Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 96 of 130
Found at i:18842478 original size:63 final size:66
Alignment explanation
Indices: 18842411--18842546 Score: 160
Period size: 65 Copynumber: 2.1 Consensus size: 66
18842401 TAGATAAGTA
*
18842411 AAAATACA-A-AAATGAATAA-AATAAAA-AAGATAAA-AAATATATATATATA-T-ATACATAA
1 AAAATACACATAAAT-AATAACAA-AAAATAA-ATAAATAAATATATACATATATTAATACAT-A
18842469 ATAAT
62 ATAAT
*
18842474 AAAATACACATAAATATTAACAAAAAATAAATAAATAAATATATACATATATTAATACATAATAA
1 AAAATACACATAAATAATAACAAAAAATAAATAAATAAATATATACATATATTAATACATAATAA
18842539 T
66 T
18842540 AATAATA
1 AA-AATA
18842547 AATAATACAA
Statistics
Matches: 63, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
63 8 0.13
64 14 0.22
65 22 0.35
66 9 0.14
67 10 0.16
ACGTcount: A:0.66, C:0.05, G:0.01, T:0.27
Consensus pattern (66 bp):
AAAATACACATAAATAATAACAAAAAATAAATAAATAAATATATACATATATTAATACATAATAA
T
Found at i:18849624 original size:26 final size:26
Alignment explanation
Indices: 18849573--18849626 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
18849563 TTTCTTATTT
***
18849573 TTTAATAATTTTTTTATTTTTATTAA
1 TTTAATAATTTTTTTAAAATTATTAA
18849599 TTTAATAATTATTTTTAAAATT-TTAA
1 TTTAATAATT-TTTTTAAAATTATTAA
18849625 TT
1 TT
18849627 CCTTTAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (26 bp):
TTTAATAATTTTTTTAAAATTATTAA
Found at i:18849625 original size:18 final size:18
Alignment explanation
Indices: 18849571--18849626 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 18
18849561 ATTTTCTTAT
*
18849571 TTTTTAATAATTTT-TTTA
1 TTTTTAA-AATTTTAATTA
*
18849589 TTTTTATTAATTTAATAATTA
1 TTTTTA-AAATTT--TAATTA
18849610 TTTTTAAAATTTTAATT
1 TTTTTAAAATTTTAATT
18849627 CCTTTAAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
18 16 0.52
20 6 0.19
21 9 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTAAAATTTTAATTA
Found at i:18849910 original size:25 final size:23
Alignment explanation
Indices: 18849868--18849928 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
18849858 TTTGTTTCGT
*
18849868 TTTTTTATCTTTTTCTTTTTTAAAA
1 TTTTTT-TCTTTTAC-TTTTTAAAA
**
18849893 TTTTTTTCTATTTACTTTTTAATT
1 TTTTTTTCT-TTTACTTTTTAAAA
18849917 TTTTTTTCTTTT
1 TTTTTTTCTTTT
18849929 TTTAATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 3 0.09
24 19 0.59
25 10 0.31
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTTTTTCTTTTACTTTTTAAAA
Found at i:18851647 original size:22 final size:21
Alignment explanation
Indices: 18851621--18851679 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 21
18851611 GTTTATTATT
*
18851621 TATTTAATTTTATATTTATAAA
1 TATTT-ATTTTATATTAATAAA
18851643 TATTTATGTATTATATTAATAAA
1 TATTTAT-T-TTATATTAATAAA
18851666 -ATTATTATTTTATA
1 TA-T-TTATTTTATA
18851680 CTTTTATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
21 2 0.06
22 12 0.38
23 14 0.44
24 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
TATTTATTTTATATTAATAAA
Found at i:18856076 original size:13 final size:13
Alignment explanation
Indices: 18856058--18856083 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18856048 ATCTTCATTA
18856058 GCAAAGGAGAAAC
1 GCAAAGGAGAAAC
18856071 GCAAAGGAGAAAC
1 GCAAAGGAGAAAC
18856084 AAAAACAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.31, T:0.00
Consensus pattern (13 bp):
GCAAAGGAGAAAC
Found at i:18856174 original size:21 final size:21
Alignment explanation
Indices: 18856149--18856188 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18856139 AATGAAAAAA
*
18856149 ATTGACAATCTGAAACAATGG
1 ATTGACAATCTCAAACAATGG
**
18856170 ATTGATTATCTCAAACAAT
1 ATTGACAATCTCAAACAAT
18856189 AAAGACACTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (21 bp):
ATTGACAATCTCAAACAATGG
Found at i:18858198 original size:20 final size:20
Alignment explanation
Indices: 18858173--18858231 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
18858163 CAGGTCCGGG
18858173 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
18858193 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
* *
18858213 CCCAGATCATTTGGGCCTG
1 CCCGGATCAATTGGGCCTG
18858232 GCCCAAATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.22
Consensus pattern (20 bp):
CCCGGATCAATTGGGCCTGA
Found at i:18858280 original size:7 final size:7
Alignment explanation
Indices: 18858268--18858303 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
18858258 TTTTTACCCG
18858268 TATTTTT
1 TATTTTT
18858275 TATTTTT
1 TATTTTT
18858282 TA-TTTT
1 TATTTTT
18858288 TATTTTAT
1 TATTTT-T
18858296 TATTTTT
1 TATTTTT
18858303 T
1 T
18858304 TTCTCTCTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.22
7 14 0.52
8 7 0.26
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
TATTTTT
Found at i:18858285 original size:14 final size:15
Alignment explanation
Indices: 18858268--18858303 Score: 58
Period size: 13 Copynumber: 2.5 Consensus size: 15
18858258 TTTTTACCCG
18858268 TATTTTTTATTTT-T
1 TATTTTTTATTTTAT
18858282 TA-TTTTTATTTTAT
1 TATTTTTTATTTTAT
18858296 TATTTTTT
1 TATTTTTT
18858304 TTCTCTCTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 10 0.50
14 5 0.25
15 5 0.25
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TATTTTTTATTTTAT
Found at i:18858545 original size:11 final size:12
Alignment explanation
Indices: 18858524--18858557 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
18858514 AATTATCTAG
*
18858524 ATTTTTTTTTTA
1 ATTTTTATTTTA
18858536 A-TTTTATTTTA
1 ATTTTTATTTTA
18858547 ATTTTTATTTT
1 ATTTTTATTTT
18858558 GGAGGGCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
ATTTTTATTTTA
Found at i:18858909 original size:31 final size:32
Alignment explanation
Indices: 18858874--18858939 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 32
18858864 AATTTCCAGA
*
18858874 TTCCGACGAAAATTCCGGCG-ACTTTTGAA-TT
1 TTCCGACCAAAATTCCGGCGAAC-TTTGAAGTT
* *
18858905 TTCCGGCCACAATTCCGGCGAACTTTGAAGTT
1 TTCCGACCAAAATTCCGGCGAACTTTGAAGTT
18858937 TTC
1 TTC
18858940 GGCGACAGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 23 0.77
32 7 0.23
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (32 bp):
TTCCGACCAAAATTCCGGCGAACTTTGAAGTT
Found at i:18859032 original size:19 final size:19
Alignment explanation
Indices: 18859008--18859052 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
18858998 TCCGGCCAAT
18859008 TTCCGGTGAAATTCCCAGA
1 TTCCGGTGAAATTCCCAGA
* * *
18859027 TTCCGGCGAATTTTCCAGA
1 TTCCGGTGAAATTCCCAGA
*
18859046 ATCCGGT
1 TTCCGGT
18859053 ACCGGCGTTC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (19 bp):
TTCCGGTGAAATTCCCAGA
Found at i:18859286 original size:64 final size:64
Alignment explanation
Indices: 18859212--18859342 Score: 262
Period size: 64 Copynumber: 2.0 Consensus size: 64
18859202 CGCGCGTTTT
18859212 GCCGAACCCGACCCGACCCGAAGCGTCGACCCGCTTTCTGACCCGCGCGTTTCAGCCCCTCCGA
1 GCCGAACCCGACCCGACCCGAAGCGTCGACCCGCTTTCTGACCCGCGCGTTTCAGCCCCTCCGA
18859276 GCCGAACCCGACCCGACCCGAAGCGTCGACCCGCTTTCTGACCCGCGCGTTTCAGCCCCTCCGA
1 GCCGAACCCGACCCGACCCGAAGCGTCGACCCGCTTTCTGACCCGCGCGTTTCAGCCCCTCCGA
18859340 GCC
1 GCC
18859343 TAGCCGAGCC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.15, C:0.47, G:0.24, T:0.14
Consensus pattern (64 bp):
GCCGAACCCGACCCGACCCGAAGCGTCGACCCGCTTTCTGACCCGCGCGTTTCAGCCCCTCCGA
Found at i:18859352 original size:5 final size:5
Alignment explanation
Indices: 18859336--18859378 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
18859326 TTCAGCCCCT
* *
18859336 CCGAG CCTAG CCGAG CCGAG CCGAG CCGCA- CCAAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCG-AG CCGAG CCGAG CCG
18859379 CGATCCGAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 1 0.03
5 30 0.94
6 1 0.03
ACGTcount: A:0.21, C:0.44, G:0.33, T:0.02
Consensus pattern (5 bp):
CCGAG
Found at i:18859421 original size:13 final size:13
Alignment explanation
Indices: 18859403--18859438 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
18859393 CCAGGTTTTT
18859403 TTTTTTTTTTGAA
1 TTTTTTTTTTGAA
18859416 TTTTTTTTTTGAA
1 TTTTTTTTTTGAA
18859429 TTTTTTTTTT
1 TTTTTTTTTT
18859439 TTACTTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (13 bp):
TTTTTTTTTTGAA
Found at i:18859439 original size:32 final size:30
Alignment explanation
Indices: 18859398--18859474 Score: 82
Period size: 32 Copynumber: 2.5 Consensus size: 30
18859388 CCGCTCCAGG
** *
18859398 TTTTTTTTTTTTTTTGAATTTTTTTTTTGAAT
1 TTTTTTTTTTTTTTTG-ATTTTGATCTTG-AT
*
18859430 TTTTTTTTTTTACTTTGATTTTGATCTTGAT
1 TTTTTTTTTTT-TTTTGATTTTGATCTTGAT
*
18859461 TTTTTTTCTTTTTT
1 TTTTTTTTTTTTTT
18859475 CTTTAATTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
30 2 0.05
31 12 0.32
32 20 0.53
33 4 0.11
ACGTcount: A:0.10, C:0.04, G:0.06, T:0.79
Consensus pattern (30 bp):
TTTTTTTTTTTTTTTGATTTTGATCTTGAT
Found at i:18859440 original size:33 final size:32
Alignment explanation
Indices: 18859398--18859482 Score: 84
Period size: 33 Copynumber: 2.6 Consensus size: 32
18859388 CCGCTCCAGG
** *
18859398 TTTTTTTTTTTTTTTGAATTTTTTTTTTGAATT
1 TTTTTTTTTTTTTTTGAATTTTGATCTTG-ATT
**
18859431 TTTTTTTTTTACTTTG-ATTTTGATCTTGATT
1 TTTTTTTTTTTTTTTGAATTTTGATCTTGATT
18859462 TTTTTTCTTTTTTCTTT-AATT
1 TTTTTT-TTTTTT-TTTGAATT
18859483 AATCCGACGA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
31 9 0.21
32 13 0.31
33 20 0.48
ACGTcount: A:0.12, C:0.05, G:0.06, T:0.78
Consensus pattern (32 bp):
TTTTTTTTTTTTTTTGAATTTTGATCTTGATT
Found at i:18859722 original size:161 final size:161
Alignment explanation
