Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 280 of 343
Found at i:92904336 original size:104 final size:105
Alignment explanation
Indices: 92904086--92904636 Score: 540
Period size: 105 Copynumber: 5.3 Consensus size: 105
92904076 ATTGTTTATC
* * * **
92904086 TTAAATCAGCTAACTTAAAGAAATTTAGGTTGTGATATTAAATCAGTTAACCTTTATAATTCCAG
1 TTAAATCAGCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAACTAACCTTTATAATTCCAG
* * * * *
92904151 GTGTGAACGTAGGTTAGCA-AACTGTTTAGGAGTTGTGATC
66 CTGTGAATGTAGGTCAG-AGAGCTGTTTAGGAGTTGTGATA
* * ** * * *
92904191 TTGAATTAATTAACTCAAAGAAATTTATGTTGCGATCTTAAATCAACTAACCTTTATAATTCTAA
1 TTAAATCAGCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAACTAACCTTTATAATTCCAG
* ** *
92904256 CTGTGAACGTAGGTCAGAGAGCT-TTTAGGAGTTGCAATG
66 CTGTGAATGTAGGTCAGAGAGCTGTTTAGGAGTTGTGATA
* * * *
92904295 TTAAATCATCTAACTCAAAGAAGTTTAGGTTGCAATCTTAAATCAACTAACCTTTATAATTCTAG
1 TTAAATCAGCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAACTAACCTTTATAATTCCAG
* *
92904360 CCGTGAATGTAGGTCA-ACAAGCTGTTTAGGAGTTGTGATA
66 CTGTGAATGTAGGTCAGA-GAGCTGTTTAGGAGTTGTGATA
* * *
92904400 TTAAATCGGCTAACTCAACA-AAATTTAGGCTGCAATCTTAAATCAGA-TAACCTTTATAATTCC
1 TTAAATCAGCTAACTCAA-AGAAATTTAGGTTGCGATCTTAAATCA-ACTAACCTTTATAATTCC
** * ** * *
92904463 ATTTGTGAATGTAAGTTTGCGAGTTGTTTAGGAGTTGTGATA
64 AGCTGTGAATGTAGGTCAGAGAGCTGTTTAGGAGTTGTGATA
** * * ** * *
92904505 TTAAATCAATTAACTCAAAGAAAATTA-GTTGCGATCTTAAATTAGTTAACTTTTATAGTTCCAG
1 TTAAATCAGCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAACTAACCTTTATAATTCCAG
* * * * *
92904569 TTGTGAATGTAGG-CTTGCGAGCTATTTAGGAGTTGCGATA
66 CTGTGAATGTAGGTC-AGAGAGCTGTTTAGGAGTTGTGATA
* *
92904609 TTAAGTTAGCTAACTCAAAGAAATTTAG
1 TTAAATCAGCTAACTCAAAGAAATTTAG
92904637 ACATGAACAT
Statistics
Matches: 369, Mismatches: 67, Indels: 20
0.81 0.15 0.04
Matches are distributed among these distances:
103 1 0.00
104 175 0.47
105 191 0.52
106 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (105 bp):
TTAAATCAGCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAACTAACCTTTATAATTCCAG
CTGTGAATGTAGGTCAGAGAGCTGTTTAGGAGTTGTGATA
Found at i:92904453 original size:209 final size:210
Alignment explanation
Indices: 92904086--92904636 Score: 610
Period size: 209 Copynumber: 2.6 Consensus size: 210
92904076 ATTGTTTATC
* * * *
92904086 TTAAATCAGCTAACTTAAAGAAATTTAGGTTGTGATATTAAATCAGTTAACCTTTATAATTCCAG
1 TTAAATCATCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAGTTAACCTTTATAATTCCAG
* * * * * * **
92904151 GTGTGAACGTAGGTTAGCAAACTGTTTAGGAGTTGTGATCTTGAATTAATTAACTCAAAGAAATT
66 CTGTGAATGTAGGTCAGCAAGCTGTTTAGGAGTTGTGATATTAAATTAGCTAACTCAAAGAAATT
* * * * *
92904216 TATGTTGCGATCTTAAATCAACTAACCTTTATAATTCTAACTGTGAACGTAGGTCAGAGAGCT-T
131 TAGGCTGCAATCTTAAATCAACTAACCTTTATAATTCCAACTGTGAACGTAAGTCAGAGAGCTGT
*
92904280 TTAGGAGTTGCAATG
196 TTAGGAGTTGCAATA
* * ** *
92904295 TTAAATCATCTAACTCAAAGAAGTTTAGGTTGCAATCTTAAATCAACTAACCTTTATAATTCTAG
1 TTAAATCATCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAGTTAACCTTTATAATTCCAG
* * **
92904360 CCGTGAATGTAGGTCAACAAGCTGTTTAGGAGTTGTGATATTAAATCGGCTAACTCAACA-AAAT
66 CTGTGAATGTAGGTCAGCAAGCTGTTTAGGAGTTGTGATATTAAATTAGCTAACTCAA-AGAAAT
** * ** * *
92904424 TTAGGCTGCAATCTTAAATCAGA-TAACCTTTATAATTCCATTTGTGAATGTAAGTTTGCGAGTT
130 TTAGGCTGCAATCTTAAATCA-ACTAACCTTTATAATTCCAACTGTGAACGTAAGTCAGAGAGCT
**
92904488 GTTTAGGAGTTGTGATA
194 GTTTAGGAGTTGCAATA
* * * *
92904505 TTAAATCAAT-TAACTCAAAGAAAATTA-GTTGCGATCTTAAATTAGTTAACTTTTATAGTTCCA
1 TTAAATC-ATCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAGTTAACCTTTATAATTCCA
* * * * * *
92904568 GTTGTGAATGTAGG-CTTGCGAGCTATTTAGGAGTTGCGATATTAAGTTAGCTAACTCAAAGAAA
65 GCTGTGAATGTAGGTC-AGCAAGCTGTTTAGGAGTTGTGATATTAAATTAGCTAACTCAAAGAAA
92904632 TTTAG
129 TTTAG
92904637 ACATGAACAT
Statistics
Matches: 281, Mismatches: 55, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
208 2 0.01
209 240 0.85
210 37 0.13
211 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (210 bp):
TTAAATCATCTAACTCAAAGAAATTTAGGTTGCGATCTTAAATCAGTTAACCTTTATAATTCCAG
CTGTGAATGTAGGTCAGCAAGCTGTTTAGGAGTTGTGATATTAAATTAGCTAACTCAAAGAAATT
TAGGCTGCAATCTTAAATCAACTAACCTTTATAATTCCAACTGTGAACGTAAGTCAGAGAGCTGT
TTAGGAGTTGCAATA
Found at i:92912058 original size:32 final size:32
Alignment explanation
Indices: 92912017--92912084 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
92912007 CCCCTTAACC
*
92912017 CCGCACCACCCTCTCAGCCCGACCAGCCACCA
1 CCGCACCACCCTCTCAACCCGACCAGCCACCA
*
92912049 CCGCACCACCCTCTCAACCCGACTAGCCACCA
1 CCGCACCACCCTCTCAACCCGACCAGCCACCA
92912081 CCGC
1 CCGC
92912085 TCGCTCCAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.22, C:0.59, G:0.12, T:0.07
Consensus pattern (32 bp):
CCGCACCACCCTCTCAACCCGACCAGCCACCA
Found at i:92913592 original size:12 final size:12
Alignment explanation
Indices: 92913577--92913616 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
92913567 TGTCTTTAGA
*
92913577 TTTATTTTTCTT
1 TTTATTTTTCAT
92913589 TTTATTTTTCAT
1 TTTATTTTTCAT
*
92913601 TTTATGTTT-AT
1 TTTATTTTTCAT
92913612 TTTAT
1 TTTAT
92913617 CCTTAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 7 0.27
12 19 0.73
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.78
Consensus pattern (12 bp):
TTTATTTTTCAT
Found at i:92922221 original size:18 final size:18
Alignment explanation
Indices: 92922195--92922233 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
92922185 ATTCTTTAAT
*
92922195 TATACTATAATAGAATAA
1 TATAATATAATAGAATAA
*
92922213 TATAATATAATATAATAA
1 TATAATATAATAGAATAA
92922231 TAT
1 TAT
92922234 TTTCTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
TATAATATAATAGAATAA
Found at i:92924268 original size:43 final size:43
Alignment explanation
Indices: 92924202--92924368 Score: 160
Period size: 43 Copynumber: 3.9 Consensus size: 43
92924192 AGCTCATACA
* * *
92924202 ATGCC-ATGTCCCAGATATAGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * * * *
92924244 ATGCCACTGTCCTAGACATGGTCTTACATGAAATCGA-TTAACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATC-ACATATCG
* * * * *
92924287 ATGCCAATGTCCCAGATATGGTTTTACACGTAATCTCA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT-CG
* *
92924330 ATTCCAATGTCCTAGACATGGTCTTACATGTAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
92924369 CTTGATAACT
Statistics
Matches: 96, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
42 6 0.06
43 89 0.93
44 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:92924352 original size:86 final size:85
Alignment explanation
Indices: 92924202--92924364 Score: 220
Period size: 86 Copynumber: 1.9 Consensus size: 85
92924192 AGCTCATACA
* * * *
92924202 ATGCCATGTCCCAGATATAGTCTTACATGTTATCACATATCGATGCCACTGTCCTAGACATGGTC
1 ATGCCATGTCCCAGATATAGTCTTACACGTAATCACATATCAATGCCAATGTCCTAGACATGGTC
92924267 TTACATGAAATCGATTAACG
66 TTACATGAAATCGATTAACG
* * * *
92924287 ATGCCAATGTCCCAGATATGGTTTTACACGTAATCTCA-ATACAATTCCAATGTCCTAGACATGG
1 ATGCC-ATGTCCCAGATATAGTCTTACACGTAATCACATAT-CAATGCCAATGTCCTAGACATGG
*
92924351 TCTTACATGTAATC
64 TCTTACATGAAATC
92924365 ACATCTTGAT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
85 7 0.10
86 60 0.90
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (85 bp):
ATGCCATGTCCCAGATATAGTCTTACACGTAATCACATATCAATGCCAATGTCCTAGACATGGTC
TTACATGAAATCGATTAACG
