Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 182 of 284
Found at i:61559203 original size:36 final size:36
Alignment explanation
Indices: 61559120--61559257 Score: 172
Period size: 36 Copynumber: 3.9 Consensus size: 36
61559110 ATATTTAGTT
*
61559120 ATTCTAATTCGCATGTTAAGCATGGT-ATTA-TTCTA
1 ATTCTAATTCACATGTTAAGCAT-GTCATTATTTCTA
* * * *
61559155 TTTTTAACTCACATGTTCAGCATGTCATTATTTCTA
1 ATTCTAATTCACATGTTAAGCATGTCATTATTTCTA
* * *
61559191 ATTCTGATTCACATGTTAAGCATGCCATTATTTCTG
1 ATTCTAATTCACATGTTAAGCATGTCATTATTTCTA
*
61559227 ATTCTAATTCACATGTTAAGCATGACATTAT
1 ATTCTAATTCACATGTTAAGCATGTCATTAT
61559258 GTTAAACCAT
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
34 2 0.02
35 22 0.25
36 63 0.72
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (36 bp):
ATTCTAATTCACATGTTAAGCATGTCATTATTTCTA
Found at i:61560642 original size:29 final size:29
Alignment explanation
Indices: 61560609--61560671 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
61560599 ATTGTAGATT
61560609 ACTATACTACGAAACTATAAATTCTAAAA
1 ACTATACTACGAAACTATAAATTCTAAAA
* ** * * *
61560638 ACTATATTTTGAAACTTTAGATTCTGAAA
1 ACTATACTACGAAACTATAAATTCTAAAA
61560667 ACTAT
1 ACTAT
61560672 TGATACTGAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.35
Consensus pattern (29 bp):
ACTATACTACGAAACTATAAATTCTAAAA
Found at i:61563265 original size:48 final size:48
Alignment explanation
Indices: 61563210--61563326 Score: 153
Period size: 48 Copynumber: 2.4 Consensus size: 48
61563200 TATCGGCAAT
* * *
61563210 TATGTGGTTGTTTATCCACGATGTGCTATGTGACCGTTCATTGGTATC
1 TATGTGGTGGTTTATCCACAATGTGCTATGTGACCATTCATTGGTATC
** *
61563258 TATGTGGTGGTTTATCCACAATGTGCTATGTGATTATTCATTGGTATT
1 TATGTGGTGGTTTATCCACAATGTGCTATGTGACCATTCATTGGTATC
* * *
61563306 TATGTAGTGGATTAACCACAA
1 TATGTGGTGGTTTATCCACAA
61563327 AATGGTGTGT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 60 1.00
ACGTcount: A:0.22, C:0.14, G:0.23, T:0.41
Consensus pattern (48 bp):
TATGTGGTGGTTTATCCACAATGTGCTATGTGACCATTCATTGGTATC
Found at i:61565761 original size:34 final size:34
Alignment explanation
Indices: 61565718--61565786 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
61565708 CAAATAGAGG
61565718 AAAGAGTTTGTGATGTGACAGTACTTAGTCTCTT
1 AAAGAGTTTGTGATGTGACAGTACTTAGTCTCTT
61565752 AAAGAGTTTGTGATGTGACAGTACTTAGTCTCTT
1 AAAGAGTTTGTGATGTGACAGTACTTAGTCTCTT
61565786 A
1 A
61565787 GGGCAATTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.38
Consensus pattern (34 bp):
AAAGAGTTTGTGATGTGACAGTACTTAGTCTCTT
Found at i:61568954 original size:20 final size:20
Alignment explanation
Indices: 61568924--61568974 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
61568914 TTTATTTAAA
* *
61568924 AACATTAAAAATTATTCAAATT
1 AACA-TAAAAA-TATTAAAAAT
61568946 AACATAAAAATATTAAAAAT
1 AACATAAAAATATTAAAAAT
*
61568966 AACCTAAAA
1 AACATAAAA
61568975 CTCATATCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 16 0.62
21 6 0.23
22 4 0.15
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (20 bp):
AACATAAAAATATTAAAAAT
Found at i:61569652 original size:16 final size:16
Alignment explanation
Indices: 61569631--61569663 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
61569621 TTATATTTAA
61569631 TAATATAATTAATTAT
1 TAATATAATTAATTAT
61569647 TAATATAATTAATTAT
1 TAATATAATTAATTAT
61569663 T
1 T
61569664 TTAATAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATATAATTAATTAT
Found at i:61569668 original size:13 final size:14
Alignment explanation
Indices: 61569615--61569678 Score: 62
Period size: 13 Copynumber: 4.6 Consensus size: 14
61569605 ATACGTATTC
*
61569615 AATTATTTATATTT
1 AATTATTTATAATT
*
61569629 AA-TA-ATATAATT
1 AATTATTTATAATT
61569641 AATTATTAATATAATT
1 AATTATT--TATAATT
*
61569657 AATTATTT-TAATA
1 AATTATTTATAATT
61569670 AATTATTTA
1 AATTATTTA
61569679 ATATTATAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
12 8 0.20
13 16 0.39
14 3 0.07
16 14 0.34
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
AATTATTTATAATT
Found at i:61569670 original size:16 final size:16
Alignment explanation
Indices: 61569615--61569707 Score: 57
Period size: 17 Copynumber: 5.5 Consensus size: 16
61569605 ATACGTATTC
*
61569615 AATTATTTATATTTAAT
1 AATTAATTAT-TTTAAT
61569632 AATATAATTAATTATTAATAT
1 AAT-TAATT-ATT-TT-A-AT
61569653 AATTAATTATTTTAAT
1 AATTAATTATTTTAAT
* *
61569669 AAATTATTTAATATT-AT
1 -AATTAATT-ATTTTAAT
61569686 AATT--TTATTTTAAT
1 AATTAATTATTTTAAT
*
61569700 AATAAATT
1 AATTAATT
61569708 TTAAAAATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 21
0.70 0.06 0.24
Matches are distributed among these distances:
13 4 0.07
14 7 0.11
16 8 0.13
17 13 0.21
18 11 0.18
19 7 0.11
20 6 0.10
21 5 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
AATTAATTATTTTAAT
Found at i:61569695 original size:18 final size:18
Alignment explanation
Indices: 61569675--61569710 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
61569665 TAATAAATTA
*
61569675 TTTAATATTATAATTTTAT
1 TTTAATAATA-AATTTTAT
61569694 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
61569711 AAAATAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:61569930 original size:13 final size:14
Alignment explanation
Indices: 61569899--61569934 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
61569889 AATTTGTATA
61569899 GAAAAAATAACTTT
1 GAAAAAATAACTTT
*
61569913 GAAAAAATAATTTT
1 GAAAAAATAACTTT
*
61569927 AAAAAAAT
1 GAAAAAAT
61569935 TGTCAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.28
Consensus pattern (14 bp):
GAAAAAATAACTTT
Found at i:61571194 original size:20 final size:21
Alignment explanation
Indices: 61571169--61571208 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61571159 CCTTAAAAAC
61571169 AGGGT-ACACGACCGTGTGGA
1 AGGGTAACACGACCGTGTGGA
*
61571189 AGGGTAACACGCCCGTGTGG
1 AGGGTAACACGACCGTGTGG
61571209 TCTTTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.23, G:0.40, T:0.15
Consensus pattern (21 bp):
AGGGTAACACGACCGTGTGGA
Found at i:61572554 original size:46 final size:48
Alignment explanation
Indices: 61572371--61572640 Score: 240
Period size: 46 Copynumber: 5.8 Consensus size: 48
61572361 AGGGTATAAC
* * * **
61572371 GCCGATGCCATGTCCTAGA-ATGGTCTTACACTGGCTTATC-TAT-AAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC-TCTCATATCGTA
**
61572417 GTTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--CATAT-CGTA
* * * *
61572467 GCCGATGCCATGTTCCAGACATGGTCTTACACT-G-ACACATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGTA
* * *
61572513 GCCGATG-TATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGTA
* * *
61572558 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATCGTA
*
61572607 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
61572641 ACACAATTAA
Statistics
Matches: 183, Mismatches: 27, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
44 10 0.05
45 17 0.09
46 54 0.30
47 41 0.22
48 26 0.14
49 5 0.03
50 30 0.16
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGTA
Found at i:61572579 original size:92 final size:94
Alignment explanation
Indices: 61572420--61572640 Score: 277
Period size: 94 Copynumber: 2.3 Consensus size: 94
61572410 CTATAAAGTT
** *
61572420 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCGATGCCATGTTCCAG
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-ACATATCAATGCCGATGCCATGTCCCAG
61572485 ACATGGTCTTACACTGACACATC-T-CGTAGCC
63 ACATGGTCTTACACTGACAC-TCATACGTAGCC
* * *
61572516 GATGTATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCAATGTCGATGCCATGTCCCAGACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTACATATCAATGCCGATGCCATGTCCCAGACA
* * * *
61572580 TGGTCTTACACTGGCTCTCATAATGTGGCC
66 TGGTCTTACACTGACACTCAT-ACGTAGCC
*
61572610 GATGCATGTCCCAAACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
61572641 ACACAATTAA
Statistics
Matches: 110, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
91 2 0.02
92 41 0.37
94 50 0.45
95 13 0.12
96 4 0.04
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (94 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTACATATCAATGCCGATGCCATGTCCCAGACA
TGGTCTTACACTGACACTCATACGTAGCC
Found at i:61579716 original size:15 final size:16
Alignment explanation
Indices: 61579698--61579727 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61579688 AATTATTTTA
61579698 TTACA-AATTTCACTC
1 TTACATAATTTCACTC
61579713 TTACATAATTTCACT
1 TTACATAATTTCACT
61579728 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (16 bp):
TTACATAATTTCACTC
Found at i:61583375 original size:49 final size:50
Alignment explanation
Indices: 61583304--61583436 Score: 148
Period size: 49 Copynumber: 2.7 Consensus size: 50
61583294 TCTATCAAGT
* * *
61583304 CGATGCCACGTCCCAAACATGGTCTTACACTGACTATCGA-A-A-TCGCGAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATC-ACATATTCGCG-C
* * * *
61583353 TGATGCCATGTCCCAGATATGGTCTTACACT-AGCTCTCACATATTCGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTATCACATATTCGCGC
61583403 CGATGCCATGTCCCAGACATGGTCTTACACTGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC
61583437 ACATCTCGTA
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
48 2 0.03
49 32 0.46
50 31 0.44
51 5 0.07
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCACATATTCGCGC
Found at i:61592405 original size:42 final size:43
Alignment explanation
Indices: 61592305--61592475 Score: 177
Period size: 43 Copynumber: 4.0 Consensus size: 43
61592295 CTCGTACAAA
* * *
61592305 GCCAATGTCCCAGACGTGGTCTTACATGTAATCGTATATCGAT
1 GCCAATGTCCCAGACGTGGTCTTACACGAAATCATATATCGAT
61592348 GCCAATGTCCCAGACAG-GGTCTTACACGAAATCATATA-CGAT
1 GCCAATGTCCCAGAC-GTGGTCTTACACGAAATCATATATCGAT
* * * * * *
61592390 GCCGATGTCCTAGACATGGTCTTACATGTAAATC-TCAAATTGAT
1 GCCAATGTCCCAGACGTGGTCTTACACG-AAATCAT-ATATCGAT
* * * *
61592434 GCCAACGTCCTAGACGTGGTCTTACACTAAATCACATATCGA
1 GCCAATGTCCCAGACGTGGTCTTACACGAAATCATATATCGA
61592476 AATCCTATGT
Statistics
Matches: 105, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
42 28 0.27
43 50 0.48
44 27 0.26
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
GCCAATGTCCCAGACGTGGTCTTACACGAAATCATATATCGAT
Found at i:61592458 original size:86 final size:85
Alignment explanation
Indices: 61592309--61592467 Score: 214
Period size: 86 Copynumber: 1.9 Consensus size: 85
