Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, 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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 65 of 89
Found at i:15389101 original size:2 final size:2
Alignment explanation
Indices: 15389094--15389129 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
15389084 GTCTACCTCC
15389094 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
15389130 GAGAAATATA
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:15390882 original size:2 final size:2
Alignment explanation
Indices: 15390875--15390906 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15390865 TGCACTACTC
15390875 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
15390907 GGCCATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15391975 original size:18 final size:18
Alignment explanation
Indices: 15391931--15391984 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
15391921 AGACATTCAA
* *
15391931 ACAAGGAAAAAAAGAAAC
1 ACAAGAAAAAAAATAAAC
*
15391949 -CGAACAAAAAAAATAAAC
1 AC-AAGAAAAAAAATAAAC
15391967 ACAAGAAAAAGAAATAAA
1 ACAAGAAAAA-AAATAAA
15391985 AAAGCCATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 1 0.03
18 20 0.69
19 8 0.28
ACGTcount: A:0.74, C:0.11, G:0.11, T:0.04
Consensus pattern (18 bp):
ACAAGAAAAAAAATAAAC
Found at i:15393035 original size:15 final size:15
Alignment explanation
Indices: 15393007--15393057 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
15392997 TTTTGATTAT
*
15393007 TTTTCAACTTTTTTCA
1 TTTT-AACTTTTTTTA
**
15393023 TTTTTATTTTTTTTTA
1 -TTTTAACTTTTTTTA
15393039 TTTTAACTTTTTTTA
1 TTTTAACTTTTTTTA
15393054 TTTT
1 TTTT
15393058 GTGGAAAATG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
15 17 0.59
16 8 0.28
17 4 0.14
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTAACTTTTTTTA
Found at i:15397252 original size:18 final size:19
Alignment explanation
Indices: 15397219--15397256 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
15397209 TGTAATGATG
*
15397219 GAAACTCTTTTGTAAGAAT
1 GAAACTCTTTTCTAAGAAT
15397238 GAAACT-TTTTCTAAGAAT
1 GAAACTCTTTTCTAAGAAT
15397256 G
1 G
15397257 GTTACTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (19 bp):
GAAACTCTTTTCTAAGAAT
Found at i:15397287 original size:7 final size:7
Alignment explanation
Indices: 15397275--15397331 Score: 82
Period size: 7 Copynumber: 8.3 Consensus size: 7
15397265 TGAAAAACGA
15397275 TGCATTT
1 TGCATTT
15397282 TGCATTT
1 TGCATTT
15397289 TGCATTT
1 TGCATTT
15397296 TGCATTT
1 TGCATTT
*
15397303 TGCATCAT
1 TGCAT-TT
15397311 TGCATTT
1 TGCATTT
15397318 T-CA-TT
1 TGCATTT
15397323 TGCATTT
1 TGCATTT
15397330 TG
1 TG
15397332 AAAACATCTC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
5 3 0.07
6 4 0.09
7 32 0.71
8 6 0.13
ACGTcount: A:0.16, C:0.16, G:0.14, T:0.54
Consensus pattern (7 bp):
TGCATTT
Found at i:15399373 original size:21 final size:21
Alignment explanation
Indices: 15399347--15399396 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
15399337 GAATCATTCG
15399347 TCTTAGTTTATTCGTATTACT
1 TCTTAGTTTATTCGTATTACT
*
15399368 TCTTAGTTTATTCGTATTATT
1 TCTTAGTTTATTCGTATTACT
15399389 TCTTAGTT
1 TCTTAGTT
15399397 CAAATATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.18, C:0.12, G:0.10, T:0.60
Consensus pattern (21 bp):
TCTTAGTTTATTCGTATTACT
Found at i:15413391 original size:3 final size:3
Alignment explanation
Indices: 15413383--15413416 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
15413373 TTTTTTAATA
* *
15413383 TAT TAT TAT AAT AAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
15413417 TAAGTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:15413481 original size:25 final size:25
Alignment explanation
Indices: 15413444--15413505 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
15413434 CAGGCTTTAC
* * *
15413444 ATCCATGCTCAACTGACCCAGTTAA
1 ATCCAGGCCCAACCGACCCAGTTAA
*
15413469 ATCCAGGCCCAACCGACCCAGTTAC
1 ATCCAGGCCCAACCGACCCAGTTAA
15413494 ATCCAGGCCCAA
1 ATCCAGGCCCAA
15413506 TCCCGAAGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.31, C:0.39, G:0.15, T:0.16
Consensus pattern (25 bp):
ATCCAGGCCCAACCGACCCAGTTAA
Found at i:15423329 original size:24 final size:24
Alignment explanation
Indices: 15423296--15423343 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
15423286 AGTCTTCCAA
15423296 ATGATGTATAAAACATATATGTAC
1 ATGATGTATAAAACATATATGTAC
* *
15423320 ATGATTTATAAAACATCTATGTAC
1 ATGATGTATAAAACATATATGTAC
15423344 CATATCATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.35
Consensus pattern (24 bp):
ATGATGTATAAAACATATATGTAC
Found at i:15426957 original size:11 final size:11
Alignment explanation
Indices: 15426941--15426967 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
15426931 AGTAAAGTTC
15426941 TTCTTTATTCT
1 TTCTTTATTCT
15426952 TTCTTTATTCT
1 TTCTTTATTCT
15426963 TTCTT
1 TTCTT
15426968 GCCTTCTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (11 bp):
TTCTTTATTCT
Found at i:15438682 original size:17 final size:17
Alignment explanation
Indices: 15438662--15438711 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
15438652 TTTAGGGAAG
15438662 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
* *
15438679 TAGTTCATTCATCAAAC
1 TAGTTCATTAATTAAAC
*
15438696 TAGTTCATTTATTAAA
1 TAGTTCATTAATTAAA
15438712 TTAACTCTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.42
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:15440054 original size:11 final size:10
Alignment explanation
Indices: 15440040--15440073 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
15440030 AAAAAAAAGC
15440040 AAAAAGAAATA
1 AAAAAGAAA-A
15440051 AAAAAGAAAA
1 AAAAAGAAAA
*
15440061 AGAAAGAAAA
1 AAAAAGAAAA
15440071 AAA
1 AAA
15440074 TTTAAAGTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:15440060 original size:17 final size:18
Alignment explanation
Indices: 15440032--15440072 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
15440022 AAAATTTAAA
*
15440032 AAAAAAGCAAAAAGAAAT
1 AAAAAAGCAAAAAGAAAG
15440050 AAAAAAG-AAAAAGAAAG
1 AAAAAAGCAAAAAGAAAG
15440067 AAAAAA
1 AAAAAA
15440073 ATTTAAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.02
Consensus pattern (18 bp):
AAAAAAGCAAAAAGAAAG
Found at i:15440073 original size:18 final size:18
Alignment explanation
Indices: 15440029--15440073 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
15440019 GTAAAAATTT
15440029 AAAAAAAAAGCAAAAAGA
1 AAAAAAAAAGCAAAAAGA
*
15440047 AATAAAAAAG-AAAAAGA
1 AAAAAAAAAGCAAAAAGA
15440064 AAGAAAAAAA
1 AA-AAAAAAA
15440074 TTTAAAGTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.84, C:0.02, G:0.11, T:0.02
Consensus pattern (18 bp):
AAAAAAAAAGCAAAAAGA
Found at i:15445115 original size:17 final size:17
Alignment explanation
Indices: 15445095--15445144 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
15445085 TTTAGGTAAG
*
15445095 TAGTTTATTAATTAAAC
1 TAGTTCATTAATTAAAC
* *
15445112 TAGTTCATTCATAAAAC
1 TAGTTCATTAATTAAAC
*
15445129 TAGTTCATTTATTAAA
1 TAGTTCATTAATTAAA
15445145 TAAAATCTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:15449793 original size:57 final size:57
Alignment explanation
Indices: 15449724--15449838 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
15449714 CAAGCCTTTT
15449724 TTTCTCTCAATCTCTTTGTCTCGAGTTCTAAGTAACTTTACTCAAAACTATACCAAG
1 TTTCTCTCAATCTCTTTGTCTCGAGTTCTAAGTAACTTTACTCAAAACTATACCAAG
15449781 TTTCTCTCAATCTCTTTGTCTCGAGTTCTAAGTAACTTTACTCAAAACTATACCAAG
1 TTTCTCTCAATCTCTTTGTCTCGAGTTCTAAGTAACTTTACTCAAAACTATACCAAG
15449838 T
1 T
15449839 AAAGCTTACT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (57 bp):
TTTCTCTCAATCTCTTTGTCTCGAGTTCTAAGTAACTTTACTCAAAACTATACCAAG
Found at i:15452803 original size:83 final size:83
Alignment explanation
Indices: 15452629--15452813 Score: 201
Period size: 83 Copynumber: 2.2 Consensus size: 83
15452619 TGGACAGTTA
* ** * * ** *
15452629 TCCTTATCACGTGGGAATCGAGTCATCCACCGACTAGATCTCCTCATCATGTAGGAGCCATGTCA
1 TCCTCATCACGTAAGAACCGAGTCATCCACCGACCAGATCTCCTCATCACATAAGAGCCATGTCA
* *
15452694 ATTTTAGATAACTAGTCG
66 ACTTTAGATAACCAGTCG
* * *
15452712 TCCACATCACGTAAGAACCGAGTCATCCACCGACCAGATCTCCTCATCACATAAGAGTCGTGTCA
1 TCCTCATCACGTAAGAACCGAGTCATCCACCGACCAGATCTCCTCATCACATAAGAGCCATGTCA
* * *
15452777 CCTTTAGATAGCCAGAT-T
66 ACTTTAGATAACCAG-TCG
*
15452795 TCCTCATCACGTATGAACC
1 TCCTCATCACGTAAGAACC
15452814 ATGCTATCTC
Statistics
Matches: 83, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
83 82 0.99
84 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (83 bp):
TCCTCATCACGTAAGAACCGAGTCATCCACCGACCAGATCTCCTCATCACATAAGAGCCATGTCA
ACTTTAGATAACCAGTCG
Found at i:15453038 original size:3 final size:3
Alignment explanation
Indices: 15453025--15453058 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
15453015 TTATTTATAT
15453025 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15453059 TAATTTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:15454170 original size:19 final size:19
Alignment explanation
Indices: 15454143--15454187 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
15454133 TACCTTTACG
*
15454143 TTTATTTATTTTGA-TTAT
1 TTTATTTATTTTAACTTAT
15454161 TTTCATTTATTTTAACTTAT
1 TTT-ATTTATTTTAACTTAT
15454181 TTTATTT
1 TTTATTT
15454188 TGTGGAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 3 0.12
19 14 0.58
20 7 0.29
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTATTTATTTTAACTTAT
Found at i:15454574 original size:22 final size:21
Alignment explanation
