Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 25 of 356
Found at i:8589823 original size:79 final size:78
Alignment explanation
Indices: 8589687--8589897 Score: 261
Period size: 79 Copynumber: 2.7 Consensus size: 78
8589677 CATTTTCACC
*
8589687 ATTTAAGTTATTAATTTTATAGGTTCTTTTTGCAATTTAAATAGTCAGCTTTGTATTTATGTAAT
1 ATTTAAGTTATTAATTTTATAGGTTCTTTTTGCAATTTAAATAGTCAACTTTGTATTTATGTAAT
8589752 GACTTTTTTGGCA
66 GACTTTTTTGGCA
* *
8589765 ATTTAA-TTATTAATTTTATAAGTTTTTTTTTTGCAATTTAAATAGTCAACTTTGTATTTATGTA
1 ATTTAAGTTATTAATTTTAT-AG-GTTCTTTTTGCAATTTAAATAGTCAACTTTGTATTTATGTA
* **
8589829 ATGAC-TTTTTCGTT
64 ATGACTTTTTTGGCA
* * * * *
8589843 ATTTCAGTTATTAA-TTT-TAGGAGT-TTTTTACAATTTAAATAATAAACTTTGTATT
1 ATTTAAGTTATTAATTTTATAGG-TTCTTTTTGCAATTTAAATAGTCAACTTTGTATT
8589898 ATTTATATAG
Statistics
Matches: 117, Mismatches: 12, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
75 28 0.24
76 3 0.03
77 14 0.12
78 22 0.19
79 50 0.43
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.53
Consensus pattern (78 bp):
ATTTAAGTTATTAATTTTATAGGTTCTTTTTGCAATTTAAATAGTCAACTTTGTATTTATGTAAT
GACTTTTTTGGCA
Found at i:8591478 original size:17 final size:17
Alignment explanation
Indices: 8591428--8591479 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
8591418 ATTAGATAAA
* *
8591428 TATTATTTTATTAATAT
1 TATTATTATATTATTAT
* *
8591445 TTTTATGATA-TATTTAT
1 TATTATTATATTA-TTAT
8591462 TATTATTATATTATTAT
1 TATTATTATATTATTAT
8591479 T
1 T
8591480 TATTTAGTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
16 2 0.07
17 23 0.85
18 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TATTATTATATTATTAT
Found at i:8597080 original size:90 final size:90
Alignment explanation
Indices: 8596932--8597095 Score: 240
Period size: 90 Copynumber: 1.8 Consensus size: 90
8596922 GAAATCGTAC
* * * *
8596932 TTTTAAACAATATAACTAATCACAATCACACTTTTAAACACTAAACAATTTAATACCATTGTCAC
1 TTTTAAACAATATAACTAATCACAATCACAATTTTAAACAATAAACAATTTAACACCATTATCAC
8596997 AATCAAATTTGAGTCTAAATCACAT
66 AATCAAATTTGAGTCTAAATCACAT
* * **
8597022 TTTTAAACAATATAACTAATCACAATCATAATTTTAAACAATGAACACA-TTGCCACCATTATCA
1 TTTTAAACAATATAACTAATCACAATCACAATTTTAAACAATAAACA-ATTTAACACCATTATCA
8597086 CAATCAAATT
65 CAATCAAATT
8597096 CAAGCCCTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
90 64 0.98
91 1 0.02
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (90 bp):
TTTTAAACAATATAACTAATCACAATCACAATTTTAAACAATAAACAATTTAACACCATTATCAC
AATCAAATTTGAGTCTAAATCACAT
Found at i:8597108 original size:90 final size:90
Alignment explanation
Indices: 8596896--8597110 Score: 227
Period size: 90 Copynumber: 2.4 Consensus size: 90
8596886 AAAATTCGCT
** * * * ** *
8596896 ACCATTATCATGATCGAATTCAATCCGAAATCGTACTTTTAAACAATATAACTAATCACAATCAC
1 ACCATTATCACAATCAAATTCAAGCCTAAATCACATTTTTAAACAATATAACTAATCACAATCAC
* * *
8596961 ACTTTTAAACACTAAACAATTTAAT
66 AATTTTAAACAATAAACAATTTAAC
* ** * *
8596986 ACCATTGTCACAATCAAATTTGAGTCTAAATCACATTTTTAAACAATATAACTAATCACAATCAT
1 ACCATTATCACAATCAAATTCAAGCCTAAATCACATTTTTAAACAATATAACTAATCACAATCAC
* **
8597051 AATTTTAAACAATGAACACA-TTGCC
66 AATTTTAAACAATAAACA-ATTTAAC
8597076 ACCATTATCACAATCAAATTCAAGCCCT-AATCACA
1 ACCATTATCACAATCAAATTCAAG-CCTAAATCACA
8597111 ATCATACTTC
Statistics
Matches: 100, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
90 97 0.97
91 3 0.03
ACGTcount: A:0.43, C:0.22, G:0.05, T:0.30
Consensus pattern (90 bp):
ACCATTATCACAATCAAATTCAAGCCTAAATCACATTTTTAAACAATATAACTAATCACAATCAC
AATTTTAAACAATAAACAATTTAAC
Found at i:8599318 original size:7 final size:7
Alignment explanation
Indices: 8599308--8599397 Score: 51
Period size: 7 Copynumber: 12.9 Consensus size: 7
8599298 CTATAAACAT
8599308 TAAACCC
1 TAAACCC
8599315 TAAACCC
1 TAAACCC
*
8599322 TTAACCCC
1 -TAAACCC
*
8599330 TAACCCC
1 TAAACCC
8599337 T-AACCC
1 TAAACCC
* *
8599343 TTACACCT
1 -TAAACCC
8599351 TAAACTCC
1 TAAAC-CC
8599359 --AACCC
1 TAAACCC
*
8599364 TAACCCC
1 TAAACCC
*
8599371 TAAACCT
1 TAAACCC
* *
8599378 TAAATCA
1 TAAACCC
*
8599385 TAATCCC
1 TAAACCC
8599392 TAAACC
1 TAAACC
8599398 TATAATTCAT
Statistics
Matches: 62, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
5 2 0.03
6 7 0.11
7 43 0.69
8 10 0.16
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:8599440 original size:7 final size:7
Alignment explanation
Indices: 8599428--8599452 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8599418 CAAATACTAG
8599428 TTAACTC
1 TTAACTC
8599435 TTAACTC
1 TTAACTC
8599442 TTAACTC
1 TTAACTC
8599449 TTAA
1 TTAA
8599453 ACCCTAAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (7 bp):
TTAACTC
Found at i:8599471 original size:21 final size:21
Alignment explanation
Indices: 8599447--8599532 Score: 91
Period size: 21 Copynumber: 3.9 Consensus size: 21
8599437 AACTCTTAAC
*
8599447 TCTTAAACCCTAAACCATATA
1 TCTTAAACCATAAACCATATA
* *
8599468 TCTTAAACTATAGTTAACTCATAAA
1 TCTTAAACCATA---AAC-CATATA
* *
8599493 CCTTAAACCCTAAACCATATA
1 TCTTAAACCATAAACCATATA
8599514 TCTTAAACCATAAACCATA
1 TCTTAAACCATAAACCATA
8599533 AACTATAATG
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
21 32 0.62
22 3 0.06
24 3 0.06
25 14 0.27
ACGTcount: A:0.44, C:0.26, G:0.01, T:0.29
Consensus pattern (21 bp):
TCTTAAACCATAAACCATATA
Found at i:8599501 original size:7 final size:7
Alignment explanation
Indices: 8599487--8599540 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
8599477 ATAGTTAACT
8599487 CATAAAC
1 CATAAAC
*
8599494 CTTAAAC
1 CATAAAC
*
8599501 CCTAAAC
1 CATAAAC
* *
8599508 CATATAT
1 CATAAAC
*
8599515 CTTAAAC
1 CATAAAC
8599522 CATAAAC
1 CATAAAC
8599529 CATAAAC
1 CATAAAC
*
8599536 TATAA
1 CATAA
8599541 TGATAATTAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (7 bp):
CATAAAC
Found at i:8599755 original size:41 final size:41
Alignment explanation
Indices: 8599698--8599915 Score: 348
Period size: 41 Copynumber: 5.3 Consensus size: 41
8599688 TTATATGATT
*
8599698 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAACGCTCTGGTC
*
8599739 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAACGCTCTGTTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAACGCTCTGGTC
*
8599780 TTTAGCGGCGTTTTACCAGAAGCGCCGCTAACGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAACGCTCTGGTC
* *
8599821 TTTAGCGGCATTTTACCAGAAGCGCCGCTAACGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAACGCTCTGGTC
* * * *
8599862 TTTAGCGGCATTTTACTAAAAGCGCCGCTAATGCTCT-GTT
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAACGCTCTGGTC
8599902 TTTAGCGGCGTTTT
1 TTTAGCGGCGTTTT
8599916 TTAGGAAAAC
Statistics
Matches: 167, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
40 15 0.09
41 152 0.91
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCGCTAACGCTCTGGTC
Found at i:8599938 original size:41 final size:40
Alignment explanation
Indices: 8599886--8599987 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 40
8599876 ACTAAAAGCG
*
8599886 CCGCTAATGCTCTGTTTTTAGCGGCGTTTTTTAGG-AAAACA
1 CCGCTATTGCTCTGTTTTTAGCGGCG-TTTTT-GGTAAAACA
* *
8599927 CCGTTATTGCTCTGTTTTTAGCGGCGTTTTTGGTAAAACG
1 CCGCTATTGCTCTGTTTTTAGCGGCGTTTTTGGTAAAACA
*
8599967 CCGCTATTGTTCTGTGTTTTA
1 CCGCTATTGCTCTGT-TTTTA
8599988 CAATTTTTAC
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
39 2 0.04
40 23 0.43
41 29 0.54
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.42
Consensus pattern (40 bp):
CCGCTATTGCTCTGTTTTTAGCGGCGTTTTTGGTAAAACA
Found at i:8599939 original size:123 final size:122
Alignment explanation
Indices: 8599698--8599956 Score: 351
Period size: 123 Copynumber: 2.1 Consensus size: 122
8599688 TTATATGATT
* *
8599698 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTACCAAAAGCG
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAACGCTCTGGTCTTTAGCGGCATTTTACCAAAAGCG
* *
8599763 CCGCTAACGCTCTGTTCTTTAGCGGCGTTTTACCAGAAGCGCCGCTAACGCTCTGGTC
66 CCGCTAACGCTCTGTTCTTTAGCGGCGTTTTACCAGAAACACCGCTAACGCTCT-GTC
* * *
8599821 TTTAGCGGCATTTTACCAGAAGCGCCGCTAACGCTCTGGTCTTTAGCGGCATTTTACTAAAAGCG
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAACGCTCTGGTCTTTAGCGGCATTTTACCAAAAGCG
* ** * ** *
8599886 CCGCTAATGCTCTGTT-TTTAGCGGCGTTTT-TTAGGAAAACACCGTTATTGCTCTGTT
66 CCGCTAACGCTCTGTTCTTTAGCGGCGTTTTACCA-G-AAACACCGCTAACGCTCTGTC
8599943 TTTAGCGGCGTTTT
1 TTTAGCGGCGTTTT
8599957 TGGTAAAACG
Statistics
Matches: 119, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
121 1 0.01
122 30 0.25
123 88 0.74
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.32
Consensus pattern (122 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCGCTAACGCTCTGGTCTTTAGCGGCATTTTACCAAAAGCG
CCGCTAACGCTCTGTTCTTTAGCGGCGTTTTACCAGAAACACCGCTAACGCTCTGTC
Found at i:8599964 original size:82 final size:80
Alignment explanation
Indices: 8599696--8599956 Score: 335
Period size: 82 Copynumber: 3.2 Consensus size: 80
8599686 GGTTATATGA
8599696 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTACCAAAAG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTACCAAAA-
8599761 CGCCGCTAACGCTCTG
65 CGCCGCTAACGCTCTG
* * *
8599777 TTCTTTAGCGGCGTTTTACCAGAAGCGCCGCTAACGCTCTGGTCTTTAGCGGCATTTTACCAGAA
1 TT-TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTACCA-AA
