Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_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: 5892847
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 27
Found at i:4481601 original size:26 final size:28
Alignment explanation
Indices: 4481571--4481632 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 28
4481561 GAAAATTTTA
4481571 AGCTC-GC-GAGTTTTCGAGTCGAGTCG
1 AGCTCTGCAGAGTTTTCGAGTCGAGTCG
*
4481597 AGCTCCATTTCAGAGTTTTCGAGTCGAGTCG
1 AGCT-C--TGCAGAGTTTTCGAGTCGAGTCG
4481628 AGCTC
1 AGCTC
4481633 AGCAATACTC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
26 4 0.13
27 1 0.03
30 2 0.07
31 23 0.77
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (28 bp):
AGCTCTGCAGAGTTTTCGAGTCGAGTCG
Found at i:4486067 original size:20 final size:20
Alignment explanation
Indices: 4486019--4486100 Score: 103
Period size: 20 Copynumber: 3.9 Consensus size: 20
4486009 AACACGCTGG
*
4486019 GCATCTGAGGCCATCCGACCGA
1 GCATCCGAGGCCATCCGA--GA
4486041 GGCCATCCGAGAG-CATCCGAGA
1 -G-CATCCGAG-GCCATCCGAGA
4486063 GCATCCGAGGCCATCCGAGA
1 GCATCCGAGGCCATCCGAGA
4486083 GCATCCGAGGCCATCCGA
1 GCATCCGAGGCCATCCGA
4486101 CCGAGGCCAT
Statistics
Matches: 55, Mismatches: 1, Indels: 9
0.85 0.02 0.14
Matches are distributed among these distances:
19 1 0.02
20 35 0.64
21 1 0.02
22 2 0.04
23 1 0.02
24 14 0.25
25 1 0.02
ACGTcount: A:0.24, C:0.35, G:0.29, T:0.11
Consensus pattern (20 bp):
GCATCCGAGGCCATCCGAGA
Found at i:4486073 original size:30 final size:30
Alignment explanation
Indices: 4486037--4486100 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 30
4486027 GGCCATCCGA
4486037 CCGAGGCCATCCGAGAGCATCCGAGAG-CAT
1 CCGAGGCCATCCGAGAGCATCCGAG-GCCAT
4486067 CCGAGGCCATCCGAGAGCATCCGAGGCCAT
1 CCGAGGCCATCCGAGAGCATCCGAGGCCAT
4486097 CCGA
1 CCGA
4486101 CCGAGGCCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 1 0.03
30 32 0.97
ACGTcount: A:0.25, C:0.36, G:0.30, T:0.09
Consensus pattern (30 bp):
CCGAGGCCATCCGAGAGCATCCGAGGCCAT
Found at i:4486106 original size:14 final size:14
Alignment explanation
Indices: 4486087--4486119 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
4486077 CCGAGAGCAT
4486087 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
4486101 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
4486115 ACGAG
1 CCGAG
4486120 CTATGCGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.39, G:0.30, T:0.06
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:4486114 original size:10 final size:10
Alignment explanation
Indices: 4486044--4486100 Score: 82
Period size: 10 Copynumber: 5.7 Consensus size: 10
4486034 CGACCGAGGC
4486044 CATCCGAGAG
1 CATCCGAGAG
4486054 CATCCGAGAG
1 CATCCGAGAG
4486064 CATCCGAG-G
1 CATCCGAGAG
4486073 CCATCCGAGAG
1 -CATCCGAGAG
4486084 CATCCGAG-G
1 CATCCGAGAG
4486093 CCATCCGA
1 -CATCCGA
4486101 CCGAGGCCAT
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
9 2 0.05
10 41 0.93
11 1 0.02
ACGTcount: A:0.26, C:0.35, G:0.28, T:0.11
Consensus pattern (10 bp):
CATCCGAGAG
Found at i:4486137 original size:23 final size:23
Alignment explanation
Indices: 4486102--4486153 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
4486092 GCCATCCGAC
* *
4486102 CGAGGCCATCCGAACGAGCTATG
1 CGAGGGCAACCGAACGAGCTATG
*
4486125 CGAGGGCAACCGAGCGAGCTATG
1 CGAGGGCAACCGAACGAGCTATG
4486148 CGAGGG
1 CGAGGG
4486154 AATCCGAGCG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.38, T:0.10
Consensus pattern (23 bp):
CGAGGGCAACCGAACGAGCTATG
Found at i:4486160 original size:23 final size:24
Alignment explanation
Indices: 4486109--4486165 Score: 91
Period size: 23 Copynumber: 2.5 Consensus size: 24
4486099 GACCGAGGCC
*
4486109 ATCCGAACGAGCTATGCGAGGGCA
1 ATCCGAGCGAGCTATGCGAGGGCA
4486133 A-CCGAGCGAGCTATGCGAGGG-A
1 ATCCGAGCGAGCTATGCGAGGGCA
4486155 ATCCGAGCGAG
1 ATCCGAGCGAG
4486166 GGTAGGTCGC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
22 2 0.06
23 28 0.90
24 1 0.03
ACGTcount: A:0.28, C:0.25, G:0.37, T:0.11
Consensus pattern (24 bp):
ATCCGAGCGAGCTATGCGAGGGCA
Found at i:4490235 original size:10 final size:10
Alignment explanation
Indices: 4490220--4490278 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
4490210 TCATTTTTTA
4490220 AAAAATAAAT
1 AAAAATAAAT
4490230 AAAAATACAAT
1 AAAAATA-AAT
* *
4490241 ACAAATGAATT
1 AAAAAT-AAAT
*
4490252 AAAAATGAAT
1 AAAAATAAAT
* *
4490262 AAAATTCAAT
1 AAAAATAAAT
4490272 AAAAATA
1 AAAAATA
4490279 TAATGTAAAG
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
10 22 0.58
11 15 0.39
12 1 0.03
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.22
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:4491498 original size:10 final size:10
Alignment explanation
Indices: 4491463--4491487 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4491453 TTTAATATTT
4491463 ATTTTATTGC
1 ATTTTATTGC
4491473 ATTTTATTGC
1 ATTTTATTGC
4491483 ATTTT
1 ATTTT
4491488 TAATTCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.08, G:0.08, T:0.64
Consensus pattern (10 bp):
ATTTTATTGC
Found at i:4499308 original size:24 final size:24
Alignment explanation
Indices: 4499277--4499325 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
4499267 TTATAATCTT
4499277 CAATCTAATTTACTTCATTTACAA
1 CAATCTAATTTACTTCATTTACAA
4499301 CAATCTAATTTACTTCATTTACAA
1 CAATCTAATTTACTTCATTTACAA
4499325 C
1 C
4499326 GTTCATGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (24 bp):
CAATCTAATTTACTTCATTTACAA
Found at i:4503555 original size:16 final size:17
Alignment explanation
Indices: 4503515--4503558 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
4503505 CCTTACTTGA
4503515 TTAAATATTTAATAAAT
1 TTAAATATTTAATAAAT
** *
4503532 TTTTATATTT-TTAAAT
1 TTAAATATTTAATAAAT
4503548 TTAAATATTTA
1 TTAAATATTTA
4503559 TTTTTATATG
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATATTTAATAAAT
Found at i:4503590 original size:16 final size:16
Alignment explanation
Indices: 4503569--4503599 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4503559 TTTTTATATG
4503569 AATTAAAATAATATTA
1 AATTAAAATAATATTA
*
4503585 AATTAAAATTATATT
1 AATTAAAATAATATT
4503600 GAATATATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTAAAATAATATTA
Found at i:4505008 original size:42 final size:42
Alignment explanation
Indices: 4504887--4505008 Score: 133
Period size: 42 Copynumber: 2.9 Consensus size: 42
4504877 TTCAAAAATG
* * * *
4504887 GTTATAATATGTTAGTTTGGTGTATGTGTAACTTAT-TTTTCTA
1 GTTATAAGATATTAATTTGGTGTATATGTAA-TT-TGTTTTCTA
* *
4504930 GTTTTAAGATATTAATTTAGTGTATATGTGAA-TTGTTTTCTA
1 GTTATAAGATATTAATTTGGTGTATATGT-AATTTGTTTTCTA
4504972 GTTATAAGATATTAATTTGGTGTACT-TGTAATTTGTT
1 GTTATAAGATATTAATTTGGTGTA-TATGTAATTTGTT
4505009 AATTTAAAGT
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
41 3 0.04
42 38 0.57
43 24 0.36
44 2 0.03
ACGTcount: A:0.26, C:0.03, G:0.18, T:0.52
Consensus pattern (42 bp):
GTTATAAGATATTAATTTGGTGTATATGTAATTTGTTTTCTA
Found at i:4513575 original size:27 final size:27
Alignment explanation
Indices: 4513545--4513625 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
4513535 TATAAAAATA
*
4513545 ATATATATGATGGTAATAATAATAAAG
1 ATATATATAATGGTAATAATAATAAAG
* * * *
4513572 ATATAAACAATGGGAAAAATAA-AAAG
1 ATATATATAATGGTAATAATAATAAAG
*
4513598 ATATATATAATAGTAATAAATAAATAAA
1 ATATATATAATGGTAAT-AAT-AATAAA
4513626 AACTACAAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
26 16 0.39
27 20 0.49
28 2 0.05
29 3 0.07
ACGTcount: A:0.60, C:0.01, G:0.11, T:0.27
Consensus pattern (27 bp):
ATATATATAATGGTAATAATAATAAAG
Found at i:4513903 original size:2 final size:2
Alignment explanation
Indices: 4513896--4513990 Score: 101
Period size: 2 Copynumber: 50.0 Consensus size: 2
4513886 TGATTACGTG
* * * * *
4513896 TA TA TA TA TA TA TG TA TA -A TA -A AA TA -A AA TA AA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
4513935 CA TA -A TA TA TA TA TA TA TA TA T- 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
4513975 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
4513991 AATAAAGGAA
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
1 5 0.06
2 75 0.94
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (2 bp):
TA
Found at i:4515357 original size:94 final size:94
Alignment explanation
Indices: 4515230--4515599 Score: 422
Period size: 106 Copynumber: 3.7 Consensus size: 94
4515220 AATGACATCC
4515230 TCGTCGTGAAGTTGAAC-TG-GTACTGTCTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
1 TCGTCGTGAAGTTGAACTTGCGT--TGTCTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
*
4515293 GGAAATTGTTTATTGACAACCAGCGGTCCCT
64 GGAAATTGTTTGTTGACAACCAGCGGTCCCT
* *
4515324 TCGTCGTGAAGTTGAACTTGTGTTGT-TTGGAGTCCAATATTCTTCGCTGTGAAGTTGAAATTGA
1 TCGTCGTGAAGTTGAACTTGCGTTGTCTT-GAGTCCAATATCCTTCG-T-T---G-TG-AA--G-
4515388 CTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCT
55 -T-TGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCT
* *
4515430 TCGCCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGC
1 TCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT-G-
4515495 TCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCT
64 ---G-----GA-AA-TTGTTTGTTGACAACCAGCGGTCCCT
*
4515536 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
1 TCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
4515600 CTCTGGGTAA
Statistics
Matches: 239, Mismatches: 9, Indels: 49
0.80 0.03 0.16
Matches are distributed among these distances:
93 2 0.01
94 43 0.18
95 5 0.02
96 3 0.01
97 1 0.00
99 4 0.02
100 4 0.02
101 4 0.02
103 1 0.00
104 3 0.01
105 4 0.02
106 163 0.68
107 2 0.01
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (94 bp):
TCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGG
AAATTGTTTGTTGACAACCAGCGGTCCCT
Found at i:4515475 original size:106 final size:106
Alignment explanation
Indices: 4515285--4515604 Score: 534
