Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 180 of 362
Found at i:59405311 original size:96 final size:95
Alignment explanation
Indices: 59405093--59405364 Score: 314
Period size: 96 Copynumber: 2.8 Consensus size: 95
59405083 TATGTGAGTC
* *
59405093 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATATGTGAGCCAGCGTAAGACCATGTTT
1 AGTGTAAGACCATGTTT-GGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATGTTT
* * *
59405158 GGAACATGGCATCGGCATTGATATGAGAGCT
65 AGAACATGGCATCAGCATTCATATGAGAGCT
* *** * * *
59405189 AGTTTAAGACCATGTCCAAGATATGGCATCGGCCTTAAAATGTGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGT-TTGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATGTTT
*
59405254 AGAACATGGCATCATCATTCATATGAGAGCT
65 AGAACATGGCATCAGCATTCATATGAGAGCT
* *
59405285 AGTGTAAGACCATGTTTGGACCATGGCATCCGCAC-CGATATATGAGAGCCAGAT-TAAGACCAT
1 AGTGTAAGACCATGTTTGGA-CATGGCATCGGC-CTC-A-ATATGTGAGCCAG-TGTAAGACCAT
* *
59405348 GTCTAGGACATGGCATC
61 GTTTAGAACATGGCATC
59405365 GACATCTTGC
Statistics
Matches: 146, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
95 2 0.01
96 106 0.73
97 2 0.01
98 35 0.24
99 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (95 bp):
AGTGTAAGACCATGTTTGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATGTTTA
GAACATGGCATCAGCATTCATATGAGAGCT
Found at i:59412885 original size:48 final size:48
Alignment explanation
Indices: 59412809--59412946 Score: 170
Period size: 48 Copynumber: 2.8 Consensus size: 48
59412799 CTTCTGGGGT
*
59412809 TATGTGAGCCAGTGTAAGACCATTTTTGGGACATGGCATCAGC-CTCGA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCAC-CGA
* * * *
59412857 TATGTGAGCTAGTGTAAGGCCATGTTTGGAACATGGCATCCGCACCGA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCACCGA
* * *
59412905 TACATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC
1 T--ATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATC
59412947 GGCATCTTAC
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
48 42 0.55
49 1 0.01
50 33 0.43
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (48 bp):
TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCACCGA
Found at i:59417260 original size:50 final size:50
Alignment explanation
Indices: 59417185--59417612 Score: 388
Period size: 50 Copynumber: 8.8 Consensus size: 50
59417175 GATAAAATGT
* * *
59417185 CGATGCCATGTCCCAGACATGGTCTTAAACTGACTCTCATACATCGGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGC
* * * ** *
59417235 CGATGCCATGTCCCAGACATGGTCTTACACT-GAT-ACATATAACAATGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGC
* * * *
59417283 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATAT-T-GAG-GG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCG-GTGC
* * *
59417331 CGATGCCATGTTCC--ACATGGTCTTACACTGGCT-TGCATATACCGGTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATATATCGGTGC
* * * *
59417379 CAATGCCATGTCCCAAACATGGTCTTACACT-G---ACATGTATCGAG-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCG-GTGC
* *
59417425 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCCATATATCGGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGC
* * * *
59417475 TGATGCCATGTTCCAGACATGGTCTTACACT-G---ACACATATCGAG-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCG-GTGC
** * * * *
59417521 TAATGTCATGTCCCAGACATGATCTTACACTGGCTCCCATATACCGGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGC
* *
59417571 CGATGCCATGTCCTAGACGTGGTCTTACACTGGCTCTCATAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT
59417613 TGCCATGGTC
Statistics
Matches: 309, Mismatches: 48, Indels: 42
0.77 0.12 0.11
Matches are distributed among these distances:
46 97 0.31
47 5 0.02
48 66 0.21
49 7 0.02
50 134 0.43
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGC
Found at i:59417362 original size:46 final size:47
Alignment explanation
Indices: 59417283--59417614 Score: 225
Period size: 46 Copynumber: 6.9 Consensus size: 47
59417273 ATAACAATGA
59417283 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATTGAGGG
1 CGATGCCATGTTCC-AACATGGTCTTACACTGGCTCGCATATTGAGGG
* ***
59417331 CGATGCCATGTTCC-ACATGGTCTTACACTGGCTTGCATATACCGGTG
1 CGATGCCATGTTCCAACATGGTCTTACACTGGCTCGCATATTGAGG-G
* * * *
59417378 TCAATGCCATGTCCCAAACATGGTCTTACACTGACAT-G--TATCGA-GG
1 -CGATGCCATGTTCC-AACATGGTCTTACACTGGC-TCGCATATTGAGGG
* * *
59417424 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCCATATATCG-GTG
1 C-GATGCCATGTTCCA-ACATGGTCTTACACTGGCTCGCATAT-T-GAGGG
* * *
59417474 CTGATGCCATGTTCCAGACATGGTCTTACACT-G-ACACATATCGA-GG
1 C-GATGCCATGTTCCA-ACATGGTCTTACACTGGCTCGCATATTGAGGG
* * * * * ***
59417520 CTAATGTCATGTCCCAGACATGATCTTACACTGGCTCCCATATACCGGTG
1 C-GATGCCATGTTCCA-ACATGGTCTTACACTGGCTCGCATATTGAGG-G
* *
59417570 CCGATGCCATG-TCCTAGACGTGGTCTTACACTGGCTCTCATATTG
1 -CGATGCCATGTTCC-A-ACATGGTCTTACACTGGCTCGCATATTG
59417615 CCATGGTCCA
Statistics
Matches: 227, Mismatches: 37, Indels: 38
0.75 0.12 0.13
Matches are distributed among these distances:
45 3 0.01
46 87 0.38
47 3 0.01
48 44 0.19
49 4 0.02
50 84 0.37
51 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTTCCAACATGGTCTTACACTGGCTCGCATATTGAGGG
Found at i:59417385 original size:96 final size:96
Alignment explanation
Indices: 59417185--59417612 Score: 410
Period size: 96 Copynumber: 4.4 Consensus size: 96
59417175 GATAAAATGT
* * * * * *
59417185 CGATGCCATGTCCCAGACATGGTCTTAAACTGACTCTCATACATCG-GTGCCGATGCCATGTCCC
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCAT--ATCGAG-GCTGATGCCATGTCCC
* * * **
59417249 AGACATGGTCTTACACT-GAT-ACATATAACAATG
63 A-ACATGGTCTTACACTGGCTCCCATATACCGGTG
* *
59417282 ACGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATTGAGGGC-GATGCCATGTTCC-
1 -CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATCGA-GGCTGATGCCATGTCCCA
**
59417345 ACATGGTCTTACACTGGCTTGCATATACCGGTG
64 ACATGGTCTTACACTGGCTCCCATATACCGGTG
* * *
59417378 TCAATGCCATGTCCCAAACATGGTCTTACACTGACAT-G--TATCGAGGCTGATGCCATGTCCCA
1 -CGATGCCATGTTCCAAACATGGTCTTACACTGGC-TCGCATATCGAGGCTGATGCCATGTCCCA
*
59417440 GACATGGTCTTACACTGGCTCCCATATATCGGTG
64 -ACATGGTCTTACACTGGCTCCCATATACCGGTG
* * * * *
59417474 CTGATGCCATGTTCCAGACATGGTCTTACACT-G-ACACATATCGAGGCTAATGTCATGTCCCAG
1 C-GATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATCGAGGCTGATGCCATGTCCCA-
*
59417537 ACATGATCTTACACTGGCTCCCATATACCGGTG
64 ACATGGTCTTACACTGGCTCCCATATACCGGTG
* * *
59417570 CCGATGCCATG-TCCTAGACGTGGTCTTACACTGGCTCTCATAT
1 -CGATGCCATGTTCC-AAACATGGTCTTACACTGGCTCGCATAT
59417613 TGCCATGGTC
Statistics
Matches: 280, Mismatches: 34, Indels: 32
0.81 0.10 0.09
Matches are distributed among these distances:
93 3 0.01
94 32 0.11
95 6 0.02
96 192 0.69
97 5 0.02
98 42 0.15
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (96 bp):
CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATATCGAGGCTGATGCCATGTCCCAAC
ATGGTCTTACACTGGCTCCCATATACCGGTG
Found at i:59418996 original size:53 final size:54
Alignment explanation
Indices: 59418911--59419117 Score: 211
Period size: 53 Copynumber: 3.8 Consensus size: 54
59418901 TTTTTTTTTA
* *
59418911 AACTTACCATTGTCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
59418964 AACTCACCATTGCCATG-CGTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGTC-TTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
59419018 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTTCCTTGTAA
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
59419073 AACTTACCAATGCCATGCCTTGGCATAGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
59419118 AAACCCTAAC
Statistics
Matches: 123, Mismatches: 27, Indels: 7
0.78 0.17 0.04
Matches are distributed among these distances:
52 1 0.01
53 45 0.37
54 37 0.30
55 39 0.32
56 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:59421590 original size:14 final size:15
Alignment explanation
Indices: 59421564--59421594 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
59421554 TAATCATGCT
59421564 ATAATACATAAAATA
1 ATAATACATAAAATA
59421579 ATAATA-ATAAAATA
1 ATAATACATAAAATA
59421593 AT
1 AT
59421595 TTCTTCAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
ATAATACATAAAATA
Found at i:59426547 original size:50 final size:49
Alignment explanation
Indices: 59426472--59426901 Score: 286
Period size: 50 Copynumber: 8.9 Consensus size: 49
59426462 GTAGAATGTC
* * * *
59426472 GATGCCATGTCCCGGACATGGTCTTACAGTGGCTCTCATACATCGGTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACT-GCTCGCATATATCGGTGCT
* * * ** *
59426522 GATGCCATGTCCCAAACATGGTCTTACACTG-ACACATATATCAATACT
1 GATGCCATGTCCCAGACATGGTCTTACACTGCTCGCATATATCGGTGCT
* * *
59426570 GATGCCATGTTCCAAAACAAGGTCTTACACTGGCTCGCATAT-T-GAG-GCT
1 GATGCCATG-TCCCAGACATGGTCTTACACT-GCTCGCATATATCG-GTGCT
** * * *
59426619 GATGCCATGTTTCAAACATGGTCTTACACTAGCTCGCATATACCGGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACT-GCTCGCATATATCGGTGCT
* * * *
59426669 AATG-GATGTCCCAGACATGGTTTTACACTGACACG----TATCGAG-GCT
1 GATGCCATGTCCCAGACATGGTCTTACACTG-CTCGCATATATCG-GTGCT
* * * *
59426714 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCGCATATACCAGTACC
1 GATGCCATGTCCCAGACATGGTCTTACACT-GCTCGCATATATCGGTGCT
** *
59426764 GATGCCATGTCCCAGACATGGTCTTACA-T--T-GACACGTATCGAG-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGCTCG-CATATATCG-GTGCT
* * * * *
59426810 AAAGCCATGTCTCAAACATGGTCTTACACTGGCTCCCATATA-CTGGTG-T
1 GATGCCATGTCCCAGACATGGTCTTACACT-GCTCGCATATATC-GGTGCT
*
59426859 CGATGCCATGTCCCAGACATGGTTTTACACTAGCT--CATATATC
1 -GATGCCATGTCCCAGACATGGTCTTACACT-GCTCGCATATATC
59426902 ACTATGTTCC
Statistics
Matches: 294, Mismatches: 59, Indels: 55
0.72 0.14 0.13
Matches are distributed among these distances:
45 10 0.03
46 59 0.20
47 3 0.01
48 54 0.18
49 60 0.20
50 102 0.35
51 6 0.02
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGCTCGCATATATCGGTGCT
Found at i:59426818 original size:96 final size:96
Alignment explanation
Indices: 59426519--59426889 Score: 415
Period size: 96 Copynumber: 3.9 Consensus size: 96
59426509 ATACATCGGT
* * * * *
59426519 GCTGATGCCATGTCCCAAACATGGTCTTACACT-G-ACACATATATCAATACTGATGCCATGTTC
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCGCATATACCAGTACCGATGCCATG-TC
* * * * * *
59426582 CAAAACAAGGTCTTACACTGGCTCGCATATTGAG
65 CCAGACATGGTCTTACACTGACACG--TATCGAG
** * * * *
59426616 GCTGATGCCATGTTTCAAACATGGTCTTACACTAGCTCGCATATACCGGTGCCAATG-GATGTCC
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCGCATATACCAGTACCGATGCCATGTCC
*
59426680 CAGACATGGTTTTACACTGACACGTATCGAG
66 CAGACATGGTCTTACACTGACACGTATCGAG
*
59426711 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCGCATATACCAGTACCGATGCCATGTCC
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCGCATATACCAGTACCGATGCCATGTCC
*
59426776 CAGACATGGTCTTACATTGACACGTATCGAG
66 CAGACATGGTCTTACACTGACACGTATCGAG
** * * * * ** **
59426807 GCCAAAGCCATGTCTCAAACATGGTCTTACACTGGCTCCCATATACTGGTGTCGATGCCATGTCC
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCGCATATACCAGTACCGATGCCATGTCC
*
59426872 CAGACATGGTTTTACACT
66 CAGACATGGTCTTACACT
59426890 AGCTCATATA
Statistics
Matches: 231, Mismatches: 40, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
95 57 0.25
96 105 0.45
97 52 0.23
98 4 0.02
99 13 0.06
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (96 bp):
GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCGCATATACCAGTACCGATGCCATGTCC
CAGACATGGTCTTACACTGACACGTATCGAG
Found at i:59426872 original size:192 final size:191
Alignment explanation
Indices: 59426519--59426889 Score: 485
Period size: 192 Copynumber: 1.9 Consensus size: 191
59426509 ATACATCGGT
* *
59426519 GCTGATGCCATGTCCCAAACATGGTCTTACACTGACACATATATCAATACTGATGCCATGTTCCA
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTGACACATATACCAATACCGATGCCATGTTCCA
* * * ** * *
59426584 AAACAAGGTCTTACACTGGCTCGCATATTGAGGCTGATGCCATGTTTCAAACATGGTCTTACACT
66 AAACAAGGTCTTACACTGACACG-ATATCGAGGCCAAAGCCATGTCTCAAACATGGTCTTACACT
* *
59426649 AGCTCGCATATACCGGTGCCAATGGATGTCCCAGACATGGTTTTACACTGACACGTATCGAG
130 AGCTCCCATATACCGGTGCCAATGCATGTCCCAGACATGGTTTTACACTGACACGTATCGAG