*
8599842 GCGCCGCTAACGCTCTGG
64 ACGCCGCTAACGCTCT-G
* * * * **
8599860 TCTTTAGCGGCATTTTACTAAAAGCGCCGCTAATGCTCT-GTTTTTAGCGGCGTTTTTTAGGAAA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCG--TTTTACCAAA
* * **
8599924 ACACCGTTATTGCTCTG
64 ACGCCGCTAACGCTCTG
8599941 TTTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
8599957 TGGTAAAACG
Statistics
Matches: 155, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
81 28 0.18
82 117 0.75
83 10 0.06
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (80 bp):
TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTACCAAAAC
GCCGCTAACGCTCTG
Found at i:8600206 original size:46 final size:46
Alignment explanation
Indices: 8600150--8600459 Score: 424
Period size: 46 Copynumber: 6.7 Consensus size: 46
8600140 AGTGTGCTCT
** *
8600150 CTGATATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
8600196 CTGGTATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
**
8600242 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
8600288 GTGATATGAAATGAATAAGACCATGGTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
8600334 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
8600380 GTGACATGAAATGAATAAGACCATGGTTGAAAGGTACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
8600426 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 CTGATATG-AAATGAATAAGACCATGGTTGAAAGA
8600460 CAATATGGCA
Statistics
Matches: 241, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.00
46 240 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:8600775 original size:16 final size:17
Alignment explanation
Indices: 8600754--8600786 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8600744 ATGATGGAGC
8600754 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
8600770 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
8600787 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:8603213 original size:20 final size:20
Alignment explanation
Indices: 8603188--8603228 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
8603178 TCGACGACGG
8603188 ATACGGGTTAGG-GGTGTTAC
1 ATACGGG-TAGGAGGTGTTAC
8603208 ATACGGGTAGGAGGTGTTAC
1 ATACGGGTAGGAGGTGTTAC
8603228 A
1 A
8603229 CTTGAGATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.24, C:0.10, G:0.39, T:0.27
Consensus pattern (20 bp):
ATACGGGTAGGAGGTGTTAC
Found at i:8607484 original size:46 final size:44
Alignment explanation
Indices: 8607333--8607484 Score: 214
Period size: 44 Copynumber: 3.4 Consensus size: 44
8607323 TGTCTTTGAA
** * * *
8607333 ATGGACTTACATGAATTATTCCTATCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAATGCCATATATAAT
8607377 ATGGACTTACATGGCTCAATCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAATGCCATATATAAT
* * *
8607421 ATGGACTTACATGGCTCAATTCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAATGCCATA--TATAAT
8607467 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
8607485 TTTATGTTCT
Statistics
Matches: 98, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
44 75 0.77
46 23 0.23
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAATGCCATATATAAT
Found at i:8608782 original size:19 final size:19
Alignment explanation
Indices: 8608728--8608782 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 19
8608718 ATTCAGAAGC
* *
8608728 TAACAAAATTAATAAC--C
1 TAACAAAATTACTAACAAA
* **
8608745 TAACAAAATAACTTTCAAA
1 TAACAAAATTACTAACAAA
8608764 TAACAAAATTACTAACAAA
1 TAACAAAATTACTAACAAA
8608783 ACTCTCCATT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
17 12 0.43
19 16 0.57
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (19 bp):
TAACAAAATTACTAACAAA
Found at i:8609365 original size:26 final size:27
Alignment explanation
Indices: 8609305--8609366 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
8609295 CTTTTGAGTT
* *
8609305 AATAAATTCTCTCTGAGTTTTTCTTTTT
1 AATAATTTCTCTCTGAG-TTTTCTTTTG
*
8609333 AAGAATTTCTCT-TGAG-TTTCTTTTAG
1 AATAATTTCTCTCTGAGTTTTCTTTT-G
8609359 AATAATTT
1 AATAATTT
8609367 TAACAATCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 8 0.28
26 7 0.24
27 4 0.14
28 10 0.34
ACGTcount: A:0.26, C:0.11, G:0.10, T:0.53
Consensus pattern (27 bp):
AATAATTTCTCTCTGAGTTTTCTTTTG
Found at i:8609900 original size:27 final size:27
Alignment explanation
Indices: 8609846--8609901 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
8609836 GCCTATCAGG
* **
8609846 TAGGAGTCACCAGTGGTGCCTATTAAA
1 TAGGAGTCACCAGTGGCGCCTACCAAA
8609873 TAGGAGTCACCAGTGGCGCCTACCAAA
1 TAGGAGTCACCAGTGGCGCCTACCAAA
8609900 TA
1 TA
8609902 AGCACCGCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.21
Consensus pattern (27 bp):
TAGGAGTCACCAGTGGCGCCTACCAAA
Found at i:8610469 original size:18 final size:18
Alignment explanation
Indices: 8610446--8610482 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
8610436 TATAATAAAA
8610446 ATCATATACAATTATTTT
1 ATCATATACAATTATTTT
*
8610464 ATCATATACAATTTTTTT
1 ATCATATACAATTATTTT
8610482 A
1 A
8610483 AACATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (18 bp):
ATCATATACAATTATTTT
Found at i:8616231 original size:25 final size:25
Alignment explanation
Indices: 8616197--8616247 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
8616187 AAACTGAAGT
8616197 GCACAGTTGCCCTCGAGCAGAACCA
1 GCACAGTTGCCCTCGAGCAGAACCA
8616222 GCACAGTTGCCCTCGAGCAGAACCA
1 GCACAGTTGCCCTCGAGCAGAACCA
8616247 G
1 G
8616248 ATTAATCTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.35, G:0.25, T:0.12
Consensus pattern (25 bp):
GCACAGTTGCCCTCGAGCAGAACCA
Found at i:8634133 original size:13 final size:13
Alignment explanation
Indices: 8634108--8634155 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 13
8634098 ATAACTATTA
8634108 AATATTTGT-AATT
1 AATATTT-TAAATT
8634121 AATATTTTAAATT
1 AATATTTTAAATT
8634134 --TATTTTAAATT
1 AATATTTTAAATT
8634145 AATTATTTTAA
1 AA-TATTTTAA
8634156 CACATTTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
11 11 0.35
12 1 0.03
13 11 0.35
14 8 0.26
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (13 bp):
AATATTTTAAATT
Found at i:8634152 original size:14 final size:14
Alignment explanation
Indices: 8634104--8634155 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 14
8634094 AAATATAACT
*
8634104 ATTAAATATTTGT-A
1 ATTAATTATTT-TAA
8634118 ATTAA-TATTTTAA
1 ATTAATTATTTTAA
8634131 A-T--TTATTTTAA
1 ATTAATTATTTTAA
8634142 ATTAATTATTTTAA
1 ATTAATTATTTTAA
8634156 CACATTTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
11 9 0.27
12 3 0.09
13 7 0.21
14 14 0.42
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (14 bp):
ATTAATTATTTTAA
Found at i:8637480 original size:62 final size:61
Alignment explanation
Indices: 8637405--8637541 Score: 143
Period size: 61 Copynumber: 2.2 Consensus size: 61
8637395 TTCAGTTTGA
* * * * * * * *
8637405 TCCTAAATATAAAAAATTTCAATAAGTTTAGTC-CTCATTGTTTACAAAATTTGTCATTTTAG
1 TCCTAATTCTAAAAAA-TTCAATAAATTT-GACGCTCAATATTTACAAAATCTGTCAATTTAG
* *
8637467 TTCC-AATTCTAAAACATTCAATAAATTTGACGCTCAATATTTATAAAATCTGTCAATTTAG
1 -TCCTAATTCTAAAAAATTCAATAAATTTGACGCTCAATATTTACAAAATCTGTCAATTTAG
8637528 TCCTAATTCTAAAA
1 TCCTAATTCTAAAA
8637542 TTTTTAATTT
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
60 5 0.08
61 45 0.73
62 9 0.15
63 3 0.05
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (61 bp):
TCCTAATTCTAAAAAATTCAATAAATTTGACGCTCAATATTTACAAAATCTGTCAATTTAG
Found at i:8647219 original size:22 final size:22
Alignment explanation
Indices: 8647194--8647235 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
8647184 AAAAATTGAT
8647194 TTAAATGAT-AAATATATAATAA
1 TTAAATGATCAAAT-TATAATAA
8647216 TTAAATGATCAAATTATAAT
1 TTAAATGATCAAATTATAAT
8647236 TTTTCATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (22 bp):
TTAAATGATCAAATTATAATAA
Found at i:8648985 original size:15 final size:15
Alignment explanation
Indices: 8648965--8648994 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8648955 ACCATTAAAG
8648965 CTCAAAATAAAACAA
1 CTCAAAATAAAACAA
8648980 CTCAAAATAAAACAA
1 CTCAAAATAAAACAA
8648995 AGCACTAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.20, G:0.00, T:0.13
Consensus pattern (15 bp):
CTCAAAATAAAACAA
Found at i:8649363 original size:22 final size:22
Alignment explanation
Indices: 8649338--8649415 Score: 75
Period size: 24 Copynumber: 3.4 Consensus size: 22
8649328 ATTTAATTTA
8649338 ATATTTTAAAAATTATAAAAAT
1 ATATTTTAAAAATTATAAAAAT
* *
8649360 ATATATTATTAAAATTATAAAATT
1 ATAT-TT-TAAAAATTATAAAAAT
* **
8649384 ATATTTTTATTATTATAAAAATT
1 ATATTTTAAAAATTATAAAAA-T
*
8649407 ATAATTTAA
1 ATATTTTAA
8649416 TTTCGTCCCC
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
22 16 0.35
23 12 0.26
24 18 0.39
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATTTTAAAAATTATAAAAAT
Found at i:8649373 original size:24 final size:22
Alignment explanation
Indices: 8649338--8649415 Score: 86
Period size: 22 Copynumber: 3.4 Consensus size: 22
8649328 ATTTAATTTA
8649338 ATATTTTAAAAATTATAAAAATAT
1 ATATTTT-AAAATTATAAAAAT-T
8649362 ATATTATTAAAATTAT-AAAATT
1 ATATT-TTAAAATTATAAAAATT
**
8649384 ATATTTTTATTATTATAAAAATT
