Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 76 of 333
Found at i:23323625 original size:20 final size:20
Alignment explanation
Indices: 23323608--23323651 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
23323598 TAATTCTTTT
23323608 TTTTAATTTTATTCTCTTTAA
1 TTTT-ATTTTATTCTCTTTAA
23323629 TTTTATTTTATTCT-TTATAA
1 TTTTATTTTATTCTCTT-TAA
23323649 TTT
1 TTT
23323652 ATAAATTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 2 0.09
20 16 0.73
21 4 0.18
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTATTTTATTCTCTTTAA
Found at i:23324183 original size:63 final size:63
Alignment explanation
Indices: 23324083--23324262 Score: 243
Period size: 63 Copynumber: 2.9 Consensus size: 63
23324073 TTGTTCTTAC
* * * * * *
23324083 CTAGTTTATTTGACACAAGCATCACATCACGCGCAATCATTCCTTACATCAACACCTTCAGCT
1 CTAGTTTATTTTACACAAGCACCACAACACGCGCAATCATTCCATACATCAACACATTCAGCA
* * * *
23324146 CTAGTTTATTTTACACAAACACCACAACACGCACAATCATTCCATGCATCAACATATTCAGCA
1 CTAGTTTATTTTACACAAGCACCACAACACGCGCAATCATTCCATACATCAACACATTCAGCA
* * *
23324209 CCAGTTTATTTTACACAAGCACCACAACATGCGCAATCATTCCCTACATCAACA
1 CTAGTTTATTTTACACAAGCACCACAACACGCGCAATCATTCCATACATCAACA
23324263 AAATCTCTAG
Statistics
Matches: 101, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 101 1.00
ACGTcount: A:0.34, C:0.32, G:0.08, T:0.26
Consensus pattern (63 bp):
CTAGTTTATTTTACACAAGCACCACAACACGCGCAATCATTCCATACATCAACACATTCAGCA
Found at i:23326051 original size:30 final size:30
Alignment explanation
Indices: 23326017--23326076 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
23326007 CATAAACAAA
23326017 AATAAATCTACAAACTTTTAATTTTCAACC
1 AATAAATCTACAAACTTTTAATTTTCAACC
23326047 AATAAATCTACAAACTTTTAATTTTCAACC
1 AATAAATCTACAAACTTTTAATTTTCAACC
23326077 GTAAGAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (30 bp):
AATAAATCTACAAACTTTTAATTTTCAACC
Found at i:23339009 original size:24 final size:24
Alignment explanation
Indices: 23338932--23338992 Score: 122
Period size: 24 Copynumber: 2.5 Consensus size: 24
23338922 AATCAAATTT
23338932 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTCGTCACACTC
23338956 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTCGTCACACTC
23338980 GCACACATAGTGC
1 GCACACATAGTGC
23338993 CATAGCACAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.26, C:0.36, G:0.18, T:0.20
Consensus pattern (24 bp):
GCACACATAGTGCTCGTCACACTC
Found at i:23342186 original size:30 final size:30
Alignment explanation
Indices: 23342151--23342210 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
23342141 TATTTTATTA
*
23342151 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
23342181 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
23342211 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:23344434 original size:25 final size:26
Alignment explanation
Indices: 23344376--23344445 Score: 106
Period size: 25 Copynumber: 2.7 Consensus size: 26
23344366 ACATTTCAAC
* **
23344376 CCACAGCTCATGTGAGTAGGCCCATT
1 CCACAGCTCATGTGAGCATACCCATT
23344402 CCACAGCTCATGTGAGCATACCC-TT
1 CCACAGCTCATGTGAGCATACCCATT
23344427 CCACAGCTCATGTGAGCAT
1 CCACAGCTCATGTGAGCAT
23344446 CATTGTAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 21 0.51
26 20 0.49
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (26 bp):
CCACAGCTCATGTGAGCATACCCATT
Found at i:23349030 original size:21 final size:21
Alignment explanation
Indices: 23349004--23349052 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
23348994 CTGTATCTTG
23349004 GAAAATTTTTAAAATTTTGCA
1 GAAAATTTTTAAAATTTTGCA
23349025 GAAAATTTTTAAAATTTTGCA
1 GAAAATTTTTAAAATTTTGCA
*
23349046 AAAAATT
1 GAAAATT
23349053 CTTTGAGTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (21 bp):
GAAAATTTTTAAAATTTTGCA
Found at i:23349997 original size:13 final size:13
Alignment explanation
Indices: 23349948--23350012 Score: 76
Period size: 13 Copynumber: 5.0 Consensus size: 13
23349938 CATCTATTAC
*
23349948 CATATAACCAATT
1 CATATAACCATTT
*
23349961 CATTTAACCATTT
1 CATATAACCATTT
* * *
23349974 TATGTAGCCATTT
1 CATATAACCATTT
23349987 CATATAACCATTT
1 CATATAACCATTT
*
23350000 CGTATAACCATTT
1 CATATAACCATTT
23350013 TAACAAAACT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.40
Consensus pattern (13 bp):
CATATAACCATTT
Found at i:23352990 original size:29 final size:28
Alignment explanation
Indices: 23352958--23353044 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
23352948 TCATAAGAAC
23352958 ATTTTATGAAATTATATTTAATAATAATT
1 ATTTTAT-AAATTATATTTAATAATAATT
* * *
23352987 A-TTT-TAAATTGTATTAAATCAT-A-T
1 ATTTTATAAATTATATTTAATAATAATT
* *
23353011 ATTTTAATTAAAATATATTTAATATTAATT
1 ATTTT-A-TAAATTATATTTAATAATAATT
23353041 ATTT
1 ATTT
23353045 CAAATTTTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
24 2 0.05
25 4 0.09
26 14 0.32
27 1 0.02
28 16 0.36
29 2 0.05
30 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (28 bp):
ATTTTATAAATTATATTTAATAATAATT
Found at i:23353220 original size:67 final size:66
Alignment explanation
Indices: 23353145--23353357 Score: 159
Period size: 67 Copynumber: 3.2 Consensus size: 66
23353135 ATTATAATGT
*
23353145 ATTT-AATAATAATAATGTTTAAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTA
1 ATTTAAATAATAATAATGTTTAAATATAATTAAA-TATTTATTATTGATATTAATAATCTTATTA
23353209 AA
65 AA
* ** * * * * * *
23353211 ATTTAAATAACAATAACAAATTT--CTGCTAATTATAAGAATT-TTATT-AAATT-ATATATTTT
1 ATTTAAATAATAAT-A-ATGTTTAAAT-ATAATTA-AATATTTATTATTGATATTAATA-ATCTT
23353271 AATTAAAA
61 -ATT-AAA
* * * *
23353279 TATATTTAATAATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAATAATCTTAT
1 -AT-TTAAATAATAATAATGTTTAAATATAATT-AAATATTTATTATTGATATTAATAATCTTAT
23353344 TAAA
63 TAAA
23353348 ATTTAAATAA
1 ATTTAAATAA
23353358 CATTAACAAT
Statistics
Matches: 107, Mismatches: 24, Indels: 31
0.66 0.15 0.19
Matches are distributed among these distances:
65 3 0.03
66 12 0.11
67 24 0.22
68 18 0.17
69 21 0.20
70 19 0.18
71 7 0.07
72 3 0.03
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (66 bp):
ATTTAAATAATAATAATGTTTAAATATAATTAAATATTTATTATTGATATTAATAATCTTATTAA
A
Found at i:23353255 original size:137 final size:138
Alignment explanation
Indices: 23353101--23353366 Score: 417
Period size: 137 Copynumber: 1.9 Consensus size: 138
23353091 TAAGAATATG
* *
23353101 AATTATTAAGAATTTTATTAAATTATATACCAAAATTATAATGTATTTAATAATAATAATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATAATGTTTA
* * * *
23353166 AATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAAA
66 AATATAATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
23353231 TTTCTGCT
131 TTTCTGCT
**** *
23353239 AATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATAATGTTTA
*
23353303 AATATAATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAA
66 AATATAATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
23353367 TAATCATTTA
Statistics
Matches: 116, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
137 111 0.96
138 5 0.04
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.44
Consensus pattern (138 bp):
AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATAATGTTTA
AATATAATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
TTTCTGCT
Found at i:23353277 original size:18 final size:17
Alignment explanation
Indices: 23353249--23353283 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23353239 AATTATAAGA
*
23353249 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
23353266 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
23353284 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:23353348 original size:70 final size:69
Alignment explanation
Indices: 23353135--23353349 Score: 170
Period size: 70 Copynumber: 3.1 Consensus size: 69
23353125 ATATACCAAA
* * * * *
23353135 ATTATAATGTATTTAATAATAATAATGTTTAAATATGATTAAATTATTTATTATTGATATTAATA
1 ATTAAAATATATTTAATAATAATAATGTTTAAATATAATTAAAATATTTATTA-TGATAATAATA
23353200 ATCTT
65 ATCTT
* ** * * * * * * * * * *
23353205 ATTAAAATTTAAATAACAATAACAA-ATTT--CTGCTAATTATAAGAATT-TTATTA-AATTATA
1 ATTAAAATATATTTAATAATAATAATGTTTAAAT-ATAATTAAAATATTTATTATGATAATAATA
*
23353265 TATTTT
65 -ATCTT
*
23353271 AATTAAAATATATTTAATAATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAAT
1 -ATTAAAATATATTTAATAATAATAATGTTTAAATATAATTAAAATATTTATTA-TGATAATAAT
23353336 AATCTT
64 AATCTT
23353342 ATTAAAAT
1 ATTAAAAT
23353350 TTAAATAACA
Statistics
Matches: 103, Mismatches: 33, Indels: 18
0.67 0.21 0.12
Matches are distributed among these distances:
65 5 0.05
66 6 0.06
67 23 0.22
68 12 0.12
69 14 0.14
70 31 0.30
71 6 0.06
72 6 0.06
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (69 bp):
ATTAAAATATATTTAATAATAATAATGTTTAAATATAATTAAAATATTTATTATGATAATAATAA
TCTT
Found at i:23353399 original size:137 final size:138
Alignment explanation
Indices: 23353134--23353452 Score: 339
Period size: 137 Copynumber: 2.3 Consensus size: 138
23353124 TATATACCAA
* * * * * * *
23353134 AATTATAATGTATTTAATAATAATAATGTTTAAATATGATTAAATTATTTATTATTGATATTAAT
1 AATTAAAATATATTTAATAATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAAT
* ** * *
23353199 AATCTTATTAAAATTTAAATAACAATAACAAATTTCTGCTAATTATAAGAATTTTATTAAATTAT
66 AATCTTATTAAAATTTAAATAACAATAACAAATATCT-CTAACCAAAACAATTTTATTAAATTAT
*
23353264 -A-TATTTT
130 AAGAATTTT
23353271 AATTAAAATATATTTAATAATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAAT
1 AATTAAAATATATTTAATAATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAAT
* * *
23353336 AATCTTATTAAAATTTAAATAACATTAAC-AATAATCAT-TTACCAAAACAATTTTCTGCT-AAT
66 AATCTTATTAAAATTTAAATAACAATAACAAAT-ATC-TCTAACCAAAACAATTTTAT--TAAAT
23353398 TATAAGAATTTT
127 TATAAGAATTTT
* *
23353410 -ATTAAATTATATATTTTAATTAA-AA-TATATTTAATTATAATTA
1 AATTAAA--ATATA-TTTAA-TAATAATTATGTTTAAATATAATTA
23353453 TGTTTAAATA
Statistics
Matches: 154, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
136 15 0.10
137 94 0.61
138 9 0.06
139 5 0.03
140 21 0.14
141 7 0.05
142 3 0.02
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (138 bp):
AATTAAAATATATTTAATAATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAAT
AATCTTATTAAAATTTAAATAACAATAACAAATATCTCTAACCAAAACAATTTTATTAAATTATA
AGAATTTT
Found at i:23353400 original size:156 final size:156
Alignment explanation
Indices: 23353225--23353552 Score: 602
Period size: 156 Copynumber: 2.1 Consensus size: 156
23353215 AAATAACAAT
*
23353225 AACAAATTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
23353290 ATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
* *
23353355 TAACATTAACAATAATCATTTACCAA
131 TAACAATAACAATAATCAATTACCAA
*
23353381 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATT
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
*
23353446 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
23353511 TAACAATAACAATAATCAATTACCAA
131 TAACAATAACAATAATCAATTACCAA
*
23353537 AACAATTTTATGCTAA
1 AACAATTTTCTGCTAA
23353553 GGGTATTCTA
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 166 1.00