61592299 TACAAAGCCA
* * *
61592309 ATGTCCCAGACGTGGTCTTACATGTAATCGTATATCGATGCCAATGTCCCAGACAGGGTCTTACA
1 ATGTCCCAGACATGGTCTTACATGTAATCGTAAATCGATGCCAACGTCCCAGACAGGGTCTTACA
61592374 CGAAATCATATACGATGCCG
66 CGAAATCATATACGATGCCG
* * *
61592394 ATGTCCTAGACATGGTCTTACATGTAAATC-TCAAATTGATGCCAACGTCCTAGAC-GTGGTCTT
1 ATGTCCCAGACATGGTCTTACATGT-AATCGT-AAATCGATGCCAACGTCCCAGACAG-GGTCTT
*
61592457 ACACTAAATCA
63 ACACGAAATCA
61592468 CATATCGAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
85 25 0.39
86 39 0.61
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (85 bp):
ATGTCCCAGACATGGTCTTACATGTAATCGTAAATCGATGCCAACGTCCCAGACAGGGTCTTACA
CGAAATCATATACGATGCCG
Found at i:61598949 original size:24 final size:26
Alignment explanation
Indices: 61598922--61598970 Score: 75
Period size: 24 Copynumber: 1.9 Consensus size: 26
61598912 AGTTCATGCA
61598922 ATATTAAAGC-ATTTAA-ATACAATT
1 ATATTAAAGCTATTTAACATACAATT
61598946 ATATTAAAGCTTATTTAACATACAA
1 ATATTAAAGC-TATTTAACATACAA
61598971 ACTTACCTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
26 6 0.27
27 6 0.27
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (26 bp):
ATATTAAAGCTATTTAACATACAATT
Found at i:61599321 original size:17 final size:17
Alignment explanation
Indices: 61599299--61599331 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
61599289 CATTTTACAA
61599299 CCTTTTACAGATAGGTC
1 CCTTTTACAGATAGGTC
61599316 CCTTTTACAGATAGGT
1 CCTTTTACAGATAGGT
61599332 AAATGTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.36
Consensus pattern (17 bp):
CCTTTTACAGATAGGTC
Found at i:61600124 original size:19 final size:19
Alignment explanation
Indices: 61600109--61600146 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
61600099 CATTTCAATA
61600109 TTCATATCCTATTTCATCAT
1 TTCATATCC-ATTTCATCAT
61600129 TTCATATCCATTTC-TCAT
1 TTCATATCCATTTCATCAT
61600147 ACTTATCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 5 0.28
20 9 0.50
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (19 bp):
TTCATATCCATTTCATCAT
Found at i:61604489 original size:39 final size:42
Alignment explanation
Indices: 61604409--61604505 Score: 128
Period size: 39 Copynumber: 2.4 Consensus size: 42
61604399 GTATTATATC
*
61604409 TTAAATTAGATTTTTGGACTTTTAGTTTTTTAGATTTTAAATA
1 TTAAATTAGATTTTAGGAC-TTTAGTTTTTTAGATTTTAAATA
* *
61604452 TTAAATTAAATTTTAGGA-TTTA-TTTTTT-GGTTTTAAATA
1 TTAAATTAGATTTTAGGACTTTAGTTTTTTAGATTTTAAATA
*
61604491 TTTAATTAGATTTTA
1 TTAAATTAGATTTTA
61604506 AGATGTTTAG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 23 0.47
40 6 0.12
41 4 0.08
43 16 0.33
ACGTcount: A:0.32, C:0.01, G:0.10, T:0.57
Consensus pattern (42 bp):
TTAAATTAGATTTTAGGACTTTAGTTTTTTAGATTTTAAATA
Found at i:61604506 original size:19 final size:19
Alignment explanation
Indices: 61604438--61604506 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 19
61604428 TTTTAGTTTT
*
61604438 TTAGATTTTAAATATTAAA
1 TTAGATTTTAAATATTTAA
* *
61604457 TTAAATTTTAGGATTTATTT--
1 TTAGATTTTA--A-ATATTTAA
* *
61604477 TTTGGTTTTAAATATTTAA
1 TTAGATTTTAAATATTTAA
61604496 TTAGATTTTAA
1 TTAGATTTTAA
61604507 GATGTTTAGG
Statistics
Matches: 36, Mismatches: 9, Indels: 10
0.65 0.16 0.18
Matches are distributed among these distances:
17 5 0.14
18 1 0.03
19 18 0.50
20 7 0.19
21 1 0.03
22 4 0.11
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (19 bp):
TTAGATTTTAAATATTTAA
Found at i:61604955 original size:20 final size:20
Alignment explanation
Indices: 61604932--61605002 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
61604922 AAATCGTAAA
61604932 AAATATTATAAAATATATAG
1 AAATATTATAAAATATATAG
* *
61604952 AAATA-TAGAAAAAAATATA-
1 AAATATTA-TAAAATATATAG
* *
61604971 AAATTTTATAAATTCATA-AG
1 AAATATTATAAAAT-ATATAG
61604991 AAA-ATTATAAAA
1 AAATATTATAAAA
61605003 AAATGAAAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
19 17 0.44
20 22 0.56
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (20 bp):
AAATATTATAAAATATATAG
Found at i:61604993 original size:39 final size:39
Alignment explanation
Indices: 61604931--61605006 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 39
61604921 AAAATCGTAA
61604931 AAAATATTATAAAATATATAG-AAATATAGAAAAAAATAT
1 AAAATATTATAAAATATATAGAAAAT-TAGAAAAAAATAT
* * *
61604970 AAAATTTTATAAATTCATA-AGAAAATTATAAAAAAAT
1 AAAATATTATAAAAT-ATATAGAAAATTAGAAAAAAAT
61605007 GAAAAGAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 25 0.78
40 7 0.22
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (39 bp):
AAAATATTATAAAATATATAGAAAATTAGAAAAAAATAT
Found at i:61605057 original size:24 final size:26
Alignment explanation
Indices: 61605029--61605114 Score: 115
Period size: 26 Copynumber: 3.4 Consensus size: 26
61605019 AAAATTTGTA
* *
61605029 AAAAAAAT-ATAAAAATTATCATACT
1 AAAATAATCATAAAAATTATCGTACT
61605054 AAAATAATCATAAAAATTATCGTACT
1 AAAATAATCATAAAAATTATCGTACT
*
61605080 AAAATAATCAT--AAATTATCGTACC
1 AAAATAATCATAAAAATTATCGTACT
*
61605104 AAAAAAATCAT
1 AAAATAATCAT
61605115 TTTATAATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
24 22 0.39
25 7 0.12
26 27 0.48
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (26 bp):
AAAATAATCATAAAAATTATCGTACT
Found at i:61605063 original size:14 final size:14
Alignment explanation
Indices: 61605040--61605091 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
61605030 AAAAAATATA
*
61605040 AAAATTATCATACT
1 AAAATAATCATACT
61605054 AAAATAATCATA--
1 AAAATAATCATACT
* *
61605066 AAAATTATCGTACT
1 AAAATAATCATACT
61605080 AAAATAATCATA
1 AAAATAATCATA
61605092 AATTATCGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 10 0.32
14 21 0.68
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.31
Consensus pattern (14 bp):
AAAATAATCATACT
Found at i:61605328 original size:18 final size:18
Alignment explanation
Indices: 61605280--61605346 Score: 71
Period size: 18 Copynumber: 3.7 Consensus size: 18
61605270 TTTTGATGCA
* *
61605280 TTTTATACTTTTATAATT
1 TTTTATATTTTTACAATT
* *
61605298 TTTATAAAATTTTACAATT
1 TTT-TATATTTTTACAATT
* *
61605317 TTTTATATTTTTACGAGT
1 TTTTATATTTTTACAATT
61605335 TTTTATATTTTT
1 TTTTATATTTTT
61605347 TTTCTAATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
18 26 0.63
19 15 0.37
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTTATATTTTTACAATT
Found at i:61605404 original size:58 final size:58
Alignment explanation
Indices: 61605288--61605404 Score: 139
Period size: 57 Copynumber: 2.0 Consensus size: 58
61605278 CATTTTATAC
* * * ** *
61605288 TTTTATAATTTTTATAAAATTTTACAATTTTTTATATTTTTACGAGTTTTTATATTTT
1 TTTTATAATTTTAATAAAATTTTACAATATTTTATATTTTTACAAAATTTGATATTTT
* *
61605346 TTTTCTAATTTTAATAAAA-TTTA-AATATTTTATATTTTTATTAAAATTTGATATTTT
1 TTTTATAATTTTAATAAAATTTTACAATATTTTATATTTTTA-CAAAATTTGATATTTT
61605403 TT
1 TT
61605405 ATAACTTTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
56 16 0.32
57 17 0.34
58 17 0.34
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (58 bp):
TTTTATAATTTTAATAAAATTTTACAATATTTTATATTTTTACAAAATTTGATATTTT
Found at i:61605406 original size:20 final size:20
Alignment explanation
Indices: 61605366--61605403 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
61605356 TTAATAAAAT
*
61605366 TTAAATATTTTATATTTTTA
1 TTAAATATTTGATATTTTTA
61605386 TTAAA-ATTTGATATTTTT
1 TTAAATATTTGATATTTTT
61605404 TATAACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (20 bp):
TTAAATATTTGATATTTTTA
Found at i:61605423 original size:10 final size:9
Alignment explanation
Indices: 61605288--61605432 Score: 55
Period size: 9 Copynumber: 15.4 Consensus size: 9
61605278 CATTTTATAC
61605288 TTTTATAAT
1 TTTTATAAT
*
61605297 TTTTATAAAA
1 TTTTAT-AAT
*
61605307 TTTTACAAT
1 TTTTATAAT
61605316 TTTT-TATAT
1 TTTTATA-AT
* *
61605325 TTTTACGAGT
1 TTTTA-TAAT
*
61605335 TTTTATATTTT
1 TTTTATA--AT
*
61605346 TTTTCTAAT
1 TTTTATAAT
* *
61605355 TTTAATAAA
1 TTTTATAAT
*
61605364 ATTTA-AAT
1 TTTTATAAT
61605372 ATTTTAT-AT
1 -TTTTATAAT
*
61605381 TTTTATTAAAA
1 TTTTA-T-AAT
* *
61605392 TTTGATATT
1 TTTTATAAT
*
61605401 TTTTATAAC
1 TTTTATAAT
61605410 TTTTATTAAT
1 TTTTA-TAAT
61605420 TTTT-TATAT
1 TTTTATA-AT
61605429 TTTT
1 TTTT
61605433 TTTGCATGTC
Statistics
Matches: 98, Mismatches: 25, Indels: 26
0.66 0.17 0.17
Matches are distributed among these distances:
8 10 0.10
9 54 0.55
10 21 0.21
11 13 0.13
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:61605661 original size:87 final size:87
Alignment explanation
Indices: 61605526--61605689 Score: 222
Period size: 87 Copynumber: 1.9 Consensus size: 87
61605516 TTTTTTTGAA
* * * ** * * *
61605526 AAAGTTTGATGGTCTTTTTTATACATTTAGGCAGTTCAAGTACTCAATTGAGTGCAAAAAAAAGT
1 AAAGTTTGAGGGCCTTTTTTATAAATTTAGAAAGTTCAAGTACCCAATTGAGTGAAAAAAAAAGC
*
61605591 TGGGGCTTAATTGCATTTTTTT
66 AGGGGCTTAATTGCATTTTTTT
*
61605613 AAAGTTTGAGGGCCTTTTTTATAAATTTTA-AAAGTTTAAGTACCCAATTGAGTGAAAAAAAAAG
1 AAAGTTTGAGGGCCTTTTTTATAAA-TTTAGAAAGTTCAAGTACCCAATTGAGTGAAAAAAAAAG
61605677 CAGGGGCTTAATT
65 CAGGGGCTTAATT
61605690 TGTAACACCT
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
87 62 0.94
88 4 0.06
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.37
Consensus pattern (87 bp):
AAAGTTTGAGGGCCTTTTTTATAAATTTAGAAAGTTCAAGTACCCAATTGAGTGAAAAAAAAAGC
AGGGGCTTAATTGCATTTTTTT
Found at i:61612586 original size:55 final size:55
Alignment explanation
Indices: 61612510--61612670 Score: 234
Period size: 55 Copynumber: 2.9 Consensus size: 55
61612500 TGTGCCCTTA
* * * *
61612510 GCCCGTGTGCAACACTGACTTTAAAATACGGCCATGACACACGCCCGTGTGGTCTT
1 GCCCGTGTTCAATACTAACTTTAAAACACGGCCATGACACACGCCCGTGTGGT-TT
* *
61612566 -CCTGTGTTCAATACTAACTTTAAAACATGGCCATGACACACGCCCGTGTGGTTT
1 GCCCGTGTTCAATACTAACTTTAAAACACGGCCATGACACACGCCCGTGTGGTTT
* *
61612620 GCCCGTGTTCAATACTAACTTTAAAACACGGCCATGAAACACGCCTGTGTG
1 GCCCGTGTTCAATACTAACTTTAAAACACGGCCATGACACACGCCCGTGTG
61612671 ACCTACTCGT
Statistics
Matches: 94, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
54 2 0.02
55 92 0.98
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (55 bp):
GCCCGTGTTCAATACTAACTTTAAAACACGGCCATGACACACGCCCGTGTGGTTT
Found at i:61616907 original size:40 final size:40
Alignment explanation
Indices: 61616862--61617053 Score: 226
Period size: 40 Copynumber: 4.8 Consensus size: 40
61616852 ATAACCACAA
