Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold6
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: 4312818
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 226954 characters in sequence are not A, C, G, or T
File 10 of 14
Found at i:3093796 original size:21 final size:21
Alignment explanation
Indices: 3093769--3093839 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
3093759 GTGCTTTCTG
3093769 CTCTGCTTCCCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCTGC
* * * *
3093790 CTTTGCTTCTCTTGCTGTTGC
1 CTCTGCTTCCCTCGCTGCTGC
*
3093811 CTCTGCTTCCCTCGCTACTGC
1 CTCTGCTTCCCTCGCTGCTGC
3093832 CTCTGCTT
1 CTCTGCTT
3093840 TAAGTTGTAG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.01, C:0.41, G:0.17, T:0.41
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCTGC
Found at i:3096122 original size:9 final size:9
Alignment explanation
Indices: 3096108--3096340 Score: 93
Period size: 9 Copynumber: 25.2 Consensus size: 9
3096098 TAAGTATAAT
3096108 TAAGTTATG
1 TAAGTTATG
3096117 TAAGTTATG
1 TAAGTTATG
3096126 TAAGTTATG
1 TAAGTTATG
* * *
3096135 ATATGATATA
1 -TAAGTTATG
*
3096145 T-ATTTATG
1 TAAGTTATG
3096153 T-A-TTATG
1 TAAGTTATG
3096160 TAAGTTATG
1 TAAGTTATG
3096169 TAAGTTATG
1 TAAGTTATG
* * *
3096178 TGACTTACG
1 TAAGTTATG
3096187 TAAGTTATG
1 TAAGTTATG
* *
3096196 ATATGATATATA
1 -TAAG-T-TATG
* *
3096208 TAAGTAATT
1 TAAGTTATG
* *
3096217 TAAGATATT
1 TAAGTTATG
3096226 TAAGTATGTATG
1 TAAG--T-TATG
*
3096238 TGAGTTATG
1 TAAGTTATG
3096247 TAAGTTATG
1 TAAGTTATG
* * *
3096256 ATATGATATA
1 -TAAGTTATG
*
3096266 T-ATTTATG
1 TAAGTTATG
3096274 T-A-TTATG
1 TAAGTTATG
*
3096281 TAAGCTATG
1 TAAGTTATG
* *
3096290 TATTTGTTTTG
1 TA--AGTTATG
3096301 TAAGTTATGG
1 TAAGTTAT-G
* *
3096311 TATGATATATA
1 TAAG-T-TATG
3096322 TAAGTTAT-
1 TAAGTTATG
3096330 TAAGTTATG
1 TAAGTTATG
3096339 TA
1 TA
3096341 TGTGAGTTAT
Statistics
Matches: 166, Mismatches: 40, Indels: 36
0.69 0.17 0.15
Matches are distributed among these distances:
7 12 0.07
8 20 0.12
9 86 0.52
10 22 0.13
11 14 0.08
12 12 0.07
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:3096173 original size:43 final size:43
Alignment explanation
Indices: 3096112--3096291 Score: 150
Period size: 43 Copynumber: 4.4 Consensus size: 43
3096102 TATAATTAAG
3096112 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
* ** *
3096155 TTATGTAAGTTATGTAAGTTATG-TGACTTACGTA-AGTTATG-A
1 TTATGTAAGTTATGTAAGTTATGAT-A-TGATATATATTTATGTA
* * * *
3096197 -TATG--A-TATATATAAG-TA--AT-TTA-AGATATTTAAGTA
1 TTATGTAAGT-TATGTAAGTTATGATATGATATATATTTATGTA
*
3096232 TGTATGTGAGTTATGTAAGTTATGATATGATATATATTTATGTA
1 T-TATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
*
3096276 TTATGTAAGCTATGTA
1 TTATGTAAGTTATGTA
3096292 TTTGTTTTGT
Statistics
Matches: 106, Mismatches: 15, Indels: 32
0.69 0.10 0.21
Matches are distributed among these distances:
33 1 0.01
34 8 0.08
35 1 0.01
37 5 0.05
38 3 0.03
39 16 0.15
40 3 0.03
41 4 0.04
42 4 0.04
43 45 0.42
44 16 0.15
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.46
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
Found at i:3096281 original size:121 final size:114
Alignment explanation
Indices: 3096113--3096326 Score: 329
Period size: 121 Copynumber: 1.8 Consensus size: 114
3096103 ATAATTAAGT
*
3096113 TATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATG
1 TATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGCTATGT-A-TT-TG
3096178 TGACTTACGTAAGTTATGATATGATATATATAAGTAATTTAAGATATTTAAGTATG
63 T---TT-CGTAAGTTATGATATGATATATATAAGTAATTTAAGATATTTAAGTATG
*
3096234 TATGTGAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGCTATGTATTTGTTT
1 TATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGCTATGTATTTGTTT
* *
3096299 TGTAAGTTATGGTATGATATATATAAGT
66 CGTAAGTTATGATATGATATATATAAGT
3096327 TATTAAGTTA
Statistics
Matches: 89, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
114 26 0.29
115 2 0.02
118 3 0.03
119 2 0.02
120 1 0.01
121 55 0.62
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.46
Consensus pattern (114 bp):
TATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGCTATGTATTTGTTT
CGTAAGTTATGATATGATATATATAAGTAATTTAAGATATTTAAGTATG
Found at i:3096679 original size:74 final size:77
Alignment explanation
Indices: 3096522--3096679 Score: 236
Period size: 77 Copynumber: 2.1 Consensus size: 77
3096512 TGAATATAAT
*
3096522 TAATTTGTCTATATTTATCAAAATAAGTAAAATATATATATAAAAAAAAGACTTTGAGTTGGTAT
1 TAATTTGTCTATATTTATCAAAATAAGTAAAATATATATATAAAAAAAAGACTTTGAGTTGGCAT
*
3096587 TACAAGATACAA
66 TACAAAATACAA
*
3096599 TAATTTGTCTATATTTATCAAAATAAGTTAAAT-TA-A-A-AAAAAATAAGACTTTGAGTTGGCA
1 TAATTTGTCTATATTTATCAAAATAAGTAAAATATATATATAAAAAA-AAGACTTTGAGTTGGCA
3096660 TTACAAAATA-AA
65 TTACAAAATACAA
3096672 TATATTTG
1 TA-ATTTG
3096680 GCAAAATAAT
Statistics
Matches: 76, Mismatches: 3, Indels: 7
0.88 0.03 0.08
Matches are distributed among these distances:
73 10 0.13
74 31 0.41
75 1 0.01
76 2 0.03
77 32 0.42
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.36
Consensus pattern (77 bp):
TAATTTGTCTATATTTATCAAAATAAGTAAAATATATATATAAAAAAAAGACTTTGAGTTGGCAT
TACAAAATACAA
Found at i:3096871 original size:66 final size:66
Alignment explanation
Indices: 3096797--3096935 Score: 172
Period size: 66 Copynumber: 2.1 Consensus size: 66
3096787 TATAAAATCG
* * * *
3096797 ATAATTTATT-AAATTACATAAAAAATTGATCATTTATTGACATAAAATCAAATAAACTAATCAA
1 ATAATTTATTCAAATTA-ATAAAAAATCGATAATTTATTCACATAAAACCAAATAAACTAATCAA
3096861 AC
65 AC
* ** * * *
3096863 ATAATTTATTCAATTTAATCGAAAATCGATAATTTATTCACATTAAACCGAATAAAGTAATCAAA
1 ATAATTTATTCAAATTAATAAAAAATCGATAATTTATTCACATAAAACCAAATAAACTAATCAAA
3096928 C
66 C
3096929 ATAATTT
1 ATAATTT
3096936 TTTTCAATTA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
66 57 0.92
67 5 0.08
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.35
Consensus pattern (66 bp):
ATAATTTATTCAAATTAATAAAAAATCGATAATTTATTCACATAAAACCAAATAAACTAATCAAA
C
Found at i:3096947 original size:66 final size:66
Alignment explanation
Indices: 3096818--3096948 Score: 174
Period size: 66 Copynumber: 2.0 Consensus size: 66
3096808 AATTACATAA
* * * *
3096818 AAAATTGATCATTTATTGACATAAAATCAAATAAACTAATCAAACATAATTTATTCAATTTAATC
1 AAAATCGATAATTTATTCACATAAAACCAAATAAACTAATCAAACATAATTTATTCAATTTAATC
3096883 G
66 G
* * * *
3096884 AAAATCGATAATTTATTCACATTAAACCGAATAAAGTAATCAAACATAATTTTTTTCAA-TTAAT
1 AAAATCGATAATTTATTCACATAAAACCAAATAAACTAATCAAACATAA-TTTATTCAATTTAAT
3096948 C
65 C
3096949 AAATATATAA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
66 48 0.86
67 8 0.14
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.35
Consensus pattern (66 bp):
AAAATCGATAATTTATTCACATAAAACCAAATAAACTAATCAAACATAATTTATTCAATTTAATC
G
Found at i:3099871 original size:8 final size:7
Alignment explanation
Indices: 3099852--3100093 Score: 130
Period size: 7 Copynumber: 33.9 Consensus size: 7
3099842 ACTAATTAAT
3099852 CTAAACC
1 CTAAACC
3099859 CTAAACTC
1 CTAAAC-C
3099867 CTAAATCC
1 CTAAA-CC
*
3099875 TCAAAACC
1 -CTAAACC
*
3099883 CTGAACC
1 CTAAACC
3099890 CTAAACCC
1 CTAAA-CC
3099898 CT-AACC
1 CTAAACC
* *
3099904 ATTAACCC
1 -CTAAACC
3099912 CTAAACC
1 CTAAACC
*
3099919 TTAAACC
1 CTAAACC
*
3099926 C-CAACAC
1 CTAAAC-C
3099933 CTAAACC
1 CTAAACC
*
3099940 TTAAACC
1 CTAAACC
3099947 CTAAACC
1 CTAAACC
*
3099954 GTAAACC
1 CTAAACC
* *
3099961 ATAATCC
1 CTAAACC
3099968 CTAAACC
1 CTAAACC
*
3099975 CATAATCC
1 C-TAAACC
*
3099983 ATAAACC
1 CTAAACC
* **
3099990 TTAAATA
1 CTAAACC
*
3099997 GT-AACTC
1 CTAAAC-C
*
3100004 ATAAACC
1 CTAAACC
*
3100011 TTAAACC
1 CTAAACC
*
3100018 ATAAACC
1 CTAAACC
*
3100025 ATAAACC
1 CTAAACC
* *
3100032 ATAATCC
1 CTAAACC
3100039 CTAAACC
1 CTAAACC
*
3100046 CTAAATC
1 CTAAACC
* *
3100053 TTAAAAC
1 CTAAACC
*
3100060 ATAAACC
1 CTAAACC
* *
3100067 ATATACC
1 CTAAACC
3100074 CTAAACC
1 CTAAACC
*
3100081 ATAAACC
1 CTAAACC
3100088 CTAAAC
1 CTAAAC
3100094 TATAATGATA
Statistics
Matches: 180, Mismatches: 44, Indels: 22
0.73 0.18 0.09
Matches are distributed among these distances:
6 7 0.04
7 141 0.78
8 27 0.15
9 5 0.03
ACGTcount: A:0.45, C:0.34, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:3099918 original size:15 final size:14
Alignment explanation
Indices: 3099881--3099927 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
3099871 ATCCTCAAAA
*
3099881 CCCTGAACCCTAAAC
1 CCCT-AACCTTAAAC
3099896 CCCTAACCATT-AAC
1 CCCTAACC-TTAAAC
3099910 CCCTAAACCTTAAAC
1 CCCT-AACCTTAAAC
3099925 CCC
1 CCC
3099928 AACACCTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 13 0.46
15 15 0.54
ACGTcount: A:0.34, C:0.47, G:0.02, T:0.17
Consensus pattern (14 bp):
CCCTAACCTTAAAC
Found at i:3100614 original size:114 final size:115
Alignment explanation
Indices: 3100409--3100655 Score: 361
Period size: 114 Copynumber: 2.2 Consensus size: 115
3100399 GTCGACCTAT
* * *
3100409 AAAAAGCGCCGCTAATGCCACTAAAAGCTCAACATAAAACGACGGTGTTGTGGTTAATTTTTTGC
1 AAAAAGCGCCGCTAATGCCACTAAAAGCTCAACATAAAACAACGGAGTTGTGCTTAATTTTTTGC
* * * * *
3100474 GACATTTTTCAATGAGGGCCGCTAATGCTCGACCTATAGTGGCGTTTTTC
66 GACACTTTTCAAAGAGCGCCGCTAATGCTCGACCTATAGCGGCGCTTTTC
*
3100524 AAAAAGCACCGCTAATGCCACT-AAAGCTCAACATAAAACAACGGAGTTGTGCTTAATTTTTTGC
1 AAAAAGCGCCGCTAATGCCACTAAAAGCTCAACATAAAACAACGGAGTTGTGCTTAATTTTTTGC
* * * *
3100588 GCCGCTTTTCAAAGAGCGCCGGTAATGCTTGACCTATAGCGGCGCTTTTC
66 GACACTTTTCAAAGAGCGCCGCTAATGCTCGACCTATAGCGGCGCTTTTC
*
3100638 GAAAAGCGCCGCTAATGC
1 AAAAAGCGCCGCTAATGC
3100656 TCGACCTATA
Statistics
Matches: 117, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
114 96 0.82
115 21 0.18
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (115 bp):
AAAAAGCGCCGCTAATGCCACTAAAAGCTCAACATAAAACAACGGAGTTGTGCTTAATTTTTTGC
GACACTTTTCAAAGAGCGCCGCTAATGCTCGACCTATAGCGGCGCTTTTC
Found at i:3100634 original size:40 final size:40
Alignment explanation
Indices: 3100590--3100695 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 40
3100580 TTTTTTGCGC
* *
3100590 CGCTTTTC-AAAGAGCGCCGGTAATGCTTGACCTATAGCGG
1 CGCTTTTCGAAA-AGCGCCGCTAATGCTCGACCTATAGCGG
*
3100630 CGCTTTTCGAAAAGCGCCGCTAATGCTCGACCTATAGAGG
1 CGCTTTTCGAAAAGCGCCGCTAATGCTCGACCTATAGCGG
** *
3100670 CATTTTTC-AACAAGCGCCTCTAATGC
1 CGCTTTTCGAA-AAGCGCCGCTAATGC
3100696 CACTAAAGCT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
39 2 0.03
40 53 0.91
41 3 0.05
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CGCTTTTCGAAAAGCGCCGCTAATGCTCGACCTATAGCGG
Found at i:3100759 original size:154 final size:154
Alignment explanation
Indices: 3100491--3100830 Score: 488
Period size: 154 Copynumber: 2.2 Consensus size: 154
3100481 TTCAATGAGG
