Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 291 of 325
Found at i:95076089 original size:8 final size:8
Alignment explanation
Indices: 95076078--95076173 Score: 92
Period size: 8 Copynumber: 11.9 Consensus size: 8
95076068 ATATTAAATA
95076078 TTAAATTT
1 TTAAATTT
*
95076086 TTAAGTTT
1 TTAAATTT
*
95076094 TT-TATTT
1 TTAAATTT
95076101 TTAAA-TT
1 TTAAATTT
95076108 TTAAA-TT
1 TTAAATTT
95076115 TTAAA-TT
1 TTAAATTT
95076122 TTAAATTT
1 TTAAATTT
*
95076130 TTAAAATT
1 TTAAATTT
95076138 TTAAATTTTT
1 TTAAA--TTT
95076148 TTGAAGATTT
1 TT-AA-ATTT
95076158 TTATAATTT
1 TTA-AATTT
95076167 TTAAATT
1 TTAAATT
95076174 ATCATATAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
7 26 0.35
8 28 0.37
9 8 0.11
10 10 0.13
11 2 0.03
12 1 0.01
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (8 bp):
TTAAATTT
Found at i:95076094 original size:7 final size:7
Alignment explanation
Indices: 95076066--95076146 Score: 81
Period size: 7 Copynumber: 11.0 Consensus size: 7
95076056 ATATGGAATA
*
95076066 AAATATT
1 AAATTTT
*
95076073 AAATATT
1 AAATTTT
95076080 AAATTTTT
1 AAA-TTTT
*
95076088 AAGTTTTT
1 AA-ATTTT
* *
95076096 TATTTTT
1 AAATTTT
95076103 AAATTTT
1 AAATTTT
95076110 AAATTTT
1 AAATTTT
95076117 AAATTTT
1 AAATTTT
95076124 AAATTTTT
1 AAA-TTTT
95076132 AAAATTTT
1 -AAATTTT
95076140 AAATTTT
1 AAATTTT
95076147 TTTGAAGATT
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
7 44 0.68
8 18 0.28
9 3 0.05
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (7 bp):
AAATTTT
Found at i:95076105 original size:30 final size:30
Alignment explanation
Indices: 95076071--95076147 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 30
95076061 GAATAAAATA
* * **
95076071 TTAAATATTAAATTTTTAAGTTTTTTATTT
1 TTAAATTTTAAATTTTTAAATTTTAAATTT
95076101 TTAAATTTTAAA-TTTTAAATTTTAAATTT
1 TTAAATTTTAAATTTTTAAATTTTAAATTT
95076130 TTAAAATTTTAAATTTTT
1 TT-AAATTTTAAATTTTT
95076148 TTGAAGATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
29 16 0.39
30 21 0.51
31 4 0.10
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (30 bp):
TTAAATTTTAAATTTTTAAATTTTAAATTT
Found at i:95076119 original size:37 final size:37
Alignment explanation
Indices: 95076066--95076146 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
95076056 ATATGGAATA
* * * *
95076066 AAATATTAAATATTAAATTTTTAAGTTTTT-TATTTTT
1 AAATTTTAAATATTAAA-TTTTAAATTTTTAAAATTTT
*
95076103 AAATTTTAAATTTTAAATTTTAAATTTTTAAAATTTT
1 AAATTTTAAATATTAAATTTTAAATTTTTAAAATTTT
95076140 AAATTTT
1 AAATTTT
95076147 TTTGAAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
36 11 0.29
37 27 0.71
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (37 bp):
AAATTTTAAATATTAAATTTTAAATTTTTAAAATTTT
Found at i:95076951 original size:7 final size:7
Alignment explanation
Indices: 95076939--95077043 Score: 52
Period size: 7 Copynumber: 14.7 Consensus size: 7
95076929 CCCCATCTCT
95076939 TAAACCA
1 TAAACCA
95076946 TAAACCA
1 TAAACCA
*
95076953 TAATCTC-
1 TAAAC-CA
95076960 TAAACCCA
1 TAAA-CCA
*
95076968 TAATCCA
1 TAAACCA
*
95076975 TAAACCT
1 TAAACCA
*
95076982 TAAAATCA
1 T-AAACCA
95076990 T-AACTCA
1 TAAAC-CA
* * **
95076997 CACACTT
1 TAAACCA
*
95077004 TAAACCC
1 TAAACCA
95077011 TAAACCA
1 TAAACCA
* *
95077018 TATACCC
1 TAAACCA
95077025 TAAACCA
1 TAAACCA
*
95077032 TAAACCC
1 TAAACCA
95077039 TAAAC
1 TAAAC
95077044 TCTAATGATA
Statistics
Matches: 70, Mismatches: 22, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
6 2 0.03
7 56 0.80
8 12 0.17
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:95076960 original size:22 final size:23
Alignment explanation
Indices: 95076933--95076985 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
95076923 CTTAAACCCC
95076933 ATCTCTTAAA-CCATAAACCATA
1 ATCTCTTAAACCCATAAACCATA
*
95076955 ATCTC-TAAACCCATAATCCATA
1 ATCTCTTAAACCCATAAACCATA
*
95076977 AAC-CTTAAA
1 ATCTCTTAAA
95076986 ATCATAACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 5 0.19
22 22 0.81
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.26
Consensus pattern (23 bp):
ATCTCTTAAACCCATAAACCATA
Found at i:95076978 original size:15 final size:15
Alignment explanation
Indices: 95076943--95076980 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
95076933 ATCTCTTAAA
95076943 CCATAAA-CCATAAT
1 CCATAAACCCATAAT
95076957 CTC-TAAACCCATAAT
1 C-CATAAACCCATAAT
95076972 CCATAAACC
1 CCATAAACC
95076981 TTAAAATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (15 bp):
CCATAAACCCATAAT
Found at i:95077026 original size:14 final size:14
Alignment explanation
Indices: 95077004--95077043 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
95076994 TCACACACTT
95077004 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
95077018 TATACCCTAAACCA
1 TAAACCCTAAACCA
95077032 TAAACCCTAAAC
1 TAAACCCTAAAC
95077044 TCTAATGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.17
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:95077048 original size:7 final size:7
Alignment explanation
Indices: 95077004--95077048 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
95076994 TCACACACTT
95077004 TAAACCC
1 TAAACCC
*
95077011 TAAACCA
1 TAAACCC
*
95077018 TATACCC
1 TAAACCC
*
95077025 TAAACCA
1 TAAACCC
95077032 TAAACCC
1 TAAACCC
*
95077039 TAAACTC
1 TAAACCC
95077046 TAA
1 TAA
95077049 TGATAATTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:95077168 original size:21 final size:20
Alignment explanation
Indices: 95077138--95077188 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
95077128 AACTACTAAT
*
95077138 TAAT-CTAAACCCTAAACTCC
1 TAATCCTAAACCCTAAAC-CA
*
95077158 TAATCCTAAACCTTAAACCA
1 TAATCCTAAACCCTAAACCA
95077178 TAAATCCTAAA
1 T-AATCCTAAA
95077189 ATATAAACCC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 6 0.22
21 21 0.78
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.25
Consensus pattern (20 bp):
TAATCCTAAACCCTAAACCA
Found at i:95077283 original size:15 final size:15
Alignment explanation
Indices: 95077256--95077293 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
95077246 CTTAAACCAC
95077256 CCTTAAA-CCATAAT
1 CCTTAAACCCATAAT
95077270 CCTTAAACCCATAAT
1 CCTTAAACCCATAAT
*
95077285 CCATAAACC
1 CCTTAAACC
95077294 TTAAAATAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.42, C:0.34, G:0.00, T:0.24
Consensus pattern (15 bp):
CCTTAAACCCATAAT
Found at i:95077288 original size:22 final size:22
Alignment explanation
Indices: 95077254--95077354 Score: 68
Period size: 22 Copynumber: 4.7 Consensus size: 22
95077244 CCCTTAAACC
* *
95077254 ACCCTTAAACCATAATCCTTAA
1 ACCCATAAACCATAAACCTTAA
*
95077276 ACCCATAATCCATAAACCTTAA
1 ACCCATAAACCATAAACCTTAA
*
95077298 A---ATAGTAACTCATAAACATTAA
1 ACCCATA--AAC-CATAAACCTTAA
* * *
95077320 ACCC-TTAACCATATACCGTAA
1 ACCCATAAACCATAAACCTTAA
*
95077341 ACCC-TAAACTATAA
1 ACCCATAAACCATAA
95077355 TGATAATTAA
Statistics
Matches: 61, Mismatches: 12, Indels: 13
0.71 0.14 0.15
Matches are distributed among these distances:
19 3 0.05
21 22 0.36
22 35 0.57
24 1 0.02
ACGTcount: A:0.46, C:0.28, G:0.02, T:0.25
Consensus pattern (22 bp):
ACCCATAAACCATAAACCTTAA
Found at i:95078122 original size:17 final size:16
Alignment explanation
Indices: 95078100--95078143 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
95078090 GGACTAAATT
*
95078100 TTTATTTGTTTTTGTTG
1 TTTATTTGTTTTTG-GG
*
95078117 TTTATTTATTTTTGGG
1 TTTATTTGTTTTTGGG
95078133 TTT-TTTGTTTT
1 TTTATTTGTTTT
95078144 GTTTTGTCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 7 0.29
16 4 0.17
17 13 0.54
ACGTcount: A:0.07, C:0.00, G:0.16, T:0.77
Consensus pattern (16 bp):
TTTATTTGTTTTTGGG
Found at i:95091028 original size:42 final size:42
Alignment explanation
Indices: 95090978--95091104 Score: 161
Period size: 42 Copynumber: 3.0 Consensus size: 42
95090968 CTTCATTTTC
** *
95090978 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
* *
95091021 T-GATGCCATAGCCCAACTATGGTCTTGCACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
*
95091062 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC-ATATTCACATA
95091103 TC
1 TC
95091105 TCACTGATGC
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
41 10 0.14
42 62 0.84
43 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:95091156 original size:7 final size:7
Alignment explanation
Indices: 95091144--95091172 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
95091134 TATACGGAAA
95091144 TCACTTG
1 TCACTTG
95091151 TCACTTG
