Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 131 of 203
Found at i:41520388 original size:33 final size:32
Alignment explanation
Indices: 41520329--41520394 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
41520319 ATGTATGAAT
** *
41520329 TGATTGTTGCATGTATATGGCTTAGGTAAGAAG
1 TGATTGTTGCATGTATAAAGCCTAGGTAA-AAG
*
41520362 TGATTGTTGTATGTATAAAGCCTAGGTAAAAG
1 TGATTGTTGCATGTATAAAGCCTAGGTAAAAG
41520394 T
1 T
41520395 TTGCGTTAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 4 0.14
33 25 0.86
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.36
Consensus pattern (32 bp):
TGATTGTTGCATGTATAAAGCCTAGGTAAAAG
Found at i:41525089 original size:25 final size:25
Alignment explanation
Indices: 41525042--41525101 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 25
41525032 CTAGGCACCC
41525042 ATTTTATTATTCATATAATATAAAAAT
1 ATTTTATTATT-ATATAATAT-AAAAT
41525069 ATTTTATTATT-TATACA-ATAAAAT
1 ATTTTATTATTATATA-ATATAAAAT
41525093 ATGTTTATT
1 AT-TTTATT
41525102 GGTGACTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
24 7 0.23
25 12 0.39
26 1 0.03
27 11 0.35
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (25 bp):
ATTTTATTATTATATAATATAAAAT
Found at i:41527702 original size:28 final size:27
Alignment explanation
Indices: 41527671--41527730 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
41527661 TATATTTATC
* * *
41527671 AAAATTTATAAATAGTTTTAATAAAATA
1 AAAATTAAAAAATA-TTATAATAAAATA
* *
41527699 AAAACTAAAAAATATTATAATTAAATA
1 AAAATTAAAAAATATTATAATAAAATA
41527726 AAAAT
1 AAAAT
41527731 AATTTTTGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (27 bp):
AAAATTAAAAAATATTATAATAAAATA
Found at i:41539902 original size:24 final size:25
Alignment explanation
Indices: 41539867--41539919 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
41539857 AAAGTAAAAA
41539867 AAATTGTGTATT-TAAATGATATAT-
1 AAATTGTGTATTGT-AATGATATATG
*
41539891 AAATTCGT-TATTGTTATGATATATG
1 AAATT-GTGTATTGTAATGATATATG
41539916 AAAT
1 AAAT
41539920 ATATAAACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.45
Consensus pattern (25 bp):
AAATTGTGTATTGTAATGATATATG
Found at i:41541995 original size:27 final size:28
Alignment explanation
Indices: 41541947--41542013 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 28
41541937 TTTTTTACAA
* * *
41541947 ATATTAAATTATTTATATAATTTTATTAT
1 ATATTATATT-TTTATAAAATTGTATTAT
*
41541976 ATATTATATTTTT-TAAAATTGTATTTT
1 ATATTATATTTTTATAAAATTGTATTAT
*
41542003 CTATTAT-TTTT
1 ATATTATATTTT
41542014 AATGTTGTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.12
27 17 0.52
28 3 0.09
29 9 0.27
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (28 bp):
ATATTATATTTTTATAAAATTGTATTAT
Found at i:41543693 original size:17 final size:19
Alignment explanation
Indices: 41543673--41543713 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
41543663 ATAACTTTAA
*
41543673 AAAATATA-TAATA-CATC
1 AAAATATACTAAAATCATC
41543690 AAAA-ATACTAAAATCATC
1 AAAATATACTAAAATCATC
41543708 AAAATA
1 AAAATA
41543714 AATATTTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.15
17 8 0.40
18 8 0.40
19 1 0.05
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAATATACTAAAATCATC
Found at i:41543695 original size:18 final size:18
Alignment explanation
Indices: 41543672--41543711 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
41543662 TATAACTTTA
*
41543672 AAAAATA-TATAATACATC
1 AAAAATACTAAAAT-CATC
41543690 AAAAATACTAAAATCATC
1 AAAAATACTAAAATCATC
41543708 AAAA
1 AAAA
41543712 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAATACTAAAATCATC
Found at i:41546194 original size:40 final size:38
Alignment explanation
Indices: 41546148--41546238 Score: 137
Period size: 40 Copynumber: 2.3 Consensus size: 38
41546138 AATCTTCAAG
*
41546148 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATAATATGCAATCTTAGATAT
* *
41546186 GATATATGCAATCTTGGATATAATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATATAATATGCAATCTTAGATAT
41546226 GATATGCAATCTT
1 GATATGCAATCTT
41546239 GGAAGATATG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
38 13 0.27
40 35 0.73
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.37
Consensus pattern (38 bp):
GATATGCAATCTTAGATATAATATGCAATCTTAGATAT
Found at i:41546239 original size:19 final size:19
Alignment explanation
Indices: 41546148--41546241 Score: 143
Period size: 19 Copynumber: 4.8 Consensus size: 19
41546138 AATCTTCAAG
*
41546148 GATATGCAATCTTAGATAT
1 GATATGCAATCTTGGATAT
*
41546167 GATATGCAATCTTAGATAT
1 GATATGCAATCTTGGATAT
41546186 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTGGATAT
*
41546207 AATATGCAATCTTGGATAT
1 GATATGCAATCTTGGATAT
41546226 GATATGCAATCTTGGA
1 GATATGCAATCTTGGA
41546242 AGATATGATT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 53 0.76
21 17 0.24
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTGGATAT
Found at i:41553362 original size:88 final size:88
Alignment explanation
Indices: 41553203--41553930 Score: 1089
Period size: 88 Copynumber: 8.3 Consensus size: 88
41553193 AGCAGATCAG
* * * * * * *
41553203 TGAAGATAACAGATCTTGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAACCTTGCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCT
* *
41553268 TCCTGGGTTGTAGCGGAGCAGGT
66 CCCTGGGTTGTAGTGGAGCAGGT
* * * * * *
41553291 TAAAAATAGTAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCT
*
41553356 CCCTGGGTTGTAGTGAAGCAGGT
66 CCCTGGGTTGTAGTGGAGCAGGT
* * * *
41553379 TAAAGATAACAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAATATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCT
*
41553444 CCCTGGGTCGTAGTGG-GTCAGGT
66 CCCTGGGTTGTAGTGGAG-CAGGT
* *
41553467 TGAAAATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGTAGATCGAAGATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCT
41553532 CCCTGGGTTGTAGTGGAGCAGGT
66 CCCTGGGTTGTAGTGGAGCAGGT
* *
41553555 TGAAGATAGCAGATATTGCCTTCCTGTACCGACAGTGAAGTAGATCGAAGATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCT
*
41553620 CCCTGGGTTGTAGTGGAGTAGGT
66 CCCTGGGTTGTAGTGGAGCAGGT
* * * * *
41553643 TGAAGATAGCAGATCTTACCTTCCTGCATCAACAGTGAAGCAGATCGAAAATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCT
41553708 CCCTGGGTTGTAGTGGAGCAGGT
66 CCCTGGGTTGTAGTGGAGCAGGT
* *
41553731 TGAAGATAGCAGATCTTGCTTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCATTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCT
*
41553796 CCCTGGGTCGTAGTGGAGCAGGT
66 CCCTGGGTTGTAGTGGAGCAGGT
*
41553819 TGAAGATAGCAGATCTTGCCTTCCTGTATCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCT
* *
41553884 CTCTGGGCTGTAGTGGAGCAGGT
66 CCCTGGGTTGTAGTGGAGCAGGT
* *
41553907 TGAAGATAGTAGATCTTGTCTTCC
1 TGAAGATAGCAGATCTTGCCTTCC
41553931 CATACTAGTG
Statistics
Matches: 584, Mismatches: 54, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
87 1 0.00
88 582 1.00
89 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (88 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCT
CCCTGGGTTGTAGTGGAGCAGGT
Found at i:41553963 original size:45 final size:42
Alignment explanation
Indices: 41553908--41554088 Score: 166
Period size: 42 Copynumber: 4.1 Consensus size: 42
41553898 GGAGCAGGTT
* *
41553908 GAAGATAGTAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGATC
1 GAAGAAAGCAGATCTTGTCTT--CAT-CTAGTGGCGAAGTAGATC
* * * *
41553953 GAAGAAAGTAGATCTTGTCTTCATGTATTGGCGAAGTAGATT
1 GAAGAAAGCAGATCTTGTCTTCATCTAGTGGCGAAGTAGATC
* *
41553995 GAAGAAAGCAGATCTTGTCTTCATGTA-TCGGCATGAAATAGATC
1 GAAGAAAGCAGATCTTGTCTTCATCTAGT-GGC--GAAGTAGATC
* ** *
41554039 AAAGGTAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
1 GAAGAAAGCAGATCTTGTCTT--CAT-CTAGTGGCGAAGTAGATC
41554084 GAAGA
1 GAAGA
41554089 TACAAGTCTT
Statistics
Matches: 114, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
41 1 0.01
42 44 0.39
43 3 0.03
44 26 0.23
45 32 0.28
46 3 0.03
47 4 0.04
48 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (42 bp):
GAAGAAAGCAGATCTTGTCTTCATCTAGTGGCGAAGTAGATC
Found at i:41554479 original size:19 final size:19
Alignment explanation
Indices: 41554433--41554488 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
41554423 AATCTTCAAG
41554433 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
41554452 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
41554473 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
41554489 AGATACGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
21 18 0.55
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:41556739 original size:18 final size:18
Alignment explanation
Indices: 41556700--41556752 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
41556690 TAATATCATC
*
41556700 AATATATAAAAAATATAT
1 AATATATAAAAAATATAG
*
41556718 AATATAGTAAAAAATGT-G
1 AATATA-TAAAAAATATAG
41556736 AATATCATAATAAAATA
1 AATAT-ATAA-AAAATA
41556753 AAGATTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (18 bp):
AATATATAAAAAATATAG
Found at i:41565677 original size:18 final size:18
Alignment explanation
Indices: 41565654--41565689 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
41565644 TTCTAATTAA
41565654 AACCCCTATCGTTGGATT
1 AACCCCTATCGTTGGATT
41565672 AACCCCTATCGTTGGATT
1 AACCCCTATCGTTGGATT
41565690 CTCTTATTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (18 bp):
AACCCCTATCGTTGGATT
Found at i:41568140 original size:5 final size:6
Alignment explanation
Indices: 41568126--41568195 Score: 50
Period size: 6 Copynumber: 10.5 Consensus size: 6
41568116 GAAGTCTAAG
*
41568126 AAAATA AAAATAA AACAACTA AAAACA AAAATA AAAATTTTAA AAAATA
1 AAAATA AAAAT-A AA-AA-TA AAAATA AAAATA AAAA---T-A AAAATA
* *
41568175 AAAATA AAACTA AAAAGA AAA
1 AAAATA AAAATA AAAATA AAA
41568196 GAAATAAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
6 34 0.65
7 6 0.12
8 5 0.10
9 2 0.04
10 5 0.10
ACGTcount: A:0.77, C:0.06, G:0.01, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:41577120 original size:47 final size:47
Alignment explanation
Indices: 41577042--41577444 Score: 707
Period size: 47 Copynumber: 8.6 Consensus size: 47
41577032 CCCTTCGGGA
* * * * * *
41577042 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
41577089 CCTGTCACATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41577136 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41577183 CTTATCACATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41577230 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41577277 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41577324 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41577371 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41577418 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
