Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 299 of 433
Found at i:93364722 original size:79 final size:79
Alignment explanation
Indices: 93364616--93364764 Score: 203
Period size: 79 Copynumber: 1.9 Consensus size: 79
93364606 ATAACCACGT
* * *
93364616 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGTCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTC-CAGCA-GAATTGACTTCGGGGCTTAG
93364679 CCCGGATGTAGCCACA
64 CCCGGATGTAGCCACA
* * * *
93364695 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAATTGACTTCGGGGCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCCAGCAGAATTGACTTCGGGGCTTAGCC
93364760 CGGAT
66 CGGAT
93364765 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
78 3 0.05
79 58 0.95
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCCAGCAGAATTGACTTCGGGGCTTAGCC
CGGATGTAGCCACA
Found at i:93366541 original size:38 final size:38
Alignment explanation
Indices: 93366482--93366618 Score: 202
Period size: 38 Copynumber: 3.4 Consensus size: 38
93366472 TCAATCATGC
*
93366482 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
93366521 ACTGGGCCGAAGCCTTTTCATGTATTTCATATTTCATATTCAT
1 ACTGGGCCGAAGCCTTTTCA--TATTTCATATTTCATA---AT
*
93366564 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
93366602 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
93366619 ACTGTAAACG
Statistics
Matches: 91, Mismatches: 2, Indels: 11
0.88 0.02 0.11
Matches are distributed among these distances:
38 27 0.30
39 11 0.12
40 16 0.18
41 15 0.16
43 22 0.24
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.39
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:93366856 original size:24 final size:24
Alignment explanation
Indices: 93366810--93366904 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
93366800 GCTTTATCAT
*
93366810 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
93366835 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
93366859 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
93366882 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
93366905 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:93366889 original size:47 final size:49
Alignment explanation
Indices: 93366810--93366903 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
93366800 GCTTTATCAT
*
93366810 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
93366859 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
93366904 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:93366980 original size:20 final size:20
Alignment explanation
Indices: 93366955--93367014 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
93366945 TATGATTACC
93366955 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
93366975 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
93366995 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
93367015 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:93367089 original size:25 final size:25
Alignment explanation
Indices: 93367057--93367104 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
93367047 ATACATAAAC
* * *
93367057 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
93367082 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
93367105 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:93374863 original size:31 final size:31
Alignment explanation
Indices: 93374821--93374934 Score: 147
Period size: 31 Copynumber: 3.5 Consensus size: 31
93374811 CCTTTTCGTA
93374821 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
93374858 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
93374890 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
93374921 TTTCATGTTTCATA
1 TTTCATATTTCATA
93374935 TTTCATAATA
Statistics
Matches: 74, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
31 43 0.58
32 1 0.01
33 1 0.01
37 1 0.01
38 28 0.38
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:93374863 original size:38 final size:38
Alignment explanation
Indices: 93374798--93374960 Score: 232
Period size: 38 Copynumber: 4.4 Consensus size: 38
93374788 TCAATCATGC
* * *
93374798 ACTGGGCCGTAGCCCTTTTCGTATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATGTTTCATATTTCATAAT
93374837 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
*
93374875 ACTGGGCCGAAG-C----C-T-TTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
93374906 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
93374944 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
93374961 ACTGTAAACG
Statistics
Matches: 112, Mismatches: 5, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
31 27 0.24
32 2 0.02
33 1 0.01
36 1 0.01
37 2 0.02
38 68 0.61
39 11 0.10
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
Found at i:93374932 original size:69 final size:69
Alignment explanation
Indices: 93374821--93374960 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
93374811 CCTTTTCGTA
93374821 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
93374886 GCCT
66 GCCT
*
93374890 TTTCATATTTCATATTACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
93374955 GCCT
66 GCCT
93374959 TT
1 TT
93374961 ACTGTAAACG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (69 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
GCCT
Found at i:93375246 original size:23 final size:24
Alignment explanation
Indices: 93375152--93375245 Score: 115
Period size: 24 Copynumber: 4.0 Consensus size: 24
93375142 GCTTTATCAT
*
93375152 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
93375177 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
93375201 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
93375224 ATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
93375246 TCACTTCCTC
Statistics
Matches: 63, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
22 16 0.25
23 8 0.13
24 26 0.41
25 13 0.21
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:93375321 original size:20 final size:20
Alignment explanation
Indices: 93375296--93375355 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
93375286 TATGATTACC
93375296 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
93375316 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
93375336 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
93375356 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:93375430 original size:25 final size:25
Alignment explanation
Indices: 93375398--93375445 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
93375388 ATACATAAAC
* * *
93375398 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
93375423 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
93375446 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:93385742 original size:52 final size:51
Alignment explanation
Indices: 93385625--93385794 Score: 256
Period size: 52 Copynumber: 3.4 Consensus size: 51
93385615 ACTAGTGACT
*
93385625 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAG-AGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
*
93385674 CAAGTGTGGTATTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGGTCA
* *
93385726 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTC-A
*
93385777 CAAGGGTGGTACTATGTG
1 CAAGTGTGGTACTATGTG
93385795 CATGCCACCG
Statistics
Matches: 111, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
49 33 0.30
50 2 0.02
51 35 0.32
52 41 0.37
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.29
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
Found at i:93385802 original size:51 final size:51
Alignment explanation
Indices: 93385620--93385794 Score: 241
Period size: 51 Copynumber: 3.5 Consensus size: 51
93385610 ATGTCACTAG
*
93385620 TGACT-CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAG-AGATAGCTT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTT
* * *
93385669 GGTC-ACAAGTGTGGTATTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTT
* *
93385720 TG-GTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTT
1 TGACT-ACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTT
*
93385771 TGACTACAAGGGTGGTACTATGTG
1 TGACTACAAGTGTGGTACTATGTG
93385795 CATGCCACCG
Statistics
Matches: 110, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
49 35 0.32
51 39 0.35
52 36 0.33
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.29
Consensus pattern (51 bp):
TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTT
Found at i:93389815 original size:16 final size:15
Alignment explanation
Indices: 93389796--93389825 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
93389786 TTTACTTCAT
93389796 TTGCATTTAGATTAAC
1 TTGCATTTAG-TTAAC
93389812 TTGCATTTAGTTAA
1 TTGCATTTAGTTAA
93389826 TGAATTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (15 bp):
TTGCATTTAGTTAAC
Found at i:93393562 original size:48 final size:48
Alignment explanation
Indices: 93393506--93393748 Score: 253
Period size: 48 Copynumber: 5.1 Consensus size: 48
93393496 ACCGTGCTAA
* * *
93393506 ATGTGCCTGTGTAAGACCATGCCCAGGACATGGCATCGGCGGTGACAT
1 ATGTGCCTGTGTAAGACCATGTCCAGGACATGGCATCGGCGATGATAT
* * *
93393554 ATGTGCCTGTGTAAGACCATGTCCGGGAC-TGGGTATCGGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCCAGGACAT-GGCATCGGCGATGATAT
* ** *
93393602 ATGTGCTTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCCAGGACATGGCATCGGCGATGATAT
* * * *
93393650 ATGTGTCTATGTAAGACC-T-TCTATGGGACATAGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCCA--GGACATGGCATCGGCGATGATAT
* * *
93393698 GTGTG-CTAGTGTAAGACCATGT-CTGGAACATGGCATTGGCGATGATAT
1 ATGTGCCT-GTGTAAGACCATGTCCAGG-ACATGGCATCGGCGATGATAT
93393746 ATG
1 ATG
93393749 GATACATGTA
Statistics
Matches: 163, Mismatches: 24, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
46 3 0.02
47 6 0.04
48 151 0.93
49 2 0.01
50 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTCCAGGACATGGCATCGGCGATGATAT
Found at i:93393678 original size:96 final size:96
Alignment explanation
Indices: 93393506--93393748 Score: 299
Period size: 96 Copynumber: 2.5 Consensus size: 96
93393496 ACCGTGCTAA
* * ** * * * *
93393506 ATGTGCCTGTGTAAGACCATGCCCAGGACATGGCATCGGCGGTGACATATGTGCCTGTGTAAGAC
1 ATGTGCTTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATATGTGCCTATGTAAGAC
* * * * *
93393571 CATGTCCGGGAC-TGGGTATCGGTGATGATAT
66 CATCTACGGGACAT-AGCATCGGCGATGATAT
