Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold73
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: 1308442
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.31
Warning! 157727 characters in sequence are not A, C, G, or T
File 4 of 9
Found at i:458327 original size:26 final size:26
Alignment explanation
Indices: 458293--458351 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
458283 GAAAACATTT
458293 TTTAT-TTTTAT-TTTTAAAAATAATA
1 TTTATATTTTATATTTTAAAAAT-ATA
*
458318 TTTATATTTTTTATTTTAAAAATATA
1 TTTATATTTTATATTTTAAAAATATA
458344 TTTA-ATTT
1 TTTATATTT
458352 AGGAAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 9 0.29
26 12 0.39
27 10 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTATATTTTATATTTTAAAAATATA
Found at i:458334 original size:27 final size:26
Alignment explanation
Indices: 458297--458351 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 26
458287 ACATTTTTTA
458297 TTTTTATTTTTAAAAATAATATTTATAT
1 TTTTTATTTTTAAAAAT-ATATTTA-AT
458325 TTTTTA-TTTTAAAAATATATTTAAT
1 TTTTTATTTTTAAAAATATATTTAAT
458350 TT
1 TT
458352 AGGAAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 4 0.15
26 7 0.26
27 10 0.37
28 6 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (26 bp):
TTTTTATTTTTAAAAATATATTTAAT
Found at i:459220 original size:25 final size:23
Alignment explanation
Indices: 459191--459255 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 23
459181 TGTAATTATA
459191 ATATAATAATTATATTTAAAATAT
1 ATATAATAATTATATTT-AAATAT
* * *
459215 ATTATAATTATATAAATTTTAATAT
1 A-TATAATAAT-TATATTTAAATAT
459240 AT-TAATAATTTATATT
1 ATATAATAA-TTATATT
459256 ATATAAATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
23 10 0.30
24 3 0.09
25 14 0.42
26 6 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
ATATAATAATTATATTTAAATAT
Found at i:459321 original size:24 final size:23
Alignment explanation
Indices: 459222--459336 Score: 66
Period size: 23 Copynumber: 5.2 Consensus size: 23
459212 TATATTATAA
*
459222 TTAT-ATAA-ATTTTA-ATATAT
1 TTATAATAATATTTTATATATTT
* * * *
459242 TAATAAT-TTATATTATATAAATT
1 TTATAATAATATTTTATAT-ATTT
*
459265 TTA-AAAAATATATTTATATATTT
1 TTATAATAATAT-TTTATATATTT
*
459288 TT-TAAT--TATTTTATTTATTTT
1 TTATAATAATATTTTATATA-TTT
* *
459309 TTATAATAATATTTTAAATATTA
1 TTATAATAATATTTTATATATTT
459332 TTATA
1 TTATA
459337 TTTAAAAAAT
Statistics
Matches: 69, Mismatches: 15, Indels: 19
0.67 0.15 0.18
Matches are distributed among these distances:
20 10 0.14
21 15 0.22
22 8 0.12
23 21 0.30
24 15 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTATAATAATATTTTATATATTT
Found at i:459629 original size:32 final size:32
Alignment explanation
Indices: 459583--459657 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
459573 GTATTATATC
* *
459583 ATAATTT-TATTTATATAAATTTTAATATATTA
1 ATAATTTATA-TTATATAAAATTTAAAATATTA
*
459615 ATAATTTATATTATATAAAATTTAAAATATTT
1 ATAATTTATATTATATAAAATTTAAAATATTA
459647 AT-ATTTATATT
1 ATAATTTATATT
459658 TTTATATTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
31 9 0.23
32 28 0.72
33 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (32 bp):
ATAATTTATATTATATAAAATTTAAAATATTA
Found at i:459638 original size:16 final size:15
Alignment explanation
Indices: 459574--459637 Score: 58
Period size: 16 Copynumber: 4.0 Consensus size: 15
459564 GTTTCGCGTG
*
459574 TATTATATCATAATTT
1 TATTATAT-AAAATTT
459590 TATT-TATATAAATTT
1 TATTATATA-AAATTT
*
459605 TAATATATTAATAATTT
1 TATTATA-TAA-AATTT
459622 ATATTATATAAAATTT
1 -TATTATATAAAATTT
459638 AAAATATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 1 0.03
15 11 0.28
16 12 0.30
17 10 0.25
18 6 0.15
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTATATAAAATTT
Found at i:459707 original size:27 final size:27
Alignment explanation
Indices: 459655--459708 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
459645 TTATATTTAT
* * *
459655 ATTTTTATATTATATTATAATTTTAAC
1 ATTTTTATAATATAATATAATCTTAAC
459682 ATTTTTATAATATAATA-ACATCTTAAC
1 ATTTTTATAATATAATATA-ATCTTAAC
459709 CTAATGAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (27 bp):
ATTTTTATAATATAATATAATCTTAAC
Found at i:459912 original size:16 final size:16
Alignment explanation
Indices: 459891--459922 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
459881 AAAATTAAAA
459891 TATAATATAAATATAT
1 TATAATATAAATATAT
459907 TATAATATAAATATAT
1 TATAATATAAATATAT
459923 AAATATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TATAATATAAATATAT
Found at i:459941 original size:31 final size:32
Alignment explanation
Indices: 459877--459987 Score: 100
Period size: 32 Copynumber: 3.4 Consensus size: 32
459867 TAAAAATAAT
* ** *
459877 ATAAAAAATTAAAATATAATATAAATATATTATA
1 ATAAAAAATAAAAATATTTTA-AAATTTA-TATA
* *
459911 ATATAAATATATAAATATTTTAAAATTTATATA
1 ATA-AAAAATAAAAATATTTTAAAATTTATATA
*
459944 ATAAAAAATAAAAATATTTT-AAATATA-ATA
1 ATAAAAAATAAAAATATTTTAAAATTTATATA
*
459974 ATAATATAATAAAA
1 ATAA-AAAATAAAA
459988 TAATCATGAG
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
30 7 0.11
31 14 0.22
32 15 0.23
33 7 0.11
34 9 0.14
35 13 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (32 bp):
ATAAAAAATAAAAATATTTTAAAATTTATATA
Found at i:459978 original size:33 final size:32
Alignment explanation
Indices: 459872--459979 Score: 103
Period size: 33 Copynumber: 3.3 Consensus size: 32
459862 TAATGTAAAA
* *
459872 ATAAT-ATAAAAAATTAAAATATAATATAAATAT
1 ATAATAATAAAAAA-TAAAA-ATATTTTAAATAT
* * *
459905 ATTATAATATAAATATATAAATATTTTAAA-AT
1 ATAATAATA-AAAAATAAAAATATTTTAAATAT
*
459937 TTATATAATAAAAAATAAAAATATTTTAAATAT
1 ATA-ATAATAAAAAATAAAAATATTTTAAATAT
459970 AATAATAATA
1 -ATAATAATA
459980 TAATAAAATA
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
32 21 0.35
33 26 0.43
34 9 0.15
35 4 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (32 bp):
ATAATAATAAAAAATAAAAATATTTTAAATAT
Found at i:459989 original size:16 final size:16
Alignment explanation
Indices: 459871--459991 Score: 54
Period size: 16 Copynumber: 7.2 Consensus size: 16
459861 ATAATGTAAA
459871 AATAATATAA-AAAATT
1 AATAATATAATAAAA-T
459887 AA-AATATAATATAAAT
1 AATAATATAATA-AAAT
*
459903 -ATATTATAATATAAAT
1 AATAATATAATA-AAAT
**
459919 ATATAAATATTTTAAAAT
1 A-AT-AATATAATAAAAT
*
459937 --TTATATAATAAAAAAT
1 AATAATATAAT--AAAAT
* *
459953 AAAAATATTTTAAATATAAT
1 AATAATA---T-AATAAAAT
459973 AATAATATAATAAAAT
1 AATAATATAATAAAAT
459989 AAT
1 AAT
459992 CATGAGGTGA
Statistics
Matches: 79, Mismatches: 12, Indels: 28
0.66 0.10 0.24
Matches are distributed among these distances:
14 5 0.06
15 9 0.11
16 32 0.41
17 4 0.05
18 9 0.11
19 6 0.08
20 10 0.13
21 1 0.01
22 3 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AATAATATAATAAAAT
Found at i:460082 original size:5 final size:5
Alignment explanation
Indices: 460072--460123 Score: 59
Period size: 5 Copynumber: 9.6 Consensus size: 5
460062 TCAAATTATA
*
460072 AAAAT AAAAT AAAAT AAAAT AAAAT AAATACT AATTAT AAAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA-A-T AA-AAT -AAAAT AAAAT
460121 AAA
1 AAA
460124 TACTAGTCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
5 31 0.76
