Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 23 of 190
Found at i:3682574 original size:21 final size:20
Alignment explanation
Indices: 3682545--3682592 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
3682535 TTTATATAGG
*
3682545 TTTGATTTAATTTTATATTAAA
1 TTTG-TTTAATTATATATT-AA
*
3682567 TTTGTTTACTTATATATTAA
1 TTTGTTTAATTATATATTAA
3682587 TTTGTT
1 TTTGTT
3682593 AGTTTATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.33
21 12 0.50
22 4 0.17
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.62
Consensus pattern (20 bp):
TTTGTTTAATTATATATTAA
Found at i:3687848 original size:19 final size:18
Alignment explanation
Indices: 3687790--3687856 Score: 59
Period size: 19 Copynumber: 3.8 Consensus size: 18
3687780 GTATTTAATA
3687790 TTAAAAT-TAAAAAAATT
1 TTAAAATATAAAAAAATT
*
3687807 TTATAAA-AT-TAAAAATT
1 TTA-AAATATAAAAAAATT
**
3687824 AGAAAATATAAAAATAATT
1 TTAAAATATAAAAA-AATT
*
3687843 TTAAAAGATAAAAA
1 TTAAAATATAAAAA
3687857 GATAAGAGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
16 3 0.08
17 13 0.34
18 7 0.18
19 15 0.39
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
TTAAAATATAAAAAAATT
Found at i:3687958 original size:15 final size:14
Alignment explanation
Indices: 3687931--3687960 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
3687921 AAGTATTACT
3687931 TATAATTATTATAA
1 TATAATTATTATAA
3687945 TATAATTAATTATAA
1 TATAATT-ATTATAA
3687960 T
1 T
3687961 TTAAAGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TATAATTATTATAA
Found at i:3688168 original size:16 final size:18
Alignment explanation
Indices: 3688147--3688187 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
3688137 ATTTAAAAAG
3688147 AAAAAAGATT-TC-ATTT-
1 AAAAAA-ATTATCAATTTC
3688163 AAAAAAATTATCAATTTC
1 AAAAAAATTATCAATTTC
3688181 AAAAAAA
1 AAAAAAA
3688188 AAAAATTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 3 0.14
16 8 0.36
17 4 0.18
18 7 0.32
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAAAAATTATCAATTTC
Found at i:3691087 original size:36 final size:36
Alignment explanation
Indices: 3691018--3691108 Score: 96
Period size: 36 Copynumber: 2.5 Consensus size: 36
3691008 TATCATTAAA
* * *
3691018 ATATTAT-ATTTGTATTATATTTTATATAAAAATTAT
1 ATATTATAATTTGTATTA-ATATAAAATAAAAATTAT
* *
3691054 GTATTATAATTTGTATTAATATAAAATATAAATTAT
1 ATATTATAATTTGTATTAATATAAAATAAAAATTAT
*
3691090 ATATTTTTAATTT-TATTAA
1 ATA-TTATAATTTGTATTAA
3691109 ATTTATTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
36 28 0.61
37 18 0.39
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (36 bp):
ATATTATAATTTGTATTAATATAAAATAAAAATTAT
Found at i:3691160 original size:13 final size:13
Alignment explanation
Indices: 3691144--3691187 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
3691134 TTTAAATTAT
3691144 ATTTTTTTATATC
1 ATTTTTTTATATC
* *
3691157 ATTTATTTATATT
1 ATTTTTTTATATC
3691170 ATTTTTTATCATATC
1 ATTTTTT-T-ATATC
3691185 ATT
1 ATT
3691188 ATATTATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 17 0.68
14 1 0.04
15 7 0.28
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTTTTTTATATC
Found at i:3691171 original size:28 final size:27
Alignment explanation
Indices: 3691143--3691197 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 27
3691133 TTTTAAATTA
3691143 TATTTTTT-T-ATATCATTTATTTATAT
1 TATTTTTTATCATATCA-TTATTTATAT
3691169 TATTTTTTATCATATCATTATATTATAT
1 TATTTTTTATCATATCATTAT-TTATAT
3691197 T
1 T
3691198 TTAAATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 8 0.31
27 5 0.19
28 13 0.50
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.65
Consensus pattern (27 bp):
TATTTTTTATCATATCATTATTTATAT
Found at i:3691189 original size:23 final size:22
Alignment explanation
Indices: 3691139--3691200 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
3691129 AAAATTTTAA
*
3691139 ATTATATT-TTTTTATATCATTT
1 ATTATATTATTTTT-TATCATTC
3691161 ATTTATATTATTTTTTATCATATC
1 A-TTATATTATTTTTTATCAT-TC
*
3691185 ATTATATTATATTTTA
1 ATTATATTATTTTTTA
3691201 AATTATTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 1 0.03
23 27 0.77
24 7 0.20
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.65
Consensus pattern (22 bp):
ATTATATTATTTTTTATCATTC
Found at i:3693337 original size:73 final size:73
Alignment explanation
Indices: 3693197--3693342 Score: 170
Period size: 73 Copynumber: 2.0 Consensus size: 73
3693187 TGAATATAAG
* * * *
3693197 ATTATAAGAAATTGGATATAAGATAATTCACTTTAACAGACTCCATCACGTGTAAACAAAAATTA
1 ATTATAAAAAATTAGATATAAAATAATTCACTTTAACAGACTCCATAACGTGTAAACAAAAATTA
3693262 AAAAAAAT
66 AAAAAAAT
* * * * * *
3693270 ATTATAAAAAATTAGATATAAAATAACTT-ATTTTAATAGATCTCTATAATGTGTAGACGAAAA-
1 ATTATAAAAAATTAGATATAAAATAA-TTCACTTTAACAGA-CTCCATAACGTGTAAACAAAAAT
3693333 TAAAAAAAAT
64 TAAAAAAAAT
3693343 TCATTACGTG
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
73 42 0.69
74 19 0.31
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (73 bp):
ATTATAAAAAATTAGATATAAAATAATTCACTTTAACAGACTCCATAACGTGTAAACAAAAATTA
AAAAAAAT
Found at i:3693481 original size:35 final size:35
Alignment explanation
Indices: 3693403--3693494 Score: 104
Period size: 33 Copynumber: 2.7 Consensus size: 35
3693393 TATTATATTA
* *
3693403 AAATATTTAATTTAAA-AT-TAATTGATAATAAAT
1 AAATATTTAATTTAAATATAAAATTGATAAAAAAT
3693436 AAATAAATTTAATTTAAATATAAAATT-ATAAAAAATT
1 AAAT--ATTTAATTTAAATATAAAATTGATAAAAAA-T
3693473 AAATATTT-A-TTAAATATAAAAT
1 AAATATTTAATTTAAATATAAAAT
3693495 AATCTATTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
33 17 0.33
34 1 0.02
35 16 0.31
36 9 0.17
37 9 0.17
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (35 bp):
AAATATTTAATTTAAATATAAAATTGATAAAAAAT
Found at i:3694813 original size:11 final size:12
Alignment explanation
Indices: 3694789--3694817 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
3694779 TTTGTTTGGT
3694789 AAAATAAAGAAA
1 AAAATAAAGAAA
3694801 AAAATAAAGAAA
1 AAAATAAAGAAA
3694813 AAAAT
1 AAAAT
3694818 TTTATTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (12 bp):
AAAATAAAGAAA
Found at i:3695321 original size:13 final size:13
Alignment explanation
Indices: 3695285--3695335 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
3695275 AATCTATTTA
3695285 AATATATTAAAAAT
1 AATATA-TAAAAAT
*
3695299 --TATATTAAAAT
1 AATATATAAAAAT
3695310 AATATATAAAAAT
1 AATATATAAAAAT
* *
3695323 AAAATTTAAAAAT
1 AATATATAAAAAT
3695336 TGATGAACTG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
11 6 0.19
12 4 0.13
13 21 0.68
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AATATATAAAAAT
Found at i:3695331 original size:25 final size:25
Alignment explanation
Indices: 3695285--3695333 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
3695275 AATCTATTTA
* *
3695285 AATATATTAAAAATTATATTAAAAT
1 AATATATTAAAAATAAAATTAAAAT
3695310 AATATA-TAAAAATAAAATTTAAAA
1 AATATATTAAAAATAAAA-TTAAAA
3695334 ATTGATGAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
AATATATTAAAAATAAAATTAAAAT
Found at i:3698143 original size:22 final size:22
Alignment explanation
Indices: 3698101--3698143 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
3698091 TTTTTAGCCC
* *
3698101 TTTTTTAAAAAATATATATTTA
1 TTTTTAAAAAAATATAGATTTA
3698123 TTTTTAAAAAAATCA-AGATTT
1 TTTTTAAAAAAAT-ATAGATTT
3698144 GAATGTGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTTTAAAAAAATATAGATTTA
Found at i:3698215 original size:12 final size:11
Alignment explanation
Indices: 3698177--3698213 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
3698167 AACTTAGCAA
*
3698177 AAATATATAAT
1 AAATAAATAAT
3698188 AAATAAATAACT
1 AAATAAATAA-T
3698200 AAATAAATAAT
1 AAATAAATAAT
3698211 AAA
1 AAA
3698214 ATTACCCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 13 0.54
12 11 0.46
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (11 bp):
AAATAAATAAT
Found at i:3698636 original size:24 final size:24
Alignment explanation
Indices: 3698609--3698673 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
3698599 ACCTGAACTT
3698609 TTTTTTCTTTTATCTTTTTTTTTC
1 TTTTTTCTTTTATCTTTTTTTTTC
*
3698633 TTTTATCTTTT-T-TTTTTTTTTC
1 TTTTTTCTTTTATCTTTTTTTTTC
* *
3698655 -CTTTTCTCCTTATCTTTTT
1 TTTTTTCT-TTTATCTTTTT
3698674 CCTTGCTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 5 0.15
22 12 0.35
23 2 0.06
24 15 0.44
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTTTTCTTTTATCTTTTTTTTTC
Found at i:3698653 original size:17 final size:17
Alignment explanation
Indices: 3698607--3698652 Score: 85
Period size: 17 Copynumber: 2.8 Consensus size: 17
3698597 CCACCTGAAC
3698607 TTTTTTTTCTTTTATCT
1 TTTTTTTTCTTTTATCT
3698624 TTTTTTTTCTTTTATCT
1 TTTTTTTTCTTTTATCT
3698641 TTTTTTTT-TTTT
1 TTTTTTTTCTTTT
3698653 TCCTTTTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 4 0.14
17 25 0.86
ACGTcount: A:0.04, C:0.09, G:0.00, T:0.87
Consensus pattern (17 bp):
TTTTTTTTCTTTTATCT
Found at i:3698658 original size:16 final size:15
Alignment explanation
Indices: 3698606--3698659 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 15
3698596 ACCACCTGAA
*
3698606 CTTTTTTTTCTTTTAT
1 CTTTTTTTT-TTTTTT
3698622 CTTTTTTTTTCTTTTAT
1 CTTTTTTTTT-TTTT-T
3698639 CTTTTTTTTTTTTTT
1 CTTTTTTTTTTTTTT
3698654 CCTTTT
1 -CTTTT
3698660 CTCCTTATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
15 2 0.06
16 21 0.62
17 11 0.32
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (15 bp):
CTTTTTTTTTTTTTT
Found at i:3698672 original size:23 final size:23
Alignment explanation
Indices: 3698618--3698673 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
3698608 TTTTTTTCTT
* *
3698618 TTATCTTTTTTTTTCTTTTATCT
1 TTATCTTTTTTTTCCTTTTATCC
* * *
3698641 TTTTTTTTTTTTTCCTTTTCTCC