* * * *
59426711 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCGCATATACCAGTACCGATGCCATG-TC
1 GCTGATGCCATGTCCCAAACATGGTCTTACACT-G-ACACATATACCAATACCGATGCCATGTTC
* * * *
59426775 CCAGACATGGTCTTACATTGACACG-TATCGAGGCCAAAGCCATGTCTCAAACATGGTCTTACAC
64 CAAAACAAGGTCTTACACTGACACGATATCGAGGCCAAAGCCATGTCTCAAACATGGTCTTACAC
* * * *
59426839 TGGCTCCCATATACTGGTGTCGATGCCATGTCCCAGACATGGTTTTACACT
129 TAGCTCCCATATACCGGTGCCAATG-CATGTCCCAGACATGGTTTTACACT
59426890 AGCTCATATA
Statistics
Matches: 153, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
191 54 0.35
192 56 0.37
193 22 0.14
194 21 0.14
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (191 bp):
GCTGATGCCATGTCCCAAACATGGTCTTACACTGACACATATACCAATACCGATGCCATGTTCCA
AAACAAGGTCTTACACTGACACGATATCGAGGCCAAAGCCATGTCTCAAACATGGTCTTACACTA
GCTCCCATATACCGGTGCCAATGCATGTCCCAGACATGGTTTTACACTGACACGTATCGAG
Found at i:59451187 original size:20 final size:20
Alignment explanation
Indices: 59451162--59451215 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
59451152 GTATCAACTA
**
59451162 AAAAATATTGATACTTTTAT
1 AAAAATATTGATACTCGTAT
**
59451182 AAAAATATCAATACTCGTAT
1 AAAAATATTGATACTCGTAT
*
59451202 AAAAATGTTGATAC
1 AAAAATATTGATAC
59451216 CACTGGGCTT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.35
Consensus pattern (20 bp):
AAAAATATTGATACTCGTAT
Found at i:59456556 original size:86 final size:85
Alignment explanation
Indices: 59456452--59456669 Score: 291
Period size: 83 Copynumber: 2.6 Consensus size: 85
59456442 AGCACTCAAT
* *
59456452 ATATAATATATTCAGGTTAAAGTCCCGCAGGCTTCATGCTGGTAATATATATATCCGGGTTAAAG
1 ATAT-ATATATCCGGGTTAAAGTCCCGCAGGCTTCATGCTGGTAATATATATATCCGGGTTAAA-
* *
59456517 TCCCGTAGGCTTCGTGCTAGTA
64 TCCCGCAGGCTTCGTACTAGTA
* *
59456539 ATATATATATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTAGT-A-ATATATATCCGGGTTAAATC
1 ATATATATATCCGGGTTAAAGTCCCGCAGGCTTCATGCTGGTAATATATATATCCGGGTTAAATC
*
59456602 CCGCAGGCTTCGTACTGGTA
66 CCGCAGGCTTCGTACTAGTA
* * *
59456622 ATATATATATCCGTGTTAAA-TCCGGCAGGCTT-AGTGCTGGTACTATAT
1 ATATATATATCCGGGTTAAAGTCCCGCAGGCTTCA-TGCTGGTAATATAT
59456670 CCGGGCTTAA
Statistics
Matches: 116, Mismatches: 12, Indels: 9
0.85 0.09 0.07
Matches are distributed among these distances:
82 17 0.15
83 38 0.33
84 22 0.19
85 1 0.01
86 34 0.29
87 4 0.03
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (85 bp):
ATATATATATCCGGGTTAAAGTCCCGCAGGCTTCATGCTGGTAATATATATATCCGGGTTAAATC
CCGCAGGCTTCGTACTAGTA
Found at i:59456641 original size:42 final size:43
Alignment explanation
Indices: 59456452--59456693 Score: 302
Period size: 43 Copynumber: 5.8 Consensus size: 43
59456442 AGCACTCAAT
* * *
59456452 ATATAATATATTCAGGTTAAAGTCCCGCAGGCTTCATGCTGGTA
1 ATAT-ATATATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGTA
* *
59456496 ATATATATATCCGGGTTAAAGTCCCGTAGGCTTCGTGCTAGTA
1 ATATATATATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGTA
*
59456539 ATATATATATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTAGT-
1 ATATATATATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGTA
*
59456581 A-ATATATATCCGGGTTAAA-TCCCGCAGGCTTCGTACTGGTA
1 ATATATATATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGTA
* * *
59456622 ATATATATATCCGTGTTAAA-TCCGGCAGGCTTAGTGCTGG--
1 ATATATATATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGTA
* *
59456662 -TA-CTATATCCGGGCTTAAAGTCGCGCAGGCTT
1 ATATATATATCCGGG-TTAAAGTCCCGCAGGCTT
59456694 TGAGCCAGTG
Statistics
Matches: 178, Mismatches: 16, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 9 0.05
39 7 0.04
40 29 0.16
41 19 0.11
42 35 0.20
43 75 0.42
44 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (43 bp):
ATATATATATCCGGGTTAAAGTCCCGCAGGCTTCGTGCTGGTA
Found at i:59464315 original size:40 final size:41
Alignment explanation
Indices: 59464237--59464385 Score: 173
Period size: 40 Copynumber: 3.7 Consensus size: 41
59464227 CTCAATATAT
*
59464237 AATATATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTGGTAA
1 AATATATCCGGGTTAAAGTCCCGCAGGCTTAGTGCTGGTAA
* *
59464278 AATATATCCGGGTTAAA-TCCCACAGGCTTGGTGCTGGTAA
1 AATATATCCGGGTTAAAGTCCCGCAGGCTTAGTGCTGGTAA
* * * *
59464318 TATATATTCGAGTTAAA-TCCTGCAGGCTTAGTGC-GGT--
1 AATATATCCGGGTTAAAGTCCCGCAGGCTTAGTGCTGGTAA
* *
59464355 ACTATATCCAGGCTTAAAGTCCCGCAGGCTT
1 AATATATCC-GGGTTAAAGTCCCGCAGGCTT
59464386 TGAGCCAGTG
Statistics
Matches: 92, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
37 6 0.07
38 6 0.07
39 14 0.15
40 49 0.53
41 17 0.18
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.30
Consensus pattern (41 bp):
AATATATCCGGGTTAAAGTCCCGCAGGCTTAGTGCTGGTAA
Found at i:59465470 original size:48 final size:48
Alignment explanation
Indices: 59465418--59465650 Score: 238
Period size: 48 Copynumber: 4.8 Consensus size: 48
59465408 ATGAATCCAC
*
59465418 ATATCATCGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCATAT
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCATAT
* * *
59465466 ATATCATC-CTCAATGCCAT-TGCCCAGACATGGTCTTACACTAGCACAT
1 ATATCATCGC-CGATGCCATGT-CCCAGACATGGTCTTACACTGGCATAT
* * * ** *
59465514 ATATCATCGCTGTTGCCATGTCCAAGACATAATCTTACACTGGCATAC
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCATAT
* * * * *
59465562 ATATTATTGCCGATGCCATGTCCCAGACATGGTCTTACACAGTCACAT
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCATAT
* * * *
59465610 ATCTTGGAT-GTCGATACCATGTCCCAGACATGGTCTTACAC
1 AT-AT-CATCGCCGATGCCATGTCCCAGACATGGTCTTACAC
59465651 AGAATTTCAT
Statistics
Matches: 151, Mismatches: 28, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
47 2 0.01
48 114 0.75
49 33 0.22
50 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (48 bp):
ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCATAT
Found at i:59465550 original size:96 final size:96
Alignment explanation
Indices: 59465379--59465611 Score: 269
Period size: 96 Copynumber: 2.4 Consensus size: 96
59465369 AAATAAAGTA
* * * * *
59465379 CCAATGCCATGTCCTC-GACACGGTCTTACATGAATC-CACATATCATCGCCGATGCCATGTCCT
1 CCAATGCCATGTCC-CAGACATGGTCTTACA-CAGTCACATATATCATCGCCGATGCCATGTCCA
** *
59465442 AGACATGGTCTTACACTGGCATATATATCA-TC
64 AGACATAATCTTACACTGGCATACATATCATTC
* *
59465474 CTCAATGCCAT-TGCCCAGACATGGTCTTACACTAG-CACATATATCATCGCTGTTGCCATGTCC
1 C-CAATGCCATGT-CCCAGACATGGTCTTACAC-AGTCACATATATCATCGCCGATGCCATGTCC
* *
59465537 AAGACATAATCTTACACTGGCATACATATTATTG
63 AAGACATAATCTTACACTGGCATACATATCATTC
*
59465571 CCGATGCCATGTCCCAGACATGGTCTTACACAGTCACATAT
1 CCAATGCCATGTCCCAGACATGGTCTTACACAGTCACATAT
59465612 CTTGGATGTC
Statistics
Matches: 117, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
95 6 0.05
96 108 0.92
97 3 0.03
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.28
Consensus pattern (96 bp):
CCAATGCCATGTCCCAGACATGGTCTTACACAGTCACATATATCATCGCCGATGCCATGTCCAAG
ACATAATCTTACACTGGCATACATATCATTC
Found at i:59469538 original size:47 final size:48
Alignment explanation
Indices: 59469443--59469538 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
59469433 TCATTGGCAA
59469443 AGGATACTTGTTCTTTACTGTCACCTTGTTGAGCTGTCGATAATCTAT
1 AGGATACTTGTTCTTTACTGTCACCTTGTTGAGCTGTCGATAATCTAT
59469491 AGGATACTTGTTCTTTACTGTCACC-TGTTGAGCTGTCGATAATCTAT
1 AGGATACTTGTTCTTTACTGTCACCTTGTTGAGCTGTCGATAATCTAT
59469538 A
1 A
59469539 CATAGCCTCA
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 23 0.48
48 25 0.52
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (48 bp):
AGGATACTTGTTCTTTACTGTCACCTTGTTGAGCTGTCGATAATCTAT
Found at i:59473317 original size:48 final size:48
Alignment explanation
Indices: 59473260--59473509 Score: 163
Period size: 48 Copynumber: 5.2 Consensus size: 48
59473250 CATGTCCCTG
59473260 ACATGGTCTTACA-TGAATCCACATATCATCGCCGATGCCATTATCC-AA
1 ACATGGTCTTACACTG-ATCCACATATCATCGCCGATGCCA-TATCCTAA
* * * * * *
59473308 ACATGGTCTTACACTGGTCCATATATCATCGCTGATGTCATGTCCTAG
1 ACATGGTCTTACACTGATCCACATATCATCGCCGATGCCATATCCTAA
* * * * *
59473356 ACATGGTCTTACACTG-GCACATATATCATCGCTGATGCCATGTCCCAA
1 ACATGGTCTTACACTGATC-CACATATCATCGCCGATGCCATATCCTAA
* * * * * * * *
59473404 TCATGGTCGTACACTG-GCACATATATCATCGTCGTTGCCATGTCCCT-G
1 ACATGGTCTTACACTGATC-CACATATCATCGCCGATGCCATAT-CCTAA
* * * * * *
59473452 ACATGATCTTATAGTGGCAT--ACATATTATCGCCGATGCCATGTCCTAG
1 ACATGGTCTTACACT-G-ATCCACATATCATCGCCGATGCCATATCCTAA
59473500 ACATGGTCTT
1 ACATGGTCTT
59473510 GCACAGGCAC
Statistics
Matches: 166, Mismatches: 28, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
47 8 0.05
48 153 0.92
49 5 0.03
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (48 bp):
ACATGGTCTTACACTGATCCACATATCATCGCCGATGCCATATCCTAA
Found at i:59473417 original size:96 final size:96
Alignment explanation
Indices: 59473246--59473562 Score: 306
Period size: 96 Copynumber: 3.3 Consensus size: 96
59473236 TAAAGTACCA
* * *
59473246 ATGCCATGTCCCTGACATGGTCTTACA-T-GAATCCACATATCATCGCCGATGCCAT-TATCCAA
1 ATGCCATGTCCCTGACATGATCTTACACTGGCA--CACATATCATCGCCGATGCCATGT-CCCAA
*
59473308 ACATGGTCTTACACTGGTC-CATATATCATCG-CTG
63 ACATGGTCGTACACTGG-CACATATATCATCGTC-G
* * * * *
59473342 ATGTCATGT-CCTAGACATGGTCTTACACTGGCACATATATCATCGCTGATGCCATGTCCCAATC
1 ATGCCATGTCCCT-GACATGATCTTACACTGGCACACATATCATCGCCGATGCCATGTCCCAAAC
59473406 ATGGTCGTACACTGGCACATATATCATCGTCG
65 ATGGTCGTACACTGGCACATATATCATCGTCG
* * * * * * *
59473438 TTGCCATGTCCCTGACATGATCTTATAGTGGCATACATATTATCGCCGATGCCATGTCCTAGACA
1 ATGCCATGTCCCTGACATGATCTTACACTGGCACACATATCATCGCCGATGCCATGTCCCAAACA
* * * * *
59473503 TGGTCTTGCACAGGCACATATCTCAGAT-GTTG
66 TGGTCGTACACTGGCACATATATC--ATCGTCG
* *
59473535 ATGCCATGTCCCAGACATGTTCTTACAC
1 ATGCCATGTCCCTGACATGATCTTACAC
59473563 AAAATTTCAT
Statistics
Matches: 183, Mismatches: 29, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
95 4 0.02
96 143 0.78
97 32 0.17
98 4 0.02
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (96 bp):
ATGCCATGTCCCTGACATGATCTTACACTGGCACACATATCATCGCCGATGCCATGTCCCAAACA
TGGTCGTACACTGGCACATATATCATCGTCG
Found at i:59478735 original size:49 final size:50
Alignment explanation
Indices: 59478613--59478743 Score: 160
Period size: 49 Copynumber: 2.6 Consensus size: 50
59478603 TACGAGATGT
* * *
59478613 GTCAGTGTAAGACTATGTCTGGGACATGGCATCGGCACGGATATGTGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACACCGATATGTGAGA
* * *
59478663 G-CTAGTGTAAGACCATGTCTGGGACATGGCGTCGAC-CTCGAT-TTTGATA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATCGACAC-CGATATGTGAGA
*
59478712 GTCAGTGTAAGACCATGTTTGGGACATGGCAT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCAT
59478744 TCACTTGATG
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
49 35 0.50
50 35 0.50
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (50 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACACCGATATGTGAGA
Found at i:59482578 original size:40 final size:40
Alignment explanation
Indices: 59482541--59482751 Score: 182
Period size: 40 Copynumber: 5.3 Consensus size: 40
59482531 ATATCCGGAC
* *
59482541 TAAGAGCCGAAGGCATTTGTGCGAGATAC-AAGTTCCGGGT
1 TAAGACCCGAAGGCATTTGTGCGAGATACTAA-ATCCGGGT
* * *
59482581 TAAGCCCCAAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAGACCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
59482621 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGACCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
59482661 TAAGTCCCGAAGGCATTGTGTG-G-GTTACTAAAACCGGGC
1 TAAGACCCGAAGGCATT-TGTGCGAGATACTAAATCCGGGT
* * ** *
59482700 TATGTCCCGAAGGCATTTGAACGAGA-AGCTATATCC-GGT
1 TAAGACCCGAAGGCATTTGTGCGAGATA-CTAAATCCGGGT
59482739 TAA-ATCCCGAAGG
1 TAAGA-CCCGAAGG
59482752 TATGTGATTT
Statistics
Matches: 141, Mismatches: 24, Indels: 13
0.79 0.13 0.07
Matches are distributed among these distances:
38 2 0.01
39 43 0.30
40 91 0.65
41 5 0.04
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
TAAGACCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:59482709 original size:39 final size:40
Alignment explanation
Indices: 59482494--59482716 Score: 191
Period size: 40 Copynumber: 5.6 Consensus size: 40
59482484 TTGAATGCTG
