Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 159 of 221
Found at i:48104553 original size:74 final size:75
Alignment explanation
Indices: 48104444--48104583 Score: 194
Period size: 74 Copynumber: 1.9 Consensus size: 75
48104434 TATTTTTATG
* * *
48104444 CGCCGCAAAATACCTTAACCAAAACGCAGAATTTGGTTTTGAGGTATATTAGA-ATTAGTGGCGT
1 CGCCGCAAAATACCTTAACCAAAACGCACAATTTGGTCTTGAGGTAGATTA-ATATTAGTGGCGT
48104508 TTACGATAAAA
65 TTACGATAAAA
* * **
48104519 CGCCGC-AAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATTAATATTAGTGGCGTT
1 CGCCGCAAAATACCTTAACCAAAACGCACAATTTGGTCTTGAGGTAGATTAATATTAGTGGCGTT
48104583 T
66 T
48104584 TTAAAAAAAC
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
73 1 0.02
74 50 0.88
75 6 0.11
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.29
Consensus pattern (75 bp):
CGCCGCAAAATACCTTAACCAAAACGCACAATTTGGTCTTGAGGTAGATTAATATTAGTGGCGTT
TACGATAAAA
Found at i:48104560 original size:188 final size:188
Alignment explanation
Indices: 48104309--48104698 Score: 636
Period size: 188 Copynumber: 2.1 Consensus size: 188
48104299 AAAGAATAGT
* * * * *
48104309 ATTAGCGGCGTTTTCGGTAAAGCGCCGCAAATATCTTAATGAAAACACACCGTTTCGTCTTGAGG
1 ATTAGTGGCGTTTACGATAAAACGCCGCAAATATCTTAACGAAAACACACCGTTTCGTCTTGAGG
* *
48104374 TAGATTAGTATTAGTGGCGTTTTTAGAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTT
66 TAGATTAATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTT
** *
48104439 TTATGCGCCGCAAAATACCTTAACCAAAACGCAGAATTTGGTTTTGAGGTATATTAGA
131 GGAAGCGCCGCAAAATACCTTAACCAAAACGCAGAATTTGGTTTTGAGGTATATTAGA
* *
48104497 ATTAGTGGCGTTTACGATAAAACGCCGCAAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGG
1 ATTAGTGGCGTTTACGATAAAACGCCGCAAATATCTTAACGAAAACACACCGTTTCGTCTTGAGG
48104562 TAGATTAATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTT
66 TAGATTAATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTT
* ** *
48104627 GGAAGCGCCGCAAAATGCCTTAACCAAAACGCAGTGTTTGGTTTTGATGTATATTAGA
131 GGAAGCGCCGCAAAATACCTTAACCAAAACGCAGAATTTGGTTTTGAGGTATATTAGA
48104685 ATTAGTGGCGTTTA
1 ATTAGTGGCGTTTA
48104699 TGGTAAAATG
Statistics
Matches: 186, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
188 186 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (188 bp):
ATTAGTGGCGTTTACGATAAAACGCCGCAAATATCTTAACGAAAACACACCGTTTCGTCTTGAGG
TAGATTAATATTAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTT
GGAAGCGCCGCAAAATACCTTAACCAAAACGCAGAATTTGGTTTTGAGGTATATTAGA
Found at i:48104593 original size:74 final size:75
Alignment explanation
Indices: 48104444--48104602 Score: 187
Period size: 74 Copynumber: 2.1 Consensus size: 75
48104434 TATTTTTATG
* * *
48104444 CGCCGCAAAATACCTTAACCAAAACGCAGAATTTGGTTTTGAGGTATATTAGAATTAGTGGCGTT
1 CGCCGCAAAATACCTTAACCAAAACGCACAATTTGGTCTTGAGGTAGATTAGAATTAGTGGCGTT
* *
48104509 TACGATAAAA
66 TACAAAAAAA
* * **
48104519 CGCCGC-AAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATTA-ATATTAGTGGCGT
1 CGCCGCAAAATACCTTAACCAAAACGCACAATTTGGTCTTGAGGTAGATTAGA-ATTAGTGGCGT
**
48104582 TTTTAAAAAAA
65 TTACAAAAAAA
*
48104593 CGCCGTAAAA
1 CGCCGCAAAA
48104603 GAACATAATT
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
73 1 0.01
74 60 0.86
75 9 0.13
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (75 bp):
CGCCGCAAAATACCTTAACCAAAACGCACAATTTGGTCTTGAGGTAGATTAGAATTAGTGGCGTT
TACAAAAAAA
Found at i:48105135 original size:7 final size:7
Alignment explanation
Indices: 48105125--48105157 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
48105115 GGTTTATGGA
48105125 TTAGGGG
1 TTAGGGG
48105132 TTAGGGG
1 TTAGGGG
*
48105139 TTATGGG
1 TTAGGGG
48105146 TTAGGGG
1 TTAGGGG
48105153 TTAGG
1 TTAGG
48105158 TTAGGAGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.15, C:0.00, G:0.52, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:48105144 original size:21 final size:21
Alignment explanation
Indices: 48105118--48105157 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
48105108 GATTTAAGGT
48105118 TTATGGATTAGGGGTTAGGGG
1 TTATGGATTAGGGGTTAGGGG
*
48105139 TTATGGGTTAGGGGTTAGG
1 TTATGGATTAGGGGTTAGG
48105158 TTAGGAGTTA
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:0.17, C:0.00, G:0.47, T:0.35
Consensus pattern (21 bp):
TTATGGATTAGGGGTTAGGGG
Found at i:48105148 original size:14 final size:13
Alignment explanation
Indices: 48105129--48105168 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
48105119 TATGGATTAG
48105129 GGGTTAGGGGTTA
1 GGGTTAGGGGTTA
48105142 TGGGTTAGGGGTTA
1 -GGGTTAGGGGTTA
*
48105156 -GGTTAGGAGTTA
1 GGGTTAGGGGTTA
48105168 G
1 G
48105169 ATGTTAAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 11 0.46
14 13 0.54
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (13 bp):
GGGTTAGGGGTTA
Found at i:48105279 original size:7 final size:7
Alignment explanation
Indices: 48105267--48105349 Score: 60
Period size: 7 Copynumber: 11.9 Consensus size: 7
48105257 TAAATAAGTT
48105267 TTAGGGG
1 TTAGGGG
48105274 TTAGGGG
1 TTAGGGG
**
48105281 TTAAAGG
1 TTAGGGG
* *
48105288 TCATGGGC
1 TTA-GGGG
* *
48105296 TAAGGGT
1 TTAGGGG
* *
48105303 TTAAGGT
1 TTAGGGG
48105310 TTA-GGG
1 TTAGGGG
*
48105316 TTAAGGG
1 TTAGGGG
*
48105323 TTAAGGG
1 TTAGGGG
48105330 TTAGGGG
1 TTAGGGG
48105337 TTAGGGG
1 TTAGGGG
48105344 TTAGGG
1 TTAGGG
48105350 ATTGGGTTAT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
6 5 0.08
7 54 0.87
8 3 0.05
ACGTcount: A:0.22, C:0.02, G:0.46, T:0.30
Consensus pattern (7 bp):
TTAGGGG
Found at i:48105337 original size:21 final size:21
Alignment explanation
Indices: 48105267--48105346 Score: 81
Period size: 21 Copynumber: 3.8 Consensus size: 21
48105257 TAAATAAGTT
* *
48105267 TTAGGGGTTAGGGGTTAAAGG
1 TTAGGGGTTAAGGGTTAAGGG
* * * *
48105288 TCATGGGCTAAGGGTTTAAGGT
1 TTAGGGGTTAAGGG-TTAAGGG
48105310 TTA-GGGTTAAGGGTTAAGGG
1 TTAGGGGTTAAGGGTTAAGGG
*
48105330 TTAGGGGTTAGGGGTTA
1 TTAGGGGTTAAGGGTTA
48105347 GGGATTGGGT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
20 9 0.19
21 31 0.66
22 7 0.15
ACGTcount: A:0.23, C:0.03, G:0.44, T:0.31
Consensus pattern (21 bp):
TTAGGGGTTAAGGGTTAAGGG
Found at i:48105594 original size:14 final size:14
Alignment explanation
Indices: 48105575--48105601 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48105565 GATATGCAAT
48105575 ATATAATAATTTGA
1 ATATAATAATTTGA
48105589 ATATAATAATTTG
1 ATATAATAATTTG
48105602 GAATTGTAAA
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:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (14 bp):
ATATAATAATTTGA
Found at i:48105675 original size:17 final size:17
Alignment explanation
Indices: 48105637--48105674 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
48105627 TCAAAATTAC
*
48105637 AAAAATAAAATGAAAAT
1 AAAAATAAAAAGAAAAT
48105654 AAAAATAAAAAG-AAAT
1 AAAAATAAAAAGAAAAT
48105670 AAAAA
1 AAAAA
48105675 AACTAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (17 bp):
AAAAATAAAAAGAAAAT
Found at i:48105722 original size:47 final size:47
Alignment explanation
Indices: 48105671--48105762 Score: 121
Period size: 47 Copynumber: 2.0 Consensus size: 47
48105661 AAAAGAAATA
** *
48105671 AAAAAACTAAAATTTTTATTTTTACCTAATTTTTATAAATATTACTT
1 AAAAAACTAAAATTGATAATTTTACCTAATTTTTATAAATATTACTT
* * * *
48105718 AAAAAACTGAGATTGATAATTTTATCTAATTTTTTTAAATATTAC
1 AAAAAACTAAAATTGATAATTTTACCTAATTTTTATAAATATTAC
48105763 CGAAATTAAC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (47 bp):
AAAAAACTAAAATTGATAATTTTACCTAATTTTTATAAATATTACTT
Found at i:48106517 original size:198 final size:198
Alignment explanation
Indices: 48106166--48106557 Score: 588
Period size: 198 Copynumber: 2.0 Consensus size: 198
48106156 CGCAATTTTA
*
48106166 AGAAATTGTTTACAAAAACGGCTCCGTTTTCTTATTTATCTTTAGTGGCGCTTTTAGTACACGCC
1 AGAAATTGTTTACAAAAACGGCTCCGTTTTCTTATTTATCTTTAGTGGCGCTTTTAGTAAACGCC
* * * * * ** *
48106231 GCAAAATTATTTTAATTTTTATGGAGACGATGCCGTTTTGTCTAAAACGCCATGAGTTTTAGTTT
66 GCAAAAATATTTTAATTTTTATGGAGACGATGACGTTTTCTCTAAAACGCAATGACTTAGAGTTA
*
48106296 ACTAATCGGGGAACGACAGCGTTTGATCATATTACTAGTGGCACTAGTATATAAACGCCGCAAAG
131 ACTAATCGGGAAACGACAGCGTTTGATCATATTACTAGTGGCACTAGTATATAAACGCCGCAAAG
48106361 TAC
196 TAC
** *
48106364 AGAAATTGTTTAGGAAAACGGCTTCGTTTTCTTATTTA-CTTTTAGTGGCGCTTTTAGTAAACGC
1 AGAAATTGTTTACAAAAACGGCTCCGTTTTCTTATTTATC-TTTAGTGGCGCTTTTAGTAAACGC
* * *
48106428 CGCAAAAATGTTTTAATTTTTATGGAGACGATGATGTTTTCTCTAAAATGCAATGACTTAGAGTT
65 CGCAAAAATATTTTAATTTTTATGGAGACGATGACGTTTTCTCTAAAACGCAATGACTTAGAGTT
* * * *
48106493 AACTGATCGGGAAACGATAGCGTTTGATCATATTACTAGTGGCGCTGGTATATAAACGCCGCAAA
130 AACTAATCGGGAAACGACAGCGTTTGATCATATTACTAGTGGCACTAGTATATAAACGCCGCAAA
48106558 TGGGTTAATT
Statistics
Matches: 173, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
197 1 0.01
198 172 0.99
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (198 bp):
AGAAATTGTTTACAAAAACGGCTCCGTTTTCTTATTTATCTTTAGTGGCGCTTTTAGTAAACGCC
GCAAAAATATTTTAATTTTTATGGAGACGATGACGTTTTCTCTAAAACGCAATGACTTAGAGTTA
ACTAATCGGGAAACGACAGCGTTTGATCATATTACTAGTGGCACTAGTATATAAACGCCGCAAAG
TAC
Found at i:48107072 original size:10 final size:10
Alignment explanation
Indices: 48107057--48107081 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
48107047 TCGAAAATTG
48107057 CAAAATTGTT
1 CAAAATTGTT
48107067 CAAAATTGTT
1 CAAAATTGTT
48107077 CAAAA
1 CAAAA
48107082 CCATGTCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (10 bp):
CAAAATTGTT
Found at i:48107891 original size:7 final size:7
Alignment explanation
Indices: 48107879--48107951 Score: 92
Period size: 7 Copynumber: 10.3 Consensus size: 7
48107869 TGTTTCATTA
48107879 TTTTCTG
1 TTTTCTG
48107886 TTTTCTG
1 TTTTCTG
48107893 TTTTCTG
1 TTTTCTG
**
48107900 CATTCTG
1 TTTTCTG
48107907 TTTTCTG
1 TTTTCTG
*
48107914 TTTTCTA
1 TTTTCTG
*
48107921 TTTTTTG
1 TTTTCTG
48107928 TTTTCTG
1 TTTTCTG
*
48107935 TTTTGCTA
1 TTTT-CTG
48107943 TTTTCTG
1 TTTTCTG
48107950 TT
1 TT
48107952 GAATGAAGTG
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
7 49 0.89
8 6 0.11
ACGTcount: A:0.04, C:0.14, G:0.12, T:0.70
Consensus pattern (7 bp):
TTTTCTG
Found at i:48107946 original size:21 final size:21
Alignment explanation
Indices: 48107877--48107951 Score: 105
Period size: 21 Copynumber: 3.5 Consensus size: 21
48107867 TATGTTTCAT
48107877 TATTTTCTGTTTTCTGTTTTC
1 TATTTTCTGTTTTCTGTTTTC
***
48107898 TGCATTCTGTTTTCTGTTTTC
1 TATTTTCTGTTTTCTGTTTTC
*
48107919 TATTTTTTGTTTTCTGTTTTGC
1 TATTTTCTGTTTTCTGTTTT-C
48107941 TATTTTCTGTT
1 TATTTTCTGTT
48107952 GAATGAAGTG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 34 0.76
22 11 0.24
ACGTcount: A:0.05, C:0.13, G:0.12, T:0.69
Consensus pattern (21 bp):
TATTTTCTGTTTTCTGTTTTC
Found at i:48108476 original size:102 final size:100
Alignment explanation
Indices: 48108355--48108764 Score: 741
Period size: 100 Copynumber: 4.1 Consensus size: 100
48108345 ATATTAAAAT
48108355 ATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAAT
1 ATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAAT
* *
48108420 ATAATTTTTTAAAATTTATATATTACATTA-TGGGAA
66 ATAATTTTTCAAAATTTATATATTACATTACT--TAA
48108456 TATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAA
1 -ATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAA
* *
48108521 TATAATTTTTTAAAATTTATATATTACATGACTTAA
65 TATAATTTTTCAAAATTTATATATTACATTACTTAA
48108557 ATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAAT
1 ATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAAT
*
48108622 ATAATTTTTCAAAATTTATATGTTACATTACTTAA
66 ATAATTTTTCAAAATTTATATATTACATTACTTAA
48108657 ATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAAT
1 ATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAAT
48108722 ATAATTTTTCAAAATTTATATATTACATTACTTAA
66 ATAATTTTTCAAAATTTATATATTACATTACTTAA
48108757 ATATATAT
1 ATATATAT
48108765 TTTTAAGTAT
Statistics
Matches: 301, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
100 204 0.68
101 2 0.01
102 94 0.31
103 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (100 bp):
ATATATATATGTTAATATTTTTACAATTTAATTTAACTTATTACTAATACATATATTGTTCGAAT
ATAATTTTTCAAAATTTATATATTACATTACTTAA
Found at i:48108852 original size:13 final size:13
Alignment explanation
Indices: 48108834--48108885 Score: 77
Period size: 13 Copynumber: 4.0 Consensus size: 13
48108824 TTTTACTCTT
*
48108834 AATATATTACTTG
1 AATATATTACTTA
48108847 AATATATTACTTA
1 AATATATTACTTA
*
48108860 AATAAATTACTTA
1 AATATATTACTTA
*
48108873 AATACATTACTTA
1 AATATATTACTTA
48108886 CTAAAATTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (13 bp):
AATATATTACTTA
Found at i:48108910 original size:53 final size:53
Alignment explanation
Indices: 48108853--48108988 Score: 200
Period size: 53 Copynumber: 2.6 Consensus size: 53
48108843 CTTGAATATA
**
48108853 TTACTTAAATAAATTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
* ** * *
48108906 TTACTTAAATATGTTACTCAGTTACATTAATTACTAAAATTTGGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
*
48108959 TTACTTAAATATGTTACTTGAATACATTAC
1 TTACTTAAATATGTTACTTAAATACATTAC
48108989 CCGCTATAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 71 1.00
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (53 bp):
TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
Found at i:48109157 original size:9 final size:9
Alignment explanation
Indices: 48109133--48109330 Score: 126
Period size: 9 Copynumber: 22.8 Consensus size: 9
48109123 TATGTACAAG
48109133 AACTTACAT
1 AACTTACAT
* *
48109142 AATTTACAC
1 AACTTACAT
*
48109151 AACTTACTT
1 AACTTACAT
*
48109160 AACCTACAT
1 AACTTACAT
48109169 AACTTACAT
1 AACTTACAT
48109178 AA--TACA-
1 AACTTACAT
48109184 AAGCTTACAT
1 AA-CTTACAT
* *
48109194 AACTAAAAT
1 AACTTACAT
* *
48109203 AGCTTACAC
1 AACTTACAT
48109212 AACTTACAT
1 AACTTACAT
*
48109221 AACATACAT
1 AACTTACAT
* **
48109230 TACTTTGAT
1 AACTTACAT
48109239 AACTTACAT
1 AACTTACAT
*
48109248 AAGTTACAT
1 AACTTACAT
*
48109257 AA--TACAC
1 AACTTACAT
48109264 AACTTACAT
1 AACTTACAT
** *
48109273 AGTTTACTT
1 AACTTACAT
*
48109282 AA--TACAA
1 AACTTACAT
48109289 AACTTACAT
1 AACTTACAT
48109298 AACTT--AT
1 AACTTACAT
*
48109305 ACACGTACAT
1 A-ACTTACAT
*
48109315 AACCTACAT
1 AACTTACAT
*
48109324 AATTTAC
1 AACTTAC
48109331 TTAATACATA
Statistics
Matches: 140, Mismatches: 38, Indels: 22
0.70 0.19 0.11
Matches are distributed among these distances:
6 2 0.01
7 18 0.13
8 3 0.02
9 112 0.80
10 5 0.04
ACGTcount: A:0.44, C:0.21, G:0.03, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:48109197 original size:25 final size:25
Alignment explanation
Indices: 48109164--48109303 Score: 111
Period size: 25 Copynumber: 5.4 Consensus size: 25
48109154 TTACTTAACC
48109164 TACATAACTTACATAATACA-AAGCT
1 TACATAACTTACATAATACACAA-CT
* * *
48109189 TACATAACTAAAATAGCTTACACAACT
1 TACATAACTTACATA--ATACACAACT
* * ** *
48109216 TACATAACATACATTACTTTGATAACT
1 TACATAACTTACA-TA-ATACACAACT
*
48109243 TACATAAGTTACATAATACACAACT
1 TACATAACTTACATAATACACAACT
** * *
48109268 TACATAGTTTACTTAATACAAAACT
1 TACATAACTTACATAATACACAACT
48109293 TACATAACTTA
1 TACATAACTTA
48109304 TACACGTACA
Statistics
Matches: 90, Mismatches: 21, Indels: 8
0.76 0.18 0.07
Matches are distributed among these distances:
25 49 0.54
26 2 0.02
27 35 0.39
28 4 0.04
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (25 bp):
TACATAACTTACATAATACACAACT
Found at i:48109341 original size:25 final size:25
Alignment explanation
Indices: 48109237--48109341 Score: 106
Period size: 25 Copynumber: 4.2 Consensus size: 25
48109227 CATTACTTTG
* *
48109237 ATAACTTACATAAGTTACATAATAC
1 ATAACTTACATAATTTACTTAATAC
* *
48109262 ACAACTTACATAGTTTACTTAATAC
1 ATAACTTACATAATTTACTTAATAC
* *
48109287 AAAACTTACATAACTTATAC--ACGTAC
1 ATAACTTACATAA-TT-TACTTA-ATAC
*
48109313 ATAACCTACATAATTTACTTAATAC
1 ATAACTTACATAATTTACTTAATAC
48109338 ATAA
1 ATAA
48109342 ATATATATTA
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
24 3 0.05
25 42 0.65
26 17 0.26
27 3 0.05
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (25 bp):
ATAACTTACATAATTTACTTAATAC
Found at i:48116399 original size:16 final size:16
Alignment explanation
Indices: 48116374--48116411 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
48116364 TTGAATTACT
*
48116374 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
48116390 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
48116406 ATTACA
1 ATTACA
48116412 GCGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:48125218 original size:23 final size:22
Alignment explanation
Indices: 48125174--48125222 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
48125164 TGATGATTGG
48125174 TTGATGAAATTATGATATGAAA
1 TTGATGAAATTATGATATGAAA
*
48125196 TTGA-GAAATTGATTATAATGAAA
1 TTGATGAAATT-ATGAT-ATGAAA
48125219 TTGA
1 TTGA
48125223 AATAAGGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 6 0.25
22 8 0.33
23 10 0.42
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.37
Consensus pattern (22 bp):
TTGATGAAATTATGATATGAAA
Found at i:48125224 original size:21 final size:19
Alignment explanation
Indices: 48125178--48125225 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 19
48125168 GATTGGTTGA
48125178 TGAAATTATGATATGAAAT
1 TGAAATTATGATATGAAAT
*
48125197 TGAGAAATTGATTATAATGAAAT
1 T--GAAATT-ATGAT-ATGAAAT
48125220 TGAAAT
1 TGAAAT
48125226 AAGGATGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 1 0.04
21 11 0.46
22 4 0.17
23 8 0.33
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (19 bp):
TGAAATTATGATATGAAAT
Found at i:48127924 original size:17 final size:18
Alignment explanation
Indices: 48127904--48127945 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
48127894 TACATAAATA
* *
48127904 TTTTTTATACATTGTT-G
1 TTTTTTATAAATTATTAG
48127921 TTTTTTA-AAATTATTAG
1 TTTTTTATAAATTATTAG
48127938 TTTTTTAT
1 TTTTTTAT
48127946 TTTTTTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (18 bp):
TTTTTTATAAATTATTAG
Found at i:48133991 original size:16 final size:16
Alignment explanation
Indices: 48133970--48134038 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
48133960 TTTGGTTCGC
48133970 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
48133986 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
48134002 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
48134019 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
48134035 TGTA
1 TGTA
48134039 ATAGCAAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:48134016 original size:33 final size:32
Alignment explanation
Indices: 48133970--48134038 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
48133960 TTTGGTTCGC
48133970 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
48134002 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
48134035 TGTA
1 TGTA
48134039 ATAGCAAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:48134294 original size:16 final size:16
Alignment explanation
Indices: 48134254--48134308 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
48134244 TTAATCATAT
*
48134254 TTAAACATA-ATTTTTA
1 TTAAA-ATATATTTTAA
48134270 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
48134285 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
48134303 -TAAAAT
1 TTAAAAT
48134309 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:48134301 original size:18 final size:17
Alignment explanation
Indices: 48134274--48134308 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48134264 TTTTTATTAA
*
48134274 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
48134292 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
48134309 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:48134418 original size:120 final size:116
Alignment explanation
Indices: 48134222--48134791 Score: 566
Period size: 120 Copynumber: 4.8 Consensus size: 116
48134212 TAATAAGATT
* * * *
48134222 ATTATTATCAATAATAAATAATTT--AATCAT-ATTTAAACATAATTTTTATTAAATATATTTTA
1 ATTATTATTAACAATAAATAATTTAAAAT-ATAATTTAAA-ATAATTATTATTAAATATAATTTA
* * *
48134284 ATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGAAATT-TGT-TTTGGTAA
64 ATAAAAATATATAATTTAATAAAATTCTTAATAATTA--A-ATATTCT-TATAT-G-AA
* *
48134341 ATTATTATTAACAATAAATAATTTAAAAGATAATTTAACATAATTATTATTAAATATAATTTAAT
1 ATTATTATTAACAATAAATAATTTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAAT
48134406 AAAAATATATAATTTAATAAAATTCTTAAT-ATTAAATATTCTTATATGAA
66 AAAAATATATAATTTAATAAAATTCTTAATAATTAAATATTCTTATATGAA
* * * *
48134456 TTTAATAAAATTATA-ATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAA
1 ATT-AT--TATTA-ACA-ATA-AATAATTTAAAATATAATTTAAAATAATTATTATTAAATATAA
* * *
48134520 TTTAATAGAAATATATAATTTAATAAAATTCTTAATATTTAAATATTCTTAAATGAA
60 TTTAATAAAAATATATAATTTAATAAAATTCTTAATAATTAAATATTCTTATATGAA
* * * *
48134577 TTTACTA-AAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAA
1 ATTATTATTAA-C--AATAAATAAT--T-TAAAATATAATTTAAAATAATTATTATTAAATATAA
* *
48134641 TTTAACAAAAATATATAATTTAATAAAATTCTTAAT-ATTAAATATTCTTAAATGAA
60 TTTAATAAAAATATATAATTTAATAAAATTCTTAATAATTAAATATTCTTATATGAA
* * * *
48134697 TTTACTAAAATCATAAC-ATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAAATAT
1 ATTA-T--TAT--TAACAATA-AATAATTTAAAATATAATTTAAAATAATTATTATT--AAATAT
* *
48134761 AATTTAGTAAAAATATATAATTTAATCAAAT
58 AATTTAATAAAAATATATAATTTAATAAAAT
48134792 CATTATATTC
Statistics
Matches: 387, Mismatches: 36, Indels: 53
0.81 0.08 0.11
Matches are distributed among these distances:
115 4 0.01
116 9 0.02
117 5 0.01
118 10 0.03
119 33 0.09
120 182 0.47
121 99 0.26
122 37 0.10
123 5 0.01
125 1 0.00
126 2 0.01
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (116 bp):
ATTATTATTAACAATAAATAATTTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAAT
AAAAATATATAATTTAATAAAATTCTTAATAATTAAATATTCTTATATGAA
Found at i:48134469 original size:19 final size:18
Alignment explanation
Indices: 48134394--48134549 Score: 77
Period size: 18 Copynumber: 8.0 Consensus size: 18
48134384 TTATTATTAA
*
48134394 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAATT
48134412 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
* ***
48134430 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAATT
48134449 ATATGAATTTAATAAAATT
1 ATAT-AATTTAATAAAATT
* *
48134468 ATA-ATATATAATACTATAA-A
1 ATATA-ATTTAATA--A-AATT
48134488 ATATAATTTAAAATAATTATTATT
1 ATATAATTT--AATAA--A--ATT
48134512 AAATATAATTTAATAGAAA-T
1 --ATATAATTTAATA-AAATT
48134532 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
48134550 CTTAATATTT
Statistics
Matches: 106, Mismatches: 13, Indels: 38
0.68 0.08 0.24
Matches are distributed among these distances:
17 8 0.08
18 41 0.39
19 16 0.15
20 12 0.11
21 9 0.08
22 4 0.04
23 2 0.02
24 4 0.04
25 1 0.01
26 9 0.08
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATAAAATT
Found at i:48134502 original size:22 final size:23
Alignment explanation
Indices: 48134460--48134502 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
48134450 TATGAATTTA
*
48134460 ATAAAATTATAATATATAATACT
1 ATAAAATTATAATATAAAATACT
*
48134483 ATAAAA-TATAATTTAAAATA
1 ATAAAATTATAATATAAAATA
48134503 ATTATTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
ATAAAATTATAATATAAAATACT
Found at i:48134618 original size:121 final size:120
Alignment explanation
Indices: 48134364--48134791 Score: 739
Period size: 120 Copynumber: 3.5 Consensus size: 120
48134354 ATAAATAATT
* *
48134364 TAAAAGATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
1 TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
* * *
48134429 TCTTAATATTAAATATTCTTATATGAATTTAATAAAATTATAATATATAATACTA
66 TCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTA
*
48134484 TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAGAAATATATAATTTAATAAAAT
1 TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
48134549 TCTTAATATTTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTA
66 TCTTAATA-TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTA
*
48134605 TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAATAAAAT
1 TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
*
48134670 TCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAACATATAATACTA
66 TCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTA
* *
48134725 TAAAATATAATTTAAAATAATTATTATTAAAAATATAATTTAGTAAAAATATATAATTTAATCAA
1 TAAAATATAATTTAAAATAATTATTATT--AAATATAATTTAATAAAAATATATAATTTAATAAA
48134790 AT
64 AT
48134792 CATTATATTC
Statistics
Matches: 293, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
120 144 0.49
121 115 0.39
122 34 0.12
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (120 bp):
TAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAT
TCTTAATATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTA
Found at i:48134989 original size:25 final size:25
Alignment explanation
Indices: 48134915--48134993 Score: 112
Period size: 25 Copynumber: 3.3 Consensus size: 25
48134905 ATTGCAAAAA
48134915 GAAATTACTGTAAGTTAGAGCATAT
1 GAAATTACTGTAAGTTAGAGCATAT
*
48134940 GAAATTACT-T---TTTGAAGCATAT
1 GAAATTACTGTAAGTTAG-AGCATAT
48134962 GAAATTACTGTAAGTTAGAGCATAT
1 GAAATTACTGTAAGTTAGAGCATAT
48134987 GAAATTA
1 GAAATTA
48134994 AGCAAAGATC
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
21 3 0.06
22 16 0.34
23 1 0.02
24 1 0.02
25 23 0.49
26 3 0.06
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.34
Consensus pattern (25 bp):
GAAATTACTGTAAGTTAGAGCATAT
Found at i:48146571 original size:19 final size:19
Alignment explanation
Indices: 48146547--48146584 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
48146537 TGAAAATGTT
48146547 AGTATGTTCTCATAGTAAA
1 AGTATGTTCTCATAGTAAA
48146566 AGTATGTTCTCATAGTAAA
1 AGTATGTTCTCATAGTAAA
48146585 TTGCGTATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (19 bp):
AGTATGTTCTCATAGTAAA
Found at i:48151278 original size:41 final size:41
Alignment explanation
Indices: 48151149--48151279 Score: 97
Period size: 41 Copynumber: 3.2 Consensus size: 41
48151139 GATATTTTGG
* * * *
48151149 GCATTTTTCTCATAAACGCCGCTATTGC-TAACCTTTTGCT
1 GCATTTTTCTCATAAACACCGCTACTGCTTTACATTTTGCT
** * *** * *
48151189 GTGTTTATGAGAAAAACACCGCTACTGTTTTACATTTTGCT
1 GCATTTTTCTCATAAACACCGCTACTGCTTTACATTTTGCT
* *
48151230 GCGTTTTTCTCATAAACACCGCTATTGCTTTAC-TTATTGC-
1 GCATTTTTCTCATAAACACCGCTACTGCTTTACATT-TTGCT
48151270 GACATTTTTC
1 G-CATTTTTC
48151280 GATTAATGCC
Statistics
Matches: 67, Mismatches: 21, Indels: 5
0.72 0.23 0.05
Matches are distributed among these distances:
40 21 0.31
41 46 0.69
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (41 bp):
GCATTTTTCTCATAAACACCGCTACTGCTTTACATTTTGCT
Found at i:48153313 original size:20 final size:20
Alignment explanation
Indices: 48153290--48153395 Score: 72
Period size: 20 Copynumber: 5.3 Consensus size: 20
48153280 GTGCTTCTGA
*
48153290 TAGCACATTCATGCTCATGT
1 TAGCACATTCGTGCTCATGT
* *
48153310 TAGCAC-TACGGTGCTCATGA
1 TAGCACATTC-GTGCTCATGT
* * *
48153330 TAGAACATTCGTGCTCCTAT
1 TAGCACATTCGTGCTCATGT
* * * *
48153350 TTGCAC-TATGGTGTTCATGA
1 TAGCACAT-TCGTGCTCATGT
* *
48153370 TAGCACATTCATGCTCTTGT
1 TAGCACATTCGTGCTCATGT
48153390 TAGCAC
1 TAGCAC
48153396 TATGGTATTC
Statistics
Matches: 61, Mismatches: 21, Indels: 8
0.68 0.23 0.09
Matches are distributed among these distances:
19 3 0.05
20 55 0.90
21 3 0.05
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (20 bp):
TAGCACATTCGTGCTCATGT
Found at i:48153324 original size:40 final size:41
Alignment explanation
Indices: 48153280--48153425 Score: 174
Period size: 40 Copynumber: 3.7 Consensus size: 41
48153270 TCCTGAACAA
*
48153280 GTGCTTC-TGATAGCACATTCATGCTCATGTTAGCACTACG
1 GTGCTTCATGATAGCACATTCATGCTCATGTTAGCACTATG
* * * * *
48153320 GTGC-TCATGATAGAACATTCGTGCTCCTATTTGCACTATG
1 GTGCTTCATGATAGCACATTCATGCTCATGTTAGCACTATG
*
48153360 GTG-TTCATGATAGCACATTCATGCTCTTGTTAGCACTATG
1 GTGCTTCATGATAGCACATTCATGCTCATGTTAGCACTATG
* * *
48153400 GT-ATTCTTGATAGCATATTCATGCTC
1 GTGCTTCATGATAGCACATTCATGCTC
48153426 CTATTTGAAT
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
39 2 0.02
40 88 0.98
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (41 bp):
GTGCTTCATGATAGCACATTCATGCTCATGTTAGCACTATG
Found at i:48158394 original size:22 final size:21
Alignment explanation
Indices: 48158345--48158395 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
48158335 GTGTAAAAAG
**
48158345 AGGCACACGGTCGTGTGGAAT
1 AGGCACACGCCCGTGTGGAAT
48158366 -GGCACACGCCCGTGTGGAAT
1 AGGCACACGCCCGTGTGGAAT
48158386 AAGGCACACG
1 -AGGCACACG
48158396 ACTGTGTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 18 0.69
22 8 0.31
ACGTcount: A:0.25, C:0.25, G:0.35, T:0.14
Consensus pattern (21 bp):
AGGCACACGCCCGTGTGGAAT
Found at i:48158402 original size:22 final size:20
Alignment explanation
Indices: 48158346--48158403 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
48158336 TGTAAAAAGA
**
48158346 GGCACACGGTCGTGTGGAAT
1 GGCACACGACCGTGTGGAAT
*
48158366 GGCACACGCCCGTGTGGAAT
1 GGCACACGACCGTGTGGAAT
*
48158386 AAGGCACACGACTGTGTG
1 --GGCACACGACCGTGTG
48158404 AACAGACCGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 18 0.56
22 14 0.44
ACGTcount: A:0.22, C:0.24, G:0.36, T:0.17
Consensus pattern (20 bp):
GGCACACGACCGTGTGGAAT
Found at i:48161961 original size:15 final size:15
Alignment explanation
Indices: 48161941--48161974 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
48161931 CCGATTTTTA
48161941 TAATTTTTAATATTT
1 TAATTTTTAATATTT
* *
48161956 TAATTTTTGATTTTT
1 TAATTTTTAATATTT
48161971 TAAT
1 TAAT
48161975 AATTTATTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
TAATTTTTAATATTT
Found at i:48167192 original size:21 final size:22
Alignment explanation
Indices: 48167167--48167210 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
48167157 ACGACTGAAC
48167167 AAAAAGATGTCATCCTTATCCAAA
1 AAAAAGATGTCATCCTTATCC--A
48167191 AAAAAGATGTCATCCTTATC
1 AAAAAGATGTCATCCTTATC
48167211 AAGAAACTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.27
Consensus pattern (22 bp):
AAAAAGATGTCATCCTTATCCA
Found at i:48172068 original size:28 final size:29
Alignment explanation
Indices: 48172017--48172073 Score: 107
Period size: 28 Copynumber: 2.0 Consensus size: 29
48172007 CCCACCTCTT
48172017 TATTTTAAAGAAAAAAAGGAAAATGGAAA
1 TATTTTAAAGAAAAAAAGGAAAATGGAAA
48172046 TATTTTAAAG-AAAAAAGGAAAATGGAAA
1 TATTTTAAAGAAAAAAAGGAAAATGGAAA
48172074 GAAGAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 18 0.64
29 10 0.36
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.21
Consensus pattern (29 bp):
TATTTTAAAGAAAAAAAGGAAAATGGAAA
Found at i:48181849 original size:33 final size:33
Alignment explanation
Indices: 48181802--48181901 Score: 146
Period size: 33 Copynumber: 3.0 Consensus size: 33
48181792 AGTTGAACAA
* *
48181802 AATGATGAAACTGCCCCAATAGATGTTCCAATC
1 AATGATGAAGCTGCCCCGATAGATGTTCCAATC
48181835 AATGATGAAGCTGCCCCGATAGATGTTCCAATC
1 AATGATGAAGCTGCCCCGATAGATGTTCCAATC
* * * *
48181868 ATTGATGAAGTTGCCCTGATAGATGTTTCAATC
1 AATGATGAAGCTGCCCCGATAGATGTTCCAATC
48181901 A
1 A
48181902 CTTATGTTGA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (33 bp):
AATGATGAAGCTGCCCCGATAGATGTTCCAATC
Found at i:48186404 original size:14 final size:16
Alignment explanation
Indices: 48186376--48186408 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
48186366 GAATCACCAA
48186376 AAAATAAAATGAAAAG
1 AAAATAAAATGAAAAG
48186392 AAAA-AAAAT-AAAAG
1 AAAATAAAATGAAAAG
48186406 AAA
1 AAA
48186409 TCCTCCCCCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 5 0.29
16 4 0.24
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (16 bp):
AAAATAAAATGAAAAG
Found at i:48191761 original size:34 final size:34
Alignment explanation
Indices: 48191718--48191783 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
48191708 ATCAATTTAA
48191718 TTCATAAAGTTACAGAGTGAATAGATAAAAAAAG
1 TTCATAAAGTTACAGAGTGAATAGATAAAAAAAG
48191752 TTCATAAAGTTACAGAGTGAATAGATAAAAAA
1 TTCATAAAGTTACAGAGTGAATAGATAAAAAA
48191784 GTAATCCTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.53, C:0.06, G:0.17, T:0.24
Consensus pattern (34 bp):
TTCATAAAGTTACAGAGTGAATAGATAAAAAAAG
Found at i:48193597 original size:35 final size:34
Alignment explanation
Indices: 48193558--48193637 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 34
48193548 AATTTAATTT
48193558 ATATTTTATTATTTGATTCA-AATATAATCTGTAAA-
1 ATATTTTATTATTTGATT-AGAATATAAT-T-TAAAG
*
48193593 ATATTTTGA-TATTTTATTATGAATATAATTTAAAG
1 ATATTTT-ATTATTTGATTA-GAATATAATTTAAAG
48193628 ATATTTTATT
1 ATATTTTATT
48193638 GTATATTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
34 6 0.15
35 24 0.62
36 9 0.23
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (34 bp):
ATATTTTATTATTTGATTAGAATATAATTTAAAG
Found at i:48193948 original size:21 final size:21
Alignment explanation
Indices: 48193920--48193974 Score: 94
Period size: 21 Copynumber: 2.6 Consensus size: 21
48193910 ACCGCTGTTT
48193920 CTAATCTCACCGCTACAGTATC
1 CTAATCTCACCGCTACAGTA-C
48193942 C-AATCTCACCGCTACAGTAC
1 CTAATCTCACCGCTACAGTAC
48193962 CTAATCTCACCGC
1 CTAATCTCACCGC
48193975 CACCGCTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.06
21 29 0.91
22 1 0.03
ACGTcount: A:0.27, C:0.40, G:0.09, T:0.24
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAC
Found at i:48198295 original size:4 final size:4
Alignment explanation
Indices: 48198286--48198315 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
48198276 TATCTTAGAT
48198286 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
48198316 TTAGTTTATT
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:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:48198486 original size:28 final size:28
Alignment explanation
Indices: 48198452--48198519 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
48198442 ATAAAAAAAA
*
48198452 TAACCAAAATATTATAACTTTTTTTTAT
1 TAACCAAAATATTATAAATTTTTTTTAT
*
48198480 TTACCAAAATATTATAAATTTTTTTTAT
1 TAACCAAAATATTATAAATTTTTTTTAT
48198508 TAACCAAAATAT
1 TAACCAAAATAT
48198520 ACCAAAAACA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (28 bp):
TAACCAAAATATTATAAATTTTTTTTAT
