Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_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: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 54
Found at i:2855297 original size:10 final size:10
Alignment explanation
Indices: 2855272--2855326 Score: 85
Period size: 10 Copynumber: 5.5 Consensus size: 10
2855262 AGTGTATTAA
*
2855272 TATTATTCTAT
1 TATTATT-TCT
2855283 TATTATTTCT
1 TATTATTTCT
2855293 TATTATTTCT
1 TATTATTTCT
2855303 TATTATTTCT
1 TATTATTTCT
2855313 TATTATTT-T
1 TATTATTTCT
2855322 TATTA
1 TATTA
2855327 CTATTATATT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
9 6 0.14
10 30 0.70
11 7 0.16
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (10 bp):
TATTATTTCT
Found at i:2857122 original size:21 final size:21
Alignment explanation
Indices: 2857096--2857146 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
2857086 TATCAATAAT
2857096 TTGAGAAAGCTTTTCCAGAGA
1 TTGAGAAAGCTTTTCCAGAGA
2857117 TTGAGAAAGCTTTTCCAGAGA
1 TTGAGAAAGCTTTTCCAGAGA
*
2857138 TTGCGAAAG
1 TTGAGAAAG
2857147 TATCAGTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.27
Consensus pattern (21 bp):
TTGAGAAAGCTTTTCCAGAGA
Found at i:2857964 original size:169 final size:169
Alignment explanation
Indices: 2857685--2858023 Score: 678
Period size: 169 Copynumber: 2.0 Consensus size: 169
2857675 AGTACATGTT
2857685 ATACCATACCACTTGGTAGATATCTAGCCTTGACCCATTGAAGTTCTTGATGGAGACACCAATAT
1 ATACCATACCACTTGGTAGATATCTAGCCTTGACCCATTGAAGTTCTTGATGGAGACACCAATAT
2857750 TGACTAGAAGAATGGCTTGATGGCAGGTGTTGTTATATGATTTTGATATTGTGTATGTAAGCTAG
66 TGACTAGAAGAATGGCTTGATGGCAGGTGTTGTTATATGATTTTGATATTGTGTATGTAAGCTAG
2857815 AAAGAAATAAAGGGAAGTGCTATAGCATATTTTTTGGAA
131 AAAGAAATAAAGGGAAGTGCTATAGCATATTTTTTGGAA
2857854 ATACCATACCACTTGGTAGATATCTAGCCTTGACCCATTGAAGTTCTTGATGGAGACACCAATAT
1 ATACCATACCACTTGGTAGATATCTAGCCTTGACCCATTGAAGTTCTTGATGGAGACACCAATAT
2857919 TGACTAGAAGAATGGCTTGATGGCAGGTGTTGTTATATGATTTTGATATTGTGTATGTAAGCTAG
66 TGACTAGAAGAATGGCTTGATGGCAGGTGTTGTTATATGATTTTGATATTGTGTATGTAAGCTAG
2857984 AAAGAAATAAAGGGAAGTGCTATAGCATATTTTTTGGAA
131 AAAGAAATAAAGGGAAGTGCTATAGCATATTTTTTGGAA
2858023 A
1 A
2858024 GTTGAGCATC
Statistics
Matches: 170, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
169 170 1.00
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.32
Consensus pattern (169 bp):
ATACCATACCACTTGGTAGATATCTAGCCTTGACCCATTGAAGTTCTTGATGGAGACACCAATAT
TGACTAGAAGAATGGCTTGATGGCAGGTGTTGTTATATGATTTTGATATTGTGTATGTAAGCTAG
AAAGAAATAAAGGGAAGTGCTATAGCATATTTTTTGGAA
Found at i:2859887 original size:7 final size:7
Alignment explanation
Indices: 2859838--2859894 Score: 62
Period size: 7 Copynumber: 8.1 Consensus size: 7
2859828 ACTACACTTG
2859838 AAGAAAA
1 AAGAAAA
*
2859845 AATAAAA
1 AAGAAAA
*
2859852 AAGGAGAA
1 AA-GAAAA
*
2859860 AAG-AGA
1 AAGAAAA
2859866 AAGAAAA
1 AAGAAAA
2859873 AAGAAAA
1 AAGAAAA
2859880 AAGAAAA
1 AAGAAAA
*
2859887 ACGAAAA
1 AAGAAAA
2859894 A
1 A
2859895 TAAAATGAGG
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
6 4 0.10
7 32 0.78
8 5 0.12
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.02
Consensus pattern (7 bp):
AAGAAAA
Found at i:2861296 original size:117 final size:118
Alignment explanation
Indices: 2861089--2861654 Score: 630
Period size: 117 Copynumber: 4.8 Consensus size: 118
2861079 TTAAAGAAGG
* * * * *
2861089 AAATCCATCATAGAAGGATTTGGATCAATATTTCCAATAGAGAGTTTATAATGAGAAGAACTCGT
1 AAATCCATCACAGAAGGAGTTGGATTAACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCGT
* * *
2861154 CCACATAGGAAGAAAAAGTTCATAATGAGAAGAAATTGTTCAACCTTATGCTC
66 CCACAGAGGGAGAAGAAGTTCATAATGAGAAGAAATTGTTCAACCTTATGCTC
* * *
2861207 AAATCCATCACAAAAGGAGTTGGATTAACATTT-CAAT-GAGGAGTTCATAATGAGAGGTACTCG
1 AAATCCATCACAGAAGGAGTTGGATTAACATTTCCAATAGA-GAGTTCATAATGAGAAGAACTCG
** * * *
2861270 TCCATGGAGGGAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTATGCTT
65 TCCACAGAGGGAGAAGAAGTTCATAATGAGAAGAAATTGTTCAACCTTATGCTC
* * *
2861324 AAATCCATCATAGAAGGAGTTGGATTAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCAT
1 AAATCCATCACAGAAGGAGTTGGATTAACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCGT
* * * *
2861389 CTA-AGA-GGAGGAAGAAGTTCAAAATGAGAAGAAATTGTTAAACCTT-TCTCTC
66 CCACAGAGGGA-GAAGAAGTTCATAATGAGAAGAAATTGTTCAACCTTAT-GCTC
* * * * * *
2861441 AAATACATTACAGAAGGAGGTGAATTAACATTT-CAATCAG-GAATTCATATTGAGAAGAACTCG
1 AAATCCATCACAGAAGGAGTTGGATTAACATTTCCAAT-AGAGAGTTCATAATGAGAAGAACTCG
* * * * * * *
2861504 TCTACGGAGGGAGAAGAAGTTCATAATAAGAAGAACTTGTTCGGACTTTCAT--TT
65 TCCACAGAGGGAGAAGAAGTTCATAATGAGAAGAAATTGTTC-AACCTT-ATGCTC
* * * *
2861558 AAATCTATCACAGAAGGAGTTGGATCAACATTTCCAATAGAGAGTTCATAATGAGAATAACTCAT
1 AAATCCATCACAGAAGGAGTTGGATTAACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCGT
* *
2861623 -CAAAGAGGGAGAAGAAGTTCATAATAAGAAGA
66 CCACAGAGGGAGAAGAAGTTCATAATGAGAAGA
2861655 GCTTGTTTGA
Statistics
Matches: 376, Mismatches: 59, Indels: 27
0.81 0.13 0.06
Matches are distributed among these distances:
116 34 0.09
117 253 0.67
118 86 0.23
119 2 0.01
120 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (118 bp):
AAATCCATCACAGAAGGAGTTGGATTAACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCGT
CCACAGAGGGAGAAGAAGTTCATAATGAGAAGAAATTGTTCAACCTTATGCTC
Found at i:2861505 original size:234 final size:234
Alignment explanation
Indices: 2861089--2861678 Score: 765
Period size: 234 Copynumber: 2.5 Consensus size: 234
2861079 TTAAAGAAGG
* * * *
2861089 AAATCCATCATAGAAGGATTTGGATCAATATTTCCAATAGAGAGTTTATAATGAGAAGAACTCGT
1 AAATCCATCATAGAAGGAGTTGGATCAACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCAT
* * * * * *
2861154 CCACATAGGAAGAAAAAGTTCATAATGAGAAGAAATTGTTCAACCTTAT-GCTCAAATCCATCAC
66 -CAAAGAGGAGGAAGAAGTTCATAATGAGAAGAAATTGTTAAACCTT-TCGCTCAAATACATCAC
* * * * * * *
2861218 AAAAGGAGTTGGATTAACATTTCAATGAGGAGTTCATAATGAGAGGTACTCGTCCATGGAGGGAG
129 AAAAGGAGGTGAATTAACATTTCAATCAGGAATTCATAATGAGAAGAACTCGTCCACGGAGGGAG
*
2861283 AAGAAATTCATAATGAGAAGAACTTGTTC-AACCTT-ATGCTT
194 AAGAAATTCATAATAAGAAGAACTTGTTCGAACCTTCAT--TT
* *
2861324 AAATCCATCATAGAAGGAGTTGGATTAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCAT
1 AAATCCATCATAGAAGGAGTTGGATCAACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCAT
* * * * *
2861389 CTAAGAGGAGGAAGAAGTTCAAAATGAGAAGAAATTGTTAAACCTTTCTCTCAAATACATTACAG
66 CAAAGAGGAGGAAGAAGTTCATAATGAGAAGAAATTGTTAAACCTTTCGCTCAAATACATCACAA
* *
2861454 AAGGAGGTGAATTAACATTTCAATCAGGAATTCATATTGAGAAGAACTCGTCTACGGAGGGAGAA
131 AAGGAGGTGAATTAACATTTCAATCAGGAATTCATAATGAGAAGAACTCGTCCACGGAGGGAGAA
* * *
2861519 GAAGTTCATAATAAGAAGAACTTGTTCGGACTTTCATTT
196 GAAATTCATAATAAGAAGAACTTGTTCGAACCTTCATTT
* * *
2861558 AAATCTATCACAGAAGGAGTTGGATCAACATTTCCAATAGAGAGTTCATAATGAGAATAACTCAT
1 AAATCCATCATAGAAGGAGTTGGATCAACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCAT
* ** **
2861623 CAAAGAGG-GAGAAGAAGTTCATAATAAGAAGAGCTTGTTTGACCTTTCGCTCAAAT
66 CAAAGAGGAG-GAAGAAGTTCATAATGAGAAGAAATTGTTAAACCTTTCGCTCAAAT
2861679 TCGTCATAGA
Statistics
Matches: 308, Mismatches: 43, Indels: 9
0.86 0.12 0.03
Matches are distributed among these distances:
233 2 0.01
234 241 0.78
235 63 0.20
236 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.26
Consensus pattern (234 bp):
AAATCCATCATAGAAGGAGTTGGATCAACATTTCCAATAGAGAGTTCATAATGAGAAGAACTCAT
CAAAGAGGAGGAAGAAGTTCATAATGAGAAGAAATTGTTAAACCTTTCGCTCAAATACATCACAA
AAGGAGGTGAATTAACATTTCAATCAGGAATTCATAATGAGAAGAACTCGTCCACGGAGGGAGAA
GAAATTCATAATAAGAAGAACTTGTTCGAACCTTCATTT
Found at i:2861721 original size:117 final size:118
Alignment explanation
Indices: 2861089--2861726 Score: 519
Period size: 117 Copynumber: 5.4 Consensus size: 118
2861079 TTAAAGAAGG
* * ** * * * *
2861089 AAATCCATCATAGAAGGATTTGGATCAATATTTCCAAT-AGAGAGTTTATAATGAGAAGAACTCG
1 AAATTCATCACAGAAGGAGGTGGATCAACATTTCCAATGAGAAAGTTCATAATGAGAAGAACTCA
* * * * * * *
2861153 TCCACATAGGAAGAAAAAGTTCATAATGAGAAGAAATTGTTCAACCTTAT-GCTC
66 T-CAAAGAGGGAGAAGAAGTTCATAATAAGAAGAACTTGTTAAACCTT-TCGCTC
* * * * * * * *
2861207 AAATCCATCACAAAAGGAGTTGGATTAACATTT-CAATGAG-GAGTTCATAATGAGAGGTACTCG
1 AAATTCATCACAGAAGGAGGTGGATCAACATTTCCAATGAGAAAGTTCATAATGAGAAGAACTCA
** * * * *
2861270 TCCATGGAGGGAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTAT-GCTT
66 T-CAAAGAGGGAGAAGAAGTTCATAATAAGAAGAACTTGTTAAACCTT-TCGCTC
* * * * *
2861324 AAATCCATCATAGAAGGAGTTGGATTAACATTTCCAATG-GAGAGTTCATAATGAGAAGAACTCA
1 AAATTCATCACAGAAGGAGGTGGATCAACATTTCCAATGAGAAAGTTCATAATGAGAAGAACTCA
* * * * *
2861388 TCTAAGA-GGAGGAAGAAGTTCAAAATGAGAAGAAATTGTTAAACCTTTCTCTC
66 TCAAAGAGGGA-GAAGAAGTTCATAATAAGAAGAACTTGTTAAACCTTTCGCTC
* * * * * * * *
2861441 AAATACATTACAGAAGGAGGTGAATTAACATTT-CAATCAGGAA-TTCATATTGAGAAGAACTCG
1 AAATTCATCACAGAAGGAGGTGGATCAACATTTCCAATGAGAAAGTTCATAATGAGAAGAACTCA
** ** ** *
2861504 TCTACGGAGGGAGAAGAAGTTCATAATAAGAAGAACTTGTTCGGA-CTTTCATTT
66 TC-AAAGAGGGAGAAGAAGTTCATAATAAGAAGAACTTGTT-AAACCTTTCGCTC
* * *
2861558 AAA-TCTATCACAGAAGGAGTTGGATCAACATTTCCAAT-AGAGAGTTCATAATGAGAATAACTC
1 AAATTC-ATCACAGAAGGAGGTGGATCAACATTTCCAATGAGAAAGTTCATAATGAGAAGAACTC
* **
2861621 ATCAAAGAGGGAGAAGAAGTTCATAATAAGAAGAGCTTGTTTGACCTTTCGCTC
65 ATCAAAGAGGGAGAAGAAGTTCATAATAAGAAGAACTTGTTAAACCTTTCGCTC
* * ** * *
2861675 AAATTCGTCATAGAAAAAGGTGGATCAACATTTTCGATGA-AAAGTTCATAAT
1 AAATTCATCACAGAAGGAGGTGGATCAACATTTCCAATGAGAAAGTTCATAAT
2861727 ACAAAGAACT
Statistics
Matches: 429, Mismatches: 76, Indels: 31
0.80 0.14 0.06
Matches are distributed among these distances:
116 31 0.07
117 312 0.73
118 86 0.20
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (118 bp):
AAATTCATCACAGAAGGAGGTGGATCAACATTTCCAATGAGAAAGTTCATAATGAGAAGAACTCA
TCAAAGAGGGAGAAGAAGTTCATAATAAGAAGAACTTGTTAAACCTTTCGCTC
Found at i:2862082 original size:35 final size:35
Alignment explanation
Indices: 2862015--2862111 Score: 94
Period size: 35 Copynumber: 2.8 Consensus size: 35
2862005 CGAAATTAAT
* * *
2862015 TTATTATTTTTATTACTATTATGT-TGTAATATTA
1 TTATTATTATTAATACTATTATTTATGTAATATTA
2862049 TTATTATTATTACATACTATTATTTATGT-ATATTA
1 TTATTATTATTA-ATACTATTATTTATGTAATATTA
* *
2862084 -TATAATATATTATATACTA-TAATTATGT
1 TTATTAT-TATTA-ATACTATTATTTATGT
2862112 TATGTATCAC
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
34 24 0.44
35 27 0.50
36 3 0.06
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (35 bp):
TTATTATTATTAATACTATTATTTATGTAATATTA
Found at i:2862145 original size:16 final size:18
Alignment explanation
Indices: 2862124--2862156 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
2862114 TGTATCACAT
2862124 TTTATAT-TAG-ATTATA
1 TTTATATATAGTATTATA
2862140 TTTATATATAGTATTAT
1 TTTATATATAGTATTAT
2862157 TTATGCAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (18 bp):
TTTATATATAGTATTATA
Found at i:2865878 original size:19 final size:20
Alignment explanation
Indices: 2865854--2865898 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
2865844 TTTATATTTC
* *
2865854 TTTAATGATTATTGAT-ATT
1 TTTAATGAATATTCATGATT
2865873 TTTAATGAATATTCATGATT
1 TTTAATGAATATTCATGATT
2865893 TTTAAT
1 TTTAAT
2865899 AAGCTAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (20 bp):
TTTAATGAATATTCATGATT
Found at i:2876776 original size:20 final size:20
Alignment explanation
Indices: 2876747--2876785 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2876737 TTTCCACCAC
*
2876747 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
2876767 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