Found at i:92929621 original size:61 final size:61
Alignment explanation
Indices: 92929551--92929674 Score: 221
Period size: 61 Copynumber: 2.0 Consensus size: 61
92929541 AAGTGAAGTC
*
92929551 TAGGTGGATTCTTTCTTGGGTATTATCTCTCTCATTGGTTCATTAGATTATTTTCTTACTT
1 TAGGTGGATTCTTTCTTAGGTATTATCTCTCTCATTGGTTCATTAGATTATTTTCTTACTT
* *
92929612 TAGGTGGATTCTTTCTTAGGTATTGTCTCTCTCATTGGTTTATTAGATTATTTTCTTACTT
1 TAGGTGGATTCTTTCTTAGGTATTATCTCTCTCATTGGTTCATTAGATTATTTTCTTACTT
92929673 TA
1 TA
92929675 TTCTCTGTCG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.17, C:0.14, G:0.16, T:0.53
Consensus pattern (61 bp):
TAGGTGGATTCTTTCTTAGGTATTATCTCTCTCATTGGTTCATTAGATTATTTTCTTACTT
Found at i:92949960 original size:113 final size:113
Alignment explanation
Indices: 92949757--92949982 Score: 434
Period size: 113 Copynumber: 2.0 Consensus size: 113
92949747 ATATCGAGTC
*
92949757 CCGTTTGAACCTTAGGAATCTGTAGGATACAAGTGACATGTCATTAGGGTTACATGATTTGAGTA
1 CCGTTTGAACCTTAGGAATCCGTAGGATACAAGTGACATGTCATTAGGGTTACATGATTTGAGTA
92949822 CTGGTCTTGAACGTCCTACTAATAGCTGAGGTCCTACATGTGTTTGGA
66 CTGGTCTTGAACGTCCTACTAATAGCTGAGGTCCTACATGTGTTTGGA
92949870 CCGTTTGAACCTTAGGAATCCGTAGGATACAAGTGACATGTCATTAGGGTTACATGATTTGAGTA
1 CCGTTTGAACCTTAGGAATCCGTAGGATACAAGTGACATGTCATTAGGGTTACATGATTTGAGTA
*
92949935 CTGGTCTTGAACGTCCTACTGATAGCTGAGGTCCTACATGTGTTTGGA
66 CTGGTCTTGAACGTCCTACTAATAGCTGAGGTCCTACATGTGTTTGGA
92949983 ATACTCCACA
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
113 111 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (113 bp):
CCGTTTGAACCTTAGGAATCCGTAGGATACAAGTGACATGTCATTAGGGTTACATGATTTGAGTA
CTGGTCTTGAACGTCCTACTAATAGCTGAGGTCCTACATGTGTTTGGA
Found at i:92950074 original size:25 final size:25
Alignment explanation
Indices: 92950046--92950114 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
92950036 TCATATGAGT
*
92950046 ATACCGATTTACAGATCGTGAGAGC
1 ATACCGATTTACAGCTCGTGAGAGC
* *
92950071 ATACCGATCTT-CAGCTCGAGTGAGC
1 ATACCGAT-TTACAGCTCGTGAGAGC
* *
92950096 ATATCGATTCACAGCTCGT
1 ATACCGATTTACAGCTCGT
92950115 ATAAGCATAC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
24 1 0.03
25 33 0.92
26 2 0.06
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (25 bp):
ATACCGATTTACAGCTCGTGAGAGC
Found at i:92951889 original size:20 final size:20
Alignment explanation
Indices: 92951807--92951892 Score: 91
Period size: 20 Copynumber: 4.3 Consensus size: 20
92951797 GGGTGTTACA
* *
92951807 CTGTTTGTATTTCGGTACCT
1 CTGTTTGTACTTCGGTACCC
* *
92951827 CTATTTGTACTTTGGTACCC
1 CTGTTTGTACTTCGGTACCC
* * * *
92951847 TTATTTGTACTTTGGTACTC
1 CTGTTTGTACTTCGGTACCC
*
92951867 CTGTTTGTACTTCGATACCC
1 CTGTTTGTACTTCGGTACCC
92951887 CTGTTT
1 CTGTTT
92951893 ACACACTCGT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.13, C:0.22, G:0.16, T:0.49
Consensus pattern (20 bp):
CTGTTTGTACTTCGGTACCC
Found at i:92953013 original size:38 final size:38
Alignment explanation
Indices: 92952937--92953112 Score: 183
Period size: 38 Copynumber: 4.5 Consensus size: 38
92952927 TTCGTGTAAC
* * * * *
92952937 ACCAGCACGAAGCCTACGAGACTTTAAACTCAGTTATAAT
1 ACCAGCACTAAGCCTGCGGGA-TTT-AACTCGGATATAAT
*
92952977 ACCAGCACTAGGCCTGCGGGATTTAACTCGGATATAAT
1 ACCAGCACTAAGCCTGCGGGATTTAACTCGGATATAAT
* * *
92953015 ACCAGCA-TGAAGCCTGCGAGATTTAACCCGGATATATT
1 ACCAGCACT-AAGCCTGCGGGATTTAACTCGGATATAAT
* *
92953053 ACCAGCACGAAGCCTGCGGGACTTTAAACTCAGATATAAT
1 ACCAGCACTAAGCCTGCGGGA-TTT-AACTCGGATATAAT
* *
92953093 ACTAGCACTAGGCCTGCGGG
1 ACCAGCACTAAGCCTGCGGG
92953113 TCTTTAAGCC
Statistics
Matches: 114, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
37 1 0.01
38 62 0.54
39 6 0.05
40 45 0.39
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
ACCAGCACTAAGCCTGCGGGATTTAACTCGGATATAAT
Found at i:92953083 original size:78 final size:78
Alignment explanation
Indices: 92952937--92953100 Score: 206
Period size: 78 Copynumber: 2.1 Consensus size: 78
92952927 TTCGTGTAAC
* * * *
92952937 ACCAGCACGAAGCCTACGAGACTTTAAACTCAGTTATAATACCAGCACTAGGCCTGCGGGATTTA
1 ACCAGCACGAAGCCTACGAGACTTTAAACCCAGATATAATACCAGCACGAAGCCTGCGGGATTTA
*
92953002 ACTCGGATATAAT
66 ACTCAGATATAAT
* * * *
92953015 ACCAGCATGAAGCCTGCGAGA-TTT-AACCCGGATATATTACCAGCACGAAGCCTGCGGGACTTT
1 ACCAGCACGAAGCCTACGAGACTTTAAACCCAGATATAATACCAGCACGAAGCCTGCGGGA-TTT
92953078 AAACTCAGATATAAT
65 -AACTCAGATATAAT
*
92953093 ACTAGCAC
1 ACCAGCAC
92953101 TAGGCCTGCG
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
76 29 0.40
77 6 0.08
78 38 0.52
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.22
Consensus pattern (78 bp):
ACCAGCACGAAGCCTACGAGACTTTAAACCCAGATATAATACCAGCACGAAGCCTGCGGGATTTA
ACTCAGATATAAT
Found at i:92957746 original size:23 final size:26
Alignment explanation
Indices: 92957720--92957768 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
92957710 GCATTTCAAT
92957720 TAAAA-TTTTATTT-TA-ATTTTATA
1 TAAAATTTTTATTTATATATTTTATA
92957743 TAAAATTTTTATTTATATATTTTATA
1 TAAAATTTTTATTTATATATTTTATA
92957769 AAATTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.22
24 8 0.35
25 2 0.09
26 8 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
TAAAATTTTTATTTATATATTTTATA
Found at i:92957786 original size:24 final size:23
Alignment explanation
Indices: 92957720--92957778 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
92957710 GCATTTCAAT
92957720 TAAAATTTTATTTTAAT-TTTATA
1 TAAAA-TTTATTTTAATATTTATA
*
92957743 TAAAATTTTTATTTATATATTT-TA
1 TAAAATTTAT-TTTA-ATATTTATA
92957767 TAAAATTTATTT
1 TAAAATTTATTT
92957779 CTACATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 4 0.13
23 11 0.35
24 13 0.42
25 3 0.10
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TAAAATTTATTTTAATATTTATA
Found at i:92959619 original size:87 final size:87
Alignment explanation
Indices: 92959517--92959691 Score: 332
Period size: 87 Copynumber: 2.0 Consensus size: 87
92959507 TATAGGCTAA
*
92959517 TGTTGTAGTGGAGCCGAACTTGAATAATGGGTAAGCTAGAGCTCAATCAAGCTTAATTCACGATT
1 TGTTGGAGTGGAGCCGAACTTGAATAATGGGTAAGCTAGAGCTCAATCAAGCTTAATTCACGATT
*
92959582 TTAGCTTCACTCGGATATTAAT
66 TTAACTTCACTCGGATATTAAT
92959604 TGTTGGAGTGGAGCCGAACTTGAATAATGGGTAAGCTAGAGCTCAATCAAGCTTAATTCACGATT
1 TGTTGGAGTGGAGCCGAACTTGAATAATGGGTAAGCTAGAGCTCAATCAAGCTTAATTCACGATT
92959669 TTAACTTCACTCGGATATTAAT
66 TTAACTTCACTCGGATATTAAT
92959691 T
1 T
92959692 TTTAAGCTAC
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (87 bp):
TGTTGGAGTGGAGCCGAACTTGAATAATGGGTAAGCTAGAGCTCAATCAAGCTTAATTCACGATT
TTAACTTCACTCGGATATTAAT
Found at i:92962380 original size:5 final size:6
Alignment explanation
Indices: 92962366--92962390 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
92962356 CATTAATCAA
92962366 TTTTCT TTTTCT TTTTCT TTTTCT T
1 TTTTCT TTTTCT TTTTCT TTTTCT T
92962391 AATAGTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:92966526 original size:43 final size:44
Alignment explanation
Indices: 92966397--92966526 Score: 133
Period size: 43 Copynumber: 3.0 Consensus size: 44
92966387 CATAGAATTC
* * *
92966397 CGATATGTGATTT-CTTGTAAGACCACATCTGGGATGTTA-GCAT
1 CGATGTGTGATTTACATGTAAGACCACATCTGGGACG-TAGGCAT
* * * * *
92966440 CGATTTGTGATTTACGTGTAAGACCATATCTGGGACATTGGCAT
1 CGATGTGTGATTTACATGTAAGACCACATCTGGGACGTAGGCAT
*
92966484 CGATAGT-TGA-TTACATGTAAGACCACGTCTGGGACGTAGGCAT
1 CGAT-GTGTGATTTACATGTAAGACCACATCTGGGACGTAGGCAT