Indices: 18859457--18859914 Score: 777
Period size: 156 Copynumber: 2.9 Consensus size: 161
18859447 ATTTTGATCT
* *
18859457 TGATTTT--TTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAG
1 TGATTTTGATTTT-TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAG
18859520 TTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
64 TTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
*
18859585 TTGAGAATAATTTCCGATAATTAATTACTTGGC
129 TTGAGAATAATTTCCGATAATTAATTAATTGGC
18859618 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
1 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
18859683 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
66 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
* *
18859748 GAGAATAATTTTCGATAATTAATTAATTGGT
131 GAGAATAATTTCCGATAATTAATTAATTGGC
* *
18859779 TGATCTTGA-----TTTTTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
1 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
*
18859839 TTTCTTGCATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
66 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
18859904 GAGAATAATTT
131 GAGAATAATTT
18859915 TCAACAACTA
Statistics
Matches: 287, Mismatches: 8, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
156 125 0.44
161 119 0.41
162 39 0.14
163 4 0.01
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (161 bp):
TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
GAGAATAATTTCCGATAATTAATTAATTGGC
Found at i:18863656 original size:16 final size:16
Alignment explanation
Indices: 18863621--18863692 Score: 72
Period size: 16 Copynumber: 4.4 Consensus size: 16
18863611 GGGGAAGAAT
** *
18863621 GAAAAAAAAAGATGAT
1 GAAAAAAAAAGAAAAA
18863637 GAAAAAAAAAGAAAAA
1 GAAAAAAAAAGAAAAA
*
18863653 GAAAAAGAAAGAAAGAA
1 GAAAAAAAAAGAAA-AA
** *
18863670 GAAAAAATGAGAAAAT
1 GAAAAAAAAAGAAAAA
18863686 GAAAAAA
1 GAAAAAA
18863693 TGAAAAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
16 34 0.72
17 13 0.28
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (16 bp):
GAAAAAAAAAGAAAAA
Found at i:18863658 original size:17 final size:17
Alignment explanation
Indices: 18863615--18863676 Score: 74
Period size: 16 Copynumber: 3.7 Consensus size: 17
18863605 ATAATAGGGG
18863615 AAGAATGAAAAAAAAAG-
1 AAGAA-GAAAAAAAAAGA
* *
18863632 ATGATGAAAAAAAAAGA
1 AAGAAGAAAAAAAAAGA
*
18863649 AA-AAGAAAAAGAAAGA
1 AAGAAGAAAAAAAAAGA
18863665 AAGAAGAAAAAA
1 AAGAAGAAAAAA
18863677 TGAGAAAATG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
16 25 0.68
17 12 0.32
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (17 bp):
AAGAAGAAAAAAAAAGA
Found at i:18863682 original size:17 final size:16
Alignment explanation
Indices: 18863646--18863713 Score: 68
Period size: 16 Copynumber: 4.2 Consensus size: 16
18863636 TGAAAAAAAA
*
18863646 AGAAAAAGAAAAAGA-A
1 AGAAAAAGAAAAA-ATG
18863662 AGAAAGAAGAAAAAATG
1 AGAAA-AAGAAAAAATG
*
18863679 AGAAAATGAAAAAATG
1 AGAAAAAGAAAAAATG
*
18863695 AAAAAAATGAAAAAA-G
1 AGAAAAA-GAAAAAATG
18863711 AGA
1 AGA
18863714 TCCAAATTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
16 24 0.55
17 20 0.45
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (16 bp):
AGAAAAAGAAAAAATG
Found at i:18863693 original size:16 final size:16
Alignment explanation
Indices: 18863670--18863713 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
18863660 AAAGAAAGAA
18863670 GAAAAAATGAGAAAAT
1 GAAAAAATGAGAAAAT
*
18863686 GAAAAAATGAAAAAAAT
1 GAAAAAATG-AGAAAAT
18863703 GAAAAAA-GAGA
1 GAAAAAATGAGA
18863714 TCCAAATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 10 0.40
17 13 0.52
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.09
Consensus pattern (16 bp):
GAAAAAATGAGAAAAT
Found at i:18863699 original size:9 final size:8
Alignment explanation
Indices: 18863670--18863709 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
18863660 AAAGAAAGAA
18863670 GAAAAAAT
1 GAAAAAAT
*
18863678 GAGAAAAT
1 GAAAAAAT
18863686 GAAAAAAT
1 GAAAAAAT
18863694 GAAAAAAAT
1 G-AAAAAAT
18863703 GAAAAAA
1 GAAAAAA
18863710 GAGATCCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 21 0.72
9 8 0.28
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (8 bp):
GAAAAAAT
Found at i:18864973 original size:41 final size:40
Alignment explanation
Indices: 18864902--18865307 Score: 554
Period size: 41 Copynumber: 10.0 Consensus size: 40
18864892 GTCTAGGAGT
*
18864902 ATTTACTTTTCCAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
18864942 ATTTACTTTTCAAAAGTCGTGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTC-AAAGTCGTGTGCCTCTGTTTAGAGGAGCA
18864983 ATTTACTTTTCAAAAGTCGTGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTC-AAAGTCGTGTGCCTCTGTTTAGAGGAGCA
18865024 ATTTACTTTTTCAAAGTTCGT-TGCCCTCTG-TTAGAGGAGCA
1 ATTTAC-TTTTCAAAG-TCGTGTG-CCTCTGTTTAGAGGAGCA
*
18865065 ATTTATTTTTTCAAAGTTCCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTA-CTTTTCAAAG-T-CGTGTGCCTCTGTTTAGAGGAGCA
18865107 A-TTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
* *
18865146 ATTTACTTTCCAAAGTCGTGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCA
* * *
18865186 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
18865227 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
* * **
18865268 ATTTATTTTTCAAAGTCGTAGAGCCTCTGTCAAGAGGAGC
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGC
18865308 TAAAAAAAAA
Statistics
Matches: 341, Mismatches: 14, Indels: 21
0.91 0.04 0.06
Matches are distributed among these distances:
39 28 0.08
40 76 0.22
41 205 0.60
42 32 0.09
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.37
Consensus pattern (40 bp):
ATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCA
Found at i:18865463 original size:20 final size:20
Alignment explanation
Indices: 18865438--18865496 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
18865428 CAGGTCCGGG
18865438 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
18865458 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
* *
18865478 CCCAGATCATTTGGGCCTG
1 CCCGGATCAATTGGGCCTG
18865497 GCCCAAATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.22
Consensus pattern (20 bp):
CCCGGATCAATTGGGCCTGA
Found at i:18865546 original size:7 final size:7
Alignment explanation
Indices: 18865534--18865568 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
18865524 TTTTTACCCG
18865534 TATTTTT
1 TATTTTT
18865541 TATTTTT
1 TATTTTT
18865548 TA-TTTT
1 TATTTTT
*
18865554 TATTTAT
1 TATTTTT
18865561 TATTTTT
1 TATTTTT
18865568 T
1 T
18865569 TCTCTCTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
TATTTTT
Found at i:18865553 original size:13 final size:13
Alignment explanation
Indices: 18865537--18865567 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
18865527 TTACCCGTAT
*
18865537 TTTTTATTTTTTA
1 TTTTTATTTATTA
18865550 TTTTTATTTATTA
1 TTTTTATTTATTA
18865563 TTTTT
1 TTTTT
18865568 TTCTCTCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTATTTATTA
Found at i:18865666 original size:16 final size:14
Alignment explanation
Indices: 18865647--18865688 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
18865637 AGAATAGATT
18865647 TATATGTATATAGTTA
1 TATATGTAT-TA-TTA
*
18865663 TATATTTATTATTA
1 TATATGTATTATTA
18865677 TATAT-TATTATT
1 TATATGTATTATT
18865689 CTTATCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 7 0.28
14 8 0.32
15 2 0.08
16 8 0.32
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (14 bp):
TATATGTATTATTA
Found at i:18865693 original size:16 final size:14
Alignment explanation
Indices: 18865660--18865688 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
18865650 ATGTATATAG
18865660 TTATATATTTATTA
1 TTATATATTTATTA
18865674 TTATATA-TTATTA
1 TTATATATTTATTA
18865687 TT
1 TT
18865689 CTTATCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATATATTTATTA
Found at i:18865809 original size:12 final size:12
Alignment explanation
Indices: 18865782--18865814 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
18865772 CAATATCTAG
18865782 ATTTTT-TTTTA
1 ATTTTTATTTTA
18865793 A-TTTTATTTTA
1 ATTTTTATTTTA
18865804 ATTTTTATTTT
1 ATTTTTATTTT
18865815 GGAGGCTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 4 0.20
11 7 0.35
12 9 0.45
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
ATTTTTATTTTA
Found at i:18866162 original size:31 final size:31
Alignment explanation
Indices: 18866127--18866197 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
18866117 AATTTCCAGA
*
18866127 TTCCGGCGAAAATTCCGGCG-ACTTTTGAATT
1 TTCCGGCGAAAATTCCGGCGAAC-TTTGAAGT
* *
18866158 TTCCGGCCACAATTCCGGCGAACTTTGAAGT
1 TTCCGGCGAAAATTCCGGCGAACTTTGAAGT
18866189 TTCCGGCGA
1 TTCCGGCGA
18866198 CAGACCCAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 33 0.94
32 2 0.06
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (31 bp):
TTCCGGCGAAAATTCCGGCGAACTTTGAAGT
Found at i:18866285 original size:19 final size:19
Alignment explanation
Indices: 18866261--18866304 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
18866251 TCCGGCCAAT
18866261 TTCCGGCGAAATTCCCAGA
1 TTCCGGCGAAATTCCCAGA
* *
18866280 TTCCGGCGAATTTTCCAGA
1 TTCCGGCGAAATTCCCAGA
*
18866299 ATCCGG
1 TTCCGG
18866305 TACCGGCGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (19 bp):
TTCCGGCGAAATTCCCAGA
Found at i:18866534 original size:5 final size:5
Alignment explanation
Indices: 18866524--18866551 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
18866514 TTCAGCCCCT
