Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold168
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: 2098754
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
File 9 of 16
Found at i:932654 original size:18 final size:18
Alignment explanation
Indices: 932631--932665 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
932621 AGTTAAAATT
932631 TTAAAAATTAAGTTTAAA
1 TTAAAAATTAAGTTTAAA
* *
932649 TTAAAATTTAATTTTAA
1 TTAAAAATTAAGTTTAA
932666 TTTTTTAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
TTAAAAATTAAGTTTAAA
Found at i:932742 original size:12 final size:11
Alignment explanation
Indices: 932719--932768 Score: 52
Period size: 12 Copynumber: 4.6 Consensus size: 11
932709 ATATTAAAAA
*
932719 AATATTTTTAT
1 AATAATTTTAT
932730 AATAATATTTAT
1 AATAAT-TTTAT
932742 -AT-ATTTTAT
1 AATAATTTTAT
932751 AATTAATTTTA-
1 AA-TAATTTTAT
932762 AATAATT
1 AATAATT
932769 AATATCACCT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
9 5 0.15
10 8 0.24
11 10 0.29
12 11 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
AATAATTTTAT
Found at i:932745 original size:22 final size:21
Alignment explanation
Indices: 932720--932761 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
932710 TATTAAAAAA
932720 ATAT-TTTTATAA-TAATATTT
1 ATATATTTTATAATTAAT-TTT
932740 ATATATTTTATAATTAATTTT
1 ATATATTTTATAATTAATTTT
932761 A
1 A
932762 AATAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATATTTTATAATTAATTTT
Found at i:933523 original size:18 final size:17
Alignment explanation
Indices: 933489--933552 Score: 51
Period size: 19 Copynumber: 3.6 Consensus size: 17
933479 TTTTTAGCTA
*
933489 AAATTTTATTTAT-TTT
1 AAATTTTAATTATATTT
933505 AAATATTTAATTATATTT
1 AAAT-TTTAATTATATTT
*
933523 AAAATATTATATATT-TATAT
1 -AAAT-TT-TA-ATTATATTT
933543 AAATTTTAAT
1 AAATTTTAAT
933553 ATTTTTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
16 6 0.15
17 10 0.24
18 5 0.12
19 11 0.27
20 6 0.15
21 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AAATTTTAATTATATTT
Found at i:933811 original size:15 final size:16
Alignment explanation
Indices: 933790--933821 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
933780 TTTTATTAAT
933790 TATATATATAAATATAA
1 TATATAT-TAAATATAA
933807 TATATATTAAATATA
1 TATATATTAAATATA
933822 TTTAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TATATATTAAATATAA
Found at i:934051 original size:5 final size:5
Alignment explanation
Indices: 934033--934105 Score: 59
Period size: 5 Copynumber: 15.4 Consensus size: 5
934023 AGTTTTTAAT
* * *
934033 TTATA TTA-A ATATA TTATA TTA-A TAATA TT-TAA TGATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTAT-A TTATA TTATA TTATA
934081 TT-TA TTATA TTATTA TT-TA TT-TA TT
1 TTATA TTATA TTA-TA TTATA TTATA TT
934106 TAAGCATATT
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
4 19 0.34
5 32 0.57
6 5 0.09
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:934055 original size:24 final size:25
Alignment explanation
Indices: 934028--934085 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
934018 ATAAAAGTTT
934028 TTAATTTATATTAAAT-ATATTATA
1 TTAATTTATATTAAATGATATTATA
* *
934052 TTAA-TAATATTTAATGATATTATA
1 TTAATTTATATTAAATGATATTATA
934076 TTATATTTAT
1 TTA-ATTTAT
934086 TATATTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 9 0.32
24 15 0.54
25 1 0.04
26 3 0.11
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (25 bp):
TTAATTTATATTAAATGATATTATA
Found at i:934061 original size:9 final size:9
Alignment explanation
Indices: 934046--934108 Score: 51
Period size: 9 Copynumber: 7.1 Consensus size: 9
934036 TATTAAATAT
934046 ATTATATTA
1 ATTATATTA
*
934055 ATAATATTTA
1 ATTATA-TTA
*
934065 ATGATATTA
1 ATTATATTA
*
934074 TATTATATTT
1 -ATTATATTA
934084 ATTATATT-
1 ATTATATTA
934092 ATTAT-TTA
1 ATTATATTA
*
934100 TTTAT-TTA
1 ATTATATTA
934108 A
1 A
934109 GCATATTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
7 2 0.04
8 12 0.27
9 16 0.36
10 15 0.33
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (9 bp):
ATTATATTA
Found at i:934086 original size:24 final size:23
Alignment explanation
Indices: 934028--934108 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 23
934018 ATAAAAGTTT
934028 TTAATTTATATTAAATATATTATA
1 TTAATTTAT-TTAAATATATTATA
*
934052 TTAATAATATTT-AATGATATTATA
1 TTAAT-TTATTTAAAT-ATATTATA
*
934076 TTATATTTA-TTATAT-TATTAT-
1 TTA-ATTTATTTAAATATATTATA
934097 TT-ATTTATTTAA
1 TTAATTTATTTAA
934109 GCATATTTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
19 5 0.10
20 3 0.06
21 2 0.04
22 6 0.12
23 5 0.10
24 22 0.46
25 5 0.10
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (23 bp):
TTAATTTATTTAAATATATTATA
Found at i:934093 original size:14 final size:14
Alignment explanation
Indices: 934033--934105 Score: 60
Period size: 14 Copynumber: 5.1 Consensus size: 14
934023 AGTTTTTAAT
* *
934033 TTATATTAAATATA
1 TTATATTTATTATA
* *
934047 TTATATTAATAATA
1 TTATATTTATTATA
*
934061 TT-TAATGATATTATA
1 TTAT-AT-TTATTATA
934076 TTATATTTATTATA
1 TTATATTTATTATA
934090 TTATTATTTATT-TA
1 TTA-TATTTATTATA
934104 TT
1 TT
934106 TAAGCATATT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
13 1 0.02
14 30 0.61
15 17 0.35
16 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (14 bp):
TTATATTTATTATA
Found at i:934969 original size:26 final size:26
Alignment explanation
Indices: 934937--934989 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
934927 TTACTTTTGA
934937 ATGTAAGAATAAAAATATGATATTTT
1 ATGTAAGAATAAAAATATGATATTTT
*
934963 ATGTAAGAATGAAAATATGATATTTT
1 ATGTAAGAATAAAAATATGATATTTT
934989 A
1 A
934990 AAATTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (26 bp):
ATGTAAGAATAAAAATATGATATTTT
Found at i:936038 original size:16 final size:17
Alignment explanation
Indices: 936017--936051 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
936007 TAATTATAAA
936017 TTTTTTAAAAATA-TAT
1 TTTTTTAAAAATATTAT
*
936033 TTTTTTAAATATATTAT
1 TTTTTTAAAAATATTAT
936050 TT
1 TT
936052 ACATAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTTTAAAAATATTAT
Found at i:939967 original size:17 final size:18
Alignment explanation
Indices: 939945--939990 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
939935 ATGATTACAT
939945 AATATAA-A-AATAATTAA
1 AATATAATATAAT-ATTAA
939962 AATATAATATAATATTAA
1 AATATAATATAATATTAA
939980 AA-ATAATATAA
1 AATATAATATAA
939991 AATATATCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 16 0.59
18 8 0.30
19 3 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AATATAATATAATATTAA
Found at i:939969 original size:22 final size:20
Alignment explanation
Indices: 939943--940002 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
939933 ATATGATTAC
939943 ATAATATAAAAATAATTAAAA
1 ATAATATAAAAAT-ATTAAAA
939964 TATAATAT---AATATTAAAA
1 -ATAATATAAAAATATTAAAA
*
939982 ATAATATAAAATATATCAAAA
1 ATAATATAAAA-ATATTAAAA
940003 TTTATATCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
17 7 0.21
18 7 0.21
19 3 0.09
20 1 0.03
21 8 0.24
22 7 0.21
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
ATAATATAAAAATATTAAAA
Found at i:943163 original size:17 final size:17
Alignment explanation
Indices: 943141--943178 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
943131 TAATTAAAAT
* *
943141 ATGATATAAAATATAAC
1 ATGATAAAAAATATAAA
