Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 122 of 318
Found at i:38313958 original size:55 final size:55
Alignment explanation
Indices: 38313893--38314002 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
38313883 TTGTTTTTCG
*
38313893 TTGCACTAGCATAGCAGTTGCACTTTTGATGTATATTAATGATGATTCTTTTCAT
1 TTGCACTAGCATAGCAGTTGCACTTTTGATGTATACTAATGATGATTCTTTTCAT
*
38313948 TTGCACTAGCATAGCGGTTGCACTTTTGATGTATACTAATGATGATTCTTTTCAT
1 TTGCACTAGCATAGCAGTTGCACTTTTGATGTATACTAATGATGATTCTTTTCAT
38314003 ACTTACGCAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (55 bp):
TTGCACTAGCATAGCAGTTGCACTTTTGATGTATACTAATGATGATTCTTTTCAT
Found at i:38314116 original size:125 final size:125
Alignment explanation
Indices: 38313943--38314338 Score: 456
Period size: 125 Copynumber: 3.2 Consensus size: 125
38313933 GATGATTCTT
*
38313943 TTCATTTGCACTAGCATAGCGGTTGCACTTTTGATGTATACTAATGATGATTCTTTTCATACTTA
1 TTCA-TTGCACTAGCATAGCGGTTGCACTTTTGATGTATACTAATGATGATTCTTTTCATTCTTA
* * * * * * *
38314008 CGCAATTTGTTGCATATGTTGTTATTCATTTCCATTTCTCGATTTTAATGTTGACATATTC
65 CGCAATTTGTTGCATATATTGTTATTCGTTTGCATATCTCGAGTTTAATGTTGATATGTTC
* * * * * *
38314069 TTCATTGCAATAGAATAGTGGTTGCACTTTTGATGTATACTAGTGATGATTCTTTCCGGTTCTTA
1 TTCATTGCACTAGCATAGCGGTTGCACTTTTGATGTATACTAATGATGATTCTTTTC-ATTCTTA
* * * * * * *
38314134 CACAATTTGTTGCATTTATGGTTATTCGTTTGTATATCTTGAGTTTAATGTCGATACGTTC
65 CGCAATTTGTTGCATATATTGTTATTCGTTTGCATATCTCGAGTTTAATGTTGATATGTTC
* * * * ** *
38314195 TTCATTGTATTAGCTTAGCGATTGCAC-TTCAATATATACTAATGATGATTCTTTAT-AGTTCTT
1 TTCATTGCACTAGCATAGCGGTTGCACTTTTGATGTATACTAATGATGATTCTTT-TCA-TTCTT
*
38314258 ACGCAATTT-TCTGCATATATTGTTATTTGTTTGCATATCTCGAGTTTAATGTTGATATGTTC
64 ACGCAATTTGT-TGCATATATTGTTATTCGTTTGCATATCTCGAGTTTAATGTTGATATGTTC
*
38314320 TTCAATGCACTAGCATAGC
1 TTCATTGCACTAGCATAGC
38314339 ATAGTAAGCT
Statistics
Matches: 221, Mismatches: 45, Indels: 9
0.80 0.16 0.03
Matches are distributed among these distances:
124 1 0.00
125 143 0.65
126 77 0.35
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (125 bp):
TTCATTGCACTAGCATAGCGGTTGCACTTTTGATGTATACTAATGATGATTCTTTTCATTCTTAC
GCAATTTGTTGCATATATTGTTATTCGTTTGCATATCTCGAGTTTAATGTTGATATGTTC
Found at i:38316428 original size:69 final size:69
Alignment explanation
Indices: 38316332--38316527 Score: 293
Period size: 69 Copynumber: 2.8 Consensus size: 69
38316322 TCTCGAATGC
* * * *
38316332 ACAAATGAGAAAGAGAGGGAGGGAGCATGTTTGGCGGCATGGATTGGAGCTTGGGACAATTACAA
1 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGAGGCATGGATTGGAGCTTGGGACAATTACAA
38316397 ATAG
66 ATAG
* * *
38316401 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGGGGCATGGATTGGAGCTTGGGACAATTCCAG
1 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGAGGCATGGATTGGAGCTTGGGACAATTACAA
38316466 ATAG
66 ATAG
* * * *
38316470 ACAAATAAGAAAGAGAGTGTGGAAGCATGCTTGGAGGCACGGATTGGAGGTTGGGACA
1 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGAGGCATGGATTGGAGCTTGGGACA
38316528 GTCAAGGATA
Statistics
Matches: 116, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 116 1.00
ACGTcount: A:0.35, C:0.10, G:0.36, T:0.19
Consensus pattern (69 bp):
ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGAGGCATGGATTGGAGCTTGGGACAATTACAA
ATAG
Found at i:38316552 original size:69 final size:69
Alignment explanation
Indices: 38316332--38316561 Score: 286
Period size: 69 Copynumber: 3.3 Consensus size: 69
38316322 TCTCGAATGC
* * * *
38316332 ACAAATGAGAAAGAGAGGGAGGGAGCATGTTTGGCGGCATGGATTGGAGCTTGGGACAATTACAA
1 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGAGGCATGGATTGGAGCTTGGGACAATT-CAA
38316397 -ATAG
65 GATAG
* *
38316401 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGGGGCATGGATTGGAGCTTGGGACAATTCCAG
1 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGAGGCATGGATTGGAGCTTGGGACAATTCAAG
38316466 ATAG
66 ATAG
* * * * *
38316470 ACAAATAAGAAAGAGAGTGTGGAAGCATGCTTGGAGGCACGGATTGGAGGTTGGGAC-AGTCAAG
1 ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGAGGCATGGATTGGAGCTTGGGACAATTCAA-
*
38316534 GATAT
65 GATAG
*
38316539 ACAACT-AGCAAAGAGAGGTGAGG
1 ACAAATAAG-AAAGAGA-GTGAGG
38316562 TGTCGAAACC
Statistics
Matches: 142, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
68 8 0.06
69 129 0.91
70 5 0.04
ACGTcount: A:0.36, C:0.10, G:0.36, T:0.18
Consensus pattern (69 bp):
ACAAATAAGAAAGAGAGTGAGGAAGCATGTTTGGAGGCATGGATTGGAGCTTGGGACAATTCAAG
ATAG
Found at i:38316999 original size:26 final size:26
Alignment explanation
Indices: 38316970--38317021 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
38316960 TTGAAAAGAT
*
38316970 AATCTAATTTTGGCATGACTGTATAC
1 AATCAAATTTTGGCATGACTGTATAC
38316996 AATCAAATTTTGGCATGACTGTATAC
1 AATCAAATTTTGGCATGACTGTATAC
38317022 TTAAAGATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (26 bp):
AATCAAATTTTGGCATGACTGTATAC
Found at i:38320803 original size:18 final size:18
Alignment explanation
Indices: 38320780--38320823 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
38320770 GGGTTAGTGG
38320780 GTTTTGGGTAGGTTATTT
1 GTTTTGGGTAGGTTATTT
38320798 GTTTTGGGTAGGTTATTT
1 GTTTTGGGTAGGTTATTT
38320816 GTTTTGGG
1 GTTTTGGG
38320824 CTCAAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.09, C:0.00, G:0.36, T:0.55
Consensus pattern (18 bp):
GTTTTGGGTAGGTTATTT
Found at i:38324960 original size:15 final size:15
Alignment explanation
Indices: 38324930--38324958 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
38324920 ATTATTAGTA
38324930 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
38324945 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
38324959 TACCATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:38326161 original size:25 final size:25
Alignment explanation
Indices: 38326098--38326149 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 25
38326088 TTAATTTCAG
38326098 TATTGTTAATTTTTTTTAATTTGAAA
1 TATTGTTAA-TTTTTTTAATTTGAAA
38326124 TATTGTTAATTTTTTTAATTTGAAA
1 TATTGTTAATTTTTTTAATTTGAAA
38326149 T
1 T
38326150 TGTTTTCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (25 bp):
TATTGTTAATTTTTTTAATTTGAAA
Found at i:38329185 original size:51 final size:51
Alignment explanation
Indices: 38329109--38329207 Score: 189
Period size: 51 Copynumber: 1.9 Consensus size: 51
38329099 ACGGGTGTGT
38329109 GGTTGCCCGTGTGGTAGGTCGTGTGGAGGGACACGGCCATGTGATTGACGA
1 GGTTGCCCGTGTGGTAGGTCGTGTGGAGGGACACGGCCATGTGATTGACGA
*
38329160 GGTTGCCTGTGTGGTAGGTCGTGTGGAGGGACACGGCCATGTGATTGA
1 GGTTGCCCGTGTGGTAGGTCGTGTGGAGGGACACGGCCATGTGATTGA
38329208 TGAGCCAGGC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.15, C:0.16, G:0.43, T:0.25
Consensus pattern (51 bp):
GGTTGCCCGTGTGGTAGGTCGTGTGGAGGGACACGGCCATGTGATTGACGA
Found at i:38342186 original size:16 final size:16
Alignment explanation
Indices: 38342162--38342204 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
38342152 ATTTTATTAC
38342162 TATTA-TTATTATATT
1 TATTATTTATTATATT
*
38342177 TATTATTTATTGTATT
1 TATTATTTATTATATT
38342193 TATTATTTATTA
1 TATTATTTATTA
38342205 GCATTAGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 5 0.20
16 20 0.80
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TATTATTTATTATATT
Found at i:38342215 original size:19 final size:16
Alignment explanation
Indices: 38342174--38342219 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 16
38342164 TTATTATTAT
*
38342174 ATTTATTATTTATTGT
1 ATTTATTATTTATTGC
38342190 ATTTATTATTTATTAGC
1 ATTTATTATTTATT-GC
38342207 ATTAGTATTATTT
1 ATT--TATTATTT
38342220 TTACTTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 14 0.54
17 4 0.15
19 8 0.31
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (16 bp):
ATTTATTATTTATTGC
Found at i:38342804 original size:25 final size:26
Alignment explanation
Indices: 38342754--38342826 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 26
38342744 TTTTTAATAC
38342754 TATATTTTTAATACCATATATATTG-TG
1 TATATTTTTAATA-C-TATATATTGATG
*
38342781 TATATTCTTAATACTATATATTGTATG
1 TATATTTTTAATACTATATATTG-ATG
38342808 TAT-TTTTTAATAACTATAT
1 TATATTTTTAAT-ACTATAT
38342827 TATATGTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
25 9 0.22
26 8 0.20
27 24 0.59
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.53
Consensus pattern (26 bp):
TATATTTTTAATACTATATATTGATG
Found at i:38342981 original size:20 final size:21
Alignment explanation
Indices: 38342956--38342999 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
38342946 ATGTATGTAT
38342956 TATGTATATA-TTTTTAATAC
1 TATGTATATATTTTTTAATAC
38342976 TATGTATATATTTTTTAATAC
1 TATGTATATATTTTTTAATAC
38342997 TAT
1 TAT
38343000 TATTATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
TATGTATATATTTTTTAATAC
Found at i:38343013 original size:47 final size:46
Alignment explanation
Indices: 38342920--38343020 Score: 118
Period size: 46 Copynumber: 2.2 Consensus size: 46
38342910 TTAATAGTTG
* *
38342920 TTTTTAATATTATTATTATTTCTAATATGTATGTATTATGTATATA
1 TTTTTAATACTATTATTATTTCTAATATCTATGTATTATGTATATA
* *
38342966 TTTTTAATACTATGTATATATTTTTTAATA-CTAT-TATTATGTTTATA
1 TTTTTAATACTAT-TAT-TA-TTTCTAATATCTATGTATTATGTATATA
38343013 -TTTTAATA
1 TTTTTAATA
38343021 TATATACATA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
46 20 0.42
47 15 0.31
48 5 0.10
49 8 0.17
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (46 bp):
TTTTTAATACTATTATTATTTCTAATATCTATGTATTATGTATATA
Found at i:38344518 original size:23 final size:23
Alignment explanation
Indices: 38344492--38344536 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
38344482 ATTTAAAATA
* *
38344492 ATATTTATTTAAAAATTGTGGGT
1 ATATATATATAAAAATTGTGGGT
*
38344515 ATATATATATATAAATTGTGGG
1 ATATATATATAAAAATTGTGGG
38344537 CATTTAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (23 bp):
ATATATATATAAAAATTGTGGGT
Found at i:38351112 original size:242 final size:244