*
93393602 ATGTGCTTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATATGTGTCTATGTAAGAC
1 ATGTGCTTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATATGTGCCTATGTAAGAC
* *
93393667 CTTCTATGGGACATAGCATCGGCGATGATAT
66 CATCTACGGGACATAGCATCGGCGATGATAT
* * *
93393698 GTGTGCTAGTGTAAGACCATGTCTGGAACATGGCATTGGCGATGATATATG
1 ATGTGCTTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATATG
93393749 GATACATGTA
Statistics
Matches: 127, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
96 126 0.99
97 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (96 bp):
ATGTGCTTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATATGTGCCTATGTAAGAC
CATCTACGGGACATAGCATCGGCGATGATAT
Found at i:93393759 original size:48 final size:48
Alignment explanation
Indices: 93393515--93393784 Score: 228
Period size: 48 Copynumber: 5.6 Consensus size: 48
93393505 AATGTGCCTG
* ** * * * * *
93393515 TGTAAGACCATGCCCAGGACATGGCATCGGCGGTGACATATGTG-CCTG
1 TGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATATGTGTAC-A
* * * * **
93393563 TGTAAGACCATGTCCGGGAC-TGGGTATCGGTGATGATATATGTGCT-TG
1 TGTAAGACCATGTCTGGGACAT-GGCATTGGCGATGATATATGTG-TACA
93393611 TGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATATGTGT-CTA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATATGTGTAC-A
* * * * * * *
93393659 TGTAAGACCTTCTATGGGACATAGCATCGGCGATGATATGTGTGCTA-G
1 TGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATATGTG-TACA
*
93393707 TGTAAGACCATGTCTGGAACATGGCATTGGCGATGATATATG-GATACA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATATGTG-TACA
* *
93393755 TGTAAGATCATGTCAGGGACATGGCATTGG
1 TGTAAGACCATGTCTGGGACATGGCATTGG
93393785 TACTTTTTGT
Statistics
Matches: 182, Mismatches: 32, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
47 5 0.03
48 175 0.96
49 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATATGTGTACA
Found at i:93396225 original size:19 final size:19
Alignment explanation
Indices: 93396201--93396238 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
93396191 AAGGTGTGAA
93396201 TAAAAGATTATATTATGAT
1 TAAAAGATTATATTATGAT
93396220 TAAAAGATTATATTATGAT
1 TAAAAGATTATATTATGAT
93396239 GAGCTTACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (19 bp):
TAAAAGATTATATTATGAT
Found at i:93397039 original size:14 final size:14
Alignment explanation
Indices: 93397022--93397049 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
93397012 TAATTGGAAT
93397022 TCCTTCTGAACTTA
1 TCCTTCTGAACTTA
93397036 TCCTTCTGAACTTA
1 TCCTTCTGAACTTA
93397050 CATTCTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.29, G:0.07, T:0.43
Consensus pattern (14 bp):
TCCTTCTGAACTTA
Found at i:93403945 original size:24 final size:24
Alignment explanation
Indices: 93403894--93404034 Score: 218
Period size: 23 Copynumber: 6.0 Consensus size: 24
93403884 ACTTTATCAT
*
93403894 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
93403919 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
93403943 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
93403966 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
93403989 ATAACTGGGGCATAAG-CCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
93404012 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
93404035 TCACTTCCTC
Statistics
Matches: 110, Mismatches: 3, Indels: 7
0.92 0.03 0.06
Matches are distributed among these distances:
22 2 0.02
23 63 0.57
24 33 0.30
25 12 0.11
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:93404110 original size:20 final size:20
Alignment explanation
Indices: 93404085--93404151 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
93404075 TTGTGATTAC
93404085 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
93404105 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
93404125 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
93404145 ACCATGT
1 ATCATGT
93404152 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:93404116 original size:11 final size:11
Alignment explanation
Indices: 93404085--93404140 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
93404075 TTGTGATTAC
93404085 ATCATGTGCAT
1 ATCATGTGCAT
*
93404096 ATCA--TACAT
1 ATCATGTGCAT
93404105 ATCATGTGCAT
1 ATCATGTGCAT
*
93404116 ATCA--TACAT
1 ATCATGTGCAT
*
93404125 GTCATGTGCAT
1 ATCATGTGCAT
93404136 ATCAT
1 ATCAT
93404141 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:93410225 original size:48 final size:48
Alignment explanation
Indices: 93410145--93410420 Score: 306
Period size: 48 Copynumber: 5.8 Consensus size: 48
93410135 ACCGTGCTAA
* * * *
93410145 ATGTTCCTGTGTAAGACCATGTCCGGGCCATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATAT
* *
93410193 ATATGCCTGTGTAAGACCATGT-TCGGGACATGGCATCAGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCT-GGGACATGGCATCAGCGATGATAT
* *
93410241 ATGTGCCTGTGTAAGACCATGTCTAGGACACGGCATCAGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATAT
* * *
93410289 ATGCGCCTGTGTAA-AGCCATGTCTGGAACATGGCATTAGCGATGATAT
1 ATGTGCCTGTGTAAGA-CCATGTCTGGGACATGGCATCAGCGATGATAT
* * * ** *
93410337 GTGTGCCAGTGTAAGGCCATGTCTGGGACATGGCATTGGCGGTGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATAT
* ** * *
93410385 GTG-GATTCATGTAAGACCATGTCGGGGACATGGCAT
1 ATGTGCCT-GTGTAAGACCATGTCTGGGACATGGCAT
93410421 TAGTACTTTT
Statistics
Matches: 195, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
47 2 0.01
48 192 0.98
49 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATAT
Found at i:93423295 original size:40 final size:40
Alignment explanation
Indices: 93423218--93423439 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
93423208 AAACCAAGTA
* *
93423218 CCTTCGGGATTTAG-CTGGTTATAGCT-ACTCGCT-CAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCG-TACAAATG
* *
93423257 CCTTCGGGACTTAGCTCGGTTATAGTAACTTGTACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGTACAAATG
* *
93423297 CCTTCGGGACTTGGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGTACAAATG
* *
93423337 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGTACAAATG
* * * * * * *
93423377 CCTTCGGGGCTTAGCCCAG-AATTAGTCACTAGCACAAACG
1 CCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGTACAAATG
93423417 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
93423440 CATCCGAATA
Statistics
Matches: 159, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
39 16 0.10
40 142 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGTACAAATG
Found at i:93428966 original size:20 final size:19
Alignment explanation
Indices: 93428920--93428958 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
93428910 TCATCTACAC
93428920 ATCTACTTTTCAAAAAAAAA
1 ATCTACTTTT-AAAAAAAAA
93428940 ATCTACTTTTAAAAAAAAA
1 ATCTACTTTTAAAAAAAAA
93428959 TCGCTACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (19 bp):
ATCTACTTTTAAAAAAAAA
Found at i:93431771 original size:20 final size:20
Alignment explanation
Indices: 93431693--93431764 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
93431683 AAAAATTTAA
* *
93431693 ATTTTGAAAATTTTATAAA-T
1 ATTTTGAATA-TTTAAAAATT
93431713 ATTTTGAAT-TTTAAAAATT
1 ATTTTGAATATTTAAAAATT
93431732 ATTTTGAATATTTAAAAATT
1 ATTTTGAATATTTAAAAATT
*
93431752 ATTTTGATTATTT
1 ATTTTGAATATTT
93431765 TGTAATTTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
18 7 0.15
19 10 0.21
20 30 0.64
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (20 bp):
ATTTTGAATATTTAAAAATT
Found at i:93432826 original size:22 final size:20
Alignment explanation
Indices: 93432793--93432832 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
93432783 TTTGTTTGGA
93432793 AATTTTAGGAATTCTTTTTGC
1 AATTTTAGGAATT-TTTTTGC
*
93432814 AATTTTAATGAATTTTTTT
1 AATTTT-AGGAATTTTTTT
93432833 ATGTTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.57
Consensus pattern (20 bp):
AATTTTAGGAATTTTTTTGC
Found at i:93436761 original size:18 final size:18
Alignment explanation
Indices: 93436720--93436754 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
93436710 GCCAGGTGTG
*
93436720 TATCCTAGCCCTTATATA
1 TATCCTAACCCTTATATA
93436738 TATCCTAACCCTTATAT
1 TATCCTAACCCTTATAT
93436755 GTTTCCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.40
Consensus pattern (18 bp):
TATCCTAACCCTTATATA
Found at i:93440196 original size:124 final size:122
Alignment explanation
Indices: 93439976--93440197 Score: 284
Period size: 124 Copynumber: 1.8 Consensus size: 122
93439966 GAATTATGTG
* * * * *
93439976 GAATGAAATATGGATGTATTGATTATTGATTTATGTGTGTATGAGTATTCGAATAATGCCCGGGC
1 GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
* * * **
93440041 TAAGTCCCGAAGGCGATTATGCTAGTGATTATAATTGTGTTTGAGCCTTAGTAACGA
66 TAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
* * *
93440098 GAATGAAATATGTATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATT-GAATGATATCCG
1 GAATGAAATATGGATGT--AATGATTATTGATGTATGTGTGCATGAG-AATTCGAATAATACCCG
*
93440162 GGCTAAGCCCCGAAGACAATTATGCTGGAAATTATA
63 GGCTAAGCCCCGAAGACAATTATGCTAGAAATTATA
93440198 TCCGGGTTAA
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
122 16 0.19
124 64 0.77
125 3 0.04
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (122 bp):
GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
TAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
Found at i:93440249 original size:40 final size:40
Alignment explanation
Indices: 93440156--93440306 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 40
93440146 AATTGAATGA
* * * *
93440156 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
93440196 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
* *
93440237 -ATTCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
93440276 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
93440307 ACATGGTTAT
Statistics
Matches: 90, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.06
40 78 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:93440320 original size:40 final size:40
Alignment explanation
Indices: 93440155--93440322 Score: 130
Period size: 40 Copynumber: 4.2 Consensus size: 40
93440145 AAATTGAATG
* * *
93440155 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAA--ATT
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCGAATGGTT
* * * * *
93440195 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTT
* * * **
