Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 107 of 349
Found at i:33519663 original size:46 final size:48
Alignment explanation
Indices: 33519591--33519693 Score: 147
Period size: 48 Copynumber: 2.2 Consensus size: 48
33519581 GACAGGGCAG
* * *
33519591 GACAGAAATGAGCCATGTAAATCCATA-T-TAGATATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAACCCATATTATAGATATATGGCATTGGA
* *
33519637 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAACCCATATTATAGATATATGGCATTGGA
33519685 GACAGGAAT
1 GACAGGAAT
33519694 AATTTATGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
46 24 0.48
47 1 0.02
48 25 0.50
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAACCCATATTATAGATATATGGCATTGGA
Found at i:33521783 original size:48 final size:46
Alignment explanation
Indices: 33521719--33522221 Score: 192
Period size: 47 Copynumber: 10.8 Consensus size: 46
33521709 TGGTTTATGT
*
33521719 GAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGACATTGAGAC
1 GAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACATTGAGAC
* * * * * *
33521767 GAGGGCTAGTGTAAGACGTGT-TTGGACAT-CAGCCACATT---AC
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGAC
* * * *
33521808 GATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGTAGAGAT
1 GAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACATTGAGAC
* * * * * ** *
33521856 AAGTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAATGAT
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGACATTGA-GAC
* * *
33521903 G-GTAGCCAGTGTAAGACGTGTCTGGGACATGCATCGGC--TAAG-C
1 GAG-AGCCAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGAC
** * * * * * *
33521946 TTCGTGCTAGTGTAAGACATGTCTGGGACATACAGTAG-CACTTATACAC
1 -GAGAGCCAGTGTAAGACATGTCTGGGACATGCA-TCGACA-TT-GAGAC
* * * * ** *
33521995 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAATGAT
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGACATTGA-GAC
* * * * ** *
33522042 G-GTAGCCAATGTAAGACGTGTCTGGGACATGCATCGGCCTCAATGAT
1 GAG-AGCCAGTGTAAGACATGTCTGGGACATGCATCGACATTGA-GAC
* * * * *
33522089 G-GTACCCAATGTAAGACGTGTCTGGGACATGCATCGGC--TAAG-C
1 GAG-AGCCAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGAC
** * * * * * *
33522132 TTCGTGCTAGTGTAAGACATGTCTGGGACATACAGTAG-CACTTATACAC
1 -GAGAGCCAGTGTAAGACATGTCTGGGACATGCA-TCGACA-TT-GAGAC
*
33522181 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACA
1 GAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACA
33522222 ACTTAACCCA
Statistics
Matches: 352, Mismatches: 72, Indels: 60
0.73 0.15 0.12
Matches are distributed among these distances:
41 15 0.04
42 4 0.01
43 7 0.02
44 62 0.18
45 16 0.05
46 19 0.05
47 136 0.39
48 71 0.20
49 18 0.05
50 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGAC
Found at i:33521885 original size:47 final size:43
Alignment explanation
Indices: 33521812--33522162 Score: 261
Period size: 47 Copynumber: 7.6 Consensus size: 43
33521802 CATTACGATA
*
33521812 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGTAGAGATAAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TA-AGAT-AGT
* *
33521860 GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAATGATGGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CT-AA-GATAGT
* * *
33521906 AGCCAGTGTAAGACGTGTCTGGGACATGCATCGGCTAAGCTTCGT
1 -GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAG-ATAGT
* * * * * * *
33521951 GCTAGTGTAAGACATGTCTGGGACATACAGTAGCACTTATACACGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCA-TCG-GC-TA-AGA-TAGT
* * *
33521999 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAATGATGGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CT-AA-GATAGT
* * *
33522045 AGCCAATGTAAGACGTGTCTGGGACATGCATCGGCCTCAATGATGGT
1 -GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CT-AA-GATAGT
* * * * *
33522092 ACCCAATGTAAGACGTGTCTGGGACATGCATCGGCTAAGCTTCGT
1 -GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAG-ATAGT
*
33522137 GCTAGTGTAAGACATGTCTGGGACAT
1 GCCAGTGTAAGACATGTCTGGGACAT
33522163 ACAGTAGCAC
Statistics
Matches: 252, Mismatches: 36, Indels: 34
0.78 0.11 0.11
Matches are distributed among these distances:
44 50 0.20
45 12 0.05
46 18 0.07
47 131 0.52
48 41 0.16
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (43 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGATAGT
Found at i:33522057 original size:186 final size:188
Alignment explanation
Indices: 33521806--33522218 Score: 665
Period size: 186 Copynumber: 2.2 Consensus size: 188
33521796 CAGCCACATT
* * * * * * *
33521806 ACGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGT-AGA-GATAAGT-GCCAGTGT
1 ACGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCA-ATGAT-GGTAGCCAATGT
* *
33521868 AAGACATGTCTAGGACATGCATCGGCCTCAATGATGGTAGCCAGTGTAAGACGTGTCTGGGACAT
64 AAGACATGTCTAGGACATGCATCGGCCTCAATGATGGTACCCAATGTAAGACGTGTCTGGGACAT
33521933 GCATCGGCTAAGCTTCGTGCTAGTGTAAGACATGTCTGGGACATACAGTAGCACTTATAC
129 GCATCGGCTAAGCTTCGTGCTAGTGTAAGACATGTCTGGGACATACAGTAGCACTTATAC
33521993 ACGAGAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCAATGATGGTAGCCAATGTAA
1 ACGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAATGATGGTAGCCAATGTAA
* *
33522056 GACGTGTCTGGGACATGCATCGGCCTCAATGATGGTACCCAATGTAAGACGTGTCTGGGACATGC
66 GACATGTCTAGGACATGCATCGGCCTCAATGATGGTACCCAATGTAAGACGTGTCTGGGACATGC
33522121 ATCGGCTAAGCTTCGTGCTAGTGTAAGACATGTCTGGGACATACAGTAGCACTTATAC
131 ATCGGCTAAGCTTCGTGCTAGTGTAAGACATGTCTGGGACATACAGTAGCACTTATAC
*
33522179 ACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 ACGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCG
33522219 ACAACTTAAC
Statistics
Matches: 209, Mismatches: 12, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
185 11 0.05
186 163 0.78
187 29 0.14
188 6 0.03
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (188 bp):
ACGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAATGATGGTAGCCAATGTAA
GACATGTCTAGGACATGCATCGGCCTCAATGATGGTACCCAATGTAAGACGTGTCTGGGACATGC
ATCGGCTAAGCTTCGTGCTAGTGTAAGACATGTCTGGGACATACAGTAGCACTTATAC
Found at i:33522920 original size:55 final size:55
Alignment explanation
Indices: 33522805--33522923 Score: 141
Period size: 55 Copynumber: 2.2 Consensus size: 55
33522795 CTTAAATTTT
* * *
33522805 TAAGTCAGTATTGTCCACGAGTAGGCCACACGGGTGTGTGCCATAGTCGAGTCTA
1 TAAGTCAGTATTGTCCACGAGTAGGCCACACGGGCGTGTGCCATAGCCGAGCCTA
* * * * * *
33522860 TAAGTCAGTATTGTCTACGGGTAGGCCATACGGGCGTGTGTCATGGCCGTGCCCTA
1 TAAGTCAGTATTGTCCACGAGTAGGCCACACGGGCGTGTGCCATAGCCGAG-CCTA
33522916 -AAGTCAGT
1 TAAGTCAGT
33522924 GTTGCACACG
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
55 51 0.94
56 3 0.06
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (55 bp):
TAAGTCAGTATTGTCCACGAGTAGGCCACACGGGCGTGTGCCATAGCCGAGCCTA
Found at i:33525284 original size:24 final size:24
Alignment explanation
Indices: 33525140--33525283 Score: 236
Period size: 24 Copynumber: 6.0 Consensus size: 24
33525130 GCTTTATCAT
*
33525140 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
33525165 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
33525189 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
33525213 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
33525237 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
33525261 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
33525284 GCACTTCCTC
Statistics
Matches: 114, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
24 102 0.89
25 12 0.11
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:33525370 original size:25 final size:25
Alignment explanation
Indices: 33525337--33525384 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
33525327 GAATACATCA
33525337 TGTGCATATCATATCATA-CATGTCG
1 TGTGCATATCATA-CATATCATGTCG
*
33525362 TGTGTATATCATACATATCATGT
1 TGTGCATATCATACATATCATGT
33525385 TTATCAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.40
Consensus pattern (25 bp):
TGTGCATATCATACATATCATGTCG
Found at i:33525449 original size:25 final size:25
Alignment explanation
Indices: 33525421--33525468 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
33525411 ATATATAAAC
* * *
33525421 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTTATTTTTA
33525446 CCTAGGGGCAAAACGGTTATTTT
1 CCTAGGGGCAAAACGGTTATTTT
33525469 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:0.12, G:0.25, T:0.38
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTTATTTTTA
Found at i:33533542 original size:24 final size:24
Alignment explanation
Indices: 33533399--33533541 Score: 207
Period size: 24 Copynumber: 6.0 Consensus size: 24
33533389 GCTTTATCAT
* *
33533399 ATAACTGAGGCCT-AGCCTCTTTTA
1 ATAACTGGGGCATAAGCC-CTTTTA
*
33533423 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
33533447 ATAACTGGGGCATAAGCCATTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
33533471 ATAACTGGGGCATAAGCCCTTCTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
33533495 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
33533519 ATAATTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
33533542 GCACTTTCTC
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
24 104 0.96
25 4 0.04
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:33533617 original size:20 final size:20
Alignment explanation
Indices: 33533592--33533657 Score: 105
Period size: 20 Copynumber: 3.3 Consensus size: 20
33533582 TATGAATACA
33533592 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
33533612 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
* * *
33533632 CCGTGTGCATATCATACATA
1 TCATGTGCATATCATACATG
33533652 TCATGT
1 TCATGT
33533658 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:33533726 original size:25 final size:25
Alignment explanation
Indices: 33533694--33533741 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
33533684 ATATATAAAC
* *
33533694 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
33533719 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
33533742 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:33538068 original size:72 final size:72
Alignment explanation
Indices: 33537966--33538153 Score: 263
Period size: 72 Copynumber: 2.6 Consensus size: 72
33537956 ATGCCCACAT
* * *
33537966 TTGAGCTACTCACTGGTCTGTACACAAAGTCAGCACCCGGACCCCAAAGCATTATCATG-TAATG
1 TTGAGCTACTCACTGGTTTATACACAAAGTCAGCACCCGGACCCCAAAGCATTAACATGAT-ATG
33538030 CCCGCTCA
65 CCCGCTCA
*
33538038 TTGAGCTACTCAC-GAGTTTATACACAAAGTCAGTACCCGGACCCCAAAGCATTAACATGATATG
1 TTGAGCTACTCACTG-GTTTATACACAAAGTCAGCACCCGGACCCCAAAGCATTAACATGATATG
*
33538102 CTCGCTCA
65 CCCGCTCA
** * *
33538110 GCGAGTTACTCACTGGTTTATACACAAAGTCAGCACCCAGACCC
1 TTGAGCTACTCACTGGTTTATACACAAAGTCAGCACCCGGACCC
33538154 ATATTACATA
Statistics
Matches: 103, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
71 1 0.01
72 100 0.97
73 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (72 bp):
TTGAGCTACTCACTGGTTTATACACAAAGTCAGCACCCGGACCCCAAAGCATTAACATGATATGC
CCGCTCA
Found at i:33543613 original size:43 final size:43
Alignment explanation
Indices: 33543580--33543753 Score: 228
Period size: 43 Copynumber: 4.1 Consensus size: 43
33543570 TACCGATGAT
* *
33543580 ATGATATCGGTCTTCGAGCCTAGCAGGCTATAATGCCGGTGAG
1 ATGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCAGTGAG
* *