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.43
Consensus pattern (156 bp):
AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
ATAATTATGTTTAAATATAATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
TAACAATAACAATAATCAATTACCAA
Found at i:23353433 original size:18 final size:18
Alignment explanation
Indices: 23353405--23353453 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
23353395 AATTATAAGA
23353405 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
23353422 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
23353438 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
23353454 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:23353439 original size:16 final size:16
Alignment explanation
Indices: 23353405--23353459 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
23353395 AATTATAAGA
23353405 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
23353422 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
23353438 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
23353452 ATGTTTAA
1 AT-TTTAA
23353460 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:23353669 original size:44 final size:45
Alignment explanation
Indices: 23353604--23353694 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
23353594 AGCTCTATTC
* * *
23353604 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
23353648 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
23353693 CA
1 CA
23353695 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:23353696 original size:16 final size:16
Alignment explanation
Indices: 23353675--23353743 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
23353665 GATTAGCTAT
23353675 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
23353691 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
23353708 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
23353724 TATACCTCTAATCCAA
1 TACACCTCTAATCCAA
23353740 TACA
1 TACA
23353744 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:23353717 original size:33 final size:32
Alignment explanation
Indices: 23353675--23353743 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
23353665 GATTAGCTAT
23353675 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
23353708 TACACCTCTAATCCAATATACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
23353740 TACA
1 TACA
23353744 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:23354909 original size:38 final size:38
Alignment explanation
Indices: 23354867--23354999 Score: 106
Period size: 38 Copynumber: 3.3 Consensus size: 38
23354857 ATGGGCTGTT
*
23354867 ATATTTACAGTTATTGCCACTTGTTGTGAGTGCACAAC
1 ATATTTGCAGTTATTGCCACTTGTTGTGAGTGCACAAC
* * * *
23354905 ATATTTGTAGATTAAACAAATTGCCACTTGGTTCATGA-TCGAACCAC
1 ATATTTGCAG-TT------ATTGCCACTT-GTT-GTGAGT-GCACAAC
* *
23354952 ATATTTGCAATTACTGCCACTTGTTGTGAGTGCACAAC
1 ATATTTGCAGTTATTGCCACTTGTTGTGAGTGCACAAC
23354990 ATATTTGCAG
1 ATATTTGCAG
23355000 ATTAAACAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 22
0.68 0.11 0.21
Matches are distributed among these distances:
38 25 0.35
39 6 0.08
40 9 0.12
45 10 0.14
46 6 0.08
47 16 0.22
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (38 bp):
ATATTTGCAGTTATTGCCACTTGTTGTGAGTGCACAAC
Found at i:23355015 original size:85 final size:85
Alignment explanation
Indices: 23354867--23355025 Score: 264
Period size: 85 Copynumber: 1.9 Consensus size: 85
23354857 ATGGGCTGTT
* * * *
23354867 ATATTTACAGTTATTGCCACTTGTTGTGAGTGCACAACATATTTGTAGATTAAACAAATTGCCAC
1 ATATTTACAATTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTGCCAC
*
23354932 TTGGTTCATGATCGAACCAC
66 ATGGTTCATGATCGAACCAC
*
23354952 ATATTTGCAATTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTGCCAC
1 ATATTTACAATTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTGCCAC
23355017 ATGGTTCAT
66 ATGGTTCAT
23355026 AATCAAAGTA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 68 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (85 bp):
ATATTTACAATTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTGCCAC
ATGGTTCATGATCGAACCAC
Found at i:23355665 original size:29 final size:28
Alignment explanation
Indices: 23355551--23355718 Score: 198
Period size: 29 Copynumber: 6.0 Consensus size: 28
23355541 AATTTTGGGC
* * *
23355551 AAAATTGTAAAATCTAAAAGATAGAGG-C
1 AAAATTATAAAATCTAAAAAATAG-GGAA
* *
23355579 AAAACTATAAAATCTGAAAAATAGGGAA
1 AAAATTATAAAATCTAAAAAATAGGGAA
** *
23355607 AAAA-CGTAAAATCT-AAAAATAGGGGA
1 AAAATTATAAAATCTAAAAAATAGGGAA
23355633 AAAATTATAAAATCTAAAAAATAGAGGAA
1 AAAATTATAAAATCTAAAAAATAG-GGAA
23355662 AAAATTATAAAATCTAAAAAATAGGGAA
1 AAAATTATAAAATCTAAAAAATAGGGAA
* *
23355690 CAAAATTGTAAAATCTAAAAAAGAGGGAA
1 -AAAATTATAAAATCTAAAAAATAGGGAA
23355719 CACACGGCCG
Statistics
Matches: 122, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
26 15 0.12
27 18 0.15
28 36 0.30
29 53 0.43
ACGTcount: A:0.60, C:0.06, G:0.15, T:0.19
Consensus pattern (28 bp):
AAAATTATAAAATCTAAAAAATAGGGAA
Found at i:23359994 original size:41 final size:40
Alignment explanation
Indices: 23359937--23360015 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 40
23359927 CATGAACTTA
23359937 GGAGTAGATTTAGGTTTAGTTTAATTCTTTTAGTTTATTAT
1 GGAGTAGATTTAGGTTTAGTTTAATT-TTTTAGTTTATTAT
*
23359978 GGAGTAGGTTTAGGTTTAGTTTAATTTTTTAGTTTATT
1 GGAGTAGATTTAGGTTTAGTTTAATTTTTTAGTTTATT
23360016 GTTACTATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 12 0.32
41 25 0.68
ACGTcount: A:0.23, C:0.01, G:0.22, T:0.54
Consensus pattern (40 bp):
GGAGTAGATTTAGGTTTAGTTTAATTTTTTAGTTTATTAT
Found at i:23365127 original size:22 final size:24
Alignment explanation
Indices: 23365062--23365113 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
23365052 TTCCTAGGTA
* * *
23365062 AAATAAATTATACTAATAAATGCT
1 AAATATATTATACAAATAAATACT
23365086 AAATATATTATACAAATAAATACT
1 AAATATATTATACAAATAAATACT
23365110 AAAT
1 AAAT
23365114 CTTTTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATATATTATACAAATAAATACT
Found at i:23368636 original size:29 final size:29
Alignment explanation
Indices: 23368603--23368661 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
23368593 TAATTTAATT
23368603 TAAAAGGTTAAAAAAATATAAGCAAACTA
1 TAAAAGGTTAAAAAAATATAAGCAAACTA
23368632 TAAAAGGTTAAAAAAATATAAGCAAACTA
1 TAAAAGGTTAAAAAAATATAAGCAAACTA
23368661 T
1 T
23368662 CTTGACTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.61, C:0.07, G:0.10, T:0.22
Consensus pattern (29 bp):
TAAAAGGTTAAAAAAATATAAGCAAACTA
Found at i:23372862 original size:7 final size:7
Alignment explanation
Indices: 23372850--23372879 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
23372840 AGTGAGCATT
23372850 ATATGAG
1 ATATGAG
23372857 ATATGAG
1 ATATGAG
23372864 ATATGAG
1 ATATGAG
23372871 AT-TGAG
1 ATATGAG
23372877 ATA
1 ATA
23372880 GCTTCAGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.30
Consensus pattern (7 bp):
ATATGAG
Found at i:23381809 original size:18 final size:18
Alignment explanation
Indices: 23381786--23381824 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
23381776 AGTATGGGCC
*
23381786 AAGGCGGAGGGGTTAGGG
1 AAGGCGGAGGGGCTAGGG
23381804 AAGGCGGAGGGGCTAGGG
1 AAGGCGGAGGGGCTAGGG
23381822 AAG
1 AAG
23381825 CCTACCTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.08, G:0.59, T:0.08
Consensus pattern (18 bp):
AAGGCGGAGGGGCTAGGG
Found at i:23390882 original size:46 final size:45
Alignment explanation
Indices: 23390827--23391000 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
23390817 TATTTGGGCA
23390827 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAA-G
* *** * *
23390873 TTCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GAC--GCGAAG
* *
23390920 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAA-G
* *
23390966 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
23391001 TGGCGGGTTA
Statistics
Matches: 106, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 1 0.01
46 66 0.62
47 31 0.29
48 2 0.02
49 2 0.02
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAAG
Found at i:23390982 original size:93 final size:93
Alignment explanation
Indices: 23390823--23390994 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
23390813 AGGATATTTG
* **
23390823 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAATGTTCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAACGCCCGAACTCGTTGAG
23390888 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
23390916 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAACGCCCGAACTCGTTGAG
23390981 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
23390995 ACTTATTGGC
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:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:23397290 original size:21 final size:21
Alignment explanation
Indices: 23397261--23397314 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
23397251 CGGGGTCGGG
*
23397261 ACACAGGCGTGTCCAAAATCC
1 ACACGGGCGTGTCCAAAATCC
23397282 ACACGGGCGTGTCCAAAATCC
1 ACACGGGCGTGTCCAAAATCC
23397303 ACACGGGCGTGT
1 ACACGGGCGTGT
23397315 GACACCTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.28, C:0.31, G:0.26, T:0.15
Consensus pattern (21 bp):
ACACGGGCGTGTCCAAAATCC
Found at i:23414090 original size:28 final size:28
Alignment explanation
Indices: 23414050--23414105 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
23414040 TTTCCAAAGG
*
23414050 ATGTTAACTTTTAATACACTGATACTAA
1 ATGTTAACTTTTAATACACCGATACTAA
23414078 ATGTTAACTTTTAATACACCGATACTAA
1 ATGTTAACTTTTAATACACCGATACTAA
23414106 GCTTGCTAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.38
Consensus pattern (28 bp):
ATGTTAACTTTTAATACACCGATACTAA
Found at i:23414145 original size:38 final size:38
Alignment explanation
Indices: 23414103--23414247 Score: 218
Period size: 38 Copynumber: 3.8 Consensus size: 38
23414093 ACACCGATAC
* * *
23414103 TAAGCTTGCTAGGCACCAAGCCTGAAAAACACCAGCAA
1 TAAGCCTGCTAGGCACGAAGCCTGAATAACACCAGCAA
*
23414141 TAAGCCTGCTAGGCGCGAAGCCTGAATAACACCAGCAA
1 TAAGCCTGCTAGGCACGAAGCCTGAATAACACCAGCAA
*
23414179 TAAGCCTGCTAGGCATGAAGCCTGAATAACACCAGCAA
1 TAAGCCTGCTAGGCACGAAGCCTGAATAACACCAGCAA
* * *
23414217 TAAGCCTACTAGGCACAAAGCCCGAATAACA
1 TAAGCCTGCTAGGCACGAAGCCTGAATAACA
23414248 ATATAATTCA
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 97 1.00
ACGTcount: A:0.38, C:0.28, G:0.20, T:0.14
Consensus pattern (38 bp):
TAAGCCTGCTAGGCACGAAGCCTGAATAACACCAGCAA
Found at i:23415558 original size:16 final size:15
Alignment explanation
Indices: 23415515--23415554 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
23415505 TTTTTGTACT
23415515 TTTTATTTTATTCCA
1 TTTTATTTTATTCCA
*
23415530 TTTTACTTTTATTCTA
1 TTTTA-TTTTATTCCA
23415546 TTTTATTTT
1 TTTTATTTT
23415555 TATTTTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTATTTTATTCCA
Found at i:23419345 original size:40 final size:40
Alignment explanation
Indices: 23419301--23419472 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
