Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 88 of 438
Found at i:24092898 original size:16 final size:16
Alignment explanation
Indices: 24092879--24092937 Score: 57
Period size: 16 Copynumber: 3.4 Consensus size: 16
24092869 GATGTGATGA
24092879 ATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATAT
24092895 ATGTGATAACCGATGTGATGA-
1 ATGTGA-AA--G-TGT-AT-AT
24092916 ATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATAT
24092932 ATGTGA
1 ATGTGA
24092938 CAAGGCCTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 14
0.72 0.00 0.28
Matches are distributed among these distances:
15 1 0.03
16 14 0.39
17 5 0.14
18 1 0.03
19 1 0.03
20 5 0.14
21 8 0.22
22 1 0.03
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (16 bp):
ATGTGAAAGTGTATAT
Found at i:24093447 original size:37 final size:37
Alignment explanation
Indices: 24093388--24093461 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
24093378 CCGAGCTCTA
*
24093388 AAGACCCGATGACTATGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACCATGTGTGGAGATTATGTCCGGGT
*
24093425 AAGACCCGATGACCACTG-GTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACCA-TGTGTGGAGATTATGTCCGGGT
24093462 CCCAAACTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 32 0.94
38 2 0.06
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACCATGTGTGGAGATTATGTCCGGGT
Found at i:24096790 original size:43 final size:43
Alignment explanation
Indices: 24096722--24096926 Score: 189
Period size: 43 Copynumber: 4.8 Consensus size: 43
24096712 TATGTGATAT
*
24096722 TTACGTGTAAGACCACGTCTGGGACGTTGGCATAGATATGTGA
1 TTACGTGTAAGACCACGTCTAGGACGTTGGCATAGATATGTGA
* * *
24096765 TTACATGTAGGACCATGTCTAGGACGTTGGCATCA-ATATGTGA
1 TTACGTGTAAGACCACGTCTAGGACGTTGGCAT-AGATATGTGA
* * * *
24096808 TTACGTGTAAGACCACGGCTAGGATGTTGGCATCGATATGTGT
1 TTACGTGTAAGACCACGTCTAGGACGTTGGCATAGATATGTGA
* * ** * * * * *
24096851 TTATGAGTAAGACCTTGTCTGGGACAG-TGGCCTCGATATGAGG
1 TTACGTGTAAGACCACGTCTAGGAC-GTTGGCATAGATATGTGA
* * * *
24096894 TTACATGTAAGACCACATCTGGGACATTGGCAT
1 TTACGTGTAAGACCACGTCTAGGACGTTGGCAT
24096927 TGTACGATAT
Statistics
Matches: 129, Mismatches: 29, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
43 127 0.98
44 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (43 bp):
TTACGTGTAAGACCACGTCTAGGACGTTGGCATAGATATGTGA
Found at i:24096824 original size:86 final size:86
Alignment explanation
Indices: 24096722--24096926 Score: 234
Period size: 86 Copynumber: 2.4 Consensus size: 86
24096712 TATGTGATAT
*
24096722 TTACGTGTAAGACCACGTCTGGGACGTTGGCATAGATATGTGATTA-CATGTAGGACCATGTCTA
1 TTACGTGTAAGACCACGTCTGGGACGTTGGCATAGATATGTGATTATCA-GTAAGACCATGTCTA
*
24096786 GGAC-GTTGGCATCAATATGTGA
65 GGACAG-TGGCATCAATATGAGA
* * * * * * * *
24096808 TTACGTGTAAGACCACGGCTAGGATGTTGGCATCGATATGTGTTTATGAGTAAGACCTTGTCTGG
1 TTACGTGTAAGACCACGTCTGGGACGTTGGCATAGATATGTGATTATCAGTAAGACCATGTCTAG
* * *
24096873 GACAGTGGCCTCGATATGAGG
66 GACAGTGGCATCAATATGAGA
* * *
24096894 TTACATGTAAGACCACATCTGGGACATTGGCAT
1 TTACGTGTAAGACCACGTCTGGGACGTTGGCAT
24096927 TGTACGATAT
Statistics
Matches: 98, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
86 96 0.98
87 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (86 bp):
TTACGTGTAAGACCACGTCTGGGACGTTGGCATAGATATGTGATTATCAGTAAGACCATGTCTAG
GACAGTGGCATCAATATGAGA
Found at i:24099384 original size:10 final size:11
Alignment explanation
Indices: 24099361--24099391 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
24099351 TATGGGTAAG
*
24099361 AAAAGAATGAA
1 AAAAAAATGAA
24099372 AAAAAAATGAA
1 AAAAAAATGAA
24099383 AAAAAAATG
1 AAAAAAATG
24099392 TGTGTGAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (11 bp):
AAAAAAATGAA
Found at i:24100689 original size:39 final size:39
Alignment explanation
Indices: 24100635--24100778 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
24100625 GAATGTTCGA
24100635 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* * *
24100674 GTGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
24100713 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
24100752 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
24100779 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 86 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:24100725 original size:78 final size:79
Alignment explanation
Indices: 24100636--24100818 Score: 269
Period size: 78 Copynumber: 2.3 Consensus size: 79
24100626 AATGTTCGAG
24100636 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
24100700 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
* *
24100714 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
** *
24100779 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
24100793 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
24100819 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATACCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:24103561 original size:15 final size:16
Alignment explanation
Indices: 24103532--24103561 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24103522 CAAACATGCT
24103532 TTAACACATTATCAAA
1 TTAACACATTATCAAA
24103548 TTAACACA-TATCAA
1 TTAACACATTATCAA
24103562 CAATGCAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:24105817 original size:25 final size:25
Alignment explanation
Indices: 24105724--24105809 Score: 145
Period size: 25 Copynumber: 3.4 Consensus size: 25
24105714 AGCCCATGTA
24105724 AGCATACTGATCTATAGCTCGTGAG
1 AGCATACTGATCTATAGCTCGTGAG
**
24105749 AGCATACCAATCTATAGCTCGTGAG
1 AGCATACTGATCTATAGCTCGTGAG
*
24105774 AGCATACTGATCTATAGCTCGCGAG
1 AGCATACTGATCTATAGCTCGTGAG
24105799 AGCATACTGAT
1 AGCATACTGAT
24105810 TTACAGCTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (25 bp):
AGCATACTGATCTATAGCTCGTGAG
Found at i:24105827 original size:50 final size:50
Alignment explanation
Indices: 24105724--24105830 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 50
24105714 AGCCCATGTA
* * ***
24105724 AGCATACTGATCTATAGCTCGTGAGAGCATACCAATCTATAGCTCGTGAG
1 AGCATACTGATCTATAGCTCGCGAGAGCATACCAATCTACAGCTAAAGAG
** * *
24105774 AGCATACTGATCTATAGCTCGCGAGAGCATACTGATTTACAGCTAAAGTG
1 AGCATACTGATCTATAGCTCGCGAGAGCATACCAATCTACAGCTAAAGAG
24105824 AGCATAC
1 AGCATAC
24105831 AAATTCACAG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (50 bp):
AGCATACTGATCTATAGCTCGCGAGAGCATACCAATCTACAGCTAAAGAG
Found at i:24112048 original size:24 final size:24
Alignment explanation
Indices: 24112021--24112083 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
24112011 CTTATTATGT
24112021 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
24112045 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
24112069 TCGCACACATAGTGC
1 TCGCACACATAGTGC
24112084 ATTTGAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:24114152 original size:40 final size:39
Alignment explanation
Indices: 24114088--24114275 Score: 241
Period size: 39 Copynumber: 4.8 Consensus size: 39
24114078 GCTACTCGTT
* * * ** *
24114088 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
24114128 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
*
24114168 CAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
* * *
24114207 CAATTGCCTTCGGGCTTAGCCCGGATATCACAATTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
*
24114246 CAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCA
24114276 CTCGAACATT
Statistics
Matches: 135, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 90 0.67
40 45 0.33
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
Found at i:24114203 original size:39 final size:39
Alignment explanation
Indices: 24114124--24114276 Score: 261
Period size: 39 Copynumber: 3.9 Consensus size: 39
24114114 TATGGTAACC
* *
24114124 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
24114164 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
24114203 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
24114242 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
24114277 TCGAACATTC
Statistics
Matches: 108, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 91 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:24114251 original size:78 final size:79
Alignment explanation
Indices: 24114093--24114275 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
24114083 TCGTTCAAAC
* * **
24114093 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATC
24114158 ACAACTCGCACAATT
65 ACAACTCGCACAATT
* * *
24114173 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATCA
*
24114237 CAATTCGCACAATT
66 CAACTCGCACAATT
24114251 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
24114276 CTCGAACATT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 53 0.56
79 33 0.35
80 9 0.09
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.23
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATCA
CAACTCGCACAATT
Found at i:24125866 original size:40 final size:39
Alignment explanation
Indices: 24125802--24125989 Score: 241
Period size: 39 Copynumber: 4.8 Consensus size: 39
24125792 GCTACTCGTT
* * * ** *
24125802 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
24125842 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
*
24125882 CAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
* * *
24125921 CAATTGCCTTCGGGCTTAGCCCGGATATCACAATTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
*
24125960 CAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCA
24125990 CTCGAACATT
Statistics
Matches: 135, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 90 0.67
40 45 0.33
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
Found at i:24125917 original size:39 final size:39
Alignment explanation
Indices: 24125838--24125990 Score: 261
Period size: 39 Copynumber: 3.9 Consensus size: 39
24125828 TATGGTAACC
* *
24125838 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
24125878 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
24125917 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
24125956 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
24125991 TCGAACATTC
Statistics
Matches: 108, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 91 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:24125965 original size:78 final size:79
Alignment explanation
Indices: 24125807--24125989 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
24125797 TCGTTCAAAC
* * **
