Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 86 of 356
Found at i:27037756 original size:19 final size:19
Alignment explanation
Indices: 27037732--27037829 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
27037722 AATCTTTAAG
*
27037732 GATATGCAATTTTAGATAT
1 GATATGCAATCTTAGATAT
*
27037751 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
27037770 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
27037787 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
27037806 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
27037827 GAT
1 GAT
27037830 CTTGTAATCT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
21 9 0.12
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:27037784 original size:36 final size:37
Alignment explanation
Indices: 27037732--27037829 Score: 135
Period size: 36 Copynumber: 2.6 Consensus size: 37
27037722 AATCTTTAAG
*
27037732 GATATGCAATTTTAGATATGATATGCAATATTAGATAT
1 GATA-GCAATCTTAGATATGATATGCAATATTAGATAT
*
27037770 GATA-CAATCTTAGATATGATATGCAATCTTAGATAT
1 GATAGCAATCTTAGATATGATATGCAATATTAGATAT
27037806 GATATGCAATCTTGAAGATATGAT
1 GATA-GCAATCTT--AGATATGAT
27037830 CTTGTAATCT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
36 34 0.63
38 11 0.20
40 9 0.17
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (37 bp):
GATAGCAATCTTAGATATGATATGCAATATTAGATAT
Found at i:27038361 original size:25 final size:25
Alignment explanation
Indices: 27038333--27038381 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
27038323 GTGCATAGTT
27038333 TCATTT-TTTTATATGCTATGTTTAA
1 TCATTTCTTTTATATGCTAT-TTTAA
*
27038358 TCATTTCTTTTATGTGCTATTTTA
1 TCATTTCTTTTATATGCTATTTTA
27038382 TGATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.20, C:0.10, G:0.08, T:0.61
Consensus pattern (25 bp):
TCATTTCTTTTATATGCTATTTTAA
Found at i:27046719 original size:21 final size:21
Alignment explanation
Indices: 27046695--27046734 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
27046685 AACCGTATCG
*
27046695 GAATAGGTAAGGGCGTCACTA
1 GAATAGGTAAGGGCATCACTA
27046716 GAATAGGTAAGGGCATCAC
1 GAATAGGTAAGGGCATCAC
27046735 CGGACGGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.33, T:0.17
Consensus pattern (21 bp):
GAATAGGTAAGGGCATCACTA
Found at i:27050850 original size:63 final size:64
Alignment explanation
Indices: 27050748--27050890 Score: 162
Period size: 63 Copynumber: 2.2 Consensus size: 64
27050738 GACACGAGCA
* * * * *
27050748 TATGCCCAGGCCGTGTAACTCACTATCTGAGGTATAAAAACCATATGGCC-AGGGACACGGACG
1 TATGCCCAGGCCGTGTAACTCAATATCTGAGCTAAAAAAACCACACGGCCAAGGGACACGGACG
* * * * * *
27050811 TATGCCCAGGCCGTGTAACTCAATGTTTGTGCTAAAAAAATCACACGGCCAAGGTACACGGGCG
1 TATGCCCAGGCCGTGTAACTCAATATCTGAGCTAAAAAAACCACACGGCCAAGGGACACGGACG
* *
27050875 TGTGCTCAGGCCGTGT
1 TATGCCCAGGCCGTGT
27050891 GGTAGGATGT
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
63 41 0.62
64 25 0.38
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (64 bp):
TATGCCCAGGCCGTGTAACTCAATATCTGAGCTAAAAAAACCACACGGCCAAGGGACACGGACG
Found at i:27056883 original size:42 final size:42
Alignment explanation
Indices: 27056831--27056915 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
27056821 GCTCTCTTCT
*
27056831 ACTCCATACGCACAATAGATATAAAATCTGCTAGAATAGATG
1 ACTCCATACGCACAACAGATATAAAATCTGCTAGAATAGATG
* * * *
27056873 ACTCTATACGCACAGCAGATATAAGATGTGCTAGAATAGATG
1 ACTCCATACGCACAACAGATATAAAATCTGCTAGAATAGATG
27056915 A
1 A
27056916 TGACTAGAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (42 bp):
ACTCCATACGCACAACAGATATAAAATCTGCTAGAATAGATG
Found at i:27056924 original size:16 final size:16
Alignment explanation
Indices: 27056903--27056934 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27056893 ATAAGATGTG
27056903 CTAGAATAGATGATGA
1 CTAGAATAGATGATGA
27056919 CTAGAATAGATGATGA
1 CTAGAATAGATGATGA
27056935 TTGATGCGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (16 bp):
CTAGAATAGATGATGA
Found at i:27058143 original size:14 final size:13
Alignment explanation
Indices: 27058112--27058152 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
27058102 TTTTACTATT
*
27058112 ATATATAAATATA
1 ATATATAGATATA
27058125 A-ATATAGATATA
1 ATATATAGATATA
27058137 GATATATAGAT-TA
1 -ATATATAGATATA
27058150 ATA
1 ATA
27058153 ATAAAAAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 13 0.52
13 4 0.16
14 8 0.32
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (13 bp):
ATATATAGATATA
Found at i:27058759 original size:7 final size:7
Alignment explanation
Indices: 27058721--27058757 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
27058711 ATTAAATTTT
27058721 TAAAAAA
1 TAAAAAA
27058728 TAAAAAA
1 TAAAAAA
*
27058735 TAAAAAT
1 TAAAAAA
27058742 TAAAAAA
1 TAAAAAA
*
27058749 TATAAAA
1 TAAAAAA
27058756 TA
1 TA
27058758 TATTTTAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAAAAA
Found at i:27061732 original size:16 final size:15
Alignment explanation
Indices: 27061713--27061742 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
27061703 TTCATTTCTT
27061713 TTGCATTTAGATTAAC
1 TTGCATTTAG-TTAAC
27061729 TTGCATTTAGTTAA
1 TTGCATTTAGTTAA
27061743 TTAATTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (15 bp):
TTGCATTTAGTTAAC
Found at i:27062458 original size:23 final size:23
Alignment explanation
Indices: 27062428--27062474 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
27062418 TAAGATGTTT
27062428 TCAATAGTTTTGCAAAATAAATA
1 TCAATAGTTTTGCAAAATAAATA
27062451 TCAATAGTTTTGCAAAATAAATA
1 TCAATAGTTTTGCAAAATAAATA
27062474 T
1 T
27062475 TGATTTAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.36
Consensus pattern (23 bp):
TCAATAGTTTTGCAAAATAAATA
Found at i:27063057 original size:13 final size:13
Alignment explanation
Indices: 27063039--27063079 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
27063029 CAAAAAAATC
*
27063039 TATTTTTTATTTT
1 TATTTTTTATTAT
*
27063052 TATTTTTTAATAT
1 TATTTTTTATTAT
27063065 TATTTTCTTATTAT
1 TATTTT-TTATTAT
27063079 T
1 T
27063080 TTCTCCCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 17 0.71
14 7 0.29
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (13 bp):
TATTTTTTATTAT
Found at i:27064957 original size:3 final size:3
Alignment explanation
Indices: 27064951--27065148 Score: 122
Period size: 3 Copynumber: 65.3 Consensus size: 3
27064941 TATCATCATC
* **
27064951 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GAAA ATGA GGA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA AT-A ATA ATA
* ** * *
27064998 ATA ATA A-A AAA ACC ATA AT- ATAA ATA ATAA ATA A-A A-A ACA AAA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT-A ATA ATA ATA ATA ATA
* *
27065041 ATA GA-A ATG GTA ATA ATA ATA ATA ATA ATA ATA A-A TATA AGTA ATA
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA A-TA ATA
* * * * * *
27065087 GTA ATA GTA ATA ATA AGA GTA TTA ATA ATAA ATA GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
27065133 A-A ATTA ATA ATA ATA A
1 ATA A-TA ATA ATA ATA A
27065149 AAATTGATTA
Statistics
Matches: 153, Mismatches: 27, Indels: 30
0.73 0.13 0.14
Matches are distributed among these distances:
2 12 0.08
3 123 0.80
4 18 0.12
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:27065043 original size:26 final size:26
Alignment explanation
Indices: 27064965--27065048 Score: 71
Period size: 26 Copynumber: 3.1 Consensus size: 26
27064955 TAATAATAAT
* * *
27064965 AATAATAATAATAATAATAGAAAATGAGG
1 AATAATAATAA-AAAAACA-AAAAT-AGA
* * *
27064994 AATAATAATAAAAAAACCATAATATA
1 AATAATAATAAAAAAACAAAAATAGA
27065020 AATAATAA-ATAAAAAACAAAAATAGA
1 AATAATAATA-AAAAAACAAAAATAGA
27065046 AAT
1 AAT
27065049 GGTAATAATA
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
25 1 0.02
26 25 0.56
27 4 0.09
28 4 0.09
29 11 0.24
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.21
Consensus pattern (26 bp):
AATAATAATAAAAAAACAAAAATAGA
Found at i:27065076 original size:28 final size:26
Alignment explanation
Indices: 27064951--27065148 Score: 104
Period size: 28 Copynumber: 7.3 Consensus size: 26
27064941 TATCATCATC
27064951 ATAATAATAATAATAAT-AA-TAATA
1 ATAATAATAATAATAATAAATTAATA
* * **
27064975 ATAATAATAGAAAATGAGGAA-TAATA
1 ATAATAATA-ATAATAATAAATTAATA
* *
27065001 ATAAAAAAACCATAAT-ATAAA-TAATAA
1 ATAATAATA--ATAATAATAAATTAAT-A
* *
27065028 ATAA-AA-AACAAAAATAGAAATGGTAATA
1 ATAATAATAATAATAAT--AAAT--TAATA
27065056 ATAATAATAATAATAATAAATATAAGTA
1 ATAATAATAATAATAATAAAT-TAA-TA
* *
27065084 ATAGTAATAGTAATAATAAGAGTATTAATA
1 ATAATAATAATAATAAT-A-A--ATTAATA
*
27065114 ATAAATAGTAATAATAATAAAATTAATA
1 AT-AATAATAATAATAAT-AAATTAATA
27065142 ATAATAA
1 ATAATAA
27065149 AAATTGATTA
Statistics
Matches: 136, Mismatches: 20, Indels: 33
0.72 0.11 0.17
Matches are distributed among these distances:
23 3 0.02
24 11 0.08
25 6 0.04
26 26 0.19
27 16 0.12
28 35 0.26
29 7 0.05
30 13 0.10
31 17 0.12
32 2 0.01
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.28
Consensus pattern (26 bp):
ATAATAATAATAATAATAAATTAATA
Found at i:27066923 original size:43 final size:42
Alignment explanation
Indices: 27066809--27066935 Score: 137
