Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 253 of 343
Found at i:83701552 original size:89 final size:89
Alignment explanation
Indices: 83701401--83701587 Score: 311
Period size: 89 Copynumber: 2.1 Consensus size: 89
83701391 GAGGTAGTAT
* * *
83701401 AGATGGAAGAATCACTTATGGAAAGTTTTAGAATGTAAAAGTTTAGCAGTTATGACAACCAAGAC
1 AGATGGAGGAATCACTTATAGAAAGTTTTAGAATGTAAAAGTTTAGCAGCTATGACAACCAAGAC
*
83701466 TCACAAGTTGGAAACAATTATTCG
66 TCACAAGATGGAAACAATTATTCG
*
83701490 AGATGGAGGAATCACTTATAGAAAGTTTTAGAATGTAAAAGTTTAGTAGCTATGACAACCAAGAC
1 AGATGGAGGAATCACTTATAGAAAGTTTTAGAATGTAAAAGTTTAGCAGCTATGACAACCAAGAC
*
83701555 TCACAAGATGGAAACAATTATTCT
66 TCACAAGATGGAAACAATTATTCG
83701579 AGATAGGAG
1 AGAT-GGAG
83701588 TAGGAACTTT
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 87 0.96
90 4 0.04
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (89 bp):
AGATGGAGGAATCACTTATAGAAAGTTTTAGAATGTAAAAGTTTAGCAGCTATGACAACCAAGAC
TCACAAGATGGAAACAATTATTCG
Found at i:83707282 original size:36 final size:37
Alignment explanation
Indices: 83707220--83707319 Score: 143
Period size: 36 Copynumber: 2.8 Consensus size: 37
83707210 CGAATAGTCC
* * *
83707220 CCAC-CGTAGTTAGCGGGTCTCA-CCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
83707255 CCACACGTAGTCATC-GGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
83707291 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
83707320 ATATATTTCC
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
35 10 0.17
36 35 0.60
37 13 0.22
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.22
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:83707520 original size:48 final size:48
Alignment explanation
Indices: 83707460--83707842 Score: 634
Period size: 48 Copynumber: 8.0 Consensus size: 48
83707450 ATATACACAC
* * *
83707460 ATCTCCAT-CATATTTCACATTAGCCATTCGGCTTTACGAAATATACAT
1 ATCT-CATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
83707508 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
83707556 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
83707604 ATCTCATATATATTTCAC-CTTAGCCATTCGGCTTTACCACATATA-AT
1 ATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCACATATACAT
83707651 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
83707699 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
83707747 ATCTCAT--ATATTTCAC-CTTAGCCATACGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCACATATACAT
*
83707793 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
83707841 AT
1 AT
83707843 TTGTCTTGTA
Statistics
Matches: 319, Mismatches: 8, Indels: 16
0.93 0.02 0.05
Matches are distributed among these distances:
45 1 0.00
46 42 0.13
47 48 0.15
48 227 0.71
49 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:83707683 original size:143 final size:142
Alignment explanation
Indices: 83707460--83707842 Score: 669
Period size: 143 Copynumber: 2.7 Consensus size: 142
83707450 ATATACACAC
* * *
83707460 ATCTCCATCATATTTCACATTAGCCATTCGGCTTTACGAAATATACATATCTCATACATATTTCA
1 ATCT-CAT-ATATTTCACCTTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
83707525 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
64 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
83707590 TACCACATATACAT
129 TACCACATATACAT
83707604 ATCTCATATATATTTCACCTTAGCCATTCGGCTTTACCACATATA-ATATCTCATACATATTTCA
1 ATCTC--ATATATTTCACCTTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
83707668 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
64 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
83707733 TACCACATATACAT
129 TACCACATATACAT
* *
83707747 ATCTCATATATTTCACCTTAGCCATACGGCTTTACCACATATATATATCTCATACATATTTCACA
1 ATCTCATATATTTCACCTTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
*
83707812 CTAGCCATTCGGCTTTACCACATATATATAT
66 CTAGCCATTCGGCTTTACCACATATACATAT
83707843 TTGTCTTGTA
Statistics
Matches: 231, Mismatches: 5, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
141 37 0.16
142 51 0.22
143 104 0.45
144 37 0.16
145 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (142 bp):
ATCTCATATATTTCACCTTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA
CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
CCACATATACAT
Found at i:83711515 original size:40 final size:40
Alignment explanation
Indices: 83711471--83711782 Score: 475
Period size: 40 Copynumber: 7.8 Consensus size: 40
83711461 CCAGCATCAT
* * * * *
83711471 TGCTCTTCAGGACCTAGCCCAGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
83711511 TGCTCTTCGGGACTTAACCCTGG-TATAACTCTAGCACGAA
1 TGCTCTTCGGGACTTAGCCC-GGATATATCACTAGCACGAA
* * *
83711551 TGCTCTTCGAGAGTTAGCCCGGGTATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
83711591 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
83711631 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
83711671 TGC-CTTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTC-TTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
83711711 TGCTCTTTGGGACTTAGCCCGAATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
83711751 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
83711783 CTCAATTCTC
Statistics
Matches: 250, Mismatches: 18, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
39 3 0.01
40 245 0.98
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:83713326 original size:48 final size:48
Alignment explanation
Indices: 83713268--83713701 Score: 701
Period size: 48 Copynumber: 9.0 Consensus size: 48
83713258 ATATACACAC
* * * *
83713268 ATCTCCTACATATTTCACATTAGCCATTCGGTTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
83713316 ATCTCATACATATTTCACACTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
83713364 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATAGACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
83713412 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
83713460 ATCTCATATATATTTCAC-CTTAGCCATACGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCACATATACAT
*
83713508 ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
83713556 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
83713604 ATCTCAAATATATTTCAC-CTTAGCCATACGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCACATATACAT
*
83713652 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
83713700 AT
1 AT
83713702 TTGTCTTGTA
Statistics
Matches: 359, Mismatches: 23, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 2 0.01
48 355 0.99
49 2 0.01
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:83727169 original size:44 final size:46
Alignment explanation
Indices: 83727105--83727193 Score: 128
Period size: 44 Copynumber: 2.0 Consensus size: 46
83727095 ACCAAATACA
* *
83727105 AATAATTAACAATAAGTACTATGTAATTTAGTT-A-TATTTAGTAT
1 AATAATTAACAATAAATACTATATAATTTAGTTAATTATTTAGTAT
* *
83727149 AATAATTTATAATAAATACTATATAATTTAGTTAATTATTTAGTA
1 AATAATTAACAATAAATACTATATAATTTAGTTAATTATTTAGTA
83727194 GGTTAAAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 29 0.74
45 1 0.03
46 9 0.23
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (46 bp):
AATAATTAACAATAAATACTATATAATTTAGTTAATTATTTAGTAT
Found at i:83732267 original size:22 final size:21
Alignment explanation
Indices: 83732237--83732302 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
83732227 TACAAATTAA
83732237 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
83732259 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
83732280 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
83732299 ATCT
1 ATCT
83732303 AAGATTGAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:83732289 original size:19 final size:19
Alignment explanation
Indices: 83732254--83732315 Score: 97
Period size: 19 Copynumber: 3.2 Consensus size: 19
83732244 AGATTACAAG
83732254 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
83732275 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
83732294 ATCATATCTAAGATTGAAT
1 ATCATATCTAAGATTGCAT
83732313 ATC
1 ATC
83732316 CTTAAAGATT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 31 0.77
20 1 0.03
21 8 0.20
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:83732475 original size:13 final size:11
Alignment explanation
Indices: 83732435--83732467 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
83732425 GACTTGGACT
83732435 TTATTTTATTT-
1 TTATTTT-TTTA
83732446 TTATTTTTTTA
1 TTATTTTTTTA
83732457 TTATTTTTTTA
1 TTATTTTTTTA
83732468 ACTTATTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 3 0.14
11 18 0.86
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TTATTTTTTTA
Found at i:83734673 original size:44 final size:44
Alignment explanation
Indices: 83734605--83734691 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
83734595 GTAGTAACTG
* *
83734605 TAACGATTTTTTTGGGTAAACACGGTTTTAAATACATTTTCATA
1 TAACAATTTTTTTGGGTAAACACGGTTTTAAATACATTCTCATA
83734649 TAACAATTTTTTTGGGTAAACACGGTTTTAAATACATTCTCAT
1 TAACAATTTTTTTGGGTAAACACGGTTTTAAATACATTCTCAT
83734692 GTGACTTCGC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (44 bp):
TAACAATTTTTTTGGGTAAACACGGTTTTAAATACATTCTCATA
Found at i:83744536 original size:7 final size:7
Alignment explanation
Indices: 83744524--83744553 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
83744514 TAATATATAT
83744524 AATAAAA
1 AATAAAA
83744531 AATAAAA
1 AATAAAA
83744538 AAT-AAA
1 AATAAAA
83744544 AATAAAA
1 AATAAAA
83744551 AAT
1 AAT
83744554 TTAGGGTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (7 bp):
AATAAAA
Found at i:83744546 original size:13 final size:13
Alignment explanation
Indices: 83744528--83744553 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
83744518 ATATATAATA
83744528 AAAAATAAAAAAT
1 AAAAATAAAAAAT
83744541 AAAAATAAAAAAT
1 AAAAATAAAAAAT
83744554 TTAGGGTCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:83748374 original size:46 final size:46
Alignment explanation
Indices: 83748321--83748589 Score: 192
Period size: 47 Copynumber: 5.8 Consensus size: 46
83748311 TGAGTTGTGC
* **