6 4 0.10
7 6 0.15
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:460100 original size:24 final size:24
Alignment explanation
Indices: 460073--460126 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
460063 CAAATTATAA
460073 AAATA-AAATAAAATAAAATAAAAT
1 AAATACAAATAAAA-AAAATAAAAT
* * *
460097 AAATACTAATTATAAAAATAAAAT
1 AAATACAAATAAAAAAAATAAAAT
460121 AAATAC
1 AAATAC
460127 TAGTCATTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (24 bp):
AAATACAAATAAAAAAAATAAAAT
Found at i:460503 original size:22 final size:21
Alignment explanation
Indices: 460459--460499 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
460449 AATATTAAAT
* *
460459 ATATTATAATTTTATAATATAA
1 ATATTAT-ATTTTAAAAAATAA
460481 ATATTATATTTTAAAAAAT
1 ATATTATATTTTAAAAAAT
460500 TAAAATTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATTATATTTTAAAAAATAA
Found at i:460676 original size:21 final size:21
Alignment explanation
Indices: 460651--460693 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
460641 TTTATATATT
460651 TTATAATAAATTTAAAAAAAA
1 TTATAATAAATTTAAAAAAAA
* * *
460672 TTATAATACATTTTAAATAAA
1 TTATAATAAATTTAAAAAAAA
460693 T
1 T
460694 ATATTTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
TTATAATAAATTTAAAAAAAA
Found at i:460953 original size:3 final size:3
Alignment explanation
Indices: 460945--460973 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
460935 TATATATTTT
460945 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
460974 TTTATTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:461072 original size:12 final size:12
Alignment explanation
Indices: 461055--461080 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
461045 TATTAATAGA
461055 AAAAATTTATTT
1 AAAAATTTATTT
461067 AAAAATTTATTT
1 AAAAATTTATTT
461079 AA
1 AA
461081 TTTTTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AAAAATTTATTT
Found at i:462778 original size:14 final size:14
Alignment explanation
Indices: 462751--462786 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
462741 TATCGAGTAT
462751 AAATATTT-TAAAA
1 AAATATTTATAAAA
*
462764 AAATTTTTATAAAA
1 AAATATTTATAAAA
462778 AAATATTTA
1 AAATATTTA
462787 ACATTATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAATATTTATAAAA
Found at i:463169 original size:17 final size:16
Alignment explanation
Indices: 463149--463188 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
463139 AATTTTGACG
463149 TAATTATAAAAAATTAA
1 TAATTATAAAAAATT-A
463166 TAA-TA-AAAAAATTA
1 TAATTATAAAAAATTA
463180 TAATTATAA
1 TAATTATAA
463189 TTATAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.19
15 10 0.48
16 4 0.19
17 3 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TAATTATAAAAAATTA
Found at i:463186 original size:6 final size:6
Alignment explanation
Indices: 463175--463232 Score: 52
Period size: 6 Copynumber: 10.3 Consensus size: 6
463165 ATAATAAAAA
* * *
463175 AATTAT AATTAT AATTAT AAATAT ATTTTT AATTAT -ATTAT -ATT-T
1 AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT
*
463220 -ATTTT AATTAT AA
1 AATTAT AATTAT AA
463233 ACATAATAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
4 4 0.09
5 9 0.21
6 30 0.70
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (6 bp):
AATTAT
Found at i:464642 original size:2 final size:2
Alignment explanation
Indices: 464635--464668 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
464625 AAACAGCTTC
464635 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
464669 TTATTTTGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:469561 original size:15 final size:15
Alignment explanation
Indices: 469541--469570 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
469531 AAGACATTTG
*
469541 GTTAGCTCTTTAGCT
1 GTTAGCTCCTTAGCT
469556 GTTAGCTCCTTAGCT
1 GTTAGCTCCTTAGCT
469571 TTTTCAATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.43
Consensus pattern (15 bp):
GTTAGCTCCTTAGCT
Found at i:470803 original size:29 final size:30
Alignment explanation
Indices: 470766--470842 Score: 111
Period size: 29 Copynumber: 2.6 Consensus size: 30
470756 ATAATTTTAC
*
470766 TTAAGTAAATTTTTATATTTTTA-TTATAT
1 TTAAATAAATTTTTATATTTTTATTTATAT
* *
470795 TTAAATAAATTTTTATTTTTTTATTTGTAT
1 TTAAATAAATTTTTATATTTTTATTTATAT
*
470825 TTAAATAAATTCTTATAT
1 TTAAATAAATTTTTATAT
470843 CAAATCAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 21 0.50
30 21 0.50
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (30 bp):
TTAAATAAATTTTTATATTTTTATTTATAT
Found at i:471019 original size:3 final size:3
Alignment explanation
Indices: 471011--471051 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
471001 CTTTAAAAGT
471011 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
471052 TTAGTGAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:471176 original size:4 final size:4
Alignment explanation
Indices: 471167--471191 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
471157 AACGTCAACC
471167 TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT T
471192 TGCATTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:471970 original size:20 final size:20
Alignment explanation
Indices: 471934--471974 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
471924 GATCAAGTTA
*
471934 ATTTAAAATTTTATATTATT
1 ATTTAAAATATTATATTATT
471954 ATTTAAAATAATT-TATTATT
1 ATTTAAAAT-ATTATATTATT
471974 A
1 A
471975 AATTTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTAAAATATTATATTATT
Found at i:472171 original size:16 final size:14
Alignment explanation
Indices: 472150--472188 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
472140 TTTTAAAAAA
472150 TAATATTTAACATCTT
1 TAATATTTAA-AT-TT
472166 TAATATTTAAATTT
1 TAATATTTAAATTT
*
472180 TAAAATTTA
1 TAATATTTA
472189 TAATCTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.45
15 2 0.09
16 10 0.45
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (14 bp):
TAATATTTAAATTT
Found at i:472281 original size:16 final size:18
Alignment explanation
Indices: 472260--472296 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
472250 AAATAAATTT
472260 TTTAAATTTT-TAATA-A
1 TTTAAATTTTATAATATA
472276 TTTAAATTTTATAATATA
1 TTTAAATTTTATAATATA
472294 TTT
1 TTT
472297 TAAAATCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
17 5 0.26
18 4 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTAAATTTTATAATATA
Found at i:472282 original size:25 final size:26
Alignment explanation
Indices: 472253--472312 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
472243 CTTTCACAAA
* *
472253 TAAATTTTTTAA-AT-TTTTAATAATT
1 TAAATTTTATAATATATTTTAA-AATC
472278 TAAATTTTATAATATATTTTAAAATC
1 TAAATTTTATAATATATTTTAAAATC
472304 TAAATTTTA
1 TAAATTTTA
472313 ATATTATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 11 0.35
26 14 0.45
27 6 0.19
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (26 bp):
TAAATTTTATAATATATTTTAAAATC
Found at i:472606 original size:10 final size:10
Alignment explanation
Indices: 472578--472611 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
472568 AACTTCTTTG
*
472578 ATATATATAT
1 ATATATATGT
472588 ATATATATGT
1 ATATATATGT
*
472598 ATATATATGG
