Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 10 of 50
Found at i:5488591 original size:16 final size:17
Alignment explanation
Indices: 5488523--5488596 Score: 50
Period size: 16 Copynumber: 4.4 Consensus size: 17
5488513 AAATAAAAAG
5488523 TAAA-AAATAAAATATTTAA
1 TAAATAAAT-AAA-ATTT-A
* *
5488542 TAAATGAATTAAAAATTA
1 TAAAT-AAATAAAATTTA
5488560 -AAATAAATAAAA--TA
1 TAAATAAATAAAATTTA
5488574 TAAA-AAATAAAATTTA
1 TAAATAAATAAAATTTA
5488590 TATAATA
1 TA-AATA
5488597 TAGGTAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
14 10 0.22
15 3 0.07
16 11 0.24
17 6 0.13
18 2 0.04
19 7 0.16
20 3 0.07
21 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (17 bp):
TAAATAAATAAAATTTA
Found at i:5488657 original size:41 final size:40
Alignment explanation
Indices: 5488601--5488687 Score: 122
Period size: 41 Copynumber: 2.2 Consensus size: 40
5488591 ATAATATAGG
* *
5488601 TAAA-AAATTAAAATAAAATATATAATATAAAAAATTATAT
1 TAAAGAAATGAAAATAAAATATATAACATAAAAAA-TATAT
*
5488641 TAAAGAAATGAAAATAAAATATATAACATTAAAAATATAT
1 TAAAGAAATGAAAATAAAATATATAACATAAAAAATATAT
*
5488681 TTAAGAA
1 TAAAGAA
5488688 GTGATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 15 0.36
41 27 0.64
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (40 bp):
TAAAGAAATGAAAATAAAATATATAACATAAAAAATATAT
Found at i:5491490 original size:32 final size:30
Alignment explanation
Indices: 5491447--5491510 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 30
5491437 CCTTCAAGTC
*
5491447 GAGTAAAAAGTCAAGTTACG-AGAAGAAAAA
1 GAGTAAAAAGTCAAGCTACGAAG-AGAAAAA
*
5491477 GAGTATAAGAAGTCAAGCTATGAAGAGAAAAA
1 GAGTA-AA-AAGTCAAGCTACGAAGAGAAAAA
5491509 GA
1 GA
5491511 ATAATACAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 5 0.17
31 2 0.07
32 20 0.69
33 2 0.07
ACGTcount: A:0.55, C:0.06, G:0.25, T:0.14
Consensus pattern (30 bp):
GAGTAAAAAGTCAAGCTACGAAGAGAAAAA
Found at i:5515714 original size:2 final size:2
Alignment explanation
Indices: 5515707--5515733 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5515697 TCTCCCTCAT
5515707 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
5515734 ACTCGAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:5534966 original size:14 final size:13
Alignment explanation
Indices: 5534941--5534972 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
5534931 TTTTTACTTT
5534941 TAAATATAATATA
1 TAAATATAATATA
5534954 TAAATATTAATATA
1 TAAATA-TAATATA
5534968 TAAAT
1 TAAAT
5534973 TATTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TAAATATAATATA
Found at i:5546933 original size:9 final size:9
Alignment explanation
Indices: 5546921--5546946 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
5546911 ATTCTGGATT
5546921 TTATTATTG
1 TTATTATTG
5546930 TTATTATTG
1 TTATTATTG
5546939 TTATTATT
1 TTATTATT
5546947 ATTTTGGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (9 bp):
TTATTATTG
Found at i:5557102 original size:7 final size:7
Alignment explanation
Indices: 5557090--5557119 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
5557080 CAAGGTATAT
5557090 AAGGGAA
1 AAGGGAA
5557097 AAGGGAA
1 AAGGGAA
5557104 AAGGGAA
1 AAGGGAA
*
5557111 AAGTGAA
1 AAGGGAA
5557118 AA
1 AA
5557120 CACAATACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.37, T:0.03
Consensus pattern (7 bp):
AAGGGAA
Found at i:5566577 original size:12 final size:12
Alignment explanation
Indices: 5566560--5566641 Score: 101
Period size: 12 Copynumber: 6.8 Consensus size: 12
5566550 GTTTCTTTGT
5566560 CTCCTGGTACAG
1 CTCCTGGTACAG
*
5566572 CTCCTGGTACGG
1 CTCCTGGTACAG
* *
5566584 CACCAGGTACAG
1 CTCCTGGTACAG
* *
5566596 CTCCTGGTGCGG
1 CTCCTGGTACAG
5566608 CTCCTGGTACAG
1 CTCCTGGTACAG
*
5566620 CTCCTGATACAG
1 CTCCTGGTACAG
*
5566632 CTCCCGGTAC
1 CTCCTGGTAC
5566642 GTGCTCATTC
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 57 1.00
ACGTcount: A:0.16, C:0.35, G:0.27, T:0.22
Consensus pattern (12 bp):
CTCCTGGTACAG
Found at i:5588370 original size:2 final size:2
Alignment explanation
Indices: 5588363--5588403 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
5588353 GGTTTATAAA
5588363 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
5588404 ATTGAAAGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5588845 original size:31 final size:32
Alignment explanation
Indices: 5588810--5588895 Score: 88
Period size: 31 Copynumber: 2.8 Consensus size: 32
5588800 CCTCCTCTTG
*
5588810 TCTCTTCTTCTTCTTCTC-CTTCTCCTTTT-CT
1 TCTCTTCTTCTTCTTCTCTCTTC-CATTTTCCT
* *
5588841 TCTCTTTTTCTTCTTTTCTCTTCCATTTTCCT
1 TCTCTTCTTCTTCTTCTCTCTTCCATTTTCCT
** *
5588873 TCTC-TCCCCTTCTTCTTTCTTCC
1 TCTCTTCTTCTTCTTCTCTCTTCC
5588896 TCCTCTCTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
31 35 0.78
32 10 0.22
ACGTcount: A:0.01, C:0.38, G:0.00, T:0.60
Consensus pattern (32 bp):
TCTCTTCTTCTTCTTCTCTCTTCCATTTTCCT
Found at i:5589989 original size:5 final size:5
Alignment explanation
Indices: 5589972--5590052 Score: 57
Period size: 5 Copynumber: 16.8 Consensus size: 5
5589962 TCTTCATTTC
* *
5589972 CTTCT CTTTCT CTTCT C-TC- CTTCT CCTCT CTTC- CGTTTT CTTTCT
1 CTTCT C-TTCT CTTCT CTTCT CTTCT CTTCT CTTCT C-TTCT C-TTCT
* *
5590017 CTTCT TTTC- CTTTT CTTCT CTTCT CTTC- C-TCT CTTC
1 CTTCT CTTCT CTTCT CTTCT CTTCT CTTCT CTTCT CTTC
5590053 CACTTTCCTC
Statistics
Matches: 59, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
3 3 0.05
4 9 0.15
5 37 0.63
6 10 0.17
ACGTcount: A:0.00, C:0.40, G:0.01, T:0.59
Consensus pattern (5 bp):
CTTCT
Found at i:5590017 original size:40 final size:40
Alignment explanation
Indices: 5589968--5590045 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 40
5589958 TTCTTCTTCA
5589968 TTTCCTTCTCTTTCTCTT-CTCTCCTTCTCCTCTCTTCCGT
1 TTTCCTTCTC-TTCTCTTCCTCTCCTTCTCCTCTCTTCCGT
* * * * *
5590008 TTTCTTTCTCTTCTTTTCCTTTTCTTCTCTTCTCTTCC
1 TTTCCTTCTCTTCTCTTCCTCTCCTTCTCCTCTCTTCC
5590046 TCTCTTCCAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 6 0.19
40 26 0.81
ACGTcount: A:0.00, C:0.38, G:0.01, T:0.60
Consensus pattern (40 bp):
TTTCCTTCTCTTCTCTTCCTCTCCTTCTCCTCTCTTCCGT
Found at i:5590026 original size:21 final size:19
Alignment explanation
Indices: 5589962--5590046 Score: 82
Period size: 19 Copynumber: 4.4 Consensus size: 19
5589952 GCTTGTTTCT
* *
5589962 TCTTCATTTCCTTCTCTTTC
1 TCTTCCTTTTCTTCTC-TTC
* * *
5589982 TCTT-CTCTCCTTCTCCTC
1 TCTTCCTTTTCTTCTCTTC
5590000 TCTTCCGTTTTCTTTCTCTTC
1 TCTTCC-TTTTC-TTCTCTTC
*
5590021 TTTTCCTTTTCTTCTCTTC
1 TCTTCCTTTTCTTCTCTTC
5590040 TCTTCCT
1 TCTTCCT
5590047 CTCTTCCACT
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
18 6 0.11
19 24 0.44
20 12 0.22
21 12 0.22
ACGTcount: A:0.01, C:0.38, G:0.01, T:0.60
Consensus pattern (19 bp):
TCTTCCTTTTCTTCTCTTC
Found at i:5590099 original size:24 final size:24
Alignment explanation
Indices: 5590009--5590102 Score: 65
Period size: 24 Copynumber: 4.1 Consensus size: 24
5589999 CTCTTCCGTT
5590009 TTCTTTC-TCTTCTT-TTC-CTT-
1 TTCTTTCTTCTTCTTCTTCTCTTC
*
5590029 TTCTTCTCTTC-TCTTCCTCTCTTC
1 TTCTT-TCTTCTTCTTCTTCTCTTC
** * * * *
5590053 CACTTTCCTCCTCTCACAT-TCTTC
1 TTCTTTCTTCTTCT-TCTTCTCTTC
5590077 TTCTTTCTTCTTCTTCTTCTCTTC
1 TTCTTTCTTCTTCTTCTTCTCTTC
5590101 TT
1 TT
5590103 TGGCTTTCTC
Statistics
Matches: 54, Mismatches: 12, Indels: 12
0.69 0.15 0.15
Matches are distributed among these distances:
20 5 0.09
21 6 0.11
22 4 0.07
23 9 0.17
24 28 0.52
25 2 0.04
ACGTcount: A:0.03, C:0.37, G:0.00, T:0.60
Consensus pattern (24 bp):
TTCTTTCTTCTTCTTCTTCTCTTC
Found at i:5591894 original size:21 final size:21
Alignment explanation
Indices: 5591868--5591910 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
5591858 CTCTTCCTTC
5591868 TCTCCTTCTCCTTGGCTCTCT
1 TCTCCTTCTCCTTGGCTCTCT
* *
5591889 TCTCCTTCTCCTTTGCTTTCT
1 TCTCCTTCTCCTTGGCTCTCT
5591910 T
1 T
5591911 TCTCTTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.07, T:0.53
Consensus pattern (21 bp):
TCTCCTTCTCCTTGGCTCTCT
Found at i:5601052 original size:31 final size:31
Alignment explanation
Indices: 5601015--5601082 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
5601005 TTTCTCATCC
*
5601015 ATATATA-ATTATTTAATATATA-GTATTATAT
1 ATATATATATTA-GTAATATATATGTA-TATAT
*
5601046 ATATATATATTAGTAGTATATATGTATATAT
1 ATATATATATTAGTAATATATATGTATATAT
*
5601077 ACATAT
1 ATATAT
5601083 CACATCATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 25 0.78
32 7 0.22
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (31 bp):
ATATATATATTAGTAATATATATGTATATAT
Found at i:5601056 original size:29 final size:28
Alignment explanation
Indices: 5601015--5601082 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
5601005 TTTCTCATCC
5601015 ATATATAAT-TATTTAATA-TATAGTAT-T
1 ATATATAATATA-TTAATAGTATA-TATGT
*
5601042 ATATATATATATATTAGTAGTATATATGT
1 ATATATA-ATATATTAATAGTATATATGT
5601071 ATATATACATAT
1 ATATATA-ATAT
