Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 57 of 378
Found at i:14461604 original size:28 final size:28
Alignment explanation
Indices: 14461573--14461645 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
14461563 CAATGCCTCG
* *
14461573 CACACTAAGTGCCATACTTGATATCTCA
1 CACACTAAGTGCCACACTCGATATCTCA
*
14461601 CACACTAAGTGCCACACTCGATATCTCG
1 CACACTAAGTGCCACACTCGATATCTCA
14461629 CACACTAAGTGCCACAC
1 CACACTAAGTGCCACAC
14461646 ATAGCCAAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.32, C:0.34, G:0.12, T:0.22
Consensus pattern (28 bp):
CACACTAAGTGCCACACTCGATATCTCA
Found at i:14461673 original size:40 final size:40
Alignment explanation
Indices: 14461629--14461804 Score: 237
Period size: 40 Copynumber: 4.4 Consensus size: 40
14461619 CGATATCTCG
* * * *
14461629 CACACTAAGTGCCACACATAGCCAAAGCTATCTCAAATCA
1 CACACTAAGTGCCATATATAGCCAAAGCTATGTCGAATCA
* *
14461669 CACACTAAGTGCCATATATAGCCGAAA-CTATGTTGAATCG
1 CACACTAAGTGCCATATATAGCC-AAAGCTATGTCGAATCA
*
14461709 CACACTAAGTGCCATATATAGCCAAAGCTATGTCGAATCG
1 CACACTAAGTGCCATATATAGCCAAAGCTATGTCGAATCA
* * *
14461749 CACACTAAGTGCCATATATAACTAAAGCTATGTCGTATCA
1 CACACTAAGTGCCATATATAGCCAAAGCTATGTCGAATCA
*
14461789 CACATTAAGTGCCATA
1 CACACTAAGTGCCATA
14461805 AATAATCGAT
Statistics
Matches: 122, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 3 0.02
40 116 0.95
41 3 0.02
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCCAAAGCTATGTCGAATCA
Found at i:14467037 original size:62 final size:62
Alignment explanation
Indices: 14466911--14467047 Score: 186
Period size: 62 Copynumber: 2.2 Consensus size: 62
14466901 ACGGCCTGGG
* *
14466911 CACACGCCCATGTCCTTGACCGTGTGGTCTTACACTACAAATAGTGAGTTACACGACCCAGA
1 CACACGCCCGTGTCCTTGACCGTGTGGTCTTACACCACAAATAGTGAGTTACACGACCCAGA
* * * * **
14466973 CACACGTCCGTGTCCTTGGCCGTGTGGTCTTATACCACAAATAGTGAGTTATAC-AGCCTTGA
1 CACACGCCCGTGTCCTTGACCGTGTGGTCTTACACCACAAATAGTGAGTTACACGA-CCCAGA
14467035 CACACGCCCGTGT
1 CACACGCCCGTGT
14467048 TTGTTGCCCG
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
61 1 0.02
62 64 0.98
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (62 bp):
CACACGCCCGTGTCCTTGACCGTGTGGTCTTACACCACAAATAGTGAGTTACACGACCCAGA
Found at i:14467710 original size:17 final size:17
Alignment explanation
Indices: 14467672--14467710 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
14467662 CAAATATCGT
*
14467672 AAAAAGAAAAAAGAAAA
1 AAAAAGAAAAAACAAAA
* *
14467689 TAAAAGAAAAACCAAAA
1 AAAAAGAAAAAACAAAA
14467706 AAAAA
1 AAAAA
14467711 CCAAACTTAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.85, C:0.05, G:0.08, T:0.03
Consensus pattern (17 bp):
AAAAAGAAAAAACAAAA
Found at i:14469626 original size:22 final size:22
Alignment explanation
Indices: 14469598--14469641 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
14469588 CATCTTCAAC
* *
14469598 TAAACTCAGGCGAGCTAACATT
1 TAAACTCAAGCGAGATAACATT
14469620 TAAACTCAAGCGAGATAACATT
1 TAAACTCAAGCGAGATAACATT
14469642 GCTCTCAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (22 bp):
TAAACTCAAGCGAGATAACATT
Found at i:14476568 original size:62 final size:62
Alignment explanation
Indices: 14476471--14476629 Score: 196
Period size: 62 Copynumber: 2.6 Consensus size: 62
14476461 CCCATGTCTC
* * * *
14476471 TGGTCGTGTGG-CTTTATACCACAAACAGTGAGTTACATGGCCTAGACACACACT-TGTGTCCT
1 TGGTCGTGTGGTC-TTATACCACAAACAGTGAGTTACACGACCCAGACACAC-CTCCGTGTCCT
* * * *
14476533 TGGTCGTGTGGTCTTATGCCATAAACAGTAAGTTACACGACCCAGACACACGTCCGTGTCCT
1 TGGTCGTGTGGTCTTATACCACAAACAGTGAGTTACACGACCCAGACACACCTCCGTGTCCT
* *
14476595 TGGCCGTGTGGTCTTATACCACAAATAGTGAGTTA
1 TGGTCGTGTGGTCTTATACCACAAACAGTGAGTTA
14476630 TACAGCCTTG
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
61 1 0.01
62 80 0.98
63 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (62 bp):
TGGTCGTGTGGTCTTATACCACAAACAGTGAGTTACACGACCCAGACACACCTCCGTGTCCT
Found at i:14476643 original size:62 final size:61
Alignment explanation
Indices: 14476475--14476653 Score: 191
Period size: 62 Copynumber: 2.9 Consensus size: 61
14476465 TGTCTCTGGT
* * *
14476475 CGTGTGG-CTTTATACCACAAACAGTGAGTTACATGGCCTAGACACAC-ACTTGTGTCCTTGGT
1 CGTGTGGTC-TTATACCACAAACAGTGAGTTACA-CGCCTAGACACACGAC-CGTGTCCTTGGC
* * * * *
14476537 CGTGTGGTCTTATGCCATAAACAGTAAGTTACACGACCCAGACACACGTCCGTGTCCTTGGC
1 CGTGTGGTCTTATACCACAAACAGTGAGTTACACG-CCTAGACACACGACCGTGTCCTTGGC
* * * *
14476599 CGTGTGGTCTTATACCACAAATAGTGAGTTATACAGCCTTGACACACGCCCGTGT
1 CGTGTGGTCTTATACCACAAACAGTGAGTTACAC-GCCTAGACACACGACCGTGT
14476654 TTGTTGCCCG
Statistics
Matches: 97, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
61 1 0.01
62 93 0.96
63 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (61 bp):
CGTGTGGTCTTATACCACAAACAGTGAGTTACACGCCTAGACACACGACCGTGTCCTTGGC
Found at i:14478800 original size:131 final size:131
Alignment explanation
Indices: 14478566--14478835 Score: 334
Period size: 131 Copynumber: 2.1 Consensus size: 131
14478556 TAGAAAATAC
* * * *
14478566 GAGTGAAATCCTGAAGGGATCTTCGATTGTCTCGAACAAATGAAAATGCGCAACCCAGCACGATA
1 GAGTGAAAACCTAAAGGAATCTTCGATTGTCTCGAACAAATGAAAATGCACAACCCAGCACGATA
* *
14478631 GGGCACGATTCTCAAATTGCCGAACATCGAACATTGCCTTCGTTTTAAAAGG-TTTTTAATA-GA
66 GGGCACGATTCCCAAATTGCCGAACACCGAACATTGCCTTCGTTTT-AAAGGATTTTTAA-AGGA
14478694 CAT
129 CAT
* * *
14478697 GAGTGAAAACCTAAAGGAATCTTCGATTGTTTTGAAC-AATCGAGAAAT-CACAACCCATCACGA
1 GAGTGAAAACCTAAAGGAATCTTCGATTGTCTCGAACAAAT-GA-AAATGCACAACCCAGCACGA
* * * *
14478760 TAGGGCATGCTTCCCGAATTGTCC-AACACCGAGCATTGCCTTCGTTTTAAAGGATTTTTAAAGG
64 TAGGGCACGATTCCCAAATTG-CCGAACACCGAACATTGCCTTCGTTTTAAAGGATTTTTAAAGG
*
14478824 ATAT
128 ACAT
14478828 GAGTGAAA
1 GAGTGAAA
14478836 TTTTGAAGGG
Statistics
Matches: 120, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
130 9 0.08
131 105 0.88
132 6 0.05
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (131 bp):
GAGTGAAAACCTAAAGGAATCTTCGATTGTCTCGAACAAATGAAAATGCACAACCCAGCACGATA
GGGCACGATTCCCAAATTGCCGAACACCGAACATTGCCTTCGTTTTAAAGGATTTTTAAAGGACA
T
Found at i:14478940 original size:131 final size:131
Alignment explanation
Indices: 14478615--14479082 Score: 337
Period size: 131 Copynumber: 3.6 Consensus size: 131
14478605 ATGAAAATGC
* * * * **
14478615 GCAACCCAGCACGATAGGGCACGATTCTCA--AATTGCCGAACATCGA-ACATTGCCTTCGTTTT
1 GCAACCCAACACGTTAGGGCACGATTC-CACGAATTGCCAAATATC-ACACATCACCTTCG-TTT
* * * * ** *
14478677 AAAAGG-TTTTTAATAGACATGAGTGAAAACCTAAAGGAATC-TTCGATTGTTTTGAA-CAATCG
63 -AAGGGATTTTTAAAAGACATGAGTGAAAATCTAAAGGGA-CATTCGATTACTTT-AAGCAAACG
* *
14478739 AGAAATC
125 AAAAATT
* * * * * * **
14478746 ACAACCCATCACGATAGGGCATGCTTCC-CGAATTGTCC-AACA-C-CGAGCATTGCCTTCGTTT
1 GCAACCCAACACGTTAGGGCACGATTCCACGAATTG-CCAAATATCAC-A-CATCACCTTCG-TT
* * * * * * * * * *
14478807 TAAAGGATTTTTAAAGGATATGAGTGAAATTTTGAAGGGATATTTGATTA-TTTCAAGTAGACGA
62 TAAGGGATTTTTAAAAGACATGAGTGAAAATCTAAAGGGACATTCGATTACTTT-AAGCAAACGA
**
14478871 GGAATT
126 AAAATT
* * * * * *
14478877 GCAACCCAGCACGTTAGGGCACGATTCCGCGAATTTCCAAATATCGCACATCGCCTTTGTTTAAG
1 GCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAATATCACACATCACCTTCGTTTAAG
* * * *
14478942 GGATCTTTAAAAGACATGGGTGAAAATCTAAAGGGACGTTCGATTACTTTGAGCAAACGAAAAAT
66 GGATTTTTAAAAGACATGAGTGAAAATCTAAAGGGACATTCGATTACTTTAAGCAAACGAAAAAT
14479007 T
131 T
* *
14479008 GCAACCCAACACGTTAGGGCACGATTCCACGCATTGCCAAGTATCACACATCACCTTCGTTTAAG
1 GCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAATATCACACATCACCTTCGTTTAAG
14479073 GGATTTTTAA
66 GGATTTTTAA
14479083 TAGTTGTGAA
Statistics
Matches: 268, Mismatches: 55, Indels: 28
0.76 0.16 0.08
Matches are distributed among these distances:
130 13 0.05
131 229 0.85
132 23 0.09
133 2 0.01
134 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (131 bp):
GCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAATATCACACATCACCTTCGTTTAAG
GGATTTTTAAAAGACATGAGTGAAAATCTAAAGGGACATTCGATTACTTTAAGCAAACGAAAAAT
T
Found at i:14479696 original size:2 final size:2
Alignment explanation
Indices: 14479689--14479715 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14479679 TTAAAAGCAT
14479689 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
14479716 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:14481321 original size:46 final size:46
Alignment explanation
Indices: 14481251--14481425 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
14481241 TGTAACCCGC
* *
14481251 CCATAAGCGAACTCTGACTGAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
14481297 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * *
14481347 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
14481390 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
14481426 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.57
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:14481387 original size:93 final size:93
Alignment explanation
Indices: 14481258--14481429 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
14481248 CGCCCATAAG
* * * * *
14481258 CGAACTCTGACTGAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
14481323 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
14481351 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
14481416 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
14481430 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:14481445 original size:46 final size:44
Alignment explanation
Indices: 14481302--14481445 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 44
14481292 CGCATCCATA
*
14481302 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * * *
14481349 CA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGC-CAACCATCT
14481395 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
14481441 AGTGA
1 AGTGA
14481446 CATGTCACTT
Statistics
Matches: 77, Mismatches: 12, Indels: 16
0.73 0.11 0.15
Matches are distributed among these distances:
44 9 0.12
45 2 0.03
46 31 0.40
47 28 0.36
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:14488552 original size:93 final size:93
Alignment explanation
Indices: 14488440--14488611 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
14488430 CGCCCATAAG
* *
14488440 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
14488505 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
14488533 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
14488598 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
14488612 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:14488608 original size:46 final size:46
Alignment explanation
Indices: 14488433--14488608 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
14488423 TGTAACCCGC
* * *
14488433 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
14488479 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
14488529 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
14488572 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