83748321 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACA-TTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACAGAGATGAGA
* *
83748367 GCCAGTGTAAGACCATGTCT-GGACACGGCATCGGCACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACA-TGCATCGGCACAGAGATGAGA
* * * * * *
83748414 GCCAGAGTAAGATATGTCTGGGACATGCATCGACCTCGACAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCG-GCAC-AGAGATGAGA
* * * * *
83748461 GCCAGTGCAAGACGTG-CTTGGGACACGCATCGGCTA-AGAG-T-TGT
1 GCCAGTGTAAGACATGTC-TGGGACATGCATCGGC-ACAGAGATGAGA
* * * *
83748505 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATGCATATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCA--CAGAGATGAGA
**
83748553 GCCAAAGTAAGACCATGTCTGGGACATGGCATCGGCA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
83748590 ATTTATCCCA
Statistics
Matches: 169, Mismatches: 37, Indels: 30
0.72 0.16 0.13
Matches are distributed among these distances:
43 1 0.01
44 27 0.16
45 4 0.02
46 37 0.22
47 64 0.38
48 14 0.08
49 14 0.08
50 8 0.05
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.20
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGATGAGA
Found at i:83752813 original size:21 final size:24
Alignment explanation
Indices: 83752769--83752813 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
83752759 AGAAGGCCTC
*
83752769 ATGGTGAAATGTTCTTCTTCCAAT
1 ATGGTGAAATGTTCTGCTTCCAAT
83752793 ATGGTGAAAT-TT-TGC-TCCAAT
1 ATGGTGAAATGTTCTGCTTCCAAT
83752814 GCCATGAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 2 0.10
23 2 0.10
24 10 0.50
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.40
Consensus pattern (24 bp):
ATGGTGAAATGTTCTGCTTCCAAT
Found at i:83756761 original size:17 final size:17
Alignment explanation
Indices: 83756739--83756775 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
83756729 ATTTGTTGCT
83756739 GGTGTCAACAACCAAAA
1 GGTGTCAACAACCAAAA
83756756 GGTGTCAACAACCAAAA
1 GGTGTCAACAACCAAAA
83756773 GGT
1 GGT
83756776 CTGAGTTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.14
Consensus pattern (17 bp):
GGTGTCAACAACCAAAA
Found at i:83761508 original size:40 final size:40
Alignment explanation
Indices: 83761434--83761615 Score: 287
Period size: 40 Copynumber: 4.6 Consensus size: 40
83761424 AACCCATGTA
* *
83761434 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
83761473 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
83761513 CCTTCGGGACTTAGCCCAGATATAGTCACTATCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
83761553 CCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
83761593 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
83761616 CATTCGAATA
Statistics
Matches: 131, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 12 0.09
40 118 0.90
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:83769566 original size:13 final size:14
Alignment explanation
Indices: 83769529--83769578 Score: 57
Period size: 13 Copynumber: 3.4 Consensus size: 14
83769519 TTATTTAAAT
*
83769529 ATAATTAAATATTA
1 ATAAATAAATATTA
83769543 ATTAATTATAAATATT-
1 A-TAA--ATAAATATTA
83769559 ATAAATAAATATTA
1 ATAAATAAATATTA
83769573 ATAAAT
1 ATAAAT
83769579 TCAGTTATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
13 9 0.29
14 7 0.23
15 6 0.19
16 1 0.03
17 8 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATAAATAAATATTA
Found at i:83770044 original size:20 final size:20
Alignment explanation
Indices: 83770019--83770057 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
83770009 ATCGGATTCG
*
83770019 ATATTATTTATTATATATGT
1 ATATTATGTATTATATATGT
83770039 ATATTATGTATTATATATG
1 ATATTATGTATTATATATG
83770058 CAAATATGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (20 bp):
ATATTATGTATTATATATGT
Found at i:83776225 original size:34 final size:34
Alignment explanation
Indices: 83776152--83776226 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 34
83776142 ATACTGCATG
** * *
83776152 ACTGC-TACTGATACTGTGATGGGCTAAGGCCTT
1 ACTGCATACTGATACCATGATAGGCTAAGACCTT
*
83776185 AATGCATACTGATACCATGATAGGCTAAGACAC-T
1 ACTGCATACTGATACCATGATAGGCTAAGAC-CTT
83776219 ACTGCATA
1 ACTGCATA
83776227 TTTGATACTA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
33 4 0.12
34 29 0.85
35 1 0.03
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (34 bp):
ACTGCATACTGATACCATGATAGGCTAAGACCTT
Found at i:83782591 original size:53 final size:54
Alignment explanation
Indices: 83782510--83782717 Score: 208
Period size: 53 Copynumber: 3.9 Consensus size: 54
83782500 TTTCCTTTTT
* * * * **
83782510 GAACTTACCATTGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATA
* * *
83782563 GAACTCACCAATGTCATGCCTTGGCATGGTTTTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCC-TTGCCTTATA
* * *
83782617 GTAACTCATCC-ATGCCATGTCTTGCCATGGTCTTACATGAT-TGCCTTGCCTTATA
1 G-AACTCA-CCAATGCCATGCCTTGGCATGGTCTTACATGGTAT-CCTTGCCTTATA
* * * *
83782672 GAAATTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
83782718 ATCTTACCAA
Statistics
Matches: 127, Mismatches: 20, Indels: 15
0.78 0.12 0.09
Matches are distributed among these distances:
52 2 0.02
53 42 0.33
54 37 0.29
55 42 0.33
56 4 0.03
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:83782646 original size:55 final size:53
Alignment explanation
Indices: 83782521--83782709 Score: 186
Period size: 55 Copynumber: 3.5 Consensus size: 53
83782511 AACTTACCAT
* * ** *
83782521 TGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTAT-GAACTCA-CCAA
1 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTGCCTTATAGAACTCATCC-A
* *
83782574 TGTCATGCCTTGGCATGGTTTTACATGGGACCTTTGCCTTATAGTAACTCATCCA
1 TGCCATGCCTTGGCATGGTCTTACATGGGACC-TTGCCTTATAG-AACTCATCCA
* * * * * *
83782629 TGCCATGTCTTGCCATGGTCTTACATGATTG-CCTTGCCTTATAGAAATTATCAA
1 TGCCATGCCTTGGCATGGTCTTACATG--GGACCTTGCCTTATAGAACTCATCCA
83782683 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGGCATGGTCTTACATG
83782710 ATATCCTTAT
Statistics
Matches: 113, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
52 2 0.02
53 32 0.28
54 33 0.29
55 41 0.36
56 4 0.04
57 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (53 bp):
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTGCCTTATAGAACTCATCCA
Found at i:83782751 original size:47 final size:47
Alignment explanation
Indices: 83782696--83782817 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
83782686 CATGCCTTGG
* * *
83782696 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCAATGTTCCAAA
*
83782743 CATGGTCTTACAAGGTATCCTTGTCTTACCAAATGCAATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCAATGTTCCAAA
83782790 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
83782818 GTGCCAAATG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCAATGTTCCAAA
Found at i:83784872 original size:155 final size:154
Alignment explanation
Indices: 83784590--83784895 Score: 522
Period size: 155 Copynumber: 2.0 Consensus size: 154
83784580 TCTGAGGCAG
* *
83784590 TTAGGAGGATTATCTGCTGTTAGCAGAATTTGCCTATAATAATAGTTACCAGTCTAGCATCCAGA
1 TTAGGAGGATTATCTACCGTTAGCAGAATTTGCCTATAATAATAGTTACCAGTCTAGCATCCAGA
83784655 TGGCACCTTACGAGGCACTATATGGTCATAAGTGTCGCACTCCCTTATGTTGGACTGAGTTGGGC
66 TGGCACCTTACGAGGCACTATATGGTCATAAGTGTCGCACTCCCTTATGTTGGACTGAGTTGGGC
83784720 GAGAAACGTGTTCCAGGTTCTACCA
131 GAGAAAC-TGTTCCAGGTTCTACCA
*
83784745 TTAGGAGGATTATCTACCGTTAGCAGAGTTTGCCTATAATAATAGTTACCAGTCTAGCATCCAGA
1 TTAGGAGGATTATCTACCGTTAGCAGAATTTGCCTATAATAATAGTTACCAGTCTAGCATCCAGA
* * *
83784810 TGGCACCTTACGAGGCACTATGTGGTCGTAAGTGTCGCACTCCCTTATGTTGGACTGAGTTGGGT
66 TGGCACCTTACGAGGCACTATATGGTCATAAGTGTCGCACTCCCTTATGTTGGACTGAGTTGGGC
** *
83784875 GAGTGACTGTTCTAGGTTCTA
131 GAGAAACTGTTCCAGGTTCTA
83784896 AATTGGTTTC
Statistics
Matches: 142, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
154 13 0.09
155 129 0.91
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (154 bp):
TTAGGAGGATTATCTACCGTTAGCAGAATTTGCCTATAATAATAGTTACCAGTCTAGCATCCAGA
TGGCACCTTACGAGGCACTATATGGTCATAAGTGTCGCACTCCCTTATGTTGGACTGAGTTGGGC
GAGAAACTGTTCCAGGTTCTACCA
Found at i:83790773 original size:27 final size:28
Alignment explanation
Indices: 83790736--83790875 Score: 166
Period size: 27 Copynumber: 5.2 Consensus size: 28
83790726 AGCATGGCTG
* *
83790736 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
83790762 CCAGATACAGATA-ATCGTGGCAAAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
83790790 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
83790817 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* * *
83790844 CCAGAT-CAGATATTTGTGGCATAGACA
1 CCAGATACAGATATATGTGGCAGAGCCA
83790871 CCAGA
1 CCAGA
83790876 ACGCTTCCTC
Statistics
Matches: 103, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.05
27 82 0.80
28 16 0.16
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:83792562 original size:26 final size:26
Alignment explanation
Indices: 83792492--83792626 Score: 209
Period size: 26 Copynumber: 5.2 Consensus size: 26
83792482 CATGAAATTC
*
83792492 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
83792518 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
83792543 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
83792569 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* * *
83792595 TTATAAAGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
83792621 TTATCA
1 TTATCA
83792627 ATTTGTATCA
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 24 0.24
26 77 0.76
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:83796629 original size:27 final size:26
Alignment explanation
Indices: 83796592--83796706 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
83796582 AGCATGGCTG
* **
83796592 CCAGAACAGATAATGTGACAGATTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
83796618 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
83796646 CCAGAACAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
83796673 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
83796700 CCAGAAC
1 CCAGAAC
83796707 GCTTCCTCCA
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 5 0.06
27 59 0.75
28 15 0.19
