Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 99 of 276
Found at i:31299330 original size:13 final size:13
Alignment explanation
Indices: 31299312--31299337 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31299302 AATGGGTCAG
31299312 GCTGGTTTGAAGT
1 GCTGGTTTGAAGT
31299325 GCTGGTTTGAAGT
1 GCTGGTTTGAAGT
31299338 ACAAAAAATA
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:0.15, C:0.08, G:0.38, T:0.38
Consensus pattern (13 bp):
GCTGGTTTGAAGT
Found at i:31299609 original size:10 final size:10
Alignment explanation
Indices: 31299591--31299623 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
31299581 TTGAATTTTA
31299591 ATATTTTATT
1 ATATTTTATT
*
31299601 ATATATTATT
1 ATATTTTATT
31299611 ATATTTTATT
1 ATATTTTATT
31299621 ATA
1 ATA
31299624 CCAATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
ATATTTTATT
Found at i:31299937 original size:63 final size:62
Alignment explanation
Indices: 31299808--31299987 Score: 299
Period size: 63 Copynumber: 2.9 Consensus size: 62
31299798 ATATTTCTAT
* * *
31299808 ATTTTTAATAAATTTATTTATTGATAT-AATGTCTCATCTAATATATAAATATTTCTATCACG
1 ATTTTTAATAAATTTATTTATTAATATAAATGTC-CATCTAATATACAAATATTTCTATCACA
31299870 ATTTTTAATAAATTTATTTATTAATATAATATGTCCATCTAATATACAAATATTTCTATCACA
1 ATTTTTAATAAATTTATTTATTAATATAA-ATGTCCATCTAATATACAAATATTTCTATCACA
31299933 ATTTTTAATAAATTTATTTATTAATATAAATGTCCCATCTAATATACAAATATTT
1 ATTTTTAATAAATTTATTTATTAATATAAATGT-CCATCTAATATACAAATATTT
31299988 AATAAAATAT
Statistics
Matches: 112, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
62 30 0.27
63 77 0.69
64 5 0.04
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (62 bp):
ATTTTTAATAAATTTATTTATTAATATAAATGTCCATCTAATATACAAATATTTCTATCACA
Found at i:31300062 original size:24 final size:24
Alignment explanation
Indices: 31300035--31300105 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
31300025 ATTATTATTG
*
31300035 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
* *
31300059 AAATATTATTGTCAGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
31300083 AAATATTATCGTCCGTTTTATCA
1 AAATATTATCGTCCGTTTTATCA
31300106 TTTAAGTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:31300311 original size:29 final size:29
Alignment explanation
Indices: 31300279--31300352 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
31300269 AACAACATGT
* *
31300279 ATATTATTTAATTAAAATAATTTTTTTCA
1 ATATTATTTAATTAAAATAATTTTTATAA
31300308 ATATTATTTAATTAAAATAATTTTTATAA
1 ATATTATTTAATTAAAATAATTTTTATAA
31300337 ATATTATTTAATTAAA
1 ATATTATTTAATTAAA
31300353 TATTATTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (29 bp):
ATATTATTTAATTAAAATAATTTTTATAA
Found at i:31300352 original size:15 final size:15
Alignment explanation
Indices: 31300279--31300364 Score: 90
Period size: 15 Copynumber: 5.9 Consensus size: 15
31300269 AACAACATGT
31300279 ATATTATTTAATTAA
1 ATATTATTTAATTAA
* ** *
31300294 A-ATAATTTTTTTCA
1 ATATTATTTAATTAA
31300308 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
31300324 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
31300337 ATATTATTTAATTAA
1 ATATTATTTAATTAA
31300352 ATATTATTTAATT
1 ATATTATTTAATT
31300365 TGCAACTTAC
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
12 3 0.05
13 7 0.12
14 12 0.21
15 26 0.46
16 6 0.11
17 3 0.05
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:31300506 original size:9 final size:9
Alignment explanation
Indices: 31300476--31300841 Score: 370
Period size: 9 Copynumber: 41.4 Consensus size: 9
31300466 AATATTTAAC
*
31300476 ATAACTTAC
1 ATAACTTAT
* *
31300485 AAAACTTAC
1 ATAACTTAT
31300494 ATAACTTAT
1 ATAACTTAT
*
31300503 ATAACTTAG
1 ATAACTTAT
*
31300512 ATAA-ATAT
1 ATAACTTAT
31300520 ATAACTTAT
1 ATAACTTAT
*
31300529 ATAACTTAC
1 ATAACTTAT
31300538 ATAACTTAT
1 ATAACTTAT
31300547 ATAACTTAT
1 ATAACTTAT
*
31300556 ATAACTTAG
1 ATAACTTAT
*
31300565 ATAA-ATAT
1 ATAACTTAT
31300573 ATAACTTAT
1 ATAACTTAT
*
31300582 ATAACTTAC
1 ATAACTTAT
31300591 ATAACTTAT
1 ATAACTTAT
*
31300600 ATAACTTAG
1 ATAACTTAT
*
31300609 ATAA-ATAT
1 ATAACTTAT
*
31300617 ATAACTTAC
1 ATAACTTAT
*
31300626 ATAACTTAC
1 ATAACTTAT
31300635 ATAACTTAT
1 ATAACTTAT
*
31300644 ATAACTTAG
1 ATAACTTAT
*
31300653 ATAA-ATAT
1 ATAACTTAT
*
31300661 ATAACTTAC
1 ATAACTTAT
*
31300670 ATAACTTAC
1 ATAACTTAT
31300679 ATAACTTAT
1 ATAACTTAT
*
31300688 ATAACTTAG
1 ATAACTTAT
*
31300697 ATAA-ATAT
1 ATAACTTAT
*
31300705 ATAACTTAC
1 ATAACTTAT
*
31300714 ATAACTTAC
1 ATAACTTAT
31300723 ATAACTTAT
1 ATAACTTAT
*
31300732 ATAACTTAG
1 ATAACTTAT
*
31300741 ATAA-ATAT
1 ATAACTTAT
*
31300749 ATAACTTAC
1 ATAACTTAT
*
31300758 ATAACTTAC
1 ATAACTTAT
31300767 ATAACTTAT
1 ATAACTTAT
*
31300776 ATAACTTAG
1 ATAACTTAT
*
31300785 ATAA-ATAT
1 ATAACTTAT
*
31300793 ATAACTTAC
1 ATAACTTAT
*
31300802 ATAA-ATAT
1 ATAACTTAT
* *
31300810 ATATCATAT
1 ATAACTTAT
*
31300819 CATAACTTAC
1 -ATAACTTAT
*
31300829 ATAACTTAC
1 ATAACTTAT
31300838 ATAA
1 ATAA
31300842 TACTTAAATA
Statistics
Matches: 298, Mismatches: 50, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
8 47 0.16
9 245 0.82
10 6 0.02
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (9 bp):
ATAACTTAT
Found at i:31300827 original size:44 final size:44
Alignment explanation
Indices: 31300487--31300805 Score: 559
Period size: 44 Copynumber: 7.2 Consensus size: 44
31300477 TAACTTACAA
* * * * *
31300487 AACTTACATAACTTATATAACTTAGATAA-ATATATAACTTATAT
1 AACTTACATAACTTACATAACTTATATAACTTAGATAA-ATATAT
*
31300531 AACTTACATAACTTATATAACTTATATAACTTAGATAAATATAT
1 AACTTACATAACTTACATAACTTATATAACTTAGATAAATATAT
*
31300575 AACTTATATAACTTACATAACTTATATAACTTAGATAAATATAT
1 AACTTACATAACTTACATAACTTATATAACTTAGATAAATATAT
31300619 AACTTACATAACTTACATAACTTATATAACTTAGATAAATATAT
1 AACTTACATAACTTACATAACTTATATAACTTAGATAAATATAT
31300663 AACTTACATAACTTACATAACTTATATAACTTAGATAAATATAT
1 AACTTACATAACTTACATAACTTATATAACTTAGATAAATATAT
31300707 AACTTACATAACTTACATAACTTATATAACTTAGATAAATATAT
1 AACTTACATAACTTACATAACTTATATAACTTAGATAAATATAT
31300751 AACTTACATAACTTACATAACTTATATAACTTAGATAAATATAT
1 AACTTACATAACTTACATAACTTATATAACTTAGATAAATATAT
31300795 AACTTACATAA
1 AACTTACATAA
31300806 ATATATATCA
Statistics
Matches: 267, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
44 261 0.98
45 6 0.02
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (44 bp):
AACTTACATAACTTACATAACTTATATAACTTAGATAAATATAT
Found at i:31302728 original size:12 final size:12
Alignment explanation
Indices: 31302711--31302735 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31302701 AAGATCGAGG
31302711 GATGAATCTGAT
1 GATGAATCTGAT
31302723 GATGAATCTGAT
1 GATGAATCTGAT
31302735 G
1 G
31302736 GAGAGGATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:31307201 original size:29 final size:29
Alignment explanation
Indices: 31307167--31307240 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
31307157 TAATCAACCG
*
31307167 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
31307196 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
31307225 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
31307241 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:31315343 original size:29 final size:29
Alignment explanation
Indices: 31315309--31315382 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
31315299 TAATCAACCG
*
31315309 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
31315338 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
31315367 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
31315383 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:31317522 original size:39 final size:40
Alignment explanation
Indices: 31317460--31317607 Score: 219
Period size: 40 Copynumber: 3.7 Consensus size: 40
31317450 TATTCGGATG
* * *
31317460 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
31317500 A-ATTCCAGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
31317539 ATAACCAGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
31317579 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCAGGCTAAGTCCCGAAGGCATTTG
31317608 AGCAAGTAGT
Statistics
Matches: 97, Mismatches: 8, Indels: 6
0.87 0.07 0.05
Matches are distributed among these distances:
39 34 0.35
40 63 0.65
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATAACCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:31317591 original size:79 final size:80
Alignment explanation
Indices: 31317460--31317607 Score: 219
Period size: 79 Copynumber: 1.9 Consensus size: 80
31317450 TATTCGGATG
* * * *
31317460 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCAGGCTAAG-CCCGAAGGCA
1 ATAACCAGGCTAAATCCCGAAGGCATTTGTGCGAGTGACTAATACCAGGCTAAGTCCCGAAGGCA
31317524 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
* *
31317539 ATAACCAGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCAGGCTAAATCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCAGGCTAAGTCCCGAAGGC
31317603 ATTTG
65 ATTTG
31317608 AGCAAGTAGT
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
78 2 0.03
79 45 0.74
80 14 0.23
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (80 bp):
ATAACCAGGCTAAATCCCGAAGGCATTTGTGCGAGTGACTAATACCAGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:31317629 original size:79 final size:79
Alignment explanation
Indices: 31317460--31317640 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 79
31317450 TATTCGGATG
* * * *
31317460 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCAGGCTAAGCCCGAAGGCAT
1 ATAACCAGGCTAAATCCCGAAGGCATTTGTGCGAGTGACTAATACCAGGCTAAGCCCGAAGGCAT
* *
31317525 TTGTGCGAGTTACT
66 TTGAGCAAGTTACT
* *
31317539 ATAACCAGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCAGGCTAAATCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCAGGCTAAG-CCCGAAGGC
*
31317603 ATTTGAGCAAG-TAGTT
64 ATTTGAGCAAGTTA-CT
* *
31317619 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCAGGCTAAATCCCGAAGG
31317641 TACTTGGTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
78 2 0.02
79 62 0.70
80 24 0.27
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.24
Consensus pattern (79 bp):
ATAACCAGGCTAAATCCCGAAGGCATTTGTGCGAGTGACTAATACCAGGCTAAGCCCGAAGGCAT
TTGAGCAAGTTACT
Found at i:31320513 original size:13 final size:14
Alignment explanation
Indices: 31320497--31320525 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31320487 TTCTAAATAT
31320497 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
31320510 TTATAATTGTTTAA
1 TTATAATTGTTTAA
31320524 TT
1 TT
31320526 CAATTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:31321014 original size:21 final size:21
Alignment explanation
Indices: 31320940--31321015 Score: 91
Period size: 21 Copynumber: 3.6 Consensus size: 21
31320930 ACTTAGAGCG
* *
31320940 GAGGCAGTAGAGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
* *
31320961 GCGGCAGCAGCAAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
*
31320982 GAGGCA-CGAGCGAGGGAGGTA
1 GAGGCAGC-AGCGAGGGAGGCA
31321003 GAGGCAGCAGCGA
1 GAGGCAGCAGCGA
31321016 TGGCAGCAGA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
20 1 0.02
21 44 0.96
22 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.50, T:0.03
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:31321297 original size:33 final size:33
Alignment explanation
