Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 45 of 344
Found at i:14998259 original size:33 final size:33
Alignment explanation
Indices: 14998217--14998284 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
14998207 CCGGTGTCGG
14998217 ACACGGGTAAGGGGTGTTACAATCGTACTTTCT
1 ACACGGGTAAGGGGTGTTACAATCGTACTTTCT
14998250 ACACGGGTAAGGGGTGTTACAATCGTACTTTCT
1 ACACGGGTAAGGGGTGTTACAATCGTACTTTCT
14998283 AC
1 AC
14998285 TCTGAAGAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (33 bp):
ACACGGGTAAGGGGTGTTACAATCGTACTTTCT
Found at i:14999187 original size:19 final size:19
Alignment explanation
Indices: 14999163--14999200 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
14999153 TTTTAAAAAA
14999163 TTAAAA-AAATCAAAATTAT
1 TTAAAATAAAT-AAAATTAT
*
14999182 TTAAAATATATAAAATTAT
1 TTAAAATAAATAAAATTAT
14999201 AAAAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (19 bp):
TTAAAATAAATAAAATTAT
Found at i:14999205 original size:28 final size:27
Alignment explanation
Indices: 14999174--14999250 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 27
14999164 TAAAAAAATC
14999174 AAAATTATTTAAAATATATAAAATTATA
1 AAAATTATTTAAAATATATAAAATTA-A
* * * * *
14999202 AAAATATTTTTAATATTTTTAAATTTAA
1 AAAAT-TATTTAAAATATATAAAATTAA
*
14999230 AAAATTAATTAAATATATATA
1 AAAATTATTTAAA-ATATATA
14999251 TTTTTTGAAT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
27 5 0.14
28 16 0.43
29 16 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
AAAATTATTTAAAATATATAAAATTAA
Found at i:14999597 original size:71 final size:71
Alignment explanation
Indices: 14999502--14999646 Score: 247
Period size: 71 Copynumber: 2.0 Consensus size: 71
14999492 TTTGTCTAAA
* *
14999502 TTTTCTTTATAACTTTTTTATATGTTAAATATTAATTCAATTTTAAATAAATTATTTTTTTTATT
1 TTTTCTTTATAACTTTTTTATATGTTAAATATTAACTCAATTTTAAATAAATTA-TCTTTTTATT
14999567 TTAATAT
65 TTAATAT
*
14999574 TTTTCTTTATAA-TTTTTTATATGTTAAATATTAACTCGATTTTAAATAAATTATCTTTTTATTT
1 TTTTCTTTATAACTTTTTTATATGTTAAATATTAACTCAATTTTAAATAAATTATCTTTTTATTT
14999638 TAATAT
66 TAATAT
14999644 TTT
1 TTT
14999647 ACTTACTTGA
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
70 19 0.27
71 39 0.56
72 12 0.17
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (71 bp):
TTTTCTTTATAACTTTTTTATATGTTAAATATTAACTCAATTTTAAATAAATTATCTTTTTATTT
TAATAT
Found at i:15000005 original size:16 final size:16
Alignment explanation
Indices: 14999984--15000055 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
14999974 TTTTGTATTA
14999984 TTTTAATATTAAATAT
1 TTTTAATATTAAATAT
* *
15000000 TTTTAAAATTAAATAA
1 TTTTAATATTAAATAT
** *
15000016 CATTAATA-TAACTGAT
1 TTTTAATATTAAAT-AT
*
15000032 TTTAAATTAGTTAAATAT
1 TTTTAA-TA-TTAAATAT
15000050 TTTTAA
1 TTTTAA
15000056 AAGTATTTTT
Statistics
Matches: 40, Mismatches: 12, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
15 4 0.10
16 23 0.57
17 2 0.05
18 7 0.17
19 4 0.10
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (16 bp):
TTTTAATATTAAATAT
Found at i:15001810 original size:63 final size:63
Alignment explanation
Indices: 15001685--15001810 Score: 137
Period size: 63 Copynumber: 2.0 Consensus size: 63
15001675 ATGTGACAGT
* * ** **
15001685 TCGTGTAACTTACTGTTTGTGATTTAGGGTCACACGAGCTAGGGACACGAGCATGTGTCTAGG
1 TCGTGTAACTTACTGTTTGTGAATTAGGGTCACACGAGCCAGAAACACGAGCATGTCCCTAGG
* * * * *
15001748 TCGTGTAATTTACTGTTTGTGAATTAGTGTCACACGGGCCATAAACAC-AGGCGTGTCCCTAGG
1 TCGTGTAACTTACTGTTTGTGAATTAGGGTCACACGAGCCAGAAACACGA-GCATGTCCCTAGG
15001811 CCACGTGAGC
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
62 1 0.02
63 50 0.98
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (63 bp):
TCGTGTAACTTACTGTTTGTGAATTAGGGTCACACGAGCCAGAAACACGAGCATGTCCCTAGG
Found at i:15010686 original size:21 final size:21
Alignment explanation
Indices: 15010660--15010701 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
15010650 AAAATTTCAT
*
15010660 TAAAACCATGTCCATGAACAC
1 TAAAACCACGTCCATGAACAC
15010681 TAAAACCACGTCCATGAACAC
1 TAAAACCACGTCCATGAACAC
15010702 ACACTATCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.31, G:0.10, T:0.17
Consensus pattern (21 bp):
TAAAACCACGTCCATGAACAC
Found at i:15014740 original size:61 final size:62
Alignment explanation
Indices: 15014645--15014763 Score: 213
Period size: 61 Copynumber: 1.9 Consensus size: 62
15014635 GTGTGTCTAA
* *
15014645 GCCGTGTAACTCACTAACTTGTTTAACTAAGATTCAGGGTCAGACGGTTGAG-CACACAGGC
1 GCCGTGTAACTCACTAACTTGTTTAACTAAGATTCAGGGTCACACGGTCGAGTCACACAGGC
15014706 GCCGTGTAACTCACTAACTTGTTTAACTAAGATTCAGGGTCACACGGTCGAGTCACAC
1 GCCGTGTAACTCACTAACTTGTTTAACTAAGATTCAGGGTCACACGGTCGAGTCACAC
15014764 GCCTGTGTGC
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 50 0.91
62 5 0.09
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (62 bp):
GCCGTGTAACTCACTAACTTGTTTAACTAAGATTCAGGGTCACACGGTCGAGTCACACAGGC
Found at i:15015654 original size:46 final size:46
Alignment explanation
Indices: 15015601--15015694 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
15015591 TTTTCAATAC
15015601 TTGTATAAATCTCATACGTACCTGAGTTACTTAACTCATTTACACA
1 TTGTATAAATCTCATACGTACCTGAGTTACTTAACTCATTTACACA
*
15015647 TTGTATAAATCTCATACGTACCTGAGTTGCTTAACTCATTTACACA
1 TTGTATAAATCTCATACGTACCTGAGTTACTTAACTCATTTACACA
15015693 TT
1 TT
15015695 CTTCCTCTAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (46 bp):
TTGTATAAATCTCATACGTACCTGAGTTACTTAACTCATTTACACA
Found at i:15015891 original size:43 final size:43
Alignment explanation
Indices: 15015811--15015924 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
15015801 TATTACATAT
* * *
15015811 CGATGCCAACGGCCCAGACATGGTCTTACACGAAATCA-TATAA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAAT-A
*
15015854 CGATGCCAATGTCCCAGACATGGTCTTACA-TATAATCACAATA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGA-AATCACAATA
* * *
15015897 CAATGTCAATGTCCCAGATATGGTCTTA
1 CGATGCCAATGTCCCAGACATGGTCTTA
15015925 ATTGTAATCA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
42 1 0.02
43 59 0.95
44 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAATA
Found at i:15020232 original size:29 final size:29
Alignment explanation
Indices: 15020174--15020233 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
15020164 ACAATTTGGC
* *
15020174 AAAATGACCATTTTGCCCTTAGAATTATA
1 AAAATGACAATTTTGCCCTTAGAATCATA
* **
15020203 AAAATTACAATTTTGCCCTTAGGCTCATA
1 AAAATGACAATTTTGCCCTTAGAATCATA
15020232 AA
1 AA
15020234 TCGATTTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.33
Consensus pattern (29 bp):
AAAATGACAATTTTGCCCTTAGAATCATA
Found at i:15021164 original size:13 final size:13
Alignment explanation
Indices: 15021146--15021171 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15021136 CAGTCCACAG
15021146 GGCAACTGATGTT
1 GGCAACTGATGTT
15021159 GGCAACTGATGTT
1 GGCAACTGATGTT
15021172 TGGCCTTAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (13 bp):
GGCAACTGATGTT
Found at i:15025000 original size:25 final size:23
Alignment explanation
Indices: 15024958--15025010 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
15024948 AACTTTATTT
*
15024958 TTATTATTAATTCTATTATTGCTA
1 TTATTATTAATTCCATTATT-CTA
15024982 CTTATTATT-ATTGCCATTATTCTA
1 -TTATTATTAATT-CCATTATTCTA
15025006 TTATT
1 TTATT
15025011 TCTTATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 5 0.19
24 6 0.23
25 15 0.58
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.58
Consensus pattern (23 bp):
TTATTATTAATTCCATTATTCTA
Found at i:15029827 original size:41 final size:41
Alignment explanation
Indices: 15029774--15030002 Score: 221
Period size: 41 Copynumber: 5.6 Consensus size: 41
15029764 TCATTAACGA
* * * *
15029774 CATTTTT-GCATAAACTCTGCAAAAAGCAAAGCAATAGCGG
1 CATTTTTCTCATAAACGCCGCAAAAAGTAAAGCAATAGCGG
*
15029814 CATTTTTCTCATAAACG-CGACAAAAGGTAAAGCAATAGCGG
1 CATTTTTCTCATAAACGCCG-CAAAAAGTAAAGCAATAGCGG
* * * **
15029855 CATTTTTCTTATAAACGCCACAAAAGGTAAAGCAATAATGG
1 CATTTTTCTCATAAACGCCGCAAAAAGTAAAGCAATAGCGG
* * ** *
15029896 TATTTTTCTCTTAAATTCCACAAAAAGGTAAAGCAATAGCGG
1 CATTTTTCTCATAAACGCCGCAAAAA-GTAAAGCAATAGCGG
* * *
15029938 CGTTTTTCCCATAAACGCCGC-GAAAGTTAAAGCAATAGCGG
1 CATTTTTCTCATAAACGCCGCAAAAAG-TAAAGCAATAGCGG
* * *
15029979 CTTTTTTCCCATACACGCCGCAAA
1 CATTTTTCTCATAAACGCCGCAAA
15030003 TATTTTTTAC
Statistics
Matches: 155, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
40 9 0.06
41 117 0.75
42 29 0.19
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (41 bp):
CATTTTTCTCATAAACGCCGCAAAAAGTAAAGCAATAGCGG
Found at i:15029985 original size:83 final size:82
Alignment explanation
Indices: 15029801--15030002 Score: 235
Period size: 83 Copynumber: 2.5 Consensus size: 82
15029791 TGCAAAAAGC
* * **
15029801 AAAGCAATAGCGGCATTTTTCTCATAAACGCGACAAAAGGTAAAGCAATAGCGGCATTTTTCTTA
1 AAAGCAATAGCGGCTTTTTTCTCATAAACGCCACAAAAGGTAAAGCAATAGCGGCATTTTTCCCA
15029866 TAAACGCCACAAAAGGT
66 TAAACGCCACAAAAGGT
** * ** *
15029883 AAAGCAATAATGG-TATTTTTCTCTTAAATTCCACAAAAAGGTAAAGCAATAGCGGCGTTTTTCC
1 AAAGCAATAGCGGCT-TTTTTCTCATAAACGCCAC-AAAAGGTAAAGCAATAGCGGCATTTTTCC
* * *
15029947 CATAAACGCCGCGAAAGTT
64 CATAAACGCCACAAAAGGT
* * *
15029966 AAAGCAATAGCGGCTTTTTTCCCATACACGCCGCAAA
1 AAAGCAATAGCGGCTTTTTTCTCATAAACGCCACAAA
15030003 TATTTTTTAC
Statistics
Matches: 96, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
82 29 0.30
83 66 0.69
84 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (82 bp):
AAAGCAATAGCGGCTTTTTTCTCATAAACGCCACAAAAGGTAAAGCAATAGCGGCATTTTTCCCA
TAAACGCCACAAAAGGT
Found at i:15033356 original size:42 final size:42