Alignment explanation
Indices: 38350661--38351152 Score: 772
Period size: 242 Copynumber: 2.0 Consensus size: 244
38350651 TACCGTAAAT
* * * *
38350661 AAATTCTAAAAATAAGCCCGTGCAATATCTTCCATTTCCCAAAAGTCTTCCCTTTCCCCTCCACT
1 AAATTCTAAAAATAAGCACGTGCAATACCCTCAATTTCCCAAAAGTCTTCCCTTTCCCCTCCACT
*
38350726 TTCATTCTGTAACTTATTAATATAGTTTCTCCTCCGTCTTTATGTTGCTTGGCTATGAAAAAAAA
66 TTCATTCTGTAACTTATTAATATAGTTTCTCCTCCGTCTTTATGTTACTTGGCTATGAAAAAAAA
* **
38350791 ACCGTATTCCTGTCATGGAATTTCAACCAGTTCAGTGGCGCCCTTTGCTCCCAGTAATATTCATC
131 ACCGTATTCCTATCACCGAATTTCAACCAGTTCAGTGGCGCCCTTTGCTCCCAGTAATATTCATC
38350856 ATTTTCAATCTCAAAGTTTAGCTGAATCTTTGTGTCAATTATCTCAGCC
196 ATTTTCAATCTCAAAGTTTAGCTGAATCTTTGTGTCAATTATCTCAGCC
* *
38350905 AAATTCTAAAAATAAGCACGTGCAATACCCTCAATTTCCCAAAA-TTTTCCGTTTCCCCTCCACT
1 AAATTCTAAAAATAAGCACGTGCAATACCCTCAATTTCCCAAAAGTCTTCCCTTTCCCCTCCACT
* * *
38350969 TTCATTCTGTAGCTTATTAATCTGGTTTCTCCTCCGTCTTTATGTTACTTGGCTATG-AAAAAAA
66 TTCATTCTGTAACTTATTAATATAGTTTCTCCTCCGTCTTTATGTTACTTGGCTATGAAAAAAAA
*** * *
38351033 GTTGTATTCCTATCACCGAATTTCAACCAGTTTAGTTGCGCCCTTTGCTCCCAGTAATATTCATC
131 ACCGTATTCCTATCACCGAATTTCAACCAGTTCAGTGGCGCCCTTTGCTCCCAGTAATATTCATC
* * * *
38351098 CTTTTCAATCTCAAAGTTTCGCTGAATCTTTGTGTCAATTATTTTAGCC
196 ATTTTCAATCTCAAAGTTTAGCTGAATCTTTGTGTCAATTATCTCAGCC
38351147 AAATTC
1 AAATTC
38351153 GTATCATCCC
Statistics
Matches: 226, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
242 115 0.51
243 71 0.31
244 40 0.18
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (244 bp):
AAATTCTAAAAATAAGCACGTGCAATACCCTCAATTTCCCAAAAGTCTTCCCTTTCCCCTCCACT
TTCATTCTGTAACTTATTAATATAGTTTCTCCTCCGTCTTTATGTTACTTGGCTATGAAAAAAAA
ACCGTATTCCTATCACCGAATTTCAACCAGTTCAGTGGCGCCCTTTGCTCCCAGTAATATTCATC
ATTTTCAATCTCAAAGTTTAGCTGAATCTTTGTGTCAATTATCTCAGCC
Found at i:38354910 original size:22 final size:22
Alignment explanation
Indices: 38354883--38354935 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
38354873 AATTAGAGTT
*
38354883 CTAGGGTTTTGAATAAATAAAA
1 CTAGGGTTTTAAATAAATAAAA
* *
38354905 TTAGGGTTTTAAATAAATTAAA
1 CTAGGGTTTTAAATAAATAAAA
38354927 CTAGGGTTT
1 CTAGGGTTT
38354936 ATGGTGTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (22 bp):
CTAGGGTTTTAAATAAATAAAA
Found at i:38354939 original size:86 final size:86
Alignment explanation
Indices: 38354836--38354999 Score: 247
Period size: 86 Copynumber: 1.9 Consensus size: 86
38354826 TAAAAATTAT
* * * *
38354836 TTAAATTAGCGTTTATGGTTTTTAAATAAATTTAGTAAATTAGAGTTCTAGGGTTTTGAATAAAT
1 TTAAACTAGCGTTTATGGTGTTTAAATAAATTAAGTAAATTAGAGTTCTAGGGTTTTAAATAAAT
38354901 AAAATTAGGGTTTTAAATAAA
66 AAAATTAGGGTTTTAAATAAA
* * *
38354922 TTAAACTAGGGTTTATGGTGTTTAAATAAATTAATTAAATTAGGGTTCTAGGGTTTTAAATAAAT
1 TTAAACTAGCGTTTATGGTGTTTAAATAAATTAAGTAAATTAGAGTTCTAGGGTTTTAAATAAAT
* *
38354987 TAAATTATGGTTT
66 AAAATTAGGGTTT
38355000 AGGGTTAAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 69 1.00
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (86 bp):
TTAAACTAGCGTTTATGGTGTTTAAATAAATTAAGTAAATTAGAGTTCTAGGGTTTTAAATAAAT
AAAATTAGGGTTTTAAATAAA
Found at i:38354958 original size:34 final size:34
Alignment explanation
Indices: 38354914--38354989 Score: 109
Period size: 34 Copynumber: 2.2 Consensus size: 34
38354904 ATTAGGGTTT
* *
38354914 TAAATAAATTAAACTAGGGTT-TATGGTGTTTAAA
1 TAAATTAATTAAACTAGGGTTCTAGGGT-TTTAAA
*
38354948 TAAATTAATTAAATTAGGGTTCTAGGGTTTTAAA
1 TAAATTAATTAAACTAGGGTTCTAGGGTTTTAAA
38354982 TAAATTAA
1 TAAATTAA
38354990 ATTATGGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 33 0.87
35 5 0.13
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.39
Consensus pattern (34 bp):
TAAATTAATTAAACTAGGGTTCTAGGGTTTTAAA
Found at i:38354975 original size:64 final size:58
Alignment explanation
Indices: 38354906--38355026 Score: 170
Period size: 64 Copynumber: 2.0 Consensus size: 58
38354896 TAAATAAAAT
38354906 TAGGGTTTTAAATAAATTAAACTAGGGTTTATGGTGTTTAAATAAATTAATTAAATTAGGGTTC
1 TAGGGTTTTAAATAAATTAAACTAGGGTTTA-GG-G-TT--A-AAATTAATTAAATTAGGGTTC
* *
38354970 TAGGGTTTTAAATAAATTAAATTATGGTTTAGGGTTAAAATTAATTAAATTAGGGTT
1 TAGGGTTTTAAATAAATTAAACTAGGGTTTAGGGTTAAAATTAATTAAATTAGGGTT
38355027 TAGTTATTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
58 20 0.36
59 1 0.02
61 2 0.04
62 1 0.02
63 2 0.04
64 29 0.53
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.41
Consensus pattern (58 bp):
TAGGGTTTTAAATAAATTAAACTAGGGTTTAGGGTTAAAATTAATTAAATTAGGGTTC
Found at i:38355017 original size:28 final size:29
Alignment explanation
Indices: 38354905--38355029 Score: 135
Period size: 28 Copynumber: 4.1 Consensus size: 29
38354895 ATAAATAAAA
* * *
38354905 TTAGGGTTTTAAATAAATTAAACTAGGGT
1 TTAGGGTTTAAAATTAATTAAATTAGGGT
38354934 TTATGGTGTTTAAATAAATTAATTAAATTAGGGT
1 TTA-GG-GTTT--A-AAATTAATTAAATTAGGGT
* * *
38354968 TCTAGGGTTTTAAATAAATTAAATTATGGT
1 T-TAGGGTTTAAAATTAATTAAATTAGGGT
38354998 TTAGGG-TTAAAATTAATTAAATTAGGGT
1 TTAGGGTTTAAAATTAATTAAATTAGGGT
38355026 TTAG
1 TTAG
38355030 TTATTTTAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 13
0.79 0.09 0.13
Matches are distributed among these distances:
28 23 0.28
29 8 0.10
30 20 0.25
31 4 0.05
33 4 0.05
34 20 0.25
35 2 0.02
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.42
Consensus pattern (29 bp):
TTAGGGTTTAAAATTAATTAAATTAGGGT
Found at i:38355286 original size:124 final size:123
Alignment explanation
Indices: 38355084--38355332 Score: 340
Period size: 124 Copynumber: 2.0 Consensus size: 123
38355074 CTATTTTGAC
* *
38355084 CCTAAAAAAATAATTTTGAGAATACATTTCTAACAAATAGTGTAAAAAAACTTCAAGAAGGATGT
1 CCTAAAAAAATAATTTTGAGAAGACATTTCTAACAAATAGTGTAAAAAAACTTCAAGAAGGATGC
** * *
38355149 ACTGTCAGCAAAATTAT-AGAAAAAAGCTCCCATGTGGA-CTTTTTTTCTACAGTAGTT
66 ACTGTCAGCAAAATT-TCAGAAAAAAGCTCCCACATGGACCTCTTTTTCCACAGTAGTT
* ** *
38355206 CCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGAT
1 CCTAAAAAAATAATTTTGAGAAGACATTTCT-AACAAATAGTGT-AAAAAAACTTCAAGAAGGAT
* *
38355271 GCACTGTCAGTAAAATTTCTGAAAAAAGCTCCCACATGGACGCTCTTTTTCCACAGTAGTT
64 GCACTGTCAGCAAAATTTCAGAAAAAAGCTCCCACATGGAC-CTCTTTTTCCACAGTAGTT
38355332 C
1 C
38355333 ATGCTTGGCC
Statistics
Matches: 110, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
122 29 0.26
123 13 0.12
124 50 0.45
126 18 0.16
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (123 bp):
CCTAAAAAAATAATTTTGAGAAGACATTTCTAACAAATAGTGTAAAAAAACTTCAAGAAGGATGC
ACTGTCAGCAAAATTTCAGAAAAAAGCTCCCACATGGACCTCTTTTTCCACAGTAGTT
Found at i:38360420 original size:14 final size:16
Alignment explanation
Indices: 38360401--38360432 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38360391 GACTGTTATA
38360401 AAAAATT-A-TAAAAT
1 AAAAATTAATTAAAAT
38360415 AAAAATTAATTAAAAT
1 AAAAATTAATTAAAAT
38360431 AA
1 AA
38360433 CATAAATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 1 0.06
16 8 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAATTAATTAAAAT
Found at i:38362845 original size:69 final size:69
Alignment explanation
Indices: 38362689--38362831 Score: 214
Period size: 69 Copynumber: 2.1 Consensus size: 69
38362679 TTCTCGAATG
* * * *
38362689 AACAAACGAGAAAGAGAGGGAGGGAGCATGTTTGGCGGCATGGATTGGAGCTTGGGACAATTGAA
1 AACAAACAAGAAAGAGAGGAAGGGAACATGTTTGGCGGCATGGATTGGAGCTTGGGACAACTGAA
38362754 GATA
66 GATA
* * *
38362758 AACAAACAAGAAAGAGAGGAAGGGAACATGTTTGGCGGCATGGTTTGGAGGTTGGGACAGCTGAA
1 AACAAACAAGAAAGAGAGGAAGGGAACATGTTTGGCGGCATGGATTGGAGCTTGGGACAACTGAA
38362823 GATA
66 GATA
*
38362827 GACAA
1 AACAA
38362832 TTTGCAAAGA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.36, C:0.10, G:0.36, T:0.17
Consensus pattern (69 bp):
AACAAACAAGAAAGAGAGGAAGGGAACATGTTTGGCGGCATGGATTGGAGCTTGGGACAACTGAA
GATA
Found at i:38367416 original size:16 final size:16
Alignment explanation
Indices: 38367395--38367446 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
38367385 TTATATTTAA
38367395 TAATATAATAAATTAT
1 TAATATAATAAATTAT
38367411 TAATATAATAAATTAT
1 TAATATAATAAATTAT
38367427 T--T-TAATAAATTACT
1 TAATATAATAAATTA-T
38367441 TAATAT
1 TAATAT
38367447 TTTAATTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 10 0.31
14 3 0.09
16 18 0.56
17 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
TAATATAATAAATTAT
Found at i:38367482 original size:16 final size:16
Alignment explanation
Indices: 38367461--38367491 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
38367451 ATTTTATTTT
38367461 AATAATAATTTTAAAA
1 AATAATAATTTTAAAA
38367477 AATAATAATTTTAAA
1 AATAATAATTTTAAA
38367492 TTACATTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAATTTTAAAA
Found at i:38367550 original size:15 final size:15
Alignment explanation
Indices: 38367530--38367586 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
38367520 ATTCAATATT
38367530 AATATTTTAATAATA
1 AATATTTTAATAATA
*
38367545 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
38367564 AATATATTAATAATA
1 AATATTTTAATAATA
38367579 AATATTTT
1 AATATTTT
38367587 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:38372765 original size:13 final size:13
Alignment explanation
Indices: 38372747--38372771 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38372737 TGTGGGTTCA
38372747 CACGGCCGTGTTG
1 CACGGCCGTGTTG
38372760 CACGGCCGTGTT
1 CACGGCCGTGTT
38372772 TAGCTTCGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.32, G:0.36, T:0.24
Consensus pattern (13 bp):
CACGGCCGTGTTG
Found at i:38378819 original size:23 final size:23
Alignment explanation
Indices: 38378789--38378835 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
38378779 GAGTTTGTGA
*
38378789 AAACTCACCCCTTTATTTATTTT
1 AAACTCACCCATTTATTTATTTT
38378812 AAACTCACCCATTTATTTATTTT
1 AAACTCACCCATTTATTTATTTT
38378835 A
1 A
38378836 TGTCAGGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (23 bp):
AAACTCACCCATTTATTTATTTT