24125807 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATC
24125872 ACAACTCGCACAATT
65 ACAACTCGCACAATT
* * *
24125887 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATCA
*
24125951 CAATTCGCACAATT
66 CAACTCGCACAATT
24125965 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
24125990 CTCGAACATT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 53 0.56
79 33 0.35
80 9 0.09
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.23
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATCA
CAACTCGCACAATT
Found at i:24135052 original size:10 final size:11
Alignment explanation
Indices: 24135024--24135052 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
24135014 ACGATCACTA
24135024 GAATTTTTTGT
1 GAATTTTTTGT
24135035 GAATTTTTTGT
1 GAATTTTTTGT
24135046 GAATTTT
1 GAATTTT
24135053 CAAAACTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.17, T:0.62
Consensus pattern (11 bp):
GAATTTTTTGT
Found at i:24145553 original size:48 final size:48
Alignment explanation
Indices: 24145410--24145635 Score: 232
Period size: 48 Copynumber: 4.8 Consensus size: 48
24145400 CATGGTAGGG
* * * * * *
24145410 TGCCAATGCCTTTTCCCGGATATGGTCTTACATGGGATCACATACCAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
* *
24145458 TTCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCACATATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
*
24145506 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
* * * ** *
24145554 TGCCGAT---A-G-CCCAG-CTATGGTCTAACACGATATTACATATCGA
1 TGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATCGA
* *
24145597 TGCCAAAT-CCATGTCCCAGACATGGACTTATATGGGATC
1 TGCC-AATGCCATGTCCCAGACATGGTCTTACATGGGATC
24145636 GTACATAACC
Statistics
Matches: 145, Mismatches: 26, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
42 1 0.01
43 30 0.21
44 3 0.02
45 1 0.01
46 1 0.01
47 1 0.01
48 107 0.74
49 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
Found at i:24145987 original size:14 final size:13
Alignment explanation
Indices: 24145963--24145992 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
24145953 GGTTGTTTAT
24145963 TAAACTAATTAAC
1 TAAACTAATTAAC
24145976 TAAACTTAATTAAC
1 TAAAC-TAATTAAC
24145990 TAA
1 TAA
24145993 TTAAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:24154342 original size:14 final size:13
Alignment explanation
Indices: 24154318--24154347 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
24154308 GGTTGTTTAT
24154318 TAAACTAATTAAC
1 TAAACTAATTAAC
24154331 TAAACTTAATTAAC
1 TAAAC-TAATTAAC
24154345 TAA
1 TAA
24154348 TTAAACAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:24158338 original size:28 final size:28
Alignment explanation
Indices: 24158298--24158352 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
24158288 AGGTGGGAAG
24158298 TGATTGGGCCTGATGGGCCATATGAATT
1 TGATTGGGCCTGATGGGCCATATGAATT
*
24158326 TGATTGGGCCTGATGGGCCATGTGAAT
1 TGATTGGGCCTGATGGGCCATATGAAT
24158353 GAGATTAGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.20, C:0.15, G:0.35, T:0.31
Consensus pattern (28 bp):
TGATTGGGCCTGATGGGCCATATGAATT
Found at i:24158358 original size:28 final size:28
Alignment explanation
Indices: 24158299--24158364 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
24158289 GGTGGGAAGT
**
24158299 GATTGGGCCTGATGGGCCATATGAATTT
1 GATTGGGCCTGATGGGCCATATGAATGA
*
24158327 GATTGGGCCTGATGGGCCATGTGAATGA
1 GATTGGGCCTGATGGGCCATATGAATGA
*
24158355 GATTAGGCCT
1 GATTGGGCCT
24158365 AAAGGGGCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.21, C:0.15, G:0.35, T:0.29
Consensus pattern (28 bp):
GATTGGGCCTGATGGGCCATATGAATGA
Found at i:24158711 original size:27 final size:27
Alignment explanation
Indices: 24158681--24158993 Score: 311
Period size: 27 Copynumber: 11.7 Consensus size: 27
24158671 TAATAAAGAG
24158681 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
24158708 AAATTA-TCGAAATACCCTCGATTATG--
1 AAATTACT-GAAATACCCTCGATT-TGTA
* * *
24158734 AAATTACCGAAATACCCCCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
24158761 AAATTA-TCAAA-ACACTCTCGATTTGTA
1 AAATTACTGAAATAC-C-CTCGATTTGTA
* * *
24158788 AAATTACTGAAACACCATTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
24158815 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
24158842 AAATTA-TCGAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
24158869 AAATTACAGAAATACCTTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
**
24158896 AAATTACAAAAATACCCTCGATTTGT-
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
24158922 AAATTACCGAAACACCCCCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
24158949 AAATTA-TCGAAATACCCTTG-TAGTGTA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
*
24158976 AAATTACTAAAATACCCT
1 AAATTACTGAAATACCCT
24158994 TGTAGTGTAA
Statistics
Matches: 238, Mismatches: 33, Indels: 30
0.79 0.11 0.10
Matches are distributed among these distances:
25 4 0.02
26 46 0.19
27 178 0.75
28 8 0.03
29 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:24158845 original size:81 final size:81
Alignment explanation
Indices: 24158681--24158993 Score: 343
Period size: 80 Copynumber: 3.9 Consensus size: 81
24158671 TAATAAAGAG
* * *
24158681 AAATTA-CTGAAATACCCTCGATTTGTAAAATTA-TCGAAATACCCTCGATTATG--AAATTACC
1 AAATTATC-GAAACACCCTCGATTTGTAAAATTACT-GAAATACCATTGATT-TGTAAAATTACC
* *
24158742 GAAATACCCCCAATTTGTA
63 GAAATACCCTCGATTTGTA
* * *
24158761 AAATTATCAAAACACTCTCGATTTGTAAAATTACTGAAACACCATTGATTTGTAAAATTACCGAA
1 AAATTATCGAAACACCCTCGATTTGTAAAATTACTGAAATACCATTGATTTGTAAAATTACCGAA
*
24158826 ACACCCTCGATTTGTA
66 ATACCCTCGATTTGTA
* * * **
24158842 AAATTATCGAAATACCCTCGATTTGTAAAATTACAGAAATACCTTTGATTTGTAAAATTACAAAA
1 AAATTATCGAAACACCCTCGATTTGTAAAATTACTGAAATACCATTGATTTGTAAAATTACCGAA
24158907 ATACCCTCGATTTGT-
66 ATACCCTCGATTTGTA
* * * * * **
24158922 AAATTACCGAAACACCCCCAATTTGTAAAATTA-TCGAAATACCCTTG-TAGTGTAAAATTACTA
1 AAATTATCGAAACACCCTCGATTTGTAAAATTACT-GAAATACCATTGAT-TTGTAAAATTACCG
24158985 AAATACCCT
64 AAATACCCT
24158994 TGTAGTGTAA
Statistics
Matches: 201, Mismatches: 26, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.01
80 101 0.50
81 97 0.48
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (81 bp):
AAATTATCGAAACACCCTCGATTTGTAAAATTACTGAAATACCATTGATTTGTAAAATTACCGAA
ATACCCTCGATTTGTA
Found at i:24158966 original size:107 final size:108
Alignment explanation
Indices: 24158681--24158991 Score: 391
Period size: 107 Copynumber: 2.9 Consensus size: 108
24158671 TAATAAAGAG
* * *
24158681 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTATG--AAATTACCGA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATT-TGTAAAATTATCGA
* * *
24158744 AATACCCCCAATTTGTAAAATTATCAAAACA-CTCTCGATTTGTA
65 AATACCCTCGATTTGTAAAATTA-CAAAATACCTCTCGATTTGTA
* * *
24158788 AAATTACTGAAACACCATTGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAA
*
24158853 ATACCCTCGATTTGTAAAATTACAGAAATACCT-TTGATTTGTA
66 ATACCCTCGATTTGTAAAATTACA-AAATACCTCTCGATTTGTA
** * *
24158896 AAATTACAAAAATACCCTCGATTTGT-AAATTACCGAAACACCCCCAATTTGTAAAATTATCGAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAA
* *
24158960 ATACCCTTG-TAGTGTAAAATTACTAAAATACC
66 ATACCCTCGAT-TTGTAAAATTAC-AAAATACC
24158992 CTTGTAGTGT
Statistics
Matches: 179, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
106 3 0.02
107 109 0.61
108 65 0.36
109 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (108 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAA
ATACCCTCGATTTGTAAAATTACAAAATACCTCTCGATTTGTA
Found at i:24158994 original size:27 final size:27
Alignment explanation
Indices: 24158945--24159033 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
24158935 ACCCCCAATT
*
24158945 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCAAAATACCCTTGTAG
24158972 TGTAAAATTA-CTAAAATACCCTTGTAG
1 TGTAAAATTATC-AAAATACCCTTGTAG
* * * *
24158999 TGTAAAGTGATCGACATACCCTTGTAG
1 TGTAAAATTATCAAAATACCCTTGTAG
*
24159026 AGTAAAAT
1 TGTAAAAT
24159034 GACTGTTTTG
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.02
27 51 0.96
28 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (27 bp):
TGTAAAATTATCAAAATACCCTTGTAG
Found at i:24160059 original size:17 final size:18
Alignment explanation
Indices: 24160037--24160071 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24160027 TTTTGAGTAG
24160037 TAAGAA-AGGGTTTTCAA
1 TAAGAACAGGGTTTTCAA
*
24160054 TAAGAACATGGTTTTCAA
1 TAAGAACAGGGTTTTCAA
24160072 AAAACACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (18 bp):
TAAGAACAGGGTTTTCAA
Found at i:24166833 original size:40 final size:40
Alignment explanation
Indices: 24166788--24166955 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
24166778 TCGGATACAA
24166788 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
24166828 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
** **
24166868 CCGGATATAATAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
24166908 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
24166948 CCGGATAT
1 CCGGATAT
24166956 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:24166928 original size:80 final size:80
Alignment explanation
Indices: 24166804--24166955 Score: 236
Period size: 80 Copynumber: 1.9 Consensus size: 80
24166794 ATAACCACAC
* *
24166804 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGCC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATGCCTTCGGGTATTAACC
24166869 CGGATATAATAACTT
66 CGGATATAATAACTT
* *
24166884 GCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAATTGCCTTCGGGTCTTAA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAATGCCTTCGGGTATTAA
24166947 CCCGGATAT
64 CCCGGATAT
24166956 CATTCAATTG
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
78 1 0.02
79 2 0.03
80 63 0.95
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATGCCTTCGGGTATTAACC
CGGATATAATAACTT
Found at i:24171619 original size:22 final size:22
Alignment explanation
Indices: 24171594--24171649 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
24171584 AATAGGGTCA
24171594 CACGCCCGTGTGGACACAAGGG
1 CACGCCCGTGTGGACACAAGGG
24171616 CACGCCCGTGTGGACACAAGGG
1 CACGCCCGTGTGGACACAAGGG
24171638 CACGCCCGTGTG
1 CACGCCCGTGTG
24171650 TCATCAACAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.20, C:0.34, G:0.36, T:0.11
Consensus pattern (22 bp):
CACGCCCGTGTGGACACAAGGG
Found at i:24186507 original size:48 final size:48
Alignment explanation