* *
3100491 GCCGCTAATGCTCGACCTATAGTGGCGTTTTTCAAAAAGCACCGCTAATGCCACTAAAGCTCAAC
1 GCCGCTAATGCTCGACCTATAGAGGCATTTTTCAAAAAGCACCGCTAATGCCACTAAAGCTCAAC
* * *
3100556 ATAAAACAACGGAGTTGTGCTTAATTTTTTGCGCCGCTTTTCAAAGAGCGCCGGTAATGCTTGAC
66 ATAAAACAACGCAGTTGTGCTTAATTTTTTGCGCCGCTTTTCAAAGAGCGCCGCTAATGCTCGAC
3100621 CTATAGCGGCGCTTTTCGAA-AAGC
131 CTATAGCGGCGCTTTTC-AACAAGC
* * *
3100645 GCCGCTAATGCTCGACCTATAGAGGCATTTTTCAACAAGCGCCTCTAATGCCACTAAAGCTCAAC
1 GCCGCTAATGCTCGACCTATAGAGGCATTTTTCAAAAAGCACCGCTAATGCCACTAAAGCTCAAC
* *
3100710 ATAAAACGACAGCA-TTGTGCTTAATTTTTTGCTG-TGCTTTTCAAAGAGCGCCGCTAATGCTCG
66 ATAAAACAAC-GCAGTTGTGCTTAATTTTTTGC-GCCGCTTTTCAAAGAGCGCCGCTAATGCTCG
* *
3100773 ACCTATAGCGGCGTTTTTCAACAAGG
129 ACCTATAGCGGCGCTTTTCAACAAGC
* * * *
3100799 GCCACTAATGCCCGAGCTATAGCGGCATTTTT
1 GCCGCTAATGCTCGACCTATAGAGGCATTTTT
3100831 TGTCAAAACT
Statistics
Matches: 167, Mismatches: 16, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
153 2 0.01
154 162 0.97
155 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (154 bp):
GCCGCTAATGCTCGACCTATAGAGGCATTTTTCAAAAAGCACCGCTAATGCCACTAAAGCTCAAC
ATAAAACAACGCAGTTGTGCTTAATTTTTTGCGCCGCTTTTCAAAGAGCGCCGCTAATGCTCGAC
CTATAGCGGCGCTTTTCAACAAGC
Found at i:3103290 original size:18 final size:18
Alignment explanation
Indices: 3103264--3103305 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
3103254 GATTGGGAAA
* *
3103264 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
3103282 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
3103300 AGGATA
1 AGGATA
3103306 TGCACCTGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.43, C:0.07, G:0.29, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:3104884 original size:25 final size:24
Alignment explanation
Indices: 3104835--3104887 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
3104825 ACTGTTATAA
* *
3104835 AAAATTATAAAATAAAAATTAATT
1 AAAATTACAAAATAAAAAATAATT
3104859 AAAATTACATAAATAAAAAA-ATATT
1 AAAATTACA-AAATAAAAAATA-ATT
3104884 AAAA
1 AAAA
3104888 AATTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (24 bp):
AAAATTACAAAATAAAAAATAATT
Found at i:3105081 original size:11 final size:11
Alignment explanation
Indices: 3105067--3105131 Score: 71
Period size: 11 Copynumber: 5.9 Consensus size: 11
3105057 TCTTAAAAAT
3105067 AATTTGAGAGG
1 AATTTGAGAGG
*
3105078 AATTTTAGAGG
1 AATTTGAGAGG
**
3105089 AATTTGAGAAA
1 AATTTGAGAGG
3105100 AATTTGAGA-G
1 AATTTGAGAGG
3105110 AATATT-AGAGAG
1 AAT-TTGAGAG-G
3105122 AATTTGAGAG
1 AATTTGAGAG
3105132 AAATGATTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
10 6 0.13
11 31 0.69
12 8 0.18
ACGTcount: A:0.43, C:0.00, G:0.28, T:0.29
Consensus pattern (11 bp):
AATTTGAGAGG
Found at i:3105106 original size:33 final size:33
Alignment explanation
Indices: 3105067--3105135 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
3105057 TCTTAAAAAT
*
3105067 AATTTGAGAGGAATTTTAGAG-GAATTTGAGAAA
1 AATTTGAGA-GAATATTAGAGAGAATTTGAGAAA
*
3105100 AATTTGAGAGAATATTAGAGAGAATTTGAGAGA
1 AATTTGAGAGAATATTAGAGAGAATTTGAGAAA
3105133 AAT
1 AAT
3105136 GATTAAGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 10 0.30
33 23 0.70
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (33 bp):
AATTTGAGAGAATATTAGAGAGAATTTGAGAAA
Found at i:3106757 original size:23 final size:23
Alignment explanation
Indices: 3106727--3106772 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
3106717 GGGATGCAAT
3106727 TTGCTGAAGTATCCCCCTAAAAC
1 TTGCTGAAGTATCCCCCTAAAAC
3106750 TTGCTGAAGTATCCCCCTAAAAC
1 TTGCTGAAGTATCCCCCTAAAAC
3106773 ACTCCTACGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.26
Consensus pattern (23 bp):
TTGCTGAAGTATCCCCCTAAAAC
Found at i:3108324 original size:85 final size:85
Alignment explanation
Indices: 3108181--3108354 Score: 269
Period size: 85 Copynumber: 2.0 Consensus size: 85
3108171 ACCTAAACCT
* ** *
3108181 GAGAAGAAAACGGCAGCAGTAATAAGTACTGATGGTGGTCCATCCAAGAGCGGATCAGGATATAC
1 GAGAAGAAAACGGCAGCAGTAATAACTACTGATGGTGGTCCATCCAAGAGAAGATCAGGATATAA
3108246 TGAAGATATTAGAGTAATAG
66 TGAAGATATTAGAGTAATAG
* *
3108266 GAGAAGAACAA-GGCAGCGGTAGTAACTACTGATGGTGGTCCATCCAAGAGAAGATCAGGATATA
1 GAGAAGAA-AACGGCAGCAGTAATAACTACTGATGGTGGTCCATCCAAGAGAAGATCAGGATATA
*
3108330 ATGAAGATATTGGAGTAATAG
65 ATGAAGATATTAGAGTAATAG
3108351 GAGA
1 GAGA
3108355 TGGGTCGAGG
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
85 79 0.98
86 2 0.02
ACGTcount: A:0.39, C:0.12, G:0.29, T:0.20
Consensus pattern (85 bp):
GAGAAGAAAACGGCAGCAGTAATAACTACTGATGGTGGTCCATCCAAGAGAAGATCAGGATATAA
TGAAGATATTAGAGTAATAG
Found at i:3110342 original size:20 final size:20
Alignment explanation
Indices: 3110317--3110354 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3110307 AAAGCTATTC
*
3110317 AGAGGCACCGTAGTGCAAAT
1 AGAGGCACCGAAGTGCAAAT
*
3110337 AGAGGCATCGAAGTGCAA
1 AGAGGCACCGAAGTGCAA
3110355 TACTATACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.18, G:0.32, T:0.13
Consensus pattern (20 bp):
AGAGGCACCGAAGTGCAAAT
Found at i:3116520 original size:44 final size:43
Alignment explanation
Indices: 3116447--3116532 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 43
3116437 TCAAGGACAT
* *
3116447 GGCCATGTGGCCAAATTGTGTACAGTTCAAAAATAGGGTCACAC
1 GGCCATGTCGCCAAATTGTGTACAGTTC-AAAATAAGGTCACAC
3116491 GGCCATGTCGCCAAACCTTGTGT-CA-TTCAAAATAAGGTCACA
1 GGCCATGTCGCCAAA--TTGTGTACAGTTCAAAATAAGGTCACA
3116533 TGGTTGTGTC
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
43 13 0.34
44 17 0.45
45 2 0.05
46 6 0.16
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.23
Consensus pattern (43 bp):
GGCCATGTCGCCAAATTGTGTACAGTTCAAAATAAGGTCACAC
Found at i:3119956 original size:25 final size:25
Alignment explanation
Indices: 3119921--3120017 Score: 158
Period size: 25 Copynumber: 3.9 Consensus size: 25
3119911 CAGGCCTATT
* *
3119921 TTTACAACTCGTGTGAGCATACCGA
1 TTTACAGCTCGTGTGAGCATACTGA
3119946 TTTACAGCTCGTGTGAGCATACTGA
1 TTTACAGCTCGTGTGAGCATACTGA
3119971 TTTACAGCTCGTGTGAGCATACTGA
1 TTTACAGCTCGTGTGAGCATACTGA
* *
3119996 TTTATAGCTCGTGTGAGTATAC
1 TTTACAGCTCGTGTGAGCATAC
3120018 ATGTACAAGA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 68 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (25 bp):
TTTACAGCTCGTGTGAGCATACTGA
Found at i:3125686 original size:20 final size:20
Alignment explanation
Indices: 3125661--3125700 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3125651 TACTTTCTTA
3125661 TTTACTTACTCCCTTACTTG
1 TTTACTTACTCCCTTACTTG
**
3125681 TTTACTTACTTGCTTACTTG
1 TTTACTTACTCCCTTACTTG
3125701 AATAACTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.25, G:0.07, T:0.53
Consensus pattern (20 bp):
TTTACTTACTCCCTTACTTG
Found at i:3126019 original size:50 final size:50
Alignment explanation
Indices: 3125959--3126135 Score: 165
Period size: 50 Copynumber: 3.4 Consensus size: 50
3125949 TGCCATATAG
* * ** * * *
3125959 CAGATATGGTCATACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTCC
* *
3126009 CAGACATGGTCTTACAGGGGACCTCTCATCTAGGTGCCAACGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTCC
* * ** * *
3126059 TAGACATGGTCTTACGTGGGACCTCTCATAACCTCAATAATGCCAATGTCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-GGTGCCAACGCCATGTCC
3126115 CAGACATGGTCTTACATGGGA
1 CAGACATGGTCTTACATGGGA
3126136 TCTCATTCCT
Statistics
Matches: 102, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
50 67 0.66
53 1 0.01
55 1 0.01
56 33 0.32
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (50 bp):
CAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTCC
Found at i:3137966 original size:27 final size:28
Alignment explanation
Indices: 3137936--3137995 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
3137926 TTGAATTTAG
*
3137936 TAAACAAC-GGATAG-TCCTCTGGGACAA
1 TAAACAACAGGATAGTTCATC-GGGACAA
3137963 TAAAC-ACAGGATAGTTCATCGGGACAA
1 TAAACAACAGGATAGTTCATCGGGACAA
3137990 TAAACA
1 TAAACA
3137996 CAAGAGAGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 2 0.07
27 23 0.79
28 4 0.14
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (28 bp):
TAAACAACAGGATAGTTCATCGGGACAA
Found at i:3138014 original size:27 final size:27
Alignment explanation
Indices: 3137957--3138030 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
3137947 TAGTCCTCTG
* * ** * *
3137957 GGACAATAAACACAGGATAGTTCATCG
1 GGACAATAAACACAAGAGAGCCCACCA
3137984 GGACAATAAACACAAGAGAGCCCACCA
1 GGACAATAAACACAAGAGAGCCCACCA
* *
3138011 GGACAGTAAACACGAGAGAG
1 GGACAATAAACACAAGAGAG
3138031 TTCGCCAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.45, C:0.22, G:0.24, T:0.09
Consensus pattern (27 bp):
GGACAATAAACACAAGAGAGCCCACCA
Found at i:3139904 original size:25 final size:25
Alignment explanation
Indices: 3139876--3139934 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
3139866 TACAGCTTGC
*
3139876 GTGAGCATTTACAGTTACAGCTCAT
1 GTGAGCATTTACAGTCACAGCTCAT
* * **
3139901 GTGAGCTTTTACCGTCACAGCTTGT
1 GTGAGCATTTACAGTCACAGCTCAT
3139926 GTGAGCATT
1 GTGAGCATT
3139935 GTTCCTGTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (25 bp):
GTGAGCATTTACAGTCACAGCTCAT
Found at i:3140009 original size:13 final size:13
Alignment explanation
Indices: 3139978--3140025 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
3139968 TCATCAGGTG
3139978 GAAATGGATATATAT
1 GAAATGG-T-TATAT
*
3139993 GAAATGGTTATAC
1 GAAATGGTTATAT
*
3140006 GAAATGGATATAT
1 GAAATGGTTATAT
3140019 GAAATGG
1 GAAATGG
3140026 ACATTTGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 22 0.73
14 1 0.03
15 7 0.23
ACGTcount: A:0.44, C:0.02, G:0.25, T:0.29
Consensus pattern (13 bp):
GAAATGGTTATAT
Found at i:3140026 original size:13 final size:13
Alignment explanation
Indices: 3139987--3140050 Score: 76
Period size: 13 Copynumber: 4.9 Consensus size: 13
3139977 GGAAATGGAT
3139987 ATATATGAAATGG
1 ATATATGAAATGG
* *
3140000 TTATACGAAATGG
1 ATATATGAAATGG
3140013 ATATATGAAATGG
1 ATATATGAAATGG
* *
3140026 ACATTTGAAATGG
1 ATATATGAAATGG
3140039 ATACT-TGAAATG
1 ATA-TATGAAATG
3140051 AAAATGTGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
13 42 0.98
14 1 0.02
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.31
Consensus pattern (13 bp):
ATATATGAAATGG
Found at i:3140035 original size:26 final size:26
Alignment explanation
Indices: 3139978--3140050 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 26
3139968 TCATCAGGTG
**
3139978 GAAATGGATATATATGAAATGGTTATAC
1 GAAATGG--ATATATGAAATGGACATAC
**
3140006 GAAATGGATATATGAAATGGACATTT
1 GAAATGGATATATGAAATGGACATAC
3140032 GAAATGGATACT-TGAAATG
1 GAAATGGATA-TATGAAATG
3140051 AAAATGTGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
