Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_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: 6772376
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 32
Found at i:3198704 original size:2 final size:2
Alignment explanation
Indices: 3198697--3198732 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
3198687 TAAGTGAATA
*
3198697 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3198733 TACTTTTTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3211509 original size:35 final size:36
Alignment explanation
Indices: 3211427--3211513 Score: 106
Period size: 35 Copynumber: 2.4 Consensus size: 36
3211417 TACCAAAATT
* *
3211427 TTACCAAACTTTG-AAAAACATTTTTCAAAGAAACAT
1 TTACCAAACTTTGAAAAAACATTTTCCAAAG-AACAG
***
3211463 TTACCAAACTTTGAAAAAACATTTTCCAAAG-TTGG
1 TTACCAAACTTTGAAAAAACATTTTCCAAAGAACAG
3211498 TTACCAAACTTTGAAA
1 TTACCAAACTTTGAAA
3211514 CTTTTAACAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
35 16 0.36
36 13 0.29
37 16 0.36
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (36 bp):
TTACCAAACTTTGAAAAAACATTTTCCAAAGAACAG
Found at i:3215560 original size:16 final size:16
Alignment explanation
Indices: 3215536--3215569 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
3215526 TATCGCCGAC
*
3215536 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
3215552 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
3215568 CG
1 CG
3215570 TTAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:3216085 original size:35 final size:36
Alignment explanation
Indices: 3216003--3216089 Score: 106
Period size: 35 Copynumber: 2.4 Consensus size: 36
3215993 TACCAAAATT
* *
3216003 TTACCAAACTTTG-AAAAACATTTTTCAAAGAAACAT
1 TTACCAAACTTTGAAAAAACATTTTCCAAAG-AACAG
***
3216039 TTACCAAACTTTGAAAAAACATTTTCCAAAG-TTGG
1 TTACCAAACTTTGAAAAAACATTTTCCAAAGAACAG
3216074 TTACCAAACTTTGAAA
1 TTACCAAACTTTGAAA
3216090 CTTTTAACAC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
35 16 0.36
36 13 0.29
37 16 0.36
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (36 bp):
TTACCAAACTTTGAAAAAACATTTTCCAAAGAACAG
Found at i:3220204 original size:26 final size:26
Alignment explanation
Indices: 3220148--3220204 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
3220138 TAGGTAATTT
*
3220148 ATTTT-TTTTTCTATAAAATTTTTTA
1 ATTTTATTTTTCTATAAAATTTTTAA
* *
3220173 AGTTTATTTTTTTA-AAAATTTTATAA
1 ATTTTATTTTTCTATAAAATTTT-TAA
3220199 ATTTTA
1 ATTTTA
3220205 AATTAAGTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (26 bp):
ATTTTATTTTTCTATAAAATTTTTAA
Found at i:3220911 original size:40 final size:40
Alignment explanation
Indices: 3220867--3220942 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
3220857 TCATCTACAC
3220867 GTGTTGCATCTTTAATTATATTCGAAGCTCGTATCAACAT
1 GTGTTGCATCTTTAATTATATTCGAAGCTCGTATCAACAT
* *
3220907 GTGTTGTATCTTTAATTGTATTCGAAGCTCGTATCA
1 GTGTTGCATCTTTAATTATATTCGAAGCTCGTATCA
3220943 TTCCGAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (40 bp):
GTGTTGCATCTTTAATTATATTCGAAGCTCGTATCAACAT
Found at i:3225169 original size:25 final size:25
Alignment explanation
Indices: 3225140--3225195 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
3225130 CACACTGATA
*
3225140 CGGGTGATCCAATCCAATCTGATCC
1 CGGGTGATCCAATCCAATCCGATCC
*
3225165 CGGGTGATCCAATCGAATCCGATCC
1 CGGGTGATCCAATCCAATCCGATCC
*
3225190 GGGGTG
1 CGGGTG
3225196 TCACATTAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.21, C:0.29, G:0.29, T:0.21
Consensus pattern (25 bp):
CGGGTGATCCAATCCAATCCGATCC
Found at i:3225969 original size:32 final size:32
Alignment explanation
Indices: 3225929--3226015 Score: 97
Period size: 32 Copynumber: 2.8 Consensus size: 32
3225919 CCAAAAGTGT
* * *
3225929 TACC-TAGGGCCTAAGAGCATATCCGATGG-AG
1 TACCTTAGGGCCTTAGAGCATA-CCGAAGGAAA
* *
3225960 TACCTTAGGGCCTTAGAGCCTACCTAAGGAAA
1 TACCTTAGGGCCTTAGAGCATACCGAAGGAAA
*
3225992 TACCTTAGGGCCTTAGAGCCTACC
1 TACCTTAGGGCCTTAGAGCATACC
3226016 CAAGTATCAC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
31 9 0.18
32 40 0.82
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (32 bp):
TACCTTAGGGCCTTAGAGCATACCGAAGGAAA
Found at i:3237699 original size:33 final size:33
Alignment explanation
Indices: 3237640--3237706 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 33
3237630 ATGTATTCTC
3237640 TTTAAAAAAAATCAATACATAAATATTAATATTT
1 TTTAAAAAAAATCAATACATAAATATT-ATATTT
* *
3237674 TTTAAAAAAATAT-AAT-CTTATATATTATATTT
1 TTTAAAAAAA-ATCAATACATAAATATTATATTT
3237706 T
1 T
3237707 CGAGCTGCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 7 0.23
33 8 0.27
34 13 0.43
35 2 0.07
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (33 bp):
TTTAAAAAAAATCAATACATAAATATTATATTT
Found at i:3239191 original size:21 final size:20
Alignment explanation
Indices: 3239151--3239192 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
3239141 CCAACTTACA
*
3239151 ATGCATTATGAACCATTATT
1 ATGCATTATCAACCATTATT
*
3239171 ATGCATTATACAACTATTATT
1 ATGCATTAT-CAACCATTATT
3239192 A
1 A
3239193 GTTGTATGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (20 bp):
ATGCATTATCAACCATTATT
Found at i:3239219 original size:20 final size:20
Alignment explanation
Indices: 3239194--3239232 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
3239184 CTATTATTAG
3239194 TTGTATGACAACTAATAATT
1 TTGTATGACAACTAATAATT
3239214 TTGTATGACAACTAATAAT
1 TTGTATGACAACTAATAAT
3239233 CTCCTACTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (20 bp):
TTGTATGACAACTAATAATT
Found at i:3243787 original size:23 final size:23
Alignment explanation
Indices: 3243757--3243822 Score: 107
Period size: 23 Copynumber: 2.9 Consensus size: 23
3243747 GTCACTTTTC
3243757 AACCATTATTAG-TGCCAACTATG
1 AACCATTATT-GTTGCCAACTATG
*
3243780 AACCATTATTGTTGCAAACTATG
1 AACCATTATTGTTGCCAACTATG
3243803 AACCATTATTGTTGCCAACT
1 AACCATTATTGTTGCCAACT
3243823 TACAATGCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
22 1 0.03
23 39 0.98
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (23 bp):
AACCATTATTGTTGCCAACTATG
Found at i:3257442 original size:2 final size:2
Alignment explanation
Indices: 3257435--3257464 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3257425 ATTTTCAATT
3257435 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
3257465 AAACAAAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3257773 original size:35 final size:37
Alignment explanation
Indices: 3257710--3257791 Score: 141
Period size: 35 Copynumber: 2.3 Consensus size: 37
3257700 ATTGTTGTCA
3257710 AGATTTTTGTGTATATAAATTATTTGAGTTTAATATT
1 AGATTTTTGTGTATATAAATTATTTGAGTTTAATATT
3257747 AGATTTTTGTGTA-AT-AATTATTTGAGTTTAATATT
1 AGATTTTTGTGTATATAAATTATTTGAGTTTAATATT
*
3257782 GGATTTTTGT
1 AGATTTTTGT
3257792 TAACCCTTTC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
35 29 0.66
36 2 0.05
37 13 0.30
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (37 bp):
AGATTTTTGTGTATATAAATTATTTGAGTTTAATATT
Found at i:3259178 original size:204 final size:215
Alignment explanation
Indices: 3258887--3259307 Score: 747
Period size: 204 Copynumber: 2.0 Consensus size: 215
3258877 AAACATTGAA
3258887 TTGACTTCTTTCACAAATTTGCTGGAAAACAAAGAGATAAGAATATACCTCAACTTCAAAAGTGA
1 TTGACTTCTTTCACAAATTTGCTGGAAAACAAAGAGATAAGAATATACCTCAACTTCAAAAGTGA
3258952 TTAAATTCATCAAAAAAAAAAAAGCATTGTGTGTTGATTGATG-T-TTAAC-TGAGTAGCCAATG
66 TTAAATTCATCAAAAAAAAAAAAGCATTGTGTGTTGATTGATGTTCTTAACTTGAGTAGCCAATG
3259014 AAAAATATAACAGTTTTT-AA-AA-TTTAAAAAATTTAATTCAAACT-AAAAAGCAACAC-AATA
131 AAAAATATAACAGTTTTTAAATAATTTTAAAAAATTTAATTCAAACTAAAAAAGCAACACAAATA
3259074 GTT-AGTTGAAGAATCAAAT
196 GTTAAGTTGAAGAATCAAAT
3259093 TTGACTTCTTTCACAAATTTGCTGGAAAAC-AA-AGATAAGAATATACCTCAACTTCAAAAGTGA
1 TTGACTTCTTTCACAAATTTGCTGGAAAACAAAGAGATAAGAATATACCTCAACTTCAAAAGTGA
3259156 TTAAATTCATCAAAAAAAAAAAAGCATTGTGTGTTGATTGATGTTCTTAACTTGAGTAGCCAATG
66 TTAAATTCATCAAAAAAAAAAAAGCATTGTGTGTTGATTGATGTTCTTAACTTGAGTAGCCAATG
3259221 AAAAATATAACAGTTTTTAAAATAATTTTTAAAAAATTTAATTCAAACTAAAAAAGCAACACAAA
131 AAAAATATAACAGTTTTT-AAATAA-TTTTAAAAAATTTAATTCAAACTAAAAAAGCAACACAAA
3259286 TAGTTAAGTTGAAGAATCAAAT
194 TAGTTAAGTTGAAGAATCAAAT
3259308 GAAAATTTAT
Statistics
Matches: 204, Mismatches: 0, Indels: 13
0.94 0.00 0.06
Matches are distributed among these distances:
204 74 0.36
205 3 0.01
206 35 0.17
207 31 0.15
209 2 0.01
210 2 0.01
212 22 0.11
213 12 0.06
214 7 0.03
215 16 0.08
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (215 bp):
TTGACTTCTTTCACAAATTTGCTGGAAAACAAAGAGATAAGAATATACCTCAACTTCAAAAGTGA
TTAAATTCATCAAAAAAAAAAAAGCATTGTGTGTTGATTGATGTTCTTAACTTGAGTAGCCAATG
AAAAATATAACAGTTTTTAAATAATTTTAAAAAATTTAATTCAAACTAAAAAAGCAACACAAATA
GTTAAGTTGAAGAATCAAAT
Found at i:3260080 original size:20 final size:21
Alignment explanation
Indices: 3260055--3260106 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
3260045 TTTTCCCAAT
3260055 TCGCAATGCGAA-TAAGAAAA
1 TCGCAATGCGAATTAAGAAAA
* **
3260075 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
3260096 TCGCAATGCGA
1 TCGCAATGCGA
3260107 TACTGACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.15
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:3260119 original size:41 final size:41
Alignment explanation
Indices: 3260092--3260169 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
3260082 GCGAATTGGG
* * *
3260092 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAC
* *
3260133 AAAATCGCAACGAGATATTGACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATA
3260170 CTGACTTTCG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAC
Found at i:3260120 original size:20 final size:20
Alignment explanation
Indices: 3260095--3260209 Score: 90
Period size: 20 Copynumber: 5.7 Consensus size: 20
3260085 AATTGGGAAA
* *
3260095 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATAATGACT
* *
3260115 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATAATGAC--T
* *
3260136 ATCGCAACGAGATATTGACT
1 ATCGCAACGCGATAATGACT
* *
3260156 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATAATGACT
*
3260176 TTCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATAATGAC-T
*
3260196 AATCGCAATGCGAT
1 -ATCGCAACGCGAT
3260210 TTTCTAAGCG
Statistics
Matches: 78, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.05
20 48 0.62
21 24 0.31
22 2 0.03
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATAATGACT
Found at i:3260403 original size:22 final size:22
Alignment explanation
Indices: 3260375--3260418 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
3260365 CACTCTCTCA
3260375 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
3260397 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
3260419 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:3260726 original size:20 final size:20
Alignment explanation
Indices: 3260672--3260730 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
3260662 GCGATTCTCT
**
3260672 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
3260692 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
3260712 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
3260731 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:3260921 original size:25 final size:24
Alignment explanation
Indices: 3260865--3260921 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
3260855 TTATGTTTAT
*
3260865 TATGTTTTTGGTATATCTTCACAG
1 TATGTTTTTGGTATATCTTAACAG
*
3260889 TGTAGTTTTTGGTATATC-TAACTTAG
1 TAT-GTTTTTGGTATATCTTAAC--AG
3260915 TATGTTT
1 TATGTTT
3260922 ATTGTTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
24 5 0.19
25 18 0.67
26 4 0.15
ACGTcount: A:0.21, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TATGTTTTTGGTATATCTTAACAG
Found at i:3262617 original size:19 final size:20
Alignment explanation
Indices: 3262563--3262629 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
3262553 TAGTTTACTT
* *
3262563 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
3262583 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
3262603 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
3262622 TCGCAACG
1 TCGCAACG
3262630 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:3262656 original size:19 final size:19
Alignment explanation
Indices: 3262563--3262665 Score: 72
Period size: 19 Copynumber: 5.6 Consensus size: 19
3262553 TAGTTTACTT
* **
3262563 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
3262583 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
3262603 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
3262622 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
3262636 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
3262655 TCGCAATGCGA
1 TCGCAACGCGA
3262666 TTTGTGTTTC
