Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 165 of 311
Found at i:56243411 original size:22 final size:21
Alignment explanation
Indices: 56243371--56243411 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
56243361 CTCTTAAAAT
56243371 AGGGGCACACACCCATGTGGA
1 AGGGGCACACACCCATGTGGA
* *
56243392 AGGGGCGACACGCCCGTGTG
1 AGGGGC-ACACACCCATGTG
56243412 CCCTTTTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.22, C:0.29, G:0.39, T:0.10
Consensus pattern (21 bp):
AGGGGCACACACCCATGTGGA
Found at i:56244933 original size:46 final size:45
Alignment explanation
Indices: 56244880--56245045 Score: 158
Period size: 46 Copynumber: 3.6 Consensus size: 45
56244870 TTTGGGCATC
56244880 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
* * * * *
56244925 CTGAACTCGTTGAGTTGAGTCTGAGTTC-GTGAAATGTAACTAG-GCAT-T
1 C-GAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGAATGT
* * * *
56244973 CAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-T
*
56245019 CGAGCTCGTTGAGTTGAGTCCGAGTTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC
56245046 GCTTGTGGGC
Statistics
Matches: 94, Mismatches: 17, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 52 0.55
47 26 0.28
48 4 0.04
49 4 0.04
50 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (45 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
Found at i:56247604 original size:98 final size:91
Alignment explanation
Indices: 56247453--56247651 Score: 236
Period size: 93 Copynumber: 2.1 Consensus size: 91
56247443 TCCAAACATT
* * * * *
56247453 GTCTTACACTGGCTCTCACATCTAAGTCGATGCCATGTCCTAGACAGGTCTTACACTAGCTTCCA
1 GTCTTACACTGGCTCTCACATCTAAGTCGATGACATGTCCCAGAAAGGGCTTACACT-G---ACA
* * *
56247518 TACATCGAGGCCAATGCCATGTCCCAGACAG
62 CACATC-AAGCCAATGCAATGTCCCAGACAG
**
56247549 GTCTTACACTGGCTCTCACTTATCTGTGTCGATGACATGTCCCAGAAAGGGCTTACACTGACACA
1 GTCTTACACTGGCTCTCAC--ATCTAAGTCGATGACATGTCCCAGAAAGGGCTTACACTGACACA
*
56247614 CCTCAAGCCAATGCAATGTCCCAGACAG
64 CATCAAGCCAATGCAATGTCCCAGACAG
56247642 GTCTTACACT
1 GTCTTACACT
56247652 AACCTACCTC
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
93 32 0.36
94 6 0.07
96 19 0.21
97 1 0.01
98 32 0.36
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (91 bp):
GTCTTACACTGGCTCTCACATCTAAGTCGATGACATGTCCCAGAAAGGGCTTACACTGACACACA
TCAAGCCAATGCAATGTCCCAGACAG
Found at i:56247648 original size:44 final size:44
Alignment explanation
Indices: 56247585--56247696 Score: 136
Period size: 44 Copynumber: 2.5 Consensus size: 44
56247575 TGTCGATGAC
* *
56247585 ATGTCCCAGAAAGGGCTTACACTGACAC-ACCTCAAGCCAATGCA
1 ATGTCCCAGAAAGGTCTTACACTAAC-CTACCTCAAGCCAATGCA
* * ** *
56247629 ATGTCCCAGACAGGTCTTACACTAACCTACCTCGAGCTGATGCC
1 ATGTCCCAGAAAGGTCTTACACTAACCTACCTCAAGCCAATGCA
*
56247673 ATGTCCCAGATAGGTCTTACACTA
1 ATGTCCCAGAAAGGTCTTACACTA
56247697 GATCTCATCT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
43 1 0.02
44 58 0.98
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.21
Consensus pattern (44 bp):
ATGTCCCAGAAAGGTCTTACACTAACCTACCTCAAGCCAATGCA
Found at i:56247745 original size:49 final size:47
Alignment explanation
Indices: 56247453--56247746 Score: 192
Period size: 49 Copynumber: 6.3 Consensus size: 47
56247443 TCCAAACATT
* * * * *
56247453 GTCTTACACTGGCTCTCAC-ATCTAAGTCGATGCCATGTCCTAGACAG
1 GTCTTACACTAGATCTCACTAT-TGAGCCGATGCCATGTCCCAGACAG
* * *
56247500 GTCTTACACTAGCT-TC-CATACATCGAGGCCAATGCCATGTCCCAGACAG
1 GTCTTACACTAGATCTCAC-T--ATTGA-GCCGATGCCATGTCCCAGACAG
* * * * * *
56247549 GTCTTACACTGGCTCTCACTTATCTGTGTCGATGACATGTCCCAGAAAG
1 GTCTTACACTAGATCTCAC-TAT-TGAGCCGATGCCATGTCCCAGACAG
* * * ** * *
56247598 GGCTTACACT-GA-CACAC-CTCAAGCCAATGCAATGTCCCAGACAG
1 GTCTTACACTAGATCTCACTATTGAGCCGATGCCATGTCCCAGACAG
* * * * *
56247642 GTCTTACACTA-ACCT-AC-CTCGAGCTGATGCCATGTCCCAGATAG
1 GTCTTACACTAGATCTCACTATTGAGCCGATGCCATGTCCCAGACAG
* *
56247686 GTCTTACACTAGATCTCATCTATTGGTGCCGATGTCATGTCCCAGACAG
1 GTCTTACACTAGATCTCA-CTATT-GAGCCGATGCCATGTCCCAGACAG
56247735 GTCTTACACTAG
1 GTCTTACACTAG
56247747 CACATACATC
Statistics
Matches: 192, Mismatches: 40, Indels: 28
0.74 0.15 0.11
Matches are distributed among these distances:
44 62 0.32
45 6 0.03
46 3 0.02
47 18 0.09
48 3 0.02
49 95 0.49
50 3 0.02
51 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (47 bp):
GTCTTACACTAGATCTCACTATTGAGCCGATGCCATGTCCCAGACAG
Found at i:56254041 original size:29 final size:28
Alignment explanation
Indices: 56254005--56254090 Score: 70
Period size: 29 Copynumber: 3.0 Consensus size: 28
56253995 ACATGGCTTG
* *
56254005 GAATTGATTCGGGCC-AGATGGGCGATAT
1 GAATTGATTCAGGCCTA-ATGGGCCATAT
*
56254033 GAATGTGATTTAGGCCTAATGGGCCATAT
1 GAAT-TGATTCAGGCCTAATGGGCCATAT
* *
56254062 GAATAAGATT--GTGCCTAGTGGGCCATAT
1 GAAT-TGATTCAG-GCCTAATGGGCCATAT
56254090 G
1 G
56254091 CATGTATGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
27 1 0.02
28 20 0.41
29 27 0.55
30 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.28
Consensus pattern (28 bp):
GAATTGATTCAGGCCTAATGGGCCATAT
Found at i:56257883 original size:40 final size:39
Alignment explanation
Indices: 56257835--56258120 Score: 369
Period size: 40 Copynumber: 7.2 Consensus size: 39
56257825 GGACTAAGAT
56257835 CCGAAGGCATTTGTGCTAGTTACTATATCCAGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCC-GGCTAAGTC
*
56257875 CCGAAGGCATTTGTGCTAGTTACTATAACCGGACTAAGAT-
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGG-CTAAG-TC
56257915 CCGAAGGCATTTGTGCTAGTTACTATATCCAGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCC-GGCTAAGTC
*
56257955 CCGAAGGCATTTGTGCTAGTTACTATAACCGGACTAAGAT-
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGG-CTAAG-TC
*
56257995 CCGAAGGCATTTGTGCTAGTTACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATC-CGGCTAAGTC
* * *
56258035 CGGAAAGCATTTATGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCC-GGCTAAGTC
* * * * * * *
56258075 CTGAAGCCATTTGTCCGAGTTGCTATATCTGGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGCTAAGTC
56258114 CCGAAGG
1 CCGAAGG
56258121 TACTTGGGTT
Statistics
Matches: 217, Mismatches: 20, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
39 19 0.09
40 192 0.88
41 6 0.03
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGCTAAGTC
Found at i:56257952 original size:80 final size:80
Alignment explanation
Indices: 56257819--56258120 Score: 464
Period size: 80 Copynumber: 3.8 Consensus size: 80
56257809 TATTCAGATG
56257819 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCAGGCTAAGTCCCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCAGGCTAAGTCCCGAAGGCA
56257884 TTTGTGCTAGTTACT
66 TTTGTGCTAGTTACT
56257899 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCAGGCTAAGTCCCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCAGGCTAAGTCCCGAAGGCA
56257964 TTTGTGCTAGTTACT
66 TTTGTGCTAGTTACT
** * *
56257979 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCTGGGCTAAGTCCGGAAAGCA
1 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCAGGCTAAGTCCCGAAGGCA
*
56258044 TTTATGCTAGTTACT
66 TTTGTGCTAGTTACT
* * * * * * * *
56258059 ATATCCGGGCTAAG-TCCTGAAGCCATTTGTCCGAGTTGCTATAT-CTGGCTAAATCCCGAAGG
1 ATAACCGGACTAAGATCC-GAAGGCATTTGTGCTAGTTACTATATCCAGGCTAAGTCCCGAAGG
56258121 TACTTGGGTT
Statistics
Matches: 205, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
79 16 0.08
80 189 0.92
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (80 bp):
ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCAGGCTAAGTCCCGAAGGCA
TTTGTGCTAGTTACT
Found at i:56262634 original size:30 final size:30
Alignment explanation
Indices: 56262598--56262660 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
56262588 TGTATGACTG
56262598 TTTGAGCATGCCTTTTATACTGTTTATACA
1 TTTGAGCATGCCTTTTATACTGTTTATACA
56262628 TTTGAGCATGCCTTTTATACTGTTTATACA
1 TTTGAGCATGCCTTTTATACTGTTTATACA
56262658 TTT
1 TTT
56262661 ATATTATGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.49
Consensus pattern (30 bp):
TTTGAGCATGCCTTTTATACTGTTTATACA
Found at i:56271006 original size:39 final size:40
Alignment explanation
Indices: 56270835--56271063 Score: 322
Period size: 40 Copynumber: 5.8 Consensus size: 40
56270825 GGATATAGCT
* * *
56270835 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
56270875 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
56270915 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
56270955 ACTCACAC-AATGCCTTC-GGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
** *
56270993 ACTCGCACAAATGCCTTCGGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
56271032 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
56271064 TTATCATCCA
Statistics
Matches: 172, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
38 28 0.16
39 51 0.30
40 91 0.53
41 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:56271009 original size:78 final size:79
Alignment explanation
Indices: 56270835--56271063 Score: 322
Period size: 78 Copynumber: 2.9 Consensus size: 79
56270825 GGATATAGCT
* * * *
56270835 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTAACTCGCACAATTGCCTTCGGGACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCACACAA-TGCCTTCGGGACT
56270899 TAGCCCGGATTTAGTA
64 TAGCCCGGATTTAGTA
56270915 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAATGCCTTC-GGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACTTA
56270979 GCCCGGATTTAGTA
66 GCCCGGATTTAGTA
** * *
56270993 ACTCGCACAAATGCCTTCGGGACTT-GCCCGGAACTAGTCACT-AGCGCAGATGCCTTCGGGACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCA-CACA-ATGCCTTCGGGACT
56271056 TAGCCCGG
64 TAGCCCGG
56271064 TTATCATCCA
Statistics
Matches: 137, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
76 1 0.01
77 17 0.12
78 54 0.39
79 20 0.15
80 43 0.31
81 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (79 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACTTA
GCCCGGATTTAGTA
Found at i:56278986 original size:40 final size:40
Alignment explanation
Indices: 56278942--56279172 Score: 322
Period size: 40 Copynumber: 5.8 Consensus size: 40
56278932 GGATATAGCT
* * *
56278942 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
56278982 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
56279022 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
56279062 ACTCACACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
** *
56279102 ACTCGCACAAATGCCTTCGGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
56279141 ACTAGCGCAGATGCCTTCGAGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
56279173 TTATCATCCA
Statistics
Matches: 173, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 32 0.18
40 139 0.80
41 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:56294651 original size:44 final size:44
Alignment explanation
Indices: 56294586--56294669 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
56294576 ATTGATACTC
* *
56294586 AAAGTCCATGGTTGTACCATGGCAA-TTAAGGAAGAATTGATGGA
1 AAAGTCCATGGTTATAACATGG-AATTTAAGGAAGAATTGATGGA
*
56294630 AAAGTCCAT-GTTCATAACATGGAATTTAAGGAGGAATTGA
1 AAAGTCCATGGTT-ATAACATGGAATTTAAGGAAGAATTGA
56294670 CGATTAAGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
43 5 0.14
44 30 0.86
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.26
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGAATTTAAGGAAGAATTGATGGA
Found at i:56294873 original size:47 final size:47
Alignment explanation
Indices: 56294819--56294929 Score: 195
Period size: 47 Copynumber: 2.4 Consensus size: 47
56294809 TAAGAAAACA
56294819 ATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGACAAGG
1 ATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGACAAGG
* *
56294866 ATACCATGTAAGACCATGTTTGGAATATGGCATTTGGTAAGATAAGG
1 ATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGACAAGG
*
56294913 ATATCATGTAAGACCAT
1 ATACCATGTAAGACCAT
56294930 TCCAAGGCAT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 61 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (47 bp):
ATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGACAAGG
Found at i:56295037 original size:55 final size:54
Alignment explanation