1 TCACTTG
95091158 TCACTTG
1 TCACTTG
95091165 TCACTTG
1 TCACTTG
95091172 T
1 T
95091173 AGCCGGAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:95091206 original size:31 final size:31
Alignment explanation
Indices: 95091171--95091350 Score: 279
Period size: 31 Copynumber: 5.8 Consensus size: 31
95091161 CTTGTCACTT
*
95091171 GTAGCCGGAGCTACCACTATTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
95091202 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
95091233 GTAGCCGGAGCTACCAATTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
95091264 GTAGCCGGAGCTACCAATTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* * *
95091295 GTAGCAGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* *
95091326 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGGAGCTACCACTTTTCACT
95091351 TGTCATTTGT
Statistics
Matches: 141, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 141 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAG
Found at i:95091432 original size:50 final size:51
Alignment explanation
Indices: 95091326--95091454 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
95091316 CACTGATTAG
* * * *
95091326 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTTATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
95091377 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
95091427 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
95091455 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:95111737 original size:12 final size:12
Alignment explanation
Indices: 95111720--95111744 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95111710 TCCACATCCT
95111720 CGACCATGACCA
1 CGACCATGACCA
95111732 CGACCATGACCA
1 CGACCATGACCA
95111744 C
1 C
95111745 AATCATTTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.44, G:0.16, T:0.08
Consensus pattern (12 bp):
CGACCATGACCA
Found at i:95128482 original size:12 final size:12
Alignment explanation
Indices: 95128467--95128503 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
95128457 ATCATAAGGA
*
95128467 TAACAATAATAG
1 TAACAATAACAG
95128479 TAACAATAACAG
1 TAACAATAACAG
*
95128491 TAACAGTAACAG
1 TAACAATAACAG
95128503 T
1 T
95128504 CAGGTACAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.54, C:0.14, G:0.11, T:0.22
Consensus pattern (12 bp):
TAACAATAACAG
Found at i:95128489 original size:18 final size:18
Alignment explanation
Indices: 95128466--95128501 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
95128456 CATCATAAGG
*
95128466 ATAACAATAATAGTAACA
1 ATAACAATAACAGTAACA
*
95128484 ATAACAGTAACAGTAACA
1 ATAACAATAACAGTAACA
95128502 GTCAGGTACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.58, C:0.14, G:0.08, T:0.19
Consensus pattern (18 bp):
ATAACAATAACAGTAACA
Found at i:95130593 original size:8 final size:8
Alignment explanation
Indices: 95130576--95130630 Score: 56
Period size: 8 Copynumber: 6.4 Consensus size: 8
95130566 ATTATATGCT
*
95130576 TTATTTTA
1 TTATTATA
95130584 TTATTATA
1 TTATTATA
95130592 TTATATTATA
1 -T-TATTATA
95130602 TTATATTATA
1 -T-TATTATA
*
95130612 TTAATATA
1 TTATTATA
95130620 TTATTATA
1 TTATTATA
95130628 TTA
1 TTA
95130631 ATTTCTTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
8 23 0.55
9 2 0.05
10 17 0.40
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TTATTATA
Found at i:95130598 original size:13 final size:13
Alignment explanation
Indices: 95130577--95130623 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
95130567 TTATATGCTT
*
95130577 TATTTTATTATTA
1 TATTATATTATTA
95130590 TATTATATTATATTA
1 TATTATA-T-TATTA
*
95130605 TATTATATTAATA
1 TATTATATTATTA
95130618 TATTAT
1 TATTAT
95130624 TATATTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 16 0.53
14 2 0.07
15 12 0.40
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:95130611 original size:5 final size:5
Alignment explanation
Indices: 95130585--95130630 Score: 67
Period size: 5 Copynumber: 9.0 Consensus size: 5
95130575 TTTATTTTAT
95130585 TATTA TATTA TATTA TATTA TATTA TATTA -ATATA TTATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TAT-TA -TATTA TATTA
95130631 ATTTCTTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
4 2 0.05
5 32 0.84
6 2 0.05
7 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:95148733 original size:40 final size:41
Alignment explanation
Indices: 95148685--95148855 Score: 285
Period size: 40 Copynumber: 4.2 Consensus size: 41
95148675 AGTAAATATA
*
95148685 TGCAAACACTCATCTTACCAATGTCAATATGCATATCTGAT
1 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGAT
*
95148726 TGC-AACACTCATCTCACCAATGTCAATATGCACATCTGAT
1 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGAT
95148766 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTG-T
1 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGAT
*
95148806 TGCAAACACTCATCTCACCAACGTCAATATGCATATCTG-T
1 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGAT
*
95148846 CGCAAACACT
1 TGCAAACACT
95148856 AGAGTTCCGT
Statistics
Matches: 124, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
40 87 0.70
41 37 0.30
ACGTcount: A:0.33, C:0.29, G:0.10, T:0.28
Consensus pattern (41 bp):
TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGAT
Found at i:95148820 original size:81 final size:80
Alignment explanation
Indices: 95148685--95148855 Score: 281
Period size: 81 Copynumber: 2.1 Consensus size: 80
95148675 AGTAAATATA
* *
95148685 TGCAAACACTCATCTTACCAATGTCAATATGCATATCTGATTGCAACACTCATCTCACCAATGTC
1 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGATTGCAACACTCATCTCACCAACGTC
95148750 AATATGCACATCTGAT
66 AATATGCACATCTG-T
95148766 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTG-TTGCAAACACTCATCTCACCAACGT
1 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGATTGC-AACACTCATCTCACCAACGT
*
95148830 CAATATGCATATCTGT
65 CAATATGCACATCTGT
*
95148846 CGCAAACACT
1 TGCAAACACT
95148856 AGAGTTCCGT
Statistics
Matches: 85, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
80 14 0.16
81 71 0.84
ACGTcount: A:0.33, C:0.29, G:0.10, T:0.28
Consensus pattern (80 bp):
TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGATTGCAACACTCATCTCACCAACGTC
AATATGCACATCTGT
Found at i:95152445 original size:16 final size:16
Alignment explanation
Indices: 95152419--95152469 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
95152409 GACATAGCTA
*
95152419 TTCTCAAACAACGGTTG
1 TTCT-AAACAACAGTTG
* *
95152436 TTCTAAACAACAATTA
1 TTCTAAACAACAGTTG
*
95152452 TTCCAAACAACAGTTG
1 TTCTAAACAACAGTTG
95152468 TT
1 TT
95152470 TTTCCGGAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
16 24 0.86
17 4 0.14
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (16 bp):
TTCTAAACAACAGTTG
Found at i:95153245 original size:16 final size:16
Alignment explanation
Indices: 95153221--95153251 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95153211 TTTGTTGAGT
*
95153221 ATTGTCAAGACAAGAC
1 ATTGACAAGACAAGAC
95153237 ATTGACAAGACAAGA
1 ATTGACAAGACAAGA
95153252 GACTAGTACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (16 bp):
ATTGACAAGACAAGAC
Found at i:95163170 original size:20 final size:20
Alignment explanation
Indices: 95163145--95163185 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
95163135 CTAGAGATAT
*
95163145 AGATAGTATGTGCTTTGATC
1 AGATAGTATGTGCATTGATC
95163165 AGATAGTATGTGCATTGATC
1 AGATAGTATGTGCATTGATC
95163185 A
1 A
95163186 AATTATAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (20 bp):
AGATAGTATGTGCATTGATC
Found at i:95166346 original size:15 final size:14
Alignment explanation
Indices: 95166290--95166391 Score: 57
Period size: 14 Copynumber: 7.1 Consensus size: 14
95166280 TTATTATGTT
*
95166290 TCTATTTATATTTA
1 TCTATTTTTATTTA
*
95166304 T-T-TTGTTATTCTAA
1 TCTATTTTTATT-T-A
*
95166318 TACTATTATTATTTA
1 T-CTATTTTTATTTA
95166333 TCTAATTTTTATTTA
1 TCT-ATTTTTATTTA
* *
95166348 TCTATTTATATTTC
1 TCTATTTTTATTTA
**
95166362 TACTATTACTATATT-
1 T-CTATTTTTAT-TTA
*
95166377 TCTATTTCTATTTA
1 TCTATTTTTATTTA
95166391 T
1 T
95166392 ATACTAATAT
Statistics
Matches: 70, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
12 6 0.09
13 4 0.06
14 25 0.36
15 24 0.34
16 4 0.06
17 7 0.10
ACGTcount: A:0.26, C:0.10, G:0.01, T:0.63
Consensus pattern (14 bp):
TCTATTTTTATTTA
Found at i:95166359 original size:29 final size:28
Alignment explanation
Indices: 95166290--95166360 Score: 67
Period size: 29 Copynumber: 2.5 Consensus size: 28