Indices: 15454548--15454591 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
15454538 GGTTGCGGAA
*
15454548 TTGATGGTCTTGATGGATGAAG
1 TTGATGATCTTGAT-GATGAAG
*
15454570 TTGATGATGTTGATGATGAAG
1 TTGATGATCTTGATGATGAAG
15454591 T
1 T
15454592 GGAGATGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.25, C:0.02, G:0.34, T:0.39
Consensus pattern (21 bp):
TTGATGATCTTGATGATGAAG
Found at i:15456163 original size:22 final size:21
Alignment explanation
Indices: 15456137--15456180 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
15456127 GGTTGCGGAA
*
15456137 TTGATGGTCTTGATGGATGAAG
1 TTGATGATCTTGAT-GATGAAG
*
15456159 TTGATGATGTTGATGATGAAG
1 TTGATGATCTTGATGATGAAG
15456180 T
1 T
15456181 GGAGATGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.25, C:0.02, G:0.34, T:0.39
Consensus pattern (21 bp):
TTGATGATCTTGATGATGAAG
Found at i:15458167 original size:19 final size:20
Alignment explanation
Indices: 15458120--15458170 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
15458110 GAAACCCCTT
**
15458120 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTACA
15458140 TGAAAATACATGA-TTTACA
1 TGAAAATACATGATTTTACA
*
15458159 TGAAGATACATG
1 TGAAAATACATG
15458171 CTCTTGGCTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTACA
Found at i:15459064 original size:4 final size:4
Alignment explanation
Indices: 15459055--15459085 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
15459045 GACATGAGTT
15459055 AATG AATG AATG AATG AATG AATG AATG AAT
1 AATG AATG AATG AATG AATG AATG AATG AAT
15459086 ACATGCTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.26
Consensus pattern (4 bp):
AATG
Found at i:15459142 original size:22 final size:22
Alignment explanation
Indices: 15459104--15459157 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
15459094 TCATGATATG
15459104 TAAATG-ATAT-GAAAACATAA
1 TAAATGAATATAGAAAACATAA
15459124 TAAATGAATATAGAAAACATAA
1 TAAATGAATATAGAAAACATAA
15459146 TAAATGAATATA
1 TAAATGAATATA
15459158 AAACGTATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 6 0.19
21 4 0.12
22 22 0.69
ACGTcount: A:0.61, C:0.04, G:0.09, T:0.26
Consensus pattern (22 bp):
TAAATGAATATAGAAAACATAA
Found at i:15460248 original size:24 final size:25
Alignment explanation
Indices: 15460211--15460288 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 25
15460201 GAACTTGGAG
15460211 CTTCAA-TGATCATAACTTTTGGC-A
1 CTTCAAGTGA-CATAACTTTTGGCAA
* * *
15460235 CTTTAAGTGACATATCTTTT-TCAA
1 CTTCAAGTGACATAACTTTTGGCAA
* *
15460259 CTTCAAGTGGCATAACTGTTGG-AA
1 CTTCAAGTGACATAACTTTTGGCAA
*
15460283 CGTCAA
1 CTTCAA
15460289 AGGACATGTC
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
23 1 0.02
24 38 0.90
25 3 0.07
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.36
Consensus pattern (25 bp):
CTTCAAGTGACATAACTTTTGGCAA
Found at i:15461550 original size:11 final size:11
Alignment explanation
Indices: 15461529--15461592 Score: 60
Period size: 11 Copynumber: 5.5 Consensus size: 11
15461519 CCTTGGCTTG
15461529 CTTTCTCTTTTT
1 CTTT-TCTTTTT
15461541 CTTTTCTTTTT
1 CTTTTCTTTTT
15461552 CTTTTCTTTTAT
1 CTTTTCTTTT-T
*
15461564 GATTTTCTTTCTT
1 -CTTTTCTTT-TT
15461577 -TTTGTCTTTTT
1 CTTT-TCTTTTT
15461588 -TTTTC
1 CTTTTC
15461593 ACTCCAATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
10 2 0.04
11 25 0.53
12 10 0.21
13 9 0.19
14 1 0.02
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.77
Consensus pattern (11 bp):
CTTTTCTTTTT
Found at i:15461554 original size:17 final size:17
Alignment explanation
Indices: 15461529--15461591 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 17
15461519 CCTTGGCTTG
*
15461529 CTTTCTCTTTTTCTTTT
1 CTTTTTCTTTTTCTTTT
15461546 CTTTTTC-TTTTCTTTT
1 CTTTTTCTTTTTCTTTT
*
15461562 ATGATTTTCTTTCTT-TTTGT
1 CT--TTTTCTTT-TTCTTT-T
15461582 CTTTTT-TTTT
1 CTTTTTCTTTT
15461592 CACTCCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
16 11 0.29
17 9 0.24
18 9 0.24
19 5 0.13
20 4 0.11
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (17 bp):
CTTTTTCTTTTTCTTTT
Found at i:15464958 original size:81 final size:81
Alignment explanation
Indices: 15464822--15465220 Score: 638
Period size: 81 Copynumber: 4.9 Consensus size: 81
15464812 TAACCTTTCG
* **
15464822 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTAGCATAATTGACACCTTTCTACCAATTGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGC
15464887 ACAGTTAGGCCATTAT
66 ACAGTTAGGCCATTAT
*
15464903 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACATTTCTACCAATTGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGC
15464968 ACAGTTAGGCCATTAT
66 ACAGTTAGGCCATTAT
* * * *
15464984 TCTTTTACTCAATGGTTTTTAACCGTTAATCTAACTGACATAATTGGTACCTTTCTACCAATTGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGC
15465049 ACAGTTAGGCCATTAT
66 ACAGTTAGGCCATTAT
* * * *
15465065 TCTTTTACTTAACGGTATTTAACCGTTCATCTAACTTGCATAATTGGTACCTTTCTAACAATTAC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGC
* *
15465130 ATAGTTAGGTCATTAT
66 ACAGTTAGGCCATTAT
* * *
15465146 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGCACCTTTCT-TCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGC
15465210 ACAGTTAGGCC
66 ACAGTTAGGCC
15465221 TCAAAGGCAC
Statistics
Matches: 291, Mismatches: 27, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
80 14 0.05
81 277 0.95
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (81 bp):
TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGGTACCTTTCTACCAATTGC
ACAGTTAGGCCATTAT
Found at i:15465294 original size:68 final size:68
Alignment explanation
Indices: 15465171--15465425 Score: 399
Period size: 68 Copynumber: 3.8 Consensus size: 68
15465161 TATTTAACCG
*
15465171 TTCATCTAACTGGCATA-ATTGGCACCTTTCT-TCAAATGCACAGTTAGGCCTCAAAGGCACTTC
1 TTCATCTAACTGGCATAGA-TGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTT-
15465234 A-CCT
64 AGCCT
* * *
15465238 TTCATCTAATTGGCATAGATGACACCTTTCTATCAAATGCACAGTTAGGCCTCAAAGGCATTTAG
1 TTCATCTAACTGGCATAGATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
15465303 CCT
66 CCT
* *
15465306 TTCATCTAACTGGCATAGATGACACATTTCTGTCAAATGCATAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAGATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
*
15465371 TCT
66 CCT
*
15465374 TTCATCTAACTGGCATAGATGACCCCTTTCTGTCAAATGCACAGTTAGGCCT
1 TTCATCTAACTGGCATAGATGACACCTTTCTGTCAAATGCACAGTTAGGCCT
15465426 ATTAATCTTT
Statistics
Matches: 173, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
67 28 0.16
68 145 0.84
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (68 bp):
TTCATCTAACTGGCATAGATGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:15465804 original size:58 final size:57
Alignment explanation
Indices: 15465634--15465805 Score: 226
Period size: 59 Copynumber: 3.0 Consensus size: 57
15465624 ACATATATTT
* * * *
15465634 CCCATACAGAAATTCGTACAATTTA-TATTAATTTCTT-A-A-TTCGCACACATAGTG
1 CCCATACAGAAATTCATAC-ACTTAGTATGAATTTCTTAATATTTTGCACACATAGTG
* *
15465688 CCCATACGGAAATTCATACACTTAGTATGAATTTCTTAATATTTTAGCACACAAAGTG
1 CCCATACAGAAATTCATACACTTAGTATGAATTTCTTAATATTTT-GCACACATAGTG
*
15465746 CCCAATACAGAAATTCATACACTTAGTATGAATTTCTTAATATTTTGCACACTTAGTG
1 CCC-ATACAGAAATTCATACACTTAGTATGAATTTCTTAATATTTTGCACACATAGTG
15465804 CC
1 CC
15465806 ATTTGGTAAT
Statistics
Matches: 103, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
53 4 0.04
54 28 0.27
55 1 0.01
56 1 0.01
57 2 0.02
58 26 0.25
59 41 0.40
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.34
Consensus pattern (57 bp):
CCCATACAGAAATTCATACACTTAGTATGAATTTCTTAATATTTTGCACACATAGTG
Found at i:15466300 original size:95 final size:96
Alignment explanation
Indices: 15466165--15466367 Score: 263
Period size: 95 Copynumber: 2.1 Consensus size: 96
15466155 ACTTCTATAT
* * *
15466165 TATGGTATCGATACCCCCTTCTGGTATCGATACTGATTTTAGGTTCGATG-TTGCCTAGTATCGA
1 TATGGTATCGATACCCCCTTCTGGTATCCATACAGATTTTAGATTCGATGTTTGCCTAGTATCGA
*
15466229 TACTCTTACCATGGTATCAACACTACCATAC
66 TACCCTTACCATGGTATCAACACTACCATAC
* *
15466260 TATGGTA-CTGATACCCCCTTCTGGTATCCATACCAG-TTTTAGATTCGATGTTTTCCTGGTATC
1 TATGGTATC-GATACCCCCTTCTGGTATCCATA-CAGATTTTAGATTCGATGTTTGCCTAGTATC
* * *
15466323 GATACCCTTATCATGGTATCAATACTACC-TAG
64 GATACCCTTACCATGGTATCAACACTACCATAC
*
15466355 T-CGGTATCGATAC
1 TATGGTATCGATAC
15466368 TGATTGAATC
Statistics
Matches: 94, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
94 10 0.11
95 46 0.49
96 38 0.40
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (96 bp):
TATGGTATCGATACCCCCTTCTGGTATCCATACAGATTTTAGATTCGATGTTTGCCTAGTATCGA
TACCCTTACCATGGTATCAACACTACCATAC
Found at i:15470314 original size:3 final size:3
Alignment explanation
Indices: 15470303--15470339 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
15470293 TTTTTTATCG
15470303 TTA TT- TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T
15470340 GTTTATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:15470351 original size:13 final size:13
Alignment explanation
Indices: 15470304--15470347 Score: 58
Period size: 12 Copynumber: 3.6 Consensus size: 13
15470294 TTTTTATCGT
15470304 TATT-TTATTAT-
1 TATTATTATTATG
*
15470315 TATTATTATTATT
1 TATTATTATTATG
15470328 TATTATTATTATG
1 TATTATTATTATG
15470341 T-TTATTA
1 TATTATTA
15470348 ATTACATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 4 0.13
12 13 0.43
13 13 0.43
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (13 bp):
TATTATTATTATG
Found at i:15470351 original size:19 final size:19
Alignment explanation
Indices: 15470310--15470351 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
15470300 TCGTTATTTT
*