1 ATATATATGT
472608 ATAT
1 ATAT
472612 TTGAAGAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (10 bp):
ATATATATGT
Found at i:472910 original size:19 final size:20
Alignment explanation
Indices: 472888--472929 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
472878 CATTAAAATT
*
472888 TATTTA-ATTAAATATTAAA
1 TATTTATATTAAATATAAAA
*
472907 TA-TTATATTTAATATAAAA
1 TATTTATATTAAATATAAAA
472926 TATT
1 TATT
472930 ATTATACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
18 3 0.16
19 15 0.79
20 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTTATATTAAATATAAAA
Found at i:473553 original size:46 final size:44
Alignment explanation
Indices: 473449--473555 Score: 108
Period size: 46 Copynumber: 2.4 Consensus size: 44
473439 TTTATTTATA
* * *
473449 TAATTTTTTTAATTTTTTACATTAAAAATTATAATATAATAATT
1 TAATTTTTTAAATTTTTTACATTAAAAATAATAAAATAATAATT
* * *
473493 TAATTTTTAAAAATTTTTTAATATTAAATATAATAAAATTAA-AATTT
1 TAATTTTT-TAAATTTTTT-ACATTAAAAATAATAAAA-TAATAA-TT
*
473540 TTATTTTTTAAATTTT
1 TAATTTTTTAAATTTT
473556 AAAAATATCT
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
44 8 0.16
45 8 0.16
46 23 0.45
47 12 0.24
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (44 bp):
TAATTTTTTAAATTTTTTACATTAAAAATAATAAAATAATAATT
Found at i:474883 original size:2 final size:2
Alignment explanation
Indices: 474878--474940 Score: 108
Period size: 2 Copynumber: 31.5 Consensus size: 2
474868 ATATATATAT
*
474878 AG AG AG AG AG AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
474920 AG AG AG AG AG AG AG AA AG AG A
1 AG AG AG AG AG AG AG AG AG AG A
474941 AGCTAACTGG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:476530 original size:3 final size:3
Alignment explanation
Indices: 476522--476547 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
476512 GATCGAACTG
476522 CAA CAA CAA CAA CAA CAA CAA CAA CA
1 CAA CAA CAA CAA CAA CAA CAA CAA CA
476548 GCTGTTGAAG
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:0.65, C:0.35, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:476600 original size:15 final size:15
Alignment explanation
Indices: 476580--476619 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 15
476570 ATAACCCTAA
476580 TTGCAGAAGAGATAG
1 TTGCAGAAGAGATAG
*
476595 TTGC---AGTGATAG
1 TTGCAGAAGAGATAG
476607 TTGCAGAAGAGAT
1 TTGCAGAAGAGAT
476620 GAAGCTCCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 6
0.71 0.07 0.21
Matches are distributed among these distances:
12 11 0.55
15 9 0.45
ACGTcount: A:0.35, C:0.07, G:0.33, T:0.25
Consensus pattern (15 bp):
TTGCAGAAGAGATAG
Found at i:479347 original size:2 final size:2
Alignment explanation
Indices: 479340--479370 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
479330 TTTTCTGGTA
*
479340 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
479371 AGGATTGGTG
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:481029 original size:28 final size:27
Alignment explanation
Indices: 480989--481045 Score: 62
Period size: 28 Copynumber: 2.0 Consensus size: 27
480979 TCAAATTTAC
480989 TATTTACAAATAACA-AAAATTAAAAATA
1 TATTTACAAATAA-ATAAAA-TAAAAATA
* *
481017 TATTTATAGATAAATTAAAATAAAAATA
1 TATTTACAAATAAA-TAAAATAAAAATA
481045 T
1 T
481046 TTTTTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
27 1 0.04
28 20 0.80
29 4 0.16
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (27 bp):
TATTTACAAATAAATAAAATAAAAATA
Found at i:481712 original size:26 final size:25
Alignment explanation
Indices: 481678--481734 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
481668 TATATGATAT
* *
481678 AAATTATATA-ATATATGTAAGTATAA
1 AAATAATATATAT-TATATAAGTA-AA
*
481704 AAATAATATATATTATATAATTAAA
1 AAATAATATATATTATATAAGTAAA
481729 AAATAA
1 AAATAA
481735 GTTGAGTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 8 0.30
26 17 0.63
27 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (25 bp):
AAATAATATATATTATATAAGTAAA
Found at i:486280 original size:17 final size:17
Alignment explanation
Indices: 486248--486315 Score: 79
Period size: 17 Copynumber: 4.1 Consensus size: 17
486238 ATTTATATAA
486248 ATAT-ATTAAAATATTTT
1 ATATAATTAAAA-ATTTT
486265 ATATAATTAAAAATTTT
1 ATATAATTAAAAATTTT
*
486282 A-AAAATT-AAAATATTT
1 ATATAATTAAAAAT-TTT
*
486298 ATATATTTAAAAATTTT
1 ATATAATTAAAAATTTT
486315 A
1 A
486316 AAAAAATTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
15 5 0.11
16 9 0.20
17 18 0.41
18 12 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATAATTAAAAATTTT
Found at i:486320 original size:34 final size:34
Alignment explanation
Indices: 486252--486319 Score: 120
Period size: 33 Copynumber: 2.0 Consensus size: 34
486242 ATATAAATAT
486252 ATTAAAATATTTTATATAATTAAAAATTTTAAAA
1 ATTAAAATATTTTATATAATTAAAAATTTTAAAA
*
486286 ATTAAAATA-TTTATATATTTAAAAATTTTAAAA
1 ATTAAAATATTTTATATAATTAAAAATTTTAAAA
486319 A
1 A
486320 AATTATACCA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 24 0.73
34 9 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (34 bp):
ATTAAAATATTTTATATAATTAAAAATTTTAAAA
Found at i:487822 original size:12 final size:11
Alignment explanation
Indices: 487798--487828 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
487788 AACCGAATTT
487798 AATAAAAATCA
1 AATAAAAATCA
487809 AATAAAATATCA
1 AATAAAA-ATCA
487821 AATAAAAA
1 AATAAAAA
487829 CAGTATCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.19
Consensus pattern (11 bp):
AATAAAAATCA
Found at i:489062 original size:38 final size:38
Alignment explanation
Indices: 489002--489082 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 38
488992 GTTCAATTTG
* *
489002 GAATTCTCTAGCCACCAGCCACCGGCCAATTCCAAATT
1 GAATTCTCTAGCCACCAACCACCGGCAAATTCCAAATT
* ** *
489040 GAATTCTCTAGTCGTCAACCACCGGCAAATTTCAAATT
1 GAATTCTCTAGCCACCAACCACCGGCAAATTCCAAATT
489078 GAATT
1 GAATT
489083 TTTTAACCGT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.26
Consensus pattern (38 bp):
GAATTCTCTAGCCACCAACCACCGGCAAATTCCAAATT
Found at i:489094 original size:38 final size:38
Alignment explanation
Indices: 489020--489171 Score: 142
Period size: 38 Copynumber: 4.0 Consensus size: 38
489010 TAGCCACCAG
* * **
489020 CCACCGGCCAATTCCAAATTGAATTCTCTAGTCGTCAA
1 CCACCGGCCAATTTCAAATTGAATTCTTTAACCGTCAA
* * *
489058 CCACCGGCAAATTTCAAATTGAATTTTTTAACCGTCAG
1 CCACCGGCCAATTTCAAATTGAATTCTTTAACCGTCAA
* ** * *
489096 CCGCCAACCAATTTCAAATTAAATTCTTTAACCGTCAG
1 CCACCGGCCAATTTCAAATTGAATTCTTTAACCGTCAA
* * * * * *
489134 TCGCCAGTCAATTTTAAATTGAATTCTCTAACCGTCAA
1 CCACCGGCCAATTTCAAATTGAATTCTTTAACCGTCAA
489172 TTAATTCAAT
Statistics
Matches: 94, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 94 1.00
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (38 bp):
CCACCGGCCAATTTCAAATTGAATTCTTTAACCGTCAA
Found at i:490009 original size:23 final size:21
Alignment explanation
Indices: 489975--490016 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
489965 AAAATTCTTT
489975 TTAAATATAATTCTATAAATTAA
1 TTAAATATAATT-T-TAAATTAA
489998 TTAAAT-TAAATTTTAAATT
1 TTAAATAT-AATTTTAAATT
490017 CAAATTAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
21 6 0.33
22 2 0.11
