Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 155 of 187
Found at i:46032225 original size:2 final size:2
Alignment explanation
Indices: 46032218--46032259 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
46032208 CACATTCGTT
46032218 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46032260 AAAATGTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:46033026 original size:41 final size:41
Alignment explanation
Indices: 46032977--46033059 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
46032967 GAGGTATAAT
46032977 AAAGAGTAAGGCTTACTTCAAGAGATTTCAAGTTAAGCTCA
1 AAAGAGTAAGGCTTACTTCAAGAGATTTCAAGTTAAGCTCA
*
46033018 AAAGAGTAAGGCTTACTTCAAGAGATTTCAAGTTAAGTTCA
1 AAAGAGTAAGGCTTACTTCAAGAGATTTCAAGTTAAGCTCA
46033059 A
1 A
46033060 GAGAAGGCGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (41 bp):
AAAGAGTAAGGCTTACTTCAAGAGATTTCAAGTTAAGCTCA
Found at i:46033059 original size:21 final size:21
Alignment explanation
Indices: 46032993--46033063 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
46032983 TAAGGCTTAC
46032993 TTCAAGAGATTTCAAGTTAAG
1 TTCAAGAGATTTCAAGTTAAG
* * * *
46033014 CTCAAAAGA-GT-AAGGCTT-AC
1 TTCAAGAGATTTCAA-G-TTAAG
46033034 TTCAAGAGATTTCAAGTTAAG
1 TTCAAGAGATTTCAAGTTAAG
46033055 TTCAAGAGA
1 TTCAAGAGA
46033064 AGGCGAGGTA
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
19 2 0.05
20 12 0.32
21 21 0.57
22 2 0.05
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (21 bp):
TTCAAGAGATTTCAAGTTAAG
Found at i:46041117 original size:38 final size:38
Alignment explanation
Indices: 46041075--46041193 Score: 141
Period size: 38 Copynumber: 3.0 Consensus size: 38
46041065 GCCCATATTT
46041075 GATTAAAAATAAAAAATATATATTTAATATATAATTCG
1 GATTAAAAATAAAAAATATATATTTAATATATAATTCG
* ** * *
46041113 GATTAAAAGTCCAAAATATATATTTAATAAAAAGTATATT-T
1 GATTAAAAATAAAAAATATATATTTAAT--ATA-TA-ATTCG
46041154 GATTAAAAATAAAAATATATATATTTAATATATAATTCG
1 GATTAAAAATAAAAA-ATATATATTTAATATATAATTCG
46041193 G
1 G
46041194 GCTGGGCCAG
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
38 28 0.43
39 3 0.05
40 4 0.06
41 14 0.22
42 16 0.25
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (38 bp):
GATTAAAAATAAAAAATATATATTTAATATATAATTCG
Found at i:46043147 original size:69 final size:69
Alignment explanation
Indices: 46043061--46043200 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
46043051 TGTCTAGGTT
46043061 ATGTAATGATAGCTTATTGAGTGCATTCTAATTTGTTCATTGATGGTCTATTTTTGTGAGAGAGT
1 ATGTAATGATAGCTTATTGAGTGCATTCTAATTTGTTCATTGATGGTCTATTTTTGTGAGAGAGT
46043126 GCAA
66 GCAA
*
46043130 ATGTAATGATAGCTTATTGAGTGCATTCTAATTTGTTCATTGATGGTCTATTTTTGTGATAGAGT
1 ATGTAATGATAGCTTATTGAGTGCATTCTAATTTGTTCATTGATGGTCTATTTTTGTGAGAGAGT
46043195 GCAA
66 GCAA
46043199 AT
1 AT
46043201 TGAATTGTAA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (69 bp):
ATGTAATGATAGCTTATTGAGTGCATTCTAATTTGTTCATTGATGGTCTATTTTTGTGAGAGAGT
GCAA
Found at i:46044052 original size:21 final size:20
Alignment explanation
Indices: 46044026--46044092 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
46044016 CAATATTTTT
46044026 ATTTTTAATAAAAATTTTAAA
1 ATTTTTAAT-AAAATTTTAAA
** * *
46044047 ATTTTTGTTTATAATTTTAATG
1 ATTTTT-AATAAAATTTTAA-A
46044069 ATTTTTAATAAAA-TTTAAA
1 ATTTTTAATAAAATTTTAAA
46044088 ATTTT
1 ATTTT
46044093 AAAAAGGTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 5 0.14
20 5 0.14
21 19 0.53
22 7 0.19
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
ATTTTTAATAAAATTTTAAA
Found at i:46044383 original size:30 final size:29
Alignment explanation
Indices: 46044337--46044414 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 29
46044327 TTTTTCCAAT
* *
46044337 TTTTAAGGGCTAAAAATATTTATTTT-TAGC
1 TTTTAAGGGCCAAAAAT-TTT-TTTTATAAC
*
46044367 TTTTAAGGGCCCAAAATTTTTTTTACTAAC
1 TTTTAAGGGCCAAAAATTTTTTTTA-TAAC
46044397 TTTTAAGGGACCTAAAAA
1 TTTTAAGGG-CC-AAAAA
46044415 AAATTTTCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 4 0.10
29 3 0.08
30 27 0.68
31 2 0.05
32 4 0.10
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.41
Consensus pattern (29 bp):
TTTTAAGGGCCAAAAATTTTTTTTATAAC
Found at i:46044826 original size:5 final size:5
Alignment explanation
Indices: 46044816--46044875 Score: 120
Period size: 5 Copynumber: 12.0 Consensus size: 5
46044806 AACTTCACAT
46044816 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
46044866 ATATA ATATA
1 ATATA ATATA
46044876 CTAACTAATT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 55 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:46045014 original size:36 final size:36
Alignment explanation
Indices: 46044947--46045015 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
46044937 AATTTAAGGT
*
46044947 TTTATTTATTTCACTAAAAATAATTTTTAAAAATGA
1 TTTATTAATTTCACTAAAAATAATTTTTAAAAATGA
*
46044983 TTTATTAATTT-ACTAGAAAGT-ATTTTCTAAAAA
1 TTTATTAATTTCACTA-AAAATAATTTT-TAAAAA
46045016 AATTAATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 9 0.31
36 20 0.69
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.46
Consensus pattern (36 bp):
TTTATTAATTTCACTAAAAATAATTTTTAAAAATGA
Found at i:46049111 original size:6 final size:7
Alignment explanation
Indices: 46049095--46049120 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
46049085 GGGTTATCTG
46049095 TTTTTAT
1 TTTTTAT
46049102 TTTTTAT
1 TTTTTAT
46049109 TTTTTAT
1 TTTTTAT
46049116 TTTTT
1 TTTTT
46049121 TCAAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:46052168 original size:43 final size:43
Alignment explanation
Indices: 46052100--46052223 Score: 203
Period size: 43 Copynumber: 2.9 Consensus size: 43
46052090 ATAGGGAACG
* *
46052100 TGAGAGGGATTCGGACTCCTCTAGTTTTGTTTAGAGGCAAGAA
1 TGAGAGGGATTCGGACCCCTCTAGTTTTGTTCAGAGGCAAGAA
*
46052143 TGAGAGGGATTCGGACCCCTTTAGTTTTGTTCAGAGGCAAGAA
1 TGAGAGGGATTCGGACCCCTCTAGTTTTGTTCAGAGGCAAGAA
* *
46052186 TGAGAGGGATTCGAACCCCTCTAGTTCTGTTCAGAGGC
1 TGAGAGGGATTCGGACCCCTCTAGTTTTGTTCAGAGGC
46052224 CTAAGAAATG
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 75 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (43 bp):
TGAGAGGGATTCGGACCCCTCTAGTTTTGTTCAGAGGCAAGAA
Found at i:46054703 original size:36 final size:36
Alignment explanation
Indices: 46054654--46054726 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
46054644 CGAGGTAGGG
46054654 TATGTGTACCGAATGATTATAATCTAAGGCAGTTGA
1 TATGTGTACCGAATGATTATAATCTAAGGCAGTTGA
* *
46054690 TATGTGTATCGAATGATTCTAATCTAAGGCAGTTGA
1 TATGTGTACCGAATGATTATAATCTAAGGCAGTTGA
46054726 T
1 T
46054727 TCTGAGGGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.36
Consensus pattern (36 bp):
TATGTGTACCGAATGATTATAATCTAAGGCAGTTGA
Found at i:46056144 original size:21 final size:21
Alignment explanation
Indices: 46056119--46056162 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
46056109 ATCTTCGAGG
46056119 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
46056140 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
46056161 AT
1 AT
46056163 GTAATCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:46056168 original size:19 final size:19
Alignment explanation
Indices: 46056118--46056173 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
46056108 AATCTTCGAG
46056118 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46056137 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
46056158 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
46056174 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.44
21 19 0.56
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:46056180 original size:22 final size:23
Alignment explanation
Indices: 46056131--46056196 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
46056121 ATGCAATCTT
*
46056131 AGATATGATATATGCAATCTT---
1 AGATATGAT-TATGTAATCTTAGA
46056152 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
46056174 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
46056197 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 10 0.26
21 8 0.21
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:46056206 original size:22 final size:23
Alignment explanation
Indices: 46056162--46056206 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
46056152 AGATATGATA
*
46056162 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
46056185 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
46056207 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:46060670 original size:19 final size:21
Alignment explanation
Indices: 46060646--46060684 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
46060636 TGTTTTCTTT
*
46060646 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
46060665 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
46060685 TTAAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:46066027 original size:36 final size:36
Alignment explanation
Indices: 46065980--46066053 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
46065970 AAGTATATTA
46065980 AAATTTTATATTGATCATGATGGATATCTACTTAAT
1 AAATTTTATATTGATCATGATGGATATCTACTTAAT
46066016 AAATTTTATATTGATCATGATGGATATCTACTTAAT
1 AAATTTTATATTGATCATGATGGATATCTACTTAAT
46066052 AA
1 AA
46066054 GATATTCATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (36 bp):
AAATTTTATATTGATCATGATGGATATCTACTTAAT
Found at i:46066647 original size:25 final size:26
Alignment explanation
Indices: 46066619--46066673 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
46066609 AGATATGAAT
* *
46066619 TTAATATATATTTATT-ATTAAAATA
1 TTAATATAAATTTATTCAATAAAATA
*
46066644 TTAATATAAATTTTTTCAATAAAATA
1 TTAATATAAATTTATTCAATAAAATA
46066670 TTAA
1 TTAA
46066674 GAATATTACT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (26 bp):
TTAATATAAATTTATTCAATAAAATA
Found at i:46066720 original size:19 final size:18
Alignment explanation
Indices: 46066687--46066732 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
46066677 TATTACTCAA
46066687 AATTTAAAA-TTATTATT
1 AATTTAAAATTTATTATT
46066704 AATGTTAAAATTTATTATT
1 AAT-TTAAAATTTATTATT
46066723 AATTTAAAAT
1 AATTTAAAAT
46066733 AATAATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.11
18 13 0.48
19 11 0.41
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
AATTTAAAATTTATTATT
Found at i:46066762 original size:21 final size:21
Alignment explanation
Indices: 46066730--46066791 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
46066720 ATTAATTTAA
46066730 AATAATAATATTAAATAATTTT
1 AATAA-AATATTAAATAATTTT
* * *
46066752 ATTAAAATATTAAATTATGTT
1 AATAAAATATTAAATAATTTT
* *
46066773 AATAAATTATTATATAATT
1 AATAAAATATTAAATAATT
46066792 AAATATAAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
21 28 0.88
22 4 0.12
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
AATAAAATATTAAATAATTTT
Found at i:46066962 original size:8 final size:8
Alignment explanation
Indices: 46066949--46066973 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
46066939 TATAATATAT
46066949 AATTTTAA
1 AATTTTAA
46066957 AATTTTAA
1 AATTTTAA
46066965 AATTTTAA
1 AATTTTAA
46066973 A
1 A
46066974 TAATTTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AATTTTAA
Found at i:46069932 original size:3 final size:3
Alignment explanation
Indices: 46069926--46069969 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
46069916 TCTGGTATTA
* * *
46069926 TTG TTG TTG TTG TTG TTG TTG TTA TTG TTG TTA TTG TTA TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
46069970 ATATTTCTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.07, C:0.00, G:0.25, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:46069970 original size:6 final size:6
Alignment explanation
Indices: 46069923--46069971 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
46069913 TTATCTGGTA
* * *
46069923 TTATTG TTGTTG TTGTTG TTGTTG TTATTG ---TTG TTATTG TTATTG
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG
46069968 TTAT
1 TTAT
46069972 ATTTCTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
3 3 0.08
6 35 0.92
ACGTcount: A:0.10, C:0.00, G:0.22, T:0.67
Consensus pattern (6 bp):
TTATTG
Found at i:46074955 original size:18 final size:19
Alignment explanation
Indices: 46074918--46074955 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
46074908 AAGACTATTA
* *
46074918 AAACATGTCATCTGAGAAT
1 AAACATGTCAGCTAAGAAT
46074937 AAACAT-TCAGCTAAGAAT
1 AAACATGTCAGCTAAGAAT
46074955 A
1 A
46074956 CTATCCTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.47, C:0.16, G:0.13, T:0.24
Consensus pattern (19 bp):
AAACATGTCAGCTAAGAAT
Found at i:46081049 original size:30 final size:29
Alignment explanation
Indices: 46080984--46081056 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
46080974 TAAAAAATAA
* * *
46080984 AAAATTATATTTTGACCCCCTAAACTTTTT
1 AAAATTACATTTTCA-CCCCTAAACTTTCT
* *
46081014 GAAATTGCATTTTCACCCCTAAACTTTCCT