Alignment explanation
Indices: 15033297--15033418 Score: 118
Period size: 42 Copynumber: 2.9 Consensus size: 42
15033287 TAGGGTTAGT
15033297 TGAGATTACGTGTAAGACCATATTTGGGATATGGCATCAATA
1 TGAGATTACGTGTAAGACCATATTTGGGATATGGCATCAATA
* * * * **
15033339 TGAGATTTCGTGTAAGACCACAGTTGGGCTATTGGCATTGATA
1 TGAGATTACGTGTAAGACCATATTTGGGATA-TGGCATCAATA
* ** * * * *
15033382 TAAGATCCCATTTAAGACCATATCTGTGATATGGCAT
1 TGAGATTACGTGTAAGACCATATTTGGGATATGGCAT
15033419 TGGTATAGTA
Statistics
Matches: 63, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
42 33 0.52
43 30 0.48
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATTTGGGATATGGCATCAATA
Found at i:15040703 original size:42 final size:42
Alignment explanation
Indices: 15040652--15040760 Score: 155
Period size: 43 Copynumber: 2.6 Consensus size: 42
15040642 TAAGATTACG
*
15040652 TGTAAGACCATATTTGGGATATGGCATCGATATGAGATTTCA
1 TGTAAGACCATATTTGGGATATGGCATCGATATGAGATCTCA
* * *
15040694 TGTAAGACCATAGTTGGGCTATTGGCATTGATATGAGATCTCA
1 TGTAAGACCATATTTGGGATA-TGGCATCGATATGAGATCTCA
* *
15040737 TGTAAGACCATATCTAGGATATGG
1 TGTAAGACCATATTTGGGATATGG
15040761 TATTGGTATA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 22 0.38
43 36 0.62
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATATTTGGGATATGGCATCGATATGAGATCTCA
Found at i:15046003 original size:27 final size:28
Alignment explanation
Indices: 15045959--15046012 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
15045949 ATAAAGCTTT
*
15045959 AAATAATTATTATTTTTTTTAATTTTAA
1 AAATAATTATTATTTTTTTTAAATTTAA
15045987 AAAT-ATTATT-TTATTTTTTAAATTTA
1 AAATAATTATTATT-TTTTTTAAATTTA
15046013 TATATTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 2 0.08
27 18 0.75
28 4 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
AAATAATTATTATTTTTTTTAAATTTAA
Found at i:15046182 original size:21 final size:22
Alignment explanation
Indices: 15046141--15046183 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15046131 AAACATAAAC
* *
15046141 TTTTTATTATTATTGATTGAAA
1 TTTTTATTACTATTGAATGAAA
15046163 TTTTTATTACTA-TGAATGAAA
1 TTTTTATTACTATTGAATGAAA
15046184 ACAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.53
Consensus pattern (22 bp):
TTTTTATTACTATTGAATGAAA
Found at i:15046259 original size:22 final size:23
Alignment explanation
Indices: 15046228--15046277 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
15046218 ATTGTAATTA
15046228 TTTTTAAAAT-TTTATTAACTATG
1 TTTTTAAAATGTTT-TTAACTATG
*
15046251 TTTTT-AAATGTTTTTAATTATG
1 TTTTTAAAATGTTTTTAACTATG
15046273 TTTTT
1 TTTTT
15046278 GACAATTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (23 bp):
TTTTTAAAATGTTTTTAACTATG
Found at i:15046263 original size:10 final size:11
Alignment explanation
Indices: 15046228--15046277 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
15046218 ATTGTAATTA
*
15046228 TTTTTAAAAT-
1 TTTTTAATATG
15046238 TTTATTAACTATG
1 TTT-TTAA-TATG
15046251 TTTTTAA-ATG
1 TTTTTAATATG
15046261 TTTTTAATTATG
1 TTTTTAA-TATG
15046273 TTTTT
1 TTTTT
15046278 GACAATTCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 13 0.38
11 4 0.12
12 14 0.41
13 3 0.09
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (11 bp):
TTTTTAATATG
Found at i:15046485 original size:14 final size:13
Alignment explanation
Indices: 15046468--15046498 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
15046458 AAGTGTTGTG
*
15046468 AAAAATTACTTTT
1 AAAAAATACTTTT
15046481 AAAAAATACTTTT
1 AAAAAATACTTTT
15046494 AAAAA
1 AAAAA
15046499 GTTTAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (13 bp):
AAAAAATACTTTT
Found at i:15046992 original size:136 final size:137
Alignment explanation
Indices: 15046844--15047121 Score: 416
Period size: 136 Copynumber: 2.0 Consensus size: 137
15046834 AAAATACTTT
* *
15046844 TTTACTTTTAATTAATAATTTTAACATATTTGTAATTAAGCACAAAGAAAAAAAAAGAATGGAAA
1 TTTAGTTTTAATTAATAATTTTAACATATTTATAATTAAGCACAAAGAAAAAAAAAGAATGGAAA
* ** **
15046909 GT-TCTATGTTATT-AAAAGGTGAAAAAGTAATTAAGCACCAAAAGTGTTTTTGATAGGGGAAAA
66 GTAT-TATGTTATTGAAAAGGTGAAAAAGTAATTAAACACCAAAAGTACTTTTGATAGGAAAAAA
15046972 ACTAAAAA
130 ACTAAAAA
*
15046980 TTTAGTTTTAATTAATAATTTTAACATATTTATAATTAAGCACAAAGAAAAAAAAAGAATGGAAT
1 TTTAGTTTTAATTAATAATTTTAACATATTTATAATTAAGCACAAAGAAAAAAAAAGAATGGAAA
* * * *
15047045 GTATTATGTTATTGGAAGGGTGAAAAAGTAATTAAATACCAAAAGTACTTTTGGTAGGAAAAAAA
66 GTATTATGTTATTGAAAAGGTGAAAAAGTAATTAAACACCAAAAGTACTTTTGATAGGAAAAAAA
*
15047110 TTAAAAA
131 CTAAAAA
15047117 TTTAG
1 TTTAG
15047122 CTTATCGTGC
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
136 73 0.57
137 54 0.43
ACGTcount: A:0.48, C:0.05, G:0.15, T:0.32
Consensus pattern (137 bp):
TTTAGTTTTAATTAATAATTTTAACATATTTATAATTAAGCACAAAGAAAAAAAAAGAATGGAAA
GTATTATGTTATTGAAAAGGTGAAAAAGTAATTAAACACCAAAAGTACTTTTGATAGGAAAAAAA
CTAAAAA
Found at i:15056871 original size:19 final size:19
Alignment explanation
Indices: 15056847--15056885 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
15056837 TAGATTCTTA
*
15056847 ACCTCTGTTTTTGAACCAT
1 ACCTCTGCTTTTGAACCAT
15056866 ACCTCTGCTTTTGAACCAT
1 ACCTCTGCTTTTGAACCAT
15056885 A
1 A
15056886 ACTTAGCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.28, G:0.10, T:0.38
Consensus pattern (19 bp):
ACCTCTGCTTTTGAACCAT
Found at i:15060578 original size:24 final size:23
Alignment explanation
Indices: 15060551--15060595 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
15060541 TGATTGTTGT
15060551 TGAA-CTTAATAAATCATTTGTGAA
1 TGAATCTTAA-AAA-CATTTGTGAA
*
15060575 TGAATGTTAAAAACATTTGTG
1 TGAATCTTAAAAACATTTGTG
15060596 TCAGATTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 7 0.37
25 4 0.21
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.38
Consensus pattern (23 bp):
TGAATCTTAAAAACATTTGTGAA
Found at i:15062689 original size:16 final size:17
Alignment explanation
Indices: 15062668--15062699 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
15062658 AAATGAAAGA
15062668 AAAAAAAATC-TTAAAT
1 AAAAAAAATCATTAAAT
15062684 AAAAAAAATCATTAAA
1 AAAAAAAATCATTAAA
15062700 AAATCCCCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAAAAAATCATTAAAT
Found at i:15062799 original size:30 final size:29
Alignment explanation
Indices: 15062759--15062815 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
15062749 AACTTAGAAA
* *
15062759 ATTTTTTAAATTTTTAAAAAATCATAATCT
1 ATTTTATAAA-TTATAAAAAATCATAATCT
*
15062789 ATTTTATAAATTATAAAAAATTATAAT
1 ATTTTATAAATTATAAAAAATCATAAT
15062816 TATGTGAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (29 bp):
ATTTTATAAATTATAAAAAATCATAATCT
Found at i:15063946 original size:14 final size:14
Alignment explanation
Indices: 15063908--15063959 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
15063898 AAAAATTAGT
15063908 TAAATTTATAATAT-
1 TAAATTTA-AATATA
**
15063922 TAAAAAT-AATATA
1 TAAATTTAAATATA
15063935 TAAATTTAAATATA
1 TAAATTTAAATATA
15063949 TAAATTCTAAA
1 TAAATT-TAAA
15063960 AAGTTTTGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 5 0.16
13 5 0.16
14 17 0.55
15 4 0.13
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (14 bp):
TAAATTTAAATATA
Found at i:15064241 original size:15 final size:14
Alignment explanation
Indices: 15064213--15064239 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15064203 CATGTGTCTT
15064213 TTTTTAAATATTTA
1 TTTTTAAATATTTA
15064227 TTTTTAAATATTT
1 TTTTTAAATATTT
15064240 TACTATATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTTAAATATTTA
Found at i:15081482 original size:11 final size:11
Alignment explanation
Indices: 15081466--15081500 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
15081456 CCCTTCCCCC
15081466 CTCCCTTCTCT
1 CTCCCTTCTCT
15081477 CTCCCTTCTCT
1 CTCCCTTCTCT
15081488 CTTCCC-TCTCT
1 C-TCCCTTCTCT
15081499 CT
1 CT
15081501 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:15082573 original size:35 final size:34
Alignment explanation
Indices: 15082527--15082611 Score: 91
Period size: 35 Copynumber: 2.4 Consensus size: 34
15082517 TTATACCATC
* *
15082527 TTATGTATATATTTTAAATACTATATT-GTATATG
1 TTATATATATATTTT-AATACTATATTAGTATATA
*
15082561 TCTATATATATATTCTTAGTACTATATTACGTATATA
1 T-TATATATATATT-TTAATACTATATTA-GTATATA
*
15082598 TTATTTATATATTT
1 TTATATATATATTT
15082612 ATTTTTACCC
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
34 1 0.02
35 22 0.51
36 13 0.30
37 7 0.16
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (34 bp):
TTATATATATATTTTAATACTATATTAGTATATA
Found at i:15086017 original size:69 final size:69
Alignment explanation
Indices: 15085906--15086041 Score: 245
Period size: 69 Copynumber: 2.0 Consensus size: 69
15085896 ATATCTCTCG
* *
15085906 ATTATAAAGAGTTTTTGAGACATTCTAAAAAAATGAAGATCTATTATAATCACTATTAAACAACA
1 ATTATAAAGAGTTTTTAAGACATTCTAAAAAAATGAAGATCTATTACAATCACTATTAAACAACA
15085971 ATCA
66 ATCA
*
15085975 ATTATAAAGAGTTTTTAAGACATTCTAAAATAATGAAGATCTATTACAATCACTATTAAACAACA
1 ATTATAAAGAGTTTTTAAGACATTCTAAAAAAATGAAGATCTATTACAATCACTATTAAACAACA
15086040 AT
66 AT
15086042 TAAGCTAGGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (69 bp):
ATTATAAAGAGTTTTTAAGACATTCTAAAAAAATGAAGATCTATTACAATCACTATTAAACAACA
ATCA
Found at i:15086332 original size:30 final size:29
Alignment explanation
Indices: 15086298--15086355 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
15086288 AATTCCATCT
*
15086298 ATAGAAATCAAATATATATAAAAATTATTA
1 ATAGAAATCAAAAATAT-TAAAAATTATTA
* *
15086328 ATAGAAATTAAAAATATTAAAATTTATT
1 ATAGAAATCAAAAATATTAAAAATTATT