23 10 0.56
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TTAAATATAATTTTAAATTAA
Found at i:490387 original size:15 final size:15
Alignment explanation
Indices: 490336--490387 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
490326 TGCTAACTAC
490336 ATTATTTTTTT-AAA
1 ATTATTTTTTTAAAA
* *
490350 ATTATTTATATTAAAT
1 ATTATTT-TTTTAAAA
*
490366 ATAATTTTTTTAAAA
1 ATTATTTTTTTAAAA
490381 ATTATTT
1 ATTATTT
490388 AAATATATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 7 0.23
15 15 0.50
16 8 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTATTTTTTTAAAA
Found at i:490413 original size:33 final size:33
Alignment explanation
Indices: 490339--490426 Score: 121
Period size: 33 Copynumber: 2.8 Consensus size: 33
490329 TAACTACATT
*
490339 ATTTTTTTAAAATTATTT--ATATTAAATATAA
1 ATTTTTTAAAAATTATTTAAATATTAAATATAA
*
490370 TTTTTTTAAAAATTATTTAAATATATAAA-ATAA
1 ATTTTTTAAAAATTATTTAAATAT-TAAATATAA
490403 ATTTTTTAAAAATT-TTTAAATATT
1 ATTTTTTAAAAATTATTTAAATATT
490427 TATTTTAATA
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
31 17 0.33
32 9 0.18
33 21 0.41
34 4 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (33 bp):
ATTTTTTAAAAATTATTTAAATATTAAATATAA
Found at i:490434 original size:13 final size:14
Alignment explanation
Indices: 490417--490466 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 14
490407 TTTAAAAATT
490417 TTTAAATATTTAT-
1 TTTAAATATTTATA
490430 TTTAATATATAATTATA
1 TTTAA-ATAT--TTATA
*
490447 TTT-TATATTTATA
1 TTTAAATATTTATA
490460 TTTAAAT
1 TTTAAAT
490467 TTAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
13 13 0.43
14 6 0.20
15 4 0.13
16 4 0.13
17 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTAAATATTTATA
Found at i:490731 original size:16 final size:15
Alignment explanation
Indices: 490710--490743 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
490700 TAAGTATTTG
490710 AATATAAATATATATT
1 AATATAAATATA-ATT
490726 AATATAAATATAATT
1 AATATAAATATAATT
490741 AAT
1 AAT
490744 TTTTTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATATAAATATAATT
Found at i:493592 original size:15 final size:17
Alignment explanation
Indices: 493558--493597 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
493548 ATTATGTTAT
493558 TATTTAATATAAATATA
1 TATTTAATATAAATATA
493575 TATTTAATATAAATATA
1 TATTTAATATAAATATA
493592 T-TTTAA
1 TATTTAA
493598 AATTACGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTTAATATAAATATA
Found at i:499669 original size:13 final size:13
Alignment explanation
Indices: 499653--499698 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
499643 ATTAAATTTT
499653 ATAAATAAAAATA
1 ATAAATAAAAATA
** *
499666 ATAAATTAAATTTT
1 ATAAA-TAAAAATA
499680 ATAAATAAAAATA
1 ATAAATAAAAATA
499693 ATAAAT
1 ATAAAT
499699 TAATCTTATA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 16 0.62
14 10 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAAATAAAAATA
Found at i:499679 original size:27 final size:27
Alignment explanation
Indices: 499643--499715 Score: 123
Period size: 27 Copynumber: 2.8 Consensus size: 27
499633 TTTCAAAATT
499643 ATTAAATTTTATAAATAAAAATAATAA
1 ATTAAATTTTATAAATAAAAATAATAA
499670 ATTAAATTTTATAAATAAAAATAATAA
1 ATTAAATTTTATAAATAAAAATAATAA
*
499697 ATT-AATCTTAT-AATAAAAA
1 ATTAAATTTTATAAATAAAAA
499716 ATAAAAAAAC
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
25 8 0.18
26 7 0.16
27 30 0.67
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (27 bp):
ATTAAATTTTATAAATAAAAATAATAA
Found at i:499683 original size:14 final size:14
Alignment explanation
Indices: 499643--499685 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
499633 TTTCAAAATT
499643 ATTAAATTTTATAA
1 ATTAAATTTTATAA
** *
499657 A-TAAAAATAATAA
1 ATTAAATTTTATAA
499670 ATTAAATTTTATAA
1 ATTAAATTTTATAA
499684 AT
1 AT
499686 AAAAATAATA
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATTAAATTTTATAA
Found at i:499981 original size:17 final size:16
Alignment explanation
Indices: 499934--500003 Score: 67
Period size: 20 Copynumber: 4.3 Consensus size: 16
499924 TGTAAGTATG
499934 ATATAAAAATATATAA
1 ATATAAAAATATATAA
499950 A-ATAAAAA-AT-T-A
1 ATATAAAAATATATAA
499962 ATATAAATAATATATAA
1 ATATAAA-AATATATAA
499979 ATATATTAAAATTTATATAA
1 ATATA--AAAA--TATATAA
499999 ATATA
1 ATATA
500004 TAATATTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
12 2 0.04
13 6 0.13
14 4 0.09
15 9 0.20
16 2 0.04
17 6 0.13
18 2 0.04
19 2 0.04
20 12 0.27
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATAAAAATATATAA
Found at i:500041 original size:35 final size:35
Alignment explanation
Indices: 499992--500058 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
499982 TATTAAAATT
499992 TATATAAATATAT-AATATTTTTAATATAATTATCA
1 TATATAAATATATAAATATTTTT-ATATAATTATCA
500027 TATA-AAATAATATAAATATTTTTATATAATTA
1 TATATAAAT-ATATAAATATTTTTATATAATTA
500059 AAAAAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 4 0.13
35 17 0.57
36 9 0.30
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (35 bp):
TATATAAATATATAAATATTTTTATATAATTATCA
Found at i:502432 original size:24 final size:24
Alignment explanation
Indices: 502401--502450 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
502391 TCAACTTTAA
*
502401 ATTCTTTGGATTACTGTGAAATTT
1 ATTCTTTGGAGTACTGTGAAATTT
*
502425 ATTCTTTGGAGTACTGTTAAATTT
1 ATTCTTTGGAGTACTGTGAAATTT
502449 AT
1 AT
502451 ATTTACAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.50
Consensus pattern (24 bp):
ATTCTTTGGAGTACTGTGAAATTT
Found at i:507740 original size:17 final size:17
Alignment explanation
Indices: 507720--507756 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
507710 TAAATTTTAA
*
507720 TATTTTTTATTTTATAT
1 TATTTTTTATATTATAT
507737 TATTTTTTATATTATAT
1 TATTTTTTATATTATAT
507754 TAT
1 TAT
507757 ATTTATGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TATTTTTTATATTATAT
Found at i:507743 original size:26 final size:26
Alignment explanation
Indices: 507699--507759 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
507689 AATTAAAATA
507699 TTTATATTATATAAATTTTAATATTT
1 TTTATATTATATAAATTTTAATATTT
* * * *
507725 TTTATTTTATATTATTTTTTATATTAT
1 TTTATATTATATAAATTTTAATATT-T
*
507752 ATTATATT
1 TTTATATT
507760 TATGTTGTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
26 21 0.75
27 7 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (26 bp):
TTTATATTATATAAATTTTAATATTT
Found at i:508053 original size:22 final size:23
Alignment explanation
Indices: 508027--508117 Score: 79
Period size: 22 Copynumber: 4.1 Consensus size: 23
508017 GTGATAATTT
508027 TAAAAATAATATAATTATA-ATA
1 TAAAAATAATATAATTATATATA
*
508049 TAAAAATAAT-TAA-AATATGATA
1 TAAAAATAATATAATTATAT-ATA
*
508071 T-AATATGAATAT-ATTA-ATATA
1 TAAAAAT-AATATAATTATATATA
*
508092 TAAAAAT-TTATATATTATATATA
1 TAAAAATAATATA-ATTATATATA
508115 TAA
1 TAA
508118 TCATAAATTT
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
20 6 0.11
21 11 0.20
22 28 0.51
23 10 0.18
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (23 bp):
TAAAAATAATATAATTATATATA
Found at i:508057 original size:11 final size:11
Alignment explanation
