Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 127 of 147
Found at i:22908152 original size:87 final size:87
Alignment explanation
Indices: 22907979--22908158 Score: 209
Period size: 87 Copynumber: 2.1 Consensus size: 87
22907969 TATTTATTTG
* * * * ** * * *
22907979 TAAAAGTCGTGGAGCCTCTGTTTAGATGAGCCTTATTTATTTTTCAAAGTTGTTGAGCTTCTGCT
1 TAAAAGTCGTGGAACCTCTGCTTAAAGGAGCCTTATTTATTTTTCAAAGTTCATAAGCCTCTACT
* * ** *
22908044 TATAGGAGCTTTATTTATTTTT
66 GAGAAAAGCTTTAGTTATTTTT
* *
22908066 TAAAAGTCGTTGAACCTCTGCTTAAAGGAGCTTTATTTATTTTTCAAA-TTCATAAGCCTCTACT
1 TAAAAGTCGTGGAACCTCTGCTTAAAGGAGCCTTATTTATTTTTCAAAGTTCATAAGCCTCTACT
22908130 GAGAAAAGCTTTAGTTATTTTT
66 GAGAAAAGCTTTAGTTATTTTT
22908152 TAAAAGT
1 TAAAAGT
22908159 TGTAGAGTCT
Statistics
Matches: 77, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
86 35 0.45
87 42 0.55
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (87 bp):
TAAAAGTCGTGGAACCTCTGCTTAAAGGAGCCTTATTTATTTTTCAAAGTTCATAAGCCTCTACT
GAGAAAAGCTTTAGTTATTTTT
Found at i:22909195 original size:14 final size:14
Alignment explanation
Indices: 22909173--22909206 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
22909163 GAGCCGAGCC
* *
22909173 ATTTCTATTTTGGT
1 ATTTTTATTTTAGT
22909187 ATTTTTATTTTAGT
1 ATTTTTATTTTAGT
22909201 ATTTTT
1 ATTTTT
22909207 CTTAATTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.03, G:0.09, T:0.71
Consensus pattern (14 bp):
ATTTTTATTTTAGT
Found at i:22909915 original size:56 final size:57
Alignment explanation
Indices: 22909848--22909954 Score: 155
Period size: 56 Copynumber: 1.9 Consensus size: 57
22909838 CTATCAAGAG
* *
22909848 TTTTTCTTTTCTAAATAGACCTAAATGGTAAAAA-ATTTAGAAAA-AAAAAACTTAAA
1 TTTTTCTTTTCTAAATAAACCAAAATGGTAAAAATA-TTAGAAAATAAAAAACTTAAA
* *
22909904 TTTTTTTTTTCTAAATAAACCAAAATGGTGAAAATATTAGAAAATAAAAAA
1 TTTTTCTTTTCTAAATAAACCAAAATGGTAAAAATATTAGAAAATAAAAAA
22909955 TAAAAATAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
56 38 0.84
57 7 0.16
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.35
Consensus pattern (57 bp):
TTTTTCTTTTCTAAATAAACCAAAATGGTAAAAATATTAGAAAATAAAAAACTTAAA
Found at i:22912879 original size:19 final size:18
Alignment explanation
Indices: 22912855--22912912 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
22912845 GGTTTTTTAT
22912855 TTAAAGTTTGGTTTAGAG
1 TTAAAGTTTGGTTTAGAG
* *
22912873 TTAAAAGTTTAGTTTAGGG
1 TT-AAAGTTTGGTTTAGAG
* *
22912892 TTTAGGATTTGGTTTAGAG
1 TTAAAG-TTTGGTTTAGAG
22912911 TT
1 TT
22912913 TAAGGTTTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 4 0.12
19 28 0.88
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (18 bp):
TTAAAGTTTGGTTTAGAG
Found at i:22912894 original size:7 final size:7
Alignment explanation
Indices: 22912884--22912998 Score: 78
Period size: 7 Copynumber: 16.7 Consensus size: 7
22912874 TAAAAGTTTA
22912884 GTTTAGG
1 GTTTAGG
22912891 GTTTAGG
1 GTTTAGG
*
22912898 ATTT--G
1 GTTTAGG
*
22912903 GTTTAGA
1 GTTTAGG
*
22912910 GTTTAAG
1 GTTTAGG
*
22912917 GTTTAAG
1 GTTTAGG
22912924 GTTTAGG
1 GTTTAGG
22912931 GTTTAGG
1 GTTTAGG
*
22912938 ATTT--G
1 GTTTAGG
*
22912943 ATTTAGG
1 GTTTAGG
*
22912950 GTTTAGA
1 GTTTAGG
*
22912957 GTTTGATTTG
1 GTTT-A--GG
22912967 GTTTAGG
1 GTTTAGG
*
22912974 GTATAGG
1 GTTTAGG
22912981 GTTT-GG
1 GTTTAGG
*
22912987 GTTTAAG
1 GTTTAGG
22912994 GTTTA
1 GTTTA
22912999 AGATTAAGGT
Statistics
Matches: 85, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
5 9 0.11
6 6 0.07
7 64 0.75
8 1 0.01
9 1 0.01
10 4 0.05
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:22912913 original size:19 final size:19
Alignment explanation
Indices: 22912884--22913003 Score: 98
Period size: 19 Copynumber: 5.9 Consensus size: 19
22912874 TAAAAGTTTA
22912884 GTTTAGGGTTTAGGATTTG
1 GTTTAGGGTTTAGGATTTG
*
22912903 GTTTAGAGTTTAAGG-TTTAAG
1 GTTTAGGGTTT-AGGATTT--G
22912924 GTTTAGGGTTTAGGATTTG
1 GTTTAGGGTTTAGGATTTG
*
22912943 ATTTAGGGTTTAGAGTTTGATTTG
1 GTTTAGGGTTT--AG---GATTTG
* *
22912967 GTTTAGGGTATAGGGTTTGG
1 GTTTAGGGTTTAGGATTT-G
* *
22912987 GTTTAAGGTTTAAGATT
1 GTTTAGGGTTTAGGATT
22913004 AAGGTTTGGG
Statistics
Matches: 81, Mismatches: 10, Indels: 19
0.74 0.09 0.17
Matches are distributed among these distances:
19 28 0.35
20 20 0.25
21 16 0.20
22 2 0.02
24 15 0.19
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (19 bp):
GTTTAGGGTTTAGGATTTG
Found at i:22912921 original size:14 final size:14
Alignment explanation
Indices: 22912864--22912936 Score: 50
Period size: 14 Copynumber: 5.5 Consensus size: 14
22912854 TTTAAAGTTT
*
22912864 GGTTTAGAGTTAAA
1 GGTTTAGAGTTTAA
* *
22912878 AGTTT--AGTTTAG
1 GGTTTAGAGTTTAA
22912890 GGTTTAG-GATTT--
1 GGTTTAGAG-TTTAA
22912902 GGTTTAGAGTTTAA
1 GGTTTAGAGTTTAA
*
22912916 GGTTTA-AGGTTTAG
1 GGTTTAGA-GTTTAA
22912930 GGTTTAG
1 GGTTTAG
22912937 GATTTGATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 15
0.70 0.08 0.23
Matches are distributed among these distances:
12 19 0.41
13 3 0.07
14 24 0.52
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.44
Consensus pattern (14 bp):
GGTTTAGAGTTTAA
Found at i:22912971 original size:24 final size:24
Alignment explanation
Indices: 22912916--22912985 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 24
22912906 TAGAGTTTAA
*
22912916 GGTTTAAGGTTTAGGGTTTAGGATTT
1 GGTTTAGGGTTTAGGGTTT--GATTT
* *
22912942 GATTTAGGGTTTAGAGTTTGATTT
1 GGTTTAGGGTTTAGGGTTTGATTT
*
22912966 GGTTTAGGGTATAGGGTTTG
1 GGTTTAGGGTTTAGGGTTTG
22912986 GGTTTAAGGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 22 0.58
26 16 0.42
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.46
Consensus pattern (24 bp):
GGTTTAGGGTTTAGGGTTTGATTT
Found at i:22913039 original size:15 final size:15
Alignment explanation
Indices: 22913019--22913085 Score: 64
Period size: 15 Copynumber: 4.5 Consensus size: 15
22913009 TTGGGGATAG
*
22913019 GATTTAGGGTTTTAC
1 GATTTAGGGTTTTAA
* *
22913034 GATTTAAGGTTTTAG
1 GATTTAGGGTTTTAA
* *
22913049 GTTTTA-GGATTTAA
1 GATTTAGGGTTTTAA
22913063 GATTTTAGGGTTTTAA
1 GA-TTTAGGGTTTTAA
*
22913079 GGTTTAG
1 GATTTAG
22913086 ATGTAATTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
14 7 0.17
15 27 0.64
16 8 0.19
ACGTcount: A:0.24, C:0.01, G:0.27, T:0.48
Consensus pattern (15 bp):
GATTTAGGGTTTTAA
Found at i:22913047 original size:8 final size:8
Alignment explanation
Indices: 22913036--22913083 Score: 55
Period size: 8 Copynumber: 6.2 Consensus size: 8
22913026 GGTTTTACGA
22913036 TTTAAGGT
1 TTTAAGGT
22913044 TTT-AGGT
1 TTTAAGGT
*
22913051 TTT-AGGA
1 TTTAAGGT
*
22913058 TTTAAGAT
1 TTTAAGGT
*
22913066 TTTAGGGT
1 TTTAAGGT
22913074 TTTAAGGT
1 TTTAAGGT
22913082 TT
1 TT
22913084 AGATGTAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
7 13 0.39
8 20 0.61
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (8 bp):
TTTAAGGT
Found at i:22913053 original size:22 final size:23
Alignment explanation
Indices: 22913021--22913077 Score: 89
Period size: 22 Copynumber: 2.5 Consensus size: 23
22913011 GGGGATAGGA
*
22913021 TTTAGGGTTTTACGATTTAAGGT
1 TTTAGGGTTTTACGATTTAAGAT
*
22913044 TTTA-GGTTTTAGGATTTAAGAT
1 TTTAGGGTTTTACGATTTAAGAT
22913066 TTTAGGGTTTTA
1 TTTAGGGTTTTA
22913078 AGGTTTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 20 0.65
23 11 0.35
ACGTcount: A:0.23, C:0.02, G:0.25, T:0.51
Consensus pattern (23 bp):
TTTAGGGTTTTACGATTTAAGAT
Found at i:22913087 original size:22 final size:23
Alignment explanation
Indices: 22913021--22913084 Score: 78
Period size: 22 Copynumber: 2.8 Consensus size: 23
22913011 GGGGATAGGA
* * *
22913021 TTTAGGGTTTTACGATTTAAGGT
1 TTTAGGGTTTTAAGGTTTAAGAT
22913044 TTTA-GGTTTT-AGGATTTAAGAT
1 TTTAGGGTTTTAAGG-TTTAAGAT
22913066 TTTAGGGTTTTAAGGTTTA
1 TTTAGGGTTTTAAGGTTTA
22913085 GATGTAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
21 1 0.03
22 17 0.49
23 14 0.40
24 3 0.09
ACGTcount: A:0.23, C:0.02, G:0.25, T:0.50
Consensus pattern (23 bp):
TTTAGGGTTTTAAGGTTTAAGAT
Found at i:22913915 original size:55 final size:55
Alignment explanation
Indices: 22913856--22913981 Score: 234
Period size: 55 Copynumber: 2.3 Consensus size: 55
22913846 GAAAATTTAT
22913856 TCAAACACCTAGAAAATATATTTAAAACACTATTTTTTATGGTTAAAAACTTTCA
1 TCAAACACCTAGAAAATATATTTAAAACACTATTTTTTATGGTTAAAAACTTTCA
* *
22913911 TCAAATACCTAGAAAATATATTTAAAACACTATTTTTTATTGTTAAAAACTTTCA
1 TCAAACACCTAGAAAATATATTTAAAACACTATTTTTTATGGTTAAAAACTTTCA
22913966 TCAAACACCTAGAAAA
1 TCAAACACCTAGAAAA
22913982 CTACCGACAT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 68 1.00
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (55 bp):
TCAAACACCTAGAAAATATATTTAAAACACTATTTTTTATGGTTAAAAACTTTCA
Found at i:22914309 original size:10 final size:10
Alignment explanation
Indices: 22914296--22914325 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
22914286 ATCGAGCTTT
22914296 TATATTTTAA
1 TATATTTTAA
22914306 TATATTTTAA
1 TATATTTTAA
22914316 T-TATTTTAA
1 TATATTTTAA
22914325 T
1 T
22914326 TGATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:22915792 original size:3 final size:3
Alignment explanation
Indices: 22915786--22915812 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
22915776 TTTTTACTTA
22915786 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
22915813 TTGCACCTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:22926817 original size:18 final size:19
Alignment explanation
Indices: 22926796--22926837 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
22926786 ATGATTATCA
22926796 TATAATAATTGA-TTAAAT
1 TATAATAATTGATTTAAAT
* *
22926814 TATAATACTTGATTTTAAT
1 TATAATAATTGATTTAAAT
22926833 TATAA
1 TATAA
22926838 CTTAAAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (19 bp):
TATAATAATTGATTTAAAT
Found at i:22927552 original size:14 final size:15
Alignment explanation
Indices: 22927535--22927564 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
22927525 TTATATCATA
