Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008323.1 Hibiscus syriacus cultivar Beakdansim tig00111027_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 5101972
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 24 of 26
Found at i:4783984 original size:31 final size:31
Alignment explanation
Indices: 4783944--4784011 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
4783934 TTACAATACA
*
4783944 GTCCTCCAACATTTAGTCTATTTGCAATATG
1 GTCCCCCAACATTTAGTCTATTTGCAATATG
*
4783975 GTCCCCCAACATTTAGTCTATTTGTAATATG
1 GTCCCCCAACATTTAGTCTATTTGCAATATG
4784006 GTCCCC
1 GTCCCC
4784012 AACTGTTTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (31 bp):
GTCCCCCAACATTTAGTCTATTTGCAATATG
Found at i:4785820 original size:31 final size:31
Alignment explanation
Indices: 4785782--4785859 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
4785772 TTGAACGGCC
4785782 GGGGACCATATTGCAAACCG-ACTAAATGTTG
1 GGGGACCATATTGCAAA-CGAACTAAATGTTG
*
4785813 GGGGACCATATTACAAACGAACTAAATGTTG
1 GGGGACCATATTGCAAACGAACTAAATGTTG
**
4785844 GGGGACTGTATTGCAA
1 GGGGACCATATTGCAA
4785860 GTTTTAAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 2 0.05
31 40 0.95
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (31 bp):
GGGGACCATATTGCAAACGAACTAAATGTTG
Found at i:4790044 original size:17 final size:17
Alignment explanation
Indices: 4790007--4790047 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
4789997 ATGCTCGACT
** *
4790007 GTTGACCGTTGACTTGC
1 GTTGACCGTTGACCGGA
4790024 GTTGACCGTTGACCGGA
1 GTTGACCGTTGACCGGA
4790041 GTTGACC
1 GTTGACC
4790048 CCAGTTAACC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.15, C:0.24, G:0.32, T:0.29
Consensus pattern (17 bp):
GTTGACCGTTGACCGGA
Found at i:4791551 original size:24 final size:24
Alignment explanation
Indices: 4791467--4791541 Score: 114
Period size: 24 Copynumber: 3.1 Consensus size: 24
4791457 ACAAACTTGG
*
4791467 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATCTGATACTTGACCTGA
* * *
4791491 ATTCTGATCCGATATTTGACATGA
1 ATTCTGATCTGATACTTGACCTGA
4791515 ATTCTGATCTGATACTTGACCTGA
1 ATTCTGATCTGATACTTGACCTGA
4791539 ATT
1 ATT
4791542 ATGTTTTGAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACCTGA
Found at i:4796279 original size:24 final size:24
Alignment explanation
Indices: 4796180--4796281 Score: 107
Period size: 24 Copynumber: 4.2 Consensus size: 24
4796170 ATTTCCGATT
* *
4796180 TGAATTCTGTTATGATACCTGACC
1 TGAATTCTGATATGATACTTGACC
* *
4796204 TGGATTTTGATATGATACTTGACC
1 TGAATTCTGATATGATACTTGACC
* * * *
4796228 T-AGATTTTGATCTGATATTTGACA
1 TGA-ATTCTGATATGATACTTGACC
*
4796252 TGAATTCTGATCTGATACTTGACC
1 TGAATTCTGATATGATACTTGACC
4796276 TGAATT
1 TGAATT
4796282 ATGTTTTGCT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
24 64 0.98
25 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (24 bp):
TGAATTCTGATATGATACTTGACC
Found at i:4800988 original size:24 final size:24
Alignment explanation
Indices: 4800961--4801048 Score: 99
Period size: 24 Copynumber: 3.7 Consensus size: 24
4800951 TAAATTTTGT
4800961 TATGATACCTT-ACCTGGATTCTGA
1 TATGATA-CTTGACCTGGATTCTGA
*
4800985 TATGATACTTGACCTGGATTTTGA
1 TATGATACTTGACCTGGATTCTGA
* * *
4801009 TCTGATATTTGACAT-GAGTTCTGA
1 TATGATACTTGACCTGGA-TTCTGA
*
4801033 TCTGATACTTGACCTG
1 TATGATACTTGACCTG
4801049 AATTATGTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
23 5 0.09
24 49 0.91
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (24 bp):
TATGATACTTGACCTGGATTCTGA
Found at i:4801015 original size:48 final size:48
Alignment explanation
Indices: 4800954--4801048 Score: 113
Period size: 48 Copynumber: 2.0 Consensus size: 48
4800944 TCCTATTTAA
* *
4800954 ATTTTGTTATGATACCTT-ACCTG-GATTCTGATATGATACTTGACCTGG
1 ATTTTGATATGATA-CTTGACATGAG-TTCTGATATGATACTTGACCTGG
* * *
4801002 ATTTTGATCTGATATTTGACATGAGTTCTGATCTGATACTTGACCTG
1 ATTTTGATATGATACTTGACATGAGTTCTGATATGATACTTGACCTG
4801049 AATTATGTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
47 2 0.05
48 37 0.93
49 1 0.03
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (48 bp):
ATTTTGATATGATACTTGACATGAGTTCTGATATGATACTTGACCTGG
Found at i:4804184 original size:24 final size:24
Alignment explanation
Indices: 4804073--4804174 Score: 116
Period size: 24 Copynumber: 4.2 Consensus size: 24
4804063 ATTTCCGATT
* *
4804073 TGAATTCTGTTATGATACCTGACC
1 TGAATTCTGATATGATACTTGACC
* *
4804097 T-AGATTCTGATCTGATATTTGACC
1 TGA-ATTCTGATATGATACTTGACC
** * *
4804121 TGAATTCTGATCCGATATTTGACA
1 TGAATTCTGATATGATACTTGACC
4804145 TGAATTCTGATATGATACTTGACC
1 TGAATTCTGATATGATACTTGACC
4804169 TGAATT
1 TGAATT
4804175 ATGTTTTGAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
23 1 0.02
24 64 0.97
25 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (24 bp):
TGAATTCTGATATGATACTTGACC
Found at i:4808782 original size:24 final size:24
Alignment explanation
Indices: 4808731--4808815 Score: 107
Period size: 24 Copynumber: 3.5 Consensus size: 24
4808721 ATTCTGTTAT
* **
4808731 GATACCTGACCTGGATTCTGATAT
1 GATACTTGACCTGGATTCTGATCC
4808755 GATACTTGACCTGGATTCTGATCC
1 GATACTTGACCTGGATTCTGATCC
* * * *
4808779 GATATTTGACATGAATTATGATCC
1 GATACTTGACCTGGATTCTGATCC
4808803 GATACTTGACCTG
1 GATACTTGACCTG
4808816 AATTATGTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (24 bp):
GATACTTGACCTGGATTCTGATCC
Found at i:4808783 original size:29 final size:24
Alignment explanation
Indices: 4808721--4808776 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
4808711 TCCGATTTGA
*
4808721 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATATGATACCTGACCTGG
*
4808745 ATTCTGATATGATACTTGACCTGG
1 ATTCTGATATGATACCTGACCTGG
4808769 ATTCTGAT
1 ATTCTGAT
4808777 CCGATATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (24 bp):
ATTCTGATATGATACCTGACCTGG
Found at i:4808997 original size:2 final size:2
Alignment explanation
Indices: 4808990--4809040 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
4808980 TGGATGGGGG
4808990 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4809032 TA TA TA TA T
1 TA TA TA TA T
4809041 GTTTTTAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4813346 original size:2 final size:2
Alignment explanation
Indices: 4813339--4813390 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
4813329 GATCTTATTC
4813339 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4813381 AT AT AT AT AT
1 AT AT AT AT AT
4813391 GTGTGTGTGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4815036 original size:27 final size:29
Alignment explanation
Indices: 4814997--4815051 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
4814987 GGCGGAGCTA
4814997 AAAAATTATTTGGAGT-ACAAATTTAGAG
1 AAAAATTATTTGGAGTGACAAATTTAGAG
* *
4815025 AAAAA-TATTTGGGGTGTCAAATTTAGA
1 AAAAATTATTTGGAGTGACAAATTTAGA
4815052 AATTGTATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.44, C:0.04, G:0.20, T:0.33
Consensus pattern (29 bp):
AAAAATTATTTGGAGTGACAAATTTAGAG
Found at i:4818974 original size:31 final size:32
Alignment explanation
Indices: 4818921--4819022 Score: 138
Period size: 31 Copynumber: 3.3 Consensus size: 32
4818911 GTTTTAAAAG
* *
4818921 TAACAAAT-TTATCACTAATGTTATCGATTTA
1 TAACAAATCTGATCATTAATGTTATCGATTTA
*
4818952 TAATAAATCTG-TCATTAATGTTATCGATTTA
1 TAACAAATCTGATCATTAATGTTATCGATTTA
* *
4818983 TAACAAA-CTGATCATTAACGTTATTGATTTA
1 TAACAAATCTGATCATTAATGTTATCGATTTA
4819014 TAACAAATC
1 TAACAAATC
4819023 GGTGACTCAT
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
30 3 0.05
31 57 0.92
32 2 0.03
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (32 bp):
TAACAAATCTGATCATTAATGTTATCGATTTA
Found at i:4819287 original size:31 final size:31
Alignment explanation
Indices: 4819211--4819288 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
4819201 GTTATTGACG
* *
4819211 AGTGATCGATTTGTCATAAATCGATAACGTT
1 AGTGATCGATTTGTTATAAATCGATAACATT
* *
4819242 AGTGATTGATTTGTTATAAATCGATAATATT
1 AGTGATCGATTTGTTATAAATCGATAACATT
*
4819273 AGTGATCAATTTGTTA
1 AGTGATCGATTTGTTA
4819289 CTTTTGAAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (31 bp):
AGTGATCGATTTGTTATAAATCGATAACATT
Found at i:4822891 original size:2 final size:2
Alignment explanation
Indices: 4822878--4822916 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
4822868 TTTTTAAAAC
*
4822878 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4822917 CCCCCATCCC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:4823137 original size:24 final size:24
Alignment explanation
Indices: 4823074--4823143 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
4823064 TTAAACGGAG
* * *
4823074 ATATCAGAAATCAAAAAAGAATTC
1 ATATCAGAAATCAGAACAGAATCC
* * * * *
4823098 AGAACATATATTAGAACAGAATCC
1 ATATCAGAAATCAGAACAGAATCC
4823122 ATATCAGAAATCAGAACAGAAT
1 ATATCAGAAATCAGAACAGAAT
4823144 TCAGGTCATG
Statistics
Matches: 33, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.54, C:0.14, G:0.11, T:0.20
Consensus pattern (24 bp):
ATATCAGAAATCAGAACAGAATCC
Found at i:4827567 original size:10 final size:10
Alignment explanation
Indices: 4827552--4827586 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
4827542 TTTTTAAAAC
4827552 ATATAAATAT
1 ATATAAATAT
4827562 ATATAAATAT
1 ATATAAATAT
* *
4827572 ATATATATGT
1 ATATAAATAT
4827582 ATATA
1 ATATA
4827587 TACCCCCATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (10 bp):
ATATAAATAT
Found at i:4827774 original size:12 final size:12
Alignment explanation
Indices: 4827749--4827841 Score: 66
Period size: 12 Copynumber: 7.8 Consensus size: 12
4827739 ACGGAGATAT
* *
4827749 CAGAAATCAAAA
1 CAGAATTCAGAA
4827761 CAGAATTCAGAA
1 CAGAATTCAGAA
4827773 CAGATATT-AGAA
1 CAGA-ATTCAGAA
* * *
4827785 CAGAATCCATAT
1 CAGAATTCAGAA
4827797 CAGAAATT-AGAA
1 CAG-AATTCAGAA
**
4827809 CAGAATTCAGGT
1 CAGAATTCAGAA
*
4827821 CATGTA-TCAGAA
1 CA-GAATTCAGAA
4827833 CAGAATTCA
1 CAGAATTCA
4827842 AGTCGAAAAT
Statistics
Matches: 61, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
11 8 0.13
12 45 0.74
13 8 0.13
ACGTcount: A:0.48, C:0.16, G:0.15, T:0.20
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:4827776 original size:24 final size:24
Alignment explanation
Indices: 4827749--4827818 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 24
4827739 ACGGAGATAT
* *
4827749 CAGAAATCAAAACAGAATTCAGAA
1 CAGAAATTAGAACAGAATTCAGAA
* * * *
4827773 CAGATATTAGAACAGAATCCATAT
1 CAGAAATTAGAACAGAATTCAGAA
4827797 CAGAAATTAGAACAGAATTCAG
1 CAGAAATTAGAACAGAATTCAG
4827819 GTCATGTATC
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.19
Consensus pattern (24 bp):
CAGAAATTAGAACAGAATTCAGAA
Found at i:4827833 original size:48 final size:48
Alignment explanation
Indices: 4827745--4827838 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
4827735 TTAAACGGAG
*
4827745 ATATCAGAAATCAAAACAGAATTCAGAACAGATATTAGAACAGAATCC
1 ATATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCC
* * **
4827793 ATATCAGAAATTAGAACAGAATTCAGGTCATG-TATCAGAACAGAAT
1 ATATCAGAAATCAAAACAGAATTCAGAACA-GATATCAGAACAGAAT
4827839 TCAAGTCGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 39 0.98
49 1 0.03
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.21
Consensus pattern (48 bp):
ATATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCC
Found at i:4827853 original size:24 final size:24
Alignment explanation
Indices: 4827781--4827855 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
4827771 AACAGATATT
* * *
4827781 AGAACAGAATCCATA-TCAGAAATT
1 AGAACAGAATTCA-AGTCATAAATC
* **
4827805 AGAACAGAATTCAGGTCATGTATC
1 AGAACAGAATTCAAGTCATAAATC
4827829 AGAACAGAATTCAAGTCGA-AAATC
1 AGAACAGAATTCAAGTC-ATAAATC
4827853 AGA
1 AGA
4827856 TAAAATAATT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
24 39 0.98
25 1 0.03
ACGTcount: A:0.47, C:0.16, G:0.17, T:0.20
Consensus pattern (24 bp):
AGAACAGAATTCAAGTCATAAATC
Found at i:4830346 original size:13 final size:13
