Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 51 of 276
Found at i:15874128 original size:42 final size:42
Alignment explanation
Indices: 15874081--15874185 Score: 147
Period size: 42 Copynumber: 2.5 Consensus size: 42
15874071 ATCCATGGTA
* *
15874081 CCAAACAGTTCTATTCCAGCCCAAAATGCCATATCTCTGCTG
1 CCAAACAGTTCTATTCCAGCCCAAAATGCCATATCTCTACAG
* *
15874123 CCAAACAGTTCTATTCCAGCCCAGAATGTCATATCTCTACAG
1 CCAAACAGTTCTATTCCAGCCCAAAATGCCATATCTCTACAG
* * *
15874165 CCAAACAATCCTATTTCAGCC
1 CCAAACAGTTCTATTCCAGCC
15874186 TTAGAATCCC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.30, C:0.33, G:0.10, T:0.26
Consensus pattern (42 bp):
CCAAACAGTTCTATTCCAGCCCAAAATGCCATATCTCTACAG
Found at i:15875399 original size:9 final size:9
Alignment explanation
Indices: 15875387--15875430 Score: 70
Period size: 9 Copynumber: 4.8 Consensus size: 9
15875377 AATAAAATTT
*
15875387 AAAAAAATA
1 AAAAAAAGA
15875396 AAAAAAAGA
1 AAAAAAAGA
15875405 AAAAAAAGA
1 AAAAAAAGA
15875414 AAAAAAAGA
1 AAAAAAAGA
15875423 AGAAAAAA
1 A-AAAAAA
15875431 ATAAGTACTA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.02
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:15875411 original size:21 final size:21
Alignment explanation
Indices: 15875387--15875431 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
15875377 AATAAAATTT
*
15875387 AAAAA-AATAAAAAAAAGAAA
1 AAAAAGAAAAAAAAAAAGAAA
*
15875407 AAAAAGAAAAAAAAGAAGAAA
1 AAAAAGAAAAAAAAAAAGAAA
15875428 AAAA
1 AAAA
15875432 TAAGTACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.02
Consensus pattern (21 bp):
AAAAAGAAAAAAAAAAAGAAA
Found at i:15878149 original size:47 final size:46
Alignment explanation
Indices: 15878083--15878351 Score: 176
Period size: 47 Copynumber: 5.8 Consensus size: 46
15878073 CACAGCTCTT
* * *
15878083 AGCCGATGCGTGTCTCAGACACGTCTTACACTGGCTATCTC-TCTCG
1 AGCCGATGCATGTCCCAGACAGGTCTTACACTGGCTATCTCATCT-G
* *
15878129 AAGTCGATGCATGTCCCAGACATGTCTTACACTGGC-A-CTCATCTCTG
1 -AGCCGATGCATGTCCCAGACAGGTCTTACACTGGCTATCTCA--TCTG
* * *
15878176 TGCCGATGCCATGTCCCAGACATGGTCTTAGACTGGCTATCAT-AGTATG
1 AGCCGATG-CATGTCCCAGACA-GGTCTTACACTGGCTATC-TCA-TCTG
* * * * * *
15878225 -GCTGACGCATGTCCCAGACATGTCTTACACTAGC--CCTCGTCTG
1 AGCCGATGCATGTCCCAGACAGGTCTTACACTGGCTATCTCATCTG
* * *
15878268 AATGCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 -A-GCCGATGCATGTCCCAGACA-GGTCTTACACTGGCTATC-TCATCTG
** * * *
15878318 -GTTGAAGCATGTCTCAGACATGTCTTACACTGGC
1 AGCCGATGCATGTCCCAGACAGGTCTTACACTGGC
15878352 GCACAAATCA
Statistics
Matches: 175, Mismatches: 31, Indels: 33
0.73 0.13 0.14
Matches are distributed among these distances:
43 4 0.02
44 1 0.01
45 3 0.02
46 49 0.28
47 86 0.49
48 20 0.11
49 5 0.03
50 6 0.03
51 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (46 bp):
AGCCGATGCATGTCCCAGACAGGTCTTACACTGGCTATCTCATCTG
Found at i:15878152 original size:91 final size:94
Alignment explanation
Indices: 15877989--15878306 Score: 250
Period size: 94 Copynumber: 3.4 Consensus size: 94
15877979 TGGGATATAT
* * * * *
15877989 TGCCGATGCCATGCCCCAGACATGGTCTTACATTGGC--TCTCATACACG-CGTGCTGATGCATG
1 TGCCGATGCCATGTCCCAGACATCGTCTTACACTGGCTATCTC-T-CTCGAAGT-C-GATGCATG
* *
15878051 TCCTACACATGTCTTACTCTAGCA-CAGCTCT-
62 TCCCACACATGTCTTACACTAGCACCAGCTCTG
* *
15878082 TAGCCGATG-CGTGTCTCAGACA-CGTCTTACACTGGCTATCTCTCTCGAAGTCGATGCATGTCC
1 T-GCCGATGCCATGTCCCAGACATCGTCTTACACTGGCTATCTCTCTCGAAGTCGATGCATGTCC
* * *
15878145 CAGACATGTCTTACACTGGCACTCATCTCTG
65 CACACATGTCTTACACTAGCAC-CAGCTCTG
* * * * *
15878176 TGCCGATGCCATGTCCCAGACATGGTCTTAGACTGGCTATCATAGTAT-G--G-CTGACGCATGT
1 TGCCGATGCCATGTCCCAGACATCGTCTTACACTGGCTATC-T-CTCTCGAAGTC-GATGCATGT
* *
15878237 CCCAGACATGTCTTACACTAGC-CC-TCGTCTG
63 CCCACACATGTCTTACACTAGCACCAGC-TCTG
*
15878268 AATGCCGATG-CATGTCCCAGACATGGTCTTACACTGGCT
1 --TGCCGATGCCATGTCCCAGACATCGTCTTACACTGGCT
15878307 CTCATAATGT
Statistics
Matches: 189, Mismatches: 21, Indels: 30
0.79 0.09 0.12
Matches are distributed among these distances:
91 30 0.16
92 21 0.11
93 57 0.30
94 61 0.32
95 16 0.08
96 2 0.01
97 2 0.01
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.28
Consensus pattern (94 bp):
TGCCGATGCCATGTCCCAGACATCGTCTTACACTGGCTATCTCTCTCGAAGTCGATGCATGTCCC
ACACATGTCTTACACTAGCACCAGCTCTG
Found at i:15878328 original size:93 final size:93
Alignment explanation
Indices: 15877989--15878348 Score: 342
Period size: 93 Copynumber: 3.9 Consensus size: 93
15877979 TGGGATATAT
* * * *
15877989 TGCCGATGCCATGCCCCAGACATGGTCTTACATTGGCTCTCATACACGCGTGCTGATGCATGTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGTG-GCTGATGCATGTCC
* * * *
15878054 TACACATGTCTTACTCTAGCAC-AGCTCTTA
64 CAGACATGTCTTACACTAGCACTCG-TCTTA
* * * *
15878084 -GCCGATG-CGTGTCTCAGACA-CGTCTTACACTGGCTATCTCTCTCGAA-GT--C-GATGCATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTC-AT--AATGTGGCTGATGCATG
* * *
15878142 TCCCAGACATGTCTTACACTGGCACTCATCTCTG
61 TCCCAGACATGTCTTACACTAGCACTCGTCT-TA
* * * * *
15878176 TGCCGATGCCATGTCCCAGACATGGTCTTAGACTGGCTATCATAGTATGGCTGACGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCATGTCCCA
* *
15878241 GACATGTCTTACACTAGCCCTCGTCTGAA
66 GACATGTCTTACACTAGCACTCGTCT-TA
* * *
15878270 TGCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTTGAAGCATGTCTCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCATGTCCCA
15878334 GACATGTCTTACACT
66 GACATGTCTTACACT
15878349 GGCGCACAAA
Statistics
Matches: 215, Mismatches: 36, Indels: 30
0.77 0.13 0.11
Matches are distributed among these distances:
90 1 0.00
91 33 0.15
92 15 0.07
93 85 0.40
94 65 0.30
95 14 0.07
96 1 0.00
97 1 0.00
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.28
Consensus pattern (93 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCATGTCCCA
GACATGTCTTACACTAGCACTCGTCTTA
Found at i:15885550 original size:48 final size:49
Alignment explanation
Indices: 15885475--15885704 Score: 208
Period size: 47 Copynumber: 4.8 Consensus size: 49
15885465 GATATATTTT
**
15885475 CGATGCCATG-CCCTAGACATGGTCTTACACTGGCTCTCATACACGCGTGC
1 CGATGCCATGTCCC-AGACATGGTCTTACACTGGCTCTCAT-CACGTATGC
* ** * *
15885525 TGATG-CATGTCCCAGACAT-GTCTTACACTGGAACTCATCTC-TGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCACGTATGC
* * * *
15885571 CGATGCCATGTCCCAAACATGGTCTTACACTCGCTATCAT-A-GTATGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCACGTATGC
* * * * * * *
15885618 CTA-ACGCATGTCCCAGACAT-GTCTTACACTAGCCCTCGTC-TGAATGC
1 CGATGC-CATGTCCCAGACATGGTCTTACACTGGCTCTCATCACGTATGC
15885665 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
15885705 AATGTGGCCG
Statistics
Matches: 143, Mismatches: 28, Indels: 20
0.75 0.15 0.10
Matches are distributed among these distances:
46 24 0.17
47 53 0.37
48 49 0.34
49 10 0.07
50 7 0.05
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCACGTATGC
Found at i:15885666 original size:94 final size:94
Alignment explanation
Indices: 15885529--15885705 Score: 264
Period size: 94 Copynumber: 1.9 Consensus size: 94
15885519 GCGTGCTGAT
* **
15885529 GCATGTCCCAGACATGTCTTACACTGGAACTCATCTCTGTGCCGATGCCATGTCCCAAACATGGT
1 GCATGTCCCAGACATGTCTTACACTAGAACTCATCTCAATGCCGATGCCATGTCCCAAACATGGT
15885594 CTTACACTCGCTATCATAGTATGGCTAAC
66 CTTACACTCGCTATCATAGTATGGCTAAC
** * * *
15885623 GCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTGAATGCCGATGCCATGTCCCAGACATGGT
1 GCATGTCCCAGACATGTCTTACACTAGAACTCATCTCAATGCCGATGCCATGTCCCAAACATGGT
* *
15885688 CTTACACTGGCTCTCATA
66 CTTACACTCGCTATCATA
15885706 ATGTGGCCGA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 73 1.00
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (94 bp):
GCATGTCCCAGACATGTCTTACACTAGAACTCATCTCAATGCCGATGCCATGTCCCAAACATGGT
CTTACACTCGCTATCATAGTATGGCTAAC
Found at i:15885715 original size:48 final size:48
Alignment explanation
Indices: 15885475--15885715 Score: 201
Period size: 48 Copynumber: 5.1 Consensus size: 48
15885465 GATATATTTT
* *
15885475 CGATGCCATG-CCCTAGACATGGTCTTACACTGGCTCTCATACACGCGTGC
1 CGATGCCATGTCCC-AGACATGGTCTTACACTGGCTCTCATA-ATGTG-GC
* ** * *
15885525 TGATG-CATGTCCCAGACAT-GTCTTACACTGGAACTCAT-CTCTGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG-GC
* * * * *
15885571 CGATGCCATGTCCCAAACATGGTCTTACACTCGCTATCATAGTATGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC
** * * * * *
15885619 TAACG-CATGTCCCAGACAT-GTCTTACACTAGCCCTCGT-CTGAAT-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATG--TGGC
15885665 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC
15885713 CGA
1 CGA
15885716 AGGTAAACAT
Statistics
Matches: 149, Mismatches: 32, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
45 1 0.01
46 27 0.18
47 42 0.28
48 57 0.38
49 15 0.10
50 7 0.05
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC
Found at i:15891556 original size:17 final size:17
Alignment explanation
Indices: 15891534--15891575 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
15891524 GTGGCATGTA
15891534 TGGCTAGACTTGTACTC
1 TGGCTAGACTTGTACTC
15891551 TGGCTAGACTTGTACTC
1 TGGCTAGACTTGTACTC
*
15891568 TGGTTAGA
1 TGGCTAGA
15891576 TTAGTCCTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (17 bp):
TGGCTAGACTTGTACTC
Found at i:15892975 original size:47 final size:46
Alignment explanation
Indices: 15892869--15893136 Score: 167
Period size: 47 Copynumber: 5.7 Consensus size: 46
15892859 GGATATATTT
15892869 CCGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCTCTGTCGAGG
1 CCGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCTCTGT---GG
15892918 CCGATG-CATGTCCTAGACAT-GTCTTACACTGGAACTCATCTCTGT-G
1 CCGATGCCATGTCCTAGACATGGTCTTACACTGG--CT-ATCTCTGTGG
* * * *
15892964 CCGATGCCATGTCCCAGGCATGGTCTTACA-TGGGCTATCATATTATGG
1 CCGATGCCATGTCCTAGACATGGTCTTACACT-GGCTATC-T-CTGTGG
* * * * * * ** *
15893012 CTGACG-CATGTCCCAAACAT-GTCTTACATTAGCCCTCGTTTGAAT-G
1 CCGATGCCATGTCCTAGACATGGTCTTACACTGGCTATC-TCTG--TGG
* * * *
15893058 CCGATGCCCTGTCCCAGACATGGTCTTACACTGGCTCTCTTAATGTGG
1 CCGATGCCATGTCCTAGACATGGTCTTACACTGGCTATC-T-CTGTGG
* * *
15893106 CTGAAG-CATGTCCCAGACAT-GTCTTACACTG
1 CCGATGCCATGTCCTAGACATGGTCTTACACTG
15893137 ACGCACAAAT
Statistics
Matches: 178, Mismatches: 25, Indels: 35
0.75 0.11 0.15
Matches are distributed among these distances:
45 5 0.03
46 39 0.22
47 67 0.38
48 49 0.28
49 10 0.06
50 8 0.04
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (46 bp):
CCGATGCCATGTCCTAGACATGGTCTTACACTGGCTATCTCTGTGG
Found at i:15893071 original size:94 final size:94