Indices: 56294909--56295105 Score: 238
Period size: 55 Copynumber: 3.6 Consensus size: 54
56294899 TTGGTAAGAT
* * * *
56294909 AAGGATATCATGTAAGACCAT-TCCAAGGCATGGCATTGATAAGTTCTATAAGGT
1 AAGGATACCATGTAAGACCATGT-CAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
56294963 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGCTGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * * *
56295018 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
*
56295071 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
56295106 ATGGTAAGTT
Statistics
Matches: 124, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
52 4 0.03
53 33 0.27
54 40 0.32
55 43 0.35
56 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:56295765 original size:26 final size:26
Alignment explanation
Indices: 56295732--56295783 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
56295722 GGCTAAAGAA
56295732 TGGTGTGTAAATATTTGATAAAGATT
1 TGGTGTGTAAATATTTGATAAAGATT
56295758 TGGTGTGTAAATATTTGATAAAGATT
1 TGGTGTGTAAATATTTGATAAAGATT
56295784 AGCTATTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (26 bp):
TGGTGTGTAAATATTTGATAAAGATT
Found at i:56298263 original size:45 final size:46
Alignment explanation
Indices: 56298210--56298330 Score: 156
Period size: 45 Copynumber: 2.6 Consensus size: 46
56298200 CATGTGAGCT
* * * *
56298210 AGTGTAAGACCATCTCTGGGACATGGCATCGGCTTGATATGTG-TC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATATGTGATA
*
56298255 AGTGTAAGACCATGTTTGGGACATGGCATCGACTCGATATGTGATTA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATATGTGA-TA
*
56298302 AATGTAAGACCATGTC-GGGACATTGGCAT
1 AGTGTAAGACCATGTCTGGGACA-TGGCAT
56298331 TGTATTATGA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
45 39 0.59
46 6 0.09
47 21 0.32
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATATGTGATA
Found at i:56329341 original size:44 final size:44
Alignment explanation
Indices: 56329276--56329393 Score: 159
Period size: 44 Copynumber: 2.7 Consensus size: 44
56329266 CATCGAGGCT
* *
56329276 GATGCCATGTCCCAG-TCAGGTCTTACATTGACACACCTCAAGCC
1 GATGCCATGTCCCAGAT-AGGTCTTACACTAACACACCTCAAGCC
56329320 GATGCCATGTCCCAGATAGGTCTTACACTAACACACCTCAAGCC
1 GATGCCATGTCCCAGATAGGTCTTACACTAACACACCTCAAGCC
* * *
56329364 AATGCCATG-CCCTAGACAGGTCTTATACTA
1 GATGCCATGTCCC-AGATAGGTCTTACACTA
56329394 GCTTGCATAT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
43 3 0.04
44 63 0.94
45 1 0.01
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (44 bp):
GATGCCATGTCCCAGATAGGTCTTACACTAACACACCTCAAGCC
Found at i:56329463 original size:49 final size:49
Alignment explanation
Indices: 56329226--56329493 Score: 157
Period size: 49 Copynumber: 5.7 Consensus size: 49
56329216 ACATCTAAGT
* * * * *
56329226 CGATACCATATCCTAGACAGGTCTTACACTGGCTTCCATACATCGAGGC
1 CGATGCCATGTCCTAGACAGGTCTTACACTAGCTTGCATATATCGAGGC
* * * * ** *
56329275 TGATGCCATGTCCCAGTCAGGTCTT--AC-A--TTGACACACCTC-AAGC
1 CGATGCCATGTCCTAGACAGGTCTTACACTAGCTTG-CATATATCGAGGC
* * * * ** *
56329319 CGATGCCATGTCCCAGATAGGTCTTACACTA----ACACACCTC-AAGC
1 CGATGCCATGTCCTAGACAGGTCTTACACTAGCTTGCATATATCGAGGC
* * * * *
56329363 CAATGCCATGCCCTAGACAGGTCTTATACTAGCTTGCATATCTTGAGGC
1 CGATGCCATGTCCTAGACAGGTCTTACACTAGCTTGCATATATCGAGGC
* *
56329412 CGATGCCATGTCCTAGACAGGTCTTACACTGGCTCT-CATCTATCG-GTGC
1 CGATGCCATGTCCTAGACAGGTCTTACACTAGCT-TGCATATATCGAG-GC
* * *
56329461 CGATGCCATGTCCCAGGCAGGTTTTACACTAGC
1 CGATGCCATGTCCTAGACAGGTCTTACACTAGC
56329494 ACAGACATCG
Statistics
Matches: 173, Mismatches: 35, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
44 65 0.38
45 6 0.03
46 2 0.01
47 3 0.02
48 6 0.03
49 90 0.52
50 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (49 bp):
CGATGCCATGTCCTAGACAGGTCTTACACTAGCTTGCATATATCGAGGC
Found at i:56334345 original size:30 final size:30
Alignment explanation
Indices: 56334311--56334368 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
56334301 TTTTCGGGCA
* *
56334311 TAGGGGTAAAATGATCATTTTGCCAAAGTC
1 TAGGGGCAAAATGATCATTTTACCAAAGTC
*
56334341 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGATCATTTTACCAAAG
56334369 ATGTAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGATCATTTTACCAAAGTC
Found at i:56334780 original size:47 final size:47
Alignment explanation
Indices: 56334708--56335109 Score: 310
Period size: 47 Copynumber: 8.6 Consensus size: 47
56334698 TGATTTATGC
* *
56334708 GCCAGTGTAAGACATGTCTGGGACATGCTTCAGCCACA-TTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTGATGAGA
* * * *
56334754 GCCAGTGTAAGACCATGTGTGGGACATGGCATC-GGCATC--TAGACGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-CAGT-GATGAGA
* * * *
56334802 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCATACT-ATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTGATGAGA
* * * *
56334848 GCCAGTGTAAAACCATGTCTGGGACATGGCATCAG-CATAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACAGTGATGAGA
* * * * * *
56334896 GCTAGTGTAAGAAATGTCTGGGACATGCATCAGCCATACT-TTGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTGATGAGA
* * *
56334942 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGCACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACAGTGATGAGA
* * *
56334990 GCCAATGTAAGACATGTCTGGGACATGCATCGACCTCGACA--GA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-AGC-C-ACAGTGATGAGA
* * * * * *
56335037 GCCAGTGTAAGACGTGTCTGGGACACGCATCAGCTA-AGAG-T-TGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTGATGAGA
*
56335081 GCTAGTGTAAGACATGTCTGGGACATGCA
1 GCCAGTGTAAGACATGTCTGGGACATGCA
56335110 ACAGTATGCG
Statistics
Matches: 283, Mismatches: 52, Indels: 44
0.75 0.14 0.12
Matches are distributed among these distances:
43 1 0.00
44 27 0.10
45 1 0.00
46 58 0.20
47 129 0.46
48 63 0.22
49 1 0.00
50 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTGATGAGA
Found at i:56334872 original size:94 final size:94
Alignment explanation
Indices: 56334711--56335109 Score: 501
Period size: 94 Copynumber: 4.3 Consensus size: 94
56334701 TTTATGCGCC
* * * * *
56334711 AGTGTAAGACATGTCTGGGACATGCTTCAGCCACATTATGAGAGCCAGTGTAAGACCATGTGTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
* * *
56334776 GACATGGCATCGGCATCTAGACGAGTGCT
66 GACATGGCATCAGCATCGAGATGAGTGCT
*
56334805 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAAACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
*
56334870 GACATGGCATCAGCATAGAGATGAGTGCT
66 GACATGGCATCAGCATCGAGATGAGTGCT
* *
56334899 AGTGTAAGAAATGTCTGGGACATGCATCAGCCATACTTTGATAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
* *
56334964 GACATGGCATCGGCA-CAGAGATGAGTGCC
66 GACATGGCATCAGCATC-GAGATGAGTGCT
* * *
56334993 AATGTAAGACATGTCTGGGACATGCATC-GACC-TCGAC-AGAGATAGCCAGTGTAAGA-CGTGT
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CCAT--ACTA-TGATAGCCAGTGTAAGACCATGT
* * *
56335054 CTGGGACA-CGCATCAGC-T-AAGA-GTTGTGCT
62 CTGGGACATGGCATCAGCATCGAGATG-AGTGCT
56335084 AGTGTAAGACATGTCTGGGACATGCA
1 AGTGTAAGACATGTCTGGGACATGCA
56335110 ACAGTATGCG
Statistics
Matches: 271, Mismatches: 27, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
90 1 0.00
91 32 0.12
93 9 0.03
94 211 0.78
95 18 0.07
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCAGCATCGAGATGAGTGCT
Found at i:56340615 original size:47 final size:47
Alignment explanation
Indices: 56340556--56340977 Score: 638
Period size: 47 Copynumber: 9.1 Consensus size: 47
56340546 GAAATGATAG
*
56340556 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
56340603 TAATGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
56340650 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56340697 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56340744 TAAGGCCTAATAGCCGATGTGATGAATGTG-AAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
56340790 TAAGGCCTAATAGCC-ATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
56340836 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
56340883 T-AGGCCTAATGGCCGATGTG-TG-ATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * * *
56340927 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56340974 TAAG
1 TAAG
56340978 TCCCGAAGGG
Statistics
Matches: 350, Mismatches: 20, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
44 22 0.06
45 30 0.09
46 81 0.23
47 217 0.62
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:56340645 original size:23 final size:23
Alignment explanation
Indices: 56340619--56340693 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
56340609 CTAATAGCCG
56340619 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
* ***
56340642 ATGTG-TGATAAG-GCCAAA-TGGCCG
1 ATGTGATGA-ATGTG--AAAGT-GTAT
56340666 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
56340689 ATGTG
1 ATGTG
56340694 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 17 0.46
24 12 0.32
25 4 0.11
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.31
Consensus pattern (23 bp):
ATGTGATGAATGTGAAAGTGTAT
Found at i:56340831 original size:141 final size:142
Alignment explanation
Indices: 56340556--56340972 Score: 623
Period size: 139 Copynumber: 3.0 Consensus size: 142
56340546 GAAATGATAG
* *
56340556 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAATGCCTAATAGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
* *
56340621 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAAGTG
*
56340686 -TATATGTGTGA
131 ATATATGTGTAA
56340697 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
* *
56340762 GTGATGAATGTG-AAGTGTATATATGTGATAAGGCCTAATAGCC-ATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAAGTG
*
56340825 -TATATATGTAA
131 ATATATGTGTAA
* *
56340836 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-AGGCCTAATGGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
* * * * * *
56340900 GTG-TG-ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAAGTG
*
56340963 CATAAATGTG
131 -ATATATGTG
56340973 ATAAGTCCCG
Statistics
Matches: 254, Mismatches: 18, Indels: 9
0.90 0.06 0.03
Matches are distributed among these distances:
136 5 0.02
137 28 0.11
138 36 0.14
139 76 0.30
140 34 0.13
141 75 0.30
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (142 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAAGTG
ATATATGTGTAA
Found at i:56341150 original size:35 final size:37
Alignment explanation
Indices: 56341096--56341172 Score: 113
Period size: 35 Copynumber: 2.1 Consensus size: 37
56341086 CCGAGCTCTA
* *
56341096 AAGACCCGATGACTACGTGTGGGGATT-TGTCC-GGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
56341131 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
56341168 AAGAC
1 AAGAC
56341173 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 24 0.65
36 5 0.14
37 8 0.22
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:56346790 original size:94 final size:93
Alignment explanation
Indices: 56346629--56347267 Score: 720
Period size: 94 Copynumber: 6.8 Consensus size: 93
56346619 ATTGAGATAA
* * * * * * *
56346629 TGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAATGTAAGACCATGTGTGGGA
1 TGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGGGA
* * * * *
56346694 CATGGCATCGGTATCTAGATTAGGGCTAG
66 CATAGCATCGGCA-CTAGATGAGTGCCAG
56346723 TGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGGGA
1 TGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGGGA
* * *
56346788 CATGGCATCAGCA-TAGATATGAGTGCTAG
66 CATAGCATCGGCACTAG--ATGAGTGCCAG
* *
56346817 TGTAAGAAATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTAGGA
1 TGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGGGA
*
56346882 CATAGCATCGGCACAGAGATGAGTGCCAG
66 CATAGCATCGGCAC-TAGATGAGTGCCAG
* * *
56346911 TGTAAGACATGTCTGGGACATGCATCAGCCATACTGTGATAGCCAATGTAAGACCATGTCTAGGA
1 TGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGGGA
*
56346976 CATAGCATCGACAC-AGAAATGAGTGCCAG
66 CATAGCATCGGCACTAG--ATGAGTGCCAG
*
56347005 TGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTAGGA
1 TGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGGGA
*
56347070 CATAGCATCGGCACAGAGATGAGTGCCAG
66 CATAGCATCGGCAC-TAGATGAGTGCCAG
* * * *
56347099 TGTAAGACATGTCTAGGACATGCATCGGCC-TCGAC-AGAGATAGCCAGTGTAAGA-CGTGTCTG