1 TTATCTTTTTTTTCCTTTTATCC
3698664 TTATCTTTTT
1 TTATCTTTTT
3698674 CCTTGCTATT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (23 bp):
TTATCTTTTTTTTCCTTTTATCC
Found at i:3701187 original size:114 final size:114
Alignment explanation
Indices: 3700987--3701215 Score: 458
Period size: 114 Copynumber: 2.0 Consensus size: 114
3700977 AAAATATACC
3700987 TCTTAAATCCATATTAAAGATATGACGTAATCGCCGGATCATGTCTCTCCCTTGCTTTTTCTTTC
1 TCTTAAATCCATATTAAAGATATGACGTAATCGCCGGATCATGTCTCTCCCTTGCTTTTTCTTTC
3701052 TTTTTTTTTTTTCTCCATTTCTCTTTCTCCATTTTCCCTTCATCTATTG
66 TTTTTTTTTTTTCTCCATTTCTCTTTCTCCATTTTCCCTTCATCTATTG
3701101 TCTTAAATCCATATTAAAGATATGACGTAATCGCCGGATCATGTCTCTCCCTTGCTTTTTCTTTC
1 TCTTAAATCCATATTAAAGATATGACGTAATCGCCGGATCATGTCTCTCCCTTGCTTTTTCTTTC
3701166 TTTTTTTTTTTTCTCCATTTCTCTTTCTCCATTTTCCCTTCATCTATTG
66 TTTTTTTTTTTTCTCCATTTCTCTTTCTCCATTTTCCCTTCATCTATTG
3701215 T
1 T
3701216 TTCAATTCTA
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 115 1.00
ACGTcount: A:0.17, C:0.25, G:0.08, T:0.50
Consensus pattern (114 bp):
TCTTAAATCCATATTAAAGATATGACGTAATCGCCGGATCATGTCTCTCCCTTGCTTTTTCTTTC
TTTTTTTTTTTTCTCCATTTCTCTTTCTCCATTTTCCCTTCATCTATTG
Found at i:3702922 original size:16 final size:17
Alignment explanation
Indices: 3702901--3702934 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3702891 TTGATAAAAT
*
3702901 TTTAAA-TTATTATTTA
1 TTTAAATTTATTAATTA
3702917 TTTAAATTTATTAATTA
1 TTTAAATTTATTAATTA
3702934 T
1 T
3702935 AATTTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTAAATTTATTAATTA
Found at i:3702932 original size:24 final size:24
Alignment explanation
Indices: 3702883--3702944 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
3702873 GATGTCAAAT
* *
3702883 ATTATAATTTGA-TAAAATTTTAA
1 ATTATAATTTTATTTAAATTTTAA
* *
3702906 ATTATTA-TTTATTTAAATTTATTA
1 ATTATAATTTTATTTAAATTT-TAA
3702930 ATTATAATTTTATTT
1 ATTATAATTTTATTT
3702945 CATAAAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
22 3 0.10
23 13 0.42
24 8 0.26
25 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
ATTATAATTTTATTTAAATTTTAA
Found at i:3709078 original size:11 final size:11
Alignment explanation
Indices: 3709062--3709094 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
3709052 GTCACTCCAG
3709062 TGTATGATATA
1 TGTATGATATA
3709073 TGTATGATATA
1 TGTATGATATA
3709084 TGTATGATATA
1 TGTATGATATA
3709095 AGATGCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (11 bp):
TGTATGATATA
Found at i:3712074 original size:27 final size:27
Alignment explanation
Indices: 3712030--3712098 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
3712020 AATAAAATTA
* *
3712030 ATTAATAAATTTATAATTCAAATATAAC
1 ATTAA-AATTTTAAAATTCAAATATAAC
* *
3712058 ATTAAAATTTTAAAATTTAAATATAAT
1 ATTAAAATTTTAAAATTCAAATATAAC
3712085 ATTAAACATTTTAA
1 ATTAAA-ATTTTAA
3712099 TATACTTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 24 0.67
28 12 0.33
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (27 bp):
ATTAAAATTTTAAAATTCAAATATAAC
Found at i:3712108 original size:19 final size:18
Alignment explanation
Indices: 3712066--3712110 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
3712056 ACATTAAAAT
3712066 TTTAAAATTTAAATATAA
1 TTTAAAATTTAAATATAA
* *
3712084 TATTAAACATTTTAATATAC
1 T-TTAAA-ATTTAAATATAA
3712104 TTTAAAA
1 TTTAAAA
3712111 GTAATTAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 2 0.09
19 10 0.43
20 11 0.48
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTAAAATTTAAATATAA
Found at i:3713569 original size:26 final size:27
Alignment explanation
Indices: 3713540--3713600 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
3713530 TCCTACATTT
3713540 TTTATTATTT-TAGTATTATTATTAAA-
1 TTTATT-TTTATAGTATTATTATTAAAG
* * *
3713566 TTTATTTTTATATTATTGTTTTTAAAG
1 TTTATTTTTATAGTATTATTATTAAAG
3713593 TTTATTTT
1 TTTATTTT
3713601 AAAAATTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 3 0.10
26 19 0.63
27 8 0.27
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (27 bp):
TTTATTTTTATAGTATTATTATTAAAG
Found at i:3714650 original size:24 final size:24
Alignment explanation
Indices: 3714618--3714674 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
3714608 TTGAGAAAAG
3714618 AAAAAAAAAATTTTTTTTGTTCGA
1 AAAAAAAAAATTTTTTTTGTTCGA
3714642 AAAAAAAAAATTTTTTTTGTTCGA
1 AAAAAAAAAATTTTTTTTGTTCGA
*
3714666 CAAAAAAAA
1 AAAAAAAAA
3714675 TGGCTTCTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (24 bp):
AAAAAAAAAATTTTTTTTGTTCGA
Found at i:3714768 original size:10 final size:9
Alignment explanation
Indices: 3714749--3714777 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
3714739 ACTCAACAAC
3714749 TTTA-TTTT
1 TTTATTTTT
3714757 TTTATTTTT
1 TTTATTTTT
3714766 TTTATTTTT
1 TTTATTTTT
3714775 TTT
1 TTT
3714778 GAAAAAGCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.20
9 16 0.80
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTATTTTT
Found at i:3715041 original size:46 final size:46
Alignment explanation
Indices: 3714776--3715438 Score: 525
Period size: 49 Copynumber: 13.9 Consensus size: 46
3714766 TTTATTTTTT
* *
3714776 TTGAAAAAGCTCTTCTCAGCAGAGGCTCAACAACTTT-TAAATCTC
1 TTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTC
* * * * *
3714821 ATATCATGAAAATGGCTCATCTCAGTAGAGGCTTAACAACTTTAAAATTCTCTTC
1 ---T--TGAAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA--ATC-TC
* * *
3714876 TTGGAAAAA-CTCTTCTCAGCAGAGGCTCAACAACTTTAGAATTCTTATC
1 TT-GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATC---TC
* * * *
3714925 TTGGAAAAGCTCTTCTCAGCAGAGGCTCAACAACTTTAGAATTCTTATC
1 TTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATC---TC
* *
3714974 TTGGAAAAGCTCTTCTCAGCAGAGGCTCAACAACTTTAAAAATCTC
1 TTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTC
* *
3715020 TTGAAAAAGCTCCTCTTAGCAGAAGCTCAACAACTTTAAAAATCTC
1 TTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTC
* * * *
3715066 ATCT-AGAAAAGCTCCTCTCAGCAGAGGTTTAACAACTTTAAAATTTTTATC
1 -T-TGA-AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA---ATCTC
* * * *
3715117 TTGGAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAATTCTC
1 TTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTC
* * * * * ** *
3715163 TTGAAAAAGCTCATCTCAACAGAGGCTTAATTGATATTTTTGAAA-GT-
1 TTGAAAAAGCTCCTCTCAGCAGAGGCTCAA--CA-ACTTTAAAAATCTC
*
3715210 TT--AAAAGACTCCTCTCAACAGAGGCT-AACAACTTTAAAAATTCCATC
1 TTGAAAAAG-CTCCTCTCAGCAGAGGCTCAACAACTTTAAAAA-T-C-TC
* *
3715257 TTGAAAAAGCTCCCCTCAGCAGAGGTTCAACAACTTTAAAAATCTC
1 TTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTC
* * *
3715303 TTGAAAAAGCTTCTCTCAGTAGAGGCTCAAAAACTTTAAAAATTTCATC
1 TTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAA--TC-TC
* *
3715352 TTGGAAAAA-CTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATCTT
1 TT-GAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTC
* * * ** * *
3715398 TTAAAAAAACTCCTTTCAATAGATGCTCAAGAACTTTAAAA
1 TTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA
3715439 TTTTCATCTG
Statistics
Matches: 516, Mismatches: 64, Indels: 72
0.79 0.10 0.11
Matches are distributed among these distances:
42 7 0.01
43 1 0.00
45 12 0.02
46 162 0.31
47 11 0.02
48 60 0.12
49 208 0.40
50 14 0.03
51 34 0.07
52 3 0.01
54 2 0.00
55 2 0.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.29
Consensus pattern (46 bp):
TTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTC
Found at i:3715116 original size:143 final size:144
Alignment explanation
Indices: 3714780--3715397 Score: 657
Period size: 143 Copynumber: 4.3 Consensus size: 144
3714770 TTTTTTTTGA
* * * *
3714780 AAAAGCTCTTCTCAGCAGAGGCTCAACAACTTTTAAATCTCATATCAT-GAAAATGGCTCATCTC
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAT-TCTTATCTTGGAAAA--GCTCATCTC
* * * *
3714844 AGTAGAGGCTTAACAACTTTAAAATTCTCTTCTTGGAAAAA-CTCTTCTCAGCAGAGGCTCAACA
63 AGCAGAGGCTCAACAACTTTAAAA--ATC-TCTT-GAAAAAGCTCCTCTCAGCAGAGGCTCAACA
* * *
3714908 ACTTTAGAATTCTTATCTTGG
124 ACTTTAAAAATCTCATCTTGG
* * *
3714929 AAAAGCTCTTCTCAGCAGAGGCTCAACAACTTTAGAATTCTTATCTTGGAAAAGCTCTTCTCAGC
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTTATCTTGGAAAAGCTCATCTCAGC
* *
3714994 AGAGGCTCAACAACTTTAAAAATCTCTTGAAAAAGCTCCTCTTAGCAGAAGCTCAACAACTTTAA
66 AGAGGCTCAACAACTTTAAAAATCTCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAA
*
3715059 AAATCTCATC-TAG
131 AAATCTCATCTTGG
* * * *
3715072 AAAAGCTCCTCTCAGCAGAGGTTTAACAACTTTAAAATTTTTATCTTGGAAAAGCTCATCTCAGT
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTTATCTTGGAAAAGCTCATCTCAGC
* * * * * *
3715137 AGAGGCTCAACAACTTTAAAATTCTCTTGAAAAAGCTCATCTCAACAGAGGCTTAATTGATATTT
66 AGAGGCTCAACAACTTTAAAAATCTCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAA--CA-ACTT
** *
3715202 TTGAAA----GT-TT--
128 TAAAAATCTCATCTTGG
* * * **
3715212 AAAAGACTCCTCTCAACAGAGGCT-AACAACTTTAAAAATTC-CATCTTGAAAAAGCTCCCCTCA
1 AAAAG-CTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATTCTTATCTTGGAAAAGCTCATCTCA
* * * *
3715275 GCAGAGGTTCAACAACTTTAAAAATCTCTTGAAAAAGCTTCTCTCAGTAGAGGCTCAAAAACTTT
64 GCAGAGGCTCAACAACTTTAAAAATCTCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT
*
3715340 AAAAATTTCATCTTGG
129 AAAAATCTCATCTTGG
* * *
3715356 AAAAACTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATCTT
1 AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTT
3715398 TTAAAAAAAC
Statistics
Matches: 394, Mismatches: 58, Indels: 39
0.80 0.12 0.08
Matches are distributed among these distances:
137 7 0.02
138 1 0.00
140 82 0.21
141 23 0.06
142 4 0.01
143 138 0.35
144 51 0.13
145 3 0.01
146 7 0.02
147 30 0.08
148 7 0.02
149 41 0.10
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (144 bp):
AAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTTATCTTGGAAAAGCTCATCTCAGC
