTGATACGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCC
66 TGGGACATGGCATTGACATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCC
79826649 TCGAGACGTAA
131 TCGAGACGTAA
* * * **
79826660 GCTAGTGTAAGACATGTTTGGGACATACATCAGCTACGA-GATGATAGTTAGTGTAAGACCATAT
1 GCTAGTGTAAGACATGTCTGGGACATACATCAGCCA-GATGATGAGAGCCAGTGTAAGACCATAT
* * *
79826724 CTGGGACATGGCATTGAC-TTGAGATGTGAG-TCAGTGTCAGATCATGTCTGGGACATGGCATCG
65 CTGGGACATGGCATTGACATTGAGACGAGAGCT-AGTGTAAGA-CATGTCTGGGACATGGCATCG
79826787 GC
128 GC
79826789 ACCTTACCCA
Statistics
Matches: 110, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
138 1 0.01
139 17 0.15
140 83 0.75
141 9 0.08
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (141 bp):
GCTAGTGTAAGACATGTCTGGGACATACATCAGCCAGATGATGAGAGCCAGTGTAAGACCATATC
TGGGACATGGCATTGACATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCC
TCGAGACGTAA
Found at i:79831503 original size:3 final size:3
Alignment explanation
Indices: 79831495--79831522 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
79831485 TGTTTATGAA
79831495 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
79831523 GTAATTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:79833462 original size:25 final size:25
Alignment explanation
Indices: 79833433--79833480 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
79833423 TTATAATATG
*
79833433 AAAATGACTG-TTTTGCCCCTAGGTA
1 AAAATGAC-GATTTTACCCCTAGGTA
79833458 AAAATGACGATTTTACCCCTAGG
1 AAAATGACGATTTTACCCCTAGG
79833481 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (25 bp):
AAAATGACGATTTTACCCCTAGGTA
Found at i:79833667 original size:24 final size:25
Alignment explanation
Indices: 79833591--79833660 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
79833581 GAGGAAGTGC
* * *
79833591 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
79833616 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
79833641 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
79833661 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:79833673 original size:24 final size:25
Alignment explanation
Indices: 79833590--79833673 Score: 86
Period size: 25 Copynumber: 3.4 Consensus size: 25
79833580 GGAGGAAGTG
* *
79833590 CAAAAG-GGCTATGCCCCAGTTTAC
1 CAAAAGAGGCTTTGCCCCAGTTTAT
79833614 CGAAAAG-GGCTTTGCCCCAGTTTAT
1 C-AAAAGAGGCTTTGCCCCAGTTTAT
*
79833639 CAAAA-AGGGCTTTGCCCTAG-TTAT
1 CAAAAGA-GGCTTTGCCCCAGTTTAT
*
79833663 TAAAAGAGGCT
1 CAAAAGAGGCT
79833674 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
24 17 0.33
25 35 0.67
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (25 bp):
CAAAAGAGGCTTTGCCCCAGTTTAT
Found at i:79835107 original size:91 final size:90
Alignment explanation
Indices: 79834965--79835134 Score: 261
Period size: 91 Copynumber: 1.9 Consensus size: 90
79834955 TTATCAATAG
* *
79834965 GAAGTTCAAAAAAACAAGTCTAGAGAAATGTCGAGAAAAATAGCAATTGAATAGCAACAATCAAC
1 GAAGTTCAAAAAAACAAGTCTAGAGAAATGTCGAGAAAAACAACAATTGAATAGCAACAATCAAC
**
79835030 AATTGCTGAGAAATCTTGCCGGTAA
66 AATTGAAGAGAAATCTTGCCGGTAA
*
79835055 GAAGTTCAAAAAAAATAAGT-TCAGAGAAATGTCGAGAAAAACAACAATTGAATAGCAACAATCA
1 GAAGTTC-AAAAAAACAAGTCT-AGAGAAATGTCGAGAAAAACAACAATTGAATAGCAACAATCA
*
79835119 GCAATTGAAGAGAAAT
64 ACAATTGAAGAGAAAT
79835135 TTTTAATTAG
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
90 8 0.11
91 64 0.89
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.19
Consensus pattern (90 bp):
GAAGTTCAAAAAAACAAGTCTAGAGAAATGTCGAGAAAAACAACAATTGAATAGCAACAATCAAC
AATTGAAGAGAAATCTTGCCGGTAA
Found at i:79845899 original size:49 final size:48
Alignment explanation
Indices: 79845769--79845912 Score: 198
Period size: 49 Copynumber: 2.9 Consensus size: 48
79845759 TCTATTGTGA
*
79845769 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CC--AGACTGT
* * * * *
79845820 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTG-T
79845869 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
79845913 TAGCTTCGGC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
48 5 0.06
49 40 0.49
50 2 0.02
51 34 0.42
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (48 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTGT
Found at i:79850930 original size:30 final size:30
Alignment explanation
Indices: 79850882--79850939 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
79850872 GTTTTTGACC
* *
79850882 CACATGGCCTAGCCACACGGGTGTGTGGAA
1 CACACGGCCTAGCCACACGGGCGTGTGGAA
* *
79850912 CACACGGCCTGGCTACACGGGCGTGTGG
1 CACACGGCCTAGCCACACGGGCGTGTGG
79850940 GATCTCACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.19, C:0.29, G:0.36, T:0.16
Consensus pattern (30 bp):
CACACGGCCTAGCCACACGGGCGTGTGGAA
Found at i:79851219 original size:15 final size:14
Alignment explanation
Indices: 79851172--79851342 Score: 80
Period size: 15 Copynumber: 11.3 Consensus size: 14
79851162 ATCACCCCAA
*
79851172 TTTTA-TTTTATTT
1 TTTTATTTTTATAT
79851185 TATTTATTTTTA-AT
1 T-TTTATTTTTATAT
*
79851199 TGTTATATTATT-TAT
1 T-TT-TATTTTTATAT
*
79851214 TTTTATTTTAATAAT
1 TTTTATTTTTAT-AT
*
79851229 TAATTAATTAATTTAGTAT
1 T--TTTATT--TTTA-TAT
**
79851248 TTTTATACTTATAT
1 TTTTATTTTTATAT
79851262 TTTTAATTTTTTTATAT
1 TTTT-A--TTTTTATAT
79851279 TTTTATTTTTTATAT
1 TTTTA-TTTTTATAT
*
79851294 ACTTTTATTATTTTTAT
1 --TTTTATT-TTTATAT
79851311 TTTTATTTTGTA-AT
1 TTTTATTTT-TATAT
* *
79851325 TTCTATTTTTTTAT
1 TTTTATTTTTATAT
79851339 TTTT
1 TTTT
79851343 TCTTTCGTAT
Statistics
Matches: 122, Mismatches: 17, Indels: 37
0.69 0.10 0.21
Matches are distributed among these distances:
13 7 0.06
14 35 0.29
15 39 0.32
16 3 0.02
17 31 0.25
19 6 0.05
20 1 0.01
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (14 bp):
TTTTATTTTTATAT
Found at i:79851225 original size:27 final size:26
Alignment explanation
Indices: 79851170--79851222 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
79851160 TAATCACCCC
*
79851170 AATTTTATTTTATTTTATTTATTTTT
1 AATTTTATATTATTTTATTTATTTTT
*
79851196 AATTGTTATATTATTTATTTTTATTTT
1 AATT-TTATATTATTT-TATTTATTTT
79851223 AATAATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 10 0.43
28 9 0.39
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (26 bp):
AATTTTATATTATTTTATTTATTTTT
Found at i:79851230 original size:22 final size:20
Alignment explanation
Indices: 79851172--79851223 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 20
79851162 ATCACCCCAA
*
79851172 TTTTATTTTATTTTATTTAT
1 TTTTATTTTATATTATTTAT
79851192 TTTTAATTGTTATATTATTTAT
1 TTTT-ATT-TTATATTATTTAT
79851214 TTTTATTTTA
1 TTTTATTTTA
79851224 ATAATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 7 0.24
21 6 0.21
22 16 0.55
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTATTTTATATTATTTAT
Found at i:79851266 original size:23 final size:23