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
14 10 0.15
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 27 0.40
20 24 0.35
21 1 0.01
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.14
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:3262698 original size:14 final size:14
Alignment explanation
Indices: 3262679--3262734 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
3262669 GTGTTTCGCG
3262679 TTGCGATTTTGTCA
1 TTGCGATTTTGTCA
*
3262693 TTGCGATTTCATTTCGCA
1 TTGCGATTT--TGT--CA
*
3262711 TTGCGATTTTGTCG
1 TTGCGATTTTGTCA
3262725 TTGCGATTTT
1 TTGCGATTTT
3262735 CATTTCGCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
14 20 0.57
16 4 0.11
18 11 0.31
ACGTcount: A:0.12, C:0.16, G:0.21, T:0.50
Consensus pattern (14 bp):
TTGCGATTTTGTCA
Found at i:3262715 original size:32 final size:33
Alignment explanation
Indices: 3262672--3262750 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
3262662 GCGATTTGTG
*
3262672 TTTCGCGTTGCGATTTTGTCATTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCATTGCGATTTTCA
*
3262704 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCATTGCGATTTTCA
3262737 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
3262751 AGCCATTTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 25 0.57
33 19 0.43
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCATTGCGATTTTCA
Found at i:3262765 original size:20 final size:19
Alignment explanation
Indices: 3262735--3262790 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
3262725 TTGCGATTTT
3262735 CATTTCGCATTGCGATAGC
1 CATTTCGCATTGCGATAGC
*
3262754 CATTTCCGCATTGCGATAGT
1 CATTT-CGCATTGCGATAGC
*
3262774 CATTTTCGCGTTGCGAT
1 CA-TTTCGCATTGCGAT
3262791 TTTAAGTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (19 bp):
CATTTCGCATTGCGATAGC
Found at i:3264782 original size:20 final size:20
Alignment explanation
Indices: 3264757--3264795 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3264747 ATGTTAAAGG
3264757 CAAAACAGACTATCGCAACA
1 CAAAACAGACTATCGCAACA
* *
3264777 CAAAACTGATTATCGCAAC
1 CAAAACAGACTATCGCAAC
3264796 GAGAGAATCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.28, G:0.10, T:0.15
Consensus pattern (20 bp):
CAAAACAGACTATCGCAACA
Found at i:3264876 original size:20 final size:20
Alignment explanation
Indices: 3264851--3264928 Score: 147
Period size: 20 Copynumber: 3.9 Consensus size: 20
3264841 TCGCATTGCG
*
3264851 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
3264871 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
3264891 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
3264911 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
3264929 TCAAATGAAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.37
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:3266593 original size:6 final size:6
Alignment explanation
Indices: 3266584--3266609 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
3266574 TAATTTATTT
3266584 ATTCAA ATTCAA ATTCAA ATTCAA AT
1 ATTCAA ATTCAA ATTCAA ATTCAA AT
3266610 AATAATAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (6 bp):
ATTCAA
Found at i:3272382 original size:21 final size:20
Alignment explanation
Indices: 3272358--3272406 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
3272348 TTCAAAATCA
* *
3272358 TTTTTCAAAATTTCATTTTG
1 TTTTTCAAAATCTAATTTTG
3272378 TTTTTCAAAATCTAATTTTG
1 TTTTTCAAAATCTAATTTTG
*
3272398 -CTTTCAAAA
1 TTTTTCAAAA
3272407 GAAAATCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.31, C:0.12, G:0.04, T:0.53
Consensus pattern (20 bp):
TTTTTCAAAATCTAATTTTG
Found at i:3282229 original size:63 final size:64
Alignment explanation
Indices: 3282090--3282249 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 64
3282080 TTGTTTAAGG
* * * *
3282090 TGCATCGATGCACATGCAGTGCATCGATGCATGAATTTAAATAGAAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCAATTTAAATAGAAAACATCGAATAGGATTTA
* * *
3282154 TACATCGATGCATAAGGAGTGCATCGATGCATCCCA-TTAAATA-CAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCAT-CAATTTAAATAGAAAACATCGAATAGGATTTA
*
3282217 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
3282250 ACCTTCATTA
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
62 1 0.01
63 32 0.38
64 50 0.60
65 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.27
Consensus pattern (64 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCAATTTAAATAGAAAACATCGAATAGGATTTA
Found at i:3282764 original size:18 final size:18
Alignment explanation
Indices: 3282741--3282775 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3282731 CTAGGAGATT
3282741 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
3282759 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
3282776 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:3286166 original size:65 final size:65
Alignment explanation
Indices: 3286006--3286166 Score: 204
Period size: 64 Copynumber: 2.5 Consensus size: 65
3285996 TTGTTTAAGG
* * * **
3286006 TGCATCGATGCACATGCAGTGCATCGATGCAT--GAATTTAAATAGAAAACATCGAATAGGATTT
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA-TTAAATAGAAAACATCGAATAGGATTT
3286069 A
65 A
*
3286070 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATA-CAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
*
3286134 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
3286167 ACCTTCATTA
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
63 1 0.01
64 62 0.72
65 22 0.26
66 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (65 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
Found at i:3286663 original size:18 final size:18
Alignment explanation
Indices: 3286640--3286674 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3286630 CTAGGAGATT
3286640 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
3286658 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
3286675 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:3288360 original size:21 final size:21
Alignment explanation
Indices: 3288334--3288373 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3288324 CCCCCTTTGA
*
3288334 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
3288355 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
3288374 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:3298932 original size:15 final size:16
Alignment explanation
Indices: 3298905--3298934 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3298895 TATTAGATAG
3298905 ATATAATTATTTATGC
1 ATATAATTATTTATGC
3298921 ATATAA-TATTTATG
1 ATATAATTATTTATG
3298935 TAAAACGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (16 bp):
ATATAATTATTTATGC
Found at i:3312036 original size:21 final size:21
Alignment explanation
Indices: 3312010--3312064 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
3312000 AAGAAATAAT
3312010 AAATAAAATACAATATG-AA-TA
1 AAAT-AAATA-AATATGTAATTA
3312031 AAATAAATAAATATGTAATTA
1 AAATAAATAAATATGTAATTA
*
3312052 AAA-GAATAAATAT
1 AAATAAATAAATAT
3312065 AAATTATGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 6 0.19
20 16 0.52
21 9 0.29
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.27
Consensus pattern (21 bp):
AAATAAATAAATATGTAATTA
Found at i:3312300 original size:21 final size:21
Alignment explanation
Indices: 3312274--3312320 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
3312264 TGAGATATAG
3312274 ATATATGATATA-ATAATAATA
1 ATATAT-ATATACATAATAATA
* *
3312295 ATATATATTTACATATTAATA
1 ATATATATATACATAATAATA
3312316 ATATA
1 ATATA
3312321 AAAATATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
ATATATATATACATAATAATA
Found at i:3315273 original size:18 final size:18
Alignment explanation
Indices: 3315246--3315293 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
3315236 CTGTATTGGT
*
3315246 TTAGCTTGAAACCTACAC
1 TTAGCATGAAACCTACAC
*
3315264 TTAGCATGAAACGTACAC
1 TTAGCATGAAACCTACAC
*
3315282 TTGGCATGAAAC
1 TTAGCATGAAAC
3315294 TTTGTGGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (18 bp):
TTAGCATGAAACCTACAC
Found at i:3316229 original size:52 final size:52
Alignment explanation
Indices: 3316170--3316284 Score: 194
Period size: 52 Copynumber: 2.2 Consensus size: 52
3316160 GCAAAATACA
* *
3316170 TCCAAATTCATGACACAAATCGTTGTTTGATGAATCTTGCATCGCAACTATG
1 TCCAAATTCATGACACAAATCGTTGTTTGATGAATCTTACATCGCAACTAGG
*
3316222 TCCAAATTCACGACACAAATCGTTGTTTGATGAATCTTACATCGCAACTAGG
1 TCCAAATTCATGACACAAATCGTTGTTTGATGAATCTTACATCGCAACTAGG
*
3316274 TTCAAATTCAT
1 TCCAAATTCAT
3316285 TTATACAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 58 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (52 bp):
TCCAAATTCATGACACAAATCGTTGTTTGATGAATCTTACATCGCAACTAGG
Found at i:3323723 original size:16 final size:16
Alignment explanation
Indices: 3323694--3323765 Score: 103
Period size: 16 Copynumber: 4.6 Consensus size: 16
3323684 CGTTCATTTA
3323694 ATAAAT-AA-ACGAAC
1 ATAAATGAACACGAAC
*
3323708 ATAAACGAACACGAAC
1 ATAAATGAACACGAAC
*
3323724 ATAAATGAACTCGAAC
1 ATAAATGAACACGAAC
3323740 ATAAATGAACACGAAC
1 ATAAATGAACACGAAC
*
3323756 ATAACTGAAC
1 ATAAATGAAC
3323766 GAAATAACCG
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
14 5 0.10
15 2 0.04
16 44 0.86
ACGTcount: A:0.56, C:0.19, G:0.11, T:0.14
Consensus pattern (16 bp):
ATAAATGAACACGAAC
Found at i:3323786 original size:14 final size:14
Alignment explanation
Indices: 3323750--3323793 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
3323740 ATAAATGAAC
*
3323750 ACGAACATAACTGA
1 ACGAACATAACCGA
3323764 ACGAA-ATAACCGA
1 ACGAACATAACCGA
3323777 ACGAACATAACCGA
1 ACGAACATAACCGA
3323791 ACG
1 ACG
3323794 TTCACGAACG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
13 12 0.43
14 16 0.57
ACGTcount: A:0.50, C:0.25, G:0.16, T:0.09
Consensus pattern (14 bp):
ACGAACATAACCGA
Found at i:3334300 original size:31 final size:31
Alignment explanation
Indices: 3334250--3334325 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 31
3334240 CGGTTTTTTT
*
3334250 GTATCATCCTAGCCCTCGAAGTTATTTAATG
1 GTATCATCCTAGCCCTCGAAGTTATTTAAGG
* * *
3334281 GTATCATTCTAGTCTTCGAAGTTATTTAAGG
1 GTATCATCCTAGCCCTCGAAGTTATTTAAGG
*
3334312 GCATCATCCTAGCC
1 GTATCATCCTAGCC
3334326 TTTGATGTCC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (31 bp):
GTATCATCCTAGCCCTCGAAGTTATTTAAGG
Found at i:3348620 original size:21 final size:21
Alignment explanation
Indices: 3348596--3348639 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
3348586 GGTTCTACGC
*
3348596 GGTCATTCGGGACATCTATGT
1 GGTCATTCGAGACATCTATGT
*
3348617 GGTCTTTCGAGACATCTATGT
1 GGTCATTCGAGACATCTATGT
3348638 GG
1 GG
3348640 CACTTTGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.18, G:0.30, T:0.34
Consensus pattern (21 bp):
GGTCATTCGAGACATCTATGT
Found at i:3352483 original size:19 final size:19
Alignment explanation
Indices: 3352461--3352499 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
3352451 TCAAAGTAGG
3352461 GTATTGATACCGA-AGTATA
1 GTATTGATACC-ATAGTATA
3352480 GTATTGATACCATAGTATA
1 GTATTGATACCATAGTATA
3352499 G
1 G
3352500 AAGTATCGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (19 bp):
GTATTGATACCATAGTATA
Found at i:3352745 original size:160 final size:163
Alignment explanation
Indices: 3352537--3352859 Score: 625
Period size: 160 Copynumber: 2.0 Consensus size: 163
3352527 GATACTATTC
3352537 AAAGTGAAATAGTGAATTAAGTTCTTTGTTTAGGTCAAGTTATTGATGATTGAATTATAGTATTA
1 AAAGTGAAATAGTGAATTAAGTTCTTTGTTTAGGTCAAGTTATTGATGATTGAATTATAGTATTA
3352602 AGAATTCTGATATTTATTTAGATCATATATTTGTGTATATATTGATCG-AAGCAAGATCCGGACG
66 AGAATTCTGATATTTATTTAGATCATATATTTGTGTATATATTGATCGAAAGCAAGATCCGGACG
3352666 ATTC-AAGT-GTAAGACCGATCTAAGGTGATAA
131 ATTCAAAGTGGTAAGACCGATCTAAGGTGATAA
3352697 AAAGTGAAATAGTGAATTAAGTTCTTTGTTTAGGTCAAGTTATTGATGATTGAATTATAGTATTA
1 AAAGTGAAATAGTGAATTAAGTTCTTTGTTTAGGTCAAGTTATTGATGATTGAATTATAGTATTA
3352762 AGAATTCTGATATTTATTTAGATCATATATTTGTGTATATATTGATCGAAAGCAAGATCCGGACG
66 AGAATTCTGATATTTATTTAGATCATATATTTGTGTATATATTGATCGAAAGCAAGATCCGGACG
3352827 ATTCAAAGTGGTAAGACCGATCTAAGGTGATAA
131 ATTCAAAGTGGTAAGACCGATCTAAGGTGATAA
3352860 GTGTTTAGCT
Statistics
Matches: 160, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
160 113 0.71
161 20 0.12
162 4 0.03
163 23 0.14
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (163 bp):
AAAGTGAAATAGTGAATTAAGTTCTTTGTTTAGGTCAAGTTATTGATGATTGAATTATAGTATTA
AGAATTCTGATATTTATTTAGATCATATATTTGTGTATATATTGATCGAAAGCAAGATCCGGACG
ATTCAAAGTGGTAAGACCGATCTAAGGTGATAA
Found at i:3355836 original size:16 final size:17
Alignment explanation
Indices: 3355801--3355838 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
3355791 ATAATTGATA
*
3355801 TTGATTTTTCAAGAACT
1 TTGATTTTGCAAGAACT
*