26 32 0.80
27 1 0.03
28 7 0.17
ACGTcount: A:0.42, C:0.04, G:0.23, T:0.30
Consensus pattern (26 bp):
GAAATGGATATATGAAATGGACATAC
Found at i:3140060 original size:26 final size:26
Alignment explanation
Indices: 3140006--3140061 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
3139996 ATGGTTATAC
* * *
3140006 GAAATGGATATATGAAATGGACATTT
1 GAAATGGATATATGAAATGAAAATGT
3140032 GAAATGGATACT-TGAAATGAAAATGT
1 GAAATGGATA-TATGAAATGAAAATGT
3140058 GAAA
1 GAAA
3140062 AGTTAAATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.46, C:0.04, G:0.23, T:0.27
Consensus pattern (26 bp):
GAAATGGATATATGAAATGAAAATGT
Found at i:3153415 original size:7 final size:8
Alignment explanation
Indices: 3153398--3153422 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
3153388 TACCAAATGT
3153398 AAAAATAA
1 AAAAATAA
3153406 AAAAATAA
1 AAAAATAA
3153414 AAAAATAA
1 AAAAATAA
3153422 A
1 A
3153423 TGGCAACAAT
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:3154369 original size:16 final size:16
Alignment explanation
Indices: 3154348--3154380 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3154338 TTTAAAAGAT
3154348 TTGAAA-GAAAACTCAA
1 TTGAAATGAAAA-TCAA
3154364 TTGAAATGAAAATCAA
1 TTGAAATGAAAATCAA
3154380 T
1 T
3154381 GCCGAAGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.55, C:0.09, G:0.12, T:0.24
Consensus pattern (16 bp):
TTGAAATGAAAATCAA
Found at i:3154913 original size:17 final size:17
Alignment explanation
Indices: 3154891--3154931 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
3154881 TTTACAGAAG
*
3154891 AAAATAATAAATAA-ATA
1 AAAATAATAAA-AATAGA
3154908 AAAATAATAAAAATAGA
1 AAAATAATAAAAATAGA
3154925 AAAATAA
1 AAAATAA
3154932 AAACCCAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 20 0.91
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAATAATAAAAATAGA
Found at i:3154918 original size:9 final size:9
Alignment explanation
Indices: 3154891--3154931 Score: 50
Period size: 8 Copynumber: 4.8 Consensus size: 9
3154881 TTTACAGAAG
3154891 AAAATAATA
1 AAAATAATA
*
3154900 AATA-AATA
1 AAAATAATA
3154908 AAAATAATA
1 AAAATAATA
*
3154917 AAAAT-AGA
1 AAAATAATA
3154925 AAAATAA
1 AAAATAA
3154932 AAACCCAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
8 14 0.52
9 13 0.48
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (9 bp):
AAAATAATA
Found at i:3155826 original size:50 final size:50
Alignment explanation
Indices: 3155772--3156354 Score: 332
Period size: 50 Copynumber: 11.7 Consensus size: 50
3155762 TACACTGCCT
* * *
3155772 GGGAAGTAAGATTCACTATTGTAGCTTTAATCTTTCTAACTGCAATATCG
1 GGGAAGTAAGATTCACCATTGTGGCTTTAATCTTTCTAACTGCAATGTCG
* * * * * ** *
3155822 GGGAAGCAAGATTCGCCGTTGTGGCGTTAATCTATTC-CACTGCACCG-CTT
1 GGGAAGTAAGATTCACCATTGTGGCTTTAATCT-TTCTAACTGCAATGTC-G
* * * *
3155872 GAGAAGTAAGATTCACTATTGTAGCTTTAATCTTTTTAACTGCAATGTCG
1 GGGAAGTAAGATTCACCATTGTGGCTTTAATCTTTCTAACTGCAATGTCG
* * * * * *
3155922 GGGAAGCAAGGTTCACCATCGTGGCTTTAATC-TGCTCCACTGC-ATCGTCA
1 GGGAAGTAAGATTCACCATTGTGGCTTTAATCTTTCT-AACTGCAAT-GTCG
* * ** * * *
3155972 GAGATGTAAGATTCACTGTTGTGGCTTCAATCTTTTTAACTGCAATGCCG
1 GGGAAGTAAGATTCACCATTGTGGCTTTAATCTTTCTAACTGCAATGTCG
* * * * ** *
3156022 GGGAAGCAAGATTCACCGA-TGTGGCTTTAATTTGTTC-CACTGTACCGCTTG
1 GGGAAGTAAGATTCACC-ATTGTGGCTTTAATCT-TTCTAACTGCAATG-TCG
** * * * * *
3156073 GGGAA-TAAGATTTGCCGTTATAGCTTTAATCTTTTTAACTGCAATGTTG
1 GGGAAGTAAGATTCACCATTGTGGCTTTAATCTTTCTAACTGCAATGTCG
* ** * * ** *
3156122 AGGAAGCGAGATTCACCGA-TGTGGCTTTAATC-TGCTCCACTGC-ATCACTA
1 GGGAAGTAAGATTCACC-ATTGTGGCTTTAATCTTTCT-AACTGCAATGTC-G
* * * * *
3156172 GAGAAGTAAGATTCACCACTGTGGCTTTAATCTTTTTAACTACAATGTCA
1 GGGAAGTAAGATTCACCATTGTGGCTTTAATCTTTCTAACTGCAATGTCG
* * * * *
3156222 GGGAAGCAAGATTCACCGA-TGTGGCTTTAATC-TACTCCACTGC-ATCGCCA
1 GGGAAGTAAGATTCACC-ATTGTGGCTTTAATCTTTCT-AACTGCAAT-GTCG
* * ** * *
3156272 GGGAGGTGAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCG
1 GGGAAGTAAGATTCACCATTGTGGCTTTAATCTTTCTAACTGCAATGTCG
3156322 GGGAAGCT-AGATTCACCGA-TGTGGCTTTAATCT
1 GGGAAG-TAAGATTCACC-ATTGTGGCTTTAATCT
3156355 ACTCCACTGC
Statistics
Matches: 386, Mismatches: 119, Indels: 56
0.69 0.21 0.10
Matches are distributed among these distances:
49 25 0.06
50 334 0.87
51 27 0.07
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (50 bp):
GGGAAGTAAGATTCACCATTGTGGCTTTAATCTTTCTAACTGCAATGTCG
Found at i:3155837 original size:100 final size:99
Alignment explanation
Indices: 3155696--3156384 Score: 729
Period size: 100 Copynumber: 6.9 Consensus size: 99
3155686 TAACTCGTAA
* * ** * * * * * *
3155696 CTTTAATATGTTTAACTGTGATGTCGAGGAAGCAAGGTTCGCC-ATTATGGCTTCAATCTGTTCC
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGCTCC
* *
3155760 ACTACACTGCCTGGGAAGTAAGATTCACTATTGTAG
65 ACTGCA-TGCCTGAGAAGTAAGATTCACTATTGTAG
* * * * * **
3155796 CTTTAATCTTTCTAACTGCAATATCGGGGAAGCAAGATTCGCCGTTGTGGCGTTAATCTATTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCA
* *
3155861 CTGCACCGCTTGAGAAGTAAGATTCACTATTGTAG
66 CTGCA-TGCCTGAGAAGTAAGATTCACTATTGTAG
*
3155896 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCACC-ATCGTGGCTTTAATCTGCTCC
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGAT-GTGGCTTTAATCTGCTCC
* * * * *
3155960 ACTGCATCGTCAGAGATGTAAGATTCACTGTTGTGG
65 ACTGCAT-GCCTGAGAAGTAAGATTCACTATTGTAG
* * * *
3155996 CTTCAATCTTTTTAACTGCAATGCCGGGGAAGCAAGATTCACCGATGTGGCTTTAATTTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCA
* * * * ** ** *
3156061 CTGTACCGCTTGGGGAA-TAAGATTTGCCGTTATAG
66 CTGCA-TGCCT-GAGAAGTAAGATTCACTATTGTAG
* * *
3156096 CTTTAATCTTTTTAACTGCAATGTTGAGGAAGCGAGATTCACCGATGTGGCTTTAATCTGCTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCA
* * *
3156161 CTGCAT-CACTAGAGAAGTAAGATTCACCACTGTGG
66 CTGCATGC-CT-GAGAAGTAAGATTCACTATTGTAG
* * *
3156196 CTTTAATCTTTTTAACTACAATGTCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTACTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCA
* * * * *
3156261 CTGCATCGCCAGGGAGGTGAGATTCACTGTTGTAG
66 CTGCAT-GCCTGAGAAGTAAGATTCACTATTGTAG
* *
3156296 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCTAGATTCACCGATGTGGCTTTAATCTACTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCA
* *
3156361 CTGCATCTCCAGAGAAGTAAGATT
66 CTGCAT-GCCTGAGAAGTAAGATT
3156385 GTTGATTTCA
Statistics
Matches: 491, Mismatches: 88, Indels: 20
0.82 0.15 0.03
Matches are distributed among these distances:
98 1 0.00
99 6 0.01
100 477 0.97
101 6 0.01
102 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (99 bp):
CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCA
CTGCATGCCTGAGAAGTAAGATTCACTATTGTAG
Found at i:3156006 original size:200 final size:199
Alignment explanation
Indices: 3155696--3156384 Score: 837
Period size: 200 Copynumber: 3.4 Consensus size: 199
3155686 TAACTCGTAA
* * ** * * * * *
3155696 CTTTAATATGTTTAACTGTGATGTCGAGGAAGCAAGGTTCGCC-ATTATGGCTTCAATCTGTTCC
1 CTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGCTCC
* * * * * *
3155760 ACTACA-CTGCCTGGGAAGTAAGATTCACTATTGTAGCTTTAATCTTTCTAACTGCAATATCGGG
65 ACTGCATCT--CAGAGAAGTAAGATTCACTATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGG
* * * *
3155824 GAAGCAAGATTCGCCGTTGTGGCGTTAATCTATTCCACTGCACCGCTTGAGAAGTAAGATTCACT
128 GAAGCAAGATTCACCGATGTGGCTTTAATCTATTCCACTGCACCGCTTGGGAAGTAAGATTCACT
*
3155889 ATTGTAG
193 GTTGTAG
* *
3155896 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCACC-ATCGTGGCTTTAATCTGCTCC
1 CTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCGAT-GTGGCTTTAATCTGCTCC
* * * *
3155960 ACTGCATCGTCAGAGATGTAAGATTCACTGTTGTGGCTTCAATCTTTTTAACTGCAATGCCGGGG
65 ACTGCATC-TCAGAGAAGTAAGATTCACTATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGG
* * * ** *
3156025 AAGCAAGATTCACCGATGTGGCTTTAATTTGTTCCACTGTACCGCTTGGGGAA-TAAGATTTGCC
129 AAGCAAGATTCACCGATGTGGCTTTAATCTATTCCACTGCACCGCTT-GGGAAGTAAGATTCACT
*
3156089 GTTATAG
193 GTTGTAG
* *
3156096 CTTTAATCTTTTTAACTGCAATGTTGAGGAAGCGAGATTCACCGATGTGGCTTTAATCTGCTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCA
* * * * *
3156161 CTGCATCACTAGAGAAGTAAGATTCACCACTGTGGCTTTAATCTTTTTAACTACAATGTCAGGGA
66 CTGCATCTC-AGAGAAGTAAGATTCACTATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGA
* * ** * *
3156226 AGCAAGATTCACCGATGTGGCTTTAATCTACTCCACTGCATCGCCAGGGAGGTGAGATTCACTGT
130 AGCAAGATTCACCGATGTGGCTTTAATCTATTCCACTGCACCGCTTGGGAAGTAAGATTCACTGT
3156291 TGTAG
195 TGTAG
* * *
3156296 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCTAGATTCACCGATGTGGCTTTAATCTACTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCA
3156361 CTGCATCTCCAGAGAAGTAAGATT
66 CTGCATCT-CAGAGAAGTAAGATT
3156385 GTTGATTTCA
Statistics
Matches: 419, Mismatches: 62, Indels: 16
0.84 0.12 0.03
Matches are distributed among these distances:
199 6 0.01
200 404 0.96
201 8 0.02
202 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (199 bp):
CTTTAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCA
CTGCATCTCAGAGAAGTAAGATTCACTATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAA
GCAAGATTCACCGATGTGGCTTTAATCTATTCCACTGCACCGCTTGGGAAGTAAGATTCACTGTT
GTAG
Found at i:3157667 original size:22 final size:21
Alignment explanation
Indices: 3157642--3157683 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3157632 TTAGCCTCTC
* *
3157642 CATTTTTACTTTTTCCTTTTTT
1 CATTTTT-CATTTTCATTTTTT
3157664 CATTTTTCATTTTCATTTTT
1 CATTTTTCATTTTCATTTTT
3157684 CATCCCCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (21 bp):
CATTTTTCATTTTCATTTTTT
Found at i:3157676 original size:13 final size:13
Alignment explanation
Indices: 3157660--3157686 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3157650 CTTTTTCCTT
3157660 TTTTCATTTTTCA
1 TTTTCATTTTTCA
3157673 TTTTCATTTTTCA
1 TTTTCATTTTTCA
3157686 T
1 T
3157687 CCCCCATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:3158564 original size:14 final size:15
Alignment explanation
Indices: 3158545--3158574 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
3158535 CGCCTTGGCC
3158545 TCTCCTTTTTT-TTT
1 TCTCCTTTTTTATTT
3158559 TCTCCTTTTTTATTT
1 TCTCCTTTTTTATTT
3158574 T
1 T
3158575 GATTTTTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (15 bp):
TCTCCTTTTTTATTT
Found at i:3158641 original size:27 final size:27
Alignment explanation
Indices: 3158565--3158635 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
3158555 TTTTTCTCCT
*
3158565 TTTTTATTTTGATTTTTCCTTTTTTTGC
1 TTTTTATTTTGATTTTT-CTTTTTTTTC
* *
3158593 TTTTGACTTTGATTTTTCTTTTTTTTC
1 TTTTTATTTTGATTTTTCTTTTTTTTC
3158620 TTTTTATTTTGATTTT
1 TTTTTATTTTGATTTT
3158636 CATTTTGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
27 23 0.61
28 15 0.39
ACGTcount: A:0.08, C:0.08, G:0.07, T:0.76
