Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 372 of 438
Found at i:115875295 original size:23 final size:23
Alignment explanation
Indices: 115875267--115875311 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
115875257 ACTAGATTTT
115875267 TCTTAAATATTATCACTAAATAA
1 TCTTAAATATTATCACTAAATAA
115875290 TCTTAAATATTATCACTAAATA
1 TCTTAAATATTATCACTAAATA
115875312 TTATCACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (23 bp):
TCTTAAATATTATCACTAAATAA
Found at i:115875922 original size:7 final size:7
Alignment explanation
Indices: 115875910--115875939 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
115875900 TCATTTTATA
115875910 TATTTTT
1 TATTTTT
115875917 TATTTTT
1 TATTTTT
115875924 TATTTATT
1 TATTT-TT
115875932 TATTTTT
1 TATTTTT
115875939 T
1 T
115875940 TAAACGTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
TATTTTT
Found at i:115875935 original size:15 final size:14
Alignment explanation
Indices: 115875910--115875939 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
115875900 TCATTTTATA
115875910 TATTTTTTATTTTT
1 TATTTTTTATTTTT
115875924 TATTTATTTATTTTT
1 TATTT-TTTATTTTT
115875939 T
1 T
115875940 TAAACGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TATTTTTTATTTTT
Found at i:115876252 original size:23 final size:23
Alignment explanation
Indices: 115876209--115876253 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
115876199 ATAATTTAAA
*
115876209 TTAAAAATATTAATTTATATAAT
1 TTAAAAATATTAATTGATATAAT
*
115876232 TTAAAAATATTAATTGCTATAA
1 TTAAAAATATTAATTGATATAA
115876254 AAATTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
TTAAAAATATTAATTGATATAAT
Found at i:115879129 original size:23 final size:23
Alignment explanation
Indices: 115879099--115879142 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
115879089 ACATATCAGA
*
115879099 TAACACAAAACACAGAAGTGCTG
1 TAACACAAAACACAAAAGTGCTG
*
115879122 TAACACAAAGCACAAAAGTGC
1 TAACACAAAACACAAAAGTGC
115879143 AATATCATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.23, G:0.16, T:0.11
Consensus pattern (23 bp):
TAACACAAAACACAAAAGTGCTG
Found at i:115883861 original size:28 final size:28
Alignment explanation
Indices: 115883838--115883893 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
115883828 CCTATTTTCT
115883838 AGATCCTTCCACCCTTAAAATATTTACA
1 AGATCCTTCCACCCTTAAAATATTTACA
115883866 AGATCCTTCCACCCTTAAAATATTTACA
1 AGATCCTTCCACCCTTAAAATATTTACA
115883894 CTATTGACCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.29, G:0.04, T:0.32
Consensus pattern (28 bp):
AGATCCTTCCACCCTTAAAATATTTACA
Found at i:115886176 original size:5 final size:5
Alignment explanation
Indices: 115886137--115886162 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
115886127 ATATTATTTA
115886137 TTAAT TTAAT TTAAT TTAAT TTAAT T
1 TTAAT TTAAT TTAAT TTAAT TTAAT T
115886163 AGATAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTAAT
Found at i:115886234 original size:27 final size:27
Alignment explanation
Indices: 115886202--115886256 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
115886192 TTCTCAACAC
115886202 AATTCTAATTATATTAAAGTCATGACA
1 AATTCTAATTATATTAAAGTCATGACA
115886229 AATTCTAATTATATTAAAGTCATGACA
1 AATTCTAATTATATTAAAGTCATGACA
115886256 A
1 A
115886257 CTTTATTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.36
Consensus pattern (27 bp):
AATTCTAATTATATTAAAGTCATGACA
Found at i:115905229 original size:31 final size:31
Alignment explanation
Indices: 115905187--115905249 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
115905177 GAATTCAAGT
* *
115905187 TAATTCGCACCTATATAACTTCCTAGTATCG
1 TAATTCACACCTATATAACTTCCTAGGATCG
115905218 TAATTCACACCTATATAACTTCCTAGGATCG
1 TAATTCACACCTATATAACTTCCTAGGATCG
115905249 T
1 T
115905250 CAAGCGTAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (31 bp):
TAATTCACACCTATATAACTTCCTAGGATCG
Found at i:115906581 original size:42 final size:41
Alignment explanation
Indices: 115906476--115906624 Score: 181
Period size: 41 Copynumber: 3.6 Consensus size: 41
115906466 ATTAATTATA
* * * *
115906476 CCCTGAACTGCATATGCGTGCCCCTGTTTGTACTTCGGTAC
1 CCCTGAATTGCACATACGTGCCCCTATTTGTACTTCGGTAC
* * * * *
115906517 CCCTAAATTGCACATGCATGCCCCTATTTGTAATTCGATAC
1 CCCTGAATTGCACATACGTGCCCCTATTTGTACTTCGGTAC
*
115906558 CCTCTGAATTGCACATACGTGCCCCTATTTGTACTTTGGTAC
1 CC-CTGAATTGCACATACGTGCCCCTATTTGTACTTCGGTAC
* *
115906600 CCCTGAATAGCACATACGTACCCCT
1 CCCTGAATTGCACATACGTGCCCCT
115906625 TTTTACACTC
Statistics
Matches: 92, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
41 57 0.62
42 35 0.38
ACGTcount: A:0.21, C:0.32, G:0.16, T:0.31
Consensus pattern (41 bp):
CCCTGAATTGCACATACGTGCCCCTATTTGTACTTCGGTAC
Found at i:115912304 original size:24 final size:24
Alignment explanation
Indices: 115912277--115912327 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
115912267 TGTCACTTGT
115912277 TATGGACACCATTCCTTTAGCCTA
1 TATGGACACCATTCCTTTAGCCTA
115912301 TATGGACACCATTCCTTTAGCCTA
1 TATGGACACCATTCCTTTAGCCTA
115912325 TAT
1 TAT
115912328 TTTCTATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.35
Consensus pattern (24 bp):
TATGGACACCATTCCTTTAGCCTA
Found at i:115914061 original size:48 final size:47
Alignment explanation
Indices: 115913835--115914192 Score: 217
Period size: 46 Copynumber: 7.6 Consensus size: 47
115913825 ATGCCGACGC
* * **
115913835 CATGTCCCAAACATGGTCTTACACTGGCTTTCACATA-GCGAGACCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGC-TT-ACATATGCGAGGTCGATG
* *
115913884 CCATGTCCCAGACAGGTCTTATACTAGCTCT-CATTTAT-CG-GTGTCGATG
1 -CATGTCCCAGACATGTCTTACACTAGCT-TACA--TATGCGAG-GTCGATG
* * * *
115913933 CCATGTCCCAGACAGGTCTTACACT-GAC--ACACTA-G-AAGCT-GACG
1 -CATGTCCCAGACATGTCTTACACTAG-CTTACA-TATGCGAGGTCGATG
* * **
115913977 CCATGCCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGTCGATG
1 -CATGTCCCAGACATGTCTTACACTAGCTTACATAT-GCGAGGTCGATG
* * *
115914026 CATGTCCTAGACATGTCTTACACTAGCTCT-CATAT-CAATGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TACATATGCGAGGTCGATG
* * * *
115914072 CATGTCCCAAACATGTCTTACACTGGCTTAAATATCTCGAGGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTACATAT-GCGAGGTCGATG
* * * *
115914120 CATGTCCTAGACATGTCTTACACTGGC-T-C-TCATGCTGTGG-CTAATG
1 CATGTCCCAGACATGTCTTACACTAGCTTACAT-ATGC-GAGGTC-GATG
115914166 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
115914193 AGACAATCAC
Statistics
Matches: 248, Mismatches: 37, Indels: 50
0.74 0.11 0.15
Matches are distributed among these distances:
44 28 0.11
45 8 0.03
46 75 0.30
47 6 0.02
48 69 0.28
49 50 0.20
50 12 0.05
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTACATATGCGAGGTCGATG
Found at i:115914086 original size:46 final size:46
Alignment explanation
Indices: 115913879--115914192 Score: 203
Period size: 48 Copynumber: 6.7 Consensus size: 46
115913869 ATAGCGAGAC
* * **
115913879 CGATGCCATGTCCCAGACAGGTCTTATACTAGCTCTCATTTATCGGTGT
1 CGATG-CATGTCCCAGACATGTCTTACACTAGCTCTCA--TATCAATGT
* * * *
115913928 CGATGCCATGTCCCAGACAGGTCTTACACT-G-ACACACTA-GAA-G-
1 CGATG-CATGTCCCAGACATGTCTTACACTAGCTCTCA-TATCAATGT
* * * * * *
115913971 CTGACGCCATGCCCCAGACAGGTCTTACACTAGCT-TGTATATCGCGAGGT
1 C-GATG-CATGTCCCAGACATGTCTTACACTAGCTCT-CATAT--CAATGT
*
115914021 CGATGCATGTCCTAGACATGTCTTACACTAGCTCTCATATCAATGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCAATGT
* * * * *
115914067 CGATGCATGTCCCAAACATGTCTTACACTGGCT-TAAATATCTCGAGGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATA--TCAATGT
* * * ** *
115914115 CGATGCATGTCCTAGACATGTCTTACACTGGCTCTCAT-GCTGTGG
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCAATGT
*
115914160 CTAATGCATGTCCCAGACATGTCTTACACTAGC
1 C-GATGCATGTCCCAGACATGTCTTACACTAGC
115914193 AGACAATCAC
Statistics
Matches: 212, Mismatches: 38, Indels: 33
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.00
44 28 0.13
45 7 0.03
46 68 0.32
47 3 0.01
48 69 0.33
49 35 0.17
50 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATATCAATGT
Found at i:115914115 original size:94 final size:94
Alignment explanation
Indices: 115913978--115914192 Score: 297
Period size: 94 Copynumber: 2.3 Consensus size: 94
115913968 AAGCTGACGC
* * **
115913978 CATGCCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGTCGATGCATGTCCTAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGTCGATGCATGTCCTAGACATGTC
* * *
115914043 TTACACTAGCTCTCATATCAATGTC-GATG
66 TTACACTAGCTCTCAT-GCAATGGCTAATG
* * *
115914072 CATGTCCCAAACATGTCTTACACTGGCTTAAATATCTCGAGGTCGATGCATGTCCTAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGTCGATGCATGTCCTAGACATGTC
* **
115914137 TTACACTGGCTCTCATGCTGTGGCTAATG
66 TTACACTAGCTCTCATGCAATGGCTAATG
115914166 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
115914193 AGACAATCAC
Statistics
Matches: 105, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
93 4 0.04
94 101 0.96
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGTCGATGCATGTCCTAGACATGTC
TTACACTAGCTCTCATGCAATGGCTAATG
Found at i:115920350 original size:20 final size:21
Alignment explanation
Indices: 115920325--115920364 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
115920315 ATCTTGAAAC
115920325 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
115920345 AGGGCAACACGCCTGTGTGG
1 AGGGCAACACGCCCGTGTGG
115920365 TCATTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:115921557 original size:94 final size:93
Alignment explanation
Indices: 115921405--115921579 Score: 226
Period size: 94 Copynumber: 1.9 Consensus size: 93
115921395 TTGTATATCG
* * *