3355818 TTGATTTTGCAA-AATT
1 TTGATTTTGCAAGAACT
3355834 TTGAT
1 TTGAT
3355839 CTGAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (17 bp):
TTGATTTTGCAAGAACT
Found at i:3358015 original size:20 final size:20
Alignment explanation
Indices: 3357990--3358029 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
3357980 TTTTGGTGTA
3357990 GAGGGAATCGATCCCCCCTT
1 GAGGGAATCGATCCCCCCTT
*
3358010 GAGGGAATCGATTCCCCCTT
1 GAGGGAATCGATCCCCCCTT
3358030 TGAAGGGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.33, G:0.25, T:0.23
Consensus pattern (20 bp):
GAGGGAATCGATCCCCCCTT
Found at i:3358044 original size:23 final size:21
Alignment explanation
Indices: 3357990--3358073 Score: 82
Period size: 21 Copynumber: 4.0 Consensus size: 21
3357980 TTTTGGTGTA
3357990 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAATCGATTCCCCCCTT
*
3358010 GAGGGAATCGATTCCCCCTTT
1 GAGGGAATCGATTCCCCCCTT
* *
3358031 GAAGGGGAACCGATTCCCCCC-A
1 G-A-GGGAATCGATTCCCCCCTT
* *
3358053 CATGGGAATCGATACCCCCCT
1 GA-GGGAATCGATTCCCCCCT
3358074 GGGGTTCTGG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
20 11 0.21
21 25 0.48
22 1 0.02
23 15 0.29
ACGTcount: A:0.23, C:0.35, G:0.24, T:0.19
Consensus pattern (21 bp):
GAGGGAATCGATTCCCCCCTT
Found at i:3361566 original size:21 final size:22
Alignment explanation
Indices: 3361542--3361630 Score: 92
Period size: 21 Copynumber: 4.1 Consensus size: 22
3361532 GGTTCTACGC
*
3361542 GGTCTTTCGGGACA-TCTATGT
1 GGTCATTCGGGACATTCTATGT
*
3361563 GGTCATTCGGGACAATTCTACGT
1 GGTCATTCGGGAC-ATTCTATGT
* *
3361586 GGTCATTCGGGACA-TATATAT
1 GGTCATTCGGGACATTCTATGT
* * *
3361607 AGTCCTTCAGGACATTCTATGT
1 GGTCATTCGGGACATTCTATGT
3361629 GG
1 GG
3361631 CACTTCGATG
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
21 27 0.50
22 8 0.15
23 19 0.35
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (22 bp):
GGTCATTCGGGACATTCTATGT
Found at i:3361587 original size:23 final size:23
Alignment explanation
Indices: 3361534--3361599 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
3361524 GAGTTGAGGG
* *
3361534 TTCTACGCGGTCTTTCGGGAC-A
1 TTCTACGTGGTCATTCGGGACAA
*
3361556 -TCTATGTGGTCATTCGGGACAA
1 TTCTACGTGGTCATTCGGGACAA
3361578 TTCTACGTGGTCATTCGGGACA
1 TTCTACGTGGTCATTCGGGACA
3361600 TATATATAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 17 0.45
22 1 0.03
23 20 0.53
ACGTcount: A:0.18, C:0.23, G:0.27, T:0.32
Consensus pattern (23 bp):
TTCTACGTGGTCATTCGGGACAA
Found at i:3361620 original size:44 final size:43
Alignment explanation
Indices: 3361534--3361630 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 43
3361524 GAGTTGAGGG
* * * * * *
3361534 TTCTACGCGGTCTTTCGGGACATCTATGTGGTCATTCGGGACAA
1 TTCTACGTGGTCATTCGGGACATATATATAGTCATTCAGGAC-A
*
3361578 TTCTACGTGGTCATTCGGGACATATATATAGTCCTTCAGGACA
1 TTCTACGTGGTCATTCGGGACATATATATAGTCATTCAGGACA
*
3361621 TTCTATGTGG
1 TTCTACGTGG
3361631 CACTTCGATG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 10 0.22
44 35 0.78
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (43 bp):
TTCTACGTGGTCATTCGGGACATATATATAGTCATTCAGGACA
Found at i:3362517 original size:21 final size:22
Alignment explanation
Indices: 3362472--3362524 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
3362462 TACTTGGGGC
3362472 AGTATCGATACCACCAAAGAGA
1 AGTATCGATACCACCAAAGAGA
** *
3362494 AGTATCGATACC-TGAAATAGA
1 AGTATCGATACCACCAAAGAGA
3362515 AGTATCGATA
1 AGTATCGATA
3362525 TTGCGTAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 16 0.57
22 12 0.43
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (22 bp):
AGTATCGATACCACCAAAGAGA
Found at i:3364679 original size:60 final size:60
Alignment explanation
Indices: 3364567--3364680 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 60
3364557 ATAATCAAGT
* * ** *
3364567 GATCATTCTGTAACTTCTAATAGTCTAGGGACTCGATAAAGCAATGCCCTATAATTGTGA
1 GATCATTCTGTAACTTCTAATAGTCTAGGAACTCAATAAAGCAACACACTATAATTGTGA
* * *
3364627 GATCATTTTGTAACTTTTAATAGTC-AGTGAACTCAATAGAGCAACACACTATAA
1 GATCATTCTGTAACTTCTAATAGTCTAG-GAACTCAATAAAGCAACACACTATAA
3364681 CCAATAGACC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
59 2 0.04
60 43 0.96
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (60 bp):
GATCATTCTGTAACTTCTAATAGTCTAGGAACTCAATAAAGCAACACACTATAATTGTGA
Found at i:3365046 original size:3 final size:3
Alignment explanation
Indices: 3365038--3365081 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
3365028 TCCAACTTCA
3365038 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
3365082 GTTTAACGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:3371815 original size:130 final size:131
Alignment explanation
Indices: 3371652--3372001 Score: 472
Period size: 130 Copynumber: 2.7 Consensus size: 131
3371642 TACGCAAAAT
** * * *
3371652 ATATCGATACACATATATAAAGTATCGATACTTATAATTTCAAAACCTATTACTTTAAAGTAATA
1 ATATCGATACTTATATATAAAATATTGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATA
* * * * * *
3371717 TGTAAATTAACAATGGACACATTAAACGTTTCTA-CGGTATAATGAAAATAGATGTAAATATCCA
66 GGTAAATTAACAATGTACACAGTAAACATTTCTATCGGTATAATGAAAATAGACGTAAATATACA
3371781 A
131 A
3371782 ATATCGATACTTATATATAAAATATTGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATA
1 ATATCGATACTTATATATAAAATATTGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATA
* * * * *
3371847 GGTAAATTAACAATGTACACGGTAAACATTTCTATTGGTATAATGAAAATAGGCGTAAATGTATA
66 GGTAAATTAACAATGTACACAGTAAACATTTCTATCGGTATAATGAAAATAGACGTAAATATACA
3371912 A
131 A
* * * * *
3371913 GTTTCGATA-TTGTCATAT-AAATATTGATACTTATAATTTTGAAACCTACTACTTTAAAGTAAT
1 ATATCGATACTTAT-ATATAAAATATTGATACTTATAATTTCGAAACCTATTACTTTAAAGTAAT
*
3371976 AGGTAAATTAACAATGTACACGGTAA
65 AGGTAAATTAACAATGTACACAGTAA
3372002 TATGTTGATA
Statistics
Matches: 197, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
130 161 0.82
131 36 0.18
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (131 bp):
ATATCGATACTTATATATAAAATATTGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATA
GGTAAATTAACAATGTACACAGTAAACATTTCTATCGGTATAATGAAAATAGACGTAAATATACA
A
Found at i:3382373 original size:24 final size:24
Alignment explanation
Indices: 3382344--3382419 Score: 143
Period size: 24 Copynumber: 3.2 Consensus size: 24
3382334 TTTATGAAGC
*
3382344 CTTCTGGCTGCCTCATATAGATTT
1 CTTCTGGCTGTCTCATATAGATTT
3382368 CTTCTGGCTGTCTCATATAGATTT
1 CTTCTGGCTGTCTCATATAGATTT
3382392 CTTCTGGCTGTCTCATATAGATTT
1 CTTCTGGCTGTCTCATATAGATTT
3382416 CTTC
1 CTTC
3382420 CTCCAAATCA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.45
Consensus pattern (24 bp):
CTTCTGGCTGTCTCATATAGATTT
Found at i:3386666 original size:9 final size:9
Alignment explanation
Indices: 3386652--3386699 Score: 59
Period size: 9 Copynumber: 5.8 Consensus size: 9
3386642 AGTAAAGTTG
3386652 AAAGTTGGC
1 AAAGTTGGC
3386661 AAAGTT-G-
1 AAAGTTGGC
3386668 AAAGTTGGC
1 AAAGTTGGC
*
3386677 AAAATT-G-
1 AAAGTTGGC
3386684 AAAGTTGGC
1 AAAGTTGGC
3386693 AAAGTTG
1 AAAGTTG
3386700 ACATCTTTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
7 11 0.33
8 4 0.12
9 18 0.55
ACGTcount: A:0.40, C:0.06, G:0.29, T:0.25
Consensus pattern (9 bp):
AAAGTTGGC
Found at i:3386666 original size:16 final size:16
Alignment explanation
Indices: 3386645--3386700 Score: 103
Period size: 16 Copynumber: 3.5 Consensus size: 16
3386635 AAAAATTAGT
3386645 AAAGTTGAAAGTTGGC
1 AAAGTTGAAAGTTGGC
3386661 AAAGTTGAAAGTTGGC
1 AAAGTTGAAAGTTGGC
*
3386677 AAAATTGAAAGTTGGC
1 AAAGTTGAAAGTTGGC
3386693 AAAGTTGA
1 AAAGTTGA
3386701 CATCTTTGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.41, C:0.05, G:0.29, T:0.25
Consensus pattern (16 bp):
AAAGTTGAAAGTTGGC
Found at i:3391432 original size:16 final size:16
Alignment explanation
Indices: 3391410--3391467 Score: 98
Period size: 16 Copynumber: 3.6 Consensus size: 16
3391400 TGAAAAATTA
3391410 GCAAAGTTGAAAGTTG
1 GCAAAGTTGAAAGTTG
*
3391426 ACAAAGTTGAAAGTTG
1 GCAAAGTTGAAAGTTG
*
3391442 GCAAAATTGAAAGTTG
1 GCAAAGTTGAAAGTTG
3391458 GCAAAGTTGA
1 GCAAAGTTGA
3391468 CATCTTTGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.41, C:0.07, G:0.28, T:0.24
Consensus pattern (16 bp):
GCAAAGTTGAAAGTTG
Found at i:3391433 original size:9 final size:8
Alignment explanation
Indices: 3391410--3391466 Score: 57
Period size: 7 Copynumber: 7.1 Consensus size: 8
3391400 TGAAAAATTA
3391410 GCAAAGTT
1 GCAAAGTT
3391418 G-AAAGTT
1 GCAAAGTT
3391425 GACAAAGTT
1 G-CAAAGTT
3391434 G-AAAGTT
1 GCAAAGTT
*
3391441 GGCAAAATT
1 -GCAAAGTT
3391450 G-AAAGTT
1 GCAAAGTT
3391457 GGCAAAGTT
1 -GCAAAGTT
3391466 G
1 G
3391467 ACATCTTTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 18 0.44
8 5 0.12
9 18 0.44
ACGTcount: A:0.40, C:0.07, G:0.28, T:0.25
Consensus pattern (8 bp):
GCAAAGTT
Found at i:3408601 original size:16 final size:16
Alignment explanation
Indices: 3408580--3408628 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
3408570 TCATTTTCTT
3408580 AGTTTGAGAGTTTTAA
1 AGTTTGAGAGTTTTAA
*
3408596 AGTTTGA-ACGTTTAAA
1 AGTTTGAGA-GTTTTAA
3408612 AGTTTGAGA-TTTTAA
1 AGTTTGAGAGTTTTAA
3408627 AG
1 AG
3408629 ATACGAAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 8 0.28
16 20 0.69
17 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.22, T:0.41
Consensus pattern (16 bp):
AGTTTGAGAGTTTTAA
Found at i:3408940 original size:83 final size:82
Alignment explanation
Indices: 3408827--3409138 Score: 325
Period size: 83 Copynumber: 3.8 Consensus size: 82
3408817 GGAACGTGCC
*
3408827 TTCATTTC-GAATGGGATTGAACATTATGACATGTCATAGATTCTCTGAATAATAATAGAAAACA
1 TTCATTTCAG-ATGGGATTGAACATTATGACATGTCAGAGATTCTCTGAATAATAATAGAAAACA
*
3408891 CTTCCCTTGAAACGCGTCT
65 CTTCCCTTG-AATGCGTCT
* * *
3408910 TTCATTTCAGATGGGATTGAACATTATGACATGAT-AGATATTTTCTGAACAATAAT-GTAAAAC
1 TTCATTTCAGATGGGATTGAACATTATGACATG-TCAGAGATTCTCTGAATAATAATAG-AAAAC
* *
3408973 ACTTACCCTAGAATGCGTAT
64 ACTT-CCCTTGAATGCGTCT
* * * * * *
3408993 TTTATTTCAAATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATTA-AAAACG
1 TTCATTTCAGATGGGATTGAACATTATGACATGTCAGAGATTCTCTGAATAATAA-TAGAAAACA
* *
3409057 CTTCCCCTGGAATGC-ACAT
65 CTT-CCCTTGAATGCGTC-T
* * * *
3409076 TTCATTTTAGATGTGA-TGAACATTATG--ATATAAGAGATTCTCTGAATAATAATAGAAAACAC
1 TTCATTTCAGATGGGATTGAACATTATGACATGTCAGAGATTCTCTGAATAATAATAGAAAACAC
3409138 T
66 T
3409139 ATGACATCAC
Statistics
Matches: 190, Mismatches: 30, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
79 2 0.01
80 29 0.15
82 10 0.05
83 141 0.74
84 8 0.04
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.32
Consensus pattern (82 bp):
TTCATTTCAGATGGGATTGAACATTATGACATGTCAGAGATTCTCTGAATAATAATAGAAAACAC
TTCCCTTGAATGCGTCT
Found at i:3409081 original size:166 final size:163
Alignment explanation
Indices: 3408830--3409138 Score: 399
Period size: 166 Copynumber: 1.9 Consensus size: 163
3408820 ACGTGCCTTC
* * * * *
3408830 ATTTCGAATGGGATTGAACATTATGACATGTCATAGATTCTCTGAATAATAATAGAAAACACTTC
1 ATTTCAAATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATAGAAAACACTTC
* * * *
3408895 CCTTGAAACGCGTCTTTCATTTCAGATGGGATTGAACATTATGACATGATAGATATTTTCTGAAC
66 CCCTGAAACGCGACTTTCATTTCAGATGGGA-TGAACATTATGACAT-A-AGAGATTCTCTGAAC
3408960 AATAAT-GTAAAACACTTACCCTAGAATGCGTATTTT
128 AATAATAG-AAAACACTTACCCTAGAATGCGTATTTT
*
3408996 ATTTCAAATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATTA-AAAACGCTT
1 ATTTCAAATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAA-TAGAAAACACTT
* * * * * *
3409060 CCCCTGGAATGC-ACATTTCATTTTAGATGTGATGAACATTATGATATAAGAGATTCTCTGAATA
65 CCCCTGAAACGCGAC-TTTCATTTCAGATGGGATGAACATTATGACATAAGAGATTCTCTGAACA
3409124 ATAATAGAAAACACT
129 ATAATAGAAAACACT
3409139 ATGACATCAC
Statistics
Matches: 124, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
163 26 0.21
164 2 0.02
165 15 0.12
166 79 0.64
167 2 0.02
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (163 bp):
ATTTCAAATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAATAGAAAACACTTC
CCCTGAAACGCGACTTTCATTTCAGATGGGATGAACATTATGACATAAGAGATTCTCTGAACAAT
AATAGAAAACACTTACCCTAGAATGCGTATTTT
Found at i:3413215 original size:16 final size:17
Alignment explanation
Indices: 3413185--3413219 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
3413175 ATAATGAATA
3413185 AAAATAAATACTAAAAT
1 AAAATAAATACTAAAAT
*
3413202 AAAAT-AATATTAAAAT
1 AAAATAAATACTAAAAT
3413218 AA
1 AA
3413220 CTAATTACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATAAATACTAAAAT
Found at i:3414208 original size:21 final size:21
Alignment explanation
Indices: 3414182--3414221 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3414172 TTTAGTGAAC
* *
3414182 TTAACGAATAATGAGTCGAGA
1 TTAACGAACAACGAGTCGAGA
3414203 TTAACGAACAACGAGTCGA
1 TTAACGAACAACGAGTCGA
3414222 ATTGACATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (21 bp):