2876786 TATGGGCTTT
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:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:2900332 original size:73 final size:73
Alignment explanation
Indices: 2900255--2900405 Score: 275
Period size: 73 Copynumber: 2.1 Consensus size: 73
2900245 TGGAATTTGT
*
2900255 AATGATATAAGAAAGGATAAGTAATATAAGTAATGGAATAAAAGAGATGAAAAGAGTTGGTTGCG
1 AATGATATAAGAAAGGATAAGTAATATAAGTAATGGAATAAAAAAGATGAAAAGAGTTGGTTGCG
2900320 GAATTATA
66 GAATTATA
* *
2900328 AATGATATAAGAAAGGATAAGTAATATAATTAATGGAATAAAAAAGATGAAAGGAGTTGGTTGCG
1 AATGATATAAGAAAGGATAAGTAATATAAGTAATGGAATAAAAAAGATGAAAAGAGTTGGTTGCG
2900393 GAATTATA
66 GAATTATA
2900401 AATGA
1 AATGA
2900406 AGATGTTGGT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.50, C:0.01, G:0.24, T:0.25
Consensus pattern (73 bp):
AATGATATAAGAAAGGATAAGTAATATAAGTAATGGAATAAAAAAGATGAAAAGAGTTGGTTGCG
GAATTATA
Found at i:2900441 original size:23 final size:22
Alignment explanation
Indices: 2900404--2900448 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
2900394 AATTATAAAT
*
2900404 GAAGATGTTGGTGGTCTTGATG
1 GAAGATGTTGATGGTCTTGATG
*
2900426 GAAGATGGTTGATGGTGTTGATG
1 GAAGAT-GTTGATGGTCTTGATG
2900449 TTGTATGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.20, C:0.02, G:0.42, T:0.36
Consensus pattern (22 bp):
GAAGATGTTGATGGTCTTGATG
Found at i:2907437 original size:35 final size:35
Alignment explanation
Indices: 2907385--2907473 Score: 101
Period size: 34 Copynumber: 2.6 Consensus size: 35
2907375 GCAATAAGCT
*
2907385 CTCCAAGTGGTAA-CATCAAAAAACAGAAATATGCA
1 CTCCAAGT-GAAATCATCAAAAAACAGAAATATGCA
* * * *
2907420 CTCCAAGTGCAATCATC-AGATACATAAATATGCA
1 CTCCAAGTGAAATCATCAAAAAACAGAAATATGCA
*
2907454 CTCCAGGTGAAATCATCAAA
1 CTCCAAGTGAAATCATCAAA
2907474 TGTACATGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
34 32 0.71
35 13 0.29
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.20
Consensus pattern (35 bp):
CTCCAAGTGAAATCATCAAAAAACAGAAATATGCA
Found at i:2909260 original size:19 final size:19
Alignment explanation
Indices: 2909236--2909281 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
2909226 CAATTTTCCA
2909236 AAAATTCAATTTAGTCACT
1 AAAATTCAATTTAGTCACT
2909255 AAAATTCAATTTAGTCACT
1 AAAATTCAATTTAGTCACT
2909274 AAAATTCA
1 AAAATTCA
2909282 TTGTTCCACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (19 bp):
AAAATTCAATTTAGTCACT
Found at i:2910312 original size:29 final size:29
Alignment explanation
Indices: 2910250--2910312 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
2910240 CCTCATTATG
* *
2910250 CATTCCATTATATTTCCCATCAAATGCAG
1 CATTTCATTATATTTCCCATCAAATGCAA
* *
2910279 TATTTCATTATATTTCCCATCGAATGCAA
1 CATTTCATTATATTTCCCATCAAATGCAA
2910308 CATTT
1 CATTT
2910313 GGAACATAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.40
Consensus pattern (29 bp):
CATTTCATTATATTTCCCATCAAATGCAA
Found at i:2910622 original size:14 final size:15
Alignment explanation
Indices: 2910595--2910624 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2910585 GATACCTAAA
2910595 AATTAAAAATAAATT
1 AATTAAAAATAAATT
2910610 AATTAAAAA-AAATT
1 AATTAAAAATAAATT
2910624 A
1 A
2910625 TAAGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AATTAAAAATAAATT
Found at i:2910765 original size:29 final size:30
Alignment explanation
Indices: 2910732--2910797 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
2910722 TTGGTTAATT
*** *
2910732 ACCAAAATATAAA-TTTTTAAAGTTTAGTG
1 ACCAAAATATAAAGTTGGAAAAGTTTAGGG
**
2910761 ACCAATGTATAAAGTTGGAAAAGTTTAGGG
1 ACCAAAATATAAAGTTGGAAAAGTTTAGGG
2910791 ACCAAAA
1 ACCAAAA
2910798 AGGTTATTTT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.29
Consensus pattern (30 bp):
ACCAAAATATAAAGTTGGAAAAGTTTAGGG
Found at i:2915980 original size:21 final size:22
Alignment explanation
Indices: 2915924--2915986 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
2915914 GTATTGATAC
* *
2915924 TCATCCTAGGAGTATCGATATA
1 TCATTCTAGGAGTATCAATATA
** **
2915946 TTTTTCTAAAAGTATCAAT-TA
1 TCATTCTAGGAGTATCAATATA
2915967 TCATTCTAGGAGTATCAATA
1 TCATTCTAGGAGTATCAATA
2915987 CTGAATTTTT
Statistics
Matches: 30, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (22 bp):
TCATTCTAGGAGTATCAATATA
Found at i:2916594 original size:13 final size:14
Alignment explanation
Indices: 2916576--2916607 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
2916566 AACCATCCAA
2916576 ATATTCGTGATT-T
1 ATATTCGTGATTAT
2916589 ATATTCGTGATTAT
1 ATATTCGTGATTAT
2916603 ATATT
1 ATATT
2916608 GGGGTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.53
Consensus pattern (14 bp):
ATATTCGTGATTAT
Found at i:2917324 original size:16 final size:17
Alignment explanation
Indices: 2917286--2917324 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
2917276 ATCATGATCT
*
2917286 ACACGTACATTTACAAA
1 ACACATACATTTACAAA
2917303 ACACATACATTT-CAAA
1 ACACATACATTTACAAA
*
2917319 ATACAT
1 ACACAT
2917325 GTTAGAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.26
Consensus pattern (17 bp):
ACACATACATTTACAAA
Found at i:2922060 original size:85 final size:85
Alignment explanation
Indices: 2921917--2922215 Score: 485
Period size: 85 Copynumber: 3.5 Consensus size: 85
2921907 TATGACGCAC
*
2921917 ATTTATGACACGCATGTATAACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAAGATGA
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAAGATGA
2921982 CACACATTTGTGCGTCATAA
66 CACACATTTGTGCGTCATAA
2922002 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAAGATGA
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAAGATGA
2922067 CACACATTTGTGCGTCATAA
66 CACACATTTGTGCGTCATAA
* *
2922087 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAATCCCCCGTCATAAATCT--GCTT
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAAT-TAAG-AT
* * *
2922150 GACATACATTTATGTGTCATAA
64 GACACACATTTGTGCGTCATAA
* * *
2922172 ATTTATGACACACATATATGACTTACATTGCGTGTCATTGAAGC
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGC
2922216 ACACATCATT
Statistics
Matches: 202, Mismatches: 10, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
84 1 0.00
85 200 0.99
86 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (85 bp):
ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAAGATGA
CACACATTTGTGCGTCATAA
Found at i:2928880 original size:58 final size:57
Alignment explanation
Indices: 2928807--2928971 Score: 179
Period size: 58 Copynumber: 2.8 Consensus size: 57
2928797 AATTGTTGTT
* * *
2928807 AGGTGATATTCTGGGAAATATTTCGATAAAGGTGACATTTTGGGAATTATTTTG-AAA
1 AGGTGACATTCTGGGAAATATTTCGA-AAAAGTGACATTTTGGGAATTATTTCGTAAA
* * *
2928864 AGGGTGACATTATGGGAAATATTTCGAAAAAATGTAGCATATTGGGAATTATTTCGTAAA
1 A-GGTGACATTCTGGGAAATATTTCGAAAAAGTG-A-CATTTTGGGAATTATTTCGTAAA
* * ** *
2928924 AGGTGACACTCTGGGAATTATTTTTAAAAAAGTTACATTTTGGGAATT
1 AGGTGACATTCTGGGAAATA-TTTCGAAAAAGTGACATTTTGGGAATT
2928972 TTTAAATGTT
Statistics
Matches: 89, Mismatches: 14, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
57 6 0.07
58 36 0.40
59 34 0.38
60 13 0.15
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (57 bp):
AGGTGACATTCTGGGAAATATTTCGAAAAAGTGACATTTTGGGAATTATTTCGTAAA
Found at i:2928953 original size:29 final size:29
Alignment explanation
Indices: 2928807--2928971 Score: 152
Period size: 29 Copynumber: 5.7 Consensus size: 29
2928797 AATTGTTGTT
* * * *
2928807 AGGTGATATTCTGGGAAATATTTCGATAA
1 AGGTGACATTTTGGGAATTATTTCGAAAA
*
2928836 AGGTGACATTTTGGGAATTATTTTGAAAA
1 AGGTGACATTTTGGGAATTATTTCGAAAA
* * *
2928865 GGGTGACATTATGGGAAATATTTCGAAAA
1 AGGTGACATTTTGGGAATTATTTCGAAAA
* * *
2928894 A-ATGTAGCATATTGGGAATTATTTCGTAAA
1 AGGTG-A-CATTTTGGGAATTATTTCGAAAA
* * **
2928924 AGGTGACACTCTGGGAATTATTTTTAAAA
1 AGGTGACATTTTGGGAATTATTTCGAAAA
* *
2928953 AAGTTACATTTTGGGAATT
1 AGGTGACATTTTGGGAATT
2928972 TTTAAATGTT
Statistics
Matches: 107, Mismatches: 26, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
28 2 0.02
29 82 0.77
30 21 0.20
31 2 0.02
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (29 bp):
AGGTGACATTTTGGGAATTATTTCGAAAA
Found at i:2935672 original size:58 final size:56
Alignment explanation
Indices: 2935529--2935676 Score: 156
Period size: 58 Copynumber: 2.6 Consensus size: 56
2935519 GCTATTTTGG
* * * *
2935529 GAAATATTTCGATAAAGGTGACATTTTGGGAATTATGTTGAAAAGTGACATTATGG
1 GAAATATTTCGAAAAAAGTGACATTTTGGGAATTATGTTGAAAAGTGACATCATGA
* * *
2935585 GAAATATTTCGAAAAAGGTAACATATTGGGAATTAT-TTCGTAAAAGGTGACA-CACTGA
1 GAAATATTTCGAAAAAAGTGACATTTTGGGAATTATGTT-G-AAAA-GTGACATCA-TGA
* **
2935643 GAATTATTTTTAAAAAAGTGACATTTTGGGAATT
1 GAAATATTTCGAAAAAAGTGACATTTTGGGAATT
2935677 TTCAAATGTT
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
55 2 0.03
56 34 0.44
57 5 0.06
58 36 0.47
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.33
Consensus pattern (56 bp):
GAAATATTTCGAAAAAAGTGACATTTTGGGAATTATGTTGAAAAGTGACATCATGA
Found at i:2935675 original size:29 final size:29
Alignment explanation
Indices: 2935522--2935676 Score: 136
Period size: 29 Copynumber: 5.4 Consensus size: 29
2935512 GTTAGGTGCT
* * *
2935522 ATTTTGGGAAATATTTCGATAAAGGTGAC
1 ATTTTGGGAATTATTTCTAAAAAGGTGAC
* *
2935551 ATTTTGGGAATTATGT-TGAAAA-GTGAC
1 ATTTTGGGAATTATTTCTAAAAAGGTGAC
* * * *
2935578 ATTATGGGAAATATTTCGAAAAAGGTAAC
1 ATTTTGGGAATTATTTCTAAAAAGGTGAC
*
2935607 ATATTGGGAATTATTTCGT-AAAAGGTGAC
1 ATTTTGGGAATTATTTC-TAAAAAGGTGAC
*** * * *
2935636 ACACTGAGAATTATTTTTAAAAAAGTGAC
1 ATTTTGGGAATTATTTCTAAAAAGGTGAC
2935665 ATTTTGGGAATT
1 ATTTTGGGAATT
2935677 TTCAAATGTT
Statistics
Matches: 97, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
27 18 0.19
28 8 0.08
29 71 0.73
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.34
Consensus pattern (29 bp):
ATTTTGGGAATTATTTCTAAAAAGGTGAC
Found at i:2951604 original size:3 final size:3
Alignment explanation
Indices: 2951596--2951668 Score: 130
Period size: 3 Copynumber: 24.7 Consensus size: 3
2951586 TTTTTACCCA
2951596 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
2951643 TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
2951669 AATATATATT
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 65 0.97
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2951841 original size:16 final size:16
Alignment explanation
Indices: 2951820--2951858 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
2951810 TAATCCCATG
2951820 CCAGCCGCCTCTGCCT
1 CCAGCCGCCTCTGCCT
2951836 CCAGCCGCCTCTGCCT
1 CCAGCCGCCTCTGCCT
2951852 CCA-CCGC
1 CCAGCCGC
2951859 TGCCACGTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.08, C:0.59, G:0.18, T:0.15
Consensus pattern (16 bp):
CCAGCCGCCTCTGCCT
Found at i:2953766 original size:19 final size:19
Alignment explanation
Indices: 2953726--2953768 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
2953716 TCTTTTCAAA
*
2953726 ATTTTTATATATACTTATT
1 ATTTTCATATATACTTATT
*
2953745 ATTTTCATA-ATATTTATAT
1 ATTTTCATATATACTTAT-T
2953764 ATTTT
1 ATTTT
2953769 TTTATTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTCATATATACTTATT
Found at i:2953766 original size:22 final size:22
Alignment explanation
Indices: 2953740--2953801 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
2953730 TTATATATAC
2953740 TTATTATTTTCATAATATTT-A
1 TTATTATTTTCATAATATTTCA
*
2953761 TATATT-TTTTTATTAATATTTCA
1 T-TATTATTTTCA-TAATATTTCA
*
2953784 TT-TTATTTGCA-AATATTT
1 TTATTATTTTCATAATATTT