33543623 ATGATATCGGGCTTC-AGGCTTAGCAGGCTATAATGTCAGTGAG
1 ATGATATCGGGCTTCGA-GCCTAGCAGGCTATAATGCCAGTGAG
* * * *
33543666 TTGATATCGGGCTTCGGGCCTAGCAGGCTAAAATGTCAGTGAG
1 ATGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCAGTGAG
* *
33543709 ATGATATCGGGCTTCGAGCCTAGCAGGCGA-AATGCCGGTGA-
1 ATGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCAGTGAG
33543750 ATGA
1 ATGA
33543754 GTTCAGACTT
Statistics
Matches: 116, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
41 4 0.03
42 10 0.09
43 102 0.88
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.25
Consensus pattern (43 bp):
ATGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCAGTGAG
Found at i:33544343 original size:16 final size:18
Alignment explanation
Indices: 33544312--33544344 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
33544302 AACTCGTCTC
33544312 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
33544330 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
33544345 AAATCGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:33551598 original size:43 final size:43
Alignment explanation
Indices: 33551551--33551709 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
33551541 GCCTACCGGA
* *
33551551 CTATAATACCGATGATATGATATTGGGCTTC-GAGCCGAGCAGG
1 CTATAATACCGATGAGATGATATCGGGCTTCAG-GCCGAGCAGG
* * *
33551594 CTATAATGCCGGTGAGATGATATCGGGCTTCAGGCCTAGCAGG
1 CTATAATACCGATGAGATGATATCGGGCTTCAGGCCGAGCAGG
** * * *
33551637 CTAT-ATGTC-AGTGAGTTGATATCGGGCTTCGGGCCTAGCAGG
1 CTATAATACCGA-TGAGATGATATCGGGCTTCAGGCCGAGCAGG
* **
33551679 CTAAAATGTC-AGTGAGATGATATCGGGCTTC
1 CTATAATACCGA-TGAGATGATATCGGGCTTC
33551710 GATCCTAGCA
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
42 36 0.35
43 65 0.64
44 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (43 bp):
CTATAATACCGATGAGATGATATCGGGCTTCAGGCCGAGCAGG
Found at i:33551710 original size:43 final size:43
Alignment explanation
Indices: 33551567--33551728 Score: 213
Period size: 43 Copynumber: 3.8 Consensus size: 43
33551557 TACCGATGAT
* * * * *
33551567 ATGATATTGGGCTTCGAGCCGAGCAGGCTATAATGCCGGTGAG
1 ATGATATCGGGCTTCGAGCCTAGCAGGCTAAAATGTCAGTGAG
*
33551610 ATGATATCGGGCTTC-AGGCCTAGCAGGCT-ATATGTCAGTGAG
1 ATGATATCGGGCTTCGA-GCCTAGCAGGCTAAAATGTCAGTGAG
* *
33551652 TTGATATCGGGCTTCGGGCCTAGCAGGCTAAAATGTCAGTGAG
1 ATGATATCGGGCTTCGAGCCTAGCAGGCTAAAATGTCAGTGAG
*
33551695 ATGATATCGGGCTTCGATCCTAGCAGGC-AAAATG
1 ATGATATCGGGCTTCGAGCCTAGCAGGCTAAAATG
33551729 CCGGTGAATG
Statistics
Matches: 104, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
42 42 0.40
43 62 0.60
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (43 bp):
ATGATATCGGGCTTCGAGCCTAGCAGGCTAAAATGTCAGTGAG
Found at i:33552329 original size:16 final size:18
Alignment explanation
Indices: 33552298--33552330 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
33552288 AACTCGTCTC
33552298 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
33552316 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
33552331 AATTCGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:33556958 original size:43 final size:43
Alignment explanation
Indices: 33556888--33557051 Score: 215
Period size: 43 Copynumber: 3.9 Consensus size: 43
33556878 TGACATTCGG
* * * * * *
33556888 GCTTTGAGTCTAGCAGTCTATAATGCCGATGATATGATATTGA
1 GCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATATCGA
*
33556931 GCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATATCGG
1 GCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATATCGA
* *
33556974 GCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGATGATATCAA
1 GCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATATCGA
* *
33557017 GCTTCGAGCCTAGCAGGCGA-AATGCCAGTGA-ATGA
1 GCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGA
33557052 GTTCAGACTT
Statistics
Matches: 108, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
41 4 0.04
42 10 0.09
43 94 0.87
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (43 bp):
GCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATGATATCGA
Found at i:33559483 original size:6 final size:6
Alignment explanation
Indices: 33559460--33559575 Score: 60
Period size: 6 Copynumber: 18.8 Consensus size: 6
33559450 TATCATAACT
* * * *
33559460 AGAATC AAAATG AGAATC AGAATC AGAACC AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * * *
33559509 A-AGATC AAAATC AGAATT AG-GTGAC TGAATC AGAATC AGTATC AGGTAA-C
1 AGA-ATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC A-G-AATC
33559559 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
33559576 GTAAATGCAA
Statistics
Matches: 82, Mismatches: 17, Indels: 22
0.68 0.14 0.18
Matches are distributed among these distances:
5 4 0.05
6 67 0.82
7 8 0.10
8 3 0.04
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:33559501 original size:37 final size:37
Alignment explanation
Indices: 33559460--33559546 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 37
33559450 TATCATAACT
* *
33559460 AGAATCAAAAT-GAGAATCAGAATCAGAACCAGGTGAC
1 AGAATCAAAATCAAG-ATCAAAATCAGAACCAGGTGAC
* **
33559497 AGAATCAGAATCAAGATCAAAATCAGAATTAGGTGAC
1 AGAATCAAAATCAAGATCAAAATCAGAACCAGGTGAC
* *
33559534 TGAATCAGAATCA
1 AGAATCAAAATCA
33559547 GTATCAGGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
37 41 0.95
38 2 0.05
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.17
Consensus pattern (37 bp):
AGAATCAAAATCAAGATCAAAATCAGAACCAGGTGAC
Found at i:33559545 original size:25 final size:25
Alignment explanation
Indices: 33559512--33559575 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
33559502 CAGAATCAAG
* * * *
33559512 ATCAAAATCAGAATTAGGTGACTGA
1 ATCAGAATCAGAATCAGGTAACAGA
*
33559537 ATCAGAATCAGTATCAGGTAACAGA
1 ATCAGAATCAGAATCAGGTAACAGA
33559562 ATCAGAATCAGAAT
1 ATCAGAATCAGAAT
33559576 GTAAATGCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.22
Consensus pattern (25 bp):
ATCAGAATCAGAATCAGGTAACAGA
Found at i:33560387 original size:27 final size:27
Alignment explanation
Indices: 33560358--33560606 Score: 356
Period size: 27 Copynumber: 9.2 Consensus size: 27
33560348 GGGCAAAATG
* * * *
33560358 GTAATTTTACCCTACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
33560385 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
33560412 GTATTTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
33560438 GATAATTCTACTCTACAAGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
33560466 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
33560493 GTAATTCTACCCTACAGGGGTGTTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
33560520 GTAACTCTACCCTACAGGGGTGTTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
33560547 GTAACTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
33560574 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
33560601 ATAATT
1 GTAATT
33560607 TTGTAAATCG
Statistics
Matches: 203, Mismatches: 17, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
26 1 0.00
27 201 0.99
28 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:33560684 original size:27 final size:28
Alignment explanation
Indices: 33560651--33560849 Score: 205
Period size: 27 Copynumber: 7.4 Consensus size: 28
33560641 TCAGGAGTAC
** *
33560651 TTTGGTAATTTTACAAGTCGA-GGGTAT
1 TTTGGTAATTTTACAAAACAAGGGGTAT
* * *
33560678 TTCGGTAATTTCACAAATC-AGGGGTAT
1 TTTGGTAATTTTACAAAACAAGGGGTAT
*
33560705 TTTGGTAATTTTACAAACCAA-GGGTAT
1 TTTGGTAATTTTACAAAACAAGGGGTAT
*
33560732 TTTGGTAATTTTAC-AAACTAGGGGTAT
1 TTTGGTAATTTTACAAAACAAGGGGTAT
** *
33560759 TTTGGTAATTTTGTAAACCAA-GGGTAT
1 TTTGGTAATTTTACAAAACAAGGGGTAT
*
33560786 TTTGGTAATTTTAC-AAACTAGGGGTAT
1 TTTGGTAATTTTACAAAACAAGGGGTAT
** * *
33560813 TTTGGTAATTTTGTAAACCAA-TGGTAT
1 TTTGGTAATTTTACAAAACAAGGGGTAT
33560840 TTTGGTAATT
1 TTTGGTAATT
33560850 CTACCCTACA
Statistics
Matches: 145, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
26 9 0.06
27 127 0.88
28 9 0.06
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.41
Consensus pattern (28 bp):
TTTGGTAATTTTACAAAACAAGGGGTAT
Found at i:33560684 original size:54 final size:54
Alignment explanation
Indices: 33560638--33560849 Score: 266
Period size: 54 Copynumber: 3.9 Consensus size: 54
33560628 GTAGTTTTGT
* * ** * *
33560638 AAATCAGGAGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCGGTAATTTCAC
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTTAC
*
33560692 AAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTTAC
** *
33560746 AAA-CTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTAC
1 AAATC-AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTTAC
** * *
33560800 AAA-CTAGGGGTATTTTGGTAATTTTGTAAACCAATGGTATTTTGGTAATT
1 AAATC-AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGGTAATT
33560850 CTACCCTACA
Statistics
Matches: 147, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
53 1 0.01
54 146 0.99
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (54 bp):
AAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTTAC
Found at i:33560839 original size:81 final size:81
Alignment explanation
Indices: 33560651--33560849 Score: 254
Period size: 81 Copynumber: 2.5 Consensus size: 81
33560641 TCAGGAGTAC
** * * *** * *
33560651 TTTGGTAATTTTACAAGTCGAGGGTATTTCGGTAATTTCACAAATCAGGGGTATTTTGGTAATTT
1 TTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTT
33560716 TACAAACCAAGGGTAT
66 TACAAACCAAGGGTAT
* *
33560732 TTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTT
1 TTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTT
* *
33560797 TACAAACTAGGGGTAT
66 TACAAACCAAGGGTAT
** *
33560813 TTTGGTAATTTTGTAAACCAATGGTATTTTGGTAATT
1 TTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATT
33560850 CTACCCTACA
Statistics
Matches: 100, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 100 1.00
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.41
Consensus pattern (81 bp):
TTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTT
TACAAACCAAGGGTAT
Found at i:33560863 original size:54 final size:53
Alignment explanation
Indices: 33560671--33560853 Score: 269
Period size: 54 Copynumber: 3.4 Consensus size: 53
33560661 TTACAAGTCG
* **
33560671 AGGGTATTTCGGTAATT-TCACAAATCAGGGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTCT-ACAAA-CAGGGGTATTTTGGTAATTTTGTAAACCA
*
33560725 AGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTCTACAAAC-AGGGGTATTTTGGTAATTTTGTAAACCA
*
33560779 AGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTCTACAAAC-AGGGGTATTTTGGTAATTTTGTAAACCA
*
33560833 ATGGTATTTTGGTAATTCTAC
1 AGGGTATTTTGGTAATTCTAC
33560854 CCTACAGGGG
Statistics
Matches: 122, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
53 1 0.01
54 120 0.98
55 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (53 bp):
AGGGTATTTTGGTAATTCTACAAACAGGGGTATTTTGGTAATTTTGTAAACCA
Found at i:33560868 original size:27 final size:27
Alignment explanation
Indices: 33560835--33560941 Score: 142
Period size: 27 Copynumber: 4.0 Consensus size: 27
33560825 GTAAACCAAT
**
33560835 GGTATTTTGGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
* * * *
33560862 GGCATTTCATTAATTCTAACCTACAAG
1 GGTATTTCAGTAATTCTACCCTACAGG
33560889 GGTATTTCAGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
* *
33560916 GGTATTTCAGTAATGCTAGCCTACAG
1 GGTATTTCAGTAATTCTACCCTACAG