93440235 ACATTCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTT
*
93440275 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTT
93440315 ATATCCGG
1 ATATCCGG
93440323 TTGTATTCCG
Statistics
Matches: 97, Mismatches: 26, Indels: 10
0.73 0.20 0.08
Matches are distributed among these distances:
37 2 0.02
38 3 0.03
39 4 0.04
40 88 0.91
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTT
Found at i:93443708 original size:40 final size:40
Alignment explanation
Indices: 93443663--93443828 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
93443653 CGGAATATAA
93443663 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
93443703 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
93443743 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
93443783 CCGGATATAATTTCCAGCATAATTGTCTTC-GG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
93443821 CCGGATAT
1 CCGGATAT
93443829 CATTCAATTT
Statistics
Matches: 106, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
38 13 0.12
39 3 0.03
40 90 0.85
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:93443813 original size:80 final size:78
Alignment explanation
Indices: 93443663--93443828 Score: 194
Period size: 80 Copynumber: 2.1 Consensus size: 78
93443653 CGGAATATAA
* *
93443663 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
93443728 CCTTCGGGCCTTAGC
66 CCTTC-GG-CTTAGC
* * ** *
93443743 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
93443805 TTGTCTTCGGCTTAGC
64 -TGCCTTCGGCTTAGC
93443821 CCGGATAT
1 CCGGATAT
93443829 CATTCAATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 14 0.19
79 6 0.08
80 55 0.73
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (78 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGCTTAGC
Found at i:93444675 original size:17 final size:19
Alignment explanation
Indices: 93444652--93444697 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
93444642 AAGAAGCATG
93444652 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
93444670 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
93444688 AATCATGCTC
1 AATCATGCTC
93444698 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:93447045 original size:38 final size:39
Alignment explanation
Indices: 93446987--93447067 Score: 112
Period size: 38 Copynumber: 2.1 Consensus size: 39
93446977 GAGTCCCGAA
* *
93446987 GAAGGCATTGTGCGAGTTACTA-AATCCGGGTTAAGTCCC
1 GAAGGCATTGTGCGAATTACTATAA-CCGGGCTAAGTCCC
*
93447026 GAAGGCATT-TGCGAATTACTATAACCGGGCTATGTCCC
1 GAAGGCATTGTGCGAATTACTATAACCGGGCTAAGTCCC
93447064 GAAG
1 GAAG
93447068 ACAATCGAGC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
38 27 0.71
39 11 0.29
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
GAAGGCATTGTGCGAATTACTATAACCGGGCTAAGTCCC
Found at i:93454935 original size:40 final size:40
Alignment explanation
Indices: 93454867--93455063 Score: 288
Period size: 40 Copynumber: 4.9 Consensus size: 40
93454857 TTCGAATGGT
* * * * *
93454867 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAA
*
93454908 ATCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTATCAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAA
* *
93454947 ATTCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAA
*
93454987 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAA
*
93455027 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTAC
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTAC
93455064 TGTAACCGGG
Statistics
Matches: 143, Mismatches: 12, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 17 0.12
40 114 0.80
41 12 0.08
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAA
Found at i:93460284 original size:17 final size:16
Alignment explanation
Indices: 93460264--93460300 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 16
93460254 TTTTATTAAG
93460264 TTTTTAAGATTCATTT
1 TTTTTAAGATTCATTT
93460280 ATTTTTAAGATTCATTT
1 -TTTTTAAGATTCATTT
93460297 TTTT
1 TTTT
93460301 CCTTTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.65
Consensus pattern (16 bp):
TTTTTAAGATTCATTT
Found at i:93469444 original size:35 final size:35
Alignment explanation
Indices: 93469393--93469462 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
93469383 TCATCCCTCT
93469393 TCCGCTTATTTGCTAAAAGCT-CTTTTAAAAATTTC
1 TCCGCTTATTTGCTAAAAGCTGC-TTTAAAAATTTC
*
93469428 TCCGTTTATTTGCTAAAAGCTGCTTTAAAAATTTC
1 TCCGCTTATTTGCTAAAAGCTGCTTTAAAAATTTC
93469463 ATTGCGTTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
35 32 0.97
36 1 0.03
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (35 bp):
TCCGCTTATTTGCTAAAAGCTGCTTTAAAAATTTC
Found at i:93472504 original size:33 final size:33
Alignment explanation
Indices: 93472467--93472535 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
93472457 CGAGCAATTA
*
93472467 AATTATATGGGTAATAATCTTCAACCTTAAAAT
1 AATTATATGGGTAATAATCTTCAACCTCAAAAT
93472500 AATTATATGGGTAATAATCTTCAACCTCAAAAT
1 AATTATATGGGTAATAATCTTCAACCTCAAAAT
93472533 AAT
1 AAT
93472536 CCCTATAGCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (33 bp):
AATTATATGGGTAATAATCTTCAACCTCAAAAT
Found at i:93474216 original size:13 final size:13
Alignment explanation
Indices: 93474198--93474222 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93474188 CGGCAGAGAC
93474198 ACAGCCGTGTGAT
1 ACAGCCGTGTGAT
93474211 ACAGCCGTGTGA
1 ACAGCCGTGTGA
93474223 AAATAGGGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.20
Consensus pattern (13 bp):
ACAGCCGTGTGAT
Found at i:93478317 original size:28 final size:27
Alignment explanation
Indices: 93478254--93478323 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
93478244 ATAGTGAGTC
93478254 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
93478281 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
93478309 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
93478324 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:93489900 original size:48 final size:48
Alignment explanation
Indices: 93489838--93490006 Score: 198
Period size: 48 Copynumber: 3.6 Consensus size: 48
93489828 TGATGTGTGT
* * * *
93489838 GCTAATGTAAGACATGTCTAGGACATGCATCGGCCTGGAGATGTACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTACAA
* ** * * *
93489886 GCCAGTGTAAGACATGTCTGGGACATGCATCAGAATTGAGACG-A-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTACAA
* *
93489932 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTACAA
* *
93489980 GCTAGTGTAAGACCTGTCTGGAACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
93490007 GTGTTAGCTT
Statistics
Matches: 100, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
46 37 0.37
47 2 0.02
48 61 0.61
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.22
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGTACAA
Found at i:93490151 original size:49 final size:49
Alignment explanation
Indices: 93490033--93490151 Score: 139
Period size: 49 Copynumber: 2.4 Consensus size: 49
93490023 TGTCAGTGTA
* * * *
93490033 ACCTGTCTGGGACATGGCATCAACATCGATAAATGAGAGCCAGTGTAAG
1 ACCTGTCTGGGACATGGCATTAACATCGATAAATAAAAGCCAATGTAAG
* * * * * *
93490082 ACCTATCTGGGACACGGCATTAGCCTCGATATATAAAAGTCAATGTAAG
1 ACCTGTCTGGGACATGGCATTAACATCGATAAATAAAAGCCAATGTAAG
*
93490131 ACCTGTGTGGGACATGGCATT
1 ACCTGTCTGGGACATGGCATT
93490152 GACTTTGATG
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 57 1.00
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (49 bp):
ACCTGTCTGGGACATGGCATTAACATCGATAAATAAAAGCCAATGTAAG
Found at i:93493754 original size:46 final size:46
Alignment explanation
Indices: 93493704--93493876 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
93493694 TGGTTGAGCA
* *
93493704 TCCGAACTCGTTAAGTTAAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
93493750 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
93493795 CATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
93493843 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
93493877 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.56
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:93493860 original size:93 final size:93
Alignment explanation
Indices: 93493701--93493871 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
93493691 GGATGGTTGA
* *
93493701 GCATCCGAACTCGTTAAGTTAAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
93493766 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * * *
93493794 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
93493859 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
93493872 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTAAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:93496042 original size:46 final size:46
Alignment explanation
Indices: 93495877--93496044 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 46
93495867 TGGTTGAGCA
* *
93495877 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACG
* * * *
93495923 T-CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAA--A--CG
* *
93495969 TCCAAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACG
*
93496015 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA
93496045 CTTAGGGGCG
Statistics
Matches: 101, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
42 6 0.06
44 3 0.03
45 27 0.27
46 31 0.31
47 26 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACG
Found at i:93496309 original size:19 final size:20
Alignment explanation
Indices: 93496272--93496309 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
93496262 ATAAGGTGGT
93496272 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
93496292 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
93496310 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:93503756 original size:46 final size:46
Alignment explanation
Indices: 93503706--93503877 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
93503696 TGGTTGAGCA
93503706 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
93503752 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C--GTGGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
93503796 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
93503844 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
93503878 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 7, Indels: 20
0.80 0.05 0.15
Matches are distributed among these distances:
41 2 0.02
42 7 0.06
44 2 0.02
46 88 0.81
48 2 0.02
50 6 0.06
51 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:93503860 original size:92 final size:92
Alignment explanation
Indices: 93503703--93503872 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
93503693 GGATGGTTGA
* *
93503703 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
93503768 TGAGTCCGAGTTCGTGGATGTAACTAG
66 TGAGTCCGAGTTCGTGGATGTAACTAG
*
93503795 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
93503860 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
93503873 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGGATGTAACTAG
Found at i:93511959 original size:29 final size:29
Alignment explanation
Indices: 93511926--93512008 Score: 157
Period size: 29 Copynumber: 2.9 Consensus size: 29
93511916 GTGACGAGAT
*
93511926 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
93511955 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
93511984 TGGCACTAAGTGTGCATGCTGGAAA
1 TGGCACTAAGTGTGCATGCTGGAAA
93512009 AAAATACGGC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:93512029 original size:31 final size:29
Alignment explanation
Indices: 93511927--93512021 Score: 127
Period size: 29 Copynumber: 3.2 Consensus size: 29
93511917 TGACGAGATT
* * *
93511927 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
* *
93511956 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
93511985 GGCACTAAGTGTGCATGCTGGAAAAAAATAC
1 GGCACTAAGTGTGCATGCTGG--AAAAATAC
93512016 GGCACT
1 GGCACT
93512022 GGGTGTGCGA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
29 49 0.80
31 12 0.20
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAC
Found at i:93512049 original size:60 final size:58
Alignment explanation
Indices: 93511922--93512058 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 58
93511912 TACGGTGACG
* * * *
93511922 AGAT-TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
* **
93511979 ATATATGGCACTAAGTGTGCATGCTGGAAAAAAATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGG--AAAAATACGGCACTAAGTGTGC-ATGCTCGAA
* * *
93512039 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
93512059 GGGCTTAAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
57 3 0.05
58 21 0.32
60 40 0.62
61 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
Found at i:93514438 original size:46 final size:46
Alignment explanation
Indices: 93514388--93514556 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
93514378 TGGTTGAGCA
93514388 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * **
93514434 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GAT-ATAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
93514479 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
93514527 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCA
93514557 TTTAGGGGCG
Statistics
Matches: 103, Mismatches: 10, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 55 0.53
47 29 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:93514544 original size:93 final size:93
Alignment explanation
Indices: 93514385--93514555 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
93514375 GGATGGTTGA
*
93514385 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
93514450 TGAGTCCGAGTTCGTGAGATATAACTAG
66 TGAGTCCGAGTTCGTGAGATATAACTAG
*
93514478 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
93514542 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
93514556 ATTTAGGGGC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATATAACTAG
Found at i:93521005 original size:26 final size:26
Alignment explanation
Indices: 93520976--93521028 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
93520966 TACAGGAAGT
93520976 TAGTTTTCTTGGGCATATAGTATCTA
1 TAGTTTTCTTGGGCATATAGTATCTA
93521002 TAGTTTTCTTGGGCATATAGTATCTA
1 TAGTTTTCTTGGGCATATAGTATCTA
93521028 T
1 T
93521029 TGAAGGTGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.11, G:0.19, T:0.47
Consensus pattern (26 bp):
TAGTTTTCTTGGGCATATAGTATCTA
Found at i:93525830 original size:21 final size:20
Alignment explanation
Indices: 93525802--93525841 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
93525792 TAGTACACAG
93525802 CCTAACCACAC-GAGCGTGTC
1 CCTAACCACACAG-GCGTGTC
93525822 CCTAGACCACACAGGCGTGT
1 CCTA-ACCACACAGGCGTGT
93525842 GAGCCCTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 13 0.72
22 1 0.06
ACGTcount: A:0.25, C:0.38, G:0.23, T:0.15
Consensus pattern (20 bp):
CCTAACCACACAGGCGTGTC
Found at i:93531092 original size:21 final size:22
Alignment explanation
Indices: 93531066--93531111 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
93531056 AGCATGGGCG
*
93531066 TGTCCC-AGGGTCACACAGGCT
1 TGTCCCTAGGATCACACAGGCT
* *
93531087 TGTCCCTCGGATCACACGGGCT
1 TGTCCCTAGGATCACACAGGCT
93531109 TGT
1 TGT
93531112 GTGCCTTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.15, C:0.33, G:0.28, T:0.24
Consensus pattern (22 bp):
TGTCCCTAGGATCACACAGGCT
Found at i:93542708 original size:40 final size:40
Alignment explanation
Indices: 93542663--93542830 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
93542653 CGGAATATAA
93542663 CCGGATATAACCAC-ATGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTA-GCACAAATGCCTTCGGGTCTTAGC
* *** * *
93542703 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
93542743 CCGGATGTAGCCACTAGCACAATTGCCTTCGAGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
93542783 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
93542823 CCGGATAT
1 CCGGATAT
93542831 CATTCAATTT
Statistics
Matches: 99, Mismatches: 28, Indels: 2
0.77 0.22 0.02
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:93542813 original size:80 final size:80
Alignment explanation
Indices: 93542679--93542828 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
93542669 ATAACCACAT
* * *
93542679 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGAGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
93542744 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
93542759 GCACAATTGCCTTCGAGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGAGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
93542822 CCCGGAT
64 CCCGGAT
93542829 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGAGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:93547976 original size:17 final size:18
Alignment explanation
Indices: 93547934--93547982 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
93547924 AGTTGAAAAG
93547934 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
93547953 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
93547970 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
93547983 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:93548869 original size:40 final size:40
Alignment explanation
Indices: 93548803--93548969 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
93548793 AAATTGAATG
* * *
93548803 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
93548842 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
93548882 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
93548922 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
93548962 ATATCCGG
1 ATATCCGG
93548970 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:93556876 original size:40 final size:40
Alignment explanation
Indices: 93556832--93556943 Score: 138
Period size: 39 Copynumber: 2.8 Consensus size: 40
93556822 TGCTGGAAAT
* * **
93556832 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCAC
*
93556872 TATATCCGGGCTAAGACCC-AAGGC-ATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCAC
* *
93556911 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGC
93556944 ACATGCTTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
38 3 0.05
39 30 0.48
40 27 0.44
41 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCAC
Found at i:93556957 original size:40 final size:39
Alignment explanation
Indices: 93556831--93556959 Score: 138
Period size: 40 Copynumber: 3.3 Consensus size: 39
93556821 ATGCTGGAAA
* * *
93556831 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAT-GC
* *
93556872 -TATATCCGGGCTAAGACCC-AAGGCATTCGTGCGA-GTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATG-C
*
93556909 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGC
93556950 TTATATCCGG
1 TTATATCCGG
93556960 TTATATTCCG
Statistics
Matches: 73, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
36 1 0.01
37 1 0.01
39 29 0.40
40 39 0.53
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGC
Found at i:93559127 original size:25 final size:25
Alignment explanation
Indices: 93559098--93559146 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
93559088 TTATAATATG
* * *
93559098 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
93559123 AAAATGACCATTATACCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
93559147 TTATATATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:93559211 original size:20 final size:20
Alignment explanation
Indices: 93559188--93559226 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
93559178 TAAACATGGT
93559188 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
93559208 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
93559227 TGTGTTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:93559365 original size:24 final size:24
Alignment explanation
Indices: 93559276--93559393 Score: 172
Period size: 23 Copynumber: 5.0 Consensus size: 24
93559266 GAGGAAGTGC
93559276 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
93559300 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
93559323 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
93559346 GAAAAGGGCTT-TGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
*
93559370 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
93559394 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 1, Indels: 9
0.90 0.01 0.09
Matches are distributed among these distances:
23 52 0.59
24 19 0.22
25 17 0.19
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:93559619 original size:31 final size:31
Alignment explanation
Indices: 93559584--93559647 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
93559574 CGTTTACAGT
93559584 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