Period size: 43 Copynumber: 2.9 Consensus size: 42
27066799 TATGAATTTG
* * * *
27066809 TAACCTTAACTTGCTCCACTGCAACTTCAGGGAGATAAGGTT
1 TAACTTTAACCTGCTCCACTGTAACTTCAGGGAGATAAGCTT
* * **
27066851 TGCTATTTTCAGTCTGCTCCACTGTAACTTCAGGGAGATAAGACTT
1 T--AACTTT-AACCTGCTCCACTGTAACTTCAGGGAGATAAG-CTT
*
27066897 TAACTTTAACCTGCTCCACTGTAACTTCAGGAAGATAAG
1 TAACTTTAACCTGCTCCACTGTAACTTCAGGGAGATAAG
27066936 GTTCGCTGTG
Statistics
Matches: 68, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
42 1 0.01
43 29 0.43
44 7 0.10
45 28 0.41
46 3 0.04
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (42 bp):
TAACTTTAACCTGCTCCACTGTAACTTCAGGGAGATAAGCTT
Found at i:27066933 original size:88 final size:88
Alignment explanation
Indices: 27066820--27067338 Score: 368
Period size: 88 Copynumber: 5.8 Consensus size: 88
27066810 AACCTTAACT
* *
27066820 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATTTTCAGTCTGCTCCACTGTAACTTCAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGG
*
27066885 GAGATAAGACTTTAACTTTAACC
66 GAGATAAGACTTTAACTTCAACC
* * * * * * * * * *
27066908 TGCTCCACTGTAACTTCAGGAAGATAAGGTTCGC--T-GTGA-TCTACTCTATTGCAACTTAAGA
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGG
* * * *
27066969 TAGATAATATCTGTTTATTTATAACTTTAATC
66 GAGAT-A-A---G---ACTT-TAACTTCAACC
* * *
27067001 TGTTCCACTGCAACTTCAGGGA-A-AAGATTCGCTATCTTCAGT-TCGCTCCACTGCAACTTCAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATCTTCAGTCT-GCTCCACTGCAACTTCAG
27067063 GGAGATAAGACTTTAACTTCAACC
65 GGAGATAAGACTTTAACTTCAACC
* * * ** * * *
27067087 TACTCCACTACAACTTTAGGGAGATAAGGTTTGCTA---T-A-TCTGCTCTGCTGAAACTTTAGA
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGG
* *
27067147 GAGATGAGATCTGCTTATTTATAGCTTCAAAC
66 GAGATAAGA----C---TTTA-A-CTTCAACC
* * * * *
27067179 TGTTCCACTGCAACTTTAGGGA-A-AAGATTAGCTATCTTCGGTCTGCTCCACTGCAACTTCAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGG
27067242 GAGATAAGACTTTAACTTCAACC
66 GAGATAAGACTTTAACTTCAACC
* ** * * *
27067265 TGC-CTTACTGCAACTTCAGGGAGATAAGGTTTAG-TGGCTTCAATCTGCTTCACTGCAACTTCG
1 TGCTC-CACTGCAACTTCAGGGAGATAAGGTTT-GCTATCTTCAGTCTGCTCCACTGCAACTTCA
27067328 GGGAGATAAGA
64 GGGAGATAAGA
27067339 TCCGCCATTA
Statistics
Matches: 330, Mismatches: 66, Indels: 70
0.71 0.14 0.15
Matches are distributed among these distances:
83 23 0.07
84 22 0.07
85 5 0.02
86 53 0.16
87 7 0.02
88 83 0.25
89 2 0.01
90 14 0.04
91 11 0.03
92 30 0.09
93 32 0.10
94 4 0.01
95 44 0.13
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (88 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGG
GAGATAAGACTTTAACTTCAACC
Found at i:27067083 original size:43 final size:43
Alignment explanation
Indices: 27067004--27067114 Score: 104
Period size: 43 Copynumber: 2.6 Consensus size: 43
27066994 TTTAATCTGT
* ** *
27067004 TCCACTGCAACTTCAGGGA-A-AAGATTCGCTATCTTC-AGTTCGC
1 TCCACTGCAACTTCAGGGAGATAAGATT--CTAACTTCAACCT-AC
27067047 TCCACTGCAACTTCAGGGAGATAAGACTT-TAACTTCAACCTAC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTCTAACTTCAACCTAC
* *
27067090 TCCACTACAACTTTAGGGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAAG
27067115 GTTTGCTATA
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
43 49 0.84
44 3 0.05
45 4 0.07
46 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
TCCACTGCAACTTCAGGGAGATAAGATTCTAACTTCAACCTAC
Found at i:27067229 original size:178 final size:179
Alignment explanation
Indices: 27066823--27067296 Score: 639
Period size: 178 Copynumber: 2.6 Consensus size: 179
27066813 CTTAACTTGC
* * * *
27066823 TCCACTGCAACTTCAGGGAGATAAGGTTTGCTATTTTCAGTCTGCTCCACTGTAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGA-A-AAGATTAGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
* * * * *
27066888 ATAAGACTTTAACTTTAACCTGCTCCACTGTAACTTCAGGAAGATAAGGTTCGCTGTGATCTACT
64 ATAAGACTTTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATCTACT
* * * * * * *
27066953 CTATTGCAACTTAAGATAGATAATATCTGTTTATTTATAACTTTAATCTGT
129 CTACTGAAACTTAAGAGAGATAAGATCTGCTTATTTATAACTTCAAACTGT
*
27067004 TCCACTGCAACTTCAGGGAAAAGATTCGCTATCTTCAGT-TCGCTCCACTGCAACTTCAGGGAGA
1 TCCACTGCAACTTCAGGGAAAAGATTAGCTATCTTCAGTCT-GCTCCACTGCAACTTCAGGGAGA
* * * *
27067068 TAAGACTTTAACTTCAACCTACTCCACTACAACTTTAGGGAGATAAGGTTTGCTAT-ATCTGCTC
65 TAAGACTTTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATCTACTC
* * * *
27067132 TGCTGAAACTTTAGAGAGATGAGATCTGCTTATTTATAGCTTCAAACTGT
130 TACTGAAACTTAAGAGAGATAAGATCTGCTTATTTATAACTTCAAACTGT
* *
27067182 TCCACTGCAACTTTAGGGAAAAGATTAGCTATCTTCGGTCTGCTCCACTGCAACTTCAGGGAGAT
1 TCCACTGCAACTTCAGGGAAAAGATTAGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
*
27067247 AAGACTTTAACTTCAACCTGC-CTTACTGCAACTTCAGGGAGATAAGGTTT
66 AAGACTTTAACTTCAACCTGCTC-CACTGCAACTTCAGGGAGATAAGGTTT
27067297 AGTGGCTTCA
Statistics
Matches: 259, Mismatches: 31, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
177 1 0.00
178 151 0.58
179 87 0.34
180 1 0.00
181 19 0.07
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (179 bp):
TCCACTGCAACTTCAGGGAAAAGATTAGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
AAGACTTTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATCTACTCT
ACTGAAACTTAAGAGAGATAAGATCTGCTTATTTATAACTTCAAACTGT
Found at i:27067275 original size:43 final size:44
Alignment explanation
Indices: 27067221--27067338 Score: 143
Period size: 45 Copynumber: 2.7 Consensus size: 44
27067211 TATCTTCGGT
*
27067221 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTTA-ACTTCAAC
1 CTGCTTCACTGCAACTTCAGGGAGATAAGACTTTAGACTTCAAC
* * *
27067264 CTGCCTT-ACTGCAACTTCAGGGAGATAAG-GTTTAGTGGCTTCAAT
1 CTG-CTTCACTGCAACTTCAGGGAGATAAGACTTTA--GACTTCAAC
*
27067309 CTGCTTCACTGCAACTTCGGGGAGATAAGA
1 CTGCTTCACTGCAACTTCAGGGAGATAAGA
27067339 TCCGCCATTA
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
42 4 0.06
43 25 0.39
44 5 0.08
45 30 0.47
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (44 bp):
CTGCTTCACTGCAACTTCAGGGAGATAAGACTTTAGACTTCAAC
Found at i:27071799 original size:45 final size:43
Alignment explanation
Indices: 27071639--27071815 Score: 157
Period size: 43 Copynumber: 4.0 Consensus size: 43
27071629 AGATCTGTTT
* * *
27071639 ATTTATAGCTTCAATCTGATCCACTGCAACTTTAGGGA-A-AAT
1 ATTTAT-GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* *
27071681 ATTCACTAT-CTTCGATCTGCTCCACT-CTAACTTTAGGGAGATAAG
1 ATT---TATGCTTCAATCTGCTCCACTGC-AACTTCAGGGAGATAAG
* * *
27071726 ACTTTA-ACTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAG
1 A-TTTATGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* *
27071769 GTTTAGTGGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAG
1 ATTTA-T-GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
27071814 AT
1 AT
27071816 CCGCCATTAT
Statistics
Matches: 110, Mismatches: 13, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
42 8 0.07
43 58 0.53
44 2 0.02
45 40 0.36
46 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (43 bp):
ATTTATGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
Found at i:27073254 original size:43 final size:44
Alignment explanation
Indices: 27073158--27073279 Score: 151
Period size: 43 Copynumber: 2.8 Consensus size: 44
27073148 TATTTATAGG
* *
27073158 TTCAATCTGCTCCACTGCAACTTCAGGGA-A-AAGATTTGCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-CTAAC
***
27073201 TTTGGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-TAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTCTAAC
* *
27073244 TTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
27073280 TCTGCCATCA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
43 60 0.90
44 1 0.01
45 6 0.09
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTCTAAC
Found at i:27076145 original size:21 final size:20
Alignment explanation
Indices: 27076088--27076147 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
27076078 TTAGGTTTTA
27076088 TATATTAAATTATATATATAT
1 TATATTAAATTAT-TATATAT
* * *
27076109 TATAATGATTATTATTATAGTTT
1 TAT-ATTA-AATTATTATA-TAT
27076132 TATATTAAATTATTAT
1 TATATTAAATTATTAT
27076148 GATTACTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 11 0.35
22 10 0.32
23 10 0.32
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
TATATTAAATTATTATATAT
Found at i:27078136 original size:39 final size:40
Alignment explanation
Indices: 27078029--27078139 Score: 111
Period size: 38 Copynumber: 2.8 Consensus size: 40
27078019 GACTTCGAGT
* **
27078029 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGATAGAGC
** ** *
27078070 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
27078108 CGATGAGACACTGGGTGTCAACTATTACTTCG
1 CGATGAGACACTGGGTGTCAACTATTACTTCG
27078140 AACTATCTGA
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.34
39 19 0.34
40 1 0.02
41 15 0.27
42 2 0.04
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
Found at i:27080398 original size:9 final size:9
Alignment explanation
Indices: 27080384--27080469 Score: 120
Period size: 9 Copynumber: 9.6 Consensus size: 9
27080374 ATAAGTATAA
27080384 AATTAACCG
1 AATTAACCG
27080393 AATTAACCG
1 AATTAACCG
*
27080402 AATTAATCG
1 AATTAACCG
27080411 AATTAACCG
1 AATTAACCG