Indices: 508027--508073 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
508017 GTGATAATTT
508027 TAAAAATAATA
1 TAAAAATAATA
**
508038 TAATTATAATA
1 TAAAAATAATA
508049 TAAAAATAAT-
1 TAAAAATAATA
*
508059 TAAAATATGATA
1 TAAAA-ATAATA
508071 TAA
1 TAA
508074 TATGAATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
10 5 0.17
11 21 0.72
12 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:508073 original size:33 final size:34
Alignment explanation
Indices: 508026--508117 Score: 86
Period size: 33 Copynumber: 2.8 Consensus size: 34
508016 CGTGATAATT
508026 TTAAAA-ATAATATAATTATAATATAAAAATA-A
1 TTAAAATATAATATAATTATAATATAAAAATATA
* **
508058 TTAAAATATGATATAA-TATGAATATATTAATATA
1 TTAAAATATAATATAATTAT-AATATAAAAATATA
* *
508092 TAAAAAT-TTATAT-ATTATATATATAA
1 TTAAAATATAATATAATTATA-ATATAA
508118 TCATAAATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
32 11 0.22
33 31 0.63
34 7 0.14
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (34 bp):
TTAAAATATAATATAATTATAATATAAAAATATA
Found at i:509275 original size:13 final size:14
Alignment explanation
Indices: 509238--509278 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
509228 AATTTTTATT
509238 ATATTAAAAATATA
1 ATATTAAAAATATA
509252 ATATTATAAAATA-A
1 ATATTA-AAAATATA
*
509266 ATGTTAAAAATAT
1 ATATTAAAAATAT
509279 GTTATTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 6 0.25
14 12 0.50
15 6 0.25
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
ATATTAAAAATATA
Found at i:509443 original size:41 final size:41
Alignment explanation
Indices: 509392--509487 Score: 99
Period size: 40 Copynumber: 2.3 Consensus size: 41
509382 TTAAATTATC
* * *
509392 TATTTATAAATATGAA-CAAACTTTAAA-AAATTTTAAAAATCA
1 TATTTATAAATA-AAATCAAAC-TTAAATAAA-TATAAAAATAA
509434 TATTT-TAAATAAAATCAAACTTAAATAAATATAAAAATAA
1 TATTTATAAATAAAATCAAACTTAAATAAATATAAAAATAA
*
509474 TATTAATAATATAA
1 TATTTATAA-ATAA
509488 TTAGACACAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
40 20 0.43
41 17 0.37
42 9 0.20
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.35
Consensus pattern (41 bp):
TATTTATAAATAAAATCAAACTTAAATAAATATAAAAATAA
Found at i:509627 original size:2 final size:2
Alignment explanation
Indices: 509614--509667 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
509604 ATTAAGGTAC
*
509614 AT AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
509656 AT AT AT AT AT AT
1 AT AT AT AT AT AT
509668 GTCGACCTCA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:510944 original size:18 final size:19
Alignment explanation
Indices: 510923--510958 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
510913 TATTTTATTT
510923 AAAATAGTA-AAAATTTTA
1 AAAATAGTATAAAATTTTA
*
510941 AAAATATTATAAAATTTT
1 AAAATAGTATAAAATTTT
510959 TATTTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (19 bp):
AAAATAGTATAAAATTTTA
Found at i:512028 original size:17 final size:17
Alignment explanation
Indices: 511999--512044 Score: 85
Period size: 17 Copynumber: 2.8 Consensus size: 17
511989 GCTTGATAAA
511999 TTATTTA-AATATCATT
1 TTATTTATAATATCATT
512015 TTATTTATAATATCATT
1 TTATTTATAATATCATT
512032 TTATTTATAATAT
1 TTATTTATAATAT
512045 ATTATATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATTTATAATATCATT
Found at i:512125 original size:14 final size:14
Alignment explanation
Indices: 512083--512216 Score: 64
Period size: 14 Copynumber: 10.4 Consensus size: 14
512073 TGTTATTGTA
*
512083 ATATA-TTATTTAT
1 ATATATTTATATAT
*
512096 AT-TATTTATATTT
1 ATATATTTATATAT
*
512109 ATATATTTGTATAT
1 ATATATTTATATAT
*
512123 ATATATTTAGA-A-
1 ATATATTTATATAT
512135 A-AT-TGTTAT-TAT
1 ATATAT-TTATATAT
*
512147 A-AT-TTTATTTAT
1 ATATATTTATATAT
512159 A-ATATATTATATAT
1 ATATAT-TTATATAT
*
512173 TTATATTTATAT-T
1 ATATATTTATATAT
*
512186 -T-T-TTGTTTATAT
1 ATATATT-TATATAT
512198 AT-TATTTATATAT
1 ATATATTTATATAT
*
512211 TTATAT
1 ATATAT
512217 AAAAAATTTG
Statistics
Matches: 95, Mismatches: 12, Indels: 27
0.71 0.09 0.20
Matches are distributed among these distances:
10 3 0.03
11 15 0.16
12 15 0.16
13 22 0.23
14 36 0.38
15 4 0.04
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (14 bp):
ATATATTTATATAT
Found at i:513775 original size:16 final size:16
Alignment explanation
Indices: 513721--513782 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
513711 CTAATTTTTG
* *
513721 TTATTTGAATTTTATA
1 TTATTTTAATTTTAAA
* *
513737 TTATTTTGAA-TTCAGA
1 TTATTTT-AATTTTAAA
513753 TTATTTTAATTTTAAA
1 TTATTTTAATTTTAAA
513769 TTATTTTAACTTTT
1 TTATTTTAA-TTTT
513783 TATAATTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
15 2 0.05
16 30 0.79
17 6 0.16
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (16 bp):
TTATTTTAATTTTAAA
Found at i:513825 original size:52 final size:53
Alignment explanation
Indices: 513758--513874 Score: 164
Period size: 53 Copynumber: 2.2 Consensus size: 53
513748 TCAGATTATT
* * * *
513758 TTAATTTTAAATTATTTTAACTTTTTA-TAATTAAATTTAACATTCGAGTTAA
1 TTAATTTTAAATTATTTTAAATTTTGATTAATCAAATTTAACATTCAAGTTAA
* * *
513810 TTAATTTTAAGTTATTTTAAATTTTGATTAATCAAATTTAACATTTAATTTAA
1 TTAATTTTAAATTATTTTAAATTTTGATTAATCAAATTTAACATTCAAGTTAA
513863 TTAATTTTAAAT
1 TTAATTTTAAAT
513875 AATTCAAATT
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
52 24 0.43
53 32 0.57
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.53
Consensus pattern (53 bp):
TTAATTTTAAATTATTTTAAATTTTGATTAATCAAATTTAACATTCAAGTTAA
Found at i:513918 original size:31 final size:30
Alignment explanation
Indices: 513891--513949 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
513881 AATTTAATAC
513891 TTAA-ATTC-ATCAAATATAATTATTTTAAA
1 TTAAGATTCTATCAAAT-TAATTATTTTAAA
* *
513920 TTAAGATTCTTTCAAATTAATTTTTTTAAA
1 TTAAGATTCTATCAAATTAATTATTTTAAA
513950 AATTTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 4 0.15
30 16 0.62
31 6 0.23
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (30 bp):
TTAAGATTCTATCAAATTAATTATTTTAAA
Found at i:514020 original size:14 final size:14
Alignment explanation
Indices: 514001--514029 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
513991 TTCAAATGAA
514001 TTAGTTAAATTTAT
1 TTAGTTAAATTTAT
514015 TTAGTTAAATTTAT
1 TTAGTTAAATTTAT
514029 T
1 T
514030 GAGATGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTAGTTAAATTTAT
Found at i:514622 original size:2 final size:2
Alignment explanation
Indices: 514615--514656 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
514605 ATATAAATTC
514615 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
514657 GACCGAGAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:516428 original size:15 final size:15
Alignment explanation
Indices: 516405--516434 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
516395 GAATGTCAAA
516405 TATAAGCATATATTC
1 TATAAGCATATATTC
*
516420 TATACGCATATATTC
1 TATAAGCATATATTC
516435 AATTATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.40
Consensus pattern (15 bp):
TATAAGCATATATTC
Found at i:521956 original size:24 final size:25
Alignment explanation
Indices: 521900--521958 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 25
521890 TCAAGTTTGC
521900 TTATA-ATTTAAATTTTTAAACAATA