1 AAAATTACATTTTCACCCCTAAACTTT-CT
46081044 AAAATTACATTTT
1 AAAATTACATTTT
46081057 GGCCCATCAA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
29 12 0.34
30 23 0.66
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (29 bp):
AAAATTACATTTTCACCCCTAAACTTTCT
Found at i:46081640 original size:4 final size:4
Alignment explanation
Indices: 46081627--46081712 Score: 81
Period size: 4 Copynumber: 21.5 Consensus size: 4
46081617 ACGGAGAAGG
*
46081627 AAGA AA-A AAGA AAG- AAGA AAGA AAGA AAGA AA-A AAGA AAGA AGAAA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA A-AGA
* *
46081673 AAGA AAGA AAAA AAGA GAA-A AAAA AAGGA AAGAA AAGA AA
1 AAGA AAGA AAGA AAGA -AAGA AAGA AA-GA AAG-A AAGA AA
46081713 TAAAAAAAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 16
0.77 0.06 0.18
Matches are distributed among these distances:
3 11 0.16
4 46 0.67
5 12 0.17
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:46081647 original size:11 final size:11
Alignment explanation
Indices: 46081621--46081707 Score: 67
Period size: 11 Copynumber: 8.1 Consensus size: 11
46081611 TGCTGAACGG
*
46081621 AGAAGGAAGAA
1 AGAAGAAAGAA
*
46081632 AAAAGAAAG-A
1 AGAAGAAAGAA
46081642 AGAAAGAAAGAA
1 AG-AAGAAAGAA
*
46081654 AGAAAAAAGAA
1 AGAAGAAAGAA
46081665 AGAAG-AA-AA
1 AGAAGAAAGAA
*
46081674 AGAAAGAAAAAA
1 AG-AAGAAAGAA
46081686 AG-AGAAA-AA
1 AGAAGAAAGAA
*
46081695 AAAAGGAAAGAA
1 AGAA-GAAAGAA
46081707 A
1 A
46081708 AGAAATAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
9 7 0.11
10 13 0.21
11 32 0.52
12 10 0.16
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
AGAAGAAAGAA
Found at i:46081656 original size:26 final size:25
Alignment explanation
Indices: 46081627--46081708 Score: 114
Period size: 24 Copynumber: 3.3 Consensus size: 25
46081617 ACGGAGAAGG
46081627 AAGAAAAAAGAAAGAAGAAAGAAAGA
1 AAGAAAAAAGAAAGAAGAAA-AAAGA
46081653 AAGAAAAAAGAAAGAAG-AAAAAGA
1 AAGAAAAAAGAAAGAAGAAAAAAGA
* *
46081677 AAGAAAAAA-AGAGAAAAAAAAAGGA
1 AAGAAAAAAGAAAGAAGAAAAAA-GA
46081702 AAGAAAA
1 AAGAAAA
46081709 GAAATAAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
23 5 0.10
24 19 0.37
25 11 0.21
26 17 0.33
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (25 bp):
AAGAAAAAAGAAAGAAGAAAAAAGA
Found at i:46081719 original size:11 final size:10
Alignment explanation
Indices: 46081627--46081719 Score: 75
Period size: 10 Copynumber: 9.2 Consensus size: 10
46081617 ACGGAGAAGG
46081627 AAGAAAAAAGA
1 AAGAAAAAA-A
*
46081638 AAGAAGAAAGA
1 AAGAA-AAAAA
46081649 AAGAAAGAAAA
1 AAGAAA-AAAA
*
46081660 AAG---AAAG
1 AAGAAAAAAA
*
46081667 AAGAAAAAGA
1 AAGAAAAAAA
46081677 AAGAAAAAAA
1 AAGAAAAAAA
*
46081687 GAGAAAAAAA
1 AAGAAAAAAA
* *
46081697 AAGGAAAGAA
1 AAGAAAAAAA
46081707 AAGAAATAAAA
1 AAGAAA-AAAA
46081718 AA
1 AA
46081720 AATAAATTAC
Statistics
Matches: 64, Mismatches: 12, Indels: 12
0.73 0.14 0.14
Matches are distributed among these distances:
7 6 0.09
10 33 0.52
11 22 0.34
12 3 0.05
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:46082059 original size:18 final size:19
Alignment explanation
Indices: 46082036--46082075 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
46082026 CATCCAGCAG
*
46082036 AAAAAAAA-GGAAAAGAGA
1 AAAAAAAAGGGAAAAAAGA
46082054 AAAAAAAAGGGAAAAAAGA
1 AAAAAAAAGGGAAAAAAGA
46082073 AAA
1 AAA
46082076 GGGCCCACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (19 bp):
AAAAAAAAGGGAAAAAAGA
Found at i:46082069 original size:13 final size:14
Alignment explanation
Indices: 46082038--46082078 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
46082028 TCCAGCAGAA
*
46082038 AAAAAAGGAAAAGAG
1 AAAAAA-GAAAAGGG
46082053 -AAAAA-AAAAGGG
1 AAAAAAGAAAAGGG
46082065 AAAAAAGAAAAGGG
1 AAAAAAGAAAAGGG
46082079 CCCACAACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
12 6 0.26
13 5 0.22
14 12 0.52
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAAAGGG
Found at i:46082693 original size:16 final size:16
Alignment explanation
Indices: 46082674--46082778 Score: 102
Period size: 16 Copynumber: 6.2 Consensus size: 16
46082664 GTTTTCAAAA
46082674 AAAATTCTCGTGTTTT
1 AAAATTCTCGTGTTTT
* *
46082690 AAAATTCTCATGTTTC
1 AAAATTCTCGTGTTTT
* *
46082706 AAAATTGTTGTGTTTT
1 AAAATTCTCGTGTTTT
*
46082722 CAAAAATTTTCGTGTTTTT
1 --AAAATTCTCGTG-TTTT
* *
46082741 AATAATTTTCGTGTCTCT
1 AA-AATTCTCGTGT-TTT
46082759 AAAATTCTCGTGTTTT
1 AAAATTCTCGTGTTTT
46082775 AAAA
1 AAAA
46082779 ATATTTTCGT
Statistics
Matches: 73, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
16 32 0.44
17 13 0.18
18 24 0.33
19 4 0.05
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (16 bp):
AAAATTCTCGTGTTTT
Found at i:46082693 original size:18 final size:17
Alignment explanation
Indices: 46082673--46082780 Score: 96
Period size: 18 Copynumber: 6.4 Consensus size: 17
46082663 TGTTTTCAAA
46082673 AAAAATTCTCGTGTTTT
1 AAAAATTCTCGTGTTTT
*
46082690 -AAAATTCTCATG-TTT
1 AAAAATTCTCGTGTTTT
* * *
46082705 CAAAATTGTTGTGTTTT
1 AAAAATTCTCGTGTTTT
*
46082722 CAAAAATTTTCGTGTTTTT
1 -AAAAATTCTCGTG-TTTT
* * *
46082741 AATAATTTTCGTGTCTCT
1 AAAAATTCTCGTGT-TTT
46082759 -AAAATTCTCGTGTTTT
1 AAAAATTCTCGTGTTTT
46082775 AAAAAT
1 AAAAAT
46082781 ATTTTCGTGT
Statistics
Matches: 73, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
15 3 0.04
16 22 0.30
17 20 0.27
18 24 0.33
19 4 0.05
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (17 bp):
AAAAATTCTCGTGTTTT
Found at i:46090712 original size:81 final size:80
Alignment explanation
Indices: 46090569--46091241 Score: 889
Period size: 81 Copynumber: 8.2 Consensus size: 80
46090559 TTCTGTTTTC
*
46090569 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTA
1 AAAAATCAACTCATATTAC-AGAAGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTTCTTTTA
46090634 AATTTCTATTTTTCAAAAA
64 AATTTCTATTTTTC--AAA
*
46090653 AAAAATCAACTCATATTACAGAGGTGAGTTGAGCCTCGGGT-CACGCTGAGGTATTTCTTTTAAA
1 AAAAATCAACTCATATTACAGAAGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTCTTTTAAA
*
46090717 TTTCTGTTTTTTCAAA
66 TTTCT-ATTTTTCAAA
**
46090733 AAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTA
1 AAAAATCAACTCATATT-ACAGAAGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTTCTTTTA
46090798 AATTTCTATTTTTCAAAA
64 AATTTCTATTTTTC-AAA
*
46090816 AAAAATCAACTCATATTACAGAGGTGAGTTGAGCCTCGGGT-CACGCTGAGGTATTTCTTTTAAA
1 AAAAATCAACTCATATTACAGAAGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTCTTTTAAA
*
46090880 TTTCTGTTTTTTTTTC-AA
66 TTTC----TATTTTTCAAA
**
46090898 AAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTA
1 AAAAATCAACTCATATT-ACAGAAGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTTCTTTTA
* *
46090963 AATCTCTGTTTTTC-AA
64 AATTTCTATTTTTCAAA
**
46090979 AAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTA
1 AAAAATCAACTCATATT-ACAGAAGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTTCTTTTA
*
46091044 AATTTCTGTTTTTC-AA
64 AATTTCTATTTTTCAAA
* * * *
46091060 AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGT-CACGCTGAGGTATTTCTTTTTA
1 AAAAATCAACTCATATTAC-AGAAGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTC-TTTTA
*
46091124 AATTTTCTTGTTTTTC--A
64 AA-TTTC-TATTTTTCAAA
*
46091141 AAAAATCAACTCATATTGC-GAGAGTGAGTTGAGCCTC-GGTCGCACGCTGAGGTATTTCTTTTA
1 AAAAATCAACTCATATTACAGA-AGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTTCTTTTA
46091204 AATTTCTATTTTTCAAAA
64 AATTTCTATTTTTC-AAA
46091222 AAAAATCAACTCATATTACA
1 AAAAATCAACTCATATTACA
46091242 NNNNNNNNNN
Statistics
Matches: 540, Mismatches: 26, Indels: 48
0.88 0.04 0.08
Matches are distributed among these distances:
78 7 0.01
79 25 0.05
80 75 0.14
81 232 0.43
82 60 0.11
83 90 0.17
84 25 0.05
85 26 0.05
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (80 bp):
AAAAATCAACTCATATTACAGAAGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTTCTTTTAAA
TTTCTATTTTTCAAA
Found at i:46090983 original size:164 final size:162
Alignment explanation
Indices: 46090569--46091238 Score: 1002
Period size: 163 Copynumber: 4.1 Consensus size: 162
46090559 TTCTGTTTTC
46090569 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTA
46090634 AATTTCTATTTTTCAAAAAAAAAATCAACTCATATTACAGAGGTGAGTTGAGCCTCGGGT-CACG
66 AATTTCTATTTTTC--AAAAAAAATCAACTCATATTACAGAGGTGAGTTGAGCCTCGGGTCCACG
46090698 CTGAGGTATTTCTTTTAAATTTCTGTTTTTTCAAA
129 CTGAGGTATTTCTTTTAAATTTCTGTTTTTTC-AA
*
46090733 AAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTA
46090798 AATTTCTATTTTTCAAAAAAAAATCAACTCATATTACAGAGGTGAGTTGAGCCTCGGGT-CACGC
66 AATTTCTATTTTTC-AAAAAAAATCAACTCATATTACAGAGGTGAGTTGAGCCTCGGGTCCACGC
46090862 TGAGGTATTTCTTTTAAATTTCTGTTTTTTTTTCAA
130 TGAGGTATTTCTTTTAAATTTCTG---TTTTTTCAA
*
46090898 AAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTA
* * ** *
46090963 AATCTCTGTTTTTC-AAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCGGGTCGCACG
66 AATTTCTATTTTTCAAAAAAAATCAACTCATATT-ACAGAGGTGAGTTGAGCCTCGGGTC-CACG
46091027 CTGAGGTATTTCTTTTAAATTTCTG-TTTTTCAA
129 CTGAGGTATTTCTTTTAAATTTCTGTTTTTTCAA
* * *
46091060 AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGT--CACGCTGAGGTATTTCTTTTT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTC-TTTT
* *
46091123 AAATTTTCTTGTTTTTC--AAAAAATCAACTCATATTGC-GAGAGTGAGTTGAGCCTC-GGTCGC
65 AAA-TTTC-TATTTTTCAAAAAAAATCAACTCATATTACAGAG-GTGAGTTGAGCCTCGGGTC-C
*
46091184 ACGCTGAGGTATTTCTTTTAAATTTCT-ATTTTTCAAAA
126 ACGCTGAGGTATTTCTTTTAAATTTCTGTTTTTTC--AA
46091222 AAAAATCAACTCATATT
1 AAAAATCAACTCATATT
46091239 ACANNNNNNN
Statistics
Matches: 478, Mismatches: 15, Indels: 28
0.92 0.03 0.05
Matches are distributed among these distances:
160 57 0.12
161 21 0.04
162 85 0.18
163 101 0.21
164 99 0.21
165 79 0.17
166 36 0.08
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (162 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTA
AATTTCTATTTTTCAAAAAAAATCAACTCATATTACAGAGGTGAGTTGAGCCTCGGGTCCACGCT
GAGGTATTTCTTTTAAATTTCTGTTTTTTCAA
Found at i:46091004 original size:246 final size:245
Alignment explanation
Indices: 46090569--46091238 Score: 1043
Period size: 246 Copynumber: 2.7 Consensus size: 245
46090559 TTCTGTTTTC
*
46090569 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--CACGCTGAGGTATTTCTTTTA
**** * *
46090634 AATTTCTATTTTTCAAAAAAAAAATCAACTCATATT-ACAGAGGTGAGTTGAGCCTCGGGT--CA
64 AATTTCTATTTTTTTTCAAAAAAATCAACTCATATTGAGAGAAGTGAGTTGAGCCTCGGGTCGCA
46090696 CGCTGAGGTATTTCTTTTAAATTTCTGTTTTTTCAAAAAAAATCAACTCATATTGTGAGAAGTGA
129 CGCTGAGGTATTTCTTTTAAATTTCTG-TTTTTCAAAAAAAATCAACTCATATTGTGAGAAGTGA
46090761 GTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAATTTCTATTTTTCAAAA
193 GTTGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAATTTCTATTTTTC--AA
*
46090816 AAAAATCAACTCATATTAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAA
* *
46090880 TTTCTGTTTTTTTTTCAAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCGGGTCGCAC
66 TTTCT-ATTTTTTTTCAAAAAAATCAACTCATATTGAGAGAAGTGAGTTGAGCCTCGGGTCGCAC
*
46090945 GCTGAGGTATTTCTTTTAAATCTCTGTTTTTC-AAAAAAATCAACTCATATTGTGAGAAGTGAGT
130 GCTGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGTGAGAAGTGAGT
*
46091009 TGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAATTTCTGTTTTTCAA
195 TGAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAATTTCTATTTTTCAA
* *
46091060 AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTCTTTTTAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTC-TTTTAA
* * *
46091125 ATTT-TCTTGTTTTTC-AAAAAATCAACTCATATTGCGAG-AGTGAGTTGAGCCTC-GGTCGCAC
65 ATTTCTATTTTTTTTCAAAAAAATCAACTCATATTGAGAGAAGTGAGTTGAGCCTCGGGTCGCAC
*
46091186 GCTGAGGTATTTCTTTTAAATTTCTATTTTTCAAAAAAAAATCAACTCATATT
130 GCTGAGGTATTTCTTTTAAATTTCTGTTTTTC-AAAAAAAATCAACTCATATT
46091239 ACANNNNNNN
Statistics
Matches: 395, Mismatches: 20, Indels: 20
0.91 0.05 0.05
Matches are distributed among these distances:
241 38 0.10
242 15 0.04
243 41 0.10
244 55 0.14
245 62 0.16
246 132 0.33
247 24 0.06
248 28 0.07
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (245 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAA
TTTCTATTTTTTTTCAAAAAAATCAACTCATATTGAGAGAAGTGAGTTGAGCCTCGGGTCGCACG
CTGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGTGAGAAGTGAGTT
GAGCCTCGGGTCGCACGCTGAGGTATTTCTTTTAAATTTCTATTTTTCAA
Found at i:46091700 original size:158 final size:158
Alignment explanation
Indices: 46091350--46091787 Score: 587
Period size: 158 Copynumber: 2.7 Consensus size: 158
46091340 NNGTTTTTTT
* * *
46091350 AAAATCCACCTCATATTGCGAGAGGTGAGTTGAACCTCGGACACATGCCGAGGTATTTCGTTTAA
1 AAAAT-CAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTAA
* * *
46091415 ATTTCTGTTTTTTTTTAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAG
65 ATTTCTG--TTTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCCGAG
* *
46091480 GTATTTCTTTTAAATTTTTGTTTTTTTCAAA
128 GTATTTCGTTTAAATTTTTGTTTTTTTAAAA
* *