Alignment explanation
Indices: 79851240--79851293 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
79851230 AATTAATTAA
*
79851240 TTTAGTATTTTTATACTTATATT
1 TTTAATATTTTTATACTTATATT
* * *
79851263 TTTAATTTTTTTATATTTTTATT
1 TTTAATATTTTTATACTTATATT
*
79851286 TTTTATAT
1 TTTAATAT
79851294 ACTTTTATTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (23 bp):
TTTAATATTTTTATACTTATATT
Found at i:79851278 original size:17 final size:16
Alignment explanation
Indices: 79851256--79851343 Score: 94
Period size: 17 Copynumber: 5.6 Consensus size: 16
79851246 ATTTTTATAC
79851256 TTATATTTTTAATTTTT
1 TTATATTTTT-ATTTTT
79851273 TTATATTTTTATTTTT
1 TTATATTTTTATTTTT
* *
79851289 TATATACTTTTATTATT
1 T-TATATTTTTATTTTT
79851306 TT-TATTTTTA-TTTT
1 TTATATTTTTATTTTT
* *
79851320 GTA-ATTTCTATTTTT
1 TTATATTTTTATTTTT
79851335 TTAT-TTTTT
1 TTATATTTTT
79851344 CTTTCGTATT
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
14 10 0.17
15 17 0.29
16 8 0.14
17 24 0.41
ACGTcount: A:0.20, C:0.02, G:0.01, T:0.76
Consensus pattern (16 bp):
TTATATTTTTATTTTT
Found at i:79851281 original size:8 final size:8
Alignment explanation
Indices: 79851256--79851342 Score: 62
Period size: 7 Copynumber: 11.2 Consensus size: 8
79851246 ATTTTTATAC
79851256 TTATATTT
1 TTATATTT
*
79851264 TTAATTTTT
1 TT-ATATTT
79851273 TTATATTT
1 TTATATTT
79851281 TTAT-TTT
1 TTATATTT
79851288 TTATATACTT
1 TTATAT--TT
79851298 TTAT-TATT
1 TTATAT-TT
79851306 TT-TATTT
1 TTATATTT
79851313 TTAT-TTT
1 TTATATTT
*
79851320 GTA-ATTT
1 TTATATTT
*
79851327 CTAT-TTT
1 TTATATTT
79851334 TT-TATTT
1 TTATATTT
79851341 TT
1 TT
79851343 TCTTTCGTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
6 1 0.02
7 31 0.48
8 18 0.28
9 8 0.12
10 6 0.09
ACGTcount: A:0.21, C:0.02, G:0.01, T:0.76
Consensus pattern (8 bp):
TTATATTT
Found at i:79851338 original size:22 final size:22
Alignment explanation
Indices: 79851310--79851358 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
79851300 ATTATTTTTA
79851310 TTTTTATTTTGTAATTTC-TATT
1 TTTTTATTTT-TAATTTCGTATT
**
79851332 TTTTTATTTTTTCTTTCGTATT
1 TTTTTATTTTTAATTTCGTATT
79851354 TTTTT
1 TTTTT
79851359 TACTATTATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.12, C:0.06, G:0.04, T:0.78
Consensus pattern (22 bp):
TTTTTATTTTTAATTTCGTATT
Found at i:79851341 original size:28 final size:30
Alignment explanation
Indices: 79851269--79851342 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 30
79851259 TATTTTTAAT
* *
79851269 TTTTTTATATTTTTATTTTTTATATACTTTTA
1 TTTTTT-TATTTTTATTTTGTATATA-TTCTA
79851301 TTATTTTTATTTTTATTTTGTA-AT-TTCTA
1 TT-TTTTTATTTTTATTTTGTATATATTCTA
79851330 TTTTTTTATTTTT
1 TTTTTTTATTTTT
79851343 TCTTTCGTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
28 11 0.28
29 6 0.15
31 2 0.05
32 16 0.41
33 4 0.10
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (30 bp):
TTTTTTTATTTTTATTTTGTATATATTCTA
Found at i:79851343 original size:8 final size:8
Alignment explanation
Indices: 79851256--79851343 Score: 61
Period size: 8 Copynumber: 10.1 Consensus size: 8
79851246 ATTTTTATAC
79851256 TTATATTTT
1 TTAT-TTTT
*
79851265 TAATTTTT
1 TTATTTTT
*
79851273 TTATATTT
1 TTATTTTT
79851281 TTATTTTT
1 TTATTTTT
**
79851289 TATATACTT
1 T-TATTTTT
79851298 TTATTATTT
1 TTATT-TTT
79851307 TTATTTTT
1 TTATTTTT
79851315 ATT-TTGTAATT
1 -TTATT-T--TT
79851326 TCTATTTTT
1 T-TATTTTT
79851335 TTATTTTT
1 TTATTTTT
79851343 T
1 T
79851344 CTTTCGTATT
Statistics
Matches: 63, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
8 34 0.54
9 22 0.35
10 1 0.02
11 4 0.06
12 2 0.03
ACGTcount: A:0.20, C:0.02, G:0.01, T:0.76
Consensus pattern (8 bp):
TTATTTTT
Found at i:79851428 original size:17 final size:17
Alignment explanation
Indices: 79851406--79851443 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
79851396 TATTATTGAG
* *
79851406 TTTATTGTTATTTTATT
1 TTTATTATTATTATATT
79851423 TTTATTATTATTATATT
1 TTTATTATTATTATATT
79851440 TTTA
1 TTTA
79851444 ATCTTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTATTATTATTATATT
Found at i:79851547 original size:21 final size:21
Alignment explanation
Indices: 79851523--79851568 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
79851513 TTTGAAAGAT
*
79851523 TTATGGTTGTTTCTAATCGAG
1 TTATGGTTGTTTCTAATCAAG
79851544 TTATGGTTGTTTCTAATCAAG
1 TTATGGTTGTTTCTAATCAAG
79851565 TTAT
1 TTAT
79851569 AACCCCTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.09, G:0.20, T:0.50
Consensus pattern (21 bp):
TTATGGTTGTTTCTAATCAAG
Found at i:79861514 original size:32 final size:30
Alignment explanation
Indices: 79861471--79861530 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 30
79861461 TTTTTTATCG
**
79861471 TTATTTATTTATATTAAAGTTATTATAAAAA
1 TTATTTATTTATAAAAAAGTT-TTATAAAAA
79861502 TTATATTATTTATAAAAAAGTTTTATAAA
1 TTAT-TTATTTATAAAAAAGTTTTATAAA
79861531 GTGTTATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 11 0.42
32 15 0.58
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (30 bp):
TTATTTATTTATAAAAAAGTTTTATAAAAA
Found at i:79864161 original size:19 final size:19
Alignment explanation
Indices: 79864134--79864177 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
79864124 TAAAATTATG
* *
79864134 TAATAAATATAATTATAAAA
1 TAAT-AATATAAATAAAAAA
79864154 TAATAATATAAATAAAAAA
1 TAATAATATAAATAAAAAA
79864173 TAATA
1 TAATA
79864178 TTTTGATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TAATAATATAAATAAAAAA
Found at i:79864176 original size:30 final size:30
Alignment explanation
Indices: 79864117--79864176 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
79864107 GTGATTTAGA
* *
79864117 TATAAAATAAAATTATGTAATAAATATAAT
1 TATAAAATAAAATTATGAAATAAAAATAAT
79864147 TATAAAATAATAA-TAT-AAATAAAAAATAAT
1 TATAAAATAA-AATTATGAAAT-AAAAATAAT
79864177 ATTTTGATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 3 0.12
30 21 0.81
31 2 0.08
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (30 bp):
TATAAAATAAAATTATGAAATAAAAATAAT
Found at i:79867090 original size:27 final size:27
Alignment explanation
Indices: 79867052--79867116 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
79867042 TAGTTTAATT
79867052 GCAATATTATGTTATAGCAGTATTACC
1 GCAATATTATGTTATAGCAGTATTACC
* *
79867079 GCAATATTATGTTATAGCGGTATTACT
1 GCAATATTATGTTATAGCAGTATTACC
79867106 GCAATA-TATGT
1 GCAATATTATGT
79867117 GAGTCATGCA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 5 0.14
27 31 0.86
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (27 bp):
GCAATATTATGTTATAGCAGTATTACC
Found at i:79868958 original size:18 final size:18
Alignment explanation
Indices: 79868922--79868967 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
79868912 AATATTTATA
*
79868922 AATAATAATAGTAAATAT
1 AATAATAATATTAAATAT