18866524 CCGAG CCGAG CCGAG CCGAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCG
18866552 CGATCCGAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.43, G:0.39, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:18866886 original size:161 final size:161
Alignment explanation
Indices: 18866620--18867078 Score: 759
Period size: 156 Copynumber: 2.9 Consensus size: 161
18866610 ATTTTGATCT
* * *
18866620 TGATTTT-TTTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAG
1 TGATTTTGATTTT-TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAG
18866684 TTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
64 TTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
*
18866749 TTGAGAATAATTTCCGATAATTAATTACTTGGC
129 TTGAGAATAATTTCCGATAATTAATTAATTGGC
*
18866782 TGATTTTGATTTTTTTTTTCTTTAATTAATTCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
1 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
*
18866847 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAATCAATT
66 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
* *
18866912 GAGAATAATTTTCGATAATTAATTAATTGGT
131 GAGAATAATTTCCGATAATTAATTAATTGGC
* *
18866943 TGATCTTGA-----TTTTTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
1 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
*
18867003 TTTCTTGCATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
66 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
18867068 GAGAATAATTT
131 GAGAATAATTT
18867079 TCAACAACTA
Statistics
Matches: 283, Mismatches: 13, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
156 123 0.43
161 111 0.39
162 45 0.16
163 4 0.01
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (161 bp):
TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
GAGAATAATTTCCGATAATTAATTAATTGGC
Found at i:18876867 original size:3 final size:3
Alignment explanation
Indices: 18876859--18876884 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18876849 TTGCGTTGAT
18876859 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
18876885 TTGTTTTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18885618 original size:25 final size:26
Alignment explanation
Indices: 18885556--18885618 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 26
18885546 TTAAATTTTA
* *
18885556 AATTGAATTTAAATTAATTTTTATAT
1 AATTTAATTTAAATTAAATTTTATAT
*
18885582 AATTTAATTTAAGTTAAATTTTA-AT
1 AATTTAATTTAAATTAAATTTTATAT
**
18885607 GGTTTAATTTAA
1 AATTTAATTTAA
18885619 TCAATTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 12 0.38
26 20 0.62
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.52
Consensus pattern (26 bp):
AATTTAATTTAAATTAAATTTTATAT
Found at i:18888017 original size:2 final size:2
Alignment explanation
Indices: 18888005--18888035 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
18887995 ACATACATAC
*
18888005 AT AT GT 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 A
18888036 AATGTTTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18890012 original size:14 final size:13
Alignment explanation
Indices: 18889984--18890021 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
18889974 CAGTTCATTA
*
18889984 ATTTTTTAAATTT
1 ATTTTTTATATTT
18889997 ATTTTTTATATGTT
1 ATTTTTTATAT-TT
18890011 ATTTTTTATAT
1 ATTTTTTATAT
18890022 AATTTTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (13 bp):
ATTTTTTATATTT
Found at i:18890026 original size:12 final size:13
Alignment explanation
Indices: 18889980--18890028 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
18889970 AATTCAGTTC
*
18889980 ATTAATTTTTTAA
1 ATTAATTTTTTAT
*
18889993 ATTTATTTTTTAT
1 ATTAATTTTTTAT
*
18890006 ATGTTATTTTTTAT
1 AT-TAATTTTTTAT
18890020 A-TAATTTTT
1 ATTAATTTTT
18890029 AATAAATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
12 7 0.22
13 13 0.41
14 12 0.38
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (13 bp):
ATTAATTTTTTAT
Found at i:18897121 original size:22 final size:22
Alignment explanation
Indices: 18897090--18897145 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
18897080 GAAAACCAAT
18897090 AATGATAGATTTGCACCCTGATA
1 AATGA-AGATTTGCACCCTGATA
18897113 AATGAAGATTTGCACCCTGATA
1 AATGAAGATTTGCACCCTGATA
18897135 AATGAAGATTT
1 AATGAAGATTT
18897146 AGTACATGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 28 0.85
23 5 0.15
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
AATGAAGATTTGCACCCTGATA
Found at i:18900734 original size:15 final size:15
Alignment explanation
Indices: 18900710--18900740 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18900700 AATATTATAA
*
18900710 TTTAATTAATTTAAT
1 TTTAAATAATTTAAT
18900725 TTTAAATAATTTAAT
1 TTTAAATAATTTAAT
18900740 T
1 T
18900741 CAAATTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTAAATAATTTAAT
Found at i:18901395 original size:37 final size:37
Alignment explanation
Indices: 18901325--18901397 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
18901315 AAAATTTAAA
* *
18901325 TAAAATTCTAAAAAATTAAAAAAATCTGAAATATTTT
1 TAAAATTATAAAAAATTAAAAAAAACTGAAATATTTT
**
18901362 TAAAATTATAAAAAATTAAAAAAAACTTCAATATTT
1 TAAAATTATAAAAAATTAAAAAAAACTGAAATATTT
18901398 AAAAAAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.34
Consensus pattern (37 bp):
TAAAATTATAAAAAATTAAAAAAAACTGAAATATTTT
Found at i:18901778 original size:19 final size:20
Alignment explanation
Indices: 18901734--18901771 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18901724 TTTATATTAT
18901734 ATTTTTTCAGAATTTTTAAA
1 ATTTTTTCAGAATTTTTAAA
*
18901754 ACTTTTT-AGAATGTTTTA
1 ATTTTTTCAGAAT-TTTTA
18901772 GATTTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (20 bp):
ATTTTTTCAGAATTTTTAAA
Found at i:18902023 original size:17 final size:17
Alignment explanation
Indices: 18902003--18902047 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
18901993 TATTTTTCTG
18902003 AATTTTTAAATT-TTCAT
1 AATTTTTAAATTCTT-AT
18902020 AATTTTTAAATTCTTAT
1 AATTTTTAAATTCTTAT
*
18902037 AATTTTCAAAT
1 AATTTTTAAAT
18902048 ATATTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 24 0.92
18 2 0.08
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTTTTAAATTCTTAT
Found at i:18902026 original size:10 final size:9
Alignment explanation
Indices: 18901987--18902090 Score: 58
Period size: 9 Copynumber: 11.4 Consensus size: 9
18901977 TTTATTAAAA
18901987 TTTATATATT
1 TTTATA-ATT
*
18901997 TTTCTGAATT
1 TTTAT-AATT
18902007 TTTA-AATT
1 TTTATAATT
*
18902015 TTCATAATT
1 TTTATAATT
18902024 TTTA-AATT
1 TTTATAATT
*
18902032 CTTATAATT
1 TTTATAATT
*
18902041 TTCAAATATATT
1 TT--TATA-ATT
18902053 TTTA-AACTT
1 TTTATAA-TT
18902062 TTTAT--TT
1 TTTATAATT
*
18902069 TTTATAAGT
1 TTTATAATT
18902078 TTTA-AATAT
1 TTTATAAT-T
18902087 TTTA
1 TTTA
18902091 GATTTTTTAA
Statistics
Matches: 73, Mismatches: 10, Indels: 23
0.69 0.09 0.22
Matches are distributed among these distances:
7 7 0.10
8 17 0.23
9 29 0.40
10 11 0.15
11 4 0.05
12 5 0.07
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (9 bp):
TTTATAATT
Found at i:18902116 original size:27 final size:26
Alignment explanation
Indices: 18902056--18902116 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 26
18902046 ATATATTTTT
* * **
18902056 AAACTTTTTATTTTTTATAAGTTTTA
1 AAACTTTTGATTTTTTAAAAAATTTA
18902082 AATA-TTTTAGATTTTTTAAAAAATTTA
1 AA-ACTTTT-GATTTTTTAAAAAATTTA
18902109 AAACTTTT
1 AAACTTTT
18902117 TAGAATTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (26 bp):
AAACTTTTGATTTTTTAAAAAATTTA
Found at i:18902769 original size:20 final size:22
Alignment explanation
Indices: 18902730--18902769 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
18902720 GATATTTGAA
*
18902730 ATTTAAAAATTTTTAATATAAT
1 ATTTAAAAATTTTGAATATAAT
18902752 ATTT-AAAA-TTTGAATATA
1 ATTTAAAAATTTTGAATATA
18902770 TTAATTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 4 0.24
22 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (22 bp):
ATTTAAAAATTTTGAATATAAT
Found at i:18903449 original size:11 final size:11
Alignment explanation
Indices: 18903433--18903457 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18903423 TATCCCACTC
18903433 TATAATAATTT
1 TATAATAATTT
18903444 TATAATAATTT
1 TATAATAATTT
18903455 TAT
1 TAT
18903458 GTACTAAACT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATAATAATTT
Found at i:18912621 original size:28 final size:28
Alignment explanation
Indices: 18912581--18912634 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
18912571 TTATGATATA
*
18912581 CGAAGTATCAACAGTAAGTCAAAGAACC
1 CGAAGTATCAACAATAAGTCAAAGAACC
18912609 CGAAGTATCAACAATAAGTCAAAGAA
1 CGAAGTATCAACAATAAGTCAAAGAA
18912635 TCCAAGGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.50, C:0.19, G:0.17, T:0.15
Consensus pattern (28 bp):
CGAAGTATCAACAATAAGTCAAAGAACC
Found at i:18917519 original size:11 final size:11
Alignment explanation
Indices: 18917498--18917536 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
18917488 TTTTTTACTT
*
18917498 TATTATTATTAT
1 TATT-TTATTAA
18917510 TATTTTATTAA
1 TATTTTATTAA
*
18917521 TCTTTTATTAA
1 TATTTTATTAA
18917532 TATTT
1 TATTT
18917537 ATCATAACGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:18918539 original size:21 final size:21
Alignment explanation
Indices: 18918497--18918555 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
18918487 TTAAATTTTA
*
18918497 TTATATGTAATTTGT-TTTAATT
1 TTATAT-TAATTT-TATTAAATT
18918519 TTATATTAATTTTATTAAATT
1 TTATATTAATTTTATTAAATT
* *
18918540 ATATTTTAA-TTTATTA