2953802 TATTTCATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
20 7 0.21
21 8 0.24
22 17 0.50
23 2 0.06
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (22 bp):
TTATTATTTTCATAATATTTCA
Found at i:2964259 original size:7 final size:7
Alignment explanation
Indices: 2964247--2964304 Score: 73
Period size: 7 Copynumber: 8.1 Consensus size: 7
2964237 AGAAAAAATG
2964247 AAGAAAA
1 AAGAAAA
2964254 AAGAAAA
1 AAGAAAA
*
2964261 GAAAAAGAA
1 -AAGAA-AA
2964270 AAGAAAA
1 AAGAAAA
2964277 AA-AAAA
1 AAGAAAA
*
2964283 GAGAAAA
1 AAGAAAA
2964290 AAGAAAA
1 AAGAAAA
2964297 AAGAAAA
1 AAGAAAA
2964304 A
1 A
2964305 GGGGGTCAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
6 5 0.11
7 29 0.66
8 8 0.18
9 2 0.05
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:2964259 original size:18 final size:17
Alignment explanation
Indices: 2964236--2964301 Score: 71
Period size: 18 Copynumber: 3.7 Consensus size: 17
2964226 ATTATGCTTG
2964236 AAGAAAAAATGAAGAAAA
1 AAGAAAAAA-GAAGAAAA
*
2964254 AAGAAAAGAAAAAGAAAA
1 AAGAAAA-AAGAAGAAAA
*
2964272 GAA-AAAAAAAAGAGAAAA
1 -AAGAAAAAAGA-AGAAAA
2964290 AAGAAAAAAGAA
1 AAGAAAAAAGAA
2964302 AAAGGGGGTC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
17 7 0.17
18 31 0.74
19 4 0.10
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.02
Consensus pattern (17 bp):
AAGAAAAAAGAAGAAAA
Found at i:2964262 original size:23 final size:21
Alignment explanation
Indices: 2964236--2964303 Score: 84
Period size: 23 Copynumber: 3.1 Consensus size: 21
2964226 ATTATGCTTG
2964236 AAGAAAAAATGAAGAAAAAAGAA
1 AAGAAAAAA--AAGAAAAAAGAA
2964259 AAGAAAAAGAAAAGAAAAAA-AA
1 AAG-AAAA-AAAAGAAAAAAGAA
*
2964281 AAGAGAAAAAAGAAAAAAGAA
1 AAGAAAAAAAAGAAAAAAGAA
2964302 AA
1 AA
2964304 AGGGGGTCAA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
20 11 0.27
21 7 0.17
22 5 0.12
23 12 0.29
24 4 0.10
25 2 0.05
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.01
Consensus pattern (21 bp):
AAGAAAAAAAAGAAAAAAGAA
Found at i:2964265 original size:11 final size:11
Alignment explanation
Indices: 2964251--2964303 Score: 65
Period size: 11 Copynumber: 4.9 Consensus size: 11
2964241 AAAATGAAGA
2964251 AAAAAGAAAAG
1 AAAAAGAAAAG
2964262 AAAAAGAAAAG
1 AAAAAGAAAAG
*
2964273 AAAAAAAAAAG
1 AAAAAGAAAAG
*
2964284 -AGAA-AAAAG
1 AAAAAGAAAAG
2964293 AAAAAAGAAAA
1 -AAAAAGAAAA
2964304 AGGGGGTCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
9 5 0.14
10 3 0.08
11 24 0.67
12 4 0.11
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:2964271 original size:16 final size:16
Alignment explanation
Indices: 2964252--2964303 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
2964242 AAATGAAGAA
2964252 AAAAGAAAAGAAAAAG
1 AAAAGAAAAGAAAAAG
*
2964268 AAAAGAAAAAAAAAAG
1 AAAAGAAAAGAAAAAG
*
2964284 AGAA-AAAAGAAAAAAG
1 AAAAGAAAAG-AAAAAG
2964300 AAAA
1 AAAA
2964304 AGGGGGTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
15 4 0.13
16 27 0.87
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAGAAAAAG
Found at i:2964280 original size:27 final size:27
Alignment explanation
Indices: 2964236--2964304 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
2964226 ATTATGCTTG
*
2964236 AAGAAAAAATG-AAGAAAAAAGA-AAAGA
1 AAGAAAAAA-GAAAAAAAAAAGAGAAA-A
2964263 AA-AAGAAAAGAAAAAAAAAAGAGAAAA
1 AAGAA-AAAAGAAAAAAAAAAGAGAAAA
2964290 AAGAAAAAAGAAAAA
1 AAGAAAAAAGAAAAA
2964305 GGGGGTCAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
26 3 0.08
27 29 0.78
28 5 0.14
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.01
Consensus pattern (27 bp):
AAGAAAAAAGAAAAAAAAAAGAGAAAA
Found at i:2964304 original size:23 final size:23
Alignment explanation
Indices: 2964237--2964305 Score: 81
Period size: 22 Copynumber: 3.0 Consensus size: 23
2964227 TTATGCTTGA
2964237 AGAAAAAATGAAGAAAAAAGAAAAG
1 AGAAAAAA-GAAGAAAAAA-AAAAG
2964262 A-AAAAGAA-AAGAAAAAAAAAAG
1 AGAAAA-AAGAAGAAAAAAAAAAG
*
2964284 AGAAAAAAGAA-AAAAGAAAAAG
1 AGAAAAAAGAAGAAAAAAAAAAG
2964306 GGGGTCAAGG
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
22 18 0.45
23 15 0.38
24 4 0.10
25 3 0.08
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.01
Consensus pattern (23 bp):
AGAAAAAAGAAGAAAAAAAAAAG
Found at i:2964641 original size:16 final size:16
Alignment explanation
Indices: 2964615--2964659 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
2964605 TTTGAATACA
*
2964615 ATTCTATTTATTTCAAG
1 ATTCAATTTATTT-AAG
*
2964632 -TTCAATTTATTTGAG
1 ATTCAATTTATTTAAG
2964647 ATTCAATTTATTT
1 ATTCAATTTATTT
2964660 TTGAAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.56
Consensus pattern (16 bp):
ATTCAATTTATTTAAG
Found at i:2965579 original size:83 final size:83
Alignment explanation
Indices: 2965440--2965831 Score: 734
Period size: 83 Copynumber: 4.7 Consensus size: 83
2965430 AAACATTAAA
2965440 TAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
1 TAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
2965505 AGAACCAATCATTGAATT
66 AGAACCAATCATTGAATT
2965523 TAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-
1 TAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGA
*
2965587 TA-AACCAATCATTGAATT
65 CAGAACCAATCATTGAATT
*
2965605 TAGAAGATGAATTTGCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
1 TAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
2965670 AGAACCAATCATTGAATT
66 AGAACCAATCATTGAATT
2965688 TAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
1 TAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
2965753 AGAACCAATCATTGAATT
66 AGAACCAATCATTGAATT
*
2965771 TAGAAGATGAATTTGCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 TAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
2965832 TGGTAGGAAC
Statistics
Matches: 301, Mismatches: 5, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
81 4 0.01
82 75 0.25
83 218 0.72
84 4 0.01
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.36
Consensus pattern (83 bp):
TAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
AGAACCAATCATTGAATT
Found at i:2965712 original size:165 final size:166
Alignment explanation
Indices: 2965440--2965831 Score: 734
Period size: 165 Copynumber: 2.4 Consensus size: 166
2965430 AAACATTAAA
2965440 TAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
1 TAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
2965505 AGAACCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGT
66 AGAACCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGT
*
2965570 TATCTGATCTGGTTTGG-TA-AACCAATCATTGAATT
131 TATCTGATCTGG-TTGGACAGAACCAATCATTGAATT
*
2965605 TAGAAGATGAATTTGCCAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
1 TAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
2965670 AGAACCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGT
66 AGAACCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGT
2965735 TATCTGATCTGGTTGGACAGAACCAATCATTGAATT
131 TATCTGATCTGGTTGGACAGAACCAATCATTGAATT
*
2965771 TAGAAGATGAATTTGCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 TAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
2965832 TGGTAGGAAC
Statistics
Matches: 221, Mismatches: 4, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
164 4 0.02
165 142 0.64
166 75 0.34
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.36
Consensus pattern (166 bp):
TAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
AGAACCAATCATTGAATTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGT
TATCTGATCTGGTTGGACAGAACCAATCATTGAATT
Found at i:2966899 original size:116 final size:117
Alignment explanation
Indices: 2966563--2967237 Score: 996
Period size: 116 Copynumber: 5.9 Consensus size: 117
2966553 ATTCAAATCT
* * * * * *
2966563 ATCATTTGATGGATTATCTTTTCCAGAGAAG-GTTCATAATGTGAAGAACTCATCATCTGAAGGA
1 ATCATTTGATGGATCAACTTTGCCAGAGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
* * *
2966627 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTTGAATTC
66 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTC
* * * * *
2966679 ATCAAATTGATGGATTAGCTTTTCCAGA-AAAAGTTCATAATGAGAAGAA--C-TCATCTGAAGA
1 ATC-ATTTGATGGATCAACTTTGCCAGAGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGA
* * *
2966740 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTC
65 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTC
* * **
2966793 ATCACTTGATGGATTATTTTTGCCAGAGAAG-GTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 ATCATTTGATGGATCAACTTTGCCAGAGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
2966857 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTC
66 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTC
* *
2966909 ATCATTTGATGGATCAACGTTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 ATCATTTGATGGATCAACTTTGCCAGAGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
2966973 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTC
66 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTC
* *
2967025 ATCATTTGATGGATCAACGTTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 ATCATTTGATGGATCAACTTTGCCAGAGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
*
2967089 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA--TCTT-TTTGAATTC
66 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTC
* *
2967138 ATCATTTGATGGATCAACATTGCCA-AGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 ATCATTTGATGGATCAACTTTGCCAGAGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
*
2967202 GGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA
66 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
2967238 TAATTCTATC
Statistics
Matches: 527, Mismatches: 24, Indels: 19
0.92 0.04 0.03
Matches are distributed among these distances:
113 143 0.27
114 69 0.13
115 5 0.01
116 272 0.52
117 38 0.07
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (117 bp):
ATCATTTGATGGATCAACTTTGCCAGAGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTC
Found at i:2967561 original size:3 final size:3
Alignment explanation
Indices: 2967553--2967634 Score: 139
Period size: 3 Copynumber: 27.3 Consensus size: 3
2967543 TTTTTTACCC
2967553 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
2967601 ATT ATT ATT ATT ATT ATAT CTT ATT ATT A-T ATT A
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT A
2967635 AATATATATT
Statistics
Matches: 75, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
2 2 0.03
3 71 0.95
4 2 0.03
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:2967808 original size:16 final size:16
Alignment explanation
Indices: 2967787--2967825 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
2967777 TAATCCCATG
2967787 CCAGCCGCCTCTGCCT
1 CCAGCCGCCTCTGCCT
2967803 CCAGCCGCCTCTGCCT
1 CCAGCCGCCTCTGCCT
2967819 CCA-CCGC
1 CCAGCCGC
2967826 TGCCACGTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.08, C:0.59, G:0.18, T:0.15
Consensus pattern (16 bp):
CCAGCCGCCTCTGCCT
Found at i:2977131 original size:181 final size:183
Alignment explanation
Indices: 2976827--2977190 Score: 705
Period size: 181 Copynumber: 2.0 Consensus size: 183
2976817 AAATAAACAG
2976827 AAGAGGAAGTTTTCTTGAGGCCAGTATGACAGTTTCCTTAAGATAGATTCGTCATCTCCTCGGTG
1 AAGAGGAAGTTTTCTTGAGGCCAGTATGACAGTTTCCTTAAGATAGATTCGTCATCTCCTCGGTG
2976892 CTTTGAGTAACGTTGGACGTCAGTCTTCCAAGATACAACAATAAATGATCACAACAGTAAGCACA
66 CTTTGAGTAACGTTGGACGTCAGTCTTCCAAGATACAACAATAAATGATCACAACAGTAAGCACA
2976957 ACTGTAGTGATCAGGCGAACATAATCTTGCCTT-C-CTATCACCAGATAGAAC