Period size: 106 Copynumber: 3.0 Consensus size: 106
4515275 GTTGTGAAGT
* *
4515285 TGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGT
1 TGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* * *
4515350 -TTGGAGTCCAATATTCTTCGCTGTGAAGTTGAAATTGACTC
66 CTT-GAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTC
*
4515391 TGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
4515456 CTTGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTC
66 CTTGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTC
* *
4515497 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
4515562 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTTGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTC
4515603 TG
1 TG
4515605 GGTAAAACCT
Statistics
Matches: 202, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
106 200 0.99
107 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (106 bp):
TGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTTGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTC
Found at i:4515828 original size:1 final size:1
Alignment explanation
Indices: 4515822--4515847 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
4515812 CCATTCTGGG
4515822 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
4515848 GGAGATGCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4525914 original size:20 final size:20
Alignment explanation
Indices: 4525876--4525919 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
4525866 ACGGTTAGTA
*
4525876 AAATAAAAATAAATGGAAAT
1 AAATAAAAATAAATAGAAAT
4525896 AAATAAAAATAACA-AGAAAT
1 AAATAAAAATAA-ATAGAAAT
4525916 AAAT
1 AAAT
4525920 GGTAATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (20 bp):
AAATAAAAATAAATAGAAAT
Found at i:4527307 original size:39 final size:40
Alignment explanation
Indices: 4527248--4527344 Score: 101
Period size: 40 Copynumber: 2.4 Consensus size: 40
4527238 TTATGTGTAT
* *
4527248 ATATATATGTATAATAAAATAAAATAAAAAAT-ATACAT-AAA
1 ATATATATATAT-AT-AAATAAAAGAAAAAATAATA-ATGAAA
* *
4527289 ATATATATATATATAAATAAAGGAAAATATAATAATGAAA
1 ATATATATATATATAAATAAAAGAAAAAATAATAATGAAA
4527329 ATATAGTATATA-ATAA
1 ATATA-TATATATATAA
4527345 TAGTAGGACT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
39 15 0.31
40 17 0.35
41 17 0.35
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (40 bp):
ATATATATATATATAAATAAAAGAAAAAATAATAATGAAA
Found at i:4530857 original size:19 final size:20
Alignment explanation
Indices: 4530833--4530871 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
4530823 TAAAATTTTA
4530833 AATTTTAATA-TATAAATTT
1 AATTTTAATATTATAAATTT
*
4530852 AATTTTTATATTATAAATTT
1 AATTTTAATATTATAAATTT
4530872 GTGTAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AATTTTAATATTATAAATTT
Found at i:4530858 original size:20 final size:20
Alignment explanation
Indices: 4530829--4530871 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
4530819 GTGTTAAAAT
4530829 TTTAAATTTTA-ATATATAAA
1 TTTAAATTTTATAT-TATAAA
*
4530849 TTTAATTTTTATATTATAAA
1 TTTAAATTTTATATTATAAA
4530869 TTT
1 TTT
4530872 GTGTAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTAAATTTTATATTATAAA
Found at i:4533729 original size:29 final size:30
Alignment explanation
Indices: 4533661--4533719 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
4533651 AATTTAAGGC
4533661 AAAATGTTTTTGGACTTGAATTGAATTTAT
1 AAAATGTTTTTGGACTTGAATTGAATTTAT
*
4533691 AAAATATTTTTGGACTT-AATTGAATTTAT
1 AAAATGTTTTTGGACTTGAATTGAATTTAT
4533720 TCAAAGTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 12 0.43
30 16 0.57
ACGTcount: A:0.36, C:0.03, G:0.14, T:0.47
Consensus pattern (30 bp):
AAAATGTTTTTGGACTTGAATTGAATTTAT
Found at i:4533936 original size:32 final size:32
Alignment explanation
Indices: 4533897--4533957 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
4533887 ATGCACTTAG
4533897 TGCATCGATGCATCCTGCCATGCATCCATACA
1 TGCATCGATGCATCCTGCCATGCATCCATACA
*
4533929 TGCATCGATGCATCCTGCCATGGATCCAT
1 TGCATCGATGCATCCTGCCATGCATCCAT
4533958 GCATCAAGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (32 bp):
TGCATCGATGCATCCTGCCATGCATCCATACA
Found at i:4535269 original size:19 final size:20
Alignment explanation
Indices: 4535245--4535292 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
4535235 AACGATTTTC
*
4535245 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
4535264 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
4535284 TTTTGAAAA
1 TTTTGAAAA
4535293 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:4536637 original size:29 final size:30
Alignment explanation
Indices: 4536569--4536626 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
4536559 AATTTAAGGT
4536569 AAAATGTTTTTGGACTTGAATTGAATTTAC
1 AAAATGTTTTTGGACTTGAATTGAATTTAC
*
4536599 AAAATATTTTTGGACTT-AATTGAATTTA
1 AAAATGTTTTTGGACTTGAATTGAATTTA
4536627 TTCAAAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (30 bp):
AAAATGTTTTTGGACTTGAATTGAATTTAC
Found at i:4536732 original size:21 final size:21
Alignment explanation
Indices: 4536706--4536761 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
4536696 AGGGTGTCAA
*
4536706 AGTGCATCCATGCATC-CATGC
1 AGTGCATCCATGCATCAC-TAC
*
4536727 AGTGCATCCAAGCATCACTAC
1 AGTGCATCCATGCATCACTAC
*
4536748 AATGCATCCATGCA
1 AGTGCATCCATGCA
4536762 CCTGCACTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.21
Consensus pattern (21 bp):
AGTGCATCCATGCATCACTAC
Found at i:4536989 original size:21 final size:21
Alignment explanation
Indices: 4536960--4536999 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
4536950 TTTTAGTAGA
4536960 AAAATCATCCTCAAACGGCTCC
1 AAAATCATCC-CAAACGGCTCC
*
4536982 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCAAACGGCT
4537000 ATATACAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 5 0.29
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCAAACGGCTCC
Found at i:4540176 original size:25 final size:25
Alignment explanation
Indices: 4540148--4540207 Score: 120
Period size: 25 Copynumber: 2.4 Consensus size: 25
4540138 TACACTACCT
4540148 AACAACTCCTTAAACATTGTTGTTA
1 AACAACTCCTTAAACATTGTTGTTA
4540173 AACAACTCCTTAAACATTGTTGTTA
1 AACAACTCCTTAAACATTGTTGTTA
4540198 AACAACTCCT
1 AACAACTCCT
4540208 CACAGTCTCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (25 bp):
AACAACTCCTTAAACATTGTTGTTA
Found at i:4540275 original size:3 final size:3
Alignment explanation
Indices: 4540269--4540304 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
4540259 TCCTCCTCCT
* *
4540269 CCA CCA CCA CGA CCT CCA CCA CCA CCA CCA CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
4540305 TTAAATCCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.64, G:0.03, T:0.03
Consensus pattern (3 bp):
CCA
Found at i:4540284 original size:15 final size:15
Alignment explanation
Indices: 4540266--4540304 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
4540256 TCCTCCTCCT
*
4540266 CCTCCACCACCACGA
1 CCTCCACCACCACCA
4540281 CCTCCACCACCACCA
1 CCTCCACCACCACCA
*
4540296 CCACCACCA
1 CCTCCACCA
4540305 TTAAATCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.28, C:0.64, G:0.03, T:0.05
Consensus pattern (15 bp):
CCTCCACCACCACCA
Found at i:4540293 original size:21 final size:21
Alignment explanation
Indices: 4540260--4540299 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4540250 TTCTCCTCCT
* *
4540260 CCTCCTCCTCCACCACCACGA
1 CCTCCACCACCACCACCACGA
4540281 CCTCCACCACCACCACCAC
1 CCTCCACCACCACCACCAC
4540300 CACCATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.65, G:0.03, T:0.10
Consensus pattern (21 bp):
CCTCCACCACCACCACCACGA
Found at i:4551917 original size:105 final size:105
Alignment explanation
Indices: 4551735--4551939 Score: 401
Period size: 105 Copynumber: 2.0 Consensus size: 105
4551725 TCCATAGCAG
4551735 GGGATATTGTACCCAAATCGACTACATTCTGGTTCGAAATCGGGATCGATGGTCTTGCATTGACT
1 GGGATATTGTACCCAAATCGACTACATTCTGGTTCGAAATCGGGATCGATGGTCTTGCATTGACT
4551800 GTAAGGTGTTCCCTGAAGAGGCATGTACATCACAACACAT
66 GTAAGGTGTTCCCTGAAGAGGCATGTACATCACAACACAT
4551840 GGGATATTGTACCCAAATCGACTACATTCTGGTTCGAAATCGGGATCGATGGTCTTGCATTGACT
1 GGGATATTGTACCCAAATCGACTACATTCTGGTTCGAAATCGGGATCGATGGTCTTGCATTGACT
*
4551905 GTAAGGTGTTCCCTGAAGAGGCATGTGCATCACAA
66 GTAAGGTGTTCCCTGAAGAGGCATGTACATCACAA
4551940 TACAGATTGT
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 99 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (105 bp):
GGGATATTGTACCCAAATCGACTACATTCTGGTTCGAAATCGGGATCGATGGTCTTGCATTGACT
GTAAGGTGTTCCCTGAAGAGGCATGTACATCACAACACAT
Found at i:4558211 original size:16 final size:16
Alignment explanation
Indices: 4558190--4558220 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4558180 ATAAATAAAT
4558190 GAACATAAACGAACAC
1 GAACATAAACGAACAC
4558206 GAACATAAACGAACA
1 GAACATAAACGAACA
4558221 AAATATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.23, G:0.13, T:0.06
Consensus pattern (16 bp):
GAACATAAACGAACAC
Found at i:4558301 original size:10 final size:10
Alignment explanation
Indices: 4558286--4558360 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
4558276 TATTTAATAA
4558286 ATAAACGAAC
1 ATAAACGAAC
4558296 ATAAACGAAC
1 ATAAACGAAC
4558306 ----ACGAAC
1 ATAAACGAAC
*
4558312 ATAAACAAAC
1 ATAAACGAAC
** *
4558322 ACGAAC-ATAA
1 ATAAACGA-AC
4558332 ATGAACACGAAC
1 AT-AA-ACGAAC
4558344 ATAAACGAAC
1 ATAAACGAAC
4558354 ATAAACG
1 ATAAACG
4558361 TTGGAGACCC
Statistics
Matches: 50, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 34 0.68
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.59, C:0.21, G:0.11, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:4558311 original size:16 final size:16
Alignment explanation
Indices: 4558290--4558354 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
4558280 TAATAAATAA
4558290 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