27080420 AATT-ACTCG
1 AATTAAC-CG
*
27080429 AATTACCCG
1 AATTAACCG
*
27080438 AATTAACCA
1 AATTAACCG
27080447 AATTAACCG
1 AATTAACCG
*
27080456 AATTAATCG
1 AATTAACCG
27080465 AATTA
1 AATTA
27080470 TTTGTATAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
8 2 0.03
9 65 0.96
10 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:27080504 original size:5 final size:6
Alignment explanation
Indices: 27080489--27080535 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
27080479 AATTATATGT
*
27080489 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTTTTA TTT
27080536 ATTAAGTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 28 0.76
7 8 0.22
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:27080517 original size:20 final size:20
Alignment explanation
Indices: 27080494--27080532 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
27080484 TATGTTTTTT
27080494 ATTTTTATTTTTAGTTTTAG
1 ATTTTTATTTTTAGTTTTAG
*
27080514 ATTTTTATTTTTATTTTTA
1 ATTTTTATTTTTAGTTTTA
27080533 TTTATTAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (20 bp):
ATTTTTATTTTTAGTTTTAG
Found at i:27080576 original size:13 final size:13
Alignment explanation
Indices: 27080560--27080584 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27080550 AATTATTATG
27080560 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
27080573 ATTGGGTTGGGT
1 ATTGGGTTGGGT
27080585 TGGGTACTTG
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:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:27080584 original size:18 final size:18
Alignment explanation
Indices: 27080561--27080598 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
27080551 ATTATTATGA
27080561 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
27080579 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
27080597 TT
1 TT
27080599 AATATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.03, G:0.47, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:27091144 original size:3 final size:3
Alignment explanation
Indices: 27091136--27091311 Score: 94
Period size: 3 Copynumber: 58.3 Consensus size: 3
27091126 AACTACATAT
* **
27091136 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GAAA ATGA GGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA AT-A ATA
* ** *
27091183 ATA ATA ATA ATA ACA ACC ATA AT- ATAA ATA ATAA ATA A-A A-A ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT-A ATA ATA ATA ATA
* * * * *
27091227 AAA ATA GA-A ATG GTA GTA ATA ATA AAA ATA A-A AT- ATA AGTA ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
* * * * *
27091271 GTA ATA ATA ACA GTA TTA ATA ATAA ATA GTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA A
27091312 AATTACTAAA
Statistics
Matches: 134, Mismatches: 27, Indels: 24
0.72 0.15 0.13
Matches are distributed among these distances:
2 11 0.08
3 108 0.81
4 15 0.11
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:27091253 original size:29 final size:29
Alignment explanation
Indices: 27091150--27091280 Score: 76
Period size: 29 Copynumber: 4.6 Consensus size: 29
27091140 TAATAATAAT
* * *
27091150 AATAATAATAATAATAATAATAGAAAATGAGG
1 AATAATAGTAATAATAA-AA-ATAAAAT-AGA
* * ** *
27091182 AATAATAATAATAACAACCAT--AATATA
1 AATAATAGTAATAATAAAAATAAAATAGA
27091209 AATAATA--AATAA-AAAACA-AAAATAGA
1 AATAATAGTAATAATAAAA-ATAAAATAGA
** *
27091235 AATGGTAGTAATAATAAAAATAAAATATA
1 AATAATAGTAATAATAAAAATAAAATAGA
*
27091264 AGTAATAGTAATAATAA
1 AATAATAGTAATAATAA
27091281 CAGTATTAAT
Statistics
Matches: 77, Mismatches: 15, Indels: 17
0.71 0.14 0.16
Matches are distributed among these distances:
24 2 0.03
25 6 0.08
26 10 0.13
27 8 0.10
28 9 0.12
29 25 0.32
30 1 0.01
32 16 0.21
ACGTcount: A:0.65, C:0.03, G:0.08, T:0.24
Consensus pattern (29 bp):
AATAATAGTAATAATAAAAATAAAATAGA
Found at i:27091279 original size:32 final size:31
Alignment explanation
Indices: 27091209--27091280 Score: 74
Period size: 32 Copynumber: 2.3 Consensus size: 31
27091199 CCATAATATA
*
27091209 AATAATAAATAAAAAACAAAAATAGAAATGGT
1 AATAAT-AATAAAAAACAAAAATAGAAATAGT
* * *
27091241 AGTAATAATAAAAATA-AAATATAAGTAATAGT
1 AATAATAATAAAAA-ACAAAAAT-AGAAATAGT
27091273 AATAATAA
1 AATAATAA
27091281 CAGTATTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.67, C:0.01, G:0.08, T:0.24
Consensus pattern (31 bp):
AATAATAATAAAAAACAAAAATAGAAATAGT
Found at i:27091316 original size:28 final size:28
Alignment explanation
Indices: 27091246--27091316 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
27091236 ATGGTAGTAA
*
27091246 TAATAAAAATAAAA-T-ATAAGTAATAG
1 TAATAATAATAAAATTAATAAGTAATAG
* **
27091272 TAATAATAACAGTATTAATAA-TAAATAG
1 TAATAATAATAAAATTAATAAGT-AATAG
27091300 TAATAATAATAAAATTA
1 TAATAATAATAAAATTA
27091317 CTAAAAAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
26 10 0.29
27 2 0.06
28 23 0.66
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (28 bp):
TAATAATAATAAAATTAATAAGTAATAG
Found at i:27092265 original size:14 final size:14
Alignment explanation
Indices: 27092231--27092278 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
27092221 AATACAACCC
* *
27092231 TTGTTCTCTTCGTTT
1 TTGTT-TCTTTGTTG
27092246 TTGTTT-TTGTGTTG
1 TTGTTTCTT-TGTTG
27092260 TTGTTTCTTTGTTG
1 TTGTTTCTTTGTTG
27092274 TTGTT
1 TTGTT
27092279 GTCCCGTGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 2 0.07
14 20 0.69
15 7 0.24
ACGTcount: A:0.00, C:0.08, G:0.21, T:0.71
Consensus pattern (14 bp):
TTGTTTCTTTGTTG
Found at i:27093779 original size:43 final size:43
Alignment explanation
Indices: 27093730--27093880 Score: 180
Period size: 43 Copynumber: 3.5 Consensus size: 43
27093720 TATCCCAAAT
* * *
27093730 ATGGTCTTACATGTTATCACATATCGATGCCATTGTCCCAGAC
1 ATGGTCTTACATGTAATCACATATCGATCCCAATGTCCCAGAC
* * * *
27093773 AGGGTCTTACACGAAATCATATAAT-GATCCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACAT-ATCGATCCCAATGTCCCAGAC
* *
27093816 ATGGTCTTACATGTAATCACA-ATACAATTCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATAT-CGATCCCAATGTCCCAGAC
*
27093859 ATGGTCTTACATGTAGTCACAT
1 ATGGTCTTACATGTAATCACAT
27093881 CTTGATAGCC
Statistics
Matches: 90, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
41 2 0.02
43 86 0.96
44 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATATCGATCCCAATGTCCCAGAC
Found at i:27097047 original size:25 final size:25
Alignment explanation
Indices: 27096980--27097047 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 25
27096970 ATTCATGTAT
27096980 GCTCATACGAGCTGTA-AACGAGAA
1 GCTCATACGAGCTGTATAACGAGAA
* * * * *
27097004 GCTCCTTCGAGTTGAATAACGGGAA
1 GCTCATACGAGCTGTATAACGAGAA
*
27097029 GCTCATGCGAGCTGTATAA
1 GCTCATACGAGCTGTATAA
27097048 TAGGAAACTC
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
24 12 0.35
25 22 0.65
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (25 bp):
GCTCATACGAGCTGTATAACGAGAA
Found at i:27098356 original size:44 final size:44
Alignment explanation
Indices: 27098306--27098394 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
27098296 GTCATTGATA
*
27098306 AATACATAGTCATAAAATTTAACCTATTAAAAATTATTTATTTC
1 AATACATAGTCATAAAATTTAACCTAATAAAAATTATTTATTTC
27098350 AATACATAGTCATAAAATTTAACCTAATAAAAATTATTTATTTC
1 AATACATAGTCATAAAATTTAACCTAATAAAAATTATTTATTTC
27098394 A
1 A
27098395 TAATTTTTAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.39
Consensus pattern (44 bp):
AATACATAGTCATAAAATTTAACCTAATAAAAATTATTTATTTC
Found at i:27098745 original size:12 final size:11
Alignment explanation
Indices: 27098697--27098756 Score: 61
Period size: 12 Copynumber: 5.5 Consensus size: 11
27098687 CAAAAAAAAT
27098697 GAAAAATATTA
1 GAAAAATATTA
*
27098708 GAAAAATATTTT
1 GAAAAATA-TTA
*
27098720 GAGAAATA-T-
1 GAAAAATATTA
27098729 GAAAAATATTA
1 GAAAAATATTA
27098740 GAAAAATTATTA
1 GAAAAA-TATTA
*
27098752 TAAAA
1 GAAAA
27098757 GGTAAAAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
9 7 0.17
10 2 0.05
11 14 0.34
12 18 0.44
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (11 bp):
GAAAAATATTA
Found at i:27099072 original size:33 final size:33
Alignment explanation
Indices: 27099026--27099098 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 33
27099016 CAATAGCAAT
27099026 TTTTATTTATTTATAATATTT-TATA-AATTTTA
1 TTTTATTTATTTATAATATTTCTATATAA-TTTA
* *
27099058 TTTTAGTTTTTTTATAATTTTTCTATATAATTTA
1 TTTTA-TTTATTTATAATATTTCTATATAATTTA
27099092 -TTTATTT
1 TTTTATTT
27099099 TTATAACAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
32 8 0.22
33 18 0.50
34 8 0.22
35 2 0.06
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (33 bp):
TTTTATTTATTTATAATATTTCTATATAATTTA
Found at i:27099175 original size:21 final size:20
Alignment explanation
Indices: 27099119--27099175 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 20
27099109 TATAGAAAAA
* * *
27099119 TAAAAATTATTAAAAGTT-T
1 TAAAAACTATAAAAATTTAT
* *
27099138 TAAAAACTATTAGAATTTAT
1 TAAAAACTATAAAAATTTAT
27099158 TAAAATACTATAAAAATT
1 TAAAA-ACTATAAAAATT
27099176 ATGAACCTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 15 0.48
20 6 0.19
21 10 0.32
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (20 bp):