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:83796683 original size:54 final size:54
Alignment explanation
Indices: 83796592--83796706 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
83796582 AGCATGGCTG
**
83796592 CCAGAACAGATAATGTGACAGATTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * * * *
83796646 CCAGAACAGATATTTGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
83796700 CCAGAAC
1 CCAGAAC
83796707 GCTTCCTCCA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 37 0.70
55 16 0.30
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:83796836 original size:26 final size:27
Alignment explanation
Indices: 83796807--83796882 Score: 100
Period size: 26 Copynumber: 2.8 Consensus size: 27
83796797 CAAAATTAAC
* *
83796807 CCTAGGGGTATAACAGTAATTTTGC-A
1 CCTAGGGGTATAATAGTAATTTTCCAA
83796833 CCTAGGGGTATAATAGTAATTTTCCATA
1 CCTAGGGGTATAATAGTAATTTTCCA-A
* *
83796861 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAATAGTAATTT
83796883 AGCTACTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 23 0.52
28 21 0.48
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.36
Consensus pattern (27 bp):
CCTAGGGGTATAATAGTAATTTTCCAA
Found at i:83796993 original size:20 final size:20
Alignment explanation
Indices: 83796968--83797016 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
83796958 ATTGGACCTG
83796968 TTGGCCCATGAACCCGATCT
1 TTGGCCCATGAACCCGATCT
83796988 TTGGCCCATGAACCCGATCT
1 TTGGCCCATGAACCCGATCT
83797008 TTGGCCCAT
1 TTGGCCCAT
83797017 TAAGCCCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.18, C:0.35, G:0.20, T:0.27
Consensus pattern (20 bp):
TTGGCCCATGAACCCGATCT
Found at i:83798383 original size:26 final size:26
Alignment explanation
Indices: 83798345--83798480 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
83798335 CATGAAATTC
* *
83798345 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
83798371 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
* *
83798397 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
83798423 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
* *
83798449 TTATAAAGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
83798475 TTATCA
1 TTATCA
83798481 ATTTGTATCA
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:83799212 original size:17 final size:18
Alignment explanation
Indices: 83799178--83799214 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
83799168 ACCTGTGTGG
83799178 CATGCCCGTGTAGGCCCA
1 CATGCCCGTGTAGGCCCA
*
83799196 CATGCTCGTGT-GGCCCA
1 CATGCCCGTGTAGGCCCA
83799213 CA
1 CA
83799215 CACCCAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.16, C:0.38, G:0.27, T:0.19
Consensus pattern (18 bp):
CATGCCCGTGTAGGCCCA
Found at i:83802632 original size:21 final size:22
Alignment explanation
Indices: 83802596--83802641 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
83802586 GTTATTATTA
* *
83802596 TTATTAAACTTTTTTTAAATTG
1 TTATTAAACATTTTTTAAAGTG
83802618 TTATT-AACATTTTTTAAAGTG
1 TTATTAAACATTTTTTAAAGTG
83802639 TTA
1 TTA
83802642 ACTTGAAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (22 bp):
TTATTAAACATTTTTTAAAGTG
Found at i:83808337 original size:21 final size:19
Alignment explanation
Indices: 83808313--83808352 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
83808303 TCCTAAAACC
*
83808313 ACTATAGGTAGTACTGATACT
1 ACTATAGATAG-ACTG-TACT
83808334 ACTATAGATAGACTGTACT
1 ACTATAGATAGACTGTACT
83808353 GAAAACACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 4 0.22
21 10 0.56
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (19 bp):
ACTATAGATAGACTGTACT
Found at i:83817912 original size:55 final size:54
Alignment explanation
Indices: 83817824--83817942 Score: 132
Period size: 55 Copynumber: 2.2 Consensus size: 54
83817814 TTTCAATCCC
* * * * *
83817824 CACGCCCGTGTTATTTCAACAGGTTCGACCACGGGTGTTAGACACGGGTATGTCG
1 CACGCCCGTGCTATTTCAACAGGTTCAACCACGGGTCTT-CACACGGGCATGTCG
* * * *
83817879 CACGCCCGTGCTAGTTTC-TCAGTTTCAACCACGGGTCTTCACACGGGCGTGTTG
1 CACGCCCGTGCTA-TTTCAACAGGTTCAACCACGGGTCTTCACACGGGCATGTCG
83817933 CACGCCCGTG
1 CACGCCCGTG
83817943 TTGTTTTGGC
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
54 21 0.39
55 29 0.54
56 4 0.07
ACGTcount: A:0.17, C:0.30, G:0.28, T:0.25
Consensus pattern (54 bp):
CACGCCCGTGCTATTTCAACAGGTTCAACCACGGGTCTTCACACGGGCATGTCG
Found at i:83827427 original size:16 final size:16
Alignment explanation
Indices: 83827406--83827437 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
83827396 TTTATAGAAT
*
83827406 ACAAAAATATTAATAA
1 ACAAAAATATCAATAA
83827422 ACAAAAATATCAATAA
1 ACAAAAATATCAATAA
83827438 GGAATATGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (16 bp):
ACAAAAATATCAATAA
Found at i:83829676 original size:13 final size:13
Alignment explanation
Indices: 83829658--83829699 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
83829648 AAACCCTAAA
*
83829658 TTTTCTCCTTTCT
1 TTTTCTTCTTTCT
*
83829671 TTTTCTTTCTATCT
1 TTTTC-TTCTTTCT
83829685 TTTTCTTCTTTCT
1 TTTTCTTCTTTCT
83829698 TT
1 TT
83829700 CCCCTGTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTCTTCTTTCT
Found at i:83829787 original size:25 final size:25
Alignment explanation
Indices: 83829757--83829823 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 25
83829747 ATGTTTTGCT
* * *
83829757 ATTATTATTATATTATAATATAATAT
1 ATTATTATTATATAATAAGA-AATAC
*
83829783 ATATTTTACTTATATAATAAGAAATAC
1 AT-TATTA-TTATATAATAAGAAATAC
83829810 ATTATTATTATATA
1 ATTATTATTATATA
83829824 CATATGATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
25 7 0.21
26 6 0.18
27 10 0.29
28 11 0.32
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (25 bp):
ATTATTATTATATAATAAGAAATAC
Found at i:83834402 original size:21 final size:21
Alignment explanation
Indices: 83834378--83834459 Score: 110
Period size: 21 Copynumber: 3.8 Consensus size: 21
83834368 GACACATAAA
* *
83834378 GTGCCTAAAATGACACACGAG
1 GTGCCTGAAACGACACACGAG
*
83834399 GTGCCTGATACGACACACGAG
1 GTGCCTGAAACGACACACGAG
*
83834420 GTGCCTGATACGACACACGAG
1 GTGCCTGAAACGACACACGAG
83834441 GTGCCTGAAATACGACACA
1 GTGCCTG-AA-ACGACACA
83834460 TAAAGTGCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
21 46 0.84
22 1 0.02
23 8 0.15
ACGTcount: A:0.33, C:0.27, G:0.26, T:0.15
Consensus pattern (21 bp):
GTGCCTGAAACGACACACGAG
Found at i:83834415 original size:42 final size:43
Alignment explanation
Indices: 83834364--83834469 Score: 142
Period size: 42 Copynumber: 2.5 Consensus size: 43
83834354 CCTGATCAGT
*
83834364 ATACGACACATAAAGTGCCTAAAATGACACACGAGGTGCCTG-
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGA
** * * *
83834406 ATACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG-A
83834450 ATACGACACATAAAGTGCCT
1 ATACGACACATAAAGTGCCT
83834470 GATCGATAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 36 0.68
44 17 0.32
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.16
Consensus pattern (43 bp):
ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGA
Found at i:83834416 original size:23 final size:21
Alignment explanation
Indices: 83834389--83834459 Score: 124
Period size: 21 Copynumber: 3.3 Consensus size: 21
83834379 TGCCTAAAAT
83834389 GACACACGAGGTGCCTGATAC
1 GACACACGAGGTGCCTGATAC
83834410 GACACACGAGGTGCCTGATAC
1 GACACACGAGGTGCCTGATAC
83834431 GACACACGAGGTGCCTGAAATAC
1 GACACACGAGGTGCCTG--ATAC
83834454 GACACA
1 GACACA
83834460 TAAAGTGCCT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
21 38 0.79
23 10 0.21
ACGTcount: A:0.32, C:0.28, G:0.27, T:0.13
Consensus pattern (21 bp):
GACACACGAGGTGCCTGATAC
Found at i:83834871 original size:15 final size:15
Alignment explanation
Indices: 83834843--83834900 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
83834833 TCATATATAT
*
83834843 TATATAATTTAATCAA
1 TATA-AATTCAATCAA
83834859 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
83834874 AATAATTTCAATCAA
1 TATAAATTCAATCAA
83834889 TATAAATTCAAT
1 TATAAATTCAAT
83834901 AAAACAGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 33 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:83834889 original size:30 final size:28
Alignment explanation
Indices: 83834846--83834904 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
83834836 TATATATTAT
83834846 ATAATTTAATCAATATAAATTCAATCAAA
1 ATAATTTAATCAATATAAATTCAAT-AAA
83834875 ATAATTTCAATCAATATAAATTCAATAAA
1 ATAATTT-AATCAATATAAATTCAATAAA
83834904 A
1 A
83834905 CAGATATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 18 0.62
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (28 bp):
ATAATTTAATCAATATAAATTCAATAAA
Found at i:83835063 original size:2 final size:2
Alignment explanation
Indices: 83835056--83835081 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
83835046 ATATCTCATT
83835056 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
83835082 TATATATATA
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:83837282 original size:21 final size:21
Alignment explanation
Indices: 83837250--83837300 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
83837240 GTATATAATT
83837250 CATATATTCCATATATTATCAA
1 CATAT-TTCCATATATTATCAA
*
83837272 CATATTTCCATATATTGTCAA
1 CATATTTCCATATATTATCAA
83837293 CATATTTC
1 CATATTTC
83837301 ACATTCTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 23 0.82
22 5 0.18
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.43
Consensus pattern (21 bp):
CATATTTCCATATATTATCAA
Found at i:83837361 original size:16 final size:17
Alignment explanation
Indices: 83837329--83837361 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
83837319 ACTATACCAT
*
83837329 TTTCATTTCTCATATCA
1 TTTCATTTCTAATATCA
83837346 TTTCATTTC-AATATCA
1 TTTCATTTCTAATATCA
83837362 ATTGTAAGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.21, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTCATTTCTAATATCA
Found at i:83837507 original size:25 final size:25
Alignment explanation
Indices: 83837473--83837524 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
83837463 ATCGGATAAT
83837473 TCGAAGTAATAATTGACACACAGTG
