Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008912.1 Hibiscus syriacus cultivar Beakdansim tig00112215_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3753803
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 18
Found at i:916764 original size:21 final size:21
Alignment explanation
Indices: 916714--916788 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
916704 ATACATACAC
**
916714 ATATATACATGTATAACATAT
1 ATATATACACATATAACATAT
*
916735 ATGATATACACATATAATATAT
1 AT-ATATACACATATAACATAT
**
916757 ATATATACATGTATAACATAT
1 ATATATACACATATAACATAT
*
916778 ATATACACACA
1 ATATATACACA
916789 CTTAAGTATA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 26 0.59
22 18 0.41
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.35
Consensus pattern (21 bp):
ATATATACACATATAACATAT
Found at i:916775 original size:9 final size:10
Alignment explanation
Indices: 916660--916784 Score: 67
Period size: 10 Copynumber: 12.0 Consensus size: 10
916650 TATACTTTTG
916660 TATATATACA
1 TATATATACA
*
916670 TATATGTACA
1 TATATATACA
*
916680 TACATA-ACA
1 TATATATACA
* *
916689 TATGTACTTTTATA
1 TA--TA--TATACA
*
916703 TATACATACA
1 TATATATACA
*
916713 CATATATACA
1 TATATATACA
*
916723 TGTATA-ACATA
1 TATATATAC--A
916734 TATGATATACA
1 TAT-ATATACA
* *
916745 CATATAATATA
1 TATAT-ATACA
916756 TATATATACA
1 TATATATACA
*
916766 TGTATA-ACA
1 TATATATACA
916775 TATATATACA
1 TATATATACA
916785 CACACTTAAG
Statistics
Matches: 84, Mismatches: 20, Indels: 22
0.67 0.16 0.17
Matches are distributed among these distances:
9 15 0.18
10 42 0.50
11 15 0.18
12 5 0.06
13 3 0.04
14 4 0.05
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (10 bp):
TATATATACA
Found at i:916836 original size:37 final size:37
Alignment explanation
Indices: 916754--916837 Score: 91
Period size: 37 Copynumber: 2.3 Consensus size: 37
916744 ACATATAATA
*
916754 TATATATATACATGTATAACATATATATACACACACT
1 TATATATATACATGCATAACATATATATACACACACT
* * * *
916791 TA-AGTATATACATGCATAATATAT-TATATATATACT
1 TATA-TATATACATGCATAACATATATATACACACACT
916827 TATACTATATA
1 TATA-TATATA
916838 TTTTATATAC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
36 12 0.31
37 27 0.69
ACGTcount: A:0.45, C:0.12, G:0.04, T:0.39
Consensus pattern (37 bp):
TATATATATACATGCATAACATATATATACACACACT
Found at i:916848 original size:16 final size:16
Alignment explanation
Indices: 916827--916862 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
916817 TATATATACT
*
916827 TATACTATATATTTTA
1 TATACTATATAGTTTA
*
916843 TATACTTTATAGTTTA
1 TATACTATATAGTTTA
916859 TATA
1 TATA
916863 ATTTATATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.56
Consensus pattern (16 bp):
TATACTATATAGTTTA
Found at i:916867 original size:16 final size:16
Alignment explanation
Indices: 916834--916869 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
916824 ACTTATACTA
* *
916834 TATATTTTATATACTT
1 TATAGTTTATATAATT
916850 TATAGTTTATATAATT
1 TATAGTTTATATAATT
916866 TATA
1 TATA
916870 TACCAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (16 bp):
TATAGTTTATATAATT
Found at i:916932 original size:11 final size:12
Alignment explanation
Indices: 916888--916932 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 12
916878 TTAATACTTT
916888 ATATATA-TATA
1 ATATATAGTATA
916899 ATATA-AGTATA
1 ATATATAGTATA
* *
916910 ATATACATTATA
1 ATATATAGTATA
916922 ATATATA-TATA
1 ATATATAGTATA
916933 TATGTGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 1 0.03
11 18 0.60
12 11 0.37
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (12 bp):
ATATATAGTATA
Found at i:916998 original size:17 final size:15
Alignment explanation
Indices: 916955--916998 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
916945 TGTGTGTGTC
916955 ATATTATATTATTAT
1 ATATTATATTATTAT
*
916970 ATAATATA-TATTCAT
1 ATATTATATTATT-AT
916985 ATATTATAATTATT
1 ATATTAT-ATTATT
916999 TCCATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 4 0.17
15 15 0.62
16 1 0.04
17 4 0.17
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTATATTATTAT
Found at i:919521 original size:20 final size:20
Alignment explanation
Indices: 919496--919538 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
919486 CCATTATTCC
* *
919496 ATAACCATATACCATAGACA
1 ATAACCATAAACAATAGACA
919516 ATAACCATAAACAATAGACA
1 ATAACCATAAACAATAGACA
919536 ATA
1 ATA
919539 GCCCAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.21, G:0.05, T:0.19
Consensus pattern (20 bp):
ATAACCATAAACAATAGACA
Found at i:924528 original size:20 final size:20
Alignment explanation
Indices: 924488--924529 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
924478 GTTCATATAG
*
924488 TATCGGTACTATTTATACAA
1 TATCGGTACTATTCATACAA
*
924508 TATCGGTACTATTCATCCAA
1 TATCGGTACTATTCATACAA
924528 TA
1 TA
924530 CAATATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (20 bp):
TATCGGTACTATTCATACAA
Found at i:927150 original size:20 final size:20
Alignment explanation
Indices: 927125--927165 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
927115 GACTTGATTT
*
927125 TACTGTAGTA-GTATCGATAC
1 TACTGTAG-AGGTATCAATAC
927145 TACTGTAGAGGTATCAATAC
1 TACTGTAGAGGTATCAATAC
927165 T
1 T
927166 CATTTTGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Consensus pattern (20 bp):
TACTGTAGAGGTATCAATAC
Found at i:927235 original size:20 final size:20
Alignment explanation
Indices: 927207--927254 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
927197 TACTGTTCGT
* *
927207 TACTGTTCACACATTATC-G
1 TACTATTCACACAATATCAG
*
927226 ATACTATTCATACAATATCAG
1 -TACTATTCACACAATATCAG
927247 TACTATTC
1 TACTATTC
927255 GTTGTTGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (20 bp):
TACTATTCACACAATATCAG
Found at i:927250 original size:50 final size:50
Alignment explanation
Indices: 927192--927304 Score: 156
Period size: 50 Copynumber: 2.3 Consensus size: 50
927182 TTTTTTGAGC
*
927192 ATCAGTACTGTTCGTTACTGTTCACACATTATCGATACTATTCATACAAT
1 ATCAGTACTATTCGTTACTGTTCACACATTATCGATACTATTCATACAAT
** * * *
927242 ATCAGTACTATTCGTTGTTGTTGACACATTATCGTTACTATTCATACAGT
1 ATCAGTACTATTCGTTACTGTTCACACATTATCGATACTATTCATACAAT
*
927292 AT-AATACTATTCG
1 ATCAGTACTATTCG
927305 CAAAAACATT
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
49 10 0.18
50 46 0.82
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (50 bp):
ATCAGTACTATTCGTTACTGTTCACACATTATCGATACTATTCATACAAT
Found at i:927803 original size:28 final size:30
Alignment explanation
Indices: 927760--927871 Score: 108
Period size: 31 Copynumber: 3.8 Consensus size: 30
927750 TAGTTCAACA
* *
927760 TATACACTTATATATACTTATATACTTATAT
1 TATATACTT-TATATATTTATATACTTATAT
*
927791 TATATAGTTTATATAATTTATATACTTATAT
1 TATATACTTTATAT-ATTTATATACTTATAT
*
927822 T-TATACTTTAT-TGTTTATATACTT-TA-
1 TATATACTTTATATATTTATATACTTATAT
*
927848 TACTATA-TTATATATATATATATA
1 TA-TATACTT-TATATATTTATATA
927872 ATATACATTA
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
26 1 0.01
27 4 0.06
28 18 0.26
29 9 0.13
30 14 0.20
31 23 0.33
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.54
Consensus pattern (30 bp):
TATATACTTTATATATTTATATACTTATAT
Found at i:927804 original size:9 final size:9
Alignment explanation
Indices: 927790--927849 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
927780 TATACTTATA
*
927790 TTATATAGT
1 TTATATACT
*
927799 TTATATAAT
1 TTATATACT
927808 TTATATACT
1 TTATATACT
927817 TATATTTATACT
1 T-TA--TATACT
*
927829 TTAT-T-GT
1 TTATATACT
927836 TTATATACT
1 TTATATACT
927845 TTATA
1 TTATA
927850 CTATATTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
7 5 0.12
8 2 0.05
9 24 0.57
10 2 0.05
11 2 0.05
12 7 0.17
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.58
Consensus pattern (9 bp):
TTATATACT
Found at i:927838 original size:37 final size:38
Alignment explanation
Indices: 927770--927871 Score: 113
Period size: 37 Copynumber: 2.7 Consensus size: 38
927760 TATACACTTA
927770 TATATACTTATATACTTATATTATATAGTTTATATAATT
1 TATATACTTATATA-TTATATTATATAGTTTATATAATT
* *
927809 TATATACTTATAT-TTATACTT-TATTGTTTATATACTT
1 TATATACTTATATATTATA-TTATATAGTTTATATAATT
*
927846 TATACTATATTATATA-TATA-TATATA
1 TATA-TA-CTTATATATTATATTATATA
927872 ATATACATTA
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
37 24 0.44
38 7 0.13
39 23 0.43
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (38 bp):
TATATACTTATATATTATATTATATAGTTTATATAATT
Found at i:934609 original size:24 final size:24
Alignment explanation
Indices: 934582--934635 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
934572 ATTTTCGATT
* * *
934582 TGAATTTTGTTCTGATACCTGATC
1 TGAATTCTGTTATGATACCTGACC
*
934606 TGAATTCTGTTATGATATCTGACC
1 TGAATTCTGTTATGATACCTGACC
934630 TGAATT
1 TGAATT
934636 ATTTTTTGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (24 bp):
TGAATTCTGTTATGATACCTGACC
Found at i:934645 original size:24 final size:24
Alignment explanation
Indices: 934582--934651 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
934572 ATTTTCGATT
* * * *
934582 TGAATTTTGTTCTGATACCTGATC
1 TGAATTATGTTATGATATCTGACC
*
934606 TGAATTCTGTTATGATATCTGACC
1 TGAATTATGTTATGATATCTGACC
* * *
934630 TGAATTATTTTTTGATTTCTGA
1 TGAATTATGTTATGATATCTGA
934652 TATCTCCATT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.23, C:0.13, G:0.16, T:0.49
Consensus pattern (24 bp):
TGAATTATGTTATGATATCTGACC
Found at i:934851 original size:16 final size:16
Alignment explanation
Indices: 934830--934861 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