1 ATA-TTTTAAAATTATAAAAATT
*
8649407 ATAATTTAA
1 ATATTTTAA
8649416 TTTCGTCCCC
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
22 16 0.34
23 16 0.34
24 13 0.28
25 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATTTTAAAATTATAAAAATT
Found at i:8657917 original size:30 final size:29
Alignment explanation
Indices: 8657841--8657921 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 29
8657831 CTCCCTGACT
* *
8657841 CTTTGTAAATTTAGAATTTAGATCCTATA
1 CTTTTTAAATTTAAAATTTAGATCCTATA
** *
8657870 CTTTTTATTTTTAAAAATTTAG-TCCTTTTA
1 CTTTTTAAATTT-AAAATTTAGATCC-TATA
8657900 CTTTTTAAGATTTAAAATTTAG
1 CTTTTTAA-ATTTAAAATTTAG
8657922 GTCCAACTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
29 12 0.29
30 27 0.64
31 3 0.07
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (29 bp):
CTTTTTAAATTTAAAATTTAGATCCTATA
Found at i:8667564 original size:4 final size:4
Alignment explanation
Indices: 8667547--8667580 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
8667537 CTCACATATG
*
8667547 TACA TACG TACA TACA TACA TACA TTACA TACA T
1 TACA TACA TACA TACA TACA TACA -TACA TACA T
8667581 GTGTACATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.44, C:0.24, G:0.03, T:0.29
Consensus pattern (4 bp):
TACA
Found at i:8689824 original size:58 final size:58
Alignment explanation
Indices: 8689760--8689881 Score: 181
Period size: 58 Copynumber: 2.1 Consensus size: 58
8689750 CTGATCACAT
8689760 TTATCACTTGTCACTGATCAAATAAGTGTAGCTAAAGCTACCACTTACCACTTATCAC
1 TTATCACTTGTCACTGATCAAATAAGTGTAGCTAAAGCTACCACTTACCACTTATCAC
* * * * * *
8689818 TTATCACTTGTCACTGATCAGATAAGTGTAGTTGAGGCTACCACTTATCACTTGTCAC
1 TTATCACTTGTCACTGATCAAATAAGTGTAGCTAAAGCTACCACTTACCACTTATCAC
*
8689876 TGATCA
1 TTATCA
8689882 GAAGTACTCA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.33
Consensus pattern (58 bp):
TTATCACTTGTCACTGATCAAATAAGTGTAGCTAAAGCTACCACTTACCACTTATCAC
Found at i:8695470 original size:16 final size:17
Alignment explanation
Indices: 8695431--8695470 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
8695421 CATATGTTTT
*
8695431 ATAAAAATTTAAAAAAC
1 ATAAAAATTTAAAAAAA
*
8695448 ATTAAAA-TTAAAAAAA
1 ATAAAAATTTAAAAAAA
8695464 ATAAAAA
1 ATAAAAA
8695471 AAAACTCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (17 bp):
ATAAAAATTTAAAAAAA
Found at i:8700844 original size:6 final size:7
Alignment explanation
Indices: 8700813--8700847 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
8700803 AGCATACTTG
8700813 AATTTAA
1 AATTTAA
8700820 AATTTAA
1 AATTTAA
8700827 AATTTAA
1 AATTTAA
8700834 AATTT-A
1 AATTTAA
8700840 AATTTAA
1 AATTTAA
8700847 A
1 A
8700848 CTATGTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AATTTAA
Found at i:8704901 original size:26 final size:26
Alignment explanation
Indices: 8704872--8704979 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
8704862 TGATACAAAT
8704872 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
8704898 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
8704924 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
8704950 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
8704976 TGAT
1 TGAT
8704980 TGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:8710571 original size:46 final size:46
Alignment explanation
Indices: 8710518--8710840 Score: 376
Period size: 46 Copynumber: 7.3 Consensus size: 46
8710508 TGACAAGTGA
*
8710518 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
* **
8710564 AAAGTGATAAGTGATAACTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
*
8710610 AAAGTG---A-T-A-AG--T-GGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
*
8710647 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
*
8710693 AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
**
8710745 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
*
8710791 AAAGTG---A-T-A-AG--T-GGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
8710828 AAAGTGATAAGTG
1 AAAGTGATAAGTG
8710841 GCTACACTTA
Statistics
Matches: 241, Mismatches: 16, Indels: 44
0.80 0.05 0.15
Matches are distributed among these distances:
37 58 0.24
38 2 0.01
40 5 0.02
41 4 0.02
42 3 0.01
43 4 0.02
45 1 0.00
46 120 0.50
52 44 0.18
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
Found at i:8710631 original size:37 final size:37
Alignment explanation
Indices: 8710586--8710659 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
8710576 GATAACTTTA
*
8710586 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
8710623 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
8710660 ATAGCTTCGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:8710792 original size:98 final size:99
Alignment explanation
Indices: 8710622--8710803 Score: 303
Period size: 98 Copynumber: 1.8 Consensus size: 99
8710612 AGTGATAAGT
*
8710622 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCA
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCA
*
8710687 AGTGAC-AAGTGAAAAGTGATAAGTGATAGCTTC
66 AGAGACAAAGTGAAAAGTGATAAGTGATAGCTTC
* * *
8710720 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCA
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCA
*
8710785 AGAGACAAAGTGATAAGTG
66 AGAGACAAAGTGAAAAGTG
8710804 GCTACACTTA
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
98 66 0.86
99 11 0.14
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (99 bp):
GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCA
AGAGACAAAGTGAAAAGTGATAAGTGATAGCTTC
Found at i:8710802 original size:181 final size:181
Alignment explanation
Indices: 8710498--8710840 Score: 677
Period size: 181 Copynumber: 1.9 Consensus size: 181
8710488 TTTGAGTACT
8710498 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
8710563 CAAAGTGATAAGTGATAACTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGCTAC
66 CAAAGTGATAAGTGATAACTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGCTAC
8710628 ACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
131 ACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
8710679 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
*
8710744 CAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGCTAC
66 CAAAGTGATAAGTGATAACTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGCTAC
8710809 ACTTATCTGATCAAGAAACAAAGTGATAAGTG
131 ACTTATCTGATCAAGAAACAAAGTGATAAGTG
8710841 GCTACACTTA
Statistics
Matches: 161, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
181 161 1.00
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (181 bp):
TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
CAAAGTGATAAGTGATAACTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGCTAC
ACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:8710811 original size:37 final size:37
Alignment explanation
Indices: 8710767--8710895 Score: 240
Period size: 37 Copynumber: 3.5 Consensus size: 37
8710757 GATAGCTTTA
*
8710767 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
8710804 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
8710841 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
8710878 GCTACACTTATCTGATCA
1 GCTACACTTATCTGATCA
8710896 GGGACAAGTG
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 90 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:8712241 original size:58 final size:58
Alignment explanation
Indices: 8712164--8712331 Score: 237
Period size: 58 Copynumber: 3.0 Consensus size: 58
8712154 CATGTGAACA
8712164 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
8712223 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* * *
8712279 TGTG--A--T--TT-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTG
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
8712330 TG
1 TG
8712332 ATTACGTGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
49 38 0.37
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
56 4 0.04
58 51 0.49
59 5 0.05
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (58 bp):
TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:8712273 original size:28 final size:28
Alignment explanation
Indices: 8712183--8712273 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
8712173 GTGATTCCGT
8712183 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
8712211 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
8712240 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
8712269 GTAAG
1 GTAAG
8712274 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:8712296 original size:49 final size:49
Alignment explanation
Indices: 8712224--8712366 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
8712214 AGTGATATGT
* *
8712224 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
8712273 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
8712322 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
8712367 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:8715561 original size:46 final size:46
Alignment explanation
Indices: 8715508--8715830 Score: 376
Period size: 46 Copynumber: 7.3 Consensus size: 46
8715498 TGACAAGTGA
*
8715508 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
* **
8715554 AAAGTGATAAGTGATAACTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
*
8715600 AAAGTG---A-T-A-AG--T-GGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
*
8715637 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
*
8715683 AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
**
8715735 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
*
8715781 AAAGTG---A-T-A-AG--T-GGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
8715818 AAAGTGATAAGTG
1 AAAGTGATAAGTG
8715831 GCTACACTTA
Statistics
Matches: 241, Mismatches: 16, Indels: 44
0.80 0.05 0.15
Matches are distributed among these distances:
37 58 0.24
38 2 0.01
40 5 0.02
41 4 0.02
42 3 0.01
43 4 0.02
45 1 0.00
46 120 0.50
52 44 0.18
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGAC
Found at i:8715621 original size:37 final size:37
Alignment explanation
Indices: 8715576--8715649 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
8715566 GATAACTTTA
*
8715576 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
8715613 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
8715650 ATAGCTTCGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:8715782 original size:98 final size:99
Alignment explanation
Indices: 8715612--8715793 Score: 303
Period size: 98 Copynumber: 1.8 Consensus size: 99
8715602 AGTGATAAGT
*
8715612 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCA
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCA
*
8715677 AGTGAC-AAGTGAAAAGTGATAAGTGATAGCTTC
66 AGAGACAAAGTGAAAAGTGATAAGTGATAGCTTC
* * *
8715710 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCA
1 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCA
*
8715775 AGAGACAAAGTGATAAGTG
66 AGAGACAAAGTGAAAAGTG
8715794 GCTACACTTA
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
98 66 0.86
99 11 0.14
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (99 bp):
GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCA
AGAGACAAAGTGAAAAGTGATAAGTGATAGCTTC
Found at i:8715792 original size:181 final size:181
Alignment explanation
Indices: 8715488--8715830 Score: 677
Period size: 181 Copynumber: 1.9 Consensus size: 181
8715478 TTTGAGTACT
8715488 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
8715553 CAAAGTGATAAGTGATAACTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGCTAC
66 CAAAGTGATAAGTGATAACTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGCTAC
8715618 ACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
131 ACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
8715669 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
*
8715734 CAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGCTAC
66 CAAAGTGATAAGTGATAACTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGCTAC
8715799 ACTTATCTGATCAAGAAACAAAGTGATAAGTG
131 ACTTATCTGATCAAGAAACAAAGTGATAAGTG
8715831 GCTACACTTA
Statistics
Matches: 161, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
181 161 1.00
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (181 bp):
TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
CAAAGTGATAAGTGATAACTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGCTAC
ACTTATCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:8715801 original size:37 final size:37
Alignment explanation
Indices: 8715757--8715885 Score: 240
Period size: 37 Copynumber: 3.5 Consensus size: 37
8715747 GATAGCTTTA
*
8715757 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
8715794 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
8715831 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
8715868 GCTACACTTATCTGATCA
1 GCTACACTTATCTGATCA
8715886 GGGACAAGTG
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 90 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:8719011 original size:12 final size:12
Alignment explanation
Indices: 8718994--8719026 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
8718984 GGTTCAAACC
8718994 CAAAAACTTCTA
1 CAAAAACTTCTA
8719006 CAAAAACTTCTA
1 CAAAAACTTCTA
*
8719018 CAACAACTT
1 CAAAAACTT
8719027 AAATCAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.24
Consensus pattern (12 bp):
CAAAAACTTCTA
Found at i:8723845 original size:69 final size:69
Alignment explanation
Indices: 8723732--8723870 Score: 251
Period size: 69 Copynumber: 2.0 Consensus size: 69
8723722 GATCGCTCCA
8723732 ATCTTTCCTGAGAATTAAATCTAATATGATTTTTTAGTACAATAATATTCATTTTTACCCTATTC
1 ATCTTTCCTGAGAATTAAATCTAATATGATTTTTTAGTACAATAATATTCATTTTTACCCTATTC
8723797 GCAC
66 GCAC
* * *
8723801 ATCTTTCCTGAGAATTAAATCTAGTATGATTTTTTAGTATAATAATATTCATTTTTACCCTATTT
1 ATCTTTCCTGAGAATTAAATCTAATATGATTTTTTAGTACAATAATATTCATTTTTACCCTATTC
8723866 GCAC
66 GCAC
8723870 A
1 A
8723871 ATAAAATATT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.45
Consensus pattern (69 bp):
ATCTTTCCTGAGAATTAAATCTAATATGATTTTTTAGTACAATAATATTCATTTTTACCCTATTC
GCAC
Found at i:8726681 original size:3 final size:3
Alignment explanation
Indices: 8726673--8726697 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8726663 GCTACAGCCT
8726673 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
8726698 TAATAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:8731109 original size:12 final size:12
Alignment explanation
Indices: 8731092--8731126 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
8731082 GAATACAGCG
8731092 TAACAGTAACAA
1 TAACAGTAACAA
*
8731104 TAACAGTAGCAA
1 TAACAGTAACAA
8731116 TAACAGTAACA
1 TAACAGTAACA
8731127 GTCAGGTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.54, C:0.17, G:0.11, T:0.17
Consensus pattern (12 bp):
TAACAGTAACAA
Found at i:8732336 original size:12 final size:14
Alignment explanation
Indices: 8732319--8732359 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
8732309 CTTGTCTTTA
8732319 TTTTATTATT-T-C
1 TTTTATTATTATAC
8732331 TTTTATTTATTATAC
1 TTTTA-TTATTATAC
8732346 TTTATATTATTATA
1 TTT-TATTATTATA
8732360 TTATATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 5 0.20
13 5 0.20
14 1 0.04
15 12 0.48
16 2 0.08
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTATTATTATAC
Found at i:8732366 original size:25 final size:24
Alignment explanation
Indices: 8732334--8732383 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
8732324 TTATTTCTTT
*
8732334 TATTTATTATACTT-TATATTATTA
1 TATTTATTATAATTATA-ATTATTA
*
8732358 TATTATATTTTAATTATAATTATTA
1 TATT-TATTATAATTATAATTATTA
8732383 T
1 T
8732384 TTCTTAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 4 0.18
25 16 0.73
26 2 0.09
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TATTTATTATAATTATAATTATTA
Found at i:8732381 original size:20 final size:21
Alignment explanation
Indices: 8732337--8732383 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
8732327 TTTCTTTTAT
*
8732337 TTATTATACTTTATATTATTA
1 TTATTATACTTTATATTATAA
*
8732358 -TATTATATTTTA-ATTATAA
1 TTATTATACTTTATATTATAA
8732377 TTATTAT
1 TTATTAT
8732384 TTCTTAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTATACTTTATATTATAA
Found at i:8734308 original size:70 final size:71
Alignment explanation
Indices: 8734209--8734357 Score: 246
Period size: 71 Copynumber: 2.1 Consensus size: 71
8734199 TCCAAGCACA
*
8734209 ATTGTAAGTCCGTATTTGTCCCATTTTTAATGA-TTTTACGTTTTTCTTAATGTTGTAGCTTGAT
1 ATTGTAAGTCCGTATTTGTCCCATTTTTAATGATTTTTACGTTTTTCTTAATGTTGTAACTTGAT
8734273 CTAGCT
66 CTAGCT
* * *
8734279 ATTGTAAGTCTGTCTTTGTCCCATTTTTAATGATTTTTACGTTTTTTTTAATGTTGTAACTTGAT
1 ATTGTAAGTCCGTATTTGTCCCATTTTTAATGATTTTTACGTTTTTCTTAATGTTGTAACTTGAT
8734344 CTAGCT
66 CTAGCT
*
8734350 ATTCTAAG
1 ATTGTAAG
8734358 GACTAATTTG
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
70 31 0.42
71 42 0.58
ACGTcount: A:0.21, C:0.13, G:0.15, T:0.51
Consensus pattern (71 bp):
ATTGTAAGTCCGTATTTGTCCCATTTTTAATGATTTTTACGTTTTTCTTAATGTTGTAACTTGAT
CTAGCT
Found at i:8742171 original size:78 final size:79
Alignment explanation
Indices: 8742042--8742193 Score: 252
Period size: 78 Copynumber: 1.9 Consensus size: 79
8742032 ATTTATACTA
*
8742042 ATTATTATAATAATTAATCTCACTATCTATACGAAAGGTGTGAAACCTAAAATCCCTTCGAGTCA
1 ATTATTATAATAATTAATCTCAC-ATCTATACGAAAGGTGTGAAACATAAAATCCCTTCGAGTCA
8742107 AACCAACAACACCTT
65 AACCAACAACACCTT
** *
8742122 ATTATTATAATAATTAATCTCAC-TCTATGTGAAAGGTGTGAAACATAAAATTCCTTCGAGTCAA
1 ATTATTATAATAATTAATCTCACATCTATACGAAAGGTGTGAAACATAAAATCCCTTCGAGTCAA
8742186 ACCAACAA
66 ACCAACAA
8742194 TATTTATTTT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
78 45 0.66
80 23 0.34
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.30
Consensus pattern (79 bp):
ATTATTATAATAATTAATCTCACATCTATACGAAAGGTGTGAAACATAAAATCCCTTCGAGTCAA
ACCAACAACACCTT
Found at i:8750109 original size:2 final size:2
Alignment explanation
Indices: 8750104--8750129 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8750094 CGCCGTTTAG
8750104 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
8750130 GAATATTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8751147 original size:17 final size:19
Alignment explanation
Indices: 8751127--8751169 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
8751117 TATTAACATA