15086356 TTTTTTCCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (29 bp):
ATAGAAATCAAAAATATTAAAAATTATTA
Found at i:15088245 original size:29 final size:28
Alignment explanation
Indices: 15088209--15088286 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
15088199 TCATGAAATT
15088209 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
15088239 -GCACTAAGTGTGTGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
15088266 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
15088287 GATTATTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.12
29 33 0.80
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:15088504 original size:174 final size:174
Alignment explanation
Indices: 15088239--15088566 Score: 629
Period size: 174 Copynumber: 1.9 Consensus size: 174
15088229 AAATTGTACA
15088239 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
15088304 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
15088369 TTTTGGACAGCAGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCAGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
15088413 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
15088478 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
*
15088543 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCAGAAAAGGTAAGT
15088567 ACCTTGAGTT
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 151 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCAGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:15090645 original size:21 final size:20
Alignment explanation
Indices: 15090619--15090658 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
15090609 TTCCAAATTT
*
15090619 AGAGAAACAGATAAATTTTGG
1 AGAGAAACAGA-AAACTTTGG
15090640 AGAGAAACAGAAAACTTTG
1 AGAGAAACAGAAAACTTTG
15090659 TTTATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.50, C:0.07, G:0.23, T:0.20
Consensus pattern (20 bp):
AGAGAAACAGAAAACTTTGG
Found at i:15090997 original size:26 final size:28
Alignment explanation
Indices: 15090958--15091010 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
15090948 AATTAATACT
*
15090958 TTTTTATTTATAT-ATAATAAAAATTAA
1 TTTTAATTTATATAATAATAAAAATTAA
*
15090985 TTTTAATTT-TATAATACTAAAAATTA
1 TTTTAATTTATATAATAATAAAAATTA
15091011 CCATAACCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (28 bp):
TTTTAATTTATATAATAATAAAAATTAA
Found at i:15091258 original size:98 final size:99
Alignment explanation
Indices: 15091088--15091278 Score: 298
Period size: 98 Copynumber: 1.9 Consensus size: 99
15091078 AATTAGTTAA
*
15091088 AAATAAAATATATTTAACATAATGTTAAATATAAAAATATATATAATTTCATTATATAATTACAT
1 AAATAAAATATATTTAACATAATGATAAATATAAAAATATATAT-ATTTCATTATATAATTACAT
15091153 ATTTATTATTTTATTTATATAAATAAAATAATTAT
65 ATTTATTATTTTATTTATATAAATAAAATAATTAT
* * *
15091188 AAATAAAAATATTTTTAACATAATGATATATATAAAACATATAT-T-TTT-ATTATATAGTTACA
1 AAAT-AAAATATATTTAACATAATGATAAATATAAAA-ATATATATATTTCATTATATAATTACA
15091250 TATTTATTATTTTATTTATATAAATAAAA
64 TATTTATTATTTTATTTATATAAATAAAA
15091279 GAGTTTTTGA
Statistics
Matches: 85, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
98 42 0.49
99 3 0.04
100 4 0.05
101 30 0.35
102 6 0.07
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.46
Consensus pattern (99 bp):
AAATAAAATATATTTAACATAATGATAAATATAAAAATATATATATTTCATTATATAATTACATA
TTTATTATTTTATTTATATAAATAAAATAATTAT
Found at i:15092185 original size:16 final size:15
Alignment explanation
Indices: 15092164--15092193 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
15092154 AATTATAAGC
15092164 ATAAATATGTAAATTA
1 ATAAATAT-TAAATTA
15092180 ATAAATATTAAATT
1 ATAAATATTAAATT
15092194 TTTCATACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (15 bp):
ATAAATATTAAATTA
Found at i:15095840 original size:4 final size:4
Alignment explanation
Indices: 15095831--15095860 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
15095821 CAAGTGTATG
15095831 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
15095861 AGCGGATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:15096493 original size:17 final size:17
Alignment explanation
Indices: 15096446--15096493 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 17
15096436 TATTTGTATT
*
15096446 TTATTTGTATTAAAG--
1 TTATTTGTATAAAAGTA
15096461 TT-TTTGTA-AAAA-TA
1 TTATTTGTATAAAAGTA
15096475 TTATTTGTATAAAAGTA
1 TTATTTGTATAAAAGTA
15096492 TT
1 TT
15096494 TAATAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
13 3 0.11
14 8 0.30
15 8 0.30
16 4 0.15
17 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (17 bp):
TTATTTGTATAAAAGTA
Found at i:15097281 original size:17 final size:18
Alignment explanation
Indices: 15097259--15097292 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
15097249 TTTTAGTAGT
15097259 AGTGTATTT-GTGTTAAA
1 AGTGTATTTAGTGTTAAA
15097276 AGTGTATTTAGTGTTAA
1 AGTGTATTTAGTGTTAA
15097293 GATTAGTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (18 bp):
AGTGTATTTAGTGTTAAA
Found at i:15099206 original size:25 final size:25
Alignment explanation
Indices: 15099140--15099224 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 25
15099130 CTCTCACGAT
* **
15099140 CTTCCCGTTATTTACCTCTTATGAG
1 CTTCCCGTTATTTAGCTCACATGAG
*** **
15099165 CTTCCCAACATACAGCTCACATGAG
1 CTTCCCGTTATTTAGCTCACATGAG
**
15099190 CTTCCCGTTATTTAGCTTGCATGAG
1 CTTCCCGTTATTTAGCTCACATGAG
*
15099215 CTTCTCGTTA
1 CTTCCCGTTA
15099225 AATGGCTCGA
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.36
Consensus pattern (25 bp):
CTTCCCGTTATTTAGCTCACATGAG
Found at i:15099265 original size:25 final size:25
Alignment explanation
Indices: 15099210--15099265 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
15099200 TTTAGCTTGC
15099210 ATGAGCTTCTCGTTAAATGGCTCGA
1 ATGAGCTTCTCGTTAAATGGCTCGA
* *
15099235 AAGAGCTT-TCCGTTAACAT-GCTCGT
1 ATGAGCTTCT-CGTTAA-ATGGCTCGA
15099260 ATGAGC
1 ATGAGC
15099266 ACATATGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 1 0.04
25 23 0.88
26 2 0.08
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (25 bp):
ATGAGCTTCTCGTTAAATGGCTCGA
Found at i:15104582 original size:26 final size:26
Alignment explanation
Indices: 15104553--15104622 Score: 95
Period size: 27 Copynumber: 2.7 Consensus size: 26
15104543 TGTATTATAG
* *
15104553 ATTTTAAAATGTTTTATACATTATTT
1 ATTTTAAATTGTTTTATACATTATTC
**
15104579 ATTTTAAACTTGTTTTATGTATTATTC
1 ATTTTAAA-TTGTTTTATACATTATTC
15104606 ATTTTAAATTGTTTTAT
1 ATTTTAAATTGTTTTAT
15104623 TGTTTACTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 17 0.44
27 22 0.56
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (26 bp):
ATTTTAAATTGTTTTATACATTATTC
Found at i:15104602 original size:27 final size:26
Alignment explanation
Indices: 15104543--15104622 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
15104533 ATTTGCTTTG
** *
15104543 TGTATTATAGATTTTAAAATGTTTTA
1 TGTATTATTCATTTTAAATTGTTTTA
** *
15104569 TACATTATTTATTTTAAACTTGTTTTA
1 TGTATTATTCATTTTAAA-TTGTTTTA
15104596 TGTATTATTCATTTTAAATTGTTTTA
1 TGTATTATTCATTTTAAATTGTTTTA
15104622 T
1 T
15104623 TGTTTACTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
26 23 0.51
27 22 0.49
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (26 bp):
TGTATTATTCATTTTAAATTGTTTTA
Found at i:15112454 original size:29 final size:28
Alignment explanation
Indices: 15112414--15112473 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
15112404 TCTCATTTTC
*
15112414 TTTCCTTTTTCTTTCTTTTTCCTTTCTG
1 TTTCCTTTTTCTTTCTATTTCCTTTCTG
* * *
15112442 TTTCGTTTGTTCTTTCTATTTCTTTTTTG
1 TTTCCTTT-TTCTTTCTATTTCCTTTCTG
15112471 TTT
1 TTT
15112474 ATCCATTTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.02, C:0.18, G:0.07, T:0.73
Consensus pattern (28 bp):
TTTCCTTTTTCTTTCTATTTCCTTTCTG
Found at i:15115128 original size:17 final size:17
Alignment explanation
Indices: 15115098--15115130 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15115088 TCACTGATGT
15115098 TTATTGTTCAAAATAAG
1 TTATTGTTCAAAATAAG
15115115 TTATT-TTCATAAATAA
1 TTATTGTTCA-AAATAA
15115131 TAAAAAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (17 bp):
TTATTGTTCAAAATAAG
Found at i:15121933 original size:9 final size:9
Alignment explanation
Indices: 15121919--15121949 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15121909 CACCAATCTG
15121919 TTATTCGAA
1 TTATTCGAA
*
15121928 TTATTCGAG
1 TTATTCGAA
15121937 TTATTCGAA
1 TTATTCGAA
15121946 TTAT
1 TTAT
15121950 AAAACTCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATTCGAA
Found at i:15142334 original size:20 final size:20
Alignment explanation
Indices: 15142309--15142348 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
15142299 CATTTTATGA
15142309 ATGATTTTCCATTAAAATTG
1 ATGATTTTCCATTAAAATTG
*
15142329 ATGATTTTCCATTAGAATTG
1 ATGATTTTCCATTAAAATTG
15142349 GTGAATTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (20 bp):
ATGATTTTCCATTAAAATTG
Found at i:15146255 original size:13 final size:14
Alignment explanation
Indices: 15146237--15146265 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
15146227 AATTGTTTTA
15146237 AAGGTTAA-TTAGT
1 AAGGTTAATTTAGT
15146250 AAGGTTAATTTAGT
1 AAGGTTAATTTAGT
15146264 AA
1 AA
15146266 ATTAGCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (14 bp):
AAGGTTAATTTAGT
Found at i:15147109 original size:40 final size:40
Alignment explanation
Indices: 15147064--15147236 Score: 215
Period size: 40 Copynumber: 4.3 Consensus size: 40
15147054 CGGTTATTTG
*