934820 GCTTTTTGAA
934830 TTTTAAAAAAATATGT
1 TTTTAAAAAAATATGT
*
934846 TTTTAAAAATATATGT
1 TTTTAAAAAAATATGT
934862 ATCTTTTCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
TTTTAAAAAAATATGT
Found at i:939221 original size:12 final size:12
Alignment explanation
Indices: 939204--939232 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
939194 CTTCCCAAAG
939204 CTCACTCTATTA
1 CTCACTCTATTA
939216 CTCACTCTATTA
1 CTCACTCTATTA
939228 CTCAC
1 CTCAC
939233 CTTTTCAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.38, G:0.00, T:0.38
Consensus pattern (12 bp):
CTCACTCTATTA
Found at i:939450 original size:29 final size:29
Alignment explanation
Indices: 939396--939451 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
939386 ATATTGGTAA
* * *
939396 AGTTTAATTTTTTTATAAATGATTTTATG
1 AGTTTAATGTTTTAATAAAAGATTTTATG
939425 AGTTTACATGTTTTAATAAAAG-TTTTA
1 AGTTTA-ATGTTTTAATAAAAGATTTTA
939452 AATTTTCCGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 11 0.48
30 12 0.52
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.54
Consensus pattern (29 bp):
AGTTTAATGTTTTAATAAAAGATTTTATG
Found at i:941829 original size:2 final size:2
Alignment explanation
Indices: 941824--942121 Score: 86
Period size: 2 Copynumber: 155.0 Consensus size: 2
941814 TATATACTTT
* * * * * *
941824 TA TA TA TA CA TA CA CA TA TA TA CA TG TA TA -A CA TA TA TGA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
* * * *
941866 TA CA CA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA CA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
941907 TA TA -A CA TA TA TA T- TCA CA TA CA CT- TA -A GTA TA TA CA TG
1 TA TA TA TA TA TA TA TA T-A TA TA TA -TA TA TA -TA TA TA TA TA
* *
941946 CA TA -A TA TA CTA TA TA TA CT- TA TA CTA TA TA T- TT TA TA TA
1 TA TA TA TA TA -TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA
* * * * *
941986 CTT TA TA GTT TA TA TA -A TT TA TA TA -A CA -A TA T- TA -A TA CTT
1 -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
*
942026 TA TA TA TA TA TA TA -A TA TA -A GTA TA -A TA TA CA T- TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* *
942064 TA TA TA TA TA TA TA TG TG TCA TA T- TA TA T- TA T- TA TA TA -A
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
*
942103 TA TA TA TA CA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA
942122 ATTATTTCCA
Statistics
Matches: 219, Mismatches: 41, Indels: 72
0.66 0.12 0.22
Matches are distributed among these distances:
1 24 0.11
2 182 0.83
3 13 0.06
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (2 bp):
TA
Found at i:941858 original size:43 final size:41
Alignment explanation
Indices: 941775--941861 Score: 102
Period size: 43 Copynumber: 2.1 Consensus size: 41
941765 TACTTATGTC
* * * *
941775 TATACTTTTGTATATATACATATATGTACATACATCACATA
1 TATACTTTTATATATATACACATATATACATACATAACATA
**
941816 TATACTTTTATATATACATACACATATATACATGTATAACATA
1 TATACTTTTATATAT--ATACACATATATACATACATAACATA
941859 TAT
1 TAT
941862 GATATACACA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 14 0.37
43 24 0.63
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.41
Consensus pattern (41 bp):
TATACTTTTATATATATACACATATATACATACATAACATA
Found at i:941940 original size:59 final size:56
Alignment explanation
Indices: 941824--941978 Score: 144
Period size: 57 Copynumber: 2.7 Consensus size: 56
941814 TATATACTTT
* *
941824 TATATATACATACACATATATACATGTATAACATATATGA-TATACACATATAATATA
1 TATATATA-ATATATATATATACATGTATAACATATAT-ATTATACACATATAATATA
941881 TATATATATATATATATATATACATGTATAACATATATATTCACATACAC-T-TAAGTATA
1 TATATATA-ATATATATATATACATGTATAACATATATATT---ATACACATATAA-TATA
*
941940 TACATGCATAATATACTATATATAC-T-TAT-AC-TATATATT
1 TATAT--ATAATATA-TATATATACATGTATAACATATATATT
941979 TTATATACTT
Statistics
Matches: 86, Mismatches: 4, Indels: 16
0.81 0.04 0.15
Matches are distributed among these distances:
56 1 0.01
57 44 0.51
58 5 0.06
59 12 0.14
60 12 0.14
61 12 0.14
ACGTcount: A:0.46, C:0.12, G:0.03, T:0.39
Consensus pattern (56 bp):
TATATATAATATATATATATACATGTATAACATATATATTATACACATATAATATA
Found at i:941941 original size:57 final size:55
Alignment explanation
Indices: 941824--941929 Score: 151
Period size: 57 Copynumber: 1.9 Consensus size: 55
941814 TATATACTTT
* * * *
941824 TATATATACATACACATATATACATGTATAACATATATGATATACACATATAATATA
1 TATATATATATATATATATATACATGTATAACATATAT-AT-TACACATACAATATA
941881 TATATATATATATATATATATACATGTATAACATATATATT-CACATACA
1 TATATATATATATATATATATACATGTATAACATATATATTACACATACA
941930 CTTAAGTATA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
54 7 0.16
55 1 0.02
56 2 0.04
57 35 0.78
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.38
Consensus pattern (55 bp):
TATATATATATATATATATATACATGTATAACATATATATTACACATACAATATA
Found at i:942062 original size:29 final size:32
Alignment explanation
Indices: 942030--942109 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 32
942020 ATACTTTATA
942030 TATATATATAATATA-A-GTATAATA-TACAT
1 TATATATATAATATATATGTATAATATTACAT
* * *
942059 TATAATATATATATATATATGTGTCATATTATAT
1 TAT-ATATATA-ATATATATGTATAATATTACAT
942093 TAT-TATATAATATATAT
1 TATATATATAATATATAT
942110 ACATATATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
29 3 0.07
30 7 0.16
31 13 0.30
32 7 0.16
33 6 0.14
34 7 0.16
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (32 bp):
TATATATATAATATATATGTATAATATTACAT
Found at i:944630 original size:20 final size:20
Alignment explanation
Indices: 944605--944647 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
944595 CCATTATTCC
* *
944605 ATAACCATATACCATAGACA
1 ATAACCATAAACAATAGACA
*
944625 ATAACCGTAAACAATAGACA
1 ATAACCATAAACAATAGACA
944645 ATA
1 ATA
944648 GCCCAATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.21, G:0.07, T:0.19
Consensus pattern (20 bp):
ATAACCATAAACAATAGACA
Found at i:946316 original size:12 final size:12
Alignment explanation
Indices: 946299--946323 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
946289 CTCATCATCC
946299 TTTAATTAATCA
1 TTTAATTAATCA
946311 TTTAATTAATCA
1 TTTAATTAATCA
946323 T
1 T
946324 GTTTGAAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAATTAATCA
Found at i:946720 original size:17 final size:19
Alignment explanation
Indices: 946695--946738 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
946685 TATAATTTGG
*
946695 TTATTAAAT-AAATCCA-T
1 TTATGAAATAAAATCCATT
*
946712 TTATGAAATAAAATTCATT
1 TTATGAAATAAAATCCATT
946731 TTATGAAA
1 TTATGAAA
946739 GAATCACCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 6 0.26
19 9 0.39
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.41
Consensus pattern (19 bp):
TTATGAAATAAAATCCATT
Found at i:949229 original size:20 final size:20
Alignment explanation
Indices: 949189--949244 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
949179 GTTCATATAG
*
949189 TATCGATACTATTTATACAA
1 TATCGATACTATTCATACAA
* *
949209 TATCGGTACTATTCATCCAA
1 TATCGATACTATTCATACAA
* *
949229 TA-CAATATTATTCATA
1 TATCGATACTATTCATA
949245 AAAACTTTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 10 0.34
20 19 0.66
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.39
Consensus pattern (20 bp):
TATCGATACTATTCATACAA
Found at i:950073 original size:113 final size:113
Alignment explanation
Indices: 949942--950168 Score: 454
Period size: 113 Copynumber: 2.0 Consensus size: 113
949932 AAGTATTTGA
949942 AAAGTCGATATCAATTGTTAGAGAGATATCATTTGCATTTAAAATCAATTTTGACCAAAATTCAT
1 AAAGTCGATATCAATTGTTAGAGAGATATCATTTGCATTTAAAATCAATTTTGACCAAAATTCAT
950007 TATGATGAACTAAAAATTATGAAAAATCATTAAAATTTTAAAATGTTC
66 TATGATGAACTAAAAATTATGAAAAATCATTAAAATTTTAAAATGTTC
950055 AAAGTCGATATCAATTGTTAGAGAGATATCATTTGCATTTAAAATCAATTTTGACCAAAATTCAT
1 AAAGTCGATATCAATTGTTAGAGAGATATCATTTGCATTTAAAATCAATTTTGACCAAAATTCAT
950120 TATGATGAACTAAAAATTATGAAAAATCATTAAAATTTTAAAATGTTC
66 TATGATGAACTAAAAATTATGAAAAATCATTAAAATTTTAAAATGTTC
950168 A
1 A
950169 TCATAGCTTC
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 114 1.00
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (113 bp):
AAAGTCGATATCAATTGTTAGAGAGATATCATTTGCATTTAAAATCAATTTTGACCAAAATTCAT
TATGATGAACTAAAAATTATGAAAAATCATTAAAATTTTAAAATGTTC
Found at i:952118 original size:20 final size:20
Alignment explanation
Indices: 952090--952137 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
952080 TACTGTTCGT
* *
952090 TACTGTTCACACATTATCGA
1 TACTATTCACACAGTATCGA
* *
952110 TACTATTCATACAGTATCGG
1 TACTATTCACACAGTATCGA
952130 TACTATTC
1 TACTATTC
952138 GTTGTTGTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (20 bp):
TACTATTCACACAGTATCGA
Found at i:952154 original size:50 final size:49
Alignment explanation
Indices: 952077--952188 Score: 161
Period size: 50 Copynumber: 2.3 Consensus size: 49
952067 TTTTGAGCAT
*
952077 CAGTACTGTTCGTTACTGTTCACACATTATCGATACTATTCATACAGTA
1 CAGTACTATTCGTTACTGTTCACACATTATCGATACTATTCATACAGTA
* ** *
952126 TCGGTACTATTCGTTGTTGTTCACACATTATCGGTACTATTCATACAGTA
1 -CAGTACTATTCGTTACTGTTCACACATTATCGATACTATTCATACAGTA
*
952176 CAATACTATTCGT
1 CAGTACTATTCGT
952189 AAAAATATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
49 11 0.20
50 44 0.80
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.38
Consensus pattern (49 bp):
CAGTACTATTCGTTACTGTTCACACATTATCGATACTATTCATACAGTA
Found at i:952669 original size:8 final size:8
Alignment explanation
Indices: 952653--952728 Score: 68