4558306 ACGAACATAAACAAAC
1 ACGAACATAAACGAAC
*
4558322 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
4558338 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
4558354 A
1 A
4558355 TAAACGTTGG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.58, C:0.23, G:0.11, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:4558577 original size:12 final size:11
Alignment explanation
Indices: 4558554--4558601 Score: 60
Period size: 12 Copynumber: 4.2 Consensus size: 11
4558544 TTAAGATCTT
*
4558554 GATTCAAGCTC
1 GATTCGAGCTC
4558565 GATTCTGAGCTC
1 GATTC-GAGCTC
*
4558577 GATTCAAGCTC
1 GATTCGAGCTC
4558588 GATTCCGAGCTC
1 GATT-CGAGCTC
4558600 GA
1 GA
4558602 CATTGCCTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
11 14 0.44
12 18 0.56
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (11 bp):
GATTCGAGCTC
Found at i:4558580 original size:23 final size:23
Alignment explanation
Indices: 4558554--4558601 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
4558544 TTAAGATCTT
*
4558554 GATTCAAGCTCGATTCTGAGCTC
1 GATTCAAGCTCGATTCCGAGCTC
4558577 GATTCAAGCTCGATTCCGAGCTC
1 GATTCAAGCTCGATTCCGAGCTC
4558600 GA
1 GA
4558602 CATTGCCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (23 bp):
GATTCAAGCTCGATTCCGAGCTC
Found at i:4558586 original size:11 final size:11
Alignment explanation
Indices: 4558554--4558592 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
4558544 TTAAGATCTT
4558554 GATTCAAGCTC
1 GATTCAAGCTC
*
4558565 GATTCTGAGCTC
1 GATTC-AAGCTC
4558577 GATTCAAGCTC
1 GATTCAAGCTC
4558588 GATTC
1 GATTC
4558593 CGAGCTCGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.31
Consensus pattern (11 bp):
GATTCAAGCTC
Found at i:4559491 original size:14 final size:14
Alignment explanation
Indices: 4559474--4559526 Score: 78
Period size: 14 Copynumber: 4.1 Consensus size: 14
4559464 GAACATAAAT
4559474 GAACATAACCGAAC
1 GAACATAACCGAAC
4559488 GAACAT-A---AAC
1 GAACATAACCGAAC
4559498 GAACATAACCGAAC
1 GAACATAACCGAAC
4559512 GAACATAACCGAAC
1 GAACATAACCGAAC
4559526 G
1 G
4559527 TTCACGAACG
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 9 0.26
11 1 0.03
13 1 0.03
14 24 0.69
ACGTcount: A:0.51, C:0.26, G:0.15, T:0.08
Consensus pattern (14 bp):
GAACATAACCGAAC
Found at i:4559536 original size:24 final size:24
Alignment explanation
Indices: 4559464--4559525 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
4559454 ATAAATGAAT
*
4559464 GAACATAAATGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
4559488 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
*
4559512 GAACATAACCGAAC
1 GAACATAAACGAAC
4559526 GTTCACGAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.53, C:0.24, G:0.13, T:0.10
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:4573032 original size:21 final size:20
Alignment explanation
Indices: 4572983--4573033 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
4572973 ATATAATTGA
4572983 TAATTTTTTAATTAAAATAT
1 TAATTTTTTAATTAAAATAT
*
4573003 T-ATTATTTTTATCTAAAATAT
1 TAATT-TTTTAAT-TAAAATAT
4573024 TAATGTTTTT
1 TAAT-TTTTT
4573034 TAATATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 3 0.12
20 7 0.27
21 9 0.35
22 6 0.23
23 1 0.04
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
TAATTTTTTAATTAAAATAT
Found at i:4573648 original size:25 final size:24
Alignment explanation
Indices: 4573620--4573667 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4573610 GAACTCAAAA
* *
4573620 AAAATTAGAAGTTCGATTGAAGCTT
1 AAAATTAG-AGCTCAATTGAAGCTT
*
4573645 AAAATTTGAGCTCAATTGAAGCT
1 AAAATTAGAGCTCAATTGAAGCT
4573668 AAAGAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (24 bp):
AAAATTAGAGCTCAATTGAAGCTT
Found at i:4577167 original size:27 final size:23
Alignment explanation
Indices: 4577105--4577159 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
4577095 CTGGGTTTCA
4577105 TTGGTTGCTGTGCATAGTGATTG
1 TTGGTTGCTGTGCATAGTGATTG
4577128 TTGGTTGCTGTGCATAGTGATTG
1 TTGGTTGCTGTGCATAGTGATTG
*
4577151 TTTGTTGCT
1 TTGGTTGCT
4577160 CTCGGTGCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.11, C:0.09, G:0.33, T:0.47
Consensus pattern (23 bp):
TTGGTTGCTGTGCATAGTGATTG
Found at i:4578400 original size:28 final size:28
Alignment explanation
Indices: 4578368--4578423 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
4578358 GAGAAAGACA
4578368 CCCTGTTTTAATAAGTGCCACATGCGAT
1 CCCTGTTTTAATAAGTGCCACATGCGAT
4578396 CCCTGTTTTAATAAGTGCCACATGCGAT
1 CCCTGTTTTAATAAGTGCCACATGCGAT
4578424 GATTCTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (28 bp):
CCCTGTTTTAATAAGTGCCACATGCGAT
Found at i:4586480 original size:12 final size:13
Alignment explanation
Indices: 4586454--4586480 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4586444 ACTGAATCAA
4586454 TTAAAAAATGTTT
1 TTAAAAAATGTTT
4586467 TTAAAAAATGTTT
1 TTAAAAAATGTTT
4586480 T
1 T
4586481 CATTTATTTA
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:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
TTAAAAAATGTTT
Found at i:4593289 original size:20 final size:20
Alignment explanation
Indices: 4593195--4593563 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
4593185 GATTTTCCAT
* ** *
4593195 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
4593215 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
4593235 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4593255 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
4593275 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
4593295 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4593315 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
4593335 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
4593355 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
4593375 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4593395 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
4593415 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4593435 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
4593455 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4593475 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
4593495 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
4593515 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
4593535 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
4593555 AATCACAAC
1 AATCGCAAC
4593564 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:4594285 original size:24 final size:24
Alignment explanation
Indices: 4594246--4594292 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4594236 AAATTTGGTC
4594246 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
4594270 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
4594293 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:4594484 original size:12 final size:12
Alignment explanation
Indices: 4594467--4594491 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4594457 ATATAATCCT
4594467 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4594479 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4594491 G
1 G
4594492 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:4596797 original size:19 final size:19
Alignment explanation
Indices: 4596775--4597100 Score: 414
Period size: 19 Copynumber: 18.4 Consensus size: 19
4596765 CGGAAAATAC
*
4596775 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4596794 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
4596808 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
4596828 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
4596842 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4596861 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4596880 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
4596894 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4596913 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4596932 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
4596946 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
4596965 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4596984 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4597003 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4597022 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4597041 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
4597055 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4597074 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4597093 AATCGCAA
1 AATCGCAA
4597101 CGAGATAATC
Statistics
Matches: 271, Mismatches: 10, Indels: 52
0.81 0.03 0.16
Matches are distributed among these distances:
14 48 0.18
15 2 0.01
16 16 0.06
17 14 0.05
18 3 0.01
19 175 0.65
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:4596862 original size:33 final size:34
Alignment explanation
Indices: 4596775--4597100 Score: 321
Period size: 33 Copynumber: 9.2 Consensus size: 34
4596765 CGGAAAATAC
* *
4596775 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
4596808 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
4596842 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
4596880 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
* *
4596913 AATCGCAATGCGAAATGAAAATCGCAACGA-CAG
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
4596946 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
4596984 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
4597022 AATCGCAATGCGAAATGAAAATCGCAACGA--AA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
4597054 GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
4597093 AATCGCAA
1 AATCGCAA
4597101 CGAGATAATC
Statistics
Matches: 257, Mismatches: 12, Indels: 43
0.82 0.04 0.14
Matches are distributed among these distances:
32 2 0.01
33 109 0.42
34 32 0.12
