Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold63
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: 2211945
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 524 characters in sequence are not A, C, G, or T
File 14 of 16
Found at i:1969009 original size:24 final size:24
Alignment explanation
Indices: 1968956--1969013 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
1968946 AATATTAATT
*
1968956 TTTTTATATAAATTATATATTTTTAA
1 TTTTTAT-TAAATTATATA-TTTAAA
1968982 -TTTTATTAAATTATATCA-TTAAA
1 TTTTTATTAAATTATAT-ATTTAAA
1969005 TTTTTATTA
1 TTTTTATTA
1969014 TTAATAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 4 0.14
24 18 0.62
25 7 0.24
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTTTATTAAATTATATATTTAAA
Found at i:1969219 original size:22 final size:23
Alignment explanation
Indices: 1969188--1969232 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
1969178 TAGAATTAGT
1969188 ATAAATAATTTAAT-TTATTAATA
1 ATAAATAATTTAATATTA-TAATA
1969211 ATAAA-AATTTAATATTATAATA
1 ATAAATAATTTAATATTATAATA
1969233 TGATAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
ATAAATAATTTAATATTATAATA
Found at i:1969377 original size:2 final size:2
Alignment explanation
Indices: 1969370--1969433 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
1969360 TCTAGTAAGA
1969370 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
1969412 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
1969434 TGTTTTTCCA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1969970 original size:14 final size:13
Alignment explanation
Indices: 1969952--1969999 Score: 55
Period size: 14 Copynumber: 3.7 Consensus size: 13
1969942 TTTCCTTTCC
1969952 TTTCTCTTCCTTT
1 TTTCTCTTCCTTT
1969965 TCTTCTCTT--TTT
1 T-TTCTCTTCCTTT
*
1969977 TTTCTCTTTCTCTT
1 TTTCTCTTCCT-TT
1969991 TTTCTCTTC
1 TTTCTCTTC
1970000 ATTCTTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
11 7 0.23
12 4 0.13
13 2 0.07
14 17 0.57
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTCTCTTCCTTT
Found at i:1969980 original size:25 final size:24
Alignment explanation
Indices: 1969934--1969998 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 24
1969924 ACACTAATCA
1969934 TTCCTTTTTT-TCCTTTCCTTTCTC
1 TTCCTTTTTTCT-CTTTCCTTTCTC
**
1969958 TTCCTTTTCTTCTCTTTTTTTTCTC
1 TTCCTTTT-TTCTCTTTCCTTTCTC
*
1969983 TTTCTCTTTTTCTCTT
1 TTCCT-TTTTTCTCTT
1969999 CATTCTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 8 0.23
25 23 0.66
26 4 0.11
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (24 bp):
TTCCTTTTTTCTCTTTCCTTTCTC
Found at i:1970860 original size:25 final size:26
Alignment explanation
Indices: 1970808--1970861 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
1970798 TTTTTATAGT
*
1970808 AATTATATAAATATAAACATAATGTA
1 AATTATATAAATATAAACATAATATA
*
1970834 AATTA-ATAAATAT-ATCATAATTATA
1 AATTATATAAATATAAACATAA-TATA
1970859 AAT
1 AAT
1970862 ATGAATACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 14 0.56
26 5 0.20
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (26 bp):
AATTATATAAATATAAACATAATATA
Found at i:1971287 original size:1 final size:1
Alignment explanation
Indices: 1971281--1971306 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
1971271 CCTCCTCCAC
1971281 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
1971307 CAGAATTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1971821 original size:18 final size:19
Alignment explanation
Indices: 1971798--1971850 Score: 72
Period size: 18 Copynumber: 2.8 Consensus size: 19
1971788 AAAATATCAT
1971798 AAAGATTAATTTTTTTT-A
1 AAAGATTAATTTTTTTTAA
*
1971816 AAAGATAAATTATTTTTTAA
1 AAAGATTAATT-TTTTTTAA
*
1971836 AAAAATTAATTTTTT
1 AAAGATTAATTTTTT
1971851 AAAAAAATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 10 0.33
19 10 0.33
20 10 0.33
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (19 bp):
AAAGATTAATTTTTTTTAA
Found at i:1971843 original size:16 final size:17
Alignment explanation
Indices: 1971822--1971858 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
1971812 TTTAAAAGAT
1971822 AAATT-ATTTTTTAAAA
1 AAATTAATTTTTTAAAA
1971838 AAATTAATTTTTTAAAA
1 AAATTAATTTTTTAAAA
1971855 AAAT
1 AAAT
1971859 GTATATCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAATTAATTTTTTAAAA
Found at i:1971857 original size:20 final size:19
Alignment explanation
Indices: 1971805--1971857 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 19
1971795 CATAAAGATT
* *
1971805 AATT-TTTTTTAAAAGATA
1 AATTATTTTTTAAAAAAAA
1971823 AATTATTTTTT---AAAAA
1 AATTATTTTTTAAAAAAAA
1971839 AATTAATTTTTTAAAAAAA
1 AATT-ATTTTTTAAAAAAA
1971858 TGTATATCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 7 0.25
17 7 0.25
18 4 0.14
19 6 0.21
20 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
AATTATTTTTTAAAAAAAA
Found at i:1971946 original size:17 final size:16
Alignment explanation
Indices: 1971924--1971965 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
1971914 AAAAACTTAT
1971924 TTTTTTATTTATACATA
1 TTTTTTATTTATA-ATA
**
1971941 TTTTTTAAATATAATA
1 TTTTTTATTTATAATA
1971957 -TTTTTATTT
1 TTTTTTATTT
1971966 GAATCTTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 7 0.33
16 3 0.14
17 11 0.52
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTTATTTATAATA
Found at i:1972996 original size:24 final size:24
Alignment explanation
Indices: 1972942--1973044 Score: 84
Period size: 24 Copynumber: 4.1 Consensus size: 24
1972932 ATGATATAAA
*
1972942 AAATAATATAAATATATTAA-AATTT
1 AAAT-ATATAAATATA-AAATAATTT
** *
1972967 TTATATATAAATATATAATAATTT
1 AAATATATAAATATAAAATAATTT
*
1972991 AAATATAATTAAA-ATAAAAATAATAT
1 AAATAT-A-TAAATAT-AAAATAATTT
*
1973017 AAATATATAAACTAAAAAATAATTT
1 AAATATATAAA-TATAAAATAATTT
1973042 AAA
1 AAA
1973045 AATTTTCGTA
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
23 3 0.05
24 24 0.38
25 18 0.28
26 19 0.30
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (24 bp):
AAATATATAAATATAAAATAATTT
Found at i:1975069 original size:17 final size:17
Alignment explanation
Indices: 1975049--1975099 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
1975039 ATAAAATACG
1975049 AATATATATTAA-ATTTA
1 AATATAT-TTAATATTTA
*
1975066 AATATATTTAATTTTTA
1 AATATATTTAATATTTA
1975083 AATAT-TTTATATATTTA
1 AATATATTTA-ATATTTA
1975100 TTAAATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 8 0.27
17 22 0.73
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AATATATTTAATATTTA
Found at i:1976411 original size:25 final size:26
Alignment explanation
Indices: 1976361--1976413 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
1976351 TTCGAACACG
* *
1976361 ATATGAAAATATAATATATTTAATAA
1 ATATGAAAAAATAATATATGTAATAA
1976387 ATAT-AAAAAATAATATAGTGT-ATAA
1 ATATGAAAAAATAATATA-TGTAATAA
1976412 AT
1 AT
1976414 CTTAACACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (26 bp):
ATATGAAAAAATAATATATGTAATAA
Found at i:1977253 original size:17 final size:17
Alignment explanation
Indices: 1977227--1977260 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1977217 ATTTATTCAT
* *
1977227 ATAATTATTTTTAATAA
1 ATAATAATTTGTAATAA
1977244 ATAATAATTTGTAATAA
1 ATAATAATTTGTAATAA
1977261 GTTTAAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
ATAATAATTTGTAATAA
Found at i:1978449 original size:22 final size:20
Alignment explanation
Indices: 1978407--1978450 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
1978397 ATAATTATTT