115921405 CGAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCCCTCGTCTCAATGCCAATGCATGTCCT
1 CGAGGCCGATACATGTCCCAAACATGTCTTACACTAGCCCTCATCT-AATGCCAATGCATGTCCC
115921470 AGACATGTCTTACACTGGCTTAAATACTT
65 AGACATGTCTTACACTGGCTTAAATACTT
* * * * **
115921499 CGAGGTCGATACATGTCCCAAACATGTCTTACACTGGCTCTCATGCT-GTGGCTGATGCATGTCC
1 CGAGGCCGATACATGTCCCAAACATGTCTTACACTAGCCCTCAT-CTAAT-GCCAATGCATGTCC
*
115921563 CAGATATGTCTTACACT
64 CAGACATGTCTTACACT
115921580 AGCACATATA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
93 1 0.01
94 66 0.96
95 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (93 bp):
CGAGGCCGATACATGTCCCAAACATGTCTTACACTAGCCCTCATCTAATGCCAATGCATGTCCCA
GACATGTCTTACACTGGCTTAAATACTT
Found at i:115927229 original size:46 final size:45
Alignment explanation
Indices: 115927121--115927341 Score: 213
Period size: 46 Copynumber: 4.8 Consensus size: 45
115927111 GTATATTTGT
* *
115927121 GCCGATGACATGTCCCAGACATAGTCTTACACT-GAC-ACATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTACGTCTC-AAG
*
115927167 GTCGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTCAAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-TACGTCTCAAG
* *
115927213 GCCGATGCATATCCCAGACATGTCTTACACTAG-TACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTA--CGTCTCAAG
* *
115927259 GCCAACGCCATGTCCCAGACATGGTCTTACACTAGCT-C-TCAT-AATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTACGTC-TCAA---G
115927307 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
115927342 CACACAAGTG
Statistics
Matches: 150, Mismatches: 12, Indels: 26
0.80 0.06 0.14
Matches are distributed among these distances:
44 13 0.09
45 20 0.13
46 72 0.48
47 27 0.18
48 17 0.11
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTACGTCTCAAG
Found at i:115927342 original size:46 final size:46
Alignment explanation
Indices: 115927079--115927342 Score: 187
Period size: 46 Copynumber: 5.7 Consensus size: 46
115927069 ACATCGACAC
* *
115927079 CATGTCCCAGACATGGTCTTACACAAGTTCT-AGTATATTTGTGCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTCTCA-TA-A-TTG-GCCGATG
* * * *
115927128 ACATGTCCCAGACATAGTCTTACACTGACACATCTCGT-A---GTCGATG
1 -CATGTCCCAGACATGGTCTTACACT-A-GC-TCTCATAATTGGCCGATG
115927174 CATGTCCCAGACAT-GTCTTACACTAGCTTACGTC-TCAA--GGCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGC-T-C-TCAT-AATTGGCCGATG
* * *
115927220 CATATCCCAGACAT-GTCTTACACTAGTACTCGTC-TCAA-T-GCCAACG
1 CATGTCCCAGACATGGTCTTACACTAG--CTC-TCAT-AATTGGCCGATG
115927266 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-TGGCCGATG
115927314 CATGTCCCAGACAT-GTCTTACACTAGCTC
1 CATGTCCCAGACATGGTCTTACACTAGCTC
115927343 ACACAAGTGA
Statistics
Matches: 181, Mismatches: 15, Indels: 40
0.77 0.06 0.17
Matches are distributed among these distances:
42 2 0.01
43 3 0.02
44 12 0.07
45 19 0.10
46 69 0.38
47 29 0.16
48 18 0.10
50 23 0.13
51 2 0.01
53 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTCATAATTGGCCGATG
Found at i:115940414 original size:8 final size:8
Alignment explanation
Indices: 115940398--115940430 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
115940388 CACAATATAT
*
115940398 AAATGTTA
1 AAATTTTA
115940406 AAATTTT-
1 AAATTTTA
115940413 AAATTTTA
1 AAATTTTA
115940421 AAATTTTA
1 AAATTTTA
115940429 AA
1 AA
115940431 TTGTTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (8 bp):
AAATTTTA
Found at i:115940421 original size:15 final size:15
Alignment explanation
Indices: 115940397--115940432 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
115940387 ACACAATATA
*
115940397 TAAATGTTAAAATTT
1 TAAATTTTAAAATTT
115940412 TAAATTTTAAAATTT
1 TAAATTTTAAAATTT
115940427 TAAATT
1 TAAATT
115940433 GTTATTATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
TAAATTTTAAAATTT
Found at i:115945086 original size:28 final size:29
Alignment explanation
Indices: 115945019--115945086 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 29
115945009 ATTTTTTAAA
115945019 ATTTTAAAAATTTTAAAAAATATAAAAATT
1 ATTTTAAAAATTTT-AAAAATATAAAAATT
*
115945049 ACTTTT-AAAA-TTT-AAAATCATTAAAATT
1 A-TTTTAAAAATTTTAAAAAT-ATAAAAATT
115945077 ATTTTAAAAA
1 ATTTTAAAAA
115945087 ATATATTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
27 9 0.26
28 13 0.38
29 3 0.09
30 5 0.15
31 4 0.12
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (29 bp):
ATTTTAAAAATTTTAAAAATATAAAAATT
Found at i:115950506 original size:41 final size:41
Alignment explanation
Indices: 115950461--115950570 Score: 114
Period size: 41 Copynumber: 2.7 Consensus size: 41
115950451 TGTCAAGTCT
* *
115950461 TGAGCCTAGCAGGCTTCATGCCAGTGCATTAAATTAGGCCA
1 TGAGCCTAGCAGGCTTCATGCCAGTGAATTAAATCAGGCCA
* * * * * *
115950502 TGAGCTTAGCAAGCTTCGA-GCCGGTGAATTGAATCAGGTCT
1 TGAGCCTAGCAGGCTTC-ATGCCAGTGAATTAAATCAGGCCA
* *
115950543 TGAGCCTAGAAGGCTTCATGCCGGTGAA
1 TGAGCCTAGCAGGCTTCATGCCAGTGAA
115950571 CTATATCAAG
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
40 1 0.02
41 54 0.96
42 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (41 bp):
TGAGCCTAGCAGGCTTCATGCCAGTGAATTAAATCAGGCCA
Found at i:115953079 original size:71 final size:71
Alignment explanation
Indices: 115952993--115953156 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
115952983 CGATTTGTCT
115952993 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
115953058 CTTTCA
66 CTTTCA
115953064 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
115953129 CTTTCA
66 CTTTCA
115953135 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
115953157 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:115953194 original size:71 final size:70
Alignment explanation
Indices: 115952993--115953190 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
115952983 CGATTTGTCT
* * * *
115952993 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
115953058 CTTTCA
65 CTTTCA
* * * *
115953064 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
115953129 CTTTCA
65 CTTTCA
* *
115953135 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
115953191 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:115966959 original size:15 final size:16
Alignment explanation
Indices: 115966933--115966963 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
115966923 CCCCTAGACT
115966933 TTTCCACTTTTCAAGC
1 TTTCCACTTTTCAAGC
115966949 TTTCC-CTTTTCAAGC
1 TTTCCACTTTTCAAGC
115966964 ACTAAGCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.16, C:0.32, G:0.06, T:0.45
Consensus pattern (16 bp):
TTTCCACTTTTCAAGC
Found at i:115972371 original size:48 final size:48
Alignment explanation
Indices: 115972271--115972373 Score: 125
Period size: 48 Copynumber: 2.1 Consensus size: 48
115972261 TATGTGTGCT
** *** *
115972271 AGTGTAAGACTATGTCTGGGACATGGCATCAGCGTTAATATGTGTGCT
1 AGTGTAAGACTATGTCTGGGACATGGCATCAGCCATAATATGAAAGCC
* * *
115972319 AGTGTAAGACTATGTTTGGGACATGGCATCGGCCATATTATGAAAGCC
1 AGTGTAAGACTATGTCTGGGACATGGCATCAGCCATAATATGAAAGCC
115972367 AGTGTAA
1 AGTGTAA
115972374 CAGCCCGACT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (48 bp):
AGTGTAAGACTATGTCTGGGACATGGCATCAGCCATAATATGAAAGCC
Found at i:115979756 original size:36 final size:36
Alignment explanation
Indices: 115979711--115979781 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
115979701 AAATTTCTAA
*
115979711 TTTTCAGCATTTACATCCATGACCCATTTTTCATAT
1 TTTTCAGCATATACATCCATGACCCATTTTTCATAT
115979747 TTTTCAGCATATACATCCATGACCCATTTTTCATA
1 TTTTCAGCATATACATCCATGACCCATTTTTCATA
115979782 CTTTGATAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.42
Consensus pattern (36 bp):
TTTTCAGCATATACATCCATGACCCATTTTTCATAT
Found at i:115991365 original size:30 final size:30
Alignment explanation
Indices: 115991319--115991378 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
115991309 ATTCCTGACC
115991319 TAGGGGAAAAAGTATAATTATGCAAAAGTT
1 TAGGGGAAAAAGTATAATTATGCAAAAGTT
* *
115991349 TAGGGGCAAAAA-TATAATTTTGCCAAAGTT
1 TAGGGG-AAAAAGTATAATTATGCAAAAGTT
115991379 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTATAATTATGCAAAAGTT
Found at i:115995415 original size:21 final size:22
Alignment explanation
Indices: 115995363--115995415 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
115995353 AAATAAAGTC
*
115995363 CATGTA-CAAATATCATCATCT
1 CATGTATCATATATCATCATCT
* *
115995384 CATGTTTTCATATATCAT-ATGT
1 CATG-TATCATATATCATCATCT
115995406 CATGTATCAT
1 CATGTATCAT
115995416 CATTTACTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.35
22 8 0.31
23 9 0.35
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (22 bp):
CATGTATCATATATCATCATCT
Found at i:115997723 original size:40 final size:40
Alignment explanation
Indices: 115997686--115997813 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
115997676 GCTACTCGTT
*
115997686 CAAATGCCTTCGGGACATAGCCTGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCTGGTTATAGTAACTCGCA
* *
115997726 CAAATGCCTTCGGGACTTAACCTGGATT-TAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCTGG-TTATAGTAACTCGCA
* *
115997766 C-AACGCCTTCGGG-CTTAGCCTGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCTGGTTA-TAGTAACTCGCA
115997804 CAAATGCCTT
1 CAAATGCCTT
115997814 TAGATCTTAG
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
38 21 0.28
39 18 0.24
40 35 0.46
41 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCTGGTTATAGTAACTCGCA
Found at i:115997799 original size:38 final size:39
Alignment explanation
Indices: 115997691--115997865 Score: 160
Period size: 40 Copynumber: 4.4 Consensus size: 39
115997681 TCGTTCAAAT
* *