41577445 TATTCAAATA
Statistics
Matches: 340, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 340 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41582637 original size:28 final size:28
Alignment explanation
Indices: 41582602--41582669 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
41582592 TTTCCTCTCT
41582602 TTTCTTTTCTTTTTCGATTTCAATCTTA
1 TTTCTTTTCTTTTTCGATTTCAATCTTA
* **
41582630 TTTCTTTTCTTTTTTGATTTTGATCTTA
1 TTTCTTTTCTTTTTCGATTTCAATCTTA
*
41582658 TTTCTTTCCTTT
1 TTTCTTTTCTTT
41582670 GATTTTTGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.10, C:0.16, G:0.04, T:0.69
Consensus pattern (28 bp):
TTTCTTTTCTTTTTCGATTTCAATCTTA
Found at i:41592088 original size:16 final size:17
Alignment explanation
Indices: 41592056--41592090 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
41592046 TAGAATTGGG
*
41592056 TTGAAAAAATTATTTAA
1 TTGAAAAAATTAATTAA
41592073 TTGAAAAAA-TAATTAA
1 TTGAAAAAATTAATTAA
41592089 TT
1 TT
41592091 TAAATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (17 bp):
TTGAAAAAATTAATTAA
Found at i:41594989 original size:17 final size:17
Alignment explanation
Indices: 41594967--41595002 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
41594957 CTTCTATAGT
41594967 ATGTAGCATCATTCACA
1 ATGTAGCATCATTCACA
41594984 ATGTAGCATCATTCACA
1 ATGTAGCATCATTCACA
41595001 AT
1 AT
41595003 AGTGGAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (17 bp):
ATGTAGCATCATTCACA
Found at i:41601777 original size:19 final size:20
Alignment explanation
Indices: 41601743--41601780 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
41601733 TTATTCCAAG
*
41601743 GAATTGTCTTAGAAAATGAT
1 GAATTGTCTAAGAAAATGAT
41601763 GAATTGT-TAAGAAAATGA
1 GAATTGTCTAAGAAAATGA
41601781 GCTTGGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.32
Consensus pattern (20 bp):
GAATTGTCTAAGAAAATGAT
Found at i:41602723 original size:16 final size:16
Alignment explanation
Indices: 41602702--41602770 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
41602692 TTTGGTTCGC
41602702 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
41602718 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
41602734 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
41602751 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
41602767 TGTA
1 TGTA
41602771 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:41602748 original size:33 final size:32
Alignment explanation
Indices: 41602702--41602770 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
41602692 TTTGGTTCGC
41602702 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
41602734 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
41602767 TGTA
1 TGTA
41602771 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:41602835 original size:44 final size:45
Alignment explanation
Indices: 41602751--41602841 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
41602741 GGATTAGAGG
* * *
41602751 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
41602796 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
41602840 TG
1 TG
41602842 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:41603027 original size:18 final size:19
Alignment explanation
Indices: 41603006--41603042 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
41602996 TTATTATTAA
41603006 ATAT-ATTT-TAATTAAAAT
1 ATATAATTTATAA-TAAAAT
41603024 ATATAATTTATAATAAAAT
1 ATATAATTTATAATAAAAT
41603043 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 10 0.59
20 3 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTTATAATAAAAT
Found at i:41603150 original size:59 final size:58
Alignment explanation
Indices: 41603084--41603269 Score: 157
Period size: 59 Copynumber: 3.1 Consensus size: 58
41603074 CTCAAATCAT
* *
41603084 AATATATGATACTATAAAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTT-AAATAATTATTATTAAATATATTTTAATAAA
* * * * *
41603143 AATATATGAT-TTAATAAAATTCTTAATATTAAAT-ATTCTTATATGAAT-T-TTCTAA-AATCA
1 AATATATGATACT-ATAAAA-T-ATAAT-TTAAATAATTATTAT-TAAATATATTTTAATAA--A
* **
41603203 TAATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAAGTTAATAAA
1 -AATATATGATACTATAAAATATAATTTAA-ATAATTATTATTAAATATATTTTAATAAA
41603263 AATATAT
1 AATATAT
41603270 AATTTATCAT
Statistics
Matches: 98, Mismatches: 15, Indels: 28
0.70 0.11 0.20
Matches are distributed among these distances:
58 6 0.06
59 38 0.39
60 19 0.19
61 30 0.31
62 5 0.05
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTAAATAATTATTATTAAATATATTTTAATAAA
Found at i:41603207 original size:120 final size:120
Alignment explanation
Indices: 41602986--41603275 Score: 456
Period size: 120 Copynumber: 2.4 Consensus size: 120
41602976 TTAATCATAT
41602986 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTATAATAAAATTCTTAATA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAA-TT-TAATAAAATTCTTAATA
* * *
41603051 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
64 ATAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
41603108 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
41603172 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
65 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
** *
41603228 TTTAACATAATTATTATTAAATATAAGTTAATAAAAATATATAATTTA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTA
41603276 TCATCATACT
Statistics
Matches: 154, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
119 2 0.01
120 109 0.71
121 2 0.01
122 39 0.25
123 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:41615756 original size:14 final size:15
Alignment explanation
Indices: 41615730--41615758 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
41615720 TGTTATAGAA
41615730 TAAATAGACAAAGAG
1 TAAATAGACAAAGAG
41615745 TAAATA-ACAAAGAG
1 TAAATAGACAAAGAG
41615759 AATGGGAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.62, C:0.07, G:0.17, T:0.14
Consensus pattern (15 bp):
TAAATAGACAAAGAG
Found at i:41646597 original size:38 final size:38
Alignment explanation
Indices: 41646550--41646675 Score: 148
Period size: 38 Copynumber: 3.3 Consensus size: 38
41646540 ACAAGGTTGT
* *
41646550 ATCTTGTTATATTACTCGAGAATCTGCAACTAGACTAG
1 ATCTCGTTATATTACACGAGAATCTGCAACTAGACTAG
* * *
41646588 ATCTCGTTATATTACCCGAGAATCTACAA-TAAGGCTAG
1 ATCTCGTTATATTACACGAGAATCTGCAACT-AGACTAG
* *
41646626 ATCTCGTTATATTACACGAGAATCTGTAAC-AAATGCTAG
1 ATCTCGTTATATTACACGAGAATCTGCAACTAGA--CTAG
41646665 ATCTCGTTATA
1 ATCTCGTTATA
41646676 ATCTATAATA
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
37 2 0.03
38 58 0.77
39 15 0.20
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (38 bp):
ATCTCGTTATATTACACGAGAATCTGCAACTAGACTAG
Found at i:41646646 original size:76 final size:76
Alignment explanation
Indices: 41646519--41646675 Score: 194
Period size: 76 Copynumber: 2.1 Consensus size: 76
41646509 ACCTATGTCA
* * * * *
41646519 TATATTACTCGAGAATTCACAACAAGGTTGTATCTTGTTATATTACTCGAGAATCTGCAAC-TAG
1 TATATTACCCGAGAATTCACAACAAGGTAGTATCTCGTTATATTACACGAGAATCTGCAACAAAG
41646583 ACTAGATCTCGT
66 -CTAGATCTCGT
* *
41646595 TATATTACCCGAGAA-TCTACAATAAGGCTAG-ATCTCGTTATATTACACGAGAATCTGTAACAA
1 TATATTACCCGAGAATTC-ACAACAAGG-TAGTATCTCGTTATATTACACGAGAATCTGCAACAA
41646658 ATGCTAGATCTCGT
64 A-GCTAGATCTCGT
41646672 TATA
1 TATA
41646676 ATCTATAATA
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
75 2 0.03
76 49 0.70
77 18 0.26
78 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (76 bp):
TATATTACCCGAGAATTCACAACAAGGTAGTATCTCGTTATATTACACGAGAATCTGCAACAAAG
CTAGATCTCGT
Found at i:41648307 original size:45 final size:45
Alignment explanation
Indices: 41648235--41648495 Score: 351
Period size: 45 Copynumber: 5.8 Consensus size: 45
41648225 GTCTGATTCA
* * * *
41648235 TGATTCCATAGCGTCCTTCAACTATGGTCTTACTCGTTAGAATCG
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAAAATCG
* * * *
41648280 TGATGCCATGACGTCTTTCAGCTATGGTCTTACTCATTAAAATCA
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAAAATCG
* *
41648325 TGATGTCATAACGTCTTTCAAATATGGTCTTACTCGTTAAAATCG
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAAAATCG
* * *
41648370 TGATGCCATAACGTCTTTCAGCTGTGGTCTTACTCGTTAAAATTG
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAAAATCG
* * *
41648415 GGATGCCATAACATCTTTCAACTATGGTCTTACTCTTTAAAATCG
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAAAATCG
* * *
41648460 TGATGCCATAACGTCTATCAGCTGTGGTCTTACTCG
1 TGATGCCATAACGTCTTTCAACTATGGTCTTACTCG
41648496 CAATGGTATT
Statistics
Matches: 185, Mismatches: 31, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 185 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (45 bp):
TGATGCCATAACGTCTTTCAACTATGGTCTTACTCGTTAAAATCG
Found at i:41648433 original size:135 final size:141
Alignment explanation
Indices: 41648232--41648626 Score: 417
Period size: 135 Copynumber: 2.7 Consensus size: 141
41648222 TTTGTCTGAT
* * * * * * * * *
41648232 TCATGATTCCATAGCGTCCTTCAACTATGGTCTTACTCGTTAGAATCGTGATGCCATGACGTCTT
1 TCATGATGCCATAACGTCTTTCAGCTGTGGTCTTACTCGTTAAAATTGTGATGCCATAACATCTT
* *
41648297 TCAGCTATGGTCTTACTCATTAAAATCATGATGTCATAACG-T-CT-T-TC-AAAT-ATGGTCTT
66 TCAGCTATGGTCTTACTCATTAAAATCATGATGCCATAACGTTACTGTGTCTAAATCATGGTATT
41648356 ACTCGTTAAAA
131 ACTCGTTAAAA
* *
41648367 TCGTGATGCCATAACGTCTTTCAGCTGTGGTCTTACTCGTTAAAATTGGGATGCCATAACATCTT
1 TCATGATGCCATAACGTCTTTCAGCTGTGGTCTTACTCGTTAAAATTGTGATGCCATAACATCTT
* * * * *
41648432 TCAACTATGGTCTTACTCTTTAAAATCGTGATGCCATAACGTCTATCAGCTGTGGTCTTACTCGC
66 TCAGCTATGGTCTTACTCATTAAAATCATGATGCCATAACG--T-T-A-CTGT-GTCTAAAT--C
41648497 AATGGTATTACTCGTTAAAA
123 -ATGGTATTACTCGTTAAAA
* *
41648517 TCATGATGCCATAACATCTTTCAGCTATGCTATGGTCTTACTCGTTAAAACTGTGATGCCATAAC
1 TCATGATGCCATAACGTCTTTCAGC--TG---TGGTCTTACTCGTTAAAATTGTGATGCCATAAC
*
41648582 CTCTTTCAGCTATGGTCTTACT-AGTTAAAATCATGATGCCATAAC
61 ATCTTTCAGCTATGGTCTTACTCA-TTAAAATCATGATGCCATAAC
41648627 ATTTTTTAGC
Statistics
Matches: 213, Mismatches: 26, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
135 91 0.43
139 1 0.00
142 2 0.01
143 1 0.00
145 2 0.01
146 2 0.01
150 41 0.19
152 2 0.01
155 71 0.33
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (141 bp):
TCATGATGCCATAACGTCTTTCAGCTGTGGTCTTACTCGTTAAAATTGTGATGCCATAACATCTT
TCAGCTATGGTCTTACTCATTAAAATCATGATGCCATAACGTTACTGTGTCTAAATCATGGTATT
ACTCGTTAAAA
Found at i:41648574 original size:50 final size:49
Alignment explanation
Indices: 41648498--41648640 Score: 179
Period size: 50 Copynumber: 3.0 Consensus size: 49
41648488 CTTACTCGCA
*
41648498 ATGGTATTACTCGTTAAAATCATGATGCCATAACATCTTTCAGCTATGCT
