Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004588.1 Hibiscus syriacus cultivar Beakdansim tig00010248_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 71701
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:3373 original size:18 final size:18
Alignment explanation
Indices: 3344--3387 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
3334 GTTTCCAACT
*
3344 TCCTTCAGCCCAGATGTCC
1 TCCTT-AGCCCAGATATCC
*
3363 TCCTTAGCCCAGTTATCC
1 TCCTTAGCCCAGATATCC
3381 TCCTTAG
1 TCCTTAG
3388 TCCAATTGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.16, C:0.39, G:0.14, T:0.32
Consensus pattern (18 bp):
TCCTTAGCCCAGATATCC
Found at i:21758 original size:29 final size:29
Alignment explanation
Indices: 21716--21804 Score: 169
Period size: 29 Copynumber: 3.1 Consensus size: 29
21706 CTACAGTGGT
21716 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1 CTTGGAGGTCGCCATGGCATCCGGGCGAC
*
21745 CTTGGAGGTCGCCATGGCATCCAGGCGAC
1 CTTGGAGGTCGCCATGGCATCCGGGCGAC
21774 CTTGGAGGTCGCCATGGCATCCGGGCGAC
1 CTTGGAGGTCGCCATGGCATCCGGGCGAC
21803 CT
1 CT
21805 GTGTGTATTA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.15, C:0.31, G:0.36, T:0.18
Consensus pattern (29 bp):
CTTGGAGGTCGCCATGGCATCCGGGCGAC
Found at i:21863 original size:18 final size:18
Alignment explanation
Indices: 21826--21879 Score: 101
Period size: 18 Copynumber: 3.1 Consensus size: 18
21816 AGAATAGGGC
21826 CATGCAATCAACAT-GGA
1 CATGCAATCAACATGGGA
21843 CATGCAATCAACATGGGA
1 CATGCAATCAACATGGGA
21861 CATGCAATCAACATGGGA
1 CATGCAATCAACATGGGA
21879 C
1 C
21880 GTGGGAATGC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 14 0.39
18 22 0.61
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (18 bp):
CATGCAATCAACATGGGA
Found at i:21912 original size:45 final size:45
Alignment explanation
Indices: 21861--21950 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
21851 CAACATGGGA
21861 CATGCAATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATGC
1 CATGCAATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATGC
21906 CATGCAATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATGC
1 CATGCAATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATGC
21951 ATGGGGTGGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.16, G:0.42, T:0.16
Consensus pattern (45 bp):
CATGCAATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATGC
Found at i:21965 original size:15 final size:15
Alignment explanation
Indices: 21925--22102 Score: 151
Period size: 15 Copynumber: 11.1 Consensus size: 15
21915 AACATGGGAC
21925 GTGGGAATGCATGGGG
1 GTGGGAATGCAT-GGG
* *
21941 GAGGGGATGCATGGG
1 GTGGGAATGCATGGG
21956 GTGGGAATGCATGGG
1 GTGGGAATGCATGGG
* *
21971 G-GAGGGATCAACATGGG
1 GTG-GGAAT--GCATGGG
21988 ATGTGGGAATGCATGGG
1 --GTGGGAATGCATGGG
* *
22005 GAGGGGATGCATGGG
1 GTGGGAATGCATGGG
22020 ACGTGGGAATGCATGGG
1 --GTGGGAATGCATGGG
22037 GTGGGAATGCATGGGG
1 GTGGGAATGCAT-GGG
* * *
22053 GGGGGATGGTGCATTGGAC
1 GTGGGA--ATGCA-TGG-G
22072 GTGGGAATGCATGGG
1 GTGGGAATGCATGGG
22087 GTGGGAATGCATGGG
1 GTGGGAATGCATGGG
22102 G
1 G
22103 GGAGGGGATG
Statistics
Matches: 131, Mismatches: 18, Indels: 27
0.74 0.10 0.15
Matches are distributed among these distances:
14 1 0.01
15 62 0.47
16 21 0.16
17 29 0.22
18 6 0.05
19 11 0.08
20 1 0.01
ACGTcount: A:0.21, C:0.08, G:0.53, T:0.18
Consensus pattern (15 bp):
GTGGGAATGCATGGG
Found at i:21987 original size:65 final size:65
Alignment explanation
Indices: 21912--22037 Score: 218
Period size: 65 Copynumber: 1.9 Consensus size: 65
21902 ATGCCATGCA
21912 ATCAACATGGGACGTGGGAATGCATGGGGGAGGGGATGCATGGG-GTGGGAATGCATGGGGGAGG
1 ATCAACATGGGACGTGGGAATGCAT-GGGGAGGGGATGCATGGGAGTGGGAATGCATGGGGGAGG
21976 G
65 G
*
21977 ATCAACATGGGATGTGGGAATGCATGGGGAGGGGATGCATGGGACGTGGGAATGCATGGGG
1 ATCAACATGGGACGTGGGAATGCATGGGGAGGGGATGCATGGGA-GTGGGAATGCATGGGG
22038 TGGGAATGCA
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
64 18 0.31
65 24 0.41
66 16 0.28
ACGTcount: A:0.24, C:0.10, G:0.50, T:0.17
Consensus pattern (65 bp):
ATCAACATGGGACGTGGGAATGCATGGGGAGGGGATGCATGGGAGTGGGAATGCATGGGGGAGGG
Found at i:22018 original size:32 final size:32
Alignment explanation
Indices: 21917--22051 Score: 177
Period size: 32 Copynumber: 4.2 Consensus size: 32
21907 ATGCAATCAA
21917 CATGGGACGTGGGAATGCATGGGGGAGGGGATG
1 CATGGGACGTGGGAATGCAT-GGGGAGGGGATG
*
21950 CATGGG--GTGGGAATGCATGGGG-GAGGGATCAA
1 CATGGGACGTGGGAATGCATGGGGAG-GGGAT--G
*
21982 CATGGGATGTGGGAATGCATGGGGAGGGGATG
1 CATGGGACGTGGGAATGCATGGGGAGGGGATG
* *
22014 CATGGGACGTGGGAATGCATGGGGTGGGAATG
1 CATGGGACGTGGGAATGCATGGGGAGGGGATG
22046 CATGGG
1 CATGGG
22052 GGGGGGATGG
Statistics
Matches: 91, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
29 1 0.01
30 9 0.10
31 12 0.13
32 41 0.45
33 6 0.07
34 21 0.23
35 1 0.01
ACGTcount: A:0.22, C:0.09, G:0.52, T:0.17
Consensus pattern (32 bp):
CATGGGACGTGGGAATGCATGGGGAGGGGATG
Found at i:22085 original size:50 final size:50
Alignment explanation
Indices: 21990--22127 Score: 219
Period size: 50 Copynumber: 2.8 Consensus size: 50
21980 AACATGGGAT
* *
21990 GTGGGAATGCATGGGGAGGGGA---TGCATGGGACGTGGGAATGCATGGG
1 GTGGGAATGCATGGGGGGGGGATGGTGCATTGGACGTGGGAATGCATGGG
22037 GTGGGAATGCATGGGGGGGGGATGGTGCATTGGACGTGGGAATGCATGGG
1 GTGGGAATGCATGGGGGGGGGATGGTGCATTGGACGTGGGAATGCATGGG
22087 GTGGGAATGCATGGGGGGAGGGGATGGTGCATTGGACGTGG
1 GTGGGAATGCAT-GGGGG-GGGGATGGTGCATTGGACGTGG
22128 AACTGTGCAT
Statistics
Matches: 84, Mismatches: 2, Indels: 5
0.92 0.02 0.05
Matches are distributed among these distances:
47 21 0.25
50 36 0.43
51 5 0.06
52 22 0.26