AGAGGCTCAACAACTTTAAAAATCTCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAA
AAATCTCATCTTGG
Found at i:3715370 original size:95 final size:95
Alignment explanation
Indices: 3714778--3715447 Score: 546
Period size: 95 Copynumber: 7.0 Consensus size: 95
3714768 TATTTTTTTT
* * *
3714778 GAAAAAGCTCTTCTCAGCAGAGGCTCAACAACTTT-TAAATCTCATATCATGAAAATGGC-TCAT
1 GAAAAA-CTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTC---T--TGAAAA-AGCTTC-T
* *
3714841 CTCAGTAGAGGCTTAACAACTTT-AAAATTCTCTTCTTG
58 CTCAGTAGAGGCTCAACAACTTTAAAAATT-TCATCTTG
* * * *
3714879 GAAAAACTCTTCTCAGCAGAGGCTCAACAACTTTAGAATTCTTATCTTGGAAAAGC-TCTTCTCA
1 GAAAAACTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATC---TCTTGAAAAAGCTTC-TCTCA
* * *
3714943 GCAGAGGCTCAACAACTTT-AGAATTCTTATCTTG
62 GTAGAGGCTCAACAACTTTAAAAATT-TCATCTTG
* * * * *
3714977 GAAAAGCTCTTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCTTGAAAAAGCTCCTCTTAGCAG
1 GAAAAACTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCTTGAAAAAGCTTCTCTCAGTAG
* * *
3715042 AAGCTCAACAACTTTAAAAATCTCATC-TA
66 AGGCTCAACAACTTTAAAAATTTCATCTTG
* * * * * *
3715071 GAAAAGCTCCTCTCAGCAGAGGTTTAACAACTTTAAAATTTTTATCTTGGAAAAGC-TCATCTCA
1 GAAAAACTCCTCTCAGCAGAGGCTCAACAACTTTAAAA---ATCTCTTGAAAAAGCTTC-TCTCA
3715135 GTAGAGGCTCAACAACTTT-AAAA-TTC-TCTT-
62 GTAGAGGCTCAACAACTTTAAAAATTTCATCTTG
* * * * * ** * *
3715165 GAAAAAGCTCATCTCAACAGAGGCTTAATTGATATTTTTGAAA-GT-TT--AAAAGACTCCTCTC
1 GAAAAA-CTCCTCTCAGCAGAGGCTCAA--CA-ACTTTAAAAATCTCTTGAAAAAG-CTTCTCTC
** *
3715226 AACAGAGGCT-AACAACTTTAAAAATTCCATCTT-
61 AGTAGAGGCTCAACAACTTTAAAAATTTCATCTTG
* *
3715259 GAAAAAGCTCCCCTCAGCAGAGGTTCAACAACTTTAAAAATCTCTTGAAAAAGCTTCTCTCAGTA
1 GAAAAA-CTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCTTGAAAAAGCTTCTCTCAGTA
*
3715324 GAGGCTCAAAAACTTTAAAAATTTCATCTTG
65 GAGGCTCAACAACTTTAAAAATTTCATCTTG
* * * * * * *
3715355 GAAAAACTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATCTTTTAAAAAAACTCCTTTCAATAG
1 GAAAAACTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCTTGAAAAAGCTTCTCTCAGTAG
* * *
3715420 ATGCTCAAGAACTTTAAAATTTTCATCT
66 AGGCTCAACAACTTTAAAAATTTCATCT
3715448 GTTTTCAAAT
Statistics
Matches: 470, Mismatches: 73, Indels: 58
0.78 0.12 0.10
Matches are distributed among these distances:
91 21 0.04
92 19 0.04
93 7 0.01
94 86 0.18
95 159 0.34
96 16 0.03
97 34 0.07
98 82 0.17
99 5 0.01
100 28 0.06
101 11 0.02
104 2 0.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (95 bp):
GAAAAACTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCTTGAAAAAGCTTCTCTCAGTAG
AGGCTCAACAACTTTAAAAATTTCATCTTG
Found at i:3719747 original size:16 final size:15
Alignment explanation
Indices: 3719700--3719748 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
3719690 TTGGCACAAA
*
3719700 AAAATGGAATGACAAG
1 AAAAT-GAATGAAAAG
3719716 AAAATG-ATG-AAA-
1 AAAATGAATGAAAAG
3719728 AAAATGAATGAAAAG
1 AAAATGAATGAAAAG
3719743 TAAAAT
1 -AAAAT
3719749 AAAGATGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
12 6 0.21
13 5 0.18
14 6 0.21
15 1 0.04
16 10 0.36
ACGTcount: A:0.63, C:0.02, G:0.18, T:0.16
Consensus pattern (15 bp):
AAAATGAATGAAAAG
Found at i:3726492 original size:16 final size:15
Alignment explanation
Indices: 3726471--3726514 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
3726461 ATGTGTGTGA
3726471 ATTTTTTTTGCTTTTT
1 ATTTTTTTTG-TTTTT
3726487 ATTTTTTTTG-TTTT
1 ATTTTTTTTGTTTTT
*
3726501 -GTTTTTTTGTTTTT
1 ATTTTTTTTGTTTTT
3726515 TTACTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 8 0.31
14 8 0.31
16 10 0.38
ACGTcount: A:0.05, C:0.02, G:0.09, T:0.84
Consensus pattern (15 bp):
ATTTTTTTTGTTTTT
Found at i:3726505 original size:13 final size:13
Alignment explanation
Indices: 3726489--3726513 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3726479 TGCTTTTTAT
3726489 TTTTTTTGTTTTG
1 TTTTTTTGTTTTG
3726502 TTTTTTTGTTTT
1 TTTTTTTGTTTT
3726514 TTTACTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (13 bp):
TTTTTTTGTTTTG
Found at i:3726506 original size:21 final size:20
Alignment explanation
Indices: 3726472--3726516 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
3726462 TGTGTGTGAA
3726472 TTTTTTTTGCTTTTTAT-TTT
1 TTTTTTTTGCTTTTT-TGTTT
*
3726492 TTTTGTTTTGTTTTTTTGTTT
1 TTTT-TTTTGCTTTTTTGTTT
3726513 TTTT
1 TTTT
3726517 ACTAAAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.87
Consensus pattern (20 bp):
TTTTTTTTGCTTTTTTGTTT
Found at i:3728370 original size:9 final size:9
Alignment explanation
Indices: 3728356--3728402 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
3728346 CAGCCAAAAA
*
3728356 TTTTTTTTC
1 TTTTTTTTG
3728365 TTTTTTTTG
1 TTTTTTTTG
*
3728374 TGTTTTTTGG
1 T-TTTTTTTG
3728384 TTTGTTTTT-
1 TTT-TTTTTG
3728393 TTTTTTTTG
1 TTTTTTTTG
3728402 T
1 T
3728403 GTCTTTGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
8 5 0.16
9 15 0.47
10 12 0.38
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:3728823 original size:3 final size:3
Alignment explanation
Indices: 3728817--3728860 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
3728807 GAAAAAATTA
*
3728817 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3728861 AAAAATGGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:3729077 original size:11 final size:11
Alignment explanation
Indices: 3729061--3729089 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
3729051 ATTTCTCTTG
3729061 ATATTTTTAAA
1 ATATTTTTAAA
3729072 ATA-TTTTAAA
1 ATATTTTTAAA
3729082 ATATTTTT
1 ATATTTTT
3729090 TATATTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATATTTTTAAA
Found at i:3732189 original size:29 final size:30
Alignment explanation
Indices: 3732156--3732226 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
3732146 TTTAATTTTT
*
3732156 AAAAATTTAAT-CATTTTAATATTA-TTTAA
1 AAAAATTTAATAC-TTATAATATTAGTTTAA
* *
3732185 AAAAATTTAGTACTTATAATATTAGTTTTTA
1 AAAAATTTAATACTTATAATATTAG-TTTAA
3732216 AAAAATTTAAT
1 AAAAATTTAAT
3732227 TCAATCATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 20 0.57
30 1 0.03
31 14 0.40
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (30 bp):
AAAAATTTAATACTTATAATATTAGTTTAA
Found at i:3732312 original size:28 final size:27
Alignment explanation
Indices: 3732252--3732320 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 27
3732242 AAATAAAGAT
3732252 TAAATTTTTAAAAATAATATTATAAAAAC
1 TAAATTTTT--AAATAATATTATAAAAAC
**
3732281 TAAAATTTTTAAATAATATTATAAAATT
1 T-AAATTTTTAAATAATATTATAAAAAC
*
3732309 TAAATTTCTAAA
1 TAAATTTTTAAA
3732321 AAAAAGAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 10 0.28
28 17 0.47
29 1 0.03
30 8 0.22
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (27 bp):
TAAATTTTTAAATAATATTATAAAAAC
Found at i:3734945 original size:5 final size:5
Alignment explanation
Indices: 3734937--3734968 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
3734927 GAAAAGAAAG
3734937 AAATA AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AAATA AA
3734969 GGAATAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:3735173 original size:16 final size:17
Alignment explanation
Indices: 3735133--3735174 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
3735123 TAAAAATATC
3735133 TTTTAA-AAATTTTTAT
1 TTTTAAGAAATTTTTAT
*
3735149 TTTTTAGAAA-TTTTAT
1 TTTTAAGAAATTTTTAT
3735165 TTTTAAGAAA
1 TTTTAAGAAA
3735175 AATTGATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (17 bp):
TTTTAAGAAATTTTTAT
Found at i:3735217 original size:74 final size:74
Alignment explanation
Indices: 3735085--3735351 Score: 439
Period size: 74 Copynumber: 3.6 Consensus size: 74
3735075 ATTTGGAGAT
* *
3735085 TTTTA-TTTTAAGGAAAATTGATACTTTCAACTTTTTCTTAAAAATATCTTTTAAAAATTTTTAT
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATAT-TTTTAAAAATTTTTAT
3735149 TTTTTAGAAA
65 TTTTTAGAAA
* * *
3735159 TTTTATTTTTAAGAAAAATTGATATTTTCAACTTTTCCTCAAAAATATTTTTAGAAATTTTTATT
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTAAAAATTTTTATT
*
3735224 TTTTAAAAA
66 TTTTAGAAA
3735233 TTTTATTTTTAAGAAAAATTGATACTTTCAAC-TTTTCTCAAAAATATTTTTTAAAAATTTTTAT
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATA-TTTTTAAAAATTTTTAT
3735297 TTTTTAGAAA
65 TTTTTAGAAA
*
3735307 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTAAAAAA
1 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAA
3735352 AATATATTTT
Statistics
Matches: 179, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
73 13 0.07
74 117 0.65
75 49 0.27
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (74 bp):
TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTAAAAATTTTTATT
TTTTAGAAA
Found at i:3735228 original size:17 final size:17
Alignment explanation
Indices: 3735206--3735249 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
3735196 CTCAAAAATA
*
3735206 TTTTTAGAAATTTTTAT
1 TTTTTAGAAAATTTTAT
3735223 TTTTTA-AAAATTTTAT
1 TTTTTAGAAAATTTTAT
*
3735239 TTTTAAGAAAA
1 TTTTTAGAAAA
3735250 ATTGATACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (17 bp):
TTTTTAGAAAATTTTAT
Found at i:3735299 original size:17 final size:16
Alignment explanation
Indices: 3735277--3735316 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
3735267 TTCTCAAAAA
3735277 TATTTTTTAAAAATTTT
1 TATTTTTTAAAAA-TTT
*
3735294 TATTTTTTAGAAATTT
1 TATTTTTTAAAAATTT
3735310 TATTTTT
1 TATTTTT
3735317 AAGAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TATTTTTTAAAAATTT
Found at i:3735321 original size:16 final size:17
Alignment explanation
Indices: 3735280--3735322 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
3735270 TCAAAAATAT
3735280 TTTTTAA-AAATTTTTA
1 TTTTTAAGAAATTTTTA
*
3735296 TTTTTTAGAAA-TTTTA
1 TTTTTAAGAAATTTTTA