* * *
61616862 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
61616902 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
61616942 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * *
61616982 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
61617022 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
61617054 CATTCAAATG
Statistics
Matches: 142, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 137 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:61616946 original size:80 final size:80
Alignment explanation
Indices: 61616833--61617052 Score: 248
Period size: 80 Copynumber: 2.8 Consensus size: 80
61616823 ACCCAAGTTT
* * * * * * * * *
61616833 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
*
61616896 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
* * *
61616912 CTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
* *
61616976 TCACTAGCATAAATGC
65 GCACTAGCACAAATGC
* *
61616992 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
61617053 TCATTCAAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 12 0.10
80 98 0.84
81 7 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
CACTAGCACAAATGC
Found at i:61627171 original size:40 final size:40
Alignment explanation
Indices: 61627127--61627309 Score: 330
Period size: 40 Copynumber: 4.6 Consensus size: 40
61627117 CAACTCGCAC
*
61627127 AAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCAT
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
*
61627167 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGGAT
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
*
61627207 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGGAT
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
*
61627247 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGGAT
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
61627287 AAATGCCTTCGGGACTTAGCCCG
1 AAATGCCTTCGGGACTTAGCCCG
61627310 TATATCATTC
Statistics
Matches: 141, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
Found at i:61627190 original size:80 final size:80
Alignment explanation
Indices: 61627054--61627309 Score: 309
Period size: 80 Copynumber: 3.2 Consensus size: 80
61627044 ACCCAAGTTT
* * * * * * * * * * *
61627054 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAAG
*
61627117 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
* *
61627133 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAAT
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAAG
* *
61627198 CACTAGGATAAATGC
66 CACTAGCACAAATGC
* *
61627213 CTTCGGGACTTAGCCCGGATAAAATCACTAGGATAAATGCCTTCGGGACTTAGCCCGGATAAAAT
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAAG
* *
61627278 CACTAGGATAAATGC
66 CACTAGCACAAATGC
61627293 CTTCGGGACTTAGCCCG
1 CTTCGGGACTTAGCCCG
61627310 TATATCATTC
Statistics
Matches: 157, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
79 10 0.06
80 144 0.92
81 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATAAAAG
CACTAGCACAAATGC
Found at i:61634552 original size:55 final size:55
Alignment explanation
Indices: 61634393--61634531 Score: 224
Period size: 55 Copynumber: 2.5 Consensus size: 55
61634383 CGTGTGCTAG
* *
61634393 ACTGACTTTAAAATAGGGCCATGACACACACCCGTGTAGTCTGCCCGTGTTCAAT
1 ACTGACTTTAAAATACGGCCATGACACACACCCGTGTGGTCTGCCCGTGTTCAAT
* *
61634448 ATTGACTTTAAAATACGGCCATGACGCACACCCGTGTGGTCTGCCCGTGTTCAAT
1 ACTGACTTTAAAATACGGCCATGACACACACCCGTGTGGTCTGCCCGTGTTCAAT
* *
61634503 ACTGATTTTAAAACACGGCCATGACACAC
1 ACTGACTTTAAAATACGGCCATGACACAC
61634532 GCTCGTATGG
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 76 1.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (55 bp):
ACTGACTTTAAAATACGGCCATGACACACACCCGTGTGGTCTGCCCGTGTTCAAT
Found at i:61634562 original size:55 final size:54
Alignment explanation
Indices: 61634393--61634569 Score: 158
Period size: 55 Copynumber: 3.2 Consensus size: 54
61634383 CGTGTGCTAG
* * * * * * *
61634393 ACTGACTTTAAAATAGGGCCATGACACACACCCGTGTAGTCTGCCCGTGTTCAAT
1 ACTGA-TTTAAAACACGGCCATGACACACACCCGTATGGCCTACCCGTGTACAAT
* * * * * * *
61634448 ATTGACTTTAAAATACGGCCATGACGCACACCCGTGTGGTCTGCCCGTGTTCAAT
1 ACTGA-TTTAAAACACGGCCATGACACACACCCGTATGGCCTACCCGTGTACAAT
* * *
61634503 ACTGATTTTAAAACACGGCCATGACACACGCTCGTATGGCCTACCCGTGTACTGA-
1 ACTGA-TTTAAAACACGGCCATGACACACACCCGTATGGCCTACCCGTGTAC-AAT
61634558 ACTGATTTAAAA
1 ACTGATTTAAAA
61634570 TTTTAAGTGC
Statistics
Matches: 106, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
54 7 0.07
55 98 0.92
56 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (54 bp):
ACTGATTTAAAACACGGCCATGACACACACCCGTATGGCCTACCCGTGTACAAT
Found at i:61637364 original size:18 final size:17
Alignment explanation
Indices: 61637341--61637380 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
61637331 ATTGCGTGAA
*
61637341 AAAAAAAGGGAAATAAGG
1 AAAAAAAGGGAAA-AAAG
*
61637359 AAAAAAAGTGAAAAAAG
1 AAAAAAAGGGAAAAAAG
61637376 AAAAA
1 AAAAA
61637381 TTGGTAGCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (17 bp):
AAAAAAAGGGAAAAAAG
Found at i:61640819 original size:20 final size:20
Alignment explanation
Indices: 61640783--61640821 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
61640773 GGTATAATGA
*
61640783 CCACACGGCGTGTTGCCCTT
1 CCACACGGCATGTTGCCCTT
61640803 CCACAACGGCATG-TGCCCT
1 CCAC-ACGGCATGTTGCCCT
61640822 GTTTCAAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.15, C:0.41, G:0.23, T:0.21
Consensus pattern (20 bp):
CCACACGGCATGTTGCCCTT
Found at i:61647171 original size:46 final size:47
Alignment explanation
Indices: 61647024--61647298 Score: 251
Period size: 46 Copynumber: 5.9 Consensus size: 47
61647014 TTAATTATGT
* * * * *
61647024 GCTAGTGTAAGA-CATGTTTGCGACATGCATCGGCCAC-ATTACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGA-GATGAGA
* * *
61647070 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGATGAGA
61647118 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGATG-GAA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGAG-A
* * *
61647164 GCAAGTGTAAGA-CATGTCTGGGACATGCATCGG-CTACAAGAT--GT
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGATGAGA
* * * * * * *
61647208 GTTAGTGTAAGACCATGTCCGGGATAGGACATCGGCATGGACATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATG-CATCGGCCTCGAGA--TGAGA
*
61647258 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGA
61647299 TTTCGATAGT
Statistics
Matches: 185, Mismatches: 31, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
44 10 0.05
45 16 0.09
46 72 0.39
47 27 0.15
48 25 0.14
49 1 0.01
50 33 0.18
51 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGAGA
Found at i:61653505 original size:46 final size:44
Alignment explanation
Indices: 61653447--61653607 Score: 137
Period size: 46 Copynumber: 3.5 Consensus size: 44
61653437 ACGAGAGCTG
*
61653447 GTGTAAGACATGTCTGGGACATAAATCTGCCT-CGAGATGTAAGCCA
1 GTGTAAGACATGTCTGGGACATAAATCAG-CTACGAGATGT--GCCA
* * ** *
61653493 GTGTAAGACATGTCTAGGATATGTATCAGCTACGAGATGTGTCA
1 GTGTAAGACATGTCTGGGACATAAATCAGCTACGAGATGTGCCA
* * * *
61653537 GTGTAAGACCATGTCTGGGACATGACATCGGC-ACGTATAGAGGTGTCA
1 GTGTAAGA-CATGTCTGGGACAT-AAATCAGCTACG---AGATGTGCCA
61653585 GTGTAAGACCATGTCTGGGACAT
1 GTGTAAGA-CATGTCTGGGACAT
61653608 GGTATCAATA
Statistics
Matches: 97, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
44 11 0.11
45 17 0.18
46 37 0.38
48 32 0.33
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (44 bp):
GTGTAAGACATGTCTGGGACATAAATCAGCTACGAGATGTGCCA
Found at i:61653589 original size:48 final size:48
Alignment explanation
Indices: 61653531--61653713 Score: 160
Period size: 48 Copynumber: 3.8 Consensus size: 48
61653521 GCTACGAGAT
61653531 GTGTCAGTGTAAGACCATGTCTGGGACATGACATCGGCACGTATAGAG
1 GTGTCAGTGTAAGACCATGTCTGGGACATGACATCGGCACGTATAGAG
** *** *
61653579 GTGTCAGTGTAAGACCATGTCTGGGACATGGTATCAATACAG-ATATGTG
1 GTGTCAGTGTAAGACCATGTCTGGGACATGACATCGGCAC-GTATA-GAG
* * *
61653628 AGAG-CTAGTGTAAGACCATGTCTGGGACATGACATCGGCTTCGATTTCA-A-
1 -GTGTC-AGTGTAAGACCATGTCTGGGACATGACATCGGC-ACG-TAT-AGAG
* *
61653678 -TAGTCAGTGTAAGACCATGCCTGGGACATGGCATCG
1 GT-GTCAGTGTAAGACCATGTCTGGGACATGACATCG
61653714 ACATTATACC
Statistics
Matches: 107, Mismatches: 18, Indels: 19
0.74 0.12 0.13
Matches are distributed among these distances:
48 38 0.36
49 34 0.32
50 32 0.30
51 1 0.01
52 1 0.01
53 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
GTGTCAGTGTAAGACCATGTCTGGGACATGACATCGGCACGTATAGAG
Found at i:61668838 original size:15 final size:15
Alignment explanation
Indices: 61668818--61668851 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
61668808 TTTGAGATAT
* *
61668818 TATTGATAAGGATTA
1 TATTGAGAAGAATTA
61668833 TATTGAGAAGAATTA
1 TATTGAGAAGAATTA
61668848 TATT
1 TATT
61668852 TTGATTATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (15 bp):
TATTGAGAAGAATTA
Found at i:61673127 original size:50 final size:49
Alignment explanation
Indices: 61673007--61673237 Score: 264
Period size: 50 Copynumber: 4.8 Consensus size: 49
61672997 GGTCTAATGT
* * * *
61673007 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCA-A-AATCGAGGC
1 CGATGCCATGT-CCAGACATGGTCTTACACTAGCTCTCACATATTCG-TGC
**
61673056 TAATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACATATTCGTGC
1 CGATGCCATGTCC-AGACATGGTCTTACACTAGCTCTCACATATTCGTGC
61673106 CGATGCCATGTCGCAGACATGGTCTTACACTAGCTCTCACATATTCGTGC
1 CGATGCCATGTC-CAGACATGGTCTTACACTAGCTCTCACATATTCGTGC
* *
61673156 CGATGCCATGTCGCAGACATGGTCTTACACT-G---ACACATCTT-GTAGC
1 CGATGCCATGTC-CAGACATGGTCTTACACTAGCTCTCACATATTCGT-GC
61673202 CGATG-CATGTCCAAGACAT-GTCTTACACTAGCTCTC
1 CGATGCCATGTCC-AGACATGGTCTTACACTAGCTCTC
61673238 GTCTCAATGC
Statistics
Matches: 161, Mismatches: 11, Indels: 21
0.83 0.06 0.11
Matches are distributed among these distances:
44 11 0.07
45 15 0.09
46 14 0.09
48 3 0.02
49 33 0.20
50 80 0.50
51 5 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (49 bp):
CGATGCCATGTCCAGACATGGTCTTACACTAGCTCTCACATATTCGTGC
Found at i:61673298 original size:94 final size:94
Alignment explanation
Indices: 61673058--61673321 Score: 263
Period size: 94 Copynumber: 2.8 Consensus size: 94
61673048 ATCGAGGCTA
* * *
61673058 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACATAT-TCGTGCCGATGCCATGTCGCAG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGT-G-GCCGATG-CATGTC-CAG