943158 ATGATAAAAAATATAAA
1 ATGATAAAAAATATAAA
943175 ATGA
1 ATGA
943179 ATATTTAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (17 bp):
ATGATAAAAAATATAAA
Found at i:943978 original size:21 final size:20
Alignment explanation
Indices: 943954--944000 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
943944 ACTTGAGTAA
* *
943954 TTATTTGGTATGAGTATGTAT
1 TTATTTAGTATGAGTATAT-T
*
943975 TTATTTATTATGAGTATATT
1 TTATTTAGTATGAGTATATT
943995 TTATTT
1 TTATTT
944001 TTAAATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.60
Consensus pattern (20 bp):
TTATTTAGTATGAGTATATT
Found at i:944293 original size:17 final size:18
Alignment explanation
Indices: 944248--944295 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 18
944238 TTCAAAATCA
*
944248 ATAT-AATATAAATTATT
1 ATATAAATATAAAATATT
*
944265 AT-TATATA-AAAAT-TT
1 ATATAAATATAAAATATT
944280 ATATAAATATAAAATA
1 ATATAAATATAAAATA
944296 ATTTATATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 7
0.71 0.09 0.21
Matches are distributed among these distances:
15 4 0.17
16 10 0.42
17 10 0.42
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATAAATATAAAATATT
Found at i:944312 original size:22 final size:20
Alignment explanation
Indices: 944265--944319 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
944255 ATAAATTATT
944265 ATTATATAAA-AATTTATATA
1 ATTATA-AAATAATTTATATA
*
944285 AATATAAAATAATTTATATA
1 ATTATAAAATAATTTATATA
*
944305 CGATTATAACATAAT
1 --ATTATAAAATAAT
944320 AAAATTCACA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 3 0.10
20 15 0.52
22 11 0.38
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (20 bp):
ATTATAAAATAATTTATATA
Found at i:944667 original size:21 final size:21
Alignment explanation
Indices: 944641--944680 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
944631 AGTTAAAAAT
944641 TATTTTATA-TTAATATTTATA
1 TATTTTATATTTAA-ATTTATA
944662 TATTTTATATTTAAATTTA
1 TATTTTATATTTAAATTTA
944681 AATAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTATATTTAAATTTATA
Found at i:944692 original size:19 final size:19
Alignment explanation
Indices: 944668--944727 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
944658 TATATATTTT
944668 ATATTTAAATTTAAATAAA
1 ATATTTAAATTTAAATAAA
* **
944687 ATATTTTAATTACTAAATATT
1 ATATTTAAATT--TAAATAAA
944708 A-ATTTAAA-TT-AATAAA
1 ATATTTAAATTTAAATAAA
944724 ATAT
1 ATAT
944728 ATATTTAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 5 0.16
17 3 0.09
19 11 0.34
20 6 0.19
21 7 0.22
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATTTAAATTTAAATAAA
Found at i:944733 original size:21 final size:21
Alignment explanation
Indices: 944667--944736 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 21
944657 TTATATATTT
944667 TATATTTAAATTTAA-ATAAA-A
1 TATATTTAAA-TTAATA-AAATA
*
944688 TAT-TTT-AATTACT-AAATA
1 TATATTTAAATTAATAAAATA
944706 T-TAATTTAAATTAATAAAATA
1 TAT-ATTTAAATTAATAAAATA
944727 TATATTTAAA
1 TATATTTAAA
944737 ACGCGAGCTA
Statistics
Matches: 40, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
17 4 0.10
18 5 0.12
19 5 0.12
20 9 0.22
21 16 0.40
22 1 0.03
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (21 bp):
TATATTTAAATTAATAAAATA
Found at i:945181 original size:22 final size:24
Alignment explanation
Indices: 945150--945194 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
945140 ATACTAAAAG
945150 AAAATTATAAAAAAATAT-TAATC
1 AAAATTATAAAAAAATATATAATC
945173 AAAA-TATAAAAAAATATATAAT
1 AAAATTATAAAAAAATATATAAT
945195 TAATTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (24 bp):
AAAATTATAAAAAAATATATAATC
Found at i:945360 original size:25 final size:26
Alignment explanation
Indices: 945328--945418 Score: 78
Period size: 32 Copynumber: 3.3 Consensus size: 26
945318 TATTATAAAT
945328 TATA-TTTAAAATATTT-TTTATTTA
1 TATATTTTAAAATATTTATTTATTTA
*
945352 TATATTTTAATATATTAATAATTTATATAATA
1 TATATTTTAAAATATT--T-ATTTAT-T--TA
* *
945384 TAAATTTTAAAATATTTATATATTTA
1 TATATTTTAAAATATTTATTTATTTA
945410 TATTATTTT
1 TA-TATTTT
945419 TATATTATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 15
0.73 0.07 0.21
Matches are distributed among these distances:
24 4 0.08
25 10 0.19
26 4 0.08
27 6 0.11
28 1 0.02
29 10 0.19
30 2 0.04
32 16 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
TATATTTTAAAATATTTATTTATTTA
Found at i:945364 original size:8 final size:8
Alignment explanation
Indices: 945348--945463 Score: 51
Period size: 8 Copynumber: 14.1 Consensus size: 8
945338 ATATTTTTTA
945348 TTTATATAT
1 TTTA-ATAT
945357 TTTAATAT
1 TTTAATAT
* *
945365 ATTAATAA
1 TTTAATAT
*
945373 TTTATATAA
1 TTTA-ATAT
*
945382 TATAA-AT
1 TTTAATAT
*
945389 TTTAAAAT
1 TTTAATAT
945397 ATTTATATAT
1 -TTTA-ATAT
*
945407 TTATATTAT
1 TT-TAATAT
*
945416 TTTTATAT
1 TTTAATAT
*
945424 TATAATAT
1 TTTAATAT
945432 ATTT--TA-
1 -TTTAATAT
*
945438 TATAATAT
1 TTTAATAT
945446 TTTAATTAT
1 TTTAA-TAT
*
945455 TTTTATAT
1 TTTAATAT
945463 T
1 T
945464 ATGTTAGGGA
Statistics
Matches: 81, Mismatches: 16, Indels: 21
0.69 0.14 0.18
Matches are distributed among these distances:
5 2 0.02
7 9 0.11
8 34 0.42
9 31 0.38
10 5 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TTTAATAT
Found at i:945365 original size:56 final size:56
Alignment explanation
Indices: 945304--945463 Score: 139
Period size: 59 Copynumber: 2.8 Consensus size: 56
945294 GAATAATTCA
945304 TATATATTTTATTATATTATAAATTATATTTAAAATATTTTTTATTTATA-TATTT
1 TATATATTTTATTATATTATAAATTATATTTAAAATATTTTTTATTTATATTATTT
* * * *
945359 TA-ATATATTAATA-ATTTATATAATATAAATTTTAAAATATTTATATATTTATATTATTT
1 TATATATTTTATTATA-TTATA-AAT-TATA-TTTAAAATATTT-TTTATTTATATTATTT
* * * * * * *
945418 T-TATATTATAATATATTTTATATAATATTTTAATTATTTTTATATT
1 TATATATTTTATTATATTATAAATTATATTTAAAATATTTTT-TATT
945464 ATGTTAGGGA
Statistics
Matches: 83, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
53 1 0.01
54 14 0.17
55 6 0.07
56 17 0.20
57 14 0.17
58 11 0.13
59 19 0.23
60 1 0.01
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (56 bp):
TATATATTTTATTATATTATAAATTATATTTAAAATATTTTTTATTTATATTATTT
Found at i:945392 original size:32 final size:33
Alignment explanation
Indices: 945350--945412 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
945340 ATTTTTTATT
* *
945350 TATATATTTTAATATATTAATA-ATTTATATAA
1 TATAAATTTTAAAATATTAATATATTTATATAA
*
945382 TATAAATTTTAAAATATTTATATATTTATAT
1 TATAAATTTTAAAATATTAATATATTTATAT
945413 TATTTTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 19 0.70
33 8 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (33 bp):
TATAAATTTTAAAATATTAATATATTTATATAA
Found at i:945422 original size:11 final size:11
Alignment explanation
Indices: 945406--945465 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
945396 TATTTATATA
945406 TTTATATTATT
1 TTTATATTATT
945417 TTTATATTA--
1 TTTATATTATT
*
945426 -TAATA-TA-T
1 TTTATATTATT
*
945434 TTTATATAATAT
1 TTTATATTAT-T
945446 TTTA-ATTATT
1 TTTATATTATT
945456 TTTATATTAT
1 TTTATATTAT
945466 GTTAGGGATT
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
7 2 0.05
8 4 0.10
9 4 0.10
10 6 0.15
11 18 0.46
12 5 0.13
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTATATTATT
Found at i:945436 original size:17 final size:17
Alignment explanation
Indices: 945395--945440 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
945385 AAATTTTAAA
*