Found at i:48198547 original size:16 final size:16
Alignment explanation
Indices: 48198528--48198559 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
48198518 ATACCAAAAA
*
48198528 CAAAAACAAAAACCTG
1 CAAAAAAAAAAACCTG
48198544 CAAAAAAAAAAACCTG
1 CAAAAAAAAAAACCTG
48198560 TGGCGGCACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.22, G:0.06, T:0.06
Consensus pattern (16 bp):
CAAAAAAAAAAACCTG
Found at i:48201326 original size:14 final size:14
Alignment explanation
Indices: 48201307--48201337 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
48201297 TTTGATTGGT
*
48201307 GGAAAATATTTTCC
1 GGAAAATATTTTAC
48201321 GGAAAATATTTTAC
1 GGAAAATATTTTAC
48201335 GGA
1 GGA
48201338 TTTTCCAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (14 bp):
GGAAAATATTTTAC
Found at i:48201833 original size:27 final size:27
Alignment explanation
Indices: 48201747--48201844 Score: 103
Period size: 27 Copynumber: 3.6 Consensus size: 27
48201737 GAAAGGTATA
48201747 TTTCTTGTCCATAGTTTTGTGAATCGG
1 TTTCTTGTCCATAGTTTTGTGAATCGG
* * * *
48201774 TTTCTGGGT---TAGTTCTTTATGTTATTGG
1 TTTCT-TGTCCATAG-T-TTTGTG-AATCGG
48201802 TTTCTTGTCCATAGTTTTGTGAATCGG
1 TTTCTTGTCCATAGTTTTGTGAATCGG
48201829 TTTCTTGTCCATAGTT
1 TTTCTTGTCCATAGTT
48201845 AAAAAGATTT
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
25 3 0.05
26 1 0.02
27 32 0.57
28 16 0.29
29 1 0.02
30 3 0.05
ACGTcount: A:0.13, C:0.13, G:0.21, T:0.52
Consensus pattern (27 bp):
TTTCTTGTCCATAGTTTTGTGAATCGG
Found at i:48203915 original size:26 final size:26
Alignment explanation
Indices: 48203886--48203943 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
48203876 CATCCTCAAA
48203886 CTATAATCTAGATATTAAATTGGTCT
1 CTATAATCTAGATATTAAATTGGTCT
*
48203912 CTATAATCTAGATTTTAAATTGGTCT
1 CTATAATCTAGATATTAAATTGGTCT
48203938 CTATAA
1 CTATAA
48203944 ATTTTGATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.43
Consensus pattern (26 bp):
CTATAATCTAGATATTAAATTGGTCT
Found at i:48204286 original size:14 final size:15
Alignment explanation
Indices: 48204264--48204340 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
48204254 CAATCAAACA
48204264 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
48204278 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
48204293 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
48204313 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
48204327 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
48204341 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:48204305 original size:20 final size:20
Alignment explanation
Indices: 48204280--48204319 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
48204270 AATATTTTCC
*
48204280 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
48204300 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
48204320 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:48204325 original size:34 final size:35
Alignment explanation
Indices: 48204268--48204334 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
48204258 CAAACACCAG
*
48204268 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
48204303 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
48204335 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:48204341 original size:14 final size:14
Alignment explanation
Indices: 48204303--48204342 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
48204293 ACAGAAAAGT
*
48204303 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
48204317 AAATCATTTTACGG
1 AAAACATTTTACAG
48204331 AAAACATTTTAC
1 AAAACATTTTAC
48204343 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:48211784 original size:23 final size:23
Alignment explanation
Indices: 48211721--48211787 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
48211711 ATTATTAACT
*
48211721 GGAAGCTCCGGATAGCCATATATCG
1 GGAAGCTCCGGAGAGCC--ATATCG
* ** *
48211746 GGAAGTTCAAGCGAGCCATATCG
1 GGAAGCTCCGGAGAGCCATATCG
*
48211769 GGAAGGTCCGGAGAGCCAT
1 GGAAGCTCCGGAGAGCCAT
48211788 TAATTAGGAA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
23 21 0.64
25 12 0.36
ACGTcount: A:0.28, C:0.22, G:0.33, T:0.16
Consensus pattern (23 bp):
GGAAGCTCCGGAGAGCCATATCG
Found at i:48211973 original size:24 final size:25
Alignment explanation
Indices: 48211945--48212006 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
48211935 TAAGAACCAT
*
48211945 ATAACGAGAA-GCTCGA-GAGGGCTA
1 ATAACGAGAATGCTC-ATGAGAGCTA
48211969 ATAAC-AGAATGCTCATGAGAGCTA
1 ATAACGAGAATGCTCATGAGAGCTA
*
48211993 ATAACG-GGATGCTC
1 ATAACGAGAATGCTC
48212007 TTTCGAGCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 5 0.15
24 28 0.85
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (25 bp):
ATAACGAGAATGCTCATGAGAGCTA
Found at i:48213341 original size:16 final size:17
Alignment explanation
Indices: 48213320--48213363 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
48213310 ACATGTGGCA
48213320 AAAAATTATAAAA-AAT
1 AAAAATTATAAAAGAAT
48213336 AAAAATTCATAAAAGTAAT
1 AAAAATT-ATAAAAG-AAT
*
48213355 AAAAGTTAT
1 AAAAATTAT
48213364 TAAATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 7 0.29
17 6 0.25
18 2 0.08
19 9 0.38
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (17 bp):
AAAAATTATAAAAGAAT
Found at i:48213407 original size:18 final size:19
Alignment explanation
Indices: 48213362--48213400 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
48213352 AATAAAAGTT
48213362 ATTAAATTTTAATTAAAAA
1 ATTAAATTTTAATTAAAAA
*
48213381 ATTACATTTT-ATTAAAAA
1 ATTAAATTTTAATTAAAAA
48213399 AT
1 AT
48213401 AGAATTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTAAATTTTAATTAAAAA
Found at i:48213652 original size:18 final size:19
Alignment explanation
Indices: 48213614--48213652 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
48213604 GTACGATAAC
48213614 TTTTATAATTTTTTTACAA
1 TTTTATAATTTTTTTACAA
48213633 TTTT-TAATATTTTTTA-AA
1 TTTTATAAT-TTTTTTACAA
48213651 TT
1 TT
48213653 ATTTTTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTATAATTTTTTTACAA
Found at i:48219197 original size:9 final size:10
Alignment explanation
Indices: 48219177--48219201 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
48219167 AAAATGAGAG
48219177 TTTTAGGTTT
1 TTTTAGGTTT
48219187 TTTTAGGTTT
1 TTTTAGGTTT
48219197 TTTTA
1 TTTTA
48219202 ACAGAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.00, G:0.16, T:0.72
Consensus pattern (10 bp):
TTTTAGGTTT
Found at i:48219682 original size:3 final size:3
Alignment explanation
Indices: 48219664--48219719 Score: 64
Period size: 3 Copynumber: 19.7 Consensus size: 3
48219654 CATTAAATTA
* * *
48219664 ATT ATT -TT AAT ATT ATT ATT ACT ATT A-T ATT A-C ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
48219709 ATT ATT ATT AT
1 ATT ATT ATT AT
48219720 GATTTACTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 5 0.11
3 39 0.89
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:48219790 original size:24 final size:25
Alignment explanation
Indices: 48219757--48219804 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
48219747 TCAAATTTTG
*
48219757 TTGTATATATGTACATACATACATT
1 TTGTATATATATACATACATACATT
* *
48219782 TTGT-TATATATATATACGTACAT
1 TTGTATATATATACATACATACAT
48219805 ATTTTTCTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.46
Consensus pattern (25 bp):
TTGTATATATATACATACATACATT
Found at i:48219791 original size:28 final size:28
Alignment explanation
Indices: 48219751--48219805 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
48219741 TTAATTTCAA
* *
48219751 ATTTTGTTGTATATATGTACATACATAC
1 ATTTTGTTATATATATATACATACATAC
*
48219779 ATTTTGTTATATATATATACGTACATA
1 ATTTTGTTATATATATATACATACATA
48219806 TTTTTCTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (28 bp):
ATTTTGTTATATATATATACATACATAC
Found at i:48220216 original size:46 final size:47
Alignment explanation
Indices: 48220165--48220254 Score: 128
Period size: 46 Copynumber: 1.9 Consensus size: 47
48220155 CACATCCCTG
* *
48220165 TATATATACATACTTACATATATTTTTATATTGC-ATAATTTTAAAA
1 TATATATACATACATACATATATTTTTACATTGCTATAATTTTAAAA
* * *
48220211 TATATATACATACATATATATCTTTTTACATTTCTATAATTTTA
1 TATATATACATACATACATATATTTTTACATTGCTATAATTTTA
48220255 TTCATCTTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
46 29 0.76
47 9 0.24
ACGTcount: A:0.39, C:0.10, G:0.01, T:0.50
Consensus pattern (47 bp):
TATATATACATACATACATATATTTTTACATTGCTATAATTTTAAAA
Found at i:48224371 original size:18 final size:16
Alignment explanation
Indices: 48224348--48224387 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
48224338 TACTTCACTT
48224348 GAAAAAAGGAAACAAAAA
1 GAAAAAA-GAAA-AAAAA
48224366 GAAAAAAGAAAAAAAA
1 GAAAAAAGAAAAAAAA
*
48224382 TAAAAA
1 GAAAAA
48224388 CAAAAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
17 4 0.19
18 7 0.33
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (16 bp):
GAAAAAAGAAAAAAAA
Found at i:48225397 original size:44 final size:44
Alignment explanation
Indices: 48225349--48226127 Score: 306
Period size: 44 Copynumber: 17.8 Consensus size: 44
48225339 AAGATTATAG
* *
48225349 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCTA
* * * **
48225393 ATCTTATCT-TCT-CG-AGATAGTAGGAAGCAGATTTAAG-CCACTA
1 ATCTTATCTCCCTAAGCAG-TAGT-GG-AGCAGATTGAAGACGGCTA
* * * * * * * **
48225436 GTCCTATCTCACTGAGCAGCAGTGGAGTAGGTTGAAGATAG-TA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCTA
* * **
48225479 GATCTTATCTCCCTAAACAGTAGTGGAGCAGGTTGAAGATAG-TA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCTA
* * * * *
48225523 GATCTTATCTCCTTAAACAGTAGTTGAGCAGATCGAAGACGGCAA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCTA
* * * * ** *
48225568 ATCTTATCTTCCCGATA-TAGTAG-GAAGCAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTA-AGCAGTAGTGGAGCAGATTGAAGACGGCTA
* * * * * * * ***
48225611 TTCCTATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAGA-TTATA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCTA
* * *
48225654 GATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCAA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCTA
* * * * ** *
48225699 ATCTTATCTTCCC-GAGATAGTAGT-AAGCAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAG-CAGTAGTGGAGCAGATTGAAGACGGCTA
** * * * * ** * *
48225742 GCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTTG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCTA
* * *
48225786 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCTA
* * * * **
48225830 ATCTTATCT-TCTCAAGGTATTAG-GGAAGCAGATTTAAG-CCACTA
1 ATCTTATCTCCCT-AA-GCAGTAGTGG-AGCAGATTGAAGACGGCTA
** * * * * **
48225874 GCCTTATTTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTG-TA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCTA
* * *
48225917 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCTA
* * * * ** *
48225962 ATCTTATCTTCCTAAGGTATTAG-GGAAGCAGATTTAAG-CCACCA
1 ATCTTATCTCCCTAA-GCAGTAGTGG-AGCAGATTGAAGACGGCTA
** * * * * **
48226006 GCCTTATCTTCCTGAGCAGTAGTGGAGTAGGTTGAAGATTG-TA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCTA
* * **
48226049 GATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACGGGGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCTA
*
48226094 ATCTTATCTTCCC-AAGGTAGTAG-GGAAGCAGATT
1 ATCTTATC-TCCCTAA-GCAGTAGTGG-AGCAGATT