1 ATGGTCTTACTCGTTAAAATCATGATGCCATAACATCTTT-AGCTATGCT
* *
41648548 ATGGTCTTACTCGTTAAAA-CTGTGATGCCATAACCTCTTT--C-A-GCT
1 ATGGTCTTACTCGTTAAAATC-ATGATGCCATAACATCTTTAGCTATGCT
* *
41648593 ATGGTCTTACTAGTTAAAATCATGATGCCATAACATTTTTTAGCTATG
1 ATGGTCTTACTCGTTAAAATCATGATGCCATAACA-TCTTTAGCTATG
41648641 GTCTTATTCA
Statistics
Matches: 79, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
45 33 0.42
46 6 0.08
47 1 0.01
48 1 0.01
49 2 0.03
50 36 0.46
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (49 bp):
ATGGTCTTACTCGTTAAAATCATGATGCCATAACATCTTTAGCTATGCT
Found at i:41648591 original size:110 final size:105
Alignment explanation
Indices: 41648394--41648603 Score: 287
Period size: 110 Copynumber: 2.0 Consensus size: 105
41648384 CTTTCAGCTG
* ** *
41648394 TGGTCTTACTCGTTAAAATTGGGATGCCATAACATCTTTCAACTATGGTCTTACTCTTTAAAATC
1 TGGTATTACTCGTTAAAATCAGGATGCCATAACATCTTTCAACTATGGTCTTACTCGTTAAAATC
* *
41648459 GTGATGCCATAACGTCTATCAGCTGTGGTCTTACTCGCAA
66 GTGATGCCATAACCTCTATCAGCTATGGTCTTACTCGCAA
*
41648499 TGGTATTACTCGTTAAAATCATGATGCCATAACATCTTTCAGCTATGCTATGGTCTTACTCGTTA
1 TGGTATTACTCGTTAAAATCAGGATGCCATAACATCTTTCA---A--CTATGGTCTTACTCGTTA
*
41648564 AAA-CTGTGATGCCATAACCTCTTTCAGCTATGGTCTTACT
61 AAATC-GTGATGCCATAACCTCTATCAGCTATGGTCTTACT
41648604 AGTTAAAATC
Statistics
Matches: 91, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
105 37 0.41
108 1 0.01
109 1 0.01
110 52 0.57
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (105 bp):
TGGTATTACTCGTTAAAATCAGGATGCCATAACATCTTTCAACTATGGTCTTACTCGTTAAAATC
GTGATGCCATAACCTCTATCAGCTATGGTCTTACTCGCAA
Found at i:41648595 original size:155 final size:150
Alignment explanation
Indices: 41648348--41648626 Score: 423
Period size: 155 Copynumber: 1.8 Consensus size: 150
41648338 TCTTTCAAAT
* * * *
41648348 ATGGTCTTACTCGTTAAAATCGTGATGCCATAACGTCTTTCAGCTGTGGTCTTACTCGTTAAAAT
1 ATGGTATTACTCGTTAAAATCATGATGCCATAACATCTTTCAGCTGTGGTCTTACTCGTTAAAAC
** *
41648413 TGGGATGCCATAACATCTTTCAACTATGGTCTTACTCTTTAAAATCGTGATGCCATAACGTCTAT
66 TGGGATGCCATAACATCTTTCAACTATGGTCTTACTAGTTAAAATCATGATGCCATAACGTCTAT
41648478 CAGCTGTGGTCTTACTCGCA
131 CAGCTGTGGTCTTACTCGCA
41648498 ATGGTATTACTCGTTAAAATCATGATGCCATAACATCTTTCAGCTATGCTATGGTCTTACTCGTT
1 ATGGTATTACTCGTTAAAATCATGATGCCATAACATCTTTCAGC--TG---TGGTCTTACTCGTT
* * *
41648563 AAAACTGTGATGCCATAACCTCTTTCAGCTATGGTCTTACTAGTTAAAATCATGATGCCATAAC
61 AAAACTGGGATGCCATAACATCTTTCAACTATGGTCTTACTAGTTAAAATCATGATGCCATAAC
41648627 ATTTTTTAGC
Statistics
Matches: 114, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
150 41 0.36
152 2 0.02
155 71 0.62
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (150 bp):
ATGGTATTACTCGTTAAAATCATGATGCCATAACATCTTTCAGCTGTGGTCTTACTCGTTAAAAC
TGGGATGCCATAACATCTTTCAACTATGGTCTTACTAGTTAAAATCATGATGCCATAACGTCTAT
CAGCTGTGGTCTTACTCGCA
Found at i:41648609 original size:45 final size:45
Alignment explanation
Indices: 41648498--41648646 Score: 174
Period size: 45 Copynumber: 3.2 Consensus size: 45
41648488 CTTACTCGCA
* *
41648498 ATGGTATTACTCGTTAAAATCATGATGCCATAACATCTTTCAGCTATGCT
1 ATGGTCTTACTAGTTAAAATCATGATGCCATAACATCTTT---C-A-GCT
* * *
41648548 ATGGTCTTACTCGTTAAAA-CTGTGATGCCATAACCTCTTTCAGCT
1 ATGGTCTTACTAGTTAAAATC-ATGATGCCATAACATCTTTCAGCT
* *
41648593 ATGGTCTTACTAGTTAAAATCATGATGCCATAACATTTTTTAGCT
1 ATGGTCTTACTAGTTAAAATCATGATGCCATAACATCTTTCAGCT
41648638 ATGGTCTTA
1 ATGGTCTTA
41648647 TTCAGTTCTG
Statistics
Matches: 89, Mismatches: 8, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
45 50 0.56
46 2 0.02
47 1 0.01
49 1 0.01
50 35 0.39
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (45 bp):
ATGGTCTTACTAGTTAAAATCATGATGCCATAACATCTTTCAGCT
Found at i:41648690 original size:200 final size:195
Alignment explanation
Indices: 41648303--41648691 Score: 449
Period size: 200 Copynumber: 2.0 Consensus size: 195
41648293 TCTTTCAGCT
* * *
41648303 ATGGTCTTACTCATTAAAATCATGATGTCATAACGTCTTTCAAATATGGTCTTACTCGTTAAAAT
1 ATGGTATTACTCATTAAAATCATGATGCCATAACATCTTTCAAATATGGTCTTACTCGTTAAAAT
* * * **
41648368 CGTGATGCCATAACGTCTTTCAGCTGTGGTCTTACTCGTTAAAATTGGGATGCCATAACATCTTT
66 CGTGATGCCATAACCTCTTTCAGCTATGGTCTTACTAGTTAAAATCAGGATGCCATAACATCTTT
* * * * * *
41648433 CAACTATGGTCTTACTCTTTAAAATCGTGATGCCATAACGTCTATCAGCTGTGGTCTTACTCGCA
131 CAACTATGGTCTTACTCGTTAAAATCATAATGCCACAACGTCTATCAACTATGGTCTTACTCGCA
* *
41648498 ATGGTATTACTCGTTAAAATCATGATGCCATAACATCTTTCAGCTATGCTATGGTCTTACTCGTT
1 ATGGTATTACTCATTAAAATCATGATGCCATAACATCTTTCA---A--ATATGGTCTTACTCGTT
*
41648563 AAAA-CTGTGATGCCATAACCTCTTTCAGCTATGGTCTTACTAGTTAAAATCATGATGCCATAAC
61 AAAATC-GTGATGCCATAACCTCTTTCAGCTATGGTCTTACTAGTTAAAATCAGGATGCCATAAC
* * * * **** ** *
41648627 ATTTTTTAGCTATGGTCTTATTCAGTTCTGGT-ATAATGCCACAGTGTCTTTCAACTATGGTCTT
125 ATCTTTCAACTATGGTCTTACTC-GTTAAAATCATAATGCCACAACGTCTATCAACTATGGTCTT
41648691 A
189 A
41648692 TTCGTTTCTT
Statistics
Matches: 159, Mismatches: 28, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
195 38 0.24
198 1 0.01
199 1 0.01
200 116 0.73
201 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (195 bp):
ATGGTATTACTCATTAAAATCATGATGCCATAACATCTTTCAAATATGGTCTTACTCGTTAAAAT
CGTGATGCCATAACCTCTTTCAGCTATGGTCTTACTAGTTAAAATCAGGATGCCATAACATCTTT
CAACTATGGTCTTACTCGTTAAAATCATAATGCCACAACGTCTATCAACTATGGTCTTACTCGCA
Found at i:41649295 original size:17 final size:17
Alignment explanation
Indices: 41649273--41649309 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
41649263 TCAAGTCCTT
41649273 ACATTTTTA-TCACTTTA
1 ACATTTTTAGTC-CTTTA
41649290 ACA-TTTTAGTCCTTTA
1 ACATTTTTAGTCCTTTA
41649306 ACAT
1 ACAT
41649310 AAAATTAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.30, C:0.19, G:0.03, T:0.49
Consensus pattern (17 bp):
ACATTTTTAGTCCTTTA
Found at i:41651972 original size:26 final size:27
Alignment explanation
Indices: 41651854--41652030 Score: 184
Period size: 27 Copynumber: 6.6 Consensus size: 27
41651844 ATTCATGGGT
**
41651854 AAATGACCAAAATACCCTC-AAAGGATA
1 AAATGACTGAAATACCCTCGAAAGG-TA
*
41651881 AAATGACTGAAATACCC-CTAAAGGGTA
1 AAATGACTGAAATACCCTCGAAA-GGTA
* * *
41651908 AAATGATTGAAATACCCCCGAAGGGTA
1 AAATGACTGAAATACCCTCGAAAGGTA
*
41651935 AAATGACAGAAATACCCTCGAAAGGT-
1 AAATGACTGAAATACCCTCGAAAGGTA
* * *
41651961 AAATAATTGAAATACCCTCG-GAGGATA
1 AAATGACTGAAATACCCTCGAAAGG-TA
* *
41651988 AAATAATTGAAATACCC-CGAAAGGTA
1 AAATGACTGAAATACCCTCGAAAGGTA
41652014 AAATGACTGAAATACCC
1 AAATGACTGAAATACCC
41652031 CTATAGGGTA
Statistics
Matches: 128, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
25 3 0.02
26 38 0.30
27 82 0.64
28 5 0.04
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.18
Consensus pattern (27 bp):
AAATGACTGAAATACCCTCGAAAGGTA
Found at i:41651977 original size:80 final size:80
Alignment explanation
Indices: 41651850--41652049 Score: 223
Period size: 80 Copynumber: 2.5 Consensus size: 80
41651840 TGCGATTCAT
* *
41651850 GGGT-AAATGACCA-AAATACCCTCAAAGGATAAAATGACTGAAATACCC-CTAAAGGGTAAAAT
1 GGGTAAAATGA-CAGAAATACCCTCAAAGGATAAAATAACTGAAATACCCTC-AAAGGATAAAAT
*
41651912 GATTGAAATACCCCCGAA
64 AATTGAAATA-CCCCGAA
* **
41651930 GGGTAAAATGACAGAAATACCCTCGAAAGG-T-AAATAATTGAAATACCCTCGGAGGATAAAATA
1 GGGTAAAATGACAGAAATACCCTC-AAAGGATAAAATAACTGAAATACCCTCAAAGGATAAAATA
41651993 ATTGAAATACCCCGAA
65 ATTGAAATACCCCGAA
* * * *
41652009 AGGTAAAATGACTGAAATACCC-CTATAGGGTAAAATAACTG
1 GGGTAAAATGACAGAAATACCCTC-AAAGGATAAAATAACTG
41652050 TTATACCCCT
Statistics
Matches: 103, Mismatches: 11, Indels: 12
0.82 0.09 0.10
Matches are distributed among these distances:
78 5 0.05
79 28 0.27
80 47 0.46
81 18 0.17
82 5 0.05
ACGTcount: A:0.45, C:0.17, G:0.18, T:0.19
Consensus pattern (80 bp):
GGGTAAAATGACAGAAATACCCTCAAAGGATAAAATAACTGAAATACCCTCAAAGGATAAAATAA
TTGAAATACCCCGAA
Found at i:41652000 original size:53 final size:53
Alignment explanation
Indices: 41651863--41652030 Score: 221
Period size: 53 Copynumber: 3.2 Consensus size: 53
41651853 TAAATGACCA
* *
41651863 AAATACCCTCAAAGGATAAAATGACTGAAATACCCCTAAAGGGTAAAATGATTG
1 AAATACCCTCGAAGGATAAAATGACTGAAATACCCCGAAA-GGTAAAATGATTG
* * * *
41651917 AAATACCCCCGAAGGGTAAAATGACAGAAATACCCTCGAAAGGT-AAATAATTG
1 AAATACCCTCGAAGGATAAAATGACTGAAATACCC-CGAAAGGTAAAATGATTG
* * * *
41651970 AAATACCCTCGGAGGATAAAATAATTGAAATACCCCGAAAGGTAAAATGACTG
1 AAATACCCTCGAAGGATAAAATGACTGAAATACCCCGAAAGGTAAAATGATTG
41652023 AAATACCC
1 AAATACCC
41652031 CTATAGGGTA
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
52 8 0.08
53 52 0.53
54 34 0.35
55 4 0.04
ACGTcount: A:0.46, C:0.18, G:0.17, T:0.18
Consensus pattern (53 bp):
AAATACCCTCGAAGGATAAAATGACTGAAATACCCCGAAAGGTAAAATGATTG
Found at i:41652043 original size:53 final size:52
Alignment explanation
Indices: 41651863--41652058 Score: 196
Period size: 53 Copynumber: 3.7 Consensus size: 52
41651853 TAAATGACCA
* * * *
41651863 AAATACCCTCAAAGGATAAAATGACTGAAATACCCCTAAAGGGTAAAATGATTG
1 AAATACCC-CTAAGGGTAAAATAACTGAAATACCCCGAAA-GGTAAAATGATTG
* * * *
41651917 AAATACCCCCGAAGGGTAAAATGACAGAAATACCCTCGAAAGGT-AAATAATTG
1 AAATA-CCCCTAAGGGTAAAATAACTGAAATACCC-CGAAAGGTAAAATGATTG
** * * *
41651970 AAATACCCTCGGAGGATAAAATAATTGAAATACCCCGAAAGGTAAAATGACTG
1 AAATACCC-CTAAGGGTAAAATAACTGAAATACCCCGAAAGGTAAAATGATTG
**
41652023 AAATACCCCTATAGGGTAAAATAACTGTTATACCCC
1 AAATACCCCTA-AGGGTAAAATAACTGAAATACCCC
41652059 TAGAAGATGA
Statistics
Matches: 119, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
52 12 0.10
53 69 0.58
54 31 0.26
55 7 0.06
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (52 bp):
AAATACCCCTAAGGGTAAAATAACTGAAATACCCCGAAAGGTAAAATGATTG
Found at i:41652049 original size:27 final size:26
Alignment explanation
Indices: 41651850--41652060 Score: 165
Period size: 27 Copynumber: 8.0 Consensus size: 26
41651840 TGCGATTCAT
** *
41651850 GGGT-AAATGACCAAAATACCCTCAAA
1 GGGTAAAATGACTGAAATACCC-CTAA
*
41651876 GGATAAAATGACTGAAATACCCCTAAA
1 GGGTAAAATGACTGAAATACCCCT-AA
* *
41651903 GGGTAAAATGATTGAAATACCCCCGAA
1 GGGTAAAATGACTGAAATA-CCCCTAA
* *
41651930 GGGTAAAATGACAGAAATACCCTCGAA
1 GGGTAAAATGACTGAAATACCC-CTAA
* * * **
41651957 AGGT-AAATAATTGAAATACCCTCGGA
1 GGGTAAAATGACTGAAATACCC-CTAA
* * * *
41651983 GGATAAAATAATTGAAATACCCCGAA
1 GGGTAAAATGACTGAAATACCCCTAA
*
41652009 AGGTAAAATGACTGAAATACCCCTATA
1 GGGTAAAATGACTGAAATACCCCTA-A
* **
41652036 GGGTAAAATAACTGTTATACCCCTA
1 GGGTAAAATGACTGAAATACCCCTA
41652061 GAAGATGAAA
Statistics
Matches: 153, Mismatches: 26, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
26 50 0.33
27 99 0.65
28 4 0.03
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.20
Consensus pattern (26 bp):
GGGTAAAATGACTGAAATACCCCTAA
Found at i:41652072 original size:80 final size:80
Alignment explanation