3735312 TTTTTAAGAAA
1 TTTTTAAGAAA
3735323 AATTGATACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 21 0.88
17 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (17 bp):
TTTTTAAGAAATTTTTA
Found at i:3735447 original size:59 final size:58
Alignment explanation
Indices: 3735296--3735499 Score: 202
Period size: 58 Copynumber: 3.5 Consensus size: 58
3735286 AAAATTTTTA
* * *
3735296 TTTTTTAGAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTAAAAAAAATAT
1 TTTTTTAAAAATTTTATTTTCAAG-AAAATTGATACTTTCAAC-TTTTCT-TAAAAAATAT
* * * * * *
3735357 ATTTTTT----ATTTTGTGTTCAAAGGAAATTGATACATTCAACTTTCCTTTAAAAATAT
1 -TTTTTTAAAAATTTTATTTTC-AAGAAAATTGATACTTTCAACTTTTCTTAAAAAATAT
* *
3735413 TTTGTTTAAAAATTTTATTTTCAAGAAAATTGATACTTTCAATTTTTCTTCAAAAATAT
1 TTT-TTTAAAAATTTTATTTTCAAGAAAATTGATACTTTCAACTTTTCTTAAAAAATAT
* *
3735472 TTTTTTGAAAATTTTATTTT-AGGAAAAT
1 TTTTTTAAAAATTTTATTTTCAAGAAAAT
3735500 CATTGAAAAA
Statistics
Matches: 119, Mismatches: 17, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
55 3 0.03
56 11 0.09
57 12 0.10
58 40 0.34
59 38 0.32
60 9 0.08
62 6 0.05
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (58 bp):
TTTTTTAAAAATTTTATTTTCAAGAAAATTGATACTTTCAACTTTTCTTAAAAAATAT
Found at i:3735535 original size:18 final size:18
Alignment explanation
Indices: 3735505--3735539 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3735495 AAAATCATTG
3735505 AAAAAAAAGAATAAAAAT
1 AAAAAAAAGAATAAAAAT
3735523 AAAATAAAA-AATAAAAA
1 AAAA-AAAAGAATAAAAA
3735540 AATTAAGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (18 bp):
AAAAAAAAGAATAAAAAT
Found at i:3735596 original size:13 final size:13
Alignment explanation
Indices: 3735580--3735623 Score: 61
Period size: 13 Copynumber: 3.2 Consensus size: 13
3735570 AATAATAGAT
3735580 AAATAAATAAATA
1 AAATAAATAAATA
*
3735593 AAATAAACAAATA
1 AAATAAATAAATA
3735606 AAATAAAATAAAATA
1 AAAT-AAAT-AAATA
3735621 AAA
1 AAA
3735624 ACCTTGGAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 16 0.59
14 3 0.11
15 8 0.30
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (13 bp):
AAATAAATAAATA
Found at i:3735598 original size:5 final size:5
Alignment explanation
Indices: 3735580--3735623 Score: 51
Period size: 5 Copynumber: 9.6 Consensus size: 5
3735570 AATAATAGAT
*
3735580 AAAT- AAAT- AAATA AAAT- AAA-C AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAA
3735624 ACCTTGGAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
4 14 0.39
5 22 0.61
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:3735611 original size:18 final size:18
Alignment explanation
Indices: 3735564--3735617 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
3735554 AAATAACTCT
*
3735564 AATAATAATAATAGATAAATA
1 AATAA-AATAA-A-ATAAACA
3735585 AAT-AAATAAAATAAACA
1 AATAAAATAAAATAAACA
3735602 AATAAAATAAAATAAA
1 AATAAAATAAAATAAA
3735618 ATAAAAACCT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 9 0.29
18 13 0.42
19 5 0.16
20 1 0.03
21 3 0.10
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (18 bp):
AATAAAATAAAATAAACA
Found at i:3736713 original size:44 final size:44
Alignment explanation
Indices: 3736640--3736986 Score: 196
Period size: 44 Copynumber: 8.1 Consensus size: 44
3736630 AAACATAAAT
* * *
3736640 GCTCTTCTAAA-TAGAGGC-CAACAACTTTGAAAAAATAAACAAG
1 GCTCCTCTAAACT-GAGGCTCAACAATTTTGAAAAAATAAACAAA
* *
3736683 GCTCCTCTAAACTGAGGCTCAACAAATTTGAAAAAATAAATAAA
1 GCTCCTCTAAACTGAGGCTCAACAATTTTGAAAAAATAAACAAA
* * * *
3736727 G---CTC-ATA-T-A--ATCAACAACTTTTG-AAAAATAAATAAG
1 GCTCCTCTAAACTGAGGCTCAACAA-TTTTGAAAAAATAAACAAA
3736763 GC-CCTTCTAAACAT-A-GCTCAACAATTTTGAAAAAAAAATAAACAAA
1 GCTCC-TCTAAAC-TGAGGCTCAACAATTTTG---AAAAAATAAACAAA
* * *
3736809 GCTCCTATAATCAGAGGCTCAACAACTTTTG-AAAAATAAAC---
1 GCTCCTCTAAACTGAGGCTCAACAA-TTTTGAAAAAATAAACAAA
* * * *
3736850 GCTCCTCTAAA-TACAGGTTTAACAACTTTGAAAAAAATAAACAAA
1 GCTCCTCTAAACT-GAGGCTCAACAATTTTG-AAAAAATAAACAAA
** * ** ***
3736895 GCTTATCTAATCAAAGGCTCAACAACTTCAAAAAAAATAAACAAA
1 GCTCCTCTAAACTGAGGCTCAACAA-TTTTGAAAAAATAAACAAA
* *
3736940 GCTCCTAT-AATTAGAGGCTCAACAACTTTTG-AAAAATAAACAAA
1 GCTCCTCTAAACT-GAGGCTCAACAA-TTTTGAAAAAATAAACAAA
3736984 GCT
1 GCT
3736987 TTTTGACAAT
Statistics
Matches: 234, Mismatches: 43, Indels: 53
0.71 0.13 0.16
Matches are distributed among these distances:
36 20 0.09
37 4 0.02
38 2 0.01
39 3 0.01
40 8 0.03
41 21 0.09
42 17 0.07
43 22 0.09
44 51 0.22
45 50 0.21
46 20 0.09
47 11 0.05
48 5 0.02
ACGTcount: A:0.48, C:0.19, G:0.10, T:0.23
Consensus pattern (44 bp):
GCTCCTCTAAACTGAGGCTCAACAATTTTGAAAAAATAAACAAA
Found at i:3736764 original size:80 final size:78
Alignment explanation
Indices: 3736658--3736804 Score: 210
Period size: 80 Copynumber: 1.9 Consensus size: 78
3736648 AAATAGAGGC
3736658 CAACAACTTTGAAAAAATAAACAAGGCTCC-TCTAAAC-TGAGGCTCAACAAATTTGAAAAAATA
1 CAACAACTTTGAAAAAATAAACAAGGC-CCTTCTAAACAT-A-GCTCAACAAATTTGAAAAAA-A
3736721 AATAAAGCTCATATAAT
62 AATAAAGCTCATATAAT
* *
3736738 CAACAACTTTTG-AAAAATAAATAAGGCCCTTCTAAACATAGCTCAACAATTTTGAAAAAAAAAT
1 CAACAAC-TTTGAAAAAATAAACAAGGCCCTTCTAAACATAGCTCAACAAATTTGAAAAAAAAAT
3736802 AAA
65 AAA
3736805 CAAAGCTCCT
Statistics
Matches: 62, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
78 7 0.11
79 21 0.34
80 29 0.47
81 5 0.08
ACGTcount: A:0.51, C:0.17, G:0.09, T:0.23
Consensus pattern (78 bp):
CAACAACTTTGAAAAAATAAACAAGGCCCTTCTAAACATAGCTCAACAAATTTGAAAAAAAAATA
AAGCTCATATAAT
Found at i:3736919 original size:45 final size:45
Alignment explanation
Indices: 3736778--3736986 Score: 209
Period size: 45 Copynumber: 4.7 Consensus size: 45
3736768 TCTAAACATA
*
3736778 GCTCAACAATTTTGAAAAAAAAATAAACAAAGCTCCTATAATCAGAG
1 GCTCAACAACTTTG--AAAAAAATAAACAAAGCTCCTATAATCAGAG
* *
3736825 GCTCAACAACTTTTG--AAAAATAAAC---GCTCCTCTAAAT-ACAG
1 GCTCAACAAC-TTTGAAAAAAATAAACAAAGCTCCTAT-AATCAGAG
* * ** * *
3736866 GTTTAACAACTTTGAAAAAAATAAACAAAGCTTATCTAATCAAAG
1 GCTCAACAACTTTGAAAAAAATAAACAAAGCTCCTATAATCAGAG
** *
3736911 GCTCAACAACTTCAAAAAAAATAAACAAAGCTCCTATAATTAGAG
1 GCTCAACAACTTTGAAAAAAATAAACAAAGCTCCTATAATCAGAG
3736956 GCTCAACAACTTTTG--AAAAATAAACAAAGCT
1 GCTCAACAAC-TTTGAAAAAAATAAACAAAGCT
3736987 TTTTGACAAT
Statistics
Matches: 134, Mismatches: 19, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
40 4 0.03
41 18 0.13
42 13 0.10
44 29 0.22
45 55 0.41
46 2 0.01
47 9 0.07
48 4 0.03
ACGTcount: A:0.49, C:0.19, G:0.10, T:0.23
Consensus pattern (45 bp):
GCTCAACAACTTTGAAAAAAATAAACAAAGCTCCTATAATCAGAG
Found at i:3736930 original size:86 final size:89
Alignment explanation
Indices: 3736778--3736987 Score: 234
Period size: 86 Copynumber: 2.4 Consensus size: 89
3736768 TCTAAACATA
** * ***
3736778 GCTCAACAA-TTTTGAAAAAAAAATAAACAAAGCTCCTATAATCAGAGGCTCAACAACTT-TTGA
1 GCTCAACAACTTTTG--AAAAAAATAAACAAAGCTTATATAATCAAAGGCTCAACAACTTCAAAA
*
3736841 AAAATAAAC-GCTCCTCTAAATACAG
64 AAAATAAACAGCTCCTATAAATACAG
* * *
3736866 GTTTAACAAC-TTTGAAAAAAATAAACAAAGCTTATCTAATCAAAGGCTCAACAACTTCAAAAAA
1 GCTCAACAACTTTTGAAAAAAATAAACAAAGCTTATATAATCAAAGGCTCAACAACTTCAAAAAA
* *
3736930 AATAAACAAAGCTCCTATAATTAGAG
66 AATAAAC--AGCTCCTATAAATACAG
3736956 GCTCAACAACTTTTG--AAAAATAAACAAAGCTT
1 GCTCAACAACTTTTGAAAAAAATAAACAAAGCTT
3736988 TTTGACAATC
Statistics
Matches: 102, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
86 39 0.38
87 10 0.10
88 11 0.11
89 17 0.17
90 21 0.21
91 4 0.04
ACGTcount: A:0.49, C:0.19, G:0.10, T:0.23
Consensus pattern (89 bp):
GCTCAACAACTTTTGAAAAAAATAAACAAAGCTTATATAATCAAAGGCTCAACAACTTCAAAAAA
AATAAACAGCTCCTATAAATACAG
Found at i:3744776 original size:14 final size:15
Alignment explanation
Indices: 3744739--3744777 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
3744729 TTAAATGTAT
*
3744739 TGAATGAGAATGCAA
1 TGAATGAAAATGCAA
3744754 TGAATGAAAATGC-A
1 TGAATGAAAATGCAA
*
3744768 TGCATGAAAA
1 TGAATGAAAA
3744778 GAACATTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.49, C:0.08, G:0.23, T:0.21
Consensus pattern (15 bp):
TGAATGAAAATGCAA
Found at i:3749639 original size:16 final size:16
Alignment explanation
Indices: 3749618--3749649 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3749608 TCTTTTAAAT
*
3749618 TTTTATTTTTTAGAAA
1 TTTTATTTTTAAGAAA
3749634 TTTTATTTTTAAGAAA
1 TTTTATTTTTAAGAAA
3749650 AATTGATACT
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:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (16 bp):
TTTTATTTTTAAGAAA
Found at i:3749709 original size:16 final size:17
Alignment explanation
Indices: 3749683--3749728 Score: 67
Period size: 16 Copynumber: 2.7 Consensus size: 17
3749673 CAAAAATATC
3749683 TTTTAGAAAATTTTATT
1 TTTTAGAAAATTTTATT
3749700 TTTTAG-AAATTTTATT
1 TTTTAGAAAATTTTATT
*
3749716 TTTAAAGAAAATT
1 TTT-TAGAAAATT
3749729 GATACTTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 13 0.50
17 8 0.31
18 5 0.19
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (17 bp):
TTTTAGAAAATTTTATT
Found at i:3749776 original size:17 final size:16
Alignment explanation
Indices: 3749754--3749792 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
3749744 TTCTCAAAAA
3749754 TATTTTTTA-AAATTTT
1 TATTTTTTAGAAA-TTT
3749770 TATTTTTTAGAAATTT
1 TATTTTTTAGAAATTT
3749786 TATTTTT
1 TATTTTT
3749793 AAGGAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
TATTTTTTAGAAATTT
Found at i:3749801 original size:149 final size:147
Alignment explanation
Indices: 3749575--3749849 Score: 462
Period size: 149 Copynumber: 1.9 Consensus size: 147
3749565 TTGTACAAGA
* *
3749575 AAAATTGATACTTTTAACTTTTTCTTAAAAAAATCTTTTAAATTTTTATTTTTTAGAAATTTTAT
1 AAAATTGATACTTTCAACTTTTTCTCAAAAAAATCTTTTAAATTTTTATTTTTTAGAAATTTTAT
*
3749640 TTTTAAGAAAAATTGATACTTTCAACTTTTCTTCAAAAATATCTTTTAGAAAA-TTTTATTTTTT