1 TCGAAGTAATAATTGACACACAGTG
83837498 TCGAAGTAATAATTGACACACAGTG
1 TCGAAGTAATAATTGACACACAGTG
83837523 TC
1 TC
83837525 TCATCGGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.25
Consensus pattern (25 bp):
TCGAAGTAATAATTGACACACAGTG
Found at i:83838470 original size:13 final size:13
Alignment explanation
Indices: 83838452--83838493 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
83838442 AAACCCTAAA
*
83838452 TTTTCTCCTTTCT
1 TTTTCTTCTTTCT
*
83838465 TTTTCTTTCTATCT
1 TTTTC-TTCTTTCT
83838479 TTTTCTTCTTTCT
1 TTTTCTTCTTTCT
83838492 TT
1 TT
83838494 CTCCTGTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTCTTCTTTCT
Found at i:83838706 original size:24 final size:24
Alignment explanation
Indices: 83838677--83838742 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
83838667 CATAATTTGA
*
83838677 TTTAATTACTTAT-TTATTTTATAC
1 TTTAATTA-TTATATTATATTATAC
83838701 TTTAATTATTATATTATATTATA-
1 TTTAATTATTATATTATATTATAC
83838724 -TT-A-TATTATATTATATTAT
1 TTTAATTATTATATTATATTAT
83838743 TTCTTTAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
20 16 0.40
21 1 0.03
22 2 0.05
23 4 0.10
24 17 0.43
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTAATTATTATATTATATTATAC
Found at i:83838715 original size:5 final size:5
Alignment explanation
Indices: 83838707--83838742 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
83838697 ATACTTTAAT
83838707 TATTA TATTA TATTA TATTA TATTA TATTA TATTA T
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA T
83838743 TTCTTTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:83840594 original size:23 final size:22
Alignment explanation
Indices: 83840568--83840627 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 22
83840558 TTATCTCTCC
83840568 TAGGGTTAAGGTTTTTATTTTAT
1 TAGGGTTAAGG-TTTTATTTTAT
*
83840591 TAGGGTTAA-GATTT-TTTTAT
1 TAGGGTTAAGGTTTTATTTTAT
*
83840611 TAGGGTTTAGGGTTTTA
1 TAGGG-TTAAGGTTTTA
83840628 GGGAAGTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 11 0.35
21 6 0.19
22 5 0.16
23 9 0.29
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (22 bp):
TAGGGTTAAGGTTTTATTTTAT
Found at i:83845540 original size:3 final size:3
Alignment explanation
Indices: 83845532--83845584 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
83845522 CCTATAGACT
83845532 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
83845580 TCA TC
1 TCA TC
83845585 GCCTGAGTAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:83847617 original size:18 final size:19
Alignment explanation
Indices: 83847572--83847618 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
83847562 TCATCTACCT
83847572 ATTTAAACAAAAAAAATATA
1 ATTT-AACAAAAAAAATATA
*
83847592 ATTATAACAAAAAAATTA-A
1 ATT-TAACAAAAAAAATATA
83847611 ATTTAACA
1 ATTTAACA
83847619 TTATTGAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 5 0.20
19 4 0.16
20 15 0.60
21 1 0.04
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (19 bp):
ATTTAACAAAAAAAATATA
Found at i:83847767 original size:18 final size:18
Alignment explanation
Indices: 83847740--83847782 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
83847730 TTAAAAGAAT
*
83847740 AAAATGATATAATTAAAA
1 AAAATAATATAATTAAAA
** *
83847758 AAAATAATATTTTTTAAA
1 AAAATAATATAATTAAAA
83847776 AAAATAA
1 AAAATAA
83847783 AAAATTATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
AAAATAATATAATTAAAA
Found at i:83848024 original size:35 final size:35
Alignment explanation
Indices: 83847984--83848101 Score: 184
Period size: 35 Copynumber: 3.3 Consensus size: 35
83847974 ATCTTCAATG
*
83847984 TGCAATCTTAGTTATGATACAATCTTAGATATGAT
1 TGCAATCTTAGATATGATACAATCTTAGATATGAT
83848019 TGCAATCTTAGATATGATACAATCTTAGATATGA-
1 TGCAATCTTAGATATGATACAATCTTAGATATGAT
* *
83848053 TACAATCTTAGATATGATTGCAATCTTAGATATGAT
1 TGCAATCTTAGATATGA-TACAATCTTAGATATGAT
83848089 ATGCAATCTTAGA
1 -TGCAATCTTAGA
83848102 AGATATGATT
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
34 16 0.21
35 49 0.64
37 11 0.14
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.37
Consensus pattern (35 bp):
TGCAATCTTAGATATGATACAATCTTAGATATGAT
Found at i:83848043 original size:52 final size:53
Alignment explanation
Indices: 83847985--83848101 Score: 209
Period size: 52 Copynumber: 2.2 Consensus size: 53
83847975 TCTTCAATGT
*
83847985 GCAATCTTAGTTATGATACAATCTTAGATATGATTGCAATCTTAGATATGATA
1 GCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATGATA
83848038 -CAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATGATA
1 GCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATGATA
83848090 TGCAATCTTAGA
1 -GCAATCTTAGA
83848102 AGATATGATT
Statistics
Matches: 61, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
52 51 0.84
54 10 0.16
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (53 bp):
GCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:83848108 original size:17 final size:19
Alignment explanation
Indices: 83847984--83848101 Score: 171
Period size: 17 Copynumber: 6.6 Consensus size: 19
83847974 ATCTTCAATG
*
83847984 TGCAATCTTAGTTATGATA
1 TGCAATCTTAGATATGATA
83848003 --CAATCTTAGATATGAT-
1 TGCAATCTTAGATATGATA
83848019 TGCAATCTTAGATATGATA
1 TGCAATCTTAGATATGATA
83848038 --CAATCTTAGATATGATA
1 TGCAATCTTAGATATGATA
83848055 --CAATCTTAGATATGAT-
1 TGCAATCTTAGATATGATA
83848071 TGCAATCTTAGATATGATA
1 TGCAATCTTAGATATGATA
83848090 TGCAATCTTAGA
1 TGCAATCTTAGA
83848102 AGATATGATT
Statistics
Matches: 92, Mismatches: 1, Indels: 12
0.88 0.01 0.11
Matches are distributed among these distances:
17 48 0.52
18 32 0.35
19 12 0.13
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.37
Consensus pattern (19 bp):
TGCAATCTTAGATATGATA
Found at i:83848127 original size:22 final size:22
Alignment explanation
Indices: 83848010--83848124 Score: 77
Period size: 17 Copynumber: 6.0 Consensus size: 22
83848000 ATACAATCTT
83848010 AGATATGAT-TGCAATCTT---
1 AGATATGATATGCAATCTTAGA
83848028 AGATATGATA--CAATCTT---
1 AGATATGATATGCAATCTTAGA
83848045 AGATATGATA--CAATCTT---
1 AGATATGATATGCAATCTTAGA
83848062 AGATATGAT-TGCAATCTT---
1 AGATATGATATGCAATCTTAGA
83848080 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
83848102 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
83848125 GATTTAATTT
Statistics
Matches: 87, Mismatches: 2, Indels: 11
0.87 0.02 0.11
Matches are distributed among these distances:
17 33 0.38
18 25 0.29
19 9 0.10
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:83849990 original size:18 final size:18
Alignment explanation
Indices: 83849963--83850000 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
83849953 TAAAAATTAA
83849963 AAAATATAAAT-TAAATAT
1 AAAATATAAATGT-AATAT
*
83849981 AAAATTTAAATGTAATAT
1 AAAATATAAATGTAATAT
83849999 AA
1 AA
83850001 GGAAAGAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
AAAATATAAATGTAATAT
Found at i:83851604 original size:23 final size:21
Alignment explanation
Indices: 83851581--83851626 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
83851571 AAATTTAATT
83851581 TTTTAT-TTTTATTTTTAAGAA
1 TTTTATATTTTATTTTTAA-AA
* *
83851602 TTTAATATTTTATTTTTTAAA
1 TTTTATATTTTATTTTTAAAA
83851623 TTTT
1 TTTT
83851627 CAAATTTATG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTATATTTTATTTTTAAAA
Found at i:83851635 original size:43 final size:45
Alignment explanation
Indices: 83851588--83851671 Score: 111
Period size: 43 Copynumber: 1.9 Consensus size: 45
83851578 ATTTTTTATT
*
83851588 TTTATTTTTAAGAATTTAATATT-TT-ATTTTTT-AAATTTTCAAA
1 TTTATGTTTAAGAA-TTAATATTATTAATTTTTTAAAATTTTCAAA
**
83851631 TTTATGTTTAATTATTAATATTATTAATTTTTTAAAATTTT
1 TTTATGTTTAAGAATTAATATTATTAATTTTTTAAAATTTT
83851672 TTAATGTGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 8 0.23
43 13 0.37
44 7 0.20
45 7 0.20
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (45 bp):
TTTATGTTTAAGAATTAATATTATTAATTTTTTAAAATTTTCAAA
Found at i:83863497 original size:29 final size:29
Alignment explanation
Indices: 83863465--83863521 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
83863455 GGATTTTTAA
*
83863465 AAAACTTAAATTTAAAACTAAAATTAAAG
1 AAAACTTAAATTCAAAACTAAAATTAAAG
*
83863494 AAAACTTAAATTCAAAACTAAATTTAAA
1 AAAACTTAAATTCAAAACTAAAATTAAA
83863522 ACTTAGCAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.28
Consensus pattern (29 bp):
AAAACTTAAATTCAAAACTAAAATTAAAG
Found at i:83872458 original size:40 final size:40
Alignment explanation
Indices: 83872261--83872444 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
83872251 CGAATGATGT
* * * * *
83872261 CCGGGATAAGTCCCGAAGGC-TTTATGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
83872301 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
83872341 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
83872379 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
83872420 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
83872445 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.65
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:83872466 original size:79 final size:78
Alignment explanation
Indices: 83872294--83872467 Score: 210
Period size: 79 Copynumber: 2.2 Consensus size: 78
83872284 ATGCTAAGTG
* *
83872294 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAGATCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGG
**
83872359 CATTGGTGCGAGTT
65 CATTGGAACGAGTT
* *
83872373 ACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGA
1 ACTATATCC-GGTTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGA
*
83872436 AGGCATTTGAACGAG-T
62 AGGCATTGGAACGAGTT
83872452 AGCTATATCCGGTTAA
1 A-CTATATCCGGTTAA
83872468 ATTCTGAAGG
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
78 3 0.04
79 53 0.65
80 26 0.32
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (78 bp):
ACTATATCCGGTTAAGATCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGC
ATTGGAACGAGTT
Found at i:83880483 original size:40 final size:40
Alignment explanation
Indices: 83880399--83880583 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
83880389 TCGAATGATG
* *