Indices: 31321247--31321328 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 33
31321237 TTAGAATTAA
* *
31321247 TGTTTTTGGTTGTATTTTTTATGCTAAATTTGT
1 TGTTTTTGGTTGCATTTTTTATACTAAATTTGT
* *
31321280 TGTTTTTGGCTGCA--TTTTATACTATATTTGT
1 TGTTTTTGGTTGCATTTTTTATACTAAATTTGT
* *
31321311 TGTATTTGGTTGGATTTT
1 TGTTTTTGGTTGCATTTT
31321329 AATGCAAGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.15, C:0.05, G:0.20, T:0.61
Consensus pattern (33 bp):
TGTTTTTGGTTGCATTTTTTATACTAAATTTGT
Found at i:31321423 original size:17 final size:17
Alignment explanation
Indices: 31321401--31321433 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31321391 TTTGTGGGAG
*
31321401 GCTTTTAGCGGCGCTTA
1 GCTTTTAGCGACGCTTA
31321418 GCTTTTAGCGACGCTT
1 GCTTTTAGCGACGCTT
31321434 TTCCCACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.24, G:0.27, T:0.36
Consensus pattern (17 bp):
GCTTTTAGCGACGCTTA
Found at i:31325619 original size:61 final size:61
Alignment explanation
Indices: 31325537--31325664 Score: 152
Period size: 61 Copynumber: 2.1 Consensus size: 61
31325527 ATCCTAAATA
** * *
31325537 TAAAAAATTCAATAAACTTAGCCCTCAATGTTTACAAAATTTGT-AATTTTAATT-TGAATTC
1 TAAAAAATTCAATAAACTTAGCCCTCAACATTTACAAAATTTATCAA-ATTAATTCT-AATTC
* * * *
31325598 TAAAAAATTCTATAAATTTAGCCGTCAACATTTATAAAATTTATCAAATTAATTCTAATTC
1 TAAAAAATTCAATAAACTTAGCCCTCAACATTTACAAAATTTATCAAATTAATTCTAATTC
31325659 TAAAAA
1 TAAAAA
31325665 TTAAAAAAGT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
61 54 0.95
62 3 0.05
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (61 bp):
TAAAAAATTCAATAAACTTAGCCCTCAACATTTACAAAATTTATCAAATTAATTCTAATTC
Found at i:31325694 original size:16 final size:16
Alignment explanation
Indices: 31325674--31325707 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
31325664 ATTAAAAAAG
*
31325674 TAAAAAACA-TATTTT
1 TAAAAAAAATTATTTT
31325689 TAAAAAAAATTATTTT
1 TAAAAAAAATTATTTT
31325705 TAA
1 TAA
31325708 CCCTTTTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
TAAAAAAAATTATTTT
Found at i:31326408 original size:60 final size:59
Alignment explanation
Indices: 31326296--31326410 Score: 135
Period size: 60 Copynumber: 1.9 Consensus size: 59
31326286 TTTTTTTGAA
* * ** *
31326296 ATTTTTATAATTAGAATTAAAATGCAAAATTTTATAAATGTTGATGGTTAAATTTATTG
1 ATTTTTAGAATTAGAACTAAAATGCAAAATTTTATAAACATTGATGGCTAAATTTATTG
*
31326355 ATTTTTAAGAATTTGAACTAAAATG-ACAAATTTTATAAACATTGA-GAGCTAAATTT
1 ATTTTT-AGAATTAGAACTAAAATGCA-AAATTTTATAAACATTGATG-GCTAAATTT
31326411 GTTTAACTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
59 8 0.17
60 39 0.83
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.42
Consensus pattern (59 bp):
ATTTTTAGAATTAGAACTAAAATGCAAAATTTTATAAACATTGATGGCTAAATTTATTG
Found at i:31328967 original size:43 final size:43
Alignment explanation
Indices: 31328817--31328968 Score: 173
Period size: 43 Copynumber: 3.5 Consensus size: 43
31328807 AAAAAAACGT
** * *
31328817 CGCTAAAGAACATGACCTTTAATGGTACTTTTTCCACAAACGC
1 CGCTAAAGAACATGACCTTTAGCGGTACTTTTCCCACAAATGC
* * * * *
31328860 CGCTAAAAAACATAACATTTAGC--CACGTTTTTCCCACAAATTC
1 CGCTAAAGAACATGACCTTTAGCGGTAC--TTTTCCCACAAATGC
*
31328903 CGTTAAAGAACATGACCTTTAGCGGTACTTTTCCCACAAATGC
1 CGCTAAAGAACATGACCTTTAGCGGTACTTTTCCCACAAATGC
*
31328946 CACTAAAGAACATGACCTTTAGC
1 CGCTAAAGAACATGACCTTTAGC
31328969 TCTAAAAGTT
Statistics
Matches: 88, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 2 0.02
43 84 0.95
45 2 0.02
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.27
Consensus pattern (43 bp):
CGCTAAAGAACATGACCTTTAGCGGTACTTTTCCCACAAATGC
Found at i:31330646 original size:19 final size:18
Alignment explanation
Indices: 31330618--31330653 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
31330608 GTTTTAAAAA
31330618 AAATTGACACTTAAACAC
1 AAATTGACACTTAAACAC
*
31330636 AAATCTGACACTTGAACA
1 AAAT-TGACACTTAAACA
31330654 ATCATTGTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.47, C:0.22, G:0.08, T:0.22
Consensus pattern (18 bp):
AAATTGACACTTAAACAC
Found at i:31331368 original size:18 final size:18
Alignment explanation
Indices: 31331345--31331380 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
31331335 ATAATTTCAT
31331345 TGGATTTACTACACCATC
1 TGGATTTACTACACCATC
31331363 TGGATTTACTACACCATC
1 TGGATTTACTACACCATC
31331381 AATAAATACC
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:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (18 bp):
TGGATTTACTACACCATC
Found at i:31332991 original size:54 final size:55
Alignment explanation
Indices: 31332928--31333032 Score: 158
Period size: 54 Copynumber: 1.9 Consensus size: 55
31332918 TTTCGGGTAT
* *
31332928 AAAATAGAAGAACATGTTGAGAAAGGCTGAGAAAGAAAAGGGAATCGGGGGAGAG
1 AAAATAGAAGAACAGGCTGAGAAAGGCTGAGAAAGAAAAGGGAATCGGGGGAGAG
* * *
31332983 AAAA-AGAAGTACAGGCTGAGAATGGCTGAGAAAGAAAAGGGAATTGGGGG
1 AAAATAGAAGAACAGGCTGAGAAAGGCTGAGAAAGAAAAGGGAATCGGGGG
31333033 GAAAGAAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
54 41 0.91
55 4 0.09
ACGTcount: A:0.46, C:0.06, G:0.37, T:0.11
Consensus pattern (55 bp):
AAAATAGAAGAACAGGCTGAGAAAGGCTGAGAAAGAAAAGGGAATCGGGGGAGAG
Found at i:31333628 original size:43 final size:41
Alignment explanation
Indices: 31333534--31333624 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 41
31333524 AACTCTAAAC
31333534 CCCTAACCCCTAAACTCTAAATCATAAAACATAAACCCTAA
1 CCCTAACCCCTAAACTCTAAATCATAAAACATAAACCCTAA
* * *
31333575 CCCTTTAACCCCTAACCTTTAAATCATAAACCAT-AACCCATAA
1 CCC--TAACCCCTAAACTCTAAATCATAAAACATAAACCC-TAA
31333618 TCCCTAA
1 -CCCTAA
31333625 ACCCATAATC
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
41 3 0.07
42 8 0.19
43 29 0.67
44 3 0.07
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (41 bp):
CCCTAACCCCTAAACTCTAAATCATAAAACATAAACCCTAA
Found at i:31333629 original size:15 final size:15
Alignment explanation
Indices: 31333599--31333642 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
31333589 ACCTTTAAAT
*
31333599 CATAAACCAT-AACC
1 CATAATCCATAAACC
*
31333613 CATAATCCCTAAACC
1 CATAATCCATAAACC
31333628 CATAATCCATAAACC
1 CATAATCCATAAACC
31333643 TTAAAATAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 8 0.31
15 18 0.69
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.18
Consensus pattern (15 bp):
CATAATCCATAAACC
Found at i:31333647 original size:22 final size:21
Alignment explanation
Indices: 31333601--31333647 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
31333591 CTTTAAATCA
*
31333601 TAAACCATAACCCATAATCCC
1 TAAACCATAACCCATAAACCC
* *
31333622 TAAACCCATAATCCATAAACCT
1 TAAA-CCATAACCCATAAACCC
31333644 TAAA
1 TAAA
31333648 ATAGTAACTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAACCATAACCCATAAACCC
Found at i:31334144 original size:40 final size:40
Alignment explanation
Indices: 31334089--31334349 Score: 205
Period size: 40 Copynumber: 6.7 Consensus size: 40
31334079 ATTTTTTGCA
*
31334089 GCGTTTTTCAAAAAGCGCCGCTAATGCTCAACCTATAGCT
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCT
* * *
31334129 GCGTTTTTCAAAAAGCACAGCTAATGCTCAATCTATAGCG
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCT
* * * *
31334169 GCGTTTTTTAAAAAACGCCACTAATGC-C-A-CTAAAGCT
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCT
**** * * ** * * * *
31334206 -C-AACAT-AAAATGACGGCG-TTGTGCTTAATTTTTTG-T
1 GCGTTTTTCAAAAAG-CGCCGCTAATGCTCAATCTATAGCT
* * * *
31334242 GTTGTTTTTCGAAAAGCGGCGCTAATGCTCAATCTATAGCG
1 G-CGTTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCT
*
31334283 GCGTTTTTCAAAAAGCGCCGCTAATGCTCAATCTATTGCT
1 GCGTTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCT
* *
31334323 GCGTTTTTCAAAAAACGCCTCTAATGC
1 GCGTTTTTCAAAAAGCGCCGCTAATGC
31334350 CACTAAAGCT
Statistics
Matches: 164, Mismatches: 47, Indels: 20
0.71 0.20 0.09
Matches are distributed among these distances:
34 8 0.05
35 4 0.02
36 3 0.02
37 8 0.05
38 1 0.01
39 7 0.04
40 132 0.80
41 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (40 bp):
GCGTTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCT
Found at i:31334464 original size:40 final size:40
Alignment explanation
Indices: 31334401--31334485 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 40
31334391 TTTTATGGCG
* *
31334401 TTTTTCAAAAAGCACCGCTAATGGTCGACCTATAGCGGCA
1 TTTTTCAAAAAGCACCACCAATGGTCGACCTATAGCGGCA
* * *
31334441 TTTTTCAAAAATCACCACCAATGGTCGACTTATAGCGGCG
1 TTTTTCAAAAAGCACCACCAATGGTCGACCTATAGCGGCA
31334481 TTTTT
1 TTTTT
31334486 TATCCAAACG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (40 bp):
TTTTTCAAAAAGCACCACCAATGGTCGACCTATAGCGGCA
Found at i:31334484 original size:155 final size:155
Alignment explanation
Indices: 31334019--31334485 Score: 588
Period size: 154 Copynumber: 3.0 Consensus size: 155
31334009 TTTTGCAGCA
* * * * *
31334019 TTTTTCAAAAAGCGTCTCTAATGCCAC-AAAGCTCAACATAAAACGATGGCGTCT-TACTAAATT
1 TTTTTCAAAAAACGCCTCTAATGCCACTAAAGCTCAACATAAAACGACGGCGT-TGTGCTTAATT
* *
31334082 TTTTGCA--GCGTTTTTCAAAAAGCGCCGCTAATGCTCAACCTATAGCTGCGTTTTTCAAAAAGC
65 TTTT-TATGGCGTTTTTCAAAAAGCGCCGCTAATGCTCAACCTATAGCGGCGTTTTTCAAAAAGC
31334145 A-CAGCTAATGCTCAATCTATAGCGGCG
129 ACCA-CTAATGCTCAATCTATAGCGGCG
* * *
31334172 TTTTTTAAAAAACGCCACTAATGCCACTAAAGCTCAACATAAAATGACGGCGTTGTGCTTAA-TT
1 TTTTTCAAAAAACGCCTCTAATGCCACTAAAGCTCAACATAAAACGACGGCGTTGTGCTTAATTT
* ** * * * *
31334236 TTTTGTGTTGTTTTTCGAAAAGCGGCGCTAATGCTCAATCTATAGCGGCGTTTTTCAAAAAGCGC
66 TTTTATGGCGTTTTTCAAAAAGCGCCGCTAATGCTCAACCTATAGCGGCGTTTTTCAAAAAGCAC
* * *
31334301 CGCTAATGCTCAATCTATTGCTGCG
131 CACTAATGCTCAATCTATAGCGGCG
*
31334326 TTTTTCAAAAAACGCCTCTAATGCCACTAAAGCTCAACATAAAACGACAGCGTTGTGCTTAATTT
1 TTTTTCAAAAAACGCCTCTAATGCCACTAAAGCTCAACATAAAACGACGGCGTTGTGCTTAATTT
* * * * *
31334391 TTTTATGGCGTTTTTCAAAAAGCACCGCTAATGGTCGACCTATAGCGGCATTTTTCAAAAATCAC
66 TTTTATGGCGTTTTTCAAAAAGCGCCGCTAATGCTCAACCTATAGCGGCGTTTTTCAAAAAGCAC
* * *
31334456 CACCAATGGTCGA-CTTATAGCGGCG
131 CACTAATGCTCAATC-TATAGCGGCG
31334481 TTTTT
1 TTTTT
31334486 TATCCAAACG
Statistics
Matches: 265, Mismatches: 42, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
153 29 0.11
154 158 0.60
155 78 0.29
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (155 bp):
TTTTTCAAAAAACGCCTCTAATGCCACTAAAGCTCAACATAAAACGACGGCGTTGTGCTTAATTT
TTTTATGGCGTTTTTCAAAAAGCGCCGCTAATGCTCAACCTATAGCGGCGTTTTTCAAAAAGCAC
CACTAATGCTCAATCTATAGCGGCG
Found at i:31334961 original size:23 final size:23
Alignment explanation
Indices: 31334886--31334985 Score: 121
Period size: 23 Copynumber: 4.3 Consensus size: 23
31334876 GCTGATAAAT
*
31334886 AGTAAGCTCTATTAAGCTGAAAAC
1 AGTAAGCTCTATTGAGCTG-AAAC
* *
31334910 AATAAGATCTATTGAGCTG-AAC
1 AGTAAGCTCTATTGAGCTGAAAC
* *
31334932 AGTAAGCTCTTTTGAGCTGAATC
1 AGTAAGCTCTATTGAGCTGAAAC
* *
31334955 AGTAAGCTATAATGAGCTGAAAC
1 AGTAAGCTCTATTGAGCTGAAAC
31334978 AGTAAGCT
1 AGTAAGCT
31334986 TTTACGAGCT
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
22 19 0.30
23 29 0.45
24 16 0.25
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (23 bp):
AGTAAGCTCTATTGAGCTGAAAC
Found at i:31334994 original size:23 final size:23
Alignment explanation
Indices: 31334922--31334996 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
31334912 TAAGATCTAT
31334922 TGAGCTG-AACAGTAAGCTCTTT-
1 TGAGCTGAAACAGTAAGCT-TTTA
* * *
31334944 TGAGCTGAATCAGTAAGCTATAA