14488609 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:14496106 original size:93 final size:93
Alignment explanation
Indices: 14495994--14496165 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
14495984 CGCCCATAAG
* *
14495994 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
14496059 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
14496087 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
14496152 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
14496166 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:14496162 original size:46 final size:46
Alignment explanation
Indices: 14495987--14496162 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
14495977 TGTAACCCGC
* *
14495987 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
14496033 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
14496083 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
14496126 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
14496163 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.58
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:14497854 original size:3 final size:3
Alignment explanation
Indices: 14497846--14497890 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
14497836 AGAATTAAGC
14497846 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14497891 GGACCAACGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:14500857 original size:21 final size:21
Alignment explanation
Indices: 14500828--14501070 Score: 218
Period size: 21 Copynumber: 11.6 Consensus size: 21
14500818 AAAGCCTGAA
* * *
14500828 AGCTGAACAGAAGCTTATGAG
1 AGCTAAACAGAAGCTCATAAG
*
14500849 AGTTAAACAGAAGCTCATAAG
1 AGCTAAACAGAAGCTCATAAG
14500870 AGCTAAACAGAAGCTCATAAG
1 AGCTAAACAGAAGCTCATAAG
* * *
14500891 AGCTAAACAGAAACCCTTAAG
1 AGCTAAACAGAAGCTCATAAG
* * * *
14500912 AGTTGAATATAAGCTCATAAG
1 AGCTAAACAGAAGCTCATAAG
* * *
14500933 AGCTAAACGGAAACTCATAAA
1 AGCTAAACAGAAGCTCATAAG
* * * *
14500954 AGTTGAATAGAAGCTCGTAAG
1 AGCTAAACAGAAGCTCATAAG
* * *
14500975 AGCTGAACAGAAACTCCTAAG
1 AGCTAAACAGAAGCTCATAAG
* * *
14500996 AGCTGAACAGAAGCTCGTAAA
1 AGCTAAACAGAAGCTCATAAG
* * *
14501017 AGCTGAACAGAAACTCATATG
1 AGCTAAACAGAAGCTCATAAG
*
14501038 AGCTAAACAGAAGCTTGA-AAG
1 AGCTAAACAGAAGC-TCATAAG
14501059 AGCTAAACAGAA
1 AGCTAAACAGAA
14501071 AGTAAAACAC
Statistics
Matches: 177, Mismatches: 44, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
21 175 0.99
22 2 0.01
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (21 bp):
AGCTAAACAGAAGCTCATAAG
Found at i:14500880 original size:42 final size:42
Alignment explanation
Indices: 14500828--14501071 Score: 265
Period size: 42 Copynumber: 5.8 Consensus size: 42
14500818 AAAGCCTGAA
* * * *
14500828 AGCTGAACAGAAGCTTATGAGAGTTAAACAGAAGCTCATAAG
1 AGCTGAACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAG
* * *
14500870 AGCTAAACAGAAGCTCATAAGAGCTAAACAGAAACCCTTAAG
1 AGCTGAACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAG
* * * * *
14500912 AGTTGAATATAAGCTCATAAGAGCTAAACGGAAACTCATAAA
1 AGCTGAACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAG
* * * * *
14500954 AGTTGAATAGAAGCTCGTAAGAGCTGAACAGAAACTCCTAAG
1 AGCTGAACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAG
* * * *
14500996 AGCTGAACAGAAGCTCGTAAAAGCTGAACAGAAACTCATATG
1 AGCTGAACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAG
* *
14501038 AGCTAAACAGAAGCTTGA-AAGAGCTAAACAGAAA
1 AGCTGAACAGAAGC-TCATAAGAGCTAAACAGAAA
14501072 GTAAAACACA
Statistics
Matches: 170, Mismatches: 31, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
42 169 0.99
43 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (42 bp):
AGCTGAACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAG
Found at i:14500915 original size:63 final size:63
Alignment explanation
Indices: 14500826--14501070 Score: 249
Period size: 63 Copynumber: 3.9 Consensus size: 63
14500816 CAAAAGCCTG
* * * *
14500826 AAAGCTGAACAGAAGCTTATGAGAGTTAAACAGAAGCTCATAAGAGCTAAACAGAAGCTCATA
1 AAAGCTGAACAGAAACTCATAAGAGCTAAACAGAAGCTCATAAGAGCTAAACAGAAGCTCATA
* * * * * * * * * *
14500889 AGAGCTAAACAGAAACCCTTAAGAGTTGAATATAAGCTCATAAGAGCTAAACGGAAACTCATA
1 AAAGCTGAACAGAAACTCATAAGAGCTAAACAGAAGCTCATAAGAGCTAAACAGAAGCTCATA
* * * * * * * * *
14500952 AAAGTTGAATAGAAGCTCGTAAGAGCTGAACAGAAACTCCTAAGAGCTGAACAGAAGCTCGTA
1 AAAGCTGAACAGAAACTCATAAGAGCTAAACAGAAGCTCATAAGAGCTAAACAGAAGCTCATA
* *
14501015 AAAGCTGAACAGAAACTCATATGAGCTAAACAGAAGCTTGA-AAGAGCTAAACAGAA
1 AAAGCTGAACAGAAACTCATAAGAGCTAAACAGAAGC-TCATAAGAGCTAAACAGAA
14501071 AGTAAAACAC
Statistics
Matches: 143, Mismatches: 38, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
63 142 0.99
64 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (63 bp):
AAAGCTGAACAGAAACTCATAAGAGCTAAACAGAAGCTCATAAGAGCTAAACAGAAGCTCATA
Found at i:14521541 original size:21 final size:21
Alignment explanation
Indices: 14521493--14521542 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
14521483 GATCTCATAA
** *
14521493 GCCCGTGTGTCCACCAGACAC
1 GCCCGTGTGTCCAAAACACAC
**
14521514 GGTCGTGTGTCCAAAACACAC
1 GCCCGTGTGTCCAAAACACAC
14521535 GCCCGTGT
1 GCCCGTGT
14521543 AGGATCTTTA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.36, G:0.26, T:0.18
Consensus pattern (21 bp):
GCCCGTGTGTCCAAAACACAC
Found at i:14527456 original size:32 final size:32
Alignment explanation
Indices: 14527420--14527484 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
14527410 TGTATGCATT
*
14527420 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATAGATGATGGGCA
14527452 TTAGCATTTTAATAGTTAATAGATGATGGGCA
1 TTAGCATTTTAATAGTTAATAGATGATGGGCA
14527484 T
1 T
14527485 GGTAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATAGATGATGGGCA
Found at i:14528994 original size:26 final size:26
Alignment explanation
Indices: 14528965--14529017 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
14528955 TTTACAGTTT
14528965 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
14528991 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
14529017 T
1 T
14529018 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:14530612 original size:12 final size:12
Alignment explanation
Indices: 14530595--14530625 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
14530585 ACTCGGGGAA
14530595 GAGGCCGTGGTC
1 GAGGCCGTGGTC
14530607 GAGGCCGTGGTC
1 GAGGCCGTGGTC
14530619 GAGGCCG
1 GAGGCCG
14530626 AGGTAGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.26, G:0.52, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:14535488 original size:32 final size:31
Alignment explanation
Indices: 14535447--14535510 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 31
14535437 TGTATGCATT
14535447 TTAGATTTTAATAGTTAATGGATGATGGGCA
1 TTAGATTTTAATAGTTAATGGATGATGGGCA
14535478 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAG-ATTTTAATAGTTAATGGATGATGGGCA
14535510 T
1 T
14535511 GGTAAGCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 4 0.12
32 28 0.88
ACGTcount: A:0.31, C:0.05, G:0.25, T:0.39
Consensus pattern (31 bp):
TTAGATTTTAATAGTTAATGGATGATGGGCA
Found at i:14537013 original size:26 final size:26
Alignment explanation
Indices: 14536983--14537035 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
14536973 TTACAAGTTT
14536983 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
14537009 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
14537035 T
1 T
14537036 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:14543431 original size:32 final size:32
Alignment explanation
Indices: 14543390--14543454 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
14543380 TGTATGCATT
14543390 TTAGAATTTTAATAGTTAATGGATGATGGGCA
1 TTAGAATTTTAATAGTTAATGGATGATGGGCA
*
14543422 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGAATTTTAATAGTTAATGGATGATGGGCA
14543454 T
1 T
14543455 GGTAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGAATTTTAATAGTTAATGGATGATGGGCA
Found at i:14544959 original size:26 final size:26
Alignment explanation
Indices: 14544930--14544982 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
14544920 TTTACAGTTT
14544930 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
14544956 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
14544982 T
1 T
14544983 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:14547475 original size:627 final size:628
Alignment explanation
Indices: 14546280--14547540 Score: 2454
Period size: 627 Copynumber: 2.0 Consensus size: 628
14546270 AGCCCCTGGA
*
14546280 GAAGAAACAACAATGTGCGATAATTCACCAAGCTGTAGGTGCATCAGGGAACCATGCCTTTTGGC
1 GAAGAAACAACAATGTGCGATAATTCACCAAGCTGTAGGTGCATCAGGGAACCAGGCCTTTTGGC
14546345 TAATTCGGTCAAGCGGTGATGGGGGGCAGAGAGAACATTAAAAGGTGCAAGTGGCCAATTAGAGG
66 TAATTCGGTCAAGCGGTGAT-GGGGGCAGAGAGAACATTAAAAGGTGCAAGTGGCCAATTAGAGG
14546410 TAGCTTCCATGGCGCAGGGGGTAGATTCTTGGGCGAGTCCTTTATTTTGGATCTCATCCATAGCT
130 TAGCTTCCATGGCGCAGGGGGTAGATTCTTGGGCGAGTCCTTTATTTTGGATCTCATCCATAGCT
14546475 TCAACACCATGAAAATGAAGACAAGGAAGGTGAAGGACAATGGGAGCAGCTCGAATTGGTTATCC
195 TCAACACCATGAAAATGAAGACAAGGAAGGTGAAGGACAATGGGAGCAGCTCGAATTGGTTATCC
14546540 ATGGTAAGAACTATACAAAACTGTTATTTATTCTTGCAGAATCTTGATACCTGCTTGTCTGTCAA
260 ATGGTAAGAACTATACAAAACTGTTATTTATTCTTGCAGAATCTTGATACCTGCTTGTCTGTCAA
14546605 AACTGACTTTTTGTATTGGTGGTTTAAATAAACATAATCTTCCTTACCAGCACATGCAAAAAATT
325 AACTGACTTTTTGTATTGGTGGTTTAAATAAACATAATCTTCCTTACCAGCACATGCAAAAAATT
14546670 AATTTCTTTTATGGCTAGAATCTGGGAATATCGTATAAGAGGCATAACCATGGAGAATCCTTTTC
390 AATTTCTTTTATGGCTAGAATCTGGGAATATCGTATAAGAGGCATAACCATGGAGAATCCTTTTC
14546735 TTTTATCAATATCTTCACGTGTCTTCATTAATGCAACTTGGTTTAAATATTTATAGCAGAGATTT
455 TTTTATCAATATCTTCACGTGTCTTCATTAATGCAACTTGGTTTAAATATTTATAGCAGAGATTT
14546800 ATAATGATACACCAGCTAAGATACTTTAACTCTTTTATGTTAAGCAAACTACCCAAAAGAACAAT
520 ATAATGATACACCAGCTAAGATACTTTAACTCTTTTATGTTAAGCAAACTACCCAAAAGAACAAT
*
14546865 TGAAACTGATATCCGGGAAAATACAGTTGTATTCCAATTAAATG
585 TGAAACTGATATCCAGGAAAATACAGTTGTATTCCAATTAAATG
*
14546909 GAAGAAACAACAATGTGCGATAATTCACCAAGCTGTTGGTGCATCAGGGAACCAGGCCTTTTGGC
1 GAAGAAACAACAATGTGCGATAATTCACCAAGCTGTAGGTGCATCAGGGAACCAGGCCTTTTGGC
14546974 TAATTCGGTCAAGCGGTGAT-GGGGCAGAGAGAACATTAAAAGGTGCAAGTGGCCAATTAGAGGT
66 TAATTCGGTCAAGCGGTGATGGGGGCAGAGAGAACATTAAAAGGTGCAAGTGGCCAATTAGAGGT
14547038 AGCTTCCATGGCGCAGGGGGTAGATTCTTGGGCGAGTCCTTTATTTTGGATCTCATCCATAGCTT
131 AGCTTCCATGGCGCAGGGGGTAGATTCTTGGGCGAGTCCTTTATTTTGGATCTCATCCATAGCTT
14547103 CAACACCATGAAAATGAAGACAAGGAAGGTGAAGGACAATGGGAGCAGCTCGAATTGGTTATCCA
196 CAACACCATGAAAATGAAGACAAGGAAGGTGAAGGACAATGGGAGCAGCTCGAATTGGTTATCCA
14547168 TGGTAAGAACTATACAAAACTGTTATTTATTCTTGCAGAATCTTGATACCTGCTTGTCTGTCAAA
261 TGGTAAGAACTATACAAAACTGTTATTTATTCTTGCAGAATCTTGATACCTGCTTGTCTGTCAAA
14547233 ACTGACTTTTTGTATTGGTGGTTTAAATAAACATAATCTTCCTTACCAGCACATGCAAAAAATTA
326 ACTGACTTTTTGTATTGGTGGTTTAAATAAACATAATCTTCCTTACCAGCACATGCAAAAAATTA
*
14547298 ATTTCTTTTATGGCTATAATCTGGGAATATCGTATAA-ATGGCATAACCATGGAGAATCCTTTTC
