Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 384 of 433
Found at i:119902779 original size:16 final size:17
Alignment explanation
Indices: 119902752--119902784 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
119902742 AGTTATGAGA
*
119902752 TGAAATGAATAATGTAT
1 TGAAATGAATAAAGTAT
119902769 TGAAA-GAATAAAGTAT
1 TGAAATGAATAAAGTAT
119902785 GATGAGTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.30
Consensus pattern (17 bp):
TGAAATGAATAAAGTAT
Found at i:119909095 original size:17 final size:18
Alignment explanation
Indices: 119909075--119909108 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
119909065 AAGTGAATCG
119909075 AAATTAC-AAAATTAAAT
1 AAATTACAAAAATTAAAT
*
119909092 AAATTGCAAAAATTAAA
1 AAATTACAAAAATTAAA
119909109 ATGAAGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAATTACAAAAATTAAAT
Found at i:119909847 original size:10 final size:10
Alignment explanation
Indices: 119909828--119909887 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
119909818 TGAAATTCTA
119909828 AAAGATAAAT
1 AAAGATAAAT
119909838 ACAA-ATAAAT
1 A-AAGATAAAT
*
119909848 AAAGATAATT
1 AAAGATAAAT
119909858 AAAGATAAAT
1 AAAGATAAAT
119909868 AAAGATAAAT
1 AAAGATAAAT
119909878 GAAA-ATAAAT
1 -AAAGATAAAT
119909888 CCTAAAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:119912249 original size:17 final size:17
Alignment explanation
Indices: 119912209--119912242 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
119912199 TATATTAAAA
* *
119912209 TTATTATTATTATGGTT
1 TTATAATTATTATGATT
119912226 TTATAATTATTATGATT
1 TTATAATTATTATGATT
119912243 ATTTAATGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (17 bp):
TTATAATTATTATGATT
Found at i:119912669 original size:14 final size:14
Alignment explanation
Indices: 119912647--119912685 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
119912637 CAAGGGAGAG
119912647 AAAGAGAAAGAAAA
1 AAAGAGAAAGAAAA
*
119912661 AAAGGGAAAGAAAATA
1 AAAGAGAAAG-AAA-A
119912677 AAAGAGAAA
1 AAAGAGAAA
119912686 ACTAAGGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 9 0.43
15 3 0.14
16 9 0.43
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (14 bp):
AAAGAGAAAGAAAA
Found at i:119913708 original size:39 final size:38
Alignment explanation
Indices: 119913619--119913715 Score: 106
Period size: 39 Copynumber: 2.5 Consensus size: 38
119913609 CGGATAGATT
* * *
119913619 CGATGAGGTACTGGGTACCAACTTTACTTCGGCTAGGC
1 CGATGAGGCACTGGGTGCCAACTTTACTTCGACTAGGC
* * * *
119913657 CGAGGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGGCACTGGGTGCCAACT-TTACTTCG-ACTAGGC
119913696 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
119913716 TATTGGTGTG
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
38 18 0.38
39 26 0.55
40 3 0.06
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (38 bp):
CGATGAGGCACTGGGTGCCAACTTTACTTCGACTAGGC
Found at i:119915298 original size:136 final size:137
Alignment explanation
Indices: 119915054--119915339 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
119915044 CATTGGGCCT
** * *
119915054 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
119915119 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
119915183 CATATGC
131 CATATGC
119915190 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
119915255 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
119915320 CATATGC
131 CATATGC
119915327 AAGCCCATTTGGG
1 AAGCCCATTTGGG
119915340 GAGACTACTC
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 122 0.85
137 22 0.15
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:119917161 original size:26 final size:26
Alignment explanation
Indices: 119917125--119917260 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
119917115 CATGATATTC
119917125 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
119917151 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
119917177 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
119917203 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
119917229 TTATCATGGAACATTTACCTAACCAA
1 TTATCATGAAACATTTACCTAACCCA
119917255 TTATCA
1 TTATCA
119917261 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:119922769 original size:13 final size:13
Alignment explanation
Indices: 119922751--119922780 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
119922741 AGTAGGGGAG
119922751 AAAAAGAGAAAGA
1 AAAAAGAGAAAGA
*
119922764 AAAAAGGGAAAGA
1 AAAAAGAGAAAGA
119922777 AAAA
1 AAAA
119922781 TAAAAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAAAGAGAAAGA
Found at i:119923791 original size:39 final size:40
Alignment explanation
Indices: 119923684--119923794 Score: 102
Period size: 38 Copynumber: 2.8 Consensus size: 40
119923674 GACCTCGAGT
* * **
119923684 CGATAAGACACTGGGTGTC-ACTAAATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAACT--ATTACTTCGGATAGAGC
** ** *
119923725 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
119923763 CGATGAGACACTGGGTGTCAACTATTACTTCG
1 CGATGAGACACTGGGTGTCAACTATTACTTCG
119923795 AACTATTCGA
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
38 19 0.35
39 19 0.35
41 14 0.25
42 3 0.05
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
Found at i:119924483 original size:20 final size:20
Alignment explanation
Indices: 119924460--119924497 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
119924450 GTTATTAAGT
119924460 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
119924480 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
119924498 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:119924836 original size:20 final size:20
Alignment explanation
Indices: 119924789--119924843 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
119924779 GGGGTGTTCC
**
119924789 ACATGCCCGTGTGGCTTGGG
1 ACATGCCCGTGTGGCTTGAA
*
119924809 ACACGCCCGTGTGG-TCTGAA
1 ACATGCCCGTGTGGCT-TGAA
119924829 ACATGCCCGTGTGGC
1 ACATGCCCGTGTGGC
119924844 CTGCCCATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.15, C:0.29, G:0.35, T:0.22
Consensus pattern (20 bp):
ACATGCCCGTGTGGCTTGAA
Found at i:119932084 original size:20 final size:20
Alignment explanation
Indices: 119932059--119932112 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
119932049 AGGGGCACAT
* *
119932059 GCCCGTGTGGCTTGGGACAC
1 GCCCGTGTGGCCTGGAACAC
* *
119932079 GCCCGTGTAGCCTGGAACAT
1 GCCCGTGTGGCCTGGAACAC
*
119932099 GCCCGTATGGCCTG
1 GCCCGTGTGGCCTG
119932113 TACATATGCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.13, C:0.31, G:0.35, T:0.20
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGAACAC
Found at i:119935919 original size:7 final size:7
Alignment explanation
Indices: 119935899--119935979 Score: 66
Period size: 6 Copynumber: 12.1 Consensus size: 7
119935889 TTAATATCTG
119935899 AAAATAA
1 AAAATAA
119935906 TAAAATAA
1 -AAAATAA
119935914 AAAATAA
1 AAAATAA
119935921 AAAATAA
1 AAAATAA
119935928 AAAA-ATA
1 AAAATA-A
*
119935935 CAAAT-A
1 AAAATAA
*
119935941 CAAAT-A
1 AAAATAA
*
119935947 CAAAT-A
1 AAAATAA
119935953 AAAAT-A
1 AAAATAA
119935959 AAAAT-A
1 AAAATAA
119935965 AAAATAA
1 AAAATAA
*
119935972 AAATTAA
1 AAAATAA
119935979 A
1 A
119935980 GATTGGGTTG
Statistics
Matches: 67, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
6 30 0.45
7 30 0.45
8 7 0.10
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (7 bp):
AAAATAA
Found at i:119935922 original size:6 final size:6
Alignment explanation
Indices: 119935907--119935975 Score: 75
Period size: 6 Copynumber: 10.8 Consensus size: 6
119935897 TGAAAATAAT
* * *
119935907 AAAATAA AAAATAA AAAATAAA AAAATA CAAATA CAAATA CAAATA AAAATA
1 AAAAT-A AAAAT-A AAAAT--A AAAATA AAAATA AAAATA AAAATA AAAATA
119935959 AAAATA AAAATA AAAAT
1 AAAATA AAAATA AAAAT
119935976 TAAAGATTGG
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
6 40 0.68
7 12 0.20
8 7 0.12
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:119942408 original size:10 final size:10
Alignment explanation
Indices: 119942389--119942438 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
119942379 TGAAATTCTA
119942389 AAAGATAAAT
1 AAAGATAAAT
119942399 ACAA-ATAAAT
1 A-AAGATAAAT
*
119942409 AAAGATAATT
1 AAAGATAAAT
119942419 AAAGATAAAT
1 AAAGATAAAT
119942429 GAAA-ATAAAT
1 -AAAGATAAAT
119942439 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:119942999 original size:22 final size:22
Alignment explanation