115997691 GCCTTCGGGACATAGCCTGG-TTATAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCTGGATT-TAGTAACTCGCAC-AAC
* *
115997731 GCCTTCGGGACTTAACCTGGATTTAATAACTCGCACAAC
1 GCCTTCGGGACTTAGCCTGGATTTAGTAACTCGCACAAC
* *
115997770 GCCTTCGGG-CTTAGCCTGGAATTAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCTGGATTTAGTAACTCGCAC-AAC
** * * * *
115997809 GCCTT-TAGATCTTAGTCC-GGATTTAGTCACTTAGAACAAA
1 GCCTTCGGGA-CTTAG-CCTGGATTTAGTAAC-TCGCACAAC
115997849 GCCTTCGGGACTTAGCC
1 GCCTTCGGGACTTAGCC
115997866 CAGACATCAT
Statistics
Matches: 111, Mismatches: 17, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
38 24 0.22
39 20 0.18
40 57 0.51
41 10 0.09
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGACTTAGCCTGGATTTAGTAACTCGCACAAC
Found at i:115997831 original size:78 final size:80
Alignment explanation
Indices: 115997686--115997865 Score: 199
Period size: 78 Copynumber: 2.3 Consensus size: 80
115997676 GCTACTCGTT
* * *
115997686 CAAATGCCTTCGGGACATAGCCTGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCTGG
1 CAAA-GCCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCTGG
* *
115997751 ATTTAATAAC-TCGCA
65 ATTTAATAACTTAGAA
* * *
115997766 CAACGCCTTCGGG-CTTAGCCTGGA-ATTAGTAACTCGCACAAATGCCTT-TAGATCTTAGTCC-
1 CAAAGCCTTCGGGACTTAGCCTGGATA-TAGTAACTCGCACAAATGCCTTCGAGA-CTTA-ACCT
* *
115997827 GGATTTAGTCACTTAGAA
63 GGATTTAATAACTTAGAA
115997845 CAAAGCCTTCGGGACTTAGCC
1 CAAAGCCTTCGGGACTTAGCC
115997866 CAGACATCAT
Statistics
Matches: 84, Mismatches: 11, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
77 3 0.04
78 45 0.54
79 26 0.31
80 10 0.12
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCTGGA
TTTAATAACTTAGAA
Found at i:116005883 original size:61 final size:61
Alignment explanation
Indices: 116005818--116005961 Score: 170
Period size: 60 Copynumber: 2.4 Consensus size: 61
116005808 ATCAGTGTTA
* * * *
116005818 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGTCATAGCCC-CTTACAATATC-AGAGTAT
1 ACTGGGCCTTAGCCCATATCAACATCAATCTGGGCCATAGCCCTATTACAA-ATCGAGA-TAT
* * *
116005879 ACTGGGCC-TAGCCCATATCAGCATCAATCTGGGCCGTAGCCCTATTACAAGTCGAGATAT
1 ACTGGGCCTTAGCCCATATCAACATCAATCTGGGCCATAGCCCTATTACAAATCGAGATAT
*
116005939 ACTGGGCCTT-GCCCATATTAACA
1 ACTGGGCCTTAGCCCATATCAACA
116005962 CAGTTGGGCC
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
60 53 0.75
61 18 0.25
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (61 bp):
ACTGGGCCTTAGCCCATATCAACATCAATCTGGGCCATAGCCCTATTACAAATCGAGATAT
Found at i:116008477 original size:3 final size:3
Alignment explanation
Indices: 116008469--116008544 Score: 143
Period size: 3 Copynumber: 25.0 Consensus size: 3
116008459 AAACATACTA
116008469 AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
116008515 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
116008545 TAAAACATCC
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 69 0.96
4 3 0.04
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:116010366 original size:2 final size:2
Alignment explanation
Indices: 116010359--116010394 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
116010349 AATGTGAATC
* *
116010359 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116010395 TCAATTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:116010603 original size:56 final size:56
Alignment explanation
Indices: 116010498--116010702 Score: 276
Period size: 56 Copynumber: 3.8 Consensus size: 56
116010488 ATGTATATGA
* * *
116010498 GGCATTGATATGT-ATTCCGCTATATGTGTGC--G--AGACCACGTTTTATATGTT
1 GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTTATATGTT
* * * *
116010549 GGAATCGATATGTGACTCCGATATATGTGTGCAAGTAAGATCATGTTTTATATGTT
1 GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTTATATGTT
* * *
116010605 GGCATTGATATGTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTTATACGTT
1 GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTTATATGTT
*
116010661 GGCATCGATACGTGACTCCGATATATGTGTGCGAGTAAGACC
1 GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACC
116010703 CTATCTGGGA
Statistics
Matches: 133, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
51 11 0.08
52 16 0.12
54 1 0.01
56 105 0.79
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (56 bp):
GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTTATATGTT
Found at i:116010728 original size:112 final size:112
Alignment explanation
Indices: 116010530--116010731 Score: 269
Period size: 112 Copynumber: 1.8 Consensus size: 112
116010520 TATGTGTGCG
* * * *
116010530 AGACCACGTTTTATATGTTGGAATCGATATGTGACTCCGATATATGTGTGCAAGTAAGATCATGT
1 AGACCACGTTTTATACGTTGGAATCGATACGTGACTCCGATATATGTGTGCAAGTAAGACCATAT
* * * ** *
116010595 TTTATATGTTGGCATTGATATGTGACTCTGATATATGTGTGCGAGTA
66 CTGAGACATTGACATTGATATGTGACTCTGATATATGTGTGCGAGTA
* * *
116010642 AGACCACGTTTTATACGTTGGCATCGATACGTGACTCCGATATATGTGTGCGAGTAAGACCCTAT
1 AGACCACGTTTTATACGTTGGAATCGATACGTGACTCCGATATATGTGTGCAAGTAAGACCATAT
* *
116010707 CTGGGACATTGACATTTATATGTGA
66 CTGAGACATTGACATTGATATGTGA
116010732 TTACATGTAA
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
112 75 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.35
Consensus pattern (112 bp):
AGACCACGTTTTATACGTTGGAATCGATACGTGACTCCGATATATGTGTGCAAGTAAGACCATAT
CTGAGACATTGACATTGATATGTGACTCTGATATATGTGTGCGAGTA
Found at i:116015576 original size:34 final size:33
Alignment explanation
Indices: 116015538--116015601 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 33
116015528 TAGCAGTAAC
* *
116015538 AGTCTGGGTCTGAGCCCATTTCAGTATCAGTGGT
1 AGTCTGGGCCTGAGCCCATCTCAGTA-CAGTGGT
*
116015572 AGTCTGGGCCTTAGCCCATCTCAGTACAGT
1 AGTCTGGGCCTGAGCCCATCTCAGTACAGT
116015602 AAGCAGACAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 4 0.15
34 23 0.85
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.30
Consensus pattern (33 bp):
AGTCTGGGCCTGAGCCCATCTCAGTACAGTGGT
Found at i:116019006 original size:44 final size:44
Alignment explanation
Indices: 116018957--116019041 Score: 170
Period size: 44 Copynumber: 1.9 Consensus size: 44
116018947 ATTTCAGTTT
116018957 AGTCCTTTTTAATTAATTAACTATCAAAACGTTAAAATTTTCTA
1 AGTCCTTTTTAATTAATTAACTATCAAAACGTTAAAATTTTCTA
116019001 AGTCCTTTTTAATTAATTAACTATCAAAACGTTAAAATTTT
1 AGTCCTTTTTAATTAATTAACTATCAAAACGTTAAAATTTT
116019042 TTAACGAAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.44
Consensus pattern (44 bp):
AGTCCTTTTTAATTAATTAACTATCAAAACGTTAAAATTTTCTA
Found at i:116025283 original size:41 final size:40
Alignment explanation
Indices: 116025156--116025300 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
116025146 CTTGCACAAG
* * * *
116025156 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
116025196 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
116025236 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
116025277 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
116025301 CATTCGAGTA
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.03
40 60 0.65
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:116028354 original size:25 final size:25
Alignment explanation
Indices: 116028326--116028385 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
116028316 TGAATAACGC
*
116028326 TAAGCTCATACAAGTTAAGTATCGA
1 TAAGCTCATACAAGCTAAGTATCGA
* * *
116028351 TAAGCTCATACGAGCTGAGTATCGG
1 TAAGCTCATACAAGCTAAGTATCGA
116028376 TAAGCTCATA
1 TAAGCTCATA
116028386 AGAGCTGGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (25 bp):
TAAGCTCATACAAGCTAAGTATCGA
Found at i:116028390 original size:25 final size:25
Alignment explanation
Indices: 116028312--116028392 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
116028302 AAGCTCTTCC
* * *
116028312 GAGCTGAATAACGCTAAGCTCATACA
1 GAGCTGAGTATCGATAAGCTCATA-A
* * *
116028338 -AGTTAAGTATCGATAAGCTCATAC
1 GAGCTGAGTATCGATAAGCTCATAA
*
116028362 GAGCTGAGTATCGGTAAGCTCATAA
1 GAGCTGAGTATCGATAAGCTCATAA
116028387 GAGCTG
1 GAGCTG
116028393 GAGTCGGTAA
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (25 bp):
GAGCTGAGTATCGATAAGCTCATAA
Found at i:116030567 original size:42 final size:42
Alignment explanation
Indices: 116030482--116030567 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 42
116030472 TATATAGTCA
* * *
116030482 AAGCTATCTCGATCTCGCACACTAAGTGCAAGTATATATCCG
1 AAGCTATCTCGATCTCACACACTAAGTGCAAGTAAATAGCCG
* * *
116030524 AAGCTATCTCGATTTCACACACTGAGTGCCCA-TAAATAGCCG
1 AAGCTATCTCGATCTCACACACTAAGTG-CAAGTAAATAGCCG
116030566 AA
1 AA
116030568 TTGTTGTCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
42 35 0.95
43 2 0.05
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (42 bp):
AAGCTATCTCGATCTCACACACTAAGTGCAAGTAAATAGCCG
Found at i:116033523 original size:19 final size:18
Alignment explanation
Indices: 116033489--116033525 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
116033479 TGAGGAGGAG
116033489 AAAGAAAAAAAGAAAAGA
1 AAAGAAAAAAAGAAAAGA
*
116033507 AAAGAAAACAGAGAAAAGA
1 AAAGAAAA-AAAGAAAAGA
116033526 GATGGAAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAAAGAAAAGA
Found at i:116035009 original size:39 final size:40
Alignment explanation
Indices: 116034922--116035104 Score: 198
Period size: 39 Copynumber: 4.7 Consensus size: 40
116034912 GCTACTCGTT
* *
116034922 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGACCGGATT-TAGTAACTCGCA
*
116034962 CAAATGCCTTCGGGACTTA-ACCGGATTTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGACCGGATTTAGTAACTCGCA
* * *
116035001 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGACCGGATTTAGTAACTCGCA
* * * *