15470310 ATTATTATTATTATTATTT
1 ATTATTATTATTATTATTA
15470329 ATTATTATTATGT-TTATTA
1 ATTATTATTAT-TATTATTA
15470348 ATTA
1 ATTA
15470352 CATATTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTATTATTATTATTATTA
Found at i:15473948 original size:200 final size:200
Alignment explanation
Indices: 15473584--15473984 Score: 754
Period size: 200 Copynumber: 2.0 Consensus size: 200
15473574 CCTAGGTATA
15473584 GTCGTACCGAACCTTTGTCCGTTAGTAGGTACCCAAAATAGGTGTACACAGGAGGAACGATTCTA
1 GTCGTACCGAACCTTTGTCCGTTAGTAGGTACCCAAAATAGGTGTACACAGGAGGAACGATTCTA
15473649 AACCTTAACCATTTAAATTTGTAGAATATTTTTTTCCGAATAAAGCATGCGAACTAGATACCATC
66 AACCTTAACCATTTAAATTTGTAGAATATTTTTTTCCGAATAAAGCATGCGAACTAGATACCATC
15473714 GGTTAGGACCAATTTCTTGAAAATAGATCATTTTGGGTAGATAGCATGTCCGGGTAGGAGTGTTA
131 GGTTAGGACCAATTTCTTGAAAATAGATCATTTTGGGTAGATAGCATGTCCGGGTAGGAGTGTTA
15473779 TGTTT
196 TGTTT
15473784 GTCGTACCGAACCTTTGTCCGTTAGTAGGTACCCAAAATAGGTGTACACGAAGGAGGAACGATTC
1 GTCGTACCGAACCTTTGTCCGTTAGTAGGTACCCAAAATAGGTGTACAC--AGGAGGAACGATTC
15473849 TAAACCTTAACCATTTAAATTTGTAGAATATTTTTTTCCGAATAAAGCATGCGAACTAGATACCA
64 TAAACCTTAACCATTTAAATTTGTAGAATATTTTTTTCCGAATAAAGCATGCGAACTAGATACCA
15473914 TGCGGTTAGGACCAATTTCTTG-AAA-A-ATCATTTTGGGTAGATAGCATGTCCGGGTAGGAGTG
129 T-CGGTTAGGACCAATTTCTTGAAAATAGATCATTTTGGGTAGATAGCATGTCCGGGTAGGAGTG
15473976 TTATGTTT
193 TTATGTTT
15473984 G
1 G
15473985 GGTAGATATC
Statistics
Matches: 198, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
200 94 0.47
201 1 0.01
202 83 0.42
203 20 0.10
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (200 bp):
GTCGTACCGAACCTTTGTCCGTTAGTAGGTACCCAAAATAGGTGTACACAGGAGGAACGATTCTA
AACCTTAACCATTTAAATTTGTAGAATATTTTTTTCCGAATAAAGCATGCGAACTAGATACCATC
GGTTAGGACCAATTTCTTGAAAATAGATCATTTTGGGTAGATAGCATGTCCGGGTAGGAGTGTTA
TGTTT
Found at i:15474096 original size:31 final size:32
Alignment explanation
Indices: 15474060--15474121 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
15474050 ATTTTACATG
15474060 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
15474091 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
15474122 CATTTTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:15476535 original size:20 final size:20
Alignment explanation
Indices: 15476506--15476588 Score: 78
Period size: 20 Copynumber: 4.0 Consensus size: 20
15476496 ACATTCTATC
* *
15476506 TCTTTGAGACCTTGAAATAT
1 TCTTTTAGACCTTGAAACAT
15476526 TCTTTTAGACCTTGAAACAT
1 TCTTTTAGACCTTGAAACAT
15476546 TCCCTCTCTTGAGACCTTGAAACAT
1 T--CT-T-TT-AGACCTTGAAACAT
**
15476571 TC-TTTCCACCTTGAAACA
1 TCTTTTAGACCTTGAAACA
15476589 CGCATTTTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
19 11 0.20
20 21 0.39
21 1 0.02
22 2 0.04
23 2 0.04
24 2 0.04
25 15 0.28
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (20 bp):
TCTTTTAGACCTTGAAACAT
Found at i:15476560 original size:25 final size:24
Alignment explanation
Indices: 15476504--15476572 Score: 83
Period size: 25 Copynumber: 3.0 Consensus size: 24
15476494 TGACATTCTA
*
15476504 TCTCTTTGAGACCTTGAAATATT-C
1 TCTC-TTGAGACCTTGAAACATTCC
15476528 T-T-TT-AGACCTTGAAACATTCCC
1 TCTCTTGAGACCTTGAAACATT-CC
15476550 TCTCTTGAGACCTTGAAACATTC
1 TCTCTTGAGACCTTGAAACATTC
15476573 TTTCCACCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
20 14 0.36
21 2 0.05
22 2 0.05
23 2 0.05
24 4 0.10
25 15 0.38
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.38
Consensus pattern (24 bp):
TCTCTTGAGACCTTGAAACATTCC
Found at i:15477283 original size:17 final size:17
Alignment explanation
Indices: 15477261--15477301 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
15477251 AAGATCCAAT
* *
15477261 GAAAAAAAATAAGCAAA
1 GAAAAAAAACAAGAAAA
15477278 GAAAAAAAACAAGAAAA
1 GAAAAAAAACAAGAAAA
*
15477295 GAGAAAA
1 GAAAAAA
15477302 TCAAAGCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.02
Consensus pattern (17 bp):
GAAAAAAAACAAGAAAA
Found at i:15477307 original size:12 final size:11
Alignment explanation
Indices: 15477292--15477332 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
15477282 AAAAACAAGA
15477292 AAAGAGAAAATC
1 AAAGA-AAAATC
15477304 AAAGCAAAAATC
1 AAAG-AAAAATC
*
15477316 AAAGAAAAAGC
1 AAAGAAAAATC
15477327 AAAGAA
1 AAAGAA
15477333 CAAAAGAGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 12 0.44
12 14 0.52
13 1 0.04
ACGTcount: A:0.71, C:0.10, G:0.15, T:0.05
Consensus pattern (11 bp):
AAAGAAAAATC
Found at i:15478482 original size:4 final size:4
Alignment explanation
Indices: 15478473--15478514 Score: 66
Period size: 4 Copynumber: 10.5 Consensus size: 4
15478463 AGAAAAGTAT
* *
15478473 ATAC ATAC ATAC ACAC ACAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
15478515 CCATGATACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (4 bp):
ATAC
Found at i:15479189 original size:36 final size:36
Alignment explanation
Indices: 15479161--15479228 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
15479151 TGAGATCGTT
*
15479161 TTCTC-AAAAACAAACTTTGTCTCGCTTGAGACAAC
1 TTCTCTAAAAACAAACTTTGTCTCACTTGAGACAAC
* *
15479196 TTCTCTAAAAACAAATTTTGTCTCATTTGAGAC
1 TTCTCTAAAAACAAACTTTGTCTCACTTGAGAC
15479229 TATATCTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 5 0.17
36 24 0.83
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (36 bp):
TTCTCTAAAAACAAACTTTGTCTCACTTGAGACAAC
Found at i:15479538 original size:27 final size:28
Alignment explanation
Indices: 15479506--15479599 Score: 106
Period size: 27 Copynumber: 3.5 Consensus size: 28
15479496 TTTCTCTTGA
*
15479506 AAAATCTTTGAGTTTGTTCC-TTTGAAT
1 AAAATCTTTGAGTTGGTTCCTTTTGAAT
*
15479533 AAAATCTTGGAGTTGGTTCCTTTTGAAT
1 AAAATCTTTGAGTTGGTTCCTTTTGAAT
* **
15479561 AAATATCTTTGAG-TCGTTTATTTTGAA-
1 AAA-ATCTTTGAGTTGGTTCCTTTTGAAT
15479588 AAAA-CTTTGAGT
1 AAAATCTTTGAGT
15479600 CTATTTATTT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
25 7 0.12
26 1 0.02
27 21 0.36
28 21 0.36
29 8 0.14
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.45
Consensus pattern (28 bp):
AAAATCTTTGAGTTGGTTCCTTTTGAAT
Found at i:15479598 original size:25 final size:28
Alignment explanation
Indices: 15479553--15479614 Score: 85
Period size: 26 Copynumber: 2.3 Consensus size: 28
15479543 AGTTGGTTCC
*
15479553 TTTTGAATAAATATCTTTGAGTC-GTTTA
1 TTTTGAA-AAATATCTTTGAGTCTATTTA
15479581 TTTTGAAAAA-A-CTTTGAGTCTATTTA
1 TTTTGAAAAATATCTTTGAGTCTATTTA
15479607 TTTTGAAA
1 TTTTGAAA
15479615 CAAAGTTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 9 0.28
26 13 0.41
27 3 0.09
28 7 0.22
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.48
Consensus pattern (28 bp):
TTTTGAAAAATATCTTTGAGTCTATTTA
Found at i:15479772 original size:67 final size:67
Alignment explanation
Indices: 15479699--15479837 Score: 219
Period size: 67 Copynumber: 2.1 Consensus size: 67
15479689 CAATTTTGCG
*
15479699 AAAAAAATCTTGAGTTTGTTTCTTTGGAAACAAAATTCTT-TCTCTC-TAAGATAGTTTCTTTTG
1 AAAAAAATCTTGAGTTTGTTTCTTTGGAAACAAAATT-TTGTCTCTCTTAAGATA-ATTCTTTTG
15479762 AAAC
64 AAAC
* *
15479766 AAAAAAATCTTGAGTTTGTTTCTTTTGAAACAAAATTTTGTCTCTCTTAAGATAATTCTTTTGAG
1 AAAAAAATCTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTCTTTTGAA
15479831 AC
66 AC
15479833 AAAAA
1 AAAAA
15479838 TCTTTGAATC
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
66 2 0.03
67 58 0.87
68 7 0.10
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (67 bp):
AAAAAAATCTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTCTTTTGAA
AC
Found at i:15480175 original size:61 final size:60
Alignment explanation
Indices: 15480073--15480189 Score: 148
Period size: 61 Copynumber: 1.9 Consensus size: 60
15480063 GGATCCATCT
*
15480073 TTGAGTCTGTTTCTTTGAAACAAATTTTATCTCTTAAAGACAATTTCTTTTGGAAAAAATC
1 TTGAGTCTGTTTCTTTGAAACAAATTTTATCTCTTAAAGACAACTTCTTTT-GAAAAAATC
* * **
15480134 TTGAGTTTGTTTCCTTTG-AACAAAATTTTGTCTC-TCGAGACAACTTCTTTTGAAAA
1 TTGAGTCTGTTT-CTTTGAAAC-AAATTTTATCTCTTAAAGACAACTTCTTTTGAAAA
15480190 CCCATATTTG
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
60 5 0.10
61 28 0.57
62 16 0.33
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (60 bp):
TTGAGTCTGTTTCTTTGAAACAAATTTTATCTCTTAAAGACAACTTCTTTTGAAAAAATC
Found at i:15481048 original size:27 final size:27
Alignment explanation
Indices: 15480999--15481050 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
15480989 TCAAAATCCA
* *
15480999 ATCTTTGAGTTTGTTTCTATTGAACAC
1 ATCTTTGAGTTGGTTCCTATTGAACAC
15481026 ATCTTTGAGTTGGTCTCCT-TTGAAC
1 ATCTTTGAGTTGGT-TCCTATTGAAC
15481051 CATTATCCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 19 0.86
28 3 0.14
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.46
Consensus pattern (27 bp):
ATCTTTGAGTTGGTTCCTATTGAACAC
Found at i:15481382 original size:128 final size:129
Alignment explanation
Indices: 15481062--15481525 Score: 745
Period size: 127 Copynumber: 3.7 Consensus size: 129
15481052 ATTATCCTAG
*
15481062 AGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
15481127 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATC-CGTAGGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
15481190 AGATAACCAGCCGTCCTCATCACGTA-GAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
* *
15481254 TCACGTATGAGCCGTGTCATTCCCC-GACCAGAATCTCTTCATCACGTA-G-CCCGTGTCAACCA
66 TCACGTATGAGCCGTGTCA-TCCCCAGACCAG-ATCTCCTCATCACGTAGGAGCCGTGTCAACCA
15481316 T
129 T
*
15481317 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCTAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
15481382 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCG-GTCAACCAT
66 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