Found at i:38387362 original size:43 final size:42
Alignment explanation
Indices: 38387258--38387366 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 42
38387248 CGAGATGTGT
* * *
38387258 TTACATGTAAGACCATGTCTGGGACATTGGAATGTATTGCGA
1 TTACGTGTAAGACCATGTCTGGGACATTAGAATGTAATGCGA
* *
38387300 TTACGTGTAATACCATGTCTGGGACATTAGCATCGTTAAT-CGA
1 TTACGTGTAAGACCATGTCTGGGACATTAGAAT-G-TAATGCGA
* *
38387343 TTTCGTGTAAGACCCTGTCTGGGA
1 TTACGTGTAAGACCATGTCTGGGA
38387367 TAGTGGCATC
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 29 0.51
43 25 0.44
44 3 0.05
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTGGGACATTAGAATGTAATGCGA
Found at i:38387376 original size:43 final size:43
Alignment explanation
Indices: 38387258--38387377 Score: 136
Period size: 43 Copynumber: 2.8 Consensus size: 43
38387248 CGAGATGTGT
* * *
38387258 TTACATGTAAGACCATGTCTGGGACATTGGAAT-GTATTGCGA
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGCGA
* *
38387300 TTACGTGTAATACCATGTCTGGGACATTAGCATCGTTAAT-CGA
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TAATGCGA
* * * *
38387343 TTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCG
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCG
38387378 ATATGTGATA
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 29 0.45
43 33 0.51
44 3 0.05
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAATGCGA
Found at i:38389303 original size:43 final size:43
Alignment explanation
Indices: 38389250--38389348 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 43
38389240 TGGTTACATA
* * * * *
38389250 TAAGAGCATGTCTGAGACATTGGAATTG-TATTGTGATTATGTG
1 TAAGACCATGTCTGAGACATTGGAATCGTTAAT-CGATTACGTG
* * *
38389293 TAAGACCATGTTTGGGACATTGGCATCGTTAATCGATTACGTG
1 TAAGACCATGTCTGAGACATTGGAATCGTTAATCGATTACGTG
38389336 TAAGACCATGTCT
1 TAAGACCATGTCT
38389349 AGGATAGTGG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
43 43 0.93
44 3 0.07
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.34
Consensus pattern (43 bp):
TAAGACCATGTCTGAGACATTGGAATCGTTAATCGATTACGTG
Found at i:38393875 original size:18 final size:18
Alignment explanation
Indices: 38393832--38393875 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
38393822 CGTGTGGGCC
* *
38393832 ACACGGGAGTGTGGGAGT
1 ACACGGGCGTGTGGGAGA
38393850 ACACGGGCGTGTGGGAGA
1 ACACGGGCGTGTGGGAGA
38393868 ACACGGGC
1 ACACGGGC
38393876 AGGCCATATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.23, C:0.18, G:0.48, T:0.11
Consensus pattern (18 bp):
ACACGGGCGTGTGGGAGA
Found at i:38394282 original size:23 final size:24
Alignment explanation
Indices: 38394256--38394300 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
38394246 TAATCCACAT
*
38394256 ATGGAGTGTAG-GGTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
*
38394279 ATGGTGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
38394301 GTAGGACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.20, C:0.02, G:0.51, T:0.27
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:38401525 original size:21 final size:20
Alignment explanation
Indices: 38401499--38401545 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
38401489 ATTATATATG
38401499 TATATATA-ATCGAGACACATA
1 TATATATATATCG-GA-ACATA
38401520 TATATATATATCGGAACATA
1 TATATATATATCGGAACATA
38401540 T-TATAT
1 TATATAT
38401546 GAACTGAGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.20
20 6 0.24
21 10 0.40
22 4 0.16
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.36
Consensus pattern (20 bp):
TATATATATATCGGAACATA
Found at i:38401525 original size:23 final size:19
Alignment explanation
Indices: 38401494--38401545 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 19
38401484 CTTATATTAT
38401494 ATATGTATATATAATCGAGACAC
1 ATAT-TATATAT-ATCG-GA-AC
38401517 ATATATATATATATCGGAAC
1 ATAT-TATATATATCGGAAC
38401537 ATATTATAT
1 ATATTATAT
38401546 GAACTGAGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 5 0.18
20 6 0.21
21 2 0.07
22 4 0.14
23 11 0.39
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.37
Consensus pattern (19 bp):
ATATTATATATATCGGAAC
Found at i:38403859 original size:39 final size:39
Alignment explanation
Indices: 38403805--38403886 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
38403795 AATTAACCTT
38403805 AAAAAAACAACTTAAACTTTTAACAGTCTAGTAGTATTG
1 AAAAAAACAACTTAAACTTTTAACAGTCTAGTAGTATTG
*
38403844 AAAAAAACAACTTAAACTTTTAACGGTCTAGTAGTATTG
1 AAAAAAACAACTTAAACTTTTAACAGTCTAGTAGTATTG
38403883 AAAA
1 AAAA
38403887 TCTATAAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.29
Consensus pattern (39 bp):
AAAAAAACAACTTAAACTTTTAACAGTCTAGTAGTATTG
Found at i:38404347 original size:38 final size:38
Alignment explanation
Indices: 38404267--38404348 Score: 101
Period size: 38 Copynumber: 2.2 Consensus size: 38
38404257 AAGGTCATAG
* * *
38404267 CCACAATTAACCCCAACGGTAATGGGTTGGAACAAAAG
1 CCACAATTAACCCCAACGGTAATGGATTGAAACAAAAA
** * *
38404305 CCACAATTAACCCCAGTGGTAGTGGATTGAAAGAAAAA
1 CCACAATTAACCCCAACGGTAATGGATTGAAACAAAAA
38404343 CCACAA
1 CCACAA
38404349 ATCACTCCAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (38 bp):
CCACAATTAACCCCAACGGTAATGGATTGAAACAAAAA
Found at i:38406021 original size:38 final size:38
Alignment explanation
Indices: 38405971--38406067 Score: 122
Period size: 40 Copynumber: 2.5 Consensus size: 38
38405961 CCAACTCCGT
* *
38405971 CCAACCCAACACACCATGTGGGGATAAAATCGACCCAC
1 CCAACCCTACACACCATATGGGGATAAAATCGACCCAC
* * * *
38406009 CCATCCTTACACACCGAATATGGGGATAAAATCGACGCAT
1 CCAACCCTACACACC--ATATGGGGATAAAATCGACCCAC
38406049 CCAACCCTACACACCATAT
1 CCAACCCTACACACCATAT
38406068 AGTATCGTAG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
38 16 0.33
40 33 0.67
ACGTcount: A:0.36, C:0.35, G:0.13, T:0.15
Consensus pattern (38 bp):
CCAACCCTACACACCATATGGGGATAAAATCGACCCAC
Found at i:38408046 original size:34 final size:33
Alignment explanation
Indices: 38407995--38408059 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 33
38407985 AGTCAAATGT
*
38407995 AGTCTGGGCCTATGCCCATCTT-AGTCTTAGTAAC
1 AGTCCGGGCCTATGCCCAT-TTCAGT-TTAGTAAC
38408029 AGTCCGGGCCT-TAGCCCATTTCAGTTTAGTA
1 AGTCCGGGCCTAT-GCCCATTTCAGTTTAGTA
38408060 TCAAATAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
33 9 0.32
34 19 0.68
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (33 bp):
AGTCCGGGCCTATGCCCATTTCAGTTTAGTAAC
Found at i:38411469 original size:28 final size:30
Alignment explanation
Indices: 38411438--38411503 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 30
38411428 TTAGTTTTAG
*
38411438 TTATTTATTGATT-TTAATTTAT-TTTT-TT
1 TTATTT-TTCATTATTAATTTATCTTTTGTT
*
38411466 TTATTTTTCATTATTATTTTATCTTTTGTT
1 TTATTTTTCATTATTAATTTATCTTTTGTT
38411496 TTATTTTT
1 TTATTTTT
38411504 TGTTTCCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 5 0.15
28 14 0.42
29 4 0.12
30 10 0.30
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (30 bp):
TTATTTTTCATTATTAATTTATCTTTTGTT
Found at i:38418812 original size:34 final size:34
Alignment explanation
Indices: 38418730--38418814 Score: 107
Period size: 34 Copynumber: 2.5 Consensus size: 34
38418720 CAGTACTATT
* * *
38418730 TAGTGTACTGGATGGTTTAGCTCATACGAGCATT
1 TAGTGTGCTGGATGGATTAGCTCATACGAGCATC
* * *
38418764 TGGTATGCTGGATGGATTAGCTCATACGAGTATC
1 TAGTGTGCTGGATGGATTAGCTCATACGAGCATC
*
38418798 TAGTGTGCTAGATGGAT
1 TAGTGTGCTGGATGGAT
38418815 AACGTGTACT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.34
Consensus pattern (34 bp):
TAGTGTGCTGGATGGATTAGCTCATACGAGCATC
Found at i:38420156 original size:21 final size:21
Alignment explanation
Indices: 38420127--38420167 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
38420117 TCAATATCGG
38420127 ACTAAAGTATTAATAATTTAT
1 ACTAAAGTATTAATAATTTAT
* * *
38420148 ACTAGAGTATTGATACTTTA
1 ACTAAAGTATTAATAATTTA
38420168 CAAGGGTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (21 bp):
ACTAAAGTATTAATAATTTAT
Found at i:38421963 original size:31 final size:31
Alignment explanation
Indices: 38421922--38421995 Score: 121
Period size: 31 Copynumber: 2.4 Consensus size: 31
38421912 AGGGAATCTA
* *
38421922 GTGGGTGGTTATTTGTGGGACTTAGTGGGAT
1 GTGGGTGGTTAATTATGGGACTTAGTGGGAT
*
38421953 GTGGATGGTTAATTATGGGACTTAGTGGGAT
1 GTGGGTGGTTAATTATGGGACTTAGTGGGAT
38421984 GTGGGTGGTTAA
1 GTGGGTGGTTAA
38421996 GAAATTATCC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.18, C:0.03, G:0.43, T:0.36
Consensus pattern (31 bp):
GTGGGTGGTTAATTATGGGACTTAGTGGGAT
Found at i:38425704 original size:28 final size:28
Alignment explanation
Indices: 38425673--38425728 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
38425663 TTTCTAATTA
* * *
38425673 AATTCAATTTTAATCCTTTTTATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
* *
38425701 AATTTACTTTAAATACTTTATATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
38425729 TATAAATATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (28 bp):
AATTCAATTTAAATACTTTATATATTTT
Found at i:38425824 original size:14 final size:14
Alignment explanation
Indices: 38425779--38425843 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
38425769 TTATTTTATC
*
38425779 ATATATTTTATCTAT
1 ATATATTTTAT-TTT
* * *
38425794 AAATTATATTATATT
1 ATA-TATTTTATTTT
38425809 ATATATTTTATTTT
1 ATATATTTTATTTT
*
38425823 ATATA-TTT-CTTT
1 ATATATTTTATTTT
38425835 ATATATTTT
1 ATATATTTT
38425844 TATAAAATTG
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
12 8 0.20
13 6 0.15
14 14 0.35
15 5 0.12
16 7 0.17
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (14 bp):
ATATATTTTATTTT
Found at i:38426924 original size:45 final size:45
Alignment explanation
Indices: 38426875--38427000 Score: 209
Period size: 45 Copynumber: 2.8 Consensus size: 45
38426865 ATCATTTCAT
38426875 CGGCATTATAGCCTGCTAGGCTCGAAA-GCCCGAATAGTATCTCAC