116035040 CAAATGCCTTC-GGATCTTAGTCCGGATAT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGACCGGATTTAGTAAC-TCGCA
*
116035080 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGACCGGA
116035105 CATCATTCGA
Statistics
Matches: 123, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
38 6 0.05
39 75 0.61
40 42 0.34
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGACCGGATTTAGTAACTCGCA
Found at i:116035088 original size:78 final size:80
Alignment explanation
Indices: 116034922--116035104 Score: 225
Period size: 78 Copynumber: 2.3 Consensus size: 80
116034912 GCTACTCGTT
* *
116034922 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCGG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCGG
* * *
116034986 ATTTAGTGACTCGCAC
65 ATATAGTCACTAGCAC
* *
116035002 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTA-ACCG
116035064 GATAT-GTCACTTAGCA-
64 GATATAGTCAC-TAGCAC
116035080 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
116035105 CATCATTCGA
Statistics
Matches: 90, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
77 3 0.03
78 52 0.58
79 32 0.36
80 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCGGA
TATAGTCACTAGCAC
Found at i:116043093 original size:79 final size:80
Alignment explanation
Indices: 116042984--116043165 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 80
116042974 TACTCGTTCA
* *
116042984 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* * *
116043047 ATTTAGTGAC-TCGCACC
65 ATATA-TCACTTAGCA-C
**
116043064 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
116043127 TATATCACTTAGCAC
66 TATATCACTTAGCAC
*
116043142 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
116043166 CATCATTCGA
Statistics
Matches: 90, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
78 18 0.20
79 59 0.66
80 13 0.14
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATATCACTTAGCAC
Found at i:116043098 original size:39 final size:41
Alignment explanation
Indices: 116042982--116043165 Score: 213
Period size: 40 Copynumber: 4.6 Consensus size: 41
116042972 GCTACTCGTT
* *
116042982 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* * *
116043022 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
*
116043062 CCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* * *
116043101 CAAATGCCTTC-GGATCTTAGTCCGG-ATATA-TCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATATAGTAAC-TCGCA
116043141 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
116043166 CATCATTCGA
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.02
39 50 0.40
40 72 0.58
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
Found at i:116046386 original size:29 final size:29
Alignment explanation
Indices: 116046354--116046412 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 29
116046344 CAATTGAACC
*
116046354 AAAAATTTAAATTACAAA-AAAAAAATTT
1 AAAAATTTAAAATACAAATAAAAAAATTT
* *
116046382 AAAAATTTAAAATATAAATAAAAAGATTT
1 AAAAATTTAAAATACAAATAAAAAAATTT
116046411 AA
1 AA
116046413 TTGTAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (29 bp):
AAAAATTTAAAATACAAATAAAAAAATTT
Found at i:116049606 original size:2 final size:2
Alignment explanation
Indices: 116049599--116049627 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
116049589 TGCTAGAAAT
116049599 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
116049628 GGGAGTGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:116050578 original size:18 final size:18
Alignment explanation
Indices: 116050533--116050584 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
116050523 TTATTTGGGG
* *
116050533 TTTGAATTTGATTTTAGTA
1 TTTG-ATTTTATTTTAGGA
*
116050552 TTTTATTTTATTTTAGGA
1 TTTGATTTTATTTTAGGA
*
116050570 TTTGATTTTTTTTTA
1 TTTGATTTTATTTTA
116050585 AAGTCAGTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 25 0.89
19 3 0.11
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (18 bp):
TTTGATTTTATTTTAGGA
Found at i:116059492 original size:45 final size:45
Alignment explanation
Indices: 116059438--116059561 Score: 178
Period size: 45 Copynumber: 2.8 Consensus size: 45
116059428 CATTTCATCT
* *
116059438 GCATTATAGCCTGCTAGGCTCGAAA-GCCCGAATTGTATCTCACCG
1 GCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATCTCACCA
* *
116059483 GCATTATAGCCTGCTAGGCCCAAAGGCCCGAATAGTGTCTCACCA
1 GCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCA
* *
116059528 GTATAATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 GCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
116059562 TAATACCAGC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
44 3 0.04
45 68 0.96
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (45 bp):
GCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCA
Found at i:116059602 original size:38 final size:39
Alignment explanation
Indices: 116059554--116059724 Score: 217
Period size: 38 Copynumber: 4.5 Consensus size: 39
116059544 GGCTCAAAGG
* * *
116059554 CCCGAATATAATACCAGCACTAGGCCTGC-GGAATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGAATTTAA
* * *
116059592 CCCGGATATAATACCAGTACGAAGACTGCGGGAA-TTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGAATTTAA
*
116059630 CCCGGATATATTACCAGCACGAAGCCTGCAGG-ATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGAATTTAA
*
116059668 CCCGGATATATTACCAGCACGAAGCCTGC--GAGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGA-ATTTAA
*
116059706 CCCGGATATAATTCCAGCA
1 CCCGGATATAATACCAGCA
116059725 TATAGCATGC
Statistics
Matches: 118, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
36 1 0.01
37 1 0.01
38 112 0.95
39 4 0.03
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.20
Consensus pattern (39 bp):
CCCGGATATAATACCAGCACGAAGCCTGCAGGAATTTAA
Found at i:116060129 original size:43 final size:44
Alignment explanation
Indices: 116060021--116060155 Score: 175
Period size: 43 Copynumber: 3.1 Consensus size: 44
116060011 ACATAACATT
* *
116060021 TCATTTCACCGGTATTATAGCCTGCTAGGCTCAAAGGCTCGAATAA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAAT-A
* * *
116060067 T-ATTTCACCGGCATCATAGCCTACTAAGCTCAAAGCCCG-ATA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
* *
116060109 TCATTTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGAATA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
116060153 TCA
1 TCA
116060156 CATTTCGATA
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
42 2 0.03
43 35 0.45
44 10 0.13
45 29 0.38
46 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (44 bp):
TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
Found at i:116061419 original size:39 final size:39
Alignment explanation
Indices: 116061365--116061443 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
116061355 TAAACACTTA
** * *
116061365 AGAACTTACCTTGAACGTTGTCGAATGATTACAACGGCT
1 AGAACTTACCTTGAACACTGCCGAACGATTACAACGGCT
116061404 AGAACTTACCTTGAACACTGCCGAACGATTACAACGGCT
1 AGAACTTACCTTGAACACTGCCGAACGATTACAACGGCT
116061443 A
1 A
116061444 TTACTTTCTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (39 bp):
AGAACTTACCTTGAACACTGCCGAACGATTACAACGGCT
Found at i:116068310 original size:46 final size:47
Alignment explanation
Indices: 116068206--116068325 Score: 154
Period size: 46 Copynumber: 2.6 Consensus size: 47
116068196 TGTCTTCGAC
* *
116068206 ATGGACTTACATGAATT-ATTCCTGTCTCCAATGCCATATATATCTAAT
1 ATGGACTTACATG-GTTCATTCCTGTCTCCAAAGCCA-ATATATCTAAT
* *
116068254 ATGGGCTTACATGGTTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGTTCATTCCTGTCTCCAAAGCCAATATATCTAAT
* *
116068300 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGTTCATTCCTGTC
116068326 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
46 33 0.52
47 2 0.03
48 29 0.45
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.37
Consensus pattern (47 bp):
ATGGACTTACATGGTTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:116074361 original size:275 final size:275
Alignment explanation
Indices: 116073870--116074435 Score: 1123
Period size: 275 Copynumber: 2.1 Consensus size: 275
116073860 ACTAACTTGC
*
116073870 TAACTTGCTTAATTGAGTGTATGTGATTAGGCAAATTGCCAATTTGTTAGGAAGCATGTTATTGA
1 TAACTTGCCTAATTGAGTGTATGTGATTAGGCAAATTGCCAATTTGTTAGGAAGCATGTTATTGA
116073935 ATACTTATTTTAATGAATGTTATTGGTAAGTTTAATTCCTGCTATATGAACTTACTAAGCATTAA
66 ATACTTATTTTAATGAATGTTATTGGTAAGTTTAATTCCTGCTATATGAACTTACTAAGCATTAA
116074000 CTACTTGCTAGGTTTTCTTTTTCTCTGGTTTATAGTGCTCGAAAGCTCGCAAAGGTTGGAGATCA
131 CTACTTGCTAGGTTTTCTTTTTCTCTGGTTTATAGTGCTCGAAAGCTCGCAAAGGTTGGAGATCA
116074065 GTCGGAGCATCATCACACTATCCACCAGCTCGTTTTGGTATAAATAGTAAACTTATTTTGGTATA
196 GTCGGAGCATCATCACACTATCCACCAGCTCGTTTTGGTATAAATAGTAAACTTATTTTGGTATA
116074130 ATGGCATGTATAGAT
261 ATGGCATGTATAGAT
116074145 TAACTTGCCTAATTGAGTGTATGTGATTAGGCAAATTGCCAATTTGTTAGGAAGCATGTTATTGA
1 TAACTTGCCTAATTGAGTGTATGTGATTAGGCAAATTGCCAATTTGTTAGGAAGCATGTTATTGA
116074210 ATACTTATTTTAATGAATGTTATTGGTAAGTTTAATTCCTGCTATATGAACTTACTAAGCATTAA
66 ATACTTATTTTAATGAATGTTATTGGTAAGTTTAATTCCTGCTATATGAACTTACTAAGCATTAA
116074275 CTACTTGCTAGGTTTTCTTTTTCTCTGGTTTATAGTGCTCGAAAGCTCGCAAAGGTTGGAGATCA
131 CTACTTGCTAGGTTTTCTTTTTCTCTGGTTTATAGTGCTCGAAAGCTCGCAAAGGTTGGAGATCA
116074340 GTCGGAGCATCATCACACTATCCACCAGCTCGTTTTGGTATAAATAGTAAACTTATTTTGGTATA
196 GTCGGAGCATCATCACACTATCCACCAGCTCGTTTTGGTATAAATAGTAAACTTATTTTGGTATA
116074405 ATGGCATGTATAGAT
261 ATGGCATGTATAGAT
116074420 TAACTTGCCTAATTGA
1 TAACTTGCCTAATTGA
116074436 TGACTTGTAA
Statistics
Matches: 290, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
275 290 1.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.38