945395 ATATTTATATATTTATATT
1 ATATTT-TATA-TTATAAT
945414 AT-TTTTATATTATAAT
1 ATATTTTATATTATAAT
945430 ATATTTTATAT
1 ATATTTTATAT
945441 AATATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 8 0.32
17 12 0.48
18 3 0.12
19 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATATTTTATATTATAAT
Found at i:945437 original size:28 final size:29
Alignment explanation
Indices: 945400--945454 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
945390 TTAAAATATT
*
945400 TATATATTTATATTAT-TTTTATATTATAA
1 TATATATTTATATAATATTTTA-ATTATAA
945429 TATAT-TTTATATAATATTTTAATTAT
1 TATATATTTATATAATATTTTAATTAT
945455 TTTTATATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (29 bp):
TATATATTTATATAATATTTTAATTATAA
Found at i:952105 original size:2 final size:2
Alignment explanation
Indices: 952098--952166 Score: 131
Period size: 2 Copynumber: 35.0 Consensus size: 2
952088 AGGCACACTC
952098 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
952140 AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
952167 TAAAGTTTAA
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 65 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:953093 original size:17 final size:15
Alignment explanation
Indices: 953063--953105 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
953053 AAAAATTAAA
*
953063 ATTAAATATTTTTAT
1 ATTAAATATTTTTAC
953078 ATTAAATATATATTTAC
1 ATTAAATAT-T-TTTAC
*
953095 ATTTAATATTT
1 ATTAAATATTT
953106 ATCTAATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 10 0.42
16 2 0.08
17 12 0.50
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTAAATATTTTTAC
Found at i:953492 original size:21 final size:22
Alignment explanation
Indices: 953446--953494 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
953436 AATCACTATG
*
953446 ATAAAATTTTTTAAAATTAATA
1 ATAAAATTTTGTAAAATTAATA
953468 ATAAAA-TTTGTAAATATTAAT-
1 ATAAAATTTTGTAAA-ATTAATA
953489 ATAAAA
1 ATAAAA
953495 ATAATATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
ATAAAATTTTGTAAAATTAATA
Found at i:953495 original size:22 final size:21
Alignment explanation
Indices: 953446--953496 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
953436 AATCACTATG
* *
953446 ATAAAATTTTTTAAAATTAAT
1 ATAAAAATTTGTAAAATTAAT
953467 A-ATAAAATTTGTAAATATTAAT
1 ATA-AAAATTTGTAAA-ATTAAT
953489 ATAAAAAT
1 ATAAAAAT
953497 AATATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 1 0.04
21 11 0.44
22 12 0.48
23 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
ATAAAAATTTGTAAAATTAAT
Found at i:953497 original size:27 final size:26
Alignment explanation
Indices: 953464--953529 Score: 71
Period size: 28 Copynumber: 2.5 Consensus size: 26
953454 TTTTAAAATT
953464 AATAATAAAATTTGTAAATATTAATATA
1 AATAATAAAATTTGTAAATATT--TATA
* * *
953492 AA-AATAATATTTTTTAAATATTTTTA
1 AATAATAA-AATTTGTAAATATTTATA
953518 AATAATAAAATT
1 AATAATAAAATT
953530 AATTTATTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
26 8 0.25
27 10 0.31
28 14 0.44
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (26 bp):
AATAATAAAATTTGTAAATATTTATA
Found at i:953772 original size:2 final size:2
Alignment explanation
Indices: 953765--953791 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
953755 TTAGTGTATG
953765 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 T
953792 GAAATTTAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:955296 original size:17 final size:16
Alignment explanation
Indices: 955269--955330 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 16
955259 ATTTAATATG
955269 ATTAGTAAATATCAAAAA
1 ATTA-TAAATAT-AAAAA
*
955287 ATTTTAAATA-AAAAA
1 ATTATAAATATAAAAA
*
955302 ATTATAAATATTAAAA
1 ATTATAAATATAAAAA
* *
955318 TTTA-AAATTTAAA
1 ATTATAAATATAAA
955331 TTTATTAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
15 21 0.57
16 7 0.19
17 6 0.16
18 3 0.08
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (16 bp):
ATTATAAATATAAAAA
Found at i:955507 original size:2 final size:2
Alignment explanation
Indices: 955500--955531 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
955490 ATCAGAGATG
955500 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
955532 GAAAATGCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:957240 original size:12 final size:13
Alignment explanation
Indices: 957223--957252 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
957213 TCTTTTGTTA
957223 TTTTAG-TTTTTT
1 TTTTAGCTTTTTT
957235 TTTTAGCTTTTTT
1 TTTTAGCTTTTTT
957248 TTTTA
1 TTTTA
957253 TGAAGAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.10, C:0.03, G:0.07, T:0.80
Consensus pattern (13 bp):
TTTTAGCTTTTTT
Found at i:957338 original size:16 final size:16
Alignment explanation
Indices: 957317--957349 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
957307 AAAATATTTT
957317 TTATATAATTTAATAA
1 TTATATAATTTAATAA
*
957333 TTATATAATTTATTAA
1 TTATATAATTTAATAA
957349 T
1 T
957350 AAAATATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATATAATTTAATAA
Found at i:959735 original size:17 final size:16
Alignment explanation
Indices: 959715--959753 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
959705 AATCAAATAA
* *
959715 TAAATAATTTTAAATTT
1 TAAATAAATTCAAA-TT
959732 TAAATAAATTCAAATT
1 TAAATAAATTCAAATT
959748 TAAATA
1 TAAATA
959754 TTTAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAATAAATTCAAATT
Found at i:961245 original size:23 final size:25
Alignment explanation
Indices: 961211--961289 Score: 96
Period size: 23 Copynumber: 3.3 Consensus size: 25
961201 TTAACGTATC
961211 AAAT-TATATAATATAAAAATATTT
1 AAATATATATAATATAAAAATATTT
961235 -AATAT-TATAATATAAAAATATTT
1 AAATATATATAATATAAAAATATTT
*
961258 AAATATATCATAA-AT-AAAATATAT
1 AAATATAT-ATAATATAAAAATATTT
*
961282 GAATATAT
1 AAATATAT
961290 CAAGTAAATA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
23 21 0.43
24 21 0.43
25 3 0.06
26 4 0.08
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (25 bp):
AAATATATATAATATAAAAATATTT
Found at i:961704 original size:22 final size:22
Alignment explanation
Indices: 961679--961730 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
961669 TAAAATAATA
*
961679 AAATATTTAAATATATAAATTT
1 AAATAATTAAATATATAAATTT
** *
961701 AAATAATTACTTATTTAAATTT
1 AAATAATTAAATATATAAATTT
961723 -AATAATTA
1 AAATAATTA
961731 CTTATTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATAATTAAATATATAAATTT
Found at i:961705 original size:30 final size:30
Alignment explanation
Indices: 961646--961707 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
961636 TCGATTTCGT
* *
961646 ATAAAAATTTAAATTATTATTTATAAAATA
1 ATAAAAATTTAAATTATAAATTATAAAATA
961676 ATAAAATATTTAAATATATAAATT-T-AAATA
1 ATAAAA-ATTTAAAT-TATAAATTATAAAATA
961706 AT
1 AT
961708 TACTTATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 13 0.46
31 9 0.32
32 6 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (30 bp):
ATAAAAATTTAAATTATAAATTATAAAATA
Found at i:961728 original size:21 final size:22
Alignment explanation
Indices: 961694--961737 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
961684 TTTAAATATA
961694 TAAATTTAAATAATTACTTATT
1 TAAATTTAAATAATTACTTATT
961716 TAAATTT-AATAATTACTTATT
1 TAAATTTAAATAATTACTTATT
961737 T
1 T
961738 TTTATCCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (22 bp):
TAAATTTAAATAATTACTTATT