Indices: 24186400--24186622 Score: 244
Period size: 48 Copynumber: 4.8 Consensus size: 48
24186390 CATGGTAGGG
* * *
24186400 TGCCAATGCCATATCCCAAATATGGTCTTACAT-GGATCACATACCGA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGA
24186447 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGA
* *
24186495 TGCCAATTCCATGTCCCAAACATGGTCTTACATGGGATCACACATCGA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGA
* * * * * ** * *
24186543 TGTCGAT---A-G-CCC-AGCTATGGTCTAACACGATATTACATATCAA
1 TGCCAATGCCATGTCCCAAAC-ATGGTCTTACATGGGATCACATATCGA
* *
24186586 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
24186623 CCGTACGTAA
Statistics
Matches: 144, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
42 2 0.01
43 27 0.19
44 1 0.01
45 1 0.01
46 1 0.01
47 32 0.22
48 79 0.55
49 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGA
Found at i:24188764 original size:10 final size:9
Alignment explanation
Indices: 24188744--24188824 Score: 71
Period size: 9 Copynumber: 8.9 Consensus size: 9
24188734 TCTATATGTA
24188744 TTTTTTATTC
1 TTTTTT-TTC
24188754 TTTTCTTTTC
1 TTTT-TTTTC
24188764 TTTTTTTT-
1 TTTTTTTTC
24188772 TTGTTTTTT-
1 TT-TTTTTTC
24188781 TTGTTTTTT-
1 TT-TTTTTTC
*
24188790 TTTTATTT-
1 TTTTTTTTC
*
24188798 TTTCTTTTC
1 TTTTTTTTC
24188807 TTTTCTTTTC
1 TTTT-TTTTC
24188817 TTTTTTTT
1 TTTTTTTT
24188825 AGAACAATAA
Statistics
Matches: 63, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
8 13 0.21
9 28 0.44
10 20 0.32
11 2 0.03
ACGTcount: A:0.02, C:0.09, G:0.02, T:0.86
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:24188768 original size:1 final size:1
Alignment explanation
Indices: 24188744--24188824 Score: 63
Period size: 1 Copynumber: 81.0 Consensus size: 1
24188734 TCTATATGTA
* * * * * * * * *
24188744 TTTTTTATTCTTTTCTTTTCTTTTTTTTTTGTTTTTTTTGTTTTTTTTTTATTTTTTCTTTTCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
24188809 TTCTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTT
24188825 AGAACAATAA
Statistics
Matches: 58, Mismatches: 22, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.02, C:0.09, G:0.02, T:0.86
Consensus pattern (1 bp):
T
Found at i:24191606 original size:15 final size:15
Alignment explanation
Indices: 24191586--24191648 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 15
24191576 AATAATAGAT
24191586 AATAAACAATAAATA
1 AATAAACAATAAATA
24191601 AATAAA-AATAAAATA
1 AATAAACAAT-AAATA
* *
24191616 ACT-AATAAT-AAT-
1 AATAAACAATAAATA
*
24191628 AATAAACAAGAAATA
1 AATAAACAATAAATA
24191643 AATAAA
1 AATAAA
24191649 AAAATTAAGC
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
12 2 0.05
13 7 0.18
14 8 0.21
15 22 0.56
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.21
Consensus pattern (15 bp):
AATAAACAATAAATA
Found at i:24191647 original size:21 final size:20
Alignment explanation
Indices: 24191575--24191643 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 20
24191565 AAGAGTAGAA
*
24191575 AAATAATAGATAATAAACAAT
1 AAATAATA-ATAATAAACAAC
* *
24191596 AAATAAATAAAAATAAAATAAC
1 AAAT-AATAATAAT-AAACAAC
* *
24191618 TAATAATAATAATAAACAAG
1 AAATAATAATAATAAACAAC
24191638 AAATAA
1 AAATAA
24191644 ATAAAAAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
20 10 0.26
21 16 0.42
22 12 0.32
ACGTcount: A:0.71, C:0.04, G:0.03, T:0.22
Consensus pattern (20 bp):
AAATAATAATAATAAACAAC
Found at i:24192563 original size:4 final size:4
Alignment explanation
Indices: 24192554--24192579 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
24192544 AAAACACTTA
24192554 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
24192580 TGAAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:24202278 original size:41 final size:41
Alignment explanation
Indices: 24202218--24202296 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
24202208 TCGGTCCAAC
24202218 TGTATTAATTAAAGAAAGATCAATAAATAGCATAAAATTAT
1 TGTATTAATTAAAGAAAGATCAATAAATAGCATAAAATTAT
*
24202259 TGTATTAATTAAAGCAAGATCAATAAATAGCATAAAAT
1 TGTATTAATTAAAGAAAGATCAATAAATAGCATAAAAT
24202297 AATTAAGTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.53, C:0.06, G:0.10, T:0.30
Consensus pattern (41 bp):
TGTATTAATTAAAGAAAGATCAATAAATAGCATAAAATTAT
Found at i:24204613 original size:46 final size:46
Alignment explanation
Indices: 24204546--24204646 Score: 125
Period size: 46 Copynumber: 2.2 Consensus size: 46
24204536 TCAGACTTGA
24204546 TCTTACACTGACTATCATCTCGTA-GCCGATGCATGTCCCAAACATG
1 TCTTACACTGACTATCATCTCG-AGGCCGATGCATGTCCCAAACATG
* * * **
24204592 TCTTACACTGGCT-TACGTCTCGAGGTCGATGCATGTCCCTGACATG
1 TCTTACACTGACTAT-CATCTCGAGGCCGATGCATGTCCCAAACATG
24204638 TCTTACACT
1 TCTTACACT
24204647 AGCTCACAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
45 2 0.04
46 46 0.96
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.31
Consensus pattern (46 bp):
TCTTACACTGACTATCATCTCGAGGCCGATGCATGTCCCAAACATG
Found at i:24212728 original size:44 final size:44
Alignment explanation
Indices: 24212678--24212775 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 44
24212668 AGAGTAACAT
* * *
24212678 AGTGCTAAACAGATAGCAATTAAGTG-CTAAGTAGAAAGCACCGA
1 AGTGCTAAACAGAGACCAATAAAGTGTCTAA-TAGAAAGCACCGA
* * * * *
24212722 AGTGCTAAGCAGAGACCACTAAAGTGTTTAATAGAGAGCGCCGA
1 AGTGCTAAACAGAGACCAATAAAGTGTCTAATAGAAAGCACCGA
24212766 AGTGCTAAAC
1 AGTGCTAAAC
24212776 CCATACAAGC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
44 41 0.93
45 3 0.07
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.18
Consensus pattern (44 bp):
AGTGCTAAACAGAGACCAATAAAGTGTCTAATAGAAAGCACCGA
Found at i:24215651 original size:50 final size:49
Alignment explanation
Indices: 24215536--24215815 Score: 271
Period size: 50 Copynumber: 5.6 Consensus size: 49
24215526 ATCTGGTACG
* * * **
24215536 CATAGTAGCCTGCACTTCGTACTACACATGTGACC-AACAATCCAGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACATTTGA-TACA
** *
24215585 TGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATTTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CATTTGATACA
* * *
24215635 CATAGTAGCCTGCACTTAGTACTACACACGTGACCGAA-GTTGTCGGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACATT-T--GATACA
* * * *
24215686 CATAGTAGCCTACACTTAGTACTACACATGCGACCTAACTATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC-ATTTGATACA
* * *
24215736 CGTAGTAGCCTACACTTAGTACTACACACGTGACCTAAAAACATCTT-AAACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT---AACAT-TTGATACA
24215788 CATAGTAGCCTGCA-TATAGTACTACACA
1 CATAGTAGCCTGCACT-TAGTACTACACA
24215816 TGTGTTGTAA
Statistics
Matches: 191, Mismatches: 28, Indels: 21
0.80 0.12 0.09
Matches are distributed among these distances:
48 2 0.01
49 31 0.16
50 78 0.41
51 44 0.23
52 31 0.16
53 5 0.03
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (49 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACATTTGATACA
Found at i:24215733 original size:101 final size:99
Alignment explanation
Indices: 24215524--24215770 Score: 305
Period size: 101 Copynumber: 2.5 Consensus size: 99
24215514 GTAACCAAAG
* * * * **
24215524 CTATCTGGTACGCATAGTAGCCTGCACTTCGTACTACACATGTGACCAACAATCCAGTACATGTA
1 CTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATCCAGTACACATA
* *
24215589 GTAGCCTGCACTTAGTACTACACACATGACCTAA
66 GTAGCCTACACTTAGTACTACACACACGACCTAA
* * *** **
24215623 CCATTTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCGAAGTTGTCGGGTACACA
1 CTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AA-CAATCCAGTACACA
**
24215688 TAGTAGCCTACACTTAGTACTACACATGCGACCTAA
64 TAGTAGCCTACACTTAGTACTACACACACGACCTAA
* *
24215724 CTATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTGACC
1 CTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
24215771 TAAAAACATC
Statistics
Matches: 125, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
99 41 0.33
100 2 0.02
101 82 0.66
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (99 bp):
CTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAATCCAGTACACATA
GTAGCCTACACTTAGTACTACACACACGACCTAA
Found at i:24217891 original size:27 final size:27
Alignment explanation
Indices: 24217853--24218012 Score: 164
Period size: 27 Copynumber: 5.9 Consensus size: 27
24217843 TAAGACCTCG
*
24217853 GTTTGTAAAATTACCAAAATACCCCTA
1 GTTTGTAAAATTACCGAAATACCCCTA
* * *
24217880 GTTTATAAAATTATCGAAATA-CCCTT
1 GTTTGTAAAATTACCGAAATACCCCTA
24217906 GATTTGTAAAATTACCGAAATACCCCTA
1 G-TTTGTAAAATTACCGAAATACCCCTA
* * *
24217934 ATTTGTAAAAATTACCAAAATACCCCCA
1 GTTTGT-AAAATTACCGAAATACCCCTA
* **
24217962 GTTTATAAAATTA-CGAAATACCTTTA
1 GTTTGTAAAATTACCGAAATACCCCTA
* *
24217988 -TAGTGTAAAATTATCGAAATACCCC
1 GT-TTGTAAAATTACCGAAATACCCC
24218013 GGTAGGGTAA
Statistics
Matches: 108, Mismatches: 20, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
25 1 0.01
26 23 0.21
27 57 0.53
28 27 0.25
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
GTTTGTAAAATTACCGAAATACCCCTA
Found at i:24218006 original size:81 final size:81
Alignment explanation
Indices: 24217854--24218012 Score: 250
Period size: 81 Copynumber: 2.0 Consensus size: 81
24217844 AAGACCTCGG
* *
24217854 TTTGTAAAATTACCAAAATACCCCTAGTTTATAAAATTATCGAAATACCCTTGATTTGTAAAATT
1 TTTGTAAAATTACCAAAATACCCCCAGTTTATAAAATTATCGAAATACCCTTGATGTGTAAAATT
24217919 ACCGAAATACCCCTAA
66 ACCGAAATACCCCTAA
*
24217935 TTTGTAAAAATTACCAAAATACCCCCAGTTTATAAAATTA-CGAAATA-CCTTTATAGTGTAAAA
1 TTTGT-AAAATTACCAAAATACCCCCAGTTTATAAAATTATCGAAATACCCTTGAT-GTGTAAAA
*
24217998 TTATCGAAATACCCC
64 TTACCGAAATACCCC
24218013 GGTAGGGTAA
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
80 6 0.08
81 33 0.46
82 33 0.46
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (81 bp):
TTTGTAAAATTACCAAAATACCCCCAGTTTATAAAATTATCGAAATACCCTTGATGTGTAAAATT
ACCGAAATACCCCTAA
Found at i:24218024 original size:81 final size:82
Alignment explanation
Indices: 24217859--24218012 Score: 231
Period size: 82 Copynumber: 1.9 Consensus size: 82
24217849 CTCGGTTTGT
* *
24217859 AAAATTACCAAAATACCCCTAGTTTATAAAATTATCGAAATACCCTTGATTTGTAAAATTACCGA
1 AAAATTACCAAAATACCCCCAGTTTATAAAATTATCGAAATACCCTTGATGTGTAAAATTACCGA
**
24217924 AATACCCCTAATTTGTA
66 AATACCCCTAATGGGTA
* *
24217941 AAAATTACCAAAATACCCCCAGTTTATAAAATTA-CGAAATA-CCTTTATAGTGTAAAATTATCG
1 AAAATTACCAAAATACCCCCAGTTTATAAAATTATCGAAATACCCTTGAT-GTGTAAAATTACCG
24218004 AAATACCCC
65 AAATACCCC
24218013 GGTAGGGTAA
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
80 6 0.09
81 28 0.42
82 33 0.49