Period size: 8 Copynumber: 9.6 Consensus size: 8
952643 TAGTTCAACA
*
952653 TATACACT
1 TATATACT
952661 TATATACT
1 TATATACT
952669 TATATACT
1 TATATACT
952677 TATATA--
1 TATATACT
*
952683 TATATAGT
1 TATATACT
952691 TATATA-T
1 TATATACT
* *
952698 TTTATAGTT
1 TATATA-CT
*
952707 TATATAATT
1 TATAT-ACT
952716 TATATACT
1 TATATACT
952724 TATAT
1 TATAT
952729 TTATACTATA
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
6 6 0.10
7 6 0.10
8 34 0.58
9 12 0.20
10 1 0.02
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (8 bp):
TATATACT
Found at i:952677 original size:16 final size:15
Alignment explanation
Indices: 952653--952834 Score: 80
Period size: 16 Copynumber: 12.3 Consensus size: 15
952643 TAGTTCAACA
*
952653 TATACACTTATATACT
1 TATATACTTATATA-T
952669 TATATACTTATATA-
1 TATATACTTATATAT
*
952683 TATATAGTTATATAT
1 TATATACTTATATAT
* *
952698 TTTATAGTTTATATAATT
1 TATATA-CTTATAT-A-T
952716 TATATAC-T-TATAT
1 TATATACTTATATAT
*
952729 T-TATAC-TATATTGTT
1 TATATACTTATA-T-AT
*
952744 TATATACTT-TATAC
1 TATATACTTATATAT
**
952758 TATATTGTATATATAT
1 TATATACT-TATATAT
* *
952774 AATATACAT-TATA-
1 TATATACTTATATAT
* * *
952787 TATACACGTGTCATAT
1 TATATACTTAT-ATAT
*
952803 TATATTA-TTATATAA
1 TATA-TACTTATATAT
952818 TATATAC--ATATAT
1 TATATACTTATATAT
952831 TATA
1 TATA
952835 ATTATTTCAA
Statistics
Matches: 126, Mismatches: 24, Indels: 35
0.68 0.13 0.19
Matches are distributed among these distances:
12 6 0.05
13 19 0.15
14 28 0.22
15 23 0.18
16 41 0.33
17 3 0.02
18 6 0.05
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (15 bp):
TATATACTTATATAT
Found at i:952754 original size:23 final size:22
Alignment explanation
Indices: 952724--952773 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 22
952714 TTTATATACT
*
952724 TATATTTATACTATATTGTTTA
1 TATATTTATACTATATTGTATA
952746 TATACTTTATACTATATTGTATA
1 TATA-TTTATACTATATTGTATA
952769 TATAT
1 TATAT
952774 AATATACATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (22 bp):
TATATTTATACTATATTGTATA
Found at i:952779 original size:23 final size:23
Alignment explanation
Indices: 952730--952831 Score: 68
Period size: 23 Copynumber: 4.5 Consensus size: 23
952720 TACTTATATT
* *
952730 TATACTATATTGTTTATATACTT
1 TATACTATATTGTATATATACTA
952753 TATACTATATTGTATATATA-TA
1 TATACTATATTGTATATATACTA
* * * *
952775 -ATA-TACATTATATATACACGTG
1 TATACTATATTGTATATATAC-TA
* * *
952797 TCATATTATATTAT-TATATAATA
1 T-ATACTATATTGTATATATACTA
952820 TATACATATATT
1 TATAC-TATATT
952832 ATAATTATTT
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
20 12 0.19
21 3 0.05
22 5 0.08
23 27 0.44
24 8 0.13
25 7 0.11
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.49
Consensus pattern (23 bp):
TATACTATATTGTATATATACTA
Found at i:957915 original size:14 final size:15
Alignment explanation
Indices: 957896--957925 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
957886 TCCAAAGTCC
957896 ATCATAACAAA-AAT
1 ATCATAACAAACAAT
957910 ATCATAACAAACAAT
1 ATCATAACAAACAAT
957925 A
1 A
957926 ATAGGACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.17, G:0.00, T:0.20
Consensus pattern (15 bp):
ATCATAACAAACAAT
Found at i:958472 original size:10 final size:10
Alignment explanation
Indices: 958457--958494 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
958447 CTTTGCCTGC
958457 GAGAGAGAAA
1 GAGAGAGAAA
*
958467 GAGAGAGAAT
1 GAGAGAGAAA
958477 G-G-GAGAAA
1 GAGAGAGAAA
958485 GAGAGAGAAA
1 GAGAGAGAAA
958495 ATTCTCTCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
8 6 0.25
9 2 0.08
10 16 0.67
ACGTcount: A:0.55, C:0.00, G:0.42, T:0.03
Consensus pattern (10 bp):
GAGAGAGAAA
Found at i:959411 original size:3 final size:3
Alignment explanation
Indices: 959384--959426 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
959374 TGTAATTAAT
* * *
959384 TAA TAT TAA TAA AAA TAA CAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
959427 TAAAATAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:960003 original size:32 final size:33
Alignment explanation
Indices: 959956--960025 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 33
959946 CAAAGATCGG
* *
959956 TGTTTCCAGAGAAACAAACTCAAAGATGTT-TT
1 TGTTTCAAGAAAAACAAACTCAAAGATGTTGTT
* *
959988 TGTTTCAAGAAAAACATACTCAAAGATTTTGTT
1 TGTTTCAAGAAAAACAAACTCAAAGATGTTGTT
960021 TGTTT
1 TGTTT
960026 TGTTTCAAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
32 26 0.79
33 7 0.21
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (33 bp):
TGTTTCAAGAAAAACAAACTCAAAGATGTTGTT
Found at i:960440 original size:31 final size:32
Alignment explanation
Indices: 960358--960432 Score: 100
Period size: 31 Copynumber: 2.4 Consensus size: 32
960348 GTCAAATTCG
* *
960358 TTTCAAGGGAAAC-GACTCAAAGATGGTTTTA
1 TTTCAAGAGAAACAAACTCAAAGATGGTTTTA
*
960389 TTTCAAGAGAAACAAACTCAAAGAT-TTTTTA
1 TTTCAAGAGAAACAAACTCAAAGATGGTTTTA
*
960420 TTTCTAGAGAAAC
1 TTTCAAGAGAAAC
960433 TGTCTCAAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 29 0.74
32 10 0.26
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (32 bp):
TTTCAAGAGAAACAAACTCAAAGATGGTTTTA
Found at i:960633 original size:15 final size:15
Alignment explanation
Indices: 960613--960645 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
960603 GAGTTTTGTT
960613 TCAAGTGAAACAAAC
1 TCAAGTGAAACAAAC
*
960628 TCAAGTGAAACAGAC
1 TCAAGTGAAACAAAC
960643 TCA
1 TCA
960646 CAAATGGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.21, G:0.15, T:0.15
Consensus pattern (15 bp):
TCAAGTGAAACAAAC
Found at i:960895 original size:36 final size:36
Alignment explanation
Indices: 960853--960955 Score: 109
Period size: 36 Copynumber: 2.8 Consensus size: 36
960843 ATAATTTGGA
960853 AAATTGTCTCAAGTGAGACAACATTTGTTTTTAGAG
1 AAATTGTCTCAAGTGAGACAACATTTGTTTTTAGAG
* ** * * *
960889 AAATTGTTTCAAACGAGACAAAAATTATTTTTAGAG
1 AAATTGTCTCAAGTGAGACAACATTTGTTTTTAGAG
**
960925 AAAACGATCTCAAGTGAGATCAAC-TTTGTTT
1 AAATTG-TCTCAAGTGAGA-CAACATTTGTTT
960956 AATGTGAAAC
Statistics
Matches: 51, Mismatches: 14, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
36 34 0.67
37 14 0.27
38 3 0.06
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.34
Consensus pattern (36 bp):
AAATTGTCTCAAGTGAGACAACATTTGTTTTTAGAG
Found at i:961039 original size:36 final size:37
Alignment explanation
Indices: 960971--961097 Score: 161
Period size: 35 Copynumber: 3.5 Consensus size: 37
960961 GAAACAAATT
* * * *
960971 CAAAATTTGTATCTCAAAGGAAAAGTGTCTCAAGTGAGA
1 CAAAATTTGTTTTTC-AA-GAAAATTGTCTCAAGCGAGA
* *
961010 CGAAATTTGTTTTTCAAG-AAATTGTCTCAAACGAGA
1 CAAAATTTGTTTTTCAAGAAAATTGTCTCAAGCGAGA
961046 CAAAATTTGTTTTT--AGAAAATTGTCTCAAGCGAGA
1 CAAAATTTGTTTTTCAAGAAAATTGTCTCAAGCGAGA
961081 CAAAATTTGTTTTTCAA
1 CAAAATTTGTTTTTCAA
961098 AAGAAGTTGT
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
34 2 0.03
35 31 0.40
36 28 0.36
37 2 0.03
38 2 0.03
39 12 0.16
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.33
Consensus pattern (37 bp):
CAAAATTTGTTTTTCAAGAAAATTGTCTCAAGCGAGA
Found at i:961437 original size:4 final size:4
Alignment explanation
Indices: 961430--961476 Score: 53
Period size: 4 Copynumber: 12.2 Consensus size: 4
961420 TTTATATATA
* * *
961430 ATGT ATGT ATGT A--T ATAT ATGT TTGT ATGT ATGT ATGT AAGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
961476 A
1 A
961477 CAGCTCTATC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
2 2 0.06
4 34 0.94
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:961456 original size:18 final size:19
Alignment explanation
Indices: 961422--961461 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
961412 ATGCAACTTT
961422 TATATATAATGTATGTATG
1 TATATATAATGTATGTATG
*
961441 TATATAT-ATGTTTGTATG
1 TATATATAATGTATGTATG
961459 TAT
1 TAT
961462 GTATGTAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.53
Consensus pattern (19 bp):
TATATATAATGTATGTATG
Found at i:964285 original size:11 final size:12
Alignment explanation
Indices: 964260--964285 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
964250 ACAGATTCAT
964260 AAAATGAAAGAA
1 AAAATGAAAGAA
964272 AAAATGAAAGAA
1 AAAATGAAAGAA
964284 AA
1 AA
964286 GTAGTGTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAATGAAAGAA
Found at i:969753 original size:12 final size:12
Alignment explanation
Indices: 969732--969862 Score: 93
Period size: 12 Copynumber: 10.7 Consensus size: 12
969722 GTTACATATT
969732 TATATATACTTA
1 TATATATACTTA
*
969744 TATATGTACTTA
1 TATATATACTTA
*
969756 TGTATATACTTA
1 TATATATACTTA
*
969768 TATATGTACTTGGA
1 TATATATACTT--A
*
969782 TATATACACTTA
1 TATATATACTTA
* *
969794 TGTCTATACTT-
1 TATATATACTTA
* *
969805 TGTATATACATA
1 TATATATACTTA
* * **
969817 TATGTAACAACACA
1 TATAT-A-TACTTA
969831 TATATATACTTA
1 TATATATACTTA
*
969843 TATATATACATA
1 TATATATACTTA
*
969855 CATATATA
1 TATATATA
969863 TGTATAACTA
Statistics
Matches: 92, Mismatches: 22, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
11 9 0.10
12 63 0.68
13 2 0.02
14 18 0.20
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (12 bp):
TATATATACTTA
Found at i:969839 original size:26 final size:26
Alignment explanation
Indices: 969807--969906 Score: 71
Period size: 26 Copynumber: 3.8 Consensus size: 26
969797 CTATACTTTG
*
969807 TATATACATATATGTA-ACAACACATA
1 TATATACATATATATATAC-ACACATA
* *
969833 TATATACTTATATATATACATACATA
1 TATATACATATATATATACACACATA
** *
969859 TATATGTATA-ACTATACGACATACACATA
1 TATATACATATA-TATA-TAC--ACACATA
*
969888 TA-ATATATATATATATACA
1 TATATACATATATATATACA