* *
1978407 TATATCTAAATTTATTTAAA
1 TATATCTAAATATATTAAAA
1978427 TATATCTAATATAATATTAAAA
1 TATATCTAA-AT-ATATTAAAA
1978449 TA
1 TA
1978451 ATAGCAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 2 0.10
22 9 0.45
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
TATATCTAAATATATTAAAA
Found at i:1979565 original size:19 final size:19
Alignment explanation
Indices: 1979538--1979578 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
1979528 AGATTTAGTA
1979538 ATTTATATATATGTGTTGT
1 ATTTATATATATGTGTTGT
* * *
1979557 ATTTTTATATTTTTGTTGT
1 ATTTATATATATGTGTTGT
1979576 ATT
1 ATT
1979579 GTAAATATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.66
Consensus pattern (19 bp):
ATTTATATATATGTGTTGT
Found at i:1979679 original size:5 final size:5
Alignment explanation
Indices: 1979659--1979720 Score: 60
Period size: 5 Copynumber: 13.0 Consensus size: 5
1979649 ACATACTAAA
* *
1979659 ATATCT ATATT TTATT ATATT TTATT ATATT -TATT ATATT AT-TT -TATT
1 ATAT-T ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
*
1979707 A-AAT ATATT ATATT
1 ATATT ATATT ATATT
1979721 TTTTTTATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
3 1 0.02
4 11 0.24
5 30 0.65
6 4 0.09
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (5 bp):
ATATT
Found at i:1979693 original size:19 final size:19
Alignment explanation
Indices: 1979664--1979738 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 19
1979654 CTAAAATATC
1979664 TATATTTTATTATATTTTAT
1 TATA-TTTATTATATTTTAT
1979684 TATATTTATTATATTATTTTAT
1 TATATTTA-T-TA-TATTTTAT
* * *
1979706 TAAATATATTATATTTTTTT
1 TATATTTATTATA-TTTTAT
1979726 TATATTT-TTATAT
1 TATATTTATTATAT
1979739 AATATCTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
18 1 0.02
19 11 0.24
20 17 0.37
21 3 0.07
22 14 0.30
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TATATTTATTATATTTTAT
Found at i:1979701 original size:22 final size:22
Alignment explanation
Indices: 1979676--1979738 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
1979666 TATTTTATTA
1979676 TATTTTATTATATTTATTATAT
1 TATTTTATTATATTTATTATAT
* *
1979698 TATTTTATTAAATATATTATAT
1 TATTTTATTATATTTATTATAT
1979720 T-TTTT-TTATATTT-TTATAT
1 TATTTTATTATATTTATTATAT
1979739 AATATCTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 6 0.16
20 6 0.16
21 4 0.11
22 21 0.57
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TATTTTATTATATTTATTATAT
Found at i:1980173 original size:30 final size:30
Alignment explanation
Indices: 1980137--1980198 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
1980127 TCGACAAAGA
1980137 TTTATTAGAACTGTTTATAAGTAGATTTTT
1 TTTATTAGAACTGTTTATAAGTAGATTTTT
*
1980167 TTTATTAGAAGTGTTTATAAGTAGATTTTT
1 TTTATTAGAACTGTTTATAAGTAGATTTTT
1980197 TT
1 TT
1980199 GGTATAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.55
Consensus pattern (30 bp):
TTTATTAGAACTGTTTATAAGTAGATTTTT
Found at i:1983150 original size:3 final size:3
Alignment explanation
Indices: 1983136--1983179 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
1983126 CTTTTGCCAT
* *
1983136 ATA ATA ACA ATA ATA CTA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1983180 CATAGCAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1983863 original size:2 final size:2
Alignment explanation
Indices: 1983856--1983897 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1983846 CCATTAACAC
1983856 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1983898 AATTTGCCGC
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):
TA
Found at i:1986235 original size:13 final size:13
Alignment explanation
Indices: 1986217--1986266 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
1986207 TAATTTAATT
1986217 ATAATATAAAATA
1 ATAATATAAAATA
*
1986230 ATAATATAATATA
1 ATAATATAAAATA
1986243 AT-ATATAAAATAA
1 ATAATATAAAAT-A
1986256 ATAAATATAAA
1 AT-AATATAAA
1986267 TATTAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 8 0.25
13 17 0.53
15 7 0.22
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATATAAAATA
Found at i:1986242 original size:23 final size:22
Alignment explanation
Indices: 1986201--1986274 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 22
1986191 TTTGAACAAG
*
1986201 AAAAAATAATTTAATTATAATAT
1 AAAAAATAATATAA-TATAATAT
1986224 AAAATAATAATATAATATAATAT
1 AAAA-AATAATATAATATAATAT
*
1986247 ATAAAATAA-ATAAATATAAATAT
1 AAAAAATAATAT-AATAT-AATAT
*
1986270 TAAAA
1 AAAAA
1986275 TATTAAAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
21 2 0.05
22 10 0.23
23 23 0.52
24 9 0.20
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAAAATAATATAATATAATAT
Found at i:1986283 original size:22 final size:23
Alignment explanation
Indices: 1986216--1986283 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 23
1986206 ATAATTTAAT
*
1986216 TATAATA-TAAAATAATAATATAA
1 TATAATATTAAAAT-ATAAAATAA
*
1986239 TATAATATATAAAATA-AATA-AA
1 TATAATAT-TAAAATATAAAATAA
1986261 TATAAATATTAAAATATTAAAAT
1 TAT-AATATTAAAATA-TAAAAT
1986284 TTTTATAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
22 12 0.32
23 16 0.42
24 4 0.11
25 6 0.16
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
TATAATATTAAAATATAAAATAA
Found at i:1986879 original size:5 final size:6
Alignment explanation
Indices: 1986849--1986878 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
1986839 TCCAAAATTT
1986849 TAAAAA TGAAAAA TAAAAA TAAAAA TAAAA
1 TAAAAA T-AAAAA TAAAAA TAAAAA TAAAA
1986879 TCCATATGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:1987325 original size:22 final size:22
Alignment explanation
Indices: 1987274--1987340 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
1987264 AAAATTAAAT
* * * *
1987274 AAATTTATTCGTGAACACTAAA
1 AAATATATTCATGAACAATTAA
*
1987296 TAAATATATTCATGAATAATTAA
1 -AAATATATTCATGAACAATTAA
*
1987319 AAATATATTTATGAACAATTAA
1 AAATATATTCATGAACAATTAA
1987341 TAAACTAATT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
22 20 0.54
23 17 0.46
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.36
Consensus pattern (22 bp):
AAATATATTCATGAACAATTAA
Found at i:1987503 original size:22 final size:22
Alignment explanation
Indices: 1987476--1987531 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
1987466 TAATCATACA
*
1987476 ATAAATTAATTTTAAACAA-TT
1 ATAAATAAATTTTAAACAATTT
* * *
1987497 ATTAAATGAACTTTAAATAATTT
1 A-TAAATAAATTTTAAACAATTT
1987520 ATAAATAAATTT
1 ATAAATAAATTT
1987532 ATTTATAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 1 0.04
22 24 0.86
23 3 0.11
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (22 bp):
ATAAATAAATTTTAAACAATTT
Found at i:1987617 original size:12 final size:13
Alignment explanation
Indices: 1987602--1987630 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1987592 ACCTTTAAAT
1987602 TTTATTTATTT-A
1 TTTATTTATTTAA
1987614 TTTATTTATTTAA
1 TTTATTTATTTAA
1987627 TTTA
1 TTTA
1987631 ATAAATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTATTTATTTAA
Found at i:1988528 original size:15 final size:16
Alignment explanation
Indices: 1988510--1988547 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
1988500 AAGAAAATTA
1988510 AAAAAATT-AAAAGAT
1 AAAAAATTGAAAAGAT
1988525 AAAAAATTGAAAAGAT
1 AAAAAATTGAAAAGAT
1988541 AAAAAAT
1 AAAAAAT
1988548 ATATTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (16 bp):
AAAAAATTGAAAAGAT
Found at i:1988529 original size:16 final size:17
Alignment explanation
Indices: 1988508--1988546 Score: 64