5601083 CACATCATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 7 0.20
28 10 0.29
29 18 0.51
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (28 bp):
ATATATAATATATTAATAGTATATATGT
Found at i:5601065 original size:21 final size:21
Alignment explanation
Indices: 5601030--5601076 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
5601020 TAATTATTTA
*
5601030 ATATA-TAGTATTATATATAT
1 ATATATTAGTAGTATATATAT
*
5601050 ATATATTAGTAGTATATATGT
1 ATATATTAGTAGTATATATAT
5601071 ATATAT
1 ATATAT
5601077 ACATATCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (21 bp):
ATATATTAGTAGTATATATAT
Found at i:5601133 original size:2 final size:2
Alignment explanation
Indices: 5601126--5601184 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
5601116 ATCAATACAT
*
5601126 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
5601168 TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC T
5601185 GTGCATCTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:5607737 original size:8 final size:8
Alignment explanation
Indices: 5607726--5607788 Score: 56
Period size: 8 Copynumber: 7.5 Consensus size: 8
5607716 TCATTAATTT
5607726 ATTATTAA
1 ATTATTAA
5607734 ATTATTAA
1 ATTATTAA
*
5607742 TATTTTTAA
1 -ATTATTAA
5607751 TTTATTATTAA
1 ---ATTATTAA
5607762 ATTATTAA
1 ATTATTAA
* *
5607770 ATAATT-T
1 ATTATTAA
5607777 ATTATTAA
1 ATTATTAA
5607785 ATTA
1 ATTA
5607789 GTTATATGAT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
7 5 0.11
8 25 0.56
9 7 0.16
11 8 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
ATTATTAA
Found at i:5607744 original size:28 final size:27
Alignment explanation
Indices: 5607712--5607788 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 27
5607702 ATTTTCATTA
5607712 AATATCATTAATTTATTATTAAATTATT
1 AATAT-ATTAATTTATTATTAAATTATT
*
5607740 AATATTTTTAATTTATTATTAAATTATT
1 AATA-TATTAATTTATTATTAAATTATT
5607768 -A-A-A-TAATTTATTATTAAATTA
1 AATATATTAATTTATTATTAAATTA
5607789 GTTATATGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
23 18 0.39
26 1 0.02
27 1 0.02
28 25 0.54
29 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (27 bp):
AATATATTAATTTATTATTAAATTATT
Found at i:5607759 original size:20 final size:21
Alignment explanation
Indices: 5607734--5607794 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 21
5607724 TTATTATTAA
5607734 ATTATTAATATT-TT-TAATTT
1 ATTATTAA-ATTATTATAATTT
5607754 ATTATTAAATTATTAAATAATTT
1 ATTATTAAATTATT--ATAATTT
5607777 ATTATTAAATTAGTTATA
1 ATTATTAAATTA-TTATA
5607795 TGATTTTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
19 3 0.08
20 10 0.28
22 3 0.08
23 18 0.50
24 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTATTAAATTATTATAATTT
Found at i:5607793 original size:12 final size:11
Alignment explanation
Indices: 5607708--5607793 Score: 58
Period size: 11 Copynumber: 8.2 Consensus size: 11
5607698 TTTTATTTTC
*
5607708 ATTAAA-TATC
1 ATTAAATTATT
*
5607718 ATTAATTTATT
1 ATTAAATTATT
5607729 ATT-AA--ATT
1 ATTAAATTATT
5607737 ATT-AA-TATT
1 ATTAAATTATT
* *
5607746 TTTAATTTATT
1 ATTAAATTATT
5607757 ATTAAATTATT
1 ATTAAATTATT
* *
5607768 AAATAATTTATT
1 -ATTAAATTATT
5607780 ATTAAATTAGTT
1 ATTAAATTA-TT
5607792 AT
1 AT
5607794 ATGATTTTTA
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
8 8 0.14
9 5 0.08
10 7 0.12
11 26 0.44
12 13 0.22
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (11 bp):
ATTAAATTATT
Found at i:5607912 original size:22 final size:23
Alignment explanation
Indices: 5607887--5607935 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
5607877 AACATCAATC
5607887 ATTTA-ATATAAATTA-TTAAATA
1 ATTTATAT-TAAATTAGTTAAATA
*
5607909 ATTTATATTAAATTAGTTATATA
1 ATTTATATTAAATTAGTTAAATA
5607932 ATTT
1 ATTT
5607936 TTACTTTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
ATTTATATTAAATTAGTTAAATA
Found at i:5607993 original size:133 final size:137
Alignment explanation
Indices: 5607750--5608011 Score: 365
Period size: 133 Copynumber: 1.9 Consensus size: 137
5607740 AATATTTTTA
* * *
5607750 ATTTATTATTAAATTATTAAATAATTTATTATTAAATTAGTTATATGATTTTTAATTTTAACAAT
1 ATTTAATATTAAATTATTAAATAATTTATTATTAAATTAGTTATATAATTTTTAACTTTAACAAT
5607815 TTGAATCATTTTTCTCCATTTGTATTTTTCATGTCTTAATCTTTTAATTTAC-ATTTTCATTAAA
66 TTGAATCATTTTTCTCCATTTGTATTTTTCATGTCTTAATCTTTTAATTT-CTATTTTCATTAAA
5607879 CATCAATC
130 CATCAATC
* **
5607887 ATTTAATA-TAAATTATTAAATAATTTA-TATTAAATTAGTTATATAATTTTT-ACTTTCATTAT
1 ATTTAATATTAAATTATTAAATAATTTATTATTAAATTAGTTATATAATTTTTAACTTTAACAAT
* * * * *
5607949 TTGAGT-ATTTTTCTCTATTTGTATTTTTTTAT-TTTTAATGTTTTAATTTCTATTTTCATTAAA
66 TTGAATCATTTTTCTCCATTTGTA-TTTTTCATGTCTTAATCTTTTAATTTCTATTTTCATTAAA
5608012 AATTAAAAAT
Statistics
Matches: 112, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
132 1 0.01
133 43 0.38
134 19 0.17
135 23 0.21
136 19 0.17
137 7 0.06
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (137 bp):
ATTTAATATTAAATTATTAAATAATTTATTATTAAATTAGTTATATAATTTTTAACTTTAACAAT
TTGAATCATTTTTCTCCATTTGTATTTTTCATGTCTTAATCTTTTAATTTCTATTTTCATTAAAC
ATCAATC
Found at i:5613599 original size:70 final size:66
Alignment explanation
Indices: 5613517--5613645 Score: 186
Period size: 70 Copynumber: 1.9 Consensus size: 66
5613507 TTAAACTAGT
* * * *
5613517 CACATGTGAATAAAAGAAGCCACAAACGTGGCCAAGTGTGTGGGCTTCTTTTTAAGCATGTAAAA
1 CACATGTCAATAAAAGAAGCCACAAACATGGCCAA---AGT-GGCTTCCTTTTAAGCATGTAAAA
5613582 TTAGG
62 TTAGG
5613587 CACATGTCAATAAAAGAAGCCACAAACATGGCCAAAGTGGCTTCCTTTTAAGCATGTAA
1 CACATGTCAATAAAAGAAGCCACAAACATGGCCAAAGTGGCTTCCTTTTAAGCATGTAA
5613646 TGATTTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
66 20 0.36
67 2 0.04
70 33 0.60
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (66 bp):
CACATGTCAATAAAAGAAGCCACAAACATGGCCAAAGTGGCTTCCTTTTAAGCATGTAAAATTAG
G
Found at i:5615012 original size:33 final size:33
Alignment explanation
Indices: 5614971--5615044 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 33
5614961 ATTATCATAT
* *
5614971 TAAATTAATATATCATGTCATTATTC-ATTATGA
1 TAAATTAATATATCATATCATTA-CCGATTATGA
5615004 TAAATTAATATATCATATCATTACCGATTATGA
1 TAAATTAATATATCATATCATTACCGATTATGA
*
5615037 TACATTAA
1 TAAATTAA
5615045 CATGCTACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 1 0.03
33 36 0.97
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (33 bp):
TAAATTAATATATCATATCATTACCGATTATGA
Found at i:5615149 original size:18 final size:19
Alignment explanation
Indices: 5615107--5615151 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
5615097 ACCAATAATA
*
5615107 TAAAAAAAATTTAATTTTT
1 TAAAAAAAATTTAAATTTT
* *
5615126 TGAAAATAA-TTAAATTTT
1 TAAAAAAAATTTAAATTTT
5615144 TAAAAAAA
1 TAAAAAAA
5615152 TATTATGTCA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
TAAAAAAAATTTAAATTTT
Found at i:5617196 original size:2 final size:2
Alignment explanation
Indices: 5617191--5617237 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
5617181 CGCACACATT
5617191 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5617233 TA TA T
1 TA TA T
5617238 TGCAATTCGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5624598 original size:29 final size:29
Alignment explanation
Indices: 5624564--5624619 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
5624554 ATTTATGAAA
*
5624564 ATTTAAAT-AAATTTTTATTTTTTTATTAC
1 ATTT-AATCAAATTTTTATATTTTTATTAC
5624593 ATTTAATCAAATTTTTATATTTTTATT
1 ATTTAATCAAATTTTTATATTTTTATT
5624620 TTTTATCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (29 bp):
ATTTAATCAAATTTTTATATTTTTATTAC
Found at i:5624723 original size:44 final size:44
Alignment explanation
Indices: 5624656--5624746 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
5624646 ATGGTTGATT
*
5624656 AAATTAATTAAAATGTCACGTGACTTAATGTGCCATTAATGAGA
1 AAATTAATTAAAATGTCACGTGACTTAATGAGCCATTAATGAGA
* * *
5624700 AAATTAATTAAAATGTCATGTGACTTAATGAGTCATTTATGAGA
1 AAATTAATTAAAATGTCACGTGACTTAATGAGCCATTAATGAGA
5624744 AAA
1 AAA
5624747 GTAAAAATGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (44 bp):
AAATTAATTAAAATGTCACGTGACTTAATGAGCCATTAATGAGA
Found at i:5629336 original size:24 final size:24
Alignment explanation
Indices: 5629295--5629340 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
5629285 TGTTAGAATT
*
5629295 AAATCAACATATAAAAAATAATGGA
1 AAATCAACACATAAAAAA-AATGGA
*
5629320 AAAT-AACACATATAAAAAATG
1 AAATCAACACATAAAAAAAATG
5629341 AAATAGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 11 0.58
25 4 0.21
ACGTcount: A:0.65, C:0.09, G:0.07, T:0.20
Consensus pattern (24 bp):
AAATCAACACATAAAAAAAATGGA
Found at i:5646456 original size:75 final size:76
Alignment explanation
Indices: 5646325--5646488 Score: 233
Period size: 75 Copynumber: 2.2 Consensus size: 76
5646315 AATCTACGTA
* * * *
5646325 TCATTACTCGTTA-TCTATTACTTGGTACTTGTTTATTAAATTTTATGTCTGCATATCGTTATCT
1 TCATTAC-CGTTACTCTATTACTTGGTACTCGTTTATCAAATTTTATATCTACATATCGTTATCT