TTAACGAACAACGAGTCGAGA
Found at i:3420115 original size:14 final size:14
Alignment explanation
Indices: 3420096--3420127 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
3420086 AACCACTAAC
*
3420096 CACTTACAACATAA
1 CACTTAAAACATAA
3420110 CACTTAAAACATAA
1 CACTTAAAACATAA
3420124 CACT
1 CACT
3420128 GATTACATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (14 bp):
CACTTAAAACATAA
Found at i:3430643 original size:6 final size:6
Alignment explanation
Indices: 3430632--3430665 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
3430622 AAAGGTACAT
*
3430632 ACATAC ACATAC ACATAC ACATAT ACATAC ACAT
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACAT
3430666 GTTTTTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (6 bp):
ACATAC
Found at i:3432971 original size:9 final size:9
Alignment explanation
Indices: 3432957--3433000 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
3432947 TCGATAGCTA
3432957 GGACTAGTT
1 GGACTAGTT
3432966 GGACTAGTT
1 GGACTAGTT
* *
3432975 CGA-TAGCTA
1 GGACTAG-TT
3432984 GGACTAGTT
1 GGACTAGTT
3432993 GGACTAGT
1 GGACTAGT
3433001 CCGATCAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 3 0.10
9 23 0.79
10 3 0.10
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.30
Consensus pattern (9 bp):
GGACTAGTT
Found at i:3432985 original size:27 final size:27
Alignment explanation
Indices: 3432947--3433005 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
3432937 TCATAATTGC
3432947 TCGATAGCTAGGACTAGTTGGACTAGT
1 TCGATAGCTAGGACTAGTTGGACTAGT
3432974 TCGATAGCTAGGACTAGTTGGACTAGT
1 TCGATAGCTAGGACTAGTTGGACTAGT
*
3433001 CCGAT
1 TCGAT
3433006 CAAATTGGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (27 bp):
TCGATAGCTAGGACTAGTTGGACTAGT
Found at i:3440116 original size:19 final size:19
Alignment explanation
Indices: 3440088--3440134 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
3440078 TGAAAGTTCA
*
3440088 TCATTTGCTAATTAATTAG
1 TCATTAGCTAATTAATTAG
3440107 TCATTAGCTAATTAATTAG
1 TCATTAGCTAATTAATTAG
3440126 TCATTAGCT
1 TCATTAGCT
3440135 TTGGGTGAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (19 bp):
TCATTAGCTAATTAATTAG
Found at i:3453377 original size:13 final size:13
Alignment explanation
Indices: 3453340--3453380 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
3453330 TTTGGATTGT
*
3453340 TATAATTTTAGTA
1 TATAATTTTATTA
3453353 TATTAATTTTATTA
1 TA-TAATTTTATTA
*
3453367 TATATTTTTATTA
1 TATAATTTTATTA
3453380 T
1 T
3453381 TTAAAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (13 bp):
TATAATTTTATTA
Found at i:3453654 original size:38 final size:38
Alignment explanation
Indices: 3453612--3453687 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
3453602 TTGTAAATAC
3453612 CTTTAATACTTGAGTCATTTTGG-CTCTTATTCATTTTT
1 CTTTAATACTTGAGTCA-TTTGGACTCTTATTCATTTTT
*
3453650 CTTTAATACTTGAGTTATTTGGACTCTTATTCATTTTT
1 CTTTAATACTTGAGTCATTTGGACTCTTATTCATTTTT
3453688 TTAGAATAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 5 0.14
38 31 0.86
ACGTcount: A:0.20, C:0.14, G:0.11, T:0.55
Consensus pattern (38 bp):
CTTTAATACTTGAGTCATTTGGACTCTTATTCATTTTT
Found at i:3456903 original size:19 final size:19
Alignment explanation
Indices: 3456879--3456920 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
3456869 GACAACAAAT
3456879 GTATATATCTTGTATTACA
1 GTATATATCTTGTATTACA
3456898 GTATATATCTTGTATTACA
1 GTATATATCTTGTATTACA
3456917 GTAT
1 GTAT
3456921 GTAAATGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.48
Consensus pattern (19 bp):
GTATATATCTTGTATTACA
Found at i:3457971 original size:31 final size:31
Alignment explanation
Indices: 3457917--3457976 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
3457907 TAACTATTGG
***
3457917 GGGACCATATTGCAAATGGACTAAATGTTGA
1 GGGACCATATTGCAAACAAACTAAATGTTGA
3457948 GGGACCATATTGCAAACAAACTAAATGTT
1 GGGACCATATTGCAAACAAACTAAATGTT
3457977 AAGAGATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (31 bp):
GGGACCATATTGCAAACAAACTAAATGTTGA
Found at i:3458582 original size:40 final size:40
Alignment explanation
Indices: 3458538--3458614 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
3458528 ACCGTAAACA
3458538 TTATTATTTCTACCGATTTTATTATTATTAGACACTTTAG
1 TTATTATTTCTACCGATTTTATTATTATTAGACACTTTAG
* * * *
3458578 TTATTTTTTCTACCGATTTTGTTATTGTTGGACACTT
1 TTATTATTTCTACCGATTTTATTATTATTAGACACTT
3458615 CATCAGAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.22, C:0.13, G:0.10, T:0.55
Consensus pattern (40 bp):
TTATTATTTCTACCGATTTTATTATTATTAGACACTTTAG
Found at i:3458654 original size:21 final size:21
Alignment explanation
Indices: 3458629--3458672 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
3458619 AGAAATTTTA
* * *
3458629 AAAAACATTGATGTTTTAGAT
1 AAAAACAATAATGTTTCAGAT
*
3458650 AAAAATAATAATGTTTCAGAT
1 AAAAACAATAATGTTTCAGAT
3458671 AA
1 AA
3458673 TTTTTTTAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (21 bp):
AAAAACAATAATGTTTCAGAT
Found at i:3459303 original size:31 final size:31
Alignment explanation
Indices: 3459248--3459325 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
3459238 CTTTTAAAAC
** * *
3459248 TTGCAATACAATCCCCCAACATTTAGTCCGT
1 TTGCAATATGATCCCTCAACATTTAATCCGT
* * *
3459279 TTGTAATATGATCCCTCAATATTTAATCTGT
1 TTGCAATATGATCCCTCAACATTTAATCCGT
3459310 TTGCAATATGATCCCT
1 TTGCAATATGATCCCT
3459326 GACGTAACTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.37
Consensus pattern (31 bp):
TTGCAATATGATCCCTCAACATTTAATCCGT
Found at i:3460902 original size:12 final size:12
Alignment explanation
Indices: 3460887--3460921 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
3460877 TATTTATTAT
3460887 ATATTT-ATAAAA
1 ATATTTAAT-AAA
3460899 ATATTTAATAAA
1 ATATTTAATAAA
3460911 ATATTTAATAA
1 ATATTTAATAA
3460922 TATAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 20 0.91
13 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATATTTAATAAA
Found at i:3460971 original size:19 final size:20
Alignment explanation
Indices: 3460949--3460991 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
3460939 CAATATATTT
3460949 AAAAACA-ATAAAATAAATG
1 AAAAACATATAAAATAAATG
*
3460968 -AAAACATATAAAATAACTG
1 AAAAACATATAAAATAAATG
3460987 AAAAA
1 AAAAA
3460992 ATAAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 11 0.52
20 4 0.19
ACGTcount: A:0.72, C:0.07, G:0.05, T:0.16
Consensus pattern (20 bp):
AAAAACATATAAAATAAATG
Found at i:3462325 original size:3 final size:3
Alignment explanation
Indices: 3462317--3462383 Score: 107
Period size: 3 Copynumber: 21.7 Consensus size: 3
3462307 TAATATATTT
*
3462317 TAA TAA TAA TAA TATA TAA TAAA TAA TAA TAA TAA TAA TAA TAC TAA
1 TAA TAA TAA TAA TA-A TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
3462364 TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
3462384 TGGATAAAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
3 54 0.90
4 6 0.10
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3462940 original size:114 final size:112
Alignment explanation
Indices: 3462697--3463137 Score: 713
Period size: 113 Copynumber: 3.9 Consensus size: 112
3462687 TGATAGTATC
* *
3462697 AAAC-AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
** * * *
3462761 TCATTATGAACCTTCTCTGGCAAAAATAATCCATCAAGTGATGAATTC
66 TCATTATGAA-CTTCTCTGGCAATGATGATCCATCAAATGATGAATTT
* *
3462809 AAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
*
3462874 TCATTCATGAACTTCCTCTGGCAATGTTGATCCATCAAATGATGAATTT
66 TCATT-ATGAACTT-CTCTGGCAATGATGATCCATCAAATGATGAATTT
3462923 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
*
3462988 TCATTATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAAC-TTCTCTGGCAATGATGATCCATCAAATGATGAATTT
3463036 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* *
3463101 TCATTATGAACTTATCTGGTAATGAATGATCCATCAA
66 TCATTATGAACTTCTCTGGCAATG-ATGATCCATCAA
3463138 GTGGATTTGA
Statistics
Matches: 311, Mismatches: 13, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
112 15 0.05
113 193 0.62
114 103 0.33
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (112 bp):
AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
TCATTATGAACTTCTCTGGCAATGATGATCCATCAAATGATGAATTT
Found at i:3463100 original size:227 final size:225
Alignment explanation
Indices: 3462697--3463137 Score: 722
Period size: 227 Copynumber: 2.0 Consensus size: 225
3462687 TGATAGTATC
*
3462697 AAACAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 AAACAAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* *
3462762 CATTATGAACCTTCTCTGGCAAAAATAATCCATCAAGTGATGAATTCAAACAAAAGGTTGAACAA
66 CATTATGAACCTTCTCTGGCAAAAATAATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAA
*
3462827 ATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTCATGAACTTCCTC
131 ATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT-ATGAACTT-ATC
*
3462892 TGGCAATG-TTGATCCATCAAATGATGAATTT
194 TGGCAATGAATGATCCATCAAATGATGAATTT
*
3462923 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAAC-AAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* *** * *
3462988 TCATTATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACA
65 TCATTATGAACCTTCTCTGGCAAAAATAATCCATCAAATGATGAATTCAAACAAAAAGTTGAACA
*
3463053 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTATCT
130 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTATCT
*
3463118 GGTAATGAATGATCCATCAA
195 GGCAATGAATGATCCATCAA
3463138 GTGGATTTGA
Statistics
Matches: 199, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
225 9 0.05
226 23 0.12
227 167 0.84
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (225 bp):
AAACAAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
CATTATGAACCTTCTCTGGCAAAAATAATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAA
ATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTATCTG
GCAATGAATGATCCATCAAATGATGAATTT
Found at i:3464202 original size:84 final size:84
Alignment explanation
Indices: 3463880--3464202 Score: 555
Period size: 84 Copynumber: 3.9 Consensus size: 84
3463870 CCTACTGAAT
*
3463880 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCTAAACTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCTAAATTCA
3463944 ATGATT-GTTCTGTCCAAC
66 ATGATTGGTTCTGTCCAAC
*
3463962 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCCAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCTAAATTCA
* *
3464027 ATGATTGATTATGTCCAAC
66 ATGATTGGTTCTGTCCAAC
3464046 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTT-TCAAATTC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCT-AAATTC
*
3464110 AATGATTGGTTCTG-CCAAAT
65 AATGATTGGTTCTGTCC-AAC
3464130 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCTAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCTAAATTCA
3464195 ATGATTGG
66 ATGATTGG
3464203 ACTAAGATAT
Statistics
Matches: 228, Mismatches: 8, Indels: 8
0.93 0.03 0.03
Matches are distributed among these distances:
82 42 0.18
83 28 0.12
84 157 0.69
85 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (84 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAAATTCATCTTCTAAATTCA
ATGATTGGTTCTGTCCAAC
Found at i:3465341 original size:11 final size:10
Alignment explanation
Indices: 3465322--3465399 Score: 52
Period size: 10 Copynumber: 7.4 Consensus size: 10
3465312 CCTTGACCCC
3465322 CTTTCTTTTT
1 CTTTCTTTTT
3465332 CTTCTCTTTTTT
1 CTT-TC-TTTTT
*
3465344 TTTTCTTTTT
1 CTTTCTTTTT
3465354 CATTTTCTATTTT
1 C--TTTCT-TTTT
*
3465367 -TTT-TTCTT
1 CTTTCTTTTT
*
3465375 CTTTTTTTTT
1 CTTTCTTTTT
*
3465385 CTTCTTTTTTT
1 CTT-TCTTTTT
3465396 CTTT
1 CTTT
3465400 TCTCTTCAAG
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
8 3 0.05
9 4 0.07
10 19 0.34
11 14 0.25
12 12 0.21
13 4 0.07
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.81
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:3465359 original size:7 final size:6
Alignment explanation
Indices: 3465323--3465405 Score: 75
Period size: 6 Copynumber: 14.0 Consensus size: 6
3465313 CTTGACCCCC
* *
3465323 TTTCTT TTTC-T TCTCTT TTT-TT TTTCTT TTTCAT TTTCTAT TTT-TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCT-T TTTCTT
* *
3465369 TTTCTT CTTTTTT TTTCTT CTT-TT TTTCTT TTCTCTT
1 TTTCTT -TTTCTT TTTCTT TTTCTT TTTCTT TT-TCTT
3465406 CAAGCATAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 13
0.75 0.10 0.16
Matches are distributed among these distances:
5 17 0.27
6 32 0.52
7 13 0.21
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTCTT
Found at i:3465367 original size:25 final size:22
Alignment explanation
Indices: 3465323--3465400 Score: 70
Period size: 22 Copynumber: 3.4 Consensus size: 22
3465313 CTTGACCCCC
*
3465323 TTTC-TTTTTCTTCTCTTTTTTT
1 TTTCTTTTTTTTTCT-TTTTTTT
3465345 TTTCTTTTTCATTTTCTATTTTTTTT