33560942 ATATGAGATT
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTATTTCAGTAATTCTACCCTACAGG
Found at i:33560893 original size:54 final size:54
Alignment explanation
Indices: 33560835--33560940 Score: 158
Period size: 54 Copynumber: 2.0 Consensus size: 54
33560825 GTAAACCAAT
** * *
33560835 GGTATTTTGGTAATTCTACCCTACAGGGGCATTTCATTAATTCTAACCTACAAG
1 GGTATTTCAGTAATTCTACCCTACAGGGGCATTTCAGTAATGCTAACCTACAAG
* *
33560889 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATGCTAGCCTACA
1 GGTATTTCAGTAATTCTACCCTACAGGGGCATTTCAGTAATGCTAACCTACA
33560941 GATATGAGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (54 bp):
GGTATTTCAGTAATTCTACCCTACAGGGGCATTTCAGTAATGCTAACCTACAAG
Found at i:33563104 original size:72 final size:72
Alignment explanation
Indices: 33563008--33563194 Score: 225
Period size: 72 Copynumber: 2.6 Consensus size: 72
33562998 ATGCCCACAT
* * * * *
33563008 TTGAGCTACTTACTGGTCTGTACACAAAGTCAGCACCCGGACCCCAAAGCATTATCATGA-AATA
1 TTGAGCTACTCACGGGTTTATACACAAAGTCAGCACCCGGACCCCAAAGCATTAACATGATAA-A
33563072 CCCACTCA
65 CCCACTCA
* * *
33563080 TTGAGCTACTCACGGGTTTATACACAAAGTCAGTACTCGGACCCCAAAGCATTAACATGATAAGC
1 TTGAGCTACTCACGGGTTTATACACAAAGTCAGCACCCGGACCCCAAAGCATTAACATGATAAAC
* *
33563145 TCGCTCA
66 CCACTCA
** * *
33563152 GCGAGTTACTCACGGGTTTATACACAAAGTTAGCA-CCGGACCC
1 TTGAGCTACTCACGGGTTTATACACAAAGTCAGCACCCGGACCC
33563195 ACATTACATA
Statistics
Matches: 98, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
71 7 0.07
72 89 0.91
73 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (72 bp):
TTGAGCTACTCACGGGTTTATACACAAAGTCAGCACCCGGACCCCAAAGCATTAACATGATAAAC
CCACTCA
Found at i:33565730 original size:15 final size:15
Alignment explanation
Indices: 33565710--33565740 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
33565700 AAATGAAACA
33565710 AAAAGGATGGTTATG
1 AAAAGGATGGTTATG
33565725 AAAAGGATGGTTATG
1 AAAAGGATGGTTATG
33565740 A
1 A
33565741 GATATGAGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.32, T:0.26
Consensus pattern (15 bp):
AAAAGGATGGTTATG
Found at i:33567095 original size:54 final size:56
Alignment explanation
Indices: 33567007--33567224 Score: 175
Period size: 57 Copynumber: 3.9 Consensus size: 56
33566997 ATAAGTAAAT
* * * *
33567007 CTTTGTGGCTATCCCTGTTAAATGAATAG-TTTTGTTGCTATCTTC-ATT-ACATGC
1 CTTTGTGGCTATCTCAGTTAAATGAAT-GCCTTTGTGGCTATCTTCTATTAACATGC
* *
33567061 CTTTGTGGCTATCTCAGTTAAATGAATGCCTTTGTGGCTATC-TCTGTTAAAAGATGC
1 CTTTGTGGCTATCTCAGTTAAATGAATGCCTTTGTGGCTATCTTCTATT--AACATGC
* * *
33567118 ATTTGTGGCTATCTCTA-TTAAAAG-ATGCCTTTGTGGCTATC-TCTGTTAA-ATGGC
1 CTTTGTGGCTATCTC-AGTTAAATGAATGCCTTTGTGGCTATCTTCTATTAACAT-GC
** * * *
33567172 TGCATTTGTGGCTATCTTTGTTAAAAGGATGCCTTTGTGGCCATC-TCTATTAA
1 --C-TTTGTGGCTATCTCAGTTAAATGAATGCCTTTGTGGCTATCTTCTATTAA
33567225 GGGAACGTCT
Statistics
Matches: 139, Mismatches: 13, Indels: 20
0.81 0.08 0.12
Matches are distributed among these distances:
53 5 0.04
54 42 0.30
56 23 0.17
57 45 0.32
58 24 0.17
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (56 bp):
CTTTGTGGCTATCTCAGTTAAATGAATGCCTTTGTGGCTATCTTCTATTAACATGC
Found at i:33567126 original size:28 final size:28
Alignment explanation
Indices: 33567057--33567269 Score: 223
Period size: 29 Copynumber: 7.5 Consensus size: 28
33567047 TCTTCATTAC
* *
33567057 ATGCCTTTGTGGCTATCTCAGTTAAATG
1 ATGCCTTTGTGGCTATCTCTGTTAAAAG
33567085 AATGCCTTTGTGGCTATCTCTGTTAAAAG
1 -ATGCCTTTGTGGCTATCTCTGTTAAAAG
* *
33567114 ATGCATTTGTGGCTATCTCTATTAAAAG
1 ATGCCTTTGTGGCTATCTCTGTTAAAAG
*
33567142 ATGCCTTTGTGGCTATCTCTGTTAAATGG
1 ATGCCTTTGTGGCTATCTCTGTTAAA-AG
* * *
33567171 CTGCATTTGTGGCTATCTTTGTTAAAAGG
1 ATGCCTTTGTGGCTATCTCTGTTAAAA-G
* * **
33567200 ATGCCTTTGTGGCCATCTCTATTAAGGG
1 ATGCCTTTGTGGCTATCTCTGTTAAAAG
* *
33567228 A-ACGTCTTGTGGC-ATACTCTGTTAAAAGG
1 ATGCCT-TTGTGGCTAT-CTCTGTTAAAA-G
*
33567257 ATGCCTTCGTGGC
1 ATGCCTTTGTGGC
33567270 GAAAACTAAA
Statistics
Matches: 152, Mismatches: 26, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
27 4 0.03
28 67 0.44
29 79 0.52
30 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.38
Consensus pattern (28 bp):
ATGCCTTTGTGGCTATCTCTGTTAAAAG
Found at i:33567166 original size:85 final size:86
Alignment explanation
Indices: 33567057--33567224 Score: 266
Period size: 85 Copynumber: 2.0 Consensus size: 86
33567047 TCTTCATTAC
*
33567057 ATGCCTTTGTGGCTATCTCAGTTAAATGAATGCCTTTGTGGCTATCTCTGTTAAAA-GATGCATT
1 ATGCCTTTGTGGCTATCTCAGTTAAATGAATGCATTTGTGGCTATCTCTGTTAAAAGGATGCATT
*
33567121 TGTGGCTATCTCTATTAAAAG
66 TGTGGCCATCTCTATTAAAAG
* ** * *
33567142 ATGCCTTTGTGGCTATCTCTGTTAAATGGCTGCATTTGTGGCTATCTTTGTTAAAAGGATGCCTT
1 ATGCCTTTGTGGCTATCTCAGTTAAATGAATGCATTTGTGGCTATCTCTGTTAAAAGGATGCATT
33567207 TGTGGCCATCTCTATTAA
66 TGTGGCCATCTCTATTAA
33567225 GGGAACGTCT
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
85 51 0.68
86 24 0.32
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (86 bp):
ATGCCTTTGTGGCTATCTCAGTTAAATGAATGCATTTGTGGCTATCTCTGTTAAAAGGATGCATT
TGTGGCCATCTCTATTAAAAG
Found at i:33567238 original size:57 final size:56
Alignment explanation
Indices: 33567062--33567269 Score: 231
Period size: 57 Copynumber: 3.7 Consensus size: 56
33567052 ATTACATGCC
* * * **
33567062 TTTGTGGCTATCTCAGTTAAATGAATGCCTTTGTGGCTATCTCTGTTAAAAGATGCA
1 TTTGTGGCTATCTCTGTTAAAAGGATGCCTTTGTGGCTATCTCTGTTAAGGGA-GCA
* **
33567119 TTTGTGGCTATCTCTATTAAAA-GATGCCTTTGTGGCTATCTCTGTTAAATGGCTGCA
1 TTTGTGGCTATCTCTGTTAAAAGGATGCCTTTGTGGCTATCTCTGTT-AA-GGGAGCA
* * * * *
33567176 TTTGTGGCTATCTTTGTTAAAAGGATGCCTTTGTGGCCATCTCTATTAAGGGAACG
1 TTTGTGGCTATCTCTGTTAAAAGGATGCCTTTGTGGCTATCTCTGTTAAGGGAGCA
*
33567232 TCTTGTGGC-ATACTCTGTTAAAAGGATGCCTTCGTGGC
1 T-TTGTGGCTAT-CTCTGTTAAAAGGATGCCTTTGTGGC
33567270 GAAAACTAAA
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
56 29 0.23
57 77 0.60
58 22 0.17
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (56 bp):
TTTGTGGCTATCTCTGTTAAAAGGATGCCTTTGTGGCTATCTCTGTTAAGGGAGCA
Found at i:33570840 original size:46 final size:48
Alignment explanation
Indices: 33570768--33570870 Score: 138
Period size: 46 Copynumber: 2.2 Consensus size: 48
33570758 GACAGGATAG
* * *
33570768 GACAGAAATGAGCCATGTAAATCCATA-T-CATATATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAACCCATATTACATATATATGGCATTGGA
* *
33570814 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAACCCATATTACATATATATGGCATTGGA
*
33570862 TACAGGAAT
1 GACAGGAAT
33570871 AATTCATGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
46 24 0.49
47 1 0.02
48 24 0.49
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAACCCATATTACATATATATGGCATTGGA
Found at i:33575292 original size:10 final size:11
Alignment explanation
Indices: 33575253--33575294 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
33575243 TATTTACGAA
*
33575253 GTTAATTGAGTG
1 GTTAATT-AGAG
33575265 GTTAATTAGAG
1 GTTAATTAGAG
*
33575276 TTTAATTA-AG
1 GTTAATTAGAG
33575286 GTTAATTAG
1 GTTAATTAG
33575295 GTATAAGGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 9 0.35
11 10 0.38
12 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (11 bp):
GTTAATTAGAG
Found at i:33580819 original size:45 final size:45
Alignment explanation
Indices: 33580752--33580843 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
33580742 TCAAACTGTT
*
33580752 AGTTGGCATACTTGAGATTAAAGAATTTGTGGTACTTGTTGAGCG
1 AGTTGGCATACTTGAGAATAAAGAATTTGTGGTACTTGTTGAGCG
33580797 AGTTGGCATACTTGAGAATAAAGAATTTGTGGTACTTGTTGAGCG
1 AGTTGGCATACTTGAGAATAAAGAATTTGTGGTACTTGTTGAGCG
33580842 AG
1 AG
33580844 CCTGCAAGGC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.28, C:0.09, G:0.29, T:0.34
Consensus pattern (45 bp):
AGTTGGCATACTTGAGAATAAAGAATTTGTGGTACTTGTTGAGCG
Found at i:33589980 original size:3 final size:3
Alignment explanation
Indices: 33589972--33590020 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
33589962 ATGAATTAAA
* *
33589972 TAT TAT TA- TAT TA- TAT TAT TAT AAT GTAT TAT TAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
33590016 TAT TA
1 TAT TA
33590021 ACTAATATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 4 0.10
3 33 0.85
4 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:33589989 original size:13 final size:13
Alignment explanation
Indices: 33589971--33590020 Score: 64
Period size: 13 Copynumber: 3.7 Consensus size: 13
33589961 TATGAATTAA
33589971 ATATTATTATATT
1 ATATTATTATATT
*
33589984 ATATTATTATAAT
1 ATATTATTATATT
*
33589997 GTATTATTATTATT
1 ATATTATTA-TATT
33590011 AATATTATTA
1 -ATATTATTA
33590021 ACTAATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
13 20 0.65
14 3 0.10
15 8 0.26
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:33589993 original size:16 final size:16
Alignment explanation
Indices: 33589972--33590018 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
33589962 ATGAATTAAA
33589972 TATTATTATATTATAT
1 TATTATTATATTATAT
33589988 TATTA-TA-ATGTATTAT
1 TATTATTATAT-TA-TAT
33590004 TATTATTAATATTAT
1 TATTATT-ATATTAT
33590019 TAACTAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
14 2 0.08
15 4 0.15
16 13 0.50
17 2 0.08
18 3 0.12
19 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TATTATTATATTATAT
Found at i:33593274 original size:40 final size:40
Alignment explanation
Indices: 33593237--33593419 Score: 223
Period size: 40 Copynumber: 4.6 Consensus size: 40
33593227 GCTACTCGTT
*
33593237 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
33593277 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
33593317 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * *
33593356 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
33593397 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
33593420 ACATCATTCG
Statistics
Matches: 124, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 77 0.62
41 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:33593348 original size:79 final size:80
Alignment explanation
Indices: 33593239--33593419 Score: 235
Period size: 79 Copynumber: 2.3 Consensus size: 80
33593229 TACTCGTTCA
* *
33593239 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGA
* *
33593303 TTTAGTAAC-TCGCACC
65 TATAGTAACTTAGCA-C
**
33593319 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
33593382 TATAGTCACTTAGCAC
65 TATAGTAACTTAGCAC
*
33593398 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
33593420 ACATCATTCG
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
78 4 0.04
79 60 0.67
80 25 0.28
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:33600957 original size:79 final size:81
Alignment explanation
Indices: 33600789--33600973 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
33600779 GCTACTCGTT
* * *
33600789 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACCTAACCCA
* *
33600853 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* * ** *
33600870 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTTGCACAAATGCCTTC-GGATCCTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CCTAACCCA
*
33600932 GATATAGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
33600949 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
33600974 CATCATTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 25 0.28
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACCTAACCCAG
ATATAGTAACTAGCAC