Found at i:963963 original size:12 final size:12
Alignment explanation
Indices: 963931--963982 Score: 70
Period size: 12 Copynumber: 4.2 Consensus size: 12
963921 AACATTTTTA
963931 ATATATTTAAAAT
1 ATATATTT-AAAT
*
963944 ATTATATTTATAT
1 A-TATATTTAAAT
963957 ATATATTTAAAT
1 ATATATTTAAAT
963969 ATATA-TTAAAT
1 ATATATTTAAAT
963980 ATA
1 ATA
963983 AATATCGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
11 9 0.25
12 15 0.42
13 5 0.14
14 7 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATATATTTAAAT
Found at i:964144 original size:3 final size:3
Alignment explanation
Indices: 964136--964169 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
964126 GCTAGTGGGG
964136 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
964170 GGCCTTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:965374 original size:4 final size:4
Alignment explanation
Indices: 965365--965394 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
965355 TTTTCAAAGG
965365 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
965395 AAATATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:966285 original size:3 final size:3
Alignment explanation
Indices: 966279--966312 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
966269 TTTTTGAATT
966279 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
966313 CCTTTGGACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:966840 original size:13 final size:12
Alignment explanation
Indices: 966828--966870 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
966818 TTTATTTTAT
*
966828 TATTTATAATTA
1 TATTTTTAATTA
966840 TATTTTTATATTAA
1 TATTTTTA-ATT-A
966854 TATTTTTAATTA
1 TATTTTTAATTA
*
966866 AATTT
1 TATTT
966871 AAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 12 0.44
13 6 0.22
14 9 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TATTTTTAATTA
Found at i:966849 original size:14 final size:14
Alignment explanation
Indices: 966825--966893 Score: 56
Period size: 14 Copynumber: 5.0 Consensus size: 14
966815 AAATTTATTT
966825 TATTATTTATAATT-A
1 TATT-TTTAT-ATTAA
966840 TATTTTTATATTAA
1 TATTTTTATATTAA
966854 TATTTTTA-ATTAA
1 TATTTTTATATTAA
** *
966867 -ATTTAAATA-AAA
1 TATTTTTATATTAA
966879 TATTTTTATTATTAA
1 TATTTTTA-TATTAA
966894 AATAAAATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
12 7 0.16
13 14 0.33
14 16 0.37
15 6 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TATTTTTATATTAA
Found at i:966857 original size:26 final size:26
Alignment explanation
Indices: 966818--966870 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
966808 TATTTAAAAA
* * *
966818 TTTATTTTATTATTTATAATTATATT
1 TTTATATTAATATTTATAATTAAATT
*
966844 TTTATATTAATATTTTTAATTAAATT
1 TTTATATTAATATTTATAATTAAATT
966870 T
1 T
966871 AAATAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (26 bp):
TTTATATTAATATTTATAATTAAATT
Found at i:966901 original size:27 final size:25
Alignment explanation
Indices: 966852--966901 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
966842 TTTTTATATT
* *
966852 AATATTTTTAATTAAATTTAAATAA
1 AATATTTTTAATTAAAATAAAATAA
966877 AATATTTTTATTATTAAAATAAAAT
1 AATATTTTTA--ATTAAAATAAAAT
966902 TTTAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
27 11 0.52
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
AATATTTTTAATTAAAATAAAATAA
Found at i:967112 original size:2 final size:2
Alignment explanation
Indices: 967105--967164 Score: 72
Period size: 2 Copynumber: 31.0 Consensus size: 2
967095 CATAATGTTT
967105 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
967144 TA TA AA TA TA AA TA TGA TA TA
1 TA TA TA TA TA TA TA T-A TA TA
967165 AATTATTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
1 3 0.06
2 45 0.90
3 2 0.04
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:967152 original size:29 final size:29
Alignment explanation
Indices: 967113--967265 Score: 100
Period size: 29 Copynumber: 5.3 Consensus size: 29
967103 TTTATATATA
967113 TATATATATATATATATATATATATTAAT
1 TATATATATATATATATATATATATTAAT
* * *
967142 TATATAAATATAAATATGATATAAATT-AT
1 TATATATATATATATAT-ATATATATTAAT
* * * * * *
967171 TAAATACAT-TAAAAATTTAAATATTAA-
1 TATATATATATATATATATATATATTAAT
* *
967198 TATA-ATATATATCAAATATATAACATTAAT
1 TATATATATATAT-ATATATAT-ATATTAAT
* * *
967228 TATATTTAGATATATA-ATATTATATTTAT
1 TATATATATATATATATATA-TATATTAAT
*
967257 TAAATATAT
1 TATATATAT
967266 CATGATTATA
Statistics
Matches: 93, Mismatches: 23, Indels: 16
0.70 0.17 0.12
Matches are distributed among these distances:
26 3 0.03
27 11 0.12
28 13 0.14
29 45 0.48
30 15 0.16
31 6 0.06
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (29 bp):
TATATATATATATATATATATATATTAAT
Found at i:967446 original size:13 final size:13
Alignment explanation
Indices: 967424--967462 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
967414 ATTTAATTAT
967424 AATATATATATATA
1 AATAT-TATATATA
*
967438 AATATTATACATA
1 AATATTATATATA
967451 AATATTAGTATA
1 AATATTA-TATA
967463 AAAAGTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (13 bp):
AATATTATATATA
Found at i:967507 original size:16 final size:16
Alignment explanation
Indices: 967486--967530 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
967476 TTTTTTAAAT
* *
967486 ATTAAAATATAATTAA
1 ATTAAAATAAAATCAA
*
967502 ATTAAATTAAAATCAA
1 ATTAAAATAAAATCAA
*
967518 ATTTAAATAAAAT
1 ATTAAAATAAAAT
967531 GAGGTTTAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTAAAATAAAATCAA
Found at i:967519 original size:11 final size:10
Alignment explanation
Indices: 967486--967528 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
967476 TTTTTTAAAT
967486 ATTAAAATATA
1 ATTAAAATA-A
*
967497 ATTAAATTAA
1 ATTAAAATAA
967507 ATTAAAATCAA
1 ATTAAAAT-AA
*
967518 ATTTAAATAA
1 ATTAAAATAA
967528 A
1 A
967529 ATGAGGTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 11 0.39
11 17 0.61
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (10 bp):
ATTAAAATAA
Found at i:967709 original size:17 final size:16
Alignment explanation
Indices: 967689--967727 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
967679 TTTTGGTGAT
*
967689 ATTAAATTTAATTATAA
1 ATTAAATTAAATTAT-A
967706 ATTAAATTAAATTATA
1 ATTAAATTAAATTATA
967722 ATTAAA
1 ATTAAA
967728 AAAATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTAAATTAAATTATA
Found at i:967747 original size:6 final size:6
Alignment explanation
Indices: 967690--967759 Score: 55
Period size: 6 Copynumber: 12.3 Consensus size: 6
967680 TTTGGTGATA
*
967690 TTAAAT TT-AAT TATAAA- TTAAA- TTAAA- TTATAA- TTAAA- -AAAAT
1 TTAAAT TTAAAT T-TAAAT TTAAAT TTAAAT TTA-AAT TTAAAT TTAAAT
967733 TTAAAAT TTAAAT TTAAAT TTAAAT TT
1 TT-AAAT TTAAAT TTAAAT TTAAAT TT
967760 GATTTGATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
4 3 0.05
5 18 0.32
6 27 0.48
7 8 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
TTAAAT
Found at i:970787 original size:2 final size:2
Alignment explanation
Indices: 970780--970813 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
970770 CATCTTGATA
970780 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
970814 TCTTGGACCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:971166 original size:24 final size:23
Alignment explanation
Indices: 971139--971192 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 23
971129 TATATTGAGA
*