1 TTATATATTTAAA-TTTTAAACAATA
*
521925 TT-TTTATTTAAA-TTTAAATCAAT-
1 TTATATATTTAAATTTTAAA-CAATA
521948 TTATATATTTA
1 TTATATATTTA
521959 TTTTATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
23 8 0.28
24 12 0.41
25 9 0.31
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.54
Consensus pattern (25 bp):
TTATATATTTAAATTTTAAACAATA
Found at i:522682 original size:16 final size:14
Alignment explanation
Indices: 522653--522691 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
522643 AGTGGAAAAA
522653 AATATTTT-AATTT
1 AATATTTTAAATTT
522666 ATATATTATTAAATTT
1 A-ATATT-TTAAATTT
522682 AATATTTTAA
1 AATATTTTAA
522692 TTTTTTTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 1 0.04
14 9 0.39
15 7 0.30
16 6 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATATTTTAAATTT
Found at i:523586 original size:3 final size:3
Alignment explanation
Indices: 523578--523611 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
523568 TTAAAAGGGA
523578 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
523612 TCCAAACATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:523890 original size:2 final size:2
Alignment explanation
Indices: 523885--523927 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
523875 ATATATATAT
*
523885 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG GG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
523927 A
1 A
523928 CATTGGTCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:524462 original size:20 final size:20
Alignment explanation
Indices: 524419--524476 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
524409 TTTTAATTTT
**
524419 ATAAAAATAATTAATTAACT
1 ATAAAAATAATTAATTAAAA
**
524439 ATAAAAATAATTTTTTAAAA
1 ATAAAAATAATTAATTAAAA
524459 ATAAAAA-ATATTAATTAA
1 ATAAAAATA-ATTAATTAA
524477 TACATATAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAAAAATAATTAATTAAAA
Found at i:528513 original size:94 final size:94
Alignment explanation
Indices: 528352--528537 Score: 302
Period size: 94 Copynumber: 2.0 Consensus size: 94
528342 CTAACTAGAC
* *
528352 AAATCCTTCTCTACAACCAGAACAACCACTCAAAAATTACAGATCAACATCACACCATAGCCAAT
1 AAATCCTCCTCTAAAACCAGAACAACCACTCAAAAATTACAGATCAACATCACACCATAGCCAAT
*
528417 GAAAACACAGCTAAACACAAGCAATTAAT
66 GAAAACACAGCCAAACACAAGCAATTAAT
* *
528446 AAATCCTCCTCTAAAACCAGAACAACCACTCAAAAGTTACAGATCAACATGACACCACT-GCCAA
1 AAATCCTCCTCTAAAACCAGAACAACCACTCAAAAATTACAGATCAACATCACACCA-TAGCCAA
*
528510 TGAAAACACAGCCAAACACGAGCAATTA
65 TGAAAACACAGCCAAACACAAGCAATTA
528538 GCAGATATAA
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
94 84 0.99
95 1 0.01
ACGTcount: A:0.47, C:0.30, G:0.08, T:0.16
Consensus pattern (94 bp):
AAATCCTCCTCTAAAACCAGAACAACCACTCAAAAATTACAGATCAACATCACACCATAGCCAAT
GAAAACACAGCCAAACACAAGCAATTAAT
Found at i:539586 original size:3 final size:3
Alignment explanation
Indices: 539578--539620 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
539568 AGAGCCATTT
539578 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
539621 ACCTCAGTAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:541872 original size:16 final size:17
Alignment explanation
Indices: 541851--541888 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
541841 TCCAAGCTCC
* *
541851 AAAAAGAA-ACTTACGA
1 AAAAAGAATACTAAAGA
541867 AAAAAGAATACTAAAGA
1 AAAAAGAATACTAAAGA
541884 AAAAA
1 AAAAA
541889 AAAAGTAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.71, C:0.08, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAAAGAATACTAAAGA
Found at i:545259 original size:15 final size:15
Alignment explanation
Indices: 545239--545268 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
545229 CATAGTGTTT
545239 TTTTTTAATAATTTA
1 TTTTTTAATAATTTA
545254 TTTTTTAATAATTTA
1 TTTTTTAATAATTTA
545269 AGTGATGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTTAATAATTTA
Found at i:545581 original size:15 final size:16
Alignment explanation
Indices: 545561--545591 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
545551 AAGTACCAAA
545561 TTCATTTAATT-GTTT
1 TTCATTTAATTAGTTT
545576 TTCATTTAATTAGTTT
1 TTCATTTAATTAGTTT
545592 AGTACTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.65
Consensus pattern (16 bp):
TTCATTTAATTAGTTT
Found at i:547476 original size:2 final size:2
Alignment explanation
Indices: 547469--547513 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
547459 AGAGGGACGA
*
547469 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
547511 AT A
1 AT A
547514 GAGAGAGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:549873 original size:2 final size:2
Alignment explanation
Indices: 549866--549902 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
549856 TTACATACCT
549866 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
549903 TTGGACGCTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:553328 original size:2 final size:2
Alignment explanation
Indices: 553321--553413 Score: 56
Period size: 2 Copynumber: 50.0 Consensus size: 2
553311 TGAGTGTGAA
* *
553321 AT AT AT AT AT AT AT AT AT AT A- AT AT AA AT AT AT -T TT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * *
553360 -T TT AA AA AA AT AT AT TT A- AT AT TT AT AT TT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
553400 AT AT -T A- AT AT AT AT
1 AT AT AT AT AT AT AT AT
553414 TAAATATAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
1 7 0.10
2 65 0.90
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:553646 original size:27 final size:27
Alignment explanation
Indices: 553616--553704 Score: 63
Period size: 27 Copynumber: 3.1 Consensus size: 27
553606 TTTTTTTAAA
*
553616 TTTAAGTTTTAGTTAATTTATTATAAT
1 TTTAAGTTTTAATTAATTTATTATAAT
* *
553643 TTTATAGATTTAATT-TTTTATTATATTAT
1 TTTA-AGTTTTAATTAATTTATTATA--AT
* * * *
553672 TTTAAAATTTTTATTTAATTAATAATAAT
1 TTT--AAGTTTTAATTAATTTATTATAAT
553701 TTTA
1 TTTA
553705 CTTTTTTCAT
Statistics
Matches: 47, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
27 14 0.30
28 8 0.17
29 10 0.21
30 7 0.15
31 8 0.17
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (27 bp):
TTTAAGTTTTAATTAATTTATTATAAT
Found at i:554049 original size:12 final size:12
Alignment explanation
Indices: 554007--554055 Score: 55
Period size: 12 Copynumber: 3.9 Consensus size: 12
553997 TTAAAATTTT
554007 TAAAATATTATAA
1 TAAAA-ATTATAA
*
554020 TAAAAAATA-AA
1 TAAAAATTATAA
554031 TTAAAAATTTATAA
1 -TAAAAA-TTATAA
554045 TAAAAATTATA
1 TAAAAATTATA
554056 CTTCAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
11 2 0.06
12 14 0.45
13 13 0.42
14 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TAAAAATTATAA
Found at i:555749 original size:23 final size:23
Alignment explanation
Indices: 555722--555766 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
555712 TTAAAATAAG
555722 TATATTTTTTATTAAAT-TTTAGT
1 TATATTTTTTA-TAAATATTTAGT
555745 TATATTTTTTATAAATATTTAG
1 TATATTTTTTATAAATATTTAG
555767 GGAGCAAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (23 bp):
TATATTTTTTATAAATATTTAGT
Found at i:556177 original size:16 final size:16
Alignment explanation
