Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 119 of 356
Found at i:38019335 original size:27 final size:27
Alignment explanation
Indices: 38019304--38019589 Score: 360
Period size: 27 Copynumber: 10.6 Consensus size: 27
38019294 TTAGTTTACT
38019304 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
38019331 AAATTACTAAAATA-CCCTCGGTTTATA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
38019358 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
38019385 AAATTACCAAAATACTCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
38019412 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
38019439 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
38019466 AAATTACCAAAATACACCTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
38019493 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
38019520 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
38019547 AAATTACCAAAATATCTCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
*
38019574 AAATTA-CTAAATACCC
1 AAATTACCAAAATACCC
38019590 TCGACCTATA
Statistics
Matches: 221, Mismatches: 36, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
26 11 0.05
27 206 0.93
28 4 0.02
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:38019669 original size:27 final size:27
Alignment explanation
Indices: 38019304--38019669 Score: 273
Period size: 27 Copynumber: 13.6 Consensus size: 27
38019294 TTAGTTTACT
*
38019304 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * *
38019331 AAATTACTAAAATACCCTCGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
38019358 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * **
38019385 AAATTACCAAAATACTCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
38019412 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * *
38019439 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TCGATTTGTA
* *
38019466 AAATTACCAAAATACACCT-GGTTTATA
1 AAATTACCAAAATAC-CCTCGATTTGTA
*
38019493 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
38019520 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
38019547 AAATTACCAAAATA-TCTCTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
* ** *
38019574 AAATTA-CTAAATACCCTCGACCTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*** ** *
38019600 AAATTATTGAAATACCCTCGACCTATA
1 AAATTACCAAAATACCCTCGATTTGTA
** *
38019627 AAATTATTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
38019654 AAATTACCAAAGTACC
1 AAATTACCAAAATACC
38019670 ATTGATTTAC
Statistics
Matches: 281, Mismatches: 43, Indels: 30
0.79 0.12 0.08
Matches are distributed among these distances:
26 21 0.07
27 256 0.91
28 4 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:38019723 original size:27 final size:27
Alignment explanation
Indices: 38019329--38019724 Score: 135
Period size: 27 Copynumber: 14.7 Consensus size: 27
38019319 CCCTGGTTTG
** **
38019329 TAAAATTACTAAAATACCCTCGGTTTA
1 TAAAATTACCGAAATACCCTCGACTTA
* * ** *
38019356 TAAAATCACCAAAATACCC-CTGGTTTG
1 TAAAATTACCGAAATACCCTC-GACTTA
* * * **
38019383 TAAAATTACCAAAATACTCTTGGTTTA
1 TAAAATTACCGAAATACCCTCGACTTA
* * * * *
38019410 CAAAATTACCAAAATACCC-CTAGTTTG
1 TAAAATTACCGAAATACCCTCGA-CTTA
** * *
38019437 TAAAATTACTAAAATACCCTTTG-TTTA
1 TAAAATTACCGAAATACCC-TCGACTTA
* **
38019464 TAAAATTACCAAAATACACCT-GGTTTA
1 TAAAATTACCGAAATAC-CCTCGACTTA
* ** *
38019491 TAAAATTACCAAAATACCC-CTGGTTTG
1 TAAAATTACCGAAATACCCTC-GACTTA
* * * * *
38019518 TAAAATTATCAAAATACCC-CTAGTTTG
1 TAAAATTACCGAAATACCCTCGA-CTTA
* * * *
38019545 TAAAATTACCAAAATA-TCTCTGATTTG
1 TAAAATTACCGAAATACCCTC-GACTTA
* * *
38019572 TGAAATTA-CTAAATACCCTCGACCTA
1 TAAAATTACCGAAATACCCTCGACTTA
** *
38019598 TAAAATTATTGAAATACCCTCGACCTA
1 TAAAATTACCGAAATACCCTCGACTTA
*** *
38019625 TAAAATTATTAAAATACCCTCGACTTG
1 TAAAATTACCGAAATACCCTCGACTTA
* * *
38019652 TAAAATTACC-AAAGTACCATTGATTTA
1 TAAAATTACCGAAA-TACCCTCGACTTA
* * ***
38019679 CAGAATTACCGTTTTACCCTCGACTTA
1 TAAAATTACCGAAATACCCTCGACTTA
*
38019706 CAAAATTACCGAAATACCC
1 TAAAATTACCGAAATACCC
38019725 CTGTAGGGTA
Statistics
Matches: 297, Mismatches: 56, Indels: 32
0.77 0.15 0.08
Matches are distributed among these distances:
26 24 0.08
27 270 0.91
28 3 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTCGACTTA
Found at i:38019739 original size:27 final size:27
Alignment explanation
Indices: 38019709--38020020 Score: 473
Period size: 27 Copynumber: 11.6 Consensus size: 27
38019699 CGACTTACAA
38019709 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
38019736 AATTACCGGAATACCCCTGTGGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38019763 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
38019790 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
38019817 AATTATCGCAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38019844 AATTACAGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38019871 AATTACCGAAATACCCCTGTAGGGTAC
1 AATTACCGAAATACCCCTGTAGGGTAG
38019898 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
38019925 AATTACCGAAATACCCCTGTAGTGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
38019952 AATTATCGCAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
38019979 AATTACTGAAATACCCCTATAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
38020006 AATTACC-AAGATACC
1 AATTACCGAA-ATACC
38020021 TTGTGGGGTA
Statistics
Matches: 258, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
26 2 0.01
27 256 0.99
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:38020517 original size:22 final size:22
Alignment explanation
Indices: 38020465--38020529 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
38020455 TTAAAGCCTT
* *
38020465 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
38020487 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
38020509 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
38020530 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:38020719 original size:27 final size:27
Alignment explanation
Indices: 38020689--38020763 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
38020679 TTCTGTTAAG
* *
38020689 TGGCTTTGCCACATTATCTGTTTCTGA
1 TGGCTATGCCACAATATCTGTTTCTGA
*
38020716 TGGCTATGCCACAAATATCTG-TTCTGG
1 TGGCTATGCCAC-AATATCTGTTTCTGA
*
38020743 TGGCTCTGCCACAATATCTGT
1 TGGCTATGCCACAATATCTGT
38020764 ATCTAGTGAC
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.19
27 27 0.64
28 7 0.17
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (27 bp):
TGGCTATGCCACAATATCTGTTTCTGA
Found at i:38020782 original size:27 final size:26
Alignment explanation
Indices: 38020695--38020789 Score: 75
Period size: 27 Copynumber: 3.5 Consensus size: 26
38020685 TAAGTGGCTT
* * *
38020695 TGCCACATTATCTGTTTCT-GATGGCTA
1 TGCCACAATATCTG-TTCTAG-TGACTC
* *
38020722 TGCCACAAATATCTGTTCTGGTGGCTC
1 TGCCAC-AATATCTGTTCTAGTGACTC
*
38020749 TGCCACAATATCTGTATCTAGTGACTT
1 TGCCACAATATCTGT-TCTAGTGACTC
* *
38020776 TGTCACAACATCTG
1 TGCCACAATATCTG
38020790 ATAACTGAGC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 9 0.16
27 41 0.71
28 8 0.14
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTAGTGACTC
Found at i:38020972 original size:31 final size:31
Alignment explanation
Indices: 38020926--38021036 Score: 127
Period size: 31 Copynumber: 3.5 Consensus size: 31
38020916 TTGCATTCAC
*
38020926 ATTCTGATTTTTGATTCTGTTTCCTGATACTA
1 ATTCTGA-TTCTGATTCTGTTTCCTGATACTA
* * * *
38020958 ATTCTGATTTTGATTCTATTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTTCCTGATACTA
*
38020989 ATTCTGATTCTGATTCTGATT-CTG-TCACTTA
1 ATTCTGATTCTGATTCTGTTTCCTGAT-AC-TA
38021020 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
38021037 AATTCTAGTT
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.01
30 5 0.07
31 56 0.81
32 7 0.10
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTTCCTGATACTA
Found at i:38020989 original size:6 final size:6
Alignment explanation
Indices: 38020926--38021051 Score: 87
Period size: 6 Copynumber: 20.3 Consensus size: 6
38020916 TTGCATTCAC
* * * * *
38020926 ATTCTG ATTTTTG ATTCTG TTTCCTG ATACTA ATTCTG ATTTTG ATTCT-
1 ATTCTG A-TTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
38020975 ATTACCTG ATACTG ATTCTG ATTCTG ATTCTG ATTCTG -TCACTTA ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG
*
38021026 ATTCTG ATTCTA ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
38021052 AATGTTTCTT
Statistics
Matches: 93, Mismatches: 17, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
5 5 0.05
6 71 0.76
7 14 0.15
8 3 0.03
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:38033447 original size:42 final size:43
Alignment explanation
Indices: 38033347--38033515 Score: 125
Period size: 43 Copynumber: 4.0 Consensus size: 43
38033337 AGCTCGTACA
* ***
38033347 ATGCCAACGTCCCAAAC-GAGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAAACAG-GGTCTTACACAAAATCAAATATCG
* * * *
38033390 ATGCCACTATCCCAAACAGGGTCTTACACAAAATTATATA-CG
1 ATGCCAATGTCCCAAACAGGGTCTTACACAAAATCAAATATCG
* *
38033432 ATGCCAATGTCCCAAACATGGTCTTACTCATAAATCTCAAAT-T-G
1 ATGCCAATGTCCCAAACAGGGTCTTACACA-AAA--TCAAATATCG
* * * *
38033476 ATGCCAACGTCCC--AGAGTGGTCTTACACGAAATCACATAT
1 ATGCCAATGTCCCAAACAG-GGTCTTACACAAAATCAAATAT
38033516 TAGAATCCTA
Statistics
Matches: 99, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
40 5 0.05
41 1 0.01
42 33 0.33
43 42 0.42
44 14 0.14
45 4 0.04
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACAGGGTCTTACACAAAATCAAATATCG
Found at i:38040763 original size:48 final size:48
Alignment explanation
Indices: 38040709--38040822 Score: 201
Period size: 48 Copynumber: 2.4 Consensus size: 48
38040699 ATCGATATGT
* * *
38040709 GATCCCATGTAAGACCATGTCTGGGACATGGCATTTGCATCGATCTAC
1 GATCCCATGTAAGACCATGTCTAGGACATAGCATTGGCATCGATCTAC
38040757 GATCCCATGTAAGACCATGTCTAGGACATAGCATTGGCATCGATCTAC
1 GATCCCATGTAAGACCATGTCTAGGACATAGCATTGGCATCGATCTAC
38040805 GATCCCATGTAAGACCAT
1 GATCCCATGTAAGACCAT
38040823 ATCCGAGATA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTAGGACATAGCATTGGCATCGATCTAC
Found at i:38040839 original size:48 final size:47
Alignment explanation
Indices: 38040709--38040844 Score: 166
Period size: 48 Copynumber: 2.8 Consensus size: 47
38040699 ATCGATATGT
* * * *
38040709 GATCCCATGTAAGACCATGTCTGGGACATGGCATTTGCATCGATCTAC
1 GATCCCATGTAAGACCATGTCCGAGATA-GGCATTGGCATCGATCTAC
* *
38040757 GATCCCATGTAAGACCATGTCTAGGACATA-GCATTGGCATCGATCTAC
1 GATCCCATGTAAGACCATGTC--CGAGATAGGCATTGGCATCGATCTAC
*
38040805 GATCCCATGTAAGACCATATCCGAGATACGGCATTGGCAT
1 GATCCCATGTAAGACCATGTCCGAGATA-GGCATTGGCAT
38040845 TCTACCATGT
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
46 5 0.07
48 68 0.89
50 3 0.04
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (47 bp):
GATCCCATGTAAGACCATGTCCGAGATAGGCATTGGCATCGATCTAC
Found at i:38051225 original size:48 final size:47
Alignment explanation
Indices: 38051119--38051529 Score: 239
Period size: 46 Copynumber: 8.7 Consensus size: 47
38051109 TTATTTGTGT
* * *
38051119 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-TATTATGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACATTA-GATGAGA
*
38051165 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATT-AGATGAGA
* * * * * *
38051213 ACTAATGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAT-TAGATG-AGA