22927535 ATTAAATTA-TAATT
1 ATTAAATTATTAATT
22927549 ATTAAATTATTAATT
1 ATTAAATTATTAATT
22927564 A
1 A
22927565 ATATATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTAAATTATTAATT
Found at i:22932708 original size:2 final size:2
Alignment explanation
Indices: 22932701--22932728 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22932691 GTTTAAGTTT
22932701 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
22932729 AAAGTGATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22934270 original size:2 final size:2
Alignment explanation
Indices: 22934263--22934308 Score: 60
Period size: 2 Copynumber: 24.0 Consensus size: 2
22934253 ATTCTTTAAC
*
22934263 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA AA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
22934303 TT TA TA
1 TA TA TA
22934309 AAATCAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22934317 original size:20 final size:23
Alignment explanation
Indices: 22934294--22934357 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
22934284 ATATATATTA
22934294 AATATTATATTTA-T-AA-AATC
1 AATATTATATTTATTAAATAATC
*
22934314 AATAATATA-TTATTAAATAATC
1 AATATTATATTTATTAAATAATC
*
22934336 AATTATTATA-TCATTAAATAAT
1 AA-TATTATATTTATTAAATAAT
22934358 TAATTAATGA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 3 0.08
20 9 0.24
21 2 0.05
22 6 0.16
23 17 0.46
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (23 bp):
AATATTATATTTATTAAATAATC
Found at i:22934345 original size:23 final size:23
Alignment explanation
Indices: 22934310--22934365 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
22934300 ATATTTATAA
*
22934310 AATCAA-TAATATATTATTAAAT
1 AATCAATTAATATATCATTAAAT
*
22934332 AATCAATTATTATATCATTAAAT
1 AATCAATTAATATATCATTAAAT
*
22934355 AATTAATTAAT
1 AATCAATTAAT
22934366 GAACTAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 6 0.21
23 23 0.79
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (23 bp):
AATCAATTAATATATCATTAAAT
Found at i:22935873 original size:18 final size:18
Alignment explanation
Indices: 22935808--22935879 Score: 51
Period size: 18 Copynumber: 4.2 Consensus size: 18
22935798 TATAAAATTA
22935808 ATAAAATTTA-A-TTAA-
1 ATAAAATTTATATTTAAT
* * *
22935823 ATATATTTTATATTTAAC
1 ATAAAATTTATATTTAAT
** * *
22935841 ATGTAATATAAATTTAAT
1 ATAAAATTTATATTTAAT
*
22935859 ATAAAATTTATATTTTAT
1 ATAAAATTTATATTTAAT
22935877 ATA
1 ATA
22935880 TTTTTATATA
Statistics
Matches: 42, Mismatches: 12, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
15 8 0.19
16 1 0.02
17 4 0.10
18 29 0.69
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (18 bp):
ATAAAATTTATATTTAAT
Found at i:22944563 original size:9 final size:9
Alignment explanation
Indices: 22944549--22944575 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
22944539 GTGGGGAGGT
22944549 AGATGCACA
1 AGATGCACA
22944558 AGATGCACA
1 AGATGCACA
22944567 AGATGCACA
1 AGATGCACA
22944576 GCCGAGAAGT
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:0.44, C:0.22, G:0.22, T:0.11
Consensus pattern (9 bp):
AGATGCACA
Found at i:22947502 original size:21 final size:21
Alignment explanation
Indices: 22947478--22947519 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
22947468 AAATATGATG
* *
22947478 CTGACATGAGAAATTAAATTT
1 CTGACACGAGAAACTAAATTT
22947499 CTGACACGAGAAACTAAATTT
1 CTGACACGAGAAACTAAATTT
22947520 ATCTTAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (21 bp):
CTGACACGAGAAACTAAATTT
Found at i:22953823 original size:18 final size:18
Alignment explanation
Indices: 22953800--22953985 Score: 104
Period size: 18 Copynumber: 10.5 Consensus size: 18
22953790 AATTTTACTT
22953800 ATAAATAATATTATATTA
1 ATAAATAATATTATATTA
22953818 ATAAATAATATTATATTA
1 ATAAATAATATTATATTA
* *
22953836 TATTATAA-CATATTA-ATAA
1 -A-TA-AATAATATTATATTA
* * *
22953855 ATATTATAACAATATATTA
1 ATA-AATAATATTATATTA
22953874 ATAAATAATA-TATTATTA
1 ATAAATAATATTA-TATTA
*
22953892 GTAAATAATA-TACTATTA
1 ATAAATAATATTA-TATTA
*
22953910 AT--AT-A-A-TATACTA
1 ATAAATAATATTATATTA
* * *
22953923 ATCAATATTATTA-ATGA
1 ATAAATAATATTATATTA
* *
22953940 ATAATATTATAATATATTA
1 ATAA-ATAATATTATATTA
* * *
22953959 ATAAATAATATAAAAATA
1 ATAAATAATATTATATTA
22953977 ATAAATAAT
1 ATAAATAAT
22953986 TTTACGTTTA
Statistics
Matches: 129, Mismatches: 26, Indels: 26
0.71 0.14 0.14
Matches are distributed among these distances:
13 6 0.05
14 3 0.02
15 3 0.02
16 2 0.02
17 12 0.09
18 76 0.59
19 17 0.13
20 8 0.06
21 2 0.02
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (18 bp):
ATAAATAATATTATATTA
Found at i:22953833 original size:23 final size:23
Alignment explanation
Indices: 22953807--22953969 Score: 81
Period size: 23 Copynumber: 7.0 Consensus size: 23
22953797 CTTATAAATA
22953807 ATATTATATTAATAAATAATATT
1 ATATTATATTAATAAATAATATT
* *
22953830 ATATTATATT-ATAACATATTAATAA
1 ATATTATATTAATAA-ATAAT-AT-T
** * *
22953855 ATATTATAACAATATATTAATA-A
1 ATATTATATTAATA-AATAATATT
*
22953878 ATAATATATTATTAGTAAATAATA-T
1 AT-AT-TA-TATTAATAAATAATATT
*
22953903 ACTATTA-ATATAATATACTAATCA--
1 A-TATTATAT-TAATA-AATAAT-ATT
*
22953927 ATA-T-TATTAATGAATAATATT
1 ATATTATATTAATAAATAATATT
*
22953948 ATAATATATTAATAAATAATAT
1 ATATTATATTAATAAATAATAT
22953970 AAAAATAATA
Statistics
Matches: 107, Mismatches: 16, Indels: 34
0.68 0.10 0.22
Matches are distributed among these distances:
19 1 0.01
20 5 0.05
21 7 0.07
22 10 0.09
23 38 0.36
24 12 0.11
25 21 0.20
26 12 0.11
27 1 0.01
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (23 bp):
ATATTATATTAATAAATAATATT
Found at i:22953850 original size:20 final size:20
Alignment explanation
Indices: 22953825--22953873 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
22953815 TTAATAAATA
22953825 ATATTATATTATATTATAAC
1 ATATTATATTATATTATAAC
*
22953845 ATATTA-ATAAATATTATAAC
1 ATATTATAT-TATATTATAAC
22953865 A-A-TATATTA
1 ATATTATATTA
22953874 ATAAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 3 0.12
19 5 0.20
20 17 0.68
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATTATATTATATTATAAC
Found at i:22953961 original size:44 final size:41
Alignment explanation
Indices: 22953846--22953985 Score: 131
Period size: 41 Copynumber: 3.3 Consensus size: 41
22953836 TATTATAACA
* * *
22953846 TATTAATAAATATTATAACAATATATTAATAAATAATATAT
1 TATTAATAAATAATATTATAATATATTAATAAATAATATAT
* * *
22953887 TATTAGTAAATAATA-TACTATTA-ATATAATATACTAATCAATAT
1 TATTAATAAATAATATTA-TAATATAT-TAATA-AATAAT--ATAT
* *
22953931 TATTAATGAATAATATTATAATATATTAATAAATAATATAA
1 TATTAATAAATAATATTATAATATATTAATAAATAATATAT
* *
22953972 AAATAATAAATAAT
1 TATTAATAAATAAT
22953986 TTTACGTTTA
Statistics
Matches: 78, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
40 3 0.04
41 35 0.45
42 5 0.06
43 5 0.06
44 26 0.33
45 4 0.05
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (41 bp):
TATTAATAAATAATATTATAATATATTAATAAATAATATAT
Found at i:22954086 original size:16 final size:16
Alignment explanation
Indices: 22954044--22954086 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
22954034 ATTATTACTA
*
22954044 AAATATAATTATTTTT
1 AAATATAAATATTTTT
*
22954060 AAATATTAATATTTTT
1 AAATATAAATATTTTT
22954076 -AATAATAAATA
1 AAAT-ATAAATA
22954087 ATTTCATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 3 0.13
16 20 0.87
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AAATATAAATATTTTT
Found at i:22954258 original size:15 final size:14
Alignment explanation
Indices: 22954231--22954257 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22954221 AAAATTTAAA
22954231 TATTTTTTAAAAAT
1 TATTTTTTAAAAAT
22954245 TATTTTTTAAAAA
1 TATTTTTTAAAAA
22954258 ACAAACGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TATTTTTTAAAAAT
Found at i:22954416 original size:16 final size:16
Alignment explanation
Indices: 22954380--22954418 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
22954370 TTGGTTGAAT
*
22954380 TAATAAAGTTATAATA
1 TAATCAAGTTATAATA
22954396 TAATCAAGTTATAATA
1 TAATCAAGTTATAATA
22954412 TAATCAA
1 TAATCAA
22954419 TTAATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (16 bp):
TAATCAAGTTATAATA
Found at i:22957582 original size:2 final size:2
Alignment explanation
Indices: 22957571--22957604 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
22957561 TTTTAATTGC
*
22957571 AT AT -T AT AT AT AT AT AT AT CT 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 A
22957605 CGTATTTACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22960600 original size:10 final size:10
Alignment explanation
Indices: 22960574--22960611 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
22960564 TGCTCTATTA
*
22960574 TTTTCTTTGCC
1 TTTTTTTTG-C
22960585 TTTTTTTTG-
1 TTTTTTTTGC
22960594 TTTTTTTTGC
1 TTTTTTTTGC
22960604 TTTTTTTT
1 TTTTTTTT
22960612 TTCCTTCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 9 0.36
10 8 0.32
11 8 0.32
ACGTcount: A:0.00, C:0.11, G:0.08, T:0.82
Consensus pattern (10 bp):
TTTTTTTTGC
Found at i:22960612 original size:20 final size:20
Alignment explanation
Indices: 22960574--22960611 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
22960564 TGCTCTATTA
22960574 TTTTCTTTGCCTTTTTTTTG
1 TTTTCTTTGCCTTTTTTTTG
*
22960594 TTTTTTTTG-CTTTTTTTT
1 TTTTCTTTGCCTTTTTTTT
22960612 TTCCTTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.00, C:0.11, G:0.08, T:0.82
Consensus pattern (20 bp):
TTTTCTTTGCCTTTTTTTTG
Found at i:22961078 original size:21 final size:22
Alignment explanation
Indices: 22961054--22961095 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
22961044 AATTTTTTAC
*
22961054 TTTTTTTTTAGATTT-TTCAAG
1 TTTTTGTTTAGATTTATTCAAG
*
22961075 TTTTTGTTTGGATTTATTCAA
1 TTTTTGTTTAGATTTATTCAA
22961096 ATTTCTCAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.19, C:0.05, G:0.12, T:0.64
Consensus pattern (22 bp):
TTTTTGTTTAGATTTATTCAAG
Found at i:22963113 original size:15 final size:14