ACGTcount: A:0.19, C:0.08, G:0.54, T:0.19
Consensus pattern (50 bp):
GTGGGAATGCATGGGGGGGGGATGGTGCATTGGACGTGGGAATGCATGGG
Found at i:22240 original size:32 final size:32
Alignment explanation
Indices: 22199--22262 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
22189 ACCAAGGTCC
22199 TGCATGCATGCGTTGCATCATAGCTCATAGCT
1 TGCATGCATGCGTTGCATCATAGCTCATAGCT
22231 TGCATGCATGCGTTGCATCATAGCTCATAGCT
1 TGCATGCATGCGTTGCATCATAGCTCATAGCT
22263 CAGAGATTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (32 bp):
TGCATGCATGCGTTGCATCATAGCTCATAGCT
Found at i:22620 original size:21 final size:21
Alignment explanation
Indices: 22572--22620 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
22562 ACTAAAATCT
*
22572 AGTTAATTAGTTTGTTAGTATA
1 AGTT-ATTAGTTTGTAAGTATA
* *
22594 AATTATTAGTTTGTAAGTTTA
1 AGTTATTAGTTTGTAAGTATA
22615 AGTTAT
1 AGTTAT
22621 ATTATATTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (21 bp):
AGTTATTAGTTTGTAAGTATA
Found at i:22630 original size:28 final size:30
Alignment explanation
Indices: 22597--22659 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 30
22587 TAGTATAAAT
*
22597 TATTAGTTTGTAAGTTTAAG-T-TATATTA
1 TATTAGTTTATAAGTTTAAGTTATATATTA
*
22625 TATTAGTTTATTAGTTTAAGTTATATATTA
1 TATTAGTTTATAAGTTTAAGTTATATATTA
22655 TATTA
1 TATTA
22660 TATAAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 18 0.58
29 1 0.03
30 12 0.39
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (30 bp):
TATTAGTTTATAAGTTTAAGTTATATATTA
Found at i:23207 original size:20 final size:21
Alignment explanation
Indices: 23163--23207 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
23153 AAATATTGTG
**
23163 TTTAAAAATATTTAGTGTTGT
1 TTTAAAAATATTTAGTGTTAA
*
23184 TTTAAAAATATTTTGT-TTAA
1 TTTAAAAATATTTAGTGTTAA
23204 TTTA
1 TTTA
23208 CATTGTATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTAAAAATATTTAGTGTTAA
Found at i:23493 original size:26 final size:25
Alignment explanation
Indices: 23464--23522 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
23454 AAATCATATT
*
23464 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
23490 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
23516 ATTATTA
1 ATTATTA
23523 GGTTTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:26405 original size:19 final size:19
Alignment explanation
Indices: 26383--26459 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 19
26373 ATTAAATATT
26383 TAATGATTTGATGATTTAG
1 TAATGATTTGATGATTTAG
*
26402 TAATGATTTGATAATGATTTAAATATT
1 TAATGATTTG---ATGA-TT---TA-G
26429 TAATGATTTGATGATTTAG
1 TAATGATTTGATGATTTAG
26448 TAATGATTTGAT
1 TAATGATTTGAT
26460 AATAATCATT
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
19 22 0.46
20 2 0.04
22 4 0.08
23 4 0.08
24 4 0.08
26 2 0.04
27 10 0.21
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (19 bp):
TAATGATTTGATGATTTAG
Found at i:26409 original size:11 final size:11
Alignment explanation
Indices: 26393--26520 Score: 51
Period size: 11 Copynumber: 11.7 Consensus size: 11
26383 TAATGATTTG
26393 ATGATTTAGTA
1 ATGATTTAGTA
26404 ATGATTT-GATA
1 ATGATTTAG-TA
26415 ATGATTTA--A
1 ATGATTTAGTA
26424 AT-A-TT--TA
1 ATGATTTAGTA
26431 ATGATTT-G--
1 ATGATTTAGTA
26439 ATGATTTAGTA
1 ATGATTTAGTA
*
26450 ATGATTTGATAATA
1 ATGA-TT--TAGTA
*
26464 ATCATTATAGTA
1 ATGATT-TAGTA
*
26476 ATGATTTGATAATA
1 ATGA-TT--TAGTA
* *
26490 ATCATTATAATA
1 ATGATT-TAGTA
*
26502 ATGATTTAATA
1 ATGATTTAGTA
26513 ATGATTTA
1 ATGATTTA
26521 AATATTTAAT
Statistics
Matches: 96, Mismatches: 7, Indels: 28
0.73 0.05 0.21
Matches are distributed among these distances:
7 5 0.05
8 9 0.09
9 6 0.06
10 1 0.01
11 33 0.34
12 21 0.22
13 6 0.06
14 15 0.16
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (11 bp):
ATGATTTAGTA
Found at i:26474 original size:26 final size:26
Alignment explanation
Indices: 26445--27191 Score: 564
Period size: 26 Copynumber: 30.5 Consensus size: 26
26435 TTTGATGATT
26445 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
26471 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
* *
26497 TAATAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* *
26519 TA--AAT-ATTTAATGAACAAAT-ATT-
1 TAGTAATGATTTGAT-AA-TAATCATTA
26542 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
26568 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
26594 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
26620 TAATAATGATTT-ATTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
** * * *
26646 TAAAAATGATTTAATAATGAATTA-AA
1 TAGTAATGATTTGATAAT-AATCATTA
* *
26672 TATTTAATGATTTG------ATGATT-
1 TA-GTAATGATTTGATAATAATCATTA
*
26692 TAGTAATGATTTGATAATGAT--TTA
1 TAGTAATGATTTGATAATAATCATTA
* * * * * * *
26716 -AATATTTA-ATGAT-TTGATGATT-
1 TAGTAATGATTTGATAATAATCATTA
26738 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
26764 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
* *
26790 TAATAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* *
26812 TA--AAT-ATTTAATGAACAAAT-ATT-
1 TAGTAATGATTTGAT-AA-TAATCATTA
26835 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
26861 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
26887 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
26913 TAATAATGATTT-ATTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
** * * *
26939 TAAAAATGATTTAATAATGAATTA-AA
1 TAGTAATGATTTGATAAT-AATCATTA
* *
26965 TATTTAATGATTTG------ATGATT-
1 TA-GTAATGATTTGATAATAATCATTA
**
26985 TAGTAATGATTTGATAACGAT--TTA
1 TAGTAATGATTTGATAATAATCATTA
* * * * * * *
27009 -AATATTTA-ATGAT-TTGATGATT-
1 TAGTAATGATTTGATAATAATCATTA