1 TGTAAGACATGTCTGGGACATGCATCAGCCAT--ACTA-TGATAGCCAGTGTAAGACCATGTCTG
* * *
56347161 GGACA-CGCATCGG--CTAAGA-GTTGTGCTAG
63 GGACATAGCATCGGCACT-AGATG-AGTGCCAG
* * *** * * *
56347190 TGTAAGACATGTTTGGGACATGCAACAGCACGCGCATATGAGAGCTAGTGTAAGACCATGTCTGT
1 TGTAAGACATGTCTGGGACATGCATCAGC-CATAC-TATGATAGCCAGTGTAAGACCATGTCTGG
* *
56347255 GATATGGCATCGG
64 GACATAGCATCGG
56347268 TAATATATCT
Statistics
Matches: 480, Mismatches: 46, Indels: 38
0.85 0.08 0.07
Matches are distributed among these distances:
90 1 0.00
91 36 0.08
92 20 0.04
93 19 0.04
94 382 0.80
95 18 0.04
96 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (93 bp):
TGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGGGA
CATAGCATCGGCACTAGATGAGTGCCAG
Found at i:56354758 original size:97 final size:97
Alignment explanation
Indices: 56354644--56354821 Score: 320
Period size: 97 Copynumber: 1.8 Consensus size: 97
56354634 ATAAAACGAG
* * * *
56354644 TGATGTTATGCAAATGTTATGTTTGTAACTTAATTGAGGATGTTTAATCTTTAATTGGATACCAT
1 TGATGATATGCAAATGTTATGTTTGTAACTAAATTGAGGATGTATAATCTTTAATTAGATACCAT
56354709 GTTTTATGCCTTTGATATGAAAAACACAAGTA
66 GTTTTATGCCTTTGATATGAAAAACACAAGTA
56354741 TGATGATATGCAAATGTTATGTTTGTAACTAAATTGAGGATGTATAATCTTTAATTAGATACCAT
1 TGATGATATGCAAATGTTATGTTTGTAACTAAATTGAGGATGTATAATCTTTAATTAGATACCAT
56354806 GTTTTATGCCTTTGAT
66 GTTTTATGCCTTTGAT
56354822 GTTGTATAAG
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
97 77 1.00
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.42
Consensus pattern (97 bp):
TGATGATATGCAAATGTTATGTTTGTAACTAAATTGAGGATGTATAATCTTTAATTAGATACCAT
GTTTTATGCCTTTGATATGAAAAACACAAGTA
Found at i:56358023 original size:68 final size:64
Alignment explanation
Indices: 56357905--56358061 Score: 163
Period size: 68 Copynumber: 2.4 Consensus size: 64
56357895 TTCACTTGGA
* * *
56357905 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTACACATAGT
1 ACCACACATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGATGTACACATAGC
* * ** * *
56357969 ATCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTAC-ACATGATGTGCACT
1 ACCACACATGCGACCTAGCTACAT-AT-A--TCCCGTAGCTCTCTTGT-CTACATGATGTACACA
56358033 TAGC
61 TAGC
* *
56358037 ACCATACATGTGACCTAGCTACATA
1 ACCACACATGCGACCTAGCTACATA
56358062 CTATTTGTAT
Statistics
Matches: 76, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
64 22 0.29
65 2 0.03
66 1 0.01
67 1 0.01
68 49 0.64
69 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (64 bp):
ACCACACATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGATGTACACATAGC
Found at i:56361395 original size:43 final size:42
Alignment explanation
Indices: 56361334--56361495 Score: 161
Period size: 43 Copynumber: 3.8 Consensus size: 42
56361324 AATGCTAACA
* *
56361334 TCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTG
1 TCCCAGACGTGGTCTTACACGAAATCACATATCGATGCCA-TG
*
56361377 TCCCAGACAG-GGTCTTACACAAAAT-A-ATATACGATGCCGATG
1 TCCCAGAC-GTGGTCTTACACGAAATCACATAT-CGATGCC-ATG
* * * *
56361419 TCCTAGACATGGTCTTACA-GTTAAATCTCAAATCGATGCCAATG
1 TCCCAGACGTGGTCTTACACG--AAATCACATATCGATGCC-ATG
*
56361463 TCCCAGGCGTGGTCTTACACGAAATCACATATC
1 TCCCAGACGTGGTCTTACACGAAATCACATATC
56361496 AAAATCCTAT
Statistics
Matches: 96, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
41 4 0.04
42 26 0.27
43 35 0.36
44 27 0.28
45 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (42 bp):
TCCCAGACGTGGTCTTACACGAAATCACATATCGATGCCATG
Found at i:56361476 original size:44 final size:43
Alignment explanation
Indices: 56361334--56361481 Score: 135
Period size: 44 Copynumber: 3.4 Consensus size: 43
56361324 AATGCTAACA
* * *
56361334 TCCCAGACGTGGTCTTACATGT-AATCACATATCGATGCCACTG
1 TCCCAGACGTGGTCTTACAT-TAAATCTCAAATCGATGCCAATG
* * *
56361377 TCCCAGACAG-GGTCTTACA-CAAA-AT-AATATACGATGCCGATG
1 TCCCAGAC-GTGGTCTTACATTAAATCTCAA-AT-CGATGCCAATG
* *
56361419 TCCTAGACATGGTCTTACAGTTAAATCTCAAATCGATGCCAATG
1 TCCCAGACGTGGTCTTACA-TTAAATCTCAAATCGATGCCAATG
*
56361463 TCCCAGGCGTGGTCTTACA
1 TCCCAGACGTGGTCTTACA
56361482 CGAAATCACA
Statistics
Matches: 82, Mismatches: 14, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 27 0.33
43 17 0.21
44 30 0.37
45 3 0.04
46 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
TCCCAGACGTGGTCTTACATTAAATCTCAAATCGATGCCAATG
Found at i:56368471 original size:42 final size:43
Alignment explanation
Indices: 56368410--56368519 Score: 111
Period size: 43 Copynumber: 2.6 Consensus size: 43
56368400 TGTGTTATCG
** * * *
56368410 TGTAAGACCACACCGGGGATGTTGGCAT-GATATATT-ATTTCG
1 TGTAAGACCACGTCTGGGATGTTGGCATCGATAT-TTGATTACA
56368452 TGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAT-GTTGGCATCGATATTTGATTACA
*
56368495 TGTAAGACCACGTCTGGGACGTTGG
1 TGTAAGACCACGTCTGGGATGTTGG
56368520 TATTATACGA
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
41 1 0.02
42 24 0.43
43 30 0.54
44 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGATGTTGGCATCGATATTTGATTACA
Found at i:56395729 original size:39 final size:39
Alignment explanation
Indices: 56395686--56395922 Score: 368
Period size: 39 Copynumber: 6.1 Consensus size: 39
56395676 ATTGTATTAT
* * *
56395686 CAGCACAAAGCCTGCGAGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
56395725 CAGCACGAAGCCTGCGGGAC-TTAGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTA-GCCCGGATACATTTC
**
56395764 CAGCACGAAGCCTGCGGGACTTTAGCCTAGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * * *
56395803 CAGCACGAAGCCTACGGGACTTTGGCCTGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
56395842 CAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
56395881 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
56395920 CAG
1 CAG
56395923 TGTCTTGCAT
Statistics
Matches: 181, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
38 3 0.02
39 175 0.97
40 3 0.02
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.21
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:56408645 original size:55 final size:53
Alignment explanation
Indices: 56408519--56408650 Score: 147
Period size: 53 Copynumber: 2.5 Consensus size: 53
56408509 TTACCATTTT
* * * *
56408519 CATGTCTTGACATGGTCTTACGTTGTATCCTTGCCTTATGAACTCACCATTGC
1 CATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATGC
* * * ** * *
56408572 CATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGTATTTTATCAATGC
1 CATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTAT-G-AACTCACCAATGC
56408627 CATGTCTTGACATGGTCTTACATG
1 CATGTCTTGACATGGTCTTACATG
56408651 ATTTCCTTGC
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 33 0.52
54 1 0.02
55 30 0.47
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.39
Consensus pattern (53 bp):
CATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATGC
Found at i:56409411 original size:24 final size:24
Alignment explanation
Indices: 56409384--56409449 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
56409374 AATAGGAGGT
***
56409384 TGGAGTGATTTATGGAGTGTATCA
1 TGGAGTGATTTATGGAGAAAATCA
*
56409408 TGGAGAGATATTA-GGAGAAAATCA
1 TGGAGTGAT-TTATGGAGAAAATCA
* *
56409432 AGCAGTGATTTATGGAGA
1 TGGAGTGATTTATGGAGA
56409450 GATTTAAGGA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
23 3 0.09
24 27 0.82
25 3 0.09
ACGTcount: A:0.35, C:0.05, G:0.32, T:0.29
Consensus pattern (24 bp):
TGGAGTGATTTATGGAGAAAATCA
Found at i:56410867 original size:27 final size:27
Alignment explanation
Indices: 56410783--56410853 Score: 108
Period size: 27 Copynumber: 2.6 Consensus size: 27
56410773 CAAACTATTT
* *
56410783 AAATTACTGAAATACCCCTGATTTGTG
1 AAATTACTGAAATACCCCTGACTTGTA
56410810 AAATTA-TCGAAATACCCCTGACTTGTA
1 AAATTACT-GAAATACCCCTGACTTGTA
56410837 AAATTACTGAAATACCC
1 AAATTACTGAAATACCC
56410854 TTGTAGTGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 1 0.03
27 38 0.95
28 1 0.03
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCCTGACTTGTA
Found at i:56426005 original size:47 final size:47
Alignment explanation
Indices: 56425939--56426317 Score: 616
Period size: 47 Copynumber: 8.1 Consensus size: 47
56425929 GAAATGATAG
56425939 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
56425986 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTATATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
56426033 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56426080 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
56426127 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56426174 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56426221 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
56426267 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56426314 TAAG
1 TAAG
56426318 TCCCGAAGGG
Statistics
Matches: 312, Mismatches: 19, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
46 40 0.13
47 272 0.87
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:56426492 original size:37 final size:37
Alignment explanation
Indices: 56426436--56426514 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
56426426 CCGAGCTCTA
* * *
56426436 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
56426473 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
56426510 AAGAC
1 AAGAC
56426515 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:56432908 original size:53 final size:55
Alignment explanation
Indices: 56432845--56432989 Score: 170
Period size: 53 Copynumber: 2.7 Consensus size: 55
56432835 TTCCTTTTTA
* * *
56432845 AACTTCCCATTGCCATGTCTTGATATGGTCTTACATGGTATCATTGCCTTAT-G-
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGGATCATTGCCTTATAGT
* * *
56432898 AACTTACCATTGCCATGCCTT-AGCATGGTCTTACATGGGATCTTTGTCTTATAGT
1 AACTTACCATTGCCATGTCTTGA-CATGGTCTTACATGGGATCATTGCCTTATAGT
** * *
56432953 AGTTTATCAATGCCATGTCTTGACATGGTCTTACATG
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATG
56432990 ATTTCCTTTC
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
53 44 0.57
54 1 0.01
55 30 0.39
56 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (55 bp):
AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGGATCATTGCCTTATAGT
Found at i:56433034 original size:54 final size:55
Alignment explanation
Indices: 56432844--56433040 Score: 163
Period size: 53 Copynumber: 3.6 Consensus size: 55
56432834 TTTCCTTTTT
* * * ** * *
56432844 AAACTTCCCATTGCCATGTCTTGATATGGTCTTACATG-GTATCATTGCCTTAT-G
1 AAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGAG-ATCTTTGTCTTATAG
* * *
56432898 -AACTTACCATTGCCATGCCTTAGCATGGTCTTACATGGGATCTTTGTCTTATAG
1 AAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGAGATCTTTGTCTTATAG
* ** * * * **
56432952 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTTCGT-TT-TA-
1 AAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGAGAT-CTTT-GTCTTATAG
56433006 AAACTTACCAATGCCATGCCTTGGCATGGTCTTAC
1 AAACTTACCAATGCCATGCCTTGGCATGGTCTTAC
56433041 TCGGTATGTT
Statistics
Matches: 115, Mismatches: 23, Indels: 10
0.78 0.16 0.07
Matches are distributed among these distances:
53 43 0.37
54 31 0.27
55 33 0.29
56 6 0.05
57 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (55 bp):
AAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGAGATCTTTGTCTTATAG
Found at i:56438255 original size:93 final size:93
Alignment explanation
Indices: 56438143--56438313 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
56438133 GCCCATAAGT
* *
56438143 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56438208 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
56438236 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
56438301 CGAGTTCGGATGC
66 CGAGCTCGGATGC
56438314 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:56438310 original size:46 final size:46
Alignment explanation
Indices: 56438135--56438310 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
56438125 TGTAACCCGC
* *
56438135 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
56438181 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
56438227 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
56438274 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
