Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 295 of 438
Found at i:92429015 original size:140 final size:140
Alignment explanation
Indices: 92428759--92429042 Score: 444
Period size: 140 Copynumber: 2.0 Consensus size: 140
92428749 GTTTATGAAG
* * * *
92428759 AAGAAGGATGGCACGATGCGGTTATGTGTAGACTATATACAGTTGAATAAGTTGAGCATTAAGAA
1 AAGAAGGATGGCACGATGCGGTTACGTGTAAACTATATACAGTTGAATAAGTTCACCATTAAGAA
* * * *
92428824 TAAGTATCCTTTGCCTCAAATTGATGACTTATTTTATTAGTTCAGAGGAGCAATGATGTTTTCAA
66 TAAGTATCCTTTGCCTCAAATTGATGAATTATTTGATCAGTTCAGAAGAGCAATGATGTTTTCAA
92428889 AGATTAACCT
131 AGATTAACCT
*
92428899 AAGAAGGATGGCACGATGCGGTTACGTAG-AAACTCTATACAGTTGAATAAGTTCACCATTAAGA
1 AAGAAGGATGGCACGATGCGGTTACGT-GTAAACTATATACAGTTGAATAAGTTCACCATTAAGA
* *
92428963 ATAAGTATCCTTTTCCTCAAATTGATGAATTATTTGATCAGTTCAGAAGAGCAATGATGTTTTCG
65 ATAAGTATCCTTTGCCTCAAATTGATGAATTATTTGATCAGTTCAGAAGAGCAATGATGTTTTCA
*
92429028 AAGATTGACCT
130 AAGATTAACCT
92429039 AAGA
1 AAGA
92429043 TTGGGGTATT
Statistics
Matches: 131, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
140 130 0.99
141 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (140 bp):
AAGAAGGATGGCACGATGCGGTTACGTGTAAACTATATACAGTTGAATAAGTTCACCATTAAGAA
TAAGTATCCTTTGCCTCAAATTGATGAATTATTTGATCAGTTCAGAAGAGCAATGATGTTTTCAA
AGATTAACCT
Found at i:92430805 original size:26 final size:26
Alignment explanation
Indices: 92430776--92430828 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
92430766 GTACCATTTG
92430776 AAGCATTGTATGGTAGGAAGTGTAGA
1 AAGCATTGTATGGTAGGAAGTGTAGA
92430802 AAGCATTGTATGGTAGGAAGTGTAGA
1 AAGCATTGTATGGTAGGAAGTGTAGA
92430828 A
1 A
92430829 CTCCTTTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.04, G:0.34, T:0.26
Consensus pattern (26 bp):
AAGCATTGTATGGTAGGAAGTGTAGA
Found at i:92433988 original size:42 final size:42
Alignment explanation
Indices: 92433942--92434023 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
92433932 TAAGACTACA
92433942 TATAAGACCATATCTGGGATATGACATC-AGTATGAGACTTCG
1 TATAAGACCATATCTGGGATATGACATCGA-TATGAGACTTCG
*
92433984 TATAAGACCATATCTGGGATATGGCATCGATATGAGACTT
1 TATAAGACCATATCTGGGATATGACATCGATATGAGACTT
92434024 ATTGTAAAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 37 0.97
43 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (42 bp):
TATAAGACCATATCTGGGATATGACATCGATATGAGACTTCG
Found at i:92434036 original size:42 final size:42
Alignment explanation
Indices: 92433942--92434053 Score: 127
Period size: 42 Copynumber: 2.6 Consensus size: 42
92433932 TAAGACTACA
* * *
92433942 TATAAGACCATATCTGGGATATGACATCAGTATGAGACTTCG
1 TATAAAACCATATCTGGGATATGGCATCAGTATGAGACTTAG
* *
92433984 TATAAGACCATATCTGGGATATGGCATC-GATATGAGACTTAT
1 TATAAAACCATATCTGGGATATGGCATCAG-TATGAGACTTAG
* * *
92434026 TGTAAAACCATAGCTGGGTTATTGGCAT
1 TATAAAACCATATCTGGGATA-TGGCAT
92434054 TGAAAATGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 1 0.02
42 54 0.89
43 6 0.10
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.30
Consensus pattern (42 bp):
TATAAAACCATATCTGGGATATGGCATCAGTATGAGACTTAG
Found at i:92436037 original size:17 final size:17
Alignment explanation
Indices: 92436015--92436048 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
92436005 CACTAATATG
92436015 AAAATGAAATGACAATA
1 AAAATGAAATGACAATA
*
92436032 AAAATGTAATGACAATA
1 AAAATGAAATGACAATA
92436049 TATACTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGAAATGACAATA
Found at i:92437061 original size:31 final size:31
Alignment explanation
Indices: 92437021--92437088 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
92437011 AAAGGATCAA
*
92437021 ACAGTAGTATAGACTGAATTATAAATGGTAGT
1 ACAG-AGTATAAACTGAATTATAAATGGTAGT
* *
92437053 ACAGAGTATAAACTGAGTTATAATTGGTAGT
1 ACAGAGTATAAACTGAATTATAAATGGTAGT
92437084 ACAGA
1 ACAGA
92437089 CTTATGGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 29 0.88
32 4 0.12
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.29
Consensus pattern (31 bp):
ACAGAGTATAAACTGAATTATAAATGGTAGT
Found at i:92439955 original size:5 final size:5
Alignment explanation
Indices: 92439945--92439979 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
92439935 ATATACTCAT
* *
92439945 AATTC AATTC AATTC AATCC AATCC AATTC AATTC
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC
92439980 CACAATACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.34
Consensus pattern (5 bp):
AATTC
Found at i:92440684 original size:19 final size:19
Alignment explanation
Indices: 92440660--92440700 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
92440650 ATTTCGTTTG
92440660 TTTTGTTTCTTTAATTCCT
1 TTTTGTTTCTTTAATTCCT
* *
92440679 TTTTGTTTCTTTTATTTCT
1 TTTTGTTTCTTTAATTCCT
92440698 TTT
1 TTT
92440701 ATTTAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.07, C:0.12, G:0.05, T:0.76
Consensus pattern (19 bp):
TTTTGTTTCTTTAATTCCT
Found at i:92440717 original size:8 final size:8
Alignment explanation
Indices: 92440704--92440737 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
92440694 TTCTTTTATT
92440704 TAATATAA
1 TAATATAA
92440712 TAATATAA
1 TAATATAA
* *
92440720 TAATGTTA
1 TAATATAA
92440728 TAATATAA
1 TAATATAA
92440736 TA
1 TA
92440738 TTATTTTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (8 bp):
TAATATAA
Found at i:92443984 original size:40 final size:40
Alignment explanation
Indices: 92443924--92444087 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
92443914 CGGGATTCAA
* ** *
92443924 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
92443964 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
92444004 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * * *
92444044 CCGGATATAATC-ACTAGCATAAATGCCTTCGAGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
92444084 CCGG
1 CCGG
92444088 GTATCATTCA
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 99 0.95
41 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:92444071 original size:80 final size:80
Alignment explanation
Indices: 92443924--92444087 Score: 195
Period size: 80 Copynumber: 2.0 Consensus size: 80
92443914 CGGGATTCAA
* * ** * *
92443924 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTG
1 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
* *
92443989 CCTTCGGGTCTTAGC
66 CCTTCGAGACTTAGC
** * * *
92444004 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAAT
1 CCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAAT
92444068 GCCTTCGAGACTTAGC
65 GCCTTCGAGACTTAGC
92444084 CCGG
1 CCGG
92444088 GTATCATTCA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
80 68 0.97
81 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
CCTTCGAGACTTAGC
Found at i:92452097 original size:40 final size:40
Alignment explanation
Indices: 92452037--92452200 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
92452027 CGGGATTCAA
* ** *
92452037 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
92452077 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
92452117 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * * *
92452157 CCGGATATAATC-ACTAGCATAAATGCCTTCGAGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
92452197 CCGG
1 CCGG
92452201 GTATCATTCA
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 99 0.95
41 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:92452184 original size:80 final size:80
Alignment explanation
Indices: 92452037--92452200 Score: 195
Period size: 80 Copynumber: 2.0 Consensus size: 80
92452027 CGGGATTCAA
* * ** * *
92452037 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTG
1 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
* *
92452102 CCTTCGGGTCTTAGC
66 CCTTCGAGACTTAGC
** * * *
92452117 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAAT
1 CCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAAT
92452181 GCCTTCGAGACTTAGC
65 GCCTTCGAGACTTAGC
92452197 CCGG
1 CCGG
92452201 GTATCATTCA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
80 68 0.97
81 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
CCTTCGAGACTTAGC
Found at i:92456271 original size:40 final size:40
Alignment explanation
Indices: 92456227--92456412 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
92456217 GCTACTCGTT
* * *
92456227 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
92456267 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
92456307 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
92456347 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
92456388 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
92456413 CATCATTCGA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:92461785 original size:46 final size:46
Alignment explanation
Indices: 92461717--92461853 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
92461707 TATATATACA
* * *
92461717 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTTGGCTTTACCACATATC
* * *
92461763 CATCTCATACACGTTTCGCATTAGCCATTTGGCTTTATCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTTGGCTTTACCACATATC
* * *
92461809 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTTGGCTTTACCACATAT
92461854 ATACATGTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.26, C:0.30, G:0.09, T:0.36
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTTGGCTTTACCACATATC
Found at i:92461884 original size:47 final size:47
Alignment explanation
Indices: 92461827--92462065 Score: 343
Period size: 47 Copynumber: 5.1 Consensus size: 47
92461817 ACACATTTCG
* * * ** *
92461827 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATTA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * * *
92461874 CATCGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
**
92461921 CATTGGCCATTCGGCCTTATCGTACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
**
92461968 CATTGGCCATTCGGCCTTATCGTACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
92462015 CATTGGCCATTCGGTCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
92462062 CATT
1 CATT
92462066 AAAATCCTAA
Statistics
Matches: 178, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 178 1.00
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:92468926 original size:40 final size:39
Alignment explanation
Indices: 92468722--92468926 Score: 207
Period size: 40 Copynumber: 5.1 Consensus size: 39
92468712 CGGAGTTCAA
** * *
92468722 CCGGATATAGCT-ACTCGTTCAAATACCTTCAGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTC-GGACTTAGC
* * *
92468762 CCGGTTATAGTAGCTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTC-GGACTTAGC
* *
92468802 CCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGA-CTTAGC
* * *
92468842 CCGAATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGA-CTTAGC
* *
92468882 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTC-GGACTTAGC
92468922 CCGGA
1 CCGGA
92468927 CATCATTCGA
Statistics
Matches: 142, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 4 0.03
40 127 0.89
41 11 0.08
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (39 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGC
Found at i:92472982 original size:40 final size:40
Alignment explanation
Indices: 92472927--92473003 Score: 154
Period size: 40 Copynumber: 1.9 Consensus size: 40
92472917 TGTTTCTTTT
92472927 GAAAACTAGAGTTTTCCTATCTCTAGAAGTTATAAACTAG
1 GAAAACTAGAGTTTTCCTATCTCTAGAAGTTATAAACTAG
92472967 GAAAACTAGAGTTTTCCTATCTCTAGAAGTTATAAAC
1 GAAAACTAGAGTTTTCCTATCTCTAGAAGTTATAAAC
92473004 CAAAGCAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (40 bp):
GAAAACTAGAGTTTTCCTATCTCTAGAAGTTATAAACTAG
Found at i:92473726 original size:27 final size:27
Alignment explanation
Indices: 92473688--92473847 Score: 214
Period size: 27 Copynumber: 5.9 Consensus size: 27
92473678 ATATATACAT
* * *
92473688 CACATAGGGGCAAAACAGTTATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
92473715 CATATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
92473742 CACATAAGGGAAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
92473769 CACATAAAGGAAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
92473796 CACATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
92473823 CACATTAGGGCAAGAA-AGTCATTTT
1 CACATAAGGGCAA-AACAGTCATTTT
92473848 GATTAATCAA
Statistics
Matches: 118, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
27 116 0.98
28 2 0.02
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:92484433 original size:40 final size:40
Alignment explanation
Indices: 92484325--92484534 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
92484315 CGGGATTTAA
* * * * *
92484325 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
92484365 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
92484405 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
92484445 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
92484485 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
92484525 CCGGATATAT
1 CCGGATATAT
92484535 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:92492566 original size:40 final size:40
Alignment explanation
Indices: 92492458--92492667 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
92492448 CGGGATTTAA
* * * * *
92492458 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
92492498 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
92492538 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
92492578 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
92492618 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
92492658 CCGGATATAT
1 CCGGATATAT
92492668 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:92502891 original size:13 final size:13
Alignment explanation
Indices: 92502870--92502902 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
92502860 GGTTGTTTAT
*
92502870 TAAACTAATTAAC
1 TAAATTAATTAAC
92502883 TAAATTAATTAAC
1 TAAATTAATTAAC
92502896 T-AATTAA
1 TAAATTAA
92502903 ACTAAAGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAATTAATTAAC
Found at i:92505832 original size:6 final size:6
Alignment explanation
Indices: 92505809--92505855 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
92505799 TATGTCTTTC
* *
92505809 AAAA-A AAAATAA TAAAATT AAAATG AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAAT-A -AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
92505856 GATAGGAGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
5 4 0.11
6 26 0.72
7 1 0.03
8 5 0.14
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:92505845 original size:23 final size:24
Alignment explanation
Indices: 92505810--92505854 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
92505800 ATGTCTTTCA
*
92505810 AAAAAAAATAATAAAATTAAAATG
1 AAAAAAAATAATAAAAATAAAATG
*
92505834 AAAATAAA-AATAAAAATAAAA
1 AAAAAAAATAATAAAAATAAAA
92505855 AGATAGGAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (24 bp):
AAAAAAAATAATAAAAATAAAATG
Found at i:92515274 original size:6 final size:6
Alignment explanation
Indices: 92515244--92515312 Score: 70
Period size: 6 Copynumber: 11.3 Consensus size: 6
92515234 AAGAAACATT
* *
92515244 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
*
92515291 GTGACAGA ATCAGA ATCAGA AT
1 AT--CAGA ATCAGA ATCAGA AT
92515313 GTGAATGCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
5 2 0.04
6 45 0.87
7 4 0.08
8 1 0.02
ACGTcount: A:0.49, C:0.14, G:0.19, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:92515467 original size:27 final size:26
Alignment explanation
Indices: 92515430--92515515 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 26
92515420 AGCATGACTG
*
92515430 CCAGAACAGATATTGT-GACAGAGTCA
1 CCAGAACAGATATTGTAG-CAGAGCCA
92515456 CCAGATACAGATATTGTAGCAGAGCCA
1 CCAGA-ACAGATATTGTAGCAGAGCCA
* *
92515483 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTAGCAGAGCCA
*
92515510 CTAGAA
1 CCAGAA
92515516 ATAGATAATG
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
26 12 0.23
27 40 0.75
28 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTAGCAGAGCCA
Found at i:92515536 original size:54 final size:53
Alignment explanation
Indices: 92515430--92515537 Score: 119
Period size: 54 Copynumber: 2.0 Consensus size: 53
92515420 AGCATGACTG
* * * *
92515430 CCAGAACAGATATTGTGACAGAGTCACCAGATACAGATATTGTAGCAGAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATAATGTAGCAAAGCCA
* * * *
92515483 CCAGAACAGATATTTGTGGCATAGCCACTAGAAATAGATAATGT-GCCAAAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCACCAGAAACAGATAATGTAG-CAAAGCCA
92515537 C
1 C
92515538 TTAACAGAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
53 13 0.29
54 32 0.71
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATAATGTAGCAAAGCCA
Found at i:92515724 original size:22 final size:22
Alignment explanation
Indices: 92515696--92515760 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
92515686 GCAAATACGT
*
92515696 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
92515718 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
92515740 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
92515761 AATAATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:92516194 original size:27 final size:27
Alignment explanation
Indices: 92516147--92516503 Score: 438
Period size: 27 Copynumber: 13.2 Consensus size: 27
92516137 GGGCAAAATG
* *
92516147 GTAATTTTACCCCAC-GAGGGTATCTT-A
1 GTAATTCTACCCTACAG-GGGTAT-TTCA
92516174 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
92516201 G-AATTTCAACCCTACAAGGGTATTTCG
1 GTAA-TTCTACCCTACAGGGGTATTTCA
92516228 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
92516255 GTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
92516281 GATAATTCTACCCTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* *
92516309 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
92516336 GTAATTCTACCTTATAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
*
92516362 GATAATTCTACCTTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* * *
92516390 CTAATTCTACCCTATAGGGGTATGTT-G
1 GTAATTCTACCCTACAGGGGTAT-TTCA
* * *
92516417 GTAATTCTACCTTACAGGGATATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
92516444 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* **
92516471 GTAATTCTACCCTATAAAGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
92516498 GTAATT
1 GTAATT
92516504 TTGTAAATCG
Statistics
Matches: 293, Mismatches: 27, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
26 8 0.03
27 279 0.95
28 6 0.02
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:92516519 original size:27 final size:27
Alignment explanation
Indices: 92516489--92516592 Score: 68
Period size: 27 Copynumber: 3.9 Consensus size: 27
92516479 ACCCTATAAA
92516489 GGTATTTCAGTAATTTTGTAAATCGAG
1 GGTATTTCAGTAATTTTGTAAATCGAG
** * * * *
92516516 GGTAAAATGA-TAATTCTGTAAATTGGG
1 GGT-ATTTCAGTAATTTTGTAAATCGAG
* ** *
92516543 GGTACTTT-GGTAATTTTACAAGTCGAG
1 GGTA-TTTCAGTAATTTTGTAAATCGAG
* *
92516570 GGTATTTCGGTAATTTGGTAAAT
1 GGTATTTCAGTAATTTTGTAAAT
92516593 TAAAGTATTC
Statistics
Matches: 54, Mismatches: 19, Indels: 8
0.67 0.23 0.10
Matches are distributed among these distances:
26 4 0.07
27 47 0.87
28 3 0.06
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTGTAAATCGAG
Found at i:92518501 original size:26 final size:26
Alignment explanation