TAAAAACTATAAAAATTTAT
Found at i:27099176 original size:66 final size:66
Alignment explanation
Indices: 27099100--27099224 Score: 157
Period size: 66 Copynumber: 1.9 Consensus size: 66
27099090 TATTTATTTT
*
27099100 TATAACAATTATAGAA-AAATA-AAAATTATTAAAAGTTTTAAAAACTATTAG-AATTTATTAAA
1 TATAAAAATTAT-GAACAAATAGAAAATT-TTAAAA-TTTTAAAAACTATTAGAAATTTATTAAA
27099162 ATAC
63 ATAC
** *
27099166 TATAAAAATTATGAACCTTATAGAAAATTTTAAAATTTTAAAAATTATTAGAAATTTAT
1 TATAAAAATTATGAA-CAAATAGAAAATTTTAAAATTTTAAAAACTATTAGAAATTTAT
27099225 AATATATAGA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
65 3 0.06
66 26 0.51
67 16 0.31
68 6 0.12
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.38
Consensus pattern (66 bp):
TATAAAAATTATGAACAAATAGAAAATTTTAAAATTTTAAAAACTATTAGAAATTTATTAAAATA
C
Found at i:27099307 original size:24 final size:24
Alignment explanation
Indices: 27099270--27099317 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
27099260 ATTACTTATC
*
27099270 ATTTTATAAAATTTTAATAATTTT
1 ATTTTATAAAATTTCAATAATTTT
* *
27099294 ATTTTGTAACATTTCAATAATTTT
1 ATTTTATAAAATTTCAATAATTTT
27099318 TATTAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (24 bp):
ATTTTATAAAATTTCAATAATTTT
Found at i:27109952 original size:30 final size:30
Alignment explanation
Indices: 27109916--27109974 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
27109906 AGTTTCAGAT
27109916 TGAAGAAAAAGTTTTCTCGAAAGTATCACC
1 TGAAGAAAAAGTTTTCTCGAAAGTATCACC
*
27109946 TGAAGAAAAAGTTTTCTTGAAAGTATCAC
1 TGAAGAAAAAGTTTTCTCGAAAGTATCAC
27109975 TGTGGAAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.29
Consensus pattern (30 bp):
TGAAGAAAAAGTTTTCTCGAAAGTATCACC
Found at i:27116548 original size:20 final size:19
Alignment explanation
Indices: 27116508--27116549 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
27116498 TTTTCCAAAT
*
27116508 TTTCTTACTTTCATTTGCA
1 TTTCTTACTTTCATTTACA
27116527 TTTCATTACTTTCCA-TTACA
1 TTTC-TTACTTT-CATTTACA
27116547 TTT
1 TTT
27116550 ACTTTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 14 0.70
21 2 0.10
ACGTcount: A:0.19, C:0.21, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTCTTACTTTCATTTACA
Found at i:27124499 original size:20 final size:20
Alignment explanation
Indices: 27124474--27124520 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
27124464 AGTCATGGAC
27124474 ATGGTTTAAATGAAATTTTA
1 ATGGTTTAAATGAAATTTTA
27124494 ATGGTTTAAATGAAATTTTA
1 ATGGTTTAAATGAAATTTTA
27124514 ATGGTTT
1 ATGGTTT
27124521 TAAAAGGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (20 bp):
ATGGTTTAAATGAAATTTTA
Found at i:27131301 original size:65 final size:65
Alignment explanation
Indices: 27131190--27131323 Score: 232
Period size: 65 Copynumber: 2.1 Consensus size: 65
27131180 GAGAATACCC
*
27131190 TCAAATTGTGAGCTTTTGGTATGCTTCGCGGAAAAGATTCCGAGGATAAGGACTTTGTGGTCCGG
1 TCAAATTGTGAGCTTTTGGTATGCTTCGCGGAAAAGATTACGAGGATAAGGACTTTGTGGTCCGG
** *
27131255 TCAAATTGTGAGCTTTTGGTATGCTTCGCGGAAAAGATTATTAGGATAAGGATTTTGTGGTCCGG
1 TCAAATTGTGAGCTTTTGGTATGCTTCGCGGAAAAGATTACGAGGATAAGGACTTTGTGGTCCGG
27131320 TCAA
1 TCAA
27131324 GTGATGCGGT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.33
Consensus pattern (65 bp):
TCAAATTGTGAGCTTTTGGTATGCTTCGCGGAAAAGATTACGAGGATAAGGACTTTGTGGTCCGG
Found at i:27132306 original size:10 final size:10
Alignment explanation
Indices: 27132287--27132346 Score: 70
Period size: 10 Copynumber: 6.1 Consensus size: 10
27132277 TGAAATTCTA
27132287 AAAGATAAAT
1 AAAGATAAAT
27132297 ACAA-ATAAAT
1 A-AAGATAAAT
*
27132307 AAAGATAATT
1 AAAGATAAAT
*
27132317 AAATATAAAT
1 AAAGATAAAT
27132327 AAAGATAAAT
1 AAAGATAAAT
*
27132337 GAA-ATAAAT
1 AAAGATAAAT
27132346 A
1 A
27132347 CTAGAATTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
9 8 0.19
10 32 0.76
11 2 0.05
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:27132310 original size:20 final size:19
Alignment explanation
Indices: 27132287--27132346 Score: 84
Period size: 20 Copynumber: 3.1 Consensus size: 19
27132277 TGAAATTCTA
27132287 AAAGATAAATACAAATAAAT
1 AAAGATAAATA-AAATAAAT
*
27132307 AAAGATAATTAAATATAAAT
1 AAAGATAAATAAA-ATAAAT
*
27132327 AAAGATAAATGAAATAAAT
1 AAAGATAAATAAAATAAAT
27132346 A
1 A
27132347 CTAGAATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 9 0.25
20 27 0.75
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (19 bp):
AAAGATAAATAAAATAAAT
Found at i:27133163 original size:96 final size:98
Alignment explanation
Indices: 27132984--27133174 Score: 287
Period size: 96 Copynumber: 2.0 Consensus size: 98
27132974 TTTTAATTTA
* * * * *
27132984 AATTATTTATTTTTACTTAAGAATATATTGAACCTTTTGATGCGAAGAGAGATGACAGCCAAGCA
1 AATTATTTATTATTACTTAAGAACATATCGAACCTTTTGACGAGAAGAGAGATGACAGCCAAGCA
27133049 CCCCACCCCGGTTACTCAGCCCAACACATTCCT
66 CCCCACCCCGGTTACTCAGCCCAACACATTCCT
27133082 AATT-TTTATTATT-CTTAAGAACATATCGAACCTTTTGACGAGAAGAGAGATGACAGCCAAGCA
1 AATTATTTATTATTACTTAAGAACATATCGAACCTTTTGACGAGAAGAGAGATGACAGCCAAGCA
*** *
27133145 CTTTACCTCGGTTACTCAGCCCAACACATT
66 CCCCACCCCGGTTACTCAGCCCAACACATT
27133175 TTTAAAAATT
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
96 72 0.86
97 8 0.10
98 4 0.05
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (98 bp):
AATTATTTATTATTACTTAAGAACATATCGAACCTTTTGACGAGAAGAGAGATGACAGCCAAGCA
CCCCACCCCGGTTACTCAGCCCAACACATTCCT
Found at i:27133696 original size:15 final size:15
Alignment explanation
Indices: 27133676--27133705 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27133666 AAAATTATAT
27133676 GGGCAGCAACAACCA
1 GGGCAGCAACAACCA
27133691 GGGCAGCAACAACCA
1 GGGCAGCAACAACCA
27133706 AATCAGCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.33, G:0.27, T:0.00
Consensus pattern (15 bp):
GGGCAGCAACAACCA
Found at i:27133971 original size:13 final size:11
Alignment explanation
Indices: 27133945--27133987 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 11
27133935 ATCTAAAAAT
27133945 AATAAATAATAA
1 AATAAA-AATAA
27133957 AATAATAAGATAA
1 AATAA-AA-ATAA
27133970 AATAAAAATAAA
1 AATAAAAAT-AA
27133982 AATAAA
1 AATAAA
27133988 GATTGGGTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 2 0.07
12 16 0.57
13 10 0.36
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:27133973 original size:18 final size:15
Alignment explanation
Indices: 27133940--27133987 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
27133930 TTAATATCTA
27133940 AAAATAATAAATAAT
1 AAAATAATAAATAAT
27133955 AAAATAATAAGATAA-
1 AAAATAATAA-ATAAT
*
27133970 AATAAAAATAAA-AAT
1 AA-AATAATAAATAAT
27133985 AAA
1 AAA
27133988 GATTGGGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 3 0.10
15 15 0.52
16 11 0.38
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAATAATAAATAAT
Found at i:27141426 original size:46 final size:46
Alignment explanation
Indices: 27141373--27141501 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 46
27141363 TATTTGGGCA
* *
27141373 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
27141419 TCCGAACTCGTTGAGTTGAGCCCGAGTTCACTCATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
27141465 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27141502 GCGGGTTACA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:27143098 original size:10 final size:10
Alignment explanation
Indices: 27143083--27143128 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
27143073 ATTCTAAAAG
27143083 ATAAATACAA-
1 ATAAATA-AAT
27143093 ATAAATAAAT
1 ATAAATAAAT
*
27143103 ATAATTAAAT
1 ATAAATAAAT
*
27143113 ATAAATAAAG
1 ATAAATAAAT
27143123 ATAAAT
1 ATAAAT
27143129 GAAAACAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
9 2 0.06
10 30 0.94
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (10 bp):
ATAAATAAAT
Found at i:27143138 original size:20 final size:19
Alignment explanation
Indices: 27143079--27143138 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
27143069 TAAAATTCTA
27143079 AAAGATAAATACAAATAAAT
1 AAAGATAAATA-AAATAAAT
* *
27143099 AAATATAATTAAATATAAAT
1 AAAGATAAATAAA-ATAAAT
*
27143119 AAAGATAAATGAAAACAAAT
1 AAAGATAAAT-AAAATAAAT
27143139 CCTAGAATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 2 0.06
20 28 0.85
21 3 0.09
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.23
Consensus pattern (19 bp):
AAAGATAAATAAAATAAAT
Found at i:27149126 original size:27 final size:27
Alignment explanation
Indices: 27149096--27149273 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27149086 ATATTGAGTC
* * * *
27149096 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
27149123 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27149150 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
27149178 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
27149205 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
27149232 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27149259 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27149274 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:27149235 original size:82 final size:81
Alignment explanation