27031 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
27057 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
* *
27083 TAATAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* *
27105 TA--AAT-ATTTAATGAACAAAT-ATT-
1 TAGTAATGATTTGAT-AA-TAATCATTA
27128 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
27154 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
* *
27180 TAATAAGGATTT
1 TAGTAATGATTT
27192 ATTGTTAATA
Statistics
Matches: 593, Mismatches: 62, Indels: 132
0.75 0.08 0.17
Matches are distributed among these distances:
19 23 0.04
20 25 0.04
21 7 0.01
22 17 0.03
23 79 0.13
24 26 0.04
25 48 0.08
26 342 0.58
27 26 0.04
ACGTcount: A:0.44, C:0.03, G:0.11, T:0.43
Consensus pattern (26 bp):
TAGTAATGATTTGATAATAATCATTA
Found at i:26698 original size:19 final size:19
Alignment explanation
Indices: 26676--26752 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 19
26666 ATTAAATATT
26676 TAATGATTTGATGATTTAG
1 TAATGATTTGATGATTTAG
*
26695 TAATGATTTGATAATGATTTAAATATT
1 TAATGATTTG---ATGA-TT---TA-G
26722 TAATGATTTGATGATTTAG
1 TAATGATTTGATGATTTAG
26741 TAATGATTTGAT
1 TAATGATTTGAT
26753 AATAATCATT
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
19 22 0.46
20 2 0.04
22 4 0.08
23 4 0.08
24 4 0.08
26 2 0.04
27 10 0.21
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (19 bp):
TAATGATTTGATGATTTAG
Found at i:26828 original size:293 final size:293
Alignment explanation
Indices: 26344--27191 Score: 1669
Period size: 293 Copynumber: 2.9 Consensus size: 293
26334 ATGTATTTAT
26344 TAATCATTATAAAAATGATTTAATAATGAATTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGAATTAAATATTTAATGATTTGATGATTTAGTAATGAT
26409 TTGATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAG
66 TTGATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAG
26474 TAATGATTTGATAATAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGAACAAAT
131 TAATGATTTGATAATAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGAACAAAT
26539 ATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAGTAATGAT
196 ATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAGTAATGAT
26604 TTGATAATAATCATTATAATAATGATTTATTAA
261 TTGATAATAATCATTATAATAATGATTTATTAA
26637 TAATCATTATAAAAATGATTTAATAATGAATTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGAATTAAATATTTAATGATTTGATGATTTAGTAATGAT
26702 TTGATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAG
66 TTGATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAG
26767 TAATGATTTGATAATAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGAACAAAT
131 TAATGATTTGATAATAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGAACAAAT
26832 ATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAGTAATGAT
196 ATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAGTAATGAT
26897 TTGATAATAATCATTATAATAATGATTTATTAA
261 TTGATAATAATCATTATAATAATGATTTATTAA
26930 TAATCATTATAAAAATGATTTAATAATGAATTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGAATTAAATATTTAATGATTTGATGATTTAGTAATGAT
*
26995 TTGATAACGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAG
66 TTGATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAG
27060 TAATGATTTGATAATAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGAACAAAT
131 TAATGATTTGATAATAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGAACAAAT
* *
27125 ATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAAGGAT
196 ATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAGTAATGAT
27190 TT
261 TT
27192 ATTGTTAATA
Statistics
Matches: 552, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
293 552 1.00
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.44
Consensus pattern (293 bp):
TAATCATTATAAAAATGATTTAATAATGAATTAAATATTTAATGATTTGATGATTTAGTAATGAT
TTGATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAG
TAATGATTTGATAATAATCATTATAATAATGATTTAATAATGATTTAAATATTTAATGAACAAAT
ATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAGTAATGAT
TTGATAATAATCATTATAATAATGATTTATTAA
Found at i:26991 original size:19 final size:19
Alignment explanation
Indices: 26969--27045 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 19
26959 ATTAAATATT
26969 TAATGATTTGATGATTTAG
1 TAATGATTTGATGATTTAG
*
26988 TAATGATTTGATAACGATTTAAATATT
1 TAATGATTTGAT---GA-TT---TA-G
27015 TAATGATTTGATGATTTAG
1 TAATGATTTGATGATTTAG
27034 TAATGATTTGAT
1 TAATGATTTGAT
27046 AATAATCATT
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
19 24 0.50
20 2 0.04
22 2 0.04
23 4 0.08
24 2 0.04
26 2 0.04
27 12 0.25
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.47
Consensus pattern (19 bp):
TAATGATTTGATGATTTAG
Found at i:27049 original size:170 final size:168
Alignment explanation
Indices: 26542--27100 Score: 548
Period size: 170 Copynumber: 3.3 Consensus size: 168
26532 AACAAATATT
*
26542 TAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAGTAATGATTTG
1 TAGTAATGATTTGATAATAATCATTATAATAATGATTTGATAATAATCATTATAGTAATGATTTG
* * * * * * *
26607 ATAATAATCATTATAATAATGATTTATTAATAATCATTATAAAAATGATTTAATAATGAATTAAA
66 ATAAT-A--ATTA-AATATTTAATGATT-ATAATGATT-T--AAATGATTTAATAACGATTTAAA
*
26672 TATTTAATGATTTGATGATTTAGTAATGATTTGATAATGAT--TTA
123 TATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTA
* * * * * * * *
26716 -AATATTTA-ATGAT-TTGATGATT-TAGTAATGATTTGATAATAATCATTATAGTAATGATTTG
1 TAGTAATGATTTGATAATAATCATTATAATAATGATTTGATAATAATCATTATAGTAATGATTTG
* * * *
26777 ATAATAA-TCATTATAATAATGATTTAATAATGATTTAAAT-ATTTAATGAACAAATATTTAGTA
66 ATAATAATTAAATAT-TTAATGA-TT-ATAATGATTTAAATGATTTAAT-AAC---GATTTA--A
* * * *
26840 ATGATTTGAT-A-ATAATCATTATAGTAATGATTTGATAATAATCATTA