* *
61673122 ACATGGTCTTACACTAGCTCTCACATATTCGTGCCG
61 ACAT-GTCTTACACTAGCTCT-ACATACTCATGCCG
* * * *
61673158 ATGCCATGTCGCAGACATGGTCTTACACTGACACATC-T--TGTAGCCGATGCATGTCCAAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTGGCCGATGCATGTCC-AGACA
* *
61673220 TGTCTTACACTAGCTCT-CGT-CTCAATGCTG
64 TGTCTTACACTAGCTCTACATACTC-ATGCCG
* *
61673250 ATGCCCTGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGT-CCAGACAT
61673315 -TCTTACA
65 GTCTTACA
61673322 TTGGCACACA
Statistics
Matches: 139, Mismatches: 17, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
91 4 0.03
92 36 0.26
93 7 0.05
94 38 0.27
95 14 0.10
96 7 0.05
97 1 0.01
98 1 0.01
100 29 0.21
101 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (94 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCAGACATG
TCTTACACTAGCTCTACATACTCATGCCG
Found at i:61674003 original size:31 final size:30
Alignment explanation
Indices: 61673941--61673999 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
61673931 ACCTAATGCA
61673941 TACCAACTTTGACTTTTCAACCTTTTTTTC
1 TACCAACTTTGACTTTTCAACCTTTTTTTC
61673971 TACCAACTTTGACTTTTCAACCTTTTTTT
1 TACCAACTTTGACTTTTCAACCTTTTTTT
61674000 TCTATCTCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.20, C:0.25, G:0.03, T:0.51
Consensus pattern (30 bp):
TACCAACTTTGACTTTTCAACCTTTTTTTC
Found at i:61677057 original size:22 final size:22
Alignment explanation
Indices: 61677032--61677080 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
61677022 TAGCCCGTAG
61677032 GAGCTCCCCATTCAAG-TCAAAA
1 GAGCTCCCCATTC-AGCTCAAAA
* * *
61677054 GAGCTTCCCGTTCAGCTCAATA
1 GAGCTCCCCATTCAGCTCAAAA
61677076 GAGCT
1 GAGCT
61677081 TTCCATTTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (22 bp):
GAGCTCCCCATTCAGCTCAAAA
Found at i:61677081 original size:22 final size:23
Alignment explanation
Indices: 61677048--61677104 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 23
61677038 CCCATTCAAG
* *
61677048 TCAAAAGAGCTTCCCGTT-CAGC
1 TCAATAGAGCTTCCAGTTCCAGC
*
61677070 TCAATAGAGCTTTCCATTTCCAGC
1 TCAATAGAGC-TTCCAGTTCCAGC
*
61677094 TCAATCGAGCT
1 TCAATAGAGCT
61677105 CACTGTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 9 0.31
23 7 0.24
24 13 0.45
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (23 bp):
TCAATAGAGCTTCCAGTTCCAGC
Found at i:61680753 original size:38 final size:39
Alignment explanation
Indices: 61680705--61680790 Score: 113
Period size: 38 Copynumber: 2.2 Consensus size: 39
61680695 TTAAAGTAGG
* *
61680705 TATTAAATTTTAAGATTTTTAGATGTTT-AG-GTTTTAAA
1 TATTAAATTTTAAGA-TTTTACATGTTTGAGTATTTTAAA
*
61680743 TATTAGATTTTAAGATTTTACATGTTTGAGTATTTTAAA
1 TATTAAATTTTAAGATTTTACATGTTTGAGTATTTTAAA
*
61680782 TACTAAATT
1 TATTAAATT
61680791 AGATATTAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
37 11 0.27
38 16 0.39
39 14 0.34
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (39 bp):
TATTAAATTTTAAGATTTTACATGTTTGAGTATTTTAAA
Found at i:61691792 original size:46 final size:46
Alignment explanation
Indices: 61691739--61691914 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
61691729 TATTTGGGCA
* *
61691739 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
61691785 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
61691832 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
61691878 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61691915 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
46 71 0.67
47 35 0.33
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:61691847 original size:93 final size:93
Alignment explanation
Indices: 61691735--61691906 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
61691725 GAGATATTTG
* * *
61691735 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
61691800 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
61691828 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
61691893 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
61691907 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:61693454 original size:150 final size:150
Alignment explanation
Indices: 61693183--61693482 Score: 600
Period size: 150 Copynumber: 2.0 Consensus size: 150
61693173 TCGTGTTTGA
61693183 CTCCGGCAACGGTCTCGGGTATGGGGCGTTACATTTAGTGGTATCATAGCAGGTTTAGTCGGTTC
1 CTCCGGCAACGGTCTCGGGTATGGGGCGTTACATTTAGTGGTATCATAGCAGGTTTAGTCGGTTC
61693248 TCGGACTAACCTAGCATGTGTAAAGTTTAACTATACATGCCACTGATCTGTGATAGTGTGATGTC
66 TCGGACTAACCTAGCATGTGTAAAGTTTAACTATACATGCCACTGATCTGTGATAGTGTGATGTC
61693313 TTCCGACGCGTATGAGTACC
131 TTCCGACGCGTATGAGTACC
61693333 CTCCGGCAACGGTCTCGGGTATGGGGCGTTACATTTAGTGGTATCATAGCAGGTTTAGTCGGTTC
1 CTCCGGCAACGGTCTCGGGTATGGGGCGTTACATTTAGTGGTATCATAGCAGGTTTAGTCGGTTC
61693398 TCGGACTAACCTAGCATGTGTAAAGTTTAACTATACATGCCACTGATCTGTGATAGTGTGATGTC
66 TCGGACTAACCTAGCATGTGTAAAGTTTAACTATACATGCCACTGATCTGTGATAGTGTGATGTC
61693463 TTCCGACGCGTATGAGTACC
131 TTCCGACGCGTATGAGTACC
61693483 GTCTTATATA
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 150 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.31
Consensus pattern (150 bp):
CTCCGGCAACGGTCTCGGGTATGGGGCGTTACATTTAGTGGTATCATAGCAGGTTTAGTCGGTTC
TCGGACTAACCTAGCATGTGTAAAGTTTAACTATACATGCCACTGATCTGTGATAGTGTGATGTC
TTCCGACGCGTATGAGTACC
Found at i:61695050 original size:30 final size:30
Alignment explanation
Indices: 61694976--61695063 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
61694966 CATAGTATCG
* * * *
61694976 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
* *
61695006 TAT-TCTGGACTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
61695036 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
61695064 TGTTATCTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 8 0.17
30 39 0.81
31 1 0.02
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:61695064 original size:14 final size:15
Alignment explanation
Indices: 61694985--61695064 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
61694975 GTATCTTGGG
*
61694985 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
61695000 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
61695015 CTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
61695030 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
61695045 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
61695059 TTTCTT
1 TTTCTT
61695065 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:61697516 original size:46 final size:46
Alignment explanation
Indices: 61697449--61697624 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
61697439 TATTTGGGCA
* *
61697449 TCCGAACTCGTTGAGTTGAGTCCGATTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
61697495 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
61697542 TCCAAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
61697588 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61697625 GTGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.58
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:61697598 original size:93 final size:93
Alignment explanation
Indices: 61697445--61697616 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
61697435 GGGATATTTG
* * * * * *
61697445 GGCATCCGAACTCGTTGAGTTGAGTCCGATTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
61697510 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
61697538 GGCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
61697603 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
61697617 ACTTATGGGT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GGCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:61702787 original size:117 final size:117
Alignment explanation
Indices: 61702581--61702816 Score: 409
Period size: 117 Copynumber: 2.0 Consensus size: 117
61702571 TATTTTGCAA
*
61702581 AATGATTAAGAGGTTAGGGTTTTACCATGAATGGATTTGTGATGATTTCTGAGTTTTTATGGAAG
1 AATGATTAAGAGGTTAAGGTTTTACCATGAATGGATTTGTGATGATTTCTGAGTTTTTATGGAAG
* *
61702646 AATATGGGTCTTAGAAGAGTTCTAAACAATTTTTTTGAAAGGTGTTAGCATG
66 AATATAGGTCTTAGAAGAGTTCTAAACAATTTTTGTGAAAGGTGTTAGCATG
* * *
61702698 AATGATTAAGAGTTTAAGGTTTTTCCATGAATGGATTTGTGATGATTTTTGAGTTTTTATGGAAG
1 AATGATTAAGAGGTTAAGGTTTTACCATGAATGGATTTGTGATGATTTCTGAGTTTTTATGGAAG
*
61702763 AATATAGGTCTTAGAAGAGTTCTAAACAATTTTTGTGAAATGTGTTAGCATG
66 AATATAGGTCTTAGAAGAGTTCTAAACAATTTTTGTGAAAGGTGTTAGCATG
61702815 AA
1 AA
61702817 AATACCTAAA
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
117 112 1.00
ACGTcount: A:0.31, C:0.06, G:0.24, T:0.39
Consensus pattern (117 bp):
AATGATTAAGAGGTTAAGGTTTTACCATGAATGGATTTGTGATGATTTCTGAGTTTTTATGGAAG
AATATAGGTCTTAGAAGAGTTCTAAACAATTTTTGTGAAAGGTGTTAGCATG
Found at i:61703497 original size:46 final size:46
Alignment explanation
Indices: 61703348--61703651 Score: 188
Period size: 46 Copynumber: 6.4 Consensus size: 46
61703338 TCACTTGTGT
* * * * * *
61703348 GAGCTACTGTAAGAAAAGTCTGGGACATGCATCGGCCAC-ATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGA
* * *
61703394 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGA
*
61703442 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-A
* * * *
61703489 -AGCCAGTGTAAGACATGTCTGGGATATGTATCGG-CT-AAG-CGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
* * * ** * *
61703531 TGTGTTAGTGTAAGACCACGTCTGGGACATGGCATCAACAC-GGATATGCGA
1 -GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGAGA--CGA
* * * *
61703582 GAGCTAGTATAAGACCATGCCTGGGACATGGCATCCGCCTCGATGATGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGA-GACGA
* * *
61703631 TAGCCAGTGTAATACCATGTC
1 GAGCTAGTGTAAGA-CATGTC
61703652 GGGCGGCAGT
Statistics
Matches: 199, Mismatches: 43, Indels: 29
0.73 0.16 0.11
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 12 0.06
45 14 0.07
46 61 0.31
47 27 0.14
48 25 0.13
49 20 0.10
50 33 0.17
51 4 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
Found at i:61706269 original size:28 final size:27
Alignment explanation
Indices: 61706212--61706361 Score: 228
Period size: 27 Copynumber: 5.5 Consensus size: 27
61706202 TAAATTGTGC
* *
61706212 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
61706239 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
61706267 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