Indices: 556139--556190 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
556129 ATAAAATAAA
*
556139 ATTAAAATCAATTATTT
1 ATTAAAAT-AAATATTT
556156 -TATAAAATAAATATTT
1 AT-TAAAATAAATATTT
* *
556172 ATTAAATTAAATAATT
1 ATTAAAATAAATATTT
556188 ATT
1 ATT
556191 TTGCTGTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 23 0.77
17 7 0.23
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTAAAATAAATATTT
Found at i:556757 original size:20 final size:18
Alignment explanation
Indices: 556706--556758 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
556696 TTTATATATG
*
556706 TATTATATT-TATTTTAA
1 TATTTTATTATATTTTAA
556723 TATTTTATTTCATATTTTAA
1 TATTTTA-TT-ATATTTTAA
556743 TTATTTTTATTATATT
1 -TA-TTTTATTATATT
556759 ATGTTTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 6 0.20
18 2 0.07
20 13 0.43
21 4 0.13
22 5 0.17
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTTTATTATATTTTAA
Found at i:556952 original size:20 final size:18
Alignment explanation
Indices: 556917--556968 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
556907 TTTTATAATA
556917 ATATAATATATATTAAAT
1 ATATAATATATATTAAAT
*
556935 ATATTATATATAGTTTAAAT
1 ATATAATATATA--TTAAAT
*
556955 ATATCATATA-ATTA
1 ATATAATATATATTA
556969 GAACTGTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 3 0.10
18 11 0.37
19 1 0.03
20 15 0.50
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (18 bp):
ATATAATATATATTAAAT
Found at i:557968 original size:20 final size:21
Alignment explanation
Indices: 557937--557977 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
557927 TTATTTTAAC
*
557937 AAATAATAATTTAAAATATAA
1 AAATAATAATTTAAAAAATAA
557958 AAATAAT-ATTTAAAAAATAA
1 AAATAATAATTTAAAAAATAA
557978 TTATTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
AAATAATAATTTAAAAAATAA
Found at i:558045 original size:13 final size:13
Alignment explanation
Indices: 558027--558061 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
558017 AAATACGTGT
558027 TATATTTATTTAA
1 TATATTTATTTAA
558040 TATATTTA-TTAA
1 TATATTTATTTAA
558052 TATAATTTAT
1 TAT-ATTTAT
558062 AAAATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATATTTATTTAA
Found at i:558241 original size:25 final size:25
Alignment explanation
Indices: 558213--558263 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
558203 AAGATTAAAA
*
558213 TATATAAATATTTTTAAGTTTATTT
1 TATATAAATAATTTTAAGTTTATTT
** *
558238 TATATTTATAATTTTAATTTTATTT
1 TATATAAATAATTTTAAGTTTATTT
558263 T
1 T
558264 GTTTTTAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (25 bp):
TATATAAATAATTTTAAGTTTATTT
Found at i:558242 original size:19 final size:20
Alignment explanation
Indices: 558220--558260 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
558210 AAATATATAA
*
558220 ATATTTTTAAGTTT-ATTTT
1 ATATTTATAAGTTTAATTTT
*
558239 ATATTTATAATTTTAATTTT
1 ATATTTATAAGTTTAATTTT
558259 AT
1 AT
558261 TTTGTTTTTA
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:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
ATATTTATAAGTTTAATTTT
Found at i:559637 original size:14 final size:14
Alignment explanation
Indices: 559613--559647 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
559603 TTTTTTAAAT
559613 ATAAT-TAATATAA
1 ATAATATAATATAA
*
559626 ATAATATAATATAC
1 ATAATATAATATAA
559640 ATAATATA
1 ATAATATA
559648 TATTTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAATATAATATAA
Found at i:559685 original size:17 final size:17
Alignment explanation
Indices: 559643--559686 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
559633 AATATACATA
559643 ATATATATTTAAAATTT
1 ATATATATTTAAAATTT
559660 -TAATATATTTAATAATTT
1 AT-ATATATTTAA-AATTT
559678 ATAT-TATTT
1 ATATATATTT
559687 TTATATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
16 1 0.04
17 15 0.62
18 7 0.29
19 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATATATATTTAAAATTT
Found at i:560127 original size:17 final size:16
Alignment explanation
Indices: 560115--560154 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
560105 GTAATAATTA
560115 AATTAT-TTAAATAAT
1 AATTATATTAAATAAT
*
560130 AATTATATTAAA-ATT
1 AATTATATTAAATAAT
560145 AATTA-ATTAA
1 AATTATATTAA
560155 TCATTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 5 0.22
15 13 0.57
16 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTATATTAAATAAT
Found at i:560194 original size:17 final size:18
Alignment explanation
Indices: 560172--560214 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
560162 TATCATAAAA
*
560172 AAATTATTTA-TATATTT
1 AAATTATTAATTATATTT
*
560189 ATATTA-TAATTATATTT
1 AAATTATTAATTATATTT
560206 AAATTATTA
1 AAATTATTA
560215 TAAAAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 2 0.10
17 17 0.81
18 2 0.10
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AAATTATTAATTATATTT
Found at i:561208 original size:19 final size:20
Alignment explanation
Indices: 561168--561208 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
561158 ATTTTTGTTT
561168 TTATGTTATTGAATAAAAAA
1 TTATGTTATTGAATAAAAAA
* *
561188 TTATTTTATTG-ATAAATAA
1 TTATGTTATTGAATAAAAAA
561207 TT
1 TT
561209 GGTAAGAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (20 bp):
TTATGTTATTGAATAAAAAA
Found at i:561602 original size:23 final size:20
Alignment explanation
Indices: 561559--561612 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
561549 ATAATTTATC
* *
561559 ATAATAATATAATTTTAATT
1 ATAATTATATTATTTTAATT
561579 ATAAATTTATATTATTTTATATT
1 AT-AA-TTATATTATTTTA-ATT
561602 ATAATTATATT
1 ATAATTATATT
561613 TAATTTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 2 0.07
21 9 0.31
22 13 0.45
23 5 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATAATTATATTATTTTAATT
Found at i:561618 original size:23 final size:23
Alignment explanation
Indices: 561568--561618 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
561558 CATAATAATA
561568 TAATTTTAATTATAAATTTATAT
1 TAATTTTAATTATAAATTTATAT
561591 T-ATTTTATATTAT-AA-TTATATT
1 TAATTTTA-ATTATAAATTTATA-T
561613 TAATTT
1 TAATTT
561619 ATTATCAGCG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 5 0.20
22 10 0.40
23 10 0.40
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TAATTTTAATTATAAATTTATAT
Found at i:568888 original size:2 final size:2
Alignment explanation
Indices: 568881--568906 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
568871 TTGAATCTGG
568881 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
568907 TCTCATCTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:570126 original size:11 final size:11
Alignment explanation
Indices: 570101--570130 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
570091 AAATATTTTG
570101 AAAAAGAAATA
1 AAAAAGAAATA
570112 AAAAACGAAATA
1 AAAAA-GAAATA
570124 AAAAAGA
1 AAAAAGA
570131 GTAAAATGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.80, C:0.03, G:0.10, T:0.07
Consensus pattern (11 bp):
AAAAAGAAATA
Found at i:571448 original size:2 final size:2
Alignment explanation
Indices: 571441--571475 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
571431 TGCCGTACCA
571441 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