Indices: 27149117--27149272 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27149107 TGCTATATAA
* *
27149117 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
27149182 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
27149199 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
27149263 CACTTAGTGC
65 CACTTAGTGC
27149273 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:27149765 original size:12 final size:12
Alignment explanation
Indices: 27149748--27149773 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27149738 ATGGCATACT
27149748 TATGTATATATA
1 TATGTATATATA
27149760 TATGTATATATA
1 TATGTATATATA
27149772 TA
1 TA
27149774 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:27154648 original size:19 final size:20
Alignment explanation
Indices: 27154625--27154667 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
27154615 TTAATAGACA
27154625 TAAAAAT-AGAAA-TAAAAC
1 TAAAAATAAGAAATTAAAAC
*
27154643 TAAAAATAAGAAATTAAAAT
1 TAAAAATAAGAAATTAAAAC
27154663 TAAAA
1 TAAAA
27154668 TTAAAAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.32
19 5 0.23
20 10 0.45
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (20 bp):
TAAAAATAAGAAATTAAAAC
Found at i:27156427 original size:25 final size:24
Alignment explanation
Indices: 27156398--27156453 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 24
27156388 GTAGTAAATC
* *
27156398 AATAAACTAAGATAAAATGAAAGAA
1 AATAAAATAAAATAAAAT-AAAGAA
27156423 AATAATAATAAAATAAAATAAAGAA
1 AATAA-AATAAAATAAAATAAAGAA
27156448 AATAAA
1 AATAAA
27156454 GAACAGGGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 1 0.04
25 16 0.57
26 11 0.39
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (24 bp):
AATAAAATAAAATAAAATAAAGAA
Found at i:27156439 original size:5 final size:5
Alignment explanation
Indices: 27156398--27156453 Score: 51
Period size: 5 Copynumber: 11.2 Consensus size: 5
27156388 GTAGTAAATC
* * * * *
27156398 AATAA ACTAA GATAA AATGA AAGAA AATAA TAATAA AATAA AAT-A AAGAA
1 AATAA AATAA AATAA AATAA AATAA AATAA -AATAA AATAA AATAA AATAA
27156448 AATAA A
1 AATAA A
27156454 GAACAGGGGA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
4 3 0.08
5 31 0.79
6 5 0.13
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:27163613 original size:18 final size:17
Alignment explanation
Indices: 27163590--27163639 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
27163580 TAAATAAAGG
27163590 AAAATAAAATTAAAAAT
1 AAAATAAAATTAAAAAT
*
27163607 AAAAATATAATTGAAAAAT
1 -AAAATAAAATT-AAAAAT
*
27163626 ATAATAAAA-TAAAA
1 AAAATAAAATTAAAA
27163640 GGGACTTGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 4 0.14
17 1 0.04
18 17 0.61
19 6 0.21
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (17 bp):
AAAATAAAATTAAAAAT
Found at i:27173257 original size:17 final size:17
Alignment explanation
Indices: 27173203--27173262 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
27173193 TGCCAGAAGC
*
27173203 AAATAAAAGAAAAATTAA
1 AAATAAAACAAAAA-TAA
27173221 AAATTAAAACAAAAAT-A
1 AAA-TAAAACAAAAATAA
* *
27173238 AAATACAATAAAAATAA
1 AAATAAAACAAAAATAA
27173255 AAATAAAA
1 AAATAAAA
27173263 ATGGCTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 10 0.28
17 12 0.33
18 4 0.11
19 10 0.28
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (17 bp):
AAATAAAACAAAAATAA
Found at i:27173263 original size:12 final size:12
Alignment explanation
Indices: 27173203--27173264 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
27173193 TGCCAGAAGC
27173203 AAATAAAAGA-AA
1 AAATAAAA-ATAA
* *
27173215 AATTAAAAATTA
1 AAATAAAAATAA
*
27173227 AAACAAAAAT-A
1 AAATAAAAATAA
*
27173238 AAAT-ACAATAA
1 AAATAAAAATAA
27173249 AAATAAAAATAA
1 AAATAAAAATAA
27173261 AAAT
1 AAAT
27173265 GGCTAAAATA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
10 4 0.10
11 10 0.25
12 26 0.65
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (12 bp):
AAATAAAAATAA
Found at i:27176203 original size:24 final size:24
Alignment explanation
Indices: 27176173--27176229 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
27176163 GAACGATTCA
27176173 TTTAGTGTTTTAGGAACATGT-TTG
1 TTTAGTGTTTTAGGAACAT-TCTTG
27176197 TTTAGTGTTTTAGGAACATTCTTG
1 TTTAGTGTTTTAGGAACATTCTTG
*
27176221 TTGAGTGTT
1 TTTAGTGTT
27176230 CACAAACGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 1 0.03
24 30 0.97
ACGTcount: A:0.19, C:0.05, G:0.25, T:0.51
Consensus pattern (24 bp):
TTTAGTGTTTTAGGAACATTCTTG
Found at i:27177245 original size:30 final size:30
Alignment explanation
Indices: 27177188--27177245 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
27177178 CTTTCGAGCA
* **
27177188 TAGGGGTAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
27177218 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
27177246 ATGTAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:27177886 original size:50 final size:50
Alignment explanation
Indices: 27177825--27177997 Score: 196
Period size: 50 Copynumber: 3.5 Consensus size: 50
27177815 CATGTCAGTT
*
27177825 TAAGACCATGTCTGGGACATGGCATCGACATG-GA-TACGCAAGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACATGTAAGTACG--AGAGCTAGTG
* *
27177875 TAAGACAATGTCTAGGACATGGCATCGACATGTAAGTACGAGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACATGTAAGTACGAGAGCTAGTG
* * * *
27177925 TAAGACCATGTCTGGGACATGGCATC-AGCCTCG-ATGGA-GATAGCCT-GTG
1 TAAGACCATGTCTGGGACATGGCATCGA-CAT-GTAAGTACGAGAG-CTAGTG
27177974 TAAGACCATGTCTGGGACATGGCA
1 TAAGACCATGTCTGGGACATGGCA
27177998 GCGAAAACTT
Statistics
Matches: 109, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
49 32 0.29
50 71 0.65
51 2 0.02
52 4 0.04
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.21
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATCGACATGTAAGTACGAGAGCTAGTG
Found at i:27184920 original size:13 final size:13
Alignment explanation
Indices: 27184894--27184933 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
27184884 GCTTGGTATG
* *
27184894 GACACACCCGTGT
1 GACACGCCCATGT
27184907 GACACGCCCATGT
1 GACACGCCCATGT
*
27184920 GACGCGCCCATGT
1 GACACGCCCATGT
27184933 G
1 G
27184934 CGATTAATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.20, C:0.38, G:0.28, T:0.15
Consensus pattern (13 bp):
GACACGCCCATGT
Found at i:27184952 original size:20 final size:20
Alignment explanation
Indices: 27184927--27184972 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
27184917 TGTGACGCGC
27184927 CCATGTGCGATTAATTCAGG
1 CCATGTGCGATTAATTCAGG
27184947 CCATGTGCGATTAATTCAGG
1 CCATGTGCGATTAATTCAGG
27184967 CCATGT
1 CCATGT
27184973 TCGAGCCTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (20 bp):
CCATGTGCGATTAATTCAGG
Found at i:27185532 original size:31 final size:31
Alignment explanation
Indices: 27185494--27185555 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
27185484 ATCTAAGTAA
27185494 TTACCTTTGATTCATAATATCACAGAGTTTC
1 TTACCTTTGATTCATAATATCACAGAGTTTC
27185525 TTACCTTTGATTCATAATATCACAGAGTTTC
1 TTACCTTTGATTCATAATATCACAGAGTTTC
27185556 ACATCCTCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (31 bp):
TTACCTTTGATTCATAATATCACAGAGTTTC
Found at i:27193897 original size:94 final size:94
Alignment explanation
Indices: 27193688--27194098 Score: 243
Period size: 94 Copynumber: 4.3 Consensus size: 94
27193678 ATGTGAGAGT
* * * * *
27193688 CAGTATAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACGTGTTT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGACGAGGGCCAGTGTAAGACATGTCT
*
27193753 GGGACATGCATCAGCCGCATCATGATAGC
66 AGGACATGCATCAGCCGCATCATGATAGC
* * * ** *
27193782 CCGTGTAAGACCACGTTTGGGACATGGCATCGG-AGTAGAGGTGAGTGCCAGTGTAAGACATGTC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TAGAGACGAGGGCCAGTGTAAGACATGTC
* * * *
27193846 TAGGATATGCATCGGACTCG-ATGATGTTAGC
65 TAGGACATGCATCAG-C-CGCATCATGATAGC
* * * * * *
27193877 CAGTGTAAGA-CATATCTGGGACAT-GCATCGGC-TACGAGAC-A-TGTCAATATAAAACCATGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATA-GAGACGAGGGCCAGTGTAAGA-CATGT
* * * * * *
27193937 TTGGGACATGGCATC-GACATGGAT-ACGCAAGAGC
64 CTAGGACAT-GCATCAG-C-CGCATCATG--ATAGC
* * * * *
27193971 TAGTGTAAGACCATGTCTAGGACATGAG-ATCAGCAT-GTAAGTACGAGAGCTAGTGTAAGACCA
1 CAGTGTAAGACCATGTCTGGGACATG-GCATCGGCATAG--AG-ACGAGGGCCAGTGTAAGA-CA
* * * *
27194034 TGTCTGGGACATGACATCGGCCTCGAT-AGAGATAGC
61 TGTCTAGGACATG-CATCAGCCGC-ATCA-TGATAGC
27194070 CAGTGTAAGACCATGTCTGGGACATGGCA
1 CAGTGTAAGACCATGTCTGGGACATGGCA
27194099 ACGGTAACTT
Statistics
Matches: 241, Mismatches: 52, Indels: 43
0.72 0.15 0.13
Matches are distributed among these distances:
91 9 0.04
92 20 0.08
93 18 0.07
94 86 0.36
95 32 0.13
96 7 0.03
97 4 0.02
98 3 0.01
99 31 0.13
100 29 0.12
101 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.22
Consensus pattern (94 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGACGAGGGCCAGTGTAAGACATGTCT
AGGACATGCATCAGCCGCATCATGATAGC
Found at i:27193994 original size:50 final size:49
Alignment explanation
Indices: 27193930--27194098 Score: 175
Period size: 50 Copynumber: 3.4 Consensus size: 49
27193920 TCAATATAAA
*
27193930 ACCATGTTTGGGACATGGCATCGACATGGATACGCAAGAGCTAGTGTAAG