Indices: 119942961--119943002 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
119942951 TACATAATCA
*
119942961 AATCAAATATGATTATATATGC
1 AATCAAATATGAATATATATGC
119942983 AATCAAATA-GAAATATATAT
1 AATCAAATATG-AATATATAT
119943003 TCGAAAGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (22 bp):
AATCAAATATGAATATATATGC
Found at i:119951301 original size:11 final size:11
Alignment explanation
Indices: 119951285--119951336 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
119951275 AACTTCATTC
119951285 TTATTATTTTA
1 TTATTATTTTA
*
119951296 TTATTATTTCA
1 TTATTATTTTA
* *
119951307 CTATTATATTA
1 TTATTATTTTA
* *
119951318 CTAATATTTTA
1 TTATTATTTTA
119951329 TTATTATT
1 TTATTATT
119951337 ATTTAGATAT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:119959687 original size:8 final size:8
Alignment explanation
Indices: 119959674--119959699 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
119959664 TACCAAATAA
119959674 AACATAGC
1 AACATAGC
119959682 AACATAGC
1 AACATAGC
119959690 AACATAGC
1 AACATAGC
119959698 AA
1 AA
119959700 AGAAACTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.12
Consensus pattern (8 bp):
AACATAGC
Found at i:119960427 original size:2 final size:2
Alignment explanation
Indices: 119960420--119960454 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
119960410 AAAGCAAAAT
119960420 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
119960455 TTTAAAACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:119963089 original size:2 final size:2
Alignment explanation
Indices: 119963082--119963113 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
119963072 TTTAACTGTA
*
119963082 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
119963114 GAATGTGCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:119968095 original size:19 final size:17
Alignment explanation
Indices: 119968058--119968100 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
119968048 GTGGTATTAT
* *
119968058 CATAATTCAATTCATAA
1 CATAAATCAATTCAAAA
119968075 CATCAAATCAAGTTCAAAA
1 CAT-AAATCAA-TTCAAAA
119968094 CATAAAT
1 CATAAAT
119968101 ACACAAGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 10 0.45
19 9 0.41
ACGTcount: A:0.51, C:0.19, G:0.02, T:0.28
Consensus pattern (17 bp):
CATAAATCAATTCAAAA
Found at i:119972332 original size:37 final size:37
Alignment explanation
Indices: 119972282--119972356 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
119972272 TCTAATTAAA
119972282 ATGATAGTAGAAACACTGTAACAAGCATATCTGACAG
1 ATGATAGTAGAAACACTGTAACAAGCATATCTGACAG
119972319 ATGATAGTAGAAACACTGTAACAAGCATATCTGACAG
1 ATGATAGTAGAAACACTGTAACAAGCATATCTGACAG
119972356 A
1 A
119972357 CACTCTTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (37 bp):
ATGATAGTAGAAACACTGTAACAAGCATATCTGACAG
Found at i:119974525 original size:2 final size:2
Alignment explanation
Indices: 119974518--119974562 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
119974508 ATCCTAATTT
119974518 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
119974558 TA TA T
1 TA TA T
119974563 TAACTTTTAC
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:119975763 original size:33 final size:33
Alignment explanation
Indices: 119975726--119975792 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
119975716 CGTGTACCGT
*
119975726 TCTGGATCGCCTCTTAGGTCTTGCGGTCTACTA
1 TCTGGATCGCCTCTTAGGTCTTGCAGTCTACTA
*
119975759 TCTGGGTCGCCTCTTAGGTCTTGCAGTCTACTA
1 TCTGGATCGCCTCTTAGGTCTTGCAGTCTACTA
119975792 T
1 T
119975793 ATGCTAACTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.12, C:0.27, G:0.24, T:0.37
Consensus pattern (33 bp):
TCTGGATCGCCTCTTAGGTCTTGCAGTCTACTA
Found at i:119977321 original size:2 final size:2
Alignment explanation
Indices: 119977314--119977341 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
119977304 AACAACATGA
119977314 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
119977342 GTTGTGTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:119988958 original size:21 final size:21
Alignment explanation
Indices: 119988932--119988973 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
119988922 ACATTCCTTA
119988932 AGTGCCAAGCCAAACAAATAT
1 AGTGCCAAGCCAAACAAATAT
119988953 AGTGCCAAGCCAAACAAATAT
1 AGTGCCAAGCCAAACAAATAT
119988974 TAACTATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.24, G:0.14, T:0.14
Consensus pattern (21 bp):
AGTGCCAAGCCAAACAAATAT
Found at i:119989670 original size:73 final size:73
Alignment explanation
Indices: 119989584--119989728 Score: 254
Period size: 73 Copynumber: 2.0 Consensus size: 73
119989574 ATAACCTTTT
* *
119989584 CATGTTATAAAACATATACAAGTAAACACATTAGACATACCATTTATTCAACATCTATTCATTTA
1 CATGTTATAAAACATATACAAGTAAACACATTAGACATACAATTCATTCAACATCTATTCATTTA
119989649 ACATTTCA
66 ACATTTCA
* *
119989657 CATGTTATAAAACATATACAAGTAATCACATTAGATATACAATTCATTCAACATCTATTCATTTA
1 CATGTTATAAAACATATACAAGTAAACACATTAGACATACAATTCATTCAACATCTATTCATTTA
119989722 ACATTTC
66 ACATTTC
119989729 CCATTTTAAG
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (73 bp):
CATGTTATAAAACATATACAAGTAAACACATTAGACATACAATTCATTCAACATCTATTCATTTA
ACATTTCA
Found at i:119989832 original size:13 final size:13
Alignment explanation
Indices: 119989775--119989845 Score: 65
Period size: 13 Copynumber: 5.4 Consensus size: 13
119989765 AGATCTATCT
*
119989775 ATATAAACATTTC
1 ATATAATCATTTC
* *
119989788 GTATAAACACTTT-
1 ATATAATCA-TTTC
*
119989801 ATATAATTATTTCC
1 ATATAATCATTT-C
119989815 ATATAATCGA-TTC
1 ATATAATC-ATTTC
119989828 ATATAATCATTTC
1 ATATAATCATTTC
119989841 ATATA
1 ATATA
119989846 TTATTTTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
12 4 0.08
13 31 0.65
14 12 0.25
15 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.42
Consensus pattern (13 bp):
ATATAATCATTTC
Found at i:119990280 original size:44 final size:44
Alignment explanation
Indices: 119990227--119990337 Score: 150
Period size: 45 Copynumber: 2.5 Consensus size: 44
119990217 CATAATGTCA
* *
119990227 TTCAACTATGATCTTACACATTAAATCATGATGCCATAGCGTCT
1 TTCAGCTATGATCTTACTCATTAAATCATGATGCCATAGCGTCT
* * ** *
119990271 TTTAGCTATGGTCTTACTTGTTTGAATCATGATGCCATAGCGTCT
1 TTCAGCTATGATCTTAC-TCATTAAATCATGATGCCATAGCGTCT
119990316 TTCAGCTATGATCTTACTCATT
1 TTCAGCTATGATCTTACTCATT
119990338 TCCAGTATAA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 17 0.31
45 38 0.69
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (44 bp):
TTCAGCTATGATCTTACTCATTAAATCATGATGCCATAGCGTCT
Found at i:119991875 original size:13 final size:14
Alignment explanation
Indices: 119991852--119991883 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
119991842 ATATTCGACC
119991852 ACATA-GTGATG-T
1 ACATATGTGATGAT
119991864 ACATATGTGATGAT
1 ACATATGTGATGAT
119991878 ACATAT
1 ACATAT
119991884 TGAATTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.28
13 6 0.33
14 7 0.39
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (14 bp):
ACATATGTGATGAT
Found at i:119993072 original size:2 final size:2
Alignment explanation
Indices: 119993065--119993095 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
119993055 AGTGTATACG
119993065 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
119993096 GATGCTTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:119998846 original size:50 final size:51
Alignment explanation
Indices: 119998764--119998872 Score: 202
Period size: 50 Copynumber: 2.2 Consensus size: 51
119998754 GACCATGGCA
*
119998764 ACAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
119998815 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
119998865 ACAAGTGA
1 ACAAGTGA
119998873 AAAGAGGTAG
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
50 49 0.88
51 7 0.12
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:119998906 original size:31 final size:31
Alignment explanation
Indices: 119998868--119998985 Score: 182
Period size: 31 Copynumber: 3.8 Consensus size: 31
119998858 ACAAATGACA
* ** *
119998868 AGTGAAAAGAGGTAGCTTTTGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
119998899 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
119998930 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
119998961 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
119998986 AAGTGACAAG
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 80 1.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:119999159 original size:49 final size:48