Indices: 92518465--92518517 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
92518455 CAGTGATTTG
92518465 ATACAAGTGTATAAATAAAAATACAT
1 ATACAAGTGTATAAATAAAAATACAT
92518491 ATACAAGTGTATAAATAAAAATACAT
1 ATACAAGTGTATAAATAAAAATACAT
92518517 A
1 A
92518518 CATTTGTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.26
Consensus pattern (26 bp):
ATACAAGTGTATAAATAAAAATACAT
Found at i:92518701 original size:11 final size:12
Alignment explanation
Indices: 92518671--92518704 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
92518661 GTATATTTAC
92518671 TTATTATATAAG
1 TTATTATATAAG
92518683 TATATTAT-TAAG
1 T-TATTATATAAG
92518695 TTATTATATA
1 TTATTATATA
92518705 TATATAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (12 bp):
TTATTATATAAG
Found at i:92521231 original size:41 final size:41
Alignment explanation
Indices: 92521186--92521303 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
92521176 TGAAAGATAA
92521186 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
92521227 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
92521257 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
92521298 ATGTAG
1 ATGTAG
92521304 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:92521242 original size:71 final size:71
Alignment explanation
Indices: 92521154--92521317 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
92521144 GAGATGTATC
92521154 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
92521219 AGGACA
66 AGGACA
92521225 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
92521290 AGGACA
66 AGGACA
92521296 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
92521318 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:92528398 original size:41 final size:41
Alignment explanation
Indices: 92528353--92528470 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
92528343 TGAAAGATAA
92528353 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
92528394 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
92528424 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
92528465 ATGTAG
1 ATGTAG
92528471 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:92528409 original size:71 final size:71
Alignment explanation
Indices: 92528321--92528484 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
92528311 GAGATGTATC
92528321 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
92528386 AGGACA
66 AGGACA
92528392 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
92528457 AGGACA
66 AGGACA
92528463 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
92528485 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:92533825 original size:27 final size:27
Alignment explanation
Indices: 92533777--92534015 Score: 258
Period size: 27 Copynumber: 8.9 Consensus size: 27
92533767 GTGAGGCTGC
* * *
92533777 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
*
92533804 CAGATATTGTGGCAGAGCCACCA-AAA
1 CAGATATTGTGGCAGAGCCACCAGATA
92533830 CAGATATCTGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
92533857 CAAATATTTGTGGCATAGCCACCAGA-A
1 CAGATA-TTGTGGCAGAGCCACCAGATA
*
92533884 TAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
92533911 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
* *
92533938 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
92533965 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
92533992 CAGATAATTGTGGCATAGCCACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
92534016 AGACGCTTCC
Statistics
Matches: 185, Mismatches: 16, Indels: 22
0.83 0.07 0.10
Matches are distributed among these distances:
26 12 0.06
27 167 0.90
28 6 0.03
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:92533896 original size:81 final size:82
Alignment explanation
Indices: 92533795--92534015 Score: 333
Period size: 81 Copynumber: 2.7 Consensus size: 82
92533785 GTGACAAAGT
* * * *
92533795 CACCAGATACAGATAT-TGTGGCAGAGCCACCAAAACAGAT-ATCTGTGGCAGAGCCACCAGATC
1 CACCAGA-ACAGATATATGTGGCAGAGCCACCAGATCAGATAATCTGTGGCATAGCCACCAGAAC
* *
92533858 AAATATTTGTGGCATAGC
65 AAATAATCGTGGCATAGC
*
92533876 CACCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATAATC-GTGGCATAGCCACCAGAACA
1 CACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCTGTGGCATAGCCACCAGAACA
*
92533940 GATAATCGTGGCATAGC
66 AATAATCGTGGCATAGC
92533957 CACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAAT-TGTGGCATAGCCACCA
1 CACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCTGTGGCATAGCCACCA
92534016 AGACGCTTCC
Statistics
Matches: 128, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
80 7 0.05
81 118 0.92
82 3 0.02
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (82 bp):
CACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCTGTGGCATAGCCACCAGAACA
AATAATCGTGGCATAGC
Found at i:92535674 original size:26 final size:26
Alignment explanation
Indices: 92535638--92535745 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
92535628 TGAAATTCCC
*
92535638 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
92535664 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
92535690 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
92535716 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
92535742 ATCA
1 ATCA
92535746 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:92544572 original size:18 final size:19
Alignment explanation
Indices: 92544538--92544583 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
92544528 GAAGTGTTTT
92544538 TTGAAAACCATGTTCAC-A
1 TTGAAAACCATGTTCACTA
*
92544556 TTGAAAACCCT-TCTCACTA
1 TTGAAAACCATGT-TCACTA
*
92544575 TTTAAAACC
1 TTGAAAACC
92544584 TCTAGTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 14 0.58
19 9 0.38
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (19 bp):
TTGAAAACCATGTTCACTA
Found at i:92545355 original size:22 final size:22
Alignment explanation
Indices: 92545327--92545376 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
92545317 TAAGTCAACT
* *
92545327 GGATGGCTCAATGCCGTACA-CA
1 GGATGGCTCAACGCCATA-ATCA
92545349 GGATGGCTCAACGCCATAATCA
1 GGATGGCTCAACGCCATAATCA
92545371 GGATGG
1 GGATGG
92545377 TTAAAGGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.28, C:0.24, G:0.30, T:0.18
Consensus pattern (22 bp):
GGATGGCTCAACGCCATAATCA
Found at i:92545386 original size:22 final size:22
Alignment explanation
Indices: 92545347--92545389 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
92545337 ATGCCGTACA
*
92545347 CAGGATGGCTCAACGCCATAAT
1 CAGGATGGCTAAACGCCATAAT
* *
92545369 CAGGATGGTTAAAGGCCATAA
1 CAGGATGGCTAAACGCCATAA
92545390 ATATCACAGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.19
Consensus pattern (22 bp):
CAGGATGGCTAAACGCCATAAT
Found at i:92545653 original size:27 final size:27
Alignment explanation
Indices: 92545610--92545681 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
92545600 TACGGAACAT
**
92545610 AAGGGCATAATCATCATTCTACCATAC
1 AAGGGCATAATGGTCATTCTACCATAC
* * * *
92545637 AGGGGTATAATGGTCATTTTACCCTAC
1 AAGGGCATAATGGTCATTCTACCATAC
*
92545664 AAGGGCATTATGGTCATT
1 AAGGGCATAATGGTCATT
92545682 TTACACTATA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (27 bp):
AAGGGCATAATGGTCATTCTACCATAC
Found at i:92545682 original size:27 final size:27
Alignment explanation
Indices: 92545623--92545712 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
92545613 GGCATAATCA
* * * *
92545623 TCATTCTACCATACAGGGGTATAATGG
1 TCATTTTACCCTACAAGGGTATTATGG
*
92545650 TCATTTTACCCTACAAGGGCATTATGG
1 TCATTTTACCCTACAAGGGTATTATGG
* * *
92545677 TCATTTTACACTATAAGGGTATTTTGG
1 TCATTTTACCCTACAAGGGTATTATGG
*
92545704 TAATTTTAC
1 TCATTTTAC
92545713 AAATATTGGG
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (27 bp):
TCATTTTACCCTACAAGGGTATTATGG
Found at i:92545971 original size:19 final size:19
Alignment explanation
Indices: 92545938--92545975 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
92545928 CGTGTGGGGC
92545938 CACGAGCCCATTAGGCCCA
1 CACGAGCCCATTAGGCCCA
92545957 CACGA-CCCATCTAGGCCCA
1 CACGAGCCCAT-TAGGCCCA
92545976 ACGTGGCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.26, C:0.45, G:0.18, T:0.11
Consensus pattern (19 bp):
CACGAGCCCATTAGGCCCA
Found at i:92549137 original size:27 final size:27
Alignment explanation
Indices: 92549107--92549166 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
92549097 GGGCATAATC
* *
92549107 GTCATTCAACCATACAGGGGTATTATG
1 GTCATTCAACCATACAGGGGCATTACG
** *
92549134 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTCAACCATACAGGGGCATTACG
92549161 GTCATT
1 GTCATT
92549167 TTACACTACA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (27 bp):
GTCATTCAACCATACAGGGGCATTACG
Found at i:92549167 original size:27 final size:27
Alignment explanation
Indices: 92549119--92549176 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
92549109 CATTCAACCA
* * *
92549119 TACAGGGGTATTATGGTCATTTTACCC
1 TACAGGGGCATTACGGTCATTTTACAC
92549146 TACAGGGGCATTACGGTCATTTTACAC
1 TACAGGGGCATTACGGTCATTTTACAC
92549173 TACA
1 TACA
92549177 AGGGTATTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (27 bp):
TACAGGGGCATTACGGTCATTTTACAC
Found at i:92549194 original size:27 final size:27
Alignment explanation
Indices: 92549137--92549196 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
92549127 TATTATGGTC
* * * *
92549137 ATTTTACCCTACAGGGGCATTACGGTC
1 ATTTTACACTACAAGGGCATTACAGTA
* *
92549164 ATTTTACACTACAAGGGTATTTCAGTA
1 ATTTTACACTACAAGGGCATTACAGTA
92549191 ATTTTA
1 ATTTTA
92549197 TTAATATTGG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (27 bp):
ATTTTACACTACAAGGGCATTACAGTA