1 CGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATCTCAC
* *
38426920 CGGCATTATAGCCTGCTAGGCCCAAAGGCCCGAATAGTGTCTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
*
38426965 CGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
38427001 TAATACCAGC
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
44 3 0.04
45 73 0.96
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (45 bp):
CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
Found at i:38427212 original size:38 final size:38
Alignment explanation
Indices: 38426993--38427201 Score: 312
Period size: 38 Copynumber: 5.5 Consensus size: 38
38426983 GGCTCAAAGG
* * *
38426993 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGAATATATTACCAGCACGAAGCCTGCGGGATTTAA
* * * *
38427031 CCAGGATATAATACCAGCACGAAGCCTGCGGGAATTAA
1 CCCGAATATATTACCAGCACGAAGCCTGCGGGATTTAA
*
38427069 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGAATATATTACCAGCACGAAGCCTGCGGGATTTAA
*
38427107 CCCGAATATATTACCAGCACGAAGCCTGCAGGATTTAA
1 CCCGAATATATTACCAGCACGAAGCCTGCGGGATTTAA
*
38427145 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGAATATATTACCAGCACGAAGCCTGCGGGATTTAA
38427183 CCCGAATATAATT-CCAGCA
1 CCCGAATAT-ATTACCAGCA
38427202 TATAGCCTGC
Statistics
Matches: 157, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
38 154 0.98
39 3 0.02
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (38 bp):
CCCGAATATATTACCAGCACGAAGCCTGCGGGATTTAA
Found at i:38427606 original size:43 final size:44
Alignment explanation
Indices: 38427498--38427632 Score: 193
Period size: 43 Copynumber: 3.1 Consensus size: 44
38427488 ACATAACATT
*
38427498 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAAT-A
* * *
38427544 T-ATTTCACCGCCATTATAGCCTACTAAGCTCAAAGCCCG-ATA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
*
38427586 TCATTTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGAATA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
38427630 TCA
1 TCA
38427633 CATTTCGATA
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
42 2 0.03
43 36 0.46
44 10 0.13
45 30 0.38
46 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (44 bp):
TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
Found at i:38430808 original size:18 final size:18
Alignment explanation
Indices: 38430782--38430822 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
38430772 TACCATATTA
* *
38430782 TATTTCATACTATATTTT
1 TATTACATACAATATTTT
38430800 TATTACATACAATATTTT
1 TATTACATACAATATTTT
38430818 TATTA
1 TATTA
38430823 TTCAATATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTACATACAATATTTT
Found at i:38430830 original size:16 final size:17
Alignment explanation
Indices: 38430788--38430831 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
38430778 ATTATATTTC
*
38430788 ATACTATATTTTTATTA
1 ATACAATATTTTTATTA
38430805 CATACAATATTTTTATT-
1 -ATACAATATTTTTATTA
*
38430822 ATTCAATATT
1 ATACAATATT
38430832 CCTTATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 9 0.38
18 15 0.62
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (17 bp):
ATACAATATTTTTATTA
Found at i:38430956 original size:21 final size:22
Alignment explanation
Indices: 38430930--38430990 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
38430920 GTAAAATACT
38430930 TATTATATTT-TTATTATTTTA
1 TATTATATTTCTTATTATTTTA
38430951 TATTATATTTCCTTA-TATTTTA
1 TATTATATTT-CTTATTATTTTA
* *
38430973 T-TCATATTATATTATTAT
1 TATTATATT-TCTTATTAT
38430991 CATAACTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 19 0.56
22 12 0.35
23 3 0.09
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTATATTTCTTATTATTTTA
Found at i:38432955 original size:33 final size:32
Alignment explanation
Indices: 38432879--38432958 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 32
38432869 GGAAATTGTT
* * **
38432879 AAATGTAAGACCATAGCTGGGTTATGGCATTT
1 AAATGTAAGACCATAACTAGGTTATGGCATAC
* *
38432911 TAATGAAAAGACCATAACTAGGTTATGGCACTAC
1 AAATG-TAAGACCATAACTAGGTTATGGCA-TAC
38432945 AAATGTAAGACCAT
1 AAATGTAAGACCAT
38432959 GGCAGGGCCA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
32 4 0.11
33 29 0.76
34 5 0.13
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (32 bp):
AAATGTAAGACCATAACTAGGTTATGGCATAC
Found at i:38433862 original size:37 final size:37
Alignment explanation
Indices: 38433819--38433920 Score: 109
Period size: 37 Copynumber: 2.8 Consensus size: 37
38433809 TACTTGAAAT
38433819 ACTTGGAAATGATATTTAATTGATATATTGAAACATG
1 ACTTGGAAATGATATTTAATTGATATATTGAAACATG
* * * *
38433856 TCTTGGAAATGATATTTGCA-TGACATATTGAAACGTG
1 ACTTGGAAATGATATTT-AATTGATATATTGAAACATG
* * * *
38433893 ACATGGAAATGGT-TTTACTTAATATATT
1 ACTTGGAAATGATATTTAATTGATATATT
38433921 AAAAAGTGAC
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
36 10 0.19
37 41 0.79
38 1 0.02
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (37 bp):
ACTTGGAAATGATATTTAATTGATATATTGAAACATG
Found at i:38437030 original size:22 final size:21
Alignment explanation
Indices: 38437000--38437046 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
38436990 TACAAATTAA
38437000 ATCTCCAAGATTACAATATCAT
1 ATCTCCAAGATTAC-ATATCAT
* *
38437022 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACATATCAT
38437043 ATCT
1 ATCT
38437047 AGGATTGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36
Consensus pattern (21 bp):
ATCTCCAAGATTACATATCAT
Found at i:38437054 original size:19 final size:21
Alignment explanation
Indices: 38437000--38437059 Score: 70
Period size: 19 Copynumber: 2.9 Consensus size: 21
38436990 TACAAATTAA
* *
38437000 ATCTCCAAGATTACAATATCAT
1 ATCTTCAAGATTGC-ATATCAT
38437022 ATCTTCAAGATTGCATATCAT
1 ATCTTCAAGATTGCATATCAT
*
38437043 ATC-T-AGGATTGCATATC
1 ATCTTCAAGATTGCATATC
38437060 CTTAAAGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 12 0.34
20 1 0.03
21 10 0.29
22 12 0.34
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (21 bp):
ATCTTCAAGATTGCATATCAT
Found at i:38437426 original size:14 final size:16
Alignment explanation
Indices: 38437392--38437427 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
38437382 AAACAACTTA
*
38437392 ATATAAGCAAATATTT
1 ATATAAACAAATATTT
38437408 ATATAAACAAATATTT
1 ATATAAACAAATATTT
38437424 ATAT
1 ATAT
38437428 TTATGTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.39
Consensus pattern (16 bp):
ATATAAACAAATATTT
Found at i:38449088 original size:27 final size:27
Alignment explanation
Indices: 38449053--38449391 Score: 444
Period size: 27 Copynumber: 12.5 Consensus size: 27
38449043 TTTACAAAAT
*
38449053 TACTGAAATACCCTTGTAGGGTAGAAA
1 TACTGAAATACCCCTGTAGGGTAGAAA
*
38449080 TACCGAAATACCCCTGTAGGGTAGAAA
1 TACTGAAATACCCCTGTAGGGTAGAAA
* *
38449107 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAA
* *
38449134 TACTAAAATACCCTTGTAGGGTAGAAA
1 TACTGAAATACCCCTGTAGGGTAGAAA
* * *
38449161 TACCGAAATACCCTTATAGGGTAGAAA
1 TACTGAAATACCCCTGTAGGGTAGAAA
*
38449188 TATTGAAATACCCCTGTAGGGTAGAAA
1 TACTGAAATACCCCTGTAGGGTAGAAA
*
38449215 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAA
* *
38449242 TACTAAAAATACCCCTGTAGGGTAGAAT
1 TACT-GAAATACCCCTGTAGGGTAGAAA
* *
38449270 TACTAAAATACCCCTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAA
* *
38449297 TACCGAAATACCCTTGTAGGGGTAGAAA
1 TACTGAAATACCCCTGTA-GGGTAGAAA
** * * *
38449325 TACCAAAACACCCCTGTAGGCTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAA
*
38449352 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAA
*
38449379 TACTGAGATACCC
1 TACTGAAATACCC
38449392 TTGTGGGGAA
Statistics
Matches: 279, Mismatches: 31, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
27 230 0.82
28 49 0.18
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
TACTGAAATACCCCTGTAGGGTAGAAA
Found at i:38449294 original size:82 final size:81
Alignment explanation
Indices: 38449050--38449395 Score: 512
Period size: 82 Copynumber: 4.2 Consensus size: 81
38449040 TAGTTTACAA
* *
38449050 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAAATACCGAAA
1 AATTACTGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAAATACTGAAA
38449115 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* * * * *
38449131 AATTACTAAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTATAGGGTAGAAATATTGAAA
1 AATTACTGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAAATACTGAAA
38449196 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* * * * * *
38449212 AAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAAATACCCCTGTAGGGTAGAATTACTAAA
1 AATTACTGAAATACCCTTGTAGGGTAGAAATAC-CAAAATACCCCTGTAGGGTAGAAATACTGAA
38449277 ATACCCCTGTAGGGTAG
65 ATACCCCTGTAGGGTAG
* * * *
38449294 AATTACCGAAATACCCTTGTAGGGGTAGAAATACCAAAACACCCCTGTAGGCTAGAATTACTGAA
1 AATTACTGAAATACCCTTGTA-GGGTAGAAATACCAAAATACCCCTGTAGGGTAGAAATACTGAA
38449359 ATACCCCTGTAGGGTAG
65 ATACCCCTGTAGGGTAG
*
38449376 AATTACTGAGATACCCTTGT
1 AATTACTGAAATACCCTTGT
38449396 GGGGAAAAAT
Statistics
Matches: 237, Mismatches: 26, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
81 105 0.44
82 121 0.51
83 11 0.05
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.24
Consensus pattern (81 bp):
AATTACTGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAAATACTGAAA
TACCCCTGTAGGGTAG
Found at i:38449745 original size:67 final size:67
Alignment explanation
Indices: 38449637--38449819 Score: 276
Period size: 67 Copynumber: 2.7 Consensus size: 67
38449627 GGAAACGTTC
* *
38449637 TGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTCTGGTGACTTCGTCACAATA
1 TGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTATAGTGACTTCGTCACAATA
38449702 TT
66 TT
* *
38449704 TGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTATATTGACTTCGTCACAATA
1 TGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTATAGTGACTTCGTCACAATA
38449769 TT
66 TT
* * * * *