1 TTATATTAATTTTATTA
18918556 CTTAATTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 8 0.24
21 19 0.58
22 6 0.18
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (21 bp):
TTATATTAATTTTATTAAATT
Found at i:18918586 original size:37 final size:38
Alignment explanation
Indices: 18918538--18918612 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 38
18918528 TTTTATTAAA
* * *
18918538 TTATATTTTAATTTATTACTTAATTATTA-AATAATTT
1 TTATATATTAATATAATACTTAATTATTATAATAATTT
* *
18918575 TTATATATTAATATAATATTTAATTATTATTATAATTT
1 TTATATATTAATATAATACTTAATTATTATAATAATTT
18918613 ATGGTTATGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
37 25 0.78
38 7 0.22
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (38 bp):
TTATATATTAATATAATACTTAATTATTATAATAATTT
Found at i:18918594 original size:29 final size:29
Alignment explanation
Indices: 18918520--18918608 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 29
18918510 GTTTTAATTT
*
18918520 TATATTAATT--TTATTAAATTATATTTTAA
1 TATATTAATTAATTATTAAA-TA-ATTTTTA
* *
18918549 TTTATTACTTAATTATTAAATAATTTTTA
1 TATATTAATTAATTATTAAATAATTTTTA
* * *
18918578 TATATTAATATAA-TATTTAATTATTATTA
1 TATATTAAT-TAATTATTAAATAATTTTTA
18918607 TA
1 TA
18918609 ATTTATGGTT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
29 36 0.73
30 5 0.10
31 8 0.16
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (29 bp):
TATATTAATTAATTATTAAATAATTTTTA
Found at i:18918596 original size:19 final size:19
Alignment explanation
Indices: 18918557--18918610 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
18918547 AATTTATTAC
18918557 TTAATTATTAA-ATAAT-T
1 TTAATTATTAATATAATAT
*
18918574 TTTATATATTAATATAATAT
1 TTAAT-TATTAATATAATAT
*
18918594 TTAATTATTATTATAAT
1 TTAATTATTAATATAAT
18918611 TTATGGTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 4 0.13
18 6 0.19
19 16 0.52
20 5 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAATTATTAATATAATAT
Found at i:18918605 original size:11 final size:11
Alignment explanation
Indices: 18918512--18918611 Score: 53
Period size: 11 Copynumber: 8.6 Consensus size: 11
18918502 TGTAATTTGT
18918512 TTTAATT-TTA
1 TTTAATTATTA
18918522 TATTAATT-TTA
1 T-TTAATTATTA
*
18918533 TTAAATTA-TA
1 TTTAATTATTA
18918543 TTTTAATTTATTA
1 -TTTAA-TTATTA
*
18918556 CTTAATTATTA
1 TTTAATTATTA
** *
18918567 AATAATTTTTATA
1 TTTAA-TTAT-TA
*
18918580 TATTAATATAATA
1 T-TTAAT-TATTA
18918593 TTTAATTATTA
1 TTTAATTATTA
18918604 TTATAATT
1 TT-TAATT
18918612 TATGGTTATG
Statistics
Matches: 69, Mismatches: 11, Indels: 18
0.70 0.11 0.18
Matches are distributed among these distances:
10 8 0.12
11 29 0.42
12 20 0.29
13 8 0.12
14 4 0.06
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTAATTATTA
Found at i:18924703 original size:10 final size:10
Alignment explanation
Indices: 18924688--18924718 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
18924678 AAGTTTGTTT
18924688 GTGACTTATA
1 GTGACTTATA
18924698 GTGACTTATA
1 GTGACTTATA
*
18924708 GTAACTTATA
1 GTGACTTATA
18924718 G
1 G
18924719 AGGAATGGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (10 bp):
GTGACTTATA
Found at i:18928145 original size:21 final size:20
Alignment explanation
Indices: 18928107--18928147 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
18928097 ATAAAAAATT
18928107 ATTTTTTAATTAATTATTTA
1 ATTTTTTAATTAATTATTTA
18928127 ATTTTTT-ATTATATATATTTA
1 ATTTTTTAATTA-AT-TATTTA
18928148 TATAATGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTTTTTAATTAATTATTTA
Found at i:18928193 original size:22 final size:21
Alignment explanation
Indices: 18928164--18928215 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
18928154 GATATTTTTA
18928164 AATA-TTTATATTTAAAAAAAT
1 AATATTTTATATTT-AAAAAAT
18928185 AATATTTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
18928206 AATATTTTAT
1 AATATTTTAT
18928216 TAATTTCGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.70
22 9 0.30
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AATATTTTATATTTAAAAAAT
Found at i:18929462 original size:21 final size:20
Alignment explanation
Indices: 18929438--18929476 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18929428 CGTTAAATTA
*
18929438 ATTGACGTGATCATTAACTAT
1 ATTGACGTG-GCATTAACTAT
*
18929459 ATTGATGTGGCATTAACT
1 ATTGACGTGGCATTAACT
18929477 TTAATGATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (20 bp):
ATTGACGTGGCATTAACTAT
Found at i:18930576 original size:29 final size:31
Alignment explanation
Indices: 18930525--18930603 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 31
18930515 TATTAATTAA
* * *
18930525 AATAATATTACTTTGATATATTAATTTAAAT-T
1 AATAATATTA--TTAATAGATTAATATAAATAT
*
18930557 ACTAATATTA-TAATAGATTAATATAAATGAT
1 AATAATATTATTAATAGATTAATATAAAT-AT
18930588 AATAATATTATTAATA
1 AATAATATTATTAATA
18930604 TGATATTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
29 15 0.38
31 10 0.26
32 14 0.36
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (31 bp):
AATAATATTATTAATAGATTAATATAAATAT
Found at i:18930849 original size:20 final size:20
Alignment explanation
Indices: 18930821--18930859 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
18930811 TCAACAAGTC
18930821 AATGACATGTCAGCATGATA
1 AATGACATGTCAGCATGATA
*
18930841 AATGCCATGTCAGCATGAT
1 AATGACATGTCAGCATGAT
18930860 CAACACCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (20 bp):
AATGACATGTCAGCATGATA
Found at i:18930868 original size:20 final size:20
Alignment explanation
Indices: 18930826--18930870 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
18930816 AAGTCAATGA
**
18930826 CATGTCAGCATGATAAATGC
1 CATGTCAGCATGATAAACAC
*
18930846 CATGTCAGCATGATCAACAC
1 CATGTCAGCATGATAAACAC
18930866 CATGT
1 CATGT
18930871 TGGCATGGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (20 bp):
CATGTCAGCATGATAAACAC
Found at i:18932092 original size:24 final size:25
Alignment explanation
Indices: 18932060--18932118 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
18932050 CAACCCCCAG
* *
18932060 CAGAGGAGAAGAAA-GAAGATAAAA
1 CAGAAGAGAAGAAAGGAAGAGAAAA
*
18932084 CAGAAGAGAA-AAAGGAAGAGAAGA
1 CAGAAGAGAAGAAAGGAAGAGAAAA
*
18932108 CAGAAAAGAAG
1 CAGAAGAGAAG
18932119 CCAGCAGAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 3 0.10
24 26 0.90
ACGTcount: A:0.63, C:0.05, G:0.31, T:0.02
Consensus pattern (25 bp):
CAGAAGAGAAGAAAGGAAGAGAAAA
Found at i:18933252 original size:20 final size:18
Alignment explanation
Indices: 18933227--18933265 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
18933217 TTGATTCAAT
18933227 TAAAAATATTATTATATTAA
1 TAAAAATATT-TTAT-TTAA
18933247 TAAAAATATTTTATTTAA
1 TAAAAATATTTTATTTAA
18933265 T
1 T
18933266 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 4 0.21
20 10 0.53
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAAAATATTTTATTTAA
Found at i:18933430 original size:36 final size:36
Alignment explanation
Indices: 18933388--18933476 Score: 94
Period size: 39 Copynumber: 2.4 Consensus size: 36
18933378 AGTATTATAT
18933388 TATTATTTTAATAA-TAAA-TAATAAGATATAATAATA
1 TATTATTTTAATAATTAAATTAA-AA-ATATAATAATA
18933424 CTTTATTATTTTAATAATTAAATTAAAAATATAATAATA
1 ---TATTATTTTAATAATTAAATTAAAAATATAATAATA
18933463 TTATT-TTCTTAATA
1 -TATTATT-TTAATA
18933477 TGAATATTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
36 2 0.04
37 11 0.23
39 25 0.53
40 6 0.13
41 3 0.06
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (36 bp):
TATTATTTTAATAATTAAATTAAAAATATAATAATA
Found at i:18933430 original size:39 final size:39
Alignment explanation
Indices: 18933387--18933462 Score: 120
Period size: 39 Copynumber: 1.9 Consensus size: 39
18933377 TAGTATTATA
18933387 TTATTATTTTAATAA-TAAA-TAATAAGATATAATAATACT
1 TTATTATTTTAATAATTAAATTAA-AA-ATATAATAATACT
18933426 TTATTATTTTAATAATTAAATTAAAAATATAATAATA
1 TTATTATTTTAATAATTAAATTAAAAATATAATAATA
18933463 TTATTTTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
39 26 0.74
40 6 0.17
41 3 0.09
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (39 bp):
TTATTATTTTAATAATTAAATTAAAAATATAATAATACT
Found at i:18933650 original size:23 final size:23
Alignment explanation
Indices: 18933612--18933655 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
18933602 CAATTTTTAA
* * *
18933612 TATTTTAATAATTAAATAAATAT
1 TATTTTAAAAAATAAAAAAATAT
18933635 TATTTTAAAAAATAAAAAAAT
1 TATTTTAAAAAATAAAAAAAT
18933656 TTCAAAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
TATTTTAAAAAATAAAAAAATAT
Found at i:18938902 original size:2 final size:2
Alignment explanation
Indices: 18938895--18938922 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18938885 TAGTATAAAT
18938895 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
18938923 GGTCCTGCCC
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):
TA
Found at i:18939083 original size:14 final size:14
Alignment explanation
Indices: 18939066--18939096 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
18939056 AACAAATACA
18939066 ATGTGTTGTCAACC
1 ATGTGTTGTCAACC
18939080 ATGTGTTGTCAACC
1 ATGTGTTGTCAACC
18939094 ATG
1 ATG
18939097 AGGAGCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (14 bp):
ATGTGTTGTCAACC
Found at i:18942867 original size:30 final size:29
Alignment explanation
Indices: 18942833--18942907 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 29
18942823 ATAATTATTT
*
18942833 ATTAATAAAAATGAAATATCTATATAAAAA
1 ATTAATAAAAATGAAATATATATAT-AAAA
** *
18942863 ATTAATAAAAAT-ATTTATATATATGAAA