Consensus pattern (27 bp):
TTTTTATTTTGATTTTTCTTTTTTTTC
Found at i:3158641 original size:33 final size:34
Alignment explanation
Indices: 3158593--3158664 Score: 85
Period size: 33 Copynumber: 2.1 Consensus size: 34
3158583 CTTTTTTTGC
*
3158593 TTTTGACTTTGATTTT-TCTTTTTT-TTCTTTTTA
1 TTTTGACTTTCATTTTAT-TTTTTTATTCTTTTTA
* *
3158626 TTTTGATTTTCATTTTGATTTTTTTATTTTTTTTA
1 TTTTGACTTTCATTTT-ATTTTTTTATTCTTTTTA
3158661 TTTT
1 TTTT
3158665 TGGATTGGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 14 0.42
34 6 0.18
35 13 0.39
ACGTcount: A:0.11, C:0.06, G:0.06, T:0.78
Consensus pattern (34 bp):
TTTTGACTTTCATTTTATTTTTTTATTCTTTTTA
Found at i:3158650 original size:27 final size:26
Alignment explanation
Indices: 3158565--3158635 Score: 97
Period size: 28 Copynumber: 2.6 Consensus size: 26
3158555 TTTTTCTCCT
3158565 TTTTTATTTTGATTTTTCCTTTTTTTGC
1 TTTTTATTTTGATTTTT-CTTTTTTT-C
* *
3158593 TTTTGACTTTGATTTTTCTTTTTTTTC
1 TTTTTATTTTGATTTTTC-TTTTTTTC
3158620 TTTTTATTTTGATTTT
1 TTTTTATTTTGATTTT
3158636 CATTTTGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 16 0.42
28 22 0.58
ACGTcount: A:0.08, C:0.08, G:0.07, T:0.76
Consensus pattern (26 bp):
TTTTTATTTTGATTTTTCTTTTTTTC
Found at i:3164142 original size:16 final size:16
Alignment explanation
Indices: 3164121--3164153 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3164111 TTTAAAAGAT
3164121 TTGAAA-GAAAACTCAA
1 TTGAAATGAAAA-TCAA
3164137 TTGAAATGAAAATCAA
1 TTGAAATGAAAATCAA
3164153 T
1 T
3164154 GTCGAAGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.55, C:0.09, G:0.12, T:0.24
Consensus pattern (16 bp):
TTGAAATGAAAATCAA
Found at i:3164637 original size:134 final size:134
Alignment explanation
Indices: 3164397--3164665 Score: 538
Period size: 134 Copynumber: 2.0 Consensus size: 134
3164387 GAACCCGATC
3164397 AGATCTCTGATTTAAACGGAGCAAACCAGTTTCCAATGGCGTCTATTCTGGTAAGACGCTTCTTC
1 AGATCTCTGATTTAAACGGAGCAAACCAGTTTCCAATGGCGTCTATTCTGGTAAGACGCTTCTTC
3164462 TTTCCCTCTTTTTATTTTCTTTTGATATATAAAAGAAGAGAACCAAAAAAATCAAAGAAATAAAA
66 TTTCCCTCTTTTTATTTTCTTTTGATATATAAAAGAAGAGAACCAAAAAAATCAAAGAAATAAAA
3164527 GAAA
131 GAAA
3164531 AGATCTCTGATTTAAACGGAGCAAACCAGTTTCCAATGGCGTCTATTCTGGTAAGACGCTTCTTC
1 AGATCTCTGATTTAAACGGAGCAAACCAGTTTCCAATGGCGTCTATTCTGGTAAGACGCTTCTTC
3164596 TTTCCCTCTTTTTATTTTCTTTTGATATATAAAAGAAGAGAACCAAAAAAATCAAAGAAATAAAA
66 TTTCCCTCTTTTTATTTTCTTTTGATATATAAAAGAAGAGAACCAAAAAAATCAAAGAAATAAAA
3164661 GAAA
131 GAAA
3164665 A
1 A
3164666 AAACAAAGGA
Statistics
Matches: 135, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
134 135 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (134 bp):
AGATCTCTGATTTAAACGGAGCAAACCAGTTTCCAATGGCGTCTATTCTGGTAAGACGCTTCTTC
TTTCCCTCTTTTTATTTTCTTTTGATATATAAAAGAAGAGAACCAAAAAAATCAAAGAAATAAAA
GAAA
Found at i:3164819 original size:17 final size:17
Alignment explanation
Indices: 3164797--3164837 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
3164787 TTTGCAGAAG
*
3164797 AAAATAATAAATAA-ATA
1 AAAATAATAAA-AATAGA
3164814 AAAATAATAAAAATAGA
1 AAAATAATAAAAATAGA
3164831 AAAATAA
1 AAAATAA
3164838 AAACCCAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 20 0.91
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAATAATAAAAATAGA
Found at i:3164824 original size:9 final size:9
Alignment explanation
Indices: 3164797--3164837 Score: 50
Period size: 8 Copynumber: 4.8 Consensus size: 9
3164787 TTTGCAGAAG
3164797 AAAATAATA
1 AAAATAATA
*
3164806 AATA-AATA
1 AAAATAATA
3164814 AAAATAATA
1 AAAATAATA
*
3164823 AAAAT-AGA
1 AAAATAATA
3164831 AAAATAA
1 AAAATAA
3164838 AAACCCAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
8 14 0.52
9 13 0.48
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (9 bp):
AAAATAATA
Found at i:3166166 original size:25 final size:25
Alignment explanation
Indices: 3166104--3166168 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
3166094 CCCGTCATTA
* * *
3166104 GCTCTCATGAGCATCCTGATATTTG
1 GCTCTCACGAGCTTCCTGATATATG
*
3166129 GCTCTCACGAGCTTCCTGTTATATG
1 GCTCTCACGAGCTTCCTGATATATG
* *
3166154 GTTCTTACGAGCTTC
1 GCTCTCACGAGCTTC
3166169 TCGTTAATAG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.37
Consensus pattern (25 bp):
GCTCTCACGAGCTTCCTGATATATG
Found at i:3166290 original size:25 final size:24
Alignment explanation
Indices: 3166262--3166328 Score: 71
Period size: 27 Copynumber: 2.6 Consensus size: 24
3166252 CGATATATGG
3166262 CTCTCTGGAGCTTCCCGATTAAAGA
1 CTCTCT-GAGCTTCCCGATTAAAGA
* *
3166287 CTCTTTCATGAGCTTCCCGATTAATGG
1 CTC--TC-TGAGCTTCCCGATTAAAGA
3166314 CTCTCTAGAGCTTCC
1 CTCTCT-GAGCTTCC
3166329 TGATATTGGC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
24 1 0.03
25 13 0.36
27 21 0.58
28 1 0.03
ACGTcount: A:0.19, C:0.30, G:0.18, T:0.33
Consensus pattern (24 bp):
CTCTCTGAGCTTCCCGATTAAAGA
Found at i:3167069 original size:2 final size:2
Alignment explanation
Indices: 3167064--3167100 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3167054 TGATATATAA
3167064 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
3167101 GCTTTATCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.51, T:0.49
Consensus pattern (2 bp):
GT
Found at i:3168145 original size:25 final size:25
Alignment explanation
Indices: 3168111--3168180 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
3168101 CAGGCCCATT
3168111 TTCACAGCTCGTGTGAGCATTCTA-A
1 TTCACAGCTCGTGTGAGCATTC-AGA
*
3168136 TTCACAGCTCGTGTGTGCATTCAGA
1 TTCACAGCTCGTGTGAGCATTCAGA
*
3168161 TTTACAGCTCGTGTGAGCAT
1 TTCACAGCTCGTGTGAGCAT
3168181 ATGTAACGCC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATTCAGA
Found at i:3169803 original size:17 final size:18
Alignment explanation
Indices: 3169781--3169815 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3169771 ATTTGGGTCA
*
3169781 TGTGGG-CCACACGGGTG
1 TGTGGGCCCACACAGGTG
3169798 TGTGGGCCCACACAGGTG
1 TGTGGGCCCACACAGGTG
3169816 AACATCATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.14, C:0.26, G:0.43, T:0.17
Consensus pattern (18 bp):
TGTGGGCCCACACAGGTG
Found at i:3170578 original size:15 final size:16
Alignment explanation
Indices: 3170551--3170581 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
3170541 TTAAGTTAAA
3170551 GAAAGTAAATGAAATG
1 GAAAGTAAATGAAATG
3170567 GAAAGT-AATGAAATG
1 GAAAGTAAATGAAATG
3170582 CAAATGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.55, C:0.00, G:0.26, T:0.19
Consensus pattern (16 bp):
GAAAGTAAATGAAATG
Found at i:3171067 original size:15 final size:16
Alignment explanation
Indices: 3171047--3171076 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3171037 TGGTGCCTTG
3171047 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
3171062 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
3171077 AATATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:3173203 original size:69 final size:68
Alignment explanation
Indices: 3173117--3173435 Score: 316
Period size: 69 Copynumber: 4.6 Consensus size: 68
3173107 CCTGTCACCA
* * * * * *
3173117 CAAGGCTCCTAGTTGAAGAGCCGTAGCCTCTAAAATAGTTAGTGAAAGCAAAGCTCCCAATTGTA
1 CAAGGCTCC-AGGTGAAGAGCCGCAGCCTCCAAAACAGTTAGCGAAAGCAAAGCTCCCAACTGTA
3173182 ATAT
65 ATAT
* *
3173186 CAAGGCTCACAGGTGAAGAGTCGCAGCCTCCAAAACAGTTAGCAAAAGCAAAGCTCCCAACTGTA
1 CAAGGCTC-CAGGTGAAGAGCCGCAGCCTCCAAAACAGTTAGCGAAAGCAAAGCTCCCAACTGTA
3173251 ATAT
65 ATAT
** * * * * * *
3173255 CAAGGCTCCAAAATGAAGAGCCGCAACCTCCAAAATAGTTAGCGAGAGCAAAGTTCCTAATTGTA
1 CAAGGCTCC-AGGTGAAGAGCCGCAGCCTCCAAAACAGTTAGCGAAAGCAAAGCTCCCAACTGTA
*
3173320 AGAT
65 ATAT
* * * * * * *
3173324 CGAGGCTCGTAGGTGAAGAGCCACAGCCTCCAAAACAGTTAGTGAGAA-CAAAGCTTCTAGCTGT
1 CAAGGCTC-CAGGTGAAGAGCCGCAGCCTCCAAAACAGTTAGCGA-AAGCAAAGCTCCCAACTGT
3173388 AATAT
64 AATAT
* * ** *
3173393 CAAAGCTCACAAGCAAAGAGCCGCGGCCTCCAAAACAGTTAGC
1 CAAGGCTC-CAGGTGAAGAGCCGCAGCCTCCAAAACAGTTAGC
3173436 ACGAGCAAAG
Statistics
Matches: 203, Mismatches: 43, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
68 1 0.00
69 200 0.99
70 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.18
Consensus pattern (68 bp):
CAAGGCTCCAGGTGAAGAGCCGCAGCCTCCAAAACAGTTAGCGAAAGCAAAGCTCCCAACTGTAA
TAT
Found at i:3173365 original size:138 final size:137
Alignment explanation
Indices: 3173130--3173446 Score: 370
Period size: 138 Copynumber: 2.3 Consensus size: 137
3173120 GGCTCCTAGT
* * * * *
3173130 TGAAGAGCCGTAGCCTCTAAAATAGTTAGTGAAAGCAAAGCTCCCAATTGTAATATCAAGGCTCA
1 TGAAGAGCCGCAGCCTCCAAAATAGTTAGCGAGAGCAAAGCTCCCAATTGTAAGATCAAGGCTCA
* * *
3173195 CAGGTGAAGAGTCGCAGCCTCCAAAACAGTTAG-CAAAAGCAAAGCTCCCAACTGTAATATCAAG
66 CAGGTGAAGAGCCACAGCCTCCAAAACAGTTAGTCAAAA-CAAAGCTCCCAACTGTAATATCAAA
3173259 GCTCCAAAA
130 GCT-CAAAA
* * * * *
3173268 TGAAGAGCCGCAACCTCCAAAATAGTTAGCGAGAGCAAAGTTCCTAATTGTAAGATCGAGGCTCG
1 TGAAGAGCCGCAGCCTCCAAAATAGTTAGCGAGAGCAAAGCTCCCAATTGTAAGATCAAGGCTCA
* * * * * *
3173333 TAGGTGAAGAGCCACAGCCTCCAAAACAGTTAGTGAGAACAAAGCTTCTAGCTGTAATATCAAAG
66 CAGGTGAAGAGCCACAGCCTCCAAAACAGTTAGTCAAAACAAAGCTCCCAACTGTAATATCAAAG
*
3173398 CTCACAA
131 CTCAAAA
* *
3173405 -GCAAAGAGCCGCGGCCTCCAAAACAGTTAGC-ACGAGCAAAGC
1 TG--AAGAGCCGCAGCCTCCAAAATAGTTAGCGA-GAGCAAAGC
3173447 AACTAGGTGT
Statistics
Matches: 151, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
136 1 0.01
137 5 0.03
138 142 0.94
139 3 0.02
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (137 bp):
TGAAGAGCCGCAGCCTCCAAAATAGTTAGCGAGAGCAAAGCTCCCAATTGTAAGATCAAGGCTCA
CAGGTGAAGAGCCACAGCCTCCAAAACAGTTAGTCAAAACAAAGCTCCCAACTGTAATATCAAAG
CTCAAAA
Found at i:3173587 original size:58 final size:58
Alignment explanation
Indices: 3173492--3173610 Score: 177
Period size: 58 Copynumber: 2.1 Consensus size: 58
3173482 GCAGTATCAA
* *
3173492 TATAGAATAGATCGCGAATTCATATTCCCAGCTTATAAGTTT-GAGAAAAATCTCTAAG
1 TATAAAATAGATCACGAATTCATATTCCCAGCTTATAA-TTTCGAGAAAAATCTCTAAG
* **
3173550 TATAAAATAGATCACGAATTTATATTCTTAGCTTATAATTTCGAGAAAAATCTCTAAG
1 TATAAAATAGATCACGAATTCATATTCCCAGCTTATAATTTCGAGAAAAATCTCTAAG
3173608 TAT
1 TAT
3173611 CAGACAGCTC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 3 0.05
58 52 0.95
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (58 bp):
TATAAAATAGATCACGAATTCATATTCCCAGCTTATAATTTCGAGAAAAATCTCTAAG
Found at i:3180695 original size:23 final size:22
Alignment explanation
Indices: 3180663--3180724 Score: 88
Period size: 22 Copynumber: 2.7 Consensus size: 22
3180653 CCCGGCCCGT
*
3180663 TTTTTAATTAAAATTAAAATTATA
1 TTTTT-ATTAAAATTAAAACTA-A
3180687 TTTTTATTAAAATTAAAACTAA
1 TTTTTATTAAAATTAAAACTAA
*
3180709 TTGTTATTAAAATTAA
1 TTTTTATTAAAATTAA
3180725 TTGTTATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.44
23 15 0.42