971139 TTTAAATTTAA-TTAGTAATTTTAT
1 TTTAAA-TTAATTTA-TAAATTTAT
971163 TTTATAATTAATTTATAAATTTAT
1 TTTA-AATTAATTTATAAATTTAT
971187 TATTAA
1 T-TTAA
971193 TTATTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTAAATTAATTTATAAATTTAT
Found at i:971403 original size:3 final size:3
Alignment explanation
Indices: 971395--971421 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
971385 CATTTGATAC
971395 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
971422 GTTTAAATTT
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:971624 original size:32 final size:33
Alignment explanation
Indices: 971588--971664 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 33
971578 TAACTCTCCG
971588 AATTATTATTTAAAAT-ATATTAAAATATTAAA
1 AATTATTATTTAAAATAATATTAAAATATTAAA
* * * *
971620 AATTATT-TTTATATTAATATTAATATTTTAAA
1 AATTATTATTTAAAATAATATTAAAATATTAAA
*
971652 AATTA-AATTTAAA
1 AATTATTATTTAAA
971665 TAAAAATATT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
31 6 0.16
32 31 0.84
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (33 bp):
AATTATTATTTAAAATAATATTAAAATATTAAA
Found at i:972267 original size:17 final size:19
Alignment explanation
Indices: 972245--972287 Score: 63
Period size: 17 Copynumber: 2.3 Consensus size: 19
972235 GTTTAATTTT
972245 TTTAAAAAATT-TA-TATA
1 TTTAAAAAATTATATTATA
972262 TTTAAAAAATTATATTTATA
1 TTTAAAAAATTATA-TTATA
972282 TTTAAA
1 TTTAAA
972288 TTCAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.48
18 2 0.09
20 10 0.43
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTAAAAAATTATATTATA
Found at i:972880 original size:14 final size:15
Alignment explanation
Indices: 972851--972881 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
972841 ATTAAAATGA
972851 AAAAGAAAACGAAAG
1 AAAAGAAAACGAAAG
972866 AAAAGAAAA-GAAAG
1 AAAAGAAAACGAAAG
972880 AA
1 AA
972882 CAAATTTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.77, C:0.03, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAAGAAAACGAAAG
Found at i:973976 original size:31 final size:35
Alignment explanation
Indices: 973916--973996 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 35
973906 ATATAATACG
*
973916 AATATATCATATTTAATAAATATAAAAATAAAAT-
1 AATATATTATATTTAATAAATATAAAAATAAAATA
** *
973950 AAT-TATTAT-TTTAA-AAATATCTAAATATAATA
1 AATATATTATATTTAATAAATATAAAAATAAAATA
973982 AATATATTATATTTA
1 AATATATTATATTTA
973997 TTTTTAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
31 14 0.35
32 8 0.20
33 11 0.28
34 7 0.17
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (35 bp):
AATATATTATATTTAATAAATATAAAAATAAAATA
Found at i:974047 original size:24 final size:24
Alignment explanation
Indices: 973984--974048 Score: 61
Period size: 24 Copynumber: 3.0 Consensus size: 24
973974 ATATAATAAA
* *
973984 TATATTATATTTATTTTTAAAATT
1 TATATTATATTTATATTTATAATT
*
974008 T-TA--ATA--T-TATTAATAATT
1 TATATTATATTTATATTTATAATT
974026 TATATTATATTTATATTTATAAT
1 TATATTATATTTATATTTATAAT
974049 ATTAAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 12
0.66 0.09 0.26
Matches are distributed among these distances:
18 9 0.29
19 3 0.10
21 6 0.19
23 3 0.10
24 10 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TATATTATATTTATATTTATAATT
Found at i:974336 original size:22 final size:21
Alignment explanation
Indices: 974296--974337 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
974286 TATTCTATTA
*
974296 ATTTTTTATTGTTAATTAAAG
1 ATTTTTTATTATTAATTAAAG
*
974317 ATTTTTTAATTATTATTTAAA
1 ATTTTTT-ATTATTAATTAAA
974338 AAATTATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (21 bp):
ATTTTTTATTATTAATTAAAG
Found at i:974546 original size:13 final size:14
Alignment explanation
Indices: 974523--974554 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
974513 TTTAAACCCG
974523 TAATTTAATATAAT
1 TAATTTAATATAAT
974537 TAATTT-ATATAAT
1 TAATTTAATATAAT
974550 TAATT
1 TAATT
974555 AACATCATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TAATTTAATATAAT
Found at i:975363 original size:10 final size:11
Alignment explanation
Indices: 975341--975366 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
975331 TAAATATATA
975341 TTAAAATTTTT
1 TTAAAATTTTT
975352 TTAAAATTTTT
1 TTAAAATTTTT
975363 TTAA
1 TTAA
975367 GTAAATGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTAAAATTTTT
Found at i:978481 original size:104 final size:104
Alignment explanation
Indices: 978152--978465 Score: 603
Period size: 104 Copynumber: 3.0 Consensus size: 104
978142 AATCGAACAT
978152 ATTATTTGATTTTTAAATAAATTTATTTTTTAATCTCCGATAAAAATCATAAAAATAATAAATAA
1 ATTATTTGATTTTTAAATAAATTTATTTTTTAATCTCCGATAAAAATCATAAAAATAATAAATAA
978217 TGTTAACCCTAAAACTTT-AAAAAAACAAAAATAATAAA
66 TGTTAACCCTAAAACTTTAAAAAAAACAAAAATAATAAA
*
978255 ATTATTTGATTTTTAAATAAATTTATTTTTTAATCTCTGATAAAAATCATAAAAATAATAAATAA
1 ATTATTTGATTTTTAAATAAATTTATTTTTTAATCTCCGATAAAAATCATAAAAATAATAAATAA
*
978320 TGTTAACCCTAAAACTTTAAAAAAAACAAAATTAATAAA
66 TGTTAACCCTAAAACTTTAAAAAAAACAAAAATAATAAA
978359 ATTATTTGATTTTTAAATAAATTTATTTTTTAATCTCCGATAAAAATCATAAAAATAATAAATAA
1 ATTATTTGATTTTTAAATAAATTTATTTTTTAATCTCCGATAAAAATCATAAAAATAATAAATAA
978424 TGTTAACCCTAAAACTTTAAAAAAAACAAAAATAATAAA
66 TGTTAACCCTAAAACTTTAAAAAAAACAAAAATAATAAA
978463 ATT
1 ATT
978466 TTAAAATATT
Statistics
Matches: 206, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
103 82 0.40
104 124 0.60
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.37
Consensus pattern (104 bp):
ATTATTTGATTTTTAAATAAATTTATTTTTTAATCTCCGATAAAAATCATAAAAATAATAAATAA
TGTTAACCCTAAAACTTTAAAAAAAACAAAAATAATAAA
Found at i:978981 original size:24 final size:25
Alignment explanation
Indices: 978946--978997 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
978936 TATTACATAA
* *
978946 TAAAAAATATATTATAATT-T-TTT
1 TAAAAAAAATATAATAATTATATTT
978969 TAAAAATAAATATAATAATTATATTT
1 TAAAAA-AAATATAATAATTATATTT
978995 TAA
1 TAA
978998 TACTAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.25
24 11 0.46
25 1 0.04
26 6 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TAAAAAAAATATAATAATTATATTT
Found at i:982450 original size:17 final size:17
Alignment explanation
Indices: 982424--982458 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
982414 ATATGTAATT
982424 TTTAAAATTTTATTTAA
1 TTTAAAATTTTATTTAA
*
982441 TTTAATATTTTATTTAA
1 TTTAAAATTTTATTTAA
982458 T
1 T
982459 AAAAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTAAAATTTTATTTAA
Found at i:983009 original size:6 final size:6
Alignment explanation
Indices: 982998--983031 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
982988 TTATTCTATC
* *
982998 ATAATT ATAATT ATAACT ATTATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAA
983032 ATTTTTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (6 bp):
ATAATT
Found at i:983439 original size:21 final size:22
Alignment explanation
Indices: 983405--983463 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
983395 GATTTTATTT
983405 AAATAAATAATAAAATTTTAAA
1 AAATAAATAATAAAATTTTAAA
*
983427 AAAT-AATACTAAAA--TTAAA
1 AAATAAATAATAAAATTTTAAA
* *
983446 AAATGAGATATTAAAATT
1 AAAT-AAATAATAAAATT
983464 AATTAATCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
19 9 0.30
21 17 0.57
22 4 0.13
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (22 bp):
AAATAAATAATAAAATTTTAAA