969907 TGTATAAGAT
Statistics
Matches: 58, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
25 2 0.03
26 31 0.53
27 6 0.10
28 10 0.17
29 9 0.16
ACGTcount: A:0.48, C:0.13, G:0.03, T:0.36
Consensus pattern (26 bp):
TATATACATATATATATACACACATA
Found at i:969894 original size:44 final size:46
Alignment explanation
Indices: 969841--969940 Score: 125
Period size: 44 Copynumber: 2.2 Consensus size: 46
969831 TATATATACT
* * *
969841 TATATATATACATACATATATATGTATAA-CTATACGACATACACA-
1 TATATATATACATACATATACATGTATAAGATATA-GACACACACAC
* *
969886 TATA-ATATATATATATATACATGTATAAGATATAGACACACACAC
1 TATATATATACATACATATACATGTATAAGATATAGACACACACAC
969931 TATATATATA
1 TATATATATA
969941 ATTATTATAC
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
44 30 0.64
45 12 0.26
46 5 0.11
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (46 bp):
TATATATATACATACATATACATGTATAAGATATAGACACACACAC
Found at i:970071 original size:2 final size:2
Alignment explanation
Indices: 970064--970359 Score: 86
Period size: 2 Copynumber: 151.5 Consensus size: 2
970054 TTTAATTCAC
* * * * *
970064 AT AT AT AT AT AT AT AC AT AC AT AT AT AT AC AT GT AT A- AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
970105 AT ACG AC AT AC AC AT AT A- AT AT AT AT AT AT AT AT AT AC AT GT
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * * * **
970147 AT A- AG AT AT AG AC AC AC AC AC AT A- AGT AT AT AC AT GC AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
*
970187 AT AT AT AT AT AT AC ACT -T AT AT AT ACT -T AT ACT AT AT AT -T
1 AT AT AT AT AT AT AT A-T AT AT AT AT A-T AT AT A-T AT AT AT AT
* * * * * *
970227 TT AT AT ACT TT AT AGT TT AT AT A- AT TT AT AT AT TT AT ACT TT
1 AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT
970269 AT AT AT AT AT AT AT A- AT AT A- AGT AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
* * * *
970309 AT AC AC AT GT GT CAT AT -T AT AT -T AT -T AT AT A- AT AT AT AT
1 AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
970348 AC AT AT AT -T AT A
1 AT AT AT AT AT AT A
970360 ATTATTTCAA
Statistics
Matches: 220, Mismatches: 47, Indels: 54
0.69 0.15 0.17
Matches are distributed among these distances:
1 17 0.08
2 193 0.88
3 10 0.05
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (2 bp):
AT
Found at i:970137 original size:49 final size:48
Alignment explanation
Indices: 970068--970178 Score: 150
Period size: 49 Copynumber: 2.2 Consensus size: 48
970058 ATTCACATAT
* *
970068 ATATATATATACATACATATATATACATGTATAACATATACGACATACAC
1 ATATA-ATATATATACATATATATACATGTATAACATATA-GACACACAC
* *
970118 ATATAATATATATATATATATATACATGTATAAGATATAGACACACAC
1 ATATAATATATATACATATATATACATGTATAACATATAGACACACAC
*
970166 ACATAAGTATATA
1 ATATAA-TATATA
970179 CATGCATAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
48 13 0.24
49 37 0.67
50 5 0.09
ACGTcount: A:0.50, C:0.13, G:0.05, T:0.32
Consensus pattern (48 bp):
ATATAATATATATACATATATATACATGTATAACATATAGACACACAC
Found at i:970209 original size:16 final size:16
Alignment explanation
Indices: 970188--970309 Score: 78
Period size: 15 Copynumber: 7.8 Consensus size: 16
970178 ACATGCATAA
*
970188 TATATATATATACACT
1 TATATATATATACATT
*
970204 TATATATACTTATAC-TA
1 TATATATA--TATACATT
*
970221 TATATTTTATATAC-TT
1 TATA-TATATATACATT
*
970237 TATAGTTTATATA-ATT
1 TATA-TATATATACATT
*
970253 TATATATTTATAC-TT
1 TATATATATATACATT
*
970268 TATATATATATATA-T
1 TATATATATATACATT
* *
970283 AATATA-AGTATA-ATA
1 TATATATA-TATACATT
970298 TATATATATATA
1 TATATATATATA
970310 TACACATGTG
Statistics
Matches: 85, Mismatches: 12, Indels: 19
0.73 0.10 0.16
Matches are distributed among these distances:
14 2 0.02
15 38 0.45
16 33 0.39
17 4 0.05
18 8 0.09
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.51
Consensus pattern (16 bp):
TATATATATATACATT
Found at i:970247 original size:25 final size:24
Alignment explanation
Indices: 970206--970283 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 24
970196 TATACACTTA
*
970206 TATATACTTATAC--TATATATTT
1 TATATATTTATACTTTATATATTT
* *
970228 TATATACTTTATAGTTTATATAATT
1 TATATA-TTTATACTTTATATATTT
*
970253 TATATATTTATACTTTATATATATA
1 TATATATTTATACTTTATATAT-TT
970278 TATATA
1 TATATA
970284 ATATAAGTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
22 6 0.13
23 5 0.11
24 14 0.30
25 21 0.46
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.55
Consensus pattern (24 bp):
TATATATTTATACTTTATATATTT
Found at i:975958 original size:25 final size:24
Alignment explanation
Indices: 975924--975972 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
975914 TCCGACCCGT
* *
975924 TGACCGTTGATCTTTGACTGTTGAC
1 TGACCGTTGACCATTGACT-TTGAC
975949 TGACCGTTGACCATTGACTTTGAC
1 TGACCGTTGACCATTGACTTTGAC
975973 CAAAAAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.37
Consensus pattern (24 bp):
TGACCGTTGACCATTGACTTTGAC
Found at i:985915 original size:45 final size:46
Alignment explanation
Indices: 985861--985964 Score: 115
Period size: 45 Copynumber: 2.3 Consensus size: 46
985851 GCATCAATCG
**
985861 ATGCATCGATGCACCATT-GAATAAATT-GGACATCGAATGCATTTC
1 ATGCATCGATGCACC-TTGGAATAAATTAAAACATCGAATGCATTTC
* ** **
985906 ATGCATCGATACA-CTTGGGTTTTATTAAAACATCGAATGCATTTC
1 ATGCATCGATGCACCTTGGAATAAATTAAAACATCGAATGCATTTC
985951 ATGCATCGATGCAC
1 ATGCATCGATGCAC
985965 AAGAAATGCA
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
43 2 0.04
44 6 0.12
45 40 0.83
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (46 bp):
ATGCATCGATGCACCTTGGAATAAATTAAAACATCGAATGCATTTC
Found at i:988495 original size:3 final size:3
Alignment explanation
Indices: 988487--988516 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
988477 TTTTCTCACA
988487 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
988517 GTTCCCAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:993015 original size:24 final size:24
Alignment explanation
Indices: 992988--993041 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
992978 ATTTTCAATT
* *
992988 TGAATTTTGTTATGATA-CATGATC
1 TGAATTCTGTTATGATATC-TGACC
993012 TGAATTCTGTTATGATATCTGACC
1 TGAATTCTGTTATGATATCTGACC
993036 TGAATT
1 TGAATT
993042 ATTTTTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 26 0.96
25 1 0.04
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (24 bp):
TGAATTCTGTTATGATATCTGACC
Found at i:995569 original size:24 final size:24
Alignment explanation
Indices: 995541--995605 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
995531 TATCCGATTT
*
995541 CTGATTTGAATTATGTTATGATAC
1 CTGATCTGAATTATGTTATGATAC
* *
995565 CTGATCTGAATTTTGTTATGATAT
1 CTGATCTGAATTATGTTATGATAC
* *
995589 CTTACCTGAATTATGTT
1 CTGATCTGAATTATGTT
995606 TTTATTTCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (24 bp):
CTGATCTGAATTATGTTATGATAC
Found at i:996313 original size:29 final size:28
Alignment explanation
Indices: 996260--996314 Score: 67
Period size: 30 Copynumber: 1.9 Consensus size: 28
996250 ATATTGGTAA
* *
996260 AGTTTAATTTTTTATAAATGATTTTATG
1 AGTTTAATTTTTAATAAAAGATTTTATG
996288 AGTTTATATGTTTTAATAAAAG-TTTTA
1 AGTTTA-AT-TTTTAATAAAAGATTTTA
996315 AATTTTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 6 0.26
29 7 0.30
30 10 0.43
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.55
Consensus pattern (28 bp):
AGTTTAATTTTTAATAAAAGATTTTATG
Found at i:997775 original size:11 final size:12
Alignment explanation
Indices: 997750--997775 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
997740 ACAAATTCAT
997750 AAAATGAAAGAA
1 AAAATGAAAGAA
997762 AAAATGAAAGAA
1 AAAATGAAAGAA
997774 AA
1 AA
997776 GTGATGTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAATGAAAGAA
Found at i:998722 original size:43 final size:42
Alignment explanation
Indices: 998639--998769 Score: 131
Period size: 43 Copynumber: 3.1 Consensus size: 42
998629 CACTTATGTC
* * ** *
998639 TATACTTTTGTATAT-ATACATATATGTACATACATCACATA
1 TATACTTTTATATATAATACATATATATACATGTATAACATA
*
998680 TATACTTTTATATATACATACACATATATACATGTATAACATA
1 TATACTTTTATATATA-ATACATATATATACATGTATAACATA
** * *
998723 TATGA-TATACACATATAATATATATATATACATGTATAACATA
1 TAT-ACT-TTTATATATAATACATATATATACATGTATAACATA
998766 TATA
1 TATA
998770 TACACACACT
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
41 14 0.19
42 1 0.01
43 52 0.69
44 8 0.11
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (42 bp):
TATACTTTTATATATAATACATATATATACATGTATAACATA
Found at i:998723 original size:17 final size:14
Alignment explanation
Indices: 998650--998769 Score: 61
Period size: 13 Copynumber: 8.5 Consensus size: 14
998640 ATACTTTTGT
*
998650 ATATATACATATAT
1 ATATATACATATAC
* * *
998664 GTACATACAT-CAC
1 ATATATACATATAC
**
998677 ATATATAC-T-TTT
1 ATATATACATATAC
*
998689 ATATATACATACAC
1 ATATATACATATAC
998703 ATATATACATGTATAAC
1 ATATATACA--TAT-AC
*
998720 ATATAT-GATATAC
1 ATATATACATATAC
* *
998733 ACATATA-ATATAT
1 ATATATACATATAC
998746 ATATATACATGTATAAC
1 ATATATACA--TAT-AC
998763 ATATATA
1 ATATATA
998770 TACACACACT
Statistics
Matches: 78, Mismatches: 18, Indels: 17
0.69 0.16 0.15
Matches are distributed among these distances:
12 9 0.12
13 26 0.33
14 21 0.27
16 6 0.08
17 16 0.21
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (14 bp):
ATATATACATATAC
Found at i:998753 original size:21 final size:21
Alignment explanation
Indices: 998703--998777 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
998693 ATACATACAC
**
998703 ATATATACATGTATAACATAT
1 ATATATACACATATAACATAT
*