1 TTTCTTTTT--TTTTC--TTTTTTTT
*
3465371 TCTTCTTTTTTTTTC-TTCTTTT
1 T-TTCTTTTTTTTTCTTTTTTTT
3465393 TTTCTTTT
1 TTTCTTTT
3465401 CTCTTCAAGC
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
21 7 0.15
22 11 0.23
23 4 0.08
25 9 0.19
26 8 0.17
27 9 0.19
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTCTTTTTTTTTCTTTTTTTT
Found at i:3476788 original size:12 final size:12
Alignment explanation
Indices: 3476765--3476790 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3476755 ATATATTATA
3476765 AAAATATTTAAT
1 AAAATATTTAAT
3476777 AAAATATTTAAT
1 AAAATATTTAAT
3476789 AA
1 AA
3476791 TATAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAAATATTTAAT
Found at i:3476838 original size:19 final size:20
Alignment explanation
Indices: 3476816--3476858 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
3476806 AACAATATTT
3476816 AAAAACA-ATAAAATAAATG
1 AAAAACATATAAAATAAATG
*
3476835 -AAAACATATAAAATAACTG
1 AAAAACATATAAAATAAATG
3476854 AAAAA
1 AAAAA
3476859 ATAAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 11 0.52
20 4 0.19
ACGTcount: A:0.72, C:0.07, G:0.05, T:0.16
Consensus pattern (20 bp):
AAAAACATATAAAATAAATG
Found at i:3477704 original size:24 final size:23
Alignment explanation
Indices: 3477655--3477707 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 23
3477645 GTTTGTATTT
*
3477655 TCTCTGTTTTTTTTTTTCTATGTC
1 TCTCTATTTTTTTTTTTCTA-GTC
3477679 TCTCTATTCTTTTTTTTTCT-GATC
1 TCTCTATT-TTTTTTTTTCTAG-TC
3477703 TCTCT
1 TCTCT
3477708 GTCTCGTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 1 0.04
24 14 0.54
25 11 0.42
ACGTcount: A:0.06, C:0.21, G:0.06, T:0.68
Consensus pattern (23 bp):
TCTCTATTTTTTTTTTTCTAGTC
Found at i:3477706 original size:26 final size:24
Alignment explanation
Indices: 3477655--3477707 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
3477645 GTTTGTATTT
* *
3477655 TCTCTGTTTTTTTTTTTCTATGTC
1 TCTCTATTTTTTTTTTTCTATCTC
3477679 TCTCTATTCTTTTTTTTTCTGATCTC
1 TCTCTATT-TTTTTTTTTCT-ATCTC
3477705 TCT
1 TCT
3477708 GTCTCGTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 7 0.28
25 11 0.44
26 7 0.28
ACGTcount: A:0.06, C:0.21, G:0.06, T:0.68
Consensus pattern (24 bp):
TCTCTATTTTTTTTTTTCTATCTC
Found at i:3478189 original size:3 final size:3
Alignment explanation
Indices: 3478181--3478263 Score: 157
Period size: 3 Copynumber: 27.7 Consensus size: 3
3478171 AATATATATT
3478181 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
3478229 TAA TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
3478264 TGGATAAAAA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3482957 original size:29 final size:30
Alignment explanation
Indices: 3482905--3482963 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
3482895 CACTCGTACA
* *
3482905 CTTAATAATTACCTATCAGTCACCCTTTCT
1 CTTAATAATTACCGATCAGTCACCATTTCT
3482935 CTTAAT-ATTACCGATCTAG-CACCATTTCT
1 CTTAATAATTACCGATC-AGTCACCATTTCT
3482964 GACAAAACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.27, C:0.29, G:0.05, T:0.39
Consensus pattern (30 bp):
CTTAATAATTACCGATCAGTCACCATTTCT
Found at i:3486375 original size:9 final size:9
Alignment explanation
Indices: 3486361--3486392 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
3486351 ACCGCTCATA
3486361 GAAAACTGT
1 GAAAACTGT
3486370 GAAAACTGT
1 GAAAACTGT
*
3486379 GAAAACTGC
1 GAAAACTGT
3486388 GAAAA
1 GAAAA
3486393 TACTAACATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.50, C:0.12, G:0.22, T:0.16
Consensus pattern (9 bp):
GAAAACTGT
Found at i:3494475 original size:2 final size:2
Alignment explanation
Indices: 3494468--3494492 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3494458 TAAGTATAAC
3494468 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 A
3494493 GCGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3495583 original size:15 final size:15
Alignment explanation
Indices: 3495565--3495594 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3495555 AGAATAATTG
3495565 AAAATAAAAAATAAA
1 AAAATAAAAAATAAA
*
3495580 AAAATAAAAGATAAA
1 AAAATAAAAAATAAA
3495595 TCATTATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (15 bp):
AAAATAAAAAATAAA
Found at i:3496323 original size:2 final size:2
Alignment explanation
Indices: 3496316--3496350 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3496306 ATAAGACCCT
3496316 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3496351 GGTCTGTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3509121 original size:23 final size:23
Alignment explanation
Indices: 3509052--3509113 Score: 106
Period size: 23 Copynumber: 2.7 Consensus size: 23
3509042 AACATATTAA
3509052 GTAGCGCTTATATAATGTAATAG
1 GTAGCGCTTATATAATGTAATAG
*
3509075 GTAGTGCTTATATAATGTAATAG
1 GTAGCGCTTATATAATGTAATAG
*
3509098 GTAGCACTTATATAAT
1 GTAGCGCTTATATAAT
3509114 AAAATAGGCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.37
Consensus pattern (23 bp):
GTAGCGCTTATATAATGTAATAG
Found at i:3509773 original size:162 final size:162
Alignment explanation
Indices: 3509501--3509833 Score: 524
Period size: 162 Copynumber: 2.1 Consensus size: 162
3509491 TGTTGACCTA
* * *
3509501 TTTTCTCATATTTTTAGCTGTTATATTGTTATCGATCGATACATTTTCATAAAGTGTCGACACTT
1 TTTTGTCATATTTTTACCTGTTATATTGTTATCGATCGATACATTTTCATAAAGTATCGACACTT
* * *
3509566 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCATATAGTGTCGATACTTATATTAAATTATCGA
66 TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATCATCGA
* * * * *
3509631 CACTTTCAATATATCTGGTATCCTTTTACTGG
131 CACTTGCAACATATCCGGTAGCCTTTTACCGG
* *
3509663 TTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTT-TTAAAAGTATCGACACT
1 TTTTGTCATATTTTTACCTGTTATATTGTTATCGATCGATACATTTTCAT-AAAGTATCGACACT
3509727 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATCATCG
65 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATCATCG
*
3509792 ACACTTGCAACATATCCGGTAGCGTTTTACCGG
130 ACACTTGCAACATATCCGGTAGCCTTTTACCGG
3509825 TTTTGTCAT
1 TTTTGTCAT
3509834 TTTGAGATCG
Statistics
Matches: 156, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
161 1 0.01
162 155 0.99
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.44
Consensus pattern (162 bp):
TTTTGTCATATTTTTACCTGTTATATTGTTATCGATCGATACATTTTCATAAAGTATCGACACTT
TTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATCATCGA
CACTTGCAACATATCCGGTAGCCTTTTACCGG
Found at i:3509982 original size:181 final size:182
Alignment explanation
Indices: 3509658--3510056 Score: 651
Period size: 181 Copynumber: 2.2 Consensus size: 182
3509648 GTATCCTTTT
* ** *
3509658 ACTGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATCGA
1 ACTGGTTTTGTCATATTTTTACATGTTATATTGTTATAAATCGATACATTTTATAAAAGTATCGA
* *
3509723 CACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATC
66 CACTTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTATATTAAATC
3509788 ATCGACACTTGCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAG
131 ATCGACACTTGCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAG
*
3509840 A-TCGGTTTTGTCATATTTTTACATGTTATATTGTTATAAATCGATACATTTTCAT-AAAGTGTC
1 ACT-GGTTTTGTCATATTTTTACATGTTATATTGTTATAAATCGATACATTTT-ATAAAAGTATC
*
3509903 GACACTTTTTAAGTGCTAT-ACTTCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTATATTAAA
64 GACACTTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTATATTAAA
* *
3509967 TTATCGACACTTGCAACATATCCGGTATCGTTTTACCGGTTTTGTCATTTTGAG
129 TCATCGACACTTGCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAG
* *
3510021 ACTGGTTTTGTCATATTTTTACTTGTAATATTGTTA
1 ACTGGTTTTGTCATATTTTTACATGTTATATTGTTA
3510057 ATTTACCTAT
Statistics
Matches: 202, Mismatches: 12, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
181 129 0.64
182 72 0.36
183 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.44
Consensus pattern (182 bp):
ACTGGTTTTGTCATATTTTTACATGTTATATTGTTATAAATCGATACATTTTATAAAAGTATCGA
CACTTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGATACTTATATTAAATC
ATCGACACTTGCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAG
Found at i:3513920 original size:199 final size:197
Alignment explanation
Indices: 3513715--3514341 Score: 752
Period size: 200 Copynumber: 3.1 Consensus size: 197
3513705 GTTGGCATTA
* * *** * * * * * *
3513715 ATTATGGACATAAGTATCGACACAAATGTAAAAAGTATCGATACATTATGTAGACCTATTTGCTC
1 ATTATGGACAAAAGTATCGACACTAATGT-ATTTGTGTCGATACTTTATGTACACATGTTTTCTC
*
3513780 ATAAAAATGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATATCTATGTATTT
65 A-AAAACTGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATATCTATGTATTT
* *
3513845 CGATGTTTTTAGTATCGACACTTCTTATAAATGTATCGACACGTTTTAGTGCAATTGGTTTTGAA
129 CGATGTTTTTAGTATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAA
3513910 ATAC
194 ATAC
* ** * * *
3513914 ATTATGGACCAAAAGTATCAACACTTGTTTTATTTTTGTCGATACTTTTTGTACACATGTTTTCT
1 ATTATGGA-CAAAAGTATCGACAC-TAATGTATTTGTGTCGATACTTTATGTACACATGTTTTCT
* * * **
3513979 CAAAAACTGGTATACTTAGACCAGTTACATTGTTAATTTACCTATTACATCATAAT-TATGGGTT
64 CAAAAACTGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTAT-ATCTATGTATT
* * * * * * *
3514043 TCGATGTTTTTGGGATCAACACTTGTTATAAATGTATCGATACTTTTTTGTGCACTTGGTTTTTA
128 TCGATGTTTTTAGTATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGG-TTTTG
3514108 AAATAC
192 AAATAC
*** * ** *
3514114 ACGCTGGACAAAAAGTATTGACACTTGTTGTATTTGTGTCGATACTTTATGTATACATGTTTTCT
1 ATTATGGAC-AAAAGTATCGACAC-TAATGTATTTGTGTCGATACTTTATGTACACATGTTTTCT
* * *
3514179 CAAAAACTAGTATATTTAGGCCGGTTACATTGTTATTTTACCTATTACATTATATCTATGTATTT
64 CAAAAACTGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATATCTATGTATTT
* *
3514244 CGATGTTTTTAGTATCGACACTTCTTATAAATGTATCGACACTTTTTCGTGCACTTGGTTTGGAA
129 CGATGTTTTTAGTATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAA
3514309 ATAC
194 ATAC
* *
3514313 ATTATGGACAACATGTATCGACACGAATG
1 ATTATGGACAA-AAGTATCGACACTAATG
3514342 AATAAAACAA
Statistics
Matches: 356, Mismatches: 65, Indels: 15
0.82 0.15 0.03
Matches are distributed among these distances:
198 4 0.01
199 140 0.39
200 210 0.59
201 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (197 bp):
ATTATGGACAAAAGTATCGACACTAATGTATTTGTGTCGATACTTTATGTACACATGTTTTCTCA
AAAACTGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATATCTATGTATTTCG
ATGTTTTTAGTATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAAT
AC
Found at i:3514209 original size:200 final size:200
Alignment explanation
Indices: 3513752--3514304 Score: 768
Period size: 200 Copynumber: 2.8 Consensus size: 200
3513742 GTAAAAAGTA
* * * * * *
3513752 TCGATACATTATGTAGACCTATTTGCTCATAAAAATGGTATATTTAGACCGGTTACATTGTTAAT
1 TCGATACTTTATGTACACATGTTTTCTCA-AAAACTGGTATATTTAGACCGGTTACATTGTTAAT
3513817 TTACCTATTACATTATATCTATGTATTTCGATGTTTTTAGTATCGACACTTCTTATAAATGTATC
65 TTACCTATTACATTATATCTATGTATTTCGATGTTTTTAGTATCGACACTTCTTATAAATGTATC
* * * ** * *
3513882 GACACGTTTTAGTGCAATTGG-TTTTGAAATACATTATGGACCAAAAGTATCAACACTTGTTTTA
130 GACACTTTTTAGTGCACTTGGTTTTTAAAATACACGATGGACAAAAAGTATCAACACTTGTTGTA
*
3513946 TTTTTG
195 TTTGTG
* * *
3513952 TCGATACTTTTTGTACACATGTTTTCTCAAAAACTGGTATACTTAGACCAGTTACATTGTTAATT
1 TCGATACTTTATGTACACATGTTTTCTCAAAAACTGGTATATTTAGACCGGTTACATTGTTAATT
* ** * * * *
3514017 TACCTATTACATCATAAT-TATGGGTTTCGATGTTTTTGGGATCAACACTTGTTATAAATGTATC
66 TACCTATTACATTAT-ATCTATGTATTTCGATGTTTTTAGTATCGACACTTCTTATAAATGTATC
* * * **
3514081 GATACTTTTTTGTGCACTTGGTTTTTAAAATACACGCTGGACAAAAAGTATTGACACTTGTTGTA
130 GACACTTTTTAGTGCACTTGGTTTTTAAAATACACGATGGACAAAAAGTATCAACACTTGTTGTA
3514146 TTTGTG
195 TTTGTG
* * * *
3514152 TCGATACTTTATGTATACATGTTTTCTCAAAAACTAGTATATTTAGGCCGGTTACATTGTTATTT
1 TCGATACTTTATGTACACATGTTTTCTCAAAAACTGGTATATTTAGACCGGTTACATTGTTAATT
3514217 TACCTATTACATTATATCTATGTATTTCGATGTTTTTAGTATCGACACTTCTTATAAATGTATCG
66 TACCTATTACATTATATCTATGTATTTCGATGTTTTTAGTATCGACACTTCTTATAAATGTATCG
*
3514282 ACACTTTTTCGTGCACTTGGTTT
131 ACACTTTTTAGTGCACTTGGTTT
3514305 GGAAATACAT
Statistics
Matches: 305, Mismatches: 45, Indels: 6
0.86 0.13 0.02
Matches are distributed among these distances:
199 106 0.35
200 199 0.65
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (200 bp):
TCGATACTTTATGTACACATGTTTTCTCAAAAACTGGTATATTTAGACCGGTTACATTGTTAATT
TACCTATTACATTATATCTATGTATTTCGATGTTTTTAGTATCGACACTTCTTATAAATGTATCG
ACACTTTTTAGTGCACTTGGTTTTTAAAATACACGATGGACAAAAAGTATCAACACTTGTTGTAT
TTGTG
Found at i:3515816 original size:12 final size:12
Alignment explanation
Indices: 3515799--3515853 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
3515789 CTTGTTTAGA
3515799 TCATCATCATCG
1 TCATCATCATCG
3515811 TCATCAT--T-G
1 TCATCATCATCG
*
3515820 TCATCATCATCT
1 TCATCATCATCG
*
3515832 TCATCTTCATCG
1 TCATCATCATCG
*
3515844 TCATCTTCAT
1 TCATCATCAT
3515854 TGACCACTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.22