1 ATTAATAAAAATGAAATATATATATAAAA
*
18942891 ATTAATAAAAAGGAAAT
1 ATTAATAAAAATGAAAT
18942908 TAAAATCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
28 14 0.38
29 11 0.30
30 12 0.32
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.32
Consensus pattern (29 bp):
ATTAATAAAAATGAAATATATATATAAAA
Found at i:18943082 original size:104 final size:105
Alignment explanation
Indices: 18942922--18943133 Score: 247
Period size: 104 Copynumber: 2.0 Consensus size: 105
18942912 ATCATTTTTG
*
18942922 TAATTTTTATATAAATATAGATATTTTCTTTTTATTAATTTTACATATATACATTTT-TTACTAA
1 TAATTTTTATATAAATATAGACATTTTCTTTTTATTAATTTTACATATATACATTTTATTACTAA
* *
18942986 TTA-T-TTTCAATCATGATATCAAAAAATTAATTATTTTTAT
66 TAAGTATTTCAATCATAATATCAAAAAA-TAATT-TTTTTAT
* * * **
18943026 TAATTTTCT-TATAAATATAGACA-TTTCATTTTTATTAGTTTTATATAT-TATTATTTTATTTT
1 TAATTTT-TATATAAATATAGACATTTTC-TTTTTATTAATTTTACATATATA-CATTTTATTAC
* *
18943088 TAATAAGTATTTCTATCATAATATCAATAAATAATTTTTTTAT
63 TAATAAGTATTTCAATCATAATATCAAAAAATAATTTTTTTAT
18943131 TAA
1 TAA
18943134 AATAATTTTT
Statistics
Matches: 92, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
103 6 0.07
104 43 0.47
105 18 0.20
106 6 0.07
107 19 0.21
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (105 bp):
TAATTTTTATATAAATATAGACATTTTCTTTTTATTAATTTTACATATATACATTTTATTACTAA
TAAGTATTTCAATCATAATATCAAAAAATAATTTTTTTAT
Found at i:18943138 original size:17 final size:17
Alignment explanation
Indices: 18943116--18943148 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
18943106 TAATATCAAT
18943116 AAATAATTTTTTTATTA
1 AAATAATTTTTTTATTA
18943133 AAATAATTTTTTTATT
1 AAATAATTTTTTTATT
18943149 TTTATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AAATAATTTTTTTATTA
Found at i:18951607 original size:35 final size:35
Alignment explanation
Indices: 18951561--18951654 Score: 118
Period size: 35 Copynumber: 2.6 Consensus size: 35
18951551 ATACATTAGT
* *
18951561 ATTTTTAGAAAAGACATTTGCATTTCATGTG-CATC
1 ATTTTAAGAAAA-ACATTTGCATTTCATCTGACATC
18951596 ATTTTAAGAAAAAACATTTGCATTTCATCTGCATCATC
1 ATTTTAAG-AAAAACATTTGCATTTCATCTG-A-CATC
18951634 ATTTTAAGAGAAAACATTTGC
1 ATTTTAAGA-AAAACATTTGC
18951655 GTCATAATGG
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
35 24 0.46
36 4 0.08
37 1 0.02
38 23 0.44
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (35 bp):
ATTTTAAGAAAAACATTTGCATTTCATCTGACATC
Found at i:18952092 original size:140 final size:142
Alignment explanation
Indices: 18951903--18952172 Score: 359
Period size: 140 Copynumber: 1.9 Consensus size: 142
18951893 TTAAAGCTTG
*
18951903 ATTTACATTTTCTCGATGGTGATATTCGAGTTTTCCTCGATGGCAATATCCGAAGTAATTTGCAT
1 ATTTACATTTTCTCGATAGTGATATTCGAGTTTTCCTCGATGGCAATATCCGAAGTAATTTGCAT
* * * *
18951968 ATTTTCGGTGGTGATATCTGAATGTCAAG-TTTGAATT-CATTTTTTCGATGGTGATATCCGAGT
66 ATTCTCGATGGTGATATCCGAATGTCAAGACTTGAATTACATTTTTTCGATGGTGATATCCGAGT
18952031 ATAAAAGTTGTA
131 ATAAAAGTTGTA
* * ** *
18952043 ATTTACATTCTT-TCGATAGTGATATTTGAG-TTTCCTTCGGTGGTGATATCCGAAGTAATTTGT
1 ATTTACATT-TTCTCGATAGTGATATTCGAGTTTTCC-TCGATGGCAATATCCGAAGTAATTTGC
* * * * *
18952106 ATATTCTCGATGGTGATATCCGAGTGTTAAGACTTGATTTATATTTTTTCGATGGTGATATTCGA
64 ATATTCTCGATGGTGATATCCGAATGTCAAGACTTGAATTACATTTTTTCGATGGTGATATCCGA
18952171 GT
129 GT
18952173 TTCCTTCGGT
Statistics
Matches: 111, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
139 5 0.05
140 74 0.67
141 8 0.07
142 24 0.22
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.42
Consensus pattern (142 bp):
ATTTACATTTTCTCGATAGTGATATTCGAGTTTTCCTCGATGGCAATATCCGAAGTAATTTGCAT
ATTCTCGATGGTGATATCCGAATGTCAAGACTTGAATTACATTTTTTCGATGGTGATATCCGAGT
ATAAAAGTTGTA
Found at i:18952221 original size:99 final size:99
Alignment explanation
Indices: 18951971--18952223 Score: 292
Period size: 99 Copynumber: 2.5 Consensus size: 99
18951961 TTTGCATATT
*
18951971 TTCGGTGGTGATATCTGAATGTCAAGTTTGAATTCATTTTTTCGATGGTGATATCCGAGTATAAA
1 TTCGGTGGTGATATCTGAA-GTC-A-TTTGTA-T-ATTTTTT--ATGGTGATATCCGAGTATAAA
* *
18952036 AGTTGTAATTTACATTCTTTCGATAGTGATATTTGAGTTTCC
59 ACTTG-AATTTACATTCTTTCGATAGTGATATTCGAGTTTCC
* * * ** * *
18952078 TTCGGTGGTGATATCCGAAGTAATTTGTATATTCTCGATGGTGATATCCGAGTGTTAAGACTTG-
1 TTCGGTGGTGATATCTGAAGTCATTTGTATATTTTTTATGGTGATATCCGAGT-ATAAAACTTGA
* * *
18952142 ATTTATATTTTTTCGATGGTGATATTCGAGTTTCC
65 ATTTACATTCTTTCGATAGTGATATTCGAGTTTCC
*
18952177 TTCGGTGGTGATATCTGAAGTCATTTGTATATTTTTTATAGTGATAT
1 TTCGGTGGTGATATCTGAAGTCATTTGTATATTTTTTATGGTGATAT
18952224 TCGAATGTCA
Statistics
Matches: 126, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
99 72 0.57
100 16 0.13
101 7 0.06
102 4 0.03
103 1 0.01
104 5 0.04
105 1 0.01
106 2 0.02
107 18 0.14
ACGTcount: A:0.24, C:0.11, G:0.22, T:0.44
Consensus pattern (99 bp):
TTCGGTGGTGATATCTGAAGTCATTTGTATATTTTTTATGGTGATATCCGAGTATAAAACTTGAA
TTTACATTCTTTCGATAGTGATATTCGAGTTTCC
Found at i:18952363 original size:240 final size:239
Alignment explanation
Indices: 18951858--18952440 Score: 717
Period size: 240 Copynumber: 2.4 Consensus size: 239
18951848 GTATTAAAAG
* * * ** * *
18951858 GTAATTTGTATTTTTTCAATGGTGATATATGAATGTTAA-AGCTTGATTTACATTTTCTCGATGG
1 GTAATTTGTATATTCTCGATGGTGATATCCGAGTGTTAAGA-CTTGATTTACATTTTTTCGATGG
* ** * * * *
18951922 TGATATTCGAGTTTTCC-TCGATGGCAATATCCGAAGTAATTTGCATATTTTCGGTGGTGATATC
65 TGATATTCGAG-TTTCCTTCGGTGGTGATATCTGAAGTCATTTGCATATTTTCGATAGTGATATC
* * *
18951986 TGAATGTCAAGTTTGAATTCATTTTTTCGATGGTGATATCCGAGTATAAAAGTTGTAATTTACAT
129 TGAATGTCAAGTTTGAATTCATTTTCTCGATAGTGATATCCAAGTATAAAAGTTGTAATTTACAT
* * * **
18952051 TCTTTCGATAGTGATATTTGAGTTTCCTTCGGTGGTGATATCCGAA
194 TCTTTCAATAGAGATATTCGAGTTTCCTTCGGTGGAAATATCCGAA
*
18952097 GTAATTTGTATATTCTCGATGGTGATATCCGAGTGTTAAGACTTGATTTATATTTTTTCGATGGT
1 GTAATTTGTATATTCTCGATGGTGATATCCGAGTGTTAAGACTTGATTTACATTTTTTCGATGGT
* **
18952162 GATATTCGAGTTTCCTTCGGTGGTGATATCTGAAGTCATTTGTATATTTTTTATAGTGATAT-TC
66 GATATTCGAGTTTCCTTCGGTGGTGATATCTGAAGTCATTTGCATATTTTCGATAGTGATATCT-
* * * * * * *
18952226 GAATGTCAAGGTTTGACTTTATTTTCTC-AGTAGTGATATCTAAGTATTAAAGTTTTAATTTGCT
130 GAATGTCAA-GTTTGAATTCATTTTCTCGA-TAGTGATATCCAAGTATAAAAGTTGTAATTTACA
**
18952290 TTCTTTCAAT-GAAGATATTCGAGTTTCCTTCGGTGGAAATATTTGAA
193 TTCTTTCAATAG-AGATATTCGAGTTTCCTTCGGTGGAAATATCCGAA
* *
18952337 GTAATTTGCATATTCTCGATGGTGATATCCGAGTGTTAAGGCTTGATTTACATTTTTTCGATGGT
1 GTAATTTGTATATTCTCGATGGTGATATCCGAGTGTTAAGACTTGATTTACATTTTTTCGATGGT
**
18952402 GATATTCGAGTTTTTTTCGGTGGTGATATCTGAATGTCA
66 GATATTCGAGTTTCCTTCGGTGGTGATATCTGAA-GTCA
18952441 AGGTTTGAAT
Statistics
Matches: 297, Mismatches: 40, Indels: 12
0.85 0.11 0.03
Matches are distributed among these distances:
238 6 0.02
239 112 0.38
240 175 0.59
241 4 0.01
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.44
Consensus pattern (239 bp):
GTAATTTGTATATTCTCGATGGTGATATCCGAGTGTTAAGACTTGATTTACATTTTTTCGATGGT
GATATTCGAGTTTCCTTCGGTGGTGATATCTGAAGTCATTTGCATATTTTCGATAGTGATATCTG
AATGTCAAGTTTGAATTCATTTTCTCGATAGTGATATCCAAGTATAAAAGTTGTAATTTACATTC
TTTCAATAGAGATATTCGAGTTTCCTTCGGTGGAAATATCCGAA
Found at i:18952423 original size:99 final size:98
Alignment explanation
Indices: 18952303--18952678 Score: 308
Period size: 99 Copynumber: 3.7 Consensus size: 98
18952293 TTTCAATGAA
* ** **
18952303 GATATTCGAGTTTCCTTCGGTGGAAATATTTGAAGTAATTTGCATATTCTCGATGGTGATATCCG
1 GATATTCGAGTTTTCTTCGGTGGTGATATCCGAAGTAATTTGCATATTCTCGATGGTGATATCCG
*
18952368 AGTGTTAAGGCTTGATTTACATTTTTTCGATGGT
66 AGTATTAAGG-TTGATTTACATTTTTTCGATGGT
* * * * *
18952402 GATATTCGAGTTTTTTTCGGTGGTGATATCTGAATGTCAAGGTTTGAATTCATTTTTTCGGTGGT
1 GATATTCGAGTTTTCTTCGGTGGTGATATCCGAA-GT-AA--TTTG----CATATTCTCGATGGT
* **
18952467 GATATCCTAGTATTAAAAGG-TGATTTACATTTTTTTTATGGT
58 GATATCCGAGTATT--AAGGTTGATTTACATTTTTTCGATGGT
* * * * * * * *
18952509 GATATTCGAG-TTTCTTCTGTAGCGATATCCAAAGTAATTTGCATGTTTTCAATGGTGATATTCG
1 GATATTCGAGTTTTCTTCGGTGGTGATATCCGAAGTAATTTGCATATTCTCGATGGTGATATCCG
* *
18952573 AGTATTAAAGTTGTAATTTACATTCTTTCGATGGT
66 AGTATTAAGGTTG--ATTTACATTTTTTCGATGGT
* * * * * ** * * *
18952608 GATATTTGAATTTTCTTCGATGGTGATATTCGAAGTCATTAACATCTTCTCGGTGGTGATATCTG
1 GATATTCGAGTTTTCTTCGGTGGTGATATCCGAAGTAATTTGCATATTCTCGATGGTGATATCCG
18952673 A-TATTA
66 AGTATTA
18952679 TTTACTTTCG
Statistics
Matches: 219, Mismatches: 44, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
96 3 0.01
97 2 0.01
98 24 0.11
99 59 0.27
100 42 0.19
101 2 0.01
102 4 0.02
103 4 0.02
104 2 0.01
105 2 0.01
106 17 0.08
107 54 0.25
109 4 0.02
ACGTcount: A:0.24, C:0.11, G:0.21, T:0.43
Consensus pattern (98 bp):
GATATTCGAGTTTTCTTCGGTGGTGATATCCGAAGTAATTTGCATATTCTCGATGGTGATATCCG
AGTATTAAGGTTGATTTACATTTTTTCGATGGT
Found at i:18952708 original size:29 final size:30
Alignment explanation
Indices: 18952623--18952710 Score: 72
Period size: 29 Copynumber: 2.9 Consensus size: 30
18952613 TTGAATTTTC
* * *
18952623 TTCGATGGTGATATTCGAAGTCATTAACATCT
1 TTCGATGGTGATATTCAAAGTTATT--TATCT
* * *
18952655 TCTCGGTGGTGATATCTGATA-TTATTTA-CT
1 T-TCGATGGTGATAT-TCAAAGTTATTTATCT
18952685 TTCGATGGTGATATTCAAAGTTATTT
1 TTCGATGGTGATATTCAAAGTTATTT
18952711 TTGGTGGTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
28 3 0.07
29 18 0.41
30 3 0.07
31 1 0.02
32 1 0.02
33 16 0.36
34 2 0.05
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.43
Consensus pattern (30 bp):
TTCGATGGTGATATTCAAAGTTATTTATCT
Found at i:18952788 original size:46 final size:46
Alignment explanation
Indices: 18952738--18952922 Score: 199
Period size: 46 Copynumber: 3.9 Consensus size: 46
18952728 TTTTGTTAAA