Alignment explanation
Indices: 22963093--22963123 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
22963083 AAATAAAAAA
22963093 TTTCTTTCTTTTTTT
1 TTTCTTT-TTTTTTT
22963108 TTTCTTTTTTTTTT
1 TTTCTTTTTTTTTT
22963122 TT
1 TT
22963124 GTAGAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTCTTTTTTTTTT
Found at i:22963117 original size:10 final size:11
Alignment explanation
Indices: 22963097--22963121 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22963087 AAAAAATTTC
22963097 TTTCTTTTTTT
1 TTTCTTTTTTT
22963108 TTTCTTTTTTT
1 TTTCTTTTTTT
22963119 TTT
1 TTT
22963122 TTGTAGAAAG
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:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:22966388 original size:18 final size:17
Alignment explanation
Indices: 22966362--22966407 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 17
22966352 CTTTTTTTTC
22966362 TTTTAATTTTCAGTTTTAA
1 TTTT-ATTTTCA-TTTTAA
*
22966381 TTTTATTTTCATTTTTA
1 TTTTATTTTCATTTTAA
22966398 TTTATATTTT
1 TTT-TATTTT
22966408 TTGTGTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 8 0.32
18 13 0.52
19 4 0.16
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (17 bp):
TTTTATTTTCATTTTAA
Found at i:22966480 original size:8 final size:8
Alignment explanation
Indices: 22966467--22966511 Score: 56
Period size: 8 Copynumber: 5.4 Consensus size: 8
22966457 TATAATAAAA
22966467 TATATTAT
1 TATATTAT
22966475 TATATTAAT
1 TATATT-AT
22966484 TGCATATT-T
1 T--ATATTAT
22966493 TATATTAT
1 TATATTAT
22966501 TATATTAT
1 TATATTAT
22966509 TAT
1 TAT
22966512 TGCATAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 5 0.15
8 18 0.55
9 5 0.15
11 5 0.15
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (8 bp):
TATATTAT
Found at i:22966572 original size:14 final size:12
Alignment explanation
Indices: 22966549--22966587 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
22966539 ATTTTCTTTT
22966549 AATTTAAAAAAA
1 AATTTAAAAAAA
*
22966561 AGTTTGTAAAAAAA
1 A-ATT-TAAAAAAA
22966575 AATTTAAAAAAA
1 AATTTAAAAAAA
22966587 A
1 A
22966588 TTATTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 10 0.43
13 4 0.17
14 9 0.39
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (12 bp):
AATTTAAAAAAA
Found at i:22970271 original size:21 final size:20
Alignment explanation
Indices: 22970223--22970282 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
22970213 AAATTTTTTT
* *
22970223 AAAAAAATGATGAAAAAAAA
1 AAAAAAATAAAGAAAAAAAA
*
22970243 AAAGAAAATAAAGAAAAAAGTA
1 AAA-AAAATAAAGAAAAAA-AA
22970265 AAAAAAATAAAGAAAAAA
1 AAAAAAATAAAGAAAAAA
22970283 TTGATAGGAC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 3 0.09
21 28 0.80
22 4 0.11
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (20 bp):
AAAAAAATAAAGAAAAAAAA
Found at i:22970583 original size:24 final size:24
Alignment explanation
Indices: 22970537--22970621 Score: 58
Period size: 24 Copynumber: 3.8 Consensus size: 24
22970527 TCAAAGGAAA
* **
22970537 AAAGAAATGAGTAAAAATGATGAG
1 AAAGAAATGAGCAAAAAAAATGAG
*
22970561 AAAGAAGTGAGCAAAAAAAAT--G
1 AAAGAAATGAGCAAAAAAAATGAG
**
22970583 AAA-AAATGA--AAAAAAAAAAAG
1 AAAGAAATGAGCAAAAAAAATGAG
*
22970604 AAA-AAA-GAGAAAAAAAAA
1 AAAGAAATGAGCAAAAAAAA
22970622 AGCTTAAACT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
19 8 0.16
20 2 0.04
21 12 0.24
22 12 0.24
24 17 0.33
ACGTcount: A:0.73, C:0.01, G:0.18, T:0.08
Consensus pattern (24 bp):
AAAGAAATGAGCAAAAAAAATGAG
Found at i:22970588 original size:8 final size:7
Alignment explanation
Indices: 22970575--22970623 Score: 57
Period size: 8 Copynumber: 7.0 Consensus size: 7
22970565 AAGTGAGCAA
22970575 AAAAAATG
1 AAAAAA-G
22970583 AAAAAATG
1 AAAAAA-G
22970591 AAAAAA-
1 AAAAAAG
22970597 AAAAAAG
1 AAAAAAG
22970604 AAAAAAG
1 AAAAAAG
*
22970611 AGAAAA-
1 AAAAAAG
22970617 AAAAAAG
1 AAAAAAG
22970624 CTTAAACTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
6 11 0.30
7 12 0.32
8 14 0.38
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (7 bp):
AAAAAAG
Found at i:22970601 original size:13 final size:13
Alignment explanation
Indices: 22970573--22970623 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
22970563 AGAAGTGAGC
*
22970573 AAAAAAAATGAAA
1 AAAAAAAAAGAAA
22970586 AAATGAAAAAA-AAA
1 AAA--AAAAAAGAAA
*
22970600 AAAGAAAAAAGAGA
1 AAA-AAAAAAGAAA
22970614 AAAAAAAAAG
1 AAAAAAAAAG
22970624 CTTAAACTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 17 0.52
14 11 0.33
15 5 0.15
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (13 bp):
AAAAAAAAAGAAA
Found at i:22970622 original size:20 final size:21
Alignment explanation
Indices: 22970573--22970623 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
22970563 AGAAGTGAGC
*
22970573 AAAAAAAATGAAAAAATGAAA
1 AAAAAAAAAGAAAAAATGAAA
*
22970594 AAAAAAAAAGAAAAAA-GAGA
1 AAAAAAAAAGAAAAAATGAAA
22970614 AAAAAAAAAG
1 AAAAAAAAAG
22970624 CTTAAACTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (21 bp):
AAAAAAAAAGAAAAAATGAAA
Found at i:22971668 original size:45 final size:44
Alignment explanation
Indices: 22971599--22971838 Score: 256
Period size: 45 Copynumber: 5.4 Consensus size: 44
22971589 CAAATGAGAT
* *
22971599 TCTTT-AAATTTTGGATGAGAAATCCTAAAATTTTTCGAATGTGAA
1 TCTTTGAAATTTTGGATGTG-AATCCCAAAATTTTT-GAATGTGAA
22971644 TCTTTGAAATTTTGGATGTGAATCCCAAAATTTTTTGAAT-TAGAA
1 TCTTTGAAATTTTGGATGTGAATCCCAAAA-TTTTTGAATGT-GAA
* ***
22971689 TATTTGAAATTTCAAATGT-AAGTCCCAAAAATTTTTGAATGTGAA
1 TCTTTGAAATTTTGGATGTGAA-TCCC-AAAATTTTTGAATGTGAA
* *
22971734 TCTTTGAAATTTTGGATGTGAATTCCAAATTTTTTTGAATGTGAA
1 TCTTTGAAATTTTGGATGTGAATCCCAAA-ATTTTTGAATGTGAA
* * * * *
22971779 TATTTAAAATTTCGGATGTGAATCCCAAAATATTT-ATATGTAAA
1 TCTTTGAAATTTTGGATGTGAATCCCAAAATTTTTGA-ATGTGAA
22971823 TCTTT-AAATTTTGGAT
1 TCTTTGAAATTTTGGAT
22971839 ATAAGGCCCT
Statistics
Matches: 165, Mismatches: 21, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
43 11 0.07
44 20 0.12
45 109 0.66
46 25 0.15
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (44 bp):
TCTTTGAAATTTTGGATGTGAATCCCAAAATTTTTGAATGTGAA
Found at i:22971678 original size:22 final size:22
Alignment explanation
Indices: 22971607--22971678 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
22971597 ATTCTTTAAA
*
22971607 TTTTGGATGAGAAATCCTAAAAT
1 TTTTGGATGTG-AATCCTAAAAT
* * *
22971630 TTTTCGAATGTGAATCTTTGAAA-
1 TTTT-GGATGTGAATC-CTAAAAT
*
22971653 TTTTGGATGTGAATCCCAAAAT
1 TTTTGGATGTGAATCCTAAAAT
22971675 TTTT
1 TTTT
22971679 TGAATTAGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
21 3 0.08
22 14 0.37
23 12 0.32
24 9 0.24
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.42
Consensus pattern (22 bp):
TTTTGGATGTGAATCCTAAAAT
Found at i:22971743 original size:23 final size:23
Alignment explanation
Indices: 22971624--22971790 Score: 87
Period size: 23 Copynumber: 7.3 Consensus size: 23
22971614 TGAGAAATCC
22971624 TAAAATTTTTCGAATGTGAATCTT
1 TAAAATTTTT-GAATGTGAATCTT
* * *
22971648 TGAAA-TTTTGGATGTGAATC-C
1 TAAAATTTTTGAATGTGAATCTT
* *
22971669 CAAAATTTTTTGAAT-TAGAATATT
1 TAAAA-TTTTTGAATGT-GAATCTT
* ** **
22971693 TGAAA-TTTCAAATGT-AAGTCCC
1 TAAAATTTTTGAATGTGAA-TCTT
*
22971715 AAAAATTTTTGAATGTGAATCTT
1 TAAAATTTTTGAATGTGAATCTT
* * *
22971738 TGAAA-TTTTGGATGTGAAT-TC
1 TAAAATTTTTGAATGTGAATCTT
* * *
22971759 CAAATTTTTTTGAATGTGAATATT
1 TAAA-ATTTTTGAATGTGAATCTT
22971783 TAAAATTT
1 TAAAATTT
22971791 CGGATGTGAA
Statistics
Matches: 100, Mismatches: 32, Indels: 23
0.65 0.21 0.15
Matches are distributed among these distances:
21 8 0.08
22 34 0.34
23 45 0.45
24 13 0.13
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.43
Consensus pattern (23 bp):
TAAAATTTTTGAATGTGAATCTT
Found at i:22971762 original size:90 final size:89
Alignment explanation
Indices: 22971619--22971861 Score: 298
Period size: 90 Copynumber: 2.7 Consensus size: 89
22971609 TTGGATGAGA
*
22971619 AATCCTAAAATTTTTCGAATGTGAATCTTTGAAATTTTGGATGTGAATCCCAAAATTTTTTGAAT
1 AATCCCAAAATTTTT-GAATGTGAATCTTTGAAATTTTGGATGTGAATCCCAAAATTTTTTGAAT
*
22971684 -TAGAATATTTGAAATTTCAAATGT-
65 GT-GAATATTTAAAATTTCAAATGTG
* *
22971708 AAGTCCCAAAAATTTTTGAATGTGAATCTTTGAAATTTTGGATGTGAATTCCAAATTTTTTTGAA
1 AA-TCCC-AAAATTTTTGAATGTGAATCTTTGAAATTTTGGATGTGAATCCCAAAATTTTTTGAA
**
22971773 TGTGAATATTTAAAATTTCGGATGTG
64 TGTGAATATTTAAAATTTCAAATGTG
* * * *
22971799 AATCCCAAAATATTT-ATATGTAAATCTTT-AAATTTTGGATAT-AAGGCCCTAAAATTTTTTGA
1 AATCCCAAAATTTTTGA-ATGTGAATCTTTGAAATTTTGGATGTGAA-TCCC-AAAATTTTTTGA
22971861 A
63 A
22971862 CAAGAATCTT
Statistics
Matches: 135, Mismatches: 12, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
87 2 0.01
88 15 0.11
89 33 0.24
90 73 0.54
91 12 0.09
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (89 bp):
AATCCCAAAATTTTTGAATGTGAATCTTTGAAATTTTGGATGTGAATCCCAAAATTTTTTGAATG
TGAATATTTAAAATTTCAAATGTG
Found at i:22972019 original size:25 final size:25
Alignment explanation
Indices: 22971982--22972038 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
22971972 AAATCTTTTA
* *
22971982 TGAATATGAATTTATTGCGAATCTT
1 TGAATTTGAATTTATTACGAATCTT
* * *
22972007 TGTATTTGAATTTCTTACGAATTTT
1 TGAATTTGAATTTATTACGAATCTT
22972032 TGAATTT
1 TGAATTT
22972039 TTTGTGGATC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.51
Consensus pattern (25 bp):
TGAATTTGAATTTATTACGAATCTT
Found at i:22972247 original size:34 final size:34
Alignment explanation
Indices: 22972205--22972324 Score: 100
Period size: 34 Copynumber: 3.5 Consensus size: 34
22972195 ACTTAGAATC
* *
22972205 TTTT-TGAATCTAAAACCTCTGAAAAACTGAAAT
1 TTTTGTGAATCTGAAACCTCTGAAAAACTAAAAT
* ** * **
22972238 TTTTGTGAATGTGAAATTTATGTGAAACTTAAAAT
1 TTTTGTGAATCTGAAACCTCTGAAAAAC-TAAAAT
**
22972273 CCTTGTGAATCTGAAACCTCTGAAAAA-TAAAAAT
1 TTTTGTGAATCTGAAACCTCTGAAAAACT-AAAAT
*
22972307 TTTTGCGAATCTGGAAAC
1 TTTTGTGAATCT-GAAAC
22972325 TATATGAATG
Statistics
Matches: 64, Mismatches: 19, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