48226128 TAAGCCACCA
Statistics
Matches: 528, Mismatches: 169, Indels: 75
0.68 0.22 0.10
Matches are distributed among these distances:
41 3 0.01
42 21 0.04
43 98 0.19
44 328 0.62
45 75 0.14
46 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCTA
Found at i:48225555 original size:131 final size:131
Alignment explanation
Indices: 48225309--48225545 Score: 309
Period size: 131 Copynumber: 1.8 Consensus size: 131
48225299 TATCAAGCCG
* * *
48225309 TATCTCCCTGAGCAGTAGCGGAGTAGGTCGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCACTGAGCAGCAGCGGAGTAGGTCGAAGATTATAGATCTTATCTCCCTAAACAGTAGTGG
* * * * *
48225374 AGCAGATCGAAGACGGCGAATCTTATCTTCTCGAGATAGTAGGAAGCAGATTTAAGCCACTAGTC
66 AGCAGATCGAAGAAGGAGAATCTTATCTCCTCGAAACAGTAGGAAGCAGATTTAAGCCACTAGTC
48225439 C
131 C
* *
48225440 TATCTCACTGAGCAGCAGTGGAGTAGGTTGAAGA-TAGTAGATCTTATCTCCCTAAACAGTAGTG
1 TATCTCACTGAGCAGCAGCGGAGTAGGTCGAAGATTA-TAGATCTTATCTCCCTAAACAGTAGTG
* * * *
48225504 GAGCAGGTTGAAGATAGTAG-ATCTTATCTCCT-TAAACAGTAG
65 GAGCAGATCGAAGA-AGGAGAATCTTATCTCCTCGAAACAGTAG
48225546 TTGAGCAGAT
Statistics
Matches: 90, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
130 9 0.10
131 79 0.88
132 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (131 bp):
TATCTCACTGAGCAGCAGCGGAGTAGGTCGAAGATTATAGATCTTATCTCCCTAAACAGTAGTGG
AGCAGATCGAAGAAGGAGAATCTTATCTCCTCGAAACAGTAGGAAGCAGATTTAAGCCACTAGTC
C
Found at i:48225600 original size:175 final size:175
Alignment explanation
Indices: 48225309--48225692 Score: 585
Period size: 175 Copynumber: 2.2 Consensus size: 175
48225299 TATCAAGCCG
* * * *
48225309 TATCTCCCTGAGCAGTAGCGGAGTAGGTCGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTATAGATCTTATCTCCCTAAACAGTAGTGG
* * *
48225374 AGCAGATCGAAGACGGCGAATCTTATCTTCTCGAGATAGTAGGAAGCAGATTTAAGCCACTAGTC
66 AGCAGATCGAAGACGGCAAATCTTATCTTCCCGAGATAGTAGGAAGCAGATTTAAGCCACCAGTC
48225439 CTATC-TCACTGAGCAGCAGTGGAGTAGGTTGAAGA-TAGTAGATCT
131 CTATCTTC-CTGAGCAGCAGTGGAGTAGGTTGAAGATTA-TAGATCT
* * * *
48225484 TATCTCCCTAAACAGTAGTGGAGCAGGTTGAAGA-TAGTAGATCTTATCTCCTTAAACAGTAGTT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTA-TAGATCTTATCTCCCTAAACAGTAGTG
* *
48225548 GAGCAGATCGAAGACGGCAAATCTTATCTTCCCGATATAGTAGGAAGCAGATTTAAGCCACCATT
65 GAGCAGATCGAAGACGGCAAATCTTATCTTCCCGAGATAGTAGGAAGCAGATTTAAGCCACCAGT
48225613 CCTATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGATCT
130 CCTATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGATCT
* *
48225659 TATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGA
48225693 CGGCAAATCT
Statistics
Matches: 189, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
174 2 0.01
175 183 0.97
176 4 0.02
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (175 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTATAGATCTTATCTCCCTAAACAGTAGTGG
AGCAGATCGAAGACGGCAAATCTTATCTTCCCGAGATAGTAGGAAGCAGATTTAAGCCACCAGTC
CTATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGATCT
Found at i:48225619 original size:131 final size:132
Alignment explanation
Indices: 48225482--48226152 Score: 1006
Period size: 132 Copynumber: 5.1 Consensus size: 132
48225472 GATAGTAGAT
* * * * * * *
48225482 CTTATCTCCCTAAACAGTAGTGGAGCAGGTTGAAGATAGTAGATCTTATCTCCTTAAACAGTAGT
1 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
* * * **
48225547 TGAGCAGATCGAAGACGGCAAATCTTATCTTCCCGATATAGTA-GGAAGCAGATTTAAGCCACCA
66 GGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCA
*
48225611 TTC
131 -GC
* *
48225614 C-TATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGT
1 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
* * * * *
48225678 AGAGCAGATCGAAGACGGCAAATCTTATCTTCCCGAGATAGTA-GTAAGCAGATTTAAGCCACCA
66 GGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCA
48225742 GC
131 GC
*
48225744 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTTGATCTTATCTCCCTAAGCAGTAGT
1 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
* * * *
48225809 GGAGTAGATCGAAGACGGCGAATCTTATCTTCTCAAGGTATTAGGGAAGCAGATTTAAGCCACTA
66 GGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCA
48225874 GC
131 GC
* *
48225876 CTTATTTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
1 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
* * *
48225941 GGAGCAGATCGAAGACGACGAATCTTATCTTCCTAAGGTATTAGGGAAGCAGATTTAAGCCACCA
66 GGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCA
48226006 GC
131 GC
* *
48226008 CTTATCTTCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
1 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
* *
48226073 GAAGCAGATCGAAGACGGGGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCA
66 GGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCA
48226138 GC
131 GC
48226140 CTTATCTCCCTGA
1 CTTATCTCCCTGA
48226153 AGTTGCAGTG
Statistics
Matches: 494, Mismatches: 43, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
130 2 0.00
131 211 0.43
132 281 0.57
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (132 bp):
CTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
GGAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCA
GC
Found at i:48226168 original size:44 final size:44
Alignment explanation
Indices: 48226120--48226344 Score: 190
Period size: 44 Copynumber: 5.2 Consensus size: 44
48226110 GTAGTAGGGA
* * * *
48226120 AGCAGATTTAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTGAAGACACTAGTCTTATCTCCCTGAAGTTGCAGTGG
* * * *
48226164 AGCAGATT-AAAAC-CATAGATCTTATCTCTCTGAAGTAGCAGTAG
1 AGCAGATTGAAGACAC-TAG-TCTTATCTCCCTGAAGTTGCAGTGG
* * * *
48226208 AGCAGATTG--CACA-TAGTCTTATATCCTTGAAGTTGCATTGG
1 AGCAGATTGAAGACACTAGTCTTATCTCCCTGAAGTTGCAGTGG
** * * *
48226249 AGCAGACAGAAGAAACTAATTTTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTGAAGACACTAGTCTTATCTCCCTGAAGTTGCAGTGG
* * * * *
48226293 AACAGATTGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTGAAGACACTAGTCTTATCTCCCTGAAGTTGCAGTGG
*
48226337 AGCGGATT
1 AGCAGATT
48226345 AAAATGATGG
Statistics
Matches: 143, Mismatches: 31, Indels: 14
0.76 0.16 0.07
Matches are distributed among these distances:
41 26 0.18
42 4 0.03
43 9 0.06
44 104 0.73
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
AGCAGATTGAAGACACTAGTCTTATCTCCCTGAAGTTGCAGTGG
Found at i:48226363 original size:44 final size:41
Alignment explanation
Indices: 48226140--48226383 Score: 175
Period size: 44 Copynumber: 5.7 Consensus size: 41
48226130 AGCCACCAGC
48226140 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA--AT-GAT
* * * ** *
48226184 CTTATCTCTCTGAAGTAGCAGTAGAGCAGATTGCACAT-AGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATGA-T
* * * ** *
48226225 CTTATATCCTTGAAGTTGCATTGGAGCAGACAGAAGAAACTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AAA-TGAT
* * **
48226269 TTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGAAACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-AAA-TGAT
* *
48226313 CCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATGATGGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA--AT-GAT
* * *
48226357 CTTATCTCTCTGAAGTTACAGTAGAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGC
48226384 GGATCGCATC
Statistics
Matches: 156, Mismatches: 35, Indels: 18
0.75 0.17 0.09
Matches are distributed among these distances:
40 1 0.01
41 25 0.16
42 4 0.03
43 4 0.03
44 121 0.78
45 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (41 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAATGAT
Found at i:48228078 original size:26 final size:28
Alignment explanation
Indices: 48228029--48228082 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
48228019 TTAATTTCAA
*
48228029 ATTTTGTTGTATATATGTACATACATAC
1 ATTTTGTTGTATATATATACATACATAC
*
48228057 ATTTTG-T-TATATATATATATACATAC
1 ATTTTGTTGTATATATATACATACATAC
48228083 GTACATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 17 0.71
27 1 0.04
28 6 0.25
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.48
Consensus pattern (28 bp):
ATTTTGTTGTATATATATACATACATAC
Found at i:48228503 original size:46 final size:47
Alignment explanation
Indices: 48228430--48228519 Score: 119
Period size: 46 Copynumber: 1.9 Consensus size: 47
48228420 CACATCCCTG
* * *
48228430 TATATATACATACTTACATATATTTTTATATTGC-ATAATTTTAAAA
1 TATATATACATACATACATATACTTTTACATTGCTATAATTTTAAAA
* * *
48228476 TATATATACATACATATATATCCTTTTACATTTCTATAATTTTA
1 TATATATACATACATACATATACTTTTACATTGCTATAATTTTA
48228520 TTCATCTTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
46 28 0.76
47 9 0.24
ACGTcount: A:0.39, C:0.11, G:0.01, T:0.49
Consensus pattern (47 bp):
TATATATACATACATACATATACTTTTACATTGCTATAATTTTAAAA
Found at i:48231565 original size:4 final size:4
Alignment explanation
Indices: 48231556--48231587 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
48231546 AATACATATT
48231556 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
48231588 ATATAAGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:48238489 original size:40 final size:40
Alignment explanation
Indices: 48238434--48238512 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
48238424 CTTCATCCTT
48238434 GATGAACATAGATATTTTTTTCTTCTATGGAACTTTTGAG
1 GATGAACATAGATATTTTTTTCTTCTATGGAACTTTTGAG
48238474 GATGAACATAGATATTTTTTTCTTCTATGGAACTTTTGA
1 GATGAACATAGATATTTTTTTCTTCTATGGAACTTTTGA
48238513 AATAAAAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.46
Consensus pattern (40 bp):
GATGAACATAGATATTTTTTTCTTCTATGGAACTTTTGAG
Found at i:48242384 original size:23 final size:23
Alignment explanation
Indices: 48242341--48242385 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
48242331 TTGTAAAAGA
* *
48242341 TTTAAATATATATATAAATATAT
1 TTTAAATATATAAAGAAATATAT
48242364 TTTAAA-ATATAAAGAACATATA
1 TTTAAATATATAAAGAA-ATATA
48242386 CAAGTATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
TTTAAATATATAAAGAAATATAT
Found at i:48242477 original size:48 final size:48
Alignment explanation
Indices: 48242366--48242473 Score: 146
Period size: 49 Copynumber: 2.2 Consensus size: 48
48242356 AAATATATTT
* *
48242366 TAAAATATAAAGAACATATACAAGTATGTATATATATATTTTGAAATTA
1 TAAAATATAAAG-ACATATACAAGTATGCATATATATATTTTAAAATTA
* * *
48242415 TAAAATATGAAAGACATTTATATGTATGCATATATAT-TTTTAAAATTA
1 TAAAATAT-AAAGACATATACAAGTATGCATATATATATTTTAAAATTA
48242463 TAAAATATAAA
1 TAAAATATAAA
48242474 AGACGTATGT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
47 3 0.06
48 18 0.34
49 28 0.53
50 4 0.08
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (48 bp):
TAAAATATAAAGACATATACAAGTATGCATATATATATTTTAAAATTA
Found at i:48242496 original size:48 final size:47
Alignment explanation
Indices: 48242394--48242501 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 47
48242384 TACAAGTATG
* * * **
48242394 TATATATATATTTTGAAATTATAAAATATGAAAGACATTTATATGTA
1 TATATATATATTTTAAAATTATAAAATATAAAAGACATGTATATACA
48242441 TGCATATATAT-TTTTAAAATTATAAAATATAAAAGACGTATGTATATACA
1 T--ATATATATATTTTAAAATTATAAAATATAAAAGAC--ATGTATATACA
48242491 TATATATATAT
1 TATATATATAT
48242502 GAAAATAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
47 1 0.02
48 32 0.63
49 9 0.18
50 9 0.18
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (47 bp):
TATATATATATTTTAAAATTATAAAATATAAAAGACATGTATATACA
Found at i:48242738 original size:58 final size:59
Alignment explanation
Indices: 48242655--48242765 Score: 136