131 ACTGTAGTGATCAGGCGAACATAATCTTGCCTTCCTCTATCACCAGATAGAAC
*
2977008 AAGAGGAAGTTTTCTTGAGGCCAGTATGACAGTTTCCTTAAGATAGATTCGTCTTCTCCTCGGTG
1 AAGAGGAAGTTTTCTTGAGGCCAGTATGACAGTTTCCTTAAGATAGATTCGTCATCTCCTCGGTG
2977073 CTTTGAGTAACGTTGGACGTCAGTCTTCCAAGATACAACAATAAATGATCACAACAGTAAGCACA
66 CTTTGAGTAACGTTGGACGTCAGTCTTCCAAGATACAACAATAAATGATCACAACAGTAAGCACA
2977138 ACTGTAGTGATCAGGCGAACATAATCTTGCCTTCCTCTATCACCAGATAGAAC
131 ACTGTAGTGATCAGGCGAACATAATCTTGCCTTCCTCTATCACCAGATAGAAC
2977191 GGATTTTGGA
Statistics
Matches: 180, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
181 162 0.90
182 1 0.01
183 17 0.09
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (183 bp):
AAGAGGAAGTTTTCTTGAGGCCAGTATGACAGTTTCCTTAAGATAGATTCGTCATCTCCTCGGTG
CTTTGAGTAACGTTGGACGTCAGTCTTCCAAGATACAACAATAAATGATCACAACAGTAAGCACA
ACTGTAGTGATCAGGCGAACATAATCTTGCCTTCCTCTATCACCAGATAGAAC
Found at i:2986927 original size:22 final size:20
Alignment explanation
Indices: 2986874--2986928 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
2986864 TCCGGCCACC
* *
2986874 GTGAATAGTCACCAACGGTG
1 GTGAATAGTGACCAAAGGTG
*
2986894 GTGAATAATGACCAAAGGTG
1 GTGAATAGTGACCAAAGGTG
2986914 GCTGAAATAGTGACC
1 G-TG-AATAGTGACC
2986929 GGCTCTCCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 18 0.62
21 2 0.07
22 9 0.31
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (20 bp):
GTGAATAGTGACCAAAGGTG
Found at i:2987212 original size:29 final size:28
Alignment explanation
Indices: 2987176--2987243 Score: 66
Period size: 30 Copynumber: 2.4 Consensus size: 28
2987166 TTTATGTGCC
* * *
2987176 TTTA-ATTTAGTCTTTGAATTTTATTTAA
1 TTTATATTTAGTCATTGAACTATATTT-A
*
2987204 TTTATATTTTAGTCATTGCACTATATTTA
1 TTTATA-TTTAGTCATTGAACTATATTTA
*
2987233 TATATATTTAG
1 TTTATATTTAG
2987244 GGTAAATAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
28 9 0.27
29 7 0.21
30 17 0.52
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.57
Consensus pattern (28 bp):
TTTATATTTAGTCATTGAACTATATTTA
Found at i:2991457 original size:18 final size:19
Alignment explanation
Indices: 2991430--2991478 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
2991420 CATTTATCTT
*
2991430 AGTATTGATACC-TACATC
1 AGTATCGATACCATACATC
*
2991448 AGTATCGATACCAATTGCATC
1 AGTATCGATACC-A-TACATC
2991469 AGTATCGATA
1 AGTATCGATA
2991479 TTGTTAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 11 0.42
21 15 0.58
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (19 bp):
AGTATCGATACCATACATC
Found at i:2999566 original size:3 final size:3
Alignment explanation
Indices: 2999558--2999603 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
2999548 ATTGGGCCTG
* * *
2999558 TAA TAA TAA TAA T-T TAT TAA TAA TAA T-A TAA TAA TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2999604 AAAGGAGTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 3 0.08
3 34 0.92
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:2999580 original size:14 final size:14
Alignment explanation
Indices: 2999558--2999599 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
2999548 ATTGGGCCTG
*
2999558 TAATAATAATAATT
1 TAATAATAATAATA
*
2999572 TATTAATAATAATA
1 TAATAATAATAATA
*
2999586 TAATAATATTAATA
1 TAATAATAATAATA
2999600 ATAAAAAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATAATAATAATA
Found at i:2999583 original size:20 final size:20
Alignment explanation
Indices: 2999558--2999603 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
2999548 ATTGGGCCTG
*
2999558 TAATAATAATAAT-TTATTAA
1 TAATAAT-ATAATAATATTAA
2999578 TAATAATATAATAATATTAA
1 TAATAATATAATAATATTAA
2999598 TAATAA
1 TAATAA
2999604 AAAGGAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TAATAATATAATAATATTAA
Found at i:3000065 original size:42 final size:42
Alignment explanation
Indices: 3000012--3000093 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
3000002 AAGGACTTTT
* *
3000012 CATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGATTTAAG
1 CATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAG
*
3000054 CATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTA
1 CATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTA
3000094 CAAATCAAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAG
Found at i:3000094 original size:20 final size:20
Alignment explanation
Indices: 3000029--3000094 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
3000019 CTCGAAAGGC
*
3000029 TTACAGATGACCCGAAGGAT
1 TTACTGATGACCCGAAGGAT
* * * *
3000049 TTAAGCATCATG-CTCGAAAGAC
1 TT-A-C-TGATGACCCGAAGGAT
3000071 TTACTGATGACCCGAAGGAT
1 TTACTGATGACCCGAAGGAT
3000091 TTAC
1 TTAC
3000095 AAATCAAGAA
Statistics
Matches: 33, Mismatches: 9, Indels: 8
0.66 0.18 0.16
Matches are distributed among these distances:
19 4 0.12
20 14 0.42
21 2 0.06
22 10 0.30
23 3 0.09
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (20 bp):
TTACTGATGACCCGAAGGAT
Found at i:3000308 original size:177 final size:176
Alignment explanation
Indices: 3000102--3001033 Score: 1488
Period size: 177 Copynumber: 5.3 Consensus size: 176
3000092 TACAAATCAA
* * *
3000102 GAAACCCTCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCTTGCACTGAAGGTCTTATTG
1 GAAACCC-CAAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGG
* **
3000167 ATGGCCCGAAGGACTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTCTTAGTTGTCAAAAAACC
65 ATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAGTTGTCAAGGAACC
* *
3000232 CCTTTATTACGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATTAG
130 CCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATTAG
*
3000279 GAAACCACCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGG
1 GAAACC-CCAAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGG
* *
3000344 ATGGCCCGAAGGACTTCCAAATCAAGAAACCCCCGAAGGCTTAGATTT-TTAGTTGTCAATGAAC
65 ATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAG-TTTCTTAGTTGTCAAGGAAC
* *
3000408 CCCTTTGTTAGGCTTAGCTTCCTTTAACAATTCTTTTGAGATATTTAG
129 CCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATTAG
3000456 GAAACCCCCAAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGG
1 GAAA-CCCCAAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGG
* * * * * *
3000521 ATGTCCCGAAGGACTTACAAATCAAGAAACTCGCGAAGGCTAAGTTTCTTAGTTATTAAGGAACC
65 ATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAGTTGTCAAGGAACC
*
3000586 CCTTTGTTAGGCTTAGCTTCCTTTAACAATTCTTTTGAGATAATTAG
130 CCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATTAG
* * * *
3000633 AAAACCCCCGAAGGCTTAGTTTCTAAAATTTCATTTGAAAACATCCTGCACTAAAGGTCTTATGG
1 GAAA-CCCCAAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGG
* *
3000698 ATGGCCCGAAGGACTTACAAATCAAGAAACCCCTGAAGGCTTAGATTCTTAGTTGTCAAGGAACC
65 ATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAGTTGTCAAGGAACC
*
3000763 CCTTTGTTAGGCTTAGCTTCTTTTAACAACTCTTTTGAGATAATTAG
130 CCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATTAG
* *
3000810 AAAACCCCAAAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGAACTGAAGGTCTTATGG
1 GAAACCCC-AAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGG
* *
3000875 ATGGCCTGAAGAACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAGTTGTCAAGGAACC
65 ATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAGTTGTCAAGGAACC
* *
3000940 CCTTTGTTACGCTTAGCTTCCTTTAAAAACTCTTTTGAGATAATTAG
130 CCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATTAG
*
3000987 GAAACCCCAAAAGGCTTAGTTTCTAAAATATCATTTGAAAACATCCT
1 GAAACCCC-AAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCT
3001034 TCTCAGAGGC
Statistics
Matches: 703, Mismatches: 47, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
176 7 0.01
177 690 0.98
178 6 0.01
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (176 bp):
GAAACCCCAAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGA
TGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAGTTGTCAAGGAACCC
CTTTGTTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATTAG
Found at i:3000384 original size:90 final size:89
Alignment explanation
Indices: 3000070--3000387 Score: 249
Period size: 90 Copynumber: 3.6 Consensus size: 89
3000060 GCTCGAAAGA
* * *
3000070 CTTACTGATGACCCGAAGGATTTACAAATCAAGAAACCCTCGAAGGCTTAGTTTCTAAAATCTCA
1 CTTA-TGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCA
*
3000135 TTTGAAAACATCTTGCACTGAAGGT
65 TTTGAAAACATCCTGCACTGAAGGT
* * ** *
3000160 CTTATTGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCAAAGGCTTAGTTTCTTAGTTGTCA
1 CTTA-TGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCA
* * ** * *
3000225 ---AAAAAC-CCCTTTA-T-TACG-
65 TTTGAAAACATCCTGCACTGAAGGT
* * ** ** * * * *
3000243 CTTA-GCT-TCCTTTAACAACTCTTTTGAGATAATTAGGAAACCACCGAAGGCTTAGTTTCTAAA
1 CTTATGATGGCC-CGAAGGA--C--TT-ACA-AATCAAGAAACCCCCGAAGGCTTAGTTTCTAAA
3000306 ATCTCATTTGAAAACATCCTGCACTGAAGGT
59 ATCTCATTTGAAAACATCCTGCACTGAAGGT
*
3000337 CTTATGGATGGCCCGAAGGACTTCCAAATCAAGAAACCCCCGAAGGCTTAG
1 CTTAT-GATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAG
3000388 ATTTTTAGTT
Statistics
Matches: 163, Mismatches: 48, Indels: 34
0.67 0.20 0.14
Matches are distributed among these distances:
80 2 0.01
81 5 0.03
83 5 0.03
84 2 0.01
85 3 0.02
86 5 0.03
87 36 0.22
90 83 0.51
91 5 0.03
92 3 0.02
93 2 0.01
94 5 0.03
96 5 0.03
97 2 0.01
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (89 bp):
CTTATGATGGCCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTAAAATCTCAT
TTGAAAACATCCTGCACTGAAGGT
Found at i:3001052 original size:21 final size:21
Alignment explanation
Indices: 3001026--3001073 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
3001016 ATCATTTGAA
*
3001026 AACATCCTTCTCAGAGGCCTT
1 AACATCCTTCACAGAGGCCTT
3001047 AACATCCTTCACAGAGGCCTT
1 AACATCCTTCACAGAGGCCTT
*
3001068 ATCATC
1 AACATC
3001074 TTGCTCGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.27
Consensus pattern (21 bp):
AACATCCTTCACAGAGGCCTT
Found at i:3002757 original size:52 final size:52
Alignment explanation
Indices: 3002654--3002885 Score: 244
Period size: 52 Copynumber: 4.5 Consensus size: 52
3002644 TCATACTAAG
* * * * *
3002654 GTGAGCCTTCAAAATG-CCC-C-TAGATCACTTCTGTCTTTTTCATGCTAAT
1 GTGAGCCTTCAAGATGCCCCACATGGATTACTTATGTCTTTTTCATGCTGAT
3002703 GTGAGCCTTCAAGATGCCCCACATGGATTACTTATGTCTTTTTCATGCTGAT
1 GTGAGCCTTCAAGATGCCCCACATGGATTACTTATGTCTTTTTCATGCTGAT
* * * *
3002755 GTGAGCCTTCAAGATGCCCCACATGAATTATTTCTATTTTTTTTTCATGCAT-AT
1 GTGAGCCTTCAAGATGCCCCACATGGATTA-CT-TATGTCTTTTTCATGC-TGAT
* * * * *
3002809 ATGAGCCTTCAAGAT-CCCCACGTGGATAACTTCTATC-TTTTCATGCTGAT
1 GTGAGCCTTCAAGATGCCCCACATGGATTACTTATGTCTTTTTCATGCTGAT
* *
3002859 GTGAGCCTTAAAGAT-ACCCACATGGAT
1 GTGAGCCTTCAAGATGCCCCACATGGAT
3002886 AATATGAACC
Statistics
Matches: 155, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
49 16 0.10
50 37 0.24
51 4 0.03
52 55 0.35
53 12 0.08
54 30 0.19
55 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (52 bp):
GTGAGCCTTCAAGATGCCCCACATGGATTACTTATGTCTTTTTCATGCTGAT
Found at i:3002864 original size:104 final size:105
Alignment explanation
Indices: 3002689--3002882 Score: 286
Period size: 104 Copynumber: 1.9 Consensus size: 105
3002679 CACTTCTGTC
* * *
3002689 TTTTTCATGCTAATGTGAGCCTTCAAGATGCCCCACATGGATTACTTATGTCTTTTTCATGCTGA
1 TTTTTCATGCTAATATGAGCCTTCAAGATGCCCCACATGGATAACTTATATCTTTTTCATGCTGA
* *
3002754 TGTGAGCCTTCAAGATGCCCCACATGAATTATTTCTATTTT
66 TGTGAGCCTTAAAGAT-ACCCACATGAATTATTTCTATTTT
* *