Found at i:33600973 original size:40 final size:40
Alignment explanation
Indices: 33600770--33600973 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
33600760 CAGAATTTAA
** *
33600770 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33600810 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
33600850 CCAGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
33600889 CCGGA-ATTAGTAACTTGCACAAATGCCTTC-GGATCCTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
33600929 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
33600969 CCGGA
1 CCGGA
33600974 CATCATTCGA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 31 0.23
40 92 0.67
41 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:33602960 original size:14 final size:14
Alignment explanation
Indices: 33602941--33602970 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
33602931 TGTGCCACGA
33602941 ATACATTCTTTAAT
1 ATACATTCTTTAAT
33602955 ATACATTCTTTAAT
1 ATACATTCTTTAAT
33602969 AT
1 AT
33602971 GGAAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (14 bp):
ATACATTCTTTAAT
Found at i:33603138 original size:6 final size:6
Alignment explanation
Indices: 33603129--33603186 Score: 98
Period size: 6 Copynumber: 9.7 Consensus size: 6
33603119 TTAATATAGT
* *
33603129 ATTATA ATTATA ATTGTA ATTATA GTTATA ATTATA ATTATA ATTATA
1 ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA
33603177 ATTATA ATTA
1 ATTATA ATTA
33603187 CTTAAATATT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (6 bp):
ATTATA
Found at i:33603439 original size:27 final size:28
Alignment explanation
Indices: 33603400--33603458 Score: 111
Period size: 27 Copynumber: 2.1 Consensus size: 28
33603390 TACTTTTAAC
33603400 TTTTAGTGTGAGTAAATCATATTTTGAA
1 TTTTAGTGTGAGTAAATCATATTTTGAA
33603428 TTTT-GTGTGAGTAAATCATATTTTGAA
1 TTTTAGTGTGAGTAAATCATATTTTGAA
33603455 TTTT
1 TTTT
33603459 TTCTACAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 27 0.87
28 4 0.13
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (28 bp):
TTTTAGTGTGAGTAAATCATATTTTGAA
Found at i:33606638 original size:3 final size:3
Alignment explanation
Indices: 33606630--33606674 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
33606620 GAGGGGTTGT
33606630 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
33606675 ACTCCCAGCC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:33607396 original size:31 final size:32
Alignment explanation
Indices: 33607353--33607427 Score: 111
Period size: 31 Copynumber: 2.4 Consensus size: 32
33607343 TAAAAATAAT
33607353 AATAA-CTCAATAATTTAAATAAAAACTTTTA
1 AATAATCTCAATAATTTAAATAAAAACTTTTA
**
33607384 AATAATCT-AATAATTTAAATAAAATTTTTTA
1 AATAATCTCAATAATTTAAATAAAAACTTTTA
33607415 AATAAT-TCAATAA
1 AATAATCTCAATAA
33607428 CTGTAATTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
30 1 0.03
31 37 0.93
32 2 0.05
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (32 bp):
AATAATCTCAATAATTTAAATAAAAACTTTTA
Found at i:33615604 original size:13 final size:15
Alignment explanation
Indices: 33615586--33615617 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
33615576 CTATAGTGGA
33615586 CACATGG-C-TGTGT
1 CACATGGCCGTGTGT
33615599 CACATGGCCGTGTGT
1 CACATGGCCGTGTGT
33615614 CACA
1 CACA
33615618 CATGGCTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 1 0.06
15 9 0.53
ACGTcount: A:0.19, C:0.28, G:0.28, T:0.25
Consensus pattern (15 bp):
CACATGGCCGTGTGT
Found at i:33617267 original size:39 final size:39
Alignment explanation
Indices: 33617164--33617289 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
33617154 ATTGTCAAAT
*
33617164 CAACCGAACACACCAGACAGAAGCTCATAAGAGCTAATC
1 CAACCGAACACGCCAGACAGAAGCTCATAAGAGCTAATC
** *
33617203 CAATTGAAATACGCCAGACAGAAGCTCATAAGAGCTAATC
1 CAACCG-AACACGCCAGACAGAAGCTCATAAGAGCTAATC
* *
33617243 CAACCGAACACGCCAGACAGAAGCTAATAAAAGCTAATC
1 CAACCGAACACGCCAGACAGAAGCTCATAAGAGCTAATC
33617282 CAACCGAA
1 CAACCGAA
33617290 ACATGCAGAA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 42 0.55
40 35 0.45
ACGTcount: A:0.44, C:0.28, G:0.16, T:0.12
Consensus pattern (39 bp):
CAACCGAACACGCCAGACAGAAGCTCATAAGAGCTAATC
Found at i:33617959 original size:9 final size:9
Alignment explanation
Indices: 33617945--33617973 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
33617935 ATAATAAAAT
33617945 AACTTATAA
1 AACTTATAA
33617954 AACTTATAA
1 AACTTATAA
33617963 AACTTATAA
1 AACTTATAA
33617972 AA
1 AA
33617974 TTAAAAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (9 bp):
AACTTATAA
Found at i:33626026 original size:17 final size:18
Alignment explanation
Indices: 33625999--33626034 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
33625989 AATCAAATAT
33625999 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
33626017 ATGC-TATTAATTTATTA
1 ATGCATATTAAATTATTA
33626034 A
1 A
33626035 AAAATATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:33626229 original size:30 final size:30
Alignment explanation
Indices: 33626195--33626251 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
33626185 CTTCTGAAAA
* *
33626195 TATTTACAAAAAGAGACACCTAATTTTTAT
1 TATTTACAAAAAGAGAAACCAAATTTTTAT
**
33626225 TATTTATGAAAAGAGAAACCAAATTTT
1 TATTTACAAAAAGAGAAACCAAATTTT
33626252 AAAAATAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.35
Consensus pattern (30 bp):
TATTTACAAAAAGAGAAACCAAATTTTTAT
Found at i:33627415 original size:11 final size:11
Alignment explanation
Indices: 33627399--33627429 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
33627389 TGAGATTATC
33627399 TACTGTAGCGA
1 TACTGTAGCGA
*
33627410 TACTGTAGTGA
1 TACTGTAGCGA
33627421 TACTGTAGC
1 TACTGTAGC
33627430 ATGAGACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (11 bp):
TACTGTAGCGA
Found at i:33644532 original size:20 final size:21
Alignment explanation
Indices: 33644495--33644535 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33644485 TTATGATACA
*
33644495 TTAACATTTTTATATTAAATT
1 TTAACATTTTAATATTAAATT
*
33644516 TTAAGATTTTAAT-TTAAATT
1 TTAACATTTTAATATTAAATT
33644536 AACTTTTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TTAACATTTTAATATTAAATT
Found at i:33646325 original size:43 final size:43
Alignment explanation
Indices: 33646187--33646325 Score: 136
Period size: 43 Copynumber: 3.2 Consensus size: 43
33646177 CCTTAAGTGA
* * * * * *
33646187 CGCTTCTCACAAAAATGTCACTATAGAACATGACCTTTAGCAG
1 CGCTTTTCCCAAAAATGTCACTAAAAAACATGACATTTAGCGG
* * * * * *
33646230 CGCTTTTTCCACAAACGCCACTAAACAACATGACATTTAGTGG
1 CGCTTTTCCCAAAAATGTCACTAAAAAACATGACATTTAGCGG
* *
33646273 CGCTTTTCCCAAAAATGTCACTAAAAAAATATGACTTTTAGCGG
1 CGCTTTTCCCAAAAATGTCACT-AAAAAACATGACATTTAGCGG
33646317 CG-TTTTCCC
1 CGCTTTTCCC
33646326 TACAAACGCC
Statistics
Matches: 76, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
43 57 0.75
44 19 0.25
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (43 bp):
CGCTTTTCCCAAAAATGTCACTAAAAAACATGACATTTAGCGG
Found at i:33646884 original size:30 final size:29
Alignment explanation
Indices: 33646852--33646909 Score: 109
Period size: 28 Copynumber: 2.0 Consensus size: 29
33646842 CATGAGAATA
33646852 TATATGTGTGAAAATTGTGTGAG-TAATT
1 TATATGTGTGAAAATTGTGTGAGCTAATT
33646880 TATATGTGTGAAAATTGTGTGAGCTAATT
1 TATATGTGTGAAAATTGTGTGAGCTAATT
33646909 T
1 T
33646910 TATTGTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 23 0.79
29 6 0.21
ACGTcount: A:0.31, C:0.02, G:0.24, T:0.43
Consensus pattern (29 bp):
TATATGTGTGAAAATTGTGTGAGCTAATT
Found at i:33646912 original size:30 final size:28
Alignment explanation
Indices: 33646844--33646909 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
33646834 GTTTATAGCA
*
33646844 TGAG-AATATATATGTGTGAAAATTGTG
1 TGAGTAATTTATATGTGTGAAAATTGTG
33646871 TGAGTAATTTATATGTGTGAAAATTGTG
1 TGAGTAATTTATATGTGTGAAAATTGTG
33646899 TGAGCTAATTT
1 TGAG-TAATTT
33646910 TATTGTTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 4 0.11
28 26 0.72
29 6 0.17
ACGTcount: A:0.33, C:0.02, G:0.24, T:0.41
Consensus pattern (28 bp):
TGAGTAATTTATATGTGTGAAAATTGTG
Found at i:33648036 original size:43 final size:43
Alignment explanation
Indices: 33647988--33648178 Score: 215
Period size: 43 Copynumber: 4.4 Consensus size: 43
33647978 TGCCGAGATG
* *
33647988 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATTT
1 TGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTA-TT
* *
33648031 TGATTATGTGTAAGACCATGTCTGGGACATTGGCATGGTTATT
1 TGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTATT
** * *
33648074 CAATTACGTGTAAGACCATGTCTAGGACATTGGCAGCGTTATT
1 TGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTATT
* * * *
33648117 TGATTTCGTGTAAGA-CATTGTCTGGGACAGTGGCATCGATATG
1 TGATTACGTGTAAGACCA-TGTCTGGGACATTGGCATCGTTATT
** *
33648160 TGACGACATGTAAGACCAT
1 TGATTACGTGTAAGACCAT
33648179 ATTTGGGATA
Statistics
Matches: 124, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
42 2 0.02
43 118 0.95
44 4 0.03
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (43 bp):
TGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTATT
Found at i:33653216 original size:46 final size:47
Alignment explanation
Indices: 33653163--33653289 Score: 181
Period size: 46 Copynumber: 2.7 Consensus size: 47
33653153 TGGTATGTGT
*
33653163 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATT-ATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGACGAGA
*
33653209 GCCAGTGTAAAACATGTCTGGGACATGCATC-G--ACATTGAGACGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATT--GACGAGA
*
33653255 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCC
33653290 TTGACATATA
Statistics
Matches: 71, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
43 5 0.07
45 1 0.01
46 64 0.90
47 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGACGAGA
Found at i:33653351 original size:92 final size:91
Alignment explanation
Indices: 33653161--33653373 Score: 220
Period size: 92 Copynumber: 2.3 Consensus size: 91
33653151 GGTGGTATGT
* *
33653161 GTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAAACATGT
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAAAGCCAGTGTAAAACATGT
* *
33653226 CTGGGACATGCATCGACATTGAGACGA
66 CTCGGACAGGCATCGACATT-AGACGA
* * *
33653253 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGACA-TAT-ACAAGCTAGTGTAAGAC
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCC---ACATTATGA-AAGCCAGTGTAAAAC
* **
33653316 CTGTCTCGGACAAGGCATC-AGC-TT-GTTGA
62 ATGTCTCGGAC-AGGCATCGA-CATTAGACGA
* *
33653345 GTGCTAGTGTAAGACCTATCTGGGACATG
1 GTGCTAGTGTAAGACATGTCTGGGACATG
33653374 GCATTGACAC
Statistics
Matches: 102, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
92 64 0.63
93 1 0.01
94 27 0.26
95 10 0.10
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (91 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAAAGCCAGTGTAAAACATGT
CTCGGACAGGCATCGACATTAGACGA
Found at i:33653475 original size:49 final size:48
Alignment explanation
Indices: 33653254--33653477 Score: 171
Period size: 49 Copynumber: 4.7 Consensus size: 48
33653244 TTGAGACGAG
* * * *
33653254 AGCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCTTGACATATACA
1 AGCTAGTGTAAGACCTATCTGGGACATGGCATCAGCCTTGATAGATA-A
* * * *
33653302 AGCTAGTGTAAGACCTGTCTCGGACAAGGCATCAG-CTTG-TTGAGT--