Found at i:983444 original size:19 final size:21
Alignment explanation
Indices: 983422--983465 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
983412 TAATAAAATT
983422 TTAAAAAAT-A-ATACTAAAA
1 TTAAAAAATGAGATACTAAAA
*
983441 TTAAAAAATGAGATATTAAAA
1 TTAAAAAATGAGATACTAAAA
983462 TTAA
1 TTAA
983466 TTAATCTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.41
20 1 0.05
21 12 0.55
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (21 bp):
TTAAAAAATGAGATACTAAAA
Found at i:983650 original size:24 final size:28
Alignment explanation
Indices: 983584--983645 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 28
983574 ATAAAAAATA
983584 AAAAATATTAATATTATTATTTTATTATTT
1 AAAAATATT--TATTATTATTTTATTATTT
983614 AAAAATATTTATT-TTATTTTATT-TTT
1 AAAAATATTTATTATTATTTTATTATTT
*
983640 ATAAAT
1 AAAAAT
983646 TTATTAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 8 0.26
27 10 0.32
28 4 0.13
30 9 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
AAAAATATTTATTATTATTTTATTATTT
Found at i:984295 original size:13 final size:13
Alignment explanation
Indices: 984279--984303 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
984269 TTAATTTATT
984279 AAATACTGATTTC
1 AAATACTGATTTC
984292 AAATACTGATTT
1 AAATACTGATTT
984304 TTTACGTACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (13 bp):
AAATACTGATTTC
Found at i:986477 original size:25 final size:25
Alignment explanation
Indices: 986449--986521 Score: 62
Period size: 25 Copynumber: 2.9 Consensus size: 25
986439 TTTATATTTG
986449 ATATTTATATTAAATATATTTTTAA
1 ATATTTATATTAAATATATTTTTAA
** * *
986474 ATATAAATATAAAATATAATTTTTTTTA
1 ATATTTATATTAAATAT-A--TTTTTAA
986502 A-ATTT-T-TTAAATATATTTTT
1 ATATTTATATTAAATATATTTTT
986522 GAATTAAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
22 5 0.13
24 1 0.03
25 21 0.55
26 2 0.05
27 2 0.05
28 7 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
ATATTTATATTAAATATATTTTTAA
Found at i:987506 original size:2 final size:2
Alignment explanation
Indices: 987499--987525 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
987489 TATAAACACT
987499 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 T
987526 CTAATCGAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:988586 original size:13 final size:13
Alignment explanation
Indices: 988568--988607 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
988558 AAGAATATTT
988568 AAAATATAATATA
1 AAAATATAATATA
*
988581 AAAATATTATATA
1 AAAATATAATATA
*
988594 AATATATGAATATA
1 AAAATAT-AATATA
988608 TTAAAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (13 bp):
AAAATATAATATA
Found at i:990698 original size:11 final size:11
Alignment explanation
Indices: 990684--990712 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
990674 AAATAATTTA
990684 TAAATTTAATT
1 TAAATTTAATT
990695 TAAATTTAATT
1 TAAATTTAATT
990706 TAAATTT
1 TAAATTT
990713 TAACATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TAAATTTAATT
Found at i:990702 original size:6 final size:6
Alignment explanation
Indices: 990684--990742 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
990674 AAATAATTTA
* * *
990684 TAAATT T-AATT TAAATT T-AATT TAAATTT TAACATA AAAAAT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAA-TT TAA-ATT TAAATT TAAATT
*
990732 TAAAAT TAAAT
1 TAAATT TAAAT
990743 AAAAAATTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
5 10 0.24
6 22 0.54
7 8 0.20
8 1 0.02
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (6 bp):
TAAATT
Found at i:990736 original size:12 final size:12
Alignment explanation
Indices: 990678--990755 Score: 59
Period size: 12 Copynumber: 6.3 Consensus size: 12
990668 TTACTTAAAT
*
990678 AATTTATAAATTT
1 AATTTA-AAATTA
*
990691 AATTT-AAATTT
1 AATTTAAAATTA
*
990702 AATTTAAATTTTA
1 AATTTAAA-ATTA
**
990715 ACATAAAAAATTA
1 A-ATTTAAAATTA
990728 AATTTAAAATTA
1 AATTTAAAATTA
**
990740 AATAAAAAATTA
1 AATTTAAAATTA
990752 AATT
1 AATT
990756 AATTTTTTAT
Statistics
Matches: 52, Mismatches: 10, Indels: 7
0.75 0.14 0.10
Matches are distributed among these distances:
11 11 0.21
12 24 0.46
13 12 0.23
14 5 0.10
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (12 bp):
AATTTAAAATTA
Found at i:993650 original size:16 final size:16
Alignment explanation
Indices: 993629--993670 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
993619 TGGTATCCGA
*
993629 TAATTATATTAAATTT
1 TAATTATATTAAAATT
993645 TAATTA-ATTTAAAATT
1 TAATTATA-TTAAAATT
*
993661 AAATTATATT
1 TAATTATATT
993671 TTTAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.05
16 20 0.91
17 1 0.05
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATTATATTAAAATT
Found at i:993685 original size:13 final size:13
Alignment explanation
Indices: 993668--993696 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
993658 ATTAAATTAT
993668 ATTTTTAATA-AA
1 ATTTTTAATATAA
993680 ATTTTTAATATAA
1 ATTTTTAATATAA
993693 ATTT
1 ATTT
993697 ATAAAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTTTTAATATAA
Found at i:995090 original size:1 final size:1
Alignment explanation
Indices: 995084--995111 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
995074 TGAAACTGGG
995084 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
995112 CAGAAAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:1001345 original size:2 final size:2
Alignment explanation
Indices: 1001338--1001411 Score: 112
Period size: 2 Copynumber: 36.0 Consensus size: 2
1001328 ACTTTCATAG
1001338 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
* *
1001380 TA TA TA TA TA TA GTA TG TGA TA TA TA TG TA TA
1 TA TA TA TA TA TA -TA TA T-A TA TA TA TA TA TA
1001412 GAGTATAAGA
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
2 63 0.95
3 3 0.05
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1001416 original size:22 final size:22
Alignment explanation
Indices: 1001338--1001427 Score: 80
Period size: 20 Copynumber: 4.3 Consensus size: 22
1001328 ACTTTCATAG
* *
1001338 TATATATATATATA-TAT-ATA
1 TATATATATATAGAGTATAAGA
* *
1001358 TATATATATATATA-TAT-ATA
1 TATATATATATAGAGTATAAGA
* **
1001378 TATATATATATATAGTATGTGA
1 TATATATATATAGAGTATAAGA
*
1001400 TATATATGTATAGAGTATAAGA
1 TATATATATATAGAGTATAAGA
1001422 TATATA
1 TATATA
1001428 AAAAAATTAT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
20 34 0.55
21 3 0.05
22 25 0.40
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.46
Consensus pattern (22 bp):
TATATATATATAGAGTATAAGA
Found at i:1004249 original size:12 final size:12
Alignment explanation
Indices: 1004232--1004256 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1004222 AAATTAGGAG
1004232 CGTTGTTTTTAA
1 CGTTGTTTTTAA
1004244 CGTTGTTTTTAA
1 CGTTGTTTTTAA
1004256 C
1 C
1004257 TTTTTTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.12, G:0.16, T:0.56
Consensus pattern (12 bp):
CGTTGTTTTTAA
Found at i:1004531 original size:30 final size:29
Alignment explanation
Indices: 1004497--1004561 Score: 69
Period size: 31 Copynumber: 2.2 Consensus size: 29
1004487 TTATTTTTAT
*
1004497 TAAAA-TTTATATAAATATAATATAAAAATA
1 TAAAATTTTAAAT-AATATAA-ATAAAAATA
* *
1004527 TAAAAATTTTAAATAATATAAATTATAATA
1 T-AAAATTTTAAATAATATAAATAAAAATA
1004557 TAAAA
1 TAAAA
1004562 ATAATTTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 4 0.13
30 9 0.30
31 11 0.37