* * * * * *
59482494 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** ** * * *
59482534 TCCGGACTAAGAGCCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAA-A
* * * * *
59482574 TCCGGGTTAAGCCCCAAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
59482614 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
59482654 TCCGGGTTAAGTCCCGAAGGCATT-GTGTGGGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
59482693 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
59482717 TGAACGAGAA
Statistics
Matches: 152, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
39 34 0.22
40 109 0.72
41 9 0.06
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:59482736 original size:79 final size:80
Alignment explanation
Indices: 59482574--59482751 Score: 184
Period size: 79 Copynumber: 2.2 Consensus size: 80
59482564 AGATACAAGT
* * * * *
59482574 TCCGGGTTAAGCCCCAAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
59482639 GTGCGAGTTATTAAA
66 GAACGAGTAACTAAA
* *
59482654 TCCGGGTTAAGTCCCGAAGGCATTGTGTG-G-GTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT-TGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
59482717 TGAACGAG-AAGCTATA
65 CGAACGAGTAA-CTAAA
*
59482733 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
59482752 TATGTGATTT
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
78 16 0.20
79 40 0.49
80 22 0.27
81 4 0.05
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTAACTAAA
Found at i:59486803 original size:49 final size:49
Alignment explanation
Indices: 59486653--59486831 Score: 157
Period size: 49 Copynumber: 3.7 Consensus size: 49
59486643 GATAAGATGC
* * ** * * *
59486653 CGATGCTATGTCCCAGACATGGTCTTACACTGGCTAGC--ACATCAAAGT
1 CGATGCCATGTCCCAGACA-GGTCTTACACTGACTCTCATATATCGAGGT
* * *
59486701 CGATGCCATGTCCCAAACAGGTCTTACACTGACTTTCATATATCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGT
* * * * * *
59486750 CGATGTCGTGTCCCAGACAGGTCTTACACTGGCTCTCATCTCTTG-GTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG-GT
* *
59486799 CGATGCCATGTCCTAGATAGGTCTTACACTGAC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGAC
59486832 ACACAACAAG
Statistics
Matches: 105, Mismatches: 23, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
47 15 0.14
48 18 0.17
49 72 0.69
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGT
Found at i:59486922 original size:48 final size:48
Alignment explanation
Indices: 59486849--59487063 Score: 158
Period size: 46 Copynumber: 4.6 Consensus size: 48
59486839 AAGCTGACGC
* * * *
59486849 CATGTCCCAAACAGGTCTGACACTAGCTTGTATATCTCAGGGCCTATA
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAGGGCCTATG
* * * **
59486897 CATGTCCTAGACATGTCTTACACTAGC-TCT-TGTCTCAATG-CTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAGGGCCT-ATG
* * * * *
59486943 CATGTCCCAGACATGTCTTACTCTAGCTTGCATCTATC-GAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAG-GGCCTATG
* * *** *
59486991 CATGTCCCAGACATGTCCTACACTGGCTCCCATA-AT--GTGG-CTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAG-GGCCT-ATG
59487037 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
59487064 ACACATATCA
Statistics
Matches: 133, Mismatches: 28, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
45 3 0.02
46 65 0.49
47 5 0.04
48 59 0.44
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCAGGGCCTATG
Found at i:59495740 original size:20 final size:20
Alignment explanation
Indices: 59495717--59495757 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
59495707 TAATACTAAC
59495717 CTTTTAACAC-AAATATCATA
1 CTTTTAACACTAAATATC-TA
*
59495737 C-TTTAATACTAAATATCTA
1 CTTTTAACACTAAATATCTA
59495756 CT
1 CT
59495758 AATATAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 4
0.78 0.04 0.17
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (20 bp):
CTTTTAACACTAAATATCTA
Found at i:59496415 original size:21 final size:22
Alignment explanation
Indices: 59496377--59496424 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
59496367 TGGTATCTAT
*
59496377 TTTATTATAAATTAATGT-TAA
1 TTTATGATAAATTAATGTATAA
59496398 TTTATGATAAAATT-ATGTAGTAA
1 TTTATGAT-AAATTAATGTA-TAA
59496421 TTTA
1 TTTA
59496425 ACATGCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 11 0.48
22 5 0.22
23 7 0.30
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (22 bp):
TTTATGATAAATTAATGTATAA
Found at i:59502952 original size:51 final size:51
Alignment explanation
Indices: 59502853--59502952 Score: 119
Period size: 51 Copynumber: 2.0 Consensus size: 51
59502843 CTGTAAGGAT
* * * * * *
59502853 GGTATATGGTGTAAGATTATAAATGAAAGAGGCTATGACAATCTGGTATAA
1 GGTATACGGTATAAGACTATAAATGAAAGAGGCTATAACAACCAGGTATAA
* * *
59502904 GGTATACGGTATAAGACTATATATGAAAGATGCTATAACAGCCAGGTAT
1 GGTATACGGTATAAGACTATAAATGAAAGAGGCTATAACAACCAGGTAT
59502953 GATGGGTAAG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (51 bp):
GGTATACGGTATAAGACTATAAATGAAAGAGGCTATAACAACCAGGTATAA
Found at i:59504851 original size:33 final size:32
Alignment explanation
Indices: 59504809--59504878 Score: 131
Period size: 33 Copynumber: 2.2 Consensus size: 32
59504799 GTCTCATCCA
59504809 TCATAATAAGGTTTGGTTATTGGGAAATGTAC
1 TCATAATAAGGTTTGGTTATTGGGAAATGTAC
59504841 TCATAGATAAGGTTTGGTTATTGGGAAATGTAC
1 TCATA-ATAAGGTTTGGTTATTGGGAAATGTAC
59504874 TCATA
1 TCATA
59504879 TTGTAGTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 5 0.14
33 32 0.86
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (32 bp):
TCATAATAAGGTTTGGTTATTGGGAAATGTAC
Found at i:59506625 original size:22 final size:22
Alignment explanation
Indices: 59506580--59506641 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
59506570 CTATAGGCCT
59506580 TAAAT-CTCAAAC-CTTAAACTA
1 TAAATCCT-AAACTCTTAAACTA
59506601 TAAATCCTAAACTCTTAAA-TCA
1 TAAATCCTAAACTCTTAAACT-A
* *
59506623 TAAACCCTAAAATCTTAAA
1 TAAATCCTAAACTCTTAAA
59506642 AATAAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
21 10 0.28
22 26 0.72
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAATCCTAAACTCTTAAACTA
Found at i:59507025 original size:34 final size:36
Alignment explanation
Indices: 59506986--59507061 Score: 88
Period size: 34 Copynumber: 2.2 Consensus size: 36
59506976 TAGGGTTAGA
59506986 TTTAGGGGT-TAAGGTTTAAAATTTAAG-TT-TAAGG
1 TTTAGGGGTATAAGGTTTAAAATTT-AGTTTATAAGG
** *
59507020 TTTA-GGGTATTGGGTTTAGAATTTAGTTTATAAGG
1 TTTAGGGGTATAAGGTTTAAAATTTAGTTTATAAGG
59507055 TTTAGGG
1 TTTAGGG
59507062 ATAGGGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
33 6 0.17
34 18 0.51
35 9 0.26
36 2 0.06
ACGTcount: A:0.28, C:0.00, G:0.29, T:0.43
Consensus pattern (36 bp):
TTTAGGGGTATAAGGTTTAAAATTTAGTTTATAAGG
Found at i:59507067 original size:41 final size:42
Alignment explanation
Indices: 59507012--59507114 Score: 136
Period size: 41 Copynumber: 2.5 Consensus size: 42
59507002 TAAAATTTAA
** *
59507012 GTTTAAGGTTTAGGGTATTGGGTTTAGAATTTAGTTTATAAG
1 GTTTAAGGGATAGGGTATTGGGTTTAGAATTTAGTCTATAAG
**
59507054 GTTT-AGGGATAGGGTATTGGGTTTAGGGTTTAGTCTATAAG
1 GTTTAAGGGATAGGGTATTGGGTTTAGAATTTAGTCTATAAG
**
59507095 GTTTAAGGTTTAGGGTATTG
1 GTTTAAGGGATAGGGTATTG
59507115 TGTATTTGGT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
41 36 0.68
42 17 0.32
ACGTcount: A:0.23, C:0.01, G:0.33, T:0.43
Consensus pattern (42 bp):
GTTTAAGGGATAGGGTATTGGGTTTAGAATTTAGTCTATAAG
Found at i:59507082 original size:7 final size:7
Alignment explanation
Indices: 59507012--59507164 Score: 57
Period size: 7 Copynumber: 21.9 Consensus size: 7
59507002 TAAAATTTAA
*
59507012 GTTTAAG
1 GTTTAGG
59507019 GTTTAGG
1 GTTTAGG
59507026 GTATT-GG
1 GT-TTAGG
*
59507033 GTTTAGA
1 GTTTAGG
*
59507040 ATTTA-G
1 GTTTAGG
* *
59507046 TTTATAAG
1 GTT-TAGG
59507054 GTTTAGG
1 GTTTAGG
*
59507061 G-ATAGG
1 GTTTAGG
59507067 GTATT-GG
1 GT-TTAGG
59507074 GTTTAGG
1 GTTTAGG
*
59507081 GTTTAGT
1 GTTTAGG
* * *
59507088 CTATAAG
1 GTTTAGG
*
59507095 GTTTAAG
1 GTTTAGG
59507102 GTTTAGG
1 GTTTAGG
*
59507109 GTATT-GT
1 GT-TTAGG
*
59507116 GTATT-TG
1 GT-TTAGG
59507123 GTTTAGG
1 GTTTAGG
*
59507130 GTTTAGT
1 GTTTAGG
* *
59507137 CTATAGG
1 GTTTAGG
59507144 GTTTAGG
1 GTTTAGG
*
59507151 GTATTGGG
1 GT-TTAGG
59507159 GTTTAG
1 GTTTAG
59507165 TGTATTGGTT
Statistics
Matches: 107, Mismatches: 29, Indels: 20
0.69 0.19 0.13
Matches are distributed among these distances:
6 13 0.12
7 80 0.75
8 14 0.13
ACGTcount: A:0.21, C:0.01, G:0.34, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:59507099 original size:21 final size:21
Alignment explanation
Indices: 59507032--59507107 Score: 64
Period size: 21 Copynumber: 3.7 Consensus size: 21
59507022 TAGGGTATTG
** *
59507032 GGTTTAGAATTTAGTTTATAA
1 GGTTTAGGGTTTAGTCTATAA
* ** **
59507053 GGTTTAGGG-ATAGGGTATTG
1 GGTTTAGGGTTTAGTCTATAA
59507073 GGTTTAGGGTTTAGTCTATAA
1 GGTTTAGGGTTTAGTCTATAA
*
59507094 GGTTTAAGGTTTAG
1 GGTTTAGGGTTTAG
59507108 GGTATTGTGT
Statistics
Matches: 41, Mismatches: 13, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
20 15 0.37
21 26 0.63
ACGTcount: A:0.25, C:0.01, G:0.32, T:0.42
Consensus pattern (21 bp):
GGTTTAGGGTTTAGTCTATAA
Found at i:59507125 original size:21 final size:21
Alignment explanation
Indices: 59507101--59507156 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
59507091 TAAGGTTTAA
* **
59507101 GGTTTAGGGTATTGTGTATTT
1 GGTTTAGGGTATTGTCTATAG
59507122 GGTTTAGGGT-TTAGTCTATAG
1 GGTTTAGGGTATT-GTCTATAG
59507143 GGTTTAGGGTATTG
1 GGTTTAGGGTATTG
59507157 GGGTTTAGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 2 0.07
21 26 0.87
22 2 0.07
ACGTcount: A:0.16, C:0.02, G:0.36, T:0.46
Consensus pattern (21 bp):
GGTTTAGGGTATTGTCTATAG
Found at i:59507134 original size:49 final size:49
Alignment explanation
Indices: 59507050--59507175 Score: 159
Period size: 49 Copynumber: 2.6 Consensus size: 49
59507040 ATTTAGTTTA
* * *
59507050 TAAGGTTTAGGG-ATAGGGTATTGGGTTTAGGGTTTAGTCTATAAGGTT
1 TAAGGTTTAGGGTATTGTGTATTTGGTTTAGGGTTTAGTCTATAAGGTT
*
59507098 TAAGGTTTAGGGTATTGTGTATTTGGTTTAGGGTTTAGTCTATAGGGTT
1 TAAGGTTTAGGGTATTGTGTATTTGGTTTAGGGTTTAGTCTATAAGGTT
* *
59507147 TAGGGTATTGGGGT-TTAGTGTA-TTGGTTT
1 TAAGGT-TTAGGGTATT-GTGTATTTGGTTT
59507176 TGGGATTAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
48 12 0.17
49 46 0.67
50 11 0.16
ACGTcount: A:0.19, C:0.02, G:0.35, T:0.44
Consensus pattern (49 bp):
TAAGGTTTAGGGTATTGTGTATTTGGTTTAGGGTTTAGTCTATAAGGTT
Found at i:59507162 original size:15 final size:15
Alignment explanation
Indices: 59507142--59507172 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
59507132 TTAGTCTATA
59507142 GGGTTTAGGGTATTG
1 GGGTTTAGGGTATTG
*
59507157 GGGTTTAGTGTATTG
1 GGGTTTAGGGTATTG
59507172 G
1 G
59507173 TTTTGGGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.45, T:0.42
Consensus pattern (15 bp):
GGGTTTAGGGTATTG
Found at i:59507605 original size:84 final size:84
Alignment explanation
Indices: 59507504--59507676 Score: 267
Period size: 84 Copynumber: 2.1 Consensus size: 84
59507494 GGTAGTGGAT
* * *
59507504 TTAGTGGCGCTATCTTATAAACGCCACTAATAATATGAAAAA-TCGAGTGAAAACTACGTCATTT
1 TTAGTGGCGCTACCTTATAAACGCCACTAAGAATATGAAAAACT-GAATGAAAACTACGTCATTT
*
59507568 TATGTGGCACGGTTTAGGAA
65 TATGTGGCACGGTGTAGGAA
* * *
59507588 TTAGTGGCGCTGCCTTATAAACGCCACTAAGAATATGAGAAACTGAATGAAAACTACGTCGTTTT
1 TTAGTGGCGCTACCTTATAAACGCCACTAAGAATATGAAAAACTGAATGAAAACTACGTCATTTT
59507653 ATGTGGCACGGTGTAGGAA
66 ATGTGGCACGGTGTAGGAA
59507672 TTAGT
1 TTAGT
59507677 AGCGTTATCC
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
84 80 0.99
85 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.29
Consensus pattern (84 bp):
TTAGTGGCGCTACCTTATAAACGCCACTAAGAATATGAAAAACTGAATGAAAACTACGTCATTTT
ATGTGGCACGGTGTAGGAA
Found at i:59511099 original size:9 final size:9
Alignment explanation
Indices: 59511076--59511151 Score: 71
Period size: 9 Copynumber: 8.1 Consensus size: 9
59511066 ATTGATCATT
*
59511076 ACTTAAATA
1 ACTTACATA
*
59511085 AATTACATA
1 ACTTACATA
59511094 ACTTACATA
1 ACTTACATA
* *
59511103 ACTCATATA
1 ACTTACATA
59511112 ACTTACATA