1 AGCTAGTGTAAGACCTATCTGGGACATGGCATCAGCCTTGATAGA-TAA
*
33653347 -GCTAGTGTAAGACCTATCTGGGACATGGCAT-TGACAC-TGATAGATGAGA
1 AGCTAGTGTAAGACCTATCTGGGACATGGCATCAG-C-CTTGATAGAT-A-A
* * * **
33653396 A-CCAGTGTAAGACCTATCTGGTAC-TCGGCATCGGCCTTGATTTATAAA
1 AGCTAGTGTAAGACCTATCTGGGACAT-GGCATCAGCCTTGATAGAT-AA
*
33653444 AGTTAGTGTAAGACCTATCTGGGACATGGCATCA
1 AGCTAGTGTAAGACCTATCTGGGACATGGCATCA
33653478 ACTTTGACGT
Statistics
Matches: 139, Mismatches: 21, Indels: 31
0.73 0.11 0.16
Matches are distributed among these distances:
43 1 0.01
44 28 0.20
45 3 0.02
46 4 0.03
47 1 0.01
48 33 0.24
49 67 0.48
50 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (48 bp):
AGCTAGTGTAAGACCTATCTGGGACATGGCATCAGCCTTGATAGATAA
Found at i:33658650 original size:47 final size:47
Alignment explanation
Indices: 33658593--33658896 Score: 425
Period size: 47 Copynumber: 6.4 Consensus size: 47
33658583 ATTGATGTAC
* * *
33658593 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
33658640 AAGTATATATATGCATGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATG--TGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
33658689 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
33658736 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
33658783 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
33658830 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
33658877 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
33658897 TCCCGGAGGG
Statistics
Matches: 239, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 197 0.82
49 40 0.17
50 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:33658774 original size:22 final size:22
Alignment explanation
Indices: 33658747--33658868 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
33658737 CATGTGTATG
33658747 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
33658769 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
33658794 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
33658816 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
33658841 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
33658863 TGTGAT
1 TGTGAT
33658869 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:33673391 original size:40 final size:40
Alignment explanation
Indices: 33673334--33673537 Score: 313
Period size: 40 Copynumber: 5.1 Consensus size: 40
33673324 TGGATGATAA
* * * *
33673334 CCGGGCTAGGTCCCGAAGGCCTTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
33673374 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
33673414 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
33673454 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
33673494 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
33673534 CCGG
1 CCGG
33673538 CAAAATCGCG
Statistics
Matches: 153, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 2 0.01
40 150 0.98
41 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:33681341 original size:40 final size:40
Alignment explanation
Indices: 33681286--33681446 Score: 227
Period size: 40 Copynumber: 4.0 Consensus size: 40
33681276 CGGATGATAA
* * * *
33681286 CTGGGCTAGGTCCCGAAGGCCTTTGTGCTAGTGACTA-ATT
1 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
33681326 CTGGGCTAAGTCCCGAAAGCATTTGTGCGAGTTACTATAT
1 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
33681366 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
33681406 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
33681446 C
1 C
33681447 CGGCAAAATC
Statistics
Matches: 111, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 2 0.02
40 108 0.97
41 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:33702392 original size:45 final size:45
Alignment explanation
Indices: 33702327--33702414 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
33702317 AAACATGTAA
*
33702327 CACATACATCATGAAATCAGACTACAACTCAATGAGTTCAGATGT
1 CACATACATCATGAAATCAGACCACAACTCAATGAGTTCAGATGT
* *
33702372 CACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGAT
1 CACATACATCATGAAATCAGACCACAACTCAATGAGTTCAGAT
33702415 CACATAATTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.24
Consensus pattern (45 bp):
CACATACATCATGAAATCAGACCACAACTCAATGAGTTCAGATGT
Found at i:33702418 original size:21 final size:21
Alignment explanation
Indices: 33702350--33702418 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 21
33702340 AAATCAGACT
33702350 ACAACTCAATGAGTTCAGATGTC
1 ACAACTCAATGAGTTCAGA--TC
* ** *
33702373 ACATATATC-ATGAACTCAGACC
1 ACA-A-CTCAATGAGTTCAGATC
33702395 ACAACTCAATGAGTTCAGATC
1 ACAACTCAATGAGTTCAGATC
33702416 ACA
1 ACA
33702419 TAATTCCTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
20 2 0.06
21 14 0.40
22 4 0.11
23 3 0.09
24 10 0.29
25 2 0.06
ACGTcount: A:0.39, C:0.25, G:0.13, T:0.23
Consensus pattern (21 bp):
ACAACTCAATGAGTTCAGATC
Found at i:33704162 original size:6 final size:6
Alignment explanation
Indices: 33704130--33704347 Score: 144
Period size: 6 Copynumber: 35.3 Consensus size: 6
33704120 AAGAAACATT
* * *
33704130 ATCAGA A-CTAGA ATCAAA ATGAAA ATCAGA ATCAGA ATCAGA ATCA-A
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
33704177 GTGACAGA ATCAAA ATCAGA ATCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * * *
33704228 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ACCAGA ATCAGA ATTAGGTA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* * * *
33704279 A-CAGA ATCAGA ATTAAA ATTAGGTA A-CAGA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A
33704329 A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
33704348 GTGAATGCAA
Statistics
Matches: 168, Mismatches: 24, Indels: 40
0.72 0.10 0.17
Matches are distributed among these distances:
5 13 0.08
6 131 0.78
7 14 0.08
8 10 0.06
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:33704187 original size:25 final size:25
Alignment explanation
Indices: 33704156--33704347 Score: 148
Period size: 25 Copynumber: 7.7 Consensus size: 25
33704146 AAATGAAAAT
*
33704156 CAGAATCAGAATCAGAATCAAGTGA
1 CAGAATCAGAATCAGAATCAAGTAA
*
33704181 CAGAATCAAAATCAGAATC-AG-AA
1 CAGAATCAGAATCAGAATCAAGTAA
*
33704204 TCAGAATTAGGTAA-CAGAATC-AG-AA
1 -CAGAATCA-G-AATCAGAATCAAGTAA
*
33704229 TCAGTATCAGGTAA-CAGAATCAA--AA
1 -CAGAATCA-G-AATCAGAATCAAGTAA
* * *
33704254 TCAGAACCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGAATCAAGTAA
* * * *
33704280 CAGAATCAGAATTAAAATTAGGTAA
1 CAGAATCAGAATCAGAATCAAGTAA
* *
33704305 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAAGTAA
33704330 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
33704348 GTGAATGCAA
Statistics
Matches: 142, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
23 3 0.02
24 17 0.12
25 117 0.82
26 5 0.04
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.19
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAAGTAA
Found at i:33704194 original size:37 final size:37
Alignment explanation
Indices: 33704151--33704347 Score: 138
Period size: 37 Copynumber: 5.3 Consensus size: 37
33704141 AATCAAAATG
*
33704151 AAAATCAGAATCAGAATCAGAATCAAGTGACAGAATC
1 AAAATCAGAATCAGAATCAGAATCAAGTAACAGAATC
* *
33704188 AAAATCAGAATCAGAATCAGAATTAGGTAACAGAATC
1 AAAATCAGAATCAGAATCAGAATCAAGTAACAGAATC
* * *
33704225 AGAATCAGTATCAGGTAA-CAGAATCAA--AATCAGAACC
1 AAAATCAGAATCA-G-AATCAGAATCAAGTAA-CAGAATC
* * * * *
33704262 AGAATCAGAATTAGGTAA-CAGAATC-AG-AATTAAAATT
1 AAAATCAGAATCA-G-AATCAGAATCAAGTAA-CAGAATC
* * *
33704299 AGGTAA-CAGAATCAGAATCAGTATCAGGTAACAGAATC
1 A--AAATCAGAATCAGAATCAGAATCAAGTAACAGAATC
*
33704337 AGAATCAGAAT
1 AAAATCAGAAT
33704348 GTGAATGCAA
Statistics
Matches: 128, Mismatches: 22, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
36 7 0.05
37 94 0.73
38 21 0.16
39 6 0.05
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (37 bp):
AAAATCAGAATCAGAATCAGAATCAAGTAACAGAATC
Found at i:33704246 original size:19 final size:19
Alignment explanation
Indices: 33704162--33704291 Score: 106
Period size: 19 Copynumber: 6.6 Consensus size: 19
33704152 AAATCAGAAT
* *
33704162 CAGAATCAGAATCAAGTGA
1 CAGAATCAGAATCAGGTAA
*
33704181 CAGAATCAAAATCA-G-AA
1 CAGAATCAGAATCAGGTAA
*
33704198 TCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGGTAA
33704218 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAG----A--ATCAGGTAA
*
33704243 CAGAATCAAAATCA-G-AA
1 CAGAATCAGAATCAGGTAA
*
33704260 CCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGGTAA
33704280 CAGAATCAGAAT
1 CAGAATCAGAAT
33704292 TAAAATTAGG
Statistics
Matches: 91, Mismatches: 8, Indels: 24
0.74 0.07 0.20
Matches are distributed among these distances:
17 3 0.03
18 26 0.29
19 40 0.44
20 4 0.04
21 1 0.01
23 1 0.01
25 16 0.18
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTAA
Found at i:33704246 original size:62 final size:62
Alignment explanation
Indices: 33704156--33704325 Score: 259
Period size: 62 Copynumber: 2.7 Consensus size: 62
33704146 AAATGAAAAT
* *
33704156 CAGAATCAGAATCAGAATCAAGTGACAGAATCAAAATCAGAATCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAACAGAATCAAAATCAGAATCAGAATCAGAATTAGGTAA
* *
33704218 CAGAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAGAACCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAACAGAATCAAAATCAGAATCAGAATCAGAATTAGGTAA
* * * * *
33704280 CAGAATCAGAATTAAAATTAGGTAACAGAATCAGAATCAGTATCAG
1 CAGAATCAGAATCAGAATCAGGTAACAGAATCAAAATCAGAATCAG
33704326 GTAACAGAAT
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 97 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.19
Consensus pattern (62 bp):
CAGAATCAGAATCAGAATCAGGTAACAGAATCAAAATCAGAATCAGAATCAGAATTAGGTAA
Found at i:33704791 original size:27 final size:27
Alignment explanation
Indices: 33704761--33704904 Score: 152
Period size: 27 Copynumber: 5.3 Consensus size: 27
33704751 GGGGTAAAAT
*
33704761 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* **
33704788 GGTAATTCTACTTTAC-AGGAGTATTTC
1 GGTAATTTTACCCTACAAGG-GTATTTC
* * *
33704815 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
33704842 GAT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
33704869 -G-ACATTTCTACCCTACAAGGGTATTTC
1 GGTA-ATTT-TACCCTACAAGGGTATTTC
33704896 GGTAATTTT
1 GGTAATTTT
33704905 GTAAATTGAG
Statistics
Matches: 97, Mismatches: 13, Indels: 14
0.78 0.10 0.11
Matches are distributed among these distances:
26 6 0.06
27 83 0.86
28 7 0.07
29 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:33704820 original size:54 final size:53
Alignment explanation
Indices: 33704762--33704902 Score: 169
Period size: 54 Copynumber: 2.6 Consensus size: 53
33704752 GGGTAAAATG
* **
33704762 GTAATTTTACCCTACAAGGGTATCTCGGTAATTCTACTTTAC-AGGAGTATTTC
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGG-GTATTTC
* * * *
33704815 AGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTC
1 -GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
33704869 G-ACATTTCTACCCTACAAGGGTATTTCGGTAATT
1 GTA-ATTT-TACCCTACAAGGGTATTTCGGTAATT
33704903 TTGTAAATTG
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
52 1 0.01
53 4 0.05
54 65 0.89
55 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (53 bp):
GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
Found at i:33704982 original size:27 final size:27
Alignment explanation
Indices: 33704952--33705016 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