95166280 TTATTATGTT
95166290 TCTATTTATATTTATTTTGTTATTCTAA
1 TCTATTTATATTTATTTTGTTATTCTAA
*
95166318 TACTA-TTATTATTTATCTAATTTTTATT-T-A
1 T-CTATTTA-TATTTAT-T--TTGTTATTCTAA
95166348 TCTATTTATATTT
1 TCTATTTATATTT
95166361 CTACTATTAC
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
28 4 0.11
29 18 0.50
30 6 0.17
31 1 0.03
32 7 0.19
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.65
Consensus pattern (28 bp):
TCTATTTATATTTATTTTGTTATTCTAA
Found at i:95166530 original size:3 final size:3
Alignment explanation
Indices: 95166522--95166694 Score: 135
Period size: 3 Copynumber: 57.7 Consensus size: 3
95166512 TTTAAAACTT
95166522 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TT- TCTA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA
* * * * *
95166567 TGA -TA TT- TCTA TT- TATA TTTA TGTA TTA ATA TCA TTA TTT TTT TTA
1 TTA TTA TTA T-TA TTA T-TA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA
* * * * *
95166613 TT- TTT TTA -TA TTA TTA TTA TTA TAA TTA TTA TTA CTA TTA GTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
95166659 TTA TTA TTTA TTA TTA TTA TTA CTA TTA TTA TTA TT
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
95166695 TATAATAGTA
Statistics
Matches: 138, Mismatches: 19, Indels: 26
0.75 0.10 0.14
Matches are distributed among these distances:
2 10 0.07
3 114 0.83
4 13 0.09
5 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:95167064 original size:3 final size:3
Alignment explanation
Indices: 95167022--95167073 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
95167012 TAAGCTTTAG
* * *
95167022 ATT ACTT ATT ATT -TAT ATT AAT ATT ATC ATT ATC ATT ATT ATT ATT
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
95167068 ATT ATT
1 ATT ATT
95167074 TAGAGTATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
2 1 0.03
3 35 0.88
4 4 0.10
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:95179022 original size:54 final size:54
Alignment explanation
Indices: 95178955--95179059 Score: 176
Period size: 54 Copynumber: 1.9 Consensus size: 54
95178945 AAGTCTAGCA
*
95178955 GAAGCACATAAGTGCTAAACAGAAGCCCGAAGGCTAACTGAAGTACACAAGACT
1 GAAGCACATAAGTGCTAAACAGAAGCCCGAAGGCTAACTGAAGCACACAAGACT
*
95179009 GAAGCAC-TCAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGCACACAAG
1 GAAGCACAT-AAGTGCTAAACAGAAGCCCGAAGGCTAACTGAAGCACACAAG
95179060 TGCCCTAAGG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
53 1 0.02
54 47 0.98
ACGTcount: A:0.41, C:0.24, G:0.24, T:0.11
Consensus pattern (54 bp):
GAAGCACATAAGTGCTAAACAGAAGCCCGAAGGCTAACTGAAGCACACAAGACT
Found at i:95185982 original size:36 final size:36
Alignment explanation
Indices: 95185871--95186024 Score: 152
Period size: 36 Copynumber: 4.3 Consensus size: 36
95185861 ACTATTTGTT
* * * *
95185871 TGGTGTGTTTTGGAGGGACTAGCTCTTTTGAGCAT-
1 TGGTGTGTTTTGGAGGGATTGGCTCGTGTGAGCATC
* * * * * * *
95185906 TGGTGTG-TTTCGATTGGACTAGCTCTTATGGGCAT-
1 TGGTGTGTTTTGGA-GGGATTGGCTCGTGTGAGCATC
*
95185941 TGGTGTATTTTGGAGGGATTGGCTCGTGTGAGCATC
1 TGGTGTGTTTTGGAGGGATTGGCTCGTGTGAGCATC
*
95185977 TGGTGTGTCTTGGAGGGATTGGCTCGTGTGAGCATC
1 TGGTGTGTTTTGGAGGGATTGGCTCGTGTGAGCATC
*
95186013 TAGTGTGTTTTG
1 TGGTGTGTTTTG
95186025 ATTAGACTGA
Statistics
Matches: 100, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
34 5 0.05
35 46 0.46
36 49 0.49
ACGTcount: A:0.13, C:0.12, G:0.36, T:0.39
Consensus pattern (36 bp):
TGGTGTGTTTTGGAGGGATTGGCTCGTGTGAGCATC
Found at i:95186863 original size:20 final size:20
Alignment explanation
Indices: 95186814--95186869 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
95186804 AGTTTATGCT
* * *
95186814 AAGTAAATGAAATGGAAAGT
1 AAGTAAATGGAATGGTAAGA
95186834 AAGTAAATGGAATGGTAAGA
1 AAGTAAATGGAATGGTAAGA
*
95186854 AAGTAAATGGAGTGGT
1 AAGTAAATGGAATGGT
95186870 TCATAGTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.21
Consensus pattern (20 bp):
AAGTAAATGGAATGGTAAGA
Found at i:95190023 original size:22 final size:22
Alignment explanation
Indices: 95189998--95190041 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
95189988 GTGAAAGGTC
95189998 TGGCTTTGAATATTGAGGTAAG
1 TGGCTTTGAATATTGAGGTAAG
* *
95190020 TGGCTTTGAATGTTGATGTAAG
1 TGGCTTTGAATATTGAGGTAAG
95190042 AAATGAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.25, C:0.05, G:0.32, T:0.39
Consensus pattern (22 bp):
TGGCTTTGAATATTGAGGTAAG
Found at i:95194640 original size:24 final size:24
Alignment explanation
Indices: 95194601--95194670 Score: 104
Period size: 24 Copynumber: 2.9 Consensus size: 24
95194591 TATTGACATC
*
95194601 CAAATCAGCACACATAGTGCCATT
1 CAAATCCGCACACATAGTGCCATT
*
95194625 CAATTCCGCACACATAGTGCCATT
1 CAAATCCGCACACATAGTGCCATT
* *
95194649 CAAATCCACACACTTAGTGCCA
1 CAAATCCGCACACATAGTGCCA
95194671 ATGTTGACCC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.34, C:0.33, G:0.11, T:0.21
Consensus pattern (24 bp):
CAAATCCGCACACATAGTGCCATT
Found at i:95202533 original size:21 final size:21
Alignment explanation
Indices: 95202507--95202546 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
95202497 CTTTCGCACA
* *
95202507 AGATTTTTTCTTTCACAAGGG
1 AGATTTGTTCTTTAACAAGGG
95202528 AGATTTGTTCTTTAACAAG
1 AGATTTGTTCTTTAACAAG
95202547 CATCATAGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.42
Consensus pattern (21 bp):
AGATTTGTTCTTTAACAAGGG
Found at i:95205213 original size:18 final size:20
Alignment explanation
Indices: 95205192--95205231 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
95205182 TTTTATGAAT
95205192 TTTTTAT-A-TTTTAAAATA
1 TTTTTATAATTTTTAAAATA
*
95205210 -TTTTATAATTTTTAAATTA
1 TTTTTATAATTTTTAAAATA
95205229 TTT
1 TTT
95205232 ATTGACGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 4
0.78 0.04 0.17
Matches are distributed among these distances:
17 6 0.33
18 1 0.06
19 9 0.50
20 2 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTATAATTTTTAAAATA
Found at i:95206419 original size:41 final size:44
Alignment explanation
Indices: 95206346--95206427 Score: 116
Period size: 42 Copynumber: 1.9 Consensus size: 44
95206336 CGTGACTATG
*
95206346 TTAAAAGAAAGATGACAAAAAGAGGAT-GGGAAAGAACAATCTA
1 TTAAAAGAAAGATGACAAAAAGAGGATAGGAAAAGAACAATCTA
**
95206389 TTAAAAGAAAGAT-A-GTAAAGAGGATAGGAAAAGAACAAT
1 TTAAAAGAAAGATGACAAAAAGAGGATAGGAAAAGAACAAT
95206428 ATTTTCTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
41 9 0.26
42 13 0.37
43 13 0.37
ACGTcount: A:0.57, C:0.05, G:0.23, T:0.15
Consensus pattern (44 bp):
TTAAAAGAAAGATGACAAAAAGAGGATAGGAAAAGAACAATCTA
Found at i:95207563 original size:15 final size:15
Alignment explanation
Indices: 95207543--95207577 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
95207533 AAGTTTTTAC
95207543 TTCGCAAGCAGAGGG
1 TTCGCAAGCAGAGGG
95207558 TTCGCAAGCAGAGGG
1 TTCGCAAGCAGAGGG
95207573 TTCGC
1 TTCGC
95207578 CAGTGGCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.23, C:0.23, G:0.37, T:0.17
Consensus pattern (15 bp):
TTCGCAAGCAGAGGG
Found at i:95207725 original size:27 final size:27
Alignment explanation
Indices: 95207673--95207809 Score: 82
Period size: 27 Copynumber: 5.1 Consensus size: 27
95207663 GGTAAGGGGT
*
95207673 GTTTGCCAGTTGGTTTGGTGAA-CTGGG
1 GTTTGCCAGTTGGTTTGG-CAAGCTGGG
*
95207700 GTTTGCTAGTTGGTTTGGCAAGCTGGG
1 GTTTGCCAGTTGGTTTGGCAAGCTGGG
* *** * * * *
95207727 GTTCAG-CAACAGGTCTAGCGAA-TTGAG
1 GTT-TGCCAGTTGGTTTGGC-AAGCTGGG
* * **
95207754 GTTTGCTAGTTGGTTTGGCGAGCTAAG
1 GTTTGCCAGTTGGTTTGGCAAGCTGGG
* *
95207781 GTTCGCCAGTTGGTTTGGCGAGCTGGG
1 GTTTGCCAGTTGGTTTGGCAAGCTGGG
95207808 GT
1 GT
95207810 CCGCCAATAG
Statistics
Matches: 80, Mismatches: 25, Indels: 10
0.70 0.22 0.09
Matches are distributed among these distances:
26 4 0.05
27 73 0.91
28 3 0.04
ACGTcount: A:0.15, C:0.14, G:0.39, T:0.33
Consensus pattern (27 bp):
GTTTGCCAGTTGGTTTGGCAAGCTGGG
Found at i:95207814 original size:27 final size:27
Alignment explanation
Indices: 95207761--95207815 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
95207751 GAGGTTTGCT
*
95207761 AGTTGGTTTGGCGAGCTAAGGTTCGCC
1 AGTTGGTTTGGCGAGCTAAGGTCCGCC
**
95207788 AGTTGGTTTGGCGAGCTGGGGTCCGCC
1 AGTTGGTTTGGCGAGCTAAGGTCCGCC
95207815 A
1 A
95207816 ATAGGTTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.13, C:0.20, G:0.40, T:0.27
Consensus pattern (27 bp):
AGTTGGTTTGGCGAGCTAAGGTCCGCC
Found at i:95207822 original size:27 final size:27
Alignment explanation
Indices: 95207765--95207823 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