15147064 TGGCACTTAGTGTGTGATACGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATACGACATAGCTTCGGCTATATA
* *
15147104 TGGCACTTAGTGTGCGATAAGATATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATACGACATAGCTTCGGCTATATA
* * * *
15147144 TGGCACTTAGTATGCGATTCAACATAGCTTTGGCTATATA
1 TGGCACTTAGTGTGCGATACGACATAGCTTCGGCTATATA
* * *
15147184 TGGCACTTAGTGTGCGACT-TGAGATAGCTTCGGCTA-GTA
1 TGGCACTTAGTGTGCGA-TACGACATAGCTTCGGCTATATA
* *
15147223 CGACACTTAGTGTG
1 TGGCACTTAGTGTG
15147237 TGAGATATCG
Statistics
Matches: 115, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 14 0.12
40 100 0.87
41 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATACGACATAGCTTCGGCTATATA
Found at i:15147277 original size:28 final size:28
Alignment explanation
Indices: 15147226--15147279 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
15147216 GCTAGTACGA
** *
15147226 CACTTAGTGTGTGAGATATCGAGTATGG
1 CACTTAGTGTGCAAGACATCGAGTATGG
*
15147254 CACTTAGTGTGCAAGACATTGAGTAT
1 CACTTAGTGTGCAAGACATCGAGTAT
15147280 TCAACGACAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (28 bp):
CACTTAGTGTGCAAGACATCGAGTATGG
Found at i:15149019 original size:25 final size:25
Alignment explanation
Indices: 15148983--15149031 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
15148973 ACATGACTTT
*
15148983 ATATGTTACCTTTGTGGCATATTCC
1 ATATGTTACCTTTATGGCATATTCC
*
15149008 ATATGTTGCCTTTATGGCATATTC
1 ATATGTTACCTTTATGGCATATTC
15149032 TGTTTGGCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.45
Consensus pattern (25 bp):
ATATGTTACCTTTATGGCATATTCC
Found at i:15156601 original size:15 final size:15
Alignment explanation
Indices: 15156581--15156618 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
15156571 AGTTAAAATA
15156581 AGTAATACCTATCTT
1 AGTAATACCTATCTT
15156596 AGTAATACCTATCTT
1 AGTAATACCTATCTT
15156611 AGTAATAC
1 AGTAATAC
15156619 ATATTAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (15 bp):
AGTAATACCTATCTT
Found at i:15158846 original size:26 final size:26
Alignment explanation
Indices: 15158815--15158896 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
15158805 TGAAATGCCC
15158815 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
15158841 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
15158867 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
15158893 ATCA
1 ATCA
15158897 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:15164164 original size:22 final size:22
Alignment explanation
Indices: 15164139--15164204 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
15164129 AAACTATCGA
15164139 TTTTGTATTATTAGAAAAACCC
1 TTTTGTATTATTAGAAAAACCC
* * *
15164161 TTTTG----CTTAG-AAATCCA
1 TTTTGTATTATTAGAAAAACCC
15164178 TTTTGTATTATTAGAAAAACCC
1 TTTTGTATTATTAGAAAAACCC
*
15164200 ATTTG
1 TTTTG
15164205 CGTAAAAACT
Statistics
Matches: 32, Mismatches: 7, Indels: 10
0.65 0.14 0.20
Matches are distributed among these distances:
17 10 0.31
18 4 0.12
21 4 0.12
22 14 0.44
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (22 bp):
TTTTGTATTATTAGAAAAACCC
Found at i:15164322 original size:17 final size:17
Alignment explanation
Indices: 15164300--15164334 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
15164290 CAGTCTAGAG
15164300 AGTCCCAAAAATTACAA
1 AGTCCCAAAAATTACAA
15164317 AGTCCCAAAAATTACAA
1 AGTCCCAAAAATTACAA
15164334 A
1 A
15164335 CTTTCAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.23, G:0.06, T:0.17
Consensus pattern (17 bp):
AGTCCCAAAAATTACAA
Found at i:15168332 original size:25 final size:25
Alignment explanation
Indices: 15168304--15168382 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
15168294 CTAATGGCCG
15168304 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
15168329 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
15168351 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
15168376 ATGTGAT
1 ATGTGAT
15168383 ATGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:15168354 original size:47 final size:47
Alignment explanation
Indices: 15168291--15168750 Score: 821
Period size: 47 Copynumber: 9.7 Consensus size: 47
15168281 ATGATAGTAT
15168291 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
15168338 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAT
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
15168385 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAGGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
15168432 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
15168479 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
15168526 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAGGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
15168573 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
15168620 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
* *
15168669 GGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
15168718 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
15168751 CCCGAAGGGC
Statistics
Matches: 401, Mismatches: 9, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
47 309 0.77
49 88 0.22
50 4 0.01
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:15168924 original size:37 final size:37
Alignment explanation
Indices: 15168868--15168946 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
15168858 CCGAGCTCTA
* * * *
15168868 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
*
15168905 AAGACCCGATAACTTCGTGTGGAGATTATGTCCAGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
15168942 AAGAC
1 AAGAC
15168947 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
Found at i:15170439 original size:20 final size:20
Alignment explanation
Indices: 15170416--15170481 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
15170406 CAGAAATGTG
*
15170416 GACAAGCCATCAGTATTGTA
1 GACAAGCCAACAGTATTGTA
** * * *
15170436 GACAAGATAACAGTAATCTG
1 GACAAGCCAACAGTATTGTA
* *
15170456 GACAAGCCACCAGTATTGCA
1 GACAAGCCAACAGTATTGTA
15170476 GACAAG
1 GACAAG
15170482 TTACTAGTAA
Statistics
Matches: 33, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (20 bp):
GACAAGCCAACAGTATTGTA
Found at i:15170470 original size:40 final size:40
Alignment explanation
Indices: 15170414--15170517 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
15170404 GTCAGAAATG
* *
15170414 TGGACAAGCCATCAGTATTGTAGACAAGATAAC-AGTAATC
1 TGGACAAGCCACCAGTATTGCAGACAAG-TAACTAGTAATC
* *
15170454 TGGACAAGCCACCAGTATTGCAGACAAGTTACTAGTAATG
1 TGGACAAGCCACCAGTATTGCAGACAAGTAACTAGTAATC
* *
15170494 TGGACAAGCCACCAATAATGCAGA
1 TGGACAAGCCACCAGTATTGCAGA
15170518 TAAACTACTA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 3 0.05
40 54 0.95
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.20
Consensus pattern (40 bp):
TGGACAAGCCACCAGTATTGCAGACAAGTAACTAGTAATC
Found at i:15170490 original size:20 final size:20
Alignment explanation
Indices: 15170456--15170594 Score: 66
Period size: 20 Copynumber: 7.0 Consensus size: 20
15170446 CAGTAATCTG
* * *
15170456 GACAAGCCACCAGTATTGCA
1 GACAAGCTACTAGTAATGCA
* **
15170476 GACAAGTTACTAGTAATGTG
1 GACAAGCTACTAGTAATGCA
* * *
15170496 GACAAGCCACCAATAATGCA
1 GACAAGCTACTAGTAATGCA
* * *
15170516 GATAAACTACTAGTATTGCA
1 GACAAGCTACTAGTAATGCA
* * *
15170536 GACAACCTGCTAGT-ATTCTA
1 GACAAGCTACTAGTAATGC-A
* * *
15170556 GACAAGCAACCAG-AATTACA
1 GACAAGCTACTAGTAA-TGCA
* *
15170576 GACAACCTATTAGTAATGC
1 GACAAGCTACTAGTAATGC
15170595 CTTTTTCCAA
Statistics
Matches: 82, Mismatches: 33, Indels: 8
0.67 0.27 0.07
Matches are distributed among these distances:
19 2 0.02
20 76 0.93
21 4 0.05
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (20 bp):
GACAAGCTACTAGTAATGCA
Found at i:15170527 original size:40 final size:40
Alignment explanation
Indices: 15170410--15170530 Score: 129
Period size: 40 Copynumber: 3.0 Consensus size: 40
15170400 AACTGTCAGA
* * *
15170410 AATGTGGACAAGCCATCAGTATTGTAGACAAGA-TAAC-AGT
1 AATGTGGACAAGCCACCAGTAATGCAGACAA-ACT-ACTAGT
* * **
15170450 AATCTGGACAAGCCACCAGTATTGCAGACAAGTTACTAGT
1 AATGTGGACAAGCCACCAGTAATGCAGACAAACTACTAGT
* *
15170490 AATGTGGACAAGCCACCAATAATGCAGATAAACTACTAGT
1 AATGTGGACAAGCCACCAGTAATGCAGACAAACTACTAGT
15170530 A
1 A
15170531 TTGCAGACAA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 2 0.03
40 67 0.97
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (40 bp):
AATGTGGACAAGCCACCAGTAATGCAGACAAACTACTAGT
Found at i:15170540 original size:40 final size:40
Alignment explanation
Indices: 15170456--15170540 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
15170446 CAGTAATCTG
* * ** **
15170456 GACAAGCCACCAGTATTGCAGACAAGTTACTAGTAATGTG
1 GACAAGCCACCAATAATGCAGACAAACTACTAGTAATGCA
* *
15170496 GACAAGCCACCAATAATGCAGATAAACTACTAGTATTGCA
1 GACAAGCCACCAATAATGCAGACAAACTACTAGTAATGCA
15170536 GACAA
1 GACAA
15170541 CCTGCTAGTA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.20
Consensus pattern (40 bp):
GACAAGCCACCAATAATGCAGACAAACTACTAGTAATGCA
Found at i:15172475 original size:17 final size:17
Alignment explanation
Indices: 15172455--15172491 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
15172445 TATCAAAAGT
15172455 ATAAACCAAAGATTTCA
1 ATAAACCAAAGATTTCA
*
15172472 ATAAACCAAAGATTTTA
1 ATAAACCAAAGATTTCA
15172489 ATA
1 ATA
15172492 TCGTCCCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27
Consensus pattern (17 bp):
ATAAACCAAAGATTTCA
Found at i:15173136 original size:48 final size:48
Alignment explanation
Indices: 15172713--15173138 Score: 407
Period size: 48 Copynumber: 8.9 Consensus size: 48