1 TGAGCTGAAACAGTAAGCTTTTA
31334967 TGAGCTGAAACAGTAAGCTTTTA
1 TGAGCTGAAACAGTAAGCTTTTA
*
31334990 CGAGCTG
1 TGAGCTG
31334997 TGGTGAGTAC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
22 8 0.18
23 36 0.82
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTTTTA
Found at i:31344079 original size:55 final size:54
Alignment explanation
Indices: 31343952--31344356 Score: 379
Period size: 55 Copynumber: 7.6 Consensus size: 54
31343942 TTGGTAAGAT
* * * *
31343952 AAGGATATCA-GTAAGACCATGCCAAGGCAT-GCTATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGATGAGTTCTATAAGGC
* * * *
31344005 AAGGAAATCATGCAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGG-C
* * * *
31344061 AAGG-TCCCATGTAAGACCATGTCAAGACATGGCATTGGTGACTTC-ATAAGAC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
*** * **
31344113 AAGGATACCATGTAAGACCATGTTTGGAACATGACATT--TG-G-----TAAGAT
1 AAGGATACCATGTAAGACCATGTCAAG-ACATGGCATTGATGAGTTCTATAAGGC
* * * *
31344160 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
31344214 AAGGAAATCATGTAAGACCATCTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * * * *
31344269 AAAGG-TCCCATGTAAGATCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
*
31344322 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
31344357 GTGGTAAGTT
Statistics
Matches: 286, Mismatches: 49, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
46 8 0.03
47 27 0.09
48 1 0.00
49 1 0.00
52 10 0.03
53 64 0.22
54 82 0.29
55 85 0.30
56 8 0.03
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:31344242 original size:209 final size:208
Alignment explanation
Indices: 31343899--31344344 Score: 777
Period size: 209 Copynumber: 2.1 Consensus size: 208
31343889 GCATTGGCAC
*
31343899 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCAGT
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGTAAGATAAGGATATCAGT
*
31343964 AAGACCATGCCAAGGCATGCTATTGATAAGTTCTATAAGGCAAGGAAATCATGCAAGACCATGTC
66 AAGACCATGCCAAGGCATGCTATTGATAAGTTCTATAAGGCAAGGAAATCATGCAAGACCATCTC
*
31344029 AAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCCCATGTAAGACCATGTCAAGACATGGC
131 AAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCCCATGTAAGACCATGCCAAGACATGGC
31344094 ATTGGTGACTTCA
196 ATTGGTGACTTCA
31344107 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGTAAGATAAGGATATCA-G
*
31344172 TAAGACCATGCCAAGGCATGGC-ATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATC
65 TAAGACCATGCCAAGGCAT-GCTATTGATAAGTTCTATAAGGCAAGGAAATCATGCAAGACCATC
* * *
31344236 TCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGATCATGCCAAGGCATG
129 TCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCCCATGTAAGACCATGCCAAGACATG
*
31344301 GCATTGGTGAGTTCA
194 GCATTGGTGACTTCA
* *
31344316 TAAGGCAAGGATACCACGTAAGACCATGT
1 TAAGACAAGGATACCATGTAAGACCATGT
31344345 CAAGACATGG
Statistics
Matches: 226, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
208 62 0.27
209 162 0.72
210 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (208 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGGTAAGATAAGGATATCAGT
AAGACCATGCCAAGGCATGCTATTGATAAGTTCTATAAGGCAAGGAAATCATGCAAGACCATCTC
AAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCCCATGTAAGACCATGCCAAGACATGGC
ATTGGTGACTTCA
Found at i:31344308 original size:154 final size:154
Alignment explanation
Indices: 31344005--31344305 Score: 349
Period size: 155 Copynumber: 1.9 Consensus size: 154
31343995 TCTATAAGGC
* * **
31344005 AAGGAAATCATGCAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCCCA
1 AAGGAAATCATGCAAGACCATGCCAAGACATGGCATTGATAAGTTACTATAAGGAAAAGGAACCA
* *
31344070 TGTAAGACCATGTCAAGACATGGCATTGGTGACTTCATAAGACAAGGATACCATGTAAGACCATG
66 TGTAAGACCATCTCAAGACATGGCATTGATGACTTCATAAGACAAGGATACCATGTAAGACCATG
***
31344135 TTTGGAACATGACATTTGGTAAGAT
131 CAAGG-ACATGACATTTGGTAAGAT
* * * * *
31344160 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTATAAGG-CAAGGAAATC
1 AAGGAAATCATGCAAGACCATGCCAAGACATGGCATTGATAAGTTACTATAAGGAAAAGG-AACC
* * * *
31344223 ATGTAAGACCATCTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGG-TCCCATGTAAGAT
65 ATGTAAGACCATCTCAAGACATGGCATTGATGACTT-C-ATAAGAC-AAGGATACCATGTAAGAC
*
31344287 CATGCCAAGG-CATGGCATT
127 CATG-CAAGGACATGACATT
31344306 GGTGAGTTCA
Statistics
Matches: 122, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
153 4 0.03
154 42 0.34
155 49 0.40
156 21 0.17
157 6 0.05
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (154 bp):
AAGGAAATCATGCAAGACCATGCCAAGACATGGCATTGATAAGTTACTATAAGGAAAAGGAACCA
TGTAAGACCATCTCAAGACATGGCATTGATGACTTCATAAGACAAGGATACCATGTAAGACCATG
CAAGGACATGACATTTGGTAAGAT
Found at i:31348462 original size:25 final size:25
Alignment explanation
Indices: 31348434--31348482 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
31348424 CCAGAGGACC
* *
31348434 AATCATATAACTCATGATAATGATT
1 AATCACATAACTCATCATAATGATT
* *
31348459 AATCACATAATTCTTCATAATGAT
1 AATCACATAACTCATCATAATGAT
31348483 AATAATAAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (25 bp):
AATCACATAACTCATCATAATGATT
Found at i:31355003 original size:56 final size:56
Alignment explanation
Indices: 31354912--31355034 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
31354902 GAGATTGGCG
* * *
31354912 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
31354969 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
31355024 CTGAGTGTGCG
1 CTAAGTGTGCG
31355035 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:31355021 original size:27 final size:28
Alignment explanation
Indices: 31354912--31355034 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
31354902 GAGATTGGCG
* * * *
31354912 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
31354941 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
31354969 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
31354997 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
31355024 CTGAGTGTGCG
1 CTAAGTGTGCG
31355035 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:31355045 original size:27 final size:27
Alignment explanation
Indices: 31354937--31355047 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
31354927 TAAATTGTAC
* * *
31354937 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
31354965 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
31354993 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
31355020 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
31355047 A
1 A
31355048 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:31356619 original size:292 final size:292
Alignment explanation
Indices: 31356095--31356679 Score: 1170
Period size: 292 Copynumber: 2.0 Consensus size: 292
31356085 GAGATATTCA
31356095 GGTTCTCGTGAGACAGGGCCAGAACGGTTTCTGGGTTCCCTGTTCCGACTTTGGAAATTCATTAT
1 GGTTCTCGTGAGACAGGGCCAGAACGGTTTCTGGGTTCCCTGTTCCGACTTTGGAAATTCATTAT
31356160 AAATTAACCAGAGATAATTAGGAGTCATGCCATATATGTATAGATTCCTCTTTGAGTCTAGTTTC
66 AAATTAACCAGAGATAATTAGGAGTCATGCCATATATGTATAGATTCCTCTTTGAGTCTAGTTTC
31356225 TATAGAAACAAACGGCATCAGTATTTAAGCTCTGTGCAGGGATTTATCAAAATCGTAATGCATGA
131 TATAGAAACAAACGGCATCAGTATTTAAGCTCTGTGCAGGGATTTATCAAAATCGTAATGCATGA
31356290 AGGTCAGTGTAGTCGCACCCTGTAATAGGGGAGAATTTAACTAATAAACTGTACTAATTGGCCCG
196 AGGTCAGTGTAGTCGCACCCTGTAATAGGGGAGAATTTAACTAATAAACTGTACTAATTGGCCCG
31356355 ACCAAAAATTCTACAAAAATTCTACCATATAG
261 ACCAAAAATTCTACAAAAATTCTACCATATAG
31356387 GGTTCTCGTGAGACAGGGCCAGAACGGTTTCTGGGTTCCCTGTTCCGACTTTGGAAATTCATTAT
1 GGTTCTCGTGAGACAGGGCCAGAACGGTTTCTGGGTTCCCTGTTCCGACTTTGGAAATTCATTAT
31356452 AAATTAACCAGAGATAATTAGGAGTCATGCCATATATGTATAGATTCCTCTTTGAGTCTAGTTTC
66 AAATTAACCAGAGATAATTAGGAGTCATGCCATATATGTATAGATTCCTCTTTGAGTCTAGTTTC
31356517 TATAGAAACAAACGGCATCAGTATTTAAGCTCTGTGCAGGGATTTATCAAAATCGTAATGCATGA
131 TATAGAAACAAACGGCATCAGTATTTAAGCTCTGTGCAGGGATTTATCAAAATCGTAATGCATGA
31356582 AGGTCAGTGTAGTCGCACCCTGTAATAGGGGAGAATTTAACTAATAAACTGTACTAATTGGCCCG
196 AGGTCAGTGTAGTCGCACCCTGTAATAGGGGAGAATTTAACTAATAAACTGTACTAATTGGCCCG
31356647 ACCAAAAATTCTACAAAAATTCTACCATATAG
261 ACCAAAAATTCTACAAAAATTCTACCATATAG
31356679 G
1 G
31356680 TATATGAGTC
Statistics
Matches: 293, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
292 293 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (292 bp):
GGTTCTCGTGAGACAGGGCCAGAACGGTTTCTGGGTTCCCTGTTCCGACTTTGGAAATTCATTAT
AAATTAACCAGAGATAATTAGGAGTCATGCCATATATGTATAGATTCCTCTTTGAGTCTAGTTTC
TATAGAAACAAACGGCATCAGTATTTAAGCTCTGTGCAGGGATTTATCAAAATCGTAATGCATGA
AGGTCAGTGTAGTCGCACCCTGTAATAGGGGAGAATTTAACTAATAAACTGTACTAATTGGCCCG
ACCAAAAATTCTACAAAAATTCTACCATATAG
Found at i:31357210 original size:43 final size:43
Alignment explanation
Indices: 31357055--31357211 Score: 174
Period size: 43 Copynumber: 3.7 Consensus size: 43
31357045 TGTTATTTCG
* * *
31357055 TGTAAGACCACATCTGGGACGTTGGCATCGAT-TTGAGATTAACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATT-TGATT-ACA
** * *
31357099 TGTAAGACCTTGTCTGGGACATCGGCATCG-TATTTGATTTCA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACA
** * *
31357141 TGTAAGACCTTGTCTGGGACAATGGCATCGATATTTGATTACG
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACA
*
31357184 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
31357212 TGCACGAGTT
Statistics
Matches: 96, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
42 30 0.31
43 39 0.41
44 27 0.28
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTACA
Found at i:31362156 original size:40 final size:40
Alignment explanation
Indices: 31362071--31362158 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
31362061 CATTTGGATG
*
31362071 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTGATT
* *
31362111 TTATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAG-TGATT
31362151 ATATCCGG
1 ATATCCGG
31362159 TGTGACAACC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 40 0.93
41 3 0.07
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCGAGTGATT
Found at i:31363376 original size:18 final size:18
Alignment explanation
Indices: 31363334--31363376 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
31363324 GCCCATTCCG
* *
31363334 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
31363352 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
31363370 AAGTATG
1 AAGTATG
31363377 CCCATTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:31363884 original size:27 final size:27
Alignment explanation
Indices: 31363853--31364027 Score: 199
Period size: 27 Copynumber: 6.4 Consensus size: 27
31363843 TAAATTGTAC
31363853 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
31363880 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31363906 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
31363934 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
31363962 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31363989 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31364016 AGCACTGAGTGT
1 AGCACTAAGTGT
31364028 CCGGACTCAA
Statistics
Matches: 126, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 103 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:31363967 original size:82 final size:81
Alignment explanation
Indices: 31363854--31364009 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31363844 AAATTGTACA
* *
31363854 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