33 5 0.08
34 30 0.47
35 29 0.45
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.34
Consensus pattern (34 bp):
TTTTGTGAATCTGAAACCTCTGAAAAACTAAAAT
Found at i:22973816 original size:19 final size:20
Alignment explanation
Indices: 22973792--22973834 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 20
22973782 ATGATAAAAT
22973792 ATATTATTATATTA-ATTGC
1 ATATTATTATATTATATTGC
22973811 ATATTATTATATTATTATTGC
1 ATATTATTATATTA-TATTGC
22973832 ATA
1 ATA
22973835 GAATTATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 14 0.64
21 8 0.36
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (20 bp):
ATATTATTATATTATATTGC
Found at i:22973840 original size:21 final size:19
Alignment explanation
Indices: 22973797--22973841 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
22973787 AAAATATATT
**
22973797 ATTATATTAATTGCATATT
1 ATTATATTAATTGCATAGA
22973816 ATTATATTATTATTGCATAGA
1 ATTATATTA--ATTGCATAGA
22973837 ATTAT
1 ATTAT
22973842 TTGCATGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 9 0.41
21 13 0.59
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (19 bp):
ATTATATTAATTGCATAGA
Found at i:22974082 original size:38 final size:37
Alignment explanation
Indices: 22974011--22974083 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
22974001 AATATTTTTA
* *
22974011 AAAAAATCTTATCAACAAATTGAATGTAGTTTTTAAC
1 AAAAAATCTTACCAACAAATTGAATGCAGTTTTTAAC
* * *
22974048 AAAAAATCTTGCCAACAAATTGGATGACATTTTTTA
1 AAAAAATCTTACCAACAAATTGAATG-CAGTTTTTA
22974084 CTATAAATCA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 23 0.77
38 7 0.23
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (37 bp):
AAAAAATCTTACCAACAAATTGAATGCAGTTTTTAAC
Found at i:22975986 original size:21 final size:23
Alignment explanation
Indices: 22975961--22976005 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
22975951 AGGTAAATTT
* *
22975961 TTTTTTTAAT-TTTTATATATTA
1 TTTTATTAATATTATATATATTA
22975983 TTTTATTAATATTATATATATTA
1 TTTTATTAATATTATATATATTA
22976006 AAATATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTTATTAATATTATATATATTA
Found at i:22976017 original size:18 final size:17
Alignment explanation
Indices: 22975990--22976023 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
22975980 TTATTTTATT
22975990 AATATTATATATATTAA
1 AATATTATATATATTAA
*
22976007 AATATTTATATTTATTA
1 AATA-TTATATATATTA
22976024 GATTAAATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATATTATATATATTAA
Found at i:22976117 original size:17 final size:16
Alignment explanation
Indices: 22976086--22976142 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
22976076 AAATAAATTT
22976086 TAAAAATAAAATAATA
1 TAAAAATAAAATAATA
*
22976102 TAAAAATAAATTTAATAA
1 TAAAAATAAA-ATAAT-A
* * *
22976120 TAATACTAAACTAATA
1 TAAAAATAAAATAATA
22976136 -AAAAATA
1 TAAAAATA
22976143 TAGGAATGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
15 5 0.15
16 11 0.33
17 8 0.24
18 9 0.27
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAAAATAAAATAATA
Found at i:22982294 original size:25 final size:25
Alignment explanation
Indices: 22982266--22982328 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
22982256 ATACTATGTA
22982266 CAGAAACACCATTAAGCAAACCACT
1 CAGAAACACCATTAAGCAAACCACT
* *
22982291 CAGAAACACCATTCAGCAAACCATT
1 CAGAAACACCATTAAGCAAACCACT
*
22982316 CAAAAACACCATT
1 CAGAAACACCATT
22982329 CAACATACGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.48, C:0.32, G:0.06, T:0.14
Consensus pattern (25 bp):
CAGAAACACCATTAAGCAAACCACT
Found at i:22982306 original size:13 final size:13
Alignment explanation
Indices: 22982266--22982330 Score: 71
Period size: 13 Copynumber: 5.2 Consensus size: 13
22982256 ATACTATGTA
22982266 CAGAAACACCATT
1 CAGAAACACCATT
* * *
22982279 AAGCAA-ACCACT
1 CAGAAACACCATT
22982291 CAGAAACACCATT
1 CAGAAACACCATT
*
22982304 CAGCAA-ACCATT
1 CAGAAACACCATT
*
22982316 CAAAAACACCATT
1 CAGAAACACCATT
22982329 CA
1 CA
22982331 ACATACGATT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
12 19 0.46
13 22 0.54
ACGTcount: A:0.48, C:0.32, G:0.06, T:0.14
Consensus pattern (13 bp):
CAGAAACACCATT
Found at i:22982315 original size:12 final size:12
Alignment explanation
Indices: 22982273--22982350 Score: 57
Period size: 12 Copynumber: 6.3 Consensus size: 12
22982263 GTACAGAAAC
*
22982273 ACCATTAAGCAA
1 ACCATTCAGCAA
* *
22982285 ACCACTCAGAAA
1 ACCATTCAGCAA
22982297 CACCATTCAGCAA
1 -ACCATTCAGCAA
**
22982310 ACCATTCAAAAA
1 ACCATTCAGCAA
* *
22982322 CACCATTCAACAT
1 -ACCATTCAGCAA
* *
22982335 ACGATTCAGCAT
1 ACCATTCAGCAA
22982347 ACCA
1 ACCA
22982351 AGATCATACA
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
12 32 0.62
13 20 0.38
ACGTcount: A:0.45, C:0.32, G:0.06, T:0.17
Consensus pattern (12 bp):
ACCATTCAGCAA
Found at i:22982341 original size:25 final size:25
Alignment explanation
Indices: 22982269--22982342 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 25
22982259 CTATGTACAG
* *
22982269 AAACACCATT-AAGCAAACCACTCAG
1 AAACACCATTCAA-CAAACCATTCAA
*
22982294 AAACACCATTCAGCAAACCATTCAA
1 AAACACCATTCAACAAACCATTCAA
* *
22982319 AAACACCATTCAACATACGATTCA
1 AAACACCATTCAACAAACCATTCA
22982343 GCATACCAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 41 0.98
26 1 0.02
ACGTcount: A:0.47, C:0.31, G:0.05, T:0.16
Consensus pattern (25 bp):
AAACACCATTCAACAAACCATTCAA
Found at i:22983295 original size:187 final size:186
Alignment explanation
Indices: 22982980--22983340 Score: 512
Period size: 187 Copynumber: 1.9 Consensus size: 186
22982970 ACAACCGCCT
*
22982980 TCAATAATTATGTACAAAAATTAAAAGGAATTAATGAAGGCATTTCTTTATAATAAACACCTTCA
1 TCAATAATTATGTACAAAAATTAAAAGAAATTAATGAAGGCATTTCTTTATAATAAACACCTTCA
* *
22983045 CTAACCGTCTCAAAAATTGAGTTGTGAAATATTGAAGGCGTTTTTCAATGAAAGATGCCTTTAAT
66 CTAACCATCTCAAAAATTGAGTTGTGAAATATTAAAGGCGTTTTTCAATGAAAGATGCCTTTAAT
22983110 AAT-CTAAAAATTTTAAGAGAAAATTATTGAAGGCATTTGTTCTCAAGAAATGGCG
131 AATCCTAAAAATTTTAAGAGAAAATTATTGAAGGCATTTGTTCTCAAGAAATGGCG
** * * * * *
22983165 TCAATAATTATGTACGTAAATTAGAAGAAATTAGTGAAGGCATTTTTTTTTGGAATAAATACCTT
1 TCAATAATTATGTACAAAAATTAAAAGAAATTAATGAAGGCATTTCTTTAT--AATAAACACCTT
* * * * *
22983230 TACTAACCATTTCAAAATTTGAGTTGT-AGAATATTAAAGGTGTTTTTCATTGAAAGA-GACCTT
64 CACTAACCATCTCAAAAATTGAGTTGTGA-AATATTAAAGGCGTTTTTCAATGAAAGATG-CCTT
**
22983293 TAATAATCCTAAAAATTTTAAGAGAAAATTATTGAAGGTGTTTGTTCT
127 TAATAATCCTAAAAATTTTAAGAGAAAATTATTGAAGGCATTTGTTCT
22983341 TAAAAATTAC
Statistics
Matches: 154, Mismatches: 17, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
185 44 0.29
186 2 0.01
187 70 0.45
188 38 0.25
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.35
Consensus pattern (186 bp):
TCAATAATTATGTACAAAAATTAAAAGAAATTAATGAAGGCATTTCTTTATAATAAACACCTTCA
CTAACCATCTCAAAAATTGAGTTGTGAAATATTAAAGGCGTTTTTCAATGAAAGATGCCTTTAAT
AATCCTAAAAATTTTAAGAGAAAATTATTGAAGGCATTTGTTCTCAAGAAATGGCG
Found at i:22983310 original size:61 final size:60
Alignment explanation
Indices: 22983243--22983434 Score: 158
Period size: 61 Copynumber: 3.1 Consensus size: 60
22983233 TAACCATTTC
* *
22983243 AAAATTTGAGTTGTAGAATATTAAAGGTGTTTTTCATTGAAAGAGACCTTTAATAATCCTA
1 AAAATTTGAGTTGTAGAATATTGAAGGTGTTTTTCATTGAAA-ACACCTTTAATAATCCTA
* * * * * * * *
22983304 AAAATTTTAAG-AG-AAAATTATTGAAGGTGTTTGTTC-TTAAAAATTACCTTCACTAATCGTTT
1 AAAA-TTTGAGTTGTAGAA-TATTGAAGGTGTTT-TTCATTGAAAA-CACCTTTAATAATC--CT
*
22983366 C
60 A
* *
22983367 AAAATTTGAGTTGT-GAAATGTTGAAGGTGTTTTTCACTAGAAAACACCTTTAATAATCCTA
1 AAAATTTGAGTTGTAG-AATATTGAAGGTGTTTTTCA-TTGAAAACACCTTTAATAATCCTA
22983428 AAAATTT
1 AAAATTT
22983435 TAAGAGAAAA
Statistics
Matches: 99, Mismatches: 21, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
60 4 0.04
61 42 0.42
62 16 0.16
63 30 0.30
64 7 0.07
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (60 bp):
AAAATTTGAGTTGTAGAATATTGAAGGTGTTTTTCATTGAAAACACCTTTAATAATCCTA
Found at i:22983367 original size:124 final size:124
Alignment explanation
Indices: 22983224--22983453 Score: 365
Period size: 124 Copynumber: 1.9 Consensus size: 124
22983214 TTGGAATAAA
* *
22983224 TACCTTTACTAACCATTTCAAAATTTGAGTTGT-AGAATATTAAAGGTGTTTTTCA-TTGAAAGA
1 TACCTTCACTAACCATTTCAAAATTTGAGTTGTGA-AATATTAAAGGTGTTTTTCACTAGAAA-A
*
22983287 GACCTTTAATAATCCTAAAAATTTTAAGAGAAAATTATTGAAGGTGTTTGTTCTTAAAAAT
64 CACCTTTAATAATCCTAAAAATTTTAAGAGAAAATTATTGAAGGTGTTTGTTCTTAAAAAT
* * * *
22983348 TACCTTCACTAATCGTTTCAAAATTTGAGTTGTGAAATGTTGAAGGTGTTTTTCACTAGAAAACA
1 TACCTTCACTAACCATTTCAAAATTTGAGTTGTGAAATATTAAAGGTGTTTTTCACTAGAAAACA
22983413 CCTTTAATAATCCTAAAAATTTTAAGAGAAAATTATTGAAG
66 CCTTTAATAATCCTAAAAATTTTAAGAGAAAATTATTGAAG
22983454 ACGTTTATTT
Statistics
Matches: 97, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
124 91 0.94
125 6 0.06
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (124 bp):
TACCTTCACTAACCATTTCAAAATTTGAGTTGTGAAATATTAAAGGTGTTTTTCACTAGAAAACA
CCTTTAATAATCCTAAAAATTTTAAGAGAAAATTATTGAAGGTGTTTGTTCTTAAAAAT
Found at i:22983424 original size:63 final size:60
Alignment explanation
Indices: 22983225--22983424 Score: 154
Period size: 63 Copynumber: 3.2 Consensus size: 60
22983215 TGGAATAAAT
* * * * *
22983225 ACCTTTACTAACCATTTCAAAATTTGAGTTGTAGAATATTAAAGGTGTTTTTCATTGAAAGAG
1 ACCTTTAATAATC-TTTCAAAATTTGAGTTGTA-AATATTGAAGGTGTTTTTCATAGAAA-AC
* * * * * * *
22983288 ACCTTTAATAATC-CTAAAAATTTTAAG-AGAAAATTATTGAAGGTGTTTGTTCTTA-AAAATT
1 ACCTTTAATAATCTTTCAAAA-TTTGAGTTGTAAA-TATTGAAGGTGTTT-TTCATAGAAAA-C
* * *
22983349 ACCTTCACTAATCGTTTCAAAATTTGAGTTGTGAAATGTTGAAGGTGTTTTTCACTAGAAAAC
1 ACCTTTAATAATC-TTTCAAAATTTGAGTTGT-AAATATTGAAGGTGTTTTTCA-TAGAAAAC
22983412 ACCTTTAATAATC
1 ACCTTTAATAATC
22983425 CTAAAAATTT
Statistics
Matches: 104, Mismatches: 23, Indels: 20
0.71 0.16 0.14
Matches are distributed among these distances:
60 3 0.03
61 34 0.33
62 17 0.16
63 43 0.41
64 7 0.07
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (60 bp):