46091511 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAAC-CATGCCGAGGTATTT-TTTTATA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTAAA
*
46091574 TTTCTGTTTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTC-GGACACATGCCGAGG
66 TTTCTGTTTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC--GCCGAGG
46091638 TATTTCGTTTAAATTTCTAT-TTTTTTTAAAA
129 TATTTCGTTTAAATTT-T-TGTTTTTTTAAAA
* *
46091669 AAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCTTTTA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACATGCCGAGGTA-TTTCTTTTA
** * *
46091734 AATTTCTGTTTTTCAAAAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTC
64 AATTTCTGTTTTT---TTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
46091788 AGGCCACACG
Statistics
Matches: 246, Mismatches: 20, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
155 5 0.02
156 41 0.17
157 21 0.09
158 58 0.24
159 18 0.07
160 45 0.18
161 8 0.03
162 17 0.07
165 33 0.13
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (158 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTAAA
TTTCTGTTTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCCGAGGTA
TTTCGTTTAAATTTTTGTTTTTTTAAAA
Found at i:46091975 original size:9 final size:9
Alignment explanation
Indices: 46091961--46091993 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
46091951 CGTGCTTTTT
46091961 TAAAAAAAA
1 TAAAAAAAA
46091970 T-AAAAAAA
1 TAAAAAAAA
*
46091978 TACAAAAAA
1 TAAAAAAAA
46091987 TAAAAAA
1 TAAAAAA
46091994 TTATATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:46091976 original size:8 final size:8
Alignment explanation
Indices: 46091963--46091993 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
46091953 TGCTTTTTTA
46091963 AAAAAAAT
1 AAAAAAAT
46091971 AAAAAAAT
1 AAAAAAAT
46091979 ACAAAAAAT
1 A-AAAAAAT
46091988 AAAAAA
1 AAAAAA
46091994 TTATATTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.87, C:0.03, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:46092055 original size:30 final size:29
Alignment explanation
Indices: 46091990--46092062 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
46091980 CAAAAAATAA
* * *
46091990 AAAATTATATTTTGACCCCCTAAACTTTTT
1 AAAATTACATTTTCA-CCCCTAAACTTTCT
* *
46092020 GAAATTGCATTTTCACCCCTAAACTTTCCT
1 AAAATTACATTTTCACCCCTAAACTTT-CT
46092050 AAAATTACATTTT
1 AAAATTACATTTT
46092063 GGCCCATCAA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
29 12 0.34
30 23 0.66
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (29 bp):
AAAATTACATTTTCACCCCTAAACTTTCT
Found at i:46092645 original size:4 final size:4
Alignment explanation
Indices: 46092632--46092715 Score: 79
Period size: 4 Copynumber: 21.5 Consensus size: 4
46092622 ACGGAGAAGG
*
46092632 AAGA AA-A AAGA AAG- AAGA AAGA AAGA AAGA AA-A AAGA AAGA AGAAA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA A-AGA
* *
46092678 AAGA AAGA AAAA AAGA GAA-A AA-A AGGA AAGAA AAGA AA
1 AAGA AAGA AAGA AAGA -AAGA AAGA AAGA AAG-A AAGA AA
46092716 TAAAAAAATA
Statistics
Matches: 67, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
3 13 0.19
4 45 0.67
5 9 0.13
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:46092687 original size:32 final size:33
Alignment explanation
Indices: 46092632--46092723 Score: 109
Period size: 32 Copynumber: 2.8 Consensus size: 33
46092622 ACGGAGAAGG
* *
46092632 AAGAAAAAAGAAAGAAGAAAGAAAGAAAGA-AAA
1 AAGAAAGAAGAAA-AAGAAAGAAAAAAAGAGAAA
46092665 AAGAAAGAAGAAAAAGAAAGAAAAAAAGAGAAA
1 AAGAAAGAAGAAAAAGAAAGAAAAAAAGAGAAA
* *
46092698 AA-AAGGAA-AGAAAAGAAATAAAAAAA
1 AAGAAAGAAGA-AAAAGAAAGAAAAAAA
46092724 TAAATTAACA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
31 1 0.02
32 35 0.66
33 17 0.32
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (33 bp):
AAGAAAGAAGAAAAAGAAAGAAAAAAAGAGAAA
Found at i:46092688 original size:23 final size:22
Alignment explanation
Indices: 46092635--46092723 Score: 77
Period size: 22 Copynumber: 4.3 Consensus size: 22
46092625 GAGAAGGAAG
46092635 AAAAAAGAAAGAAGAAAGAAAGA
1 AAAAAAGAAAGAA-AAAGAAAGA
*
46092658 AAGAAA-AAAG--AAAG-AAG-
1 AAAAAAGAAAGAAAAAGAAAGA
46092675 -AAAAAGAAAGAAAAA-AAGAGA
1 AAAAAAGAAAGAAAAAGAA-AGA
*
46092696 AAAAAAGGAAAG-AAAAGAAATA
1 AAAAAA-GAAAGAAAAAGAAAGA
46092718 AAAAAA
1 AAAAAA
46092724 TAAATTAACA
Statistics
Matches: 54, Mismatches: 3, Indels: 19
0.71 0.04 0.25
Matches are distributed among these distances:
16 4 0.07
17 4 0.07
18 3 0.06
19 8 0.15
20 2 0.04
22 21 0.39
23 12 0.22
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (22 bp):
AAAAAAGAAAGAAAAAGAAAGA
Found at i:46092708 original size:40 final size:40
Alignment explanation
Indices: 46092626--46092710 Score: 104
Period size: 40 Copynumber: 2.1 Consensus size: 40
46092616 TGCTGAACGG
* *
46092626 AGAAGGAAGAAAAAAGAAAGAAGAAAGAAAGAAAGAAAAA
1 AGAAAGAAGAAAAAAGAAAGAAGAAAGAAAGAAAAAAAAA
46092666 AGAAAGAAG-AAAAAGAAAGAA-AAA-AAGAGAAAAAAAGGAA
1 AGAAAGAAGAAAAAAGAAAGAAGAAAGAA-AGAAAAAAA--AA
46092706 AGAAA
1 AGAAA
46092711 AGAAATAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
37 2 0.05
38 11 0.28
39 12 0.30
40 15 0.38
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (40 bp):
AGAAAGAAGAAAAAAGAAAGAAGAAAGAAAGAAAAAAAAA
Found at i:46092711 original size:11 final size:11
Alignment explanation
Indices: 46092632--46092711 Score: 76
Period size: 11 Copynumber: 7.0 Consensus size: 11
46092622 ACGGAGAAGG
46092632 AAGAAA-AAAGA
1 AAGAAAGAAA-A
46092643 AAG-AAGAAAGA
1 AAGAAAGAAA-A
46092654 AAGAAAGAAAA
1 AAGAAAGAAAA
46092665 AAGAAAGAAGAAA
1 AAGAAAG-A-AAA
46092678 AAGAAAGAAAAA
1 AAGAAAG-AAAA
46092690 AAGAGAA-AAAA
1 AAGA-AAGAAAA
*
46092701 AGGAAAGAAAA
1 AAGAAAGAAAA
46092712 GAAATAAAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 12
0.83 0.01 0.16
Matches are distributed among these distances:
10 4 0.06
11 30 0.48
12 14 0.23
13 14 0.23
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AAGAAAGAAAA
Found at i:46092722 original size:11 final size:10
Alignment explanation
Indices: 46092632--46092722 Score: 65
Period size: 11 Copynumber: 8.2 Consensus size: 10
46092622 ACGGAGAAGG
46092632 AAGAAAAAAGA
1 AAGAAAAAA-A
*
46092643 AAGAAGAAAGA
1 AAGAA-AAAAA
46092654 AAGAAAGAAAA
1 AAGAAA-AAAA
46092665 AAGAAAGAAGAAA
1 AAG-AA-AA-AAA
46092678 AAGAAAGAAAAA
1 AAG-AA-AAAAA
*
46092690 AAGAGAAAAA
1 AAGAAAAAAA
* *
46092700 AAGGAAAGAA
1 AAGAAAAAAA
46092710 AAGAAATAAAA
1 AAGAAA-AAAA
46092721 AA
1 AA
46092723 ATAAATTAAC
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
10 18 0.27
11 23 0.35
12 12 0.18
13 13 0.20
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:46093074 original size:17 final size:17
Alignment explanation
Indices: 46093036--46093074 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
46093026 TCCAGCAGAA
*
46093036 AAAAAAAAGGGAAAGAG
1 AAAAAAAAGGGAAAAAG
46093053 AAAAAAAAGGGAAAAAAG
1 AAAAAAAAGGG-AAAAAG
46093071 AAAA
1 AAAA
46093075 GGGCCCACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGGGAAAAAG
Found at i:46093624 original size:16 final size:16
Alignment explanation
Indices: 46093605--46093709 Score: 84
Period size: 16 Copynumber: 6.2 Consensus size: 16
46093595 GTTTGCAAAA
46093605 AAAATTCTCGTGTTTT
1 AAAATTCTCGTGTTTT
* * *
46093621 AAAATTCTCATGCTTC
1 AAAATTCTCGTGTTTT
* *
46093637 AAAATTGTTGTGTTTT
1 AAAATTCTCGTGTTTT
* *
46093653 CAAAAATTTTTGTGTTTTT
1 --AAAATTCTCGTG-TTTT
* *
46093672 AATAATTTTCGTGTCTCT
1 AA-AATTCTCGTGT-TTT
46093690 AAAATTCTCGTGTTTT
1 AAAATTCTCGTGTTTT
46093706 AAAA
1 AAAA
46093710 ATATTTTCGT
Statistics
Matches: 71, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
16 30 0.42
17 13 0.18
18 24 0.34
19 4 0.06
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (16 bp):
AAAATTCTCGTGTTTT
Found at i:46093624 original size:18 final size:17
Alignment explanation
Indices: 46093604--46093711 Score: 78
Period size: 18 Copynumber: 6.4 Consensus size: 17
46093594 TGTTTGCAAA
46093604 AAAAATTCTCGTGTTTT
1 AAAAATTCTCGTGTTTT
* *
46093621 -AAAATTCTCATG-CTT
1 AAAAATTCTCGTGTTTT
* * *
46093636 CAAAATTGTTGTGTTTT
1 AAAAATTCTCGTGTTTT
* *
46093653 CAAAAATTTTTGTGTTTTT
1 -AAAAATTCTCGTG-TTTT
* * *
46093672 AATAATTTTCGTGTCTCT
1 AAAAATTCTCGTGT-TTT
46093690 -AAAATTCTCGTGTTTT
1 AAAAATTCTCGTGTTTT
46093706 AAAAAT
1 AAAAAT
46093712 ATTTTCGTGT
Statistics
Matches: 71, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
15 2 0.03
16 22 0.31
17 19 0.27
18 24 0.34
19 4 0.06
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (17 bp):
AAAAATTCTCGTGTTTT
Found at i:46094464 original size:2 final size:2
Alignment explanation
Indices: 46094457--46094496 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
46094447 GAATAGGTGA
46094457 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
46094497 GTAAAATTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46094793 original size:41 final size:41
Alignment explanation
Indices: 46094748--46094933 Score: 295
Period size: 41 Copynumber: 4.5 Consensus size: 41
46094738 GACTTTAAGT
* *
46094748 CTAGCAGGCTAAGTTCCGGTGATCT-GAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGAT-TGGAATCAGGCTATAAAC
*
46094789 CTAGCAGGCTAAGTGCCGGTGATCT-GAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGAT-TGGAATCAGGCTATAAAC
*
46094830 CTAGCAGGCTAAGTGCCGGTGATTGGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATTGGAATCAGGCTATAAAC
*
46094871 CTAGCAGGCTAAGTGCCGGTGATTGGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATTGGAATCAGGCTATAAAC
46094912 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
46094934 ATATGTTAAA
Statistics
Matches: 141, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
40 1 0.01
41 140 0.99
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATTGGAATCAGGCTATAAAC
Found at i:46094915 original size:123 final size:123
Alignment explanation
Indices: 46094694--46094933 Score: 330
Period size: 123 Copynumber: 2.0 Consensus size: 123
46094684 ATTAAAATTT
* *
46094694 TCAGGTTTAAAACCTAGCAGGCTTAAGGCCGGTGAAATAATTCGGACTTTAAGTCTAGCAGGCTA
1 TCAGGTTTAAAACCTAGCAGGCTTAAGGCCGGTGAAATAATTCGGACTATAAGCCTAGCAGGCTA
* *
46094759 AGTTCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAA
66 AGTGCCGGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAA
*
46094817 TCAGG-TTATAAACCTAGCAGGC-TAAGTGCCGGTG-ATTGGAA-TCAGG-CTATAAGCCTAGCA
1 TCAGGTTTA-AAACCTAGCAGGCTTAAG-GCCGGTGAAAT--AATTC-GGACTATAAGCCTAGCA
*
46094877 GGCTAAGTGCCGGTGAT-TGGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGA
61 GGCTAAGTGCCGGTGATCT-GAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGA
46094934 ATATGTTAAA
Statistics
Matches: 105, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
122 10 0.10
123 91 0.87
124 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (123 bp):
TCAGGTTTAAAACCTAGCAGGCTTAAGGCCGGTGAAATAATTCGGACTATAAGCCTAGCAGGCTA
AGTGCCGGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGAA
Found at i:46095391 original size:2 final size:2
Alignment explanation
Indices: 46095384--46095423 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
46095374 TAATATGCTG
46095384 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46095424 ATTAATAGCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:46096036 original size:20 final size:21
Alignment explanation
Indices: 46096011--46096049 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
46096001 ACCGACTGTT
46096011 ATAAAAAAATTAAA-AATGAA
1 ATAAAAAAATTAAATAATGAA
*
46096031 ATAAAAATATTAAATAATG
1 ATAAAAAAATTAAATAATG
46096050 TTAAGAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (21 bp):
ATAAAAAAATTAAATAATGAA
Found at i:46096817 original size:8 final size:8
Alignment explanation
Indices: 46096800--46096972 Score: 71
Period size: 9 Copynumber: 19.5 Consensus size: 8
46096790 ATTTTTTTAT
46096800 AAAATCATA
1 AAAAT-ATA
46096809 AAAATATA
1 AAAATATA
*
46096817 AAAATAAGA
1 AAAAT-ATA
46096826 ACAAATATA
1 A-AAATATA
46096835 AAAATAT-
1 AAAATATA
*
46096842 TAAATATTA
1 AAAATA-TA
46096851 AAAATATTA
1 AAAATA-TA
46096860 AAATTGATATA
1 AAA---ATATA
**
46096871 AACTTATTA
1 AAAATA-TA
*
46096880 AAATTATAA
1 AAAATAT-A
46096889 AAATATATA
1 AAA-ATATA
46096898 AAAACTTATA
1 AAAA--TATA
*
46096908 AATATTATA
1 AA-AATATA
*
46096917 AAAATAGA
1 AAAATATA
*
46096925 AAAATCTA
1 AAAATATA
46096933 ATAAATCATA
1 A-AAAT-ATA
*
46096943 AAACTTATA
1 AAA-ATATA
*
46096952 AAATTTAATA
1 AAA-AT-ATA
46096962 AAAAT-TA
1 AAAATATA
46096969 AAAA
1 AAAA
46096973 ATCGTATTAG
Statistics
Matches: 130, Mismatches: 17, Indels: 36
0.71 0.09 0.20
Matches are distributed among these distances:
7 11 0.08
8 30 0.23
9 58 0.45
10 23 0.18
11 5 0.04
12 3 0.02
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (8 bp):
AAAATATA
Found at i:46096854 original size:16 final size:15
Alignment explanation
Indices: 46096828--46096861 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
46096818 AAATAAGAAC
46096828 AAATATAAAAATATT