Found at i:92555471 original size:41 final size:43
Alignment explanation
Indices: 92555364--92555511 Score: 201
Period size: 43 Copynumber: 3.5 Consensus size: 43
92555354 GCGGTGTTTT
* *
92555364 TTTTGAAAAAAGCGCCGCTAAAAACCAGGACTTTTAGCGGCGC
1 TTTTAAAAAAAGCGCCGCTAAAGACCAGGACTTTTAGCGGCGC
* * * * *
92555407 TTTTAAAAAAAACACCGCAAAAGACCAGGACTTTCAGCAGCGC
1 TTTTAAAAAAAGCGCCGCTAAAGACCAGGACTTTTAGCGGCGC
* *
92555450 TTTT-AAAAAA-CGCCGCTAAAGACTAGGACTTTTAACGGCGC
1 TTTTAAAAAAAGCGCCGCTAAAGACCAGGACTTTTAGCGGCGC
92555491 TTTTAAAAAAAGCGCCGCTAA
1 TTTTAAAAAAAGCGCCGCTAA
92555512 TTTGCCCAGT
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
41 29 0.32
42 12 0.13
43 49 0.54
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (43 bp):
TTTTAAAAAAAGCGCCGCTAAAGACCAGGACTTTTAGCGGCGC
Found at i:92555833 original size:21 final size:21
Alignment explanation
Indices: 92555809--92555852 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
92555799 GTTCTGCTCT
*
92555809 GCCTCCCTCGCTGCTGCCTCC
1 GCCTCCCGCGCTGCTGCCTCC
92555830 GCCTCCCGCGCTGCTGCCTCC
1 GCCTCCCGCGCTGCTGCCTCC
92555851 GC
1 GC
92555853 TCTAAGTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.00, C:0.57, G:0.23, T:0.20
Consensus pattern (21 bp):
GCCTCCCGCGCTGCTGCCTCC
Found at i:92561388 original size:9 final size:9
Alignment explanation
Indices: 92561374--92561540 Score: 145
Period size: 9 Copynumber: 17.6 Consensus size: 9
92561364 ATGTATTAGT
92561374 TAAGTTATG
1 TAAGTTATG
92561383 TAAGTTGTTATG
1 TAA---GTTATG
*
92561395 TACGTTATG
1 TAAGTTATG
*
92561404 TGAGTTATG
1 TAAGTTATG
*
92561413 TAAATTATG
1 TAAGTTATG
92561422 TAAGTTATG
1 TAAGTTATG
*
92561431 TGAGTTATG
1 TAAGTTATG
92561440 TAAGTTGTTATG
1 TAA---GTTATG
*
92561452 TAAATTATG
1 TAAGTTATG
92561461 TAAGTTATG
1 TAAGTTATG
*
92561470 TGAGTTATG
1 TAAGTTATG
92561479 TAAGTTGTTATG
1 TAA---GTTATG
*
92561491 TAAATTATG
1 TAAGTTATG
*
92561500 TAAGTTATA
1 TAAGTTATG
* *
92561509 TGAGTTATT
1 TAAGTTATG
92561518 TAAGTTATG
1 TAAGTTATG
* *
92561527 TAATTTATT
1 TAAGTTATG
92561536 TAAGT
1 TAAGT
92561541 AATGATCAAT
Statistics
Matches: 127, Mismatches: 22, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
9 101 0.80
12 26 0.20
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:92561421 original size:39 final size:40
Alignment explanation
Indices: 92561378--92561540 Score: 159
Period size: 39 Copynumber: 4.2 Consensus size: 40
92561368 ATTAGTTAAG
92561378 TTATGTAAGTTGTTATGT-ACGTTATGT-G-AGTTATGTAAA
1 TTATGTAAG-TGTTATGTGA-GTTATGTAGTAGTTATGTAAA
*
92561417 TTATGTAA--GTTATGTGAGTTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTGTTATGTGAGTTATGT-AGTAGTTATGTAAA
*
92561456 TTATGTAA--GTTATGTGAGTTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTGTTATGTGAGTTATGT-AGTAGTTATGTAAA
* * *
92561495 TTATGTAA--GTTATATGAGTTATTTA--AGTTATGTAAT
1 TTATGTAAGTGTTATGTGAGTTATGTAGTAGTTATGTAAA
*
92561531 TTATTTAAGT
1 TTATGTAAGT
92561541 AATGATCAAT
Statistics
Matches: 112, Mismatches: 6, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
36 30 0.27
37 1 0.01
38 2 0.02
39 79 0.71
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.48
Consensus pattern (40 bp):
TTATGTAAGTGTTATGTGAGTTATGTAGTAGTTATGTAAA
Found at i:92561450 original size:48 final size:44
Alignment explanation
Indices: 92561389--92561528 Score: 174
Period size: 39 Copynumber: 3.4 Consensus size: 44
92561379 TATGTAAGTT
*
92561389 GTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATGTGA
1 GTTATGTAAGTTATGT-AGTTATGTAAATTATGTAAGTTATGTGA
92561434 GTTATGTAAG---T-T-GTTATGTAAATTATGTAAGTTATGTGA
1 GTTATGTAAGTTATGTAGTTATGTAAATTATGTAAGTTATGTGA
*
92561473 GTTATGTAAG---T-T-GTTATGTAAATTATGTAAGTTATATGA
1 GTTATGTAAGTTATGTAGTTATGTAAATTATGTAAGTTATGTGA
*
92561512 GTTATTTAAGTTATGTA
1 GTTATGTAAGTTATGTA
92561529 ATTTATTTAA
Statistics
Matches: 87, Mismatches: 3, Indels: 11
0.86 0.03 0.11
Matches are distributed among these distances:
39 74 0.85
41 1 0.01
42 2 0.02
43 1 0.01
45 9 0.10
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (44 bp):
GTTATGTAAGTTATGTAGTTATGTAAATTATGTAAGTTATGTGA
Found at i:92561467 original size:57 final size:57
Alignment explanation
Indices: 92561374--92561540 Score: 187
Period size: 57 Copynumber: 2.9 Consensus size: 57
92561364 ATGTATTAGT
* *
92561374 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAAGTTATG
* * * *
92561431 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTTGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAA---GTTATG
* * * * *
92561491 TAAATTATGTAAGTT-ATATG--AGTTATTTAAGTTATGTAATTTATTTAAGT
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAAGT
92561541 AATGATCAAT
Statistics
Matches: 93, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
54 2 0.02
57 68 0.73
59 4 0.04
60 19 0.20
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAATTATGTAAGTTATG
Found at i:92561529 original size:48 final size:48
Alignment explanation
Indices: 92561374--92561529 Score: 179
Period size: 48 Copynumber: 3.2 Consensus size: 48
92561364 ATGTATTAGT
* * *
92561374 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
* * * * *
92561422 TAAGTTATGTGAGTTATGTAAGT-TGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGT-TATGTAAGTTATGTAAGTTATGTAAGTTATG
* * * * *
92561470 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATT
1 TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
92561518 TAAGTTATGTAA
1 TAAGTTATGTAA
92561530 TTTATTTAAG
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
47 4 0.05
48 80 0.91
49 4 0.05
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (48 bp):
TAAGTTATGTAAGTTGTTATGTAAGTTATGTAAGTTATGTAAGTTATG
Found at i:92563311 original size:183 final size:184
Alignment explanation
Indices: 92563002--92563371 Score: 706
Period size: 183 Copynumber: 2.0 Consensus size: 184
92562992 CCTAGAACAG
*
92563002 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAAACTTTATCTA
1 ATGTAAGATCATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAAACTTTATCTA
*
92563067 TATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAG
66 TATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAAACAATAGTTGCAGGAG
92563132 GAGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 GAGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
92563186 ATGTAAGATCATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAAA-TTTATCTA
1 ATGTAAGATCATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAAACTTTATCTA
92563250 TATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAAACAATAGTTGCAGGAG
66 TATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAAACAATAGTTGCAGGAG
*
92563315 GAGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAGTACAGACAC
131 GAGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
92563369 ATG
1 ATG
92563372 GAACTATATC
Statistics
Matches: 183, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
183 128 0.70
184 55 0.30
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.26
Consensus pattern (184 bp):
ATGTAAGATCATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAAACTTTATCTA
TATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAAACAATAGTTGCAGGAG
GAGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
Found at i:92566057 original size:28 final size:29
Alignment explanation
Indices: 92566000--92566071 Score: 94
Period size: 28 Copynumber: 2.5 Consensus size: 29
92565990 TTAATCAAAA
*
92566000 CTCTAAACCTTAAACCATTAAACTATATC
1 CTCTAAACCTTAAACCACTAAACTATATC
*
92566029 C-CTATAACCTTAAACC-CTAAAGTATATC
1 CTCTA-AACCTTAAACCACTAAACTATATC
*
92566057 CTCTAAACCCTAAAC
1 CTCTAAACCTTAAAC
92566072 TATATCCCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
28 23 0.61
29 15 0.39
ACGTcount: A:0.40, C:0.31, G:0.01, T:0.28
Consensus pattern (29 bp):
CTCTAAACCTTAAACCACTAAACTATATC
Found at i:92566063 original size:21 final size:21
Alignment explanation
Indices: 92566030--92566091 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
92566020 AACTATATCC
*
92566030 CTATAACCT-TAAACCCTAAA
1 CTATATCCTCTAAACCCTAAA
*
92566050 GTATATCCTCTAAACCCTAAA
1 CTATATCCTCTAAACCCTAAA
* *
92566071 CTATATCCCCT-AACCATAAA
1 CTATATCCTCTAAACCCTAAA
92566091 C
1 C
92566092 CACAAAACAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.40, C:0.32, G:0.02, T:0.26
Consensus pattern (21 bp):
CTATATCCTCTAAACCCTAAA
Found at i:92566263 original size:21 final size:21
Alignment explanation
Indices: 92566239--92566280 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
92566229 ATCTCTATAA
92566239 CCTTAAACCCTAAAATATATC
1 CCTTAAACCCTAAAATATATC
*
92566260 CCTTAAACCCTAAATTATATC
1 CCTTAAACCCTAAAATATATC
92566281 ACTATAACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.29, G:0.00, T:0.31
Consensus pattern (21 bp):
CCTTAAACCCTAAAATATATC
Found at i:92566268 original size:28 final size:26
Alignment explanation
Indices: 92566206--92566374 Score: 100
Period size: 28 Copynumber: 6.4 Consensus size: 26
92566196 ATCAAAACTG
* *
92566206 TAAACCTTAAACCATTAAACTATATCTC
1 TAAACCTTAAACC-CTAAAATATATC-C
92566234 TATAACCTTAAACCCTAAAATATAT-C
1 TA-AACCTTAAACCCTAAAATATATCC
*
92566260 ----CCTTAAACCCTAAATTATATCAC
1 TAAACCTTAAACCCTAAAATATATC-C
* *
92566283 TATAACCTTAAACCCTAAAGTATAT-A
1 TA-AACCTTAAACCCTAAAATATATCC
** *
92566309 TATCCCTTAAACCCTAAACTATATCCCC
1 TAAACCTTAAACCCTAAAATATAT--CC
* * *
92566337 T-AACCATAAACCATAAAATAATAACCCC
1 TAAACCTTAAACCCTAAAAT-AT-A-TCC
92566365 TAAACCTTAA
1 TAAACCTTAA
92566375 CCACAAAATG
Statistics
Matches: 110, Mismatches: 16, Indels: 29
0.71 0.10 0.19
Matches are distributed among these distances:
21 19 0.17
23 1 0.01
25 19 0.17
26 3 0.03
27 13 0.12
28 36 0.33
29 19 0.17
ACGTcount: A:0.44, C:0.27, G:0.01, T:0.28