ACCTTTAATAATCTTTCAAAATTTGAGTTGTAAATATTGAAGGTGTTTTTCATAGAAAAC
Found at i:22983548 original size:311 final size:310
Alignment explanation
Indices: 22983038--22983639 Score: 784
Period size: 311 Copynumber: 1.9 Consensus size: 310
22983028 TATAATAAAC
**
22983038 ACCTTCACTAACCGTCTCAAAAATTGAGTTGTGAAATATTGAAGGCGTTTTTCAATGAAAGATGC
1 ACCTTCACTAACCGTCTCAAAAATTGAGTTGTGAAATATTGAAGGCGTTTTTCAATGAAAGACAC
* * * ***
22983103 CTTTAATAATCTAAAAATTTTAAGAGAAAATTATTGAAGGCATTTGTTCTCAAGAAATGGCGTCA
66 CTTTAATAATCTAAAAATTTTAAGAGAAAATTATTGAAGACATTTATTCTCAAAAAAAAACGTCA
* * ** * *
22983168 ATAATTATGTACGTAAATTAGAAGAAATTAGTGAAGGCATTTTTTTTTGGAATAAATACCTTTAC
131 ATAATTATGCACGTAAATTAGAAGAAATTAGTGAAGGCA-TTTTTTCTAAAATAAACACCTTCAC
* * * *
22983233 TAACCATTTCAAAATTTGAGTTGTAGAATATTAAAG-GTGTTTTTCATTGAAAGAGACCTTTAAT
195 TAACCATCTCAAAATTTGAGTTGTAGAATATTAAAGACT-TTTTTCACTGAAAGACACCTTTAAT
22983297 AATC-CTAAAAATTTTAAGAGAAAATTATTGAAGGTGTTTGTTCTTAAAAATT
259 AATCTC-AAAAATTTTAAGAGAAAATTATTGAAGGTGTTTGTTCTTAAAAATT
* * * * * *
22983349 ACCTTCACTAATCGTTTCAAAATTTGAGTTGTGAAATGTTGAAGGTGTTTTTCACTAGAAA-ACA
1 ACCTTCACTAACCGTCTCAAAAATTGAGTTGTGAAATATTGAAGGCGTTTTTCAAT-GAAAGACA
*
22983413 CCTTTAATAATCCTAAAAATTTTAAGAGAAAATTATTGAAGACGTTTATT-T-AAAAAAAAACAT
65 CCTTTAATAAT-CTAAAAATTTTAAGAGAAAATTATTGAAGACATTTATTCTCAAAAAAAAAC--
* * *
22983476 ATTTAATAATTATGCACGTAAATTAGAAGAAATTAGTGAAGGCA-TTTTTCTAAAATAAACGCCT
127 -GTCAATAATTATGCACGTAAATTAGAAGAAATTAGTGAAGGCATTTTTTCTAAAATAAACACCT
* * * * * *
22983540 TCACTAACCGTCTCAGAATTTGAGTTGTGGAATATTGAAGACTTTTTTCACTGGAAGACATCTTT
191 TCACTAACCATCTCAAAATTTGAGTTGTAGAATATTAAAGACTTTTTTCACTGAAAGACACCTTT
22983605 AATAATCTCAAAAATTTTAAGAGAAAATTATTGAA
256 AATAATCTCAAAAATTTTAAGAGAAAATTATTGAA
22983640 TGCATCTGAT
Statistics
Matches: 250, Mismatches: 34, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
310 6 0.02
311 163 0.65
312 41 0.16
313 40 0.16
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (310 bp):
ACCTTCACTAACCGTCTCAAAAATTGAGTTGTGAAATATTGAAGGCGTTTTTCAATGAAAGACAC
CTTTAATAATCTAAAAATTTTAAGAGAAAATTATTGAAGACATTTATTCTCAAAAAAAAACGTCA
ATAATTATGCACGTAAATTAGAAGAAATTAGTGAAGGCATTTTTTCTAAAATAAACACCTTCACT
AACCATCTCAAAATTTGAGTTGTAGAATATTAAAGACTTTTTTCACTGAAAGACACCTTTAATAA
TCTCAAAAATTTTAAGAGAAAATTATTGAAGGTGTTTGTTCTTAAAAATT
Found at i:22983733 original size:186 final size:183
Alignment explanation
Indices: 22983349--22984012 Score: 778
Period size: 186 Copynumber: 3.6 Consensus size: 183
22983339 CTTAAAAATT
* * * * * *
22983349 ACCTTCACTAATCGTTTCAAAATTTGAGTTGTGAAATGTTGAAGGTGTTTTTCACTAGAAAACAC
1 ACCTTCACTAACCGTTTCAAAATTTGAGTTGTGGAATATTGAAGCT-TTTTTCACTGGAAGACAC
* * * * *
22983414 CTTTAATAATCCTAAAAATTTTAAGAGAAAATTATTGAAGACGTTTATTTAAAAAAAAACATATT
65 CTTTAATAATCCTAAAAATTTTAAGAGAAAATTATTGAAG-CATTGATCTAAAAAAATAC--CTT
* *
22983479 TAATAATTATGCACGTAAATTAGAAGAAATTAGTGAAGGCATTTTTCTAAAATAAAC
127 TAATAATTATGCACGTAAATTAGAAGAAATTAGTGAAGGTATTTTTCTAGAATAAAC
* * * *
22983536 GCCTTCACTAACCGTCTCAGAATTTGAGTTGTGGAATATTGAAGACTTTTTTCACTGGAAGACAT
1 ACCTTCACTAACCGTTTCAAAATTTGAGTTGTGGAATATTGAAG-CTTTTTTCACTGGAAGACAC
**
22983601 CTTTAATAAT-CTCAAAAATTTTAAGAGAAAATTATTGAATGCATCTGATCTCGAAAAATACCTT
65 CTTTAATAATCCT-AAAAATTTTAAGAGAAAATTATTGAA-GCAT-TGATCTAAAAAAATACCTT
* * *
22983665 TAATAATTATACACGTAAATTAGAAGAAATTAGTGAATGTGTTTTTCTAGAATAAAC
127 TAATAATTATGCACGTAAATTAGAAGAAATTAGTGAAGGTATTTTTCTAGAATAAAC
* * * *
22983722 ACCTTCACTAACCGTATCAGAATTGGAGTTGTGGAATATTAAAGTCATTTTTT-ACTGGAAGACA
1 ACCTTCACTAACCGTTTCAAAATTTGAGTTGTGGAATATTGAAG-C-TTTTTTCACTGGAAGACA
* * *
22983786 CCTTTAATAAT-CTAAAAAATTTTAACAGAAAATTATTAAAGGTATTTGATCTAAAAAAATACCT
64 CCTTTAATAATCCT-AAAAATTTTAAGAGAAAATTATTGAA-GCA-TTGATCTAAAAAAATACCT
* * * *
22983850 TCAATAATTATGCACGTAAATTA-AAAAGAATTAGTAAAGGTATTTTTCTAGAATAAAT
126 TTAATAATTATGCACGTAAATTAGAAGA-AATTAGTGAAGGTATTTTTCTAGAATAAAC
* * * * **
22983908 GCCTTCACTAACCGTTTTAAAATTTTAGTTGTGGAATATTGAAGGCGTTTTTCACTGGAAGATGC
1 ACCTTCACTAACCGTTTCAAAATTTGAGTTGTGGAATATTGAA-GCTTTTTTCACTGGAAGACAC
* * * *
22983973 TTTTAATAATCCTAAAAACTTTATGAAAAAATTATTGAAG
65 CTTTAATAATCCTAAAAATTTTAAGAGAAAATTATTGAAG
22984013 GTGTTTGTTC
Statistics
Matches: 409, Mismatches: 58, Indels: 22
0.84 0.12 0.04
Matches are distributed among these distances:
185 9 0.02
186 286 0.70
187 101 0.25
188 13 0.03
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.35
Consensus pattern (183 bp):
ACCTTCACTAACCGTTTCAAAATTTGAGTTGTGGAATATTGAAGCTTTTTTCACTGGAAGACACC
TTTAATAATCCTAAAAATTTTAAGAGAAAATTATTGAAGCATTGATCTAAAAAAATACCTTTAAT
AATTATGCACGTAAATTAGAAGAAATTAGTGAAGGTATTTTTCTAGAATAAAC
Found at i:22994118 original size:18 final size:17
Alignment explanation
Indices: 22994097--22994145 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
22994087 AAAATATTAT
22994097 TTAAATATAAATATAAAA
1 TTAAATATAAATA-AAAA
*
22994115 TTAAATATATATAAAAA
1 TTAAATATAAATAAAAA
* *
22994132 -TATATATAATTAAA
1 TTAAATATAAATAAA
22994146 TGTAAAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 11 0.41
17 4 0.15
18 12 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TTAAATATAAATAAAAA
Found at i:22994138 original size:16 final size:16
Alignment explanation
Indices: 22994101--22994139 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
22994091 TATTATTTAA
* *
22994101 ATATAAATATAAAATT
1 ATATATATATAAAAAT
*
22994117 AAATATATATAAAAAT
1 ATATATATATAAAAAT
22994133 ATATATA
1 ATATATA
22994140 ATTAAATGTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATATATATAAAAAT
Found at i:22994530 original size:22 final size:22
Alignment explanation
Indices: 22994502--22994545 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
22994492 AAAAGAACAA
* *
22994502 TCACTGAGCCGTGATAGGACTT
1 TCACTGAGACGTGAGAGGACTT
22994524 TCACTGAGACGTGAGAGGACTT
1 TCACTGAGACGTGAGAGGACTT
22994546 CCAATTGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (22 bp):
TCACTGAGACGTGAGAGGACTT
Found at i:22995194 original size:16 final size:16
Alignment explanation
Indices: 22995173--22995207 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
22995163 CCATGTGTAC
*
22995173 TTTTTTTATTTT-GTT
1 TTTTTTTTTTTTAGTT
22995188 TTTTTTTTTTTTAGTT
1 TTTTTTTTTTTTAGTT
22995204 TTTT
1 TTTT
22995208 ACCATTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.06, C:0.00, G:0.06, T:0.89
Consensus pattern (16 bp):
TTTTTTTTTTTTAGTT
Found at i:22999143 original size:235 final size:235
Alignment explanation
Indices: 22998712--22999167 Score: 705
Period size: 235 Copynumber: 1.9 Consensus size: 235
22998702 GGTGTTACAG
* * * *
22998712 ATGCTTGGAGAAGGCGGCTCTCTAACTGAAAGAAGAAGTAAGCAATCCTAATCCCTGGAAGCTCT
1 ATGCTCGGACAAGGCGACTCTCTAACTGAAAGAAGAAGTAAGCAATCCTAATCCATGGAAGCTCT
* *
22998777 GCACGGTGACTCAAGTAAAGGAAGTCAAGATTCTCATTAAACTTATTCCAATACCAGTTTGCACG
66 GCACGGTGACTCAAATAAAGGAAGTCAAGATTCTCATTAAACTTATTCCAATACCAGCTTGCACG
* * *
22998842 ATAATGCTTAATGTTGTCTTAATAGAATTTTTAGCTCTCTTGGTATAGCAGGCATATACATTGAA
131 ATAATGCTTAATGTCGTCTTAATAGAATTTTTAGCTCTCTCGGTACAGCAGGCATATACATTGAA
*
22998907 TACTCACATTGATAAACTGAAACTCCTAGTAAGCACGATA
196 TACTCACATTGATAAACTAAAACTCCTAGTAAGCACGATA
* *
22998947 ATGCTCGGACAAGGCGACTCTCTAACTGAAGGAAGAAGTAAGCAATCCTAATCCATGGAAGCTTT
1 ATGCTCGGACAAGGCGACTCTCTAACTGAAAGAAGAAGTAAGCAATCCTAATCCATGGAAGCTCT
* * * * *
22999012 GCACGGTGACTCAAATAGAGGAAGTCAAGATTGTCATTAAACTTATTCCAATGCCAGCTTGGATG
66 GCACGGTGACTCAAATAAAGGAAGTCAAGATTCTCATTAAACTTATTCCAATACCAGCTTGCACG
* * * **
22999077 ATAATGCTTAATGTCGTCTTAATAGAGTTTTTAGCTCTCTCGGTACGGCAGGTATATAGGTTGAA
131 ATAATGCTTAATGTCGTCTTAATAGAATTTTTAGCTCTCTCGGTACAGCAGGCATATACATTGAA
*
22999142 TACTCACTTTGATAAACTAAAACTCC
196 TACTCACATTGATAAACTAAAACTCC
22999168 CAAAACATGC
Statistics
Matches: 198, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
235 198 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (235 bp):
ATGCTCGGACAAGGCGACTCTCTAACTGAAAGAAGAAGTAAGCAATCCTAATCCATGGAAGCTCT
GCACGGTGACTCAAATAAAGGAAGTCAAGATTCTCATTAAACTTATTCCAATACCAGCTTGCACG
ATAATGCTTAATGTCGTCTTAATAGAATTTTTAGCTCTCTCGGTACAGCAGGCATATACATTGAA
TACTCACATTGATAAACTAAAACTCCTAGTAAGCACGATA
Found at i:23000806 original size:9 final size:8
Alignment explanation
Indices: 23000791--23000820 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
23000781 AATATTTATT
23000791 TAAAAAAA
1 TAAAAAAA
23000799 TAAAAAAA
1 TAAAAAAA
*
23000807 TAAAAACA
1 TAAAAAAA
23000815 TAAAAA
1 TAAAAA
23000821 TTTTTGGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (8 bp):
TAAAAAAA
Found at i:23005049 original size:10 final size:10
Alignment explanation
Indices: 23005034--23005117 Score: 82
Period size: 10 Copynumber: 8.3 Consensus size: 10
23005024 GAAGATGACA
23005034 AAAAAAAAAG
1 AAAAAAAAAG
23005044 -AAAAAAAAG
1 AAAAAAAAAG
23005053 AAAAAAAAAG
1 AAAAAAAAAG
*
23005063 AAAAAAATGAGG
1 AAAAAAA--AAG
*
23005075 AAAAAAGAAG
1 AAAAAAAAAG
*
23005085 AAAAAATGAA-
1 AAAAAA-AAAG
*
23005095 AAAAGAAAAG
1 AAAAAAAAAG
*
23005105 GAAAAAAAAG
1 AAAAAAAAAG
23005115 AAA
1 AAA
23005118 TACTCAAACT
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
9 11 0.18
10 39 0.64
11 3 0.05
12 8 0.13
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:23005058 original size:19 final size:19
Alignment explanation
Indices: 23005034--23005117 Score: 96
Period size: 19 Copynumber: 4.2 Consensus size: 19
23005024 GAAGATGACA
23005034 AAAAAAAAAGAAAAAAAAG
1 AAAAAAAAAGAAAAAAAAG
*
23005053 AAAAAAAAAGAAAAAAATG
1 AAAAAAAAAGAAAAAAAAG
**
23005072 AGGAAAAAAGAAGAAAAAATG
1 AAAAAAAAAGAA-AAAAAA-G
23005093 AAAAAAGAAAAGGAAAAAAAAG
1 -AAAAA-AAAA-GAAAAAAAAG
23005115 AAA
1 AAA
23005118 TACTCAAACT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
19 28 0.52
20 5 0.09
21 4 0.07
22 4 0.07
23 10 0.19
24 3 0.06
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.02
Consensus pattern (19 bp):
AAAAAAAAAGAAAAAAAAG
Found at i:23006379 original size:46 final size:46
Alignment explanation
Indices: 23006312--23006566 Score: 257