998724 ATGATATACACATATAATATAT
1 AT-ATATACACATATAACATAT
**
998746 ATATATACATGTATAACATAT
1 ATATATACACATATAACATAT
*
998767 ATATACACACA
1 ATATATACACA
998778 CTTAAGTATA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 26 0.59
22 18 0.41
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.35
Consensus pattern (21 bp):
ATATATACACATATAACATAT
Found at i:998764 original size:9 final size:10
Alignment explanation
Indices: 998649--998773 Score: 67
Period size: 10 Copynumber: 12.0 Consensus size: 10
998639 TATACTTTTG
998649 TATATATACA
1 TATATATACA
*
998659 TATATGTACA
1 TATATATACA
* *
998669 TACAT-CACA
1 TATATATACA
*
998678 TATATACTTTTATA
1 TATATA----TACA
*
998692 TATACATACA
1 TATATATACA
*
998702 CATATATACA
1 TATATATACA
*
998712 TGTATA-ACATA
1 TATATATAC--A
998723 TATGATATACA
1 TAT-ATATACA
* *
998734 CATATAATATA
1 TATAT-ATACA
998745 TATATATACA
1 TATATATACA
*
998755 TGTATA-ACA
1 TATATATACA
998764 TATATATACA
1 TATATATACA
998774 CACACTTAAG
Statistics
Matches: 85, Mismatches: 19, Indels: 22
0.67 0.15 0.17
Matches are distributed among these distances:
9 17 0.20
10 42 0.49
11 14 0.16
12 3 0.04
13 2 0.02
14 7 0.08
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.38
Consensus pattern (10 bp):
TATATATACA
Found at i:998825 original size:37 final size:37
Alignment explanation
Indices: 998743--998826 Score: 91
Period size: 37 Copynumber: 2.3 Consensus size: 37
998733 ACATATAATA
*
998743 TATATATATACATGTATAACATATATATACACACACT
1 TATATATATACATGCATAACATATATATACACACACT
* * * *
998780 TA-AGTATATACATGCATAATATAT-TATATATATACT
1 TATA-TATATACATGCATAACATATATATACACACACT
998816 TATACTATATA
1 TATA-TATATA
998827 TTTTATATAC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
36 12 0.31
37 27 0.69
ACGTcount: A:0.45, C:0.12, G:0.04, T:0.39
Consensus pattern (37 bp):
TATATATATACATGCATAACATATATATACACACACT
Found at i:998837 original size:16 final size:16
Alignment explanation
Indices: 998816--998851 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
998806 TATATATACT
*
998816 TATACTATATATTTTA
1 TATACTATATAGTTTA
*
998832 TATACTTTATAGTTTA
1 TATACTATATAGTTTA
998848 TATA
1 TATA
998852 ATTTATATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.56
Consensus pattern (16 bp):
TATACTATATAGTTTA
Found at i:998856 original size:16 final size:16
Alignment explanation
Indices: 998823--998858 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
998813 ACTTATACTA
* *
998823 TATATTTTATATACTT
1 TATAGTTTATATAATT
998839 TATAGTTTATATAATT
1 TATAGTTTATATAATT
998855 TATA
1 TATA
998859 TACCAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (16 bp):
TATAGTTTATATAATT
Found at i:998883 original size:2 final size:2
Alignment explanation
Indices: 998876--999005 Score: 93
Period size: 2 Copynumber: 69.0 Consensus size: 2
998866 ATTAATACTT
*
998876 TA TA TA TA TA -A TA TA TA -A GTA TA -A TA TA CTT TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA
*
998916 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TG TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
998956 TA TG TG TG TG TCA TA T- TA TA T- TA T- TA TA TA -A TA TA TA TA
1 TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
998995 CA TA TA T- TA TA
1 TA TA TA TA TA TA
999006 ATTATTTCCA
Statistics
Matches: 106, Mismatches: 8, Indels: 28
0.75 0.06 0.20
Matches are distributed among these distances:
1 11 0.10
2 92 0.87
3 3 0.03
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (2 bp):
TA
Found at i:998891 original size:32 final size:32
Alignment explanation
Indices: 998870--998957 Score: 99
Period size: 33 Copynumber: 2.8 Consensus size: 32
998860 ACCAATATTA
*
998870 ATACTTTAT-ATATATAATATATAAGTATAAT
1 ATACTTTATAATATATAATATATAAATATAAT
*
998901 ATACTTTATAATATATATATATATATATATATAT
1 ATACTTTATAATATATA-ATATATAAATATA-AT
* * *
998935 ATA-TATATATTATGTAATATATA
1 ATACTTTATAATATATAATATATA
998958 TGTGTGTGTC
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
31 9 0.18
32 14 0.29
33 21 0.43
34 5 0.10
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (32 bp):
ATACTTTATAATATATAATATATAAATATAAT
Found at i:999002 original size:22 final size:22
Alignment explanation
Indices: 998784--999005 Score: 73
Period size: 22 Copynumber: 9.8 Consensus size: 22
998774 CACACTTAAG
* *
998784 TATATACATGCATAATATATTATA
1 TATATACAT--ATATTATATAATA
* * * *
998808 TATATACTTATACTATATATTT
1 TATATACATATATTATATAATA
* *
998830 TATATACTTTATAGTTTATATAATT
1 TATATAC-ATATA--TTATATAATA
*
998855 TATATACCA-ATATTA-ATACT-
1 TATATA-CATATATTATATAATA
* *
998875 T-TATATATATAATATATAAGTA
1 TATATACATATATTATATAA-TA
* *
998897 TAATATAC-TTTATAATATATATA
1 T-ATATACATATATTATATA-ATA
*
998920 TATATATATATATATATATATATA
1 TATATACATATAT-TATATA-ATA
* * * *
998944 TTATGTA-ATATA-TATGT-GTG
1 -TATATACATATATTATATAATA
* *
998964 TGTCATATTATATTATTATATAATA
1 TAT-ATA-CATA-TATTATATAATA
998989 TATATACATATATTATA
1 TATATACATATATTATA
999006 ATTATTTCCA
Statistics
Matches: 148, Mismatches: 30, Indels: 42
0.67 0.14 0.19
Matches are distributed among these distances:
18 1 0.01
19 11 0.07
20 7 0.05
21 5 0.03
22 39 0.26
23 25 0.17
24 37 0.25
25 22 0.15
26 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.49
Consensus pattern (22 bp):
TATATACATATATTATATAATA
Found at i:1001589 original size:20 final size:20
Alignment explanation
Indices: 1001564--1001606 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
1001554 CCATTATTCC
* *
1001564 ATAACCATATACCATAGACA
1 ATAACCATAAACAATAGACA
1001584 ATAACCATAAACAATAGACA
1 ATAACCATAAACAATAGACA
1001604 ATA
1 ATA
1001607 GCCCAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.21, G:0.05, T:0.19
Consensus pattern (20 bp):
ATAACCATAAACAATAGACA
Found at i:1007899 original size:20 final size:19
Alignment explanation
Indices: 1007871--1007916 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
1007861 AATCCTTTTA
* *
1007871 TCAACATTTCATTTTGATTT
1 TCAAAATTT-ATTTTGACTT
*
1007891 TCAAAATTTATTTTTACTT
1 TCAAAATTTATTTTGACTT
1007910 TCAAAAT
1 TCAAAAT
1007917 AAAATTGTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.33, C:0.13, G:0.02, T:0.52
Consensus pattern (19 bp):
TCAAAATTTATTTTGACTT
Found at i:1008824 original size:34 final size:34
Alignment explanation
Indices: 1008778--1008844 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
1008768 CCTTTACAAC
* *
1008778 TCCCTAGTTTTTCACGGGCTAAACTAGAACCTTA
1 TCCCTAGCTTTTCAAGGGCTAAACTAGAACCTTA
**
1008812 TCCCTAGCTTTTCAAGGGCTCGACTAGAACCTT
1 TCCCTAGCTTTTCAAGGGCTAAACTAGAACCTT
1008845 TCCTTTTACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.31
Consensus pattern (34 bp):
TCCCTAGCTTTTCAAGGGCTAAACTAGAACCTTA
Found at i:1009335 original size:20 final size:20
Alignment explanation
Indices: 1009289--1009336 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
1009279 TATTGTTCGT
* *
1009289 TACTGTTCACACATTATCGA
1 TACTATTCACACAATATCGA
* * *
1009309 TAATATTCATACAATATCGG
1 TACTATTCACACAATATCGA
1009329 TACTATTC
1 TACTATTC
1009337 GTTGTTGTTC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (20 bp):
TACTATTCACACAATATCGA
Found at i:1009366 original size:50 final size:49
Alignment explanation
Indices: 1009292--1009386 Score: 145
Period size: 50 Copynumber: 1.9 Consensus size: 49
1009282 TGTTCGTTAC
*
1009292 TGTTCACACATTATCGATAATATTCATACAATATCGGTACTATTCGTTGT
1 TGTTCACACATTATCGATAATATTCATACAATA-CAGTACTATTCGTTGT
* * *
1009342 TGTTCACACATTATCGGTACTATTCATACAGTACAGTACTATTCG
1 TGTTCACACATTATCGATAATATTCATACAATACAGTACTATTCG
1009387 GTAAAACATT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 11 0.27
50 30 0.73
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (49 bp):
TGTTCACACATTATCGATAATATTCATACAATACAGTACTATTCGTTGT
Found at i:1009797 original size:9 final size:9
Alignment explanation
Indices: 1009783--1009858 Score: 61
Period size: 9 Copynumber: 8.6 Consensus size: 9
1009773 TATACTTATA
*
1009783 TTATATAGT
1 TTATATACT
1009792 TTATATA-T
1 TTATATACT
*
1009800 TT-TATAGT
1 TTATATACT
*
1009808 TTATATAAT
1 TTATATACT
1009817 TTATATACT
1 TTATATACT
1009826 TATATTTATACT
1 T-TA--TATACT
*
1009838 TTAT-T-GT
1 TTATATACT
1009845 TTATATACT
1 TTATATACT
1009854 TTATA
1 TTATA
1009859 CTATATTATA
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
7 9 0.16
8 8 0.14
9 28 0.50
10 2 0.04
11 2 0.04
12 7 0.12
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (9 bp):
TTATATACT
Found at i:1009798 original size:16 final size:16
Alignment explanation
Indices: 1009779--1009835 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
1009769 CTTATATACT
1009779 TATATTATATAGTTTA
1 TATATTATATAGTTTA
*
1009795 TATATTTTATAGTTTA
1 TATATTATATAGTTTA
*
1009811 TATAATTTATATA-CTTA
1 TAT-A-TTATATAGTTTA
1009828 TAT-TTATA
1 TATATTATA
1009836 CTTTATTGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
14 5 0.14
16 18 0.50
17 7 0.19
18 6 0.17
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (16 bp):
TATATTATATAGTTTA
Found at i:1009811 original size:25 final size:23
Alignment explanation
Indices: 1009783--1009835 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 23
1009773 TATACTTATA
* *
1009783 TTATATAGTTTATATATTTTATAGT
1 TTATATAATTTATATA-CTTATA-T
1009808 TTATATAATTTATATACTTATAT
1 TTATATAATTTATATACTTATAT
1009831 TTATA
1 TTATA
1009836 CTTTATTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 6 0.23
24 5 0.19
25 15 0.58
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (23 bp):
TTATATAATTTATATACTTATAT
Found at i:1009853 original size:16 final size:16