Alignment explanation
Indices: 4830328--4830352 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4830318 GTCAATGACG
4830328 GTCAACGGGTCGA
1 GTCAACGGGTCGA
4830341 GTCAACGGGTCG
1 GTCAACGGGTCG
4830353 GGTCGGGTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.24, G:0.40, T:0.16
Consensus pattern (13 bp):
GTCAACGGGTCGA
Found at i:4833289 original size:16 final size:16
Alignment explanation
Indices: 4833240--4833289 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
4833230 TTTAAGGACT
*
4833240 AAATTG-AATACATATA
1 AAATTGAAATAAAT-TA
* *
4833256 AAATTGAAA-GACTTA
1 AAATTGAAATAAATTA
4833271 AAATTGAAATAAATTA
1 AAATTGAAATAAATTA
4833287 AAA
1 AAA
4833290 ATACAAACAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
15 11 0.41
16 14 0.52
17 2 0.07
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (16 bp):
AAATTGAAATAAATTA
Found at i:4833420 original size:13 final size:13
Alignment explanation
Indices: 4833404--4833505 Score: 69
Period size: 13 Copynumber: 7.2 Consensus size: 13
4833394 AATATAAGTT
4833404 TATATATAAACTATA
1 TATATATAAAC--TA
4833419 TAATTATTATAAACTA
1 T-A-TAT-ATAAACTA
*
4833435 TATATATAAATTA
1 TATATATAAACTA
* * *
4833448 TGTTTATATGAATTA
1 --TATATATAAACTA
4833463 TATATATAAACTA
1 TATATATAAACTA
*
4833476 TGTATATAAACAATA
1 TATATATAAAC--TA
*
4833491 TATGTATAAACTA
1 TATATATAAACTA
4833504 TA
1 TA
4833506 AAAAAATATA
Statistics
Matches: 71, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
13 31 0.44
14 3 0.04
15 24 0.34
16 4 0.06
17 3 0.04
18 6 0.08
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:4833431 original size:18 final size:19
Alignment explanation
Indices: 4833403--4833438 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
4833393 TAATATAAGT
4833403 TTATATATAAACTATATAA
1 TTATATATAAACTATATAA
4833422 TTAT-TATAAACTATATA
1 TTATATATAAACTATATA
4833439 TATAAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (19 bp):
TTATATATAAACTATATAA
Found at i:4833447 original size:20 final size:18
Alignment explanation
Indices: 4833408--4833448 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
4833398 TAAGTTTATA
*
4833408 TATAAACTATATAATTAT
1 TATAAACTATATAATAAT
4833426 TATAAACTATATATATAAAT
1 TATAAACTATATA-AT-AAT
4833446 TAT
1 TAT
4833449 GTTTATATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 13 0.65
19 2 0.10
20 5 0.25
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (18 bp):
TATAAACTATATAATAAT
Found at i:4833470 original size:15 final size:15
Alignment explanation
Indices: 4833433--4833612 Score: 61
Period size: 15 Copynumber: 12.7 Consensus size: 15
4833423 TATTATAAAC
4833433 TATATATATAAATTA
1 TATATATATAAATTA
* * *
4833448 TGTTTATATGAA-T-
1 TATATATATAAATTA
*
4833461 TATATATATAAACTA
1 TATATATATAAATTA
*
4833476 TGTATATA-AACA--A
1 TATATATATAA-ATTA
* *
4833489 TATATGTATAAACTA
1 TATATATATAAATTA
4833504 TA-A-A-A-AAA-TA
1 TATATATATAAATTA
* *
4833514 TATAATTTATAAACTA
1 TAT-ATATATAAATTA
* *
4833530 TAATTTATATTAA-TA
1 T-ATATATATAAATTA
4833545 TATATATAT-AA-TA
1 TATATATATAAATTA
4833558 T-TA-ATATAAATTA
1 TATATATATAAATTA
4833571 TAGT-T-TATAAATTA
1 TA-TATATATAAATTA
* *
4833585 TAATTTATATTAATATA
1 T-ATATATATAAAT-TA
4833602 GTATATATATA
1 -TATATATATA
4833613 TATATGTATG
Statistics
Matches: 124, Mismatches: 18, Indels: 44
0.67 0.10 0.24
Matches are distributed among these distances:
10 4 0.03
11 7 0.06
12 6 0.05
13 25 0.20
14 26 0.21
15 29 0.23
16 15 0.12
17 11 0.09
18 1 0.01
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.44
Consensus pattern (15 bp):
TATATATATAAATTA
Found at i:4833477 original size:28 final size:28
Alignment explanation
Indices: 4833404--4833504 Score: 98
Period size: 28 Copynumber: 3.5 Consensus size: 28
4833394 AATATAAGTT
*
4833404 TATATATAAACTATATAATTATTATAAACTA
1 TATATATAAACTATGT--TTA-TATAAACTA
* * *
4833435 TATATATAAATTATGTTTATATGAATTA
1 TATATATAAACTATGTTTATATAAACTA
4833463 TATATATAAACTATG--TATATAAACAATA
1 TATATATAAACTATGTTTATATAAAC--TA
*
4833491 TATGTATAAACTAT
1 TATATATAAACTAT
4833505 AAAAAAATAT
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.12
28 36 0.60
29 3 0.05
31 14 0.23
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.43
Consensus pattern (28 bp):
TATATATAAACTATGTTTATATAAACTA
Found at i:4833492 original size:11 final size:13
Alignment explanation
Indices: 4833426--4833505 Score: 70
Period size: 13 Copynumber: 5.8 Consensus size: 13
4833416 ATATAATTAT
4833426 TATAAACTATATA
1 TATAAACTATATA
* *
4833439 TATAAATTATGTTTA
1 TATAAACTA--TATA
* *
4833454 TATGAATTATATA
1 TATAAACTATATA
*
4833467 TATAAACTATGTA
1 TATAAACTATATA
*
4833480 TATAAACAATATATG
1 TATAAAC--TATATA
4833495 TATAAACTATA
1 TATAAACTATA
4833506 AAAAAATATA
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
13 32 0.59
15 22 0.41
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (13 bp):
TATAAACTATATA
Found at i:4833533 original size:14 final size:13
Alignment explanation
Indices: 4833513--4833593 Score: 60
Period size: 14 Copynumber: 5.9 Consensus size: 13
4833503 ATAAAAAAAT
4833513 ATATAATTTATAA
1 ATATAATTTATAA
4833526 ACTATAATTTATATTA
1 A-TATAATTTATA--A
*
4833542 ATAT-ATATATATA
1 ATATAATTTATA-A
4833555 ATATTAA--TATAA
1 ATA-TAATTTATAA
*
4833567 ATTATAGTTTATAA
1 A-TATAATTTATAA
4833581 ATTATAATTTATA
1 A-TATAATTTATA
4833594 TTAATATAGT
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
12 4 0.07
13 12 0.21
14 35 0.61
15 4 0.07
16 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (13 bp):
ATATAATTTATAA
Found at i:4833549 original size:2 final size:2
Alignment explanation
Indices: 4833542--4833664 Score: 63
Period size: 2 Copynumber: 65.5 Consensus size: 2
4833532 ATTTATATTA
* * *
4833542 AT AT AT AT AT AT A- AT AT -T A- AT AT AA AT -T AT AGT TT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* *
4833581 AT -T AT A- AT TT AT AT -T A- AT AT AGT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
* *
4833620 AT GT AT A- ACT A- AT AT A- AGT A- AT AT AT GT AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
4833660 AT AT A
1 AT AT A
4833665 GTTTATAGAA
Statistics
Matches: 91, Mismatches: 14, Indels: 32
0.66 0.10 0.23
Matches are distributed among these distances:
1 12 0.13
2 74 0.81
3 5 0.05
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.46
Consensus pattern (2 bp):
AT
Found at i:4833566 original size:41 final size:36
Alignment explanation
Indices: 4833521--4833601 Score: 90
Period size: 41 Copynumber: 2.1 Consensus size: 36
4833511 ATATATAATT
4833521 TATAAACTATAATTTATATTAATATATATATATAATATTAA
1 TATAAACTATAATTTATA--AAT-TATA-AT-TAATATTAA
* * *
4833562 TATAAATTATAGTTTATAAATTATAATTTATATTAA
1 TATAAACTATAATTTATAAATTATAATTAATATTAA
4833598 TATA
1 TATA
4833602 GTATATATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
36 12 0.32
37 2 0.05
38 4 0.11
39 3 0.08
41 16 0.43
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (36 bp):
TATAAACTATAATTTATAAATTATAATTAATATTAA
Found at i:4833587 original size:55 final size:58
Alignment explanation
Indices: 4833509--4833615 Score: 175
Period size: 55 Copynumber: 1.9 Consensus size: 58
4833499 AACTATAAAA
4833509 AAATATATAATTTATAAACTATAATTTATATTAATATA-TATATATA-ATATTAATAT
1 AAATATATAATTTATAAACTATAATTTATATTAATATAGTATATATATATATTAATAT
* *
4833565 AAAT-TATAGTTTATAAATTATAATTTATATTAATATAGTATATATATATAT
1 AAATATATAATTTATAAACTATAATTTATATTAATATAGTATATATATATAT
4833616 ATGTATGTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
55 31 0.66
56 12 0.26
57 4 0.09
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.48
Consensus pattern (58 bp):
AAATATATAATTTATAAACTATAATTTATATTAATATAGTATATATATATATTAATAT
Found at i:4833644 original size:34 final size:34
Alignment explanation
Indices: 4833595--4833662 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 34
4833585 TAATTTATAT
* *
4833595 TAATATAGTATATATATATATATGTATGTATAAC
1 TAATATAGTATATATATATATATATATATATAAC
*
4833629 TAATATAAGTAATATATGTATATATATATATATA
1 TAATAT-AGT-ATATATATATATATATATATATA
4833663 TAGTTTATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 6 0.21
35 3 0.10
36 20 0.69
ACGTcount: A:0.47, C:0.01, G:0.07, T:0.44
Consensus pattern (34 bp):
TAATATAGTATATATATATATATATATATATAAC
Found at i:4833954 original size:25 final size:26
Alignment explanation
Indices: 4833910--4833995 Score: 77
Period size: 25 Copynumber: 3.3 Consensus size: 26
4833900 ATATTTAACT
* * *
4833910 TATAGTACATGTATGTATAAACTATG
1 TATAGTATATGTATATATAAACTATA
4833936 TATAGTATA-GTATATATAAACTATA
1 TATAGTATATGTATATATAAACTATA
* *
4833961 TATA-TATAACCTATATATATAAACCATA
1 TATAGTAT-A--TGTATATATAAACTATA
*
4833989 TAAAGTA
1 TATAGTA
4833996 AATTACTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
24 3 0.06
25 19 0.39
26 8 0.16
28 17 0.35
29 2 0.04
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (26 bp):
TATAGTATATGTATATATAAACTATA
Found at i:4833964 original size:13 final size:13
Alignment explanation
Indices: 4833946--4833990 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
4833936 TATAGTATAG
4833946 TATATATAAACTA
1 TATATATAAACTA
4833959 TATATATATAACCTA
1 TATATATA-AA-CTA
*
4833974 TATATATAAACCA
1 TATATATAAACTA
4833987 TATA
1 TATA
4833991 AAGTAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 14 0.48
14 4 0.14
15 11 0.38
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:4833966 original size:15 final size:15
Alignment explanation
Indices: 4833941--4833981 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
4833931 CTATGTATAG
4833941 TATAGTATATATAAAC
1 TATA-TATATATAAAC
*
4833957 TATATATATATAACC
1 TATATATATATAAAC
4833972 TATATATATA
1 TATATATATA
4833982 AACCATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:4833990 original size:15 final size:15
Alignment explanation
Indices: 4833946--4833990 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
4833936 TATAGTATAG
*
4833946 TATATATAAACTATA
1 TATATATAAACCATA
4833961 TATATAT-AACC-TA
1 TATATATAAACCATA
4833974 TATATATAAACCATA
1 TATATATAAACCATA
4833989 TA
1 TA
4833991 AAGTAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 9 0.33
14 7 0.26
15 11 0.41
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (15 bp):
TATATATAAACCATA
Found at i:4834189 original size:2 final size:2
Alignment explanation
Indices: 4834182--4834289 Score: 103
Period size: 2 Copynumber: 53.0 Consensus size: 2
4834172 CTTATAGTAC
4834182 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
4834224 AA ACT AT GT AT AGT AT AT AT AA ACT AT AT AT A- AC AT GT AGT AT
1 AT A-T AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT A-T AT
* *
4834267 AT AT AT AT AC A- AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
4834290 GTCATATAAA
Statistics
Matches: 88, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
1 2 0.02
2 80 0.91
3 6 0.07
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (2 bp):
AT
Found at i:4834338 original size:21 final size:20
Alignment explanation
Indices: 4834314--4834404 Score: 67
Period size: 21 Copynumber: 4.3 Consensus size: 20
4834304 ATATGTAACC
4834314 TATAGTTTATAAACAATAGTT
1 TATA-TTTATAAACAATAGTT
**
4834335 TATA-TTAGTGTACTATATAGTT
1 TATATTTA-TAAAC-A-ATAGTT
* * *
4834357 TATACTTTATAACCTATAGTA
1 TATA-TTTATAAACAATAGTT
*
4834378 TATAATTTATAAACTATAGTT
1 TAT-ATTTATAAACAATAGTT
4834399 TATATT
1 TATATT
4834405 AATGTTAATT
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.05
20 6 0.11
21 30 0.55
22 11 0.20
23 2 0.04
24 3 0.05
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (20 bp):
TATATTTATAAACAATAGTT
Found at i:4834487 original size:65 final size:66
Alignment explanation
Indices: 4834371--4834636 Score: 255
Period size: 65 Copynumber: 4.0 Consensus size: 66
4834361 CTTTATAACC
* *
4834371 TATAGTATATAATTTATAAACTATAGTTTATATTAATGTTAATTATCTTAACTATAATTTATATT
1 TATAGTATATAATTTATAAACTATAG-TTATATTAATATTAATTATATTAACTATAATTTATATT
4834436 AA
65 AA
* * * * *
4834438 TATAGTATTTAGTTTATGAACTATA-CTATATTAATATTAATTATATTAACTATAGTTTATA--A