Period size: 58 Copynumber: 1.9 Consensus size: 59
48242645 AAAAGGATAT
* *
48242655 ATGTATGTATATATATATAGGAGTTAT-GAAATATAAAACACATATAT-TATAAGAATGC
1 ATGTATATATATATATATAGAAGTTATAG-AATATAAAACACATATATGTATAAGAATGC
* * * * *
48242713 ATGTATATATATATATTTTGAAGTTATAGAATATACAATACGTATATGTATAA
1 ATGTATATATATATATATAGAAGTTATAGAATATAAAACACATATATGTATAA
48242766 ATATAAAGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
58 38 0.86
59 6 0.14
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.38
Consensus pattern (59 bp):
ATGTATATATATATATATAGAAGTTATAGAATATAAAACACATATATGTATAAGAATGC
Found at i:48243756 original size:15 final size:14
Alignment explanation
Indices: 48243728--48243754 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48243718 TAGCCGAAAG
48243728 AAAAAAAGAAAAAT
1 AAAAAAAGAAAAAT
48243742 AAAAAAAGAAAAA
1 AAAAAAAGAAAAA
48243755 ATCCCCTTTC
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:0.89, C:0.00, G:0.07, T:0.04
Consensus pattern (14 bp):
AAAAAAAGAAAAAT
Found at i:48249964 original size:21 final size:21
Alignment explanation
Indices: 48249931--48249975 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
48249921 TTAGTCAAAA
*
48249931 TTTTTATAATTTCTTTTTACAT
1 TTTTTATAATTTCATTTTA-AT
*
48249953 TTTTTAT-GTTTCATTTTAAT
1 TTTTTATAATTTCATTTTAAT
48249973 TTT
1 TTT
48249976 AAAATGTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTTATAATTTCATTTTAAT
Found at i:48251533 original size:15 final size:15
Alignment explanation
Indices: 48251470--48251545 Score: 52
Period size: 15 Copynumber: 5.1 Consensus size: 15
48251460 CTCTATTTGT
*
48251470 TATTAGTTATTCATTA
1 TATTAATTATT-ATTA
*
48251486 T-TAAATTAATTATT-
1 TATTAATT-ATTATTA
* *
48251500 T-TTACATTCTTATTG
1 TATTA-ATTATTATTA
48251515 TATTAATTATTATTA
1 TATTAATTATTATTA
48251530 TATT-ATATATTATTA
1 TATTAAT-TATTATTA
48251545 T
1 T
48251546 TGTACCTACA
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
14 10 0.20
15 32 0.65
16 7 0.14
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (15 bp):
TATTAATTATTATTA
Found at i:48251631 original size:11 final size:11
Alignment explanation
Indices: 48251615--48251639 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
48251605 TTTAAATACA
48251615 TATACATATTT
1 TATACATATTT
48251626 TATACATATTT
1 TATACATATTT
48251637 TAT
1 TAT
48251640 TATTATTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (11 bp):
TATACATATTT
Found at i:48254691 original size:23 final size:22
Alignment explanation
Indices: 48254665--48254714 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
48254655 TGTCTTTACA
*
48254665 TTCATTTTTCGAGTAAATATTCT
1 TTCATTTTT-GAATAAATATTCT
*
48254688 TTCA-TTTTGAATAATTATTCT
1 TTCATTTTTGAATAAATATTCT
48254709 TTCATT
1 TTCATT
48254715 CTTTTAGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 15 0.62
22 5 0.21
23 4 0.17
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (22 bp):
TTCATTTTTGAATAAATATTCT
Found at i:48254800 original size:12 final size:12
Alignment explanation
Indices: 48254785--48254810 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48254775 CGTAAATTTA
48254785 TATATTCTTTGG
1 TATATTCTTTGG
48254797 TATATTCTTTGG
1 TATATTCTTTGG
48254809 TA
1 TA
48254811 CCTACCATGG
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:0.19, C:0.08, G:0.15, T:0.58
Consensus pattern (12 bp):
TATATTCTTTGG
Found at i:48255503 original size:18 final size:17
Alignment explanation
Indices: 48255480--48255513 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
48255470 TTCAGATATT
48255480 AAAAAAAAGCAAAAGAAG
1 AAAAAAAAG-AAAAGAAG
48255498 AAAAAAAAGAAAAGAA
1 AAAAAAAAGAAAAGAA
48255514 AAAGGAGAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAGAAG
Found at i:48255593 original size:7 final size:7
Alignment explanation
Indices: 48255581--48255619 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
48255571 AGTGATGTGA
48255581 AAAAATG
1 AAAAATG
48255588 AAAAATG
1 AAAAATG
48255595 -AAAATG
1 AAAAATG
**
48255601 AAAAACA
1 AAAAATG
48255608 AAAAATG
1 AAAAATG
48255615 AAAAA
1 AAAAA
48255620 GTGGAGAGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.77, C:0.03, G:0.10, T:0.10
Consensus pattern (7 bp):
AAAAATG
Found at i:48255598 original size:13 final size:14
Alignment explanation
Indices: 48255580--48255619 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
48255570 AAGTGATGTG
48255580 AAAAAATGAAAAA-
1 AAAAAATGAAAAAC
**
48255593 TGAAAATGAAAAAC
1 AAAAAATGAAAAAC
48255607 AAAAAATGAAAAA
1 AAAAAATGAAAAA
48255620 GTGGAGAGGC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.78, C:0.03, G:0.10, T:0.10
Consensus pattern (14 bp):
AAAAAATGAAAAAC
Found at i:48256011 original size:26 final size:26
Alignment explanation
Indices: 48255979--48256029 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
48255969 CTTTTTTAAG
48255979 ATACACATTCCCAATCAATTTCTTTT
1 ATACACATTCCCAATCAATTTCTTTT
48256005 ATACACATTCCCAATCAATTTCTTT
1 ATACACATTCCCAATCAATTTCTTT
48256030 GCTATCCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.41
Consensus pattern (26 bp):
ATACACATTCCCAATCAATTTCTTTT
Found at i:48257231 original size:88 final size:88
Alignment explanation
Indices: 48257127--48257966 Score: 1066
Period size: 88 Copynumber: 9.5 Consensus size: 88
48257117 TAAAACTTGT
* * *
48257127 CCTTGCCTCCTTGGGTTGCAGTGGAGCAGGTTAAAAATAGCAGATCTTGTCTTCCTGCACCGACA
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACA
**
48257192 ATGAAGCAGATCGAAGACACCAG
66 GCGAAGCAGATCGAAGACACCAG
* * * * *
48257215 CCTTGCCTCCCAGGGTTACAGCGGAGTAAGTTAAAAAATAGCAGATCTTGCCTTTCTGCACCGAC
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTT-AAAAATAGCAGATCTTGCCTTCCTGCACCGAC
*
48257280 AGCGAAGCAGATCGAAGACACTAG
65 AGCGAAGCAGATCGAAGACACCAG
* * * * *
48257304 CCTTGCCTCCCTGAGTTGTAGCGAAGCAAGTTAAAAATAGCAGATCTTGCCTTCCTGCACCAACA
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACA
*
48257369 GCGAAACAGATCGAAGACACCAG
66 GCGAAGCAGATCGAAGACACCAG
* ** * * *
48257392 CCTTGCCTCCCTGAGTTATAGCGTAGCGGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCAACA
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACA
*
48257457 GTGAAGCAGATCGAAGACACC-G
66 GCGAAGCAGATCGAAGACACCAG
* * * * *
48257479 CCCTTGCCTCTCTGGGTTGCAGCAGAGCAGGTTAAAAATAGCAGATCTTGCCTTCTTGCACCAAT
1 -CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGAC
48257544 AGCGAAGCAGATCGAAGACACCAAG
65 AGCGAAGCAGATCGAAGACACC-AG
* * * * *
48257569 -CTTGCCTCCCTGGGTTGCAACGGAACATGTTAAAAATAACAGATCTTGCCTTCCTACACCGACA
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACA
* * *
48257633 GGGAAGCAAATCGAAGACACTAG
66 GCGAAGCAGATCGAAGACACCAG
* *
48257656 CCTTACCTCTCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACA
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACA
48257721 GCGAAGCAGATCGAAGACACCAG
66 GCGAAGCAGATCGAAGACACCAG
* ** * * * *
48257744 CCTTGCCTCCCTGAGTTATAGCGTAGCGGGTTAAAAATAGCAGCTCTTGCCTTCCTGCACCGATA
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACA
48257809 GCGAAGCAGATCGAAGACACCAG
66 GCGAAGCAGATCGAAGACACCAG
* * ** *
48257832 CCTTGCCTCCCTGGGTTGTAGCGGAGCTGGTTAAAAATTA-CAGATCTTTTCTCCCTAAGCA--G
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAA-TAGCAGATCTTGCCTTCCT--GCACCG
*
48257894 TAGAG-G-AGCAGATCGAAGACACCAG
63 -ACAGCGAAGCAGATCGAAGACACCAG
**
48257919 CCTTGCCTCCCTAAGTTGCAGCGGAGCAGGTTAAAAATTA-CAGATCTT
1 CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAA-TAGCAGATCTT
48257967 ATCTCCCTAA
Statistics
Matches: 661, Mismatches: 82, Indels: 19
0.87 0.11 0.02
Matches are distributed among these distances:
87 66 0.10
88 509 0.77
89 82 0.12
90 4 0.01
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.22
Consensus pattern (88 bp):
CCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACA
GCGAAGCAGATCGAAGACACCAG
Found at i:48257729 original size:45 final size:44
Alignment explanation
Indices: 48257674--48257817 Score: 119
Period size: 45 Copynumber: 3.2 Consensus size: 44
48257664 CTCTGGGTTG
*
48257674 CAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGA
1 CAGCGAAGCAGGTTAAAAATAGCAG-TCTTGCCTTCCTGCACCGA
* ** * * * * * ***
48257719 CAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG-AGTTA
1 CAGCGAAGCAGGTTAAAAATAGCAGTCTTGCCTTCCTGCACCGA
* * *
48257762 TAGCGTAGCGGGTTAAAAATAGCAGCTCTTGCCTTCCTGCACCGA
1 CAGCGAAGCAGGTTAAAAATAGCAG-TCTTGCCTTCCTGCACCGA
*
48257807 TAGCGAAGCAG
1 CAGCGAAGCAG
48257818 ATCGAAGACA
Statistics
Matches: 69, Mismatches: 28, Indels: 4
0.68 0.28 0.04
Matches are distributed among these distances:
43 18 0.26
44 22 0.32
45 29 0.42
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.19
Consensus pattern (44 bp):
CAGCGAAGCAGGTTAAAAATAGCAGTCTTGCCTTCCTGCACCGA
Found at i:48257837 original size:44 final size:44
Alignment explanation
Indices: 48257701--48257844 Score: 146
Period size: 44 Copynumber: 3.3 Consensus size: 44
48257691 AATAGCAGAT
* *
48257701 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTCCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGC
*** * * * ** * * *
48257745 CTTGCCTCCCTG-AGTTATAGCGTAGCGGGTTAAAAATAGCAGC
1 CTTGCCTCCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGC
*
48257788 TCTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGC
1 -CTTGCCTCCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGC
48257833 CTTGCCTCCCTG
1 CTTGCCTCCCTG
48257845 GGTTGTAGCG
Statistics
Matches: 72, Mismatches: 26, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
43 19 0.26
44 33 0.46
45 20 0.28
ACGTcount: A:0.24, C:0.33, G:0.23, T:0.20
Consensus pattern (44 bp):
CTTGCCTCCCTGCACCGATAGCGAAGCAGATCGAAGACACCAGC
Found at i:48257959 original size:87 final size:87
Alignment explanation
Indices: 48257127--48258327 Score: 805
Period size: 88 Copynumber: 13.7 Consensus size: 87
48257117 TAAAACTTGT
* * * *
48257127 CCTTGCCTCCTTGGGTTGCAGTGGAGCAGGTTAAAAA-TAGCAGATCTTGTCTTCCT--GCACCG
1 CCTTGCCTCCCTGAGTTGCAGCGGAGCAGGTTAAAAATTA-CAGATCTTGTCTCCCTAAGCA--G
* *
48257189 -ACAATGAAGCAGATCGAAGACACCAG
63 TA-GA-GGAGCAGATCGAAGACACCAG
* * * * * * * **
48257215 CCTTGCCTCCCAGGGTTACAGCGGAGTAAGTTAAAAAATAGCAGATCTTGCCTTTCT--GCACCG
1 CCTTGCCTCCCTGAGTTGCAGCGGAGCAGGTTAAAAATTA-CAGATCTTGTCTCCCTAAGCA--G
* *
48257278 -ACAGCGAAGCAGATCGAAGACACTAG
63 TAGAG-G-AGCAGATCGAAGACACCAG
* * * * * * * **
48257304 CCTTGCCTCCCTGAGTTGTAGCGAAGCAAGTTAAAAA-TAGCAGATCTTGCCTTCCTGCACCAAC
1 CCTTGCCTCCCTGAGTTGCAGCGGAGCAGGTTAAAAATTA-CAGATCTTGTCTCCCT-AAGCAGT
* * *
48257368 AGCGAAACAGATCGAAGACACCAG
64 AGAGGAGCAGATCGAAGACACCAG
** * * * * * * **
48257392 CCTTGCCTCCCTGAGTTATAGCGTAGCGGGTTAAAAA-TAGCAGATCTTGCCTTCCTGCACCAAC
1 CCTTGCCTCCCTGAGTTGCAGCGGAGCAGGTTAAAAATTA-CAGATCTTGTCTCCCT-AAGCAGT
* *
48257456 AGTGAAGCAGATCGAAGACACC-G
64 AGAGGAGCAGATCGAAGACACCAG
* * * * * * * * *
48257479 CCCTTGCCTCTCTGGGTTGCAGCAGAGCAGGTTAAAAA-TAGCAGATCTTGCCTTCTTGCACCAA
1 -CCTTGCCTCCCTGAGTTGCAGCGGAGCAGGTTAAAAATTA-CAGATCTTGTCTCCCT-AAGCAG
* *
48257543 TAGCGAAGCAGATCGAAGACACCAAG
63 TAGAGGAGCAGATCGAAGACACC-AG
* * * * * * * *
48257569 -CTTGCCTCCCTGGGTTGCAACGGAACATGTTAAAAATAACAGATCTTGCCTTCCTACA-CCG-A
1 CCTTGCCTCCCTGAGTTGCAGCGGAGCAGGTTAAAAATTACAGATCTTGTCTCCCTA-AGCAGTA
* * *
48257631 CAGGGAAGCAAATCGAAGACACTAG
65 GA-GG-AGCAGATCGAAGACACCAG
* * * * *
48257656 CCTTACCTCTCTGGGTTGCAGCGGAGCAGGTTAAAAA-TAGCAGATCTTGCCTTCCT--GCACCG
1 CCTTGCCTCCCTGAGTTGCAGCGGAGCAGGTTAAAAATTA-CAGATCTTGTCTCCCTAAGCA--G