* ** *
38051259 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACAAGATGTG-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-ATTAGATGAGA
* * *
38051304 TC-AGTGTAAGACCATGTCTGGGACATGGTATCGACACGTATAGA-G-GT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACA--T-TAGATGAGA
* * *
38051351 G-TCAATGTAAGACCATGTCTGGGACAAGGCATCGGCACGAATATG-TGAGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATC-G-AC-ATTA-GATGAGA
* * * *
38051401 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGATTTCGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTAGA--T-GAGA
** * *
38051450 G-TCAGTGTAAGACCATGTCTGAAACATGGGATCGAC-TT-GATGGTTGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGACATTAGAT-G-AGA
*
38051497 G-TCAGTGTAAGACCATGTCTGGGACATGTCATC
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATC
38051530 CCTATGTTTG
Statistics
Matches: 289, Mismatches: 47, Indels: 57
0.74 0.12 0.15
Matches are distributed among these distances:
44 9 0.03
45 17 0.06
46 70 0.24
47 63 0.22
48 57 0.20
49 39 0.13
50 32 0.11
51 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTAGATGAGA
Found at i:38051477 original size:49 final size:46
Alignment explanation
Indices: 38051303--38051517 Score: 144
Period size: 48 Copynumber: 4.5 Consensus size: 46
38051293 TACAAGATGT
** * * ** *
38051303 GTCAGTGTAAGACCATGTCTGGGACATGGTATCGACACGTATAGAGGT
1 GTCAGTGTAAGACCATGTCTGAAACATGGCATCGACTCG-AT-GTTGA
* ** * * * *
38051351 GTCAATGTAAGACCATGTCTGGGACAAGGCATCGGCACGAATATGTGA
1 GTCAGTGTAAGACCATGTCTGAAACATGGCATCGACTCG-ATGT-TGA
* ** *
38051399 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT-TTCGATA
1 G-TC-AGTGTAAGACCATGTCTGAAACATGGCATC-GACTCGATGTT-G--A
* *
38051450 GTCAGTGTAAGACCATGTCTGAAACATGGGATCGACTTGATGGTTGA
1 GTCAGTGTAAGACCATGTCTGAAACATGGCATCGACTCGAT-GTTGA
38051497 GTCAGTGTAAGACCATGTCTG
1 GTCAGTGTAAGACCATGTCTG
38051518 GGACATGTCA
Statistics
Matches: 138, Mismatches: 20, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
47 22 0.16
48 46 0.33
49 31 0.22
50 33 0.24
51 6 0.04
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
GTCAGTGTAAGACCATGTCTGAAACATGGCATCGACTCGATGTTGA
Found at i:38062689 original size:27 final size:27
Alignment explanation
Indices: 38062555--38062691 Score: 202
Period size: 27 Copynumber: 5.1 Consensus size: 27
38062545 GTATTACAGA
* * *
38062555 CATTTTACCCTATAGAGGTATTTCGGC
1 CATTTTACCCTATGGGGGTATTTCGGT
*
38062582 CATTTTACCCTATGGGGGTATTTCGAT
1 CATTTTACCCTATGGGGGTATTTCGGT
* *
38062609 CATTTTACCCCATGAGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCGGT
* *
38062636 CATTTTACACTATGAGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCGGT
38062663 CATTTTACCCTATGGGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCGGT
38062690 CA
1 CA
38062692 CCATTTCGGC
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 99 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.39
Consensus pattern (27 bp):
CATTTTACCCTATGGGGGTATTTCGGT
Found at i:38068969 original size:16 final size:16
Alignment explanation
Indices: 38068948--38068979 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38068938 AGTTTCCTTG
38068948 TTTTGTTTTATGGCAT
1 TTTTGTTTTATGGCAT
*
38068964 TTTTGTTTTCTGGCAT
1 TTTTGTTTTATGGCAT
38068980 GTATAGGGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.09, G:0.19, T:0.62
Consensus pattern (16 bp):
TTTTGTTTTATGGCAT
Found at i:38084681 original size:50 final size:48
Alignment explanation
Indices: 38084564--38084700 Score: 202
Period size: 49 Copynumber: 2.8 Consensus size: 48
38084554 ATGGAGTAAG
* * *
38084564 GTGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATCTTC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATATTC
* *
38084612 GAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCATATTC
1 G-TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAT--CATATTC
38084663 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
38084701 CCACAATAAC
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
48 1 0.01
49 36 0.45
50 36 0.45
51 7 0.09
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.27
Consensus pattern (48 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATATTC
Found at i:38087391 original size:14 final size:15
Alignment explanation
Indices: 38087367--38087395 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
38087357 ATCAAAATTT
38087367 ATATCACATTTAAGA
1 ATATCACATTTAAGA
38087382 ATAT-ACATTTAAGA
1 ATATCACATTTAAGA
38087396 GTTTTAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.34
Consensus pattern (15 bp):
ATATCACATTTAAGA
Found at i:38092090 original size:22 final size:22
Alignment explanation
Indices: 38092065--38092107 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
38092055 TTATAGCATG
*
38092065 CTACGCTCCTTGTCCGGCACTA
1 CTACGCTCCTTGTCCGACACTA
38092087 CTACGCTCCTTGTCCGACACT
1 CTACGCTCCTTGTCCGACACT
38092108 CTTTGAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.42, G:0.16, T:0.28
Consensus pattern (22 bp):
CTACGCTCCTTGTCCGACACTA
Found at i:38105965 original size:33 final size:33
Alignment explanation
Indices: 38105920--38105982 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
38105910 GATTAAAGAG
*
38105920 TAAATTAGTCATTTCTATTAAATATTTTTTTAA
1 TAAATTAATCATTTCTATTAAATATTTTTTTAA
38105953 TAAATTAATCATTTCTATTAAATATTTTTT
1 TAAATTAATCATTTCTATTAAATATTTTTT
38105983 CCATTTGTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.56
Consensus pattern (33 bp):
TAAATTAATCATTTCTATTAAATATTTTTTTAA
Found at i:38109426 original size:17 final size:17
Alignment explanation
Indices: 38109404--38109440 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
38109394 ACTTTATATG
38109404 TTTTATGTATTATTTAT
1 TTTTATGTATTATTTAT
* *
38109421 TTTTATTTTTTATTTAT
1 TTTTATGTATTATTTAT
38109438 TTT
1 TTT
38109441 GCAATCTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTATGTATTATTTAT
Found at i:38109806 original size:19 final size:19
Alignment explanation
Indices: 38109778--38109815 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
38109768 TTGAGATTGC
38109778 CAACCAATTTGCCTGAAAT
1 CAACCAATTTGCCTGAAAT
* *
38109797 CAACCTATTTGCTTGAAAT
1 CAACCAATTTGCCTGAAAT
38109816 TATTCATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (19 bp):
CAACCAATTTGCCTGAAAT
Found at i:38109909 original size:6 final size:7
Alignment explanation
Indices: 38109891--38109916 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
38109881 CACTCCCTTT
38109891 TAAAAAA
1 TAAAAAA
38109898 TAAAAAA
1 TAAAAAA
38109905 TAAAAAA
1 TAAAAAA
38109912 TAAAA
1 TAAAA
38109917 TTTCAAAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:38111960 original size:19 final size:19
Alignment explanation
Indices: 38111938--38111981 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
38111928 CCCATGCATT
38111938 TGCATTGCATTGCATCATG
1 TGCATTGCATTGCATCATG
*
38111957 TGCATTGCATTGCATCATT
1 TGCATTGCATTGCATCATG
38111976 TGCATT
1 TGCATT
38111982 AGATTTTCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (19 bp):
TGCATTGCATTGCATCATG
Found at i:38117627 original size:47 final size:47
Alignment explanation
Indices: 38117548--38117860 Score: 509
Period size: 47 Copynumber: 6.6 Consensus size: 47
38117538 TATTTGAATA
38117548 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
38117597 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
38117644 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
38117693 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
38117740 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
38117787 AATGTGAAAGCGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
38117834 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
38117861 TCCCGAAGGG
Statistics
Matches: 250, Mismatches: 12, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
47 191 0.76
49 59 0.24
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:38117660 original size:96 final size:96
Alignment explanation
Indices: 38117548--38117860 Score: 526
Period size: 96 Copynumber: 3.3 Consensus size: 96
38117538 TATTTGAATA
38117548 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
38117613 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
38117644 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
38117709 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
*
38117740 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * * * * *
38117803 TATGTGACAGGGCCGAGTGGCCAACGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
*
38117834 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
38117861 TCCCGAAGGG
Statistics
Matches: 207, Mismatches: 8, Indels: 6
0.94 0.04 0.03
Matches are distributed among these distances:
94 96 0.46
95 1 0.00
96 110 0.53
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:38117723 original size:143 final size:141
Alignment explanation
Indices: 38117548--38117860 Score: 509
Period size: 143 Copynumber: 2.2 Consensus size: 141
38117538 TATTTGAATA
38117548 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * *
38117613 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCG--TATATATGTGACAAGGCCGA
* *
38117678 ATGGCCGATGTGATG
127 ATGGCCAACGTGATG
38117693 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
38117758 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATGTGACAGGGCCGAGTGG
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATGTGACAAGGCCGAATGG
38117823 CCAACGTGATG
131 CCAACGTGATG
* *
38117834 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
38117861 TCCCGAAGGG
Statistics
Matches: 159, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
141 54 0.34
143 93 0.58
145 12 0.08
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATGTGACAAGGCCGAATGG
CCAACGTGATG
Found at i:38119259 original size:43 final size:43
Alignment explanation
Indices: 38119211--38119313 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
38119201 TTGGTTTTCA
38119211 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
38119254 GCACTAAGTGTGCAGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
38119297 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
38119314 TTGAAATGCA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:38119330 original size:29 final size:29
Alignment explanation
Indices: 38119295--38119368 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
38119285 GTTGTGAGAT
* *
38119295 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
38119324 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
38119353 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38119369 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:38119806 original size:40 final size:40
Alignment explanation
Indices: 38119756--38119907 Score: 169
Period size: 40 Copynumber: 3.8 Consensus size: 40
38119746 GAGTTACTAA
* *
38119756 ATCCAAGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGAGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* ** *
38119796 ATCCGGGCTAAGTTTCGAAGAGCATTCATGCTATTGATAT
1 ATCCGAGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* ** * * *
38119836 ATCCGTGCTAAACCCCAAAGAGCATTCGTGCTAGTGTTAT
1 ATCCGAGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * *
38119876 GTCCGAGCTAGGTCCCGAAGAGCAATCATGCT