1 AAATATAAAAATATT
46096843 AAATATTAAAAATATT
1 AAATA-TAAAAATATT
46096859 AAA
1 AAA
46096862 ATTGATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATATAAAAATATT
Found at i:46096879 original size:29 final size:29
Alignment explanation
Indices: 46096828--46096922 Score: 87
Period size: 29 Copynumber: 3.4 Consensus size: 29
46096818 AAATAAGAAC
46096828 AAATATAAAAATAT-T--AAA--TATTAA
1 AAATATAAAAATATATAAAAACTTATTAA
* *
46096852 AAATATTAAAAT-TGATATAAACTTATTAA
1 AAATATAAAAATAT-ATAAAAACTTATTAA
*
46096881 AATTATAAAAATATATAAAAACTTA-TAA
1 AAATATAAAAATATATAAAAACTTATTAA
*
46096909 ATATTATAAAAATA
1 A-AATATAAAAATA
46096923 GAAAAATCTA
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
23 1 0.02
24 11 0.19
25 1 0.02
27 3 0.05
28 4 0.07
29 38 0.64
30 1 0.02
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (29 bp):
AAATATAAAAATATATAAAAACTTATTAA
Found at i:46096879 original size:36 final size:38
Alignment explanation
Indices: 46096830--46096900 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
46096820 ATAAGAACAA
46096830 ATATAAAAATATT-AAA-TATTAAAAATAT-TAAAATTG
1 ATATAAAAATATTAAAATTA-TAAAAATATATAAAATTG
**
46096866 ATATAAACTTATTAAAATTATAAAAATATATAAAA
1 ATATAAAAATATTAAAATTATAAAAATATATAAAA
46096901 ACTTATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 11 0.37
37 12 0.40
38 7 0.23
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (38 bp):
ATATAAAAATATTAAAATTATAAAAATATATAAAATTG
Found at i:46096916 original size:19 final size:18
Alignment explanation
Indices: 46096796--46097062 Score: 104
Period size: 19 Copynumber: 14.5 Consensus size: 18
46096786 ATAAATTTTT
*
46096796 TTAT-AAAATCATAAAAA
1 TTATAAAAATTATAAAAA
* *
46096813 -TATAAAAATAAGAACAAA
1 TTATAAAAATTATAA-AAA
*
46096831 -TATAAAAA-TAT-TAAA
1 TTATAAAAATTATAAAAA
*
46096846 -TATTAAAAA-TATTAAAA
1 TTA-TAAAAATTATAAAAA
* *
46096863 TTGATATAAACTTATTAAAA
1 TT-ATA-AAAATTATAAAAA
46096883 TTATAAAAATATATAAAAA
1 TTATAAAAAT-TATAAAAA
*
46096902 CTTATAAATATTATAAAAA
1 -TTATAAAAATTATAAAAA
* *
46096921 -TAGAAAAATCTA-ATAAA
1 TTATAAAAAT-TATAAAAA
* * *
46096938 TCATAAAACTTATAAAAT
1 TTATAAAAATTATAAAAA
46096956 TTAATAAAAATTA-AAAAA
1 TT-ATAAAAATTATAAAAA
* * *
46096974 TCGTATTAGAATTCTTAAAAAA
1 T--TATAAAAATT-AT-AAAAA
* * * *
46096996 TAATAAAATTTGTAAAAT
1 TTATAAAAATTATAAAAA
* *
46097014 TTATAAAAAAATATTAAAA
1 TTAT-AAAAATTATAAAAA
*
46097033 TTGATATAAACTTATAAAAA
1 TT-ATA-AAAATTATAAAAA
*
46097053 GTATTAAAAA
1 TTA-TAAAAA
46097063 AATCATAAAA
Statistics
Matches: 186, Mismatches: 41, Indels: 44
0.69 0.15 0.16
Matches are distributed among these distances:
15 5 0.03
16 12 0.06
17 25 0.13
18 42 0.23
19 55 0.30
20 41 0.22
22 6 0.03
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (18 bp):
TTATAAAAATTATAAAAA
Found at i:46097022 original size:29 final size:30
Alignment explanation
Indices: 46096990--46097052 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
46096980 TAGAATTCTT
*
46096990 AAAAAATAATAAAATTTG-TA-AAATTTATA
1 AAAAAATAATAAAA-TTGATATAAACTTATA
*
46097019 AAAAAATATTAAAATTGATATAAACTTATA
1 AAAAAATAATAAAATTGATATAAACTTATA
46097049 AAAA
1 AAAA
46097053 GTATTAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 3 0.10
29 15 0.50
30 12 0.40
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (30 bp):
AAAAAATAATAAAATTGATATAAACTTATA
Found at i:46098689 original size:65 final size:65
Alignment explanation
Indices: 46098575--46098703 Score: 231
Period size: 65 Copynumber: 2.0 Consensus size: 65
46098565 AGTTTATTTT
* *
46098575 TCAATGCATTTACAATATGGTTTCTTTAATTACATGGCTTTTTTTTGTTTGGTTGCCAAGAAAAA
1 TCAATGCATTTACAATATGGTTTCTTTAATTACATGGCTCTTTTCTGTTTGGTTGCCAAGAAAAA
*
46098640 TCAATGCATTTACAATATGGTTTCTTTGATTACATGGCTCTTTTCTGTTTGGTTGCCAAGAAAA
1 TCAATGCATTTACAATATGGTTTCTTTAATTACATGGCTCTTTTCTGTTTGGTTGCCAAGAAAA
46098704 CAAGGGAACA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 61 1.00
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.43
Consensus pattern (65 bp):
TCAATGCATTTACAATATGGTTTCTTTAATTACATGGCTCTTTTCTGTTTGGTTGCCAAGAAAAA
Found at i:46099536 original size:6 final size:6
Alignment explanation
Indices: 46099523--46099563 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
46099513 ATATACATAC
* *
46099523 TTAT-T TTATAT TTATAT TTGTAT TTGTAT TTATAT TTATAT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT
46099564 AACACTACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
5 4 0.12
6 29 0.88
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (6 bp):
TTATAT
Found at i:46104458 original size:20 final size:20
Alignment explanation
Indices: 46104433--46104473 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
46104423 CTATGAAAAG
* *
46104433 TTATAATATAGTTACTCAAC
1 TTATAAAATAGTCACTCAAC
*
46104453 TTATAAAATGGTCACTCAAC
1 TTATAAAATAGTCACTCAAC
46104473 T
1 T
46104474 ATTCAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (20 bp):
TTATAAAATAGTCACTCAAC
Found at i:46107756 original size:26 final size:25
Alignment explanation
Indices: 46107718--46107767 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
46107708 AAATATTTAA
*
46107718 AAGAGATATAGATATATATACATAAT
1 AAGAGATAAAGATATATATA-ATAAT
* *
46107744 AAGATATAAAGATATTTATAATAA
1 AAGAGATAAAGATATATATAATAA
46107768 GGTATGTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (25 bp):
AAGAGATAAAGATATATATAATAAT
Found at i:46109523 original size:95 final size:95
Alignment explanation
Indices: 46109357--46109535 Score: 306
Period size: 95 Copynumber: 1.9 Consensus size: 95
46109347 CAGAATCTAG
* *
46109357 AATCTTTAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCACTATACTCCACTAT
1 AATCTGTAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTAT
46109422 AATCACAGGGAGGTAAAATCTGCCATTTTC
66 AATCACAGGGAGGTAAAATCTGCCATTTTC
*
46109452 AATCTGTAATCTATTCCACTGCCAACCAGGGAGATAGAATTA-TCGGCTTCAATGTACTCCACTA
1 AATCTGTAATCTATTCCACTGCCAACCAGGGAGATAGAATTACT-GGCTTCAATATACTCCACTA
*
46109516 TAGTCACAGGGAGGTAAAAT
65 TAATCACAGGGAGGTAAAAT
46109536 TCACCATATT
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
94 1 0.01
95 78 0.99
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (95 bp):
AATCTGTAATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTAT
AATCACAGGGAGGTAAAATCTGCCATTTTC
Found at i:46109791 original size:175 final size:175
Alignment explanation
Indices: 46109586--46110145 Score: 985
Period size: 175 Copynumber: 3.2 Consensus size: 175
46109576 AGATTTAATA
*
46109586 CGATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCT
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCT
* * * *
46109651 CAGGGAGATAGGATTACCAGCTTCAATCTGCTCCGCTGCAGTCTCAGGGAGATAAGATCTGAAAA
66 CAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
46109716 TCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
131 TCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
* **
46109761 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCCTGGTTTTAATCCGCTCCACTGTAATCT
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCT
*
46109826 CAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT
66 CAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
46109891 TCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
131 TCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
*
46109936 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCT
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCT
* * *
46110001 CAGGGAGATAGGATTACTAGCTTCGATCTGCTCCGCTATAATCTCAGGGAGATAAGATCTGACAT
66 CAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
**
46110066 TCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGACG
131 TCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
46110111 CGATCTACTCTACTGTAACTTCAGAGAGATAAGAT
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGAT
46110146 ATGAAATTCT
Statistics
Matches: 366, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
175 366 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (175 bp):
CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCT
CAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
TCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
Found at i:46109927 original size:46 final size:46
Alignment explanation
Indices: 46109636--46110342 Score: 290
Period size: 44 Copynumber: 16.2 Consensus size: 46
46109626 ATTTTAATCC
* * * *
46109636 GCTCCACTGTAATCTCAGGGAGATAGGAT-T-ACCA-GCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGA-AATTCTTCGATCT
* * * * *
46109680 GCTCCGCTGCAGTCTCAGGGAGATAAGATCTGAAAATCTTCGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGATCT
* * * * *
46109726 GTTCCACTGTAATCTCAGGGAAATAAGACCTG-----GTGCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGATCT
* * * * * *
46109767 ACTCTACTGTAA-CTTCAGAGAGATAAGATCCCTG--GTT-TT-AATCC
1 GCTCCACTGTAATC-TCAGGGAGATAAGAT--CTGAAATTCTTCGATCT
* * * *
46109811 GCTCCACTGTAATCTCAGGGAGATAGGAT-T--ACTAGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT-TCTTCGATCT
*
46109855 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGATCT
* * * * *
46109901 GTTCCACTGTAATCTCAGGGAAATAAGACCTG-----GTGCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGATCT
* * * ** * *
46109942 ACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTATT-TT-AATCC
1 GCTCCACTGTAATC-TCAGGGAGATAAGAT-CTGAAATTCTTCGATCT
* * * *
46109986 ACTCCACTGTAATCTCAGGGAGATAGGAT-T--ACTAGCTTCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT-TCTTCGATCT
* * * *
46110030 GCTCCGCTATAATCTCAGGGAGATAAGATCTGACATTCTTCGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGATCT
* * * *
46110076 GTTCCACTGTAATCTCAGGGAAATAAGACCTG--A--C-GCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGATCT
* * * * * *
46110117 ACTCTACTGTAA-CTTCAGAGAGATAAGATATGAAATTCTTTGGTCT
1 GCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAATTCTTCGATCT
* * * *
46110163 GTTCCACTGTAATCTCAGGGAAATAAGACCTG--A--C-GCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGATCT
* * * * * *
46110204 ACTCTACTGTAA-CTTCAGAGAGATAATATCCTTG--GTT-TT-AATCT
1 GCTCCACTGTAATC-TCAGGGAGATAAGAT-C-TGAAATTCTTCGATCT
* * *
46110248 ACTCCACTGTAATCTCAGGGAGATAGGA--T--AGTGTCTTCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT-TCTTCGATCT
* * ** *
46110291 ACTCCGCTGTAATCTCAGGGAGATAAGATCTCTAA-T-TTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGATCT
46110335 GCTCCACT
1 GCTCCACT
46110343 ACAACCGATG
Statistics
Matches: 493, Mismatches: 117, Indels: 106
0.69 0.16 0.15
Matches are distributed among these distances:
40 7 0.01
41 110 0.22
42 8 0.02
43 40 0.08
44 179 0.36
45 12 0.02
46 132 0.27
47 5 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (46 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGATCT
Found at i:46110143 original size:41 final size:41
Alignment explanation
Indices: 46110081--46110229 Score: 113
Period size: 41 Copynumber: 3.5 Consensus size: 41
46110071 GGTCTGTTCC
*
46110081 ACTGTAATCTCAGGGAAATAAGACCTGACGCGATCTACTCT
1 ACTGTAATCTCAGAGAAATAAGACCTGACGCGATCTACTCT
* ** ** * ** *
46110122 ACTGTAA-CTTCAGAGAGATAAGATATGAAATTCTTTGGTCTGTTCC
1 ACTGTAATC-TCAGAGAAATAAGACCTG--A--C-GCGATCTACTCT
*
46110168 ACTGTAATCTCAGGGAAATAAGACCTGACGCGATCTACTCT
1 ACTGTAATCTCAGAGAAATAAGACCTGACGCGATCTACTCT
*
46110209 ACTGTAA-CTTCAGAGAGATAA
1 ACTGTAATC-TCAGAGAAATAA
46110230 TATCCTTGGT
Statistics
Matches: 78, Mismatches: 22, Indels: 16
0.67 0.19 0.14
Matches are distributed among these distances:
40 2 0.03
41 44 0.56
42 1 0.01
43 1 0.01
44 1 0.01
45 1 0.01
46 27 0.35
47 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (41 bp):
ACTGTAATCTCAGAGAAATAAGACCTGACGCGATCTACTCT
Found at i:46110156 original size:262 final size:261
Alignment explanation
Indices: 46109851--46110321 Score: 775
Period size: 262 Copynumber: 1.8 Consensus size: 261
46109841 ACTAGCTTCA
* * *
46109851 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCT
1 ATCTACTCCACTGTAATCTCAGAGAGATAAGATATGAAATTCTTCGGTCTGTTCCACTGTAATCT
** *
46109916 CAGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTT
66 CAGGGAAATAAGACCTGACGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGATTTT
*
46109981 AATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAG-CTTCGATCTGCTCCGCTATAATCT
131 AATCCACTCCACTGTAATCTCAGGGAGATAGGA-TACT-GTCTTCGATCTACTCCGCTATAATCT
46110045 CAGGGAGATAAGATCTGACATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGAC
194 CAGGGAGATAAGATCTGACATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGAC
46110110 GCG
259 GCG
* *
46110113 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATATGAAATTCTTTGGTCTGTTCCACTGTAATC
1 ATCTACTCCACTGTAATC-TCAGAGAGATAAGATATGAAATTCTTCGGTCTGTTCCACTGTAATC
* *
46110177 TCAGGGAAATAAGACCTGACGCGATCTACTCTACTGTAACTTCAGAGAGATAATATCCTTGGTTT
65 TCAGGGAAATAAGACCTGACGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGATTT
* * *