122 AT-ATTTAATGATTTGATGATT-TAGTAATGATTTGATAATAATCATTA
**
26887 TAGTAATGATTTGATAATAATCATTATAATAATGATTT-ATTAATAATCATTATAAAAATGATTT
1 TAGTAATGATTTGATAATAATCATTATAATAATGATTTGA-TAATAATCATTATAGTAATGATTT
* * *
26951 AATAATGAATTAAATATTTAATGATT-TGATGATTTAGTAATGATTTGATAACGATTTAAATATT
65 GATAAT-AATTAAATATTTAATGATTATAATGATTTA--AATGATTTAATAACGATTTAAATATT
27015 TAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTA
127 TAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTA
*
27057 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAATAAT
1 TAGTAATGATTTGATAATAATCATTATAATAATGATTTGATAAT
27101 GATTTAAATA
Statistics
Matches: 316, Mismatches: 44, Indels: 54
0.76 0.11 0.13
Matches are distributed among these distances:
163 7 0.02
164 6 0.02
165 3 0.01
166 5 0.02
167 16 0.05
168 6 0.02
169 31 0.10
170 122 0.39
171 16 0.05
172 14 0.04
173 18 0.06
174 7 0.02
175 46 0.15
176 14 0.04
177 5 0.02
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.44
Consensus pattern (168 bp):
TAGTAATGATTTGATAATAATCATTATAATAATGATTTGATAATAATCATTATAGTAATGATTTG
ATAATAATTAAATATTTAATGATTATAATGATTTAAATGATTTAATAACGATTTAAATATTTAAT
GATTTGATGATTTAGTAATGATTTGATAATAATCATTA
Found at i:27202 original size:17 final size:17
Alignment explanation
Indices: 27180--27218 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
27170 ATAATCATTA
27180 TAATAAGGATTTATTGT
1 TAATAAGGATTTATTGT
27197 TAATAAGGATTTATTGT
1 TAATAAGGATTTATTGT
27214 TAATA
1 TAATA
27219 TTTAATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (17 bp):
TAATAAGGATTTATTGT
Found at i:27293 original size:17 final size:17
Alignment explanation
Indices: 27268--27300 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27258 ACTAAATATC
*
27268 TAATTATTTGATACTAG
1 TAATGATTTGATACTAG
27285 TAATGATTTGATACTA
1 TAATGATTTGATACTA
27301 AAAATCATTG
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:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TAATGATTTGATACTAG
Found at i:29763 original size:47 final size:47
Alignment explanation
Indices: 29662--29750 Score: 130
Period size: 45 Copynumber: 1.9 Consensus size: 47
29652 CAACAAACAA
29662 ATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTTAT
1 ATAAC-TAACTATTTAACTAACACAAACTAATTAAATAATTTTTTTAT
* *
29710 ATAACTAACTA-TTAAC-AATACAAACTAATT-AATTATTTTTT
1 ATAACTAACTATTTAACTAACACAAACTAATTAAATAATTTTTT
29751 AACTATATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
44 10 0.26
45 13 0.33
46 5 0.13
47 6 0.15
48 5 0.13
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (47 bp):
ATAACTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTTAT
Found at i:29819 original size:41 final size:40
Alignment explanation
Indices: 29681--29819 Score: 111
Period size: 41 Copynumber: 3.3 Consensus size: 40
29671 CTATTTAACT
* * *
29681 AACACAAACTAATTAAATAATTTTTTTA-TATAACTAACTATT
1 AACATAAACTAATTAAAT-ATTTTTTAACTAT-A-TAACTATA
*
29723 AACAATACAAACTAATTAATTATTTTTTAACTATATAACTATCA
1 AAC-AT--AAACTAATTAAATATTTTTTAACTATATAACTAT-A
* * *
29767 AACATATACTAATTAAATATTTTTTAATTTATGTATACTAT-
1 AACATAAACTAATTAAATATTTTTTAA-CTATATA-ACTATA
*
29808 AACTTAAACTAA
1 AACATAAACTAA
29820 CAATCATATA
Statistics
Matches: 80, Mismatches: 10, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
41 30 0.38
42 8 0.10
43 15 0.19
44 12 0.15
45 15 0.19
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.41
Consensus pattern (40 bp):
AACATAAACTAATTAAATATTTTTTAACTATATAACTATA
Found at i:29983 original size:4 final size:4
Alignment explanation
Indices: 29955--30020 Score: 69
Period size: 4 Copynumber: 16.0 Consensus size: 4
29945 TTTCGAATTC
* **
29955 TTCT TACT TTCCT TTCT CCCT TTCT TTCT TTCT TTCT TTCT TTCCT TTCT
1 TTCT TTCT TT-CT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TT-CT TTCT
**
30005 CCCT TTCT TTCT TTCT
1 TTCT TTCT TTCT TTCT
30021 CGATGGCAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
4 42 0.84
5 8 0.16
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (4 bp):
TTCT
Found at i:29998 original size:33 final size:33
Alignment explanation
Indices: 29955--30020 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
29945 TTTCGAATTC
29955 TTCTTACTTTCCTTTCTCCCTTTCTTTCTTTCT
1 TTCTTACTTTCCTTTCTCCCTTTCTTTCTTTCT
*
29988 TTCTTTCTTTCCTTTCTCCCTTTCTTTCTTTCT
1 TTCTTACTTTCCTTTCTCCCTTTCTTTCTTTCT
30021 CGATGGCAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (33 bp):
TTCTTACTTTCCTTTCTCCCTTTCTTTCTTTCT
Found at i:30110 original size:25 final size:25
Alignment explanation
Indices: 30082--30133 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
30072 TTTCTTTTAT
*
30082 AACCGGCTGCCTCAATTATTTCACC
1 AACCGACTGCCTCAATTATTTCACC
*
30107 AACCGACTGCCTTAATTATTTCACC
1 AACCGACTGCCTCAATTATTTCACC
30132 AA
1 AA
30134 TAATTGTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.29
Consensus pattern (25 bp):
AACCGACTGCCTCAATTATTTCACC
Found at i:30274 original size:23 final size:23
Alignment explanation
Indices: 30244--30303 Score: 120
Period size: 23 Copynumber: 2.6 Consensus size: 23
30234 ACACGTGAAG
30244 GAATGGATGATGGGGCTGCATGT
1 GAATGGATGATGGGGCTGCATGT
30267 GAATGGATGATGGGGCTGCATGT
1 GAATGGATGATGGGGCTGCATGT
30290 GAATGGATGATGGG
1 GAATGGATGATGGG
30304 AATGGCGCCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.23, C:0.07, G:0.45, T:0.25
Consensus pattern (23 bp):
GAATGGATGATGGGGCTGCATGT
Found at i:30342 original size:29 final size:29
Alignment explanation
Indices: 30309--30418 Score: 220
Period size: 29 Copynumber: 3.8 Consensus size: 29
30299 ATGGGAATGG
30309 CGCCGGGACTACATGGCGACCTATAAGGT