*
8751127 AATATTAAAT-A-TAATGT
1 AATATTAAATCATTAAAGT
8751144 AATATTAAATCATTAAAGT
1 AATATTAAATCATTAAAGT
8751163 AATATTA
1 AATATTA
8751170 TTTTTATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.43
18 1 0.04
19 12 0.52
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (19 bp):
AATATTAAATCATTAAAGT
Found at i:8755335 original size:40 final size:39
Alignment explanation
Indices: 8755210--8755346 Score: 130
Period size: 35 Copynumber: 3.7 Consensus size: 39
8755200 GGTTTTCCTC
* *
8755210 ATTGA-AATACCATACCTACATTTTACAACTCAATAT--
1 ATTGATAATACCATACCTACATTTCACAACTCAGTATGG
* ** * **
8755246 A-GGA-AATGTCATACCTACGTTTCTTAACTCAGTATGG
1 ATTGATAATACCATACCTACATTTCACAACTCAGTATGG
8755283 ATTTGATAATACCATACCTACATTTCACAACTCAGTATGG
1 A-TTGATAATACCATACCTACATTTCACAACTCAGTATGG
8755323 A-TG---ATACCATACCTACATTTCACA
1 ATTGATAATACCATACCTACATTTCACA
8755347 CTTTTCCATG
Statistics
Matches: 82, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
35 47 0.57
36 1 0.01
37 1 0.01
38 2 0.02
39 2 0.02
40 29 0.35
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (39 bp):
ATTGATAATACCATACCTACATTTCACAACTCAGTATGG
Found at i:8760254 original size:16 final size:17
Alignment explanation
Indices: 8760223--8760255 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8760213 TTCATAAGTA
8760223 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
8760240 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
8760256 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:8760601 original size:46 final size:46
Alignment explanation
Indices: 8760536--8760843 Score: 404
Period size: 46 Copynumber: 6.7 Consensus size: 46
8760526 TTATCTTTGA
* * * *
8760536 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* *
8760582 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
** *
8760628 CACATTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
*** * * * *
8760674 CACACTACCATGGTATC-TTCAACCATGGTTTTATTCATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
8760719 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
8760765 TATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
8760811 CATGTTGCCATGGTATCTTTCAACCATGGTCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTT
8760844 TGTAATAACT
Statistics
Matches: 236, Mismatches: 24, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
45 43 0.18
46 193 0.82
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:8760773 original size:137 final size:138
Alignment explanation
Indices: 8760551--8760843 Score: 417
Period size: 137 Copynumber: 2.1 Consensus size: 138
8760541 TGCCATAGTG
* *
8760551 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
** * * ** *
8760616 TTCTTTTCATGTCACATTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACACTA
66 CACATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACACTA
8760681 CCATGGTA
131 CCATGGTA
* *
8760689 TC-TTCAACCATGGTTTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
* ** *** *
8760753 CACATTTCATATTATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTG
66 CACATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACACTA
8760818 CCATGGTA
131 CCATGGTA
8760826 TCTTTCAACCATGGTCTT
1 TCTTTCAACCATGGTCTT
8760844 TGTAATAACT
Statistics
Matches: 135, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
137 119 0.88
138 16 0.12
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (138 bp):
TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
CACATTTCATATCACATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACACTA
CCATGGTA
Found at i:8761274 original size:24 final size:24
Alignment explanation
Indices: 8761242--8761292 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
8761232 TAGTACAAAG
8761242 ACAAATGTATAG-TAAATAAAATAT
1 ACAAATGTATAGATAAA-AAAATAT
* * *
8761266 ACAAGTGTATGGATAAAAATATAT
1 ACAAATGTATAGATAAAAAAATAT
8761290 ACA
1 ACA
8761293 TTTGTAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (24 bp):
ACAAATGTATAGATAAAAAAATAT
Found at i:8761347 original size:21 final size:20
Alignment explanation
Indices: 8761312--8761359 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
8761302 CATGTATTAG
*
8761312 ATATTAAATAGATATTTATT
1 ATATTAAAAAGATATTTATT
8761332 ATATTATAAAAGATATTTATT
1 ATATTA-AAAAGATATTTATT
8761353 A-ATTAAA
1 ATATTAAA
8761360 TAATTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 10 0.38
21 14 0.54
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
ATATTAAAAAGATATTTATT
Found at i:8761390 original size:30 final size:33
Alignment explanation
Indices: 8761328--8761396 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 33
8761318 AATAGATATT
8761328 TATTATATTATAAAAGATATTTATTAATTAAATA
1 TATTATATTAT-AAAGATATTTATTAATTAAATA
*
8761362 -ATTATATTAT-AAGAT-TTTATTTGA-TAAATA
1 TATTATATTATAAAGATATTTA-TTAATTAAATA
8761392 TATTA
1 TATTA
8761397 AATAATGACA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
30 10 0.31
31 12 0.38
33 10 0.31
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.49
Consensus pattern (33 bp):
TATTATATTATAAAGATATTTATTAATTAAATA
Found at i:8763625 original size:46 final size:46
Alignment explanation
Indices: 8763567--8763879 Score: 383
Period size: 46 Copynumber: 6.8 Consensus size: 46
8763557 TGATATGAAA
* * *
8763567 TGTAAGACCATGGTTGAAAGATACCATAGCAACCTGATATTAAATG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATAAAATG
* * *
8763613 TGTAAGACCATGGTTGAAAGATACCATGGCATCTTGATATGAAATG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATAAAATG
*
8763659 TGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATAAAATG
* *
8763705 TGTAGGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATAAAATG
** ***
8763751 AATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAATG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-TATAAAATG
** * * * *
8763798 AATAAGAACATGGTTGAAAGATACCATGGCAACATGACAGAAAATA
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATAAAATG
* * * * * *
8763844 AGTAAGACCGTAGTTGAAAGACACTATGGCATCATG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACATG
8763880 TCAAAGATAA
Statistics
Matches: 241, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 198 0.82
47 43 0.18
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
TGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATAAAATG
Found at i:8764181 original size:16 final size:17
Alignment explanation
Indices: 8764160--8764192 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8764150 ATGATGGAGC
8764160 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
8764176 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
8764193 TATACTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:8766599 original size:11 final size:11
Alignment explanation
Indices: 8766583--8766630 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
8766573 CTTTATATAC
8766583 TAATAAAATAA
1 TAATAAAATAA
*
8766594 TAATAAAATATCT
1 TAATAAAATA--A
* *
8766607 TATTAAAATAT
1 TAATAAAATAA
8766618 TAATAAAATAA
1 TAATAAAATAA
8766629 TA
1 TA
8766631 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:8766933 original size:30 final size:31
Alignment explanation
Indices: 8766865--8766923 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
8766855 CACCCTTAAA
* *
8766865 ATATTTACACTATTGATCCTTCAAATTTTTC
1 ATATTTACACTATTAACCCTTCAAATTTTTC
*
8766896 ATATTTACACT-TTAACCCTTTAAATTTT
1 ATATTTACACTATTAACCCTTCAAATTTT
8766924 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.31, C:0.19, G:0.02, T:0.49
Consensus pattern (31 bp):
ATATTTACACTATTAACCCTTCAAATTTTTC
Found at i:8767685 original size:23 final size:23
Alignment explanation
Indices: 8767613--8767685 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
8767603 CACTCTACAG
*
8767613 AATGAATCGCACCT-AAGTGTCAA
1 AATGAATCGCA-CTAAAGTGTTAA
* * * * *
8767636 AATAAATTGCACCAAAGTGCTAG
1 AATGAATCGCACTAAAGTGTTAA
*
8767659 AATGAATCGCATTAAAGTGTTAA
1 AATGAATCGCACTAAAGTGTTAA
8767682 AATG
1 AATG
8767686 CTCCCACCAA
Statistics
Matches: 37, Mismatches: 12, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
22 1 0.03
23 36 0.97
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (23 bp):
AATGAATCGCACTAAAGTGTTAA
Found at i:8771335 original size:16 final size:16
Alignment explanation
Indices: 8771316--8771349 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8771306 AAATGAATAT
* *
8771316 ATGTGTAAATTTGATA
1 ATGTGCAAATATGATA
8771332 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
8771348 AT
1 AT
8771350 TGGATATCGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.18, T:0.38
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:8785458 original size:21 final size:20
Alignment explanation
Indices: 8785421--8785459 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
8785411 AAAAAATGTT
* *
8785421 AAATTTATATTTTTATATTA
1 AAATTTATATGTATATATTA
8785441 AAATATTATATGTATATAT
1 AAAT-TTATATGTATATAT
8785460 ATGCTCATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
AAATTTATATGTATATATTA
Found at i:8787048 original size:11 final size:11
Alignment explanation
Indices: 8787018--8787050 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