Alignment explanation
Indices: 15892869--15893133 Score: 261
Period size: 94 Copynumber: 2.8 Consensus size: 94
15892859 GGATATATTT
* * * * * *
15892869 CCGATGCCATGTCCTAGACATGGTCTTACACTGGCTATC-T-CTGTCGAGGCCGATGCATGTCCT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATAT---GGCTGAAGCATGTCCC
* * * ** *
15892932 AGACATGTCTTACACTGGAACTCATCTCTG--TG
63 AAACATGTCTTACATTAGCCCTCGT-T-TGAATG
* * *
15892964 CCGATGCCATGTCCCAGGCATGGTCTTACA-TGGGCTATCATATTATGGCTGACGCATGTCCCAA
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-GGCTATCATAATATGGCTGAAGCATGTCCCAA
15893028 ACATGTCTTACATTAGCCCTCGTTTGAATG
65 ACATGTCTTACATTAGCCCTCGTTTGAATG
* * * * *
15893058 CCGATGCCCTGTCCCAGACATGGTCTTACACTGGCTCTCTTAATGTGGCTGAAGCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATATGGCTGAAGCATGTCCCAAA
15893123 CATGTCTTACA
66 CATGTCTTACA
15893134 CTGACGCACA
Statistics
Matches: 143, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
92 2 0.01
93 1 0.01
94 101 0.71
95 36 0.25
96 1 0.01
97 2 0.01
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (94 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATATGGCTGAAGCATGTCCCAAA
CATGTCTTACATTAGCCCTCGTTTGAATG
Found at i:15901330 original size:38 final size:38
Alignment explanation
Indices: 15901280--15901360 Score: 119
Period size: 39 Copynumber: 2.1 Consensus size: 38
15901270 AGTTTCCAAA
*
15901280 AATAGTAGAGGATTTTCCTCAA-TAGAAAATATTCTAC
1 AATAGTAGAGGATTTTCCTCAACTAGAAAATACTCTAC
* *
15901317 AATAGTAAGAGGATTTTCCTCAACTGGAAAATACTCTAT
1 AATAGT-AGAGGATTTTCCTCAACTAGAAAATACTCTAC
15901356 AATAG
1 AATAG
15901361 AAATTATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
37 6 0.15
38 16 0.41
39 17 0.44
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.31
Consensus pattern (38 bp):
AATAGTAGAGGATTTTCCTCAACTAGAAAATACTCTAC
Found at i:15903969 original size:21 final size:21
Alignment explanation
Indices: 15903943--15904161 Score: 170
Period size: 21 Copynumber: 10.4 Consensus size: 21
15903933 GCTCGTAAGC
*
15903943 TGAACAGAAACTCTTAAGAGT
1 TGAACAGAAACTCATAAGAGT
* *
15903964 TGAACAGAAGCTCATAAGAGC
1 TGAACAGAAACTCATAAGAGT
*
15903985 TGAATAGAAACTCATAAGAGT
1 TGAACAGAAACTCATAAGAGT
* * *
15904006 TGAACAGAAGCTCGTAAGAGC
1 TGAACAGAAACTCATAAGAGT
* ** *
15904027 TAAACAGAAACTTGTATGAGT
1 TGAACAGAAACTCATAAGAGT
* * * * * *
15904048 TAAATAGAAGCTCTTAAAAGC
1 TGAACAGAAACTCATAAGAGT
15904069 TGAACAGAAACTCATAAGAGT
1 TGAACAGAAACTCATAAGAGT
* *
15904090 TGAACAGAAGCTCA-ATAGAGC
1 TGAACAGAAACTCATA-AGAGT
* * *
15904111 TAAACAGAAACTTATAAAAGT
1 TGAACAGAAACTCATAAGAGT
* * * * *
15904132 TAAACAGCAGCTCGTAAGAGC
1 TGAACAGAAACTCATAAGAGT
*
15904153 TAAACAGAA
1 TGAACAGAA
15904162 GGTAAAACAC
Statistics
Matches: 154, Mismatches: 42, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
20 1 0.01
21 152 0.99
22 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.20
Consensus pattern (21 bp):
TGAACAGAAACTCATAAGAGT
Found at i:15903994 original size:42 final size:42
Alignment explanation
Indices: 15903926--15904161 Score: 266
Period size: 42 Copynumber: 5.7 Consensus size: 42
15903916 GTACATCATT
15903926 AACAGAAGCTCGT-A-AGCTGAACAGAAACTCTTAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTGAACAGAAACTCTTAAGAGTTG
* * *
15903966 AACAGAAGCTCATAAGAGCTGAATAGAAACTCATAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTGAACAGAAACTCTTAAGAGTTG
* * *
15904008 AACAGAAGCTCGTAAGAGCTAAACAGAAACT-TGTATGAGTTA
1 AACAGAAGCTCGTAAGAGCTGAACAGAAACTCT-TAAGAGTTG
* * * *
15904050 AATAGAAGCTCTTAAAAGCTGAACAGAAACTCATAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTGAACAGAAACTCTTAAGAGTTG
* * * *
15904092 AACAGAAGCTC-AATAGAGCTAAACAGAAACT-TATAAAAGTTA
1 AACAGAAGCTCGTA-AGAGCTGAACAGAAACTCT-TAAGAGTTG
* *
15904134 AACAGCAGCTCGTAAGAGCTAAACAGAA
1 AACAGAAGCTCGTAAGAGCTGAACAGAA
15904162 GGTAAAACAC
Statistics
Matches: 164, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
40 12 0.07
41 2 0.01
42 149 0.91
43 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.19
Consensus pattern (42 bp):
AACAGAAGCTCGTAAGAGCTGAACAGAAACTCTTAAGAGTTG
Found at i:15904070 original size:84 final size:83
Alignment explanation
Indices: 15903926--15904161 Score: 298
Period size: 84 Copynumber: 2.8 Consensus size: 83
15903916 GTACATCATT
* * *
15903926 AACAGAAGCTCGT-A-AGCTGAACAGAAACTCTTAAGAGTTGAACAGAAGCTCATAAGAGCTGAA
1 AACAGAAGCTCGTAAGAGCTAAACAGAAACT-TTAAGAGTTAAACAGAAGCTCATAAAAGCTGAA
*
15903989 TAGAAACTCATAAGAGTTG
65 CAGAAACTCATAAGAGTTG
* * *
15904008 AACAGAAGCTCGTAAGAGCTAAACAGAAACTTGTATGAGTTAAATAGAAGCTCTTAAAAGCTGAA
1 AACAGAAGCTCGTAAGAGCTAAACAGAAACTT-TAAGAGTTAAACAGAAGCTCATAAAAGCTGAA
15904073 CAGAAACTCATAAGAGTTG
65 CAGAAACTCATAAGAGTTG
* * * * * *
15904092 AACAGAAGCTC-AATAGAGCTAAACAGAAACTTATAAAAGTTAAACAGCAGCTCGTAAGAGCTAA
1 AACAGAAGCTCGTA-AGAGCTAAACAGAAACTT-TAAGAGTTAAACAGAAGCTCATAAAAGCTGA
15904156 ACAGAA
64 ACAGAA
15904162 GGTAAAACAC
Statistics
Matches: 134, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
82 13 0.10
83 3 0.02
84 118 0.88
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.19
Consensus pattern (83 bp):
AACAGAAGCTCGTAAGAGCTAAACAGAAACTTTAAGAGTTAAACAGAAGCTCATAAAAGCTGAAC
AGAAACTCATAAGAGTTG
Found at i:15913056 original size:18 final size:18
Alignment explanation
Indices: 15913033--15913077 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
15913023 AAATAAGAAG
15913033 GGTTTTCAATGAAAACAT
1 GGTTTTCAATGAAAACAT
15913051 GGTTTTCAATGAAAACAT
1 GGTTTTCAATGAAAACAT
15913069 GGTTTTCAA
1 GGTTTTCAA
15913078 AAAACACTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAT
Found at i:15915912 original size:20 final size:20
Alignment explanation
Indices: 15915869--15915913 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
15915859 GTAATGGTTT
15915869 ATTTTA-ATATTAAAATATA
1 ATTTTATATATTAAAATATA
*
15915888 A-TTTATATATTTAAAT-TAA
1 ATTTTATATATTAAAATAT-A
15915907 ATTTTAT
1 ATTTTAT
15915914 CAATAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 5 0.23
19 12 0.55
20 5 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTTATATATTAAAATATA
Found at i:15917336 original size:30 final size:29
Alignment explanation
Indices: 15917260--15917337 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
15917250 AACTTCGATT
*
15917260 AAAATAACAAAATAGTCACTAAACTTTGA
1 AAAATAACAAACTAGTCACTAAACTTTGA
* *
15917289 AAAGTTAC-AACTTAGTCACTAAACTTTAGA
1 AAAATAACAAAC-TAGTCACTAAACTTT-GA
*
15917319 AAAATAACAAACCAGTCAC
1 AAAATAACAAACTAGTCAC
15917338 CAGTAACCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 2 0.05
29 21 0.52
30 14 0.35
31 3 0.08
ACGTcount: A:0.51, C:0.18, G:0.08, T:0.23
Consensus pattern (29 bp):
AAAATAACAAACTAGTCACTAAACTTTGA
Found at i:15917461 original size:3 final size:3
Alignment explanation
Indices: 15917453--15918241 Score: 1578
Period size: 3 Copynumber: 263.0 Consensus size: 3
15917443 TGGTCTGGGC
15917453 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
15917501 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
15917549 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
15917597 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
15917645 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
15917693 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
15917741 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
15917789 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
15917837 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
15917885 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
15917933 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
15917981 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
15918029 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
15918077 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
15918125 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
15918173 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
15918221 AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA
15918242 GAATGAATGG
Statistics
Matches: 786, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 786 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:15919039 original size:96 final size:96
Alignment explanation
Indices: 15918875--15919257 Score: 750
Period size: 96 Copynumber: 4.0 Consensus size: 96
15918865 CAAAAAGAAA
15918875 ATCATAGAATTAGGCCAAATTTGCCTACAATTCAGTACAATTGAACTTAGTTGAATTGTAGGTAA
1 ATCATAGAATTAGGCCAAATTTGCCTACAATTCAGTACAATTGAACTTAGTTGAATTGTAGGTAA
15918940 TTTTTTTTTTTAAAAAAATGTAACTATTTGG
66 TTTTTTTTTTTAAAAAAATGTAACTATTTGG
15918971 ATCATAGAATTAGGCCAAATTTGCCTACAATTCAGTACAATTGAACTTAGTTGAATTGTAGGTAA
1 ATCATAGAATTAGGCCAAATTTGCCTACAATTCAGTACAATTGAACTTAGTTGAATTGTAGGTAA
15919036 TTTTTTTTTTTAAAAAAATGTAACTATTTGG
66 TTTTTTTTTTTAAAAAAATGTAACTATTTGG
15919067 ATCATAGAATTAGGCCAAATTTGCCTACAATTCAGTACAATTGAACTTAGTTGAATTGTAGGTAA
1 ATCATAGAATTAGGCCAAATTTGCCTACAATTCAGTACAATTGAACTTAGTTGAATTGTAGGTAA
15919132 TTTTTTTTTTTAAAAAAATGTAACTATTTGG
66 TTTTTTTTTTTAAAAAAATGTAACTATTTGG
15919163 ATCATAGAATTAGGCCAAATTTGCCTACAATTCAGTACAATTGAACTTAGTTGAATTGTAGGTAA
1 ATCATAGAATTAGGCCAAATTTGCCTACAATTCAGTACAATTGAACTTAGTTGAATTGTAGGTAA
*
15919228 -TTTTTTTTTAAAAAAAATGTAACTATTTGG
66 TTTTTTTTTTTAAAAAAATGTAACTATTTGG
15919258 CTAAGGTTAG
Statistics
Matches: 286, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
95 29 0.10
96 257 0.90
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (96 bp):
ATCATAGAATTAGGCCAAATTTGCCTACAATTCAGTACAATTGAACTTAGTTGAATTGTAGGTAA
TTTTTTTTTTTAAAAAAATGTAACTATTTGG
Found at i:15923264 original size:15 final size:14
Alignment explanation
Indices: 15923240--15923390 Score: 55
Period size: 15 Copynumber: 10.4 Consensus size: 14
15923230 TTTTATATAC
15923240 TAATAAATAATAAA
1 TAATAAATAATAAA
*
15923254 TAATGAAATAATATA
1 TAAT-AAATAATAAA
**
15923269 TAATAAA-AGGAAGA
1 TAATAAATAATAA-A
***
15923283 TAAT--ATAGGGAA
1 TAATAAATAATAAA
*
15923295 TAATATATAATAAAA
1 TAATAAATAAT-AAA
*
15923310 TATGATATATAATAAAA
1 TA--ATAAATAAT-AAA
15923327 TATATAAATAA-AATA
1 TA-ATAAATAATAA-A
15923342 TAATGAAAT-ATAAA
1 TAAT-AAATAATAAA
*
15923356 TAATATGATAA-AATA
1 TAATA-AATAATAA-A
15923371 TCATATAAATAA-AAA
1 T-A-ATAAATAATAAA
15923386 TAATA
1 TAATA
15923391 TATACTATTT
Statistics
Matches: 109, Mismatches: 12, Indels: 33
0.71 0.08 0.21
Matches are distributed among these distances:
12 6 0.06
13 10 0.09
14 30 0.28
15 31 0.28
16 14 0.13
17 18 0.17
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.30
Consensus pattern (14 bp):