*
79868940 AATAATAATATTAAGTAT
1 AATAATAATATTAAATAT
*
79868958 AGT-ATAATAT
1 AATAATAATAT
79868968 GTTCACAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 7 0.28
18 18 0.72
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (18 bp):
AATAATAATATTAAATAT
Found at i:79868997 original size:19 final size:18
Alignment explanation
Indices: 79868973--79869008 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
79868963 AATATGTTCA
79868973 CAACAATAATAATAATAAG
1 CAACAATAAT-ATAATAAG
79868992 CAACAATAATATAATAA
1 CAACAATAATATAATAA
79869009 TAATATAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.64, C:0.11, G:0.03, T:0.22
Consensus pattern (18 bp):
CAACAATAATATAATAAG
Found at i:79869009 original size:24 final size:25
Alignment explanation
Indices: 79868978--79869028 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
79868968 GTTCACAACA
79868978 ATAATAATAATA-AGCAACAA-TAAT
1 ATAATAATAATATAGCAA-AACTAAT
79869002 ATAATAATAATATAGCAAAACTAAT
1 ATAATAATAATATAGCAAAACTAAT
79869027 AT
1 AT
79869029 TACAAATACT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.27
Consensus pattern (25 bp):
ATAATAATAATATAGCAAAACTAAT
Found at i:79869569 original size:23 final size:23
Alignment explanation
Indices: 79869524--79869570 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
79869514 TAAAAAATTT
*
79869524 TGTTTTATTATTATTATTTTTTA
1 TGTTTTATTAATATTATTTTTTA
79869547 TGTTTTA-TAATATTATTATTTTA
1 TGTTTTATTAATATTATT-TTTTA
79869570 T
1 T
79869571 TTATATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (23 bp):
TGTTTTATTAATATTATTTTTTA
Found at i:79869585 original size:25 final size:23
Alignment explanation
Indices: 79869527--79869585 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 23
79869517 AAAATTTTGT
*
79869527 TTTATTATTATTATTTTTTATGT
1 TTTATTATTATTATTTTTTATGA
79869550 TTTATAATATTATTATTTTATTTAT-A
1 TTTAT--TATTATTA-TTT-TTTATGA
79869576 TTTATGTATT
1 TTTAT-TATT
79869586 TATAGATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 5 0.17
25 12 0.40
26 8 0.27
27 5 0.17
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.69
Consensus pattern (23 bp):
TTTATTATTATTATTTTTTATGA
Found at i:79869588 original size:34 final size:32
Alignment explanation
Indices: 79869528--79869594 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 32
79869518 AAATTTTGTT
79869528 TTATTATTATTATTTTTTATGTTTTATA-ATA
1 TTATTATTATTATTTTTTATGTTTTATAGATA
79869559 TTATTATT-TTATTTATATTTATGTATTTATAGATA
1 TTATTATTATTA-TT-T-TTTATGT-TTTATAGATA
79869594 T
1 T
79869595 AGAAAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
30 3 0.10
31 10 0.32
32 1 0.03
33 7 0.23
34 6 0.19
35 4 0.13
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (32 bp):
TTATTATTATTATTTTTTATGTTTTATAGATA
Found at i:79870839 original size:5 final size:5
Alignment explanation
Indices: 79870829--79870860 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
79870819 ATGTCTGTGA
79870829 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
79870861 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:79870854 original size:9 final size:9
Alignment explanation
Indices: 79870830--79870860 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
79870820 TGTCTGTGAA
79870830 AAATAAAAT
1 AAATAAAAT
79870839 AAAATAAAAT
1 -AAATAAAAT
79870849 AAATAAAAT
1 AAATAAAAT
79870858 AAA
1 AAA
79870861 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:79875293 original size:5 final size:5
Alignment explanation
Indices: 79875283--79875314 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
79875273 CAATTTGTGA
79875283 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
79875315 GAACATACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:79880848 original size:27 final size:27
Alignment explanation
Indices: 79880817--79880994 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
79880807 TAAATTGTAC
79880817 AGCACTAAGTGTGCGATTTGACAATGT
1 AGCACTAAGTGTGCGATTTGACAATGT
* **
79880844 TGCACTAAGTGTGCGAAATGA-ATATG-
1 AGCACTAAGTGTGCGATTTGACA-ATGT
* * *
79880870 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACAATGT
* *
79880898 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACAATGT
**
79880926 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACAATGT
* ** *
79880953 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACAATGT
*
79880980 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
79880995 GACTCAATAT
Statistics
Matches: 131, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 107 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACAATGT
Found at i:79880935 original size:82 final size:81
Alignment explanation
Indices: 79880818--79880973 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
79880808 AAATTGTACA
*
79880818 GCACTAAGTGTGCGATTTGACAATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACAATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
79880882 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
79880899 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACAATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
79880964 TGCGAGTTGA
65 TGCGAATTGA
79880974 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACAATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:79880985 original size:82 final size:81
Alignment explanation
Indices: 79880814--79880994 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
79880804 GATTAAATTG
*
79880814 TACAGCACTAAGTGTGCGATTTGACAATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACAATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
79880879 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
79880895 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACAATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
79880959 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
79880977 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
79880995 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACAATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:79886979 original size:31 final size:31
Alignment explanation
Indices: 79886941--79887001 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
79886931 TTTTTAGGAG
*
79886941 AATGAAAGGTTAAGAGTCATTGGTTTATGGC
1 AATGAAAGGTCAAGAGTCATTGGTTTATGGC
79886972 AATGAAAGGTCAAGAGTCATTGGTTTATGG
1 AATGAAAGGTCAAGAGTCATTGGTTTATGG
79887002 TTTTTTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.31
Consensus pattern (31 bp):
AATGAAAGGTCAAGAGTCATTGGTTTATGGC
Found at i:79895092 original size:37 final size:37
Alignment explanation
Indices: 79895042--79895120 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
79895032 TTATTACGAA
* * *
79895042 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