93559615 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
93559646 AA
1 AA
93559648 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:93567215 original size:20 final size:20
Alignment explanation
Indices: 93567192--93567230 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
93567182 TAAACATGGT
93567192 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
93567212 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
93567231 TGTGTTCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:93567312 original size:23 final size:24
Alignment explanation
Indices: 93567282--93567398 Score: 170
Period size: 23 Copynumber: 4.9 Consensus size: 24
93567272 AGGAAGTGCA
93567282 AAAGGGCTTATGCCCCAGTTATT-
1 AAAGGGCTTATGCCCCAGTTATTG
93567305 AAAGGGCTTATGCCCCAGTTATT-
1 AAAGGGCTTATGCCCCAGTTATTG
93567328 AAAGGGCTTATGCCCCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTG
93567352 AAAAGGGCTT-TGCCCCAGTTATTG
1 -AAAGGGCTTATGCCCCAGTTATTG
*
93567376 AAAGAGGC-TAGGCCTCCAGTTAT
1 AAAG-GGCTTATGCC-CCAGTTAT
93567399 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 1, Indels: 8
0.91 0.01 0.08
Matches are distributed among these distances:
23 51 0.58
24 20 0.23
25 17 0.19
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATTG
Found at i:93567628 original size:31 final size:31
Alignment explanation
Indices: 93567593--93567656 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
93567583 CGTTTACAGT
* *
93567593 AAAGGCTTTGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
**
93567624 AAAGGCTTCGACCCAGTGTTATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
93567655 AA
1 AA
93567657 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:93598692 original size:49 final size:49
Alignment explanation
Indices: 93598465--93598706 Score: 213
Period size: 49 Copynumber: 5.0 Consensus size: 49
93598455 GTAGCTGAAG
* * *
93598465 CTATCTGGTACGCATAGTAGCCTGCAATTAGTACTACACATGCGACCAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * * **
93598514 TTATCCGGTACACGTAGTA----GCACTTAGTACTACACACATGACCTAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AA
* * * * * *
93598560 CCATTTGATACACATAGTAGCTTGCACTTAGTACTACACACGTGATCGAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * * * *
93598610 GTTATCAGGTACGCATAGTAGCCTGCAGTTAGTACTACACATGCGACCAA
1 -CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * * * *
93598660 CAATCTGGTGCACGTAGTAGCTTGCACTTAGTACTACACACGTGACC
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
93598707 TCAAAATAGC
Statistics
Matches: 149, Mismatches: 37, Indels: 14
0.75 0.19 0.07
Matches are distributed among these distances:
45 20 0.13
46 15 0.10
49 52 0.35
50 26 0.17
51 36 0.24
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:93599079 original size:35 final size:35
Alignment explanation
Indices: 93599028--93599094 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
93599018 ATATTTCATA
*
93599028 ATAACAATCTTCATATCATATAAATAACATTAATG
1 ATAACAATCATCATATCATATAAATAACATTAATG
*
93599063 ATAATAATCATCATATCATATAAATAACATTA
1 ATAACAATCATCATATCATATAAATAACATTA
93599095 TATTACTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.51, C:0.13, G:0.01, T:0.34
Consensus pattern (35 bp):
ATAACAATCATCATATCATATAAATAACATTAATG
Found at i:93599097 original size:19 final size:19
Alignment explanation
Indices: 93599040--93599097 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
93599030 AACAATCTTC
93599040 ATATCATATAAATAACATT
1 ATATCATATAAATAACATT
* *
93599059 A-AT--GAT-AATAATCATC
1 ATATCATATAAATAA-CATT
93599075 ATATCATATAAATAACATT
1 ATATCATATAAATAACATT
93599094 ATAT
1 ATAT
93599098 TACTTAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
15 5 0.17
16 6 0.20
17 2 0.07
18 2 0.07
19 10 0.33
20 5 0.17
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (19 bp):
ATATCATATAAATAACATT
Found at i:93604775 original size:36 final size:37
Alignment explanation
Indices: 93604685--93604766 Score: 121
Period size: 37 Copynumber: 2.2 Consensus size: 37
93604675 TGTGAGTACG
*
93604685 TGTAAGACCATAGCTGGGCTATGGCATTGTAATGACA
1 TGTAAAACCATAGCTGGGCTATGGCATTGTAATGACA
* * *
93604722 TGTAAGACCATAGCTGGGCTATGGCATTGTGAT-CCA
1 TGTAAAACCATAGCTGGGCTATGGCATTGTAATGACA
93604758 TGTAAAACC
1 TGTAAAACC
93604767 TTGTCTGGGA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
36 10 0.24
37 32 0.76
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (37 bp):
TGTAAAACCATAGCTGGGCTATGGCATTGTAATGACA
Found at i:93604820 original size:48 final size:47
Alignment explanation
Indices: 93604749--93604891 Score: 171
Period size: 48 Copynumber: 3.0 Consensus size: 47
93604739 GCTATGGCAT
*
93604749 TGTGATCCATGTAAAACCTTGTCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCATGTAAAACCATGTCTGGGACATGGCATTGGCATCGATA
* * *
93604796 TGTGATCCCATGTAACACCATGTCTGGGACATAGCATTGGCATCGAAA
1 TGTGAT-CCATGTAAAACCATGTCTGGGACATGGCATTGGCATCGATA
* * * * * *
93604844 TGTGATTCCATGTAAGA-CATATCTAGGATATGGCATTGCCATCAATA
1 TGTGA-TCCATGTAAAACCATGTCTGGGACATGGCATTGGCATCGATA
93604891 T
1 T
93604892 ATGGTTTCGT
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
47 30 0.37
48 51 0.62
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (47 bp):
TGTGATCCATGTAAAACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:93616272 original size:17 final size:18
Alignment explanation
Indices: 93616250--93616283 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
93616240 CACATTGAAG
93616250 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
93616267 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
93616284 CTTCTTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:93617626 original size:28 final size:28
Alignment explanation
Indices: 93617516--93617635 Score: 116
Period size: 28 Copynumber: 4.2 Consensus size: 28
93617506 ATCCATACTT
* * *
93617516 ATTCATTTGGCCCCTTTAGGCCCAATCTC
1 ATTCATATGG-CCCATTAGGCCCAATCAC
** * *
93617545 ATTCATATGGCCCATCGGGCCTAGTCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
* *
93617573 ATTTATATGGCCCATCTA-GCCTAATCAC
1 ATTCATATGGCCCAT-TAGGCCCAATCAC
* *
93617601 TTTCATATGGCCCGTTAGGCCCAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
93617629 ATTCATA
1 ATTCATA
93617636 GTTATGCAAT
Statistics
Matches: 73, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
27 2 0.03
28 62 0.85
29 9 0.12
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (28 bp):
ATTCATATGGCCCATTAGGCCCAATCAC
Found at i:93624504 original size:7 final size:7
Alignment explanation
Indices: 93624492--93624516 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
93624482 GAATGAGCAT
93624492 TATGTGA
1 TATGTGA
93624499 TATGTGA
1 TATGTGA
93624506 TATGTGA
1 TATGTGA
93624513 TATG
1 TATG
93624517 AAGTAGCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (7 bp):
TATGTGA
Found at i:93626549 original size:15 final size:17
Alignment explanation
Indices: 93626529--93626563 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
93626519 GCTAAAGGTC
93626529 ATAAAAT-TT-TAAAAA
1 ATAAAATATTATAAAAA
93626544 ATAAAATATTATAAAAA
1 ATAAAATATTATAAAAA
93626561 ATA
1 ATA
93626564 CCGCAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 2 0.11
17 9 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAAATATTATAAAAA
Found at i:93628267 original size:29 final size:29
Alignment explanation
Indices: 93628234--93628324 Score: 164
Period size: 29 Copynumber: 3.1 Consensus size: 29
93628224 TTTTATACCG
93628234 GAATAACATTGACTACATTAAAAAATTCT
1 GAATAACATTGACTACATTAAAAAATTCT
*
93628263 GAATAACATTGGCTACATTAAAAAATTCT
1 GAATAACATTGACTACATTAAAAAATTCT
93628292 GAATAACATTGACTACATTAAAAAATTGCT
1 GAATAACATTGACTACATTAAAAAATT-CT
93628322 GAA
1 GAA
93628325 ATCTAGACTC
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
29 54 0.92
30 5 0.08
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (29 bp):
GAATAACATTGACTACATTAAAAAATTCT
Found at i:93631754 original size:14 final size:14
Alignment explanation
Indices: 93631720--93631798 Score: 79
Period size: 14 Copynumber: 5.6 Consensus size: 14
93631710 CCCATAAACA
* * *
93631720 CTAAACACTGAACA
1 CTAAACCCTTAACC
93631734 CTAAACCCTTAACC
1 CTAAACCCTTAACC
*
93631748 CTTAACCCTTAACC
1 CTAAACCCTTAACC
*
93631762 CCAAACCCTTACACC
1 CTAAACCCTTA-ACC
* *
93631777 TTAAACTC-TAACC
1 CTAAACCCTTAACC
93631790 CTAAACCCT
1 CTAAACCCT
93631799 AAACTATAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
13 9 0.17
14 35 0.67
15 8 0.15
ACGTcount: A:0.37, C:0.41, G:0.01, T:0.22
Consensus pattern (14 bp):
CTAAACCCTTAACC
Found at i:93631799 original size:7 final size:7
Alignment explanation
Indices: 93631683--93631802 Score: 64
Period size: 7 Copynumber: 16.9 Consensus size: 7
93631673 ACTAATTAAT
93631683 CTAAACC
1 CTAAACC
*
93631690 CTAAGCC
1 CTAAACC
*
93631697 TCTTAACCC
1 -C-TAAACC
*
93631706 CT-ATCC
1 CTAAACC
*
93631712 CATAAACA
1 C-TAAACC
*
93631720 CTAAACA
1 CTAAACC
* *
93631727 CTGAACA
1 CTAAACC
93631734 CTAAACC
1 CTAAACC
*
93631741 CTTAACC
1 CTAAACC
*
93631748 CTTAACC
1 CTAAACC
*
93631755 CTTAACC
1 CTAAACC
*
93631762 CCAAACC
1 CTAAACC
*
93631769 CTTACACC
1 C-TAAACC
* *
93631777 TTAAACT
1 CTAAACC
93631784 CT-AACC
1 CTAAACC
93631790 CTAAACC
1 CTAAACC
93631797 CTAAAC
1 CTAAAC
93631803 TATAATCTCT
Statistics
Matches: 89, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
6 9 0.10
7 66 0.74
8 9 0.10
9 5 0.06
ACGTcount: A:0.38, C:0.40, G:0.02, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:93631803 original size:20 final size:21
Alignment explanation
Indices: 93631778--93631818 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
93631768 CCTTACACCT
*
93631778 TAAACTCTAA-CCCTAAACCC
1 TAAACTATAATCCCTAAACCC
*
93631798 TAAACTATAATCTCTAAACCC
1 TAAACTATAATCCCTAAACCC
93631819 ATAATTCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAACTATAATCCCTAAACCC
Found at i:93631887 original size:14 final size:14
Alignment explanation
Indices: 93631856--93631902 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
93631846 AATTAACTCC
* *
93631856 TAAACCTTAAACCC
1 TAAACCATAAACCT
* *
93631870 TAAACCATATATCT
1 TAAACCATAAACCT
93631884 TAAACCATAAACCT
1 TAAACCATAAACCT
93631898 TAAAC
1 TAAAC
93631903 TGTAATGATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAACCATAAACCT
Found at i:93632295 original size:123 final size:122
