Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 12 of 79
Found at i:4056224 original size:23 final size:23
Alignment explanation
Indices: 4056180--4056224 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4056170 CTAAACTGTA
* *
4056180 TATAAAATTTATTGTTTTTAAAT
1 TATAAAATTTATTGTATATAAAT
*
4056203 TATAAATTTTATTGTATATAAA
1 TATAAAATTTATTGTATATAAA
4056225 AATAAATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
TATAAAATTTATTGTATATAAAT
Found at i:4056229 original size:22 final size:23
Alignment explanation
Indices: 4056181--4056231 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
4056171 TAAACTGTAT
* * * *
4056181 ATAAAATTTATTGTTTTTAAATT
1 ATAAATTTTATTGTATATAAATA
4056204 ATAAATTTTATTGTATATAAA-A
1 ATAAATTTTATTGTATATAAATA
4056226 ATAAAT
1 ATAAAT
4056232 AAATAAATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
ATAAATTTTATTGTATATAAATA
Found at i:4056502 original size:82 final size:83
Alignment explanation
Indices: 4056364--4056528 Score: 323
Period size: 82 Copynumber: 2.0 Consensus size: 83
4056354 TTTCATTTTT
4056364 GCATATTTTATTTATTTAATATTAATATTTGTTTTTCATATCCTTTATACATGAAATATATTATA
1 GCATATTTTATTTATTTAATATTAATATTTGTTTTTCATATCCTTTATACATGAAATATATTATA
4056429 TTCCACATTAAACTCTTG
66 TTCCACATTAAACTCTTG
4056447 GCATATTTTA-TTATTTAATATTAATATTTGTTTTTCATATCCTTTATACATGAAATATATTATA
1 GCATATTTTATTTATTTAATATTAATATTTGTTTTTCATATCCTTTATACATGAAATATATTATA
4056511 TTCCACATTAAACTCTTG
66 TTCCACATTAAACTCTTG
4056529 CATTGTACGA
Statistics
Matches: 82, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
82 72 0.88
83 10 0.12
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.50
Consensus pattern (83 bp):
GCATATTTTATTTATTTAATATTAATATTTGTTTTTCATATCCTTTATACATGAAATATATTATA
TTCCACATTAAACTCTTG
Found at i:4057156 original size:3 final size:3
Alignment explanation
Indices: 4057148--4057172 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4057138 TTTAACTCTC
4057148 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
4057173 TTTGCTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:4067252 original size:20 final size:19
Alignment explanation
Indices: 4067224--4067261 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
4067214 AGGTAAAAGT
*
4067224 TAATATTTATTAGTAATAG
1 TAATATTTATTACTAATAG
4067243 TAATAGTTTATTACTAATA
1 TAATA-TTTATTACTAATA
4067262 AATTCAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (19 bp):
TAATATTTATTACTAATAG
Found at i:4070588 original size:17 final size:18
Alignment explanation
Indices: 4070566--4070599 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4070556 ATATTATAAA
*
4070566 AATTAAA-AACAATTATG
1 AATTAAACAAAAATTATG
4070583 AATTAAACAAAAATTAT
1 AATTAAACAAAAATTAT
4070600 TTGTTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.29
Consensus pattern (18 bp):
AATTAAACAAAAATTATG
Found at i:4072559 original size:14 final size:14
Alignment explanation
Indices: 4072540--4072566 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4072530 GAATGGATGT
4072540 AATTTTGAATTTCG
1 AATTTTGAATTTCG
4072554 AATTTTGAATTTC
1 AATTTTGAATTTC
4072567 AACTCTTTTT
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:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (14 bp):
AATTTTGAATTTCG
Found at i:4073166 original size:3 final size:3
Alignment explanation
Indices: 4073158--4073216 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
4073148 TATGTGTCCT
4073158 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4073206 ATA ATA ATA AT
1 ATA ATA ATA AT
4073217 CCGCTTGATA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4073633 original size:8 final size:10
Alignment explanation
Indices: 4073610--4073669 Score: 52
Period size: 10 Copynumber: 6.0 Consensus size: 10
4073600 ATAATTTTTA
4073610 ATTTTTATAT
1 ATTTTTATAT
4073620 ATTTTTAT-T
1 ATTTTTATAT
4073629 ATTTTTAATGAT
1 ATTTTT-AT-AT
* *
4073641 GTTTTTATTT
1 ATTTTTATAT
*
4073651 GTTTTTA-AT
1 ATTTTTATAT
*
4073660 ATTTTAATAT
1 ATTTTTATAT
4073670 TAATATAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
9 13 0.32
10 20 0.49
11 2 0.05
12 6 0.15
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:4073648 original size:18 final size:18
Alignment explanation
Indices: 4073604--4073650 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
4073594 TATGTCATAA
*
4073604 TTTTTAATTTTTATATATT
1 TTTTT-ATTTTTATATATG
4073623 TTTATTATTTTTA-ATGATG
1 TTT-TTATTTTTATAT-ATG
4073642 TTTTTATTT
1 TTTTTATTT
4073651 GTTTTTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 8 0.32
19 15 0.60
20 2 0.08
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (18 bp):
TTTTTATTTTTATATATG
Found at i:4074767 original size:14 final size:14
Alignment explanation
Indices: 4074732--4074764 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4074722 CATCATTTAT
*
4074732 CTATAACCAAAATC
1 CTATAACCAAAACC
4074746 CTATAACCAAAACC
1 CTATAACCAAAACC
4074760 C-ATAA
1 CTATAA
4074765 ACCCATACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.18
Consensus pattern (14 bp):
CTATAACCAAAACC
Found at i:4078864 original size:14 final size:16
Alignment explanation
Indices: 4078840--4078871 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
4078830 TTCGTATATC
4078840 TTCACCCCTTT-TTTT
1 TTCACCCCTTTCTTTT
4078855 TTCA-CCCTTTCTTTT
1 TTCACCCCTTTCTTTT
4078870 TT
1 TT
4078872 GCAACTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.62
Consensus pattern (16 bp):
TTCACCCCTTTCTTTT
Found at i:4081645 original size:30 final size:30
Alignment explanation
Indices: 4081578--4081649 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 30
4081568 ATGTGGAGGA
* ** *
4081578 CTTAATT-ATTTTTTATTATTTTATGATGG
1 CTTAATTGATTTTTAATTATTTTAAAAGGG
4081607 CTTAAATTGATTTTTAATTATTTTAAAAGGG
1 CTT-AATTGATTTTTAATTATTTTAAAAGGG
4081638 CTTAATTGATTT
1 CTTAATTGATTT
4081650 AGGGATTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 3 0.08
30 13 0.35
31 21 0.57
ACGTcount: A:0.29, C:0.04, G:0.11, T:0.56
Consensus pattern (30 bp):
CTTAATTGATTTTTAATTATTTTAAAAGGG
Found at i:4081727 original size:19 final size:18
Alignment explanation
Indices: 4081703--4081749 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 18
4081693 AATCTTAAAT
4081703 TTTTTATAACATT-TAATAC
1 TTTTTATAAC-TTAT-ATAC
4081722 TTTTTAATAACTTATATAC
1 TTTTT-ATAACTTATATAC
4081741 TTTTTATAA
1 TTTTTATAA
4081750 TTTTCTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 4 0.15
19 16 0.62
20 6 0.23
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTTTATAACTTATATAC
Found at i:4082128 original size:21 final size:19
Alignment explanation
Indices: 4082087--4082142 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
4082077 TTTTTACATC
4082087 TTTTTATACTTTTAATAAA
1 TTTTTATACTTTTAATAAA
* *
4082106 TTTTTATAACTTTTTTATTAA
1 TTTTTAT-AC-TTTTAATAAA
4082127 TTTTTAT-CATTTTAAT
1 TTTTTATAC-TTTTAAT
4082143 TATTCTTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 14 0.45
20 2 0.06
21 15 0.48
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTATACTTTTAATAAA
Found at i:4082144 original size:19 final size:19
Alignment explanation
Indices: 4082087--4082144 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
4082077 TTTTTACATC
*
4082087 TTTTTAT-ACTTTTAATAAA
1 TTTTTATCA-TTTTAATTAA
* *
4082106 TTTTTATAACTTTTTTATTAA
1 TTTTTAT--CATTTTAATTAA
4082127 TTTTTATCATTTTAATTA
1 TTTTTATCATTTTAATTA
4082145 TTCTTATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 16 0.52
21 15 0.48
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTATCATTTTAATTAA
Found at i:4082202 original size:9 final size:9
Alignment explanation
Indices: 4082087--4082220 Score: 81
Period size: 9 Copynumber: 13.9 Consensus size: 9
4082077 TTTTTACATC
*
4082087 TTTTTATAC
1 TTTTTATAA
*
4082096 TTTTAATAAA
1 TTTTTAT-AA
4082106 TTTTTATAA
1 TTTTTATAA
4082115 CTTTTTTATTAA
1 --TTTTTA-TAA
*
4082127 TTTTTATCA
1 TTTTTATAA
* *
4082136 TTTTAATTA
1 TTTTTATAA
4082145 TTCTTATATAA
1 TT-TT-TATAA
4082156 TTTTCTATAA
1 TTTT-TATAA
* *
4082166 TTTCTAAAA
1 TTTTTATAA
4082175 TATTTTA-ATA
1 T-TTTTATA-A
*
4082185 TTTTAATAA
1 TTTTTATAA
4082194 TTTTTATAAA
1 TTTTTAT-AA
* *
4082204 TTTTGAGAA
1 TTTTTATAA
4082213 TTTTTATA
1 TTTTTATA
4082221 TAATATCTAA
Statistics
Matches: 97, Mismatches: 18, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
9 44 0.45
10 39 0.40
11 11 0.11
12 3 0.03
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:4082206 original size:19 final size:19
Alignment explanation
Indices: 4082096--4082220 Score: 69
Period size: 19 Copynumber: 6.4 Consensus size: 19
4082086 CTTTTTATAC
* *
4082096 TTTTAATAAATTTTTATAA
1 TTTTTATAAATTTTAATAA
* * *
4082115 CTTTTTTATTAATTTTTATCA
1 --TTTTTATAAATTTTAATAA
* *