79895079 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
79895116 GTCTT
1 GTCTT
79895121 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:79895317 original size:47 final size:47
Alignment explanation
Indices: 79895239--79895508 Score: 407
Period size: 47 Copynumber: 5.7 Consensus size: 47
79895229 ACCTTCGGGA
* * * * * *
79895239 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
79895286 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79895333 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79895380 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
79895427 CTTATCACATATATACACTTTCATATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
79895474 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
79895509 AGAATCCTAA
Statistics
Matches: 206, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 205 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:79899258 original size:40 final size:40
Alignment explanation
Indices: 79899226--79899577 Score: 569
Period size: 40 Copynumber: 8.8 Consensus size: 40
79899216 CCAGCATGAT
* * * *
79899226 TGCTCTTCGAGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** * *
79899266 TGCTCTTCGGGGTTTAGCACGAATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
79899306 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
79899346 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
79899386 TGCTCCTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
79899426 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
79899466 TGCTCTTTGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
79899506 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
79899546 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
79899578 CTCAATTCTC
Statistics
Matches: 292, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 292 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:79900843 original size:37 final size:37
Alignment explanation
Indices: 79900793--79900871 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
79900783 TTATTACGAA
* * *
79900793 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
79900830 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
79900867 GTCTT
1 GTCTT
79900872 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:79901068 original size:47 final size:47
Alignment explanation
Indices: 79900990--79901259 Score: 400
Period size: 47 Copynumber: 5.7 Consensus size: 47
79900980 CCCTTCGGGA
* * * * *
79900990 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* * *
79901037 CCTGTCACATATATAAACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79901084 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79901131 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
79901178 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
79901225 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
79901260 AGAATCCTAA
Statistics
Matches: 206, Mismatches: 15, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
46 3 0.01
47 203 0.99
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:79904438 original size:45 final size:45
Alignment explanation
Indices: 79904374--79904467 Score: 161
Period size: 45 Copynumber: 2.1 Consensus size: 45
79904364 TTAAAACACA
* *
79904374 ACCCATACCATTTAACGATGCATCACTATAGATTACGAATTTTTT
1 ACCCAGACCATTTAACGATGCATCACTATAGATTACAAATTTTTT
*
79904419 ACCCAGACCATTTAACGATGCATCACTATAGATTGCAAATTTTTT
1 ACCCAGACCATTTAACGATGCATCACTATAGATTACAAATTTTTT
79904464 ACCC
1 ACCC
79904468 GATTCTCGCT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (45 bp):
ACCCAGACCATTTAACGATGCATCACTATAGATTACAAATTTTTT
Found at i:79916627 original size:29 final size:30
Alignment explanation
Indices: 79916561--79916629 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
79916551 TAAGTCTTCA
*
79916561 AAAATAAAGAAGAGAAAATAAAATTTAAAT
1 AAAATAAAGAAGAGAAAATAAAATTCAAAT
* *
79916591 AAACATAAA-AATAG-AAATAAAATTCATAGT
1 AAA-ATAAAGAAGAGAAAATAAAATTCA-AAT
79916621 AAAATAAAG
1 AAAATAAAG
79916630 GAACTCAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 16 0.48
30 12 0.36
31 5 0.15
ACGTcount: A:0.68, C:0.03, G:0.09, T:0.20
Consensus pattern (30 bp):
AAAATAAAGAAGAGAAAATAAAATTCAAAT
Found at i:79926249 original size:29 final size:30
Alignment explanation
Indices: 79926183--79926251 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
79926173 TAAGTCTTCA
*
79926183 AAAATAAAGAAGAGAAAATAAAATTTAAAT
1 AAAATAAAGAAGAGAAAATAAAATTCAAAT
* *
79926213 AAACATAAA-AATAG-AAATAAAATTCATAGT
1 AAA-ATAAAGAAGAGAAAATAAAATTCA-AAT
79926243 AAAATAAAG
1 AAAATAAAG
79926252 GAACTCAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 16 0.48
30 12 0.36
31 5 0.15
ACGTcount: A:0.68, C:0.03, G:0.09, T:0.20
Consensus pattern (30 bp):
AAAATAAAGAAGAGAAAATAAAATTCAAAT
Found at i:79929592 original size:19 final size:19
Alignment explanation
Indices: 79929564--79929600 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
79929554 ACCTATCAGA
79929564 AGTAAATAAAATAAAATTT
1 AGTAAATAAAATAAAATTT
*
79929583 AGTAATTAAAATAAAATT
1 AGTAAATAAAATAAAATT
79929601 AAATTGCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
AGTAAATAAAATAAAATTT
Found at i:79937436 original size:27 final size:27
Alignment explanation
Indices: 79937388--79937547 Score: 141
Period size: 27 Copynumber: 5.9 Consensus size: 27
79937378 GCGAGGCTGC
* *
79937388 CAGATATTGTGACTA-AGTCACCAGATA
1 CAGATATTGTGGC-AGAGCCACCAGATA
79937415 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
79937441 TAGATATATATGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
79937468 CAGATAATTGTGCCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
79937495 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
79937522 TAGATAAATTTTGGCATAGCCACCAG
1 CAGAT--ATTGTGGCAGAGCCACCAG
79937548 GACGCTTCCT
Statistics
Matches: 109, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
26 10 0.09
27 80 0.73
28 17 0.16
29 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:79937478 original size:54 final size:54
Alignment explanation
Indices: 79937406--79937547 Score: 196
Period size: 54 Copynumber: 2.6 Consensus size: 54
79937396 GTGACTAAGT
* *
79937406 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAATAGATATATATGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
* * *
79937460 CACCAGATCAGATAATTGTGCCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
* *
79937514 CACCAGATTAGATAAATTTTGGCATAGCCACCAG
1 CACCAGATCAGAT-AATTGTGGCATAGCCACCAG
79937548 GACGCTTCCT
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
53 5 0.06
54 55 0.71
55 18 0.23
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
Found at i:79945411 original size:27 final size:27
Alignment explanation
Indices: 79945378--79945505 Score: 152