35 9 0.04
36 6 0.02
37 4 0.02
38 93 0.36
39 2 0.01
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:4597036 original size:161 final size:156
Alignment explanation
Indices: 4596806--4597138 Score: 551
Period size: 161 Copynumber: 2.1 Consensus size: 156
4596796 TCCCAACATG
*
4596806 AAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATG
1 AAAATCGCAATGC-GAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAATG
*
4596871 CGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATC
65 CGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATC
4596936 GCAACGACAGAATCGCAATGCGAAATT
130 GCAACGACAGAATCGCAATGCGAAATT
4596963 AAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGC
1 AAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAAAATCGC
4597028 AATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
61 AATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
4597093 AATCGCAACGAGATAATCGCAATGCGAAATT
126 AATCGCAACGACAGAATCGCAATGCGAAATT
*
4597124 ATAAA-CGCATTGCGA
1 A-AAATCGCAATGCGA
4597139 TTTTCATTTC
Statistics
Matches: 165, Mismatches: 5, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
156 16 0.10
157 13 0.08
158 2 0.01
160 1 0.01
161 130 0.79
162 3 0.02
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.15
Consensus pattern (156 bp):
AAAATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAATGC
GAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCG
CAACGACAGAATCGCAATGCGAAATT
Found at i:4597138 original size:52 final size:52
Alignment explanation
Indices: 4596803--4597122 Score: 541
Period size: 52 Copynumber: 6.0 Consensus size: 52
4596793 AAATCCCAAC
4596803 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
4596856 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
4596908 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
4596960 ATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
*
4597017 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
4597069 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
4597121 AT
1 AT
4597123 TATAAACGCA
Statistics
Matches: 253, Mismatches: 9, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
52 185 0.73
53 17 0.07
54 2 0.01
55 2 0.01
56 1 0.00
57 46 0.18
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:4597238 original size:19 final size:19
Alignment explanation
Indices: 4597129--4597230 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
4597119 AAATTATAAA
4597129 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
4597148 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
4597168 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
4597184 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
4597201 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
4597220 CGCATTGCGAT
1 CGCATTGCGAT
4597231 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:4597356 original size:14 final size:14
Alignment explanation
Indices: 4597337--4597373 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4597327 CATCAATTAC
4597337 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
4597351 ACAAATCATCTTTT
1 ACAAATCAACTTTT
4597365 ACAAATCAA
1 ACAAATCAA
4597374 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:4599352 original size:14 final size:14
Alignment explanation
Indices: 4599333--4599389 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
4599323 GCGAAATGAA
*
4599333 AATCGCAACGACAG
1 AATCGCAACGAAAG
4599347 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
4599364 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
4599380 AATCGCAACG
1 AATCGCAACG
4599390 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:4599360 original size:33 final size:33
Alignment explanation
Indices: 4599314--4599406 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
4599304 GCGAAACCAA
*
4599314 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
4599347 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
4599380 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
4599407 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:4599371 original size:19 final size:19
Alignment explanation
Indices: 4599277--4599411 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
4599267 TAGTTTACTT
* *
4599277 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
4599297 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
4599316 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4599335 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
4599349 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
4599368 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
4599382 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4599401 TCGCAATGCGA
1 TCGCAACGCGA
4599412 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:4599429 original size:19 final size:19
Alignment explanation
Indices: 4599407--4599535 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
4599397 AAAATCGCAA
4599407 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
4599426 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
4599440 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
4599459 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
4599473 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
4599492 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
4599511 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
4599531 TGCGA
1 TGCGA
4599536 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:4599449 original size:33 final size:33
Alignment explanation
Indices: 4599407--4599498 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
4599397 AAAATCGCAA
4599407 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
4599440 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
4599473 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
4599499 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:4599738 original size:93 final size:93
Alignment explanation
Indices: 4599579--4600236 Score: 1284
Period size: 93 Copynumber: 7.1 Consensus size: 93
4599569 TTGAATGGAT
4599579 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4599644 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4599672 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4599737 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4599765 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4599829 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
4599857 AAATTTACTTTCAACCAAAAGACAAAACGAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4599922 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4599950 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4600015 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4600043 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4600107 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4600135 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
4600200 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4600228 AAATTTACT
1 AAATTTACT
4600237 AAGCAATCTA
Statistics
Matches: 560, Mismatches: 3, Indels: 4
0.99 0.01 0.01
Matches are distributed among these distances:
92 183 0.33
93 377 0.67
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:4599892 original size:185 final size:186
Alignment explanation
Indices: 4599579--4600236 Score: 1284
Period size: 185 Copynumber: 3.5 Consensus size: 186
4599569 TTGAATGGAT
4599579 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4599644 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
4599709 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
4599765 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
4599829 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACGAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
4599894 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
4599950 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4600015 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
4600080 TA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
4600135 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
4600200 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
4600237 AAGCAATCTA
Statistics
Matches: 468, Mismatches: 3, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
185 338 0.72
186 130 0.28
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:4600076 original size:278 final size:278
Alignment explanation
Indices: 4599579--4600236 Score: 1298
Period size: 278 Copynumber: 2.4 Consensus size: 278
4599569 TTGAATGGAT
4599579 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4599644 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
4599709 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
4599774 TTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAG
196 TTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAG
4599839 AATTGGCAGCAACCGAAC
261 AATTGGCAGCAACCGAAC
*
4599857 AAATTTACTTTCAACCAAAAGACAAAACGAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4599922 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
4599987 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
4600052 TTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAG
196 TTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAG
4600117 AATTGGCAGCAACCGAAC
261 AATTGGCAGCAACCGAAC
4600135 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
4600200 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
4600237 AAGCAATCTA
Statistics
Matches: 377, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
278 377 1.00
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (278 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
TTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACAGTTTAGCAG
AATTGGCAGCAACCGAAC