*
48257718 -ACAGCGAAGCAGATCGAAGACACCAG
63 TAGAG-G-AGCAGATCGAAGACACCAG
** * * * * *
48257744 CCTTGCCTCCCTGAGTTATAGCGTAGCGGGTTAAAAA-TAGCAGCTCTTGCCTTCCT--GCACCG
1 CCTTGCCTCCCTGAGTTGCAGCGGAGCAGGTTAAAAATTA-CAGATCTTGTCTCCCTAAGCA--G
* *
48257806 ATAGCGAAGCAGATCGAAGACACCAG
63 -TAGAGGAGCAGATCGAAGACACCAG
* * * *
48257832 CCTTGCCTCCCTGGGTTGTAGCGGAGCTGGTTAAAAATTACAGATCTTTTCTCCCTAAGCAGTAG
1 CCTTGCCTCCCTGAGTTGCAGCGGAGCAGGTTAAAAATTACAGATCTTGTCTCCCTAAGCAGTAG
48257897 AGGAGCAGATCGAAGACACCAG
66 AGGAGCAGATCGAAGACACCAG
* * *
48257919 CCTTGCCTCCCTAAGTTGCAGCGGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAG
1 CCTTGCCTCCCTGAGTTGCAGCGGAGCAGGTTAAAAATTACAGATCTTGTCTCCCTAAGCAGTAG
* *
48257984 AGGAGCATATCAAAGAC-CGCAG
66 AGGAGCAGATCGAAGACAC-CAG
* ** * * * *
48258006 CCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
1 CCTTGCCTCCCTGAGTTGCAGCGGAGCAGGTTAAAAATTACAGATCTTGTCTCCCTAAGCAGTAG
* * *
48258071 TGGAGCAGATCGAAGTCGCCAG
66 AGGAGCAGATCGAAGACACCAG
* ** * * * * *
48258093 CCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGTAG
1 CCTTGCCTCCCTGAGTTGCAGCGGAGCAGGTTAAAAATTACAGATCTTGTCTCCCTAAGCAGTAG
* *
48258158 TA-GAGCAGATCGAAGTCCCCAG
66 -AGGAGCAGATCGAAGACACCAG
* ** * * * *
48258180 CCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
1 CCTTGCCTCCCTGAGTTGCAGCGGAGCAGGTTAAAAATTACAGATCTTGTCTCCCTAAGCAGTAG
*
48258245 TA-GAGCAGATCGAAGTC-CCAG
66 -AGGAGCAGATCGAAGACACCAG
* ** * * * * * * *
48258266 CCTTGTCTCCCTGAGCAGCGGTGGAGTAAGTTGAAAATTACAGATCTTATCTCCCTGAGCAG
1 CCTTGCCTCCCTGAGTTGCAGCGGAGCAGGTTAAAAATTACAGATCTTGTCTCCCTAAGCAG
48258328 CAGTGGAGTA
Statistics
Matches: 972, Mismatches: 113, Indels: 58
0.85 0.10 0.05
Matches are distributed among these distances:
86 66 0.07
87 345 0.35
88 475 0.49
89 76 0.08
90 8 0.01
91 2 0.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (87 bp):
CCTTGCCTCCCTGAGTTGCAGCGGAGCAGGTTAAAAATTACAGATCTTGTCTCCCTAAGCAGTAG
AGGAGCAGATCGAAGACACCAG
Found at i:48257976 original size:44 final size:44
Alignment explanation
Indices: 48257854--48258545 Score: 266
Period size: 44 Copynumber: 15.9 Consensus size: 44
48257844 GGGTTGTAGC
* * *
48257854 GGAGCTGGTTAAAAATTACAGATCTTTTCTCCCTAAGCAGTAGA
1 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGA
* ** * * * ** ** *
48257898 GGAGCAGATCGAAGA-CACCAG-CCTTGCCTCCCTAAGTTGCAGC
1 GGAGCAGGTTAAAAATTA-CAGATCTTATCTCCCTAAGCAGCAGA
48257941 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGA
1 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGA
** * * *** * * * *
48257985 GGAGCATATCAAAGACCGCAG-CCTTGTCTCCCTGAGCAGCAGT
1 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGA
* * * *
48258028 GGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGT
1 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGA
* ** * ** * * * *
48258072 GGAGCA-GATCGAAGTCGCCAG-CCTTGTCTCCCTGAGCAGCAGT
1 GGAGCAGGTTAAAAAT-TACAGATCTTATCTCCCTAAGCAGCAGA
* * * *
48258115 GGAGTAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTA
1 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAG-A
* ** * ** * * * *
48258160 -GAGCA-GATCGAAGTCCCCAG-CCTTGTCTCCCTGAGCAGCAGT
1 GGAGCAGGTTAAAAAT-TACAGATCTTATCTCCCTAAGCAGCAGA
* * *
48258202 GGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTA
1 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAG-A
* ** * ** * * * * *
48258247 -GAGCA-GATCGAAGTCCCAG-CCTTGTCTCCCTGAGCAGCGGT
1 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGA
* * * * *
48258288 GGAGTAAGTTGAAAATTACAGATCTTATCTCCCTGAGCAGCAGT
1 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGA
* * * *
48258332 GGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGT
1 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGA
* * ** * * * * *
48258376 GGAGTA-GATCGAAGTCCT-CAG-CCTTGTCTCCC-AGAGCAGTAGT
1 GGAGCAGGTTAAAAAT--TACAGATCTTATCTCCCTA-AGCAGCAGA
* * * *
48258419 GGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGT
1 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGA
* * * * ** * * * * *
48258463 GGAGTA-GATAGAAGTCCCCAG-CCTTGTCTCCATGAGCAGCAGT
1 GGAGCAGGTTAAAAAT-TACAGATCTTATCTCCCTAAGCAGCAGA
* *
48258506 GGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAG
1 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAG
48258546 TAGTGAAGCA
Statistics
Matches: 466, Mismatches: 156, Indels: 52
0.69 0.23 0.08
Matches are distributed among these distances:
42 22 0.05
43 198 0.42
44 244 0.52
45 2 0.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (44 bp):
GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGA
Found at i:48258065 original size:174 final size:173
Alignment explanation
Indices: 48257725--48258335 Score: 689
Period size: 174 Copynumber: 3.5 Consensus size: 173
48257715 CCGACAGCGA
* * * * *
48257725 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTA-TAGCGTAGCGGGTTAAAAA-TAGCAGC
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAG-CAGCAGCGGAGCAGGTTAAAAATTA-CAGA
** * * * * * ** *
48257788 TCTTGCCTTCCT--GCACCGATAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGT
64 TCTTATCTCCCTAAGCAGC-AGAG-G-AGCAGATCGAAGAC-CCAGCCTTGTCTCCCTGAGCAGC
* * *
48257851 AGCGGAGCT-GGTTAAAAATTACAGATCTTTTCTCCCTAAGCAGTAGAGG
125 AGTGGAG-TAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGAGG
* **
48257900 AGCAGATCGAAGACACCAGCCTTGCCTCCCTAAGTTGCAGCGGAGCAGGTTAAAAATTACAGATC
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGCAGCAGCGGAGCAGGTTAAAAATTACAGATC
* *
48257965 TTATCTCCCTAAGCAGCAGAGGAGCATATCAAAGACCGCAGCCTTGTCTCCCTGAGCAGCAGTGG
66 TTATCTCCCTAAGCAGCAGAGGAGCAGATCGAAGACC-CAGCCTTGTCTCCCTGAGCAGCAGTGG
*
48258030 AGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
130 AGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGAGG
* * * * * * *
48258074 AGCAGATCGAAGTCGCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAAATC
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGCAGCAGCGGAGCAGGTTAAAAATTACAGATC
* *
48258139 TTATCTCCCTAAGCAGTAGTA-GAGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGCAGCAGTG
66 TTATCTCCCTAAGCAGCAG-AGGAGCAGATCGAAG-ACCCAGCCTTGTCTCCCTGAGCAGCAGTG
48258203 GAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTA-G
129 GAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG-AGG
* * * * * * *
48258248 AGCAGATCGAAGTC-CCAGCCTTGTCTCCCTGAGCAGCGGTGGAGTAAGTTGAAAATTACAGATC
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGCAGCAGCGGAGCAGGTTAAAAATTACAGATC
* *
48258312 TTATCTCCCTGAGCAGCAGTGGAG
66 TTATCTCCCTAAGCAGCAGAGGAG
48258336 TAGGTTGAAA
Statistics
Matches: 383, Mismatches: 43, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
173 69 0.18
174 240 0.63
175 65 0.17
176 5 0.01
177 4 0.01
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (173 bp):
AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGCAGCAGCGGAGCAGGTTAAAAATTACAGATC
TTATCTCCCTAAGCAGCAGAGGAGCAGATCGAAGACCCAGCCTTGTCTCCCTGAGCAGCAGTGGA
GTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGAGG
Found at i:48258182 original size:261 final size:260
Alignment explanation
Indices: 48257813--48258335 Score: 737
Period size: 261 Copynumber: 2.0 Consensus size: 260
48257803 CCGATAGCGA
* ** * *
48257813 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTAGCGGAGCTGGTTAAAAATTACAGATC
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGCAGCAGCGGAGCTGGTTAAAAATTACAAATC
* **
48257878 TTTTCTCCCTAAGCAGTAGAGGAGCAGATCGAAGACACCAGCCTTGCCTCCCTAAGTTGCAGCGG
66 TTATCTCCCTAAGCAGTAGAGGAGCAGATCGAAGACACCAGCCTTGCCTCCCTAAGCAGCAGCGG
*
48257943 AGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAG-AGGAGCATATCAAAGACCGCAGC
131 AGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGTA-GAGCAGATCAAAGACC-CAGC
* *
48258007 CTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGT
194 CTTGTCTCCCTGAGCAGCAGTGGAGTAAGTTGAAAATTACAGATCTTATCTCCCTAAGCAGCAGT
48258072 GG
259 GG
* * * * *
48258074 AGCAGATCGAAGTCGCCAGCCTTGTCTCCCTGAGCAGCAGTGGAG-TAGGTTGAAAATTACAAAT
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGCAGCAGCGGAGCT-GGTTAAAAATTACAAAT
* * * * *
48258138 CTTATCTCCCTAAGCAGTAGTA-GAGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGCAGCAGT
65 CTTATCTCCCTAAGCAGTAG-AGGAGCAGATCGAAGACACCAGCCTTGCCTCCCTAAGCAGCAGC
* * * * *
48258202 GGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGTCCCAGC
129 GGAGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGTAGAGCAGATCAAAGACCCAGC
* *
48258267 CTTGTCTCCCTGAGCAGCGGTGGAGTAAGTTGAAAATTACAGATCTTATCTCCCTGAGCAGCAGT
194 CTTGTCTCCCTGAGCAGCAGTGGAGTAAGTTGAAAATTACAGATCTTATCTCCCTAAGCAGCAGT
48258332 GG
259 GG
48258334 AG
1 AG
48258336 TAGGTTGAAA
Statistics
Matches: 231, Mismatches: 28, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
260 70 0.30
261 159 0.69
262 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (260 bp):
AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGCAGCAGCGGAGCTGGTTAAAAATTACAAATC
TTATCTCCCTAAGCAGTAGAGGAGCAGATCGAAGACACCAGCCTTGCCTCCCTAAGCAGCAGCGG
AGCAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGCAGTAGAGCAGATCAAAGACCCAGCCT
TGTCTCCCTGAGCAGCAGTGGAGTAAGTTGAAAATTACAGATCTTATCTCCCTAAGCAGCAGTGG
Found at i:48258340 original size:217 final size:218
Alignment explanation
Indices: 48258098--48258550 Score: 773
Period size: 217 Copynumber: 2.1 Consensus size: 218
48258088 GCCAGCCTTG
48258098 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTAGAG
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTAGAG
*
48258163 CAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTT
66 CAGATCGAAGTCCCCAGCCTTGTCTCCCAGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTT
* * *
48258228 ATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGT-CCCAGCCTTGTCTCCCTGAGCAGCGGTGGAG
131 ATCTCCCTAAGCAGTAGTAGAGCAGATAGAAGTCCCCAGCCTTGTCTCCATGAGCAGCAGTGGAG
48258292 TAAGTTGAAAATTACAGATCTTA
196 TAAGTTGAAAATTACAGATCTTA
* *
48258315 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTAGAG
* * *
48258380 TAGATCGAAGTCCTCAGCCTTGTCTCCCAGAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTT
66 CAGATCGAAGTCCCCAGCCTTGTCTCCCAGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTT
* *
48258445 ATCTCCCTAAGCAGTAGTGGAGTAGATAGAAGTCCCCAGCCTTGTCTCCATGAGCAGCAGTGGAG
131 ATCTCCCTAAGCAGTAGTAGAGCAGATAGAAGTCCCCAGCCTTGTCTCCATGAGCAGCAGTGGAG
*
48258510 TAGGTTGAAAATTACAGATCTTA
196 TAAGTTGAAAATTACAGATCTTA
* *
48258533 TCTCCCTAAGCAGTAGTG
1 TCTCCCTGAGCAGCAGTG
48258551 AAGCAGATCG
Statistics
Matches: 221, Mismatches: 14, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
217 154 0.70
218 67 0.30
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.26
Consensus pattern (218 bp):
TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTAGAG
CAGATCGAAGTCCCCAGCCTTGTCTCCCAGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTT
ATCTCCCTAAGCAGTAGTAGAGCAGATAGAAGTCCCCAGCCTTGTCTCCATGAGCAGCAGTGGAG
TAAGTTGAAAATTACAGATCTTA
Found at i:48258423 original size:87 final size:87
Alignment explanation
Indices: 48258315--48258563 Score: 428
Period size: 87 Copynumber: 2.9 Consensus size: 87
48258305 ACAGATCTTA
*
48258315 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTCCCAGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
*
48258380 TAGATCGAAGTCCTCAGCCTTG
66 TAGATCGAAGTCCCCAGCCTTG
*
48258402 TCTCCCAGAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTCCCAGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