23419291 GCTCCTCGTT
* * *
23419301 CAAATGCCTTCGGGACATAGCTCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACTCGGATT-TAGTAACTCGCA
* *
23419341 CAAATGGCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
*
23419381 CAATTGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
* * * * *
23419421 CAAAGGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
23419460 CAAATGCCTTCGG
1 CAAATGCCTTCGG
23419473 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 33 0.28
40 81 0.70
41 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
Found at i:23419486 original size:79 final size:80
Alignment explanation
Indices: 23419301--23419525 Score: 262
Period size: 80 Copynumber: 2.8 Consensus size: 80
23419291 GCTCCTCGTT
* * * * *
23419301 CAAATGCCTTCGGGACATAGCTCAGTTATAGTAACTCGCACAAATGG-CTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAACTCGGATATAGTAACTCGCACAAA-GGCCTTCGGGACTTAGCCCG
*
23419365 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
* *
23419381 CAATTGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCACAAAGGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACTCGGATATAGTAACTCGCACAAAGGCCTTCGGGACTTAGCCCGG
*
23419445 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* * * *
23419460 CAAATGCCTTC-GGATCTT-AGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGA-CTTAACT-CGGATATAGTAAC-TCGCACAAAGGCCTTCGGGACTTAGCC
23419522 CGGA
63 CGGA
23419526 CATCATTCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 5 0.04
79 56 0.45
80 64 0.51
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACTCGGATATAGTAACTCGCACAAAGGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:23423532 original size:78 final size:81
Alignment explanation
Indices: 23423412--23423595 Score: 225
Period size: 78 Copynumber: 2.3 Consensus size: 81
23423402 GCTACTCGTT
* * *
23423412 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
23423475 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
23423492 CAAAGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
23423555 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
23423571 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
23423596 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
77 3 0.03
78 45 0.50
79 27 0.30
80 15 0.17
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:23423595 original size:40 final size:39
Alignment explanation
Indices: 23423393--23423595 Score: 207
Period size: 40 Copynumber: 5.1 Consensus size: 39
23423383 CGGAATTTAA
** *
23423393 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAA-GCCTTCGGGACTTAGC
* * *
23423433 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAA-AGCCTTCGGGACTTAGC
*
23423473 CCGGATTTAGTAACTCGCACAAAGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAAGCCTTCGGGACTTAGC
* *
23423511 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAA-GCCTTCGGGA-CTTAGC
* * *
23423551 CCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAAGCCTTCGGGACTTAGC
23423591 CCGGA
1 CCGGA
23423596 CATCATTCAA
Statistics
Matches: 136, Mismatches: 18, Indels: 18
0.79 0.10 0.10
Matches are distributed among these distances:
38 27 0.20
39 16 0.12
40 81 0.60
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAGTAACTCGCACAAAGCCTTCGGGACTTAGC
Found at i:23431409 original size:78 final size:81
Alignment explanation
Indices: 23431266--23431447 Score: 221
Period size: 78 Copynumber: 2.3 Consensus size: 81
23431256 GCTACTCGTT
* ** *
23431266 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
23431331 ATTTAGTAAC-TCGCA
66 ATATAGTAACTTAGCA
* **
23431346 CAAATGCCTTCGGG-CTTAGCCCGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
23431408 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
23431425 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
23431448 GACATCATTC
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
77 3 0.03
78 45 0.51
79 26 0.30
80 14 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCA
Found at i:23431449 original size:40 final size:40
Alignment explanation
Indices: 23431247--23431449 Score: 227
Period size: 40 Copynumber: 5.1 Consensus size: 40
23431237 CGGAATTTAA
** *
23431247 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
23431287 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
23431327 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
23431366 CCGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
23431405 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
23431445 CCGGA
1 CCGGA
23431450 CATCATTCAA
Statistics
Matches: 138, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
37 2 0.01
38 22 0.16
39 21 0.15
40 82 0.59
41 11 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:23439196 original size:40 final size:40
Alignment explanation
Indices: 23439159--23439343 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
23439149 GCTACTCGTT
*
23439159 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
23439199 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
23439239 CAAAGGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
23439278 CAAATGCCTT-TGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
23439319 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23439344 CATCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 75 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:23439261 original size:79 final size:80
Alignment explanation
Indices: 23439159--23439343 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
23439149 GCTACTCGTT
* * *
23439159 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTT-GGGATCTTAACCC
* *
23439222 GGATTTAGTAAC-TCGCA
63 GGATATAGTAACTTAGCA
* * **
23439239 CAAAGGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTTGGATCTTAGTCCGG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTGGGATCTTAACCCGG
* *
23439303 ATATGGTCACTTAGCA
65 ATATAGTAACTTAGCA
23439319 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
23439344 CATCATTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.60
80 33 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTGGGATCTTAACCCGGA
TATAGTAACTTAGCA
Found at i:23445888 original size:142 final size:142
Alignment explanation
Indices: 23445625--23446049 Score: 604
Period size: 142 Copynumber: 3.0 Consensus size: 142
23445615 AAAAAAAAAG
* * *
23445625 AATTATATTCTTTCCAAAAGAATATTAATTT-T-CATATCTTTTATATTTTGACTG----GAATT
1 AATTATATTCTTTCCAAAAGAATATTAATTTCTAC-T-TTTTTTATATTTTGACCGAAATTAATT
* *
23445684 AATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAAT
64 AATTAATATAAATATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAAT
23445749 CAAATTCATATATT
129 CAAATTCATATATT
* *
23445763 AATTATATTATTTCCAAAAGAATATTAATTTCTACTTTTTTTATATATTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCTACTTTTTTTATATTTTGACCGAAATTAATTAA
* * * *
23445828 TTAATATAAATATTTATATAAATAAATTCAGTAAAACATATATAATTAATATTTTGTATGAATCA
66 TTAATATAAATATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCA
23445893 AATTCATATATT
131 AATTCATATATT
*
23445905 AATTATATTCTTTCCAAAAGAATATTAAAATTC-A-TTTCTTTTATATTTTGACCGAAATTAATT
1 AATTATATTCTTTCCAAAAGAATATT-AATTTCTACTTT-TTTTATATTTTGACCGAAATTAATT
*
23445968 AA-T-ATA-ACA-ATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAAT
64 AATTAATATAAATATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAAT
*
23446029 CAAACTCATATATT
129 CAAATTCATATATT
23446043 AATTATA
1 AATTATA
23446050 ACTATTTTAT
Statistics
Matches: 259, Mismatches: 20, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
138 113 0.44
139 4 0.02
140 4 0.02
141 4 0.02
142 129 0.50
143 5 0.02
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (142 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCTACTTTTTTTATATTTTGACCGAAATTAATTAA
TTAATATAAATATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCA
AATTCATATATT
Found at i:23451569 original size:45 final size:45
Alignment explanation
Indices: 23451462--23451697 Score: 312
Period size: 45 Copynumber: 5.2 Consensus size: 45
23451452 TCATTAAGAC
* *
23451462 TACGAGCAGTGGAGCAGGTACATTCAGCTCTCAATTCATTCAAACT
1 TACGAGCAGTGGGGCTGGTACATTCAGCTCTCAATTCATTC-AACT
* * *
23451508 TACTAGCAGTGGGGCTGGTACATTCAACTCTCAATTCGTTCAACT
1 TACGAGCAGTGGGGCTGGTACATTCAGCTCTCAATTCATTCAACT
* * * *
23451553 TACAAGCAGTGAGGCTGGTTCATTCAGCTCTCAATTCATTCAACC
1 TACGAGCAGTGGGGCTGGTACATTCAGCTCTCAATTCATTCAACT
* *
23451598 TGCGAGCAGTGGGGCCGGTACATTCAGCTCTCAATTCATTCAACT
1 TACGAGCAGTGGGGCTGGTACATTCAGCTCTCAATTCATTCAACT
* * * *
23451643 TAGGAGCAGTGGGGCTGGTACATTCAACTCTCATTTCATT-AAGCC
1 TACGAGCAGTGGGGCTGGTACATTCAGCTCTCAATTCATTCAA-CT
23451688 TACGAGCAGT
1 TACGAGCAGT
23451698 AGGAAAGCTA
Statistics
Matches: 165, Mismatches: 24, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
44 2 0.01
45 127 0.77
46 36 0.22
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.28
Consensus pattern (45 bp):
TACGAGCAGTGGGGCTGGTACATTCAGCTCTCAATTCATTCAACT
Found at i:23467733 original size:47 final size:44
Alignment explanation
Indices: 23467623--23467738 Score: 119
Period size: 44 Copynumber: 2.6 Consensus size: 44
23467613 TGTGTGTGCT
* * *
23467623 GATGCATGTCCCAGACATGTCTTACACTAGTACAACTATTAGCC
1 GATGCATGTCCCAGACACGTCTTACACGAGTACAACTATGAGCC
* * *
23467667 AATGCGTGTCCCA-AGCACGTCTTACACGAGCTATC-TCTATCGAGGCC
1 GATGCATGTCCCAGA-CACGTCTTACACGAG-TA-CAACTAT-GA-GCC
23467714 GATGCATGTCCCAGACACGTCTTAC
1 GATGCATGTCCCAGACACGTCTTAC
23467739 TCTGCACTCA
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
43 1 0.02
44 24 0.41
45 6 0.10
46 2 0.03
47 24 0.41
48 1 0.02
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (44 bp):
GATGCATGTCCCAGACACGTCTTACACGAGTACAACTATGAGCC
Found at i:23467825 original size:47 final size:47
Alignment explanation
Indices: 23467755--23467890 Score: 152
Period size: 47 Copynumber: 2.9 Consensus size: 47
23467745 CTCATCTCTG
* *
23467755 TGCCGACGCCATGTCCCAGACATGGTTTTACACTGGCTCTCATAAT-A
1 TGCCGAAGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATGA
* * * * *
23467802 TGGCTGAAG-CATGTCCCAAACAT-GTCTTACACTTGCCCTCATCTGGA
1 T-GCCGAAGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT-GA
*
23467849 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA
1 TGCCGAAGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA
23467891 AATCACCCAA
Statistics
Matches: 72, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
45 1 0.01
46 21 0.29
47 29 0.40
48 21 0.29
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (47 bp):
TGCCGAAGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATGA
Found at i:23467860 original size:94 final size:93
Alignment explanation
Indices: 23467717--23467890 Score: 260
Period size: 94 Copynumber: 1.9 Consensus size: 93
23467707 CGAGGCCGAT
* * * *
23467717 GCATGTCCCAGACACGTCTTACTCTGCACTCATCTCTGTGCCGACGCCATGTCCCAGACATGGTT
1 GCATGTCCCAAACACGTCTTACACTGCACTCATCTCGGTGCCGACGCCATGTCCCAGACATGGTC
23467782 TTACACTGGCTCTCATAATATGGCTGAA