Alignment explanation
Indices: 1009790--1009857 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 16
1009780 ATATTATATA
* *
1009790 GTTTATATATTTTATA
1 GTTTATATACTTTATT
*
1009806 GTTTATATAATTTATAT
1 GTTTATATACTTTAT-T
*
1009823 ACTTATATTTATACTTTATT
1 -GTT-TA--TATACTTTATT
1009843 GTTTATATACTTTAT
1 GTTTATATACTTTAT
1009858 ACTATATTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
16 24 0.57
18 4 0.10
19 4 0.10
20 1 0.02
21 9 0.21
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (16 bp):
GTTTATATACTTTATT
Found at i:1009872 original size:23 final size:22
Alignment explanation
Indices: 1009817--1009875 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
1009807 TTTATATAAT
*
1009817 TTATATACTTATATTTATACTTTA
1 TTATATA--TATATTTATACTATA
* *
1009841 TTGTTTATATACTTTATACTATA
1 TTATATATATA-TTTATACTATA
1009864 TTATATATATAT
1 TTATATATATAT
1009876 AATATACATT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
22 5 0.17
23 19 0.66
24 5 0.17
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.58
Consensus pattern (22 bp):
TTATATATATATTTATACTATA
Found at i:1009875 original size:53 final size:54
Alignment explanation
Indices: 1009761--1009876 Score: 139
Period size: 53 Copynumber: 2.1 Consensus size: 54
1009751 CATATACACT
* * *
1009761 TATATATACTTATATACTTATATTATATAGTTTATATATTTTATAGTTTATATAA
1 TATATATACTTATATA-TTATATTATATAGTTTATATACTTTATACTATATATAA
* *
1009816 TTTATATACTTATAT-TTATACTT-TATTGTTTATATACTTTATACTATAT-TATA
1 TATATATACTTATATATTATA-TTATATAGTTTATATACTTTATACTATATATA-A
1009869 TATATATA
1 TATATATA
1009877 ATATACATTA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
52 2 0.04
53 35 0.66
54 2 0.04
55 14 0.26
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (54 bp):
TATATATACTTATATATTATATTATATAGTTTATATACTTTATACTATATATAA
Found at i:1016827 original size:10 final size:10
Alignment explanation
Indices: 1016814--1016944 Score: 72
Period size: 10 Copynumber: 12.6 Consensus size: 10
1016804 TATACTTTTG
1016814 TATATATACA
1 TATATATACA
1016824 TATATATACA
1 TATATATACA
*
1016834 TATATGTACA
1 TATATATACA
* *
1016844 TACAT-CACA
1 TATATATACA
*
1016853 TATATACTTTTATA
1 TATATA----TACA
1016867 TATATATACA
1 TATATATACA
*
1016877 CATATATACA
1 TATATATACA
*
1016887 TGTATA-ACATA
1 TATATATAC--A
1016898 TATGATATACGCA
1 TAT-ATATA--CA
*
1016911 TATA-ATATA
1 TATATATACA
*
1016920 TATGTATACA
1 TATATATACA
*
1016930 TGTATA-ACA
1 TATATATACA
1016939 TATATA
1 TATATA
1016945 CACACACTTA
Statistics
Matches: 92, Mismatches: 17, Indels: 25
0.69 0.13 0.19
Matches are distributed among these distances:
9 21 0.23
10 47 0.51
11 6 0.07
12 4 0.04
13 5 0.05
14 8 0.09
15 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (10 bp):
TATATATACA
Found at i:1016828 original size:8 final size:8
Alignment explanation
Indices: 1016815--1016946 Score: 59
Period size: 8 Copynumber: 15.1 Consensus size: 8
1016805 ATACTTTTGT
1016815 ATATATAC
1 ATATATAC
1016823 ATATATATAC
1 --ATATATAC
1016833 ATATATGTAC
1 ATATA--TAC
*
1016843 ATACATCAC
1 ATATAT-AC
1016852 ATATATAC
1 ATATATAC
* *
1016860 TTTTATATAT
1 --ATATATAC
*
1016870 ATATACAC
1 ATATATAC
1016878 ATATATAC
1 ATATATAC
*
1016886 ATGTATAAC
1 ATATAT-AC
*
1016895 ATATAT-G
1 ATATATAC
**
1016902 ATATACGC
1 ATATATAC
*
1016910 ATATAATAT
1 ATAT-ATAC
1016919 ATATGTATAC
1 ATA--TATAC
*
1016929 ATGTATAAC
1 ATATAT-AC
1016938 ATATATAC
1 ATATATAC
1016946 A
1 A
1016947 CACACTTAAG
Statistics
Matches: 92, Mismatches: 19, Indels: 24
0.68 0.14 0.18
Matches are distributed among these distances:
7 5 0.05
8 35 0.38
9 25 0.27
10 26 0.28
11 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (8 bp):
ATATATAC
Found at i:1016976 original size:2 final size:2
Alignment explanation
Indices: 1016971--1017116 Score: 84
Period size: 2 Copynumber: 76.5 Consensus size: 2
1016961 TACATGCATA
*
1016971 AT AT AT -T AT AT AT AT ACT -T AT ACT AT AT AT -T TT AT AT ACT
1 AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT A-T
* * * * *
1017011 TT AT AT -T TT AT AT A- AT TT AT AT ACC A- AT AT -T A- AT ACT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT
*
1017050 AT AT AT AT AT A- AT AT A- AGT AT A- AT AT AC AT -T AT A- AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
1017088 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1017117 ATACCAATAT
Statistics
Matches: 114, Mismatches: 11, Indels: 38
0.70 0.07 0.23
Matches are distributed among these distances:
1 13 0.11
2 94 0.82
3 7 0.06
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1018663 original size:43 final size:43
Alignment explanation
Indices: 1018594--1018877 Score: 354
Period size: 43 Copynumber: 6.6 Consensus size: 43
1018584 TACAATCTAT
* *
1018594 TTTCTCAGGCTCCTTTGCTATATGCAAGGATAAGACCTTACCG
1 TTTCCCAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCG
* *
1018637 TTTCCCAGGCTCCTTTGCTATGTGCAAGGATAAGAGCTTACTG
1 TTTCCCAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCG
* *
1018680 TTTCCCATGCTCATTTGCTATGTGCAAGGATAAGACCTTACCG
1 TTTCCCAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCG
* * * * *
1018723 TTTCCCAGGCTCCTTTGTTATGTGCAAGGGTAATATCTTACCA
1 TTTCCCAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCG
* *
1018766 TTTCCCA-ACACCTTTGCTATGTGCAAGGATAAGACCTTACCG
1 TTTCCCAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCG
* * * * *
1018808 TTGCCCAGGCTCTTTTTCTATGTGCAAGGGTAAGACCTTATCG
1 TTTCCCAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCG
** * *
1018851 TTTTTGCAGGCTCATTTGCTTTGTGCA
1 -TTTCCCAGGCTCCTTTGCTATGTGCA
1018878 TATGGTAAAT
Statistics
Matches: 204, Mismatches: 35, Indels: 3
0.84 0.14 0.01
Matches are distributed among these distances:
42 34 0.17
43 150 0.74
44 20 0.10
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (43 bp):
TTTCCCAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCG
Found at i:1020127 original size:43 final size:43
Alignment explanation
Indices: 1020080--1020278 Score: 227
Period size: 43 Copynumber: 4.6 Consensus size: 43
1020070 TGCAATCTAT
* *
1020080 TTTCCCAGGCTCCTTTGCTATGTGCAAGGATAATACCTTATCG
1 TTTCCCAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCG
* * *
1020123 TTTCCCAGGCTCCTTTGTTATGTGCAAGGGTAGGACCTTACCG
1 TTTCCCAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCG
* * * * *
1020166 TTTCCTAGGCTTCTTTTCGATGTGGAAGGATAAGACCTTACCG
1 TTTCCCAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCG
* * * *
1020209 TTTCCTAGGCTCTTTTGCTATGTGCAAGGGTAAGACCTTATCG
1 TTTCCCAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCG
** * *
1020252 TTTTTGCAGACTCCTTTGCTTTGTGCA
1 -TTTCCCAGGCTCCTTTGCTATGTGCA
1020279 CGGGGTAAAT
Statistics
Matches: 129, Mismatches: 26, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
43 109 0.84
44 20 0.16
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (43 bp):
TTTCCCAGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCG
Found at i:1021741 original size:19 final size:19
Alignment explanation
Indices: 1021717--1021755 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1021707 TTAGTTTGTC
1021717 TTTGTAATAAATTAACAAA
1 TTTGTAATAAATTAACAAA
* * *
1021736 TTTGTATTTAATTTACAAA
1 TTTGTAATAAATTAACAAA
1021755 T
1 T
1021756 AAATATAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (19 bp):
TTTGTAATAAATTAACAAA
Found at i:1025004 original size:3 final size:3
Alignment explanation
Indices: 1024998--1025067 Score: 54
Period size: 3 Copynumber: 23.0 Consensus size: 3
1024988 TAATATTATT
* * * **
1024998 TAA TAA TAA TATA TAA TAA TAG TAG T-A TAA TATG TAA TTT TATA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA
1025045 TAA TAA TAA TAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
1025068 GTAAGACCAA
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
2 3 0.06
3 44 0.81
4 7 0.13
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:1025029 original size:37 final size:37
Alignment explanation
Indices: 1024988--1025071 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 37
1024978 TTGGGCTTTG
* *
1024988 TAATAT-T-ATTTAATAATAATATATAATAATAGTAGTA
1 TAATATGTAATTTAAT-ATAATA-ATAATAATAATAATA
*
1025025 TAATATGTAATTTTATATAATAATAATAATAATAATA
1 TAATATGTAATTTAATATAATAATAATAATAATAATA
*
1025062 TAATAAGTAA
1 TAATATGTAA
1025072 GACCAAACCA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
37 28 0.68
38 7 0.17
39 6 0.15
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.42
Consensus pattern (37 bp):
TAATATGTAATTTAATATAATAATAATAATAATAATA
Found at i:1025339 original size:20 final size:20
Alignment explanation
Indices: 1025311--1025355 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1025301 AAAACATCAT
* *
1025311 ACCCTGAGGTTTTACAAATG
1 ACCCAGAGGTTTTACAAATC
*
1025331 ACCCAGAGGTTTTAGAAATC
1 ACCCAGAGGTTTTACAAATC
1025351 ACCCA
1 ACCCA
1025356 TAGGATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (20 bp):
ACCCAGAGGTTTTACAAATC
Found at i:1025364 original size:20 final size:20
Alignment explanation
Indices: 1025311--1025364 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
1025301 AAAACATCAT
* * *
1025311 ACCCTGAGGTTTTACAAATG
1 ACCCAGAGGATTTACAAATC
* *
1025331 ACCCAGAGGTTTTAGAAATC
1 ACCCAGAGGATTTACAAATC
*
1025351 ACCCATAGGATTTA
1 ACCCAGAGGATTTA
1025365 ATTTTCTAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (20 bp):
ACCCAGAGGATTTACAAATC
Found at i:1025453 original size:119 final size:119
Alignment explanation
Indices: 1025232--1025587 Score: 563
Period size: 119 Copynumber: 3.0 Consensus size: 119