33704942 GGTACTTTGG
33704952 TAATTTTACAAGTCGAGTGTATTTCAA
1 TAATTTTACAAGTCGAGTGTATTTCAA
* *
33704979 TAATTTTACAGGTCGAGTGTATTTCAG
1 TAATTTTACAAGTCGAGTGTATTTCAA
*
33705006 TAATTTCACAA
1 TAATTTTACAA
33705017 ATCAGGGGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGTGTATTTCAA
Found at i:33705063 original size:27 final size:27
Alignment explanation
Indices: 33705005--33705505 Score: 605
Period size: 27 Copynumber: 18.6 Consensus size: 27
33704995 GTGTATTTCA
*
33705005 GTAATTTCACAAA-TCAGGGGT-TTTTG
1 GTAATTTTACAAACT-AGGGGTATTTTG
33705031 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
33705058 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
33705085 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
* * * * *
33705112 GTAATTTTATAAACAAAGGTTATTTTA
1 GTAATTTTACAAACTAGGGGTATTTTG
33705139 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
*** * **
33705166 GTAATTTTGTGAACCAATGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
33705193 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
* * * * * *
33705220 GTGATTTTATAAACCAAGGGTATTCTA
1 GTAATTTTACAAACTAGGGGTATTTTG
33705247 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
** * *
33705274 GTAATTTTGTAAACCAAGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
33705301 GTAATTTTACAAA-TCAGGGGTATTTTG
1 GTAATTTTACAAACT-AGGGGTATTTTG
* * * * *
33705328 GTGATTTTATAAACCAAGGGTATTTTA
1 GTAATTTTACAAACTAGGGGTATTTTG
33705355 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
** * *
33705382 GTAATTTTGTAAACCAAGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
33705409 GTAATTTTACAAA-TCAGGGGTATTTTG
1 GTAATTTTACAAACT-AGGGGTATTTTG
* * * * *
33705436 GTGATTTTATAAACCAAGGGTATTTTA
1 GTAATTTTACAAACTAGGGGTATTTTG
33705463 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTG
* *
33705490 GTAATTTGATAAACTA
1 GTAATTTTACAAACTA
33705506 AAGTATTCTA
Statistics
Matches: 396, Mismatches: 73, Indels: 11
0.82 0.15 0.02
Matches are distributed among these distances:
26 18 0.05
27 378 0.95
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAACTAGGGGTATTTTG
Found at i:33705103 original size:54 final size:54
Alignment explanation
Indices: 33705022--33705503 Score: 754
Period size: 54 Copynumber: 8.9 Consensus size: 54
33705012 CACAAATCAG
* * *
33705022 GGGT-TTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
*
33705075 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
* * * *
33705129 GGTTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTGAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
* *
33705183 TGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
* * *
33705237 GGGTATTCTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
*
33705291 GGGTATTTTGGTAATTTTACAAA-TCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTATAAACCAA
* *
33705345 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
*
33705399 GGGTATTTTGGTAATTTTACAAA-TCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTATAAACCAA
* *
33705453 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTGATAAAC
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAAC
33705504 TAAAGTATTC
Statistics
Matches: 392, Mismatches: 32, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
53 6 0.02
54 384 0.98
55 2 0.01
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAA
Found at i:33725527 original size:34 final size:34
Alignment explanation
Indices: 33725484--33725572 Score: 124
Period size: 34 Copynumber: 2.6 Consensus size: 34
33725474 TGTACTGAAT
*
33725484 TGGGCTAAGGCCCACATTGATATTGCTATTGATA
1 TGGGCTAAGGCCCACACTGATATTGCTATTGATA
*
33725518 TGGGCTAAGGCCCACACTGATATTTCTATTGATA
1 TGGGCTAAGGCCCACACTGATATTGCTATTGATA
* * * *
33725552 AGAGCTTAGGCCCAGACTGAT
1 TGGGCTAAGGCCCACACTGAT
33725573 CAACAATGCA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (34 bp):
TGGGCTAAGGCCCACACTGATATTGCTATTGATA
Found at i:33737768 original size:20 final size:20
Alignment explanation
Indices: 33737743--33737782 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
33737733 CACATTTTCA
33737743 AATGTCAGAAGTCATCACAC
1 AATGTCAGAAGTCATCACAC
*
33737763 AATGTCAGAGGTCATCACAC
1 AATGTCAGAAGTCATCACAC
33737783 TATCACAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
AATGTCAGAAGTCATCACAC
Found at i:33753025 original size:13 final size:13
Alignment explanation
Indices: 33753002--33753028 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33752992 AAGAAATCGT
33753002 TTCATAAAATTTC
1 TTCATAAAATTTC
33753015 TTCATAAAATTTC
1 TTCATAAAATTTC
33753028 T
1 T
33753029 AGAGATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (13 bp):
TTCATAAAATTTC
Found at i:33755395 original size:43 final size:42
Alignment explanation
Indices: 33755330--33755505 Score: 183
Period size: 43 Copynumber: 4.0 Consensus size: 42
33755320 CCCAGATTCA
* *
33755330 TTCACCGGCATTTCGCCTGCTAGGCTCGAAGCCCGATA-TCAT
1 TTCACCGGCATTTAGCCTGCTAGGCTCGAAGCCCAATAGT-AT
* * *
33755372 TTCACCGTCATTATAGCCTGCTAGGCTTGAAAGCTCTAATAGTAT
1 TTCACCGGCATT-TAGCCTGCTAGGCTCG-AAGC-CCAATAGTAT
* * * *
33755417 CTCACCGACATTTCGCCTACTAGGCTCGAAGCCCAAATAGTAT
1 TTCACCGGCATTTAGCCTGCTAGGCTCGAAGCCC-AATAGTAT
*
33755460 TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAT
1 TTCACCGGCATT-TAGCCTGCTAGGCTCGAA-GCCC-AATAGTAT
33755505 T
1 T
33755506 GTGCGATATT
Statistics
Matches: 110, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
42 12 0.11
43 36 0.33
44 32 0.29
45 29 0.26
46 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (42 bp):
TTCACCGGCATTTAGCCTGCTAGGCTCGAAGCCCAATAGTAT
Found at i:33755501 original size:88 final size:87
Alignment explanation
Indices: 33755331--33755504 Score: 244
Period size: 88 Copynumber: 2.0 Consensus size: 87
33755321 CCAGATTCAT
* * * *
33755331 TCACCGGCATTTCGCCTGCTAGGCTCGAAGCCCGATATCATTTCACCGTCATTATAGCCTGCTAG
1 TCACCGACATTTCGCCTACTAGGCTCGAAGCCCAATATCATTTCACCGGCATTATAGCCTGCTAG
* * *
33755396 GCTTGAAAGCTCTAATAGTATC
66 GCTTCAAAGCCCGAATAGTATC
33755418 TCACCGACATTTCGCCTACTAGGCTCGAAGCCCAAATAGT-ATTTCACCGGCATTATAGCCTGCT
1 TCACCGACATTTCGCCTACTAGGCTCGAAGCCC-AATA-TCATTTCACCGGCATTATAGCCTGCT
33755482 AGGC-TCAAAGGCCCGAATAGTAT
64 AGGCTTCAAA-GCCCGAATAGTAT
33755505 TGTGCGATAT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
87 35 0.45
88 41 0.53
89 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (87 bp):
TCACCGACATTTCGCCTACTAGGCTCGAAGCCCAATATCATTTCACCGGCATTATAGCCTGCTAG
GCTTCAAAGCCCGAATAGTATC
Found at i:33756350 original size:47 final size:46
Alignment explanation
Indices: 33756295--33756436 Score: 212
Period size: 47 Copynumber: 3.0 Consensus size: 46
33756285 AAAATTTTCT
* *
33756295 TTAACTAAGTAACTTATCCGGAAATAATAAGGGAAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAG-AAATTTAACAAGC
* *
33756342 TTAACTAAGTAACTTATACAGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAG-AAATTTAACAAGC
* *
33756389 TTAACTAAGTAACTTATCCGAAAATATTAAGAGCAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGAAATTTAACAAGC
33756435 TT
1 TT
33756437 TAAATTCAAC
Statistics
Matches: 86, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
46 14 0.16
47 72 0.84
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.28
Consensus pattern (46 bp):
TTAACTAAGTAACTTATCCGGAAATATTAAGAGAAATTTAACAAGC
Found at i:33757637 original size:316 final size:316
Alignment explanation
Indices: 33757064--33757697 Score: 1225
Period size: 316 Copynumber: 2.0 Consensus size: 316
33757054 TTTATCACCA
33757064 TCATTATGGCCGGCCACTATACATTAAAGTGGGAATTTTGACATGCAAATCCACCTATTTTACAC
1 TCATTATGGCCGGCCACTATACATTAAAGTGGGAATTTTGACATGCAAATCCACCTATTTTACAC
33757129 CATAAAATTATTTGGCCACTACAAAATAACCTATAGCATTTTCAAAAATTTTCACATAAGTCCTA
66 CATAAAATTATTTGGCCACTACAAAATAACCTATAGCATTTTCAAAAATTTTCACATAAGTCCTA
33757194 TTTAATAATTTCACATACAATTGAAAAGATCAAAGCATGAAATTTTCACACATGCACTTTCACAT
131 TTTAATAATTTCACATACAATTGAAAAGATCAAAGCATGAAATTTTCACACATGCACTTTCACAT
33757259 ATAATAAACACAGAACATAACATTTAATTATTTTTGTGACTCGATTTTGTGGTCCCGAAACCACT
196 ATAATAAACACAGAACATAACATTTAATTATTTTTGTGACTCGATTTTGTGGTCCCGAAACCACT
* * *
33757324 TTTCGACTAGGGTCAAATTAGGGCTGTCACATCTATCAAGTCCAATTAGGAAGATG
261 TTCCGACTAGGGTCAAACTAGGGCTGTCACATCTATCAAGTCCAATTAAGAAGATG
33757380 TCATTATGGCCGGCCACTATACATTAAAGTGGGAATTTTGACATGCAAATCCACCTATTTTACAC
1 TCATTATGGCCGGCCACTATACATTAAAGTGGGAATTTTGACATGCAAATCCACCTATTTTACAC
33757445 CATAAAATTATTTGGCCACTACAAAATAACCTATAGCATTTTCAAAAATTTTCACATAAGTCCTA
66 CATAAAATTATTTGGCCACTACAAAATAACCTATAGCATTTTCAAAAATTTTCACATAAGTCCTA
33757510 TTTAATAATTTCACATACAATTGAAAAGATCAAAGCATGAAATTTTCACACATGCACTTTCACAT
131 TTTAATAATTTCACATACAATTGAAAAGATCAAAGCATGAAATTTTCACACATGCACTTTCACAT
33757575 ATAATAAACACAGAACATAACATTTAATTATTTTTGTGACTC-AGTTTTGTGGTCCCGAAACCAC
196 ATAATAAACACAGAACATAACATTTAATTATTTTTGTGACTCGA-TTTTGTGGTCCCGAAACCAC
33757639 TTTCCGACTAGGGTCAAACTAGGGCTGTCACATCTATCAAGTCCAATTAAGAAGATG
260 TTTCCGACTAGGGTCAAACTAGGGCTGTCACATCTATCAAGTCCAATTAAGAAGATG
33757696 TC
1 TC
33757698 TTGTCTTGGG
Statistics
Matches: 314, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
315 1 0.00
316 313 1.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.31
Consensus pattern (316 bp):
TCATTATGGCCGGCCACTATACATTAAAGTGGGAATTTTGACATGCAAATCCACCTATTTTACAC
CATAAAATTATTTGGCCACTACAAAATAACCTATAGCATTTTCAAAAATTTTCACATAAGTCCTA
TTTAATAATTTCACATACAATTGAAAAGATCAAAGCATGAAATTTTCACACATGCACTTTCACAT
ATAATAAACACAGAACATAACATTTAATTATTTTTGTGACTCGATTTTGTGGTCCCGAAACCACT
TTCCGACTAGGGTCAAACTAGGGCTGTCACATCTATCAAGTCCAATTAAGAAGATG
Found at i:33758793 original size:26 final size:26
Alignment explanation
Indices: 33758722--33758797 Score: 84
Period size: 26 Copynumber: 2.9 Consensus size: 26
33758712 ACATATTTTC
* *
33758722 TCAAAA-TTTTCCAAGAGGAAAAATCG
1 TCAAAATTTTTCTAAG-GGTAAAATCG
* *
33758748 TCAAAATTTTACTATA-GGTAAAATTG
1 TCAAAATTTTTCTA-AGGGTAAAATCG
33758774 TCAAAATTTTTCTAAGGGTAAAAT
1 TCAAAATTTTTCTAAGGGTAAAAT
33758798 AAGGATGAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
25 1 0.02
26 35 0.83
27 5 0.12
28 1 0.02
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTTCTAAGGGTAAAATCG
Found at i:33765081 original size:25 final size:25
Alignment explanation
Indices: 33765047--33765096 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
33765037 ATTATGATTT
33765047 ATTTTATTTAAACTTTTTAAAAATA
1 ATTTTATTTAAACTTTTTAAAAATA
*
33765072 ATTTTATTTAAACTTTTTAGAAATA
1 ATTTTATTTAAACTTTTTAAAAATA
33765097 GGTTATGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (25 bp):
ATTTTATTTAAACTTTTTAAAAATA
Found at i:33765102 original size:24 final size:25
Alignment explanation
Indices: 33765050--33765102 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
33765040 ATGATTTATT
**
33765050 TTATTTAAACTTTTTAAAAATAATT
1 TTATTTAAACTTTTTAAAAATAAGG
*
33765075 TTATTTAAACTTTTTAGAAAT-AGG
1 TTATTTAAACTTTTTAAAAATAAGG
33765099 TTAT
1 TTAT
33765103 GTATGTACCG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.51
Consensus pattern (25 bp):
TTATTTAAACTTTTTAAAAATAAGG
Found at i:33766828 original size:44 final size:45
Alignment explanation
Indices: 33766776--33766994 Score: 171
Period size: 47 Copynumber: 4.8 Consensus size: 45
33766766 TATGCATATT
* *
33766776 GATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-TAGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCTGTAGCC
* *
33766820 GATGCATGTCCCAGCCACA-G-CTTACACTAGC-TATCTTTGTCGAGGCC
1 GATGCATGTCCCAG--ACATGTCTTACACTAGCACATCTCTGT--A-GCC
* * *
33766867 AATGCATGTCCCAGACATGTCTTACTCTGGCACTCATCTCTGT-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCA--CATCTCTGTAGCC
* * *
33766913 GATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACATC-T-CTGTAGCC
* * * *
33766961 AAAGCATGTCCCAGACATGCCTTACACTGGCACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCACA
33766995 CGAATCACCC
Statistics
Matches: 139, Mismatches: 19, Indels: 31
0.74 0.10 0.16
Matches are distributed among these distances:
43 4 0.03
44 26 0.19
45 6 0.04
46 25 0.18
47 55 0.40
48 16 0.12
50 7 0.05
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACATCTCTGTAGCC
Found at i:33766971 original size:94 final size:92
Alignment explanation
Indices: 33766724--33766993 Score: 259
Period size: 94 Copynumber: 2.9 Consensus size: 92
33766714 GGATATATTA
* *
33766724 CCGATGCCATGTCCCAGAAATGGTCTTACACTCA-CTCTCATATAT-G-CATATTGATGCATGTC
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-AGCTCTCATATGTGGCCA-A---A-GCATGTC
*
33766786 CCAGACATGTCTTACACTAGCA-CAACTCTTAG
60 CCAGACATGTCTTACACTGGCACCAACTCTTAG
* * ** * * *
33766818 CTGATG-CATGTCCCAGCCACAG-CTTACACTAGCTATC-TTTGTCGAGGCCAATGCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATGT---GGCCAAAGCATGTCCCA
* *
33766880 GACATGTCTTACTCTGGCACTCATCTCTGT-G
63 GACATGTCTTACACTGGCAC-CAACTCT-TAG
33766911 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCAAAGCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATGTGGCCAAAGCATGTCCCAGA
*
33766976 CATGCCTTACACTGGCAC
65 CATGTCTTACACTGGCAC
33766994 ACGAATCACC
Statistics
Matches: 142, Mismatches: 21, Indels: 26
0.75 0.11 0.14
Matches are distributed among these distances:
91 31 0.22
92 12 0.08
93 24 0.17
94 53 0.37
95 16 0.11
96 3 0.02
97 3 0.02
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (92 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATGTGGCCAAAGCATGTCCCAGAC
ATGTCTTACACTGGCACCAACTCTTAG
Found at i:33767843 original size:20 final size:20
Alignment explanation
Indices: 33767818--33767858 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
33767808 AAATGATAGC
33767818 TAGGCTTTTAGGCATTATTT
1 TAGGCTTTTAGGCATTATTT
*
33767838 TAGGCTTTTGGGCATTATTT
1 TAGGCTTTTAGGCATTATTT
33767858 T
1 T
33767859 TCTATCTTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.10, G:0.22, T:0.51
Consensus pattern (20 bp):
TAGGCTTTTAGGCATTATTT
Found at i:33770990 original size:221 final size:221
Alignment explanation
Indices: 33770718--33771389 Score: 1290
Period size: 221 Copynumber: 3.0 Consensus size: 221
33770708 GTACCAGGAG
33770718 CCAACTCGATACCAAACTCAACCTTTCTTTCTGGGAGTAACCCTGGTAACTCCTCCAGAAAGACG
1 CCAACTCGATACCAAACTCAACCTTTCTTTCTGGGAGTAACCCTGGTAACTCCTCCAGAAAGACG
*
33770783 TCTATAAACTCACAAACCACTGGTACTGACTCAATCTTCGACTTTGACACTTGGGTATTCAGTAC
66 TCTATAAACTCACAAACCACTGGTACTGACTCAATCTTCGACTTTGACACTTGGGTATTCAGCAC
*
33770848 AAAAGCTAGATAAGCTTCATAACCTTTTCTCAAATATCTTTCGGCTACCAAAGATGATATTACCA
131 AAAAGCTAGATAAGCTTCATAACCTTTTCTCAAATATCTTTCGGCTACCAAAGACGATATTACCA
33770913 CAGACAAGTTATCTGACTCATCTGGC
196 CAGACAAGTTATCTGACTCATCTGGC
*
33770939 CCAACTCGATACCAAACTCAACCTTTCTTTCTGGGGGTAACCCTGGTAACTCCTCCAGAAAGACG
1 CCAACTCGATACCAAACTCAACCTTTCTTTCTGGGAGTAACCCTGGTAACTCCTCCAGAAAGACG
33771004 TCTATAAACTCACAAACCACTGGTACTGACTCAATCTTCGACTTTGACACTTGGGTATTCAGCAC
66 TCTATAAACTCACAAACCACTGGTACTGACTCAATCTTCGACTTTGACACTTGGGTATTCAGCAC
33771069 AAAAGCTAGATAAGCTTCATAACCTTTTCTCAAATATCTTTCGGCTACCAAAGACGATATTACCA
131 AAAAGCTAGATAAGCTTCATAACCTTTTCTCAAATATCTTTCGGCTACCAAAGACGATATTACCA
33771134 CAGACAAGTTATCTGACTCATCTGGC
196 CAGACAAGTTATCTGACTCATCTGGC
*
33771160 CCAACTCGATACCAAACTCAACCTTTCTTTCTGGGTGTAACCCTGGTAACTCCTCCAGAAAGACG
1 CCAACTCGATACCAAACTCAACCTTTCTTTCTGGGAGTAACCCTGGTAACTCCTCCAGAAAGACG
*
33771225 TCTATAAAATCACAAACCACTGGTACTGACTCAATCTTCGACTTTGACACTTGGGTATTCAGCAC
66 TCTATAAACTCACAAACCACTGGTACTGACTCAATCTTCGACTTTGACACTTGGGTATTCAGCAC
33771290 AAAAGCTAGATAAGCTTCATAACCTTTTCTCAAATATCTTTCGGCTACCAAAGACGATATTACCA
131 AAAAGCTAGATAAGCTTCATAACCTTTTCTCAAATATCTTTCGGCTACCAAAGACGATATTACCA
*
33771355 CAGACAAGTTATCTGACTCATCTAGC
196 CAGACAAGTTATCTGACTCATCTGGC
33771381 CCAACTCGA
1 CCAACTCGA
33771390 AGAACATTTC
Statistics
Matches: 445, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
221 445 1.00
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (221 bp):
CCAACTCGATACCAAACTCAACCTTTCTTTCTGGGAGTAACCCTGGTAACTCCTCCAGAAAGACG
TCTATAAACTCACAAACCACTGGTACTGACTCAATCTTCGACTTTGACACTTGGGTATTCAGCAC
AAAAGCTAGATAAGCTTCATAACCTTTTCTCAAATATCTTTCGGCTACCAAAGACGATATTACCA
CAGACAAGTTATCTGACTCATCTGGC
Found at i:33773856 original size:46 final size:46
Alignment explanation
Indices: 33773803--33773978 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
33773793 TATTTGGGCA
33773803 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *** * *
33773849 TCCGAACTCTTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAG-GCAT-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
** *
33773897 T-CGAGGTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
33773942 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33773979 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 64 0.62
47 27 0.26
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:33780835 original size:47 final size:46
Alignment explanation
Indices: 33780723--33780932 Score: 164
Period size: 47 Copynumber: 4.6 Consensus size: 46
33780713 TGCGTACTGG
* * *
33780723 TGCATGTCCGAGACATGTCTTACACTAGCA-CAACTCTT-A-GCTGA
1 TGCATGTCCCAGACATGTCTTACACTAGCATCATCT-TTGAGGCCGA
* * **
33780767 TGCGTGTCCCAGCCAAATCTTACACTAGCTATC-TCTGTTGAGGCCGA
1 TGCATGTCCCAGACATGTCTTACACTAGC-ATCATCT-TTGAGGCCGA
* * * *
33780814 TGCATGTCCCAGACATGTCTTACTCTGGCACTCATCTTTG-TGCTGA
1 TGCATGTCCCAGACATGTCTTACACTAGCA-TCATCTTTGAGGCCGA
* * * *
33780860 TGCATGTTCCAGACATGTCCTTACACTAGC-TC-TCATAATGTGGCCAA
1 TGCATGTCCCAGACATGT-CTTACACTAGCATCATC-T-TTGAGGCCGA
*
33780907 AGCATGTCCCAGACATGTCTTACACT
1 TGCATGTCCCAGACATGTCTTACACT
33780933 GGCACACGAA
Statistics
Matches: 131, Mismatches: 25, Indels: 18
0.75 0.14 0.10
Matches are distributed among these distances:
44 26 0.20
45 8 0.06
46 34 0.26
47 60 0.46
48 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (46 bp):
TGCATGTCCCAGACATGTCTTACACTAGCATCATCTTTGAGGCCGA
Found at i:33781325 original size:30 final size:30
Alignment explanation
Indices: 33781280--33781340 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
33781270 ATTCACAACT
* * *
33781280 TTGGTAAAATGACCATTTTGCCCCTAGGCC
1 TTGGCAAAATAACCATTTTACCCCTAGGCC
*
33781310 TTGGCAAAATAACCATTTTACCCCTATGCC
1 TTGGCAAAATAACCATTTTACCCCTAGGCC
33781340 T
1 T
33781341 GAAAATCGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (30 bp):
TTGGCAAAATAACCATTTTACCCCTAGGCC
Found at i:33781673 original size:12 final size:12
Alignment explanation
Indices: 33781656--33781680 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33781646 TAAAAATGTA
33781656 AAAATCATCAAG
1 AAAATCATCAAG
33781668 AAAATCATCAAG
1 AAAATCATCAAG
33781680 A
1 A
33781681 TCACTTACAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:33781802 original size:36 final size:36
Alignment explanation
Indices: 33781762--33781831 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
33781752 TCAGTGGAGA
*
33781762 AAGAAGATGAGGAAGAAGGAAATGATAGCTAGGCAT
1 AAGAAGATGAAGAAGAAGGAAATGATAGCTAGGCAT
*
33781798 AAGAAGATGAAGAAGAATGAAATGATAGCTAGGC
1 AAGAAGATGAAGAAGAAGGAAATGATAGCTAGGC
33781832 TTTTAGGCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.49, C:0.06, G:0.31, T:0.14
Consensus pattern (36 bp):
AAGAAGATGAAGAAGAAGGAAATGATAGCTAGGCAT
Found at i:33782138 original size:12 final size:12
Alignment explanation
Indices: 33782117--33782148 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
33782107 CATAAAAATA
*
33782117 AATAATAATAAT
1 AATAACAATAAT
33782129 AATAACAATAAT
1 AATAACAATAAT
33782141 AATAACAA
1 AATAACAA
33782149 AGAATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (12 bp):
AATAACAATAAT
Found at i:33785048 original size:8 final size:8
Alignment explanation
Indices: 33785031--33785068 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
33785021 AGTGAAGCAC
33785031 AGAA-AAG
1 AGAAGAAG
33785038 AGAAGAAG
1 AGAAGAAG
*
33785046 AGAAGATG
1 AGAAGAAG
*
33785054 AAAAGAAG
1 AGAAGAAG
33785062 AGAAGAA
1 AGAAGAA
33785069 CGGTATCTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
7 4 0.15
8 22 0.85
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.03
Consensus pattern (8 bp):
AGAAGAAG
Found at i:33786485 original size:43 final size:43
Alignment explanation
Indices: 33786438--33786563 Score: 155
Period size: 43 Copynumber: 2.9 Consensus size: 43
33786428 TATAACATAT
* * * *
33786438 CGATGCTAATTTCCCAAACATGGTCTTACACGAAATCATATA-A
1 CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCACA-ACA
*
33786481 CGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAACA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAACA
* * * *
33786524 CAATGCCAACGTCCCAGACATGGTCTTACATGTAATCACA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCACA
33786564 TCTCGGTAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 1 0.01
43 73 0.99
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAACA
Found at i:33792715 original size:57 final size:58
Alignment explanation
Indices: 33792652--33792762 Score: 170
Period size: 58 Copynumber: 1.9 Consensus size: 58
33792642 GAATTCACAT
* *
33792652 ACCTGTATCTGGCCCGTTAAGCCC-AATCACATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
* * *
33792709 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCA
33792763 GTCACATTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 21 0.44
58 27 0.56
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:33792718 original size:29 final size:29
Alignment explanation
Indices: 33792655--33792762 Score: 139
Period size: 29 Copynumber: 3.8 Consensus size: 29
33792645 TTCACATACC
* * *
33792655 TGTATCTGGCCCGTTAAGCCC-AATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
33792683 T-TCATATGGCCCATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
33792712 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
33792741 TTTATATGGCCCGTTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
33792763 GTCACATTCA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
27 1 0.01
28 16 0.23
29 52 0.74
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:33793009 original size:16 final size:16
Alignment explanation
Indices: 33792985--33793020 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
33792975 GTAGCCAAAC
* *
33792985 TTTCGGCTTTTTGGCA
1 TTTCAGCTTTTTAGCA
33793001 TTTCAGCTTTTTAGCA
1 TTTCAGCTTTTTAGCA
33793017 TTTC
1 TTTC
33793021 GGCATTTCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.11, C:0.19, G:0.17, T:0.53
Consensus pattern (16 bp):
TTTCAGCTTTTTAGCA
Found at i:33794608 original size:21 final size:22
Alignment explanation
Indices: 33794582--33794632 Score: 77
Period size: 21 Copynumber: 2.3 Consensus size: 22
33794572 CAAAGTGGCA
*
33794582 CCCCTGGATTAATAGCAGGG-G
1 CCCCTGGATTAATAACAGGGTG
33794603 CCCCTGGATTAATAACAGGGTG
1 CCCCTGGATTAATAACAGGGTG
33794625 CCCTCTGG
1 CCC-CTGG