Consensus pattern (275 bp):
TAACTTGCCTAATTGAGTGTATGTGATTAGGCAAATTGCCAATTTGTTAGGAAGCATGTTATTGA
ATACTTATTTTAATGAATGTTATTGGTAAGTTTAATTCCTGCTATATGAACTTACTAAGCATTAA
CTACTTGCTAGGTTTTCTTTTTCTCTGGTTTATAGTGCTCGAAAGCTCGCAAAGGTTGGAGATCA
GTCGGAGCATCATCACACTATCCACCAGCTCGTTTTGGTATAAATAGTAAACTTATTTTGGTATA
ATGGCATGTATAGAT
Found at i:116079773 original size:48 final size:48
Alignment explanation
Indices: 116079558--116079923 Score: 208
Period size: 48 Copynumber: 7.7 Consensus size: 48
116079548 TAGGGTATAA
* * * * * *
116079558 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCCATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTAT-ACG
* * * * *
116079607 T--CGATGCTATGTCCCAAACATGGTCTTACACTGACTA--TCAAAATTG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACCTCTATA-CG
* * ** * * *
116079653 AGGCTGACACCATGTCCCAGACATGGTCTTACACT-AGCTCTCACATATCCG
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CAC-CTC-TATACG
*
116079704 TGCCGATGCCATATCCCAGACATGGTCTTACACTGACACCTCTATACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACG
* *
116079752 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGACACATC--T-CG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACG
* * * *
116079797 TAGCTGATG-CATGTCCCAGACAT-GTCTTACACT---AGCTCTCATTTCAA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCT-A-TAC-G
* * * * * * *
116079844 TACTGATGCCATATCCTAGACATGGTCTTACACTGGC-TCTC-ATAATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTAT-ACG
116079891 TGGCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
116079924 AGCACACAAA
Statistics
Matches: 245, Mismatches: 47, Indels: 53
0.71 0.14 0.15
Matches are distributed among these distances:
41 3 0.01
44 10 0.04
45 18 0.07
46 28 0.11
47 57 0.23
48 61 0.25
49 30 0.12
50 34 0.14
51 3 0.01
52 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACG
Found at i:116079863 original size:92 final size:93
Alignment explanation
Indices: 116079756--116079926 Score: 256
Period size: 94 Copynumber: 1.8 Consensus size: 93
116079746 TATACGTGCC
* *
116079756 GATGCCATGTCCTAGACATGGTCTTACACTGACACATC-T-CGTAGCTGATGCATGTCCCAGACA
1 GATGCCATATCCTAGACATGGTCTTACACTGACAC-TCATACGTAGCCGATGCATGTCCCAGACA
116079819 TGTCTTACACTAGCTCTCATTTCAATACT
65 TGTCTTACACTAGCTCTCATTTCAATACT
* * * *
116079848 GATGCCATATCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACA
1 GATGCCATATCCTAGACATGGTCTTACACTGACACTCAT-ACGTAGCCGATGCATGTCCCAGACA
116079913 TGTCTTACACTAGC
65 TGTCTTACACTAGC
116079927 ACACAAATAA
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
91 2 0.03
92 33 0.47
94 35 0.50
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (93 bp):
GATGCCATATCCTAGACATGGTCTTACACTGACACTCATACGTAGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCTCTCATTTCAATACT
Found at i:116079878 original size:140 final size:145
Alignment explanation
Indices: 116079560--116079923 Score: 392
Period size: 140 Copynumber: 2.5 Consensus size: 145
116079550 GGGTATAATG
* * * *
116079560 CCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCCATCAAGT--CGATGCTATGTCCCA
1 CCGATGCCATATCCTAGACATGGTCTTACACTGGC-CCT-CATAAAGTGCCGATGCCATGTCCCA
* *
116079623 AACATGGTCTTACACTGACTATCAAAATTGAGGCTGACACCATGTCCCAGACATGGTCTTACACT
64 GACATGGTCTTACACTGACTATCAAAATCGAGGCTGACACCATGTCCCAGACATGGTCTTACACT
** *
116079688 AGCTCTCACATATCCGTG
129 AGCTCT-ACATATCAATA
* * * *
116079706 CCGATGCCATATCCCAGACATGGTCTTACACTGACACCTC-TATACGTGCCGATGCCATGTCCTA
1 CCGATGCCATATCCTAGACATGGTCTTACACTGGC-CCTCATA-AAGTGCCGATGCCATGTCCCA
** **
116079770 GACATGGTCTTACACTGAC-A-C-ATCTCGTA-GCTGA-TGCATGTCCCAGACAT-GTCTTACAC
64 GACATGGTCTTACACTGACTATCAAAATCG-AGGCTGACACCATGTCCCAGACATGGTCTTACAC
*
116079829 TAGCTCT-CATTTCAATA
128 TAGCTCTACATATCAATA
* * *
116079846 CTGATGCCATATCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATG-CATGTCCCAG
1 CCGATGCCATATCCTAGACATGGTCTTACACTGGCCCTCATAAAGT-GCCGATGCCATGTCCCAG
116079910 ACAT-GTCTTACACT
65 ACATGGTCTTACACT
116079924 AGCACACAAA
Statistics
Matches: 187, Mismatches: 25, Indels: 20
0.81 0.11 0.09
Matches are distributed among these distances:
138 10 0.05
139 19 0.10
140 47 0.25
142 16 0.09
143 14 0.07
144 9 0.05
145 6 0.03
146 35 0.19
147 31 0.17
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (145 bp):
CCGATGCCATATCCTAGACATGGTCTTACACTGGCCCTCATAAAGTGCCGATGCCATGTCCCAGA
CATGGTCTTACACTGACTATCAAAATCGAGGCTGACACCATGTCCCAGACATGGTCTTACACTAG
CTCTACATATCAATA
Found at i:116087890 original size:21 final size:21
Alignment explanation
Indices: 116087864--116087908 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
116087854 TTGTTAGCTA
*
116087864 ATATATGCTAAATT-TTGATTT
1 ATATATGC-AAATTGTTGAATT
*
116087885 ATATATTCAAATTGTTGAATT
1 ATATATGCAAATTGTTGAATT
116087906 ATA
1 ATA
116087909 ATCTTAAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (21 bp):
ATATATGCAAATTGTTGAATT
Found at i:116090545 original size:68 final size:70
Alignment explanation
Indices: 116090473--116090670 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
116090463 ACACCCTGTA
* * * *
116090473 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
116090535 ATAAAT
65 ATAAAT
*
116090541 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
116090606 ATAAAT
65 ATAAAT
*
116090612 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
116090671 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:116090584 original size:41 final size:41
Alignment explanation
Indices: 116090539--116090656 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
116090529 TGAAAGATAA
116090539 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
116090580 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
116090610 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
116090651 ATGTAG
1 ATGTAG
116090657 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:116090596 original size:71 final size:71
Alignment explanation
Indices: 116090507--116090670 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
116090497 GAGATGTATC
116090507 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
116090572 AGGACA
66 AGGACA
116090578 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
116090643 AGGACA
66 AGGACA
116090649 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
116090671 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:116098110 original size:68 final size:70
Alignment explanation
Indices: 116098038--116098235 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
116098028 ACACCCTGTA
* * * *
116098038 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
116098100 ATAAAT
65 ATAAAT
*
116098106 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
116098171 ATAAAT
65 ATAAAT
*
116098177 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
116098236 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:116098149 original size:41 final size:41
Alignment explanation
Indices: 116098104--116098221 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
116098094 TGAAAGATAA
116098104 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
116098145 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
116098175 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
116098216 ATGTAG
1 ATGTAG
116098222 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:116098161 original size:71 final size:71
Alignment explanation
Indices: 116098072--116098235 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
116098062 GAGATGTATC
116098072 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
116098137 AGGACA
66 AGGACA
116098143 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
116098208 AGGACA
66 AGGACA
116098214 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
116098236 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:116099915 original size:65 final size:66
Alignment explanation
Indices: 116099811--116099946 Score: 247
Period size: 65 Copynumber: 2.1 Consensus size: 66
116099801 TACCTCGTAG
116099811 AGAATGAAATATTATTCCAATTAATTACACTAGAAACTTCATAACAGAATGGCATGGCAAAAAG-
1 AGAATGAAATATTATTCCAATTAATTACACTAGAAACTTCATAACAGAATGGCATGGCAAAAAGA
116099875 A
66 A
**
116099876 AGAATGAAATATTATTCCAATTAATTATGCTAGAAACTTCATAACAGAATGGCATGGCAAAAAGA
1 AGAATGAAATATTATTCCAATTAATTACACTAGAAACTTCATAACAGAATGGCATGGCAAAAAGA
116099941 A
66 A
116099942 AGAAT
1 AGAAT
116099947 CGAACTTTTT
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
65 62 0.91
66 6 0.09
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (66 bp):
AGAATGAAATATTATTCCAATTAATTACACTAGAAACTTCATAACAGAATGGCATGGCAAAAAGA
A
Found at i:116110484 original size:29 final size:28
Alignment explanation
Indices: 116110451--116110633 Score: 187
Period size: 29 Copynumber: 6.6 Consensus size: 28
116110441 GTGACGAGAT
116110451 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGG-AATATA
116110480 TGGCACTAAGTGTGCGTGCTGGAATATA
1 TGGCACTAAGTGTGCGTGCTGGAATATA
*
116110508 TGGCACTAAGTGTGCATGCT--AATATA
1 TGGCACTAAGTGTGCGTGCTGGAATATA
*
116110534 -GGCACTAAGTGTGCGAGCTGCG-A-ATA
1 TGGCACTAAGTGTGCGTGCTG-GAATATA
* * **
116110560 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAA-TATA
* * ** **
116110589 TGGCACTATGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAT-ATA
116110618 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
116110634 AAATCGAGTA
Statistics
Matches: 134, Mismatches: 12, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
25 17 0.13
26 10 0.07
27 21 0.16
28 25 0.19
29 61 0.46
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGTGCTGGAATATA
Found at i:116117882 original size:29 final size:29