Period size: 15 Copynumber: 2.4 Consensus size: 17
1988498 AAAAGAAAAT
1988508 TAAAAAAATT-AAAAGA
1 TAAAAAAATTGAAAAGA
1988524 T-AAAAAATTGAAAAGA
1 TAAAAAAATTGAAAAGA
1988540 TAAAAAA
1 TAAAAAA
1988547 TATATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.38
16 8 0.38
17 5 0.24
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (17 bp):
TAAAAAAATTGAAAAGA
Found at i:1989400 original size:26 final size:26
Alignment explanation
Indices: 1989369--1989419 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
1989359 TATATTATCG
* *
1989369 ATATATTAAATACGAATTTAATAAAT
1 ATATATTAAAAACGAATTCAATAAAT
*
1989395 ATATATTAAAAATGAATTCAATAAA
1 ATATATTAAAAACGAATTCAATAAA
1989420 GTCTGCATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (26 bp):
ATATATTAAAAACGAATTCAATAAAT
Found at i:1990191 original size:30 final size:29
Alignment explanation
Indices: 1990149--1990205 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
1990139 AAATTTGAGT
1990149 TATTATAAATTTAAATT-ATTTTAAATTCA
1 TATTATAAATTT-AATTAATTTTAAATTCA
*
1990178 TATTAATACATTTAATTAATTTTAAATT
1 TATT-ATAAATTTAATTAATTTTAAATT
1990206 AATTAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (29 bp):
TATTATAAATTTAATTAATTTTAAATTCA
Found at i:1990232 original size:22 final size:21
Alignment explanation
Indices: 1990193--1990237 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
1990183 ATACATTTAA
*
1990193 TTAATTTTAAATTAATTAAAT
1 TTAATTTAAAATTAATTAAAT
* *
1990214 TTAATGTTAAAATTTATTATAT
1 TTAAT-TTAAAATTAATTAAAT
1990236 TT
1 TT
1990238 TATTATTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TTAATTTAAAATTAATTAAAT
Found at i:1990522 original size:102 final size:95
Alignment explanation
Indices: 1990342--1990525 Score: 235
Period size: 102 Copynumber: 1.9 Consensus size: 95
1990332 TTCTTTTAAC
* * *
1990342 TATAAACAAACTTTTGGCAAAATAAAACTAAAAACAAATTAATTGTGTATTTTTAACTTTAAAAA
1 TATAAACAAAATTTTGGCAAAAAAAAACTAAAAACAAATTAAGTGTGTATTTTTAACTTTAAAAA
1990407 AAAAAACTTAAGAGTTTAGTTTGCTCTAAT
66 AAAAAACTTAAGAGTTTAGTTTGCTCTAAT
**
1990437 TATAAACAAAATTTTGGCAAAAAAAAAAAACTAAAAAACAAACTTATAGTGTCGT-TTATTTATT
1 TATAAACAAAATTTTGGC---AAAAAAAAACT-AAAAACAAA-TTA-AGTGT-GTATT-TTTAAC
*
1990501 TTTAAAAAAAAAAGCTTAAGAGTTT
58 TTTAAAAAAAAAAACTTAAGAGTTT
1990526 GGTTGTTTCA
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
95 17 0.23
98 10 0.13
99 9 0.12
100 3 0.04
101 6 0.08
102 30 0.40
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (95 bp):
TATAAACAAAATTTTGGCAAAAAAAAACTAAAAACAAATTAAGTGTGTATTTTTAACTTTAAAAA
AAAAAACTTAAGAGTTTAGTTTGCTCTAAT
Found at i:1990677 original size:20 final size:20
Alignment explanation
Indices: 1990652--1990694 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
1990642 TTAACATATT
1990652 AATTTTATTAAATATATTTA
1 AATTTTATTAAATATATTTA
*
1990672 AATTTTATTATATATATTTA
1 AATTTTATTAAATATATTTA
1990692 AAT
1 AAT
1990695 GTATTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AATTTTATTAAATATATTTA
Found at i:1990706 original size:5 final size:5
Alignment explanation
Indices: 1990696--1990745 Score: 52
Period size: 5 Copynumber: 10.4 Consensus size: 5
1990686 TATTTAAATG
* *
1990696 TATTA TATTA TATT- TATTTA TATTA TTTTA TATT- TATTA -AATA TATTA
1 TATTA TATTA TATTA TA-TTA TATTA TATTA TATTA TATTA TATTA TATTA
1990744 TA
1 TA
1990746 AAACTATTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
4 9 0.24
5 26 0.70
6 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:1990707 original size:20 final size:20
Alignment explanation
Indices: 1990664--1990745 Score: 76
Period size: 20 Copynumber: 4.0 Consensus size: 20
1990654 TTTTATTAAA
*
1990664 TATATTTAAATTTTATTATA-
1 TATATTTAAA-TATATTATAT
*
1990684 TATATTTAAATGTATTATAT
1 TATATTTAAATATATTATAT
** *
1990704 TATATTTATTTATATTATTT
1 TATATTTAAATATATTATAT
1990724 TATATTTATTAAATATATTATA
1 TATA--T-TTAAATATATTATA
1990746 AAACTATTGT
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
19 8 0.16
20 30 0.60
22 1 0.02
23 11 0.22
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (20 bp):
TATATTTAAATATATTATAT
Found at i:1993835 original size:22 final size:22
Alignment explanation
Indices: 1993785--1993878 Score: 60
Period size: 21 Copynumber: 4.4 Consensus size: 22
1993775 AAATTTATAT
**
1993785 AATATAAATTATTTAATATATTA
1 AATATAAA-TATAAAATATATTA
1993808 AA-ATAAATATAAAATAT-TTGA
1 AATATAAATATAAAATATATT-A
*
1993829 AATAT-AAT-TATAAT-TA-T-
1 AATATAAATATAAAATATATTA
1993846 AATA-AAATATATAAATATAATATA
1 AATATAAATATA-AAATAT-AT-TA
1993870 AATATAAAT
1 AATATAAAT
1993879 TATGAAATCT
Statistics
Matches: 55, Mismatches: 4, Indels: 22
0.68 0.05 0.27
Matches are distributed among these distances:
17 7 0.13
18 2 0.04
19 5 0.09
20 8 0.15
21 15 0.27
22 7 0.13
23 3 0.05
24 4 0.07
25 4 0.07
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (22 bp):
AATATAAATATAAAATATATTA
Found at i:1993864 original size:18 final size:19
Alignment explanation
Indices: 1993781--1993875 Score: 72
Period size: 18 Copynumber: 4.8 Consensus size: 19
1993771 TTTAAAATTT
*
1993781 ATATAATATAAATTATTTAA
1 ATATAATATAAA-TATATAA
*
1993801 TATATTAAAATAAATATA-AA
1 -ATA-TAATATAAATATATAA
1993821 ATATTTGAA-ATATAAT-TATAA
1 ATA--T-AATATA-AATATATAA
*
1993842 TTATAATA-AAATATATAA
1 ATATAATATAAATATATAA
1993860 ATATAATATAAATATA
1 ATATAATATAAATATA
1993876 AATTATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
17 3 0.05
18 15 0.24
19 12 0.19
20 9 0.15
21 15 0.24
22 8 0.13
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (19 bp):
ATATAATATAAATATATAA
Found at i:1993873 original size:24 final size:25
Alignment explanation
Indices: 1993830--1993886 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 25
1993820 AATATTTGAA
*
1993830 ATATAATTATAATTATAATA-AAAT
1 ATATAAATATAATTATAATATAAAT
1993854 ATATAAATATAA-TATAAATATAAAT
1 ATATAAATATAATTAT-AATATAAAT
1993879 -TATGAAAT
1 ATAT-AAAT
1993887 CTAAGTAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 3 0.10
24 18 0.62
25 8 0.28
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (25 bp):
ATATAAATATAATTATAATATAAAT
Found at i:1994668 original size:20 final size:20
Alignment explanation
Indices: 1994643--1994682 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1994633 CAAATTTAAT
1994643 CTTAAATTGATTTTTGAAAA
1 CTTAAATTGATTTTTGAAAA
1994663 CTTAAATTGATTTTTGAAAA
1 CTTAAATTGATTTTTGAAAA
1994683 GATCTAATTG
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:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (20 bp):
CTTAAATTGATTTTTGAAAA
Found at i:1999574 original size:27 final size:26
Alignment explanation
Indices: 1999543--1999609 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
1999533 TGAAAAGAAC
* *
1999543 AAATTTAATTTTCTTATAAAAATTTT
1 AAATTTAATTTTATGATAAAAATTTT
***
1999569 ATAATTTAAAAATATGATAAAAATTTT
1 A-AATTTAATTTTATGATAAAAATTTT
1999596 AAATTTAAATTTTA
1 AAATTT-AATTTTA
1999610 AATTTATTAA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
26 6 0.19
27 25 0.81
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (26 bp):
AAATTTAATTTTATGATAAAAATTTT
Found at i:1999607 original size:13 final size:13
Alignment explanation
Indices: 1999589--1999615 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1999579 AATATGATAA
1999589 AAATTTTAAATTT
1 AAATTTTAAATTT
1999602 AAATTTTAAATTT
1 AAATTTTAAATTT
1999615 A
1 A
1999616 TTAAAATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AAATTTTAAATTT
Found at i:1999857 original size:20 final size:20