TAATAAATAATAAA
Found at i:15923274 original size:29 final size:28
Alignment explanation
Indices: 15923234--15923394 Score: 80
Period size: 29 Copynumber: 5.2 Consensus size: 28
15923224 TTTAATTTTT
15923234 ATATACTAATAAATAATAAATAATGAAATA
1 ATATA-TAATAAATAATAAATAAT-AAATA
**
15923264 ATATATAATAAA-AGGAAGATAATATAGGGAATA
1 ATATATAATAAATAATAA-AT-A-ATA---AATA
*
15923297 ATATATAATAAAATATGATATATAATAAAATA
1 ATATATAAT-AAATA--ATAAATAAT-AAATA
*
15923329 TATAAATAA-AATATAATGAAAT-ATAAATA
1 -ATATATAATAA-ATAAT-AAATAATAAATA
15923358 ATATGATAA-AATATCATATAAATAA-AAATA
1 ATAT-ATAATAA-AT-A-ATAAATAATAAATA
15923388 ATATATA
1 ATATATA
15923395 CTATTTTTAT
Statistics
Matches: 105, Mismatches: 8, Indels: 37
0.70 0.05 0.25
Matches are distributed among these distances:
28 6 0.06
29 26 0.25
30 25 0.24
31 10 0.10
32 7 0.07
33 20 0.19
34 5 0.05
35 3 0.03
36 2 0.02
37 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.30
Consensus pattern (28 bp):
ATATATAATAAATAATAAATAATAAATA
Found at i:15923312 original size:10 final size:10
Alignment explanation
Indices: 15923293--15923381 Score: 60
Period size: 10 Copynumber: 8.9 Consensus size: 10
15923283 TAATATAGGG
*
15923293 AATAATATAT
1 AATAAAATAT
15923303 AATAAAATAT
1 AATAAAATAT
*
15923313 GAT---ATAT
1 AATAAAATAT
15923320 AATAAAATATAT
1 AAT-AAA-ATAT
15923332 AAATAAAATAT
1 -AATAAAATAT
*
15923343 AATGAAATAT
1 AATAAAATAT
*
15923353 AA-ATAATAT
1 AATAAAATAT
*
15923362 GATAAAATAT
1 AATAAAATAT
*
15923372 CATATAAATA
1 AATA-AAATA
15923382 AAAATAATAT
Statistics
Matches: 62, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
7 6 0.10
9 6 0.10
10 31 0.50
11 9 0.15
12 7 0.11
13 3 0.05
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (10 bp):
AATAAAATAT
Found at i:15923319 original size:17 final size:16
Alignment explanation
Indices: 15923297--15923365 Score: 68
Period size: 17 Copynumber: 4.2 Consensus size: 16
15923287 ATAGGGAATA
15923297 ATATATAATAAAATATG
1 ATATATAA-AAAATATG
15923314 ATATATAATAAAATAT-
1 ATATATAA-AAAATATG
* *
15923330 ATAAATAAAATATAATG
1 ATATATAAAAAAT-ATG
* *
15923347 AAATATAAATAATATG
1 ATATATAAAAAATATG
15923363 ATA
1 ATA
15923366 AAATATCATA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
15 4 0.09
16 14 0.33
17 25 0.58
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (16 bp):
ATATATAAAAAATATG
Found at i:15923337 original size:40 final size:42
Alignment explanation
Indices: 15923293--15923390 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 42
15923283 TAATATAGGG
* *
15923293 AATAATATATAATAAAATAT-GAT-ATATAATAAAATATATA
1 AATAAAATATAATAAAATATAAATAATATAATAAAATATATA
* *
15923333 AATAAAATATAATGAAATATAAATAATATGATAAAATATCATATA
1 AATAAAATATAATAAAATATAAATAATATAAT-AAA-AT-ATATA
15923378 AATAAAA-ATAATA
1 AATAAAATATAATA
15923391 TATACTATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
40 18 0.38
41 2 0.04
42 6 0.12
43 3 0.06
44 7 0.15
45 12 0.25
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (42 bp):
AATAAAATATAATAAAATATAAATAATATAATAAAATATATA
Found at i:15923369 original size:19 final size:20
Alignment explanation
Indices: 15923293--15923381 Score: 69
Period size: 19 Copynumber: 4.4 Consensus size: 20
15923283 TAATATAGGG
15923293 AATAATATATAATAAAATAT-
1 AATAA-ATATAATAAAATATA
*
15923313 GAT--ATATAATAAAATATATA
1 AATAAATATAAT-AAA-ATATA
*
15923333 AATAAAATATAATGAAATATA
1 AAT-AAATATAATAAAATATA
*
15923354 AAT-AATATGATAAAATATCA
1 AATAAATATAATAAAATAT-A
*
15923374 TATAAATA
1 AATAAATA
15923382 AAAATAATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
17 7 0.13
18 3 0.05
19 17 0.31
20 7 0.13
21 12 0.22
22 2 0.04
23 7 0.13
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (20 bp):
AATAAATATAATAAAATATA
Found at i:15923387 original size:30 final size:29
Alignment explanation
Indices: 15923299--15923392 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 29
15923289 AGGGAATAAT
15923299 ATATAATAAAATATGATATATAAT-AAAAT-
1 ATATAATAAAATAT-ATATA-AATAAAAATA
*
15923328 ATATAAATAAAATATA-ATGAAATATAAATA
1 ATAT-AATAAAATATATAT-AAATAAAAATA
*
15923358 ATATGATAAAATATCATATAAATAAAAATA
1 ATATAATAAAATAT-ATATAAATAAAAATA
15923388 ATATA
1 ATATA
15923393 TACTATTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
28 5 0.09
29 19 0.35
30 29 0.53
31 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (29 bp):
ATATAATAAAATATATATAAATAAAAATA
Found at i:15923393 original size:17 final size:15
Alignment explanation
Indices: 15923297--15923394 Score: 82
Period size: 15 Copynumber: 6.5 Consensus size: 15
15923287 ATAGGGAATA
15923297 ATATAT-AATAAAAT
1 ATATATAAATAAAAT
15923311 ATGATATATAAT-AAA-
1 AT-ATATA-AATAAAAT
15923326 ATATATAAATAAAAT
1 ATATATAAATAAAAT
15923341 ATA-ATGAAATATAAAT
1 ATATAT-AAATA-AAAT
*
15923357 A-ATAT-GATAAAAT
1 ATATATAAATAAAAT
15923370 ATCATATAAATAAAAAT
1 AT-ATATAAAT-AAAAT
15923387 AATATATA
1 -ATATATA
15923395 CTATTTTTAT
Statistics
Matches: 69, Mismatches: 2, Indels: 23
0.73 0.02 0.24
Matches are distributed among these distances:
13 8 0.12
14 15 0.22
15 19 0.28
16 12 0.17
17 13 0.19
18 2 0.03
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (15 bp):
ATATATAAATAAAAT
Found at i:15926076 original size:13 final size:13
Alignment explanation
Indices: 15926019--15926078 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
15926009 AAGGTTATGA
15926019 GTTTGAGTTTAGG
1 GTTTGAGTTTAGG
*
15926032 GTTTTG-GCTTAGG
1 G-TTTGAGTTTAGG
* *
15926045 GTTTAAGGTTTATG
1 GTTTGA-GTTTAGG
*
15926059 ATTTGAGTTTAGG
1 GTTTGAGTTTAGG
15926072 GTTTGAG
1 GTTTGAG
15926079 ATTTTAAGTT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
12 3 0.08
13 20 0.56
14 13 0.36
ACGTcount: A:0.17, C:0.02, G:0.35, T:0.47
Consensus pattern (13 bp):
GTTTGAGTTTAGG
Found at i:15926081 original size:20 final size:20
Alignment explanation
Indices: 15926005--15926096 Score: 73
Period size: 20 Copynumber: 4.5 Consensus size: 20
15925995 GGTTGAAAGG
15926005 GTTTAAGGTTATGAG-TTTGA
1 GTTTAAGGTT-TGAGATTTGA
* * * *
15926025 GTTTAGGGTTTTG-GCTTAGG
1 GTTTAAGG-TTTGAGATTTGA
15926045 GTTTAAGGTTT-ATGATTTGA
1 GTTTAAGGTTTGA-GATTTGA
* *
15926065 GTTTAGGGTTTGAGATTTTAA
1 GTTTAAGGTTTGAGA-TTTGA
15926086 GTTTAAGGTTT
1 GTTTAAGGTTT
15926097 AAGAATTATG
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
19 4 0.07
20 35 0.62
21 17 0.30
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.48
Consensus pattern (20 bp):
GTTTAAGGTTTGAGATTTGA
Found at i:15926147 original size:28 final size:29
Alignment explanation
Indices: 15926116--15926186 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 29
15926106 GTGTTATAGA
* * *
15926116 TTAGGGTTTAG-GCTTTTAGGTTTGTTGT
1 TTAGGGTTTAGAGATTTTAGATTTGGTGT
15926144 TTAGGGTTT-GAGATTTTAGATTTGGTGT
1 TTAGGGTTTAGAGATTTTAGATTTGGTGT
15926172 TTAGGGTTTA-AGATT
1 TTAGGGTTTAGAGATT
15926187 CAATGTTATG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 1 0.03
28 37 0.97
ACGTcount: A:0.17, C:0.01, G:0.31, T:0.51
Consensus pattern (29 bp):
TTAGGGTTTAGAGATTTTAGATTTGGTGT
Found at i:15926285 original size:22 final size:22
Alignment explanation
Indices: 15926260--15926317 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
15926250 AAATTTAAGG
* *
15926260 TTATGATTTAGGGTTATTAGTT
1 TTATGATTTAAGGTTATTAATT
* * *
15926282 TTATGGTTTATGGCTATTAATT
1 TTATGATTTAAGGTTATTAATT
15926304 TTA-GATTTAAGGTT
1 TTATGATTTAAGGTT
15926318 TAGGGTTTAT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 8 0.28
22 21 0.72
ACGTcount: A:0.24, C:0.02, G:0.21, T:0.53
Consensus pattern (22 bp):
TTATGATTTAAGGTTATTAATT
Found at i:15926465 original size:21 final size:22
Alignment explanation
Indices: 15926436--15926476 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
15926426 GTTCAAGTTT
**
15926436 CTAGATTTATTGTTCATGGTTC
1 CTAGATTTAGAGTTCATGGTTC
15926458 CTAG-TTTAGAGTTCATGGT
1 CTAGATTTAGAGTTCATGGT
15926477 ATGGGTTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.20, C:0.12, G:0.22, T:0.46
Consensus pattern (22 bp):
CTAGATTTAGAGTTCATGGTTC
Found at i:15926500 original size:19 final size:20
Alignment explanation
Indices: 15926461--15926505 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
15926451 ATGGTTCCTA
*
15926461 GTTTAGAGTTCATGGTATGG
1 GTTTAGAGTTCAAGGTATGG
*
15926481 GTTT-GAGTTCAAGGTTTGG
1 GTTTAGAGTTCAAGGTATGG
15926500 GCTTTA
1 G-TTTA
15926506 AGGTTCTGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.18, C:0.07, G:0.33, T:0.42
Consensus pattern (20 bp):
GTTTAGAGTTCAAGGTATGG
Found at i:15927084 original size:13 final size:13
Alignment explanation
Indices: 15927061--15927098 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
15927051 TAAGGTTGGG
*
15927061 GTTCAAAGTTTAA
1 GTTCAAGGTTTAA
*
15927074 GTTCAGGGTTTAA
1 GTTCAAGGTTTAA
15927087 GTTCAAGGTTTA
1 GTTCAAGGTTTA
15927099 GGATTTTGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (13 bp):
GTTCAAGGTTTAA
Found at i:15927852 original size:12 final size:12
Alignment explanation
Indices: 15927837--15927866 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15927827 GTTTTTTGAT
15927837 ATAAGGAAAAAA
1 ATAAGGAAAAAA
*
15927849 ATAAAGAAAAAA
1 ATAAGGAAAAAA
15927861 ATAAGG
1 ATAAGG
15927867 CAGACTAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (12 bp):
ATAAGGAAAAAA
Found at i:15945081 original size:14 final size:15
Alignment explanation
Indices: 15945062--15945090 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15945052 GAAAATGGCT
15945062 CATCACTCT-ATCCA
1 CATCACTCTCATCCA
15945076 CATCACTCTCATCCA
1 CATCACTCTCATCCA
15945091 GCTGGACGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.45, G:0.00, T:0.28
Consensus pattern (15 bp):
CATCACTCTCATCCA
Found at i:15947303 original size:46 final size:46
Alignment explanation
Indices: 15947245--15947415 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
15947235 TCATGTAGCT
* *
15947245 GATGCATTTCCCAGACATGTCTTACACTGGCT-TACATCAAGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCAAGATGCC
* * * *
15947291 AATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCA-ATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATC-AAGATGCC
*
15947337 GATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCAT-AATG-TGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCAA-GAT-GCC
*
15947385 GATGCATGTCCTAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
15947416 ACACAAACAT
Statistics
Matches: 105, Mismatches: 13, Indels: 14
0.80 0.10 0.11
Matches are distributed among these distances:
46 52 0.50
47 29 0.28
48 24 0.23
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCAAGATGCC
Found at i:15951308 original size:26 final size:24
Alignment explanation
Indices: 15951249--15951319 Score: 94
Period size: 21 Copynumber: 3.0 Consensus size: 24
15951239 CTCGTGTTAG
15951249 AAAAAAAAGAGAGAGAAGAGC---
1 AAAAAAAAGAGAGAGAAGAGCATA
*
15951270 AAAAAAAAGAGAGAGAAGTGCATA
1 AAAAAAAAGAGAGAGAAGAGCATA
15951294 AAAAAAGAAGAAGAGAGAAGAGCATA
1 AAAAAA-AAG-AGAGAGAAGAGCATA
15951320 TGTACTTGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
21 20 0.47
24 6 0.14
25 3 0.07
26 14 0.33
ACGTcount: A:0.65, C:0.04, G:0.27, T:0.04
Consensus pattern (24 bp):
AAAAAAAAGAGAGAGAAGAGCATA
Found at i:15951668 original size:31 final size:30
Alignment explanation
Indices: 15951611--15951669 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
15951601 GTAAATACTC
* * * *
15951611 AAAATTTGAGGGATTAAAGTGTAAATATGA
1 AAAAGTTGAAGGACTAAAGTGCAAATATGA
15951641 AAAAGTTGAAGGACTAATAGTGCAAATAT
1 AAAAGTTGAAGGACTAA-AGTGCAAATAT
15951670 TTTAAGGGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.47, C:0.03, G:0.22, T:0.27
Consensus pattern (30 bp):
AAAAGTTGAAGGACTAAAGTGCAAATATGA
Found at i:15952515 original size:26 final size:26
Alignment explanation
Indices: 15952479--15952614 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
15952469 GATACAAAAT
*
15952479 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
15952505 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
15952531 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
15952557 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
15952583 AGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
15952609 TGATAA
1 TGATAA
15952615 GAATTTCATG
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 105 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:15954310 original size:27 final size:26
Alignment explanation
Indices: 15954231--15954345 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
15954221 TGGAGGAAGC
* *
15954231 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
*
15954258 GATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAT-TATCT
15954285 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* * * *
15954312 ATATTTGGTGACTCTGTCACATTATCT
1 GT-TCTGGTGGCTCTGCCACATTATCT
15954339 GTTCTGG
1 GTTCTGG
15954346 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
26 5 0.07
27 54 0.72
28 16 0.21
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACATTATCT
Found at i:15954338 original size:54 final size:54
Alignment explanation
Indices: 15954231--15954345 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
15954221 TGGAGGAAGC
*
15954231 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * * * *
15954285 GTTCTGGTGGCTCTGCCACGATTATCTATATTTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCT-GATCTGGTGACTCTGCCACATATATCT
15954339 GTTCTGG
1 GTTCTGG
15954346 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 36 0.68
55 17 0.32
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:15956048 original size:27 final size:26
Alignment explanation
Indices: 15956009--15956110 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
15955999 AGCATGGCTG
* * *
15956009 CCAGAACGGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
15956035 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
15956063 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
15956090 CCAGATCAGATAATTGTGGCA
1 CCAGAACAGATAA-TGTGGCA
15956111 AAGTCACCTG
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
26 6 0.09
27 43 0.65
28 17 0.26
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:15964483 original size:24 final size:24
Alignment explanation
Indices: 15964456--15964502 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
15964446 CTAGATTTCC
**
15964456 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
15964480 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
15964503 CTCCTGACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:15967629 original size:31 final size:28
Alignment explanation
Indices: 15967563--15967631 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
15967553 TGTGCTAATT
*
15967563 TGGTGTGTTTGGGAGGACTATGTGATTC
1 TGGTGTGTTTGGGAGGAATATGTGATTC
** *
15967591 TATTGTGTTTGGGAGGATTATATGATTATTC
1 TGGTGTGTTTGGGAGGA--ATATG-TGATTC
15967622 TGGTGTGTTT
1 TGGTGTGTTT
15967632 TGGTTGGATA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
28 15 0.47
30 4 0.12
31 13 0.41
ACGTcount: A:0.16, C:0.04, G:0.33, T:0.46
Consensus pattern (28 bp):
TGGTGTGTTTGGGAGGAATATGTGATTC
Found at i:15967907 original size:27 final size:28
Alignment explanation
Indices: 15967857--15967961 Score: 115
Period size: 28 Copynumber: 3.6 Consensus size: 28
15967847 CACTATGTGC
15967857 TATACTGGTGTGTTTTGGATGGATTATAT
1 TATACTGGTGTGTTTTGGA-GGATTATAT
* *
15967886 TATACTAGTGTG-TTTGGAGGATTATCT
1 TATACTGGTGTGTTTTGGAGGATTATAT
*
15967913 AATTAC-GGTGTGTTTTGGAGGATTACATGAT
1 TA-TACTGGTGTGTTTTGGAGGATT--AT-AT
*
15967944 TATTCTGGTGTGTTTTGG
1 TATACTGGTGTGTTTTGG
15967962 TTGGATATTA
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
27 14 0.22
28 20 0.32
29 11 0.17
30 4 0.06
31 14 0.22
ACGTcount: A:0.20, C:0.06, G:0.29, T:0.46
Consensus pattern (28 bp):
TATACTGGTGTGTTTTGGAGGATTATAT
Found at i:15967975 original size:24 final size:23
Alignment explanation
Indices: 15967944--15967990 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
15967934 ATTACATGAT
*
15967944 TATTCTGGTGTGTTTTGGTTGGA
1 TATTCTGGTGTGTTTGGGTTGGA
15967967 TATTACTGGTGTGTTTGGGTTGGA
1 TATT-CTGGTGTGTTTGGGTTGGA
15967991 ATCCGTGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.11, C:0.04, G:0.36, T:0.49
Consensus pattern (23 bp):
TATTCTGGTGTGTTTGGGTTGGA
Found at i:15970634 original size:54 final size:54
Alignment explanation
Indices: 15970552--15970659 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
15970542 TTTCTTGCTC
*
15970552 TTTTTGCTATCCTAAGCTCTCTTGAGTATAAAACATGAAATTAAATTATTAGGA
1 TTTTTGCTATCCTAAGCTCTCCTGAGTATAAAACATGAAATTAAATTATTAGGA
15970606 TTTTTGCTATCCTAAGCTCTCCTGAGTATAAAACATGAAATTAAATTATTAGGA
1 TTTTTGCTATCCTAAGCTCTCCTGAGTATAAAACATGAAATTAAATTATTAGGA
15970660 GCATCAAATT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (54 bp):
TTTTTGCTATCCTAAGCTCTCCTGAGTATAAAACATGAAATTAAATTATTAGGA
Found at i:15974440 original size:25 final size:24
Alignment explanation
Indices: 15974405--15974455 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
15974395 GAGAAAGGGC
15974405 TGGAAGAAGAAAATAGGGGAATAG
1 TGGAAGAAGAAAATAGGGGAATAG
* *
15974429 TGGAAGGAAGAAGATAGGTGAATAG
1 TGGAA-GAAGAAAATAGGGGAATAG
15974454 TG
1 TG
15974456 AACTTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.45, C:0.00, G:0.39, T:0.16
Consensus pattern (24 bp):
TGGAAGAAGAAAATAGGGGAATAG
Found at i:15980725 original size:63 final size:63
Alignment explanation
Indices: 15980626--15980750 Score: 232
Period size: 63 Copynumber: 2.0 Consensus size: 63
15980616 CCACAAGAGG
* *
15980626 CAGCGGATTATTTTGATTTTCAGCCATCTCCTCGGTTGTAGTATGGATATCTTCTTCTCGCTA
1 CAGCGGATTATTTTGATTTTCAGCCATCTCATCGGTTGTAGTATGGATATCTTCCTCTCGCTA
15980689 CAGCGGATTATTTTGATTTTCAGCCATCTCATCGGTTGTAGTATGGATATCTTCCTCTCGCT
1 CAGCGGATTATTTTGATTTTCAGCCATCTCATCGGTTGTAGTATGGATATCTTCCTCTCGCT
15980751 CTTCCTCTAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.18, C:0.22, G:0.19, T:0.41
Consensus pattern (63 bp):
CAGCGGATTATTTTGATTTTCAGCCATCTCATCGGTTGTAGTATGGATATCTTCCTCTCGCTA
Found at i:15983334 original size:8 final size:8
Alignment explanation
Indices: 15983323--15983347 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15983313 TTTAATAAGA
15983323 TATTTTAT
1 TATTTTAT
15983331 TATTTTAT
1 TATTTTAT
15983339 TATTTTAT
1 TATTTTAT
15983347 T
1 T
15983348 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:15985916 original size:22 final size:23
Alignment explanation
Indices: 15985891--15985933 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
15985881 TAACATGTTG
15985891 AATTTCAATTAATTTT-ATAACA
1 AATTTCAATTAATTTTGATAACA
**
15985913 AATTTTTATTAATTTTGATAA
1 AATTTCAATTAATTTTGATAA
15985934 TTTTTGACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (23 bp):
AATTTCAATTAATTTTGATAACA
Found at i:15988654 original size:23 final size:23
Alignment explanation
Indices: 15988587--15988654 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
15988577 TTAAATTTTG
*
15988587 AATTATTTAATGATAATATTTAT
1 AATTATTTAGTGATAATATTTAT
15988610 AATTATTTAGTGATAATATTTA-
1 AATTATTTAGTGATAATATTTAT
15988632 AGATTATTTAGTGATAATATTTA
1 A-ATTATTTAGTGATAATATTTA
15988655 GAAAAAAATC
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
22 1 0.02
23 42 0.98
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (23 bp):
AATTATTTAGTGATAATATTTAT
Found at i:15988655 original size:13 final size:13
Alignment explanation
Indices: 15988590--15988655 Score: 63
Period size: 13 Copynumber: 5.5 Consensus size: 13
15988580 AATTTTGAAT
*
15988590 TATTTAATGATAA
1 TATTTAGTGATAA
*
15988603 TATTTA-T-A-AT
1 TATTTAGTGATAA
15988613 TATTTAGTGATAA
1 TATTTAGTGATAA
*
15988626 TATTTA-AGAT--
1 TATTTAGTGATAA
15988636 TATTTAGTGATAA
1 TATTTAGTGATAA
15988649 TATTTAG
1 TATTTAG
15988656 AAAAAAATCT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
10 13 0.30
11 5 0.12
12 5 0.12
13 20 0.47
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:15989490 original size:19 final size:19
Alignment explanation
Indices: 15989466--15989505 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
15989456 TTTTAAAAAA
15989466 ATTATAAAA-ATTATTTAAT
1 ATTATAAAATATTA-TTAAT
15989485 ATTATAAAATATTATTAAT
1 ATTATAAAATATTATTAAT
15989504 AT
1 AT
15989506 GTCATGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTATAAAATATTATTAAT
Found at i:15990608 original size:27 final size:27
Alignment explanation
Indices: 15990567--15990629 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
15990557 ATACATACAT
*
15990567 GTTGAGCCTACCTGACAAGCTCAACTA
1 GTTGAGCCTACCTGACAAGCACAACTA
* * *
15990594 GTTGAGCCTATCTGACAGGCACGACTA
1 GTTGAGCCTACCTGACAAGCACAACTA
*
15990621 GTTGTGCCT
1 GTTGAGCCT
15990630 TCTTGGTAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (27 bp):
GTTGAGCCTACCTGACAAGCACAACTA
Found at i:15990640 original size:27 final size:27
Alignment explanation
Indices: 15990610--15990668 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