38449771 TGGCAACTTCACTGCAATCTGGTGGCTTCGCCACATATATATATATATA
1 TGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTAT-TATA
38449820 TATATCTGTT
Statistics
Matches: 105, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
67 101 0.96
68 4 0.04
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.32
Consensus pattern (67 bp):
TGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTATAGTGACTTCGTCACAATA
TT
Found at i:38449873 original size:27 final size:26
Alignment explanation
Indices: 38449821--38449880 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
38449811 ATATATATAT
38449821 ATATCTGTTCTAGTGACCTAGCCACA
1 ATATCTGTTCTAGTGACCTAGCCACA
* * * *
38449847 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTAGTGACCTAGCCACA
38449874 ATATCTG
1 ATATCTG
38449881 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTAGTGACCTAGCCACA
Found at i:38450047 original size:6 final size:6
Alignment explanation
Indices: 38449999--38450080 Score: 62
Period size: 6 Copynumber: 13.3 Consensus size: 6
38449989 TTGCATTCAC
* * *
38449999 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTA ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
38450048 -TCACCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
38450081 AATATTTCTT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
5 4 0.07
6 47 0.78
7 7 0.12
8 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:38450078 original size:31 final size:31
Alignment explanation
Indices: 38449999--38450071 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
38449989 TTGCATTCAC
* *
38449999 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
* *
38450030 ATTCTAATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
38450061 ATTCTGATTCT
1 ATTCTGATTCT
38450072 AGTTCTGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:38453558 original size:18 final size:18
Alignment explanation
Indices: 38453537--38453571 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38453527 ATACAAATAA
* *
38453537 TACAATTAATATTAACAT
1 TACAAATAATATAAACAT
38453555 TACAAATAATATAAACA
1 TACAAATAATATAAACA
38453572 ATAAAAAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (18 bp):
TACAAATAATATAAACAT
Found at i:38453574 original size:27 final size:27
Alignment explanation
Indices: 38453523--38453574 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
38453513 ATAAGTAACC
**
38453523 AACAATACAAATAATACAATTAATATT
1 AACAATACAAATAATACAAACAATATT
* *
38453550 AACATTACAAATAATATAAACAATA
1 AACAATACAAATAATACAAACAATA
38453575 AAAAACAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (27 bp):
AACAATACAAATAATACAAACAATATT
Found at i:38454324 original size:32 final size:35
Alignment explanation
Indices: 38454288--38454359 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 35
38454278 GAATACTAAG
38454288 GTAAAT-CCCTTC-T-TTTTATTTTAAAATTTCAT
1 GTAAATCCCCTTCTTCTTTTATTTTAAAATTTCAT
*
38454320 GTAAATCCCCTTCTTTCTTTTGTTTTAAAATTTCAT
1 GTAAATCCCCTTC-TTCTTTTATTTTAAAATTTCAT
38454356 GTAA
1 GTAA
38454360 TCCTAAAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
32 6 0.17
33 6 0.17
35 1 0.03
36 22 0.63
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (35 bp):
GTAAATCCCCTTCTTCTTTTATTTTAAAATTTCAT
Found at i:38455297 original size:179 final size:177
Alignment explanation
Indices: 38455065--38455614 Score: 609
Period size: 179 Copynumber: 3.1 Consensus size: 177
38455055 ACAACTGCTT
* * * * **
38455065 AGGGAGATAAGATCTTCAAACTT-TAGTCTGCTTCCTTGTTACCTTAGGAAGATAAGACTACAAG
1 AGGGAGATAAAATCTTC-AA-TTCTAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACT-CATT
* * * * * *
38455129 C-AAACTTGCTCTCTTGCTAGCTCAGAGAGATAAAGCTAATGT-CTTAAATCTGCTCCATTACCG
63 CTCAACCTGCTCTCTTGCTA-CTCAGAGAGATAAGGCT-ATGTAATAAAATCTGCTCCATTGCCG
* * *
38455192 ATATATGGAGATAAGATTTATTATCTGCGAAGATCTGCTCCGCTGCAATCTC
126 ATACATGGAGATAAGATTCATTATCTACGAAGATCTGCTCCGCTGCAATCTC
38455244 AGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACTCATTCT
1 AGGGAGATAAAATCTTCAATTCT-AGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACTCATTC-
* * * *
38455309 TCAACCTACTCTCTTGCTACCTCAGAGAAATGAGGCTA-GTAATAAAATCTGCTCCATTGCCAAT
64 TCAACCTGCTCTCTTGCTA-CTCAGAGAGATAAGGCTATGTAATAAAATCTGCTCCATTGCCGAT
* *
38455373 ACATGGAGATAAGATTCATCATCTATGAAGATCTGCTCCGCTGCAA-CTTC
128 ACATGGAGATAAGATTCATTATCTACGAAGATCTGCTCCGCTGCAATC-TC
*
38455423 AGGGAGATAAAATCTTCAATTCTTAGTCTACTTCCTTGCTACCTC-AGAAGGATAAGACTCATTC
1 AGGGAGATAAAATCTTCAATTC-TAGTCTGCTTCCTTGCTACCTCAAGAA-GATAAGACTCATTC
* ** **
38455487 TTCAACCTGCTCTCTTGCTACGTTAGAGAGATAAGGCT-TGGTGGTAAAATCTGCTCCATTGTAG
64 -TCAACCTGCTCTCTTGCTAC-TCAGAGAGATAAGGCTAT-GTAATAAAATCTGCTCCATTGCCG
* * * *
38455551 ATACATGGAGATAAGATTCACTATCTTC--A-ATCTGCTCCACTGCAATTTC
126 ATACATGGAGATAAGATTCATTATCTACGAAGATCTGCTCCGCTGCAATCTC
*
38455600 AGGGAAAT-AAATCTT
1 AGGGAGATAAAATCTT
38455615 GGGCTTAAAC
Statistics
Matches: 320, Mismatches: 39, Indels: 27
0.83 0.10 0.07
Matches are distributed among these distances:
176 7 0.02
177 26 0.08
178 15 0.05
179 199 0.62
180 73 0.23
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (177 bp):
AGGGAGATAAAATCTTCAATTCTAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACTCATTCTC
AACCTGCTCTCTTGCTACTCAGAGAGATAAGGCTATGTAATAAAATCTGCTCCATTGCCGATACA
TGGAGATAAGATTCATTATCTACGAAGATCTGCTCCGCTGCAATCTC
Found at i:38456201 original size:64 final size:64
Alignment explanation
Indices: 38456100--38456230 Score: 210
Period size: 64 Copynumber: 2.0 Consensus size: 64
38456090 TTCATGTATC
* *
38456100 ATGCTTATGCCAAATAATTAGAATGTTATGATCAAAATGAATCAAATGC-TCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGAATGCTATGATAAAAATGAATCAAATGCAT-CTAACTAGATGTG
* *
38456164 ATGCTTATGTCAAATAATTAGAATGCTATGATAAAAATGAATCTAATGCATCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGAATGCTATGATAAAAATGAATCAAATGCATCTAACTAGATGTG
38456228 ATG
1 ATG
38456231 AATGATATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
64 61 0.98
65 1 0.02
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGAATGCTATGATAAAAATGAATCAAATGCATCTAACTAGATGTG
Found at i:38463108 original size:18 final size:18
Alignment explanation
Indices: 38463087--38463121 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38463077 ATACAAATAA
* *
38463087 TACAATTAATATTAACAT
1 TACAAATAATATAAACAT
38463105 TACAAATAATATAAACA
1 TACAAATAATATAAACA
38463122 ATAAAAAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (18 bp):
TACAAATAATATAAACAT
Found at i:38463124 original size:27 final size:27
Alignment explanation
Indices: 38463073--38463124 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
38463063 ATAAGTAACC
**
38463073 AACAATACAAATAATACAATTAATATT
1 AACAATACAAATAATACAAACAATATT
* *
38463100 AACATTACAAATAATATAAACAATA
1 AACAATACAAATAATACAAACAATA
38463125 AAAAACAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (27 bp):
AACAATACAAATAATACAAACAATATT
Found at i:38463881 original size:32 final size:35
Alignment explanation
Indices: 38463845--38463916 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 35
38463835 GACTACTAAG
38463845 GTAAAT-CCCTTC-T-TTTTATTTTAAAATTTCAT
1 GTAAATCCCCTTCTTCTTTTATTTTAAAATTTCAT
*
38463877 GTAAATCCCCTTCTTTCTTTTGTTTTAAAATTTCAT
1 GTAAATCCCCTTC-TTCTTTTATTTTAAAATTTCAT
38463913 GTAA
1 GTAA
38463917 TCCTAAAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
32 6 0.17
33 6 0.17
35 1 0.03
36 22 0.63
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (35 bp):
GTAAATCCCCTTCTTCTTTTATTTTAAAATTTCAT
Found at i:38473690 original size:26 final size:26
Alignment explanation
Indices: 38473659--38473766 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
38473649 TGAAATTCCC
*
38473659 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
38473685 ATCATGGAACATTTATCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
38473711 ATCATGGAATATTTAGCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
38473737 ATCATGGAACATTTACCTAACCCGTT
1 ATCATGGAACATTTACCTAACCCATT
38473763 ATCA
1 ATCA
38473767 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:38479428 original size:26 final size:26
Alignment explanation
Indices: 38479321--38479426 Score: 176
Period size: 26 Copynumber: 4.1 Consensus size: 26
38479311 TGAAATTCCC
*
38479321 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
38479347 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
38479373 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
38479399 ATTATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
38479425 AT
1 AT
38479427 TAATTTGTAC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:38485572 original size:26 final size:26
Alignment explanation
Indices: 38485543--38485650 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
38485533 TGATACAAAT
*
38485543 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
38485569 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38485595 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
38485621 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
38485647 TGAT
1 TGAT
38485651 GGGAATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:38488872 original size:12 final size:12
Alignment explanation
Indices: 38488851--38488881 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
38488841 ACTCGGGGAA
38488851 GAGGCCGTGGTC
1 GAGGCCGTGGTC
*
38488863 GAGGCTGTGGTC
1 GAGGCCGTGGTC
38488875 GAGGCCG
1 GAGGCCG
38488882 AGGTAGTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.23, G:0.52, T:0.16
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:38493788 original size:26 final size:26
Alignment explanation
Indices: 38493759--38493866 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
38493749 TGATACAAAT
* *
38493759 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
38493785 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