56438311 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:56440705 original size:15 final size:15
Alignment explanation
Indices: 56440675--56440724 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
56440665 CAAAGATAAC
*
56440675 AAGAAAACCA-AATA
1 AAGAAATCCAGAATA
56440689 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
56440704 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
56440719 AAGAAA
1 AAGAAA
56440725 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 9 0.29
15 22 0.71
ACGTcount: A:0.62, C:0.12, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:56440733 original size:15 final size:15
Alignment explanation
Indices: 56440675--56440733 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
56440665 CAAAGATAAC
*
56440675 AAGAAAACCAA-ATA
1 AAGAAATCCAAGATA
56440689 AAGAAATCC-AGAATA
1 AAGAAATCCAAG-ATA
* *
56440704 AAGAGATCCAGGATA
1 AAGAAATCCAAGATA
*
56440719 AAGAAACCCAAGATA
1 AAGAAATCCAAGATA
56440734 CGATACTATG
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
13 1 0.03
14 8 0.22
15 26 0.72
16 1 0.03
ACGTcount: A:0.59, C:0.15, G:0.15, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:56443754 original size:93 final size:93
Alignment explanation
Indices: 56443642--56443812 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
56443632 GCCCATAAGT
* *
56443642 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56443707 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
56443735 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
56443800 CGAGTTCGGATGC
66 CGAGCTCGGATGC
56443813 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:56443809 original size:46 final size:46
Alignment explanation
Indices: 56443634--56443809 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
56443624 TGTAACCCGC
* *
56443634 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
56443680 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
56443726 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
56443773 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
56443810 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:56447478 original size:21 final size:22
Alignment explanation
Indices: 56447438--56447479 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
56447428 GCCTAAATGG
56447438 TCACACGGGCGTGTTGCCCCTC
1 TCACACGGGCGTGTTGCCCCTC
56447460 TCACACGGGCGTG-TGCCCCT
1 TCACACGGGCGTGTTGCCCCT
56447480 ATGTTAAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.10, C:0.40, G:0.29, T:0.21
Consensus pattern (22 bp):
TCACACGGGCGTGTTGCCCCTC
Found at i:56448207 original size:23 final size:23
Alignment explanation
Indices: 56448155--56448207 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
56448145 TTTAGCCATG
56448155 TGATATGGCTTTGTTTTGGTTGA
1 TGATATGGCTTTGTTTTGGTTGA
**
56448178 TCTTATGG-TTTGATTTTGGTAT-A
1 TGATATGGCTTTG-TTTTGGT-TGA
56448201 TGATATG
1 TGATATG
56448208 TGATGCAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
22 4 0.17
23 19 0.79
24 1 0.04
ACGTcount: A:0.17, C:0.04, G:0.26, T:0.53
Consensus pattern (23 bp):
TGATATGGCTTTGTTTTGGTTGA
Found at i:56451837 original size:43 final size:42
Alignment explanation
Indices: 56451780--56451942 Score: 150
Period size: 43 Copynumber: 3.8 Consensus size: 42
56451770 TCGAGATGTT
* *
56451780 ATTACATGTTAGACCATCTCTGGGACATTGGCATTGTATTGA
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
* * *
56451822 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTTAATCA
1 -ATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATTGA
* * * * * *
56451866 ATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATGTT
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TG-A
* * *
56451909 ATAACATGTAAGACCATATCTGGGATA-TGGCATT
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATT
56451943 ATATGAGCTT
Statistics
Matches: 98, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 86 0.88
44 4 0.04
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.33
Consensus pattern (42 bp):
ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
Found at i:56464323 original size:43 final size:43
Alignment explanation
Indices: 56464265--56464413 Score: 126
Period size: 43 Copynumber: 3.5 Consensus size: 43
56464255 CAATGCCAAC
*
56464265 GTCCCAGAC-GTGGTCTTACATGTAATTCAATATCGATGCCTCT
1 GTCCCAGACAG-GGTCTTACATGTAATTCAATATCGATGCCTAT
*** *
56464308 GTCCCAGACAGGGTCTTACACAAAATT-AGATA-CGATGCCGAT
1 GTCCCAGACAGGGTCTTACATGTAATTCA-ATATCGATGCCTAT
* * * *
56464350 GTCCCAGACATGGTCTTACATGTGAATCTCAA-ATCAAAGCCTGT
1 GTCCCAGACAGGGTCTTACATGT-AAT-TCAATATCGATGCCTAT
** *
56464394 GTCTGAGACATGGTCTTACA
1 GTCCCAGACAGGGTCTTACA
56464414 CGATATTTCA
Statistics
Matches: 85, Mismatches: 15, Indels: 11
0.77 0.14 0.10
Matches are distributed among these distances:
42 28 0.33
43 29 0.34
44 27 0.32
45 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTTACATGTAATTCAATATCGATGCCTAT
Found at i:56469225 original size:47 final size:49
Alignment explanation
Indices: 56469174--56469352 Score: 138
Period size: 47 Copynumber: 3.8 Consensus size: 49
56469164 AATTGACGGT
* *
56469174 TAAGGATACCATGTAAGGCCATGTCAAGACATGGCATCAGCA-T-TGAC
1 TAAGGATACCATGTAAGACCATGTCAAGACATGGCATCAGCACTAAGAC
** ** **
56469221 TAAGGACT-CCATGTAAGACCACATCAAGATGTGGCATTGGCACTAAGAC
1 TAAGGA-TACCATGTAAGACCATGTCAAGACATGGCATCAGCACTAAGAC
*** ** *
56469270 -AAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTG--GTAAGA-
1 TAAGGATACCATGTAAGACCATGTCAAG-ACATGGCATCAGCACTAAGAC
* * *
56469316 TAAGGATATCATGTAAGACCATGCCAAGGCATGGCAT
1 TAAGGATACCATGTAAGACCATGTCAAGACATGGCAT
56469353 TGATAAGTTC
Statistics
Matches: 103, Mismatches: 23, Indels: 13
0.74 0.17 0.09
Matches are distributed among these distances:
46 8 0.08
47 61 0.59
48 22 0.21
49 12 0.12
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (49 bp):
TAAGGATACCATGTAAGACCATGTCAAGACATGGCATCAGCACTAAGAC
Found at i:56469381 original size:54 final size:54
Alignment explanation
Indices: 56469317--56469578 Score: 348
Period size: 54 Copynumber: 4.9 Consensus size: 54
56469307 TTGGTAAGAT
56469317 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* *
56469371 AAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGA
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* * * *
56469425 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTAATATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTATAAGGC
** * *
56469480 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTT-TATAAGGC
1 -AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* * * * * *
56469533 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC
56469579 AAAAAGGAAA
Statistics
Matches: 185, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
52 4 0.02
53 42 0.23
54 95 0.51
55 40 0.22
56 4 0.02
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
Found at i:56472536 original size:29 final size:29
Alignment explanation
Indices: 56472473--56472540 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
56472463 TAATCAACCA
56472473 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
56472502 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
56472531 CGCACACTTA
1 CGCACACTTA
56472541 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:56472681 original size:29 final size:30
Alignment explanation
Indices: 56472642--56472720 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
56472632 CTTAATAATC
56472642 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
56472672 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
56472701 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
56472721 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:56480416 original size:31 final size:31
Alignment explanation
Indices: 56480381--56480478 Score: 187
Period size: 31 Copynumber: 3.2 Consensus size: 31
56480371 TTTCGAAAGT
56480381 AAACCAAAATATCATCTATAAATACAACCAC
1 AAACCAAAATATCATCTATAAATACAACCAC
56480412 AAACCAAAATATCATCTATAAATACAACCAC
1 AAACCAAAATATCATCTATAAATACAACCAC
*
56480443 AAACCAAAATATCATCTATAAATACCACCAC
1 AAACCAAAATATCATCTATAAATACAACCAC
56480474 AAACC
1 AAACC
56480479 TGTCTAAATA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
31 66 1.00
ACGTcount: A:0.54, C:0.28, G:0.00, T:0.18
Consensus pattern (31 bp):
AAACCAAAATATCATCTATAAATACAACCAC
Found at i:56482708 original size:40 final size:39
Alignment explanation
Indices: 56482518--56482701 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
56482508 CGAATGATGT
* * * * *
56482518 CCGGGCTAAGTCCCGAAGGC-TTTATGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
56482558 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
56482598 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
56482636 TCCGAGTTAAGTCCCGAACGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
56482677 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
56482702 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:56482724 original size:79 final size:79
Alignment explanation
Indices: 56482570--56482724 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
56482560 GGACTAAGAT
* * **
56482570 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAACGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
56482635 ATCCGAGTTAAGTC
66 ATCCGAGTTAAGTC
* *
56482649 CCGAACGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAACGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
56482712 TATATCCG-GTTAA
63 TAAATCCGAGTTAA
56482725 ATTCTGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.59
80 25 0.38
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAACGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGAGTTAAGTC
Found at i:56491652 original size:9 final size:9
Alignment explanation
Indices: 56491638--56491664 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
56491628 TTGTTGTGAG
56491638 ATTTTGTGT
1 ATTTTGTGT
56491647 ATTTTGTGT
1 ATTTTGTGT
56491656 ATTTTGTGT
1 ATTTTGTGT
56491665 TTTATGCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.22, T:0.67
Consensus pattern (9 bp):
ATTTTGTGT
Found at i:56504971 original size:21 final size:22
Alignment explanation
Indices: 56504927--56504968 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
56504917 CGATGGATGC
*
56504927 GCATTGAGTTATAATATGTAAT
1 GCATTGAGTTATAAAATGTAAT
56504949 GCATT-AGTTAGTAAAATGTA
1 GCATTGAGTTA-TAAAATGTA
56504969 TGCCATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (22 bp):
GCATTGAGTTATAAAATGTAAT
Found at i:56504975 original size:22 final size:23
Alignment explanation
Indices: 56504923--56504975 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
56504913 TAAACGATGG
*
56504923 ATGCGCATTGAGTTATAATATGTA
1 ATGC-CATTGAGTTATAAAATGTA
56504947 ATG-CATT-AGTTAGTAAAATGT-
1 ATGCCATTGAGTTA-TAAAATGTA
56504968 ATGCCATT
1 ATGCCATT
56504976 TATATGTGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 8 0.31
22 15 0.58
24 3 0.12
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (23 bp):
ATGCCATTGAGTTATAAAATGTA
Found at i:56506538 original size:47 final size:47
Alignment explanation
Indices: 56506484--56506677 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
56506474 TTAGGATTTT
** * *
56506484 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
56506531 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
56506578 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
56506625 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
56506672 ATGTGA
1 ATGTGA
56506678 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:56506584 original size:22 final size:22
Alignment explanation
Indices: 56506513--56506584 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
56506503 GTATATATGA
56506513 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
56506535 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
56506560 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
56506582 GAT
1 GAT
56506585 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:56506633 original size:25 final size:25
Alignment explanation
Indices: 56506558--56506633 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