1 TATAGTATATAATTTATAAACTATAGTTATATTAATATTAATTATATTAACTATAATTTATATTA
4834500 A
66 A
* * * *
4834501 CTATACTATATAATTTAT-AACATATAGTTTATATTAATATTACTTTTA-TAGACTATATTTTAT
1 -TATAGTATATAATTTATAAAC-TATAG-TTATATTAATATTAATTATATTA-ACTATAATTTAT
4834564 ATTAA
62 ATTAA
* * *
4834569 TAGTAAT-TACAAATTATAAACTATA-TTATATTAATA-TAAGTTAATATTAA-TATTAA-TTAT
1 TA-TAGTATATAATTTATAAACTATAGTTATATTAATATTAA-TT-ATATTAACTA-TAATTTAT
4834629 ATTAA
62 ATTAA
4834634 TAT
1 TAT
4834637 TAATTATAAT
Statistics
Matches: 166, Mismatches: 20, Indels: 29
0.77 0.09 0.13
Matches are distributed among these distances:
63 5 0.03
64 21 0.13
65 60 0.36
66 34 0.20
67 38 0.23
68 8 0.05
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (66 bp):
TATAGTATATAATTTATAAACTATAGTTATATTAATATTAATTATATTAACTATAATTTATATTA
A
Found at i:4834488 original size:29 final size:30
Alignment explanation
Indices: 4834380--4834672 Score: 106
Period size: 31 Copynumber: 9.3 Consensus size: 30
4834370 CTATAGTATA
* * *
4834380 TAATT-TATAAACTATAGTTTATATTAATGT
1 TAATTATATTAACTATA-TCTATATTAATAT
* *
4834410 TAATTATCTTAACTATAATTTATATTAATAT
1 TAATTATATTAACTAT-ATCTATATTAATAT
* *
4834441 AGTATTTAGTTTATGAACTATA-CTATATTAATAT
1 --TAATTA---TATTAACTATATCTATATTAATAT
* *
4834475 TAATTATATTAACTATAGTTTATAAACTATACTAT
1 TAATTATATTAACTATA-TCTAT--A-T-TAATAT
*
4834510 ATAATT-TA-TAACATATAGTTTATATTAATAT
1 -TAATTATATTAAC-TATA-TCTATATTAATAT
* * * *
4834541 TACTTTTA-TAGACTATATTTTATATTAATAG
1 TAATTATATTA-ACTATA-TCTATATTAATAT
*
4834572 TAATTACAAATTATAAACTATAT-TATATTAATA-
1 TAATT----A-TATTAACTATATCTATATTAATAT
4834605 TAAGTTAATATTAA-TATTAAT-TATATTAATAT
1 TAA-TT-ATATTAACTA-T-ATCTATATTAATAT
* *
4834637 TAATTATAAT-A-TATAAT-TATTTTAATAT
1 TAATTATATTAACTAT-ATCTATATTAATAT
4834665 TAATTATA
1 TAATTATA
4834673 AATAGTTTAT
Statistics
Matches: 215, Mismatches: 21, Indels: 56
0.74 0.07 0.19
Matches are distributed among these distances:
28 22 0.10
29 15 0.07
30 19 0.09
31 68 0.32
32 12 0.06
33 10 0.05
34 28 0.13
35 19 0.09
36 21 0.10
37 1 0.00
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.49
Consensus pattern (30 bp):
TAATTATATTAACTATATCTATATTAATAT
Found at i:4834517 original size:21 final size:21
Alignment explanation
Indices: 4834357--4834520 Score: 61
Period size: 21 Copynumber: 7.6 Consensus size: 21
4834347 CTATATAGTT
* * *
4834357 TATACTTTATAACCTATAGTA
1 TATAATTTATAAACTATACTA
*
4834378 TATAATTTATAAACTATAGTTTA
1 TATAATTTATAAACTATA--CTA
* *
4834401 TATTAATGT-T-AATTAT-CTTAA
1 TA-TAATTTATAAACTATAC-T-A
*
4834422 CTATAATTTATATTAA-TATAGTA
1 -TATAATTTATA--AACTATACTA
* * *
4834445 TTTAGTTTATGAACTATACTA
1 TATAATTTATAAACTATACTA
* * *
4834466 TATTAA--TATTAATTATATTAA
1 TA-TAATTTATAAACTATACT-A
*
4834487 CTATAGTTTATAAACTATACTA
1 -TATAATTTATAAACTATACTA
4834509 TATAATTTATAA
1 TATAATTTATAA
4834521 CATATAGTTT
Statistics
Matches: 104, Mismatches: 22, Indels: 34
0.65 0.14 0.21
Matches are distributed among these distances:
20 13 0.12
21 43 0.41
22 21 0.20
23 16 0.15
24 9 0.09
25 2 0.02
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (21 bp):
TATAATTTATAAACTATACTA
Found at i:4834591 original size:131 final size:131
Alignment explanation
Indices: 4834357--4834618 Score: 320
Period size: 131 Copynumber: 2.0 Consensus size: 131
4834347 CTATATAGTT
* * *
4834357 TATACTTTATAACCTATAGTATATAATTTATAAACTATAGTTTATATTAATGTTAATTATCTTAA
1 TATACTTTATAAACTATACTATATAATTTATAAACTATAGTTTATATTAATATTAATTATCTTAA
* ** *
4834422 CTATAATTTATATTAATATAGTATTTAGTTTATGAACTATACTATATTAATATTAA-TT-ATATT
66 CTATAATTTATATTAATATAG-ATTCAAATTATAAACTATACTATATTAATA-TAAGTTAATATT
4834485 AAC
129 AAC
* *
4834488 TATAGTTTATAAACTATACTATATAATTTAT-AACATATAGTTTATATTAATATTACTT-T-TAT
1 TATACTTTATAAACTATACTATATAATTTATAAAC-TATAGTTTATATTAATATTAATTATCT-T
* *
4834550 AGACTATATTTTATATTAATAGTA-ATTACAAATTATAAACTATATTATATTAATATAAGTTAAT
64 A-ACTATAATTTATATTAATA-TAGATT-CAAATTATAAACTATACTATATTAATATAAGTTAAT
4834614 ATTAA
126 ATTAA
4834619 TATTAATTAT
Statistics
Matches: 113, Mismatches: 11, Indels: 13
0.82 0.08 0.09
Matches are distributed among these distances:
129 1 0.01
130 12 0.11
131 91 0.81
132 9 0.08
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.47
Consensus pattern (131 bp):
TATACTTTATAAACTATACTATATAATTTATAAACTATAGTTTATATTAATATTAATTATCTTAA
CTATAATTTATATTAATATAGATTCAAATTATAAACTATACTATATTAATATAAGTTAATATTAA
C
Found at i:4834616 original size:21 final size:20
Alignment explanation
Indices: 4834591--4834642 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
4834581 ATTATAAACT
4834591 ATATTATATTAA-TATAAGTTA
1 ATATTATATTAATTAT-A-TTA
4834612 ATATTAATATTAATTATATTA
1 ATATT-ATATTAATTATATTA
4834633 ATATTA-ATTA
1 ATATTATATTA
4834643 TAATATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.14
20 1 0.03
21 13 0.45
22 8 0.28
23 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
ATATTATATTAATTATATTA
Found at i:4834618 original size:6 final size:6
Alignment explanation
Indices: 4834591--4834668 Score: 53
Period size: 6 Copynumber: 13.3 Consensus size: 6
4834581 ATTATAAACT
*
4834591 ATATT- ATATTA ATA-TA A-GTTA ATATTA ATATT- A-ATT- ATATTA
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA
4834633 ATATTA AT-TATA ATATATA ATTATTTTA ATATTA AT
1 ATATTA ATAT-TA ATAT-TA A-TA--TTA ATATTA AT
4834669 TATAAATAGT
Statistics
Matches: 61, Mismatches: 2, Indels: 19
0.74 0.02 0.23
Matches are distributed among these distances:
4 4 0.07
5 16 0.26
6 28 0.46
7 5 0.08
8 4 0.07
9 3 0.05
10 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (6 bp):
ATATTA
Found at i:4834628 original size:43 final size:40
Alignment explanation
Indices: 4834580--4834697 Score: 116
Period size: 43 Copynumber: 2.8 Consensus size: 40
4834570 AGTAATTACA
4834580 AATTATAAACTATATTATATTAATATAAGTTAATATTAATATT
1 AATTATAAA-TATATTATATTAATATAA-TT-ATATTAATATT
* *
4834623 AATTATATTAATATTAATTATAAT-ATATAATTATTTTAATATT
1 AATTATA--AATA-T-ATTATATTAATATAATTATATTAATATT
*
4834666 AATTATAAATA-GTT-TATTAATATAAATTATAT
1 AATTATAAATATATTATATTAATAT-AATTATAT
4834698 AGGGATGAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
37 3 0.05
38 6 0.09
39 7 0.11
41 4 0.06
43 24 0.38
44 4 0.06
45 9 0.14
46 7 0.11
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (40 bp):
AATTATAAATATATTATATTAATATAATTATATTAATATT
Found at i:4834631 original size:31 final size:27
Alignment explanation
Indices: 4834580--4834696 Score: 93
Period size: 28 Copynumber: 4.3 Consensus size: 27
4834570 AGTAATTACA
4834580 AATTATAA-ACTAT-ATTATATTAATAT
1 AATTATAATA-TATAATTATATTAATAT
*
4834606 AAGTTAATATTAATATTAATTATATTAATATT
1 AA-TT-ATAAT-ATA-TAATTATATTAATA-T
*
4834638 AATTATAATATATAATTATTTTAATATT
1 AATTATAATATATAATTATATTAATA-T
*
4834666 AATTAT-A-A-ATAGTT-TATTAATAT
1 AATTATAATATATAATTATATTAATAT
4834689 AAATTATA
1 -AATTATA
4834697 TAGGGATGAA
Statistics
Matches: 77, Mismatches: 5, Indels: 19
0.76 0.05 0.19
Matches are distributed among these distances:
23 1 0.01
24 13 0.17
25 5 0.06
26 3 0.04
27 3 0.04
28 24 0.31
29 5 0.06
30 6 0.08
31 14 0.18
32 3 0.04
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.49
Consensus pattern (27 bp):
AATTATAATATATAATTATATTAATAT
Found at i:4834662 original size:28 final size:27
Alignment explanation
Indices: 4834616--4834696 Score: 105
Period size: 28 Copynumber: 3.1 Consensus size: 27
4834606 AAGTTAATAT
4834616 TAATATTAATTATATTAATATTAATTA
1 TAATATTAATTATATTAATATTAATTA
*
4834643 TAATATATAATTATTTTAATATTAATTA
1 TAATAT-TAATTATATTAATATTAATTA
* *
4834671 TAA-A-TAGTT-TATTAATATAAATTA
1 TAATATTAATTATATTAATATTAATTA
4834695 TA
1 TA
4834697 TAGGGATGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
24 15 0.31
25 4 0.08
27 7 0.14
28 23 0.47
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (27 bp):
TAATATTAATTATATTAATATTAATTA
Found at i:4835419 original size:25 final size:25
Alignment explanation
Indices: 4835391--4835466 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
4835381 GATAAACTCG
4835391 AACCCTAGACCCAAACCCAAACCTA
1 AACCCTAGACCCAAACCCAAACCTA
* * *
4835416 AACCTTA-AGCTCGAACCCAAACCTA
1 AACCCTAGA-CCCAAACCCAAACCTA
*
4835441 AA-CCT-GAATCCAAACCCAAACCTA
1 AACCCTAG-ACCCAAACCCAAACCTA
4835465 AA
1 AA
4835467 AAAAACCTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
24 18 0.44
25 23 0.56
ACGTcount: A:0.45, C:0.38, G:0.05, T:0.12
Consensus pattern (25 bp):
AACCCTAGACCCAAACCCAAACCTA
Found at i:4835665 original size:19 final size:20
Alignment explanation
Indices: 4835635--4835672 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
4835625 TATCCAGGTA
*
4835635 TGTTTATTATTTTATTATTT
1 TGTTTATTATTTTAATATTT
4835655 TGTTT-TTATTTTAATATT
1 TGTTTATTATTTTAATATT
4835673 GTTCATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (20 bp):
TGTTTATTATTTTAATATTT
Found at i:4837686 original size:10 final size:10
Alignment explanation
Indices: 4837673--4837697 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4837663 CATATGGTAG
4837673 AAAACTGTAT
1 AAAACTGTAT
4837683 AAAACTGTAT
1 AAAACTGTAT
4837693 AAAAC
1 AAAAC
4837698 ATATACATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.12, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAACTGTAT
Found at i:4843593 original size:39 final size:38
Alignment explanation
Indices: 4843550--4843687 Score: 152
Period size: 39 Copynumber: 3.6 Consensus size: 38
4843540 TTTACCCTAT
*
4843550 GCACAAAGTAGAGGAGCCTACAGTAAGGACTTACCTTGA
1 GCACAAAGCAGAGGAGCCTACAGTAAGGACTTACC-TGA
** *
4843589 GCACAAAGCCA-AGGAGTATGCAGTAAGGACTTACGCTGA
1 GCACAAAG-CAGAGGAGCCTACAGTAAGGACTTAC-CTGA
* * * *
4843628 GCACACAGCCGAGGAGCCTGCATTAAGGACTTACCCTGA
1 GCACAAAGCAGAGGAGCCTACAGTAAGGACTTA-CCTGA
*
4843667 GCACAAAGCCGAGGAGCCTAC
1 GCACAAAGCAGAGGAGCCTAC
4843688 GGAAAGCGAT
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 80 0.95
40 3 0.04
ACGTcount: A:0.33, C:0.25, G:0.27, T:0.14
Consensus pattern (38 bp):
GCACAAAGCAGAGGAGCCTACAGTAAGGACTTACCTGA
Found at i:4843753 original size:44 final size:42
Alignment explanation
Indices: 4843651--4843826 Score: 190
Period size: 44 Copynumber: 4.0 Consensus size: 42
4843641 GAGCCTGCAT
* * * * *
4843651 TAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTACGGAAAGCG
1 TAAGGTCTTACCCT-AGCACATAGCAGAGGAG-CTTCAGAAA-CG
4843696 ATAAGGTCTTACCCTAGCACATAGCAGAGGAGCTTGCAGAAACAG
1 -TAAGGTCTTACCCTAGCACATAGCAGAGGAGCTT-CAGAAAC-G
* *
4843741 TAAGGTCTTACCCTGGCACATAGCAGAGGAGCCTTCAGAAATGG
1 TAAGGTCTTACCCTAGCACATAGCAGAGGAG-CTTCAGAAA-CG
* *
4843785 TAAGGTCTTACCCTTGCACATAGCAAAGGAGCATTCAGAAAC
1 TAAGGTCTTACCCTAGCACATAGCAGAGGAGC-TTCAGAAAC
4843827 TTCCTCCAAC
Statistics
Matches: 115, Mismatches: 10, Indels: 13
0.83 0.07 0.09
Matches are distributed among these distances:
43 1 0.01
44 77 0.67
45 24 0.21
46 13 0.11
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.18
Consensus pattern (42 bp):
TAAGGTCTTACCCTAGCACATAGCAGAGGAGCTTCAGAAACG
Found at i:4843798 original size:88 final size:90
Alignment explanation
Indices: 4843651--4843826 Score: 243
Period size: 88 Copynumber: 2.0 Consensus size: 90
4843641 GAGCCTGCAT
* *
4843651 TAAGGACTTACCCTGAGCACAAAGCCGAGGAGCCTACGGAAAGCGATAAGGTCTTACCCTAGCAC
1 TAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCTACAGAAAGCGATAAGGTCTTACCCTAGCAC
*
4843716 ATAGCAGAGGAGC-TTGCAGAAACAG
66 ATAGCAAAGGAGCATT-CAGAAACAG
* * * *
4843741 TAAGGTCTTACCCTG-GCACATAGCAGAGGAGCCTTCAGAAATG-G-TAAGGTCTTACCCTTGCA
1 TAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCTACAGAAA-GCGATAAGGTCTTACCCTAGCA
4843803 CATAGCAAAGGAGCATTCAGAAAC
65 CATAGCAAAGGAGCATTCAGAAAC
4843827 TTCCTCCAAC
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
88 37 0.48
89 25 0.32
90 15 0.19
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.18
Consensus pattern (90 bp):
TAAGGACTTACCCTGAGCACAAAGCAGAGGAGCCTACAGAAAGCGATAAGGTCTTACCCTAGCAC
ATAGCAAAGGAGCATTCAGAAACAG
Found at i:4846487 original size:23 final size:24
Alignment explanation