83880399 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
83880438 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
83880479 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
83880518 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
83880557 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
83880584 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 36 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:83880535 original size:79 final size:81
Alignment explanation
Indices: 83880399--83880581 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
83880389 TCGAATGATG
* *
83880399 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
83880463 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
83880478 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
83880540 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
83880558 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
83880582 TGAACGAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:83880605 original size:79 final size:79
Alignment explanation
Indices: 83880400--83880606 Score: 237
Period size: 79 Copynumber: 2.6 Consensus size: 79
83880390 CGAATGATGT
* *
83880400 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAGATCCGAAGGCATT
*
83880463 TGTGCGAGTTACTAATT
63 TGTGCGAGTTACTAATA
* *
83880480 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGAT-CCGAAGGCATT
83880542 TGTGCGAGTTACT-ATAA
63 TGTGCGAGTTACTAAT-A
* **
83880559 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAA
83880607 ATTCTGAAGG
Statistics
Matches: 109, Mismatches: 10, Indels: 17
0.80 0.07 0.12
Matches are distributed among these distances:
78 3 0.03
79 63 0.58
80 43 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGATCCGAAGGCATTTGT
GCGAGTTACTAATA
Found at i:83883614 original size:14 final size:13
Alignment explanation
Indices: 83883558--83883631 Score: 58
Period size: 15 Copynumber: 5.2 Consensus size: 13
83883548 ATTTACTCTA
*
83883558 TTATTATTATTAT
1 TTATTTTTATTAT
*
83883571 TTATTTGTTTATTCCT
1 TTA-TT-TTTATT-AT
*
83883587 TTATTTCATATTAT
1 TTATTT-TTATTAT
83883601 CTTATTTTTATTAT
1 -TTATTTTTATTAT
*
83883615 TTCTTTTTATTACT
1 TTATTTTTATTA-T
83883629 TTA
1 TTA
83883632 CTTATTTTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
13 14 0.29
14 13 0.27
15 17 0.35
16 4 0.08
ACGTcount: A:0.22, C:0.08, G:0.01, T:0.69
Consensus pattern (13 bp):
TTATTTTTATTAT
Found at i:83885200 original size:31 final size:30
Alignment explanation
Indices: 83885162--83885230 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 30
83885152 ATTGAGTCCA
*
83885162 TTTATTTTTC-TTTTCTTTTTTCTTTTTAGTT
1 TTTATTTTTCTTTTTC-TTTTTCTGTTTA-TT
83885193 TTTATTTTTCTTTTTCTTTTTCTGTTTATT
1 TTTATTTTTCTTTTTCTTTTTCTGTTTATT
*
83885223 TGTATTTT
1 TTTATTTT
83885231 CCTAGAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
30 9 0.26
31 21 0.60
32 5 0.14
ACGTcount: A:0.07, C:0.09, G:0.04, T:0.80
Consensus pattern (30 bp):
TTTATTTTTCTTTTTCTTTTTCTGTTTATT
Found at i:83885212 original size:5 final size:6
Alignment explanation
Indices: 83885166--83885215 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
83885156 AGTCCATTTA
* *
83885166 TTTTTC -TTTTC TTTTTTC TTTTTAG TTTTTA TTTTTC TTTTTC TTTTTC
1 TTTTTC TTTTTC -TTTTTC TTTTT-C TTTTTC TTTTTC TTTTTC TTTTTC
83885215 T
1 T
83885216 GTTTATTTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
5 5 0.13
6 23 0.61
7 10 0.26
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:83888204 original size:17 final size:17
Alignment explanation
Indices: 83888177--83888216 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
83888167 ACAATTACAC
83888177 AAACTAAAACTAACGCAA
1 AAAC-AAAACTAACGCAA
* *
83888195 AAACAAAACTATCTCAA
1 AAACAAAACTAACGCAA
83888212 AAACA
1 AAACA
83888217 CACCAAAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.62, C:0.23, G:0.03, T:0.12
Consensus pattern (17 bp):
AAACAAAACTAACGCAA
Found at i:83889493 original size:18 final size:18
Alignment explanation
Indices: 83889470--83889505 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
83889460 GCAGATAATT
83889470 CTCCTAACTACCTCAAAA
1 CTCCTAACTACCTCAAAA
83889488 CTCCTAACTACCTCAAAA
1 CTCCTAACTACCTCAAAA
83889506 ATCTATCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (18 bp):
CTCCTAACTACCTCAAAA
Found at i:83892089 original size:146 final size:146
Alignment explanation
Indices: 83891821--83892113 Score: 439
Period size: 146 Copynumber: 2.0 Consensus size: 146
83891811 CTCAACCAAC
* * *
83891821 CAGTCTATTCCCAGAATTAAATCGAACTCCTCAAACGGAAGCTCCATCAGATTTTCCAGAAAGAC
1 CAGTCTATTCCCAAAATTAAATCGAACTCCCCAAACGGAAGCTCCATCAGATTTGCCAGAAAGAC
*
83891886 AGCCTCTTGTACCACTAACTAGACATCCCTATAAAGTTTACTAACCCAAACAAACTGCCCCAAT-
66 ACCCTCTTGTACCACTAACTAGACATCCCTATAAAGTTTACTAACCCAAACAAACTGCCCCAATA
83891950 GGACTTAGTACAATAAT
131 GG-CTTAGTACAATAAT
* * *
83891967 CAGTCTATTCCCAAAATTAAATTGAACTCCCCAAATGGAAGCTCTATCAGATTTGCCAGAAAGAC
1 CAGTCTATTCCCAAAATTAAATCGAACTCCCCAAACGGAAGCTCCATCAGATTTGCCAGAAAGAC
* * *
83892032 AACCCT-TTGTACCACTAA-TAGGACATTCCTATAGAGTTTACTAACCCAAACAGACTGCCCCAA
66 -ACCCTCTTGTACCACTAACTA-GACATCCCTATAAAGTTTACTAACCCAAACAAACTGCCCCAA
*
83892095 TAGGCTTAGTACAGTAAT
129 TAGGCTTAGTACAATAAT
83892113 C
1 C
83892114 TCACTAGAAA
Statistics
Matches: 133, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
145 2 0.02
146 125 0.94
147 6 0.05
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.25
Consensus pattern (146 bp):
CAGTCTATTCCCAAAATTAAATCGAACTCCCCAAACGGAAGCTCCATCAGATTTGCCAGAAAGAC
ACCCTCTTGTACCACTAACTAGACATCCCTATAAAGTTTACTAACCCAAACAAACTGCCCCAATA
GGCTTAGTACAATAAT
Found at i:83904693 original size:53 final size:53
Alignment explanation
Indices: 83904523--83904726 Score: 225
Period size: 53 Copynumber: 3.8 Consensus size: 53
83904513 AGGGTTTAAG
* *
83904523 GATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-G-TTCATAAGGCAAA
* * * *
83904578 GATACCATGTAAGA-CATGTCAAGACATTGCATTGATAAGTTACTATAAGGAAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGCAAA
* * *
83904632 TG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAA
1 -GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGCAAA
* * *
83904685 GATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
83904727 TCAAAAGGAT
Statistics
Matches: 124, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
51 2 0.02
52 3 0.02
53 50 0.40
54 32 0.26
55 37 0.30
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.24
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGCAAA
Found at i:83906362 original size:48 final size:48
Alignment explanation
Indices: 83906217--83906362 Score: 160
Period size: 44 Copynumber: 3.1 Consensus size: 48
83906207 GTGTTACATT
*
83906217 CATATATCGAGGCCGATGCCATGTCCCAGACAGGTCTTACACTAGCACA
1 CATATCTC-AGGCCGATGCCATGTCCCAGACAGGTCTTACACTAGCACA
* * ***
83906266 CA-A---CAAGCTGATGCCATGTCCCAGACAGGT-TTACACTAGCTTG
1 CATATCTCAGGCCGATGCCATGTCCCAGACAGGTCTTACACTAGCACA
* *
83906309 TATATCTCTAGGCCGATG-CATGTCCCAGACATGTCTTACACTAGCACA
1 CATATCTC-AGGCCGATGCCATGTCCCAGACAGGTCTTACACTAGCACA
83906357 CATATC
1 CATATC
83906363 ACCTAATGTC
Statistics
Matches: 78, Mismatches: 13, Indels: 13
0.75 0.12 0.12
Matches are distributed among these distances:
43 11 0.14
44 25 0.32
45 1 0.01
47 16 0.21
48 23 0.29
49 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (48 bp):
CATATCTCAGGCCGATGCCATGTCCCAGACAGGTCTTACACTAGCACA
Found at i:83906969 original size:20 final size:20
Alignment explanation
Indices: 83906944--83906982 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
83906934 AAAATTTCAA
83906944 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
83906964 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
83906983 AATAGCCCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:83910901 original size:21 final size:21
Alignment explanation
Indices: 83910858--83910901 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
83910848 ACACACTCAG
*
83910858 CTTAATTGAGCTATTAATGAA
1 CTTAATTGAGCTATTAATAAA
*
83910879 CTTAATTGATCTAATT-ATAAA
1 CTTAATTGAGCT-ATTAATAAA
83910900 CT
1 CT
83910902 AAAAGACCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (21 bp):
CTTAATTGAGCTATTAATAAA
Found at i:83922094 original size:13 final size:13
Alignment explanation
Indices: 83922076--83922104 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
83922066 TTTAGTTTAA
83922076 TTAGTTAATTAGT
1 TTAGTTAATTAGT
83922089 TTAGTTAATTAGT
1 TTAGTTAATTAGT
83922102 TTA
1 TTA
83922105 ATAAATAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:83927047 original size:17 final size:18
Alignment explanation
Indices: 83927025--83927058 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
83927015 CACATTGAAG
83927025 TGTTTT-AGTGAAAACCA
1 TGTTTTCAGTGAAAACCA
*
83927042 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
83927059 CTTCTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCA
Found at i:83928177 original size:29 final size:28
Alignment explanation
Indices: 83928111--83928236 Score: 116
Period size: 29 Copynumber: 4.4 Consensus size: 28
83928101 TACATACATG
* *
83928111 CATATGGCCCACTAGGCCCAATCTCACTT
1 CATATGGCCCA-TAAGCCCAATCTCATTT
83928140 -ATATGGCCCATATAGCCCAAT-TCATGTT
1 CATATGGCCCATA-AGCCCAATCTCAT-TT
* *
83928168 CATATGGCCCATCAGGCCCAAT-TCACATT
1 CATATGGCCCAT-AAGCCCAATCTCA-TTT
* *
83928197 CATATGGCCCATTAGGCCTAATCTCATTT
1 CATATGGCCCA-TAAGCCCAATCTCATTT
83928226 -ATATGGCCCAT
1 CATATGGCCCAT
83928237 CCGGCCCAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
27 6 0.07
28 29 0.35
29 44 0.52
30 5 0.06
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (28 bp):
CATATGGCCCATAAGCCCAATCTCATTT
Found at i:83928185 original size:57 final size:58
Alignment explanation
Indices: 83928111--83928257 Score: 182
Period size: 57 Copynumber: 2.6 Consensus size: 58
83928101 TACATACATG
83928111 CATATGGCCCA-CTAGGCCCAATCTCAC-TT-ATATGGCCCATATA-GCCCAAT-TCATGTT
1 CATATGGCCCATC-AGGCCCAAT-TCACATTCATATGGCCCAT-TAGGCCCAATCTCAT-TT
*
83928168 CATATGGCCCATCAGGCCCAATTCACATTCATATGGCCCATTAGGCCTAATCTCATTT