38493811 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
38493837 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
38493863 TGAT
1 TGAT
38493867 GGGAATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:38497259 original size:20 final size:20
Alignment explanation
Indices: 38497217--38497259 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
38497207 TTTATATTAA
* *
38497217 ATTATTATTATTTAATAGGT
1 ATTATTATTAGTTAATAGAT
38497237 ATTATTATTAAGTTAA-AGAT
1 ATTATTATT-AGTTAATAGAT
38497257 ATT
1 ATT
38497260 TACTAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (20 bp):
ATTATTATTAGTTAATAGAT
Found at i:38497668 original size:11 final size:12
Alignment explanation
Indices: 38497638--38497671 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
38497628 GTATGTTTAC
38497638 TTATTATATAAG
1 TTATTATATAAG
38497650 TATATTAT-TAAG
1 T-TATTATATAAG
38497662 TTATTATATA
1 TTATTATATA
38497672 TATATAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (12 bp):
TTATTATATAAG
Found at i:38498753 original size:16 final size:16
Alignment explanation
Indices: 38498732--38498765 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
38498722 ATATATAGTT
38498732 AATTAATT-AAAATATG
1 AATTAATTGAAAAT-TG
38498748 AATTAATTGAAAATTG
1 AATTAATTGAAAATTG
38498764 AA
1 AA
38498766 AAGTGAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (16 bp):
AATTAATTGAAAATTG
Found at i:38499234 original size:18 final size:18
Alignment explanation
Indices: 38499220--38499283 Score: 83
Period size: 18 Copynumber: 3.6 Consensus size: 18
38499210 AATTGATTGA
38499220 TACTGAATAACTGATTAT
1 TACTGAATAACTGATTAT
* * *
38499238 TATTGAATAATTGATTGT
1 TACTGAATAACTGATTAT
* *
38499256 TACCGAATAACTGACTAT
1 TACTGAATAACTGATTAT
38499274 TACTGAATAA
1 TACTGAATAA
38499284 ATAATTGTTC
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:38499247 original size:62 final size:62
Alignment explanation
Indices: 38499153--38499269 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 62
38499143 GAATAATTTA
* * * * * *
38499153 ATTGTTACTGTATATCTGATTTTTACTTAATAATTGACTATTACTGGATAACTGATCAATTG
1 ATTGATACTGAATAACTGATTATTACTTAATAATTGACTATTACCGAATAACTGATCAATTG
* *
38499215 ATTGATACTGAATAACTGATTATTA-TTGAATAATTGATTGTTACCGAATAACTGA
1 ATTGATACTGAATAACTGATTATTACTT-AATAATTGACTATTACCGAATAACTGA
38499270 CTATTACTGA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
61 2 0.04
62 44 0.96
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (62 bp):
ATTGATACTGAATAACTGATTATTACTTAATAATTGACTATTACCGAATAACTGATCAATTG
Found at i:38499264 original size:36 final size:36
Alignment explanation
Indices: 38499210--38499292 Score: 112
Period size: 36 Copynumber: 2.3 Consensus size: 36
38499200 ATAACTGATC
* * * *
38499210 AATTGATTGATACTGAATAACTGATTATTATTGAAT
1 AATTGATTGTTACCGAATAACTGACTATTACTGAAT
38499246 AATTGATTGTTACCGAATAACTGACTATTACTGAAT
1 AATTGATTGTTACCGAATAACTGACTATTACTGAAT
* *
38499282 AAATAATTGTT
1 AATTGATTGTT
38499293 CTGATTGACT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (36 bp):
AATTGATTGTTACCGAATAACTGACTATTACTGAAT
Found at i:38499874 original size:13 final size:13
Alignment explanation
Indices: 38499856--38499894 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
38499846 ATATTATAAT
*
38499856 TATTTTGTGTTAA
1 TATTTTATGTTAA
*
38499869 TATTTTATGCTAA
1 TATTTTATGTTAA
38499882 TAATTTTATGTTA
1 T-ATTTTATGTTA
38499895 CAAAATGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.59
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:38501362 original size:40 final size:40
Alignment explanation
Indices: 38501307--38501528 Score: 367
Period size: 40 Copynumber: 5.6 Consensus size: 40
38501297 TATTCGAATG
38501307 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
38501347 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
38501387 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
38501427 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
38501467 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
38501507 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
38501529 TACTTGGGTT
Statistics
Matches: 171, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 14 0.08
40 155 0.91
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:38508375 original size:25 final size:26
Alignment explanation
Indices: 38508347--38508416 Score: 60
Period size: 25 Copynumber: 2.8 Consensus size: 26
38508337 TAAGATATTA
38508347 ATACCAAATGAAAATTTATAATTTC-
1 ATACCAAATGAAAATTTATAATTTCG
38508372 ATACTACAAA--AAATATTTA-AATTTCG
1 ATAC--CAAATGAAA-ATTTATAATTTCG
* *
38508398 A-AACAAATGAACATTTATA
1 ATACCAAATGAAAATTTATA
38508417 GATAGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
23 4 0.11
24 5 0.14
25 17 0.47
26 6 0.17
27 4 0.11
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.33
Consensus pattern (26 bp):
ATACCAAATGAAAATTTATAATTTCG
Found at i:38513872 original size:47 final size:46
Alignment explanation
Indices: 38513753--38513930 Score: 207
Period size: 47 Copynumber: 3.8 Consensus size: 46
38513743 ATAATCTCAC
* * * *
38513753 CCATAATGAGCTCGGAACACAACTCAACGAGCTCGGGTGTTTGCAT
1 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTGCAT
* *
38513799 CCATAATGAACTCAGAACACAACTCAACAAGTTCGGATGCTTGCAT
1 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTGCAT
* *
38513845 CCATAAGTGAACTCGGAACGCAACTCAACGAGTTCGGATGCCT-CAT
1 CCATAA-TGAACTCGGAACACAACTCAACGAGTTCGGATGCTTGCAT
* * *
38513891 -AATTCTCACGAACTCGGAACACAACTCAACGAGTTCGGAT
1 CCA---TAATGAACTCGGAACACAACTCAACGAGTTCGGAT
38513931 CTCAATTTCC
Statistics
Matches: 114, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
45 1 0.01
46 49 0.43
47 62 0.54
48 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTGCAT
Found at i:38518471 original size:67 final size:67
Alignment explanation
Indices: 38518392--38518526 Score: 243
Period size: 67 Copynumber: 2.0 Consensus size: 67
38518382 AATCCTTTTC
*
38518392 AGAGAGCACACTCCCGCAAACCTCATTGCTTACAGTGGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCAAACCTCATTGCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
38518457 TA
66 TA
* *
38518459 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCAAACCTCATTGCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
38518524 TA
66 TA
38518526 A
1 A
38518527 CATATACTCA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCAAACCTCATTGCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
TA
Found at i:38521259 original size:40 final size:40
Alignment explanation
Indices: 38521211--38521398 Score: 322
Period size: 40 Copynumber: 4.7 Consensus size: 40
38521201 GCAAACACAT
* * *
38521211 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
38521251 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
38521291 TTGCCTTCGGGTCATAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
38521331 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
38521371 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
38521399 TCCAATGCTC
Statistics
Matches: 139, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:38525519 original size:28 final size:28
Alignment explanation
Indices: 38525450--38525551 Score: 161
Period size: 28 Copynumber: 3.7 Consensus size: 28
38525440 TGGCCCCTTT
*
38525450 AGGCCCAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
38525478 -CGCCCAATCACATTCATATGGCCTATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
38525505 AGGCCCAATCACATTCATATGGCCCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
38525533 AGGCCCAATCACATTCATA
1 AGGCCCAATCACATTCATA
38525552 GTCATGAAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 24 0.36
28 43 0.64
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:38527164 original size:14 final size:13
Alignment explanation
Indices: 38527144--38527175 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
38527134 TATATATACT
38527144 AAATAAAATAATA
1 AAATAAAATAATA
38527157 ATAATAAAATAATA
1 A-AATAAAATAATA
38527171 AAATA
1 AAATA
38527176 TCTTATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
AAATAAAATAATA
Found at i:38531490 original size:20 final size:20
Alignment explanation
Indices: 38531452--38531489 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
38531442 GGACTAAACC
* *
38531452 GGAAACTTTGGAAACTTTTG
1 GGAAACTTAGAAAACTTTTG
38531472 GGAAACTTAGAAAA-TTTT
1 GGAAACTTAGAAAACTTTT
38531490 TCATGAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.34
Consensus pattern (20 bp):
GGAAACTTAGAAAACTTTTG
Found at i:38534120 original size:22 final size:23
Alignment explanation
Indices: 38534072--38534120 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
38534062 AACTCACCAT
* *
38534072 AGCTTGTATGAGCTTACTGATTC
1 AGCTTGAAAGAGCTTACTGATTC
38534095 AGCTTGAAAGAGCTTACTG-TTC
1 AGCTTGAAAGAGCTTACTGATTC
38534117 AGCT
1 AGCT
38534121 CAATAAAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (23 bp):
AGCTTGAAAGAGCTTACTGATTC
Found at i:38534170 original size:24 final size:22
Alignment explanation
Indices: 38534081--38534183 Score: 66
Period size: 24 Copynumber: 4.4 Consensus size: 22
38534071 TAGCTTGTAT
* *
38534081 GAGCTTACTGATTCAGCTTGAA-A
1 GAGCTTACT-TTTCAGC-TCAATA
*
38534104 GAGCTTACTGTTCAGCTCAATA
1 GAGCTTACTTTTCAGCTCAATA
* * *
38534126 AAGCTTCCCGTTTTCAACTCAATA
1 GAGCTT-AC-TTTTCAGCTCAATA
38534150 GAGCTTACTATTATCAGCTC-ATGAA
1 GAGCTTACT-TT-TCAGCTCAAT--A
38534175 GAGCTTACT
1 GAGCTTACT
38534184 GGCCATATCT
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
21 3 0.05
22 13 0.20
23 15 0.23
24 23 0.36
25 10 0.16
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (22 bp):
GAGCTTACTTTTCAGCTCAATA
Found at i:38539773 original size:10 final size:11
Alignment explanation
Indices: 38539758--38539805 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