Consensus pattern (26 bp):
TAAACCTTAAACCCTAAAATATATCC
Found at i:92566286 original size:49 final size:48
Alignment explanation
Indices: 92566210--92566370 Score: 178
Period size: 49 Copynumber: 3.2 Consensus size: 48
92566200 AAACTGTAAA
*
92566210 CCTTAAACCATTAAACTATATCTCTATAACCTTAAACCCTAAAATATATC
1 CCTTAAACC-CTAAACTATATC-CTATAACCTTAAACCCTAAAATATATC
*
92566260 CCTTAAACCCTAAATTATATCACTATAACCTTAAACCCTAAAGTATATATATC
1 CCTTAAACCCTAAACTATATC-CTATAACCTTAAACCCT-AA--A-ATATATC
** * * *
92566313 CCTTAAACCCTAAACTATATCCCCTAACCATAAACCATAAAATAATAAC
1 CCTTAAACCCTAAACTATATCCTATAACCTTAAACCCTAAAAT-ATATC
*
92566362 CCCTAAACC
1 CCTTAAACC
92566371 TTAACCACAA
Statistics
Matches: 96, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
48 2 0.02
49 40 0.42
50 11 0.11
51 2 0.02
52 14 0.15
53 27 0.28
ACGTcount: A:0.43, C:0.29, G:0.01, T:0.28
Consensus pattern (48 bp):
CCTTAAACCCTAAACTATATCCTATAACCTTAAACCCTAAAATATATC
Found at i:92566346 original size:20 final size:21
Alignment explanation
Indices: 92566307--92566347 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
92566297 CTAAAGTATA
* *
92566307 TATATCCCTTAAACCCTAAAC
1 TATATCCCCTAAACCATAAAC
92566328 TATATCCCCT-AACCATAAAC
1 TATATCCCCTAAACCATAAAC
92566348 CATAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.39, C:0.34, G:0.00, T:0.27
Consensus pattern (21 bp):
TATATCCCCTAAACCATAAAC
Found at i:92566520 original size:14 final size:14
Alignment explanation
Indices: 92566477--92566522 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
92566467 CTTAAACCAT
92566477 TAAACTATATCCCC
1 TAAACTATATCCCC
* *
92566491 T--ACTAAAGTACCC
1 TAAACTATA-TCCCC
92566504 TAAACTATATCCCC
1 TAAACTATATCCCC
92566518 TAAAC
1 TAAAC
92566523 CTTAAACCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
12 5 0.20
13 5 0.20
14 10 0.40
15 5 0.20
ACGTcount: A:0.39, C:0.33, G:0.02, T:0.26
Consensus pattern (14 bp):
TAAACTATATCCCC
Found at i:92566571 original size:15 final size:15
Alignment explanation
Indices: 92566541--92566589 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
92566531 ACAAAATAAA
*
92566541 AACCCCT-AAGCATT
1 AACCCCTAAACCATT
92566555 AACCCCTAAACCATT
1 AACCCCTAAACCATT
* * *
92566570 AACCCATAACCCATA
1 AACCCCTAAACCATT
92566585 AACCC
1 AACCC
92566590 TTAACCACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 7 0.23
15 23 0.77
ACGTcount: A:0.41, C:0.41, G:0.02, T:0.16
Consensus pattern (15 bp):
AACCCCTAAACCATT
Found at i:92566579 original size:22 final size:22
Alignment explanation
Indices: 92566554--92566633 Score: 67
Period size: 22 Copynumber: 3.7 Consensus size: 22
92566544 CCCTAAGCAT
*
92566554 TAACCCCTAAACCATTAACCCA
1 TAACCCATAAACCATTAACCCA
*
92566576 TAACCCATAAACCCTTAA-CCA
1 TAACCCATAAACCATTAACCCA
* *
92566597 CTAGCCCAT-AACCCTTAAACCC-
1 -TAACCCATAAACCATT-AACCCA
* *
92566619 CAACCCTTAAACCAT
1 TAACCCATAAACCAT
92566634 AAGCCGTAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
21 15 0.32
22 30 0.64
23 2 0.04
ACGTcount: A:0.39, C:0.41, G:0.01, T:0.19
Consensus pattern (22 bp):
TAACCCATAAACCATTAACCCA
Found at i:92566594 original size:15 final size:15
Alignment explanation
Indices: 92566555--92566673 Score: 65
Period size: 15 Copynumber: 8.3 Consensus size: 15
92566545 CCTAAGCATT
* * *
92566555 AACCCCTAAACCATT
1 AACCCATAACCCATA
92566570 AACCCATAACCCATA
1 AACCCATAACCCATA
*
92566585 AACCCTTAA-CCACT-
1 AACCCATAACCCA-TA
* *
92566599 AGCCCATAACCCTTA
1 AACCCATAACCCATA
* *
92566614 AACCC-CAACCCTTA
1 AACCCATAACCCATA
* *
92566628 AA-CCATAAGCCGTA
1 AACCCATAACCCATA
92566642 AA--CATAATCCC-TA
1 AACCCATAA-CCCATA
92566655 AACCCATAAACCC-TA
1 AACCCAT-AACCCATA
92566670 AACC
1 AACC
92566674 TTTAAATAGT
Statistics
Matches: 83, Mismatches: 13, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
13 11 0.13
14 31 0.37
15 39 0.47
16 2 0.02
ACGTcount: A:0.41, C:0.39, G:0.03, T:0.17
Consensus pattern (15 bp):
AACCCATAACCCATA
Found at i:92567271 original size:40 final size:41
Alignment explanation
Indices: 92567227--92567389 Score: 235
Period size: 41 Copynumber: 4.0 Consensus size: 41
92567217 TGCTTAATCT
92567227 TTTAGCGGCG-TTT-TTAAAAAAGCGCCGCTAATGCTC-GATC
1 TTTAGCGGCGCTTTCTT-AAAAA-CGCCGCTAATGCTCAGATC
* *
92567267 TTTAGCGGCGCTTTCTTAAAAACGCTGCTAATGCTCATATC
1 TTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCAGATC
* *
92567308 TTTAGCGGCGCTTTCTTAAAAATGCCACTAATGCTCAGATC
1 TTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCAGATC
*
92567349 TTTAGCGGCGCTTTGTTAAAAACGCCGCTAATGCTC-GATC
1 TTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCAGATC
92567389 T
1 T
92567390 ATTCGATTTT
Statistics
Matches: 111, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
40 28 0.25
41 81 0.73
42 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.32
Consensus pattern (41 bp):
TTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCAGATC
Found at i:92579422 original size:31 final size:31
Alignment explanation
Indices: 92579363--92579442 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
92579353 ACACATATAT
*
92579363 ATATACTAAATAAAATAATAAAATAATAATAA
1 ATAT-CTAATTAAAATAATAAAATAATAATAA
* *
92579395 ATATCTTATTAAAAT-ATTAAATAAATAATAA
1 ATATCTAATTAAAATAATAAAAT-AATAATAA
*
92579426 TTATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
92579443 TATAAAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 10 0.24
31 27 0.66
32 4 0.10
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
ATATCTAATTAAAATAATAAAATAATAATAA
Found at i:92579428 original size:23 final size:23
Alignment explanation
Indices: 92579369--92579428 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
92579359 ATATATATAC
92579369 TAAAT-AA-AATAA-TAAAATAA
1 TAAATAAATAATAATTAAAATAA
* * *
92579389 T-AATAAATATCTTATTAAAATAT
1 TAAATAAATA-ATAATTAAAATAA
92579412 TAAATAAATAATAATTA
1 TAAATAAATAATAATTA
92579429 TCTAATTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.10
20 3 0.10
21 1 0.03
22 2 0.07
23 13 0.43
24 8 0.27
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
TAAATAAATAATAATTAAAATAA
Found at i:92586232 original size:16 final size:17
Alignment explanation
Indices: 92586211--92586243 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
92586201 CACATTGAAG
92586211 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
92586227 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
92586244 CTTCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:92588052 original size:25 final size:25
Alignment explanation
Indices: 92588023--92588070 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
92588013 TTATAATATG
* * *
92588023 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
92588048 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
92588071 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:92588139 original size:20 final size:20
Alignment explanation
Indices: 92588114--92588172 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
92588104 TAAATATGGT
92588114 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
92588134 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
92588154 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
92588173 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:92588154 original size:11 final size:11
Alignment explanation
Indices: 92588118--92588172 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
92588108 TATGGTATGT
92588118 ATGATATGCAC
1 ATGATATGCAC
* *
92588129 ATGAAATG--T
1 ATGATATGCAC
92588138 ATGATATGCAC
1 ATGATATGCAC
*
92588149 ATGATATG--T
1 ATGATATGCAC
92588158 ATGATATGCAC
1 ATGATATGCAC
92588169 ATGA
1 ATGA
92588173 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:92588250 original size:24 final size:24
Alignment explanation
Indices: 92588223--92588341 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
92588213 GAGGAAGTGA
*
92588223 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
92588247 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
92588270 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
92588294 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
92588318 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
92588342 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:92588292 original size:47 final size:48
Alignment explanation
Indices: 92588223--92588341 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
92588213 GAGGAAGTGA
92588223 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
92588270 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
92588318 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
92588342 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:92588568 original size:31 final size:31
Alignment explanation
Indices: 92588533--92588596 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
92588523 CGTTTACAGT
92588533 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
92588564 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
92588595 AA
1 AA
92588597 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:92590725 original size:15 final size:17
Alignment explanation
Indices: 92590699--92590732 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
92590689 TATTTAATTA
92590699 TTTATCATCTTT-TAAT
1 TTTATCATCTTTCTAAT
92590715 TTTATCA-CTTTCTAAT
1 TTTATCATCTTTCTAAT
92590731 TT
1 TT
92590733 AGTTCCTAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATCATCTTTCTAAT
Found at i:92592434 original size:25 final size:24
Alignment explanation
Indices: 92592380--92592457 Score: 77
Period size: 25 Copynumber: 3.2 Consensus size: 24
92592370 GCCAAATAAT
* * *
92592380 GGTAAGCTCCTCCGA-CTGAATAAC