1 CATATGGCCCATCAGGCCCAATTCACATTCATATGGCCCATTAGGCCCAATCTCATTT
* *
83928226 -ATATGGCCCATCCGGCCCAAATCACATT-ATAT
1 CATATGGCCCATCAGGCCCAATTCACATTCATAT
83928258 TCATGCTCAC
Statistics
Matches: 82, Mismatches: 3, Indels: 11
0.85 0.03 0.11
Matches are distributed among these distances:
56 8 0.10
57 50 0.61
58 20 0.24
59 4 0.05
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.28
Consensus pattern (58 bp):
CATATGGCCCATCAGGCCCAATTCACATTCATATGGCCCATTAGGCCCAATCTCATTT
Found at i:83932617 original size:24 final size:24
Alignment explanation
Indices: 83932551--83932610 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
83932541 CTGTCAGGAG
*
83932551 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGCAT
*
83932575 AGGATTTAGGAGTTGATAAGTCAT
1 AGGATTTAGGAGTTGATAAGGCAT
83932599 AGGATTTAGGAG
1 AGGATTTAGGAG
83932611 CAGATAAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.33, C:0.02, G:0.35, T:0.30
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGCAT
Found at i:83934082 original size:27 final size:27
Alignment explanation
Indices: 83934052--83934126 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 27
83934042 GTGGCTATAA
*
83934052 CACAATTACCTGATCTGGTGGCTCTGC
1 CACAATTATCTGATCTGGTGGCTCTGC
*
83934079 CACATATT-TCTGTTCTGGTGGCTCTGC
1 CACA-ATTATCTGATCTGGTGGCTCTGC
*
83934106 CACGATTATCTGTATCTGGTG
1 CACAATTATCTG-ATCTGGTG
83934127 ACCGTCACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.07
27 28 0.68
28 10 0.24
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (27 bp):
CACAATTATCTGATCTGGTGGCTCTGC
Found at i:83940112 original size:101 final size:101
Alignment explanation
Indices: 83939933--83940114 Score: 265
Period size: 101 Copynumber: 1.8 Consensus size: 101
83939923 CTGTTGTGAG
* * * **
83939933 TCACGTGTGTAGTACTAAGTGCAGGCTACTACAAGTACCAGATTGATAGGTTGCATGTGTAGTAC
1 TCACGTGTGTAGCACTAAGTGCAGGCTACTACAAGTACCAGATGGATAAGTCACATGTGTAGTAC
83939998 TAAGTGCAAGCTACTATGCGTACCCATTAACTTCGA
66 TAAGTGCAAGCTACTATGCGTACCCATTAACTTCGA
** * * *
83940034 TCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
1 TCACGTGTGTAGCACTAAGTGCAGGCTACTACAAGTACCAGATGGATAAGTCACATGTGTAGTAC
*
83940099 TAAGTGCATGCTACTA
66 TAAGTGCAAGCTACTA
83940115 CGTGTACCAG
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 70 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGCACTAAGTGCAGGCTACTACAAGTACCAGATGGATAAGTCACATGTGTAGTAC
TAAGTGCAAGCTACTATGCGTACCCATTAACTTCGA
Found at i:83940122 original size:101 final size:101
Alignment explanation
Indices: 83939933--83940323 Score: 263
Period size: 101 Copynumber: 3.9 Consensus size: 101
83939923 CTGTTGTGAG
* * * **
83939933 TCACGTGTGTAGTACTAAGTGCAGGCTACTACAAGTACCAGATTGATAGGTTGCATGTGTAGTAC
1 TCACGTGTGTAGCACTAAGTGCAGGCTACTACAAGTACCAGATGGATAAGTCACATGTGTAGTAC
*
83939998 TAAGTGCAAGCTACTATGCGTACCCATTAACTTCGA
66 TAAGTGCAAGCTACTACGCGTACCCATTAACTTCGA
** * * *
83940034 TCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTAC
1 TCACGTGTGTAGCACTAAGTGCAGGCTACTACAAGTACCAGATGGATAAGTCACATGTGTAGTAC
* * * * * *
83940099 TAAGTGCATGCTACTACGTGTACCAGATTGA--TAGG
66 TAAGTGCAAGCTACTACGCGTACC-CATTAACTTCGA
* * * *** * ** **
83940134 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTTGATCACATGTGTAGT
1 TCACGTGTGTAGCACTAAGTGCAGGCTACTACAAGTACCAGATGGA-TAAG-TCACATGTGTAGT
* * * * * ** *
83940198 ACTAAATGCAGGCTACTACGTGTA-TCA-GATGGTT-AA
64 ACTAAGTGCAAGCTACTACGCGTACCCATTA-ACTTCGA
* * * ** * * * *
83940234 GTCATGTGTGTAGTAATAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATATGTAGTA
1 -TCACGTGTGTAGCACTAAGTGCAGGCTACTACAAGTACCAGATGGATAAGTCACATGTGTAGTA
* * *
83940299 CTAAGTGCAGGCTACCATGCGTACC
65 CTAAGTGCAAGCTACTACGCGTACC
83940324 AGAGAGCTTC
Statistics
Matches: 225, Mismatches: 56, Indels: 18
0.75 0.19 0.06
Matches are distributed among these distances:
99 2 0.01
100 69 0.31
101 147 0.65
102 7 0.03
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGCACTAAGTGCAGGCTACTACAAGTACCAGATGGATAAGTCACATGTGTAGTAC
TAAGTGCAAGCTACTACGCGTACCCATTAACTTCGA
Found at i:83940208 original size:151 final size:151
Alignment explanation
Indices: 83939931--83940323 Score: 660
Period size: 151 Copynumber: 2.6 Consensus size: 151
83939921 ATCTGTTGTG
** *
83939931 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACAAGTACCAGATTGATAGGTTGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* * *
83939996 ACTAAGTGCAAGCTACTATGCGTACCCATTAACTTCGATCACGTGTGTAGCACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCATTAACTTCGATCACATGTGTAGCACTAAATGCAGGCT
83940061 ACTACGTGTATCAGATGGTTA
131 ACTACGTGTATCAGATGGTTA
*
83940082 AGTCACGTGTGTAGTACTAAGTGCATGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* * *
83940147 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTTGATCACATGTGTAGTACTAAATGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCATTAACTTCGATCACATGTGTAGCACTAAATGCAGGCT
83940212 ACTACGTGTATCAGATGGTTA
131 ACTACGTGTATCAGATGGTTA
* * *
83940233 AGTCATGTGTGTAGTAATAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATATGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
*
83940298 ACTAAGTGCAGGCTACCATGCGTACC
66 ACTAAGTGCAGGCTACTATGCGTACC
83940324 AGAGAGCTTC
Statistics
Matches: 227, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
151 227 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (151 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCCATTAACTTCGATCACATGTGTAGCACTAAATGCAGGCT
ACTACGTGTATCAGATGGTTA
Found at i:83940326 original size:50 final size:50
Alignment explanation
Indices: 83939932--83940313 Score: 381
Period size: 50 Copynumber: 7.6 Consensus size: 50
83939922 TCTGTTGTGA
* **
83939932 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACAAGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
** * * * * * *
83939982 GTTGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACC-CATTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * * *
83940033 ATCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* *
83940083 GTCACGTGTGTAGTACTAAGTGCATGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * * *
83940133 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * *
83940184 ATCACATGTGTAGTACTAAATGCAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
** *
83940234 GTCATGTGTGTAGTAATAAGTGCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* *
83940284 GTCGCATATGTAGTACTAAGTGCAGGCTAC
1 GTCACATGTGTAGTACTAAGTGCAGGCTAC
83940314 CATGCGTACC
Statistics
Matches: 260, Mismatches: 66, Indels: 12
0.77 0.20 0.04
Matches are distributed among these distances:
49 7 0.03
50 180 0.69
51 70 0.27
52 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
Found at i:83942384 original size:43 final size:43
Alignment explanation
Indices: 83942293--83942406 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 43
83942283 TTGTGTTTAC
* * ***
83942293 ATGTAAGAACATGTCTGGGACATTGGCATCGTTATATGATTTC
1 ATGTAAGACCATGTCTGGGACATTGGCATCGATATATGATAAA
* *
83942336 GTGTAAGACCACGTCTGGGACATTGGCATCGATATATGATAAA
1 ATGTAAGACCATGTCTGGGACATTGGCATCGATATATGATAAA
* *
83942379 ATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTAAGACCATGTCTGGGACATTGGCAT
83942407 TGTGTGAGCT
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
42 6 0.10
43 54 0.90
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (43 bp):
ATGTAAGACCATGTCTGGGACATTGGCATCGATATATGATAAA
Found at i:83948142 original size:25 final size:25
Alignment explanation
Indices: 83948077--83948147 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
83948067 TTATATTTAT
* *
83948077 TTATTTATT-TATTTTTAATTATTA
1 TTATTCATTATATTTTTTATTATTA
* *
83948101 TTCTTCATTAT-TATTTTTATTGTTA
1 TTATTCATTATAT-TTTTTATTATTA
83948126 TTATTCATTATATTTTTTATTA
1 TTATTCATTATATTTTTTATTA
83948148 AGTAGTATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 8 0.21
25 29 0.76
26 1 0.03
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.69
Consensus pattern (25 bp):
TTATTCATTATATTTTTTATTATTA
Found at i:83957383 original size:27 final size:27
Alignment explanation
Indices: 83957353--83957451 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
83957343 TTTAATTTAC
*
83957353 TAAAATTACCGAAATACGCTTAG-TTTG
1 TAAAATTACCGAAATAC-CTTCGATTTG
* * *
83957380 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCTTCGATTTG
* * *
83957407 TAAAATTACTGAAGTACCTTCGACTTG
1 TAAAATTACCGAAATACCTTCGATTTG
83957434 TAAAATTACC-AAAGTACC
1 TAAAATTACCGAAA-TACC
83957452 CCCGATTTAC
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.08
27 55 0.92
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.30
Consensus pattern (27 bp):
TAAAATTACCGAAATACCTTCGATTTG
Found at i:83957467 original size:27 final size:27
Alignment explanation
Indices: 83957437--83957498 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
83957427 CGACTTGTAA
83957437 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
*** * *
83957464 AATTACCATTTTACCCCCGATTTATAT
1 AATTACCAAAGTACCCCCGATTTACAG
83957491 AATTACCA
1 AATTACCA
83957499 TTTTACCCCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.31
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:83957499 original size:27 final size:27
Alignment explanation
Indices: 83957448--83957515 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
83957438 ATTACCAAAG
83957448 TACCCCCGATTTACAGAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
* *
83957475 TACCCCCGATTTATATAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
*
83957502 TACCCCCGTTTTAC
1 TACCCCCGATTTAC
83957516 CCTCGACTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.26, C:0.31, G:0.06, T:0.37
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCATTT
Found at i:83957514 original size:38 final size:38
Alignment explanation
Indices: 83957472--83957553 Score: 92
Period size: 38 Copynumber: 2.2 Consensus size: 38
83957462 AGAATTACCA
* * *
83957472 TTTTACCCCCGATTTATATAATTACCATTTTACCCCCG
1 TTTTACCCCCGACTTACAGAATTACCATTTTACCCCCG
* ** *
83957510 TTTTACCCTCGACTTACAGAATTACTGTTTTACCCTCG
1 TTTTACCCCCGACTTACAGAATTACCATTTTACCCCCG
*
83957548 ATTTAC
1 TTTTAC