38539748 ATTTTGATGT
*
38539758 ACATGATTTG-
1 ACATGATATGC
38539768 ACATGATATGC
1 ACATGATATGC
38539779 ACATGATATG-
1 ACATGATATGC
*
38539789 -TATGATATGC
1 ACATGATATGC
38539799 ACATGAT
1 ACATGAT
38539806 GTATTCATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.25
10 9 0.28
11 15 0.47
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (11 bp):
ACATGATATGC
Found at i:38539920 original size:26 final size:25
Alignment explanation
Indices: 38539852--38539947 Score: 106
Period size: 26 Copynumber: 3.8 Consensus size: 25
38539842 GAGGAAGTGC
* *
38539852 AAAAGGGCTATGCCCCAG-TTACCG
1 AAAAGGGCTTTGCCCCAGTTTACAG
*
38539876 AAAAGAGCTTTGCCCCAGTTTACAG
1 AAAAGGGCTTTGCCCCAGTTTACAG
*
38539901 AAAAGGGCTTTTGCCCCAGTTTCTCA-
1 AAAAGGGC-TTTGCCCCAGTTT-ACAG
*
38539927 AAAAGGGCTTTTTCCCCAGTT
1 AAAAGGGC-TTTGCCCCAGTT
38539948 ATTAAAAGAG
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
24 16 0.25
25 12 0.19
26 33 0.52
27 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACAG
Found at i:38539960 original size:25 final size:26
Alignment explanation
Indices: 38539862--38539960 Score: 77
Period size: 26 Copynumber: 3.9 Consensus size: 26
38539852 AAAAGGGCTA
*
38539862 TGCCCCAGTTAC-CGAAAAGA-GC-TT
1 TGCCCCAGTTTCTC-AAAAGAGGCTTT
**
38539886 TGCCCCAGTTTACAGAAAAG-GGCTTT
1 TGCCCCAGTTT-CTCAAAAGAGGCTTT
38539912 TGCCCCAGTTTCTCAAAA-AGGGCTTT
1 TGCCCCAGTTTCTCAAAAGA-GGCTTT
*
38539938 TTCCCCAGTTAT-T-AAAAGAGGCT
1 TGCCCCAGTT-TCTCAAAAGAGGCT
38539961 AGGCCTCCAG
Statistics
Matches: 62, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
24 10 0.16
25 21 0.34
26 30 0.48
27 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (26 bp):
TGCCCCAGTTTCTCAAAAGAGGCTTT
Found at i:38540205 original size:31 final size:31
Alignment explanation
Indices: 38540167--38540250 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
38540157 TCGTTACAGT
38540167 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
38540198 AAAGGCTTCGGCCCAGTGACATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
38540229 GAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
38540251 CTGAGATTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 4 0.08
31 45 0.92
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:38541699 original size:27 final size:27
Alignment explanation
Indices: 38541669--38541826 Score: 217
Period size: 27 Copynumber: 5.9 Consensus size: 27
38541659 ATTACCAAAG
* * **
38541669 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
38541696 TACCCTCGACTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
38541723 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
38541750 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
38541777 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
38541804 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAAAATTACT
38541827 AAAATACCCT
Statistics
Matches: 117, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:38541765 original size:81 final size:81
Alignment explanation
Indices: 38541669--38541826 Score: 271
Period size: 81 Copynumber: 2.0 Consensus size: 81
38541659 ATTACCAAAG
38541669 TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCGTTTTACCCTCGATT
38541734 TACAAAATTACTGTTT
66 TACAAAATTACTGTTT
* * * * *
38541750 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCGTTTTACCCTCGATT
38541815 TACAAAATTACT
66 TACAAAATTACT
38541827 AAAATACCCT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 72 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCGTTTTACCCTCGATT
TACAAAATTACTGTTT
Found at i:38541834 original size:27 final size:27
Alignment explanation
Indices: 38541624--38542051 Score: 197
Period size: 27 Copynumber: 15.9 Consensus size: 27
38541614 AATACTTTAG
* ** *
38541624 TTTACCAAATTACTGAAATACCCTCAAA
1 TTTACAAAATTACCAAAATACCCTC-GA
* *
38541652 TTT-TAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * ***
38541678 TTTATAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* ****
38541705 CTTACAAAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
*****
38541732 TTTACAAAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * * *** *
38541759 TTTATAGAATTACTATTTTACCCTTGA
1 TTTACAAAATTACCAAAATACCCTCGA
* *****
38541786 TTTACAGAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * *
38541813 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTCGA
38541840 TTTACAAAATTACCAAAATACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * *
38541867 -TCAGTAAAATTACCAAAATACCCTAG-
1 TTTA-CAAAATTACCAAAATACCCTCGA
* ** * *
38541893 TCTGTAAAATTGCTAAAATACCCAT-GA
1 TTTACAAAATTACCAAAATACCC-TCGA
** *
38541920 TTTGTAAAATTACCAAAATACCC-CTA
1 TTTACAAAATTACCAAAATACCCTCGA
** * *
38541946 GTTTGTAAAATTACCAAAATACCAGTAG-
1 -TTTACAAAATTACCAAAATACC-CTCGA
*** * *
38541974 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
**
38542001 TTTGTAAAATTACCAAAATACCC-CTGA
1 TTTACAAAATTACCAAAATACCCTC-GA
*
38542028 TTTACAAAGTTA-CAGAAATACCCT
1 TTTACAAAATTACCA-AAATACCCT
38542052 TGACTTTCTA
Statistics
Matches: 328, Mismatches: 59, Indels: 26
0.79 0.14 0.06
Matches are distributed among these distances:
26 29 0.09
27 296 0.90
28 3 0.01
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.33
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTCGA
Found at i:38541835 original size:81 final size:81
Alignment explanation
Indices: 38541656--38541854 Score: 263
Period size: 81 Copynumber: 2.5 Consensus size: 81
38541646 CTCAAATTTT
* *
38541656 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCGT
1 AAAATTACTAAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCGT
38541721 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
**** * * * * *
38541737 AAAATTACTGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGT
1 AAAATTACTAAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCGT
38541802 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* * * *
38541818 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 AAAATTACTAAAATACCCTCGATTTATAGAATTACCA
38541855 AAATACCCTC
Statistics
Matches: 99, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 99 1.00
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.37
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCGT
TTTACCCTCGATTTAC
Found at i:38541931 original size:80 final size:80
Alignment explanation
Indices: 38541818--38542024 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
38541808 CTCGATTTAC
* **
38541818 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCA
1 AAAATTACTAAAATACCC-TGATTTGTAAAATTACCAAAATACCC-CGAGTCAGTAAAATTACCA
38541882 AAATACC-CTAGTCTGT
64 AAATACCACTAGTCTGT
* * **
38541898 AAAATTGCTAAAATACCCATGATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCC-TGATTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
* *
38541963 AATACCAGTAGTTTGT
65 AATACCACTAGTCTGT
* ** *
38541979 GAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCC
1 AAAATTACTAAAATACCCT-GATTTGTAAAATTACCAAAATACCCC
38542025 TGATTTACAA
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 2 0.02
80 61 0.56
81 46 0.42
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTGATTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAAA
ATACCACTAGTCTGT
Found at i:38541968 original size:54 final size:53
Alignment explanation
Indices: 38541818--38542030 Score: 234
Period size: 54 Copynumber: 4.0 Consensus size: 53
38541808 CTCGATTTAC
* * ** **
38541818 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCC-TCGATCAGT
1 AAAATTACCAAAATACCC-TAGTTTGTAAAATTACCAAAATACCCAT-GATTTGT
* * *
38541872 AAAATTACCAAAATACCCTAGTCTGTAAAATTGCTAAAATACCCATGATTTGT
1 AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCATGATTTGT
38541925 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATA-CCA-GTAGTTTGT
1 AAAATTACCAAAATA-CCCTAGTTTGTAAAATTACCAAAATACCCATG-A-TTTGT
* * * *
38541979 GAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTT
1 AAAATTACCAAAATACCCT-AGTTTGTAAAATTACCAAAATACCCATGATTT
38542031 ACAAAGTTAC
Statistics
Matches: 136, Mismatches: 16, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
52 1 0.01
53 48 0.35
54 83 0.61
55 3 0.02
56 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCATGATTTGT
Found at i:38542101 original size:27 final size:27
Alignment explanation
Indices: 38542062--38542113 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
38542052 TGACTTTCTA
38542062 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
* *
38542089 AAAATTACT-GAAATGCCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
38542114 TTAGATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:38542197 original size:27 final size:27
Alignment explanation
Indices: 38542154--38542227 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
38542144 AAATGACTAA
*
38542154 AATACCCCTATTA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
38542181 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
*
38542208 AATACCCCTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
38542228 TGATGAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 3 0.08
27 35 0.90
28 1 0.03
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:38543292 original size:42 final size:42
Alignment explanation
Indices: 38543233--38543326 Score: 161
Period size: 42 Copynumber: 2.2 Consensus size: 42
38543223 TAGTCTCCCC
* *
38543233 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGGTATTG
1 AAATGGGCCTGCATACATTCATTGATATTTCATGTGGTATTG
*
38543275 AAATGGGCCTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCCTGCATACATTCATTGATATTTCATGTGGTATTG
38543317 AAATGGGCCT
1 AAATGGGCCT
38543327 ATGGGCCATA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (42 bp):
AAATGGGCCTGCATACATTCATTGATATTTCATGTGGTATTG
Found at i:38543387 original size:31 final size:31
Alignment explanation
Indices: 38543348--38543457 Score: 195