4082136 TTTTAAT-TATTCTTATATAA
1 TTTTTATAAATT-TTA-ATAA
4082156 TTTTCTAT-AATTTCTAA-AA
1 TTTT-TATAAATTT-TAATAA
*
4082175 TATTTTA-ATATTTTAATAA
1 T-TTTTATAAATTTTAATAA
* *
4082194 TTTTTATAAATTTTGAGAA
1 TTTTTATAAATTTTAATAA
4082213 TTTTTATA
1 TTTTTATA
4082221 TAATATCTAA
Statistics
Matches: 83, Mismatches: 13, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
18 11 0.13
19 37 0.45
20 12 0.14
21 23 0.28
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTTTATAAATTTTAATAA
Found at i:4082226 original size:49 final size:51
Alignment explanation
Indices: 4082117--4082226 Score: 117
Period size: 49 Copynumber: 2.3 Consensus size: 51
4082107 TTTTATAACT
* * *
4082117 TTTTTAT-TAAT-TTTTATCATTTTAATTATTCTTATATAATTTTCTATAA
1 TTTTTATATAATATTTTATCATTTTAATAATTCTTATATAATTTTCGAGAA
* *
4082166 TTTCTA-A-AATATTTTAAT-ATTTTAATAATTTTTATA-AATTTT-GAGAA
1 TTTTTATATAATATTTT-ATCATTTTAATAATTCTTATATAATTTTCGAGAA
4082213 TTTTTATATAATAT
1 TTTTTATATAATAT
4082227 CTAAAATTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
47 8 0.16
48 10 0.20
49 30 0.60
50 2 0.04
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (51 bp):
TTTTTATATAATATTTTATCATTTTAATAATTCTTATATAATTTTCGAGAA
Found at i:4082296 original size:30 final size:33
Alignment explanation
Indices: 4082229--4082307 Score: 92
Period size: 35 Copynumber: 2.4 Consensus size: 33
4082219 TATAATATCT
* *
4082229 AAAATTAAATTAAGTTTCCTAAAATAATTAACAAA
1 AAAATTAAATTAA--ATCATAAAATAATTAACAAA
4082264 AAAATTAAATTAAATCATAAAATAA-T-ACAAA
1 AAAATTAAATTAAATCATAAAATAATTAACAAA
*
4082295 AAAA-TCAATTAAA
1 AAAATTAAATTAAA
4082308 CCCTCCACAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
30 8 0.20
31 9 0.22
32 1 0.02
33 10 0.24
35 13 0.32
ACGTcount: A:0.63, C:0.08, G:0.01, T:0.28
Consensus pattern (33 bp):
AAAATTAAATTAAATCATAAAATAATTAACAAA
Found at i:4090320 original size:13 final size:13
Alignment explanation
Indices: 4090302--4090331 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4090292 TCCAGCAACT
4090302 ATGAATTTATTTC
1 ATGAATTTATTTC
*
4090315 ATGAATTTATTTG
1 ATGAATTTATTTC
4090328 ATGA
1 ATGA
4090332 TGACCCAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:4090503 original size:50 final size:50
Alignment explanation
Indices: 4090426--4090667 Score: 367
Period size: 50 Copynumber: 4.8 Consensus size: 50
4090416 ATTTGGGTAA
* *
4090426 AGAGGTCCCATGTAAGACCATGTCTGGGGCATGGCATTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
4090476 AGAGGTCCCATGTAAGATCATGCCTGGGACATGGCATTGGCACCGAGCTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
4090526 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
4090576 AAAAGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
4090626 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
4090668 TGTTATGATC
Statistics
Matches: 175, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 175 1.00
ACGTcount: A:0.25, C:0.23, G:0.32, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:4092370 original size:15 final size:15
Alignment explanation
Indices: 4092350--4092386 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
4092340 ACTTAAACCA
*
4092350 AAACATATAGCCATG
1 AAACATATAACCATG
4092365 AAACATATAACCATG
1 AAACATATAACCATG
4092380 AAACATA
1 AAACATA
4092387 CTTCCCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.54, C:0.19, G:0.08, T:0.19
Consensus pattern (15 bp):
AAACATATAACCATG
Found at i:4092987 original size:43 final size:42
Alignment explanation
Indices: 4092919--4093044 Score: 146
Period size: 43 Copynumber: 3.0 Consensus size: 42
4092909 AAAACACATA
* *
4092919 TATCACATA-CAATGCCATATCCCAGACATGGTCTTACATGT
1 TATCACATATCGATGCCATATCCCAGACATGGTCTTACACGT
* *
4092960 TATCACATATCGATGCCACTATCCCAGATAGGGTCTTACACGT
1 TATCACATATCGATGCCA-TATCCCAGACATGGTCTTACACGT
* * * * *
4093003 AATCTCATATCGATGCTAATGTCCCAGACATGGTCTTCCACG
1 TATCACATATCGATGC-CATATCCCAGACATGGTCTTACACG
4093045 AAATCATATA
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
41 9 0.13
42 7 0.10
43 54 0.76
44 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.29
Consensus pattern (42 bp):
TATCACATATCGATGCCATATCCCAGACATGGTCTTACACGT
Found at i:4097397 original size:20 final size:20
Alignment explanation
Indices: 4097372--4097411 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
4097362 GAGCTACAGG
4097372 GCTCCAAATTAAGTTCCGTA
1 GCTCCAAATTAAGTTCCGTA
4097392 GCTCCAAATTAAGTTCCGTA
1 GCTCCAAATTAAGTTCCGTA
4097412 AATTTTCCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (20 bp):
GCTCCAAATTAAGTTCCGTA
Found at i:4098219 original size:102 final size:102
Alignment explanation
Indices: 4098091--4098289 Score: 335
Period size: 102 Copynumber: 2.0 Consensus size: 102
4098081 ATGAGTCGGG
* *
4098091 GAATCAACACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCACCA
1 GAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCA
* * *
4098156 ATTATTTGGGGAATCAGCACTTAGCAACCCCTCAGGA
66 ATGAGTCGGGGAATCAGCACTTAGCAACCCCTCAGGA
* *
4098193 GAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGTTGGAATCAGCACTTAGCAACCACCA
1 GAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCA
4098258 ATGAGTCGGGGAATCAGCACTTAGCAACCCCT
66 ATGAGTCGGGGAATCAGCACTTAGCAACCCCT
4098290 TTCACATTTA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 90 1.00
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.22
Consensus pattern (102 bp):
GAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCA
ATGAGTCGGGGAATCAGCACTTAGCAACCCCTCAGGA
Found at i:4098252 original size:42 final size:41
Alignment explanation
Indices: 4098193--4098328 Score: 162
Period size: 42 Copynumber: 3.5 Consensus size: 41
4098183 CCCCTCAGGA
4098193 GAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGTTG
1 GAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACG-TG
* * *
4098235 GAATCAGCACTTAGCAA-CCAC--CA-A--TGAG-T-CGGG
1 GAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGTG
*
4098268 GAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTG
1 GAATCAGCACTTAGCAACCCCCTTCACATTTAAGATAC-GTG
4098310 GAATCAGCACTTAGCAACC
1 GAATCAGCACTTAGCAACC
4098329 ACCAATGAAT
Statistics
Matches: 78, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
33 18 0.23
34 4 0.05
35 1 0.01
36 5 0.06
37 1 0.01
38 1 0.01
39 5 0.06
40 1 0.01
41 4 0.05
42 38 0.49
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (41 bp):
GAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGTG
Found at i:4098357 original size:177 final size:177
Alignment explanation
Indices: 4098056--4098391 Score: 573
Period size: 177 Copynumber: 1.9 Consensus size: 177
4098046 CCGTTATCGG
*
4098056 TGGATTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCACATT
* * * *
4098121 TAAGATACGGTGGGATCAGCACTTAGCAACCACCAATTATTTGGGGAATCAGCACTTAGCAACCC
66 TAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCC
*
4098186 CTCAGGAGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGT
131 CTCAGGAGAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGT
*
4098233 TGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCACATT
*
4098298 TAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCATCACTTAGCAACCC
66 TAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCC
** *
4098363 CTTGGGGGAATCAACACTTAGCAACCCCC
131 CTCAGGAGAATCAACACTTAGCAACCCCC
4098392 GTTATATTCA
Statistics
Matches: 148, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
177 148 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (177 bp):
TGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCACATT
TAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCC
CTCAGGAGAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGT
Found at i:4098364 original size:75 final size:75
Alignment explanation
Indices: 4098193--4098365 Score: 310
Period size: 75 Copynumber: 2.3 Consensus size: 75
4098183 CCCCTCAGGA
* *
4098193 GAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGTTGGAATCAGCACTTAGCAACCACCA
1 GAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCA
*
4098258 ATGAGTCGGG
66 ATGAATCGGG
4098268 GAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCA
1 GAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCA
4098333 ATGAATCGGG
66 ATGAATCGGG
*
4098343 GAATCATCACTTAGCAACCCCTT
1 GAATCAGCACTTAGCAACCCCTT
4098366 GGGGGAATCA
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 94 1.00
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.22
Consensus pattern (75 bp):
GAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCA
ATGAATCGGG
Found at i:4099840 original size:47 final size:49
Alignment explanation
Indices: 4099772--4099982 Score: 248
Period size: 51 Copynumber: 4.2 Consensus size: 49
4099762 ATTTATCACT
* * * *