Period size: 27 Copynumber: 4.7 Consensus size: 27
79945368 CCAGATATAG
79945378 ATATGTGGCATAGCCACCAGAACAGAT
1 ATATGTGGCATAGCCACCAGAACAGAT
* *
79945405 ATATGTGGCAGAGCCACCAGATCAGAT
1 ATATGTGGCATAGCCACCAGAACAGAT
* *
79945432 A-ATTGTGGCATAGCCACCAGGATAGAT
1 ATA-TGTGGCATAGCCACCAGAACAGAT
* **
79945459 ATATGT-GCAGAGCCACCAGATTAGAT
1 ATATGTGGCATAGCCACCAGAACAGAT
*
79945485 AAATTGTGGCATAGCCACCAG
1 ATA-TGTGGCATAGCCACCAG
79945506 GATGCTTCCT
Statistics
Matches: 86, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
26 20 0.23
27 53 0.62
28 13 0.15
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.20
Consensus pattern (27 bp):
ATATGTGGCATAGCCACCAGAACAGAT
Found at i:79945506 original size:54 final size:53
Alignment explanation
Indices: 79945350--79945508 Score: 218
Period size: 54 Copynumber: 3.0 Consensus size: 53
79945340 CGAGGCTGCC
* * *
79945350 AGATAT-TGTG-ACGAGTCACCAGATATAGAT-A-TGTGGCATAGCCACCAGAAC
1 AGATATATGTGCA-GAGCCACCAGAT-TAGATAATTGTGGCATAGCCACCAGGAT
*
79945401 AGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGAT
1 AGATATATGT-GCAGAGCCACCAGATTAGATAATTGTGGCATAGCCACCAGGAT
79945455 AGATATATGTGCAGAGCCACCAGATTAGATAAATTGTGGCATAGCCACCAGGAT
1 AGATATATGTGCAGAGCCACCAGATTAGAT-AATTGTGGCATAGCCACCAGGAT
79945509 GCTTCCTCCA
Statistics
Matches: 97, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
51 6 0.06
52 7 0.07
53 32 0.33
54 52 0.54
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (53 bp):
AGATATATGTGCAGAGCCACCAGATTAGATAATTGTGGCATAGCCACCAGGAT
Found at i:79945760 original size:16 final size:17
Alignment explanation
Indices: 79945739--79945771 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
79945729 ACAATTTGGG
79945739 CCCG-TTGGCCCATTAT
1 CCCGTTTGGCCCATTAT
79945755 CCCGTTTTGGCCCATTA
1 CCCG-TTTGGCCCATTA
79945772 AGCCCAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
18 11 0.73
ACGTcount: A:0.12, C:0.36, G:0.18, T:0.33
Consensus pattern (17 bp):
CCCGTTTGGCCCATTAT
Found at i:79948093 original size:63 final size:64
Alignment explanation
Indices: 79948025--79948161 Score: 172
Period size: 63 Copynumber: 2.2 Consensus size: 64
79948015 TCGTGTGACC
* * * *
79948025 CAAGTCAGTAACCTCCCTAG-TTTTCCA-TGCCATGGCACACGGGTGTGTCTCCGGTCGTGT-GT
1 CAAGTCAGTAACCT--CTAGTTTTTCCACGGCCATGGCACACGGGCGTGTCTCCGGCCATGTGGT
79948087 A
64 A
* * *
79948088 CAAGTCAGTGACCTTTAGTTTTTCCACGGCTATGGCACACGGGCGTGTCTCCGGCCATGTGGTA
1 CAAGTCAGTAACCTCTAGTTTTTCCACGGCCATGGCACACGGGCGTGTCTCCGGCCATGTGGTA
79948152 CAAGTCAGTA
1 CAAGTCAGTA
79948162 TCTATGCCTT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
61 3 0.05
62 7 0.11
63 41 0.65
64 12 0.19
ACGTcount: A:0.19, C:0.27, G:0.26, T:0.28
Consensus pattern (64 bp):
CAAGTCAGTAACCTCTAGTTTTTCCACGGCCATGGCACACGGGCGTGTCTCCGGCCATGTGGTA
Found at i:79956185 original size:38 final size:39
Alignment explanation
Indices: 79956143--79956260 Score: 145
Period size: 37 Copynumber: 3.0 Consensus size: 39
79956133 CTTTCGCCGT
79956143 ATATAGTACCGCACAAATGCCTTCGGGACTTAGCCCGGA
1 ATATAGTACCGCACAAATGCCTTCGGGACTTAGCCCGGA
79956182 TATATAGTTAACCGTGCAC-AATGCCTTCGGG-CTTAGCCC-GA
1 -ATATAG-T-ACC--GCACAAATGCCTTCGGGACTTAGCCCGGA
*
79956223 AT-TAGTACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 ATATAGTAC-CGCACAAATGCCTTCGGGACTTAGCCCGG
79956261 TTATCATCCG
Statistics
Matches: 69, Mismatches: 1, Indels: 17
0.79 0.01 0.20
Matches are distributed among these distances:
36 4 0.06
37 14 0.20
38 9 0.13
39 4 0.06
40 8 0.12
41 3 0.04
42 11 0.16
43 12 0.17
44 4 0.06
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
ATATAGTACCGCACAAATGCCTTCGGGACTTAGCCCGGA
Found at i:79971294 original size:24 final size:24
Alignment explanation
Indices: 79971249--79971294 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
79971239 ATATACAATG
* * *
79971249 CAATCATTCTTTAATTCATTCATT
1 CAATCAATCATTAATACATTCATT
*
79971273 CAATCAATCATTAATACTTTCA
1 CAATCAATCATTAATACATTCA
79971295 ACATTCTATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (24 bp):
CAATCAATCATTAATACATTCATT
Found at i:79977816 original size:13 final size:13
Alignment explanation
Indices: 79977786--79977810 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79977776 CTAAATCATA
79977786 ATTTTAGTAAAAT
1 ATTTTAGTAAAAT
79977799 ATTTTAGTAAAA
1 ATTTTAGTAAAA
79977811 CTTTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
ATTTTAGTAAAAT
Found at i:79978265 original size:21 final size:21
Alignment explanation
Indices: 79978240--79978281 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
79978230 GCATGAATTA
79978240 ATTAT-TTGTATTTATTAAAAT
1 ATTATATT-TATTTATTAAAAT
*
79978261 ATTATATTTATTTATTTAAAT
1 ATTATATTTATTTATTAAAAT
79978282 TTTTTATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTATATTTATTTATTAAAAT
Found at i:79978371 original size:73 final size:74
Alignment explanation
Indices: 79978250--79978397 Score: 235
Period size: 73 Copynumber: 2.0 Consensus size: 74
79978240 ATTATTTGTA
**
79978250 TTTATTAAAATATTATATTTATTTATTTAAATTTTTTATACAAAACTTTTGGTATTTAATAATTA
1 TTTATTAAAATATTATATTTATTTATTTAAATTTTTTATACAAAACTTTCAGTATTTAATAATTA
79978315 GAATCACTT
66 GAATCACTT
* * * *
79978324 TTTATTAGAATGTTATATTTA-TTATTTAAATTTTTTGTATAAAACTTTCAGTATTTAATAATTA
1 TTTATTAAAATATTATATTTATTTATTTAAATTTTTTATACAAAACTTTCAGTATTTAATAATTA
79978388 GAATCACTT
66 GAATCACTT
79978397 T
1 T
79978398 AAGAAACCAA
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
73 49 0.72
74 19 0.28
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.53
Consensus pattern (74 bp):
TTTATTAAAATATTATATTTATTTATTTAAATTTTTTATACAAAACTTTCAGTATTTAATAATTA
GAATCACTT
Found at i:79978723 original size:6 final size:6
Alignment explanation
Indices: 79978712--79978743 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
79978702 TAAAGTATTG
79978712 TAATTA TAATTA TAATTA TAATTA TAA-TA TAA
1 TAATTA TAATTA TAATTA TAATTA TAATTA TAA
79978744 CTGTATGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
TAATTA
Found at i:79984805 original size:93 final size:93
Alignment explanation
Indices: 79984693--79984864 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
79984683 CGCCCATAAG
** *
79984693 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCA
79984758 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* *
79984786 CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCA
*
79984851 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
79984865 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:79984809 original size:47 final size:46
Alignment explanation
Indices: 79984686--79984860 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
79984676 TGTAACCCGC
79984686 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
79984732 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * ** * *