Indices: 4846460--4846505 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
4846450 TTTTCTTCAC
4846460 ATAAATTAAACTATA-TAATTTAT
1 ATAAATTAAACTATATTAATTTAT
4846483 ATAAATTAAACTATATTAATTTA
1 ATAAATTAAACTATATTAATTTA
4846506 CATTTAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (24 bp):
ATAAATTAAACTATATTAATTTAT
Found at i:4846822 original size:16 final size:16
Alignment explanation
Indices: 4846801--4846855 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
4846791 CGGATCATTT
*
4846801 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTAAAA
***
4846817 ACAGGTCAGGTTCATCG
1 ACAGGTCAGGTT-AAAA
4846834 A-AGGTCAGGTTAAAA
1 ACAGGTCAGGTTAAAA
4846849 ACAGGTC
1 ACAGGTC
4846856 GGGTAATACT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
15 2 0.07
16 27 0.90
17 1 0.03
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (16 bp):
ACAGGTCAGGTTAAAA
Found at i:4851966 original size:21 final size:21
Alignment explanation
Indices: 4851940--4851989 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
4851930 TGGGGGAATG
4851940 ATACATGCACCAGATTCCATA
1 ATACATGCACCAGATTCCATA
4851961 ATACATGCACCAGATTCCATA
1 ATACATGCACCAGATTCCATA
4851982 ATACATGC
1 ATACATGC
4851990 TTCTTTGGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.38, C:0.28, G:0.10, T:0.24
Consensus pattern (21 bp):
ATACATGCACCAGATTCCATA
Found at i:4853038 original size:222 final size:221
Alignment explanation
Indices: 4852651--4853074 Score: 690
Period size: 222 Copynumber: 1.9 Consensus size: 221
4852641 GAACTCATCC
* *
4852651 CCTATATAAAGGAGGCTTCATTCAACTTTGTAAATCAGATTCTTTAATTAATAATACAACGAGAG
1 CCTATATAAAGGAGGCTTCATTCAACTTTGTAAATCAAATTCTTTAATTAATAAAACAACGAGAG
* * *
4852716 TTCATTTTTGCAAGTGCTGATTGCCTTGTGCCTTCGAAGCTTCTTCTCCTGGAGTTCTTTCAAGT
66 TTCATTTTTACAAGTGCTGATTGCCTTGTGCCTTCGAAACTTCTTCTCCTGGAGTTATTTCAAGT
*
4852781 TCTTGTGAGGGAGATTGATCTTCACACTTCAATTTGCCTTTTCATCG-AGACTAGGAGGGTTGGT
131 TCTTGTGAGGGAGATTAATCTTCACACTTCAATTTGCCTTTTCATCGCA-ACTAGGAGGGTTGGT
4852845 TAGAGCCACTTCCCTATCAATTGGTAT
195 TAGAGCCACTTCCCTATCAATTGGTAT
* * *
4852872 CCTATATAAAGGAGGTTTCATTCAATTTTGTAAATCATAATTCTTTGATTAATAAAACAACGAGA
1 CCTATATAAAGGAGGCTTCATTCAACTTTGTAAATCA-AATTCTTTAATTAATAAAACAACGAGA
** *
4852937 GTTTGTTTTTACAAGTGTTGATTGCCTTGTGCCTTCGAAACTTCTTCTCCTGGAGTTATTTCAAG
65 GTTCATTTTTACAAGTGCTGATTGCCTTGTGCCTTCGAAACTTCTTCTCCTGGAGTTATTTCAAG
*
4853002 TTCTTGTGAGGGAGATTAATCTTCACA-TTCCAATTTGCTTTTTCATCGCAACTAGGAGGGTTGG
130 TTCTTGTGAGGGAGATTAATCTTCACACTT-CAATTTGCCTTTTCATCGCAACTAGGAGGGTTGG
4853066 TTAGAGCCA
194 TTAGAGCCA
4853075 TATTATTGTG
Statistics
Matches: 187, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
221 37 0.20
222 149 0.80
223 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (221 bp):
CCTATATAAAGGAGGCTTCATTCAACTTTGTAAATCAAATTCTTTAATTAATAAAACAACGAGAG
TTCATTTTTACAAGTGCTGATTGCCTTGTGCCTTCGAAACTTCTTCTCCTGGAGTTATTTCAAGT
TCTTGTGAGGGAGATTAATCTTCACACTTCAATTTGCCTTTTCATCGCAACTAGGAGGGTTGGTT
AGAGCCACTTCCCTATCAATTGGTAT
Found at i:4856968 original size:17 final size:17
Alignment explanation
Indices: 4856944--4856984 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
4856934 TGAGACTTCA
4856944 AAGAAAAGAA-GAAGAAG
1 AAGAAAAGAATG-AGAAG
*
4856961 AGGAAAAGAATGAGAAG
1 AAGAAAAGAATGAGAAG
4856978 AAGAAAA
1 AAGAAAA
4856985 ATAATGTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 20 0.95
18 1 0.05
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.02
Consensus pattern (17 bp):
AAGAAAAGAATGAGAAG
Found at i:4868184 original size:17 final size:18
Alignment explanation
Indices: 4868159--4868195 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
4868149 CTATAAATAA
*
4868159 TAAATAAATA-ATTTATT
1 TAAAAAAATAGATTTATT
4868176 TAAAAAAATAGATTTATT
1 TAAAAAAATAGATTTATT
4868194 TA
1 TA
4868196 TAAATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
TAAAAAAATAGATTTATT
Found at i:4868271 original size:2 final size:2
Alignment explanation
Indices: 4868264--4868369 Score: 212
Period size: 2 Copynumber: 53.0 Consensus size: 2
4868254 GTTCGAACAT
4868264 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4868306 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4868348 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
4868370 CACGATCATA
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 104 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4882655 original size:38 final size:37
Alignment explanation
Indices: 4882611--4882759 Score: 108
Period size: 38 Copynumber: 4.0 Consensus size: 37
4882601 TTATGAATCT
*
4882611 TGTTTTAAGAAAAATAATCTCAAGTGAGATAAATCTTC
1 TGTTTTAAGAAAAAT-ATCTCAAGCGAGATAAATCTTC
* * *
4882649 TGTTTTACTG-AAACTATCTCAAGCGAGATAAAAT-TTT
1 TGTTTTA-AGAAAAATATCTCAAGCGAGAT-AAATCTTC
* ** * * *
4882686 TGCTTCGAGTGAAACTATCTCAAGCGAGATGAATC-T-
1 TGTTTTAAG-AAAAATATCTCAAGCGAGATAAATCTTC
* * *
4882722 TGTTTTAAGAAAAACAAACTCAAGTGAGATAAATCTTC
1 TGTTTTAAGAAAAA-TATCTCAAGCGAGATAAATCTTC
4882760 GTATTAAATG
Statistics
Matches: 85, Mismatches: 18, Indels: 16
0.71 0.15 0.13
Matches are distributed among these distances:
35 3 0.04
36 23 0.27
37 24 0.28
38 34 0.40
39 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.32
Consensus pattern (37 bp):
TGTTTTAAGAAAAATATCTCAAGCGAGATAAATCTTC
Found at i:4882670 original size:37 final size:36
Alignment explanation
Indices: 4882627--4882787 Score: 123
Period size: 37 Copynumber: 4.4 Consensus size: 36
4882617 AAGAAAAATA
*
4882627 ATCTCAAGTGAGATAAATCTTCTGTTTTACTGAAACT
1 ATCTCAAGCGAGATAAATCTTCTGTTTTA-TGAAACT
* **
4882664 ATCTCAAGCGAGATAAAAT-TTTTGCTTCGAGTGAAACT
1 ATCTCAAGCGAGAT-AAATCTTCTG-TTTTA-TGAAACT
* * *
4882702 ATCTCAAGCGAGATGAATC-T-TGTTTTAAGAAAAACA
1 ATCTCAAGCGAGATAAATCTTCTGTTTTATG--AAACT
* * * *
4882738 AACTCAAGTGAGATAAATCTTC-GTATTAAATGAGACT
1 ATCTCAAGCGAGATAAATCTTCTGT-TT-TATGAAACT
4882775 ATCTCAAGCGAGA
1 ATCTCAAGCGAGA
4882788 CGATTTTTTG
Statistics
Matches: 96, Mismatches: 19, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
34 1 0.01
35 3 0.03
36 22 0.23
37 38 0.40
38 30 0.31
39 2 0.02
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (36 bp):
ATCTCAAGCGAGATAAATCTTCTGTTTTATGAAACT
Found at i:4888117 original size:25 final size:24
Alignment explanation
Indices: 4888089--4888135 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
4888079 CTTATCATCT
*
4888089 AATCCTATAA-TTAATATTTATACCC
1 AATCATATAACTT-ATA-TTATACCC
4888114 AATCATATAACTTATATTATAC
1 AATCATATAACTTATATTATAC
4888136 TCTTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 6 0.30
25 12 0.60
26 2 0.10
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (24 bp):
AATCATATAACTTATATTATACCC
Found at i:4888594 original size:21 final size:20
Alignment explanation
Indices: 4888564--4888606 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4888554 AAAAATGGAA
4888564 AATAACAAAACACATAAAAAT
1 AATAACAAAACA-ATAAAAAT
* *
4888585 AATAATAAAATAATAAAAAT
1 AATAACAAAACAATAAAAAT
4888605 AA
1 AA
4888607 ACAAAATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (20 bp):
AATAACAAAACAATAAAAAT
Found at i:4888772 original size:36 final size:36
Alignment explanation
Indices: 4888731--4888824 Score: 104
Period size: 37 Copynumber: 2.6 Consensus size: 36
4888721 CAGTATTTAC
*
4888731 TAAAACAAATAAAAATAATAAATATATAATACTAAG
1 TAAAACAAATAAAAATAATAAATACATAATACTAAG
* *
4888767 TAAAACAAATAAAAAATAA-AGATATACATGATATTAAG
1 TAAAACAAAT-AAAAATAATA-A-ATACATAATACTAAG
*
4888805 -AAAAAAAAT-AAAATAATAAA
1 TAAAACAAATAAAAATAATAAA
4888825 ATAAATTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
34 1 0.02
35 8 0.16
36 12 0.24
37 17 0.34
38 12 0.24
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.22
Consensus pattern (36 bp):
TAAAACAAATAAAAATAATAAATACATAATACTAAG
Found at i:4897749 original size:21 final size:21
Alignment explanation
Indices: 4897720--4897761 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4897710 ATCGTGGAAA
*
4897720 AGCTTCAACTATTAGTATTAC
1 AGCTCCAACTATTAGTATTAC
*
4897741 AGCTCCAACTATTGGTATTAC
1 AGCTCCAACTATTAGTATTAC
4897762 CTCTGAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (21 bp):
AGCTCCAACTATTAGTATTAC
Found at i:4903127 original size:35 final size:36
Alignment explanation
Indices: 4903081--4903153 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 36
4903071 CATCTCAAGA
*
4903081 ATGGTACCGATAC-ATCCACATT-AGTATCGATA-CCC
1 ATGGTACCGATACTAT-CAC-TTCAGAATCGATATCCC
4903116 ATGGTACCGATACTATCACTTCAGAATCGATATCCC
1 ATGGTACCGATACTATCACTTCAGAATCGATATCCC
4903152 AT
1 AT
4903154 TAAGGTCTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
34 2 0.06
35 25 0.74
36 7 0.21
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (36 bp):
ATGGTACCGATACTATCACTTCAGAATCGATATCCC
Found at i:4913078 original size:31 final size:32
Alignment explanation
Indices: 4912999--4913082 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 32
4912989 TAAAGTTTCG
*
4912999 GGGCCAC-GGGCCTACCTAAGAACACATCTTA
1 GGGCCACAGGGCCTACCTAAGAACACATCTCA
* * * *
4913030 GGGTCGCAGGGCCTACCTGAGAATA-ATCTCA
1 GGGCCACAGGGCCTACCTAAGAACACATCTCA
*
4913061 GGGCCACAGAGCCTACCTAAGA
1 GGGCCACAGGGCCTACCTAAGA
4913083 GTCACATTAG
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
31 28 0.65
32 15 0.35
ACGTcount: A:0.29, C:0.30, G:0.26, T:0.15
Consensus pattern (32 bp):
GGGCCACAGGGCCTACCTAAGAACACATCTCA
Found at i:4920169 original size:20 final size:19
Alignment explanation
Indices: 4920146--4920192 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
4920136 CGATATAACA
4920146 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
4920166 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
4920186 GGTAAAA
1 GGTAAAA
4920193 TGATACCAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:4920194 original size:17 final size:19
Alignment explanation
Indices: 4920155--4920197 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
4920145 AGGTAAAAAT
4920155 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
4920175 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
4920192 ATGATA
1 ATGATA
4920198 CCAGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:4922469 original size:21 final size:21
Alignment explanation
Indices: 4922422--4922486 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
4922412 AAGACAATCA
* *
4922422 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
4922444 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
4922464 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
4922485 AG
1 AG
4922487 GCATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:4922566 original size:33 final size:33
Alignment explanation
Indices: 4922519--4922584 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
4922509 AAATAGATGG
* *
4922519 AGTGGTGAATGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
4922552 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
4922585 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.48, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:4924413 original size:18 final size:19
Alignment explanation
Indices: 4924375--4924414 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
4924365 GTAGGGTTAA
4924375 TTTGTATAAGATTTATAAT
1 TTTGTATAAGATTTATAAT
*
4924394 TTTGTATACGATTTAT-AT
1 TTTGTATAAGATTTATAAT
4924412 TTT
1 TTT
4924415 ATGTGAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.57
Consensus pattern (19 bp):
TTTGTATAAGATTTATAAT
Found at i:4924875 original size:198 final size:199
Alignment explanation
Indices: 4924535--4925490 Score: 1764
Period size: 198 Copynumber: 4.8 Consensus size: 199
4924525 CAATATGGCC
4924535 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAACAAAGTGTCGATCCCAAAATCATCGAAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAA-AAAGTGTCGATCCCAAAATCATCGAAC
4924600 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
4924665 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAA
4924730 TGGAA