8787008 TGGATTAGTA
*
8787018 TAAAGTTTAAT
1 TAAAGTTTGAT
8787029 TAAAGTTTGAT
1 TAAAGTTTGAT
8787040 TAAAGTTTGAT
1 TAAAGTTTGAT
8787051 CCTTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.45
Consensus pattern (11 bp):
TAAAGTTTGAT
Found at i:8787328 original size:48 final size:48
Alignment explanation
Indices: 8787272--8787368 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
8787262 TTAATCAAAG
8787272 TATAAAAGGAAATTATAAAGAAAATAAAACCTATTTCTATCATCTTTT
1 TATAAAAGGAAATTATAAAGAAAATAAAACCTATTTCTATCATCTTTT
8787320 TATAAAAGGAAATTATAAAGAAAATAAAACCTATTTCTATCATCTTTT
1 TATAAAAGGAAATTATAAAGAAAATAAAACCTATTTCTATCATCTTTT
8787368 T
1 T
8787369 CATTCCAACC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.36
Consensus pattern (48 bp):
TATAAAAGGAAATTATAAAGAAAATAAAACCTATTTCTATCATCTTTT
Found at i:8788926 original size:19 final size:19
Alignment explanation
Indices: 8788899--8788955 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
8788889 ATTAGTGATT
* *
8788899 ACATGTGTAAATTTAATAA
1 ACATATGTATATTTAATAA
8788918 ACATATGTATATATTAATAA
1 ACATATGTATAT-TTAATAA
* *
8788938 AAATATGTTTATTTAATA
1 ACATATGTATATTTAATA
8788956 TTTAAGTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (19 bp):
ACATATGTATATTTAATAA
Found at i:8789980 original size:41 final size:41
Alignment explanation
Indices: 8789915--8790023 Score: 123
Period size: 41 Copynumber: 2.7 Consensus size: 41
8789905 TTTACTTCGG
*
8789915 TTTAATCGATGAGACACTGGGTGTCAAATTACTACTTCAAA
1 TTTAATCGATGAGACACTGAGTGTCAAATTACTACTTCAAA
* * * *
8789956 TTTATTCGATGAGACATTGAGTGTCAATTTACTACTTCGAA
1 TTTAATCGATGAGACACTGAGTGTCAAATTACTACTTCAAA
* * *
8789997 -TT-ATCTGATGAGGCACTGGGTGCCAAA
1 TTTAATC-GATGAGACACTGAGTGTCAAA
8790024 CTGGTGTGTT
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
39 2 0.04
40 18 0.32
41 36 0.64
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (41 bp):
TTTAATCGATGAGACACTGAGTGTCAAATTACTACTTCAAA
Found at i:8808868 original size:156 final size:157
Alignment explanation
Indices: 8808584--8808896 Score: 610
Period size: 156 Copynumber: 2.0 Consensus size: 157
8808574 ACTTCATTTC
8808584 CTTGATGATTTCATAAGCTTTATCTACCATGTTCTTCTTACATAACCCATTGACAAGAGCATTAT
1 CTTGATGATTTCATAAGCTTTATCTACCATGTTCTTCTTACATAACCCATTGACAAGAGCATTAT
8808649 AGCATTTGATGTCAGGAAGGAAACCGGCTTGTTTAAACTGCGACAAAACATCATTGGCATCACCC
66 AGCATTTGATGTCAGGAAGGAAACCGGCTTGTTTAAACTGCGACAAAACATCATTGGCATCACCC
8808714 -TCCTTCCAGCTTTGCAAAAACCATAG
131 ATCCTTCCAGCTTTGCAAAAACCATAG
8808740 CTTGATGATTTCATAAGCTTTATCTACCATGTTCTTCTTACATAACCCATTGACAAGAGCATTAT
1 CTTGATGATTTCATAAGCTTTATCTACCATGTTCTTCTTACATAACCCATTGACAAGAGCATTAT
*
8808805 AGCATTTGATGTCAGGGAGGAAACCGGCTTGTTTAAACTGCGACAAAACATCATTGGCATCACCC
66 AGCATTTGATGTCAGGAAGGAAACCGGCTTGTTTAAACTGCGACAAAACATCATTGGCATCACCC
8808870 ATCCTTCCAGCTTTGCAAAAACCATAG
131 ATCCTTCCAGCTTTGCAAAAACCATAG
8808897 ATCAAGCTAT
Statistics
Matches: 155, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
156 129 0.83
157 26 0.17
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (157 bp):
CTTGATGATTTCATAAGCTTTATCTACCATGTTCTTCTTACATAACCCATTGACAAGAGCATTAT
AGCATTTGATGTCAGGAAGGAAACCGGCTTGTTTAAACTGCGACAAAACATCATTGGCATCACCC
ATCCTTCCAGCTTTGCAAAAACCATAG
Found at i:8820538 original size:43 final size:43
Alignment explanation
Indices: 8820490--8820571 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
8820480 TTTTTTTATA
8820490 AAATTATGAAATTTT-GAGAAACCTTTAATTATAAACAAAACTC
1 AAATTATGAAATTTTCG-GAAACCTTTAATTATAAACAAAACTC
* *
8820533 AAATTATGGAATTTTCGGAAACCTTTAATTCTAAACAAA
1 AAATTATGAAATTTTCGGAAACCTTTAATTATAAACAAA
8820572 CGCATTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 35 0.97
44 1 0.03
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (43 bp):
AAATTATGAAATTTTCGGAAACCTTTAATTATAAACAAAACTC
Found at i:8820947 original size:77 final size:77
Alignment explanation
Indices: 8820859--8821014 Score: 312
Period size: 77 Copynumber: 2.0 Consensus size: 77
8820849 AAGTAGTACA
8820859 TGAACCATGATGATAATTTAGCAATGGCACAGGGGCCAAAAAAGTATTAAGTCTTTAATTTAGTG
1 TGAACCATGATGATAATTTAGCAATGGCACAGGGGCCAAAAAAGTATTAAGTCTTTAATTTAGTG
8820924 GGAACTTTTTGG
66 GGAACTTTTTGG
8820936 TGAACCATGATGATAATTTAGCAATGGCACAGGGGCCAAAAAAGTATTAAGTCTTTAATTTAGTG
1 TGAACCATGATGATAATTTAGCAATGGCACAGGGGCCAAAAAAGTATTAAGTCTTTAATTTAGTG
8821001 GGAACTTTTTGG
66 GGAACTTTTTGG
8821013 TG
1 TG
8821015 TAATAATAAA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 79 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (77 bp):
TGAACCATGATGATAATTTAGCAATGGCACAGGGGCCAAAAAAGTATTAAGTCTTTAATTTAGTG
GGAACTTTTTGG
Found at i:8822951 original size:17 final size:17
Alignment explanation
Indices: 8822925--8822958 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8822915 AATGAAAATG
*
8822925 ATAATGATAATATAATA
1 ATAATAATAATATAATA
8822942 ATAATAATAATATAATA
1 ATAATAATAATATAATA
8822959 TAACGTAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
ATAATAATAATATAATA
Found at i:8823002 original size:31 final size:34
Alignment explanation
Indices: 8822936--8823003 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
8822926 TAATGATAAT
*
8822936 ATAATAATAATAATAATATAATATAACGTAGAAA
1 ATAATAATAATAATAATATAATATAACGTAAAAA
*
8822970 ATAATGATAATAAT-ATATGAATA-AA-G-AAAAA
1 ATAATAATAATAATAATAT-AATATAACGTAAAAA
8823001 ATA
1 ATA
8823004 TATATATACA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
31 7 0.23
32 1 0.03
33 6 0.19
34 17 0.55
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.28
Consensus pattern (34 bp):
ATAATAATAATAATAATATAATATAACGTAAAAA
Found at i:8823188 original size:9 final size:9
Alignment explanation
Indices: 8823170--8823210 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
8823160 AAATATATAC
8823170 ATAA-AAAT
1 ATAATAAAT
8823178 ATAATAAAT
1 ATAATAAAT
8823187 AT-ATATAAT
1 ATAATA-AAT
*
8823196 ATAATATAT
1 ATAATAAAT
8823205 ATAATA
1 ATAATA
8823211 TAGTATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
8 7 0.24
9 19 0.66
10 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
ATAATAAAT
Found at i:8823201 original size:23 final size:24
Alignment explanation
Indices: 8823153--8823242 Score: 66
Period size: 23 Copynumber: 3.8 Consensus size: 24
8823143 GAATAATGTG
*
8823153 ATAT-TAAAAATATATACATAAAA
1 ATATATAAATATATATACATAAAA
*
8823176 ATATAATAAATATATATA-AT-ATA
1 ATAT-ATAAATATATATACATAAAA
8823199 ATATATATAATATAGTAT---TAAAA
1 ATATATA-AATATA-TATACATAAAA
* *
8823222 ATATATATAATACATACACAT
1 ATATATA-AATATATATACAT
8823243 TAGAATAATA
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
22 6 0.11
23 31 0.57
24 5 0.09
25 12 0.22
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (24 bp):
ATATATAAATATATATACATAAAA
Found at i:8823203 original size:14 final size:14
Alignment explanation
Indices: 8823176--8823212 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
8823166 ATACATAAAA
8823176 ATATAATA-AATAT
1 ATATAATATAATAT
8823189 ATATAATATAATAT
1 ATATAATATAATAT
8823203 ATATAATATA
1 ATATAATATA
8823213 GTATTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATAATATAATAT
Found at i:8823487 original size:24 final size:24
Alignment explanation
Indices: 8823420--8823476 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
8823410 TAGTAATTAT
* * * *
8823420 AATACTAATACTAATAATAAATAC
1 AATAATAATAGTAAAAATAAACAC
*
8823444 AATAATAGTAGTAAAAATAAACAC
1 AATAATAATAGTAAAAATAAACAC
8823468 AATAATAAT
1 AATAATAAT
8823477 CATGAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (24 bp):
AATAATAATAGTAAAAATAAACAC
Found at i:8836427 original size:44 final size:44
Alignment explanation
Indices: 8836373--8836464 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 44
8836363 CCGAAGTAAC
* **
8836373 AGTAGCAGTACGACACACATGGTGCCTCATCAACTCGAA-GTCGA
1 AGTAACAGTACGACACACATACTGCCTCATCAACTC-AAGGTCGA
* ** *
8836417 AGTAACAGTACGATACTTATACTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACACACATACTGCCTCATCAACTCAAGGTCGA
8836461 AGTA
1 AGTA
8836465 TCCCTAAACA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 2 0.05
44 38 0.95
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.22
Consensus pattern (44 bp):
AGTAACAGTACGACACACATACTGCCTCATCAACTCAAGGTCGA
Found at i:8837427 original size:33 final size:34
Alignment explanation
Indices: 8837371--8837434 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
8837361 ATCACTTAAA
8837371 AAAATTAAAATACTTACCGATTCAATGCAACATAT
1 AAAATTAAAATACTTACCGATTCAAT-CAACATAT
8837406 AAAA-TAAATATA-TTACC-ATTCAATCAACA
1 AAAATTAAA-ATACTTACCGATTCAATCAACA
8837435 GTTTGGCACT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
32 5 0.18
33 7 0.25
34 9 0.32
35 7 0.25
ACGTcount: A:0.52, C:0.17, G:0.03, T:0.28
Consensus pattern (34 bp):
AAAATTAAAATACTTACCGATTCAATCAACATAT
Found at i:8838138 original size:46 final size:46
Alignment explanation
Indices: 8837970--8838189 Score: 242
Period size: 46 Copynumber: 5.0 Consensus size: 46
8837960 TTTGACGTGA
* * * * * *
8837970 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * **
8838016 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
8838062 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