46110242 TAATCTACTCCACTGTAATCTCAGGGAGATAGGATAGTGTCTTCGATCTACTCCGCTGTAATCTC
130 TAATCCACTCCACTGTAATCTCAGGGAGATAGGATACTGTCTTCGATCTACTCCGCTATAATCTC
46110307 AGGGAGATAAGATCT
195 AGGGAGATAAGATCT
46110322 CTAATTTCAA
Statistics
Matches: 193, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
260 1 0.01
261 42 0.22
262 150 0.78
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (261 bp):
ATCTACTCCACTGTAATCTCAGAGAGATAAGATATGAAATTCTTCGGTCTGTTCCACTGTAATCT
CAGGGAAATAAGACCTGACGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGATTTT
AATCCACTCCACTGTAATCTCAGGGAGATAGGATACTGTCTTCGATCTACTCCGCTATAATCTCA
GGGAGATAAGATCTGACATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGACGC
G
Found at i:46110170 original size:87 final size:87
Alignment explanation
Indices: 46109694--46110229 Score: 536
Period size: 87 Copynumber: 6.1 Consensus size: 87
46109684 CGCTGCAGTC
* * *
46109694 TCAGGGAGATAAGATCTGAAAATCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGG
1 TCAGAGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGA
*
46109759 TGCGATCTACTCTACTGTAACT
66 CGCGATCTACTCTACTGTAACT
* ** * * * * *
46109781 TCAGAGAGATAAGATCCCTG--GTT-TT-AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTA
1 TCAGAGAGATAAGAT--CTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGA--C
* * * *
46109842 CT-AGCTTCAATCTGCTCCACTGTAA-T
62 CTGA-C-GCGATCTACTCTACTGTAACT
*
46109868 CTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTG
1 -TCAGAGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTG
**
46109933 GTGCGATCTACTCTACTGTAACT
65 ACGCGATCTACTCTACTGTAACT
** ** *** * * *
46109956 TCAGAGAGATAAGATCCT-TTATT-TT-AATCCACTCCACTGTAATCTCAGGGAGATAGGATTAC
1 TCAGAGAGATAAGAT-CTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGA--CC
* * ** *
46110018 T-AGCTTCGATCTGCTCCGCTATAA-T
63 TGA-C-GCGATCTACTCTACTGTAACT
* *
46110043 CTCAGGGAGATAAGATCTGACATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTG
1 -TCAGAGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTG
46110108 ACGCGATCTACTCTACTGTAACT
65 ACGCGATCTACTCTACTGTAACT
* *
46110131 TCAGAGAGATAAGATATGAAATTCTTTGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGA
1 TCAGAGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGA
46110196 CGCGATCTACTCTACTGTAACT
66 CGCGATCTACTCTACTGTAACT
46110218 TCAGAGAGATAA
1 TCAGAGAGATAA
46110230 TATCCTTGGT
Statistics
Matches: 356, Mismatches: 69, Indels: 48
0.75 0.15 0.10
Matches are distributed among these distances:
85 53 0.15
86 7 0.02
87 164 0.46
88 71 0.20
89 8 0.02
90 53 0.15
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (87 bp):
TCAGAGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGA
CGCGATCTACTCTACTGTAACT
Found at i:46110289 original size:87 final size:85
Alignment explanation
Indices: 46109586--46110342 Score: 500
Period size: 87 Copynumber: 8.7 Consensus size: 85
46109576 AGATTTAATA
* * *
46109586 CGATCTACTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCT
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGATTTTAATCTGCTCCACTGTAATCT
* * * *
46109651 CAGGGAGATAGGATTACCAGCTT
66 CAGGGAAATAAGA--A-CTGCTG
* * ** * * * *** *
46109674 CAATCTGCTCCGCTG-CAGTCTCAGGGAGATAAGAT-C-TGAAAATCTTCGGTCTGTTCCACTGT
1 CGATCTACTCTACTGTAACT-TCAGAGAGATAAGATCCTTG---AT-TTTAATCTGCTCCACTGT
* *
46109736 AATCTCAGGGAAATAAGACCTGGTG
61 AATCTCAGGGAAATAAGAACTGCTG
* * *
46109761 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCCTGGTTTTAATCCGCTCCACTGTAATCT
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGATTTTAATCTGCTCCACTGTAATCT
* * *
46109826 CAGGGAGATAGGATTACTAGCTT
66 CAGGGAAATAAGA--ACT-GCTG
* * * * ** *
46109849 CAATCTGCTCCACTGTAA-TCTCAGGGAGATAAGAT-C-TGAAATTCTTCGGTCTGTTCCACTGT
1 CGATCTACTCTACTGTAACT-TCAGAGAGATAAGATCCTTG--ATT-TT-AATCTGCTCCACTGT
* *
46109911 AATCTCAGGGAAATAAGACCTGGTG
61 AATCTCAGGGAAATAAGAACTGCTG
* **
46109936 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCT
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGATTTTAATCTGCTCCACTGTAATCT
* * *
46110001 CAGGGAGATAGGATTACTAGCTT
66 CAGGGAAATAAGA--ACT-GCTG
* ** * * ** *
46110024 CGATCTGCTCCGCTATAA-TCTCAGGGAGATAAGAT-C-TGACATTCTTCGGTCTGTTCCACTGT
1 CGATCTACTCTACTGTAACT-TCAGAGAGATAAGATCCTTG--ATT-TT-AATCTGCTCCACTGT
*
46110086 AATCTCAGGGAAATAAGACCTGAC-G
61 AATCTCAGGGAAATAAGAACTG-CTG
* ** *
46110111 CGATCTACTCTACTGTAACTTCAGAGAGATAAGAT--ATGAAATTCTTTGGTCTGTTCCACTGTA
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTG--A-T-TTTAATCTGCTCCACTGTA
*
46110174 ATCTCAGGGAAATAAGACCTGAC-G
62 ATCTCAGGGAAATAAGAACTG-CTG
* * *
46110198 CGATCTACTCTACTGTAACTTCAGAGAGATAATATCCTTGGTTTTAATCTACTCCACTGTAATCT
1 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGATTTTAATCTGCTCCACTGTAATCT
* * * *
46110263 CAGGGAGATAGGATAGTGTCTT
66 CAGGGAAATAAGA-ACTG-CTG
** * * *
46110285 CGATCTACTCCGCTGTAA-TCTCAGGGAGATAAGAT-CTCTAATTTCAATCTGCTCCACT
1 CGATCTACTCTACTGTAACT-TCAGAGAGATAAGATCCT-TGATTTTAATCTGCTCCACT
46110343 ACAACCGATG
Statistics
Matches: 522, Mismatches: 109, Indels: 77
0.74 0.15 0.11
Matches are distributed among these distances:
85 85 0.16
86 14 0.03
87 225 0.43
88 104 0.20
89 12 0.02
90 82 0.16
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (85 bp):
CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGATTTTAATCTGCTCCACTGTAATCT
CAGGGAAATAAGAACTGCTG
Found at i:46110489 original size:44 final size:44
Alignment explanation
Indices: 46110441--46110578 Score: 108
Period size: 44 Copynumber: 3.2 Consensus size: 44
46110431 CAACCGATGG
46110441 AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGA
1 AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGA
* * * * * * *
46110485 AGGCAAGATCATT-TATCTTCAACCAGC-TC-C-ATCACA-ACCGAGA
1 AGGCAAGGT--TTGTGTCTTCGACCTGCTTCGCTGTCA-ATGCAG-GA
*
46110528 GAGGCAAGGTTTGCGTCTTCGA-CTGCTTCGCTGTCAATGCAGGA
1 -AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGA
*
46110572 TGGCAAG
1 AGGCAAG
46110579 ATCATTTATC
Statistics
Matches: 68, Mismatches: 16, Indels: 21
0.65 0.15 0.20
Matches are distributed among these distances:
42 10 0.15
43 18 0.26
44 22 0.32
45 16 0.24
46 2 0.03
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (44 bp):
AGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGA
Found at i:46110502 original size:88 final size:87
Alignment explanation
Indices: 46110335--46110612 Score: 379
Period size: 87 Copynumber: 3.2 Consensus size: 87
46110325 ATTTCAATCT
* * *
46110335 GCTCCACTACAACCGATGGAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGTTGTTAACGCAGGAA
1 GCTCCACTACAACCGATGGAGGCAAGG-TTTGTGTCTTCGA-CTGCTTCGCTGTCAATGCAGGAA
* *
46110398 GGCAAGATC-TGCTATCTTCAACTA
64 GGCAAGATCAT-TTATCTTCAACCA
*
46110422 GCTCCACTGCAACCGATGGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAG
1 GCTCCACTACAACCGATGGAGGCAAGGTTTGTGTCTTCGA-CTGCTTCGCTGTCAATGCAGGAAG
46110487 GCAAGATCATTTATCTTCAACCA
65 GCAAGATCATTTATCTTCAACCA
* *
46110510 GCTCCA-TCACAACCGA-GAGAGGCAAGGTTTGCGTCTTCGACTGCTTCGCTGTCAATGCAGGAT
1 GCTCCACT-ACAACCGATG-GAGGCAAGGTTTGTGTCTTCGACTGCTTCGCTGTCAATGCAGGAA
46110573 GGCAAGATCATTTATCTTCAACCA
64 GGCAAGATCATTTATCTTCAACCA
46110597 GCTCCA-TCACAACCGA
1 GCTCCACT-ACAACCGA
46110613 GANNNNNNNN
Statistics
Matches: 176, Mismatches: 10, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
86 5 0.03
87 91 0.52
88 79 0.45
89 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (87 bp):
GCTCCACTACAACCGATGGAGGCAAGGTTTGTGTCTTCGACTGCTTCGCTGTCAATGCAGGAAGG
CAAGATCATTTATCTTCAACCA
Found at i:46110849 original size:44 final size:43
Alignment explanation
Indices: 46110741--46110899 Score: 126
Period size: 44 Copynumber: 3.7 Consensus size: 43
46110731 TCTTCGGTCT
* * * * *
46110741 ACTCCACTGTAACCTCAGGGAGATAAGA-CCTGAC-GCGATCT
1 ACTCCACTGTAATCTCAGGGAGATAAGATCCTAACTTCAATCC
** * * * *
46110782 ACTCTGCTGTAA-CTTCAGAGAGATAAGATCCTTCATTTTAATCC
1 ACTCCACTGTAATC-TCAGGGAGATAAGATCC-TAACTTCAATCC
* *
46110826 ACTCCACTGTAATCTCAGGGAGATAAGATTACTAACTTCAATCT
1 ACTCCACTGTAATCTCAGGGAGATAAGA-TCCTAACTTCAATCC
* * *
46110870 GCTCCGCTGTAATCTCAAGGAGATAAGATC
1 ACTCCACTGTAATCTCAGGGAGATAAGATC
46110900 TGAAATTCTT
Statistics
Matches: 91, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
40 1 0.01
41 23 0.25
42 2 0.02
43 3 0.03
44 59 0.65
45 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
ACTCCACTGTAATCTCAGGGAGATAAGATCCTAACTTCAATCC
Found at i:46111018 original size:88 final size:88
Alignment explanation
Indices: 46110925--46111253 Score: 550
Period size: 88 Copynumber: 3.7 Consensus size: 88
46110915 AGCTCCACTG
* * *
46110925 CAACCGAGAGAGGTAAGGTTTGTGTCTTTGACCTGCTTCGCTGTCAATACAGGAAGGCAAGATCT
1 CAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGAAAGGCAAGATCT
*
46110990 TTTATCTTCAACCAGCTCTATCA
66 TTTGTCTTCAACCAGCTCTATCA
* *
46111013 CAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
1 CAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGAAAGGCAAGATCT
*
46111078 TTTGTCTTCAACTAGCTCTATCA
66 TTTGTCTTCAACCAGCTCTATCA
*
46111101 CAACCGAGAGAGGCAAGGTTTGTGTTTTCGACCTGCTTCGCTGTCAATACAGAAAGGCAAGATCT
1 CAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGAAAGGCAAGATCT
*
46111166 TTTGTCTTCAACCAGCTCCATCA
66 TTTGTCTTCAACCAGCTCTATCA
* * *
46111189 AAATCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGAAAGGCAAGATCT
1 CAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGAAAGGCAAGATCT
46111254 GCAACTTCAT
Statistics
Matches: 227, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 227 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (88 bp):
CAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGAAAGGCAAGATCT
TTTGTCTTCAACCAGCTCTATCA
Found at i:46111071 original size:44 final size:44
Alignment explanation
Indices: 46110939--46111249 Score: 198
Period size: 44 Copynumber: 7.1 Consensus size: 44
46110929 CGAGAGAGGT
*
46110939 AAGGTTTGTGTCTTTGACCTGCTTCGCTGTCAATACAGGAAGGC
1 AAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGGAAGGC
* * * * * * *
46110983 AAGATCTTTTATCTTCAACCAGC-T--CTATCACA-ACCGAGAGAGGC
1 AAGGT-TTGTGTCTTCGACCTGCTTCGCTGTCA-ATACAG-GA-AGGC
*
46111027 AAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGC
1 AAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGGAAGGC
* * * * *
46111071 AAGATCTTTTGTCTTC-AACTAGC-T--CTATCACA-ACCGAGAGAGGC
1 AAGGT-TTGTGTCTTCGACCT-GCTTCGCTGTCA-ATACAG-GA-AGGC
* *
46111115 AAGGTTTGTGTTTTCGACCTGCTTCGCTGTCAATACAGAAAGGC
1 AAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGGAAGGC
* * * * * * *
46111159 AAGATCTTTTGTCTTCAACCAGC-TC-C-ATCAAAATC-GAAAGAGGC
1 AAGGT-TTGTGTCTTCGACCTGCTTCGCTGTCAATA-CAG-GA-AGGC
*
46111203 AAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGAAAGGC
1 AAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGGAAGGC
46111247 AAG
1 AAG
46111250 ATCTGCAACT
Statistics
Matches: 199, Mismatches: 42, Indels: 52
0.68 0.14 0.18
Matches are distributed among these distances:
42 21 0.11
43 47 0.24
44 65 0.33
45 45 0.23
46 21 0.11
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (44 bp):
AAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGGAAGGC
Found at i:46112364 original size:21 final size:21
Alignment explanation
Indices: 46112338--46112384 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
46112328 GGTATAGCAG
*
46112338 GATCACCACATGCCCTAATCT
1 GATCACCACATGCCCCAATCT
** *
46112359 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
46112380 GATCA
1 GATCA
46112385 ATATATGAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.36, G:0.11, T:0.28
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:46116121 original size:44 final size:43
Alignment explanation
Indices: 46116073--46116473 Score: 131
Period size: 44 Copynumber: 9.1 Consensus size: 43
46116063 AGACACAAAC
46116073 CTTGCCTCTCTCGATTTTGATGGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTCTCTCG-TTTTGATGGAGCTGGTTGAAGACAAAAGAT
* * * * * * * *
46116117 CTTGCCTTTCT-GTATTGACAGCGAAGCAGGTCGAAAACACAA-AC
1 CTTGCCTCTCTCGTTTTGA-TG-G-AGCTGGTTGAAGACAAAAGAT
* *
46116161 CTTGCCTCTCTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTCTCTC-GTTTTGATGGAGCTGGTTGAAGACAAAAGAT
** * * * * **
46116205 CTTGCCT-TC-CTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CC
1 CTTGCCTCTCTC-GTTTTGA-TG-G-AGCTGGTTGAAGACA-AAAGAT
* * * * *
46116250 CTTACCTCCCTCGGTTATGATAGAGCTGGTTGAAGACAACAGAT
1 CTTGCCTCTCTC-GTTTTGATGGAGCTGGTTGAAGACAAAAGAT
* *** * * * *
46116294 CTTGCCATC-CTACATTGACAGTGAAG-TAGGTCGAAGACACAA-AC
1 CTTGCC-TCTCT-CGTTTTGA-TGGAGCT-GGTTGAAGACAAAAGAT
* *
46116338 CTTGCCTCTCTCGGTTGTGATGGAGCGTGGTGGAAGACAAAAGAT
1 CTTGCCTCTCTC-GTTTTGATGGAGC-TGGTTGAAGACAAAAGAT
* * * * * * *
46116383 CCTGCCT-TC-CTGTATTGAAAGCGAAGCAGGTCGAAGACACAA-AC
1 CTTGCCTCTCTC-GTTTTG-ATG-G-AGCTGGTTGAAGACAAAAGAT
* * * *
46116427 CTTACCTCCCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAAAT
1 CTTGCCTCTCTC-GTTTTGATGGAGCTGGTTGAAGACAAAAGAT
46116471 CTT
1 CTT
46116474 ACCTTCCTGC