4099772 TGTCATTTATCACTGATCAGATAAGTGCAACTAAAGCTACCACTTGT-C
1 TGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATAC
* *
4099820 -GTCACTTGTCACCGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT-AC
* *
4099869 TTTTCACTTATCACTGATCAGATAACTGTAGCTAAAGCTACCACTTATCAC
1 -TGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT-AC
* *
4099920 TTGTCACGTATCACTGATCAGATAAATGTAGCTAAA-CTACCACTTATCAC
1 -TGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT-AC
*
4099970 TTGTCACTGATCA
1 -TGTCACTTATCA
4099983 GAAGTACTCA
Statistics
Matches: 144, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
47 40 0.28
49 1 0.01
50 25 0.17
51 78 0.54
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (49 bp):
TGTCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATAC
Found at i:4099892 original size:51 final size:51
Alignment explanation
Indices: 4099820--4099982 Score: 256
Period size: 51 Copynumber: 3.2 Consensus size: 51
4099810 ACCACTTGTC
* * *
4099820 GTCACTTGTCACCGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTT
1 GTCACTTATCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCACTT
* *
4099871 TTCACTTATCACTGATCAGATAACTGTAGCTAAAGCTACCACTTATCACTT
1 GTCACTTATCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCACTT
*
4099922 GTCACGTATCACTGATCAGATAAATGTAGCTAAA-CTACCACTTATCACTT
1 GTCACTTATCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCACTT
*
4099972 GTCACTGATCA
1 GTCACTTATCA
4099983 GAAGTACTCA
Statistics
Matches: 103, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 25 0.24
51 78 0.76
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (51 bp):
GTCACTTATCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCACTT
Found at i:4104553 original size:24 final size:24
Alignment explanation
Indices: 4104526--4104571 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
4104516 AATTAGTGAT
4104526 AGGTATTACAGAAGAATCAATGGG
1 AGGTATTACAGAAGAATCAATGGG
*
4104550 AGGTATTATAGAAGAATCAATG
1 AGGTATTACAGAAGAATCAATG
4104572 AGAGTAGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.07, G:0.26, T:0.24
Consensus pattern (24 bp):
AGGTATTACAGAAGAATCAATGGG
Found at i:4109270 original size:7 final size:7
Alignment explanation
Indices: 4109258--4109300 Score: 68
Period size: 7 Copynumber: 6.1 Consensus size: 7
4109248 TATCATTTTT
*
4109258 AAATAAA
1 AAATCAA
*
4109265 AAATAAA
1 AAATCAA
4109272 AAATCAA
1 AAATCAA
4109279 AAATCAA
1 AAATCAA
4109286 AAATCAA
1 AAATCAA
4109293 AAATCAA
1 AAATCAA
4109300 A
1 A
4109301 CACATATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (7 bp):
AAATCAA
Found at i:4118025 original size:24 final size:24
Alignment explanation
Indices: 4118006--4118079 Score: 130
Period size: 24 Copynumber: 3.1 Consensus size: 24
4117996 CTCGAAGTCA
4118006 GACTCAGAGTCGGAGCCGAAGCCG
1 GACTCAGAGTCGGAGCCGAAGCCG
*
4118030 GACTCGGAGTCGGAGCCGAAGCCG
1 GACTCAGAGTCGGAGCCGAAGCCG
*
4118054 GACTCAGAGTCAGAGCCGAAGCCG
1 GACTCAGAGTCGGAGCCGAAGCCG
4118078 GA
1 GA
4118080 GGTGGATCCT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.26, C:0.28, G:0.38, T:0.08
Consensus pattern (24 bp):
GACTCAGAGTCGGAGCCGAAGCCG
Found at i:4121375 original size:3 final size:3
Alignment explanation
Indices: 4121367--4121423 Score: 53
Period size: 3 Copynumber: 18.3 Consensus size: 3
4121357 AAATTTCCTC
* * *
4121367 ATT ATT ATT ATT ATT ATGT GATT ATT AAT ATT AATT ATA ATT A-T GTT
1 ATT ATT ATT ATT ATT AT-T -ATT ATT ATT ATT -ATT ATT ATT ATT ATT
4121414 ATT ATT ATT A
1 ATT ATT ATT A
4121424 CAGTATTCCT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 1 0.02
3 36 0.82
4 5 0.11
5 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:4121403 original size:27 final size:26
Alignment explanation
Indices: 4121369--4121420 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
4121359 ATTTCCTCAT
*
4121369 TATTATTATTATTATGTGATTATTAA
1 TATTATTATAATTATGTGATTATTAA
*
4121395 TATTAATTATAATTATGTTATTATTA
1 TATT-ATTATAATTATGTGATTATTA
4121421 TTACAGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.58
Consensus pattern (26 bp):
TATTATTATAATTATGTGATTATTAA
Found at i:4122966 original size:109 final size:110
Alignment explanation
Indices: 4122801--4123021 Score: 435
Period size: 109 Copynumber: 2.0 Consensus size: 110
4122791 TGCCCATATA
4122801 CCTTTAATAAAATTAACATATATATATATATATATATATTCACCTTGCGTTTACTGTTTTCAGTT
1 CCTTTAATAAAATTAACATATATATATATATATATATATTCACCTTGCGTTTACTGTTTTCAGTT
4122866 TGCAACGGATGGAAATTATTTACTTAATCCGTAAATTCTATTTTC
66 TGCAACGGATGGAAATTATTTACTTAATCCGTAAATTCTATTTTC
4122911 CCTTTAAT-AAATTAACATATATATATATATATATATATTCACCTTGCGTTTACTGTTTTCAGTT
1 CCTTTAATAAAATTAACATATATATATATATATATATATTCACCTTGCGTTTACTGTTTTCAGTT
4122975 TGCAACGGATGGAAATTATTTACTTAATCCGTAAATTCTATTTTC
66 TGCAACGGATGGAAATTATTTACTTAATCCGTAAATTCTATTTTC
4123020 CC
1 CC
4123022 CTTCAAATGC
Statistics
Matches: 111, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
109 103 0.93
110 8 0.07
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.43
Consensus pattern (110 bp):
CCTTTAATAAAATTAACATATATATATATATATATATATTCACCTTGCGTTTACTGTTTTCAGTT
TGCAACGGATGGAAATTATTTACTTAATCCGTAAATTCTATTTTC
Found at i:4133255 original size:25 final size:25
Alignment explanation
Indices: 4133200--4133256 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
4133190 AGCTCTTCCA
**
4133200 AGCTGAATAACGGAAAGCTCATGTG
1 AGCTGAATAACGGAAAGCTCATAAG
* *
4133225 ATCTGAATAACGGGAAGCTCATAAG
1 AGCTGAATAACGGAAAGCTCATAAG
4133250 AGCTGAA
1 AGCTGAA
4133257 ATCGGTGACC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.19
Consensus pattern (25 bp):
AGCTGAATAACGGAAAGCTCATAAG
Found at i:4147595 original size:54 final size:54
Alignment explanation
Indices: 4147491--4147595 Score: 156
Period size: 54 Copynumber: 1.9 Consensus size: 54
4147481 GTTACATGAT
* * **
4147491 CGTGTGTATCAAGTTAGTGAGTCACATGGTCTGGCACACCGTCTGTGACACAGC
1 CGTGTGAATCAAGTTAGTGAGTCACATGGTCTGGCACACCGCCTACGACACAGC
* *
4147545 CGTGTGAATCAAGTTAGTGAGTTACATGGTCTGGCACACGGCCTACGACAC
1 CGTGTGAATCAAGTTAGTGAGTCACATGGTCTGGCACACCGCCTACGACAC
4147596 GACTGTGTGA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (54 bp):
CGTGTGAATCAAGTTAGTGAGTCACATGGTCTGGCACACCGCCTACGACACAGC
Found at i:4147604 original size:54 final size:53
Alignment explanation
Indices: 4147491--4147624 Score: 153
Period size: 54 Copynumber: 2.5 Consensus size: 53
4147481 GTTACATGAT
* * **
4147491 CGTGTGTATCAAGTTAGTGAGTCACATGGTCTGGCACACCGTCTGTGACACAGC
1 CGTGTG-ATCAAGTTAGTGAGTTACATGGTCTGGCACACCGCCTACGACACAGC
*
4147545 CGTGTGAATCAAGTTAGTGAGTTACATGGTCTGGCACACGGCCTACGACAC-GAC
1 CGTGTG-ATCAAGTTAGTGAGTTACATGGTCTGGCACACCGCCTACGACACAG-C
* * *
4147599 TGTGTGACCTTAGTTAGTGAGTTACA
1 CGTGTGATC-AAGTTAGTGAGTTACA
4147625 CGGTTTATGA
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
53 3 0.04
54 66 0.96
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (53 bp):
CGTGTGATCAAGTTAGTGAGTTACATGGTCTGGCACACCGCCTACGACACAGC
Found at i:4149981 original size:11 final size:11
Alignment explanation
Indices: 4149941--4149982 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
4149931 ACCACCCCAA
*
4149941 ACCACCAAATC
1 ACCACCACATC
* *
4149952 ACCACCATAGC
1 ACCACCACATC
4149963 ACCACCACATC
1 ACCACCACATC
4149974 ACCACCACA
1 ACCACCACA
4149983 CTGAAACCGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.40, C:0.50, G:0.02, T:0.07
Consensus pattern (11 bp):
ACCACCACATC
Found at i:4150917 original size:22 final size:23
Alignment explanation
Indices: 4150892--4150934 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
4150882 TACAAATTTA
*
4150892 GTGG-TTATCCACGACCTACAAG
1 GTGGTTTATCCACAACCTACAAG
4150914 GTGGTTTATCCACAACCTACA
1 GTGGTTTATCCACAACCTACA
4150935 TGTTTTAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (23 bp):
GTGGTTTATCCACAACCTACAAG
Found at i:4161938 original size:20 final size:20
Alignment explanation
Indices: 4161913--4161954 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
4161903 ACTTGACTGG
4161913 CTTTCTTGATGGCACAGTAA
1 CTTTCTTGATGGCACAGTAA
4161933 CTTTCTTGATGGCACAGTAA
1 CTTTCTTGATGGCACAGTAA
4161953 CT
1 CT
4161955 ACTCCACTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (20 bp):
CTTTCTTGATGGCACAGTAA
Found at i:4178634 original size:15 final size:15
Alignment explanation
Indices: 4178614--4178645 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
4178604 GACTCTGTTC
4178614 CATCTTTTAAGGTCA
1 CATCTTTTAAGGTCA
4178629 CATCTTTTAAGGTCA
1 CATCTTTTAAGGTCA
4178644 CA
1 CA
4178646 ACACTTGCAT
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:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (15 bp):
CATCTTTTAAGGTCA
Found at i:4180617 original size:19 final size:19
Alignment explanation