1 ACTTACATA
*
59511121 ATTTACATAACA
1 ACTTACAT---A
59511133 ACTTACATA
1 ACTTACATA
*
59511142 ACTCACATA
1 ACTTACATA
59511151 A
1 A
59511152 TTTCCTTAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
9 46 0.85
12 8 0.15
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:59511137 original size:21 final size:21
Alignment explanation
Indices: 59511093--59511151 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
59511083 TAAATTACAT
*
59511093 AACTTACATAACT--CAT-AT
1 AACTTACATAACTCACATAAC
* *
59511111 AACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAAC
59511132 AACTTACATAACTCACATAA
1 AACTTACATAACTCACATAA
59511152 TTTCCTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 12 0.35
20 3 0.09
21 19 0.56
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (21 bp):
AACTTACATAACTCACATAAC
Found at i:59515086 original size:40 final size:40
Alignment explanation
Indices: 59515030--59515253 Score: 288
Period size: 40 Copynumber: 5.5 Consensus size: 40
59515020 TATTCGGATG
59515030 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
59515070 TTATCCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
59515113 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
59515153 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
59515193 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
59515233 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
59515254 ATACTTGGTT
Statistics
Matches: 161, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 13 0.08
40 112 0.70
41 1 0.01
43 35 0.22
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:59515173 original size:83 final size:80
Alignment explanation
Indices: 59515034--59515253 Score: 284
Period size: 83 Copynumber: 2.7 Consensus size: 80
59515024 CGGATGATAT
* * * **
59515034 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTTTATCCGGGCTAAGTCCCGAAGGTATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
59515099 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
59515117 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
59515182 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
59515197 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
59515254 ATACTTGGTT
Statistics
Matches: 125, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
79 16 0.13
80 45 0.36
81 2 0.02
83 62 0.50
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:59523051 original size:77 final size:77
Alignment explanation
Indices: 59522924--59523076 Score: 270
Period size: 77 Copynumber: 2.0 Consensus size: 77
59522914 CTATATATAT
*
59522924 GTTTAATTTTTTGTTAAGTAAGGTTTTTCCTCATTGTCTCCGGTGATATTTTTTATTGCAATGAC
1 GTTTAATTTTTTGTTAAGTAAGGTTTTTCCTCATTGTCACCGGTGATATTTTTTATTGCAATGAC
59522989 TAATAGGACAGG
66 TAATAGGACAGG
* *
59523001 GTTTAATTTTTTGTTCAGTAAGGTTTTTCCTTATTGTCACCGGTGATATTTTTTATTGCAATGAC
1 GTTTAATTTTTTGTTAAGTAAGGTTTTTCCTCATTGTCACCGGTGATATTTTTTATTGCAATGAC
*
59523066 TAATGGGACAG
66 TAATAGGACAG
59523077 TGAATTTAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.46
Consensus pattern (77 bp):
GTTTAATTTTTTGTTAAGTAAGGTTTTTCCTCATTGTCACCGGTGATATTTTTTATTGCAATGAC
TAATAGGACAGG
Found at i:59528206 original size:64 final size:64
Alignment explanation
Indices: 59528125--59528296 Score: 168
Period size: 67 Copynumber: 2.7 Consensus size: 64
59528115 AGACATTATG
* * * *
59528125 ATGTAGCTAGGTTGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAACTATGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAACTATGAGATAA
* * * * * * *
59528189 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACATCATGTAGACAAGAGAGCTATGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAACTATGAGAT
59528254 AA
63 AA
* * *
59528256 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGT
59528297 GTAAAAGAGA
Statistics
Matches: 84, Mismatches: 20, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
63 8 0.10
64 24 0.29
66 21 0.25
67 29 0.35
68 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAACTATGAGATAA
Found at i:59534233 original size:114 final size:114
Alignment explanation
Indices: 59534000--59534225 Score: 339
Period size: 114 Copynumber: 2.0 Consensus size: 114
59533990 GTGGTATACT
* * * * *
59534000 TTCTGTTTGGCGTCTTGGTTGGATCAACTCTTATGGGCTTCTGTTTGGTGATTCGATTGGATTAG
1 TTCTGTTTGGCGTCTCGGTTGGATCAACTCTTATGAGCTTCTATTTGGTGATTCGATTGGATCAA
*
59534065 CTCTTATGAGCTTCTGTTTGGCGTTTCGGTTGGATCAACTCATATGAAA
66 CTCTTATGAGCTTCTGTCTGGCGTTTCGGTTGGATCAACTCATATGAAA
59534114 TTCTGTTTGGCGAT-TCGGTTGGATCAACTCTTATGAGCTTCTATTTGGTGATTC-ATTTGGATC
1 TTCTGTTTGGCG-TCTCGGTTGGATCAACTCTTATGAGCTTCTATTTGGTGATTCGA-TTGGATC
* * *
59534177 AACTCTTATGAGCTTCTGTCTGGTGTTTCGGTTGGATCAGCTCTTATGA
64 AACTCTTATGAGCTTCTGTCTGGCGTTTCGGTTGGATCAACTCATATGA
59534226 GCTTCTGTCT
Statistics
Matches: 101, Mismatches: 9, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
113 1 0.01
114 99 0.98
115 1 0.01
ACGTcount: A:0.16, C:0.16, G:0.25, T:0.42
Consensus pattern (114 bp):
TTCTGTTTGGCGTCTCGGTTGGATCAACTCTTATGAGCTTCTATTTGGTGATTCGATTGGATCAA
CTCTTATGAGCTTCTGTCTGGCGTTTCGGTTGGATCAACTCATATGAAA
Found at i:59534235 original size:38 final size:38
Alignment explanation
Indices: 59534016--59534233 Score: 292
Period size: 38 Copynumber: 5.7 Consensus size: 38
59534006 TTGGCGTCTT
*
59534016 GGTTGGATCAACTCTTATGGGCTTCTGTTTGGTGATTC
1 GGTTGGATCAACTCTTATGAGCTTCTGTTTGGTGATTC
* * * * *
59534054 GATTGGATTAGCTCTTATGAGCTTCTGTTTGGCGTTTC
1 GGTTGGATCAACTCTTATGAGCTTCTGTTTGGTGATTC
* ** *
59534092 GGTTGGATCAACTCATATGAAATTCTGTTTGGCGATTC
1 GGTTGGATCAACTCTTATGAGCTTCTGTTTGGTGATTC
*
59534130 GGTTGGATCAACTCTTATGAGCTTCTATTTGGTGATTC
1 GGTTGGATCAACTCTTATGAGCTTCTGTTTGGTGATTC
** * *
59534168 ATTTGGATCAACTCTTATGAGCTTCTGTCTGGTGTTTC
1 GGTTGGATCAACTCTTATGAGCTTCTGTTTGGTGATTC
*
59534206 GGTTGGATCAGCTCTTATGAGCTTCTGT
1 GGTTGGATCAACTCTTATGAGCTTCTGT
59534234 CTAGTGTGTT
Statistics
Matches: 154, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 154 1.00
ACGTcount: A:0.17, C:0.17, G:0.25, T:0.42
Consensus pattern (38 bp):
GGTTGGATCAACTCTTATGAGCTTCTGTTTGGTGATTC
Found at i:59538499 original size:103 final size:103
Alignment explanation
Indices: 59538320--59538516 Score: 331
Period size: 103 Copynumber: 1.9 Consensus size: 103
59538310 GATTAGCTGC
* *** *
59538320 GTGGCGAATTAAATTCCAAAAATTAAGTGCAGACTTCACATGGCCTGGGCACACACCCATTTCCT
1 GTGGCGAATTAAATTCCAAAAATTAAGTGCAGACTTCACACGGCCTAACCACACACCCATATCCT
*
59538385 GAGGTCGTGTCCTCCACACGGCTGAGACATAAGGCCGT
66 GAGGCCGTGTCCTCCACACGGCTGAGACATAAGGCCGT
*
59538423 GTGGCGAATTACATTCCAAAAATTAAGTGCAGACTTCACACGGCCTAACCACACACCCATATCCT
1 GTGGCGAATTAAATTCCAAAAATTAAGTGCAGACTTCACACGGCCTAACCACACACCCATATCCT
59538488 GAGGCCGTGTCCTCCACACGGCTGAGACA
66 GAGGCCGTGTCCTCCACACGGCTGAGACA
59538517 CATGACTGTG
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 87 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (103 bp):
GTGGCGAATTAAATTCCAAAAATTAAGTGCAGACTTCACACGGCCTAACCACACACCCATATCCT
GAGGCCGTGTCCTCCACACGGCTGAGACATAAGGCCGT
Found at i:59539851 original size:20 final size:20
Alignment explanation
Indices: 59539826--59539863 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
59539816 GTCACATATA
59539826 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
59539846 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
59539864 TAGTTCCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:59543039 original size:48 final size:48
Alignment explanation
Indices: 59542977--59543124 Score: 206
Period size: 48 Copynumber: 3.1 Consensus size: 48
59542967 GGGCTATCGA
* *
59542977 CATCGATATGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTAG
1 CATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
* * * *
59543025 CATCGATCTATGATCCCACGTAAGACCATGTTTGGGACATGGCATTGG
1 CATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
* * * *
59543073 CATCGATTTGTGATCCCATGTAAGACCATATCTGGGATATGGCTTTGG
1 CATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
59543121 CATC
1 CATC
59543125 TTACCATGTG
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.29
Consensus pattern (48 bp):
CATCGATATGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
Found at i:59555565 original size:18 final size:18
Alignment explanation
Indices: 59555544--59555594 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
59555534 GTGTCCCAAG
*
59555544 CCACACGGGTGTGTGTGA
1 CCACACGGGCGTGTGTGA
59555562 CCACACGGGCGTGTGTGA
1 CCACACGGGCGTGTGTGA
59555580 CCACACGGGCGTGTG
1 CCACACGGGCGTGTG
59555595 ACCCTGTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.16, C:0.27, G:0.39, T:0.18
Consensus pattern (18 bp):
CCACACGGGCGTGTGTGA
Found at i:59558118 original size:65 final size:65
Alignment explanation
Indices: 59557989--59558123 Score: 209
Period size: 65 Copynumber: 2.1 Consensus size: 65
59557979 ATGCTAGACA
* * *
59557989 GTGTGAAATCTAAGGGGTTTACTGACTTGGGTCACATGGCTGACCACAAGTCCATATGCTAGCCC
1 GTGTGAAATCTAAGGGGTTTACTAACTTGGGTCACACGGCTGACCACAAGTCCATATGCCAGCCC
* *
59558054 GTGTGAAATCTAATGGGG-TTACTAACTTGGGTCACACGGCTGACCACATGTCCATGTGCCAGCC
1 GTGTGAAATCTAA-GGGGTTTACTAACTTGGGTCACACGGCTGACCACAAGTCCATATGCCAGCC
59558118 C
65 C
59558119 GTGTG
1 GTGTG
59558124 CCACACACGA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
65 60 0.94
66 4 0.06
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (65 bp):
GTGTGAAATCTAAGGGGTTTACTAACTTGGGTCACACGGCTGACCACAAGTCCATATGCCAGCCC
Found at i:59558152 original size:30 final size:30
Alignment explanation
Indices: 59558115--59558183 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
59558105 CCATGTGCCA
59558115 GCCCGTGTGCCACACACGACCAATAGACAC
1 GCCCGTGTGCCACACACGACCAATAGACAC
* * *
59558145 GCTCGTGTGCCACACACGGCCAGTAGACAC
1 GCCCGTGTGCCACACACGACCAATAGACAC
59558175 GCCCGTGTG
1 GCCCGTGTG
59558184 TCTAGGCTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.23, C:0.38, G:0.26, T:0.13
Consensus pattern (30 bp):
GCCCGTGTGCCACACACGACCAATAGACAC
Found at i:59560810 original size:32 final size:32
Alignment explanation
Indices: 59560774--59560839 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
59560764 GTACGATATT
59560774 GTTATAGCTTCGGCTAAACATTTATGCACTAA
1 GTTATAGCTTCGGCTAAACATTTATGCACTAA
59560806 GTTATAGCTTCGGCTAAACATTTATGCACTAA
1 GTTATAGCTTCGGCTAAACATTTATGCACTAA
59560838 GT
1 GT
59560840 GTGCGAGTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (32 bp):
GTTATAGCTTCGGCTAAACATTTATGCACTAA
Found at i:59563066 original size:31 final size:31
Alignment explanation
Indices: 59563028--59563089 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
59563018 TCAACAACCC
59563028 GGTGACTTAAATAAAAACTTTTAAATAGTTT
1 GGTGACTTAAATAAAAACTTTTAAATAGTTT
* *
59563059 GGTGACTTAAATGAAAACTTTTTAATAGTTT
1 GGTGACTTAAATAAAAACTTTTAAATAGTTT
59563090 AATGATCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.40
Consensus pattern (31 bp):
GGTGACTTAAATAAAAACTTTTAAATAGTTT
Found at i:59565976 original size:43 final size:44
Alignment explanation
Indices: 59565907--59566011 Score: 115
Period size: 43 Copynumber: 2.4 Consensus size: 44
59565897 TCTCAGATAT
* * * * * *
59565907 GGTCTTACATGTTATCAC-ATATCAATGCCACTGTCCTAGACAG
1 GGTCTTACATGTAATCTCAATATCAATGACAATGTCCCAAACAG
* *
59565950 GGTCTTACACGTAATCTCAATA-CAATGACAATGTCCCAAACAT
1 GGTCTTACATGTAATCTCAATATCAATGACAATGTCCCAAACAG
*
59565993 GGTCTTAAATGTAATCTCA
1 GGTCTTACATGTAATCTCA
59566012 TATTGGTAAC
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 48 0.94
44 3 0.06
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (44 bp):
GGTCTTACATGTAATCTCAATATCAATGACAATGTCCCAAACAG
Found at i:59567342 original size:33 final size:33
Alignment explanation
Indices: 59567301--59567366 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
59567291 AAGGTATGTG
*
59567301 ATATATATGTGTGCATGAATGATATACTGATAA
1 ATATATATGTGTGCATGAATGATATACTAATAA
**
59567334 ATATATATGTGTGTGTGAATGATATACTAATAA
1 ATATATATGTGTGCATGAATGATATACTAATAA
59567367 TTATGATGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.38
Consensus pattern (33 bp):