Indices: 41651854--41652073 Score: 202
Period size: 80 Copynumber: 2.7 Consensus size: 80
41651844 ATTCATGGGT
* * *
41651854 AAATGACCA-AAATACCCTC-AAAGGATAAAATGACTGAAATACCC-CTA-AAGGGTAAAATGAT
1 AAATGA-CAGAAATACCCTCGAAAGG-T-AAATAACTGAAATACCCTC-AGAA-GATAAAATAAT
*
41651915 TGAAATACCCCCGAAGGGTA
61 TGAAATACCCCCGAAAGGTA
* * *
41651935 AAATGACAGAAATACCCTCGAAAGGTAAATAATTGAAATACCCTCGGAGGATAAAATAATTGAAA
1 AAATGACAGAAATACCCTCGAAAGGTAAATAACTGAAATACCCTCAGAAGATAAAATAATTGAAA
41652000 TA-CCCCGAAAGGTA
66 TACCCCCGAAAGGTA
* * * ** *
41652014 AAATGACTGAAATACCC-CTATAGGGTAAAATAACTGTTATACCC-CTAGAAGATGAAATAA
1 AAATGACAGAAATACCCTCGA-AAGGT-AAATAACTGAAATACCCTC-AGAAGATAAAATAA
41652074 CTGTTATAGC
Statistics
Matches: 116, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
78 2 0.02
79 32 0.28
80 58 0.50
81 19 0.16
82 5 0.04
ACGTcount: A:0.46, C:0.18, G:0.17, T:0.20
Consensus pattern (80 bp):
AAATGACAGAAATACCCTCGAAAGGTAAATAACTGAAATACCCTCAGAAGATAAAATAATTGAAA
TACCCCCGAAAGGTA
Found at i:41662538 original size:51 final size:51
Alignment explanation
Indices: 41662461--41662563 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
41662451 TAGTACCAAT
41662461 TGAGATTAAAAGTATTTGTGCCAAGCGAGACTTGATTATAAAATATTTTCA
1 TGAGATTAAAAGTATTTGTGCCAAGCGAGACTTGATTATAAAATATTTTCA
*
41662512 TGAGATTAAAAGTATTTGTGCTAAGCGAGACTTGATTATAAAATATTTTCA
1 TGAGATTAAAAGTATTTGTGCCAAGCGAGACTTGATTATAAAATATTTTCA
41662563 T
1 T
41662564 ACTCAAGTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (51 bp):
TGAGATTAAAAGTATTTGTGCCAAGCGAGACTTGATTATAAAATATTTTCA
Found at i:41668922 original size:20 final size:20
Alignment explanation
Indices: 41668897--41668937 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
41668887 AGGAAAACAT
41668897 ATATTAA-AATAAAAATAAAA
1 ATATTAATAA-AAAAATAAAA
*
41668917 ATATTAATAAAAAACTAAAA
1 ATATTAATAAAAAAATAAAA
41668937 A
1 A
41668938 AAATCATATA
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:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (20 bp):
ATATTAATAAAAAAATAAAA
Found at i:41669278 original size:21 final size:20
Alignment explanation
Indices: 41669250--41669289 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
41669240 TTGTTATCTT
41669250 AAATTTAA-ACTAAATAATAA
1 AAATTTAAGA-TAAATAATAA
41669270 AAATGTTAAGATAAATAATA
1 AAAT-TTAAGATAAATAATA
41669290 TATTTTATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 13 0.72
22 1 0.06
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (20 bp):
AAATTTAAGATAAATAATAA
Found at i:41669854 original size:18 final size:18
Alignment explanation
Indices: 41669827--41669862 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
41669817 TAATTAATAA
*
41669827 CTTATATTTTTATGATTT
1 CTTATATTTTTATAATTT
*
41669845 CTTATTTTTTTATAATTT
1 CTTATATTTTTATAATTT
41669863 TCTAAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.69
Consensus pattern (18 bp):
CTTATATTTTTATAATTT
Found at i:41670254 original size:17 final size:18
Alignment explanation
Indices: 41670221--41670257 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
41670211 AGCAAAAATT
41670221 TATTTTAAAAATAAAAAA
1 TATTTTAAAAATAAAAAA
*
41670239 TATTTTAAAATTAAAAAA
1 TATTTTAAAAATAAAAAA
41670257 T
1 T
41670258 TAAAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TATTTTAAAAATAAAAAA
Found at i:41670639 original size:19 final size:20
Alignment explanation
Indices: 41670602--41670638 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
41670592 TTATAGTATT
*
41670602 TATATATTTTTAAAATTTTC
1 TATATATTTCTAAAATTTTC
41670622 TATA-ATTTCT-AAATTTT
1 TATATATTTCTAAAATTTT
41670639 TATTTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 7 0.44
19 5 0.31
20 4 0.25
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
TATATATTTCTAAAATTTTC
Found at i:41671106 original size:34 final size:34
Alignment explanation
Indices: 41671057--41671166 Score: 148
Period size: 34 Copynumber: 3.2 Consensus size: 34
41671047 AATAAATCAA
* *
41671057 GGTTTAGAGTTTTTTAAAAAAATTAATTAAATTTG
1 GGTTTAGAG-GTTTTAAAAAAATTAATTAAATTAG
* * *
41671092 GTTTTAGGGGTTTTAAATAAATTAATTAAATTAG
1 GGTTTAGAGGTTTTAAAAAAATTAATTAAATTAG
* *
41671126 GGTTTAGAGTTTTTAAGAAAATTAATTAAATTAG
1 GGTTTAGAGGTTTTAAAAAAATTAATTAAATTAG
41671160 GGTTTAG
1 GGTTTAG
41671167 TTTTTTTAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
34 58 0.89
35 7 0.11
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (34 bp):
GGTTTAGAGGTTTTAAAAAAATTAATTAAATTAG
Found at i:41671173 original size:34 final size:33
Alignment explanation
Indices: 41671057--41671182 Score: 144
Period size: 34 Copynumber: 3.7 Consensus size: 33
41671047 AATAAATCAA
* *
41671057 GGTTTAGAGTTTTTTAAAAAAATTAATTAAATTTG
1 GGTTTAG-GGTTTTT-AAAAAATTAATTAAATTAG
* *
41671092 GTTTTAGGGGTTTTAAATAAATTAATTAAATTAG
1 GGTTTAGGGTTTTTAAA-AAATTAATTAAATTAG
*
41671126 GGTTTAGAGTTTTTAAGAAAATTAATTAAATTAG
1 GGTTTAGGGTTTTTAA-AAAATTAATTAAATTAG
**
41671160 GGTTTAGTTTTTTTAAAATAATT
1 GGTTTAGGGTTTTTAAAA-AATT
41671183 TTGTGTTTAG
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
33 5 0.06
34 67 0.85
35 7 0.09
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (33 bp):
GGTTTAGGGTTTTTAAAAAATTAATTAAATTAG
Found at i:41671640 original size:125 final size:125
Alignment explanation
Indices: 41671267--41671789 Score: 762
Period size: 126 Copynumber: 4.2 Consensus size: 125
41671257 GATTTTGTAT
* * * * *
41671267 TTTTTTCTACAGTAGTTTCAGAAAAAATAATTTTGAGAAGACAATTCTGAAAAGATAATGTCAAA
1 TTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAA
* *
41671332 AACGCTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
66 AACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
*
41671392 TCTTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAA
1 T-TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAA
* * * * * * *
41671457 AAACGCTTCAAGTAAGATGTATTGTCAACAAAATTATTGAAAAAAGCTCCCACGTGGACGC
65 AAACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
** *
41671518 TCTTTTTCTGTAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTG-AAAAATAGTGTCAA
1 T-TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAA
* *
41671582 AAATGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACATGGACGC
65 AAACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
* *
41671643 TTCTTTTCTACAGTAGTTCCTAAAAAAATAA-TTTAACGAAGACAGTTCTGAAAAAATAGTGTCA
1 TT-TTTTCTACAGTAGTTCCTGAAAAAATAATTTTGA-GAAGACAGTTCTGAAAAAATAGTGTCA
* * * *
41671707 AAAATGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTTCCACGTTGACAC
64 AAAACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
41671769 TTTTTTCTACAGTAGTTCCTG
1 TTTTTTCTACAGTAGTTCCTG
41671790 CTTGGCCTTA
Statistics
Matches: 362, Mismatches: 32, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
124 5 0.01
125 123 0.34
126 234 0.65
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (125 bp):
TTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAA
AACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
Found at i:41671718 original size:251 final size:251
Alignment explanation
Indices: 41671267--41671789 Score: 773
Period size: 251 Copynumber: 2.1 Consensus size: 251
41671257 GATTTTGTAT
* *
41671267 TTTTTTCTACAGTAGTTTCAGAAAAAATAATTTTGAGAAGACAATTCTGAAAAGATAATGTCAAA
1 TTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAATTCTGAAAAGATAATGTCAAA
* * *
41671332 AACGCTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTT
66 AACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACATGGACGCTCTTT
* * *
41671397 TTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAAATAGTGTCAAAAACG
131 TTCTACAGTAGTTCCTAAAAAAATAATTTTAAGAAGACAGTTCTGAAAAAATAGTGTCAAAAACG
* * * * * *
41671462 CTTCAAGTAAGATGTATTGTCAACAAAATTATTGAAAAAAGCTCCCACGTGGACGC
196 CTTCAAGCAAGATGCACTATCAACAAAATTACTGAAAAAAGCTCCCACGTGGACAC
** ** *
41671518 TCTTTTTCTGTAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAA-ATAGTGTCAA
1 T-TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAATTCTGAAAAGATAATGTCAA
*
41671582 AAATGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACATGGACGCT-TC
65 AAACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACATGGACGCTCT-
41671646 TTTTCTACAGTAGTTCCTAAAAAAATAA-TTTAACGAAGACAGTTCTGAAAAAATAGTGTCAAAA
129 TTTTCTACAGTAGTTCCTAAAAAAATAATTTTAA-GAAGACAGTTCTGAAAAAATAGTGTCAAAA
* * * * *
41671710 ATGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTTCCACGTTGACAC
193 ACGCTTCAAGCAAGATGCACTATCAACAAAATTACTGAAAAAAGCTCCCACGTGGACAC
41671769 TTTTTTCTACAGTAGTTCCTG
1 TTTTTTCTACAGTAGTTCCTG
41671790 CTTGGCCTTA
Statistics
Matches: 242, Mismatches: 27, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
250 23 0.10
251 173 0.71
252 46 0.19
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (251 bp):
TTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAATTCTGAAAAGATAATGTCAAA
AACGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACATGGACGCTCTTT
TTCTACAGTAGTTCCTAAAAAAATAATTTTAAGAAGACAGTTCTGAAAAAATAGTGTCAAAAACG
CTTCAAGCAAGATGCACTATCAACAAAATTACTGAAAAAAGCTCCCACGTGGACAC
Found at i:41674115 original size:13 final size:13
Alignment explanation
Indices: 41674097--41674129 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
41674087 TTCTTTATTA
41674097 CTTTTGAGAAGTG
1 CTTTTGAGAAGTG
41674110 CTTTTGAGAAGTG
1 CTTTTGAGAAGTG
41674123 CTTTTGA
1 CTTTTGA
41674130 AGAATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.21, C:0.09, G:0.27, T:0.42
Consensus pattern (13 bp):
CTTTTGAGAAGTG
Found at i:41676687 original size:18 final size:18
Alignment explanation
Indices: 41676666--41676713 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
41676656 CCCATCAATT
*
41676666 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
*
41676684 TGAACATAATTTAAAATG
1 TGAACATCATTTAAAATG
41676702 TGAACATCATTT
1 TGAACATCATTT
41676714 CTTATATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:41687971 original size:50 final size:50
Alignment explanation
Indices: 41687803--41687990 Score: 236
Period size: 51 Copynumber: 3.7 Consensus size: 50
41687793 TATCGATGAA
* * *
41687803 CACGTGTGTAGTACAATGTGAAGGCTACTACGTGTATCGATAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCG-TAAA-ACTTGGT
* * *
41687854 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAA-C-TTGGT
* **
41687905 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTAAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAACTTGGT
*
41687955 CATGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
41687991 TCGAATGATA
Statistics
Matches: 119, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
48 1 0.01
49 3 0.03
50 37 0.31
51 74 0.62
52 4 0.03
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAACTTGGT
Found at i:41691225 original size:12 final size:11
Alignment explanation
Indices: 41691210--41691239 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
41691200 AAAAAATAAA
41691210 AAAAAGTATTTT
1 AAAAA-TATTTT
41691222 AAAAATATTTT
1 AAAAATATTTT
41691233 AAAAATA
1 AAAAATA
41691240 AAAAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:41691261 original size:31 final size:32
Alignment explanation
Indices: 41691180--41691246 Score: 95
Period size: 29 Copynumber: 2.2 Consensus size: 32
41691170 AATAAACACC
* *
41691180 AAAAAATTATTTTAAAAATA---AAAAAATAA
1 AAAAAAGTATTTTAAAAATATTTTAAAAATAA
41691209 AAAAAAGTATTTTAAAAATATTTTAAAAATAA
1 AAAAAAGTATTTTAAAAATATTTTAAAAATAA
41691241 AAAAAA
1 AAAAAA
41691247 TTTTTATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 19 0.58
32 14 0.42
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.28
Consensus pattern (32 bp):
AAAAAAGTATTTTAAAAATATTTTAAAAATAA
Found at i:41692006 original size:55 final size:59
Alignment explanation
Indices: 41691895--41692005 Score: 140
Period size: 58 Copynumber: 1.9 Consensus size: 59
41691885 GAACTTCTAA
*
41691895 TTTATTAAATAGAACAAAATATAAAAATAATTTACTATTAAAATATTCAAAAAAAATTAT
1 TTTATTAAATAGAACAAAATATAAAAATAATTTACTATCAAAATATT-AAAAAAAATTAT
* * *
41691955 TTTATTAAAT-GAA-ACAATATAAAAATAGTTT-GTA-CAAATATATTAAAAAAA
1 TTTATTAAATAGAACAAAATATAAAAATAATTTACTATCAAA-ATATTAAAAAAA
41692006 TCAATGTATG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
56 10 0.22
57 7 0.15
58 16 0.35
59 3 0.07
60 10 0.22
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.34
Consensus pattern (59 bp):
TTTATTAAATAGAACAAAATATAAAAATAATTTACTATCAAAATATTAAAAAAAATTAT
Found at i:41722169 original size:22 final size:20
Alignment explanation
Indices: 41722130--41722181 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
41722120 TGCAAAGTTG
41722130 ATAATAATTAATATATATT-
1 ATAATAATTAATATATATTA
41722149 ATAATAGATATAATTATATATTA
1 ATAATA-AT-TAA-TATATATTA
*
41722172 ATAATTATTA
1 ATAATAATTA
41722182 TCTTATTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 6 0.21
20 2 0.07
21 5 0.18
22 10 0.36
23 5 0.18
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
ATAATAATTAATATATATTA
Found at i:41728731 original size:25 final size:25
Alignment explanation
Indices: 41728677--41728760 Score: 87
Period size: 25 Copynumber: 3.4 Consensus size: 25
41728667 GGTTACTGAT
* * **
41728677 TTCAGCTCGTATGAGCTTACCAATA
1 TTCAGCTCGCATAAGCTTACCGTTA
*
41728702 TTCAGCTCGCATTAGCTTACCGTTA
1 TTCAGCTCGCATAAGCTTACCGTTA
* * * *
41728727 ATCAGCTCGGAGAAGGTTACCGTTA
1 TTCAGCTCGCATAAGCTTACCGTTA
41728752 TTCAGCTCG
1 TTCAGCTCG
41728761 GAAGCGCNTT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (25 bp):
TTCAGCTCGCATAAGCTTACCGTTA
Found at i:41734212 original size:22 final size:24
Alignment explanation
Indices: 41734170--41734214 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
41734160 TCACTTATCT
*
41734170 TTTCTTCCATTACATTCTCCAATA
1 TTTCTTCCAGTACATTCTCCAATA
41734194 TTTCTTCCAGT-C-TTCTCCAAT
1 TTTCTTCCAGTACATTCTCCAAT
41734215 GGCTTGGCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 1 0.05
24 10 0.50
ACGTcount: A:0.20, C:0.31, G:0.02, T:0.47
Consensus pattern (24 bp):
TTTCTTCCAGTACATTCTCCAATA
Found at i:41735406 original size:24 final size:24
Alignment explanation
Indices: 41735344--41735408 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
41735334 CCATTTTCTG
41735344 ATGCTGCTGAGGAGCCCACTCAAA
1 ATGCTGCTGAGGAGCCCACTCAAA
* * *
41735368 ATGCTACTGAGGAGCCTACTCAAC
1 ATGCTGCTGAGGAGCCCACTCAAA
* *
41735392 ATGCTGCTAAAGAGCCC
1 ATGCTGCTGAGGAGCCC
41735409 GAAAAGGTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.18
Consensus pattern (24 bp):
ATGCTGCTGAGGAGCCCACTCAAA
Found at i:41739330 original size:28 final size:30
Alignment explanation
Indices: 41739290--41739359 Score: 108
Period size: 28 Copynumber: 2.4 Consensus size: 30
41739280 CTATCGAATT
*
41739290 ATGAAAAGGGATGGTGACGA-CATC-AACA
1 ATGAAAAGGGATGATGACGACCATCGAACA
*
41739318 ATGAAAAAGGATGATGACGACCATCGAACA
1 ATGAAAAGGGATGATGACGACCATCGAACA
41739348 ATGAAAAGGGAT
1 ATGAAAAGGGAT
41739360 AGCTTCGGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 18 0.49
29 4 0.11
30 15 0.41
ACGTcount: A:0.46, C:0.13, G:0.27, T:0.14
Consensus pattern (30 bp):
ATGAAAAGGGATGATGACGACCATCGAACA
Found at i:41739430 original size:70 final size:69
Alignment explanation
Indices: 41739297--41739437 Score: 178
Period size: 70 Copynumber: 2.0 Consensus size: 69
41739287 ATTATGAAAA
* * *
41739297 GGGATGGTGACGACATCAACAATGAAAAAGGATGATGACGACCATCGAACAATGAAAAGGGATAG
1 GGGATGGTGACGACATCAACAATGAAAAAGGATGATGACAACCATCAAACAATGAAAAAGGATAG
41739362 CTTC
66 CTTC
* * * *
41739366 GGGATGGTGATGACCATCAATAAT-AAAAAGGGAT-AGTGACAATCATCAAATAATGAAAAAGGA
1 GGGATGGTGACGA-CATCAACAATGAAAAA-GGATGA-TGACAACCATCAAACAATGAAAAAGGA
41739429 TAGCTTC
63 TAGCTTC
41739436 GG
1 GG
41739438 CTATTGAGCT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
69 18 0.29
70 44 0.71
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.18
Consensus pattern (69 bp):
GGGATGGTGACGACATCAACAATGAAAAAGGATGATGACAACCATCAAACAATGAAAAAGGATAG
CTTC
Found at i:41739452 original size:30 final size:30
Alignment explanation
Indices: 41739418--41739484 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
41739408 TCATCAAATA
*
41739418 ATGAAAAAGGATAGCTTCGGCTATTGAGCT
1 ATGAAAAAGGATAGCTTCGGCTATCGAGCT
* * *
41739448 ATGAATAGGGATAGCTTTGGCTATCGAGCT
1 ATGAAAAAGGATAGCTTCGGCTATCGAGCT
41739478 ATGAAAA
1 ATGAAAA
41739485 GGGTTGGGAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.27
Consensus pattern (30 bp):
ATGAAAAAGGATAGCTTCGGCTATCGAGCT
Found at i:41754002 original size:30 final size:29
Alignment explanation
Indices: 41753966--41754089 Score: 115
Period size: 29 Copynumber: 4.2 Consensus size: 29
41753956 GTGTGCTAAA
* *
41753966 CGATGGTCGAAACCATCCATTTTCTTTAAT
1 CGATGGTCGAAACCATCCCTTTTC-ATAAT
** *
41753996 CGATGGTCGTCACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* * *
41754025 CAATGGTCGAAGCCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATAAT
* * *
41754054 CAATGGTCGACACCAT-CCTCTTTCTTTAAT
1 CGATGGTCGAAACCATCCCT-TTTC-ATAAT
41754084 CGATGG
1 CGATGG
41754090 GTGTCGATAC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
28 3 0.04
29 46 0.59
30 29 0.37
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATAAT
Found at i:41754077 original size:29 final size:29
Alignment explanation
Indices: 41753968--41754076 Score: 130
Period size: 29 Copynumber: 3.7 Consensus size: 29
41753958 GTGCTAAACG
* * * * *
41753968 ATGGTCGAAACCATCCATTTTCTTTAATCG
1 ATGGTCGACACCATCCCTTTTC-ATATTCA
*
41753998 ATGGTCGTCACCATCCCTTTTCATATTCA
1 ATGGTCGACACCATCCCTTTTCATATTCA
41754027 ATGGTCGA-AGCCATCCCTTTTCATATTCA
1 ATGGTCGACA-CCATCCCTTTTCATATTCA
41754056 ATGGTCGACACCATCCTCTTT
1 ATGGTCGACACCATCC-CTTT
41754077 CTTTAATCGA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
28 1 0.01
29 44 0.64
30 24 0.35
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (29 bp):
ATGGTCGACACCATCCCTTTTCATATTCA
Found at i:41759290 original size:51 final size:51
Alignment explanation
Indices: 41759235--41759575 Score: 357
Period size: 51 Copynumber: 6.7 Consensus size: 51
41759225 CTTTTATCAT
*
41759235 TCGATACATGTAGTAGCCTTCACACAGTACTACACATGTGACCATCATTTA
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACATGTGACCATCATTTA
* * * * * ***
41759286 TCGATTCACGTAGTAGCCTTCATATAGTACTACACACGTGATCAAGTTTTA
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACATGTGACCATCATTTA
* * * * * * *
41759337 -CGGTTCACGTAGTAGCCTTCACAGAATACTACACACGTGACCAAAGCTTTTA
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACATGTGACC--ATCATTTA
* * * **
41759389 -AG-TACACATAGTACCCTTCACTTAGTACTACACATGTGACCATCATTTA
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACATGTGACCATCATTTA
* * * *
41759438 TCGATTCACGTAGTAGCCTTCACACAGTACTACACATGTGACCA-AAGCTTC
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACATGTGACCATCA-TTTA
* * * **
41759489 TCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACATGTGACCATCATTTA
41759540 TCGATACACGTAGTAGCCTTCACACAGTACTACACA
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACA
41759576 CGTGTTCATC
Statistics
Matches: 235, Mismatches: 49, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
49 6 0.03
50 39 0.17
51 182 0.77
52 8 0.03
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.29
Consensus pattern (51 bp):
TCGATACACGTAGTAGCCTTCACACAGTACTACACATGTGACCATCATTTA
Found at i:41759431 original size:152 final size:153
Alignment explanation
Indices: 41759245--41759575 Score: 427
Period size: 152 Copynumber: 2.2 Consensus size: 153
41759235 TCGATACATG
* *
41759245 TAGTAGCCTTCACACAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTTCATA
1 TAGTACCCTTCACACAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTTCACA
* * * * *
41759310 TAGTACTACACACGTGATC-AAG-TTTTACGGTTCACGTAGTAGCCTTCACAGAATACTACACAC
66 CAGTACTACACACGTGACCAAAGCTTCT-CGGTACACATAGTAGCCTTCACAGAATACTACACAC
41759373 GTGACCAAAGCTTTTAAGTACACA
130 GTGACCAAAGCTTTTAAGTACACA
**
41759397 TAGTACCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTTCACA
1 TAGTACCCTTCACACAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTTCACA
* * ** * *
41759462 CAGTACTACACATGTGACCAAAGCTTCTCGGTACACATTGTAGCCTTCACTTAGTACTACACATG
66 CAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGTAGCCTTCACAGAATACTACACACG
* * * *
41759527 TGACC--ATCATTTATCGATACACG
131 TGACCAAAGCTTTTA-AG-TACACA
*
41759550 TAGTAGCCTTCACACAGTACTACACA
1 TAGTACCCTTCACACAGTACTACACA
41759576 CGTGTTCATC
Statistics
Matches: 153, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
151 6 0.04
152 78 0.51
153 66 0.43
154 3 0.02
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.29
Consensus pattern (153 bp):
TAGTACCCTTCACACAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTTCACA
CAGTACTACACACGTGACCAAAGCTTCTCGGTACACATAGTAGCCTTCACAGAATACTACACACG
TGACCAAAGCTTTTAAGTACACA
Found at i:41759479 original size:102 final size:102
Alignment explanation
Indices: 41759235--41759575 Score: 429
Period size: 102 Copynumber: 3.4 Consensus size: 102
41759225 CTTTTATCAT
* * * * * *
41759235 TCGATACATGTAGTAGCCTTCACACAGTACTACACATGTGACC--ATCATTTATCGATTCACGTA
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACATGTGACCAAAGCTTTTA-AG-TACACATA
* * ***
41759298 GTAGCCTTCA-TATAGTACTACACACGTGATCAAGTTTTA
64 GTAGCCTTCACT-TAGTACTACACATGTGACCATCATTTA
* * * * *
41759337 -CGGTTCACGTAGTAGCCTTCACAGAATACTACACACGTGACCAAAGCTTTTAAGTACACATAGT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACATGTGACCAAAGCTTTTAAGTACACATAGT
*