3002795 TTTTTCATGC-ATATATGAGCCTTCAAGAT-CCCCACGTGGATAACTTCTATC-TTTTCATGCTG
1 TTTTTCATGCTA-ATATGAGCCTTCAAGATGCCCCACATGGATAACTTATATCTTTTTCATGCTG
3002857 ATGTGAGCCTTAAAGATACCCACATG
65 ATGTGAGCCTTAAAGATACCCACATG
3002883 GATAATATGA
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
103 8 0.10
104 27 0.34
105 19 0.24
106 26 0.32
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (105 bp):
TTTTTCATGCTAATATGAGCCTTCAAGATGCCCCACATGGATAACTTATATCTTTTTCATGCTGA
TGTGAGCCTTAAAGATACCCACATGAATTATTTCTATTTT
Found at i:3004381 original size:20 final size:20
Alignment explanation
Indices: 3004356--3004394 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
3004346 TGATTCAATT
3004356 TCTTTTTTCTTT-TTTCTTTA
1 TCTTTTTT-TTTCTTTCTTTA
3004376 TCTTTTTTTTTCTTTCTTT
1 TCTTTTTTTTTCTTTCTTT
3004395 TTTCCTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (20 bp):
TCTTTTTTTTTCTTTCTTTA
Found at i:3004394 original size:27 final size:31
Alignment explanation
Indices: 3004360--3004428 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 31
3004350 TCAATTTCTT
*
3004360 TTTTCTTTTTTCTTTATCTT-T-TT-TTTTC
1 TTTTCTTTTTTCCTTATCTTCTCTTATTTTC
*
3004388 -TTTCTTTTTTCCTTATTTTCTCTTATTTTC
1 TTTTCTTTTTTCCTTATCTTCTCTTATTTTC
3004418 TTTTCTTTTTT
1 TTTTCTTTTTT
3004429 TTCTCTGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 17 0.49
28 1 0.03
29 2 0.06
30 5 0.14
31 10 0.29
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (31 bp):
TTTTCTTTTTTCCTTATCTTCTCTTATTTTC
Found at i:3004426 original size:10 final size:10
Alignment explanation
Indices: 3004354--3004432 Score: 51
Period size: 10 Copynumber: 8.0 Consensus size: 10
3004344 TTTGATTCAA
3004354 TTTCTTTT-T
1 TTTCTTTTCT
3004363 TCTT-TTTTCT
1 T-TTCTTTTCT
*
3004373 TTATCTTTTTT
1 TT-TCTTTTCT
3004384 TTTC-TTTCT
1 TTTCTTTTCT
*
3004393 TTT-TTCCTTAT
1 TTTCTT--TTCT
* *
3004404 TTTCTCTTAT
1 TTTCTTTTCT
3004414 TTTCTTTTCT
1 TTTCTTTTCT
3004424 TTT-TTTTCT
1 TTTCTTTTCT
3004433 CTGATAGATG
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
9 20 0.36
10 22 0.39
11 13 0.23
12 1 0.02
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTCTTTTCT
Found at i:3011637 original size:12 final size:12
Alignment explanation
Indices: 3011615--3011647 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
3011605 TCCATTCATT
3011615 ATTTATCATTTCC
1 ATTT-TCATTTCC
3011628 ATTTTCATTTCC
1 ATTTTCATTTCC
3011640 ATTTTCAT
1 ATTTTCAT
3011648 ATTCATATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTTTCATTTCC
Found at i:3011652 original size:18 final size:19
Alignment explanation
Indices: 3011621--3011658 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
3011611 CATTATTTAT
*
3011621 CATTTCCATTTTCAT-TTC
1 CATTTCCATATTCATATTC
*
3011639 CATTTTCATATTCATATTC
1 CATTTCCATATTCATATTC
3011658 C
1 C
3011659 TTGTTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.53
Consensus pattern (19 bp):
CATTTCCATATTCATATTC
Found at i:3012447 original size:3 final size:3
Alignment explanation
Indices: 3012434--3012475 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
3012424 GGCTAAAAAA
* *
3012434 TAT TA- TAT TAT TAT TAT TGT TAT TAT TAT CAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
3012476 TATATTACAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:3016795 original size:14 final size:15
Alignment explanation
Indices: 3016776--3016804 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3016766 TTTACACCCA
3016776 AAAATATTTA-AAAT
1 AAAATATTTATAAAT
3016790 AAAATATTTATAAAT
1 AAAATATTTATAAAT
3016805 TTAAATTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAATATTTATAAAT
Found at i:3020105 original size:21 final size:18
Alignment explanation
Indices: 3020079--3020130 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
3020069 ATTATGTAAA
3020079 TATTAAAAAGTATAATAATT
1 TATTAAAAA-T-TAATAATT
*
3020099 TATTTAAAATTAATAATT
1 TATTAAAAATTAATAATT
*
3020117 TATTAAAATTTAAT
1 TATTAAAAATTAAT
3020131 TTTAATAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 20 0.69
19 1 0.03
20 8 0.28
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TATTAAAAATTAATAATT
Found at i:3020130 original size:15 final size:17
Alignment explanation
Indices: 3020093--3020132 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
3020083 AAAAAGTATA
3020093 ATAATTTATTTAAAATT
1 ATAATTTATTTAAAATT
3020110 AATAATTTA-TTAAAATT
1 -ATAATTTATTTAAAATT
3020127 -TAATTT
1 ATAATTT
3020133 TAATAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.27
17 8 0.36
18 8 0.36
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATAATTTATTTAAAATT
Found at i:3020881 original size:17 final size:18
Alignment explanation
Indices: 3020846--3020882 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
3020836 CATGAATAAA
3020846 TAAGCATGCTACCTCGTT
1 TAAGCATGCTACCTCGTT
*
3020864 TAAGCATG-TACTTCGTT
1 TAAGCATGCTACCTCGTT
3020881 TA
1 TA
3020883 GCCTTTAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (18 bp):
TAAGCATGCTACCTCGTT
Found at i:3021008 original size:17 final size:17
Alignment explanation
Indices: 3020943--3021017 Score: 71
Period size: 17 Copynumber: 4.4 Consensus size: 17
3020933 AGTATGCTAA
3020943 TTCATTCAA-TAAAGCTAG
1 TTCATT-AATTAAA-CTAG
* *
3020961 TTCACTAATTAAACTAC
1 TTCATTAATTAAACTAG
* *
3020978 TTTATTCATTAAACTAG
1 TTCATTAATTAAACTAG
*
3020995 TTCATTAATCAAACTAG
1 TTCATTAATTAAACTAG
*
3021012 CTCATT
1 TTCATT
3021018 TAATGTTAGC
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
17 37 0.80
18 9 0.20
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.39
Consensus pattern (17 bp):
TTCATTAATTAAACTAG
Found at i:3035294 original size:225 final size:220
Alignment explanation
Indices: 3034897--3035507 Score: 685
Period size: 225 Copynumber: 2.8 Consensus size: 220
3034887 ATTTGAGATT
** *** *
3034897 TTTGAAAAGTAAGAAAGGTTACTTACATGGTAAATTATTTCTTAAATCGGTAAGTCCTTTAGGCC
1 TTTGAAAAGTAAGAAAGGTT-CTTAC-T-GTAAA-TATTTCCAAAATTTATAAGTCCTTCAGGCC
* *
3034962 ATCAGTAAGTCTTTCGAGCATGATGCTTAAACCCTTTGGGTCATCTGTAAGCCTTTCAAGAAAGA
62 ATCAGTAAGTCTTTCGAGCATGATGCTTAAACCCTTTGGGTCATCTGTAAGCCTTTCGAGCAAGA
* **
3035027 TGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGATAGGATGTTTTCACATGTCTATTGAAAAA
127 TGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGTAGGATGTTTTCACATGAAT-TTGAAAAA
* *
3035092 AGAGAAAG-AT-TTCTCATTAAAATCTGAAGA
191 AGAGAAAGCATGTTCTCA-GAAAAT-GGAAGA
3035122 TTTGAAAAGTAAGAAAGGTTTCTTACTCAGTAAACTATTTCCAAAATTTATAAGTCCTTCAGGCC
1 TTTGAAAAGTAAGAAAGG-TTCTTACT--GTAAA-TATTTCCAAAATTTATAAGTCCTTCAGGCC
* * *
3035187 ATCAGTAAGTCATTCGAGCATGATTCTTAAACCCTTTGGGTCATCTGTAAGTCTTTCGAGCAAGA
62 ATCAGTAAGTCTTTCGAGCATGATGCTTAAACCCTTTGGGTCATCTGTAAGCCTTTCGAGCAAGA
* * * * *
3035252 TGATAAGTCATTCGGGCCATCTATAAGACCTTCGGGTAGGATGTTTTCATATGAATTTGAAAAAT
127 TGATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGTAGGATGTTTTCACATGAATTTGAAAAAA
* ***
3035317 GAGAAAGCCATGTTTTCAGAAAATGGATTT
192 GAGAAAG-CATGTTCTCAGAAAATGGAAGA
*
3035347 TTTGAAAAGTAAGAAA-G-------TG-----ATTTCCAAAATTTATAAGTCCTTCGGGCCATCA
1 TTTGAAAAGTAAGAAAGGTTCTTACTGTAAATATTTCCAAAATTTATAAGTCCTTCAGGCCATCA
* * * * * *
3035399 GTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGCCTTTTGAGCAAAAATAA
66 GTAAGTCTTTCGAGCATGATGCTTAAACCCTTTGGGTCATCTGTAAGCCTTTCGAGC-AAGATGA
* * *
3035464 TAAGTCCTTTGGGCCATCCATTAGACCTTTGGGTAGGATTTTTT
130 TAAGTCCTTCGGGCCATCCATAAGACCTTTGGGTAGGATGTTTT
3035508 TTGAGCAAGA
Statistics
Matches: 337, Mismatches: 43, Indels: 28
0.83 0.11 0.07
Matches are distributed among these distances:
208 82 0.24
209 43 0.13
214 1 0.00
216 1 0.00
224 17 0.05
225 179 0.53
226 9 0.03
227 5 0.01
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (220 bp):
TTTGAAAAGTAAGAAAGGTTCTTACTGTAAATATTTCCAAAATTTATAAGTCCTTCAGGCCATCA
GTAAGTCTTTCGAGCATGATGCTTAAACCCTTTGGGTCATCTGTAAGCCTTTCGAGCAAGATGAT
AAGTCCTTCGGGCCATCCATAAGACCTTTGGGTAGGATGTTTTCACATGAATTTGAAAAAAGAGA
AAGCATGTTCTCAGAAAATGGAAGA
Found at i:3035472 original size:42 final size:42
Alignment explanation
Indices: 3035379--3035481 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 42
3035369 TCCAAAATTT
* **
3035379 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGA
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGCAAAATGA
* * * * *
3035421 TTAAATCCTTCGGGTCATCTGTAAGCCTTTTGAGCAAAAAT-A
1 ATAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGC-AAAATGA
*
3035463 ATAAGTCCTTTGGGCCATC
1 ATAAGTCCTTCGGGCCATC
3035482 CATTAGACCT
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
42 45 0.94
43 3 0.06
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (42 bp):
ATAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGCAAAATGA
Found at i:3035620 original size:36 final size:36
Alignment explanation
Indices: 3035536--3035716 Score: 272
Period size: 36 Copynumber: 5.0 Consensus size: 36
3035526 CCTTCGGGCC
* *
3035536 ATCTTTAGCCTTCACCGAAGAGTAGTGAAGCAAATCC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAG-AAATCA
*
3035573 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGTAATCA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGAAATCA
3035609 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGAAATCA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGAAATCA
* *
3035645 ATCTTAAGCCTTCACCGAAGAGTAATGAAGCAATCA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGAAATCA
* * *
3035681 ATCTTAAGTCTTCACGGAAGAGTAATGAAGCAAATC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAG-AAATC
3035717 CATCAGTAAG
Statistics
Matches: 134, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
36 101 0.75
37 33 0.25
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (36 bp):
ATCTTAAGCCTTCACCGAAGAGTAGTGAAGAAATCA
Found at i:3035782 original size:42 final size:42
Alignment explanation
Indices: 3035736--3035841 Score: 140
Period size: 42 Copynumber: 2.5 Consensus size: 42
3035726 GTGCCATCAA
*
3035736 TAAGTCTTTCAAGCATGATGATGAAATCCTTTAGGCCATTAG
1 TAAGTCTTTCGAGCATGATGATGAAATCCTTTAGGCCATTAG
* * ** *
3035778 TAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGTTATTTG
1 TAAGTCTTTCGAGCATGATGATGAAATCCTTTAGGCCATTAG
* *
3035820 TAAGTTTTTCGAGCAAGATGAT
1 TAAGTCTTTCGAGCATGATGAT
3035842 AAGTCTTTCG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (42 bp):
TAAGTCTTTCGAGCATGATGATGAAATCCTTTAGGCCATTAG
Found at i:3036647 original size:25 final size:25
Alignment explanation
Indices: 3036617--3036664 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
3036607 TAGAAATAAG
3036617 TGAGGCCCAATTTACAAGACCCAAC
1 TGAGGCCCAATTTACAAGACCCAAC
3036642 TGAGGCCCAATTTACAAGACCCA
1 TGAGGCCCAATTTACAAGACCCA
3036665 TTACAAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.17, T:0.17
Consensus pattern (25 bp):
TGAGGCCCAATTTACAAGACCCAAC
Found at i:3038616 original size:55 final size:55
Alignment explanation
Indices: 3038476--3038620 Score: 211
Period size: 55 Copynumber: 2.6 Consensus size: 55
3038466 CTCGAAGCCA
*** * * *
3038476 GGGGTGTATCGATACATCAGCCAGTGTATCAGTAAACAAAATGCATTCAATGTTG
1 GGGGTGTATCGATACATCAAAGAGTGTATCGGTACACAAAATGCATTCAATGTTC
*
3038531 GGGGTGTATCGA-ATCATCAAAGAGTGTATCGGTACACAAAATGCATTCGATGTTC
1 GGGGTGTATCGATA-CATCAAAGAGTGTATCGGTACACAAAATGCATTCAATGTTC
3038586 GGGGTGTATCGATACATCAAAGAGTGTATCGGTAC
1 GGGGTGTATCGATACATCAAAGAGTGTATCGGTAC
3038621 CTCCCTTTGT
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
54 1 0.01
55 79 0.98
56 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (55 bp):