31363918 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
31363935 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
31364000 TGCGAGTTGA
65 TGCGAATTGA
31364010 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:31364021 original size:82 final size:81
Alignment explanation
Indices: 31363850--31364027 Score: 223
Period size: 82 Copynumber: 2.2 Consensus size: 81
31363840 GATTAAATTG
* *
31363850 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
31363915 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
31363931 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
31363995 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
31364013 TATAGCACTGAGTGT
1 TACAGCACTAAGTGT
31364028 CCGGACTCAA
Statistics
Matches: 81, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.22
82 63 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:31365938 original size:24 final size:24
Alignment explanation
Indices: 31365911--31365988 Score: 102
Period size: 24 Copynumber: 3.2 Consensus size: 24
31365901 AAGGCTATCA
**
31365911 GGAGAAGATTTAAAAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
31365935 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* * *
31365959 GGAGAGGATTTAGGAGTTGATTAG
1 GGAGAAGATTTAGGAGCTGATAAG
31365983 GGAGAA
1 GGAGAA
31365989 CGGTGTTGGC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.37, C:0.03, G:0.38, T:0.22
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:31367505 original size:54 final size:53
Alignment explanation
Indices: 31367420--31367529 Score: 130
Period size: 54 Copynumber: 2.1 Consensus size: 53
31367410 GGAAGCGTCT
* * *
31367420 TGGTGGCTATGCCATAATTATCTGATCTGGTGAATTTGCCACATATATCTATTC
1 TGGTGGCTATGCCACAATTATCTGATATGGTGAATCTGCCACAT-TATCTATTC
* * * * * *
31367474 TGGTGGCTCTGCCACGATTATCTGTTATGGTGACTCTGTCACATTATCTGTTC
1 TGGTGGCTATGCCACAATTATCTGATATGGTGAATCTGCCACATTATCTATTC
31367527 TGG
1 TGG
31367530 CAGCCATGCT
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 11 0.23
54 36 0.77
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (53 bp):
TGGTGGCTATGCCACAATTATCTGATATGGTGAATCTGCCACATTATCTATTC
Found at i:31367525 original size:26 final size:26
Alignment explanation
Indices: 31367436--31367529 Score: 107
Period size: 27 Copynumber: 3.5 Consensus size: 26
31367426 CTATGCCATA
* * *
31367436 ATTATCTGATCTGGTGAATTTGCCAC
1 ATTATCTGTTCTGGTGACTCTGCCAC
* *
31367462 ATATATCTATTCTGGTGGCTCTGCCAC
1 AT-TATCTGTTCTGGTGACTCTGCCAC
* *
31367489 GATTATCTGTTATGGTGACTCTGTCAC
1 -ATTATCTGTTCTGGTGACTCTGCCAC
31367516 ATTATCTGTTCTGG
1 ATTATCTGTTCTGG
31367530 CAGCCATGCT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 15 0.27
27 39 0.70
28 2 0.04
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.40
Consensus pattern (26 bp):
ATTATCTGTTCTGGTGACTCTGCCAC
Found at i:31368534 original size:16 final size:17
Alignment explanation
Indices: 31368492--31368533 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
31368482 GTGGAATGAG
31368492 TTTTACAAAAACAAAGA
1 TTTTACAAAAACAAAGA
*
31368509 TTTT-CGAAAACAAA-A
1 TTTTACAAAAACAAAGA
31368524 TTTTA-AAAAA
1 TTTTACAAAAA
31368534 AACTCAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 9 0.41
17 4 0.18
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.29
Consensus pattern (17 bp):
TTTTACAAAAACAAAGA
Found at i:31373816 original size:24 final size:24
Alignment explanation
Indices: 31373783--31373859 Score: 127
Period size: 24 Copynumber: 3.2 Consensus size: 24
31373773 AAGGCTATCA
*
31373783 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
31373807 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
31373831 GGAGAGAATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
31373855 GGAGA
1 GGAGA
31373860 ACGGTGTTGG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.35, C:0.04, G:0.40, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:31375332 original size:27 final size:26
Alignment explanation
Indices: 31375294--31375401 Score: 137
Period size: 27 Copynumber: 4.0 Consensus size: 26
31375284 AAGCGTCCTA
*
31375294 GTGGCTATGCCACAATTATCTGA-TCTG
1 GTGGCTCTGCCAC-ATTATCT-ATTCTG
31375321 GTGGCTCTGCCACATATATCTATTCTG
1 GTGGCTCTGCCACAT-TATCTATTCTG
31375348 GTGGCTCTGCCACGATTATCTATTCTG
1 GTGGCTCTGCCAC-ATTATCTATTCTG
* * *
31375375 GTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTATTCTG
31375401 G
1 G
31375402 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
26 16 0.22
27 56 0.76
28 2 0.03
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTATTCTG
Found at i:31383392 original size:14 final size:14
Alignment explanation
Indices: 31383375--31383409 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
31383365 AATGGTTTAC
*
31383375 GCAAATGGATGTAT
1 GCAAATGGATGAAT
*
31383389 GCAAATGTATGAAT
1 GCAAATGGATGAAT
31383403 GCAAATG
1 GCAAATG
31383410 CACCAACTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.26
Consensus pattern (14 bp):
GCAAATGGATGAAT
Found at i:31383860 original size:22 final size:22
Alignment explanation
Indices: 31383835--31383881 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
31383825 GGCCATCAGT
* *
31383835 CACGGCCGTGTATCCCATAACA
1 CACGACCGTGTATCCCAAAACA
* *
31383857 CACGACCGTGTGTCTCAAAACA
1 CACGACCGTGTATCCCAAAACA
31383879 CAC
1 CAC
31383882 ACTCGTATGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.36, G:0.17, T:0.17
Consensus pattern (22 bp):
CACGACCGTGTATCCCAAAACA
Found at i:31384939 original size:15 final size:15
Alignment explanation
Indices: 31384919--31384950 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
31384909 CATTTCACTA
*
31384919 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
31384934 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
31384949 TT
1 TT
31384951 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:31389046 original size:43 final size:42
Alignment explanation
Indices: 31388968--31389122 Score: 184
Period size: 42 Copynumber: 3.7 Consensus size: 42
31388958 TACCACACCA
* * ** *
31388968 ATGCCATATCCCAGATATGGTCTTATATGGGATCTCATTTTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
* * *
31389010 ATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATTG
* * *
31389053 ATACCATATCCCAGATATGGTCTTACACAAAATCTCATAATG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
* *
31389095 ATGTCATATCTCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
31389123 ATAGTCTCGG
Statistics
Matches: 95, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 62 0.65
43 33 0.35
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
Found at i:31392185 original size:37 final size:37
Alignment explanation
Indices: 31392144--31392331 Score: 315
Period size: 37 Copynumber: 5.1 Consensus size: 37
31392134 TAGTTCGAGG
* *
31392144 CTTACCTGGACAAAATCTCCACACGTAGTCATCGGGT
1 CTTACCCGGACATAATCTCCACACGTAGTCATCGGGT
31392181 CTTACCCGGACATAATCTCCACACGTAGTCATCGGGT
1 CTTACCCGGACATAATCTCCACACGTAGTCATCGGGT
31392218 CTTACCCGGACATAATCTCCACACGTAGTCATCGGGT
1 CTTACCCGGACATAATCTCCACACGTAGTCATCGGGT
* *
31392255 CTTACCCGGACATAATCTCCACACGAAGTTATCGGGT
1 CTTACCCGGACATAATCTCCACACGTAGTCATCGGGT
*
31392292 CTTACCCGGACAAAAT-TCCCACACGTAGTCATCGGGT
1 CTTACCCGGACATAATCT-CCACACGTAGTCATCGGGT
31392329 CTT
1 CTT
31392332 TAGAGCTCGG
Statistics
Matches: 143, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
36 1 0.01
37 142 0.99
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
CTTACCCGGACATAATCTCCACACGTAGTCATCGGGT
Found at i:31392524 original size:49 final size:49
Alignment explanation
Indices: 31392450--31392658 Score: 332
Period size: 49 Copynumber: 4.3 Consensus size: 49
31392440 CCCTTCGGGA
* * * * *
31392450 CTTATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
31392497 CCTGTCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
31392546 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
31392595 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
31392644 CTTATCACATATATA
1 CTTATCACATATATA
31392659 CACTGTCTTG
Statistics
Matches: 150, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
47 8 0.05
48 1 0.01
49 141 0.94
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:31396922 original size:21 final size:21
Alignment explanation
Indices: 31396896--31396942 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
31396886 GATAGATGGT
*
31396896 TGCCTAGGCACGACCTTTCGG
1 TGCCTAGGCACAACCTTTCGG
* *
31396917 TGCCTAGGCACAATCTTTTGG
1 TGCCTAGGCACAACCTTTCGG
31396938 TGCCT
1 TGCCT
31396943 GTACTTACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.15, C:0.30, G:0.26, T:0.30
Consensus pattern (21 bp):
TGCCTAGGCACAACCTTTCGG
Found at i:31402729 original size:34 final size:34
Alignment explanation
Indices: 31402691--31402792 Score: 105
Period size: 34 Copynumber: 3.2 Consensus size: 34
31402681 TCTAGTACCA
31402691 GAAAGAAACTGAGAATATTTATTGAAAGTACACT
1 GAAAGAAACTGAGAATATTTATTGAAAGTACACT
* *
31402725 GAAAG-AA---AGAA-ATTAATCT---AGTAC-CA
1 GAAAGAAACTGAGAATATTTAT-TGAAAGTACACT
*
31402751 GAAAGAAACTGAGAATATTTATTGAAACTACACT
1 GAAAGAAACTGAGAATATTTATTGAAAGTACACT
31402785 GAAAGAAA
1 GAAAGAAA
31402793 GAAATTAACA
Statistics
Matches: 53, Mismatches: 5, Indels: 20
0.68 0.06 0.26
Matches are distributed among these distances:
26 6 0.11
27 7 0.13
29 5 0.09
30 10 0.19
31 5 0.09
33 6 0.11
34 14 0.26
ACGTcount: A:0.51, C:0.10, G:0.17, T:0.23
Consensus pattern (34 bp):
GAAAGAAACTGAGAATATTTATTGAAAGTACACT
Found at i:31402772 original size:60 final size:60
Alignment explanation
Indices: 31402679--31402800 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
31402669 TGAAAAAAAA
*
31402679 AATCTAGTACCAGAAAGAAACTGAGAATATTTATTGAAAGTACACTGAAAGAAAGAAATT
1 AATCTAGTACCAGAAAGAAACTGAGAATATTTATTGAAACTACACTGAAAGAAAGAAATT
31402739 AATCTAGTACCAGAAAGAAACTGAGAATATTTATTGAAACTACACTGAAAGAAAGAAATT
1 AATCTAGTACCAGAAAGAAACTGAGAATATTTATTGAAACTACACTGAAAGAAAGAAATT
31402799 AA
1 AA
31402801 CATGTGAAAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.51, C:0.11, G:0.16, T:0.23
Consensus pattern (60 bp):
AATCTAGTACCAGAAAGAAACTGAGAATATTTATTGAAACTACACTGAAAGAAAGAAATT
Found at i:31408328 original size:28 final size:29
Alignment explanation
Indices: 31408295--31408395 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
31408285 TATAGTAAGT
* * *
31408295 CCGCACACTTAGTGTTATATAA-TCGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
31408323 TCGCACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
31408352 CCGCACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
31408381 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
31408396 CAATTTCATG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
28 19 0.29
29 47 0.71
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATACAACTTGAAC
Found at i:31419326 original size:40 final size:39
Alignment explanation
Indices: 31419256--31419483 Score: 264
Period size: 40 Copynumber: 6.0 Consensus size: 39
31419246 ATTTTGTCCA
* ** *
31419256 AGCACGAATGC-CTTCGGGGTTTAGCACGGATATATCACT
1 AGCACGAATGCTCTTCGAGACTTAGC-CGGATACATCACT
31419295 AGCACGAATGCTCTTCG-GAACTTAGTCCGGATACATCACT
1 AGCACGAATGCTCTTCGAG-ACTTAG-CCGGATACATCACT
*
31419335 AGCACGAATGCTCTTCGAGACTTAGCC-----CA-GA-T
1 AGCACGAATGCTCTTCGAGACTTAGCCGGATACATCACT
31419367 ---ACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAG-CCGGATACATCACT