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (82 bp):
AAAATTACCAAAATACCCCCAGTTTATAAAATTATCGAAATACCCTTGATGTGTAAAATTACCGA
AATACCCCTAATGGGTA
Found at i:24219363 original size:27 final size:27
Alignment explanation
Indices: 24219332--24219385 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
24219322 TTGAAAGACA
24219332 CTTCAACATGATGCGTTAGATGCGGCC
1 CTTCAACATGATGCGTTAGATGCGGCC
24219359 CTTCAACATGATGCGTTAGATGCGGCC
1 CTTCAACATGATGCGTTAGATGCGGCC
24219386 ATAATGTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.26
Consensus pattern (27 bp):
CTTCAACATGATGCGTTAGATGCGGCC
Found at i:24221853 original size:27 final size:26
Alignment explanation
Indices: 24221805--24222002 Score: 152
Period size: 27 Copynumber: 7.3 Consensus size: 26
24221795 TTGGGTCGTT
*
24221805 AATACCCC-AATTTTTAAAATTATCGA
1 AATACCCCTAATTTGTAAAATTA-CGA
*
24221831 AATACCCCTAGTTTGTAAAATTACTGA
1 AATACCCCTAATTTGTAAAATTAC-GA
*
24221858 AATACCCATAATTTGTAAAATTACTGA
1 AATACCCCTAATTTGTAAAATTAC-GA
* *
24221885 AATACCCCCAATTTGTAATAATTATTGA
1 AATACCCCTAATTTGTAA-AATTA-CGA
* *
24221913 AATA-CCCTCAGTTTGTAAAAAATTATCAA
1 AATACCCCT-AATTTGT--AAAATTA-CGA
*
24221942 AATA-CCCTAATTTTTTAAAATTACCGA
1 AATACCCCTAA-TTTGTAAAATTA-CGA
** *
24221969 AATA-CCCTTGTAGTGTAAAATTACTGA
1 AATACCCCTAAT-TTGTAAAATTAC-GA
24221996 AATACCC
1 AATACCC
24222003 TGTAGGGTAA
Statistics
Matches: 142, Mismatches: 19, Indels: 20
0.78 0.10 0.11
Matches are distributed among these distances:
26 11 0.08
27 90 0.63
28 20 0.14
29 19 0.13
30 2 0.01
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (26 bp):
AATACCCCTAATTTGTAAAATTACGA
Found at i:24222013 original size:26 final size:27
Alignment explanation
Indices: 24221957--24222015 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
24221947 CCTAATTTTT
*
24221957 TAAAATTACCGAAATACCCTTGTAGTG
1 TAAAATTACCGAAATACCCTTGTAGGG
*
24221984 TAAAATTACTGAAATACCC-TGTAGGG
1 TAAAATTACCGAAATACCCTTGTAGGG
24222010 TAAAAT
1 TAAAAT
24222016 GACTATTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 12 0.40
27 18 0.60
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTTGTAGGG
Found at i:24222505 original size:27 final size:27
Alignment explanation
Indices: 24222432--24222516 Score: 75
Period size: 27 Copynumber: 3.1 Consensus size: 27
24222422 GTGCAAATCG
24222432 TATTTAC-CAGTGGCTATGTGTCTG-TCA
1 TATTTACTCA-TGGCTATGTGTC-GATCA
* * * *
24222459 TATTTATTGATGACTCTGTGTCGATCA
1 TATTTACTCATGGCTATGTGTCGATCA
* * *
24222486 TATTTACTCATGGCTGTGTGCCGATTA
1 TATTTACTCATGGCTATGTGTCGATCA
24222513 TATT
1 TATT
24222517 ACCTCTACTG
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
26 1 0.02
27 44 0.96
28 1 0.02
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (27 bp):
TATTTACTCATGGCTATGTGTCGATCA
Found at i:24226111 original size:15 final size:15
Alignment explanation
Indices: 24226100--24226136 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
24226090 TTAAGAAGTT
*
24226100 CAAGATAGAGAAATC
1 CAAGATAAAGAAATC
24226115 CAAGATAAAGAAATC
1 CAAGATAAAGAAATC
24226130 CAAGATA
1 CAAGATA
24226137 CAATATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.57, C:0.14, G:0.16, T:0.14
Consensus pattern (15 bp):
CAAGATAAAGAAATC
Found at i:24230080 original size:101 final size:100
Alignment explanation
Indices: 24229923--24230103 Score: 281
Period size: 101 Copynumber: 1.8 Consensus size: 100
24229913 CCGGTACACG
* *
24229923 TAGTAGCCTACACTTAGTCTACACACGTGACCTAACGACCTGCTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTACACTTAGTCTACAAACGCGACCTAACGACCTGCTACACGTAGTAGCCTGCACTTA
24229988 GTACTACACACGTGATCGAAGTTGTTGGGTACGCA
66 GTACTACACACGTGATCGAAGTTGTTGGGTACGCA
* * * * * *
24230023 TAGTAGCCTGCACTTAGTACTACAAATGCGACCTAACTATCTGTTACACGTATTAGCCTGCACTT
1 TAGTAGCCTACACTTAGT-CTACAAACGCGACCTAACGACCTGCTACACGTAGTAGCCTGCACTT
24230088 AGTACTACACACGTGA
65 AGTACTACACACGTGA
24230104 CCTAAAACCA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 17 0.24
101 55 0.76
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (100 bp):
TAGTAGCCTACACTTAGTCTACAAACGCGACCTAACGACCTGCTACACGTAGTAGCCTGCACTTA
GTACTACACACGTGATCGAAGTTGTTGGGTACGCA
Found at i:24230106 original size:50 final size:50
Alignment explanation
Indices: 24229860--24230108 Score: 261
Period size: 49 Copynumber: 5.0 Consensus size: 50
24229850 GTAACTGAAG
* * * * *
24229860 CTATCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACC-AA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * *
24229909 CAATCCGGTACACGTAGTAGCCTACACTTAGT-CTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * * *
24229958 CGACCTGCTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * * * * *
24230008 GT-TGTTGGGTACGCATAGTAGCCTGCACTTAGTACTACAAATGCGACCTAA
1 CTAT-CT-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* *
24230059 CTATCTGTTACACGTATTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
24230109 AACCATCTTA
Statistics
Matches: 159, Mismatches: 36, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
48 12 0.08
49 55 0.35
50 53 0.33
51 38 0.24
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (50 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
Found at i:24232126 original size:28 final size:29
Alignment explanation
Indices: 24232094--24232192 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 29
24232084 ATAATAAGCC
*
24232094 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
24232122 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * * *
24232150 CGCGCACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
24232179 CGCACACTTAGTGC
1 CGCACACTTAGTGC
24232193 CAATCTCATG
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 36 0.61
29 18 0.31
30 3 0.05
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:24234301 original size:58 final size:59
Alignment explanation
Indices: 24234183--24234344 Score: 195
Period size: 58 Copynumber: 2.8 Consensus size: 59
24234173 GTGACGAGAT
* *
24234183 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTGGAAAAATA
1 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAAAAATA
***
24234241 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAAAAATA
* ** * **
24234299 TGGCACTGTGTGTGCGGGCT-TAAATCGCATGGCACTAAGTGTGCGA
1 TGGCACTGAGTGTGCATGCTGGAAAT-ATATGGCACTAAGTGTGCGA
24234345 AATCGAGTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
57 4 0.04
58 86 0.95
59 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (59 bp):
TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAAAAATA
Found at i:24234305 original size:29 final size:29
Alignment explanation
Indices: 24234183--24234284 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
24234173 GTGACGAGAT
24234183 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
24234212 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
24234241 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
24234270 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
24234285 GAGCTCGAAG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:24243117 original size:28 final size:28
Alignment explanation
Indices: 24243052--24243122 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
24243042 ATAGTGAATC
*
24243052 CGCACACTTAGTGCTATATGTATTCAACT
1 CGCACACTTAGTGCTATA-GTAATCAACT
24243081 CGCACACTTAGTGCTATA-TAATCAAACT
1 CGCACACTTAGTGCTATAGTAATC-AACT
24243109 CGCACACTTAGTGC
1 CGCACACTTAGTGC
24243123 CGAGACCAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 4 0.10
28 18 0.45
29 18 0.45
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGTAATCAACT
Found at i:24250959 original size:28 final size:28
Alignment explanation
Indices: 24250894--24250994 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
24250884 ATAGTGAATC
*
24250894 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
24250923 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
24250951 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
24250981 CGCACACTTAGTGC
1 CGCACACTTAGTGC
24250995 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:24253308 original size:40 final size:40
Alignment explanation
Indices: 24253263--24253429 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
24253253 CGGAATATAA
24253263 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
24253303 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
24253343 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
24253383 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
24253422 CCGGATAT
1 CCGGATAT
24253430 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:24253413 original size:80 final size:79
Alignment explanation
Indices: 24253279--24253429 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
24253269 ATAATCACGT
*
24253279 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
24253344 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
24253359 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
24253422 CCGGATAT
64 CCGGATAT
24253430 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:24253874 original size:58 final size:57
Alignment explanation
Indices: 24253809--24253919 Score: 136
Period size: 57 Copynumber: 1.9 Consensus size: 57
24253799 TCCCCTTTTC
24253809 CCTTAGTA-ATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTTTCTTTTCTTT
1 CCTTAGTACA-TTCGG-CAAGAAGATGGAG-AAGGATGAACAAATTTTTTTCTTTTCTTT
*** **
24253867 CCTTAGTACATTCGGCAAGCCTATGGAGAAGGATGAACATTTTTTTTTCTTTT
1 CCTTAGTACATTCGGCAAGAAGATGGAGAAGGATGAACAAATTTTTTTCTTTT
24253920 TTTTTTTTCC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
57 29 0.63
58 16 0.35
59 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (57 bp):
CCTTAGTACATTCGGCAAGAAGATGGAGAAGGATGAACAAATTTTTTTCTTTTCTTT
Found at i:24260509 original size:40 final size:40
Alignment explanation
Indices: 24260464--24260630 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
24260454 CGGAATATAA
24260464 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
24260504 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
24260544 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
24260584 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
24260623 CCGGATAT
1 CCGGATAT
24260631 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:24260614 original size:80 final size:79
Alignment explanation
Indices: 24260480--24260630 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
24260470 ATAATCACGT
*