56506548 ATGCATATAT
56506558 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
56506583 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
56506605 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
56506630 GTGA
1 GTGA
56506634 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:56506805 original size:52 final size:48
Alignment explanation
Indices: 56506647--56506833 Score: 277
Period size: 48 Copynumber: 3.8 Consensus size: 48
56506637 TGAACATGCA
*
56506647 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
56506695 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
56506743 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG--A-A-ATATGTATGAGATATG
*
56506795 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
56506834 GGCGATGTGC
Statistics
Matches: 125, Mismatches: 8, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
47 1 0.01
48 79 0.63
49 1 0.01
50 2 0.02
51 1 0.01
52 40 0.32
53 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:56506817 original size:100 final size:96
Alignment explanation
Indices: 56506648--56506833 Score: 284
Period size: 100 Copynumber: 1.9 Consensus size: 96
56506638 GAACATGCAT
*
56506648 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAAATGTATATGTGGTAAAGCCGA
56506713 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
* *
56506744 ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATATGAGATATGTATATGTGGTAAA
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG--A-A-ATATATATGAGAAATGTATATGTGGTAAA
*
56506808 GCCGAATGGCTAGTGTGAAATATGTA
61 GCCGAATGGCTAATGTGAAATATGTA
56506834 GGCGATGTGC
Statistics
Matches: 81, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
95 1 0.01
96 26 0.32
98 1 0.01
99 1 0.01
100 52 0.64
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAAATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:56507124 original size:37 final size:37
Alignment explanation
Indices: 56506979--56507123 Score: 254
Period size: 37 Copynumber: 3.9 Consensus size: 37
56506969 GGAAATATAT
56506979 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
56507016 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
56507053 TTCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
56507090 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
56507124 TCGTCTGAGC
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:56509733 original size:17 final size:17
Alignment explanation
Indices: 56509702--56509734 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
56509692 TAACGCAAGG
56509702 GACCTTTTCATGATCCC
1 GACCTTTTCATGATCCC
56509719 GACCTGTTTCA-GATCC
1 GACCT-TTTCATGATCC
56509735 GTCACTGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.18, C:0.33, G:0.15, T:0.33
Consensus pattern (17 bp):
GACCTTTTCATGATCCC
Found at i:56515068 original size:41 final size:41
Alignment explanation
Indices: 56515011--56515092 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
56515001 ATGATTAAAG
56515011 AATGGCAGATGAATACTTGGTAATGATTAGCTTATAATATA
1 AATGGCAGATGAATACTTGGTAATGATTAGCTTATAATATA
* *
56515052 AATGGCAGGTGAATACTTGGTAATGATTAGCTTATGATATA
1 AATGGCAGATGAATACTTGGTAATGATTAGCTTATAATATA
56515093 GCTAAACAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (41 bp):
AATGGCAGATGAATACTTGGTAATGATTAGCTTATAATATA
Found at i:56524963 original size:50 final size:49
Alignment explanation
Indices: 56524846--56525021 Score: 167
Period size: 50 Copynumber: 3.5 Consensus size: 49
56524836 TAAGGTCGCA
*** * * *
56524846 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTAT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTA-CC--AGACTGTAGGTCACG
* **
56524897 TGTGTAGTACTAAGTGCAGGCTGCTACATGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACT-GT-AGGTCACG
* * * * *
56524947 TGTGTAGTACTAAGTGCGGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTAGGTCACG
56524996 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
56525022 TGCGTACCAG
Statistics
Matches: 103, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
47 1 0.01
48 3 0.03
49 30 0.29
50 40 0.39
51 29 0.28
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTAGGTCACG
Found at i:56531585 original size:41 final size:42
Alignment explanation
Indices: 56531473--56531610 Score: 152
Period size: 43 Copynumber: 3.3 Consensus size: 42
56531463 CACACATATC
* * *
56531473 ATACAATGCCAACGTCCCAAACATGGTCTTACATGTAATCAC
1 ATACAATGCCAATGTCCCAAACATGGTCTTACACGTAATCAA
* * * * *
56531515 ATATCAATGCCACTATCCTAGACAGGGTCTTACACG-AATCAA
1 ATA-CAATGCCAATGTCCCAAACATGGTCTTACACGTAATCAA
* * *
56531557 ATACGATGCCAATGTCCCAAACATGGTCTTACATGTAATCAC
1 ATACAATGCCAATGTCCCAAACATGGTCTTACACGTAATCAA
56531599 ATATCAATGCCA
1 ATA-CAATGCCA
56531611 CTATCCTAGC
Statistics
Matches: 76, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
41 25 0.33
42 19 0.25
43 32 0.42
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.25
Consensus pattern (42 bp):
ATACAATGCCAATGTCCCAAACATGGTCTTACACGTAATCAA
Found at i:56534591 original size:46 final size:46
Alignment explanation
Indices: 56534439--56534647 Score: 146
Period size: 46 Copynumber: 4.5 Consensus size: 46
56534429 TGTGTAAGCT
* * *
56534439 AGTGTAAGACATGTCTGGGACATACATCAGCCA-C-ATTATGAG-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCATCGA-GA-GAGTAGCC
* *
56534485 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAAGAGT-GCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAG-AGAGTAGCC
* * * * *
56534533 AGTGTAAAACATGTATGGGACATGCTTCGGCCTCGAG-GCGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAGAGT-AGCC
* * **
56534579 AGTGTAAGACATGTCTAGGACATGCATCGGC-TACGAGA-TGT-GTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCAT-CGAGAGAGTAGCC
*
56534623 AGTGTAAGACCATGCCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
56534648 GCATTGACAC
Statistics
Matches: 131, Mismatches: 21, Indels: 23
0.75 0.12 0.13
Matches are distributed among these distances:
44 13 0.10
45 14 0.11
46 55 0.42
47 30 0.23
48 17 0.13
49 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAGAGTAGCC
Found at i:56546639 original size:40 final size:40
Alignment explanation
Indices: 56546584--56546767 Score: 282
Period size: 40 Copynumber: 4.6 Consensus size: 40
56546574 CGGATGATAA
* *
56546584 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
56546624 CCGGGCTAAGTCCCGAA-GCATTTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
56546663 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
56546703 CCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTTACTTTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC-TAAAT
56546743 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
56546768 AGCAAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 35 0.26
40 96 0.72
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:56546715 original size:79 final size:80
Alignment explanation
Indices: 56546581--56546767 Score: 315
Period size: 79 Copynumber: 2.4 Consensus size: 80
56546571 ATTCGGATGA
*
56546581 TAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAATCCGGGCTAAGTCCCG-AAGCAT
1 TAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATCCGGGCTAAGTCCCGAAAGCAT
56546645 TTGTGCGAGTTA-TT
66 TTGTGCGAGTTACTT
* * *
56546659 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAAGCA
1 -TAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATCCGGGCTAAGTCCCGAAAGCA
56546724 TTTGTGCGAGTTACTT
65 TTTGTGCGAGTTACTT
56546740 TAACCGGGCTAAGTCCCGAAGGCATTTG
1 TAACCGGGCTAAGTCCCGAAGGCATTTG
56546768 AGCAAGTAGC
Statistics
Matches: 101, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
79 54 0.53
80 45 0.45
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
TAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATCCGGGCTAAGTCCCGAAAGCAT
TTGTGCGAGTTACTT
Found at i:56546781 original size:80 final size:79
Alignment explanation
Indices: 56546580--56546799 Score: 304
Period size: 79 Copynumber: 2.8 Consensus size: 79
56546570 TATTCGGATG
* *
56546580 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTAAATCCGGGCTAAGTCCCGAAGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTATATCCGGGCTAAGTCCCGAAGCA
56546644 TTTGTGCGAGTTATT
65 TTTGTGCGAGTTATT
* *
56546659 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAAGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATATCCGGGCTAAGTCCCG-AAGC
56546723 ATTTGTGCGAGTTACTT
64 ATTTGTGCGAGTTA-TT
* * * *
56546740 -TAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATATTC-GGCTAAATTCCGAAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGCTAAGTCCCGAAG
56546800 GTACTTGGTT
Statistics
Matches: 127, Mismatches: 9, Indels: 11
0.86 0.06 0.07
Matches are distributed among these distances:
78 3 0.02
79 65 0.51
80 57 0.45
81 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGCTAAGTCCCGAAGCAT
TTGTGCGAGTTATT
Found at i:56546798 original size:119 final size:119
Alignment explanation
Indices: 56546584--56546800 Score: 296
Period size: 119 Copynumber: 1.8 Consensus size: 119
56546574 CGGATGATAA
* * *
56546584 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAATCCGGGCTAAGTCCCGAAGCATTTGT
1 CCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTGACTAAATCCGGGCTAAGTCCCGAAGCATTTGA
* * *
56546649 GCGAGTTATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
66 GCAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
56546703 CCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTTACTTTAA-CCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTGAC-TAAATCCGGGCTAAGTCCCGAA-GCATTT
* *
56546767 GAGCAAG-TAGCTATATTC-GGCTAAATTCCGAAGG
64 GAGCAAGTTA-CTATATCCGGGCTAAATCCCGAAGG
56546801 TACTTGGTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
119 65 0.76
120 20 0.24
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTGACTAAATCCGGGCTAAGTCCCGAAGCATTTGA
GCAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:56552063 original size:48 final size:48
Alignment explanation
Indices: 56551994--56552610 Score: 1031
Period size: 48 Copynumber: 12.9 Consensus size: 48
56551984 ATATACACAC
* * * *
56551994 ATCTCCTACATATTGCTCATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
56552042 CTCTCATACATATTTCACATTAGCCATTCGGATTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
56552090 ATCTCATACATATTTCATATTAGCCATTCGGCTTTATCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56552138 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
56552186 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATAT--AT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56552232 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
56552280 ATATCATACATATTTCACACTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
56552328 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56552376 GTCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATAC--AT
*
56552426 ATCTCATACATATTTCACATTATCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56552474 GTCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56552522 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56552570 ATCTCAAACATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
56552611 CATGTATATA
Statistics
Matches: 538, Mismatches: 27, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
46 46 0.09
48 446 0.83
50 46 0.09
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:56556177 original size:57 final size:57
Alignment explanation
Indices: 56556048--56556177 Score: 149
Period size: 57 Copynumber: 2.3 Consensus size: 57
56556038 GAAACACACT
* *
56556048 TCGCATACACAGTGCC-CACTGACTGATTTCGCACACATAGTGCTCGATTAAAGAAC
1 TCGCACACACAGTGCCTCACTGACTGATCTCGCACACATAGTGCTCGATTAAAGAAC
* * * * *
56556104 TCGCACACATATTGCCTCAACT-ACTGATCTGGCACACATAGTGCTC-AGTTGAAGAGC
1 TCGCACACACAGTGCCTC-ACTGACTGATCTCGCACACATAGTGCTCGA-TTAAAGAAC
*
56556161 TTGCACACACAGTGCCT
1 TCGCACACACAGTGCCT
56556178 TATAATTCCA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
56 14 0.23
57 44 0.72
58 3 0.05
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (57 bp):
TCGCACACACAGTGCCTCACTGACTGATCTCGCACACATAGTGCTCGATTAAAGAAC