Indices: 4180593--4180633 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
4180583 TGAAAATCCC
4180593 AACTCGAATCAACGGCCTT
1 AACTCGAATCAACGGCCTT
4180612 AACTCGAATCAACGGCCTT
1 AACTCGAATCAACGGCCTT
4180631 AAC
1 AAC
4180634 CGCGTGGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.34, C:0.32, G:0.15, T:0.20
Consensus pattern (19 bp):
AACTCGAATCAACGGCCTT
Found at i:4181225 original size:13 final size:13
Alignment explanation
Indices: 4181207--4181249 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
4181197 TAGACTTTTC
4181207 CTAAATATTATCA
1 CTAAATATTATCA
*
4181220 CTAAATA--GTC-
1 CTAAATATTATCA
4181230 CTAAATATTATCA
1 CTAAATATTATCA
4181243 CTAAATA
1 CTAAATA
4181250 ATTCAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:4181232 original size:23 final size:23
Alignment explanation
Indices: 4181205--4181249 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
4181195 GCTAGACTTT
4181205 TCCTAAATATTATCACTAAATAG
1 TCCTAAATATTATCACTAAATAG
4181228 TCCTAAATATTATCACTAAATA
1 TCCTAAATATTATCACTAAATA
4181250 ATTCAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAG
Found at i:4181982 original size:30 final size:30
Alignment explanation
Indices: 4181946--4182007 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
4181936 TTGGTTATAA
4181946 TTGTTGAAGATCACTAAGCAACCTAATCTC
1 TTGTTGAAGATCACTAAGCAACCTAATCTC
4181976 TTGTTGAAGATCACTAAGCAACCTAATCTC
1 TTGTTGAAGATCACTAAGCAACCTAATCTC
4182006 TT
1 TT
4182008 TTTATCTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (30 bp):
TTGTTGAAGATCACTAAGCAACCTAATCTC
Found at i:4186662 original size:19 final size:20
Alignment explanation
Indices: 4186623--4186665 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
4186613 TTGAAGTACT
*
4186623 GATACTTTCCTTTAGGTATC
1 GATACTTTCATTTAGGTATC
*
4186643 GATACTTTTATTTA-GTATC
1 GATACTTTCATTTAGGTATC
4186662 GATA
1 GATA
4186666 TTATTTTAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.47
Consensus pattern (20 bp):
GATACTTTCATTTAGGTATC
Found at i:4206262 original size:21 final size:21
Alignment explanation
Indices: 4206238--4206285 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
4206228 CGACTGTGGC
* *
4206238 GGAGGACTAGCAGCTGGGGGT
1 GGAGGACTAACAGCTGAGGGT
*
4206259 GGAGGACTAACAGGTGAGGGT
1 GGAGGACTAACAGCTGAGGGT
4206280 GGAGGA
1 GGAGGA
4206286 GATAAGGATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.10, G:0.52, T:0.12
Consensus pattern (21 bp):
GGAGGACTAACAGCTGAGGGT
Found at i:4222478 original size:5 final size:5
Alignment explanation
Indices: 4222468--4222498 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
4222458 TGAGCATTCG
*
4222468 ATCGA ATCGA ATCGA ATCGA ATTGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
4222499 AATTTTCGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (5 bp):
ATCGA
Found at i:4223422 original size:9 final size:9
Alignment explanation
Indices: 4223408--4223444 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
4223398 TATAGTTTGA
4223408 TATTCGAAT
1 TATTCGAAT
4223417 TATTCGAAT
1 TATTCGAAT
*
4223426 TATTCGAGT
1 TATTCGAAT
4223435 TATTCGAAT
1 TATTCGAAT
4223444 T
1 T
4223445 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:4226333 original size:24 final size:24
Alignment explanation
Indices: 4226305--4226356 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
4226295 TTAGTAAGTC
* *
4226305 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
4226329 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
4226353 AAAT
1 AAAT
4226357 CTTTTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:4229961 original size:44 final size:44
Alignment explanation
Indices: 4229898--4229988 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
4229888 AACTCTGTTT
* *
4229898 TTAGTTTCCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTAATTAGTATAGGTTATTTTAATA
4229942 TTAGTTTCCCACTTAAACTCTAATTAGTATAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTAATTAGTATAGGTTATTTTAATA
4229986 TTA
1 TTA
4229989 TTTTACCTAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAACTCTAATTAGTATAGGTTATTTTAATA
Found at i:4232495 original size:30 final size:30
Alignment explanation
Indices: 4232461--4232756 Score: 574
Period size: 30 Copynumber: 9.9 Consensus size: 30
4232451 CAAAATTTTT
* *
4232461 TACTTTTCCCTCAAAACTTTTACTCCTTCC
1 TACTTTCCCCCCAAAACTTTTACTCCTTCC
4232491 TACTTTCCCCCCAAAACTTTTACTCCTTCC
1 TACTTTCCCCCCAAAACTTTTACTCCTTCC
4232521 TACTTTCCCCCCAAAACTTTTACTCCTTCC
1 TACTTTCCCCCCAAAACTTTTACTCCTTCC
4232551 TACTTTCCCCCCAAAACTTTTACTCCTTCC
1 TACTTTCCCCCCAAAACTTTTACTCCTTCC
4232581 TACTTTCCCCCCAAAACTTTTACTCCTTCC
1 TACTTTCCCCCCAAAACTTTTACTCCTTCC
4232611 TACTTTCCCCCCAAAACTTTTACTCCTTCC
1 TACTTTCCCCCCAAAACTTTTACTCCTTCC
4232641 TACTTTCCCCCCAAAACTTTTACTCCTTCC
1 TACTTTCCCCCCAAAACTTTTACTCCTTCC
4232671 TACTTTCCCCCCAAAACTTTTACTCCTTCC
1 TACTTTCCCCCCAAAACTTTTACTCCTTCC
4232701 TACTTTCCCCCCAAAACTTTTACTCCTTCC
1 TACTTTCCCCCCAAAACTTTTACTCCTTCC
4232731 TACTTTCCCCCCAAAACTTTTACTCC
1 TACTTTCCCCCCAAAACTTTTACTCC
4232757 CCTCCCCTCC
Statistics
Matches: 264, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
30 264 1.00
ACGTcount: A:0.20, C:0.43, G:0.00, T:0.37
Consensus pattern (30 bp):
TACTTTCCCCCCAAAACTTTTACTCCTTCC
Found at i:4232763 original size:5 final size:5
Alignment explanation
Indices: 4232753--4232787 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
4232743 AAAACTTTTA
4232753 CTCCC CTCCC CTCCC CTCCC CTCCC CTCCC C-CCC C
1 CTCCC CTCCC CTCCC CTCCC CTCCC CTCCC CTCCC C
4232788 AAACCCCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.00, C:0.83, G:0.00, T:0.17
Consensus pattern (5 bp):
CTCCC
Found at i:4236201 original size:15 final size:15
Alignment explanation
Indices: 4236181--4236212 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4236171 TATTTACTTA
*
4236181 TTAGTTTTATTTAAT
1 TTAGTTTAATTTAAT
4236196 TTAGTTTAATTTAAT
1 TTAGTTTAATTTAAT
4236211 TT
1 TT
4236213 TTATAGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (15 bp):
TTAGTTTAATTTAAT
Found at i:4240246 original size:6 final size:6
Alignment explanation
Indices: 4240235--4240275 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
4240225 AATTAATGTT
*
4240235 TTTATA TTTATA TTTACA TTT-TA TTTATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
4240276 GTTTTTAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (6 bp):
TTTATA
Found at i:4240261 original size:17 final size:17
Alignment explanation
Indices: 4240239--4240272 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4240229 AATGTTTTTA
4240239 TATTTATATTTACATTT
1 TATTTATATTTACATTT
*
4240256 TATTTATATTTATATTT
1 TATTTATATTTACATTT
4240273 ATAGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
TATTTATATTTACATTT
Found at i:4248788 original size:2 final size:2
Alignment explanation
Indices: 4248781--4248809 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4248771 GGTTTTGTGA
4248781 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4248810 AGCCATGCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4250542 original size:12 final size:11
Alignment explanation
Indices: 4250510--4250543 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
4250500 AATATATTTT
4250510 AAAATTATATA
1 AAAATTATATA
4250521 AAAATTATATA
1 AAAATTATATA
4250532 AAAATTAATATA
1 AAAATT-ATATA
4250544 GGCGGGCCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATTATATA
Found at i:4251300 original size:17 final size:18
Alignment explanation
Indices: 4251280--4251314 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
4251270 TTATTTTCAT
4251280 TTTGGT-TTTGCATGAGC
1 TTTGGTATTTGCATGAGC
4251297 TTTGGTAATTTGCATGAG
1 TTTGGT-ATTTGCATGAG
4251315 GTCGTGCAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.17, C:0.09, G:0.29, T:0.46
Consensus pattern (18 bp):
TTTGGTATTTGCATGAGC
Found at i:4252048 original size:42 final size:40
Alignment explanation
Indices: 4251978--4252113 Score: 218
Period size: 42 Copynumber: 3.3 Consensus size: 40
4251968 AAANNNNNNN
4251978 ATTTTAAAATATTTTTAAAATACTTTTTTTTAATTTTTTTA
1 ATTTTAAAATATTTTTAAAATAC-TTTTTTTAATTTTTTTA
4252019 ATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTTTAA
1 ATTTTAAAATATTTTTAAAATACTTTTTTTAA-TTTTTTT-A
*
4252061 ATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTAAA
1 ATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTT-TA
4252102 ATTTTTAAAATA
1 A-TTTTAAAATA
4252114 AAAATGGGCC
Statistics
Matches: 90, Mismatches: 1, Indels: 7
0.92 0.01 0.07
Matches are distributed among these distances:
40 9 0.10
41 38 0.42
42 43 0.48
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (40 bp):
ATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTTA
Found at i:4252066 original size:31 final size:32
Alignment explanation
Indices: 4252026--4252113 Score: 94
Period size: 31 Copynumber: 2.8 Consensus size: 32
4252016 TTAATTTTAA
**
4252026 AATATTTTTAAAATACTTTTTTTAAT-TTTTTTT
1 AATA-TTTTAAAATA-TTTTTAAAATATTTTTTT
4252059 AA-ATTTTAAAATATTTTTAAAATACTTTTTTT
1 AATATTTTAAAATATTTTTAAAATA-TTTTTTT
*
4252091 AAT-TTTTTAAA-ATTTTTAAAATA
1 AATATTTTAAAATATTTTTAAAATA
4252114 AAAATGGGCC
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
30 8 0.16
31 22 0.45
32 17 0.35
33 2 0.04
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (32 bp):
AATATTTTAAAATATTTTTAAAATATTTTTTT
Found at i:4255881 original size:116 final size:116
Alignment explanation
Indices: 4255677--4255908 Score: 464
Period size: 116 Copynumber: 2.0 Consensus size: 116
4255667 AGTCTGAAAC
4255677 CTTGTTAAAAGAGCGGAGGAGTGGCAAATAATTTCAGCTAATATTTCGATGTATTATTACCGTTT
1 CTTGTTAAAAGAGCGGAGGAGTGGCAAATAATTTCAGCTAATATTTCGATGTATTATTACCGTTT
4255742 CGACCAATACGTATCGGTTGGTACAATATTTTAAACCAATTTTAATATCTT
66 CGACCAATACGTATCGGTTGGTACAATATTTTAAACCAATTTTAATATCTT
4255793 CTTGTTAAAAGAGCGGAGGAGTGGCAAATAATTTCAGCTAATATTTCGATGTATTATTACCGTTT
1 CTTGTTAAAAGAGCGGAGGAGTGGCAAATAATTTCAGCTAATATTTCGATGTATTATTACCGTTT
4255858 CGACCAATACGTATCGGTTGGTACAATATTTTAAACCAATTTTAATATCTT
66 CGACCAATACGTATCGGTTGGTACAATATTTTAAACCAATTTTAATATCTT
4255909 TTCGTGTTTA
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 116 1.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (116 bp):
CTTGTTAAAAGAGCGGAGGAGTGGCAAATAATTTCAGCTAATATTTCGATGTATTATTACCGTTT
CGACCAATACGTATCGGTTGGTACAATATTTTAAACCAATTTTAATATCTT
Found at i:4257162 original size:24 final size:23
Alignment explanation
Indices: 4257135--4257189 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
4257125 ATTTATTTAT
4257135 ATATTTTTTTACAATTTTTTAAAA
1 ATATTTTTTTACAA-TTTTTAAAA
* ** *
4257159 ATATAATTTTTGTAATTTTTATAA
1 ATAT-TTTTTTACAATTTTTAAAA
4257183 ATATTTT
1 ATATTTT
4257190 GAATTTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 2 0.08
24 16 0.64
25 7 0.28
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
ATATTTTTTTACAATTTTTAAAA
Found at i:4257197 original size:20 final size:20
Alignment explanation
Indices: 4257150--4257217 Score: 84
Period size: 20 Copynumber: 3.2 Consensus size: 20
4257140 TTTTTACAAT
4257150 TTTTTAAAAATATAATTTTTGTAA
1 TTTTTAAAAAT-T-A-TTTTG-AA
*
4257174 TTTTTATAAA-TATTTTGAA
1 TTTTTAAAAATTATTTTGAA
4257193 TTTTTAAAAATTATTTTGAA
1 TTTTTAAAAATTATTTTGAA
4257213 TTTTT
1 TTTTT
4257218 TGTAATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
19 11 0.27
20 19 0.46
21 1 0.02
22 1 0.02
24 9 0.22
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTGAA
Found at i:4257224 original size:20 final size:20
Alignment explanation
Indices: 4257109--4257224 Score: 67
Period size: 20 Copynumber: 5.5 Consensus size: 20
4257099 ATTCTAGAAA
*
4257109 TTTTT-TAATT-TTTTAAAT
1 TTTTTATAATTATTTTGAAT
* *
4257127 TTATTTATATATTTTTTTACAAT
1 TT-TTTATA-ATTATTTT-GAAT
*
4257150 TTTTTAAAAATATAATTTTTGTAA-
1 TTTTT-ATAAT-T-A-TTTTG-AAT
*
4257174 TTTTTATAAATATTTTGAAT
1 TTTTTATAATTATTTTGAAT
* *
4257194 TTTTAAAAATTATTTTGAAT
1 TTTTTATAATTATTTTGAAT
*
4257214 TTTTTGTAATT
1 TTTTTATAATT
4257225 TTTGTTGAGA
Statistics
Matches: 75, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
18 2 0.03
19 5 0.07
20 32 0.43
21 4 0.05
22 10 0.13
23 11 0.15
24 5 0.07
25 6 0.08
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTTTATAATTATTTTGAAT
Found at i:4257742 original size:27 final size:27
Alignment explanation
Indices: 4257712--4257764 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
4257702 AAACAAAGTT
4257712 ATTGCCTTAATTAAAATAAGTTGGTTC
1 ATTGCCTTAATTAAAATAAGTTGGTTC
4257739 ATTGCCTTAATTAAAATAAGTTGGTT
1 ATTGCCTTAATTAAAATAAGTTGGTT
4257765 AACTTACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (27 bp):
ATTGCCTTAATTAAAATAAGTTGGTTC
Found at i:4258170 original size:25 final size:24
Alignment explanation
Indices: 4258107--4258175 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 24
4258097 ACACAATATC
* *
4258107 AATTTCATAATTTA-TAATTATAAA
1 AATTTCAT-ATTTATTAATAAAAAA
* *
4258131 AATTGCATTAGTTATTAATAAAAATA
1 AATTTCA-TATTTATTAATAAAAA-A
*
4258157 AATTTCATATTTATAAATA
1 AATTTCATATTTATTAATA
4258176 TTAATCTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
24 10 0.29
25 18 0.51
26 7 0.20
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.43
Consensus pattern (24 bp):
AATTTCATATTTATTAATAAAAAA
Found at i:4259547 original size:42 final size:42
Alignment explanation
Indices: 4259500--4259583 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
4259490 GTCTCTAGCT
4259500 AACCGATTGGTGTTGAAACAACATTTATACACATTCTGCATG
1 AACCGATTGGTGTTGAAACAACATTTATACACATTCTGCATG
* *
4259542 AACCGATTGGTGTTGAAACAACATTTATACATATTTTGCATG
1 AACCGATTGGTGTTGAAACAACATTTATACACATTCTGCATG
4259584 GACGAAAGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (42 bp):
AACCGATTGGTGTTGAAACAACATTTATACACATTCTGCATG
Found at i:4261477 original size:22 final size:22
Alignment explanation
Indices: 4261438--4261479 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4261428 ATAGTAATAT
*
4261438 AATAGCAAAATGATAGCAAAAC
1 AATAGCAAAATGACAGCAAAAC
* *
4261460 AATATCAAAATGGCAGCAAA
1 AATAGCAAAATGACAGCAAA
4261480 CAGCAGCTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (22 bp):
AATAGCAAAATGACAGCAAAAC
Found at i:4263693 original size:20 final size:19
Alignment explanation
Indices: 4263654--4263694 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
4263644 AAATTTTATT
*
4263654 AAAATATATAAAATTCTTA
1 AAAATATATAAAAATCTTA
*
4263673 AAAATTATATAAAAATGTTA
1 AAAA-TATATAAAAATCTTA
4263693 AA
1 AA
4263695 TTATTAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAATATATAAAAATCTTA
Found at i:4263696 original size:28 final size:26
Alignment explanation
Indices: 4263664--4263718 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
4263654 AAAATATATA
*
4263664 AAATTCTTAAAAATTATATAAAAATGTT
1 AAATTATTAAAAATT-TATAAAAA-GTT
**
4263692 AAATTATTAATTATTTATAAAAAGTT
1 AAATTATTAAAAATTTATAAAAAGTT
4263718 A
1 A
4263719 CAAAAGGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 4 0.17
27 8 0.33
28 12 0.50
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (26 bp):
AAATTATTAAAAATTTATAAAAAGTT
Found at i:4272984 original size:25 final size:26
Alignment explanation
Indices: 4272956--4273036 Score: 80
Period size: 25 Copynumber: 3.2 Consensus size: 26
4272946 AAACATATGT
*
4272956 GAGCTGAATAAA-GGGAAGCTCATGC
1 GAGCTGAATAAATGAGAAGCTCATGC
4272981 GAGCTG--TAAATCGAGAAGCTCATGC
1 GAGCTGAATAAAT-GAGAAGCTCATGC
* ** *
4273006 GAGCTTAA-AAATCTGAAGCTCATAC
1 GAGCTGAATAAATGAGAAGCTCATGC
4273031 GAGCTG
1 GAGCTG
4273037 TGGTGTGTCC
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
23 4 0.09
25 38 0.83
26 4 0.09
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.20
Consensus pattern (26 bp):
GAGCTGAATAAATGAGAAGCTCATGC
Found at i:4285446 original size:24 final size:24
Alignment explanation
Indices: 4285418--4285470 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
4285408 TTAGTAGGTC
*
4285418 AAATAAACTATGCTAATAAATACT
1 AAATAAACTATACTAATAAATACT
* *
4285442 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
4285466 AAATA
1 AAATA
4285471 TTCTACAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:4287014 original size:16 final size:16
Alignment explanation
Indices: 4286970--4287002 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4286960 ATAATTTTAA
*
4286970 AAAAAAGTTTAAAAAT
1 AAAAAATTTTAAAAAT
4286986 AAAAAATTTTAAAAAT
1 AAAAAATTTTAAAAAT
4287002 A
1 A
4287003 TATAAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (16 bp):
AAAAAATTTTAAAAAT
Found at i:4287031 original size:22 final size:23
Alignment explanation
Indices: 4286989--4287031 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
4286979 TAAAAATAAA
*
4286989 AAATTTTAAAAATATATAAATTT
1 AAATTTTAAAAATATAAAAATTT
4287012 AAATTTTAAAAA-ATAAAAAT
1 AAATTTTAAAAATATAAAAAT
4287032 AATATACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATTTTAAAAATATAAAAATTT
Found at i:4289782 original size:97 final size:98
Alignment explanation
Indices: 4289605--4289799 Score: 383
Period size: 97 Copynumber: 2.0 Consensus size: 98
4289595 TTTTTTAAAA
4289605 ATAATATAGACAAACTTAATATAAACTTGGATTAGCTATTTATATATATGAGTGGGCTTGAATAG
1 ATAATATAGACAAACTTAATATAAACTTGGATTAGCTATTTATATATATGAGTGGGCTTGAATAG
4289670 AATATTAAGTCTATATTATAGACTAAACTTGGG
66 AATATTAAGTCTATATTATAGACTAAACTTGGG
4289703 ATAATATAGA-AAACTTAATATAAACTTGGATTAGCTATTTATATATATGAGTGGGCTTGAATAG
1 ATAATATAGACAAACTTAATATAAACTTGGATTAGCTATTTATATATATGAGTGGGCTTGAATAG
4289767 AATATTAAGTCTATATTATAGACTAAACTTGGG