Alignment explanation
Indices: 1999824--1999864 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1999814 TTATTTTAAT
* *
1999824 TTAATTATATTTTTAAAAAA
1 TTAATAATAATTTTAAAAAA
*
1999844 TTAATAATAATTTTAAGAAA
1 TTAATAATAATTTTAAAAAA
1999864 T
1 T
1999865 AATGGTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
TTAATAATAATTTTAAAAAA
Found at i:2000223 original size:13 final size:13
Alignment explanation
Indices: 2000183--2000232 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
2000173 AACAATTCAA
2000183 ATTTTAATTAAATT
1 ATTTTAA-TAAATT
*
2000197 A-ATT-ATATAATT
1 ATTTTAATA-AATT
2000209 ATTTTAATAAATT
1 ATTTTAATAAATT
2000222 ATATTTAATAA
1 AT-TTTAATAA
2000233 TTTTTAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
11 2 0.07
12 6 0.20
13 10 0.33
14 12 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTAATAAATT
Found at i:2000526 original size:2 final size:2
Alignment explanation
Indices: 2000519--2000544 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2000509 TTATATGTAC
2000519 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
2000545 TATTGCTCTT
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:2001639 original size:13 final size:14
Alignment explanation
Indices: 2001623--2001656 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2001613 ATTTTTAATT
2001623 TTATTAAA-TTATA
1 TTATTAAATTTATA
*
2001636 TTATTAAATTTTTA
1 TTATTAAATTTATA
2001650 TTATTAA
1 TTATTAA
2001657 TAAATTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATTAAATTTATA
Found at i:2002170 original size:16 final size:16
Alignment explanation
Indices: 2002151--2002195 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
2002141 CATTCAATTT
2002151 AAATTAAATTAATTAA
1 AAATTAAATTAATTAA
*
2002167 AAA-TAAA-TATTTAA
1 AAATTAAATTAATTAA
*
2002181 AAATTTAATTAATTA
1 AAATTAAATTAATTA
2002196 CAATAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 9 0.38
15 7 0.29
16 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATTAAATTAATTAA
Found at i:2002429 original size:27 final size:27
Alignment explanation
Indices: 2002399--2002469 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
2002389 TGAATTAAAT
2002399 TTTAAAAAATTTTAATATT-TATTTCTA
1 TTTAAAAAATTTTAATATTATATTT-TA
* * *
2002426 TTTATAAAATTTAAAAATTAATATTTTA
1 TTTAAAAAATTTTAATATT-ATATTTTA
*
2002454 TTTAAAAAATATTAAT
1 TTTAAAAAATTTTAAT
2002470 TTTTTTATCC
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
27 16 0.46
28 14 0.40
29 5 0.14
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (27 bp):
TTTAAAAAATTTTAATATTATATTTTA
Found at i:2003786 original size:16 final size:16
Alignment explanation
Indices: 2003765--2003836 Score: 85
Period size: 16 Copynumber: 4.5 Consensus size: 16
2003755 ATTATCTGGG
2003765 TCATTTCGGGTTCAGA
1 TCATTTCGGGTTCAGA
*
2003781 TCATTTCAGGTTC-GA
1 TCATTTCGGGTTCAGA
* *
2003796 TTCATTTCAGGTTCGGA
1 -TCATTTCGGGTTCAGA
2003813 TCATTTCGGGTTCATG-
1 TCATTTCGGGTTCA-GA
2003829 TCATTTCG
1 TCATTTCG
2003837 AGTTTGGATA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
15 2 0.04
16 45 0.90
17 3 0.06
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (16 bp):
TCATTTCGGGTTCAGA
Found at i:2003803 original size:32 final size:32
Alignment explanation
Indices: 2003764--2003836 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
2003754 AATTATCTGG
2003764 GTCATTTCGGGTTCAGATCATTTCAGGTTCGAT
1 GTCATTTCGGGTTCAGATCATTTCAGGTTC-AT
* * *
2003797 -TCATTTCAGGTTCGGATCATTTCGGGTTCAT
1 GTCATTTCGGGTTCAGATCATTTCAGGTTCAT
2003828 GTCATTTCG
1 GTCATTTCG
2003837 AGTTTGGATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 2 0.06
32 33 0.94
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.41
Consensus pattern (32 bp):
GTCATTTCGGGTTCAGATCATTTCAGGTTCAT
Found at i:2004553 original size:15 final size:16
Alignment explanation
Indices: 2004535--2004564 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2004525 TAGATGCAGG
2004535 TATTATAATT-TATTA
1 TATTATAATTATATTA
2004550 TATTATAATTATATT
1 TATTATAATTATATT
2004565 TAAAATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTATAATTATATTA
Found at i:2004601 original size:8 final size:8
Alignment explanation
Indices: 2004588--2004645 Score: 57
Period size: 8 Copynumber: 7.4 Consensus size: 8
2004578 ATTTATATAA
2004588 ATTTTAAT
1 ATTTTAAT
2004596 ATTTTAAT
1 ATTTTAAT
2004604 ATTTTAAT
1 ATTTTAAT
2004612 -TTTATAA-
1 ATTT-TAAT
*
2004619 ATTTTAAA
1 ATTTTAAT
* *
2004627 ATATTCAT
1 ATTTTAAT
*
2004635 ATATTAAT
1 ATTTTAAT
2004643 ATT
1 ATT
2004646 ATATTTATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
7 6 0.14
8 36 0.86
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (8 bp):
ATTTTAAT
Found at i:2004616 original size:33 final size:32
Alignment explanation
Indices: 2004578--2004649 Score: 92
Period size: 31 Copynumber: 2.2 Consensus size: 32
2004568 AATAATTTAC
* * *
2004578 ATTTATATAAATTTTAATATTTTAATATTTTA
1 ATTTATATAAATTTTAAAATATTAATATATTA
*
2004610 ATTT-TATAAATTTTAAAATATTCATATATTA
1 ATTTATATAAATTTTAAAATATTAATATATTA
2004641 ATATTATAT
1 AT-TTATAT
2004650 TTATATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 25 0.74
32 6 0.18
33 3 0.09
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (32 bp):
ATTTATATAAATTTTAAAATATTAATATATTA
Found at i:2004621 original size:31 final size:31
Alignment explanation
Indices: 2004568--2004648 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 31
2004558 TTATATTTAA
* * *
2004568 AATAATTTACATTTATATAAATTTTAATATTTT
1 AATATTTTA-ATTT-TATAAATTTTAAAATATT
2004601 AATATTTTAATTTTATAAATTTTAAAATATT
1 AATATTTTAATTTTATAAATTTTAAAATATT
* * *
2004632 CATATATTAATATTATA
1 AATATTTTAATTTTATA
2004649 TTTATATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 30 0.71
32 4 0.10
33 8 0.19
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (31 bp):
AATATTTTAATTTTATAAATTTTAAAATATT
Found at i:2004727 original size:40 final size:39
Alignment explanation
Indices: 2004634--2004727 Score: 102
Period size: 39 Copynumber: 2.4 Consensus size: 39
2004624 AAAATATTCA
*
2004634 TATAT-TAATATTATATTTATATTTTTTTTAAATTATAT
1 TATATCTAATATTTTATTTATATTTTTTTTAAATTATAT
* * * *
2004672 TATATTTTATCTTTTATTT-TAATTTTTTTTATAATTATTT
1 TATATCTAATATTTTATTTAT-ATTTTTTTTA-AATTATAT
*
2004712 TATGTCTAATATTTTA
1 TATATCTAATATTTTA
2004728 GGCATACAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
38 6 0.13
39 20 0.44
40 19 0.42
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (39 bp):
TATATCTAATATTTTATTTATATTTTTTTTAAATTATAT
Found at i:2005339 original size:5 final size:6
Alignment explanation
Indices: 2005250--2005339 Score: 66
Period size: 6 Copynumber: 15.2 Consensus size: 6
2005240 TAAAATTTAT
*
2005250 ATATAA ATATTTAA AT-TAA A-ATAA ATATAA ATATTGAA ATATAA TTATAA
1 ATATAA ATA--TAA ATATAA ATATAA ATATAA ATA-T-AA ATATAA ATATAA
* *
2005300 TTAT-A ATA-AA ATAGATA ATAT-A ATATAA ATATAA AT-TAA A
1 ATATAA ATATAA ATATA-A ATATAA ATATAA ATATAA ATATAA A
2005340 ATCTAAGTAG
Statistics
Matches: 71, Mismatches: 3, Indels: 21
0.75 0.03 0.22
Matches are distributed among these distances:
5 24 0.34
6 31 0.44
7 6 0.08
8 10 0.14
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (6 bp):
ATATAA
Found at i:2005952 original size:14 final size:15
Alignment explanation
Indices: 2005928--2005956 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2005918 TTTATGTATA
2005928 AATCTTAAATCGATT
1 AATCTTAAATCGATT
2005943 AATC-TAAATCGATT
1 AATCTTAAATCGATT