15172703 GGGTGAATTA
* * **
15172713 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCACGTCGA-GG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGG
* * * * **
15172761 TCGATGCCATGTCCCAGACATGGTCTTACACTAGTTCACATCCCAAT-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGG
* * *
15172809 CCGATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCATAAT-GTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCATGG
* * *
15172857 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAAT-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGG
* * * * * *
15172905 TCAATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCACAACATCG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGG
* * * *
15172953 CCGATGCCATGTTCCAAACATAGTCTTACACTGGCTCTCATATCGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGG
* * * * *
15173001 CCGATGCCATGTCCCAGACTTGGTCTT---TTGGCTCTCACAACATCG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGG
* * * **
15173046 CCGATGCCATGTTCCAAACATGGTCCTACACTGGCTCTCATATTGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGG
* * * *
15173094 CCGATGTCATGTCCCAAACATGGTCTTACACTGGCACACATATCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCA
15173139 CCCAAATGTC
Statistics
Matches: 304, Mismatches: 65, Indels: 18
0.79 0.17 0.05
Matches are distributed among these distances:
45 36 0.12
47 5 0.02
48 262 0.86
49 1 0.00
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGG
Found at i:15173370 original size:101 final size:101
Alignment explanation
Indices: 15173195--15173392 Score: 396
Period size: 101 Copynumber: 2.0 Consensus size: 101
15173185 GGGAATTTAT
15173195 CGCATTAATTTCATCATACATTATTCATAATCATATTCAACCATATTATGCAAAATAAATCATTC
1 CGCATTAATTTCATCATACATTATTCATAATCATATTCAACCATATTATGCAAAATAAATCATTC
15173260 AACACATAATAACGATAAAGCTACCTTACTTACGTC
66 AACACATAATAACGATAAAGCTACCTTACTTACGTC
15173296 CGCATTAATTTCATCATACATTATTCATAATCATATTCAACCATATTATGCAAAATAAATCATTC
1 CGCATTAATTTCATCATACATTATTCATAATCATATTCAACCATATTATGCAAAATAAATCATTC
15173361 AACACATAATAACGATAAAGCTACCTTACTTA
66 AACACATAATAACGATAAAGCTACCTTACTTA
15173393 TGTACAACTT
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 97 1.00
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.33
Consensus pattern (101 bp):
CGCATTAATTTCATCATACATTATTCATAATCATATTCAACCATATTATGCAAAATAAATCATTC
AACACATAATAACGATAAAGCTACCTTACTTACGTC
Found at i:15176114 original size:17 final size:17
Alignment explanation
Indices: 15176094--15176130 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
15176084 AAAATAGGTT
*
15176094 AAATAGATAAAAAGAAA
1 AAATAAATAAAAAGAAA
*
15176111 AAATAAATAAAAATAAA
1 AAATAAATAAAAAGAAA
15176128 AAA
1 AAA
15176131 AACGAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (17 bp):
AAATAAATAAAAAGAAA
Found at i:15177572 original size:7 final size:7
Alignment explanation
Indices: 15177542--15177579 Score: 55
Period size: 6 Copynumber: 5.9 Consensus size: 7
15177532 GATTTTCTCA
15177542 AAATG-G
1 AAATGAG
15177548 AAATG-G
1 AAATGAG
15177554 AAATGA-
1 AAATGAG
15177560 AAATGAG
1 AAATGAG
15177567 AAATGAG
1 AAATGAG
15177574 AAATGA
1 AAATGA
15177580 TTCATTTGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 17 0.57
7 13 0.43
ACGTcount: A:0.58, C:0.00, G:0.26, T:0.16
Consensus pattern (7 bp):
AAATGAG
Found at i:15179007 original size:21 final size:21
Alignment explanation
Indices: 15178983--15179035 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 21
15178973 GTTGCTATAA
15178983 TGACAG-TCGGTTAGAGTCACC
1 TGACAGCT-GGTTAGAGTCACC
15179004 TGACAGCTGGTTAGAGTCACC
1 TGACAGCTGGTTAGAGTCACC
15179025 TGACAGCTGGT
1 TGACAGCTGGT
15179036 AAACATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (21 bp):
TGACAGCTGGTTAGAGTCACC
Found at i:15180814 original size:17 final size:20
Alignment explanation
Indices: 15180775--15180815 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
15180765 ATTAAAGTAA
15180775 GATTTTTGATCGTTTTTGAT
1 GATTTTTGATCGTTTTTGAT
15180795 GATTTTT-A-CGTTTTTG-T
1 GATTTTTGATCGTTTTTGAT
15180812 GATT
1 GATT
15180816 GTTGCTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 8 0.38
19 1 0.05
20 7 0.33
ACGTcount: A:0.15, C:0.05, G:0.20, T:0.61
Consensus pattern (20 bp):
GATTTTTGATCGTTTTTGAT
Found at i:15182508 original size:79 final size:81
Alignment explanation
Indices: 15182372--15182556 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
15182362 TTGAATGATG
* * *
15182372 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
15182436 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
15182451 TTCCGGGCTAAG-CCCGAAGGCATTTGCGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
15182513 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
15182531 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15182557 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:15182563 original size:40 final size:39
Alignment explanation
Indices: 15182373--15182556 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
15182363 TGAATGATGT
* * * *
15182373 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
15182413 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
15182453 CCGGGCTAAG-CCCGAAGGCATTTGCGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
15182491 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
15182532 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
15182557 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:15182578 original size:79 final size:79
Alignment explanation
Indices: 15182425--15182579 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
15182415 GGACTAAGAT
* * **
15182425 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGCGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
15182490 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
15182504 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
15182567 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
15182580 ATTCCAAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.59
80 25 0.38
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:15184061 original size:42 final size:42
Alignment explanation
Indices: 15183953--15184114 Score: 175
Period size: 43 Copynumber: 3.8 Consensus size: 42
15183943 TTCCGATATG
* *
15183953 TGATTTCGTGTAAGACCACGTTTGGGACTTTGGCATCG-ATT
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGTATT
* *
15183994 TGAGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
1 T--GATTT-CGTGTAAGACCACGTCTGGGACATTGGCATCGTATT
* * *
15184039 TGATTTCGTGTAAGACC-CTGTCTAGGATAATGGCATCGATATT
1 TGATTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCG-TATT
** *
15184082 TGATAACATGTAAGACCACGTCTGGGACATTGG
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGG
15184115 TATTGTATGA
Statistics
Matches: 99, Mismatches: 15, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
41 1 0.01
42 27 0.27
43 38 0.38
44 30 0.30
45 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGTATT
Found at i:15184883 original size:12 final size:12
Alignment explanation
Indices: 15184862--15184890 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15184852 TTGGTATGCT
15184862 TTGA-TATGAAA
1 TTGATTATGAAA
15184873 TTGATTATGAAA
1 TTGATTATGAAA
15184885 TTGATT
1 TTGATT
15184891 GGTGATATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (12 bp):
TTGATTATGAAA
Found at i:15187446 original size:31 final size:30
Alignment explanation
Indices: 15187371--15187450 Score: 117
Period size: 29 Copynumber: 2.7 Consensus size: 30
15187361 AGCTCCGGCT
*
15187371 ATCAAACTATGAAAAGGGATGGTGACGACC
1 ATCAAAATATGAAAAGGGATGGTGACGACC
* *
15187401 ATCAACA-ATGAAAAGGGATGGTGATGACC
1 ATCAAAATATGAAAAGGGATGGTGACGACC
15187430 ATCAAAATTATGAAAAGGGAT
1 ATCAAAA-TATGAAAAGGGAT
15187451 AACTTCAACT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 27 0.61
30 5 0.11
31 12 0.27
ACGTcount: A:0.44, C:0.12, G:0.25, T:0.19
Consensus pattern (30 bp):
ATCAAAATATGAAAAGGGATGGTGACGACC
Found at i:15187471 original size:30 final size:30
Alignment explanation
Indices: 15187435--15187570 Score: 173
Period size: 30 Copynumber: 4.5 Consensus size: 30
15187425 TGACCATCAA
* * *
15187435 AATTATGAAAAGGGATAACTTCAACTATTG
1 AATTATGAAAAGGGATAGCTTCAGCTATCG
*
15187465 AATTATGAAAAGGGATAGCTTCGGCTATCG
1 AATTATGAAAAGGGATAGCTTCAGCTATCG
* * **
15187495 AATTACGAAAATGGATAGCTTTGGCTATCG
1 AATTATGAAAAGGGATAGCTTCAGCTATCG
* *
15187525 AATCATGAAAAGGGATAGCTTTAGCTATCG
1 AATTATGAAAAGGGATAGCTTCAGCTATCG
*
15187555 AATTATGGAAAGGGAT
1 AATTATGAAAAGGGAT
15187571 GTGTCAACCA
Statistics
Matches: 93, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 93 1.00
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.28
Consensus pattern (30 bp):
AATTATGAAAAGGGATAGCTTCAGCTATCG
Found at i:15187505 original size:120 final size:120
Alignment explanation
Indices: 15187291--15187510 Score: 278
Period size: 120 Copynumber: 1.8 Consensus size: 120
15187281 TCGAGCTATA
* * * * **
15187291 AAAAGGGATGGTGACGACTATAAAAAATATGAAAGGGGGTAGCTTCGGCTACCGAATCATGAAAA
1 AAAAGGGATGGTGACGACCATAAAAAATATGAAAAGGGATAACTTCAACTACCGAATCATGAAAA
*
15187356 AGGATAGCTCCGGCTATCAAACTATGAAAAGGGATGGTGACGACCATCAACAATG
66 AGGATAGCTCCGGCTATCAAACTACGAAAAGGGATGGTGACGACCATCAACAATG
* * * ** *
15187411 AAAAGGGATGGTGATGACCATCAAAATTATGAAAAGGGATAACTTCAACTATTGAATTATGAAAA
1 AAAAGGGATGGTGACGACCATAAAAAATATGAAAAGGGATAACTTCAACTACCGAATCATGAAAA
* * * * *
15187476 GGGATAGCTTCGGCTATCGAATTACGAAAATGGAT
66 AGGATAGCTCCGGCTATCAAACTACGAAAAGGGAT
15187511 AGCTTTGGCT