41759401 ACCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * ** *
41759438 TCGATTCACGTAGTAGCCTTCACACAGTACTACACATGTGACCAAAGCTTCTCGGTACACATTGT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACATGTGACCAAAGCTTTTAAGTACACATAGT
41759503 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
41759540 TCGATACACGTAGTAGCCTTCACACAGTACTACACA
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACA
41759576 CGTGTTCATC
Statistics
Matches: 208, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
101 73 0.35
102 129 0.62
103 6 0.03
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.29
Consensus pattern (102 bp):
TCGATACACGTAGTAGCCTTCACACAGTACTACACATGTGACCAAAGCTTTTAAGTACACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
Found at i:41762682 original size:41 final size:42
Alignment explanation
Indices: 41762603--41762683 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 42
41762593 TGTTTTCTCG
**
41762603 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATCA
1 ATGCCATAGTCCAACTATGGTCTTACACATATGCACATATCA
* *
41762645 ATGCCATAG-CCCAGTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGTCCAACTATGGTCTTACACA-TATGCACATAT
41762684 TACACTGATG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 23 0.68
42 11 0.32
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (42 bp):
ATGCCATAGTCCAACTATGGTCTTACACATATGCACATATCA
Found at i:41769842 original size:24 final size:24
Alignment explanation
Indices: 41769814--41769865 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
41769804 TTAGTAAGTC
* *
41769814 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
* *
41769838 AAATATATTATACTAATACATACT
1 AAATAAATTATACTAATAAATACT
41769862 AAAT
1 AAAT
41769866 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:41783377 original size:50 final size:50
Alignment explanation
Indices: 41783253--41783595 Score: 413
Period size: 50 Copynumber: 6.9 Consensus size: 50
41783243 AATAATAACA
* * * ** * * *
41783253 TGCCAAAGCCATGTCCTAGACATGATCTTACATGGGATGTTTCCTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * ** *
41783302 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *** *
41783352 TGCCCATGCCATGTCTCAGACATGGTCTTATGGGGGACCTCGCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
41783402 TGCCAACGCCATGTCCCAGACATGGTATTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
41783452 TGCCAACGCCATGTCCCATACATGGTCTTAAATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
41783502 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
41783552 TGCCAA-GCTATGTCCTAGACATGGTCTTACATGGGACCTCTCAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
41783596 AATTTAAATA
Statistics
Matches: 254, Mismatches: 38, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
48 1 0.00
49 73 0.29
50 180 0.71
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:41784113 original size:8 final size:8
Alignment explanation
Indices: 41784100--41784127 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
41784090 TTTCGTTTTA
41784100 TTCTACAT
1 TTCTACAT
41784108 TTCTACAT
1 TTCTACAT
41784116 TTCTACAT
1 TTCTACAT
41784124 TTCT
1 TTCT
41784128 CAACTCATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.21, C:0.25, G:0.00, T:0.54
Consensus pattern (8 bp):
TTCTACAT
Found at i:41791382 original size:18 final size:17
Alignment explanation
Indices: 41791359--41791392 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
41791349 CAAGAAGTAG
41791359 TTTTCTAGTTGATCTAAA
1 TTTTCTAGTTGA-CTAAA
*
41791377 TTTTCTTGTTGACTAA
1 TTTTCTAGTTGACTAA
41791393 GAAATATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (17 bp):
TTTTCTAGTTGACTAAA
Found at i:41793697 original size:15 final size:15
Alignment explanation
Indices: 41793677--41793707 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
41793667 GTACAGTGCA
*
41793677 TTTATTTATACTAAG
1 TTTATTTACACTAAG
41793692 TTTATTTACACTAAG
1 TTTATTTACACTAAG
41793707 T
1 T
41793708 GTATAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (15 bp):
TTTATTTACACTAAG
Found at i:41795769 original size:14 final size:15
Alignment explanation
Indices: 41795742--41795777 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
41795732 CTACCATTTC
41795742 ACTATTTATGTTGTT
1 ACTATTTATGTTGTT
41795757 ACTATTT-TGTTGTT
1 ACTATTTATGTTGTT
*
41795771 ATTATTT
1 ACTATTT
41795778 GGATATAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.19, C:0.06, G:0.11, T:0.64
Consensus pattern (15 bp):
ACTATTTATGTTGTT
Found at i:41795901 original size:18 final size:19
Alignment explanation
Indices: 41795880--41795922 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
41795870 GATACATATT
41795880 TTTTTAATTTATTTTCA-A
1 TTTTTAATTTATTTTCATA
*
41795898 TTTTTAATTTATTTTGATA
1 TTTTTAATTTATTTTCATA
41795917 TTTTTA
1 TTTTTA
41795923 GTATTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTTAATTTATTTTCATA
Found at i:41800109 original size:32 final size:32
Alignment explanation
Indices: 41800068--41800135 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
41800058 TTTGATTCAA
41800068 TATCCATACCTACGTGAATAATTTAGAATTTC
1 TATCCATACCTACGTGAATAATTTAGAATTTC
41800100 TATCCATACCTACGTGAATAATTTAGAATTTC
1 TATCCATACCTACGTGAATAATTTAGAATTTC
41800132 TATC
1 TATC
41800136 TAGTAGTCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (32 bp):
TATCCATACCTACGTGAATAATTTAGAATTTC
Found at i:41813243 original size:21 final size:21
Alignment explanation
Indices: 41813219--41813258 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
41813209 TTCCATTTCA
41813219 TTTTCTTACACATTTCATTCC
1 TTTTCTTACACATTTCATTCC
* *
41813240 TTTTCTTACCCGTTTCATT
1 TTTTCTTACACATTTCATT
41813259 TGCATGGTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.28, G:0.03, T:0.55
Consensus pattern (21 bp):
TTTTCTTACACATTTCATTCC
Found at i:41820875 original size:27 final size:27
Alignment explanation
Indices: 41820276--41820873 Score: 678
Period size: 27 Copynumber: 22.1 Consensus size: 27
41820266 AGTGGTCGAT
* *
41820276 AAATGATCGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** * *
41820303 AAATGACCGAAATACCATCGTAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
** *
41820330 AAATGACCGAAATACCCCTGTAGCGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** **
41820357 AAATGACTAAAATACCCCTGTAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
41820384 AAATGACCGAAATA-CCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
41820410 AAATGACC-AAGATACCCCAATAGGGAA
1 AAATGACCGAA-ATACCCCCATAGGGTA
* * *
41820437 AAATGACCGAAATAGCCCCAGAGAGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** *
41820464 AAATGACCGAAATACTGCCATAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
41820491 AAAAGACTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
41820518 AAATAACCAAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
41820545 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
41820572 GAATGATCGAAATACCCCCATAGGGTT
1 AAATGACCGAAATACCCCCATAGGGTA
* *
41820599 AAATGATCGAAATACCCCTCATAAGGTA
1 AAATGACCGAAATACCCC-CATAGGGTA
**
41820627 AAATGACCGAAATACCCTAATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
41820654 GAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** *
41820681 AAATGACTAAAATACCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
41820708 GAATGACCAAAATACCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
41820735 AAATGACCGAAATACCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* **
41820762 AAATGACCGAAAGACCCCCATATAGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
41820789 AAGTAACTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
41820816 GAATGACCGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
41820843 AAATAATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
41820870 AAAT
1 AAAT
41820874 AACTGTTATA
Statistics
Matches: 482, Mismatches: 85, Indels: 8
0.84 0.15 0.01
Matches are distributed among these distances:
25 2 0.00
26 20 0.04
27 435 0.90
28 25 0.05
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.18
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:41823718 original size:19 final size:19
Alignment explanation
Indices: 41823694--41823730 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
41823684 CCCCTTCATC
41823694 TTCTT-AAACCTCTCTAAAT
1 TTCTTAAAACCTCT-TAAAT
41823713 TTCTTAAAACCTCTTAAA
1 TTCTTAAAACCTCTTAAA
41823731 CCTTAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (19 bp):
TTCTTAAAACCTCTTAAAT
Found at i:41825037 original size:12 final size:12
Alignment explanation
Indices: 41825022--41825051 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
41825012 ATTAGGAGAT
41825022 GGATAAGGATGA
1 GGATAAGGATGA
41825034 GGATAAGGATGA
1 GGATAAGGATGA
*
41825046 GTATAA
1 GGATAA
41825052 CTTAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (12 bp):
GGATAAGGATGA
Found at i:41842641 original size:16 final size:17
Alignment explanation
Indices: 41842620--41842652 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
41842610 TTGTTTTGTT
41842620 ATATGTTCTG-TATATG
1 ATATGTTCTGATATATG
*
41842636 ATATGTTTTGATATATG
1 ATATGTTCTGATATATG
41842653 CTAGAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.27, C:0.03, G:0.18, T:0.52
Consensus pattern (17 bp):
ATATGTTCTGATATATG
Found at i:41865130 original size:31 final size:31
Alignment explanation
Indices: 41865067--41865130 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
41865057 TTTTTCAGAA
* *
41865067 TTTGAGCAAACTTTCCTTTGCTCTTTATTCT
1 TTTGAACAAACTTTCCTTTGCTCTTTAATCT
* *
41865098 TTTGAACAAACTTTCCTTTGTTTTTTAATCT
1 TTTGAACAAACTTTCCTTTGCTCTTTAATCT
41865129 TT
1 TT
41865131 CTTCTTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.08, T:0.55
Consensus pattern (31 bp):
TTTGAACAAACTTTCCTTTGCTCTTTAATCT
Found at i:41876704 original size:20 final size:21
Alignment explanation
Indices: 41876668--41876713 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
41876658 ACCACCAGTA
41876668 CAATA-ATGCAGATAAACTAC
1 CAATATATGCAGATAAACTAC
*
41876688 CAATATATGCAGA-AAACTGC
1 CAATATATGCAGATAAACTAC
41876708 CAATAT
1 CAATAT
41876714 TGTGGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.48, C:0.20, G:0.11, T:0.22
Consensus pattern (21 bp):
CAATATATGCAGATAAACTAC
Found at i:41885877 original size:23 final size:23
Alignment explanation
Indices: 41885846--41885893 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
41885836 CATGTATATA
41885846 TATAAATATTATTATCAAGTCAT
1 TATAAATATTATTATCAAGTCAT
*
41885869 TATATATATTATTATCAAGTCAT
1 TATAAATATTATTATCAAGTCAT
41885892 TA
1 TA
41885894 AACTTATCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (23 bp):