1 CGCCGGGACTACATGGCGACCTATAAGGT
30338 CGCCGGGACTACATGGCGACCTATAAGGT
1 CGCCGGGACTACATGGCGACCTATAAGGT
30367 CGCCGGGACTACATGGCGACCTATAAGGT
1 CGCCGGGACTACATGGCGACCTATAAGGT
30396 CGCCGGGACTACATGGCGACCTA
1 CGCCGGGACTACATGGCGACCTA
30419 CACCCTATTC
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 81 1.00
ACGTcount: A:0.24, C:0.29, G:0.31, T:0.16
Consensus pattern (29 bp):
CGCCGGGACTACATGGCGACCTATAAGGT
Found at i:30466 original size:15 final size:15
Alignment explanation
Indices: 30443--30511 Score: 58
Period size: 15 Copynumber: 4.9 Consensus size: 15
30433 GCATGGCCAC
30443 CTCGCATGGCTCGCA
1 CTCGCATGGCTCGCA
* *
30458 CTCGTATGGCTCGTA
1 CTCGCATGGCTCGCA
*
30473 -T-GCATGG---GGA
1 CTCGCATGGCTCGCA
30483 CCTCGCATGGCTCGCA
1 -CTCGCATGGCTCGCA
*
30499 CTCGTATGGCTCG
1 CTCGCATGGCTCG
30512 TATGCATGGG
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
10 2 0.05
12 1 0.02
13 11 0.26
14 1 0.02
15 25 0.60
16 2 0.05
ACGTcount: A:0.13, C:0.32, G:0.30, T:0.25
Consensus pattern (15 bp):
CTCGCATGGCTCGCA
Found at i:30478 original size:41 final size:41
Alignment explanation
Indices: 30432--30602 Score: 179
Period size: 41 Copynumber: 4.1 Consensus size: 41
30422 CCTATTCCAC
30432 TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
1 TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
**
30473 TGCATGGGGACCTCGCATGGCTCGCACTCGTATGGCTCGTA
1 TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
** *** * *
30514 TGCATGGGGACCTCGCATGGGGAGAACGACCTCTCTAT---TC-CA
1 TGCATGGCCACCTCGCATGGCTCG--C-A-CTC-GTATGGCTCGTA
30556 CTGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
1 -TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
30598 TGCAT
1 TGCAT
30603 CTATTCCACT
Statistics
Matches: 106, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
38 3 0.03
39 3 0.03
40 1 0.01
41 68 0.64
42 2 0.02
43 22 0.21
44 1 0.01
45 3 0.03
46 3 0.03
ACGTcount: A:0.16, C:0.32, G:0.28, T:0.24
Consensus pattern (41 bp):
TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
Found at i:30612 original size:55 final size:55
Alignment explanation
Indices: 30547--30657 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
30537 GAACGACCTC
30547 TCTATTCCACTGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTATGCA
1 TCTATTCCACTGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTATGCA
30602 TCTATTCCACTGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTATGCA
1 TCTATTCCACTGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTATGCA
30657 T
1 T
30658 GGGGACCTCG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.16, C:0.34, G:0.22, T:0.28
Consensus pattern (55 bp):
TCTATTCCACTGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTATGCA
Found at i:30626 original size:139 final size:139
Alignment explanation
Indices: 30473--30741 Score: 520
Period size: 139 Copynumber: 1.9 Consensus size: 139
30463 ATGGCTCGTA
**
30473 TGCATGGGGACCTCGCATGGCTCGCACTCGTATGGCTCGTATGCATGGGGACCTCGCATGGGGAG
1 TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTATGCATGGGGACCTCGCATGGGGAG
30538 AACGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTATGCAT
66 AACGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTATGCAT
30603 CTATTCCAC
131 CTATTCCAC
30612 TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTATGCATGGGGACCTCGCATGGGGAG
1 TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTATGCATGGGGACCTCGCATGGGGAG
30677 AACGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTATGCAT
66 AACGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTATGCAT
30742 GGGGAGAACC
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 128 1.00
ACGTcount: A:0.17, C:0.32, G:0.27, T:0.24
Consensus pattern (139 bp):
TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTATGCATGGGGACCTCGCATGGGGAG
AACGACCTCTCTATTCCACTGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTATGCAT
CTATTCCAC
Found at i:30639 original size:27 final size:27
Alignment explanation
Indices: 30554--30639 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
30544 CTCTCTATTC
30554 CACTGCATGGCCACCTCGCATGGCTCG
1 CACTGCATGGCCACCTCGCATGGCTCG
* * * * ***
30581 CACTCGTATGG-CTCGTATGCATCTATTC-
1 CACT-GCATGGCCACCT-CGCAT-GGCTCG
30609 CACTGCATGGCCACCTCGCATGGCTCG
1 CACTGCATGGCCACCTCGCATGGCTCG
30636 CACT
1 CACT
30640 CGTATGGCTC
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
26 2 0.05
27 20 0.50
28 16 0.40
29 2 0.05
ACGTcount: A:0.16, C:0.37, G:0.22, T:0.24
Consensus pattern (27 bp):
CACTGCATGGCCACCTCGCATGGCTCG
Found at i:30666 original size:41 final size:41
Alignment explanation
Indices: 30612--30743 Score: 119
Period size: 41 Copynumber: 3.2 Consensus size: 41
30602 TCTATTCCAC
30612 TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
1 TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
** *** * *
30653 TGCATGGGGACCTCGCATGGGGAGAACGACCTCTCTAT---TC-CA
1 TGCATGGCCACCTCGCATGGCTCG--C-A-CTC-GTATGGCTCGTA
30695 CTGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
1 -TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
30737 TGCATGG
1 TGCATGG
30744 GGAGAACCAG
Statistics
Matches: 67, Mismatches: 14, Indels: 20
0.66 0.14 0.20
Matches are distributed among these distances:
38 3 0.04
39 3 0.04
40 1 0.01
41 29 0.43
42 2 0.03
43 22 0.33
44 1 0.01
45 3 0.04
46 3 0.04
ACGTcount: A:0.17, C:0.32, G:0.28, T:0.23
Consensus pattern (41 bp):
TGCATGGCCACCTCGCATGGCTCGCACTCGTATGGCTCGTA
Found at i:35985 original size:29 final size:29
Alignment explanation
Indices: 35953--36019 Score: 134
Period size: 29 Copynumber: 2.3 Consensus size: 29