66 TTACACTGGCTCTCATAATATGGCTGAA
* * *
23467810 GCATGTCCCAAACATGTCTTACACTTGCCCTCATCT-GGATGCCGATGCCATGTCCCAGACATGG
1 GCATGTCCCAAACACGTCTTACAC-TGCACTCATCTCGG-TGCCGACGCCATGTCCCAGACATGG
23467874 TCTTACACTGGCTCTCA
64 TCTTACACTGGCTCTCA
23467891 AATCACCCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
93 22 0.31
94 50 0.69
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (93 bp):
GCATGTCCCAAACACGTCTTACACTGCACTCATCTCGGTGCCGACGCCATGTCCCAGACATGGTC
TTACACTGGCTCTCATAATATGGCTGAA
Found at i:23476081 original size:14 final size:14
Alignment explanation
Indices: 23476059--23476091 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
23476049 TATTTTCCTC
*
23476059 TATCCTATTCTTTA
1 TATCTTATTCTTTA
23476073 TATCTTATTCTTTA
1 TATCTTATTCTTTA
23476087 TATCT
1 TATCT
23476092 CTTTATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.18, G:0.00, T:0.61
Consensus pattern (14 bp):
TATCTTATTCTTTA
Found at i:23479147 original size:93 final size:93
Alignment explanation
Indices: 23479034--23479205 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
23479024 CGCCCATAAG
* *
23479034 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
23479099 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
23479127 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
23479192 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
23479206 TCAATCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:23479202 original size:46 final size:46
Alignment explanation
Indices: 23479027--23479202 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
23479017 TGTAACCCGC
* * *
23479027 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
23479073 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* *
23479123 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
23479166 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
23479203 TGCTCAATCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:23483420 original size:20 final size:20
Alignment explanation
Indices: 23483391--23483435 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
23483381 AGCACATGTA
* *
23483391 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
23483411 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
23483431 TTCAT
1 TTCAT
23483436 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:23486308 original size:46 final size:45
Alignment explanation
Indices: 23486251--23486426 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
23486241 TATTTGGGCA
23486251 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
23486297 TCCAAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
23486344 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * **
23486390 CCCGAGCTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23486427 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 64 0.61
47 31 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:23486406 original size:93 final size:93
Alignment explanation
Indices: 23486247--23486417 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
23486237 AGGATATTTG
* *
23486247 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAG
23486312 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
23486340 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAG
23486405 TTGAGTCCGAGTT
66 TTGAGTCCGAGTT
23486418 TGCTTATGGG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:23488359 original size:23 final size:23
Alignment explanation
Indices: 23488329--23488375 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
23488319 AACTATATAT
*
23488329 TCCTTACCCAATTTAGGCTGGAC
1 TCCTTACCCAATTCAGGCTGGAC
**
23488352 TCCTTACCTGATTCAGGCTGGAC
1 TCCTTACCCAATTCAGGCTGGAC
23488375 T
1 T
23488376 AATACAGGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.32
Consensus pattern (23 bp):
TCCTTACCCAATTCAGGCTGGAC
Found at i:23494102 original size:16 final size:16
Alignment explanation
Indices: 23494081--23494112 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23494071 TGAGATAGCT
*
23494081 CGTTGATAGTGTGAGG
1 CGTTGATAATGTGAGG
23494097 CGTTGATAATGTGAGG
1 CGTTGATAATGTGAGG
23494113 TGATCTCCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.06, G:0.41, T:0.31
Consensus pattern (16 bp):
CGTTGATAATGTGAGG
Found at i:23496372 original size:26 final size:26
Alignment explanation
Indices: 23496342--23496394 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
23496332 ATCATAACAA
23496342 TAAGAACTCGGCCTACTCATATAAGT
1 TAAGAACTCGGCCTACTCATATAAGT
23496368 TAAGAACTCGGCCTACTCATATAAGT
1 TAAGAACTCGGCCTACTCATATAAGT
23496394 T
1 T
23496395 TTCTTGTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (26 bp):
TAAGAACTCGGCCTACTCATATAAGT
Found at i:23496572 original size:45 final size:45
Alignment explanation
Indices: 23496523--23496613 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
23496513 TTAAGAAAAG
*
23496523 AAAAAAATTATTGTTGTTGCATGGTGCTTGGATTATATTAATACT
1 AAAAAAATTATTGTTGTTGCATGGTGCTTGGATTATATTAAAACT
23496568 AAAAAAATTATTGTTGTTGCATGGTGCTTGGATTATATTAAAACT
1 AAAAAAATTATTGTTGTTGCATGGTGCTTGGATTATATTAAAACT
23496613 A
1 A
23496614 TGAATAGCGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.41
Consensus pattern (45 bp):
AAAAAAATTATTGTTGTTGCATGGTGCTTGGATTATATTAAAACT
Found at i:23499483 original size:80 final size:79
Alignment explanation
Indices: 23499345--23499604 Score: 447
Period size: 80 Copynumber: 3.3 Consensus size: 79
23499335 CGGATGATAA
23499345 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAG-CCCGAAGGCATTTG
23499410 TGCGAGTTACTATAT
65 TGCGAGTTACTATAT
*
23499425 CCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCTGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCC-GAAGGCATTTG
23499490 TGCGAGTTACTATAT
65 TGCGAGTTACTATAT
*
23499505 CCGGGCTAA-TCCCGAAGGCATTTGTGCGAGTGACT-ATTCC-GGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGT
*
23499567 GCAAGTTACTATAT
66 GCGAGTTACTATAT
23499581 -CGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
23499605 AGCGAGTAGC
Statistics
Matches: 174, Mismatches: 4, Indels: 8
0.94 0.02 0.04
Matches are distributed among these distances:
75 8 0.05
76 40 0.23
77 10 0.06
78 5 0.03
79 27 0.16
80 84 0.48
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGT
GCGAGTTACTATAT
Found at i:23499532 original size:39 final size:40
Alignment explanation
Indices: 23499345--23499637 Score: 390
Period size: 40 Copynumber: 7.5 Consensus size: 40
23499335 CGGATGATAA
* *
23499345 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
23499385 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
23499425 CCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
23499465 CCGGGCTAAG-CCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCC-GAAGGCATTTGTGCGAGTTACTATAT
*
23499505 CCGGGCTAA-TCCCGAAGGCATTTGTGCGAGTGACTAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
23499543 CC-GGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
23499581 -CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
23499620 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
23499638 TACTTGGTTT
Statistics
Matches: 226, Mismatches: 16, Indels: 23
0.85 0.06 0.09
Matches are distributed among these distances:
37 32 0.14
38 13 0.06
39 65 0.29
40 114 0.50
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:23507496 original size:40 final size:40
Alignment explanation
Indices: 23507441--23507738 Score: 401
Period size: 40 Copynumber: 7.5 Consensus size: 40
23507431 CGGATGATAA
*
23507441 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATT
* *
23507481 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA-ATT
*
23507522 -CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATT
* * * *
23507561 CTGAGCTAAGCCCCGAAGGCATTTGTGCGAGTTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-T
23507601 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATT
* *
23507641 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-T
*
23507681 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTAAT-T
*
23507721 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
23507739 TACTTGGTTT
Statistics
Matches: 232, Mismatches: 20, Indels: 13
0.88 0.08 0.05
Matches are distributed among these distances:
39 23 0.10
40 204 0.88
41 5 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATT
Found at i:23507575 original size:80 final size:80
Alignment explanation
Indices: 23507441--23507705 Score: 494
Period size: 80 Copynumber: 3.3 Consensus size: 80
23507431 CGGATGATAA
23507441 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCCGAAGGCATTTG
23507506 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
* * *
23507521 TCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGAGCTAAGCCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCCGAAGGCATTTG
23507586 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
*
23507601 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCCGAAGGCATTTG
23507666 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
23507681 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
23507706 AGCGAGTAGC
Statistics
Matches: 178, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 178 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCCGAAGGCATTTG
TGCGAGTTACTATAT
Found at i:23512369 original size:26 final size:25
Alignment explanation
Indices: 23512311--23512383 Score: 65
Period size: 26 Copynumber: 2.8 Consensus size: 25
23512301 TATTTTCTTG
* *
23512311 AAATTTTATCAAGGGCAAAATCATCA
1 AAATTTTGT-AAGGGTAAAATCATCA
* * *
23512337 AATTTTTGCTAAGGGTAAAATCGTTA
1 AAATTTTG-TAAGGGTAAAATCATCA
*
23512363 AAATTTTGTTAGGGATAAAAT
1 AAATTTTGTAAGGG-TAAAAT
23512384 AAGGATAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
25 5 0.13
26 32 0.84
27 1 0.03
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.34
Consensus pattern (25 bp):
AAATTTTGTAAGGGTAAAATCATCA
Found at i:23520128 original size:37 final size:37
Alignment explanation
Indices: 23520078--23520156 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
23520068 TTATTACGAA
* * *
23520078 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
23520115 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
23520152 GTCTT
1 GTCTT
23520157 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:23520605 original size:51 final size:47
Alignment explanation
Indices: 23520275--23520726 Score: 643
Period size: 47 Copynumber: 9.4 Consensus size: 47
23520265 CCTCTCGGGA
* * * * * * * *
23520275 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23520322 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23520369 CTTATCACATATATACACTTTCACATTCATCGCATCGTCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23520416 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23520463 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23520510 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23520557 CTTATTACATATATACATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATAC----ACTTTCACATTCATCACATCGGCCATTAGGC