24260480 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
24260545 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
24260560 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
24260623 CCGGATAT
64 CCGGATAT
24260631 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:24261083 original size:58 final size:58
Alignment explanation
Indices: 24261011--24261127 Score: 148
Period size: 58 Copynumber: 2.0 Consensus size: 58
24261001 CCCCCTTTTC
24261011 CCTTAGTAATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTTTCTTTTCTTT
1 CCTTAGTAATTTCGGCCAAGAAGATGGAG-AAGGATGAACAAATTTTTTTCTTTTCTTT
*** ** *
24261069 CCTTAGTACA-TTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTCTTTTTTTT
1 CCTTAGTA-ATTTCGGCCAAGAAGATGGAGAAGGATGAACAAATTTTTTTCTTTTCTTT
24261127 C
1 C
24261128 TTTTTCCATA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
58 47 0.92
59 4 0.08
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.40
Consensus pattern (58 bp):
CCTTAGTAATTTCGGCCAAGAAGATGGAGAAGGATGAACAAATTTTTTTCTTTTCTTT
Found at i:24263771 original size:28 final size:28
Alignment explanation
Indices: 24263703--24263773 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
24263693 ATAAGCCTGC
* *
24263703 ACACTTAGTGCT-TAATAGTCGAACTCGA
1 ACACTTAGTGCTAT-ATAATCAAACTCGA
*
24263731 ACACTTAGTGCTATATAATCAAACTCGT
1 ACACTTAGTGCTATATAATCAAACTCGA
*
24263759 GCACTTAGTGCTATA
1 ACACTTAGTGCTATA
24263774 CAATTTGAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.31
Consensus pattern (28 bp):
ACACTTAGTGCTATATAATCAAACTCGA
Found at i:24266832 original size:13 final size:14
Alignment explanation
Indices: 24266814--24266844 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
24266804 GGTTGTTTAT
24266814 TAAACTAATT-AAC
1 TAAACTAATTAAAC
24266827 TAAACTAATTAAAC
1 TAAACTAATTAAAC
24266841 TAAA
1 TAAA
24266845 GCAAAGAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAACTAATTAAAC
Found at i:24274355 original size:56 final size:56
Alignment explanation
Indices: 24274263--24274430 Score: 205
Period size: 56 Copynumber: 3.0 Consensus size: 56
24274253 TCTTACATGT
* ** * *
24274263 AATCACATATCGATGCC-AC-TATTCTAGACAGGGTCTTACTTGCACACATATATTGA
1 AATCACATATCGATGCCAACATA-T-TAAACATAGTCTTACTCGCACACATATATCGA
* * *
24274319 AATCACATATTGATGCCAACATATTAAACGTAGTCTTACTCGCACACATATATCGG
1 AATCACATATCGATGCCAACATATTAAACATAGTCTTACTCGCACACATATATCGA
** *
24274375 AATCACATATCGATGCCAATGTATTAAACATGGTCTTACTCGCACACATATATCGA
1 AATCACATATCGATGCCAACATATTAAACATAGTCTTACTCGCACACATATATCGA
24274431 TGTCATGGTC
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
56 91 0.95
57 3 0.03
58 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (56 bp):
AATCACATATCGATGCCAACATATTAAACATAGTCTTACTCGCACACATATATCGA
Found at i:24276453 original size:40 final size:40
Alignment explanation
Indices: 24276371--24276478 Score: 123
Period size: 40 Copynumber: 2.7 Consensus size: 40
24276361 TCGAATGATG
*
24276371 TCCGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAA
* **
24276410 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-CAGTTCCCAAA
1 TCCGG-CTAAG-TCCCGAAGGCATTTGTGCTAAGTGACCAAA
*
24276450 TCCGGGTTAAGTCCCGAAGGCATTTGTGC
1 TCC-GGCTAAGTCCCGAAGGCATTTGTGC
24276479 GAGCTATTAT
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
39 6 0.10
40 43 0.73
41 10 0.17
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAA
Found at i:24284520 original size:40 final size:40
Alignment explanation
Indices: 24284395--24284546 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
24284385 TCGAATGATG
* *
24284395 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACCAAA
* * * *
24284435 TCCGGACAAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACCAAA
* **
24284475 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCA-AA
* * *
24284516 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
24284547 TCGCTATATC
Statistics
Matches: 91, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
39 1 0.01
40 79 0.87
41 11 0.12
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCAAA
Found at i:24286343 original size:14 final size:15
Alignment explanation
Indices: 24286320--24286349 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
24286310 AATAAAAATT
24286320 TTAATACAAAACATA
1 TTAATACAAAACATA
24286335 TTAAT-CAAAACATA
1 TTAATACAAAACATA
24286349 T
1 T
24286350 CTTTCATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (15 bp):
TTAATACAAAACATA
Found at i:24288624 original size:125 final size:125
Alignment explanation
Indices: 24288402--24288652 Score: 466
Period size: 125 Copynumber: 2.0 Consensus size: 125
24288392 GAAGTTTTAC
*
24288402 TAGTAATGGCATGTACCTAAGACTAAACAACTAGTAGAGTCTTGTATGATGAGTTAAGTACTTAC
1 TAGTAATGGCATGTACCTAAGACTAAACAACTAGGAGAGTCTTGTATGATGAGTTAAGTACTTAC
**
24288467 ATAATAGGTTAAATGGGATAAATTGTTAGTCAATTATGATGCCTATATAAGTATATATGT
66 ATAATAGGTTAAATGGGATAAATCATTAGTCAATTATGATGCCTATATAAGTATATATGT
*
24288527 TAGTAATGGCATGTACCTAAGACTAAACAACTAGGAGTGTCTTGTATGATGAGTTAAGTACTTAC
1 TAGTAATGGCATGTACCTAAGACTAAACAACTAGGAGAGTCTTGTATGATGAGTTAAGTACTTAC
24288592 ATAATAGGTTAAATGGGATAAATCATTAGTCAATTATGATGCCTATATAAGTATATATGT
66 ATAATAGGTTAAATGGGATAAATCATTAGTCAATTATGATGCCTATATAAGTATATATGT
24288652 T
1 T
24288653 GAATATGTTA
Statistics
Matches: 122, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
125 122 1.00
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (125 bp):
TAGTAATGGCATGTACCTAAGACTAAACAACTAGGAGAGTCTTGTATGATGAGTTAAGTACTTAC
ATAATAGGTTAAATGGGATAAATCATTAGTCAATTATGATGCCTATATAAGTATATATGT
Found at i:24296701 original size:38 final size:39
Alignment explanation
Indices: 24296633--24296820 Score: 294
Period size: 38 Copynumber: 4.9 Consensus size: 39
24296623 AATGTTCGAG
24296633 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
24296672 TGATA-CTCGGGCTAAG-CCGAAGGCAATTGTGCGAG-TA
1 TGATATC-CGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
24296709 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
24296748 TGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
24296786 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
24296821 GGTTACCATA
Statistics
Matches: 139, Mismatches: 4, Indels: 11
0.90 0.03 0.07
Matches are distributed among these distances:
37 16 0.12
38 76 0.55
39 30 0.22
40 17 0.12
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:24296872 original size:80 final size:77
Alignment explanation
Indices: 24296631--24296889 Score: 274
Period size: 76 Copynumber: 3.3 Consensus size: 77
24296621 TGAATGTTCG
* **
24296631 AGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATACTCGGGCTAAG-CCGAAGG
1 AGTGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGCTACCATAC-CGGGCTAAGCCCGAAGG
**
24296695 CAATTGTGCGAGT
65 CAATTGAACGAGT
* **
24296708 A-TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATACCGGGCTAAGCCCGAAGGC
1 AGTGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGCTACCATACCGGGCTAAGCCCGAAGGC
**
24296772 AATTGTGCGAGT
66 AATTGAACGAGT
* * * * *
24296784 TGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAA
1 AGTGATATCCGGGTTAAG-CCCGAAGGCAATTGTGCGAGCTACCAT-ACCGGGCTAAG-CCCGAA
**
24296849 GGCGTTTGAACGAGT
63 GGCAATTGAACGAGT
*
24296864 AGCT-ATATCC-GGTTAAACTCCGAAGG
1 AG-TGATATCCGGGTTAAGC-CCGAAGG
24296890 TATGTGATTT
Statistics
Matches: 161, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
75 9 0.06
76 65 0.40
77 16 0.10
78 23 0.14
79 23 0.14
80 24 0.15
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (77 bp):
AGTGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGCTACCATACCGGGCTAAGCCCGAAGGC
AATTGAACGAGT
Found at i:24304805 original size:40 final size:39
Alignment explanation
Indices: 24304677--24304838 Score: 204
Period size: 39 Copynumber: 4.2 Consensus size: 39
24304667 TGATGCTAAG
24304677 CGAAGGCAATTGTGCGAG---TGATATCCGGGCTAAGCC
1 CGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCC
*
24304713 CGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAAGCC
1 CGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCC
* *
24304752 CGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCC
1 CGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAG-CC
* * ** * *
24304792 CGAAGGCATTTGTGCGGGTTACCATAACCGGGCTATGTCC
1 CGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAG-CC
24304832 CGAAGGC
1 CGAAGGC
24304839 GTTTGAACGA
Statistics
Matches: 111, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
36 18 0.16
39 52 0.47
40 41 0.37
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.22
Consensus pattern (39 bp):
CGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCC
Found at i:24304823 original size:79 final size:76
Alignment explanation
Indices: 24304677--24304838 Score: 209
Period size: 79 Copynumber: 2.1 Consensus size: 76
24304667 TGATGCTAAG
** *
24304677 CGAAGGCAATTGTGCGAGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCC
1 CGAAGGCAATTGTGCGAGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACC
24304742 GGGCTAAG-CC
66 GGGCTAAGTCC
* * * *
24304752 CGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCAT
1 CGAAGGCAATTGTGCGA---GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTACCAT
*
24304817 AACCGGGCTATGTCC
62 AACCGGGCTAAGTCC
24304832 CGAAGGC
1 CGAAGGC
24304839 GTTTGAACGA
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
75 17 0.23
78 16 0.22
79 32 0.43
80 9 0.12
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.22
Consensus pattern (76 bp):
CGAAGGCAATTGTGCGAGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTACCATAACC
GGGCTAAGTCC
Found at i:24308121 original size:6 final size:6
Alignment explanation
Indices: 24308110--24308134 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
24308100 TCATATGTTC
24308110 ATACAT ATACAT ATACAT ATACAT A
1 ATACAT ATACAT ATACAT ATACAT A
24308135 AACTTTCTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
ATACAT
Found at i:24317802 original size:25 final size:26
Alignment explanation
Indices: 24317746--24317804 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
24317736 ATTTATTTTC
*
24317746 TAAA-AAATTTAAAAATTATTAATGAT
1 TAAATAAATTGAAAAATTA-TAATGAT
*
24317772 TCAATAAATTGAAAAATTA-AATGAT
1 TAAATAAATTGAAAAATTATAATGAT
24317797 TAAATAAA
1 TAAATAAA
24317805 ATTAAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 13 0.45
26 3 0.10
27 13 0.45
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (26 bp):
TAAATAAATTGAAAAATTATAATGAT