*
5646389 GTTATTCGTTAC
65 GTTATCCGTTAC
* *
5646401 TCATTACCGTTACT-TGTTACTTGTTACTCGTTTATCAAATTTTATATCTACATATCGTTATCTG
1 TCATTACCGTTACTCTATTACTTGGTACTCGTTTATCAAATTTTATATCTACATATCGTTATCTG
5646465 TTATCCGTTAC
66 TTATCCGTTAC
*
5646476 TCGTTACCGTTAC
1 TCATTACCGTTAC
5646489 CCGTTTATTA
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
75 71 0.90
76 8 0.10
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.49
Consensus pattern (76 bp):
TCATTACCGTTACTCTATTACTTGGTACTCGTTTATCAAATTTTATATCTACATATCGTTATCTG
TTATCCGTTAC
Found at i:5665530 original size:23 final size:23
Alignment explanation
Indices: 5665504--5665565 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
5665494 TTAAATCACA
5665504 TAAATTTTTAA-AAAAATTAAAAT
1 TAAATTTTTAATAAAAATT-AAAT
* ** *
5665527 TAAATTATTAATAATGATTAACT
1 TAAATTTTTAATAAAAATTAAAT
5665550 TAAATTTTTATATAAA
1 TAAATTTTTA-ATAAA
5665566 TTTTAACTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
23 22 0.71
24 9 0.29
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
TAAATTTTTAATAAAAATTAAAT
Found at i:5666089 original size:18 final size:20
Alignment explanation
Indices: 5666033--5666092 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
5666023 AGATGTCTAA
*
5666033 AATAATTATTTGAAATGAAAT
1 AATAATTATTTG-AATAAAAT
*
5666054 TATAATTATTTGAATAAAAT
1 AATAATTATTTGAATAAAAT
5666074 AATAA-TATTT-AATAAAAT
1 AATAATTATTTGAATAAAAT
5666092 A
1 A
5666093 TTCTATTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.25
19 5 0.14
20 11 0.31
21 11 0.31
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (20 bp):
AATAATTATTTGAATAAAAT
Found at i:5668823 original size:13 final size:14
Alignment explanation
Indices: 5668807--5668835 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
5668797 TTTGGTAAAT
5668807 TTCTTTTT-ATAAG
1 TTCTTTTTAATAAG
5668820 TTCTTTTTAATAAG
1 TTCTTTTTAATAAG
5668834 TT
1 TT
5668836 ATAATTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.62
Consensus pattern (14 bp):
TTCTTTTTAATAAG
Found at i:5669342 original size:16 final size:16
Alignment explanation
Indices: 5669296--5669344 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
5669286 GAGCACTTAT
5669296 TTTTTAAAAATTAATAAA
1 TTTTT-AAAATTAAT-AA
* *
5669314 TTTATATAA-TAATAA
1 TTTTTAAAATTAATAA
5669329 TTTTTAAAATTAATAA
1 TTTTTAAAATTAATAA
5669345 AAAATAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 9 0.35
16 10 0.38
17 3 0.12
18 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTTTAAAATTAATAA
Found at i:5708061 original size:38 final size:38
Alignment explanation
Indices: 5708018--5708093 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
5708008 TTGAAAATAT
5708018 AATTGACATATTTAAATTATATTTGATTCATAAAGTGA
1 AATTGACATATTTAAATTATATTTGATTCATAAAGTGA
* *
5708056 AATTGACATCTTTAAATTATATTTGATTCATAACGTGA
1 AATTGACATATTTAAATTATATTTGATTCATAAAGTGA
5708094 CATAAATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (38 bp):
AATTGACATATTTAAATTATATTTGATTCATAAAGTGA
Found at i:5708081 original size:20 final size:20
Alignment explanation
Indices: 5708015--5708081 Score: 50
Period size: 20 Copynumber: 3.5 Consensus size: 20
5708005 CATTTGAAAA
*
5708015 TATAATTGACATATTTAAAT
1 TATAATTGACATCTTTAAAT
* * *
5708035 TATATTTGA-TTC-ATAAAGT
1 TATAATTGACATCTTTAAA-T
*
5708054 GA-AATTGACATCTTTAAAT
1 TATAATTGACATCTTTAAAT
*
5708073 TATATTTGA
1 TATAATTGA
5708082 TTCATAACGT
Statistics
Matches: 33, Mismatches: 10, Indels: 8
0.65 0.20 0.16
Matches are distributed among these distances:
18 9 0.27
19 7 0.21
20 17 0.52
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (20 bp):
TATAATTGACATCTTTAAAT
Found at i:5709240 original size:23 final size:23
Alignment explanation
Indices: 5709197--5709242 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
5709187 CTTTAAGTTT
* *
5709197 TTAATTTTATAATAATAATATAA
1 TTAATTATATAAAAATAATATAA
5709220 TTAATTATATTAAAAAT-ATATAA
1 TTAATTATA-TAAAAATAATATAA
5709243 AAATTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TTAATTATATAAAAATAATATAA
Found at i:5709654 original size:19 final size:21
Alignment explanation
Indices: 5709622--5709663 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
5709612 CTTTTGAATT
*
5709622 TTTTTTATCATTTACTCTTTC
1 TTTTTTATCATTTAATCTTTC
5709643 TTTTTTA-C-TTTAATCTTTC
1 TTTTTTATCATTTAATCTTTC
5709662 TT
1 TT
5709664 CAAATAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 1 0.05
21 7 0.35
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTTTATCATTTAATCTTTC
Found at i:5714352 original size:68 final size:68
Alignment explanation
Indices: 5714243--5714369 Score: 245
Period size: 68 Copynumber: 1.9 Consensus size: 68
5714233 CTTAATAATT
5714243 CAGGTAAAATGCTCCTAATTAGTACCATGATATAAAATTGGTCAGAGTCATTGGCATTCAGAAAA
1 CAGGTAAAATGCTCCTAATTAGTACCATGATATAAAATTGGTCAGAGTCATTGGCATTCAGAAAA
5714308 ATC
66 ATC
*
5714311 CAGGTAAAATGCTCCTAATTAGTACCATGATATAAAGTTGGTCAGAGTCATTGGCATTC
1 CAGGTAAAATGCTCCTAATTAGTACCATGATATAAAATTGGTCAGAGTCATTGGCATTC
5714370 TTGCCAGCTA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 58 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (68 bp):
CAGGTAAAATGCTCCTAATTAGTACCATGATATAAAATTGGTCAGAGTCATTGGCATTCAGAAAA
ATC
Found at i:5747071 original size:18 final size:18
Alignment explanation
Indices: 5747030--5747073 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
5747020 TGGCTGAACA
*
5747030 GGCTCTTCTTCATCCTCT
1 GGCTCTTCTTCATCCTCG
* *
5747048 GCCTCTTCTTCATCTTCG
1 GGCTCTTCTTCATCCTCG
5747066 GGCTCTTC
1 GGCTCTTC
5747074 ATCTTCTACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.05, C:0.39, G:0.14, T:0.43
Consensus pattern (18 bp):
GGCTCTTCTTCATCCTCG
Found at i:5749874 original size:2 final size:2
Alignment explanation
Indices: 5749867--5749896 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
5749857 CTTTGTTCCA
5749867 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
5749897 CTATTAGTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5755497 original size:4 final size:4
Alignment explanation
Indices: 5755488--5755513 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
5755478 GTATAATTGG
5755488 TAGC TAGC TAGC TAGC TAGC TAGC TA
1 TAGC TAGC TAGC TAGC TAGC TAGC TA
5755514 CGTACCTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (4 bp):
TAGC
Found at i:5756719 original size:6 final size:6
Alignment explanation
Indices: 5756705--5756738 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
5756695 GGACACAGAT
*
5756705 TCTCTC TCTCCC TCTCCC TCTCCC TCTCCC TCTC
1 TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCTC
5756739 TCCATAATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
TCTCCC
Found at i:5758426 original size:10 final size:10
Alignment explanation
Indices: 5758411--5758440 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
5758401 TGCACGGCCA
5758411 CCTCTCTCTC
1 CCTCTCTCTC
5758421 CCTCTCTCTC
1 CCTCTCTCTC
*
5758431 TCTCTCTCTC
1 CCTCTCTCTC
5758441 GCTTTAGACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (10 bp):
CCTCTCTCTC
Found at i:5766962 original size:20 final size:21
Alignment explanation
Indices: 5766917--5766968 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
5766907 AGTAATTTGA
5766917 CAAAATACTTTAAAAAATCTT
1 CAAAATACTTTAAAAAATCTT
*
5766938 TAAAATA-TTTAAAAAAATC-T
1 CAAAATACTTT-AAAAAATCTT
5766958 CAAAATTACTT
1 CAAAA-TACTT
5766969 CTATTCGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 8 0.31
21 16 0.62
22 2 0.08
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.35
Consensus pattern (21 bp):
CAAAATACTTTAAAAAATCTT
Found at i:5775828 original size:63 final size:64
Alignment explanation
Indices: 5775739--5775865 Score: 211
Period size: 63 Copynumber: 2.0 Consensus size: 64
5775729 TAGTTTGATT
*
5775739 AATTTCTCATTACTTTTGTAATAATATCTTGG-TATCTTTTCGTCTTCAAAGGCCCAAATATAA
1 AATTTCTCATTACTTTTGTAATAATATATTGGTTATCTTTTCGTCTTCAAAGGCCCAAATATAA
* * *
5775802 AATTTCTCATTACTTTTGTATTAATATATTGGTTTTCTTTTCGTCTTCAAAGGTCCAAATATAA
1 AATTTCTCATTACTTTTGTAATAATATATTGGTTATCTTTTCGTCTTCAAAGGCCCAAATATAA
5775866 TCTCATCAGC
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
63 30 0.51
64 29 0.49
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.46
Consensus pattern (64 bp):
AATTTCTCATTACTTTTGTAATAATATATTGGTTATCTTTTCGTCTTCAAAGGCCCAAATATAA
Found at i:5779042 original size:18 final size:18
Alignment explanation
Indices: 5779012--5779058 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
5779002 TGCTTAGTAA
5779012 GAGGGAG-ATAACACTAT
1 GAGGGAGAATAACACTAT
5779029 GAGGGAGAATAACACTAT
1 GAGGGAGAATAACACTAT
5779047 GAGGGAGAATAA
1 GAGGGAGAATAA
5779059 AAAGAGATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 7 0.24
18 22 0.76
ACGTcount: A:0.45, C:0.09, G:0.32, T:0.15
Consensus pattern (18 bp):
GAGGGAGAATAACACTAT
Found at i:5785469 original size:2 final size:2