Found at i:4601960 original size:14 final size:14
Alignment explanation
Indices: 4601941--4602030 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
4601931 TTGAAATGAA
4601941 AATCGCAACGAGAG
1 AATCGCAACGAGAG
4601955 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
4601972 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
4601988 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
4602007 AATCGCAACGAGAG
1 AATCGCAACGAGAG
4602021 AATCGCAACG
1 AATCGCAACG
4602031 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:4601978 original size:33 final size:33
Alignment explanation
Indices: 4601933--4602047 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
4601923 TCTTTTGGTT
4601933 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
4601966 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
4601999 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
4602032 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
4602048 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:4601979 original size:19 final size:18
Alignment explanation
Indices: 4601940--4602052 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
4601930 GTTGAAATGA
4601940 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
4601955 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
4601972 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
4601988 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
4602005 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
4602021 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
4602038 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
4602053 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:4602083 original size:14 final size:14
Alignment explanation
Indices: 4602064--4602118 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
4602054 TTTGGTTTCG
4602064 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
4602078 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
4602097 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
4602111 CGTTGCGA
1 CGTTGCGA
4602119 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:4602096 original size:33 final size:33
Alignment explanation
Indices: 4602048--4602118 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
4602038 AAAATCGCAA
**
4602048 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
4602081 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
4602114 TGCGA
1 TGCGA
4602119 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:4602126 original size:33 final size:33
Alignment explanation
Indices: 4602059--4602140 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
4602049 GCGATTTTGG
***
4602059 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
4602092 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
4602125 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
4602141 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:4602145 original size:20 final size:20
Alignment explanation
Indices: 4602071--4602159 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
4602061 TCGCGTTGCG
4602071 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
4602091 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
4602104 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
4602124 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
4602144 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
4602160 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:4602281 original size:33 final size:33
Alignment explanation
Indices: 4602239--4602309 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
4602229 AATACTAACT
*
4602239 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
4602272 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
4602305 TGAAA
1 TGAAA
4602310 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:4602543 original size:22 final size:22
Alignment explanation
Indices: 4602491--4602545 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
4602481 TGGTTGTGAG
**
4602491 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
4602513 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
4602535 GGATTTCTTCG
1 GGATTTCTTCG
4602546 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:4602716 original size:20 final size:20
Alignment explanation
Indices: 4602691--4602883 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
4602681 CTTTAAATAT
4602691 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
4602711 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
4602733 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
4602752 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
4602772 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
4602792 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
4602812 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
4602832 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
4602852 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
4602872 CGCGTTGCGATT
1 CGCGTTGCGATT
4602884 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:4602878 original size:60 final size:60
Alignment explanation
Indices: 4602691--4602883 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
4602681 CTTTAAATAT
**
4602691 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
4602752 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
4602812 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
4602872 CGCGTTGCGATT
1 CGCGTTGCGATT
4602884 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:4602964 original size:20 final size:20
Alignment explanation
Indices: 4602939--4602990 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
4602929 AAGAATCGCG
*
4602939 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
4602959 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
4602979 TTGCGATTCTGG
1 TTGCGATTCTGG
4602991 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:4612261 original size:20 final size:20
Alignment explanation
Indices: 4612122--4612261 Score: 97
Period size: 20 Copynumber: 7.0 Consensus size: 20
4612112 AAATGACCAA
*
4612122 CAAATTCGCAACGCGAATTC
1 CAAATTCGCAACGCGAATTT
* * *
4612142 CAATTTTGCAATGCGAATATGT
1 CAAATTCGCAACGCGAAT-T-T
** *
4612164 -AAA-TCGCATTGCGATTTT
1 CAAATTCGCAACGCGAATTT
* **
4612182 CCAAATTCGCAAAGCGAAAGT
1 -CAAATTCGCAACGCGAATTT
* **
4612203 CAAATTCGCAACGCAAAAGT
1 CAAATTCGCAACGCGAATTT
* *
4612223 CAAATTCGTAAC-TGAATTT
1 CAAATTCGCAACGCGAATTT
4612242 CAAATTCGCAACGCGAATTT
1 CAAATTCGCAACGCGAATTT
4612262 AATTTCACAA
Statistics
Matches: 92, Mismatches: 22, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
18 1 0.01
19 15 0.16
20 63 0.68
21 13 0.14
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.26
Consensus pattern (20 bp):
CAAATTCGCAACGCGAATTT
Found at i:4615507 original size:18 final size:18
Alignment explanation
Indices: 4615484--4615519 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4615474 AAGCAAAAGG
4615484 AAATCAAAATCGCAATCA
1 AAATCAAAATCGCAATCA
*
4615502 AAATCAAAATCTCAATCA
1 AAATCAAAATCGCAATCA
4615520 CAAGCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCGCAATCA
Found at i:4615875 original size:20 final size:20
Alignment explanation
Indices: 4615850--4615887 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
4615840 GTTGCATAGT
4615850 CAAATTCGCAACGCGAAAGA
1 CAAATTCGCAACGCGAAAGA
4615870 CAAATTCGCAACGCGAAA
1 CAAATTCGCAACGCGAAA
4615888 TCGCAAACCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.26, G:0.18, T:0.11
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGA
Found at i:4615919 original size:20 final size:20
Alignment explanation
Indices: 4615896--4615942 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
4615886 AATCGCAAAC
*
4615896 CGAATTTGACTTTCGCATTG
1 CGAATTTGACTTTCGCATTA
*
4615916 CGAATTTGACTTTCGCGTTA
1 CGAATTTGACTTTCGCATTA
4615936 CGAATTT
1 CGAATTT
4615943 ACCTTCAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (20 bp):
CGAATTTGACTTTCGCATTA
Found at i:4616046 original size:25 final size:25
Alignment explanation
Indices: 4616008--4616057 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
4615998 AAATCAATTA
*
4616008 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
4616033 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
4616058 GAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:4616466 original size:18 final size:18
Alignment explanation
Indices: 4616445--4616481 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4616435 GTAATTGGAG
4616445 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
4616463 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
4616481 T
1 T
4616482 AGAAATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:4616488 original size:24 final size:24
Alignment explanation
Indices: 4616437--4616489 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
4616427 TTTCATATGT
* ***
4616437 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATAGA
*
4616461 AATTTGAGTTTGAATTTCAATAGA
1 AATTTGAGTTTGAATTTAAATAGA
4616485 AATTT
1 AATTT
4616490 TGGTTCCACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATAGA
Found at i:4616837 original size:39 final size:39
Alignment explanation
Indices: 4616794--4616880 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
4616784 TCTGATGCTC
*
4616794 ATCAAAATCCAAAGCTCATATGGTGCCAGGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
*
4616833 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
4616872 ATCAAAATC
1 ATCAAAATC
4616881 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.46, C:0.21, G:0.16, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
Found at i:4617138 original size:20 final size:20
Alignment explanation
Indices: 4617099--4617139 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