Alignment explanation
Indices: 119999007--119999210 Score: 218
Period size: 49 Copynumber: 4.3 Consensus size: 48
119998997 GATTTCCGTA
* * * * * * *
119999007 TAAGACCATATCTGGGATATGGCATCG--GTGTGATATATGCTACTGTA
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGAT-TTGTG
* * * * * *
119999054 TAAGACCATATCTGGGATATGACATC-A-GTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTTGTG
119999100 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATT-TGTG
*
119999149 TAAGATCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTT-GTG
*
119999198 TAAGGCCATAGCT
1 TAAGACCATAGCT
119999211 ATAACACCCT
Statistics
Matches: 136, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
46 25 0.18
47 37 0.27
48 14 0.10
49 60 0.44
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTTGTG
Found at i:120001932 original size:46 final size:46
Alignment explanation
Indices: 120001880--120002148 Score: 385
Period size: 46 Copynumber: 5.8 Consensus size: 46
120001870 GCTTTCTGAA
120001880 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
120001926 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
120001972 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * *
120002018 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** * * *
120002064 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGACAACCTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * * * *
120002110 AAAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
120002149 TCTTGTCACA
Statistics
Matches: 202, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 202 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:120003005 original size:42 final size:43
Alignment explanation
Indices: 120002953--120003056 Score: 142
Period size: 42 Copynumber: 2.5 Consensus size: 43
120002943 GGGTGTTACA
*
120002953 ATAGCT-GGCTATGGCATCGA-TATATGAATATGTGTAAGACC
1 ATAGCTGGGCTATGGCATCGATTATATGAAGATGTGTAAGACC
*
120002994 ATAGCTGGGCTATGGCATC-ATTATGTGAAGATGTGTAAGACC
1 ATAGCTGGGCTATGGCATCGATTATATGAAGATGTGTAAGACC
* **
120003036 ATAGTTGAACTATGGCATCGA
1 ATAGCTGGGCTATGGCATCGA
120003057 GAAAACGAAG
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 7 0.13
42 47 0.85
43 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (43 bp):
ATAGCTGGGCTATGGCATCGATTATATGAAGATGTGTAAGACC
Found at i:120012969 original size:21 final size:21
Alignment explanation
Indices: 120012943--120012984 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
120012933 ACATTCCTTA
120012943 AGTGCCAAGCCAAACAAATAT
1 AGTGCCAAGCCAAACAAATAT
120012964 AGTGCCAAGCCAAACAAATAT
1 AGTGCCAAGCCAAACAAATAT
120012985 TAACTATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.24, G:0.14, T:0.14
Consensus pattern (21 bp):
AGTGCCAAGCCAAACAAATAT
Found at i:120013681 original size:73 final size:73
Alignment explanation
Indices: 120013595--120013739 Score: 254
Period size: 73 Copynumber: 2.0 Consensus size: 73
120013585 ATAACCTTTT
* *
120013595 CATGTTATAAAACATATACAAGTAAACACATTAGACATACCATTTATTCAACATCTATTCATTTA
1 CATGTTATAAAACATATACAAGTAAACACATTAGACATACAATTCATTCAACATCTATTCATTTA
120013660 ACATTTCA
66 ACATTTCA
* *
120013668 CATGTTATAAAACATATACAAGTAATCACATTAGATATACAATTCATTCAACATCTATTCATTTA
1 CATGTTATAAAACATATACAAGTAAACACATTAGACATACAATTCATTCAACATCTATTCATTTA
120013733 ACATTTC
66 ACATTTC
120013740 CCATTTTAAG
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (73 bp):
CATGTTATAAAACATATACAAGTAAACACATTAGACATACAATTCATTCAACATCTATTCATTTA
ACATTTCA
Found at i:120013843 original size:13 final size:13
Alignment explanation
Indices: 120013786--120013856 Score: 65
Period size: 13 Copynumber: 5.4 Consensus size: 13
120013776 AGATCTATCT
*
120013786 ATATAAACATTTC
1 ATATAATCATTTC
* *
120013799 GTATAAACACTTT-
1 ATATAATCA-TTTC
*
120013812 ATATAATTATTTCC
1 ATATAATCATTT-C
120013826 ATATAATCGA-TTC
1 ATATAATC-ATTTC
120013839 ATATAATCATTTC
1 ATATAATCATTTC
120013852 ATATA
1 ATATA
120013857 TTATTTTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
12 4 0.08
13 31 0.65
14 12 0.25
15 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.42
Consensus pattern (13 bp):
ATATAATCATTTC
Found at i:120014291 original size:44 final size:44
Alignment explanation
Indices: 120014238--120014348 Score: 150
Period size: 45 Copynumber: 2.5 Consensus size: 44
120014228 CATAATGTCA
* *
120014238 TTCAACTATGATCTTACACATTAAATCATGATGCCATAGCGTCT
1 TTCAGCTATGATCTTACTCATTAAATCATGATGCCATAGCGTCT
* * ** *
120014282 TTTAGCTATGGTCTTACTTGTTTGAATCATGATGCCATAGCGTCT
1 TTCAGCTATGATCTTAC-TCATTAAATCATGATGCCATAGCGTCT
120014327 TTCAGCTATGATCTTACTCATT
1 TTCAGCTATGATCTTACTCATT
120014349 TCCAGTATAA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 17 0.31
45 38 0.69
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (44 bp):
TTCAGCTATGATCTTACTCATTAAATCATGATGCCATAGCGTCT
Found at i:120015886 original size:13 final size:14
Alignment explanation
Indices: 120015863--120015894 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
120015853 ATATTCGACC
120015863 ACATA-GTGATG-T
1 ACATATGTGATGAT
120015875 ACATATGTGATGAT
1 ACATATGTGATGAT
120015889 ACATAT
1 ACATAT
120015895 TGAATTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.28
13 6 0.33
14 7 0.39
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (14 bp):
ACATATGTGATGAT
Found at i:120017088 original size:2 final size:2
Alignment explanation
Indices: 120017081--120017113 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
120017071 AGTGTATACG
120017081 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
120017114 GATGCTTATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:120022863 original size:50 final size:51
Alignment explanation
Indices: 120022781--120022889 Score: 202
Period size: 50 Copynumber: 2.2 Consensus size: 51
120022771 GACCATGGCA
*
120022781 ACAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
120022832 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
120022882 ACAAGTGA
1 ACAAGTGA
120022890 AAAGAGGTAG
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
50 49 0.88
51 7 0.12
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:120022923 original size:31 final size:31
Alignment explanation
Indices: 120022885--120023002 Score: 182
Period size: 31 Copynumber: 3.8 Consensus size: 31
120022875 ACAAATGACA
* ** *
120022885 AGTGAAAAGAGGTAGCTTTTGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
120022916 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
120022947 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
120022978 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
120023003 AAGTGACAAG
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 80 1.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:120023176 original size:49 final size:48
Alignment explanation
Indices: 120023024--120023227 Score: 218
Period size: 49 Copynumber: 4.3 Consensus size: 48
120023014 GATTTCCGTA
* * * * * * *
120023024 TAAGACCATATCTGGGATATGGCATCG--GTGTGATATATGCTACTGTA
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGAT-TTGTG
* * * * * *
120023071 TAAGACCATATCTGGGATATGACATC-A-GTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTTGTG
120023117 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATT-TGTG
*
120023166 TAAGATCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTT-GTG
*
120023215 TAAGGCCATAGCT
1 TAAGACCATAGCT
120023228 ATAACACCCT
Statistics
Matches: 136, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
46 25 0.18
47 37 0.27
48 14 0.10
49 60 0.44
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTTGTG
Found at i:120025950 original size:46 final size:46
Alignment explanation
Indices: 120025898--120026165 Score: 385
Period size: 46 Copynumber: 5.8 Consensus size: 46
120025888 GCTTTCTGAA
120025898 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
120025944 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
120025990 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * *
120026036 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** * * *
120026082 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGACAACCTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
120026128 A-AAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
120026166 TCTTGTCACA
Statistics
Matches: 202, Mismatches: 20, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
45 30 0.15
46 172 0.85