Found at i:56556258 original size:40 final size:40
Alignment explanation
Indices: 56556185--56556295 Score: 130
Period size: 34 Copynumber: 3.0 Consensus size: 40
56556175 CCTTATAATT
* *
56556185 CCAGCACGAATGC-CTTCGAGG-TTTAGCCTGGATATATCA
1 CCAGCACGAATGCTCTTCG-GGACTTAGCCCGGATATATCA
56556224 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
*
56556264 CTAG--C--A--CTCTTCGGGACTTAGCCCGGATATAT
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
56556296 AACTCTCAAT
Statistics
Matches: 67, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
34 26 0.39
36 1 0.01
38 1 0.01
39 15 0.22
40 24 0.36
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
Found at i:56557761 original size:48 final size:48
Alignment explanation
Indices: 56557690--56558134 Score: 736
Period size: 48 Copynumber: 9.4 Consensus size: 48
56557680 ATATACACAC
* * * *
56557690 ATCTCCTACATATTGCTCATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
56557738 CTCTCATACATATTTCACATTAGCCATTCGGATTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56557786 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56557834 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
56557882 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATAT--AT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
56557928 ATCTCATACATATTTCAGATTAGCCATTCGGCTTTA-C-CATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56557974 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
56558022 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56558070 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56558118 CTCTCATACATATTTCA
1 ATCTCATACATATTTCA
56558135 TGTGACAACC
Statistics
Matches: 375, Mismatches: 18, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
44 5 0.01
45 1 0.00
46 74 0.20
47 1 0.00
48 294 0.78
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:56558016 original size:188 final size:190
Alignment explanation
Indices: 56557690--56558134 Score: 768
Period size: 188 Copynumber: 2.3 Consensus size: 190
56557680 ATATACACAC
* * * * *
56557690 ATCTCCTACATATTGCTCATTAGCCATTCGGCTTTACCAAATATACATCTCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATAT--ATATCTCATACATATTTCA
56557755 CATTAGCCATTCGGATTTACCACATATATATATCTCATACATATTTCATATTAGCCATTCGGCTT
64 CATTAGCCATTCGGATTTACCACATATATATATCTCATACATATTTCATATTAGCCATTCGGCTT
*
56557820 TACCACATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
129 TACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56557882 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATATCTCATACATATTTCAGA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATATCTCATACATATTTCACA
*
56557947 TTAGCCATTCGGCTTTA-C-CATATATATATCTCATACATATTTCATATTAGCCATTCGGCTTTA
66 TTAGCCATTCGGATTTACCACATATATATATCTCATACATATTTCATATTAGCCATTCGGCTTTA
56558010 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
131 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
56558070 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATATCTCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATA--TCTCATACATATTTCA
56558135 TGTGACAACC
Statistics
Matches: 243, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
188 151 0.62
189 1 0.00
190 51 0.21
192 40 0.16
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (190 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATATCTCATACATATTTCACA
TTAGCCATTCGGATTTACCACATATATATATCTCATACATATTTCATATTAGCCATTCGGCTTTA
CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:56560069 original size:79 final size:81
Alignment explanation
Indices: 56559933--56560117 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
56559923 TTGAATGATG
*
56559933 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
56559997 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
56560012 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
56560074 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
56560092 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
56560118 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:56560131 original size:40 final size:40
Alignment explanation
Indices: 56559934--56560117 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
56559924 TGAATGATGT
* * * *
56559934 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
56559974 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
56560014 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
56560052 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
56560093 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
56560118 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:56560139 original size:79 final size:79
Alignment explanation
Indices: 56559986--56560150 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
56559976 GGACTAAGAT
* **
56559986 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
56560051 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
56560065 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
56560128 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
56560144 CCGAAGG
1 CCGAAGG
56560151 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:56568142 original size:40 final size:39
Alignment explanation
Indices: 56568059--56568242 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 39
56568049 TTGAATGATG
* * * *
56568059 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
56568098 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
56568138 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
56568177 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
56568218 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
56568243 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 45 0.36
40 72 0.57
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:56568194 original size:79 final size:80
Alignment explanation
Indices: 56568059--56568242 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 80
56568049 TTGAATGATG
* *
56568059 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
56568123 GTGCGAGATACTA-A
66 GTGCGAGATACTATA
* * * **
56568137 TTCCGGGCTAAGCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
56568200 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* *
56568217 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
56568243 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
78 1 0.01
79 68 0.75
80 22 0.24
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTATA
Found at i:56568264 original size:79 final size:79
Alignment explanation
Indices: 56568111--56568275 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
56568101 GGACTAAGAT
* **
56568111 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
56568176 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
56568190 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
56568253 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
56568269 CCGAAGG
1 CCGAAGG
56568276 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:56573567 original size:48 final size:48
Alignment explanation
Indices: 56573498--56574111 Score: 1022
Period size: 48 Copynumber: 12.9 Consensus size: 48
56573488 ATATACACAC
* * * *
56573498 ATCTCCTACATATTGCTCATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
56573546 CTCTCATACATATTTCACATTAGCCATTCGGATTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
56573594 ATCTCATACATATTTCATATTAGCCATTCGGCTTTATCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56573642 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
56573690 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATAT--AT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56573736 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
56573784 ATATCATACATATTTCACACTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
56573832 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56573880 GTCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATAC--AT
*
56573930 ATCTCATACATATTTCACATTATCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56573978 GTCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
56574026 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATAT--AT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
56574072 ATCTCA-ACATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
56574112 CATGTATATA
Statistics
Matches: 537, Mismatches: 25, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
45 34 0.06
46 54 0.10
48 403 0.75
50 46 0.09
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:56573836 original size:190 final size:190
Alignment explanation
Indices: 56573498--56574111 Score: 1009
Period size: 190 Copynumber: 3.2 Consensus size: 190
56573488 ATATACACAC
* * * * *
56573498 ATCTCCTACATATTGCTCATTAGCCATTCGGCTTTACCAAATATACATCTCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATAT--ATATCTCATACATATTTCA
* *
56573563 CATTAGCCATTCGGATTTACCACATATATATATCTCATACATATTTCATATTAGCCATTCGGCTT
64 CATTAGCCATTCGGCTTTACCACATATATATATCTCATACATATTTCACATTAGCCATTCGGCTT
* *
56573628 TATCACATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
129 TACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
56573690 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATATCTCATACATATTTCACA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATATCTCATACATATTTCACA
* *
56573755 TTAGCCATTCGGCTTTACCACATATATATATATCATACATATTTCACACTAGCCATTCGGCTTTA
66 TTAGCCATTCGGCTTTACCACATATATATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
*
56573820 CCACATATATATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
131 CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56573880 GTCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATATCTCATACATATTT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--AT--ATATATCTCATACATATTT
* * *
56573945 CACATTATCCATTCGGCTTTACCACATATACATGTCTCATACATATTTCACATTAGCCATTCGGC
62 CACATTAGCCATTCGGCTTTACCACATATATATATCTCATACATATTTCACATTAGCCATTCGGC
56574010 TTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATAT--AT
127 TTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
56574072 ATCTCA-ACATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
56574112 CATGTATATA
Statistics
Matches: 398, Mismatches: 20, Indels: 11
0.93 0.05 0.03
Matches are distributed among these distances:
189 1 0.00
190 177 0.44
191 33 0.08
192 49 0.12
194 138 0.35
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (190 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATATCTCATACATATTTCACA
TTAGCCATTCGGCTTTACCACATATATATATCTCATACATATTTCACATTAGCCATTCGGCTTTA
CCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:56577637 original size:57 final size:57
Alignment explanation
Indices: 56577546--56577675 Score: 149
Period size: 57 Copynumber: 2.3 Consensus size: 57
56577536 GAAACACACT
* * * *
56577546 TCGCATACACAGTGCC-CACTGACTGATTTCGCACATATAGTGCTC-GATTAAAGAAC
1 TCGCACACATAGTGCCTCACTGACTGATCTCGCACACATAGTGCTCAG-TTAAAGAAC
* * *
56577602 TCGCACACATAGTGCCTCAACT-ACTGATCTGGCACACATAGTGCTCAGTTGAAGAGC
1 TCGCACACATAGTGCCTC-ACTGACTGATCTCGCACACATAGTGCTCAGTTAAAGAAC
*
56577659 TTGCACACATAGTGCCT
1 TCGCACACATAGTGCCT
56577676 TATAATTCCA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
56 14 0.22
57 45 0.71
58 4 0.06
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (57 bp):
TCGCACACATAGTGCCTCACTGACTGATCTCGCACACATAGTGCTCAGTTAAAGAAC
Found at i:56577740 original size:40 final size:40
Alignment explanation
Indices: 56577685--56577840 Score: 267
Period size: 40 Copynumber: 3.9 Consensus size: 40
56577675 TTATAATTCC
* *
56577685 AGCACGAATGCTCTTCAGGACTTAGCCCATATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCAGATATATCACT
*
56577725 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCAGATATATCACT
*
56577765 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCAGATATATCACT
*
56577805 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
1 AGCACGAATGCTCTTCGGGACTTAGCCCAGATATAT
56577841 AACTCTCAAT
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 113 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCAGATATATCACT
Found at i:56579300 original size:48 final size:48
Alignment explanation
Indices: 56579229--56579902 Score: 1109
Period size: 48 Copynumber: 14.0 Consensus size: 48
56579219 ATATACACAC
* * * *
56579229 ATCTCCTACATATTGCTCATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
56579277 CTCTCATACATATTTCACATTAGCCATTCGGATTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56579325 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56579373 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56579421 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATAT--AT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
56579467 ATCTCATACATATTTCACATTAGTCATTCGGCTTTACCACTTATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56579515 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
56579563 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
56579611 GTCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATACATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATAC--AT
56579661 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
56579709 GTCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
56579757 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56579805 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
56579853 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
56579901 AT
1 AT
56579903 ATTTATCTTG
Statistics
Matches: 595, Mismatches: 27, Indels: 8
0.94 0.04 0.01
Matches are distributed among these distances:
46 43 0.07
48 506 0.85
50 46 0.08
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.38
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:56583371 original size:28 final size:27
Alignment explanation
Indices: 56583330--56583429 Score: 83
Period size: 28 Copynumber: 3.6 Consensus size: 27
56583320 GAAACACACT
* * *
56583330 TCGCATACACAGTGCCCACTGACTGATT
1 TCGCACACATAGTGCCCACT-ACTGATC
* * ** *
56583358 TCGCACACATAGTGCTCGATTAAAGAAC
1 TCGCACACATAGTGC-CCACTACTGATC
56583386 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTGCC-C-ACTACTGATC
*
56583415 TGGCACACATAGTGC
1 TCGCACACATAGTGC
56583430 TCAGTTGAAG
Statistics
Matches: 55, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
27 1 0.02
28 31 0.56
29 23 0.42
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (27 bp):
TCGCACACATAGTGCCCACTACTGATC
Found at i:56583421 original size:57 final size:57
Alignment explanation
Indices: 56583330--56583459 Score: 158
Period size: 57 Copynumber: 2.3 Consensus size: 57
56583320 GAAACACACT
* * *
56583330 TCGCATACACAGTGCC-CACTGACTGATTTCGCACACATAGTGCTC-GATTAAAGAAC
1 TCGCACACATAGTGCCTCACTGACTGATCTCGCACACATAGTGCTCAG-TTAAAGAAC
* * *
56583386 TCGCACACATAGTGCCTCAACT-ACTGATCTGGCACACATAGTGCTCAGTTGAAGAGC
1 TCGCACACATAGTGCCTC-ACTGACTGATCTCGCACACATAGTGCTCAGTTAAAGAAC
*
56583443 TTGCACACATAGTGCCT
1 TCGCACACATAGTGCCT
56583460 TATAATTCCA
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
56 14 0.22
57 46 0.72
58 4 0.06
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (57 bp):
TCGCACACATAGTGCCTCACTGACTGATCTCGCACACATAGTGCTCAGTTAAAGAAC
Found at i:56583449 original size:28 final size:27
Alignment explanation
Indices: 56583358--56583457 Score: 85
Period size: 28 Copynumber: 3.6 Consensus size: 27
56583348 CTGACTGATT
56583358 TCGCACACATAGTGCTC-GATTAAAGAAC
1 TCGCACACATAGTGCTCAG-TT-AAGAAC
** * *
56583386 TCGCACACATAGTGCCTCAACTACTGATC
1 TCGCACACATAGTG-CTCAGTTA-AGAAC
* *
56583415 TGGCACACATAGTGCTCAGTTGAAGAGC
1 TCGCACACATAGTGCTCAGTT-AAGAAC
*
56583443 TTGCACACATAGTGC
1 TCGCACACATAGTGC
56583458 CTTATAATTC
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
28 37 0.64
29 21 0.36
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (27 bp):
TCGCACACATAGTGCTCAGTTAAGAAC
Found at i:56583524 original size:40 final size:40
Alignment explanation
Indices: 56583469--56583624 Score: 294
Period size: 40 Copynumber: 3.9 Consensus size: 40
56583459 TTATAATTCC
* *
56583469 AGCACGAATGCTCTTCAGGACTTAGCCCGTATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
56583509 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
56583549 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
56583589 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
56583625 AACTCTCAAT
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 114 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
Found at i:56585084 original size:48 final size:48
Alignment explanation
Indices: 56585013--56585736 Score: 1177
Period size: 48 Copynumber: 15.0 Consensus size: 48
56585003 ATATACACAC
* * * *
56585013 ATCTCCTACATATTGCTCATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
56585061 CTCTCATACATATTTCACATTAGCCATTCGGATTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56585109 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56585157 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
56585205 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATAT--AT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
56585251 ATCACATACATATTTCATATTAGCCATTCGGCTTTACCACATAT--AT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
56585297 ATCTCATACATATTTCACATTAGTCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56585345 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
56585393 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56585441 GTCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATAC--AT
56585491 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
56585539 GTCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
56585587 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC----ATATACAT
* *
56585639 ATCTCATACATATTTCACATTAGCCATTCGGTTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
56585687 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
56585735 AT
1 AT
56585737 ATTTATCTTG
Statistics
Matches: 641, Mismatches: 27, Indels: 16
0.94 0.04 0.02
Matches are distributed among these distances:
46 87 0.14
48 462 0.72
50 47 0.07
52 45 0.07
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:56585406 original size:236 final size:237
Alignment explanation
Indices: 56585019--56585734 Score: 1182
Period size: 236 Copynumber: 3.0 Consensus size: 237
56585009 ACACATCTCC
* * * *
56585019 TACATATTGCTCATTAGCCATTCGGCTTTACCAAATATACATCTCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA-ATATCTCATACATATTTCACATTAG
*
56585084 CCATTCGGATTTACCACATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
65 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
* *
56585149 ATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
130 ATATATATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
56585214 ATATTTCACATTAGCCATTCGGCTTTACCACATATATATCACA
195 ATATTTCACATTAGCCATTCGGCTTTACCACATATATATCACA
* *
56585257 TACATATTTCATATTAGCCATTCGGCTTTACCACATAT-ATATCTCATACATATTTCACATTAGT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATAATATCTCATACATATTTCACATTAGC
* *
56585321 CATTCGGCTTTACCACATATATATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
66 CATTCGGCTTTACCACATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACA
*
56585386 TATATATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATGTCTCATACA
131 TATATATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA
*
56585451 TATTTCACATTAGCCATTCGGCTTTACCACATATACATATATCTCA
196 TATTTCACATTAGCCATTCGGCTTTACCAC--AT--ATATATCACA
*
56585497 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATGTCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA-ATATCTCATACATATTTCACATTAG
56585562 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
65 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
* *
56585627 ATATATATATATATCTCATACATATTTCACATTAGCCATTCGGTTTTACCACATATATATATCTC
130 ----ATATATATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
*
56585692 ATACATATTTCACATTAGCCATTCGGCTTTACCACACATATAT
191 ATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
56585735 ATATTTATCT
Statistics
Matches: 446, Mismatches: 22, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
236 178 0.40
238 36 0.08
240 46 0.10
242 92 0.21
244 1 0.00
246 93 0.21
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (237 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATAATATCTCATACATATTTCACATTAGC
CATTCGGCTTTACCACATATACATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACA
TATATATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA
TATTTCACATTAGCCATTCGGCTTTACCACATATATATCACA
Found at i:56590945 original size:25 final size:25
Alignment explanation
Indices: 56590887--56590956 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
56590877 GCTATAAATG
*
56590887 GTAAGCTCCA-CCGAGCTGAATAACC
1 GTAAGCT-CATCCGAGCTAAATAACC
56590912 GTAAGCTCATCCGAGCTAAATAA-C
1 GTAAGCTCATCCGAGCTAAATAACC
**
56590936 GATAAGCTCATAAGAGCTAAA
1 G-TAAGCTCATCCGAGCTAAA
56590957 ATCGGTAACC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
24 4 0.10
25 36 0.90
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (25 bp):
GTAAGCTCATCCGAGCTAAATAACC
Found at i:56592310 original size:37 final size:37
Alignment explanation
Indices: 56592264--56592381 Score: 117
Period size: 37 Copynumber: 3.4 Consensus size: 37
56592254 AAAAATAATG
*
56592264 TTATTTTAATAGTTTAATATTAAATTTAATTTAATAC
1 TTATCTTAATAGTTTAATATTAAATTTAATTTAATAC
56592301 TTATCTTAATAG--T-AT-TT-AA-TTAATTTAATA-
1 TTATCTTAATAGTTTAATATTAAATTTAATTTAATAC
* * * *
56592331 TTAATGTGATTA-TCTTAATATTAGATTTAATTTAATAC
1 TT-ATCTTAATAGT-TTAATATTAAATTTAATTTAATAC
56592369 TTATCTTAATAGT
1 TTATCTTAATAGT
56592382 ATTTCATTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
30 2 0.03
31 17 0.27
32 2 0.03
33 3 0.05
34 4 0.06
35 3 0.05
36 1 0.02
37 28 0.44
38 3 0.05
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (37 bp):
TTATCTTAATAGTTTAATATTAAATTTAATTTAATAC
Found at i:56592327 original size:31 final size:30
Alignment explanation
Indices: 56592289--56592402 Score: 93
Period size: 31 Copynumber: 3.5 Consensus size: 30
56592279 AATATTAAAT
56592289 TTAATTTAATACTTATCTTAATAGTATTTAA
1 TTAATTTAATA-TTATCTTAATAGTATTTAA
* * **
56592320 TTAATTTAATATTAATGTGATTATCTTAATATTAGA
1 TTAATTTAATATT-ATCT--TAATAGT-AT-TTA-A
*
56592356 TTTAATTTAATACTTATCTTAATAGTATTTCA
1 -TTAATTTAATA-TTATCTTAATAGTATTTAA
*
56592388 TTAATATAATATTAT
1 TTAATTTAATATTAT
56592403 AGTGATTATC
Statistics
Matches: 65, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
30 6 0.09
31 24 0.37
32 1 0.02
33 6 0.09
34 4 0.06
35 7 0.11
36 1 0.02
37 14 0.22
38 2 0.03
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (30 bp):
TTAATTTAATATTATCTTAATAGTATTTAA
Found at i:56592373 original size:68 final size:68
Alignment explanation
Indices: 56592277--56592430 Score: 240
Period size: 68 Copynumber: 2.2 Consensus size: 68
56592267 TTTTAATAGT
*
56592277 TTAATATTAAATTTAATTTAATACTTATCTTAATAGTATTTAATTAATTTAATATTA-ATGTGAT
1 TTAATATTAAATTTAATTTAATACTTATCTTAATAGTATTTAATTAATATAATATTATA-GTGAT
56592341 TATC
65 TATC
* *
56592345 TTAATATTAGATTTAATTTAATACTTATCTTAATAGTATTTCATTAATATAATATTATAGTGATT
1 TTAATATTAAATTTAATTTAATACTTATCTTAATAGTATTTAATTAATATAATATTATAGTGATT
56592410 ATC
66 ATC
56592413 TTTTAA-ATTAAATTTAAT
1 --TTAATATTAAATTTAAT
56592431 GCTTATCTTG
Statistics
Matches: 79, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
68 63 0.80
69 12 0.15
70 4 0.05
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (68 bp):
TTAATATTAAATTTAATTTAATACTTATCTTAATAGTATTTAATTAATATAATATTATAGTGATT
ATC
Found at i:56598566 original size:31 final size:31
Alignment explanation
Indices: 56598531--56598604 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
56598521 CGGGTTAGGG
*
56598531 ACACGGGCGTGTGTGACCACACGGTCAACCT
1 ACACGGGCATGTGTGACCACACGGTCAACCT
56598562 ACACGGGCATGTGTGACCACACGGTCAACCT
1 ACACGGGCATGTGTGACCACACGGTCAACCT
*
56598593 ACACAGGCATGT
1 ACACGGGCATGT
56598605 CTCCAGCTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.26, C:0.31, G:0.27, T:0.16
Consensus pattern (31 bp):
ACACGGGCATGTGTGACCACACGGTCAACCT
Found at i:56606535 original size:17 final size:17