4617089 GCGTTGAGAT
*
4617099 AGTCAAATTCGCAACGCGAA
1 AGTCAAATTCGCAAAGCGAA
*
4617119 AGTCAAATTCGCAAATCGAA
1 AGTCAAATTCGCAAAGCGAA
4617139 A
1 A
4617140 ATCGCGTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.17
Consensus pattern (20 bp):
AGTCAAATTCGCAAAGCGAA
Found at i:4618717 original size:21 final size:21
Alignment explanation
Indices: 4618693--4618744 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
4618683 ATGCATCGGG
*
4618693 CTCTTGAACGGAGGGCGGGAC
1 CTCTTGAACGGAGGACGGGAC
* *
4618714 CTCTTGAAC-GATGACGGGGC
1 CTCTTGAACGGAGGACGGGAC
4618734 CTCTTGAACGG
1 CTCTTGAACGG
4618745 TGGGAGGGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.19, C:0.25, G:0.37, T:0.19
Consensus pattern (21 bp):
CTCTTGAACGGAGGACGGGAC
Found at i:4618759 original size:21 final size:21
Alignment explanation
Indices: 4618693--4618759 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
4618683 ATGCATCGGG
* * *
4618693 CTCTTGAACGGAGGGCGGGAC
1 CTCTTGAACGGTGGGAGGGGC
*
4618714 CTCTTGAACGAT--GACGGGGC
1 CTCTTGAACGGTGGGA-GGGGC
4618734 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGGTGGGAGGGGC
*
4618755 TTCTT
1 CTCTT
4618760 CGATGATGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 1 0.03
20 15 0.41
21 19 0.51
22 2 0.05
ACGTcount: A:0.16, C:0.22, G:0.39, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGC
Found at i:4618786 original size:21 final size:21
Alignment explanation
Indices: 4618713--4618810 Score: 69
Period size: 21 Copynumber: 4.7 Consensus size: 21
4618703 GAGGGCGGGA
*
4618713 CCTCTTGAACGATGACG-G-GG
1 CCTCTTGAATGATGA-GAGAGG
* * * *
4618733 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAATGATGAGAGAGG
*
4618754 CTTCTTCG-ATGATGAGAGAGG
1 CCTCTT-GAATGATGAGAGAGG
*
4618775 CCTCTTGAATGAT-AGAAGACG
1 CCTCTTGAATGATGAG-AGAGG
*
4618796 CCTATTGAATGATGA
1 CCTCTTGAATGATGA
4618811 TAGGTGTATC
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
19 1 0.02
20 17 0.27
21 42 0.68
22 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.24
Consensus pattern (21 bp):
CCTCTTGAATGATGAGAGAGG
Found at i:4621262 original size:22 final size:22
Alignment explanation
Indices: 4621234--4621281 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
4621224 GGAGATAGAT
4621234 GGATTTCGTCGGAAATGGGGAC
1 GGATTTCGTCGGAAATGGGGAC
*
4621256 GGATTTCGTCGGAGATGGGGAC
1 GGATTTCGTCGGAAATGGGGAC
4621278 GGAT
1 GGAT
4621282 GTCGCCGTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.21, C:0.12, G:0.44, T:0.23
Consensus pattern (22 bp):
GGATTTCGTCGGAAATGGGGAC
Found at i:4621434 original size:20 final size:20
Alignment explanation
Indices: 4621418--4621513 Score: 99
Period size: 20 Copynumber: 4.8 Consensus size: 20
4621408 TATTTGATTT
4621418 TCGCGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTA
4621438 TCGCGTTGCGAATTTGACTTA
1 TCGCGTTGCGAATTTGAC-TA
** * *
4621459 T-TAGTTGTG-ATTT-ACAAA
1 TCGCGTTGCGAATTTGAC-TA
4621477 TTCGCGTTGCGAATTTGACTA
1 -TCGCGTTGCGAATTTGACTA
*
4621498 TCGCGTTGTGAATTTG
1 TCGCGTTGCGAATTTG
4621514 GAAAATCGCA
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
18 3 0.05
19 5 0.08
20 43 0.70
21 8 0.13
22 2 0.03
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGAATTTGACTA
Found at i:4627120 original size:20 final size:20
Alignment explanation
Indices: 4627097--4627141 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
4627087 TTAGAATTAA
4627097 TAGGAGAAGAGGAAGAGGGG
1 TAGGAGAAGAGGAAGAGGGG
4627117 TAGGAGAAGAGGAAGAGGGG
1 TAGGAGAAGAGGAAGAGGGG
*
4627137 GAGGA
1 TAGGA
4627142 AGGTCGGCGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.56, T:0.04
Consensus pattern (20 bp):
TAGGAGAAGAGGAAGAGGGG
Found at i:4628102 original size:2 final size:2
Alignment explanation
Indices: 4628095--4628122 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4628085 CATTTATCCA
4628095 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
4628123 CAAATTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4631624 original size:24 final size:24
Alignment explanation
Indices: 4631592--4631640 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
4631582 ATCACGTCAC
4631592 CCTTAAGTACGGAGGTGACGCACT
1 CCTTAAGTACGGAGGTGACGCACT
* *
4631616 CCTTAAGTAGGGATGTGACGCACT
1 CCTTAAGTACGGAGGTGACGCACT
4631640 C
1 C
4631641 TAAGTTACCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.22
Consensus pattern (24 bp):
CCTTAAGTACGGAGGTGACGCACT
Found at i:4633067 original size:20 final size:20
Alignment explanation
Indices: 4633039--4633109 Score: 133
Period size: 20 Copynumber: 3.5 Consensus size: 20
4633029 CCAAAACAAA
*
4633039 CTGAAAGTATCAATTTTTAC
1 CTGAGAGTATCAATTTTTAC
4633059 CTGAGAGTATCAATTTTTAC
1 CTGAGAGTATCAATTTTTAC
4633079 CTGAGAGTATCAATTTTTAC
1 CTGAGAGTATCAATTTTTAC
4633099 CTGAGAGTATC
1 CTGAGAGTATC
4633110 GATATTCCTG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (20 bp):
CTGAGAGTATCAATTTTTAC
Found at i:4634356 original size:2 final size:2
Alignment explanation
Indices: 4634345--4634376 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
4634335 TGTCTCCCTC
4634345 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4634377 TAAAACCTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4639488 original size:408 final size:410
Alignment explanation
Indices: 4638811--4639618 Score: 1512
Period size: 408 Copynumber: 2.0 Consensus size: 410
4638801 TGTGCTATGC
*
4638811 AGAATCAAGTGACCTGCCAAGGCTAGTAACTCCTTGAACTATTTTTTCAGTAACAACTGTTGGGG
1 AGAATCAAGTGACATGCCAAGGCTAGTAACTCCTTGAACTATTTTTTCAGTAACAACTGTT-GGG
*
4638876 GTAAGGTCCTGTAACTCTGGGTCAAGTGTTACTCATTGGTATTAATCTAACATGGGTTTTCAATA
65 G--AGGTCCTGTAACTCTGGGTCAAGTGCTACTCATTGGTATTAATCTAACATGGGTTTTCAATA
*
4638941 TTTTCGAAGTTTCTACATATATTTCATTTAAGAGATCACTTAGGTGCTTTAGGTAAATGAAGAGT
128 TTTTCGAAGTTTCTACATATATTTAATTTAAGAGATCACTTAGGTGCTTTAGGTAAATGAAGAGT
*
4639006 CCAGGTAACACAGATAGGATGTGAGGATTTTTTTGCAGTTCTAATGGTCAGTTGAAAGTTTCAGT
193 CCAGGTAACACAGATAGGATATGAGGATTTTTTTGCAGTTCTAATGGTCAGTTGAAAGTTTCAGT
*
4639071 CTGGCATCTTTATGGAAGGCTAAATCATGAAAAGTTACGTTATAAGATTGCATTTTATCCGTAAA
258 CTAGCATCTTTATGGAAGGCTAAATCATGAAAAGTTACGTTATAAGATTGCATTTTATCCGTAAA
4639136 CATATTTTGTAAGACATTCAATTTCTCCCTGATTTCGTCTTAAGAATAGTCATTAAAATATTCAC
323 CATATTTTGTAAGACATTCAATTTCTCCCTGATTTCGTCTTAAGAATAGTCATTAAAATATTCAC
4639201 ATTTCAATAGGTTGTAGATGAAA
388 ATTTCAATAGGTTGTAGATGAAA
*
4639224 AGAATCAAGTGACATGCCAAGGCTAGTAACTCCTTGAACTATTTTTTCAGTAACGACTGTT-GGG
1 AGAATCAAGTGACATGCCAAGGCTAGTAACTCCTTGAACTATTTTTTCAGTAACAACTGTTGGGG
4639288 -GGTCCTGTAACTCTGGGTCAAGTGCTACTCATTGGTATTAATCTAACATGGGTTTTCAATATTT
66 AGGTCCTGTAACTCTGGGTCAAGTGCTACTCATTGGTATTAATCTAACATGGGTTTTCAATATTT
4639352 TCGAAGTTTCTACATATATTTAATTTAAGAGATCACTTAGGTGCTTTAGGTAAATGAAGAGTCCA
131 TCGAAGTTTCTACATATATTTAATTTAAGAGATCACTTAGGTGCTTTAGGTAAATGAAGAGTCCA
4639417 GGTAACACAGATAGGATATGAGGATTTTTTTGCAGTTCTAATGGTCAGTTGAAAGTTTCAGTCTA
196 GGTAACACAGATAGGATATGAGGATTTTTTTGCAGTTCTAATGGTCAGTTGAAAGTTTCAGTCTA
4639482 GCATCTTTATGGAAGGCTAAATCATGAAAAGTTACGTTATAAGATTGCATTTTATCCGTAAACAT
261 GCATCTTTATGGAAGGCTAAATCATGAAAAGTTACGTTATAAGATTGCATTTTATCCGTAAACAT
*
4639547 ATTTTGTAAGACATTCAATTTCTCCCTGATTTCGTCTTAAGAATAGTCATTAAAATATTCACGTT
326 ATTTTGTAAGACATTCAATTTCTCCCTGATTTCGTCTTAAGAATAGTCATTAAAATATTCACATT
4639612 TCAATAG
391 TCAATAG
4639619 TCATTTTATC
Statistics
Matches: 388, Mismatches: 7, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
408 326 0.84
411 3 0.01
413 59 0.15
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.36
Consensus pattern (410 bp):
AGAATCAAGTGACATGCCAAGGCTAGTAACTCCTTGAACTATTTTTTCAGTAACAACTGTTGGGG
AGGTCCTGTAACTCTGGGTCAAGTGCTACTCATTGGTATTAATCTAACATGGGTTTTCAATATTT
TCGAAGTTTCTACATATATTTAATTTAAGAGATCACTTAGGTGCTTTAGGTAAATGAAGAGTCCA
GGTAACACAGATAGGATATGAGGATTTTTTTGCAGTTCTAATGGTCAGTTGAAAGTTTCAGTCTA
GCATCTTTATGGAAGGCTAAATCATGAAAAGTTACGTTATAAGATTGCATTTTATCCGTAAACAT
ATTTTGTAAGACATTCAATTTCTCCCTGATTTCGTCTTAAGAATAGTCATTAAAATATTCACATT
TCAATAGGTTGTAGATGAAA
Found at i:4639645 original size:20 final size:20
Alignment explanation
Indices: 4639609--4639666 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
4639599 AAATATTCAC
4639609 GTTTCAATAGTCA-TTTTATCT
1 GTTT-AATA-TCATTTTTATCT
*
4639630 GTTTAATATCATTTTTATTGT
1 GTTTAATATCATTTTTA-TCT
4639651 GTTTAAT-T-ATTTTTAT
1 GTTTAATATCATTTTTAT
4639667 TGTGATGACA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
18 1 0.03
19 10 0.29
20 10 0.29
21 13 0.38
ACGTcount: A:0.24, C:0.07, G:0.09, T:0.60
Consensus pattern (20 bp):
GTTTAATATCATTTTTATCT
Found at i:4639662 original size:19 final size:21
Alignment explanation
Indices: 4639629--4639670 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 21
4639619 TCATTTTATC
4639629 TGTTTAATATCATTTTTATTG
1 TGTTTAATATCATTTTTATTG
4639650 TGTTTAAT-T-ATTTTTATTG
1 TGTTTAATATCATTTTTATTG
4639669 TG
1 TG
4639671 ATGACAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 1 0.05
21 8 0.38
ACGTcount: A:0.21, C:0.02, G:0.12, T:0.64
Consensus pattern (21 bp):
TGTTTAATATCATTTTTATTG
Found at i:4640868 original size:408 final size:410
Alignment explanation
Indices: 4640191--4640998 Score: 1512
Period size: 408 Copynumber: 2.0 Consensus size: 410
4640181 TGTGCTATGC
*
4640191 AGAATCAAGTGACCTGCCAAGGCTAGTAACTCCTTGAACTATTTTTTCAGTAACAACTGTTGGGG
1 AGAATCAAGTGACATGCCAAGGCTAGTAACTCCTTGAACTATTTTTTCAGTAACAACTGTT-GGG
*
4640256 GTAAGGTCCTGTAACTCTGGGTCAAGTGTTACTCATTGGTATTAATCTAACATGGGTTTTCAATA
65 G--AGGTCCTGTAACTCTGGGTCAAGTGCTACTCATTGGTATTAATCTAACATGGGTTTTCAATA
*
4640321 TTTTCGAAGTTTCTACATATATTTCATTTAAGAGATCACTTAGGTGCTTTAGGTAAATGAAGAGT
128 TTTTCGAAGTTTCTACATATATTTAATTTAAGAGATCACTTAGGTGCTTTAGGTAAATGAAGAGT
*
4640386 CCAGGTAACACAGATAGGATGTGAGGATTTTTTTGCAGTTCTAATGGTCAGTTGAAAGTTTCAGT
193 CCAGGTAACACAGATAGGATATGAGGATTTTTTTGCAGTTCTAATGGTCAGTTGAAAGTTTCAGT
*
4640451 CTGGCATCTTTATGGAAGGCTAAATCATGAAAAGTTACGTTATAAGATTGCATTTTATCCGTAAA