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:120027021 original size:42 final size:43
Alignment explanation
Indices: 120026969--120027072 Score: 142
Period size: 42 Copynumber: 2.5 Consensus size: 43
120026959 GGGTGTTACA
*
120026969 ATAGCT-GGCTATGGCATCGA-TATATGAATATGTGTAAGACC
1 ATAGCTGGGCTATGGCATCGATTATATGAAGATGTGTAAGACC
*
120027010 ATAGCTGGGCTATGGCATC-ATTATGTGAAGATGTGTAAGACC
1 ATAGCTGGGCTATGGCATCGATTATATGAAGATGTGTAAGACC
* **
120027052 ATAGTTGAACTATGGCATCGA
1 ATAGCTGGGCTATGGCATCGA
120027073 GAAAACGAAG
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 7 0.13
42 47 0.85
43 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (43 bp):
ATAGCTGGGCTATGGCATCGATTATATGAAGATGTGTAAGACC
Found at i:120029467 original size:29 final size:30
Alignment explanation
Indices: 120029414--120029481 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
120029404 TTGATGATTT
* *
120029414 TGAATTATTAGGACTAAATTACAAAA-ATAA
1 TGAATTATAAGGACTAAAATACAAAATA-AA
*
120029444 TGAATTA-AAGGACTAAAATGCAAAATAAA
1 TGAATTATAAGGACTAAAATACAAAATAAA
*
120029473 TGAAATATA
1 TGAATTATA
120029482 TGGATTAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 23 0.72
30 9 0.28
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (30 bp):
TGAATTATAAGGACTAAAATACAAAATAAA
Found at i:120033217 original size:27 final size:28
Alignment explanation
Indices: 120033180--120033317 Score: 171
Period size: 27 Copynumber: 5.1 Consensus size: 28
120033170 AGCATGGCTG
* *
120033180 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
120033206 CCAGATACAGATA-ATCGTGGCAGAGCAA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
120033234 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
120033261 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
120033288 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
120033315 CCA
1 CCA
120033318 AACGCTTCCT
Statistics
Matches: 102, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 5 0.05
27 81 0.79
28 16 0.16
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:120033755 original size:16 final size:15
Alignment explanation
Indices: 120033734--120033763 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
120033724 AAAATACCGA
120033734 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
120033750 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
120033764 CCAATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:120034972 original size:26 final size:26
Alignment explanation
Indices: 120034936--120035071 Score: 211
Period size: 26 Copynumber: 5.2 Consensus size: 26
120034926 CATGAAATTC
120034936 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
120034962 TTATCATGAAACATTTACCTAACCCG
1 TTATCATGAAACATTTACCTAACCCA
*
120034988 TTATCATGAAACATTTACCTAACACA
1 TTATCATGAAACATTTACCTAACCCA
* *
120035014 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
120035040 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
120035066 TTATCA
1 TTATCA
120035072 ATTTGTATCA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 101 0.98
27 2 0.02
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:120036682 original size:25 final size:25
Alignment explanation
Indices: 120036652--120036699 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
120036642 GCACTCTCTC
*
120036652 GAGCCATATAATAGGAAGCTTATGT
1 GAGCCACATAATAGGAAGCTTATGT
*
120036677 GAGCCACATAATGGGAAGCTTAT
1 GAGCCACATAATAGGAAGCTTAT
120036700 CCAGGCTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (25 bp):
GAGCCACATAATAGGAAGCTTATGT
Found at i:120036816 original size:25 final size:24
Alignment explanation
Indices: 120036788--120036846 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
120036778 TTATTAATCA
* *
120036788 GGAAGCTCTGGATAGCCATATATCG
1 GGAAGCTCTAGAGAGCCA-ATATCG
* * *
120036813 GGAAGTTCAAGCGAGCCAATATCG
1 GGAAGCTCTAGAGAGCCAATATCG
120036837 GGAAGCTCTA
1 GGAAGCTCTA
120036847 AGGAGCAATT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
24 14 0.52
25 13 0.48
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.20
Consensus pattern (24 bp):
GGAAGCTCTAGAGAGCCAATATCG
Found at i:120036852 original size:24 final size:25
Alignment explanation
Indices: 120036801--120036852 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
120036791 AGCTCTGGAT
*
120036801 AGCCATATATCGGGAAGTTCAAGCG
1 AGCCATATATCGGGAAGCTCAAGCG
120036826 AGCCA-ATATCGGGAAGCTCTAAG-G
1 AGCCATATATCGGGAAGCTC-AAGCG
120036850 AGC
1 AGC
120036853 AATTGATTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 17 0.68
25 8 0.32
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (25 bp):
AGCCATATATCGGGAAGCTCAAGCG
Found at i:120045266 original size:27 final size:27
Alignment explanation
Indices: 120045236--120045294 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 27
120045226 TACATAAACG
* *
120045236 GGAAGCTCTCTCTTGAGCCATATAATA
1 GGAAGCTCTCACGTGAGCCATATAATA
* *
120045263 GGAAG--CTGACGTGAGCCATATAATG
1 GGAAGCTCTCACGTGAGCCATATAATA
120045288 GGAAGCT
1 GGAAGCT
120045295 TATCCAGGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
25 21 0.81
27 5 0.19
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (27 bp):
GGAAGCTCTCACGTGAGCCATATAATA
Found at i:120045392 original size:25 final size:25
Alignment explanation
Indices: 120045307--120045467 Score: 70
Period size: 24 Copynumber: 6.6 Consensus size: 25
120045297 TCCAGGCTGT
**
120045307 ATAA-CGGGAAGCTCATAAGAGCC-
1 ATAATCGGGAAGCTCCGAAGAGCCA
** **
120045330 ATAATTAGGAAGCT-CGTGTGAGCCA
1 ATAATCGGGAAGCTCCG-AAGAGCCA
*
120045355 ATAA-CGGGTAGCTCCGAAGAGCCA
1 ATAATCGGGAAGCTCCGAAGAGCCA
* * *
120045379 TTAATCGGGAAGCT-CTAGATAGCC-
1 ATAATCGGGAAGCTCCGA-AGAGCCA
* *
120045403 ATATATTGGGAAG-TTC-AAGCGAGCCA
1 ATA-ATCGGGAAGCTCCGAA--GAGCCA
*
120045429 AT-ATCGGGAAGCTCCGAGGAGCCA
1 ATAATCGGGAAGCTCCGAAGAGCCA
* **
120045453 TTAATTAGGAAGCTC
1 ATAATCGGGAAGCTC
120045468 ATAAAGATTC
Statistics
Matches: 100, Mismatches: 24, Indels: 26
0.67 0.16 0.17
Matches are distributed among these distances:
23 5 0.05
24 48 0.48
25 44 0.44
26 3 0.03
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (25 bp):
ATAATCGGGAAGCTCCGAAGAGCCA
Found at i:120045415 original size:74 final size:73
Alignment explanation
Indices: 120045311--120045471 Score: 198
Period size: 74 Copynumber: 2.2 Consensus size: 73
120045301 GGCTGTATAA
** * *
120045311 CGGGAAGCTCATAAGAGCCATAATTAGGAAGCTCGTGTGAGCCAATAACGGGTAGCTCCGAAGAG
1 CGGGAAGCTCATAAGAGCCATAATTAGGAAGCTCAAGCGAGCCAATAACGGGAAGCTCCGAAGAG
120045376 CCATTAAT
66 CCATTAAT
* * * * *
120045384 CGGGAAGCTC-TAGATAGCCATATATTGGGAAGTTCAAGCGAGCCAATATCGGGAAGCTCCGAGG
1 CGGGAAGCTCATA-AGAGCCATA-ATTAGGAAGCTCAAGCGAGCCAATAACGGGAAGCTCCGAAG
120045448 AGCCATTAAT
64 AGCCATTAAT
**
120045458 TAGGAAGCTCATAA
1 CGGGAAGCTCATAA
120045472 AGATTCTTTA
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
72 2 0.03
73 18 0.24
74 52 0.70
75 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (73 bp):
CGGGAAGCTCATAAGAGCCATAATTAGGAAGCTCAAGCGAGCCAATAACGGGAAGCTCCGAAGAG
CCATTAAT
Found at i:120045450 original size:24 final size:25
Alignment explanation
Indices: 120045349--120045452 Score: 81
Period size: 25 Copynumber: 4.2 Consensus size: 25
120045339 AAGCTCGTGT
* *
120045349 GAGCCAATAACGGGTAGCTCCGA-A
1 GAGCCAATATCGGGAAGCTCCGAGA
* *
120045373 GAGCCATTAATCGGGAAGCT-CTAGA
1 GAGCCAAT-ATCGGGAAGCTCCGAGA
* * * * *
120045398 TAGCCATATATTGGGAAG-TTCAAGC
1 GAGCCA-ATATCGGGAAGCTCCGAGA
120045423 GAGCCAATATCGGGAAGCTCCGAG-
1 GAGCCAATATCGGGAAGCTCCGAGA
120045447 GAGCCA
1 GAGCCA
120045453 TTAATTAGGA
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
24 26 0.42
25 35 0.56
26 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.29, T:0.17
Consensus pattern (25 bp):
GAGCCAATATCGGGAAGCTCCGAGA
Found at i:120047458 original size:11 final size:11
Alignment explanation
Indices: 120047442--120047467 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
120047432 GATTAGCTAG
120047442 ATTAAATTACT
1 ATTAAATTACT
120047453 ATTAAATTACT
1 ATTAAATTACT
120047464 ATTA
1 ATTA
120047468 TCTTAAAAAC
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTAAATTACT
Found at i:120047488 original size:2 final size:2
Alignment explanation
Indices: 120047481--120047531 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
120047471 TAAAAACATA
120047481 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
120047523 AT AT AT AT A
1 AT AT AT AT A