2005957 TTATAGAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (15 bp):
AATCTTAAATCGATT
Found at i:2006103 original size:19 final size:19
Alignment explanation
Indices: 2006079--2006116 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2006069 CCAATTTAAT
2006079 CTTAATTGATTTTTGAAAA
1 CTTAATTGATTTTTGAAAA
2006098 CTTAATTGATTTTTGAAAA
1 CTTAATTGATTTTTGAAAA
2006117 GATCTCAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (19 bp):
CTTAATTGATTTTTGAAAA
Found at i:2010986 original size:15 final size:15
Alignment explanation
Indices: 2010966--2011002 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
2010956 AAATATGATG
2010966 AAAAATTTTAAATTT
1 AAAAATTTTAAATTT
2010981 AAAAA-TTTAAATTT
1 AAAAATTTTAAATTT
2010995 ATAAAATT
1 A-AAAATT
2011003 ACTTAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 10 0.50
15 9 0.45
16 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AAAAATTTTAAATTT
Found at i:2010989 original size:14 final size:14
Alignment explanation
Indices: 2010966--2011002 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
2010956 AAATATGATG
2010966 AAAAATTTTAAATTT
1 AAAAA-TTTAAATTT
2010981 AAAAATTTAAATTT
1 AAAAATTTAAATTT
2010995 ATAAAATT
1 A-AAAATT
2011003 ACTTAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAAAATTTAAATTT
Found at i:2011026 original size:18 final size:17
Alignment explanation
Indices: 2011005--2011043 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
2010995 ATAAAATTAC
*
2011005 TTAAAAAATTTATATAAA
1 TTAAAAAACTTA-ATAAA
*
2011023 TTAAAAAACTTAATTAA
1 TTAAAAAACTTAATAAA
2011040 TTAA
1 TTAA
2011044 CTTCAGGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAAACTTAATAAA
Found at i:2011582 original size:25 final size:27
Alignment explanation
Indices: 2011550--2011620 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 27
2011540 CAAACATTCA
2011550 AATTTTAATTAAATTTATTAATG-ATT
1 AATTTTAATTAAATTTATTAATGTATT
* *
2011576 -ATTTTAA-TAAAATTATTTAATGTTTT
1 AATTTTAATTAAATTTA-TTAATGTATT
*
2011602 AATTTTATATAAAATTTAT
1 AATTTTA-ATTAAATTTAT
2011621 AATTTTACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
24 7 0.19
25 13 0.36
26 2 0.06
27 6 0.17
28 2 0.06
29 6 0.17
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (27 bp):
AATTTTAATTAAATTTATTAATGTATT
Found at i:2012450 original size:15 final size:14
Alignment explanation
Indices: 2012430--2012465 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
2012420 ATACAATATC
*
2012430 TAAATTTAATTAATA
1 TAAATTAAATTAA-A
2012445 TAAATTAAATTAAA
1 TAAATTAAATTAAA
2012459 TAAATTA
1 TAAATTA
2012466 TTTAACATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TAAATTAAATTAAA
Found at i:2016655 original size:28 final size:28
Alignment explanation
Indices: 2016621--2016717 Score: 76
Period size: 28 Copynumber: 3.4 Consensus size: 28
2016611 AAATTTATAT
2016621 AATATAAATTATTTAATATATTAAAATA
1 AATATAAATTATTTAATATATTAAAATA
* *
2016649 AATATAAAATATTTGAAATATAATTATAATTA
1 AATATAAATTATTT--AATAT-ATTA-AAATA
** *
2016681 TAATA-AAA-TAGATAA-ATA-TAATATA
1 -AATATAAATTATTTAATATATTAAAATA
2016706 AATATAAATTAT
1 AATATAAATTAT
2016718 GAAATCTAAG
Statistics
Matches: 55, Mismatches: 7, Indels: 16
0.71 0.09 0.21
Matches are distributed among these distances:
24 4 0.07
25 6 0.11
26 4 0.07
27 1 0.02
28 15 0.27
29 2 0.04
30 5 0.09
31 7 0.13
32 7 0.13
33 4 0.07
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (28 bp):
AATATAAATTATTTAATATATTAAAATA
Found at i:2016671 original size:22 final size:22
Alignment explanation
Indices: 2016621--2016714 Score: 56
Period size: 21 Copynumber: 4.4 Consensus size: 22
2016611 AAATTTATAT
**
2016621 AATATAAATTATTTAATATATTA
1 AATATAAA-TATAAAATATATTA
2016644 AA-ATAAATATAAAATAT-TTGA
1 AATATAAATATAAAATATATT-A
* * *
2016665 AATATAATTAT-AATTATAATA
1 AATATAAATATAAAATATATTA
* *
2016686 AA-ATAGATA-AATATA-ATATA
1 AATATAAATATAAAATATAT-TA
2016706 AATATAAAT
1 AATATAAAT
2016715 TATGAAATCT
Statistics
Matches: 54, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
19 1 0.02
20 14 0.26
21 24 0.44
22 13 0.24
23 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
AATATAAATATAAAATATATTA
Found at i:2016703 original size:13 final size:11
Alignment explanation
Indices: 2016617--2016712 Score: 52
Period size: 9 Copynumber: 9.5 Consensus size: 11
2016607 TTTAAAATTT
2016617 ATATAATATAA
1 ATATAATATAA
*
2016628 AT-T-AT-TTA
1 ATATAATATAA
*
2016636 ATATATTA-AA
1 ATATAATATAA
2016646 ATA-AATATAA
1 ATATAATATAA
*
2016656 A-AT-ATTTGAA
1 ATATAATAT-AA
2016666 ATATAATTATAA
1 ATATAA-TATAA
*
2016678 TTAT-A-ATAA
1 ATATAATATAA
*
2016687 A-AT-AGATAA
1 ATATAATATAA
2016696 ATATAATATAA
1 ATATAATATAA
2016707 ATATAA
1 ATATAA
2016713 ATTATGAAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 24
0.66 0.09 0.25
Matches are distributed among these distances:
8 7 0.11
9 19 0.30
10 14 0.22
11 16 0.25
12 6 0.09
13 2 0.03
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
ATATAATATAA
Found at i:2016709 original size:24 final size:25
Alignment explanation
Indices: 2016668--2016714 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
2016658 TATTTGAAAT
*
2016668 ATAATTATAATTATAATA-AAATAG
1 ATAAATATAATTATAATATAAATAG
2016692 ATAAATATAA-TATAAATATAAAT
1 ATAAATATAATTAT-AATATAAAT
2016715 TATGAAATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 3 0.15
24 13 0.65
25 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (25 bp):
ATAAATATAATTATAATATAAATAG
Found at i:2017346 original size:15 final size:16
Alignment explanation
Indices: 2017321--2017351 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
2017311 TTATGATATA
2017321 AATCTTAAATCGATTT
1 AATCTTAAATCGATTT
2017337 AATC-TAAATCGATTT
1 AATCTTAAATCGATTT
2017352 TTATAGAATA
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:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (16 bp):
AATCTTAAATCGATTT
Found at i:2017504 original size:20 final size:20
Alignment explanation
Indices: 2017479--2017518 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2017469 CAAATTTAAT
2017479 CTTAAATTGATTTTTGAAAA
1 CTTAAATTGATTTTTGAAAA
2017499 CTTAAATTGATTTTTGAAAA
1 CTTAAATTGATTTTTGAAAA
2017519 GATCTAATTG
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:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (20 bp):
CTTAAATTGATTTTTGAAAA
Found at i:2022083 original size:19 final size:20
Alignment explanation
Indices: 2022059--2022100 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
2022049 GATCCTAATC
2022059 AAAAATATT-TTATT-ATATT
1 AAAAATATTATT-TTAATATT
2022078 AAAAATATTATTTTAATATT
1 AAAAATATTATTTTAATATT
2022098 AAA
1 AAA
2022101 CTTTTGACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AAAAATATTATTTTAATATT
Found at i:2022443 original size:27 final size:26
Alignment explanation
Indices: 2022412--2022478 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
2022402 TGAAAAGAAC
* *
2022412 AAATTTAATTTTCTTATAAAAATTTT
1 AAATTTAATTTTATGATAAAAATTTT
***
2022438 ATAATTTAAAAATATGATAAAAATTTT
1 A-AATTTAATTTTATGATAAAAATTTT
2022465 AAATTTAAATTTTA
1 AAATTT-AATTTTA
2022479 AATTTATTAA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
26 6 0.19
27 25 0.81
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (26 bp):
AAATTTAATTTTATGATAAAAATTTT
Found at i:2022476 original size:13 final size:13
Alignment explanation
Indices: 2022458--2022484 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2022448 AATATGATAA
2022458 AAATTTTAAATTT
1 AAATTTTAAATTT