92966527 TGTACGAGCT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
43 41 0.57
44 30 0.42
45 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (44 bp):
CGATGTGTGATTTACATGTAAGACCACATCTGGGACGTAGGCAT
Found at i:92980552 original size:9 final size:9
Alignment explanation
Indices: 92980540--92980573 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
92980530 GTATTTCATA
92980540 AATTTTTTT
1 AATTTTTTT
92980549 AATTTTTTT
1 AATTTTTTT
*
92980558 AATTTTTAT
1 AATTTTTTT
92980567 AATTTTT
1 AATTTTT
92980574 CTTCTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
AATTTTTTT
Found at i:92982184 original size:21 final size:22
Alignment explanation
Indices: 92982158--92982208 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
92982148 ATGAGCGAAT
92982158 TAAAATAAACATAT-AACA-ATC
1 TAAAATAAACATATGAA-AGATC
*
92982179 TAAAAT-AACATATGAAAGGTC
1 TAAAATAAACATATGAAAGATC
92982200 TAAAATAAA
1 TAAAATAAA
92982209 TAACAAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 8 0.31
21 16 0.62
22 2 0.08
ACGTcount: A:0.61, C:0.10, G:0.06, T:0.24
Consensus pattern (22 bp):
TAAAATAAACATATGAAAGATC
Found at i:92988166 original size:13 final size:13
Alignment explanation
Indices: 92988148--92988172 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92988138 AAGATCGTCG
92988148 AGGATTAAATCCA
1 AGGATTAAATCCA
92988161 AGGATTAAATCC
1 AGGATTAAATCC
92988173 GAAGAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (13 bp):
AGGATTAAATCCA
Found at i:92988235 original size:16 final size:17
Alignment explanation
Indices: 92988209--92988240 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
92988199 TAACTCAAGC
92988209 TTTATATTTAATATGTG
1 TTTATATTTAATATGTG
92988226 TTTA-ATTTAATATGT
1 TTTATATTTAATATGT
92988241 ATGTGTGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (17 bp):
TTTATATTTAATATGTG
Found at i:92988679 original size:45 final size:45
Alignment explanation
Indices: 92988629--92988744 Score: 160
Period size: 45 Copynumber: 2.6 Consensus size: 45
92988619 TGACTACTGT
* *
92988629 TACTATTACCGTTACTGTTACCGATTCAACACTTTGTGTGTCAAA
1 TACTATTACCGTTACTGTTACAGATTCAACACTTTGTATGTCAAA
* **
92988674 TACTATTACCGTTACTGTTACAGATTCAGCACTTTGTATGTTGAA
1 TACTATTACCGTTACTGTTACAGATTCAACACTTTGTATGTCAAA
* * *
92988719 TACTGTTACTGTTACTGTTACTGATT
1 TACTATTACCGTTACTGTTACAGATT
92988745 ACTATTTAGG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (45 bp):
TACTATTACCGTTACTGTTACAGATTCAACACTTTGTATGTCAAA
Found at i:92988736 original size:12 final size:13
Alignment explanation
Indices: 92988719--92988747 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
92988709 GTATGTTGAA
92988719 TACTGTTACTG-T
1 TACTGTTACTGAT
92988731 TACTGTTACTGAT
1 TACTGTTACTGAT
92988744 TACT
1 TACT
92988748 ATTTAGGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (13 bp):
TACTGTTACTGAT
Found at i:92994762 original size:12 final size:13
Alignment explanation
Indices: 92994745--92994821 Score: 51
Period size: 12 Copynumber: 6.2 Consensus size: 13
92994735 TATTTAGATT
92994745 TTATATATTA-TA
1 TTATATATTATTA
92994757 TTATATAATTGATTA
1 TTATAT-ATT-ATTA
92994772 TTATA-ATTATTA
1 TTATATATTATTA
*
92994784 --AT-TGTTA-TA
1 TTATATATTATTA
*
92994793 GTTTTATATTATTA
1 -TTATATATTATTA
*
92994807 TTA-GTATTATTA
1 TTATATATTATTA
92994819 TTA
1 TTA
92994822 AATAAATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
9 2 0.04
10 5 0.10
12 22 0.43
13 12 0.24
14 3 0.06
15 7 0.14
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.58
Consensus pattern (13 bp):
TTATATATTATTA
Found at i:92994773 original size:20 final size:19
Alignment explanation
Indices: 92994750--92994791 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
92994740 AGATTTTATA
92994750 TATTAT-ATTATATAATTGAT
1 TATTATAATTAT-TAATTG-T
92994770 TATTATAATTATTAATTGT
1 TATTATAATTATTAATTGT
92994789 TAT
1 TAT
92994792 AGTTTTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 12 0.57
21 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TATTATAATTATTAATTGT
Found at i:92994819 original size:20 final size:19
Alignment explanation
Indices: 92994745--92994819 Score: 52
Period size: 20 Copynumber: 3.9 Consensus size: 19
92994735 TATTTAGATT
92994745 TTATATATTATATTA-TATAA
1 TTAT-TATTATATTATTAT-A
92994765 TTGATTATTATAATTATTA-A
1 TT-ATTATTAT-ATTATTATA
* *
92994785 TTGTTA-TA-GTT-TTATA
1 TTATTATTATATTATTATA
92994801 TTATTATTAGTATTATTAT
1 TTATTATTA-TATTATTAT
92994820 TAAATAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 16
0.68 0.06 0.25
Matches are distributed among these distances:
15 3 0.07
16 8 0.19
17 2 0.05
18 2 0.05
19 5 0.12
20 15 0.35
21 6 0.14
22 2 0.05
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TTATTATTATATTATTATA
Found at i:92995356 original size:17 final size:18
Alignment explanation
Indices: 92995324--92995357 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
92995314 CAGAGGAGAA
*
92995324 AAAGAGAAAGATAAAGGG
1 AAAGAGAAAGAAAAAGGG
92995342 AAAGA-AAAGAAAAAGG
1 AAAGAGAAAGAAAAAGG
92995358 AAAAACTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (18 bp):
AAAGAGAAAGAAAAAGGG
Found at i:92996410 original size:45 final size:45
Alignment explanation
Indices: 92996344--92996437 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
92996334 ATGTGCTGAC
*
92996344 TACTGTTACTGATTCGACACTTTGTGTGTCGAATACTATTACTGT
1 TACTGTTACAGATTCGACACTTTGTGTGTCGAATACTATTACTGT
* *
92996389 TACTGTTACAGATTC-AGCACTTTGTGTGTTGAATACTGTTACTGT
1 TACTGTTACAGATTCGA-CACTTTGTGTGTCGAATACTATTACTGT
92996434 TACT
1 TACT
92996438 TCTACTGTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 1 0.02
45 44 0.98
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (45 bp):
TACTGTTACAGATTCGACACTTTGTGTGTCGAATACTATTACTGT
Found at i:93001072 original size:15 final size:16
Alignment explanation
Indices: 93001038--93001073 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
93001028 AGAGAATTTT
*
93001038 AAAATAGACAAATTAC
1 AAAATAGACAAATTAA
93001054 AAAATAGAC-AATTAA
1 AAAATAGACAAATTAA
93001069 AAAAT
1 AAAAT
93001074 GTATTCACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.67, C:0.08, G:0.06, T:0.19
Consensus pattern (16 bp):
AAAATAGACAAATTAA
Found at i:93003046 original size:47 final size:46
Alignment explanation
Indices: 93002906--93003193 Score: 136
Period size: 45 Copynumber: 6.4 Consensus size: 46
93002896 CGCTCCGTTT
93002906 CAACTTCAGGGAGAT-AGGATTG-GTAATCTTCAGTATGCTCCACTG
1 CAACTTCAGGGAGATAAGGATTGTGT-ATCTTCAGTATGCTCCACTG
* * *** *
93002951 CAACTTCAGGGAGATAA-GACCTGT-CA-CTTCAACCTGTTCCACTG
1 CAACTTCAGGGAGATAAGGA-TTGTGTATCTTCAGTATGCTCCACTG
* * * *
93002995 CAACTTCAGCGAGATAAGGTTTGTGTATTCTTCAGTTTGCTCCACTA
1 CAACTTCAGGGAGATAAGGATTGTGTA-TCTTCAGTATGCTCCACTG
* * * ** *** * *
93003042 CAACTTCAAGAAGATAA-AACTT-ACTA-CTTCAACCTGCTCTATTG
1 CAACTTCAGGGAGATAAGGA-TTGTGTATCTTCAGTATGCTCCACTG
* * * * **
93003086 CAACTTCAGAGAGGTAAGG-TT-TGCTTTCTTCGATCTAT--TCTGCTG
1 CAACTTCAGGGAGATAAGGATTGTG-TATCTTC-A-GTATGCTCCACTG
* * * *
93003131 CAACTTCAAGGAGATAA-GATTG-GTAATCTTCAGTCTACTCCGCTG
1 CAACTTCAGGGAGATAAGGATTGTGT-ATCTTCAGTATGCTCCACTG
93003176 CAACTTCAGGGAGATAAG
1 CAACTTCAGGGAGATAAG
93003194 ACTGGTGGCT
Statistics
Matches: 175, Mismatches: 49, Indels: 37
0.67 0.19 0.14
Matches are distributed among these distances:
43 4 0.02
44 62 0.35