83957554 AGAAGTACCG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.23, C:0.29, G:0.07, T:0.40
Consensus pattern (38 bp):
TTTTACCCCCGACTTACAGAATTACCATTTTACCCCCG
Found at i:83957539 original size:27 final size:27
Alignment explanation
Indices: 83957509--83957616 Score: 153
Period size: 27 Copynumber: 4.0 Consensus size: 27
83957499 TTTTACCCCC
*
83957509 GTTTTACCCTCGACTTACAGAATTACT
1 GTTTTACCCTCGATTTACAGAATTACT
* *
83957536 GTTTTACCCTCGATTTACAGAAGTACC
1 GTTTTACCCTCGATTTACAGAATTACT
* *
83957563 GTTTTACCCTTGATTTATAGAATTACT
1 GTTTTACCCTCGATTTACAGAATTACT
* *
83957590 ATTTTACCCTCGATTTACAAAATTACT
1 GTTTTACCCTCGATTTACAGAATTACT
83957617 AGAATACCCT
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (27 bp):
GTTTTACCCTCGATTTACAGAATTACT
Found at i:83957552 original size:65 final size:65
Alignment explanation
Indices: 83957448--83957571 Score: 167
Period size: 65 Copynumber: 1.9 Consensus size: 65
83957438 ATTACCAAAG
* * * *
83957448 TACCCCCGATTTACAGAATTACCATTTTACCCCCGATTTATATAATTACCATTTTACCCCCGTTT
1 TACCCCCGACTTACAGAATTACCATTTTACCCCCGATTTACAGAAGTACCATTTTACCCCCGTTT
* ** * *
83957513 TACCCTCGACTTACAGAATTACTGTTTTACCCTCGATTTACAGAAGTACCGTTTTACCC
1 TACCCCCGACTTACAGAATTACCATTTTACCCCCGATTTACAGAAGTACCATTTTACCC
83957572 TTGATTTATA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
65 50 1.00
ACGTcount: A:0.26, C:0.30, G:0.09, T:0.35
Consensus pattern (65 bp):
TACCCCCGACTTACAGAATTACCATTTTACCCCCGATTTACAGAAGTACCATTTTACCCCCGTTT
Found at i:83957624 original size:27 final size:27
Alignment explanation
Indices: 83957567--83957786 Score: 169
Period size: 27 Copynumber: 8.2 Consensus size: 27
83957557 AGTACCGTTT
* * * ***
83957567 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTGTAAAATTACTAAAA
** *
83957594 TACCCTCGATTTACAAAATTACTAGAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* * *
83957621 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* *
83957647 TACCCTTGGTTTGTAAAATTAC-AGAAA
1 TACCCTCGATTTGTAAAATTACTA-AAA
* *
83957674 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
* *
83957701 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACTAAAA
* * **
83957728 TACCACTAG-TTTGTGAAATTACCGAAA
1 TACC-CTCGATTTGTAAAATTACTAAAA
* *
83957755 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACTAAAA
83957782 TACCC
1 TACCC
83957787 CTAATTTACA
Statistics
Matches: 159, Mismatches: 27, Indels: 14
0.80 0.14 0.07
Matches are distributed among these distances:
26 25 0.16
27 132 0.83
28 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACTAAAA
Found at i:83957740 original size:81 final size:81
Alignment explanation
Indices: 83957594--83957841 Score: 284
Period size: 81 Copynumber: 3.0 Consensus size: 81
83957584 ATTACTATTT
* ** * * * * * *
83957594 TACCCTCGATTTACAAAATTACTAGAATA-CCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACAAAAATACCCTTAGTT
83957658 TGTAAAATTACAGAAA
66 TGTAAAATTACAGAAA
*
83957674 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCAC-TAGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACAAAAATACC-CTTAGT
* *
83957738 TTGTGAAATTACCGAAA
65 TTGTAAAATTACAGAAA
* ** * *
83957755 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAATTTACAAAAATACCCTTGACT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACAAAAATACCCTT-AGT
* *
83957820 TTCTAAAAATTATAGAAA
65 TTGT-AAAATTACAGAAA
83957838 TACC
1 TACC
83957842 ATTAGTTTAC
Statistics
Matches: 142, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
80 25 0.18
81 97 0.68
82 6 0.04
83 14 0.10
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACAAAAATACCCTTAGTT
TGTAAAATTACAGAAA
Found at i:83957876 original size:27 final size:27
Alignment explanation
Indices: 83957608--83957898 Score: 230
Period size: 27 Copynumber: 10.7 Consensus size: 27
83957598 CTCGATTTAC
* * *
83957608 AAAATTACTAGAATACCC-TAGTCTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* * *
83957634 AAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* *
83957661 AAAATTA-CAGAAATACCCTCAATTTGT
1 AAAATTACCA-AAATACCCTTAGTTTGT
*
83957688 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
83957715 AAAATTACCAAAATACCAC-TAGTTTGT
1 AAAATTACCAAAATACC-CTTAGTTTGT
* * * *
83957742 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* * **
83957769 AAAATTACCAAAATACCCCTAATTTAC
1 AAAATTACCAAAATACCCTTAGTTTGT
* * * *
83957796 AAATTTACAAAAATACCCTTGACTTTCT
1 AAAATTACCAAAATACCCTT-AGTTTGT
* * **
83957824 AAAAATTA-TAGAAATACCATTAGTTTAC
1 -AAAATTACCA-AAATACCCTTAGTTTGT
** *
83957852 AAAATTACTGAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* * *
83957879 AGATTTACCAAAACACCCTT
1 AAAATTACCAAAATACCCTT
83957899 GTAGGATGAA
Statistics
Matches: 212, Mismatches: 44, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
26 18 0.08
27 166 0.78
28 13 0.06
29 15 0.07
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTAGTTTGT
Found at i:83959263 original size:20 final size:20
Alignment explanation
Indices: 83959238--83959308 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
83959228 ATTTTGATAA
*
83959238 ACATGATATCTATGATATGC
1 ACATGATATGTATGATATGC
*
83959258 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
83959278 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
83959298 ATATGAGATGT
1 ACATGATATGT
83959309 TCATAAATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:83959485 original size:24 final size:25
Alignment explanation
Indices: 83959355--83959497 Score: 211
Period size: 25 Copynumber: 5.8 Consensus size: 25
83959345 AGGAAGTGCA
*
83959355 AAAGGGCTTATGCCCTAGTTAT--T
1 AAAGGGCTTATGCCCCAGTTATGAT
83959378 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
83959403 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
83959428 GAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
83959453 AAAGGGCTTATGCCCTAGTTAT-AA
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
83959477 AAAGGGCTTTTGCCCTAGTTA
1 AAAGGGCTTATGCCCCAGTTA
83959498 CTAAAAGAGG
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
23 21 0.19
24 21 0.19
25 70 0.62
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:83959509 original size:25 final size:24
Alignment explanation
Indices: 83959354--83959523 Score: 193
Period size: 25 Copynumber: 7.0 Consensus size: 24
83959344 GAGGAAGTGC
*
83959354 AAAAGGGCTTATGCCCTAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATG
*
83959377 TAAAGGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATG
83959401 ATAAAGGGCTTATGCCCCAGTTATG
1 A-AAAGGGCTTATGCCCCAGTTATG
*
83959426 ATGAAGGGCTTATGCCCCAGTTATG
1 A-AAAGGGCTTATGCCCCAGTTATG
* *
83959451 ATAAAGGGCTTATGCCCTAGTTATA
1 A-AAAGGGCTTATGCCCCAGTTATG
* *
83959476 AAAAGGGCTTTTGCCCTAGTTACT-
1 AAAAGGGCTTATGCCCCAGTTA-TG
*
83959500 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
83959524 ATGATAAAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
23 21 0.16
24 30 0.23
25 80 0.61
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATG
Found at i:83962428 original size:27 final size:26
Alignment explanation
Indices: 83962379--83962477 Score: 90
Period size: 27 Copynumber: 3.7 Consensus size: 26
83962369 TTAGAAGACT
* *
83962379 TTAGTTTACTAAAATTACCGAAATACGC
1 TTAGTTT-GTAAAATTACTGAAATAC-C
*
83962407 TTAGTTTGTAAAAATACTGAAATACC
1 TTAGTTTGTAAAATTACTGAAATACC
* * *
83962433 CTCGATTTGTAAAATTACTGAAGTACC
1 TTAG-TTTGTAAAATTACTGAAATACC
* *
83962460 TTCGACTTGTAAAATTAC
1 TTAG-TTTGTAAAATTAC
83962478 CAAAGTACCC
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.05
27 51 0.84
28 7 0.11
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.34
Consensus pattern (26 bp):
TTAGTTTGTAAAATTACTGAAATACC
Found at i:83962483 original size:27 final size:27
Alignment explanation
Indices: 83962412--83962487 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
83962402 TACGCTTAGT
* * *
83962412 TTGTAAAAATACTGAAA-TACCCTCGAT
1 TTGTAAAATTAC-CAAAGTACCCTCGAC
** *
83962439 TTGTAAAATTACTGAAGTACCTTCGAC
1 TTGTAAAATTACCAAAGTACCCTCGAC
83962466 TTGTAAAATTACCAAAGTACCC
1 TTGTAAAATTACCAAAGTACCC
83962488 CCGATTTACA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 2 0.05
27 38 0.95
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (27 bp):
TTGTAAAATTACCAAAGTACCCTCGAC
Found at i:83962651 original size:27 final size:27
Alignment explanation
Indices: 83962518--83962640 Score: 167
Period size: 27 Copynumber: 4.6 Consensus size: 27
83962508 TTTACCCCCA
* *
83962518 TTTTACCCTTGACTTACAGAATTACCG
1 TTTTACCCTTGATTTACAGAATTACTG
* * *
83962545 TTTTACCCTCGATTTACAGAAGTACCG
1 TTTTACCCTTGATTTACAGAATTACTG
* *
83962572 TTTTACCCTTGATTTATAGAATTATTG
1 TTTTACCCTTGATTTACAGAATTACTG
83962599 TTTTACCCTTGATTTACAGAATTACTG
1 TTTTACCCTTGATTTACAGAATTACTG
83962626 TTTTA-CCTTCGATTT
1 TTTTACCCTT-GATTT
83962641 TCAAATTTAC
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 4 0.05
27 81 0.95
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.44
Consensus pattern (27 bp):
TTTTACCCTTGATTTACAGAATTACTG
Found at i:83962686 original size:26 final size:26
Alignment explanation
Indices: 83962654--83962820 Score: 192
Period size: 27 Copynumber: 6.3 Consensus size: 26
83962644 AATTTACTAG
* * *
83962654 AATACCCTAGTCTGTAAAATTGCTAA
1 AATACCCTAGTTTGTAAAATTACCAA
*
83962680 AATACCCTTGGTTTGTAAAATTA-CAGA
1 AATACCC-TAGTTTGTAAAATTACCA-A
*
83962707 AATACCCTCAATTTGTAAAATTACCAA
1 AATACCCT-AGTTTGTAAAATTACCAA
83962734 AATACCCTAGTTTGTAAAATTACCAA
1 AATACCCTAGTTTGTAAAATTACCAA
* * * *
83962760 AATACCACTGGTTTATGAAATTACCGA
1 AATACC-CTAGTTTGTAAAATTACCAA
*
83962787 AATACCCTCAATTTGTAAAATTACCAA
1 AATACCCT-AGTTTGTAAAATTACCAA
83962814 AATACCC
1 AATACCC
83962821 CTGATTTACA
Statistics
Matches: 119, Mismatches: 16, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
26 34 0.29
27 83 0.70
28 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (26 bp):
AATACCCTAGTTTGTAAAATTACCAA
Found at i:83962738 original size:80 final size:80
Alignment explanation
Indices: 83962654--83962820 Score: 264
Period size: 80 Copynumber: 2.1 Consensus size: 80
83962644 AATTTACTAG
* * *
83962654 AATACCCTAGTCTGTAAAATTGCTAAAATACC-CTTGGTTTGTAAAATTACAGAAATACCCTCAA