2022471 AAATTTTAAATTT
1 AAATTTTAAATTT
2022484 A
1 A
2022485 TTAAAATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AAATTTTAAATTT
Found at i:2023118 original size:31 final size:28
Alignment explanation
Indices: 2023080--2023136 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 28
2023070 TTATATGATT
2023080 ATTTTAATAAAATTATATTTAATAATTTTTA
1 ATTTTAATAAAA--A-ATTTAATAATTTTTA
*
2023111 ATTTTAATATAAAATTTAATAATTTT
1 ATTTTAATAAAAAATTTAATAATTTT
2023137 ACATACAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 13 0.52
29 1 0.04
31 11 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
ATTTTAATAAAAAATTTAATAATTTTTA
Found at i:2023395 original size:2 final size:2
Alignment explanation
Indices: 2023388--2023419 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2023378 TTATATGTAC
2023388 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
2023420 TATTGCTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2023856 original size:33 final size:33
Alignment explanation
Indices: 2023792--2023856 Score: 87
Period size: 36 Copynumber: 1.9 Consensus size: 33
2023782 TATAATTTAA
*
2023792 ATTTTTTATTTAAAGTAATATTAATCTAAAATTTT
1 ATTTTTTATTTAAAATAATATTAA--TAAAATTTT
2023827 ATTTTATTATTTAAAATAATATTAA-AAAAT
1 ATTTT-TTATTTAAAATAATATTAATAAAAT
2023857 AAAAATTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 5 0.18
35 5 0.18
36 18 0.64
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (33 bp):
ATTTTTTATTTAAAATAATATTAATAAAATTTT
Found at i:2024524 original size:13 final size:14
Alignment explanation
Indices: 2024508--2024541 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2024498 ATTTTTAATT
2024508 TTATTAAA-TTATA
1 TTATTAAATTTATA
*
2024521 TTATTAAATTTTTA
1 TTATTAAATTTATA
2024535 TTATTAA
1 TTATTAA
2024542 TAAATTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATTAAATTTATA
Found at i:2025055 original size:16 final size:16
Alignment explanation
Indices: 2025036--2025080 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
2025026 CGTTCAATTT
2025036 AAATTAAATTAATTAA
1 AAATTAAATTAATTAA
*
2025052 AAA-TAAA-TATTTAA
1 AAATTAAATTAATTAA
*
2025066 AAATTTAATTAATTA
1 AAATTAAATTAATTA
2025081 CAATAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 9 0.38
15 7 0.29
16 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATTAAATTAATTAA
Found at i:2026734 original size:16 final size:16
Alignment explanation
Indices: 2026715--2026753 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2026705 CAGGTTCGGG
2026715 TCATTTCGAGTTCAGA
1 TCATTTCGAGTTCAGA
* * *
2026731 TCATTTTGGGTTTAGA
1 TCATTTCGAGTTCAGA
2026747 TCATTTC
1 TCATTTC
2026754 AGATTTCGGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.46
Consensus pattern (16 bp):
TCATTTCGAGTTCAGA
Found at i:2027488 original size:15 final size:16
Alignment explanation
Indices: 2027468--2027497 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2027458 ATATTCAGTT
2027468 TATTATAATT-TATTA
1 TATTATAATTATATTA
2027483 TATTATAATTATATT
1 TATTATAATTATATT
2027498 TAAAATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTATAATTATATTA
Found at i:2027534 original size:8 final size:8
Alignment explanation
Indices: 2027521--2027578 Score: 57
Period size: 8 Copynumber: 7.4 Consensus size: 8
2027511 ATTTATATAA
2027521 ATTTTAAT
1 ATTTTAAT
2027529 ATTTTAAT
1 ATTTTAAT
2027537 ATTTTAAT
1 ATTTTAAT
2027545 -TTTATAA-
1 ATTT-TAAT
*
2027552 ATTTTAAA
1 ATTTTAAT
* *
2027560 ATATTCAT
1 ATTTTAAT
*
2027568 ATATTAAT
1 ATTTTAAT
2027576 ATT
1 ATT
2027579 ATATTTATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
7 6 0.14
8 36 0.86
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (8 bp):
ATTTTAAT
Found at i:2027549 original size:33 final size:32
Alignment explanation
Indices: 2027511--2027582 Score: 92
Period size: 31 Copynumber: 2.2 Consensus size: 32
2027501 AATAATTTAC
* * *
2027511 ATTTATATAAATTTTAATATTTTAATATTTTA
1 ATTTATATAAATTTTAAAATATTAATATATTA
*
2027543 ATTT-TATAAATTTTAAAATATTCATATATTA
1 ATTTATATAAATTTTAAAATATTAATATATTA
2027574 ATATTATAT
1 AT-TTATAT
2027583 TTATATTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 25 0.74
32 6 0.18
33 3 0.09
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (32 bp):
ATTTATATAAATTTTAAAATATTAATATATTA
Found at i:2027554 original size:31 final size:31
Alignment explanation
Indices: 2027501--2027581 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 31
2027491 TTATATTTAA
* * *
2027501 AATAATTTACATTTATATAAATTTTAATATTTT
1 AATATTTTA-ATTT-TATAAATTTTAAAATATT
2027534 AATATTTTAATTTTATAAATTTTAAAATATT
1 AATATTTTAATTTTATAAATTTTAAAATATT
* * *
2027565 CATATATTAATATTATA
1 AATATTTTAATTTTATA
2027582 TTTATATTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 30 0.71
32 4 0.10
33 8 0.19
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (31 bp):
AATATTTTAATTTTATAAATTTTAAAATATT
Found at i:2027615 original size:12 final size:12
Alignment explanation
Indices: 2027600--2027648 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
2027590 ATTTTTTAAA
2027600 TTATATTATATT
1 TTATATTATATT
* *
2027612 TTATCTTTTATT
1 TTATATTATATT
2027624 TTA-ATTAT-TT
1 TTATATTATATT
*
2027634 TTATAAT-TATT
1 TTATATTATATT
2027645 TTAT
1 TTAT
2027649 GTATATATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
10 6 0.20
11 11 0.37
12 13 0.43
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (12 bp):
TTATATTATATT
Found at i:2027799 original size:20 final size:20
Alignment explanation
Indices: 2027776--2027816 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
2027766 GTATTATTTT
*
2027776 TATTATA-ATTATATTTAAAA
1 TATTATATATT-TATATAAAA
2027796 TATTATATATTTATATAAAA
1 TATTATATATTTATATAAAA
2027816 T
1 T
2027817 TTAATAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTATATATTTATATAAAA
Found at i:2027917 original size:13 final size:13
Alignment explanation
Indices: 2027899--2027924 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2027889 ATTTTTATCA
2027899 ATATTTATATTTT
1 ATATTTATATTTT
2027912 ATATTTATATTTT
1 ATATTTATATTTT
2027925 TAAATATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATATTTATATTTT
Found at i:2028293 original size:5 final size:5
Alignment explanation
Indices: 2028275--2028366 Score: 61
Period size: 5 Copynumber: 19.2 Consensus size: 5
2028265 ATTGAAGATT
* * *
2028275 ATATG ATATAA ATATA ATATA ACA-A ATA-A TTA-A ATAATA ATATA ATATA
1 ATATA ATAT-A ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA
* * * *
2028324 ACATA ATATA ATAT- ATA-A ATATA TTAAA AT-TT ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA A
2028367 ATTATAAATC
Statistics
Matches: 68, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
4 16 0.24
5 45 0.66
6 7 0.10
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (5 bp):
ATATA
Found at i:2028344 original size:28 final size:28
Alignment explanation
Indices: 2028280--2028346 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 28
2028270 AGATTATATG
2028280 ATATAAATATAATATAACAAATAATTAA
1 ATATAAATATAATATAACAAATAATTAA
2028308 ATA-ATAATATAATATAAC--ATAATATAA
1 ATATA-AATATAATATAACAAATAAT-TAA
2028335 TATATAAATATA
1 -ATATAAATATA
2028347 TTAAAATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
26 5 0.14
27 4 0.11
28 25 0.71
29 1 0.03
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (28 bp):
ATATAAATATAATATAACAAATAATTAA
Found at i:2028363 original size:32 final size:33
Alignment explanation
Indices: 2028326--2028417 Score: 116