195 TGGAA
4924735 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
***
4924800 C-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACTTATTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
4924864 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
4924929 GG-A
196 GGAA
4924932 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAACAAAGTGTCGATCCCAAAATCATCGAAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAA-AAAGTGTCGATCCCAAAATCATCGAAC
4924997 CCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
4925061 G-ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAA
4925125 TGGAA
195 TGGAA
4925130 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
***
4925195 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACTTATTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
4925260 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTATGTCGATATTTGTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
4925325 -GAA
196 GGAA
4925328 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
4925393 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACC-GTACAATTTTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
4925456 AATATGTCTAAAAAATGTGTCGACACTAATATAGT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGT
4925491 GTCGATACTA
Statistics
Matches: 736, Mismatches: 15, Indels: 14
0.96 0.02 0.02
Matches are distributed among these distances:
196 56 0.08
197 169 0.23
198 361 0.49
199 113 0.15
200 37 0.05
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (199 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
GGAA
Found at i:4925397 original size:395 final size:396
Alignment explanation
Indices: 4924535--4925490 Score: 1837
Period size: 395 Copynumber: 2.4 Consensus size: 396
4924525 CAATATGGCC
4924535 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAACAAAGTGTCGATCCCAAAATCATCGAAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAACAAAGTGTCGATCCCAAAATCATCGAAC
4924600 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
4924665 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAA
4924730 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
195 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
4924795 GAACCCAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACTTATTTTATG
260 GAACCCAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACTTATTTTATG
*
4924860 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAAT
325 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTATGTCGATATTTGTTTTCCAGAAT
*
4924925 GAATGGA
390 GAATGAA
4924932 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAACAAAGTGTCGATCCCAAAATCATCGAAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAACAAAGTGTCGATCCCAAAATCATCGAAC
4924997 CCAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CCAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
4925062 -ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
4925126 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
196 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
4925191 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACTTATTTTATG
261 AACCC-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACTTATTTTATG
4925256 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTATGTCGATATTTGTTTTCCAGAAT
325 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTATGTCGATATTTGTTTTCCAGAAT
4925321 GAATGAA
390 GAATGAA
4925328 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAA-AAAGTGTCGATCCCAAAATCATCGAAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAACAAAGTGTCGATCCCAAAATCATCGAAC
*
4925392 CCAAAAGTATAATGTAATATGTAATTTTCAATCTAACC-GTACAATTTTACCGGTTTTATGAGAG
66 CCAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
4925456 AATATGTCTAAAAAATGTGTCGACACTAATATAGT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGT
4925491 GTCGATACTA
Statistics
Matches: 553, Mismatches: 4, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
394 25 0.05
395 232 0.42
396 207 0.37
397 89 0.16
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (396 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAACAAAGTGTCGATCCCAAAATCATCGAAC
CCAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAAT
GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
AACCCAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACTTATTTTATGA
GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTATGTCGATATTTGTTTTCCAGAATG
AATGAA
Found at i:4926974 original size:12 final size:12
Alignment explanation
Indices: 4926957--4927015 Score: 73
Period size: 12 Copynumber: 4.9 Consensus size: 12
4926947 GGTCGCAGAA
*
4926957 GATGAAGCTGAC
1 GATGAAGATGAC
4926969 GATGAAGATGAC
1 GATGAAGATGAC
*
4926981 GATGATGATGAC
1 GATGAAGATGAC
* *
4926993 GATGATGATGAT
1 GATGAAGATGAC
*
4927005 GATGATGATGA
1 GATGAAGATGA
4927016 TGAAGATGAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 44 1.00
ACGTcount: A:0.36, C:0.07, G:0.34, T:0.24
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:4926989 original size:3 final size:3
Alignment explanation
Indices: 4926969--4927028 Score: 84
Period size: 3 Copynumber: 20.0 Consensus size: 3
4926959 TGAAGCTGAC
* * *
4926969 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
4927017 GAA GAT GAT GAT
1 GAT GAT GAT GAT
4927029 CCAAACAAGT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.37, C:0.03, G:0.33, T:0.27
Consensus pattern (3 bp):
GAT
Found at i:4927028 original size:18 final size:18
Alignment explanation
Indices: 4926954--4927027 Score: 85
Period size: 18 Copynumber: 4.1 Consensus size: 18
4926944 AGCGGTCGCA
* * *
4926954 GAAGATGAAGCTGACGAT
1 GAAGATGATGATGATGAT
*
4926972 GAAGATGACGATGATGAT
1 GAAGATGATGATGATGAT
*
4926990 GACGATGATGATGATGAT
1 GAAGATGATGATGATGAT
* *
4927008 GATGATGATGAAGATGAT
1 GAAGATGATGATGATGAT
4927026 GA
1 GA
4927028 TCCAAACAAG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.38, C:0.05, G:0.34, T:0.23
Consensus pattern (18 bp):
GAAGATGATGATGATGAT
Found at i:4929040 original size:183 final size:183
Alignment explanation
Indices: 4928450--4929677 Score: 2142
Period size: 183 Copynumber: 6.8 Consensus size: 183
4928440 TATATAATAA
* * * *
4928450 AATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGCGTGAATAGGTCTACAAC
1 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAAC
*
4928515 CTATATCGACACGTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
66 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
4928580 TACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGATTTATAATGT
131 TACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGATTTATAATGT
* * *
4928633 AATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGCGTGAATAGGTCTACAAC
1 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAAC
4928698 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATT-GAAGAAAAATGTGTCGA
66 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
4928762 TACGATTT-AAAAAGTATCGACATTTACACATCGGAACCCAGATTTATAATGT
131 TACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGATTTATAATGT
*
4928814 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATTCGCGAATAGGTCTACAAC
1 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAAC
* * *
4928879 CTATCTCAACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
66 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
*
4928944 TACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGATTTATAATAT
131 TACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGATTTATAATGT
4928997 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAAC
1 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAAC
4929062 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
66 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
* * * *
4929127 TACGATTTAAAAAAGTGTCGACATTTACACATCGAAACCCATAATTATAATGT
131 TACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGATTTATAATGT
*
4929180 AATAGATAATTTTAT-A-ATAACCGGTATAAATATACC-GTTTTATGCGCGAATAGGTCTACAAC
1 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAAC
4929242 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
66 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
4929307 TACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGA-TTATAATGT
131 TACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGATTTATAATGT
*
4929359 AATAGATAATTTTGTAATATAACCAGTATAAATATACCGG-TTTATGCGCGAATAGGTCTACAAC
1 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAAC
* * * *
4929423 CTATCTCAACACTTTATAATATTGTGTCGGTAC-TT-TGTCCATATTGGAAG-AAAACGTGTCGA
66 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
4929485 TACGATTTAAAAAAGTATCGACATTT--ACATCGGAACCCAGA-TTATAATGT
131 TACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGATTTATAATGT
4929535 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCT-CAAC
1 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAAC
4929599 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
66 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
*
4929664 TACCATTTAAAAAA
131 TACGATTTAAAAAA
4929678 AGTGTCGGTA
Statistics
Matches: 1001, Mismatches: 35, Indels: 22
0.95 0.03 0.02
Matches are distributed among these distances:
176 97 0.10
177 21 0.02
178 52 0.05
179 62 0.06
180 134 0.13
181 242 0.24
182 52 0.05
183 341 0.34
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.34
Consensus pattern (183 bp):
AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAAC
CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
TACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGATTTATAATGT
Found at i:4929202 original size:364 final size:365
Alignment explanation
Indices: 4928450--4929677 Score: 2131
Period size: 364 Copynumber: 3.4 Consensus size: 365
4928440 TATATAATAA
* * * *
4928450 AATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGCGTGAATAGGTCTACAAC
1 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAAC
*
4928515 CTATATCGACACGTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
66 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
*
4928580 TACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAAATT
131 TACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTT
* *
4928645 TGCAATATAACCGGTATAAATATACCGGTTTTATGCGTGAATAGGTCTACAACCTATATCGACAC
196 TGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACAC
4928710 TTTTTAATATTGTGTCGGTACTTTATGTCCATATT-GAAGAAAAATGTGTCGATACGATTT-AAA
261 TTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAA
*
4928773 AAGTATCGACATTTACACATCGGAACCCAGATTTATAATGT
326 AAGTATCGACATTTACACATCGGAACCCA-AATTATAATGT
*
4928814 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATTCGCGAATAGGTCTACAAC
1 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAAC
* * *
4928879 CTATCTCAACACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
66 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
*
4928944 TACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGATTTATAATATAATAGATAATTT
131 TACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTT
4929009 TGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACAC
196 TGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACAC
4929074 TTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAA
261 TTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAA
* *
4929139 AAGTGTCGACATTTACACATCGAAACCCATAATTATAATGT
326 AAGTATCGACATTTACACATCGGAACCCA-AATTATAATGT
*
4929180 AATAGATAATTTTAT-A-ATAACCGGTATAAATATACC-GTTTTATGCGCGAATAGGTCTACAAC
1 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAAC
4929242 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
66 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
4929307 TACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGA-TTATAATGTAATAGATAATTT
131 TACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTT
* * *
4929371 TGTAATATAACCAGTATAAATATACCGG-TTTATGCGCGAATAGGTCTACAACCTATCTCAACAC