15990600 CCTATCTGAC
15990610 AGGCACGACTAGTTGTGCCTTCTTGGT
1 AGGCACGACTAGTTGTGCCTTCTTGGT
15990637 AGGCACGACTAGTTGTGCCTTCTTGGT
1 AGGCACGACTAGTTGTGCCTTCTTGGT
15990664 AGGCA
1 AGGCA
15990669 AAACTGGTGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.17, C:0.22, G:0.31, T:0.31
Consensus pattern (27 bp):
AGGCACGACTAGTTGTGCCTTCTTGGT
Found at i:15996420 original size:22 final size:22
Alignment explanation
Indices: 15996386--15996449 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
15996376 TCAACATTTT
*
15996386 AATAAATCA-ATAAAAATTATCA
1 AATAAAT-ATATAAAAATTATAA
*
15996408 AATAAATATATAATAA-TATAA
1 AATAAATATATAAAAATTATAA
*
15996429 AATTACATTATATAAAAATTA
1 AA-TA-AATATATAAAAATTA
15996450 CATTAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 7 0.21
22 15 0.44
23 10 0.29
24 2 0.06
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
AATAAATATATAAAAATTATAA
Found at i:15996443 original size:15 final size:16
Alignment explanation
Indices: 15996423--15996454 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15996413 ATATATAATA
15996423 ATAT-AAAATTACATT
1 ATATAAAAATTACATT
15996438 ATATAAAAATTACATT
1 ATATAAAAATTACATT
15996454 A
1 A
15996455 AAAAATCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAAAAATTACATT
Found at i:15996660 original size:101 final size:100
Alignment explanation
Indices: 15996537--15997018 Score: 411
Period size: 114 Copynumber: 4.5 Consensus size: 100
15996527 TTATTTTTTT
*
15996537 AAATACATTACTAAAAAAAAATCACAATACACTAATACACACTAAACCACTAAACACTAACAA-T
1 AAATATATTACT--AAAAAAATCACAATACACTAAT--ACACTAAACCACTAAACACTAACAATT
15996601 ATATAACCTAATCTTAAATTACTAATAAAATAGCTATAA
62 ATATAACCTAATCTTAAATTACTAATAAAATAGCTATAA
*
15996640 AAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACTAAACAGTAACAATTTATA
1 AAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACTAAACACTAACAA-TTATA
*
15996705 TAACCTAATCTCAAATTACTAATAAAATAGCTATAAAAATATTTTTTTA
65 TAACCTAATCTTAAATTACTAATAAAATAGC--T----ATA-------A
* * * *
15996754 AAATATATTACTAAAAAAATTACAATACGCTAATATACTAAACCACTAAACACTAATAATTTATA
1 AAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACTAAACACTAACAA-TTATA
*
15996819 TAACCTAATCTTAAATTACTGATAAAATAGCTATAAAATTATTTTTTTA
65 TAACCTAATCTTAAATTACTAATAAAATAGC--T---A-TA-------A
*
15996868 TAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACTACTAAACACTAACAATTTAT
1 -AAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACTAAACACTAACAA-TTAT
* * * ** *
15996933 ATAATCAAATCAACTATAAAATTATTTTTTAAA-A---A-AA
64 ATAACCTAAT---CT-T-AAATTACTAATAAAATAGCTATAA
*
15996970 ATATATTATTACTAAAAAAATCACAATACACTAATACACTAAA-CACTAA
1 AAATA-TATTACTAAAAAAATCACAATACACTAATACACTAAACCACTAA
15997019 CAATTTGTAA
Statistics
Matches: 333, Mismatches: 23, Indels: 48
0.82 0.06 0.12
Matches are distributed among these distances:
99 24 0.07
101 65 0.20
102 38 0.11
103 12 0.04
107 3 0.01
109 1 0.00
111 1 0.00
113 4 0.01
114 103 0.31
115 67 0.20
118 2 0.01
119 2 0.01
120 11 0.03
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.30
Consensus pattern (100 bp):
AAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACTAAACACTAACAATTATAT
AACCTAATCTTAAATTACTAATAAAATAGCTATAA
Found at i:15996930 original size:115 final size:114
Alignment explanation
Indices: 15996639--15996936 Score: 506
Period size: 114 Copynumber: 2.6 Consensus size: 114
15996629 AATAGCTATA
*
15996639 AAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACTAAACAGTAACAATTTAT
1 AAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACTAAACACTAACAATTTAT
15996704 ATAACCTAATCTCAAATTACTAATAAAATAGCTATAAAAATATTTTTTT
66 ATAACCTAATCTCAAATTACTAATAAAATAGCTATAAAAATATTTTTTT
* * * *
15996753 AAAATATATTACTAAAAAAATTACAATACGCTAATATACTAAACCACTAAACACTAATAATTTAT
1 AAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACTAAACACTAACAATTTAT
* * *
15996818 ATAACCTAATCTTAAATTACTGATAAAATAGCTATAAAATTATTTTTTT
66 ATAACCTAATCTCAAATTACTAATAAAATAGCTATAAAAATATTTTTTT
*
15996867 ATAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACTACTAAACACTAACAATTTA
1 A-AAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACTAAACACTAACAATTTA
15996932 TATAA
65 TATAA
15996937 TCAAATCAAC
Statistics
Matches: 170, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
114 107 0.63
115 63 0.37
ACGTcount: A:0.52, C:0.15, G:0.02, T:0.32
Consensus pattern (114 bp):
AAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACTAAACACTAACAATTTAT
ATAACCTAATCTCAAATTACTAATAAAATAGCTATAAAAATATTTTTTT
Found at i:15997256 original size:16 final size:15
Alignment explanation
Indices: 15997219--15997256 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 15
15997209 ATTACCTTTT
15997219 TTTTCTTCTTCTTCC
1 TTTTCTTCTTCTTCC
15997234 TTCTTCTTCTTCTTCTC
1 TT-TTCTTCTTCTTC-C
15997251 TTTTCT
1 TTTTCT
15997257 CTCCTTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 2 0.10
16 16 0.76
17 3 0.14
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTCTTCTTCTTCC
Found at i:16000287 original size:30 final size:30
Alignment explanation
Indices: 16000251--16000312 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
16000241 TAATCCTTAT
16000251 GCCGGCCCATCAGCTGCAATGTATGGTTTG
1 GCCGGCCCATCAGCTGCAATGTATGGTTTG
16000281 GCCGGCCCATCAGCTGCAATGTATGGTTTG
1 GCCGGCCCATCAGCTGCAATGTATGGTTTG
16000311 GC
1 GC
16000313 AGGAGCACCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.16, C:0.27, G:0.31, T:0.26
Consensus pattern (30 bp):
GCCGGCCCATCAGCTGCAATGTATGGTTTG
Found at i:16015345 original size:6 final size:6
Alignment explanation
Indices: 16015315--16015387 Score: 105
Period size: 6 Copynumber: 12.3 Consensus size: 6
16015305 AATAAAGTTC
*
16015315 AAAATA GAAAA-A AAAATA AACATA AAAATA AAAATA AAAAT- AAAATA
1 AAAATA -AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
16015362 AAAATA AAAATA AAAATA AAGATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
16015388 TGGACCCAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
5 9 0.15
6 48 0.79
7 4 0.07
ACGTcount: A:0.81, C:0.01, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:16015377 original size:29 final size:29
Alignment explanation
Indices: 16015315--16015387 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 29
16015305 AATAAAGTTC
* *
16015315 AAAATAGAAAAAAAAATAAACATAAAAATA
1 AAAATA-AAAATAAAATAAAAATAAAAATA
16015345 AAAATAAAAATAAAATAAAAATAAAAATA
1 AAAATAAAAATAAAATAAAAATAAAAATA
*
16015374 AAAATAAAGATAAA
1 AAAATAAAAATAAA
16015388 TGGACCCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 34 0.85
30 6 0.15
ACGTcount: A:0.81, C:0.01, G:0.03, T:0.15
Consensus pattern (29 bp):
AAAATAAAAATAAAATAAAAATAAAAATA
Found at i:16016933 original size:21 final size:21
Alignment explanation
Indices: 16016909--16016953 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
16016899 GTCTAGCATG
16016909 TCAAGAATGAATAAAAAAAAT
1 TCAAGAATGAATAAAAAAAAT
* * *
16016930 TCAATAGTGAATAAACAAAAT
1 TCAAGAATGAATAAAAAAAAT
16016951 TCA
1 TCA
16016954 TGCTGCATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.22
Consensus pattern (21 bp):
TCAAGAATGAATAAAAAAAAT
Found at i:16017004 original size:16 final size:16
Alignment explanation
Indices: 16016978--16017021 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
16016968 AAAGCAGTCA
*
16016978 AACTAATTAAAGAAAT
1 AACTAAATAAAGAAAT
* *
16016994 TACTAAATAAATAAAT
1 AACTAAATAAAGAAAT
*
16017010 AAGTAAATAAAG
1 AACTAAATAAAG
16017022 GGAAATAATA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.25
Consensus pattern (16 bp):
AACTAAATAAAGAAAT
Found at i:16017054 original size:24 final size:24
Alignment explanation
Indices: 16017027--16017073 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
16017017 TAAAGGGAAA
*
16017027 TAATAATAATAACAATAATACTAC
1 TAATAATAAAAACAATAATACTAC
* *
16017051 TAATAATAAAAAGATTAATACTA
1 TAATAATAAAAACAATAATACTA
16017074 ATAAAAATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.30
Consensus pattern (24 bp):
TAATAATAAAAACAATAATACTAC
Found at i:16017056 original size:21 final size:21
Alignment explanation
Indices: 16017030--16017077 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
16017020 AGGGAAATAA
* * *
16017030 TAATAATAACAATAATACTAC
1 TAATAATAAAAAGAATAATAC
*
16017051 TAATAATAAAAAGATTAATAC
1 TAATAATAAAAAGAATAATAC
16017072 TAATAA
1 TAATAA
16017078 AAATCAAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.29
Consensus pattern (21 bp):
TAATAATAAAAAGAATAATAC
Found at i:16017093 original size:24 final size:22
Alignment explanation
Indices: 16017025--16017094 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 22
16017015 AATAAAGGGA
*
16017025 AATAATAATAATAACAATAATACT
1 AATAAAAATAA-AA-AATAATACT
* *
16017049 ACTAATAATAAAAAGATTAATACT
1 AATAAAAATAAAAA-A-TAATACT
16017073 AATAAAAATCAAGAAAATAATA
1 AATAAAAAT-AA-AAAATAATA
16017095 AAGATATTAG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
22 1 0.03
23 3 0.08
24 29 0.74
25 3 0.08
26 3 0.08
ACGTcount: A:0.64, C:0.07, G:0.03, T:0.26
Consensus pattern (22 bp):
AATAAAAATAAAAAATAATACT
Found at i:16020881 original size:16 final size:15
Alignment explanation
Indices: 16020860--16020903 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
16020850 AGTTAGTAAT
16020860 TAAAAAAAAACTAAAA
1 TAAAAAAAAA-TAAAA
*
16020876 TAAAAATAAAATACAA
1 TAAAAA-AAAATAAAA
16020892 TAAAATAAAAAT
1 TAAAA-AAAAAT
16020904 GGCTCAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 20 0.80
17 5 0.20
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (15 bp):
TAAAAAAAAATAAAA
Found at i:16020886 original size:21 final size:21
Alignment explanation
Indices: 16020860--16020903 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
16020850 AGTTAGTAAT
*
16020860 TAAAAAAAAACTAAAATAAAAA
1 TAAAATAAAA-TAAAATAAAAA
*
16020882 TAAAATACAATAAAATAAAAA
1 TAAAATAAAATAAAATAAAAA
16020903 T
1 T
16020904 GGCTCAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (21 bp):
TAAAATAAAATAAAATAAAAA
Found at i:16022032 original size:29 final size:30
Alignment explanation
Indices: 16021990--16022046 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
16021980 CATGGGCTAC
*
16021990 CACATGGGCGTGTGC-TAGCCTGTGTGGGT
1 CACATGGGCATGTGCTTAGCCTGTGTGGGT
*
16022019 CACATGGGTATGTGCTTAGCCTGTGTGG
1 CACATGGGCATGTGCTTAGCCTGTGTGG
16022047 AATTCGTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.12, C:0.19, G:0.39, T:0.30
Consensus pattern (30 bp):
CACATGGGCATGTGCTTAGCCTGTGTGGGT