1 GGTAAGCTCATACGAGCTG-ATATC
*
92592404 GATAAGCTCATACGAGCTGAGTATC
1 GGTAAGCTCATACGAGCTGA-TATC
* *
92592429 GGTAAGCTCATAAGAGCTGAAATC
1 GGTAAGCTCATACGAGCTGATATC
92592453 GGTAA
1 GGTAA
92592458 CCCTAATGAC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
24 21 0.47
25 24 0.53
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (24 bp):
GGTAAGCTCATACGAGCTGATATC
Found at i:92595139 original size:2 final size:2
Alignment explanation
Indices: 92595132--92595170 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
92595122 TACTATTAGC
*
92595132 CT CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
92595171 CTAGTTCAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:92595369 original size:19 final size:19
Alignment explanation
Indices: 92595340--92595379 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
92595330 AAAGTAGTGG
*
92595340 AAATTTATTTTTTA-GAAT
1 AAATTTATTTTCTAGGAAT
92595358 AAATTATATTTTCTAGGAAT
1 AAATT-TATTTTCTAGGAAT
92595378 AA
1 AA
92595380 CAATTTTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 8 0.42
20 6 0.32
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.47
Consensus pattern (19 bp):
AAATTTATTTTCTAGGAAT
Found at i:92601399 original size:20 final size:20
Alignment explanation
Indices: 92601361--92601399 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
92601351 ACATGTATTC
* *
92601361 ATCAAATTTCAGAATTTTTT
1 ATCAAATTTCACAACTTTTT
*
92601381 ATCAAATTTTACAACTTTT
1 ATCAAATTTCACAACTTTT
92601400 CATTTTAGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.13, G:0.03, T:0.49
Consensus pattern (20 bp):
ATCAAATTTCACAACTTTTT
Found at i:92603224 original size:21 final size:22
Alignment explanation
Indices: 92603198--92603248 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 22
92603188 ACAAACATTC
92603198 AATTAAAAGA-TTAATGAAAGA
1 AATTAAAAGATTTAATGAAAGA
92603219 AATTAAAAGATTTAATGAAAGA
1 AATTAAAAGATTTAATGAAAGA
92603241 AATATAAA
1 AAT-TAAA
92603249 TAAAAGAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 10 0.36
22 14 0.50
23 4 0.14
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.25
Consensus pattern (22 bp):
AATTAAAAGATTTAATGAAAGA
Found at i:92603686 original size:21 final size:20
Alignment explanation
Indices: 92603656--92603696 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
92603646 GTAGCTTCGA
92603656 TGTTCAGTGTAGCGACATTG
1 TGTTCAGTGTAGCGACATTG
*
92603676 TGTTCTAGTGTTGCGACATTG
1 TGTTC-AGTGTAGCGACATTG
92603697 AAGCTGTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.17, C:0.15, G:0.29, T:0.39
Consensus pattern (20 bp):
TGTTCAGTGTAGCGACATTG
Found at i:92604923 original size:56 final size:56
Alignment explanation
Indices: 92604861--92605059 Score: 317
Period size: 56 Copynumber: 3.6 Consensus size: 56
92604851 ATCGCAATAC
* * * * * *
92604861 ATGAATGTATGTATGACCATGAGGTTAAAACCCATGGCAAGATCTAATATGACTAA
1 ATGAATGTATGTAAGACCATGAGGTTAAGACCTATGGCAAGATCTGATATAACTGA
* *
92604917 ATGAATGTATGTAAGACCATGAGGTTAAGACCTATGGTAAGATCTGATATTACTGA
1 ATGAATGTATGTAAGACCATGAGGTTAAGACCTATGGCAAGATCTGATATAACTGA
92604973 ATGAATGTATGTAAGACCATGAGGTTAAGACCTATGGCAAGATCTGATATAACTGA
1 ATGAATGTATGTAAGACCATGAGGTTAAGACCTATGGCAAGATCTGATATAACTGA
*
92605029 ATGAATGTATGTAAGACCATGTGGTTAAGAC
1 ATGAATGTATGTAAGACCATGAGGTTAAGAC
92605060 ACAAGGCATT
Statistics
Matches: 133, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 133 1.00
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (56 bp):
ATGAATGTATGTAAGACCATGAGGTTAAGACCTATGGCAAGATCTGATATAACTGA
Found at i:92607346 original size:21 final size:21
Alignment explanation
Indices: 92607296--92607413 Score: 61
Period size: 20 Copynumber: 5.9 Consensus size: 21
92607286 AAATAAATAC
*
92607296 CTCATATTTTTTTGGTATTCT
1 CTCATAATTTTTTGGTATTCT
* *
92607317 CTAAT-ATTTTTTGTTATTC-
1 CTCATAATTTTTTGGTATTCT
* **
92607336 CTTCATAA-TTTTGGGTACAC-
1 C-TCATAATTTTTTGGTATTCT
* * *
92607356 CTTCATAA-TTATTGGTAATCC
1 C-TCATAATTTTTTGGTATTCT
* *
92607377 CTCATAA-TTTTTAGTGTTCT
1 CTCATAATTTTTTGGTATTCT
*
92607397 CTCATTA-TTTTTGGTAT
1 CTCATAATTTTTTGGTAT
92607414 GCCACTAAAA
Statistics
Matches: 74, Mismatches: 20, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
19 1 0.01
20 67 0.91
21 6 0.08
ACGTcount: A:0.21, C:0.15, G:0.10, T:0.53
Consensus pattern (21 bp):
CTCATAATTTTTTGGTATTCT
Found at i:92607347 original size:20 final size:20
Alignment explanation
Indices: 92607324--92607388 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
92607314 TCTCTAATAT
* *
92607324 TTTTTGTTATTCCTTCATAA
1 TTTTTGGTAATCCTTCATAA
*
92607344 TTTTGGGTACA-CCTTCATAA
1 TTTTTGGTA-ATCCTTCATAA
* *
92607364 TTATTGGTAATCCCTCATAA
1 TTTTTGGTAATCCTTCATAA
92607384 TTTTT
1 TTTTT
92607389 AGTGTTCTCT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
19 1 0.03
20 35 0.97
ACGTcount: A:0.23, C:0.17, G:0.09, T:0.51
Consensus pattern (20 bp):
TTTTTGGTAATCCTTCATAA
Found at i:92607537 original size:22 final size:22
Alignment explanation
Indices: 92607493--92607538 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
92607483 AATATTTTTG
***
92607493 TATACTAATAAATTTTGTTATA
1 TATACTAATAAATTTTAAAATA
92607515 TATACTAATAAATTTTAAAATA
1 TATACTAATAAATTTTAAAATA
92607537 TA
1 TA
92607539 AATGACCACC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (22 bp):
TATACTAATAAATTTTAAAATA
Found at i:92615492 original size:42 final size:42
Alignment explanation
Indices: 92615380--92615501 Score: 163
Period size: 43 Copynumber: 2.9 Consensus size: 42
92615370 TACTGTACCA
* * *
92615380 ATGCCATATCCCATATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
* * * *
92615422 ATGCCAATAGCCTAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAATCTCATATCG
*
92615465 ATTCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
92615502 GTAACCTTAA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 33 0.49
43 34 0.51
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:92617677 original size:20 final size:20
Alignment explanation
Indices: 92617624--92617679 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 20
92617614 TATTTTGTAG
*
92617624 TCCCTTATAATTTTTGGTAC
1 TCCCTTATATTTTTTGGTAC
* * *
92617644 TCACCTCATTTTTTTTGGTAT
1 TC-CCTTATATTTTTTGGTAC
*
92617665 TCCCTTATGTTTTTT
1 TCCCTTATATTTTTT
92617680 AATACTCCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.14, C:0.20, G:0.09, T:0.57
Consensus pattern (20 bp):
TCCCTTATATTTTTTGGTAC
Found at i:92618061 original size:19 final size:17
Alignment explanation
Indices: 92618036--92618102 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 17
92618026 ATAGGTATAC
92618036 TAAAAATATGAGGAAGTA
1 TAAAAATATGAGGAA-TA
*
92618054 TCAAAAATTTGGAGGGAATA
1 T-AAAAATAT-GA-GGAATA
92618074 TAAAAAATTATGAGAGAATA
1 T-AAAAA-TATGAG-GAATA
92618094 TAAAAATAT
1 TAAAAATAT
92618103 AAGAAAGTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
18 4 0.10
19 13 0.32
20 18 0.44
21 6 0.15
ACGTcount: A:0.55, C:0.01, G:0.18, T:0.25
Consensus pattern (17 bp):
TAAAAATATGAGGAATA
Found at i:92618068 original size:20 final size:20
Alignment explanation
Indices: 92618056--92618099 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
92618046 AGGAAGTATC
92618056 AAAAATTTGGAGGGAATATA
1 AAAAATTTGGAGGGAATATA
*
92618076 AAAAATTAT-GAGAGAATATA
1 AAAAATT-TGGAGGGAATATA
92618096 AAAA
1 AAAA
92618100 TATAAGAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.59, C:0.00, G:0.18, T:0.23
Consensus pattern (20 bp):
AAAAATTTGGAGGGAATATA
Found at i:92618159 original size:20 final size:20
Alignment explanation
Indices: 92618134--92618252 Score: 69
Period size: 20 Copynumber: 5.6 Consensus size: 20
92618124 ATGAAGAACC
92618134 ACCAAAAATTATAAGGAAAT
1 ACCAAAAATTATAAGGAAAT
*
92618154 ATCAAAAACAAAAA-TATAAGAAAAGT
1 A-C-----CAAAAATTATAAGGAAA-T
* * *
92618180 ACCAAAAATTTTTTAGGAAGT
1 ACCAAAAA-TTATAAGGAAAT
* *
92618201 ATCAAAAATTATAAGGGAAT
1 ACCAAAAATTATAAGGAAAT
* ** *
92618221 ACAAAAAAAAATGAGGAAAT
1 ACCAAAAATTATAAGGAAAT
92618241 ACCAAAAATTAT
1 ACCAAAAATTAT
92618253 GCGATAATAC
Statistics
Matches: 71, Mismatches: 19, Indels: 18
0.66 0.18 0.17
Matches are distributed among these distances:
20 38 0.54
21 9 0.13
22 6 0.08
25 10 0.14
26 8 0.11
ACGTcount: A:0.60, C:0.08, G:0.11, T:0.21
Consensus pattern (20 bp):
ACCAAAAATTATAAGGAAAT
Found at i:92618171 original size:25 final size:27
Alignment explanation
Indices: 92618136--92618187 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
92618126 GAAGAACCAC
* *
92618136 CAAAAATTATAAGGAAA-TATCAAAAA
1 CAAAAATTATAAGAAAAGTACCAAAAA
92618162 CAAAAA-TATAAGAAAAGTACCAAAAA
1 CAAAAATTATAAGAAAAGTACCAAAAA
92618188 TTTTTTAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.67, C:0.10, G:0.08, T:0.15
Consensus pattern (27 bp):
CAAAAATTATAAGAAAAGTACCAAAAA
Found at i:92618629 original size:20 final size:20
Alignment explanation
Indices: 92618592--92618632 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
92618582 AACTATAAGA
*
92618592 AAATACCAAGATTAATGAGG
1 AAATACCAAAATTAATGAGG
92618612 AAATACCAAAACTT-ATGAGG
1 AAATACCAAAA-TTAATGAGG
92618632 A
1 A
92618633 TGTATCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.51, C:0.12, G:0.17, T:0.20
Consensus pattern (20 bp):
AAATACCAAAATTAATGAGG
Found at i:92618862 original size:19 final size:21
Alignment explanation
Indices: 92618830--92618875 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
92618820 AATGTACAAA
*
92618830 AAAAAATTACGAGAGAATA-T
1 AAAAAATTACGAGAAAATACT
*
92618850 AAAAAA-TATGAGAAAATACT
1 AAAAAATTACGAGAAAATACT
92618870 AAAAAA
1 AAAAAA
92618876 AAGTACCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.67, C:0.04, G:0.11, T:0.17