Statistics
Matches: 248, Mismatches: 81, Indels: 56
0.64 0.21 0.15
Matches are distributed among these distances:
42 10 0.04
43 47 0.19
44 95 0.38
45 74 0.30
46 17 0.07
47 5 0.02
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (43 bp):
CTTGCCTCTCTCGTTTTGATGGAGCTGGTTGAAGACAAAAGAT
Found at i:46116187 original size:88 final size:88
Alignment explanation
Indices: 46116025--46117023 Score: 1406
Period size: 88 Copynumber: 11.3 Consensus size: 88
46116015 ATGAAGTTGC
* * * *
46116025 AGATCTTGCCTTTCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGATTT
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
46116090 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * *
46116113 AGATCTTGCCTTTCTGTATTGACAGCGAAGCAGGTCGAAAACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
46116178 TGATAGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * *
46116201 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCCTTACCTCCCTCGGTT
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAA-CCTTGCCTCTCTCGGTT
* * *
46116266 ATGATAGAGCTGGTTGAAGACAAC
65 GTGATGGAGCTGGTTGAAGACAAA
* * * *
46116290 AGATCTTGCCATCCTACATTGACAGTGAAGTAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
46116355 TGATGGAGCGTGGTGGAAGACAAA
66 TGATGGAGC-TGGTTGAAGACAAA
* * * * *
46116379 AGATCCTGCCTTCCTGTATTGAAAGCGAAGCAGGTCGAAGACACAAACCTTACCTCCCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
46116444 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * * * * * *
46116467 AAATCTTACCTTCCTGCATTGACAGCGAATCAGATCGAAGACACAAGCCCTGCCTCCCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
46116532 TGATGGAGCTGGTTGAAGACAAC
66 TGATGGAGCTGGTTGAAGACAAA
* *
46116555 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCAAAGACACAAACCTTGCCACTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
* * *
46116620 TGATTGAGCTTGTTGAAGACAAC
66 TGATGGAGCTGGTTGAAGACAAA
* * * *
46116643 AGATCTTTCCTTCCTGCATTGACAGCGAGGCAGGTCGAATACGCAAACCTAT-CCTCTCTCGGTT
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCT-TGCCTCTCTCGGTT
46116707 GTGATGGAGCTGGTTGAAGACAAA
65 GTGATGGAGCTGGTTGAAGACAAA
* * * *
46116731 ACATCTTGCGTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACTTTGCCTCCCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
46116796 TGATGGAGCTTGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * * * * * * * *
46116819 AAATCTTACCTTCCTGCATCGACAGCGAATCAGATCGAAGACACAAGCCCTACCTCCCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
46116884 TGATGGAGCTGGTTGAAGACAAC
66 TGATGGAGCTGGTTGAAGACAAA
* * * * *
46116907 CGATCTTGCCTTCCTCCATTGACAGCGAAGCAAGTCGAAGACACAAATCTTACCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
46116972 TGATAGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
46116995 AGATCTTGCCTTCCTGCATTGACAGCGAA
1 AGATCTTGCCTTCCTGCATTGACAGCGAA
46117024 NNNNNNNNNN
Statistics
Matches: 806, Mismatches: 101, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
87 1 0.00
88 648 0.80
89 157 0.19
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.24
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
TGATGGAGCTGGTTGAAGACAAA
Found at i:46117345 original size:44 final size:44
Alignment explanation
Indices: 46117248--46117696 Score: 201
Period size: 44 Copynumber: 10.2 Consensus size: 44
46117238 AAGAATGTCA
* * ** * *
46117248 GATCTTATCTCCCTGAGATTATAGCGGAGCAGA-TCGAAGCTAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATCAAG
* * ** *
46117291 TAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATCAAG
* * * *** *
46117336 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGCA-CCAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATCAAG
* * **
46117378 G-TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTC-A-
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--TCAAG
* * *
46117423 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-GAAGCTAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATCAAG
* * * * *
46117466 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACCAGG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATCAAG
* * * *** *
46117511 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGCA-CCAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATCAAG
* * ** *
46117553 G-TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGATTTTC-A-
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-A--ATCAAG
* * * * * *
46117598 GATCTTATCTCCCTGAGACTGCAGCGGAGCAGATT-GAAGC-TG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATCAAG
* * *
46117640 GTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
1 G--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATCAAG
46117686 GATCTTATCTC
1 GATCTTATCTC
46117697 TTTGAAGTTA
Statistics
Matches: 292, Mismatches: 85, Indels: 56
0.67 0.20 0.13
Matches are distributed among these distances:
41 50 0.17
42 10 0.03
43 9 0.03
44 149 0.51
45 13 0.04
46 59 0.20
47 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATCAAG
Found at i:46117517 original size:175 final size:175
Alignment explanation
Indices: 46117226--46117721 Score: 875
Period size: 175 Copynumber: 2.8 Consensus size: 175
46117216 GTACAGACCC
* * *
46117226 TGGAACAGACCGAAGAATGTCAGATCTTATCTCCCTGAGATTATAGCGGAGCAGATCGAAGCTAG
1 TGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAG
*
46117291 TAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTT
66 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTT
46117356 ACAGTAGAGTAGATCGCACCAGGTCTTATTTCCCTGAGATTACAG
131 ACAGTAGAGTAGATCGCACCAGGTCTTATTTCCCTGAGATTACAG
*
46117401 TGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAG
1 TGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAG
** *
46117466 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACCAGGGATCTTATCTCTCTGAAGTT
66 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTT
46117531 ACAGTAGAGTAGATCGCACCAGGTCTTATTTCCCTGAGATTACAG
131 ACAGTAGAGTAGATCGCACCAGGTCTTATTTCCCTGAGATTACAG
* * * *
46117576 TGGAACAGACCGAAGATTTTCAGATCTTATCTCCCTGAGACTGCAGCGGAGCAGATTGAAGCTGG
1 TGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAG
*
46117641 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTTTGAAGTT
66 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTT
46117706 ACAGTAGAGTAGATCG
131 ACAGTAGAGTAGATCG
46117722 TATTAAATCT
Statistics
Matches: 304, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
175 304 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (175 bp):
TGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAG
TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTT
ACAGTAGAGTAGATCGCACCAGGTCTTATTTCCCTGAGATTACAG
Found at i:46117889 original size:95 final size:95
Alignment explanation
Indices: 46117772--46117950 Score: 306
Period size: 95 Copynumber: 1.9 Consensus size: 95
46117762 AATATGGTGA
*
46117772 ATTTTACCTCCCTGTGACTATAGTGGAGTACATTGAAGCC-GATAATTCTATCTCCCTGGTTGGC
1 ATTTTACCTCCCTGTGACTATAGTGGAGTACAGTGAAGCCAG-TAATTCTATCTCCCTGGTTGGC
*
46117836 AGTGGAATAGATTACAGATTGAAAATGGCAG
65 AGTGGAATAGATTAAAGATTGAAAATGGCAG
* *
46117867 ATTTTACCTCCCTGTGATTATAGTGGAGTATAGTGAAGCCAGTAATTCTATCTCCCTGGTTGGCA
1 ATTTTACCTCCCTGTGACTATAGTGGAGTACAGTGAAGCCAGTAATTCTATCTCCCTGGTTGGCA
46117932 GTGGAATAGATTAAAGATT
66 GTGGAATAGATTAAAGATT
46117951 CTAGATTCTG
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
95 78 0.99
96 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (95 bp):
ATTTTACCTCCCTGTGACTATAGTGGAGTACAGTGAAGCCAGTAATTCTATCTCCCTGGTTGGCA
GTGGAATAGATTAAAGATTGAAAATGGCAG
Found at i:46132805 original size:41 final size:41
Alignment explanation
Indices: 46132748--46132895 Score: 226
Period size: 41 Copynumber: 3.6 Consensus size: 41
46132738 NNNNNNNNNN
*
46132748 ACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCA-ATC
1 ACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT-CAGATC
*
46132789 ACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATC
1 ACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATC
* *
46132830 ACCGGCACTTAGCCTGTTAGGTTTATAACCTGATTCAGATC
1 ACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATC
* *
46132871 ACCGGAACTTAGCCTGCTAGACTTA
1 ACCGGCACTTAGCCTGCTAGGCTTA
46132896 AAGTCCGAAT
Statistics
Matches: 99, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 2 0.02
41 97 0.98
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (41 bp):
ACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATC
Found at i:46132914 original size:82 final size:82
Alignment explanation
Indices: 46132748--46132944 Score: 226
Period size: 82 Copynumber: 2.4 Consensus size: 82
46132738 NNNNNNNNNN
* * * **
46132748 ACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCAATCACCGGCACTTAGCCTGCTAGGTTT
1 ACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCCAATCACCGGAACTTAGCCTGCTAGACTT
46132813 ATAACCTGATTCAGATC
66 ATAACCTGATTCAGATC
*
46132830 ACCGGCACTTAGCCTGTTAGGTTTATAACCTGATT-CAGATCACCGGAACTTAGCCTGCTAGACT
1 ACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCCA-ATCACCGGAACTTAGCCTGCTAGACT
**
46132894 TA-AAGTCC-GAATT-ATTTC
65 TATAA--CCTG-ATTCAGATC
46132912 ACCGGC-CTTAAGCCTGCTAGGTTT-TAAACCTGA
1 ACCGGCACTT-AGCCTGCTAGGTTTAT-AACCTGA
46132945 AAATTTTAAT
Statistics
Matches: 100, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
81 8 0.08
82 87 0.87
83 5 0.05
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (82 bp):
ACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCCAATCACCGGAACTTAGCCTGCTAGACTT
ATAACCTGATTCAGATC
Found at i:46133203 original size:34 final size:34
Alignment explanation
Indices: 46133150--46133230 Score: 85
Period size: 34 Copynumber: 2.4 Consensus size: 34
46133140 ACATATATAT
* *
46133150 ATATATATAT-TCACCTATTCGAA-ACTAACTATAC
1 ATATATATATGT-ACGTATTC-AATACTAACCATAC
* * *
46133184 ATATATATTTGTACGTATTCAATACTACCCATAT
1 ATATATATATGTACGTATTCAATACTAACCATAC
46133218 ATATATATATGTA
1 ATATATATATGTA
46133231 AACTTAACAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
33 2 0.05
34 36 0.92
35 1 0.03
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.40
Consensus pattern (34 bp):
ATATATATATGTACGTATTCAATACTAACCATAC
Found at i:46133997 original size:16 final size:16
Alignment explanation
Indices: 46133976--46134013 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
46133966 NNNNCACAAC
* *
46133976 AATTTTGAAACATGAG
1 AATTTTAAAACACGAG
46133992 AATTTTAAAACACGAG
1 AATTTTAAAACACGAG
46134008 AATTTT
1 AATTTT
46134014 TTTTGAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (16 bp):
AATTTTAAAACACGAG
Found at i:46134559 original size:14 final size:14
Alignment explanation
Indices: 46134542--46134582 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 14
46134532 AAGTTGTGGG
46134542 CCCTTTTCTTTTTT
1 CCCTTTTCTTTTTT
46134556 CCC-TTT-TTTTTT
1 CCCTTTTCTTTTTT
*
46134568 CTCTTTTCCTTTTTT
1 CCCTTTT-CTTTTTT
46134583 TTCTGCTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
12 8 0.35
13 6 0.26
14 3 0.13
15 6 0.26
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (14 bp):
CCCTTTTCTTTTTT
Found at i:46134578 original size:18 final size:19
Alignment explanation
Indices: 46134545--46134584 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
46134535 TTGTGGGCCC
*
46134545 TTTTCTTTTTTCCCTTTTT
1 TTTTCTCTTTTCCCTTTTT
46134564 TTTTCTCTTTT-CCTTTTT
1 TTTTCTCTTTTCCCTTTTT
46134582 TTT
1 TTT
46134585 CTGCTGGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTCTCTTTTCCCTTTTT
Found at i:46134919 original size:4 final size:4
Alignment explanation
Indices: 46134907--46134989 Score: 82
Period size: 4 Copynumber: 20.5 Consensus size: 4
46134897 ATTTATTTTA
* * *
46134907 TTTC TTTTC TTTCC TTTT TTTC TCTTT TTTC TTTC TTTT TCTTC TTTC
1 TTTC -TTTC TTT-C TTTC TTTC T-TTC TTTC TTTC TTTC T-TTC TTTC
46134955 TTT- TTTC TTTC TTTC TTTC -TTC TTTC TTT- TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
46134990 CCTTCTCCGT
Statistics
Matches: 66, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
3 9 0.14
4 43 0.65
5 14 0.21
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:46134927 original size:22 final size:21
Alignment explanation
Indices: 46134902--46134986 Score: 90
Period size: 22 Copynumber: 4.1 Consensus size: 21
46134892 AATTTATTTA
*
46134902 TTTTATTTCTTTTCTTTCCTTT
1 TTTTCTTTCTTTTCTTT-CTTT
46134924 TTTTCTCTT-TTTTCTTTCTTT
1 TTTTCT-TTCTTTTCTTTCTTT
46134945 TTCTTCTTTC-TTT-TTTCTTT
1 TT-TTCTTTCTTTTCTTTCTTT
*
46134965 CTTTCTTTC--TTCTTTCTTT
1 TTTTCTTTCTTTTCTTTCTTT
46134984 TTT
1 TTT
46134987 CTTCCTTCTC
Statistics
Matches: 56, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
18 2 0.04
19 16 0.29
20 8 0.14
21 11 0.20
22 17 0.30
23 2 0.04
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTCTTTCTTTTCTTTCTTT
Found at i:46134944 original size:26 final size:24
Alignment explanation
Indices: 46134907--46134989 Score: 96