Period size: 32 Copynumber: 2.8 Consensus size: 33
2028316 ATAATATAAC
2028326 ATAATATAATA-TATAAATATATTAAAATTTAT
1 ATAATATAATATTATAAATATATTAAAATTTAT
*
2028358 ATAATATAA-ATTATAAATCTATTAAAATTTAT
1 ATAATATAATATTATAAATATATTAAAATTTAT
* *
2028390 AAAAAATATAATATTTTAAATATGATTA
1 --ATAATATAATATTATAAATAT-ATTA
2028418 TAACACATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
31 1 0.02
32 29 0.57
34 8 0.16
35 9 0.18
36 4 0.08
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (33 bp):
ATAATATAATATTATAAATATATTAAAATTTAT
Found at i:2029395 original size:13 final size:12
Alignment explanation
Indices: 2029366--2029395 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
2029356 ATAAAAAAAT
2029366 TTAAAAATATTA
1 TTAAAAATATTA
2029378 TTAAAAATATTA
1 TTAAAAATATTA
2029390 TCTAAA
1 T-TAAA
2029396 TTAATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (12 bp):
TTAAAAATATTA
Found at i:2029406 original size:32 final size:32
Alignment explanation
Indices: 2029369--2029442 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
2029359 AAAAAATTTA
2029369 AAAATATTATT-AAAAATA-TTATCTAAATTAAT
1 AAAATATTATTCAAAAATAGTT-TCTAAA-TAAT
* ** *
2029401 AAAATATGATTCAAATTTAGTTTTTAAATAAT
1 AAAATATTATTCAAAAATAGTTTCTAAATAAT
2029433 AAAATATTAT
1 AAAATATTAT
2029443 AAATTAACTA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
32 23 0.66
33 10 0.29
34 2 0.06
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (32 bp):
AAAATATTATTCAAAAATAGTTTCTAAATAAT
Found at i:2029850 original size:4 final size:4
Alignment explanation
Indices: 2029843--2029868 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2029833 TATTTAAAAT
2029843 TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TT
2029869 TTAATATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:2029850 original size:11 final size:13
Alignment explanation
Indices: 2029820--2029881 Score: 55
Period size: 12 Copynumber: 5.2 Consensus size: 13
2029810 CCATGCTTGA
2029820 TAATTAATATATT
1 TAATTAATATATT
*
2029833 TATTTAA-A-ATT
1 TAATTAATATATT
*
2029844 TAATTAAT-TAAT
1 TAATTAATATATT
*
2029856 TAATTAAT-TAAT
1 TAATTAATATATT
2029868 T--TTAATATATT
1 TAATTAATATATT
2029879 TAA
1 TAA
2029882 AATTTACGTC
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
10 5 0.12
11 13 0.32
12 16 0.40
13 6 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TAATTAATATATT
Found at i:2031462 original size:21 final size:21
Alignment explanation
Indices: 2031424--2031465 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2031414 TTTATTAAAT
2031424 ATTAATTAAATATATAAATTA
1 ATTAATTAAATATATAAATTA
*
2031445 ATTAAGTTAAAT-TTTAAATTA
1 ATTAA-TTAAATATATAAATTA
2031466 TTATTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
ATTAATTAAATATATAAATTA
Found at i:2031655 original size:3 final size:3
Alignment explanation
Indices: 2031647--2031690 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
2031637 CCCTTAAGGC
2031647 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2031691 CACAAATAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2031862 original size:18 final size:17
Alignment explanation
Indices: 2031839--2031877 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
2031829 AAAATTAATC
*
2031839 AAAATAAAATATGATATA
1 AAAATAAAAT-TAATATA
*
2031857 AAAATAATATTAATATA
1 AAAATAAAATTAATATA
2031874 AAAA
1 AAAA
2031878 ATATTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (17 bp):
AAAATAAAATTAATATA
Found at i:2033771 original size:16 final size:16
Alignment explanation
Indices: 2033750--2033783 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2033740 TAAAAAAAAT
*
2033750 TATAATAAGTATTAAA
1 TATAATAAATATTAAA
*
2033766 TATAATAAATATTTAA
1 TATAATAAATATTAAA
2033782 TA
1 TA
2033784 AAAGTTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
TATAATAAATATTAAA
Found at i:2034995 original size:5 final size:5
Alignment explanation
Indices: 2034985--2035010 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2034975 CAAACCCCAC
2034985 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
2035011 CAGTATTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:2036364 original size:23 final size:24
Alignment explanation
Indices: 2036314--2036365 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 24
2036304 TTTTAATTTT
*
2036314 TTAAATATAAAAAAAATTGTAATA
1 TTAAAAATAAAAAAAATTGTAATA
2036338 -TAAAAAT-AAAAAAATT-TAAGTA
1 TTAAAAATAAAAAAAATTGTAA-TA
2036360 TTAAAA
1 TTAAAA
2036366 TTTAAATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 3 0.12
22 11 0.44
23 11 0.44
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (24 bp):
TTAAAAATAAAAAAAATTGTAATA
Found at i:2036508 original size:22 final size:21
Alignment explanation
Indices: 2036480--2036557 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 21
2036470 ATATTTCGAG
2036480 TTAATTATATAAATATAAATA
1 TTAATTATATAAATATAAATA
* * *
2036501 TTATATTAAATATATAAAAAT-
1 TTA-ATTATATAAATATAAATA
*
2036522 TTAATTATAAATATATAATAAATA
1 TTAATTAT--ATAAAT-ATAAATA
*
2036546 TTAAATATATAA
1 TTAATTATATAA
2036558 TGATAATTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
20 4 0.09
21 6 0.13
22 23 0.51
23 5 0.11
24 7 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAATTATATAAATATAAATA
Found at i:2036517 original size:20 final size:20
Alignment explanation
Indices: 2036492--2036557 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
2036482 AATTATATAA
2036492 ATATAAATATTATATTAAAT
1 ATATAAATATTATATTAAAT
*
2036512 ATATAAAAATT-TAATTATAA-
1 ATATAAATATTAT-ATTA-AAT
*
2036532 ATATATAATA-AATATTAAAT
1 ATATA-AATATTATATTAAAT
2036552 ATATAA
1 ATATAA
2036558 TGATAATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
19 4 0.11
20 28 0.74
21 6 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATAAATATTATATTAAAT
Found at i:2036537 original size:24 final size:26
Alignment explanation
Indices: 2036502--2036557 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
2036492 ATATAAATAT
* *
2036502 TATATTAA-ATAT-ATAAAAATTTAA
1 TATATAAATATATAATAAAAATTAAA
*
2036526 T-TATAAATATATAATAAATATTAAA
1 TATATAAATATATAATAAAAATTAAA
2036551 TATATAA
1 TATATAA
2036558 TGATAATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 5 0.19
24 5 0.19
25 11 0.42
26 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
TATATAAATATATAATAAAAATTAAA
Found at i:2036566 original size:18 final size:18
Alignment explanation
Indices: 2036489--2036558 Score: 63
Period size: 18 Copynumber: 3.7 Consensus size: 18
2036479 GTTAATTATA
*
2036489 TAAATATA-AATATTATAT
1 TAAATATATAATA-AATAT
2036507 TAAATATATAA-AAATTTAATT
1 TAAATATATAATAAA--T-A-T
2036528 ATAAATATATAATAAATAT
1 -TAAATATATAATAAATAT
2036547 TAAATATATAAT
1 TAAATATATAAT
2036559 GATAATTATT
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
17 1 0.02
18 21 0.48
19 4 0.09
20 2 0.05
21 2 0.05
22 11 0.25
23 3 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAATATATAATAAATAT
Found at i:2046944 original size:21 final size:20
Alignment explanation
Indices: 2046920--2046986 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
2046910 ATAATATTAG
2046920 ATATGAAAATAATATAAAAAA
1 ATAT-AAAATAATATAAAAAA
*
2046941 ATATAATTATAATAT-AAAAA
1 ATATAA-AATAATATAAAAAA
* *
2046961 ATAATATAAATAAAATAAAAAT
1 AT-ATA-AAATAATATAAAAAA
2046983 ATAT
1 ATAT
2046987 TAATATATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 9 0.24
21 22 0.58
22 7 0.18
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (20 bp):