196 TGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACAC
* *
4929435 TTTATAATATTGTGTCGGTAC-TT-TGTCCATATTGGAAG-AAAACGTGTCGATACGATTTAAAA
261 TTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAA
*
4929497 AAGTATCGACATTT--ACATCGGAACCCAGATTATAATGT
326 AAGTATCGACATTTACACATCGGAACCCAAATTATAATGT
4929535 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCT-CAAC
1 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAAC
4929599 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
66 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
*
4929664 TACCATTTAAAAAA
131 TACGATTTAAAAAA
4929678 AGTGTCGGTA
Statistics
Matches: 826, Mismatches: 33, Indels: 17
0.94 0.04 0.02
Matches are distributed among these distances:
355 24 0.03
356 13 0.02
357 102 0.12
358 57 0.07
359 15 0.02
360 2 0.00
361 54 0.07
362 47 0.06
363 130 0.16
364 302 0.37
365 26 0.03
366 54 0.07
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.34
Consensus pattern (365 bp):
AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAAC
CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
TACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTT
TGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACAC
TTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAA
AAGTATCGACATTTACACATCGGAACCCAAATTATAATGT
Found at i:4932462 original size:23 final size:23
Alignment explanation
Indices: 4932436--4932490 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
4932426 GGTAAACATG
4932436 ATGTAATAGGTAGCCCTTATATA
1 ATGTAATAGGTAGCCCTTATATA
* **
4932459 ATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTAGCCCTTATATA
4932482 ATGTAATAG
1 ATGTAATAG
4932491 TAGTGGTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
ATGTAATAGGTAGCCCTTATATA
Found at i:4932712 original size:24 final size:24
Alignment explanation
Indices: 4932680--4932728 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
4932670 ACAACAAATC
4932680 AATTAAACATTGT-TGTGGTACATT
1 AATTAAACATTGTATG-GGTACATT
*
4932704 AATTGAACATTGTATGGGTACATT
1 AATTAAACATTGTATGGGTACATT
4932728 A
1 A
4932729 TTTGGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.91
25 2 0.09
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (24 bp):
AATTAAACATTGTATGGGTACATT
Found at i:4933305 original size:38 final size:39
Alignment explanation
Indices: 4933222--4933307 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
4933212 TCCGATGCTC
*
4933222 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
4933261 ATCAAAATCCAAATCTCATATGATGCCAAGC-AAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
4933299 ATCAAAATC
1 ATCAAAATC
4933308 TACAACTTGA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 16 0.36
39 29 0.64
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:4933750 original size:22 final size:22
Alignment explanation
Indices: 4933701--4933772 Score: 99
Period size: 23 Copynumber: 3.2 Consensus size: 22
4933691 ATAGGTAAAC
* *
4933701 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTATCG-TT
4933724 ATATAATGTAATAGGTATCGTT
1 ATATAATGTAATAGGTATCGTT
*
4933746 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTA-TCGTT
4933769 ATAT
1 ATAT
4933773 TGTAAAGTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
22 19 0.42
23 26 0.58
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (22 bp):
ATATAATGTAATAGGTATCGTT
Found at i:4944351 original size:54 final size:55
Alignment explanation
Indices: 4944263--4944419 Score: 201
Period size: 57 Copynumber: 2.8 Consensus size: 55
4944253 TTCAAAAGAA
*
4944263 TTTTTAAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTT-TT-TATGAG
1 TTTTT-AAAGAAACTAAGTCTGATTTTCA-AAGTTTCTTGATGATTTCTTAAATGAG
* *
4944318 TTTTTAAAGAAACTAAGTCTGATTTTTGAAAGTTTCTTTATGATTTCTTCAAATGAG
1 TTTTTAAAGAAACTAAGTCTGA-TTTTCAAAGTTTCTTGATGATTTCTT-AAATGAG
* * *
4944375 TTTTTAAAGAATCTAAATCTGATTTTCAAAGGTTTCTTGACGATT
1 TTTTTAAAGAAACTAAGTCTGATTTTCAAA-GTTTCTTGATGATT
4944420 ACTCAACCAA
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
54 33 0.37
55 12 0.13
56 7 0.08
57 37 0.42
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (55 bp):
TTTTTAAAGAAACTAAGTCTGATTTTCAAAGTTTCTTGATGATTTCTTAAATGAG
Found at i:4945397 original size:118 final size:119
Alignment explanation
Indices: 4945184--4945399 Score: 344
Period size: 118 Copynumber: 1.8 Consensus size: 119
4945174 CCAATCAAAA
* * *
4945184 TTTCTAATGGATGGGTTCGTAATGAGAAGAACTCATCCGAAGAGGGAGAAGAAGTTTATAATGAG
1 TTTCTAATGGAAGGGTTCGTAATAAGAAGAACTCATCCGAAGAGGGAGAAGAAGTTCATAATGAG
* *
4945249 AAAAACTTGTTCAACATTTGTTCGAATCCATCATAGAAAGAGGTGGATCAACAT
66 AAAAACTTGTTCAACATTAGCTCGAATCCATCATAGAAAGAGGTGGATCAACAT
*
4945303 TTTC-AATGGAAGGGTTCGTAATAAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAG
1 TTTCTAATGGAAGGGTTCGTAATAAGAAGAACTCATCCGAAGAGGGAGAAGAAGTTCATAATGAG
* * *
4945367 AAGAACTTGTTCAACCTTAGCTCGATTCCATCA
66 AAAAACTTGTTCAACATTAGCTCGAATCCATCA
4945400 CATAAGGAGT
Statistics
Matches: 88, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
118 84 0.95
119 4 0.05
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.26
Consensus pattern (119 bp):
TTTCTAATGGAAGGGTTCGTAATAAGAAGAACTCATCCGAAGAGGGAGAAGAAGTTCATAATGAG
AAAAACTTGTTCAACATTAGCTCGAATCCATCATAGAAAGAGGTGGATCAACAT
Found at i:4945783 original size:282 final size:282
Alignment explanation
Indices: 4945231--4945819 Score: 747
Period size: 282 Copynumber: 2.1 Consensus size: 282
4945221 CGAAGAGGGA
* * * *
4945231 GAAGAAGTTTATAATGAGAAAAACTTGTTCAACATTTGTTCGAATCCATCATAGAAAGAGGTGGA
1 GAAGAAGTTTCTAATGAGAAGAACTTGTTCAACATTAGTTCGAATCCATCACAGAAAGAGGTGGA
*
4945296 TCAACATTTTCAATGGAAGGGTTCGTAATAAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
66 TCAACATTTTCAATGGAAGGGTTCGTAATAAGAAGAACTCATCCGATGAGGCAGAAGAAGTTCAT
* ** *
4945361 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCCATCACATAAGGAGTTGGAACATCACCGACC
131 AATGAGAAGAACTTGTTCAACCTTAGCTCAATTCCATCACATAAGGAGTTGGAACAAAACCGAAC
* * * * * ** *
4945426 TTGGCTCATCCATCGCATAAGGAGTTGGATGAGCACCAGAACTACGATTGATTCTTTCACATAAG
196 TTGGCTCATCCAGCACATAAGGAGTTGGATCAACACCAGAACTACGATTGAATCCATCACAAAAG
* *
4945491 GAGTTGGATCAACATATCCAAT
261 AAGGTGGATCAACATATCCAAT
* * * *
4945513 GAAGAAGTTTCTAATGAGAAGAACTTGTTCAACCTTAGCTT-GATTCTATCACAGAAAGATGTGG
1 GAAGAAGTTTCTAATGAGAAGAACTTGTTCAACATTAG-TTCGAATCCATCACAGAAAGAGGTGG
* * * *
4945577 ATCAAC-TTTTCCAATGGAAGGGTTCGTAATGAGAAGAATTCGTCCGATGAGGCATAAGAAGTTC
65 ATCAACATTTT-CAATGGAAGGGTTCGTAATAAGAAGAACTCATCCGATGAGGCAGAAGAAGTTC
* **
4945641 ATAATGAGAAGAACTTGTTCAACCTTAGCTTAATTCCATCACATAAGGAGTTGGAACAAAATTGA
129 ATAATGAGAAGAACTTGTTCAACCTTAGCTCAATTCCATCACATAAGGAGTTGGAACAAAACCGA
* ** **
4945706 ACTTGGCTCATCCAGCACATAAGGAGTTGGATCAACATCATCACTTTG-TTCGAATCCATCACAA
194 ACTTGGCTCATCCAGCACATAAGGAGTTGGATCAACACCAGAACTACGATT-GAATCCATCACAA
* * *
4945770 AATAAGGTGGATCAATATTTCCAAT
258 AAGAAGGTGGATCAACATATCCAAT
*
4945795 G--GAAGGGTTCGTAATGAGAAGAACT
1 GAAGAA-GTTTC-TAATGAGAAGAACT
4945820 CATCTGATGA
Statistics
Matches: 263, Mismatches: 39, Indels: 10
0.84 0.12 0.03
Matches are distributed among these distances:
280 3 0.01
281 10 0.04
282 248 0.94
283 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (282 bp):
GAAGAAGTTTCTAATGAGAAGAACTTGTTCAACATTAGTTCGAATCCATCACAGAAAGAGGTGGA
TCAACATTTTCAATGGAAGGGTTCGTAATAAGAAGAACTCATCCGATGAGGCAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTAGCTCAATTCCATCACATAAGGAGTTGGAACAAAACCGAAC
TTGGCTCATCCAGCACATAAGGAGTTGGATCAACACCAGAACTACGATTGAATCCATCACAAAAG
AAGGTGGATCAACATATCCAAT
Found at i:4948300 original size:22 final size:20
Alignment explanation
Indices: 4948260--4948300 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
4948250 AAATTCCAGC
*
4948260 TTTTAATTTTTTCTGTATTG
1 TTTTAATTTTTTCTATATTG
4948280 TTTTAATTTTAGTTCTATATT
1 TTTTAATTTT--TTCTATATT
4948301 CTGAATTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.20, C:0.05, G:0.07, T:0.68
Consensus pattern (20 bp):
TTTTAATTTTTTCTATATTG
Found at i:4955627 original size:24 final size:24
Alignment explanation
Indices: 4955608--4955660 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
4955598 TCGATTCAAA
4955608 CTCGAGACTCGAGCTTGATTGAAG
1 CTCGAGACTCGAGCTTGATTGAAG
4955632 CTCGAGACTCGAGCTTGATTGAAG
1 CTCGAGACTCGAGCTTGATTGAAG
4955656 CTCGA
1 CTCGA
4955661 TTCAAATTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (24 bp):
CTCGAGACTCGAGCTTGATTGAAG
Found at i:4955682 original size:17 final size:17
Alignment explanation
Indices: 4955660--4955694 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4955650 TTGAAGCTCG
*
4955660 ATTCAAATTCGAACTCA
1 ATTCAAACTCGAACTCA
4955677 ATTCAAACTCGAACTCA
1 ATTCAAACTCGAACTCA
4955694 A
1 A
4955695 ACTCGAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.26, G:0.06, T:0.26
Consensus pattern (17 bp):
ATTCAAACTCGAACTCA
Found at i:4955744 original size:63 final size:63
Alignment explanation
Indices: 4955642--4955769 Score: 175
Period size: 63 Copynumber: 2.0 Consensus size: 63
4955632 CTCGAGACTC
* * * *
4955642 GAGCTTGATTGAAGCTCGATTCAAATTCGAACTCAATTCAAACTCGAACTCAAACTCGAATTT
1 GAGCTTGATTCAAGCTCAATTCAAACTCGAACTCAATTCAAACTCAAACTCAAACTCGAATTT
* * * * *
4955705 GAGCTTGGTTCAAGCTCAATTCAAGCTCGAACTCGATTCAAGCTCAAACTCGAACTCGAATTT
1 GAGCTTGATTCAAGCTCAATTCAAACTCGAACTCAATTCAAACTCAAACTCAAACTCGAATTT
4955768 GA
1 GA
4955770 AACTACAAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.27
Consensus pattern (63 bp):
GAGCTTGATTCAAGCTCAATTCAAACTCGAACTCAATTCAAACTCAAACTCAAACTCGAATTT
Found at i:4955745 original size:17 final size:17
Alignment explanation
Indices: 4955723--4955757 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4955713 TTCAAGCTCA
*
4955723 ATTCAAGCTCGAACTCG
1 ATTCAAGCTCAAACTCG
4955740 ATTCAAGCTCAAACTCG
1 ATTCAAGCTCAAACTCG
4955757 A
1 A
4955758 ACTCGAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.23
Consensus pattern (17 bp):
ATTCAAGCTCAAACTCG
Found at i:4957888 original size:19 final size:19
Alignment explanation
Indices: 4957862--4957905 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
4957852 GGCCACGGTG
4957862 GCTGTGGGTTTCTGCTAGA
1 GCTGTGGGTTTCTGCTAGA
*
4957881 GTTGTGGGTTTCTGCTAGA
1 GCTGTGGGTTTCTGCTAGA
4957900 GCTGTG
1 GCTGTG
4957906 CGAGTGGACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.09, C:0.14, G:0.39, T:0.39
Consensus pattern (19 bp):
GCTGTGGGTTTCTGCTAGA
Found at i:4958046 original size:17 final size:18
Alignment explanation
Indices: 4958024--4958066 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
4958014 TTAGTGTTCC
4958024 TTTAATT-TGTACTTGT-T
1 TTTAATTGTGT-CTTGTAT
4958041 TTTAATTGTGTCTTGTAAT
1 TTTAATTGTGTCTTGT-AT
4958060 TTTAATT
1 TTTAATT
4958067 ATTTGACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 12 0.52
18 3 0.13
19 8 0.35
ACGTcount: A:0.21, C:0.05, G:0.12, T:0.63
Consensus pattern (18 bp):
TTTAATTGTGTCTTGTAT
Found at i:4958358 original size:7 final size:7
Alignment explanation
Indices: 4958346--4958452 Score: 79
Period size: 7 Copynumber: 15.3 Consensus size: 7
4958336 GTGTATAAAT
4958346 TAAACCC
1 TAAACCC
4958353 TAAACCC
1 TAAACCC
4958360 TAAACCC
1 TAAACCC
*
4958367 TAAACCT
1 TAAACCC
**
4958374 TAAACTT
1 TAAACCC
*
4958381 TAAACTC
1 TAAACCC
*
4958388 TAAATCC
1 TAAACCC
**
4958395 TAAGTCC
1 TAAACCC
*
4958402 TAAACCA
1 TAAACCC
* **
4958409 TGAATTC
1 TAAACCC
**
4958416 TAAACTA
1 TAAACCC
* *
4958423 TAAATCT
1 TAAACCC
4958430 TAAACCC
1 TAAACCC
4958437 TAAACCC
1 TAAACCC
4958444 TAAACCC
1 TAAACCC
4958451 TA
1 TA
4958453 TCACGTAATT
Statistics
Matches: 79, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 79 1.00
ACGTcount: A:0.43, C:0.30, G:0.02, T:0.25
Consensus pattern (7 bp):
TAAACCC
Found at i:4958391 original size:35 final size:35
Alignment explanation
Indices: 4958345--4958448 Score: 111
Period size: 35 Copynumber: 3.0 Consensus size: 35
4958335 TGTGTATAAA
* * *
4958345 TTAAACCCTAAACCCTAAACCCTAAACCTTAAACT
1 TTAAACTCTAAATCCTAAACCCTAAACCATAAACT