Found at i:24317811 original size:25 final size:26
Alignment explanation
Indices: 24317749--24317811 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 26
24317739 TATTTTCTAA
*
24317749 AAAATTTAAAAATTATTAATGATTCAAT
1 AAAA-TTAAAAATTA-TAATGATTAAAT
24317777 -AAATTGAAAAATTA-AATGATTAAAT
1 AAAATT-AAAAATTATAATGATTAAAT
24317802 AAAATTAAAA
1 AAAATTAAAA
24317812 TTTAGGAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
25 14 0.44
26 7 0.22
27 11 0.34
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (26 bp):
AAAATTAAAAATTATAATGATTAAAT
Found at i:24318387 original size:17 final size:18
Alignment explanation
Indices: 24318360--24318393 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24318350 AATTAAATAT
24318360 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
24318378 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
24318394 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:24325885 original size:32 final size:32
Alignment explanation
Indices: 24325793--24325887 Score: 109
Period size: 32 Copynumber: 3.0 Consensus size: 32
24325783 ATACAGCTTT
* * *
24325793 AAGCCTTCAGTAGCGGTCTTATAATTGGCACA
1 AAGCCATCAGTAACGGTATTATAATTGGCACA
* * **
24325825 AAGCCATCGGTAACTGTATTATGTTTGGCACA
1 AAGCCATCAGTAACGGTATTATAATTGGCACA
* *
24325857 TAGCCATCAGTAACGGTAATATAATTGGCAC
1 AAGCCATCAGTAACGGTATTATAATTGGCAC
24325888 CCAGCCTTCG
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (32 bp):
AAGCCATCAGTAACGGTATTATAATTGGCACA
Found at i:24326486 original size:26 final size:27
Alignment explanation
Indices: 24326365--24326490 Score: 141
Period size: 27 Copynumber: 4.7 Consensus size: 27
24326355 TACCCTACAT
* * *
24326365 GGGTATTTCTATGATTTTACAAATT-GG
1 GGGTATTTCGATAATTTTAC-AATTCGA
*
24326392 GGGTATTTTGATAATTTTACAATTCGA
1 GGGTATTTCGATAATTTTACAATTCGA
* *
24326419 GGGTATTTCGGTAATTTTACAGTTCGA
1 GGGTATTTCGATAATTTTACAATTCGA
* *
24326446 GGGTATTTCGGTAATTTTACAA-ACTG-
1 GGGTATTTCGATAATTTTACAATTC-GA
24326472 GGGTATTTCGATAATTTTA
1 GGGTATTTCGATAATTTTA
24326491 AACAGTTTGG
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 23 0.26
27 64 0.74
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACAATTCGA
Found at i:24329720 original size:55 final size:52
Alignment explanation
Indices: 24329578--24329776 Score: 170
Period size: 55 Copynumber: 3.7 Consensus size: 52
24329568 ATCCTTTTGA
* * *
24329578 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTA-CAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * *
24329631 AACTCACAAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAG
1 AACTTAC-AATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G
* * *
24329685 TAACTTATCAATGCCATGTCTTGTCATGGTCTTACATGGTATCCGTGCCTTA-G
1 -AACTTA-CAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* *
24329738 AAACCTTACCAATTTCCATG-CATTGGCATGGTCTTACAT
1 -AA-CTTA-CAA-TGCCATGTC-TTGACATGGTCTTACAT
24329777 TCTATCCTTA
Statistics
Matches: 120, Mismatches: 17, Indels: 16
0.78 0.11 0.10
Matches are distributed among these distances:
52 3 0.03
53 43 0.36
54 9 0.08
55 62 0.52
56 3 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (52 bp):
AACTTACAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:24332608 original size:18 final size:17
Alignment explanation
Indices: 24332582--24332615 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
24332572 CTGTAATACG
24332582 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
24332600 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
24332616 AAACCCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:24336841 original size:36 final size:36
Alignment explanation
Indices: 24336794--24336864 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
24336784 TATTCTTAAT
*
24336794 AGTCAATTTATTCAATTGTCGGCCGTCGATGCACAG
1 AGTCAATTTATTCAATTGTCGGCAGTCGATGCACAG
*
24336830 AGTCAATTTATTCAATTGTCGGTAGTCGATGCACA
1 AGTCAATTTATTCAATTGTCGGCAGTCGATGCACA
24336865 TACACATGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (36 bp):
AGTCAATTTATTCAATTGTCGGCAGTCGATGCACAG
Found at i:24342223 original size:16 final size:16
Alignment explanation
Indices: 24342198--24342231 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24342188 TAAGTTGGCT
* *
24342198 TGAATTATATATTTGA
1 TGAATGATATATGTGA
24342214 TGAATGATATATGTGA
1 TGAATGATATATGTGA
24342230 TG
1 TG
24342232 TATATAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (16 bp):
TGAATGATATATGTGA
Found at i:24348246 original size:74 final size:74
Alignment explanation
Indices: 24348119--24348269 Score: 194
Period size: 74 Copynumber: 2.0 Consensus size: 74
24348109 TAATAGGTTA
* * * *
24348119 GTTAGTACCTAATCCACCCTAAAACCTTAATCCGAAGTTAAATACAACCTAAAAAAAGTTAATCT
1 GTTAGTACCGAATCAACCCTAAAACCCTAATCCGAAGTTAAATACAACCTAAAAAAACTTAATCT
24348184 TCCTGACTG
66 TCCTGACTG
* * * * * **
24348193 GTTAGTACCGAATCAACCCTAAAACCCTAATCTGAAGTTAACTATAGCTTAAAATGACTTAATCT
1 GTTAGTACCGAATCAACCCTAAAACCCTAATCCGAAGTTAAATACAACCTAAAAAAACTTAATCT
*
24348258 TCCTGATTG
66 TCCTGACTG
24348267 GTT
1 GTT
24348270 TCATCAGTTT
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
74 65 1.00
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (74 bp):
GTTAGTACCGAATCAACCCTAAAACCCTAATCCGAAGTTAAATACAACCTAAAAAAACTTAATCT
TCCTGACTG
Found at i:24354173 original size:45 final size:44
Alignment explanation
Indices: 24354101--24354255 Score: 157
Period size: 45 Copynumber: 3.4 Consensus size: 44
24354091 GAAGGATCGA
* * * *
24354101 ACACTTATATATTATATTTTTTGGTTTCACCGACTAGTGCTGGGC
1 ACACATATATATTATA-TTTGTCGTTTCACCGACCAGTGCTGGGC
* *
24354146 ACACATATATATTATATTTGTCAGTTTCACCGACCAATGCTAGGC
1 ACACATATATATTATATTTGTC-GTTTCACCGACCAGTGCTGGGC
* * *
24354191 ACACCTATATATATTATAGTTGTCGACTTCACCGACCAGTGCAGGGC
1 ACA-C-ATATATATTATATTTGTCG-TTTCACCGACCAGTGCTGGGC
* * *
24354238 ACATATATAAATAATATT
1 ACACATATATATTATATT
24354256 ATTGTCGGTA
Statistics
Matches: 91, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
44 4 0.04
45 48 0.53
46 2 0.02
47 37 0.41
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (44 bp):
ACACATATATATTATATTTGTCGTTTCACCGACCAGTGCTGGGC
Found at i:24354261 original size:47 final size:47
Alignment explanation
Indices: 24354126--24354262 Score: 138
Period size: 47 Copynumber: 2.9 Consensus size: 47
24354116 ATTTTTTGGT
* * * *
24354126 TTCACCGACTAGTGCTGGGCACACATATATATTATAT-TTGTC-AGT
1 TTCACCGACCAGTGCAGGGCACACATATATATAATATATTGTCGAGC
* * *
24354171 TTCACCGACCAATGCTA-GGCACACCTATATATATTATAGTTGTCGA-C
1 TTCACCGACCAGTGC-AGGGCACACATATATATAATATA-TTGTCGAGC
* *
24354218 TTCACCGACCAGTGCAGGGCACATATATAAATAATATTATTGTCG
1 TTCACCGACCAGTGCAGGGCACACATATATATAATA-TATTGTCG
24354263 GTACCACCGA
Statistics
Matches: 74, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
45 30 0.41
46 1 0.01
47 40 0.54
48 3 0.04
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (47 bp):
TTCACCGACCAGTGCAGGGCACACATATATATAATATATTGTCGAGC
Found at i:24355616 original size:26 final size:27
Alignment explanation
Indices: 24355578--24355632 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 27
24355568 ACAATCATAC
*
24355578 ATCACATAGGGGCATAACAGTCATTTT
1 ATCACATAGGGGCATAAAAGTCATTTT
24355605 ATCACATA-GGGCATAAAAGTCATTTT
1 ATCACATAGGGGCATAAAAGTCATTTT
24355631 AT
1 AT
24355633 AAATTAGGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 19 0.70
27 8 0.30
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (27 bp):
ATCACATAGGGGCATAAAAGTCATTTT
Found at i:24355640 original size:26 final size:26
Alignment explanation
Indices: 24355578--24355641 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
24355568 ACAATCATAC
* *
24355578 ATCACATAGGGGCATAACAGTCATTTT
1 ATCAAATA-GGGCATAAAAGTCATTTT
*
24355605 ATCACATAGGGCATAAAAGTCATTTT
1 ATCAAATAGGGCATAAAAGTCATTTT
24355631 AT-AAATTAGGG
1 ATCAAA-TAGGG
24355642 GTCTAGGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 2 0.06
26 24 0.71
27 8 0.24
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (26 bp):
ATCAAATAGGGCATAAAAGTCATTTT
Found at i:24361092 original size:93 final size:93
Alignment explanation
Indices: 24360979--24361150 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
24360969 GCCCATAAGT
* * *
24360979 GAACTTGGACTCAACTCAACGAGCTCATG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
24361043 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* * *
24361072 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCTATAAGTGAACTCGGACTCAATTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
24361137 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
24361151 CAAATATCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:24361141 original size:46 final size:46
Alignment explanation
Indices: 24360973--24361146 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
24360963 TAACCCGCCC
* * * *
24360973 ATAAGTGAACTTGGACTCAACTCAACGAGCTCATG-CGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCT
*
24361019 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCATCT
* * *
24361069 CT---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCT
* *
24361112 ATAAGTGAACTCGGACTCAATTCAACGAGTTCGGA
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
24361147 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 7 0.07
44 1 0.01
45 1 0.01
46 59 0.56
47 28 0.26
49 1 0.01
50 5 0.05
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCT
Found at i:24365231 original size:46 final size:45
Alignment explanation
Indices: 24365181--24365356 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 45
24365171 TGGTTGAGCA
24365181 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
24365227 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
24365272 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
24365320 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24365357 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:24365337 original size:93 final size:93
Alignment explanation
Indices: 24365178--24365349 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
24365168 GGATGGTTGA
* * *
24365178 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAACTCGTTGAGT
24365243 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
24365271 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAACTCGTTGAGT
24365336 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
24365350 CTTATGGGCG