66 AATATTAAGTCTATATTATAGACTAAACTTGGG
4289800 TAAACATAAA
Statistics
Matches: 97, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
97 87 0.90
98 10 0.10
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (98 bp):
ATAATATAGACAAACTTAATATAAACTTGGATTAGCTATTTATATATATGAGTGGGCTTGAATAG
AATATTAAGTCTATATTATAGACTAAACTTGGG
Found at i:4291634 original size:27 final size:27
Alignment explanation
Indices: 4291577--4291635 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
4291567 AAAGTGTATG
*
4291577 AAAATAATTATTAAATTTAAATATACT
1 AAAATAAGTATTAAATTTAAATATACT
* **
4291604 -AAATAAGTATTAAATTTTAATATTTT
1 AAAATAAGTATTAAATTTAAATATACT
4291630 AAAATA
1 AAAATA
4291636 TAATTATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 22 0.81
27 5 0.19
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (27 bp):
AAAATAAGTATTAAATTTAAATATACT
Found at i:4292479 original size:19 final size:19
Alignment explanation
Indices: 4292435--4292479 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
4292425 TATAAATGAA
* *
4292435 TAATATTTTCTATAATTTT
1 TAATATTTTCTATAAATTG
4292454 TAA-ATTTTCTATAAATTG
1 TAATATTTTCTATAAATTG
4292472 TAATATTT
1 TAATATTT
4292480 AAATTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (19 bp):
TAATATTTTCTATAAATTG
Found at i:4294636 original size:3 final size:3
Alignment explanation
Indices: 4294630--4294680 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
4294620 TAAAAAAAAC
* * * *
4294630 TAA TAA TAA TAA TGA TAA TAA TAA TAA TAT TAA TAA TAA CAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4294678 TAA
1 TAA
4294681 AAAAAATCTG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4294650 original size:15 final size:15
Alignment explanation
Indices: 4294630--4294680 Score: 77
Period size: 15 Copynumber: 3.4 Consensus size: 15
4294620 TAAAAAAAAC
4294630 TAATAATAATAATGA
1 TAATAATAATAATGA
4294645 TAATAATAATAAT-A
1 TAATAATAATAATGA
*
4294659 TTAATAATAACAATGA
1 -TAATAATAATAATGA
4294675 TAATAA
1 TAATAA
4294681 AAAAAATCTG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
14 1 0.03
15 31 0.94
16 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (15 bp):
TAATAATAATAATGA
Found at i:4295316 original size:9 final size:9
Alignment explanation
Indices: 4295302--4295332 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
4295292 GTTAAACGAA
4295302 TCGAGTTAT
1 TCGAGTTAT
*
4295311 TCGAGTTAA
1 TCGAGTTAT
4295320 TCGAGTTAT
1 TCGAGTTAT
4295329 TCGA
1 TCGA
4295333 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:4295403 original size:9 final size:9
Alignment explanation
Indices: 4295386--4295422 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
4295376 TGAGTTTTCG
4295386 AATTCGAAT
1 AATTCGAAT
*
4295395 AACTCGAAT
1 AATTCGAAT
4295404 AATTCGAAT
1 AATTCGAAT
4295413 AATTCGAAT
1 AATTCGAAT
4295422 A
1 A
4295423 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:4297481 original size:132 final size:132
Alignment explanation
Indices: 4297364--4297888 Score: 737
Period size: 132 Copynumber: 4.0 Consensus size: 132
4297354 TATTTTTAAC
* * * * * * * * *
4297364 CTACTTCACTGCTGCTCAGAGAGACATGATTTACAATCTTCAACCTACTCCACTACTGCTTAGGG
1 CTACTCCACTACTGCTTAGGGAGACAGGATCTACAATATTCAACCTACTCCACTGCTGCTCAGGG
* *
4297429 AGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTAT-CTTGGGAAGATAAGATTCGCCGTCTTC
66 AGATAGGACTGGTGGCTTAAATCTGCTTCCCTACT-TCCTTGGGAAGATAAGATTCACCGTCTTC
4297493 GAT
130 GAT
* * * * * *
4297496 CTGCTCCACTATTGCTTAGGGAGACAGGATCTACAATCTTCAACCTATTCCACTGCTACTCAAGG
1 CTACTCCACTACTGCTTAGGGAGACAGGATCTACAATATTCAACCTACTCCACTGCTGCTCAGGG
* **
4297561 AGATAGGACTGATGGCTTAAATCTGCTTCCCTACTTCCTTGGGAAGATAAGAGCCACCGTCTTCG
66 AGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTTCCTTGGGAAGATAAGATTCACCGTCTTCG
4297626 AT
131 AT
* *
4297628 CTACTCCACTATTGCTTAGGGAGACAGGATCTACAATATTCAACCTACTCCACTGTTGCTCAGGG
1 CTACTCCACTACTGCTTAGGGAGACAGGATCTACAATATTCAACCTACTCCACTGCTGCTCAGGG
* * * * *
4297693 AGATAGAACTGGTGGCTTAAATTTGATTTCCTACTTCTTTGGGAAGATAAGATTCACCGTCTTCG
66 AGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTTCCTTGGGAAGATAAGATTCACCGTCTTCG
4297758 AT
131 AT
* * *
4297760 CTGCTCCACTACTGCTTAGGGATACAGGATCTACAATATTCAACCTACTCCACTGCTGCTTAGGG
1 CTACTCCACTACTGCTTAGGGAGACAGGATCTACAATATTCAACCTACTCCACTGCTGCTCAGGG
* * *
4297825 AGATAGGACTGGTGGCTTAAATTTGCTTCCTTACTTCCTTGGGAAGATAAGATTCACAGTCTTC
66 AGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTTCCTTGGGAAGATAAGATTCACCGTCTTC
4297889 TTTAATACAC
Statistics
Matches: 349, Mismatches: 43, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
131 1 0.00
132 348 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (132 bp):
CTACTCCACTACTGCTTAGGGAGACAGGATCTACAATATTCAACCTACTCCACTGCTGCTCAGGG
AGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTTCCTTGGGAAGATAAGATTCACCGTCTTCG
AT
Found at i:4298526 original size:12 final size:12
Alignment explanation
Indices: 4298509--4298533 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4298499 TGACAACAAA
4298509 ATCTGAAGGGAT
1 ATCTGAAGGGAT
4298521 ATCTGAAGGGAT
1 ATCTGAAGGGAT
4298533 A
1 A
4298534 GTCTCAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.32, T:0.24
Consensus pattern (12 bp):
ATCTGAAGGGAT
Found at i:4306910 original size:69 final size:69
Alignment explanation
Indices: 4306834--4306982 Score: 253
Period size: 69 Copynumber: 2.2 Consensus size: 69
4306824 GTCTAAAATC
*
4306834 GCTCTTAGCTCCATTACAGAATTATGATTTCGATACCGATAAAAAGTTTTCTCAAGTTCAGCCAC
1 GCTCTTAGCTCCATTACAGAATTACGATTTCGATACCGATAAAAAGTTTTCTCAAGTTCAGCCAC
4306899 TCTA
66 TCTA
* *
4306903 GCTCTTAGCTTCATTACAGATTTACGATTTCGATACCGATAAAAAGTTTTCTCAAGTTCAGCCAC
1 GCTCTTAGCTCCATTACAGAATTACGATTTCGATACCGATAAAAAGTTTTCTCAAGTTCAGCCAC
4306968 TCTA
66 TCTA
* *
4306972 ACTTTTAGCTC
1 GCTCTTAGCTC
4306983 ACCCTTTTCA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
69 74 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (69 bp):
GCTCTTAGCTCCATTACAGAATTACGATTTCGATACCGATAAAAAGTTTTCTCAAGTTCAGCCAC
TCTA
Found at i:4310452 original size:3 final size:3
Alignment explanation
Indices: 4310446--4310493 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
4310436 AAAAAAAAAG
* * * *
4310446 TAA TAA TAA TAA TGA TAA TAA TAT TAA TAA TAA CAA TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4310494 AAATTCCGAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4318847 original size:45 final size:46
Alignment explanation
Indices: 4318760--4318849 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 46
4318750 AGAATGAATA
*
4318760 GAAATAGAGAAATGGAAAACATTCAGAAATGATTATGGTTTTCTCC
1 GAAATAGAGAAATGGAAAACATTCAGAAATGATTATGATTTTCTCC
* * * *
4318806 GAAATGGAGAAATTGAATA-ATTTAGAAATGAATT-TGATTTTCTC
1 GAAATAGAGAAATGGAAAACATTCAGAAATG-ATTATGATTTTCTC
4318850 AATATGGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
45 19 0.50
46 19 0.50
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (46 bp):
GAAATAGAGAAATGGAAAACATTCAGAAATGATTATGATTTTCTCC
Found at i:4318881 original size:7 final size:7
Alignment explanation
Indices: 4318856--4318888 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
4318846 TCTCAATATG
4318856 GAAATGA
1 GAAATGA
4318863 -AAATGA
1 GAAATGA
4318869 -AAATGA
1 GAAATGA
4318875 GAAATGA
1 GAAATGA
4318882 GAAATGA
1 GAAATGA
4318889 TTCATTTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.48
7 13 0.52
ACGTcount: A:0.61, C:0.00, G:0.24, T:0.15
Consensus pattern (7 bp):
GAAATGA
Found at i:4319507 original size:26 final size:26
Alignment explanation
Indices: 4319458--4319518 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
4319448 ATTTTTTAAT
* **
4319458 TTTTTTAATTTTAAAATACTTTTTTG
1 TTTTTTATTTTTAAAATAAATTTTTG
4319484 TTTTTTATTTTTAAAATAAATTTTTG
1 TTTTTTATTTTTAAAATAAATTTTTG
* *
4319510 GTGTTTATT
1 TTTTTTATT
4319519 AAAAAAATAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.66
Consensus pattern (26 bp):
TTTTTTATTTTTAAAATAAATTTTTG
Found at i:4319920 original size:52 final size:52
Alignment explanation
Indices: 4319842--4319949 Score: 216
Period size: 52 Copynumber: 2.1 Consensus size: 52
4319832 TGGCACAGGT
4319842 AGAACTATTTACACACAACTTTGAGAGATTGTTACTATGTCGAAAAATAGAG
1 AGAACTATTTACACACAACTTTGAGAGATTGTTACTATGTCGAAAAATAGAG
4319894 AGAACTATTTACACACAACTTTGAGAGATTGTTACTATGTCGAAAAATAGAG
1 AGAACTATTTACACACAACTTTGAGAGATTGTTACTATGTCGAAAAATAGAG
4319946 AGAA
1 AGAA
4319950 TTTATTCTCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.28
Consensus pattern (52 bp):
AGAACTATTTACACACAACTTTGAGAGATTGTTACTATGTCGAAAAATAGAG
Found at i:4320345 original size:13 final size:13
Alignment explanation
Indices: 4320322--4320367 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