31419404 AGCACGAATGCTCTTCGAGACTTAGCACGGATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAGC-CGGATACATCACT
*
31419444 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAG-CCGGATACATCACT
31419484 CTCAATTCTC
Statistics
Matches: 166, Mismatches: 6, Indels: 33
0.81 0.03 0.16
Matches are distributed among these distances:
29 22 0.13
30 2 0.01
32 1 0.01
33 1 0.01
34 2 0.01
35 2 0.01
36 1 0.01
37 1 0.01
39 15 0.09
40 116 0.70
41 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
AGCACGAATGCTCTTCGAGACTTAGCCGGATACATCACT
Found at i:31419380 original size:29 final size:29
Alignment explanation
Indices: 31419338--31419397 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
31419328 CATCACTAGC
31419338 ACGAATGCTCTTCGAGACTTAGCCCAGAT
1 ACGAATGCTCTTCGAGACTTAGCCCAGAT
*
31419367 ACGAATGCTCTTCGAGACTTAGCCCGGAT
1 ACGAATGCTCTTCGAGACTTAGCCCAGAT
31419396 AC
1 AC
31419398 ATCACTAGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (29 bp):
ACGAATGCTCTTCGAGACTTAGCCCAGAT
Found at i:31419409 original size:69 final size:69
Alignment explanation
Indices: 31419298--31419429 Score: 239
Period size: 69 Copynumber: 1.9 Consensus size: 69
31419288 TATCACTAGC
*
31419298 ACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCC
1 ACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCC
31419363 AGAT
66 AGAT
31419367 ACGAATGCTCTTC-GAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGC
1 ACGAATGCTCTTCGGA-ACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGC
31419430 ACGGATACAT
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
68 2 0.03
69 59 0.97
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (69 bp):
ACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCC
AGAT
Found at i:31419458 original size:109 final size:108
Alignment explanation
Indices: 31419259--31419477 Score: 334
Period size: 109 Copynumber: 2.0 Consensus size: 108
31419249 TTGTCCAAGC
* ** *
31419259 ACGAATGCCTTCGGGGTTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
1 ACGAATGCCTTCGAGACTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
31419324 GATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCAGAT
66 GATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCAGAT
*
31419367 ACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTC-GAGACTTAG-C
1 ACGAATGC-CTTCGAGACTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGA-ACTTAGTC
* *
31419430 ACGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
64 -CGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCAGAT
31419476 AC
1 AC
31419478 ATCACTCTCA
Statistics
Matches: 101, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
108 11 0.11
109 90 0.89
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (108 bp):
ACGAATGCCTTCGAGACTTAGCACGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCG
GATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCAGAT
Found at i:31421352 original size:37 final size:37
Alignment explanation
Indices: 31421293--31421438 Score: 220
Period size: 37 Copynumber: 3.9 Consensus size: 37
31421283 AGCTCAGACG
* * *
31421293 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
31421330 AAATCTCCACGCGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
31421367 TAATCTCCACACGTAGTCATTGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
31421404 TAATCTCCACACGTAGTCATCGGGTCTTACTCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
31421439 ATATATTTCC
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:31421706 original size:47 final size:47
Alignment explanation
Indices: 31421649--31422086 Score: 527
Period size: 47 Copynumber: 9.1 Consensus size: 47
31421639 ACACGTTTCG
* * *
31421649 CATTAGCCATTCGGCCTTACCATATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCATATATATGCATGTTCACATTCATCA
31421696 CATTGGCCATTCGGCCTTATC-TCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCAT-ATATATGCATGTTCACATTCATCA
* * * *
31421743 TATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCATATATATGCATGTTCACATTCATCA
*
31421790 CATTGGCCATTCGGCCTTATCACGCATATATATGCAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT----CATATATATGCATGTTCACATTCATCA
* * * *
31421841 CATTGGCCACTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCATATATATGCATGTTCACATTCATCA
*
31421888 CATTGGCCATTCGGCCTTATCACGCATATATATGCAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT----CATATATATGCATGTTCACATTCATCA
* * * *
31421939 CATTGGCCACTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCATATATATGCATGTTCACATTCATCA
* * **
31421986 CATTGTCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT----CATATATATGCATGTTCACATTCATCA
* * * *
31422037 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCATATATATGCATGTTCACATTCATCA
31422084 CAT
1 CAT
31422087 AAAATCCTAA
Statistics
Matches: 334, Mismatches: 43, Indels: 28
0.82 0.11 0.07
Matches are distributed among these distances:
46 1 0.00
47 209 0.63
51 124 0.37
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCATATATATGCATGTTCACATTCATCA
Found at i:31421857 original size:98 final size:98
Alignment explanation
Indices: 31421679--31422086 Score: 698
Period size: 98 Copynumber: 4.2 Consensus size: 98
31421669 CATATATATT
* *
31421679 CATGTTCACATTCATCACATTGGCCATTCGGCCTTAT--CTC--ATATATGCATGTTCACATTCA
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATGCAGGTTCACATTCA
* *
31421740 TCATATTGGCCATTCGGCCTTATCACACATACG
66 TCACATTGGCCACTCGGCCTTATCACACATACG
31421773 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATGCAGGTTCACATTCA
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATGCAGGTTCACATTCA
31421838 TCACATTGGCCACTCGGCCTTATCACACATACG
66 TCACATTGGCCACTCGGCCTTATCACACATACG
31421871 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATGCAGGTTCACATTCA
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATGCAGGTTCACATTCA
31421936 TCACATTGGCCACTCGGCCTTATCACACATACG
66 TCACATTGGCCACTCGGCCTTATCACACATACG
* * * *
31421969 CATGTTCACATTCATCACATTGTCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCA
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATGCAGGTTCACATTCA
*
31422034 TCACATTGGCCATTCGGCCTTATCACACATACG
66 TCACATTGGCCACTCGGCCTTATCACACATACG
*
31422067 CATGTTCACATCCATCACAT
1 CATGTTCACATTCATCACAT
31422087 AAAATCCTAA
Statistics
Matches: 300, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
94 37 0.12
96 2 0.01
98 261 0.87
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (98 bp):
CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATGCAGGTTCACATTCA
TCACATTGGCCACTCGGCCTTATCACACATACG
Found at i:31424406 original size:85 final size:85
Alignment explanation
Indices: 31424277--31424625 Score: 680
Period size: 85 Copynumber: 4.1 Consensus size: 85
31424267 TATTTTATTG
*
31424277 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
31424342 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
31424362 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
31424427 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
31424447 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
31424512 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
31424532 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
*
31424597 TAGCAATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
31424617 CCCATGCTC
1 CCCATGCTC
31424626 ATGGCCGGCC
Statistics
Matches: 262, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 262 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:31427503 original size:27 final size:27
Alignment explanation
Indices: 31427485--31427546 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
31427475 TATGTTGGTC
* *
31427485 ATTTTACACTATAGGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
31427512 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
31427539 ATTTTACA
1 ATTTTACA
31427547 AATCGGGGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:31427791 original size:80 final size:81
Alignment explanation
Indices: 31427526--31427943 Score: 449
Period size: 81 Copynumber: 5.2 Consensus size: 81
31427516 TACACTACAA
* * * * *
31427526 GGGTATTTCGATAATTTTACAAATCGGGGGTGTTTCAGTAATTTTACAAATCGATGGTATTTCAG
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGG
*
31427591 TAATTTTACAAATTGA
66 TAATTTTACAAATTGG
* * * * * * *
31427607 AGGAATTTCGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAAATCGATGGTGTTTCGA
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGG
*
31427672 TAATTTTACAAATTGA
66 TAATTTTACAAATTGG
* * * * *
31427688 GGGTGTTCCGATAATTTCACAAATCGAGGGTATTTCAGTAATTTCAC-AATCGAGGGTATGTT-G
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTAT-TTCG
*
31427751 GTAATTTTATAAATTGG
65 GTAATTTTACAAATTGG
* * * *
31427768 GGGTATTTCGGTAATTTTGCAAATCGAGGGTATTTCAGTAATTTCACAACT-GAGGCTATTTCGG
1 GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGG
31427832 TAATTTTACAAATT-G
66 TAATTTTACAAATTGG
* * *
31427847 AGG-ATGTTCGGGTAATTTCAC-AATCGAGGGTA-TTC-GATAATTTTACAAATTTG-GGGTATT
1 GGGTAT-TTC-GGTAATTTTACAAATCGAGGGTATTTCAG-TAATTTTACAAA-TCGAGGGTATT
* * *
31427907 TTGGTAATTTCACAAATCGG
62 TCGGTAATTTTACAAATTGG
*
31427927 GGGTATTTCAGTAATTT
1 GGGTATTTCGGTAATTT
31427944 CTCTTTATTA
Statistics
Matches: 284, Mismatches: 43, Indels: 22
0.81 0.12 0.06
Matches are distributed among these distances:
77 1 0.00
78 15 0.05
79 48 0.17
80 105 0.37
81 115 0.40
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (81 bp):
GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGG
TAATTTTACAAATTGG
Found at i:31427944 original size:27 final size:27
Alignment explanation
Indices: 31427499--31427943 Score: 378
Period size: 27 Copynumber: 16.6 Consensus size: 27
31427489 TACACTATAG
* *
31427499 GGGTATTTC-GATAATTTTAC-ACTACAA
1 GGGTATTTCAG-TAATTTTACAAAT-CGA
*
31427526 GGGTATTTC-GATAATTTTACAAATCGG
1 GGGTATTTCAG-TAATTTTACAAATCGA
*
31427553 GGGTGTTTCAGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* *
31427580 TGGTATTTCAGTAATTTTACAAATTGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* * * *
31427607 AGGAATTTCGGTAATTTTACAAATCAA
1 GGGTATTTCAGTAATTTTACAAATCGA
*
31427634 GGGTATTTTAGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* * *
31427661 TGGTGTTTC-GATAATTTTACAAATTGA
1 GGGTATTTCAG-TAATTTTACAAATCGA
* * *
31427688 GGGT-GTTCCGATAATTTCACAAATCGA
1 GGGTATTTCAG-TAATTTTACAAATCGA
*
31427715 GGGTATTTCAGTAATTTCAC-AATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* * * *
31427741 GGGTATGTT-GGTAATTTTATAAATTGG
1 GGGTAT-TTCAGTAATTTTACAAATCGA
* *
31427768 GGGTATTTCGGTAATTTTGCAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* *
31427795 GGGTATTTCAGTAATTTCACAACT-GA
1 GGGTATTTCAGTAATTTTACAAATCGA
* * *
31427821 GGCTATTTCGGTAATTTTACAAATTGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* *
31427848 -GG-ATGTTCGGGTAATTTCAC-AATCGA
1 GGGTAT-TTC-AGTAATTTTACAAATCGA
*
31427874 GGGTA-TTC-GATAATTTTACAAATTTG-
1 GGGTATTTCAG-TAATTTTACAAA-TCGA
** * *
31427900 GGGTATTTTGGTAATTTCACAAATCGG
1 GGGTATTTCAGTAATTTTACAAATCGA
31427927 GGGTATTTCAGTAATTT
1 GGGTATTTCAGTAATTT
31427944 CTCTTTATTA
Statistics
Matches: 344, Mismatches: 55, Indels: 38
0.79 0.13 0.09
Matches are distributed among these distances:
24 1 0.00
25 10 0.03
26 69 0.20
27 255 0.74
28 9 0.03
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCGA
Found at i:31428333 original size:28 final size:28
Alignment explanation
Indices: 31428273--31428333 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
31428263 CCCAATCTTG
*
31428273 TTCACATGGCCCATCAGACCCAATCACA
1 TTCATATGGCCCATCAGACCCAATCACA
*
31428301 TTCATATGGCCCATCAGGCCCAATCACA
1 TTCATATGGCCCATCAGACCCAATCACA
31428329 TTCAT
1 TTCAT
31428334 CTCGACTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.30, C:0.36, G:0.11, T:0.23
Consensus pattern (28 bp):
TTCATATGGCCCATCAGACCCAATCACA
Found at i:31432625 original size:39 final size:39
Alignment explanation
Indices: 31432571--31432807 Score: 384
Period size: 39 Copynumber: 6.1 Consensus size: 39
31432561 ATTATATTAT
* ** *
31432571 CAGCACAAAGCCTGCGGGACTTTAACTCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
31432610 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
* *
31432649 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTT
1 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
*
31432688 CAGCACAAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
* *
31432727 CAGCACGAAGCTTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
*
31432766 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
31432805 CAG
1 CAG
31432808 TGTCTTGCAT
Statistics
Matches: 183, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 183 1.00
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
Found at i:31438460 original size:39 final size:39
Alignment explanation
Indices: 31438417--31438701 Score: 356
Period size: 39 Copynumber: 7.1 Consensus size: 39
31438407 ATTATATTAT
* *
31438417 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
31438456 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
31438495 CAGCACGAAG-CGGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
31438533 CAGCACGAAGCCTGCGGGACTTTGGCCCCGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
** *
31438572 CAGCACGAAGCCTGCAAGACTTTAGCCCGGATTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTT-------A---GCCCGGATACATTTC
*
31438621 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
31438660 TAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
31438699 CAG
1 CAG
31438702 TGTCTTGCAT
Statistics
Matches: 216, Mismatches: 19, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
38 36 0.17
39 144 0.67
42 1 0.00
49 35 0.16
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.21
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:31438557 original size:77 final size:78
Alignment explanation
Indices: 31438409--31438701 Score: 374
Period size: 77 Copynumber: 3.6 Consensus size: 78
31438399 AACCCAAAAT
* *
31438409 TATATTAT-CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGG
1 TATATT-TCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGG
31438473 GACTTTGGCCCGGA
65 GACTTTGGCCCGGA
* *
31438487 TACATTTCCAGCACGAAG-CGGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGG
1 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGG
*
31438551 ACTTTGGCCCCGA
66 ACTTTGGCCCGGA
** *
31438564 TATATTTCCAGCACGAAGCCTGCAAGACTTTAGCCCGGATTGGCCCGGATATATTTCCAGCACGA
1 TATATTTCCAGCACGAAGCCTGCGGGACTTT-------A---GCCCGGATACATTTCCAGCACGA
*
31438629 AGCCTGCGGGACTTTAGCCCGGA
56 AGCCTGCGGGACTTTGGCCCGGA
* *
31438652 TATATTTCTAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTCCAG
1 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAG
31438702 TGTCTTGCAT
Statistics
Matches: 186, Mismatches: 17, Indels: 24
0.82 0.07 0.11
Matches are distributed among these distances:
77 74 0.40
78 40 0.22
85 1 0.01
88 71 0.38
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.23
Consensus pattern (78 bp):
TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGG
ACTTTGGCCCGGA
Found at i:31438626 original size:49 final size:49
Alignment explanation
Indices: 31438554--31438652 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 49
31438544 CTGCGGGACT
31438554 TTGGCCCCGATATATTTCCAGCACGAAGCCTGCAAGACTTTAGCCCGGA
1 TTGGCCCCGATATATTTCCAGCACGAAGCCTGCAAGACTTTAGCCCGGA
* **
31438603 TTGGCCCGGATATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
1 TTGGCCCCGATATATTTCCAGCACGAAGCCTGCAAGACTTTAGCCCGGA
31438652 T
1 T
31438653 ATATTTCTAG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.23
Consensus pattern (49 bp):
TTGGCCCCGATATATTTCCAGCACGAAGCCTGCAAGACTTTAGCCCGGA
Found at i:31438667 original size:88 final size:88
Alignment explanation
Indices: 31438518--31438691 Score: 285
Period size: 88 Copynumber: 2.0 Consensus size: 88
31438508 CGGGACTTTA
*
31438518 GCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGCCCCGATATATTTCCAGCACGAAGC
1 GCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCCGATATATTTCCAGCACGAAGC
31438583 CTGCAAGACTTTAGCCCGGATTG
66 CTGCAAGACTTTAGCCCGGATTG
* * *
31438606 GCCCGGATATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTCTAGCACGAAGC
1 GCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCCGATATATTTCCAGCACGAAGC
** *
31438671 CTGCGGGACTTTGGCCCGGAT
66 CTGCAAGACTTTAGCCCGGAT
31438692 ACATTTCCAG
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 79 1.00
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.22
Consensus pattern (88 bp):
GCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCCGATATATTTCCAGCACGAAGC
CTGCAAGACTTTAGCCCGGATTG
Found at i:31440997 original size:40 final size:40
Alignment explanation
Indices: 31440942--31441022 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
31440932 CCCCTCATTC
31440942 TTTCCAATCACATCAACCCCGAAATTCTTTTTATCAAAAT
1 TTTCCAATCACATCAACCCCGAAATTCTTTTTATCAAAAT
31440982 TTTCCAATCACATCAACCCCGAAATTCTTTTTATCAAAAT
1 TTTCCAATCACATCAACCCCGAAATTCTTTTTATCAAAAT
31441022 T
1 T
31441023 CAATTCAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.36
Consensus pattern (40 bp):
TTTCCAATCACATCAACCCCGAAATTCTTTTTATCAAAAT
Found at i:31444379 original size:39 final size:39
Alignment explanation
Indices: 31444336--31444649 Score: 513
Period size: 39 Copynumber: 8.1 Consensus size: 39
31444326 ATTATATTAT
* *
31444336 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
31444375 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
31444414 CAGCACGAAG-CTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
31444452 CAGCACGAAGCCTGCGGGACTTTGGCCCCGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
31444491 CAGCACGAAGCCTGCGGGACTTTAGCCTGGATACTTTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
31444530 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
31444569 CAGCACGAAGCCTGCGAGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
31444608 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
31444647 CAG
1 CAG
31444650 TGTCTTGCAT
Statistics
Matches: 253, Mismatches: 21, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
38 37 0.15
39 216 0.85
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:31448818 original size:40 final size:39
Alignment explanation
Indices: 31448754--31449045 Score: 334
Period size: 40 Copynumber: 7.3 Consensus size: 39
31448744 TCTTCGGAAT
* *
31448754 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
* *
31448793 TTAGCCCGAATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
31448833 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
31448873 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
31448913 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
31448953 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * * *
31448993 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGAGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
31449033 TTAGCCCGGATAT
1 TTAGCCCGGATAT
31449046 CATTCAAATG
Statistics
Matches: 211, Mismatches: 35, Indels: 14
0.81 0.13 0.05
Matches are distributed among these distances:
39 13 0.06
40 188 0.89
41 10 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:31449041 original size:80 final size:80
Alignment explanation
Indices: 31448754--31449028 Score: 471
Period size: 80 Copynumber: 3.5 Consensus size: 80
31448744 TCTTCGGAAT
* * * * * ** *
31448754 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGAATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
31448818 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
31448833 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
31448898 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
31448913 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
31448978 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
31448993 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCG
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCG
31449029 AGACTTAGCC
Statistics
Matches: 187, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
79 4 0.02
80 183 0.98
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:31452948 original size:49 final size:49
Alignment explanation
Indices: 31452892--31453136 Score: 285
Period size: 49 Copynumber: 4.9 Consensus size: 49
31452882 TAGCCAAAGC
* *
31452892 TATCTGGTACGA-ATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTAC-ACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
31452941 TATCTGGTACACGTAGTAGCATGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * *
31452991 CATCTGATACACGTAGTAGCCTGCACTTAGTATTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * * *
31453042 TATCGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
31453091 AATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
31453137 TCACAATAGA
Statistics
Matches: 164, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
48 1 0.01
49 80 0.49
50 47 0.29
51 36 0.22
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:31453131 original size:100 final size:99
Alignment explanation
Indices: 31452905--31453136 Score: 304
Period size: 100 Copynumber: 2.3 Consensus size: 99
31452895 CTGGTACGAA
* * * * *
31452905 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCATGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGGGTACACATAGTAGCATACACTTA
* * *
31452970 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACAATCCGATACACG
* * * *
31453004 TAGTAGCCTGCACTTAGTATTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTACACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCGGGTACACATAGTAGCATACACT
* * *
31453069 TAGTACTACACATGCGACC-AATAATCCGGTACACG
64 TAGTACTACACACGCGACCTAACAATCCGATACACG
31453104 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
31453137 TCACAATAGA
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
99 29 0.25
100 45 0.39
101 40 0.35
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGGGTACACATAGTAGCATACACTTA
GTACTACACACGCGACCTAACAATCCGATACACG
Found at i:31469553 original size:21 final size:22
Alignment explanation
Indices: 31469507--31469553 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
31469497 TACATGGCTC
**
31469507 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGACCCAAGGG
*
31469529 ACACGCCCGTGTGACCCTA-GG
1 ACACGCCCGTGTGACCCAAGGG
31469550 ACAC
1 ACAC
31469554 TCCTTTGTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.21, C:0.36, G:0.30, T:0.13
Consensus pattern (22 bp):
ACACGCCCGTGTGACCCAAGGG
Found at i:31473389 original size:23 final size:23
Alignment explanation
Indices: 31473363--31473407 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