Consensus pattern (21 bp):
AAAAAATTACGAGAAAATACT
Found at i:92619904 original size:108 final size:109
Alignment explanation
Indices: 92619747--92619969 Score: 403
Period size: 108 Copynumber: 2.0 Consensus size: 109
92619737 TAGGCCAATT
*
92619747 TTTGTGTGTGTGAGACGCGCTTTCTGTACATGTAGCAGAAAGCGCGCCTAGCTGATTGCACTTTC
1 TTTGTGTGTGAGAGACGCGCTTTCTGTACATGTAGCAGAAAGCGCGCCTAGCTGATTGCACTTTC
92619812 CTTTAAAATTG-TTTTTTTTACTTTTTTTAATGTAATTAGTATA
66 CTTTAAAATTGTTTTTTTTTACTTTTTTTAATGTAATTAGTATA
92619855 TTTGTGTGTGAGAGACGCGCTTTCTGTACATGTAGCAGAAAGCGCGCCTAGCTGATTGCACTTTC
1 TTTGTGTGTGAGAGACGCGCTTTCTGTACATGTAGCAGAAAGCGCGCCTAGCTGATTGCACTTTC
*
92619920 CTTTTAAATTGTATTTTTTTTTACTTTTTTTAATGTAATTAGTATA
66 CTTTAAAATTG--TTTTTTTTTACTTTTTTTAATGTAATTAGTATA
92619966 TTTG
1 TTTG
92619970 GTCAAATGAT
Statistics
Matches: 110, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
108 74 0.67
111 36 0.33
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.44
Consensus pattern (109 bp):
TTTGTGTGTGAGAGACGCGCTTTCTGTACATGTAGCAGAAAGCGCGCCTAGCTGATTGCACTTTC
CTTTAAAATTGTTTTTTTTTACTTTTTTTAATGTAATTAGTATA
Found at i:92620228 original size:19 final size:18
Alignment explanation
Indices: 92620199--92620249 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 18
92620189 TGTTTCAAGT
92620199 TTTTTAATTAATAT-ATA
1 TTTTTAATTAATATCATA
92620216 TTTTTATATTTAAT-TCATA
1 TTTTTA-A-TTAATATCATA
92620235 TTTTTAATTAATATC
1 TTTTTAATTAATATC
92620250 TCTTTTATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 11 0.37
18 5 0.17
19 14 0.47
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTTAATTAATATCATA
Found at i:92620255 original size:17 final size:17
Alignment explanation
Indices: 92620199--92620255 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
92620189 TGTTTCAAGT
*
92620199 TTTTTAATTAATATATA
1 TTTTTAATTAATATCTA
92620216 TTTTTATATTTAAT-TCATA
1 TTTTTA-A-TTAATATC-TA
*
92620235 TTTTTAATTAATATCTC
1 TTTTTAATTAATATCTA
92620252 TTTT
1 TTTT
92620256 ATTCATAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
17 16 0.47
18 5 0.15
19 13 0.38
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTTAATTAATATCTA
Found at i:92621377 original size:31 final size:31
Alignment explanation
Indices: 92621340--92621399 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
92621330 TTTGTAGTCC
* *
92621340 AATTTGGTTCCTAAGCTTAACACTTTTTCCT
1 AATTTGGTACCTAAACTTAACACTTTTTCCT
* *
92621371 AATTTGGTACCTAAACTTGACATTTTTTC
1 AATTTGGTACCTAAACTTAACACTTTTTC
92621400 TTAAGTGGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.45
Consensus pattern (31 bp):
AATTTGGTACCTAAACTTAACACTTTTTCCT
Found at i:92621961 original size:36 final size:36
Alignment explanation
Indices: 92621883--92621962 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
92621873 TGCCAAGTAG
* * * *
92621883 AAAAAAAAATGTCAAGTTCAGGTACCAAATTGGGCC
1 AAAAAAAAATGTCAAGTTCAAGTAACAAATTGAGCA
** *
92621919 CCAAAAAAATGTCAATTTCAAGTAACAAATTGAGCA
1 AAAAAAAAATGTCAAGTTCAAGTAACAAATTGAGCA
92621955 AAAAAAAA
1 AAAAAAAA
92621963 GTTTAGGTAC
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.53, C:0.15, G:0.14, T:0.19
Consensus pattern (36 bp):
AAAAAAAAATGTCAAGTTCAAGTAACAAATTGAGCA
Found at i:92622745 original size:13 final size:13
Alignment explanation
Indices: 92622727--92622751 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92622717 TAAAAGAGAT
92622727 ATTAATTAAAAAG
1 ATTAATTAAAAAG
92622740 ATTAATTAAAAA
1 ATTAATTAAAAA
92622752 TAAAAATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAG
Found at i:92624002 original size:17 final size:19
Alignment explanation
Indices: 92623971--92624008 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
92623961 CGCTGCTATA
92623971 TTTTCTTTCAGTGTT-TTC
1 TTTTCTTTCAGTGTTCTTC
*
92623989 TTTT-TTTCATTGTTCTTC
1 TTTTCTTTCAGTGTTCTTC
92624007 TT
1 TT
92624009 CGACTATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.05, C:0.16, G:0.08, T:0.71
Consensus pattern (19 bp):
TTTTCTTTCAGTGTTCTTC
Found at i:92628099 original size:16 final size:16
Alignment explanation
Indices: 92628074--92628106 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
92628064 ATTCAATTGA
92628074 TGCATAGGATTTTAAG
1 TGCATAGGATTTTAAG
*
92628090 TGCATTGGATTTTAAG
1 TGCATAGGATTTTAAG
92628106 T
1 T
92628107 CTAGATTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.06, G:0.24, T:0.42
Consensus pattern (16 bp):
TGCATAGGATTTTAAG
Found at i:92632024 original size:20 final size:19
Alignment explanation
Indices: 92631984--92632044 Score: 79
Period size: 19 Copynumber: 3.1 Consensus size: 19
92631974 AACTCACAAC
92631984 AAAAATTTT-AAATATTCAA
1 AAAAATTTTAAAAT-TTCAA
*
92632003 AATAATTTTAAAATTTCAA
1 AAAAATTTTAAAATTTCAA
92632022 AAAAATTTATAAAATTTTCAA
1 AAAAATTT-TAAAA-TTTCAA
92632043 AA
1 AA
92632045 TTTATATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 20 0.54
20 9 0.24
21 8 0.22
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTTTAAAATTTCAA
Found at i:92632616 original size:48 final size:48
Alignment explanation
Indices: 92632560--92632657 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
92632550 TTTGAATCCA
92632560 TTTCCATTATCTACCATTAACTAGATAATAAAAGGATGTAGTAATTTT
1 TTTCCATTATCTACCATTAACTAGATAATAAAAGGATGTAGTAATTTT
*
92632608 TTTCCATTATCTACCATTAACTAGATAATAAACGGATGTAGTAATTTT
1 TTTCCATTATCTACCATTAACTAGATAATAAAAGGATGTAGTAATTTT
92632656 TT
1 TT
92632658 AATTAGTGTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (48 bp):
TTTCCATTATCTACCATTAACTAGATAATAAAAGGATGTAGTAATTTT
Found at i:92633999 original size:11 final size:11
Alignment explanation
Indices: 92633985--92634060 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
92633975 GATAATCAAT
92633985 TTAATATTAAA
1 TTAATATTAAA
92633996 TTAATA--AAA
1 TTAATATTAAA
*
92634005 -TATTATTAAGA
1 TTAATATTAA-A
*
92634016 TAAATATTAAA
1 TTAATATTAAA
92634027 TTAA-ATTTAATA
1 TTAATA-TTAA-A
92634039 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
92634052 ATAATATTA
1 TTAATATTA
92634061 TCTTTGAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 3 0.06
11 20 0.39
12 12 0.24
13 4 0.08
14 4 0.08
15 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:92638704 original size:44 final size:44
Alignment explanation
Indices: 92638655--92638745 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
92638645 GTAGGTCAAA
* *
92638655 TAATATTAAAAGAATATACACTAATTAGAGTTTAAATGGGAAAC
1 TAATATTAAAAGAACATACACTAATCAGAGTTTAAATGGGAAAC
* * * *
92638699 TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGTAAAC
1 TAATATTAAAAGAACATACACTAATCAGAGTTTAAATGGGAAAC
92638743 TAA
1 TAA
92638746 AAACAAAGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (44 bp):
TAATATTAAAAGAACATACACTAATCAGAGTTTAAATGGGAAAC
Found at i:92641012 original size:21 final size:21
Alignment explanation
Indices: 92640967--92641012 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
92640957 TGTTCCTTTC
* *
92640967 TTTCTTTTTTCTTTATATTTT
1 TTTCTTCTTTCTTTATATTTG
92640988 TTTCTTCTTTCTTTGAT-TTTG
1 TTTCTTCTTTCTTT-ATATTTG
92641009 TTTC
1 TTTC
92641013 CTTTCTCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.07, C:0.13, G:0.04, T:0.76
Consensus pattern (21 bp):
TTTCTTCTTTCTTTATATTTG
Found at i:92641304 original size:23 final size:23
Alignment explanation
Indices: 92641286--92641332 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
92641276 TTCTTTGATC
92641286 AGATCTTTCAAAAGACTTTTCCT
1 AGATCTTTCAAAAGACTTTTCCT
*
92641309 ATATCTTTCAAAAGACTTTTCCT
1 AGATCTTTCAAAAGACTTTTCCT
92641332 A
1 A
92641333 AGGTTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.40
Consensus pattern (23 bp):
AGATCTTTCAAAAGACTTTTCCT
Found at i:92642445 original size:2 final size:2
Alignment explanation
Indices: 92642438--92642469 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
92642428 CATTTAATAA
92642438 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
92642470 CTAACAACAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:92642855 original size:20 final size:20
Alignment explanation
Indices: 92642819--92642859 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
92642809 ATTTTAAAAG
*
92642819 AATATATTTTTATATTTTTA
1 AATATATTTTAATATTTTTA
92642839 AATA-ATTTTAATGATTTTTA
1 AATATATTTTAAT-ATTTTTA
92642859 A
1 A
92642860 TTTTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
AATATATTTTAATATTTTTA
Found at i:92649280 original size:33 final size:33
Alignment explanation
Indices: 92649243--92649312 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
92649233 AAATTGAGAG
92649243 TCTTAAGGGATTTAAACTCTATACGATCTTATC
1 TCTTAAGGGATTTAAACTCTATACGATCTTATC
92649276 TCTTAAGGGATTTAAACTCTATACGATCTTATC
1 TCTTAAGGGATTTAAACTCTATACGATCTTATC
92649309 TCTT
1 TCTT
92649313 TAAGATTTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (33 bp):
TCTTAAGGGATTTAAACTCTATACGATCTTATC
Found at i:92652270 original size:3 final size:3
Alignment explanation
Indices: 92652234--92653033 Score: 346
Period size: 3 Copynumber: 266.3 Consensus size: 3
92652224 TTTAAAAATG
* * * * *
92652234 ATA ATA GTA ATA AAA ATA AAA ATA ATA GTG ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
92652282 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CATTA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA ATA
* * * * * * * *
92652329 ATA AT- ATG TTA ATA ACA ATA A-A TTA ATG AT- TTA ATA A-C ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
92652373 GTA AGTAA ATA A-A CATA AAA ATA A-A ATA ATT ATA ATA GTA ATA TTA
1 ATA A-T-A ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
92652419 ACA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