95207755 TTTGCTAGTT
* * *
95207765 GGTTTGGCGAGCTAAGGTTCGCCAGTT
1 GGTTTGGCGAGCTAAGGTCCGCCAATA
**
95207792 GGTTTGGCGAGCTGGGGTCCGCCAATA
1 GGTTTGGCGAGCTAAGGTCCGCCAATA
95207819 GGTTT
1 GGTTT
95207824 AGTGAATTGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.14, C:0.19, G:0.39, T:0.29
Consensus pattern (27 bp):
GGTTTGGCGAGCTAAGGTCCGCCAATA
Found at i:95216125 original size:20 final size:20
Alignment explanation
Indices: 95216082--95216125 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
95216072 CGGACTGCCA
*
95216082 TGGTTTTAATTTATGGTTAT
1 TGGTTTTAATTTATGGTTAC
* **
95216102 TGGTTTTATTTTATTTTTAC
1 TGGTTTTAATTTATGGTTAC
95216122 TGGT
1 TGGT
95216126 CATATTTTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.16, C:0.02, G:0.18, T:0.64
Consensus pattern (20 bp):
TGGTTTTAATTTATGGTTAC
Found at i:95221165 original size:54 final size:55
Alignment explanation
Indices: 95221094--95221209 Score: 198
Period size: 54 Copynumber: 2.1 Consensus size: 55
95221084 TCCTTCAAAA
* * *
95221094 TGTTAGATTTCTCGTTATCAAACAATTATATGCTGATTTTAAAATTCGAGATTTG
1 TGTTAGATTTCTCGTTATCAAACAATTATATGCTAATTTTAAAATTAGAGATTCG
95221149 TGTTAG-TTTCTCGTTATCAAACAATTATATGCTAATTTTAAAATTAGAGATTCG
1 TGTTAGATTTCTCGTTATCAAACAATTATATGCTAATTTTAAAATTAGAGATTCG
95221203 TGTTAGA
1 TGTTAGA
95221210 GATCATTATA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
54 51 0.89
55 6 0.11
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (55 bp):
TGTTAGATTTCTCGTTATCAAACAATTATATGCTAATTTTAAAATTAGAGATTCG
Found at i:95221902 original size:21 final size:22
Alignment explanation
Indices: 95221855--95221903 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
95221845 CGACCCAAAC
* *
95221855 TTTTAATTTCTTATCTTAATTA
1 TTTTTATTTCTTATATTAATTA
95221877 TTTTTATTT-TTATATT-ATTA
1 TTTTTATTTCTTATATTAATTA
95221897 TATTTTA
1 T-TTTTA
95221904 AAATAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 5 0.21
21 11 0.46
22 8 0.33
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTTATTTCTTATATTAATTA
Found at i:95222903 original size:34 final size:34
Alignment explanation
Indices: 95222860--95222932 Score: 139
Period size: 34 Copynumber: 2.2 Consensus size: 34
95222850 GATGCATGAA
95222860 ACTTATGCACTGACAATACATCAAATACTATTCT
1 ACTTATGCACTGACAATACATCAAATACTATTCT
95222894 ACTTATGCACTGACAATACATCAAATACTATTCT
1 ACTTATGCACTGACAATACATCAAATACTATTCT
95222928 A-TTAT
1 ACTTAT
95222933 TAATGCCTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
33 4 0.10
34 35 0.90
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (34 bp):
ACTTATGCACTGACAATACATCAAATACTATTCT
Found at i:95227142 original size:21 final size:21
Alignment explanation
Indices: 95227116--95227168 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
95227106 AGCGGTGGCG
*
95227116 GTGAGAATAGTTACTGTAGCA
1 GTGAGAATAGATACTGTAGCA
* *
95227137 GTGAGATTGGATACTGTAGCA
1 GTGAGAATAGATACTGTAGCA
*
95227158 GTGAGATTAGA
1 GTGAGAATAGA
95227169 AACAATGGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (21 bp):
GTGAGAATAGATACTGTAGCA
Found at i:95227654 original size:18 final size:18
Alignment explanation
Indices: 95227631--95227665 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
95227621 ACGTGGCAGT
95227631 CCAACTAGATTTTAAGTG
1 CCAACTAGATTTTAAGTG
95227649 CCAACTAGATTTTAAGT
1 CCAACTAGATTTTAAGT
95227666 ATATCTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (18 bp):
CCAACTAGATTTTAAGTG
Found at i:95227820 original size:18 final size:18
Alignment explanation
Indices: 95227794--95227828 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
95227784 TAACAAATAT
*
95227794 ACTTCAAATCTAGTTGGC
1 ACTTAAAATCTAGTTGGC
95227812 ACTTAAAATCTAGTTGG
1 ACTTAAAATCTAGTTGG
95227829 ACTACCACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (18 bp):
ACTTAAAATCTAGTTGGC
Found at i:95227972 original size:31 final size:29
Alignment explanation
Indices: 95227908--95227976 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
95227898 ATGATAATAT
*** *
95227908 AAGTGACTAAAATGTAACATTTCAAACAT
1 AAGTGACTAAAATGTAACAAGGCAAACAA
95227937 AAGTGACTAAAATGTAACCTAAGGCAAACAA
1 AAGTGACTAAAATGTAA-C-AAGGCAAACAA
95227968 AAGTGACTA
1 AAGTGACTA
95227977 TTTTTGTAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 17 0.50
30 1 0.03
31 16 0.47
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.22
Consensus pattern (29 bp):
AAGTGACTAAAATGTAACAAGGCAAACAA
Found at i:95231716 original size:7 final size:7
Alignment explanation
Indices: 95231704--95231737 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
95231694 CCTACATAAC
95231704 ATGTTAA
1 ATGTTAA
95231711 ATGTTAA
1 ATGTTAA
95231718 ATGTTAA
1 ATGTTAA
95231725 ATGTTAA
1 ATGTTAA
95231732 ATGTTA
1 ATGTTA
95231738 TAATAAGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (7 bp):
ATGTTAA
Found at i:95243745 original size:18 final size:18
Alignment explanation
Indices: 95243697--95243747 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
95243687 ATGAGGTACT
95243697 CTGTGTACCG-TACTGCTA
1 CTGT-TACCGTTACTGCTA
*** *
95243715 CTGTTATTATTACTGTTA
1 CTGTTACCGTTACTGCTA
95243733 CTGTTACCGTTACTG
1 CTGTTACCGTTACTG
95243748 GCACGGTGTA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
17 2 0.08
18 23 0.92
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.43
Consensus pattern (18 bp):
CTGTTACCGTTACTGCTA
Found at i:95243914 original size:18 final size:18
Alignment explanation
Indices: 95243893--95243971 Score: 63
Period size: 18 Copynumber: 4.4 Consensus size: 18
95243883 TAATCAATTG
95243893 TTACTGAATCAA-TGACTA
1 TTACTGAAT-AACTGACTA
* *
95243911 TTACTAAATAATTGACTGA
1 TTACTGAATAACTGACT-A
* * **
95243930 -TATTGAATAAATGACCG
1 TTACTGAATAACTGACTA
*
95243947 TTACTGAATAACTGATTA
1 TTACTGAATAACTGACTA
95243965 TTACTGA
1 TTACTGA
95243972 TGACTAACTG
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
17 2 0.04
18 44 0.94
19 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (18 bp):
TTACTGAATAACTGACTA
Found at i:95248159 original size:53 final size:53
Alignment explanation
Indices: 95248078--95248228 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
95248068 CTTACACGGT
* *
95248078 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
95248133 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** * *
95248186 TCACATTGCACCGATGCCATAGCCCAGCTATAGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
95248229 GCGCACTTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:95252584 original size:17 final size:19
Alignment explanation
Indices: 95252557--95252607 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 19
95252547 AATATAATAT
*
95252557 AATATAATAAAGAAAGT-A
1 AATAGAATAAAGAAAGTAA
95252575 AA-AGAATAAAAGAAA-TAA
1 AATAGAAT-AAAGAAAGTAA
95252593 AATAGAA-AAAGAAAG
1 AATAGAATAAAGAAAG
95252608 GACAGAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
17 12 0.43
18 12 0.43
19 4 0.14
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (19 bp):
AATAGAATAAAGAAAGTAA
Found at i:95254578 original size:22 final size:22
Alignment explanation
Indices: 95254547--95254602 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
95254537 AGGGTTGATG
* *
95254547 ACACGGGCGTGTCATATCAGCC
1 ACACGGGCGTGTCACATAAGCC
*
95254569 ACACGAGCGTGTCACATAAGCC
1 ACACGGGCGTGTCACATAAGCC
*
95254591 ACTCGGGCGTGT
1 ACACGGGCGTGT
95254603 GATACTATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.23, C:0.30, G:0.29, T:0.18
Consensus pattern (22 bp):
ACACGGGCGTGTCACATAAGCC
Found at i:95258150 original size:48 final size:48
Alignment explanation
Indices: 95258095--95258190 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
95258085 CCTGAATGTG
95258095 ATCACTAGATTTATTTTTTTTCGTTGCTTCATGGCATGTACCGGTGTT
1 ATCACTAGATTTATTTTTTTTCGTTGCTTCATGGCATGTACCGGTGTT
95258143 ATCACTAGATTTATTTTTTTTCGTTGCTTCATGGCATGTACCGGTGTT
1 ATCACTAGATTTATTTTTTTTCGTTGCTTCATGGCATGTACCGGTGTT
95258191 CTAACAGTTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.48
Consensus pattern (48 bp):
ATCACTAGATTTATTTTTTTTCGTTGCTTCATGGCATGTACCGGTGTT
Found at i:95261690 original size:2 final size:2
Alignment explanation
Indices: 95261683--95261770 Score: 117
Period size: 2 Copynumber: 45.0 Consensus size: 2
95261673 AGTGAAGCGC
* * *
95261683 GA GA GA GA GA GA CA AA TA GA G- GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
95261724 AA GA GA GA GA GA GA -A GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
95261765 AA GA GA