61706294 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
61706322 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
61706349 AGCACTGAGTGTG
1 AGCACTAAGTGTG
61706362 TGGACTTAAT
Statistics
Matches: 116, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 64 0.55
28 52 0.45
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:61706277 original size:55 final size:55
Alignment explanation
Indices: 61706212--61706361 Score: 237
Period size: 55 Copynumber: 2.7 Consensus size: 55
61706202 TAAATTGTGC
* *
61706212 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
61706267 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
61706322 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTG
61706362 TGGACTTAAT
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 88 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:61716520 original size:6 final size:6
Alignment explanation
Indices: 61715597--61716519 Score: 1783
Period size: 6 Copynumber: 153.8 Consensus size: 6
61715587 CTTAGGCTTG
* *
61715597 GGCTCA GGCTCG GGCTCA GGCTCA GGCTCG GGCTCA GGCTCA GGCTCA
1 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
61715645 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
1 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
61715693 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
1 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
61715741 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
1 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
61715789 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
1 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
61715837 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
1 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
61715885 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
1 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
61715933 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
1 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
61715981 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
1 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
61716029 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
1 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
61716077 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
1 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
61716125 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
1 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
61716173 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
1 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
61716221 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
1 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
61716269 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
1 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
61716317 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
1 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
61716365 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
1 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
61716413 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
1 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
* * * *
61716461 GGCTCA GGCTCA GGCTCA GGCTCG GGCTCG GGCTCA GGCTCA AGCTGA
1 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA
*
61716509 GGCTCT GGCTC
1 GGCTCA GGCTC
61716520 TAGCTCTAGC
Statistics
Matches: 906, Mismatches: 11, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 906 1.00
ACGTcount: A:0.16, C:0.33, G:0.34, T:0.17
Consensus pattern (6 bp):
GGCTCA
Found at i:61716525 original size:12 final size:12
Alignment explanation
Indices: 61716509--61716574 Score: 55
Period size: 12 Copynumber: 5.5 Consensus size: 12
61716499 CTCAAGCTGA
*
61716509 GGCTCTGGCTCT
1 GGCTCTAGCTCT
*
61716521 AGCTCTAGCTCT
1 GGCTCTAGCTCT
*
61716533 GGCTCTAGAT-T
1 GGCTCTAGCTCT
* *
61716544 AGGCTCGAGCTCG
1 -GGCTCTAGCTCT
61716557 GGCT-TGAGCTCT
1 GGCTCT-AGCTCT
61716569 GGCTCT
1 GGCTCT
61716575 CGCTGGGCCT
Statistics
Matches: 41, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
11 1 0.02
12 39 0.95
13 1 0.02
ACGTcount: A:0.11, C:0.29, G:0.30, T:0.30
Consensus pattern (12 bp):
GGCTCTAGCTCT
Found at i:61716549 original size:18 final size:19
Alignment explanation
Indices: 61716508--61716549 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
61716498 GCTCAAGCTG
*
61716508 AGGCTCTGGCTCTAGCTCT
1 AGGCTCTGGCTCTAGATCT
61716527 A-GCTCTGGCTCTAGAT-T
1 AGGCTCTGGCTCTAGATCT
61716544 AGGCTC
1 AGGCTC
61716550 GAGCTCGGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 2 0.10
18 18 0.86
19 1 0.05
ACGTcount: A:0.14, C:0.29, G:0.26, T:0.31
Consensus pattern (19 bp):
AGGCTCTGGCTCTAGATCT
Found at i:61717235 original size:14 final size:14
Alignment explanation
Indices: 61717216--61717243 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
61717206 ATAAATTACA
61717216 TGTTAGAATAGTAT
1 TGTTAGAATAGTAT
61717230 TGTTAGAATAGTAT
1 TGTTAGAATAGTAT
61717244 CATTAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (14 bp):
TGTTAGAATAGTAT
Found at i:61717249 original size:14 final size:14
Alignment explanation
Indices: 61717218--61717251 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
61717208 AAATTACATG
**
61717218 TTAGAATAGTATTG
1 TTAGAATAGTATCA
61717232 TTAGAATAGTATCA
1 TTAGAATAGTATCA
61717246 TTAGAA
1 TTAGAA
61717252 AAAAAATGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.18, T:0.38
Consensus pattern (14 bp):
TTAGAATAGTATCA
Found at i:61719547 original size:32 final size:32
Alignment explanation
Indices: 61719506--61719603 Score: 110
Period size: 32 Copynumber: 3.1 Consensus size: 32
61719496 AGGTGTGCCA
*
61719506 CCTGTGGAATGGGCTTGACCAGCAGTGTGCTG
1 CCTGTGGAATGGGCATGACCAGCAGTGTGCTG
* * *
61719538 CCTGAGGAATGGGCATGACCAACCA--GTGCCG
1 CCTGTGGAATGGGCATGACC-AGCAGTGTGCTG
* **
61719569 CCTGTGAAATGGGCATGACCAGTGGTGTGCTG
1 CCTGTGGAATGGGCATGACCAGCAGTGTGCTG
61719601 CCT
1 CCT
61719604 TTCTTTGTGG
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
30 1 0.02
31 23 0.43
32 26 0.49
33 3 0.06
ACGTcount: A:0.19, C:0.24, G:0.35, T:0.21
Consensus pattern (32 bp):
CCTGTGGAATGGGCATGACCAGCAGTGTGCTG
Found at i:61719580 original size:31 final size:32
Alignment explanation
Indices: 61719500--61719589 Score: 103
Period size: 31 Copynumber: 2.8 Consensus size: 32
61719490 AGTCAGAGGT
* * *
61719500 GTGCCACCTGTGGAATGGGCTTGACC-AGCAG
1 GTGCCGCCTGTGGAATGGGCATGACCAACCAG
* *
61719531 TGTGCTGCCTGAGGAATGGGCATGACCAACCA-
1 -GTGCCGCCTGTGGAATGGGCATGACCAACCAG
*
61719563 GTGCCGCCTGTGAAATGGGCATGACCA
1 GTGCCGCCTGTGGAATGGGCATGACCA
61719590 GTGGTGTGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
31 24 0.49
32 22 0.45
33 3 0.06
ACGTcount: A:0.22, C:0.26, G:0.33, T:0.19
Consensus pattern (32 bp):
GTGCCGCCTGTGGAATGGGCATGACCAACCAG
Found at i:61733841 original size:12 final size:12
Alignment explanation
Indices: 61733824--61733850 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
61733814 TAATTTTTTG
61733824 TCTTCTTCTTCA
1 TCTTCTTCTTCA
61733836 TCTTCTTCTTCA
1 TCTTCTTCTTCA
61733848 TCT
1 TCT
61733851 CTTGCAGCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.33, G:0.00, T:0.59
Consensus pattern (12 bp):
TCTTCTTCTTCA
Found at i:61736084 original size:40 final size:40
Alignment explanation
Indices: 61736037--61736221 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
61736027 CTTGCGCAAG
* *
61736037 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
61736077 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
61736117 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * * *
61736157 GCCTTCGGATCTTAGTCTGGTTTTAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
61736198 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
61736222 CATTCGAATA
Statistics
Matches: 120, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 92 0.77
41 27 0.22
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:61743289 original size:40 final size:40
Alignment explanation
Indices: 61743242--61743466 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
61743232 CTTGCGCAAG
* *
61743242 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
61743282 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
61743322 GCCTTCGGGTTTTAGCCCGGGTATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
61743362 GCCTTCGGTTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * * *
61743402 GCCTTCGGATCTTAGTCTGGTTTTAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
* *
61743443 GCCTTTGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
61743467 CATTCGAATA
Statistics
Matches: 152, Mismatches: 30, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 125 0.82
41 26 0.17
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:61743337 original size:80 final size:80
Alignment explanation
Indices: 61743206--61743466 Score: 267
Period size: 80 Copynumber: 3.3 Consensus size: 80
61743196 CTCAAGTAAT
* * * * * * *
61743206 CTTCGGGATTTAG-CCGGATATAACTACTTGCGC-AAGGCCTTCGGGTCTTAGCCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
61743269 CACTAGCACAGATGC
66 CACTAGCACAAATGC
* * * *
61743284 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGGTATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
61743348 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
** * * * * * * *
61743364 CTTCGGTTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCTGGTTTTAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
61743429 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
*
61743445 CTTTGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
61743467 CATTCGAATA
Statistics
Matches: 149, Mismatches: 29, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
78 12 0.08
79 15 0.10
80 91 0.61
81 31 0.21
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.27
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:61747683 original size:110 final size:108
Alignment explanation
Indices: 61747277--61747734 Score: 361
Period size: 116 Copynumber: 4.1 Consensus size: 108
61747267 TCATACCTTA
* * * * * * *
61747277 AATATGAAAAACTGATATAAGATTCTTCAAAAAAAAATTAATAAAACAAATTAATCAAACCTTT-