1 ATCCGAGCTAAGTCCCGAAGAGCATTCATGCT
38119908 GATGACGTGT
Statistics
Matches: 89, Mismatches: 23, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (40 bp):
ATCCGAGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
Found at i:38124262 original size:47 final size:47
Alignment explanation
Indices: 38124183--38124495 Score: 491
Period size: 47 Copynumber: 6.6 Consensus size: 47
38124173 TATTTGAATA
*
38124183 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGACCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
38124232 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
38124279 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
38124328 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
38124375 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
38124422 AATGTGAAAGCGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
38124469 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
38124496 TCCCGAAGGG
Statistics
Matches: 247, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
47 189 0.77
49 58 0.23
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:38124295 original size:96 final size:96
Alignment explanation
Indices: 38124183--38124495 Score: 508
Period size: 96 Copynumber: 3.3 Consensus size: 96
38124173 TATTTGAATA
*
38124183 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
38124248 TATGTGATAAGGCCTAATGGTCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
38124279 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
38124344 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
*
38124375 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * * * * *
38124438 TATGTGACAGGGCCGAGTGGCCAACGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
*
38124469 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
38124496 TCCCGAAGGG
Statistics
Matches: 205, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
94 96 0.47
95 1 0.00
96 108 0.53
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:38127059 original size:88 final size:87
Alignment explanation
Indices: 38126910--38127133 Score: 360
Period size: 88 Copynumber: 2.6 Consensus size: 87
38126900 AGCTGAAGAT
*
38126910 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGTAGATCGAAGACATAGCTAATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGC-GGGAGCAGATCGAAGACATAGCTAATTTGGCT
* *
38126975 TTCACGTGTTTACGTTAAAGTAG
65 TTCACGTGTTTACGTTAAAGCAA
*
38126998 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGC-GGGAGCAGATCGAAGACATAGCTAATTTGGCT
*
38127063 TTCACGTGTTTACGTTGAAGCAA
65 TTCACGTGTTTACGTTAAAGCAA
*
38127086 ATCCAAGATGATTTGGCATCTCTGTAGC-GGCGGAGAGCAGATCGAAGA
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGG-GAGCAGATCGAAGA
38127134 TAACAGATTT
Statistics
Matches: 128, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
86 2 0.02
87 17 0.13
88 109 0.85
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (87 bp):
ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGAGCAGATCGAAGACATAGCTAATTTGGCTT
TCACGTGTTTACGTTAAAGCAA
Found at i:38127152 original size:44 final size:44
Alignment explanation
Indices: 38127095--38127855 Score: 1136
Period size: 44 Copynumber: 17.4 Consensus size: 44
38127085 AATCCAAGAT
*
38127095 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
38127139 GATTTGGCGTCTCTGTAGCGGC-GAGGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGA-GAGCAGATCGAAGATAACA
** *
38127183 GATTTGGCGTCTCTGTAGCGGTAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
38127227 GATTTGGCGTTTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
38127271 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
38127315 GATTTGGCGTCTCTGTAACGGCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
38127359 GATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATTGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
38127403 GATTTGGTGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
38127447 GATTTGGCTTCTCTGTAGCGGTGGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
38127491 GATTTAGCGTCTCTGTAGCGGCGGAGAGTAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
38127535 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * * * *
38127579 GATTTGGCGCCTTTGTAGTGGCAGAGAGCAGATCGAAAATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
38127623 GATTTGGCGTCTTTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
38127667 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
38127707 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * * * *
38127751 TATTTTGCGTCTCTATAGCAGCGGAGAGCAAATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
38127795 GATTTGGCATCTCTGTAGCGGCGGAAAGCAGATCGAAGATAACG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
38127839 GATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTA
38127856 TTAGACGGGG
Statistics
Matches: 651, Mismatches: 60, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
40 39 0.06
43 2 0.00
44 608 0.93
45 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.22
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:38128167 original size:16 final size:17
Alignment explanation
Indices: 38128146--38128189 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
38128136 AATACAACCC
38128146 AAAATAAAAAAT-AAAA
1 AAAATAAAAAATGAAAA
*
38128162 AAAATAAAAAATGAAGA
1 AAAATAAAAAATGAAAA
*
38128179 AAAAGAAAAAA
1 AAAATAAAAAA
38128190 ACCTAACCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.84, C:0.00, G:0.07, T:0.09
Consensus pattern (17 bp):
AAAATAAAAAATGAAAA
Found at i:38129398 original size:19 final size:19
Alignment explanation
Indices: 38129374--38129411 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
38129364 TTGAGATTGC
38129374 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
*
38129393 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
38129412 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:38129505 original size:6 final size:7
Alignment explanation
Indices: 38129487--38129512 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
38129477 CACTCCCTTT
38129487 TAAAAAA
1 TAAAAAA
38129494 TAAAAAA
1 TAAAAAA
38129501 TAAAAAA
1 TAAAAAA
38129508 TAAAA
1 TAAAA
38129513 TTTCAAAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:38132988 original size:35 final size:36
Alignment explanation
Indices: 38132946--38133043 Score: 130
Period size: 35 Copynumber: 2.7 Consensus size: 36
38132936 ATTACAAAAT
38132946 CATATCATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATCTAAGATTGCATATCATATCTAAGATTG
38132982 CA-ATCATATCTAAGATTG--TATCATATCTAAGATTG
1 CATATC--ATCTAAGATTGCATATCATATCTAAGATTG
*
38133017 CATATCACATTTAAGATTGCATATCAT
1 CATAT--CATCTAAGATTGCATATCAT
38133044 TGAAGATTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 12
0.81 0.01 0.18
Matches are distributed among these distances:
35 22 0.41
36 14 0.26
37 11 0.20
38 7 0.13
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (36 bp):
CATATCATCTAAGATTGCATATCATATCTAAGATTG
Found at i:38133022 original size:14 final size:15
Alignment explanation
Indices: 38132967--38133022 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
38132957 AGATTGCATA
38132967 TCATATCTAAGATTG
1 TCATATCTAAGATTG
38132982 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
38133000 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
38133017 -CATATC
1 TCATATC
38133023 ACATTTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:38133051 original size:17 final size:19
Alignment explanation
Indices: 38132952--38133043 Score: 145
Period size: 19 Copynumber: 5.0 Consensus size: 19
38132942 AAATCATATC
38132952 ATCTAAGATTGCATATCAT
1 ATCTAAGATTGCATATCAT
38132971 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATATCAT
38132989 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATATCAT
*
38133006 ATCTAAGATTGCATATCAC
1 ATCTAAGATTGCATATCAT
*
38133025 ATTTAAGATTGCATATCAT
1 ATCTAAGATTGCATATCAT
38133044 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 35 0.52
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
ATCTAAGATTGCATATCAT
Found at i:38133452 original size:45 final size:45
Alignment explanation
Indices: 38133390--38133663 Score: 241
Period size: 45 Copynumber: 6.1 Consensus size: 45
38133380 GAAAGGTGAT
* * *
38133390 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* *
38133435 ATCCGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* ** * *
38133480 ATTTACT-TCTTCAATCTGCTCCCCGTCTGATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * *
38133524 ATCTGTTATCTCCAATTTTCTCCCCGTCTAATACAAAGATGTCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * * * * *
38133569 ATCTGTCATATTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAG
1 ATCTGTTATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAA
*
38133614 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
38133661 ATC
1 ATC
38133664 ATCTTGGATC
Statistics
Matches: 179, Mismatches: 41, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
43 6 0.03
44 43 0.24
45 100 0.56
46 1 0.01
47 18 0.10
48 5 0.03
49 6 0.03
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:38133732 original size:78 final size:78
Alignment explanation
Indices: 38133603--38133759 Score: 278
Period size: 78 Copynumber: 2.0 Consensus size: 78
38133593 ATGTAAACAC
*
38133603 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
38133668 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
38133681 ATGAAGGTCAGATCTATTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
38133746 TGGATTTGCTTCA
66 TGGATCTGCTTCA
38133759 A
1 A
38133760 CGTAAACACG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:38133847 original size:87 final size:87
Alignment explanation
Indices: 38133700--38134176 Score: 792
Period size: 87 Copynumber: 5.5 Consensus size: 87
38133690 AGATCTATTG
* * * *
38133700 TGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATTTGCTTCAACGTAA
1 TGTCTTCGATCTGCTCCCTG-CCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAA
38133765 ACACGTGAAAGCCAAATCAGCTA
65 ACACGTGAAAGCCAAATCAGCTA
*
38133788 TGTCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGCAAA
1 TGTCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAA
* *
38133853 CAAGTGAAAACCAAATCAGCTA
66 CACGTGAAAGCCAAATCAGCTA
* * * *
38133875 TGTCCTCGATCTGCTCCCTGTCAATACAGAGACACCAAATCATCTTAGATTTGCTTCAACGCAAA
1 TGTCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAA
38133940 CACGTGAAAGCCAAATCAGCTA
66 CACGTGAAAGCCAAATCAGCTA
*
38133962 TGTCTTCGATCTGCTCCTTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAA
1 TGTCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAA
*
38134027 CACGTGAAAGCCAAATCAACTA
66 CACGTGAAAGCCAAATCAGCTA
* *
38134049 TGTCTTTGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAAGGTAAA
1 TGTCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAA
38134114 CACGTGAAAGCCAAATCAGCTA
66 CACGTGAAAGCCAAATCAGCTA
* *
38134136 TGTCCTCGATCTGCTCCCTGCCAATACAGATACGCCAAATC
1 TGTCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATC
38134177 TGCTGTCTTC
Statistics
Matches: 364, Mismatches: 25, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
87 345 0.95
88 19 0.05
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (87 bp):
TGTCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAA
CACGTGAAAGCCAAATCAGCTA
Found at i:38134192 original size:44 final size:44
Alignment explanation
Indices: 38134144--38134308 Score: 231
Period size: 44 Copynumber: 3.8 Consensus size: 44
38134134 TATGTCCTCG
* * * * *
38134144 ATCTGCTCCCTGCCAATACAGATACGCCAAATCTGCTGTCTTCG
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGTTATCTTCA
* *
38134188 ATCTGCTCTCTGCCAATACAGAGATGTCAAATCTGTTATCTTCA
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGTTATCTTCA
* *
38134232 ATCTGCTCTCTGCCAATACAGAGATGCCAAATTTGTTATCTTCA
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGTTATCTTCA
* *
38134276 ATCTGCTCTCTGACAATACAGGGACGCCAAATC
1 ATCTGCTCTCTGCCAATACAGAGACGCCAAATC
38134309 ATCTTGGATC
Statistics
Matches: 108, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 108 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (44 bp):
ATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGTTATCTTCA
Found at i:38142105 original size:22 final size:21
Alignment explanation
Indices: 38142070--38142145 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
38142060 AAAGGATATC
* *
38142070 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
38142091 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
38142114 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
38142133 TGC-AATCATATCT
1 TACAAATCATATCT
38142146 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:38142162 original size:35 final size:37
Alignment explanation
Indices: 38142106--38142196 Score: 141
Period size: 35 Copynumber: 2.5 Consensus size: 37
38142096 AATCATATCT
*
38142106 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCACA
38142143 TCTAAGATTG-TATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGATATCATATCTAAGATTGCATATCACA
38142179 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
38142197 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 19 0.38
36 15 0.30
37 10 0.20
38 6 0.12
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCACA
Found at i:38142175 original size:14 final size:15
Alignment explanation
Indices: 38142120--38142175 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
38142110 AGATTGCATA
38142120 TCATATCTAAGATTG
1 TCATATCTAAGATTG
38142135 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
38142153 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
38142170 -CATATC
1 TCATATC
38142176 ACATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:38142204 original size:17 final size:19
Alignment explanation
Indices: 38142106--38142196 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
38142096 AATCATATCT
38142106 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
38142125 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
38142143 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
38142160 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
38142179 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
38142197 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 35 0.52
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:38142348 original size:21 final size:20
Alignment explanation
Indices: 38142311--38142349 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
38142301 GAACTTGGAC
**
38142311 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
38142331 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
38142350 TCTGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:38149409 original size:46 final size:46
Alignment explanation
Indices: 38149359--38149531 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
38149349 TGGTTGAGCA
38149359 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
38149405 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
38149450 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
38149498 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
38149532 AGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38149515 original size:93 final size:93
Alignment explanation
Indices: 38149356--38149526 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
38149346 GGATGGTTGA
* * *
38149356 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38149421 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
38149449 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38149514 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
38149527 ACTTAAGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:38157983 original size:19 final size:17
Alignment explanation
Indices: 38157940--38157986 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 17
38157930 GAAAAAAACC
38157940 TTAAAAAATATTTAAAA
1 TTAAAAAATATTTAAAA
38157957 TTGCAAAAAATCATTTTAAAA
1 TT--AAAAAAT-A-TTTAAAA
38157978 TTAAAAAAT
1 TTAAAAAAT
38157987 TACAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.08
19 14 0.54
20 1 0.04
21 9 0.35
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (17 bp):
TTAAAAAATATTTAAAA
Found at i:38157984 original size:20 final size:19
Alignment explanation
Indices: 38157942--38157985 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
38157932 AAAAAACCTT
*
38157942 AAAAAATATTTAAAATTGC
1 AAAAAATATTTAAAATTGA
38157961 AAAAAATCATTTTAAAATT-A
1 AAAAAAT-A-TTTAAAATTGA
38157981 AAAAA
1 AAAAA
38157986 TTACAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 7 0.32
20 6 0.27
21 9 0.41
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAAAATATTTAAAATTGA
Found at i:38158272 original size:19 final size:18
Alignment explanation
Indices: 38158243--38158292 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
38158233 TTATTTAAAT
*
38158243 AATAAAAATAATGCTATTTA
1 AATATAAATAAT-C-ATTTA
38158263 AAT-TAAATAATCATTTA
1 AATATAAATAATCATTTA
38158280 AATCATAAATAAT
1 AAT-ATAAATAAT
38158293 ATTATTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 15 0.56
20 3 0.11
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (18 bp):
AATATAAATAATCATTTA
Found at i:38158381 original size:25 final size:24
Alignment explanation
Indices: 38158342--38158388 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
38158332 GATTTATCAC
38158342 TTAAAATTTTAAAATATTAAAAATA
1 TTAAAATTTTAAAAT-TTAAAAATA
38158367 TTAAAATTTCT-AAATTTAAAAA
1 TTAAAATTT-TAAAATTTAAAAA
38158389 AAAACTTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 7 0.33
25 13 0.62
26 1 0.05
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
TTAAAATTTTAAAATTTAAAAATA
Found at i:38158479 original size:21 final size:21
Alignment explanation
Indices: 38158451--38158504 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
38158441 TTTTAAATAA
38158451 TTTT-AATAATTTTTAAT-TT
1 TTTTAAATAATTTTTAATATT
**
38158470 TTTTAAA-ATATTTTTTGTATT
1 TTTTAAATA-ATTTTTAATATT
38158491 TTTTAAATAATTTT
1 TTTTAAATAATTTT
38158505 CCATTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 5 0.17
20 9 0.31
21 14 0.48
22 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTAAATAATTTTTAATATT
Found at i:38165250 original size:12 final size:13
Alignment explanation
Indices: 38165235--38165270 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
38165225 ATTTTTTGCT
38165235 AAAATAATATA-A
1 AAAATAATATACA
*
38165247 AAAATAAAATACA
1 AAAATAATATACA
38165260 AAAATAATATA
1 AAAATAATATA
38165271 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAATAATATACA
Found at i:38165413 original size:13 final size:13
Alignment explanation
Indices: 38165397--38165430 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
38165387 TAATATAAAG
38165397 AAATAAAATACGA
1 AAATAAAATACGA
*
38165410 AAATAATATACGA
1 AAATAAAATACGA
38165423 AAATAAAA
1 AAATAAAA
38165431 AATACAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.18
Consensus pattern (13 bp):
AAATAAAATACGA
Found at i:38165519 original size:132 final size:131
Alignment explanation
Indices: 38165277--38165701 Score: 582
Period size: 150 Copynumber: 3.1 Consensus size: 131
38165267 TATATTTTAA
*
38165277 AAAATAATA-ACGAAAATAAAAAATACAAATAAAGTGCTAAAATTAGGGTTATTTATTAAAAAAT
1 AAAATAATATACGAAAATAAAAAATACAAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAT
38165341 ATAAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAAT
66 ATAAAAAAAC-C-TAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAAT
38165406 ACG
129 ACG
38165409 AAAATAATATACGAAAATAAAAAATACAAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAT
1 AAAATAATATACGAAAATAAAAAATACAAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAT
* *
38165474 ATAAAAAATACCTAAATAATACATTTGAAACATTATGTACCAAAATAATATAAAAAAATAAAATA
66 ATAAAAAA-ACCTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATA
38165539 CG
130 CG
*
38165541 AAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAATAAAGTGCTAAAATCAG
1 -----AA-A-A---T----AAT---ATACGAAAAT-AAAAAATACAAATAAAGTGCTAAAATCAG
* *
38165606 GGTTATTTATTAAAAAAATATAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATA
48 GGTTATTTATT-AAAAAATATAAAAAAACCTAAATAATACATTTGAAACATTATGTACTAAAATA
*
38165671 ATATAAAGAAATAAAATATG
112 ATATAAAGAAATAAAATACG
38165691 AAAATAATATA
1 AAAATAATATA
38165702 TTTTAAAAAA
Statistics
Matches: 263, Mismatches: 9, Indels: 41
0.84 0.03 0.13
Matches are distributed among these distances:
132 62 0.24
133 66 0.25
134 2 0.01
136 3 0.01
137 2 0.01
138 1 0.00
139 1 0.00
140 1 0.00
142 1 0.00
143 1 0.00
144 1 0.00
145 2 0.01
146 3 0.01
149 10 0.04
150 93 0.35
151 14 0.05
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.27
Consensus pattern (131 bp):
AAAATAATATACGAAAATAAAAAATACAAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAT
ATAAAAAAACCTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAATAC
G
Found at i:38165549 original size:16 final size:16
Alignment explanation
Indices: 38165525--38165588 Score: 51
Period size: 16 Copynumber: 4.1 Consensus size: 16
38165515 AAAATAATAT
*
38165525 AAAAAAATAAAATACG
1 AAAATAATAAAATACG
* ***
38165541 AAAATAAT-ATATTTT
1 AAAATAATAAAATACG
*
38165556 AAAA-AATAAGATACG
1 AAAATAATAAAATACG
*
38165571 AAAATAAAAAAATACG
1 AAAATAATAAAATACG
38165587 AA
1 AA
38165589 TAAAGTGCTA
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
14 3 0.09
15 14 0.40
16 18 0.51
ACGTcount: A:0.69, C:0.05, G:0.06, T:0.20
Consensus pattern (16 bp):
AAAATAATAAAATACG
Found at i:38165591 original size:150 final size:150
Alignment explanation
Indices: 38165409--38165782 Score: 610
Period size: 150 Copynumber: 2.5 Consensus size: 150
38165399 ATAAAATACG
* *
38165409 AAAATAATATACGAAAAT-AAAAAATACAAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAA
1 AAAATAAGATACGAAAATAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAA
*
38165473 TATAAAAAATACCTAAATAATACATTTGAAACATTATGTACCAAAATAATATAAAAAAATAAAAT
66 TATAAAAAACACCTAAATAATACATTTGAAACATTATGTACCAAAATAATATAAAAAAATAAAAT
38165538 ACGAAAATAATATATTTTAA
131 ACGAAAATAATATATTTTAA
38165558 AAAATAAGATACGAAAATAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAA
1 AAAATAAGATACGAAAATAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAA
* * *
38165623 -ATATAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAGAAATAAAA
66 TATA-AAAAACACCTAAATAATACATTTGAAACATTATGTACCAAAATAATATAAAAAAATAAAA
*
38165687 TATGAAAATAATATATTTTAA
130 TACGAAAATAATATATTTTAA
* * *
38165708 AAAATAAGATACGAAAATAAAAAAATACGAAGAAAGTG-TCAAAATTAGGGTTATTTATTAAATT