1025222 TTTATAGATG
* * * *
1025232 ACCCGGAGGTTTTAATTTTCTAGAAAATTAAATGAGAAACTTTGAAAATCGGTTTCTCATTTTCA
1 ACCCAGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGAAAATC-GCTTCTCATTTTCA
* * * *
1025297 TACG-AAAACATCATACCCTGAGGTTTTACAAATGACCCAGAGGTTTTAGAAATC
65 TGCGAAAAACATCCTACCCTGAGGTTTTACAGATGACCCAGAGGTTTTACAAATC
* *
1025351 ACCCATAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGAAAATTGCTTCTCATTTTCAT
1 ACCCAGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCTTCTCATTTTCAT
1025416 GCGAAAAACATCCTACCCTGAGGTTTTACAGATGACCCAGAGGTTTTACAAATC
66 GCGAAAAACATCCTACCCTGAGGTTTTACAGATGACCCAGAGGTTTTACAAATC
* *
1025470 ACCCGGAGGATTTAATTTTCTAGAACATTACATGAGAAACTTTGAAAATCGCTTTCTCATTTTCA
1 ACCCAGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGAAAATCGC-TTCTCATTTTCA
*
1025535 TGCGAAAAA-ATCCTACCCTGAGGTTTTACAGATGACCCAGAGGCTTTACAAAT
65 TGCGAAAAACATCCTACCCTGAGGTTTTACAGATGACCCAGAGGTTTTACAAAT
1025588 GATTGAGAAA
Statistics
Matches: 220, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
118 16 0.07
119 183 0.83
120 21 0.10
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (119 bp):
ACCCAGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCTTCTCATTTTCAT
GCGAAAAACATCCTACCCTGAGGTTTTACAGATGACCCAGAGGTTTTACAAATC
Found at i:1025473 original size:20 final size:20
Alignment explanation
Indices: 1025430--1025483 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
1025420 AAAACATCCT
* * *
1025430 ACCCTGAGGTTTTACAGATG
1 ACCCAGAGGTTTTACAAATC
1025450 ACCCAGAGGTTTTACAAATC
1 ACCCAGAGGTTTTACAAATC
* *
1025470 ACCCGGAGGATTTA
1 ACCCAGAGGTTTTA
1025484 ATTTTCTAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (20 bp):
ACCCAGAGGTTTTACAAATC
Found at i:1025577 original size:20 final size:20
Alignment explanation
Indices: 1025549--1025589 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1025539 AAAAAATCCT
* * *
1025549 ACCCTGAGGTTTTACAGATG
1 ACCCAGAGGCTTTACAAATG
1025569 ACCCAGAGGCTTTACAAATG
1 ACCCAGAGGCTTTACAAATG
1025589 A
1 A
1025590 TTGAGAAATT
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:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (20 bp):
ACCCAGAGGCTTTACAAATG
Found at i:1037174 original size:23 final size:23
Alignment explanation
Indices: 1037148--1037191 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
1037138 TACTCAACTT
*
1037148 ACATACATATTGCATACACATAC
1 ACATACACATTGCATACACATAC
1037171 ACATACACATTGCATACACAT
1 ACATACACATTGCATACACAT
1037192 TTAATACAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.05, T:0.25
Consensus pattern (23 bp):
ACATACACATTGCATACACATAC
Found at i:1037189 original size:11 final size:11
Alignment explanation
Indices: 1037149--1037192 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
1037139 ACTCAACTTA
*
1037149 CATACATATTG
1 CATACACATTG
**
1037160 CATACACATACA
1 CATACACAT-TG
1037172 CATACACATTG
1 CATACACATTG
1037183 CATACACATT
1 CATACACATT
1037193 TAATACAGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.41, C:0.27, G:0.05, T:0.27
Consensus pattern (11 bp):
CATACACATTG
Found at i:1037523 original size:14 final size:14
Alignment explanation
Indices: 1037437--1037527 Score: 69
Period size: 14 Copynumber: 6.4 Consensus size: 14
1037427 AGGTGCAATT
1037437 ATTAAAGGGA-TAAA
1 ATTAAA-GGACTAAA
*
1037451 ATTAAAGTACTAAGA
1 ATTAAAGGACTAA-A
* *
1037466 AATGAAGGAC-AAA
1 ATTAAAGGACTAAA
* *
1037479 ATTAAAAGACAGAAA
1 ATTAAAGGAC-TAAA
* * *
1037494 ATTAAAGTAATGAA
1 ATTAAAGGACTAAA
1037508 ATTAAAGGACTAAA
1 ATTAAAGGACTAAA
1037522 ATTAAA
1 ATTAAA
1037528 TAAATAAAAA
Statistics
Matches: 58, Mismatches: 15, Indels: 8
0.72 0.19 0.10
Matches are distributed among these distances:
13 10 0.17
14 30 0.52
15 18 0.31
ACGTcount: A:0.59, C:0.04, G:0.15, T:0.21
Consensus pattern (14 bp):
ATTAAAGGACTAAA
Found at i:1037777 original size:28 final size:28
Alignment explanation
Indices: 1037737--1037794 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 28
1037727 ATTAAATAAA
1037737 AATTAGCGGTTAGTGGTTAG-ATGTTAGT
1 AATTAGCGGTTAGT-GTTAGAATGTTAGT
1037765 AATTAGCGGTTAGTGTTAGAAATGTTAGT
1 AATTAGCGGTTAGTGTTAG-AATGTTAGT
1037794 A
1 A
1037795 GAGTTCGGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 5 0.18
28 14 0.50
29 9 0.32
ACGTcount: A:0.29, C:0.03, G:0.29, T:0.38
Consensus pattern (28 bp):
AATTAGCGGTTAGTGTTAGAATGTTAGT
Found at i:1042709 original size:9 final size:9
Alignment explanation
Indices: 1042695--1042721 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
1042685 AACATTGAGC
1042695 ACCAAAATG
1 ACCAAAATG
1042704 ACCAAAATG
1 ACCAAAATG
1042713 ACCAAAATG
1 ACCAAAATG
1042722 CCCTTATGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.22, G:0.11, T:0.11
Consensus pattern (9 bp):
ACCAAAATG
Found at i:1050384 original size:21 final size:21
Alignment explanation
Indices: 1050358--1050412 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
1050348 ACAAAGGAAT
* *
1050358 TATCGATACTCTTAGTCCGAG
1 TATCGATACTCCTAGTCCAAG
1050379 TATCGATACTCCTAGTCCAAG
1 TATCGATACTCCTAGTCCAAG
1050400 TATCGATACTCCT
1 TATCGATACTCCT
1050413 TGTTCTTGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (21 bp):
TATCGATACTCCTAGTCCAAG
Found at i:1059586 original size:57 final size:57
Alignment explanation
Indices: 1059354--1059582 Score: 296
Period size: 57 Copynumber: 4.0 Consensus size: 57
1059344 CATAACCATA
* * * * * * *
1059354 CAACCCCGTCATGAATAGTAAGGCCCTGAGCACAAAGCCAAGGAACCTACAAGTAAT
1 CAACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
* * *
1059411 CAACCCCGTCACAAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACATGCAAGTATG
1 CAACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
*
1059468 CAACCCCGTCACGAACAATAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
** * * * **
1059525 CTTCCCTGTCACGAATAGTAAGGCACTCAGCACAAATACGAGGAACCTGCAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
1059582 C
1 C
1059583 TTCCTCCAAC
Statistics
Matches: 150, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 150 1.00
ACGTcount: A:0.36, C:0.29, G:0.20, T:0.15
Consensus pattern (57 bp):
CAACCCCGTCACGAACAGTAAGGCTCTCAGCACAAAGCCGAGGAACCTGCAAGTATT
Found at i:1061871 original size:18 final size:18
Alignment explanation
Indices: 1061828--1061880 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
1061818 AACACCGGTC
*
1061828 AACGGGTCGAGTCGGGTA
1 AACGGGTCGGGTCGGGTA
**
1061846 AATTGGTCGGG-CTGGGTA
1 AACGGGTCGGGTC-GGGTA
1061864 AACGGGTCGGGTCGGGT
1 AACGGGTCGGGTCGGGT
1061881 TAGAACCAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 1 0.04
18 26 0.93
19 1 0.04
ACGTcount: A:0.17, C:0.15, G:0.47, T:0.21
Consensus pattern (18 bp):
AACGGGTCGGGTCGGGTA
Found at i:1063195 original size:40 final size:40
Alignment explanation
Indices: 1063140--1063227 Score: 158
Period size: 40 Copynumber: 2.2 Consensus size: 40
1063130 AGATTAACCC
*
1063140 TTCAGCTAGCCCGATAAAAGAAAATTACAATAAAGCTGAT
1 TTCAGCTAACCCGATAAAAGAAAATTACAATAAAGCTGAT
*
1063180 TTCAGCTAACCCGATAAAGGAAAATTACAATAAAGCTGAT
1 TTCAGCTAACCCGATAAAAGAAAATTACAATAAAGCTGAT
1063220 TTCAGCTA
1 TTCAGCTA
1063228 GCCAAACAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (40 bp):
TTCAGCTAACCCGATAAAAGAAAATTACAATAAAGCTGAT
Found at i:1063242 original size:40 final size:40
Alignment explanation
Indices: 1063159--1063245 Score: 129
Period size: 40 Copynumber: 2.2 Consensus size: 40
1063149 CCCGATAAAA
** *
1063159 GAAAATTACAATAAAGCTGATTTCAGCTAACCCGATAAAG
1 GAAAATTACAATAAAGCTGATTTCAGCTAACCAAACAAAG
* *
1063199 GAAAATTACAATAAAGCTGATTTCAGCTAGCCAAACAATG
1 GAAAATTACAATAAAGCTGATTTCAGCTAACCAAACAAAG
1063239 GAAAATT
1 GAAAATT
1063246 TATCTAAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.46, C:0.16, G:0.15, T:0.23
Consensus pattern (40 bp):
GAAAATTACAATAAAGCTGATTTCAGCTAACCAAACAAAG
Found at i:1065086 original size:37 final size:37
Alignment explanation
Indices: 1065018--1065132 Score: 124
Period size: 37 Copynumber: 3.1 Consensus size: 37
1065008 TGAGATTGGG
* * * *
1065018 GCAAGTCAATCTTAAGCCTTCAC-AGAGGAGTAATGAA
1 GCAAATCAACCTTAAGCCTTCACGA-AAGAGTAGTGAA
* ** *
1065055 GCAAATTAATTTTAAGCCTTCATGAAAGAGTAGTGAA
1 GCAAATCAACCTTAAGCCTTCACGAAAGAGTAGTGAA
* *
1065092 ACAAATCAACCTTAAGCTTTCACGAAAGAGTAGTGAA
1 GCAAATCAACCTTAAGCCTTCACGAAAGAGTAGTGAA
1065129 GCAA
1 GCAA
1065133 TCCATCAGTA
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
37 63 0.98
38 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (37 bp):
GCAAATCAACCTTAAGCCTTCACGAAAGAGTAGTGAA
Found at i:1065145 original size:37 final size:37
Alignment explanation
Indices: 1065067--1065149 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 37
1065057 AAATTAATTT
* **
1065067 TAAGCCTTCATGAAAGAGTAGTGAAACAAATCAACCT
1 TAAGCCTTCACGAAAGAGTAGTGAAACAAATCAACAG
* * *
1065104 TAAGCTTTCACGAAAGAGTAGTGAAGC-AATCCATCAG
1 TAAGCCTTCACGAAAGAGTAGTGAAACAAAT-CAACAG
1065141 TAAGCCTTC
1 TAAGCCTTC
1065150 CGAGCATGAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
36 3 0.08
37 35 0.92
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (37 bp):
TAAGCCTTCACGAAAGAGTAGTGAAACAAATCAACAG
Found at i:1065226 original size:36 final size:36
Alignment explanation
Indices: 1065179--1065288 Score: 157
Period size: 36 Copynumber: 3.1 Consensus size: 36
1065169 CTACGGACCT
1065179 TCTTAAGCCTTCATGGAAGAGAAGTAAAGAAAACCA
1 TCTTAAGCCTTCATGGAAGAGAAGTAAAGAAAACCA
* * **
1065215 TCTTAAGCCTTCATGGAAGAGCAGTGAACCAAACCA
1 TCTTAAGCCTTCATGGAAGAGAAGTAAAGAAAACCA
* * *
1065251 TCTTAAGCCTTCATGGAAGAGTAGTAAAGTAAGCCA