4320312 ACCCCCAAAA
4320322 AAATT-ATTTAAT
1 AAATTAATTTAAT
4320334 AAATTAATTTAAT
1 AAATTAATTTAAT
* *
4320347 TAATTAAATTAATT
1 AAATTAATTTAA-T
4320361 AAATTAA
1 AAATTAA
4320368 CTAAATTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 5 0.17
13 17 0.59
14 7 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTAATTTAAT
Found at i:4320349 original size:9 final size:9
Alignment explanation
Indices: 4320329--4320378 Score: 75
Period size: 9 Copynumber: 5.7 Consensus size: 9
4320319 AAAAAATTAT
4320329 TTAA-TAAA
1 TTAATTAAA
*
4320337 TTAATTTAA
1 TTAATTAAA
4320346 TTAATTAAA
1 TTAATTAAA
4320355 TTAATTAAA
1 TTAATTAAA
*
4320364 TTAACTAAA
1 TTAATTAAA
4320373 TTAATT
1 TTAATT
4320379 TATCAACTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
8 4 0.11
9 33 0.89
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (9 bp):
TTAATTAAA
Found at i:4320402 original size:17 final size:17
Alignment explanation
Indices: 4320333--4320395 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 17
4320323 AATTATTTAA
* *
4320333 TAAATTAATTTAATTAAT
1 TAAATTAATTT-ATCAAC
* *
4320351 TAAATTAATTAAATTAAC
1 TAAATTAATT-TATCAAC
4320369 TAAATTAATTTATCAAC
1 TAAATTAATTTATCAAC
4320386 TAAA-TAATTT
1 TAAATTAATTT
4320396 TTCCAACCCA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.15
17 9 0.22
18 25 0.62
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAATTAATTTATCAAC
Found at i:4327198 original size:11 final size:11
Alignment explanation
Indices: 4327182--4327224 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
4327172 GTAATTAGAA
4327182 AAAATAATATT
1 AAAATAATATT
4327193 AAAATAATA-T
1 AAAATAATATT
*
4327203 ATAATAATATT
1 AAAATAATATT
4327214 AAAATTAATAT
1 AAAA-TAATAT
4327225 ACAAATATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 9 0.32
11 13 0.46
12 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AAAATAATATT
Found at i:4327210 original size:10 final size:10
Alignment explanation
Indices: 4327182--4327231 Score: 55
Period size: 11 Copynumber: 4.6 Consensus size: 10
4327172 GTAATTAGAA
4327182 AAAATAATATT
1 AAAATAATA-T
4327193 AAAATAATAT
1 AAAATAATAT
*
4327203 ATAATAATATT
1 AAAATAATA-T
4327214 AAAATTAATAT
1 AAAA-TAATAT
4327225 ACAAATA
1 A-AAATA
4327232 TGGAATTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 9 0.26
11 17 0.50
12 8 0.24
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAATAATAT
Found at i:4327210 original size:21 final size:22
Alignment explanation
Indices: 4327184--4327225 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
4327174 AATTAGAAAA
4327184 AATAATATTAAAA-TAATATAT
1 AATAATATTAAAATTAATATAT
4327205 AATAATATTAAAATTAATATA
1 AATAATATTAAAATTAATATA
4327226 CAAATATGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AATAATATTAAAATTAATATAT
Found at i:4338488 original size:24 final size:24
Alignment explanation
Indices: 4338456--4338501 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
4338446 ATCGGAAAGT
*
4338456 AAAGGAAATAACACGTGGAAATTA
1 AAAGGAAATAACACGTGAAAATTA
*
4338480 AAAGGAAATAACATGTGAAAAT
1 AAAGGAAATAACACGTGAAAAT
4338502 ATATGAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.57, C:0.07, G:0.20, T:0.17
Consensus pattern (24 bp):
AAAGGAAATAACACGTGAAAATTA
Found at i:4339587 original size:107 final size:107
Alignment explanation
Indices: 4339276--4339902 Score: 755
Period size: 109 Copynumber: 5.8 Consensus size: 107
4339266 AAAATTCAAG
* * * *
4339276 AGGATATTTAA-CAATTTGGTTAAACGAGAAATCGGA-ACCCAACACCTAAGGGCACGTTCCTCG
1 AGGATA-TTAAGCCATTTGGTTGAACGAGAAATC-GACACCCAGCACCTTAGGGCACGTTCCTCG
*
4339339 AATTTCCAAACGCAAAACATTGCCTCATTTT-ATAATTTTTG-AA
64 AATTTCCAAACGCAAAACATTGCCTTATTTTGA-AATTTTTGAAA
* * * * *
4339382 AGGATATTTAGCTATTTGGTTGAACGAAAAAAATCGACACCCAGCACCTTAGGGCATGTTATCTC
1 AGGATATTAAGCCATTTGGTTGAACG--AGAAATCGACACCCAGCACCTTAGGGCACGTT-CCTC
* * *
4339447 GAATCTCCAAACGCAAAACATTGCCATATTTTGAGATTTTTGAAA
63 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAAA
* *
4339492 AGGATATTAAGCCATTTGGTTTAACGAGAAATCG-CAACCCAGCACCTTAGGGCACGTTCCTCAA
1 AGGATATTAAGCCATTTGGTTGAACGAGAAATCGAC-ACCCAGCACCTTAGGGCACGTTCCTCGA
* *
4339556 ATTTCCAAACGCAGAACATTACCTTATTTTGAAATTTTTGAAA
65 ATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAAA
* * * * * *
4339599 AAGATATTAAGCCGTTTGGTTGAACGAGAAAGATCGACACCTAGCACCTTAGGGCATGTTTTCTT
1 AGGATATTAAGCCATTTGGTTGAACGAG-AA-ATCGACACCCAGCACCTTAGGGCACG-TTCCTC
* * *
4339664 GAATTTCCAAACGCAAAACATTGCCATATATTGAGATTTTT-AAA
63 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAAA
* *
4339708 AGGATATTAAGCCTTTTGGTTGAACGAGAAATCGTA-ACCCAGCACCTTAGGGCACGTTCCTCAA
1 AGGATATTAAGCCATTTGGTTGAACGAGAAATCG-ACACCCAGCACCTTAGGGCACGTTCCTCGA
* *
4339772 ATTTCCAAACGCAGAACATTACCTTATTTTGAAATTTTTGAAA
65 ATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAAA
* * * * *
4339815 AAGATATTAAGCCGTTTGCTTGAACGAGAAAGATCGACACCCAGCACCTTAGGGCATGTTTCTCG
1 AGGATATTAAGCCATTTGGTTGAACGAG-AA-ATCGACACCCAGCACCTTAGGGCACGTTCCTCG
* *
4339880 AATTTCCAAACGCTAAATATTGC
64 AATTTCCAAACGCAAAACATTGC
4339903 ATCAATTAGA
Statistics
Matches: 445, Mismatches: 59, Indels: 31
0.83 0.11 0.06
Matches are distributed among these distances:
105 3 0.01
106 58 0.13
107 120 0.27
108 61 0.14
109 137 0.31
110 66 0.15
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (107 bp):
AGGATATTAAGCCATTTGGTTGAACGAGAAATCGACACCCAGCACCTTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAAA
Found at i:4339711 original size:216 final size:217
Alignment explanation
Indices: 4339276--4339902 Score: 967
Period size: 216 Copynumber: 2.9 Consensus size: 217
4339266 AAAATTCAAG
* * * * *
4339276 AGGATATTTAA-CAATTTGGTTAAACGAGAAATCGGAACCCAACACCTAAGGGCACGTTCCTCGA
1 AGGATA-TTAAGCCATTTGGTTAAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCAA
* * * * * **
4339340 ATTTCCAAACGCAAAACATTGCCTCATTTT-ATAATTTTTG-AAAGGATATTTAGCTATTTGGTT
65 ATTTCCAAACGCAGAACATTACCTTATTTTGA-AATTTTTGAAAAAGATATTAAGCCGTTTGGTT
* * * *
4339403 GAACGAAAAAAATCGACACCCAGCACCTTAGGGCATGTTATCTCGAATCTCCAAACGCAAAACAT
129 GAACGAGAAAGATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACAT
*
4339468 TGCCATATTTTGAGATTTTTGAAA
194 TGCCATATATTGAGATTTTTGAAA
*
4339492 AGGATATTAAGCCATTTGGTTTAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCAAA
1 AGGATATTAAGCCATTTGGTTAAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCAAA
4339557 TTTCCAAACGCAGAACATTACCTTATTTTGAAATTTTTGAAAAAGATATTAAGCCGTTTGGTTGA
66 TTTCCAAACGCAGAACATTACCTTATTTTGAAATTTTTGAAAAAGATATTAAGCCGTTTGGTTGA
* *
4339622 ACGAGAAAGATCGACACCTAGCACCTTAGGGCATGTTTTCTTGAATTTCCAAACGCAAAACATTG
131 ACGAGAAAGATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTG
4339687 CCATATATTGAGATTTTT-AAA
196 CCATATATTGAGATTTTTGAAA
* * *
4339708 AGGATATTAAGCCTTTTGGTTGAACGAGAAATCGTAACCCAGCACCTTAGGGCACGTTCCTCAAA
1 AGGATATTAAGCCATTTGGTTAAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCAAA
*
4339773 TTTCCAAACGCAGAACATTACCTTATTTTGAAATTTTTGAAAAAGATATTAAGCCGTTTGCTTGA
66 TTTCCAAACGCAGAACATTACCTTATTTTGAAATTTTTGAAAAAGATATTAAGCCGTTTGGTTGA
* *
4339838 ACGAGAAAGATCGACACCCAGCACCTTAGGGCATG-TTTCTCGAATTTCCAAACGCTAAATATTG
131 ACGAGAAAGATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTG
4339902 C
196 C
4339903 ATCAATTAGA
Statistics
Matches: 380, Mismatches: 28, Indels: 7
0.92 0.07 0.02
Matches are distributed among these distances:
215 31 0.08
216 251 0.66
217 98 0.26
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (217 bp):
AGGATATTAAGCCATTTGGTTAAACGAGAAATCGCAACCCAGCACCTTAGGGCACGTTCCTCAAA
TTTCCAAACGCAGAACATTACCTTATTTTGAAATTTTTGAAAAAGATATTAAGCCGTTTGGTTGA
ACGAGAAAGATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTG
CCATATATTGAGATTTTTGAAA
Found at i:4359631 original size:21 final size:21
Alignment explanation
Indices: 4359605--4359670 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
4359595 CAACAACTTA
* *
4359605 AAGCAGAGG-TGATAGCGAGGG
1 AAGCAGAGGCT-ACAGCGAGAG
4359626 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCTACAGCGAGAG
**
4359647 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCTACAGCGAGAG
4359668 AAG
1 AAG
4359671 TAGCGATAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 39 0.98
22 1 0.03
ACGTcount: A:0.36, C:0.17, G:0.42, T:0.05
Consensus pattern (21 bp):
AAGCAGAGGCTACAGCGAGAG
Found at i:4360173 original size:43 final size:43
Alignment explanation
Indices: 4360121--4360277 Score: 219
Period size: 43 Copynumber: 3.7 Consensus size: 43
4360111 GTTTGTGACC
* *
4360121 AAGCGCCGCTATAGAACATTA-CTTTTAGCGGCGTTT-TCTTCCT
1 AAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTAT-TTCCT
*
4360164 AAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTATTTCCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCT
* * *
4360207 TAGTGCCGCTAAAGAACATGATCTTTAGCGGAGTTTATTTCCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCT
*
4360250 TAGCGCCGCTAAAGAACATGATCTTTAG
1 AAGCGCCGCTAAAGAACATGATCTTTAG
4360278 TGGCATTTTT
Statistics
Matches: 104, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
43 102 0.98
44 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (43 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCT
Found at i:4364764 original size:16 final size:16
Alignment explanation
Indices: 4364743--4364780 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4364733 TGGTTAAAAT
4364743 AATAAT-ATAAGAACAA
1 AATAATAATAA-AACAA
*
4364759 AATAATAATAAAATAA
1 AATAATAATAAAACAA
4364775 AATAAT
1 AATAAT
4364781 TACATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
AATAATAATAAAACAA
Found at i:4364792 original size:19 final size:18
Alignment explanation
Indices: 4364737--4364794 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
4364727 GCAAAATGGT
4364737 TAAAATAA-TAATATAAGAA
1 TAAAATAATTAATA-AA-AA
*
4364756 CAAAATAA-TAAT-AAAA
1 TAAAATAATTAATAAAAA
4364772 TAAAATAATTACATAAAAA
1 TAAAATAATTA-ATAAAAA
4364791 TAAA
1 TAAA
4364795 TAAAACATAG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 9 0.26
17 4 0.12
18 2 0.06
19 19 0.56
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (18 bp):
TAAAATAATTAATAAAAA
Found at i:4371052 original size:22 final size:20
Alignment explanation
Indices: 4371009--4371047 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4370999 TAATTTAAAA
4371009 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
4371029 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
4371048 ATGTAAAAAC
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:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:4371184 original size:20 final size:20
Alignment explanation
Indices: 4371146--4371185 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4371136 AATATTTTCC
* *
4371146 AGTAAATCATTTTATAGAAA
1 AGTAAAACATTTTACAGAAA
*
4371166 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
4371186 TCATTTTATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:4371191 original size:34 final size:35
Alignment explanation
Indices: 4371134--4371200 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
4371124 CAAACACCAG
*
4371134 AAAATATTTTCCAGTAAATCATTTTATAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTATAGAAAAGT
*
4371169 AAAACATTTTCCAG-AAATCATTTTATGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTATAGAAAA
4371201 TATTTTATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTATAGAAAAGT
Found at i:4371282 original size:16 final size:16
Alignment explanation
Indices: 4371246--4371283 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
4371236 GATTACAACT
*
4371246 CTATTCCATTACAGTT
1 CTATTCCATTACAGTC
*
4371262 TTATTCCATTACAGTC
1 CTATTCCATTACAGTC
4371278 CTATTC
1 CTATTC
4371284 TATTGCAACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.24, C:0.26, G:0.05, T:0.45
Consensus pattern (16 bp):
CTATTCCATTACAGTC
Found at i:4380474 original size:31 final size:31
Alignment explanation
Indices: 4380439--4380499 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
4380429 AACAGCCCAG
4380439 TGACTTAAATAAAAACTCTT-GAATAGTTCAA
1 TGACTTAAATAAAAACT-TTCGAATAGTTCAA
*
4380470 TGACTTAAATGAAAACTTTCGAATAGTTCA
1 TGACTTAAATAAAAACTTTCGAATAGTTCA
4380500 TGGGCCAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 2 0.07
31 26 0.93
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCGAATAGTTCAA
Found at i:4391160 original size:3 final size:3
Alignment explanation
Indices: 4391154--4391188 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4391144 ATTTTTTTGT
4391154 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4391189 NNNNNNNNNN
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4391442 original size:12 final size:12
Alignment explanation
Indices: 4391421--4391454 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4391411 TATATATTTT
*
4391421 AAAATTATATAA
1 AAAATAATATAA
4391433 AAAATAATATAA
1 AAAATAATATAA
*
4391445 AAATTAATAT
1 AAAATAATAT
4391455 GGCTGAGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:4400207 original size:24 final size:25
Alignment explanation
Indices: 4400153--4400208 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 25
4400143 TTTATGAACT
4400153 TTTTTTATAATTTTTGATAATTTATA
1 TTTTTTAT-ATTTTTGATAATTTATA
* *
4400179 ATTTTTAT-TTTTTGATTATTCT-TA
1 TTTTTTATATTTTTGATAATT-TATA
4400203 TTTTTT
1 TTTTTT
4400209 TTAAAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 18 0.69
25 1 0.04
26 7 0.27
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (25 bp):
TTTTTTATATTTTTGATAATTTATA
Found at i:4404052 original size:7 final size:7
Alignment explanation
Indices: 4404040--4404074 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
4404030 AATTTTTTTA
4404040 ATAATTT
1 ATAATTT
4404047 ATAATTT
1 ATAATTT
4404054 ATAATTT
1 ATAATTT
*
4404061 ATCATTT
1 ATAATTT
4404068 ATAATTT
1 ATAATTT
4404075 TTCTATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (7 bp):
ATAATTT
Found at i:4409082 original size:24 final size:24
Alignment explanation
Indices: 4409055--4409106 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
4409045 TTAGTAAGTC
*
4409055 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
4409079 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
4409103 AAAT
1 AAAT
4409107 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:4410862 original size:24 final size:24
Alignment explanation
Indices: 4410835--4410886 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
4410825 TTAGTAAGTC
*
4410835 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
4410859 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
4410883 AAAT
1 AAAT
4410887 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:4417908 original size:19 final size:20
Alignment explanation
Indices: 4417881--4417921 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
4417871 TGGTTGTATA
*
4417881 TATTAATTAAAATA-TATTT
1 TATTAATTAAAAAATTATTT
*
4417900 TATTTATTAAAAAATTATTT
1 TATTAATTAAAAAATTATTT
4417920 TA
1 TA
4417922 AATTTTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TATTAATTAAAAAATTATTT
Found at i:4423573 original size:99 final size:97
Alignment explanation
Indices: 4423461--4423773 Score: 337
Period size: 99 Copynumber: 3.1 Consensus size: 97
4423451 ATTTATTTTT
* * *
4423461 TTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAGTAATAAAAAAATTTTTGGTGCTGGCCTT
1 TTTCGTGTCAGAATTAGATATCAGTATACGAAAAAAGTAATAAAAAAA-ATTTGGTGCTGGCCTA
4423526 TCAATGGCCGGCACCTAGTACAATTTTAAAAAAA
65 TCAATGGCCGGCACC-AGTACAATTTTAAAAAAA
* *
4423560 TTTCGTGTCAGAATTAGATATCAGTATACGAAAAAAGTAAAAAAAAAAAATTTGAGTGCAGGCCT
1 TTTCGTGTCAGAATTAGATATCAGTATACGAAAAAAGT-AATAAAAAAAATTTG-GTGCTGGCCT
*
4423625 ATCAATGGCCGGCATCCAATACAA-TTTAAAAAAA
64 ATCAATGGCCGGCA-CCAGTACAATTTTAAAAAAA
* *
4423659 TTCTTTTTTTTCGTGTCAAAATTAGATATCAGAATACG-AAAAA--AATAAAAAAAATTTGGTGC
1 --------TTTCGTGTCAGAATTAGATATCAGTATACGAAAAAAGTAATAAAAAAAATTTGGTGC
* * * * *
4423721 TGGCCTGTCAATAGTCGACACCCAGTACAATTTAAAAAAAAAA
58 TGGCCTATCAATGGCCGGCA-CCAGTACAATTT--TAAAAAAA
4423764 TTTCGTGTCA
1 TTTCGTGTCA
4423774 AAGATGGATG
Statistics
Matches: 183, Mismatches: 17, Indels: 30
0.80 0.07 0.13
Matches are distributed among these distances:
97 10 0.05
99 51 0.28
100 37 0.20
101 2 0.01
102 27 0.15
103 16 0.09
105 7 0.04
106 5 0.03
107 28 0.15
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (97 bp):
TTTCGTGTCAGAATTAGATATCAGTATACGAAAAAAGTAATAAAAAAAATTTGGTGCTGGCCTAT
CAATGGCCGGCACCAGTACAATTTTAAAAAAA
Found at i:4423763 original size:107 final size:105
Alignment explanation
Indices: 4423560--4423760 Score: 273
Period size: 102 Copynumber: 1.9 Consensus size: 105
4423550 TTTAAAAAAA
* *
4423560 TTTCGTGTCAGAATTAGATATCAGTATACGAAAAAAGTAAAAAAAAAAAATTTGAGTGCAGGCCT
1 TTTCGTGTCAAAATTAGATATCAGAATACG-AAAAAG-AAAAAAAAAAAATTTGAGTGCAGGCCT
* * *
4423625 ATCAATGGCCGGCATCCAATACAATTTAAAAAAATTCTTTTT
64 ATCAATAGCCGACACCCAATACAATTTAAAAAAATTCTTTTT
* * *
4423667 TTTCGTGTCAAAATTAGATATCAGAATACG-AAAA-AAATAAAAAAAATTTG-GTGCTGGCCTGT
1 TTTCGTGTCAAAATTAGATATCAGAATACGAAAAAGAAAAAAAAAAAATTTGAGTGCAGGCCTAT
* *
4423729 CAATAGTCGACACCCAGTACAATTTAAAAAAA
66 CAATAGCCGACACCCAATACAATTTAAAAAAA
4423761 AAATTTCGTG
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
102 37 0.44
103 15 0.18
105 4 0.05
107 28 0.33
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.27
Consensus pattern (105 bp):
TTTCGTGTCAAAATTAGATATCAGAATACGAAAAAGAAAAAAAAAAAATTTGAGTGCAGGCCTAT
CAATAGCCGACACCCAATACAATTTAAAAAAATTCTTTTT
Done.