ATATATATGTGTGCATGAATGATATACTAATAA
Found at i:59567932 original size:56 final size:56
Alignment explanation
Indices: 59567846--59567963 Score: 227
Period size: 56 Copynumber: 2.1 Consensus size: 56
59567836 TAAAGGAATT
*
59567846 TAAAATAGTTTAACAGAAGAGTGGTTACCGTTGATTCTCTACTACACCGATTCGCC
1 TAAAACAGTTTAACAGAAGAGTGGTTACCGTTGATTCTCTACTACACCGATTCGCC
59567902 TAAAACAGTTTAACAGAAGAGTGGTTACCGTTGATTCTCTACTACACCGATTCGCC
1 TAAAACAGTTTAACAGAAGAGTGGTTACCGTTGATTCTCTACTACACCGATTCGCC
59567958 TAAAAC
1 TAAAAC
59567964 TGAGGATTAC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (56 bp):
TAAAACAGTTTAACAGAAGAGTGGTTACCGTTGATTCTCTACTACACCGATTCGCC
Found at i:59568705 original size:32 final size:32
Alignment explanation
Indices: 59568669--59568741 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
59568659 GCCCTTAGGG
*
59568669 GCCCACATGCCCAACTTGGCCTATCCCGTGTA
1 GCCCACACGCCCAACTTGGCCTATCCCGTGTA
59568701 GCCCACACGCCCAACTTGGCCTATCCCGTGTA
1 GCCCACACGCCCAACTTGGCCTATCCCGTGTA
*
59568733 GCCTACACG
1 GCCCACACG
59568742 GCCACACTCG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.19, C:0.42, G:0.19, T:0.19
Consensus pattern (32 bp):
GCCCACACGCCCAACTTGGCCTATCCCGTGTA
Found at i:59571269 original size:42 final size:42
Alignment explanation
Indices: 59571206--59571359 Score: 168
Period size: 42 Copynumber: 3.6 Consensus size: 42
59571196 CAAAACTATG
* *
59571206 TGTAAGACCATATCTGAGATATGGCATC-ATTATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGA-TATGAGATCTCA
* * *
59571248 TGTAAGACCATATCTGGGATATAGTATCGATATGAGATCTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCTCA
* * * * *
59571290 TGTAAGACCATAGT-TGGGTTGTTGGCATCGAAACGAGATCACA
1 TGTAAGACCATA-TCTGGGAT-ATGGCATCGATATGAGATCTCA
*
59571333 TATAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
59571360 TGGTGTGGTA
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 59 0.64
43 33 0.36
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCTCA
Found at i:59573870 original size:44 final size:42
Alignment explanation
Indices: 59573820--59573933 Score: 115
Period size: 44 Copynumber: 2.7 Consensus size: 42
59573810 TGTGTTATCG
*
59573820 TGTAAGACCACGTTTGGGACATTGGCATCG-ACTTATGATTTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGTA-TT-TGATTT-CA
* * ** *
59573864 TGTAAGACCACATCTAGGATGTTGGCATCGTATTTGATTTCG
1 TGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTTCA
*
59573906 TGTAAGACC-CTGTCTGGGACAGTGGCAT
1 TGTAAGACCAC-GTCTGGGACATTGGCAT
59573934 TGTAACACCC
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.02
42 22 0.39
43 6 0.11
44 27 0.47
45 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTTCA
Found at i:59590462 original size:42 final size:42
Alignment explanation
Indices: 59590403--59590557 Score: 161
Period size: 42 Copynumber: 3.7 Consensus size: 42
59590393 TCAAAACTAT
*
59590403 GTGTAAGACCATATCTGGGATATGGCATC-ATTATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGA-TATGAGATGTC
*
59590445 GTGTAAGACCATATCTGGGAGATGGCATCGATATGAGATGTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATGTC
* * * * * **
59590487 GTGTAATACCATAGT-TGGGATATTGGCGTCGAAACGAGGTCCC
1 GTGTAAGACCATA-TCTGGGATA-TGGCATCGATATGAGATGTC
* * *
59590530 ATATAAGACCATATCTAGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
59590558 TAGTGTGGCA
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
42 62 0.66
43 32 0.34
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATGTC
Found at i:59594833 original size:5 final size:6
Alignment explanation
Indices: 59594820--59594867 Score: 60
Period size: 6 Copynumber: 7.5 Consensus size: 6
59594810 ATAATTTAAT
*
59594820 AAATAA AAATAA AAATCTAA AACAAAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AA-ATAA AAATAA AAATAA AAATAA AAA
59594868 ATATATAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
6 27 0.73
7 4 0.11
8 5 0.14
9 1 0.03
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:59595804 original size:130 final size:130
Alignment explanation
Indices: 59595511--59595900 Score: 421
Period size: 130 Copynumber: 3.0 Consensus size: 130
59595501 ATTTGGAGAA
* * ** * * * *
59595511 CATGAGTGAAATTCTAAAGGAATATTCGGTTATTTTGAACAAAC-AGGAGATCGTAACCCAGCAT
1 CATGAGTGAAAATCCAAAGGAATATTCAATTGTTTTGAACAAACGA-GAAATCGCAACCCAGAAT
* * * * ** *
59595575 GATAGGGCATGATTCCCCGAATCGCCAAACATCGAACATTACCTTCGTTTTGGAGAAAATTTTTA
65 GATAGGGCACGATT-CCTGAATTGCCAAACACCGAGTATCACCTTCGTTTTGGAG-AAATTTTTA
59595640 AAG
128 AAG
*
59595643 CATGTGTG-AAATCCCAAAGGAATATTCAATTGTTTTGAACAAACGAGAAATCGCAACCCAGAAT
1 CATGAGTGAAAAT-CCAAAGGAATATTCAATTGTTTTGAACAAACGAGAAATCGCAACCCAGAAT
* * *
59595707 GATAGGGTACGATTCTTGAATTGCCAAACACCGAGTATCACCTTCGTTTTAGG-G-GATTTTTAA
65 GATAGGGCACGATTCCTGAATTGCCAAACACCGAGTATCACCTTCGTTTT-GGAGAAATTTTT-A
59595770 AAG
128 AAG
* * * ** *
59595773 CATGAGTGAAAATCCAAAGGAATATTCAATTGTTTTGAACAAATGAGAAATCACAATCCATTACG
1 CATGAGTGAAAATCCAAAGGAATATTCAATTGTTTTGAACAAACGAGAAATCGCAACCCAGAATG
** * **
59595838 ATAGGGCACGATTCCTGAATTGCCAAACACCGAGTATTGCCTCCGTTTTAAAG-AATTTTTAAA
66 ATAGGGCACGATTCCTGAATTGCCAAACACCGAGTATCACCTTCGTTTTGGAGAAATTTTTAAA
59595901 TGAATAATTA
Statistics
Matches: 218, Mismatches: 34, Indels: 15
0.82 0.13 0.06
Matches are distributed among these distances:
129 9 0.04
130 108 0.50
131 37 0.17
132 63 0.29
133 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.28
Consensus pattern (130 bp):
CATGAGTGAAAATCCAAAGGAATATTCAATTGTTTTGAACAAACGAGAAATCGCAACCCAGAATG
ATAGGGCACGATTCCTGAATTGCCAAACACCGAGTATCACCTTCGTTTTGGAGAAATTTTTAAAG
Found at i:59602085 original size:130 final size:129
Alignment explanation
Indices: 59601783--59602172 Score: 439
Period size: 130 Copynumber: 3.0 Consensus size: 129
59601773 ATTTGGAGAA
* * ** * *
59601783 CATGAGTGAAATTCTAAAGGAATATTCGGCTATTTTGAACAAAC-AGGAGATCGCAACCCAGCAC
1 CATGAGTGAAAATCCAAAGGAATATTCGATTGTTTTGAACAAACGA-GAAATCGCAA-CCAGCAC
* * ** *
59601847 GATAGGGCACGATTCCCCGAATCGCCAAACATCGAACATTACCTTCGTTTTGGAGAAAATTTTTA
64 GATAGGGCACGATT-CCCGAATTGCCAAACACCGAGTATCACCTTCGTTTTGGAG-AAATTTTTA
59601912 AAG
127 AAG
*
59601915 CATGTGTG-AAATCCCAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCTAGCAC
1 CATGAGTGAAAAT-CCAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACC-AGCAC
** *
59601979 GATAGGGCACGATTCTTGAATTGCCAAACACCGAGTATCACCTTCGTTTTAGG-G-GATTTTTAA
64 GATAGGGCACGATTCCCGAATTGCCAAACACCGAGTATCACCTTCGTTTT-GGAGAAATTTTT-A
59602042 AAG
127 AAG
* * * **
59602045 CATGAGTGAAAATCCAAAGGAATATTCAATTGTTTTGAACAAATGAGAAATCACAATCCATTACG
1 CATGAGTGAAAATCCAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAA-CCAGCACG
** * **
59602110 ATAGGGCACGATTCCCGAATTGCCAAACACCGAGTATTGCCTCCGTTTTAAAG-AATTTTTAAA
65 ATAGGGCACGATTCCCGAATTGCCAAACACCGAGTATCACCTTCGTTTTGGAGAAATTTTTAAA
59602173 TGAATAATTA
Statistics
Matches: 221, Mismatches: 29, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
129 9 0.04
130 106 0.48
131 41 0.19
132 64 0.29
133 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (129 bp):
CATGAGTGAAAATCCAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCAGCACGA
TAGGGCACGATTCCCGAATTGCCAAACACCGAGTATCACCTTCGTTTTGGAGAAATTTTTAAAG
Found at i:59605413 original size:132 final size:133
Alignment explanation
Indices: 59605243--59605514 Score: 440
Period size: 132 Copynumber: 2.1 Consensus size: 133
59605233 ACTGGAGACG
*
59605243 AGATCTGCAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGC
1 AGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGC
* * *
59605308 TTCACTGCAACTTCAGGAAGACAA-GATCCGCCGTCCTCGATCTGCTCCACTACAACTTCAGGGA
66 TTCACTACAACTTCAGGAAGACAAGGCT-CGCCGTCCTCGATCTGCTCCACTACAACTTCAAGGA
59605372 AACA
130 AACA
*
59605376 AGATCTACAAT-TTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGGTTAAATCTGC
1 AGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGC
* * * *
59605440 TTCACTACAACTTCAGGAAGACAAGGCTCGCCGTCTTCGATTTTCTCCACTGCAACTTCAAGGAA
66 TTCACTACAACTTCAGGAAGACAAGGCTCGCCGTCCTCGATCTGCTCCACTACAACTTCAAGGAA
59605505 ACA
131 ACA
59605508 AGATCTA
1 AGATCTA
59605515 TAGAATCGGT
Statistics
Matches: 129, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
132 117 0.91
133 12 0.09
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (133 bp):
AGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTGC
TTCACTACAACTTCAGGAAGACAAGGCTCGCCGTCCTCGATCTGCTCCACTACAACTTCAAGGAA
ACA
Found at i:59617032 original size:130 final size:129
Alignment explanation
Indices: 59616647--59617036 Score: 430
Period size: 130 Copynumber: 3.0 Consensus size: 129
59616637 ATTTGGAGAA
* ** * * *
59616647 CATGAGT-AAAATTCTAAAGGAATATTCGGCTATTTTGAACAAA-CAGGATATCGCAACCCAGTA
1 CATGAGTGAAAA-TCCAAAGGAATATTCGATTATTTTGAACAAATGA-GAAATCGCAACCCAGCA
* * * * ** *
59616710 CGATAAGGCACGATTCCCCGAATCGCCAAACATCGAACATTACCTTCATTTTGGAGAA-AATTTT
64 CGATAGGGCACGATT-CCTGAATTGCCAAACACCGAGTATTACCTTCGTTTT--A-AAGAATTTT
59616774 TAAAG
125 TAAAG
* * * *
59616779 CAT-ATGTG-AAATCCCAAAGGAATATTCGATTGTTTTAAACAAATGAGAAATCGCAACCTAGCG
1 CATGA-GTGAAAAT-CCAAAGGAATATTCGATTATTTTGAACAAATGAGAAATCGCAACCCAGCA
* * * ** *
59616842 CGATAGGGCACGATTCTTGAATTGCCAAACACTGAGTATCACCTTCGTTTTAGGGGATTTTTAAA
64 CGATAGGGCACGATTCCTGAATTGCCAAACACCGAGTATTACCTTCGTTTTAAAGAATTTTTAAA
59616907 CG
129 -G
*
59616909 CATGAGTGAAAATCCAAAGGAATATTCGATTTTTTTGAACAAATGAGAAATCGCAACCCAGCACG
1 CATGAGTGAAAATCCAAAGGAATATTCGATTATTTTGAACAAATGAGAAATCGCAACCCAGCACG
* *
59616974 ATAGGGCACGATTCCTGAATTGCAAAACACCGAGTATTGCCTTCGTTTTAAAGAATTTTTAAA
66 ATAGGGCACGATTCCTGAATTGCCAAACACCGAGTATTACCTTCGTTTTAAAGAATTTTTAAA
59617037 TCAATAATTA
Statistics
Matches: 215, Mismatches: 35, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
129 10 0.05
130 110 0.51
131 34 0.16
132 60 0.28
133 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (129 bp):
CATGAGTGAAAATCCAAAGGAATATTCGATTATTTTGAACAAATGAGAAATCGCAACCCAGCACG
ATAGGGCACGATTCCTGAATTGCCAAACACCGAGTATTACCTTCGTTTTAAAGAATTTTTAAAG
Found at i:59619714 original size:16 final size:16
Alignment explanation
Indices: 59619693--59619723 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59619683 TTATTATTTA
*
59619693 TTTATTGTTTTGTTTT
1 TTTATTATTTTGTTTT
59619709 TTTATTATTTTGTTT
1 TTTATTATTTTGTTT
59619724 GTAACAGGCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.81
Consensus pattern (16 bp):
TTTATTATTTTGTTTT
Found at i:59619773 original size:9 final size:9
Alignment explanation
Indices: 59619759--59619790 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
59619749 ACTACACGGG
59619759 TAATTCGGT
1 TAATTCGGT
*
59619768 TAATTCGAT
1 TAATTCGGT
59619777 TAATTCGGT
1 TAATTCGGT
59619786 TAATT
1 TAATT
59619791 TTATACTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.47
Consensus pattern (9 bp):
TAATTCGGT
Found at i:59629596 original size:14 final size:16
Alignment explanation
Indices: 59629567--59629598 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
59629557 TTGAACTGGA
59629567 TTTGTCTTTGTTTGTT
1 TTTGTCTTTGTTTGTT
59629583 TTTGT-TTT-TTTGTT
1 TTTGTCTTTGTTTGTT
59629597 TT
1 TT
59629599 GGGCTTGGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.00, C:0.03, G:0.16, T:0.81
Consensus pattern (16 bp):
TTTGTCTTTGTTTGTT
Found at i:59634078 original size:21 final size:21
Alignment explanation
Indices: 59634003--59634078 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
59633993 TTGTAACAGA
*
59634003 TACAAATCATGCTTATCATAT
1 TACAAATCATACTTATCATAT
* *
59634024 TACAGATCATACATATCATAT
1 TACAAATCATACTTATCATAT
** * *
59634045 TACAGTTTATACTTATCACAT
1 TACAAATCATACTTATCATAT
*
59634066 TTCAAATCATACT
1 TACAAATCATACT
59634079 AAGCAGACAA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.38, C:0.20, G:0.04, T:0.38
Consensus pattern (21 bp):
TACAAATCATACTTATCATAT
Found at i:59637450 original size:19 final size:19
Alignment explanation
Indices: 59637426--59637463 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
59637416 GAATTTTTAT
59637426 GCAACAACTTAGTTAAAGA
1 GCAACAACTTAGTTAAAGA
59637445 GCAACAACTTAGTTAAAGA
1 GCAACAACTTAGTTAAAGA
59637464 AGCTGTGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (19 bp):