391 ATTTCTTTTATGGCTAGAATCTGGGAATATCGTATAAGA-GGCATAACCATGGAGAATCCTTTTC
14547362 TTTTATCAATATCTTCACGTGTCTTCATTAATGCAACTTGGTTTAAATATTTATAGCAGAGATTT
455 TTTTATCAATATCTTCACGTGTCTTCATTAATGCAACTTGGTTTAAATATTTATAGCAGAGATTT
14547427 ATAATGATACACCAGCTAAGATACTTTAACTCTTTTATGTTAAGCAAACTACCCAAAAGAACAAT
520 ATAATGATACACCAGCTAAGATACTTTAACTCTTTTATGTTAAGCAAACTACCCAAAAGAACAAT
14547492 TGAAACTGATATCCAGGAAAATACAGTTGTATTCCAATTAAATG
585 TGAAACTGATATCCAGGAAAATACAGTTGTATTCCAATTAAATG
14547536 GAAGA
1 GAAGA
14547541 TAGGTTTAAA
Statistics
Matches: 627, Mismatches: 4, Indels: 4
0.99 0.01 0.01
Matches are distributed among these distances:
626 1 0.00
627 543 0.87
629 83 0.13
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (628 bp):
GAAGAAACAACAATGTGCGATAATTCACCAAGCTGTAGGTGCATCAGGGAACCAGGCCTTTTGGC
TAATTCGGTCAAGCGGTGATGGGGGCAGAGAGAACATTAAAAGGTGCAAGTGGCCAATTAGAGGT
AGCTTCCATGGCGCAGGGGGTAGATTCTTGGGCGAGTCCTTTATTTTGGATCTCATCCATAGCTT
CAACACCATGAAAATGAAGACAAGGAAGGTGAAGGACAATGGGAGCAGCTCGAATTGGTTATCCA
TGGTAAGAACTATACAAAACTGTTATTTATTCTTGCAGAATCTTGATACCTGCTTGTCTGTCAAA
ACTGACTTTTTGTATTGGTGGTTTAAATAAACATAATCTTCCTTACCAGCACATGCAAAAAATTA
ATTTCTTTTATGGCTAGAATCTGGGAATATCGTATAAGAGGCATAACCATGGAGAATCCTTTTCT
TTTATCAATATCTTCACGTGTCTTCATTAATGCAACTTGGTTTAAATATTTATAGCAGAGATTTA
TAATGATACACCAGCTAAGATACTTTAACTCTTTTATGTTAAGCAAACTACCCAAAAGAACAATT
GAAACTGATATCCAGGAAAATACAGTTGTATTCCAATTAAATG
Found at i:14547579 original size:35 final size:35
Alignment explanation
Indices: 14547533--14547604 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
14547523 TTCCAATTAA
14547533 ATGGAAGATAGGTTTAAAAAGAAAAGGCATATCAC
1 ATGGAAGATAGGTTTAAAAAGAAAAGGCATATCAC
14547568 ATGGAAGATAGGTTTAAAAAGAAAAGGCATATCAC
1 ATGGAAGATAGGTTTAAAAAGAAAAGGCATATCAC
14547603 AT
1 AT
14547605 AGAAACAACC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.49, C:0.08, G:0.22, T:0.21
Consensus pattern (35 bp):
ATGGAAGATAGGTTTAAAAAGAAAAGGCATATCAC
Found at i:14549911 original size:23 final size:24
Alignment explanation
Indices: 14549858--14549911 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
14549848 ATTTTTTATC
14549858 ATATTACTAAATTTACAATTAAAA
1 ATATTACTAAATTTACAATTAAAA
*
14549882 ATAATTA-TAATATTTA-ATTTAAAA
1 AT-ATTACTAA-ATTTACAATTAAAA
*
14549906 CTATTA
1 ATATTA
14549912 ATTTAAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 4 0.15
24 13 0.50
25 9 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATTACTAAATTTACAATTAAAA
Found at i:14550303 original size:4 final size:4
Alignment explanation
Indices: 14550296--14550327 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
14550286 TTTAAAAGAA
*
14550296 CGTG CGTG CGTG CGTG CGTG CGTA CGTG CGTG
1 CGTG CGTG CGTG CGTG CGTG CGTG CGTG CGTG
14550328 TAACATGCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.03, C:0.25, G:0.47, T:0.25
Consensus pattern (4 bp):
CGTG
Found at i:14550437 original size:15 final size:16
Alignment explanation
Indices: 14550417--14550446 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14550407 AAAAAATTGT
14550417 TTTTCTT-CTCTCTTC
1 TTTTCTTCCTCTCTTC
14550432 TTTTCTTCCTCTCTT
1 TTTTCTTCCTCTCTT
14550447 TGTAACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTCTTCCTCTCTTC
Found at i:14556178 original size:30 final size:30
Alignment explanation
Indices: 14556142--14556199 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
14556132 TTTTTTTCCT
14556142 ACACGGCCTGGA-CACACGAGTGTGTGGAGC
1 ACACGGCCT-GACCACACGAGTGTGTGGAGC
*
14556172 ACACGGCCTGACCACACGGGTGTGTGGA
1 ACACGGCCTGACCACACGAGTGTGTGGA
14556200 ATCTCACATG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.22, C:0.28, G:0.36, T:0.14
Consensus pattern (30 bp):
ACACGGCCTGACCACACGAGTGTGTGGAGC
Found at i:14556521 original size:42 final size:42
Alignment explanation
Indices: 14556475--14556573 Score: 98
Period size: 42 Copynumber: 2.3 Consensus size: 42
14556465 TTGTTTTATT
*
14556475 TAATTTTATTATTAATTGTTATA-TTATTTATTTTT-A-TTTTA
1 TAATTTTATTATTAATTCTTATACTTA--TATTTTTAATTTTTA
*
14556516 CTAA-TTAATTAATTAATTCTTATACTTATATTTTTAATTTTTTA
1 -TAATTTTATT-ATTAATTCTTATACTTATATTTTTAA-TTTTTA
14556560 TATATTTTATTATT
1 TA-ATTTTATTATT
14556574 TTTATTTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
41 12 0.26
42 16 0.34
43 5 0.11
44 9 0.19
45 5 0.11
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (42 bp):
TAATTTTATTATTAATTCTTATACTTATATTTTTAATTTTTA
Found at i:14556562 original size:16 final size:15
Alignment explanation
Indices: 14556541--14556587 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 15
14556531 ATTCTTATAC
14556541 TTATATTTTTAATTTT
1 TTATATTTTT-ATTTT
14556557 TTATATATTTTATTATT
1 TTATAT-TTTTATT-TT
14556574 TT-TATTTTTATTTT
1 TTATATTTTTATTTT
14556588 AATTTTTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.07
15 7 0.24
16 12 0.41
17 8 0.28
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATATTTTTATTTT
Found at i:14556565 original size:18 final size:18
Alignment explanation
Indices: 14556542--14556594 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
14556532 TTCTTATACT
14556542 TATATTTTTAATTTTTTA
1 TATATTTTTAATTTTTTA
*
14556560 TATA-TTTTATTATTTTTA
1 TATATTTTTAAT-TTTTTA
* *
14556578 TTTTTATTTTAATTTTT
1 TATAT-TTTTAATTTTT
14556595 CTATTTCTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
17 6 0.21
18 12 0.43
19 4 0.14
20 6 0.21
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (18 bp):
TATATTTTTAATTTTTTA
Found at i:14556582 original size:26 final size:26
Alignment explanation
Indices: 14556544--14556607 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
14556534 CTTATACTTA
*
14556544 TATTTTTAATTTT-TTATATATTTTAT-
1 TATTTTTATTTTTATTATA-ATTTT-TC
*
14556570 TATTTTTATTTTTATTTTAATTTTTC
1 TATTTTTATTTTTATTATAATTTTTC
*
14556596 TATTTCTATTTT
1 TATTTTTATTTT
14556608 CTTTTTCGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 1 0.03
26 28 0.85
27 4 0.12
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (26 bp):
TATTTTTATTTTTATTATAATTTTTC
Found at i:14556613 original size:20 final size:20
Alignment explanation
Indices: 14556562--14556613 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
14556552 ATTTTTTATA
*
14556562 TATTTTATTATTTT-TATTTT
1 TATTTTATT-TTTTCTATTTC
*
14556582 TATTTTAATTTTTCTATTTC
1 TATTTTATTTTTTCTATTTC
*
14556602 TATTTTCTTTTT
1 TATTTTATTTTT
14556614 CGTTTTCGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (20 bp):
TATTTTATTTTTTCTATTTC
Found at i:14556737 original size:19 final size:19
Alignment explanation
Indices: 14556689--14556737 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
14556679 TTATTACTAT
* * *
14556689 TTTTTATTTTTTATTTTTC
1 TTTTTAATTTTTATCTTCC
**
14556708 TTTTTTCTTTTTATCTTCC
1 TTTTTAATTTTTATCTTCC
14556727 TTTTTAATTTT
1 TTTTTAATTTT
14556738 GTTTTAGTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTAATTTTTATCTTCC
Found at i:14556764 original size:12 final size:12
Alignment explanation
Indices: 14556686--14556768 Score: 58
Period size: 13 Copynumber: 6.5 Consensus size: 12
14556676 AGTTTATTAC
14556686 TATTTTTTATTT
1 TATTTTTTATTT
* *
14556698 TTTATTTTTCTTT
1 TAT-TTTTTATTT
*
14556711 TTTCTTTTTATCTT
1 TAT-TTTTTAT-TT
** *
14556725 CCTTTTTAATTT
1 TATTTTTTATTT
*
14556737 TGTTTTAGTTATTT
1 TATTTT--TTATTT
14556751 TATTTTTTATTT
1 TATTTTTTATTT
14556763 TATTTT
1 TATTTT
14556769 CTTCAACTTA
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
12 20 0.36
13 23 0.41
14 13 0.23
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.78
Consensus pattern (12 bp):
TATTTTTTATTT
Found at i:14557321 original size:22 final size:24
Alignment explanation
Indices: 14557296--14557348 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
14557286 TACAAATTGA
14557296 TAAA-AAT-TGATAATGGGTTAGG
1 TAAATAATCTGATAATGGGTTAGG
*
14557318 TAAATATTCCATGATAATGGGTTAGG
1 TAAATAAT-C-TGATAATGGGTTAGG
14557344 TAAAT
1 TAAAT
14557349 GTTCCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 4 0.15
23 2 0.08
26 20 0.77
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.34
Consensus pattern (24 bp):
TAAATAATCTGATAATGGGTTAGG
Found at i:14557332 original size:26 final size:26
Alignment explanation
Indices: 14557303--14557358 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
14557293 TGATAAAAAT
14557303 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
14557329 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
14557355 TGAT
1 TGAT
14557359 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:14558363 original size:31 final size:31
Alignment explanation
Indices: 14558325--14558389 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
14558315 GACAAATTTG
14558325 TTAATGAGTTGCTTATTAATTTCTTATAAGC
1 TTAATGAGTTGCTTATTAATTTCTTATAAGC
*
14558356 TTAATGAGTTGCTTATTGATTTCTTATAAGC
1 TTAATGAGTTGCTTATTAATTTCTTATAAGC
14558387 TTA
1 TTA
14558390 CTCTGATCTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (31 bp):
TTAATGAGTTGCTTATTAATTTCTTATAAGC
Found at i:14559036 original size:27 final size:27
Alignment explanation
Indices: 14558996--14559120 Score: 155
Period size: 27 Copynumber: 4.6 Consensus size: 27
14558986 AGGAAGCGTC
*
14558996 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
* *
14559023 CTGGTGGCTCTGCCTCATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
* *
14559050 CTGGTGGCTATGCCACGAT-TATCTAAT
1 CTGGTGGCTCTGCCAC-ATATATCTGAT
* *
14559077 CTGGTGGCTCTGCCACGTATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
14559104 CTGGTGGCTCTGCCACA
1 CTGGTGGCTCTGCCACA
14559121 ACATCTGTAT
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 79 0.95
28 3 0.04
ACGTcount: A:0.16, C:0.26, G:0.24, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:14559079 original size:54 final size:54
Alignment explanation
Indices: 14558996--14559121 Score: 207
Period size: 54 Copynumber: 2.3 Consensus size: 54
14558986 AGGAAGCGTC
* *
14558996 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCTCATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
* *
14559050 CTGGTGGCTATGCCACGATTATCTAATCTGGTGGCTCTGCCACGTATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
*
14559104 CTGGTGGCTCTGCCACAA
1 CTGGTGGCTATGCCACAA
14559122 CATCTGTATT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:14559135 original size:27 final size:27
Alignment explanation
Indices: 14558996--14559154 Score: 148
Period size: 27 Copynumber: 5.9 Consensus size: 27
14558986 AGGAAGCGTC
*
14558996 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
14559023 CTGGTGGCTCTGCCTCATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* * *
14559050 CTGGTGGCTATGCCACGATTATCT-AAT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
*
14559077 CTGGTGGCTCTGCCACGTATATCTGT-T
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
*
14559104 CTGGTGGCTCTGCCACAACATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* * *