GGGGTGTATCGATACATCAAAGAGTGTATCGGTACACAAAATGCATTCAATGTTC
Found at i:3040697 original size:14 final size:14
Alignment explanation
Indices: 3040678--3040712 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
3040668 ATAGGCAAAT
*
3040678 TTTGAAAAACTATG
1 TTTGAAAAACGATG
3040692 TTTG-AAAACGATG
1 TTTGAAAAACGATG
3040705 TTTGAAAA
1 TTTGAAAA
3040713 TCAATATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (14 bp):
TTTGAAAAACGATG
Found at i:3040772 original size:21 final size:19
Alignment explanation
Indices: 3040743--3040781 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
3040733 TAACGTAATT
3040743 AAATAAAAAACAACAATTTTA
1 AAAT-AAAAACAA-AATTTTA
*
3040764 AAATCAAAACAAAATTTT
1 AAATAAAAACAAAATTTT
3040782 GTTTATTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATAAAAACAAAATTTTA
Found at i:3054627 original size:72 final size:72
Alignment explanation
Indices: 3054547--3054777 Score: 218
Period size: 72 Copynumber: 3.2 Consensus size: 72
3054537 CTCGGAGGGA
*
3054547 ACCGATTCCCCCTGTTCAACGGTCGAAATATTTGAATTTTACACTTAGAGAACCGATTCCCTATG
1 ACCGATTCCCCCTGTTCAACGGTCGAAATATTTGAATTTTACACTTAGGGAACCGATTCCCTATG
3054612 AGGGGGT
66 AGGGGGT
***** * ** * * **
3054619 ACCGATTCCCCCCTGAATGGTTTGGCTCTGAGATATCCAGAA---TGCTCGGAGGGAACCGATTC
1 ACCGATT-CCCCCTG--TTCAACGG-TC-GAAATAT-TTGAATTTTACACTTAGGGAACCGATT-
*
3054681 CCCCAT-AGGGGGT
59 CCCTATGAGGGGGT
* *
3054694 ACTGATTCCCCCTATTCAACGGTCGAAATATTTGAATTTTACACTTAGGGAACCGATTCCCTATG
1 ACCGATTCCCCCTGTTCAACGGTCGAAATATTTGAATTTTACACTTAGGGAACCGATTCCCTATG
*
3054759 AGGGGGA
66 AGGGGGT
3054766 ACCGATTCCCCC
1 ACCGATTCCCCC
3054778 CACGCTCCAA
Statistics
Matches: 117, Mismatches: 31, Indels: 22
0.69 0.18 0.13
Matches are distributed among these distances:
69 3 0.03
70 6 0.05
71 7 0.06
72 42 0.36
73 7 0.06
74 6 0.05
75 30 0.26
76 7 0.06
77 6 0.05
78 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (72 bp):
ACCGATTCCCCCTGTTCAACGGTCGAAATATTTGAATTTTACACTTAGGGAACCGATTCCCTATG
AGGGGGT
Found at i:3055905 original size:36 final size:36
Alignment explanation
Indices: 3055821--3055979 Score: 230
Period size: 36 Copynumber: 4.4 Consensus size: 36
3055811 CCTTCGGGCC
* *
3055821 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGC-AATCA
*
3055858 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGTAATCA
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAATCA
3055894 ATCTTAAGCCTTCACCA-AAGAGTAGTGAAGCAATCA
1 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAGCAATCA
* * *
3055930 ATCTTAAGCCTTCACCGAAGAGTAATAAAGCAATCA
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAATCA
*
3055966 ATCTTAAGTCTTCA
1 ATCTTAAGCCTTCA
3055980 TGAAATAGTA
Statistics
Matches: 112, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
35 1 0.01
36 80 0.71
37 31 0.28
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (36 bp):
ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAATCA
Found at i:3055969 original size:72 final size:72
Alignment explanation
Indices: 3055821--3055998 Score: 248
Period size: 72 Copynumber: 2.5 Consensus size: 72
3055811 CCTTCGGGCC
* * * *
3055821 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCTTAAGCCTTCACAGAAGAGTAGTGA
1 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGC-AATCAATCTTAAGCCTTCACAGAAGAGTAATAA
*
3055886 AGTAATCA
65 AGCAATCA
*
3055894 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAATCAATCTTAAGCCTTCACCGAAGAGTAATAAA
1 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAATCAATCTTAAGCCTTCACAGAAGAGTAATAAA
3055959 GCAATCA
66 GCAATCA
* ** * *
3055966 ATCTTAAGTCTTCATGAAATAGTAATGAAGCAA
1 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAA
3055999 ACCCATCTGT
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
72 64 0.68
73 30 0.32
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (72 bp):
ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAATCAATCTTAAGCCTTCACAGAAGAGTAATAAA
GCAATCA
Found at i:3055990 original size:36 final size:36
Alignment explanation
Indices: 3055821--3055998 Score: 209
Period size: 36 Copynumber: 4.9 Consensus size: 36
3055811 CCTTCGGGCC
* *
3055821 ATCTTAAGCCTTCACCG-AAGAGTAGTGAAGCAAATCC
1 ATCTTAAGCCTTCA-CGAAAGAGTAATGAAGC-AATCA
* *
3055858 ATCTTAAGCCTTCAC-AGAAGAGTAGTGAAGTAATCA
1 ATCTTAAGCCTTCACGA-AAGAGTAATGAAGCAATCA
* *
3055894 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAATCA
1 ATCTTAAGCCTTCACGAAAGAGTAATGAAGCAATCA
*
3055930 ATCTTAAGCCTTCACCG-AAGAGTAATAAAGCAATCA
1 ATCTTAAGCCTTCA-CGAAAGAGTAATGAAGCAATCA
* * *
3055966 ATCTTAAGTCTTCATGAAATAGTAATGAAGCAA
1 ATCTTAAGCCTTCACGAAAGAGTAATGAAGCAA
3055999 ACCCATCTGT
Statistics
Matches: 126, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
35 1 0.01
36 96 0.76
37 29 0.23
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (36 bp):
ATCTTAAGCCTTCACGAAAGAGTAATGAAGCAATCA
Found at i:3056063 original size:42 final size:41
Alignment explanation
Indices: 3056015--3056149 Score: 155
Period size: 42 Copynumber: 3.2 Consensus size: 41
3056005 CTGTAAGTGC
*
3056015 CATCAATAAGTCTTTCAAGCATGATGATGAAATCCTTCGGG-
1 CATCAATAAGTCTTTCGAGCATGATGAT-AAATCCTTCGGGT
*
3056056 CTATCAATAAGTCTTTCGAGCATGATGATTAAATCCTTTGGGT
1 C-ATCAATAAGTCTTTCGAGCATGATGA-TAAATCCTTCGGGT
*** * * *
3056099 CATTTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGAGT
1 CATCAATAAGTCTTTCGAGCATGATGATAAATCCTTCGGGT
*
3056140 CATCCATAAG
1 CATCAATAAG
3056150 ACCTTCAGGT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
41 19 0.24
42 58 0.73
43 2 0.03
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (41 bp):
CATCAATAAGTCTTTCGAGCATGATGATAAATCCTTCGGGT
Found at i:3058827 original size:55 final size:54
Alignment explanation
Indices: 3058731--3058875 Score: 209
Period size: 55 Copynumber: 2.6 Consensus size: 54
3058721 CTTGGAGCTA
* * * * * *
3058731 GGGGTGTATCGATACATCAACCAGTGAATCAGTAAATAAAATGCATTCGATGTTG
1 GGGGTGTATCGATACATCAA-GAGTGTATCGGTACACAAAATGCATTCGATGTTC
3058786 GGGGTGTATCGATACATCACAGAGTGTATCGGTACACAAAATGCATTCGATGTTC
1 GGGGTGTATCGATACATCA-AGAGTGTATCGGTACACAAAATGCATTCGATGTTC
3058841 GGGGTGTATCGATACATCAAAGAGTGTATCGGTAC
1 GGGGTGTATCGATACATC-AAGAGTGTATCGGTAC
3058876 CTCCCTTCGT
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
55 80 0.98
56 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (54 bp):
GGGGTGTATCGATACATCAAGAGTGTATCGGTACACAAAATGCATTCGATGTTC
Found at i:3061436 original size:20 final size:20
Alignment explanation
Indices: 3061411--3061466 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
3061401 AAAACCCAAC
3061411 GAGTGTATCGGTACACTGCA
1 GAGTGTATCGGTACACTGCA
3061431 GAGTGTATCGGTACACTGCA
1 GAGTGTATCGGTACACTGCA
*
3061451 GAGTGTATCGATACAC
1 GAGTGTATCGGTACAC
3061467 ATTCAAGGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (20 bp):
GAGTGTATCGGTACACTGCA
Found at i:3065330 original size:9 final size:9
Alignment explanation
Indices: 3065292--3065357 Score: 51
Period size: 9 Copynumber: 7.0 Consensus size: 9
3065282 GCTGGAAACT
3065292 GGTTTGACC
1 GGTTTGACC
3065301 GGTTTCGACC
1 GGTTT-GACC
* *
3065311 GATTCGAACC
1 GGTTTG-ACC
3065321 GGTTTGACC
1 GGTTTGACC
*
3065330 GGTCTGAACC
1 GGTTTG-ACC
* *
3065340 GTTTTAACC
1 GGTTTGACC
*
3065349 GGTCTGACC
1 GGTTTGACC
3065358 CAACCCGACT
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
9 23 0.53
10 20 0.47
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (9 bp):
GGTTTGACC
Found at i:3065338 original size:19 final size:19
Alignment explanation
Indices: 3065298--3065355 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
3065288 AACTGGTTTG
*
3065298 ACCGGTTTCGACCGAT-TCGA
1 ACCGGTTT-GACCGGTCT-GA
3065318 ACCGGTTTGACCGGTCTGA
1 ACCGGTTTGACCGGTCTGA
* *
3065337 ACCGTTTTAACCGGTCTGA
1 ACCGGTTTGACCGGTCTGA
3065356 CCCAACCCGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 25 0.74
20 9 0.26
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.28
Consensus pattern (19 bp):
ACCGGTTTGACCGGTCTGA
Found at i:3065340 original size:29 final size:28
Alignment explanation
Indices: 3065292--3065357 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
3065282 GCTGGAAACT
*
3065292 GGTTTGACCGGTTTCGACCGATTCGAACC
1 GGTTTGACCGGTCTCGACCG-TTCGAACC
**
3065321 GGTTTGACCGGTCT-GAACCGTTTTAACC
1 GGTTTGACCGGTCTCG-ACCGTTCGAACC
*
3065349 GGTCTGACC
1 GGTTTGACC
3065358 CAACCCGACT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 15 0.47
29 17 0.53
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (28 bp):
GGTTTGACCGGTCTCGACCGTTCGAACC
Found at i:3065374 original size:9 final size:9
Alignment explanation
Indices: 3065360--3065389 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
3065350 GTCTGACCCA
3065360 ACCCGACTG
1 ACCCGACTG
3065369 ACCCGACTG
1 ACCCGACTG
*
3065378 ACCCGAATG
1 ACCCGACTG
3065387 ACC
1 ACC
3065390 TGACCCTACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.27, C:0.43, G:0.20, T:0.10
Consensus pattern (9 bp):
ACCCGACTG
Found at i:3072458 original size:10 final size:9
Alignment explanation
Indices: 3072423--3072521 Score: 81
Period size: 10 Copynumber: 10.3 Consensus size: 9
3072413 AGGGCTGGAA
3072423 ACCGGTTTG
1 ACCGGTTTG
*
3072432 ACCGGTTTTCA
1 ACCGG-TTT-G
3072443 ACCGGTTCTG
1 ACCGGTT-TG
3072453 ACCGGTTTG
1 ACCGGTTTG
3072462 ACCGGTTTCG
1 ACCGGTTT-G
* *
3072472 ACCGATTCG
1 ACCGGTTTG
**
3072481 AACCAATTTG
1 -ACCGGTTTG
*
3072491 ACCGGTCTG
1 ACCGGTTTG
3072500 AACCGGTTTG
1 -ACCGGTTTG
*
3072510 ACCGGTCTG
1 ACCGGTTTG
3072519 ACC
1 ACC
3072522 CGACCCAACT
Statistics
Matches: 73, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
9 33 0.45
10 34 0.47
11 6 0.08
ACGTcount: A:0.17, C:0.28, G:0.26, T:0.28
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:3072467 original size:19 final size:19
Alignment explanation
Indices: 3072423--3072521 Score: 80
Period size: 19 Copynumber: 5.2 Consensus size: 19
3072413 AGGGCTGGAA
* *
3072423 ACCGGTTTGACCGGTTTTCA
1 ACCGGTTTGACCGGTTCT-G
3072443 ACCGGTTCTGACCGGTT-TG
1 ACCGGTT-TGACCGGTTCTG
*
3072462 ACCGGTTTCGACCGATTC-G
1 ACCGGTTT-GACCGGTTCTG
**
3072481 AACCAATTTGACCGG-TCTG
1 -ACCGGTTTGACCGGTTCTG
3072500 AACCGGTTTGACCGG-TCTG
1 -ACCGGTTTGACCGGTTCTG
3072519 ACC
1 ACC
3072522 CGACCCAACT
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
18 6 0.09
19 38 0.57
20 14 0.21
21 9 0.13
ACGTcount: A:0.17, C:0.28, G:0.26, T:0.28
Consensus pattern (19 bp):
ACCGGTTTGACCGGTTCTG
Found at i:3079533 original size:20 final size:20
Alignment explanation
Indices: 3079508--3079564 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
3079498 GGGAGCTTGG
3079508 GTGTATCGGTACACTCTCTA
1 GTGTATCGGTACACTCTCTA
3079528 GTGTATCGGTACACTCTCTA
1 GTGTATCGGTACACTCTCTA
3079548 GTGTATCGGTACACTCT
1 GTGTATCGGTACACTCT
3079565 GTGTAAAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (20 bp):
GTGTATCGGTACACTCTCTA
Found at i:3079799 original size:55 final size:54
Alignment explanation
Indices: 3079664--3079805 Score: 196
Period size: 54 Copynumber: 2.6 Consensus size: 54
3079654 TCGGAGCCAA
*** *
3079664 GGGTGTATCGATACATCAGCCAGTGTATCA-GTACACAAAATGCATTCGATGTTG
1 GGGTGTATCGATACATCAAAGAGTGTAT-AGGTAAACAAAATGCATTCGATGTTG
* *
3079718 GGGCGTATCGATACATCAATGAGTGTATAGGTAAACAAAATGCATTCGATGTTCG
1 GGGTGTATCGATACATCAAAGAGTGTATAGGTAAACAAAATGCATTCGATGTT-G
*
3079773 GGGTGTATCGATACATCAAAGAGTGTATCGGTA
1 GGGTGTATCGATACATCAAAGAGTGTATAGGTA
3079806 CCTCCCTTTA
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
53 1 0.01
54 46 0.59
55 31 0.40