Alignment explanation
Indices: 5785464--5785501 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
5785454 AAAAAAAAAA
*
5785464 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5785502 CCTCCCCTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5786217 original size:7 final size:7
Alignment explanation
Indices: 5786205--5786229 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
5786195 CCCACTTGCC
5786205 CTCTTCT
1 CTCTTCT
5786212 CTCTTCT
1 CTCTTCT
5786219 CTCTTCT
1 CTCTTCT
5786226 CTCT
1 CTCT
5786230 GAATTATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (7 bp):
CTCTTCT
Found at i:5786680 original size:7 final size:7
Alignment explanation
Indices: 5786665--5786699 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
5786655 TTCCACCCCC
5786665 TCCTCCT
1 TCCTCCT
*
5786672 TCATCCT
1 TCCTCCT
5786679 TCCTCCT
1 TCCTCCT
5786686 TCCTCCT
1 TCCTCCT
5786693 TCCTCCT
1 TCCTCCT
5786700 GCCTATTACC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.03, C:0.54, G:0.00, T:0.43
Consensus pattern (7 bp):
TCCTCCT
Found at i:5795728 original size:52 final size:50
Alignment explanation
Indices: 5795662--5795966 Score: 208
Period size: 52 Copynumber: 5.9 Consensus size: 50
5795652 GTTACTTTTG
* *
5795662 TCATGTTAGAAAAAAAATTATTACATGTCATTAATAAAAAAATTATTATACA
1 TCATGTTA-AAAAAAAATTATTACACGTCA-TAATAAAAAAATTATTACACA
* *
5795714 TCATGTTGAAAAAAAAATTATTACAC-ACTATATTGAAAAAAAATTATTACACA
1 TCATGTT-AAAAAAAAATTATTACACGTC-ATAAT--AAAAAAATTATTACACA
* * * * * *
5795767 TCATATTGAAAAAAAATTATTACATGGCATATTGAAAAAATGTCATTGTTACACA
1 TCATGTTAAAAAAAAATTATTACACGTCATAAT-AAAAAA----ATTATTACACA
* * * ** * * *
5795822 TTATATT--CAAAATGTTGTTACACGTTATACTAAAAAAAATTATTACACA
1 TCATGTTAAAAAAAAATTATTACACGTCATAAT-AAAAAAATTATTACACA
* * **
5795871 TTATGTT-AAAAAAAATTATTACACATCATGTTAAAAAAAATTATTACACA
1 TCATGTTAAAAAAAAATTATTACACGTCATAAT-AAAAAAATTATTACACA
* * *
5795921 GT-ATATTGAAAAAAAAATTATTATACGTCATATTAAAAAAA-TATTA
1 -TCATGTT-AAAAAAAAATTATTACACGTCATAATAAAAAAATTATTA
5795967 TAGTAATCTC
Statistics
Matches: 206, Mismatches: 34, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
49 16 0.08
50 43 0.21
51 18 0.09
52 67 0.33
53 46 0.22
55 16 0.08
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.34
Consensus pattern (50 bp):
TCATGTTAAAAAAAAATTATTACACGTCATAATAAAAAAATTATTACACA
Found at i:5795857 original size:24 final size:24
Alignment explanation
Indices: 5795812--5795857 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
5795802 AAAAATGTCA
* *
5795812 TTGTTACACATTATATTCAAAATG
1 TTGTTACACATTATACTAAAAATG
*
5795836 TTGTTACACGTTATACTAAAAA
1 TTGTTACACATTATACTAAAAA
5795858 AAATTATTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (24 bp):
TTGTTACACATTATACTAAAAATG
Found at i:5795867 original size:25 final size:25
Alignment explanation
Indices: 5795671--5795967 Score: 224
Period size: 25 Copynumber: 11.5 Consensus size: 25
5795661 GTCATGTTAG
5795671 AAAAAAAATTATTACATGTCATTA-A-T
1 AAAAAAAATTATTACA---CATTATATT
* * *
5795697 -AAAAAAATTATTATACATCATGTT
1 AAAAAAAATTATTACACATTATATT
*
5795721 GAAAAAAAAATTATTACACACTATATT
1 --AAAAAAAATTATTACACATTATATT
*
5795748 GAAAAAAAATTATTACACATCATATT
1 -AAAAAAAATTATTACACATTATATT
****
5795774 GAAAAAAAATTATTACATGGCATATT
1 -AAAAAAAATTATTACACATTATATT
* *
5795800 GAAAAAATGTCATTGTTACACATTATATT
1 -AAAAAA---AATTATTACACATTATATT
* ** * * *
5795829 -CAAAATGTTGTTACACGTTATACT
1 AAAAAAAATTATTACACATTATATT
*
5795853 AAAAAAAATTATTACACATTATGTT
1 AAAAAAAATTATTACACATTATATT
* *
5795878 AAAAAAAATTATTACACATCATGTT
1 AAAAAAAATTATTACACATTATATT
*
5795903 AAAAAAAATTATTACACAGTATATT
1 AAAAAAAATTATTACACATTATATT
* * *
5795928 GAAAAAAAAATTATTATACGTCATATT
1 --AAAAAAAATTATTACACATTATATT
5795955 AAAAAAATATTAT
1 AAAAAAA-ATTAT
5795968 AGTAATCTCC
Statistics
Matches: 220, Mismatches: 39, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
22 4 0.02
24 16 0.07
25 84 0.38
26 58 0.26
27 45 0.20
29 13 0.06
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (25 bp):
AAAAAAAATTATTACACATTATATT
Found at i:5797843 original size:15 final size:15
Alignment explanation
Indices: 5797823--5797852 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5797813 CTCTCCTTCA
*
5797823 TTTTTCTATGTAATT
1 TTTTTCTATGAAATT
5797838 TTTTTCTATGAAATT
1 TTTTTCTATGAAATT
5797853 CATAATTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (15 bp):
TTTTTCTATGAAATT
Found at i:5804594 original size:29 final size:34
Alignment explanation
Indices: 5804556--5804635 Score: 98
Period size: 35 Copynumber: 2.5 Consensus size: 34
5804546 TAAGTTTGAT
5804556 AAATATTAATATTTAAC-TT-AAA-A-TAA-TAA
1 AAATATTAATATTTAACTTTAAAACATTAACTAA
* *
5804585 AAATATTAATACTTAACTTTAAAAACATTAACTTA
1 AAATATTAATATTTAACTTT-AAAACATTAACTAA
5804620 AAATATTAATATTTAA
1 AAATATTAATATTTAA
5804636 ATTATTCAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 16 0.38
30 2 0.05
32 3 0.07
33 1 0.02
34 3 0.07
35 17 0.40
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (34 bp):
AAATATTAATATTTAACTTTAAAACATTAACTAA
Found at i:5804628 original size:22 final size:22
Alignment explanation
Indices: 5804568--5804628 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
5804558 ATATTAATAT
* *
5804568 TTAACTTAAAATAATAAAAATA
1 TTAACTTAAAATATTAAAAACA
*
5804590 TTAATACTT-AACT-TTAAAAACA
1 TT-A-ACTTAAAATATTAAAAACA
5804612 TTAACTTAAAATATTAA
1 TTAACTTAAAATATTAA
5804629 TATTTAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
20 4 0.13
21 4 0.13
22 15 0.48
23 4 0.13
24 4 0.13
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (22 bp):
TTAACTTAAAATATTAAAAACA
Found at i:5815299 original size:37 final size:37
Alignment explanation
Indices: 5815244--5815316 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
5815234 CATAAATAAC
*
5815244 TGTTACTTTTCTTGGTCCAAGATAAGTATTGTTTAAT
1 TGTTACTTTTCTCGGTCCAAGATAAGTATTGTTTAAT
*
5815281 TGTTTCTTTTCTCGGTCCAAGATAAGTATTGTTTAA
1 TGTTACTTTTCTCGGTCCAAGATAAGTATTGTTTAA
5815317 CAATAGTGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.23, C:0.12, G:0.16, T:0.48
Consensus pattern (37 bp):
TGTTACTTTTCTCGGTCCAAGATAAGTATTGTTTAAT
Found at i:5816102 original size:2 final size:2
Alignment explanation
Indices: 5816095--5816134 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
5816085 AAAAGTATGC
5816095 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5816135 CCATCATATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5827161 original size:28 final size:28
Alignment explanation
Indices: 5827125--5827208 Score: 150
Period size: 28 Copynumber: 3.0 Consensus size: 28
5827115 TACATGCGAC
* *
5827125 CAATAATATCGTCTTAAGCAACAGTGAA
1 CAATGATATCATCTTAAGCAACAGTGAA
5827153 CAATGATATCATCTTAAGCAACAGTGAA
1 CAATGATATCATCTTAAGCAACAGTGAA
5827181 CAATGATATCATCTTAAGCAACAGTGAA
1 CAATGATATCATCTTAAGCAACAGTGAA
5827209 ATTATTTTGT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (28 bp):
CAATGATATCATCTTAAGCAACAGTGAA
Found at i:5832727 original size:26 final size:23
Alignment explanation
Indices: 5832698--5832745 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
5832688 TTTATAAAAA
5832698 AATTTATAAACTAATAAATTATTTTT
1 AATTTA-AAACTAA-AAA-TATTTTT
*
5832724 AATTTAATACTAAAAATATTTT
1 AATTTAAAACTAAAAATATTTT
5832746 ATAAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.29
24 3 0.14
25 6 0.29
26 6 0.29
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (23 bp):
AATTTAAAACTAAAAATATTTTT
Found at i:5838357 original size:28 final size:28
Alignment explanation
Indices: 5838317--5838399 Score: 166
Period size: 28 Copynumber: 3.0 Consensus size: 28
5838307 GCAAGCCTGC
5838317 TCACAAGCTACTCAGGCTAACTAGAACA
1 TCACAAGCTACTCAGGCTAACTAGAACA
5838345 TCACAAGCTACTCAGGCTAACTAGAACA
1 TCACAAGCTACTCAGGCTAACTAGAACA
5838373 TCACAAGCTACTCAGGCTAACTAGAAC
1 TCACAAGCTACTCAGGCTAACTAGAAC
5838400 GTACTCAGAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.39, C:0.29, G:0.14, T:0.18
Consensus pattern (28 bp):
TCACAAGCTACTCAGGCTAACTAGAACA
Found at i:5840507 original size:11 final size:12
Alignment explanation
Indices: 5840484--5840516 Score: 59
Period size: 11 Copynumber: 2.8 Consensus size: 12
5840474 TCTTACTATC
5840484 TTTCTTTTCTCT
1 TTTCTTTTCTCT
5840496 TTTCTTTT-TCT
1 TTTCTTTTCTCT
5840507 TTTCTTTTCT
1 TTTCTTTTCT
5840517 TCTTCAGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTCTTTTCTCT
Found at i:5844280 original size:15 final size:16
Alignment explanation
Indices: 5844260--5844299 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
5844250 AATTAAAAAG
5844260 TAAAAATATTT-TATT
1 TAAAAATATTTGTATT
* *
5844275 TTAAAATTTTTGTATT
1 TAAAAATATTTGTATT
5844291 TAAAAATAT
1 TAAAAATAT
5844300 ATAATAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TAAAAATATTTGTATT
Found at i:5855742 original size:25 final size:25
Alignment explanation
Indices: 5855712--5855771 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