1 AAAATAAGATACGAAAATAAAAAAATACGAATAAAGTGCT-AAAATCAGGGTTATTTATTAAA-A
38165772 AATATAAAAAA
64 AATATAAAAAA
38165783 ACTTGTATAC
Statistics
Matches: 210, Mismatches: 10, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
149 21 0.10
150 179 0.85
151 7 0.03
152 3 0.01
ACGTcount: A:0.59, C:0.06, G:0.08, T:0.27
Consensus pattern (150 bp):
AAAATAAGATACGAAAATAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAA
TATAAAAAACACCTAAATAATACATTTGAAACATTATGTACCAAAATAATATAAAAAAATAAAAT
ACGAAAATAATATATTTTAA
Found at i:38165696 original size:282 final size:280
Alignment explanation
Indices: 38165129--38165701 Score: 927
Period size: 280 Copynumber: 2.0 Consensus size: 280
38165119 TATATTTTAA
* * * * *
38165129 AAAATAAAATCCGAAAATAAAAAATACGAATAAAGTGGCAAAGTCAGGGTTATTTATTAAATTAA
1 AAAATAATATACGAAAATAAAAAATACAAATAAAGTGGCAAAATCAGGGTTATTTATTAAATAAA
* * * * * *
38165194 TATAAAAAAACTTAAATAATACATTTGAATCATTTTTTGCTAAAATAATATAAAAAATAAAATAC
66 TATAAAAAAACCTAAATAATACATTTGAAACATTATGTACCAAAATAATATAAAAAATAAAATAC
* *
38165259 AAAAATAATATATTTTAAAAAATAATAACGAAAATAAAAAATACAAATAAAGTGCTAAAATTAGG
131 AAAAATAATATATTTTAAAAAATAAGAACGAAAATAAAAAATACAAATAAAGTGCTAAAATCAGG
38165324 GTTATTTATTAAAAAATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATA
196 GTTATTTATTAAAAAATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATA
38165389 ATATAAAGAAATAAAATACG
261 ATATAAAGAAATAAAATACG
38165409 AAAATAATATACGAAAATAAAAAATACAAATAAAGT-GCTAAAATCAGGGTTATTTATTAAA-AA
1 AAAATAATATACGAAAATAAAAAATACAAATAAAGTGGC-AAAATCAGGGTTATTTATTAAATAA
38165472 ATATAAAAAATACCTAAATAATACATTTGAAACATTATGTACCAAAATAATATAAAAAAATAAAA
65 ATATAAAAAA-ACCTAAATAATACATTTGAAACATTATGTACCAAAATAATAT-AAAAAATAAAA
* *
38165537 TACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAATAAAGTGCTAAAA
128 TACAAAAATAATATATTTTAAAAAATAAGA-ACGAAAAT-AAAAAATACAAATAAAGTGCTAAAA
*
38165602 TCAGGGTTATTTATTAAAAAA-ATATAAAAACACTTAAATAATACATTTGAAACATTATGTACTA
191 TCAGGGTTATTTATTAAAAAATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTACTA
*
38165666 AAATAATATAAAGAAATAAAATATG
256 AAATAATATAAAGAAATAAAATACG
38165691 AAAATAATATA
1 AAAATAATATA
38165702 TTTTAAAAAA
Statistics
Matches: 271, Mismatches: 17, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
279 13 0.05
280 90 0.33
281 39 0.14
282 85 0.31
283 44 0.16
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.28
Consensus pattern (280 bp):
AAAATAATATACGAAAATAAAAAATACAAATAAAGTGGCAAAATCAGGGTTATTTATTAAATAAA
TATAAAAAAACCTAAATAATACATTTGAAACATTATGTACCAAAATAATATAAAAAATAAAATAC
AAAAATAATATATTTTAAAAAATAAGAACGAAAATAAAAAATACAAATAAAGTGCTAAAATCAGG
GTTATTTATTAAAAAATATAAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATA
ATATAAAGAAATAAAATACG
Found at i:38165811 original size:12 final size:13
Alignment explanation
Indices: 38165788--38165829 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
38165778 AAAAAACTTG
*
38165788 TATACGAAAATAA
1 TATACAAAAATAA
38165801 TATA-AAAAATAA
1 TATACAAAAATAA
*
38165813 AATACAAAAATAA
1 TATACAAAAATAA
38165826 TATA
1 TATA
38165830 TTTTTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (13 bp):
TATACAAAAATAA
Found at i:38165852 original size:7 final size:6
Alignment explanation
Indices: 38165835--38165866 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
38165825 ATATATTTTT
38165835 TAAAAA TAAAAA TAAAAA TAAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA T-AAAAA TAAAAA T
38165867 TAATTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:38165858 original size:13 final size:12
Alignment explanation
Indices: 38165835--38165866 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
38165825 ATATATTTTT
38165835 TAAAAATAAAAA
1 TAAAAATAAAAA
38165847 TAAAAATAAAAAA
1 TAAAAAT-AAAAA
38165860 TAAAAAT
1 TAAAAAT
38165867 TAATTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (12 bp):
TAAAAATAAAAA
Found at i:38165874 original size:37 final size:37
Alignment explanation
Indices: 38165805--38165876 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
38165795 AAATAATATA
* *
38165805 AAAAATAAAATACAAAAATAATATATTTTTTAAAAAT
1 AAAAATAAAATACAAAAATAATAAATTATTTAAAAAT
38165842 AAAAATAAAAATA-AAAAATAA-AAATTAATTTAAAA
1 AAAAAT-AAAATACAAAAATAATAAATT-ATTTAAAA
38165877 TATATTGATC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 4 0.13
37 21 0.68
38 6 0.19
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.28
Consensus pattern (37 bp):
AAAAATAAAATACAAAAATAATAAATTATTTAAAAAT
Found at i:38167903 original size:72 final size:72
Alignment explanation
Indices: 38167784--38167920 Score: 220
Period size: 72 Copynumber: 1.9 Consensus size: 72
38167774 CGAGCGATCA
* *
38167784 CATTCACATTCGACTGATACTTCTTATCATCCGGATTTGACGGGCAATGACTATTTCCCGGGCTC
1 CATTCACATTCGACTGATACTTCTTATCATCCGGATTTGACGAGCAATGACTATTTCCCAGGCTC
38167849 GTCATCG
66 GTCATCG
* * **
38167856 CATTCACATTCGGCTGATACTTCTTATCATCTGGATTTTCCGAGCAATGACTATTTCCCAGGCTC
1 CATTCACATTCGACTGATACTTCTTATCATCCGGATTTGACGAGCAATGACTATTTCCCAGGCTC
38167921 CTCAGGGGGC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 59 1.00
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.34
Consensus pattern (72 bp):
CATTCACATTCGACTGATACTTCTTATCATCCGGATTTGACGAGCAATGACTATTTCCCAGGCTC
GTCATCG
Found at i:38168478 original size:17 final size:17
Alignment explanation
Indices: 38168458--38168495 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
38168448 AATACATTAC
38168458 AACATTAATCT-AATTGG
1 AACATTAAT-TAAATTGG
38168475 AACATTAATTAAATTGG
1 AACATTAATTAAATTGG
38168492 AACA
1 AACA
38168496 AATGACATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (17 bp):
AACATTAATTAAATTGG
Found at i:38172579 original size:26 final size:26
Alignment explanation
Indices: 38172543--38172602 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
38172533 AATAACTAAC
*
38172543 AATAATTAGGGTTTTTTACTAACAAT
1 AATAATAAGGGTTTTTTACTAACAAT
38172569 AATAATAAGGGTTTTTTACTAACAAT
1 AATAATAAGGGTTTTTTACTAACAAT
38172595 AATAATAA
1 AATAATAA
38172603 CTAATAGCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (26 bp):
AATAATAAGGGTTTTTTACTAACAAT
Found at i:38172714 original size:16 final size:16
Alignment explanation
Indices: 38172693--38172741 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
38172683 AAAAATTATA
*
38172693 CTTTCTTTTTTCTTTT
1 CTTTCTTTTTTCTTCT
38172709 CTTTCTTTTTTCCTTCT
1 CTTTCTTTTTT-CTTCT
*
38172726 CATT-TTTTTTCTTCT
1 CTTTCTTTTTTCTTCT
38172741 C
1 C
38172742 CTCCTTTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 6 0.20
16 17 0.57
17 7 0.23
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (16 bp):
CTTTCTTTTTTCTTCT
Found at i:38172942 original size:19 final size:20
Alignment explanation
Indices: 38172918--38172961 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
38172908 CTTTTTTTAC
*
38172918 TTTTTTTCGTTTTCAAC-TT
1 TTTTTTTCGTTTCCAACATT
38172937 TTTTTTTCGTTTCCAACATT
1 TTTTTTTCGTTTCCAACATT
38172957 TTTTT
1 TTTTT
38172962 ACTGTGCATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.11, C:0.16, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTTTTCGTTTCCAACATT
Found at i:38173713 original size:43 final size:43
Alignment explanation
Indices: 38173665--38173750 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
38173655 TAAGTATATA
38173665 ATTTTTTTAGTTTCTATTTTTAATTATTTATTGTATGTTATTT
1 ATTTTTTTAGTTTCTATTTTTAATTATTTATTGTATGTTATTT
38173708 ATTTTTTTAGTTTCTATTTTTAATTATTTATTGTATGTTATTT
1 ATTTTTTTAGTTTCTATTTTTAATTATTTATTGTATGTTATTT
38173751 CTAAGGAACT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.70
Consensus pattern (43 bp):
ATTTTTTTAGTTTCTATTTTTAATTATTTATTGTATGTTATTT
Found at i:38175843 original size:24 final size:24
Alignment explanation
Indices: 38175816--38175864 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
38175806 ATTGAACCAA
*
38175816 AACTAACTGTTATATCCTTATAAT
1 AACTAACTGTTAGATCCTTATAAT
38175840 AACTAACTGTTAGATCCTTATAAT
1 AACTAACTGTTAGATCCTTATAAT
38175864 A
1 A
38175865 TTCTCACTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (24 bp):
AACTAACTGTTAGATCCTTATAAT
Found at i:38176528 original size:30 final size:30
Alignment explanation
Indices: 38176486--38176545 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
38176476 ACTTAACAAG
*
38176486 CAAATGCATTTAAAATAATAATAAAATTAA
1 CAAATGCATTTAAAATAATAACAAAATTAA
38176516 CAAATGTC-TTTAAAATAATAACAAAATTAA
1 CAAATG-CATTTAAAATAATAACAAAATTAA
38176546 GAATAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.30
Consensus pattern (30 bp):
CAAATGCATTTAAAATAATAACAAAATTAA
Found at i:38176622 original size:22 final size:22
Alignment explanation
Indices: 38176573--38176622 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
38176563 TACAATATTC
*
38176573 AAATAATAACAAAATAGTAGCA
1 AAATAATAACAAAATAGTAACA
* ** *
38176595 ACATAATAGTAAAATGGTAACA
1 AAATAATAACAAAATAGTAACA
38176617 AAATAA
1 AAATAA
38176623 GGAGAAAATA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.20
Consensus pattern (22 bp):
AAATAATAACAAAATAGTAACA
Found at i:38176634 original size:33 final size:33
Alignment explanation
Indices: 38176579--38176641 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
38176569 ATTCAAATAA
* *
38176579 TAACAAAATAGTAGCAACATAATAGTAAAATGG
1 TAACAAAATAGGAGCAAAATAATAGTAAAATGG
*
38176612 TAACAAAATAAGGAG-AAAATAATATTAAAA
1 TAACAAAAT-AGGAGCAAAATAATAGTAAAA
38176642 ACAAAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 22 0.85
34 4 0.15
ACGTcount: A:0.60, C:0.06, G:0.13, T:0.21
Consensus pattern (33 bp):
TAACAAAATAGGAGCAAAATAATAGTAAAATGG
Found at i:38178894 original size:13 final size:13
Alignment explanation
Indices: 38178876--38178901 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38178866 AGGCCATGTG
38178876 TCACACACGGCTA
1 TCACACACGGCTA
38178889 TCACACACGGCTA
1 TCACACACGGCTA
38178902 AGACACACGC
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:0.31, C:0.38, G:0.15, T:0.15
Consensus pattern (13 bp):
TCACACACGGCTA
Found at i:38178908 original size:15 final size:13
Alignment explanation
Indices: 38178877--38178910 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
38178867 GGCCATGTGT
*
38178877 CACACACGGCTAT
1 CACACACGGCTAA
38178890 CACACACGGCTAA
1 CACACACGGCTAA
*
38178903 GACACACG
1 CACACACG
38178911 CTTGTGTCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.35, C:0.38, G:0.18, T:0.09
Consensus pattern (13 bp):
CACACACGGCTAA
Found at i:38179772 original size:25 final size:25
Alignment explanation
Indices: 38179740--38179812 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
38179730 AGCTTTCTCT
*
38179740 TGAGCCATATAACGGGAAGCTCAGG
1 TGAGCCATATAACGGGAAGCTCAGC
* * * *
38179765 TGAGCCATTTAACGAGAAGCTTATC
1 TGAGCCATATAACGGGAAGCTCAGC
* * *
38179790 TGAGCTATATGACGGGACGCTCA
1 TGAGCCATATAACGGGAAGCTCA
38179813 TAAGAGCCAT
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (25 bp):
TGAGCCATATAACGGGAAGCTCAGC
Found at i:38179835 original size:24 final size:25
Alignment explanation
Indices: 38179808--38179860 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
38179798 ATGACGGGAC
38179808 GCTCATAAGAGCCAT-AACCAAGAA
1 GCTCATAAGAGCCATCAACCAAGAA
** *
38179832 GCTCATGCGAGCCATCAATCAAGAA
1 GCTCATAAGAGCCATCAACCAAGAA
38179857 GCTC
1 GCTC