31473353 TGGGTATGTG
*
31473363 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
31473386 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
31473408 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:31473698 original size:28 final size:28
Alignment explanation
Indices: 31473658--31473715 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
31473648 CCATTAGGGT
31473658 ACTTAATCAAGGAACACACTCTCGAGCC
1 ACTTAATCAAGGAACACACTCTCGAGCC
*
31473686 ACTTAATCAAGGAACACACTCTTGAGCC
1 ACTTAATCAAGGAACACACTCTCGAGCC
31473714 AC
1 AC
31473716 ATATCGTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.36, C:0.31, G:0.14, T:0.19
Consensus pattern (28 bp):
ACTTAATCAAGGAACACACTCTCGAGCC
Found at i:31477951 original size:21 final size:21
Alignment explanation
Indices: 31477927--31477974 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
31477917 TACACGACTA
*
31477927 TGTGCCTTAG-CCACATGGTTG
1 TGTGCCTT-GCCCACATGGGTG
31477948 TGTGCCTTGTCCCACATGGGTG
1 TGTGCCTTG-CCCACATGGGTG
31477970 TGTGC
1 TGTGC
31477975 TCCCTATCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 1 0.04
21 8 0.33
22 15 0.62
ACGTcount: A:0.10, C:0.25, G:0.31, T:0.33
Consensus pattern (21 bp):
TGTGCCTTGCCCACATGGGTG
Found at i:31486826 original size:22 final size:22
Alignment explanation
Indices: 31486798--31486840 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
31486788 ATGTTAATGG
31486798 GGGAAATTAAATAATAAATTTA
1 GGGAAATTAAATAATAAATTTA
31486820 GGGAAATTAAATAATAAATTT
1 GGGAAATTAAATAATAAATTT
31486841 TATGTATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (22 bp):
GGGAAATTAAATAATAAATTTA
Found at i:31492007 original size:39 final size:39
Alignment explanation
Indices: 31491964--31492040 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
31491954 ACAAATACTT
*
31491964 CATATAAACACTTCATATAACTG-TTCATATATCTATTTC
1 CATATAAACACTTCATATAACTGTTTCATA-ATCCATTTC
* *
31492003 CATATAAACATTTCGTATAACTGTTTCATAATCCATTT
1 CATATAAACACTTCATATAACTGTTTCATAATCCATTT
31492041 AACACATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 28 0.82
40 6 0.18
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (39 bp):
CATATAAACACTTCATATAACTGTTTCATAATCCATTTC
Found at i:31493945 original size:17 final size:18
Alignment explanation
Indices: 31493923--31493960 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
31493913 TTATTTTAAG
31493923 ATATTAT-TCATTATAAA
1 ATATTATCTCATTATAAA
*
31493940 ATATTATCTTATTATAAA
1 ATATTATCTCATTATAAA
31493958 ATA
1 ATA
31493961 AATTTGGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTATCTCATTATAAA
Found at i:31493955 original size:18 final size:17
Alignment explanation
Indices: 31493912--31493960 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
31493902 TATTATTAAG
* *
31493912 TTTATTTTAAGATATTA
1 TTTATTATAAAATATTA
*
31493929 TTCATTATAAAATATTA
1 TTTATTATAAAATATTA
31493946 TCTTATTATAAAATA
1 T-TTATTATAAAATA
31493961 AATTTGGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (17 bp):
TTTATTATAAAATATTA
Found at i:31494469 original size:19 final size:20
Alignment explanation
Indices: 31494426--31494470 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
31494416 CGAATAAAAA
*
31494426 TATTAAAAAATATATAAATT
1 TATTATAAAATATATAAATT
*
31494446 T-TTATAAAGTATA-AAATT
1 TATTATAAAATATATAAATT
31494464 TATTATA
1 TATTATA
31494471 CATCGAAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 6 0.27
19 15 0.68
20 1 0.05
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TATTATAAAATATATAAATT
Found at i:31496519 original size:97 final size:97
Alignment explanation
Indices: 31496364--31496559 Score: 383
Period size: 97 Copynumber: 2.0 Consensus size: 97
31496354 AAGATAAAAA
31496364 AATTATATTATCTTTATCGTAAATAAATTTAAATATTTTATTTATTTTTAATTAAACCTTAAGAA
1 AATTATATTATCTTTATCGTAAATAAATTTAAATATTTTATTTATTTTTAATTAAACCTTAAGAA
31496429 CGTAGGTTGGTATTTTTTTTAAAAAAAATTAT
66 CGTAGGTTGGTATTTTTTTTAAAAAAAATTAT
*
31496461 AATTATATTATCTTTATCGTAAATAATTTTAAATATTTTATTTATTTTTAATTAAACCTTAAGAA
1 AATTATATTATCTTTATCGTAAATAAATTTAAATATTTTATTTATTTTTAATTAAACCTTAAGAA
31496526 CGTAGGTTGGTATTTTTTTTAAAAAAAATTAT
66 CGTAGGTTGGTATTTTTTTTAAAAAAAATTAT
31496558 AA
1 AA
31496560 AAAGGATATG
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 98 1.00
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.48
Consensus pattern (97 bp):
AATTATATTATCTTTATCGTAAATAAATTTAAATATTTTATTTATTTTTAATTAAACCTTAAGAA
CGTAGGTTGGTATTTTTTTTAAAAAAAATTAT
Found at i:31500565 original size:24 final size:25
Alignment explanation
Indices: 31500512--31500559 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
31500502 ATGGCCCTCT
* *
31500512 CGAGTTTCCCATTATATAGTTCTTG
1 CGAGCTTCCCATTATATAGCTCTTG
31500537 CGAGCTTCCCATTA-ATAGCTCTT
1 CGAGCTTCCCATTATATAGCTCTT
31500560 CAGAGCATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.40
Consensus pattern (25 bp):
CGAGCTTCCCATTATATAGCTCTTG
Found at i:31500717 original size:24 final size:24
Alignment explanation
Indices: 31500690--31500751 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
31500680 TAGCTCTTCG
*
31500690 GAGCTACCCGTTATTGGCTCGCAT
1 GAGCTTCCCGTTATTGGCTCGCAT
**
31500714 GAGCTTCCCGATTA-TGGCTCTTAT
1 GAGCTTCCCG-TTATTGGCTCGCAT
*
31500738 GAGCTTTCCGTTAT
1 GAGCTTCCCGTTAT
31500752 ATAGCCAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 3 0.09
24 26 0.81
25 3 0.09
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.35
Consensus pattern (24 bp):
GAGCTTCCCGTTATTGGCTCGCAT
Found at i:31500790 original size:23 final size:24
Alignment explanation
Indices: 31500764--31500809 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
31500754 AGCCAAGTAA
*
31500764 GCTTCCCGATA-GGCTCTTTGTGG
1 GCTTCCCGATATGGCTATTTGTGG
*
31500787 GCTTCTCGATATGGCTATTTGTG
1 GCTTCCCGATATGGCTATTTGTG
31500810 AGCATCCCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.11, C:0.22, G:0.28, T:0.39
Consensus pattern (24 bp):
GCTTCCCGATATGGCTATTTGTGG
Found at i:31504674 original size:25 final size:25
Alignment explanation
Indices: 31504626--31504674 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
31504616 TGAGCTTACC
* *
31504626 GTTATTCTACTCGGAAGATCTTATT
1 GTTATTCAACTCAGAAGATCTTATT
* *
31504651 GTTATTCAACTCAGAGGATTTTAT
1 GTTATTCAACTCAGAAGATCTTAT
31504675 CATTTACATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (25 bp):
GTTATTCAACTCAGAAGATCTTATT
Found at i:31506025 original size:25 final size:25
Alignment explanation
Indices: 31505997--31506052 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
31505987 GTTAGGATAC
* *
31505997 ATATGTCATGACATAGGATTTCGAT
1 ATATGTCATGACATAAGATTCCGAT
31506022 ATATGTCATGACATAAGATTCCGAT
1 ATATGTCATGACATAAGATTCCGAT
31506047 ATATGT
1 ATATGT
31506053 GTGTGAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (25 bp):
ATATGTCATGACATAAGATTCCGAT
Found at i:31511183 original size:43 final size:43
Alignment explanation
Indices: 31511118--31511203 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
31511108 GTGATGCATC
31511118 CTTAAATGGTTTAGGCTATGTTTTAATGCAGGAAGGTAGAGTT
1 CTTAAATGGTTTAGGCTATGTTTTAATGCAGGAAGGTAGAGTT
*
31511161 CTTAAATGGTTTAGGCTGTGTTTTAATGCAGGAAGGTAGAGTT
1 CTTAAATGGTTTAGGCTATGTTTTAATGCAGGAAGGTAGAGTT
31511204 ATAGGTTATG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (43 bp):
CTTAAATGGTTTAGGCTATGTTTTAATGCAGGAAGGTAGAGTT
Found at i:31527416 original size:18 final size:18
Alignment explanation
Indices: 31527389--31527435 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
31527379 TTAAGAAAAT
*
31527389 TGGGCTCACACGCCCGTG
1 TGGGCCCACACGCCCGTG
*
31527407 TGGGCCCACACACCCGTG
1 TGGGCCCACACGCCCGTG
31527425 T-GGCCCACACG
1 TGGGCCCACACG
31527436 GCTCAGAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 9 0.35
18 17 0.65
ACGTcount: A:0.15, C:0.43, G:0.30, T:0.13
Consensus pattern (18 bp):
TGGGCCCACACGCCCGTG
Found at i:31531655 original size:40 final size:40
Alignment explanation
Indices: 31531518--31531661 Score: 128
Period size: 40 Copynumber: 3.6 Consensus size: 40
31531508 GAAAAAATGA
* * * *
31531518 ATAAATGAAATGGTTGTATGGATAGGTTATAT-GAAAAATG
1 ATAAATGAAATGGTTATATGAATTGGTTATATGGAAATA-G
* * * ****
31531558 AATATATGAAATGCTTATACGAACCAATTATATGGAAATAG
1 -ATAAATGAAATGGTTATATGAATTGGTTATATGGAAATAG
*
31531599 ATAAATGAAATTGTTATATGAATTGGTTATATGGAAATAG
1 ATAAATGAAATGGTTATATGAATTGGTTATATGGAAATAG
* **
31531639 ATATATGGTATGGTTATATGAAT
1 ATAAATGAAATGGTTATATGAAT
31531662 CAGTTAGTCT
Statistics
Matches: 80, Mismatches: 22, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
40 51 0.64
41 24 0.30
42 5 0.06
ACGTcount: A:0.42, C:0.03, G:0.20, T:0.35
Consensus pattern (40 bp):
ATAAATGAAATGGTTATATGAATTGGTTATATGGAAATAG
Found at i:31531775 original size:13 final size:13
Alignment explanation
Indices: 31531749--31531845 Score: 54
Period size: 13 Copynumber: 7.3 Consensus size: 13
31531739 ATACCATCAA
* *
31531749 AAATAGATAAATG
1 AAATAGTTATATG
*
31531762 AAATGGTTATATG
1 AAATAGTTATATG
31531775 -AATCAGTTATATGG
1 AAAT-AGTTATAT-G
**
31531789 AAATAGACATATG
1 AAATAGTTATATG
** *
31531802 GTATGGTTATATG
1 AAATAGTTATATG
31531815 -AATCAGTTATATG
1 AAAT-AGTTATATG
**
31531828 AAAATAAATATATG
1 -AAATAGTTATATG
31531842 AAAT
1 AAAT
31531846 GGAACATTGG
Statistics
Matches: 63, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
12 5 0.08
13 38 0.60
14 14 0.22
15 6 0.10
ACGTcount: A:0.46, C:0.03, G:0.18, T:0.33
Consensus pattern (13 bp):
AAATAGTTATATG
Found at i:31531841 original size:40 final size:40
Alignment explanation
Indices: 31531764--31531841 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
31531754 GATAAATGAA
* *
31531764 ATGGTTATATGAATCAGTTATATGGAAATAGACATATGGT
1 ATGGTTATATGAATCAGTTATATGAAAATAAACATATGGT
*
31531804 ATGGTTATATGAATCAGTTATATGAAAATAAATATATG
1 ATGGTTATATGAATCAGTTATATGAAAATAAACATATG
31531842 AAATGGAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.41, C:0.04, G:0.19, T:0.36
Consensus pattern (40 bp):
ATGGTTATATGAATCAGTTATATGAAAATAAACATATGGT
Found at i:31537793 original size:18 final size:18
Alignment explanation
Indices: 31537770--31537806 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
31537760 CGGTCTTACA
31537770 CACTATCACAAATCAATG
1 CACTATCACAAATCAATG
31537788 CACTATCACAAATCAATG
1 CACTATCACAAATCAATG
31537806 C
1 C
31537807 CGTCGTCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.30, G:0.05, T:0.22
Consensus pattern (18 bp):
CACTATCACAAATCAATG
Found at i:31537883 original size:28 final size:28
Alignment explanation
Indices: 31537843--31537940 Score: 81
Period size: 28 Copynumber: 3.5 Consensus size: 28
31537833 GAACGAAATC
31537843 CGCACACACAGTGCCCACTGACCGATCT
1 CGCACACACAGTGCCCACTGACCGATCT
* * ** * **
31537871 CGCACACATAGTGCTCGGTTAAAGAAT-T
1 CGCACACACAGTGCCCACTGACCG-ATCT
* *
31537899 CACACACACAGTGTCCACTGACCGATCT
1 CGCACACACAGTGCCCACTGACCGATCT
* *
31537927 TGCACACATAGTGC
1 CGCACACACAGTGC
31537941 TCGGTTAAAG
Statistics
Matches: 48, Mismatches: 20, Indels: 4
0.67 0.28 0.06
Matches are distributed among these distances:
27 2 0.04
28 44 0.92
29 2 0.04
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.19
Consensus pattern (28 bp):
CGCACACACAGTGCCCACTGACCGATCT
Found at i:31537932 original size:56 final size:56
Alignment explanation
Indices: 31537845--31537969 Score: 223