Statistics
Matches: 82, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
120 82 1.00
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.21
Consensus pattern (120 bp):
AAAAGGGATGGTGACGACCATAAAAAATATGAAAAGGGATAACTTCAACTACCGAATCATGAAAA
AGGATAGCTCCGGCTATCAAACTACGAAAAGGGATGGTGACGACCATCAACAATG
Found at i:15199981 original size:21 final size:22
Alignment explanation
Indices: 15199955--15199995 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
15199945 AAGTAGTTAG
15199955 ATTTAATA-GAAAATAAAAAAA
1 ATTTAATATGAAAATAAAAAAA
*
15199976 ATTTAATATGAGAATAAAAA
1 ATTTAATATGAAAATAAAAA
15199996 GTATTGGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (22 bp):
ATTTAATATGAAAATAAAAAAA
Found at i:15200814 original size:19 final size:20
Alignment explanation
Indices: 15200780--15200817 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
15200770 ACAAGGACTA
*
15200780 AATAAATCATTCAAATATTC
1 AATAAATCACTCAAATATTC
15200800 AATAAA-CACTCAAATATT
1 AATAAATCACTCAAATATT
15200818 ATGATATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.32
Consensus pattern (20 bp):
AATAAATCACTCAAATATTC
Found at i:15201961 original size:17 final size:17
Alignment explanation
Indices: 15201920--15201962 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
15201910 AAACAAGGGA
*
15201920 CACACGCCCGTGTGTCT
1 CACACGGCCGTGTGTCT
* *
15201937 CGCCCGGCCGTGTGTCT
1 CACACGGCCGTGTGTCT
*
15201954 CATACGGCC
1 CACACGGCC
15201963 AACAGACACG
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.09, C:0.42, G:0.28, T:0.21
Consensus pattern (17 bp):
CACACGGCCGTGTGTCT
Found at i:15208044 original size:45 final size:44
Alignment explanation
Indices: 15207931--15208094 Score: 226
Period size: 44 Copynumber: 3.8 Consensus size: 44
15207921 TACGGTATTA
*
15207931 ATCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATGAT
1 ATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGAT
* * *
15207975 ATCGGGCCTTTGAGCCTAGCAGGCTATAATGTCGGTGAGAT-ACT
1 ATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA-T
*
15208019 ATTCGGGCCTTCGAGCCTAGTAGGCTATAATGCCGGTGAAATGAT
1 A-TCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGAT
* *
15208064 ATCAGG-CTTCGAGCCTAGCAGGCGA-AATGCC
1 ATCGGGCCTTCGAGCCTAGCAGGCTATAATGCC
15208095 AGTGGATGAA
Statistics
Matches: 108, Mismatches: 9, Indels: 8
0.86 0.07 0.06
Matches are distributed among these distances:
42 6 0.06
43 18 0.17
44 45 0.42
45 38 0.35
46 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (44 bp):
ATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGAT
Found at i:15227049 original size:105 final size:105
Alignment explanation
Indices: 15226925--15227136 Score: 397
Period size: 105 Copynumber: 2.0 Consensus size: 105
15226915 ACTTTTACAA
*
15226925 TTAGGTCCAACTATCTAATTCATTAGTTTTTGATTTTATGGGTGACTTTAAAAGTTACCATGAAT
1 TTAGGTCAAACTATCTAATTCATTAGTTTTTGATTTTATGGGTGACTTTAAAAGTTACCATGAAT
* *
15226990 ACATGCTGTATTATTATGGTGAATTATTATGGAATTGAAG
66 ACATGCTATATTATTATGATGAATTATTATGGAATTGAAG
15227030 TTAGGTCAAACTATCTAATTCATTAGTTTTTGATTTTATGGGTGACTTTAAAAGTTACCATGAAT
1 TTAGGTCAAACTATCTAATTCATTAGTTTTTGATTTTATGGGTGACTTTAAAAGTTACCATGAAT
15227095 ACATGCTATATTATTATGATGAATTATTATGGAATTGAAG
66 ACATGCTATATTATTATGATGAATTATTATGGAATTGAAG
15227135 TT
1 TT
15227137 CTTATTTTAT
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 104 1.00
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (105 bp):
TTAGGTCAAACTATCTAATTCATTAGTTTTTGATTTTATGGGTGACTTTAAAAGTTACCATGAAT
ACATGCTATATTATTATGATGAATTATTATGGAATTGAAG
Found at i:15227900 original size:54 final size:54
Alignment explanation
Indices: 15227744--15227951 Score: 240
Period size: 54 Copynumber: 3.9 Consensus size: 54
15227734 CCATGGCAAC
* *
15227744 ATGTGAT-ATGTGATTTTCGTATAAGACCATAGCTGGGCTAGGGCATCGATGTG
1 ATGTGATCATGTGATTTTCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
* * * *
15227797 ATGTGATCATGTGATTTCCGTATAAGATCGTAGCTGGGCTGTGGCATCGGTGTG
1 ATGTGATCATGTGATTTTCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
* * * *
15227851 ATGTGATCATGTGATTTTCGTATAATACCATAGCTTGGCTATGGCATCGGAGAG
1 ATGTGATCATGTGATTTTCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
* * * * * * * *
15227905 ATGTAATTATGTGCTTCT-ATATAAGACCATATCTAGGATATGGCATC
1 ATGTGATCATGTGATTTTCGTATAAGACCATAGCTGGGCTATGGCATC
15227952 AATGTGATAT
Statistics
Matches: 131, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
53 31 0.24
54 100 0.76
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (54 bp):
ATGTGATCATGTGATTTTCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
Found at i:15227981 original size:47 final size:47
Alignment explanation
Indices: 15227912--15228011 Score: 173
Period size: 47 Copynumber: 2.1 Consensus size: 47
15227902 GAGATGTAAT
*
15227912 TATGTGCTTCTATATAAGACCATATCTAGGATATGGCATCAATGTGA
1 TATGTGCTACTATATAAGACCATATCTAGGATATGGCATCAATGTGA
* *
15227959 TATGTGCTACTATATAAGACCATATCTGGGATATGGCATCAGTGTGA
1 TATGTGCTACTATATAAGACCATATCTAGGATATGGCATCAATGTGA
15228006 TATGTG
1 TATGTG
15228012 ATCCGTGTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (47 bp):
TATGTGCTACTATATAAGACCATATCTAGGATATGGCATCAATGTGA
Found at i:15228040 original size:46 final size:47
Alignment explanation
Indices: 15227923--15228060 Score: 143
Period size: 47 Copynumber: 2.9 Consensus size: 47
15227913 ATGTGCTTCT
* * * * *
15227923 ATATAAGACCATATCTAGGATATGGCATCAATGTGATATGTGCTACT
1 ATATAAGACCATAGCTGGGATATGGCATCAGTGTGATATGTGATACC
*
15227970 ATATAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGAT-CC
1 ATATAAGACCATAGCTGGGATATGGCATCAGTGTGATATGTGATACC
* * * * * *
15228016 GTGTAAGACCATGGCTGGGCTATGGCTTCGGTGTGTAGTATGTGA
1 ATATAAGACCATAGCTGGGATATGGCATCAGTGTG-A-TATGTGA
15228061 CTATGTGCAG
Statistics
Matches: 78, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
46 29 0.37
47 42 0.54
48 7 0.09
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (47 bp):
ATATAAGACCATAGCTGGGATATGGCATCAGTGTGATATGTGATACC
Found at i:15230392 original size:46 final size:46
Alignment explanation
Indices: 15230323--15230451 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
15230313 TGTAACCCGC
* * *
15230323 CCATAAGTGAACTCGGACTCAACTCAACGAGATCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
15230369 CTATAAGTGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
15230415 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
15230452 TGCTCAACCA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:15230470 original size:46 final size:44
Alignment explanation
Indices: 15230328--15230470 Score: 119
Period size: 46 Copynumber: 3.1 Consensus size: 44
15230318 CCCGCCCATA
* ** * *
15230328 AGTGAACTCGGACTCAACTCAACGAGATCGGGCGTTC-GCATCTAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATC--T
* * * *
15230373 AAGTGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCA-CCATCT
15230420 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCAT-CT
15230466 AGTGA
1 AGTGA
15230471 CATGTCACTT
Statistics
Matches: 77, Mismatches: 13, Indels: 14
0.74 0.12 0.13
Matches are distributed among these distances:
44 8 0.10
45 1 0.01
46 64 0.83
48 1 0.01
50 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCT
Found at i:15237885 original size:46 final size:46
Alignment explanation
Indices: 15237721--15237896 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
15237711 TGTAACCCGC
* * * *
15237721 CCATAAGTGAACTCGGACTCAACTGAATGAGCTT-GGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCAT
* * *
15237767 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GAC-A-TTCGCAT
* * *
15237817 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
15237860 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
15237897 TTCTCAACCA
Statistics
Matches: 105, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 58 0.55
47 26 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:15246242 original size:48 final size:48
Alignment explanation
Indices: 15246117--15246242 Score: 191
Period size: 47 Copynumber: 2.6 Consensus size: 48
15246107 TATGTGTGCT
* * * *
15246117 AGTGTAAGACCATGTGTGGGATATGGCATCAGCCACATTACGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTACGAAAGCC
*
15246165 AGTGTAAG-CCATGTCTGGGACATGGCATCGGCCACATTATGAAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTACGAAAGCC
*
15246212 AGTGTAAGACCATGTCTAGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
15246243 ACAATTCACC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
47 42 0.59
48 29 0.41
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTACGAAAGCC
Found at i:15252032 original size:48 final size:48
Alignment explanation
Indices: 15251958--15252128 Score: 209
Period size: 48 Copynumber: 3.6 Consensus size: 48
15251948 GTGTGCTAGC
*
15251958 GTAAGACCATGTCTGGGACATAGCATCGGCTACATTATGAAAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCTACATTATGAAAGCCAGT
* * ** * * *
15252006 GTAAGACCATGTCTTGGACATGGCATCGACATTGA-TATGTATGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGC-TACATTATGAAAGCCAGT
* * * *
15252054 GTAAAACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCTACATTATGAAAGCCAGT
*
15252102 GTAAGACCATGTCTGGGGCATGGCATC
1 GTAAGACCATGTCTGGGACATGGCATC
15252129 AGCAATTTAC
Statistics
Matches: 101, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
47 1 0.01
48 98 0.97
49 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCTACATTATGAAAGCCAGT
Found at i:15252106 original size:96 final size:96
Alignment explanation
Indices: 15251942--15252128 Score: 293