14559131 TTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
14559155 GCAGTCTCGC
Statistics
Matches: 109, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
26 8 0.07
27 99 0.91
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:14559136 original size:54 final size:53
Alignment explanation
Indices: 14558996--14559136 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 53
14558986 AGGAAGCGTC
*
14558996 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCTCATATATCTGTT
1 CTGGTGGCTATGCCACAA-TATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
14559050 CTGGTGGCTATGCCACGATTATCTAATCTGGTGGCTCTGCCACGTATATCTGTT
1 CTGGTGGCTATGCCAC-AATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
14559104 CTGGTGGCTCTGCCACAACATCTGTATTTGGTG
1 CTGGTGGCTATGCCACAATATCTG-ATCTGGTG
14559137 ACTTCGTCAC
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
53 5 0.07
54 70 0.92
55 1 0.01
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:14560694 original size:37 final size:36
Alignment explanation
Indices: 14560644--14560730 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
14560634 TACGAAGTCT
14560644 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
*
14560680 GTACCCGGACATAATCTCCACATGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
14560717 TCACCCGGAACATA
1 T-ACCCGG-ACATA
14560731 TTTCCAAGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.87
38 5 0.11
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:14560866 original size:49 final size:49
Alignment explanation
Indices: 14560799--14561147 Score: 662
Period size: 49 Copynumber: 7.1 Consensus size: 49
14560789 TTTACCACAT
*
14560799 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
14560848 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
14560897 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
14560946 ATATATATACACTTTCACATTCATCACCTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
14560995 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
14561044 ATATATATACACTTTCACATTCCTCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
14561093 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
14561142 ATATAT
1 ATATAT
14561148 TATTATGTAC
Statistics
Matches: 293, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 293 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:14562673 original size:2 final size:2
Alignment explanation
Indices: 14562666--14562695 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14562656 TCATTATTTA
14562666 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14562696 CTAAACACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14568180 original size:18 final size:18
Alignment explanation
Indices: 14568153--14568210 Score: 107
Period size: 18 Copynumber: 3.2 Consensus size: 18
14568143 ATGGAAGGGA
*
14568153 AGAAGCTACTTGGGAATC
1 AGAAGATACTTGGGAATC
14568171 AGAAGATACTTGGGAATC
1 AGAAGATACTTGGGAATC
14568189 AGAAGATACTTGGGAATC
1 AGAAGATACTTGGGAATC
14568207 AGAA
1 AGAA
14568211 AAGACAATGC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.40, C:0.12, G:0.28, T:0.21
Consensus pattern (18 bp):
AGAAGATACTTGGGAATC
Found at i:14568592 original size:26 final size:26
Alignment explanation
Indices: 14568563--14568644 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
14568553 TGATAAAAAT
* *
14568563 TGATAATGGGTTAAGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
14568589 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
14568615 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
14568641 TGAT
1 TGAT
14568645 GGGCATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:14570291 original size:27 final size:27
Alignment explanation
Indices: 14570251--14570328 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
14570241 AGGAAGCGTC
14570251 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTATGCCACAA-TATCTGTAT
*
14570278 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTATGCCACAATATCTGTAT
* *
14570305 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTAT-GCCACAATATCTG
14570329 GCAACCTTGC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 7 0.15
27 39 0.85
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATATCTGTAT
Found at i:14571652 original size:19 final size:19
Alignment explanation
Indices: 14571627--14571725 Score: 141
Period size: 19 Copynumber: 5.3 Consensus size: 19
14571617 ATAATCTTCA
14571627 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
14571646 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
14571665 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
14571682 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
14571700 ATGATATACAATCTTGAAGAT
1 ATGATATGCAATCTT--AGAT
14571721 ATGAT
1 ATGAT
14571726 TTTGTAATCT
Statistics
Matches: 72, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
17 16 0.22
18 16 0.22
19 31 0.43
21 9 0.12
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:14571667 original size:14 final size:15
Alignment explanation
Indices: 14571648--14571703 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
14571638 TCTTAGATGT
14571648 GATATG-CAATCTTA
1 GATATGACAATCTTA
14571662 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
14571679 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
14571697 GATATGA
1 GATATGA
14571704 TATACAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:14571697 original size:35 final size:36
Alignment explanation
Indices: 14571635--14571726 Score: 132
Period size: 35 Copynumber: 2.5 Consensus size: 36
14571625 CAATGATATG
*
14571635 CAATCTTAGATGTGATATGCAATCTTAGATATG-ATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGAATA
14571671 CAATCTTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGA-ATA
14571708 CAATCTTGAAGATATGATT
1 CAATCTT--AGATATGATT
14571727 TTGTAATCTT
Statistics
Matches: 51, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 16 0.31
36 15 0.29
37 10 0.20
39 10 0.20
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (36 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGAATA
Found at i:14572261 original size:17 final size:17
Alignment explanation
Indices: 14572196--14572261 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
14572186 TCTAAACCAA
*
14572196 TATATTTTATATTTT-T
1 TATATATTATATTTTAT
14572212 TATATAATTATTATTCTTA-
1 TATAT-ATTA-TATT-TTAT
*
14572231 TAAATA-TAT-TTTTAT
1 TATATATTATATTTTAT
14572246 TATATATTATATTTTA
1 TATATATTATATTTTA
14572262 AATTTATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 13
0.71 0.05 0.23
Matches are distributed among these distances:
14 3 0.08
15 7 0.17
16 9 0.22
17 10 0.25
18 5 0.12
19 6 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TATATATTATATTTTAT
Found at i:14572285 original size:26 final size:25
Alignment explanation
Indices: 14572238--14572286 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
14572228 TTATAAATAT
* * *
14572238 ATTTTTATTATATATTATATTTTAA
1 ATTTTTATTAAATATCACATTTTAA
14572263 ATTTATTATTAAATATCACATTTT
1 ATTT-TTATTAAATATCACATTTT
14572287 TTTATATGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTTTTATTAAATATCACATTTTAA
Found at i:14572324 original size:2 final size:2
Alignment explanation
Indices: 14572317--14572341 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14572307 ATCAATTGTT
14572317 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
14572342 TTTTTAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14573989 original size:11 final size:11
Alignment explanation
Indices: 14573973--14574002 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
14573963 CCATTGCTCT
14573973 AAAAAAATGAA
1 AAAAAAATGAA
*
14573984 AAAAAAGTGAA
1 AAAAAAATGAA
14573995 AAAAAAAT
1 AAAAAAAT
14574003 ACATTTATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (11 bp):
AAAAAAATGAA
Found at i:14583256 original size:8 final size:8
Alignment explanation
Indices: 14583243--14583271 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
14583233 TTTCACTAAT
14583243 ATAATATA
1 ATAATATA
14583251 ATAATATA
1 ATAATATA
14583259 ATAATAT-
1 ATAATATA
14583266 ATAATA
1 ATAATA
14583272 CTTACTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATAATATA
Found at i:14583257 original size:13 final size:15
Alignment explanation
Indices: 14583239--14583271 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
14583229 TAAATTTCAC
14583239 TAATATAAT-ATA-A
1 TAATATAATAATATA
14583252 TAATATAATAATATA
1 TAATATAATAATATA
14583267 TAATA
1 TAATA
14583272 CTTACTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 3 0.17
15 6 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAATATAATAATATA
Found at i:14588001 original size:39 final size:39
Alignment explanation
Indices: 14587981--14588146 Score: 253
Period size: 39 Copynumber: 4.3 Consensus size: 39
14587971 GGACTTTAAG
* *
14587981 CCGGATATAATACCAGCAC-AAAGCCTGCGGGACTTTAGC
1 CCGGATATAACACCAGCACGAAAGCCTTCGGGAC-TTAGC
*
14588020 CCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGC
1 CCGGATATAACACCAGCACGAAAGCCTTCGGGACTTAGC
*
14588059 CCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGC
1 CCGGATATAACACCAGCACGAAAGCCTTCGGGACTTAGC
* * *
14588098 CCGGATATAACACCAGCATGAATGCCTTCAGGACTTAGC
1 CCGGATATAACACCAGCACGAAAGCCTTCGGGACTTAGC
14588137 CCGGATATAA
1 CCGGATATAA
14588147 TTCTCCATTA
Statistics
Matches: 121, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
39 109 0.90
40 12 0.10
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (39 bp):
CCGGATATAACACCAGCACGAAAGCCTTCGGGACTTAGC
Found at i:14591826 original size:5 final size:5
Alignment explanation
Indices: 14591800--14591853 Score: 78
Period size: 5 Copynumber: 11.4 Consensus size: 5
14591790 AAAACTCTAA
*
14591800 TTTTC ATTTC -TTTC -TTTC -TTTC TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
14591847 TTTTC TT
1 TTTTC TT
14591854 CCTTCCCTGT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
4 12 0.26
5 35 0.74
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:14591950 original size:8 final size:8
Alignment explanation
Indices: 14591937--14591965 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
14591927 TTTTACTAAT
14591937 ATAATATA
1 ATAATATA
14591945 ATAATATA
1 ATAATATA
14591953 ATAATATA
1 ATAATATA
14591961 A-AATA
1 ATAATA
14591966 CTTATATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 4 0.19
8 17 0.81
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
ATAATATA
Found at i:14591958 original size:21 final size:21
Alignment explanation
Indices: 14591933--14591977 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
14591923 TAAATTTTAC
*
14591933 TAATATAATATAATAATATAA
1 TAATATAAAATAATAATATAA
* *
14591954 TAATATAAAATACTTATATAA
1 TAATATAAAATAATAATATAA
14591975 TAA
1 TAA
14591978 GTAATTACAT
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:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATATAAAATAATAATATAA
Found at i:14593408 original size:36 final size:33
Alignment explanation
Indices: 14593384--14593452 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
14593374 ATTTAAAATC
14593384 TAAGTA-TAAGAATAATAAATAAATAAAATAAAA
1 TAAGTAGTAA-AATAATAAATAAATAAAATAAAA
*
14593417 TAATTAGTAAAATAATAAATAAATAAAATAAAA
1 TAAGTAGTAAAATAATAAATAAATAAAATAAAA
14593450 TAA
1 TAA
14593453 AAGGGGTGGC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 31 0.91
34 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (33 bp):
TAAGTAGTAAAATAATAAATAAATAAAATAAAA
Found at i:14593414 original size:5 final size:5
Alignment explanation
Indices: 14593400--14593454 Score: 51
Period size: 5 Copynumber: 10.6 Consensus size: 5
14593390 TAAGAATAAT
*
14593400 AAAT- AAATA AAATA AAATA ATTAGTA AAATA ATAA-A TAAATA AAATA
1 AAATA AAATA AAATA AAATA A--AATA AAATA A-AATA -AAATA AAATA
14593447 AAATA AAA
1 AAATA AAA
14593455 GGGGTGGCTT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
4 4 0.09
5 31 0.72
6 4 0.09
7 4 0.09
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (5 bp):
AAATA
Found at i:14595587 original size:21 final size:22
Alignment explanation
Indices: 14595553--14595593 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
14595543 TCATGACCTT
* *
14595553 ATTATATAATGGTTTTATATTA
1 ATTATATAAAGGTTATATATTA
14595575 ATTA-ATAAAGGTTATATAT
1 ATTATATAAAGGTTATATAT
14595594 GTAAATTTAT
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:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (22 bp):
ATTATATAAAGGTTATATATTA
Found at i:14595987 original size:29 final size:28
Alignment explanation
Indices: 14595947--14596006 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
14595937 GATATTGAGT
* *
14595947 AATTAGGGCTAAATTGCAAAA-AAAATA
1 AATTAGGGCTAAAATGCAAAATAAAAGA
*
14595974 AATTGAGGGACTAAAATGTAAAATAAAAGA
1 AATT-AGGG-CTAAAATGCAAAATAAAAGA
14596004 AAT
1 AAT
14596007 GTATGGATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 4 0.15
28 4 0.15
29 11 0.41
30 8 0.30
ACGTcount: A:0.57, C:0.05, G:0.17, T:0.22
Consensus pattern (28 bp):
AATTAGGGCTAAAATGCAAAATAAAAGA
Found at i:14600877 original size:19 final size:20
Alignment explanation
Indices: 14600849--14600887 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
14600839 TATGAACAAT
14600849 CACATAATAATTT-ATCATA
1 CACATAATAATTTAATCATA
*
14600868 CACATCATAATTTAATCATA
1 CACATAATAATTTAATCATA
14600888 ATGTCCCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (20 bp):
CACATAATAATTTAATCATA
Found at i:14600986 original size:20 final size:20
Alignment explanation
Indices: 14600961--14601029 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
14600951 GAAGTTCAGG
*
14600961 AAATTTTTTGTGAAATTTCA
1 AAATTTTTCGTGAAATTTCA
14600981 AAATTTTTCGTGAAATTTCA
1 AAATTTTTCGTGAAATTTCA
* *
14601001 AAACTTTTCATGAAATTTCA
1 AAATTTTTCGTGAAATTTCA
*
14601021 AATTTTTTC
1 AAATTTTTC
14601030 CTAAATACAG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.48
Consensus pattern (20 bp):
AAATTTTTCGTGAAATTTCA
Found at i:14611406 original size:35 final size:35
Alignment explanation
Indices: 14611360--14611429 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
14611350 GAGTGTTAGA
14611360 TTAGTGGGGAAGTAGTTAGTTATGATTTGGATTGT
1 TTAGTGGGGAAGTAGTTAGTTATGATTTGGATTGT
14611395 TTAGTGGGGAAGTAGTTAGTTATGATTTGGATTGT
1 TTAGTGGGGAAGTAGTTAGTTATGATTTGGATTGT
14611430 ATTTTTATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.23, C:0.00, G:0.34, T:0.43
Consensus pattern (35 bp):
TTAGTGGGGAAGTAGTTAGTTATGATTTGGATTGT
Found at i:14612614 original size:24 final size:24
Alignment explanation
Indices: 14612559--14612615 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
14612549 AAACATATAC
*
14612559 ATTTTCATATACAGATTCAAACAT
1 ATTTTCATATACAAATTCAAACAT
* **
14612583 ATTCTCATATACAAATTCAAATGT
1 ATTTTCATATACAAATTCAAACAT
14612607 ATTTTCATA
1 ATTTTCATA
14612616 ATCAGATACA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (24 bp):
ATTTTCATATACAAATTCAAACAT
Found at i:14612627 original size:24 final size:24
Alignment explanation
Indices: 14612600--14612652 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
14612590 TATACAAATT
* * *
14612600 CAAATGTATTTTCATAATCAGATA
1 CAAATGCATATTCAGAATCAGATA
* *
14612624 CAAATGCGTATTCAGATTCAGATA
1 CAAATGCATATTCAGAATCAGATA
14612648 CAAAT
1 CAAAT
14612653 ACAGACACAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (24 bp):
CAAATGCATATTCAGAATCAGATA
Found at i:14612907 original size:27 final size:27
Alignment explanation
Indices: 14612869--14612923 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
14612859 TATCAAGATC
14612869 ATCCCGATGCACATGCACAAATAAACT
1 ATCCCGATGCACATGCACAAATAAACT
* *
14612896 ATCCCGATGCACATGCATAACTAAACT
1 ATCCCGATGCACATGCACAAATAAACT
14612923 A
1 A
14612924 ACACATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.40, C:0.29, G:0.11, T:0.20
Consensus pattern (27 bp):
ATCCCGATGCACATGCACAAATAAACT
Found at i:14632807 original size:24 final size:24
Alignment explanation
Indices: 14632779--14632830 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
14632769 TTAGCAAGTC
* * *
14632779 AAATAAACTATGCTAATAATTGCT
1 AAATAAACTATACTAATAAATACT
* *
14632803 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
14632827 AAAT
1 AAAT
14632831 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:14634526 original size:33 final size:34
Alignment explanation
Indices: 14634475--14634541 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 34
14634465 AGTTAAATGG
* * *
14634475 CAACAAAATATTAGAAAAA-TAACAAAAAAATAA
1 CAACAAAACAGTAAAAAAAGTAACAAAAAAATAA
* *
14634508 CAACAAAACAGTAAAAAAAGTAAGAAAACAATAA
1 CAACAAAACAGTAAAAAAAGTAACAAAAAAATAA
14634542 AAATATAAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 16 0.57
34 12 0.43
ACGTcount: A:0.72, C:0.10, G:0.06, T:0.12
Consensus pattern (34 bp):
CAACAAAACAGTAAAAAAAGTAACAAAAAAATAA
Found at i:14635081 original size:20 final size:20
Alignment explanation
Indices: 14635052--14635089 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14635042 GAACAAAATA
*
14635052 AATTACACAAAGTATTATCT
1 AATTACACAAACTATTATCT
*
14635072 AATTATACAAACTATTAT
1 AATTACACAAACTATTAT
14635090 AATCTTTTGT
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:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (20 bp):
AATTACACAAACTATTATCT
Found at i:14638269 original size:30 final size:30
Alignment explanation
Indices: 14638216--14638272 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
14638206 ACGACCATGC
*
14638216 CACACGGGCGTGTGGCATGCCCGTGTGTTT
1 CACACGGGCGTGTGGCATACCCGTGTGTTT
* **
14638246 CACACGGGTGTGTGGTTTACCCGTGTG
1 CACACGGGCGTGTGGCATACCCGTGTG
14638273 AAAGTGCCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.11, C:0.25, G:0.37, T:0.28
Consensus pattern (30 bp):
CACACGGGCGTGTGGCATACCCGTGTGTTT
Found at i:14644535 original size:22 final size:22
Alignment explanation
Indices: 14644487--14644535 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
14644477 TGGAGAAGAA
*
14644487 GAAAAGGAGAGGGGTAAGAAGG
1 GAAAAGGAGAGGGGTAACAAGG
*
14644509 G-AAAGGAGGAGGGG-GACAAGG
1 GAAAAGGA-GAGGGGTAACAAGG
14644530 GAAAAG
1 GAAAAG
14644536 AAAGAAGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.45, C:0.02, G:0.51, T:0.02
Consensus pattern (22 bp):
GAAAAGGAGAGGGGTAACAAGG
Found at i:14646363 original size:44 final size:45
Alignment explanation
Indices: 14646275--14646363 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 45
14646265 CAGAACGAAA
*
14646275 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAT
*
14646321 TGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGA
1 TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGA
14646364 ATAATTCATG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 20 0.49
46 21 0.51
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (45 bp):
TGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAT
Found at i:14646374 original size:44 final size:45
Alignment explanation
Indices: 14646277--14646379 Score: 136
Period size: 44 Copynumber: 2.3 Consensus size: 45
14646267 GAACGAAATG
* * *
14646277 AGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGATTG
1 AGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGGAATA
*
14646323 AGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGGAATA
1 AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAATA
**
14646367 ATTCATGTAAGTC
1 AGCCATGTAAGTC
14646380 TATGTCAAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
44 32 0.63
46 19 0.37
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (45 bp):
AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGGAATA
Found at i:14650260 original size:15 final size:15
Alignment explanation
Indices: 14650240--14650273 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
14650230 CGAGGAGCAG
14650240 GATTCTAATTCACTA
1 GATTCTAATTCACTA
*
14650255 GATTCTGATTCACTA
1 GATTCTAATTCACTA
14650270 GATT
1 GATT
14650274 TGTGGCAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (15 bp):
GATTCTAATTCACTA
Found at i:14653955 original size:26 final size:26
Alignment explanation
Indices: 14653919--14653970 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
14653909 ACTCATCAAA
14653919 TTGGTGCCCAATAAAATCCCCTCTCT
1 TTGGTGCCCAATAAAATCCCCTCTCT
*
14653945 TTGGTGCCCAATAAAATCTCCTCTCT
1 TTGGTGCCCAATAAAATCCCCTCTCT
14653971 ATCTTACTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.33, G:0.12, T:0.33
Consensus pattern (26 bp):
TTGGTGCCCAATAAAATCCCCTCTCT
Found at i:14660085 original size:21 final size:21
Alignment explanation
Indices: 14660045--14660085 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14660035 CTTAAAAGTT
* *
14660045 AAATTACAAAGCAACCAAATC
1 AAATTACAAAGAAACAAAATC
*
14660066 AAATTACAAATAAACAAAAT
1 AAATTACAAAGAAACAAAAT
14660086 GATTCTGCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.63, C:0.17, G:0.02, T:0.17
Consensus pattern (21 bp):
AAATTACAAAGAAACAAAATC
Found at i:14662252 original size:74 final size:73
Alignment explanation
Indices: 14662010--14662252 Score: 211
Period size: 74 Copynumber: 3.3 Consensus size: 73
14662000 TTTTAAGTTC
* * * * * ** * *
14662010 CACAAATTTGCCCTCACTTAATTAATAAAGCCAAGTCCCTCAGGGGATGCAATC-AAGTCAACAA
1 CACAAACTTGCTCTCACTTAATTAGTAAAGCCAAATCCCTTAAAGGATGCAATCAAATTAAACAA
14662074 TTTGATTT
66 TTTGATTT
** * * * * *
14662082 CAACTGACTTGCTCTCA-TTCAATTGGTAAAGCCAAATCTCTTAAAAGATGCAATCAAGTCAAAC
1 C-ACAAACTTGCTCTCACTT-AATTAGTAAAGCCAAATCCCTTAAAGGATGCAATCAAATTAAAC
**
14662146 GTTTTGATTTT
64 AATTTGA-TTT
* * * * * * *
14662157 CACATAGTTTCTCCCATTTAATTAGTAAAGCCAAATCCCTTAAAGGATGTAATCAAATTAAACAC
1 CACAAACTTGCTCTCACTTAATTAGTAAAGCCAAATCCCTTAAAGGATGCAATCAAATTAAACAA
14662222 TTTGACTTT
66 TTTGA-TTT
14662231 CACAAACTTGCTCTCACTTAAT
1 CACAAACTTGCTCTCACTTAAT
14662253 CGATAGAGCT
Statistics