10 1 0.03
11 1 0.03
12 27 0.73
ACGTcount: A:0.22, C:0.31, G:0.05, T:0.42
Consensus pattern (12 bp):
TCATCATCATCG
Found at i:3515835 original size:18 final size:18
Alignment explanation
Indices: 3515802--3515855 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
3515792 GTTTAGATCA
* *
3515802 TCATCATCGTCATCATTG
1 TCATCATCATCTTCATTG
3515820 TCATCATCATCTTCATCT-
1 TCATCATCATCTTCAT-TG
*
3515838 TCATCGTCATCTTCATTG
1 TCATCATCATCTTCATTG
3515856 ACCACTTAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 1 0.03
18 29 0.94
19 1 0.03
ACGTcount: A:0.20, C:0.30, G:0.07, T:0.43
Consensus pattern (18 bp):
TCATCATCATCTTCATTG
Found at i:3517053 original size:15 final size:15
Alignment explanation
Indices: 3517014--3517055 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
3517004 AGGAGGTTCT
*
3517014 GGTTGAGAAGAGTTG
1 GGTTGAGAAGAGGTG
*
3517029 GATT-AGGAAGAGGTG
1 GGTTGA-GAAGAGGTG
3517044 GGTTGAGAAGAG
1 GGTTGAGAAGAG
3517056 CTTTGAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
14 1 0.05
15 20 0.91
16 1 0.05
ACGTcount: A:0.31, C:0.00, G:0.48, T:0.21
Consensus pattern (15 bp):
GGTTGAGAAGAGGTG
Found at i:3517763 original size:199 final size:198
Alignment explanation
Indices: 3517422--3518896 Score: 2326
Period size: 199 Copynumber: 7.4 Consensus size: 198
3517412 TTTTTATACT
* * *
3517422 GGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTTGATGTTCTTGGGATCGACACT
1 GGTTACATTGTTAATTTACCTATTACATCATAATTAT-GGTTTCGATGTTTTTGGGATCGACACT
* * *
3517487 TGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATATATTCTGGACCAAAAGTAT
65 TCTTATATATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTAT
* *
3517552 CGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACTGGTATACTTA
130 CGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATACTTA
*
3517617 TACC
195 GACC
*
3517621 AGTTACATTGTTAATTTACCTATTACATCATAATTATAGGTTTCGATGTTTTTGGGATCGACACT
1 GGTTACATTGTTAATTTACCTATTACATCATAATTAT-GGTTTCGATGTTTTTGGGATCGACACT
*
3517686 TCTTATATATGTATCGATACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTAT
65 TCTTATATATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTAT
* * *
3517751 CGACTCTTGTTTTATTTGTGTTGATACTTTTTGTACACCTATTTTCTCAAAAACCGGTATACTTA
130 CGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATACTTA
*
3517816 GATC
195 GACC
* * * *
3517820 GGTTCCATTATTAATTTACCTATTACATCATAATTATGGGTTTCGATGTTTTTGGGATAGACATT
1 GGTTACATTGTTAATTTACCTATTACATCATAATTAT-GGTTTCGATGTTTTTGGGATCGACACT
**
3517885 TCTTATATATGTATCGACACTTTTTAGTGCACTTAATTTTGAAATACATTCTGGACCAAAAGTAT
65 TCTTATATATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTAT
* *
3517950 CGATACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAAACGGTATACTTA
130 CGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATACTTA
3518015 GACC
195 GACC
* * *
3518019 AGTTACATTGTTAATTTACATATTACATCATAATTATAGGTTTCGATGTTTTTGGGATCGATACT
1 GGTTACATTGTTAATTTACCTATTACATCATAATTAT-GGTTTCGATGTTTTTGGGATCGACACT
* * *
3518084 TATTTTATATATATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTAT
65 TCTTATATATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTAT
* *
3518149 CGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTATTTTTTCAAAAACCGGTATACTTA
130 CGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATACTTA
3518214 GACC
195 GACC
*
3518218 GGTTACATTGTTAATTTACCTATTACATCATAATTATGAGTTTCGATGTTTTTGGGATAGACACT
1 GGTTACATTGTTAATTTACCTATTACATCATAATTATG-GTTTCGATGTTTTTGGGATCGACACT
*
3518283 TGTTATATATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTAT
65 TCTTATATATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTAT
* *
3518348 CGACACTTGTTTTTTTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATACTTG
130 CGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATACTTA
*
3518413 GGCC
195 GACC
* * * *
3518417 GATTAAATTGTTAATTTACCTATTACATCATAATTATGTTTTTCGATGTTTTTGGGATAGACACT
1 GGTTACATTGTTAATTTACCTATTACATCATAATTATG-GTTTCGATGTTTTTGGGATCGACACT
3518482 TCTTATATATGTATCGACACTTTTTAGTGCACTT-GTTTTGAAATACATTCTGGACCAAAAGTAT
65 TCTTATATATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTAT
* * *
3518546 CGACACTTGTTTTATTTGTGTCGATACTTTTTGTACATCTGTTTTCTCAAAAATCGGTATACTTG
130 CGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATACTTA
***
3518611 GGGT
195 GACC
* * *
3518615 GGTTAAATTGTTAATTTACCTATTACATCATAATTATGTTTTTCGATATTTTTGGGATCGACACT
1 GGTTACATTGTTAATTTACCTATTACATCATAATTATG-GTTTCGATGTTTTTGGGATCGACACT
* *
3518680 TATTATAAATGTATCGACA-TTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTAT
65 TCTTATATATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTAT
* * * *
3518744 CGACACTTGTTTTATTTGTGTCGATACGTTTTGTACACCTGTTTTCTCAAAAACTGATATGCTTA
130 CGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATACTTA
3518809 GACC
195 GACC
* **
3518813 GGTTAAATTGTTAATTTACCTATTACATCATAATTATGGGTTT-TTTGTTTTTGGGATCGACACT
1 GGTTACATTGTTAATTTACCTATTACATCATAATTAT-GGTTTCGATGTTTTTGGGATCGACACT
*
3518877 TCTTATAAATGTATCGACAC
65 TCTTATATATGTATCGACAC
3518897 ATAAGTTTAC
Statistics
Matches: 1182, Mismatches: 90, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
197 50 0.04
198 303 0.26
199 829 0.70
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (198 bp):
GGTTACATTGTTAATTTACCTATTACATCATAATTATGGTTTCGATGTTTTTGGGATCGACACTT
CTTATATATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAGTATC
GACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATACTTAG
ACC
Found at i:3519316 original size:19 final size:19
Alignment explanation
Indices: 3519292--3519341 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
3519282 TTACATTCAC
3519292 ATACAAAATTAAAAATCGT
1 ATACAAAATTAAAAATCGT
*
3519311 ATACAAAATTAAAAATCTT
1 ATACAAAATTAAAAATCGT
3519330 ATACAAAATTAA
1 ATACAAAATTAA
3519342 CCCTACATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.28
Consensus pattern (19 bp):
ATACAAAATTAAAAATCGT
Found at i:3521224 original size:18 final size:18
Alignment explanation
Indices: 3521201--3521236 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
3521191 TCCTTCTCCA
3521201 CTGCCTCCTCTACCTCAT
1 CTGCCTCCTCTACCTCAT
*
3521219 CTGCCTCTTCTACCTCAT
1 CTGCCTCCTCTACCTCAT
3521237 TGACAATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.47, G:0.06, T:0.36
Consensus pattern (18 bp):
CTGCCTCCTCTACCTCAT
Found at i:3521495 original size:22 final size:22
Alignment explanation
Indices: 3521467--3521523 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 22
3521457 AACCTGCATT
*
3521467 TATAATAAAAATTATCATTTTA
1 TATAATAAAAACTATCATTTTA
*
3521489 TATAATAACTATACTATCATTTTA
1 TATAATAA--AAACTATCATTTTA
3521513 TATAA-AAAAAC
1 TATAATAAAAAC
3521524 AAAAACATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 3 0.10
22 8 0.27
23 2 0.07
24 17 0.57
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
TATAATAAAAACTATCATTTTA
Found at i:3522807 original size:19 final size:19
Alignment explanation
Indices: 3522779--3522846 Score: 91
Period size: 19 Copynumber: 3.6 Consensus size: 19
3522769 CATTTATACA
*
3522779 ACCTAAAATATCATTTTCT
1 ACCTATAATATCATTTTCT
* *
3522798 GCCTATAATATCATTTTTT
1 ACCTATAATATCATTTTCT
*
3522817 ACCTATAATATCATTTTTT
1 ACCTATAATATCATTTTCT
*
3522836 ACATATAATAT
1 ACCTATAATAT
3522847 TAAATAAAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.35, C:0.16, G:0.01, T:0.47
Consensus pattern (19 bp):
ACCTATAATATCATTTTCT
Found at i:3523806 original size:182 final size:181
Alignment explanation
Indices: 3523234--3525844 Score: 3595
Period size: 182 Copynumber: 14.3 Consensus size: 181
3523224 TACACGTACT
* * * * * * *
3523234 TATTAAATTGTCGATACTTTCAATATATCCGGTATCGTTTTACCGGTTTTGTCAATTTTAGACTT
1 TATTAAATTATCGACACTTTCAACATATCCGGTAGC-CTTTACCGGTTTTGTCATTTTTAGACCT
* * * * * *
3523299 GTATTGTCCTTTTTTTACCTGTTATATTATTATAGATCGATACATTTTTTTAAAGTATCAACATT
65 GTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACT
* *
3523364 TTATAGGCGCTATAACTTATTCTCTTTTAAATTTCAAAAGTGTCGATACTTA
130 TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * * *
3523416 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTATCGGTTTTATCATTTTTAGACCA
1 TATTAAATTATCGACACTTTCAACATATCCGGTAGC-CTTTACCGGTTTTGTCATTTTTAGACCT
** * * ** *
3523481 GTTTTGTTTTATTTTTAGCTGTTATATTGTTATCGATCGATACATTTTCATAAAGTGT-GACACG
65 GTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACAC-
*
3523545 TTT-TAGGCGCTATAACTTCTTCTCTTTTAAATT-CATAAAGTGTCGAAACTTA
129 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTA
* ** * * *
3523597 TATTAAATTATCGACACTTTCAATATATCCGAAATCCTTTTACCGGTTTTGTCATTTTGAGACCG
1 TATTAAATTATCGACACTTTCAACATATCCGGTAGCC-TTTACCGGTTTTGTCATTTTTAGACCT
* *
3523662 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACG
65 GTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACAC-
*
3523727 TTT-TAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAATTGTCGATACTTA
129 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTA
* * *
3523779 TATTAAATTATCGATACTTTCAATATATCCGGTATTG-TTTTACCGGTTTTGTCATTTTTTAGAC
1 TATTAAATTATCGACACTTTCAACATATCCGGTA--GCCTTTACCGGTTTTGTCA-TTTTTAGAC
* * *
3523843 CTGTTTTATCCTATTTTTACATGTTATATTGTTATGGATCGATACATTTTTTTAAAATATCGACA
63 CTGTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACA
*
3523908 CTTTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
128 CTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * * *
3523962 TATTAAAGTATCGACACTTTCAACATATTCAGTAGCGTTTTACCGGTTTTGTCATTTTTAGACC-
1 TATTAAATTATCGACACTTTCAACATATCCGGTAGC-CTTTACCGGTTTTGTCATTTTTAGACCT
** *
3524026 GTTTTTGTTTTATTTTTACCTGTTATATT-TCTATGGATCGATACATTTTTTTAAAGCATCGACA
65 G-TTTTGTCCTATTTTTACCTGTTATATTGT-TATGGATCGATACATTTTTTTAAAGTATCGACA
* * *
3524090 CTTTGTAGGCGTTATAACTTCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTA
128 CTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * *
3524144 TATTAAATTATCGACACTTTCAACATATTCGGTAGTACTTTACCCGTTTTGTCATTTTTAGACCT
1 TATTAAATTATCGACACTTTCAACATATCCGGTAG-CCTTTACCGGTTTTGTCATTTTTAGACCT
* * * *
3524209 GTTTTGTCATATTTTTACATGTTATATTATTATGGATCGATACATTTTTTTAAAGTGTCGACACG
65 GTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACAC-
*
3524274 TTT-TAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAACTGTCGATACTTA
129 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTA
* * *
3524326 TATTAAATTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTGTCATTTTTAGACCT
1 TATTAAATTATCGACACTTTCAACATATCCGGTAGC-CTTTACCGGTTTTGTCATTTTTAGACCT
3524391 GTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTTAAAGTATCGACAC
65 GTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACA-TTTTTTTAAAGTATCGACAC
*
3524456 TTTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
129 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * *
3524509 TATTAAAGTATCGACACTTTCAACATATCTGGTAGCGCTTTACCGGTTTTGTCATTTTTAGACCG
1 TATTAAATTATCGACACTTTCAACATATCCGGTAGC-CTTTACCGGTTTTGTCATTTTTAGACCT
** * *
3524574 GTTTTGTTTTATTTTTACCTGTTATATT-TCTATGGATCGATACATTTTTTTTAGAGTATTGACA
65 GTTTTGTCCTATTTTTACCTGTTATATTGT-TATGGATCGATACA-TTTTTTTAAAGTATCGACA
* *
3524638 CTTTGTAGACGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
128 CTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * *** * *
3524692 TATTAAATTATCGATACTTTCAATATATCCGGTAGCACTTTACTTATTTTGTCTTTTTTAGACTT
1 TATTAAATTATCGACACTTTCAACATATCCGGTAGC-CTTTACCGGTTTTGTCATTTTTAGACCT
* * *
3524757 GTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACG
65 GTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACAC-
*
3524822 TTT-TAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAACTGTCGATACTTA
129 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTA
* * *
3524874 TATTAAATTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTGTCATTTTTAGACCT
1 TATTAAATTATCGACACTTTCAACATATCCGGTAGC-CTTTACCGGTTTTGTCATTTTTAGACCT
* * * *
3524939 GTTTTGCCCTAGTTTTACCTGTTATATTGTTATGAATCGATTCATTTTTTTAAAGTATCGACACT
65 GTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACT
* *
3525004 TTATAGACGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
130 TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * *
3525056 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGATTTTGTCATTTTTAGACCG
1 TATTAAATTATCGACACTTTCAACATATCCGGTAGC-CTTTACCGGTTTTGTCATTTTTAGACCT
* *
3525121 GTTTTG-CTTTACTTTTACCTGTTATATT-TCTATGGATCGATACATTTTTTTAAAGTATCGACA
65 GTTTTGTC-CTATTTTTACCTGTTATATTGT-TATGGATCGATACATTTTTTTAAAGTATCGACA
* * *
3525184 TTTTGTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTTGATACTTA
128 CTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* *
3525238 TATTAAATTATCGACACTTTCAACATATCCGGTAGGGCTTTACCTGTTTTGTCATTTTTTAGACC
1 TATTAAATTATCGACACTTTCAACATATCCGGTA-GCCTTTACCGGTTTTGTCA-TTTTTAGACC
* * *
3525303 TGTTTTGTCATATTTTTTCCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACAC
64 TGTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACAC
*
3525368 GTTT-TAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAACTGTCGATACTTA
129 -TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTA
* * * * *
3525421 TATTAAATTATCGACACTTTCAATATATCCGATATCGTTTTACCGGTTTTGTCATTTTTAGACAT
1 TATTAAATTATCGACACTTTCAACATATCCGGTAGC-CTTTACCGGTTTTGTCATTTTTAGACCT
* *
3525486 GTTTTGTCCTATTTTTACCTGTTATATTATTATGGATAGATACATTTTTTTAAAGTATCGACACT
65 GTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACT
* * *
3525551 TTATAGGCGCTATAAATTATTCTCTTTTAAATT-CAGAAATTGTCGATACTTA
130 TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTA
* *
3525603 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTTAGACCG
1 TATTAAATTATCGACACTTTCAACATATCCGGTAGC-CTTTACCGGTTTTGTCATTTTTAGACCT
** *
3525668 GTTTTGTTTTATTTTTACCTGTTATATT-TCTATGGATCGATACATTTTATTAAAGTATCGACAC
65 GTTTTGTCCTATTTTTACCTGTTATATTGT-TATGGATCGATACATTTTTTTAAAGTATCGACAC
* *
3525732 TTTGTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTTGATACTTA
129 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * *
3525785 TATTAAATTATCGACACTTCCAACATATCCGGTAACACTTTACCTGTTTTGTCATATTTT
1 TATTAAATTATCGACACTTTCAACATATCCGGTAGC-CTTTACCGGTTTTGTCAT-TTTT
3525845 TTCCTGTTAT
Statistics
Matches: 2177, Mismatches: 211, Indels: 81
0.88 0.09 0.03
Matches are distributed among these distances:
180 3 0.00
181 169 0.08
182 1340 0.62
183 655 0.30
184 10 0.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (181 bp):
TATTAAATTATCGACACTTTCAACATATCCGGTAGCCTTTACCGGTTTTGTCATTTTTAGACCTG
TTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACTT
TATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
Found at i:3524322 original size:547 final size:546
Alignment explanation
Indices: 3523234--3527498 Score: 6958
Period size: 547 Copynumber: 7.9 Consensus size: 546
3523224 TACACGTACT
* * * *
3523234 TATTAAATTGTCGATACTTTCAATATATCCGGTATCGTTTTACCGGTTTTGTCAATTTTAGACTT
1 TATTAAATTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTGTCATTTTTAGACCT
* * * * * *
3523299 GTATTGTCCTTTTTTTACCTGTTATATTATTATAGATCGATACATTTTTTTAAAGTATCAACATT
66 GTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACT
*
3523364 TTATAGGCGCTATAACTTATTCTCTTTTAAATTTCAAAAGTGTCGATACTTATATTAAAGTATCG
131 TTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCG
* * *
3523429 ACACTTTCAACATATCCGGTAGCGCTTTATCGGTTTTATCATTTTTAGACCAGTTTTGTTTTATT
196 ACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTTAGACCGGTTTTGTTTTATT
* * ** *
3523494 TTTAGCTGTTATATTGT-TATCGATCGATACATTTTCATAAAGTGT-GACACGTTT-TAGGCGCT
261 TTTACCTGTTATATT-TCTATGGATCGATACATTTTTTTAAAGTATCGACAC-TTTGTAGGCGCT
*
3523556 ATAACTTCTTCTCTTTTAAATT-CATAAAGTGTCGAAACTTATATTAAATTATCGACACTTTCAA
324 ATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTATATTAAATTATCGACACTTTCAA
* ** * * * *
3523620 TATATCCGAAATC-CTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTACCTGT
388 CATATCCGGTAGCGC-TTTACCTGTTTTGTCATTTTTAGACCTGTTTTGTCATATTTTTACCTGT
3523684 TATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACGTTTTAGGCGCTATAACTTCTTC
452 TATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACGTTTTAGGCGCTATAACTTCTTC
*
3523749 TCTTTTAAATTCAGAAATTGTCGATACTTA
517 TCTTTTAAATTCAGAAACTGTCGATACTTA
* *
3523779 TATTAAATTATCGATACTTTCAATATATCCGGTATTGTTTTACCGGTTTTGTCATTTTTTAGACC
1 TATTAAATTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTGTCA-TTTTTAGACC
* * *
3523844 TGTTTTATCCTATTTTTACATGTTATATTGTTATGGATCGATACATTTTTTTAAAATATCGACAC
65 TGTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACAC
3523909 TTTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATC
130 TTTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATC
* * * *
3523974 GACACTTTCAACATATTCAGTAGCGTTTTACCGGTTTTGTCATTTTTAGACCGTTTTTGTTTTAT
195 GACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTTAGACCGGTTTTGTTTTAT
* *
3524039 TTTTACCTGTTATATTTCTATGGATCGATACATTTTTTTAAAGCATCGACACTTTGTAGGCGTTA
260 TTTTACCTGTTATATTTCTATGGATCGATACATTTTTTTAAAGTATCGACACTTTGTAGGCGCTA
*
3524104 TAACTTCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACA
325 TAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACA
* ** * *
3524169 TATTCGGTAGTACTTTACCCGTTTTGTCATTTTTAGACCTGTTTTGTCATATTTTTACATGTTAT
390 TATCCGGTAGCGCTTTACCTGTTTTGTCATTTTTAGACCTGTTTTGTCATATTTTTACCTGTTAT
*
3524234 ATTATTATGGATCGATACATTTTTTTAAAGTGTCGACACGTTTTAGGCGCTATAACTTCTTCTCT
455 ATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACGTTTTAGGCGCTATAACTTCTTCTCT
3524299 TTTAAATTCAGAAACTGTCGATACTTA
520 TTTAAATTCAGAAACTGTCGATACTTA
3524326 TATTAAATTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTGTCATTTTTAGACCT
1 TATTAAATTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTGTCATTTTTAGACCT
3524391 GTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTTAAAGTATCGACAC
66 GTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACA-TTTTTTTAAAGTATCGACAC
3524456 TTTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATC
130 TTTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATC
*
3524521 GACACTTTCAACATATCTGGTAGCGCTTTACCGGTTTTGTCATTTTTAGACCGGTTTTGTTTTAT
195 GACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTTAGACCGGTTTTGTTTTAT
* * *
3524586 TTTTACCTGTTATATTTCTATGGATCGATACATTTTTTTTAGAGTATTGACACTTTGTAGACGCT
260 TTTTACCTGTTATATTTCTATGGATCGATACA-TTTTTTTAAAGTATCGACACTTTGTAGGCGCT
* *
3524651 ATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCGATACTTTCAAT
324 ATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAAC
* * * * * *
3524716 ATATCCGGTAGCACTTTACTTATTTTGTCTTTTTTAGACTTGTTTTGTCATATTTTTACATGTTA
389 ATATCCGGTAGCGCTTTACCTGTTTTGTCATTTTTAGACCTGTTTTGTCATATTTTTACCTGTTA
3524781 TATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACGTTTTAGGCGCTATAACTTCTTCTC
454 TATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACGTTTTAGGCGCTATAACTTCTTCTC
3524846 TTTTAAATTCAGAAACTGTCGATACTTA
519 TTTTAAATTCAGAAACTGTCGATACTTA
3524874 TATTAAATTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTGTCATTTTTAGACCT
1 TATTAAATTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTGTCATTTTTAGACCT
* * * *
3524939 GTTTTGCCCTAGTTTTACCTGTTATATTGTTATGAATCGATTCATTTTTTTAAAGTATCGACACT
66 GTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACT
*
3525004 TTATAGACGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCG
131 TTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCG
* * *
3525069 ACACTTTCAACATATCCGGTAGCGCTTTACCGATTTTGTCATTTTTAGACCGGTTTTGCTTTACT
196 ACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTTAGACCGGTTTTGTTTTATT
*
3525134 TTTACCTGTTATATTTCTATGGATCGATACATTTTTTTAAAGTATCGACATTTTGTAGGCGCTAT
261 TTTACCTGTTATATTTCTATGGATCGATACATTTTTTTAAAGTATCGACACTTTGTAGGCGCTAT
*
3525199 AACTTCTTCTCTTTTAAATTCCAAAAGTGTTGATACTTATATTAAATTATCGACACTTTCAACAT
326 AACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACAT
* *
3525264 ATCCGGTAGGGCTTTACCTGTTTTGTCATTTTTTAGACCTGTTTTGTCATATTTTTTCCTGTTAT
391 ATCCGGTAGCGCTTTACCTGTTTTGTCA-TTTTTAGACCTGTTTTGTCATATTTTTACCTGTTAT
3525329 ATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACGTTTTAGGCGCTATAACTTCTTCTCT
455 ATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACGTTTTAGGCGCTATAACTTCTTCTCT
3525394 TTTAAATTCAGAAACTGTCGATACTTA
520 TTTAAATTCAGAAACTGTCGATACTTA
* *
3525421 TATTAAATTATCGACACTTTCAATATATCCGATATCGTTTTACCGGTTTTGTCATTTTTAGACAT
1 TATTAAATTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTGTCATTTTTAGACCT
* *
3525486 GTTTTGTCCTATTTTTACCTGTTATATTATTATGGATAGATACATTTTTTTAAAGTATCGACACT
66 GTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACT
* *
3525551 TTATAGGCGCTATAAATTATTCTCTTTTAAATT-CAGAAATTGTCGATACTTATATTAAAGTATC
131 TTATAGGCGCTATAACTTATTCTCTTTTAAATTCCA-AAAGTGTCGATACTTATATTAAAGTATC
3525615 GACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTTAGACCGGTTTTGTTTTAT
195 GACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTTAGACCGGTTTTGTTTTAT
*
3525680 TTTTACCTGTTATATTTCTATGGATCGATACATTTTATTAAAGTATCGACACTTTGTAGGCGCTA
260 TTTTACCTGTTATATTTCTATGGATCGATACATTTTTTTAAAGTATCGACACTTTGTAGGCGCTA
* *
3525745 TAACTTCTTCTCTTTTAAATTCCAAAAGTGTTGATACTTATATTAAATTATCGACACTTCCAACA
325 TAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACA
* *
3525810 TATCCGGTA-------A----------CA-CTTT--ACCTGTTTTGTCATATTTTTTCCTGTTAT
390 TATCCGGTAGCGCTTTACCTGTTTTGTCATTTTTAGACCTGTTTTGTCATATTTTTACCTGTTAT
*
3525855 ATTGTTATGGATCGATACA-TTTTTTAAAGTGTCGACACGTTTTAGGAGCTATAACTTCTTCTCT
455 ATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACGTTTTAGGCGCTATAACTTCTTCTCT
*
3525919 TTTAAATTCAGAAACTGACGATACTTA
520 TTTAAATTCAGAAACTGTCGATACTTA
* *
3525946 TATTAAATTATCGACACTTTCAATATATCCGATATCGTTTTACCGGTTTTGTCATTTTTAGACAT
1 TATTAAATTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTGTCATTTTTAGACCT
*
3526011 GTTTTGTCCTATTTTTACCTGTTATATTGTAATGGATCGATACATTTTTTTAAAAGTATCGACAC
66 GTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTT-AAAGTATCGACAC
* * *
3526076 TTTATATGCGCTATAAATTATTCTCTTTTAAATT-CAGAAATTGTCGATACTTATATTAAAGTAT
130 TTTATAGGCGCTATAACTTATTCTCTTTTAAATTCCA-AAAGTGTCGATACTTATATTAAAGTAT
3526140 CGACACTTTCAACATATCCGGTA--G------C------G-C---TTT--ACCGGTTTTGTTTTA
194 CGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTTAGACCGGTTTTGTTTTA
*
3526185 TTTTTACCTGTTATATTTCTATGGATCGATACATTTTATTAAAGTATCGACACTTTGTAGGCGCT
259 TTTTTACCTGTTATATTTCTATGGATCGATACATTTTTTTAAAGTATCGACACTTTGTAGGCGCT
*
3526250 ATAACTTCTTCTCTTTTAAATTGCAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAAC
324 ATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAAC
3526315 ATATCCGGTAGCGCTTTACCTGTTTTGTCATTTTTAGACCTGTTTTGTCATATTTTTACCTGTTA
389 ATATCCGGTAGCGCTTTACCTGTTTTGTCATTTTTAGACCTGTTTTGTCATATTTTTACCTGTTA
* *
3526380 TATTGTTATGAATCGATA-ATTTTTTTTTAAAGTGTCGACACGTTTTAGGCGCTATAGCTTCTTC
454 TATTGTTATGGATCGATACA--TTTTTTTAAAGTGTCGACACGTTTTAGGCGCTATAACTTCTTC
3526444 TCTTTTAAATTCAGAAACTGTCGATACTTA
517 TCTTTTAAATTCAGAAACTGTCGATACTTA
**
3526474 TATTAAATTATCGACACTTTCAATATATCCGGTATCGTTTTATTGGTTTTGTCATTTTTAGACCT
1 TATTAAATTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTGTCATTTTTAGACCT
3526539 GTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACA-TTTTTTAAAGTATCGACACT
66 GTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACT
* * *
3526603 TTATAGGCGCTACAACTTATTCTCTTTTAAATTCCAAAAGTTTCGATACTTATATAAAAGTATCG
131 TTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCG
* * *
3526668 ACACTTTCAACATATCCGGTAGCGCTTTACCGATTTTGTTATTTTTATACCGGTTTTGTTTTATT
196 ACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTTAGACCGGTTTTGTTTTATT
* *
3526733 TTTACCTGTTATATTTCTATGGTTCGATACATTTTTTTAAAGTATCGACACTTTGTAGGCGATAT
261 TTTACCTGTTATATTTCTATGGATCGATACATTTTTTTAAAGTATCGACACTTTGTAGGCGCTAT
*
3526798 AACTTCTTCTCTTTTAAATTCCAAAAGTGTCAATACTTATATTAAATTATCGACACTTTCAACAT
326 AACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACAT
* *
3526863 ATTCGGTAGCGCTTTACCTGTTTTGTCATTTTTTAGACCTGTTTTATCATATTTTTACCTGTTAT
391 ATCCGGTAGCGCTTTACCTGTTTTGTCA-TTTTTAGACCTGTTTTGTCATATTTTTACCTGTTAT
*
3526928 ATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACGTTTTAGGCGCTATAACTTCTTATCT
455 ATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACGTTTTAGGCGCTATAACTTCTTCTCT
* *
3526993 TTTAAATTAAGAAACTATCGATACTTA
520 TTTAAATTCAGAAACTGTCGATACTTA
3527020 TATTAAATTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTGTCATTTTTTAGACC
1 TATTAAATTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTGTCA-TTTTTAGACC
* *
3527085 TGTTTCGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATCGACAC
65 TGTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACAC
*
3527150 TTTATAGGCGCTATAACTTATTCTCTTTTAAATTTCAAAAGTGTCGATACTTATATTAAAGTATC
130 TTTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATC
*
3527215 GACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTTAGACCGATTTTGTTTTAT
195 GACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTTAGACCGGTTTTGTTTTAT
*
3527280 TTTTACCTGTTATATTTCTATGGATCGATACA-TTTTTTAAAGTATCGACACTTTGTAGCCGCTA
260 TTTTACCTGTTATATTTCTATGGATCGATACATTTTTTTAAAGTATCGACACTTTGTAGGCGCTA
3527344 TAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACA
325 TAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACA
* * * *
3527409 TATCCGGTAGCGCTTTACATGTTTTGTCATTTTTTAGACATGTTTTGTTATATTTTTACCTATTA
390 TATCCGGTAGCGCTTTACCTGTTTTGTCA-TTTTTAGACCTGTTTTGTCATATTTTTACCTGTTA
*
3527474 TATTGTTATGGATTGATACATTTTT
454 TATTGTTATGGATCGATACATTTTT
3527499 CATTTGTATC
Statistics
Matches: 3489, Mismatches: 172, Indels: 116
0.92 0.05 0.03
Matches are distributed among these distances:
506 152 0.04
508 3 0.00
511 1 0.00
512 1 0.00
513 1 0.00
518 1 0.00
523 2 0.00
524 4 0.00
525 184 0.05
526 282 0.08
527 8 0.00