120047532 AAACACATAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:120047651 original size:9 final size:9
Alignment explanation
Indices: 120047632--120047663 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
120047622 ATGGTTCTCT
120047632 TTTTGTTTTA
1 TTTT-TTTTA
120047642 TTTTTTTTA
1 TTTTTTTTA
120047651 TTTTTTTTA
1 TTTTTTTTA
120047660 TTTT
1 TTTT
120047664 AACATATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 18 0.82
10 4 0.18
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.88
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:120048319 original size:14 final size:13
Alignment explanation
Indices: 120048286--120048320 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
120048276 TTGTTATTTG
120048286 AAAATT-TTTTCT
1 AAAATTATTTTCT
120048298 AAAATTATTTTCT
1 AAAATTATTTTCT
120048311 AAAAGTTATT
1 AAAA-TTATT
120048321 ATTTGTGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 5 0.24
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (13 bp):
AAAATTATTTTCT
Found at i:120048450 original size:25 final size:28
Alignment explanation
Indices: 120048422--120048478 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
120048412 TAATATTTTG
* *
120048422 TAATAATCAAT-AT-CAT-ATGTAAACT
1 TAATAATAAATAATGCATAATGAAAACT
120048447 TAATAATAAATAATGCATAATGAAAACT
1 TAATAATAAATAATGCATAATGAAAACT
120048475 TAAT
1 TAAT
120048479 TTAAATTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 10 0.37
26 2 0.07
27 3 0.11
28 12 0.44
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (28 bp):
TAATAATAAATAATGCATAATGAAAACT
Found at i:120049256 original size:38 final size:38
Alignment explanation
Indices: 120049212--120049286 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
120049202 AATATGTATG
*
120049212 TTTAATA-ATATTAAAAATTACAATATTT-TTATTAATAT
1 TTTAATATAT-TTAAAAATTAAAAT-TTTATTATTAATAT
*
120049250 TTTAATATATTTTAAAATTAAAATTTTATTATTAATA
1 TTTAATATATTTAAAAATTAAAATTTTATTATTAATA
120049287 GAATGATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 3 0.09
38 28 0.85
39 2 0.06
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (38 bp):
TTTAATATATTTAAAAATTAAAATTTTATTATTAATAT
Found at i:120049507 original size:22 final size:22
Alignment explanation
Indices: 120049480--120049525 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
120049470 AAATCCAGGA
120049480 AAATAAAAAATCAAAATCAATT
1 AAATAAAAAATCAAAATCAATT
** * *
120049502 AAATAATTAATTAAAATTAATT
1 AAATAAAAAATCAAAATCAATT
120049524 AA
1 AA
120049526 TTTAATCTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (22 bp):
AAATAAAAAATCAAAATCAATT
Found at i:120052118 original size:15 final size:16
Alignment explanation
Indices: 120052098--120052136 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
120052088 GAATAATGAC
*
120052098 TCTAAATAC-ATTTGT
1 TCTAAATACAAGTTGT
120052113 TCTAAATACAAGTTGT
1 TCTAAATACAAGTTGT
*
120052129 TCCAAATA
1 TCTAAATA
120052137 ATAATTGGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (16 bp):
TCTAAATACAAGTTGT
Found at i:120053505 original size:2 final size:2
Alignment explanation
Indices: 120053498--120053533 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
120053488 GAGTGACGAA
120053498 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
120053534 TAGTATGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:120056576 original size:21 final size:21
Alignment explanation
Indices: 120056552--120056608 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
120056542 TGAAGTAAGT
120056552 ATTTTAACTCGATTGTAAAGC
1 ATTTTAACTCGATTGTAAAGC
120056573 ATTTTAACTCGATTGTAAAGC
1 ATTTTAACTCGATTGTAAAGC
120056594 ATTTTAACTCGATTG
1 ATTTTAACTCGATTG
120056609 GCAGTGACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (21 bp):
ATTTTAACTCGATTGTAAAGC
Found at i:120060290 original size:20 final size:20
Alignment explanation
Indices: 120060249--120060306 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
120060239 ATGTGGTTTA
*
120060249 TAAAATTTTAA--AAA-TAT
1 TAAAATTTTAAGTAAATTTT
*
120060266 TAAAATTTCTAA-TATATTTT
1 TAAAATTT-TAAGTAAATTTT
120060286 TAAAATTTTAAGTAAATTTT
1 TAAAATTTTAAGTAAATTTT
120060306 T
1 T
120060307 TTATTTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 8 0.24
18 3 0.09
19 5 0.15
20 18 0.53
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
TAAAATTTTAAGTAAATTTT
Found at i:120060366 original size:20 final size:18
Alignment explanation
Indices: 120060301--120060367 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 18
120060291 TTTTAAGTAA
*
120060301 ATTTTTTTATTTTTATATT
1 ATTTTTTTATTTTTA-AAT
120060320 ATTTTTTATAATTTTTAAAT
1 ATTTTTT-T-ATTTTTAAAT
120060340 ACTTTTTTTATCTTTTAAAT
1 A-TTTTTTTAT-TTTTAAAT
120060360 ATGTTTTT
1 AT-TTTTT
120060368 GGAATTTCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
19 10 0.24
20 19 0.45
21 13 0.31
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.70
Consensus pattern (18 bp):
ATTTTTTTATTTTTAAAT
Found at i:120060367 original size:41 final size:40
Alignment explanation
Indices: 120060275--120060367 Score: 100
Period size: 41 Copynumber: 2.3 Consensus size: 40
120060265 TTAAAATTTC
*
120060275 TAATATATTTTTAAAATTTTAAGTAAATTTTTTTATTTTTA
1 TAATAT-TTTTTAAAATTTTAAATAAATTTTTTTATTTTTA
* * *
120060316 TATTATTTTTTATAATTTTTAAAT-ACTTTTTTTATCTTTTA
1 TAATATTTTTTA-AAATTTTAAATAAATTTTTTTAT-TTTTA
120060357 -AATATGTTTTT
1 TAATAT-TTTTT
120060368 GGAATTTCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
40 20 0.45
41 24 0.55
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (40 bp):
TAATATTTTTTAAAATTTTAAATAAATTTTTTTATTTTTA
Found at i:120063462 original size:17 final size:18
Alignment explanation
Indices: 120063426--120063463 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
120063416 GGTTTAATAA
*
120063426 TAATATCCTTTAATTACAT
1 TAATATCCTTT-AGTACAT
120063445 TAATATCCTTT-GTACAT
1 TAATATCCTTTAGTACAT
120063462 TA
1 TA
120063464 TCCTCAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
19 11 0.61
ACGTcount: A:0.34, C:0.16, G:0.03, T:0.47
Consensus pattern (18 bp):
TAATATCCTTTAGTACAT
Found at i:120064996 original size:92 final size:92
Alignment explanation
Indices: 120064828--120065320 Score: 612
Period size: 92 Copynumber: 5.4 Consensus size: 92
120064818 ATCCATACAT
* * * * * * ** *
120064828 TAACATGCCAGTTTGCCCATAAAAGCAATTCCAACCGAGAATATGCCAGATGCACATTGTGCAAA
1 TAACACGCCAGATTGCTCATAAGAGCTATTCCAACCGAGAACATGTTAGATGCACATAGTGCAAA
*
120064893 GCCCGTAGGCTAAATATTCTCTCCCGA
66 GCCCGTAGGCTAAATATTCTCCCCCGA
* * * * * * * *
120064920 TAACACGTCAGGTTGCTCATAAGAGCTATTCTAATCAATAACATGCTAGATGCGCATAGTGCAAA
1 TAACACGCCAGATTGCTCATAAGAGCTATTCCAACCGAGAACATGTTAGATGCACATAGTGCAAA
120064985 GCCCGTAGGCTAAATATTCTCCCCCGA
66 GCCCGTAGGCTAAATATTCTCCCCCGA
* * * *
120065012 TAACATGCCAGATTACTCATAAGAGCTATTCCAACCGAGAACACGTTAGATGCACATAGTACAAA
1 TAACACGCCAGATTGCTCATAAGAGCTATTCCAACCGAGAACATGTTAGATGCACATAGTGCAAA
120065077 GCCCGTAGGCTAAATATTCTCCCCCGA
66 GCCCGTAGGCTAAATATTCTCCCCCGA
*
120065104 TAACACACCAGATTGCTCATAAGAGCTATTCCAACCGAGAACATGTTAGATGCACATAGTGCAAA
1 TAACACGCCAGATTGCTCATAAGAGCTATTCCAACCGAGAACATGTTAGATGCACATAGTGCAAA
**
120065169 GCCTATAGGCTAAATATTCTCCCCCGA
66 GCCCGTAGGCTAAATATTCTCCCCCGA
* * * ** * *
120065196 TAATACACTAGATTGCTCATAAGATTTATTCCAACCGAGAACACGTTAGATGCACAT-GTGTAGA
1 TAACACGCCAGATTGCTCATAAGAGCTATTCCAACCGAGAACATGTTAGATGCACATAGTGCA-A
* *
120065260 A-CCCGTAAGCTAAATATTCTCCCCTGA
65 AGCCCGTAGGCTAAATATTCTCCCCCGA
* * * * *
120065287 TAACATGCCAAATTACTCATAAAAGTTATTCCAA
1 TAACACGCCAGATTGCTCATAAGAGCTATTCCAA
120065321 TCGAAGACAC
Statistics
Matches: 348, Mismatches: 52, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
91 52 0.15
92 296 0.85
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (92 bp):
TAACACGCCAGATTGCTCATAAGAGCTATTCCAACCGAGAACATGTTAGATGCACATAGTGCAAA
GCCCGTAGGCTAAATATTCTCCCCCGA
Found at i:120072935 original size:23 final size:22
Alignment explanation
Indices: 120072909--120072952 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
120072899 AAATTTATAA
120072909 TTATAATTTTTTATAACTTTTTT
1 TTATAATTTTTTATAA-TTTTTT
120072932 TTATAATTTTTTATAATTTTT
1 TTATAATTTTTTATAATTTTT
120072953 ATGGTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (22 bp):
TTATAATTTTTTATAATTTTTT
Found at i:120072954 original size:9 final size:10
Alignment explanation
Indices: 120072909--120072952 Score: 61
Period size: 10 Copynumber: 4.1 Consensus size: 10