45 73 0.42
46 6 0.03
47 30 0.17
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (46 bp):
CAACTTCAGGGAGATAAGGATTGTGTATCTTCAGTATGCTCCACTG
Found at i:93003071 original size:91 final size:90
Alignment explanation
Indices: 93002906--93003108 Score: 241
Period size: 91 Copynumber: 2.3 Consensus size: 90
93002896 CGCTCCGTTT
* * * * *
93002906 CAACTTCAGGGAGAT-AGGATTGGTAATCTTCAGTATGCTCCACTGCAACTTCAGGGAGATAAGA
1 CAACTTCAGAGAGATAAGGTTTGGTAATCTTCAGTATGCTCCACTACAACTTCAAGAAGATAAGA
* *
93002970 CCTGTCACTTCAACCTGTTCCACTG
66 ACTGTCACTTCAACCTGCTCCACTG
* * *
93002995 CAACTTCAGCGAGATAAGGTTTGTGTATTCTTCAGTTTGCTCCACTACAACTTCAAGAAGATAA-
1 CAACTTCAGAGAGATAAGGTTTG-GTAATCTTCAGTATGCTCCACTACAACTTCAAGAAGATAAG
* *
93003059 AACT-TACTACTTCAACCTGCTCTATTG
65 AACTGT-C-ACTTCAACCTGCTCCACTG
*
93003086 CAACTTCAGAGAGGTAAGGTTTG
1 CAACTTCAGAGAGATAAGGTTTG
93003109 CTTTCTTCGA
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
89 15 0.15
90 10 0.10
91 72 0.74
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (90 bp):
CAACTTCAGAGAGATAAGGTTTGGTAATCTTCAGTATGCTCCACTACAACTTCAAGAAGATAAGA
ACTGTCACTTCAACCTGCTCCACTG
Found at i:93003529 original size:223 final size:222
Alignment explanation
Indices: 93003181--93003594 Score: 652
Period size: 223 Copynumber: 1.9 Consensus size: 222
93003171 CGCTGCAACT
* * ** *
93003181 TCAGGGAGATAAGACTGGTGGCTAAAATCTGCTCCCCGCCTACCTCAGGAAGATACGATTCACTG
1 TCAGGGAGATAAGACTAGCGGCTAAAATCTGCTCCCCGCCTACCTCAGGAAGATAAAATTCACCG
* * * * *
93003246 TCTTCGATCTACTCCACTGCTATCTCAGGGAGATAATATTTTCAATCTTTAGTTTGCTTCCTTGC
66 TCTTCGATCTACTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTTCCTTGC
*
93003311 TACCTCCGGAAGATAAGACTACAATCTCCAGCCTGCCCCCTTGCTACCTCAAGGAGATAAGACTA
131 TACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCCCCCTTGCTACCTCAAGGAGATAAGACTA
93003376 CAATATCCAACCTGGCCCCTTACTACC
196 CAATATCCAACCTGGCCCCTTACTACC
*
93003403 TCAGGGAGATAAGGCTAGCGGCTAAAATCTGCTCCCCTG-CTACCTC-GGAAAGATAAAATTCAC
1 TCAGGGAGATAAGACTAGCGGCTAAAATCTGCTCCCC-GCCTACCTCAGG-AAGATAAAATTCAC
* *
93003466 CGTTTTTCGATCTGCTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTTCCT
64 CG-TCTTCGATCTACTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTTCCT
*
93003531 TGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCCCCCTTGCTACCTCAAGGAGATAAG
128 TGCTACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCCCCCTTGCTACCTCAAGGAGATAAG
93003595 GCTAATGGCT
Statistics
Matches: 174, Mismatches: 15, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
221 2 0.01
222 54 0.31
223 118 0.68
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (222 bp):
TCAGGGAGATAAGACTAGCGGCTAAAATCTGCTCCCCGCCTACCTCAGGAAGATAAAATTCACCG
TCTTCGATCTACTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTTCCTTGC
TACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCCCCCTTGCTACCTCAAGGAGATAAGACTA
CAATATCCAACCTGGCCCCTTACTACC
Found at i:93003576 original size:44 final size:44
Alignment explanation
Indices: 93003305--93003594 Score: 180
Period size: 44 Copynumber: 6.5 Consensus size: 44
93003295 TAGTTTGCTT
* *
93003305 CCTTGCTACCTCCGGAAGATAAGACTACAATCTCCAGCCTGCCC
1 CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCCC
* * * *
93003349 CCTTGCTACCTCAAGG-AGATAAGACTACAATATCCAACCTGGCC
1 CCTTGCTACCTC-AGGAAGATAAGACTACAATCTTCAGCCTGCCC
* * * ** ** **
93003393 CCTTACTACCTCAGGGAGATAAGGCTAGC-GGCTAAAATCTGCTCC
1 CCTTGCTACCTCAGGAAGATAAGACTA-CAATCTTCAGCCTGC-CC
* * ** * *
93003438 CC-TGCTACCTC-GGAAAGATAAAATTCACCGTTTTTC-GATCTGCTCC
1 CCTTGCTACCTCAGG-AAGATAAGACT-A-CAATCTTCAG-CCTGC-CC
* * * * * * **
93003484 AC-TGCTAACTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTT
1 CCTTGCTACCTCAGGAAGATAAGA-CTACAATCTTCAGCCTGCCC
93003528 CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCCC
1 CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCCC
93003572 CCTTGCTACCTCAAGG-AGATAAG
1 CCTTGCTACCTC-AGGAAGATAAG
93003595 GCTAATGGCT
Statistics
Matches: 190, Mismatches: 43, Indels: 26
0.73 0.17 0.10
Matches are distributed among these distances:
43 5 0.03
44 115 0.61
45 40 0.21
46 27 0.14
47 3 0.02
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (44 bp):
CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCCC
Found at i:93003627 original size:223 final size:217
Alignment explanation
Indices: 93003164--93003627 Score: 599
Period size: 223 Copynumber: 2.1 Consensus size: 217
93003154 TAATCTTCAG
* * * * *
93003164 TCTACTCCGCTGCAACTTCAGGGAGATAAGACTGGTGGCTAAAATCTGCTCCCCGCCTACCTCAG
1 TCTACTCCCCTGCTACCTCAGGGAGATAAGACTAGCGGCTAAAATCTGCTCCCCGCCTACCTCAG
** * * * *
93003229 GAAGATACGATTCACTGTCTTCGATCTACTCCACTGCTATCTCAGGGAGATAATATTTTCAATCT
66 GAAGATAAAATTCACCGTCTTCGATCTACTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCT
* * *
93003294 TTAGTTTGCTTCCTTGCTACCTCCGGAAGATAAGACTACAATCTCCAGCCTGCCCCCTTGCTACC
131 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCCCCCTTGCTACC
*
93003359 TCAAGGAGATAAGACTACAATA
196 TCAAGGAGATAAGACTACAAAA
* * *
93003381 TCCAACCTGGCCCCTTACTACCTCAGGGAGATAAGGCTAGCGGCTAAAATCTGCTCCCCTG-CTA
1 T-CTA-CT--CCCC-TGCTACCTCAGGGAGATAAGACTAGCGGCTAAAATCTGCTCCCC-GCCTA
* *
93003445 CCTC-GGAAAGATAAAATTCACCGTTTTTCGATCTGCTCCACTGCTAACTCAGGGAGATAAAATC
60 CCTCAGG-AAGATAAAATTCACCG-TCTTCGATCTACTCCACTGCTAACTCAGGGAGATAAAATC
*
93003509 TTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCCCCC
123 TTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCCCCC
*
93003574 TTGCTACCTCAAGGAGATAAGGCTAATGGCTAAAA
188 TTGCTACCTCAAGGAGATAAGACT-A---C-AAAA
93003609 TCTACTCCCCTGCTACCTC
1 TCTACTCCCCTGCTACCTC
93003628 GGAAAGATAA
Statistics
Matches: 210, Mismatches: 24, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
217 1 0.00
218 2 0.01
219 2 0.01
221 5 0.02
222 58 0.28
223 128 0.61
224 5 0.02
226 2 0.01
227 3 0.01
228 4 0.02
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (217 bp):
TCTACTCCCCTGCTACCTCAGGGAGATAAGACTAGCGGCTAAAATCTGCTCCCCGCCTACCTCAG
GAAGATAAAATTCACCGTCTTCGATCTACTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCT
TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTCCAGCCTGCCCCCTTGCTACC
TCAAGGAGATAAGACTACAAAA
Found at i:93003736 original size:178 final size:178
Alignment explanation
Indices: 93003349--93003910 Score: 804
Period size: 178 Copynumber: 3.2 Consensus size: 178
93003339 CAGCCTGCCC
* * * * *
93003349 CCTTGCTACCTCAAGG-AGATAAGACTACAATATCCAACCTGGCCCCTTACTACCTCAGGGAGAT
1 CCTTGCTACCTC-AGGAAGATAAGACTACAATCTTCAGCCTGCCCCCTTGCTACCTCAGGGAGAT
* * *
93003413 AAGGCTAGCGGCTAAAATCTGCTCCCCTGCTACCTCGGAAAGATAAAATTCACCGTTTTTCGATC
65 AAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGAAAGATAAGATTCACCGTCTTT-GATC
*
93003478 TGCTCCACTGCTAACTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTT
129 TGCTCCACTGCTATCTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTT
*
93003528 CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCCCCCTTGCTACCTCAAGGAGATA
1 CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCCCCCTTGCTACCTCAGGGAGATA
* *
93003593 AGGCTAATGGCTAAAATCTACTCCCCTGCTACCTCGGAAAGATAAGATTCACCGTCTTTGATCTG
66 AGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGAAAGATAAGATTCACCGTCTTTGATCTG
* *
93003658 CTCTACTGCTATCTCAGGGAGATAAAATCTTTAATCTTCAGTCTGCTT
131 CTCCACTGCTATCTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTT
* ** * * *