*
48258467 TAGATAGAAGTCCCCAGCCTTG
66 TAGATCGAAGTCCCCAGCCTTG
*
48258489 TCT-CCATGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGAA
1 TCTCCCA-GAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
*
48258553 GCAGATCGAAG
65 GTAGATCGAAG
48258564 ATGGCACATC
Statistics
Matches: 153, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
86 3 0.02
87 150 0.98
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (87 bp):
TCTCCCAGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
TAGATCGAAGTCCCCAGCCTTG
Found at i:48258430 original size:304 final size:304
Alignment explanation
Indices: 48258011--48258563 Score: 1002
Period size: 304 Copynumber: 1.8 Consensus size: 304
48258001 CGCAGCCTTG
48258011 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
*
48258076 CAGATCGAAGTCGCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAAATCTT
66 CAGATCGAAGTCGCCAGCCTTGTCTCCCAGAGCAGCAGTGGAGTAGGTTGAAAATTACAAATCTT
* *
48258141 ATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGTCCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAG
131 ATCTCCCTAAGCAGTAGTAGAGCAGATAGAAGTCCCCAGCCTTGTCTCCATGAGCAGCAGTGGAG
48258206 TAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGT-AGAGCAGATCGAAGTCCCAGCCTT
196 TAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGA-AGCAGATCGAAGTCCCAGCCTT
48258270 GTCTCCCTGAGCAGCGGTGGAGTAAGTTGAAAATTACAGATCTTA
260 GTCTCCCTGAGCAGCGGTGGAGTAAGTTGAAAATTACAGATCTTA
48258315 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
* * *
48258380 TAGATCGAAGTC-CTCAGCCTTGTCTCCCAGAGCAGTAGTGGAGTAGGTTGAAAATTACAGATCT
66 CAGATCGAAGTCGC-CAGCCTTGTCTCCCAGAGCAGCAGTGGAGTAGGTTGAAAATTACAAATCT
* *
48258444 TATCTCCCTAAGCAGTAGTGGAGTAGATAGAAGTCCCCAGCCTTGTCTCCATGAGCAGCAGTGGA
130 TATCTCCCTAAGCAGTAGTAGAGCAGATAGAAGTCCCCAGCCTTGTCTCCATGAGCAGCAGTGGA
48258509 GTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAG
195 GTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAG
48258564 ATGGCACATC
Statistics
Matches: 239, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
303 1 0.00
304 237 0.99
305 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (304 bp):
TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
CAGATCGAAGTCGCCAGCCTTGTCTCCCAGAGCAGCAGTGGAGTAGGTTGAAAATTACAAATCTT
ATCTCCCTAAGCAGTAGTAGAGCAGATAGAAGTCCCCAGCCTTGTCTCCATGAGCAGCAGTGGAG
TAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGTCCCAGCCTTG
TCTCCCTGAGCAGCGGTGGAGTAAGTTGAAAATTACAGATCTTA
Found at i:48260008 original size:15 final size:15
Alignment explanation
Indices: 48259955--48260020 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 15
48259945 TATTAGTTAT
*
48259955 TTATTATTAAATTAA
1 TTATTATTATATTAA
*
48259970 TTATT-TT-TA--CA
1 TTATTATTATATTAA
* *
48259981 TTCTTATTGTATTAA
1 TTATTATTATATTAA
48259996 TTATTATTATATT-A
1 TTATTATTATATTAA
48260010 TATATTATTAT
1 T-TATTATTAT
48260021 TGTACCTACA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
11 5 0.12
12 2 0.05
13 3 0.08
14 4 0.10
15 26 0.65
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.61
Consensus pattern (15 bp):
TTATTATTATATTAA
Found at i:48260507 original size:8 final size:8
Alignment explanation
Indices: 48260471--48260508 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
48260461 TTTTTAACGC
48260471 ATAT-TTT
1 ATATATTT
48260478 ATA-ATTT
1 ATATATTT
*
48260485 ATATATAT
1 ATATATTT
48260493 ATATATTT
1 ATATATTT
48260501 ATATATTT
1 ATATATTT
48260509 TTCTTTATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
7 9 0.33
8 18 0.67
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
ATATATTT
Found at i:48260752 original size:13 final size:12
Alignment explanation
Indices: 48260719--48260765 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
48260709 TCATAGATTG
48260719 TTATTT-TTTGT
1 TTATTTATTTGT
* *
48260730 ATATTAATTTCGT
1 TTATTTATTT-GT
48260743 TTATTTATTTGT
1 TTATTTATTTGT
48260755 TTATATTATTT
1 TTAT-TTATTT
48260766 CTATGCCATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 4 0.14
12 9 0.31
13 16 0.55
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.70
Consensus pattern (12 bp):
TTATTTATTTGT
Found at i:48262975 original size:13 final size:12
Alignment explanation
Indices: 48262929--48262975 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
48262919 CGTTATAGAT
48262929 TAAATTAATTTA
1 TAAATTAATTTA
* *
48262941 TAAAATATTTTA
1 TAAATTAATTTA
48262953 -AAATTTAATTGTA
1 TAAA-TTAATT-TA
48262966 TAAATTAATT
1 TAAATTAATT
48262976 CAATCTATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
11 3 0.11
12 14 0.50
13 8 0.29
14 3 0.11
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (12 bp):
TAAATTAATTTA
Found at i:48265572 original size:3 final size:3
Alignment explanation
Indices: 48265566--48265612 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
48265556 TGATAAAAAA
* *
48265566 AAT AAT ACT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
48265613 ACTGAATAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:48266788 original size:24 final size:24
Alignment explanation
Indices: 48266751--48266796 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
48266741 GACTGTGGGC
*
48266751 ATTTTAAAATTTGGTTTTATTTTT
1 ATTTTAAAATTTGGGTTTATTTTT
48266775 ATTTATAAAA-TTGGGTTTATTT
1 ATTT-TAAAATTTGGGTTTATTT
48266797 GCTAAGGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (24 bp):
ATTTTAAAATTTGGGTTTATTTTT
Found at i:48268101 original size:20 final size:20
Alignment explanation
Indices: 48268048--48268094 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
48268038 AATATTTTCC
* *
48268048 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTCCAGAAA
48268068 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTCCAGAAA
48268088 AGTAAAA
1 AGTAAAA
48268095 TGATTTCTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.26
Consensus pattern (20 bp):
AGTAAAACATTTTCCAGAAA
Found at i:48271066 original size:13 final size:12
Alignment explanation
Indices: 48271020--48271069 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
48271010 CGTTATAGAT
48271020 TAAATTAATTTA
1 TAAATTAATTTA
* *
48271032 TAAAATATTTTA
1 TAAATTAATTTA
* *
48271044 CAATTTAATTGTA
1 TAAATTAATT-TA
48271057 TAAATTAATTTA
1 TAAATTAATTTA
48271069 T
1 T
48271070 TTTATAGGGT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
12 19 0.66
13 10 0.34
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (12 bp):
TAAATTAATTTA
Found at i:48271656 original size:25 final size:26
Alignment explanation
Indices: 48271612--48271661 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
48271602 TATTAAATAT
48271612 ATATATTTATTTTTAATCAAATATAA
1 ATATATTTATTTTTAATCAAATATAA
48271638 ATATATTTA-TTTTAATCAAATATA
1 ATATATTTATTTTTAATCAAATATA
48271662 TATTTAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (26 bp):
ATATATTTATTTTTAATCAAATATAA
Found at i:48277961 original size:30 final size:30
Alignment explanation
Indices: 48277927--48277983 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
48277917 TACAACTACA
48277927 GTTTTCTCTAAAATGAGTTTATTTAAAACG
1 GTTTTCTCTAAAATGAGTTTATTTAAAACG
48277957 GTTTTCTCTAAAATGAGTTTATTTAAA
1 GTTTTCTCTAAAATGAGTTTATTTAAA
48277984 GTCTTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (30 bp):
GTTTTCTCTAAAATGAGTTTATTTAAAACG
Found at i:48277968 original size:15 final size:16
Alignment explanation
Indices: 48277926--48277976 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 16
48277916 GTACAACTAC
*
48277926 AGTTTTCTCTAAAATG
1 AGTTTTCTCTAAAACG
48277942 AGTTTAT-T-TAAAACG
1 AGTTT-TCTCTAAAACG
*
48277957 -GTTTTCTCTAAAATG
1 AGTTTTCTCTAAAACG
48277972 AGTTT
1 AGTTT
48277977 ATTTAAAGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 1 0.03
14 5 0.17
15 12 0.41
16 10 0.34
17 1 0.03
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (16 bp):
AGTTTTCTCTAAAACG
Found at i:48277983 original size:15 final size:15
Alignment explanation
Indices: 48277935--48277983 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
48277925 CAGTTTTCTC
48277935 TAAAATGAGTTTATT
1 TAAAATGAGTTTATT
*
48277950 TAAAACG-GTTT-TCT
1 TAAAATGAGTTTAT-T
48277964 CTAAAATGAGTTTATT
1 -TAAAATGAGTTTATT
48277980 TAAA
1 TAAA
48277984 GTCTTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 1 0.04
14 5 0.18
15 16 0.57
16 5 0.18
17 1 0.04
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (15 bp):
TAAAATGAGTTTATT
Found at i:48278438 original size:14 final size:14
Alignment explanation
Indices: 48278419--48278446 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48278409 TACAACTTGA
48278419 ATTGTCTGCCATAT
1 ATTGTCTGCCATAT
48278433 ATTGTCTGCCATAT
1 ATTGTCTGCCATAT
48278447 GTACTCGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (14 bp):
ATTGTCTGCCATAT
Found at i:48280949 original size:22 final size:22
Alignment explanation
Indices: 48280919--48280961 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
48280909 ACAGCAGAAC
* *
48280919 AGGTTTTTAACGGCGTTTTTTT
1 AGGTCTTTAACGGCGCTTTTTT
*
48280941 AGGTCTTTAGCGGCGCTTTTT
1 AGGTCTTTAACGGCGCTTTTT
48280962 AACGCCACTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.14, G:0.26, T:0.49
Consensus pattern (22 bp):
AGGTCTTTAACGGCGCTTTTTT
Found at i:48281136 original size:43 final size:43
Alignment explanation
Indices: 48281033--48281152 Score: 161
Period size: 42 Copynumber: 2.8 Consensus size: 43
48281023 ACGTCGCTAA
* * * *
48281033 CTTTTGCGGCGCTTACATAAAAAAATGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT-TAGAAAAAAACGCCGCTAAAGATCATGTT
48281077 CTTTAGCGGCGC-TTAGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTTAGAAAAAAACGCCGCTAAAGATCATGTT
** *
48281119 CTTTAGCGGCGCTTTAGAGGAAAACGCCTCTAAA
1 CTTTAGCGGCGCTTTAGAAAAAAACGCCGCTAAA
48281153 AGTAATGTTT
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 38 0.56
43 19 0.28
44 11 0.16
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTAGAAAAAAACGCCGCTAAAGATCATGTT
Found at i:48281161 original size:43 final size:41
Alignment explanation
Indices: 48281072--48281217 Score: 136
Period size: 42 Copynumber: 3.5 Consensus size: 41
48281062 GCTAAAGATC
* *
48281072 ATGTTCTTTAGCGGCGC-TTAGAAAAAAACGCCGCT-AAAGATC
1 ATGTTCTTTAGCGGCGCTTTAG--AAAAACGCCACTAAAAG-TA
*
48281114 ATGTTCTTTAGCGGCGCTTTAGAGGAAAACGCCTCTAAAAGTA
1 ATGTTCTTTAGCGGCGCTTTAGA--AAAACGCCACTAAAAGTA
* **
48281157 ATGTT-TTATAGCGGCACTTGTTCAAAAACGCCACTAAAAGTA
1 ATGTTCTT-TAGCGGCGCTT-TAGAAAAACGCCACTAAAAGTA
* *
48281199 GTGTTCTTTAGCAGCGCTT
1 ATGTTCTTTAGCGGCGCTT
48281218 ATTTCACAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
41 1 0.01
42 49 0.56
43 32 0.36
44 6 0.07
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (41 bp):
ATGTTCTTTAGCGGCGCTTTAGAAAAACGCCACTAAAAGTA
Found at i:48281195 original size:42 final size:43
Alignment explanation
Indices: 48281139--48281234 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 43
48281129 GCTTTAGAGG
* *
48281139 AAAACGCCTCTAAAAGTAATGTT-TTATAGCGGCACTT-GTTCA
1 AAAACGCCACTAAAAGTAATGTTCTT-TAGCAGCACTTAGTTCA
* * *
48281181 AAAACGCCACTAAAAGTAGTGTTCTTTAGCAGCGCTTATTTCA
1 AAAACGCCACTAAAAGTAATGTTCTTTAGCAGCACTTAGTTCA
*
48281224 CAAACGCCACT
1 AAAACGCCACT
48281235 GTTTTGATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 30 0.65
43 16 0.35
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (43 bp):
AAAACGCCACTAAAAGTAATGTTCTTTAGCAGCACTTAGTTCA
Done.