66 TTTTAAGAAAAATTGATACTTTCAACTTTTCTCCAAAAATA-CTTTTA-AAAATTTTTATTTTTT
3749704 AGAAATTTTATTTTTAAAG
129 AGAAATTTTATTTTTAAAG
* *
3749723 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAAAATTTTTATTTTTTAGAAATTTTA
1 AAAATTGATACTTTCAACTTTTTCTCAAAAAAATCTTTT-AAATTTTTATTTTTTAGAAATTTTA
*
3749788 TTTTTAAGGAAAATTGATACTTTCAACTTTTCTCCAAAAATACTTTTAAAAATTTTTATTTT
65 TTTTTAAGAAAAATTGATACTTTCAACTTTTCTCCAAAAATACTTTTAAAAATTTTTATTTT
3749850 CAAGAAAAAT
Statistics
Matches: 119, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
147 4 0.03
148 50 0.42
149 65 0.55
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (147 bp):
AAAATTGATACTTTCAACTTTTTCTCAAAAAAATCTTTTAAATTTTTATTTTTTAGAAATTTTAT
TTTTAAGAAAAATTGATACTTTCAACTTTTCTCCAAAAATACTTTTAAAAATTTTTATTTTTTAG
AAATTTTATTTTTAAAG
Found at i:3749835 original size:57 final size:58
Alignment explanation
Indices: 3749770--3750083 Score: 340
Period size: 57 Copynumber: 5.4 Consensus size: 58
3749760 TTAAAATTTT
* * *
3749770 TATTTTTTAGAAATTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCTCCAAAAA
1 TATTTTTTAAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCTCCAAAAA
* *
3749828 TA-CTTTTAAAAATTTTTATTTTCAAGAAAAATTGATACTTTCAAC-TTTCCCTCAAAAA
1 TATTTTTTAAAAA-TTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCTC-CAAAAA
*
3749886 TATTTTTT-AAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCTCAAAAAA
1 TATTTTTTAAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCTCCAAAAA
** * * * *
3749943 TATATTTTT--TTATTTTATGTTCAA-AGGAAATTGATACATTCAAC-TTTCTTTCAAAAA
1 TAT-TTTTTAAAAATTTTATTTTCAAGA-AAAATTGATACTTTCAACTTTTC-TCCAAAAA
*
3750000 TATTTTGTTTAAAAATTTTATTTTCAA-AAAAATTGATACTTTCATCTTTT-TCCTCAAAAA
1 TA-TTT-TTTAAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCT-C-CAAAAA
*
3750060 TATTTTTTTAAGAATTTTTATTTT
1 TA-TTTTTTAA-AAATTTTATTTT
3750084 AGGAAAATCA
Statistics
Matches: 218, Mismatches: 23, Indels: 28
0.81 0.09 0.10
Matches are distributed among these distances:
56 5 0.02
57 91 0.42
58 59 0.27
59 24 0.11
60 39 0.18
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.48
Consensus pattern (58 bp):
TATTTTTTAAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCTCCAAAAA
Found at i:3749856 original size:74 final size:75
Alignment explanation
Indices: 3749575--3749849 Score: 420
Period size: 74 Copynumber: 3.7 Consensus size: 75
3749565 TTGTACAAGA
* * *
3749575 AAAATTGATACTTTTAACTTTTTCTTAAAAAAATCTTTT--AAATTTTTATTTTTTAGAAATTTT
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATCTTTTAAAAATTTTTATTTTTTAGAAATTTT
*
3749638 ATTTTTAAGA
66 ATTTTTAAGG
3749648 AAAATTGATACTTTCAAC-TTTTCTTCAAAAATATCTTTTAGAAAA-TTTTATTTTTTAGAAATT
1 AAAATTGATACTTTCAACTTTTTC-TCAAAAATATCTTTTA-AAAATTTTTATTTTTTAGAAATT
*
3749711 TTATTTTTAAAG
64 TTATTTTTAAGG
*
3749723 AAAATTGATACTTTCAACTTTTTCTCAAAAATAT-TTTTTAAAATTTTTATTTTTTAGAAATTTT
1 AAAATTGATACTTTCAACTTTTTCTCAAAAATATCTTTTAAAAATTTTTATTTTTTAGAAATTTT
3749787 ATTTTTAAGG
66 ATTTTTAAGG
3749797 AAAATTGATACTTTCAAC-TTTTCTCCAAAAATA-CTTTTAAAAATTTTTATTTT
1 AAAATTGATACTTTCAACTTTTTCT-CAAAAATATCTTTTAAAAATTTTTATTTT
3749850 CAAGAAAAAT
Statistics
Matches: 186, Mismatches: 8, Indels: 15
0.89 0.04 0.07
Matches are distributed among these distances:
72 5 0.03
73 40 0.22
74 77 0.41
75 56 0.30
76 8 0.04
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (75 bp):
AAAATTGATACTTTCAACTTTTTCTCAAAAATATCTTTTAAAAATTTTTATTTTTTAGAAATTTT
ATTTTTAAGG
Found at i:3749905 original size:115 final size:114
Alignment explanation
Indices: 3749770--3750083 Score: 366
Period size: 115 Copynumber: 2.7 Consensus size: 114
3749760 TTAAAATTTT
* *
3749770 TATTTTTTAGAAATTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCTCCAAAAATACTTTT
1 TATTTTTTA-AAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCTCCAAAAATA-TTTT
*
3749835 AAAAATTTTTATTTTC-AAGAAAAATTGATACTTTCAACTTTCCCTCAAAAA
64 AAAAATTTTTATTTTCAAAG-AAAATTGATACATTCAACTTTCCCTCAAAAA
* *
3749886 TATTTTTTAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCTCAAAAAATATATTTT
1 TATTTTTTAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCTCCAAAAATAT-TTTA
*** * * **
3749951 TTTA-TTTTATGTTCAAAGGAAATTGATACATTCAACTTTCTTTCAAAAA
65 AAAATTTTTATTTTCAAAGAAAATTGATACATTCAACTTTCCCTCAAAAA
*
3750000 TATTTTGTTTAAAAATTTTATTTTCAA-AAAAATTGATACTTTCATCTTTT-TCCTCAAAAATAT
1 TA-TTT-TTT-AAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCT-C-CAAAAATA-
*
3750063 TTTTTTAAGAATTTTTATTTT
60 --TTTTAAAAATTTTTATTTT
3750084 AGGAAAATCA
Statistics
Matches: 168, Mismatches: 19, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
114 39 0.23
115 58 0.35
116 35 0.21
117 23 0.14
119 4 0.02
120 9 0.05
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.48
Consensus pattern (114 bp):
TATTTTTTAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTAA
AAATTTTTATTTTCAAAGAAAATTGATACATTCAACTTTCCCTCAAAAA
Found at i:3750129 original size:6 final size:5
Alignment explanation
Indices: 3750110--3750208 Score: 55
Period size: 5 Copynumber: 18.8 Consensus size: 5
3750100 AAAAAGAACA
**
3750110 AAAAT AAAAT AAAAT GAAAAAT AAAA- AAAATT AAGGAAT ACCAAAT AATTCT
1 AAAAT AAAAT AAAAT --AAAAT AAAAT AAAA-T AA--AAT A--AAAT AA-AAT
3750162 AATAAT AATAAT -AAAT -AAAT -AAAT -AAAT AAAAT AAAAT AAAAT AAAA
1 AA-AAT AA-AAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
3750209 AACCTTGAAA
Statistics
Matches: 80, Mismatches: 4, Indels: 20
0.77 0.04 0.19
Matches are distributed among these distances:
4 19 0.24
5 34 0.43
6 13 0.16
7 11 0.14
8 2 0.03
9 1 0.01
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:3750129 original size:17 final size:16
Alignment explanation
Indices: 3750109--3750140 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
3750099 AAAAAAGAAC
3750109 AAAAATAAAATAAAATG
1 AAAAATAAAA-AAAATG
3750126 AAAAATAAAAAAAAT
1 AAAAATAAAAAAAAT
3750141 TAAGGAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (16 bp):
AAAAATAAAAAAAATG
Found at i:3750184 original size:8 final size:9
Alignment explanation
Indices: 3750162--3750207 Score: 53
Period size: 8 Copynumber: 5.2 Consensus size: 9
3750152 AAATAATTCT
3750162 AATAATAAT-
1 AATAA-AATA
3750171 AAT-AAATA
1 AATAAAATA
3750179 AAT-AAATA
1 AATAAAATA
3750187 AATAAAATAA
1 AATAAAAT-A
3750197 AATAAAATA
1 AATAAAATA
3750206 AA
1 AA
3750208 AAACCTTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
7 3 0.09
8 12 0.35
9 10 0.29
10 9 0.26
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AATAAAATA
Found at i:3751038 original size:21 final size:20
Alignment explanation
Indices: 3750979--3751050 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 20
3750969 AATCATATAT
3750979 AAAAATAATAATAATTAAA-A
1 AAAAATAATAATAA-TAAATA
*
3750999 CAAAATTAAT-ATCAGATAAACTA
1 -AAAAATAATAAT-A-ATAAA-TA
3751022 AAAAATAATAATAATAAATA
1 AAAAATAATAATAATAAATA
3751042 AATAAATAA
1 AA-AAATAA
3751051 ATATGGGTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
20 6 0.14
21 24 0.56
22 10 0.23
23 3 0.07
ACGTcount: A:0.69, C:0.04, G:0.01, T:0.25
Consensus pattern (20 bp):
AAAAATAATAATAATAAATA
Found at i:3756064 original size:24 final size:26
Alignment explanation
Indices: 3756022--3756079 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 26
3756012 AATAATAATT
*
3756022 ATTATTATAATTATAATT-AA-AAAA
1 ATTATTATAATTACAATTAAATAAAA
*
3756046 ATTATTATAATTACGATTAAATAAAA
1 ATTATTATAATTACAATTAAATAAAA
3756072 ATT-TTATA
1 ATTATTATA
3756080 TCAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 16 0.53
25 7 0.23
26 7 0.23
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (26 bp):
ATTATTATAATTACAATTAAATAAAA
Found at i:3761473 original size:13 final size:13
Alignment explanation
Indices: 3761455--3761479 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3761445 AATTTATAAA
3761455 TTTTAATTTTTAG
1 TTTTAATTTTTAG
3761468 TTTTAATTTTTA
1 TTTTAATTTTTA
3761480 TTTAATCATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TTTTAATTTTTAG
Found at i:3762480 original size:2 final size:2
Alignment explanation
Indices: 3762473--3762506 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
3762463 ATGGATTAGG
*
3762473 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3762507 GGGATGCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:3769303 original size:32 final size:31
Alignment explanation
Indices: 3769250--3769311 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 31
3769240 TATAAATAAA
*
3769250 TTTAACAAAATTAAAAAATATATTTTTTATT
1 TTTAACAAAATTAAAAAATATATATTTTATT
* *
3769281 TTTAACATAAATTATAACATATATATTTTAT
1 TTTAACA-AAATTAAAAAATATATATTTTAT
3769312 AAATATGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 7 0.26
32 20 0.74
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (31 bp):
TTTAACAAAATTAAAAAATATATATTTTATT
Found at i:3770548 original size:17 final size:16
Alignment explanation
Indices: 3770526--3770564 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
3770516 TTTAAATTAC
*
3770526 ATGAATTTATAGTATTT
1 ATGAATTTA-AGTAATT
*
3770543 ATGAATTTAATTAATT
1 ATGAATTTAAGTAATT
3770559 ATGAAT
1 ATGAAT
3770565 ACATGTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (16 bp):
ATGAATTTAAGTAATT
Found at i:3771254 original size:16 final size:16
Alignment explanation
Indices: 3771233--3771282 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
3771223 TATATAAAAA
3771233 AATTATTTTTTTAATT
1 AATTATTTTTTTAATT
*
3771249 AATTATTTTTATATATT
1 AATTATTTTTTTA-ATT
* *
3771266 TATATATTTATTTAATT
1 AAT-TATTTTTTTAATT
3771283 TTATATTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 12 0.43
17 8 0.29
18 8 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
AATTATTTTTTTAATT
Found at i:3771269 original size:8 final size:8
Alignment explanation