79984782 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
* *
79984825 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
79984861 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 62 0.57
47 26 0.24
48 3 0.03
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
Found at i:79989351 original size:15 final size:15
Alignment explanation
Indices: 79989328--79989358 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
79989318 AAAAGAGAAT
79989328 ATAAAACATGAATTA
1 ATAAAACATGAATTA
*
79989343 ATAATACATGAATTA
1 ATAAAACATGAATTA
79989358 A
1 A
79989359 ATGCTAGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (15 bp):
ATAAAACATGAATTA
Found at i:79989617 original size:20 final size:22
Alignment explanation
Indices: 79989594--79989640 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
79989584 TGAATAATGC
79989594 ATAA-GAAC-TTAAAATAAATA
1 ATAAGGAACTTTAAAATAAATA
*
79989614 ATAAAAGGAGCTTTAAAATAAATA
1 AT--AAGGAACTTTAAAATAAATA
79989638 ATA
1 ATA
79989641 TATAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
20 2 0.09
22 3 0.14
23 3 0.14
24 14 0.64
ACGTcount: A:0.62, C:0.04, G:0.09, T:0.26
Consensus pattern (22 bp):
ATAAGGAACTTTAAAATAAATA
Found at i:79989669 original size:26 final size:26
Alignment explanation
Indices: 79989625--79989674 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
79989615 TAAAAGGAGC
*
79989625 TTTAAAATAAATAATATATAAAATTT
1 TTTAAAATAAATAACATATAAAATTT
* *
79989651 TTTAAAATGAATTACATATAAAAT
1 TTTAAAATAAATAACATATAAAAT
79989675 AGTTTGAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (26 bp):
TTTAAAATAAATAACATATAAAATTT
Found at i:79999165 original size:19 final size:17
Alignment explanation
Indices: 79999123--79999165 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
79999113 AAATGTTTCG
79999123 GAAT-GAAATAAAATGT
1 GAATGGAAATAAAATGT
79999139 GAATTGGAAATTAAAATAGT
1 GAA-TGGAAA-TAAAAT-GT
79999159 GAATGGA
1 GAATGGA
79999166 TAAGTGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 3 0.13
17 1 0.04
18 4 0.17
19 10 0.43
20 5 0.22
ACGTcount: A:0.51, C:0.00, G:0.23, T:0.26
Consensus pattern (17 bp):
GAATGGAAATAAAATGT
Found at i:80001065 original size:20 final size:21
Alignment explanation
Indices: 80001028--80001086 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 21
80001018 AGTTCATAAA
80001028 CATATATATATATATCACTTT
1 CATATATATATATATCACTTT
* *
80001049 CATA-ATATATTTTTCACTTGTT
1 CATATATATATATATCAC-T-TT
*
80001071 CATATCAAATATATAT
1 CATAT-ATATATATAT
80001087 TTACATTGCC
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
20 11 0.38
21 5 0.17
22 6 0.21
24 7 0.24
ACGTcount: A:0.37, C:0.14, G:0.02, T:0.47
Consensus pattern (21 bp):
CATATATATATATATCACTTT
Found at i:80001376 original size:45 final size:45
Alignment explanation
Indices: 80001262--80001438 Score: 204
Period size: 45 Copynumber: 4.0 Consensus size: 45
80001252 ATGCTATCTC
* * *
80001262 ATATCGATGCC-ACTGTCCCAGATAGGGTCTTACA-GAAATCA-A-
1 ATATCGATGCCAAC-GTCCCAGACATGGTCTTACACGAAAACACAT
* * * * *
80001304 ATA-CGATGCCGATGTCCCGGACATGGTCTTACTC-ATAACCACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGA-AAACACAT
* *
80001348 ATATCGATGCCAACGTCCTAGACGTGGTCTTACACGAAAACACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGAAAACACAT
80001393 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGAAAACACAT
1 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGAAAACACAT
80001438 A
1 A
80001439 GCATAGTCCT
Statistics
Matches: 113, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
41 24 0.21
42 8 0.07
43 1 0.01
44 3 0.03
45 76 0.67
46 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.23
Consensus pattern (45 bp):
ATATCGATGCCAACGTCCCAGACATGGTCTTACACGAAAACACAT
Found at i:80001377 original size:86 final size:90
Alignment explanation
Indices: 80001262--80001425 Score: 214
Period size: 86 Copynumber: 1.9 Consensus size: 90
80001252 ATGCTATCTC
* * * *
80001262 ATATCGATGCCACTGTCCCAGATAGGGTCTTACA-GAAATCA-A-ATA-CGATGCCGATGTCCCG
1 ATATCGATGCCACTGTCCCAGATAGGGTCTTACACGAAAACACATATATCGATGCCAACGTCCCA
80001323 GACATGGTCTTACTCATAACCACAT
66 GACATGGTCTTACTCATAACCACAT
* *
80001348 ATATCGATGCCAAC-GTCCTAGA-CGTGGTCTTACACGAAAACACATATATCGATGCCAACGTCC
1 ATATCGATGCC-ACTGTCCCAGATAG-GGTCTTACACGAAAACACATATATCGATGCCAACGTCC
80001411 CAGACATGGTCTTAC
64 CAGACATGGTCTTAC
80001426 ACGAAAACAC
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
85 1 0.02
86 27 0.41
87 8 0.12
88 1 0.02
89 3 0.05
90 26 0.39
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (90 bp):
ATATCGATGCCACTGTCCCAGATAGGGTCTTACACGAAAACACATATATCGATGCCAACGTCCCA
GACATGGTCTTACTCATAACCACAT
Found at i:80002004 original size:15 final size:15
Alignment explanation
Indices: 80001981--80002011 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
80001971 TCAAAAATTC
80001981 CAATACAAAACATAT
1 CAATACAAAACATAT
*
80001996 CAATCCAAAACATAT
1 CAATACAAAACATAT
80002011 C
1 C
80002012 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:80002544 original size:14 final size:15
Alignment explanation
Indices: 80002527--80002555 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
80002517 TTACAAAAAT
80002527 TTCACACAT-ATAAA
1 TTCACACATAATAAA
80002541 TTCACACATAATAAA
1 TTCACACATAATAAA
80002556 CACAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:80007046 original size:12 final size:13
Alignment explanation
Indices: 80007031--80007063 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
80007021 ATATGTGGCC
80007031 ATATATATATA-A
1 ATATATATATACA
80007043 ATATATATATACA
1 ATATATATATACA
80007056 A-ATATATA
1 ATATATATA
80007064 CATATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 18 0.90
13 2 0.10
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (13 bp):
ATATATATATACA
Found at i:80007048 original size:14 final size:14
Alignment explanation
Indices: 80007031--80007068 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
80007021 ATATGTGGCC
80007031 ATATATATATAAAT
1 ATATATATATAAAT
*
80007045 ATATATATACAAAT
1 ATATATATATAAAT
*
80007059 ATATACATAT
1 ATATATATAT
80007069 TTTTTAAGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (14 bp):
ATATATATATAAAT
Found at i:80015072 original size:26 final size:25
Alignment explanation
Indices: 80015002--80015079 Score: 68
Period size: 26 Copynumber: 3.1 Consensus size: 25
80014992 TATATAACAA
* *
80015002 GAAGCTCATAAGAGCC-ATAATCAG
1 GAAGCTCAAAAGAGCCTTTAATCAG
* * * *
80015026 GAAGTTCAGAAAAAACTTTTAATCAG
1 GAAGCTCA-AAAGAGCCTTTAATCAG
*
80015052 GAAGCTCACAAAGAGCCTTTAATTAG
1 GAAGCTCA-AAAGAGCCTTTAATCAG
80015078 GA
1 GA
80015080 GCTTTAGATA
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
24 7 0.17
25 4 0.10
26 29 0.73
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (25 bp):