Period size: 46 Copynumber: 5.6 Consensus size: 46
23006302 ATGAAGTCCT
* * * *
23006312 AAATCCTCAAATGAGAGTCTTTTAGTCTTAAATGAGAATTTTTAAA
1 AAATCTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATTTTTAAG
* *
23006358 AAATCCTCAAATGAGAATCTTTGAGTCTTAAATGAAAATTTTTAAG
1 AAATCTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATTTTTAAG
* * * * * * * *
23006404 ACATTTTCAAATGAAAAGCTATGAGTTTTAAGTGAAAATTTTTAAG
1 AAATCTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATTTTTAAG
* * *
23006450 ATATTTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAG
1 AAATCTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATTTTTAAG
* * * *
23006496 AATTCTTCAAATGAGAATTTTTAAGTCTTTCAAATAAGAA-TTTT--G
1 AAATCTTCAAATGAGAATCTTTGAGTC-TT-AAATGAGAATTTTTAAG
*
23006541 -AGTCTTTCAAATGAGAATCTTTGAGT
1 AAATC-TTCAAATGAGAATCTTTGAGT
23006567 TTTGAGTTTC
Statistics
Matches: 176, Mismatches: 30, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
44 3 0.02
45 20 0.11
46 140 0.80
47 5 0.03
48 8 0.05
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.38
Consensus pattern (46 bp):
AAATCTTCAAATGAGAATCTTTGAGTCTTAAATGAGAATTTTTAAG
Found at i:23006392 original size:21 final size:21
Alignment explanation
Indices: 23006320--23006562 Score: 101
Period size: 25 Copynumber: 10.7 Consensus size: 21
23006310 CTAAATCCTC
* *
23006320 AAATGAGAGTCTTTTAGTCTT
1 AAATGAGAATCTTTAAGTCTT
* * *
23006341 AAATGAGAATTTTTAAAAAATCCTC
1 AAATGAGAATCTTT---AAGT-CTT
*
23006366 AAATGAGAATCTTTGAGTCTT
1 AAATGAGAATCTTTAAGTCTT
* * *
23006387 AAATGAAAATTTTTAAGACATTTT
1 AAATGAGAATCTTTAAG---TCTT
* * * * *
23006411 CAAATGAAAAGCTATGAGTTTT
1 -AAATGAGAATCTTTAAGTCTT
* * * *
23006433 AAGTGAAAATTTTTAAGATATTTT
1 AAATGAGAATCTTTAAG---TCTT
*
23006457 CAAATGAGAATCTTTGAGTCTT
1 -AAATGAGAATCTTTAAGTCTT
23006479 AAATGAGAATCTTTAAGAATTCTT
1 AAATGAGAATCTTTAAG---TCTT
*
23006503 CAAATGAGAATTTTTAAGTCTTT
1 -AAATGAGAATCTTTAAGTC-TT
* *
23006526 CAAATAAGAAT-TTTGAGTCTTT
1 -AAATGAGAATCTTTAAGTC-TT
23006548 CAAATGAGAATCTTT
1 -AAATGAGAATCTTT
23006563 GAGTTTTGAG
Statistics
Matches: 172, Mismatches: 32, Indels: 34
0.72 0.13 0.14
Matches are distributed among these distances:
21 56 0.33
22 31 0.18
23 15 0.09
24 13 0.08
25 57 0.33
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
AAATGAGAATCTTTAAGTCTT
Found at i:23006580 original size:28 final size:29
Alignment explanation
Indices: 23006536--23006593 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
23006526 CAAATAAGAA
23006536 TTTTGAGTCTTTCAAATGAGAATCTTTGAG
1 TTTTGAG-CTTTCAAATGAGAATCTTTGAG
23006566 TTTTGAG-TTTCAAATGAGAATCTTTGAG
1 TTTTGAGCTTTCAAATGAGAATCTTTGAG
23006594 GTGTGAAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 21 0.75
30 7 0.25
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.43
Consensus pattern (29 bp):
TTTTGAGCTTTCAAATGAGAATCTTTGAG
Found at i:23006933 original size:31 final size:31
Alignment explanation
Indices: 23006873--23006933 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
23006863 CTTGCATATA
*
23006873 TGAAATTTTGCAAATCAAATTCTTATGAAAC
1 TGAAATTTTGCAAATCAAATTCTCATGAAAC
23006904 TGAAATTTTG-AGAATCAAATT-TCAGTGAAA
1 TGAAATTTTGCA-AATCAAATTCTCA-TGAAA
23006934 TCTTGTGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 3 0.11
31 24 0.89
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (31 bp):
TGAAATTTTGCAAATCAAATTCTCATGAAAC
Found at i:23018703 original size:57 final size:57
Alignment explanation
Indices: 23018599--23018712 Score: 131
Period size: 57 Copynumber: 2.0 Consensus size: 57
23018589 TGATAAGGAA
* * ****
23018599 GCAAAATTAATCAAAAAAGAAATTAAGGAAACAATCTTTGTTGAAAATCAAGAGAAT
1 GCAAAATCAATCAAAAAAGAAATCAAGGAAACAATCTTTACCAAAAATCAAGAGAAT
* * *
23018656 GCAAAATCAATCACAGAAAG-AATCAAGGAAACAATCTTTACCAAAAATTAGGAGAAT
1 GCAAAATCAATCA-AAAAAGAAATCAAGGAAACAATCTTTACCAAAAATCAAGAGAAT
23018713 CATCAAAGTC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
57 42 0.89
58 5 0.11
ACGTcount: A:0.54, C:0.12, G:0.14, T:0.20
Consensus pattern (57 bp):
GCAAAATCAATCAAAAAAGAAATCAAGGAAACAATCTTTACCAAAAATCAAGAGAAT
Found at i:23021890 original size:2 final size:2
Alignment explanation
Indices: 23021883--23021915 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
23021873 TTACCTTGTC
23021883 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23021916 TTGAGAAACG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23022497 original size:22 final size:22
Alignment explanation
Indices: 23022472--23022515 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
23022462 AAAAGAACGA
* *
23022472 TCACTGAGCCGTGAGAAGACTT
1 TCACCGAGACGTGAGAAGACTT
*
23022494 TCACCGAGACGTGAGAGGACTT
1 TCACCGAGACGTGAGAAGACTT
23022516 CCAGTTGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.20
Consensus pattern (22 bp):
TCACCGAGACGTGAGAAGACTT
Found at i:23025226 original size:18 final size:18
Alignment explanation
Indices: 23025178--23025232 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
23025168 TATCTTATGT
*
23025178 TAATATAAATTATAACATA
1 TAATATAAA-TATAAAATA
* **
23025197 TAATTTTTATATAAAATA
1 TAATATAAATATAAAATA
23025215 TAATATAAATATATAAAT
1 TAATATAAATATA-AAAT
23025233 TTTAATATTT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
18 18 0.64
19 10 0.36
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATATAAATATAAAATA
Found at i:23027966 original size:3 final size:3
Alignment explanation
Indices: 23027958--23028002 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
23027948 TATACTATCG
23027958 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
23028003 CTGTTTATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:23028172 original size:21 final size:21
Alignment explanation
Indices: 23028148--23028239 Score: 98
Period size: 21 Copynumber: 4.4 Consensus size: 21
23028138 TCGAAATTAG
23028148 TTTGATAATTTATGATATAAT
1 TTTGATAATTTATGATATAAT
* * * *
23028169 TTTGGTAATTTTTTATAAAAT
1 TTTGATAATTTATGATATAAT
* *
23028190 TTTGATAACTTTTTTATA-AAT
1 TTTGATAA-TTTATGATATAAT
23028211 TTTGATAATTTATG-TATAAT
1 TTTGATAATTTATGATATAAT
*
23028231 TTTGGTAAT
1 TTTGATAAT
23028240 CACTAATAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
19 2 0.03
20 15 0.25
21 35 0.57
22 9 0.15
ACGTcount: A:0.34, C:0.01, G:0.10, T:0.55
Consensus pattern (21 bp):
TTTGATAATTTATGATATAAT
Found at i:23028573 original size:22 final size:22
Alignment explanation
Indices: 23028538--23028690 Score: 146
Period size: 22 Copynumber: 7.0 Consensus size: 22
23028528 TTATTTTTAT
* *
23028538 ATTATCAATGATTTACTACTAA
1 ATTATAAATAATTTACTACTAA
*
23028560 ACTATAAATAATTTACTACTAA
1 ATTATAAATAATTTACTACTAA
*
23028582 ATTATGAATAATTTACTACTAA
1 ATTATAAATAATTTACTACTAA
* * * *
23028604 ATTATCATTAATTTATTATTAA
1 ATTATAAATAATTTACTACTAA
*
23028626 TTTATAAATAATTTACTACTAA
1 ATTATAAATAATTTACTACTAA
* * * *
23028648 GTTACAATTAATTTATTA-TAA
1 ATTATAAATAATTTACTACTAA
* * *
23028669 AGTAATAACTTATTTACTACTA
1 A-TTATAAATAATTTACTACTA
23028691 CTTTATCGAT
Statistics
Matches: 105, Mismatches: 24, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
21 3 0.03
22 100 0.95
23 2 0.02
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.44
Consensus pattern (22 bp):
ATTATAAATAATTTACTACTAA
Found at i:23028624 original size:11 final size:11
Alignment explanation
Indices: 23028590--23028666 Score: 55
Period size: 11 Copynumber: 7.0 Consensus size: 11
23028580 AAATTATGAA
* *
23028590 TAATTTACTAC
1 TAATTTATTAT
* *
23028601 TAAATTATCAT
1 TAATTTATTAT
23028612 TAATTTATTAT
1 TAATTTATTAT
* *
23028623 TAATTTATAAA
1 TAATTTATTAT
* *
23028634 TAATTTACTAC
1 TAATTTATTAT
* **
23028645 TAAGTTACAAT
1 TAATTTATTAT
23028656 TAATTTATTAT
1 TAATTTATTAT
23028667 AAAGTAATAA
Statistics
Matches: 49, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
11 49 1.00
ACGTcount: A:0.42, C:0.08, G:0.01, T:0.49
Consensus pattern (11 bp):
TAATTTATTAT
Found at i:23028696 original size:66 final size:66
Alignment explanation
Indices: 23028548--23028731 Score: 160
Period size: 66 Copynumber: 2.8 Consensus size: 66
23028538 ATTATCAATG
** * * *
23028548 ATTTACTACTAAACTATAAATAATTTACTACTAAATTATGAATAATTTACTACTAAATTATCATT
1 ATTTACTACTAATTTATAAATAATTTACTACTAAATTATCAATAATTTACTACTAAATAATAATT
23028613 A
66 A
* * * *
23028614 ATTTATTATTAATTTATAAATAATTTACTACTAAGTTA-CAATTAATTTATTA-TAAAGTAATAA
1 ATTTACTACTAATTTATAAATAATTTACTACTAAATTATCAA-TAATTTACTACTAAA-TAATAA
23028677 CTT-
64 -TTA
* ** * * * *
23028680 ATTTACTACTACTTTATCGATGATTTACTTC-AAAGTTATTAATAATTAACTA
1 ATTTACTACTAATTTATAAATAATTTACTACTAAA-TTATCAATAATTTACTA
23028732 ATTTACTATT
Statistics
Matches: 93, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
65 8 0.09
66 81 0.87
67 4 0.04
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.44
Consensus pattern (66 bp):
ATTTACTACTAATTTATAAATAATTTACTACTAAATTATCAATAATTTACTACTAAATAATAATT
A
Found at i:23028757 original size:22 final size:21
Alignment explanation
Indices: 23028732--23028904 Score: 73
Period size: 22 Copynumber: 7.9 Consensus size: 21
23028722 TAATTAACTA
23028732 ATTTACTATTAAATTATCACTT
1 ATTTACTATTAAATTATCA-TT
* * *
23028754 ATTTA-TAACTAAATTATTAGTA
1 ATTTACT-ATTAAATTATCA-TT
* *
23028776 ATTTACTACTAATAAGTTATCA-A
1 ATTTACTA-T--TAAATTATCATT
* *
23028799 ATTTACTACTAAATTATCAATG
1 ATTTACTATTAAATTATC-ATT
* * * *
23028821 ATATACTAATATATTATTATAT
1 ATTTACTATTAAATTATCAT-T
23028843 ATTTACTATT-AATTATCATTT
1 ATTTACTATTAAATTATCA-TT
* * ** * *
23028864 ATTCACTACATAGTTTTTGATT
1 ATTTACTA-TTAAATTATCATT
*
23028886 ATTTACTATAAAATTATCA
1 ATTTACTATTAAATTATCA
23028905 CAGATCGATT
Statistics
Matches: 108, Mismatches: 32, Indels: 23
0.66 0.20 0.14
Matches are distributed among these distances:
20 8 0.07
21 23 0.21
22 55 0.51
23 14 0.13
25 8 0.07
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (21 bp):
ATTTACTATTAAATTATCATT
Found at i:23028914 original size:29 final size:29
Alignment explanation
Indices: 23028882--23028967 Score: 136