18952738 CCTCTGTTGAGATGAGCTTTTTCAAAAGAATTTTAAAGTTGTTGAG
1 CCTCTGTTGAGATGAGCTTTTTCAAAAGAATTTTAAAGTTGTTGAG
** * * * *
18952784 CCTCTGTTGAGATGAATTTTTTCAAGAGAATTTTAAAATTATTAAG
1 CCTCTGTTGAGATGAGCTTTTTCAAAAGAATTTTAAAGTTGTTGAG
* * *
18952830 CCTCTGTTGAGAAGAGCTGTTTCCAATATGAAAATTTTAAAGTTGTTGAG
1 CCTCTGTTGAGATGAGCT-TTTTCAA-A--AGAATTTTAAAGTTGTTGAG
* ** * * *
18952880 CCTTTACTGAAATGAGCTTTTTTAAGAGAATTTTAAAGTTGTT
1 CCTCTGTTGAGATGAGCTTTTTCAAAAGAATTTTAAAGTTGTT
18952923 AAACCTCTAC
Statistics
Matches: 111, Mismatches: 24, Indels: 8
0.78 0.17 0.06
Matches are distributed among these distances:
46 71 0.64
47 6 0.05
49 5 0.05
50 29 0.26
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (46 bp):
CCTCTGTTGAGATGAGCTTTTTCAAAAGAATTTTAAAGTTGTTGAG
Found at i:18952901 original size:96 final size:92
Alignment explanation
Indices: 18952733--18952955 Score: 250
Period size: 96 Copynumber: 2.4 Consensus size: 92
18952723 TCTATTTTTG
* * * ** *
18952733 TTAAACCTCTGTTGAGATGAGCTTTTTCAAAAGAATTTTAAAGTTGTTGAGCCTCTGTTGAGATG
1 TTAAACCTCTGTTGAGAAGAGCTTTTCCAAAAAAATTTTAAAGTTGTTGAGCCTCTACTGAAATG
*
18952798 AATTTTTTCAAGAGAATTTTAAAATTA
66 AACTTTTTCAAGAGAATTTTAAAATTA
* *
18952825 TTAAGCCTCTGTTGAGAAGAGCTGTTTCCAATATGAAAATTTTAAAGTTGTTGAGCCTTTACTGA
1 TTAAACCTCTGTTGAGAAGAGCT-TTTCCAA-A--AAAATTTTAAAGTTGTTGAGCCTCTACTGA
* * * *
18952890 AATGAGCTTTTTTAAGAGAATTTTAAAGTTG
62 AATGAACTTTTTCAAGAGAATTTTAAAATTA
** *
18952921 TTAAACCTCTACTAAG-AGAAGCTTTTCCAAAAAAA
1 TTAAACCTCTGTTGAGAAG-AGCTTTTCCAAAAAAA
18952956 ATAATAAAAA
Statistics
Matches: 109, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
92 25 0.23
93 6 0.06
94 2 0.02
95 9 0.08
96 67 0.61
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (92 bp):
TTAAACCTCTGTTGAGAAGAGCTTTTCCAAAAAAATTTTAAAGTTGTTGAGCCTCTACTGAAATG
AACTTTTTCAAGAGAATTTTAAAATTA
Found at i:18953559 original size:19 final size:20
Alignment explanation
Indices: 18953522--18953559 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
18953512 AAACAACCCC
* *
18953522 CCAACACCAAAATAGAAAAA
1 CCAACACCAAAAAAAAAAAA
18953542 CCAA-ACCAAAAAAAAAAA
1 CCAACACCAAAAAAAAAAA
18953560 CAACACAGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.71, C:0.24, G:0.03, T:0.03
Consensus pattern (20 bp):
CCAACACCAAAAAAAAAAAA
Found at i:18956476 original size:3 final size:3
Alignment explanation
Indices: 18956468--18956509 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
18956458 GACATTTCAA
18956468 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
18956510 GTCTTTAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:18956568 original size:28 final size:29
Alignment explanation
Indices: 18956514--18956568 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
18956504 TATTATGTCT
* * *
18956514 TTAATAAGCATTTCTTATTATAGTATCAA
1 TTAATAAGAATTTCTTATTAGAATATCAA
*
18956543 TTAATAA-AATTTTTTATTAGAATATC
1 TTAATAAGAATTTCTTATTAGAATATC
18956569 TTTTTTAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 15 0.68
29 7 0.32
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (29 bp):
TTAATAAGAATTTCTTATTAGAATATCAA
Found at i:18956878 original size:21 final size:21
Alignment explanation
Indices: 18956838--18956878 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18956828 AATCTATATT
* **
18956838 ATTAATAAATTATTTTATTAG
1 ATTAATAAATTAATAAATTAG
18956859 ATTAATAAATTAATAAATTA
1 ATTAATAAATTAATAAATTA
18956879 TTTTATTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
ATTAATAAATTAATAAATTAG
Found at i:18967712 original size:372 final size:370
Alignment explanation
Indices: 18967157--18968019 Score: 1101
Period size: 372 Copynumber: 2.3 Consensus size: 370
18967147 ACGGTTTGTA
* * * * * * * *
18967157 ACGATTTTGTCTTACAAAAGGTGCCTCACAAGACGGAGTTAGTATAAACCCTTATATACCCCAAT
1 ACGATTTTATCCTACAAAAGGCGCCTCACAAGACGGAGATGGTGTGAACCCTTTTATA-CCCAAT
18967222 GAGCCTCCTATTATGTTCGATGTGAGATTCAAGACTC-TCCTTAGGTCCGTGACATTCTCCTCCA
65 GAGCCTCCTATTATGTTCGATGTGAGATTCAAGACTCTTCCTTAGGTCCGTGACATTCTCCTCCA
* * *
18967286 CCTAACCTCGTGACGCCTTCGTCACGAAAGCTGGCCACCCTGCCTACCTCCCTCGAGGTGCTTAG
130 CCCAACCTCGTGACGCCTTCGTCACGAAAGATGGCCACCCTGCCTACCTCCCTCGAAGTGCTTAG
* * * * *
18967351 CGTGGATCGAACGGTTTAGGACTGGCTCTGATACCACTTGTTACGGGTCGAGACTTAAGCTCCGA
195 CGTGAATCGAACGGTTTAGGACTGGCTCTGATACCACTTATCACAGGTCGAGACTCAAGCTCCGA
* * * *
18967416 ACTCGCGCGGCTCTGAGACCCAAGCATTCACCCTTCTC-ACGTCCC-GAATCAGCCTGACC-GCC
260 ACCCGCACGGCTCCGAGACCCAAGCATTCACCCTTC-CGACGTCCCAG-ATCAACCT-ACCTGCC
* * *
18967478 ACGATTCACACCTTTGTGAAGTATTATCCGTTCTGGCCCCCCCTGACCTC
322 ACGATTCACACCCTTGTGAAGTATTATCCGCTCT-GACCCCCCTGACCTC
* * * *
18967528 ACGGTTTTATCCTACAAAAGGCGCCTCACAAGGCGGAGGTGGTGTGAACCCTTTTATACCCTAGT
1 ACGATTTTATCCTACAAAAGGCGCCTCACAAGACGGAGATGGTGTGAACCCTTTTATACCC-AAT
* * *
18967593 GA-CCTTCCTATTATGTTCGATGTGGGATTCATGACTCTTCCTTAGGTCCGTGACATTCTTCC-G
65 GAGCC-TCCTATTATGTTCGATGTGAGATTCAAGACTCTTCCTTAGGTCCGTGACATTC-TCCTC
* *
18967656 CACCCAACCTCGTGACGCCTTCGTCACG-AAGATAGGCCACTCTGCCTACTTCCCTCGAAGTGCT
128 CACCCAACCTCGTGACGCCTTCGTCACGAAAGAT-GGCCACCCTGCCTACCTCCCTCGAAGTGCT
* ** *
18967720 TGGCGTGAATCGAACGGTTTAGGGTTGGCTTTGATACCACTTATCACAGGTCGAGACTCAAGCTC
192 TAGCGTGAATCGAACGGTTTAGGACTGGCTCTGATACCACTTATCACAGGTCGAGACTCAAGCTC
* * ** * * *
18967785 CGAACCCGTACGGCTCCGGGACCCGGGCATTCACCCTTCCGGCGTCTCAGATCAACCTTCCTGCC
257 CGAACCCGCACGGCTCCGAGACCCAAGCATTCACCCTTCCGACGTCCCAGATCAACCTACCTGCC
* * * *
18967850 ACGGTTCACACCCTTGTGAGGTATTGTCCGCTCTGACCCCCTTGACCTC
322 ACGATTCACACCCTTGTGAAGTATTATCCGCTCTGACCCCCCTGACCTC
* * * * *
18967899 ACGATTTTGTCCTACAAAAGACACCTCACAAGACGAAGATGGTGTGAATCCTTTTATACTCCAAT
1 ACGATTTTATCCTACAAAAGGCGCCTCACAAGACGGAGATGGTGTGAACCCTTTTATAC-CCAAT
* *
18967964 GATCCTCCTATTATGTTCGATGTGAGATTCAAGACTCTTCCTTAAGTCCGTGACAT
65 GAGCCTCCTATTATGTTCGATGTGAGATTCAAGACTCTTCCTTAGGTCCGTGACAT
18968020 AAAGCCCTCA
Statistics
Matches: 424, Mismatches: 58, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
370 5 0.01
371 205 0.48
372 210 0.50
373 4 0.01
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.27
Consensus pattern (370 bp):
ACGATTTTATCCTACAAAAGGCGCCTCACAAGACGGAGATGGTGTGAACCCTTTTATACCCAATG
AGCCTCCTATTATGTTCGATGTGAGATTCAAGACTCTTCCTTAGGTCCGTGACATTCTCCTCCAC
CCAACCTCGTGACGCCTTCGTCACGAAAGATGGCCACCCTGCCTACCTCCCTCGAAGTGCTTAGC
GTGAATCGAACGGTTTAGGACTGGCTCTGATACCACTTATCACAGGTCGAGACTCAAGCTCCGAA
CCCGCACGGCTCCGAGACCCAAGCATTCACCCTTCCGACGTCCCAGATCAACCTACCTGCCACGA
TTCACACCCTTGTGAAGTATTATCCGCTCTGACCCCCCTGACCTC
Found at i:18974568 original size:15 final size:15
Alignment explanation
Indices: 18974548--18974580 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
18974538 AATTTTATAA
18974548 TATATATATAATTT-T
1 TATATAT-TAATTTGT
18974563 TATATATTAATTTGT
1 TATATATTAATTTGT
18974578 TAT
1 TAT
18974581 TAAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (15 bp):
TATATATTAATTTGT
Found at i:18977045 original size:30 final size:30
Alignment explanation
Indices: 18977011--18977069 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
18977001 ATTAAAAAAT
*
18977011 AAAATTCATCTTTCAAATT-TTTAATTTTAG
1 AAAATTCATCTCT-AAATTATTTAATTTTAG
*
18977041 AAAATTTATCTCTAAATTGATTTAATTTT
1 AAAATTCATCTCTAAATT-ATTTAATTTT
18977070 TAATTATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.20
30 11 0.44
31 9 0.36
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.51
Consensus pattern (30 bp):
AAAATTCATCTCTAAATTATTTAATTTTAG
Found at i:18979373 original size:69 final size:66
Alignment explanation
Indices: 18979285--18979422 Score: 240
Period size: 69 Copynumber: 2.0 Consensus size: 66
18979275 CTCCTAGCTC
*
18979285 ATCCATTTAGGAAAGAAAAAAATATAAGGGTGCTCATCCATTGAGGACGCTCCACCTCGGTAATA
1 ATCCATTTAGGAAAGAAAAAAATATAAGGGTGCTCATCCATTGACGACG---CACCTCGGTAATA
18979350 GTCT
63 GTCT
18979354 ATCCATTTAGGAAAGAAAAAAATATAAGGGTGCTCATCCATTGACGACGCACCTCGGTAATAGTC
1 ATCCATTTAGGAAAGAAAAAAATATAAGGGTGCTCATCCATTGACGACGCACCTCGGTAATAGTC
18979419 T
66 T
18979420 ATC
1 ATC
18979423 TGGTTCCATT
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
66 20 0.29
69 48 0.71
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (66 bp):
ATCCATTTAGGAAAGAAAAAAATATAAGGGTGCTCATCCATTGACGACGCACCTCGGTAATAGTC
T
Found at i:18983988 original size:79 final size:79
Alignment explanation
Indices: 18983857--18984015 Score: 291
Period size: 79 Copynumber: 2.0 Consensus size: 79
18983847 TCTTGTACCT
* *
18983857 CCCATTACTCAAAGCCTGCAATCATCGATGTTATTGGCATGCTAAAGCTAAAGATCATGACACAA
1 CCCATTACTCAAAGCCTGCAATCATCGATGTTATTGGCATGCAAAAGCTAAAGATCATAACACAA
18983922 TTTGAAAACTGAAA
66 TTTGAAAACTGAAA
*
18983936 CCCATTACTCAATGCCTGCAATCATCGATGTTATTGGCATGCAAAAGCTAAAGATCATAACACAA
1 CCCATTACTCAAAGCCTGCAATCATCGATGTTATTGGCATGCAAAAGCTAAAGATCATAACACAA
18984001 TTTGAAAACTGAAA
66 TTTGAAAACTGAAA
18984015 C
1 C
18984016 AAAGTGTAGT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (79 bp):
CCCATTACTCAAAGCCTGCAATCATCGATGTTATTGGCATGCAAAAGCTAAAGATCATAACACAA
TTTGAAAACTGAAA
Found at i:18990399 original size:15 final size:15
Alignment explanation
Indices: 18990330--18990399 Score: 54
Period size: 15 Copynumber: 4.5 Consensus size: 15
18990320 ATAAAAAAAT
18990330 ATATTTTATTATTAA
1 ATATTTTATTATTAA
*
18990345 TTAATTTTA-TATTTAA
1 AT-ATTTTATTA-TTAA
**
18990361 ATATAATATTTATT-A
1 ATATTTTA-TTATTAA
*
18990376 ATAAATTTATTATTAA
1 AT-ATTTTATTATTAA
18990392 ATATTTTA
1 ATATTTTA
18990400 ACTTAAAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
15 20 0.49
16 19 0.46
17 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATATTTTATTATTAA
Found at i:18991950 original size:1 final size:1
Alignment explanation
Indices: 18991944--18991973 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
18991934 CCCAAAACCG
18991944 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
18991974 CCTATTCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:18993788 original size:23 final size:24
Alignment explanation
Indices: 18993728--18993790 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
18993718 TGAGGTTATA
*
18993728 AAAATAATTATAAAAATTTAAATTT
1 AAAATAATTA-AATAATTTAAATTT
* * * *
18993753 AAATTTATGAAATAA-TTACATTT
1 AAAATAATTAAATAATTTAAATTT
18993776 AAAATAATTAAATAA
1 AAAATAATTAAATAA
18993791 ATCAATTAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
23 19 0.63
24 4 0.13
25 7 0.23
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
AAAATAATTAAATAATTTAAATTT
Found at i:18994306 original size:79 final size:79
Alignment explanation
Indices: 18994175--18994332 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 79
18994165 AAACTATATT
*
18994175 AATTATTTTGATAATCAAAGCCATTTGTTTCACTAAAACAAGAGGCTAGGTTTCAAATTCAAAAA
1 AATTATTTTGATAATCAAAGCCATTTGTTTCACCAAAACAAGAGGCTAGGTTTCAAATTCAAAAA
18994240 TTTTTCCATTAGAC
66 TTTTTCCATTAGAC
18994254 AATTATTTTGATAATCAAAGCCATTTGTTTCACCAAAACAAGAGGCTAGGTTTCAAATTCAAAAA
1 AATTATTTTGATAATCAAAGCCATTTGTTTCACCAAAACAAGAGGCTAGGTTTCAAATTCAAAAA
18994319 TTTTTCCATTAGAC
66 TTTTTCCATTAGAC
18994333 GTTCCAGTTA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (79 bp):
AATTATTTTGATAATCAAAGCCATTTGTTTCACCAAAACAAGAGGCTAGGTTTCAAATTCAAAAA
TTTTTCCATTAGAC
Found at i:18994621 original size:3 final size:3
Alignment explanation
Indices: 18994613--18994661 Score: 89
Period size: 3 Copynumber: 16.0 Consensus size: 3
18994603 ACGAATGTAC
18994613 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
18994659 AAT
1 AAT
18994662 GCTTTAAACC
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18998040 original size:7 final size:7
Alignment explanation
Indices: 18998028--18998063 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
18998018 TGGTTGTTAC
18998028 TTGACCA
1 TTGACCA
18998035 TTGACCA
1 TTGACCA
18998042 TTGACCA
1 TTGACCA
18998049 TTGACCA
1 TTGACCA
18998056 TTGACCA
1 TTGACCA
18998063 T
1 T
18998064 GTTCAACTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (7 bp):
TTGACCA
Found at i:18999952 original size:18 final size:18
Alignment explanation
Indices: 18999897--18999955 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 18
18999887 ATCATGTGTT
*
18999897 TTATTTAT-TTAAAAAAA
1 TTATTTATATTTAAAAAA
* *
18999914 ATATTTATA-GT--AAAA
1 TTATTTATATTTAAAAAA
18999929 -TATTTATATTTAAAAAA
1 TTATTTATATTTAAAAAA
18999946 TTATTTATAT
1 TTATTTATAT
18999956 GATAATTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
14 8 0.24
15 5 0.15
17 11 0.33
18 9 0.27
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
TTATTTATATTTAAAAAA
Found at i:19009748 original size:13 final size:14
Alignment explanation
Indices: 19009730--19009758 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19009720 TTGATTCAAA
19009730 TAAAATA-TATAAT
1 TAAAATATTATAAT
19009743 TAAAATATTATAAT
1 TAAAATATTATAAT
19009757 TA
1 TA
19009759 TATAAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAAATATTATAAT
Found at i:19017144 original size:21 final size:21
Alignment explanation
Indices: 19017112--19017168 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
19017102 TTTCTTCAAT
*
19017112 TCGAA-CTATTTCTAATTTTTC
1 TCGAATCT-TTTCTAATTTTTA
*
19017133 TCGAATCTTTTC-ATTTTTTA
1 TCGAATCTTTTCTAATTTTTA
**
19017153 TTTAATCTTTTCTAAT
1 TCGAATCTTTTCTAAT
19017169 CTTACCATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 16 0.55
21 11 0.38
22 2 0.07
ACGTcount: A:0.23, C:0.16, G:0.04, T:0.58
Consensus pattern (21 bp):
TCGAATCTTTTCTAATTTTTA
Found at i:19023880 original size:42 final size:42
Alignment explanation
Indices: 19023811--19023894 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
19023801 AGACAGTTTC
* * * *
19023811 TAAAAGGTGCCATGGTAGCATGTTAGGATGTTCTTGTTATTA
1 TAAAAGGTGCCATAGTAACATGATAGGATGATCTTGTTATTA
*
19023853 TAAAAGGTGCCGTAGTAACATGATAGGATGATCTTGTTATTA
1 TAAAAGGTGCCATAGTAACATGATAGGATGATCTTGTTATTA
19023895 GAAATTCTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.36
Consensus pattern (42 bp):
TAAAAGGTGCCATAGTAACATGATAGGATGATCTTGTTATTA
Found at i:19027121 original size:175 final size:174
Alignment explanation
Indices: 19026818--19027151 Score: 526
Period size: 175 Copynumber: 1.9 Consensus size: 174
19026808 GTAAATGGTC
19026818 TGGTACATCTTACTGGTTCATGATCAACATTCTCTTCATGCCACAAATAACCTTTTTGTTATTGG
1 TGGTACATCTTACTGGTTCATGATCAACATTCTCTTCATGCCACAAATAACCTTTTTGTTATTGG
* * *
19026883 AAGCCTATCATGTTTACTACAGTTTGCTTGATTGATTCTTCCTTTGACTTTTCCCAATTTCAAGT
66 AAGCCTATCATGTCTACTACAGTTTGCTTAACTGATTCTTCCTTTGACTTTTCCCAATTTCAAGT
*
19026948 AGCTTACTCATTGAA-TCTCATGTTCCTACATATCAGTATGTGTT
131 AGCTTACTCATT-AACTCTCACGTTCCTACATATCAGTATGTGTT
* * * *
19026992 TGGTACCTCTTATTGGTTCATGATCAACATTCTCTTCATGCCACAAATAACATTTTTTGTTCTTG
1 TGGTACATCTTACTGGTTCATGATCAACATTCTCTTCATGCCACAAATAAC-CTTTTTGTTATTG
** **
19027057 GAAGTTTATCATGTCTACTACAGTTTGCTTAACTGATTCTTCCTTTGACTTTTTTCAATTTCAAG
65 GAAGCCTATCATGTCTACTACAGTTTGCTTAACTGATTCTTCCTTTGACTTTTCCCAATTTCAAG
*
19027122 TAGCTTGCTCATTAACTCTCACGTTCCTAC
130 TAGCTTACTCATTAACTCTCACGTTCCTAC
19027152 TTACAGTCAT
Statistics
Matches: 145, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
174 51 0.35
175 94 0.65
ACGTcount: A:0.23, C:0.22, G:0.13, T:0.43
Consensus pattern (174 bp):
TGGTACATCTTACTGGTTCATGATCAACATTCTCTTCATGCCACAAATAACCTTTTTGTTATTGG
AAGCCTATCATGTCTACTACAGTTTGCTTAACTGATTCTTCCTTTGACTTTTCCCAATTTCAAGT
AGCTTACTCATTAACTCTCACGTTCCTACATATCAGTATGTGTT
Found at i:19029399 original size:58 final size:57
Alignment explanation
Indices: 19029246--19029606 Score: 284
Period size: 59 Copynumber: 6.1 Consensus size: 57
19029236 AATATTTTTG
* * * * *
19029246 TTTTTGAAAACTTTAATTTCAAGGAAAATTGATGCTTTCAACTTTTCTTCAAAAAT-C
1 TTTTTGAAAA-TTTAATTTGAAGGAAAATTGATACTTTTAACTTTTCTCCAAAAATAT
** *
19029303 CCTTTGAAAATTT-ATCTTTAAGGAAAATTGATACTTTTAACTTTTCTCCAAAAATAT
1 TTTTTGAAAATTTAAT-TTGAAGGAAAATTGATACTTTTAACTTTTCTCCAAAAATAT
* * *
19029360 TTTTTGAAAACTTTAATTTCGAA-AAAAATTGATACTTTTAACTTTTC-CTCAAAATCTTTTT
1 TTTTTGAAAA-TTTAATTT-GAAGGAAAATTGATACTTTTAACTTTTCTC-CAAAA---ATAT
* * *
19029421 TTTTTGAAAATTTATTTTTAAGGAAAATTAATA-TTTTCAACTTTTCTCCAAAAATAT
1 TTTTTGAAAATTTAATTTGAAGGAAAATTGATACTTTT-AACTTTTCTCCAAAAATAT
* * * * *
19029478 TTTTTGAAAATTTTTAATTTG-AGGAAAAATTAATACTTTCAACTTTTCTTCAAAACCTTTTTTT
1 TTTTTGAAAA--TTTAATTTGAAGG-AAAATTGATACTTTTAACTTTTCTCCAAAA-----ATAT
* * * * *
19029542 TTTCTTGAAAATTTATTTTTAAGAAAAATTGATACTTTTAACTTTTCCTCTAAAATAAAT
1 TTT-TTGAAAATTTAATTTGAAGGAAAATTGATACTTTTAACTTTT-CTCCAAAA-ATAT
19029602 TTTTT
1 TTTTT
19029607 TAATTTTATT
Statistics
Matches: 245, Mismatches: 35, Indels: 46
0.75 0.11 0.14
Matches are distributed among these distances:
55 2 0.01
56 38 0.16
57 29 0.12
58 36 0.15
59 43 0.18
60 37 0.15
61 13 0.05
63 27 0.11
64 13 0.05
65 7 0.03
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (57 bp):
TTTTTGAAAATTTAATTTGAAGGAAAATTGATACTTTTAACTTTTCTCCAAAAATAT
Found at i:19029475 original size:118 final size:118
Alignment explanation
Indices: 19029246--19029606 Score: 441
Period size: 118 Copynumber: 3.0 Consensus size: 118
19029236 AATATTTTTG
* * **
19029246 TTTTTGAAAACTTTAATTTC-AAGGAAAATTGATGCTTTCAACTTTTCTTCAAAAATC-----CC
1 TTTTTGAAAACTTTAATTTCGAA-AAAAATTGATACTTTCAACTTTTCTTC-AAAATCTTTTTTT
*
19029305 TTTGAAAATTTATCTTTAAGGAAAATTGATACTTTTAACTTTTCTCCAAAAATAT
64 TTTGAAAATTTATTTTTAAGGAAAATTGATACTTTTAACTTTTCTCCAAAAATAT
* *
19029360 TTTTTGAAAACTTTAATTTCGAAAAAAATTGATACTTTTAACTTTTCCTCAAAATCTTTTTTTTT
1 TTTTTGAAAACTTTAATTTCGAAAAAAATTGATACTTTCAACTTTTCTTCAAAATCTTTTTTTTT
*
19029425 TGAAAATTTATTTTTAAGGAAAATTAATA-TTTTCAACTTTTCTCCAAAAATAT
66 TGAAAATTTATTTTTAAGGAAAATTGATACTTTT-AACTTTTCTCCAAAAATAT
* * * *
19029478 TTTTTGAAAATTTTTAATTT-GAGGAAAAATTAATACTTTCAACTTTTCTTCAAAACCTTTTTTT
1 TTTTTGAAAA-CTTTAATTTCGA-AAAAAATTGATACTTTCAACTTTTCTTCAAAA--TCTTTTT
* * *
19029542 TTTCTTGAAAATTTATTTTTAAGAAAAATTGATACTTTTAACTTTTCCTCTAAAATAAAT
62 TTT-TTGAAAATTTATTTTTAAGGAAAATTGATACTTTTAACTTTT-CTCCAAAA-ATAT
19029602 TTTTT
1 TTTTT
19029607 TAATTTTATT
Statistics
Matches: 214, Mismatches: 18, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
113 6 0.03
114 43 0.20
115 2 0.01
117 4 0.02
118 60 0.28
119 36 0.17
121 9 0.04
122 35 0.16
123 11 0.05
124 8 0.04
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (118 bp):
TTTTTGAAAACTTTAATTTCGAAAAAAATTGATACTTTCAACTTTTCTTCAAAATCTTTTTTTTT
TGAAAATTTATTTTTAAGGAAAATTGATACTTTTAACTTTTCTCCAAAAATAT
Found at i:19029644 original size:13 final size:14
Alignment explanation
Indices: 19029617--19029689 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 14
19029607 TAATTTTATT
*
19029617 TAAAGAAAATAAAA
1 TAAATAAAATAAAA
*
19029631 T-AATAAAGTAAAA
1 TAAATAAAATAAAA
19029644 TAAATAAAATAAAAA
1 TAAATAAAAT-AAAA
19029659 TGAAA-ATAAATAAAAA
1 T-AAATA-AAAT-AAAA
19029675 TAAATAAAA-AAAA
1 TAAATAAAATAAAA
19029688 TA
1 TA
19029690 TTAAACAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
13 17 0.33
14 8 0.16
15 12 0.24
16 14 0.27
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (14 bp):
TAAATAAAATAAAA
Found at i:19029647 original size:10 final size:9
Alignment explanation
Indices: 19029617--19029689 Score: 67
Period size: 10 Copynumber: 7.7 Consensus size: 9