Period size: 56 Copynumber: 2.2 Consensus size: 56
31537835 ACGAAATCCG
*
31537845 CACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTCA
1 CACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTCA
* *
31537901 CACACACAGTGTCCACTGACCGATCTTGCACACATAGTGCTCGGTTAAAGAATTCG
1 CACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTCA
31537957 CACACACAGTGTC
1 CACACACAGTGTC
31537970 TCAATTCATT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 66 1.00
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (56 bp):
CACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTCA
Found at i:31537959 original size:28 final size:28
Alignment explanation
Indices: 31537870--31537967 Score: 83
Period size: 28 Copynumber: 3.5 Consensus size: 28
31537860 CTGACCGATC
*
31537870 TCGCACACATAGTGCTCGGTTAAAGAAT
1 TCGCACACACAGTGCTCGGTTAAAGAAT
* ** * **
31537898 TCACACACACAGTG-TCCACTGACCG-AT
1 TCGCACACACAGTGCT-CGGTTAAAGAAT
* *
31537925 CTTGCACACATAGTGCTCGGTTAAAGAAT
1 -TCGCACACACAGTGCTCGGTTAAAGAAT
31537954 TCGCACACACAGTG
1 TCGCACACACAGTG
31537968 TCTCAATTCA
Statistics
Matches: 49, Mismatches: 17, Indels: 8
0.66 0.23 0.11
Matches are distributed among these distances:
27 3 0.06
28 43 0.88
29 3 0.06
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (28 bp):
TCGCACACACAGTGCTCGGTTAAAGAAT
Found at i:31538219 original size:40 final size:40
Alignment explanation
Indices: 31538175--31538405 Score: 399
Period size: 40 Copynumber: 5.8 Consensus size: 40
31538165 CACGTCATCG
* *
31538175 GCACGAATGCCCTTCAGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
* *
31538215 GCACGAATGCTTTTCAGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
31538255 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
*
31538295 GCACAAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
*
31538335 GCACGAATGCTCTTCGGAACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
*
31538375 GCACGAATGCTCTTCGGGACTTAACCCGGAT
1 GCACGAATGCTCTTCGGGACTTAGCCCGGAT
31538406 CATCGTCGAG
Statistics
Matches: 182, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 182 1.00
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.20
Consensus pattern (40 bp):
GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
Found at i:31538510 original size:38 final size:38
Alignment explanation
Indices: 31538465--31538555 Score: 119
Period size: 38 Copynumber: 2.4 Consensus size: 38
31538455 ATTTTAATCT
* *
31538465 GGACATAATCTCTGCACATAGCCATCGGATCTTTACCC
1 GGACATAATCTCTACACATAGCCATCGGATATTTACCC
* * * *
31538503 GGGCATAATCTCCACACATAGTCATCGGGTATTTACCC
1 GGACATAATCTCTACACATAGCCATCGGATATTTACCC
*
31538541 GGACACAATCTCTAC
1 GGACATAATCTCTAC
31538556 TTATAGTTAT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.25
Consensus pattern (38 bp):
GGACATAATCTCTACACATAGCCATCGGATATTTACCC
Found at i:31538562 original size:38 final size:38
Alignment explanation
Indices: 31538465--31538575 Score: 105
Period size: 38 Copynumber: 2.9 Consensus size: 38
31538455 ATTTTAATCT
* ** * * *
31538465 GGACATAATCTCTGCACATAGCCATCGGATCTTTACCC
1 GGACACAATCTCCACACATAGTCATCGGGTATTTACCC
* *
31538503 GGGCATAATCTCCACACATAGTCATCGGGTATTTACCC
1 GGACACAATCTCCACACATAGTCATCGGGTATTTACCC
* ** * *
31538541 GGACACAATCTCTACTTATAGTTATCGGGTTTTTA
1 GGACACAATCTCCACACATAGTCATCGGGTATTTA
31538576 AGCCCGGATT
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (38 bp):
GGACACAATCTCCACACATAGTCATCGGGTATTTACCC
Found at i:31540030 original size:135 final size:135
Alignment explanation
Indices: 31539788--31540059 Score: 492
Period size: 135 Copynumber: 2.0 Consensus size: 135
31539778 GAGCTTCATC
*
31539788 TCGAACTATAATATCAATAAACGCATCACTTAACTCTTACAATAATATACTTTCGTACAATAGTG
1 TCGAACTATAATATCAATAAACGCATCACTTAACTCTCACAATAATATACTTTCGTACAATAGTG
*
31539853 ATCTAGATGGTCGAATATTTCCAAAGCACATTCTTCATCAATTGAAGATGGATTCACATGGGAAG
66 ATCTAGATGGTCGAAGATTTCCAAAGCACATTCTTCATCAATTGAAGATGGATTCACATGGGAAG
31539918 CACAT
131 CACAT
*
31539923 TCGAACTATAATATTAATAAACGCATCACTTAACTCTCAC-ATATATATACTTTCGTACAATAGT
1 TCGAACTATAATATCAATAAACGCATCACTTAACTCTCACAATA-ATATACTTTCGTACAATAGT
*
31539987 GATCTAGATGGTCGAAGATTTCCAAAGCACATTCTTCATCAATTGAAGATGGATTCACATGGTAA
65 GATCTAGATGGTCGAAGATTTCCAAAGCACATTCTTCATCAATTGAAGATGGATTCACATGGGAA
31540052 GCACAT
130 GCACAT
31540058 TC
1 TC
31540060 TTCACCAATT
Statistics
Matches: 132, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
134 3 0.02
135 129 0.98
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.31
Consensus pattern (135 bp):
TCGAACTATAATATCAATAAACGCATCACTTAACTCTCACAATAATATACTTTCGTACAATAGTG
ATCTAGATGGTCGAAGATTTCCAAAGCACATTCTTCATCAATTGAAGATGGATTCACATGGGAAG
CACAT
Found at i:31540913 original size:141 final size:141
Alignment explanation
Indices: 31540659--31541204 Score: 763
Period size: 141 Copynumber: 3.8 Consensus size: 141
31540649 CCCTTCGGGA
* * * *
31540659 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTCCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
* * * * *
31540724 CTTCACATCCATCACATCGGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATT
66 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
31540789 GGCCATTCAGC
131 GGCCATTCAGC
*
31540800 CTTATCACATATATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTCCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
*
31540865 TTTCACATTCATCACATTGGCCATTCA-GCCTTATCACATATATACACTTCCACATTCATCACAT
66 TTTCACATTCATCACATTGGCCATT-AGGCCTTATCACATATATACACTTTCACATTCATCACAT
*
31540929 TGGCCATTCGGC
130 TGGCCATTCAGC
* * *
31540941 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATCCA-GCTTTATCACATATATACA
1 CTTATCACATATATACACTTCCACATTCATCACATTGGCCAT-TAGGCCTTATCACATATATACA
31541005 CTTTCACATTCATCACATTGGCCATTAGGCCTTGTCACCATTAGGCCTTATCACATATATACACT
65 CTTTCACATTCAT--CA-----CATT--G----G---CCATTAGGCCTTATCACATATATACACT
31541070 TTCACATTCATCACATTGGCCATTCAGC
114 TTCACATTCATCACATTGGCCATTCAGC
*
31541098 CTTATCACATATATACACTTCCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTCCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
*
31541163 TTTCACATTCATCACATTGGCCATTAGGCCTTGTCACATATA
66 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATA
31541205 CATATCTTAT
Statistics
Matches: 362, Mismatches: 23, Indels: 40
0.85 0.05 0.09
Matches are distributed among these distances:
141 219 0.60
142 2 0.01
143 2 0.01
144 1 0.00
148 5 0.01
150 5 0.01
154 1 0.00
155 2 0.01
156 1 0.00
157 124 0.34
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTCCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
GGCCATTCAGC
Found at i:31541045 original size:16 final size:16
Alignment explanation
Indices: 31541026--31541058 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
31541016 ATCACATTGG
*
31541026 CCATTAGGCCTTGTCA
1 CCATTAGGCCTTATCA
31541042 CCATTAGGCCTTATCA
1 CCATTAGGCCTTATCA
31541058 C
1 C
31541059 ATATATACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.33, G:0.15, T:0.30
Consensus pattern (16 bp):
CCATTAGGCCTTATCA
Found at i:31541059 original size:47 final size:47
Alignment explanation
Indices: 31540659--31541204 Score: 661
Period size: 47 Copynumber: 11.3 Consensus size: 47
31540649 CCCTTCGGGA
* * *
31540659 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
31540706 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
31540753 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATT-AGGC
* *
31540800 CTTATCACATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
31540847 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATT-AGGC
* *
31540894 CTTATCACATATATACACTTCCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
31540941 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATCCA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAT-TAGGC
*
31540988 TTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* ** ** *
31541035 CTTGTCACCAT-TAGGC-CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCA-CATATATACACTT-TCAC--AT-T-CA---TCACATT-GGC-CATTAG-------GC
* *
31541098 CTTATCACATATATACACTTCCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
31541145 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
31541192 CTTGTCACATATA
1 CTTATCACATATA
31541205 CATATCTTAT
Statistics
Matches: 434, Mismatches: 39, Indels: 52
0.83 0.07 0.10
Matches are distributed among these distances:
46 5 0.01
47 368 0.85
48 5 0.01
49 2 0.00
50 1 0.00
51 2 0.00
54 12 0.03
55 2 0.00
56 12 0.03
59 2 0.00
60 1 0.00
61 2 0.00
62 3 0.01
63 14 0.03
64 3 0.01
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:31541059 original size:157 final size:157
Alignment explanation
Indices: 31540892--31541199 Score: 562
Period size: 157 Copynumber: 2.0 Consensus size: 157
31540882 TGGCCATTCA
*
31540892 GCCTTATCACATATATACACTTCCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 GCCTTATCACATATATACACTTCCACATTCATCACATTGGCCATTCAGCCTTATCACATATATAC
* *
31540957 ACTTTCACATTCATCACATTGGCCATCCAGCTTTATCACATATATACACTTTCACATTCATCACA
66 ACTTCCACATTCATCACATTGGCCATCCAGCCTTATCACATATATACACTTTCACATTCATCACA
31541022 TTGGCCATTAGGCCTTGTCACCATTAG
131 TTGGCCATTAGGCCTTGTCACCATTAG
*
31541049 GCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATAC
1 GCCTTATCACATATATACACTTCCACATTCATCACATTGGCCATTCAGCCTTATCACATATATAC
* *
31541114 ACTTCCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTCCACATTCATCACATTGGCCATCCAGCCTTATCACATATATACACTTTCACATTCATCACA
31541179 TTGGCCATTAGGCCTTGTCAC
131 TTGGCCATTAGGCCTTGTCAC
31541200 ATATACATAT
Statistics
Matches: 145, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 145 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (157 bp):
GCCTTATCACATATATACACTTCCACATTCATCACATTGGCCATTCAGCCTTATCACATATATAC
ACTTCCACATTCATCACATTGGCCATCCAGCCTTATCACATATATACACTTTCACATTCATCACA
TTGGCCATTAGGCCTTGTCACCATTAG
Found at i:31541060 original size:110 final size:110
Alignment explanation
Indices: 31540932--31541152 Score: 388
Period size: 110 Copynumber: 2.0 Consensus size: 110
31540922 ATCACATTGG
* *
31540932 CCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATCCAGCTTTATCACA
1 CCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATCCAGCCTTATCACA
* *
31540997 TATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTGTCA
66 TATATACACTTCCACATTCATCACATTGGCCATTAGGCCTTATCA
*
31541042 CCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACA
1 CCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATCCAGCCTTATCACA
*
31541107 TATATACACTTCCACATTCATCACATTGGCCATTCGGCCTTATCA
66 TATATACACTTCCACATTCATCACATTGGCCATTAGGCCTTATCA
31541152 C
1 C
31541153 ATATATACAC
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
110 105 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (110 bp):
CCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATCCAGCCTTATCACA
TATATACACTTCCACATTCATCACATTGGCCATTAGGCCTTATCA
Found at i:31541104 original size:22 final size:22
Alignment explanation
Indices: 31541079--31541154 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
31541069 TTTCACATTC
31541079 ATCACATTGGCCATTCAGCCTT
1 ATCACATTGGCCATTCAGCCTT
*** *
31541101 ATCACATATATACACTTCCA-CATT
1 ATCACAT-TGGCCA-TT-CAGCCTT
*
31541125 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCAGCCTT
31541148 ATCACAT
1 ATCACAT
31541155 ATATACACTT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGCCTT
Done.