23520608 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
23520659 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23520708 CTTATTACACATATACACT
1 CTTATCACATATATACACT
23520727 CTCTTGGCTG
Statistics
Matches: 371, Mismatches: 26, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
47 236 0.64
49 51 0.14
51 76 0.20
53 4 0.01
55 4 0.01
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23523964 original size:40 final size:40
Alignment explanation
Indices: 23523919--23524194 Score: 261
Period size: 40 Copynumber: 6.9 Consensus size: 40
23523909 CGAATACACG
* * * * *
23523919 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** * *
23523959 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* **
23523999 TCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
23524039 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
**
23524079 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * ** * * **
23524119 GTAACTCGCACCAATGC-CTTCGGGTCTTAGTCCGGATATGG
1 -TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA-CA
* *
23524160 TCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-TAGCATGAATGCTCTTCGGGACTTAGCCCGGA
23524195 CATCATTCAA
Statistics
Matches: 198, Mismatches: 35, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
40 182 0.92
41 16 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:23524140 original size:120 final size:121
Alignment explanation
Indices: 23523919--23524196 Score: 303
Period size: 120 Copynumber: 2.3 Consensus size: 121
23523909 CGAATACACG
* * * * *
23523919 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGACACAACACCAGCACGAATGCTCTTCGGGA
* * *
23523984 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATA-CA
66 CTTAGCACGGATATATAACTAGCACCAATGCTCTTCGAAACTTAGCCCGGATATCA
* * * *
23524039 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGACACAACACCAGCACGAATGCTCTTCGGGA
* * * *** * **
23524104 CTTAGCCCGGATTTAGTAACTCGCACCAATGC-CTTCGGGTCTTAGTCCGGATATGG
66 CTTAGCACGGATATA-TAACTAGCACCAATGCTCTTCGAAACTTAGCCCGGATATCA
* *
23524160 TCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGACA
1 TCAC-TAGCATGAATGCTCTTCGGGACTTAGCCCGGACA
23524197 TCATTCAAAT
Statistics
Matches: 131, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
120 105 0.80
121 21 0.16
122 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (121 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGACACAACACCAGCACGAATGCTCTTCGGGA
CTTAGCACGGATATATAACTAGCACCAATGCTCTTCGAAACTTAGCCCGGATATCA
Found at i:23524543 original size:29 final size:29
Alignment explanation
Indices: 23524504--23524582 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
23524494 CTTAATAATC
*
23524504 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
23524534 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
23524563 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
23524583 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:23524625 original size:43 final size:43
Alignment explanation
Indices: 23524564--23524666 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
23524554 TGCATTTCAA
23524564 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
23524607 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
23524650 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
23524667 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:23526568 original size:37 final size:37
Alignment explanation
Indices: 23526518--23526596 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
23526508 TTATTACGAA
* * *
23526518 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
23526555 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
23526592 GTCTT
1 GTCTT
23526597 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:23526985 original size:49 final size:47
Alignment explanation
Indices: 23526715--23527021 Score: 389
Period size: 47 Copynumber: 6.4 Consensus size: 47
23526705 CCTTTCGGGA
* * * * * ** * *
23526715 CTTATCACATTTATGCACTTTCACATCCATTACGTTAGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
23526762 CCTGTCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23526809 CTTATCACATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23526856 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23526903 CTTATTACATATATACATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATAC----ACTTTCACATTCATCACATCGGCCATTAGGC
23526954 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23527003 CTTATTACACATATACACT
1 CTTATCACATATATACACT
23527022 CCCTTGGCTG
Statistics
Matches: 229, Mismatches: 25, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
47 143 0.62
49 41 0.18
51 41 0.18
53 4 0.02
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23530260 original size:40 final size:40
Alignment explanation
Indices: 23530215--23530490 Score: 261
Period size: 40 Copynumber: 6.9 Consensus size: 40
23530205 CGAATACACG
* * * * *
23530215 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** * *
23530255 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* **
23530295 TCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
23530335 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
**
23530375 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * ** * * **
23530415 GTAACTCGCACCAATGC-CTTCGGGTCTTAGTCCGGATATGG
1 -TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA-CA
* *
23530456 TCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-TAGCATGAATGCTCTTCGGGACTTAGCCCGGA
23530491 CATCATTCAA
Statistics
Matches: 198, Mismatches: 35, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
40 182 0.92
41 16 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:23530436 original size:120 final size:121
Alignment explanation
Indices: 23530215--23530492 Score: 303
Period size: 120 Copynumber: 2.3 Consensus size: 121
23530205 CGAATACACG
* * * * *
23530215 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATAACACCAGCACGAATGCTCTTCGGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGACACAACACCAGCACGAATGCTCTTCGGGA
* * *
23530280 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATA-CA
66 CTTAGCACGGATATATAACTAGCACCAATGCTCTTCGAAACTTAGCCCGGATATCA
* * * *
23530335 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGACACAACACCAGCACGAATGCTCTTCGGGA
* * * *** * **
23530400 CTTAGCCCGGATTTAGTAACTCGCACCAATGC-CTTCGGGTCTTAGTCCGGATATGG
66 CTTAGCACGGATATA-TAACTAGCACCAATGCTCTTCGAAACTTAGCCCGGATATCA
* *
23530456 TCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGACA
1 TCAC-TAGCATGAATGCTCTTCGGGACTTAGCCCGGACA
23530493 TCATTCAAAT
Statistics
Matches: 131, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
120 105 0.80
121 21 0.16
122 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (121 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGACACAACACCAGCACGAATGCTCTTCGGGA
CTTAGCACGGATATATAACTAGCACCAATGCTCTTCGAAACTTAGCCCGGATATCA
Found at i:23530839 original size:29 final size:29
Alignment explanation
Indices: 23530800--23530878 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
23530790 CTTAATAATC
*
23530800 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
23530830 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
23530859 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
23530879 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:23530921 original size:43 final size:43
Alignment explanation
Indices: 23530860--23530962 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
23530850 TGCATTTCAA
23530860 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
23530903 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
23530946 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
23530963 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:23532865 original size:37 final size:37
Alignment explanation
Indices: 23532815--23532893 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
23532805 TTATTACGAA
* * *
23532815 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
23532852 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
23532889 GTCTT
1 GTCTT
23532894 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:23533282 original size:49 final size:47
Alignment explanation
Indices: 23533012--23533318 Score: 389
Period size: 47 Copynumber: 6.4 Consensus size: 47
23533002 CCTTTCGGGA
* * * * * ** * *
23533012 CTTATCACATTTATGCACTTTCACATCCATTACGTTAGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
23533059 CCTGTCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23533106 CTTATCACATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23533153 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23533200 CTTATTACATATATACATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATAC----ACTTTCACATTCATCACATCGGCCATTAGGC
23533251 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23533300 CTTATTACACATATACACT
1 CTTATCACATATATACACT
23533319 CCCTTGGCTG
Statistics
Matches: 229, Mismatches: 25, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
47 143 0.62
49 41 0.18
51 41 0.18
53 4 0.02
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23540669 original size:13 final size:13
Alignment explanation
Indices: 23540651--23540675 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23540641 AACGAAGTAG
23540651 AACACGGCCATGA
1 AACACGGCCATGA
23540664 AACACGGCCATG
1 AACACGGCCATG
23540676 TACATCGACA
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:0.36, C:0.32, G:0.24, T:0.08
Consensus pattern (13 bp):
AACACGGCCATGA
Found at i:23541135 original size:29 final size:30
Alignment explanation
Indices: 23541102--23541165 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
23541092 TTTTACACAA
*
23541102 TTATTACATT-ATTATTAATATTA-TTATTC
1 TTATTACATTCATTA-TAATACTATTTATTC
*
23541131 TTATT-CATTCATTATATTACTATTTATTC
1 TTATTACATTCATTATAATACTATTTATTC
23541160 TTATTA
1 TTATTA
23541166 TTTTTCTATC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 10 0.33
29 20 0.67
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (30 bp):
TTATTACATTCATTATAATACTATTTATTC
Found at i:23541167 original size:19 final size:20
Alignment explanation
Indices: 23541121--23541167 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
23541111 TATTATTAAT
23541121 ATTATTATTCTTATTCATTC
1 ATTATTATTCTTATTCATTC
*
23541141 ATTA-TATTAC-TATTTATTC
1 ATTATTATT-CTTATTCATTC
23541160 -TTATTATT
1 ATTATTATT
23541168 TTTCTATCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 3 0.12
19 16 0.67
20 5 0.21
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTATTATTCTTATTCATTC
Found at i:23542757 original size:25 final size:25
Alignment explanation
Indices: 23542684--23542767 Score: 70
Period size: 26 Copynumber: 3.4 Consensus size: 25
23542674 GAGTTTTTAT
23542684 TTTTTATTTGTATTTTCACTTT--TA-
1 TTTTTATTT-TATTTTCA-TTTAATAC
* *
23542708 TCTTTA-TTTATCTTC-TTTAAGTAC
1 TTTTTATTTTATTTTCATTTAA-TAC