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:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:24374053 original size:27 final size:27
Alignment explanation
Indices: 24374023--24374434 Score: 483
Period size: 27 Copynumber: 15.3 Consensus size: 27
24374013 CCAAAGTACT
*
24374023 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
24374050 CTCGATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
24374077 CTCGATTTTCAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
24374104 CTC-AGTTTACAGAATTACTGTTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
* *
24374131 CTCGATTTATAGAATTATCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
** *
24374158 CTCGATTTGTAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
24374185 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* **
24374212 CTC-AGTTTATAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
24374239 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* *
24374266 CTC-AGTTTACAGAATTACTGTATTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
*
24374293 CTCGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
* ** *
24374320 CTCAATTTGTAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
** *
24374347 CTTTATTTACAGAATTACTAG-TTTACC
1 CTCGATTTACAGAATTAC-CGTTTTACC
* **
24374374 CTC-AGTTTACAAAATTATTGTTTTACC
1 CTCGA-TTTACAGAATTACCGTTTTACC
* *
24374401 CTTGATTTATAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACC
*
24374428 CTTGATT
1 CTCGATT
24374435 GTGAAATTAC
Statistics
Matches: 331, Mismatches: 44, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.02
27 321 0.97
28 5 0.02
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.42
Consensus pattern (27 bp):
CTCGATTTACAGAATTACCGTTTTACC
Found at i:24374469 original size:27 final size:27
Alignment explanation
Indices: 24374439--24374634 Score: 248
Period size: 27 Copynumber: 7.3 Consensus size: 27
24374429 TTGATTGTGA
*
24374439 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
24374466 AATTACCAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
24374493 AATTACTAAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
24374520 AATTACCGAAATACCCCCGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
24374547 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
24374574 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** * *
24374601 AATTACCGAGATACCTTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
24374628 AATTACC
1 AATTACC
24374635 ATTTTGCCTC
Statistics
Matches: 147, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 147 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:24374862 original size:27 final size:26
Alignment explanation
Indices: 24374832--24374914 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
24374822 CTGAGGAAGC
*
24374832 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
24374859 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
24374885 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
24374912 GTT
1 GTT
24374915 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:24375247 original size:27 final size:27
Alignment explanation
Indices: 24375225--24375298 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
24375215 TAGGTGGGTT
*
24375225 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
24375252 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
24375279 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
24375299 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:24375425 original size:6 final size:6
Alignment explanation
Indices: 24375416--24375517 Score: 95
Period size: 6 Copynumber: 16.8 Consensus size: 6
24375406 TTGCATTCAC
* *
24375416 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCT-
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* *
24375464 ATTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTA ATTCTG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
24375513 ATTCT
1 ATTCT
24375518 CATTTTGGTT
Statistics
Matches: 80, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
5 7 0.09
6 65 0.81
7 6 0.08
8 2 0.03
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:24375538 original size:30 final size:30
Alignment explanation
Indices: 24375416--24375517 Score: 161
Period size: 30 Copynumber: 3.4 Consensus size: 30
24375406 TTGCATTCAC
*
24375416 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
*
24375447 ATTCTGATTCTGATTCTATTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
24375477 ATTCTGATTCTGATTCTGTTACTAATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
24375507 ATTCTGATTCT
1 ATTCTGATTCT
24375518 CATTTTGGTT
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
29 1 0.02
30 44 0.67
31 21 0.32
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:24380604 original size:48 final size:48
Alignment explanation
Indices: 24380533--24380726 Score: 334
Period size: 48 Copynumber: 4.0 Consensus size: 48
24380523 CAAGATAAAT
24380533 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
24380581 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
24380629 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * *
24380677 ATACGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
24380725 AT
1 AT
24380727 GTGTGTATAT
Statistics
Matches: 140, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 140 1.00
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:24380917 original size:37 final size:37
Alignment explanation
Indices: 24380867--24380973 Score: 171
Period size: 37 Copynumber: 2.9 Consensus size: 37
24380857 GGAAATATAT
24380867 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
24380904 TCCGGGTAAGACCCGAAGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
24380941 TCCGGGTAAGA-CCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
24380974 TCATCTGAGC
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
36 19 0.29
37 46 0.71
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:24382299 original size:40 final size:40
Alignment explanation
Indices: 24382242--24382519 Score: 430
Period size: 40 Copynumber: 7.0 Consensus size: 40
24382232 TGAGAGTTAG
*
24382242 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTGGTGTT
24382282 ATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTGGTGTT
24382322 ATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTGGTGTT
* * *
24382362 ATATCCTGGCTAGGTCCCGAAGTGCATTCATGCTGGTGTT
1 ATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTGGTGTT
*
24382402 ATATCCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGTT
1 ATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTGGTGTT
* * * *
24382442 AAATCTGGGCTAAGTCCCGAAGAGCATTCGAGCTGGTGTT
1 ATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTGGTGTT
* * * * *
24382482 ATATCCGGGCTAAGTCTCAAAGAGCATTCATACTGGTG
1 ATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTGGTG
24382520 ATGTGTATTC
Statistics
Matches: 220, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 220 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTGGTGTT
Found at i:24386172 original size:27 final size:27
Alignment explanation
Indices: 24386142--24386201 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
24386132 GCCGAATGGC
24386142 TAATGTGAAATATGTATGAGATATGTA
1 TAATGTGAAATATGTATGAGATATGTA
*
24386169 TAATGTGAAATATGTATGGGATATGTA
1 TAATGTGAAATATGTATGAGATATGTA
24386196 T-ATGTG
1 TAATGTG
24386202 GTAAAGCCGA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 5 0.16
27 27 0.84
ACGTcount: A:0.37, C:0.00, G:0.25, T:0.38
Consensus pattern (27 bp):
TAATGTGAAATATGTATGAGATATGTA
Found at i:24386229 original size:48 final size:48
Alignment explanation
Indices: 24386169--24386478 Score: 512
Period size: 48 Copynumber: 6.5 Consensus size: 48
24386159 GAGATATGTA
*
24386169 TAATGTGAAATATGTATGGGATATGTATATGTGGTAAAGCCGAATGGC
1 TAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
* *
24386217 TAATATGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGC
1 TAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
24386265 TAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
1 TAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
* *
24386313 TAATGTGAAATTTGTATGAGATATGTATATGTGGTAAAGCCGAATGTC
1 TAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
*
24386361 TAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGC
1 TAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
* * * *
24386409 TAGTGTGAAATATGTATGAGATACGTATATGTGGTAAAGCCAAAGGGC
1 TAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
* *
24386457 TAGTGTGAAATATGTAGGAGAT
1 TAATGTGAAATATGTATGAGAT
24386479 GTGTGTATAT
Statistics
Matches: 246, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 246 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
TAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGC
Found at i:24386669 original size:37 final size:37
Alignment explanation
Indices: 24386619--24386726 Score: 162
Period size: 37 Copynumber: 2.9 Consensus size: 37
24386609 GGAAATATAT
24386619 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
24386656 TCCGGGTAAGACCCAAAGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
24386693 TCCGGGTAAGACCCGATAACTTCGTGTTGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
24386727 TCATCTAAGA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:24388621 original size:74 final size:74
Alignment explanation
Indices: 24388494--24388644 Score: 214
Period size: 74 Copynumber: 2.0 Consensus size: 74
24388484 TAATAGGTTA
* *
24388494 GTTAGTACCTAATCCACCCTAAAACCTTAATCCGAAGTTAACTACAGCCTAAAACAAGTTAATCT
1 GTTAGTACCTAATCCACCCTAAAACCCTAATCCGAAGTTAACTACAGCCTAAAACAACTTAATCT
24388559 TCCTGACTG
66 TCCTGACTG
* * * **
24388568 GTTAGTACCTAAT-CATCCCTAAAACCCTAATCTGAAGTTAACTATAGCTTAAAATGACTTAATC
1 GTTAGTACCTAATCCA-CCCTAAAACCCTAATCCGAAGTTAACTACAGCCTAAAACAACTTAATC
*
24388632 TTCCTGATTG
65 TTCCTGACTG
24388642 GTT
1 GTT
24388645 TCATCAGTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
73 2 0.03
74 66 0.97
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (74 bp):
GTTAGTACCTAATCCACCCTAAAACCCTAATCCGAAGTTAACTACAGCCTAAAACAACTTAATCT
TCCTGACTG
Found at i:24394722 original size:40 final size:40
Alignment explanation
Indices: 24394678--24394789 Score: 161
Period size: 40 Copynumber: 2.8 Consensus size: 40
24394668 ATATCACGAT
*
24394678 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAAC
1 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATGTAACAAC
* * *
24394718 TTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCAC
1 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATGTAACAAC
* * *
24394758 TAGCACAATTGCCTTCGGGTCTTAACCCGGAT
1 TTGCACAAATGCCTTCGGGTCTTAGCCCGGAT
24394790 ATAATTTCCA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (40 bp):
TTGCACAAATGCCTTCGGGTCTTAGCCCGGATGTAACAAC
Found at i:24397904 original size:45 final size:44
Alignment explanation
Indices: 24397832--24397986 Score: 148
Period size: 45 Copynumber: 3.4 Consensus size: 44
24397822 GAAGGATCGA
* * *
24397832 ACACCTATATATTATATTTTTTGGTTTCACCGACCAGTGCTGGGC
1 ACACATATATATTATA-TTTGTCGTTTCACCGACCAGTGCTGGGC
* * *
24397877 ACACATATATATTATATTTGTCAGTTTCACCAACCAATGCTAGGC
1 ACACATATATATTATATTTGTC-GTTTCACCGACCAGTGCTGGGC
* * * *
24397922 AAACCTATATATATTATAGTTGTCGACTTCACCGACCAGTGCAGGGC
1 ACA-C-ATATATATTATATTTGTCG-TTTCACCGACCAGTGCTGGGC
* * *
24397969 ACATATATAAATAATATT
1 ACACATATATATTATATT
24397987 ATTGTCGGTA
Statistics
Matches: 88, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
44 4 0.05
45 47 0.53
46 2 0.02
47 35 0.40
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.34
Consensus pattern (44 bp):
ACACATATATATTATATTTGTCGTTTCACCGACCAGTGCTGGGC
Found at i:24399345 original size:27 final size:27
Alignment explanation
Indices: 24399314--24399369 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
24399304 ACAATCATAC
*
24399314 ATCACATAGGGGCATAACAGTCATTTT
1 ATCACATAGGGGCATAAAAGTCATTTT
24399341 ATCACATAGGGGCATAAAAGTCATTTT
1 ATCACATAGGGGCATAAAAGTCATTTT
24399368 AT
1 AT
24399370 AAATTAGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (27 bp):
ATCACATAGGGGCATAAAAGTCATTTT
Found at i:24399377 original size:27 final size:27
Alignment explanation
Indices: 24399314--24399379 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
24399304 ACAATCATAC
* *
24399314 ATCACATAGGGGCATAACAGTCATTTT
1 ATCAAATAGGGGCATAAAAGTCATTTT
*
24399341 ATCACATAGGGGCATAAAAGTCATTTT
1 ATCAAATAGGGGCATAAAAGTCATTTT
24399368 AT-AAATTAGGGG
1 ATCAAA-TAGGGG
24399380 TCTAGGTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 2 0.06
27 34 0.94
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (27 bp):
ATCAAATAGGGGCATAAAAGTCATTTT
Found at i:24422836 original size:25 final size:24
Alignment explanation
Indices: 24422770--24422872 Score: 145
Period size: 26 Copynumber: 4.2 Consensus size: 24
24422760 GGCCTAACCT
24422770 CTTTTAAT-AACTGGGGCAAAGCC
1 CTTTTAATAAACTGGGGCAAAGCC
*
24422793 CTTTTGATAAACTGGGGCAAAGCC
1 CTTTTAATAAACTGGGGCAAAGCC
*
24422817 CTTTTCAATAAACTGAGGCATAAGCC
1 CTTTT-AATAAACTGGGGCA-AAGCC
*
24422843 CTTTTCAATAAACTGGGGCATAGCC
1 CTTTT-AATAAACTGGGGCAAAGCC
24422868 CTTTT
1 CTTTT
24422873 GCACTTCCTC
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
23 7 0.10
24 20 0.28
25 21 0.29
26 24 0.33
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (24 bp):
CTTTTAATAAACTGGGGCAAAGCC
Found at i:24422859 original size:51 final size:47
Alignment explanation
Indices: 24422770--24422872 Score: 143
Period size: 51 Copynumber: 2.1 Consensus size: 47
24422760 GGCCTAACCT
* *
24422770 CTTTTAATAACTGGGGCAAAGCCCTTTTGATAAACTGGGGCAAAGCC
1 CTTTTAATAACTGAGGCAAAGCCCTTTTAATAAACTGGGGCAAAGCC
*
24422817 CTTTTCAATAAACTGAGGCATAAGCCCTTTTCAATAAACTGGGGCATAGCC
1 CTTTT-AAT-AACTGAGGCA-AAGCCCTTTT-AATAAACTGGGGCAAAGCC
24422868 CTTTT
1 CTTTT
24422873 GCACTTCCTC
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
47 5 0.10
48 3 0.06
49 9 0.18
50 10 0.20
51 22 0.45
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (47 bp):
CTTTTAATAACTGAGGCAAAGCCCTTTTAATAAACTGGGGCAAAGCC
Found at i:24422947 original size:20 final size:20
Alignment explanation
Indices: 24422922--24422996 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
24422912 TTATGAATTC
* *
24422922 ATCATGTGTATTTCATACAT
1 ATCATGTGCATATCATACAT
24422942 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
24422962 GTCATGTACATATCATATCA-
1 ATCATGTGCATATCATA-CAT
24422982 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
24422997 TCCCACGTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
18 8 0.16
20 39 0.80
21 2 0.04
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:24422971 original size:11 final size:11
Alignment explanation
Indices: 24422937--24422989 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
24422927 GTGTATTTCA
24422937 TACATATCATG
1 TACATATCATG
*
24422948 TGCATATCA--
1 TACATATCATG
*
24422957 TACATGTCATG
1 TACATATCATG
*
24422968 TACATATCATA
1 TACATATCATG
24422979 T-CA-ATCATG
1 TACATATCATG
24422988 TA
1 TA
24422990 TATCATATCC
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
9 13 0.39
10 2 0.06
11 18 0.55
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (11 bp):
TACATATCATG
Found at i:24423052 original size:25 final size:25
Alignment explanation
Indices: 24423024--24423071 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
24423014 ATAATTAAAC
* * *
24423024 CCTAGGGGTATAATAGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
24423049 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
24423072 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:24423405 original size:193 final size:193
Alignment explanation
Indices: 24423072--24423461 Score: 701
Period size: 193 Copynumber: 2.0 Consensus size: 193
24423062 CAGTCATTTT
* *
24423072 CATA-TTATAAAGGTAATTTCATAATTTTACCATATATTATGGTTTTCCATGTTCATTAACAGTT
1 CATATTTATAAAGGTAATTTCATAATTTTACCATATATTAGGGTTTTCCATGTTCATTAACAATT
* *
24423136 ACTAACAATTCATATGTTTTAAACGGCGATTCTGGCCCATTTTTAGCGAAATCGAGTTATTGGGC
66 ACTAACAATTCATATGTTTTAAACAGCGATTCTGGCCCATTTTTAGCGAAACCGAGTTATTGGGC
*
24423201 CAAAAACCCCTAATGGGCCCTACTTAGCCGATTTTGTCATCTAGGCCCATTTTGCCTATATTC
131 CAAAAACCCCTAATGGGCCCTACTTAGCCGATTTTGTCATCTAGGCCCATTTAGCCTATATTC
24423264 CATATTTATAAAGGTAATTTCATAATTTTACCATATATTAGGGTTTTCCATGTTCATTAACAATT
1 CATATTTATAAAGGTAATTTCATAATTTTACCATATATTAGGGTTTTCCATGTTCATTAACAATT
* *
24423329 ACTAACAATTTATATGTTTTAAACAGCGATTCTGGCCCATTTTTAGTGAAACCGAGTTATTGGGC
66 ACTAACAATTCATATGTTTTAAACAGCGATTCTGGCCCATTTTTAGCGAAACCGAGTTATTGGGC
*
24423394 CAAAAACCCCTAATGGGCCCTACTTAGCCGATTTTGTCATCTTGGCCCATTTAGCCTATATTC
131 CAAAAACCCCTAATGGGCCCTACTTAGCCGATTTTGTCATCTAGGCCCATTTAGCCTATATTC
24423457 CATAT
1 CATAT
24423462 ATTGTTACCC
Statistics
Matches: 189, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
192 4 0.02
193 185 0.98
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (193 bp):
CATATTTATAAAGGTAATTTCATAATTTTACCATATATTAGGGTTTTCCATGTTCATTAACAATT
ACTAACAATTCATATGTTTTAAACAGCGATTCTGGCCCATTTTTAGCGAAACCGAGTTATTGGGC
CAAAAACCCCTAATGGGCCCTACTTAGCCGATTTTGTCATCTAGGCCCATTTAGCCTATATTC
Found at i:24430784 original size:26 final size:25
Alignment explanation
Indices: 24430701--24430808 Score: 157
Period size: 24 Copynumber: 4.4 Consensus size: 25
24430691 CTGTAGGCCT
* *
24430701 AGCCTTTTTTAAT-AACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
*
24430725 AGCCCTTTT-GATAAACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
24430749 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCA-A
*
24430775 AGCCCTTTTCAATAAACTGGGGCAT
1 AGCCCTTTTCAATAAACTGGGGCAA
24430800 AGCCCTTTT
1 AGCCCTTTT
24430809 GCACTTCCTC
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
23 2 0.03
24 28 0.36
25 22 0.29
26 25 0.32
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGCAA
Found at i:24430883 original size:20 final size:20
Alignment explanation
Indices: 24430858--24430932 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
24430848 TTATGAATTC
*
24430858 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
24430878 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
24430898 GTCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
24430918 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
24430933 TCCCACGTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 8 0.16
20 41 0.80
21 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:24439131 original size:14 final size:15
Alignment explanation
Indices: 24439114--24439142 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24439104 GCACGAAAAT
24439114 TTCACACA-AATAAA
1 TTCACACATAATAAA
24439128 TTCACACATAATAAA
1 TTCACACATAATAAA
24439143 CAGAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:24445411 original size:48 final size:48
Alignment explanation
Indices: 24445340--24446347 Score: 1595
Period size: 48 Copynumber: 21.0 Consensus size: 48
24445330 AGATAAATAT
* *
24445340 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
24445388 ATATATGTGTGATATGTAGATGTGGTAAAGCCGTATGG-TGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAA
* *
24445436 ATATGTATGAGATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
24445484 ATATATATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
24445532 ATATATGTGTGATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
24445580 ATATATTTGAGATATGTATATGTGGTAAAGCGGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
24445628 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
24445676 ATATTTATGAGATATGTAAATGTGGTAAAACCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
24445724 ATATATGTGTGATATGTAGATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
24445772 ATATGTATGAGATATGTATATGTGGTAAAGCAGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
24445820 ATATATATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
24445868 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
24445916 ATATATATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
24445964 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
24446012 ATATATATGAGATATGTAAATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
24446060 ATATATGTGTGATATGTAGATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * **
24446108 ATATGTATGAGATATGTATATGTGATAAAGCCGAATGATTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
24446156 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
24446204 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
24446252 ATATAAATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
24446300 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
24446348 TGTTGTAACA
Statistics
Matches: 880, Mismatches: 78, Indels: 4
0.91 0.08 0.00
Matches are distributed among these distances:
47 1 0.00
48 878 1.00
49 1 0.00
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Done.