GCAACAACTTAGTTAAAGA
Found at i:59643150 original size:24 final size:24
Alignment explanation
Indices: 59643123--59643198 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
59643113 ATGAATGTCT
*
59643123 ATTGTGACGGATTTGGTTGTATGA
1 ATTGTGACAGATTTGGTTGTATGA
*** * * *
59643147 ATTGTGTTTGTTTTGG-TAT-TGG
1 ATTGTGACAGATTTGGTTGTATGA
*
59643169 TTTGTGACAGATTTGGTTGTATGA
1 ATTGTGACAGATTTGGTTGTATGA
59643193 ATTGTG
1 ATTGTG
59643199 CTTGTTTTGG
Statistics
Matches: 36, Mismatches: 14, Indels: 4
0.67 0.26 0.07
Matches are distributed among these distances:
22 13 0.36
23 4 0.11
24 19 0.53
ACGTcount: A:0.17, C:0.03, G:0.32, T:0.49
Consensus pattern (24 bp):
ATTGTGACAGATTTGGTTGTATGA
Found at i:59643191 original size:46 final size:46
Alignment explanation
Indices: 59643124--59643216 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
59643114 TGAATGTCTA
* *
59643124 TTGTGACGGATTTGGTTGTATGAATTGTGTTTGTTTTGGTATTGGT
1 TTGTGACAGATTTGGTTGTATGAATTGTGCTTGTTTTGGTATTGGT
59643170 TTGTGACAGATTTGGTTGTATGAATTGTGCTTGTTTTGGTATTGGT
1 TTGTGACAGATTTGGTTGTATGAATTGTGCTTGTTTTGGTATTGGT
59643216 T
1 T
59643217 GGTATTTGCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.14, C:0.03, G:0.31, T:0.52
Consensus pattern (46 bp):
TTGTGACAGATTTGGTTGTATGAATTGTGCTTGTTTTGGTATTGGT
Found at i:59643207 original size:24 final size:24
Alignment explanation
Indices: 59643134--59643209 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
59643124 TTGTGACGGA
*
59643134 TTTGGTTGTATGAATTGTGTTTGT
1 TTTGGTTGTATGAATTGTGCTTGT
* ** * *
59643158 TTTGG-TAT-TGGTTTGTGAC-AGA
1 TTTGGTTGTATGAATTGTG-CTTGT
59643180 TTTGGTTGTATGAATTGTGCTTGT
1 TTTGGTTGTATGAATTGTGCTTGT
59643204 TTTGGT
1 TTTGGT
59643210 ATTGGTTGGT
Statistics
Matches: 37, Mismatches: 11, Indels: 8
0.66 0.20 0.14
Matches are distributed among these distances:
22 13 0.35
23 5 0.14
24 19 0.51
ACGTcount: A:0.13, C:0.03, G:0.30, T:0.54
Consensus pattern (24 bp):
TTTGGTTGTATGAATTGTGCTTGT
Found at i:59648008 original size:10 final size:10
Alignment explanation
Indices: 59647993--59648019 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
59647983 GATTATGCCT
59647993 AATGATACCA
1 AATGATACCA
59648003 AATGATACCA
1 AATGATACCA
59648013 AATGATA
1 AATGATA
59648020 AAGAATGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.15, G:0.11, T:0.22
Consensus pattern (10 bp):
AATGATACCA
Found at i:59648431 original size:36 final size:36
Alignment explanation
Indices: 59648384--59648456 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
59648374 TCTAAAAAGA
59648384 TTATTAAAACTCTTCTAAAAGAAACTCAAGAGAAAT
1 TTATTAAAACTCTTCTAAAAGAAACTCAAGAGAAAT
59648420 TTATTAAAACTCTTCTAAAAGAAACTCAAGAGAAAT
1 TTATTAAAACTCTTCTAAAAGAAACTCAAGAGAAAT
59648456 T
1 T
59648457 CTTAAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.29
Consensus pattern (36 bp):
TTATTAAAACTCTTCTAAAAGAAACTCAAGAGAAAT
Found at i:59653986 original size:35 final size:35
Alignment explanation
Indices: 59653947--59654019 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
59653937 ACACATTCTT
59653947 TATTCTCGTCAGATCAATCTCAAATAAATAATATA
1 TATTCTCGTCAGATCAATCTCAAATAAATAATATA
*
59653982 TATTCTCGTCAGATCAATCTCACATAAATAATATA
1 TATTCTCGTCAGATCAATCTCAAATAAATAATATA
59654017 TAT
1 TAT
59654020 ATCACATACC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (35 bp):
TATTCTCGTCAGATCAATCTCAAATAAATAATATA
Found at i:59657628 original size:29 final size:30
Alignment explanation
Indices: 59657573--59657635 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
59657563 AATTCAAAGG
* *
59657573 AATTTATAAAATTTATAAAATAAATATATA
1 AATTTATAAAAATTATAAAATAAATATAAA
59657603 AATTT-TAAAAATT-TAAAATAATATATAAA
1 AATTTATAAAAATTATAAAATAA-ATATAAA
59657632 AATT
1 AATT
59657636 GAAAATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 8 0.27
29 17 0.57
30 5 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (30 bp):
AATTTATAAAAATTATAAAATAAATATAAA
Found at i:59657640 original size:27 final size:28
Alignment explanation
Indices: 59657579--59657643 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
59657569 AAGGAATTTA
* **
59657579 TAAAATTTATAAAATAAATATATAAATTT
1 TAAAAATT-TAAAATAAATATATAAAAAT
59657608 TAAAAATTTAAAAT-AATATATAAAAAT
1 TAAAAATTTAAAATAAATATATAAAAAT
*
59657635 TGAAAATTT
1 TAAAAATTT
59657644 TATAAAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 19 0.59
28 6 0.19
29 7 0.22
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (28 bp):
TAAAAATTTAAAATAAATATATAAAAAT
Found at i:59657640 original size:28 final size:27
Alignment explanation
Indices: 59657588--59657660 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 27
59657578 ATAAAATTTA
* *
59657588 TAAAATAAATATATAAATTTTAAAAATT
1 TAAAATAAATATA-AAAATTGAAAAATT
*
59657616 TAAAATAATATATAAAAATTGAAAATTT
1 TAAAATAA-ATATAAAAATTGAAAAATT
*
59657644 TATAA-AAAT-TAAAAATT
1 TAAAATAAATATAAAAATT
59657661 TTATTTAGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 8 0.20
26 2 0.05
27 2 0.05
28 23 0.57
29 5 0.12
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (27 bp):
TAAAATAAATATAAAAATTGAAAAATT
Found at i:59657649 original size:18 final size:18
Alignment explanation
Indices: 59657602--59657664 Score: 74
Period size: 18 Copynumber: 3.5 Consensus size: 18
59657592 ATAAATATAT
*
59657602 AAATTTTA-AAAATTTAA
1 AAATTTTATAAAAATTAA
* * *
59657619 AATAATATATAAAAATTGA
1 AA-ATTTTATAAAAATTAA
59657638 AAATTTTATAAAAATTAA
1 AAATTTTATAAAAATTAA
59657656 AAATTTTAT
1 AAATTTTAT
59657665 TTAGATTTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
17 2 0.05
18 26 0.70
19 9 0.24
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
AAATTTTATAAAAATTAA
Found at i:59660089 original size:38 final size:37
Alignment explanation
Indices: 59659998--59660091 Score: 111
Period size: 37 Copynumber: 2.5 Consensus size: 37
59659988 ATTTTAATTA
* ** *
59659998 AGGT-TTTAATGTGTCTTTGTTTAGTACAAATTAAAT
1 AGGTGTTTAATGTGTCTTAGTGAAGTACAAATTAAAG
*
59660034 AGGTGTTTAATGTGTCTTAGTGAAGTACATATTAAAG
1 AGGTGTTTAATGTGTCTTAGTGAAGTACAAATTAAAG
59660071 A-GTCGTCTTAATGTGTCTTAG
1 AGGT-GT-TTAATGTGTCTTAG
59660092 CTTAAGAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
36 6 0.12
37 30 0.60
38 14 0.28
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (37 bp):
AGGTGTTTAATGTGTCTTAGTGAAGTACAAATTAAAG
Found at i:59665130 original size:23 final size:22
Alignment explanation
Indices: 59665078--59665130 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
59665068 TCCACGTCTT
*
59665078 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
59665100 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
59665123 TTTCTTTT
1 TTTCTTTT
59665131 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:59667518 original size:4 final size:4
Alignment explanation
Indices: 59667509--59667538 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
59667499 AAACTAAGTA
59667509 AAAT AAAT AAAT AAAT AAAT AAA- AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
59667539 ACTTTACAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:59670739 original size:21 final size:21
Alignment explanation
Indices: 59670715--59670762 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
59670705 GTCGTCCAAG
59670715 GGACACGCCCGTGTGACCCTA
1 GGACACGCCCGTGTGACCCTA
59670736 GGACACGCCCGTGTGACCCTA
1 GGACACGCCCGTGTGACCCTA
59670757 GGACAC
1 GGACAC
59670763 ACCCTTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.38, G:0.29, T:0.12
Consensus pattern (21 bp):
GGACACGCCCGTGTGACCCTA
Found at i:59679237 original size:43 final size:42
Alignment explanation
Indices: 59679182--59679338 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 42
59679172 AACATATACA
59679182 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAA-ATCG
*
59679225 ATGCC-ACTATCCCAGACAG-GGTCTTACATGAAATC-AAATACG
1 ATGCCAAC-ATCCCAGAC-GTGGTCTTACATGTAATCAAAAT-CG
* ** ** * * *
59679267 ATTCTGATGTCCCAGACATGGTCTTACACGTAAAAT-AGAAGTCG
1 ATGCCAACATCCCAGACGTGGTCTTACATGT--AATCA-AAATCG
59679311 ATGCCAACATCCCAGACGTGGTCTTACA
1 ATGCCAACATCCCAGACGTGGTCTTACA
59679339 CGAAATCCTA
Statistics
Matches: 90, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
41 2 0.02
42 27 0.30
43 30 0.33
44 28 0.31
45 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAAATCG
Found at i:59683471 original size:30 final size:30
Alignment explanation
Indices: 59683425--59683484 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
59683415 TTCCCGAGCC
* *
59683425 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAATGTAATTATGCAAAAGTT
* *
59683455 TAGGGGAAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAATGTAATTATGCAAAAGTT
59683485 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAATGTAATTATGCAAAAGTT
Found at i:59685793 original size:18 final size:18
Alignment explanation
Indices: 59685770--59685813 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 18
59685760 TTGAGATTTG
59685770 GATAATTACTAGAAATGT
1 GATAATTACTAGAAATGT
59685788 GAT-A--A-TAGAAATGT
1 GATAATTACTAGAAATGT
59685802 GATAATTACTAG
1 GATAATTACTAG
59685814 GAATTGTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 8
0.73 0.00 0.27
Matches are distributed among these distances:
14 12 0.55
15 2 0.09
17 2 0.09
18 6 0.27
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (18 bp):
GATAATTACTAGAAATGT
Found at i:59688047 original size:31 final size:31
Alignment explanation
Indices: 59687967--59688050 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
59687957 TTAGTCTTGA
* *
59687967 CATAT-ACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
*
59687997 CATATCACTAGGCCAAAGCCTTTTCATAAAT
1 CATATCACTAGGCCGAAGCCTTTTCATAAAT
* * *
59688028 CATATCATTGGGTCGAAGCCTTT
1 CATATCACTAGGCCGAAGCCTTT
59688051 ACTATAAACG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 5 0.11
31 41 0.89
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (31 bp):
CATATCACTAGGCCGAAGCCTTTTCATAAAT
Found at i:59688333 original size:26 final size:26
Alignment explanation
Indices: 59688256--59688392 Score: 174
Period size: 26 Copynumber: 5.3 Consensus size: 26
59688246 CTGGAGGCCT
59688256 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
** *
59688280 AGCCCTTTTCGGTAAACAGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
*
59688305 AGCCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
59688331 AGCCCTTTTTCGGTAAACTGGGGCATA
1 AGCCC-TTTTCAATAAACTGGGGCATA
59688358 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
59688384 AGCCCTTTT
1 AGCCCTTTT
59688393 TGCACTTCCT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 30 0.31
26 34 0.35
27 23 0.24
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:59688374 original size:53 final size:52
Alignment explanation
Indices: 59688256--59688393 Score: 212
Period size: 53 Copynumber: 2.7 Consensus size: 52
59688246 CTGGAGGCCT
59688256 AGCCTCTTTT-AAT-AACTGGGGCA-AAGCCC-TTTTCGGTAAACAGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTTCGGTAAACAGGGGCAA
* *
59688305 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTTCGGTAAACAGGGGCA-A
59688358 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTT
59688394 GCACTTCCTC
Statistics
Matches: 81, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
48 5 0.06
49 7 0.09
50 9 0.11
51 6 0.07
52 18 0.22
53 36 0.44
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (52 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTTCGGTAAACAGGGGCAA
Found at i:59689224 original size:27 final size:27
Alignment explanation
Indices: 59689194--59689285 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 27
59689184 GGGCACATTC
*
59689194 GTCATTTTACCATACAGGGG-TATTACG
1 GTCATTTTACCCTACAGGGGCT-TTACG
*
59689221 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCCTACAGGGGCTTTACG
*
59689248 GTC-TCTTTACCCTACAGGGGCTTTACA
1 GTCAT-TTTACCCTACAGGGGCTTTACG
*
59689275 GTCTTTTTACC
1 GTCATTTTACC
59689286 TAATAGGGGT
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
27 56 0.97
28 2 0.03