* *
15481445 AGAT-A--A-CCGTCCTCATCACGTAGGAGAACCGTGTTATCACCTTTAAATAGCCAAGAACTCT
1 AGATAACCAGCCGTCCTCATCACGTA-G-GAACCGTGTTATCACCTTTAGATGGCC-AGAACTCT
15481506 TCATCACGTA-GAG-CGTGTCA
63 TCATCACGTATGAGCCGTGTCA
15481526 CCTTTAGACG
Statistics
Matches: 317, Mismatches: 9, Indels: 23
0.91 0.03 0.07
Matches are distributed among these distances:
124 16 0.05
125 9 0.03
126 27 0.09
127 140 0.44
128 118 0.37
129 7 0.02
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.24
Consensus pattern (129 bp):
AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
Found at i:15481513 original size:255 final size:252
Alignment explanation
Indices: 15481062--15481525 Score: 792
Period size: 255 Copynumber: 1.8 Consensus size: 252
15481052 ATTATCCTAG
15481062 AGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCA
15481127 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCCGTAGGAGCCGTGTCAACCATAG
66 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCCGTAGGAGCCGTGTCAACCATAG
* *
15481192 ATAACCAGCCGTCCTCATCACGTAGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCA
131 ATAA-CAGCCGTCCTCATCACGTAGAACCGTGTTATCACCTTTAAATAGCCAGAACTCTTCATCA
15481257 CGTATGAGCCGTGTCATTCCCCGACCAGAATCTCTTCATCACGTAGCCCGTGTCAACCAT
195 CGTA-GAG-CGTGTCATTCCCCGACCAGAATCTCTTCATCACGTAGCCCGTGTCAACCAT
* *
15481317 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCTAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCA
15481382 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCG-GTCAACCATA
66 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATC-CGTAGGAGCCGTGTCAACCATA
15481446 GAT-A-A-CCGTCCTCATCACGTAGGAGAACCGTGTTATCACCTTTAAATAGCCAAGAACTCTTC
130 GATAACAGCCGTCCTCATCACGT---AGAACCGTGTTATCACCTTTAAATAGCC-AGAACTCTTC
15481508 ATCACGTAGAGCGTGTCA
191 ATCACGTAGAGCGTGTCA
15481526 CCTTTAGACG
Statistics
Matches: 200, Mismatches: 4, Indels: 12
0.93 0.02 0.06
Matches are distributed among these distances:
251 15 0.08
252 1 0.00
253 7 0.04
254 30 0.15
255 136 0.68
256 11 0.05
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.24
Consensus pattern (252 bp):
AGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCA
TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCCGTAGGAGCCGTGTCAACCATAG
ATAACAGCCGTCCTCATCACGTAGAACCGTGTTATCACCTTTAAATAGCCAGAACTCTTCATCAC
GTAGAGCGTGTCATTCCCCGACCAGAATCTCTTCATCACGTAGCCCGTGTCAACCAT
Found at i:15481732 original size:3 final size:3
Alignment explanation
Indices: 15481726--15481756 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
15481716 TTATCGTTAT
*
15481726 TTA TTA TTA TTA TTA TTT TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
15481757 GTTTATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:15483855 original size:48 final size:48
Alignment explanation
Indices: 15483758--15483852 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 48
15483748 TTTATTTTTT
15483758 TTCTTCTTTTACTGTTTTTTTAAATATTTGTTAATTATATTTTAGCCC
1 TTCTTCTTTTACTGTTTTTTTAAATATTTGTTAATTATATTTTAGCCC
15483806 TTCTTC-TTTACTGTTTTTTTAAATATTTGTTAATTATATTTTAGCCC
1 TTCTTCTTTTACTGTTTTTTTAAATATTTGTTAATTATATTTTAGCCC
15483853 CTTAAATGTT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 41 0.87
48 6 0.13
ACGTcount: A:0.21, C:0.13, G:0.06, T:0.60
Consensus pattern (48 bp):
TTCTTCTTTTACTGTTTTTTTAAATATTTGTTAATTATATTTTAGCCC
Found at i:15498342 original size:16 final size:17
Alignment explanation
Indices: 15498321--15498354 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
15498311 ACAGATAATT
15498321 ATTTTAGG-TATCCAAA
1 ATTTTAGGATATCCAAA
15498337 ATTTTAGGATATCCAAA
1 ATTTTAGGATATCCAAA
15498354 A
1 A
15498355 ATTCAGATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (17 bp):
ATTTTAGGATATCCAAA
Found at i:15509552 original size:19 final size:21
Alignment explanation
Indices: 15509525--15509563 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
15509515 ACAATTATAT
*
15509525 ATTTTTTAAT-TTAA-ATTAA
1 ATTTATTAATATTAATATTAA
15509544 ATTTATTAATATTAATATTA
1 ATTTATTAATATTAATATTA
15509564 TATATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 4 0.24
21 4 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTATTAATATTAATATTAA
Found at i:15520685 original size:31 final size:32
Alignment explanation
Indices: 15520646--15520739 Score: 120
Period size: 31 Copynumber: 3.0 Consensus size: 32
15520636 AGAGTCGAGG
15520646 GTTACCTATGTCTTTCGAGACATATGGATAGT
1 GTTACCTATGTCTTTCGAGACATATGGATAGT
* * * *
15520678 -TTACCTATGTCCTTCGGGACATATGGACAAT
1 GTTACCTATGTCTTTCGAGACATATGGATAGT
*
15520709 GTTACCTATGTTCTTTGGA-ACATATGGATAG
1 GTTACCTATG-TCTTTCGAGACATATGGATAG
15520740 GTACTTCGAG
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
31 27 0.53
32 19 0.37
33 5 0.10
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (32 bp):
GTTACCTATGTCTTTCGAGACATATGGATAGT
Found at i:15530462 original size:17 final size:18
Alignment explanation
Indices: 15530440--15530476 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
15530430 TTTACCAGAC
15530440 TTTAACAC-TTTCTAGTT
1 TTTAACACATTTCTAGTT
15530457 TTTAACACAATTTCTAGTT
1 TTTAACAC-ATTTCTAGTT
15530476 T
1 T
15530477 AAGAATCCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
19 10 0.56
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.51
Consensus pattern (18 bp):
TTTAACACATTTCTAGTT
Found at i:15540113 original size:77 final size:80
Alignment explanation
Indices: 15539962--15540115 Score: 197
Period size: 84 Copynumber: 1.9 Consensus size: 80
15539952 CAAATATGTA
* * *
15539962 AGATTGACATGTGTATTGTTTTTTGTGCTAATGTTTTTTGAAAAGTGAAAACATGACGGTTAGAG
1 AGATTGACATGCGTATTGTTTTTTGTGCTAATGTTTTTTGAAAAGAGAAAACATAAC-G-T--AG
15540027 ACTGAAGAGTGAAGATTTG
62 ACTGAAGAGTGAAGATTTG
* * *
15540046 AGATTGACATGCGTATTGTTTTTTGTGCTACT-TTTTTTGAAAAGAGTAAATATAAC-T-GACTG
1 AGATTGACATGCGTATTGTTTTTTGTGCTAATGTTTTTTGAAAAGAGAAAACATAACGTAGACTG
15540108 AAGAGTGA
66 AAGAGTGA
15540116 GGTCATCTTC
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
77 13 0.20
80 1 0.02
83 20 0.31
84 30 0.47
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (80 bp):
AGATTGACATGCGTATTGTTTTTTGTGCTAATGTTTTTTGAAAAGAGAAAACATAACGTAGACTG
AAGAGTGAAGATTTG
Found at i:15541486 original size:18 final size:17
Alignment explanation
Indices: 15541455--15541488 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15541445 TAAAAATTTT
*
15541455 AAAAATATTGTTTTAAG
1 AAAAATATTATTTTAAG
15541472 AAAATATATTATTTTAA
1 AAAA-ATATTATTTTAA
15541489 TGGTGAAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
AAAAATATTATTTTAAG
Found at i:15541712 original size:25 final size:25
Alignment explanation
Indices: 15541678--15541731 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
15541668 ATGATCTTCA
*
15541678 ATCTCGTACATAACACACTCCTTTC
1 ATCTCGTACACAACACACTCCTTTC
*
15541703 ATCTCTTACACAACACACTCCTTTC
1 ATCTCGTACACAACACACTCCTTTC
15541728 ATCT
1 ATCT
15541732 TCAATCTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.28, C:0.37, G:0.02, T:0.33
Consensus pattern (25 bp):
ATCTCGTACACAACACACTCCTTTC
Found at i:15544539 original size:22 final size:20
Alignment explanation
Indices: 15544494--15544530 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
15544484 ATATTATATA
15544494 TTGTAACTAGGTTTTTTTAC
1 TTGTAACTAGGTTTTTTTAC
*
15544514 -TGTAACTATGTTTTTTT
1 TTGTAACTAGGTTTTTTT
15544531 TAACTTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.14, T:0.59
Consensus pattern (20 bp):
TTGTAACTAGGTTTTTTTAC
Found at i:15545506 original size:18 final size:17
Alignment explanation
Indices: 15545464--15545504 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
15545454 TCTTTAATTC
*
15545464 CAAATTTAAAAAAAAGT
1 CAAATTTAAAAAAAAAT
* *
15545481 GACATTTAAAAAAAAAT
1 CAAATTTAAAAAAAAAT
15545498 CAAATTT
1 CAAATTT
15545505 TATATACTAA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (17 bp):
CAAATTTAAAAAAAAAT
Found at i:15545548 original size:8 final size:9
Alignment explanation
Indices: 15545529--15545559 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15545519 AATATCAAGT
*
15545529 AAAATTTAA
1 AAAAATTAA
15545538 AAAAATTAA
1 AAAAATTAA
15545547 AAAAATTAA
1 AAAAATTAA
15545556 AAAA
1 AAAA
15545560 GTACACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAAATTAA
Found at i:15545688 original size:18 final size:17
Alignment explanation
Indices: 15545649--15545705 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 17
15545639 AATGAAATTC
15545649 TTTTAATT-AAATTTTA
1 TTTTAATTAAAATTTTA
15545665 TTTTAATTAAAAGTTATT-
1 TTTTAATTAAAA-TT-TTA
15545683 TTTTAATTAAATATTTTCA
1 TTTTAATTAAA-ATTTT-A
15545702 TTTT
1 TTTT
15545706 TGTTTACATA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
16 8 0.23
17 5 0.14
18 15 0.43
19 7 0.20
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (17 bp):
TTTTAATTAAAATTTTA
Found at i:15545726 original size:17 final size:17
Alignment explanation
Indices: 15545704--15545736 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15545694 TATTTTCATT
15545704 TTTGTTTACATATTTTA
1 TTTGTTTACATATTTTA
*
15545721 TTTGTTTACATGTTTT
1 TTTGTTTACATATTTT
15545737 CAAAGTTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.06, G:0.09, T:0.67
Consensus pattern (17 bp):
TTTGTTTACATATTTTA
Found at i:15546418 original size:2 final size:2
Alignment explanation
Indices: 15546411--15546441 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15546401 ATTATTCAAT
15546411 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
15546442 TAAACACGTC
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:15547210 original size:55 final size:55