Alignment explanation
Indices: 93632074--93632464 Score: 451
Period size: 123 Copynumber: 3.2 Consensus size: 122
93632064 GTTATATGAC
* * ** * *
93632074 TTTTAGTGGCGTTTTAGGAAAAGCGCTGCTAATGCTCTGGTTTTTATCAGTGTTTTACCGAAAGT
1 TTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAAC-GTGTTTTACCGAAAGT
* * * *
93632139 TCCGCTAATGCTCTGGTATTTAGTGGCAGTTTATCGAAAGCGCCGCTAATGCTCTGGT
65 GCCGCTAATGCTCTGGTTTTTAGCGGCATTTTATCGAAAGCGCCGCTAATGCTCTGGT
* * * * *
93632197 TTTTAGCGGTGATTTACCGAAAGCGCCGCTAATGCTCTGGTATTTAGCGCCGTTTTACCGAAAGT
1 TTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAACG-TGTTTTACCGAAAGT
* *
93632262 GCCGCTAATGCTCTGGTTTTTAGCGGCATTTTATAGAAAGCGCTGCTAATGCTCTGGT
65 GCCGCTAATGCTCTGGTTTTTAGCGGCATTTTATCGAAAGCGCCGCTAATGCTCTGGT
** * * * * *
93632320 TTTTAATGGGGTTTTACCAAAAGCGCCACTAATACTCTAGTTTTTAACGGTGTTTTACCGAAAGC
1 TTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAAC-GTGTTTTACCGAAAGT
* * * * * * * *
93632385 GCCACTATTGCTCTTGTTTTTAGCGGCATTTTAGCAAAAAACGCCACTATTGCTCT-GT
65 GCCGCTAATGCTCTGGTTTTTAGCGGCATTTTATC-GAAAGCGCCGCTAATGCTCTGGT
93632443 TTTTAGCGGTGTTTTACCAAAA
1 TTTTAGCGGTGTTTTACCAAAA
93632465 ACGCTGCTCT
Statistics
Matches: 224, Mismatches: 41, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
122 1 0.00
123 207 0.92
124 16 0.07
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.36
Consensus pattern (122 bp):
TTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAACGTGTTTTACCGAAAGTG
CCGCTAATGCTCTGGTTTTTAGCGGCATTTTATCGAAAGCGCCGCTAATGCTCTGGT
Found at i:93632465 original size:41 final size:41
Alignment explanation
Indices: 93632074--93632460 Score: 375
Period size: 41 Copynumber: 9.4 Consensus size: 41
93632064 GTTATATGAC
* * *
93632074 TTTTAGTGGCGTTTTA-GGAAAAGCGCTGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCG-AAAGCGCCGCTAATGCTCTGGT
* * * **
93632115 TTTTATCAGTGTTTTACCGAAAGTTCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* * *
93632156 ATTTAGTGGCAG-TTTATCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGC-GTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* *
93632197 TTTTAGCGGTGATTTACCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* * *
93632238 ATTTAGCGCCGTTTTACCGAAAGTGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* ** *
93632279 TTTTAGCGGCATTTTATAGAAAGCGCTGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
** * * * * *
93632320 TTTTAATGGGGTTTTACCAAAAGCGCCACTAATACTCTAGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* * * * *
93632361 TTTTAACGGTGTTTTACCGAAAGCGCCACTATTGCTCTTGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* ** * * *
93632402 TTTTAGCGGCATTTTAGCAAAAAACGCCACTATTGCTCT-GT
1 TTTTAGCGGCGTTTTA-CCGAAAGCGCCGCTAATGCTCTGGT
*
93632443 TTTTAGCGGTGTTTTACC
1 TTTTAGCGGCGTTTTACC
93632461 AAAAACGCTG
Statistics
Matches: 284, Mismatches: 58, Indels: 9
0.81 0.17 0.03
Matches are distributed among these distances:
40 2 0.01
41 261 0.92
42 21 0.07
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
Found at i:93632488 original size:41 final size:40
Alignment explanation
Indices: 93632330--93632488 Score: 165
Period size: 41 Copynumber: 3.9 Consensus size: 40
93632320 TTTTAATGGG
* * *
93632330 GTTTTACCAAAAGCGCCACTAATACTCTAGTTTTTAACGGT
1 GTTTTACCAAAAACGCCACTATTACTCT-GTTTTTAGCGGT
* * * *
93632371 GTTTTACCGAAAGCGCCACTATTGCTCTTGTTTTTAGCGGC
1 GTTTTACCAAAAACGCCACTATTACTC-TGTTTTTAGCGGT
* * *
93632412 ATTTTAGCAAAAAACGCCACTATTGCTCTGTTTTTAGCGGT
1 GTTTTA-CCAAAAACGCCACTATTACTCTGTTTTTAGCGGT
** *
93632453 GTTTTACCAAAAACGCTGCTCTTACTCTGTATTTTA
1 GTTTTACCAAAAACGCCACTATTACTCTGT-TTTTA
93632489 CAATTTTTGC
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
40 19 0.19
41 61 0.62
42 19 0.19
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (40 bp):
GTTTTACCAAAAACGCCACTATTACTCTGTTTTTAGCGGT
Found at i:93637931 original size:29 final size:28
Alignment explanation
Indices: 93637897--93637999 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 28
93637887 TACTCAATCA
93637897 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCC
* * * *
93637926 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCC
* *
93637955 CGCACACTTAGTGCCGTACATTACAAGCTC
1 CGCACACTTAGTGCCATATATT-CAAGC-C
*
93637985 C-CACACTCAGTGCCA
1 CGCACACTTAGTGCCA
93638000 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
28 2 0.03
29 56 0.95
30 1 0.02
ACGTcount: A:0.29, C:0.34, G:0.16, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCC
Found at i:93639758 original size:22 final size:22
Alignment explanation
Indices: 93639724--93639788 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
93639714 GCAAATACGT
*
93639724 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
93639746 TTGGCATAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
93639768 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
93639789 AATAATTGGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:93639992 original size:41 final size:41
Alignment explanation
Indices: 93639935--93640052 Score: 191
Period size: 41 Copynumber: 2.9 Consensus size: 41
93639925 GCCACCGGTT
93639935 GATCCACGGTCGTCAAGCAACCATGCGATCCTTAATCGATG
1 GATCCACGGTCGTCAAGCAACCATGCGATCCTTAATCGATG
* * *
93639976 GATCCACGGTCGTCAAGCAACCATGCAATCCTCAATCGCTG
1 GATCCACGGTCGTCAAGCAACCATGCGATCCTTAATCGATG
* *
93640017 GATCCACGATCGTCAAACAACCATGCGATCCTTAAT
1 GATCCACGGTCGTCAAGCAACCATGCGATCCTTAAT
93640053 TTCTTCCTCC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (41 bp):
GATCCACGGTCGTCAAGCAACCATGCGATCCTTAATCGATG
Found at i:93640342 original size:27 final size:27
Alignment explanation
Indices: 93640310--93640713 Score: 248
Period size: 27 Copynumber: 15.0 Consensus size: 27
93640300 TTGGTAAATC
93640310 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* * * *
93640337 TGCAAACTAATGGTATTTCTGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
** ** * *
93640364 TTGAAAGTTAAAGGTATTTCTGTAATTT
1 TACAAA-CCAAGGGTATTTCAGTAATTT
* * *
93640392 T-CTAAATCAGGGGTATTTCTGTAATTT
1 TAC-AAACCAAGGGTATTTCAGTAATTT
* **
93640419 T-CTAAACCAGGGGTATTTTGGTAATTT
1 TAC-AAACCAAGGGTATTTCAGTAATTT
*
93640446 T-CTAAATCAAGGGTATTTC-GATAATTT
1 TAC-AAACCAAGGGTATTTCAG-TAATTT
* ** **
93640473 TTCAAATTAAGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* * *
93640500 TACAAATCGAGGGTATTTCAATAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* **
93640527 CACAAGTCAAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* * **
93640554 TACAAACCAGGGGAATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
** *
93640581 TACAAA-TGAGAGGTATTT-TGATAATTT
1 TACAAACCAAG-GGTATTTCAG-TAATTT
* *
93640608 TACAAACCAGGGGTATTTTAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* * * **
93640635 CACTAATCGAA-GGTATTTTGGTAATTT
1 TAC-AAACCAAGGGTATTTCAGTAATTT
** *
93640662 TGTAAACTAAGGGTA-TTCAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
** *
93640688 TGTAAACTAAGGGTATTTCAGTAATT
1 TACAAACCAAGGGTATTTCAGTAATT
93640714 CTACCCTACA
Statistics
Matches: 307, Mismatches: 58, Indels: 24
0.79 0.15 0.06
Matches are distributed among these distances:
26 32 0.10
27 244 0.79
28 31 0.10
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTCAGTAATTT
Found at i:93640774 original size:27 final size:26
Alignment explanation
Indices: 93640697--93640777 Score: 99
Period size: 26 Copynumber: 3.1 Consensus size: 26
93640687 TTGTAAACTA
*
93640697 AGGGTATTTCAGTAATTCTACCCTAC
1 AGGGTATTTCAGTAATACTACCCTAC
* * * *
93640723 AGGGCATTTAAGTAATCCTACCCTAT
1 AGGGTATTTCAGTAATACTACCCTAC
*
93640749 AGGGGTATTTCAGTAATACTAGCCTAC
1 A-GGGTATTTCAGTAATACTACCCTAC
93640776 AG
1 AG
93640778 ATATGAGATT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 24 0.53
27 21 0.47
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (26 bp):
AGGGTATTTCAGTAATACTACCCTAC
Found at i:93643880 original size:46 final size:46
Alignment explanation
Indices: 93643812--93643983 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
93643802 AACCCGCCCC
* *
93643812 TAAGTGAACTC-GACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
* *
93643857 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATACCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--A-C--GTTCGCATCCA
* * * * *
93643905 TCA-CGAACTCAGACTCAACTCAACAAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
93643950 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
93643984 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 15, Indels: 19
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 14 0.14
46 47 0.46
47 26 0.25
48 2 0.02
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
Found at i:93643927 original size:93 final size:92
Alignment explanation
Indices: 93643817--93643984 Score: 291
Period size: 93 Copynumber: 1.8 Consensus size: 92
93643807 GCCCCTAAGT
* * *
93643817 GAACTCGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
93643882 GAGTTCGGATACCTAGTTACATTTCAC
66 GAGTTCGGATACCTAGTTACATTTCAC
*
93643909 GAACTCAGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTC-GACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
93643974 CGAGTTCGGAT
65 CGAGTTCGGAT
93643985 GCTCAACCAT
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
92 6 0.08
93 65 0.92
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (92 bp):
GAACTCGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATACCTAGTTACATTTCAC
Found at i:93647080 original size:6 final size:6
Alignment explanation
Indices: 93647071--93647248 Score: 143
Period size: 6 Copynumber: 28.8 Consensus size: 6
93647061 AATTAAAATG
* *
93647071 AGAATC AGAATC AGAATC AGAATC AGAATC A-AGTGAC AGAATC AAAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
93647120 AAAATC AGAATC AGAATT AGGTAA-C AGAATC AGAATC AGTATC AGGTAA-C
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC A-G-AATC
* *
93647170 AGAATC AGAATC AGAACC AGAATC AGAATT AGGTAA-C AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
*
93647219 A-ATATC AGGTAA-C AGAATT AGAATC AGAAT
1 AGA-ATC A-G-AATC AGAATC AGAATC AGAAT
93647249 ATGAATGCAA
Statistics
Matches: 141, Mismatches: 14, Indels: 34
0.75 0.07 0.18
Matches are distributed among these distances:
5 11 0.08
6 110 0.78
7 11 0.08
8 8 0.06
9 1 0.01
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:93647080 original size:18 final size:18
Alignment explanation
Indices: 93647059--93647138 Score: 72