** *
4958380 TTAAACTCTAAATCCTAAGTCCTAAACCATGAA-T
1 TTAAACTCTAAATCCTAAACCCTAAACCATAAACT
* * *
4958414 TCTAAACTATAAATCTTAAACCCTAAACCCTAAAC
1 T-TAAACTCTAAATCCTAAACCCTAAACCATAAAC
4958449 CCTATCACGT
Statistics
Matches: 55, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
34 2 0.04
35 53 0.96
ACGTcount: A:0.43, C:0.29, G:0.02, T:0.26
Consensus pattern (35 bp):
TTAAACTCTAAATCCTAAACCCTAAACCATAAACT
Found at i:4958549 original size:14 final size:14
Alignment explanation
Indices: 4958530--4958559 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4958520 TATAATTATC
*
4958530 AATAATGTATTTTT
1 AATAATGTAATTTT
4958544 AATAATGTAATTTT
1 AATAATGTAATTTT
4958558 AA
1 AA
4958560 AAAATCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATAATGTAATTTT
Found at i:4958676 original size:22 final size:22
Alignment explanation
Indices: 4958651--4958701 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
4958641 CATTAATAAA
* * *
4958651 TCGAGTCGAGCTCAAACTTGAT
1 TCGAGTCCAGCTCAAACTCGAG
4958673 TCGAGTCCAGCTCAAACTCGAG
1 TCGAGTCCAGCTCAAACTCGAG
4958695 TCGAGTC
1 TCGAGTC
4958702 TATTCGATCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (22 bp):
TCGAGTCCAGCTCAAACTCGAG
Found at i:4958841 original size:14 final size:14
Alignment explanation
Indices: 4958822--4958855 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
4958812 ACAAAAATCC
4958822 AATGGATTAGCAGG
1 AATGGATTAGCAGG
4958836 AATGGATTAGCAGG
1 AATGGATTAGCAGG
4958850 AATGGA
1 AATGGA
4958856 AACAAGATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.38, C:0.06, G:0.35, T:0.21
Consensus pattern (14 bp):
AATGGATTAGCAGG
Found at i:4961174 original size:21 final size:22
Alignment explanation
Indices: 4961148--4961190 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4961138 ACAAAAGTGG
4961148 CGTGCCA-AAAGACAGAGGAAA
1 CGTGCCACAAAGACAGAGGAAA
**
4961169 CGTGCCACAAAGGTAGAGGAAA
1 CGTGCCACAAAGACAGAGGAAA
4961191 ATGTTTCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.44, C:0.19, G:0.30, T:0.07
Consensus pattern (22 bp):
CGTGCCACAAAGACAGAGGAAA
Found at i:4961708 original size:843 final size:841
Alignment explanation
Indices: 4959058--4961998 Score: 2874
Period size: 856 Copynumber: 3.5 Consensus size: 841
4959048 TGGGAATTGG
* * * * ** *
4959058 ACCCACGACCACGTGGTTAAAAGCCACACAATCTATCGACTGAGCTAAGATTTCTAATCAATATG
1 ACCCACGATCACATGGTTAAAAGCCACACACTCTATCGACTAAGCTAAGATGGCTAATTAATATG
* *
4959123 TTTGTGAAGCATTTGTATATACTATATTTATATATATATAAACATAATCAAATAAATTCAAACAA
66 TTTGTGAAGCATTTGTATATACTATATTTATATATATATAAACATAACCAAATAAATTCAAATAA
* * * * *
4959188 AAGGTAAACACAAACAGATCTGACCGCATCGATAAATAAACCATAAAAGGAGATCAATCTATTAA
131 AATGTAGACACAAACAGATCTGACCGCATCGATAAACAAACCATAAAAGGAGATCAAGCTATTGA
* * *
4959253 AAGATCATCGTCAAACTTG-AAATCAGAATCGAGCGACATGAGAAAACTATCCACAAACACAAAT
196 AAGACCATCGTCAAAC--GCAAATCAAAATCGAGCGACATGAGAAAACTATCCACGAACACAAAT
** * * * *
4959317 TGTGTATCAAAATCCAATCTGATGGTCTTAAGAAGGGAAAATAAGCATTATAACAAATGAGTGTC
259 TGCATATCGAAATCCAATCTGATGGTCTTAAGCAGAGAAAATAAGCATGATAACAAATGAGTGTC
* * * * * **
4959382 ATCTTAATTAGTCGTAGTGATATCAAATTCAACCCTGAGAAAAAGGATAAATGAAAGTAACATGC
324 ATCTTAATCAGTCGTAATGATGTCAAATCCAACCCTAAGAAAAAGGATAAACAAAAGTAACATGC
* * * * * *
4959447 CAAAAAACAGAGGAAACATGCCATAAAGGTAAAGGAAAACGTGCCCTAAAGGTGAGTTACTAAAA
389 CAAAAGACAGAGGAAACGTGCCACAAAGGTAAAGGAAAACGTGTCATAAAGGTGAGTTATTAAAA
* * * *
4959512 GTAAGAAGAAAAAAAGACACGACATTATAAAATAAAGAAAAAAAAATGAATATTGATGGTCGACA
454 ATAA-AA-AAAAAAAGATACGACATAATAAAATAAAGAAAAAAAAATGAATATCGATGGTCGACA
* * * *
4959577 ACTAGTATCAACGTTGGTGCCATCGTCGATTACAAAGAT-AAATAAAAAAGGCAAACAATGGCAC
517 ACTAGTATCAACGATGGTG-CATTGTCGATTAAAAAGATGAAAT--AAAAGGCTAACAATGG--C
* *
4959641 AAAAAAAAAGAAAATTAGAAAACAATGTATCATACTCAAAATAAATATTATAAGAGGACTATATT
577 --AAAAAAA-AAAATTAGAAAAAAAT-TATCATACTCAAAATAAATATTATAATAGGACTATATT
* *
4959706 AGCATCCTATGTTAACAAGAAAATTGACATAACATTGAACATGCGTTACCCTACTCAAAACTTTA
638 AGCATTCTATGTTAACAAGAAAATTGTCATAACATTGAACATGCGTTACCCTACTCAAAACTTTA
* * *
4959771 TGTTGTTATTTTTCAATATTATTATAAAGTTGTTTTTCTTACATATTTGATTTTCACATACAAAT
703 TATTGTTATTTTTCAATATTATTATAAAGCTGCTTTTCTTACATATTTGATTTTCACATACAAAT
* * *
4959836 TGAAACCATATTTTCTTTTAACAGATTTTAGGTAATGTTTACCATATAGAAGCTATAAAAAGGTC
768 TGATACCATATTTTCTTTTAACAGATTTTAGGTAA----T---ATA-ACAA-CTATAAAAA--TG
*
4959901 TCATTG-TT-TGTAAGAATCAA
822 TC-TTGCTTCTGT-GGAATCAA
* * *** * *
4959921 ACCCACGACCACATGATTAAAAGCCGTGCACTCT-TCCAACTGAA-CTAAGATGGTTAATTAATA
1 ACCCACGATCACATGGTTAAAAGCCACACACTCTAT-CGACT-AAGCTAAGATGGCTAATTAATA
** * * * * * *
4959984 CATTTGTGAAGCATTTGTATATACTATATTTATATATATATATATAT-A-TAAACATAGTCAAAT
64 TGTTTGTGAAGCATTTGTATATACTATATTTATATATATATAAACATAACCAAATAAATTCAAAT
* * ** * * * *
4960047 -AAAT-TCGA-ACAAAAGGTAGATACAAAACCGTATCGACAAACGAACCACAAAA-GAGATCAAG
129 AAAATGTAGACAC-AAA--CAGAT-C-TGACCGCATCGATAAACAAACCATAAAAGGAGATCAAG
* * * * *
4960108 CTATTTAAAGACCATCGTCAAACCCTAAATCAAAATC-AACAACATGAGAAAACTATCCATGAAC
189 CTATTGAAAGACCATCGTCAAACGC-AAATCAAAATCGAGCGACATGAGAAAACTATCCACGAAC
* *** * * *
4960172 GCAAATTATGTATCGAAATACAATATGATGGTCTTAAGCA-AGGAAGATAAGCATGATAACAAAT
253 ACAAATTGCATATCGAAATCCAATCTGATGGTCTTAAGCAGA-GAAAATAAGCATGATAACAAAT
** * * * ** *
4960236 GAG-CACAATCTTAATTAGTTGTAATAATGTCAAATTTAACCCTAAGAAAAAGGATAAACGAAAG
317 GAGTGTC-ATCTTAATCAGTCGTAATGATGTCAAATCCAACCCTAAGAAAAAGGATAAACAAAAG
** * * *
4960300 TAACATGTTAAAAGAAAGAGGAAACG-ACCACAAAGGTACAGGAAAACGTGTCATACAA-GTGAG
381 TAACATGCCAAAAGACAGAGGAAACGTGCCACAAAGGTAAAGGAAAACGTGTCATA-AAGGTGAG
* *
4960363 TTATTAAAAATAAGGAAAAATAACAAAGATACGATATAATAAAATAAAGAAAAAATAATGAATAT
445 TTATTAAAAAT-A--AAAAA-AA-AAAGATACGACATAATAAAATAAAGAAAAAAAAATGAATAT
* * * * * *
4960428 CGATGGTCGACAACTAGTATCAATGCTGGTGCCTTCGTCGATTCCAAAAATAAAGAAAAAAAAGG
505 CGATGGTCGACAACTAGTATCAACGATGGTGCATT-GTCGATT--AAAAA-GATGAAATAAAAGG
* * * * * *
4960493 CTAACAATGGCACACACAAAAA-TAG-AGAAAA-TATTATACTCAAAATAAATATTATAATAAGA
566 CTAACAATGGCAAAAAAAAAAATTAGAAAAAAATTATCATACTCAAAATAAATATTATAATAGGA
* * * * * *
4960555 CTGTATTAGCATTCTATGTTGATAAGAAAATTGTCATAAAACTGAACATGCGTTACCCTAATCAA
631 CTATATTAGCATTCTATGTTAACAAGAAAATTGTCATAACATTGAACATGCGTTACCCTACTCAA
* *
4960620 AACTTTATATTGTTATTTTTCAATATTATTATAAAACTGCTTTTCTTACATCTTTGATTTTCACA
696 AACTTTATATTGTTATTTTTCAATATTATTATAAAGCTGCTTTTCTTACATATTTGATTTTCACA
** * *
4960685 GGCAAATTGATATCATATTTTCTTTTAACAGATTTTAGGTAATGTTTACCATATAACAACTATCA
761 TACAAATTGATACCATATTTTCTTTTAACAGATTTTA-G----G--TA--ATATAACAACTATAA
* * ** **
4960750 AAAGGT-TTCGTCGTCTAAGGAAATTGA
817 AAATGTCTT-G-CTTCTGTGG-AATCAA
* * * ** * *
4960777 ACCCAGGATCACATGGTTAAAAACCAAATGCTCTACCGACTGAGCTAAGATGGCTAATTAATATG
1 ACCCACGATCACATGGTTAAAAGCCACACACTCTATCGACTAAGCTAAGATGGCTAATTAATATG
*
4960842 TTTGTGAAGCATTTG-------------TATATATATATAAACCTAACCAAATAAATTCAAATAA
66 TTTGTGAAGCATTTGTATATACTATATTTATATATATATAAACATAACCAAATAAATTCAAATAA
* * ** * * *
4960894 AATGTAGACACAAACAGATCTGCCCGCATCAATAAATGAACCATAAAAGGGGATCAAGTTAGTGA
131 AATGTAGACACAAACAGATCTGACCGCATCGATAAACAAACCATAAAAGGAGATCAAGCTATTGA
* *
4960959 AAGACCATCGTCAAACAGCAAATCAAAATCGAGCGACATAAGAAAACTATCCACGAATACAAATT
196 AAGACCATCGTCAAAC-GCAAATCAAAATCGAGCGACATGAGAAAACTATCCACGAACACAAATT
* *
4961024 GCATATCGAAATCCAATCCGATGGTCTTAAGCAGAGAAGATAAGCATGATAACAAATGAGTGTCA
260 GCATATCGAAATCCAATCTGATGGTCTTAAGCAGAGAAAATAAGCATGATAACAAATGAGTGTCA
* ** * ** *
4961089 TCTTGATCAGTCGTGGTGATGTCAAATCCAACCCTAAGAAAAAAGATAAACAAAAGTGGCGTGCC
325 TCTTAATCAGTCGTAATGATGTCAAATCCAACCCTAAGAAAAAGGATAAACAAAAGTAACATGCC
* * * *
4961154 AAAAGACAGAGGAAACGTGCCACAAAGGTAGAGGAAAATGTTTCATAAAGGCGAGTTATTAAAAA
390 AAAAGACAGAGGAAACGTGCCACAAAGGTAAAGGAAAACGTGTCATAAAGGTGAGTTATTAAAAA
* * *
4961219 TAAAAAAAATAAA-ATACAACATAATAAAATAAAGAAAAAACAATGAATATCGATGGTCGACGAC
455 TAAAAAAAA-AAAGATACGACATAATAAAATAAAGAAAAAAAAATGAATATCGATGGTCGACAAC
* * * * * * * *
4961283 CAATATAAACGATGATGTCATTGTCGATTATAAAGATGAAGTAAAAGGTTAACAGTGGCATAAGA
519 TAGTATCAACGATGGTG-CATTGTCGATTAAAAAGATGAAATAAAAGGCTAACAATGGCA-AA-A
*
4961348 AAAAAAATTAGAAAAAAATTATCATACTCAAAATAAATACTATAATAGGACTATATTAGCATTCT
581 AAAAAAATTAGAAAAAAATTATCATACTCAAAATAAATATTATAATAGGACTATATTAGCATTCT
*
4961413 ATGTTAACAAGAAAATTGTCATAACATTGAACATGCGTTACCCTACTCAGAACTTTATATTGTTA
646 ATGTTAACAAGAAAATTGTCATAACATTGAACATGCGTTACCCTACTCAAAACTTTATATTGTTA
* * * *
4961478 TTTTTCAATATTATTATAAAGCTGCTTTTATTACATTTTTTATTTTCACATATAAATTGATACCA
711 TTTTTCAATATTATTATAAAGCTGCTTTTCTTACATATTTGATTTTCACATACAAATTGATACCA
* * * *
4961543 TATTTTCTTTAAATAGATTTTAGGT-ATATAACAACTATTAATATGTCTTGCCTTCTGTGGAATC
776 TATTTTCTTTTAACAGATTTTAGGTAATATAACAACTATAAAAATGTCTTG-CTTCTGTGGAATC
4961607 AA
840 AA
* *** * * * *
4961609 ACCCACGTTCATGCGGTTAAAAGCCACACGCTCTATCGACTAAGTTAAAATGGCTAATTGATATG
1 ACCCACGATCACATGGTTAAAAGCCACACACTCTATCGACTAAGCTAAGATGGCTAATTAATATG
* ** *
4961674 TTTGCGAATTATTTGTATATACTATATTTATATATATATAGAA-ATCTAACTAAATAAATTCAAA
66 TTTGTGAAGCATTTGTATATACTATATTTATATATATATA-AACA--TAACCAAATAAATTCAAA
* * * * * * * * *
4961738 -CAAATGGTAGAAACAAACAAATTTGATCGTATGGATAAAACAAACC-TCAAAAGAATATCAAGC
128 TAAAAT-GTAGACACAAACAGATCTGACCGCATCGAT-AAACAAACCAT-AAAAGGAGATCAAGC
* * * * *
4961801 TATTGAAATATCATCGTAAAACCGCAAATCAGAATCGAGCGACGTGAGAAAACTATCCACGAACA
190 TATTGAAAGACCATCGTCAAA-CGCAAATCAAAATCGAGCGACATGAGAAAACTATCCACGAACA
* ** *
4961866 CAAATCGCATATTC-AAATCCAATCAAATGGTCTAAAGCATGA-AAAATCAA-CATGATAACAAA
254 CAAATTGCATA-TCGAAATCCAATCTGATGGTCTTAAGCA-GAGAAAAT-AAGCATGATAACAAA
* * * * * * *
4961928 TGAGTGTTATATTGATCAGTTGTGACGATGTCAAA-CTCAACCCTTAA-AAAAATGATAAACAAA
316 TGAGTGTCATCTTAATCAGTCGTAATGATGTCAAATC-CAACCC-TAAGAAAAAGGATAAACAAA
*
4961991 AATAACAT
379 AGTAACAT
4961999 TATGAGCCAA
Statistics
Matches: 1696, Mismatches: 300, Indels: 179
0.78 0.14 0.08
Matches are distributed among these distances:
832 68 0.04
833 25 0.01
834 2 0.00
836 1 0.00
838 21 0.01
839 5 0.00
840 6 0.00
841 68 0.04
842 14 0.01
843 217 0.13
844 41 0.02
845 178 0.10
846 52 0.03
847 47 0.03
848 178 0.10
849 10 0.01
852 2 0.00
853 1 0.00
854 1 0.00
855 3 0.00
856 253 0.15
857 4 0.00
858 9 0.01
859 8 0.00
860 46 0.03
861 176 0.10
862 48 0.03
863 187 0.11
864 1 0.00
865 20 0.01
866 1 0.00
867 3 0.00
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (841 bp):
ACCCACGATCACATGGTTAAAAGCCACACACTCTATCGACTAAGCTAAGATGGCTAATTAATATG
TTTGTGAAGCATTTGTATATACTATATTTATATATATATAAACATAACCAAATAAATTCAAATAA
AATGTAGACACAAACAGATCTGACCGCATCGATAAACAAACCATAAAAGGAGATCAAGCTATTGA
AAGACCATCGTCAAACGCAAATCAAAATCGAGCGACATGAGAAAACTATCCACGAACACAAATTG
CATATCGAAATCCAATCTGATGGTCTTAAGCAGAGAAAATAAGCATGATAACAAATGAGTGTCAT
CTTAATCAGTCGTAATGATGTCAAATCCAACCCTAAGAAAAAGGATAAACAAAAGTAACATGCCA
AAAGACAGAGGAAACGTGCCACAAAGGTAAAGGAAAACGTGTCATAAAGGTGAGTTATTAAAAAT
AAAAAAAAAAAGATACGACATAATAAAATAAAGAAAAAAAAATGAATATCGATGGTCGACAACTA
GTATCAACGATGGTGCATTGTCGATTAAAAAGATGAAATAAAAGGCTAACAATGGCAAAAAAAAA
AATTAGAAAAAAATTATCATACTCAAAATAAATATTATAATAGGACTATATTAGCATTCTATGTT
AACAAGAAAATTGTCATAACATTGAACATGCGTTACCCTACTCAAAACTTTATATTGTTATTTTT
CAATATTATTATAAAGCTGCTTTTCTTACATATTTGATTTTCACATACAAATTGATACCATATTT
TCTTTTAACAGATTTTAGGTAATATAACAACTATAAAAATGTCTTGCTTCTGTGGAATCAA
Found at i:4966059 original size:12 final size:12
Alignment explanation
Indices: 4966044--4966070 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4966034 ACTCGAGCTC
4966044 AATTTAAATTTG
1 AATTTAAATTTG
4966056 AATTTAAATTTG
1 AATTTAAATTTG
4966068 AAT
1 AAT
4966071 ATGAATCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
AATTTAAATTTG
Found at i:4966075 original size:18 final size:19
Alignment explanation
Indices: 4966044--4966081 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
4966034 ACTCGAGCTC
*
4966044 AATTTAAATTTGAAT-TTA
1 AATTTAAATATGAATCTTA
*
4966062 AATTTGAATATGAATCTTA
1 AATTTAAATATGAATCTTA
4966081 A
1 A
4966082 GTACATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.45
Consensus pattern (19 bp):
AATTTAAATATGAATCTTA
Found at i:4973202 original size:16 final size:18
Alignment explanation