571476 AACTCATTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:571580 original size:4 final size:4
Alignment explanation
Indices: 571573--571599 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
571563 ATATATATAT
571573 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
571600 TACAAGTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:573149 original size:14 final size:14
Alignment explanation
Indices: 573113--573140 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
573103 AGCAAAGAGT
573113 AAAAAACAAAAAAA
1 AAAAAACAAAAAAA
573127 AAAAAACAAAAAAA
1 AAAAAACAAAAAAA
573141 CACACACAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAACAAAAAAA
Found at i:578170 original size:17 final size:18
Alignment explanation
Indices: 578125--578171 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
578115 TATATAAATA
578125 AATATATTAAAA-TATCT
1 AATATATTAAAATTATCT
*
578142 -ATA-ATAAAAATTAT-T
1 AATATATTAAAATTATCT
578157 AATATATTAAAATTA
1 AATATATTAAAATTA
578172 ATATAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 7 0.28
16 9 0.36
17 9 0.36
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
AATATATTAAAATTATCT
Found at i:578173 original size:27 final size:26
Alignment explanation
Indices: 578143--578193 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
578133 AAAATATCTA
578143 TAATAAAAAT-TATTAATATATTAAAAT
1 TAATAAAAATATA-TAATAT-TTAAAAT
*
578170 TAATATAAATATATAATATTTAAA
1 TAATAAAAATATATAATATTTAAA
578194 TATAATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 5 0.23
27 15 0.68
28 2 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
TAATAAAAATATATAATATTTAAAAT
Found at i:578194 original size:25 final size:25
Alignment explanation
Indices: 578160--578241 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 25
578150 AATTATTAAT
578160 ATATTAAAAT-TAATATAAATATATA
1 ATATTAAAATATAAT-TAAATATATA
* *
578185 ATATTTAAATATAATTATATATA-A
1 ATATTAAAATATAATTAAATATATA
* *
578209 ATTAATAAAAATATAATATAAATTTAT-
1 A-T-ATTAAAATATAAT-TAAATATATA
578236 ATATTA
1 ATATTA
578242 TCATATCTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
24 2 0.04
25 20 0.44
26 16 0.36
27 7 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
ATATTAAAATATAATTAAATATATA
Found at i:578228 original size:21 final size:21
Alignment explanation
Indices: 578157--578232 Score: 63
Period size: 21 Copynumber: 3.7 Consensus size: 21
578147 AAAAATTATT
*
578157 AATATATTA-AAATTAATATAA
1 AATATAATATAAATTAATA-AA
*
578178 ATATATAATAT---TTAAATATA
1 A-ATATAATATAAATT-AATAAA
*
578198 ATTAT-ATATAAATTAATAAA
1 AATATAATATAAATTAATAAA
578218 AATATAATATAAATT
1 AATATAATATAAATT
578233 TATATATTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
18 4 0.09
19 3 0.07
20 13 0.30
21 16 0.37
22 7 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AATATAATATAAATTAATAAA
Found at i:578238 original size:41 final size:40
Alignment explanation
Indices: 578090--578247 Score: 119
Period size: 41 Copynumber: 3.8 Consensus size: 40
578080 AAAAATAATT
* *
578090 AAATATAATAAGAAATTTATAAAATTATATAAATAAATATATTAA
1 AAATATAAT-A-AAATTTATATAATTATAT--ATAAAT-TAATAA
* *
578135 AATATCTATAATAAAAATTAT-TAA-TATAT-TAAAATTAATAT
1 AA-A--TATAATAAAATTTATATAATTATATAT-AAATTAATAA
*
578176 AAATAT-ATAATATTTAAATATAATTATATATAAATTAATAA
1 AAATATAATAAAATTT--ATATAATTATATATAAATTAATAA
578217 AAATATAATATAAATTTATAT-ATTATCATAT
1 AAATATAATA-AAATTTATATAATTAT-ATAT
578248 CTATTAAAAA
Statistics
Matches: 93, Mismatches: 8, Indels: 28
0.72 0.06 0.22
Matches are distributed among these distances:
37 7 0.08
38 3 0.03
39 2 0.02
40 9 0.10
41 35 0.38
42 8 0.09
43 5 0.05
44 5 0.05
45 4 0.04
46 8 0.09
47 1 0.01
48 6 0.06
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.41
Consensus pattern (40 bp):
AAATATAATAAAATTTATATAATTATATATAAATTAATAA
Found at i:578654 original size:14 final size:14
Alignment explanation
Indices: 578635--578664 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
578625 TAAATTTTTT
578635 TAATGATGACATGA
1 TAATGATGACATGA
*
578649 TAATGATGATATGA
1 TAATGATGACATGA
578663 TA
1 TA
578665 TTTTATCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.20, T:0.33
Consensus pattern (14 bp):
TAATGATGACATGA
Found at i:579667 original size:24 final size:22
Alignment explanation
Indices: 579617--579666 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 22
579607 TTATTTAAAA
579617 TATT-ATTAAATA-ATTAGTTT
1 TATTAATTAAATATATTAGTTT
579637 TATTAATTAAATATATTA-TTT
1 TATTAATTAAATATATTAGTTT
579658 T-TTAATTAA
1 TATTAATTAA
579667 TCTAAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 12 0.43
21 12 0.43
22 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TATTAATTAAATATATTAGTTT
Found at i:579676 original size:24 final size:24
Alignment explanation
Indices: 579634--579681 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
579624 AAATAATTAG
579634 TTTTATTAATTAAATATAT-TATT
1 TTTTATTAATTAAATATATATATT
579657 TTTTAATTAATCTAAA-ATATATATT
1 TTTT-ATTAAT-TAAATATATATATT
579682 AAGTTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.18
24 10 0.45
25 8 0.36
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTTATTAATTAAATATATATATT
Found at i:581307 original size:2 final size:2
Alignment explanation
Indices: 581300--581324 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
581290 CACTTACAAC
581300 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
581325 TAATAATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:581852 original size:3 final size:3
Alignment explanation
Indices: 581826--581896 Score: 88
Period size: 3 Copynumber: 23.7 Consensus size: 3
581816 GACATGTTAT
* * * * * *
581826 TTA TTC TTA TTC TTA TTT TTA TTA TTA TTA ATA ATA TTA TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
581874 TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
581897 CAATACAAAC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:582390 original size:11 final size:11
Alignment explanation
Indices: 582376--582420 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
582366 ATAATAAAAC
582376 TATTTTATTTT
1 TATTTTATTTT
582387 TATTTTATTTT
1 TATTTTATTTT
*
582398 GATTTT-TTTT
1 TATTTTATTTT
*
582408 T-TTATATTTT
1 TATTTTATTTT
582418 TAT
1 TAT
582421 AAATTAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 3 0.10
10 9 0.31
11 17 0.59
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:583364 original size:3 final size:3
Alignment explanation
Indices: 583356--583384 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
583346 TGTTTACTCT
583356 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
583385 CTTTTCTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:583593 original size:20 final size:19
Alignment explanation
Indices: 583544--583594 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
583534 TTAAATATAA
*
583544 TATTTTATAA-TTTAATTT
1 TATTTAATAATTTTAATTT
*
583562 GATTTGATATAATTTTAATTTT
1 TATTT-A-ATAATTTTAA-TTT
583584 TATTTAATAAT
1 TATTTAATAAT
583595 AAACTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 4 0.15
20 9 0.35
21 6 0.23
22 7 0.27
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (19 bp):
TATTTAATAATTTTAATTT
Done.