Period size: 18 Copynumber: 4.4 Consensus size: 18
93647049 TTAAAGAACT
*
93647059 AGAATTAAAATGAGAATC
1 AGAATTAAAATCAGAATC
* *
93647077 AGAATCAGAATCAGAATC
1 AGAATTAAAATCAGAATC
* *
93647095 AGAA-TCAAGTGACAGAATC
1 AGAATTAAAAT--CAGAATC
* *
93647114 AAAATCAAAATCAGAATC
1 AGAATTAAAATCAGAATC
93647132 AGAATTA
1 AGAATTA
93647139 GGTAACAGAA
Statistics
Matches: 46, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
17 2 0.04
18 31 0.67
19 10 0.22
20 3 0.07
ACGTcount: A:0.54, C:0.12, G:0.15, T:0.19
Consensus pattern (18 bp):
AGAATTAAAATCAGAATC
Found at i:93647113 original size:25 final size:24
Alignment explanation
Indices: 93647071--93647248 Score: 143
Period size: 25 Copynumber: 7.2 Consensus size: 24
93647061 AATTAAAATG
93647071 AGAATCAGAATCAGAATCAGAATC
1 AGAATCAGAATCAGAATCAGAATC
* *
93647095 AGAATCA-AGTGACAGAATCAAAATC
1 AGAATCAGAAT--CAGAATCAGAATC
* *
93647120 AAAATCAGAATCAGAATTAGGTAA-C
1 AGAATCAGAATCAGAATCA-G-AATC
*
93647145 AGAATCAGAATCAGTATCAGGTAA-C
1 AGAATCAGAATCAGAATCA-G-AATC
*
93647170 AGAATCAGAATCAGAACCAGAATC
1 AGAATCAGAATCAGAATCAGAATC
*
93647194 AGAATTAGGTAA-CAGAATCAGAATC
1 AGAATCA-G-AATCAGAATCAGAATC
*
93647219 A-ATATCAGGTAA-CAGAATTAGAATC
1 AGA-ATCA-G-AATCAGAATCAGAATC
93647244 AGAAT
1 AGAAT
93647249 ATGAATGCAA
Statistics
Matches: 129, Mismatches: 15, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
23 4 0.03
24 23 0.18
25 95 0.74
26 7 0.05
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAGAATC
Found at i:93647113 original size:37 final size:37
Alignment explanation
Indices: 93647071--93647198 Score: 145
Period size: 37 Copynumber: 3.5 Consensus size: 37
93647061 AATTAAAATG
*
93647071 AGAATCAGAATCAGAATCAGAATCAGAATCAAGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAAGTAAC
* * * *
93647108 AGAATCAAAATCAAAATCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAAGTAAC
*
93647145 AGAATCAGAATCAGTATCAGGTAA-CAGAATC-AG-AATC
1 AGAATCAGAATCAGAATCA-G-AATCAGAATCAAGTAA-C
*
93647182 AGAACCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
93647199 TAGGTAACAG
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
36 2 0.03
37 65 0.86
38 7 0.09
39 2 0.03
ACGTcount: A:0.50, C:0.16, G:0.17, T:0.17
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAAGTAAC
Found at i:93647204 original size:37 final size:37
Alignment explanation
Indices: 93647144--93647219 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
93647134 AATTAGGTAA
* *
93647144 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAAT
1 CAGAACCAGAATCAGAATCAGGTAACAGAATCAGAAT
*
93647181 CAGAACCAGAATCAGAATTAGGTAACAGAATCAGAAT
1 CAGAACCAGAATCAGAATCAGGTAACAGAATCAGAAT
93647218 CA
1 CA
93647220 ATATCAGGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.47, C:0.17, G:0.18, T:0.17
Consensus pattern (37 bp):
CAGAACCAGAATCAGAATCAGGTAACAGAATCAGAAT
Found at i:93647242 original size:62 final size:62
Alignment explanation
Indices: 93647082--93647247 Score: 253
Period size: 62 Copynumber: 2.7 Consensus size: 62
93647072 GAATCAGAAT
* * * * *
93647082 CAGAATCAGAATCAGA-ATCAAGTGACAGAATCAAAATCAAAATCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCA-ATATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAA
*
93647144 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAATATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAA
*
93647206 CAGAATCAGAATCAATATCAGGTAACAGAATTAGAATCAGAA
1 CAGAATCAGAATCAATATCAGGTAACAGAATCAGAATCAGAA
93647248 TATGAATGCA
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
62 95 1.00
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.18
Consensus pattern (62 bp):
CAGAATCAGAATCAATATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAA
Found at i:93647245 original size:19 final size:19
Alignment explanation
Indices: 93647071--93647219 Score: 121
Period size: 19 Copynumber: 7.7 Consensus size: 19
93647061 AATTAAAATG
93647071 AGAATCAGAATCA-G-AATC
1 AGAATCAGAATCAGGTAA-C
* *
93647089 AGAATCAGAATCAAGTGAC
1 AGAATCAGAATCAGGTAAC
* *
93647108 AGAATCAAAATCA--AAATC
1 AGAATCAGAATCAGGTAA-C
*
93647126 AGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGGTAAC
93647145 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAG----A--ATCAGGTAAC
93647170 AGAATCAGAATCA-G-AACC
1 AGAATCAGAATCAGGTAA-C
*
93647188 AGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGGTAAC
93647207 AGAATCAGAATCA
1 AGAATCAGAATCA
93647220 ATATCAGGTA
Statistics
Matches: 107, Mismatches: 10, Indels: 27
0.74 0.07 0.19
Matches are distributed among these distances:
17 3 0.03
18 39 0.36
19 41 0.38
20 5 0.05
21 1 0.01
23 1 0.01
25 17 0.16
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.17
Consensus pattern (19 bp):
AGAATCAGAATCAGGTAAC
Found at i:93647415 original size:27 final size:26
Alignment explanation
Indices: 93647367--93647426 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
93647357 GCGAGGCTGC
*
93647367 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
93647394 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
93647420 CAGATAT
1 CAGATAT
93647427 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:93647471 original size:71 final size:67
Alignment explanation
Indices: 93647394--93647535 Score: 185
Period size: 67 Copynumber: 2.1 Consensus size: 67
93647384 TCACCAGATA
* * * *
93647394 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGAAGCGA
*
93647459 GGTTGC
62 GGCTGC
* *
93647465 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGAAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGAAGCGAGGCT
93647530 GC
66 GC
93647532 CAGA
1 CAGA
93647536 ACGCTTCCTC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
67 39 0.61
71 25 0.39
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGAAGCGAGGCT
GC
Found at i:93647513 original size:27 final size:26
Alignment explanation
Indices: 93647465--93647516 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
93647455 GCGAGGTTGC
*
93647465 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
93647491 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
93647517 TTGAAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:93647799 original size:27 final size:27
Alignment explanation
Indices: 93647757--93648017 Score: 267
Period size: 27 Copynumber: 9.7 Consensus size: 27
93647747 CCTACCATTT
* * *
93647757 TACCCCACAAGGGTATCTCGATAATTC
1 TACCCTACAGGGGTATTTCGATAATTC
* *
93647784 TACCTTACAGGAGTATTTC-AGTAATTC
1 TACCCTACAGGGGTATTTCGA-TAATTC
* * * *
93647811 TACCCTACAGGGGCATTTAGGTATTTC
1 TACCCTACAGGGGTATTTCGATAATTC
* *
93647838 TACCCTACAAGTGTATTTCGATAATTC
1 TACCCTACAGGGGTATTTCGATAATTC
*
93647865 TACCCTACAGGGGTATTT-TAGTAATTC
1 TACCCTACAGGGGTATTTCGA-TAATTC
* *
93647892 TACCCTACAGGAGTATTTC-AGTATTTC
1 TACCCTACAGGGGTATTTCGA-TAATTC
* *
93647919 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCGATAATTC
* *
93647946 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCGATAATTC
* * * *
93647973 TACCCTACAAGGGTATTTCCACATTTC
1 TACCCTACAGGGGTATTTCGATAATTC
*
93648000 TACCCTACAAGGGTATTT
1 TACCCTACAGGGGTATTT
93648018 TGGTAATTTT
Statistics
Matches: 201, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.01
27 199 0.99
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (27 bp):
TACCCTACAGGGGTATTTCGATAATTC
Found at i:93647892 original size:81 final size:80
Alignment explanation
Indices: 93647753--93648017 Score: 345
Period size: 81 Copynumber: 3.3 Consensus size: 80
93647743 AACACCTACC
* * * *
93647753 ATTT-TACCCCACAAGGGTATCTCGATAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
*
93647817 ACAGGGGCATTTAGGT
66 ACAGGGGTATTTA-GT
* *
93647833 ATTTCTACCCTACAAGTGTATTTCGATAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
*
93647898 ACAGGAGTATTTCAGT
66 ACAGGGGTATTT-AGT
* * * * *
93647914 ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
* *
93647979 ACAAGGGTATTTCCA-C
66 ACAGGGGTATTT--AGT
93647995 ATTTCTACCCTACAAGGGTATTT
1 ATTTCTACCCTACAAGGGTATTT
93648018 TGGTAATTTT
Statistics
Matches: 163, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
80 4 0.02
81 156 0.96
82 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (80 bp):
ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
ACAGGGGTATTTAGT
Found at i:93648050 original size:27 final size:27
Alignment explanation
Indices: 93648020--93648176 Score: 208
Period size: 27 Copynumber: 5.8 Consensus size: 27
93648010 GGGTATTTTG
*
93648020 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACA
**
93648047 GTAATTCTATAGCTCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACA
* * **
93648074 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACA
*
93648101 GTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACA
* *
93648128 GTAATTCTGTAAATCGAAGGTAAAAC-
1 GTAATTCTATAAATCGAGGGTAAAACA
93648154 GATAATTCTATAAATCGAGGGTA
1 G-TAATTCTATAAATCGAGGGTA
93648177 CTTTGGTAAT
Statistics
Matches: 114, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 113 0.99
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACA
Found at i:93648094 original size:81 final size:81
Alignment explanation
Indices: 93648009--93648190 Score: 240
Period size: 81 Copynumber: 2.2 Consensus size: 81
93647999 CTACCCTACA
* ** *
93648009 AGGGTATTTTGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAGCTCGAGGGTAAAAC-
1 AGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAAGGTAAAACG
* *
93648073 AGTAATTTTGTAAATCG
66 A-TAATTCTATAAATCG
** * * *
93648090 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAAGGTAAAACG
1 AGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAAGGTAAAACG
93648155 ATAATTCTATAAATCG
66 ATAATTCTATAAATCG
*
93648171 AGGGTACTTTGGTAATTTTA
1 AGGGTAATTTGGTAATTTTA
93648191 CAAGTCTAGG
Statistics
Matches: 84, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
81 83 0.99
82 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (81 bp):
AGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAAGGTAAAACG
ATAATTCTATAAATCG
Found at i:93648201 original size:27 final size:26
Alignment explanation
Indices: 93648171--93648404 Score: 207
Period size: 27 Copynumber: 8.7 Consensus size: 26
93648161 CTATAAATCG
* *
93648171 AGGGTACTTTGGTAATTTTACAAGTCT
1 AGGGTATTTTGGTAATTTTACAA-ACT
*** ** *
93648198 AGGGTATTTCAATAATTTTACAGGTCG
1 AGGGTATTTTGGTAATTTTACA-AACT
* ** * *
93648225 AGGGTAGTTCAGTAATTTCACAAATT