32 6 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (29 bp):
TAAAATTTTAAATAATATAAATAAAAATA
Found at i:1004744 original size:32 final size:35
Alignment explanation
Indices: 1004707--1004773 Score: 95
Period size: 32 Copynumber: 2.0 Consensus size: 35
1004697 CTAAATTTTT
* *
1004707 TTAAAATTTATATAATA-AAAAT-TATT-AATATA
1 TTAAAATTTAAATAAAATAAAATATATTAAATATA
1004739 TTAAAATTTAAATAAAATAAAATATATTAAATATA
1 TTAAAATTTAAATAAAATAAAATATATTAAATATA
1004774 AATATAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
32 15 0.50
33 5 0.17
34 4 0.13
35 6 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (35 bp):
TTAAAATTTAAATAAAATAAAATATATTAAATATA
Found at i:1004765 original size:26 final size:25
Alignment explanation
Indices: 1004733--1004809 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 25
1004723 AAAAATTATT
*
1004733 AATATATTAAAATTTAAATAAAATAA
1 AATATATT-AAATATAAATAAAATAA
*
1004759 AATATATTAAATATAAATATAATATTAT
1 AATATATTAAATATAAATA-AA-A-TAA
1004787 AATATA-TAAATAT-AATACAAATA
1 AATATATTAAATATAAATA-AAATA
1004810 TACCGGTTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
24 2 0.04
25 11 0.24
26 16 0.36
27 8 0.18
28 8 0.18
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (25 bp):
AATATATTAAATATAAATAAAATAA
Found at i:1004770 original size:25 final size:26
Alignment explanation
Indices: 1004733--1004782 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
1004723 AAAAATTATT
*
1004733 AATATATTAAAATTTAAATAAAATAA
1 AATATATTAAAATATAAATAAAATAA
*
1004759 AATATATT-AAATATAAATATAATA
1 AATATATTAAAATATAAATAAAATA
1004783 TTATAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
AATATATTAAAATATAAATAAAATAA
Found at i:1004774 original size:21 final size:22
Alignment explanation
Indices: 1004750--1004801 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 22
1004740 TAAAATTTAA
1004750 ATAAAATAAAATA-TATTAA-AT
1 ATAAAATAAAATATTA-TAATAT
*
1004771 AT-AAATATAATATTATAATAT
1 ATAAAATAAAATATTATAATAT
1004792 ATAAATATAA
1 ATAAA-ATAA
1004802 TACAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 12 0.48
21 8 0.32
22 2 0.08
23 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
ATAAAATAAAATATTATAATAT
Found at i:1004776 original size:15 final size:14
Alignment explanation
Indices: 1004753--1004801 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
1004743 AATTTAAATA
1004753 AAATA-AAATATATT
1 AAATATAAATATA-T
1004767 AAATATAAATATA-
1 AAATATAAATATAT
*
1004780 ATAT-TATAATATAT
1 AAATATA-AATATAT
1004794 AAATATAA
1 AAATATAA
1004802 TACAAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 2 0.07
13 9 0.31
14 9 0.31
15 9 0.31
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATATAAATATAT
Found at i:1004802 original size:21 final size:20
Alignment explanation
Indices: 1004746--1004803 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
1004736 ATATTAAAAT
*
1004746 TTAAATA-AAATAAAATATA
1 TTAAATATAAATATAATATA
1004765 TTAAATATAAATATAATAT-
1 TTAAATATAAATATAATATA
1004784 TATAATATATAAATATAATA
1 T-TAA-ATATAAATATAATA
1004804 CAAATATACC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
19 8 0.23
20 13 0.37
21 14 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TTAAATATAAATATAATATA
Found at i:1011137 original size:13 final size:13
Alignment explanation
Indices: 1011119--1011157 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
1011109 AACAAAATAT
1011119 TTATATATATTTA
1 TTATATATATTTA
*
1011132 TTATATATATATA
1 TTATATATATTTA
1011145 TTATAT-TATTTA
1 TTATATATATTTA
1011157 T
1 T
1011158 CTTTCTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 6 0.25
13 18 0.75
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTATATATATTTA
Found at i:1011430 original size:27 final size:26
Alignment explanation
Indices: 1011393--1011453 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
1011383 CATAATTGTG
*
1011393 TTTAATATATT-TTATATTTATATTAAT
1 TTTAATATATTAATA-ATTTATATT-AT
1011420 TTTAATATATTAATAATTTATATTAT
1 TTTAATATATTAATAATTTATATTAT
*
1011446 TTTGATAT
1 TTTAATAT
1011454 TAAGTTATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 9 0.29
27 20 0.65
28 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTAATATATTAATAATTTATATTAT
Found at i:1012156 original size:15 final size:15
Alignment explanation
Indices: 1012132--1012161 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1012122 AATATTTAAA
1012132 TATTTAAATTTAATT
1 TATTTAAATTTAATT
*
1012147 TATTTGAATTTAATT
1 TATTTAAATTTAATT
1012162 AAAAAATCAA
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:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
TATTTAAATTTAATT
Found at i:1012715 original size:3 final size:3
Alignment explanation
Indices: 1012707--1012746 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
1012697 GAAAGAAAAA
* *
1012707 ATT ATT ATT ATT -TT ATC ATT ATA ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1012747 GCTTACAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:1016503 original size:19 final size:19
Alignment explanation
Indices: 1016471--1016524 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
1016461 ATATGTATTT
* *
1016471 AATTATATGTATATAATATA
1 AATTATAT-AATATAATAAA
*
1016491 AA-TATATAAATATATTAAA
1 AATTATAT-AATATAATAAA
1016510 AATTATATAATATAA
1 AATTATATAATATAA
1016525 ATTATTAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
AATTATATAATATAATAAA
Found at i:1016548 original size:32 final size:33
Alignment explanation
Indices: 1016480--1016551 Score: 110
Period size: 32 Copynumber: 2.2 Consensus size: 33
1016470 TAATTATATG
*
1016480 TATATAATATAAATATATAAATATATTAAAAAT
1 TATATAATATAAATATATAAATATATCAAAAAT
* *
1016513 TATATAATATAAAT-TATTAATATATCAAAATT
1 TATATAATATAAATATATAAATATATCAAAAAT
1016545 TATATAA
1 TATATAA
1016552 AATTTACTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
32 22 0.61
33 14 0.39
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (33 bp):
TATATAATATAAATATATAAATATATCAAAAAT
Found at i:1016890 original size:2 final size:2
Alignment explanation
Indices: 1016883--1016907 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1016873 TCGATTCAGT
1016883 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 T
1016908 GCTATTAGGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1017097 original size:18 final size:19
Alignment explanation
Indices: 1017034--1017114 Score: 73
Period size: 18 Copynumber: 4.4 Consensus size: 19
1017024 ATTTTATAAA
*
1017034 ATAAAA-ATATTAATATATC
1 ATAAAATATATAAATATA-C
*
1017053 AAAAAATATATAAATATAC
1 ATAAAATATATAAATATAC
1017072 ATAAAATAT-TAAATATA-
1 ATAAAATATATAAATATAC
* *
1017089 ATTATAATATA-AAA-ATAA
1 A-TAAAATATATAAATATAC
1017107 ATAAAATA
1 ATAAAATA
1017115 CGAATAAATA
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
17 10 0.19
18 19 0.36
19 14 0.26
20 10 0.19
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
ATAAAATATATAAATATAC
Found at i:1017120 original size:15 final size:16
Alignment explanation
Indices: 1017102--1017136 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1017092 ATAATATAAA
1017102 AATAAATAAAATA-CG
1 AATAAATAAAATATCG
*
1017117 AATAAATAAATTATCG
1 AATAAATAAAATATCG
1017133 AATA
1 AATA
1017137 TAAATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.26
Consensus pattern (16 bp):
AATAAATAAAATATCG
Found at i:1018065 original size:18 final size:18
Alignment explanation