23542732 TTTTTATTTTATTTTCATTTAATAC
1 TTTTTATTTTATTTTCATTTAATAC
*
23542757 TATTTCATTTT
1 T-TTTTATTTT
23542768 TAGGTTTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
20 3 0.06
22 6 0.12
23 4 0.08
24 10 0.21
25 12 0.25
26 13 0.27
ACGTcount: A:0.20, C:0.11, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTTATTTTATTTTCATTTAATAC
Found at i:23553384 original size:34 final size:34
Alignment explanation
Indices: 23553341--23553409 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
23553331 ATTGCTTAGC
23553341 TATGTTTTATTTTTAATAGATAGCCTATGTTATT
1 TATGTTTTATTTTTAATAGATAGCCTATGTTATT
23553375 TATGTTTTATTTTTAATAGATAGCCTATGTTATT
1 TATGTTTTATTTTTAATAGATAGCCTATGTTATT
23553409 T
1 T
23553410 GACTTGTTCT
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:0.26, C:0.06, G:0.12, T:0.57
Consensus pattern (34 bp):
TATGTTTTATTTTTAATAGATAGCCTATGTTATT
Found at i:23570886 original size:18 final size:17
Alignment explanation
Indices: 23570859--23570893 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
23570849 CTTCCACGAA
23570859 GATATTTCAGAAATACT
1 GATATTTCAGAAATACT
23570876 GATACTTTCAGAAATACT
1 GATA-TTTCAGAAATACT
23570894 TTATCACCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (17 bp):
GATATTTCAGAAATACT
Found at i:23578202 original size:30 final size:31
Alignment explanation
Indices: 23578166--23578226 Score: 115
Period size: 30 Copynumber: 2.0 Consensus size: 31
23578156 TCTTCGGGTG
23578166 TACATGATAACTCATC-AATACCCTGATAGT
1 TACATGATAACTCATCAAATACCCTGATAGT
23578196 TACATGATAACTCATCAAATACCCTGATAGT
1 TACATGATAACTCATCAAATACCCTGATAGT
23578227 ATTCTCAGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 16 0.53
31 14 0.47
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.30
Consensus pattern (31 bp):
TACATGATAACTCATCAAATACCCTGATAGT
Found at i:23583946 original size:31 final size:31
Alignment explanation
Indices: 23583908--23583966 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
23583898 GCATGATATC
23583908 GGACTTAAGTAAAATTTGATATTGTTCCCTA
1 GGACTTAAGTAAAATTTGATATTGTTCCCTA
23583939 GGACTTAAGTAAAATTTGATATTGTTCC
1 GGACTTAAGTAAAATTTGATATTGTTCC
23583967 TTAGTTTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (31 bp):
GGACTTAAGTAAAATTTGATATTGTTCCCTA
Found at i:23585559 original size:22 final size:23
Alignment explanation
Indices: 23585533--23585582 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
23585523 TTTTTAAAAC
*
23585533 TTTAAATC-TTGTCTAAAAATAT
1 TTTAAATCATTGTATAAAAATAT
* *
23585555 TTT-AATCATTTTATAAAAATGT
1 TTTAAATCATTGTATAAAAATAT
23585577 TTTAAA
1 TTTAAA
23585583 CTTTCAATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.17
22 17 0.74
23 2 0.09
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (23 bp):
TTTAAATCATTGTATAAAAATAT
Found at i:23587061 original size:47 final size:47
Alignment explanation
Indices: 23587007--23587100 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
23586997 AAAATAAGTA
23587007 AAATCAATCCCTAAACATGTAGTATATTCACATACAACCAATATACC
1 AAATCAATCCCTAAACATGTAGTATATTCACATACAACCAATATACC
23587054 AAATCAATCCCTAAACATGTAGTATATTCACATACAACCAATATACC
1 AAATCAATCCCTAAACATGTAGTATATTCACATACAACCAATATACC
23587101 CTTAGGCATC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.45, C:0.26, G:0.04, T:0.26
Consensus pattern (47 bp):
AAATCAATCCCTAAACATGTAGTATATTCACATACAACCAATATACC
Found at i:23587544 original size:25 final size:25
Alignment explanation
Indices: 23587515--23587587 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
23587505 GGAGCTCTTC
*
23587515 CGAGCCATATAACGGGAAGCTCATG
1 CGAGCCATATAACGAGAAGCTCATG
* ** *
23587540 TGAGCTGTATATCGAGAAGCTCATG
1 CGAGCCATATAACGAGAAGCTCATG
* *
23587565 CGAGCCATTTATCGAGAAGCTCA
1 CGAGCCATATAACGAGAAGCTCA
23587588 AGAGAGCTAT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (25 bp):
CGAGCCATATAACGAGAAGCTCATG
Found at i:23587594 original size:25 final size:25
Alignment explanation
Indices: 23587550--23587646 Score: 113
Period size: 25 Copynumber: 3.9 Consensus size: 25
23587540 TGAGCTGTAT
* * *
23587550 ATCGAGAAGCTCATGCGAGCCATTT
1 ATCGAGAAGCTCAAGAGAGCCATTA
*
23587575 ATCGAGAAGCTCAAGAGAGCTATTA
1 ATCGAGAAGCTCAAGAGAGCCATTA
* * *
23587600 ATTGGGAAGCTCAAGAGAGCTATTA
1 ATCGAGAAGCTCAAGAGAGCCATTA
* *
23587625 ATCGAGAAACTCATGAGAGCCA
1 ATCGAGAAGCTCAAGAGAGCCA
23587647 AGTATTAGGA
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 61 1.00
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (25 bp):
ATCGAGAAGCTCAAGAGAGCCATTA
Found at i:23587595 original size:50 final size:50
Alignment explanation
Indices: 23587515--23587644 Score: 127
Period size: 50 Copynumber: 2.6 Consensus size: 50
23587505 GGAGCTCTTC
* * * * * *
23587515 CGAGCCATATAACGGGAAGCTCATGTGAGCT-GTATATCGAGAAGCTCATG
1 CGAGCCATTTATCGAGAAGCTCATGAGAGCTATTA-ATCGAGAAGCTCAAG
* * *
23587565 CGAGCCATTTATCGAGAAGCTCAAGAGAGCTATTAATTGGGAAGCTCAAG
1 CGAGCCATTTATCGAGAAGCTCATGAGAGCTATTAATCGAGAAGCTCAAG
* * * *
23587615 AGAGCTATTAATCGAGAAACTCATGAGAGC
1 CGAGCCATTTATCGAGAAGCTCATGAGAGC
23587645 CAAGTATTAG
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
50 63 0.97
51 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (50 bp):
CGAGCCATTTATCGAGAAGCTCATGAGAGCTATTAATCGAGAAGCTCAAG
Found at i:23587658 original size:50 final size:50
Alignment explanation
Indices: 23587555--23587665 Score: 125
Period size: 50 Copynumber: 2.2 Consensus size: 50
23587545 TGTATATCGA
* * * * * * *
23587555 GAAGCTCATGCGAGCCATTTATCGAGAAGCTCAAGAGAGCTATTAATTGG
1 GAAGCTCAAGAGAGCCATTAATCGAGAAACTCAAGAGAGCAAGTAATTAG
* *
23587605 GAAGCTCAAGAGAGCTATTAATCGAGAAACTCATGAGAGCCAAGT-ATTAG
1 GAAGCTCAAGAGAGCCATTAATCGAGAAACTCAAGAGAG-CAAGTAATTAG
23587655 GAAGCTCAAGA
1 GAAGCTCAAGA
23587666 AAGTTGTGGT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 48 0.94
51 3 0.06
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (50 bp):
GAAGCTCAAGAGAGCCATTAATCGAGAAACTCAAGAGAGCAAGTAATTAG
Found at i:23592458 original size:3 final size:3
Alignment explanation
Indices: 23592450--23592735 Score: 124
Period size: 3 Copynumber: 94.7 Consensus size: 3
23592440 TGAATTTCTA
23592450 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TACT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* * * * * *
23592496 TAC TGT TAT GTACA TAT TAT T-T ATAC TA- TACT TAA TGT TAT TAT TAT
1 TAT TAT TAT -TA-T TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT
* * *
23592543 TAT TAT TAT TAT TATT TAT AAA TAT TAGT GTA- TAT T-T TAT T-T TAA
1 TAT TAT TAT TAT TA-T TAT TAT TAT TA-T -TAT TAT TAT TAT TAT TAT
*
23592588 TAT CAT TA- TAT TAT GT-T TACT T-T T-T TGAAT T-T CTA- TAT TAT
1 TAT TAT TAT TAT TAT -TAT TA-T TAT TAT T--AT TAT -TAT TAT TAT
* *
23592629 TAT TATT TAT TAT TA- TAT TAA T-T TAT GTACA TAT TAT T-T ATAT TA-
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TA-T TAT TAT TAT -TAT TAT
*
23592674 TACT TA- TAT TAT TAT TAT TAC T-T TAT TAT T-T ATAT TAT TAT TA-
1 TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
*
23592717 TATT TAT ATAA TAT TAT TA
1 TA-T TAT -TAT TAT TAT TA
23592736 ATAGGTACTT
Statistics
Matches: 217, Mismatches: 27, Indels: 78
0.67 0.08 0.24
Matches are distributed among these distances:
2 31 0.14
3 151 0.70
4 31 0.14
5 4 0.02
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:23592682 original size:20 final size:21
Alignment explanation
Indices: 23592659--23592735 Score: 85
Period size: 20 Copynumber: 3.9 Consensus size: 21
23592649 ATTTATGTAC
23592659 ATATTATTTATATTA-TACTT
1 ATATTATTTATATTATTACTT
23592679 ATATTA--T-TATTATTACTT
1 ATATTATTTATATTATTACTT
23592697 -TATTATTTATATTATTA-TT
1 ATATTATTTATATTATTACTT
*
23592716 ATATTTATATAATATTATTA
1 ATA-TTAT-TTATATTATTA
23592736 ATAGGTACTT
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
17 10 0.20
18 6 0.12
19 3 0.06
20 16 0.33
21 4 0.08
22 10 0.20
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (21 bp):
ATATTATTTATATTATTACTT
Found at i:23592689 original size:17 final size:15
Alignment explanation
Indices: 23592621--23592733 Score: 76
Period size: 16 Copynumber: 7.2 Consensus size: 15
23592611 TTTGAATTTC
23592621 TATATTATTATTAT-T
1 TATATTA-TATTATAT
23592636 TATTATTATATTA-AT
1 TA-TATTATATTATAT
23592651 T-TATGTACATATTAT-T
1 TATAT-T--ATATTATAT
23592667 TATATTATACTTATAT
1 TATATTATA-TTATAT
23592683 TATTATTATTACTT-TAT
1 TA-TATTA-TA-TTATAT
23592700 TAT-TTATATTATTAT
1 TATATTATATTA-TAT
*
23592715 TATATTTATATAATAT
1 TATA-TTATATTATAT
23592731 TAT
1 TAT
23592734 TAATAGGTAC
Statistics
Matches: 82, Mismatches: 1, Indels: 29
0.73 0.01 0.26
Matches are distributed among these distances:
13 5 0.06
14 6 0.07
15 22 0.27
16 24 0.29
17 20 0.24
18 5 0.06
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (15 bp):
TATATTATATTATAT
Found at i:23592689 original size:26 final size:27
Alignment explanation
Indices: 23592660--23592717 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
23592650 TTTATGTACA
23592660 TATTATTTA-TATTA-TACTTATATTAT
1 TATTATTTACT-TTATTACTTATATTAT
*
23592686 TATTA-TTACTTTATTATTTATATTAT
1 TATTATTTACTTTATTACTTATATTAT
23592712 TATTAT
1 TATTAT
23592718 ATTTATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 6 0.21
26 22 0.79
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (27 bp):
TATTATTTACTTTATTACTTATATTAT
Found at i:23592689 original size:173 final size:169
Alignment explanation
Indices: 23592402--23592717 Score: 430
Period size: 173 Copynumber: 1.8 Consensus size: 169
23592392 ATTTTTAAAT
* *
23592402 TATTTTATTTTAATATTATTATATTATGTTTAGTTTTTTGAATTTCTATATTATTATTATTATTA
1 TATTTTATTTTAATATCATTATATTATGTTTACTTTTTTGAATTTCTATATTATTATTATTATTA
* *
23592467 TTATTATTATTATTATTACTTATTATTATTACTGTTATGTACATATTATT-TATACTATACTTAA
66 TTATTATTAATATTATTACATATTATTATTACTGTTATGTACATATTATTAT-TACTATA-TT-A
23592531 TGTTATTATTATTATTATTATTATTATTTATAAATATTAGTGTA
128 T-TTA-TATTATTATTATTATTATTATTTATAAATATTAGTGTA
23592575 TATTTTATTTTAATATCATTATATTATGTTTACTTTTTTGAATTTCTATATTATTATTATTTATT
1 TATTTTATTTTAATATCATTATATTATGTTTACTTTTTTGAATTTCTATATTATTATTA-TTATT
* *
23592640 ATTA-TATTAAT-TTATGTACATATTATT-TATA-T-TATACT-TATATTATTATTATTACTTTA
65 ATTATTATTAATATTAT-TACATATTATTAT-TACTGT-TA-TGTACA-TATTATTATTACTATA
23592699 TTATTTATATTATTATTAT
125 TTATTTATATTATTATTAT
23592718 ATTTATATAA
Statistics
Matches: 130, Mismatches: 6, Indels: 18
0.84 0.04 0.12
Matches are distributed among these distances:
169 12 0.09
170 3 0.02
171 3 0.02
172 13 0.10
173 89 0.68
174 10 0.08
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (169 bp):
TATTTTATTTTAATATCATTATATTATGTTTACTTTTTTGAATTTCTATATTATTATTATTATTA
TTATTATTAATATTATTACATATTATTATTACTGTTATGTACATATTATTATTACTATATTATTT
ATATTATTATTATTATTATTATTTATAAATATTAGTGTA
Found at i:23605082 original size:72 final size:72
Alignment explanation
Indices: 23604996--23605494 Score: 538
Period size: 72 Copynumber: 6.8 Consensus size: 72
23604986 GTATTTTGAT
* *
23604996 ATTTTTATTTCTATTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGT
1 ATTTTAATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
23605061 TGAGGTA
66 TGAGGTA
* * *
23605068 ATTTTTATTTCTATTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACATGT
1 ATTTTAATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
23605133 TGAGGTA
66 TGAGGTA
* * * * *
23605140 ATTTCAATTTCTGTTTTCAAAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTCAAGACATGC
1 ATTTTAATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
23605205 TGAGGT-
66 TGAGGTA
** * ** *
23605211 ATTTTCAATTTCTATTTTTCAAAAAAAAAACGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
1 ATTTT-AATTTCTA-TTTTC----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
*
23605276 ACACGCTGAGGTA
60 ACACGTTGAGGTA
* * * *
23605289 ATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGTAATGAGTTGAACCTCAAGACACGT
1 ATTTTAATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
23605354 TGAGGT-
66 TGAGGTA
* * * ** *
23605360 ATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCAC
1 ATTTT-AATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---AC
* *
23605424 ATGCTGAGG-A
62 ACGTTGAGGTA
* * **
23605434 ATTTTCAATTTCTATCTTTCAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
1 ATTTT-AATTTCTAT-TTTC---AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC
23605495 GGGGCACGCT
Statistics
Matches: 368, Mismatches: 43, Indels: 26
0.84 0.10 0.06
Matches are distributed among these distances:
71 9 0.02
72 230 0.62
73 5 0.01
74 22 0.06
75 4 0.01
76 5 0.01
77 52 0.14
78 41 0.11
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (72 bp):
ATTTTAATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
TGAGGTA
Found at i:23605314 original size:149 final size:145
Alignment explanation
Indices: 23605002--23605759 Score: 758
Period size: 149 Copynumber: 5.1 Consensus size: 145
23604992 TGATATTTTT
* * *
23605002 ATTTCTATTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
1 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
* * * ** *
23605067 AATTTT-TATTTCTA-TTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACA
66 -ATTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
23605130 TGTTGAGGTAATTTCA
130 TGCTGAGGTAATTTCA
* *
23605146 ATTTCTGTTTTCAAAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGT
1 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
* *
23605211 ATTTTCAATTTCTATTTTTCAAAAAAAAAACGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
66 ATTTTCAATTTCTATTTTTC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
23605276 ACACGCTGAGGTAATTTCA
127 ACATGCTGAGGTAATTTCA
* * *
23605295 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGTAATGAGTTGAACCTCAAGACACGTTGAGGT
1 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
23605360 ATTTTCAA-TT-TATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTC
66 ATTTTCAATTTCTAT-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---
23605422 ACATGCTGAGG-AATTTTCA
127 ACATGCTGAGGTAA-TTTCA
* * * ** ** *
23605441 ATTTCTATCTTTCAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTG
1 ATTTCTGT-TTTC---AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTG
** * * **
23605506 AGGTATTGGCAATTTTTGTTTCTTAATTTATGTTTCAAAATTCAACTCATATTGCAAGAAATGAG
62 AGGTATTTTCAA------TTTC-T-A--T-T-TTTCAAAAATCAACTCATATTGCGAGAGGTGAG
* *
23605571 TTGAGCCTCAAGACATGCTGAGGTATTTTCA
115 TTGAGCCTCAGGACATGCTGAGGTAATTTCA
* * ** ** * *
23605602 ATTTTTGTCTTTCAAAAAAATCAACTC--ATTGCGAGAGGTGAGTTGAGCCTCTGGACGCACTGA
1 ATTTCTGT-TTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGA
* * * *
23605665 GGTAATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCGTCAGGG
63 GGTATTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* *
23605730 CACGCTGAGGTATTTTCA
128 CATGCTGAGGTAATTTCA
*
23605748 ATTTTTGTTTTC
1 ATTTCTGTTTTC
23605760 CAATTTCTGC
Statistics
Matches: 522, Mismatches: 62, Indels: 59
0.81 0.10 0.09
Matches are distributed among these distances:
143 7 0.01
144 103 0.20
145 11 0.02
146 86 0.16
147 8 0.02
148 8 0.02
149 119 0.23
150 49 0.09
151 1 0.00
152 4 0.01
157 2 0.00
158 39 0.07
159 1 0.00
160 15 0.03
161 27 0.05
162 3 0.01
163 38 0.07
164 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (145 bp):
ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
ATTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAT
GCTGAGGTAATTTCA
Found at i:23605410 original size:221 final size:218
Alignment explanation
Indices: 23605014--23605759 Score: 881
Period size: 221 Copynumber: 3.3 Consensus size: 218
23605004 TTCTATTTTC
* * ** * * **
23605014 AAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTTTATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * *
23605079 TATTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACATGTTGAGGTAATTT
66 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGTTGAGGTATTTT
* * ** *
23605144 CAATTTCTGTTTTCAAAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAG
131 CAATTTATGTTTTCAAAAATCAACTCA-ATTGCGAGAGGTGAGTTGAGCCTC-GGACATGCTGAG
23605209 GTATTTTCAATTTCTATTTTTCAAAA
194 GTATTTTCAATTTCTATTTTTC-AAA
* *
23605235 AAAAAACGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * *
23605300 TGTTTTCAAAATTCAACTCATATTGCGAGTAATGAGTTGAACCTCAAGACACGTTGAGGTATTTT
66 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGTTGAGGTATTTT
23605365 CAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTG
131 CAATTTATGTTTTCAAAAATCAACTCA-ATTGCGAGAGGTGAGTTGAGCCTCGG---ACATGCTG
* *
23605430 AGGAATTTTCAATTTCTATCTTTCAAA
192 AGGTATTTTCAATTTCTATTTTTCAAA
* * *
23605457 AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTGGCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG---T---AA----
* *
23605522 TGTTTCTTAATTTATG-TTTCAAAATTCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACA
56 --TTTC--AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
* *
23605586 TGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTC-ATTGCGAGAGGTGAGTTGAGC
117 TGTTGAGGTATTTTCAATTTATGT-TTTC--AAAAATCAACTCAATTGCGAGAGGTGAGTTGAGC
*** * *
23605650 CTCTGGACGCACTGAGGTAATTTCAATTTCTGTTTTTC---
179 CTC-GGACATGCTGAGGTATTTTCAATTTCTATTTTTCAAA
* * * *
23605688 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCGTCAGGGCACGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
23605753 TGTTTTC
66 TGTTTTC
23605760 CAATTTCTGC
Statistics
Matches: 455, Mismatches: 48, Indels: 47
0.83 0.09 0.09
Matches are distributed among these distances:
217 7 0.02
218 4 0.01
219 4 0.01
220 1 0.00
221 161 0.35
222 50 0.11
223 30 0.07
225 2 0.00
228 3 0.01
231 49 0.11
234 29 0.06
235 66 0.15
236 35 0.08
237 2 0.00
238 12 0.03
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (218 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGTTGAGGTATTTT
CAATTTATGTTTTCAAAAATCAACTCAATTGCGAGAGGTGAGTTGAGCCTCGGACATGCTGAGGT
ATTTTCAATTTCTATTTTTCAAA
Found at i:23605665 original size:73 final size:71
Alignment explanation
Indices: 23605530--23605759 Score: 257
Period size: 73 Copynumber: 3.2 Consensus size: 71
23605520 TTTGTTTCTT
* * * ** * *
23605530 AATTTATG-TTTCAAAATTCAACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACATGCTGAGG
1 AATTTCTGTTTTCAAAAATCAACTCA-ATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
23605594 TATTTTC
65 TATTTTC
* * * *
23605601 AATTTTTGTCTTTCAAAAAAATCAACTC-ATTGCGAGAGGTGAGTTGAGCCTCTGGACGCACTGA
1 AATTTCTGT-TTTC--AAAAATCAACTCAATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
*
23605665 GGTAATTTC
63 GGTATTTTC
* *
23605674 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCGTCAGGGCACGCTGAG
1 AATTTCTG-TTTTCAAAAATCAACTCA-ATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
23605739 GTATTTTC
64 GTATTTTC
*
23605747 AATTTTTGTTTTC
1 AATTTCTGTTTTC
23605760 CAATTTCTGC
Statistics
Matches: 133, Mismatches: 19, Indels: 13
0.81 0.12 0.08
Matches are distributed among these distances:
71 19 0.14
72 5 0.04
73 97 0.73
74 1 0.01
75 11 0.08
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (71 bp):
AATTTCTGTTTTCAAAAATCAACTCAATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
ATTTTC
Found at i:23605962 original size:178 final size:175
Alignment explanation
Indices: 23605618--23605947 Score: 441
Period size: 178 Copynumber: 1.9 Consensus size: 175
23605608 GTCTTTCAAA
* * * *
23605618 AAAATCAACTCATTGCGAGAGGTGAGTTGAGCCTCTGGACGCACTGAGGTAATTTCAATTTCTGT
1 AAAATCAACTCATTGCGAGAAGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAATTCCTGT
* * *
23605683 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCGTCAGGGCACGCTGAGGTATTTTCA
66 TTGTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGGCACGCTGAGGTATTTTCA
** * *
23605748 ATTTTTGTTTTCCAATTTCTGCCTTTCAAAAAAAAAAGAAAGAAAG
131 AAGTATGTTTTCCAATTTATGCCTTTC-AAAAAAAAAGAAAGAAAG
*
23605794 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTCCT
1 AAAATCAACTC--ATTGCGAGAAGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAATTCCT
*
23605859 GTTTGTC-AAAATCAACTCATATTGTGAGAGGTGAGCTGAGCCTC-GGGTCACATG-TCGAGGTA
64 GTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGG-CAC--GCT-GAGGTA
*
23605921 TTTTCAAAGTATGCTTTTTCAATTTAT
125 TTTTCAAAGTATG-TTTTCCAATTTAT
23605948 TTTTGTCAAA
Statistics
Matches: 133, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
176 14 0.11
177 37 0.28
178 54 0.41
179 17 0.13
180 11 0.08
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (175 bp):
AAAATCAACTCATTGCGAGAAGTGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAATTCCTGT
TTGTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGGCACGCTGAGGTATTTTCA
AAGTATGTTTTCCAATTTATGCCTTTCAAAAAAAAAGAAAGAAAG
Found at i:23607468 original size:3 final size:3
Alignment explanation
Indices: 23607462--23607750 Score: 109
Period size: 3 Copynumber: 93.3 Consensus size: 3
23607452 TTAATTTCTA
* * *
23607462 TAT TAT TAT TAT TAT TGT TACT TAT TAAT TAT TAC TGT TAT GTAT ATAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT T-AT TAT TAT TAT TAT -TAT -TAT
* * * *
23607511 TAT T-T ATACT GTACT TAA TAT TAT TAT TAT CAT CAT TAT TAT TAG TAT
1 TAT TAT -TA-T -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
23607559 TAT TAT TAT TAT TAT TA- TATT TAC TAT TAT TATT TAT AAA TAT TAGT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TA-T
* *
23607606 GTA- TAT T-T TAA TAT CAT TA- TAT TAT GT-T TACT T-T T-T TGAAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA-T TAT TAT T--AT
* * *
23607647 T-T CTA- TAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * * *
23607692 TAT GTACA TAT TAT T-T ATAC TA- TACT TAA TAT TAT TAT TAT TA- CAT
1 TAT -TA-T TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
*
23607738 TAC TAT TAT TAT T
1 TAT TAT TAT TAT T
23607751 TATAAATATT
Statistics
Matches: 216, Mismatches: 39, Indels: 62
0.68 0.12 0.20
Matches are distributed among these distances:
2 21 0.10
3 154 0.71
4 32 0.15
5 9 0.04
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:23607844 original size:18 final size:17
Alignment explanation
Indices: 23607823--23607864 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