Alignment explanation
Indices: 56606489--56606536 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
56606479 ATAAGGGACA
*
56606489 AATTGATTG-A-GAATG
1 AATTGATTGAATGTATG
*
56606504 AA-TGA-TGACTGTATG
1 AATTGATTGAATGTATG
56606519 AATTGATTGAATGTATG
1 AATTGATTGAATGTATG
56606536 A
1 A
56606537 GAAAAGTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
13 2 0.08
14 3 0.12
15 8 0.31
16 3 0.12
17 10 0.38
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.35
Consensus pattern (17 bp):
AATTGATTGAATGTATG
Found at i:56622553 original size:23 final size:23
Alignment explanation
Indices: 56622527--56622594 Score: 64
Period size: 28 Copynumber: 2.7 Consensus size: 23
56622517 GATGGATTAT
56622527 ATTATTCTGGTGTGTTTGGGAGG
1 ATTATTCTGGTGTGTTTGGGAGG
*
56622550 ATTATATGATACTGGTGTGTTTTGGAGG
1 A-T-TAT--T-CTGGTGTGTTTGGGAGG
* *
56622578 ATCATACTGGTGTGTTT
1 ATTATTCTGGTGTGTTT
56622595 TGGTTGGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
23 12 0.32
24 1 0.03
25 3 0.08
26 2 0.05
27 2 0.05
28 17 0.46
ACGTcount: A:0.18, C:0.06, G:0.32, T:0.44
Consensus pattern (23 bp):
ATTATTCTGGTGTGTTTGGGAGG
Found at i:56622553 original size:28 final size:28
Alignment explanation
Indices: 56622500--56622579 Score: 124
Period size: 28 Copynumber: 2.8 Consensus size: 28
56622490 CACTTTGTGC
56622500 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
56622529 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
56622557 GATACTGGTGTGTTTTGGAGGAT
1 TATTCTGGTGTGTTTTGGAGGAT
56622580 CATACTGGTG
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 29 0.62
29 18 0.38
ACGTcount: A:0.17, C:0.04, G:0.33, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:56624743 original size:13 final size:13
Alignment explanation
Indices: 56624720--56624756 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
56624710 ATACTAGTGT
56624720 GTTATGAGTTTGAA
1 GTTA-GAGTTTGAA
56624734 GTTAGAGTTTGAA
1 GTTAGAGTTTGAA
56624747 GTTAGAGTTT
1 GTTAGAGTTT
56624757 TATGTGGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (13 bp):
GTTAGAGTTTGAA
Found at i:56626540 original size:48 final size:48
Alignment explanation
Indices: 56626469--56626704 Score: 257
Period size: 48 Copynumber: 4.9 Consensus size: 48
56626459 GACAATTGGG
* *
56626469 TGATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATAAGCAT
1 TGATATGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCAT
56626517 TGATATGTGTA-CTAGTGTAAGACCATGTCTT-GGACATGGCATC-GCCA-
1 TGATATGTG-AGCTAGTGTAAGACCATGT-TTGGGACATGGCATCAG-CAT
* * * * * *
56626564 -CATTATGAGAGCTAGTGTAAGACCATGTCTAGGAAATGGCATCGGCAT
1 TGA-TATGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCAT
* * * *
56626612 TGAGATGAGAGCTTGTGTAAGACCATGTTTGGGACATGGCATCAGCCT
1 TGATATGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCAT
* * * *
56626660 CGACATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG
1 TGATATGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAG
56626705 TGATTTACCC
Statistics
Matches: 159, Mismatches: 20, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
46 3 0.02
47 36 0.23
48 117 0.74
49 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (48 bp):
TGATATGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCAT
Found at i:56626647 original size:95 final size:96
Alignment explanation
Indices: 56626479--56626704 Score: 289
Period size: 95 Copynumber: 2.4 Consensus size: 96
56626469 TGATATGTGT
* * * *
56626479 GCTAGTGTAAGACCATGTTTGGGACATGGCATAAGCATTGATATGTGTACTAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGATGAGTACTAGTGTAAGACCATG
*
56626544 TCTTGGACATGGCATC-GCCAC-ATTATGAGA
66 TCTTGGACATGGCATCAGCCACGA-CATGAGA
* * * *
56626574 GCTAGTGTAAGACCATGTCTAGGAAATGGCATCGGCATTGAGATGAG-AGCTTGTGTAAGACCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGATGAGTA-CTAGTGTAAGACCAT
* *
56626638 GT-TTGGGACATGGCATCAGCCTCGACATGTGA
65 GTCTT-GGACATGGCATCAGCCACGACATGAGA
*
56626670 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAG
56626705 TGATTTACCC
Statistics
Matches: 112, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
94 3 0.03
95 68 0.61
96 40 0.36
97 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGATGAGTACTAGTGTAAGACCATG
TCTTGGACATGGCATCAGCCACGACATGAGA
Found at i:56631649 original size:27 final size:26
Alignment explanation
Indices: 56631611--56631723 Score: 138
Period size: 27 Copynumber: 4.2 Consensus size: 26
56631601 GAGGAAGTGT
56631611 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCAC-AATATCTGA
56631638 TCTGGTGGCTCTGCCACAAATATCT-A
1 TCTGGTGGCTCTGCCAC-AATATCTGA
*
56631664 TTTCTGGTGGCTTTGCCACAATATCTGTA
1 --TCTGGTGGCTCTGCCACAATATCTG-A
* * *
56631693 TCTGGTGACTCTGTCACAATATCTGT
1 TCTGGTGGCTCTGCCACAATATCTGA
56631719 TCTGG
1 TCTGG
56631724 CAGTCGTGCT
Statistics
Matches: 77, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
26 6 0.08
27 54 0.70
28 16 0.21
29 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGGCTCTGCCACAATATCTGA
Found at i:56631696 original size:55 final size:54
Alignment explanation
Indices: 56631610--56631716 Score: 162
Period size: 55 Copynumber: 2.0 Consensus size: 54
56631600 GGAGGAAGTG
*
56631610 TTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTAT
1 TTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCTGCCAC-AATATCTAT
* *
56631665 TTCTGGTGGCTTTGCCAC-AATATCTGTATCTGGTGACTCTGTCACAATATCT
1 TTCTGGTGGCTCTGCCACAAATATCTG-ATCTGGTGACTCTGCCACAATATCT
56631717 GTTCTGGCAG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
54 15 0.31
55 33 0.69
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (54 bp):
TTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGACTCTGCCACAATATCTAT
Found at i:56636629 original size:39 final size:40
Alignment explanation
Indices: 56636472--56636689 Score: 273
Period size: 40 Copynumber: 5.5 Consensus size: 40
56636462 GCTCCACGTT
* *
56636472 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
56636512 CAAATGCCTTCGGGACTTAACCCGGATTTTGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
56636552 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
56636592 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
56636631 CAAATGCCTTC-GGATCTTAATCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
56636672 CAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
56636690 GCCCAGACAT
Statistics
Matches: 156, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.21
40 109 0.70
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:56636650 original size:119 final size:120
Alignment explanation
Indices: 56636474--56636689 Score: 305
Period size: 119 Copynumber: 1.8 Consensus size: 120
56636464 TCCACGTTCA
*
56636474 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * *
56636539 TTTGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATGGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * *
56636594 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAATCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
*
56636656 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTA
64 ATATGGTAACTTAGCACAAAGCCTTCGGGACTTA
56636690 GCCCAGACAT
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
118 4 0.05
119 61 0.72
120 20 0.24
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATGGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:56641461 original size:119 final size:120
Alignment explanation
Indices: 56641279--56641501 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
56641269 TCCTCGTTCA
*
56641279 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
56641344 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
56641399 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
56641461 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
56641502 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:56641501 original size:40 final size:40
Alignment explanation
Indices: 56641277--56641501 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
56641267 GCTCCTCGTT
* *
56641277 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
56641317 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
56641357 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
56641397 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
56641436 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
56641477 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56641502 CATCATTCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 119 0.73
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:56643396 original size:27 final size:26
Alignment explanation
Indices: 56643366--56643427 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 26
56643356 ATTTACTAAA
56643366 ATACCCCTAAGT-CTAAAAATTACCATT
1 ATACCCCTAAGTGC--AAAATTACCATT
*
56643393 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAAGTGCAAAATTACCATT
56643419 ATACCCCTA
1 ATACCCCTA
56643428 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 21 0.64
27 11 0.33
28 1 0.03
ACGTcount: A:0.37, C:0.29, G:0.06, T:0.27
Consensus pattern (26 bp):
ATACCCCTAAGTGCAAAATTACCATT
Found at i:56643572 original size:28 final size:27
Alignment explanation
Indices: 56643532--56643618 Score: 131
Period size: 27 Copynumber: 3.2 Consensus size: 27
56643522 GGAGGAAGCG
56643532 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCAC-AATATCTGT
56643560 TTCTGGTGGCTCTGCCACAATATCTGT
1 TTCTGGTGGCTCTGCCACAATATCTGT
* * *
56643587 ATCTGGTGACTCTGTCACAATATCTG-
1 TTCTGGTGGCTCTGCCACAATATCTGT
56643613 TTCTGG
1 TTCTGG
56643619 CAGTCGTGCT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
26 5 0.09
27 32 0.58
28 18 0.33
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCCACAATATCTGT
Found at i:56658247 original size:35 final size:34
Alignment explanation
Indices: 56658197--56658295 Score: 99
Period size: 35 Copynumber: 2.8 Consensus size: 34
56658187 CATAGGTAAG
* *
56658197 TACATGTAAGCTTATATTGAACTTGTATATTCGGC
1 TACATGTGAGCTTATATTGAA-TTGTATATTCGAC
* * * * *
56658232 TGCATGTGAGGTTATATTGGATTTTAGTATTCGAT
1 TACATGTGAGCTTATATTGAATTGTA-TATTCGAC
*
56658267 TACATGTGAACTTATATTGAAATTGTATA
1 TACATGTGAGCTTATATTG-AATTGTATA
56658296 CTTAGATATA
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
34 4 0.08
35 41 0.82
36 5 0.10
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.42
Consensus pattern (34 bp):
TACATGTGAGCTTATATTGAATTGTATATTCGAC
Found at i:56658320 original size:21 final size:23
Alignment explanation
Indices: 56658279--56658325 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 23
56658269 CATGTGAACT
*
56658279 TATATTGAAATTGTATACTTAGA
1 TATATTGAAATTGTATACTTAAA
56658302 TATATGTGAAA-T-TAT-CTTAAA
1 TATAT-TGAAATTGTATACTTAAA
56658323 TAT
1 TAT
56658326 GCATATTCGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 8 0.36
22 3 0.14
23 6 0.27
24 5 0.23
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (23 bp):
TATATTGAAATTGTATACTTAAA
Found at i:56662146 original size:14 final size:12
Alignment explanation
Indices: 56662124--56662159 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
56662114 GTCTTAAAAT
56662124 AAAATAAAAGTAA
1 AAAATAAAA-TAA
56662137 AAACATAAAATAA
1 AAA-ATAAAATAA
56662150 AAAATAAAAT
1 AAAATAAAAT
56662160 TTTTTAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 9 0.41
14 6 0.27
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:56677007 original size:40 final size:40
Alignment explanation
Indices: 56676931--56677072 Score: 121
Period size: 40 Copynumber: 3.5 Consensus size: 40
56676921 TAACTCATTC
* *
56676931 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACA
* *
56676971 AATGCCTTCGGGACTTAACCCGGA-ATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATATTA-AAACTCGCACA
* ** ** *
56677011 AAGGCCTTC-GGATCTTAGTCCGGATA-TAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGATATTA-AAAC-TCGCACA
*
56677052 AA-GCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAACCCG
56677073 ACAGCATTCA
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
39 6 0.07
40 68 0.79
41 12 0.14
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACA
Done.