19029607 TAATTTTATT
*
19029617 TAAAGAAAA
1 TAAATAAAA
*
19029626 TAAA-ATAA
1 TAAATAAAA
19029634 TAAAGTAAAA
1 TAAA-TAAAA
19029644 TAAATAAAA
1 TAAATAAAA
19029653 TAAAAATGAAAA
1 T--AAAT-AAAA
19029665 TAAATAAAAA
1 TAAAT-AAAA
19029675 TAAATAAAA
1 TAAATAAAA
*
19029684 AAAATA
1 TAAATA
19029690 TTAAACAATT
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
8 7 0.13
9 19 0.35
10 20 0.36
11 4 0.07
12 5 0.09
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (9 bp):
TAAATAAAA
Found at i:19029648 original size:17 final size:17
Alignment explanation
Indices: 19029617--19029683 Score: 59
Period size: 17 Copynumber: 3.8 Consensus size: 17
19029607 TAATTTTATT
19029617 TAAAGAAAATAAAATAA
1 TAAAGAAAATAAAATAA
19029634 TAAAGTAAAAT-AAATAA
1 TAAAG-AAAATAAAATAA
19029651 -AATA-AAAATGAAAATAAA
1 TAA-AGAAAAT-AAAAT-AA
*
19029669 TAAAAATAAATAAAA
1 TAAAGA-AAATAAAA
19029684 AAAATATTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
15 5 0.12
16 2 0.05
17 16 0.38
18 8 0.19
19 7 0.17
20 4 0.10
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.19
Consensus pattern (17 bp):
TAAAGAAAATAAAATAA
Found at i:19029648 original size:22 final size:21
Alignment explanation
Indices: 19029623--19029689 Score: 86
Period size: 21 Copynumber: 3.2 Consensus size: 21
19029613 TATTTAAAGA
19029623 AAATAAAATAATAAAGTAAAAT
1 AAATAAAATAATAAA-TAAAAT
19029645 AAATAAAATAA-AAATGAAAAT
1 AAATAAAATAATAAAT-AAAAT
*
19029666 AAAT-AAA-AATAAATAAAAA
1 AAATAAAATAATAAATAAAAT
19029685 AAATA
1 AAATA
19029690 TTAAACAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
19 10 0.24
20 8 0.20
21 12 0.29
22 11 0.27
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (21 bp):
AAATAAAATAATAAATAAAAT
Found at i:19029664 original size:6 final size:5
Alignment explanation
Indices: 19029622--19029689 Score: 58
Period size: 5 Copynumber: 14.2 Consensus size: 5
19029612 TTATTTAAAG
*
19029622 AAAAT AAAAT --AAT AAAGT AAAAT -AAAT AAAAT AAAAAT GAAAAT -AAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT
19029670 AAAA- ATAAAT AAAA- AAAAT A
1 AAAAT A-AAAT AAAAT AAAAT A
19029690 TTAAACAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
3 3 0.06
4 13 0.25
5 25 0.48
6 11 0.21
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:19029666 original size:12 final size:11
Alignment explanation
Indices: 19029622--19029678 Score: 57
Period size: 12 Copynumber: 5.2 Consensus size: 11
19029612 TTATTTAAAG
19029622 AAAATAAAATA
1 AAAATAAAATA
19029633 ATAAAGTAAAAT-
1 A-AAA-TAAAATA
19029645 -AAATAAAATA
1 AAAATAAAATA
19029655 AAAATGAAAATA
1 AAAAT-AAAATA
*
19029667 AATA-AAAATA
1 AAAATAAAATA
19029677 AA
1 AA
19029679 TAAAAAAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
9 6 0.15
10 11 0.28
11 5 0.12
12 12 0.30
13 6 0.15
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:19029666 original size:21 final size:21
Alignment explanation
Indices: 19029623--19029678 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 21
19029613 TATTTAAAGA
19029623 AAATAAAATAATAAAGTAAAAT
1 AAATAAAATAA-AAAGTAAAAT
19029645 AAATAAAATAAAAA-TGAAAAT
1 AAATAAAATAAAAAGT-AAAAT
19029666 AAATAAAAATAAA
1 AAAT-AAAATAAA
19029679 TAAAAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 1 0.03
21 12 0.38
22 19 0.59
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.20
Consensus pattern (21 bp):
AAATAAAATAAAAAGTAAAAT
Found at i:19029694 original size:16 final size:15
Alignment explanation
Indices: 19029640--19029694 Score: 51
Period size: 14 Copynumber: 3.6 Consensus size: 15
19029630 ATAATAAAGT
19029640 AAAA-TAAATAAAATA
1 AAAATTAAATAAAA-A
* *
19029655 AAAATGAAAATAAATA
1 AAAAT-TAAATAAAAA
19029671 AAAA-TAAATAAAAA
1 AAAATTAAATAAAAA
19029685 AAATATTAAA
1 AAA-ATTAAA
19029695 CAATTCTGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
14 11 0.34
15 5 0.16
16 9 0.28
17 7 0.22
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (15 bp):
AAAATTAAATAAAAA
Found at i:19030010 original size:18 final size:19
Alignment explanation
Indices: 19029987--19030029 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
19029977 TTCAGCAGAA
*
19029987 CTCTCTTTTTCTCTCTC-T
1 CTCTCTTTTCCTCTCTCTT
*
19030005 CTCTCTTTTCCTTTCTCTT
1 CTCTCTTTTCCTCTCTCTT
19030024 CTCTCT
1 CTCTCT
19030030 CTTCTCTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (19 bp):
CTCTCTTTTCCTCTCTCTT
Found at i:19030034 original size:14 final size:14
Alignment explanation
Indices: 19029987--19030036 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 14
19029977 TTCAGCAGAA
19029987 CTCTCTT-T-TTCT
1 CTCTCTTCTCTTCT
*
19029999 CTCTCTCTCTCTTTT
1 CTCTCT-TCTCTTCT
19030014 C-CT-TTCTCTTCT
1 CTCTCTTCTCTTCT
19030026 CTCTCTTCTCT
1 CTCTCTTCTCT
19030037 AAAAACTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
12 14 0.45
13 4 0.13
14 9 0.29
15 4 0.13
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (14 bp):
CTCTCTTCTCTTCT
Found at i:19030670 original size:22 final size:20
Alignment explanation
Indices: 19030643--19030683 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 20
19030633 AAATAAATAC
19030643 TAGATAAATTATAATATATAAT
1 TAGATAAA-TAT-ATATATAAT
19030665 TAGATAAATATATATATAA
1 TAGATAAATATATATATAA
19030684 ATATTAACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 3 0.16
22 8 0.42
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (20 bp):
TAGATAAATATATATATAAT
Found at i:19030785 original size:11 final size:11
Alignment explanation
Indices: 19030769--19030827 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
19030759 AGTAATAATA
19030769 AATAAACAAAT
1 AATAAACAAAT
* *
19030780 AATAAATACAT
1 AATAAACAAAT
*
19030791 AAGATAA-AAAT
1 AATA-AACAAAT
*
19030802 AATAAAAAAAT
1 AATAAACAAAT
19030813 AAT-AAC-AAT
1 AATAAACAAAT
19030822 AATAAA
1 AATAAA
19030828 ATAAAAATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
9 6 0.15
10 6 0.15
11 25 0.64
12 2 0.05
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (11 bp):
AATAAACAAAT
Found at i:19030814 original size:22 final size:21
Alignment explanation
Indices: 19030765--19030843 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
19030755 AAATAGTAAT
*
19030765 AATAAATAAACAAATAATAAATA
1 AATAAAT-AA-AAATAATAAAAA
*
19030788 CATAAGATAAAAATAATAAAAA
1 AATAA-ATAAAAATAATAAAAA
* *
19030810 AAT-AATAACAATAATAAAAT
1 AATAAATAAAAATAATAAAAA
19030830 AA-AAATATAAAATA
1 AATAAATA-AAAATA
19030844 CAAAATAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
20 20 0.43
21 6 0.13
22 13 0.28
23 6 0.13
24 2 0.04
ACGTcount: A:0.73, C:0.04, G:0.01, T:0.22
Consensus pattern (21 bp):
AATAAATAAAAATAATAAAAA
Found at i:19030817 original size:25 final size:23
Alignment explanation
Indices: 19030762--19030858 Score: 74
Period size: 23 Copynumber: 4.1 Consensus size: 23
19030752 AAAAAATAGT
* * *
19030762 AATAATAAATAAACA-AATAATA
1 AATAATAAATAAAAATAAAAAAA
19030784 AATACATAAGATAAAAATAATAAAAA
1 AATA-ATAA-ATAAAAATAA-AAAAA
* *
19030810 AATAAT-AACAATAATAAAATAAA
1 AATAATAAATAAAAATAAAA-AAA
19030833 AAT-ATAAAATACAAAATAAAAAAA
1 AATAAT-AAATA-AAAATAAAAAAA
19030857 AA
1 AA
19030859 GGCTTACCCA
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
22 8 0.13
23 18 0.30
24 15 0.25
25 12 0.20
26 7 0.12
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.20
Consensus pattern (23 bp):
AATAATAAATAAAAATAAAAAAA
Found at i:19030851 original size:34 final size:35
Alignment explanation
Indices: 19030769--19030841 Score: 100
Period size: 33 Copynumber: 2.2 Consensus size: 35
19030759 AGTAATAATA
* *
19030769 AATAAACAAATAAT-A-AATACATAAGATAAAAAT
1 AATAAAAAAATAATAACAATACATAAAATAAAAAT
19030802 AATAAAAAAATAATAACAATA-ATAAAATAAAAAT
1 AATAAAAAAATAATAACAATACATAAAATAAAAAT
19030836 -ATAAAA
1 AATAAAA
19030842 TACAAAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
33 19 0.53
34 13 0.36
35 4 0.11
ACGTcount: A:0.74, C:0.04, G:0.01, T:0.21
Consensus pattern (35 bp):
AATAAAAAAATAATAACAATACATAAAATAAAAAT
Found at i:19030855 original size:14 final size:14
Alignment explanation
Indices: 19030751--19030855 Score: 60
Period size: 14 Copynumber: 7.5 Consensus size: 14
19030741 ATATATATAT
*
19030751 TAAAAAATAGT-AA
1 TAAAAAATAATAAA
* *
19030764 TAATAAATAAACAAA
1 TAAAAAAT-AATAAA
*
19030779 TAATAAATACATAAGA
1 TAAAAAATA-ATAA-A
19030795 T-AAAAATAATAAA
1 TAAAAAATAATAAA
*
19030808 -AAAATAATAA-CAA
1 TAAAA-AATAATAAA
19030821 TAATAAAATAA-AAA
1 TAA-AAAATAATAAA
*
19030835 TATAAAATACA-AAA
1 TAAAAAATA-ATAAA
19030849 TAAAAAA
1 TAAAAAA
19030856 AAAGGCTTAC
Statistics
Matches: 74, Mismatches: 9, Indels: 17
0.74 0.09 0.17
Matches are distributed among these distances:
13 19 0.26
14 32 0.43
15 21 0.28
16 2 0.03
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (14 bp):
TAAAAAATAATAAA
Found at i:19031124 original size:41 final size:40
Alignment explanation
Indices: 19031067--19031197 Score: 183
Period size: 41 Copynumber: 3.2 Consensus size: 40
19031057 TGAAAAATAT
*
19031067 AAATAAATG-CTCCTCTAATTAGAGGCTCAACAACTTTGA
1 AAATAAATGACTCCTCTAATCAGAGGCTCAACAACTTTGA
19031106 ACAATAAATGACTCCTCTAATCAGAGGCTCAACAACTTTGA
1 A-AATAAATGACTCCTCTAATCAGAGGCTCAACAACTTTGA
* * *
19031147 AAATAAATAAAGCTCCTCTAATCAGAGGCTTAACGACTTTGAA
1 AAATAAAT-GA-CTCCTCTAATCAGAGGCTCAACAACTTTG-A
19031190 AAATAAAT
1 AAATAAAT
19031198 TGCTCCTTAA
Statistics
Matches: 83, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
39 1 0.01
40 15 0.18
41 31 0.37
42 27 0.33
43 9 0.11
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (40 bp):
AAATAAATGACTCCTCTAATCAGAGGCTCAACAACTTTGA
Done.