GAAGCTCAAAAGAGCCTTTAATCAG
Found at i:80016658 original size:46 final size:47
Alignment explanation
Indices: 80016473--80016785 Score: 222
Period size: 46 Copynumber: 6.6 Consensus size: 47
80016463 GTATAATGTC
* * *
80016473 GATGTCATGTCCCAGACATGGTCTTACACTGACTATCGAAAT-T-GAAG-T
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCT-T--ACATCTCGAGGCT
* * * * *
80016521 CGATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCACATATCTG-TGCC
1 -GATG-CATGTCCCAGACATGGTCTTACACTGGCT-T-ACATCTC-GAGGCT
*
80016572 GATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTA-GCT
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCG-AGGCT
* *
80016618 GATGCATGTCCTAGACAT-GTCATACACTGGCTTACATCTCGAGGCT
1 GATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCT
* * * *
80016664 GATGCATGTCCCAGACAT-GTCTTACACTAGCTCTA-ATCTCAATGCC
1 GATGCATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCGAGGCT
* * *
80016710 GATGGCATGTCCCAGACATGGTCTTACACTAGCTCT-CATAAT-GTGGAC-
1 GAT-GCATGTCCCAGACATGGTCTTACACTGGCT-TACAT-CTCGAGG-CT
80016758 GATGCATGTCCCAGACAT-GTCTTACACT
1 GATGCATGTCCCAGACATGGTCTTACACT
80016786 AGCACACAAA
Statistics
Matches: 222, Mismatches: 27, Indels: 33
0.79 0.10 0.12
Matches are distributed among these distances:
44 11 0.05
45 15 0.07
46 73 0.33
47 32 0.14
48 25 0.11
49 34 0.15
50 31 0.14
51 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCT
Found at i:80016766 original size:94 final size:93
Alignment explanation
Indices: 80016521--80016793 Score: 283
Period size: 94 Copynumber: 2.9 Consensus size: 93
80016511 AAATTGAAGT
* * * *
80016521 CGATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCCGATGCCATGTCCCA
1 CGATGGCATGTCCCAGACATGGTCTTACACTAGCTCT--CATA-ATGTGGCGATG-CATGTCCCA
*
80016586 GACATGGTCTTACACT-G-ACACATCTCGTAGC
62 GACAT-GTCTTACACTAGCACACATCTCATAGC
* * * * * *
80016617 TGAT-GCATGTCCTAGACAT-GTCATACACTGGCT-TACAT-CTCGAGGCTGATGCATGTCCCAG
1 CGATGGCATGTCCCAGACATGGTCTTACACTAGCTCT-CATAAT-GTGGC-GATGCATGTCCCAG
*
80016678 ACATGTCTTACACTAGCTCTA-ATCTCA-ATGC
63 ACATGTCTTACACTAGCAC-ACATCTCATA-GC
80016709 CGATGGCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGACGATGCATGTCCCAGAC
1 CGATGGCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGG-CGATGCATGTCCCAGAC
80016774 ATGTCTTACACTAGCACACA
65 ATGTCTTACACTAGCACACA
80016794 AATAACCCGA
Statistics
Matches: 148, Mismatches: 17, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
90 12 0.08
91 19 0.13
92 19 0.13
93 17 0.11
94 63 0.43
95 15 0.10
96 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (93 bp):
CGATGGCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCGATGCATGTCCCAGACA
TGTCTTACACTAGCACACATCTCATAGC
Found at i:80016784 original size:140 final size:142
Alignment explanation
Indices: 80016522--80016785 Score: 351
Period size: 140 Copynumber: 1.9 Consensus size: 142
80016512 AATTGAAGTC
* **
80016522 GATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCCGATGCCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCAATGCCGATGCCATGTCCCAG
* *
80016587 ACATGGTCTTACACTGACACATCTCGTAGCTGATGCATGTCCTAGACATGTCATACACTGGCTTA
66 ACATGGTCTTACACTGACACATATCGTAGCTGATGCATGTCCCAGACATGTCATACACTGGCTTA
80016652 CATCTCGAGGCT
131 CATCTCGAGGCT
* *
80016664 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-A-ATCTCAATGCCGATGGCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCAATGCCGATGCCATGTCCCAG
* * * *
80016725 ACATGGTCTTACACTAGCTCTCATAAT-GTGGAC-GATGCATGTCCCAGACATGTCTTACACT
66 ACATGGTCTTACACT-G-ACACAT-ATCGTAG-CTGATGCATGTCCCAGACATGTCATACACT
80016786 AGCACACAAA
Statistics
Matches: 107, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
138 37 0.35
139 2 0.02
140 49 0.46
141 15 0.14
142 4 0.04
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (142 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCAATGCCGATGCCATGTCCCAG
ACATGGTCTTACACTGACACATATCGTAGCTGATGCATGTCCCAGACATGTCATACACTGGCTTA
CATCTCGAGGCT
Found at i:80018768 original size:56 final size:56
Alignment explanation
Indices: 80018677--80018799 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
80018667 GAGATTGGCG
* * *
80018677 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
80018734 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
80018789 CTGAGTGTGCG
1 CTAAGTGTGCG
80018800 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:80018786 original size:27 final size:28
Alignment explanation
Indices: 80018677--80018799 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
80018667 GAGATTGGCG
* * * *
80018677 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
80018706 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
80018734 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
80018762 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
80018789 CTGAGTGTGCG
1 CTAAGTGTGCG
80018800 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:80018810 original size:27 final size:27
Alignment explanation
Indices: 80018702--80018812 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
80018692 TAAATTGTAC
* * *
80018702 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
80018730 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
80018758 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
80018785 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
80018812 A
1 A
80018813 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:80025493 original size:37 final size:37
Alignment explanation
Indices: 80025432--80025510 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
80025422 TTATTACGAA
* * * *
80025432 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
*
80025469 GTCTTACCCGAACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
80025506 GTCTT
1 GTCTT
80025511 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
Found at i:80025753 original size:49 final size:49
Alignment explanation
Indices: 80025629--80025753 Score: 155
Period size: 49 Copynumber: 2.6 Consensus size: 49
80025619 CCCTTCGGGA
* * * *
80025629 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCACTAGGC
* * * * *
80025676 CCTGTCACATATATGTACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCACTAGGC
80025725 CTTATCACATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
80025754 TATTCAAATA
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
47 8 0.13
48 1 0.02
49 54 0.86
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCACTAGGC
Found at i:80026765 original size:13 final size:13
Alignment explanation
Indices: 80026747--80026771 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80026737 TACTAAATTT
80026747 TCATGGATTCAAG
1 TCATGGATTCAAG
80026760 TCATGGATTCAA
1 TCATGGATTCAA
80026772 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:80028349 original size:40 final size:40