35943 TTTTGGACCC
35953 CCGACTATTAAAATTTACAAAATTATCAT
1 CCGACTATTAAAATTTACAAAATTATCAT
35982 CCGACTATTAAAATTTACAAAATTATCAT
1 CCGACTATTAAAATTTACAAAATTATCAT
36011 CCGACTATT
1 CCGACTATT
36020 CATTATGTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.34
Consensus pattern (29 bp):
CCGACTATTAAAATTTACAAAATTATCAT
Found at i:44617 original size:91 final size:91
Alignment explanation
Indices: 44462--44645 Score: 368
Period size: 91 Copynumber: 2.0 Consensus size: 91
44452 TGTCATTTCA
44462 TTCGCGAAAATATCTAACAAGGTTTTGATTACTATCGACTATGTGAAAATTGAAGAACTAGTAGA
1 TTCGCGAAAATATCTAACAAGGTTTTGATTACTATCGACTATGTGAAAATTGAAGAACTAGTAGA
44527 TACTTTCACAACTTCTCTTAATTAGG
66 TACTTTCACAACTTCTCTTAATTAGG
44553 TTCGCGAAAATATCTAACAAGGTTTTGATTACTATCGACTATGTGAAAATTGAAGAACTAGTAGA
1 TTCGCGAAAATATCTAACAAGGTTTTGATTACTATCGACTATGTGAAAATTGAAGAACTAGTAGA
44618 TACTTTCACAACTTCTCTTAATTAGG
66 TACTTTCACAACTTCTCTTAATTAGG
44644 TT
1 TT
44646 AAGATTGATT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 93 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (91 bp):
TTCGCGAAAATATCTAACAAGGTTTTGATTACTATCGACTATGTGAAAATTGAAGAACTAGTAGA
TACTTTCACAACTTCTCTTAATTAGG
Found at i:45283 original size:31 final size:31
Alignment explanation
Indices: 45245--45316 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
45235 AACTTACCCA
45245 CACCTAGAGAGTAAATTACTCAAACCTGAAT
1 CACCTAGAGAGTAAATTACTCAAACCTGAAT
*
45276 CACCTAGAGAGTAAATTACTCGAACCTGAAT
1 CACCTAGAGAGTAAATTACTCAAACCTGAAT
*
45307 CACCTGGAGA
1 CACCTAGAGA
45317 AAACATAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.21
Consensus pattern (31 bp):
CACCTAGAGAGTAAATTACTCAAACCTGAAT
Found at i:45481 original size:16 final size:16
Alignment explanation
Indices: 45460--45492 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
45450 TGCAAAGAGA
45460 GTCCTAATGTAGGGCT
1 GTCCTAATGTAGGGCT
45476 GTCCTAATGTAGGGCT
1 GTCCTAATGTAGGGCT
45492 G
1 G
45493 AAGAAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.33, T:0.30
Consensus pattern (16 bp):
GTCCTAATGTAGGGCT
Found at i:48578 original size:20 final size:20
Alignment explanation
Indices: 48555--48611 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
48545 TTTTGATATT
48555 AATACACATATAAGAGTATC
1 AATACACATATAAGAGTATC
* * *
48575 AATATA-ATTATGATAGTATC
1 AATACACA-TATAAGAGTATC
* *
48595 GATACCCATATAAGAGT
1 AATACACATATAAGAGT
48612 TTCGGTACCA
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (20 bp):
AATACACATATAAGAGTATC
Found at i:49575 original size:20 final size:21
Alignment explanation
Indices: 49550--49593 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
49540 GGAAATGTTA
*
49550 AAAAAAT-TGATATTTTAGAT
1 AAAAAATATAATATTTTAGAT
49570 AAAAAATAATAATATTTTAGAT
1 AAAAAAT-ATAATATTTTAGAT
49592 AA
1 AA
49594 TTTTTATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.33
22 14 0.67
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (21 bp):
AAAAAATATAATATTTTAGAT
Found at i:54100 original size:13 final size:13
Alignment explanation
Indices: 54082--54108 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
54072 GCTGGGGAAA
54082 TCACACTTTACAG
1 TCACACTTTACAG
54095 TCACACTTTACAG
1 TCACACTTTACAG
54108 T
1 T
54109 GAGAAAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (13 bp):
TCACACTTTACAG
Found at i:57450 original size:27 final size:27
Alignment explanation
Indices: 57394--57516 Score: 97
Period size: 27 Copynumber: 4.5 Consensus size: 27
57384 GATGCTATCT
* * *
57394 TTTATTCGATGTACG-ATTAATGTGATA
1 TTTATTTGATGTACGAATTGA-GTGACA
* * *
57421 TTTATTCGATGTATGAATTGAGTGGCA
1 TTTATTTGATGTACGAATTGAGTGACA
* * *
57448 TTTATTTAATGTACGATCTTGAGTGATA
1 TTTATTTGATGTACGA-ATTGAGTGACA
* * *
57476 TTTATTTGATATA-TAATTTGTGTGACA
1 TTTATTTGATGTACGAA-TTGAGTGACA
57503 TTTATTTGATGTAC
1 TTTATTTGATGTAC
57517 AACTATGATC
Statistics
Matches: 75, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
27 52 0.69
28 23 0.31
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.47
Consensus pattern (27 bp):
TTTATTTGATGTACGAATTGAGTGACA
Found at i:60441 original size:13 final size:13
Alignment explanation
Indices: 60423--60447 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60413 TGTAATTTGA
60423 AATAAATAAAAAG
1 AATAAATAAAAAG
60436 AATAAATAAAAA
1 AATAAATAAAAA
60448 AAACTATATA
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:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
AATAAATAAAAAG
Found at i:62696 original size:55 final size:55
Alignment explanation
Indices: 62612--63505 Score: 586
Period size: 55 Copynumber: 16.6 Consensus size: 55
62602 CTCCATAGTC
* * * *
62612 CTTCAGAGAGTATAAGACCCGAACGATCTTTAACAATCGCGTCTGCCCCCTATTT
1 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCTCCCTATTT
* *
62667 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTT
1 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCTCCCTATTT
* * * * * * *
62722 CTTCAGAGAGTATAAGAC-C-CACAATCCTCATCCATCACGTCTTCCCCCCTATTT
1 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTC-TGCTCCCTATTT
* * *
62776 CTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGTGTCGGCTCCCTATTT
1 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCTCCCTATTT
* * * * * *
62831 CTGCATAGAGTATAAGACTCGAACAATTTTCAACAATCGTGTCTGCTCCCCATTC
1 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCTCCCTATTT
* * * *
62886 CCTCGGAGAGTATAAGACTCAAACAATCTTCATCAATCGCGTCTGCTCCCTATTT
1 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCTCCCTATTT
* * ** * * * * *
62941 CTTCAGGGAGTAT-AGAACTTGAA-AATCTTCTGCAAACGGGTTTTCTCCCTCTTT
1 CTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGCGTCTGCTCCCTATTT
* * * *
62995 CTTCAGGGAGTAT-AGAACTCGAAC-ATCTTCGAC-A--GGGT-TCGCTCCCTTTTT
1 CTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGCGTCT-GCTCCCTATTT
* * * ** * * ** * *
63046 CTTCCGGGAGTAT-AGAACTC-AAAAATCTTCTTC-TTACGGGT-TCGCTCTTTCTCT
1 CTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAAT-CGCGTCT-GCTCCCTATTT
* * * *
63100 CTTTAAAGAGTAT-AGAACTCGAAC-ATCTTC-A-AA-CGGGT-TCGCTCCCTTCTTT
1 CTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGCGTCT-GCTCCC-TATTT
* ** * * * *
63152 CTTTA-AGGAGTATGGGACTCGGA-TATCTTC-AC-A-CGGGT-TCGCTCCCTCTTT
1 CTTCAGA-GAGTATAAGACTCGAACAATCTTCAACAATCGCGTCT-GCTCCCTATTT
* * * * * * *
63203 C-TCTAGGGAGTAT-GGAACT-TAGACATCTCTTC-A-AA-CGGGT-TCGCTCCTTCTTT
1 CTTC-AGAGAGTATAAG-ACTCGA-ACA-ATCTTCAACAATCGCGTCT-GCTCCCTATTT
* * *
63256 CTTTA-AGGAG-A-ACAGAACTCGAA-TATCTTCAACAATCGTGTCTGCTCCCTATTT
1 CTTCAGA-GAGTATA-AG-ACTCGAACAATCTTCAACAATCGCGTCTGCTCCCTATTT
* * * *
63310 CTTCAGAGAGTATGAGACTCGAACGATCTTCATCAATTGCGTCTGCTCCCTATTT
1 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCTCCCTATTT
* * * * *
63365 CTTCAGAGAGTATAAGACCCAAACAATCTTCATCAATCGTGTCTGCTCCCCA-TT
1 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCTCCCTATTT
*
63419 CTTTCAGAGAGTATAAGACTTGAACAATCTTCAACAATCGCGTCTGCTCCCTATTT
1 C-TTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCTCCCTATTT
* *
63475 CTTCAGGGAGTATAAGACTCGATCAATCTTC
1 CTTCAGAGAGTATAAGACTCGAACAATCTTC
63506 GATTATCGTT
Statistics
Matches: 688, Mismatches: 112, Indels: 78
0.78 0.13 0.09
Matches are distributed among these distances:
50 6 0.01
51 73 0.11
52 44 0.06
53 56 0.08
54 152 0.22
55 338 0.49
56 19 0.03
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (55 bp):
CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTGCTCCCTATTT
Found at i:62814 original size:164 final size:165
Alignment explanation
Indices: 62612--62954 Score: 467
Period size: 164 Copynumber: 2.1 Consensus size: 165
62602 CTCCATAGTC
* * * *
62612 CTTCAGAGAGTATAAGACCCGAACGATCTTTAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAG
1 CTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGCGTCGGCCCCCTATTTCTGCAGAGAG
* * *
62677 TATAAGACTCGAACAATCTTCAACGATCGCGTCTGC-CCCCTATTTCTTCAGAGAGTATAAGAC-
66 TATAAGACTCGAACAATCTTCAACAATCGCGTCTGCTCCCC-ATTCCCTCAGAGAGTATAAGACT
* *
62740 C-CACAATCCTCATCCATCACGTCTTCCCCCCTATTT
130 CAAACAATCCTCATCAATCACGTC-TCCCCCCTATTT
* * *
62776 CTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGTGTCGGCTCCCTATTTCTGCATAGAG
1 CTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGCGTCGGCCCCCTATTTCTGCAGAGAG
* * *
62841 TATAAGACTCGAACAATTTTCAACAATCGTGTCTGCTCCCCATTCCCTCGGAGAGTATAAGACTC
66 TATAAGACTCGAACAATCTTCAACAATCGCGTCTGCTCCCCATTCCCTCAGAGAGTATAAGACTC
* * * *
62906 AAACAATCTTCATCAATCGCGTCTGCTCCCTATTT
131 AAACAATCCTCATCAATCACGTCTCCCCCCTATTT
*
62941 CTTCAGGGAGTATA
1 CTTCAGAGAGTATA
62955 GAACTTGAAA
Statistics
Matches: 156, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
164 110 0.71
165 28 0.18
166 18 0.12
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (165 bp):
CTTCAGAGAGTATAAGACCCGAACAATCTTCAACAATCGCGTCGGCCCCCTATTTCTGCAGAGAG
TATAAGACTCGAACAATCTTCAACAATCGCGTCTGCTCCCCATTCCCTCAGAGAGTATAAGACTC
AAACAATCCTCATCAATCACGTCTCCCCCCTATTT
Found at i:63055 original size:51 final size:51
Alignment explanation
Indices: 62930--63341 Score: 271
Period size: 54 Copynumber: 7.8 Consensus size: 51
62920 AATCGCGTCT
* * * *
62930 GCTCCCTATTTCTTCAGGGAGTATAGAACTTGAAAATCTTCTGCAAACGGGTTT
1 GCTCCCTTTTTCTTCAGGGAGTATAGAACTCGAAAATC-T-T-CACACGGGTTC
* * *
62984 TCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCGACA-GGGTTC
1 GCTCCCTTTTTCTTCAGGGAGTATAGAACTCGAAAATCTTC-ACACGGGTTC
* * *
63035 GCTCCCTTTTTCTTCCGGGAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTC
1 GCTCCCTTTTTCTTCAGGGAGTATAGAACTCGAAAATCTTC-AC--ACGGGTTC
* ** * *
63089 GCT--CTTTCTCTCTTTAAAGAGTATAGAACTCGAACATCTTCAAACGGGTTC
1 GCTCCCTTT-T-TCTTCAGGGAGTATAGAACTCGAAAATCTTCACACGGGTTC
* * * * * *
63140 GCTCCCTTCTTTCTTTAAGGAGTATGGGACTCGGATATCTTCACACGGGTTC
1 GCTCCCTT-TTTCTTCAGGGAGTATAGAACTCGAAAATCTTCACACGGGTTC
* * * ** *
63192 GCTCCCTCTTTC-TCTAGGGAGTATGGAACTTAGACATCTCTTCAAACGGGTTC
1 GCTCCCTTTTTCTTC-AGGGAGTATAGAAC-TCGA-AAATCTTCACACGGGTTC
* * * * * *
63245 GCT-CCTTCTTTCTTTAAGGAGAACAGAACTCGAATATCTTCAACAATCGTG-TC
1 GCTCCCTT-TTTCTTCAGGGAGTATAGAACTCGAAAATCTTC-AC-A-CGGGTTC
* * *
63298 TGCTCCCTATTTCTTCAGAGAGTAT-GAGACTCGAACGATCTTCA
1 -GCTCCCTTTTTCTTCAGGGAGTATAGA-ACTCGAA-AATCTTCA
63342 TCAATTGCGT
Statistics
Matches: 285, Mismatches: 52, Indels: 42
0.75 0.14 0.11
Matches are distributed among these distances:
50 1 0.00
51 77 0.27
52 58 0.20
53 45 0.16
54 95 0.33
55 9 0.03
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (51 bp):
GCTCCCTTTTTCTTCAGGGAGTATAGAACTCGAAAATCTTCACACGGGTTC
Found at i:63055 original size:105 final size:105
Alignment explanation
Indices: 62930--63341 Score: 293
Period size: 105 Copynumber: 3.9 Consensus size: 105
62920 AATCGCGTCT
* ** ** *
62930 GCTCCCTATTTCTTCAGGGAGTATAGAACTTGAAAATCTTCTGCAAACGGGTTTTCTCCCTCTTT
1 GCTCCCTTTTTCTTCAGGGAGTATAGAACTCAAAAATCTTCTGCAAACGGGTTCGCTCCCTCTCT
** *
62995 CTTCAGGGAGTATAGAACTCGAACATCTTC-GACAGGGTTC
66 CTTCAAAGAGTATAGAACTCGAACATCTTCAAAC-GGGTTC
* * ** **
63035 GCTCCCTTTTTCTTCCGGGAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCTTTCTCT
1 GCTCCCTTTTTCTTCAGGGAGTATAGAACTCAAAAATCTTCTGCAAACGGGTTCGCTCCCTCTCT
*
63100 CTTTAAAGAGTATAGAACTCGAACATCTTCAAACGGGTTC
66 CTTCAAAGAGTATAGAACTCGAACATCTTCAAACGGGTTC
* * * * ** * * *
63140 GCTCCCTTCTTTCTTTAAGGAGTATGGGACTCGGATATC-T-T-CACACGGGTTCGCTCCCTCTT