1 AATACCCTAGTCTGTAAAATTACCAAAATACCAC-TGGTTTATAAAATTACAGAAATACCCTCAA
83962718 TTTGTAAAATTACCAA
65 TTTGTAAAATTACCAA
* * *
83962734 AATACCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTATGAAATTACCGAAATACCCTCAAT
1 AATACCCTAGTCTGTAAAATTACCAAAATACCACTGGTTTATAAAATTACAGAAATACCCTCAAT
83962799 TTGTAAAATTACCAA
66 TTGTAAAATTACCAA
83962814 AATACCC
1 AATACCC
83962821 CTGATTTACA
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
80 79 0.99
81 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (80 bp):
AATACCCTAGTCTGTAAAATTACCAAAATACCACTGGTTTATAAAATTACAGAAATACCCTCAAT
TTGTAAAATTACCAA
Found at i:83962818 original size:54 final size:52
Alignment explanation
Indices: 83962723--83962904 Score: 177
Period size: 54 Copynumber: 3.4 Consensus size: 52
83962713 CTCAATTTGT
* *
83962723 AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTA
1 AAAATTACCGAAATACCCTAATTTGTAAAATTACCAAAATACCACTGGTTTA
* * *
83962775 TGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTA
1 -AAAATTACCGAAATACCCT-AATTTGTAAAATTACCAAAATACCACTGGTTTA
* * * * * *
83962829 CAAAGTTACAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTA
1 -AAAATTACCGAAATACCC-T-AATTTGT-AAAATTACCA-AAATACCACTGGTTTA
*
83962885 CAAAATTACTGAAATACCCT
1 -AAAATTACCGAAATACCCT
83962905 TGGTTTGTAG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
53 17 0.16
54 45 0.42
55 8 0.07
56 37 0.35
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (52 bp):
AAAATTACCGAAATACCCTAATTTGTAAAATTACCAAAATACCACTGGTTTA
Found at i:83962837 original size:27 final size:26
Alignment explanation
Indices: 83962722--83962847 Score: 93
Period size: 27 Copynumber: 4.7 Consensus size: 26
83962712 CCTCAATTTG
*
83962722 TAAAATTACCAAAATA-CCCTAGTTT
1 TAAAATTACCAAAATACCCCTAGATT
* *
83962747 GTAAAATTACCAAAATACCACT-GGTT
1 -TAAAATTACCAAAATACCCCTAGATT
*
83962773 TATGAAATTACCGAAATA-CCCTCA-ATTT
1 TA--AAATTACCAAAATACCCCT-AGA-TT
83962801 GTAAAATTACCAAAATACCCCT-GATT
1 -TAAAATTACCAAAATACCCCTAGATT
83962827 TACAAAGTTA-CAGAAATACCC
1 TA-AAA-TTACCA-AAATACCC
83962848 TTGACTTTCT
Statistics
Matches: 82, Mismatches: 6, Indels: 23
0.74 0.05 0.21
Matches are distributed among these distances:
25 4 0.05
26 29 0.35
27 41 0.50
28 6 0.07
29 2 0.02
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (26 bp):
TAAAATTACCAAAATACCCCTAGATT
Found at i:83962898 original size:27 final size:27
Alignment explanation
Indices: 83962859--83962910 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
83962849 TGACTTTCTA
83962859 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
83962886 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
83962911 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:83963028 original size:27 final size:27
Alignment explanation
Indices: 83962951--83963028 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
83962941 AAATGACTAA
* *
83962951 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
83962978 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
83963005 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
83963029 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:83964235 original size:25 final size:25
Alignment explanation
Indices: 83964188--83964235 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
83964178 TTATAATATG
* * *
83964188 AAAATGACCATTTTGCCCTTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
83964213 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
83964236 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:83964297 original size:20 final size:20
Alignment explanation
Indices: 83964272--83964329 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
83964262 ATTTTGATAA
83964272 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
83964292 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
83964312 ACATGATATGTATGATAT
1 ACATGATATGTATGATAT
83964330 ACACGTGAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:83964418 original size:25 final size:25
Alignment explanation
Indices: 83964389--83964483 Score: 138
Period size: 25 Copynumber: 3.8 Consensus size: 25
83964379 AGGAAGTGCA
83964389 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
* * *
83964414 GAAGGGCTTATACCCCAGTCATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
83964439 AAAGGGCTTATGCCCCAGTTAT-AA
1 AAAGGGCTTATGCCCCAGTTATGAT
*
83964463 AAAGGGCTTTTGCCCCAGTTA
1 AAAGGGCTTATGCCCCAGTTA
83964484 CTAAAAGAGG
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
24 21 0.34
25 41 0.66
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:83964471 original size:24 final size:24
Alignment explanation
Indices: 83964388--83964510 Score: 124
Period size: 25 Copynumber: 5.0 Consensus size: 24
83964378 GAGGAAGTGC
83964388 AAAAGGGCTTATGCCCCAGTTATGA
1 AAAAGGGCTTATGCCCCAGTTAT-A
** * *
83964413 TGAAGGGCTTATACCCCAGTCATGA
1 AAAAGGGCTTATGCCCCAGTTAT-A
*
83964438 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATA
*
83964462 AAAAGGGCTTTTGCCCCAGTTACT-
1 AAAAGGGCTTATGCCCCAGTTA-TA
*
83964486 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
83964511 TGATAAAGCA
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
24 31 0.37
25 52 0.63
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATA
Found at i:83968101 original size:43 final size:44
Alignment explanation
Indices: 83968053--83968219 Score: 155
Period size: 43 Copynumber: 3.9 Consensus size: 44
83968043 CAAGATGAGA
* *
83968053 TTACATGTAAGACCATGTCTGGGCCATTGGCATTGTAT-TGTGT
1 TTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATGTGT
* * *
83968096 TTACATGTAAGAACATGTCAGGGACATTGGCATCGTTATATG-AT
1 TTACATGTAAGACCATGTCTGGGACATTGGCATCG-TATATGTGT
* * * * *
83968140 TT-CGTGTAAGACCACGTCTGGGACGTTGGCATCG-ATATATGA
1 TTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATGTGT
* * * *
83968182 TAACATGTAAAGACCATATCTGGGATA-TGGCATTGTAT
1 TTACATGT-AAGACCATGTCTGGGACATTGGCATCGTAT
83968220 GAGCTCTACT
Statistics
Matches: 98, Mismatches: 20, Indels: 11
0.76 0.16 0.09
Matches are distributed among these distances:
41 4 0.04
42 1 0.01
43 69 0.70
44 22 0.22
45 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (44 bp):
TTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATGTGT
Found at i:83973598 original size:15 final size:15
Alignment explanation
Indices: 83973580--83973609 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
83973570 AACTAGGAAG
83973580 TTAGTGAAAATGATC
1 TTAGTGAAAATGATC
83973595 TTAGTGAAAATGATC
1 TTAGTGAAAATGATC
83973610 AGTTCAGATA
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:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (15 bp):
TTAGTGAAAATGATC
Found at i:83973959 original size:40 final size:40
Alignment explanation
Indices: 83973903--83974080 Score: 275
Period size: 41 Copynumber: 4.4 Consensus size: 40
83973893 CGTTTTAGTA
*
83973903 AAAAGCGCCGCGAAAAACAGAGCATTAGCGGCGCTTTTGGC
1 AAAA-CGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGC
83973944 AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGC
1 AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGC
* * * *
83973984 AAAACGTCGCTAAAATCCAGAGAATTAGCGGCGCTTTTAGC
1 AAAACGCCGCTAAAA-ACAGAGCATTAGCGGCGCTTTTGGC
*
83974025 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGAC
1 AAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGCTTTTGGC
83974066 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
83974081 GTCATATAAC
Statistics
Matches: 125, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
40 49 0.39
41 76 0.61
ACGTcount: A:0.35, C:0.25, G:0.24, T:0.17
Consensus pattern (40 bp):
AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGC
Found at i:83974005 original size:81 final size:82
Alignment explanation
Indices: 83973873--83974080 Score: 280
Period size: 81 Copynumber: 2.5 Consensus size: 82
83973863 CAAAAATTGT
* * * * *
83973873 AAAACTCATAGCAATAGCGGCG-TTTTAGTA-AAAAGCGCCGCGAAAA-ACAGAGCATTAGCGGC
1 AAAAC-CAGAGCATTAGCGGCGCTTTT-G-ACAAAA-CGCCGCTAAAATCCAGAGAATTAGCGGC
*
83973935 GCTTTTGGCAAAACGCCGCTA
62 GCTTTTAGCAAAACGCCGCTA
* *
83973956 AAAA-CAGAGCATTAGCGGCGCTTTTGGCAAAACGTCGCTAAAATCCAGAGAATTAGCGGCGCTT
1 AAAACCAGAGCATTAGCGGCGCTTTTGACAAAACGCCGCTAAAATCCAGAGAATTAGCGGCGCTT
83974020 TTAGCAAAACGCCGCTA
66 TTAGCAAAACGCCGCTA
83974037 AAAACCAGAGCATTAGCGGCGCTTTTGACAAAACGCCGCTAAAA
1 AAAACCAGAGCATTAGCGGCGCTTTTGACAAAACGCCGCTAAAA
83974081 GTCATATAAC
Statistics
Matches: 111, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
80 9 0.08
81 57 0.51
82 41 0.37
83 4 0.04
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (82 bp):
AAAACCAGAGCATTAGCGGCGCTTTTGACAAAACGCCGCTAAAATCCAGAGAATTAGCGGCGCTT
TTAGCAAAACGCCGCTA
Found at i:83974250 original size:7 final size:7
Alignment explanation
Indices: 83974238--83974328 Score: 56
Period size: 7 Copynumber: 12.4 Consensus size: 7
83974228 TTAATTATCA
83974238 TTATGGT
1 TTATGGT
83974245 TTATGGT
1 TTATGGT
* *
83974252 TTAAGAT
1 TTATGGT
*
83974259 ATATGGT
1 TTATGGT
*
83974266 TTAGGGT
1 TTATGGT
*
83974273 TTAAGGT
1 TTATGGT
83974280 TTATGAGT
1 TTATG-GT
83974288 TAACTATGGT
1 T---TATGGT
* *
83974298 TTAAGAT
1 TTATGGT
*
83974305 ATATGGT
1 TTATGGT
*
83974312 TTAGGGT
1 TTATGGT
*
83974319 TTAAGGT
1 TTATGGT
83974326 TTA
1 TTA
83974329 GGAGTTAACT
Statistics
Matches: 63, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
7 53 0.84
8 3 0.05
10 3 0.05
11 4 0.06
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.46
Consensus pattern (7 bp):
TTATGGT
Found at i:83974263 original size:21 final size:21
Alignment explanation
Indices: 83974239--83974323 Score: 98
Period size: 21 Copynumber: 3.9 Consensus size: 21
83974229 TAATTATCAT
*
83974239 TATGGTTTATGGTTTAAGATA
1 TATGGTTTAGGGTTTAAGATA
* *
83974260 TATGGTTTAGGGTTTAAGGTT
1 TATGGTTTAGGGTTTAAGATA
*
83974281 TATGAGTTAACTATGGTTTAAGATA
1 TATG-GTT---TAGGGTTTAAGATA
83974306 TATGGTTTAGGGTTTAAG
1 TATGGTTTAGGGTTTAAG
83974324 GTTTAGGAGT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
21 32 0.60
22 3 0.06
24 3 0.06
25 15 0.28
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (21 bp):
TATGGTTTAGGGTTTAAGATA
Done.