Alignment explanation
Indices: 80028305--80028418 Score: 149
Period size: 39 Copynumber: 2.9 Consensus size: 40
80028295 GAATACACGT
* *
80028305 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATAA
1 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGACATAA
* * * * *
80028345 CACCAGCACGAATGCTCTTCGGG-TTTAGCACGGATATAT
1 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGACATAA
*
80028384 CACTAGCATGAATGCTCTTCGGGACTTAGCCCGGA
1 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGA
80028419 TTTAGTAACT
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
39 32 0.52
40 30 0.48
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGACATAA
Found at i:80028444 original size:40 final size:40
Alignment explanation
Indices: 80028349--80028498 Score: 121
Period size: 40 Copynumber: 3.7 Consensus size: 40
80028339 ACATAACACC
* * *
80028349 AGCACGAATGCTCTTCGGG-TTTAGCACGGATATA-TCAC-T
1 AGCAC-AATGC-CTTCGGGACTTAGCCCGGATATAGTAACTT
* *
80028388 AGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAAC-T
1 AGCA-CAATGC-CTTCGGGACTTAGCCCGGATATAGTAACTT
* * * *
80028429 CGCACCAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTT
1 AGCA-CAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTT
*
80028470 AGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AGCACAATGCCTTCGGGACTTAGCCCGGA
80028499 CATCATTCGA
Statistics
Matches: 90, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
39 20 0.22
40 51 0.57
41 19 0.21
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
AGCACAATGCCTTCGGGACTTAGCCCGGATATAGTAACTT
Found at i:80028444 original size:79 final size:81
Alignment explanation
Indices: 80028304--80028501 Score: 205
Period size: 79 Copynumber: 2.5 Consensus size: 81
80028294 CGAATACACG
* * * * *
80028304 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGACATAACACCAGCACCAATGCTCTTCGGAT
80028369 -TTAG-CACGGATAT-A
66 CTTAGTC-CGGATATGA
* *
80028383 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAAC-TC-GCACCAATGC-CTTCG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGA--CA-TAACACCAGCACCAATGCTCTTCG
*
80028445 GATCTTAGTCCGGATATGG
63 GATCTTAGTCCGGATATGA
* *
80028464 TCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGACAT
1 TCAC-TAGCATGAATGCTCTTCGGGACTTAGCCCGGACAT
80028502 CATTCGAATA
Statistics
Matches: 101, Mismatches: 11, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
77 1 0.01
78 1 0.01
79 40 0.40
80 39 0.39
81 11 0.11
82 9 0.09
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGACATAACACCAGCACCAATGCTCTTCGGAT
CTTAGTCCGGATATGA
Found at i:80039908 original size:27 final size:26
Alignment explanation
Indices: 80039871--80040036 Score: 197
Period size: 27 Copynumber: 6.2 Consensus size: 26
80039861 AACATGGCTG
* *
80039871 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
80039897 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
80039925 CCAGAACAGATATATGTGGCAGAGTCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
80039952 CCAGATCAGATAATCATGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
*
80039979 CCAGAACAGATATATGTGCCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
80040006 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
80040033 CCAG
1 CCAG
80040037 GACGCTTCCT
Statistics
Matches: 122, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
26 7 0.06
27 96 0.79
28 19 0.16
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:80039930 original size:54 final size:54
Alignment explanation
Indices: 80039871--80040036 Score: 253
Period size: 54 Copynumber: 3.1 Consensus size: 54
80039861 AACATGGCTG
80039871 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGTCACCAGAT-CAGATAATCGTGGCAGAGCCA
* *
80039925 CCAGAACAGATATATGTGGCAGAGTCACCAGATCAGATAATCATGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGTCACCAGATCAGATAATCGTGGCAGAGCCA
* * * * *
80039979 CCAGAACAGATATATGTGCCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGTCACCAGATCAGATAATCGTGGCAGAGCCA
80040033 CCAG
1 CCAG
80040037 GACGCTTCCT
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 84 0.82
55 19 0.18
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGTCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:80040006 original size:81 final size:81
Alignment explanation
Indices: 80039871--80040036 Score: 219
Period size: 81 Copynumber: 2.0 Consensus size: 81
80039861 AACATGGCTG
* * *
80039871 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAGAACAGAT
1 CCAGAACAGATAATATGACAGAGCCACCAGATACAGATAATCGTGCCAGAGCCACCAGAACAGAT
*
80039936 ATATGTGGCAGAGTCA
66 ATATGTGGCAGAGCCA
* * *
80039952 CCAGATCAGATAATCATGGCAGAGCCACCAGA-ACAGATATAT-GTGCCAGAGCCACCAGATCAG
1 CCAGAACAGATAAT-ATGACAGAGCCACCAGATACAGATA-ATCGTGCCAGAGCCACCAGAACAG
* *
80040015 ATATTTGTGGCATAGCCA
64 ATATATGTGGCAGAGCCA
80040033 CCAG
1 CCAG
80040037 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
81 58 0.78
82 16 0.22
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (81 bp):
CCAGAACAGATAATATGACAGAGCCACCAGATACAGATAATCGTGCCAGAGCCACCAGAACAGAT
ATATGTGGCAGAGCCA
Found at i:80047782 original size:27 final size:26
Alignment explanation
Indices: 80047737--80047877 Score: 176
Period size: 27 Copynumber: 5.2 Consensus size: 26
80047727 TGTGACGAGT
80047737 CACCAGATATAGATAATGTGGCATAGC
1 CACCAGA-ATAGATAATGTGGCATAGC
* *
80047764 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAATAGATA-ATGTGGCATAGC
80047791 CACCAG-ATCAGATAATTGTGGCATAGC
1 CACCAGAAT-AGATAA-TGTGGCATAGC
* *
80047818 CACCAGGATAGATATATGTGGCAGAGC
1 CACCAGAATAGATA-ATGTGGCATAGC
*
80047845 CACCAGATTAGATAATTGTGGCATAGC
1 CACCAGAATAGATAA-TGTGGCATAGC
80047872 CACCAG
1 CACCAG
80047878 GATGCTTCCT
Statistics
Matches: 100, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.09
27 88 0.88
28 3 0.03
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CACCAGAATAGATAATGTGGCATAGC
Found at i:80047878 original size:54 final size:54
Alignment explanation
Indices: 80047721--80047880 Score: 245
Period size: 54 Copynumber: 3.0 Consensus size: 54
80047711 CGAGGCTGCC
* * * *
80047721 AGATAT-TGTGAC-GAGTCACCAGATATAGATAA-TGTGGCATAGCCACCAGAAC
1 AGATATATGTGGCAGAGCCACCAGAT-TAGATAATTGTGGCATAGCCACCAGGAT
*
80047773 AGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGAT
1 AGATATATGTGGCAGAGCCACCAGATTAGATAATTGTGGCATAGCCACCAGGAT
80047827 AGATATATGTGGCAGAGCCACCAGATTAGATAATTGTGGCATAGCCACCAGGAT
1 AGATATATGTGGCAGAGCCACCAGATTAGATAATTGTGGCATAGCCACCAGGAT
80047881 GCTTCCTCCA
Statistics
Matches: 99, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
52 6 0.06
53 11 0.11
54 82 0.83
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.21
Consensus pattern (54 bp):
AGATATATGTGGCAGAGCCACCAGATTAGATAATTGTGGCATAGCCACCAGGAT
Done.