1 GA GA GA
95261771 AGGCATTTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
1 2 0.03
2 74 0.97
ACGTcount: A:0.53, C:0.01, G:0.44, T:0.01
Consensus pattern (2 bp):
GA
Found at i:95263348 original size:3 final size:3
Alignment explanation
Indices: 95263340--95263370 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
95263330 GGGTACCTTA
95263340 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG T
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG T
95263371 TTGGGGGATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.65, T:0.35
Consensus pattern (3 bp):
TGG
Found at i:95268330 original size:16 final size:15
Alignment explanation
Indices: 95268309--95268358 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 15
95268299 TTTTTAAAAA
95268309 TTAATTTATACTATTT
1 TTAATTTATA-TATTT
95268325 TTAATTTA-ATATTT
1 TTAATTTATATATTT
95268339 TATGAATTTATATATATT
1 T-T-AATTTATATAT-TT
95268357 TT
1 TT
95268359 TATAATTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.20
15 2 0.07
16 14 0.47
17 5 0.17
18 3 0.10
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (15 bp):
TTAATTTATATATTT
Found at i:95268858 original size:28 final size:29
Alignment explanation
Indices: 95268797--95268858 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
95268787 ATTTGTACAT
***
95268797 TTAGAATTTAATTTTTTTACTTTATTTTA
1 TTAGAATTTAATTTTTTTACTTTATCGGA
*
95268826 -AAGAATTTAATTTTTTTACTTT-TCGGA
1 TTAGAATTTAATTTTTTTACTTTATCGGA
95268853 TTAGAA
1 TTAGAA
95268859 ATTGTTAACA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
27 2 0.07
28 25 0.93
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.56
Consensus pattern (29 bp):
TTAGAATTTAATTTTTTTACTTTATCGGA
Found at i:95271079 original size:20 final size:19
Alignment explanation
Indices: 95271048--95271119 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
95271038 CTCTTTCAAC
95271048 AAAAATTACAAAATAATTTT
1 AAAAATT-CAAAATAATTTT
95271068 CAAAAATTCAAAATAATTTT
1 -AAAAATTCAAAATAATTTT
* *
95271088 TAAAATTTAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
*
95271107 AAAAATTCTAAAT
1 AAAAATTCAAAAT
95271120 TTTATATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
18 4 0.09
19 22 0.49
20 12 0.27
21 7 0.16
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:95271094 original size:19 final size:19
Alignment explanation
Indices: 95271049--95271110 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 19
95271039 TCTTTCAACA
*
95271049 AAAATTACAAAATAATTTTCA
1 AAAATT-CAAAATAATTTT-T
95271070 AAAATTCAAAATAATTTTT
1 AAAATTCAAAATAATTTTT
* *
95271089 AAAATTTAAAAT-ATTTAT
1 AAAATTCAAAATAATTTTT
95271107 AAAA
1 AAAA
95271111 ATTCTAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.24
19 11 0.29
20 12 0.32
21 6 0.16
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:95271119 original size:19 final size:19
Alignment explanation
Indices: 95271069--95271125 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
95271059 AATAATTTTC
*
95271069 AAAAATTCAAAATAATTT-T
1 AAAAATTCTAAAT-ATTTAT
*
95271088 TAAAATT-TAAAATATTTAT
1 AAAAATTCT-AAATATTTAT
95271107 AAAAATTCTAAAT-TTTAT
1 AAAAATTCTAAATATTTAT
95271125 A
1 A
95271126 TTTTAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 10 0.31
19 21 0.66
20 1 0.03
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAAATTCTAAATATTTAT
Found at i:95271142 original size:12 final size:12
Alignment explanation
Indices: 95271125--95271157 Score: 52
Period size: 10 Copynumber: 2.9 Consensus size: 12
95271115 TAAATTTTAT
95271125 ATTTTAAAAAAA
1 ATTTTAAAAAAA
95271137 ATTTT--AAAAA
1 ATTTTAAAAAAA
95271147 ATTTTAAAAAA
1 ATTTTAAAAAA
95271158 TTCCAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 10 0.53
12 9 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
ATTTTAAAAAAA
Found at i:95271155 original size:9 final size:10
Alignment explanation
Indices: 95271132--95271159 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
95271122 TATATTTTAA
95271132 AAAAAATTTT
1 AAAAAATTTT
95271142 AAAAAATTTT
1 AAAAAATTTT
95271152 AAAAAATT
1 AAAAAATT
95271160 CCAAAGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:95272492 original size:25 final size:24
Alignment explanation
Indices: 95272447--95272493 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
95272437 AATAGAAATT
*
95272447 TTTTAAAAATAAAATTTTAAATAA
1 TTTTAAAAATAAAATTATAAATAA
95272471 TTTTAAAATATATAAA-TATAAAT
1 TTTTAAAA-ATA-AAATTATAAAT
95272494 TAAAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 8 0.40
25 9 0.45
26 3 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTTAAAAATAAAATTATAAATAA
Found at i:95272643 original size:17 final size:16
Alignment explanation
Indices: 95272609--95272659 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
95272599 TAAATTATAT
*
95272609 AAATAGAAATTCAAAA
1 AAATAGAAATTGAAAA
95272625 AAATAGAAATTTGAAAA
1 AAATAGAAA-TTGAAAA
95272642 AAATTA-AAATTGAAAA
1 AAA-TAGAAATTGAAAA
95272658 AA
1 AA
95272660 TAATTAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 18 0.56
17 12 0.38
18 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.22
Consensus pattern (16 bp):
AAATAGAAATTGAAAA
Found at i:95274407 original size:14 final size:14
Alignment explanation
Indices: 95274388--95274441 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
95274378 ATGTGAATAA
95274388 TTAAAATAAAAATT
1 TTAAAATAAAAATT
*
95274402 TTAAAATATGAGAAATAA
1 TTAAAATA--A-AAAT-T
95274420 TTAAAATAAAAATT
1 TTAAAATAAAAATT
95274434 TTAAAATA
1 TTAAAATA
95274442 TGAGAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 16 0.47
15 4 0.12
16 2 0.06
17 4 0.12
18 8 0.24
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (14 bp):
TTAAAATAAAAATT
Found at i:95274424 original size:32 final size:32
Alignment explanation
Indices: 95274366--95274464 Score: 164
Period size: 32 Copynumber: 3.1 Consensus size: 32
95274356 AGTGAAGATT
*
95274366 AAATTTTAAAATATGTG-AATAATTAAAATAA
1 AAATTTTAAAATATGAGAAATAATTAAAATAA
95274397 AAATTTTAAAATATGAGAAATAATTAAAATAA
1 AAATTTTAAAATATGAGAAATAATTAAAATAA
**
95274429 AAATTTTAAAATATGAGAAATAATTAATCTAA
1 AAATTTTAAAATATGAGAAATAATTAAAATAA
95274461 AAAT
1 AAAT
95274465 AATCAAATTA
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
31 16 0.25
32 48 0.75
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (32 bp):
AAATTTTAAAATATGAGAAATAATTAAAATAA
Found at i:95275767 original size:172 final size:172
Alignment explanation
Indices: 95275481--95275825 Score: 672
Period size: 172 Copynumber: 2.0 Consensus size: 172
95275471 TCATTGATTG
*
95275481 ATTGTACTTTGATTATTTTGATTGTATTAGCTATTTTCAAGGAATTACTTTATATTGACTTAAAT
1 ATTGTACATTGATTATTTTGATTGTATTAGCTATTTTCAAGGAATTACTTTATATTGACTTAAAT
95275546 GCTATGTTAGTAAGCCGAGATTGATATATGATTTGAGGCTTGTATAAGTTATGTATGAGAGCTTA
66 GCTATGTTAGTAAGCCGAGATTGATATATGATTTGAGGCTTGTATAAGTTATGTATGAGAGCTTA
95275611 TTTAGTGCATTCTAATATGTTCATAAAAGGAACGACTGTGTA
131 TTTAGTGCATTCTAATATGTTCATAAAAGGAACGACTGTGTA
95275653 ATTGTACATTGATTATTTTGATTGTATTAGCTATTTTCAAGGAATTACTTTATATTGACTTAAAT
1 ATTGTACATTGATTATTTTGATTGTATTAGCTATTTTCAAGGAATTACTTTATATTGACTTAAAT
95275718 GCTATGTTAGTAAGCCGAGATTGATATATGATTTGAGGCTTGTATAAGTTATGTATGAGAGCTTA
66 GCTATGTTAGTAAGCCGAGATTGATATATGATTTGAGGCTTGTATAAGTTATGTATGAGAGCTTA
*
95275783 TTTAGTGCATTCTAATCTGTTCATAAAAGGAACGACTGTGTA
131 TTTAGTGCATTCTAATATGTTCATAAAAGGAACGACTGTGTA
95275825 A
1 A
95275826 GAGAGTGCAA
Statistics
Matches: 171, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
172 171 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.41
Consensus pattern (172 bp):
ATTGTACATTGATTATTTTGATTGTATTAGCTATTTTCAAGGAATTACTTTATATTGACTTAAAT
GCTATGTTAGTAAGCCGAGATTGATATATGATTTGAGGCTTGTATAAGTTATGTATGAGAGCTTA
TTTAGTGCATTCTAATATGTTCATAAAAGGAACGACTGTGTA
Found at i:95288672 original size:60 final size:60
Alignment explanation
Indices: 95288556--95288668 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
95288546 TACATCACAA
* *
95288556 GTCATCCAACTATGGGCCTGTTTCTTTTTGGGTTACCTAATTATGAATTTTTTTAAATTG
1 GTCACCCAACTATGGGCCTGTTTCTTTTTGGGTTACCTAACTATGAATTTTTTTAAATTG
* **
95288616 GTCACCCAACTTTGGGTTTGTTTCTCTTTT-GGTTA-CTCAACTAT-AATTTTTTT
1 GTCACCCAACTATGGGCCTGTTTCT-TTTTGGGTTACCT-AACTATGAATTTTTTT
95288669 TAAAAAGAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
59 11 0.24
60 31 0.67
61 4 0.09
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (60 bp):
GTCACCCAACTATGGGCCTGTTTCTTTTTGGGTTACCTAACTATGAATTTTTTTAAATTG