Period size: 31 Copynumber: 3.6 Consensus size: 31
38543338 CGTTTACAAT
*
38543348 AAAA-GCTTCGGCCCAGTGATATGATTTATG
1 AAAAGGCTTCGGCCCAGTGATTTGATTTATG
38543378 AAAAGGCTTCGGCCCAGTGATTTGATTTATG
1 AAAAGGCTTCGGCCCAGTGATTTGATTTATG
38543409 AAAAGGCTTCGGCCCAGTGATTTGATTTATG
1 AAAAGGCTTCGGCCCAGTGATTTGATTTATG
*
38543440 AAAAGGCTTCAGCCCAGT
1 AAAAGGCTTCGGCCCAGT
38543458 AATCGTTAAA
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 4 0.05
31 73 0.95
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAAGGCTTCGGCCCAGTGATTTGATTTATG
Found at i:38544217 original size:27 final size:27
Alignment explanation
Indices: 38544184--38544350 Score: 199
Period size: 27 Copynumber: 6.2 Consensus size: 27
38544174 AGATCCGACC
*
38544184 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
38544211 CGATTTATAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
***
38544238 CGATTTACAGAATTATAATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
38544265 TTATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
38544292 TGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
38544319 CGACTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
38544346 CGATT
1 CGATT
38544351 GTGAAATTAC
Statistics
Matches: 121, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 121 1.00
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.43
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:38544341 original size:81 final size:81
Alignment explanation
Indices: 38544186--38544345 Score: 223
Period size: 81 Copynumber: 2.0 Consensus size: 81
38544176 ATCCGACCCG
* * * *
38544186 ATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTACAGAAT
1 ATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTATCATTTTACCCTCGACTTACAAAAT
*
38544251 TATAATTTTACCCTTT
66 TACAATTTTACCCTTT
* *
38544267 ATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTA-CTATTTTACCCTCGACTTACAAAA
1 ATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTATC-ATTTTACCCTCGACTTACAAAA
**
38544331 TTACCGTTTTACCCT
65 TTACAATTTTACCCT
38544346 CGATTGTGAA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 1 0.01
81 68 0.99
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.43
Consensus pattern (81 bp):
ATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTATCATTTTACCCTCGACTTACAAAAT
TACAATTTTACCCTTT
Found at i:38544372 original size:27 final size:26
Alignment explanation
Indices: 38544342--38544484 Score: 101
Period size: 27 Copynumber: 5.3 Consensus size: 26
38544332 TACCGTTTTA
**
38544342 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
* *
38544369 CCCT-ATAGGGTAGAATTACCAAAATAC
1 CCCTGATTGTG-A-AATTACCAAAATAC
* *
38544396 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
* * * *
38544423 CACTGGTTTGTGAAATTATCGAAATA-
1 CCCT-GATTGTGAAATTACCAAAATAC
* *
38544449 CCCTCGATTTATAAAATTACCAAAATAC
1 CCCT-GA-TTGTGAAATTACCAAAATAC
38544477 CCCTGATT
1 CCCTGATT
38544485 TACAAAATTA
Statistics
Matches: 90, Mismatches: 20, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
25 4 0.04
26 7 0.08
27 72 0.80
28 5 0.06
29 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (26 bp):
CCCTGATTGTGAAATTACCAAAATAC
Found at i:38544485 original size:27 final size:27
Alignment explanation
Indices: 38544382--38544494 Score: 122
Period size: 27 Copynumber: 4.2 Consensus size: 27
38544372 TATAGGGTAG
*
38544382 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTATAA
* * * *
38544409 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTGATTTATAA
* *
38544436 AATTATCGAAATA-CCCTCGATTTATAA
1 AATTACCAAAATACCCCT-GATTTATAA
*
38544463 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCTGATTTATAA
38544490 AATTA
1 AATTA
38544495 TAGAAATACC
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
26 3 0.04
27 64 0.90
28 4 0.06
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTATAA
Found at i:38544543 original size:56 final size:53
Alignment explanation
Indices: 38544406--38544583 Score: 160
Period size: 54 Copynumber: 3.3 Consensus size: 53
38544396 CCCTAGTTTG
* *** *
38544406 TAAAATTACCAAAATACCACTGGTTTGTGAAATTATCGAAATACCCTCGATTTA
1 TAAAATTACCAAAATACCACTGATTTACAAAATTAT-GAAATACCCTTGATTTA
* *
38544460 TAAAATTACCAAAATACCCCTGATTTACAAAATTATAGAAATACCCTTGACTTTC
1 TAAAATTACCAAAATACCACTGATTTACAAAATTAT-GAAATACCCTTGA-TTTA
* * * * * *
38544515 TAAAAATTA-TAGAAATACCATTGTTTTACAAAATTACTGAAATGCCCTTGGTTTG
1 T-AAAATTACCA-AAATACCACTGATTTACAAAATTA-TGAAATACCCTTGATTTA
* *
38544570 TAGATTTACCAAAA
1 TAAAATTACCAAAA
38544584 CACCCTTGTA
Statistics
Matches: 101, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
54 51 0.50
55 10 0.10
56 39 0.39
57 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (53 bp):
TAAAATTACCAAAATACCACTGATTTACAAAATTATGAAATACCCTTGATTTA
Found at i:38544556 original size:27 final size:27
Alignment explanation
Indices: 38544435--38544564 Score: 113
Period size: 27 Copynumber: 4.7 Consensus size: 27
38544425 CTGGTTTGTG
* * * *
38544435 AAATTATCGAAATACCCTCGATTTATA
1 AAATTATAGAAATACCCTTGTTTTACA
* * *
38544462 AAATTACCA-AAATACCCCTGATTTACA
1 AAATTA-TAGAAATACCCTTGTTTTACA
38544489 AAATTATAGAAATACCCTTGACTTTCTA-A
1 AAATTATAGAAATACCCTTG--TTT-TACA
*
38544518 AAATTATAGAAATACCATTGTTTTACA
1 AAATTATAGAAATACCCTTGTTTTACA
*
38544545 AAATTACT-GAAATGCCCTTG
1 AAATTA-TAGAAATACCCTTG
38544565 GTTTGTAGAT
Statistics
Matches: 85, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
26 3 0.04
27 57 0.67
28 1 0.01
29 22 0.26
30 2 0.02
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTATAGAAATACCCTTGTTTTACA
Found at i:38559694 original size:21 final size:21
Alignment explanation
Indices: 38559670--38559715 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
38559660 TTGAAGTTTA
38559670 ATGATAGATTATGGAAGCTAG
1 ATGATAGATTATGGAAGCTAG
38559691 ATGATAGATTATGGAAGCTAG
1 ATGATAGATTATGGAAGCTAG
38559712 ATGA
1 ATGA
38559716 CAGCTATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.04, G:0.28, T:0.28
Consensus pattern (21 bp):
ATGATAGATTATGGAAGCTAG
Found at i:38560176 original size:16 final size:17
Alignment explanation
Indices: 38560152--38560184 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
38560142 GTATATAATA
*
38560152 GAATTATTTGAT-ATAT
1 GAATGATTTGATGATAT
38560168 GAATGATTTGATGATAT
1 GAATGATTTGATGATAT
38560185 ATCGAATCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (17 bp):
GAATGATTTGATGATAT
Found at i:38560392 original size:24 final size:23
Alignment explanation
Indices: 38560312--38560410 Score: 80
Period size: 24 Copynumber: 4.2 Consensus size: 23
38560302 TGTATGAGAA
* *
38560312 TACTGATTCAGCTTGAA-AGAGCT
1 TACTGTTTCAGC-TCAATAGAGCT
38560335 TACTG-TTCAGCTCAATAGAGCT
1 TACTGTTTCAGCTCAATAGAGCT
* *
38560357 TCCCAT-TTTCAGCTCAATAGAGTT
1 T-AC-TGTTTCAGCTCAATAGAGCT
38560381 TACTGTTATCAGCTC-ATGAAGAGCT
1 TACTGTT-TCAGCTCAAT--AGAGCT
38560406 TACTG
1 TACTG
38560411 GCCATGTCTC
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
21 3 0.05
22 14 0.22
23 11 0.17
24 25 0.40
25 10 0.16
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (23 bp):
TACTGTTTCAGCTCAATAGAGCT
Found at i:38561775 original size:15 final size:15
Alignment explanation
Indices: 38561755--38561791 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
38561745 ATTTAGCTAT
*
38561755 TATATTTTGTATTTG
1 TATATTTTGTATTTC
38561770 TATATTTT-TATTTC
1 TATATTTTGTATTTC
38561784 TAT-TTTTG
1 TATATTTTG
38561792 GTTTGGATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 8 0.40
15 8 0.40
ACGTcount: A:0.19, C:0.03, G:0.08, T:0.70
Consensus pattern (15 bp):
TATATTTTGTATTTC
Found at i:38562471 original size:59 final size:59
Alignment explanation
Indices: 38562379--38562490 Score: 188
Period size: 59 Copynumber: 1.9 Consensus size: 59
38562369 CACACGGTCG
* *
38562379 TGTGGCTAATGGGGAATTTAGGGATTCCACACGGGCGTGTGTTTTGGGACACATGACCA
1 TGTGGCTAATGGGGAATTTAGGGATTCCACACGGGCATGTGTTTTGAGACACATGACCA
* *
38562438 TGTGGCTAATTGGGAATTTAGGGATTCCACACGGGTATGTGTTTTGAGACACA
1 TGTGGCTAATGGGGAATTTAGGGATTCCACACGGGCATGTGTTTTGAGACACA
38562491 CGGTCGTGTC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.23, C:0.15, G:0.32, T:0.29
Consensus pattern (59 bp):
TGTGGCTAATGGGGAATTTAGGGATTCCACACGGGCATGTGTTTTGAGACACATGACCA
Found at i:38570346 original size:24 final size:24
Alignment explanation
Indices: 38570293--38570346 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
38570283 TTATTAGATG
38570293 TTTTGA-ATGTATTTGAGATTCAA
1 TTTTGATATGTATTTGAGATTCAA
* * *
38570316 TTATGATATG-ATTTGTGATTATAA
1 TTTTGATATGTATTTGAGATT-CAA
38570340 TTTTGAT
1 TTTTGAT
38570347 TCGATAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.30, C:0.02, G:0.17, T:0.52
Consensus pattern (24 bp):
TTTTGATATGTATTTGAGATTCAA
Found at i:38573179 original size:69 final size:69
Alignment explanation
Indices: 38573075--38573297 Score: 261
Period size: 69 Copynumber: 3.2 Consensus size: 69
38573065 TGCACAAACG
* * *
38573075 AGAAAGAGAGGGAGGGAGCATGCTTGGCGGCATGGATTGGAGCTTGGGACAATTACAGATATACA
1 AGAAAGAGAGTGAGGGAGCATGTTTGGCGGCATGGATTGGAGCTTGGGACAATTACAGATAAACA
38573140 AATA
66 AATA
* * * * ** *
38573144 CA-AAAGAGAGTGCGGAAGCATGTTTGGGGGCATGGATTGGAGATTGGGACAATTGTAGATAAAG
1 -AGAAAGAGAGTGAGGGAGCATGTTTGGCGGCATGGATTGGAGCTTGGGACAATTACAGATAAAC
38573208 AAATA
65 AAATA
* * * * *
38573213 AGAAAGAGAGTGTGGGAGCATGTTTGGCGGCATGGATTGGAGCTTTGTACAA-TAGTAGATACAC
1 AGAAAGAGAGTGAGGGAGCATGTTTGGCGGCATGGATTGGAGCTTGGGACAATTA-CAGATAAAC
*
38573277 AAATG
65 AAATA
38573282 AGAAAGAGAGGTGAGG
1 AGAAAGAGA-GTGAGG
38573298 TGTTGAAACC
Statistics
Matches: 129, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
68 2 0.02
69 121 0.94
70 6 0.05
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.21
Consensus pattern (69 bp):
AGAAAGAGAGTGAGGGAGCATGTTTGGCGGCATGGATTGGAGCTTGGGACAATTACAGATAAACA
AATA
Done.