1 AATATAAAAAATTGATATAAGA-T-ATC-AAAAAACATTAATAAAACAAACTAATCATACATTTA
* * * * ** *
61747341 ATACAAACTTAAAGCTAATAAAACACAACAACAAAAAAATAACATTTC
63 ATATAAACTTAAA-CTAATAAAACATAATAA-AAAAATATTTCCTTTC
* * *
61747389 AAGTAAATACAAAAAATTAATATAAGATATCACAAAAACATTAATAAAACAAATTAATCATACCT
1 AA-T--AT--AAAAAATTGATATAAGATATCA-AAAAACATTAATAAAACAAACTAATCATACAT
* * * * * *
61747454 TTAATACAAATCTAAAACTAA-AATAACACAACAAAAAAATATCCTTCCCCTTA
60 TTAATATAAA-CTTAAACTAATAA-AACATAATAAAAAAATAT--TT-CCTTTC
*
61747507 AATATAAAAAAAAGTTGATATAAGATA-CAACAATAACATTAATAAAATAAACTAATCATACATT
1 AATAT--AAAAAA-TTGATATAAGATATCAA-AA-AACATTAATAAAACAAACTAATCATACATT
*
61747571 TAATATAAACTTAAATCTAATAAAACATAATAAAAAAATATTTCTTTTC
61 TAATATAAACTTAAA-CTAATAAAACATAATAAAAAAATATTTCCTTTC
* * * * *
61747620 AATATAAAAAATTGTTATAAGATATCATAAAAACAATAATAAAACACACAAATCATACTTTTAAT
1 AATATAAAAAATTGATATAAGATATCA-AAAAACATTAATAAAACAAACTAATCATACATTTAAT
*
61747685 ATAAACTTAAACTTAAT-AAA-ATACATAAAAAAA-ATTACCTTTC
65 ATAAACTTAAAC-TAATAAAACATA-ATAAAAAAATATTTCCTTTC
*
61747728 AAAATAA
1 AATATAA
61747735 TTTTTAACTC
Statistics
Matches: 291, Mismatches: 34, Indels: 46
0.78 0.09 0.12
Matches are distributed among these distances:
108 17 0.06
109 13 0.04
110 56 0.19
111 10 0.03
112 3 0.01
113 9 0.03
114 4 0.01
115 63 0.22
116 89 0.31
117 22 0.08
118 5 0.02
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.27
Consensus pattern (108 bp):
AATATAAAAAATTGATATAAGATATCAAAAAACATTAATAAAACAAACTAATCATACATTTAATA
TAAACTTAAACTAATAAAACATAATAAAAAAATATTTCCTTTC
Found at i:61748061 original size:23 final size:24
Alignment explanation
Indices: 61748013--61748060 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
61748003 TATTAATACA
* *
61748013 TCAAATTTTCATTTTTTTTCATTT
1 TCAAATATTCATTTTTTCTCATTT
61748037 TCAAATATT-ATTTTTTCCTCATTT
1 TCAAATATTCATTTTTT-CTCATTT
61748061 CTTTTATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (24 bp):
TCAAATATTCATTTTTTCTCATTT
Found at i:61753476 original size:40 final size:40
Alignment explanation
Indices: 61753411--61753507 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 40
61753401 CCACCTCCGT
* * *
61753411 CCAACCCAACACACC--ATGTGGGGATAGAATCGACCCAC
1 CCAACCCTACACACCAAATATGGGGATAGAATCAACCCAC
* * * *
61753449 CCAGCCTTACACACCAAATATGGGGATATAATCAACCCAT
1 CCAACCCTACACACCAAATATGGGGATAGAATCAACCCAC
61753489 CCAACCCTACACACCAAAT
1 CCAACCCTACACACCAAAT
61753508 GGTACCGTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
38 12 0.25
40 36 0.75
ACGTcount: A:0.37, C:0.36, G:0.12, T:0.14
Consensus pattern (40 bp):
CCAACCCTACACACCAAATATGGGGATAGAATCAACCCAC
Found at i:61766965 original size:79 final size:81
Alignment explanation
Indices: 61766829--61767013 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
61766819 TTGAATGATG
*
61766829 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
61766893 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
61766908 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
61766970 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
61766988 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61767014 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:61767027 original size:40 final size:40
Alignment explanation
Indices: 61766830--61767013 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
61766820 TGAATGATGT
* * * *
61766830 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
61766870 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
61766910 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
61766948 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
61766989 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
61767014 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:61767035 original size:79 final size:79
Alignment explanation
Indices: 61766882--61767046 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
61766872 GGACTAAGAT
* **
61766882 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
61766947 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
61766961 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
61767024 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
61767040 CCGAAGG
1 CCGAAGG
61767047 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:61768648 original size:83 final size:83
Alignment explanation
Indices: 61768487--61768648 Score: 245
Period size: 83 Copynumber: 2.0 Consensus size: 83
61768477 CTACACACCT
61768487 GTGCGGCCTACATAGCCCAACAAGTCAAGCCCATGCCTCACACACGGCCTCGCCAGACTCACATG
1 GTGCGGCCTACATAGCCCAACAAGTCAAGCCCATGCCTCACACACGGCCTCGCCAGACTCACATG
*
61768552 CCTGTGCTCGTCGCGCCC
66 CCCGTGCTCGTCGCGCCC
* * * ** *
61768570 GTGCGGCCTACATGGCCCAACAAGTCAAGCTCGTGCCTCGTACACGGCCTCGCCAGCCTCACATG
1 GTGCGGCCTACATAGCCCAACAAGTCAAGCCCATGCCTCACACACGGCCTCGCCAGACTCACATG
61768635 CCCGTG-TCTGTCGC
66 CCCGTGCTC-GTCGC
61768649 ATCCATGTGG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
82 2 0.03
83 69 0.97
ACGTcount: A:0.19, C:0.41, G:0.23, T:0.17
Consensus pattern (83 bp):
GTGCGGCCTACATAGCCCAACAAGTCAAGCCCATGCCTCACACACGGCCTCGCCAGACTCACATG
CCCGTGCTCGTCGCGCCC
Found at i:61773108 original size:50 final size:50
Alignment explanation
Indices: 61772157--61773100 Score: 1757
Period size: 50 Copynumber: 18.9 Consensus size: 50
61772147 GATGCTAGGA
* * *
61772157 AGATATGAGAGCTAGTGTAAGACCATGTCTCGGACATGGCATCAGCCTCG
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
61772207 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
61772257 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
61772307 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
61772357 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
61772407 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
61772457 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
61772507 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
61772557 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
61772607 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
61772657 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
61772707 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
61772757 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
61772807 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
61772857 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
61772907 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
61772957 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
* * *
61773007 AGATATGAGAGCTAGTGTAAGACCATGTTTGGGACAT-GACATTGGCCTTG
1 AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAG-CATCGGCCTCG
* * * * *
61773057 ATATACGAGAG-TCAATGTAAGACCATGTCTGGAACATGGCATCG
1 AGATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATAGCATCG
61773101 ACTTTGATGT
Statistics
Matches: 879, Mismatches: 12, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
49 2 0.00
50 876 1.00
51 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (50 bp):
AGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCG
Found at i:61777041 original size:26 final size:26
Alignment explanation
Indices: 61777010--61777117 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
61777000 TGAAATGCCC
*
61777010 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
61777036 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
61777062 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
61777088 ATCATGGAACATTTACCTAACCCACT
1 ATCATGGAACATTTACCTAACCCATT
61777114 ATCA
1 ATCA
61777118 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:61783616 original size:24 final size:23
Alignment explanation
Indices: 61783589--61783636 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
61783579 AACAGAACAA
*
61783589 TCAAATATCAAAAATCATCTCATT
1 TCAAAAATCAAAAATCAT-TCATT
* *
61783613 TCAAAAATCATAGATCATTCATT
1 TCAAAAATCAAAAATCATTCATT
61783636 T
1 T
61783637 TCAATACAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (23 bp):
TCAAAAATCAAAAATCATTCATT
Found at i:61783939 original size:12 final size:12
Alignment explanation
Indices: 61783924--61783948 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61783914 GTCGACCACA
61783924 AGCCTGTGTGCC
1 AGCCTGTGTGCC
61783936 AGCCTGTGTGCC
1 AGCCTGTGTGCC
61783948 A
1 A
61783949 CACACGACCA
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:0.12, C:0.32, G:0.32, T:0.24
Consensus pattern (12 bp):
AGCCTGTGTGCC
Found at i:61803313 original size:23 final size:23
Alignment explanation
Indices: 61803271--61803354 Score: 134
Period size: 23 Copynumber: 3.7 Consensus size: 23
61803261 GCAAGTTCCT
61803271 TCGAGCTG-AACAGTAAGCTCTA
1 TCGAGCTGAAACAGTAAGCTCTA
*
61803293 TCGAGCTGAAACGGTAAGCTCTA
1 TCGAGCTGAAACAGTAAGCTCTA
61803316 TCGAGCTGAAACAGTAAGCTCTA
1 TCGAGCTGAAACAGTAAGCTCTA
* *
61803339 TTGAGCTAAAACAGTA
1 TCGAGCTGAAACAGTA
61803355 CACTTTTACG
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
22 8 0.14
23 49 0.86
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (23 bp):
TCGAGCTGAAACAGTAAGCTCTA
Found at i:61805967 original size:26 final size:26
Alignment explanation
Indices: 61805936--61805987 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
61805926 TCGATACACA
*
61805936 AATCCTATTTCGGAGCATTAAACAAT
1 AATCCTATTTCAGAGCATTAAACAAT
61805962 AATCCTATTTCAGAGCATTAAACAAT
1 AATCCTATTTCAGAGCATTAAACAAT
61805988 CATCAATTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (26 bp):
AATCCTATTTCAGAGCATTAAACAAT
Found at i:61813341 original size:13 final size:13
Alignment explanation
Indices: 61813323--61813347 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61813313 TAAATTATAT
61813323 GTGTGAAAATTTC
1 GTGTGAAAATTTC
61813336 GTGTGAAAATTT
1 GTGTGAAAATTT
61813348 TAGCGTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:61819356 original size:35 final size:35
Alignment explanation
Indices: 61819300--61819405 Score: 131
Period size: 35 Copynumber: 3.0 Consensus size: 35
61819290 ACATAGGTAA
* *
61819300 TTACATGTAAGCTTATATTGAACTTGTATATTCGG
1 TTACATGTGAGCTTATATTGAATTTGTATATTCGG
* * * * *
61819335 TTGCATGTGAGGTTATGTTGAATTTGAATATTCGA
1 TTACATGTGAGCTTATATTGAATTTGTATATTCGG
* *
61819370 TTACATGTGAGTTTATATTGAATTTGTGTATTCGG
1 TTACATGTGAGCTTATATTGAATTTGTATATTCGG
61819405 T
1 T
61819406 CATATGTAAG
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 58 1.00