Found at i:16025757 original size:16 final size:16
Alignment explanation
Indices: 16025738--16025771 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
16025728 AACGACAAAG
16025738 GCTGAAAA-GTCGAAAA
1 GCTGAAAAGGT-GAAAA
16025754 GCTGAAAAGGTGAAAA
1 GCTGAAAAGGTGAAAA
16025770 GC
1 GC
16025772 CAAAATGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.47, C:0.12, G:0.29, T:0.12
Consensus pattern (16 bp):
GCTGAAAAGGTGAAAA
Found at i:16031897 original size:43 final size:43
Alignment explanation
Indices: 16031828--16032000 Score: 181
Period size: 43 Copynumber: 4.0 Consensus size: 43
16031818 AGCTCGTACA
* * * * *
16031828 ATGCC-ATATCCCAGATATGTTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * * * *
16031870 ATGCCATTGTCCTAGACATGGTCTTACACGAAAT-AGATTAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-TATCG
* *
16031913 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT-CG
* *
16031956 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATCTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
16031999 AT
1 AT
16032001 AACCTAATGT
Statistics
Matches: 105, Mismatches: 21, Indels: 9
0.78 0.16 0.07
Matches are distributed among these distances:
42 8 0.08
43 94 0.90
44 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:16032091 original size:22 final size:22
Alignment explanation
Indices: 16032063--16032112 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
16032053 ACTTTCGGAT
*
16032063 GTCGTAACTTTGTTGATTCTTA
1 GTCGTAACTTTGTCGATTCTTA
16032085 GTCGTAACTTTGTCGATTCTTA
1 GTCGTAACTTTGTCGATTCTTA
*
16032107 CTCGTA
1 GTCGTA
16032113 TATGCTCGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.46
Consensus pattern (22 bp):
GTCGTAACTTTGTCGATTCTTA
Found at i:16033883 original size:26 final size:26
Alignment explanation
Indices: 16033854--16033961 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
16033844 TGGTACAAAT
16033854 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
16033880 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16033906 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
16033932 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16033958 TGAT
1 TGAT
16033962 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:16035216 original size:54 final size:54
Alignment explanation
Indices: 16035134--16035277 Score: 254
Period size: 54 Copynumber: 2.7 Consensus size: 54
16035124 TGGAGGAAGC
16035134 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
16035188 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
16035242 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
16035278 ACTTCGTCAC
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
53 6 0.07
54 81 0.93
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:16035288 original size:27 final size:27
Alignment explanation
Indices: 16035137--16035295 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
16035127 AGGAAGCGTC
*
16035137 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
16035164 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
16035191 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
16035218 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
16035245 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
16035272 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
16035296 GCAGCCTCGC
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 105 0.90
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:16035289 original size:81 final size:80
Alignment explanation
Indices: 16035137--16035295 Score: 216
Period size: 81 Copynumber: 2.0 Consensus size: 80
16035127 AGGAAGCGTC
*
16035137 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
16035202 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
16035218 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
*
16035281 -TCGTCACAATATCTG
64 AT-GCCACAATATCTG
16035296 GCAGCCTCGC
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
80 17 0.24
81 53 0.76
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:16040509 original size:26 final size:26
Alignment explanation
Indices: 16040480--16040613 Score: 259
Period size: 26 Copynumber: 5.2 Consensus size: 26
16040470 TGATACAAAT
16040480 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16040506 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16040532 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16040558 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
16040584 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16040610 TGAT
1 TGAT
16040614 GGGCATTTCA
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:16051829 original size:27 final size:27
Alignment explanation
Indices: 16051789--16051929 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
16051779 AGGAAGCATC
*
16051789 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
16051816 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
16051842 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
* *
16051870 CTGGTGGCTCTGCCAC-ATATATTTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
16051897 CTGGTGGATCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
16051924 CTGGTG
1 CTGGTG
16051930 ACTCCATCAC
Statistics
Matches: 99, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
26 10 0.10
27 85 0.86
28 4 0.04
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:16051869 original size:54 final size:54
Alignment explanation
Indices: 16051787--16051929 Score: 234
Period size: 54 Copynumber: 2.6 Consensus size: 54
16051777 GGAGGAAGCA
16051787 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
*
16051841 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATTTG
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
* * *
16051895 TTCTGGTGGATCTGCCACAA-TATCTGTATCTGGTG
1 TCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
16051930 ACTCCATCAC
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 6 0.07
54 78 0.93
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
Found at i:16051941 original size:81 final size:79
Alignment explanation
Indices: 16051789--16051947 Score: 189
Period size: 81 Copynumber: 2.0 Consensus size: 79
16051779 AGGAAGCATC
* *
16051789 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGATCTGCCACATATATCTGTCCTGGTGACTAT
16051854 GCCACAATTATCTGAT
66 -CCACAA-TATCTGAT
* * * *
16051870 CTGGTGGCTCTGCCAC-ATATATTTGTTCTGGTGGATCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGATCTGCCACATATATCTGT-CCTGGTGACT
16051933 CCAT-CACAATATCTG
64 --ATCCACAATATCTG
16051948 GCAGCCTCGC
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
80 16 0.24
81 50 0.74
83 2 0.03
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (79 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGATCTGCCACATATATCTGTCCTGGTGACTAT
CCACAATATCTGAT
Found at i:16055962 original size:19 final size:19
Alignment explanation
Indices: 16055938--16055979 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
16055928 TTATGTTTAA
*
16055938 TTTATTATTAGTTTACCTT
1 TTTATTATTAATTTACCTT
16055957 TTTATTATTAATTTACCTT
1 TTTATTATTAATTTACCTT
16055976 TTTA
1 TTTA
16055980 CCCTTTTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTATTATTAATTTACCTT
Found at i:16070143 original size:121 final size:124
Alignment explanation
Indices: 16069906--16070239 Score: 441
Period size: 133 Copynumber: 2.7 Consensus size: 124
16069896 AGACTTCGAT
16069906 GTTAGAATTTACTTTTAGTATTTTTTATTTTTGTATAATGTTATTATCC-AA-AAAAAGCTAATG
1 GTTAGAATTTACTTTTAGTATTTTTTATTTTTGTATAATGTTATTATCCAAAGAAAAAGCTAATG
* *
16069969 TTTGCTACAGCTCTAACCAATTGTATATTTAGTTGCTTCCAAGCGAGACTCC-A-A-C-
66 TTTGCTACGGCTCTAACCAATTGTATATTTAGTTGCTTCAAAGCGAGACTCCGAGACCA
16070024 GTTAGAATTTACTTTTAGTATTTTTTATTTCTTGTATAATGTTATTATCCAAAGAAAAAGCTAAT
1 GTTAGAATTTACTTTTAGTATTTTTTATTT-TTGTATAATGTTATTATCCAAAGAAAAAGCTAAT
* **
16070089 GTTTGCTACGGCTCTAACCAATTGTATATTTAGTTGCTTATAAAG-TTG-CTTCCAAGGGAGACT
65 GTTTGCTACGGCTCTAACCAATTGTATATTTAGTTGCTT-CAAAGCGAGAC-TCC----GAGA--
16070152 CCGA
122 CC-A
*
16070156 TGTTAGAATTTACTTTTAGTATTTTTTATTTTTTGTATAATGTTATTATCCAAAGAAAAAGTTAA
1 -GTTAGAATTTACTTTTAGTATTTTTTA-TTTTTGTATAATGTTATTATCCAAAGAAAAAGCTAA
*
16070221 TGTTTGCTACGGCTGTAAC
64 TGTTTGCTACGGCTCTAAC
16070240 AAACGGCGAC
Statistics
Matches: 191, Mismatches: 7, Indels: 21
0.87 0.03 0.10
Matches are distributed among these distances:
118 30 0.16
119 19 0.10
120 3 0.02
121 53 0.28
122 3 0.02
126 1 0.01
127 1 0.01
130 1 0.01
133 77 0.40
134 3 0.02
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (124 bp):
GTTAGAATTTACTTTTAGTATTTTTTATTTTTGTATAATGTTATTATCCAAAGAAAAAGCTAATG
TTTGCTACGGCTCTAACCAATTGTATATTTAGTTGCTTCAAAGCGAGACTCCGAGACCA
Found at i:16077759 original size:105 final size:105
Alignment explanation
Indices: 16077572--16077787 Score: 342
Period size: 105 Copynumber: 2.1 Consensus size: 105
16077562 TAATTTAATT
*
16077572 AAAACATAGTTAAATAAGTAAATTAAGGTTAATTAACAAACTAATCTTAGTATAAAAGTGAAATT
1 AAAACACAGTTAAATAAGTAAATTAAGGTTAATTAACAAACTAATCTTAGTATAAAAGTGAAATT
* * * * * *
16077637 TGTGGATGGAAAAATGGTATATCATCTTCTCCAAGTTACC
66 GGTAGATGGAAAAATGGTATATCATATTATCCAACTCACC
*
16077677 AAAACACAGTTAAATAAGTAAATTAAGGTTAATTAACAAACTAGTCTTAGTATAAAAGTGAAATT
1 AAAACACAGTTAAATAAGTAAATTAAGGTTAATTAACAAACTAATCTTAGTATAAAAGTGAAATT
* *
16077742 GGTAGATGGAGAGATGGTATATCATATTATCCAACTCACC
66 GGTAGATGGAAAAATGGTATATCATATTATCCAACTCACC
16077782 AAAACA
1 AAAACA
16077788 AATCAACAGC
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 101 1.00
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (105 bp):
AAAACACAGTTAAATAAGTAAATTAAGGTTAATTAACAAACTAATCTTAGTATAAAAGTGAAATT
GGTAGATGGAAAAATGGTATATCATATTATCCAACTCACC
Found at i:16081793 original size:24 final size:24
Alignment explanation
Indices: 16081766--16081813 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
16081756 CGCAACATTG
*
16081766 ATAAGTGGAAAATGTTATGAAACT
1 ATAAGTGGAAAATATTATGAAACT
16081790 ATAAGTGGAAAATATTATGAAACT
1 ATAAGTGGAAAATATTATGAAACT
16081814 TTTCTAACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.19, T:0.29
Consensus pattern (24 bp):
ATAAGTGGAAAATATTATGAAACT
Found at i:16084909 original size:14 final size:14
Alignment explanation
Indices: 16084890--16084919 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16084880 TATCTTATAA
16084890 ATATGCGTGAATCT
1 ATATGCGTGAATCT
*
16084904 ATATGCGTTAATCT
1 ATATGCGTGAATCT
16084918 AT
1 AT