Period size: 26 Copynumber: 3.2 Consensus size: 24
46134897 ATTTATTTTA
46134907 TTTCTTTTCTTTCCTTTTTTTCTCTTT
1 TTTC-TTTCTTT-CTTTTTTT-TCTTT
*
46134934 TTTCTTTCTTT-TTCTTCTTTCTTT
1 TTTCTTTCTTTCTT-TTTTTTCTTT
46134958 TTTCTTTCTTTCTTTCTTCTTTCTTT
1 TTTCTTTCTTTCTTT-TT-TTTCTTT
46134984 TTTCTT
1 TTTCTT
46134990 CCTTCTCCGT
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
24 19 0.38
25 7 0.14
26 20 0.40
27 4 0.08
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTCTTTCTTTCTTTTTTTTCTTT
Found at i:46134980 original size:7 final size:7
Alignment explanation
Indices: 46134925--46134995 Score: 71
Period size: 7 Copynumber: 10.7 Consensus size: 7
46134915 CTTTCCTTTT
46134925 TTTC-TC
1 TTTCTTC
*
46134931 TTTTTTC
1 TTTCTTC
46134938 TTTCTT-
1 TTTCTTC
46134944 TTTCTTC
1 TTTCTTC
46134951 TTTC-T-
1 TTTCTTC
46134956 TTT-TTC
1 TTTCTTC
46134962 TTTCTTTC
1 TTTC-TTC
46134970 TTTCTTC
1 TTTCTTC
*
46134977 TTTCTTT
1 TTTCTTC
46134984 TTTCTTC
1 TTTCTTC
*
46134991 CTTCT
1 TTTCT
46134996 CCGTTCAGCA
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
5 4 0.07
6 13 0.24
7 30 0.56
8 7 0.13
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTCTTC
Found at i:46135119 original size:22 final size:24
Alignment explanation
Indices: 46135094--46135149 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 24
46135084 CCCCCTTTTC
46135094 CTTTTTCTTTTTCT-TCTTTGC-T-
1 CTTTTTCTTTTTCTCT-TTTGCTTG
*
46135116 CTTTCTCTTTTTCTCTTTTGCTTG
1 CTTTTTCTTTTTCTCTTTTGCTTG
46135140 CTTTTTCTTT
1 CTTTTTCTTT
46135150 GTTTTTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 18 0.62
23 2 0.07
24 9 0.31
ACGTcount: A:0.00, C:0.23, G:0.05, T:0.71
Consensus pattern (24 bp):
CTTTTTCTTTTTCTCTTTTGCTTG
Found at i:46139902 original size:13 final size:13
Alignment explanation
Indices: 46139884--46139911 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
46139874 ATTTAGTATT
46139884 TATATAATAAATA
1 TATATAATAAATA
46139897 TATATAATAAATA
1 TATATAATAAATA
46139910 TA
1 TA
46139912 CTTTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TATATAATAAATA
Found at i:46141188 original size:11 final size:11
Alignment explanation
Indices: 46141136--46141196 Score: 55
Period size: 12 Copynumber: 6.0 Consensus size: 11
46141126 ATATAATAAA
46141136 AAATATTTTTT
1 AAATATTTTTT
46141147 --ATATTTTTT
1 AAATATTTTTT
46141156 -AA-A--TTTT
1 AAATATTTTTT
46141163 AAA-ATTTTTT
1 AAATATTTTTT
46141173 AAAATATTTTTT
1 -AAATATTTTTT
46141185 AAATACTTTTTT
1 AAATA-TTTTTT
46141197 TAAAAAATTG
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
7 4 0.09
8 3 0.07
9 10 0.23
10 5 0.12
11 8 0.19
12 13 0.30
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (11 bp):
AAATATTTTTT
Found at i:46144814 original size:44 final size:44
Alignment explanation
Indices: 46144766--46145346 Score: 350
Period size: 44 Copynumber: 13.3 Consensus size: 44
46144756 TGAGATAGTG
* * * *
46144766 TTGGTTTCTTCAATTTGCTCCACTACAACTTCAGGGAAATAAGA
1 TTGGTTTATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * **
46144810 TTGGTTTATTCAGTCTGCTCCACTGCAATTTCATAGAGATAAGA
1 TTGGTTTATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * *
46144854 CCT-G---ATGCGATCTGC-CCTACTGCAACTTCAGAGAGATAAGA
1 -TTGGTTTATTCAATCTGCTCC-ACTGCAACTTCAGGGAGATAAGA
*** * * *
46144895 TCCATCATT-TT-AATCTGCTCCGCTGCAACTTCAAGGAGATAGGA
1 TTGGT--TTATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* *
46144939 TTGGTTTATTCAATTTGCTCCACTACAACTTCAGGGAGATAAGA
1 TTGGTTTATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * *
46144983 TTGGTTTATTCAGTCTGCTCCACTGCAATTTCAAGGAGATAAGA
1 TTGGTTTATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * * * *
46145027 CCT-G---ATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGA
1 -TTGGTTTATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
*** ** * * *
46145068 TCCATCATT-TT-AATCCACTCCGCTGCAACTTCAGAGAGATAGGA
1 TTGGT--TTATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * *
46145112 TTGGTTTCTTCAATCTGTTCCACTACAACTTCAGAGAGATAAGA
1 TTGGTTTATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * * *
46145156 TTGGTTTATTCAGTCTACTCCACTGTAACTTCAAGGGAGATGAGGC
1 TTGGTTTATTCAATCTGCTCCACTGCAACTTC-AGGGAGAT-AAGA
* * *** *
46145202 CT-GATT-TT-AATCCATTCCACTGCAACTTCAGGGAGATAGGA
1 TTGGTTTATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* ** *
46145243 TT-ATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 TTGGTT-TATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* *** * * *
46145287 CTCGCCATCTTCAGTCTGCTCCACTGCAACTTCAGGGGGATAAGA
1 -TTGGTTTATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* *
46145332 CTTGCTTTCTTCAAT
1 -TTGGTTTATTCAAT
46145347 TTTAATGCCA
Statistics
Matches: 409, Mismatches: 101, Indels: 53
0.73 0.18 0.09
Matches are distributed among these distances:
40 2 0.00
41 63 0.15
42 12 0.03
43 23 0.06
44 244 0.60
45 62 0.15
46 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
TTGGTTTATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
Found at i:46144934 original size:85 final size:85
Alignment explanation
Indices: 46144823--46145108 Score: 278
Period size: 85 Copynumber: 3.3 Consensus size: 85
46144813 GTTTATTCAG
*
46144823 TCTGCTCCACTGCAATTTCATA-GAGATAAGACCTGATGCGATCTGCCCTACTGCAACTTCAGAG
1 TCTGCTCCACTGCAACTTCA-AGGAGATAAGACCTGATGCGATCTGCCCTACTGCAACTTCAGAG
46144887 AGATAAGATCCATCATTTTAA
65 AGATAAGATCCATCATTTTAA
* * * * * * *
46144908 TCTGCTCCGCTGCAACTTCAAGGAGATAGGA-TTGGTTTATTCAATTTGCTCC-ACTACAACTTC
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGACCT-G---ATGCGATCTGC-CCTACTGCAACTTC
* *** *
46144971 AGGGAGATAAGATTGGT--TTATTCAG
61 AGAGAGATAAGATCCATCATT-TT-AA
* * *
46144996 TCTGCTCCACTGCAATTTCAAGGAGATAAGACCTGATGCGATCTGCTCTACTGTAACTTCAGAGA
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGACCTGATGCGATCTGCCCTACTGCAACTTCAGAGA
46145061 GATAAGATCCATCATTTTAA
66 GATAAGATCCATCATTTTAA
** *
46145081 TCCACTCCGCTGCAACTTC-AGAGAGATA
1 TCTGCTCCACTGCAACTTCAAG-GAGATA
46145109 GGATTGGTTT
Statistics
Matches: 156, Mismatches: 32, Indels: 26
0.73 0.15 0.12
Matches are distributed among these distances:
84 5 0.03
85 79 0.51
86 4 0.03
87 4 0.03
88 61 0.39
89 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (85 bp):
TCTGCTCCACTGCAACTTCAAGGAGATAAGACCTGATGCGATCTGCCCTACTGCAACTTCAGAGA
GATAAGATCCATCATTTTAA
Found at i:46144936 original size:173 final size:173
Alignment explanation
Indices: 46144687--46145206 Score: 778
Period size: 173 Copynumber: 3.0 Consensus size: 173
46144677 AAAAGTCTGG
* * * * * * *
46144687 TGCGATATGCTCTATTGCAGCTTCAAAGAGATAATAT-CATCATTTTAATCCGTTCCGCTACAAC
1 TGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCGCTGCAAC
* *
46144751 TTCAATGAGATAGTG-TTGGTTTCTTCAATTTGCTCCACTACAACTTCAGGGAAATAAGATTGGT
66 TTCAAGGAGATAG-GATTGGTTTCTTCAATTTGCTCCACTACAACTTCAGGGAGATAAGATTGGT
46144815 TTATTCAGTCTGCTCCACTGCAATTTCATA-GAGATAAGACCTGA
130 TTATTCAGTCTGCTCCACTGCAATTTCA-AGGAGATAAGACCTGA
* *
46144859 TGCGATCTGCCCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCTGCTCCGCTGCAAC
1 TGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCGCTGCAAC
*
46144924 TTCAAGGAGATAGGATTGGTTTATTCAATTTGCTCCACTACAACTTCAGGGAGATAAGATTGGTT
66 TTCAAGGAGATAGGATTGGTTTCTTCAATTTGCTCCACTACAACTTCAGGGAGATAAGATTGGTT
46144989 TATTCAGTCTGCTCCACTGCAATTTCAAGGAGATAAGACCTGA
131 TATTCAGTCTGCTCCACTGCAATTTCAAGGAGATAAGACCTGA
* *
46145032 TGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCATCATTTTAATCCACTCCGCTGCAAC
1 TGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCGCTGCAAC
* * *
46145097 TTC-AGAGAGATAGGATTGGTTTCTTCAATCTGTTCCACTACAACTTCAGAGAGATAAGATTGGT
66 TTCAAG-GAGATAGGATTGGTTTCTTCAATTTGCTCCACTACAACTTCAGGGAGATAAGATTGGT
* * * * *
46145161 TTATTCAGTCTACTCCACTGTAACTTCAAGGGAGATGAGGCCTGA
130 TTATTCAGTCTGCTCCACTGCAATTTCAA-GGAGATAAGACCTGA
46145206 T
1 T
46145207 TTTAATCCAT
Statistics
Matches: 318, Mismatches: 25, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
172 35 0.11
173 269 0.85
174 14 0.04
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (173 bp):
TGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCGCTGCAAC
TTCAAGGAGATAGGATTGGTTTCTTCAATTTGCTCCACTACAACTTCAGGGAGATAAGATTGGTT
TATTCAGTCTGCTCCACTGCAATTTCAAGGAGATAAGACCTGA
Found at i:46145238 original size:131 final size:129
Alignment explanation
Indices: 46144956--46145287 Score: 352
Period size: 131 Copynumber: 2.6 Consensus size: 129
46144946 ATTCAATTTG
* * * * *
46144956 CTCCACTACAACTTCAGGGAGATAAGATTGGTTTATTCAGTCTGCTCCACTGCAATTTCA-AGGA
1 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCACTGCAACTTCAGA-GA
* * *
46145020 GATAAGACCTGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCATCATTTTAATCCA
65 GATAAGACCTGATGCGATCTACTCCACTGTAACTTCAGAGAGATAAGAGCCATCATTTTAATCCA
* * * *
46145085 CTCCGCTGCAACTTCAGAGAGATAGGATTGGTTTCTTCAATCTGTTCCACTACAACTTCAGAGAG
1 CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCACTGCAACTTCAGAGAG
* * * * *
46145150 ATAAGA-TTGGTTTATTC-AGTCTACTCCACTGTAACTTCAAGGGAGATGAG-GCC-TGATTTTA
66 ATAAGACCT-G---ATGCGA-TCTACTCCACTGTAACTTC-AGAGAGATAAGAGCCATCATTTTA
46145211 ATCCA
125 ATCCA
* * * * *
46145216 TTCCACTGCAACTTCAGGGAGATAGGATT-ATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAGGATTGGTT-TCTTCAATCTGCTCCACTGCAACTTCAGAGA
46145280 GATAAGAC
65 GATAAGAC
46145288 TCGCCATCTT
Statistics
Matches: 168, Mismatches: 26, Indels: 15
0.80 0.12 0.07
Matches are distributed among these distances:
128 1 0.01
129 61 0.36
130 3 0.02
131 72 0.43
132 22 0.13
133 9 0.05
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (129 bp):
CTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCAATCTGCTCCACTGCAACTTCAGAGAG
ATAAGACCTGATGCGATCTACTCCACTGTAACTTCAGAGAGATAAGAGCCATCATTTTAATCCA
Found at i:46145424 original size:51 final size:50
Alignment explanation
Indices: 46145364--46145492 Score: 159
Period size: 51 Copynumber: 2.5 Consensus size: 50
46145354 CCAGGGAGAT
* * *
46145364 AAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCTAGAGAAA
1 AAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACACCAAAGAAA
* * * * *
46145414 CAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGTAACACCAAAGAGA
1 -AAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACACCAAAGAAA
*
46145465 TAGTATTCGCTGCCTTCAGCTTTAATCT
1 AAG-ATTCGCTGCCTTCAGCTTTAATCT
46145493 ACTCAATTTC
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
50 2 0.03
51 64 0.97
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (50 bp):
AAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACACCAAAGAAA
Found at i:46145596 original size:123 final size:123
Alignment explanation
Indices: 46145377--46145855 Score: 415
Period size: 123 Copynumber: 3.8 Consensus size: 123
46145367 ATTCGCTGCC
* * *
46145377 TTCAGCTTTAATCTGCTCCACTGCAACGCTAGAGAAACAAGATTCGCTACCTTTAGCTTTAATCT
1 TTCAGCTTTAATCTACTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCT
** * * *
46145442 GTTCCACTGTAACACCAAAGAGAT-AGTATTCGCTGCCTTCAGCTTTAATCTACTCAAT
66 GTTCCACTACAACGCCAAGGAAATAAG-ATTCGCTGCCTTCAGCTTTAATCTACTCAAT
* * *
46145500 TTCAGATTTAATCTATTCCACTGCAACGCCAGGGAAACAAGACTCGCTACCTTTAGCTTTAATCT
1 TTCAGCTTTAATCTACTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCT
* * * * * * * *
46145565 ATTCCACTGCAATGTCAGGGAAATAAGATTCGCTG-CTCTCAG-TCTTAACGCTAGGGAGATAAG
66 GTTCCACTACAACGCCAAGGAAATAAGATTCGCTGCCT-TCAGCT-TTAA-TCT----A-CTCA-
46145628 ATT
122 A-T
* ** * * *
46145631 CGCTATCTTAGCTTTAATCTGCTCTGCTACAATGCCAGGGAAACAAGATTCGCTACTTTTAGCTT
1 ---T-TC--AGCTTTAATCTACTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTT
* * * * ** *
46145696 TAATTTGTTCCACTATAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGCTCCAT
60 TAATCTGTTCCACTACAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACTCAAT
* * * * *
46145760 TTCAGTTTTAATCTATTCCATTGCAACGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCG
1 TTCAGCTTTAATCTACTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCT
* * * *
46145825 GTTCTACTACAATGCTATGGAAATAAGATTC
66 GTTCCACTACAACGCCAAGGAAATAAGATTC
46145856 ACTACCTTTA
Statistics
Matches: 277, Mismatches: 60, Indels: 38
0.74 0.16 0.10
Matches are distributed among these distances:
122 3 0.01
123 165 0.60
124 4 0.01
125 2 0.01
126 1 0.00
128 1 0.00
129 3 0.01
130 2 0.01
131 2 0.01
134 1 0.00
135 2 0.01
136 1 0.00
137 87 0.31
138 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (123 bp):
TTCAGCTTTAATCTACTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCT
GTTCCACTACAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACTCAAT
Found at i:46145670 original size:86 final size:87
Alignment explanation
Indices: 46145524--46145684 Score: 207
Period size: 86 Copynumber: 1.9 Consensus size: 87
46145514 ATTCCACTGC
* * * *
46145524 AACGCCAGGGAAACAAGACTCGCTACCTTTAGCTTTAATCTATTCCACTGCAATGTCAGGGAAAT
1 AACGCCAGGGAAACAAGACTCGCTACCTTTAGCTTTAATCTACTCCACTACAATGCCAGGGAAAC