38179861 TAGATATCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.38, C:0.28, G:0.19, T:0.15
Consensus pattern (25 bp):
GCTCATAAGAGCCATCAACCAAGAA
Found at i:38179948 original size:26 final size:25
Alignment explanation
Indices: 38179889--38179959 Score: 74
Period size: 26 Copynumber: 2.9 Consensus size: 25
38179879 GAAGTTCAAG
* *
38179889 AGAGCCA-T-ATCAGGTAGCTCCAG
1 AGAGCCATTAATCAGGAAGCTCCAA
*
38179912 AGAGTCATTAATCAGGAAGCTCTCAA
1 AGAGCCATTAATCAGGAAGCTC-CAA
* *
38179938 AGAGCCTTTAATCGGGAAGCTC
1 AGAGCCATTAATCAGGAAGCTC
38179960 ACGAAGAGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
23 6 0.15
24 1 0.03
25 11 0.28
26 21 0.54
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (25 bp):
AGAGCCATTAATCAGGAAGCTCCAA
Found at i:38180228 original size:129 final size:129
Alignment explanation
Indices: 38179998--38180234 Score: 411
Period size: 129 Copynumber: 1.8 Consensus size: 129
38179988 GATCACGACT
* * *
38179998 GATGCTCCGAAGAGCTATTAATAGGAAGCTCACAAGAACCATATAACAGAAAGCTCGAGAGGGCT
1 GATGCGCCGAAGAGCTATTAACAGGAAGCTCACAAGAACCATATAACAGAAAGCTCGAGAGGACT
38180063 AATAACGGGATACTCTTTCAAACTATGGTGTGTCCGCAACATAAGTAGGATCACGACCGATCGG
66 AATAACGGGATACTCTTTCAAACTATGGTGTGTCCGCAACATAAGTAGGATCACGACCGATCGG
* *
38180127 GATGCGCCGAAGAGCTATTAACGGGAAGCTCACAAGAACCATATAACGGAAAGCTCGAGAGGACT
1 GATGCGCCGAAGAGCTATTAACAGGAAGCTCACAAGAACCATATAACAGAAAGCTCGAGAGGACT
* *
38180192 AATAACGGGATACTCTTTCGAGCTATGGTGTGTCCGCAACATA
66 AATAACGGGATACTCTTTCAAACTATGGTGTGTCCGCAACATA
38180235 TGCAGGACCA
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 101 1.00
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (129 bp):
GATGCGCCGAAGAGCTATTAACAGGAAGCTCACAAGAACCATATAACAGAAAGCTCGAGAGGACT
AATAACGGGATACTCTTTCAAACTATGGTGTGTCCGCAACATAAGTAGGATCACGACCGATCGG
Found at i:38182534 original size:42 final size:42
Alignment explanation
Indices: 38182487--38182578 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
38182477 TGACCCTTAG
*
38182487 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
38182529 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
38182571 GCCCATTT
1 GCCCATTT
38182579 GGGGAGACTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:38182740 original size:24 final size:24
Alignment explanation
Indices: 38182713--38182796 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 24
38182703 CTGGAGGCCT
*
38182713 AGCCTCTTTTAAT-ATCTAGGGCAA
1 AGCC-CTTTTAATAAACTAGGGCAA
* *
38182737 AGCCCTTTCTGATAAACTGGGGCAA
1 AGCCCTTT-TAATAAACTAGGGCAA
** * *
38182762 AGCCCTTTTCGGTAAACTGGGGCAG
1 AGCCCTTTT-AATAAACTAGGGCAA
38182787 AGCCCTTTTA
1 AGCCCTTTTA
38182797 GCACTTCCTC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
23 4 0.08
24 8 0.16
25 39 0.76
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTAGGGCAA
Found at i:38182759 original size:25 final size:25
Alignment explanation
Indices: 38182731--38182795 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
38182721 TTAATATCTA
38182731 GGGCAAAGCCC-TTTCTGATAAACTG
1 GGGCAAAGCCCTTTTC-GATAAACTG
*
38182756 GGGCAAAGCCCTTTTCGGTAAACTG
1 GGGCAAAGCCCTTTTCGATAAACTG
*
38182781 GGGCAGAGCCCTTTT
1 GGGCAAAGCCCTTTT
38182796 AGCACTTCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 33 0.89
26 4 0.11
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (25 bp):
GGGCAAAGCCCTTTTCGATAAACTG
Found at i:38184049 original size:26 final size:26
Alignment explanation
Indices: 38184020--38184127 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
38184010 TGGTACAAAT
38184020 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
38184046 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
38184072 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
38184098 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38184124 TGAT
1 TGAT
38184128 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:38185642 original size:26 final size:26
Alignment explanation
Indices: 38185613--38185665 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
38185603 TTTACAGTTT
*
38185613 TACCTCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
38185639 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
38185665 T
1 T
38185666 GCATGTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:38186872 original size:17 final size:17
Alignment explanation
Indices: 38186831--38186873 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
38186821 GTGGAATGGG
38186831 TTTACAAAAACAAAGAT
1 TTTACAAAAACAAAGAT
38186848 TTT-CAAAAACGAAA-AT
1 TTTACAAAAAC-AAAGAT
*
38186864 TTTATAAAAA
1 TTTACAAAAA
38186874 ATGCGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.58, C:0.09, G:0.05, T:0.28
Consensus pattern (17 bp):
TTTACAAAAACAAAGAT
Found at i:38192616 original size:47 final size:47
Alignment explanation
Indices: 38192565--38192838 Score: 460
Period size: 47 Copynumber: 5.7 Consensus size: 47
38192555 TTAGGATTCT
* * *
38192565 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
38192612 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38192659 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
38192708 ATGTGATGAATGTGAAAGTGTATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38192755 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38192802 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAG
38192839 CCATGCGAAA
Statistics
Matches: 217, Mismatches: 5, Indels: 8
0.94 0.02 0.03
Matches are distributed among these distances:
46 1 0.00
47 154 0.71
49 62 0.29
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:38192696 original size:96 final size:94
Alignment explanation
Indices: 38192565--38192838 Score: 460
Period size: 96 Copynumber: 2.9 Consensus size: 94
38192555 TTAGGATTCT
* * *
38192565 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
38192629 GTGTATATATGTGATAAGGCCTAATGGCCG
65 GTGTATATATGTGATAAGGCCTAATGGCCG
38192659 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
38192724 AGTGTATATATGAGATAAGGCCTAATGGCCG
64 AGTGTATATATGTGATAAGGCCTAATGGCCG
38192755 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
38192820 TGTATATATATGTGATAAG
66 TG--TATATATGTGATAAG
38192839 CCATGCGAAA
Statistics
Matches: 170, Mismatches: 5, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
93 1 0.01
94 64 0.38
96 105 0.62
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (94 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCG
Found at i:38192736 original size:143 final size:143
Alignment explanation
Indices: 38192565--38192838 Score: 514
Period size: 143 Copynumber: 1.9 Consensus size: 143
38192555 TTAGGATTCT
*
38192565 ATGTGATGGATGTGAACATGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
38192630 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
38192695 GGCCTAATGGCCG
131 GGCCTAATGGCCG
*
38192708 ATGTGATGAATGTGAA-AGTGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
38192772 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
65 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
38192837 AG
130 AG
38192839 CCATGCGAAA
Statistics
Matches: 128, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
142 1 0.01
143 127 0.99
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (143 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
GGCCTAATGGCCG
Found at i:38193852 original size:40 final size:40
Alignment explanation
Indices: 38193489--38193838 Score: 531
Period size: 40 Copynumber: 8.8 Consensus size: 40
38193479 GAGAATTGAG
*
38193489 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
38193529 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
38193569 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
38193609 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
38193649 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
38193689 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
38193729 AGTGATGTATCCGGGCTAAGTTCCGAAAAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
38193769 AGTAATATATCCGTGCTAAG-CCTCGAAGAGCATTCGTGTT
1 AGTGATATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCT
* * *
38193809 GGTGTTATATCCGGGCTAGGTCCCGAAGAG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAG
38193839 TAATCATGCT
Statistics
Matches: 291, Mismatches: 17, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
39 1 0.00
40 288 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:38197387 original size:47 final size:47
Alignment explanation
Indices: 38197336--38197938 Score: 1019
Period size: 47 Copynumber: 12.7 Consensus size: 47
38197326 TTAGGATTCT
* * *
38197336 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
38197383 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38197430 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38197477 ATGTGATGAATGTGAAAGTGTACATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGT--ATATATGTGATAAGGCCTAATGGCCG
*
38197526 ATGGGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38197573 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
38197620 ATGTGATGAATGTGAAATTGTATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38197667 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38197714 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
38197763 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38197810 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
38197857 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
** * *
38197904 ACATGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
38197939 TCCCGAAGGG
Statistics
Matches: 531, Mismatches: 20, Indels: 10
0.95 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 437 0.82
49 93 0.18
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:38197411 original size:25 final size:25
Alignment explanation
Indices: 38197383--38197461 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
38197373 CTAATGGCCG
38197383 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
38197408 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
38197430 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
38197455 ATGTGAT
1 ATGTGAT
38197462 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:38197619 original size:190 final size:188
Alignment explanation
Indices: 38197336--38197938 Score: 1019
Period size: 190 Copynumber: 3.2 Consensus size: 188
38197326 TTAGGATTCT
* * *
38197336 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
38197400 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
65 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
38197465 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGATAAGGCCTAATGGCCG
130 GCCTAATGGCCGATGTGATGAATGTGAAAGTGT--ATATATGTGATAAGGCCTAATGGCCG
*
38197526 ATGGGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
38197591 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATATATGAGATAAGG
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
38197656 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
131 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38197714 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
38197779 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
64 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * * *
38197844 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