33794633 CCCATTAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 19 0.70
22 4 0.15
23 4 0.15
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.22
Consensus pattern (22 bp):
CCCCTGGATTAATAACAGGGTG
Found at i:33797171 original size:28 final size:29
Alignment explanation
Indices: 33797129--33797243 Score: 139
Period size: 29 Copynumber: 4.0 Consensus size: 29
33797119 TACCTGTATC
*
33797129 TGGCCCATTAAGCCC-AATCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
33797157 TGGCCCATTAGGCCCAAATCATC-TGT-ATA
1 TGGCCCATTAGGCCCAAATCA-CAT-TCATA
* *
33797186 TGGCCTATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
33797215 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
33797243 T
1 T
33797244 TCATGCTCAC
Statistics
Matches: 76, Mismatches: 6, Indels: 10
0.83 0.07 0.11
Matches are distributed among these distances:
28 28 0.37
29 46 0.61
30 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:33797219 original size:58 final size:57
Alignment explanation
Indices: 33797122--33797230 Score: 164
Period size: 58 Copynumber: 1.9 Consensus size: 57
33797112 ATTCACATAC
*
33797122 CTGTATCTGGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATCAT
1 CTGTATATGGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATCAT
* * * *
33797179 CTGTATATGGCCTATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 CTGTATATGGCCCATTAAGCCC-AATCACATTCATATGGCCCATTAGGCCCA
33797231 GTCACATTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 19 0.41
58 27 0.59
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.28
Consensus pattern (57 bp):
CTGTATATGGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATCAT
Found at i:33799128 original size:27 final size:27
Alignment explanation
Indices: 33799111--33799207 Score: 131
Period size: 27 Copynumber: 3.5 Consensus size: 27
33799101 ATATTAAGTC
*
33799111 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
33799138 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
* * * *
33799165 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAACT
33799194 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33799208 CAATCTCATG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 45 0.71
29 18 0.29
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:33812356 original size:21 final size:21
Alignment explanation
Indices: 33812324--33812364 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
33812314 GAACATTTGG
33812324 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AATAGGCCT
33812345 TGTAT-GGCCTAAAATAGGCC
1 TGTATAGG-CTAAAATAGGCC
33812365 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (21 bp):
TGTATAGGCTAAAATAGGCCT
Found at i:33819265 original size:16 final size:15
Alignment explanation
Indices: 33819214--33819269 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
33819204 ACAAAGTAAA
*
33819214 AGAA-AAAGAAAAAG
1 AGAAGAAAGAAACAG
33819228 A-ATAGAAAGAAACAG
1 AGA-AGAAAGAAACAG
33819243 AGAAGAAATGAAACAG
1 AGAAGAAA-GAAACAG
* *
33819259 GGGAGAAAGAA
1 AGAAGAAAGAA
33819270 GGAGAAAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
13 1 0.03
14 2 0.06
15 18 0.51
16 14 0.40
ACGTcount: A:0.66, C:0.04, G:0.27, T:0.04
Consensus pattern (15 bp):
AGAAGAAAGAAACAG
Found at i:33820549 original size:18 final size:18
Alignment explanation
Indices: 33820492--33820565 Score: 69
Period size: 18 Copynumber: 4.1 Consensus size: 18
33820482 GACTATCTAC
*
33820492 TACTGAATAATTGACTAT
1 TACTGAATAAATGACTAT
* *
33820510 TACAGAATAAACGACTGA-
1 TACTGAATAAATGACT-AT
*
33820528 TACTGAATAAATGAATAT
1 TACTGAATAAATGACTAT
* * *
33820546 TACTGATTAACTGATTAT
1 TACTGAATAAATGACTAT
33820564 TA
1 TA
33820566 TTGTTGACTG
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
17 1 0.02
18 43 0.96
19 1 0.02
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (18 bp):
TACTGAATAAATGACTAT
Found at i:33825542 original size:27 final size:27
Alignment explanation
Indices: 33825502--33825642 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
33825492 AGGAAGCGTC
*
33825502 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
33825529 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
33825555 CCTGGTGGCTATGCCATAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
33825583 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
33825610 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
*
33825637 TTGGTG
1 CTGGTG
33825643 ACTTCGTCAC
Statistics
Matches: 99, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
26 11 0.11
27 84 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:33825581 original size:54 final size:54
Alignment explanation
Indices: 33825499--33825642 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
33825489 TGGAGGAAGC
33825499 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
33825553 GTCCTGGTGGCTATGCCATAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * *
33825607 GTTCTGGTGGCTCTGCCACAA-TATCTGTATTTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
33825643 ACTTCGTCAC
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 6 0.07
54 78 0.93
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:33829437 original size:137 final size:137
Alignment explanation
Indices: 33829274--33829709 Score: 689
Period size: 137 Copynumber: 3.2 Consensus size: 137
33829264 CGGCCAAGAT
*
33829274 AAAGTGTATATATGAGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTATGTGATAAGGCC
1 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTATGTGATAAGGCC
33829339 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGAT
66 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGAT
33829404 GAATGTG
131 GAATGTG
33829411 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTATGTGATAAGGCC
1 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTATGTGATAAGGCC
*
33829476 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGAT
33829541 GAATGTG
131 GAATGTG
33829548 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
1 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA--G----TATGTGAT
* * * * * *
33829613 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCA-
60 AAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAG
* *
33829675 ACGTGATGGATGTG
124 ATGTGATGAATGTG
*
33829689 AAAGTGTATAAATGTGATAAG
1 AAAGTGTATATATGTGATAAG
33829710 TCCCGAAGGG
Statistics
Matches: 280, Mismatches: 12, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
137 185 0.66
139 1 0.00
141 52 0.19
142 1 0.00
143 41 0.15
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (137 bp):
AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTATGTGATAAGGCC
GAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGAT
GAATGTG
Found at i:33829447 original size:47 final size:47
Alignment explanation
Indices: 33829274--33829709 Score: 599
Period size: 47 Copynumber: 9.4 Consensus size: 47
33829264 CGGCCAAGAT
* *
33829274 AAAGTGTATATATGAGATAAGGCCTAATAGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* *
33829321 AAA--G----TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
33829362 AAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTG
1 AAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
33829411 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* *
33829458 AAA--G----TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
33829499 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
33829548 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
33829595 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* * * * * * *
33829642 AAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
33829689 AAAGTGTATAAATGTGATAAG
1 AAAGTGTATATATGTGATAAG
33829710 TCCCGAAGGG
Statistics
Matches: 347, Mismatches: 26, Indels: 32
0.86 0.06 0.08
Matches are distributed among these distances:
41 73 0.21
43 2 0.01
45 2 0.01
47 189 0.54
49 81 0.23
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
Found at i:33832777 original size:21 final size:21
Alignment explanation
Indices: 33832753--33832796 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
33832743 TTATATATAT
33832753 AAAACAAAAAAAATTA-AAAGA
1 AAAACAAAAAAAA-TAGAAAGA
* *
33832774 AAAAGAAAAAGAATAGAAAGA
1 AAAACAAAAAAAATAGAAAGA
33832795 AA
1 AA
33832797 CAGAGAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.80, C:0.02, G:0.11, T:0.07
Consensus pattern (21 bp):
AAAACAAAAAAAATAGAAAGA
Found at i:33832822 original size:16 final size:15
Alignment explanation
Indices: 33832771--33832826 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
33832761 AAAAATTAAA
*
33832771 AGAA-AAAGAAAAAG
1 AGAAGAAAGAAACAG
33832785 A-ATAGAAAGAAACAG
1 AGA-AGAAAGAAACAG
33832800 AGAAGAAATGAAACAG
1 AGAAGAAA-GAAACAG
* *
33832816 TGGAGAAAGAA
1 AGAAGAAAGAA
33832827 GGAGAAAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
13 1 0.03
14 2 0.06
15 18 0.51
16 14 0.40
ACGTcount: A:0.66, C:0.04, G:0.25, T:0.05
Consensus pattern (15 bp):
AGAAGAAAGAAACAG
Found at i:33834461 original size:24 final size:24
Alignment explanation
Indices: 33834409--33834597 Score: 260
Period size: 24 Copynumber: 8.0 Consensus size: 24
33834399 GCTTTATCAT
*
33834409 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
33834434 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
33834458 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* * *
33834481 ATAACTAGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
33834505 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
33834529 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
33834552 ATAACTGGGGCACAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
33834575 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
33834598 TCACTTCCTC
Statistics
Matches: 148, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
23 63 0.43
24 73 0.49
25 12 0.08
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:33834491 original size:23 final size:23
Alignment explanation
Indices: 33834430--33834596 Score: 244
Period size: 23 Copynumber: 7.1 Consensus size: 23
33834420 CCTAGCCTCT
*
33834430 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
33834453 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
* *
33834477 TTTAATAACTAGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
33834500 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
33834524 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
33834548 TTTAATAACTGGGGCACAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
33834571 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
33834594 TTT
1 TTT
33834597 TTCACTTCCT
Statistics
Matches: 131, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
23 66 0.50
24 65 0.50
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:33834712 original size:20 final size:20
Alignment explanation
Indices: 33834647--33834713 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
33834637 TTATGATTAC
*
33834647 ATCACGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
33834667 ATCAGGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
33834687 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
33834707 ACCATGT
1 ATCATGT
33834714 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.31
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Done.