46145589 AAGATTCGCTGCTCTCAGTCTT
66 AAGATTCGCTGCTCTCAGTCTT
* * * * * * **
46145611 AACGCTAGGGAGATAAGATTCGCTATC-TTAGCTTTAATCTGCTCTGCTACAATGCCAGGGAAAC
1 AACGCCAGGGAAACAAGACTCGCTACCTTTAGCTTTAATCTACTCCACTACAATGCCAGGGAAAC
46145675 AAGATTCGCT
66 AAGATTCGCT
46145685 ACTTTTAGCT
Statistics
Matches: 62, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
86 40 0.65
87 22 0.35
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (87 bp):
AACGCCAGGGAAACAAGACTCGCTACCTTTAGCTTTAATCTACTCCACTACAATGCCAGGGAAAC
AAGATTCGCTGCTCTCAGTCTT
Found at i:46145707 original size:260 final size:261
Alignment explanation
Indices: 46145356--46145941 Score: 827
Period size: 260 Copynumber: 2.2 Consensus size: 261
46145346 TTTTAATGCC
* *
46145356 AGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCTAGAGAAACAAGATT
1 AGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTACAACGCCAGAGAAACAAGATT
* *
46145421 CGCTACCTTTAGCTTTAATCTGTTCCACTGTAACACCAAAGAGATAGTATTCGCTGCCTTCAGCT
66 CGCTACCTTTAGCTTTAATCTGTTCCACTATAACACCAAAGAGATAGGATTCGCTGCCTTCAGCT
*
46145486 TTAATCTACTCAATTTCAGATTTAATCTATTCCACTGCAACGCCAGGGAAACAAGACTCGCTACC
131 TTAATCCACTCAATTTCAGATTTAATCTATTCCACTGCAACGCCAGGGAAACAAGACTCGCTACC
* * * *
46145551 TTTAGCTTTAATCTATTCCACTGCAATG-TCAGGGAAATAAGATTCGCT-GCTCTCAGTCTTAAC
196 TTTAGCTTTAATCGATTCCACTACAATGCT-AGGGAAATAAGATTCACTACCT-TCAGTCTTAAC
46145614 GCT
259 GCT
** ** * *
46145617 AGGGAGATAAGATTCGCTATCTT-AGCTTTAATCTGCTCTGCTACAATGCCAGGGAAACAAGATT
1 AGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTACAACGCCAGAGAAACAAGATT
* * * *
46145681 CGCTACTTTTAGCTTTAATTTGTTCCACTATAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCT
66 CGCTACCTTTAGCTTTAATCTGTTCCACTATAACACCAAAGAGATAGGATTCGCTGCCTTCAGCT
* * * * * *
46145746 TTAATCCGCTCCATTTCAGTTTTAATCTATTCCATTGCAACGCTAGGGAAACAAGATTCGCTACC
131 TTAATCCACTCAATTTCAGATTTAATCTATTCCACTGCAACGCCAGGGAAACAAGACTCGCTACC
* * * * *
46145811 TTTAGCTTTAATCGGTTCTACTACAATGCTATGGAAATAAGATTCACTACCTTTAGTCTTAATGC
196 TTTAGCTTTAATCGATTCCACTACAATGCTAGGGAAATAAGATTCACTACCTTCAGTCTTAACGC
46145876 T
261 T
* * * *
46145877 AGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCCAAAGAAATAAGATT
1 AGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTACAACGCCAGAGAAACAAGATT
46145942 TGTTGCCTTC
Statistics
Matches: 284, Mismatches: 38, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
260 225 0.79
261 59 0.21
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (261 bp):
AGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTACAACGCCAGAGAAACAAGATT
CGCTACCTTTAGCTTTAATCTGTTCCACTATAACACCAAAGAGATAGGATTCGCTGCCTTCAGCT
TTAATCCACTCAATTTCAGATTTAATCTATTCCACTGCAACGCCAGGGAAACAAGACTCGCTACC
TTTAGCTTTAATCGATTCCACTACAATGCTAGGGAAATAAGATTCACTACCTTCAGTCTTAACGC
T
Found at i:46145732 original size:51 final size:51
Alignment explanation
Indices: 46145610--46145758 Score: 147
Period size: 51 Copynumber: 2.9 Consensus size: 51
46145600 CTCTCAGTCT
* * **
46145610 TAACGCTAGGGAGATAAGATTCGCTA-TCTTAGCTTTAATCTGCTCTGCTA
1 TAACGCCAGGGAGATAAGATTCGCTACTTTTAGCTTTAATCTGCTCCACTA
* * * * * *
46145660 CAATGCCAGGGAAACAAGATTCGCTACTTTTAGCTTTAATTTGTTCCACTA
1 TAACGCCAGGGAGATAAGATTCGCTACTTTTAGCTTTAATCTGCTCCACTA
* * * * * *
46145711 TAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGCTCCA
1 TAACGCCAGGGAGATAAGATTCGCTACTTTTAGCTTTAATCTGCTCCA
46145759 TTTCAGTTTT
Statistics
Matches: 76, Mismatches: 22, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
50 21 0.28
51 55 0.72
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (51 bp):
TAACGCCAGGGAGATAAGATTCGCTACTTTTAGCTTTAATCTGCTCCACTA
Found at i:46145959 original size:51 final size:50
Alignment explanation
Indices: 46145883--46146042 Score: 184
Period size: 51 Copynumber: 3.2 Consensus size: 50
46145873 TGCTAGGGAG
* *
46145883 ATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCGCTGCAACGCCAAAGAA
1 ATAAGATTCGTTGCCTTCAGCTTTAATCTGCTCC-CTGCAACGCCAAGGAA
* * * * * *
46145934 ATAAGATTTGTTGCCTTCTGCTTTAATCTACT--ATG--ACACCAGGGAA
1 ATAAGATTCGTTGCCTTCAGCTTTAATCTGCTCCCTGCAACGCCAAGGAA
* *
46145980 ATAAGATTCGTTGCTTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAA
1 ATAAGATTCGTTGCCTTCAGCTTTAATCTGCTCC-CTGCAACGCCAAGGAA
46146031 ATAAGATTCGTT
1 ATAAGATTCGTT
46146043 ATGATAACTT
Statistics
Matches: 88, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
46 35 0.40
48 2 0.02
49 2 0.02
51 49 0.56
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (50 bp):
ATAAGATTCGTTGCCTTCAGCTTTAATCTGCTCCCTGCAACGCCAAGGAA
Found at i:46146389 original size:24 final size:24
Alignment explanation
Indices: 46146350--46146407 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
46146340 GCCCCCACTA
46146350 TAATCTTCAAGATTCAATCC-TCTG
1 TAATCTTCAAGATTCAATCCAT-TG
* *
46146374 TAATCTTTAAGGTTCAATCCATTG
1 TAATCTTCAAGATTCAATCCATTG
*
46146398 TAATTTTCAA
1 TAATCTTCAA
46146408 ACATAAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 28 0.97
25 1 0.03
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (24 bp):
TAATCTTCAAGATTCAATCCATTG
Found at i:46147392 original size:70 final size:70
Alignment explanation
Indices: 46147305--46147479 Score: 314
Period size: 70 Copynumber: 2.5 Consensus size: 70
46147295 CCCCTTTGGT
* *
46147305 CTCAAGGCTCCCTTTGTGGGTTTTCACCTTGGTCTCTCATTTTTCTTTTTATTTCTTATATTTTT
1 CTCAAAGCGCCCTTTGTGGGTTTTCACCTTGGTCTCTCATTTTTCTTTTTATTTCTTATATTTTT
46147370 TATGA
66 TATGA
46147375 CTCAAAGCGCCCTTTGTGGGTTTTCACCTTGGTCTCTCATTTTTCTTTTTATTTCTTATATTTTT
1 CTCAAAGCGCCCTTTGTGGGTTTTCACCTTGGTCTCTCATTTTTCTTTTTATTTCTTATATTTTT
46147440 TATGA
66 TATGA
* *
46147445 CTCAAAGCGCCCTTTGTGGGTTTTTACCTTAGTCT
1 CTCAAAGCGCCCTTTGTGGGTTTTCACCTTGGTCT
46147480 TTTTTTTGGA
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 101 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.51
Consensus pattern (70 bp):
CTCAAAGCGCCCTTTGTGGGTTTTCACCTTGGTCTCTCATTTTTCTTTTTATTTCTTATATTTTT
TATGA
Found at i:46164686 original size:41 final size:41
Alignment explanation
Indices: 46164652--46164838 Score: 207
Period size: 41 Copynumber: 4.6 Consensus size: 41
46164642 ACCGACACTT
*
46164652 AGCCTGCTAGA-GATAAAGTCTGATACGTTTCACCGGCATCA
1 AGCCTGCTAGACG-TAAAGTCTGATACGTTTCACCGACATCA
* *
46164693 AGCCTGCTAGACGTAAAGTCTGGTATGTTTCACC-AGCATCA
1 AGCCTGCTAGACGTAAAGTCTGATACGTTTCACCGA-CATCA
* * * * * *
46164734 AGCCTGCTAGACGTAATGTCTGGTATGTTTTACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGATACGTTTCACCGACATCA
* * * *
46164775 AGCCTGCTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGATACGTTTCACCGACATCA
* *
46164816 AGCCTACTAGACGTAATGTCTGA
1 AGCCTGCTAGACGTAAAGTCTGA
46164839 ATTACTTTAT
Statistics
Matches: 132, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
41 131 0.99
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGATACGTTTCACCGACATCA
Found at i:46164738 original size:82 final size:82
Alignment explanation
Indices: 46164652--46164838 Score: 277
Period size: 82 Copynumber: 2.3 Consensus size: 82
46164642 ACCGACACTT
46164652 AGCCTGCTAGA-GATAAAGTCTGATACGTTTCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGG
1 AGCCTGCTAGACG-TAAAGTCTGATACGTTTCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGG
46164716 TATGTTTCACCAGCATCA
65 TATGTTTCACCAGCATCA
* * * * * *
46164734 AGCCTGCTAGACGTAATGTCTGGTATGTTTTACTGGCATCAAGCCTGCTAGACGTAATGTCTGGT
1 AGCCTGCTAGACGTAAAGTCTGATACGTTTCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGGT
*
46164799 ATGTTTCACCGGCATCA
66 ATGTTTCACCAGCATCA
* *
46164816 AGCCTACTAGACGTAATGTCTGA
1 AGCCTGCTAGACGTAAAGTCTGA
46164839 ATTACTTTAT
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
82 94 0.99
83 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (82 bp):
AGCCTGCTAGACGTAAAGTCTGATACGTTTCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGGT
ATGTTTCACCAGCATCA
Found at i:46165495 original size:2 final size:2
Alignment explanation
Indices: 46165490--46165539 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
46165480 ATTCGAATCT
*
46165490 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
46165531 TA CA TA TA T
1 TA TA TA TA T
46165540 TTGATTAAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:46167861 original size:42 final size:42
Alignment explanation
Indices: 46167814--46167902 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
46167804 TAAGTGCTAA
* * * *
46167814 AAAACCCAGAAGGGTTGAACGAAAGCTCATAATAGCTGAACG
1 AAAACCCAGAAGGGTTAAACAAAAGCTCAAAAGAGCTGAACG
* **
46167856 GAAACCCTTAAGGGTTAAACAAAAGCTCAAAAGAGCTGAACG
1 AAAACCCAGAAGGGTTAAACAAAAGCTCAAAAGAGCTGAACG
46167898 AAAAC
1 AAAAC
46167903 TTATATGAGT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.13
Consensus pattern (42 bp):
AAAACCCAGAAGGGTTAAACAAAAGCTCAAAAGAGCTGAACG
Found at i:46173567 original size:16 final size:16
Alignment explanation
Indices: 46173546--46173602 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
46173536 TTTGGTTCGC
*
46173546 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
46173562 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
46173578 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
46173594 TGTAATGGA
1 TGTAATGGA
46173603 AAAGTTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:46173869 original size:18 final size:17
Alignment explanation
Indices: 46173848--46173882 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46173838 TTATTATTAA
*
46173848 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
46173866 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
46173883 TCTTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:46179799 original size:18 final size:18
Alignment explanation
Indices: 46179757--46179802 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
46179747 TTTTTTATCT
*
46179757 TTCATGTTCGTTTTACGG
1 TTCATGTTCATTTTACGG
46179775 -TCTATGTTCATTTTACGG
1 TTC-ATGTTCATTTTACGG
46179793 TTCATGTTCA
1 TTCATGTTCA
46179803 AGGTTCGTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 2 0.08
18 21 0.84
19 2 0.08
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.50
Consensus pattern (18 bp):
TTCATGTTCATTTTACGG
Found at i:46185591 original size:16 final size:16
Alignment explanation
Indices: 46185570--46185605 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
46185560 TAATTTTAAT
46185570 ATTTTTATTTTCATTA
1 ATTTTTATTTTCATTA
*
46185586 ATTTTTATTTTCATTT
1 ATTTTTATTTTCATTA
46185602 ATTT
1 ATTT
46185606 AAATATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (16 bp):
ATTTTTATTTTCATTA
Found at i:46186973 original size:21 final size:21
Alignment explanation
Indices: 46186915--46186973 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
46186905 TTCTCTTTAA
*
46186915 ATTTTGTTTAATTTTAAATTTT
1 ATTTT-TTTTATTTTAAATTTT
* * *
46186937 ATTTTTCATTA-GTTAATTTTT
1 ATTTTT-TTTATTTTAAATTTT
46186958 ATTTTTTTTATTTTAA
1 ATTTTTTTTATTTTAA
46186974 GCCTTTAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
20 3 0.10
21 19 0.66
22 7 0.24
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.69
Consensus pattern (21 bp):
ATTTTTTTTATTTTAAATTTT
Found at i:46191387 original size:16 final size:17
Alignment explanation
Indices: 46191346--46191393 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
46191336 GAAGTCTAAG
*
46191346 AAAATAAAAATAAAACA
1 AAAATAAACATAAAACA
*
46191363 ACTAA-AAACA-AAAACA
1 A-AAATAAACATAAAACA
46191379 AAAATAAACATAAAA
1 AAAATAAACATAAAA
46191394 AGAAAAAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
15 2 0.08
16 12 0.48
17 9 0.36
18 2 0.08
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.10
Consensus pattern (17 bp):
AAAATAAACATAAAACA
Found at i:46197184 original size:18 final size:19
Alignment explanation
Indices: 46197139--46197187 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
46197129 GAATATTTAC
*
46197139 ATAAAAATTAAACTAAGTAA
1 ATAAAAA-TAAACTAAATAA
46197159 A-AATAAATAAA-TAAATAA
1 ATAA-AAATAAACTAAATAA
46197177 ATAAAAATAAA
1 ATAAAAATAAA
46197188 ACTTTACAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 8 0.31
20 4 0.15
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (19 bp):
ATAAAAATAAACTAAATAA
Found at i:46201729 original size:59 final size:60
Alignment explanation
Indices: 46201629--46201767 Score: 210
Period size: 59 Copynumber: 2.3 Consensus size: 60
46201619 ATGAAAGCGC
* *
46201629 ATGAAAGCTCTCTAAAAGTTGAGTGACAAAATTGCAAGGATTTCATTTTGGGTGACCAAA
1 ATGAAAGGTCCCTAAAAGTTGAGTGACAAAATTGCAAGGATTTCATTTTGGGTGACCAAA
* * *
46201689 ATGAAAGGTCCCTAAAAGTTG-GTGACGAGATTGCAAGGATTTCATTTTTGGTGACCAAA
1 ATGAAAGGTCCCTAAAAGTTGAGTGACAAAATTGCAAGGATTTCATTTTGGGTGACCAAA
46201748 ATGAAAGAGT-CCTAAAAGTT
1 ATGAAAG-GTCCCTAAAAGTT
46201768 TGGAGACCAA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
59 52 0.71
60 21 0.29
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (60 bp):
ATGAAAGGTCCCTAAAAGTTGAGTGACAAAATTGCAAGGATTTCATTTTGGGTGACCAAA
Done.