Found at i:95288906 original size:10 final size:10
Alignment explanation
Indices: 95288891--95288952 Score: 67
Period size: 10 Copynumber: 6.3 Consensus size: 10
95288881 AATTTCAAAG
95288891 AAATATATAA
1 AAATATATAA
95288901 AAATATAT-A
1 AAATATATAA
* *
95288910 AAATTTTTAA
1 AAATATATAA
95288920 ATAATATATAA
1 A-AATATATAA
95288931 TAAAT-T-TAA
1 -AAATATATAA
95288940 AAATATATAA
1 AAATATATAA
95288950 AAA
1 AAA
95288953 AAATAATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
8 4 0.09
9 11 0.26
10 17 0.40
11 10 0.23
12 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAATATATAA
Found at i:95288935 original size:22 final size:18
Alignment explanation
Indices: 95288898--95288952 Score: 74
Period size: 20 Copynumber: 2.9 Consensus size: 18
95288888 AAGAAATATA
*
95288898 TAAAAATATATAAAATTTT
1 TAAAAATATATAAAA-ATT
95288917 TAAATAATATATAATAAATT
1 TAAA-AATATATAA-AAATT
95288937 TAAAAATATATAAAAA
1 TAAAAATATATAAAAA
95288953 AAATAATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
18 3 0.09
19 13 0.39
20 15 0.45
21 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAAAATATATAAAAATT
Found at i:95289815 original size:104 final size:104
Alignment explanation
Indices: 95289709--95289895 Score: 283
Period size: 104 Copynumber: 1.8 Consensus size: 104
95289699 AAATCAGAAA
*
95289709 AAAAATTA-TAAAAATATT-AAATATTAAAACCATTAAAATTTATATAAACTTAT-TAAAATTAT
1 AAAAATTATTAAAAATATTAAAATATTAAAA-CATTAAAATTTATATAAACTTATAAAAAATTAT
95289771 AAAAAAATAT-ATAAAAACTTATTTAAAATATTTAATATTT
65 AAAAAAAT-TCATAAAAACTTATTTAAAATATTTAATATTT
* * * *
95289811 AAAAATTATTAGAATTATTAAAATATTAAAATATTAAAATTTATATAGACTTATAAAAAATTATA
1 AAAAATTATTAAAAATATTAAAATATTAAAACATTAAAATTTATATAAACTTATAAAAAATTATA
95289876 AAAAAATTCATAAAAACTTA
66 AAAAAATTCATAAAAACTTA
95289896 AACTAGACCG
Statistics
Matches: 76, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
102 8 0.11
103 30 0.39
104 38 0.50
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (104 bp):
AAAAATTATTAAAAATATTAAAATATTAAAACATTAAAATTTATATAAACTTATAAAAAATTATA
AAAAAATTCATAAAAACTTATTTAAAATATTTAATATTT
Found at i:95289833 original size:35 final size:36
Alignment explanation
Indices: 95289712--95289873 Score: 104
Period size: 35 Copynumber: 4.4 Consensus size: 36
95289702 TCAGAAAAAA
*
95289712 AATTATAAAAATATT-AAATATTAAAACCATTA-A-A-
1 AATTATTAAAATATTAAAATATTAAAA--ATTATATAG
* * * * *
95289746 ATTTATATAAACTTATTAAAATTATAAAAAAATATATAAA
1 AATTAT-TAAA-ATATTAAAA-TATTAAAAATTATAT-AG
*
95289786 AACTTATTTAAAATATT-TAATATTTAAAAATTAT-TAG
1 AA-TTA-TTAAAATATTAAAATA-TTAAAAATTATATAG
*
95289823 AATTATTAAAATATTAAAATATTAAAATTTATATAG
1 AATTATTAAAATATTAAAATATTAAAAATTATATAG
* *
95289859 ACTTA-TAAAAAATTA
1 AATTATTAAAATATTA
95289874 TAAAAAAATT
Statistics
Matches: 100, Mismatches: 15, Indels: 25
0.71 0.11 0.18
Matches are distributed among these distances:
34 5 0.05
35 32 0.32
36 21 0.21
37 7 0.07
38 10 0.10
39 12 0.12
40 5 0.05
41 7 0.07
42 1 0.01
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (36 bp):
AATTATTAAAATATTAAAATATTAAAAATTATATAG
Found at i:95289835 original size:28 final size:28
Alignment explanation
Indices: 95289774--95289846 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 28
95289764 AAATTATAAA
*
95289774 AAAATATATAAAAACTTATTTAAAATATT
1 AAAATATTTAAAAA-TTATTTAAAATATT
* *
95289803 -TAATATTTAAAAATTA-TTAGAATTATT
1 AAAATATTTAAAAATTATTTA-AAATATT
95289830 AAAATA-TTAAAATATTA
1 AAAATATTTAAAA-ATTA
95289847 AAATTTATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
26 3 0.08
27 15 0.41
28 19 0.51
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (28 bp):
AAAATATTTAAAAATTATTTAAAATATT
Found at i:95289838 original size:20 final size:20
Alignment explanation
Indices: 95289809--95289874 Score: 56
Period size: 19 Copynumber: 3.6 Consensus size: 20
95289799 TATTTAATAT
95289809 TTAAAA-ATTATTAGAATTA
1 TTAAAATATTATTAGAATTA
95289828 TTAAAATATTA--A-AA-TA
1 TTAAAATATTATTAGAATTA
*
95289844 TTAAAAT-TTATATAGACTTA
1 TTAAAATATTAT-TAGAATTA
*
95289864 -TAAAAAATTAT
1 TTAAAATATTAT
95289875 AAAAAAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
15 3 0.08
16 9 0.24
17 2 0.05
18 2 0.05
19 12 0.32
20 10 0.26
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.41
Consensus pattern (20 bp):
TTAAAATATTATTAGAATTA
Found at i:95289839 original size:8 final size:8
Alignment explanation
Indices: 95289793--95289850 Score: 55
Period size: 8 Copynumber: 6.9 Consensus size: 8
95289783 AAAAACTTAT
95289793 TTAAAATA
1 TTAAAATA
*
95289801 TT-TAATA
1 TTAAAATA
95289808 TTTAAAAATTA
1 -TT-AAAA-TA
*
95289819 TTAGAATTA
1 TTA-AAATA
95289828 TTAAAATA
1 TTAAAATA
95289836 TTAAAATA
1 TTAAAATA
95289844 TTAAAAT
1 TTAAAAT
95289851 TTATATAGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
7 4 0.10
8 23 0.56
9 6 0.15
10 6 0.15
11 2 0.05
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (8 bp):
TTAAAATA
Found at i:95290304 original size:19 final size:19
Alignment explanation
Indices: 95290293--95290356 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
95290283 TTTTATATCA
95290293 ATTTTAATATTTTTATAAT
1 ATTTTAATATTTTTATAAT
95290312 ATTTTAAATATGTTTTATTAAT
1 ATTTT-AATAT-TTTTA-TAAT
* *
95290334 GTTATAAT-TTTTT-TAAT
1 ATTTTAATATTTTTATAAT
*
95290351 AATTTA
1 ATTTTA
95290357 TTAGAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
17 7 0.19
19 9 0.24
20 6 0.16
21 8 0.22
22 7 0.19
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (19 bp):
ATTTTAATATTTTTATAAT
Found at i:95290328 original size:30 final size:30
Alignment explanation
Indices: 95290294--95290351 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
95290284 TTTATATCAA
* *
95290294 TTTTAATATTTTTATAATATTTTAAATATG
1 TTTTAATAATGTTATAATATTTTAAATATG
* * *
95290324 TTTTATTAATGTTATAATTTTTTTAATA
1 TTTTAATAATGTTATAATATTTTAAATA
95290352 ATTTATTAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (30 bp):
TTTTAATAATGTTATAATATTTTAAATATG
Found at i:95290356 original size:28 final size:27
Alignment explanation
Indices: 95290325--95290383 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
95290315 TTAAATATGT
95290325 TTTATT-AATGTTATAATTTTTTTAATAA
1 TTTATTAAAT-TT-TAATTTTTTTAATAA
*
95290353 TTTATTAGAATTTTAGTTTTTTTAATAA
1 TTTATTA-AATTTTAATTTTTTTAATAA
95290381 TTT
1 TTT
95290384 TTATAAGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 23 0.82
29 2 0.07
30 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (27 bp):
TTTATTAAATTTTAATTTTTTTAATAA
Found at i:95290461 original size:18 final size:18
Alignment explanation
Indices: 95290439--95290480 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
95290429 TATTAAATAT
*
95290439 TTTTTTATATTTTTTGAT-A
1 TTTTTTA-A-TTTTTAATCA
95290458 TTTTTTAATTTTTAATCA
1 TTTTTTAATTTTTAATCA
95290476 TTTTT
1 TTTTT
95290481 GAGAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 7 0.33
18 7 0.33
19 7 0.33
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTTTTAATTTTTAATCA
Found at i:95290468 original size:8 final size:9
Alignment explanation
Indices: 95290439--95290480 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 9
95290429 TATTAAATAT
95290439 TTTTTTATA
1 TTTTTTATA
95290448 TTTTTTGATA
1 TTTTTT-ATA
95290458 TTTTTTA-A
1 TTTTTTATA
*
95290466 TTTTTAATCA
1 TTTTTTAT-A
95290476 TTTTT
1 TTTTT
95290481 GAGAAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
8 7 0.24
9 7 0.24
10 15 0.52
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTTTTATA
Found at i:95290925 original size:19 final size:20
Alignment explanation
Indices: 95290903--95290948 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
95290893 TATTATAATC
*
95290903 TATATTATAATAATA-GTTA
1 TATATTATAATAATACATTA
* *
95290922 TATATAATAATACTACATTA
1 TATATTATAATAATACATTA
95290942 TATATTA
1 TATATTA
95290949 CTTATTATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (20 bp):
TATATTATAATAATACATTA
Found at i:95290943 original size:16 final size:16
Alignment explanation
Indices: 95290890--95290957 Score: 63
Period size: 15 Copynumber: 4.4 Consensus size: 16
95290880 TTACTATAAC
*
95290890 TATTATTATAAT-CTA
1 TATTATAATAATACTA
*
95290905 TATTATAATAATAGT-
1 TATTATAATAATACTA
95290920 TATATATAATAATACTA
1 TAT-TATAATAATACTA
* *
95290937 CATTAT-ATATTACT-
1 TATTATAATAATACTA
95290951 TATTATA
1 TATTATA
95290958 TATTATTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
14 5 0.12
15 21 0.49
16 15 0.35
17 2 0.05
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.49
Consensus pattern (16 bp):