Alignment explanation
Indices: 15546978--15547425 Score: 521
Period size: 55 Copynumber: 8.2 Consensus size: 55
15546968 CACCTAATTA
* * * * * * * * *
15546978 CCAATATGGAAATTCACAAACTCATTTTGAAATCCTTGGGG-TGCATATATAGTG
1 CCAATACGAAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
* ** * * * * *
15547032 CCGATACGATCATTCACAAACTCATTCTGAATTACAT-AGGTTGCACACATAGTG
1 CCAATACGAAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
* * * * * * *
15547086 CCAATATGGAAATTCATGAACTTATTATGAATTTCGTGGGCTTTCATA-ATAGTG
1 CCAATACGAAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
* *
15547140 CGAATACAAAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
1 CCAATACGAAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
*
15547195 GCAATACGAAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
1 CCAATACGAAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
** *
15547250 CCAATAC-AGAAATTTGTAAAC-CTATTATGAATTTCATGGGGTTGCACACATAGTG
1 CCAATACGA-AAATTCATAAACTC-ATTATGAATTTCGTGGGGTTGCACACATAGTG
* *
15547305 CCAATACGAAAATTCATAAACTCATTATGAATTTCATGTGGTTGCACACATAGTG
1 CCAATACGAAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
* *
15547360 CCAATATGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAG-G
1 CCAATACGAAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
15547414 CCAATACAGAAA
1 CCAATAC-GAAA
15547426 GTCCTACATA
Statistics
Matches: 334, Mismatches: 52, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
53 2 0.01
54 119 0.36
55 211 0.63
56 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (55 bp):
CCAATACGAAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
Found at i:15547882 original size:20 final size:19
Alignment explanation
Indices: 15547838--15547888 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
15547828 TTCTAATCAT
*
15547838 AGTATCGATACCTTCTTCC
1 AGTATCGATACCTCCTTCC
15547857 AGGTATCGATACCTCCGTAT-C
1 A-GTATCGATACCTCC-T-TCC
15547878 AGTATCGATAC
1 AGTATCGATAC
15547889 TTACATTAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.04
20 23 0.82
21 3 0.11
22 1 0.04
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.31
Consensus pattern (19 bp):
AGTATCGATACCTCCTTCC
Found at i:15552264 original size:2 final size:2
Alignment explanation
Indices: 15552257--15552333 Score: 154
Period size: 2 Copynumber: 38.5 Consensus size: 2
15552247 ATTCTTCAAT
15552257 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15552299 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
15552334 TAAACACGTC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15553105 original size:55 final size:55
Alignment explanation
Indices: 15552870--15553155 Score: 269
Period size: 54 Copynumber: 5.3 Consensus size: 55
15552860 CACCTAAGTA
* * * ** * *
15552870 CCAATATGAAAATTCACAAACTCATTTTGAAATCCT-TAGGG-TGCACATATAGTG
1 CCAATACGAAAATTCATAAACTCATTATG-AATTTTGTGGGGTTGCACACATAGTG
* *** * * ** *
15552924 TCAATACGGTCATTCACAAACTCATTGTGAATTACGT-AGGTTGCACACATAGTG
1 CCAATACGAAAATTCATAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTG
* * * * *
15552978 CCAATACGGAAATTCATGAACTCATTATGAATTTCGT-GGGTT-TACACACAGTG
1 CCAATACGAAAATTCATAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTG
* * *
15553031 CCTATACGGAAATTCATAAACTCTTTATGAATTTTGTGGGGTTGCACACATAGTG
1 CCAATACGAAAATTCATAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTG
* *
15553086 CCAATATGAAAATTCATAAACTCATTATG-ATTTTCGTGGGGTTACACACATAGTG
1 CCAATACGAAAATTCATAAACTCATTATGAATTTT-GTGGGGTTGCACACATAGTG
*
15553141 CCAATACAAAAATTC
1 CCAATACGAAAATTC
15553156 CTACATAAAC
Statistics
Matches: 193, Mismatches: 34, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
53 47 0.24
54 80 0.41
55 66 0.34
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (55 bp):
CCAATACGAAAATTCATAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTG
Found at i:15560402 original size:44 final size:44
Alignment explanation
Indices: 15560352--15560704 Score: 447
Period size: 44 Copynumber: 8.0 Consensus size: 44
15560342 ATACCATGTG
* * * * *
15560352 TGGCACCTTTTTGCCAATAATACATCGTTATGCATTTTTATTTA
1 TGGCACATTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * *
15560396 TGGCACCTTTCTACCAATAATGCACCGTTATGTATTTTCATTTA
1 TGGCACATTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * *
15560440 TGGCACCTTTCTGCCAATAATGAACCATTATGCATTTTCATTTA
1 TGGCACATTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
*
15560484 TGGCACATTTCTGCCAATAATGCACTGTTATGCATTTTCATTTA
1 TGGCACATTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* *
15560528 TGGCACATTTTTGCCAATAATGCACCATTATGCATTTTCATTTA
1 TGGCACATTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * * * *
15560572 TGACACATTTTTGCCAATATTGCACCATTATGTATTTTCATTTA
1 TGGCACATTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * *
15560616 TGACACATTTCTGCCAATAATGTACTGTTATGCATTTTCATTTA
1 TGGCACATTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * * * *
15560660 TGGCGTC-TTTCTGCTAATGATGCACTGTTATGTATTTTCATTTA
1 TGGC-ACATTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
15560704 T
1 T
15560705 TTCGGTAACA
Statistics
Matches: 276, Mismatches: 32, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
44 275 1.00
45 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.43
Consensus pattern (44 bp):
TGGCACATTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
Found at i:15560521 original size:132 final size:132
Alignment explanation
Indices: 15560352--15560704 Score: 492
Period size: 132 Copynumber: 2.7 Consensus size: 132
15560342 ATACCATGTG
* * * * *
15560352 TGGCACCTTTTTGCCAATAATACA-TCGTTATGCATTTTTATTTATGGCACCTTTCTACCAATAA
1 TGGCACATTTCTGCCAATAATGCACT-GTTATGCATTTTCATTTATGGCACCTTTCTGCCAATAA
* *
15560416 TGCACCGTTATGTATTTTCATTTATGGCACCTTTCTGCCAATAATGAACCATTATGCATTTTCAT
65 TGCACCGTTATGTATTTTCATTTATGACACATTTCTGCCAATAATGAACCATTATGCATTTTCAT
15560481 TTA
130 TTA
* *
15560484 TGGCACATTTCTGCCAATAATGCACTGTTATGCATTTTCATTTATGGCACATTTTTGCCAATAAT
1 TGGCACATTTCTGCCAATAATGCACTGTTATGCATTTTCATTTATGGCACCTTTCTGCCAATAAT
* * * * * *
15560549 GCACCATTATGCATTTTCATTTATGACACATTTTTGCCAATATTGCACCATTATGTATTTTCATT
66 GCACCGTTATGTATTTTCATTTATGACACATTTCTGCCAATAATGAACCATTATGCATTTTCATT
15560614 TA
131 TA
* * ** * *
15560616 TGACACATTTCTGCCAATAATGTACTGTTATGCATTTTCATTTATGGCGTCTTTCTGCTAATGAT
1 TGGCACATTTCTGCCAATAATGCACTGTTATGCATTTTCATTTATGGCACCTTTCTGCCAATAAT
*
15560681 GCACTGTTATGTATTTTCATTTAT
66 GCACCGTTATGTATTTTCATTTAT
15560705 TTCGGTAACA
Statistics
Matches: 194, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
132 193 0.99
133 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.43
Consensus pattern (132 bp):
TGGCACATTTCTGCCAATAATGCACTGTTATGCATTTTCATTTATGGCACCTTTCTGCCAATAAT
GCACCGTTATGTATTTTCATTTATGACACATTTCTGCCAATAATGAACCATTATGCATTTTCATT
TA
Found at i:15561172 original size:18 final size:18
Alignment explanation
Indices: 15561149--15561195 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
15561139 CCTTTCTCTT
15561149 AGTATCGATACCCACATC
1 AGTATCGATACCCACATC
15561167 AGTATCGATACCCACATC
1 AGTATCGATACCCACATC
15561185 AGTATCGATAC
1 AGTATCGATAC
15561196 TAATTGCATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (18 bp):
AGTATCGATACCCACATC
Found at i:15561958 original size:14 final size:13
Alignment explanation
Indices: 15561926--15561954 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
15561916 AAAATTTATT
15561926 CAATTTAATCCCC
1 CAATTTAATCCCC
15561939 CAATTTAATCCCC
1 CAATTTAATCCCC
15561952 CAA
1 CAA
15561955 ATTTTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.38, G:0.00, T:0.28
Consensus pattern (13 bp):
CAATTTAATCCCC
Found at i:15587417 original size:21 final size:21
Alignment explanation
Indices: 15587358--15587408 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
15587348 TATCATCAGC
15587358 CACCGTGAACTACCACGTTAG
1 CACCGTGAACTACCACGTTAG
15587379 CACCGTGAACTACCACGTTAG
1 CACCGTGAACTACCACGTTAG
*
15587400 CACTGTGAA
1 CACCGTGAA
15587409 GTGTCACGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (21 bp):
CACCGTGAACTACCACGTTAG
Found at i:15598389 original size:14 final size:14
Alignment explanation
Indices: 15598352--15598378 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15598342 TCGGTAATCT
15598352 GTTCATTTATGTTC
1 GTTCATTTATGTTC
15598366 GTTCATTTATGTT
1 GTTCATTTATGTT
15598379 TCTTCGTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.11, G:0.15, T:0.59
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:15598598 original size:14 final size:14
Alignment explanation
Indices: 15598579--15598618 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
15598569 CCCAATTAAT
*
15598579 TTTATGTTCGTTAG
1 TTTATGTTCGTTAC
*
15598593 TTTATGTTCGTTCC
1 TTTATGTTCGTTAC
*
15598607 TTTGTGTTCGTT
1 TTTATGTTCGTT
15598619 TATGTTTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.07, C:0.12, G:0.20, T:0.60
Consensus pattern (14 bp):
TTTATGTTCGTTAC
Found at i:15598638 original size:24 final size:24
Alignment explanation
Indices: 15598592--15598645 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
15598582 ATGTTCGTTA
* * *
15598592 GTTTATGTTCGTTCCTTTGTGTTC
1 GTTTATGTTCGATCATTTATGTTC
* *
15598616 GTTTATGTTTGATCATTTATGTTT
1 GTTTATGTTCGATCATTTATGTTC
15598640 GTTTAT
1 GTTTAT
15598646 CATTTTAACA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.11, C:0.09, G:0.19, T:0.61
Consensus pattern (24 bp):
GTTTATGTTCGATCATTTATGTTC
Found at i:15604155 original size:16 final size:17
Alignment explanation
Indices: 15604131--15604163 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
15604121 TTGCAATCTC