92652465 ATG ATA ACA ATG ATA TTA ATA A-A ATA ATA GAAA ATA ATA ATA CATTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -A-TA
* * *
92652512 ATA ATA ATA TATG TTA ATA ACA ATA ATA ATA TATA A-A ATA ATA AT-
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * * * * * * * *
92652557 ATG GTA A-A AAA ATA ATA AGA AT- GTA TTA ACA AGA ATG ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
92652603 A-A ATA A-G ATT ATA ATA ATA GTA TTA ATA AAA ATA GA-C ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* * * * *** *
92652645 A-A GATA GTA ATA ATA GTA ACA ATA AGA GCG TTA ATA ATA ATA ATA
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
92652690 ATA TTGA GATA CA-A A-A AGTA A-A TATA ATA A-A ATA TTA A-A ATA
1 ATA AT-A -ATA -ATA ATA A-TA ATA -ATA ATA ATA ATA ATA ATA ATA
* *
92652732 A-A GTA ATAA AGA ATA A-A ACT- ATA TATA A-A TATA TATA CAT- ATA
1 ATA ATA AT-A ATA ATA ATA A-TA ATA -ATA ATA -ATA -ATA -ATA ATA
* *
92652775 CGTA TATA ATA AAA AGT- ATA CACTA ATA ATA ATA ATA ATA ATA ATA
1 -ATA -ATA ATA ATA A-TA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA
* * **
92652821 ATA ATA ATA ATA ATA ATA ATA ATA TTA A-A ATA CAAA AGC A-A AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* * * *
92652864 ATA ATA AAA ATA TTA A-A ATA A-A GTA ATA A-A A-A ATA ATA CTA TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * *
92652909 CAAA AT- ATA TATGC AT- ATA CGTA TATA ATA AAA AGT- ATA CACTA ATA
1 -ATA ATA ATA -AT-A ATA ATA -ATA -ATA ATA ATA A-TA ATA -A-TA ATA
92652956 TATA ATAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 -ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
92653003 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
92653034 AGAAACGAAA
Statistics
Matches: 598, Mismatches: 129, Indels: 140
0.69 0.15 0.16
Matches are distributed among these distances:
2 61 0.10
3 464 0.78
4 62 0.10
5 11 0.02
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:92652618 original size:104 final size:104
Alignment explanation
Indices: 92652423--92652621 Score: 239
Period size: 103 Copynumber: 1.9 Consensus size: 104
92652413 ATATTAACAA
* * * *
92652423 AATAATAATAATAATAATAATAATAATAATAATAATAATAAAATGATAACAATGATATTAATAAA
1 AATAACAATAATAATAATAATAATAATAATAATAATAAAAAAATAATAACAATGATATTAACAAA
92652488 ATAATAGAAAATAATAATACATTAATAATAATATATGTT
66 ATAATAGAAAATAATAATACATTAATAATAATATATGTT
** *
92652527 AATAACAATAATAATATATAA-AATAATAAT-ATGGTAAAAAAATAATAAGAATG-TATTAACAA
1 AATAACAATAATAATA-ATAATAATAATAATAATAATAAAAAAATAATAACAATGATATTAACAA
* * *
92652589 GAATGATA-ATAATAA-AATAAGATT-ATAATAATA
65 -AATAATAGAAAATAATAAT-ACATTAATAATAATA
92652622 GTATTAATAA
Statistics
Matches: 82, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
101 12 0.15
102 18 0.22
103 24 0.29
104 24 0.29
105 4 0.05
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.31
Consensus pattern (104 bp):
AATAACAATAATAATAATAATAATAATAATAATAATAAAAAAATAATAACAATGATATTAACAAA
ATAATAGAAAATAATAATACATTAATAATAATATATGTT
Found at i:92652874 original size:152 final size:155
Alignment explanation
Indices: 92652676--92653008 Score: 548
Period size: 152 Copynumber: 2.2 Consensus size: 155
92652666 ATAAGAGCGT
* * *
92652676 TAATAATAATAATAATATTGAGATACAAAAAGTAAATATAATAAAATATTAAAATAAAGTAATAA
1 TAATAATAATAATAATATTAAAATACAAAAAGCAAATATAATAAAATATTAAAATAAAGTAATAA
* *
92652741 AGAATAAAACTATATA-TAAATATATATACATATACGTATATAATAAAAAGTATACACTAATA-A
66 AAAATAAAACTATATACAAAATATATATACATATACGTATATAATAAAAAGTATACACTAATATA
92652804 TAAT-AATAATAATAATAATAATAA
131 TAATAAATAATAATAATAATAATAA
92652828 TAATAATAATAATAATATTAAAATAC-AAAAGCAAATATAATAAAAATATTAAAATAAAGTAATA
1 TAATAATAATAATAATATTAAAATACAAAAAGCAAATATAAT-AAAATATTAAAATAAAGTAATA
* *
92652892 AAAAATAATACTATATACAAAATATATATGCATATACGTATATAATAAAAAGTATACACTAATAT
65 AAAAATAAAACTATATACAAAATATATATACATATACGTATATAATAAAAAGTATACACTAATAT
92652957 ATAATAAATAATAATAATAATAATAA
130 ATAATAAATAATAATAATAATAATAA
*
92652983 TAATAATAATAATAATAATAATAATA
1 TAATAATAATAATAATATTAA-AATA
92653009 ATAATAATAA
Statistics
Matches: 168, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
151 14 0.08
152 61 0.36
153 44 0.26
154 5 0.03
155 40 0.24
156 4 0.02
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (155 bp):
TAATAATAATAATAATATTAAAATACAAAAAGCAAATATAATAAAATATTAAAATAAAGTAATAA
AAAATAAAACTATATACAAAATATATATACATATACGTATATAATAAAAAGTATACACTAATATA
TAATAAATAATAATAATAATAATAA
Found at i:92653628 original size:11 final size:11
Alignment explanation
Indices: 92653597--92653626 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
92653587 TCTAAAAAGG
92653597 TATTATTTTAT
1 TATTATTTTAT
92653608 TATTATTTTAT
1 TATTATTTTAT
92653619 TA-TATTTT
1 TATTATTTT
92653627 TAAATTGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:92654928 original size:76 final size:76
Alignment explanation
Indices: 92654768--92655123 Score: 475
Period size: 75 Copynumber: 4.7 Consensus size: 76
92654758 AGAGACTAAA
* * *
92654768 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAAAACATAAATTGAAAATATCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAAACAGAAATTGAAAATACCTC
* * **
92654833 AGTGCGTGACTTG
64 AGCGTGTGACCCG
* *
92654846 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTGAAAAACAGGAATT-AAAGATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAA-ATACCTCA
*
92654910 GTGTGTGACCCG
65 GCGTGTGACCCG
* * *
92654922 AGGCTCAACTCACCTTTCGCAATATGAGTT-AATTTTTGAAAAACAGAAATTGAAAATACCTCGG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAG
*
92654986 CGTGTGACCTG
66 CGTGTGACCCG
* **
92654997 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATAGAAATTGAAAATACCTTGG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAG
92655061 CGTGTGACCCG
66 CGTGTGACCCG
* * *
92655072 AGGCTCAACTCACATCTCGCAATATAAGTTAATTTTTTTGAAAAACAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAAT
92655124 AAAAATATCA
Statistics
Matches: 250, Mismatches: 23, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
75 137 0.55
76 59 0.24
77 24 0.10
78 30 0.12
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30
Consensus pattern (76 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAG
CGTGTGACCCG
Found at i:92655129 original size:151 final size:153
Alignment explanation
Indices: 92654768--92655123 Score: 513
Period size: 151 Copynumber: 2.3 Consensus size: 153
92654758 AGAGACTAAA
* * * *
92654768 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAAAACATAAATTGAAAATATCTC
1 AGGCTCAACTCACATCTCGCAATATGAGTTAATTTTTTTG-AAAAACAGAAATTGAAAATACCTC
* * * *
92654833 AGTGCGTGACTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTGAAAAACAGGAATT
65 AGCGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT
*
92654898 AAAGATACCTCAGTGTGTGACCCG
130 AAAGATACCTCAGCGTGTGACCCG
* * *
92654922 AGGCTCAACTCACCTTTCGCAATATGAGTTAA--TTTTTGAAAAACAGAAATTGAAAATACCTCG
1 AGGCTCAACTCACATCTCGCAATATGAGTTAATTTTTTTGAAAAACAGAAATTGAAAATACCTCA
* *
92654985 GCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATAGAAATTG
66 GCGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT-
**
92655049 AAA-ATACCTTGGCGTGTGACCCG
130 AAAGATACCTCAGCGTGTGACCCG
*
92655072 AGGCTCAACTCACATCTCGCAATATAAGTTAATTTTTTTGAAAAACAGAAAT
1 AGGCTCAACTCACATCTCGCAATATGAGTTAATTTTTTTGAAAAACAGAAAT
92655124 AAAAATATCA
Statistics
Matches: 181, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
150 63 0.35
151 65 0.36
152 24 0.13
154 29 0.16
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.30
Consensus pattern (153 bp):
AGGCTCAACTCACATCTCGCAATATGAGTTAATTTTTTTGAAAAACAGAAATTGAAAATACCTCA
GCGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTA
AAGATACCTCAGCGTGTGACCCG
Found at i:92666269 original size:16 final size:18
Alignment explanation
Indices: 92666248--92666283 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
92666238 CATTTTATTT
92666248 AAAAACT-AAACTA-AAA
1 AAAAACTAAAACTATAAA
92666264 AAAAACTAAAACTATAAA
1 AAAAACTAAAACTATAAA
92666282 AA
1 AA
92666284 CTTAGAGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 6 0.33
18 5 0.28
ACGTcount: A:0.75, C:0.11, G:0.00, T:0.14
Consensus pattern (18 bp):
AAAAACTAAAACTATAAA
Found at i:92670411 original size:44 final size:45
Alignment explanation
Indices: 92670127--92670484 Score: 201
Period size: 44 Copynumber: 8.0 Consensus size: 45
92670117 AAGGTTTGGT
* *
92670127 ATCTTC-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTT
1 ATCTTCAGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTA
* * *
92670171 ATCTTCA-ATATGCTCCGCTACAGCTTCAGAGAGATAAGA-CTTGTA
1 ATCTTCAGATCTGCTCCACTACTGCTT-AGAGAGATAAGATC-TGTA
* * * *
92670216 A-CTTCA-A-CATGCTCTCTGCAACT--TTAGAGAGATAAGGTTTGCT-
1 ATCTTCAGATC-TGCTC-C-ACTACTGCTTAGAGAGATAAGATCTG-TA
*
92670259 ATCTTTA-ATCTGCTCCACTACTGCTTAGAGAGATAAGATCTTGTA
1 ATCTTCAGATCTGCTCCACTACTGCTTAGAGAGATAAGATC-TGTA
* * ** * * *
92670304 ATCCTCCAG-CCTTTTACC-CTACTGCTTAGGGAGTTAA-AGCCTGCTCA
1 AT-CTTCAGATCTGCT-CCACTACTGCTTAGAGAGATAAGA-TCTG-T-A
92670351 TCATCTTC-GATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTA
1 --ATCTTCAGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTA
* * * * **
92670397 ATCTTCAGCT-TGCTCCACTGCTGCTCAGAGAGATAA-AGCTTGCC
1 ATCTTCAGATCTGCTCCACTACTGCTTAGAGAGATAAGATC-TGTA
* * * * * *
92670441 ATTTTC-GATCCGCTCCACTATTGCTTAGGGAAATAGGATCTGTA
1 ATCTTCAGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTA
92670485 TTTTCAGTCA
Statistics
Matches: 237, Mismatches: 48, Indels: 58
0.69 0.14 0.17
Matches are distributed among these distances:
42 4 0.02
43 19 0.08
44 120 0.51
45 28 0.12
46 30 0.13
47 7 0.03
48 26 0.11
49 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (45 bp):
ATCTTCAGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTA
Done.