Indices: 4973167--4973203 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
4973157 ATTTTGTATT
*
4973167 ATTAAAGTTTGTGATTTA
1 ATTAAAGTTTGTGATCTA
4973185 ATTAAAG-TT-TGATCTA
1 ATTAAAGTTTGTGATCTA
4973201 ATT
1 ATT
4973204 CGGAAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 9 0.50
17 2 0.11
18 7 0.39
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.49
Consensus pattern (18 bp):
ATTAAAGTTTGTGATCTA
Found at i:4975224 original size:18 final size:18
Alignment explanation
Indices: 4975193--4975245 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
4975183 ATTGAATATT
* *
4975193 TGTCCTGAACGACCACTA
1 TGTCCCGAAGGACCACTA
4975211 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
4975229 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
4975246 GATAATCCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.26, C:0.34, G:0.21, T:0.19
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:4982297 original size:24 final size:24
Alignment explanation
Indices: 4982253--4982302 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
4982243 ATAAAAAACC
*
4982253 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
4982277 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACATACCATTA
4982301 AA
1 AA
4982303 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:4992542 original size:24 final size:24
Alignment explanation
Indices: 4992498--4992547 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
4992488 ATAAAGAACC
*
4992498 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
4992522 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACATACCATTA
4992546 AA
1 AA
4992548 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:4994679 original size:63 final size:63
Alignment explanation
Indices: 4994570--4994692 Score: 167
Period size: 63 Copynumber: 2.0 Consensus size: 63
4994560 CGATGCATTC
* ***
4994570 CTTAATGTGTGTATCGATGCACTACCTGTGCATTGGTACACAAATTACATTCGATGTTTTCAT
1 CTTAATGGGTGTATCGATGCACTACCTGTGCATCAATACACAAATTACATTCGATGTTTTCAT
* * *
4994633 CTTAATGGGTGTATCGATGCACT-CACTGTGCATCAATGCACTAATTACATTTGATGTTTT
1 CTTAATGGGTGTATCGATGCACTAC-CTGTGCATCAATACACAAATTACATTCGATGTTTT
4994693 TATTTCGTTG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
62 1 0.02
63 51 0.98
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (63 bp):
CTTAATGGGTGTATCGATGCACTACCTGTGCATCAATACACAAATTACATTCGATGTTTTCAT
Found at i:5000197 original size:3 final size:3
Alignment explanation
Indices: 5000189--5000214 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5000179 ATATATCTTA
5000189 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
5000215 AACCCAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:5000448 original size:14 final size:14
Alignment explanation
Indices: 5000429--5000467 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
5000419 TAATGGGGAG
5000429 TAATCCCTGCAAAA
1 TAATCCCTGCAAAA
*
5000443 TAATCCCTGCGAAA
1 TAATCCCTGCAAAA
* *
5000457 GAATCTCTGCA
1 TAATCCCTGCA
5000468 TATAGACAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (14 bp):
TAATCCCTGCAAAA
Found at i:5002718 original size:2 final size:2
Alignment explanation
Indices: 5002702--5002748 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
5002692 ATTTTTGACA
* *
5002702 AT AT TT AT A- AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5002743 AT AT AT
1 AT AT AT
5002749 TCTTTTCTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5004708 original size:16 final size:16
Alignment explanation
Indices: 5004643--5004708 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 16
5004633 AGTATTACCC
5004643 GACTTGTTA-TGAACCT
1 GACTTGTTATTG-ACCT
* *
5004659 GACCTGTT-TTCAACCT
1 GACTTGTTATT-GACCT
* * *
5004675 GACTTGTAAATGATCT
1 GACTTGTTATTGACCT
5004691 GACTTGTTATTGACCT
1 GACTTGTTATTGACCT
5004707 GA
1 GA
5004709 TCTGATATTT
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
16 36 0.97
17 1 0.03
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (16 bp):
GACTTGTTATTGACCT
Found at i:5004905 original size:22 final size:22
Alignment explanation
Indices: 5004876--5004946 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
5004866 TAATATACAT
5004876 TATA-TTTAATACTTATATTTA
1 TATACTTTAATACTTATATTTA
**
5004897 TATACTTTAATACTTATATCCA
1 TATACTTTAATACTTATATTTA
* * *
5004919 AACACTTTATTACTT-TATATTA
1 TATACTTTAATACTTATAT-TTA
5004941 TATACT
1 TATACT
5004947 ATATATAGTA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
21 7 0.18
22 32 0.82
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.51
Consensus pattern (22 bp):
TATACTTTAATACTTATATTTA
Found at i:5004914 original size:14 final size:14
Alignment explanation
Indices: 5004868--5004903 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
5004858 ATGATAAATA
5004868 ATATACATTATATTT
1 ATATAC-TTATATTT
5004883 A-ATACTTATATTT
1 ATATACTTATATTT
5004896 ATATACTT
1 ATATACTT
5004904 TAATACTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 9 0.45
14 10 0.50
15 1 0.05
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATACTTATATTT
Found at i:5004951 original size:2 final size:2
Alignment explanation
Indices: 5004934--5004975 Score: 52
Period size: 2 Copynumber: 21.0 Consensus size: 2
5004924 TTTATTACTT
5004934 TA TA T- TA TA TA CTA TA TA TA GTA TA -A TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
5004976 CACACACACT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
1 2 0.06
2 30 0.83
3 4 0.11
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:5005983 original size:529 final size:521
Alignment explanation
Indices: 5004986--5005969 Score: 1540
Period size: 529 Copynumber: 1.9 Consensus size: 521
5004976 CACACACACT
* * *
5004986 TATACTTTTACTTTATAGTTTATATATGTATATAAAGTACCAAATTTAACAAACATGAAATTGAA
1 TATACTTATACTTTATAGTTTATATAGGTATATAAAGTACCAAATTGAACAAACATGAAATTGAA
* *
5005051 ATAAAAAATTGAATAAATTAAACAACACGCATTGATGAGGGATGAAATTGAATTAATTATAAAAT
66 ATAAAAAATTGAATAAATTAAACAACACACATTAATGAGGGATGAAATTGAATTAATTATAAAAT
*
5005116 GTGAGCTGATATTAATATAAAAATAGACTAATTTGAATACATTTAAAAAGTTGGCGAACATAATT
131 GTGAGCTGATATTAATATAAAAATAGACTAAATTGAATACATTTAAAAAGTTGGCGAACATAATT
*
5005181 TGAAAAGAAATTTATTATGTGATTTACATTTTATAGGGTTTTAAGTAAATTACAAAAATATAAAT
196 TGAAAAGAAATTTATTATGTGATTTACATTTTATAGGGTTTTAAGTAAATTAAAAAAATATAAAT
* * *
5005246 AAGTATGGGTCAATTTGAGATACAAATATAATATGAAGGACTAAATTGAACAAATATGAAATTAC
261 AAGTATGAGTCAATTTCAGATACAAATATAATATGAAGGACTAAATTGAACAAATATGAAATTAA
* *
5005311 AAATTAAAATTTAAATACAATAAACAACATAAAAGGATGAAATAAAAAAATAAAAAATGTGAGGA
326 AAACTAAAATTTAAATACAATAAACAACATAAAAGGATCAAATAAAAAAATAAAAAATGTGAGGA
* *
5005376 AAAATTGTAAAATGGATTGAATTGTATTAATTCAAAAGTTGGGGAAATTAAAACAATTATTATAT
391 AAAATTGTAAAATGGACTGAATTGCATTAATTCAAAAGTTGGGGAAATTAAAAC------TATAT
5005441 ATATAATATGTATAATGAATGTTATGATAATATGATGCATGTATATATAATGTACATTATACTTT
450 ATATAATATGTATAATGAATGTTATGATAATATGATGCATGTATATATAATGTACATTATACTTT
5005506 TTATATA
515 TTATATA
*
5005513 TATACTTATACTTTATAGTTTATATAGGTGTATAAAGTACCAAATTGAACAAACATGAAATTGAA
1 TATACTTATACTTTATAGTTTATATAGGTATATAAAGTACCAAATTGAACAAACATGAAATTG-A
5005578 AATAAAAAATTGAATAAATTAAACAACACACATTAATGAGGGATGAAATTGAATTAATTATAAAA
65 AATAAAAAATTGAATAAATTAAACAACACACATTAATGAGGGATGAAATTGAATTAATTATAAAA
* * * * *
5005643 TGTGAAGGTGGTATTAATATAAAAATGGACTAAATTGCATACATTTAAAAAGTTGGTGAACATAA
130 TGTG-AGCTGATATTAATATAAAAATAGACTAAATTGAATACATTTAAAAAGTTGGCGAACATAA
5005708 TTTGAAAAGAAATTTATTATGTGATTTACATTTTATATGGTTTGTTTTAAGTAAATTAAAAAAAA
194 TTTGAAAAGAAATTTATTATGTGATTTACATTTTATA-GG---GTTTTAAGTAAATT-AAAAAAA
* * *
5005773 TATAAATAAGTATGAGTCAATTTCAGATATTTATATATAATTTGAAGGACTAAATTGAACAAATA
254 TATAAATAAGTATGAGTCAATTTCAGATA--CAAATATAATATGAAGGACTAAATTGAACAAATA
* *
5005838 TGAAATTAAAAACTAAAATTTGAATACAATAAACAACATAAAAGGATCAAATCAAAAAAATTGTA
317 TGAAATTAAAAACTAAAATTTAAATACAATAAACAACATAAAAGGATCAAAT-AAAAAAA-T-AA
5005903 AAAA-GTGAGG-AAAATTGTAAAATGGACTGAATTGCATTAATTTCAAAAGTTGGGGAAAAATTA
379 AAAATGTGAGGAAAAATTGTAAAATGGACTGAATTGCATTAA-TTCAAAAGTTGGGG--AAATTA
5005966 AAAC
441 AAAC
5005970 AATTATAATG
Statistics
Matches: 417, Mismatches: 25, Indels: 17
0.91 0.05 0.04
Matches are distributed among these distances:
527 59 0.14
528 68 0.16
529 91 0.22
530 2 0.00
533 14 0.03
534 33 0.08
536 79 0.19
537 35 0.08
538 21 0.05
539 5 0.01
540 10 0.02
ACGTcount: A:0.48, C:0.06, G:0.13, T:0.33
Consensus pattern (521 bp):
TATACTTATACTTTATAGTTTATATAGGTATATAAAGTACCAAATTGAACAAACATGAAATTGAA
ATAAAAAATTGAATAAATTAAACAACACACATTAATGAGGGATGAAATTGAATTAATTATAAAAT
GTGAGCTGATATTAATATAAAAATAGACTAAATTGAATACATTTAAAAAGTTGGCGAACATAATT
TGAAAAGAAATTTATTATGTGATTTACATTTTATAGGGTTTTAAGTAAATTAAAAAAATATAAAT
AAGTATGAGTCAATTTCAGATACAAATATAATATGAAGGACTAAATTGAACAAATATGAAATTAA
AAACTAAAATTTAAATACAATAAACAACATAAAAGGATCAAATAAAAAAATAAAAAATGTGAGGA
AAAATTGTAAAATGGACTGAATTGCATTAATTCAAAAGTTGGGGAAATTAAAACTATATATATAA
TATGTATAATGAATGTTATGATAATATGATGCATGTATATATAATGTACATTATACTTTTTATAT
A
Found at i:5005986 original size:6 final size:6
Alignment explanation
Indices: 5005977--5007180 Score: 2026
Period size: 6 Copynumber: 206.5 Consensus size: 6
5005967 AACAATTATA
5005977 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5006025 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5006073 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5006121 ATGTAT ATGTAT ATGTAT ATGTAT ATG--T ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5006167 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5006215 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTA- ATGTATAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATG--TAT
5006264 ATGTAT ATG--T ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATG--T
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5006308 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATG--T ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5006354 ATGTAT ATGTAT ATG--T ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5006400 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5006448 ATG--T ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5006494 ATGTAT A-GTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5006541 ATGTAT ATGTAT ATGTAT ATG--T ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5006587 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5006635 ATGTAT ATGTAT ATGTATAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATG--TAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5006685 ATGTAT ATGTAT ATGTAT ATG--T ATGTAT ATGTAT ATGTAT ATG--T
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5006729 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5006777 ATGTAT ATGTAT ATGTAT ATGTAT ATG--T ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5006823 ATG--T ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATG--T ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5006867 ATGTAT ATGTAT ATG--T ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5006913 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATG--T ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5006959 ATG--T ATGTAT ATGTAT ATGTAT ATGTAT ATGTATAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATG--TAT ATGTAT ATGTAT
5007007 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5007055 ATGTAT ATG--T ATGTAT ATGTAT ATGTAT ATG--T ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
*
5007099 ATGTATGT ATATAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATG--T
1 ATGTA--T ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
5007147 ATGTAT ATG--T ATGTAT ATGTA- A--TAT ATGTAT ATG
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATG
5007181 ATGTATATAA
Statistics
Matches: 1145, Mismatches: 2, Indels: 102
0.92 0.00 0.08
Matches are distributed among these distances:
3 2 0.00
4 77 0.07
5 9 0.01
6 1035 0.90
7 2 0.00
8 20 0.02
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATGTAT
Done.