*
15604131 TTTTCTTTTCTTTTTGA
1 TTTTCTTTTCTTCTTGA
15604148 TTTT-TTTTCTTCTTGA
1 TTTTCTTTTCTTCTTGA
15604164 ATGCTTGCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.06, C:0.12, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTTCTTTTCTTCTTGA
Found at i:15608903 original size:43 final size:43
Alignment explanation
Indices: 15608842--15608926 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
15608832 TACTCCATAC
15608842 TTAGTTTTTTTTATAATAATTGGTTGAAATATTTGATTTCATT
1 TTAGTTTTTTTTATAATAATTGGTTGAAATATTTGATTTCATT
15608885 TTAGTTTTTTTTATAATAATTGGTTGAAATATTTGATTTCAT
1 TTAGTTTTTTTTATAATAATTGGTTGAAATATTTGATTTCAT
15608927 GGCATAAGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (43 bp):
TTAGTTTTTTTTATAATAATTGGTTGAAATATTTGATTTCATT
Found at i:15609511 original size:102 final size:102
Alignment explanation
Indices: 15609322--15609512 Score: 312
Period size: 103 Copynumber: 1.9 Consensus size: 102
15609312 TCATGGGATG
*
15609322 ACTCTACCTGACTAGTTCGAGGTGGAAGGTATGCTCCCTTTCACCTAGAGTGTGGGATGGTAGGT
1 ACTCTACCTGACTAGCTCGAGGTGGAAGGTATGCTCCCTTTCACCTAGAGTGTGGGATGGTAGGT
*
15609387 GTGATGGGCTGACTCCCCTTGAAGCAGTGTTAAAAAA
66 GTGATGAGCTGACTCCCCTTGAAGCAGTGTTAAAAAA
* * *
15609424 ACTCTACCTGGCTAGCTCGGGGGTGGAAGGTATGCTCCCTTTCACTTAGAGTGTGGGATGGTA-G
1 ACTCTACCTGACTAGCTC-GAGGTGGAAGGTATGCTCCCTTTCACCTAGAGTGTGGGATGGTAGG
*
15609488 TGTGATGAGCTGACTCTCCTTGAAG
65 TGTGATGAGCTGACTCCCCTTGAAG
15609513 AAAAAAAATT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
102 40 0.49
103 42 0.51
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (102 bp):
ACTCTACCTGACTAGCTCGAGGTGGAAGGTATGCTCCCTTTCACCTAGAGTGTGGGATGGTAGGT
GTGATGAGCTGACTCCCCTTGAAGCAGTGTTAAAAAA
Found at i:15619052 original size:19 final size:20
Alignment explanation
Indices: 15619014--15619053 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
15619004 TTAATAATGG
*
15619014 AATAAGAAATGATTAAATAAA
1 AATAAGAAA-GATGAAATAAA
15619035 AATAAGAAA-ATGAAATAAA
1 AATAAGAAAGATGAAATAAA
15619054 GATAGCAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (20 bp):
AATAAGAAAGATGAAATAAA
Found at i:15624201 original size:14 final size:15
Alignment explanation
Indices: 15624179--15624207 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15624169 TTTTTTGAAA
15624179 TTCTCTTTTTCTTTT
1 TTCTCTTTTTCTTTT
15624194 TTCT-TTTTTCTTTT
1 TTCTCTTTTTCTTTT
15624208 CTGAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTCTCTTTTTCTTTT
Found at i:15628216 original size:31 final size:31
Alignment explanation
Indices: 15628178--15628302 Score: 108
Period size: 31 Copynumber: 4.0 Consensus size: 31
15628168 GATCCTCAGC
*
15628178 AACTGTCCATAGGTTCCGAAGAACCTAGGTA
1 AACTGTCCATAGGTTCCGAAGAACATAGGTA
* **
15628209 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATAGGTTCCGAAGAACATAGGTA
* * * **
15628240 TACTATCCATATGTCTCTAAAG-ACATAGGTA
1 AACTGTCCATAGGT-TCCGAAGAACATAGGTA
* * * *
15628271 ATTCTGTTCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATAGGTTCCGAAGAACATAGGTA
15628303 TACCCTTGAC
Statistics
Matches: 75, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
31 52 0.69
32 23 0.31
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (31 bp):
AACTGTCCATAGGTTCCGAAGAACATAGGTA
Found at i:15632409 original size:18 final size:17
Alignment explanation
Indices: 15632388--15632432 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
15632378 TTTTTTGAAA
15632388 TTCTCTTTTTCTTTTTTC
1 TTCT-TTTTTCTTTTTTC
**
15632406 TTCTTTTATTAATTTTTC
1 TTCTTTT-TTCTTTTTTC
15632424 TTCTTTTTT
1 TTCTTTTTT
15632433 TTCTTTGAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.78
Consensus pattern (17 bp):
TTCTTTTTTCTTTTTTC
Found at i:15637266 original size:18 final size:18
Alignment explanation
Indices: 15637245--15637297 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
15637235 TTTTTTGAAA
15637245 TTCTCTTTTTCTT-TTTTC
1 TTCT-TTTTTCTTCTTTTC
*
15637263 TTCTTTTTTCTTCTTTTA
1 TTCTTTTTTCTTCTTTTC
**
15637281 TTAATTTTTCTTCTTTT
1 TTCTTTTTTCTTCTTTT
15637298 TTTTCTTTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
17 8 0.26
18 23 0.74
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (18 bp):
TTCTTTTTTCTTCTTTTC
Found at i:15637268 original size:10 final size:10
Alignment explanation
Indices: 15637253--15637305 Score: 58
Period size: 10 Copynumber: 5.6 Consensus size: 10
15637243 AATTCTCTTT
15637253 TTCTTTTTTC
1 TTCTTTTTTC
15637263 TTCTTTTTTC
1 TTCTTTTTTC
*
15637273 TTC--TTTTA
1 TTCTTTTTTC
**
15637281 TTAATTTTTC
1 TTCTTTTTTC
15637291 TTCTTTTTT-
1 TTCTTTTTTC
15637300 TTCTTT
1 TTCTTT
15637306 GAACTCCGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
8 6 0.17
9 6 0.17
10 24 0.67
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (10 bp):
TTCTTTTTTC
Found at i:15642560 original size:8 final size:8
Alignment explanation
Indices: 15642542--15642598 Score: 62
Period size: 8 Copynumber: 6.8 Consensus size: 8
15642532 TTTTTTGAAA
15642542 TTCTCTTTT
1 TTCT-TTTT
15642551 TTCTTTTT
1 TTCTTTTT
15642559 TTCTTTTT
1 TTCTTTTT
15642567 TTCTTTTCT
1 TTCTTTT-T
*
15642576 GAAT-TTTTT
1 --TTCTTTTT
15642585 TTCTTTTT
1 TTCTTTTT
15642593 TTCTTT
1 TTCTTT
15642599 GAACTCCCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
7 1 0.02
8 30 0.71
9 6 0.14
10 4 0.10
11 1 0.02
ACGTcount: A:0.04, C:0.14, G:0.02, T:0.81
Consensus pattern (8 bp):
TTCTTTTT
Found at i:15647566 original size:26 final size:25
Alignment explanation
Indices: 15647494--15647578 Score: 82
Period size: 25 Copynumber: 3.3 Consensus size: 25
15647484 TTCATATTTG
*
15647494 TTTATTATTTGTTTTTTCTTTTGGATTT
1 TTTATT-TTT-TTTTTTCTTTAGG-TTT
* *
15647522 TTT-TTATTTTTTTTCTTTATGTTT
1 TTTATTTTTTTTTTTCTTTAGGTTT
* *
15647546 TTTATTTTTTTTTATTTTTTAGGTAT
1 TTTATTTTTTTTT-TTCTTTAGGTTT
15647572 TTTATTT
1 TTTATTT
15647579 ATGTATATAT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
24 6 0.12
25 19 0.40
26 18 0.38
27 2 0.04
28 3 0.06
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.79
Consensus pattern (25 bp):
TTTATTTTTTTTTTTCTTTAGGTTT
Found at i:15647620 original size:17 final size:17
Alignment explanation
Indices: 15647524--15647643 Score: 72
Period size: 17 Copynumber: 6.9 Consensus size: 17
15647514 TTGGATTTTT
* *
15647524 TTTATTTTTTTTCTTTA
1 TTTATTTTATTTATTTA
15647541 TGTT-TTTTATTT-TTT-
1 T-TTATTTTATTTATTTA
15647556 TTTATTTT-TTAGGTATTTTA
1 TTTATTTTATT---TA-TTTA
* *
15647576 TTTATGTATATATATATATA
1 TTTAT-T-T-TATTTATTTA
*
15647596 TATATTTTATTTATTTA
1 TTTATTTTATTTATTTA
15647613 TTTATTTTATTT-TCTTA
1 TTTATTTTATTTAT-TTA
15647630 TTTA-TTTATTTATT
1 TTTATTTTATTTATT
15647644 ATATATGTGT
Statistics
Matches: 82, Mismatches: 7, Indels: 29
0.69 0.06 0.25
Matches are distributed among these distances:
14 4 0.05
15 5 0.06
16 12 0.15
17 36 0.44
18 3 0.04
19 4 0.05
20 12 0.15
21 3 0.04
22 1 0.01
23 1 0.01
24 1 0.01
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTATTTTATTTATTTA
Found at i:15647621 original size:5 final size:4
Alignment explanation
Indices: 15647546--15647643 Score: 69
Period size: 4 Copynumber: 24.5 Consensus size: 4
15647536 CTTTATGTTT
** * * *
15647546 TTTA TTT- TTT- TTTA TTT- TTTA GGTA TTTTA TTTA TGTA TATA TATA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA
* *
15647592 TATA TATA TTTTA TTTA TTTA TTTA TTTTA TTT- TCTTA TTTA TTTA TTTA
1 TTTA TTTA -TTTA TTTA TTTA TTTA -TTTA TTTA T-TTA TTTA TTTA TTTA
15647642 TT
1 TT
15647644 ATATATGTGT
Statistics
Matches: 80, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
3 10 0.12
4 60 0.75
5 10 0.12
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:15647621 original size:9 final size:9
Alignment explanation
Indices: 15647518--15647753 Score: 81
Period size: 9 Copynumber: 25.6 Consensus size: 9
15647508 TTTCTTTTGG
*
15647518 ATTTTTTTT
1 ATTTATTTT
*
15647527 ATTTTTTTT
1 ATTTATTTT
*
15647536 CTTTATGTTT
1 ATTTAT-TTT
15647546 -TTTATTTTT
1 ATTTA-TTTT
*
15647555 TTTTATTTT
1 ATTTATTTT
15647564 -TTAGGTATTTT
1 ATT---TATTTT
*
15647575 ATTTATGTAT
1 ATTTAT-TTT
* *
15647585 ATATATATAT
1 ATTTAT-TTT
*
15647595 ATATATTTT
1 ATTTATTTT
15647604 ATTTA-TTT
1 ATTTATTTT
15647612 ATTTATTTT
1 ATTTATTTT
*
15647621 ATTT-TCTT
1 ATTTATTTT
15647629 ATTTA-TTT
1 ATTTATTTT
*
15647637 ATTTATTAT
1 ATTTATTTT
* *
15647646 ATATGTGTTT
1 ATTTAT-TTT
*
15647656 ACCATTATTTT
1 A--TTTATTTT
*
15647667 CTTTATTTT
1 ATTTATTTT
*
15647676 CTTTATTTTT
1 ATTTA-TTTT
*
15647686 TTTTATTTT
1 ATTTATTTT
**** *
15647695 -TCCCCTAT
1 ATTTATTTT
*
15647703 CTTTATTTT
1 ATTTATTTT
*
15647712 ATTTATGTT
1 ATTTATTTT
15647721 ATTTACTTTT
1 ATTTA-TTTT
* *
15647731 TTTTACTTT
1 ATTTATTTT
15647740 ATCTTA-TTT
1 AT-TTATTTT
15647749 ATTTA
1 ATTTA
15647754 CGTTACCTTT
Statistics
Matches: 174, Mismatches: 35, Indels: 37
0.71 0.14 0.15
Matches are distributed among these distances:
8 30 0.17
9 86 0.49
10 45 0.26
11 9 0.05
12 4 0.02
ACGTcount: A:0.20, C:0.06, G:0.03, T:0.71
Consensus pattern (9 bp):
ATTTATTTT
Found at i:15647690 original size:10 final size:10
Alignment explanation
Indices: 15647663--15647696 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
15647653 TTTACCATTA
15647663 TTTTCTTTA-
1 TTTTCTTTAT
15647672 TTTTCTTTAT
1 TTTTCTTTAT
*
15647682 TTTTTTTTAT
1 TTTTCTTTAT
15647692 TTTTC
1 TTTTC
15647697 CCCTATCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTCTTTAT
Found at i:15647746 original size:24 final size:23
Alignment explanation
Indices: 15647601--15647753 Score: 86
Period size: 23 Copynumber: 6.8 Consensus size: 23
15647591 ATATATATAT
15647601 TTTAT-TTATTTA-TTTATTTTA
1 TTTATCTTATTTACTTTATTTTA