93003706 CCTTGCTAACTCAGGAAGATAAGACTACAATCTTTGGCCTGCTCTCTTGTTACCTCAGGGAGATA
1 CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCCCCCTTGCTACCTCAGGGAGATA
* ** * *
93003771 AGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTC-GAGAAGATAAGATTTGCCATCTTCGATCT
66 AGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGA-AAGATAAGATTCACCGTCTTTGATCT
* * *
93003835 GCTCCACTGCTATCTCAGGGAGATGAGATCTTCAATCTTCAGTCTACTT
130 GCTCCACTGCTATCTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTT
* * *
93003884 TCTTGGTACCTCAAGAAGATAAGACTA
1 CCTTGCTACCTCAGGAAGATAAGACTA
93003911 ATGGCTAAAA
Statistics
Matches: 344, Mismatches: 37, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
177 2 0.01
178 233 0.68
179 109 0.32
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (178 bp):
CCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCCCCCTTGCTACCTCAGGGAGATA
AGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGAAAGATAAGATTCACCGTCTTTGATCTG
CTCCACTGCTATCTCAGGGAGATAAAATCTTCAATCTTCAGTCTGCTT
Found at i:93003926 original size:134 final size:134
Alignment explanation
Indices: 93003750--93004044 Score: 446
Period size: 134 Copynumber: 2.2 Consensus size: 134
93003740 TGGCCTGCTC
* * * **
93003750 TCTTGTTACCTCAGGGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGATA
1 TCTTGCTACCTCAGGAAGATAAGACTAATGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGATA
* * *
93003815 AGATTTGCCATCTTCGATCTGCTCCACTGCTATCTCAGGGAGATGAGATCTTCAATCTTCAGTCT
66 AGATTCGCCATCTTCGATCTACTCCACTACTATCTCAGGGAGATGAGATCTTCAATCTTCAGTCT
93003880 ACTT
131 ACTT
* * *
93003884 TCTTGGTACCTCAAGAAGATAAGACTAATGGCTAAAATCTGCTCCCCTGCTACCTCGAGAATATA
1 TCTTGCTACCTCAGGAAGATAAGACTAATGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGATA
* * *
93003949 AGATTCGCCATCTTCGATCTACTCTACTACTATCTTAGGGAGATGAGATCTTCAATCTTCAGTTT
66 AGATTCGCCATCTTCGATCTACTCCACTACTATCTCAGGGAGATGAGATCTTCAATCTTCAGTCT
*
93004014 GCTT
131 ACTT
*
93004018 CCTTGCTACCTCAGGAAGATAAGACTA
1 TCTTGCTACCTCAGGAAGATAAGACTA
93004045 CAATCTTCAG
Statistics
Matches: 144, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
134 144 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (134 bp):
TCTTGCTACCTCAGGAAGATAAGACTAATGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGATA
AGATTCGCCATCTTCGATCTACTCCACTACTATCTCAGGGAGATGAGATCTTCAATCTTCAGTCT
ACTT
Found at i:93003934 original size:312 final size:312
Alignment explanation
Indices: 93003573--93004152 Score: 874
Period size: 312 Copynumber: 1.9 Consensus size: 312
93003563 AGCCTGCCCC
* *
93003573 CTTGCTACCTCAAGGAGATAAGGCTAATGGCTAAAATCTACTCCCCTGCTACCTCG-GAAAGATA
1 CTTGCTACCTCAAGAAGATAAGACTAATGGCTAAAATCTACTCCCCTGCTACCTCGAG-AAGATA
* * * * *
93003637 AGATTCACCGTCTTTGATCTGCTCTACTGCTATCTCAGGGAGATAAAATCTTTAATCTTCAGTCT
65 AGATTCACCATCTTCGATCTACTCTACTACTATCTCAGGGAGATAAAATCTTCAATCTTCAGTCT
** * * * * *
93003702 GCTTCCTTGCTAACTCAGGAAGATAAGACTACAATCTTTGGCCTGCTCTCTTGTTACCTCAGGGA
130 GCTTCCTTGCTAACTCAGGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTACCCCAAGGA
* * *
93003767 GATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGAGAAGATAAGATTTGCCATCTTCGA
195 GATAAGGCTAGTGGCTAAAATCTGCTCCCCTACTACCTCGAGAAGATAAGATTCGCCATCTTCGA
93003832 TCTGCTCCACTGCTATCTCAGGGAGATGAGATCTTCAATCTTCAGTCTACTTT
260 TCTGCTCCACTGCTATCTCAGGGAGATGAGATCTTCAATCTTCAGTCTACTTT
* * *
93003885 CTTGGTACCTCAAGAAGATAAGACTAATGGCTAAAATCTGCTCCCCTGCTACCTCGAGAATATAA
1 CTTGCTACCTCAAGAAGATAAGACTAATGGCTAAAATCTACTCCCCTGCTACCTCGAGAAGATAA
* * * * *
93003950 GATTCGCCATCTTCGATCTACTCTACTACTATCTTAGGGAGATGAGATCTTCAATCTTCAGTTTG
66 GATTCACCATCTTCGATCTACTCTACTACTATCTCAGGGAGATAAAATCTTCAATCTTCAGTCTG
*
93004015 CTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTACCCCAAGGAG
131 CTTCCTTGCTAACTCAGGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTACCCCAAGGAG
* * * *
93004080 ATAAGTCTAGTGGCTAAAATTTGCTCCCCTACTACCTCGGGAAGCTAAGATTCGCCATCTTCGAT
196 ATAAGGCTAGTGGCTAAAATCTGCTCCCCTACTACCTCGAGAAGATAAGATTCGCCATCTTCGAT
93004145 CTGCTCCA
261 CTGCTCCA
93004153 TTACTACCTC
Statistics
Matches: 237, Mismatches: 30, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
312 236 1.00
313 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (312 bp):
CTTGCTACCTCAAGAAGATAAGACTAATGGCTAAAATCTACTCCCCTGCTACCTCGAGAAGATAA
GATTCACCATCTTCGATCTACTCTACTACTATCTCAGGGAGATAAAATCTTCAATCTTCAGTCTG
CTTCCTTGCTAACTCAGGAAGATAAGACTACAATCTTCAGCCTACTCCCTTGCTACCCCAAGGAG
ATAAGGCTAGTGGCTAAAATCTGCTCCCCTACTACCTCGAGAAGATAAGATTCGCCATCTTCGAT
CTGCTCCACTGCTATCTCAGGGAGATGAGATCTTCAATCTTCAGTCTACTTT
Found at i:93005445 original size:25 final size:25
Alignment explanation
Indices: 93005431--93005512 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 25
93005421 CTTTTTCTCT
*
93005431 TTTTTTATTGATTTTTTATTTTTTA
1 TTTTTTATTGATTTTTTATTTTCTA
* *
93005456 TTTTTTATTGATTTATTATTAT-TA
1 TTTTTTATTGATTTTTTATTTTCTA
* *
93005480 TTATTATTTTTGATTTTTGATTTT-TGA
1 TT-TT-TTATTGATTTTTTATTTTCT-A
93005507 TTTTTT
1 TTTTTT
93005513 GTTTTTGGGT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
24 4 0.08
25 24 0.50
26 17 0.35
27 3 0.06
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (25 bp):
TTTTTTATTGATTTTTTATTTTCTA
Found at i:93005447 original size:14 final size:13
Alignment explanation
Indices: 93005430--93005519 Score: 51
Period size: 14 Copynumber: 6.8 Consensus size: 13
93005420 TCTTTTTCTC
*
93005430 TTTTTTTATTGAT
1 TTTTTTTTTTGAT
93005443 TTTTTATTTTT--T
1 TTTTT-TTTTTGAT
* *
93005455 ATTTTTTATTGAT
1 TTTTTTTTTTGAT
* *
93005468 TTATTATTATT-AT
1 TT-TTTTTTTTGAT
* *
93005481 TATTATTTTTGAT
1 TTTTTTTTTTGAT
*
93005494 TTTTGATTTTTGAT
1 TTTT-TTTTTTGAT
93005508 TTTTTGTTTTTG
1 TTTTT-TTTTTG
93005520 GGTCTGAAGG
Statistics
Matches: 61, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
11 4 0.07
12 12 0.20
13 15 0.25
14 30 0.49
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.76
Consensus pattern (13 bp):
TTTTTTTTTTGAT
Found at i:93005451 original size:7 final size:7
Alignment explanation
Indices: 93005441--93005518 Score: 68
Period size: 7 Copynumber: 10.9 Consensus size: 7
93005431 TTTTTTATTG
93005441 ATTTTTT
1 ATTTTTT
93005448 ATTTTTT
1 ATTTTTT
93005455 ATTTTTT
1 ATTTTTT
*
93005462 ATTGATTT
1 ATT-TTTT
93005470 ATTATTATT
1 ATT-TT-TT
*
93005479 A-TTATT
1 ATTTTTT
*
93005485 ATTTTTG
1 ATTTTTT
*
93005492 ATTTTTG
1 ATTTTTT
*
93005499 ATTTTTG
1 ATTTTTT
93005506 ATTTTTT
1 ATTTTTT
*
93005513 GTTTTT
1 ATTTTT
93005519 GGGTCTGAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
6 3 0.05
7 46 0.77
8 8 0.13
9 3 0.05
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (7 bp):
ATTTTTT
Found at i:93006087 original size:21 final size:19
Alignment explanation
Indices: 93006063--93006114 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
93006053 ATAACCTTTG
93006063 TTTTATTATTTTTATTCTTCT
1 TTTTATTATTTTTATT-TT-T
93006084 TTTTA-T-TTTTTATTTTT
1 TTTTATTATTTTTATTTTT
*
93006101 TATTTTTTATTTTT
1 T-TTTATTATTTTT
93006115 TACTTTTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
17 2 0.07
18 5 0.19
19 9 0.33
20 6 0.22
21 5 0.19
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTATTATTTTTATTTTT
Found at i:93006092 original size:6 final size:6
Alignment explanation
Indices: 93006068--93006133 Score: 51
Period size: 7 Copynumber: 10.3 Consensus size: 6
93006058 CTTTGTTTTA
* * *