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCTTTACG
Found at i:59689488 original size:54 final size:54
Alignment explanation
Indices: 59689316--59689554 Score: 158
Period size: 54 Copynumber: 4.4 Consensus size: 54
59689306 TTTCATCCTA
* * * * * **
59689316 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGGTAACTTT-ACAAAC
* *** * * * ** *
59689371 CAATGGTATTTCCATAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTTTGGTAA-TTTTACAAA-CCAAGGGTATTTCGGTAACTTTACAAAC
* **
59689427 CAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAA-TTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGGTAACTTT-ACAAAC
* * * * * * ** *
59689481 CAAGGGTATTTTAGCAATTTTACAGA-CTAGGGTATTTTGGTAATTTTACTGAT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGGTAACTTTACAAAC
*
59689534 CGAGGGTATTTTGGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
59689555 GTAAACTGAG
Statistics
Matches: 143, Mismatches: 37, Indels: 10
0.75 0.19 0.05
Matches are distributed among these distances:
53 38 0.27
54 44 0.31
55 20 0.14
56 22 0.15
57 19 0.13
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGGTAACTTTACAAAC
Found at i:59689518 original size:26 final size:26
Alignment explanation
Indices: 59689430--59689581 Score: 124
Period size: 27 Copynumber: 5.7 Consensus size: 26
59689420 TGTAAATCAG
* * *
59689430 GGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTTAGTAATTTTACAGACT-A
** * * *
59689457 GGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTAGTAATTTTACAGA-CTA
*
59689484 GGGTATTTTAGCAATTTTACAGACTA
1 GGGTATTTTAGTAATTTTACAGACTA
* * *
59689510 GGGTATTTTGGTAATTTTACTGATCGA
1 GGGTATTTTAGTAATTTTACAGA-CTA
* ** *
59689537 GGGTATTTTGGTAATTTTGTAAACTGA
1 GGGTATTTTAGTAATTTTACAGACT-A
59689564 GGGTATTTTAGTAATTTT
1 GGGTATTTTAGTAATTTT
59689582 GTAAATCGAA
Statistics
Matches: 102, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
26 23 0.23
27 79 0.77
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (26 bp):
GGGTATTTTAGTAATTTTACAGACTA
Found at i:59689523 original size:80 final size:80
Alignment explanation
Indices: 59689430--59689581 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
59689420 TGTAAATCAG
*
59689430 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTAG
59689495 CAATTTTACAGACTA
66 CAATTTTACAGACTA
** * * *** **
59689510 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACTGAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTAG
*
59689575 TAATTTT
66 CAATTTT
59689582 GTAAATCGAA
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 61 1.00
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTAG
CAATTTTACAGACTA
Found at i:59689579 original size:54 final size:53
Alignment explanation
Indices: 59689430--59689581 Score: 169
Period size: 53 Copynumber: 2.8 Consensus size: 53
59689420 TGTAAATCAG
* * *
59689430 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACT-AGGGTATTTTGGTAATTTTACAAACCAA
* * * ** * *
59689484 GGGTATTTTAGCAATTTTACAGACTAGGGTATTTTGGTAATTTTACTGATCGA
1 GGGTATTTTGGTAATTTTACAAACTAGGGTATTTTGGTAATTTTACAAACCAA
** *
59689537 GGGTATTTTGGTAATTTTGTAAACTGAGGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTTACAAACT-AGGGTATTTTGGTAATTTT
59689582 GTAAATCGAA
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
53 42 0.52
54 39 0.48
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGTATTTTGGTAATTTTACAAACCAA
Found at i:59689590 original size:54 final size:53
Alignment explanation
Indices: 59689402--59689595 Score: 169
Period size: 54 Copynumber: 3.6 Consensus size: 53
59689392 TAGAAAGTCA
* *
59689402 AGGGTATTTCT-GTAACTTTGTAAATC-AGGGGTATTTTGGTAATTTTACAAATT
1 AGGGTATTT-TGGTAATTTTGTAAATCGA-GGGTATTTTGGTAATTTTACAAACT
* *** * * * * *
59689455 AAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTTAGCAATTTTACAGACT
1 -AGGGTATTTTGGTAATTTTGTAAATCGAGGGTATTTTGGTAATTTTACAAACT
* * **
59689509 AGGGTATTTTGGTAATTTTACT-GATCGAGGGTATTTTGGTAATTTTGTAAACT
1 AGGGTATTTTGGTAATTTT-GTAAATCGAGGGTATTTTGGTAATTTTACAAACT
* *
59689562 GAGGGTATTTTAGTAATTTTGTAAATCGAAGGTA
1 -AGGGTATTTTGGTAATTTTGTAAATCGAGGGTA
59689596 AAACAGTAAT
Statistics
Matches: 109, Mismatches: 26, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
53 41 0.38
54 67 0.61
55 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.40
Consensus pattern (53 bp):
AGGGTATTTTGGTAATTTTGTAAATCGAGGGTATTTTGGTAATTTTACAAACT
Found at i:59689595 original size:27 final size:27
Alignment explanation
Indices: 59689345--59689748 Score: 120
Period size: 27 Copynumber: 14.9 Consensus size: 27
59689335 CTACAAACCA
* * *
59689345 AGGGTATTTCAGTAATTTTGTTAAACCA
1 AGGGTATTTTAGTAATTTTG-TAAATCG
* * *
59689373 ATGGTATTTCCA-TAATTTT-TAGAAAGTCA
1 AGGGTATTT-TAGTAATTTTGT--AAA-TCG
*
59689402 AGGGTATTTCT-GTAACTTTGTAAATC-
1 AGGGTATTT-TAGTAATTTTGTAAATCG
* ** **
59689428 AGGGGTATTTTGGTAATTTTACAAATTA
1 A-GGGTATTTTAGTAATTTTGTAAATCG
** *** * *
59689456 AGGGTATTTCGGTAATTTCACAAACCA
1 AGGGTATTTTAGTAATTTTGTAAATCG
* ** * *
59689483 AGGGTATTTTAGCAATTTTACAGA-CT
1 AGGGTATTTTAGTAATTTTGTAAATCG
* * *
59689509 AGGGTATTTTGGTAATTTTACT-GATCG
1 AGGGTATTTTAGTAATTTT-GTAAATCG
*
59689536 AGGGTATTTTGGTAATTTTGTAAA-CTG
1 AGGGTATTTTAGTAATTTTGTAAATC-G
59689563 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTAGTAATTTTGTAAATCG
* **** * **
59689590 AAGGTAAAACAGTAATTCTGTAAATAA
1 AGGGTATTTTAGTAATTTTGTAAATCG
*** * *
59689617 AGGGTAAAATAGTAATTCTATAAATCG
1 AGGGTATTTTAGTAATTTTGTAAATCG
***** *
59689644 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTATTTTAGTAATTTTGTAAATCG
***** * *
59689671 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTATTTTAGTAATTTTGTAAATCG
* * ** * *
59689698 AGGGTACTTTGGTAATTTTACAATTTG
1 AGGGTATTTTAGTAATTTTGTAAATCG
* *
59689725 AGGGTATTTCAGTAATTTGGTAAA
1 AGGGTATTTTAGTAATTTTGTAAA
59689749 CTAAAGTATT
Statistics
Matches: 303, Mismatches: 59, Indels: 29
0.77 0.15 0.07
Matches are distributed among these distances:
26 25 0.08
27 235 0.78
28 23 0.08
29 19 0.06
30 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (27 bp):
AGGGTATTTTAGTAATTTTGTAAATCG
Found at i:59689730 original size:54 final size:54
Alignment explanation
Indices: 59689573--59689703 Score: 190
Period size: 54 Copynumber: 2.4 Consensus size: 54
59689563 AGGGTATTTT
* * * * ** *
59689573 AGTAATTTTGTAAATCGAAGGTAAAACAGTAATTCTGTAAATAAAGGGTAAAAT
1 AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
59689627 AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
*
59689681 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTATAAATCGAGGGTA
59689704 CTTTGGTAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.28
Consensus pattern (54 bp):
AGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:59689740 original size:81 final size:81
Alignment explanation
Indices: 59689532--59689741 Score: 222
Period size: 81 Copynumber: 2.6 Consensus size: 81
59689522 AATTTTACTG
* * * * *
59689532 ATCGAGGGTATTTTGGTAATTTTGTAAACTGAGGGTATTTTAGTAATTTTGTAAATCGAAGGTAA
1 ATCGAGGGTAATTTGGTAATTTTATAAATTGAGGGTATTTCAGTAATTCTGTAAATCGAAGGTAA
*
59689597 AACAGTAATTCTGTAA
66 AACAGTAATTCTATAA
** ** * * * *** * *
59689613 ATAAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAA
1 ATCGAGGGTAATTTGGTAATTTTATAAATTGAGGGTATTTCAGTAATTCTGTAAATCGAAGGTAA
*
59689678 AACGGTAATTCTATAA
66 AACAGTAATTCTATAA
* * *
59689694 ATCGAGGGTACTTTGGTAATTTTACAATTTGAGGGTATTTCAGTAATT
1 ATCGAGGGTAATTTGGTAATTTTATAAATTGAGGGTATTTCAGTAATT
59689742 TGGTAAACTA
Statistics
Matches: 96, Mismatches: 33, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
81 96 1.00
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.35
Consensus pattern (81 bp):
ATCGAGGGTAATTTGGTAATTTTATAAATTGAGGGTATTTCAGTAATTCTGTAAATCGAAGGTAA
AACAGTAATTCTATAA
Found at i:59697626 original size:41 final size:43
Alignment explanation
Indices: 59697558--59697673 Score: 112
Period size: 43 Copynumber: 2.7 Consensus size: 43
59697548 ATATCGATAA
* * * * *
59697558 ATCGATGCCATTGTCCCAAATAGGGTCTTACAC-GAATCAAAT
1 ATCGATGCCAATGTCCTAGACATGGTCTTACACAGAATCAAAT
** * *
59697600 A-CGATGCTGATGTACC-AGACATGGTCTTACACATAATCACAT
1 ATCGATGCCAATGT-CCTAGACATGGTCTTACACAGAATCAAAT
*
59697642 ATCGATGCCAATGTCCTAGACGTGGTCTTACA
1 ATCGATGCCAATGTCCTAGACATGGTCTTACA
59697674 TGAGAACACA
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
41 22 0.37
42 13 0.22
43 24 0.41
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (43 bp):
ATCGATGCCAATGTCCTAGACATGGTCTTACACAGAATCAAAT
Found at i:59701440 original size:46 final size:46
Alignment explanation
Indices: 59701390--59701562 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
59701380 TGGTTGAGCA
59701390 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * *
59701436 TCCGAACTCGTTCAGTGGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
59701481 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
59701529 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
59701563 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.57
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59701550 original size:93 final size:93
Alignment explanation
Indices: 59701387--59701557 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
59701377 GGATGGTTGA
* *
59701387 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTCAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTCAGT
59701452 GGAGTCCGAGTTCGTGAAATGTAACTAG
66 GGAGTCCGAGTTCGTGAAATGTAACTAG
* *
59701480 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTCAGT
*
59701545 TGAGTCCGAGTTC
66 GGAGTCCGAGTTC
59701558 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTCAGT
GGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:59706119 original size:20 final size:21
Alignment explanation
Indices: 59706085--59706138 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
59706075 TGATGATATT
*
59706085 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
59706106 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
59706126 TTTTATTATTTTA
1 TTATATTATTTTA
59706139 TTATTAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:59708328 original size:46 final size:46
Alignment explanation
Indices: 59708275--59708453 Score: 243
Period size: 46 Copynumber: 3.9 Consensus size: 46
59708265 GTGCTCTCTA
* *
59708275 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTT
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
59708321 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
** *
59708367 ATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATG
1 ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* * * * *
59708413 ACA-GAAAATGAGTAAGATCATAGTTGAAAGACACTATGGCA
1 ATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
59708454 TCATGTGAAA
Statistics
Matches: 120, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 119 0.99
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (46 bp):
ATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:59721462 original size:18 final size:19
Alignment explanation
Indices: 59721439--59721476 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
59721429 AGGACACGGC
*
59721439 CCCAAG-ACACTGGCGTGT
1 CCCAAGCACACGGGCGTGT
59721457 CCCAAGCCACACGGGCGTGT
1 CCCAAG-CACACGGGCGTGT
59721477 GTATGACCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.21, C:0.37, G:0.29, T:0.13
Consensus pattern (19 bp):
CCCAAGCACACGGGCGTGT
Found at i:59744614 original size:46 final size:46
Alignment explanation
Indices: 59744564--59744739 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
59744554 TGGTTGAGCA
59744564 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59744610 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
59744655 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59744703 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59744740 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59744720 original size:93 final size:93
Alignment explanation
Indices: 59744561--59744732 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59744551 GGATGGTTGA
* *