16084920 CTTGAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (14 bp):
ATATGCGTGAATCT
Found at i:16100014 original size:39 final size:39
Alignment explanation
Indices: 16099971--16100147 Score: 221
Period size: 39 Copynumber: 4.5 Consensus size: 39
16099961 AACATGTTTT
*
16099971 TGAGTATTGTGACATATGCTTGAATGTTATGTAATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTAATTATA
** *
16100010 TGAGTATTACGATGTATGCTTGAATGTTATGTAATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTAATTATA
* * * **
16100049 TGAGTATCGCGATATGTGCTTGAACATTATGTAATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTAATTATA
*
16100088 TGAGTATTGTGATATATGCTT-AAGTGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAA-TGTTATGTAATTATA
* * *
16100127 TGTGTAATGTAATATATGCTT
1 TGAGTATTGTGATATATGCTT
16100148 AAAAGTGAAT
Statistics
Matches: 118, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
38 2 0.02
39 116 0.98
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.44
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAATGTTATGTAATTATA
Found at i:16101508 original size:20 final size:21
Alignment explanation
Indices: 16101485--16101525 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
16101475 GAATATGTTG
* *
16101485 TAAATTAAAAGTTTA-TGATA
1 TAAAATAAAAGGTTATTGATA
16101505 TAAAATAAAAGGTTATTGATA
1 TAAAATAAAAGGTTATTGATA
16101526 GAGAAATCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (21 bp):
TAAAATAAAAGGTTATTGATA
Found at i:16102350 original size:29 final size:29
Alignment explanation
Indices: 16102317--16102385 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
16102307 TGTGTGTACC
*
16102317 ATGTGAAAAGGGATAGCTTCGGCTATCGA
1 ATGTGAAAAGGGATAGCTTCGGCTATCAA
*
16102346 ATGTGAAAAGGGATAGCTTTGGCTATCAA
1 ATGTGAAAAGGGATAGCTTCGGCTATCAA
16102375 ATGTGAAAAGG
1 ATGTGAAAAGG
16102386 AAAGGTATAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.35, C:0.10, G:0.30, T:0.25
Consensus pattern (29 bp):
ATGTGAAAAGGGATAGCTTCGGCTATCAA
Found at i:16102415 original size:33 final size:33
Alignment explanation
Indices: 16102378--16102512 Score: 124
Period size: 33 Copynumber: 4.3 Consensus size: 33
16102368 CTATCAAATG
* *
16102378 TGAAAAGGAAAGGTATACTTTGTGTATACCACA
1 TGAAAAGGAAAGGTATACTTTGTGTGTACCACT
** *
16102411 TGAAAAGGCTATGTATACTTTGTGTGTA-CACT
1 TGAAAAGGAAAGGTATACTTTGTGTGTACCACT
* * *
16102443 TG---A--AACGGCATAC-TT-TGTGTACCATT
1 TGAAAAGGAAAGGTATACTTTGTGTGTACCACT
* *
16102469 TGAAAAGGAAAGGTATACTTTGCGTGTACCATT
1 TGAAAAGGAAAGGTATACTTTGTGTGTACCACT
16102502 TGAAAAGGAAA
1 TGAAAAGGAAA
16102513 TGTGCACAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 16
0.73 0.13 0.15
Matches are distributed among these distances:
25 6 0.08
26 7 0.09
27 5 0.06
29 2 0.03
31 8 0.10
32 7 0.09
33 45 0.56
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATACTTTGTGTGTACCACT
Found at i:16102475 original size:58 final size:60
Alignment explanation
Indices: 16102392--16102506 Score: 144
Period size: 58 Copynumber: 1.9 Consensus size: 60
16102382 AAGGAAAGGT
** * *
16102392 ATACTTTGTGTATACCACATGAAAAGGCTATGTATACTTTGTGTGTA-CACTTGAAACGGC
1 ATACTTTGTG-ATACCACATGAAAAGGAAAGGTATACTTTGCGTGTACCACTTGAAACGGC
** *
16102452 ATACTTTGTG-TACCATTTGAAAAGGAAAGGTATACTTTGCGTGTACCATTTGAAA
1 ATACTTTGTGATACCACATGAAAAGGAAAGGTATACTTTGCGTGTACCACTTGAAA
16102507 AGGAAATGTG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
58 29 0.62
59 8 0.17
60 10 0.21
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (60 bp):
ATACTTTGTGATACCACATGAAAAGGAAAGGTATACTTTGCGTGTACCACTTGAAACGGC
Found at i:16105287 original size:25 final size:25
Alignment explanation
Indices: 16105259--16105309 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
16105249 TTATTGTGTG
16105259 TATAACATGAGAAGGTGGTGTAGCA
1 TATAACATGAGAAGGTGGTGTAGCA
*
16105284 TATAACATGAGAAGGTGGTGTGGCA
1 TATAACATGAGAAGGTGGTGTAGCA
16105309 T
1 T
16105310 CTTGATATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.33, T:0.25
Consensus pattern (25 bp):
TATAACATGAGAAGGTGGTGTAGCA
Found at i:16109246 original size:23 final size:23
Alignment explanation
Indices: 16109220--16109263 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
16109210 AACTTAATTT
16109220 TATATTAATATTAAATAAAAAAC
1 TATATTAATATTAAATAAAAAAC
16109243 TATATTAATATTAAATAAAAA
1 TATATTAATATTAAATAAAAA
16109264 TATGAAAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
TATATTAATATTAAATAAAAAAC
Found at i:16111768 original size:18 final size:18
Alignment explanation
Indices: 16111747--16111781 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
16111737 TAGAACAATA
16111747 TTAAATAACT-TATATATG
1 TTAAATAA-TATATATATG
16111765 TTAAATAATATATATAT
1 TTAAATAATATATATAT
16111782 ATATATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 15 0.94
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
TTAAATAATATATATATG
Found at i:16112076 original size:16 final size:15
Alignment explanation
Indices: 16112050--16112089 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
16112040 GTATTATATT
16112050 TTTTAAAAAAATTAA
1 TTTTAAAAAAATTAA
16112065 TTTTAAATAAAATTAA
1 TTTTAAA-AAAATTAA
16112081 -TTTAAAAAA
1 TTTTAAAAAA
16112090 TCAAAAATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.12
15 13 0.54
16 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TTTTAAAAAAATTAA
Found at i:16117655 original size:14 final size:14
Alignment explanation
Indices: 16117630--16117671 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
16117620 CAAAAGCATA
16117630 TAAAATTTAAAATTAT
1 TAAAA-TTAAAATT-T
16117646 T-AAATTAAAATTT
1 TAAAATTAAAATTT
16117659 TCAAAATTAAAAT
1 T-AAAATTAAAAT
16117672 CATAATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.08
14 8 0.33
15 13 0.54
16 1 0.04
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (14 bp):
TAAAATTAAAATTT
Found at i:16119943 original size:46 final size:46
Alignment explanation
Indices: 16119876--16120004 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
16119866 TATTTGGGCA
* * *
16119876 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
16119922 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * *
16119968 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16120005 GCGGGTTACA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:16123541 original size:33 final size:33
Alignment explanation
Indices: 16123504--16123626 Score: 174
Period size: 33 Copynumber: 3.7 Consensus size: 33
16123494 TACTCTCTAT
*
16123504 TTGGTGTGTTGGTTGGATTAGCTCTTATGAACA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAACA
* * *
16123537 TTGGTATGATGGTTGGTTTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAACA
*
16123570 TTGGTGTGCTGGTTGGATTAGCTCTTATGAACA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAACA
* * *
16123603 ATGGTGTGATGGATGGATTGGCTC
1 TTGGTGTGATGGTTGGATTAGCTC
16123627 GAATGAGCAT
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.18, C:0.10, G:0.33, T:0.40
Consensus pattern (33 bp):
TTGGTGTGATGGTTGGATTAGCTCTTATGAACA
Found at i:16123583 original size:66 final size:66
Alignment explanation
Indices: 16123504--16123642 Score: 197
Period size: 66 Copynumber: 2.1 Consensus size: 66
16123494 TACTCTCTAT
* * * * **
16123504 TTGGTGTGTTGGTTGGATTAGCTCTTATGAACATTGGTATGATGGTTGGTTTAGCTCTTATGAGC
1 TTGGTGTGCTGGTTGGATTAGCTCTTATGAACAATGGTATGATGGATGGATTAGCTCGAATGAGC
16123569 A
66 A
* *
16123570 TTGGTGTGCTGGTTGGATTAGCTCTTATGAACAATGGTGTGATGGATGGATTGGCTCGAATGAGC
1 TTGGTGTGCTGGTTGGATTAGCTCTTATGAACAATGGTATGATGGATGGATTAGCTCGAATGAGC
16123635 A
66 A
16123636 TCTGGTG
1 T-TGGTG
16123643 GGTTTGGTTG
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
66 59 0.92
67 5 0.08
ACGTcount: A:0.19, C:0.10, G:0.33, T:0.38
Consensus pattern (66 bp):
TTGGTGTGCTGGTTGGATTAGCTCTTATGAACAATGGTATGATGGATGGATTAGCTCGAATGAGC
A
Found at i:16125496 original size:62 final size:63
Alignment explanation
Indices: 16125381--16125510 Score: 160
Period size: 62 Copynumber: 2.1 Consensus size: 63
16125371 CGTGTGAGTT
* * * * **
16125381 ACAC-GACTGTGTGCCAGGTCGTGTAACTCACTGTTTGTGAATTAGGTTTACACAGGCCAGGG
1 ACACGGACTGTGTGCCAGGTCGTATAACTCACTGTTTGCGAATTAGGTTCACACAAGCCAAAG
16125443 ACACGGAC-GTGTGTCCAGGTCGTATAACTCACTGTTT-CGAATTAGAG-TCACACAAGCCAAAG
1 ACACGGACTGTGTG-CCAGGTCGTATAACTCACTGTTTGCGAATTAG-GTTCACACAAGCCAAAG
16125505 ACACGG
1 ACACGG
16125511 GCTTGTATCC
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
62 33 0.56
63 26 0.44
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (63 bp):
ACACGGACTGTGTGCCAGGTCGTATAACTCACTGTTTGCGAATTAGGTTCACACAAGCCAAAG
Found at i:16126165 original size:22 final size:22
Alignment explanation
Indices: 16126127--16126176 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
16126117 AATCTGCATC
*
16126127 TGTATCTAAATTGTTCTATAAT
1 TGTATCTAAATTCTTCTATAAT
**
16126149 TGTATCT-AATATCTTCTATTTT
1 TGTATCTAAAT-TCTTCTATAAT
16126171 TGTATC
1 TGTATC
16126177 CAATTATGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.26, C:0.12, G:0.08, T:0.54
Consensus pattern (22 bp):
TGTATCTAAATTCTTCTATAAT
Found at i:16130505 original size:24 final size:24
Alignment explanation
Indices: 16130473--16130520 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
16130463 GAGTTAGAAA
*
16130473 AGTTTCATAATATTTTCCACTTAT
1 AGTTTCATAACATTTTCCACTTAT
16130497 AGTTTCATAACATTTTCCACTTAT
1 AGTTTCATAACATTTTCCACTTAT
16130521 CAATGTTGCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.19, G:0.04, T:0.48
Consensus pattern (24 bp):
AGTTTCATAACATTTTCCACTTAT
Found at i:16134681 original size:105 final size:105
Alignment explanation
Indices: 16134499--16134714 Score: 342
Period size: 105 Copynumber: 2.1 Consensus size: 105
16134489 GCTGTTGATT
* * * * * *
16134499 TGTTTTGGTGAGTTGGATAATATGATATACCATCTCTCCATCTACCAATTTCACTTTTATACTAA
1 TGTTTTGGTAACTTGGAGAAGATGATATACCATCTCTCCATCCACAAATTTCACTTTTATACTAA
*
16134564 GACTAGTTTGTTAATTAACCTTAATTTACTTATTTAACTG
66 GACTAGTTTGTTAATTAACCTTAATTTACTTATTTAACTA
* *
16134604 TGTTTTGGTAACTTGGAGAAGATGATATACCATTTTTCCATCCACAAATTTCACTTTTATACTAA
1 TGTTTTGGTAACTTGGAGAAGATGATATACCATCTCTCCATCCACAAATTTCACTTTTATACTAA
*
16134669 GATTAGTTTGTTAATTAACCTTAATTTACTTATTTAACTA
66 GACTAGTTTGTTAATTAACCTTAATTTACTTATTTAACTA
16134709 TGTTTT
1 TGTTTT
16134715 AATTAAATTA
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 101 1.00
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (105 bp):
TGTTTTGGTAACTTGGAGAAGATGATATACCATCTCTCCATCCACAAATTTCACTTTTATACTAA