258 CTAGCATCTTTATGGAAGGCTAAATCATGAAAAGTTACGTTATAAGATTGCATTTTATCCGTAAA
4640516 CATATTTTGTAAGACATTCAATTTCTCCCTGATTTCGTCTTAAGAATAGTCATTAAAATATTCAC
323 CATATTTTGTAAGACATTCAATTTCTCCCTGATTTCGTCTTAAGAATAGTCATTAAAATATTCAC
4640581 ATTTCAATAGGTTGTAGATGAAA
388 ATTTCAATAGGTTGTAGATGAAA
*
4640604 AGAATCAAGTGACATGCCAAGGCTAGTAACTCCTTGAACTATTTTTTCAGTAACGACTGTT-GGG
1 AGAATCAAGTGACATGCCAAGGCTAGTAACTCCTTGAACTATTTTTTCAGTAACAACTGTTGGGG
4640668 -GGTCCTGTAACTCTGGGTCAAGTGCTACTCATTGGTATTAATCTAACATGGGTTTTCAATATTT
66 AGGTCCTGTAACTCTGGGTCAAGTGCTACTCATTGGTATTAATCTAACATGGGTTTTCAATATTT
4640732 TCGAAGTTTCTACATATATTTAATTTAAGAGATCACTTAGGTGCTTTAGGTAAATGAAGAGTCCA
131 TCGAAGTTTCTACATATATTTAATTTAAGAGATCACTTAGGTGCTTTAGGTAAATGAAGAGTCCA
4640797 GGTAACACAGATAGGATATGAGGATTTTTTTGCAGTTCTAATGGTCAGTTGAAAGTTTCAGTCTA
196 GGTAACACAGATAGGATATGAGGATTTTTTTGCAGTTCTAATGGTCAGTTGAAAGTTTCAGTCTA
4640862 GCATCTTTATGGAAGGCTAAATCATGAAAAGTTACGTTATAAGATTGCATTTTATCCGTAAACAT
261 GCATCTTTATGGAAGGCTAAATCATGAAAAGTTACGTTATAAGATTGCATTTTATCCGTAAACAT
*
4640927 ATTTTGTAAGACATTCAATTTCTCCCTGATTTCGTCTTAAGAATAGTCATTAAAATATTCACGTT
326 ATTTTGTAAGACATTCAATTTCTCCCTGATTTCGTCTTAAGAATAGTCATTAAAATATTCACATT
4640992 TCAATAG
391 TCAATAG
4640999 TCATTTTATC
Statistics
Matches: 388, Mismatches: 7, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
408 326 0.84
411 3 0.01
413 59 0.15
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.36
Consensus pattern (410 bp):
AGAATCAAGTGACATGCCAAGGCTAGTAACTCCTTGAACTATTTTTTCAGTAACAACTGTTGGGG
AGGTCCTGTAACTCTGGGTCAAGTGCTACTCATTGGTATTAATCTAACATGGGTTTTCAATATTT
TCGAAGTTTCTACATATATTTAATTTAAGAGATCACTTAGGTGCTTTAGGTAAATGAAGAGTCCA
GGTAACACAGATAGGATATGAGGATTTTTTTGCAGTTCTAATGGTCAGTTGAAAGTTTCAGTCTA
GCATCTTTATGGAAGGCTAAATCATGAAAAGTTACGTTATAAGATTGCATTTTATCCGTAAACAT
ATTTTGTAAGACATTCAATTTCTCCCTGATTTCGTCTTAAGAATAGTCATTAAAATATTCACATT
TCAATAGGTTGTAGATGAAA
Found at i:4641025 original size:20 final size:20
Alignment explanation
Indices: 4640989--4641046 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
4640979 AAATATTCAC
4640989 GTTTCAATAGTCA-TTTTATCT
1 GTTT-AATA-TCATTTTTATCT
*
4641010 GTTTAATATCATTTTTATTGT
1 GTTTAATATCATTTTTA-TCT
4641031 GTTTAAT-T-ATTTTTAT
1 GTTTAATATCATTTTTAT
4641047 TGTGATGACA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
18 1 0.03
19 10 0.29
20 10 0.29
21 13 0.38
ACGTcount: A:0.24, C:0.07, G:0.09, T:0.60
Consensus pattern (20 bp):
GTTTAATATCATTTTTATCT
Found at i:4641042 original size:19 final size:21
Alignment explanation
Indices: 4641009--4641050 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 21
4640999 TCATTTTATC
4641009 TGTTTAATATCATTTTTATTG
1 TGTTTAATATCATTTTTATTG
4641030 TGTTTAAT-T-ATTTTTATTG
1 TGTTTAATATCATTTTTATTG
4641049 TG
1 TG
4641051 ATGACAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 1 0.05
21 8 0.38
ACGTcount: A:0.21, C:0.02, G:0.12, T:0.64
Consensus pattern (21 bp):
TGTTTAATATCATTTTTATTG
Found at i:4641999 original size:2 final size:2
Alignment explanation
Indices: 4641992--4642024 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4641982 TAGGTCATTA
4641992 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4642025 AGAATGTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4645999 original size:15 final size:15
Alignment explanation
Indices: 4645979--4646009 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4645969 CAACAAATAA
4645979 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
4645994 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
4646009 A
1 A
4646010 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:4649115 original size:19 final size:20
Alignment explanation
Indices: 4649076--4649124 Score: 84
Period size: 19 Copynumber: 2.5 Consensus size: 20
4649066 TTTATATATT
4649076 TTAAT-TTAAATTCACATTA
1 TTAATATTAAATTCACATTA
4649095 TTAATATTAAATTCACA-TA
1 TTAATATTAAATTCACATTA
4649114 TTAATATTAAA
1 TTAATATTAAA
4649125 AAAATATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAATATTAAATTCACATTA
Found at i:4649159 original size:28 final size:28
Alignment explanation
Indices: 4649120--4649184 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
4649110 CATATTAATA
4649120 TTAAAAAAATATTTT-T-TTATTTTTTAAC
1 TTAAAAAAATATTTTATCTTA-TTTTT-AC
*
4649148 TTAAAAATATATTTTAATCTTATTTTTAC
1 TTAAAAAAATATTTT-ATCTTATTTTTAC
4649177 TTAAAAAA
1 TTAAAAAA
4649185 TTTATTCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 14 0.44
29 9 0.28
30 6 0.19
31 3 0.09
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (28 bp):
TTAAAAAAATATTTTATCTTATTTTTAC
Found at i:4649184 original size:30 final size:30
Alignment explanation
Indices: 4649120--4649200 Score: 82
Period size: 30 Copynumber: 2.8 Consensus size: 30
4649110 CATATTAATA
4649120 TTAAAAAA-ATATTTT-T-TTATTTTTTAAC
1 TTAAAAAATATATTTTATCTTA-TTTTTAAC
4649148 TT-AAAAATATATTTTAATCTTATTTTT-AC
1 TTAAAAAATATATTTT-ATCTTATTTTTAAC
* *
4649177 TTAAAAAATTTATTCTATTCTTAT
1 TTAAAAAATATATTTTA-TCTTAT
4649201 CTTATTTTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
27 5 0.11
28 9 0.20
29 5 0.11
30 23 0.51
31 3 0.07
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (30 bp):
TTAAAAAATATATTTTATCTTATTTTTAAC
Found at i:4649849 original size:17 final size:17
Alignment explanation
Indices: 4649818--4649851 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4649808 TGATTTGATA
*
4649818 TAATTATATAAAAAAAT
1 TAATTATACAAAAAAAT
4649835 TAATTATACATAAAAAA
1 TAATTATACA-AAAAAA
4649852 GAAAATAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
TAATTATACAAAAAAAT
Found at i:4652731 original size:18 final size:18
Alignment explanation
Indices: 4652708--4652754 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
4652698 AATTCCTGAC
*
4652708 AGATTCCAATTATTTCAT
1 AGATTCTAATTATTTCAT
* *
4652726 AGATTCTAATTCTTTTAT
1 AGATTCTAATTATTTCAT
4652744 AGATTCTAATT
1 AGATTCTAATT
4652755 TCCTCGTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.49
Consensus pattern (18 bp):
AGATTCTAATTATTTCAT
Found at i:4667840 original size:51 final size:52
Alignment explanation
Indices: 4667780--4667885 Score: 205
Period size: 51 Copynumber: 2.1 Consensus size: 52
4667770 AGTCTAGTCC
4667780 CGGACTTGGTTCTTCCCCCGAAATTTAAGT-CCCGGAGTTCGAGAAGTTTGA
1 CGGACTTGGTTCTTCCCCCGAAATTTAAGTCCCCGGAGTTCGAGAAGTTTGA
4667831 CGGACTTGGTTCTTCCCCCGAAATTTAAGTCCCCGGAGTTCGAGAAGTTTGA
1 CGGACTTGGTTCTTCCCCCGAAATTTAAGTCCCCGGAGTTCGAGAAGTTTGA
4667883 CGG
1 CGG
4667886 GAACAGTGCC
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 30 0.56
52 24 0.44
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (52 bp):
CGGACTTGGTTCTTCCCCCGAAATTTAAGTCCCCGGAGTTCGAGAAGTTTGA
Found at i:4670772 original size:84 final size:83
Alignment explanation
Indices: 4670612--4671359 Score: 737
Period size: 84 Copynumber: 9.0 Consensus size: 83
4670602 TAAACAAACT
* * * ** *
4670612 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAAGACCCCCGAGTTTGATTACAC
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGATTACAC
4670674 TCAGCTTCGAGGGCACATC
66 TCAGCTT-GAGGGCACATC
* * * *
4670693 ATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGATTACAC
*
4670758 TCAGCTCTGAGGGCACATT
66 TCAGCT-TGAGGGCACATC
* ** * *
4670777 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACA
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTG-TGACCAAAGACCTTCGAGTTCGATTACA
** * *
4670842 CTCAGCTCCAAGGCATATC
65 CTCAGCTTGAGGGCACATC
* * ** * * *
4670861 ATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTG-TGACCAAAGACCTTCGAGTTCGATTACA
** *
4670926 CTCAGCTCCAAGGCACATC
65 CTCAGCTTGAGGGCACATC
* * * **
4670945 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAAGACCCCCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGATTACAC
4671007 TCAGCTTCGAGGGCACATC
66 TCAGCTT-GAGGGCACATC
* * * * * *
4671026 ATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTGACC-AAAGACCTTCGAGTTCGATTACA
* *
4671091 CTCAGCTTAAAGGCACATC
65 CTCAGCTTGAGGGCACATC
* * *
4671110 ATTTGCAGCATAGCTTAAGTATAGAAGGGCTATC--TG-CCAAAGACCTTCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGATTACAC
*
4671172 TCAGCTTCGAGGGCATATC
66 TCAGCTT-GAGGGCACATC
* * ** * * *
4671191 ATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTG-TGACCAAAGACCTTCGAGTTCGATTACA
** * *
4671256 CTCAGCTCCAAGGCGCATC
65 CTCAGCTTGAGGGCACATC
* * * **
4671275 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAAGACCCCCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGATTACAC
* * *
4671337 TCAACTTCGAGGTCATATC
66 TCAGCTT-GAGGGCACATC
4671356 ATTT
1 ATTT
4671360 ACAACATAGC
Statistics
Matches: 547, Mismatches: 104, Indels: 32
0.80 0.15 0.05
Matches are distributed among these distances:
80 82 0.15
81 112 0.20
82 2 0.00
83 4 0.01
84 259 0.47
85 88 0.16
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (83 bp):
ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGATTACAC
TCAGCTTGAGGGCACATC
Found at i:4671092 original size:165 final size:164
Alignment explanation
Indices: 4670612--4671384 Score: 1062
Period size: 165 Copynumber: 4.7 Consensus size: 164
4670602 TAAACAAACT
*
4670612 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTTGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * *
4670677 GCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAGACCT
66 GCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCGACCAAAGACCT
* * * * *
4670742 TCGAGTTCGATTACACTCAGCTCTGAGGGCACATT
131 TCGAGTTCGACTACGCTCAGCTC-CAAGGCACATC
* * ** *
4670777 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCCCGAGTTCGATTACA
* * * * * * * * *
4670842 CTCAGC-TCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAA
62 CTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-CGACCAAA
4670906 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
126 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