Indices: 1018044--1018102 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
1018034 ATATAAATTG
1018044 AATTAAATTTTATTTTTT
1 AATTAAATTTTATTTTTT
* * *
1018062 AATTAATTTTTATATTAT
1 AATTAAATTTTATTTTTT
*
1018080 AA--AATATTTTATTTTTA
1 AATTAA-ATTTTATTTTTT
1018097 AATTAA
1 AATTAA
1018103 TAAAAAATTT
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
16 2 0.06
17 10 0.32
18 17 0.55
19 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
AATTAAATTTTATTTTTT
Found at i:1018093 original size:23 final size:24
Alignment explanation
Indices: 1018067--1018112 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
1018057 TTTTTAATTA
* *
1018067 ATTTTTATATT-ATAAAATATTTT
1 ATTTTTAAATTAATAAAAAATTTT
1018090 ATTTTTAAATTAATAAAAAATTT
1 ATTTTTAAATTAATAAAAAATTT
1018113 AAAAATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
ATTTTTAAATTAATAAAAAATTTT
Found at i:1018113 original size:23 final size:23
Alignment explanation
Indices: 1018061--1018113 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
1018051 TTTTATTTTT
* *
1018061 TAATTAATTTTTATATTATAAAA
1 TAATTTATTTTTAAATTATAAAA
*
1018084 TATTTTATTTTTAAATTAATAAAA
1 TAATTTATTTTTAAATT-ATAAAA
1018108 -AATTTA
1 TAATTTA
1018114 AAAATATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TAATTTATTTTTAAATTATAAAA
Found at i:1025524 original size:18 final size:20
Alignment explanation
Indices: 1025503--1025550 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
1025493 ATTATAATTT
1025503 ATATAATAAAAATTAT-T-A
1 ATATAATAAAAATTATATAA
* *
1025521 ATATATTAAAATTTATATAA
1 ATATAATAAAAATTATATAA
1025541 ATATATATAA
1 ATATA-ATAA
1025551 TATTTTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 14 0.58
19 1 0.04
20 6 0.25
21 3 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATATAATAAAAATTATATAA
Found at i:1025525 original size:20 final size:21
Alignment explanation
Indices: 1025502--1025550 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
1025492 TATTATAATT
1025502 TATATAATAAAAATTAT-T-AA
1 TATAT-ATAAAAATTATATAAA
*
1025522 TATAT-TAAAATTTATATAAA
1 TATATATAAAAATTATATAAA
1025542 TATATATAA
1 TATATATAA
1025551 TATTTTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 9 0.36
19 1 0.04
20 12 0.48
21 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TATATATAAAAATTATATAAA
Found at i:1025534 original size:32 final size:33
Alignment explanation
Indices: 1025470--1025599 Score: 104
Period size: 32 Copynumber: 3.8 Consensus size: 33
1025460 ATTTACACGA
* * *
1025470 ATATAATATAAATTTATAAATTTATTATAATTT
1 ATATAATATAAAATTATAAATATATTAAAATTT
*
1025503 ATATAATA-AAAATTATTAATATATTAAAATTT
1 ATATAATATAAAATTATAAATATATTAAAATTT
* *
1025535 ATATAAATATATATAATATTTTAAATATAATTATAAA-AT
1 ATAT--A-ATATA-AA-ATTATAAATAT-ATTA-AAATTT
1025574 ATA-AATTATAAAATTATAATATATAT
1 ATATAA-TATAAAATTATAA-ATATAT
1025600 ATATATATAT
Statistics
Matches: 79, Mismatches: 8, Indels: 19
0.75 0.08 0.18
Matches are distributed among these distances:
32 24 0.30
33 8 0.10
34 9 0.11
35 10 0.13
36 6 0.08
37 2 0.03
38 9 0.11
39 8 0.10
40 3 0.04
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (33 bp):
ATATAATATAAAATTATAAATATATTAAAATTT
Found at i:1025557 original size:22 final size:23
Alignment explanation
Indices: 1025519--1025575 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 23
1025509 TAAAAATTAT
* *
1025519 TAATATAT-TAA-AATTTATATA
1 TAATATATATAATATTTTAAATA
1025540 -AATATATATAATATTTTAAATA
1 TAATATATATAATATTTTAAATA
*
1025562 TAAT-TATAAAATAT
1 TAATATATATAATAT
1025576 AAATTATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 7 0.23
21 3 0.10
22 17 0.57
23 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TAATATATATAATATTTTAAATA
Found at i:1025564 original size:14 final size:14
Alignment explanation
Indices: 1025545--1025595 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
1025535 ATATAAATAT
*
1025545 ATATAATATTTTAA
1 ATATAATATTTAAA
*
1025559 ATATAAT-TATAAA
1 ATATAATATTTAAA
1025572 ATATAA-ATTATAAA
1 ATATAATATT-TAAA
1025586 ATTATAATAT
1 A-TATAATAT
1025596 ATATATATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 11 0.37
14 12 0.40
15 5 0.17
16 2 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATAATATTTAAA
Found at i:1025568 original size:71 final size:71
Alignment explanation
Indices: 1025454--1025597 Score: 170
Period size: 71 Copynumber: 2.0 Consensus size: 71
1025444 ATGATATAAA
* * **
1025454 ATTAAAATTTACACGAATATAATATAAATTTATAAATTTATTATAATTTATATAA-TA-AAAATT
1 ATTAAAATTTACACAAATATAATATAAATTTATAAATTAATTATAAAATATA-AATTATAAAATT
1025517 ATTAATAT
65 A-TAATAT
* *
1025525 ATTAAAATTTATATAAATAT-ATATAATATTT-TAAATATAATTATAAAATATAAATTATAAAAT
1 ATTAAAATTTACACAAATATAATATAA-ATTTATAAAT-TAATTATAAAATATAAATTATAAAAT
1025588 TATAATAT
64 TATAATAT
1025596 AT
1 AT
1025598 ATATATATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
70 13 0.21
71 43 0.68
72 7 0.11
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (71 bp):
ATTAAAATTTACACAAATATAATATAAATTTATAAATTAATTATAAAATATAAATTATAAAATTA
TAATAT
Found at i:1026025 original size:16 final size:16
Alignment explanation
Indices: 1025995--1026042 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
1025985 AGACATAACC
1025995 ATAAT-TTAA-AAAAT
1 ATAATATTAATAAAAT
1026009 ATAATATTAATAAAAT
1 ATAATATTAATAAAAT
1026025 ATAAATATGTAAATAAAA
1 AT-AATAT-T-AATAAAA
1026043 AATTTATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 5 0.17
15 4 0.14
16 7 0.24
17 5 0.17
18 1 0.03
19 7 0.24
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
ATAATATTAATAAAAT
Found at i:1026293 original size:21 final size:22
Alignment explanation
Indices: 1026269--1026323 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 22
1026259 TTAATAAGAG
1026269 ATAATTAAAATA-AA-AAAATTT
1 ATAATTAAAATATAATAAAA-TT
1026290 ATAA--AAAATATAATAAAATT
1 ATAATTAAAATATAATAAAATT
*
1026310 ATTTATTAAAATAT
1 A-TAATTAAAATAT
1026324 TTTTATTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
19 6 0.21
20 5 0.18
21 10 0.36
23 7 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
ATAATTAAAATATAATAAAATT
Found at i:1026330 original size:14 final size:15
Alignment explanation
Indices: 1026300--1026339 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1026290 ATAAAAAATA
*
1026300 TAATAAAATTATTTAT
1 TAATAATATT-TTTAT
1026316 TAA-AATATTTTTAT
1 TAATAATATTTTTAT
1026330 TAATAATATT
1 TAATAATATT
1026340 CACACTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.36
15 11 0.50
16 3 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAATAATATTTTTAT
Found at i:1026397 original size:20 final size:20
Alignment explanation
Indices: 1026365--1026403 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
1026355 AATTTTTATG
1026365 TTATAATTATATTTAAAATA
1 TTATAATTATATTTAAAATA
1026385 TTATATATT-TATTTAAAAT
1 TTATA-ATTATATTTAAAAT
1026404 TAATATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATAATTATATTTAAAATA
Found at i:1026644 original size:4 final size:4
Alignment explanation
Indices: 1026635--1026672 Score: 67
Period size: 4 Copynumber: 9.2 Consensus size: 4
1026625 TTTAAGTCAA
1026635 ATTT ATTT ATTT ATTT ATTT ATTT ATTTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A-TTT ATTT ATTT A
1026673 AAATAATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 29 0.88
5 4 0.12
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Done.