15647622 TTT-TCTTATTTA-TTTA-TTTA
1 TTTATCTTATTTACTTTATTTTA
* * * *
15647642 TTATATATGTGTTTACCATTATTTTC
1 TT-TATCT-TATTTA-CTTTATTTTA
* * * *
15647668 TTTATTTTCTTTATTTTTTTTTA
1 TTTATCTTATTTACTTTATTTTA
* *** *
15647691 TTTTTCCCCTAT-CTTTATTTTA
1 TTTATCTTATTTACTTTATTTTA
* *
15647713 TTTATGTTATTTACTTTTTTTTA
1 TTTATCTTATTTACTTTATTTTA
15647736 CTTTATCTTATTTA-TTTA
1 -TTTATCTTATTTACTTTA
15647754 CGTTACCTTT
Statistics
Matches: 97, Mismatches: 26, Indels: 16
0.70 0.19 0.12
Matches are distributed among these distances:
20 7 0.07
21 15 0.15
22 16 0.16
23 30 0.31
24 17 0.18
25 7 0.07
26 5 0.05
ACGTcount: A:0.19, C:0.08, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTATCTTATTTACTTTATTTTA
Found at i:15647765 original size:33 final size:33
Alignment explanation
Indices: 15647703--15647766 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
15647693 TTTCCCCTAT
* * *
15647703 CTTTATTTTATTTATGTTATTTACTTTTTTTTA
1 CTTTATCTTATTTATGTTAGTTACCTTTTTTTA
15647736 CTTTATCTTATTTAT-TTACGTTACCTTTTTT
1 CTTTATCTTATTTATGTTA-GTTACCTTTTTT
15647767 CTCTAACACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 3 0.11
33 24 0.89
ACGTcount: A:0.17, C:0.11, G:0.03, T:0.69
Consensus pattern (33 bp):
CTTTATCTTATTTATGTTAGTTACCTTTTTTTA
Found at i:15651907 original size:43 final size:45
Alignment explanation
Indices: 15651846--15651956 Score: 163
Period size: 47 Copynumber: 2.5 Consensus size: 45
15651836 GTAAGTATGC
15651846 AAATAAGCTTACGAGCTTATGAA-T-AATGGCAAGTATATTGATA
1 AAATAAGCTTACGAGCTTATGAATTAAATGGCAAGTATATTGATA
* * *
15651889 AAATAAGCTTACGAGCTTATAGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTAT-GAA-TTAAATGGCAAGTATATTGATA
15651936 AAATAAGCTTACGAGCTTATG
1 AAATAAGCTTACGAGCTTATG
15651957 GTATAAATGG
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
43 20 0.33
44 3 0.05
46 2 0.03
47 36 0.59
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGAATTAAATGGCAAGTATATTGATA
Found at i:15652488 original size:12 final size:12
Alignment explanation
Indices: 15652469--15652501 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
15652459 GCATCGATAC
15652469 ACTGTTCACGGT
1 ACTGTTCACGGT
*
15652481 ATTGTTCACGGT
1 ACTGTTCACGGT
15652493 ACTGTTCAC
1 ACTGTTCAC
15652502 TATTCACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.36
Consensus pattern (12 bp):
ACTGTTCACGGT
Found at i:15658333 original size:18 final size:18
Alignment explanation
Indices: 15658310--15658345 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
15658300 AGGTTAGCCC
15658310 TATGTCAAATGTTGTTGT
1 TATGTCAAATGTTGTTGT
15658328 TATGTCAAATGTTGTTGT
1 TATGTCAAATGTTGTTGT
15658346 CTGAATTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.22, T:0.50
Consensus pattern (18 bp):
TATGTCAAATGTTGTTGT
Found at i:15660369 original size:12 final size:13
Alignment explanation
Indices: 15660347--15660375 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
15660337 CTAAATTGAA
15660347 AAAAGAGAAAAAG
1 AAAAGAGAAAAAG
15660360 AAAA-AGAAAAAG
1 AAAAGAGAAAAAG
15660372 AAAA
1 AAAA
15660376 TAAGGAGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAGAGAAAAAG
Found at i:15662568 original size:22 final size:22
Alignment explanation
Indices: 15662543--15662592 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
15662533 GAAAAATCGG
15662543 AAGCAAGCCTTGTAAATTTCGA
1 AAGCAAGCCTTGTAAATTTCGA
15662565 AAGCAAGCCTTGTAAATTTCGA
1 AAGCAAGCCTTGTAAATTTCGA
15662587 AAGCAA
1 AAGCAA
15662593 AGAGAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (22 bp):
AAGCAAGCCTTGTAAATTTCGA
Found at i:15663421 original size:15 final size:15
Alignment explanation
Indices: 15663397--15663431 Score: 54
Period size: 14 Copynumber: 2.3 Consensus size: 15
15663387 TTACCATTAT
15663397 TTTTTATTATTTTTTA
1 TTTTTATTA-TTTTTA
15663413 TTTTT-TTATTTTTA
1 TTTTTATTATTTTTA
15663427 TTTTT
1 TTTTT
15663432 CCCCTATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.58
15 3 0.16
16 5 0.26
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTATTATTTTTA
Found at i:15664718 original size:13 final size:13
Alignment explanation
Indices: 15664654--15664712 Score: 91
Period size: 13 Copynumber: 4.5 Consensus size: 13
15664644 GTCATAAATC
*
15664654 TATGACGCGCATT
1 TATGACGCACATT
*
15664667 TATGACACACATT
1 TATGACGCACATT
*
15664680 TATGACACACATT
1 TATGACGCACATT
15664693 TATGACGCACATT
1 TATGACGCACATT
15664706 TATGACG
1 TATGACG
15664713 TTCATTGAGC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (13 bp):
TATGACGCACATT
Found at i:15670791 original size:6 final size:6
Alignment explanation
Indices: 15670776--15670864 Score: 76
Period size: 6 Copynumber: 15.0 Consensus size: 6
15670766 GTTGTATCTG
* * *
15670776 TAATAA -AATAA TAATAT TAATAA TAATAA TATTAA TAACAA -AACTAA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAA-TAA
* * * *
15670823 TAAAAA TAAAAA TAAAAA TAAAAA TAATAA -ATATAA TAATAA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TA-ATAA TAATAA
15670865 AACCAAATGT
Statistics
Matches: 70, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
5 8 0.11
6 59 0.84
7 3 0.04
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (6 bp):
TAATAA
Found at i:15670802 original size:15 final size:15
Alignment explanation
Indices: 15670782--15670813 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
15670772 TCTGTAATAA
15670782 AATAATAATATTAAT
1 AATAATAATATTAAT
15670797 AATAATAATATTAAT
1 AATAATAATATTAAT
15670812 AA
1 AA
15670814 CAAAACTAAT
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATAATAATATTAAT
Found at i:15670845 original size:27 final size:27
Alignment explanation
Indices: 15670815--15670866 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
15670805 TATTAATAAC
*
15670815 AAAACTAATAAAAATAAAAATAAAAAT
1 AAAAATAATAAAAATAAAAATAAAAAT
* *
15670842 AAAAATAATAAATATAATAATAAAA
1 AAAAATAATAAAAATAAAAATAAAA
15670867 CCAAATGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (27 bp):
AAAAATAATAAAAATAAAAATAAAAAT
Found at i:15670851 original size:15 final size:15
Alignment explanation
Indices: 15670776--15670864 Score: 60
Period size: 15 Copynumber: 6.2 Consensus size: 15
15670766 GTTGTATCTG
*
15670776 TAAT-AAAATAATAA
1 TAATAAAAATAAAAA
* * *
15670790 TATTAATAATAATAA
1 TAATAAAAATAAAAA
* * * *
15670805 TATTAATAACAAAAC
1 TAATAAAAATAAAAA
15670820 TAATAAAAAT--AAA
1 TAATAAAAATAAAAA
15670833 -AATAAAAATAAAAA
1 TAATAAAAATAAAAA
* *
15670847 TAATAAATATAATAA
1 TAATAAAAATAAAAA
15670862 TAA
1 TAA
15670865 AACCAAATGT
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
12 9 0.15
13 2 0.03
14 6 0.10
15 43 0.72
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (15 bp):
TAATAAAAATAAAAA
Found at i:15671154 original size:36 final size:36
Alignment explanation
Indices: 15671114--15671202 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 36
15671104 TTGAACAAGC
* *
15671114 TCTTCTCATTGTGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAAT
*
15671150 TCTTCTCATTATGAACTTCTTTTTCTTCAGATGAAT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAAT
15671186 TCTTCTCATTATGAACT
1 TCTTCTCATTATGAACT
15671203 CTACCTGGCA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.20, C:0.21, G:0.10, T:0.48
Consensus pattern (36 bp):
TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAAT
Found at i:15671331 original size:38 final size:39
Alignment explanation
Indices: 15671256--15671358 Score: 145
Period size: 38 Copynumber: 2.6 Consensus size: 39
15671246 AGGTTGAACA
15671256 AATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGACG
1 AATTCTTCTCATTATGAAC----TCTTCCTTCTTCAGATGACG
15671299 AATTCTTCTCATTATGAACTCTT-CTTCTTCAGATGACG
1 AATTCTTCTCATTATGAACTCTTCCTTCTTCAGATGACG
* *
15671337 AGTTCTTCTGATTATGAACTCT
1 AATTCTTCTCATTATGAACTCT
15671359 ATCTGGCAAT
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
38 35 0.60
39 4 0.07
43 19 0.33
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.44
Consensus pattern (39 bp):
AATTCTTCTCATTATGAACTCTTCCTTCTTCAGATGACG
Found at i:15671342 original size:19 final size:19
Alignment explanation
Indices: 15671284--15671345 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
15671274 CTTATTCTTC
15671284 CTTCTTCAGATGACGAATT
1 CTTCTTCAGATGACGAATT
* **
15671303 CTTC-TCATTATGAAC-TCTT
1 CTTCTTCA-GATG-ACGAATT
*
15671322 CTTCTTCAGATGACGAGTT
1 CTTCTTCAGATGACGAATT
15671341 CTTCT
1 CTTCT
15671346 GATTATGAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
18 5 0.15
19 23 0.70
20 5 0.15
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (19 bp):
CTTCTTCAGATGACGAATT
Found at i:15671377 original size:154 final size:147
Alignment explanation
Indices: 15671097--15671473 Score: 573
Period size: 154 Copynumber: 2.5 Consensus size: 147
15671087 TAGAATTATG
** *
15671097 CAAAAGGTTGAACAAGCTCTTCTCATTGTGAAC--TTCTT-CTTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
15671159 TATGAACTTCTTTTTCTTCAGATGAATTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCA
66 TATGAAC-TCTTCTTCTTCAGATGAATTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCA
*
15671224 TCAAATGATGAATTTACA
130 TCAAATGATGAATTTAAA
15671242 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGACGAATTCTTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTT-TTCTTCCTTCTTCAGATGA-G--TTCTTC
* *
15671307 TCATTATGAACTCTTCTTCTTCAGATGACGAGTTCTTCTGATTATGAACTCTATCTGGCAATGTT
62 TCATTATGAACTCTTCTTCTTCAGATGA--A-TTCTTCTCATTATGAACTCTACCTGGCAATGTT
*
15671372 AATCCATCAATTGATGAATTTAAA
124 AATCCATCAAATGATGAATTTAAA
15671396 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTT-TTCTTCCTTCTTCAGATGAGTTCTTCTCA