1 ACCATGTCTGGGACATGGCATCGACATGGATACG-AAGAGCTAGTGTAAG
* *
27193980 ACCATGTCTAGGACATGAG-ATC-AGCATGTAAGTACG-AGAGCTAGTGTAAG
1 ACCATGTCTGGGACATG-GCATCGA-CATG-GA-TACGAAGAGCTAGTGTAAG
* * * * * *
27194030 ACCATGTCTGGGACATGACATCGGCCTCGATA-GAGATAGCCAGTGTAAG
1 ACCATGTCTGGGACATGGCATCGACATGGATACGA-AGAGCTAGTGTAAG
27194079 ACCATGTCTGGGACATGGCA
1 ACCATGTCTGGGACATGGCA
27194099 ACGGTAACTT
Statistics
Matches: 99, Mismatches: 12, Indels: 17
0.77 0.09 0.13
Matches are distributed among these distances:
47 1 0.01
48 2 0.02
49 33 0.33
50 57 0.58
51 2 0.02
52 4 0.04
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (49 bp):
ACCATGTCTGGGACATGGCATCGACATGGATACGAAGAGCTAGTGTAAG
Found at i:27194939 original size:55 final size:55
Alignment explanation
Indices: 27194845--27194975 Score: 140
Period size: 55 Copynumber: 2.4 Consensus size: 55
27194835 CTCAAACTTT
* * * * * *
27194845 TAAA-TCAGTATTGTCCACAGTTAGGCCACACGGGTGTGTGCCATAGCCGTG-TC
1 TAAAGTCAGTATTGCCCACGGGTAGGCCACAAGGGCGTGTGCCATAGCCGTGCCC
* * *
27194898 TATAAGTCAGTATTGCCCACGGGTAGGCTACAAGGGCGTGTGTCATGGCCGTGCCC
1 TA-AAGTCAGTATTGCCCACGGGTAGGCCACAAGGGCGTGTGCCATAGCCGTGCCC
* *
27194954 TAAAGTCAGTGTTGCACACGGG
1 TAAAGTCAGTATTGCCCACGGG
27194976 CTGAGGACGT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
53 2 0.03
54 2 0.03
55 57 0.89
56 3 0.05
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (55 bp):
TAAAGTCAGTATTGCCCACGGGTAGGCCACAAGGGCGTGTGCCATAGCCGTGCCC
Found at i:27195511 original size:3 final size:3
Alignment explanation
Indices: 27195503--27195543 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
27195493 TATTAAAATG
27195503 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
27195544 GATTAAGAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:27198306 original size:19 final size:19
Alignment explanation
Indices: 27198261--27198321 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
27198251 ATCTAATTAC
27198261 AAATATTTAATTATTATATTT
1 AAATATTTAATTA-TA-ATTT
*
27198282 AAATATTTAAATATAATTT
1 AAATATTTAATTATAATTT
*
27198301 ATATATTCTAATTA-AATTT
1 AAATATT-TAATTATAATTT
27198320 AA
1 AA
27198322 TAAATAACTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 7 0.20
21 12 0.34
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATTTAATTATAATTT
Found at i:27198614 original size:13 final size:13
Alignment explanation
Indices: 27198551--27198614 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
27198541 ACACTTAAAT
*
27198551 TTTTCCAAAGCAC
1 TTTTCAAAAGCAC
* *
27198564 TTCTCAAAAGTA-
1 TTTTCAAAAGCAC
*
27198576 TTTCTCAAAAACAC
1 TTT-TCAAAAGCAC
* *
27198590 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
27198603 TTTTCAAAAGCA
1 TTTTCAAAAGCA
27198615 ATAAAAAACT
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
12 2 0.05
13 33 0.87
14 3 0.08
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:27209442 original size:126 final size:126
Alignment explanation
Indices: 27209217--27209468 Score: 504
Period size: 126 Copynumber: 2.0 Consensus size: 126
27209207 TTCCCCTATT
27209217 CATTTTCTCGGCAACCAAACACATTGTAAGCGCATAAAAACCTAATGAAAAGCTAAAATTAAGAA
1 CATTTTCTCGGCAACCAAACACATTGTAAGCGCATAAAAACCTAATGAAAAGCTAAAATTAAGAA
27209282 TTAACTAAAAAATAGGTACCACTAGTAAAAAGAGGAAACCGAAAACAGCAAACTCAAGAGA
66 TTAACTAAAAAATAGGTACCACTAGTAAAAAGAGGAAACCGAAAACAGCAAACTCAAGAGA
27209343 CATTTTCTCGGCAACCAAACACATTGTAAGCGCATAAAAACCTAATGAAAAGCTAAAATTAAGAA
1 CATTTTCTCGGCAACCAAACACATTGTAAGCGCATAAAAACCTAATGAAAAGCTAAAATTAAGAA
27209408 TTAACTAAAAAATAGGTACCACTAGTAAAAAGAGGAAACCGAAAACAGCAAACTCAAGAGA
66 TTAACTAAAAAATAGGTACCACTAGTAAAAAGAGGAAACCGAAAACAGCAAACTCAAGAGA
27209469 GAGAAAAGAA
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 126 1.00
ACGTcount: A:0.50, C:0.18, G:0.14, T:0.17
Consensus pattern (126 bp):
CATTTTCTCGGCAACCAAACACATTGTAAGCGCATAAAAACCTAATGAAAAGCTAAAATTAAGAA
TTAACTAAAAAATAGGTACCACTAGTAAAAAGAGGAAACCGAAAACAGCAAACTCAAGAGA
Found at i:27210358 original size:16 final size:17
Alignment explanation
Indices: 27210331--27210375 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
27210321 GAAAAAAGAC
27210331 AATAAA-ATAATA-GAA
1 AATAAATATAATATGAA
27210346 AATAAATATAATATGAA
1 AATAAATATAATATGAA
*
27210363 AAT-GATATAATAT
1 AATAAATATAATAT
27210376 ATATATGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 6 0.22
16 15 0.56
17 6 0.22
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (17 bp):
AATAAATATAATATGAA
Found at i:27211011 original size:19 final size:18
Alignment explanation
Indices: 27210961--27211011 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
27210951 TTTTTTAACC
*
27210961 ATTTATGAACT-TTTTTT
1 ATTTTTGAACTATTTTTT
* *
27210978 ATTTTTAAATATATTTTTT
1 ATTTTTGAA-CTATTTTTT
27210997 ATTTTTTGAACTATT
1 A-TTTTTGAACTATT
27211012 ATGAAATAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 7 0.27
18 1 0.04
19 11 0.42
20 7 0.27
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (18 bp):
ATTTTTGAACTATTTTTT
Found at i:27220315 original size:44 final size:44
Alignment explanation
Indices: 27220252--27220347 Score: 156
Period size: 44 Copynumber: 2.2 Consensus size: 44
27220242 TCACAGCTCC
* * *
27220252 TGTGAGCAGCATCGTGTAATGGTTAATGTCTGATTTATAGCTTG
1 TGTGAGCAGCATCGTGTAATGGTTAATGTCTAATTCATAGCTGG
*
27220296 TGTGAGTAGCATCGTGTAATGGTTAATGTCTAATTCATAGCTGG
1 TGTGAGCAGCATCGTGTAATGGTTAATGTCTAATTCATAGCTGG
27220340 TGTGAGCA
1 TGTGAGCA
27220348 TTATTATCCC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.24, C:0.11, G:0.28, T:0.36
Consensus pattern (44 bp):
TGTGAGCAGCATCGTGTAATGGTTAATGTCTAATTCATAGCTGG
Found at i:27223077 original size:11 final size:12
Alignment explanation
Indices: 27223052--27223081 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
27223042 CTAGCTTGGT
27223052 TAGTTTAATTTA
1 TAGTTTAATTTA
27223064 TAGTTTAA-TTA
1 TAGTTTAATTTA
27223075 TAGTTTA
1 TAGTTTA
27223082 TAAACCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (12 bp):
TAGTTTAATTTA
Found at i:27225192 original size:25 final size:25
Alignment explanation
Indices: 27225158--27225209 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
27225148 GTAACACGCT
27225158 CATAGTTTTCATTTTCTATGAAAAG
1 CATAGTTTTCATTTTCTATGAAAAG
27225183 CATAGTTTTCATTTTCTATGAAAAG
1 CATAGTTTTCATTTTCTATGAAAAG
27225208 CA
1 CA
27225210 ATCATATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (25 bp):
CATAGTTTTCATTTTCTATGAAAAG
Found at i:27226566 original size:3 final size:3
Alignment explanation
Indices: 27226560--27226584 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
27226550 TCCTCTTCTA
27226560 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
27226585 TTCTTCTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:27228276 original size:18 final size:18
Alignment explanation
Indices: 27228240--27228283 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
27228230 ATCTACCTCT
* *
27228240 TCCTCCTCTTCATCCTCA
1 TCCTCCTCCTCATCATCA
27228258 TCCTCCTCCTCATCATCA
1 TCCTCCTCCTCATCATCA
*
27228276 TCATCCTC
1 TCCTCCTC
27228284 TACCCCATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.50, G:0.00, T:0.36
Consensus pattern (18 bp):
TCCTCCTCCTCATCATCA
Found at i:27228292 original size:21 final size:21
Alignment explanation
Indices: 27228240--27228301 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
27228230 ATCTACCTCT
* *
27228240 TCCTCCTCTTCATCCTCATCC
1 TCCTCCCCATCATCCTCATCC
* *
27228261 TCCTCCTCATCATCATCATCC
1 TCCTCCCCATCATCCTCATCC
*
27228282 T-CTACCCCATCTTCCTCATC
1 TCCT-CCCCATCATCCTCATC
27228302 ATCATCACTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 2 0.06
21 33 0.94
ACGTcount: A:0.15, C:0.50, G:0.00, T:0.35
Consensus pattern (21 bp):
TCCTCCCCATCATCCTCATCC
Found at i:27228628 original size:15 final size:15
Alignment explanation
Indices: 27228608--27228652 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
27228598 CACTCCCAGG
27228608 ATCATCTTCATCTTC
1 ATCATCTTCATCTTC
* *
27228623 ATCATCCTCATCCTC
1 ATCATCTTCATCTTC
*
27228638 ATCCTCTTCATCTTC
1 ATCATCTTCATCTTC
27228653 CTCTTCCTCC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.18, C:0.40, G:0.00, T:0.42
Consensus pattern (15 bp):
ATCATCTTCATCTTC
Found at i:27233853 original size:34 final size:36
Alignment explanation
Indices: 27233804--27233878 Score: 127
Period size: 35 Copynumber: 2.1 Consensus size: 36
27233794 CACTTACTCA
27233804 ATTTTGAAAAGTGATAA-TTATCATTCAATAGATAC
1 ATTTTGAAAAGTGATAATTTATCATTCAATAGATAC
*
27233839 ATTTTG-AAAGTGATAATTTATCATTCAATGGATAC
1 ATTTTGAAAAGTGATAATTTATCATTCAATAGATAC
27233874 ATTTT
1 ATTTT
27233879 CATTGGACAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
34 10 0.26
35 28 0.74
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (36 bp):
ATTTTGAAAAGTGATAATTTATCATTCAATAGATAC
Found at i:27236922 original size:40 final size:40
Alignment explanation
Indices: 27236868--27237052 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
27236858 CTTGCACAAG
* * *
27236868 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
27236908 GCCTTCGGGACTTAGCTCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
27236948 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * *
27236988 GCCTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
27237029 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
27237053 CATTCGAATA
Statistics
Matches: 120, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
39 3 0.03
40 87 0.73
41 27 0.22
42 3 0.03
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:27236990 original size:80 final size:81
Alignment explanation
Indices: 27236832--27237052 Score: 237
Period size: 80 Copynumber: 2.8 Consensus size: 81
27236822 CTCAAGTAAT
* *
27236832 CTTCAGGAT-TTAG-CCGGATATAA-CTA-CTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATAT
1 CTTC-GGATCTTAGTCCGGATATAATC-ACCTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
*
27236892 GGTCACTAGCACAGATGC
64 AGTCACTAGCACAGATGC
* *
27236910 CTTCGGGA-CTTAG-CTCGGATATAATC-GCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 CTTC-GGATCTTAGTC-CGGATATAATCACCTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
*
27236972 AG-CAACTCGCAC-GAATGC
64 AGTC-ACTAGCACAG-ATGC
* * *
27236990 CTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGATCTTAGTCCGGATATAATCACCTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
27237053 CATTCGAATA
Statistics
Matches: 123, Mismatches: 10, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
78 12 0.10
79 20 0.16
80 57 0.46
81 34 0.28
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (81 bp):
CTTCGGATCTTAGTCCGGATATAATCACCTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
TCACTAGCACAGATGC
Found at i:27239162 original size:42 final size:42
Alignment explanation
Indices: 27239084--27239163 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
27239074 GTGCAGGTTT
* * * *
27239084 CACACGGCTGAGACATACGCCCGTGTTCTAGGCCGTGTAGCA
1 CACACGGCTAAGACACACACCCGTGTTCTAGCCCGTGTAGCA
27239126 CACACGGCTAAGACACACACCCGTG-TCTATGCCCGTGT
1 CACACGGCTAAGACACACACCCGTGTTCTA-GCCCGTGT
27239164 GCTCAATTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 4 0.12
42 29 0.88
ACGTcount: A:0.23, C:0.34, G:0.25, T:0.19
Consensus pattern (42 bp):
CACACGGCTAAGACACACACCCGTGTTCTAGCCCGTGTAGCA
Found at i:27239750 original size:16 final size:18
Alignment explanation
Indices: 27239718--27239756 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
27239708 ATTTTGGAAT
*
27239718 TAAAAATTATATTAAATG
1 TAAAAATTATATTAAATA
27239736 TAAAAA-TAT-TTAAATA
1 TAAAAATTATATTAAATA
27239752 TAAAA
1 TAAAA
27239757 TGTGAAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
17 3 0.15
18 6 0.30
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
TAAAAATTATATTAAATA
Found at i:27245731 original size:34 final size:35
Alignment explanation
Indices: 27245693--27245759 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
27245683 TGAATTTTGG
*
27245693 AAAGTGATAA-TTATCATTCAATAGATACATTTAT
1 AAAGTGATAATTTACCATTCAATAGATACATTTAT
*
27245727 AAAGTGATAATTTACCATTCAATGGATACATTT
1 AAAGTGATAATTTACCATTCAATAGATACATTT
27245760 CCATGGGACA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 10 0.33
35 20 0.67
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.37
Consensus pattern (35 bp):
AAAGTGATAATTTACCATTCAATAGATACATTTAT
Found at i:27256143 original size:5 final size:5
Alignment explanation
Indices: 27256133--27256161 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
27256123 TTGTGTGATC
27256133 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
27256162 GTTTCACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:27260604 original size:5 final size:5
Alignment explanation
Indices: 27260594--27260625 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
27260584 TTGTGTGTTC
27260594 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
27260626 TCACAGGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:27260608 original size:9 final size:9
Alignment explanation
Indices: 27260594--27260624 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
27260584 TTGTGTGTTC
27260594 TTTATTTTA
1 TTTATTTTA
27260603 TTTATTTTA
1 TTTATTTTA
27260612 TTTTATTTTA
1 -TTTATTTTA
27260622 TTT
1 TTT
27260625 TTCACAGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:27264925 original size:5 final size:5
Alignment explanation
Indices: 27264915--27264947 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
27264905 GGAAGCTGTG
27264915 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA- AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
27264948 GAACACACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:27270063 original size:16 final size:16
Alignment explanation
Indices: 27270042--27270109 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
27270032 TTTGGTTCGC
27270042 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
27270058 TGTATTGGATTAGAGC
1 TGTATTGGATTAGAGG
27270074 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
27270090 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
27270106 TGTA
1 TGTA
27270110 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.25, C:0.01, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:27270372 original size:18 final size:17
Alignment explanation
Indices: 27270345--27270379 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27270335 TTATTTTTAA
*
27270345 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
27270363 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
27270380 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:27270445 original size:157 final size:157
Alignment explanation
Indices: 27270232--27270548 Score: 562
Period size: 157 Copynumber: 2.0 Consensus size: 157
27270222 TAGAATACCC
*
27270232 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
* * *
27270297 TTATCAATAATAAATAATTTAATCATATTTAAAAATAATTATTTTTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAAAATAATTATTATTAAATATATTATAATTAAAA
27270362 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
* *
27270389 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
* *
27270454 ATATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAAAATAATTATTATTAAATATATTATAATTAAAA
27270519 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
27270546 TTA
1 TTA
27270549 ATATTCTTAT
Statistics
Matches: 152, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
157 152 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAAAATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:27270519 original size:16 final size:16
Alignment explanation
Indices: 27270482--27270523 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
27270472 TTAATCATAT
*
27270482 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
27270498 TT-AAATATATTATAA
1 TTAAAATATATTATAA
27270513 TTAAAATATAT
1 TTAAAATATAT
27270524 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:27270530 original size:14 final size:15
Alignment explanation
Indices: 27270491--27270532 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
27270481 TTTAAACATA
*
27270491 ATTATTATTAAATAT
1 ATTATAATTAAATAT
27270506 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
27270520 A-TATAATTTAATA
1 ATTATAATTAAATA
27270533 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:27273553 original size:11 final size:11
Alignment explanation
Indices: 27273537--27273562 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
27273527 TCGGGAGGCA
27273537 AAGGTAGAACG
1 AAGGTAGAACG
27273548 AAGGTAGAACG
1 AAGGTAGAACG
27273559 AAGG
1 AAGG
27273563 AAGAGGCGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.08, G:0.38, T:0.08
Consensus pattern (11 bp):
AAGGTAGAACG
Found at i:27276412 original size:30 final size:30
Alignment explanation
Indices: 27276376--27276436 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
27276366 ACAAAGCGTG
27276376 AGTTTTCTTTTAAAACTCAGTATGTAACCC
1 AGTTTTCTTTTAAAACTCAGTATGTAACCC
27276406 AGTTTTCTTTTAAAACTCAGTATGTAACCC
1 AGTTTTCTTTTAAAACTCAGTATGTAACCC
27276436 A
1 A
27276437 TACGTTTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (30 bp):
AGTTTTCTTTTAAAACTCAGTATGTAACCC
Found at i:27278042 original size:50 final size:50
Alignment explanation
Indices: 27277967--27278206 Score: 339
Period size: 50 Copynumber: 4.9 Consensus size: 50
27277957 TGATGCTAGG
*
27277967 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGGATCGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* *
27278017 GAGATATGAGAGCTAGTGTAAGACCATATTTGGGACATGGCATCGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
27278067 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CT-
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * *
27278115 -TGATATGTG-TC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * *
27278162 GATATACGAGAG-TCAGTGTAAGACCATGTCTGGAACATGGTATCG
1 GAGATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCG
27278207 ACTTTGATGG
Statistics
Matches: 169, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
45 32 0.19
46 3 0.02
47 7 0.04
48 5 0.03
49 2 0.01
50 120 0.71
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (50 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
Found at i:27278181 original size:95 final size:94