5855702 GGATGGAAAC
*
5855712 CAACCATAAACCTAACAGCTACCAA
1 CAACCATAAACCTAAAAGCTACCAA
5855737 CAACCATAAACCTAAAAGCTACCAA
1 CAACCATAAACCTAAAAGCTACCAA
5855762 CAACCATAAA
1 CAACCATAAA
5855772 AAGCTGACAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.52, C:0.33, G:0.03, T:0.12
Consensus pattern (25 bp):
CAACCATAAACCTAAAAGCTACCAA
Found at i:5856239 original size:14 final size:14
Alignment explanation
Indices: 5856220--5856247 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5856210 TAGAGCTTTG
5856220 TAATTTGAATCATC
1 TAATTTGAATCATC
5856234 TAATTTGAATCATC
1 TAATTTGAATCATC
5856248 CAACTCACTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
TAATTTGAATCATC
Found at i:5865995 original size:2 final size:2
Alignment explanation
Indices: 5865988--5866013 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5865978 TAATGTTGAA
5865988 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
5866014 TCATGCAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:5878451 original size:26 final size:27
Alignment explanation
Indices: 5878422--5878474 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
5878412 GCAAGTAAGA
* *
5878422 GAGAGGGGGTGGGAGAGA-AGGCAAGG
1 GAGAGGAGGTGGGAGAGACAGGAAAGG
5878448 GAGAGGAGGTGGGAGAGACAGGAAAGG
1 GAGAGGAGGTGGGAGAGACAGGAAAGG
5878475 AAATGCCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.34, C:0.04, G:0.58, T:0.04
Consensus pattern (27 bp):
GAGAGGAGGTGGGAGAGACAGGAAAGG
Found at i:5883293 original size:10 final size:9
Alignment explanation
Indices: 5883275--5883306 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
5883265 ACTTCACTTC
5883275 TTCTTTTTT
1 TTCTTTTTT
5883284 TTCTTTTTT
1 TTCTTTTTT
5883293 TTCTTTTTT
1 TTCTTTTTT
5883302 TTCTT
1 TTCTT
5883307 AACCCACCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:5889326 original size:13 final size:13
Alignment explanation
Indices: 5889308--5889335 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5889298 CGTTTTACCT
5889308 GTTTGAGATTGAC
1 GTTTGAGATTGAC
5889321 GTTTGAGATTGAC
1 GTTTGAGATTGAC
5889334 GT
1 GT
5889336 CTTCATGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.32, T:0.39
Consensus pattern (13 bp):
GTTTGAGATTGAC
Found at i:5895203 original size:2 final size:2
Alignment explanation
Indices: 5895196--5895220 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5895186 AGGCAAATTC
5895196 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
5895221 ACAGTAGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5902961 original size:11 final size:11
Alignment explanation
Indices: 5902945--5902969 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5902935 AAATTAACTC
5902945 TTTTCTAAGTA
1 TTTTCTAAGTA
5902956 TTTTCTAAGTA
1 TTTTCTAAGTA
5902967 TTT
1 TTT
5902970 CTTTGTTGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (11 bp):
TTTTCTAAGTA
Found at i:5909415 original size:33 final size:30
Alignment explanation
Indices: 5909373--5909433 Score: 86
Period size: 33 Copynumber: 1.9 Consensus size: 30
5909363 CATAAAAAAT
5909373 ATTTAATTTTTTACAAAATTAAGAGCTTATTTG
1 ATTTAATTTTTT--AAAATTAAGAG-TTATTTG
*
5909406 ATTTAATTTTTTAAATTTAAGAGTTATT
1 ATTTAATTTTTTAAAATTAAGAGTTATT
5909434 ATAAAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 5 0.19
31 10 0.37
33 12 0.44
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.52
Consensus pattern (30 bp):
ATTTAATTTTTTAAAATTAAGAGTTATTTG
Found at i:5909693 original size:18 final size:17
Alignment explanation
Indices: 5909666--5909717 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
5909656 AGTTTTTCTT
5909666 AAATT-TTTTTTTAAAA
1 AAATTATTTTTTTAAAA
** *
5909682 ATTTTATTTTTTAAAAA
1 AAATTATTTTTTTAAAA
5909699 AAATTAATTTTTTTAAAA
1 AAATT-ATTTTTTTAAAA
5909717 A
1 A
5909718 CTTCTCAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
16 3 0.11
17 13 0.46
18 12 0.43
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AAATTATTTTTTTAAAA
Found at i:5914125 original size:2 final size:2
Alignment explanation
Indices: 5914118--5914161 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
5914108 TGATGATGGC
5914118 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5914160 AT
1 AT
5914162 NNNNNNNNNN
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5914305 original size:2 final size:2
Alignment explanation
Indices: 5914298--5914353 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
5914288 NNNNNNNNNN
5914298 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5914340 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
5914354 TGAGCATTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5917051 original size:33 final size:32
Alignment explanation
Indices: 5916978--5917051 Score: 78
Period size: 32 Copynumber: 2.2 Consensus size: 32
5916968 AATAATCATT
*
5916978 TCATTCATTTTTTTTATTTTTATTATTTTATTA
1 TCATT-ATTTTTTTTATTTTTATCATTTTATTA
** *
5917011 TTTTTATTTTTTTTATTTCTTCTCA-TTTACTTA
1 TCATTATTTTTTTTATTT-TTATCATTTTA-TTA
5917044 TCATTATT
1 TCATTATT
5917052 ACTATATTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
32 17 0.52
33 16 0.48
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (32 bp):
TCATTATTTTTTTTATTTTTATCATTTTATTA
Found at i:5917414 original size:18 final size:18
Alignment explanation
Indices: 5917391--5917425 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5917381 CTATGCATCT
*
5917391 TTACTATTATTTTTATTA
1 TTACTATCATTTTTATTA
5917409 TTACTATCATTTTTATT
1 TTACTATCATTTTTATT
5917426 TTTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TTACTATCATTTTTATTA
Found at i:5917554 original size:252 final size:253
Alignment explanation
Indices: 5917107--5917611 Score: 987
Period size: 252 Copynumber: 2.0 Consensus size: 253
5917097 TTCTTATGTT
5917107 ATATATATATATTTCTCTAAACTATGCATCTTTACTATTATTTTTTATTATTACTATCATTTTTA
1 ATATATATATATTTCTCTAAACTATGCATCTTTACTATTATTTTTTATTATTACTATCATTTTTA
5917172 TTTTTTAATATTAAATATAAGCATTCATATTATATATATATTTCTTTCCTAGAAAAAATAAATGC
66 TTTTTTAATATTAAATATAAGCATTCATATTATATATATATTTCTTTCCTAGAAAAAATAAATGC
5917237 ATTTTAATTACAGTGGGCTAAACCCAGGCAAAAAAAGAAGAGTTATACCTTATTGGGTTGCAATT
131 ATTTTAATTACAGTGGGCTAAACCCAGGCAAAAAAAGAAGAGTTATACCTTATTGGGTTGCAATT
5917302 GGCCCAATTCGGAGACCCACAAAAAGCCCGAGTCTGCTGCACTGGATCTGACTTCCTA
196 GGCCCAATTCGGAGACCCACAAAAAGCCCGAGTCTGCTGCACTGGATCTGACTTCCTA
5917360 NATATATATATA-TTCTCTAAACTATGCATCTTTACTATTA-TTTTTATTATTACTATCATTTTT
1 -ATATATATATATTTCTCTAAACTATGCATCTTTACTATTATTTTTTATTATTACTATCATTTTT
5917423 ATTTTTTAATATTAAATATAAGCATTCATATTATATATATATTTCTTTCCTAGAAAAAATAAATG
65 ATTTTTTAATATTAAATATAAGCATTCATATTATATATATATTTCTTTCCTAGAAAAAATAAATG
5917488 CATTTTAATTACAGTGGGCTAAACCCAGGCAAAAAAAGAAGAGTTATACCTTATTGGGTTGCAAT
130 CATTTTAATTACAGTGGGCTAAACCCAGGCAAAAAAAGAAGAGTTATACCTTATTGGGTTGCAAT
5917553 TGGCCCAATTCGGAGACCCACAAAAAGCCCGAGTCTGCTGCACTGGATCTGACTTCCTA
195 TGGCCCAATTCGGAGACCCACAAAAAGCCCGAGTCTGCTGCACTGGATCTGACTTCCTA
5917612 GGTCCACTAA
Statistics
Matches: 251, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
252 212 0.84
253 28 0.11
254 11 0.04
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (253 bp):
ATATATATATATTTCTCTAAACTATGCATCTTTACTATTATTTTTTATTATTACTATCATTTTTA
TTTTTTAATATTAAATATAAGCATTCATATTATATATATATTTCTTTCCTAGAAAAAATAAATGC
ATTTTAATTACAGTGGGCTAAACCCAGGCAAAAAAAGAAGAGTTATACCTTATTGGGTTGCAATT
GGCCCAATTCGGAGACCCACAAAAAGCCCGAGTCTGCTGCACTGGATCTGACTTCCTA
Found at i:5918408 original size:4 final size:4
Alignment explanation
Indices: 5918401--5918449 Score: 50
Period size: 4 Copynumber: 12.8 Consensus size: 4
5918391 TTTCTCTCTT
* *
5918401 TTTA TTTA TTTA TTTA TTT- TATA TTT- TTTA TTATA TATA TTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA
5918447 TTT
1 TTT
5918450 TATTATTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
3 8 0.22
4 26 0.70
5 3 0.08
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:5918427 original size:25 final size:24
Alignment explanation
Indices: 5918405--5918457 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
5918395 TCTCTTTTTA
*
5918405 TTTATTTAT-T-TATTTTATATTT
1 TTTATTTATATATATTTTTTATTT
5918427 TTTA-TTATATATATTTTTTATTT
1 TTTATTTATATATATTTTTTATTT
5918450 TATTATTT
1 T-TTATTT
5918458 TTTTTTGAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 4 0.15
22 5 0.19
23 12 0.46
24 3 0.12
25 2 0.08
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTATTTATATATATTTTTTATTT
Found at i:5918441 original size:16 final size:15
Alignment explanation
Indices: 5918401--5918460 Score: 70
Period size: 15 Copynumber: 3.9 Consensus size: 15
5918391 TTTCTCTCTT
*
5918401 TTTATTTATTTATTTA
1 TTTATATATTT-TTTA
5918417 TTT-TATATTTTTTA
1 TTTATATATTTTTTA
5918431 TTATATATATTTTTTA
1 TT-TATATATTTTTTA
5918447 TTT-TATTATTTTTT
1 TTTATA-TATTTTTT
5918461 TTTGAGGTGT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
14 8 0.20
15 16 0.40