93006068 TTATTT TTATTC TTCTTT TTATTTT TTATTTT TTATTTT TTATTTT TTACTT
1 TTATTT TTATTT TTATTT TTA-TTT TTA-TTT TTA-TTT TTA-TTT TTATTT
* *
93006120 TTGTTT TTCTTT TT
1 TTATTT TTATTT TT
93006134 GGCTGCCTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
6 24 0.47
7 27 0.53
ACGTcount: A:0.11, C:0.06, G:0.02, T:0.82
Consensus pattern (6 bp):
TTATTT
Found at i:93006127 original size:21 final size:20
Alignment explanation
Indices: 93006059--93006127 Score: 70
Period size: 21 Copynumber: 3.5 Consensus size: 20
93006049 CACTATAACC
*
93006059 TTTGTTTTATTA-TTTTTAT
1 TTTGTTTTTTTATTTTTTAT
* *
93006078 TCT-TCTTTTTATTTTTTAT
1 TTTGTTTTTTTATTTTTTAT
*
93006097 TTTTTATTTTTTATTTTTTACT
1 TTTGT-TTTTTTATTTTTTA-T
93006119 TTTGTTTTT
1 TTTGTTTTT
93006128 CTTTTTGGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
18 6 0.15
19 11 0.28
20 1 0.03
21 17 0.43
22 5 0.12
ACGTcount: A:0.12, C:0.04, G:0.03, T:0.81
Consensus pattern (20 bp):
TTTGTTTTTTTATTTTTTAT
Found at i:93006133 original size:7 final size:7
Alignment explanation
Indices: 93006083--93006121 Score: 69
Period size: 7 Copynumber: 5.4 Consensus size: 7
93006073 TTTATTCTTC
93006083 TTTTTAT
1 TTTTTAT
93006090 TTTTTAT
1 TTTTTAT
93006097 TTTTTAT
1 TTTTTAT
93006104 TTTTTAT
1 TTTTTAT
93006111 TTTTTACT
1 TTTTTA-T
93006119 TTT
1 TTT
93006122 GTTTTTCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 27 0.87
8 4 0.13
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTAT
Found at i:93011053 original size:24 final size:24
Alignment explanation
Indices: 93011003--93011054 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
93010993 AATAAAAGCA
* *
93011003 AAAATAAATAATATATGAAATAGT
1 AAAATAAATAATATATAAAAAAGT
*
93011027 AAAAT-AATATATATATAAAAAATT
1 AAAATAAATA-ATATATAAAAAAGT
93011051 AAAA
1 AAAA
93011055 GTAAGCGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (24 bp):
AAAATAAATAATATATAAAAAAGT
Found at i:93011375 original size:16 final size:16
Alignment explanation
Indices: 93011354--93011405 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
93011344 ACTTATTCGC
*
93011354 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
93011370 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
93011386 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
93011402 TGTA
1 TGTA
93011406 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:93011663 original size:18 final size:17
Alignment explanation
Indices: 93011641--93011675 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
93011631 TTATTATTAA
*
93011641 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
93011659 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
93011676 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:93011787 original size:14 final size:15
Alignment explanation
Indices: 93011738--93011789 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
93011728 ATAAAATATA
93011738 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
93011753 TATTAAATATATTAT
1 AATTAAATATATTAT
93011768 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
93011781 AATTTAATA
1 AATTAAATA
93011790 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:93012165 original size:120 final size:120
Alignment explanation
Indices: 93011627--93012154 Score: 936
Period size: 120 Copynumber: 4.4 Consensus size: 120
93011617 ATATTTAAAT
93011627 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
* * * *
93011692 TCTGATATGAATTTACTCAAATAAT-A-ATATGATACTATAAAATATAAATTAAC
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
*
93011745 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
93011810 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
*
93011865 ATAATTATTATTAAATATATCTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
93011930 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
*
93011985 ATAATTATTATTAAATATATCTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
*
93012050 TCTTATATGAATTTACTCAAATCATAATATATTATACTATAAAAGATAATTTGAA-
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT-AAC
* *
93012105 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
93012155 TAAAATAATT
Statistics
Matches: 396, Mismatches: 11, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
118 87 0.22
119 1 0.00
120 306 0.77
121 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
Found at i:93012243 original size:37 final size:40
Alignment explanation
Indices: 93012193--93012275 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
93012183 TAAGTGAGTA
93012193 AGAATTGAACTCT-AAAA-AAAA-AAAAACATAACCATAT
1 AGAATTGAACTCTAAAAATAAAATAAAAACATAACCATAT
93012230 AGAATTGAACTCTAAAAATAAAATAAAAACATAACCATAT
1 AGAATTGAACTCTAAAAATAAAATAAAAACATAACCATAT
*
93012270 TGAATT
1 AGAATT
93012276 ATCATCAACA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
37 13 0.31
38 4 0.10
39 4 0.10
40 21 0.50
ACGTcount: A:0.59, C:0.12, G:0.06, T:0.23
Consensus pattern (40 bp):
AGAATTGAACTCTAAAAATAAAATAAAAACATAACCATAT
Found at i:93015459 original size:15 final size:16
Alignment explanation
Indices: 93015425--93015460 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
93015415 AGAGAATTTT
*
93015425 AAAATAGACAAATTAC
1 AAAATAGACAAATTAA
93015441 AAAATAGAC-AATTAA
1 AAAATAGACAAATTAA
93015456 AAAAT
1 AAAAT
93015461 GTATTCACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.67, C:0.08, G:0.06, T:0.19
Consensus pattern (16 bp):
AAAATAGACAAATTAA
Found at i:93017544 original size:24 final size:24
Alignment explanation
Indices: 93017517--93017571 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
93017507 AATAAACAGA
*
93017517 AAAATAGAAATAAAAACTAAAAAT
1 AAAATAGAAATAAAAAATAAAAAT
93017541 AAAACTA-AAATAAAAAATAAAAAT
1 AAAA-TAGAAATAAAAAATAAAAAT
93017565 -AAATAGA
1 AAAATAGA
93017572 CTCAATGGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 2 0.07
23 4 0.14
24 20 0.71
25 2 0.07
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (24 bp):
AAAATAGAAATAAAAAATAAAAAT
Found at i:93017556 original size:6 final size:6
Alignment explanation
Indices: 93017500--93017567 Score: 66
Period size: 6 Copynumber: 11.2 Consensus size: 6
93017490 ATGTCTAGAG
* * * * *
93017500 AAATAC AAATAA ACAGAA AAATAG AAATAA AAACTAA AAATAA AACT-A
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAA-TAA AAATAA AAATAA
93017548 AAATAAA AAATAA AAATAA A
1 AAAT-AA AAATAA AAATAA A
93017568 TAGACTCAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
5 4 0.08
6 35 0.70
7 11 0.22
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:93019269 original size:20 final size:20
Alignment explanation
Indices: 93019231--93019269 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
93019221 CTCCTTCGCT
*
93019231 TCTCCCACGCCCATATGACC
1 TCTCCCACGCCCAGATGACC
* *
93019251 TCTCGCACGCCCAGGTGAC
1 TCTCCCACGCCCAGATGAC
93019270 TTTCCACACG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.46, G:0.18, T:0.18
Consensus pattern (20 bp):
TCTCCCACGCCCAGATGACC
Found at i:93019492 original size:30 final size:30
Alignment explanation
Indices: 93019458--93019516 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
93019448 GTATCCAGGC
*
93019458 CGTGTGGATTACACGATCATGTCGCCTGGT
1 CGTGTGGATTAAACGATCATGTCGCCTGGT
* * *
93019488 CGTGTGGATTAAACGGTCGTGTCGTCTGG
1 CGTGTGGATTAAACGATCATGTCGCCTGG