Period size: 96 Copynumber: 1.9 Consensus size: 96
15251932 GACATTTGGG
* * *
15251942 TGATATGTGTGCTAGCGTAAGACCATGTCTGGGACATAGCATCGGCTACATTATGAAAGCCAGTG
1 TGATATGTATGCTAGCGTAAAACCATGTCTGGGACATAGCATCGGCCACATTATGAAAGCCAGTG
*
15252007 TAAGACCATGTCTTGGACATGGCATCGACAT
66 TAAGACCATGTCTGGGACATGGCATCGACAT
* * * *
15252038 TGATATGTATGCTAGTGTAAAACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCCAGTG
1 TGATATGTATGCTAGCGTAAAACCATGTCTGGGACATAGCATCGGCCACATTATGAAAGCCAGTG
*
15252103 TAAGACCATGTCTGGGGCATGGCATC
66 TAAGACCATGTCTGGGACATGGCATC
15252129 AGCAATTTAC
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 82 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (96 bp):
TGATATGTATGCTAGCGTAAAACCATGTCTGGGACATAGCATCGGCCACATTATGAAAGCCAGTG
TAAGACCATGTCTGGGACATGGCATCGACAT
Found at i:15253852 original size:42 final size:43
Alignment explanation
Indices: 15253794--15253900 Score: 144
Period size: 42 Copynumber: 2.5 Consensus size: 43
15253784 TTCTGTTTTG
* *
15253794 CATGTAAGACCATGTCTGGGACATTGGCATCG-TATCTGATTT
1 CATGTAAGACCATGTCTGGGACAGTGGCATCGATATCTGATTA
** * * *
15253836 TGTGTAAGACCCTGTCTGGGACAGTGGCATCGATGTTTGATTA
1 CATGTAAGACCATGTCTGGGACAGTGGCATCGATATCTGATTA
15253879 CATGTAAGACCATGTCTGGGAC
1 CATGTAAGACCATGTCTGGGAC
15253901 GTTCGCATTG
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 28 0.52
43 26 0.48
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGGGACAGTGGCATCGATATCTGATTA
Found at i:15260216 original size:6 final size:6
Alignment explanation
Indices: 15260207--15260291 Score: 66
Period size: 6 Copynumber: 13.8 Consensus size: 6
15260197 AACCAAAATG
* * * *
15260207 AGAATC AGAATC AGAATC AGAATC AGAATT AGTATT AGGTGAT- AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
* *
15260256 AGAATC AGTATT AGGTAA-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
15260292 GTAAATGCAA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
5 4 0.06
6 54 0.83
7 4 0.06
8 3 0.05
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.24
Consensus pattern (6 bp):
AGAATC
Found at i:15260216 original size:18 final size:18
Alignment explanation
Indices: 15260195--15260234 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15260185 TATTAGAACT
*
15260195 AGAACCAAAATGAGAATC
1 AGAACCAAAATCAGAATC
* *
15260213 AGAATCAGAATCAGAATC
1 AGAACCAAAATCAGAATC
15260231 AGAA
1 AGAA
15260235 TTAGTATTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.55, C:0.15, G:0.17, T:0.12
Consensus pattern (18 bp):
AGAACCAAAATCAGAATC
Found at i:15260254 original size:25 final size:25
Alignment explanation
Indices: 15260224--15260288 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
15260214 GAATCAGAAT
* *
15260224 CAGAATCAGAATTAGTATTAGGTGA
1 CAGAATCAGAATCAGTATTAGGTAA
*
15260249 TAGAATCAGAATCAGTATTAGGTAA
1 CAGAATCAGAATCAGTATTAGGTAA
15260274 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
15260289 AATGTAAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.25
Consensus pattern (25 bp):
CAGAATCAGAATCAGTATTAGGTAA
Found at i:15260285 original size:31 final size:29
Alignment explanation
Indices: 15260217--15260291 Score: 95
Period size: 25 Copynumber: 2.7 Consensus size: 29
15260207 AGAATCAGAA
*
15260217 TCAGAATCAGAATCAGAATTAGTATTAGG
1 TCAGAATCAGAATCAGAATCAGTATTAGG
15260246 T--G-AT-AGAATCAGAATCAGTATTAGG
1 TCAGAATCAGAATCAGAATCAGTATTAGG
15260271 TAACAGAATCAGAATCAGAAT
1 T--CAGAATCAGAATCAGAAT
15260292 GTAAATGCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
25 21 0.54
26 2 0.05
27 1 0.03
29 2 0.05
30 2 0.05
31 11 0.28
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.25
Consensus pattern (29 bp):
TCAGAATCAGAATCAGAATCAGTATTAGG
Found at i:15260446 original size:27 final size:26
Alignment explanation
Indices: 15260409--15260509 Score: 130
Period size: 27 Copynumber: 3.8 Consensus size: 26
15260399 AGCATGGCTG
* *
15260409 CCAGAACAAATATTGTGACAGAGTCA
1 CCAGAACAAATATTGTGGCAGAGCCA
15260435 CCAGATACAAATATTGTGGCAGAGCCA
1 CCAGA-ACAAATATTGTGGCAGAGCCA
* *
15260462 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAAATA-TTGTGGCAGAGCCA
*
15260489 CCAGAATCAAATAATGTGGCA
1 CCAGAA-CAAATATTGTGGCA
15260510 AAACCACTTA
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 11 0.17
27 50 0.76
28 5 0.08
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (26 bp):
CCAGAACAAATATTGTGGCAGAGCCA
Found at i:15261128 original size:27 final size:27
Alignment explanation
Indices: 15261080--15261382 Score: 360
Period size: 27 Copynumber: 11.2 Consensus size: 27
15261070 GGGCAAAATT
* * * *
15261080 GTAATTTTACCCCAC-GAGGGTATCTCG
1 GTAATTCTACCCTACAG-GGGTATTTCA
* * * *
15261107 GTAATTCTAGCCTATAGAGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
15261134 GTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
*
15261160 GATAATTCTACCTTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
15261188 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
15261215 GTAATTCTACCTTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
15261242 ATAATTCTACCCTATAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
15261268 GATAATTCTACCTTACAGGGGTATTTTA
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
15261296 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
15261323 GTAATTCTACCTTACAAGAGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
15261350 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
15261377 ATAATT
1 GTAATT
15261383 TTTTAAATTG
Statistics
Matches: 232, Mismatches: 39, Indels: 10
0.83 0.14 0.04
Matches are distributed among these distances:
26 1 0.00
27 228 0.98
28 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:15261145 original size:54 final size:54
Alignment explanation
Indices: 15261080--15261375 Score: 434
Period size: 54 Copynumber: 5.5 Consensus size: 54
15261070 GGGCAAAATT
* * * * *
15261080 GTAATTTTACCCCAC-GAGGGTATCTCGGTAATTCTAGCC-TATAGAGGTATTTTA
1 GTAATTCTACCCTACAG-GGGTATTTCGGTAATTCTA-CCTTACAGGGGTATTTTA
* *
15261134 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTA
* *
15261188 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTA
* * *
15261242 ATAATTCTACCCTATAGGGGTATTTCGATAATTCTACCTTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTA
* *
15261296 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAAGAGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTA
15261350 GTAATTCTACCCTACAGGGGTATTTC
1 GTAATTCTACCCTACAGGGGTATTTC
15261376 AATAATTTTT
Statistics
Matches: 219, Mismatches: 21, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
53 2 0.01
54 216 0.99
55 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTA
Found at i:15261435 original size:27 final size:27
Alignment explanation
Indices: 15261405--15261497 Score: 98
Period size: 27 Copynumber: 3.4 Consensus size: 27
15261395 GGTAAAACGA
* *
15261405 TAATTCTGTAAATCGGGGGTACTTTGG
1 TAATTTTGTAAATCGGGGGTATTTTGG
** *
15261432 TAATTTTACAAA-CTAGGGGTATTTTGG
1 TAATTTTGTAAATC-GGGGGTATTTTGG
* * *
15261459 TAATTTTGTTAATCGAGGGTATTTTAG
1 TAATTTTGTAAATCGGGGGTATTTTGG
15261486 TAATTTTGTAAA
1 TAATTTTGTAAA
15261498 CCAAGGGCAT
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
26 1 0.02
27 50 0.96
28 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.23, T:0.43
Consensus pattern (27 bp):
TAATTTTGTAAATCGGGGGTATTTTGG
Found at i:15261504 original size:27 final size:27
Alignment explanation
Indices: 15261421--15261525 Score: 86
Period size: 27 Copynumber: 3.9 Consensus size: 27
15261411 TGTAAATCGG
* * ** * *
15261421 GGGTACTTTGGTAATTTTACAAACTAG
1 GGGTATTTTAGTAATTTTGTAAACCAA
* * * *
15261448 GGGTATTTTGGTAATTTTGTTAATCGA
1 GGGTATTTTAGTAATTTTGTAAACCAA
15261475 GGGTATTTTAGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTGTAAACCAA
* *
15261502 GGGCATTTCAGT-ATTTTGGTAAAC
1 GGGTATTTTAGTAATTTT-GTAAAC
15261526 TAAAGTATTC
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
26 5 0.08
27 58 0.92
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.41
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTGTAAACCAA
Found at i:15263244 original size:26 final size:26
Alignment explanation
Indices: 15263203--15263253 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
15263193 TTATAATAAG
* * *
15263203 GTTATATTGGTAAAAAGCATATTAAT
1 GTTATATTAGTAAAAACCAAATTAAT
*
15263229 GTTATATTAGTTAAAACCAAATTAA
1 GTTATATTAGTAAAAACCAAATTAA
15263254 AAATCATCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (26 bp):
GTTATATTAGTAAAAACCAAATTAAT
Found at i:15264258 original size:43 final size:42
Alignment explanation
Indices: 15264153--15264259 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 42
15264143 TTCTGTTTTG
* * *
15264153 CATGTAAGACCATGTCTGGGACATTGGCATCGTACCTGGTTT
1 CATGTAAGACCATGTCTGGGACAATGGCATCGTACCTGATTA
* * ***
15264195 CGTGTAAGACCTTGTCTGGGACAATGGCATCGATGTTTGATTA
1 CATGTAAGACCATGTCTGGGACAATGGCATCG-TACCTGATTA
*
15264238 CATGTAAGACCACGTCTGGGAC
1 CATGTAAGACCATGTCTGGGAC
15264260 GTTGGCATTG
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
42 29 0.55
43 24 0.45
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (42 bp):
CATGTAAGACCATGTCTGGGACAATGGCATCGTACCTGATTA
Found at i:15264266 original size:43 final size:42
Alignment explanation
Indices: 15264153--15264267 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 42
15264143 TTCTGTTTTG
* *
15264153 CATGTAAGACCATGTCTGGGACATTGGCATCGTACCTGGTTT
1 CATGTAAGACCATGTCTGGGACATTGGCATCGTACCTGATTA
* * * ***
15264195 CGTGTAAGACCTTGTCTGGGACAATGGCATCGATGTTTGATTA
1 CATGTAAGACCATGTCTGGGACATTGGCATCG-TACCTGATTA