GACTAGTTTGTTAATTAACCTTAATTTACTTATTTAACTA
Found at i:16151501 original size:24 final size:24
Alignment explanation
Indices: 16151469--16151516 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
16151459 GAGTTAGAAA
*
16151469 AGTTTCATAATATTTTCCACTTAT
1 AGTTTCATAACATTTTCCACTTAT
16151493 AGTTTCATAACATTTTCCACTTAT
1 AGTTTCATAACATTTTCCACTTAT
16151517 CAATGTTGCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.19, G:0.04, T:0.48
Consensus pattern (24 bp):
AGTTTCATAACATTTTCCACTTAT
Found at i:16162585 original size:257 final size:256
Alignment explanation
Indices: 16162111--16162586 Score: 657
Period size: 257 Copynumber: 1.9 Consensus size: 256
16162101 AGGTGGATAT
* *
16162111 TAAGATTCTCTTGTTCTGAAGAAATAAAATATCACATCCAGCACGTAGGACATGACATTTCAAAC
1 TAAGATTATCTTGTTCTGAAGAAATAAAATATCACATCCAGCACGTAGGACACGACATTTCAAAC
* * * *
16162176 CTTCGATATCAAAATCATCTCATCACTTCCAAATTTATGCATTTAAATTTTAAGAAGGATATTCG
66 ATTCGATACCAAAATCATCTCATCACTTCCAAACTTATGCATTGAAATTTTAAGAAGGATATTCG
* * *
16162241 GTCGTTCGGTCAAACGATAAATCGAAACCCAGTACGTAGGGCACAATTTCTCAAAATTTCTAAAC
131 GTCGTTCGGTCAAACGATAAATCGAAACCCAGCACATAGGGCACAATTTCTCAAAATTTCCAAAC
* * *
16162306 ACGAAGCATTGCCTTGTTTTTTTTTAAAAGTCTTGAATAAAAATGCAATAATATGAAACGAA
196 ACGAAACATCGCC-TCTTTTTTTTTAAAAGTCTTGAATAAAAATGCAATAATATGAAACGAA
* * * *
16162368 TAAGATTATCTTGTTTTGAAGAAATAAAATATCACATCCTGCACGTAGGACACGATATTTCAAAT
1 TAAGATTATCTTGTTCTGAAGAAATAAAATATCACATCCAGCACGTAGGACACGACATTTCAAAC
* * * * * * *
16162433 ATTTGCTACCAAAATTATCTCATGATTTCCAAAACTTATGCGTTGAAGTTTTAAGAAGGATATTC
66 ATTCGATACCAAAATCATCTCATCACTTCC-AAACTTATGCATTGAAATTTTAAGAAGGATATTC
* * * * *
16162498 GGTCGTTCGGTCAAACGATAAATCGAAACCCAGCATATAGGGCACGATTTTCTCGATATTTCCGA
130 GGTCGTTCGGTCAAACGATAAATCGAAACCCAGCACATAGGGCAC-AATTTCTCAAAATTTCCAA
*
16162563 ACACGAAATATCGCC-CTTTTTTTT
194 ACACGAAACATCGCCTCTTTTTTTT
16162587 AGGTAAGTAT
Statistics
Matches: 188, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
257 90 0.48
258 72 0.38
259 26 0.14
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.32
Consensus pattern (256 bp):
TAAGATTATCTTGTTCTGAAGAAATAAAATATCACATCCAGCACGTAGGACACGACATTTCAAAC
ATTCGATACCAAAATCATCTCATCACTTCCAAACTTATGCATTGAAATTTTAAGAAGGATATTCG
GTCGTTCGGTCAAACGATAAATCGAAACCCAGCACATAGGGCACAATTTCTCAAAATTTCCAAAC
ACGAAACATCGCCTCTTTTTTTTTAAAAGTCTTGAATAAAAATGCAATAATATGAAACGAA
Found at i:16163025 original size:18 final size:18
Alignment explanation
Indices: 16163002--16163054 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
16162992 GGAGTTTAAC
16163002 GTAAATAATATATGAAAA
1 GTAAATAATATATGAAAA
16163020 GT--A-AAT-T-T--AAA
1 GTAAATAATATATGAAAA
16163031 GTAAATAATATATGAAAA
1 GTAAATAATATATGAAAA
16163049 GTAAAT
1 GTAAAT
16163055 TTAAAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 14
0.67 0.00 0.33
Matches are distributed among these distances:
11 5 0.18
13 2 0.07
14 4 0.14
15 4 0.14
16 2 0.07
18 11 0.39
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.30
Consensus pattern (18 bp):
GTAAATAATATATGAAAA
Found at i:16163029 original size:29 final size:29
Alignment explanation
Indices: 16162996--16163070 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
16162986 CATGAAGGAG
*
16162996 TTTAACGTAAATAATATATGAAAAGTAAA
1 TTTAAAGTAAATAATATATGAAAAGTAAA
16163025 TTTAAAGTAAATAATATATGAAAAGTAAA
1 TTTAAAGTAAATAATATATGAAAAGTAAA
*
16163054 TTTAAAATAAATAATAT
1 TTTAAAGTAAATAATAT
16163071 GTATATATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.57, C:0.01, G:0.08, T:0.33
Consensus pattern (29 bp):
TTTAAAGTAAATAATATATGAAAAGTAAA
Found at i:16163146 original size:3 final size:3
Alignment explanation
Indices: 16163133--16163172 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
16163123 ATGATGAACC
* *
16163133 TAA TAA AAA TAA TAA TAA TAA TAA TAA TAA -AA GAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
16163173 CTTTAAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:16163309 original size:12 final size:13
Alignment explanation
Indices: 16163287--16163319 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
16163277 AAAAAAAAAA
16163287 AAACTAAATAAAT
1 AAACTAAATAAAT
16163300 AAAC-AAATAAAT
1 AAACTAAATAAAT
*
16163312 AAATTAAA
1 AAACTAAA
16163320 AGGCTAGGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (13 bp):
AAACTAAATAAAT
Found at i:16164822 original size:44 final size:44
Alignment explanation
Indices: 16164706--16164865 Score: 158
Period size: 44 Copynumber: 3.6 Consensus size: 44
16164696 ATCCTTAATG
* * * * *
16164706 TGCTCTACTGCAACTCCAGAGAGATAAGAATCGTAACTTCAACC
1 TGCTCCACTGCAACTTCAGAGAGATAAGGATCGTGACTTCAATC
* * * * *
16164750 TGCCCCACTGCAACTTCAGGGGGATAAGGTTTGTGACTTCAATC
1 TGCTCCACTGCAACTTCAGAGAGATAAGGATCGTGACTTCAATC
* * * *
16164794 TGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATC
1 TGCTCCACTGCAACTTCAGAGAGATAAGGATCGTGACTTCAATC
* * * *
16164838 TGCTTCGCTACAACTTCAGAAAGATAAG
1 TGCTCCACTGCAACTTCAGAGAGATAAG
16164866 ATTCACCATG
Statistics
Matches: 96, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 96 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGAGAGATAAGGATCGTGACTTCAATC
Found at i:16164987 original size:45 final size:45
Alignment explanation
Indices: 16164932--16165136 Score: 149
Period size: 45 Copynumber: 4.6 Consensus size: 45
16164922 AGCTTTAATT
*
16164932 TGCTCTACTGCAACTTCAAAGAGATAAGATC-TGCTATCTTCAGTC
1 TGCTCTACTGCAACTTCAAGGAGATAAGATCATG-TATCTTCAGTC
* * * * **
16164977 TGCTCCACTGCAACTTCAGGGAAATAAGA-CTTGTAAAT-TTCAACC
1 TGCTCTACTGCAACTTCAAGGAGATAAGATCATGT--ATCTTCAGTC
* * * *
16165022 TGCTCCACTGCAACTTCAAGGAGAT----T-ATGTTTGTTCTGATC
1 TGCTCTACTGCAACTTCAAGGAGATAAGATCATGTATCTTCAG-TC
* * * * *
16165063 TACTCTACTGTAACTTC-AGAGAGATAAGATCATCTGTCTTCAGTT
1 TGCTCTACTGCAACTTCAAG-GAGATAAGATCATGTATCTTCAGTC
*
16165108 TGCTCTTCTGCAACTTCAAGGAGATAAGA
1 TGCTCTACTGCAACTTCAAGGAGATAAGA
16165137 CTTATAACTT
Statistics
Matches: 123, Mismatches: 24, Indels: 26
0.71 0.14 0.15
Matches are distributed among these distances:
39 1 0.01
40 5 0.04
41 23 0.19
44 2 0.02
45 80 0.65
46 12 0.10
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (45 bp):
TGCTCTACTGCAACTTCAAGGAGATAAGATCATGTATCTTCAGTC
Found at i:16165092 original size:131 final size:130
Alignment explanation
Indices: 16164934--16165185 Score: 344
Period size: 131 Copynumber: 1.9 Consensus size: 130
16164924 CTTTAATTTG
*
16164934 CTCTACTGCAACTTCAAAGAGATAAGATC-TGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGG
1 CTCTACTGCAACTTCAAAGAGATAAGATCAT-CTATCTTCAGTCTGCTCCACTGCAACTTCAAGG
* * ** * *
16164998 AAATAAGACTTGTAAATTTCAACCTGCTCCACTGCAACTTCAAGGAGATTATGTTTGTTCTGATC
65 AAATAAGACTTAT-AACTTCAACCCACTCCACTGCAACTTCAAGGAGATAAGGTTTGTTCTGATC
16165063 TA
129 TA
* * * * **
16165065 CTCTACTGTAACTTCAGAGAGATAAGATCATCTGTCTTCAGTTTGCTCTTCTGCAACTTCAAGGA
1 CTCTACTGCAACTTCAAAGAGATAAGATCATCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGA
* *
16165130 GATAAGACTTATAACTTCAACCCACTCCACTGCAACTTCAGGGAGATAAGGTTTGT
66 AATAAGACTTATAACTTCAACCCACTCCACTGCAACTTCAAGGAGATAAGGTTTGT
16165186 GATTTCACCG
Statistics
Matches: 105, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
130 38 0.36
131 66 0.63
132 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (130 bp):
CTCTACTGCAACTTCAAAGAGATAAGATCATCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGA
AATAAGACTTATAACTTCAACCCACTCCACTGCAACTTCAAGGAGATAAGGTTTGTTCTGATCTA
Found at i:16176962 original size:258 final size:257
Alignment explanation
Indices: 16176484--16176963 Score: 586
Period size: 258 Copynumber: 1.9 Consensus size: 257
16176474 CGAGGTGGAT
16176484 ATTAAGATTCTCTTGTTCTGAAGAAATAAAATATCACATCCAGCACGTAGGACACGACATTTCAA
1 ATTAAGATTCTCTTGTTCTGAAGAAATAAAATATCACATCCAGCACGTAGGACACGACATTTCAA
* * * * *
16176549 ACCTTCGATATCAAAATCATCTCATCACTTCCAAATTTATGCATTGAAATTTTAAGAAGGATATT
66 ACATTCGATACCAAAATCATCTCATCACTTCCAAACTTATGCATTGAAATTTTAAAAAAGATATT
* * * * * *
16176614 CGGTCGTTCGGTCAAACAATAAATCGAAACCCAGCACATAGGGCACAATTTCTCAAAATTTCCAA
131 CGATCGCTCAGCCAAACAATAAATCGAAACCCAACACATAAGGCACAATTTCTCAAAATTTCCAA
* **
16176679 ACAAGAAGCATTGCCTTGTTTTTTTTTTAAAAGTCTTGAATAAAAATGCAATAATATGAAACG
196 ACAAGAAACATTGCC-TCCTTTTTTTTTAAAAGTCTTGAATAAAAATGCAATAATATGAAACG
* * * *
16176742 ATTAAGATTCTTTTGTTTTGAAGAAATAAAATATCACATCCTA-CACGTAGGACACGATATTTTA
1 ATTAAGATTCTCTTGTTCTGAAGAAATAAAATATCACATCC-AGCACGTAGGACACGACATTTCA
* * * * * * * *
16176806 AATATTCGTTGCCAAAATCATCTTATGATTTCCAAAACTTATGCGTTGAAGTTTTAAAAAAGATA
65 AACATTCGATACCAAAATCATCTCATCACTTCC-AAACTTATGCATTGAAATTTTAAAAAAGATA
* * * * * * *
16176871 TTCGATTGCTCAGCCAAACGATAAATCGAAACCCAACACGTAAGGCACGATTTTCTCGATATTTT
129 TTCGATCGCTCAGCCAAACAATAAATCGAAACCCAACACATAAGGCAC-AATTTCTCAAAATTTC
* * *
16176936 CGAACACGAAATATTGCC-CCTTTTTTTT
193 CAAACAAGAAACATTGCCTCCTTTTTTTT
16176964 GGGTAAGTAT
Statistics
Matches: 183, Mismatches: 36, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
258 91 0.50
259 66 0.36
260 26 0.14
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (257 bp):
ATTAAGATTCTCTTGTTCTGAAGAAATAAAATATCACATCCAGCACGTAGGACACGACATTTCAA
ACATTCGATACCAAAATCATCTCATCACTTCCAAACTTATGCATTGAAATTTTAAAAAAGATATT
CGATCGCTCAGCCAAACAATAAATCGAAACCCAACACATAAGGCACAATTTCTCAAAATTTCCAA
ACAAGAAACATTGCCTCCTTTTTTTTTAAAAGTCTTGAATAAAAATGCAATAATATGAAACG
Found at i:16177402 original size:18 final size:18
Alignment explanation
Indices: 16177379--16177431 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
16177369 GGAGTTTAAC
16177379 GTAAATAATATATGAAAA
1 GTAAATAATATATGAAAA
16177397 GT--A-AAT-T-T--AAA
1 GTAAATAATATATGAAAA
16177408 GTAAATAATATATGAAAA
1 GTAAATAATATATGAAAA
16177426 GTAAAT
1 GTAAAT
16177432 TTAAAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 14
0.67 0.00 0.33
Matches are distributed among these distances:
11 5 0.18
13 2 0.07
14 4 0.14
15 4 0.14
16 2 0.07
18 11 0.39
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.30
Consensus pattern (18 bp):
GTAAATAATATATGAAAA
Found at i:16177406 original size:29 final size:29
Alignment explanation
Indices: 16177373--16177447 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
16177363 CATGAAGGAG
*
16177373 TTTAACGTAAATAATATATGAAAAGTAAA
1 TTTAAAGTAAATAATATATGAAAAGTAAA
16177402 TTTAAAGTAAATAATATATGAAAAGTAAA
1 TTTAAAGTAAATAATATATGAAAAGTAAA
*
16177431 TTTAAAATAAATAATAT
1 TTTAAAGTAAATAATAT
16177448 GTATATATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.57, C:0.01, G:0.08, T:0.33
Consensus pattern (29 bp):
TTTAAAGTAAATAATATATGAAAAGTAAA
Done.