Indices: 3771256--3771294 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
3771246 ATTAATTATT
3771256 TTTATATA
1 TTTATATA
3771264 TTTATATA
1 TTTATATA
*
3771272 TTTATTTAA
1 TTTATAT-A
3771281 TTT-TATA
1 TTTATATA
3771288 TTTATAT
1 TTTATAT
3771295 TAAAAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 4 0.15
8 19 0.70
9 4 0.15
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTATATA
Found at i:3771287 original size:16 final size:16
Alignment explanation
Indices: 3771236--3771297 Score: 54
Period size: 16 Copynumber: 3.7 Consensus size: 16
3771226 ATAAAAAAAT
*
3771236 TATTTTTTTAATTAATTA
1 TATTTATTTAATT--TTA
* *
3771254 TTTTTATAT-ATTTATA
1 TATTTATTTAATTT-TA
3771270 TATTTATTTAATTTTA
1 TATTTATTTAATTTTA
3771286 TATTTATATTAA
1 TATTTAT-TTAA
3771298 AAAATATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
15 1 0.03
16 18 0.50
17 11 0.31
18 6 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTTATTTAATTTTA
Found at i:3771310 original size:23 final size:20
Alignment explanation
Indices: 3771280--3771329 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
3771270 TATTTATTTA
3771280 ATTTTATATTTATATTAAAAAAT
1 ATTTTATATTTA-A--AAAAAAT
*
3771303 ATTTTATATTTAAAAATAAT
1 ATTTTATATTTAAAAAAAAT
3771323 ATTTTAT
1 ATTTTAT
3771330 TAATTTGGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 13 0.50
22 1 0.04
23 12 0.46
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTTATATTTAAAAAAAAT
Found at i:3771330 original size:18 final size:18
Alignment explanation
Indices: 3771284--3771332 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
3771274 TATTTAATTT
3771284 TATATTTATATTAAAAAA
1 TATATTTATATTAAAAAA
*
3771302 TAT-TTTATATTTAAAAA
1 TATATTTATATTAAAAAA
3771319 TAATATTT-TATTAA
1 T-ATATTTATATTAA
3771333 TTTGGGTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 14 0.52
18 10 0.37
19 3 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATATTTATATTAAAAAA
Found at i:3772025 original size:15 final size:15
Alignment explanation
Indices: 3772007--3772040 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3771997 TAATAATTTA
* *
3772007 AAATTATTGGTGATT
1 AAATTATTGATGATC
3772022 AAATTATTGATGATC
1 AAATTATTGATGATC
3772037 AAAT
1 AAAT
3772041 CTTTTTGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (15 bp):
AAATTATTGATGATC
Found at i:3772977 original size:19 final size:20
Alignment explanation
Indices: 3772953--3772992 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
3772943 TTTTTAAAAA
3772953 ATTCATT-AAACCTTATAAT
1 ATTCATTAAAACCTTATAAT
*
3772972 ATTCATTAAAACCTTCTAAT
1 ATTCATTAAAACCTTATAAT
3772992 A
1 A
3772993 GTTTGGTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTCATTAAAACCTTATAAT
Found at i:3774128 original size:35 final size:35
Alignment explanation
Indices: 3774034--3774135 Score: 122
Period size: 35 Copynumber: 3.0 Consensus size: 35
3774024 TAAAAATAAA
3774034 TAAAC-AAATAAAA-AATCTATTGGGC-CAAAGCC
1 TAAACAAAATAAAACAATCTATTGGGCTCAAAGCC
* * *
3774066 TACACCAAAAT-AAACCATCTATAGGGCTCAAAGCC
1 TA-AACAAAATAAAACAATCTATTGGGCTCAAAGCC
* *
3774101 TAAACAAAATAAAACTATCTGTTGGGCTCAAAGCC
1 TAAACAAAATAAAACAATCTATTGGGCTCAAAGCC
3774136 GAAATACCAA
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
32 2 0.03
33 5 0.09
34 21 0.36
35 30 0.52
ACGTcount: A:0.45, C:0.23, G:0.13, T:0.20
Consensus pattern (35 bp):
TAAACAAAATAAAACAATCTATTGGGCTCAAAGCC
Found at i:3774717 original size:64 final size:64
Alignment explanation
Indices: 3774599--3774754 Score: 167
Period size: 64 Copynumber: 2.4 Consensus size: 64
3774589 TAAATGGCTG
* *
3774599 GGATTGAATCGCAAG-CTAAAAAAATAAATGACCTGGATAGAGTCAAAGTCAAAAATAAGTAATT
1 GGATTGAATCGTAAGTC-AAAAAAATAAATGACCTGGATAGAGTCAAAGTCAAAAATAAGTAACT
* * * * *
3774663 GGATTGAACCGTAAGTCAAAAAAATAAATGATCTGGATTA-AG-CGAAGATTAAAAATAATTAAC
1 GGATTGAATCGTAAGTCAAAAAAATAAATGACCTGGA-TAGAGTCAAAG-TCAAAAATAAGTAAC
3774726 T
64 T
* *
3774727 GAAATTGAATCGTTAGTC-AAAAAATAAA
1 G-GATTGAATCGTAAGTCAAAAAAATAAA
3774755 ATAACTTGGA
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
63 4 0.05
64 58 0.74
65 16 0.21
ACGTcount: A:0.49, C:0.10, G:0.17, T:0.24
Consensus pattern (64 bp):
GGATTGAATCGTAAGTCAAAAAAATAAATGACCTGGATAGAGTCAAAGTCAAAAATAAGTAACT
Found at i:3777747 original size:16 final size:16
Alignment explanation
Indices: 3777726--3777756 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
3777716 AGTAATAATG
3777726 ATGATTTATGATGATA
1 ATGATTTATGATGATA
3777742 ATGATTTATGATGAT
1 ATGATTTATGATGAT
3777757 TTTAAATATT
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:0.35, C:0.00, G:0.19, T:0.45
Consensus pattern (16 bp):
ATGATTTATGATGATA
Found at i:3780468 original size:84 final size:84
Alignment explanation
Indices: 3780371--3780526 Score: 249
Period size: 84 Copynumber: 1.9 Consensus size: 84
3780361 AACCTAATAA
* ** * *
3780371 ACATTATAAAAGTATGACGATCTTTATAAAATAGAAATAAAAAATTCAAATATAAACTCAAATGA
1 ACATTATAAAAGTAAGACGATCCCTATAAAATAAAAATAAAAAATTCAAATACAAACTCAAATGA
3780436 AATGAGACATAATAAAGTT
66 AATGAGACATAATAAAGTT
* *
3780455 ACATTATAAAAGTAAGACGATCCCTATAAAATAAAAATAAAAAATTCAAATGCAGACTCAAATGA
1 ACATTATAAAAGTAAGACGATCCCTATAAAATAAAAATAAAAAATTCAAATACAAACTCAAATGA
3780520 AATGAGA
66 AATGAGA
3780527 TATCTATAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 65 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.24
Consensus pattern (84 bp):
ACATTATAAAAGTAAGACGATCCCTATAAAATAAAAATAAAAAATTCAAATACAAACTCAAATGA
AATGAGACATAATAAAGTT
Found at i:3782172 original size:13 final size:13
Alignment explanation
Indices: 3782154--3782178 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3782144 GGAGCAAGTA
3782154 ATTTTATTTTTTT
1 ATTTTATTTTTTT
3782167 ATTTTATTTTTT
1 ATTTTATTTTTT
3782179 AAATGTCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
ATTTTATTTTTTT
Found at i:3787553 original size:10 final size:10
Alignment explanation
Indices: 3787538--3787576 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
3787528 AGGATTGTTT
3787538 AGAGAGAGAA
1 AGAGAGAGAA
*
3787548 AGAGAGAAAA
1 AGAGAGAGAA
3787558 AGAG-GAG-A
1 AGAGAGAGAA
3787566 AGAGAGAGAA
1 AGAGAGAGAA
3787576 A
1 A
3787577 AAAAGAAACG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
8 5 0.20
9 5 0.20
10 15 0.60
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
AGAGAGAGAA
Found at i:3787571 original size:20 final size:20
Alignment explanation
Indices: 3787538--3787578 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
3787528 AGGATTGTTT
3787538 AGAGAGAGAAAGAGAGAAAA
1 AGAGAGAGAAAGAGAGAAAA
3787558 AGAG-GAGAAGAGAGAGAAAA
1 AGAGAGAGAA-AGAGAGAAAA
3787578 A
1 A
3787579 AAGAAACGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (20 bp):
AGAGAGAGAAAGAGAGAAAA
Found at i:3787915 original size:17 final size:18
Alignment explanation
Indices: 3787893--3787934 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
3787883 AGTTATTTAG
3787893 TATTTTTTA-TTTTATTT
1 TATTTTTTATTTTTATTT
3787910 TA-TTTTTATTTTTATTT
1 TATTTTTTATTTTTATTT
3787927 TATTTTTT
1 TATTTTTT
3787935 TAAAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.26
17 12 0.52
18 5 0.22
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (18 bp):
TATTTTTTATTTTTATTT
Found at i:3787916 original size:6 final size:6
Alignment explanation
Indices: 3787896--3787933 Score: 55
Period size: 5 Copynumber: 6.8 Consensus size: 6
3787886 TATTTAGTAT
3787896 TTTTTA -TTTTA -TTTTA TTTTTA TTTTTA -TTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
3787934 TTAAAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 15 0.50
6 15 0.50
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:3787916 original size:11 final size:11
Alignment explanation
Indices: 3787896--3787933 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
3787886 TATTTAGTAT
3787896 TTTTTATTTTA
1 TTTTTATTTTA
3787907 -TTTTATTTTTA
1 TTTTTA-TTTTA
3787918 TTTTTATTTTA
1 TTTTTATTTTA
3787929 TTTTT
1 TTTTT
3787934 TTAAAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 5 0.20
11 15 0.60
12 5 0.20
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:3788071 original size:117 final size:117
Alignment explanation
Indices: 3787950--3788169 Score: 302
Period size: 117 Copynumber: 1.9 Consensus size: 117
3787940 TAAAATTCCA
* ***
3787950 AAAAAATATTTTT-AAGAAAAAATTGAAAGTATTAATTTTTTTAAAAAAATAAGTTTT-TCTAAA
1 AAAAAATATTTTTGAA-AAAAAATTGAAAGTATCAATTTTTTT-AAAAAATAA-TTTTAAAAAAA
3788013 A-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
63 AGATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
* * **
3788067 AAAAATTATTTTTGAAAAAAAGTTGAAAGTATCAATTTTTTTTGAAAATAATTTTAAAAAAAAGA
1 AAAAAATATTTTTGAAAAAAAATTGAAAGTATCAATTTTTTTAAAAAATAATTTTAAAAAAAAGA
* *
3788132 TTTTTTTGAGGAGAAGTTGAAAGTATCAATTTTTCTTG
66 TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTG
3788170 TACGAAAGCA
Statistics
Matches: 90, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
115 4 0.04
116 11 0.12
117 73 0.81
118 2 0.02
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (117 bp):
AAAAAATATTTTTGAAAAAAAATTGAAAGTATCAATTTTTTTAAAAAATAATTTTAAAAAAAAGA
TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
Found at i:3788077 original size:58 final size:58
Alignment explanation
Indices: 3787950--3788169 Score: 250
Period size: 59 Copynumber: 3.8 Consensus size: 58
3787940 TAAAATTCCA
* * * * *
3787950 AAAAAATATTTTTAAGAAAAAATTGAAAGTATTAATTTTT-TTAAAAAAATAAGTTTTTCT
1 AAAAATTATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTT--GAAAATAAG-TTTTCT
*
3788010 AAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
1 AAAAATTATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
* * **
3788067 AAAAATTATTTTTGAAAAAAAGTTGAAAGTATCAATTTTTTTTGAAAATAA-TTTTAAAA