* *
15264238 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CATGTAAGACCATGTCTGGGACATTGGCAT
15264268 TGCATATGCT
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 29 0.49
43 30 0.51
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (42 bp):
CATGTAAGACCATGTCTGGGACATTGGCATCGTACCTGATTA
Found at i:15266195 original size:30 final size:30
Alignment explanation
Indices: 15266161--15266220 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
15266151 ATCCTGAGCC
15266161 TAGGGGAAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGAAAAATG-GTAATTATGCAAAAGTT
* * *
15266191 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGAAAAATGGTAATTATGCAAAAGTT
15266221 CGTATTAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.38, C:0.07, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAATGGTAATTATGCAAAAGTT
Found at i:15266932 original size:49 final size:50
Alignment explanation
Indices: 15266867--15267112 Score: 291
Period size: 49 Copynumber: 4.9 Consensus size: 50
15266857 AGCTATTGTG
* *
15266867 AGGTCACGTGTGTAGTACTAAGTGCGGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * **
15266917 -GGTCGCATGTGTAGTACTAAGTGGAGGCTACTATGCATACCTA-ATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-AGATAA-TT
* * ** * **
15266967 CGATCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
15267017 AGGTCACGTGTGTAGTACTAAGTGCTGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
15267067 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
15267113 GCTTCGGCCA
Statistics
Matches: 163, Mismatches: 29, Indels: 9
0.81 0.14 0.04
Matches are distributed among these distances:
49 80 0.49
50 49 0.30
51 34 0.21
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:15269895 original size:16 final size:15
Alignment explanation
Indices: 15269857--15269895 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
15269847 TGGATTCTCG
*
15269857 TATCATGGATTTCTT
1 TATCTTGGATTTCTT
15269872 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
15269887 TATTCTTGG
1 TA-TCTTGG
15269896 CTTCTCTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:15271991 original size:30 final size:30
Alignment explanation
Indices: 15271944--15272003 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
15271934 TTCCTGAGCC
15271944 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* * *
15271974 TAGGGGCAAAA-TGGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAGT-GTAATTATGCAAAAGTT
15272004 CATATTAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.38, C:0.07, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:15272729 original size:49 final size:50
Alignment explanation
Indices: 15272657--15272880 Score: 283
Period size: 49 Copynumber: 4.5 Consensus size: 50
15272647 GTGAGGTACG
* *
15272657 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
* * * * * * *
15272706 TGTGTAGTACTAAGTGCAAGCTACTATGCGTACCTGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTAGGTCACA
* * ** *
15272757 TGTGTAGTATTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
*
15272807 TGTGTAGTACTAAGTGCAGG-TACTACGTGTACCAGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
15272855 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
15272881 TGCGTATCAG
Statistics
Matches: 148, Mismatches: 24, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
48 25 0.17
49 58 0.39
50 29 0.20
51 36 0.24
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACA
Found at i:15272831 original size:100 final size:98
Alignment explanation
Indices: 15272654--15272893 Score: 302
Period size: 100 Copynumber: 2.4 Consensus size: 98
15272644 ATTGTGAGGT
* * *
15272654 ACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACTAA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACATGTGTAGTACTAA
* *
15272719 GTGCAAGCTACTATGCGTACCTGATAACTTCGATC
66 GTGCAAGCTACTACGCGTACCAGATAA-TT-GATC
* ** *
15272754 ACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT-GGTCACATGTGTAGTACTA
* * *
15272819 AGTGC-AGGTACTACGTGTACCAGATAATTGGTC
65 AGTGCAAGCTACTACGCGTACCAGATAATTGATC
* * * *
15272852 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGATA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATA
15272894 GCTTCGTCTA
Statistics
Matches: 121, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
98 39 0.32
99 2 0.02
100 58 0.48
101 22 0.18
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (98 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACATGTGTAGTACTAA
GTGCAAGCTACTACGCGTACCAGATAATTGATC
Found at i:15284968 original size:219 final size:221
Alignment explanation
Indices: 15284573--15285005 Score: 681
Period size: 219 Copynumber: 1.9 Consensus size: 221
15284563 CACCCGTACC
* *
15284573 AGCCCTCCACTCCAACTGGGGAATAGCTTAACCCACCCAGCCCTACACTCCACAGTTACAACATA
1 AGCCCTACACTCCAACTGGGGAATAGCTCAACCCACCCAGCCCTACACTCCACAGTTACAACATA
*
15284638 GCTTCTCAGATATCAGTAAGTTAAGGCAAAGCCTCCAGTACGTGGTCAAGCCACTATCAGTACTT
66 GCTGCTCAGATATCAGTAAGTT------AA-CCTCCAGTACGTGGTCAAGCCACTATCAGTACTT
* *
15284703 CCTCCATCAATAACCCAGTTCCATGCATCAGATAATAATAACATGGCATGTAGTAAATAGTAACA
124 CCTCCATCAATAACCCAGTCCCATGCATCAGATAATAATAACATGGCATGTAATAAATAGTAACA
15284768 GTCAAACATGCATTCAGGTAGCTCAACCCACCT
189 GTCAAACATGCATTCAGGTAGCTCAACCCACCT
* * * * *
15284801 AGCCCTACACTCCAAGTGGGGAATAGCTCAACCCACCCATCCCTACACTCCATAGTTGCAGCATA
1 AGCCCTACACTCCAACTGGGGAATAGCTCAACCCACCCAGCCCTACACTCCACAGTTACAACATA
* *
15284866 GCTGCTCCGATATCAGTAAGTT-A-CTCCAGTACGTGGTCAAGCCACTATTAGTACTTCCTCCAT
66 GCTGCTCAGATATCAGTAAGTTAACCTCCAGTACGTGGTCAAGCCACTATCAGTACTTCCTCCAT
15284929 CAATAACCCAGTCCCATGCATCAGATAATAATAACATGGCATGTAATAAATAGTAACAGTCAAAC
131 CAATAACCCAGTCCCATGCATCAGATAATAATAACATGGCATGTAATAAATAGTAACAGTCAAAC
15284994 ATGCATTCAGGT
196 ATGCATTCAGGT
15285006 CAACCTTAGC
Statistics
Matches: 193, Mismatches: 12, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
219 114 0.59
221 1 0.01
228 78 0.40
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (221 bp):
AGCCCTACACTCCAACTGGGGAATAGCTCAACCCACCCAGCCCTACACTCCACAGTTACAACATA
GCTGCTCAGATATCAGTAAGTTAACCTCCAGTACGTGGTCAAGCCACTATCAGTACTTCCTCCAT
CAATAACCCAGTCCCATGCATCAGATAATAATAACATGGCATGTAATAAATAGTAACAGTCAAAC
ATGCATTCAGGTAGCTCAACCCACCT
Found at i:15285784 original size:71 final size:71
Alignment explanation
Indices: 15285663--15285821 Score: 291
Period size: 71 Copynumber: 2.2 Consensus size: 71
15285653 AGTAACCATA
*
15285663 TGCCTACCTTGCAACTTGAACCCTGAACCTTTAATTCCTTCCTAGACGCCATCTTTTTTAGGAAC
1 TGCC-ACCTTGCCACTTGAACCCTGAACCTTTAATTCCTTCCTAGACGCCATCTTTTTTAGGAAC
15285728 TTAGTGG
65 TTAGTGG
*
15285735 TGCCACCTTGCCACTTGAACCCTGGACCTTTAATTCCTTCCTAGACGCCATCTTTTTTAGGAACT
1 TGCCACCTTGCCACTTGAACCCTGAACCTTTAATTCCTTCCTAGACGCCATCTTTTTTAGGAACT
15285800 TAGTGG
66 TAGTGG
15285806 TGCCACCTTGCCACTT
1 TGCCACCTTGCCACTT
15285822 TACCAAGGCC
Statistics
Matches: 85, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
71 81 0.95
72 4 0.05
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.34
Consensus pattern (71 bp):
TGCCACCTTGCCACTTGAACCCTGAACCTTTAATTCCTTCCTAGACGCCATCTTTTTTAGGAACT
TAGTGG
Found at i:15290893 original size:28 final size:29
Alignment explanation
Indices: 15290829--15290930 Score: 84
Period size: 29 Copynumber: 3.6 Consensus size: 29
15290819 GCATGAGTAT
* *
15290829 AATATGATTTGGGCCTAATGGGCCATATG
1 AATATGAATTGGGCCTAATGGGCCATAAG
** * *
15290858 AAGGTGAATTGGGCC-AGTGGGTCATAAG
1 AATATGAATTGGGCCTAATGGGCCATAAG
* **
15290886 AATATGAAATGGG-CTAGATGGGCCATTTG
1 AATATGAATTGGGCCTA-ATGGGCCATAAG
*
15290915 AATAAG-ATTGGGCCTA
1 AATATGAATTGGGCCTA
15290931 GTAGGCTATA
Statistics
Matches: 55, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
27 1 0.02
28 26 0.47
29 28 0.51
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.26
Consensus pattern (29 bp):
AATATGAATTGGGCCTAATGGGCCATAAG
Found at i:15295055 original size:8 final size:8
Alignment explanation
Indices: 15295042--15295088 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
15295032 ATCGACAAAG
*
15295042 GCCGAAAT
1 GCCGAAAA
15295050 GCCGAAAA
1 GCCGAAAA
*
15295058 GCTGAAAA
1 GCCGAAAA
15295066 GCC-AAAA
1 GCCGAAAA
*
15295073 TGCCAAAAA
1 -GCCGAAAA
15295082 GCCGAAA
1 GCCGAAA
15295089 GTTGGGCTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 4 0.12
8 25 0.76
9 4 0.12
ACGTcount: A:0.49, C:0.23, G:0.21, T:0.06
Consensus pattern (8 bp):
GCCGAAAA
Found at i:15295230 original size:18 final size:19
Alignment explanation
Indices: 15295185--15295231 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
15295175 ACTTGGGTTG
* *
15295185 AGAATTGGCTAAATGGGCC
1 AGAATGGGCTAAATGGGAC
15295204 AGAATGGGCTAAATGGGAC
1 AGAATGGGCTAAATGGGAC
*
15295223 TG-ATGGGCT
1 AGAATGGGCT
15295232 GTTGGGCCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.30, C:0.13, G:0.36, T:0.21
Consensus pattern (19 bp):
AGAATGGGCTAAATGGGAC
Found at i:15295384 original size:29 final size:30
Alignment explanation
Indices: 15295304--15295406 Score: 108
Period size: 28 Copynumber: 3.6 Consensus size: 30
15295294 GTATGAGTAT
*
15295304 AATATGATTTGGGCCTA-ATAGGCCATATG
1 AATATGAATTGGGCCTAGATAGGCCATATG
* * *
15295333 AA-GTGAATTGGGCCTAG-TGGGCCATAAG
1 AATATGAATTGGGCCTAGATAGGCCATATG
* *
15295361 AATATGAATTGGGCC-AGATCGGCCATTTG
1 AATATGAATTGGGCCTAGATAGGCCATATG
*
15295390 AATAAG-ATTGGGCCTAG
1 AATATGAATTGGGCCTAG
15295407 TGGGCTATAT
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
28 33 0.54
29 28 0.46
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (30 bp):
AATATGAATTGGGCCTAGATAGGCCATATG
Done.