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.45
Consensus pattern (35 bp):
TTACATGTGAGCTTATATTGAATTTGTATATTCGG
Found at i:61822831 original size:46 final size:46
Alignment explanation
Indices: 61822778--61822868 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
61822768 TATATATACA
* * *
61822778 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
* *
61822824 CATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATAT
61822869 ATACATGTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.27, C:0.32, G:0.08, T:0.33
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
Found at i:61822904 original size:47 final size:46
Alignment explanation
Indices: 61822842--61822985 Score: 207
Period size: 47 Copynumber: 3.1 Consensus size: 46
61822832 ACACATTTCG
* * *
61822842 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATAT-CATGTTCACATTCATCA
* *
61822889 CATTGGCCATTCGGCCTTATCACACATACGCATGCTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATA-TCATGTTCACATTCATCA
*
61822936 CATTGGTCATTCGGCCTTATCACACATACTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATA-TCATGTTCACATTCATCA
61822983 CAT
1 CAT
61822986 AAAATCCTAA
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
47 88 1.00
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.31
Consensus pattern (46 bp):
CATTGGCCATTCGGCCTTATCACACATATCATGTTCACATTCATCA
Found at i:61834104 original size:22 final size:22
Alignment explanation
Indices: 61834079--61834122 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
61834069 CTATATGTGA
61834079 TGTTCTATTGAATTTGAACTAT
1 TGTTCTATTGAATTTGAACTAT
*
61834101 TGTTCTGTTGAATTTGAACTAT
1 TGTTCTATTGAATTTGAACTAT
61834123 AGGTTACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.09, G:0.16, T:0.50
Consensus pattern (22 bp):
TGTTCTATTGAATTTGAACTAT
Found at i:61837822 original size:46 final size:46
Alignment explanation
Indices: 61837670--61837843 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
61837660 TTATTTCTAT
* * *
61837670 GCCAATGTAAGACATGTCTAGGACATGCATCGGCCAC-ATTATGAGA
1 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGA-GATGAGA
** * * * *
61837716 GCCAGTGTAAGACCATACCT-GAGACATGGCATTGGCATTGAGACGAGA
1 GCCAGTGTAAGA-CATGTCTAG-GACAT-GCATCGGCCTCGAGATGAGA
* *
61837764 GCTAGTGTAAGACATGTCTAGGACACGCATCGGCCTCGAGATGTA-A
1 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATG-AGA
* *
61837810 GCCAGTGTAAGACATGTCTGGGACGTGCATCGGC
1 GCCAGTGTAAGACATGTCTAGGACATGCATCGGC
61837844 TATGAGATGT
Statistics
Matches: 101, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
46 56 0.55
47 20 0.20
48 24 0.24
49 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.21
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGAGA
Found at i:61837851 original size:46 final size:44
Alignment explanation
Indices: 61837669--61837887 Score: 136
Period size: 46 Copynumber: 4.8 Consensus size: 44
61837659 GTTATTTCTA
* * * *
61837669 TGCCAATGTAAGACATGTCTAGGACATGCATCGGCCAC-ATTATGAG
1 TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GAT--G
* ** * * * * *
61837715 AGCCAGTGTAAGACCATACCTGAGACATGGCATTGGCATTGAGACGAG
1 TGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGA--TG
* * * *
61837763 AGCTAGTGTAAGACATGTCTAGGACACGCATCGGCCTCGAGATG
1 TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG
* *
61837807 TAAGCCAGTGTAAGACATGTCTGGGACGTGCATCGG-CTATGAGATG
1 T--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATG
* *
61837853 TGTCAGTGTAAGATGATGTCTGGGACATGGCATCG
1 TGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
61837888 ACACGGATAT
Statistics
Matches: 132, Mismatches: 31, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
44 12 0.09
45 14 0.11
46 65 0.49
47 19 0.14
48 21 0.16
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (44 bp):
TGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG
Found at i:61841208 original size:38 final size:39
Alignment explanation
Indices: 61841166--61841313 Score: 151
Period size: 38 Copynumber: 3.9 Consensus size: 39
61841156 CAGTTACACC
* *
61841166 GGCACGAAGCCTGGTAGGCACAGAGCTCGAATAAT-ACT
1 GGCACAAAGCCTGCTAGGCACAGAGCTCGAATAATCACT
*
61841204 GGCACAAAGCCTGCTAGGCACAGAGCCCGAAT-ATCACT
1 GGCACAAAGCCTGCTAGGCACAGAGCTCGAATAATCACT
** * *
61841242 GGCACTCAGCCTGTTAGGCACAGAGCTCGAAT-ATCACC
1 GGCACAAAGCCTGCTAGGCACAGAGCTCGAATAATCACT
* *** *
61841280 AGTGTAAAGCCTGCTAGGCAC-GTAGCCCGAATAA
1 GGCACAAAGCCTGCTAGGCACAG-AGCTCGAATAA
61841314 CATTACAATT
Statistics
Matches: 91, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
37 3 0.03
38 87 0.96
39 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (39 bp):
GGCACAAAGCCTGCTAGGCACAGAGCTCGAATAATCACT
Found at i:61842478 original size:18 final size:17
Alignment explanation
Indices: 61842457--61842490 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
61842447 CTTGAACTTA
61842457 ATAAATCACTTAAATAAC
1 ATAAATCA-TTAAATAAC
*
61842475 ATAAATTATTAAATAA
1 ATAAATCATTAAATAA
61842491 AACCCTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAATCATTAAATAAC
Found at i:61843004 original size:102 final size:102
Alignment explanation
Indices: 61842820--61843007 Score: 238
Period size: 102 Copynumber: 1.8 Consensus size: 102
61842810 TTGAAGAACC
*
61842820 AAGTGGTGGAGCCATAAAGAATGACTCCACCAAAATAAAATATCATTTTTAAAATTTTTAGATTA
1 AAGTGGTGGAGCCATAAAGAATGACTCCACCAAAATAAAATATCATTTTTAAAATATTTAGATTA
* *
61842885 AAAAACACATTTAAAAAAAGAAATTACACTAGTAATA
66 AAAAAAACAATTAAAAAAAGAAATTACACTAGTAATA
* ** * *
61842922 AAGTGGTGGCGCCATTTAGAATGGCTCCACC-AAATAAAATATTATCTTTTTAAAA-ATTTA-AT
1 AAGTGGTGGAGCCATAAAGAATGACTCCACCAAAATAAAATATCA--TTTTTAAAATATTTAGAT
*
61842984 TATAAAAAAATAGATTAAAAAAAG
64 TA-AAAAAAACA-ATTAAAAAAAG
61843008 TCTTGAAATG
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
101 16 0.22
102 38 0.52
103 19 0.26
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.29
Consensus pattern (102 bp):
AAGTGGTGGAGCCATAAAGAATGACTCCACCAAAATAAAATATCATTTTTAAAATATTTAGATTA
AAAAAAACAATTAAAAAAAGAAATTACACTAGTAATA
Found at i:61858849 original size:14 final size:14
Alignment explanation
Indices: 61858830--61858865 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
61858820 TCCCCTTAAA
*
61858830 GAAATTTTGTCCTC
1 GAAATTTCGTCCTC
61858844 GAAATTTCGTCCTC
1 GAAATTTCGTCCTC
61858858 GAAATTTC
1 GAAATTTC
61858866 AAAATATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (14 bp):
GAAATTTCGTCCTC
Found at i:61860218 original size:76 final size:76
Alignment explanation
Indices: 61860092--61860243 Score: 295
Period size: 76 Copynumber: 2.0 Consensus size: 76
61860082 TCAGAAATCA
61860092 GAGCTAACTGGGCCTTAGCCCCTATCAATATTAATTTGGGCCATAGCCCCTTATAGTATCAGAGT
1 GAGCTAACTGGGCCTTAGCCCCTATCAATATTAATTTGGGCCATAGCCCCTTATAGTATCAGAGT
61860157 ATACTGGGCCT
66 ATACTGGGCCT
*
61860168 GAGCTAACTGGGTCTTAGCCCCTATCAATATTAATTTGGGCCATAGCCCCTTATAGTATCAGAGT
1 GAGCTAACTGGGCCTTAGCCCCTATCAATATTAATTTGGGCCATAGCCCCTTATAGTATCAGAGT
61860233 ATACTGGGCCT
66 ATACTGGGCCT
61860244 AGCCCATATC
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (76 bp):
GAGCTAACTGGGCCTTAGCCCCTATCAATATTAATTTGGGCCATAGCCCCTTATAGTATCAGAGT
ATACTGGGCCT
Found at i:61867966 original size:59 final size:59
Alignment explanation
Indices: 61867874--61868047 Score: 258
Period size: 59 Copynumber: 2.9 Consensus size: 59
61867864 AATTGATACC
* * *
61867874 TAATACATGCTAGGGTTTGGGTGCTTTTAAGTAGCACCGTTGAGAGGCATGTGATTAAG
1 TAATACATGCTAGGGTCTGGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGATTAAG
* * * * *
61867933 TAATACATGCTAGGGTCTAGATGCTTTTGAGTAGCCCCGTTGAGAGGGATGTGAATATG
1 TAATACATGCTAGGGTCTGGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGATTAAG
* *
61867992 TGATACATGCTAGGGTCTGGGTGCTTTTGAGTAGCCCCGTTGAAAGGCATGTGATT
1 TAATACATGCTAGGGTCTGGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGATT
61868048 CTATGATCTG
Statistics
Matches: 101, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 101 1.00
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.32
Consensus pattern (59 bp):
TAATACATGCTAGGGTCTGGGTGCTTTTGAGTAGCCCCGTTGAGAGGCATGTGATTAAG
Found at i:61873194 original size:14 final size:14
Alignment explanation
Indices: 61873154--61873196 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
61873144 ATAACTTATA
61873154 TTCAACACTTAATTT
1 TTCAACACTT-ATTT
* * *
61873169 TTTAATATTTATTT
1 TTCAACACTTATTT
61873183 TTCAACACTTATTT
1 TTCAACACTTATTT
61873197 ATCTTTTATT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.56
Consensus pattern (14 bp):
TTCAACACTTATTT
Found at i:61873228 original size:25 final size:27
Alignment explanation
Indices: 61873154--61873229 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 27
61873144 ATAACTTATA
61873154 TTCAACACTTAATTTTTTAATATTTATTT
1 TTCAACACTTAATTTTTT--TATTTATTT
*
61873183 TTCAACACTTATTTATCTTTTA-TT-TTT
1 TTCAACACTTAATT-T-TTTTATTTATTT
*
61873210 TTCAACTCTTAATTTTTTTA
1 TTCAACACTTAATTTTTTTA
61873230 ATCTGTCAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
25 5 0.12
26 1 0.02
27 15 0.36
28 2 0.05
29 15 0.36
30 1 0.02
31 3 0.07
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (27 bp):
TTCAACACTTAATTTTTTTATTTATTT
Found at i:61876529 original size:29 final size:29
Alignment explanation
Indices: 61876458--61876529 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
61876448 ATTCATATGA
* *
61876458 AATATAATATTTTCCTCATTCACAATCTC
1 AATAGAATATTTTTCTCATTCACAATCTC
*
61876487 AATAGAATATTTTTCTCATTCATAATCTC
1 AATAGAATATTTTTCTCATTCACAATCTC
61876516 AATA-AATATCTTTT
1 AATAGAATAT-TTTT
61876530 AAAACCAATG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.36, C:0.18, G:0.01, T:0.44
Consensus pattern (29 bp):
AATAGAATATTTTTCTCATTCACAATCTC
Found at i:61883884 original size:20 final size:20
Alignment explanation
Indices: 61883861--61883899 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
61883851 TATCGATACT
* *
61883861 TTTCTTAAGTTATCAATATA
1 TTTCCTAAGGTATCAATATA
*
61883881 TTTCCTAAGGTATTAATAT
1 TTTCCTAAGGTATCAATAT
61883900 TCCTGCTCCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (20 bp):
TTTCCTAAGGTATCAATATA
Found at i:61895027 original size:19 final size:18
Alignment explanation
Indices: 61894998--61895057 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 18
61894988 TATTACTTAT
61894998 TTTA-TTTTATTATATTA