93019517 CTGTGTAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.15, C:0.20, G:0.34, T:0.31
Consensus pattern (30 bp):
CGTGTGGATTAAACGATCATGTCGCCTGGT
Found at i:93024005 original size:15 final size:15
Alignment explanation
Indices: 93023990--93024046 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 15
93023980 ATAGTTGTAT
93023990 CTTTACATAAGATATC
1 CTTT-CATAAGATATC
*
93024006 CTTTCATAAGATCTAC
1 CTTTCATAAGATAT-C
* *
93024022 CTTTTAATAAAATATC
1 C-TTTCATAAGATATC
93024038 CTTTCATAA
1 CTTTCATAA
93024047 AATTATGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
15 16 0.47
16 8 0.24
17 10 0.29
ACGTcount: A:0.37, C:0.19, G:0.04, T:0.40
Consensus pattern (15 bp):
CTTTCATAAGATATC
Found at i:93024101 original size:21 final size:21
Alignment explanation
Indices: 93024076--93024116 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
93024066 ACAACTTTAC
93024076 ATAAAATTACATATTTATAAA
1 ATAAAATTACATATTTATAAA
* *
93024097 ATAAAATTATATCTTTATAA
1 ATAAAATTACATATTTATAA
93024117 TACAATTACT
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:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAAAATTACATATTTATAAA
Found at i:93024118 original size:19 final size:20
Alignment explanation
Indices: 93024076--93024125 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
93024066 ACAACTTTAC
93024076 ATAAAATTACATATTTATAAA
1 ATAAAATTACATATTTAT-AA
* *
93024097 ATAAAATTATATCTTTAT-A
1 ATAAAATTACATATTTATAA
*
93024116 ATACAATTAC
1 ATAAAATTAC
93024126 TTTATCAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 9 0.36
21 16 0.64
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAAAATTACATATTTATAA
Found at i:93026825 original size:22 final size:22
Alignment explanation
Indices: 93026800--93026865 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 22
93026790 TTTTTGAGTT
93026800 AATTCATTTTTTAAATTTTATG
1 AATTCATTTTTTAAATTTTATG
* * * * *
93026822 AATTTAATATTTAGA---T-TC
1 AATTCATTTTTTAAATTTTATG
93026840 AATTCATTTTTTAAATTTTATG
1 AATTCATTTTTTAAATTTTATG
93026862 AATT
1 AATT
93026866 TAATATTTAG
Statistics
Matches: 30, Mismatches: 10, Indels: 8
0.62 0.21 0.17
Matches are distributed among these distances:
18 12 0.40
19 1 0.03
21 1 0.03
22 16 0.53
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.56
Consensus pattern (22 bp):
AATTCATTTTTTAAATTTTATG
Found at i:93026844 original size:40 final size:40
Alignment explanation
Indices: 93026800--93026891 Score: 170
Period size: 40 Copynumber: 2.4 Consensus size: 40
93026790 TTTTTGAGTT
93026800 AATTCATTTTTTAAATTTTATGAATTTAATATTTAGATTC
1 AATTCATTTTTTAAATTTTATGAATTTAATATTTAGATTC
93026840 AATTCATTTTTTAAATTTTATGAATTTAATATTTAGATTC
1 AATTCATTTTTTAAATTTTATGAATTTAATATTTAGATTC
93026880 AA-T-ATTTTTTAA
1 AATTCATTTTTTAA
93026892 CATACATGCC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
38 9 0.17
39 1 0.02
40 42 0.81
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.55
Consensus pattern (40 bp):
AATTCATTTTTTAAATTTTATGAATTTAATATTTAGATTC
Found at i:93031252 original size:22 final size:23
Alignment explanation
Indices: 93031200--93031256 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
93031190 TAATGGAAAC
*
93031200 ATGAATAGATAAGAAACATAATAG
1 ATGAATA-ATAAGAAACATAAAAG
93031224 ATGAATAATAAGAAA-ATAAAAG
1 ATGAATAATAAGAAACATAAAAG
93031246 TAT-AATAATAA
1 -ATGAATAATAA
93031257 TTATAATACA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 14 0.45
23 10 0.32
24 7 0.23
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.23
Consensus pattern (23 bp):
ATGAATAATAAGAAACATAAAAG
Found at i:93031417 original size:3 final size:3
Alignment explanation
Indices: 93031409--93031437 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
93031399 TTAATATATG
93031409 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
93031438 GTTAAAATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:93031632 original size:25 final size:24
Alignment explanation
Indices: 93031594--93031656 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
93031584 ATAATAATGG
* *
93031594 TAATAATATTTAAAATATATGTACA
1 TAATAATA-ATAAAAGATATGTACA
* *
93031619 TGAATAATAATAAAAGGTATGTATA
1 T-AATAATAATAAAAGATATGTACA
93031644 TATATAATAATAA
1 TA-ATAATAATAA
93031657 TGGTAATTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 24 0.75
26 7 0.22
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.37
Consensus pattern (24 bp):
TAATAATAATAAAAGATATGTACA
Found at i:93031780 original size:3 final size:3
Alignment explanation
Indices: 93031647--93031761 Score: 81
Period size: 3 Copynumber: 39.0 Consensus size: 3
93031637 ATGTATATAT
* * * * * * * *
93031647 ATA ATA ATA ATG GTA ATT AGA ATA ATA ATA GTA ATG ATA GT- ATC A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * **
93031693 ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ATG AGG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
93031741 ATA AAA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
93031762 TATTAAGCAA
Statistics
Matches: 85, Mismatches: 25, Indels: 4
0.75 0.22 0.04
Matches are distributed among these distances:
2 2 0.02
3 83 0.98
ACGTcount: A:0.58, C:0.02, G:0.10, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:93031795 original size:13 final size:13
Alignment explanation
Indices: 93031695--93031801 Score: 69
Period size: 12 Copynumber: 8.2 Consensus size: 13
93031685 AGTATCAAAT
*
93031695 AATAGTAATAAT-
1 AATAATAATAATA
93031707 AATAATAATAAT-
1 AATAATAATAATA
93031719 AATAATAATAAT-
1 AATAATAATAATA
*
93031731 AATGATGAGGATAA-A
1 AATAAT-A--ATAATA
*
93031746 AATAATAACAATA
1 AATAATAATAATA
* * *
93031759 ATATATTAAGCAACA
1 A-ATAATAA-TAATA
*
93031774 AATAATAATGATA
1 AATAATAATAATA
*
93031787 AATAGTAATAATA
1 AATAATAATAATA
93031800 AA
1 AA
93031802 GAAATGGGAT
Statistics
Matches: 76, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
12 31 0.41
13 18 0.24
14 13 0.17
15 14 0.18
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (13 bp):
AATAATAATAATA
Found at i:93033116 original size:45 final size:45
Alignment explanation
Indices: 93033060--93033451 Score: 233
Period size: 45 Copynumber: 8.5 Consensus size: 45
93033050 TTCAATGTGT
* * *
93033060 TCCATTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATCTGC
* * * *
93033105 CCCACTGCAACTTCAGGGAGATAAGATCTGTTTATTCATAGCTTCAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTTG-CTA-TC-T---TT-AATCTGC
* * * * * * *
93033157 TCCACTGCAACTTCAGGGAAACAGGACTTGCTATCTTCAGTCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATCTGC
* * * * *
93033202 TCTACTGCAACTTCAGGGAGATAA-AGCTTG-TAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTTGCTATCTTTAATCTGC
* * * *
93033246 TCCACTGCAACTTCAAGGAGATAAGGTTTG---T-TTTGATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATCTGC
* ** * * *
93033287 TCTACTGCAACTTCAGATAGATAAGATCTGTTTATTCATAGCTTCAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTTG-CTA-TC-T---TT-AATCTGC
* * * *
93033339 TCCACTGCAACTTTAGGGAAATCAGATTTGCTATCTTT-AGCTTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATC-TGC
* * * *
93033384 TCCACTGCAACTTCAGGGAGATAAGACTTGTTA-CTCTAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATCTGC
* *
93033428 TCCATTGCAACTTCAGAGAGATAA
1 TCCACTGCAACTTCAGGGAGATAA
93033452 TGTTTGTTTT
Statistics
Matches: 262, Mismatches: 63, Indels: 45