16 16 0.40
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATATATTTTTTA
Found at i:5918461 original size:16 final size:15
Alignment explanation
Indices: 5918407--5918461 Score: 67
Period size: 16 Copynumber: 3.6 Consensus size: 15
5918397 TCTTTTTATT
*
5918407 TATTTATTTATTTTA
1 TATTTTTTTATTTTA
*
5918422 TA-TTTTTTATTATA
1 TATTTTTTTATTTTA
5918436 TATATTTTTTATTTTA
1 TAT-TTTTTTATTTTA
5918452 TTATTTTTTT
1 -TATTTTTTT
5918462 TTGAGGTGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 12 0.35
15 2 0.06
16 17 0.50
17 3 0.09
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TATTTTTTTATTTTA
Found at i:5918759 original size:62 final size:62
Alignment explanation
Indices: 5918683--5919151 Score: 620
Period size: 62 Copynumber: 7.6 Consensus size: 62
5918673 ATTTCTAGAT
* * * *
5918683 TTAATTTTGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATTGAACTTCCTAAAC
1 TTAATTTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATTAAAATTCTTAAAC
* * * * * *
5918745 TAAATTTAAGCTCGACCTATCTCATAACAGTTTCGATTTAAACAAAATTAAAATTTTTAGAC
1 TTAATTTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATTAAAATTCTTAAAC
* * * * *
5918807 TTAATCTAGGCTTGACCTATCTCACAACAGATTCGATTT--A-AAAATTGAAATTCCTAAAC
1 TTAATTTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATTAAAATTCTTAAAC
* * * *
5918866 TTAATTTAGGCTCGACCTATCTCATAACAGGTTCGATTTTAACAAAATTAAAATTTTTAGAC
1 TTAATTTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATTAAAATTCTTAAAC
* * *
5918928 TTAATCTAGGCTCGACCTATCTCACAACATGTTTGATTTAAACAAAATTAAAATTCTTAAAC
1 TTAATTTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATTAAAATTCTTAAAC
* * * * *
5918990 TAAATTTAGGCTCGACCTATCTCATAACAGGTTCGATTTAAAAAAAATTAAAATTTTTAGAC
1 TTAATTTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATTAAAATTCTTAAAC
* * * * *
5919052 TTAATCTAGGCTCGACTTATCTCACAACAGGTTTGATTAAAACAAAATTAAAATTCCTAAAC
1 TTAATTTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATTAAAATTCTTAAAC
*
5919114 TAAATTTAGGCTCGACCTATCTCACAACAGGTTCGATT
1 TTAATTTAGGCTCGACCTATCTCACAACAGGTTCGATT
5919152 AAATTCTTTA
Statistics
Matches: 347, Mismatches: 57, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
59 50 0.14
60 1 0.00
61 1 0.00
62 295 0.85
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.33
Consensus pattern (62 bp):
TTAATTTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATTAAAATTCTTAAAC
Found at i:5919037 original size:124 final size:124
Alignment explanation
Indices: 5918667--5919151 Score: 760
Period size: 124 Copynumber: 3.9 Consensus size: 124
5918657 AACAAATTCG
* * * *
5918667 ATTAAAATTTCTAGATTTAATTTTGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATT
1 ATTAAAATTTTTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATT
* * * *
5918732 GAACTTCCTAAACTAAATTTAAGCTCGACCTATCTCATAACAGTTTCGATTTAAACAAA
66 AAAATTCCTAAACTAAATTTAGGCTCGACCTATCTCATAACAGGTTCGATTTAAACAAA
* *
5918791 ATTAAAATTTTTAGACTTAATCTAGGCTTGACCTATCTCACAACAGATTCGATTT--A-AAAATT
1 ATTAAAATTTTTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATT
* * *
5918853 GAAATTCCTAAACTTAATTTAGGCTCGACCTATCTCATAACAGGTTCGATTTTAACAAA
66 AAAATTCCTAAACTAAATTTAGGCTCGACCTATCTCATAACAGGTTCGATTTAAACAAA
* *
5918912 ATTAAAATTTTTAGACTTAATCTAGGCTCGACCTATCTCACAACATGTTTGATTTAAACAAAATT
1 ATTAAAATTTTTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATT
* *
5918977 AAAATTCTTAAACTAAATTTAGGCTCGACCTATCTCATAACAGGTTCGATTTAAAAAAA
66 AAAATTCCTAAACTAAATTTAGGCTCGACCTATCTCATAACAGGTTCGATTTAAACAAA
* * *
5919036 ATTAAAATTTTTAGACTTAATCTAGGCTCGACTTATCTCACAACAGGTTTGATTAAAACAAAATT
1 ATTAAAATTTTTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATT
*
5919101 AAAATTCCTAAACTAAATTTAGGCTCGACCTATCTCACAACAGGTTCGATT
66 AAAATTCCTAAACTAAATTTAGGCTCGACCTATCTCATAACAGGTTCGATT
5919152 AAATTCTTTA
Statistics
Matches: 333, Mismatches: 25, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
121 111 0.33
122 1 0.00
123 1 0.00
124 220 0.66
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (124 bp):
ATTAAAATTTTTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATT
AAAATTCCTAAACTAAATTTAGGCTCGACCTATCTCATAACAGGTTCGATTTAAACAAA
Found at i:5923722 original size:33 final size:32
Alignment explanation
Indices: 5923649--5923722 Score: 78
Period size: 32 Copynumber: 2.2 Consensus size: 32
5923639 AATAATCATT
*
5923649 TCATTCATTTTTTTTATTTTTATTATTTTATTA
1 TCATT-ATTTTTTTTATTTTTATCATTTTATTA
** *
5923682 TTTTTATTTTTTTTATTTCTTCTCA-TTTACTTA
1 TCATTATTTTTTTTATTT-TTATCATTTTA-TTA
5923715 TCATTATT
1 TCATTATT
5923723 ACTATATTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
32 17 0.52
33 16 0.48
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (32 bp):
TCATTATTTTTTTTATTTTTATCATTTTATTA
Found at i:5923941 original size:2 final size:2
Alignment explanation
Indices: 5923934--5923969 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
5923924 NNTAATTTCA
5923934 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5923970 TTCTTTTCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5924961 original size:16 final size:15
Alignment explanation
Indices: 5924936--5925007 Score: 72
Period size: 17 Copynumber: 4.5 Consensus size: 15
5924926 TCTTTCTCTC
*
5924936 TTTTTATTTATTTAT
1 TTTTTTTTTATTTAT
5924951 TTTTTATTTTATTATAT
1 TTTTT-TTTTATT-TAT
* *
5924968 ATTTTTTATTATATAT
1 -TTTTTTTTTATTTAT
5924984 TTTTTTTATTATATTAT
1 TTTTTTT-TTAT-TTAT
5925001 TTTTTTT
1 TTTTTTT
5925008 GAGGTGTCTA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
15 11 0.23
16 13 0.28
17 18 0.38
18 5 0.11
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTTTTATTTAT
Found at i:5924976 original size:14 final size:14
Alignment explanation
Indices: 5924957--5925005 Score: 71
Period size: 14 Copynumber: 3.3 Consensus size: 14
5924947 TTATTTTTTA
5924957 TTTTATTATATATT
1 TTTTATTATATATT
5924971 TTTTATTATATATTTT
1 TTTTATTATATA--TT
5924987 TTTTATTATATTATT
1 TTTTATTATA-TATT
5925002 TTTT
1 TTTT
5925006 TTGAGGTGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 12 0.38
15 6 0.19
16 12 0.38
17 2 0.06
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTATTATATATT
Found at i:5925005 original size:19 final size:19
Alignment explanation
Indices: 5924939--5925007 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
5924929 TTCTCTCTTT
5924939 TTAT-TTATTTATTTTTTA
1 TTATATTATTTATTTTTTA
* *
5924957 TTTTATTATATATTTTTTA
1 TTATATTATTTATTTTTTA
5924976 TTATA-TA-TT-TTTTTTA
1 TTATATTATTTATTTTTTA
5924992 TTATATTATTT-TTTTT
1 TTATATTATTTATTTTT
5925008 GAGGTGTCTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
16 12 0.27
17 3 0.07
18 12 0.27
19 17 0.39
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (19 bp):
TTATATTATTTATTTTTTA
Found at i:5930828 original size:26 final size:24
Alignment explanation
Indices: 5930792--5930906 Score: 109
Period size: 26 Copynumber: 4.9 Consensus size: 24
5930782 TTATTTATTT
5930792 TTAAATATTAATAATTTATAATTAA
1 TTAAATATTAAT-ATTTATAATTAA
5930817 TTAAAATATTAATAATTTATAA-T--
1 TT-AAATATTAAT-ATTTATAATTAA
5930840 TTAAATATTAATATTT-TAATATAA
1 TTAAATATTAATATTTATAAT-TAA
* *
5930864 TTTAATTATTAATATTTTTAATTAA
1 -TTAAATATTAATATTTATAATTAA
*
5930889 -T-AATATT-TTATTTATAAT
1 TTAAATATTAATATTTATAAT
5930907 ATATTTTTTT
Statistics
Matches: 79, Mismatches: 4, Indels: 18
0.78 0.04 0.18
Matches are distributed among these distances:
20 3 0.04
21 13 0.16
22 16 0.20
23 3 0.04
25 21 0.27
26 23 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TTAAATATTAATATTTATAATTAA
Found at i:5930868 original size:25 final size:24
Alignment explanation
Indices: 5930791--5930889 Score: 121
Period size: 25 Copynumber: 4.0 Consensus size: 24
5930781 ATTATTTATT
5930791 TTTAAATATTAATAATTTATAATTAA
1 TTTAAATATTAAT-ATTT-TAATTAA
* *
5930817 TTAAAATATTAATAATTT-A-TAA
1 TTTAAATATTAATATTTTAATTAA
5930839 TTTAAATATTAATATTTTAATATAA
1 TTTAAATATTAATATTTTAAT-TAA
*
5930864 TTTAATTATTAATATTTTTAATTAA
1 TTTAAATATTAATA-TTTTAATTAA
5930889 T
1 T
5930890 AATATTTTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
22 19 0.30
23 2 0.03
24 1 0.02
25 23 0.36
26 19 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TTTAAATATTAATATTTTAATTAA
Found at i:5930874 original size:47 final size:47
Alignment explanation
Indices: 5930769--5931028 Score: 146
Period size: 47 Copynumber: 5.4 Consensus size: 47
5930759 ATATTTTTTA
*
5930769 TTAATATATATAATTATTTAT-TTTTAAATATTAATAATTTATAAT-TAAT
1 TTAAT-TAT-TAA-TATTTATAATTTAAATATTAAT-ATTTATAATATAAT
* *
5930818 TAAAATATTAATAATTTATAATTTAAATATTAATATTT-TAATATAAT
1 TTAATTATTAAT-ATTTATAATTTAAATATTAATATTTATAATATAAT
* * *
5930865 TTAATTATTAATATTTTTAATTAATAATATT-TTATTTATAATAT-AT
1 TTAATTATTAATATTTATAATTTA-AATATTAATATTTATAATATAAT
* * * *** *
5930911 TT--TT-TT-TTATTTTTTATTTTTTTATTTATATTTATTAA-A-AAT
1 TTAATTATTAATATTTATAATTTAAATATTAATATTTA-TAATATAAT
* * * *
5930953 TTAATGTATTAATAATTTAATAAATAAAACATTAATAGTTTAAAATATTAATATT