TATAAATATTATTATCAAGTCAT
Found at i:41888529 original size:18 final size:17
Alignment explanation
Indices: 41888508--41888542 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
41888498 TCGGCTAGCA
41888508 TGAGAAATTGTGAAATTT
1 TGAGAAATT-TGAAATTT
41888526 TGAGAAATTTGAAATTT
1 TGAGAAATTTGAAATTT
41888543 CGGGTTTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (17 bp):
TGAGAAATTTGAAATTT
Found at i:41895536 original size:37 final size:37
Alignment explanation
Indices: 41895474--41895614 Score: 153
Period size: 37 Copynumber: 3.8 Consensus size: 37
41895464 AATACAAAAT
*
41895474 AGTGGCATG-TATTAACATGCGATCAATAATTCAATAAC
1 AGTGGCATGCT-TT-ACATGCAATCAATAATTCAATAAC
* * * *
41895512 AGTGGCATGCTTTACATGTAATCAATAAAT-ACAGAAT
1 AGTGGCATGCTTTACATGCAATCAATAATTCA-ATAAC
* *
41895549 AGTGGCATG-TATTAACATGCGATCAGTAATTCAATAAC
1 AGTGGCATGCT-TT-ACATGCAATCAATAATTCAATAAC
41895587 AGTGGCATGCTTTACATGCAATCAATAA
1 AGTGGCATGCTTTACATGCAATCAATAA
41895615 ATACAAAATA
Statistics
Matches: 84, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
36 2 0.02
37 41 0.49
38 38 0.45
39 3 0.04
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (37 bp):
AGTGGCATGCTTTACATGCAATCAATAATTCAATAAC
Found at i:41895587 original size:75 final size:75
Alignment explanation
Indices: 41895464--41895626 Score: 299
Period size: 75 Copynumber: 2.2 Consensus size: 75
41895454 AGTTACGTAC
41895464 AATACAAAATAGTGGCATGTATTAACATGCGATCAATAATTCAATAACAGTGGCATGCTTTACAT
1 AATACAAAATAGTGGCATGTATTAACATGCGATCAATAATTCAATAACAGTGGCATGCTTTACAT
*
41895529 GTAATCAATA
66 GCAATCAATA
* *
41895539 AATACAGAATAGTGGCATGTATTAACATGCGATCAGTAATTCAATAACAGTGGCATGCTTTACAT
1 AATACAAAATAGTGGCATGTATTAACATGCGATCAATAATTCAATAACAGTGGCATGCTTTACAT
41895604 GCAATCAATA
66 GCAATCAATA
41895614 AATACAAAATAGT
1 AATACAAAATAGT
41895627 AAGCATGTTC
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 84 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (75 bp):
AATACAAAATAGTGGCATGTATTAACATGCGATCAATAATTCAATAACAGTGGCATGCTTTACAT
GCAATCAATA
Found at i:41896575 original size:14 final size:15
Alignment explanation
Indices: 41896540--41896581 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
41896530 TAGAGAGGAA
41896540 GAAAAGAGAGAAAACGG
1 GAAAA-AGAGAAAAC-G
41896557 GAAAAAGAGAAAA-G
1 GAAAAAGAGAAAACG
*
41896571 GAAAATGAGAA
1 GAAAAAGAGAA
41896582 GGGTGGCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 11 0.46
16 8 0.33
17 5 0.21
ACGTcount: A:0.64, C:0.02, G:0.31, T:0.02
Consensus pattern (15 bp):
GAAAAAGAGAAAACG
Found at i:41898438 original size:20 final size:20
Alignment explanation
Indices: 41898415--41898478 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
41898405 TTACACAATT
*
41898415 GTGCATCTGTTTGCACTTCA
1 GTGCATCTGATTGCACTTCA
* *
41898435 GTGCGTCTGATTGCACTTCG
1 GTGCATCTGATTGCACTTCA
** * *
41898455 GTGCCCCTGATAGCACTACA
1 GTGCATCTGATTGCACTTCA
41898475 GTGC
1 GTGC
41898479 TCCCTAGTGT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.16, C:0.28, G:0.25, T:0.31
Consensus pattern (20 bp):
GTGCATCTGATTGCACTTCA
Found at i:41900364 original size:14 final size:14
Alignment explanation
Indices: 41900341--41900375 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
41900331 CGCCTCCCTT
41900341 GAGTACTATCCTCG
1 GAGTACTATCCTCG
*
41900355 GAGTATTATCCTCG
1 GAGTACTATCCTCG
41900369 GAGTACT
1 GAGTACT
41900376 CACCTACTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (14 bp):
GAGTACTATCCTCG
Found at i:41901461 original size:12 final size:12
Alignment explanation
Indices: 41901444--41901475 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
41901434 TGTTTGATGA
41901444 TTAATGAATGTT
1 TTAATGAATGTT
*
41901456 TTAATGAATTTT
1 TTAATGAATGTT
41901468 TTAATGAA
1 TTAATGAA
41901476 AACTATTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (12 bp):
TTAATGAATGTT
Found at i:41901462 original size:19 final size:19
Alignment explanation
Indices: 41901425--41901462 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
41901415 ATAACATGTT
*
41901425 TTAACTGAATGTTTGATGA
1 TTAACTGAATGTTTAATGA
41901444 TTAA-TGAATGTTTTAATGA
1 TTAACTGAATG-TTTAATGA
41901463 ATTTTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (19 bp):
TTAACTGAATGTTTAATGA
Found at i:41904003 original size:14 final size:14
Alignment explanation
Indices: 41903984--41904010 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
41903974 AAAGCTTAAC
41903984 TTTTAAAAAATATT
1 TTTTAAAAAATATT
41903998 TTTTAAAAAATAT
1 TTTTAAAAAATAT
41904011 AAATTATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTTAAAAAATATT
Found at i:41904078 original size:18 final size:18
Alignment explanation
Indices: 41904001--41904081 Score: 53
Period size: 18 Copynumber: 4.4 Consensus size: 18
41903991 AAATATTTTT
* *
41904001 TAAAAAA-TATAAATTAT
1 TAAAAAATTAAAAATTAA
41904018 TAAAAAATTATTAAAA-TATA
1 TAAAAAATTA--AAAATTA-A
*
41904038 TAAAAATATCAAATAAATT--
1 TAAAAA-AT-TAA-AAATTAA
41904057 TAAAAAATTAAAAATTAA
1 TAAAAAATTAAAAATTAA
41904075 TAAAAAA
1 TAAAAAA
41904082 CTATTTAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 19
0.68 0.05 0.26
Matches are distributed among these distances:
16 5 0.10
17 9 0.18
18 11 0.22
19 8 0.16
20 10 0.20
21 5 0.10
22 2 0.04
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAAAATTAAAAATTAA
Found at i:41904696 original size:10 final size:10
Alignment explanation
Indices: 41904683--41904751 Score: 66
Period size: 10 Copynumber: 6.5 Consensus size: 10
41904673 ATTAATTTTT
41904683 AATTTTTTAA
1 AATTTTTTAA
*
41904693 AATTTTTTGA
1 AATTTTTTAA
*
41904703 ACTTTATTTAA
1 AATTT-TTTAA
*
41904714 TATTTTTATAA
1 AATTTTT-TAA
41904725 AATTTAATTTAA
1 AATTT--TTTAA
*
41904737 AATTTTATAA
1 AATTTTTTAA
41904747 AATTT
1 AATTT
41904752 AAAAATAATT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
10 24 0.50
11 14 0.29
12 8 0.17
13 2 0.04
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:41904753 original size:22 final size:22
Alignment explanation
Indices: 41904688--41904753 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
41904678 TTTTTAATTT
* * *
41904688 TTTAAAATTTTTTGAACTTT-A
1 TTTAAAATTTTATAAAATTTAA
*
41904709 TTTAATATTTTTATAAAATTTAA
1 TTTAA-AATTTTATAAAATTTAA
41904732 TTTAAAATTTTATAAAATTTAA
1 TTTAAAATTTTATAAAATTTAA
41904754 AAATAATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
21 5 0.13
22 27 0.71
23 6 0.16
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTAAAATTTTATAAAATTTAA
Found at i:41904764 original size:22 final size:22
Alignment explanation
Indices: 41904715--41904764 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
41904705 TTTATTTAAT
*
41904715 ATTTTTATAAAATTTAATTTAAA
1 ATTTTTATAAAATTTAA-TAAAA
41904738 A-TTTTATAAAATTTAA-AAATA
1 ATTTTTATAAAATTTAATAAA-A
41904759 ATTTTT
1 ATTTTT
41904765 TTTTTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 2 0.08
21 2 0.08
22 19 0.79
23 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTTTATAAAATTTAATAAAA
Found at i:41906519 original size:125 final size:124
Alignment explanation
Indices: 41906293--41906524 Score: 360
Period size: 125 Copynumber: 1.9 Consensus size: 124
41906283 GGCCTTTCAA
* *
41906293 AGTTTTCCAAGCTAAAAAACATAAACTGTTCATCCACGTCAGCAAATCGCGTCCTCGTAGGCGCG
1 AGTTTTCCAAGCTAAAAAACATAAACTGTTCATCCACGTCAGCAAATCGCGTCCTAGTAGGAGCG
41906358 ATTTGTGTCCACGTAAGCAAAGCGCGCTGACATGGACGCGATGTTCTGACACGTCCCCT
66 ATTTGTGTCCACGTAAGCAAAGCGCGCTGACATGGACGCGATGTTCTGACACGTCCCCT
*
41906417 AGTTTTCCAAGCTAAAAAGCATAAACTGTTCATCCCACGTCAGCAAATCGCGTCCTAG-AGGGAG
1 AGTTTTCCAAGCTAAAAAACATAAACTGTTCAT-CCACGTCAGCAAATCGCGTCCTAGTA-GGAG
* ** *
41906481 CGATTTGCT-TCCACGTCAGCAACTCGCGCTGACGTGGACGCGAT
64 CGATTTG-TGTCCACGTAAGCAAAGCGCGCTGACATGGACGCGAT
41906525 TTCCTGGCGC
Statistics
Matches: 98, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
124 33 0.34
125 64 0.65
126 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (124 bp):
AGTTTTCCAAGCTAAAAAACATAAACTGTTCATCCACGTCAGCAAATCGCGTCCTAGTAGGAGCG
ATTTGTGTCCACGTAAGCAAAGCGCGCTGACATGGACGCGATGTTCTGACACGTCCCCT
Found at i:41907608 original size:44 final size:44
Alignment explanation
Indices: 41907520--41907610 Score: 137
Period size: 44 Copynumber: 2.1 Consensus size: 44
41907510 GTAGGTCAAG
* *
41907520 TAATATTAAAATAATCTACACTAATCAGAGTTTAACTGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAGAGTTTAACTGAGAAAC
* * *
41907564 TAATATTAAAATAACCTACACTAATTAGAGTTTAAGTGATAAAC
1 TAATATTAAAATAACCTACACTAATCAGAGTTTAACTGAGAAAC
41907608 TAA
1 TAA
41907611 AAATTGAGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCAGAGTTTAACTGAGAAAC
Found at i:41908043 original size:19 final size:21
Alignment explanation
Indices: 41908010--41908048 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
41908000 TCTATTTACG
*
41908010 AAAAACCTTAGTTTT-TAGAA
1 AAAAACCGTAGTTTTGTAGAA
41908030 AAAAACCGTA-TTTTGTAGA
1 AAAAACCGTAGTTTTGTAGA
41908049 GTTGCAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (21 bp):
AAAAACCGTAGTTTTGTAGAA
Found at i:41914878 original size:18 final size:19
Alignment explanation
Indices: 41914840--41914878 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
41914830 ATCGTTTCTA
*
41914840 TTTACAAAAAACCTTAGTT
1 TTTACAAAAAACCGTAGTT
*
41914859 TTTAGAAAAAACCGTA-TT
1 TTTACAAAAAACCGTAGTT
41914877 TT
1 TT
41914879 GTGGAGTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (19 bp):
TTTACAAAAAACCGTAGTT
Found at i:41918778 original size:44 final size:44
Alignment explanation
Indices: 41918709--41918799 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
41918699 GTAGGTCAAA
* * *
41918709 TAATATTAAAATAACCTACATTAATCAGATTTTATGTGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGGAAAC
* * *
41918753 TAATATTAATATAACCTATACTAATCAGAGTTTAAGTGGTAAAC
1 TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGGAAAC
41918797 TAA
1 TAA
41918800 AACAGAATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGGAAAC
Found at i:41937667 original size:19 final size:19
Alignment explanation
Indices: 41937643--41937755 Score: 163
Period size: 19 Copynumber: 5.8 Consensus size: 19
41937633 AATCATATAT
41937643 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
41937662 TCTAAGATTATATATCATC
1 TCTAAGATTGCATATCATA
41937681 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
41937700 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
41937721 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
41937740 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
41937756 CTCAAAATTT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
19 65 0.79
21 17 0.21
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:41937730 original size:40 final size:40