Alignment explanation
Indices: 116117849--116118009 Score: 216
Period size: 29 Copynumber: 5.6 Consensus size: 29
116117839 GTGACGAGAT
116117849 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
116117878 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
116117907 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ***
116117936 TGGCACTAAGTGTGCGTGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
116117965 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
116117994 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
116118010 AAATCGAGTA
Statistics
Matches: 118, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
28 2 0.02
29 116 0.98
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:116124470 original size:12 final size:12
Alignment explanation
Indices: 116124455--116124498 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
116124445 AAATAAAAGA
*
116124455 AAAATTAAAATG
1 AAAATAAAAATG
* *
116124467 AAAATGAAAATA
1 AAAATAAAAATG
116124479 AAAATAAAAATG
1 AAAATAAAAATG
*
116124491 ATAATAAA
1 AAAATAAA
116124499 TAAATGGACT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (12 bp):
AAAATAAAAATG
Found at i:116124476 original size:18 final size:18
Alignment explanation
Indices: 116124455--116124498 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
116124445 AAATAAAAGA
* *
116124455 AAAATTAAAATGAAAATG
1 AAAATAAAAATAAAAATG
116124473 AAAATAAAAATAAAAATG
1 AAAATAAAAATAAAAATG
*
116124491 ATAATAAA
1 AAAATAAA
116124499 TAAATGGACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (18 bp):
AAAATAAAAATAAAAATG
Found at i:116134432 original size:16 final size:16
Alignment explanation
Indices: 116134411--116134443 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
116134401 GTTAAATGTG
116134411 TGGTTATGATGCTTAT
1 TGGTTATGATGCTTAT
116134427 TGGTTATGATGCTTAT
1 TGGTTATGATGCTTAT
116134443 T
1 T
116134444 ATTTGTATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.24, T:0.52
Consensus pattern (16 bp):
TGGTTATGATGCTTAT
Found at i:116139050 original size:12 final size:13
Alignment explanation
Indices: 116139014--116139051 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
116139004 AAATATTTGA
116139014 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
116139027 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
116139041 CTTG-TCTTAAT
1 CTTGTTCTTAAT
116139052 ATTTCAGGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:116152123 original size:13 final size:13
Alignment explanation
Indices: 116152105--116152129 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
116152095 GAATTATGCT
116152105 TTGAACTTGTGCC
1 TTGAACTTGTGCC
116152118 TTGAACTTGTGC
1 TTGAACTTGTGC
116152130 TTGTGTAGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.40
Consensus pattern (13 bp):
TTGAACTTGTGCC
Found at i:116156459 original size:39 final size:39
Alignment explanation
Indices: 116156383--116156462 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
116156373 GTCCAGCACG
*
116156383 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACATAAAGTCCGGATATAATTCTCGCATA
*
116156422 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACATAAAGTCCGGATATAATTCTCGCATA
116156461 TA
1 TA
116156463 TATATTCACA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (39 bp):
TAGCCTGCGGACATAAAGTCCGGATATAATTCTCGCATA
Found at i:116160443 original size:40 final size:40
Alignment explanation
Indices: 116160329--116160444 Score: 164
Period size: 40 Copynumber: 2.9 Consensus size: 40
116160319 CCACATAATT
* * * *
116160329 CCAGCACGAATGC-CTTCGAGG-TTTAGCCCAGATACATCA
1 CCAGCACGAATGCTCTTCG-GGACTTAGCCCGGATATAACA
116160368 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
*
116160408 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
116160445 TAACTCTCAA
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
39 15 0.21
40 55 0.79
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
Found at i:116163602 original size:39 final size:39
Alignment explanation
Indices: 116163526--116163605 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
116163516 GTCCAGCACG
*
116163526 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACATAAAGTCCGGATATAATTCTCGCATA
*
116163565 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACATAAAGTCCGGATATAATTCTCGCATA
116163604 TA
1 TA
116163606 TATATTCACA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (39 bp):
TAGCCTGCGGACATAAAGTCCGGATATAATTCTCGCATA
Found at i:116171299 original size:43 final size:43
Alignment explanation
Indices: 116171240--116171353 Score: 160
Period size: 43 Copynumber: 2.7 Consensus size: 43
116171230 ATATCGTACA
*
116171240 ATGCAAACATCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCACATATCG
* *
116171283 ATGCC-ACTATCCCAGACAG-GGTCCTACATGTAATGACATATCG
1 ATGCCAAC-ATCCCAGAC-GTGGTCTTACATGTAATCACATATCG
*
116171326 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACATCCCAGACGTGGTCTTACA
116171354 CACACACACA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
42 3 0.05
43 56 0.90
44 3 0.05
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACATCCCAGACGTGGTCTTACATGTAATCACATATCG
Found at i:116180994 original size:43 final size:43
Alignment explanation
Indices: 116180655--116180984 Score: 405
Period size: 43 Copynumber: 7.7 Consensus size: 43
116180645 ATATCGTACA
* *
116180655 ATGCCAACGTCTCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * * *
116180698 ATGCC-ACTTCCCTAGATAG-GGTCATACATGTAATCACATATCG
1 ATGCCAACGTCCC-AGA-CGTGGTCTTACACGTAATCACATATCG
* *
116180741 ATGCCAACGTCCC-GATGTAGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
116180783 ATGCCAGCGTCCCAGACGTGGTCTTACACATAATCACTTATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * * * * *
116180826 ATTCAAATGTCCCAAACGCGATCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
116180869 ATGCCAACGTCCCAAACATGGTCTTACACGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
116180912 ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCACATAGCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
116180955 ATGCCAACATCCTAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
116180985 CACACACATA
Statistics
Matches: 244, Mismatches: 38, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
41 1 0.00
42 40 0.16
43 196 0.80
44 7 0.03
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:116182840 original size:40 final size:40
Alignment explanation
Indices: 116182783--116182963 Score: 238
Period size: 40 Copynumber: 4.5 Consensus size: 40
116182773 GCTCGATTTT
* * * * *
116182783 CTTCGGGACATAGCCCGG-TTATAATAATTCGCGCAAATGC
1 CTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGC
*
116182823 CTTCGGGACTTAACCCGGATTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGC
*
116182863 CTTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGC
* * *
116182903 CTTCGGGAATTAACCCGGATTTAGTAACTTAGCACAAAAGC
1 CTTCGGGACTTAACCCGGATTTAGTAAC-TCGCACAAATGC
*
116182944 CTTCGGGACTTAGCCCGGAT
1 CTTCGGGACTTAACCCGGAT
116182964 ACCATTTGAA
Statistics
Matches: 127, Mismatches: 12, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
40 97 0.76
41 30 0.24
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGC
Found at i:116194967 original size:8 final size:8
Alignment explanation
Indices: 116194956--116194988 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
116194946 CTAGATTAGC
116194956 AAAAGCCG
1 AAAAGCCG
116194964 AAAAGCCG
1 AAAAGCCG
*
116194972 AAATGCCG
1 AAAAGCCG
116194980 AAAAGCCG
1 AAAAGCCG
116194988 A
1 A
116194989 CATTTCGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.48, C:0.24, G:0.24, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:116195666 original size:20 final size:21
Alignment explanation
Indices: 116195623--116195668 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
116195613 ACTGTTTTGT
116195623 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
116195643 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
116195662 TATGGGC
1 TATGGGC
116195669 AAGGCCCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:116196643 original size:14 final size:14
Alignment explanation
Indices: 116196626--116196659 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
116196616 TATAAAATTA
*
116196626 TAATTAACTAATAT
1 TAATTAAATAATAT
116196640 TAATTAAATAATAT
1 TAATTAAATAATAT
*
116196654 TTATTA
1 TAATTA
116196660 CAAACATTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
TAATTAAATAATAT
Found at i:116196857 original size:29 final size:28
Alignment explanation
Indices: 116196820--116196885 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
116196810 CAAACAGGTG
*
116196820 TTCCTTTTCAAAGATTTTCCATAAAGGCAT
1 TTCC-TTTCAAAGATTTGCCATAAAGGC-T
* *
116196850 TTCCTTTCAAAGGTTTGCCATATAGGCT
1 TTCCTTTCAAAGATTTGCCATAAAGGCT
*
116196878 TACCTTTC
1 TTCCTTTC
116196886 CTTCATTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 8 0.25
29 20 0.62
30 4 0.12
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.41
Consensus pattern (28 bp):
TTCCTTTCAAAGATTTGCCATAAAGGCT
Found at i:116197225 original size:53 final size:53
Alignment explanation
Indices: 116197145--116197253 Score: 132
Period size: 53 Copynumber: 2.1 Consensus size: 53
116197135 TCCTTAAGAT
*
116197145 TTTCCATATGATGCCTTCATCTACCAGTTACAGTCATACAAGATATGATCTTC
1 TTTCCATATGATGCATTCATCTACCAGTTACAGTCATACAAGATATGATCTTC
** * * *
116197198 TTTCCATATGATGTCATATCA-C-ACCAGTTATTGTCTTACATGATATGGTCTTC
1 TTTCCATATGATG-CAT-TCATCTACCAGTTACAGTCATACAAGATATGATCTTC
116197251 TTT