Period size: 29 Copynumber: 3.0 Consensus size: 29
23028872 CATAGTTTTT
*
23028882 GATTATTTACTATAAAATTATCACAGATC
1 GATTATTTACTATAAAATTATCAAAGATC
* *
23028911 GATTATTTACTATAAAATTATCATAGTTC
1 GATTATTTACTATAAAATTATCAAAGATC
*
23028940 AATTATTTACTATAAAATTATCAAAGAT
1 GATTATTTACTATAAAATTATCAAAGAT
23028968 TTATATTAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.41
Consensus pattern (29 bp):
GATTATTTACTATAAAATTATCAAAGATC
Found at i:23028980 original size:21 final size:21
Alignment explanation
Indices: 23028944--23029044 Score: 66
Period size: 21 Copynumber: 4.7 Consensus size: 21
23028934 TAGTTCAATT
*
23028944 ATTTACTATAAAATTATCA-AA
1 ATTTA-TATTAAATTATCACAA
23028965 GATTTATATTAAATTATCA-ATA
1 -ATTTATATTAAATTATCACA-A
* * *
23028987 ATTCAT-TGTCAATTTATCACTA
1 ATTTATAT-T-AAATTATCACAA
*
23029009 ATTTATATTAAATTAT-ACATG
1 ATTTATATTAAATTATCACA-A
23029030 ATTTACTATTAAATT
1 ATTTA-TATTAAATT
23029045 TTTAATAATT
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
20 3 0.05
21 30 0.47
22 30 0.47
23 1 0.02
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.46
Consensus pattern (21 bp):
ATTTATATTAAATTATCACAA
Found at i:23028985 original size:43 final size:43
Alignment explanation
Indices: 23028938--23029044 Score: 101
Period size: 43 Copynumber: 2.5 Consensus size: 43
23028928 TTATCATAGT
*
23028938 TCAATTATTTACTATAAAATTATCA-AAGATTTATATTAAATTA
1 TCAATAATTTACTATAAAATTATCACAA-ATTTATATTAAATTA
* * * * * *
23028981 TCAATAATTCATTGTCAATTTATCACTAATTTATATTAAATTA
1 TCAATAATTTACTATAAAATTATCACAAATTTATATTAAATTA
* *
23029024 T-ACATGATTTACTATTAAATT
1 TCA-ATAATTTACTATAAAATT
23029045 TTTAATAATT
Statistics
Matches: 49, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
42 1 0.02
43 47 0.96
44 1 0.02
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.46
Consensus pattern (43 bp):
TCAATAATTTACTATAAAATTATCACAAATTTATATTAAATTA
Found at i:23029069 original size:65 final size:64
Alignment explanation
Indices: 23028944--23029255 Score: 197
Period size: 65 Copynumber: 4.8 Consensus size: 64
23028934 TAGTTCAATT
* * * * * * *
23028944 ATTTACTATAAAATTATCAA-AGATTTA-TATTAAATTATCAATAATTCATTGTCAATTTATCAC
1 ATTTACTATTAAATTAT-AATA-ATTTACTATTAAATTTTCAATAATTAACTATTAAATTATCA-
*
23029007 TA
63 TG
* *
23029009 ATTTA-TATTAAATTATACATGATTTACTATTAAATTTTTAATAATTAACTATTAAATTATCGAT
1 ATTTACTATTAAATTATA-ATAATTTACTATTAAATTTTCAATAATTAACTATTAAATTATC-AT
23029073 G
64 G
* * * * * *
23029074 ATTCACTATTAAGTTATATTAATTTACTTTTAAGA-TTGCAATAATTAA-TTTCTAAATTATCAT
1 ATTTACTATTAAATTATAATAATTTACTATTAA-ATTTTCAATAATTAACTAT-TAAATTATCA-
23029137 TG
63 TG
* * * * *
23029139 ATTTACTATTAAATTATTTATAATTTACTACTAAGTTTATCAATTAATT-ACTATTAAACTGA-A
1 ATTTACTATTAAATTA-TAATAATTTACTATTAAATTT-TCAA-TAATTAACTATTAAA-TTATC
23029202 ATTG
62 A-TG
* * * * * * *
23029206 ATTTACTATTAAGTTATTATTGATTTATTATTAAGTTATCAATGATTAAC
1 ATTTACTATTAAATTA-TAATAATTTACTATTAAATTTTCAATAATTAAC
23029256 CGATAACTTA
Statistics
Matches: 195, Mismatches: 37, Indels: 29
0.75 0.14 0.11
Matches are distributed among these distances:
63 1 0.01
64 19 0.10
65 89 0.46
66 34 0.17
67 43 0.22
68 9 0.05
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (64 bp):
ATTTACTATTAAATTATAATAATTTACTATTAAATTTTCAATAATTAACTATTAAATTATCATG
Found at i:23029251 original size:22 final size:22
Alignment explanation
Indices: 23028938--23029252 Score: 169
Period size: 22 Copynumber: 14.4 Consensus size: 22
23028928 TTATCATAGT
* *
23028938 TCAATTATTTACTATAAAATTA
1 TCAATGATTTACTATTAAATTA
*
23028960 TCAAAGATTTA-TATTAAATTA
1 TCAATGATTTACTATTAAATTA
* * * * * *
23028981 TCAATAATTCATTGTCAATTTA
1 TCAATGATTTACTATTAAATTA
* *
23029003 TCACTAATTTA-TATTAAATTA
1 TCAATGATTTACTATTAAATTA
*
23029024 T-ACATGATTTACTATTAAATTT
1 TCA-ATGATTTACTATTAAATTA
* * *
23029046 TTAATAATTAACTATTAAATTA
1 TCAATGATTTACTATTAAATTA
* * *
23029068 TCGATGATTCACTATTAAGTTA
1 TCAATGATTTACTATTAAATTA
* * *
23029090 T-ATTAATTTACTTTTAAGATT-
1 TCAATGATTTACTATTAA-ATTA
* * * *
23029111 GCAAT-AATTAATTTCTAAATTA
1 TCAATGATTTACTAT-TAAATTA
*
23029133 TCATTGATTTACTATTAAATTA
1 TCAATGATTTACTATTAAATTA
** * * *
23029155 TTTATAATTTACTACTAAGTTTA
1 TCAATGATTTACTATTAA-ATTA
* * *
23029178 TCAATTAATTACTATTAAACTGA
1 TCAATGATTTACTATTAAA-TTA
*
23029201 --AATTGATTTACTATTAAGTTA
1 TCAA-TGATTTACTATTAAATTA
* * * *
23029222 TTATTGATTTATTATTAAGTTA
1 TCAATGATTTACTATTAAATTA
23029244 TCAATGATT
1 TCAATGATT
23029253 AACCGATAAC
Statistics
Matches: 218, Mismatches: 61, Indels: 28
0.71 0.20 0.09
Matches are distributed among these distances:
20 1 0.00
21 56 0.26
22 135 0.62
23 26 0.12
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.47
Consensus pattern (22 bp):
TCAATGATTTACTATTAAATTA
Found at i:23029727 original size:22 final size:22
Alignment explanation
Indices: 23029545--23029730 Score: 183
Period size: 22 Copynumber: 8.5 Consensus size: 22
23029535 ATGATTGATA
* * *
23029545 ATTAAGTTATCATTGATTTATT
1 ATTAAATTATCAATGATTTACT
* * *
23029567 ATTATATTGTCAGTGATTTACT
1 ATTAAATTATCAATGATTTACT
* *
23029589 ATTAAGTTATCAATGATTTATT
1 ATTAAATTATCAATGATTTACT
* *
23029611 AATAAATTATCTATGATTTACT
1 ATTAAATTATCAATGATTTACT
*
23029633 ATTAAATTATCAATTATTTACT
1 ATTAAATTATCAATGATTTACT
* * *
23029655 ACTAAATTATGAATGATTCACT
1 ATTAAATTATCAATGATTTACT
** *
23029677 ATTAAATTATTGATAATTTACT
1 ATTAAATTATCAATGATTTACT
* * *
23029699 ACTAAATTATTAATGATTTATT
1 ATTAAATTATCAATGATTTACT
*
23029721 ATAAAATTAT
1 ATTAAATTAT
23029731 AACTGCTTTG
Statistics
Matches: 132, Mismatches: 32, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 132 1.00
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.48
Consensus pattern (22 bp):
ATTAAATTATCAATGATTTACT
Found at i:23029842 original size:22 final size:21
Alignment explanation
Indices: 23029808--23029870 Score: 54
Period size: 22 Copynumber: 2.9 Consensus size: 21
23029798 AACTTATCAT
*
23029808 TAATTTACAACTAAGTTATTAG
1 TAATTTACTACTAAGTTATT-G
* *
23029830 TAATTTATTACTACGTTACTTG
1 TAATTTACTACTAAGTTA-TTG
* * *
23029852 TGATTTAGTATTAAGTTAT
1 TAATTTACTACTAAGTTAT
23029871 CAATTTGCTA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 1 0.03
22 30 0.91
23 2 0.06
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (21 bp):
TAATTTACTACTAAGTTATTG
Found at i:23029889 original size:19 final size:21
Alignment explanation
Indices: 23029867--23029916 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
23029857 TAGTATTAAG
23029867 TTATCAAT-T-TGCTACTAAA
1 TTATCAATATATGCTACTAAA
23029886 TTATCAATAATATGCTACTAAA
1 TTATCAAT-ATATGCTACTAAA
*
23029908 TTATTAATA
1 TTATCAATA
23029917 ATTTATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 8 0.30
21 2 0.07
22 17 0.63
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (21 bp):
TTATCAATATATGCTACTAAA
Found at i:23029904 original size:22 final size:22
Alignment explanation
Indices: 23029876--23029918 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
23029866 GTTATCAATT
23029876 TGCTACTAAATTATCAATAATA
1 TGCTACTAAATTATCAATAATA
*
23029898 TGCTACTAAATTATTAATAAT
1 TGCTACTAAATTATCAATAAT
23029919 TTATTATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.40
Consensus pattern (22 bp):
TGCTACTAAATTATCAATAATA
Found at i:23030009 original size:22 final size:21
Alignment explanation
Indices: 23029977--23030035 Score: 84
Period size: 22 Copynumber: 2.8 Consensus size: 21
23029967 TAACTTAATT
23029977 TTTTATT-ATTTACTACAAAA
1 TTTTATTAATTTACTACAAAA
*
23029997 TTATTATTAATTTACTGCAAAA
1 TT-TTATTAATTTACTACAAAA
23030019 TTTTATATAATTTACTA
1 TTTTAT-TAATTTACTA
23030036 TTAAGTTATC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.06
21 9 0.26
22 23 0.68
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (21 bp):
TTTTATTAATTTACTACAAAA
Found at i:23030215 original size:22 final size:22
Alignment explanation
Indices: 23030190--23030270 Score: 72
Period size: 22 Copynumber: 3.7 Consensus size: 22
23030180 ATCAAAATAG
* *
23030190 ACTATCAAATTATCAGTAATTT
1 ACTATTAAATTATCAATAATTT
** * *
23030212 ACTATTAAGCTATTATTAATTT
1 ACTATTAAATTATCAATAATTT
* *
23030234 ATTATTAAATTATCAATAATTA
1 ACTATTAAATTATCAATAATTT
* *
23030256 ACTACTAAGTTATCA
1 ACTATTAAATTATCA
23030271 TTTATTTTTG
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (22 bp):
ACTATTAAATTATCAATAATTT
Found at i:23030431 original size:22 final size:22
Alignment explanation
Indices: 23030406--23030464 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
23030396 TTATTGATTT
23030406 ACTACTAAGTTATCAATTATTG
1 ACTACTAAGTTATCAATTATTG
* * *
23030428 ACTACTAAATTATCATTTATTT
1 ACTACTAAGTTATCAATTATTG
*
23030450 ACTATTAAGTTATCA
1 ACTACTAAGTTATCA
23030465 CTAATATTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.37, C:0.14, G:0.05, T:0.44
Consensus pattern (22 bp):
ACTACTAAGTTATCAATTATTG
Found at i:23031911 original size:22 final size:22
Alignment explanation
Indices: 23031868--23031954 Score: 79
Period size: 22 Copynumber: 4.0 Consensus size: 22
23031858 TATTTAAATG
* * *
23031868 CTATCATTTACTACTAAGTTAT
1 CTATGATTTATTATTAAGTTAT
*
23031890 CTATGATTTATTATTAACTTAT
1 CTATGATTTATTATTAAGTTAT
*
23031912 -TACTGATTAATTATTAAGTTAT
1 CTA-TGATTTATTATTAAGTTAT
* * *
23031934 CAATTA-TTACTATTAAGTTAT
1 CTATGATTTATTATTAAGTTAT
23031955 ACTAATTACT
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
21 15 0.28
22 37 0.70
23 1 0.02
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.49
Consensus pattern (22 bp):
CTATGATTTATTATTAAGTTAT
Found at i:23031949 original size:21 final size:21
Alignment explanation
Indices: 23031923--23032012 Score: 76
Period size: 22 Copynumber: 4.2 Consensus size: 21
23031913 ACTGATTAAT
23031923 TATTAAGTTATCAATTATTAC
1 TATTAAGTTATCAATTATTAC
* *
23031944 TATTAAGTTAT-ACTAATTAC
1 TATTAAGTTATCAATTATTAC
* * *
23031964 TTTTAAGTT-TCCAATCATTAAT
1 TATTAAGTTAT-CAATTATT-AC
* *
23031986 TAATAAGTTATCAATTATCTAA
1 TATTAAGTTATCAATTAT-TAC
23032008 TATTA
1 TATTA
23032013 TATTATCGTT
Statistics