1 GCTCCCTT-TTTCTTCAGGGAGTATAGAACTCAAAAATCTTCTGCAAACGGGTTCGCTCCCTCTC
** * *
63202 TC-TCTAGGGAGTATGGAACT-TAGACATCTCTTCAAACGGGTTC
65 TCTTC-AAAGAGTATAGAACTCGA-ACA--TCTTCAAACGGGTTC
* * * * * * ** * * *
63245 GCT-CCTTCTTTCTTTAAGGAGAACAGAACTCGAATATCTTCAACAATCGTG-TCTGCTCCCTAT
1 GCTCCCTT-TTTCTTCAGGGAGTATAGAACTCAAAAATCTTCTGCAAACGGGTTC-GCTCCCTCT
* *
63308 TTCTTCAGAGAGTAT-GAGACTCGAACGATCTTCA
64 CTCTTCAAAGAGTATAGA-ACTCGAAC-ATCTTCA
63342 TCAATTGCGT
Statistics
Matches: 247, Mismatches: 46, Indels: 27
0.77 0.14 0.08
Matches are distributed among these distances:
102 2 0.01
103 33 0.13
104 31 0.13
105 114 0.46
106 34 0.14
107 29 0.12
108 4 0.02
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (105 bp):
GCTCCCTTTTTCTTCAGGGAGTATAGAACTCAAAAATCTTCTGCAAACGGGTTCGCTCCCTCTCT
CTTCAAAGAGTATAGAACTCGAACATCTTCAAACGGGTTC
Found at i:63274 original size:53 final size:51
Alignment explanation
Indices: 62938--63287 Score: 267
Period size: 51 Copynumber: 6.7 Consensus size: 51
62928 CTGCTCCCTA
* * * * ** *
62938 TTTCTTCAGGGAGTATAGAACTTGAAAATCTTCTGCAAACGGGTTTTCTCCCTC
1 TTTCTTTAAGGAGTATAGAACTCG--AATC-TCTTCAAACGGGTTCGCTCCTTC
* * *
62992 TTTCTTCAGGGAGTATAGAACTCGAA-CATCTTC-GACAGGGTTCGCTCCCTT-
1 TTTCTTTAAGGAGTATAGAACTCGAATC-TCTTCAAAC-GGGTTCGCT-CCTTC
*** * ** *
63043 TTTCTTCCGGGAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCTTTC
1 TTTCTTTAAGGAGTATAGAACTC--GAATC-TCTTCAAACGGGTTCGCTCCTTC
* *
63097 TCTCTTTAAAGAGTATAGAACTCGAA-CATCTTCAAACGGGTTCGCTCCCTTC
1 TTTCTTTAAGGAGTATAGAACTCGAATC-TCTTCAAACGGGTTCGCT-CCTTC
* * * * * *
63149 TTTCTTTAAGGAGTATGGGACTCGGATATCTTCACACGGGTTCGCTCCCTC
1 TTTCTTTAAGGAGTATAGAACTCGAATCTCTTCAAACGGGTTCGCTCCTTC
* * * *
63200 TTTCTCTAGGGAGTATGGAACTTAGACATCTCTTCAAACGGGTTCGCTCCTTC
1 TTTCTTTAAGGAGTATAGAAC-TCGA-ATCTCTTCAAACGGGTTCGCTCCTTC
* * *
63253 TTTCTTTAAGGAGAACAGAACTCGAATATCTTCAA
1 TTTCTTTAAGGAGTATAGAACTCGAATCTCTTCAA
63288 CAATCGTGTC
Statistics
Matches: 240, Mismatches: 45, Indels: 25
0.77 0.15 0.08
Matches are distributed among these distances:
50 2 0.01
51 82 0.34
52 54 0.22
53 44 0.18
54 56 0.23
55 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (51 bp):
TTTCTTTAAGGAGTATAGAACTCGAATCTCTTCAAACGGGTTCGCTCCTTC
Found at i:63286 original size:156 final size:156
Alignment explanation
Indices: 62973--63340 Score: 388
Period size: 156 Copynumber: 2.3 Consensus size: 156
62963 AAATCTTCTG
** *
62973 CAAACGGGTTTTCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCGACAGGGTTCGCT
1 CAAACGGGTTCGCTCCCTCTTTCTTCAAGGAGTATAGAACTCGAACATCTTCGACAGGGTTCGCT
* * ** *
63038 CCCTTTTTCTTCCGGGAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCTTTCTCTCTT
66 CCCTCTTTCTTCAGGGAGTATAGAACTCAAAAATCTTCTTCAAACGGGTTCGCTCCTTCTCTCTT
* *
63103 TAAAGAGTATAGAACTCGAACATCTT
131 TAAAGAGAACAGAACTCGAACATCTT
* * * * *
63129 CAAACGGGTTCGCTCCCTTCTTTCTTTAAGGAGTATGGGACTCGGATATCTTC-ACACGGGTTCG
1 CAAACGGGTTCGCTCCC-TCTTTCTTCAAGGAGTATAGAACTCGAACATCTTCGACA-GGGTTCG
* * * * *
63193 CTCCCTCTTTC-TCTAGGGAGTATGGAACTTAGACATC-TCTTCAAACGGGTTCGCTCCTTCTTT
64 CTCCCTCTTTCTTC-AGGGAGTATAGAACTCAAAAATCTTCTTCAAACGGGTTCGCTCCTTCTCT
* *
63256 CTTTAAGGAGAACAGAACTCGAATATCTT
128 CTTTAAAGAGAACAGAACTCGAACATCTT
* *
63285 CAACAATCGTG-TCTGCTCCCTATTTCTTC-AGAGAGTAT-GAGACTCGAACGATCTTC
1 C-A-AA-CGGGTTC-GCTCCCTCTTTCTTCAAG-GAGTATAGA-ACTCGAAC-ATCTTC
63341 ATCAATTGCG
Statistics
Matches: 174, Mismatches: 28, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
156 68 0.39
157 68 0.39
158 23 0.13
159 15 0.09
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (156 bp):
CAAACGGGTTCGCTCCCTCTTTCTTCAAGGAGTATAGAACTCGAACATCTTCGACAGGGTTCGCT
CCCTCTTTCTTCAGGGAGTATAGAACTCAAAAATCTTCTTCAAACGGGTTCGCTCCTTCTCTCTT
TAAAGAGAACAGAACTCGAACATCTT
Found at i:64524 original size:9 final size:8
Alignment explanation
Indices: 64510--64566 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
64500 ACCCTTCTTT
64510 TTTTTTCCA
1 TTTTTT-CA
64519 TTTTTTCA
1 TTTTTTCA
64527 TTTTTT-A
1 TTTTTTCA
64534 TTTTTT--
1 TTTTTTCA
64540 TTTATTT--
1 TTT-TTTCA
*
64547 TTTTTTTA
1 TTTTTTCA
64555 TTTTTTCA
1 TTTTTTCA
64563 TTTT
1 TTTT
64567 CACTCATTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
6 6 0.14
7 13 0.30
8 19 0.43
9 6 0.14
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTCA
Found at i:64539 original size:7 final size:7
Alignment explanation
Indices: 64518--64566 Score: 55
Period size: 7 Copynumber: 6.7 Consensus size: 7
64508 TTTTTTTTCC
64518 ATTTTTT
1 ATTTTTT
64525 CATTTTTT
1 -ATTTTTT
64533 ATTTTTT
1 ATTTTTT
64540 -TTTATTT
1 ATTT-TTT
*
64547 TTTTTTT
1 ATTTTTT
64554 ATTTTTT
1 ATTTTTT
64561 CATTTT
1 -ATTTT
64567 CACTCATTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
6 3 0.08
7 19 0.51
8 15 0.41
ACGTcount: A:0.12, C:0.04, G:0.00, T:0.84
Consensus pattern (7 bp):
ATTTTTT
Found at i:64540 original size:10 final size:10
Alignment explanation
Indices: 64527--64560 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
64517 CATTTTTTCA
64527 TTTTTTATTT
1 TTTTTTATTT
64537 TTTTTTATTTT
1 TTTTTTA-TTT
64548 TTTTTTATTT
1 TTTTTTATTT
64558 TTT
1 TTT
64561 CATTTTCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:64541 original size:11 final size:11
Alignment explanation
Indices: 64527--64560 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
64517 CATTTTTTCA
64527 TTTTTTA-TTT
1 TTTTTTATTTT
64537 TTTTTTATTTT
1 TTTTTTATTTT
64548 TTTTTTATTTT
1 TTTTTTATTTT
64559 TT
1 TT
64561 CATTTTCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 7 0.30
11 16 0.70
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (11 bp):
TTTTTTATTTT
Done.