Alignment explanation
Indices: 27277967--27278256 Score: 330
Period size: 95 Copynumber: 3.0 Consensus size: 94
27277957 TGATGCTAGG
* * * *
27277967 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGGATCGGCCTCGAGATATGAGAGCTA
1 GAGATACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CT--TGATAT--GAGCCA
*
27278032 GTGTAAGACCATATTTGGGACATGGCATCGGCCTC
61 GTGTAAGACCAT-GTTGGGACATGGCATCGGCCTC
* * *
27278067 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGTGTCAGTGTA
1 GAGATACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGAGCCAGTGTA
27278132 AGACCATGTCTGGGACATGGCATCGGCCTC
66 AGACCATGT-TGGGACATGGCATCGGCCTC
* * * * *
27278162 GATATACGAGAG-TCAGTGTAAGACCATGTCTGGAACATGGTATCGACTTTGATGGGTGAGCCAG
1 GAGATACGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAT--ATGAGCCAG
* *
27278226 TGTAAGACCATGTTCGGTACATGGCGTCGGC
62 TGTAAGACCATGTT-GGGACATGGCATCGGC
27278257 ACTTTACCCT
Statistics
Matches: 168, Mismatches: 16, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
94 2 0.01
95 75 0.45
96 5 0.03
97 6 0.04
98 33 0.20
99 2 0.01
100 45 0.27
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (94 bp):
GAGATACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGATATGAGCCAGTGTA
AGACCATGTTGGGACATGGCATCGGCCTC
Found at i:27279599 original size:4 final size:4
Alignment explanation
Indices: 27279590--27279614 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
27279580 GTCTAGGGAC
27279590 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
27279615 GATATGTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:27282675 original size:27 final size:28
Alignment explanation
Indices: 27282646--27282748 Score: 126
Period size: 27 Copynumber: 3.8 Consensus size: 28
27282636 AGACCCCGAT
27282646 TTGTAAAATTACCGAAATACCCTTGAT-
1 TTGTAAAATTACCGAAATACCCTTGATA
*
27282673 TTGTAAAATTA-TGAAAATACCCTTG-TGA
1 TTGTAAAATTACCG-AAATACCCTTGAT-A
27282701 -TGTAAAATTACCGAAATACCCTT-ATA
1 TTGTAAAATTACCGAAATACCCTTGATA
* *
27282727 GTGTAAAATTACCAAAATACCC
1 TTGTAAAATTACCGAAATACCC
27282749 CCATAAGGTA
Statistics
Matches: 67, Mismatches: 3, Indels: 12
0.82 0.04 0.15
Matches are distributed among these distances:
26 3 0.04
27 63 0.94
28 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (28 bp):
TTGTAAAATTACCGAAATACCCTTGATA
Found at i:27282759 original size:27 final size:27
Alignment explanation
Indices: 27282701--27282762 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
27282691 ACCCTTGTGA
* **
27282701 TGTAAAATTACCGAAATACCCTTATAG
1 TGTAAAATTACCAAAATACCCCCATAG
27282728 TGTAAAATTACCAAAATACCCCCATAAG
1 TGTAAAATTACCAAAATACCCCCAT-AG
27282756 -GTAAAAT
1 TGTAAAAT
27282763 GTCTGTTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 29 0.94
28 2 0.06
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (27 bp):
TGTAAAATTACCAAAATACCCCCATAG
Found at i:27282760 original size:54 final size:54
Alignment explanation
Indices: 27282648--27282762 Score: 142
Period size: 54 Copynumber: 2.1 Consensus size: 54
27282638 ACCCCGATTT
* ** *** * *
27282648 GTAAAATTACCGAAATACCCTTGATTTGTAAAATTATGAAAATACCCTTGTGAT
1 GTAAAATTACCGAAATACCCTTGATGTGTAAAATTACCAAAATACCCCCATAAG
27282702 GTAAAATTACCGAAATACCCTT-ATAGTGTAAAATTACCAAAATACCCCCATAAG
1 GTAAAATTACCGAAATACCCTTGAT-GTGTAAAATTACCAAAATACCCCCATAAG
27282756 GTAAAAT
1 GTAAAAT
27282763 GTCTGTTTTG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 2 0.04
54 50 0.96
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (54 bp):
GTAAAATTACCGAAATACCCTTGATGTGTAAAATTACCAAAATACCCCCATAAG
Found at i:27283268 original size:27 final size:27
Alignment explanation
Indices: 27283167--27283269 Score: 77
Period size: 27 Copynumber: 3.8 Consensus size: 27
27283157 TATGTTGATT
* ** *
27283167 ATGGCTTTGTGCAAATCTTATTTAC-C
1 ATGGCTATGTGCTGATCATATTTACTC
* *
27283193 AGTGGCTATGTGTCT-ATCATATTTATTG
1 A-TGGCTATGTG-CTGATCATATTTACTC
*
27283221 ATGGCTCTGTG-TCGATCATATTTACTC
1 ATGGCTATGTGCT-GATCATATTTACTC
* *
27283248 ATGGCTGTGTGCTGATTATATT
1 ATGGCTATGTGCTGATCATATT
27283270 ACTGTCGCTA
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
25 1 0.02
26 1 0.02
27 56 0.92
28 3 0.05
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (27 bp):
ATGGCTATGTGCTGATCATATTTACTC
Found at i:27283570 original size:32 final size:32
Alignment explanation
Indices: 27283534--27283602 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
27283524 ATTTATGAGA
*
27283534 TCTGTCACT-GTATTGGGCTTAGGCCCACTTG-T
1 TCTGTCACTGGT-TTGGGC-TAGGCCCAATTGAT
* *
27283566 TCTGTTATTGGTTTGGGCTAGGCCCAATTGAT
1 TCTGTCACTGGTTTGGGCTAGGCCCAATTGAT
27283598 TCTGT
1 TCTGT
27283603 TATGGGCTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 11 0.34
32 19 0.59
33 2 0.06
ACGTcount: A:0.13, C:0.20, G:0.26, T:0.41
Consensus pattern (32 bp):
TCTGTCACTGGTTTGGGCTAGGCCCAATTGAT
Found at i:27284724 original size:15 final size:15
Alignment explanation
Indices: 27284704--27284733 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27284694 CTATGCATGC
*
27284704 AAAACATGAAAGACA
1 AAAACATAAAAGACA
27284719 AAAACATAAAAGACA
1 AAAACATAAAAGACA
27284734 TAGTAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.13, G:0.10, T:0.07
Consensus pattern (15 bp):
AAAACATAAAAGACA
Found at i:27286344 original size:32 final size:32
Alignment explanation
Indices: 27286308--27286368 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
27286298 TTTGTATGTG
27286308 TATTTAAAATATTTCACATATAAAAATAATGA
1 TATTTAAAATATTTCACATATAAAAATAATGA
*
27286340 TATTTAAAATATTTCACATATAAATATAA
1 TATTTAAAATATTTCACATATAAAAATAA
27286369 AAATAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (32 bp):
TATTTAAAATATTTCACATATAAAAATAATGA
Found at i:27286363 original size:16 final size:16
Alignment explanation
Indices: 27286312--27286363 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
27286302 TATGTGTATT
27286312 TAAAATATTTCACATA
1 TAAAATATTTCACATA
* * * *
27286328 TAAAA-ATAATGATATT
1 TAAAATAT-TTCACATA
27286344 TAAAATATTTCACATA
1 TAAAATATTTCACATA
27286360 TAAA
1 TAAA
27286364 TATAAAAATA
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
15 2 0.08
16 22 0.85
17 2 0.08
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.37
Consensus pattern (16 bp):
TAAAATATTTCACATA
Found at i:27286385 original size:32 final size:32
Alignment explanation
Indices: 27286312--27286377 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
27286302 TATGTGTATT
** *
27286312 TAAAATATTTCACATATAAAAATAATGATATT
1 TAAAATATTTCACATATAAAAATAAAAATATA
*
27286344 TAAAATATTTCACATATAAATATAAAAATA-A
1 TAAAATATTTCACATATAAAAATAAAAATATA
27286375 TAA
1 TAA
27286378 TTATATTTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 3 0.10
32 27 0.90
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.35
Consensus pattern (32 bp):
TAAAATATTTCACATATAAAAATAAAAATATA
Found at i:27287084 original size:24 final size:24
Alignment explanation
Indices: 27287033--27287084 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
27287023 ATTCTTTCCT
**
27287033 TTTCTTTCTTCTTTTTTTTTCTTC
1 TTTCTTTCTTCTTTTTTTTTCTGA
27287057 TTTCTTTCTTCTTTTTTTGTT-TGA
1 TTTCTTTCTTCTTTTTTT-TTCTGA
27287081 TTTC
1 TTTC
27287085 ATCTTTTCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.02, C:0.17, G:0.04, T:0.77
Consensus pattern (24 bp):
TTTCTTTCTTCTTTTTTTTTCTGA
Found at i:27297553 original size:69 final size:69
Alignment explanation
Indices: 27297437--27297573 Score: 211
Period size: 69 Copynumber: 2.0 Consensus size: 69
27297427 TGGCTTTTAT
* * *
27297437 TTTCCCAGTTAAACTCTATTTTTAGTTTTCGAATTACACTCTAATTAGTGTAGGTTATTTGAATA
1 TTTCCCAGTTAAACTCTATTTTTAGTTTCCCAATTAAACTCTAATTAGTGTAGGTTATTTGAATA
27297502 TTAG
66 TTAG
* * * *
27297506 TTTCCCAGTTAAGCTCTATTTTTAGTTTCCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
1 TTTCCCAGTTAAACTCTATTTTTAGTTTCCCAATTAAACTCTAATTAGTGTAGGTTATTTGAATA
27297571 TTA
66 TTA
27297574 TTTGACCTAC
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.47
Consensus pattern (69 bp):
TTTCCCAGTTAAACTCTATTTTTAGTTTCCCAATTAAACTCTAATTAGTGTAGGTTATTTGAATA
TTAG
Found at i:27300563 original size:19 final size:19
Alignment explanation
Indices: 27300527--27300563 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27300517 TAATTAGGCT
* *
27300527 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
27300546 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
27300564 GAAAAAGGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:27301193 original size:2 final size:2
Alignment explanation
Indices: 27301186--27301230 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
27301176 TTATTAACTA
*
27301186 AT AT AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27301228 AT A
1 AT A
27301231 AGAAAGCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:27301681 original size:17 final size:18
Alignment explanation
Indices: 27301659--27301692 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
27301649 TAAATGAGTT
27301659 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
27301676 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
27301693 AATAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Done.