1 TTTATTTTTATTATATTA
*
61895015 TTTATTATTTATTTTATTA
1 TTTATT-TTTATTATATTA
*
61895034 TTTATTTTATATTAAATTA
1 TTTATTTT-TATTATATTA
61895053 GTTTA
1 -TTTA
61895058 GGCTAAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 4 0.11
18 3 0.08
19 25 0.69
20 4 0.11
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (18 bp):
TTTATTTTTATTATATTA
Found at i:61895041 original size:12 final size:12
Alignment explanation
Indices: 61894998--61895043 Score: 76
Period size: 12 Copynumber: 3.8 Consensus size: 12
61894988 TATTACTTAT
61894998 TTTATTTTATTA
1 TTTATTTTATTA
61895010 TATTA-TTTATTA
1 T-TTATTTTATTA
61895022 TTTATTTTATTA
1 TTTATTTTATTA
61895034 TTTATTTTAT
1 TTTATTTTAT
61895044 ATTAAATTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 3 0.09
12 26 0.81
13 3 0.09
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTATTTTATTA
Found at i:61898737 original size:23 final size:23
Alignment explanation
Indices: 61898711--61898764 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
61898701 ATCCTTTTTC
*
61898711 ATTTCTAACTTAAAAA-TCTATCA
1 ATTTCTAACTTAAAAACTCAAT-A
*
61898734 ATTT-AACACTTAAAAACTCAATA
1 ATTTCTA-ACTTAAAAACTCAATA
61898757 ATTTCTAA
1 ATTTCTAA
61898765 AATTTTGACA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
22 1 0.04
23 19 0.76
24 5 0.20
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (23 bp):
ATTTCTAACTTAAAAACTCAATA
Found at i:61902199 original size:29 final size:30
Alignment explanation
Indices: 61902142--61902224 Score: 132
Period size: 29 Copynumber: 2.8 Consensus size: 30
61902132 GTGTGCTAAA
* *
61902142 CAATGGTCGAAACTATCTCTTTTCTTTAAT
1 CAATGGTCGAAACCATCCCTTTTCTTTAAT
61902172 CAATGGTCG-AACCATCCCTTTTCTTTAAT
1 CAATGGTCGAAACCATCCCTTTTCTTTAAT
*
61902201 CAATGGTCGAAACCACCCCTTTTC
1 CAATGGTCGAAACCATCCCTTTTC
61902225 ATATTTGATG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
29 27 0.55
30 22 0.45
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.36
Consensus pattern (30 bp):
CAATGGTCGAAACCATCCCTTTTCTTTAAT
Found at i:61902235 original size:29 final size:29
Alignment explanation
Indices: 61902203--61902293 Score: 105
Period size: 29 Copynumber: 3.1 Consensus size: 29
61902193 TCTTTAATCA
61902203 ATGGTCGAAACCACCCCTTTTCATATTTG
1 ATGGTCGAAACCACCCCTTTTCATATTTG
* *
61902232 ATGGTTGAAGCCATCCCC-TTTCATATTTG
1 ATGGTCGAAACCA-CCCCTTTTCATATTTG
* * *
61902261 ATGGTC-ACCACCATCCCTTTTCATATTCG
1 ATGGTCGA-AACCACCCCTTTTCATATTTG
61902290 ATGG
1 ATGG
61902294 GCATTGATAC
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
28 4 0.08
29 44 0.85
30 4 0.08
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.35
Consensus pattern (29 bp):
ATGGTCGAAACCACCCCTTTTCATATTTG
Found at i:61904497 original size:21 final size:21
Alignment explanation
Indices: 61904471--61904520 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
61904461 TTCTTCTTGG
61904471 GTCTAGTCTAATGTCCAGTTA
1 GTCTAGTCTAATGTCCAGTTA
* *
61904492 GTCTAGTCTGATGTCCATTTA
1 GTCTAGTCTAATGTCCAGTTA
*
61904513 GTCCAGTC
1 GTCTAGTC
61904521 ATCACATCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (21 bp):
GTCTAGTCTAATGTCCAGTTA
Found at i:61915135 original size:8 final size:8
Alignment explanation
Indices: 61915124--61915154 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
61915114 TTTTAAAGGT
61915124 TAATTAAG
1 TAATTAAG
*
61915132 TAATTAAA
1 TAATTAAG
61915140 TAATTAAG
1 TAATTAAG
61915148 TAATTAA
1 TAATTAA
61915155 TGATAAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (8 bp):
TAATTAAG
Found at i:61915143 original size:16 final size:16
Alignment explanation
Indices: 61915124--61915154 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
61915114 TTTTAAAGGT
61915124 TAATTAAGTAATTAAA
1 TAATTAAGTAATTAAA
61915140 TAATTAAGTAATTAA
1 TAATTAAGTAATTAA
61915155 TGATAAAAAC
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:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
TAATTAAGTAATTAAA
Found at i:61920996 original size:21 final size:22
Alignment explanation
Indices: 61920957--61920997 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
61920947 GTTGATATGT
*
61920957 CACACGGGCGTGTTGCCCCTCC
1 CACACGAGCGTGTTGCCCCTCC
61920979 CACACGAGCGTG-TGCCCCT
1 CACACGAGCGTGTTGCCCCT
61920998 GTGTTAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.44, G:0.27, T:0.17
Consensus pattern (22 bp):
CACACGAGCGTGTTGCCCCTCC
Found at i:61922672 original size:25 final size:25
Alignment explanation
Indices: 61922642--61922704 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
61922632 CAACTCATGT
* *
61922642 GAGCATACCGATTTATAGCTTGTGA
1 GAGCATACCGATTTACAGCTTGAGA
* * *
61922667 GAGCATACCAATCTACAGCTTGAGT
1 GAGCATACCGATTTACAGCTTGAGA
*
61922692 GAGCATACTGATT
1 GAGCATACCGATT
61922705 CACAACTCGT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (25 bp):
GAGCATACCGATTTACAGCTTGAGA
Found at i:61924813 original size:43 final size:45
Alignment explanation
Indices: 61924721--61924834 Score: 128
Period size: 43 Copynumber: 2.6 Consensus size: 45
61924711 TTTCATATAC
* *** *
61924721 CGATGCCAACGTCCCAGATGGGGTCTTACACAAAATCATATAATA
1 CGATGCCAATGTCCCAGACATGGTCTTACACAAAATCATACAATA
*
61924766 --ATGCCAATGTCCCAGACATGGTCTTACACATAA-CA-ACAATA
1 CGATGCCAATGTCCCAGACATGGTCTTACACAAAATCATACAATA
* *
61924807 CGATGCCTATGTCCCAAACATGGTCTTA
1 CGATGCCAATGTCCCAGACATGGTCTTA
61924835 TATGTAATTT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 5 0.08
42 2 0.03
43 52 0.88
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (45 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACAAAATCATACAATA
Found at i:61940314 original size:12 final size:13
Alignment explanation
Indices: 61940291--61940319 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
61940281 TTAGTTTATT
61940291 TATTTATATTTTA
1 TATTTATATTTTA
61940304 TATTT-TATTTTA
1 TATTTATATTTTA
61940316 TATT
1 TATT
61940320 AAATTAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTATATTTTA
Found at i:61947292 original size:27 final size:27
Alignment explanation
Indices: 61947261--61947492 Score: 277
Period size: 27 Copynumber: 8.6 Consensus size: 27
61947251 TAAATTGTAC
61947261 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** * *
61947288 TGCACTAAGTGTGCGAAATGAATATGA
1 AGCACTAAGTGTGCGATTTGACTATGT
61947315 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
61947342 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61947368 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
61947396 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
61947424 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
61947451 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
61947478 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61947493 GACTCAATAT
Statistics
Matches: 172, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
27 149 0.87
28 23 0.13
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:61955088 original size:18 final size:18
Alignment explanation
Indices: 61955065--61955108 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
61955055 AAAGGGGAAG
*
61955065 ACGAAGGCGAACACTATA
1 ACGAAGACGAACACTATA
*
61955083 ACGAAGACGAACACTATG
1 ACGAAGACGAACACTATA
61955101 ACGAAGAC
1 ACGAAGAC
61955109 AAAACTAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.45, C:0.23, G:0.23, T:0.09
Consensus pattern (18 bp):
ACGAAGACGAACACTATA
Found at i:61962671 original size:27 final size:27
Alignment explanation
Indices: 61962640--61962816 Score: 196
Period size: 27 Copynumber: 6.5 Consensus size: 27
61962630 TAAATTGTAC
*
61962640 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
61962667 TGCACTAAGTGTGCGAGA-TGAATATG-
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
61962693 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
*
61962721 GGCACTAAGTGTGCGAGATTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
61962749 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
61962776 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
61962803 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
61962817 AGACTCAATA
Statistics
Matches: 128, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 24 0.19
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:61962701 original size:54 final size:55
Alignment explanation
Indices: 61962640--61962816 Score: 225
Period size: 54 Copynumber: 3.3 Consensus size: 55
61962630 TAAATTGTAC
*
61962640 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAGATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGATGAATATGAT
* * ** *
61962695 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGATTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGA-TGAATATGAT
* * * *
61962749 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGATGAATATGAT
*
61962803 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
61962817 AGACTCAATA
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
54 61 0.58
55 44 0.42
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGATGAATATGAT
Found at i:61962754 original size:82 final size:81
Alignment explanation
Indices: 61962641--61962796 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
61962631 AAATTGTACA
* * *
61962641 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAGATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGATGAATACGTA-GCACTAAGTG
61962705 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
61962722 GCACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGATGAATACGTAGCACTAAGTG
*
61962787 TGCGAGTTGA
65 TGCGAATTGA
61962797 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61962808 original size:82 final size:81
Alignment explanation
Indices: 61962637--61962816 Score: 218
Period size: 82 Copynumber: 2.2 Consensus size: 81
61962627 GATTAAATTG
* * *
61962637 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAGATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGATGAATACGATGCACTAA
61962702 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
61962718 TGCGGCACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGATGAATACGAT-GCACT
* **
61962782 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
61962800 TATAGCACTGAGTGTGC
1 TACAGCACTAAGTGTGC
61962817 AGACTCAATA
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Done.