Matches: 129, Mismatches: 37, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
72 3 0.02
73 38 0.29
74 82 0.64
75 6 0.05
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.32
Consensus pattern (73 bp):
CACAAACTTGCTCTCACTTAATTAGTAAAGCCAAATCCCTTAAAGGATGCAATCAAATTAAACAA
TTTGATTT
Found at i:14667976 original size:24 final size:24
Alignment explanation
Indices: 14667947--14667993 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
14667937 AAAATTAAAA
* *
14667947 ATATTTATAAAAA-TTTCAAAATTT
1 ATATTTA-AAAAATTATAAAAATTT
14667971 ATATTTAAAAAATTATAAAAATT
1 ATATTTAAAAAATTATAAAAATT
14667994 CTAAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATTTAAAAAATTATAAAAATTT
Found at i:14668000 original size:32 final size:34
Alignment explanation
Indices: 14667941--14668005 Score: 91
Period size: 32 Copynumber: 2.0 Consensus size: 34
14667931 ATTTTTAAAA
*
14667941 TTAAAAATATTTATAAAAATTTCAAAATTTATAT
1 TTAAAAATATTTATAAAAATTTCAAAATATATAT
14667975 TTAAAAA-A-TTATAAAAA-TTCTAAAATATATA
1 TTAAAAATATTTATAAAAATTTC-AAAATATATA
14668006 CAAAAAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 3 0.10
32 18 0.62
33 1 0.03
34 7 0.24
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (34 bp):
TTAAAAATATTTATAAAAATTTCAAAATATATAT
Found at i:14670919 original size:12 final size:12
Alignment explanation
Indices: 14670902--14670929 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
14670892 GTTGTTAATC
14670902 GTTTATTTGCTT
1 GTTTATTTGCTT
14670914 GTTTATTTGCTT
1 GTTTATTTGCTT
14670926 GTTT
1 GTTT
14670930 TGTTCTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.18, T:0.68
Consensus pattern (12 bp):
GTTTATTTGCTT
Found at i:14674171 original size:127 final size:126
Alignment explanation
Indices: 14673987--14674338 Score: 426
Period size: 127 Copynumber: 2.8 Consensus size: 126
14673977 AACATAAGGA
* * * * *
14673987 AATATTTCGTGTTTGGGAGTTCTAGG--GGTCGTGCCCGATCGTGCTGGGTTTCGATTTTTCGTT
1 AATATTTCGTGTTTGGAAGTT-TAGGAAGGTCGTGCCCAATCGTGCTGGGCTTCAATTTTTCATT
* * ** ** * *
14674050 CAACTAAAATACAAAATATCCTTTGGAAATTTTGTCCATGTTTTTTTTAAAATTAAAACGAGGC
65 CAACTAAAATACAGAATATCCTTTTGAAATTTCATCCA-CATGTTCTTAAAA-TAAAACGAGGC
* *
14674114 AATACTTCGTGTTTGGAAGTTT-GGAAGGTCGTGCCCAATCGTGTTGGGCTTCAA-TTTTCTATT
1 AATATTTCGTGTTTGGAAGTTTAGGAAGGTCGTGCCCAATCGTGCTGGGCTTCAATTTTTC-ATT
**
14674177 CAACTAAAATATGGAATATCCTTTTTTGAAATTTCATCCACATGTTCTTAAAATAAAACGAGGC
65 CAACTAAAATACAGAATATCC--TTTTGAAATTTCATCCACATGTTCTTAAAATAAAACGAGGC
* * *
14674241 AATATTTCATGTTTGGAAGTTTGGGAA-GTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTC
1 AATATTTCGTGTTTGGAAGTTTAGGAAGGTCGTGCCCAATCGTGCTGGGCTTCAATTTTTCATTC
*
14674305 GACTAAAATACAGAATATCCTTTTGAAATTTCAT
66 AACTAAAATACAGAATATCCTTTTGAAATTTCAT
14674339 ACGTGTTTTC
Statistics
Matches: 194, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
125 16 0.08
126 6 0.03
127 141 0.73
128 17 0.09
129 14 0.07
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.37
Consensus pattern (126 bp):
AATATTTCGTGTTTGGAAGTTTAGGAAGGTCGTGCCCAATCGTGCTGGGCTTCAATTTTTCATTC
AACTAAAATACAGAATATCCTTTTGAAATTTCATCCACATGTTCTTAAAATAAAACGAGGC
Found at i:14674406 original size:125 final size:124
Alignment explanation
Indices: 14674014--14674413 Score: 410
Period size: 127 Copynumber: 3.2 Consensus size: 124
14674004 AGTTCTAGGG
* * * * * * *
14674014 GTCGTGCCCGATCGTGCTGGGTTTCGATTTTTCGTTCAACTAAAATACAAAATATCCTTTGGAAA
1 GTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCAACTAAAATACAGAATATCCTTTTGAAA
** * * * * * * * *
14674079 TTTTGTCCATGTTTTTTTTAAAATTAAAACGAGGCAATACTTCGTGTTTGGAAGTTTGGAAG
66 TTTCAT-CACGTGTTTTCTAAAATTAAAACGAGGCAATATTTC-AGTTTGGAA-ATTCGAAA
* * **
14674141 GTCGTGCCCAATCGTGTTGGGCTTCAATTTTCTATTCAACTAAAATATGGAATATCCTTTTTTGA
1 GTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCAACTAAAATACAGAATATCC--TTTTGA
* * * * *
14674206 AATTTCATCCACATGTTCT-TAAAA-TAAAACGAGGCAATATTTCATGTTTGGAAGTTTGGGAA
64 AATTTCAT-CACGTGTTTTCTAAAATTAAAACGAGGCAATATTTCA-GTTTGGAA-ATTCGAAA
*
14674268 GTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCGACTAAAATACAGAATATCCTTTTGAAA
1 GTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCAACTAAAATACAGAATATCCTTTTGAAA
* * *
14674333 TTTCAT-ACGTGTTTTCTCAAATTAAAATGAGGCAATGTTTCAGATTTGGAAATTCGATAA
66 TTTCATCACGTGTTTTCTAAAATTAAAACGAGGCAATATTTCAG-TTTGGAAATTCGA-AA
*
14674393 ATCGTGCCCAATCGTGCTGGG
1 GTCGTGCCCAATCGTGCTGGG
14674414 TTTTGATTTA
Statistics
Matches: 231, Mismatches: 35, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
123 7 0.03
124 8 0.03
125 61 0.26
127 132 0.57
128 5 0.02
129 18 0.08
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (124 bp):
GTCGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCAACTAAAATACAGAATATCCTTTTGAAA
TTTCATCACGTGTTTTCTAAAATTAAAACGAGGCAATATTTCAGTTTGGAAATTCGAAA
Found at i:14685415 original size:64 final size:64
Alignment explanation
Indices: 14685338--14685464 Score: 184
Period size: 64 Copynumber: 2.0 Consensus size: 64
14685328 CATTCATAAT
* * **
14685338 ACATCTAGTTAGGAGCACTT-GATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCATC
1 ACATCTAGCTAGGAACACTTGGATT-ATTTCAATCATAGCATCCTAATTATTTGACATAAGCATC
* *
14685402 ACATCTAGCTAGGAACACTTGGATTATTTCAATCATAGCATCCTAGTTATTTGCCATAAGCAT
1 ACATCTAGCTAGGAACACTTGGATTATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
14685465 AGATACATGA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
64 52 0.93
65 4 0.07
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (64 bp):
ACATCTAGCTAGGAACACTTGGATTATTTCAATCATAGCATCCTAATTATTTGACATAAGCATC
Found at i:14685614 original size:45 final size:45
Alignment explanation
Indices: 14685569--14686654 Score: 476
Period size: 45 Copynumber: 24.4 Consensus size: 45
14685559 TAGATCGAAG
*
14685569 ATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
1 ATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAA
* * * *
14685614 A-TAGCAAGTCTTATCTTCTTGAAGTTTCAG-GAAGCAGACTGAAA
1 ATTA-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAA
* * * * * *
14685658 GTTAC-AGATCTTATCTCCATGTA-TCGACTA-TGGAACAGA-TCAGAA
1 ATTACAAG-TCTTATCTCCCTGAAGTTG-C-AGTGGAGCAGACTGA-AA
** * * * * *
14685703 ATGGCGAGTCTTATCTCCATGTA-TCGGCTA-TAGAGCAGA-T----
1 ATTACAAGTCTTATCTCCCTGAAGT-TGC-AGTGGAGCAGACTGAAA
* * * * *
14685743 TTTAGCAAGTCTTATCTTCCTGAAGTTGCAG-GAAGTAGACTAAAA
1 ATTA-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAA
** * *
14685788 ATTAC-AGATCTTATCTCTATGTA-TTGGCTA-TGGAGTAGA-TCGAAA
1 ATTACAAG-TCTTATCTCCCTGAAGTT-GC-AGTGGAGCAGACT-GAAA
* * *
14685833 ATGACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAG
1 ATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAA
* *
14685878 A-TAGCAAGTCTTATCTTCCTGAAGTTGTA--GGAGGCAGACTGAAA
1 ATTA-CAAGTCTTATCTCCCTGAAGTTGCAGTGGA-GCAGACTGAAA
* *
14685922 ATTTAC-AGATCTTATCTCCAT-ATA-TCTGCTA-TGGAGTAGA-TCGAAA
1 A-TTACAAG-TCTTATCTCCCTGA-AGT-TGC-AGTGGAGCAGACT-GAAA
14685968 ATGT-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAA
1 AT-TACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAA
* *
14686013 A-TAGCAAGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAAA
1 ATTA-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAA
** * *
14686057 ATTAC-AGATCTTATCTCTATGTA-TCGGCTA-TGGAGCAGA-TCGAAA
1 ATTACAAG-TCTTATCTCCCTGAAGT-TGC-AGTGGAGCAGACT-GAAA
** * * *
14686102 ATGGCGAGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAAA
1 ATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAA
* * *
14686146 ATTTAC-AGATCTTATCTCCATGTA-TCGGCTA-TGGAGCAGA-TCGAAA
1 A-TTACAAG-TCTTATCTCCCTGAAGT-TGC-AGTGGAGCAGACT-GAAA
* * *
14686192 ATGACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAG
1 ATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAA
* *
14686237 A-TAGCAAGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAAA
1 ATTA-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAA
* * * * *
14686281 ATTAC-AGATCTTATCTCCATGTA-TCGGCTA-TGGAGTAGA-TAAAAA
1 ATTACAAG-TCTTATCTCCCTGAAGT-TGC-AGTGGAGCAGACT-GAAA
** * * * * * * ***
14686326 ATGGCGAGTCCTATCTCCATGTA-TCGACTA-TGGAGCA-AATTTCA
1 ATTACAAGTCTTATCTCCCTGAAGTTG-C-AGTGGAGCAGACTGAAA
*** * *
14686370 GCCACCAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAA
1 ATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAA
* * * * *
14686414 GA-TACTAAGTCTTGTCTCTCTGAAGTTGTAGTAGAGCAAACT-AAA
1 -ATTAC-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAA
* *
14686459 GA-TAGTAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
1 -ATTA-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAA
* * *
14686505 A-TAGCAGGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAAA
1 ATTA-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAA
* ** *
14686549 ATTAC-AGATCTTATCTCCAT-ATA-TCAACTA-TGGAGCAGATCT--CA
1 ATTACAAG-TCTTATCTCCCTGA-AGT-TGC-AGTGGAGCAGA-CTGAAA
* * * *
14686593 GTTACTAGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAAA
1 ATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAA
14686637 ATTAC-AGATCTTATCTCC
1 ATTACAAG-TCTTATCTCC
14686655 ATGTATCGGC
Statistics
Matches: 793, Mismatches: 153, Indels: 191
0.70 0.13 0.17
Matches are distributed among these distances:
40 7 0.01
41 18 0.02
42 3 0.00
43 31 0.04
44 223 0.28
45 456 0.58
46 52 0.07
47 3 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (45 bp):
ATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAA
Found at i:14685783 original size:130 final size:133
Alignment explanation
Indices: 14685573--14686141 Score: 735
Period size: 134 Copynumber: 4.3 Consensus size: 133
14685563 TCGAAGATTA
*
14685573 CAAGTCTTATCTCCCTGAAGTTGC-AGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCTTGAA
1 CAAGTCTTATCTCCCTGAAGTTGCTAGTGGAGCAGACT-AA-ATAGCAAGTCTTATCTTCCTGAA
* * * *
14685637 GTTTCAGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATCGACTATGGAACAGATC-AG
64 GTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGA-
14685701 AAATGG
128 AAATGG
* * * * * **
14685707 CGAGTCTTATCTCCATGTA-TCGGCTA-TAGAGCAGA-T-TTTAGCAAGTCTTATCTTCCTGAAG
1 CAAGTCTTATCTCCCTGAAGT-TGCTAGTGGAGCAGACTAAATAGCAAGTCTTATCTTCCTGAAG
* * * * *
14685768 TTGCAGGAAGTAGACTAAAAATTACAGATCTTATCTCTATGTATTGGCTATGGAGTAGATCGAAA
65 TTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAA
*
14685833 ATGA
130 ATGG
14685837 CAAGTCTTATCTCCCTGAAGTTG-TAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAA
1 CAAGTCTTATCTCCCTGAAGTTGCTAGTGGAGCAGACT-AA-ATAGCAAGTCTTATCTTCCTGAA
* * * * *
14685901 GTTGTAGGAGGCAGACTGAAAATTTACAGATCTTATCTCCATATATCTGCTATGGAGTAGATCGA
64 GTTGCAGGAAGCAGACTGAAAA-TTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGA
*
14685966 AAATGT
128 AAATGG
14685972 CAAGTCTTATCTCCCTGAAGTTGC-AGTGGAGCAGACTGAAAATAGCAAGTCTTATCTTCCTGAA
1 CAAGTCTTATCTCCCTGAAGTTGCTAGTGGAGCAGACT--AAATAGCAAGTCTTATCTTCCTGAA
*
14686036 GTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCTATGTATCGGCTATGGAGCAGATCGAA
64 GTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAA
14686101 AATGG
129 AATGG
* * *
14686106 CGAGTCTTATCTTCCTGAAGTTGC-AG-GAAGCAGACT
1 CAAGTCTTATCTCCCTGAAGTTGCTAGTGGAGCAGACT
14686142 GAAAATTTAC
Statistics
Matches: 378, Mismatches: 45, Indels: 25
0.84 0.10 0.06
Matches are distributed among these distances:
129 2 0.01
130 104 0.28
131 3 0.01
133 11 0.03
134 133 0.35
135 123 0.33
136 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (133 bp):
CAAGTCTTATCTCCCTGAAGTTGCTAGTGGAGCAGACTAAATAGCAAGTCTTATCTTCCTGAAGT
TGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAA
TGG
Found at i:14686329 original size:224 final size:224
Alignment explanation
Indices: 14685884--14686341 Score: 799
Period size: 224 Copynumber: 2.0 Consensus size: 224
14685874 GAAGATAGCA
* * *
14685884 AGTCTTATCTTCCTGAAGTTGTAGGAGGCAGACTGAAAATTTACAGATCTTATCTCCATATATCT
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATATATCG
* * *
14685949 GCTATGGAGTAGATCGAAAATGTCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAA
66 GCTATGGAGCAGATCGAAAATGACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAAA
*
14686014 TAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCTATGT
131 TAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGT
**
14686079 ATCGGCTATGGAGCAGATCGAAAATGGCG
196 ATCGGCTATGGAGCAGATAAAAAATGGCG
*
14686108 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCG
1 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATATATCG
*
14686173 GCTATGGAGCAGATCGAAAATGACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGA
66 GCTATGGAGCAGATCGAAAATGACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAAA
14686238 TAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGT
131 TAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGT
*
14686303 ATCGGCTATGGAGTAGATAAAAAATGGCG
196 ATCGGCTATGGAGCAGATAAAAAATGGCG
*
14686332 AGTCCTATCT
1 AGTCTTATCT
14686342 CCATGTATCG
Statistics
Matches: 221, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
224 221 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (224 bp):
AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATATATCG
GCTATGGAGCAGATCGAAAATGACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAAA
TAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGT
ATCGGCTATGGAGCAGATAAAAAATGGCG
Found at i:14686499 original size:224 final size:222
Alignment explanation
Indices: 14685884--14686520 Score: 686
Period size: 224 Copynumber: 2.8 Consensus size: 222
14685874 GAAGATAGCA
* * * * * * *
14685884 AGTCTTATCTTCCTGAAGTTGTAGGAGGCAGACTGAAAATTTACAGATCTTATCTCCAT-ATATC
1 AGTCCTATCTTCCTGAAGTCGCACGAAG-AGAC-GAAAATTTACACACCTTATCTCCATGA-ATC
* * * *
14685948 TGCTATGGAGTAGATCGAAAATGTCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAA
63 GGCTATGGAGCAGATCGAAAATGACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACT-AAA
*
14686013 -ATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCTAT
127 GATAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCAT
**
14686077 GTATCGGCTATGGAGCAGATCGAAAATGGCG
192 GTATCGGCTATGGAGCAGATAAAAAATGGCG
* * * * * *
14686108 AGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTTACAGATCTTATCTCCATGTATCG
1 AGTCCTATCTTCCTGAAGTCGCACGAAG-AGAC-GAAAATTTACACACCTTATCTCCATGAATCG
*
14686173 GCTATGGAGCAGATCGAAAATGACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGA
64 GCTATGGAGCAGATCGAAAATGACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGA
14686238 TAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGT
129 TAGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGT
*
14686303 ATCGGCTATGGAGTAGATAAAAAATGGCG
194 ATCGGCTATGGAGCAGATAAAAAATGGCG
* * * * *
14686332 AGTCCTATC-TCCATGTA-TCG-ACTATG-GA-GCAAATTTCAGCCACCAGCCTTATCTCCCTGA
1 AGTCCTATCTTCC-TGAAGTCGCACGAAGAGACGAAAATTT-A--CA-CA-CCTTATCTCCATGA
* * * * * *
14686392 AGT-TGC-AGTGGAGCAGA-CTAAAGAT-ACTAAGTCTTGTCTCTCTGAAGTTGTAGTAGAGCAA
60 A-TCGGCTA-TGGAGCAGATCGAAA-ATGAC-AAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAG
* * * * *
14686453 ACTAAAGATAGTAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA-TAGCAGGTCTT
121 ACTAAAGATAGCAAGTCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAAAATTA-CAGATCTT
14686517 ATCT
184 ATCT
14686521 TCCTGAAGTT
Statistics
Matches: 364, Mismatches: 35, Indels: 28
0.85 0.08 0.07
Matches are distributed among these distances:
218 7 0.02
219 1 0.00
220 2 0.01
221 2 0.01
222 11 0.03
223 97 0.27
224 244 0.67
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (222 bp):
AGTCCTATCTTCCTGAAGTCGCACGAAGAGACGAAAATTTACACACCTTATCTCCATGAATCGGC
TATGGAGCAGATCGAAAATGACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGATA
GCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTAT
CGGCTATGGAGCAGATAAAAAATGGCG
Found at i:14686561 original size:44 final size:44
Alignment explanation
Indices: 14686468--14686652 Score: 161
Period size: 44 Copynumber: 4.2 Consensus size: 44
14686458 AGATAGTAAG
* * * *
14686468 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA-TAGCAGG
1 TCTTATCTTCCTGAAGTTGCAG-GAAGCAGACTGAAAATTA-CAGA
14686513 TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGA
1 TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGA
** * *
14686557 TCTTATC-TCCAT-ATA-TCAACTATGG-AGCAGATCT--CAGTTACTAG-
1 TCTTATCTTCC-TGA-AGT-TGC-A-GGAAGCAGA-CTGAAAATTAC-AGA
14686601 TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGA
1 TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGA
14686645 TCTTATCT
1 TCTTATCT
14686653 CCATGTATCG
Statistics
Matches: 113, Mismatches: 12, Indels: 31
0.72 0.08 0.20
Matches are distributed among these distances:
42 4 0.04
43 14 0.12
44 54 0.48
45 37 0.33
46 4 0.04
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (44 bp):
TCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGA
Found at i:14686566 original size:223 final size:222
Alignment explanation
Indices: 14685973--14686632 Score: 557
Period size: 224 Copynumber: 3.0 Consensus size: 222
14685963 CGAAAATGTC
* * *
14685973 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAA-ATAGCAAGTCTTATCTTCCTGAAG
1 AAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAAACT-AAAGATAGCAAGTCTTATCTCCCTGAAG
* * **
14686037 TTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCTATGTATCGGCTATGGAGCAGATCGAAA
65 TTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGAATCGGCTATGGAGCAGATAAAAA
* * ** * * ** * *
14686102 ATGGCGAGTCTTATCTTCC-TGA-AGT-TGC-A-GGAAGCAGA-CTGA-AAATTTACAGATCTTA
130 ATGACGAGTCCTATC-TCCAT-ATA-TCAACTATGG-AGCAAATCTCAGCCA---CCAG-CCTTA
* * * *
14686160 TCTCCATGTA-TCGGCTATGG-AGCAGATCGAAA-ATGAC-
187 TCTCCCTGAAGT-TGC-A-GGAAGCAGA-CTAAAGAT-ACT
* * *
14686197 AAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCAAGTCTTATCTTCCTGAAGT
1 AAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTAAAGATAGCAAGTCTTATCTCCCTGAAGT
* *
14686262 TGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGTAGATAAAAAA
66 TGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGAATCGGCTATGGAGCAGATAAAAAA
* * * *
14686327 TGGCGAGTCCTATCTCCATGTATCGACTATGGAGCAAATTTCAGCCACCAGCCTTATCTCCCTGA
131 TGACGAGTCCTATCTCCATATATCAACTATGGAGCAAATCTCAGCCACCAGCCTTATCTCCCTGA
*
14686392 AGTTGCAGTGGAGCAGACTAAAGATACT
196 AGTTGCAG-GAAGCAGACTAAAGATACT
* * * *
14686420 AAGTCTTGTCTCTCTGAAGTTGTAGTAGAGCAAACTAAAGATAGTAAGTCTTATCTCCCTGAAGT
1 AAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTAAAGATAGCAAGTCTTATCTCCCTGAAGT
* * * *
14686485 TGCAGTGGAGCAGACTGAAGA-TAGCAGGTCTTATCTTCC-TGAAGT-TGC-A-GGAAGCAGACT
66 TGCAG-GAAGCAGACTGAAAATTA-CAGATCTTATC-TCCATGAA-TCGGCTATGG-AGCAGA-T
* * * * ** * *
14686545 -GAAAATTAC-AGATCTTATCTCCATATATCAACTATGGAGCAGATCTCAGTTACTAGTCTTATC
125 AAAAAATGACGAG-TCCTATCTCCATATATCAACTATGGAGCAAATCTCAGCCACCAGCCTTATC
*
14686608 TTCCTGAAGTTGCAGGAAGCAGACT
189 TCCCTGAAGTTGCAGGAAGCAGACT
14686633 GAAAATTACA
Statistics
Matches: 368, Mismatches: 48, Indels: 42
0.80 0.10 0.09
Matches are distributed among these distances:
221 1 0.00
222 21 0.06
223 161 0.44
224 170 0.46
225 10 0.03
226 4 0.01
227 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (222 bp):
AAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTAAAGATAGCAAGTCTTATCTCCCTGAAGT
TGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGAATCGGCTATGGAGCAGATAAAAAA
TGACGAGTCCTATCTCCATATATCAACTATGGAGCAAATCTCAGCCACCAGCCTTATCTCCCTGA
AGTTGCAGGAAGCAGACTAAAGATACT
Found at i:14686670 original size:88 final size:88
Alignment explanation
Indices: 14686512--14686677 Score: 287
Period size: 88 Copynumber: 1.9 Consensus size: 88
14686502 AAGATAGCAG
14686512 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATATATCAAC
1 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATATATCAAC
* *
14686577 TATGGAGCAGATCTCAGTTACTA
66 AATGGAACAGATCTCAGTTACTA
* **
14686600 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGC
1 GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATATATCAAC
14686665 AATGGAACAGATC
66 AATGGAACAGATC
14686678 AAAAATGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 73 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (88 bp):
GTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATATATCAAC
AATGGAACAGATCTCAGTTACTA
Found at i:14689235 original size:127 final size:126
Alignment explanation
Indices: 14688973--14689326 Score: 367
Period size: 127 Copynumber: 2.8 Consensus size: 126
14688963 TTCGAGGGGT
* * * * * * * *
14688973 CGTGCCCGATCGTGCTGGGTTTCGATTTTTCGTTC-AGCTAAAATACAAAATATCCTTTGGAAAT
1 CGTGCCCAATCGTGCTAGGCTTCAATTTTCCATTCGA-CTAAAATACAGAATATCCTTTTGAAAT
** ** * * *
14689037 TTTGTCCATGTTTTTTTTTAAAATTAAAACGAGGCAATACTTCGTGTTTGGAAGTTTAGGAGGC
65 TTCATCCA--CATGTTCTTAAAATTAAAACGAGGCAATACTTCGTGTTTGGAAGTTTAGGAAGC
* *
14689101 CGTGCCCAATCGTGCTAGGCTTCAATTTTCTATTCGACTAAAATA-TGAAATATCCTTTTTTGAA
1 CGTGCCCAATCGTGCTAGGCTTCAATTTTCCATTCGACTAAAATACAG-AATATCC--TTTTGAA
* * * *
14689165 ATTTCATCCACATGTTCTTAAAA-TAAATCGAGGCAATATTTCGTGTTTGGAAGTTTGGGAAGT
63 ATTTCATCCACATGTTCTTAAAATTAAAACGAGGCAATACTTCGTGTTTGGAAGTTTAGGAAGC
* *
14689228 CGTGCCCAATTGTGCTGGGCTTCAATTTTCCATTCGACTAAAATACAGAATATCCTTTTGAAATT
1 CGTGCCCAATCGTGCTAGGCTTCAATTTTCCATTCGACTAAAATACAGAATATCCTTTTGAAATT
* * * *
14689293 TCAT--ACGTGTTTTCTCAAATTAAAATGAGGCAAT
66 TCATCCACATGTTCT-TAAAATTAAAACGAGGCAAT
14689327 GTTTCGTATT
Statistics
Matches: 189, Mismatches: 30, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
123 7 0.04
124 4 0.02
125 26 0.14
127 84 0.44
128 53 0.28
129 1 0.01
130 14 0.07
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (126 bp):
CGTGCCCAATCGTGCTAGGCTTCAATTTTCCATTCGACTAAAATACAGAATATCCTTTTGAAATT
TCATCCACATGTTCTTAAAATTAAAACGAGGCAATACTTCGTGTTTGGAAGTTTAGGAAGC
Found at i:14689368 original size:125 final size:125
Alignment explanation
Indices: 14689101--14689380 Score: 325
Period size: 125 Copynumber: 2.2 Consensus size: 125
14689091 TTTAGGAGGC
* * *
14689101 CGTGCCCAATCGTGCTAGGCTTCAATTTTCTATTCGACTAAAATATGAAATATCCTTTTTTGAAA