1 TTAAT-TATTAAT-ATTT-ATAATTTAAATATTAATA-TTTATAATA-T-A-A-T
*
5931008 TTAATTATTAATATTAATAAT
1 TTAATTATTAATATTTATAAT
5931029 GTTTAAATTT
Statistics
Matches: 161, Mismatches: 28, Indels: 41
0.70 0.12 0.18
Matches are distributed among these distances:
41 4 0.02
42 21 0.13
43 5 0.03
44 3 0.02
45 1 0.01
46 26 0.16
47 40 0.25
48 20 0.12
49 14 0.09
50 5 0.03
52 4 0.02
53 4 0.02
54 8 0.05
55 6 0.04
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (47 bp):
TTAATTATTAATATTTATAATTTAAATATTAATATTTATAATATAAT
Found at i:5930885 original size:16 final size:16
Alignment explanation
Indices: 5930766--5930897 Score: 70
Period size: 16 Copynumber: 8.8 Consensus size: 16
5930756 AAAATATTTT
* *
5930766 TTATTAATATATATAA
1 TTATTAATATTTTTAA
5930782 TTATT--TATTTTTAA
1 TTATTAATATTTTTAA
* *
5930796 ATATTAATAATTTATAA
1 TTATTAAT-ATTTTTAA
* *
5930813 TTAATTAA-AATATTAA
1 TT-ATTAATATTTTTAA
* * *
5930829 TAATTTATA-ATTTAA
1 TTATTAATATTTTTAA
*
5930844 ATATTAATA-TTTTAA
1 TTATTAATATTTTTAA
5930859 -TA-T-A-A--TTTAA
1 TTATTAATATTTTTAA
5930869 TTATTAATATTTTTAA
1 TTATTAATATTTTTAA
*
5930885 TTAATAATATTTT
1 TTATTAATATTTT
5930898 ATTTATAATA
Statistics
Matches: 88, Mismatches: 17, Indels: 22
0.69 0.13 0.17
Matches are distributed among these distances:
10 5 0.06
11 3 0.03
12 2 0.02
13 2 0.02
14 14 0.16
15 19 0.22
16 30 0.34
17 8 0.09
18 5 0.06
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATTAATATTTTTAA
Found at i:5930889 original size:30 final size:32
Alignment explanation
Indices: 5930855--5930914 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
5930845 TATTAATATT
*
5930855 TTAAT-ATAATTTAATTATTA-ATATTTTTAA
1 TTAATAATAATTTAATTATAATATATTTTTAA
* *
5930885 TTAATAATATTTTATTTATAATATATTTTT
1 TTAATAATAATTTAATTATAATATATTTTT
5930915 TTTTATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 5 0.20
31 12 0.48
32 8 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (32 bp):
TTAATAATAATTTAATTATAATATATTTTTAA
Found at i:5930910 original size:16 final size:15
Alignment explanation
Indices: 5930825--5930930 Score: 64
Period size: 15 Copynumber: 7.1 Consensus size: 15
5930815 AATTAAAATA
*
5930825 TTAATA-ATTTATAAT
1 TTAATATATTT-TATT
*
5930840 TTAA-ATATTAATATT
1 TTAATATATT-TTATT
*
5930855 TTAATATAATTTAATT
1 TTAATAT-ATTTTATT
*
5930871 ATTAATAT-TTTTA-A
1 -TTAATATATTTTATT
5930885 TTAATAATATTTTATT
1 TTAAT-ATATTTTATT
5930901 TATAATATATTTT-TT
1 T-TAATATATTTTATT
*
5930916 TT--TATTTTTTATT
1 TTAATATATTTTATT
5930929 TT
1 TT
5930931 TTTATTTATA
Statistics
Matches: 73, Mismatches: 8, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
12 7 0.10
13 9 0.12
14 4 0.05
15 26 0.36
16 13 0.18
17 14 0.19
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTAATATATTTTATT
Found at i:5930964 original size:16 final size:16
Alignment explanation
Indices: 5930943--5930973 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5930933 TATTTATATT
5930943 TATTAAAAATTTAATG
1 TATTAAAAATTTAATG
*
5930959 TATTAATAATTTAAT
1 TATTAAAAATTTAAT
5930974 AAATAAAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TATTAAAAATTTAATG
Found at i:5931018 original size:15 final size:15
Alignment explanation
Indices: 5930977--5931022 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
5930967 ATTTAATAAA
*
5930977 TAAAACATTAATAGTT
1 TAAAATATTAATA-TT
5930993 TAAAATATTAATATT
1 TAAAATATTAATATT
* *
5931008 TTAATTATTAATATT
1 TAAAATATTAATATT
5931023 AATAATGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 15 0.56
16 12 0.44
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (15 bp):
TAAAATATTAATATT
Found at i:5932299 original size:16 final size:16
Alignment explanation
Indices: 5932226--5932310 Score: 60
Period size: 16 Copynumber: 5.8 Consensus size: 16
5932216 AAATATTTTA
*
5932226 TAAATT-TTAAAATAT
1 TAAATTATTAATATAT
5932241 T-AA-TATTAATATGAT
1 TAAATTATTAATAT-AT
*
5932256 TAAAATATTAA-A-AT
1 TAAATTATTAATATAT
* *
5932270 T---TTATTTATTTAT
1 TAAATTATTAATATAT
5932283 TAAATTATTAATATAT
1 TAAATTATTAATATAT
*
5932299 TAAATTTTTAAT
1 TAAATTATTAAT
5932311 GAGAATATAT
Statistics
Matches: 54, Mismatches: 7, Indels: 17
0.69 0.09 0.22
Matches are distributed among these distances:
11 5 0.09
13 4 0.07
14 11 0.20
15 4 0.07
16 24 0.44
17 6 0.11
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (16 bp):
TAAATTATTAATATAT
Found at i:5932488 original size:12 final size:13
Alignment explanation
Indices: 5932465--5932494 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
5932455 TAATAAAAGA
5932465 TATTTTTGTTTTT
1 TATTTTTGTTTTT
5932478 TATTTTT-TTTTT
1 TATTTTTGTTTTT
5932490 TATTT
1 TATTT
5932495 CAAAGTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (13 bp):
TATTTTTGTTTTT
Found at i:5949376 original size:254 final size:253
Alignment explanation
Indices: 5948923--5949418 Score: 805
Period size: 254 Copynumber: 2.0 Consensus size: 253
5948913 ACTTAAAGAG
*
5948923 TAAGATTCGAATGATCCCTCTTCAATTATAAAAAAAAAAAAAAAGTTTAGTGCAAAGTGTTGCAG
1 TAAGATTCGAATGATCCCTCTTCAATTATAAAAAAAAAAAAAAAGTTTAGTGCAAAGTGTCGCAG
* * *
5948988 TGCTCAAATATTCACGGGCTGCTATTACTTTGTCTCCTAACTTCGCGAGTTAAGCTCTTATAGGG
66 TGCTCAAATATTCACGGGCTGCTATTAATTGGTCTCCTAACTTCGCGAGTTAAGCTCTTATAAGG
* * *
5949053 CAAATCTTTATACTTGTCTGCTGACTGAGTTTGATTGTATTAAGCAACTAAATGGCAAAGTATAT
131 CAAATCATTATACTTGTCTGCTAACTGAGTTTGATTGTATTAAGCAACTAAATGGCAAAGTACAT
5949118 AAGTTCTGACATTGAAATTAGCATGGAATGCCTAATCTCCAAAGAACCACCTAAAAAA
196 AAGTTCTGACATTGAAATTAGCATGGAATGCCTAATCTCCAAAGAACCACCTAAAAAA
** * * * *
5949176 TAAGATTCG-ATTTTCCCTTCTTCTATTATGAAAAAAAAAAAAAAGTTTAGTGCTAGGTGTCGCA
1 TAAGATTCGAATGATCCC-TCTTCAATTATAAAAAAAAAAAAAAAGTTTAGTGCAAAGTGTCGCA
5949240 GTGCTCAAATATTCACAGGGCTGCTATTAATTGGTCTCCTAACTTCGCGAGTTAAGCTCTTATAA
65 GTGCTCAAATATTCAC-GGGCTGCTATTAATTGGTCTCCTAACTTCGCGAGTTAAGCTCTTATAA
*
5949305 GGTAAATCATTATACTTGTCTGCTAACTGAGTTTGATTGTATTAAGCAACTAAATGGCAAAGTAC
129 GGCAAATCATTATACTTGTCTGCTAACTGAGTTTGATTGTATTAAGCAACTAAATGGCAAAGTAC
* * * *
5949370 ATAAGTTCTGACATTGGAATTAGCATGGAGTGCCTAGTCTCCAAGGAAC
194 ATAAGTTCTGACATTGAAATTAGCATGGAATGCCTAATCTCCAAAGAAC
5949419 AATAGGCTGG
Statistics
Matches: 223, Mismatches: 18, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
252 6 0.03
253 66 0.30
254 151 0.68
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (253 bp):
TAAGATTCGAATGATCCCTCTTCAATTATAAAAAAAAAAAAAAAGTTTAGTGCAAAGTGTCGCAG
TGCTCAAATATTCACGGGCTGCTATTAATTGGTCTCCTAACTTCGCGAGTTAAGCTCTTATAAGG
CAAATCATTATACTTGTCTGCTAACTGAGTTTGATTGTATTAAGCAACTAAATGGCAAAGTACAT
AAGTTCTGACATTGAAATTAGCATGGAATGCCTAATCTCCAAAGAACCACCTAAAAAA
Found at i:5953520 original size:18 final size:18
Alignment explanation
Indices: 5953489--5953523 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
5953479 TATATTTTTA
5953489 TTTTAAATTAAATAATTT
1 TTTTAAATTAAATAATTT
5953507 TTTTATAATT-AATAATT
1 TTTTA-AATTAAATAATT
5953524 AAGTAATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTAAATTAAATAATTT
Found at i:5953627 original size:25 final size:25
Alignment explanation
Indices: 5953567--5953617 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
5953557 CATATTACGT
* * *
5953567 TATTATTTATTATAAAATATTAATA
1 TATTATATAATATAAAAAATTAATA
5953592 TATTATATAATATAAAAAATTAATA
1 TATTATATAATATAAAAAATTAATA
5953617 T
1 T
5953618 TTTAATTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TATTATATAATATAAAAAATTAATA
Found at i:5956725 original size:17 final size:18
Alignment explanation
Indices: 5956705--5956745 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
5956695 TTAATTAAAA
5956705 ATATTTATTTA-TTATAT
1 ATATTTATTTAGTTATAT
*
5956722 ATATTT-TTTAGTTTTAT
1 ATATTTATTTAGTTATAT
5956739 ATATTTA
1 ATATTTA
5956746 ATAATATTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (18 bp):
ATATTTATTTAGTTATAT
Found at i:5957623 original size:28 final size:28
Alignment explanation
Indices: 5957592--5957645 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
5957582 CGTTAAAAGG
*
5957592 TATAAGAAAATAAGCTGTACATGAATAA
1 TATAAGAAAAGAAGCTGTACATGAATAA
* * *
5957620 TATAATAAAAGAAGTTGTACGTGAAT
1 TATAAGAAAAGAAGCTGTACATGAAT
5957646 TGGTACAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.28
Consensus pattern (28 bp):
TATAAGAAAAGAAGCTGTACATGAATAA
Found at i:5957916 original size:35 final size:35
Alignment explanation
Indices: 5957877--5957943 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
5957867 CTGTGTGAAG
5957877 TGAAGTAACACTTCACTTATTATAATTATTTTGTA
1 TGAAGTAACACTTCACTTATTATAATTATTTTGTA
* *
5957912 TGAAGTAACACTTCACTTATTTTAATTGTTTT
1 TGAAGTAACACTTCACTTATTATAATTATTTT
5957944 ACATAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.48
Consensus pattern (35 bp):
TGAAGTAACACTTCACTTATTATAATTATTTTGTA
Found at i:5960100 original size:255 final size:254
Alignment explanation
Indices: 5959649--5960158 Score: 993
Period size: 255 Copynumber: 2.0 Consensus size: 254