59744561 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59744626 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
59744654 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59744719 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
59744733 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59752158 original size:46 final size:48
Alignment explanation
Indices: 59752107--59752239 Score: 166
Period size: 46 Copynumber: 2.8 Consensus size: 48
59752097 ATGGTTGAGC
*
59752107 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-CGAATG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACGAACG
*
59752154 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC--GTGAGATGTACGAACG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATG-ACGAACG
* * *
59752201 CACCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59752240 GCGGGTTACA
Statistics
Matches: 73, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
44 2 0.03
45 4 0.05
46 31 0.42
47 5 0.07
49 28 0.38
50 1 0.01
51 2 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGACGAACG
Found at i:59755550 original size:560 final size:556
Alignment explanation
Indices: 59754144--59755824 Score: 2345
Period size: 561 Copynumber: 3.0 Consensus size: 556
59754134 ATCATGCATG
* * * * *
59754144 GCTAGTTGGCAGATGGCATTTATAAATTTTTTGTACTTAACTTTTGTTTTTACCCCACAATCATA
1 GCTAGTTGGCGGAT-GCCTATATAAATATTTTGTACTTAACTTTTGTTTTTACCCCACAACCATA
* * *
59754209 TTGTTTTTTTCTTAAAGTGAAACTGCCCCTTATTATACATGTGTATGCCAAACTCCCTTGATTTG
65 TTGTTTTTGTCTTAAAGTGGAACTGCCCCTTATTATACATGTGTACGCCAAACTCCCTTGATTTG
* * * *
59754274 CATATTACAAACTTGCCTTTTCTATTAAGTGTATTTGCCATACATGACAGTGTAAGATTTAAATA
130 CATATTACAAACTTGCCTTTTCTATTAAGTGTATTCGCCATACATGGCAGTGTATGATTTAAAGA
** **
59754339 TTGCCTTTATTAATTCCTATTACTTTCTTCAAGTGTACGTTACTAAATGGGCCAAGAATAACAGT
195 TTGCCTTTATTAATTCCTATTACTTTCTTCAAGCATACGTTACTAAATGGGCCAAGAATAATGGT
* *
59754404 CTTTCACTAAAAAGAGAACCCTTACAACTGATTTCTCAAATATTTAAATTAAGCCAAAGGATTTG
260 CTTTCACTAAAAGGAGAACCCTTACAACTGATTTCTCAAAGATTTAAATTAAGCCAAAGGATTTG
* * ** *
59754469 AGTCTATCAGTAA-TACCCCGGTCAGTTGGGTGGTTTGTTTGGCTAATTGATATATGCCATGTCT
325 AGTCTATCAGTAACGA-CCTGGTCAGTTGGAAGGTTTGTTTGGCTGATTGATATATGCCATGTCT
*
59754533 CCTGA-AGGGGCTGAAGGGTGTTATAACAAAACATCTATTTGAATAAGGTCTAATTAAATAATAA
389 CCTGACA--GGCT-AAGGGTGTTACAACAAAACATCTATTTGAATAAGGTCTAATTAAATAATAA
* * *
59754597 TATTTAATAAAAAATACAATATTATAGTAGAACTATAGTACAGGAGAAGGTGACACCCCCTATAA
451 TATTTAATAAAAAATACAATATTATAGTAGAACTATAGTATAGGGGATGGTGACACCCCC-ATAA
* * * *
59754662 AACACTAAGGTTTGTCGCCCCTTATGTAATATAAGTCCAAGTTG
515 AACA-TTAGGTTTGT-GCCCCTTATGTGATATAAGGCCAAGTTA
*
59754706 GCTAGTTGACGGATGGCCTATATAAATATTTTGTACTTTAA-TTTTGTTTTTACCCCACAACCAT
1 GCTAGTTGGCGGAT-GCCTATATAAATATTTTGTAC-TTAACTTTTGTTTTTACCCCACAACCAT
* *
59754770 ATTGTTCTTGTCTTAAAGTGGAACTGCCCCTTATTATACATATGTACGCCAAACTCCCTT-ATTT
64 ATTGTTTTTGTCTTAAAGTGGAACTGCCCCTTATTATACATGTGTACGCCAAACTCCCTTGATTT
* * *
59754834 GCATATTACAAAGTTGCCTTTTCTTTTAAGTGTATTCGCCATACATGGCAGAGTATGATTTAAAG
129 GCATATTACAAACTTGCCTTTTCTATTAAGTGTATTCGCCATACATGGCAGTGTATGATTTAAAG
* ** *
59754899 ATTGCCTTTATTAATTCCTATTACTTTCTTCAAGGATACAATACTAAATGGGCCAAGAATAATGA
194 ATTGCCTTTATTAATTCCTATTACTTTCTTCAAGCATACGTTACTAAATGGGCCAAGAATAATGG
*
59754964 TCTTTCACTAAAAGGAGAACCCTTACAATTGATTTCTCAAAGATTTAAATTAAGCCAAAGGATTT
259 TCTTTCACTAAAAGGAGAACCCTTACAACTGATTTCTCAAAGATTTAAATTAAGCCAAAGGATTT
* * *
59755029 GAGTCTATCAATAACGACCTGGTCTGTTGGAAGGTTTGTTTGGCTGGA-TGATATACGCCATGTC
324 GAGTCTATCAGTAACGACCTGGTCAGTTGGAAGGTTTGTTTGGCT-GATTGATATATGCCATGTC
* * * *
59755093 TCTTGACCGGCTAAGGGTGTTACAACAAAACATCTATTTGAATAAGATCTAATTAAATTATAATA
388 TCCTGACAGGCTAAGGGTGTTACAACAAAACATCTATTTGAATAAGGTCTAATTAAATAATAATA
59755158 TTTAATAAAAAAATACAATATTATAGTAGAACTATAGTATAGGGGATGGTGACACCTCCCATAAA
453 TTTAAT-AAAAAATACAATATTATAGTAGAACTATAGTATAGGGGATGGTGACACC-CCCATAAA
* * *
59755223 ATATTAGGATTTGTGCCCTTTACGTGATATAAGGCCAAGTTA
516 ACATTAGG-TTTGTGCCCCTTATGTGATATAAGGCCAAGTTA
* * * * * *
59755265 TCTAGTTGGCGGATGCCGTATATAAATGTTTTATACTTGACTTTTGTTTTTACCCCACAGCCGTA
1 GCTAGTTGGCGGATGCC-TATATAAATATTTTGTACTTAACTTTTGTTTTTACCCCACAACCATA
* *
59755330 TTGTTTTTGTCTTAAAGTGGAACTTCCCCTTATTATACATGTGTACACCAAACTCCCTTGATTTG
65 TTGTTTTTGTCTTAAAGTGGAACTGCCCCTTATTATACATGTGTACGCCAAACTCCCTTGATTTG
* * * *
59755395 CATATTATAAACTTGTCTTTTCTATTAAGTATATTCACCATACATGGCAGTGTATGATTTAAAGA
130 CATATTACAAACTTGCCTTTTCTATTAAGTGTATTCGCCATACATGGCAGTGTATGATTTAAAGA
* * * *
59755460 TTGTCTTTATTAATTCCTATTACTTTCTTCAAACATACGTTACTAAATGAGTCAAGAATAATGGT
195 TTGCCTTTATTAATTCCTATTACTTTCTTCAAGCATACGTTACTAAATGGGCCAAGAATAATGGT
* *
59755525 CTTTCACTAAAAGGAGAATCCTTACAACTGATTTCTCAAAGATTTAAATTAAGCCAAAGGATTTA
260 CTTTCACTAAAAGGAGAACCCTTACAACTGATTTCTCAAAGATTTAAATTAAGCCAAAGGATTTG
* * * * *
59755590 AGTCTATCTGTAACGCCCTAGTCCA-TTGGGCA-GTTTATTTGGCTGATTTGATATATGCCATGT
325 AGTCTATCAGTAACGACCTGGT-CAGTT-GGAAGGTTTGTTTGGCTGA-TTGATATATGCCATGT
*
59755653 CTCCTGACAGGCTAAGTGGTAG-TACAATAAAACATCTATTTGAATAAGGTCTAATTAAATAATA
387 CTCCTGACAGGCTAAG-GGT-GTTACAACAAAACATCTATTTGAATAAGGTCTAATTAAATAATA
* * * *
59755717 ATATTTAATAAAAAATACAATATTATAGTATAAATATAGTGTAAGGGATGGTGACACCCCCCATA
450 ATATTTAATAAAAAATACAATATTATAGTAGAACTATAGTATAGGGGATGGTGACA-CCCCCATA
* **
59755782 AAACACTAGGGTTT-ACCACCCTTATGTGATATAAGGCCAAGTT
514 AAACATTA-GGTTTGTGC-CCCTTATGTGATATAAGGCCAAGTT
59755825 GGATCTTTCT
Statistics
Matches: 997, Mismatches: 103, Indels: 39
0.88 0.09 0.03
Matches are distributed among these distances:
558 6 0.01
559 190 0.19
560 276 0.28
561 355 0.36
562 165 0.17
563 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (556 bp):
GCTAGTTGGCGGATGCCTATATAAATATTTTGTACTTAACTTTTGTTTTTACCCCACAACCATAT
TGTTTTTGTCTTAAAGTGGAACTGCCCCTTATTATACATGTGTACGCCAAACTCCCTTGATTTGC
ATATTACAAACTTGCCTTTTCTATTAAGTGTATTCGCCATACATGGCAGTGTATGATTTAAAGAT
TGCCTTTATTAATTCCTATTACTTTCTTCAAGCATACGTTACTAAATGGGCCAAGAATAATGGTC
TTTCACTAAAAGGAGAACCCTTACAACTGATTTCTCAAAGATTTAAATTAAGCCAAAGGATTTGA
GTCTATCAGTAACGACCTGGTCAGTTGGAAGGTTTGTTTGGCTGATTGATATATGCCATGTCTCC
TGACAGGCTAAGGGTGTTACAACAAAACATCTATTTGAATAAGGTCTAATTAAATAATAATATTT
AATAAAAAATACAATATTATAGTAGAACTATAGTATAGGGGATGGTGACACCCCCATAAAACATT
AGGTTTGTGCCCCTTATGTGATATAAGGCCAAGTTA
Found at i:59757135 original size:16 final size:16
Alignment explanation
Indices: 59757116--59757147 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
59757106 TTTAAATTAA
*
59757116 TTAATTAATTAATTTT
1 TTAATTAAATAATTTT
59757132 TTAATTAAATAATTTT
1 TTAATTAAATAATTTT
59757148 CTCAACCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTAATTAAATAATTTT
Found at i:59757200 original size:51 final size:51
Alignment explanation
Indices: 59757140--59757245 Score: 203
Period size: 51 Copynumber: 2.1 Consensus size: 51
59757130 TTTTAATTAA
59757140 ATAATTTTCTCAACCCAATTCTAATTTTGTTAAGGTCATGACGACTTTACT
1 ATAATTTTCTCAACCCAATTCTAATTTTGTTAAGGTCATGACGACTTTACT
*
59757191 ATAATTTTCTCAACCCAATTCTAATTTTGTTAAGGTCATGATGACTTTACT
1 ATAATTTTCTCAACCCAATTCTAATTTTGTTAAGGTCATGACGACTTTACT
59757242 ATAA
1 ATAA
59757246 AAGAATCTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (51 bp):
ATAATTTTCTCAACCCAATTCTAATTTTGTTAAGGTCATGACGACTTTACT
Found at i:59759975 original size:28 final size:30
Alignment explanation
Indices: 59759927--59759984 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 30
59759917 CAAAGTTACA
*
59759927 TGTGTGACACATTTATATTAA-A-AAAAAT
1 TGTGTGACACATTCATATTAAGATAAAAAT
59759955 TGTGTGACACATTCACT-TTAAGATAAAAAT
1 TGTGTGACACATTCA-TATTAAGATAAAAAT
59759985 AATAATAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 18 0.69
29 2 0.08
30 6 0.23
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.34
Consensus pattern (30 bp):
TGTGTGACACATTCATATTAAGATAAAAAT
Found at i:59762458 original size:16 final size:16
Alignment explanation
Indices: 59762425--59762458 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
59762415 ACCAACTGTT
* *
59762425 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
59762441 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
59762457 AA
1 AA
59762459 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:59765285 original size:21 final size:21
Alignment explanation
Indices: 59765259--59765299 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
59765249 AGACGAGCAA
* *
59765259 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
59765280 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
59765300 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:59767238 original size:16 final size:16
Alignment explanation
Indices: 59767205--59767238 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
59767195 GGAGATTGTT
* *
59767205 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
59767221 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
59767237 AA
1 AA
59767239 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:59776411 original size:21 final size:21
Alignment explanation
Indices: 59776387--59776456 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
59776377 CACATACATC
59776387 ATGAACTCAGACCATAACTCA
1 ATGAACTCAGACCATAACTCA
** *
59776408 ATGAGTTCAGATGCCATATATATC-
1 ATGAACTCAGA--CCATA-A-CTCA
*
59776432 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCATAACTCA
59776453 ATGA
1 ATGA
59776457 GTTCAGATCA
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
20 2 0.05
21 14 0.38
22 4 0.11
23 5 0.14
24 10 0.27
25 2 0.05
ACGTcount: A:0.40, C:0.24, G:0.13, T:0.23
Consensus pattern (21 bp):
ATGAACTCAGACCATAACTCA
Found at i:59776462 original size:21 final size:21
Alignment explanation
Indices: 59776393--59776468 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 21
59776383 CATCATGAAC
*
59776393 TCAGACCATAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* * **
59776414 TCAGATGCCATATATATC-ATGAAC
1 TCAGA--CCACA-A-CTCAATGAGT
59776438 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
*
59776459 TCAGATCACA
1 TCAGACCACA
59776469 TAGTTCCTAG
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
20 2 0.05
21 19 0.45
22 4 0.10
23 5 0.12
24 10 0.24
25 2 0.05
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:59780790 original size:44 final size:46
Alignment explanation
Indices: 59780537--59780798 Score: 135
Period size: 47 Copynumber: 5.7 Consensus size: 46
59780527 TGATTTGTGC
* * * * * *
59780537 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATA-AGA
1 GCCAGTGTAAGACATGTCTGGGACACGCATCGGCCTCA-CAGAGATA
* * * * * * * *
59780583 GCTAGTGTGAGACCATGTCTAGGACATGGCATCGACATC-CAGACAAGA
1 GCCAGTGTAAGA-CATGTCTGGGACA-CGCATCGGCCTCACAGA-GATA
* * * * * *
59780631 GCTAGTGTAAGACATGTCTGGAACATGCTTCAGCCAT-ATTATGAG-T-
1 GCCAGTGTAAGACATGTCTGGGACACGCATCGGCC-TCA-CA-GAGATA
* *
59780677 GCCAGAGTAAGACATGTCTGGGACAGGCATCGGCCTCGACAGAGATA
1 GCCAGTGTAAGACATGTCTGGGACACGCATCGGCCTC-ACAGAGATA
* * * *
59780724 GCCAGTGTAAGACGTGTTTGGGACACGCATCGG-CT-A-AGAGTTGT
1 GCCAGTGTAAGACATGTCTGGGACACGCATCGGCCTCACAGAGAT-A
* *
59780768 GCTAGTGTAAGACATGTCTGGGACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACACGCATC
59780799 AGCACGCATA
Statistics
Matches: 165, Mismatches: 38, Indels: 28
0.71 0.16 0.12
Matches are distributed among these distances:
43 5 0.03
44 28 0.17
45 4 0.02
46 50 0.30
47 54 0.33
48 22 0.13
49 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACACGCATCGGCCTCACAGAGATA
Found at i:59797753 original size:46 final size:44
Alignment explanation
Indices: 59797702--59797821 Score: 134
Period size: 46 Copynumber: 2.6 Consensus size: 44
59797692 GATGAGTGCT
*
59797702 AGTGTAAGACATGTCTGGGATATGCATCGGCCT-CGAGACGTAAACC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGACGT--ACC
* * * **
59797748 AGTGTAAGACATGTTTGGGACATGCATTGGCTACGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGTACC
59797792 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
59797822 AGTACAGATA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
44 10 0.16
45 15 0.24
46 38 0.60
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGTACC
Done.