120072899 AAATTTATAA
120072909 TTATAATTTT
1 TTATAATTTT
120072919 TTATAACTTTTTT
1 TTATAA---TTTT
120072932 TTATAATTTT
1 TTATAATTTT
120072942 TTATAATTTT
1 TTATAATTTT
120072952 T
1 T
120072953 ATGGTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 21 0.68
13 10 0.32
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (10 bp):
TTATAATTTT
Found at i:120078970 original size:20 final size:20
Alignment explanation
Indices: 120078947--120078986 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
120078937 AGAAAAAACT
120078947 TATAAATGAAAATTCAAAAA
1 TATAAATGAAAATTCAAAAA
**
120078967 TATATTTGAAAATTCAAAAA
1 TATAAATGAAAATTCAAAAA
120078987 ATTACAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (20 bp):
TATAAATGAAAATTCAAAAA
Found at i:120080898 original size:11 final size:11
Alignment explanation
Indices: 120080884--120080923 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
120080874 TTTTTCTCCT
120080884 TATTTTGCTAC
1 TATTTTGCTAC
* *
120080895 TATTTTACTAT
1 TATTTTGCTAC
*
120080906 TATGTTGCTAC
1 TATTTTGCTAC
120080917 TATTTTG
1 TATTTTG
120080924 TTGTTATTGT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.57
Consensus pattern (11 bp):
TATTTTGCTAC
Found at i:120082295 original size:35 final size:35
Alignment explanation
Indices: 120082256--120082344 Score: 115
Period size: 35 Copynumber: 2.5 Consensus size: 35
120082246 CATGGAAAAT
120082256 TTGTGAAACGTAGGTATGGTATCATCCATACTAAG
1 TTGTGAAACGTAGGTATGGTATCATCCATACTAAG
* * * *
120082291 TTGTGAAATGTAAGTATGGTATTATCCATACTGAG
1 TTGTGAAACGTAGGTATGGTATCATCCATACTAAG
** *
120082326 TTAAGAAACATAGGTATGG
1 TTGTGAAACGTAGGTATGG
120082345 CATTTCCCAT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.33
Consensus pattern (35 bp):
TTGTGAAACGTAGGTATGGTATCATCCATACTAAG
Found at i:120084552 original size:12 final size:14
Alignment explanation
Indices: 120084517--120084554 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
120084507 TCTGTTGTAC
120084517 TTATAAAATAATGT
1 TTATAAAATAATGT
120084531 TTATAAAATAATG-
1 TTATAAAATAATGT
120084544 TTA-AAAATAAT
1 TTATAAAATAAT
120084555 AATAATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 8 0.33
13 3 0.12
14 13 0.54
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (14 bp):
TTATAAAATAATGT
Found at i:120089412 original size:17 final size:17
Alignment explanation
Indices: 120089377--120089429 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
120089367 GATAAAATGT
**
120089377 ATATAATATATAA-AAA
1 ATATAATATGGAATAAA
* *
120089393 ATATCATATGGAGTAAA
1 ATATAATATGGAATAAA
*
120089410 ATATAATATGTAATAAA
1 ATATAATATGGAATAAA
120089427 ATA
1 ATA
120089430 ATATGAAAAC
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 9 0.31
17 20 0.69
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (17 bp):
ATATAATATGGAATAAA
Found at i:120102177 original size:126 final size:126
Alignment explanation
Indices: 120102019--120102253 Score: 389
Period size: 126 Copynumber: 1.9 Consensus size: 126
120102009 GTTTTAGCCT
* *
120102019 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATCCGAATATTCAAAACAAACAAAAAAAGCGAAACCCAGTACGTTAGGGCACGATT
* * * * *
120102084 CTTCGAATTCTTTGAATACCGACCATTACTTTTATTTTGAAAATTTTTTAGAGTGAATTGG
66 CTTCGAAGTCTTTAAATACCGAACATTACTATTATTTTAAAAATTTTTTAGAGTGAATTGG
*
120102145 TAAGAGGATATCCGAATATTCAAGACAAACAAAAAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATCCGAATATTCAAAACAAACAAAAAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
120102210 CTTCGAAGTCTTTAAATACCGAACATTGCTATTATTTTAAAAAT
66 CTTCGAAGTCTTTAAATACCGAACATTACTATTATTTTAAAAAT
120102254 AATTGAGAAT
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 100 1.00
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.29
Consensus pattern (126 bp):
TAAGAGGATATCCGAATATTCAAAACAAACAAAAAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCGAAGTCTTTAAATACCGAACATTACTATTATTTTAAAAATTTTTTAGAGTGAATTGG
Found at i:120102436 original size:13 final size:13
Alignment explanation
Indices: 120102418--120102458 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
120102408 ATAAATAATA
120102418 AAATGGTAGTGGT
1 AAATGGTAGTGGT
120102431 AAATGGTAGTGGT
1 AAATGGTAGTGGT
*
120102444 AAATGGCAGTGGT
1 AAATGGTAGTGGT
120102457 AA
1 AA
120102459 CATGTTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.34, C:0.02, G:0.37, T:0.27
Consensus pattern (13 bp):
AAATGGTAGTGGT
Found at i:120102646 original size:2 final size:2
Alignment explanation
Indices: 120102636--120102673 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
120102626 ATATATGAAA
120102636 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
120102674 GATAAAGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:120102851 original size:18 final size:18
Alignment explanation
Indices: 120102828--120102869 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
120102818 ATAATGCTAC
*
120102828 AATAACCA-TAAACATAGT
1 AATAACCATTAAA-ATAAT
*
120102846 AATAACGATTAAAATAAT
1 AATAACCATTAAAATAAT
120102864 AATAAC
1 AATAAC
120102870 AACAACAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.24
Consensus pattern (18 bp):
AATAACCATTAAAATAAT
Found at i:120102894 original size:3 final size:3
Alignment explanation
Indices: 120102888--120103055 Score: 101
Period size: 3 Copynumber: 55.7 Consensus size: 3
120102878 AATAGAAGAC
* * * * *
120102888 AAT AAT AAA AAT -AT ATT AAT AAA AAT AAT AAT -AT AAA AAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** ** *
120102934 AAT AAA AAT -AT GTT TCT AAT AAT AAT AAT AAAT CAAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT
* * * *
120102980 AAAT ATAT ACAA AAT AAT AGT AAC AGT AAT AA- AAT AAT AAT AAT AAT
1 -AAT A-AT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
120103027 ATT AAT AAT AAT AAT AAT ATT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
120103056 CACTCTCCCC
Statistics
Matches: 123, Mismatches: 35, Indels: 14
0.72 0.20 0.08
Matches are distributed among these distances:
2 8 0.07
3 101 0.82
4 14 0.11
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:120102909 original size:14 final size:14
Alignment explanation
Indices: 120102891--120102944 Score: 65
Period size: 14 Copynumber: 3.8 Consensus size: 14
120102881 AGAAGACAAT
*
120102891 AATAAAAATATATT
1 AATAAAAATATATA
120102905 AATAAAAATA-ATA
1 AATAAAAATATATA
*
120102918 ATATAAAAATAATAAA
1 A-ATAAAAAT-ATATA
120102934 AATAAAAATAT
1 AATAAAAATAT
120102945 GTTTCTAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 3 0.09
14 20 0.57
15 9 0.26
16 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AATAAAAATATATA
Found at i:120102915 original size:23 final size:23
Alignment explanation
Indices: 120102888--120102965 Score: 63
Period size: 23 Copynumber: 3.4 Consensus size: 23
120102878 AATAGAAGAC
120102888 AATAATAAAAATATATTAATAAA
1 AATAATAAAAATATATTAATAAA
*
120102911 AATAATAATATAA-A-AATAATAAA
1 AATAATAA-A-AATATATTAATAAA
* * * *
120102934 AATAA-AAATATGTTTCTAATAAT
1 AATAATAAAAATATAT-TAATAAA
120102957 AATAATAAA
1 AATAATAAA
120102966 TCAATAATGA
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 2 0.05
23 32 0.74
24 5 0.12
25 2 0.05
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (23 bp):
AATAATAAAAATATATTAATAAA
Found at i:120102972 original size:43 final size:43
Alignment explanation
Indices: 120102891--120103055 Score: 117
Period size: 43 Copynumber: 3.9 Consensus size: 43
120102881 AGAAGACAAT
120102891 AATAAAAATATATTAATAAAAATAATAATATAAAAATAATAAA
1 AATAAAAATATATTAATAAAAATAATAATATAAAAATAATAAA
* ** * * * *
120102934 AATAAAAATATGTTTCTAATAATAATAATA-AATCAATAATGAT
1 AATAAAAATATATTAATAAAAATAATAATATAA-AAATAATAAA
* * * * * * *
120102977 AATAAATATATA-CAA-AATAATAGTAACAGTAATAA-AATAAT
1 AATAAAAATATATTAATAAAAATAATAATA-TAAAAATAATAAA
* *
120103018 AAT-AATA-ATATTAATAATAATAATAATATTAAAAATAA
1 AATAAAAATATATTAATAAAAATAATAATA-TAAAAATAA
120103056 CACTCTCCCC
Statistics
Matches: 95, Mismatches: 21, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
39 3 0.03
40 6 0.06
41 35 0.37
42 6 0.06
43 45 0.47
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (43 bp):
AATAAAAATATATTAATAAAAATAATAATATAAAAATAATAAA
Found at i:120103466 original size:17 final size:17
Alignment explanation
Indices: 120103417--120103473 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
120103407 TTTGTAGGCA
*
120103417 AGTGGGGTGATGGAGAT
1 AGTGGGGTGATGGAGTT
*
120103434 AGT---G-GATGG-TTT
1 AGTGGGGTGATGGAGTT