129 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
** * *
38197904 ACATGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
38197939 TCCCGAAGGG
Statistics
Matches: 392, Mismatches: 18, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
188 59 0.15
189 1 0.00
190 332 0.85
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (188 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:38197751 original size:237 final size:237
Alignment explanation
Indices: 38197336--38197938 Score: 1046
Period size: 237 Copynumber: 2.5 Consensus size: 237
38197326 TTAGGATTCT
* * *
38197336 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
38197400 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
65 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
38197465 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGATAAGGCCTAATGGCCGATGG
130 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGATAAGGCCTAATGGCCGATGG
38197530 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
195 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
38197573 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAT
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
38197638 TGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
* *
38197703 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
131 CCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGATAAGGCCTAATGGCCGATGGG
38197768 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
196 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38197810 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * * * ** * *
38197875 TGTATATATGTGACAGGGCCGAGTGGCCAACATGATGGATGTGAAAGTGTATAAATGTGATAAG
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
38197939 TCCCGAAGGG
Statistics
Matches: 347, Mismatches: 18, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
236 1 0.00
237 346 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (237 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATATGTGATAAGGCCTAATGGCCGATGGG
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:38198126 original size:37 final size:37
Alignment explanation
Indices: 38198057--38198135 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
38198047 CCGAGCTCTA
* * * * *
38198057 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACATCTGGAGATTATGTCCGGGT
*
38198094 AAGACCCGATAACTTCATCTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACATCTGGAGATTATGTCCGGGT
38198131 AAGAC
1 AAGAC
38198136 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACATCTGGAGATTATGTCCGGGT
Found at i:38199808 original size:26 final size:26
Alignment explanation
Indices: 38199779--38199886 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
38199769 TGGTACAAAT
*
38199779 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
38199805 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
38199831 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
38199857 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38199883 TGAT
1 TGAT
38199887 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:38205059 original size:26 final size:26
Alignment explanation
Indices: 38205030--38205137 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
38205020 TGGTACAAAT
*
38205030 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
38205056 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
38205082 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
38205108 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38205134 TGAT
1 TGAT
38205138 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:38206656 original size:26 final size:26
Alignment explanation
Indices: 38206626--38206678 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
38206616 TATAGTTTTA
38206626 CCCCTAGGAGATAAATT-ACCGAAATG
1 CCCCTAGG-GATAAATTGACCGAAATG
* *
38206652 CCCCTAGGGTTAAATTGACCTAAATG
1 CCCCTAGGGATAAATTGACCGAAATG
38206678 C
1 C
38206679 ATGTTTGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (26 bp):
CCCCTAGGGATAAATTGACCGAAATG
Found at i:38207846 original size:27 final size:27
Alignment explanation
Indices: 38207816--38207913 Score: 101
Period size: 27 Copynumber: 3.6 Consensus size: 27
38207806 GTAAATCTAC
38207816 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
38207843 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
38207869 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* *
38207899 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
38207914 TGGTAAATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
26 1 0.02
27 33 0.55
28 7 0.12
29 18 0.30
30 1 0.02
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:38207919 original size:27 final size:26
Alignment explanation
Indices: 38207879--38208062 Score: 163
Period size: 27 Copynumber: 6.8 Consensus size: 26
38207869 AGAAAGTCAA
**
38207879 GGGTATTTCT-GTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTTACAAA-CAG
* **
38207906 GGGTATTTTGGTAAATTTACAAATTG
1 GGGTATTTTGGTAATTTTACAAACAG
* *
38207932 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAA-CAG
* *
38207960 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AG
38207987 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAAC-AG
* **
38208014 GGGTATTTTGGTAATTCTATCCTACAG
1 GGGTATTTTGGTAATTTTA-CAAACAG
** *
38208041 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTTGGTAATTTTACAA
38208063 TCGAGGGTAA
Statistics
Matches: 129, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
26 4 0.03
27 121 0.94
28 4 0.03
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACAG
Found at i:38207965 original size:54 final size:53
Alignment explanation
Indices: 38207796--38208027 Score: 187
Period size: 54 Copynumber: 4.3 Consensus size: 53
38207786 TACACTACAA
* * * * ** *
38207796 GGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAAATTTACAAA-CTAGGGTATTTCGGTAATTTTACAAACCAG
* * * * * * ** *
38207850 TGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAA-ATTTACAAA--CTAGGGTATTTCGGTAATTTTACAAACCAG
* *
38207906 GGGTATTTTGGTAAATTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAAATTTACAAACT-AGGGTATTTCGGTAATTTTACAAACCAG
* * * * *
38207960 TGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAAATTTACAAACTA-GGGTATTTCGGTAATTTTACAAACCAG
38208014 GGGTATTTTGGTAA
1 GGGTATTTTGGTAA
38208028 TTCTATCCTA
Statistics
Matches: 142, Mismatches: 30, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
53 1 0.01
54 89 0.63
55 15 0.11
56 37 0.26
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (53 bp):
GGGTATTTTGGTAAATTTACAAACTAGGGTATTTCGGTAATTTTACAAACCAG
Found at i:38207990 original size:81 final size:81
Alignment explanation
Indices: 38207880--38208029 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 81
38207870 GAAAGTCAAG
* ** *
38207880 GGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAAATTTACAAA-TTGAGGGTATTTCGG
1 GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAAATTTACAAACTAG-GGGTATTTCGG
38207944 TAATTTCACAAACCAGT
65 TAATTTCACAAACCAGT
* *
38207961 GGTATTTCGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 GGTATTTCGGTAATTTTACAAATC-AGGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTCGG
38208025 TAATT
65 TAATT
38208030 CTATCCTACA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
80 1 0.02
81 58 0.95
82 2 0.03
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.41
Consensus pattern (81 bp):
GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTCGGT
AATTTCACAAACCAGT
Found at i:38208046 original size:81 final size:81
Alignment explanation
Indices: 38207879--38208062 Score: 205
Period size: 81 Copynumber: 2.3 Consensus size: 81
38207869 AGAAAGTCAA
* ** *
38207879 GGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAAATTTACAAATTGAGGGTATTTCGG
1 GGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAAATTTACAAATAGAGGGTATTTCGG
38207944 TAATTTCACAAACCAG
66 TAATTTCACAAACCAG
* * * *
38207960 TGGTATTTCGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTT
1 GGGTATTTCAGTAATTTTACAAATC-AGGGGTATTTTGGTAAATTTACAAA-TAGAGGGTATTTC
**
38208023 GGTAA-TTCTATCCTA-CAG
64 GGTAATTTC-A-CAAACCAG
*
38208041 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCAGTAATTTTACAA
38208063 TCGAGGGTAA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
80 4 0.05
81 79 0.91
82 4 0.05
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.39
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAAATTTACAAATAGAGGGTATTTCGG
TAATTTCACAAACCAG
Found at i:38208080 original size:26 final size:25
Alignment explanation
Indices: 38208051--38208128 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 25
38208041 GGGTATTTCA
*
38208051 GTAATTTCACAATCGAGGGTAAAATG
1 GTAATTTTA-AATCGAGGGTAAAATG
38208077 GTAATTTTGTAAA-CTGAGGGTAAAATG
1 GTAA-TTT-TAAATC-GAGGGTAAAATG
38208104 GTAATTTTGTAAATCGAGGGTAAAA
1 GTAA-TTT-TAAATCGAGGGTAAAA
38208129 CAATAATTCT
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
26 5 0.11
27 40 0.85
28 2 0.04
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.31
Consensus pattern (25 bp):
GTAATTTTAAATCGAGGGTAAAATG
Found at i:38208136 original size:27 final size:27
Alignment explanation
Indices: 38208061--38208128 Score: 120
Period size: 27 Copynumber: 2.5 Consensus size: 27
38208051 GTAATTTCAC
38208061 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
38208088 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTTTGTA
38208115 AATCGAGGGTAAAA
1 AATCGAGGGTAAAA
38208129 CAATAATTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
26 1 0.03
27 37 0.95
28 1 0.03
ACGTcount: A:0.40, C:0.04, G:0.26, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTGTA
Found at i:38210324 original size:174 final size:174
Alignment explanation
Indices: 38210027--38210501 Score: 878
Period size: 174 Copynumber: 2.7 Consensus size: 174
38210017 GTCATGAGAT
* * *
38210027 TGGCACCAAGTGTGCGCAGTTGATTATTAAGCATTATGTGTGCGAACCCAATATATATTTTCTAT
1 TGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCTAT
38210092 AAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTGTG
66 AAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTGTG
*
38210157 CGAACTTGAAATGCATGGCACTAAGTGTGTGAGTTTAAAGTGCA
131 CGAACTTGAAATGCATGGCACTAAGTGTGTGAGTTTAAAGTACA
*
38210201 TGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATGTGTGCGAACCCAATATATATTTTCTAT
1 TGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCTAT
38210266 AAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTGTG
66 AAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTGTG
38210331 CGAACTTGAAATGCATGGCACTAAGTGTGTGAGTTTAAAGTACA
131 CGAACTTGAAATGCATGGCACTAAGTGTGTGAGTTTAAAGTACA
*
38210375 TGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACTCAATATATATTTTCTAT
1 TGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCTAT
* *
38210440 AAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
66 AAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGT
38210502 ACCTTGAGTT
Statistics
Matches: 292, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 292 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
TGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCTAT
AAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTGTG
CGAACTTGAAATGCATGGCACTAAGTGTGTGAGTTTAAAGTACA