8838108 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--AT-AGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
8838146 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
8838190 AGAGCACACT
Statistics
Matches: 150, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
38 31 0.21
39 2 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 6 0.04
46 103 0.69
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:8838155 original size:38 final size:38
Alignment explanation
Indices: 8838104--8838179 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
8838094 ATCTCATATC
8838104 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
*
8838142 AGGTTGTCATGGTATCTTTCAACCATGGTCTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
8838180 TTCATATCAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (38 bp):
AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
Found at i:8841060 original size:17 final size:17
Alignment explanation
Indices: 8841040--8841080 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
8841030 TTCTTTTTCT
8841040 TTTCTTCTT-TCCTTTTG
1 TTTCTT-TTCTCCTTTTG
8841057 TTTCTTTTCTCCTTTTG
1 TTTCTTTTCTCCTTTTG
8841074 TTTCTTT
1 TTTCTTT
8841081 CGCTATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.00, C:0.22, G:0.05, T:0.73
Consensus pattern (17 bp):
TTTCTTTTCTCCTTTTG
Found at i:8841129 original size:3 final size:3
Alignment explanation
Indices: 8841114--8841168 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
8841104 ATATATTAGT
* *
8841114 TAA TAA TAT TAA TAA TAA TAA TACA TTA TAA TAA TAA T-A TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
8841158 TAA TAA TAA TA
1 TAA TAA TAA TA
8841169 TTTAATTCAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 4 0.09
3 39 0.87
4 2 0.04
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:8841146 original size:13 final size:11
Alignment explanation
Indices: 8841114--8841169 Score: 60
Period size: 11 Copynumber: 4.8 Consensus size: 11
8841104 ATATATTAGT
8841114 TAATAATATTAA
1 TAATAATA-TAA
8841126 TAATAATAATACA
1 TAATAAT-ATA-A
*
8841139 TTATAATAATAA
1 TAATAAT-ATAA
8841151 T-ATAATATAA
1 TAATAATATAA
8841161 TAATAATAT
1 TAATAATAT
8841170 TTAATTCATA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
10 5 0.12
11 12 0.30
12 11 0.28
13 12 0.30
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (11 bp):
TAATAATATAA
Found at i:8841169 original size:16 final size:16
Alignment explanation
Indices: 8841114--8841169 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
8841104 ATATATTAGT
*
8841114 TAATAATATTA-ATAA
1 TAATAATATAATATAA
* *
8841129 TAATAATACATTATAA
1 TAATAATATAATATAA
8841145 TAATAATATAATATAA
1 TAATAATATAATATAA
8841161 TAATAATAT
1 TAATAATAT
8841170 TTAATTCATA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
15 8 0.23
16 27 0.77
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
TAATAATATAATATAA
Found at i:8841332 original size:24 final size:23
Alignment explanation
Indices: 8841282--8841334 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 23
8841272 TTGTCTTCAT
8841282 TTTAATAATTTAATATAAAACTA
1 TTTAATAATTTAATATAAAACTA
*
8841305 --TAATAATTATAATA-AATATCTA
1 TTTAATAATT-TAATATAA-AACTA
8841327 TTTAATAA
1 TTTAATAA
8841335 CAAATACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 10 0.40
22 9 0.36
24 6 0.24
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
TTTAATAATTTAATATAAAACTA
Found at i:8843905 original size:16 final size:17
Alignment explanation
Indices: 8843884--8843933 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
8843874 AATTATCATT
8843884 TATTAAATAAAA-ATTA
1 TATTAAATAAAATATTA
*
8843900 TATTAATTAAAATATTA
1 TATTAAATAAAATATTA
*
8843917 T-TTGAATAAAATGATTA
1 TATTAAATAAAAT-ATTA
8843934 AATTTTTCGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 20 0.69
17 9 0.31
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (17 bp):
TATTAAATAAAATATTA
Found at i:8844124 original size:32 final size:32
Alignment explanation
Indices: 8844073--8844137 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
8844063 CACCATAAAC
* * * *
8844073 TTATAAATTGATTACTTTAATTTAGTTACTCA
1 TTATAAATTAATTAATTTAATTTAATAACTCA
8844105 TTATAAATTAATTAATTTAATTTAATAACTCA
1 TTATAAATTAATTAATTTAATTTAATAACTCA
8844137 T
1 T
8844138 ATTGATTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.49
Consensus pattern (32 bp):
TTATAAATTAATTAATTTAATTTAATAACTCA
Found at i:8844924 original size:133 final size:131
Alignment explanation
Indices: 8844765--8845116 Score: 416
Period size: 133 Copynumber: 2.6 Consensus size: 131
8844755 AGTTACTACT
*
8844765 TATATTTAAAATTTGAAATTTAAAAAATAAAAAGATTAAATTCCTAAAAATAAAAATAAAATGAC
1 TATATTT-AAATTTGAAATTTAAAAAATAAAAGGATTAAATT-CTAAAAATAAAAATAAAATGAC
* * * * * * * *
8844830 TAAATTTCAAAGGTGTGAAGATGTTAAACTAACGAATTTAGTAGAAAAATTTAGCCAGAGTTACC
64 TAAATTTCAAATGTGTGAAGATGTCAAACAAACAAATTTAGCAGAAAAATTTAACCAAAGTTACA
8844895 AAC
129 AAC
* * ** *
8844898 TATATTTAAATTCTGAAATTTGAAAAATAAAAGGATTAATTTTCTAAAAGCAAAAATAAAATGAT
1 TATATTTAAATT-TGAAATTTAAAAAATAAAAGGATTAA-ATTCTAAAAATAAAAATAAAATGAC
* * *
8844963 TAAATTTCAAATGTGTGAATATGTCAAACAAACAAATTTAGCAGAAAAATTTAATCAAAGTTATA
64 TAAATTTCAAATGTGTGAAGATGTCAAACAAACAAATTTAGCAGAAAAATTTAACCAAAGTTACA
*
8845028 AAT
129 AAC
* * *** * *
8845031 TATGTTTAAATTTTAAAAACAATAAAATAAAAGGATTAAAATTCTAAAAATAAAAATAGAATAAC
1 TATATTTAAATTTGAAATTTAA-AAAATAAAAGGATT-AAATTCTAAAAATAAAAATAAAATGAC
*
8845096 TAAATTTCAAATGTGTTAAGA
64 TAAATTTCAAATGTGTGAAGA
8845117 GTACATAGAT
Statistics
Matches: 183, Mismatches: 32, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
132 10 0.05
133 169 0.92
134 4 0.02
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (131 bp):
TATATTTAAATTTGAAATTTAAAAAATAAAAGGATTAAATTCTAAAAATAAAAATAAAATGACTA
AATTTCAAATGTGTGAAGATGTCAAACAAACAAATTTAGCAGAAAAATTTAACCAAAGTTACAAA
C
Found at i:8845308 original size:88 final size:87
Alignment explanation
Indices: 8845187--8845522 Score: 330
Period size: 88 Copynumber: 3.9 Consensus size: 87
8845177 GTTTAAGGGC
* * *
8845187 ATAAAAA-GTCCTC-AATTTTTTCAAAAAATGTAATTAAGCGTAGATTTTTTTTACACTCAATTG
1 ATAAAAAGGCCCTCAAATTTTTTCAAAAAAAGTAATTAAGCCTAGATTTTTTTTACACTCAATTG
**
8845250 AATACTTAAACTTTCAAAATGT
66 GGTACTTAAACTTTCAAAATGT
* * * *
8845272 ATCAAAAAGGCCCTTAAGA-TTTTTCAAAAAAAGTAATTAAG-CTCATGCTTTTATTTTTCCATT
1 AT-AAAAAGGCCCTCAA-ATTTTTTCAAAAAAAGTAATTAAGCCT-A-G-ATTT-TTTTTACACT
*
8845335 TAATTGGGTACTT-AACTTTCAAAATGT
60 CAATTGGGTACTTAAACTTTCAAAATGT
* * * **
8845362 ATAAAAAGGCCCTCAAATTTTTTCAAAAAAA--ATTTAAGCCCCT-GCTTTTTTATACACTCAGC
1 ATAAAAAGGCCCTCAAATTTTTTCAAAAAAAGTAATTAAG--CCTAGATTTTTTTTACACTCAAT
*
8845424 TGGGTACTTAAACTTTCAAAATGC
64 TGGGTACTTAAACTTTCAAAATGT
* * ** *
8845448 ATTAAAAA-GACCTCAAATTTTTTCAAAAAAAATAATTAAGCCTTCACTTTTTTTAACACTCAAT
1 A-TAAAAAGGCCCTCAAATTTTTTCAAAAAAAGTAATTAAGCCTAGA-TTTTTTTTACACTCAAT
8845512 TGGGTACTTAA
64 TGGGTACTTAA
8845523 TTGTCAAAAT
Statistics
Matches: 205, Mismatches: 28, Indels: 33
0.77 0.11 0.12
Matches are distributed among these distances:
85 19 0.09
86 47 0.23
87 18 0.09
88 54 0.26
89 28 0.14
90 21 0.10
91 18 0.09
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (87 bp):
ATAAAAAGGCCCTCAAATTTTTTCAAAAAAAGTAATTAAGCCTAGATTTTTTTTACACTCAATTG
GGTACTTAAACTTTCAAAATGT
Found at i:8857109 original size:25 final size:25
Alignment explanation
Indices: 8857080--8857130 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
8857070 CAAAGGAAAA
**
8857080 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
8857105 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
8857130 T
1 T
8857131 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:8862305 original size:38 final size:38
Alignment explanation
Indices: 8862205--8862433 Score: 217
Period size: 38 Copynumber: 5.9 Consensus size: 38
8862195 AACGTAACAT
* *
8862205 TATTCGGGCTCTGTGCCT-GACAAGCTTCGTGCCGGTGTA
1 TATTCGGGCTCTGTGCCTAG-CAGGCTTTGTGCCGGTG-A
* * *
8862244 TTATATCAGGCTCTATGCCTAGCAGGTTTTGTGCCGGTGA
1 -TAT-TCGGGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
* * **
8862284 TATTCGGGCTTTGTGCCTAGCAGACTTTGTATCGGTGA
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
* * * *
8862322 TATTTGAGCTCGGTGCCTAGCAGGCTCTGTGCCGGTGA
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
* **
8862360 TATTCGGGCTCTGTGCCTACCAGGCTTCATGCCGGTGTA
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCGGTG-A
* * *
8862399 TTATATCAGGCTTTGTGCCTGGCAGGCTTTGTGCC
1 -TAT-TCGGGCTCTGTGCCTAGCAGGCTTTGTGCC
8862434 TGGCAGGCTT
Statistics
Matches: 151, Mismatches: 33, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
38 88 0.58
39 4 0.03
40 7 0.05
41 51 0.34
42 1 0.01
ACGTcount: A:0.14, C:0.23, G:0.30, T:0.33
Consensus pattern (38 bp):
TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCGGTGA
Found at i:8862426 original size:16 final size:16
Alignment explanation
Indices: 8862405--8862465 Score: 113
Period size: 16 Copynumber: 3.8 Consensus size: 16
8862395 TGTATTATAT
8862405 CAGGCTTTGTGCCTGG
1 CAGGCTTTGTGCCTGG
8862421 CAGGCTTTGTGCCTGG
1 CAGGCTTTGTGCCTGG
8862437 CAGGCTTTGTGCCTGG
1 CAGGCTTTGTGCCTGG
*