TATTATAATAATACTA
Found at i:95290957 original size:14 final size:13
Alignment explanation
Indices: 95290938--95290976 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
95290928 ATAATACTAC
95290938 ATTATATATTACTT
1 ATTATATATTA-TT
95290952 ATTATATATTATT
1 ATTATATATTATT
95290965 ATT-TATTATTAT
1 ATTATA-TATTAT
95290977 ACTAGTTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 2 0.08
13 11 0.46
14 11 0.46
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTATATATTATT
Found at i:95292474 original size:105 final size:100
Alignment explanation
Indices: 95292357--95292549 Score: 244
Period size: 105 Copynumber: 1.9 Consensus size: 100
95292347 CTCGTAATGC
* *
95292357 CATAACCTAGTTATGGTCTTATCA-TCAAGATACCATAGCCCAACTATGGTTTTACACTTATACA
1 CATAACCCAGTTATGGTCTTATCACTCAA-ATACCATAG-CCAACTATGGTCTTACA-TT-TA-A
95292421 CACACTGCCATGGTCCAACCATGGTCTTACGTTCACGGTGT
61 -ACACTGCCATGGTCCAACCATGGTCTTACGTTCACGGTGT
* * * * * *
95292462 CATAACCCAGTTATGGTCTTTTCACTGAAATGCCATAGCCAGCTATGGTCTTGCATTTAAACATT
1 CATAACCCAGTTATGGTCTTATCACTCAAATACCATAGCCAACTATGGTCTTACATTTAAACACT
*
95292527 TCCATGGTCCAACCATGGTCTTA
66 GCCATGGTCCAACCATGGTCTTA
95292550 TCCGTCAATT
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
100 26 0.33
101 1 0.01
102 2 0.03
103 2 0.03
104 14 0.18
105 30 0.38
106 3 0.04
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.32
Consensus pattern (100 bp):
CATAACCCAGTTATGGTCTTATCACTCAAATACCATAGCCAACTATGGTCTTACATTTAAACACT
GCCATGGTCCAACCATGGTCTTACGTTCACGGTGT
Found at i:95292713 original size:22 final size:24
Alignment explanation
Indices: 95292672--95292715 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
95292662 AACAAAGATA
95292672 TAAATTAAAACATTATATCATTCC
1 TAAATTAAAACATTATATCATTCC
*
95292696 TAAATTAACA-ATTA-ATCATT
1 TAAATTAAAACATTATATCATT
95292716 AAAGTTCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 4 0.21
24 9 0.47
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.39
Consensus pattern (24 bp):
TAAATTAAAACATTATATCATTCC
Found at i:95293996 original size:16 final size:17
Alignment explanation
Indices: 95293977--95294009 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
95293967 AATTTTATAG
95293977 ATTTTA-ATAATTATTA
1 ATTTTATATAATTATTA
*
95293993 ATTTTATATATTTATTA
1 ATTTTATATAATTATTA
95294010 TACATGTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTATATAATTATTA
Found at i:95303816 original size:5 final size:5
Alignment explanation
Indices: 95303806--95303837 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
95303796 GAGGCAGTGA
95303806 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
95303838 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:95303831 original size:9 final size:9
Alignment explanation
Indices: 95303807--95303837 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
95303797 AGGCAGTGAA
95303807 AAATAAAAT
1 AAATAAAAT
95303816 AAAATAAAAT
1 -AAATAAAAT
95303826 AAATAAAAT
1 AAATAAAAT
95303835 AAA
1 AAA
95303838 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:95306678 original size:6 final size:6
Alignment explanation
Indices: 95306667--95306696 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
95306657 CAAGTTTGTA
95306667 AATATT AATATT AATATT AATATT AATATT
1 AATATT AATATT AATATT AATATT AATATT
95306697 TACGAGATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATATT
Found at i:95319497 original size:6 final size:6
Alignment explanation
Indices: 95319486--95319535 Score: 82
Period size: 6 Copynumber: 8.3 Consensus size: 6
95319476 ATAGGAAAAC
* *
95319486 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AACATA AAGATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
95319534 AA
1 AA
95319536 TGGACTCAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:95321471 original size:23 final size:22
Alignment explanation
Indices: 95321428--95321476 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 22
95321418 GGGGAGAAGG
95321428 GAAAGAGGAGGAAAAGAAAGAA
1 GAAAGAGGAGGAAAAGAAAGAA
*
95321450 GAAATGAGG-GG-AAAG-AGGAA
1 GAAA-GAGGAGGAAAAGAAAGAA
95321470 GAAAGAG
1 GAAAGAG
95321477 ATTTTCGACG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 8 0.32
21 4 0.16
22 6 0.24
23 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.41, T:0.02
Consensus pattern (22 bp):
GAAAGAGGAGGAAAAGAAAGAA
Found at i:95325665 original size:14 final size:14
Alignment explanation
Indices: 95325646--95325684 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
95325636 TTAGATCAAG
95325646 AATTAAGAACACAT
1 AATTAAGAACACAT
95325660 AATTAAGAACACAT
1 AATTAAGAACACAT
95325674 AATTAAGAACA
1 AATTAAGAACA
95325685 AGAACAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.59, C:0.13, G:0.08, T:0.21
Consensus pattern (14 bp):
AATTAAGAACACAT
Found at i:95327851 original size:15 final size:15
Alignment explanation
Indices: 95327809--95327852 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
95327799 AATTTGGGAG
95327809 AGTTTGGGCAAAAAT
1 AGTTTGGGCAAAAAT
*
95327824 A-TTTGGCCCAAAAAT
1 AGTTTGG-GCAAAAAT
*
95327839 AGTTTGGGTAAAAA
1 AGTTTGGGCAAAAA
95327853 AATTAAGCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 5 0.21
15 14 0.58
16 5 0.21
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (15 bp):
AGTTTGGGCAAAAAT
Found at i:95328342 original size:26 final size:30
Alignment explanation
Indices: 95328304--95328366 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 30
95328294 CCCCTGAGGC
95328304 TATATATAAAATT-TT-AATA-AATAAAAA
1 TATATATAAAATTATTAAATATAATAAAAA
*
95328331 T-TATATAAAATTATTAAATATAATATAAA
1 TATATATAAAATTATTAAATATAATAAAAA
95328360 TATATAT
1 TATATAT
95328367 TTTAAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
26 11 0.35
27 3 0.10
28 4 0.13
29 8 0.26
30 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (30 bp):
TATATATAAAATTATTAAATATAATAAAAA
Found at i:95329922 original size:21 final size:20
Alignment explanation
Indices: 95329898--95329937 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
95329888 ATATTTTCAT
*
95329898 TATTTCATAACATATTAATAA
1 TATTTCATAAAAT-TTAATAA
*
95329919 TATTTTATAAAATTTAATA
1 TATTTCATAAAATTTAATA
95329938 GTATCATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTTCATAAAATTTAATAA
Found at i:95337423 original size:38 final size:38
Alignment explanation
Indices: 95337329--95337426 Score: 128
Period size: 38 Copynumber: 2.6 Consensus size: 38
95337319 ATAATACAAA
*
95337329 AACAATAGACATGCTTAACATGTATTCAGTTCAACTAT
1 AACAATAGACATGCTTAACATGTATTCAATTCAACTAT
* *
95337367 AGA-AGTAGGCATGCTTAACATGTATTCAATTCAAC-AGT
1 A-ACAATAGACATGCTTAACATGTATTCAATTCAACTA-T
*
95337405 AACAATAGACATGTTTAACATG
1 AACAATAGACATGCTTAACATG
95337427 CATCTGGTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
37 2 0.04
38 48 0.94
39 1 0.02
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (38 bp):
AACAATAGACATGCTTAACATGTATTCAATTCAACTAT
Found at i:95337436 original size:16 final size:16
Alignment explanation
Indices: 95337417--95337447 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
95337407 CAATAGACAT
95337417 GTTTAACATGCATCTG
1 GTTTAACATGCATCTG
95337433 GTTTAACATGCATCT
1 GTTTAACATGCATCT
95337448 AATTCAACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (16 bp):
GTTTAACATGCATCTG
Found at i:95339262 original size:13 final size:14
Alignment explanation
Indices: 95339246--95339280 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
95339236 ATATCAAAAA
95339246 ATTTTAAATAT-AT
1 ATTTTAAATATCAT
*
95339259 ATTTTAAATTTCAT
1 ATTTTAAATATCAT
95339273 ATTTTAAA
1 ATTTTAAA
95339281 AGGTTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (14 bp):
ATTTTAAATATCAT
Found at i:95344233 original size:14 final size:14
Alignment explanation
Indices: 95344214--95344244 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
95344204 TTAATTTAAA
95344214 AAAATAAAGAAATT
1 AAAATAAAGAAATT
*
95344228 AAAATAGAGAAATT
1 AAAATAAAGAAATT
95344242 AAA
1 AAA
95344245 TTCACAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (14 bp):
AAAATAAAGAAATT
Found at i:95353013 original size:11 final size:11
Alignment explanation
Indices: 95352997--95353022 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
95352987 CTATTAAATT
95352997 TTTGGGGTAAG
1 TTTGGGGTAAG
95353008 TTTGGGGTAAG
1 TTTGGGGTAAG
95353019 TTTG
1 TTTG
95353023 TCCCGCATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.42, T:0.42
Consensus pattern (11 bp):
TTTGGGGTAAG