5959639 AAAAAACCCT
5959649 TTGAATTTTACCAGAAGAAATAAACAAAAAAAAATATTATGTGAATGATATTTATAGCTCAATGG
1 TTGAATTTTACCAGAAGAAATAAACAAAAAAAAATATTATGTGAATGATATTTATAGCTCAATGG
5959714 CTGGTGGCATTTGGAATCATAATGAAAACAGTTGGGACCAAAACTGTCAATTGGACATGTAGGTC
66 CTGGTGGCATTTGGAATCATAATGAAAACAGTTGGGACCAAAACTGTCAATTGGACATGTAGGTC
5959779 CCCAATTTTAAGTGGCAGTTGCAAGCTACTCAGATAGTATGTTTGATTACCATAATTTCTGTCCA
131 CCCAATTTTAAGTGGCAGTTGCAAGCTACTCAGATAGTATGTTTGATTACCATAATTTCTGTCCA
5959844 AGAATAATAGAAAAAATTGTTTCTACAGAGAAATATATATATATATATATAATCTAANAC
196 AGAATAATAGAAAAAATTGTTTCTACAGAGAAATATATATATATATATATAATCTAA-AC
5959904 TTGAATTTTACCAGAAGAAATAAACAAAAAAAAATATTATGTGAATGATATTTATAGCTCAATGG
1 TTGAATTTTACCAGAAGAAATAAACAAAAAAAAATATTATGTGAATGATATTTATAGCTCAATGG
5959969 CTGGTGGCATTTGGAATCATAATGAAAACAGTTGGGACCAAAACTGTCAATTGGACATGTAGGTC
66 CTGGTGGCATTTGGAATCATAATGAAAACAGTTGGGACCAAAACTGTCAATTGGACATGTAGGTC
5960034 CCCAATTTTAAGTGGCAGTTGCAAGCTACTCAGATAGTATGTTTGATTACCATAATTTCTGTCCA
131 CCCAATTTTAAGTGGCAGTTGCAAGCTACTCAGATAGTATGTTTGATTACCATAATTTCTGTCCA
5960099 AGAATAATAGAAAAAATTGTTTCTACAGAGAAATATATATATATATATATATATTCTAAA
196 AGAATAATAGAAAAAATTGTTTCTACAGAGAAATATATATATATATATATA-A-TCTAAA
5960159 TCAGCTATAG
Statistics
Matches: 253, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
255 246 0.97
256 2 0.01
257 5 0.02
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.31
Consensus pattern (254 bp):
TTGAATTTTACCAGAAGAAATAAACAAAAAAAAATATTATGTGAATGATATTTATAGCTCAATGG
CTGGTGGCATTTGGAATCATAATGAAAACAGTTGGGACCAAAACTGTCAATTGGACATGTAGGTC
CCCAATTTTAAGTGGCAGTTGCAAGCTACTCAGATAGTATGTTTGATTACCATAATTTCTGTCCA
AGAATAATAGAAAAAATTGTTTCTACAGAGAAATATATATATATATATATAATCTAAAC
Found at i:5963532 original size:30 final size:28
Alignment explanation
Indices: 5963490--5963558 Score: 95
Period size: 30 Copynumber: 2.4 Consensus size: 28
5963480 AATTATTTGT
*
5963490 TATAAGAATTTATTTGACTCAAAATAAAAA
1 TATAAGAGTTTATTTGACT-AAAA-AAAAA
5963520 GTATAA-AGTTTATTTGACTAAAAAAAAA
1 -TATAAGAGTTTATTTGACTAAAAAAAAA
5963548 TATAAGAGTTT
1 TATAAGAGTTT
5963559 GATTGTACGC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 5 0.14
28 10 0.28
29 4 0.11
30 12 0.33
31 5 0.14
ACGTcount: A:0.51, C:0.04, G:0.10, T:0.35
Consensus pattern (28 bp):
TATAAGAGTTTATTTGACTAAAAAAAAA
Found at i:5978236 original size:10 final size:9
Alignment explanation
Indices: 5978219--5978315 Score: 53
Period size: 8 Copynumber: 10.8 Consensus size: 9
5978209 TTATTTAAGA
5978219 ATTTTTATT
1 ATTTTTATT
5978228 ATTTGTTATTT
1 ATTT-TTA-TT
*
5978239 ATTATTTTTT
1 ATT-TTTATT
5978249 A-TTTTATT
1 ATTTTTATT
5978257 -TTATTTA-T
1 ATT-TTTATT
5978265 ATTTTT-TT
1 ATTTTTATT
5978273 A-TTTTATT
1 ATTTTTATT
*
5978281 TTATTTTATTT
1 AT-TTTTA-TT
*
5978292 ATATTTATT
1 ATTTTTATT
*
5978301 -TATTTATT
1 ATTTTTATT
*
5978309 TTTTTTA
1 ATTTTTA
5978316 ATTTATGTGT
Statistics
Matches: 70, Mismatches: 6, Indels: 24
0.70 0.06 0.24
Matches are distributed among these distances:
7 4 0.06
8 22 0.31
9 18 0.26
10 15 0.21
11 10 0.14
12 1 0.01
ACGTcount: A:0.22, C:0.00, G:0.01, T:0.77
Consensus pattern (9 bp):
ATTTTTATT
Found at i:5978238 original size:7 final size:7
Alignment explanation
Indices: 5978222--5978321 Score: 55
Period size: 7 Copynumber: 13.7 Consensus size: 7
5978212 TTTAAGAATT
5978222 TTTATTA
1 TTTATTA
*
5978229 TTTGTTA
1 TTTATTA
5978236 TTTATTA
1 TTTATTA
*
5978243 TTTTTTA
1 TTTATTA
5978250 TTTTATTTTA
1 -TTTA--TTA
5978260 TTTA-TA
1 TTTATTA
*
5978266 TTTTTTTA
1 -TTTATTA
5978274 TTTTATT-
1 -TTTATTA
*
5978281 TTATTTTA
1 TT-TATTA
5978289 TTTA-TA
1 TTTATTA
5978295 TTTATTTA
1 TTTA-TTA
5978303 TTTATT-
1 TTTATTA
*
5978309 TTTTTTAA
1 TTTATT-A
5978317 TTTAT
1 TTTAT
5978322 GTGTCTACAG
Statistics
Matches: 72, Mismatches: 10, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
6 15 0.21
7 27 0.38
8 23 0.32
9 4 0.06
10 3 0.04
ACGTcount: A:0.22, C:0.00, G:0.01, T:0.77
Consensus pattern (7 bp):
TTTATTA
Found at i:5978239 original size:14 final size:14
Alignment explanation
Indices: 5978222--5978321 Score: 90
Period size: 14 Copynumber: 7.4 Consensus size: 14
5978212 TTTAAGAATT
*
5978222 TTTATTATTTGTTA
1 TTTATTATTTTTTA
5978236 TTTATTATTTTTTA
1 TTTATTATTTTTTA
5978250 -TT-TTA--TTTTA
1 TTTATTATTTTTTA
5978260 TTTA-TATTTTTTTA
1 TTTATTA-TTTTTTA
5978274 TTTTATT-TTATTTTA
1 -TTTATTATT-TTTTA
5978289 TTTA-TATTTATTTA
1 TTTATTATTT-TTTA
5978303 TTTATT-TTTTTTAA
1 TTTATTATTTTTT-A
5978317 TTTAT
1 TTTAT
5978322 GTGTCTACAG
Statistics
Matches: 73, Mismatches: 1, Indels: 24
0.74 0.01 0.24
Matches are distributed among these distances:
10 5 0.07
11 4 0.05
12 3 0.04
13 7 0.10
14 43 0.59
15 10 0.14
16 1 0.01
ACGTcount: A:0.22, C:0.00, G:0.01, T:0.77
Consensus pattern (14 bp):
TTTATTATTTTTTA
Found at i:5978247 original size:24 final size:23
Alignment explanation
Indices: 5978220--5978315 Score: 94
Period size: 24 Copynumber: 4.3 Consensus size: 23
5978210 TATTTAAGAA
*
5978220 TTTTTATTATTTGTTATTTATTAT
1 TTTTTATTATTTTTTATTTATT-T
*
5978244 TTTTTATT-TTATTTTATTTA-TA
1 TTTTTATTATT-TTTTATTTATTT
*
5978266 TTTTT-TTATTTTAT-TTTATTT
1 TTTTTATTATTTTTTATTTATTT
*
5978287 TATTTA-TATTTATTTATTTATTT
1 TTTTTATTATTT-TTTATTTATTT
5978310 TTTTTA
1 TTTTTA
5978316 ATTTATGTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
20 4 0.07
21 15 0.25
22 9 0.15
23 15 0.25
24 16 0.27
ACGTcount: A:0.21, C:0.00, G:0.01, T:0.78
Consensus pattern (23 bp):
TTTTTATTATTTTTTATTTATTT
Found at i:5978277 original size:29 final size:29
Alignment explanation
Indices: 5978234--5978321 Score: 126
Period size: 29 Copynumber: 3.0 Consensus size: 29
5978224 TATTATTTGT
*
5978234 TATTTATTATTTTTTATTTTATTTTATTTA
1 TATTTATT-TATTTTATTTTATTTTATTTA
*
5978264 TATTTTTTTATTTTATTTTATTTTATTTA
1 TATTTATTTATTTTATTTTATTTTATTTA
5978293 TATTTATTTA-TTTATTTT-TTTTAATTTA
1 TATTTATTTATTTTATTTTATTTT-ATTTA
5978321 T
1 T
5978322 GTGTCTACAG
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
27 4 0.07
28 14 0.26
29 29 0.54
30 7 0.13
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (29 bp):
TATTTATTTATTTTATTTTATTTTATTTA
Found at i:5978319 original size:10 final size:9
Alignment explanation
Indices: 5978219--5978315 Score: 72
Period size: 10 Copynumber: 10.1 Consensus size: 9
5978209 TTATTTAAGA
*
5978219 ATTTTTATT
1 ATTTTTTTT
5978228 ATTTGTTATTT
1 ATTT-TT-TTT
5978239 ATTATTTTTT
1 ATT-TTTTTT
5978249 ATTTTATTTT
1 ATTTT-TTTT
5978259 ATTTATATTTT
1 ATTT-T-TTTT
*
5978270 -TTTATTTT
1 ATTTTTTTT
5978278 ATTTTATTTT
1 ATTTT-TTTT
*
5978288 ATTTATATTT
1 ATTT-TTTTT
*
5978298 A-TTTATTT
1 ATTTTTTTT
5978306 ATTTTTTTT
1 ATTTTTTTT
5978315 A
1 A
5978316 ATTTATGTGT
Statistics
Matches: 74, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
8 10 0.14
9 18 0.24
10 31 0.42
11 14 0.19
12 1 0.01
ACGTcount: A:0.22, C:0.00, G:0.01, T:0.77
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:5982056 original size:23 final size:25
Alignment explanation
Indices: 5982010--5982056 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
5982000 AAAGCCATGA
* *
5982010 CCCCATTTTTATACTACAGGCAGAG
1 CCCCATTTATATACTACAGACAGAG
5982035 CCCCATTTATATA-TACA-ACAGA
1 CCCCATTTATATACTACAGACAGA
5982057 TAAAGGGCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 4 0.20
25 12 0.60
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.28
Consensus pattern (25 bp):
CCCCATTTATATACTACAGACAGAG
Found at i:5983727 original size:67 final size:67
Alignment explanation
Indices: 5983619--5983752 Score: 241
Period size: 67 Copynumber: 2.0 Consensus size: 67
5983609 CATTAGTGAC
* * *
5983619 AAGACAAACAATTAATAGTTAACCAAATTTAGAATCTGAGCCTCATAGGGGGTCTTGCCTAAGTC
1 AAGACAAACAATCAACAGTTAACAAAATTTAGAATCTGAGCCTCATAGGGGGTCTTGCCTAAGTC
5983684 TA
66 TA
5983686 AAGACAAACAATCAACAGTTAACAAAATTTAGAATCTGAGCCTCATAGGGGGTCTTGCCTAAGTC
1 AAGACAAACAATCAACAGTTAACAAAATTTAGAATCTGAGCCTCATAGGGGGTCTTGCCTAAGTC
5983751 TA
66 TA
5983753 CATCTACTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (67 bp):
AAGACAAACAATCAACAGTTAACAAAATTTAGAATCTGAGCCTCATAGGGGGTCTTGCCTAAGTC
TA
Found at i:5987752 original size:8 final size:8
Alignment explanation
Indices: 5987739--5987764 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
5987729 TTTTCACTTT
5987739 TAAATATA
1 TAAATATA
5987747 TAAATATA
1 TAAATATA
5987755 TAAATATA
1 TAAATATA
5987763 TA
1 TA
5987765 CCACATCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TAAATATA
Found at i:5991366 original size:18 final size:18
Alignment explanation
Indices: 5991323--5991366 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
5991313 AAATGTAATT
5991323 TACTTGATATTTTATGAAA
1 TACTT-ATATTTTATGAAA
*
5991342 TAATTATATTTTA-GAAGA
1 TACTTATATTTTATGAA-A
5991360 TACTTAT
1 TACTTAT
5991367 GTAGCAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 15 0.68
19 4 0.18
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.48
Consensus pattern (18 bp):
TACTTATATTTTATGAAA
Done.