8862453 CAGGCTTTATGCC
1 CAGGCTTTGTGCC
8862466 AGTGTGTTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.08, C:0.26, G:0.34, T:0.31
Consensus pattern (16 bp):
CAGGCTTTGTGCCTGG
Found at i:8862506 original size:73 final size:73
Alignment explanation
Indices: 8862366--8862506 Score: 165
Period size: 73 Copynumber: 1.9 Consensus size: 73
8862356 GTGATATTCG
* * ** *
8862366 GGCTCTGTGCCTACCAGGCTTCATGCCGGTGTATTATATCAGGCTTTGTGCCTGGCAGGCTTTGT
1 GGCTCTGTGCCTACCAGGCTTCATGCCAGTGTATTATATCAAGCTTTAAGCCTGGCAGGCTTCGT
8862431 GCCTGGCA
66 GCCTGGCA
* ** * * * * *
8862439 GGCTTTGTGCCTGGCAGGCTTTATGCCAGTGTGTTATATTAAGCTTTAAGCCTGGTAGTCTTCGT
1 GGCTCTGTGCCTACCAGGCTTCATGCCAGTGTATTATATCAAGCTTTAAGCCTGGCAGGCTTCGT
8862504 GCC
66 GCC
8862507 AATATATTGT
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
73 55 1.00
ACGTcount: A:0.13, C:0.23, G:0.29, T:0.34
Consensus pattern (73 bp):
GGCTCTGTGCCTACCAGGCTTCATGCCAGTGTATTATATCAAGCTTTAAGCCTGGCAGGCTTCGT
GCCTGGCA
Found at i:8863738 original size:39 final size:37
Alignment explanation
Indices: 8863671--8863763 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
8863661 ACCAGAATGG
* *
8863671 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
8863710 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
8863747 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
8863764 AATTTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:8864887 original size:17 final size:16
Alignment explanation
Indices: 8864855--8864888 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
8864845 TTGGCTATTC
*
8864855 TGTTTCTTTCTTCTTT
1 TGTTTCTTTATTCTTT
8864871 TGTTTCTTTTATTCTTT
1 TGTTTC-TTTATTCTTT
8864888 T
1 T
8864889 ATTTTAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TGTTTCTTTATTCTTT
Found at i:8865089 original size:15 final size:15
Alignment explanation
Indices: 8865078--8865110 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
8865068 ATTTATTTCT
8865078 TAATATAA-TATTTA
1 TAATATAATTATTTA
8865092 TAATATAATTATTT-
1 TAATATAATTATTTA
8865106 TAATA
1 TAATA
8865111 ATATCCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATATAATTATTTA
Found at i:8866090 original size:15 final size:16
Alignment explanation
Indices: 8866070--8866099 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8866060 TAGTGCCTTA
8866070 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
8866085 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
8866100 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:8869496 original size:16 final size:15
Alignment explanation
Indices: 8869473--8869507 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
8869463 ACACTTTAAT
*
8869473 TTATTTATCATATAA
1 TTATTTATAATATAA
8869488 TTATCTTATAATATAA
1 TTAT-TTATAATATAA
8869504 TTAT
1 TTAT
8869508 AATAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATTTATAATATAA
Found at i:8869565 original size:18 final size:19
Alignment explanation
Indices: 8869530--8869566 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
8869520 TAATATCATT
8869530 TATTACTAATAAATATATA
1 TATTACTAATAAATATATA
8869549 TATTA-TAATTAAA-ATATA
1 TATTACTAA-TAAATATATA
8869567 AGTAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
TATTACTAATAAATATATA
Found at i:8871465 original size:23 final size:23
Alignment explanation
Indices: 8871401--8871457 Score: 96
Period size: 23 Copynumber: 2.4 Consensus size: 23
8871391 ATGTCACGAT
8871401 ACACGAAGCACAAAAGTGCTGAAA
1 ACAC-AAGCACAAAAGTGCTGAAA
*
8871425 ACACAAGTACAAAAGTGCTGAAA
1 ACACAAGCACAAAAGTGCTGAAA
8871448 ACACAAGCAC
1 ACACAAGCAC
8871458 TCAAGTGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 27 0.87
24 4 0.13
ACGTcount: A:0.51, C:0.23, G:0.18, T:0.09
Consensus pattern (23 bp):
ACACAAGCACAAAAGTGCTGAAA
Found at i:8874047 original size:14 final size:17
Alignment explanation
Indices: 8874015--8874052 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
8874005 GATTATAAAG
8874015 TATATTATTAAATTAAT
1 TATATTATTAAATTAAT
8874032 TATATTA-TAAA-T-AT
1 TATATTATTAAATTAAT
8874046 TATATTA
1 TATATTA
8874053 AGAAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
15 1 0.05
16 4 0.19
17 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATTAAATTAAT
Found at i:8875318 original size:23 final size:22
Alignment explanation
Indices: 8875303--8875363 Score: 90
Period size: 21 Copynumber: 2.8 Consensus size: 22
8875293 CAGACACTTT
8875303 ATGTGTCGTATATCAGGCACCTC
1 ATGTGTCGT-TATCAGGCACCTC
*
8875326 GTGTGTCG-TATCAGGCACCTC
1 ATGTGTCGTTATCAGGCACCTC
8875347 ATGTGTCGTT-TCAGGCA
1 ATGTGTCGTTATCAGGCA
8875364 TTTATGTGTC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 27 0.77
22 1 0.03
23 7 0.20
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.31
Consensus pattern (22 bp):
ATGTGTCGTTATCAGGCACCTC
Found at i:8875372 original size:20 final size:21
Alignment explanation
Indices: 8875303--8875377 Score: 89
Period size: 21 Copynumber: 3.5 Consensus size: 21
8875293 CAGACACTTT
8875303 ATGTGTCGTATATCAGGCACCTC
1 ATGTGTCG--TATCAGGCACCTC
*
8875326 GTGTGTCGTATCAGGCACCTC
1 ATGTGTCGTATCAGGCACCTC
* * *
8875347 ATGTGTCGTTTCAGGCA-TTT
1 ATGTGTCGTATCAGGCACCTC
8875367 ATGTGTCGTAT
1 ATGTGTCGTAT
8875378 ATTGATCAGG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.24
21 28 0.61
23 7 0.15
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.36
Consensus pattern (21 bp):
ATGTGTCGTATCAGGCACCTC
Found at i:8876590 original size:46 final size:46
Alignment explanation
Indices: 8876530--8876795 Score: 334
Period size: 46 Copynumber: 6.0 Consensus size: 46
8876520 TTTGACGTGA
* * * * * *
8876530 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
8876576 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
8876622 TGTCATGGTATCTTTCAACCACGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
8876668 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
8876714 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
8876752 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
8876796 AGAGCACACT
Statistics
Matches: 194, Mismatches: 17, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
38 33 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 147 0.76
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:8876760 original size:38 final size:38
Alignment explanation
Indices: 8876709--8876784 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
8876699 CATTTCATAT
8876709 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
8876747 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
8876785 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:8878937 original size:11 final size:11
Alignment explanation
Indices: 8878921--8878968 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
8878911 CTTTATATAC
8878921 TAATAAAATAA
1 TAATAAAATAA
*
8878932 TAATAAAATATCT
1 TAATAAAATA--A
* *
8878945 TATTAAAATAT
1 TAATAAAATAA
8878956 TAATAAAATAA
1 TAATAAAATAA
8878967 TA
1 TA
8878969 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:8881995 original size:26 final size:24
Alignment explanation
Indices: 8881963--8882016 Score: 81
Period size: 26 Copynumber: 2.2 Consensus size: 24
8881953 TTTTATATTA
8881963 ATTTTTTTTATTTTTAAATAAAATAT
1 ATTTTTTTTATTTTT-AATAAAA-AT
*
8881989 ATTTTTTTTATTTTTATTAAAAAT
1 ATTTTTTTTATTTTTAATAAAAAT
8882013 ATTT
1 ATTT
8882017 AAATATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 6 0.22
25 6 0.22
26 15 0.56
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
ATTTTTTTTATTTTTAATAAAAAT
Found at i:8882690 original size:30 final size:30
Alignment explanation
Indices: 8882649--8882711 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
8882639 TCACTTGCTA
8882649 CAAAATTTAGAATATTGATATTGTATTCAC
1 CAAAATTTAGAATATTGATATTGTATTCAC
*
8882679 CAAAGTTTAGAATATTGATATTGTATTCAC
1 CAAAATTTAGAATATTGATATTGTATTCAC
8882709 CAA
1 CAA
8882712 TTATAGGAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (30 bp):
CAAAATTTAGAATATTGATATTGTATTCAC
Found at i:8882923 original size:27 final size:27
Alignment explanation
Indices: 8882869--8882923 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
8882859 TGGGCCCCAC
* **
8882869 CACAACCATTTGCGCCTCTGAGGTAGG
1 CACAACCATTTGCGCCTCAGAGAAAGG
*
8882896 CACAATCATTTGCGCCTCAGAGAAAGG
1 CACAACCATTTGCGCCTCAGAGAAAGG
8882923 C
1 C
8882924 TCGATTAGTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (27 bp):
CACAACCATTTGCGCCTCAGAGAAAGG
Found at i:8890278 original size:14 final size:14
Alignment explanation
Indices: 8890261--8890295 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
8890251 TTAAAACCAA
8890261 AAAAAAAAAAAAAG
1 AAAAAAAAAAAAAG
*
8890275 AAAAAAAAAAGAAG
1 AAAAAAAAAAAAAG
8890289 AAGAAAA
1 AA-AAAA
8890296 GGAAAACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:8890279 original size:17 final size:17
Alignment explanation
Indices: 8890259--8890295 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
8890249 CATTAAAACC
8890259 AAAAAAAAAAAAAAAGA
1 AAAAAAAAAAAAAAAGA
* *
8890276 AAAAAAAAAGAAGAAGA
1 AAAAAAAAAAAAAAAGA
8890293 AAA
1 AAA
8890296 GGAAAACAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAGA
Done.