1 AAAAATTATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTT--CT
* *
3788126 AAAAGATT-TTTTTGAGGAGAAGTTGAAAGTATCAATTTTTCTTG
1 AAAA-ATTATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
3788170 TACGAAAGCA
Statistics
Matches: 141, Mismatches: 14, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
57 15 0.11
58 50 0.35
59 66 0.47
60 10 0.07
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (58 bp):
AAAAATTATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
Found at i:3788270 original size:14 final size:13
Alignment explanation
Indices: 3788226--3788272 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
3788216 AGCTAAATCA
3788226 TTTTTTT-CTTTT
1 TTTTTTTCCTTTT
*
3788238 TTTTTTTCGTTTT
1 TTTTTTTCCTTTT
3788251 ATTTTTTTCCTTTT
1 -TTTTTTTCCTTTT
3788265 TGTTTTTT
1 T-TTTTTT
3788273 AAATTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 7 0.23
13 5 0.17
14 18 0.60
ACGTcount: A:0.02, C:0.09, G:0.04, T:0.85
Consensus pattern (13 bp):
TTTTTTTCCTTTT
Found at i:3788282 original size:27 final size:26
Alignment explanation
Indices: 3788225--3788283 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
3788215 AAGCTAAATC
***
3788225 ATTTTTTTCTTTTTTTTTTTCGTTTT
1 ATTTTTTTCTTTTTTTTTTTAAATTT
3788251 ATTTTTTTCCTTTTTGTTTTTTAAATTT
1 ATTTTTTT-CTTTTT-TTTTTTAAATTT
3788279 -TTTTT
1 ATTTTT
3788284 AATAATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 8 0.29
27 11 0.39
28 9 0.32
ACGTcount: A:0.08, C:0.07, G:0.03, T:0.81
Consensus pattern (26 bp):
ATTTTTTTCTTTTTTTTTTTAAATTT
Found at i:3798635 original size:10 final size:10
Alignment explanation
Indices: 3798620--3798654 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
3798610 ACTATGCTTA
3798620 AAAAAAAGAG
1 AAAAAAAGAG
*
3798630 AAAAAAAGAA
1 AAAAAAAGAG
*
3798640 AAAAAAAAAG
1 AAAAAAAGAG
3798650 AAAAA
1 AAAAA
3798655 GAAAGACTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:3798647 original size:22 final size:22
Alignment explanation
Indices: 3798619--3798660 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
3798609 TACTATGCTT
3798619 AAAAAAAAGAGAAAA-AAAGAAA
1 AAAAAAAAGA-AAAAGAAAGAAA
3798641 AAAAAAAAGAAAAAGAAAGA
1 AAAAAAAAGAAAAAGAAAGA
3798661 CTCAAGGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (22 bp):
AAAAAAAAGAAAAAGAAAGAAA
Found at i:3798660 original size:10 final size:9
Alignment explanation
Indices: 3798619--3798658 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
3798609 TACTATGCTT
3798619 AAAAAAAAG
1 AAAAAAAAG
3798628 AGAAAAAAAG
1 A-AAAAAAAG
3798638 AAAAAAAA-
1 AAAAAAAAG
3798646 AAAGAAAAAG
1 AAA-AAAAAG
3798656 AAA
1 AAA
3798659 GACTCAAGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 3 0.11
9 13 0.46
10 12 0.43
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:3799765 original size:83 final size:84
Alignment explanation
Indices: 3799661--3799999 Score: 346
Period size: 83 Copynumber: 4.0 Consensus size: 84
3799651 TCAAGAGCTT
3799661 TTTACTTTTTAAAAGTCGTTGAGCCTCTGATTAAAGGAG-TCATTTATTTTTCAAAGTCGTTGAG
1 TTTA-TTTTT-AAAGTCGTTGAGCCTCTGATTAAAGGAGCTCATTTATTTTTCAAAGTCGTTGAG
* *
3799725 CCTCTATTTGGAAGAGCTTTG
64 CCTCTATTTAGAGGAGCTTTG
* * *
3799746 TTTATTGTTT-AAGTCGTTGAGCCTCTGATTAGAGGAGC-AATTTATTTTTCAAAGACGTTGAGC
1 TTTATT-TTTAAAGTCGTTGAGCCTCTGATTAAAGGAGCTCATTTATTTTTCAAAGTCGTTGAGC
** **
3799809 CTCGGTTTAGAGGAATTTTG
65 CTCTATTTAGAGGAGCTTTG
* * * * *
3799829 TTTATTTTTCAAAGTCGTTAAGCCTTTGTTTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGAG
1 TTTATTTTT-AAAGTCGTTGAGCCTCTGATTAAAGGAGC-TCATTTATTTTTCAAAGTCGTTGAG
* * **
3799894 CTTCTATTCAGAGGAGC--CA
64 CCTCTATTTAGAGGAGCTTTG
* * ** * *
3799913 TTTATTTTTCAAAGTCATTGAGCCTCTGATTAAAAGAGCTTTGTTTATTTTTTTAAAGTCATTGA
1 TTTATTTTT-AAAGTCGTTGAGCCTCTGATTAAAGGAGC-TCATTTA-TTTTTCAAAGTCGTTGA
*
3799978 GCCTCTACTTAGAGGAGCTTTG
63 GCCTCTATTTAGAGGAGCTTTG
3800000 ATCAAAATTT
Statistics
Matches: 209, Mismatches: 36, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
82 3 0.01
83 69 0.33
84 67 0.32
85 37 0.18
86 33 0.16
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (84 bp):
TTTATTTTTAAAGTCGTTGAGCCTCTGATTAAAGGAGCTCATTTATTTTTCAAAGTCGTTGAGCC
TCTATTTAGAGGAGCTTTG
Found at i:3799853 original size:43 final size:43
Alignment explanation
Indices: 3799661--3799998 Score: 269
Period size: 41 Copynumber: 8.0 Consensus size: 43
3799651 TCAAGAGCTT
* * * * *
3799661 TTTACTTTTTAAAAGTCGTTGAGCCTCTGATTAAAGG-A-GTCA
1 TTTA-TTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAACTTTA
* * * * *
3799703 TTTATTTTTCAAAGTCGTTGAGCCTCTATTTGGAAGAGCTTTG
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAACTTTA
* * *
3799746 TTTATTGTTT--AAGTCGTTGAGCCTCTGATTAGAGGAGC--AA
1 TTTATT-TTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAACTTTA
* * * *
3799786 TTTATTTTTCAAAGACGTTGAGCCTCGGTTTAGAGGAATTTTG
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAACTTTA
* * *
3799829 TTTATTTTTCAAAGTCGTTAAGCCTTTGTTTAGAGGAGCTTTA
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAACTTTA
* * * * *
3799872 TTTATTTTTCAAAGTCGTTGAGCTTCTATTCAGAGGAGC--CA
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAACTTTA
* * * * * *
3799913 TTTATTTTTCAAAGTCATTGAGCCTCTGATTAAAAGAGCTTTG
1 TTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAACTTTA
* * ** *
3799956 TTTATTTTTTTAAAGTCATTGAGCCTCTACTTAGAGGAGCTTT
1 TTTA-TTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAACTTT
3799999 GATCAAAATT
Statistics
Matches: 236, Mismatches: 50, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
39 3 0.01
40 6 0.03
41 82 0.35
42 28 0.12
43 81 0.34
44 36 0.15
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.42
Consensus pattern (43 bp):
TTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAGAGGAACTTTA
Found at i:3799934 original size:127 final size:126
Alignment explanation
Indices: 3799703--3799998 Score: 371
Period size: 127 Copynumber: 2.3 Consensus size: 126
3799693 AAAGGAGTCA
* * *
3799703 TTTATTTTTCAAAGTCGTTGAGCCTCTATTTGGAAGAGCTTTGTTTATTGTTTAAGTCGTTGAGC
1 TTTATTTTTCAAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTATTTATTGTTTAAGTCGTTGAGC
* * * * *
3799768 CTCTGATTAGAGGAGCAATTTATTTTTCAAAGACGTTGAGCCTCGGTTTAGAGGAATTTTG
66 CTCTGATTAGAGGAGCAATTTATTTTTCAAAGACATTGAGCCTCGGATTAAAAGAACTTTG
* * *
3799829 TTTATTTTTCAAAGTCGTTAAGCCTTTGTTTAGAGGAGCTTTATTTATT-TTTCAAAGTCGTTGA
1 TTTATTTTTCAAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTATTTATTGTTT--AAGTCGTTGA
* * * * *
3799893 GCTTCT-ATTCAGAGGAGCCATTTATTTTTCAAAGTCATTGAGCCTCTGATTAAAAGAGCTTTG
64 GCCTCTGATT-AGAGGAGCAATTTATTTTTCAAAGACATTGAGCCTCGGATTAAAAGAACTTTG
* * *
3799956 TTTATTTTTTTAAAGTCATTGAGCCTCTACTTAGAGGAGCTTT
1 TTTA-TTTTTCAAAGTCGTTGAGCCTCTATTTAGAGGAGCTTT
3799999 GATCAAAATT
Statistics
Matches: 144, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
125 3 0.02
126 46 0.32
127 63 0.44
128 32 0.22
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.43
Consensus pattern (126 bp):
TTTATTTTTCAAAGTCGTTGAGCCTCTATTTAGAGGAGCTTTATTTATTGTTTAAGTCGTTGAGC
CTCTGATTAGAGGAGCAATTTATTTTTCAAAGACATTGAGCCTCGGATTAAAAGAACTTTG
Found at i:3800011 original size:44 final size:44
Alignment explanation
Indices: 3799918--3800012 Score: 102
Period size: 44 Copynumber: 2.1 Consensus size: 44
3799908 AGCCATTTAT
* * ***
3799918 TTTTCAAAGTCATTGAGCCTCTGATTAAAAGAGCTTTGTTTATTT
1 TTTT-AAAGTCATTGAGCCTCTGATTAAAAGAGCTTTGATCAAAA
* *
3799963 TTTTAAAGTCATTGAGCCTCT-ACTTAGAGGAGCTTTGATCAAAA
1 TTTTAAAGTCATTGAGCCTCTGA-TTAAAAGAGCTTTGATCAAAA
3800007 TTTTAA
1 TTTTAA
3800013 CACAAGAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
43 1 0.02
44 37 0.88
45 4 0.10
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (44 bp):
TTTTAAAGTCATTGAGCCTCTGATTAAAAGAGCTTTGATCAAAA
Found at i:3800225 original size:20 final size:22
Alignment explanation
Indices: 3800202--3800258 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 22
3800192 TGCTTTTATT
*
3800202 TTTATTATTT-TTTA-AATATA
1 TTTATTATTTATCTACAATATA
3800222 TTTATTATTTATCTACTAATATA
1 TTTATTATTTATCTAC-AATATA
3800245 TTTATT-TTTATCTA
1 TTTATTATTTATCTA
3800259 TTAACATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 10 0.30
21 3 0.09
22 8 0.24
23 12 0.36
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTATTATTTATCTACAATATA
Found at i:3800276 original size:21 final size:22
Alignment explanation
Indices: 3800219--3800276 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
3800209 TTTTTTAAAT
* *
3800219 ATATTTATTATTTATCTACTAAT
1 ATATTTAGT-TTTATCTACTAAC
* *
3800242 ATATTTATTTTTATCTATTAAC
1 ATATTTAGTTTTATCTACTAAC
3800264 ATATTT-GTTTTAT
1 ATATTTAGTTTTAT
3800277 TTATCTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 6 0.19
22 17 0.53
23 9 0.28
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (22 bp):
ATATTTAGTTTTATCTACTAAC
Found at i:3800304 original size:25 final size:23
Alignment explanation
Indices: 3800216--3800305 Score: 92
Period size: 25 Copynumber: 3.8 Consensus size: 23
3800206 TTATTTTTTA
* * *
3800216 AATATATTTATTATTTATCTACT
1 AATATATTTGTTTTTTATCTATT
*
3800239 AATATATTT-ATTTTTATCTATT
1 AATATATTTGTTTTTTATCTATT
*
3800261 AACATATTTGTTTTATTTATCTATT
1 AATATATTTG-TTT-TTTATCTATT
3800286 AATATATATATGTTTTTTAT
1 AATATAT-T-TGTTTTTTAT
3800306 TATAATTTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
22 18 0.32
23 9 0.16
24 2 0.04
25 21 0.38
26 4 0.07
27 2 0.04
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (23 bp):
AATATATTTGTTTTTTATCTATT
Found at i:3800323 original size:3 final size:3
Alignment explanation
Indices: 3800302--3800387 Score: 52
Period size: 3 Copynumber: 27.7 Consensus size: 3
3800292 TATATGTTTT
* *
3800302 TTA TTA TAA TTTA TCTA TTA TTG TTA TTA TTTA TCTA TTA TTA TTA TTA