24 5 0.14
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTTTATTAAAATTAAAACTAA
Found at i:3180719 original size:16 final size:16
Alignment explanation
Indices: 3180698--3180754 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
3180688 TTTTATTAAA
*
3180698 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
3180714 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
* *
3180730 ATCAAAATTAATTATT
1 ATTAAAATTAATTGTT
3180746 ATTAAAATT
1 ATTAAAATT
3180755 GTATCAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:3183761 original size:16 final size:16
Alignment explanation
Indices: 3183740--3183802 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 16
3183730 TTAGACAAAA
*
3183740 GAATAGAGTTGTAATG
1 GAATAGAGCTGTAATG
*
3183756 GAATAGGGCTGTAATG
1 GAATAGAGCTGTAATG
* * * *
3183772 GAATAAATCTATAATA
1 GAATAGAGCTGTAATG
*
3183788 GAATTGAGCTGTAAT
1 GAATAGAGCTGTAAT
3183803 CAGTAATTTA
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.30
Consensus pattern (16 bp):
GAATAGAGCTGTAATG
Found at i:3188219 original size:50 final size:50
Alignment explanation
Indices: 3188108--3188339 Score: 203
Period size: 50 Copynumber: 4.6 Consensus size: 50
3188098 TAGTGGTTTA
* * ** * ** *
3188108 GGAAACCAGATCCGCCGTCGTGGCTTCAATCTGTTCCACTGCACCATTAG
1 GGAAACCAGATCCGCCGTCGTAGCTTCAATCTTTTTAATTGCAATATCAG
* *** * * *
3188158 AGAAGTAAGATCTGCCGTTGTAGCTTCAATCTTTTTAATTGTAATATCAG
1 GGAAACCAGATCCGCCGTCGTAGCTTCAATCTTTTTAATTGCAATATCAG
* ** * ** *
3188208 GGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCATTAG
1 GGAAACCAGATCCGCCGTCGTAGCTTCAATCTTTTTAATTGCAATATCAG
* *** * * *
3188258 AGAAGTAAGATCTGCCGTTGTAGCTTCAATCTTTTTAATTGCAATATCAA
1 GGAAACCAGATCCGCCGTCGTAGCTTCAATCTTTTTAATTGCAATATCAG
3188308 GGAAACCAGATCCGCCGTCGTAGCTTCAATCT
1 GGAAACCAGATCCGCCGTCGTAGCTTCAATCT
3188340 GTTCCAGAGG
Statistics
Matches: 133, Mismatches: 49, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
50 133 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (50 bp):
GGAAACCAGATCCGCCGTCGTAGCTTCAATCTTTTTAATTGCAATATCAG
Found at i:3188281 original size:100 final size:100
Alignment explanation
Indices: 3188107--3188345 Score: 451
Period size: 100 Copynumber: 2.4 Consensus size: 100
3188097 ATAGTGGTTT
*
3188107 AGGAAACCAGATCCGCCGTCGTGGCTTCAATCTGTTCCACTGCACCATTAGAGAAGTAAGATCTG
1 AGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCATTAGAGAAGTAAGATCTG
*
3188172 CCGTTGTAGCTTCAATCTTTTTAATTGTAATATCA
66 CCGTTGTAGCTTCAATCTTTTTAATTGCAATATCA
*
3188207 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCATTAGAGAAGTAAGATCTG
1 AGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCATTAGAGAAGTAAGATCTG
3188272 CCGTTGTAGCTTCAATCTTTTTAATTGCAATATCA
66 CCGTTGTAGCTTCAATCTTTTTAATTGCAATATCA
3188307 AGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
1 AGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCA
3188346 GAGGCATGGG
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 135 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (100 bp):
AGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCATTAGAGAAGTAAGATCTG
CCGTTGTAGCTTCAATCTTTTTAATTGCAATATCA
Found at i:3211703 original size:4 final size:4
Alignment explanation
Indices: 3211694--3211718 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
3211684 AATCAAATAT
3211694 CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA C
3211719 TCCATTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:3217575 original size:203 final size:201
Alignment explanation
Indices: 3217224--3217627 Score: 781
Period size: 203 Copynumber: 2.0 Consensus size: 201
3217214 ATTTCCTAAT
*
3217224 GGGATGAGAATAAAATTTTAATTAAATAAATTTAATTAATTAAAAATTTTAAACCCTAAATCTTA
1 GGGATGAGAATAAAATTTTAATTAAATAAATTTAATTAATTAAAAATTTTAAACCCTAAATATTA
3217289 GTTAAAAAAAGTTCATCTCCCCCTTTTTTTTAGTTTTCTTTTTCAGCATACCCTTCCTCGGAACT
66 GTTAAAAAAAGTTCATCTCCCCCTTTTTTTTAGTTTTCTTTTTCAGCATACCCTTCCTCGGAACT
3217354 ACTGTGACTGTGTTCCTCCTCATGCCCGGTTGTTTCAGATGTTAAAAAAATCAGAACTTCAATTA
131 ACTGTGACTGTGTTCCTCCTCATGCCCGGTTGTTTCAGATGTTAAAAAAATCAGAACTTCAATTA
3217419 CTTTCC
196 CTTTCC
3217425 GGGATGAGAATAAAATTTTAATTAAATAAATTTAATTAATTAAAAATTTTAAACCCTAAATATTA
1 GGGATGAGAATAAAATTTTAATTAAATAAATTTAATTAATTAAAAATTTTAAACCCTAAATATTA
3217490 GTTAAAAAAAGAGTTCATCTCCCCCTTTTTTTTAGTTTTCTTTTTCAGCATACCCTTCCTCGGAA
66 GTT-AAAAAA-AGTTCATCTCCCCCTTTTTTTTAGTTTTCTTTTTCAGCATACCCTTCCTCGGAA
3217555 CTACTGTGACTGTGTTCCTCCTCATGCCCGGTTGTTTCAGATGTTAAAAAAATCAGAACTTCAAT
129 CTACTGTGACTGTGTTCCTCCTCATGCCCGGTTGTTTCAGATGTTAAAAAAATCAGAACTTCAAT
3217620 TACTTTCC
194 TACTTTCC
3217628 CTACCTTTGT
Statistics
Matches: 200, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
201 67 0.34
202 6 0.03
203 127 0.63
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (201 bp):
GGGATGAGAATAAAATTTTAATTAAATAAATTTAATTAATTAAAAATTTTAAACCCTAAATATTA
GTTAAAAAAAGTTCATCTCCCCCTTTTTTTTAGTTTTCTTTTTCAGCATACCCTTCCTCGGAACT
ACTGTGACTGTGTTCCTCCTCATGCCCGGTTGTTTCAGATGTTAAAAAAATCAGAACTTCAATTA
CTTTCC
Found at i:3219517 original size:19 final size:18
Alignment explanation
Indices: 3219495--3219578 Score: 71
Period size: 19 Copynumber: 4.5 Consensus size: 18
3219485 AATGATTACC
3219495 TTAATAGTATTTTATTAAT
1 TTAATAGTA-TTTATTAAT
*
3219514 TTAATAGTCATTTATAAAAT
1 TTAATAGT-ATTTAT-TAAT
* * * **
3219534 TTAAT-TTAATGATTACC
1 TTAATAGTATTTATTAAT
3219551 TTAATAGTATTTTATTAAT
1 TTAATAGTA-TTTATTAAT
3219570 TTAATAGTA
1 TTAATAGTA
3219579 CTTAATTTGT
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
17 6 0.12
18 6 0.12
19 28 0.57
20 9 0.18
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (18 bp):
TTAATAGTATTTATTAAT
Found at i:3219534 original size:56 final size:57
Alignment explanation
Indices: 3219465--3219577 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 57
3219455 AAAAAAAAAC
3219465 CATTTATAAAAATTTAATTTAATGATTACCTTAATAGTATTTTATTAATTTAATAGT
1 CATTTATAAAAATTTAATTTAATGATTACCTTAATAGTATTTTATTAATTTAATAGT
3219522 CATTTAT-AAAATTTAATTTAATGATTACCTTAATAGTATTTTATTAATTTAATAGT
1 CATTTATAAAAATTTAATTTAATGATTACCTTAATAGTATTTTATTAATTTAATAGT
3219578 ACTTAATTTG
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 49 0.88
57 7 0.12
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (57 bp):
CATTTATAAAAATTTAATTTAATGATTACCTTAATAGTATTTTATTAATTTAATAGT
Found at i:3221795 original size:31 final size:31
Alignment explanation
Indices: 3221757--3221819 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
3221747 AGTAACAAAA
3221757 TAGTGAAATTATGAAAGAAATTTGATTTATT
1 TAGTGAAATTATGAAAGAAATTTGATTTATT
*
3221788 TAGTGAAATTATGAAAGAAATTTTATTTATT
1 TAGTGAAATTATGAAAGAAATTTGATTTATT
3221819 T
1 T
3221820 TGTTAGGTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.44
Consensus pattern (31 bp):
TAGTGAAATTATGAAAGAAATTTGATTTATT
Found at i:3222244 original size:23 final size:23
Alignment explanation
Indices: 3222214--3222267 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
3222204 CAAACTAATC
* *
3222214 CTCTCAAATTTGCTTTC-AATTT
1 CTCTCAAATTTCCTTCCAAATTT
3222236 GCTCTCAAA-TTCCTTCCAAATTT
1 -CTCTCAAATTTCCTTCCAAATTT
3222259 CTCTCAAAT
1 CTCTCAAAT
3222268 CCATATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 14 0.52
23 13 0.48
ACGTcount: A:0.26, C:0.28, G:0.04, T:0.43
Consensus pattern (23 bp):
CTCTCAAATTTCCTTCCAAATTT
Found at i:3222266 original size:11 final size:12
Alignment explanation
Indices: 3222214--3222267 Score: 53
Period size: 11 Copynumber: 4.8 Consensus size: 12
3222204 CAAACTAATC
3222214 CTCTCAAATTTG
1 CTCTCAAATTTG
*
3222226 CTTTC-AATTTG
1 CTCTCAAATTTG
*
3222237 CTCTCAAA-TTC
1 CTCTCAAATTTG
3222248 CT-TCCAAATTT-
1 CTCT-CAAATTTG
3222259 CTCTCAAAT
1 CTCTCAAAT
3222268 CCATATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
10 1 0.03
11 25 0.71
12 9 0.26
ACGTcount: A:0.26, C:0.28, G:0.04, T:0.43
Consensus pattern (12 bp):
CTCTCAAATTTG
Found at i:3222292 original size:11 final size:11
Alignment explanation
Indices: 3222278--3222307 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
3222268 CCATATTTAA
3222278 TCTCAAATTGC
1 TCTCAAATTGC
3222289 TCTCAAATTGC
1 TCTCAAATTGC
*
3222300 TCTTAAAT
1 TCTCAAAT
3222308 CCCTATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (11 bp):
TCTCAAATTGC
Found at i:3222296 original size:40 final size:40
Alignment explanation
Indices: 3222238--3222315 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
3222228 TTCAATTTGC
*
3222238 TCTCAAATTCCTTCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAAATTCCTTCCAAATTGCTCTCAAATCCATATTTAA
* * *
3222278 TCTCAAATTGC-TCTCAAATTGCTCTTAAATCCCTATTT
1 TCTCAAATTCCTTC-CAAATTGCTCTCAAATCCATATTT
3222316 TTAAATAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.06
40 31 0.94
ACGTcount: A:0.29, C:0.27, G:0.03, T:0.41
Consensus pattern (40 bp):
TCTCAAATTCCTTCCAAATTGCTCTCAAATCCATATTTAA
Found at i:3230582 original size:69 final size:69
Alignment explanation
Indices: 3230471--3230737 Score: 534
Period size: 69 Copynumber: 3.9 Consensus size: 69
3230461 CTTTTGGTAA
3230471 AAAATAATGGTCCGGTTGCAAAGAGAGTAAAGTTAAATTATTATTATTTTTAGAAAAACAAAAGA
1 AAAATAATGGTCCGGTTGCAAAGAGAGTAAAGTTAAATTATTATTATTTTTAGAAAAACAAAAGA
3230536 AAGG
66 AAGG
3230540 AAAATAATGGTCCGGTTGCAAAGAGAGTAAAGTTAAATTATTATTATTTTTAGAAAAACAAAAGA
1 AAAATAATGGTCCGGTTGCAAAGAGAGTAAAGTTAAATTATTATTATTTTTAGAAAAACAAAAGA
3230605 AAGG
66 AAGG
3230609 AAAATAATGGTCCGGTTGCAAAGAGAGTAAAGTTAAATTATTATTATTTTTAGAAAAACAAAAGA
1 AAAATAATGGTCCGGTTGCAAAGAGAGTAAAGTTAAATTATTATTATTTTTAGAAAAACAAAAGA
3230674 AAGG
66 AAGG
3230678 AAAATAATGGTCCGGTTGCAAAGAGAGTAAAGTTAAATTATTATTATTTTTAGAAAAACA
1 AAAATAATGGTCCGGTTGCAAAGAGAGTAAAGTTAAATTATTATTATTTTTAGAAAAACA
3230738 GCTGGCTTGC
Statistics
Matches: 198, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 198 1.00
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.28
Consensus pattern (69 bp):
AAAATAATGGTCCGGTTGCAAAGAGAGTAAAGTTAAATTATTATTATTTTTAGAAAAACAAAAGA
AAGG
Found at i:3241610 original size:33 final size:33
Alignment explanation
Indices: 3241568--3241634 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
3241558 ATGATACAGT
3241568 ATCAACTCACCAATTCACTTTCATTCGATTCTC
1 ATCAACTCACCAATTCACTTTCATTCGATTCTC
*
3241601 ATCAACTCACCAATTCACTTTCATTTGATTCTC
1 ATCAACTCACCAATTCACTTTCATTCGATTCTC
3241634 A
1 A
3241635 CATAGGTTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.28, C:0.31, G:0.03, T:0.37
Consensus pattern (33 bp):
ATCAACTCACCAATTCACTTTCATTCGATTCTC
Found at i:3241946 original size:42 final size:43
Alignment explanation
Indices: 3241838--3241995 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 43
3241828 TAACAATTTC
* * * *