120103446 AGTGGGGTGATGGAGTT
1 AGTGGGGTGATGGAGTT
120103463 AGTGGGGTGAT
1 AGTGGGGTGAT
120103474 TTAGTAGGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
12 4 0.12
13 5 0.16
14 1 0.03
15 1 0.03
16 5 0.16
17 16 0.50
ACGTcount: A:0.19, C:0.00, G:0.51, T:0.30
Consensus pattern (17 bp):
AGTGGGGTGATGGAGTT
Found at i:120106708 original size:30 final size:31
Alignment explanation
Indices: 120106650--120106722 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 31
120106640 ATTAGTAAAG
* *
120106650 ATAAAAATATACTTTGACCCTCTTAAAAATA
1 ATAAAAATATAATTTAACCCTCTTAAAAATA
* *
120106681 ATAAAAATATAATTTAATCCT-TTAAAAATT
1 ATAAAAATATAATTTAACCCTCTTAAAAATA
*
120106711 ATAAAGATATAA
1 ATAAAAATATAA
120106723 ACAATTTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 19 0.51
31 18 0.49
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.34
Consensus pattern (31 bp):
ATAAAAATATAATTTAACCCTCTTAAAAATA
Found at i:120116167 original size:21 final size:22
Alignment explanation
Indices: 120116143--120116183 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
120116133 TGTCTCATAG
120116143 CCACACAAGCGTGT-ACCCTGT
1 CCACACAAGCGTGTGACCCTGT
**
120116164 CCACACGGGCGTGTGACCCT
1 CCACACAAGCGTGTGACCCT
120116184 TGTACTTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.20, C:0.39, G:0.24, T:0.17
Consensus pattern (22 bp):
CCACACAAGCGTGTGACCCTGT
Found at i:120116249 original size:37 final size:36
Alignment explanation
Indices: 120116199--120116269 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 36
120116189 TTTGAAAAGA
*
120116199 AAATTTTATGTTTCTTAAAAATTCGTAAAGAACTCG
1 AAATTTTATGTTTCTTAAAAATTCATAAAGAACTCG
*
120116235 AAATTTTCATGTTTCTTAAAAATTCATAGAGAACT
1 AAATTTT-ATGTTTCTTAAAAATTCATAAAGAACT
120116270 GGATTTAGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 7 0.22
37 25 0.78
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.39
Consensus pattern (36 bp):
AAATTTTATGTTTCTTAAAAATTCATAAAGAACTCG
Found at i:120118450 original size:26 final size:26
Alignment explanation
Indices: 120118421--120118528 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
120118411 TGGTACAAAT
*
120118421 TGATAATGGGTTAAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
120118447 TGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
120118473 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
120118499 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
120118525 TGAT
1 TGAT
120118529 GGCCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:120121561 original size:34 final size:35
Alignment explanation
Indices: 120121523--120121600 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
120121513 CAAACATTAG
*
120121523 ACAGATACAAATTAAGGC-TAAGCCCAT-TATAGAT
1 ACAGATACAAATTAAGGCTTAAGCCCATCT-CAGAT
* * **
120121557 ACAGATGCAGATTCGGGCTTAAGCCCATCTCAGAT
1 ACAGATACAAATTAAGGCTTAAGCCCATCTCAGAT
120121592 ACAGATACA
1 ACAGATACA
120121601 GAAGTACAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
34 14 0.39
35 21 0.58
36 1 0.03
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (35 bp):
ACAGATACAAATTAAGGCTTAAGCCCATCTCAGAT
Found at i:120126966 original size:18 final size:17
Alignment explanation
Indices: 120126945--120126988 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
120126935 AAATAAGAAC
*
120126945 AAATGAAAAAAAGAGTGA
1 AAATGAAAAAAAG-GAGA
*
120126963 AAATGAAATAAAGGAGA
1 AAATGAAAAAAAGGAGA
*
120126980 ATATGAAAA
1 AAATGAAAA
120126989 TTAGAAAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.66, C:0.00, G:0.20, T:0.14
Consensus pattern (17 bp):
AAATGAAAAAAAGGAGA
Found at i:120128353 original size:30 final size:30
Alignment explanation
Indices: 120128317--120128386 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
120128307 ATTATACATG
120128317 AACTTTAATT-TGATGT-AATTATACATATGA
1 AACTTTAATTGTGAT-TAAATT-TACATATGA
* *
120128347 AACTTTAATTGTGGTTCAAATTTATATATGA
1 AACTTTAATTGTGATT-AAATTTACATATGA
120128378 AACTTTAAT
1 AACTTTAAT
120128387 CTTGGTTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 11 0.31
31 20 0.57
32 4 0.11
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (30 bp):
AACTTTAATTGTGATTAAATTTACATATGA
Found at i:120130262 original size:2 final size:2
Alignment explanation
Indices: 120130255--120130281 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
120130245 TGACAATGAA
120130255 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
120130282 AAGACAGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:120130491 original size:16 final size:16
Alignment explanation
Indices: 120130472--120130523 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 16
120130462 TTTCAACAAA
120130472 ATAAAAATTTATTACC
1 ATAAAAATTTATTACC
* * *
120130488 ATAAAAATTAAAT-GC
1 ATAAAAATTTATTACC
*
120130503 ATACAAATTTATTACC
1 ATAAAAATTTATTACC
120130519 A-AAAA
1 ATAAAA
120130524 TAAAACGTAT
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
15 14 0.52
16 13 0.48
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.31
Consensus pattern (16 bp):
ATAAAAATTTATTACC
Found at i:120130534 original size:19 final size:19
Alignment explanation
Indices: 120130512--120130562 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
120130502 CATACAAATT
*
120130512 TATTACCAAAAATAAAACG
1 TATTACCAAAAAGAAAACG
* *
120130531 TATTTCCAAAAAGAAAACT
1 TATTACCAAAAAGAAAACG
*
120130550 TATTACCATAAAG
1 TATTACCAAAAAG
120130563 TTTTTTACGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.53, C:0.16, G:0.06, T:0.25
Consensus pattern (19 bp):
TATTACCAAAAAGAAAACG
Found at i:120138599 original size:30 final size:31
Alignment explanation
Indices: 120138548--120138606 Score: 111
Period size: 30 Copynumber: 1.9 Consensus size: 31
120138538 CTTACCATGC
120138548 CCATCATCCATTAACTATTAAAATGCTAATG
1 CCATCATCCATTAACTATTAAAATGCTAATG
120138579 CCATCATCCATTAA-TATTAAAATGCTAA
1 CCATCATCCATTAACTATTAAAATGCTAA
120138607 AATGCATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 14 0.50
31 14 0.50
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (31 bp):
CCATCATCCATTAACTATTAAAATGCTAATG
Found at i:120143379 original size:12 final size:12
Alignment explanation
Indices: 120143362--120143392 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
120143352 AGTACTACCT
*
120143362 CGGCCTCGACCA
1 CGGCCTCGAACA
120143374 CGGCCTCGAACA
1 CGGCCTCGAACA
120143386 CGGCCTC
1 CGGCCTC
120143393 TTCCCCGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.48, G:0.26, T:0.10
Consensus pattern (12 bp):
CGGCCTCGAACA
Found at i:120145030 original size:24 final size:26
Alignment explanation
Indices: 120144994--120145042 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
120144984 TCAAACATGC
120144994 ATTTAGGTCAATTTAAC-CCTAGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGT
* *
120145019 ATTTCGGT-AATTTATCTCCTAGGG
1 ATTTAGGTCAATTTAACTCCTAGGG
120145043 GTAAAACTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACTCCTAGGGT
Found at i:120146562 original size:32 final size:32
Alignment explanation
Indices: 120146525--120146585 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
120146515 CTTACCATGC
120146525 CCATCATCCATTAACTATTAAAATGCTAATGG
1 CCATCATCCATTAACTATTAAAATGCTAATGG
120146557 CCATCATCCATTAACTATTAAAATGCTAA
1 CCATCATCCATTAACTATTAAAATGCTAA
120146586 AATGCATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.31
Consensus pattern (32 bp):
CCATCATCCATTAACTATTAAAATGCTAATGG
Found at i:120147643 original size:26 final size:26
Alignment explanation
Indices: 120147614--120147674 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
120147604 AAACGAAAAC
*
120147614 AAAATAAAT-ATGAAATTCAAGA-ATAA
1 AAAATAAATAATG--ATTCAAAACATAA
120147640 AAAATAAATAATGATTCAAAACATAA
1 AAAATAAATAATGATTCAAAACATAA
120147666 ATAAATAAA
1 A-AAATAAA
120147675 GAAAATGCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
25 7 0.23
26 14 0.45
27 10 0.32
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (26 bp):
AAAATAAATAATGATTCAAAACATAA
Found at i:120150069 original size:19 final size:19
Alignment explanation
Indices: 120150031--120150070 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
120150021 GAGACATTTT
*
120150031 ATTCTTAAAAACTTTGAAA
1 ATTCTTAAAAAATTTGAAA
120150050 ATTCTTAAAAAAATTT-AAA
1 ATTCTT-AAAAAATTTGAAA
120150069 AT
1 AT
120150071 ATAGAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.38
Consensus pattern (19 bp):
ATTCTTAAAAAATTTGAAA