15671461 TTATGAACT-TTCT
65 TTATGAACTCTTCT
15671474 CTGGAAAAGC
Statistics
Matches: 213, Mismatches: 9, Indels: 15
0.90 0.04 0.06
Matches are distributed among these distances:
145 30 0.14
148 5 0.02
149 13 0.06
150 5 0.02
151 34 0.16
152 17 0.08
153 2 0.01
154 107 0.50
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (147 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTCTTCTTCTTCAGATGAATTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCAT
CAAATGATGAATTTAAA
Found at i:15671469 original size:113 final size:113
Alignment explanation
Indices: 15671299--15672072 Score: 1108
Period size: 113 Copynumber: 6.9 Consensus size: 113
15671289 TCAGATGACG
** * * *
15671299 AATTCTTCTCATTATGAAC-TCTTCTT-CTTC-AGATGACGAGTTCTTCTGATTATGAACTCTAT
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA-GATGAGTTCTTCTCATTATGAACTCTAA
* * * * * *
15671361 CTGGCAATGTTAATCCATCAATTGATGAATTTAAACAAAAGGTTGAACA
65 CTGGAAAAGTTGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACA
* **
15671410 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAAC
* * * * *
15671475 TGGAAAAGCTGATCCATCAATTGATGAATTCAGGCAAAAGGTTGAACA
66 TGGAAAAGTTGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACA
* * **
15671523 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAAC
* * *
15671588 TGGAAAGGTTGATCCATTAAGTGATGGATTTAAACAAAAGGTTGAACA
66 TGGAAAAGTTGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACA
* * ** *
15671636 AATTATTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTTTTCTTGTTATGAACTCGAAC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAAC
*
15671701 TGGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
66 TGGAAAAGTTGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACA
* *
15671749 AATTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCAAAC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAAC
*
15671814 TGGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
66 TGGAAAAGTTGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACA
**
15671862 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTAGAAC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAAC
*
15671927 TGGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
66 TGGAAAAGTTGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACA
*
15671975 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAAC
** *
15672040 T-GACACTGTTGATCCATTGAA-TGATGGATTTAA
66 TGGA-AAAGTTGATCCA-TCAAGTGATGGATTTAA
15672073 ATCTTTGTTA
Statistics
Matches: 609, Mismatches: 49, Indels: 8
0.91 0.07 0.01
Matches are distributed among these distances:
111 19 0.03
112 9 0.01
113 577 0.95
114 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.37
Consensus pattern (113 bp):
AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAAC
TGGAAAAGTTGATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAACA
Found at i:15673051 original size:83 final size:83
Alignment explanation
Indices: 15672904--15673381 Score: 740
Period size: 83 Copynumber: 5.7 Consensus size: 83
15672894 TTGGTTTTGG
*
15672904 GGTTCATACCAAACCAGATCAGATAACTCAAAAAACACTTCCAGAAGATGCTATGAGCACATTCA
1 GGTTC-TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCA
15672969 TCTTTCAAATTCAATGATT
65 TCTTTCAAATTCAATGATT
* *
15672988 GGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATGAGCACATTCAT
1 GGTTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCAT
*
15673053 CTTTCAAATTCAATAATT
66 CTTTCAAATTCAATGATT
* * *
15673071 GGTTCTACCAAACCTGATCAGATAACTCAAAGAACACTTTCAAAAGATGCTATGAGCACATTCAT
1 GGTTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCAT
* *
15673136 CTTTCAAATTCAATAACT
66 CTTTCAAATTCAATGATT
* * *
15673154 GGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTCCT
1 GGTTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCAT
* *
15673219 CTTCCAATTTCAATGATT
66 CTTTCAAATTCAATGATT
* * * *
15673237 GGTTCTGCCAAACCTGATCAGATAACTCAAAGAACACTTCCAGAAGATGATATGAGCATATTCAT
1 GGTTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCAT
**
15673302 CTCCCAAATTCAATGATT
66 CTTTCAAATTCAATGATT
* * *
15673320 GGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGAGTACATT
1 GGTTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT
15673382 GCATTTGTTC
Statistics
Matches: 361, Mismatches: 33, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
83 356 0.99
84 5 0.01
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.27
Consensus pattern (83 bp):
GGTTCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCAT
CTTTCAAATTCAATGATT
Found at i:15674527 original size:1 final size:1
Alignment explanation
Indices: 15674517--15674591 Score: 51
Period size: 1 Copynumber: 75.0 Consensus size: 1
15674507 TTGACCTCCC
* * * * * * * * * *
15674517 TTTTTCTTTTTCTTTTCTCTTTTTTTTTCTTTCTTTTTTTTCTCTTTTTCTTCTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
15674582 TTCTTTTTTT
1 TTTTTTTTTT
15674592 CTTCAAGCAT
Statistics
Matches: 52, Mismatches: 22, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (1 bp):
T
Found at i:15674534 original size:11 final size:11
Alignment explanation
Indices: 15674516--15674588 Score: 70
Period size: 10 Copynumber: 7.0 Consensus size: 11
15674506 CTTGACCTCC
15674516 CTTTTTCTTTTT
1 CTTTTTC-TTTT
15674528 CTTTTCTCTTTT
1 CTTTT-TCTTTT
15674540 -TTTTTC-TTT
1 CTTTTTCTTTT
15674549 CTTTTT-TTTCT
1 CTTTTTCTTT-T
15674560 CTTTTTC--TT
1 CTTTTTCTTTT
15674569 CTTTTT-TTTT
1 CTTTTTCTTTT
15674579 -TTTTTCTTTT
1 CTTTTTCTTTT
15674589 TTTCTTCAAG
Statistics
Matches: 53, Mismatches: 0, Indels: 18
0.75 0.00 0.25
Matches are distributed among these distances:
9 15 0.28
10 16 0.30
11 11 0.21
12 9 0.17
13 2 0.04
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:15674576 original size:36 final size:35
Alignment explanation
Indices: 15674517--15674591 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 35
15674507 TTGACCTCCC
*
15674517 TTTTTCTTTTTCTTTTCTCTTTTTTTTTCTTTCTTT
1 TTTTTCTTTTTCTCTTCTCTTTTTTTTT-TTTCTTT
*
15674553 TTTTTCTCTTTT-TCTTCTTTTTTTTTTTTTTCTTT
1 TTTTTCT-TTTTCTCTTCTCTTTTTTTTTTTTCTTT
15674588 TTTT
1 TTTT
15674592 CTTCAAGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
35 11 0.31
36 21 0.58
37 4 0.11
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (35 bp):
TTTTTCTTTTTCTCTTCTCTTTTTTTTTTTTCTTT
Found at i:15674589 original size:11 final size:11
Alignment explanation
Indices: 15674517--15674594 Score: 84
Period size: 11 Copynumber: 6.7 Consensus size: 11
15674507 TTGACCTCCC
15674517 TTTTTCTTTTT
1 TTTTTCTTTTT
*
15674528 CTTTTCTCTTTT
1 TTTTTCT-TTTT
15674540 TTTTTCTTTCTTT
1 TTTTTC-TT-TTT
*
15674553 TTTTTCTCTTT
1 TTTTTCTTTTT
*
15674564 TTCTTCTTTTT
1 TTTTTCTTTTT
*
15674575 TTTTTTTTTCTT
1 TTTTTCTTT-TT
15674587 TTTTTCTT
1 TTTTTCTT
15674595 CAAGCATAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
11 25 0.45
12 20 0.36
13 10 0.18
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:15674593 original size:23 final size:22
Alignment explanation
Indices: 15674517--15674594 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 22
15674507 TTGACCTCCC
*
15674517 TTTTTCTTTTTCTTTTCTCTT-TT
1 TTTTTCTTTTT-TTTT-TTTTCTT
*
15674540 TTTTTCTTTCTTTTTTTTCTCTT
1 TTTTTCTTT-TTTTTTTTTTCTT
15674563 TTTCTTCTTTTTTTTTTTTTTCTT
1 TTT-TTC-TTTTTTTTTTTTTCTT
15674587 TTTTTCTT
1 TTTTTCTT
15674595 CAAGCATAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
22 4 0.08
23 21 0.44
24 20 0.42
25 3 0.06
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (22 bp):
TTTTTCTTTTTTTTTTTTTCTT
Found at i:15674593 original size:34 final size:36
Alignment explanation
Indices: 15674517--15674591 Score: 109
Period size: 35 Copynumber: 2.1 Consensus size: 36
15674507 TTGACCTCCC
*
15674517 TTTTTCTTTTTCTTTTCTCTTTTTTTTTCTTTCTTT
1 TTTTTCTTTTTCTCTTCTCTTTTTTTTTCTTTCTTT
*
15674553 TTTTTCTCTTTT-TCTTCT-TTTTTTTTTTTTTCTTT
1 TTTTTCT-TTTTCTCTTCTCTTTTTTTTTCTTTCTTT
15674588 TTTT
1 TTTT
15674592 CTTCAAGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
35 20 0.56
36 12 0.33
37 4 0.11
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (36 bp):
TTTTTCTTTTTCTCTTCTCTTTTTTTTTCTTTCTTT
Found at i:15680789 original size:46 final size:45
Alignment explanation
Indices: 15680715--15680806 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 45
15680705 TTGTCTGAAT
*
15680715 GTTTCATTATTCTTTTCTCCAATTTTTGGATAGTCCATCTATCAG
1 GTTTCATTATTCTTTTCTCCAAATTTTGGATAGTCCATCTATCAG
15680760 GTTTCATTATTCTTTTTCTCCAAATTTTGGATAGTCCATCTATCAG
1 GTTTCATTATTC-TTTTCTCCAAATTTTGGATAGTCCATCTATCAG
15680806 G
1 G
15680807 GACCATGTCT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 12 0.27
46 33 0.73
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.48
Consensus pattern (45 bp):
GTTTCATTATTCTTTTCTCCAAATTTTGGATAGTCCATCTATCAG
Found at i:15685106 original size:24 final size:23
Alignment explanation
Indices: 15685079--15685123 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
15685069 ATGAAATATT
15685079 AATAATATATATAAATACTATAAA
1 AATAATATATATAAATA-TATAAA
* *
15685103 AATAATATGTATATATATATA
1 AATAATATATATAAATATATA
15685124 TATATATAAT
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:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (23 bp):
AATAATATATATAAATATATAAA
Found at i:15685569 original size:11 final size:11
Alignment explanation
Indices: 15685553--15685577 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15685543 ATTATTATAA
15685553 ATTCAAAAAAT
1 ATTCAAAAAAT
15685564 ATTCAAAAAAT
1 ATTCAAAAAAT
15685575 ATT
1 ATT
15685578 TAATTTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (11 bp):
ATTCAAAAAAT
Done.