3241838 ATATCCCAGATATCGTCTTACATGTAATCTCATATCGATGT-CA
1 ATATCCCAGACATGGTCTTACACGAAATCTCATATCGAT-TCCA
* * * *
3241881 ATATGCTAGCCATGGTCTTACACGAAATCGCATATCGATTCCA
1 ATATCCCAGACATGGTCTTACACGAAATCTCATATCGATTCCA
* * *
3241924 ATA-CCCAGACATGGTCTTACACGAATTCTCATATTGATGCCA
1 ATATCCCAGACATGGTCTTACACGAAATCTCATATCGATTCCA
* *
3241966 A-ATCCCAGATATGGTCTTACACGTAATCTC
1 ATATCCCAGACATGGTCTTACACGAAATCTC
3241996 GATAACCCTA
Statistics
Matches: 95, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
41 1 0.01
42 58 0.61
43 36 0.38
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (43 bp):
ATATCCCAGACATGGTCTTACACGAAATCTCATATCGATTCCA
Found at i:3245216 original size:15 final size:15
Alignment explanation
Indices: 3245196--3245228 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
3245186 ATTTCACTTC
3245196 AAATATCAAATTGTT
1 AAATATCAAATTGTT
3245211 AAATATCAAATTGTT
1 AAATATCAAATTGTT
3245226 AAA
1 AAA
3245229 GACTAATCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (15 bp):
AAATATCAAATTGTT
Found at i:3245753 original size:42 final size:42
Alignment explanation
Indices: 3245707--3245839 Score: 266
Period size: 42 Copynumber: 3.2 Consensus size: 42
3245697 AACAGGAATG
3245707 AAACATAACAACCCCGTAAACTGGTGAAAGAAAAGGGGAGAA
1 AAACATAACAACCCCGTAAACTGGTGAAAGAAAAGGGGAGAA
3245749 AAACATAACAACCCCGTAAACTGGTGAAAGAAAAGGGGAGAA
1 AAACATAACAACCCCGTAAACTGGTGAAAGAAAAGGGGAGAA
3245791 AAACATAACAACCCCGTAAACTGGTGAAAGAAAAGGGGAGAA
1 AAACATAACAACCCCGTAAACTGGTGAAAGAAAAGGGGAGAA
3245833 AAACATA
1 AAACATA
3245840 CCAGAAGACT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.51, C:0.17, G:0.23, T:0.10
Consensus pattern (42 bp):
AAACATAACAACCCCGTAAACTGGTGAAAGAAAAGGGGAGAA
Found at i:3247397 original size:63 final size:63
Alignment explanation
Indices: 3247293--3247418 Score: 171
Period size: 63 Copynumber: 2.0 Consensus size: 63
3247283 TCAATATAAG
* * *
3247293 AAAATATGTATTTCAGTACGTTGAAATATATTATACTCCTATTTATAGATCGGGAAGAAACTA
1 AAAACATGTATTTCAGTACGTTGAAACACATTATACTCCTATTTATAGATCGGGAAGAAACTA
* * * * * *
3247356 AAAACATGTATTTTAGTACGTTGAAACGCATTATACTCCTATTTTTTGATTGGGAAGAGACTA
1 AAAACATGTATTTCAGTACGTTGAAACACATTATACTCCTATTTATAGATCGGGAAGAAACTA
3247419 TAAGTAGTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.36
Consensus pattern (63 bp):
AAAACATGTATTTCAGTACGTTGAAACACATTATACTCCTATTTATAGATCGGGAAGAAACTA
Found at i:3248932 original size:9 final size:9
Alignment explanation
Indices: 3248918--3248966 Score: 66
Period size: 9 Copynumber: 5.7 Consensus size: 9
3248908 TTTGGTTAAA
3248918 AATTAACCG
1 AATTAACCG
3248927 AATTAACCG
1 AATTAACCG
3248936 --TTAACCG
1 AATTAACCG
*
3248943 AATTAACCA
1 AATTAACCG
*
3248952 AATTACCCG
1 AATTAACCG
3248961 AATTAA
1 AATTAA
3248967 ATCACTACAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
7 7 0.21
9 27 0.79
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:3248939 original size:16 final size:16
Alignment explanation
Indices: 3248920--3248950 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
3248910 TGGTTAAAAA
3248920 TTAACCGAATTAACCG
1 TTAACCGAATTAACCG
3248936 TTAACCGAATTAACC
1 TTAACCGAATTAACC
3248951 AAATTACCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.26
Consensus pattern (16 bp):
TTAACCGAATTAACCG
Found at i:3251619 original size:21 final size:20
Alignment explanation
Indices: 3251573--3251623 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
3251563 CTGTTGTTTA
* * *
3251573 TAATCTTATTGTTACAGTAT
1 TAATCTCATTGCTACAATAT
3251593 TCAATCTCATTGCTACAATAAT
1 T-AATCTCATTGCTACAAT-AT
3251615 TAATCTCAT
1 TAATCTCAT
3251624 CGCCGCTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 22 0.85
22 3 0.12
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.43
Consensus pattern (20 bp):
TAATCTCATTGCTACAATAT
Found at i:3257966 original size:20 final size:21
Alignment explanation
Indices: 3257941--3257985 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
3257931 TTAAAAAAAA
* *
3257941 TTTTAAGACA-TGTATTTTAT
1 TTTTAAAACATTGTACTTTAT
3257961 TTTTAAAACATTGTACTTTAT
1 TTTTAAAACATTGTACTTTAT
3257982 TTTT
1 TTTT
3257986 TAATTTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.58
Consensus pattern (21 bp):
TTTTAAAACATTGTACTTTAT
Found at i:3258274 original size:253 final size:254
Alignment explanation
Indices: 3257967--3258474 Score: 1009
Period size: 253 Copynumber: 2.0 Consensus size: 254
3257957 TTATTTTTAA
3257967 AACATTGTACTTTATTTTTTAATTTAATTTAAATAATTTAAAAAATTTATTTATATTTTAATCTT
1 AACATTGTACTTTATTTTTTAATTTAATTTAAATAATTTAAAAAATTTATTTATATTTTAATCTT
3258032 CTAAATATTTAACTAAATTACATGGTCAATGATGACAAGAAAAATGTGTTTAATTTTAGAGAGGA
66 CTAAATATTTAACTAAATTACATGGTCAATGATGACAAGAAAAATGTGTTTAATTTTAGAGAGGA
3258097 AATAATCCAACAAATATGAAATACTAGAGTAATTAGATAAAATTGTATTAATTTTTTTTTAAATT
131 AATAATCCAACAAATATGAAATACTAGAGTAATTAGATAAAATTGTATTAATTTTTTTTTAAATT
3258162 TATTATAGCCGTAGTGTTGAATACTTTTTTGGATTAAGAGATTTTTTTTTAAATTCGCT
196 TATTATAGCCGTAGTGTTGAATACTTTTTTGGATTAAGAGATTTTTTTTTAAATTCGCT
3258221 AACATTGTAC-TTATTTTTTAATTTAATTTAAATAATTTAAAAAATTTATTTATATTTTAATCTT
1 AACATTGTACTTTATTTTTTAATTTAATTTAAATAATTTAAAAAATTTATTTATATTTTAATCTT
3258285 CTAAATATTTAACTAAATTACATGGTCAATGATGACAAGAAAAATGTGTTTAATTTTAGAGAGGA
66 CTAAATATTTAACTAAATTACATGGTCAATGATGACAAGAAAAATGTGTTTAATTTTAGAGAGGA
3258350 AATAATCCAACAAATATGAAATACTAGAGTAATTAGATAAAATTGTATTAATTTTTTTTTAAATT
131 AATAATCCAACAAATATGAAATACTAGAGTAATTAGATAAAATTGTATTAATTTTTTTTTAAATT
3258415 TATTATAGCCGTAGTGTTGAATACTTTTTTGGATTAAGAGATTTTTTTTTAAATTCGCT
196 TATTATAGCCGTAGTGTTGAATACTTTTTTGGATTAAGAGATTTTTTTTTAAATTCGCT
3258474 A
1 A
3258475 GTTGGTCCTT
Statistics
Matches: 254, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
253 244 0.96
254 10 0.04
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.44
Consensus pattern (254 bp):
AACATTGTACTTTATTTTTTAATTTAATTTAAATAATTTAAAAAATTTATTTATATTTTAATCTT
CTAAATATTTAACTAAATTACATGGTCAATGATGACAAGAAAAATGTGTTTAATTTTAGAGAGGA
AATAATCCAACAAATATGAAATACTAGAGTAATTAGATAAAATTGTATTAATTTTTTTTTAAATT
TATTATAGCCGTAGTGTTGAATACTTTTTTGGATTAAGAGATTTTTTTTTAAATTCGCT
Found at i:3264406 original size:13 final size:11
Alignment explanation
Indices: 3264374--3264399 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3264364 AATTTTTTAA
3264374 TTTTAAAATAC
1 TTTTAAAATAC
3264385 TTTTAAAATAC
1 TTTTAAAATAC
3264396 TTTT
1 TTTT
3264400 TTAAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:3264411 original size:10 final size:10
Alignment explanation
Indices: 3264354--3264419 Score: 50
Period size: 10 Copynumber: 6.6 Consensus size: 10
3264344 TAAATATTTT
*
3264354 AATTTTTTTA
1 AATTTTTTAA
3264364 AATTTTTT--
1 AATTTTTTAA
3264372 AA--TTTTAA
1 AATTTTTTAA
*
3264380 AATACTTTTAAA
1 AAT--TTTTTAA
3264392 ATACTTTTTTAA
1 A-A-TTTTTTAA
3264404 AATTTTTTAA
1 AATTTTTTAA
3264414 AATTTT
1 AATTTT
3264420 AATAAATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
6 4 0.09
8 4 0.09
10 22 0.48
11 1 0.02
12 13 0.28
13 1 0.02
14 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:3264508 original size:41 final size:41
Alignment explanation
Indices: 3264458--3264538 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
3264448 CAGGCCAGGC
*
3264458 CCGGGCAAAATTCTAGGCCCATATTTCGGGTCGGGCCGGGT
1 CCGGGCAAAATTCTAGGCCCATATTTCGGGACGGGCCGGGT
*
3264499 CCGGGCAAAATTCTAGGCCCATATTTTGGGACGGGCCGGG
1 CCGGGCAAAATTCTAGGCCCATATTTCGGGACGGGCCGGG
3264539 CCAGGCCCGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.19, C:0.26, G:0.35, T:0.21
Consensus pattern (41 bp):
CCGGGCAAAATTCTAGGCCCATATTTCGGGACGGGCCGGGT
Found at i:3272270 original size:7 final size:7
Alignment explanation
Indices: 3272252--3272300 Score: 91
Period size: 7 Copynumber: 7.1 Consensus size: 7
3272242 GTTGTCTATA
3272252 TCCATG-
1 TCCATGC
3272258 TCCATGC
1 TCCATGC
3272265 TCCATGC
1 TCCATGC
3272272 TCCATGC
1 TCCATGC
3272279 TCCATGC
1 TCCATGC
3272286 TCCATGC
1 TCCATGC
3272293 TCCATGC
1 TCCATGC
3272300 T
1 T
3272301 AATGTTATCT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 6 0.14
7 36 0.86
ACGTcount: A:0.14, C:0.41, G:0.14, T:0.31
Consensus pattern (7 bp):
TCCATGC
Found at i:3279330 original size:39 final size:39
Alignment explanation
Indices: 3279287--3279407 Score: 124
Period size: 39 Copynumber: 3.2 Consensus size: 39
3279277 ATAATTTTAT
3279287 ATGTTTTTTTATTAAAATTTTAAATATAAACAACTTAAC
1 ATGTTTTTTTATTAAAATTTTAAATATAAACAACTTAAC
** * * * * * * *
3279326 ATGTTTTAATATT--TATATT-AATATTTAA-TATTTTAT
1 ATGTTTTTTTATTAAAATTTTAAATA-TAAACAACTTAAC
3279362 ATGTTTTTTTATTAAAATTTTAAATATAAACAACTTAAC
1 ATGTTTTTTTATTAAAATTTTAAATATAAACAACTTAAC
3279401 ATGTTTT
1 ATGTTTT
3279408 AATATTTATA
Statistics
Matches: 59, Mismatches: 18, Indels: 10
0.68 0.21 0.11
Matches are distributed among these distances:
36 19 0.32
37 7 0.12
38 7 0.12
39 26 0.44
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (39 bp):
ATGTTTTTTTATTAAAATTTTAAATATAAACAACTTAAC
Found at i:3279349 original size:36 final size:36
Alignment explanation
Indices: 3279309--3279422 Score: 104
Period size: 36 Copynumber: 3.1 Consensus size: 36
3279299 TAAAATTTTA
3279309 AATATAAACAACTTAACATGTTTTAATATTTATATT
1 AATATAAACAACTTAACATGTTTTAATATTTATATT
* * * * * ** * *
3279345 AATATTTAA-TATTTTATATGTTTTTTTATTAAAATTTT
1 AATA-TAAACAACTTAACATGTTTTAATATT--TATATT
3279383 AAATATAAACAACTTAACATGTTTTAATATTTATATT
1 -AATATAAACAACTTAACATGTTTTAATATTTATATT
3279420 AAT
1 AAT
3279423 TATATTTTTA
Statistics
Matches: 55, Mismatches: 18, Indels: 10
0.66 0.22 0.12
Matches are distributed among these distances:
36 22 0.40
37 7 0.13
38 7 0.13
39 19 0.35
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (36 bp):
AATATAAACAACTTAACATGTTTTAATATTTATATT
Found at i:3279362 original size:75 final size:76
Alignment explanation
Indices: 3279267--3279422 Score: 305
Period size: 75 Copynumber: 2.1 Consensus size: 76
3279257 ATTCTTTAAT
3279267 TTAATATTTAATAATTTTATATGTTTTTTTATTAAAATTTTAAATATAAACAACTTAACATGTTT
1 TTAATATTTAATAATTTTATATGTTTTTTTATTAAAATTTTAAATATAAACAACTTAACATGTTT
3279332 TAATATTTATA
66 TAATATTTATA
3279343 TTAATATTTAAT-ATTTTATATGTTTTTTTATTAAAATTTTAAATATAAACAACTTAACATGTTT
1 TTAATATTTAATAATTTTATATGTTTTTTTATTAAAATTTTAAATATAAACAACTTAACATGTTT
3279407 TAATATTTATA
66 TAATATTTATA
3279418 TTAAT
1 TTAAT
3279423 TATATTTTTA
Statistics
Matches: 80, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 68 0.85
76 12 0.15
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.53
Consensus pattern (76 bp):
TTAATATTTAATAATTTTATATGTTTTTTTATTAAAATTTTAAATATAAACAACTTAACATGTTT
TAATATTTATA
Found at i:3281456 original size:6 final size:6
Alignment explanation
Indices: 3281447--3281474 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