Matches: 53, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
19 1 0.02
20 15 0.28
21 16 0.30
22 19 0.36
23 2 0.04
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.47
Consensus pattern (21 bp):
TATTAAGTTATCAATTATTAC
Found at i:23031964 original size:20 final size:21
Alignment explanation
Indices: 23031923--23032000 Score: 70
Period size: 21 Copynumber: 3.7 Consensus size: 21
23031913 ACTGATTAAT
*
23031923 TATTAAGTTATCAATTATTAC
1 TATTAAGTTATCAATAATTAC
*
23031944 TATTAAGTTAT-ACTAATTAC
1 TATTAAGTTATCAATAATTAC
* * *
23031964 TTTTAAGTT-TCCAATCATTAAT
1 TATTAAGTTAT-CAATAATT-AC
*
23031986 TAATAAGTTATCAAT
1 TATTAAGTTATCAAT
23032001 TATCTAATAT
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
19 1 0.02
20 15 0.33
21 16 0.36
22 12 0.27
23 1 0.02
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.46
Consensus pattern (21 bp):
TATTAAGTTATCAATAATTAC
Found at i:23032558 original size:14 final size:14
Alignment explanation
Indices: 23032523--23032557 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
23032513 AAAAGTAATG
23032523 AAAAAAAATTTACT
1 AAAAAAAATTTACT
*
23032537 AAACAAAATTTA-T
1 AAAAAAAATTTACT
23032550 AAAAAAAA
1 AAAAAAAA
23032558 AAAACAACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAAAAAATTTACT
Found at i:23032564 original size:22 final size:22
Alignment explanation
Indices: 23032537--23032579 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
23032527 AAAATTTACT
23032537 AAACAAAATTTATAAAAAAAAA
1 AAACAAAATTTATAAAAAAAAA
* * *
23032559 AAACAACATTTTTTAAAAAAA
1 AAACAAAATTTATAAAAAAAA
23032580 TATTAAGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (22 bp):
AAACAAAATTTATAAAAAAAAA
Found at i:23035147 original size:19 final size:20
Alignment explanation
Indices: 23035110--23035147 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23035100 AAGTAAATAA
* *
23035110 AATGATTTAATTATATTATC
1 AATGATTAAATAATATTATC
23035130 AATGATTAAATAAT-TTAT
1 AATGATTAAATAATATTAT
23035148 ACAAAAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (20 bp):
AATGATTAAATAATATTATC
Found at i:23035626 original size:17 final size:17
Alignment explanation
Indices: 23035604--23035636 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
23035594 AGCATTTATT
*
23035604 AGTCTAATTATTAAAAG
1 AGTCTAATAATTAAAAG
23035621 AGTCTAATAATTAAAA
1 AGTCTAATAATTAAAA
23035637 ATATTCATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (17 bp):
AGTCTAATAATTAAAAG
Found at i:23037296 original size:30 final size:30
Alignment explanation
Indices: 23037240--23037312 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
23037230 CTTATTTAGT
**
23037240 TATAAATTAAAAGTTTAAGAGTTCATTTG-G
1 TATAAATT-AAAGGATAAGAGTTCATTTGAG
*
23037270 ATATAAATTAAAGGATAAGGGTTCATTTGAG
1 -TATAAATTAAAGGATAAGAGTTCATTTGAG
23037301 TATAAATTAAAG
1 TATAAATTAAAG
23037313 ATTACAAACT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 29 0.76
31 9 0.24
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.36
Consensus pattern (30 bp):
TATAAATTAAAGGATAAGAGTTCATTTGAG
Found at i:23042537 original size:6 final size:6
Alignment explanation
Indices: 23042522--23042589 Score: 55
Period size: 6 Copynumber: 10.7 Consensus size: 6
23042512 ACCCTAATCG
* * * *
23042522 TAAACC TAAACT TAAACCC TAAGCC CAAACTC TAAACT TAAACC TAAACC
1 TAAACC TAAACC TAAA-CC TAAACC TAAAC-C TAAACC TAAACC TAAACC
*
23042572 TTAAACC CAAACCC TAAA
1 -TAAACC TAAA-CC TAAA
23042590 TTTTAAATTT
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
6 28 0.58
7 20 0.42
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.19
Consensus pattern (6 bp):
TAAACC
Found at i:23042542 original size:13 final size:13
Alignment explanation
Indices: 23042510--23042583 Score: 64
Period size: 13 Copynumber: 5.8 Consensus size: 13
23042500 TATAAACCCA
* *
23042510 AAACCCTAATCGT
1 AAACCCTAAACTT
23042523 AAA-CCTAAACTT
1 AAACCCTAAACTT
* **
23042535 AAACCCTAAGCCC
1 AAACCCTAAACTT
*
23042548 AAACTCTAAACTT
1 AAACCCTAAACTT
23042561 AAA-CCTAAACCTT
1 AAACCCTAAA-CTT
23042574 AAACCC-AAAC
1 AAACCCTAAAC
23042584 CCTAAATTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
12 16 0.33
13 30 0.62
14 2 0.04
ACGTcount: A:0.46, C:0.32, G:0.03, T:0.19
Consensus pattern (13 bp):
AAACCCTAAACTT
Found at i:23042551 original size:104 final size:104
Alignment explanation
Indices: 23042431--23042672 Score: 420
Period size: 104 Copynumber: 2.4 Consensus size: 104
23042421 CCTTGAAACC
* *
23042431 AAACCCTAAGCTCAAACTCTAAACTTAAACCTAAACTTTAAACCCAAACCCTAAATTTTAAATTT
1 AAACCCTAAGCCCAAACTCTAAACTTAAACCTAAACCTTAAACCCAAACCCTAAATTTTAAATTT
23042496 AAATTATAAACCCAAAACCCTAATCGTAAACCTAAACTT
66 AAATTATAAACCCAAAACCCTAATCGTAAACCTAAACTT
23042535 AAACCCTAAGCCCAAACTCTAAACTTAAACCTAAACCTTAAACCCAAACCCTAAATTTTAAATTT
1 AAACCCTAAGCCCAAACTCTAAACTTAAACCTAAACCTTAAACCCAAACCCTAAATTTTAAATTT
23042600 AAATTATAAACCCAAAACCCTAATCGTAAACCTAAACTT
66 AAATTATAAACCCAAAACCCTAATCGTAAACCTAAACTT
*
23042639 AAACCCTAA-ACC-AACT-TAAATCTTAAACC-AAACC
1 AAACCCTAAGCCCAAACTCTAAA-CTTAAACCTAAACC
23042673 CCAAACCTTA
Statistics
Matches: 134, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
101 9 0.07
102 12 0.09
103 2 0.01
104 111 0.83
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.24
Consensus pattern (104 bp):
AAACCCTAAGCCCAAACTCTAAACTTAAACCTAAACCTTAAACCCAAACCCTAAATTTTAAATTT
AAATTATAAACCCAAAACCCTAATCGTAAACCTAAACTT
Found at i:23042576 original size:19 final size:18
Alignment explanation
Indices: 23042522--23042589 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 18
23042512 ACCCTAATCG
23042522 TAAACCTAAACTTAAACCC
1 TAAACCTAAACTTAAA-CC
* * *
23042541 TAAGCCCAAACTCTAAACT
1 TAAACCTAAACT-TAAACC
23042560 TAAACCTAAACCTTAAACC
1 TAAACCTAAA-CTTAAACC
*
23042579 CAAACCCTAAA
1 TAAA-CCTAAA
23042590 TTTTAAATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
19 27 0.69
20 12 0.31
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.19
Consensus pattern (18 bp):
TAAACCTAAACTTAAACC
Found at i:23042656 original size:17 final size:17
Alignment explanation
Indices: 23042634--23042669 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
23042624 CGTAAACCTA
23042634 AACTTAAACCCTAAACC
1 AACTTAAACCCTAAACC
* *
23042651 AACTTAAATCTTAAACC
1 AACTTAAACCCTAAACC
23042668 AA
1 AA
23042670 ACCCCAAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (17 bp):
AACTTAAACCCTAAACC
Found at i:23042709 original size:17 final size:19
Alignment explanation
Indices: 23042606--23042713 Score: 64
Period size: 19 Copynumber: 5.6 Consensus size: 19
23042596 ATTTAAATTA
* * *
23042606 TAAACCCAAAACCCTAATCG
1 TAAACCCTAAACCTTAA-CC
23042626 TAAA-CCTAAA-CTTAAACCC
1 TAAACCCTAAACCTT-AA-CC
*
23042645 TAAACCAACTTAAATCTTAAACC
1 TAAACC--C-TAAACCTT-AACC
*
23042668 -AAACCCCAAACCTTAACC
1 TAAACCCTAAACCTTAACC
*
23042686 TAGACCCTAAACC-T-ACC
1 TAAACCCTAAACCTTAACC
23042703 TAAACCCTAAA
1 TAAACCCTAAA
23042714 AATCTGAACC
Statistics
Matches: 72, Mismatches: 9, Indels: 17
0.73 0.09 0.17
Matches are distributed among these distances:
17 13 0.18
18 7 0.10
19 28 0.39
20 6 0.08
22 6 0.08
23 6 0.08
24 6 0.08
ACGTcount: A:0.45, C:0.34, G:0.02, T:0.19
Consensus pattern (19 bp):
TAAACCCTAAACCTTAACC
Found at i:23047442 original size:32 final size:33
Alignment explanation
Indices: 23047396--23047489 Score: 93
Period size: 32 Copynumber: 2.9 Consensus size: 33
23047386 AGAATTCACC
* * **
23047396 TCTTGTAGAAGTTGATGCTTTATTGAAGTT-CT
1 TCTTATAGAAGTTGATGCTCTATAAAAGTTCCT
*
23047428 TCTTATAGAGGTTGATGCTCTATAAAAGTTCCT
1 TCTTATAGAAGTTGATGCTCTATAAAAGTTCCT
* * *
23047461 TCTTGT-GAAAGTCGTTGCTCTATAAAAGT
1 TCTTATAG-AAGTTGATGCTCTATAAAAGT
23047490 GACCTATTGT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
32 26 0.51
33 25 0.49
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (33 bp):
TCTTATAGAAGTTGATGCTCTATAAAAGTTCCT
Found at i:23050612 original size:23 final size:23
Alignment explanation
Indices: 23050596--23050641 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
23050586 AAATTTAAAT
23050596 TAATCTGAAAGATAAATATCTAA
1 TAATCTGAAAGATAAATATCTAA
*
23050619 TATTCTGAAAGATAAATATCTAA
1 TAATCTGAAAGATAAATATCTAA
23050642 CATATTCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.33
Consensus pattern (23 bp):
TAATCTGAAAGATAAATATCTAA
Found at i:23057938 original size:19 final size:17
Alignment explanation
Indices: 23057914--23057950 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
23057904 AAATATTGAA
23057914 ATATTTTTTATGAATATAT
1 ATATTTTTTA--AATATAT
23057933 ATATTTTTTAAATATAT
1 ATATTTTTTAAATATAT
23057950 A
1 A
23057951 CTTTGTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
19 10 0.56
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
ATATTTTTTAAATATAT
Found at i:23067995 original size:42 final size:42
Alignment explanation
Indices: 23067934--23068013 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
23067924 TTCTGAATAT
*
23067934 GTCTAATACATCATTTATCATAAGG-GTAAATTAAACAAGTCC
1 GTCTAATACATCATGTATCATAAGGTG-AAATTAAACAAGTCC
*
23067976 GTCTAATACATCATGTATCATTAGGTGAAATTAAACAA
1 GTCTAATACATCATGTATCATAAGGTGAAATTAAACAA
23068014 ATCCCTTGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 34 0.97
43 1 0.03
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.31
Consensus pattern (42 bp):
GTCTAATACATCATGTATCATAAGGTGAAATTAAACAAGTCC
Found at i:23075351 original size:29 final size:31
Alignment explanation
Indices: 23075293--23075363 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 31
23075283 GAATCATCTT
*
23075293 TAAATTATAATAAAATATTTAATATAATATA
1 TAAATTATAAAAAAATATTTAATATAATATA
* * *
23075324 TAAATT-TAAAAAAAT-TTTAATGTGATATT
1 TAAATTATAAAAAAATATTTAATATAATATA
*
23075353 TAAACTATAAA
1 TAAATTATAAA
23075364 TTTATTAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 16 0.47
30 12 0.35
31 6 0.18
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (31 bp):
TAAATTATAAAAAAATATTTAATATAATATA
Done.