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.27
Consensus pattern (54 bp):
GGGTGTATCGATACATCAAAGAGTGTATAGGTAAACAAAATGCATTCGATGTTG
Found at i:3080097 original size:19 final size:18
Alignment explanation
Indices: 3080073--3080108 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3080063 TTAGTCATTA
3080073 TTTTAATATGTATAGTTTT
1 TTTTAAT-TGTATAGTTTT
*
3080092 TTTTAATTTTATAGTTT
1 TTTTAATTGTATAGTTT
3080109 GGTATGCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (18 bp):
TTTTAATTGTATAGTTTT
Found at i:3085457 original size:20 final size:20
Alignment explanation
Indices: 3085432--3085472 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
3085422 AAAATTTTTA
*
3085432 ATTTTT-AATAGTAAAATATT
1 ATTTTTAAAAAGTAAAA-ATT
3085452 ATTTTTAAAAAGTAAAAATT
1 ATTTTTAAAAAGTAAAAATT
3085472 A
1 A
3085473 AAAATCAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
ATTTTTAAAAAGTAAAAATT
Found at i:3087633 original size:81 final size:81
Alignment explanation
Indices: 3087485--3087637 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 81
3087475 TATCAAGCAT
* * * **
3087485 TTAAACTTTTACCCAAAGGCATATAGCCTTTCATCCAACTTGCATGATCGACACCTTCCTGTTAA
1 TTAAACTTTTACCCAAAGGCATATAACCTTTCATCCAACTGGCATAATCGACACCTTCCTGCAAA
3087550 ATGCACAACTAGGCCA
66 ATGCACAACTAGGCCA
* * * * * * *
3087566 TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCAAA
1 TTAAACTTTTACCCAAAGGCATATAACCTTTCATCCAACTGGCATAATCGACACCTTCCTGCAAA
3087631 ATGCACA
66 ATGCACA
3087638 GCTTAATTAT
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 60 1.00
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.32
Consensus pattern (81 bp):
TTAAACTTTTACCCAAAGGCATATAACCTTTCATCCAACTGGCATAATCGACACCTTCCTGCAAA
ATGCACAACTAGGCCA
Found at i:3087930 original size:55 final size:55
Alignment explanation
Indices: 3087813--3087967 Score: 197
Period size: 55 Copynumber: 2.8 Consensus size: 55
3087803 GTAGTGCCTA
* * * * * * *
3087813 TACAG-TAGTTCATCAACTCATTATTAATTCTGTGG-GTTGCACACATCCTGTATG
1 TACAGTTA-TTCATCAACTAATGATGAATTCCGTGGATTTGCACACATCATGCATG
* *
3087867 TACAGTTATTCATTAACTAATGATGAATTCCGTGGATTTTCACACATCATGCATG
1 TACAGTTATTCATCAACTAATGATGAATTCCGTGGATTTGCACACATCATGCATG
*
3087922 TACGGTTATTCATCAACTAATGATGAATTCCGTGGATTTGCACACA
1 TACAGTTATTCATCAACTAATGATGAATTCCGTGGATTTGCACACA
3087968 AAGTGTCGAA
Statistics
Matches: 87, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
54 27 0.31
55 60 0.69
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (55 bp):
TACAGTTATTCATCAACTAATGATGAATTCCGTGGATTTGCACACATCATGCATG
Found at i:3088041 original size:54 final size:54
Alignment explanation
Indices: 3087923--3088783 Score: 1197
Period size: 54 Copynumber: 15.9 Consensus size: 54
3087913 TCATGCATGT
* ** *
3087923 ACGGTTATTCATCAAC-TAATGATGAATTCCGTGGATTTGCACACAAAGTGTCGAA
1 ACGGTTATTCATCAACAT-ATGATGAATTCCGT-GAATTGCACACTTAGTGCCGAA
** * *
3087978 ACGGTTATTCATCAACATATGATGAATTATGTGAATTGCACACTTAGTGGCAAA
1 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAA
* *
3088032 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCTCA-TCTAGTGTCGAA
1 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACT-TAGTGCCGAA
* * **
3088086 ACGGTTATTCATTAACATATGATGAATTCCGTGAATTGAACACTTAGTGTTGAA
1 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAA
* * * * *
3088140 ATGATTATTCATCAACATATGATGAATTCTGTAAATTGCACACTTAGTGCTGAA
1 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAA
* *
3088194 ACGGTTATTCATCAACATGTGATGAATTCCGTAAATTGCACACTTAGTGCCGAA
1 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAA
* ** * * *
3088248 ATGACTATTCATCAACCTATGATGAATTTCATGAATTGCACACTTAGTGCCGAA
1 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAA
** * * * *
3088302 ACATTTATTCATCAACATATGATGAAATCCGTAAATTGCACATTTAGTTCCGAA
1 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAA
*
3088356 ACTGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAA
1 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAA
* ** *
3088410 ACAGTTATTCATCAACATATGATGAATTCCGTGAATTGTTCACATAGTGCCGAA
1 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAA
*
3088464 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCAAA
1 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAA
* * * *
3088518 ATGTTTATTCATTAACATATGATGAATTCCATGAATTGCACACTTAGTGCCGAA
1 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAA
** * *
3088572 ACTATTATTCATCAACATATGATGAATTCC-AGAATTGTACACTTAGTGCCGAA
1 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAA
* *
3088625 ACGGTTATTCATTAACATATGATGAATTCCTTGAATTGCACACTTAGTGCCGAA
1 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAA
* *
3088679 ACGGTTATTCATCAGCATATGATGAATTCCGTGAATTGCACACTTAGTGCTGAA
1 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAA
* *
3088733 ACGGTTATTCATCAACATATGATGAATTTCGTGAATTGCACAATTAGTGCC
1 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCC
3088784 TATTTTATAA
Statistics
Matches: 716, Mismatches: 86, Indels: 9
0.88 0.11 0.01
Matches are distributed among these distances:
53 49 0.07
54 637 0.89
55 29 0.04
56 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (54 bp):
ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAA
Found at i:3088758 original size:26 final size:26
Alignment explanation
Indices: 3088676--3088758 Score: 62
Period size: 26 Copynumber: 3.1 Consensus size: 26
3088666 ACTTAGTGCC
*
3088676 GAAACGGTTATTCATCAGCATATGAT
1 GAAACGGTTATTCATCAACATATGAT
* * * * *
3088702 GAATTCCGTGAATTGCA-C-ACTTAGTGCT
1 GAA-ACGGT-TATT-CATCAACATA-TGAT
3088730 GAAACGGTTATTCATCAACATATGAT
1 GAAACGGTTATTCATCAACATATGAT
3088756 GAA
1 GAA
3088759 TTTCGTGAAT
Statistics
Matches: 40, Mismatches: 11, Indels: 12
0.63 0.17 0.19
Matches are distributed among these distances:
25 2 0.05
26 13 0.32
27 13 0.32
28 10 0.25
29 2 0.05
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (26 bp):
GAAACGGTTATTCATCAACATATGAT
Found at i:3093975 original size:55 final size:55
Alignment explanation
Indices: 3093878--3094024 Score: 206
Period size: 55 Copynumber: 2.7 Consensus size: 55
3093868 TATACGGTAG
* * * *
3093878 TTCATCAACTCATGATTAATTTTGTGG-GTTGCACACATCGTGCATGTACGATTA
1 TTCATCAACTAATGATGAATTCTGTGGATTTGCACACATCGTGCATGTACGATTA
* * *
3093932 TTCATCAACTAATGATGAATTCTATGGATTTGCACACATCGTGCCTGTACGGTTA
1 TTCATCAACTAATGATGAATTCTGTGGATTTGCACACATCGTGCATGTACGATTA
* *
3093987 TTCATCAACTAAAGATGAATTCCGTGGATTTGCACACA
1 TTCATCAACTAATGATGAATTCTGTGGATTTGCACACA
3094025 AAGTGTCAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
54 23 0.28
55 59 0.72
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (55 bp):
TTCATCAACTAATGATGAATTCTGTGGATTTGCACACATCGTGCATGTACGATTA
Found at i:3094110 original size:54 final size:54
Alignment explanation
Indices: 3093929--3094841 Score: 965
Period size: 54 Copynumber: 16.9 Consensus size: 54
3093919 GCATGTACGA
* * * * *
3093929 TTATTCATCAAC-TAATGATGAATTCTATGGATTTGCACACATCGTGCCTG-TACGG
1 TTATTCATCAACAT-ATGATGAATTCTGT-GAATTGCACACTTAGTGCC-GAAACGG
* * * ** * * *
3093984 TTATTCATCAAC-TAAAGATGAATTCCGTGGATTTGCACACAAAGTGTCAAAACAG
1 TTATTCATCAACAT-ATGATGAATTCTGT-GAATTGCACACTTAGTGCCGAAACGG
* * *
3094039 TTATTCATCAACATATGATGAATTATGTTAATTGAACACTTAGTGCCGAAACGG
1 TTATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGAAACGG
* * * * * **
3094093 TTACTCATCAACTTATGATGAATTCTATGAATTTCACACTTATTGCCGAAACAA
1 TTATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGAAACGG
* * *
3094147 TTATTCATCAACATATGATAAATTCCT-TGAATTGGACACTTAGTGCCGAAAAGG
1 TTATTCATCAACATATGATGAATT-CTGTGAATTGCACACTTAGTGCCGAAACGG
* * *
3094201 TTATTCATCAACATATGATGAATTCCGTGAATTGCATACTTAGTGTCGAAACGG
1 TTATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGAAACGG
** **
3094255 TTATTCATCAACATATGATGAATTCCATGAATTGCACACTTAGTGCCGAAATAG
1 TTATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGAAACGG
* * ** * * * *
3094309 TTATTCATTAACATATGATAAATTCCATGATTTGCATACTTCA-TGCCGAAATGA
1 TTATTCATCAACATATGATGAATTCTGTGAATTGCACACTT-AGTGCCGAAACGG
** * * * *
3094363 TTATTCATCAACATATGATGAATTCCATGAATTGCACACTTAGTGTCAAAATGA
1 TTATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGAAACGG
* * ** * * *
3094417 CTATTCACCAGTAGATGATGAATT-TCGTGAATTGCACAATTAGTGCCGAAATGG
1 TTATTCATCAACATATGATGAATTCT-GTGAATTGCACACTTAGTGCCGAAACGG
* * * * * *
3094471 TTATTCGTCAACATATGATGAATTCCGTAAATCGCACACGTACTGCCGAAACGG
1 TTATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGAAACGG
* *
3094525 TTATTCGTCAACATATGATGAATTATGTGAATTGCACACTTAGTGCCGAAACGG
1 TTATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGAAACGG
* * **
3094579 TTATTCATCAACATATGATGAATTATGTGAATTGCACACTTAGTGTCGAAATAG
1 TTATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGAAACGG
* * ** **
3094633 TTATTCATTAACATATGATGAATTCCGTGAATTGTGCACTTAGTGCCGAAACAA
1 TTATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGAAACGG
* ** * * *
3094687 TTATTCATTAACATATGATGAATTCCATAAATTTCACACTTAGTGTCGAAACGG
1 TTATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGAAACGG
* * *
3094741 TTATTCATCTACATATGATGAATTCCGTGAATTACACACTTAGTGCCGAAACGG
1 TTATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGAAACGG
* *
3094795 TTATTCATCAACATATGATGAATTCCGTGAATTGCAGACTTAGTGCC
1 TTATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCC
3094842 TATTTGATAA
Statistics
Matches: 729, Mismatches: 121, Indels: 17
0.84 0.14 0.02
Matches are distributed among these distances:
53 2 0.00
54 655 0.90
55 71 0.10
56 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33
Consensus pattern (54 bp):
TTATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTGCCGAAACGG
Found at i:3097447 original size:26 final size:25
Alignment explanation
Indices: 3097409--3097467 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
3097399 TTTTTCATAA
*
3097409 AAAAATAAAAGAAAAACAACAAAAAGG
1 AAAAA-AAAAGAAAAA-AACAAAAAAG
* * *
3097436 AAAAAAAGAGAAAAAACCAAAAAAT
1 AAAAAAAAAGAAAAAAACAAAAAAG
3097461 AAAAAAA
1 AAAAAAA
3097468 TTCTAGAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 14 0.50
26 9 0.32
27 5 0.18
ACGTcount: A:0.81, C:0.07, G:0.08, T:0.03
Consensus pattern (25 bp):
AAAAAAAAAGAAAAAAACAAAAAAG
Found at i:3099124 original size:21 final size:21
Alignment explanation
Indices: 3099100--3099147 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
3099090 TGTTTCAGAG
*
3099100 ATACTTACCAAGGTACTTCAT
1 ATACTTACCAAGGTAATTCAT
*
3099121 ATACATACCAAGGTAATTCAT
1 ATACTTACCAAGGTAATTCAT
*
3099142 CTACTT
1 ATACTT
3099148 CCACTCCTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.33
Consensus pattern (21 bp):
ATACTTACCAAGGTAATTCAT
Found at i:3101792 original size:20 final size:19
Alignment explanation
Indices: 3101758--3101805 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
3101748 GATTCAATTA
**
3101758 GTATCGATA-ATGAGGTGG
1 GTATCGATACATGAGGAAG
3101776 GTATCGATACTATGAGGAAG
1 GTATCGATAC-ATGAGGAAG
3101796 GTATCGATAC
1 GTATCGATAC
3101806 CATTGATTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 9 0.35
20 17 0.65
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.27
Consensus pattern (19 bp):
GTATCGATACATGAGGAAG
Found at i:3102322 original size:55 final size:55
Alignment explanation
Indices: 3102256--3102993 Score: 1084
Period size: 55 Copynumber: 13.4 Consensus size: 55
3102246 ATGGTGATTA
*
3102256 CCGTATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATTAATTT
1 CCGTATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
* *