ATATAAAATAATATAAAAAA
Found at i:2046953 original size:6 final size:5
Alignment explanation
Indices: 2046928--2047092 Score: 52
Period size: 5 Copynumber: 34.8 Consensus size: 5
2046918 AGATATGAAA
* * *
2046928 ATAAT ATAAA AAAAT ATAATT ATAAT ATAA- A-AA- ATAAT ATAA- ATAAA
1 ATAAT ATAAT ATAAT ATAA-T ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * * * *
2046975 ATAA- A-AAT AT-AT -TAAT ATATT A-AAT TTTAT ATAAC AT-AT ATTAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * ** * * *
2047019 -TAAT ATATT AAAAT -TTTT ATAAA ATATT TTAAAT ATAATT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT-AAT ATAA-T ATAAT ATAAT
2047069 AATATAT ATAAT ATAA- AT-AT ATAA
1 -ATA-AT ATAAT ATAAT ATAAT ATAA
2047093 ATTATTAAAT
Statistics
Matches: 115, Mismatches: 27, Indels: 36
0.65 0.15 0.20
Matches are distributed among these distances:
3 7 0.06
4 26 0.23
5 61 0.53
6 19 0.17
7 2 0.02
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:2046966 original size:12 final size:11
Alignment explanation
Indices: 2046920--2046983 Score: 62
Period size: 11 Copynumber: 6.0 Consensus size: 11
2046910 ATAATATTAG
*
2046920 ATATGAAAATA
1 ATATAAAAATA
2046931 ATATAAAAA-A
1 ATATAAAAATA
**
2046941 ATATAATTATA
1 ATATAAAAATA
2046952 ATATAAAAAATA
1 ATAT-AAAAATA
2046964 ATAT--AAATA
1 ATATAAAAATA
*
2046973 AAATAAAAATA
1 ATATAAAAATA
2046984 TATTAATATA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
9 8 0.19
10 8 0.19
11 18 0.42
12 9 0.21
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (11 bp):
ATATAAAAATA
Found at i:2046966 original size:23 final size:20
Alignment explanation
Indices: 2046926--2046981 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 20
2046916 TTAGATATGA
2046926 AAATAATAT-AAAAAAATAT
1 AAATAATATAAAAAAAATAT
2046945 AATTATAATATAAAAAATAATAT
1 AA--ATAATATAAAAAA-AATAT
*
2046968 AAATAAAATAAAAA
1 AAATAATATAAAAA
2046982 TATATTAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.06
21 18 0.56
22 5 0.16
23 7 0.22
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
AAATAATATAAAAAAAATAT
Found at i:2047023 original size:32 final size:32
Alignment explanation
Indices: 2046975--2047045 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
2046965 TATAAATAAA
2046975 ATAAAA-ATA-TATTAATATATT-AAATTTTAT
1 ATAAAATATATTATTAATATATTAAAATTTT-T
*
2047005 ATAACATATATTATTAATATATTAAAATTTTT
1 ATAAAATATATTATTAATATATTAAAATTTTT
2047037 ATAAAATAT
1 ATAAAATAT
2047046 TTTAAATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
30 5 0.14
31 3 0.08
32 21 0.58
33 7 0.19
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (32 bp):
ATAAAATATATTATTAATATATTAAAATTTTT
Found at i:2047365 original size:17 final size:17
Alignment explanation
Indices: 2047339--2047387 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
2047329 ATATTTTTAT
*
2047339 ATATGATATAAAATATA
1 ATATAATATAAAATATA
* *
2047356 ATTTATTATAAAA-ATA
1 ATATAATATAAAATATA
2047372 ATATAATATGAAAATA
1 ATATAATAT-AAAATA
2047388 AAAATACATT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
16 10 0.40
17 14 0.56
18 1 0.04
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (17 bp):
ATATAATATAAAATATA
Found at i:2047372 original size:16 final size:16
Alignment explanation
Indices: 2047339--2047388 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
2047329 ATATTTTTAT
*
2047339 ATATGATATAAAATATA
1 ATATAATATAAAA-ATA
* *
2047356 ATTTATTATAAAAATA
1 ATATAATATAAAAATA
*
2047372 ATATAATATGAAAATA
1 ATATAATATAAAAATA
2047388 A
1 A
2047389 AAATACATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 17 0.63
17 10 0.37
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (16 bp):
ATATAATATAAAAATA
Found at i:2048007 original size:19 final size:19
Alignment explanation
Indices: 2047960--2048021 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
2047950 ATTTATATTA
2047960 ATATAAAATTTATTAATTTT
1 ATATAAAATTTA-TAATTTT
* *
2047980 A-AGAGAATTTATAATTTT
1 ATATAAAATTTATAATTTT
*
2047998 ATATATAATTTAT-ATTTT
1 ATATAAAATTTATAATTTT
2048016 A-ATAAA
1 ATATAAA
2048022 TCGATCATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 4 0.11
18 14 0.39
19 17 0.47
20 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
ATATAAAATTTATAATTTT
Found at i:2050150 original size:23 final size:23
Alignment explanation
Indices: 2050096--2050150 Score: 85
Period size: 22 Copynumber: 2.4 Consensus size: 23
2050086 TAACTCATTC
2050096 TAAATTATAACAATATACAAAAT
1 TAAATTATAACAATATACAAAAT
* *
2050119 T-AATTATAATAATATATAAAAT
1 TAAATTATAACAATATACAAAAT
2050141 TAAATTATAA
1 TAAATTATAA
2050151 ATTAAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 20 0.69
23 9 0.31
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (23 bp):
TAAATTATAACAATATACAAAAT
Found at i:2050815 original size:18 final size:17
Alignment explanation
Indices: 2050788--2050827 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
2050778 ATTATAATAT
2050788 AAAAATGATATAAATTA
1 AAAAATGATATAAATTA
**
2050805 AAAACATGATATTTATTA
1 AAAA-ATGATATAAATTA
2050823 AAAAA
1 AAAAA
2050828 GTTACAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (17 bp):
AAAAATGATATAAATTA
Found at i:2050951 original size:16 final size:17
Alignment explanation
Indices: 2050921--2050962 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
2050911 ACGTATTAGG
*
2050921 TTTATATATATAATTAT
1 TTTATATATAAAATTAT
2050938 TTTAT-TATAAAATTAT
1 TTTATATATAAAATTAT
*
2050954 TTAATATAT
1 TTTATATAT
2050963 TATAATAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTATATATAAAATTAT
Found at i:2051192 original size:15 final size:16
Alignment explanation
Indices: 2051165--2051194 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2051155 AATTATAACT
2051165 ATTTTATTTTATTATA
1 ATTTTATTTTATTATA
2051181 ATTTTA-TTTATTAT
1 ATTTTATTTTATTAT
2051195 CATTGAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTATTTTATTATA
Found at i:2053582 original size:20 final size:20
Alignment explanation
Indices: 2053557--2053594 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2053547 TGTGTTTGTT
2053557 ATTCAAGGTCTCAAAGACTG
1 ATTCAAGGTCTCAAAGACTG
2053577 ATTCAAGGTCTCAAAGAC
1 ATTCAAGGTCTCAAAGAC
2053595 CGTCCCTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (20 bp):
ATTCAAGGTCTCAAAGACTG
Found at i:2055208 original size:72 final size:72
Alignment explanation
Indices: 2055091--2055226 Score: 211
Period size: 72 Copynumber: 1.9 Consensus size: 72
2055081 TTCAATTCTG
* *
2055091 GATTTCCAATTTGGAGATCTTAGGTTCAAACTTAGGGATGTGCATGGATTAGAGGATGAGAGAGA
1 GATTTCCAATTTGCAGATCTTAGGTTCAAACTTAGGGAAGTGCATGGATTAGAGGATGAGAGAGA
2055156 GTTAAGT
66 GTTAAGT
* * *
2055163 GATTTCCGATTTTCAGATCTTAGGTTCGAACCTT-GGGAAGTGCATGGATTAGAGGATGAGAGAG
1 GATTTCCAATTTGCAGATCTTAGGTTC-AAACTTAGGGAAGTGCATGGATTAGAGGATGAGAGAG
2055227 GGTTCCCATT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
72 53 0.91
73 5 0.09
ACGTcount: A:0.29, C:0.10, G:0.31, T:0.30
Consensus pattern (72 bp):
GATTTCCAATTTGCAGATCTTAGGTTCAAACTTAGGGAAGTGCATGGATTAGAGGATGAGAGAGA
GTTAAGT
Found at i:2057037 original size:21 final size:21
Alignment explanation
Indices: 2057013--2057053 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2057003 AATGTCATGT
*
2057013 TCATATCATGTTTTTATATCA
1 TCATATCATATTTTTATATCA
*
2057034 TCATGTCATATTTTTATATC
1 TCATATCATATTTTTATATC
2057054 GTATTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.15, G:0.05, T:0.54
Consensus pattern (21 bp):
TCATATCATATTTTTATATCA
Done.