528 177 0.05
530 2 0.00
534 1 0.00
540 2 0.00
544 3 0.00
545 53 0.02
546 687 0.20
547 1406 0.40
548 519 0.15
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (546 bp):
TATTAAATTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTGTCATTTTTAGACCT
GTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACT
TTATAGGCGCTATAACTTATTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATCG
ACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTTAGACCGGTTTTGTTTTATT
TTTACCTGTTATATTTCTATGGATCGATACATTTTTTTAAAGTATCGACACTTTGTAGGCGCTAT
AACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACAT
ATCCGGTAGCGCTTTACCTGTTTTGTCATTTTTAGACCTGTTTTGTCATATTTTTACCTGTTATA
TTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACGTTTTAGGCGCTATAACTTCTTCTCTT
TTAAATTCAGAAACTGTCGATACTTA
Found at i:3524410 original size:20 final size:18
Alignment explanation
Indices: 3524363--3524413 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 18
3524353 TCCGGTATCG
*
3524363 TTTTACCGGTTTTGTCAT
1 TTTTACCTGTTTTGTCAT
3524381 TTTTAGACCTGTTTTGTCCTAT
1 TTTT--ACCTGTTTTGT-C-AT
3524403 TTTTACCTGTT
1 TTTTACCTGTT
3524414 ATATTGTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 4 0.14
20 17 0.61
21 1 0.04
22 6 0.21
ACGTcount: A:0.12, C:0.18, G:0.14, T:0.57
Consensus pattern (18 bp):
TTTTACCTGTTTTGTCAT
Found at i:3525303 original size:21 final size:22
Alignment explanation
Indices: 3525279--3525319 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
3525269 GTAGGGCTTT
3525279 ACCTGTTTTGTCAT-TTTTTAG
1 ACCTGTTTTGTCATATTTTTAG
3525300 ACCTGTTTTGTCATATTTTT
1 ACCTGTTTTGTCATATTTTT
3525320 TCCTGTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.15, C:0.15, G:0.12, T:0.59
Consensus pattern (22 bp):
ACCTGTTTTGTCATATTTTTAG
Found at i:3526135 original size:183 final size:181
Alignment explanation
Indices: 3525829--3526180 Score: 535
Period size: 183 Copynumber: 1.9 Consensus size: 181
3525819 ACACTTTACC
* * *
3525829 TGTTTTGTCATATTTTTTCCTGTTATATTGTTATGGATCGATACATTTTTTAAAGTGTCGACACG
1 TGTTTTGTCATATTTTTACCTGTTATATTGTAATGGATCGATACATTTTTTAAAGTATCGACACG
* * *
3525894 TTTTAGGAGCTATAACTTCTTCTCTTTTAAATTCAGAAACTGACGATACTTATATTAAATTATCG
66 TTTTAGGAGCTATAAATTATTCTCTTTTAAATTCAGAAACTGACGATACTTATATTAAAGTATCG
* * *
3525959 ACACTTTCAATATATCCGATATCGTTTTACCGGTTTTGTCATTTTTAGACA
131 ACACTTTCAACATATCCGATAGCGCTTTACCGGTTTTGTCATTTTTAGACA
*
3526010 TGTTTTGTCCTATTTTTACCTGTTATATTGTAATGGATCGATACATTTTTTTAAAAGTATCGACA
1 TGTTTTGTCATATTTTTACCTGTTATATTGTAATGGATCGATACA-TTTTTT-AAAGTATCGACA
* * * *
3526075 C-TTTATATGCGCTATAAATTATTCTCTTTTAAATTCAGAAATTGTCGATACTTATATTAAAGTA
64 CGTTT-TAGGAGCTATAAATTATTCTCTTTTAAATTCAGAAACTGACGATACTTATATTAAAGTA
*
3526139 TCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGT
128 TCGACACTTTCAACATATCCGATAGCGCTTTACCGGTTTTGT
3526181 TTTATTTTTA
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
181 42 0.27
182 9 0.06
183 102 0.67
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (181 bp):
TGTTTTGTCATATTTTTACCTGTTATATTGTAATGGATCGATACATTTTTTAAAGTATCGACACG
TTTTAGGAGCTATAAATTATTCTCTTTTAAATTCAGAAACTGACGATACTTATATTAAAGTATCG
ACACTTTCAACATATCCGATAGCGCTTTACCGGTTTTGTCATTTTTAGACA
Found at i:3526357 original size:20 final size:21
Alignment explanation
Indices: 3526332--3526378 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
3526322 GTAGCGCTTT
3526332 ACCTGTTTTGTCAT-TTTTAG
1 ACCTGTTTTGTCATATTTTAG
*
3526352 ACCTGTTTTGTCATATTTT-T
1 ACCTGTTTTGTCATATTTTAG
3526372 ACCTGTT
1 ACCTGTT
3526379 ATATTGTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.15, C:0.17, G:0.13, T:0.55
Consensus pattern (21 bp):
ACCTGTTTTGTCATATTTTAG
Found at i:3526481 original size:183 final size:182
Alignment explanation
Indices: 3526174--3527498 Score: 1938
Period size: 183 Copynumber: 7.3 Consensus size: 182
3526164 CGCTTTACCG
** *
3526174 GTTTTGTTTTATTTTTACCTGTTATATT-TCTATGGATCGATACATTTTATTAAAGTATCGACAC
1 GTTTTGTCATATTTTTACCTGTTATATTGT-TATGGATCGATACATTTTTTTAAAGTATCGACAC
*
3526238 TTTGTAGGCGCTATAACTTCTTCTCTTTTAAATTGCAAAAGTGTCGATACTTATATTAAATTATC
65 TTTGTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATC
3526303 GACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTTTAGACCT
130 GACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTTTAGACCT
* *
3526356 GTTTTGTCATATTTTTACCTGTTATATTGTTATGAATCGATA-ATTTTTTTTTAAAGTGTCGACA
1 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACA--TTTTTTTAAAGTATCGACA
* *
3526420 CGTTT-TAGGCGCTATAGCTTCTTCTCTTTTAAATT-CAGAAACTGTCGATACTTATATTAAATT
64 C-TTTGTAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTATATTAAATT
* * * *
3526483 ATCGACACTTTCAATATATCCGGTATCGTTTTA-TTGGTTTTGTCATTTTTAGACCT
127 ATCGACACTTTCAACATATCCGGTAGCGCTTTACCT-GTTTTGTCATTTTTAGACCT
*
3526539 GTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACA-TTTTTTAAAGTATCGACACT
1 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACT
* * * * * *
3526603 TTATAGGCGCTACAACTTATTCTCTTTTAAATTCCAAAAGTTTCGATACTTATATAAAAGTATCG
66 TTGTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCG
* * *
3526668 ACACTTTCAACATATCCGGTAGCGCTTTACC-GATTTTGTTATTTTTATACCG
131 ACACTTTCAACATATCCGGTAGCGCTTTACCTG-TTTTGTCATTTTTAGACCT
** *
3526720 GTTTTGTTTTATTTTTACCTGTTATATT-TCTATGGTTCGATACATTTTTTTAAAGTATCGACAC
1 GTTTTGTCATATTTTTACCTGTTATATTGT-TATGGATCGATACATTTTTTTAAAGTATCGACAC
* *
3526784 TTTGTAGGCGATATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCAATACTTATATTAAATTATC
65 TTTGTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATC
*
3526849 GACACTTTCAACATATTCGGTAGCGCTTTACCTGTTTTGTCATTTTTTAGACCT
130 GACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCA-TTTTTAGACCT
* *
3526903 GTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACG
1 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACAC-
* * * *
3526968 TTT-TAGGCGCTATAACTTCTTATCTTTTAAATT-AAGAAACTATCGATACTTATATTAAATTAT
65 TTTGTAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTATATTAAATTAT
* * * *
3527031 CGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTGTCATTTTTTAGACCT
129 CGACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCA-TTTTTAGACCT
* * *
3527086 GTTTCGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATCGACACT
1 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACT
* * * *
3527151 TTATAGGCGCTATAACTTATTCTCTTTTAAATTTCAAAAGTGTCGATACTTATATTAAAGTATCG
66 TTGTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCG
*
3527216 ACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTTAGACC-
131 ACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTTTAGACCT
**
3527267 GATTTTGTTTTATTTTTACCTGTTATATT-TCTATGGATCGATACA-TTTTTTAAAGTATCGACA
1 G-TTTTGTCATATTTTTACCTGTTATATTGT-TATGGATCGATACATTTTTTTAAAGTATCGACA
*
3527330 CTTTGTAGCCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTAT
64 CTTTGTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTAT
* *
3527395 CGACACTTTCAACATATCCGGTAGCGCTTTACATGTTTTGTCATTTTTTAGACAT
129 CGACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCA-TTTTTAGACCT
* * *
3527450 GTTTTGTTATATTTTTACCTATTATATTGTTATGGATTGATACATTTTT
1 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
3527499 CATTTGTATC
Statistics
Matches: 1029, Mismatches: 88, Indels: 51
0.88 0.08 0.04
Matches are distributed among these distances:
180 5 0.00
181 272 0.26
182 255 0.25
183 488 0.47
184 9 0.01
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (182 bp):
GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACT
TTGTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCG
ACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTTTAGACCT
Found at i:3526673 original size:364 final size:363
Alignment explanation
Indices: 3526174--3527498 Score: 1954
Period size: 364 Copynumber: 3.6 Consensus size: 363
3526164 CGCTTTACCG
*
3526174 GTTTTGTTTTATTTTTACCTGTTATATTTCTATGGATCGATACATTTTATTAAAGTATCGACACT
1 GTTTTGTCTTATTTTTACCTGTTATATTTCTATGGATCGATACATTTT-TTAAAGTATCGACACT
*
3526239 TTGTAGGCGCTATAACTTCTTCTCTTTTAAATTGCAAAAGTGTCGATACTTATATTAAATTATCG
65 TTGTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCG
3526304 ACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCA-TTTTTAGACCTGTTTTGTCATAT
130 ACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTTTTAGACCTGTTTTGTCATAT
* *
3526368 TTTTACCTGTTATATTGTTATGAATCGATA-ATTTTTTTTTAAAGTGTCGACACGTTT-TAGGCG
195 TTTTACCTGTTATATTGTTATGGATCGATACA--TTTTTTTAAAGTATCGACAC-TTTATAGGCG
* *
3526431 CTATAGCTTCTTCTCTTTTAAATTCAGAAACTGTCGATACTTATATTAAATTATCGACACTTTCA
257 CTATAACTTCTTCTCTTTTAAATTCA-AAAGTGTCGATACTTATATTAAATTATCGACACTTTCA
* * * *
3526496 ATATATCCGGTATCGTTTTATTGGTTTTGTCATTTTTAGACCT
321 ACATATCCGGTAGCGCTTTACTGGTTTTGTCATTTTTAGACCT
*
3526539 GTTTTGTCCTATTTTTACCTGTTATATTGT-TATGGATCGATACATTTTTTAAAGTATCGACACT
1 GTTTTGTCTTATTTTTACCTGTTATATT-TCTATGGATCGATACATTTTTTAAAGTATCGACACT
* * * * * *
3526603 TTATAGGCGCTACAACTTATTCTCTTTTAAATTCCAAAAGTTTCGATACTTATATAAAAGTATCG
65 TTGTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCG
* * * **
3526668 ACACTTTCAACATATCCGGTAGCGCTTTACC-GATTTTGTTA-TTTTTATACCGGTTTTGTTTTA
130 ACACTTTCAACATATCCGGTAGCGCTTTACCTG-TTTTGTCATTTTTTAGACCTGTTTTGTCATA
* * *
3526731 TTTTTACCTGTTATATT-TCTATGGTTCGATACATTTTTTTAAAGTATCGACACTTTGTAGGCGA
194 TTTTTACCTGTTATATTGT-TATGGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGC
*
3526795 TATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCAATACTTATATTAAATTATCGACACTTTCAA
258 TATAACTTCTTCTCTTTTAAATT-CAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAA
*
3526860 CATATTCGGTAGCGCTTTACCT-GTTTTGTCATTTTTTAGACCT
322 CATATCCGGTAGCGCTTTA-CTGGTTTTGTCA-TTTTTAGACCT
* * *
3526903 GTTTTATCATATTTTTACCTGTTATATTGT-TATGGATCGATACATTTTTTTAAAGTGTCGACAC
1 GTTTTGTCTTATTTTTACCTGTTATATT-TCTATGGATCGATACA-TTTTTTAAAGTATCGACAC
* * * *
3526967 GTTT-TAGGCGCTATAACTTCTTATCTTTTAAATT-AAGAAACTATCGATACTTATATTAAATTA
64 -TTTGTAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTATATTAAATTA
* * * * * *
3527030 TCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTGTCATTTTTTAGACCTGTTTCGTCC
127 TCGACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTTTTAGACCTGTTTTGTCA
*
3527095 TATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTAAAAGTATCGACACTTTATAGGCG
192 TATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCG
* *
3527160 CTATAACTTATTCTCTTTTAAATTTCAAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCA
257 CTATAACTTCTTCTCTTTTAAA-TTCAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCA
*
3527225 ACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTTAGACC-
321 ACATATCCGGTAGCGCTTTACTGGTTTTGTCATTTTTAGACCT
*
3527267 GATTTTGTTTTATTTTTACCTGTTATATTTCTATGGATCGATACATTTTTTAAAGTATCGACACT
1 G-TTTTGTCTTATTTTTACCTGTTATATTTCTATGGATCGATACATTTTTTAAAGTATCGACACT
*
3527332 TTGTAGCCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCG
65 TTGTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCG
* * *
3527397 ACACTTTCAACATATCCGGTAGCGCTTTACATGTTTTGTCATTTTTTAGACATGTTTTGTTATAT
130 ACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTTTTAGACCTGTTTTGTCATAT
* *
3527462 TTTTACCTATTATATTGTTATGGATTGATACATTTTT
195 TTTTACCTGTTATATTGTTATGGATCGATACATTTTT
3527499 CATTTGTATC
Statistics
Matches: 865, Mismatches: 75, Indels: 41
0.88 0.08 0.04
Matches are distributed among these distances:
362 3 0.00
363 113 0.13
364 380 0.44
365 200 0.23
366 166 0.19
367 3 0.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (363 bp):
GTTTTGTCTTATTTTTACCTGTTATATTTCTATGGATCGATACATTTTTTAAAGTATCGACACTT
TGTAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAATTATCGA
CACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTTTTAGACCTGTTTTGTCATATT
TTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACTTTATAGGCGCTAT
AACTTCTTCTCTTTTAAATTCAAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATA
TCCGGTAGCGCTTTACTGGTTTTGTCATTTTTAGACCT
Found at i:3526738 original size:20 final size:20
Alignment explanation
Indices: 3526693--3526738 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
3526683 CCGGTAGCGC
3526693 TTTACCGATTTTGTTATTTT
1 TTTACCGATTTTGTTATTTT
* *
3526713 TATACCGGTTTTGTT-TTATT
1 TTTACCGATTTTGTTATT-TT
3526733 TTTACC
1 TTTACC
3526739 TGTTATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.15, C:0.13, G:0.11, T:0.61
Consensus pattern (20 bp):
TTTACCGATTTTGTTATTTT
Found at i:3526902 original size:21 final size:22
Alignment explanation
Indices: 3526878--3526919 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
3526868 GTAGCGCTTT
*
3526878 ACCTGTTTTGTCAT-TTTTTAG
1 ACCTGTTTTATCATATTTTTAG
3526899 ACCTGTTTTATCATATTTTTA
1 ACCTGTTTTATCATATTTTTA
3526920 CCTGTTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.19, C:0.14, G:0.10, T:0.57
Consensus pattern (22 bp):
ACCTGTTTTATCATATTTTTAG
Done.