Found at i:95355112 original size:30 final size:30
Alignment explanation
Indices: 95355077--95355134 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
95355067 TAGGCACTTC
*
95355077 CACACGGGT-GATTCACAGACCCGTGTGTGA
1 CACACGGGTAGA-CCACAGACCCGTGTGTGA
*
95355107 CACACGGGTAGACCACATACCCGTGTGT
1 CACACGGGTAGACCACAGACCCGTGTGT
95355135 CATGGTCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.24, C:0.29, G:0.28, T:0.19
Consensus pattern (30 bp):
CACACGGGTAGACCACAGACCCGTGTGTGA
Found at i:95355797 original size:49 final size:49
Alignment explanation
Indices: 95355740--95355839 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
95355730 CCGGATTAGA
95355740 GTCAAATCTAATAAGGAGATCCATAGATCGAGTTAATGCGACAATAGGG
1 GTCAAATCTAATAAGGAGATCCATAGATCGAGTTAATGCGACAATAGGG
* *
95355789 GTCAAATCTAATAAGGGGATCCATAGATCGAGTTAATGCGACGATAGGG
1 GTCAAATCTAATAAGGAGATCCATAGATCGAGTTAATGCGACAATAGGG
95355838 GT
1 GT
95355840 TTTAATTAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (49 bp):
GTCAAATCTAATAAGGAGATCCATAGATCGAGTTAATGCGACAATAGGG
Found at i:95359875 original size:22 final size:22
Alignment explanation
Indices: 95359830--95359876 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
95359820 AGTCTATTTA
*
95359830 TTTTATTTCTTTTTATTTTTAT
1 TTTTATTTCTTTTTATTTTAAT
*
95359852 TTTTATTTTTCTTTTA-TTTAAT
1 TTTTATTTCT-TTTTATTTTAAT
95359874 TTT
1 TTT
95359877 CTTAAGACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTATTTCTTTTTATTTTAAT
Found at i:95360609 original size:30 final size:30
Alignment explanation
Indices: 95360566--95360638 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
95360556 AGATTTTATT
*
95360566 ATTATTAATTATTAGTATGGTTTTATATTAA
1 ATTATT-ATTATTAGTATGGTTTCATATTAA
*
95360597 ATTATTATTATTATTATGGTTTCATATTAA
1 ATTATTATTATTAGTATGGTTTCATATTAA
* *
95360627 GTTATAATTATT
1 ATTATTATTATT
95360639 TAATTGGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
30 32 0.84
31 6 0.16
ACGTcount: A:0.34, C:0.01, G:0.08, T:0.56
Consensus pattern (30 bp):
ATTATTATTATTAGTATGGTTTCATATTAA
Found at i:95360860 original size:23 final size:22
Alignment explanation
Indices: 95360834--95360890 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
95360824 ATAATGACAA
*
95360834 TTGTAATAAAA-ATATTGGTACAT
1 TTGTAATAAAAGATA-T-GTACAC
95360857 TTGTAATAAATAGATATGTACAC
1 TTGTAATAAA-AGATATGTACAC
95360880 TTGTAATAAAA
1 TTGTAATAAAA
95360891 TAATTAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 1 0.03
23 25 0.81
24 2 0.06
25 3 0.10
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (22 bp):
TTGTAATAAAAGATATGTACAC
Found at i:95361120 original size:22 final size:21
Alignment explanation
Indices: 95361088--95361128 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
95361078 TAAACAAAGT
95361088 AAATAAAAGAATA-AAAGAATG
1 AAATAAAAGAA-ACAAAGAATG
95361109 AAATAAAAAGAAACAAAGAA
1 AAAT-AAAAGAAACAAAGAA
95361129 AAGAAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (21 bp):
AAATAAAAGAAACAAAGAATG
Found at i:95366943 original size:46 final size:46
Alignment explanation
Indices: 95366793--95367057 Score: 227
Period size: 46 Copynumber: 5.7 Consensus size: 46
95366783 AGGGTATAAT
*
95366793 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTACATATCTG-T
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTC--ACATATC-GAG
* * * *
95366843 GCCGATGCGTGTCCCAGACATGTCTTACACTAG--CACATCTC-ACC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCACATATCGA-G
* *
95366887 GCCGATGCATGTCCTAGACATGTCTTACACTGGCTCACATTTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCACATATCGAG
* * * * ** *
95366933 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTTAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCACATATCGAG
* *
95366979 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTA-ATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTC-ACAT-ATCGAG
* * *
95367027 GCCGATGCATGTCCTAAAAATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
95367058 AGTACACACA
Statistics
Matches: 179, Mismatches: 27, Indels: 22
0.79 0.12 0.10
Matches are distributed among these distances:
44 36 0.20
46 63 0.35
47 26 0.15
48 33 0.18
49 14 0.08
50 7 0.04
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCACATATCGAG
Found at i:95367035 original size:94 final size:93
Alignment explanation
Indices: 95366789--95367059 Score: 347
Period size: 94 Copynumber: 2.9 Consensus size: 93
95366779 ACATAGGGTA
* * *
95366789 TAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTACATATCTGTGCCGATGCGTG
1 TAATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTC-TACATATGTG-GCCGATGCATG
95366854 TCCCAGACATGTCTTACACTAGCACATCTC
64 TCCCAGACATGTCTTACACTAGCACATCTC
** * *
95366884 -ACCGCCGATG-CATGTCCTAGACAT-GTCTTACACTGGCTC-ACATTTCGAGGCCGATGCATGT
1 TAATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTACATAT-GTGGCCGATGCATGT
*
95366945 CCCAGACATGTCTTACACTAGCTC-TCGTC
65 CCCAGACATGTCTTACACTAGCACATC-TC
95366974 TTAATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTA-ATAATGTGGCCGATGCATG
1 -TAATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTACAT-ATGTGGCCGATGCATG
* * *
95367038 TCCTAAAAATGTCTTACACTAG
64 TCCCAGACATGTCTTACACTAG
95367060 TACACACACA
Statistics
Matches: 153, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
89 2 0.01
90 41 0.27
91 1 0.01
92 23 0.15
93 27 0.18
94 57 0.37
95 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (93 bp):
TAATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTACATATGTGGCCGATGCATGTC
CCAGACATGTCTTACACTAGCACATCTC
Found at i:95369777 original size:24 final size:24
Alignment explanation
Indices: 95369744--95369801 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
95369734 CTATTATAAC
* *
95369744 ATTTATGACATCTTTAATTCAGAT
1 ATTTAAGACATCTTTAATTCAGAG
95369768 ATTTAAGACATCTTTAATTCAGAG
1 ATTTAAGACATCTTTAATTCAGAG
95369792 ATTTAA-ACAT
1 ATTTAAGACAT
95369802 AAATATCAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 4 0.12
24 28 0.88
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (24 bp):
ATTTAAGACATCTTTAATTCAGAG
Found at i:95379261 original size:32 final size:30
Alignment explanation
Indices: 95379187--95379268 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 30
95379177 GTATACAATT
* *
95379187 GTAACATAAATATTTAATTACTTTTTATTTAA
1 GTAA-ATAGATATTT-ATTACTTATTATTTAA
95379219 GTAAATAGATATTTATTACTTATTATTATTAA
1 GTAAATAGATATTTATTACTTATTA-T-TTAA
95379251 GTTAAA-AGATATTTATTA
1 G-TAAATAGATATTTATTA
95379269 ATTAAATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
30 10 0.22
31 10 0.22
32 21 0.47
33 4 0.09
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (30 bp):
GTAAATAGATATTTATTACTTATTATTTAA
Found at i:95383602 original size:15 final size:15
Alignment explanation
Indices: 95383582--95383613 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
95383572 CCGACCTATA
95383582 ATCAAATATAATTCT
1 ATCAAATATAATTCT
95383597 ATCAAATATAATTCT
1 ATCAAATATAATTCT
95383612 AT
1 AT
95383614 GGATCTAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (15 bp):
ATCAAATATAATTCT
Found at i:95393089 original size:14 final size:14
Alignment explanation
Indices: 95393070--95393097 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
95393060 ATCTAAATAA
95393070 TTTAATTTATGAAT
1 TTTAATTTATGAAT
95393084 TTTAATTTATGAAT
1 TTTAATTTATGAAT
95393098 AATAGTTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (14 bp):
TTTAATTTATGAAT
Found at i:95402271 original size:63 final size:63
Alignment explanation
Indices: 95402172--95402292 Score: 206
Period size: 63 Copynumber: 1.9 Consensus size: 63
95402162 GAAATGATGG
* * *
95402172 ATTGGATATACCTTTGGTACAGTAAAGCCTCCGGTTCCTACCTAGACATGTATCGCCATTCCA
1 ATTGGATATACCTTTGGTACAGTAAAACCTCCGGTTCCTACCTAGACAGGTACCGCCATTCCA
*
95402235 ATTGGATATATCTTTGGTACAGTAAAACCTCCGGTTCCTACCTAGACAGGTACCGCCA
1 ATTGGATATACCTTTGGTACAGTAAAACCTCCGGTTCCTACCTAGACAGGTACCGCCA
95402293 CCCCAATGAC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (63 bp):
ATTGGATATACCTTTGGTACAGTAAAACCTCCGGTTCCTACCTAGACAGGTACCGCCATTCCA
Found at i:95403832 original size:19 final size:19
Alignment explanation
Indices: 95403808--95403847 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
95403798 AAATTTATGA
* *
95403808 AAGTTTGAGTAAAAATATT
1 AAGTTTAAGTAAAAAAATT
95403827 AAGTTTAAGTAAAAAAATT
1 AAGTTTAAGTAAAAAAATT
95403846 AA
1 AA
95403848 ATCTATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (19 bp):
AAGTTTAAGTAAAAAAATT
Done.