3281437 ATGAAAAGTA
3281447 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
3281475 GCATAAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:3282146 original size:9 final size:9
Alignment explanation
Indices: 3282132--3282161 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
3282122 AAAATAAAAG
3282132 TTATTAAAT
1 TTATTAAAT
3282141 TTATTAAAT
1 TTATTAAAT
3282150 TTATTAAAT
1 TTATTAAAT
3282159 TTA
1 TTA
3282162 AAAAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TTATTAAAT
Found at i:3287592 original size:15 final size:15
Alignment explanation
Indices: 3287572--3287601 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3287562 AAGAAAGAGA
*
3287572 AATCTAGAAAATAAT
1 AATCTAAAAAATAAT
3287587 AATCTAAAAAATAAT
1 AATCTAAAAAATAAT
3287602 GATGATGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.27
Consensus pattern (15 bp):
AATCTAAAAAATAAT
Found at i:3287812 original size:21 final size:21
Alignment explanation
Indices: 3287786--3287828 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
3287776 AGAAGGGAAG
3287786 AAAGAAAGTTTTGCTTTCTTT
1 AAAGAAAGTTTTGCTTTCTTT
3287807 AAAGAAAGTTTTGCTTTCTTT
1 AAAGAAAGTTTTGCTTTCTTT
3287828 A
1 A
3287829 CAATTTGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.47
Consensus pattern (21 bp):
AAAGAAAGTTTTGCTTTCTTT
Found at i:3290837 original size:40 final size:40
Alignment explanation
Indices: 3290793--3290914 Score: 124
Period size: 37 Copynumber: 3.1 Consensus size: 40
3290783 GTTTGGCACC
* * *
3290793 CAGTGCCTCATCGGATAATTCGAAGTAATAAATTGACACT
1 CAGTGCCTCATCGGTTAATACGAAGTAGTAAATTGACACT
* * * *
3290833 CAGTGTCTCATTGGTTAA-ACCAA--AGTAAATTGGCACT
1 CAGTGCCTCATCGGTTAATACGAAGTAGTAAATTGACACT
* * *
3290870 CAGTGCCTCATCGAGTTAATCCGAAGTAGTAAATTAACACC
1 CAGTGCCTCATCG-GTTAATACGAAGTAGTAAATTGACACT
3290911 CAGT
1 CAGT
3290915 ATCTCACCGA
Statistics
Matches: 64, Mismatches: 14, Indels: 7
0.75 0.16 0.08
Matches are distributed among these distances:
37 23 0.36
38 5 0.08
39 6 0.09
40 15 0.23
41 15 0.23
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (40 bp):
CAGTGCCTCATCGGTTAATACGAAGTAGTAAATTGACACT
Found at i:3310796 original size:2 final size:2
Alignment explanation
Indices: 3310789--3310821 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3310779 GGTCCTCCAA
3310789 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3310822 AAGATAAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3316677 original size:105 final size:101
Alignment explanation
Indices: 3316563--3316760 Score: 252
Period size: 105 Copynumber: 1.9 Consensus size: 101
3316553 TACATTTGTA
* *
3316563 GTGCCATAACCCAATTATGGTCTTATCATCAGAATGTCATAGCCCAGCTATGGTCTTACACATGT
1 GTGCCATAACCCAATTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGGTCTT--ACAT-T
** *
3316628 ATCTATATTGCCATGGTCCAACCATGGTCTTACATTCAAG
63 -TAAATATTACCATGGTCCAACCATGGTCTTACATTCAAG
* * * * **
3316668 GTGCCATAACCCAGTTATGGTCTTTTCATTAAAATGCCATAGCTCATTTATGGTCTTACATTTAA
1 GTGCCATAACCCAATTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGGTCTTACATTTAA
*
3316733 ATATTACCATGGTTCAACCATGGTCTTA
66 ATATTACCATGGTCCAACCATGGTCTTA
3316761 TCCGTCAATT
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
101 27 0.33
102 1 0.01
103 4 0.05
105 49 0.60
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (101 bp):
GTGCCATAACCCAATTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGGTCTTACATTTAA
ATATTACCATGGTCCAACCATGGTCTTACATTCAAG
Found at i:3316688 original size:33 final size:32
Alignment explanation
Indices: 3316651--3316734 Score: 87
Period size: 33 Copynumber: 2.6 Consensus size: 32
3316641 TGGTCCAACC
**
3316651 ATGGTCTTACATTCAAGGTGCCATAACCCAGTT
1 ATGGTCTTACATT-AAAATGCCATAACCCAGTT
* * * *
3316684 ATGGTCTTTTCATTAAAATGCCATAGCTCATTT
1 ATGGTC-TTACATTAAAATGCCATAACCCAGTT
*
3316717 ATGGTCTTACATTTAAAT
1 ATGGTCTTACATTAAAAT
3316735 ATTACCATGG
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 10 0.24
33 26 0.62
34 6 0.14
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (32 bp):
ATGGTCTTACATTAAAATGCCATAACCCAGTT
Found at i:3319566 original size:9 final size:9
Alignment explanation
Indices: 3319531--3319579 Score: 53
Period size: 9 Copynumber: 5.1 Consensus size: 9
3319521 AGTATAAATG
3319531 AGTTATGTA
1 AGTTATGTA
*
3319540 AGTTAAGTA
1 AGTTATGTA
3319549 ATGTATTATGTA
1 A-G--TTATGTA
*
3319561 AGTTATGAA
1 AGTTATGTA
3319570 AGTTATGTA
1 AGTTATGTA
3319579 A
1 A
3319580 TAAGTTCTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 24 0.73
10 1 0.03
11 1 0.03
12 7 0.21
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (9 bp):
AGTTATGTA
Found at i:3319696 original size:18 final size:18
Alignment explanation
Indices: 3319619--3319696 Score: 50
Period size: 18 Copynumber: 4.1 Consensus size: 18
3319609 TAACTTATGT
3319619 ATTATGAAATTTTATCTTA
1 ATTA-GAAATTTTATCTTA
* * * *
3319638 ATAATAAATAAGTTATCTAA
1 ATTAGAAAT--TTTATCTTA
* *
3319658 ACTTAGAAA-TTGATGTGTA
1 A-TTAGAAATTTTATCT-TA
3319677 ATTAGAAATTTTATCTTA
1 ATTAGAAATTTTATCTTA
3319695 AT
1 AT
3319697 ATTATATAAG
Statistics
Matches: 42, Mismatches: 12, Indels: 11
0.65 0.18 0.17
Matches are distributed among these distances:
18 19 0.45
19 10 0.24
20 8 0.19
21 5 0.12
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (18 bp):
ATTAGAAATTTTATCTTA
Found at i:3319728 original size:30 final size:30
Alignment explanation
Indices: 3319692--3320268 Score: 677
Period size: 30 Copynumber: 18.1 Consensus size: 30
3319682 AAATTTTATC
*
3319692 TTAATATTATATAAGTTATGTAATGAGAAA
1 TTAATATTATATAAGTTATGTAATTAGAAA
* *
3319722 TTAATATTATCTAAGTTATGTTATTAGAAA
1 TTAATATTATATAAGTTATGTAATTAGAAA
3319752 TTAATATTATATAAGTTATGTAATTAGAAATTTTA
1 TTAATATTATATAAGTTATGTAATTAG-AA----A
*
3319787 TCTTAATATTATATAAGTTATGTAATGAGAAA
1 --TTAATATTATATAAGTTATGTAATTAGAAA
* *
3319819 TTAATATTATCTAAGTTATGTTATTAGAAA
1 TTAATATTATATAAGTTATGTAATTAGAAA
3319849 TTAATATTATATAAGTTATGTAATTAGAAATTTTA
1 TTAATATTATATAAGTTATGTAATTAG-AA----A
*
3319884 TCTTAATATTATATAAGTTATGTAATGAGAAA
1 --TTAATATTATATAAGTTATGTAATTAGAAA
* *
3319916 TTAATATTATCTAAGTTATGTTATTAGAAA
1 TTAATATTATATAAGTTATGTAATTAGAAA
3319946 TTAATATTATATAAGTTATGTAATTAGAAATTTTA
1 TTAATATTATATAAGTTATGTAATTAG-AA----A
*
3319981 TCTTAATATTATATAAGTTATGTAATGAGAAA
1 --TTAATATTATATAAGTTATGTAATTAGAAA
* *
3320013 TTAATATTATCTAAGTTATGTTATTAGAAA
1 TTAATATTATATAAGTTATGTAATTAGAAA
3320043 TTAATATTATATAAGTTATGTAATTAGAAATTTTA
1 TTAATATTATATAAGTTATGTAATTAG-AA----A
*
3320078 TCTTAATATTATATAAGTTATGTAATGAGAAA
1 --TTAATATTATATAAGTTATGTAATTAGAAA
* *
3320110 TTAATATTATCTAAGTTATGTTATTAGAAA
1 TTAATATTATATAAGTTATGTAATTAGAAA
3320140 TTAATATTATATAAGTTATGTAATTAGAAATTTTA
1 TTAATATTATATAAGTTATGTAATTAG-AA----A
*
3320175 TCTTAATATTATATAAGTTATGTAATGAGAAA
1 --TTAATATTATATAAGTTATGTAATTAGAAA
* *
3320207 TTAATATTATCTAAGTTATGTTATTAGAAA
1 TTAATATTATATAAGTTATGTAATTAGAAA
3320237 TTAATATTATATAAGTTATGTAATTAGAAA
1 TTAATATTATATAAGTTATGTAATTAGAAA
3320267 TT
1 TT
3320269 TTATCTTAAT
Statistics
Matches: 477, Mismatches: 35, Indels: 70
0.82 0.06 0.12
Matches are distributed among these distances:
30 317 0.66
31 10 0.02
32 5 0.01
35 5 0.01
36 10 0.02
37 130 0.27
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.45
Consensus pattern (30 bp):
TTAATATTATATAAGTTATGTAATTAGAAA
Found at i:3319782 original size:97 final size:97
Alignment explanation
Indices: 3319673--3320292 Score: 1240
Period size: 97 Copynumber: 6.4 Consensus size: 97
3319663 GAAATTGATG
3319673 TGTAATTAGAAATTTTATCTTAATATTATATAAGTTATGTAATGAGAAATTAATATTATCTAAGT
1 TGTAATTAGAAATTTTATCTTAATATTATATAAGTTATGTAATGAGAAATTAATATTATCTAAGT
3319738 TATGTTATTAGAAATTAATATTATATAAGTTA
66 TATGTTATTAGAAATTAATATTATATAAGTTA
3319770 TGTAATTAGAAATTTTATCTTAATATTATATAAGTTATGTAATGAGAAATTAATATTATCTAAGT
1 TGTAATTAGAAATTTTATCTTAATATTATATAAGTTATGTAATGAGAAATTAATATTATCTAAGT
3319835 TATGTTATTAGAAATTAATATTATATAAGTTA
66 TATGTTATTAGAAATTAATATTATATAAGTTA
3319867 TGTAATTAGAAATTTTATCTTAATATTATATAAGTTATGTAATGAGAAATTAATATTATCTAAGT
1 TGTAATTAGAAATTTTATCTTAATATTATATAAGTTATGTAATGAGAAATTAATATTATCTAAGT
3319932 TATGTTATTAGAAATTAATATTATATAAGTTA
66 TATGTTATTAGAAATTAATATTATATAAGTTA
3319964 TGTAATTAGAAATTTTATCTTAATATTATATAAGTTATGTAATGAGAAATTAATATTATCTAAGT
1 TGTAATTAGAAATTTTATCTTAATATTATATAAGTTATGTAATGAGAAATTAATATTATCTAAGT
3320029 TATGTTATTAGAAATTAATATTATATAAGTTA
66 TATGTTATTAGAAATTAATATTATATAAGTTA
3320061 TGTAATTAGAAATTTTATCTTAATATTATATAAGTTATGTAATGAGAAATTAATATTATCTAAGT
1 TGTAATTAGAAATTTTATCTTAATATTATATAAGTTATGTAATGAGAAATTAATATTATCTAAGT
3320126 TATGTTATTAGAAATTAATATTATATAAGTTA
66 TATGTTATTAGAAATTAATATTATATAAGTTA
3320158 TGTAATTAGAAATTTTATCTTAATATTATATAAGTTATGTAATGAGAAATTAATATTATCTAAGT
1 TGTAATTAGAAATTTTATCTTAATATTATATAAGTTATGTAATGAGAAATTAATATTATCTAAGT
3320223 TATGTTATTAGAAATTAATATTATATAAGTTA
66 TATGTTATTAGAAATTAATATTATATAAGTTA
3320255 TGTAATTAGAAATTTTATCTTAATATTATATAAGTTAT
1 TGTAATTAGAAATTTTATCTTAATATTATATAAGTTAT
3320293 CCAACTCATT
Statistics
Matches: 523, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 523 1.00
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (97 bp):
TGTAATTAGAAATTTTATCTTAATATTATATAAGTTATGTAATGAGAAATTAATATTATCTAAGT
TATGTTATTAGAAATTAATATTATATAAGTTA
Found at i:3320292 original size:20 final size:20
Alignment explanation
Indices: 3320269--3320334 Score: 89
Period size: 20 Copynumber: 3.2 Consensus size: 20
3320259 ATTAGAAATT
3320269 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
*
3320289 TTATC-CAACTCATTTATATAAG
1 TTATCTTAA-T-A-TTATATAAG
3320311 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
3320331 TTAT
1 TTAT
3320335 GTAAGTTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 2 0.05
20 19 0.47
21 2 0.05
22 15 0.38
23 2 0.05
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (20 bp):
TTATCTTAATATTATATAAG
Found at i:3322580 original size:7 final size:7
Alignment explanation
Indices: 3322568--3322595 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
3322558 CTTTGGACAG
3322568 CATAAAA
1 CATAAAA
3322575 CATAAAA
1 CATAAAA
3322582 CATAAAA
1 CATAAAA
3322589 CATAAAA
1 CATAAAA
3322596 TAAGATGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (7 bp):
CATAAAA
Found at i:3323367 original size:23 final size:25
Alignment explanation
Indices: 3323313--3323360 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
3323303 ATTATTTTTA
3323313 ATTGTTCAATTTTTTAAAATTGAAAT
1 ATTGTTCAA-TTTTTAAAATTGAAAT
*
3323339 ATTGTTCAA-TTTTAAATTTGAA
1 ATTGTTCAATTTTTAAAATTGAA
3323361 TTATGTTGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.57
26 9 0.43
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (25 bp):