3102311 CCGTATGGGCACTGTGTGTGCTAAAA-TAAGAAATTCAAAATAGGTTTATG-ATTT
1 CCGTATGGGCACTGTGTGTGC-AAAATTAAGAAATTCATAATAAGTTTATGAATTT
* * *
3102365 CCGTAAGGGCACTGTGTGTGCAAAATTAAGAAAATCGTAATAAGTTTATGAATTT
1 CCGTATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
* * *
3102420 TCGTAAGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTT
1 CCGTATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
**
3102475 CCGTATGGGCACAATGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
1 CCGTATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
*
3102530 CCGTATGGGCACTATGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
1 CCGTATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
* * * * *
3102585 TCATATGGGCACTGTGTGTGCAAAATAAAAAAATTCATAATAAGCTTATGAATTT
1 CCGTATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
* *
3102640 CCGTATGGGCATTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTT
1 CCGTATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
* * *
3102695 TCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTGATAATAAGTTTATGAATTT
1 CCGTATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
*
3102750 CCGTATGGGAACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
1 CCGTATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
* * *
3102805 CTGTATCGGCACTGTGTGTGCAGAATTAAGAAATTCATAATAAGTTTATGAATTT
1 CCGTATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
** * * * *
3102860 TTGTATAGGCACTGTGTTTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTT
1 CCGTATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
** * *
3102915 CTTTATGGGCATTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTT
1 CCGTATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
* * * * *
3102970 CTGTATTGGTAGTGGGTGTGCAAA
1 CCGTATGGGCACTGTGTGTGCAAA
3102994 TCACGTAAAT
Statistics
Matches: 621, Mismatches: 59, Indels: 6
0.91 0.09 0.01
Matches are distributed among these distances:
53 4 0.01
54 44 0.07
55 569 0.92
56 4 0.01
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (55 bp):
CCGTATGGGCACTGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTT
Found at i:3107090 original size:62 final size:62
Alignment explanation
Indices: 3106993--3107120 Score: 256
Period size: 62 Copynumber: 2.1 Consensus size: 62
3106983 GATTTAAAGA
3106993 GTCATATTGGTGGCCTAGTATGAAAAGAGTTGTATCAGAATTTTTTGTAAAATGTTTGACAT
1 GTCATATTGGTGGCCTAGTATGAAAAGAGTTGTATCAGAATTTTTTGTAAAATGTTTGACAT
3107055 GTCATATTGGTGGCCTAGTATGAAAAGAGTTGTATCAGAATTTTTTGTAAAATGTTTGACAT
1 GTCATATTGGTGGCCTAGTATGAAAAGAGTTGTATCAGAATTTTTTGTAAAATGTTTGACAT
3107117 GTCA
1 GTCA
3107121 ACAAGTGAAA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 66 1.00
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (62 bp):
GTCATATTGGTGGCCTAGTATGAAAAGAGTTGTATCAGAATTTTTTGTAAAATGTTTGACAT
Found at i:3108632 original size:27 final size:27
Alignment explanation
Indices: 3108594--3108657 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
3108584 ATTTAGGAAA
3108594 ATGAGTTTTTGAATGATATGTTAAGAT
1 ATGAGTTTTTGAATGATATGTTAAGAT
3108621 ATGAGTTTTTGAATGATATGTTAAGAT
1 ATGAGTTTTTGAATGATATGTTAAGAT
3108648 ATGAGTTTTT
1 ATGAGTTTTT
3108658 ATTAATGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (27 bp):
ATGAGTTTTTGAATGATATGTTAAGAT
Found at i:3109080 original size:5 final size:5
Alignment explanation
Indices: 3109070--3109095 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
3109060 TTAAGGTTTA
3109070 ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG A
3109096 AATAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:3111721 original size:2 final size:2
Alignment explanation
Indices: 3111708--3111741 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
3111698 CTGTTAACTT
3111708 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA T
3111742 TAAAATTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3116016 original size:2 final size:2
Alignment explanation
Indices: 3116009--3116068 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
3115999 GTTAAAGCTC
3116009 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3116051 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
3116069 TGAAAGGGGT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3118462 original size:15 final size:15
Alignment explanation
Indices: 3118444--3118485 Score: 84
Period size: 15 Copynumber: 2.8 Consensus size: 15
3118434 AGGAAAGTTA
3118444 GATGAGTTTAATAAG
1 GATGAGTTTAATAAG
3118459 GATGAGTTTAATAAG
1 GATGAGTTTAATAAG
3118474 GATGAGTTTAAT
1 GATGAGTTTAAT
3118486 GGTATTGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (15 bp):
GATGAGTTTAATAAG
Found at i:3118656 original size:21 final size:21
Alignment explanation
Indices: 3118632--3118684 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
3118622 GGATGAAAAA
3118632 TATCGATACTGATGCAATTAG
1 TATCGATACTGATGCAATTAG
*
3118653 TATCGAAACTGATGCAATTAG
1 TATCGATACTGATGCAATTAG
3118674 TATCGATACTG
1 TATCGATACTG
3118685 CTGTGGGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (21 bp):
TATCGATACTGATGCAATTAG
Found at i:3119097 original size:44 final size:44
Alignment explanation
Indices: 3119045--3119133 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
3119035 GTGAGGCATA
3119045 TCAGGTGAATGCATTTATTGTACTTCTATGAAATGAGGGAGACT
1 TCAGGTGAATGCATTTATTGTACTTCTATGAAATGAGGGAGACT
*
3119089 TCAGGTGAATGCATTTATTGTTCTTCTATGAAATGAGGGAGACT
1 TCAGGTGAATGCATTTATTGTACTTCTATGAAATGAGGGAGACT
3119133 T
1 T
3119134 GTGATGAGTC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (44 bp):
TCAGGTGAATGCATTTATTGTACTTCTATGAAATGAGGGAGACT
Found at i:3133159 original size:20 final size:21
Alignment explanation
Indices: 3133136--3133191 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
3133126 AACCCCTATG
3133136 AAAAAGGATCAATCCC-TCTA
1 AAAAAGGATCAATCCCTTCTA
* * *
3133156 AAAAAAGATCAACCCCTTTTA
1 AAAAAGGATCAATCCCTTCTA
*
3133177 AAAAAGGATCGATCC
1 AAAAAGGATCAATCC
3133192 TTTCGCTGTG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.46, C:0.23, G:0.11, T:0.20
Consensus pattern (21 bp):
AAAAAGGATCAATCCCTTCTA
Found at i:3133162 original size:21 final size:21
Alignment explanation
Indices: 3133136--3133191 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
3133126 AACCCCTATG
3133136 AAAAAGGATCAATCCCTCTAA
1 AAAAAGGATCAATCCCTCTAA
* * *
3133157 AAAAA-GATCAACCCCTTTTA
1 AAAAAGGATCAATCCCTCTAA
*
3133177 AAAAAGGATCGATCC
1 AAAAAGGATCAATCC
3133192 TTTCGCTGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.46, C:0.23, G:0.11, T:0.20
Consensus pattern (21 bp):
AAAAAGGATCAATCCCTCTAA
Found at i:3135504 original size:16 final size:18
Alignment explanation
Indices: 3135477--3135509 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3135467 ATTATATTGG
3135477 TTTTACGCGATT-AAATA
1 TTTTACGCGATTGAAATA
3135494 TTTTA-GCGATTGAAAT
1 TTTTACGCGATTGAAAT
3135510 TGAAATTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.42
Consensus pattern (18 bp):
TTTTACGCGATTGAAATA
Found at i:3136634 original size:18 final size:17
Alignment explanation
Indices: 3136580--3136628 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
3136570 TTGGATCCTT
* *
3136580 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
3136598 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
3136616 AGTGCATTCGATG
1 AGTGCA-TCGATG
3136629 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:3136733 original size:65 final size:65
Alignment explanation
Indices: 3136574--3136759 Score: 218
Period size: 65 Copynumber: 2.9 Consensus size: 65
3136564 TGACCGTTGG
* * *
3136574 ATCCTTAGTGCATCGGTGCACTAAG-AGTGCATCGATGCATCAAGTGCATTCGATG-TTTCAAAA
1 ATCCTCAGTGCATCGGTGCACT-GGTAGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAA
3136637 T
65 T
* ** * * * *
3136638 AGCCAGAGTGCATCGATGCATTGCTGGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA
1 ATCCTCAGTGCATCGGTGCACTGGTAGTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAA
3136703 -
65 T
*
3136703 ATCCTCAGTGCATCGGTGCA-TGGTATGTGCATCGATGCATGAAATGCATTCGATGTT
1 ATCCTCAGTGCATCGGTGCACTGGTA-GTGCATCGATGCATCAAATGCATTCGATGTT
3136760 CAATTTAATT
Statistics
Matches: 102, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
64 48 0.47
65 51 0.50
66 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (65 bp):
ATCCTCAGTGCATCGGTGCACTGGTAGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAAT
Found at i:3136778 original size:129 final size:130
Alignment explanation
Indices: 3136574--3136809 Score: 302
Period size: 129 Copynumber: 1.8 Consensus size: 130
3136564 TGACCGTTGG
* *
3136574 ATCCTTAGTGCATCGGTGCACTAAGAGTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAATA
1 ATCCTCAGTGCATCGGTGCACTAAGAGTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATA
*
3136639 GCCAGAGTGCATCGATGCATTG-CTGGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA
66 GCCAGAGTGCATCGATGCATGGACTGGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA
* * **
3136703 ATCCTCAGTGCATCGGTGCA-T-GGTATGTGCATCGATGCATGAAATGCATTCGATG-TTCAATT
1 ATCCTCAGTGCATCGGTGCACTAAG-A-GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAA
** * *
3136765 TAATTCATG-GTGCATCGATGCATGGATTGGTGCATCGGTGCATCA
64 T-AGCCA-GAGTGCATCGATGCATGGACTGGTGCATCGATGCATCA
3136810 CTCTGAAAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
127 1 0.01
128 8 0.09
129 64 0.70
130 18 0.20
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (130 bp):
ATCCTCAGTGCATCGGTGCACTAAGAGTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATA
GCCAGAGTGCATCGATGCATGGACTGGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA
Found at i:3136798 original size:65 final size:64
Alignment explanation
Indices: 3136600--3136809 Score: 223
Period size: 65 Copynumber: 3.2 Consensus size: 64
3136590 TGCACTAAGA
* * ** * *
3136600 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAAT-AGCCAGAGTGCATCGATGCATTGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAG-GTGCATCGATGCATGGTTG
* *
3136664 GTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAATCCTCA-GTGCATCGGTGCATGGT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCAATATAAT--TCAGGTGCATCGATGCATGGT
3136727 AT-
63 -TG
* *
3136729 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATGGTGCATCGATGCATGGATT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCA-GGTGCATCGATGCATGG-TT
3136793 G
64 G
*
3136794 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
3136810 CTCTGAAAAA
Statistics
Matches: 122, Mismatches: 14, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
62 3 0.02
63 3 0.02
64 51 0.42
65 62 0.51
66 1 0.01
67 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAGGTGCATCGATGCATGGTTG
Found at i:3137134 original size:16 final size:16
Alignment explanation
Indices: 3137107--3137145 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
3137097 ATGTTCTAAA
3137107 AATTTGAAATCAATTTC
1 AATTT-AAATCAATTTC
3137124 AATTTAAATCAATTTC
1 AATTTAAATCAATTTC
*
3137140 AGTTTA
1 AATTTA
3137146 GAAATATTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (16 bp):
AATTTAAATCAATTTC
Found at i:3137293 original size:2 final size:2
Alignment explanation
Indices: 3137286--3137334 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
3137276 AATTGATTAA
3137286 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3137328 AT AT AT A
1 AT AT AT A
3137335 ACTTAAGCTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.