1 TCTTAAGCCTTCATGGAAGAGAAGTAAAGAAAACCA
1065287 TC
1 TC
1065289 AGTAAGTCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 65 1.00
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (36 bp):
TCTTAAGCCTTCATGGAAGAGAAGTAAAGAAAACCA
Found at i:1065402 original size:36 final size:36
Alignment explanation
Indices: 1065355--1065501 Score: 222
Period size: 36 Copynumber: 4.1 Consensus size: 36
1065345 GTCCTCCAGG
1065355 TCATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAAA
1 TCATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAAA
* *
1065391 TCATCTTAAGCCTTTACAGAAGAATAGTGAAGCAAA
1 TCATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAAA
* *
1065427 TCAATCTCAAGCCTTCACAGTAGAGTAGTGAAGCAAA
1 TC-ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAAA
** *
1065464 TCATCTTAAGCCTTCATGGAAGAGTAGTAAAGCAAA
1 TCATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAAA
1065500 TC
1 TC
1065502 CATTAGTAAG
Statistics
Matches: 99, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
36 67 0.68
37 32 0.32
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (36 bp):
TCATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAAA
Found at i:1065454 original size:73 final size:73
Alignment explanation
Indices: 1065357--1065501 Score: 227
Period size: 73 Copynumber: 2.0 Consensus size: 73
1065347 CCTCCAGGTC
* * *
1065357 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAAATCATCTTAAGCCTTTACAGAAGAATAGTGAA
1 ATCTCAAGCCTTCACAGAAGAGTAGTGAAGCAAATCATCTTAAGCCTTCACAGAAGAATAGTAAA
1065422 GCAAATCA
66 GCAAATCA
* ** *
1065430 ATCTCAAGCCTTCACAGTAGAGTAGTGAAGCAAATCATCTTAAGCCTTCATGGAAGAGTAGTAAA
1 ATCTCAAGCCTTCACAGAAGAGTAGTGAAGCAAATCATCTTAAGCCTTCACAGAAGAATAGTAAA
1065495 GCAAATC
66 GCAAATC
1065502 CATTAGTAAG
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 65 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (73 bp):
ATCTCAAGCCTTCACAGAAGAGTAGTGAAGCAAATCATCTTAAGCCTTCACAGAAGAATAGTAAA
GCAAATCA
Found at i:1066570 original size:53 final size:53
Alignment explanation
Indices: 1066099--1066569 Score: 717
Period size: 53 Copynumber: 8.9 Consensus size: 53
1066089 GAATCGCACT
* * * *
1066099 AGAAGATTGTTCGAGTTCTGCTCCCTGAAGCAAGAGAGAGTGAACCCGTAGGT
1 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGC
* *
1066152 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGTGAACCCATAGGC
1 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGC
* * *
1066205 AGAAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCGTAAGT
1 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGC
* * *
1066258 AGAAGATTGTTCGAGTTCTACTCTCTGAAGCAAGAGGGAGCGAACCCATAGAC
1 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGC
* * *
1066311 AGAAGATTGTTTGAGTTCTACTCCCTGAACCAAGAGGGAACGAACCCGTAGGC
1 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGC
** *
1066364 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGAAAACCCGTAGGT
1 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGC
* * * *
1066417 AGAAGATTGATCGAGTTTTACTCCCTAAAGCAAGAGGGAGCAAACCCGTAGGC
1 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGC
* *
1066470 AGAAGATTATTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCATAGGC
1 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGC
*
1066523 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGAAGCGAACCC
1 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCC
1066570 ACTGGTTGAA
Statistics
Matches: 378, Mismatches: 40, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 378 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (53 bp):
AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGC
Found at i:1066919 original size:22 final size:23
Alignment explanation
Indices: 1066894--1066951 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
1066884 ACACAGTTAC
*
1066894 GACCCATACCCGGTTGC-AACCT
1 GACCCAGACCCGGTTGCAAACCT
**
1066916 GACCTGGACCCGGTTGCAAACCT
1 GACCCAGACCCGGTTGCAAACCT
*
1066939 GACCCGGACCCGG
1 GACCCAGACCCGG
1066952 ACCTGATTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 14 0.45
23 17 0.55
ACGTcount: A:0.21, C:0.40, G:0.26, T:0.14
Consensus pattern (23 bp):
GACCCAGACCCGGTTGCAAACCT
Found at i:1066941 original size:23 final size:22
Alignment explanation
Indices: 1066901--1066951 Score: 84
Period size: 23 Copynumber: 2.3 Consensus size: 22
1066891 TACGACCCAT
*
1066901 ACCCGGTTGCAACCTGACCTGG
1 ACCCGGTTGCAACCTGACCCGG
1066923 ACCCGGTTGCAAACCTGACCCGG
1 ACCCGGTTGC-AACCTGACCCGG
1066946 ACCCGG
1 ACCCGG
1066952 ACCTGATTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 10 0.37
23 17 0.63
ACGTcount: A:0.20, C:0.39, G:0.27, T:0.14
Consensus pattern (22 bp):
ACCCGGTTGCAACCTGACCCGG
Found at i:1073663 original size:11 final size:12
Alignment explanation
Indices: 1073647--1073675 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1073637 GACACTTTAA
1073647 TATTAT-GATTT
1 TATTATGGATTT
1073658 TATTATGGATTT
1 TATTATGGATTT
1073670 TATTAT
1 TATTAT
1073676 TTTAGAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (12 bp):
TATTATGGATTT
Found at i:1073696 original size:75 final size:73
Alignment explanation
Indices: 1073595--1073809 Score: 224
Period size: 76 Copynumber: 2.9 Consensus size: 73
1073585 TTGTGTTTAA
1073595 TATT-TTTCTAGACTTAATATTATGGTTTGAGTCTTAAGATTTGACACTTTAATATTATGATTTT
1 TATTATTT-TAGACTTAATATTATGGTTTGAGTCTT-AGATTTGACACTTTAATATTATGATTTT
1073659 ATTATGGATTT
64 -TTATGGATTT
* * * * *
1073670 TATTATTTTAGAGTTAATATTATGGTTTGAATCTTGGAATTTGACATTTTAATATTATGGTTTTG
1 TATTATTTTAGACTTAATATTATGGTTTGAGTCTTAG-ATTTGACACTTTAATATTAT-GATTT-
1073735 TTTATGGATTT
63 TTTATGGATTT
* * * * * * *
1073746 TACTATTCTAAACTTAATATTGTTGTTTAAGTCTTGATATTTG--ACTTT-AT-TTATGATTTTT
1 TATTATTTTAGACTTAATATTATGGTTTGAGTCTT-AGATTTGACACTTTAATATTATGATTTTT
1073807 TAT
65 TAT
1073810 ATATATTTAT
Statistics
Matches: 118, Mismatches: 17, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
70 5 0.04
71 4 0.03
72 4 0.03
73 2 0.02
74 5 0.04
75 48 0.41
76 49 0.42
77 1 0.01
ACGTcount: A:0.27, C:0.06, G:0.13, T:0.54
Consensus pattern (73 bp):
TATTATTTTAGACTTAATATTATGGTTTGAGTCTTAGATTTGACACTTTAATATTATGATTTTTT
ATGGATTT
Found at i:1073781 original size:76 final size:75
Alignment explanation
Indices: 1073600--1073809 Score: 236
Period size: 75 Copynumber: 2.9 Consensus size: 75
1073590 TTTAATATTT
* *
1073600 TTCTAGACTTAATATTATGGTTTGAGTCTTAAGATTTGACACTTTAATATTATGATTTTATTATG
1 TTCTAGACTTAATATTATGGTTTAAGTCTTGAGATTTGACACTTTAATATTATGATTTTATTATG
*
1073665 GATTTTATTA
66 GATTTTACTA
* * * * *
1073675 TTTTAGAGTTAATATTATGGTTTGAA-TCTTG-GAATTTGACATTTTAATATTATGGTTTTGTTT
1 TTCTAGACTTAATATTATGGTTT-AAGTCTTGAG-ATTTGACACTTTAATATTATGATTTT-ATT
1073738 ATGGATTTTACTA
63 ATGGATTTTACTA
* * * *
1073751 TTCTAAACTTAATATTGTTGTTTAAGTCTTGATATTTG--ACTTT-AT-TTATGATTTT-TTAT
1 TTCTAGACTTAATATTATGGTTTAAGTCTTGAGATTTGACACTTTAATATTATGATTTTATTAT
1073810 ATATATTTAT
Statistics
Matches: 114, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
70 4 0.04
72 9 0.08
73 2 0.02
74 5 0.04
75 51 0.45
76 43 0.38
ACGTcount: A:0.27, C:0.06, G:0.14, T:0.53
Consensus pattern (75 bp):
TTCTAGACTTAATATTATGGTTTAAGTCTTGAGATTTGACACTTTAATATTATGATTTTATTATG
GATTTTACTA
Found at i:1077047 original size:15 final size:14
Alignment explanation
Indices: 1077027--1077074 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
1077017 AGTGCTTTTA
1077027 AAAGAACAAAAAAAT
1 AAAGAA-AAAAAAAT
*
1077042 AAAGAATAAAAAAT
1 AAAGAAAAAAAAAT
1077056 AAA-ATAAAATAAAAT
1 AAAGA-AAAA-AAAAT
1077071 AAAG
1 AAAG
1077075 GTATATTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 1 0.04
14 13 0.46
15 14 0.50
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.12
Consensus pattern (14 bp):
AAAGAAAAAAAAAT
Found at i:1077996 original size:18 final size:16
Alignment explanation
Indices: 1077965--1078013 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 16
1077955 AAATATTCAT
1077965 AAAAATTATTAAAAATA
1 AAAAATTA-TAAAAATA
1077982 AAAAGATTATAAAAATA
1 AAAA-ATTATAAAAATA
*
1077999 AAAAA-AATAAAAATA
1 AAAAATTATAAAAATA
1078014 TTAGAAGTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 9 0.30
16 1 0.03
17 16 0.53
18 4 0.13
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (16 bp):
AAAAATTATAAAAATA
Found at i:1083213 original size:29 final size:29
Alignment explanation
Indices: 1083121--1083213 Score: 80
Period size: 29 Copynumber: 3.1 Consensus size: 29
1083111 ATGTCATATT
*
1083121 ATCACTTTGGGTGACGTGACACATATT-ATTC
1 ATCACTTTGAGTGACGTGACACAT-TTCA--C
* * * ** *
1083152 ATCACTTTGAATGACATGACACGTGGCAT
1 ATCACTTTGAGTGACGTGACACATTTCAC
*
1083181 ATCACTTTGAGTGATGTGACACATTTCAC
1 ATCACTTTGAGTGACGTGACACATTTCAC
1083210 ATCA
1 ATCA
1083214 TCATTTTAGA
Statistics
Matches: 47, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
29 26 0.55
31 21 0.45
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (29 bp):
ATCACTTTGAGTGACGTGACACATTTCAC
Found at i:1083561 original size:32 final size:32
Alignment explanation
Indices: 1083464--1083565 Score: 105
Period size: 32 Copynumber: 3.2 Consensus size: 32
1083454 CACCTGACAT
* * *
1083464 ATCACCATTTTGGATTATATGACACATGTCAC
1 ATCATCATTTTGGGTGATATGACACATGTCAC
* * * * * *
1083496 ATTATCACTTTGGGTGATGTGTCACCTCTCAC
1 ATCATCATTTTGGGTGATATGACACATGTCAC
* *
1083528 ATCGTCATTTTGGGTGATATGACACATGACAC
1 ATCATCATTTTGGGTGATATGACACATGTCAC
1083560 ATCATC
1 ATCATC
1083566 GCTTTAGGTG
Statistics
Matches: 52, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (32 bp):
ATCATCATTTTGGGTGATATGACACATGTCAC
Done.