1 TTA TTA TTA -TTA T-TA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA
* * *
3800351 TT- TTC TT- TTA GTTA TCTA TTA ATA TT- TTA TTT TTA TT
1 TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA TT
3800388 TTTTTTATTT
Statistics
Matches: 66, Mismatches: 8, Indels: 18
0.72 0.09 0.20
Matches are distributed among these distances:
2 6 0.09
3 43 0.65
4 17 0.26
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:3800352 original size:23 final size:20
Alignment explanation
Indices: 3800302--3800371 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
3800292 TATATGTTTT
*
3800302 TTATTATAATTTATCTATTA
1 TTATTATTATTTATCTATTA
*
3800322 TTGTTATTATTTATCTATTA
1 TTATTATTATTTATCTATTA
*
3800342 TTATTATTATTT-TCTTTTA
1 TTATTATTATTTATCTATTA
3800361 GTTATCTATTA
1 -TTAT-TATTA
3800372 ATATTTTATT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
19 6 0.14
20 33 0.75
21 5 0.11
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (20 bp):
TTATTATTATTTATCTATTA
Found at i:3800376 original size:24 final size:23
Alignment explanation
Indices: 3800339--3800383 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
3800329 TATTTATCTA
* *
3800339 TTATTATTATTATTTTCTTTTAG
1 TTATTATTAATATTTTATTTTAG
3800362 TTATCTATTAATATTTTATTTT
1 TTAT-TATTAATATTTTATTTT
3800384 TATTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (23 bp):
TTATTATTAATATTTTATTTTAG
Found at i:3800387 original size:55 final size:52
Alignment explanation
Indices: 3800240--3800388 Score: 117
Period size: 55 Copynumber: 2.8 Consensus size: 52
3800230 TTATCTACTA
* * *
3800240 ATATAT-TTATTT-TTATCTATTAACATATTTGTTTTATTTATCTATTAATAT
1 ATATATGTTTTTTATTATCTATTAATAT-TTTTTTTTATTTATCTATTAATAT
* * * *
3800291 ATATATGTTTTTTATTAT-AATTTATCTATTATTGTTATTATTTATCTATTATTAT
1 ATATATGTTTTTTATTATCTA-TTA-ATATT-TT-TTTTTATTTATCTATTAATAT
*
3800346 -TATTATTTTCTTTTAGTTATCTATTAATATTTTATTTTTATTT
1 ATA-TATGTT-TTTTA-TTATCTATTAATATTTT-TTTTTATTT
3800389 TTTTTATTTT
Statistics
Matches: 76, Mismatches: 12, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
51 6 0.08
52 6 0.08
53 8 0.11
54 6 0.08
55 33 0.43
56 9 0.12
57 7 0.09
58 1 0.01
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (52 bp):
ATATATGTTTTTTATTATCTATTAATATTTTTTTTTATTTATCTATTAATAT
Found at i:3800393 original size:15 final size:15
Alignment explanation
Indices: 3800375--3800405 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3800365 TCTATTAATA
3800375 TTTTATTTTTATTTT
1 TTTTATTTTTATTTT
*
3800390 TTTTATTTTTCTTTT
1 TTTTATTTTTATTTT
3800405 T
1 T
3800406 CTTCTTATTC
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:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTATTTTTATTTT
Found at i:3801128 original size:22 final size:23
Alignment explanation
Indices: 3801097--3801140 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
3801087 GTTTTTTTTA
* *
3801097 TATTTGTTTATTTATTATATTAT
1 TATTTGTTTATTGATTAGATTAT
3801120 TATTT-TTTATTGATTAGATTA
1 TATTTGTTTATTGATTAGATTA
3801141 AAATCGCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (23 bp):
TATTTGTTTATTGATTAGATTAT
Found at i:3801210 original size:4 final size:4
Alignment explanation
Indices: 3801201--3801244 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
3801191 AGTTTTTTTA
*
3801201 TATT TATT TATT TAGT TATT TA-T TA-T TA-T TA-T TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
3801245 AGATTAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 12 0.32
4 25 0.68
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (4 bp):
TATT
Found at i:3801222 original size:16 final size:15
Alignment explanation
Indices: 3801197--3801245 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 15
3801187 AAAAAGTTTT
3801197 TTTA-TATTTATTTA
1 TTTATTATTTATTTA
3801211 TTTAGTTATTTA-TTA
1 TTTA-TTATTTATTTA
3801226 -TTATTA-TTATTTA
1 TTTATTATTTATTTA
3801239 TTTATTA
1 TTTATTA
3801246 GATTAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 3 0.10
13 6 0.19
14 13 0.42
15 3 0.10
16 6 0.19
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (15 bp):
TTTATTATTTATTTA
Found at i:3801250 original size:16 final size:16
Alignment explanation
Indices: 3801201--3801250 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
3801191 AGTTTTTTTA
3801201 TATTTATTTATTTAG-T
1 TATTTATTTA-TTAGAT
*
3801217 TATTTA-TTATTATTAT
1 TATTTATTTATTA-GAT
3801233 TATTTATTTATTAGAT
1 TATTTATTTATTAGAT
3801249 TA
1 TA
3801251 AAATTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 3 0.10
15 3 0.10
16 17 0.59
17 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (16 bp):
TATTTATTTATTAGAT
Found at i:3801250 original size:22 final size:20
Alignment explanation
Indices: 3801216--3801260 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
3801206 ATTTATTTAG
**
3801216 TTATTTATTATTATTATTAT
1 TTATTTATTATTAAAATTAT
3801236 TTATTTATTAGATTAAAATTAT
1 TTATTTATT--ATTAAAATTAT
3801258 TTA
1 TTA
3801261 GTATTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
22 12 0.57
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TTATTTATTATTAAAATTAT
Found at i:3801275 original size:5 final size:5
Alignment explanation
Indices: 3801265--3801320 Score: 62
Period size: 5 Copynumber: 11.0 Consensus size: 5
3801255 TATTTAGTAT
3801265 TTTTA TTTTA TTTTA TTTTA TTTTTA TCTTTA TTTT- TATTT- TTTTA
1 TTTTA TTTTA TTTTA TTTTA -TTTTA T-TTTA TTTTA T-TTTA TTTTA
*
3801311 TTTTT TTTTA
1 TTTTA TTTTA
3801321 AATAAAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
4 4 0.09
5 31 0.69
6 10 0.22
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:3801305 original size:6 final size:6
Alignment explanation
Indices: 3801262--3801320 Score: 63
Period size: 6 Copynumber: 10.3 Consensus size: 6
3801252 AATTATTTAG
*
3801262 TATTTT TA-TTT TA-TTT TA-TTT TATTTT TATCTT TATTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
*
3801307 T-TTATT TTTTTT TA
1 TATT-TT TATTTT TA
3801321 AATAAAATTC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
5 17 0.36
6 28 0.60
7 2 0.04
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:3801373 original size:57 final size:56
Alignment explanation
Indices: 3801312--3801453 Score: 173
Period size: 58 Copynumber: 2.5 Consensus size: 56
3801302 ATTTTTTTAT
*
3801312 TTTTTTTTAAATAAAATTCTAAAAAATATATTTTTAAGAAAAAGTTGAAAGTATCAA
1 TTTTTTTAAAATAAAATTCTAAAAAA-ATATTTTTAAGAAAAAGTTGAAAGTATCAA
** *
3801369 TTTTTCTTGAAAATAAGTTTTCT-AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAA
1 TTTTT-TT-AAAATAA-AATTCTAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAA
3801427 TTTTCTTTGAAAAT--AATTCTAAAAAAA
1 TTTT-TTT-AAAATAAAATTCTAAAAAAA
3801454 AAAAGGTTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
55 4 0.05
56 6 0.08
57 5 0.07
58 43 0.58
59 12 0.16
60 4 0.05
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.40
Consensus pattern (56 bp):
TTTTTTTAAAATAAAATTCTAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAA
Found at i:3801403 original size:58 final size:58
Alignment explanation
Indices: 3801328--3801555 Score: 196
Period size: 58 Copynumber: 3.8 Consensus size: 58
3801318 TTAAATAAAA
*
3801328 TTCTAAAAAATATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTT
1 TTCT-AAAAA-ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTT
3801388 TTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAA-TTTTCTTTGAAAATAA-TT
1 TTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTC-TTGAAAATAAGTT
*** * * * * * * **
3801445 CTAAAAAAAAAAAGGTTTTTTTTTAGGAGAAGTTAAAAGTATCAATTTTTCTCGAAGTTAAAG-T
1 -T--TCTAAAAAA---TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAGTT
* *
3801509 TTC-AGAAAAATA-TTTTGAGGAAAATTTGAAAGTATCAATTTTTCTTG
1 TTCTA-AAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTG
3801556 TATGAAAGCA
Statistics
Matches: 137, Mismatches: 20, Indels: 25
0.75 0.11 0.14
Matches are distributed among these distances:
57 37 0.27
58 41 0.30
59 5 0.04
60 11 0.08
61 5 0.04
63 30 0.22
64 8 0.06
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.39
Consensus pattern (58 bp):
TTCTAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTT
Found at i:3806684 original size:16 final size:16
Alignment explanation
Indices: 3806663--3806698 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
3806653 GATAAATGAG
*
3806663 TGATAATGATGATTTA
1 TGATAATAATGATTTA
3806679 TGATAATAATGATTTA
1 TGATAATAATGATTTA
3806695 TGAT
1 TGAT
3806699 GATTTTAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.44
Consensus pattern (16 bp):
TGATAATAATGATTTA
Found at i:3809425 original size:85 final size:84
Alignment explanation
Indices: 3809318--3809474 Score: 260
Period size: 85 Copynumber: 1.9 Consensus size: 84
3809308 AACCTAATAA
3809318 ACATTATAAAAGTCTGACGATCCTTATAAAATAGAAATAAAAAAATTCAAATACAAACTCAAATG
1 ACATTATAAAAGTCTGACGATCCTTATAAAATAGAAAT-AAAAAATTCAAATACAAACTCAAATG
3809383 AAACGAGACCTAATAAAGTT
65 AAACGAGACCTAATAAAGTT
* * * *
3809403 ACATTATAAAAGTGTGACGATCCTTATAAAATAGAAATAAAAGATTCAAATGCAGACTCAAATGA
1 ACATTATAAAAGTCTGACGATCCTTATAAAATAGAAATAAAAAATTCAAATACAAACTCAAATGA
*
3809468 AATGAGA
66 AACGAGA
3809475 TGTCTATAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 30 0.45
85 37 0.55
ACGTcount: A:0.52, C:0.13, G:0.12, T:0.24
Consensus pattern (84 bp):
ACATTATAAAAGTCTGACGATCCTTATAAAATAGAAATAAAAAATTCAAATACAAACTCAAATGA
AACGAGACCTAATAAAGTT
Found at i:3811986 original size:15 final size:15
Alignment explanation
Indices: 3811966--3811997 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
3811956 AAATATAAAA
3811966 TAATATAATTTTATT
1 TAATATAATTTTATT
3811981 TAATATAATTTTATT
1 TAATATAATTTTATT
3811996 TA
1 TA
3811998 TAATATCATA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TAATATAATTTTATT
Done.