ATTGTTCAATTTTTAAAATTGAAAT
Found at i:3323906 original size:15 final size:15
Alignment explanation
Indices: 3323842--3323962 Score: 55
Period size: 14 Copynumber: 8.7 Consensus size: 15
3323832 ATTAACTATA
*
3323842 AACCCCTAAACCCTT
1 AACCCTTAAACCCTT
*
3323857 AACCCTT-AACCC-C
1 AACCCTTAAACCCTT
*
3323870 AACCCTT-AACCATT
1 AACCCTTAAACCCTT
*
3323884 -A--GTTAAACCCTT
1 AACCCTTAAACCCTT
3323896 AACCCTTAAACACC--
1 AACCCTTAAAC-CCTT
* *
3323910 AACCTTTAAA-CCAT
1 AACCCTTAAACCCTT
* * *
3323924 AATCCATAAACCCCT
1 AACCCTTAAACCCTT
* *
3323939 AACCCAT-ATCCCTT
1 AACCCTTAAACCCTT
*
3323953 AAACCTTAAA
1 AACCCTTAAA
3323963 TCATAGAACA
Statistics
Matches: 78, Mismatches: 18, Indels: 20
0.67 0.16 0.17
Matches are distributed among these distances:
11 2 0.03
12 8 0.10
13 13 0.17
14 31 0.40
15 22 0.28
16 2 0.03
ACGTcount: A:0.38, C:0.38, G:0.01, T:0.23
Consensus pattern (15 bp):
AACCCTTAAACCCTT
Found at i:3324018 original size:15 final size:15
Alignment explanation
Indices: 3323952--3324019 Score: 50
Period size: 15 Copynumber: 4.4 Consensus size: 15
3323942 CCATATCCCT
3323952 TAAACCT-TAAATCA
1 TAAACCTATAAATCA
* *
3323966 TAGAACATATAAAAACTA
1 TA-AACCTAT-AAATC-A
**
3323984 TAAACCCCTAAATCCA
1 TAAACCTATAAAT-CA
3324000 -AAACCTATAAATCA
1 TAAACCTATAAATCA
3324014 TAAACC
1 TAAACC
3324020 CTTAACTCGT
Statistics
Matches: 40, Mismatches: 8, Indels: 11
0.68 0.14 0.19
Matches are distributed among these distances:
14 4 0.10
15 19 0.47
16 5 0.12
17 9 0.22
18 3 0.08
ACGTcount: A:0.53, C:0.24, G:0.01, T:0.22
Consensus pattern (15 bp):
TAAACCTATAAATCA
Found at i:3324103 original size:7 final size:7
Alignment explanation
Indices: 3324091--3324132 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
3324081 ACAACCCCTT
3324091 CCCTTAA
1 CCCTTAA
3324098 CCCTTAA
1 CCCTTAA
*
3324105 CCCCTAAA
1 -CCCTTAA
3324113 CCCTTAA
1 CCCTTAA
*
3324120 CCC-CAA
1 CCCTTAA
3324126 CCCTTAA
1 CCCTTAA
3324133 ACCATAATCC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 5 0.17
7 18 0.62
8 6 0.21
ACGTcount: A:0.31, C:0.48, G:0.00, T:0.21
Consensus pattern (7 bp):
CCCTTAA
Found at i:3324114 original size:15 final size:14
Alignment explanation
Indices: 3324095--3324132 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
3324085 CCCCTTCCCT
3324095 TAACCCTTAACCCC
1 TAACCCTTAACCCC
3324109 TAAACCCTTAACCCC
1 T-AACCCTTAACCCC
3324124 -AACCCTTAA
1 TAACCCTTAA
3324133 ACCATAATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 9 0.39
14 1 0.04
15 13 0.57
ACGTcount: A:0.34, C:0.45, G:0.00, T:0.21
Consensus pattern (14 bp):
TAACCCTTAACCCC
Found at i:3324130 original size:35 final size:35
Alignment explanation
Indices: 3324091--3324157 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
3324081 ACAACCCCTT
* * * *
3324091 CCCTTAACCCTTAACCCCTAAACCCTTAACCCCAA
1 CCCTTAAACCATAACCCATAAAACCTTAACCCCAA
*
3324126 CCCTTAAACCATAATCCATAAAACCTTAACCC
1 CCCTTAAACCATAACCCATAAAACCTTAACCC
3324158 ATATCTCTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.36, C:0.43, G:0.00, T:0.21
Consensus pattern (35 bp):
CCCTTAAACCATAACCCATAAAACCTTAACCCCAA
Found at i:3325075 original size:114 final size:113
Alignment explanation
Indices: 3324821--3325150 Score: 306
Period size: 114 Copynumber: 2.9 Consensus size: 113
3324811 TCTAAGAAAG
* * * * * * *
3324821 CGCCATTAAAGTCTCTAAAACCTAAATAAAAAACGACTACGTTTTCTTAAGAGTTTTACGGCACT
1 CGCCACTAACGTC-CTAAAACCTAAACAAAAAACGGCTACGTTTTCTTAACAGTTTTGCGGCGCT
* * * *
3324886 T-TG-TCAAAAGCGCCGCCAAATCTTGGCTATTGCGGCATTTTTCGATAAC
65 TATGAT--AAAGCGCCGCTAATTCTTGACTATTGCGGCATTTTCCGATAAC
* * ** * *
3324935 CGCCACTATCGTCTTGAAAAGATAAACGAAAAACGGCAACGTTTTCTTAACAGTTTTGCGGCGCT
1 CGCCACTAACGTCCT-AAAACCTAAACAAAAAACGGCTACGTTTTCTTAACAGTTTTGCGGCGCT
** *
3325000 TATGATAAAGCGCCGCTAATTCTTGACCGTTGCGGCATTTTCC-AGTAAG
65 TATGATAAAGCGCCGCTAATTCTTGACTATTGCGGCATTTTCCGA-TAAC
* ** * * * *
3325049 CGCCACTAACTTTCCTAAAACCTAAACTTAAAACGGCTCCATTTTCTTAGCAGTTTTTGCGGCGT
1 CGCCACTAAC-GTCCTAAAACCTAAACAAAAAACGGCTACGTTTTCTTAACAG-TTTTGCGGCGC
* * *
3325114 TTATGATAAAACACCGGTAATTCTTGACTATTGCGGC
64 TTATGATAAAGCGCCGCTAATTCTTGACTATTGCGGC
3325151 GTTTCTAAAG
Statistics
Matches: 173, Mismatches: 37, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
113 2 0.01
114 123 0.71
115 47 0.27
116 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (113 bp):
CGCCACTAACGTCCTAAAACCTAAACAAAAAACGGCTACGTTTTCTTAACAGTTTTGCGGCGCTT
ATGATAAAGCGCCGCTAATTCTTGACTATTGCGGCATTTTCCGATAAC
Found at i:3328107 original size:3 final size:3
Alignment explanation
Indices: 3328099--3328123 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3328089 ATTTTGACAG
3328099 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
3328124 GTCTAAGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:3335197 original size:62 final size:62
Alignment explanation
Indices: 3335095--3335247 Score: 252
Period size: 62 Copynumber: 2.5 Consensus size: 62
3335085 ACCCTAATTC
* *
3335095 GGATTACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCAGGAGGGCTATATCATGATA
1 GGATCACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCAGGAGGGCTATATCAGGATA
*
3335157 GGATCACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATCAGGATA
1 GGATCACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCAGGAGGGCTATATCAGGATA
* * *
3335219 GGATCACCCTTCCGGGCTAGATCCTTTTT
1 GGATCACCCGTCCGGGCTAAATCCATTTT
3335248 ACTGTCAATT
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 85 1.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (62 bp):
GGATCACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCAGGAGGGCTATATCAGGATA
Found at i:3352688 original size:15 final size:15
Alignment explanation
Indices: 3352668--3352697 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3352658 CTCTCTTTTT
*
3352668 TTTTAAGAAAAAAAA
1 TTTTAACAAAAAAAA
3352683 TTTTAACAAAAAAAA
1 TTTTAACAAAAAAAA
3352698 ATCCCCAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (15 bp):
TTTTAACAAAAAAAA
Found at i:3354933 original size:15 final size:15
Alignment explanation
Indices: 3354913--3354943 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3354903 GCTTGAGTTA
3354913 ATGGCTGCTTCAATC
1 ATGGCTGCTTCAATC
*
3354928 ATGGCTGCTTCCATC
1 ATGGCTGCTTCAATC
3354943 A
1 A
3354944 CTGCTTACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.32
Consensus pattern (15 bp):
ATGGCTGCTTCAATC
Found at i:3370334 original size:18 final size:18
Alignment explanation
Indices: 3370291--3370334 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
3370281 TCCTTAATCT
*
3370291 TTGATTTA-TTATTTTAT
1 TTGATTTATTTATTTTAA
* *
3370308 TTTAGTTATTTATTTTAA
1 TTGATTTATTTATTTTAA
3370326 TTGATTTAT
1 TTGATTTAT
3370335 CTGACTTGGA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (18 bp):
TTGATTTATTTATTTTAA
Found at i:3375239 original size:14 final size:14
Alignment explanation
Indices: 3375222--3375259 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
3375212 TCACTGGGTT
*
3375222 TTTCTTTTGAAGAA
1 TTTCTCTTGAAGAA
3375236 TTTCTCTTGAAGAA
1 TTTCTCTTGAAGAA
3375250 TTTCTCTTGA
1 TTTCTCTTGA
3375260 GTTTATTCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.50
Consensus pattern (14 bp):
TTTCTCTTGAAGAA
Found at i:3376789 original size:26 final size:26
Alignment explanation
Indices: 3376738--3376789 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
3376728 TAATTTCTTA
**
3376738 TAAAATTAATATACTTAACTTTAATT
1 TAAAATTAATATACTTAACTACAATT
*
3376764 TAAAATTAAATATATTTAA-TACAATT
1 TAAAATT-AATATACTTAACTACAATT
3376790 ATATATTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (26 bp):
TAAAATTAATATACTTAACTACAATT
Found at i:3377813 original size:303 final size:303
Alignment explanation
Indices: 3377266--3377871 Score: 1196
Period size: 303 Copynumber: 2.0 Consensus size: 303
3377256 GGGAAATTTT
3377266 CCATTTTAAGAGGACTAGGACTCCTACCAAGCACCAACTCCTGACTCCGCCCCCAATAATACATA
1 CCATTTTAAGAGGACTAGGACTCCTACCAAGCACCAACTCCTGACTCCGCCCCCAATAATACATA
3377331 TGTAATAAATAAGTTTTTTCCTCATGTTATTACACTAATAATCAAACAATGCAAATAATTTTAAG
66 TGTAATAAATAAGTTTTTTCCTCATGTTATTACACTAATAATCAAACAATGCAAATAATTTTAAG
3377396 ATCTGAGGTTCAAGTCTTATTCTATATAAGTCATATGTGCGTTCCGTTCCATATTAATTCAGGTT
131 ATCTGAGGTTCAAGTCTTATTCTATATAAGTCATATGTGCGTTCCGTTCCATATTAATTCAGGTT
3377461 TAGATCTCATCATATTCGGGGCTTGTATGTACATATTAATCATTAAAAATTATATTATTTTGTAA
196 TAGATCTCATCATATTCGGGGCTTGTATGTACATATTAATCATTAAAAATTATATTATTTTGTAA
3377526 TTTAATTTA-GTAATAATTTAAATATTTTTATAATTAACTAAGC
261 TTTAATTTAGGTAATAATTT-AATATTTTTATAATTAACTAAGC
3377569 CCATTTTAAGAGGACTAGGACTCCTACCAAGCACCAACTCCTGACTCCGCCCCCAATAATACATA
1 CCATTTTAAGAGGACTAGGACTCCTACCAAGCACCAACTCCTGACTCCGCCCCCAATAATACATA
3377634 TGTAATAAATAAGTTTTTTCCTCATGTTATTACACTAATAATCAAACAATGCAAATAATTTTAAG
66 TGTAATAAATAAGTTTTTTCCTCATGTTATTACACTAATAATCAAACAATGCAAATAATTTTAAG
3377699 ATCTGAGGTTCAAGTCTTATTCTATATAAGTCATATGTGCGTTCCGTTCCATATTAATTCAGGTT
131 ATCTGAGGTTCAAGTCTTATTCTATATAAGTCATATGTGCGTTCCGTTCCATATTAATTCAGGTT
3377764 TAGATCTCATCATATTCGGGGCTTGTATGTACATATTAATCATTAAAAATTATATTATTTTGTAA
196 TAGATCTCATCATATTCGGGGCTTGTATGTACATATTAATCATTAAAAATTATATTATTTTGTAA
3377829 TTTAATTTAGGTAATAATTTAATATTTTTATAATTAACTAAGC
261 TTTAATTTAGGTAATAATTTAATATTTTTATAATTAACTAAGC
3377872 TATTTATTTT
Statistics
Matches: 302, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
303 292 0.97
304 10 0.03
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (303 bp):
CCATTTTAAGAGGACTAGGACTCCTACCAAGCACCAACTCCTGACTCCGCCCCCAATAATACATA
TGTAATAAATAAGTTTTTTCCTCATGTTATTACACTAATAATCAAACAATGCAAATAATTTTAAG
ATCTGAGGTTCAAGTCTTATTCTATATAAGTCATATGTGCGTTCCGTTCCATATTAATTCAGGTT
TAGATCTCATCATATTCGGGGCTTGTATGTACATATTAATCATTAAAAATTATATTATTTTGTAA
TTTAATTTAGGTAATAATTTAATATTTTTATAATTAACTAAGC
Found at i:3388888 original size:19 final size:18
Alignment explanation
Indices: 3388847--3388895 Score: 73
Period size: 17 Copynumber: 2.7 Consensus size: 18
3388837 TATGATTATA
3388847 ATTTAATTAATCATTTTT
1 ATTTAATTAATCATTTTT
*
3388865 -CTTAATTAATCATATTTT
1 ATTTAATTAATCAT-TTTT
3388883 ATTTAATTAATCA
1 ATTTAATTAATCA
3388896 AAATATAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 12 0.44
18 4 0.15
19 11 0.41
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTAATTAATCATTTTT
Found at i:3390623 original size:15 final size:16
Alignment explanation
Indices: 3390603--3390634 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3390593 TATAAAAAAA
*
3390603 CAAAAACAAAAACCTG
1 CAAAAAAAAAAACCTG
3390619 CAAAAAAAAAAACCTG
1 CAAAAAAAAAAACCTG
3390635 TGGCGGCACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.22, G:0.06, T:0.06
Consensus pattern (16 bp):
CAAAAAAAAAAACCTG
Done.