Found at i:120150353 original size:19 final size:19
Alignment explanation
Indices: 120150329--120150379 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
120150319 ATTTTTAAGA
120150329 TTTTCTTTTACATTTTT-CT
1 TTTTCTTTTA-ATTTTTACT
120150348 TTTTCTTTTGAATTTTTAGCT
1 TTTTCTTTT-AATTTTTA-CT
*
120150369 TTTTTTTTTAA
1 TTTTCTTTTAA
120150380 AATATTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 15 0.54
20 3 0.11
21 10 0.36
ACGTcount: A:0.14, C:0.10, G:0.04, T:0.73
Consensus pattern (19 bp):
TTTTCTTTTAATTTTTACT
Found at i:120152507 original size:50 final size:50
Alignment explanation
Indices: 120152432--120152556 Score: 223
Period size: 50 Copynumber: 2.5 Consensus size: 50
120152422 TATGGCAACC
* *
120152432 AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGAA
1 AGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAGTGAA
*
120152482 AGTGATAAGTGATAGCTTCAGCTACACTTATCTAATCAAGGACAAGTGAA
1 AGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAGTGAA
120152532 AGTGATAAGTGATAGCTTCGGCTAC
1 AGTGATAAGTGATAGCTTCGGCTAC
120152557 CTGATCAGTG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.27
Consensus pattern (50 bp):
AGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAGTGAA
Found at i:120152573 original size:31 final size:31
Alignment explanation
Indices: 120152532--120152711 Score: 261
Period size: 31 Copynumber: 5.8 Consensus size: 31
120152522 GACAAGTGAA
* *
120152532 AGTGATAAGTGATAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
120152563 AGTGAAAAGTGGTAGCTTCGGCTATCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
120152594 AGTAAAAAGTGGTAGCTTCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
120152625 GGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
120152656 AGTGAAAAATGGCAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
120152687 AGTGAATAGTGATAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
120152712 AAGTGACAAG
Statistics
Matches: 131, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 131 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:120152573 original size:44 final size:46
Alignment explanation
Indices: 120152432--120152573 Score: 130
Period size: 50 Copynumber: 3.0 Consensus size: 46
120152422 TATGGCAACC
*
120152432 AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAG-GATAAGTGAA
1 AGTGATAAGTGATAGCTTCGGCT--AC---TCTGATCAAGTGAAAAGTGAA
* * *
120152482 AGTGATAAGTGATAGCTTCAGCTACACTTATCTAATCAAG-GACAAGTGAA
1 AGTGATAAGTGATAGCTTCGGCT--AC---TCTGATCAAGTGAAAAGTGAA
120152532 AGTGATAAGTGATAGCTTCGGCTAC-CTGATC-AGTGAAAAGTG
1 AGTGATAAGTGATAGCTTCGGCTACTCTGATCAAGTGAAAAGTG
120152574 GTAGCTTCGG
Statistics
Matches: 85, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
43 2 0.02
44 12 0.14
48 2 0.02
50 69 0.81
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.27
Consensus pattern (46 bp):
AGTGATAAGTGATAGCTTCGGCTACTCTGATCAAGTGAAAAGTGAA
Found at i:120152937 original size:49 final size:49
Alignment explanation
Indices: 120152780--120152999 Score: 266
Period size: 48 Copynumber: 4.7 Consensus size: 49
120152770 TGCTACTGTA
* * * * *
120152780 TAAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACATG
* *
120152826 TAAGACCATAGCTGGGCTATCGCATCGATATGTGATATGT-AATACATG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACATG
*
120152874 TAAGACCATAGCTGGGTTATGGCATCGATATGTGATATGTGATTACATG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACATG
*
120152923 TAAGACCATAGCTGGGCTATGGCATCGATATGTGA-A--T-A-T--GTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACATG
120152965 TAAGACCATAGCTGGGCTATGGCATC-ATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATGTGA
120153000 AGATGTGTAA
Statistics
Matches: 157, Mismatches: 12, Indels: 14
0.86 0.07 0.08
Matches are distributed among these distances:
41 1 0.01
42 35 0.22
44 1 0.01
45 1 0.01
46 24 0.15
47 3 0.02
48 51 0.32
49 41 0.26
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (49 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACATG
Found at i:120152967 original size:42 final size:42
Alignment explanation
Indices: 120152907--120153017 Score: 170
Period size: 42 Copynumber: 2.6 Consensus size: 42
120152897 ATCGATATGT
* **
120152907 GATATGTGATTACATGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
120152949 GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
*
120152991 -ATTATGTGAAGATGTGTAAGACCATAG
1 GA-TATGTGAATATGTGTAAGACCATAG
120153018 TTGAACTACG
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
41 1 0.02
42 63 0.98
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (42 bp):
GATATGTGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
Found at i:120157544 original size:20 final size:20
Alignment explanation
Indices: 120157506--120157546 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
120157496 TAAATTGTAA
* **
120157506 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
120157526 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
120157546 A
1 A
120157547 GAATAAAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:120164440 original size:20 final size:20
Alignment explanation
Indices: 120164402--120164442 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
120164392 TAAATTGTAA
* **
120164402 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
120164422 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
120164442 A
1 A
120164443 GAATAAAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:120167198 original size:2 final size:2
Alignment explanation
Indices: 120167191--120167223 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
120167181 ACATGCGTAA
120167191 AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
120167224 TAGTGAATCT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:120167862 original size:13 final size:13
Alignment explanation
Indices: 120167846--120167911 Score: 64
Period size: 13 Copynumber: 5.1 Consensus size: 13
120167836 TTTAAATTAA
120167846 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
120167859 ACTTCTT-AAAAGC
1 ACTT-TTCAAAAGC
*
120167872 ACTTTTCCATAA-C
1 ACTTTT-CAAAAGC
* *
120167885 AATTTTCAAAAGT
1 ACTTTTCAAAAGC
*
120167898 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
120167911 A
1 A
120167912 TTGCCAAACT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
12 6 0.14
13 31 0.74
14 5 0.12
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.35
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:120169041 original size:29 final size:29
Alignment explanation
Indices: 120169009--120169068 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
120168999 AATAACAACA
120169009 ACATTGTCC-ATGTGCATAACTAATATTAC
1 ACATTGTCCAAT-TGCATAACTAATATTAC
120169038 ACATTGTCCAATTGCATAACTAATATTAC
1 ACATTGTCCAATTGCATAACTAATATTAC
120169067 AC
1 AC
120169069 CACATTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 28 0.93
30 2 0.07
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (29 bp):
ACATTGTCCAATTGCATAACTAATATTAC
Found at i:120169890 original size:26 final size:24
Alignment explanation
Indices: 120169860--120169909 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
120169850 AAATAAAAAA
*
120169860 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
*
120169886 ATTTAAAAGCATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
120169910 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:120169923 original size:21 final size:21
Alignment explanation
Indices: 120169896--120169938 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
120169886 ATTTAAAAGC
*
120169896 ATAAAAACAAATATTAAAACAA
1 ATAAAAA-TAATATTAAAACAA
*
120169918 ATAAAAATGATATTAAAACAA
1 ATAAAAATAATATTAAAACAA
120169939 TTCTTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.21
Consensus pattern (21 bp):
ATAAAAATAATATTAAAACAA
Found at i:120170620 original size:32 final size:32
Alignment explanation
Indices: 120170579--120170671 Score: 159
Period size: 32 Copynumber: 2.9 Consensus size: 32
120170569 CGTCAATCAT
*
120170579 TTCAATATCCAACAAGTTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
120170611 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
**
120170643 TTCAATATCTGACAAGCTTAAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
120170672 CAATATCTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.51, C:0.17, G:0.04, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Done.