1 TTT
116197254 AGAGCCATGG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
53 42 0.88
54 3 0.06
55 3 0.06
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.40
Consensus pattern (53 bp):
TTTCCATATGATGCATTCATCTACCAGTTACAGTCATACAAGATATGATCTTC
Found at i:116199238 original size:49 final size:49
Alignment explanation
Indices: 116199165--116199352 Score: 259
Period size: 49 Copynumber: 3.8 Consensus size: 49
116199155 TAGTTGAAGC
*
116199165 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
116199214 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * *
116199265 TTTCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGGCCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * *
116199314 TATCCGGTACACGTAGTAGCTTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
116199353 CGTGACCTCA
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 78 0.64
50 2 0.02
51 41 0.34
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:116199284 original size:100 final size:101
Alignment explanation
Indices: 116199170--116199366 Score: 333
Period size: 100 Copynumber: 2.0 Consensus size: 101
116199160 GAAGCTATCT
* *
116199170 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
116199235 TGCACTTAGTACTACACACGTGA-TCACAATTTTCG
66 TGCACTTAGTACTACACACGTGACTCACAATTTTCG
* * *
116199270 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGGCCAATTATCCGGTACACGTAGTAGCT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
116199335 TGCACTTAGTACTACACACGTGACCTCACAAT
66 TGCACTTAGTACTACACACGTGA-CTCACAAT
116199367 AGTTCATTTG
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
100 83 0.92
102 7 0.08
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (101 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGACTCACAATTTTCG
Found at i:116200580 original size:30 final size:30
Alignment explanation
Indices: 116200546--116200612 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
116200536 ATGGAACAAG
116200546 CCGTGTGTCACACACAGCCAAGACACACAC
1 CCGTGTGTCACACACAGCCAAGACACACAC
* *
116200576 CCGTGTGTCACACACGGCCAAGGCACACAC
1 CCGTGTGTCACACACAGCCAAGACACACAC
116200606 CCGTGTG
1 CCGTGTG
116200613 GACAAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.27, C:0.39, G:0.22, T:0.12
Consensus pattern (30 bp):
CCGTGTGTCACACACAGCCAAGACACACAC
Found at i:116200801 original size:18 final size:17
Alignment explanation
Indices: 116200765--116200803 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
116200755 ATCAAAGGAT
116200765 ATAAACTTACTATTAAC
1 ATAAACTTACTATTAAC
116200782 ATAAACTTA-TATGCTAAC
1 ATAAACTTACTAT--TAAC
116200800 ATAA
1 ATAA
116200804 TTCCAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 3 0.15
17 9 0.45
18 8 0.40
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.33
Consensus pattern (17 bp):
ATAAACTTACTATTAAC
Found at i:116211228 original size:14 final size:14
Alignment explanation
Indices: 116211211--116211250 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
116211201 ATTTTATTTA
116211211 ATATTAATATAATT
1 ATATTAATATAATT
*
116211225 ATATTATTA-ATATT
1 ATATTAATATA-ATT
116211239 ATATTAATATAA
1 ATATTAATATAA
116211251 AATTTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 1 0.05
14 20 0.91
15 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATTAATATAATT
Found at i:116216491 original size:31 final size:29
Alignment explanation
Indices: 116216451--116216529 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 29
116216441 ATCTTAAAAC
* *
116216451 TATACATGAATTCTGGTTTAATGTGTAATTA
1 TATATATGAATTCTGATTT--TGTGTAATTA
* *
116216482 TATATATGAATTTTGATTTTGTGTAATTT
1 TATATATGAATTCTGATTTTGTGTAATTA
*
116216511 TATATATGAAATTTTGATT
1 TATATATG-AATTCTGATT
116216530 GGATCTTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 17 0.40
30 10 0.23
31 16 0.37
ACGTcount: A:0.32, C:0.03, G:0.14, T:0.52
Consensus pattern (29 bp):
TATATATGAATTCTGATTTTGTGTAATTA
Found at i:116216504 original size:29 final size:30
Alignment explanation
Indices: 116216472--116216529 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
116216462 TCTGGTTTAA
116216472 TGTGTAATTATATATATG-AATTTTGATTT
1 TGTGTAATTATATATATGAAATTTTGATTT
*
116216501 TGTGTAATTTTATATATGAAATTTTGATT
1 TGTGTAATTATATATATGAAATTTTGATT
116216530 GGATCTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 17 0.63
30 10 0.37
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (30 bp):
TGTGTAATTATATATATGAAATTTTGATTT
Found at i:116216703 original size:31 final size:29
Alignment explanation
Indices: 116216668--116216754 Score: 86
Period size: 31 Copynumber: 2.9 Consensus size: 29
116216658 TATATGATTA
116216668 AATCAAAATTAAAATTTCAAGTATACATTT
1 AATCAAAATTAAAATTT-AAGTATACATTT
* * *
116216698 GAATCACAATTAAAATTTTAAGTGTATATTT
1 -AATCAAAATTAAAA-TTTAAGTATACATTT
* *
116216729 ATAGCAAAA-TAAAATTTATGTATACA
1 A-ATCAAAATTAAAATTTAAGTATACA
116216755 ATTATACATT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
29 9 0.20
30 6 0.13
31 28 0.61
32 3 0.07
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.37
Consensus pattern (29 bp):
AATCAAAATTAAAATTTAAGTATACATTT
Found at i:116217242 original size:19 final size:19
Alignment explanation
Indices: 116217214--116217258 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
116217204 AAAACAAACT
*
116217214 ATTGCAACTATTTAATGCG
1 ATTGCCACTATTTAATGCG
116217233 ATTGCCACTATTTAATGCG
1 ATTGCCACTATTTAATGCG
116217252 ATTGCCA
1 ATTGCCA
116217259 TTATCAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.36
Consensus pattern (19 bp):
ATTGCCACTATTTAATGCG
Found at i:116224412 original size:19 final size:20
Alignment explanation
Indices: 116224388--116224439 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
116224378 AGAAAAGTGA
116224388 AAAAATTTATAAAAT-TATT
1 AAAAATTTATAAAATATATT
* * *
116224407 AAAAATTAAAAAAATATTTT
1 AAAAATTTATAAAATATATT
*
116224427 AAAAATATATAAA
1 AAAAATTTATAAA
116224440 TTACAAAAGC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATTTATAAAATATATT
Found at i:116224440 original size:28 final size:28
Alignment explanation
Indices: 116224387--116224447 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
116224377 TAGAAAAGTG
*
116224387 AAAAAATTTATAAAATTATTAAAAATTA
1 AAAAAATTTATAAAAATATTAAAAATTA
* *
116224415 AAAAAATATTTTAAAAATA-TATAAATTA
1 AAAAAAT-TTATAAAAATATTAAAAATTA
*
116224443 CAAAA
1 AAAAA
116224448 GCTAAAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (28 bp):
AAAAAATTTATAAAAATATTAAAAATTA
Found at i:116231149 original size:26 final size:26
Alignment explanation
Indices: 116231120--116231169 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
116231110 ACCAATATCA
116231120 GTATCGCAGCAAAGATGCCAGTAACG
1 GTATCGCAGCAAAGATGCCAGTAACG
* *
116231146 GTATCGCAGCAAAGCTGCTAGTAA
1 GTATCGCAGCAAAGATGCCAGTAA
116231170 TCAGTATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.18
Consensus pattern (26 bp):
GTATCGCAGCAAAGATGCCAGTAACG
Found at i:116239446 original size:72 final size:72
Alignment explanation
Indices: 116239329--116239472 Score: 234
Period size: 72 Copynumber: 2.0 Consensus size: 72
116239319 CAGTTGAAAC
* **
116239329 ACATTCATGAGCATATCGACTTAGGCTTATAAATTTCCGTTCATACTTAGTTACGGTCATACGAC
1 ACATTCATGAGCATATCGACTTAGGCTTATAAATTTCCGTTCATACTCAGTTACAATCATACGAC
*
116239394 CTTGTTT
66 CCTGTTT
* *
116239401 ACATTCATGAGCATATCGACTTAGTCTTATAAATTTCTGTTCATACTCAGTTACAATCATACGAC
1 ACATTCATGAGCATATCGACTTAGGCTTATAAATTTCCGTTCATACTCAGTTACAATCATACGAC
116239466 CCTGTTT
66 CCTGTTT
116239473 CAATTCCAGA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.38
Consensus pattern (72 bp):
ACATTCATGAGCATATCGACTTAGGCTTATAAATTTCCGTTCATACTCAGTTACAATCATACGAC
CCTGTTT
Found at i:116240338 original size:2 final size:2
Alignment explanation
Indices: 116240277--116240329 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
116240267 GTTCATATTC
116240277 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116240319 AT AT AT AT AT A
1 AT AT AT AT AT A
116240330 CAGATATATC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:116246637 original size:30 final size:30
Alignment explanation
Indices: 116246582--116246712 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
116246572 ATAGTGAATC
*
116246582 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
116246611 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
116246641 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
116246669 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
116246699 CGCACACTTAGTGC
1 CGCACACTTAGTGC
116246713 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:116246692 original size:58 final size:58
Alignment explanation
Indices: 116246581--116246712 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
116246571 TATAGTGAAT
* * * * *
116246581 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
116246640 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
116246698 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
116246713 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:116254453 original size:24 final size:23
Alignment explanation
Indices: 116254401--116254455 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
116254391 CAACCGAATT
* *
116254401 TGCACACATAGTGCTCGTCACAC
1 TGCACACATAGTGCTAGTCAAAC
116254424 TCGCACACATAGTGCCATAGT-AAAC
1 T-GCACACATAGTG-C-TAGTCAAAC
116254449 TGCACAC
1 TGCACAC
116254456 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.04
24 18 0.67
25 5 0.19
26 3 0.11
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.20