23607813 TTTAACATTA
*
23607823 TTATATTTACTATTATAT
1 TTATATTT-CTAATATAT
*
23607841 TTATATATCTAATATAT
1 TTATATTTCTAATATAT
23607858 TT-TATTT
1 TTATATTT
23607865 TATTTTCCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 4 0.19
17 10 0.48
18 7 0.33
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATATTTCTAATATAT
Found at i:23607928 original size:3 final size:3
Alignment explanation
Indices: 23607922--23607952 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
23607912 CTATTATTGC
*
23607922 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
23607953 TATATTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:23610868 original size:38 final size:39
Alignment explanation
Indices: 23610818--23610907 Score: 110
Period size: 40 Copynumber: 2.3 Consensus size: 39
23610808 CCAACTCTGT
* * * *
23610818 CCAACCCGACACACC-ATGTGGGGATAAAATCGACCGAC
1 CCAACCCTACACACCAATATGGGGATAAAATCAACCCAC
* *
23610856 CCATCCCTACACACCAAATATGGGGATAAAATCAACCCAT
1 CCAACCCTACACACC-AATATGGGGATAAAATCAACCCAC
23610896 CCAACCCTACAC
1 CCAACCCTACAC
23610908 GCTAGAGAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 13 0.30
40 30 0.70
ACGTcount: A:0.37, C:0.37, G:0.13, T:0.13
Consensus pattern (39 bp):
CCAACCCTACACACCAATATGGGGATAAAATCAACCCAC
Found at i:23616487 original size:15 final size:16
Alignment explanation
Indices: 23616449--23616487 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
23616439 ACCTGAAAGA
*
23616449 AGAAACAAAGAAATTT
1 AGAAACAAAGAAAATT
23616465 AGAAACAAAGAAAATT
1 AGAAACAAAGAAAATT
23616481 A-AAACAA
1 AGAAACAA
23616488 CTAAAAGAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.69, C:0.08, G:0.10, T:0.13
Consensus pattern (16 bp):
AGAAACAAAGAAAATT
Found at i:23618629 original size:26 final size:23
Alignment explanation
Indices: 23618592--23618645 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
23618582 ATATATCACA
*
23618592 ATTAT-AACATTACATAATATAAAT
1 ATTATAAACATT--ATAAAATAAAT
23618616 ATTATAAACAATTATAAAATAAAT
1 ATTATAAAC-ATTATAAAATAAAT
23618640 A-TATAA
1 ATTATAA
23618646 TGTGTAAGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 5 0.19
24 16 0.59
25 3 0.11
26 3 0.11
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (23 bp):
ATTATAAACATTATAAAATAAAT
Found at i:23620640 original size:19 final size:20
Alignment explanation
Indices: 23620598--23620634 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23620588 TAACCAAATT
*
23620598 AAAATAAAAATAAAATAGAA
1 AAAATAAAAATAAAATACAA
23620618 AAAATAAAAA-AAAATAC
1 AAAATAAAAATAAAATAC
23620635 TCAAAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.14
Consensus pattern (20 bp):
AAAATAAAAATAAAATACAA
Found at i:23621856 original size:25 final size:26
Alignment explanation
Indices: 23621802--23621856 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
23621792 TAAACATTAA
*
23621802 ATTAATTTAATATTAAGATAATCACT
1 ATTAATTTAATATTAAGAAAATCACT
*
23621828 -TTAATATTAA-ATTAATAAAAT-ACT
1 ATTAAT-TTAATATTAAGAAAATCACT
23621852 ATTAA
1 ATTAA
23621857 GATAAGTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 3 0.12
25 18 0.72
26 4 0.16
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (26 bp):
ATTAATTTAATATTAAGAAAATCACT
Found at i:23625857 original size:16 final size:15
Alignment explanation
Indices: 23625824--23625856 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
23625814 CTTTTTCGTC
23625824 TTTCCTTTATTTTTT
1 TTTCCTTTATTTTTT
23625839 TTTCCTTT-TCTTTTT
1 TTTCCTTTAT-TTTTT
23625854 TTT
1 TTT
23625857 TGGGAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 1 0.06
15 16 0.94
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTCCTTTATTTTTT
Found at i:23629575 original size:49 final size:49
Alignment explanation
Indices: 23629503--23629677 Score: 269
Period size: 49 Copynumber: 3.5 Consensus size: 49
23629493 TGAGGTCACG
*
23629503 TGTGTAGTACTAAGTACAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
* * * * * *
23629552 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT-GGTCGCA
23629603 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
23629652 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
23629678 TGCGTACCAG
Statistics
Matches: 111, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
49 66 0.59
50 4 0.04
51 41 0.37
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
Found at i:23629671 original size:100 final size:100
Alignment explanation
Indices: 23629498--23629690 Score: 368
Period size: 100 Copynumber: 1.9 Consensus size: 100
23629488 TATTGTGAGG
23629498 TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
*
23629563 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
*
23629598 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
23629663 AAGTGCAGGCTACTATGCGTACCAGATA
66 AAGTGCAGGCTACTATGCGTACCAGATA
23629691 GCTTTGGCTA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 91 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
Found at i:23631971 original size:56 final size:53
Alignment explanation
Indices: 23631857--23632016 Score: 185
Period size: 54 Copynumber: 2.9 Consensus size: 53
23631847 CCATGGCAAG
* * ** *
23631857 AAGACCATATAGTGTAAGACTTAGTCTGGGACTATTGCACCATATGGGGAGGTG
1 AAGACCATATAGTGTAAGACCTAGTCTGGGACTA-TGCATCATATGGGGAAATA
*
23631911 AAGACCATATAGTGTTAGACCTAGTCATGGTGACTATGACATCATATGGGGAAATA
1 AAGACCATATAGTGTAAGACCTAGTC-TGG-GACTATG-CATCATATGGGGAAATA
* * * *
23631967 AAGACCACATAGTGTAAGACCTATTCTAGGACTATGGCATCATGTGGGGA
1 AAGACCATATAGTGTAAGACCTAGTCTGGGACTAT-GCATCATATGGGGA
23632017 TAAAAATAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
54 42 0.46
55 8 0.09
56 41 0.45
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (53 bp):
AAGACCATATAGTGTAAGACCTAGTCTGGGACTATGCATCATATGGGGAAATA
Found at i:23636643 original size:14 final size:13
Alignment explanation
Indices: 23636609--23636645 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 13
23636599 TAAATTACAA
23636609 ATATATTATAATT
1 ATATATTATAATT
23636622 AT-TA-TATAATT
1 ATATATTATAATT
23636633 ATGATATTATAAT
1 AT-ATATTATAAT
23636646 GTGCATTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 9 0.43
12 2 0.10
13 4 0.19
14 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (13 bp):
ATATATTATAATT
Found at i:23637588 original size:13 final size:13
Alignment explanation
Indices: 23637570--23637594 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23637560 ACTTAGGGAT
23637570 TTTTTATTTTTTA
1 TTTTTATTTTTTA
23637583 TTTTTATTTTTT
1 TTTTTATTTTTT
23637595 GTGGTGAGAA
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:23651572 original size:16 final size:15
Alignment explanation
Indices: 23651544--23651575 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
23651534 TTAATAGTAA
23651544 AAATTAATCTAAATT
1 AAATTAATCTAAATT
23651559 AAATTAACTCTAAATT
1 AAATTAA-TCTAAATT
23651575 A
1 A
23651576 TTATCCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATTAATCTAAATT
Found at i:23665513 original size:38 final size:39
Alignment explanation
Indices: 23665471--23665546 Score: 120
Period size: 38 Copynumber: 1.9 Consensus size: 39
23665461 GCAGGCCTAC
23665471 TGCTGGTATTATATCCGGG-TTAAATCCT-GCAGGCTTCG
1 TGCTGGTATTATATCCGGGTTTAAA-CCTAGCAGGCTTCG
23665509 TGCTGGTATTATATCCGGGTTTTAAACCTAGCAGGCTT
1 TGCTGGTATTATATCCGGG-TTTAAACCTAGCAGGCTT
23665547 AACGCCAGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
38 19 0.54
39 3 0.09
40 13 0.37
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (39 bp):
TGCTGGTATTATATCCGGGTTTAAACCTAGCAGGCTTCG
Found at i:23666789 original size:19 final size:19
Alignment explanation
Indices: 23666741--23666791 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
23666731 CGGGCCGCGA
23666741 TGGGCCGAAA-GGGGCTATG
1 TGGGCC-AAATGGGGCTATG
*
23666760 TGGGCCCAATGGGGCTATG
1 TGGGCCAAATGGGGCTATG
23666779 TGGGCCAAATGGG
1 TGGGCCAAATGGG
23666792 CCTACGAGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 2 0.07
19 27 0.93
ACGTcount: A:0.20, C:0.18, G:0.45, T:0.18
Consensus pattern (19 bp):
TGGGCCAAATGGGGCTATG
Found at i:23667410 original size:27 final size:27
Alignment explanation
Indices: 23667380--23667448 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
23667370 TTTTTTGTAC
*
23667380 TACCGTTTTACCCTCGATTTACAAAAT
1 TACCATTTTACCCTCGATTTACAAAAT
*
23667407 TACCATTTTACCCTTGATTTACAAAAT
1 TACCATTTTACCCTCGATTTACAAAAT
23667434 TACCATTTTACCCTC
1 TACCATTTTACCCTC
23667449 AATTGTAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.04, T:0.39
Consensus pattern (27 bp):
TACCATTTTACCCTCGATTTACAAAAT
Found at i:23667514 original size:27 final size:27
Alignment explanation
Indices: 23667484--23667739 Score: 203
Period size: 27 Copynumber: 9.4 Consensus size: 27
23667474 TGTAGGATAG
23667484 AATTACCAAAATACCCTTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTGTAA
* *
23667511 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTGTAA
* *
23667538 AATTACCGAAATACCAC-TGGTTTGTGA
1 AATTACCAAAATACC-CTTGGTTTGTAA
* * ** *
23667565 AATTACCGACATACCCTTAATTTGTGA
1 AATTACCAAAATACCCTTGGTTTGTAA
* **
23667592 AATTACCGAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCTTGGTTTGTAA
* * **
23667619 AATTACCAAAATACCCCTGATTTAAAA
1 AATTACCAAAATACCCTTGGTTTGTAA
* ** *
23667646 AATTA-CAGAAATACTCTTGACCTTCTAAA
1 AATTACCA-AAATACCCTTG-GTTTGT-AA
* * **
23667675 AATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCA-AAATACCCTTGGTTTGTAA
* *
23667702 AATTACTAAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCTTGGTTTGTAA
*
23667729 ATTTACCAAAA
1 AATTACCAAAA
23667740 CACCTTTGTA
Statistics
Matches: 189, Mismatches: 34, Indels: 12
0.80 0.14 0.05
Matches are distributed among these distances:
26 3 0.02
27 161 0.85
28 7 0.04
29 18 0.10
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTGTAA
Found at i:23667649 original size:54 final size:54
Alignment explanation
Indices: 23667415--23667659 Score: 194
Period size: 54 Copynumber: 4.6 Consensus size: 54
23667405 ATTACCATTT
* * ** * **
23667415 TACCCTTGATTTACAAAATTACC-ATTTTACCCTCAA-TTGTAAAATTACTGAAA
1 TACCCCTGATTTATAAAATTACCGA-AATACCCTTAATTTGTAAAATTACCAAAA
** * * **
23667468 TACCCCTG-TAGGATAGAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCCTGAT-TTATAAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAA
* ** * * *
23667522 TACCCCT-AGTTTGTAAAATTACCGAAATACCAC-TGGTTTGTGAAATTACCGACA
1 TACCCCTGA-TTTATAAAATTACCGAAATACC-CTTAATTTGTAAAATTACCAAAA
* * * *
23667576 TACCCTTAATTTGTGAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAA
1 TACCCCTGATTTATAAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAA
* *
23667630 TACCCCTGATTTAAAAAATTACAGAAATAC
1 TACCCCTGATTTATAAAATTACCGAAATAC
23667660 TCTTGACCTT
Statistics
Matches: 151, Mismatches: 33, Indels: 15
0.76 0.17 0.08
Matches are distributed among these distances:
52 1 0.01
53 23 0.15
54 124 0.82
55 3 0.02
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (54 bp):
TACCCCTGATTTATAAAATTACCGAAATACCCTTAATTTGTAAAATTACCAAAA
Done.