Alignment explanation
Indices: 41937643--41937754 Score: 183
Period size: 40 Copynumber: 2.9 Consensus size: 40
41937633 AATCATATAT
*
41937643 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATC
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
41937681 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
**
41937721 TCTTGGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
41937755 CCTCAAAATT
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 28 0.41
40 41 0.59
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:41941839 original size:214 final size:214
Alignment explanation
Indices: 41941470--41941897 Score: 757
Period size: 214 Copynumber: 2.0 Consensus size: 214
41941460 TAGCTAATAT
* *
41941470 ATTGAGGCTCCAAACTTACATTGATTTGGAAGAAGCAGTTCATAAAGCCATTGAGATCGAGCAAC
1 ATTGAGGCTACAAACTTACATTGATTTGGAAGAAGCAGTTCACAAAGCCATTGAGATCGAGCAAC
*
41941535 AACTAAAGGAACAAAGGTTTGGTTCCTTCTCGACTTCACAATATTACCGAGGTAACAATTCCAAT
66 AACTAAAGGAACAAAGGTTTGGGTCCTTCTCGACTTCACAATATTACCGAGGTAACAATTCCAAT
* * * * *
41941600 TCTGATTTTAAGAGTTCAAAATCACCTTTTGTTACTAATAAGTCTTCTTTGAGTAATGGAAGTAA
131 TCTGATTTTAAGAGCTCAAAATCACCTTTCGTTACTAACAAGCCTTCTTTGAGTAATGGAAGCAA
41941665 GCAATCAGATTGGAAAAAA
196 GCAATCAGATTGGAAAAAA
41941684 ATTGAGGCTACAAACTTACATTGATTTGGAAGAAGCAGTTCACAAAGCCATTGAGATCGAGCAAC
1 ATTGAGGCTACAAACTTACATTGATTTGGAAGAAGCAGTTCACAAAGCCATTGAGATCGAGCAAC
* * *
41941749 AATTAAAGGAACAAAGGTTTGGGTCCTTCTCTACTTCACAATATTATCGAGGTAACAATTCCAAT
66 AACTAAAGGAACAAAGGTTTGGGTCCTTCTCGACTTCACAATATTACCGAGGTAACAATTCCAAT
41941814 TCTGATTTTAAGAGCTCAAAATCACCTTTCGTTACTAACAAGCCTTCTTTGAGTAATGGAAGCAA
131 TCTGATTTTAAGAGCTCAAAATCACCTTTCGTTACTAACAAGCCTTCTTTGAGTAATGGAAGCAA
41941879 GCAATCAGATTGGAAAAAA
196 GCAATCAGATTGGAAAAAA
41941898 GGGGCTCCTG
Statistics
Matches: 203, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
214 203 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (214 bp):
ATTGAGGCTACAAACTTACATTGATTTGGAAGAAGCAGTTCACAAAGCCATTGAGATCGAGCAAC
AACTAAAGGAACAAAGGTTTGGGTCCTTCTCGACTTCACAATATTACCGAGGTAACAATTCCAAT
TCTGATTTTAAGAGCTCAAAATCACCTTTCGTTACTAACAAGCCTTCTTTGAGTAATGGAAGCAA
GCAATCAGATTGGAAAAAA
Found at i:41947034 original size:17 final size:16
Alignment explanation
Indices: 41947012--41947050 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
41947002 AAAACACGCT
41947012 TTCTCTTTGCTCTCTCA
1 TTCTCTTTGCTCT-TCA
* *
41947029 TTCTCTTTGTTCTTTA
1 TTCTCTTTGCTCTTCA
41947045 TTCTCT
1 TTCTCT
41947051 GTCTTTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.05, C:0.28, G:0.05, T:0.62
Consensus pattern (16 bp):
TTCTCTTTGCTCTTCA
Found at i:41954708 original size:45 final size:45
Alignment explanation
Indices: 41954676--41954865 Score: 274
Period size: 45 Copynumber: 4.2 Consensus size: 45
41954666 CCAGACCAGA
41954676 AACGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCT
1 AACGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCT
* * * *
41954721 ATCGAGTAAGACCATGACTGAAATACT-TTATGGCATTACGATTTT
1 AACGAGTAAGACCATGACTGAAAGA-TGTTATGGCATCACGATTCT
* *
41954766 AACGAGTAAGACCATGACTGAAAGACGTTATGGCATCATGATTCT
1 AACGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCT
* * *
41954811 ATCGAGTAAGACCATGACTGAAAAATGTTATGGCATCACAATTCT
1 AACGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCT
*
41954856 ATCGAGTAAG
1 AACGAGTAAG
41954866 CTGAAAGACA
Statistics
Matches: 128, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
45 127 0.99
46 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.27
Consensus pattern (45 bp):
AACGAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCT
Found at i:41961884 original size:19 final size:19
Alignment explanation
Indices: 41961860--41961898 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
41961850 GAACCTTTAA
41961860 CAGTTTTACGAATTCACCC
1 CAGTTTTACGAATTCACCC
41961879 CAGTTTTACGAATTCACCC
1 CAGTTTTACGAATTCACCC
41961898 C
1 C
41961899 CGGGCTAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.33, G:0.10, T:0.31
Consensus pattern (19 bp):
CAGTTTTACGAATTCACCC
Found at i:41964765 original size:41 final size:41
Alignment explanation
Indices: 41964704--41964987 Score: 345
Period size: 41 Copynumber: 6.9 Consensus size: 41
41964694 TTCTTACCTT
* * * * * *
41964704 TCGGGGCTTTAGCAGTGTTTTCGAAAAAGCACTGCTAATGC
1 TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
41964745 TCGGGGCTTTAGCGGCGTTTTTGAAAATGCGCCGCTAATGC
1 TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
41964786 TCGGGGGTTTTAGTGTCGTTTTTGAAAAAGCGCCGCTAATGC
1 TC-GGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
41964828 TCGGTGTTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGC
1 TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
** * * *
41964869 TCGGGGTTTTAGCGGTATTTTTTAAAAAGCACCGCTAGTGC
1 TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
41964910 T-TGGGTTTTAGCAGCGTTTTTTAAAAAGCGCCGCTAATGC
1 TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
41964950 TAGGGGCTTTCGCGGCGTTTTTGAAAAAGCGCCGCTAA
1 TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
41964988 AAACTTTTTA
Statistics
Matches: 211, Mismatches: 30, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
40 34 0.16
41 140 0.66
42 37 0.18
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.32
Consensus pattern (41 bp):
TCGGGGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:41964947 original size:81 final size:81
Alignment explanation
Indices: 41964704--41964987 Score: 354
Period size: 83 Copynumber: 3.5 Consensus size: 81
41964694 TTCTTACCTT
* * * * *
41964704 TCGGGGCTTTAGCAGTGTTTTCGAAAAAGCACTGCTAATGCTCGGGGCTTTAGCGGCGTTTTTGA
1 TCGGGGCTTTAGCGGTGTTTTTGAAAAAGCACCGCTAATGCTC-GGGTTTTAGCGGCGTTTTTTA
*
41964769 AAATGCGCCGCTAATGC
65 AAAAGCGCCGCTAATGC
* * *
41964786 TCGGGGGTTTTAG-TGTCGTTTTTGAAAAAGCGCCGCTAATGCTCGGTGTTTTAGCGGCGTTTTT
1 TC-GGGGCTTTAGCGGT-GTTTTTGAAAAAGCACCGCTAATGCTCGG-GTTTTAGCGGCGTTTTT
41964850 TAAAAAGCGCCGCTAATGC
63 TAAAAAGCGCCGCTAATGC
* * * * * *
41964869 TCGGGGTTTTAGCGGTATTTTTTAAAAAGCACCGCTAGTGCTTGGGTTTTAGCAGCGTTTTTTAA
1 TCGGGGCTTTAGCGGTGTTTTTGAAAAAGCACCGCTAATGCTCGGGTTTTAGCGGCGTTTTTTAA
41964934 AAAGCGCCGCTAATGC
66 AAAGCGCCGCTAATGC
* * * *
41964950 TAGGGGCTTTCGCGGCGTTTTTGAAAAAGCGCCGCTAA
1 TCGGGGCTTTAGCGGTGTTTTTGAAAAAGCACCGCTAA
41964988 AAACTTTTTA
Statistics
Matches: 175, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
81 65 0.37
82 40 0.23
83 70 0.40
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.32
Consensus pattern (81 bp):
TCGGGGCTTTAGCGGTGTTTTTGAAAAAGCACCGCTAATGCTCGGGTTTTAGCGGCGTTTTTTAA
AAAGCGCCGCTAATGC
Found at i:41965365 original size:14 final size:14
Alignment explanation
Indices: 41965346--41965401 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
41965336 GTTTAGGGAG
41965346 TATGGATTTAGGGT
1 TATGGATTTAGGGT
41965360 TATGGA-TTAGGGAT
1 TATGGATTTAGGG-T
41965374 TATGG-TTTAAGGGT
1 TATGGATTT-AGGGT
* *
41965388 T-GGGATTTAAGGT
1 TATGGATTTAGGGT
41965401 T
1 T
41965402 TAGGGGTTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
13 13 0.36
14 19 0.53
15 4 0.11
ACGTcount: A:0.23, C:0.00, G:0.36, T:0.41
Consensus pattern (14 bp):
TATGGATTTAGGGT
Found at i:41965403 original size:21 final size:21
Alignment explanation
Indices: 41965330--41965418 Score: 67
Period size: 21 Copynumber: 4.2 Consensus size: 21
41965320 GAGTTACTAT
41965330 TTTAAGGTTTAGGGAGTAT-GGA
1 TTTAAGGTTTAGGG-GT-TGGGA
* * *
41965352 TTT-AGGGTTATGGATTAGGGA
1 TTTAAGGTTTAGGGGTT-GGGA
* *
41965373 -TTATGGTTTAAGGGTTGGGA
1 TTTAAGGTTTAGGGGTTGGGA
*
41965393 TTTAAGGTTTAGGGGTTAGGA
1 TTTAAGGTTTAGGGGTTGGGA
41965414 GTTTA
1 -TTTA
41965419 GAGGATAGAT
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
19 1 0.02
20 7 0.13
21 37 0.71
22 7 0.13
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.39
Consensus pattern (21 bp):
TTTAAGGTTTAGGGGTTGGGA
Found at i:41965880 original size:21 final size:22
Alignment explanation
Indices: 41965842--41965894 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
41965832 GGATTTTTGG
* *
41965842 TTTAGAGTTTAAGGTTT-AGGT
1 TTTAGGGTTTAAGATTTAAGGT
*
41965863 TTTAGGGTTTAATATTTAAGGT
1 TTTAGGGTTTAAGATTTAAGGT
*
41965885 TTTGGGGTTT
1 TTTAGGGTTT
41965895 TAGGGTTAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (22 bp):
TTTAGGGTTTAAGATTTAAGGT
Found at i:41966747 original size:73 final size:73
Alignment explanation
Indices: 41966613--41966764 Score: 166
Period size: 73 Copynumber: 2.1 Consensus size: 73
41966603 TTCTTTTCTT
* *
41966613 TTAGTGGCGCTTTACATAAACGCTACAAAAATGTATTAGGAGTTAAGGAAACTACGTCG-TTT-T
1 TTAGTGGCGCTTTACATAAACGCCACAAAAATGTATTAGGAGTTAAGGAAACTACGCCGTTTTGT
41966676 CTATTGTTA
66 CTA-TGTTA
* * * * * ** *
41966685 TTAGTGGCGCTTTCCTTAAAACGCCGCAAAAATGTTTTAGGATTTATTGAAACGT-TGCCGTTTT
1 TTAGTGGCGCTTTACAT-AAACGCCACAAAAATGTATTAGGAGTTAAGGAAAC-TACGCCGTTTT
41966749 GTCTATGTTA
64 GTCTATGTTA
41966759 TTAGTG
1 TTAGTG
41966765 CCGTTTTTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
72 15 0.23
73 32 0.48
74 15 0.23
75 4 0.06
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (73 bp):
TTAGTGGCGCTTTACATAAACGCCACAAAAATGTATTAGGAGTTAAGGAAACTACGCCGTTTTGT
CTATGTTA
Found at i:41967392 original size:105 final size:105
Alignment explanation
Indices: 41967266--41967475 Score: 375
Period size: 105 Copynumber: 2.0 Consensus size: 105
41967256 TTTATTCTTA
*
41967266 ACTCATTTGCAGAGGAGAAATTTCCTAAACCCACCAATGTTATTCATGTTCTATTCTGTAAATAT
1 ACTCATTTACAGAGGAGAAATTTCCTAAACCCACCAATGTTATTCATGTTCTATTCTGTAAATAT
41967331 TCTGTAACTATTTAAGGATTCTGCCTCTTTTTACCTTTGT
66 TCTGTAACTATTTAAGGATTCTGCCTCTTTTTACCTTTGT
* *
41967371 ACTCATTTATAGAGGAGAAATTTCCTAAACCCACCAATGTTATTCATGTTTTATTCTGTAAATAT
1 ACTCATTTACAGAGGAGAAATTTCCTAAACCCACCAATGTTATTCATGTTCTATTCTGTAAATAT
* *
41967436 TCTGTAACTATTTAGGGATTCTGCCTCTTTTTACTTTTGT
66 TCTGTAACTATTTAAGGATTCTGCCTCTTTTTACCTTTGT
41967476 GTAAAGGTAT
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 100 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (105 bp):
ACTCATTTACAGAGGAGAAATTTCCTAAACCCACCAATGTTATTCATGTTCTATTCTGTAAATAT
TCTGTAACTATTTAAGGATTCTGCCTCTTTTTACCTTTGT
Found at i:41968993 original size:30 final size:31
Alignment explanation
Indices: 41968941--41969000 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
41968931 TTAATTTATT
41968941 TTAAAGTTCAAATTTACATAACTTACATAAA
1 TTAAAGTTCAAATTTACATAACTTACATAAA
41968972 TTAAAGTTCAAATTT-CATAACTTACATAA
1 TTAAAGTTCAAATTTACATAACTTACATAA
41969001 TTTACATAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 14 0.48
31 15 0.52
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (31 bp):
TTAAAGTTCAAATTTACATAACTTACATAAA
Done.