Consensus pattern (23 bp):
TGCACACATAGTGCTAGTCAAAC
Found at i:116261443 original size:18 final size:19
Alignment explanation
Indices: 116261414--116261449 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
116261404 GCATGTTTGC
*
116261414 TTAAGTTGAAATGAATGAT
1 TTAAGTTGAAATCAATGAT
116261433 TTAAG-TGAAATCAATGA
1 TTAAGTTGAAATCAATGA
116261450 CGCTATATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.33
Consensus pattern (19 bp):
TTAAGTTGAAATCAATGAT
Found at i:116266867 original size:42 final size:43
Alignment explanation
Indices: 116266765--116266918 Score: 156
Period size: 43 Copynumber: 3.6 Consensus size: 43
116266755 ATATGTGTTA
*
116266765 TCGTGTAAGACCAAGTCTGGG-CGTTGGCATCGATTTATGATT
1 TCGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTATGATT
* * *
116266807 TACGTGTAAGACCATGTCTGGGATGTTGGCATTG-TTTTTGATT
1 T-CGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTATGATT
* *
116266850 TCGTGTAAGACCCTGTCTGGGACAG-TGGCATCGATACT-TGATT
1 TCGTGTAAGACCATGTCTGGGAC-GTTGGCATCGAT-TTATGATT
* * *
116266893 ACATGTACA-ACCACGTCTGGGACGTT
1 TCGTGTA-AGACCATGTCTGGGACGTT
116266919 TTGTACGAGC
Statistics
Matches: 93, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
42 29 0.31
43 53 0.57
44 11 0.12
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.33
Consensus pattern (43 bp):
TCGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTATGATT
Found at i:116273920 original size:42 final size:42
Alignment explanation
Indices: 116273816--116273974 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 42
116273806 TATGTGTTAA
* ** *
116273816 CGTGTAAGACCAAGTCTGGGATGTTGGCATC-AACTTATGATTT
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGTA-TT-TGATTT
116273859 ACGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTT
1 -CGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTT
* * * * *
116273902 TGTGTAAGACC-CTGTCTGGGACAGTGGCATTGATATTGGATTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCG-TATTTGATTT
* *
116273945 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
116273975 TGTACGAGCT
Statistics
Matches: 98, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
41 1 0.01
42 27 0.28
43 38 0.39
44 31 0.32
45 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTT
Found at i:116275467 original size:42 final size:43
Alignment explanation
Indices: 116275415--116275530 Score: 125
Period size: 43 Copynumber: 2.8 Consensus size: 43
116275405 GTTAGGGGTG
*
116275415 TTACA-GTAAGACCAT-TCTTGGGATATGGCATCCATATAAGA
1 TTACATGTAAGACCATATCTTGGGATATGGCATCCATACAAGA
** * * *
116275456 CTT-TTTGTAAGACCATAGC-TGGGATATTGGCATCGATACGAGA
1 -TTACATGTAAGACCATATCTTGGGATA-TGGCATCCATACAAGA
116275499 TTACATGTAAGACCATAT-TTGGGATATGGCAT
1 TTACATGTAAGACCATATCTTGGGATATGGCAT
116275531 TGGTATGGTA
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
42 27 0.45
43 33 0.55
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (43 bp):
TTACATGTAAGACCATATCTTGGGATATGGCATCCATACAAGA
Found at i:116276083 original size:56 final size:56
Alignment explanation
Indices: 116276023--116276141 Score: 202
Period size: 56 Copynumber: 2.1 Consensus size: 56
116276013 ACTCAATGCA
116276023 ATGGCTTATAATCGTCAAAGGCTTGTTTTGCTATTTGGCCATGTAAGTTGGCTTAT
1 ATGGCTTATAATCGTCAAAGGCTTGTTTTGCTATTTGGCCATGTAAGTTGGCTTAT
* * *
116276079 ATGGCTTGTAATCGTCAAAGGCTTGTTTTGCTATTTGGTCATGTGAGTTGGCTTAT
1 ATGGCTTATAATCGTCAAAGGCTTGTTTTGCTATTTGGCCATGTAAGTTGGCTTAT
116276135 ATTGGCT
1 A-TGGCT
116276142 AACATGGTTG
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
56 54 0.92
57 5 0.08
ACGTcount: A:0.19, C:0.13, G:0.25, T:0.42
Consensus pattern (56 bp):
ATGGCTTATAATCGTCAAAGGCTTGTTTTGCTATTTGGCCATGTAAGTTGGCTTAT
Found at i:116276177 original size:14 final size:14
Alignment explanation
Indices: 116276158--116276187 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
116276148 GTTGTAAGCC
116276158 TAAGTATACTCATA
1 TAAGTATACTCATA
116276172 TAAGTATACTCATA
1 TAAGTATACTCATA
116276186 TA
1 TA
116276188 TGGTGATATG
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:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (14 bp):
TAAGTATACTCATA
Found at i:116276281 original size:35 final size:34
Alignment explanation
Indices: 116276218--116276285 Score: 82
Period size: 35 Copynumber: 2.0 Consensus size: 34
116276208 GCTTGGTGAA
**
116276218 TGTGAAATGTTTGGAAATGTGATTTATTGCATGAT
1 TGTGAAATGTTTGGAAATGTGACCTATTG-ATGAT
* * *
116276253 TGTGTAATTTTTGGAAATGTGGCCTATTGATGA
1 TGTGAAATGTTTGGAAATGTGACCTATTGATGA
116276286 GATGAGGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 4 0.14
35 24 0.86
ACGTcount: A:0.26, C:0.04, G:0.26, T:0.43
Consensus pattern (34 bp):
TGTGAAATGTTTGGAAATGTGACCTATTGATGAT
Found at i:116281269 original size:13 final size:13
Alignment explanation
Indices: 116281259--116281283 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
116281249 GACCGTGGTG
116281259 GCACTCCGTGGCA
1 GCACTCCGTGGCA
116281272 GCACTCCGTGGC
1 GCACTCCGTGGC
116281284 TGAGTCGTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.40, G:0.32, T:0.16
Consensus pattern (13 bp):
GCACTCCGTGGCA
Found at i:116288573 original size:15 final size:14
Alignment explanation
Indices: 116288539--116288573 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
116288529 TCATATTTGA
116288539 AATTTAATTTTTAT
1 AATTTAATTTTTAT
*
116288553 ATTTTAATTTATTAT
1 AATTTAATTT-TTAT
116288568 AATTTA
1 AATTTA
116288574 GTTCTCTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AATTTAATTTTTAT
Found at i:116288771 original size:14 final size:15
Alignment explanation
Indices: 116288747--116288775 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
116288737 TAACATAATA
116288747 AGTATATATATATGT
1 AGTATATATATATGT
116288762 AGTA-ATATATATGT
1 AGTATATATATATGT
116288776 TAGGGTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (15 bp):
AGTATATATATATGT
Found at i:116288785 original size:17 final size:17
Alignment explanation
Indices: 116288752--116288801 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
116288742 TAATAAGTAT
116288752 ATATATATG-TA--GTA
1 ATATATATGTTAGGGTA
116288766 ATATATATGTTAGGGTA
1 ATATATATGTTAGGGTA
*
116288783 ATATCTATGTTAGGGTA
1 ATATATATGTTAGGGTA
116288800 AT
1 AT
116288802 GTTCAATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
14 9 0.28
15 2 0.06
17 21 0.66
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (17 bp):
ATATATATGTTAGGGTA
Found at i:116293212 original size:40 final size:40
Alignment explanation
Indices: 116293167--116293333 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
116293157 CGGAATATAA
116293167 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
116293207 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
116293247 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
116293287 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
116293326 CCGGATAT
1 CCGGATAT
116293334 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:116301192 original size:40 final size:40
Alignment explanation
Indices: 116301147--116301314 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
116301137 CGGAATATAA
116301147 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
116301187 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
116301227 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
116301267 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
116301307 CCGGATAT
1 CCGGATAT
116301315 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:116310570 original size:40 final size:40
Alignment explanation
Indices: 116310525--116310692 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
116310515 CGGAATATAA
116310525 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
116310565 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
116310605 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
116310645 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
116310685 CCGGATAT
1 CCGGATAT
116310693 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:116319929 original size:40 final size:40
Alignment explanation
Indices: 116319884--116320051 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
116319874 CGGAATATAA
116319884 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
116319924 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
116319964 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
116320004 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
116320044 CCGGATAT
1 CCGGATAT
116320052 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:116328546 original size:18 final size:17
Alignment explanation
Indices: 116328519--116328555 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
116328509 CAGATTGTGC
116328519 AATTATTATATACATGA
1 AATTATTATATACATGA
*
116328536 AATTGATTATATATATGA
1 AATT-ATTATATACATGA
116328554 AA
1 AA
116328556 GTGTCTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (17 bp):
AATTATTATATACATGA
Found at i:116328827 original size:41 final size:41
Alignment explanation
Indices: 116328751--116328828 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 41
116328741 ATGTGTTGTG
* *
116328751 GACATACAACAACTCTTTGTGAGCATCCTATTATATGATCA
1 GACATACAACAACTCTTTATGAGCATCCTAGTATATGATCA
* * *
116328792 GACATACCACAGCTCTTTATGAGCGTCCCT-GTATATG
1 GACATACAACAACTCTTTATGAGCAT-CCTAGTATATG
116328829 GCTCTTAATG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 28 0.90
42 3 0.10
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (41 bp):
GACATACAACAACTCTTTATGAGCATCCTAGTATATGATCA
Done.