Found at i:38214581 original size:46 final size:46
Alignment explanation
Indices: 38214530--38214807 Score: 387
Period size: 46 Copynumber: 6.0 Consensus size: 46
38214520 GTGTGCTCTC
** *
38214530 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
**
38214576 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
38214622 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*** * *
38214668 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGAAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*
38214714 TGATATGAAATGAATAATACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * *
38214760 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
38214806 TG
1 TG
38214808 TCAAAGATAA
Statistics
Matches: 210, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.00
46 209 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:38218578 original size:15 final size:15
Alignment explanation
Indices: 38218558--38218588 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
38218548 AATTATAAGC
38218558 TATGTTATGTTATAT
1 TATGTTATGTTATAT
*
38218573 TATGTTATGTTTTAT
1 TATGTTATGTTATAT
38218588 T
1 T
38218589 TTCTTAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.65
Consensus pattern (15 bp):
TATGTTATGTTATAT
Found at i:38223629 original size:55 final size:53
Alignment explanation
Indices: 38223504--38223956 Score: 397
Period size: 55 Copynumber: 8.5 Consensus size: 53
38223494 AACTTACCAT
* * * * ** *
38223504 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GGGCTCACCAA
1 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTGCCTTATAGAACTCATCAA
38223557 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGGGACC-TTGCCTTATAG-AACTCATCAA
* *
38223612 TGTCATGCCTTGGCATGGTCTTACATGGGGCCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGGGACC-TTGCCTTATAG-AACTCATCAA
* * *** *
38223667 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGGCATGGTCTTACATG-GGACCTTGCCTTATAGAACTCATCAA
***
38223721 TGCCATGCCTTGGCATGGTCTTACAT--GA--TAT-CCTTATCTTAC-CA--AA
1 TGCCATGCCTTGGCATGGTCTTACATGGGACCT-TGCCTTATAGAACTCATCAA
*** * * *
38223767 TGCCATGTTCC-AAACATGGTCTTACATGGTATCCTTGTCTTAT-GAACTCACCAA
1 TGCCATG--CCTTGGCATGGTCTTACATGGGA-CCTTGCCTTATAGAACTCATCAA
*
38223821 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGGGACC-TTGCCTTATAG-AACTCATCAA
** * *** * *
38223876 TGCCATATCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATTAA
1 TGCCATGCCTTGGCATGGTCTTACATG-GGACCTTGCCTTATAGAACTCATCAA
* *
38223930 TACCATGCCTTGGCATGGTTTTACATG
1 TGCCATGCCTTGGCATGGTCTTACATG
38223957 ATATCCTTAT
Statistics
Matches: 327, Mismatches: 52, Indels: 41
0.78 0.12 0.10
Matches are distributed among these distances:
46 9 0.03
47 13 0.04
48 3 0.01
49 10 0.03
50 1 0.00
51 3 0.01
52 14 0.04
53 58 0.18
54 74 0.23
55 138 0.42
56 4 0.01
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (53 bp):
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTGCCTTATAGAACTCATCAA
Found at i:38223863 original size:209 final size:211
Alignment explanation
Indices: 38223570--38224017 Score: 776
Period size: 209 Copynumber: 2.1 Consensus size: 211
38223560 CATGCCTTGG
* * * *
38223570 CATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAATGTCATGCCTTGGCATGGTCTT
1 CATGGTCTTACATGGTATCC-TTGTCTTATAGTAACTCACCAATGCCATGCCTTGGCATGGTCTT
* *
38223634 ACATGGGGCCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTC
65 ACATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATATCTTGACATGGTCTTACATGATTTC
*
38223699 CTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTACC
130 CTTGCCTTATAGAACTTATCAATACCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTACC
38223764 AAATGCCATGTTCCAAA
195 AAATGCCATGTTCCAAA
38223781 CATGGTCTTACATGGTATCCTTGTCTTAT-G-AACTCACCAATGCCATGCCTTGGCATGGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTATAGTAACTCACCAATGCCATGCCTTGGCATGGTCTTA
*
38223844 CATGGGACCTTTTCCTTATAGTAACTCATCAATGCCATATCTTGACATGGTCTTACATGATTTCC
66 CATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATATCTTGACATGGTCTTACATGATTTCC
* *
38223909 TTGCCTTATAGAACTTATTAATACCATGCCTTGGCATGGTTTTACATGATATCCTTATCTTACCA
131 TTGCCTTATAGAACTTATCAATACCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCA
38223974 AATGCCATGTTCCAAA
196 AATGCCATGTTCCAAA
38223990 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
38224018 GTGCCAATGC
Statistics
Matches: 226, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
209 199 0.88
210 1 0.00
211 24 0.11
212 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (211 bp):
CATGGTCTTACATGGTATCCTTGTCTTATAGTAACTCACCAATGCCATGCCTTGGCATGGTCTTA
CATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATATCTTGACATGGTCTTACATGATTTCC
TTGCCTTATAGAACTTATCAATACCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCA
AATGCCATGTTCCAAA
Found at i:38224092 original size:47 final size:45
Alignment explanation
Indices: 38223989--38224144 Score: 141
Period size: 47 Copynumber: 3.4 Consensus size: 45
38223979 CATGTTCCAA
* * * **
38223989 ACATGGTCTTACATGGTATCCTTGTCTTAGTGCCAATGCCACATCTTG
1 ACATGGTCTTACATGGAATCCTTG-C--AATACCAATGCCATGTCTTG
** * * * *
38224037 ATGTGGTCTTACATGGAGTCCTTAATCAATGCCGATGCCATGTCTTG
1 ACATGGTCTTACATGGAATCCTT--GCAATACCAATGCCATGTCTTG
* **
38224084 ACATGGTCTTACACGGAATCCTTGCCTTACCAATGCCATGTCTTG
1 ACATGGTCTTACATGGAATCCTTGCAATACCAATGCCATGTCTTG
38224129 ACATGGTCTTACATGG
1 ACATGGTCTTACATGG
38224145 TATACTTAAC
Statistics
Matches: 87, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
45 32 0.37
47 35 0.40
48 19 0.22
49 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (45 bp):
ACATGGTCTTACATGGAATCCTTGCAATACCAATGCCATGTCTTG
Found at i:38228479 original size:48 final size:48
Alignment explanation
Indices: 38228414--38229008 Score: 1056
Period size: 48 Copynumber: 12.5 Consensus size: 48
38228404 TATATATGTG
* * *
38228414 TGTGGTAAAGCCAAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
38228462 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
38228510 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
38228558 TGTGGTAAAGCCGAATGGCTAGTGTG--A-A--TATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
38228601 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATATATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
38228649 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
38228697 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
38228745 TGTGGTAAAGCCGAATGGCTAGTGTGGAATATGAATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
38228793 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
38228841 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
38228889 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
38228937 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
38228985 TGTGGTAAAGCCGAATGGCTAGTG
1 TGTGGTAAAGCCGAATGGCTAGTG
38229009 AGATATGTAT
Statistics
Matches: 528, Mismatches: 14, Indels: 10
0.96 0.03 0.02
Matches are distributed among these distances:
43 40 0.08
45 2 0.00
46 2 0.00
48 484 0.92
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:38228809 original size:28 final size:28
Alignment explanation
Indices: 38228731--38228809 Score: 68
Period size: 28 Copynumber: 3.1 Consensus size: 28
38228721 TGAAATATGT
38228731 ATGAGATATGTATATGTGGTAAAGCCGA
1 ATGAGATATGTATATGTGGTAAAGCCGA
* *
38228759 ATG-GCTA-G----TGTGG-AATA--TGA
1 ATGAGATATGTATATGTGGTAA-AGCCGA
38228779 ATGAGATATGTATATGTGGTAAAGCCGA
1 ATGAGATATGTATATGTGGTAAAGCCGA
38228807 ATG
1 ATG
38228810 GCTAGTGTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 20
0.61 0.07 0.33
Matches are distributed among these distances:
20 5 0.14
21 5 0.14
22 7 0.19
26 7 0.19
27 5 0.14
28 8 0.22
ACGTcount: A:0.34, C:0.06, G:0.30, T:0.29
Consensus pattern (28 bp):
ATGAGATATGTATATGTGGTAAAGCCGA
Found at i:38229018 original size:35 final size:35
Alignment explanation
Indices: 38228972--38229043 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
38228962 GAAATATATA
38228972 TGAGATATGTATATGTGGTAAAGCCGAATGGCTAG
1 TGAGATATGTATATGTGGTAAAGCCGAATGGCTAG
38229007 TGAGATATGTATATGTGGTAAAGCCGAATGGCTAG
1 TGAGATATGTATATGTGGTAAAGCCGAATGGCTAG
38229042 TG
1 TG
38229044 TGAAATATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.31, C:0.08, G:0.32, T:0.29
Consensus pattern (35 bp):
TGAGATATGTATATGTGGTAAAGCCGAATGGCTAG
Found at i:38229251 original size:37 final size:37
Alignment explanation
Indices: 38229201--38229303 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
38229191 GGAAATATAT
*
38229201 TCCGGGTAAGACCCTATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
38229238 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
38229275 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
38229304 GGACTATTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:38238973 original size:33 final size:34
Alignment explanation
Indices: 38238896--38238975 Score: 85
Period size: 33 Copynumber: 2.4 Consensus size: 34
38238886 TATAGGCTAT
*
38238896 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* * *
38238930 AATGTAATCTGAA-AA-GGGCTCTA-GCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCT-AAGGCCCAGT-TC
38238963 ACTGTTATCTGAA
1 ACTGTTATCTGAA
38238976 CGGGTTTAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
32 12 0.32
33 15 0.39
34 11 0.29
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:38242383 original size:40 final size:40
Alignment explanation
Indices: 38242324--38242621 Score: 404
Period size: 40 Copynumber: 7.5 Consensus size: 40
38242314 TGGATGATAA
* * * *
38242324 CCGGGCTAAGTCCCAAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
38242364 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
38242404 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
38242444 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
38242484 CCGGGCTATGTCCTGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
38242524 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
38242564 CCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
38242604 CCGGTC-AAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
38242622 TACTTGGCTT
Statistics
Matches: 232, Mismatches: 24, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
39 13 0.06
40 219 0.94
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:38245050 original size:106 final size:106
Alignment explanation
Indices: 38244865--38245080 Score: 423
Period size: 106 Copynumber: 2.0 Consensus size: 106
38244855 CTTATTACGA
38244865 AGTCTTATAGCTTTAACCTCTACTCGGATTATCGGCGAGACCTTTAGCTCAGATGAAATCTCCAC
1 AGTCTTATAGCTTTAACCTCTACTCGGATTATCGGCGAGACCTTTAGCTCAGATGAAATCTCCAC
*
38244930 ACGAAGTTATCGGGTCTTACCCTGACAAAGTCTCCACACGT
66 ACGAAGTTATCGGGTCTTACCCGGACAAAGTCTCCACACGT
38244971 AGTCTTATAGCTTTAACCTCTACTCGGATTATCGGCGAGACCTTTAGCTCAGATGAAATCTCCAC
1 AGTCTTATAGCTTTAACCTCTACTCGGATTATCGGCGAGACCTTTAGCTCAGATGAAATCTCCAC
38245036 ACGAAGTTATCGGGTCTTACCCGGACAAAGTCTCCACACGT
66 ACGAAGTTATCGGGTCTTACCCGGACAAAGTCTCCACACGT
38245077 AGTC
1 AGTC
38245081 ATCGGGTCTT
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 109 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (106 bp):
AGTCTTATAGCTTTAACCTCTACTCGGATTATCGGCGAGACCTTTAGCTCAGATGAAATCTCCAC
ACGAAGTTATCGGGTCTTACCCGGACAAAGTCTCCACACGT
Done.