1 AGGGTATTTTGGTAATTTTACAAACT
93648251 AGGGGTATTTTGGTAATTTTACAAACT
1 A-GGGTATTTTGGTAATTTTACAAACT
*
93648278 AGGGGTATTTTGATAATTTTACAAACT
1 A-GGGTATTTTGGTAATTTTACAAACT
*
93648305 AGAGATATTTTGGTAATTTTACAAACT
1 AG-GGTATTTTGGTAATTTTACAAACT
* * *
93648332 AGGGGTATTTTGGTTATTTTATAAACCA
1 A-GGGTATTTTGGTAATTTTACAAA-CT
* * *
93648360 AGGGTGTTTTAGTAATTTTACAAACC
1 AGGGTATTTTGGTAATTTTACAAACT
93648386 AGGGGTATTTTGGTAATTT
1 A-GGGTATTTTGGTAATTT
93648405 GGTAAACTAA
Statistics
Matches: 169, Mismatches: 32, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
26 4 0.02
27 162 0.96
28 3 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTACAAACT
Found at i:93648411 original size:27 final size:27
Alignment explanation
Indices: 93648236--93648404 Score: 230
Period size: 27 Copynumber: 6.3 Consensus size: 27
93648226 GGGTAGTTCA
* *
93648236 GTAATTTCACAAATTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
93648263 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
* * *
93648290 ATAATTTTACAAACTAGAGATATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
93648317 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
* * * * * *
93648344 GTTATTTTATAAACCAAGGGTGTTTTA
1 GTAATTTTACAAACTAGGGGTATTTTG
*
93648371 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
93648398 GTAATTT
1 GTAATTT
93648405 GGTAAACTAA
Statistics
Matches: 123, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAACTAGGGGTATTTTG
Found at i:93649811 original size:27 final size:27
Alignment explanation
Indices: 93649781--93649856 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
93649771 CTCATATCTC
* * *
93649781 TAGGCTAGTATTACTGAAATACCCCTG
1 TAGGGTAGAATTACTGAAATACCCCTA
*
93649808 TAGGGTAGAATTACTGAAATGCCCCTA
1 TAGGGTAGAATTACTGAAATACCCCTA
* *
93649835 CAGGGTAGAATTACTAAAATAC
1 TAGGGTAGAATTACTGAAATAC
93649857 TCTTGGTTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
TAGGGTAGAATTACTGAAATACCCCTA
Found at i:93649873 original size:27 final size:27
Alignment explanation
Indices: 93649843--93650187 Score: 140
Period size: 27 Copynumber: 12.7 Consensus size: 27
93649833 TACAGGGTAG
* * *
93649843 AATTACTAAAATACTCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTAAAA
*
93649870 AATTACCAAAATACCCTT-GATTAGAAA
1 AATTACCAAAATACCCTTGGTTTA-AAA
*
93649897 AATTACCAAAATACCCTT-GATTAATAA
1 AATTACCAAAATACCCTTGGTTTAA-AA
* ** **
93649924 AATTACCAAAATACCCCTAATTTTTAA
1 AATTACCAAAATACCCTTGGTTTAAAA
* * ***
93649951 AATTACCAAAATACCATTGATTTGTGA
1 AATTACCAAAATACCCTTGGTTTAAAA
* *** **
93649978 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCTTGGTTTAAAA
* ** **
93650005 AATTACCAAAATACCCCCTAATTTGGAA
1 AATTACCAAAATA-CCCTTGGTTTAAAA
* * * **
93650033 AATTATCGAAATACCCTTGATTTGGAA
1 AATTACCAAAATACCCTTGGTTTAAAA
** * * *
93650060 AATTAAAAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCTTGGTTTAAAA
** * *
93650087 AATT-GTAGAAATACCCTTGACTTTCAAA
1 AATTACCA-AAATACCCTTG-GTTTAAAA
* * **
93650115 AATTA-CAGAAATGCCATTGGTTTGCAA
1 AATTACCA-AAATACCCTTGGTTTAAAA
* * * ** *
93650142 AGTTATCGAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCTTGGTTTAAAA
* *
93650169 ATTTACCAAAGTACCCTTG
1 AATTACCAAAATACCCTTG
93650188 TAGGGTGAAA
Statistics
Matches: 255, Mismatches: 55, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
26 6 0.02
27 204 0.80
28 45 0.18
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTAAAA
Found at i:93649901 original size:54 final size:54
Alignment explanation
Indices: 93649843--93650187 Score: 253
Period size: 54 Copynumber: 6.4 Consensus size: 54
93649833 TACAGGGTAG
* * * *
93649843 AATTACTAAAATACTCTTGGTTTACAAAATTACCAAAATACCCTTGATTAGAAA
1 AATTACCAAAATACCCTTGATTTACAAAATTACCAAAATACCCTTGATTTGAAA
* * * * **
93649897 AATTACCAAAATACCCTTGATTAATAAAATTACCAAAATACCCCTAATTTTTAA
1 AATTACCAAAATACCCTTGATTTACAAAATTACCAAAATACCCTTGATTTGAAA
* *** * ** *
93649951 AATTACCAAAATACCATTGATTTGTGAAATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCTTGATTTACAAAATTACCAAAATACCCTTGATTTGAAA
* * ** * * *
93650005 AATTACCAAAATACCCCCTAATTTGGAAAATTATCGAAATACCCTTGATTTGGAA
1 AATTACCAAAATA-CCCTTGATTTACAAAATTACCAAAATACCCTTGATTTGAAA
** * ** *
93650060 AATTAAAAAAATACCCCTGATTTACAAAATT-GTAGAAATACCCTTGACTTTCAAA
1 AATTACCAAAATACCCTTGATTTACAAAATTACCA-AAATACCCTTGA-TTTGAAA
* * * * * * * * * *
93650115 AATTA-CAGAAATGCCATTGGTTTGCAAAGTTATCGAAATACCCTTGGTTTGTAG
1 AATTACCA-AAATACCCTTGATTTACAAAATTACCAAAATACCCTTGATTTGAAA
* *
93650169 ATTTACCAAAGTACCCTTG
1 AATTACCAAAATACCCTTG
93650188 TAGGGTGAAA
Statistics
Matches: 230, Mismatches: 55, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
54 147 0.64
55 83 0.36
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (54 bp):
AATTACCAAAATACCCTTGATTTACAAAATTACCAAAATACCCTTGATTTGAAA
Found at i:93649928 original size:81 final size:81
Alignment explanation
Indices: 93649863--93650090 Score: 267
Period size: 81 Copynumber: 2.8 Consensus size: 81
93649853 ATACTCTTGG
* *
93649863 TTTACAAAATTACCAAAATACCCTTGATTAGAAAAATTACCAAAATACCCTTGATTAATAAAATT
1 TTTACAAAATTACCAAAATACCCTTGATTTGAAAAATTACCAAAATACCCTTGATTTATAAAATT
93649928 ACCAAAATACCCCTAA
66 ACCAAAATACCCCTAA
** * ** * ** *
93649944 TTTTTAAAATTACCAAAATACCATTGATTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATT
1 TTTACAAAATTACCAAAATACCCTTGATTTGAAAAATTACCAAAATACCCTTGATTTATAAAATT
93650009 ACCAAAATACCCCCTAA
66 ACCAAAATA-CCCCTAA
** * * * ** * *
93650026 TTTGGAAAATTATCGAAATACCCTTGATTTGGAAAATTAAAAAAATACCCCTGATTTACAAAATT
1 TTTACAAAATTACCAAAATACCCTTGATTTGAAAAATTACCAAAATACCCTTGATTTATAAAATT
93650091 GTAGAAATAC
Statistics
Matches: 120, Mismatches: 26, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
81 63 0.52
82 57 0.47
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCCTTGATTTGAAAAATTACCAAAATACCCTTGATTTATAAAATT
ACCAAAATACCCCTAA
Found at i:93650124 original size:28 final size:26
Alignment explanation
Indices: 93649843--93650126 Score: 141
Period size: 27 Copynumber: 10.5 Consensus size: 26
93649833 TACAGGGTAG
* *
93649843 AATTACTA-AAATACTCTTGGTTTACAA
1 AATTAC-AGAAATACCCTTGATTTA-AA
*
93649870 AATTACCA-AAATACCCTTGATTAGAAA
1 AATTA-CAGAAATACCCTTGATT-TAAA
*
93649897 AATTACCA-AAATACCCTTGATTAATAA
1 AATTA-CAGAAATACCCTTGATTTA-AA
* * *
93649924 AATTACCA-AAATACCCCTAATTTTTAA
1 AATTA-CAGAAATACCCTTGA-TTTAAA
* **
93649951 AATTACCA-AAATACCATTGATTTGTGA
1 AATTA-CAGAAATACCCTTGATTT-AAA
* ** *
93649978 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACAGAAATACCCTTGATTT-AAA
* * *
93650005 AATTACCA-AAATACCCCCTAATTTGGAA
1 AATTA-CAGAAATA-CCCTTGATTT-AAA
*
93650033 AATTATC-GAAATACCCTTGATTTGGAA
1 AATTA-CAGAAATACCCTTGATTT-AAA
* * *
93650060 AATTAAAAAAATACCCCTGATTTACAA
1 AATTACAGAAATACCCTTGATTTA-AA
**
93650087 AATTGTAGAAATACCCTTGACTTTCAAA
1 AATTACAGAAATACCCTTGA-TTT-AAA
93650115 AATTACAGAAAT
1 AATTACAGAAAT
93650127 GCCATTGGTT
Statistics
Matches: 210, Mismatches: 34, Indels: 25
0.78 0.13 0.09
Matches are distributed among these distances:
26 5 0.02
27 162 0.77
28 42 0.20
29 1 0.00
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.30
Consensus pattern (26 bp):
AATTACAGAAATACCCTTGATTTAAA
Found at i:93658522 original size:131 final size:131
Alignment explanation
Indices: 93658256--93658609 Score: 408
Period size: 131 Copynumber: 2.7 Consensus size: 131
93658246 TTAATTTGTT
* * * *
93658256 TATCATGAACAACCTTTTTTGAGTTACCTGATTTTCTATCGCTACTCCAAATAGCTCACTGATTT
1 TATCATGAACAATCTTTTATGAGTTAGCTGATTTTCTATCGCTACTCCAAACAGCTCACTGATTT
* * * * * * *
93658321 AAGATTACAATTGATATTATTGAGGCTCACTAATTTACGATCATAGCCAAAGTCTATTTGATTTA
66 AAGATCACAACTAATATTATTAAGGCTCACTAATTTACGATCACAACCAAAGTCTATTTGAATTA
*
93658386 C
131 A
* * ** *
93658387 TATCATGAATAAT-TTTCTCTGAGTTAGCTGATTCACTATCGCTACTCCAAACAGCTCGCTGATT
1 TATCATGAACAATCTTT-TATGAGTTAGCTGATTTTCTATCGCTACTCCAAACAGCTCACTGATT
* * * *
93658451 TAAGATCACAACTAATATTATTAAGGCTCGCTGATTTAC-AGTCACAACCTAAGT-TCATTTTAA
65 TAAGATCACAACTAATATTATTAAGGCTCACTAATTTACGA-TCACAACCAAAGTCT-ATTTGAA
93658514 TTAA
128 TTAA
* * * * *
93658518 TATCATGAACAATCTTTTATGAGTTAGCTAATTTTCTATTGCTATTCCGAACAGCTCATTGATTT
1 TATCATGAACAATCTTTTATGAGTTAGCTGATTTTCTATCGCTACTCCAAACAGCTCACTGATTT
* *
93658583 AAGTTCACAACTAGTATTATTAAGGCT
66 AAGATCACAACTAATATTATTAAGGCT
93658610 AGTCGATTTA
Statistics
Matches: 187, Mismatches: 32, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
130 5 0.03
131 179 0.96
132 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (131 bp):
TATCATGAACAATCTTTTATGAGTTAGCTGATTTTCTATCGCTACTCCAAACAGCTCACTGATTT
AAGATCACAACTAATATTATTAAGGCTCACTAATTTACGATCACAACCAAAGTCTATTTGAATTA
A
Found at i:93673576 original size:28 final size:28
Alignment explanation
Indices: 93673507--93673606 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
93673497 GACAAGATTG
* * * *
93673507 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
93673537 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
93673565 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
93673594 GCACTAAGTGTGC
1 GCACTAAGTGTGC
93673607 AGATTCACTA
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 18 0.29
30 18 0.29
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:93676870 original size:43 final size:43
Alignment explanation
Indices: 93676808--93676903 Score: 129
Period size: 43 Copynumber: 2.2 Consensus size: 43
93676798 GCTTGGTTTG
* * *
93676808 AAGCCCAATATCATTTCACCGGCATTATAGTCTACTAGGCCCA
1 AAGCCCGATATCATCTCACCGGCATTATAGCCTACTAGGCCCA
* * * *
93676851 AAGCCCGATATTATCTCACCGGCATTATAGCCTGCTAGGCTCG
1 AAGCCCGATATCATCTCACCGGCATTATAGCCTACTAGGCCCA
93676894 AAGCCCGATA
1 AAGCCCGATA
93676904 ATATTATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (43 bp):
AAGCCCGATATCATCTCACCGGCATTATAGCCTACTAGGCCCA
Found at i:93676943 original size:43 final size:46
Alignment explanation
Indices: 93676858--93676944 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 46
93676848 CCAAAGCCCG
* *
93676858 ATATTATCTCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCGATA
1 ATATTATCTCACCAGCATTAAAGCCTGCTAGGCTCGAAGCCCGATA
* *
93676904 ATATTAT-TCACCAGC-TTAAAGCTTGCTAGGCT-GAGGCCCGA
1 ATATTATCTCACCAGCATTAAAGCCTGCTAGGCTCGAAGCCCGA
93676945 ATATCACATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 8 0.22
44 15 0.41
45 7 0.19
46 7 0.19
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (46 bp):
ATATTATCTCACCAGCATTAAAGCCTGCTAGGCTCGAAGCCCGATA
Done.