4670945 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * *
4671010 GCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
66 GCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCGACC-AAAGACC
**
4671075 TTCGAGTTCGACTACGCTCAGCTTAAAGGCACATC
130 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
** **
4671110 ATTTGCAGCATAGCTTAAGTATAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * * * *
4671175 GCTTCGAGGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACCAAAGACC
66 GCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-CGACCAAAGACC
* *
4671240 TTTGAGTTCGACTACGCTCAGCTCCAAGGCGCATC
130 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
4671275 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * * *
4671340 ACTTCGAGGTCATATCATTTACAACATAGCTCAAGGCAAGAAGGG
66 GCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGG
4671385 CTATTTGTCA
Statistics
Matches: 528, Mismatches: 72, Indels: 16
0.86 0.12 0.03
Matches are distributed among these distances:
164 28 0.05
165 356 0.67
166 4 0.01
167 1 0.00
168 83 0.16
169 56 0.11
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (164 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
GCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCGACCAAAGACCT
TCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:4671277 original size:249 final size:246
Alignment explanation
Indices: 4670612--4671314 Score: 879
Period size: 249 Copynumber: 2.8 Consensus size: 246
4670602 TAAACAAACT
* ** *
4670612 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTTGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCTAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCA
* * * *
4670677 GCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAGACCT
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATC--TGACCAAAGACCT
*
4670742 TCGAGTTCGATTACACTCAGCTCTGAGGGCACATTATTTGCAGCATAACTTAAGTCGAGAAGGGT
129 TCGAGTTCGATTACACTCAGCTC-GAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
* *
4670807 TATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCATATC
193 TATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGCACATC
* * * * * *
4670861 ATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCTAGAAGGGCTATCTG-C--C-AAAGACCTTCGAGTTCGATTACA
* * * * *
4670926 CTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGAC
62 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGACCAAAGAC
** * * * * *
4670989 CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAGAAGG
127 CTTCGAGTTCGATTACACTCAGC-TCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGG
** * * *
4671054 GTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTTAAAGGCACATC
191 GTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGCACATC
*
4671110 ATTTGCAGCATAGCTTAAGTATAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCTAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCA
* * *
4671175 GCTTCGAGGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTG---ACCAAAGACC
* * * * * * * *
4671240 TTTGAGTTCGACTACGCTCAGCTCCAAGGCGCATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
128 TTCGAGTTCGATTACACTCAGCTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
4671305 TATCTGCCAA
193 TATCTGCCAA
4671315 AGACCCCCGA
Statistics
Matches: 377, Mismatches: 67, Indels: 20
0.81 0.14 0.04
Matches are distributed among these distances:
245 27 0.07
246 42 0.11
248 1 0.00
249 213 0.56
250 31 0.08
252 39 0.10
253 24 0.06
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (246 bp):
ATTTGCAGCATAGCTTAAGTCTAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGACCAAAGACCTTC
GAGTTCGATTACACTCAGCTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTAT
CTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGCACATC
Found at i:4671330 original size:330 final size:332
Alignment explanation
Indices: 4670612--4671384 Score: 1284
Period size: 330 Copynumber: 2.3 Consensus size: 332
4670602 TAAACAAACT
*
4670612 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTTGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
4670677 GCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAGACCT
66 GCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAGACCT
* * * * * *
4670742 TCGAGTTCGATTACACTCAGCTCTGAGGGCACATTATTTGCAGCATAACTTAAGTCGAGAAGGGT
131 TCGAGTTCGACTACACTCAGCTCTAAAGGCACATCATTTGCAGCATAACTTAAGTAGAGAAGGGC
4670807 TATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTGCAGCAC
196 TATCTGCC-ACAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTGCAGCAC
4670872 AACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA
260 AACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA
4670937 GGCACATC
325 GGCACATC
4670945 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
4671010 GCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
66 GCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTGACC-AAAGACC
* * *
4671075 TTCGAGTTCGACTACGCTCAGCT-TAAAGGCACATCATTTGCAGCATAGCTTAAGTATAGAAGGG
130 TTCGAGTTCGACTACACTCAGCTCTAAAGGCACATCATTTGCAGCATAACTTAAGTAGAGAAGGG
* * *
4671139 CTATCTG-C-C-AAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTGCAGCA
195 CTATCTGCCACAAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCATATCATTTGCAGCA
* *
4671201 CAACTTAAGTCTAGAAGGGTTGTCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCA
259 CAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCA
*
4671266 AGGCGCATC
324 AGGCACATC
4671275 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * ** * *
4671340 ACTTCGAGGTCATATCATTTACAACATAGCTCAAGGCAAGAAGGG
66 GCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGG
4671385 CTATTTGTCA
Statistics
Matches: 415, Mismatches: 23, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
329 28 0.07
330 196 0.47
332 1 0.00
333 162 0.39
334 28 0.07
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (332 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAGACCT
TCGAGTTCGACTACACTCAGCTCTAAAGGCACATCATTTGCAGCATAACTTAAGTAGAGAAGGGC
TATCTGCCACAAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTGCAGCACA
ACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAG
GCACATC
Found at i:4678817 original size:19 final size:21
Alignment explanation
Indices: 4678788--4678828 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
4678778 TTAAATTTAA
4678788 AAAATATATTCA-AAATTTTC
1 AAAATATATTCACAAATTTTC
*
4678808 AAAA-ATATTCACTAATTTTC
1 AAAATATATTCACAAATTTTC
4678828 A
1 A
4678829 TAAGGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAATATATTCACAAATTTTC
Found at i:4679027 original size:13 final size:13
Alignment explanation
Indices: 4679008--4679042 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
4678998 TAAATAGTTA
*
4679008 ATCAAATCAATTT
1 ATCAAATCAATTG
*
4679021 CTCAAATCAATTG
1 ATCAAATCAATTG
4679034 ATCAAATCA
1 ATCAAATCA
4679043 GCTTATGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (13 bp):
ATCAAATCAATTG
Found at i:4682033 original size:17 final size:15
Alignment explanation
Indices: 4681994--4682023 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4681984 GCGTCCATTG
4681994 ACAGTTGTAACTCAT
1 ACAGTTGTAACTCAT
4682009 ACAGTTGTAACTCAT
1 ACAGTTGTAACTCAT
4682024 CTAGAGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (15 bp):
ACAGTTGTAACTCAT
Found at i:4686577 original size:17 final size:17
Alignment explanation
Indices: 4686551--4686618 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
4686541 TAGCCCAGAA
*
4686551 TAACTGTACAAACTCTC
1 TAACTATACAAACTCTC
**
4686568 TAACTATACAAACAAAATAAC
1 TAACTATACAAAC----TCTC
4686589 TAACTA-ACAAACTCTC
1 TAACTATACAAACTCTC
*
4686605 TAACTGTACAAACT
1 TAACTATACAAACT
4686619 AACAAAAAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
16 7 0.17
17 19 0.47
20 6 0.15
21 8 0.20
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (17 bp):
TAACTATACAAACTCTC
Found at i:4686641 original size:40 final size:37
Alignment explanation
Indices: 4686558--4686658 Score: 157
Period size: 40 Copynumber: 2.6 Consensus size: 37
4686548 GAATAACTGT
* *
4686558 ACAAACTCTCTAACTATACAAACAAAATAACTAACTA
1 ACAAACTCTCTAACTGTACAAACAAAAAAACTAACTA
4686595 ACAAACTCTCTAACTGTACAAACTAACAAAAAACTAACTA
1 ACAAACTCTCTAACTGTACAAAC--A-AAAAAACTAACTA
4686635 ACAAACTCTCTAACTGTACAAACA
1 ACAAACTCTCTAACTGTACAAACA
4686659 GAATAACTTC
Statistics
Matches: 59, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
37 22 0.37
38 1 0.02
39 1 0.02
40 35 0.59
ACGTcount: A:0.51, C:0.26, G:0.02, T:0.21
Consensus pattern (37 bp):
ACAAACTCTCTAACTGTACAAACAAAAAAACTAACTA
Found at i:4693743 original size:25 final size:25
Alignment explanation
Indices: 4693714--4693775 Score: 124
Period size: 25 Copynumber: 2.5 Consensus size: 25
4693704 TGTCGATATA
4693714 TAAATTTATAAATTTTTAGAAAAAT
1 TAAATTTATAAATTTTTAGAAAAAT
4693739 TAAATTTATAAATTTTTAGAAAAAT
1 TAAATTTATAAATTTTTAGAAAAAT
4693764 TAAATTTATAAA
1 TAAATTTATAAA
4693776 ATCTTAAGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (25 bp):
TAAATTTATAAATTTTTAGAAAAAT
Found at i:4694772 original size:2 final size:2
Alignment explanation
Indices: 4694765--4694797 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4694755 CATCGTTACG
4694765 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4694798 GTGTTGCTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4698179 original size:31 final size:29
Alignment explanation
Indices: 4698131--4698189 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
4698121 ATTTCAAAAT
4698131 TATAATTATGAAAAAAATATATTAATTTATA
1 TATAATTATGAAAAAAATAT-TT-ATTTATA
*
4698162 TATATTTAT-AAATAAAATATTTATTTAT
1 TATAATTATGAAA-AAAATATTTATTTAT
4698190 TTAGAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 6 0.23
30 5 0.19
31 15 0.58
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
TATAATTATGAAAAAAATATTTATTTATA
Done.