1 CGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCGACTAAAATAAGAAATATCC-TTTTTGAAA
* * * * * * *
14689166 TTTCATCCACATGTTCTTAAAATAAATCGAGGCAATATTTCGTGTTTGGAAGTTTGGGAAGT
65 TTTCAT-CACATGTTCTCAAAATAAATCGAGGCAATATTTCGTATTTGAAAATTCGAGAAAT
*
14689228 CGTGCCCAATTGTGCTGGGCTTCAATTTTCCATTCGACTAAAATACAG-AATATCC-TTTTGAAA
1 CGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCGACTAAAATA-AGAAATATCCTTTTTGAAA
* * * *
14689291 TTTCAT-ACGTGTTTTCTCAAATTAAAAT-GAGGCAATGTTTCGTATTTGAAAATTCGATAAAT
65 TTTCATCACATG--TTCTCAAAAT-AAATCGAGGCAATATTTCGTATTTGAAAATTCGAGAAAT
* *
14689353 CGTGCCCAATCGTGCTGGGTTTCGATTT
1 CGTGCCCAATCGTGCTGGGCTTCAATTT
14689381 ACCGTTTGGG
Statistics
Matches: 131, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
123 4 0.03
125 73 0.56
126 4 0.03
127 49 0.37
128 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (125 bp):
CGTGCCCAATCGTGCTGGGCTTCAATTTTCCATTCGACTAAAATAAGAAATATCCTTTTTGAAAT
TTCATCACATGTTCTCAAAATAAATCGAGGCAATATTTCGTATTTGAAAATTCGAGAAAT
Found at i:14706072 original size:26 final size:24
Alignment explanation
Indices: 14706041--14706089 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
14706031 AATAAAAAAT
*
14706041 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAAT-AAATATA
14706067 TTTAAAAACATAAAAATAAATAT
1 TTTAAAAACATAAAAATAAATAT
14706090 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 4 0.18
26 12 0.55
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
TTTAAAAACATAAAAATAAATATA
Found at i:14706101 original size:22 final size:22
Alignment explanation
Indices: 14706060--14706118 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
14706050 ATAATAAATC
* *
14706060 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
14706080 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
14706102 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
14706119 TTGTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:14711220 original size:20 final size:20
Alignment explanation
Indices: 14711195--14711234 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14711185 TTCTTGTCTC
*
14711195 ACTTAACAGATATTATTTAT
1 ACTTAACAGAGATTATTTAT
* *
14711215 ACTTAATATAGATTATTTAT
1 ACTTAACAGAGATTATTTAT
14711235 TACGTGGGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (20 bp):
ACTTAACAGAGATTATTTAT
Found at i:14716521 original size:13 final size:13
Alignment explanation
Indices: 14716503--14716527 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14716493 AAAACCCACA
14716503 TTTTAAATAAGAT
1 TTTTAAATAAGAT
14716516 TTTTAAATAAGA
1 TTTTAAATAAGA
14716528 CTTACTGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
TTTTAAATAAGAT
Found at i:14717253 original size:57 final size:57
Alignment explanation
Indices: 14717192--14717307 Score: 191
Period size: 57 Copynumber: 2.0 Consensus size: 57
14717182 ATAAATTTAA
14717192 TTCTCTAATATTTATAAATTCTA-CTAATTT-GATTATAATTCTAAAAAATAAATAAAT
1 TTCTCTAATATTTATAAATTCTATC-AATTTAG-TTATAATTCTAAAAAATAAATAAAT
*
14717249 TTCTCTAATATTTATAAATTCTATCAATTTAGTTCTAATTCTAAAAAATAAATAAAT
1 TTCTCTAATATTTATAAATTCTATCAATTTAGTTATAATTCTAAAAAATAAATAAAT
14717306 TT
1 TT
14717308 AACTCTCAAC
Statistics
Matches: 56, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
57 54 0.96
58 2 0.04
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (57 bp):
TTCTCTAATATTTATAAATTCTATCAATTTAGTTATAATTCTAAAAAATAAATAAAT
Found at i:14721107 original size:20 final size:19
Alignment explanation
Indices: 14721084--14721130 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
14721074 TATTTCTTAA
14721084 AATTAAAACTCAATTCTACC
1 AATTAAAACTCAATTC-ACC
* *
14721104 AATTCAAAACTCCATTCAGC
1 AATT-AAAACTCAATTCACC
14721124 AATTAAA
1 AATTAAA
14721131 CATGAATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (19 bp):
AATTAAAACTCAATTCACC
Found at i:14731891 original size:24 final size:24
Alignment explanation
Indices: 14731845--14731896 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
14731835 TTTCAAAGTT
*
14731845 ATTTGTTTTGTTTTTAAATTTTAG
1 ATTTGTTTTGTTTTTAAATTTTAC
*
14731869 ATTTGTTTTTTTTTTTAAA-TTTAC
1 ATTTG-TTTTGTTTTTAAATTTTAC
14731893 ATTT
1 ATTT
14731897 TATATTCATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.21, C:0.02, G:0.08, T:0.69
Consensus pattern (24 bp):
ATTTGTTTTGTTTTTAAATTTTAC
Found at i:14734161 original size:20 final size:21
Alignment explanation
Indices: 14734125--14734169 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
14734115 AGCTTAAATT
* *
14734125 AAAT-GAATCAAAGTTGTTAC
1 AAATGGAATCAAAATTGTTAA
14734145 AAATGGAAT-AAAATTGTTAA
1 AAATGGAATCAAAATTGTTAA
14734165 AAATG
1 AAATG
14734170 TCAATGTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.51, C:0.04, G:0.16, T:0.29
Consensus pattern (21 bp):
AAATGGAATCAAAATTGTTAA
Found at i:14740257 original size:21 final size:21
Alignment explanation
Indices: 14740233--14740272 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
14740223 AAAATGATCA
14740233 TCTAACTATTTAATTTTATCT
1 TCTAACTATTTAATTTTATCT
14740254 TCTAACTATTTAATTTTAT
1 TCTAACTATTTAATTTTAT
14740273 TTTTTTGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.57
Consensus pattern (21 bp):
TCTAACTATTTAATTTTATCT
Found at i:14741307 original size:40 final size:41
Alignment explanation
Indices: 14741261--14741350 Score: 103
Period size: 40 Copynumber: 2.2 Consensus size: 41
14741251 TAAATTACTT
* * *
14741261 TTATAAAATTCTATG-ATTTTTAATTAATTTCTAATAATTA
1 TTATAAAATTCTAAGAAATTTTAATGAATTTCTAATAATTA
* * * *
14741301 TTAT-AAATTTTAAGAAATTTTAATGATTTTCTTATAATTT
1 TTATAAAATTCTAAGAAATTTTAATGAATTTCTAATAATTA
14741341 TTATAAAATT
1 TTATAAAATT
14741351 TTTATACTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
39 8 0.20
40 28 0.68
41 5 0.12
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (41 bp):
TTATAAAATTCTAAGAAATTTTAATGAATTTCTAATAATTA
Found at i:14745482 original size:33 final size:33
Alignment explanation
Indices: 14745445--14745546 Score: 125
Period size: 33 Copynumber: 3.1 Consensus size: 33
14745435 TTTTATAATT
* * *
14745445 GTACACTCGAGGTGCACATTCCCTTTTCAAGTG
1 GTACACTCAAAGTGCACATACCCTTTTCAAGTG
* * * *
14745478 GTACACACAAAGTGTACATACCCTTTTCAATTT
1 GTACACTCAAAGTGCACATACCCTTTTCAAGTG
*
14745511 GTACACTCAAAGTGCACATAACCTTTTCAAG-G
1 GTACACTCAAAGTGCACATACCCTTTTCAAGTG
14745543 GTAC
1 GTAC
14745547 GCATATAGTG
Statistics
Matches: 57, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
32 4 0.07
33 53 0.93
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (33 bp):
GTACACTCAAAGTGCACATACCCTTTTCAAGTG
Found at i:14745587 original size:65 final size:66
Alignment explanation
Indices: 14745456--14745710 Score: 167
Period size: 65 Copynumber: 3.9 Consensus size: 66
14745446 TACACTCGAG
** * * *
14745456 GTGCACATTCCCTTTTCAAGTGGTACACACAAAGTGTACATACCCTTTTCAATTTGTACACTCAA
1 GTGCACATAACCTTTTCAAGTGGTACACACAAAGTGTACATACCCTTTTCAAGTGGTACACACAA
14745521 A
66 A
* * * * ** *
14745522 GTGCACATAACCTTTTCAAG-GGTACGCATATAGTGTACCTTTCCTTTTCAAGTGGTATACACAA
1 GTGCACATAACCTTTTCAAGTGGTACACACAAAGTGTACATACCCTTTTCAAGTGGTACACACAA
14745586 A
66 A
** * ** * * * ** * * *
14745587 GTATACCTTTCCTTTTCATA-TGGTATACACAAAGTATACCTTTCATTTTCATA-TGTTATACAC
1 GTGCACATAACCTTTTCA-AGTGGTACACACAAAGTGTACATACCCTTTTCA-AGTGGTACACAC
14745650 AAA
64 AAA
** * ** * * *
14745653 GTATACCTTTCCTTTCCAAGT-GTACACACAAAGTGTACATAGCCTTTTCAAGTTGTAC
1 GTGCACATAACCTTTTCAAGTGGTACACACAAAGTGTACATACCCTTTTCAAGTGGTAC
14745711 CATTTGGGTA
Statistics
Matches: 150, Mismatches: 34, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
64 1 0.01
65 75 0.50
66 73 0.49
67 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (66 bp):
GTGCACATAACCTTTTCAAGTGGTACACACAAAGTGTACATACCCTTTTCAAGTGGTACACACAA
A
Found at i:14745599 original size:33 final size:33
Alignment explanation
Indices: 14745466--14745710 Score: 210
Period size: 33 Copynumber: 7.5 Consensus size: 33
14745456 GTGCACATTC
* **
14745466 CCTTTTCAAGTGGTACACACAAAGTGTACATAC
1 CCTTTTCAAGTGGTACACACAAAGTGTACCTTT
* * * * * **
14745499 CCTTTTCAATTTGTACACTCAAAGTGCACATAA
1 CCTTTTCAAGTGGTACACACAAAGTGTACCTTT
* * *
14745532 CCTTTTCAAG-GGTACGCATATAGTGTACCTTT
1 CCTTTTCAAGTGGTACACACAAAGTGTACCTTT
* *
14745564 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
1 CCTTTTCAAGTGGTACACACAAAGTGTACCTTT
* *
14745597 CCTTTTCATA-TGGTATACACAAAGTATACCTTT
1 CCTTTTCA-AGTGGTACACACAAAGTGTACCTTT
* * * *
14745630 CATTTTCATA-TGTTATACACAAAGTATACCTTT
1 CCTTTTCA-AGTGGTACACACAAAGTGTACCTTT
* * **
14745663 CCTTTCCAAGT-GTACACACAAAGTGTACATAG
1 CCTTTTCAAGTGGTACACACAAAGTGTACCTTT
*
14745695 CCTTTTCAAGTTGTAC
1 CCTTTTCAAGTGGTAC
14745711 CATTTGGGTA
Statistics
Matches: 177, Mismatches: 31, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
32 49 0.28
33 127 0.72
34 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.35
Consensus pattern (33 bp):
CCTTTTCAAGTGGTACACACAAAGTGTACCTTT
Found at i:14755693 original size:50 final size:50
Alignment explanation
Indices: 14755569--14755768 Score: 210
Period size: 50 Copynumber: 4.0 Consensus size: 50
14755559 TATATGCAGC
* * *
14755569 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-ATAACT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CCAGAT-AGT
* * * * * *
14755620 TCGATCACGTGTGTAGTAATAAGTGCAGGCTACTACGTGTATCAGATAGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAGT
* * * *
14755670 TAGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACC-GAATAAT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAG-ATAGT
* *
14755720 T-GGTCGCATGTGTAGTACTAAGTGCAGGCTAC-ATGCGTACCAGATAGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAGT
14755768 T
1 T
14755769 TGGCTACATA
Statistics
Matches: 125, Mismatches: 21, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
48 12 0.10
49 30 0.24
50 47 0.38
51 36 0.29
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (50 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAGT
Found at i:14756857 original size:2 final size:2
Alignment explanation
Indices: 14756850--14756896 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
14756840 ATGACATGTG
14756850 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14756892 TA TA T
1 TA TA T
14756897 GACTAGCCTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14757888 original size:27 final size:27
Alignment explanation
Indices: 14757841--14757957 Score: 112
Period size: 27 Copynumber: 4.3 Consensus size: 27
14757831 GGGCAAAATA
* * *
14757841 GTCATTTTACCCTACAGGGGTATGTT-G
1 GTCATTTTACACTATAAGGGTAT-TTCG
14757868 GTCATTTTACACTATAAGGGTATTTCG
1 GTCATTTTACACTATAAGGGTATTTCG
* *
14757895 GTAATTTTATACTATAAGGGTATTTCG
1 GTCATTTTACACTATAAGGGTATTTCG
* * * *
14757922 ATAATTTTACA-AATCGAGGGTATTTCG
1 GTCATTTTACACTAT-AAGGGTATTTCG
*
14757949 GTAATTTTA
1 GTCATTTTA
14757958 AAAATCGAAG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.05
27 74 0.95
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (27 bp):
GTCATTTTACACTATAAGGGTATTTCG
Done.