0.71 0.17 0.12
Matches are distributed among these distances:
41 30 0.11
44 66 0.25
45 86 0.33
46 6 0.02
47 2 0.01
48 2 0.01
49 2 0.01
50 4 0.02
51 8 0.03
52 56 0.21
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTTAATCTGC
Found at i:93033174 original size:97 final size:97
Alignment explanation
Indices: 93033049--93033409 Score: 415
Period size: 97 Copynumber: 3.8 Consensus size: 97
93033039 CTCCAGGCAT
* * * *
93033049 CTTCAATGTGTTCCATTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCCCCACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTACTCCACTGCA
93033114 ACTTCAGGGAGATAAGATCTGTTTATTCATAG
66 ACTTCAGGGAGATAAGATCTGTTTATTCATAG
* * * * *
93033146 CTTCAATCTGTTCCACTGCAACTTCAGGGAAACAGGACTTGCTATCTTCAGTCTACTCTACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTACTCCACTGCA
* *
93033211 ACTTCAGGGAGATAA-A---GCTT-GT-A-A-
66 ACTTCAGGGAGATAAGATCTGTTTATTCATAG
* * * * * * *
93033235 CTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGTTTG-T-T-TTGA-TCTACTCTACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTACTCCACTGCA
**
93033296 ACTTCAGATAGATAAGATCTGTTTATTCATAG
66 ACTTCAGGGAGATAAGATCTGTTTATTCATAG
* * *
93033328 CTTCAATCTGTTCCACTGCAACTTTAGGGAAATCAGATTTGCTATCTTTAG-CTTGCTCCACTGC
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTC-TACTCCACTGC
93033392 AACTTCAGGGAGATAAGA
65 AACTTCAGGGAGATAAGA
93033410 CTTGTTACTC
Statistics
Matches: 215, Mismatches: 36, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
85 27 0.13
86 4 0.02
87 1 0.00
88 1 0.00
89 36 0.17
90 2 0.01
91 2 0.01
92 2 0.01
93 37 0.17
94 1 0.00
95 1 0.00
96 5 0.02
97 96 0.45
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (97 bp):
CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTACTCCACTGCA
ACTTCAGGGAGATAAGATCTGTTTATTCATAG
Found at i:93033302 original size:85 final size:85
Alignment explanation
Indices: 93033197--93033463 Score: 216
Period size: 93 Copynumber: 3.0 Consensus size: 85
93033187 CTATCTTCAG
93033197 TCTACTCTACTGCAACTTCAGGGAGATAAAGCTTGTAACTTCAACCTGCTCCACTGCAACTTCAA
1 TCTACTCTACTGCAACTTCAGGGAGATAAAGCTTGTAACTTCAACCTGCTCCACTGCAACTTCAA
93033262 GGAGATAAGGTTTGTTTTGA
66 GGAGATAAGGTTTGTTTTGA
** * * * *
93033282 TCTACTCTACTGCAACTTCAGATAGATAAGATCTGTTTATTCATAGCTTCAATCTGTTCCACTGC
1 TCTACTCTACTGCAACTTCAGGGAGATAA-A---GCTT-GT-A-A-CTTCAACCTGCTCCACTGC
* * * * * *
93033347 AACTTTAGGGAAATCAGATTTGCTATCTTTA
58 AACTTCAAGGAGATAAGGTTTG-T-T-TTGA
* * * * *
93033378 GCTTGCTCCACTGCAACTTCAGGGAGAT-AAGACTTGTTAC-TCTAACCTGCTCCATTGCAACTT
1 TC-TACTCTACTGCAACTTCAGGGAGATAAAG-CTTGTAACTTC-AACCTGCTCCACTGCAACTT
*
93033441 C-AGAGAGATAATGTTTGTTTTGA
63 CAAG-GAGATAAGGTTTGTTTTGA
93033464 CCTTCTTTCG
Statistics
Matches: 137, Mismatches: 30, Indels: 29
0.70 0.15 0.15
Matches are distributed among these distances:
85 27 0.20
86 4 0.03
87 1 0.01
88 4 0.03
89 30 0.22
90 2 0.01
91 1 0.01
92 3 0.02
93 36 0.26
94 1 0.01
95 2 0.01
96 5 0.04
97 21 0.15
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (85 bp):
TCTACTCTACTGCAACTTCAGGGAGATAAAGCTTGTAACTTCAACCTGCTCCACTGCAACTTCAA
GGAGATAAGGTTTGTTTTGA
Found at i:93033427 original size:182 final size:182
Alignment explanation
Indices: 93033108--93033463 Score: 542
Period size: 182 Copynumber: 2.0 Consensus size: 182
93033098 AGTCTGCCCC
*
93033108 ACTGCAACTTCAGGGAGATAAGATCTGTTTATTCATAGCTTCAATCTGTTCCACTGCAACTTCAG
1 ACTGCAACTTCAGAGAGATAAGATCTGTTTATTCATAGCTTCAATCTGTTCCACTGCAACTTCAG
*
93033173 GGAAACAGGACTTGCTATCTTCAGTCTACTCTACTGCAACTTCAGGGAGATAAAGCTTGTAACTT
66 GGAAACAGGACTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAAGCTTGTAACTT
93033238 CAACCTGCTCCACTGCAACTTCA-AGGAGATAAGGTTTGTTTTGATCTACTCT
131 CAACCTGCTCCACTGCAACTTCAGA-GAGATAAGGTTTGTTTTGATCTACTCT
* *
93033290 ACTGCAACTTCAGATAGATAAGATCTGTTTATTCATAGCTTCAATCTGTTCCACTGCAACTTTAG
1 ACTGCAACTTCAGAGAGATAAGATCTGTTTATTCATAGCTTCAATCTGTTCCACTGCAACTTCAG
* * * *
93033355 GGAAATCA-GATTTGCTATCTTTAG-CTTGCTCCACTGCAACTTCAGGGAGAT-AAGACTTGTTA
66 GGAAA-CAGGACTTGCTATCTTCAGTC-TACTCCACTGCAACTTCAGGGAGATAAAG-CTTGTAA
* *
93033417 C-TCTAACCTGCTCCATTGCAACTTCAGAGAGATAATGTTTGTTTTGA
128 CTTC-AACCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTTTTGA
93033464 CCTTCTTTCG
Statistics
Matches: 159, Mismatches: 10, Indels: 10
0.89 0.06 0.06
Matches are distributed among these distances:
181 6 0.04
182 150 0.94
183 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (182 bp):
ACTGCAACTTCAGAGAGATAAGATCTGTTTATTCATAGCTTCAATCTGTTCCACTGCAACTTCAG
GGAAACAGGACTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAAGCTTGTAACTT
CAACCTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTTTTGATCTACTCT
Found at i:93033604 original size:68 final size:68
Alignment explanation
Indices: 93033472--93033675 Score: 293
Period size: 68 Copynumber: 3.0 Consensus size: 68
93033462 GACCTTCTTT
* * * * ** * *
93033472 CGCTGAAACTTCAAGGAAATCTACTTTGACTTTTTAGTTGTTCCAATGCCATTTCA-GGATGAAG
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGC-TTTTAGCCGCTCCAACGCCATTTCAGGGA-GAAG
93033536 AGATC
64 AGATC
*
93033541 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGTCATTTCAGGGAGAAGAG
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
93033606 ATC
66 ATC
*
93033609 CACTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
1 CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
93033674 AT
66 AT
93033676 TGGTAATTCA
Statistics
Matches: 123, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
68 94 0.76
69 29 0.24
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (68 bp):
CGCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAG
ATC
Found at i:93033833 original size:87 final size:88
Alignment explanation
Indices: 93033723--93033890 Score: 223
Period size: 87 Copynumber: 1.9 Consensus size: 88
93033713 AGGCTAATCA
* * *
93033723 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAA-TTCGGTCTATTACCCTACT
1 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGAAACTTCAGCCTATTACCCTACT
93033787 ACTTAGGGGTTTAAGACCCTTCG
66 ACTTAGGGGTTTAAGACCCTTCG
* * * * *
93033810 TCTTTGATCTGTTTCC-CTACTGCTTAGGGGGTTAGGATCTGGAAATCTTCAGCCTGTTACCCTA
1 TCTTTGATCTG-CTCCACTACTGCTTAGGGAGATAAGATCTGGAAA-CTTCAGCCTATTACCCTA
*
93033874 CTGCTTAGGGGTTTAAG
64 CTACTTAGGGGTTTAAG
93033891 GTCTGTAAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
87 36 0.52
88 3 0.04
89 30 0.43
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (88 bp):
TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGAAACTTCAGCCTATTACCCTACT
ACTTAGGGGTTTAAGACCCTTCG
Found at i:93033873 original size:45 final size:43
Alignment explanation
Indices: 93033818--93033932 Score: 135
Period size: 45 Copynumber: 2.7 Consensus size: 43
93033808 CGTCTTTGAT
*
93033818 CTGTTTCCCTACTGCTTAGGGGGTT-AGGATCTGGAAATCTTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGG-TCTGGAAAT-TT-AGC
* * *
93033863 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCTGTAAATTTGGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCTGGAAATTTAGC
* *
93033906 TTGCTACCCTACTGCTTA-GGGGTTAAG
1 CTGTTACCCTACTGCTTAGGGGGTTAAG
93033933 TCCATCATCT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 8 0.13
43 18 0.29
44 2 0.03
45 31 0.50
46 3 0.05
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.35
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGTCTGGAAATTTAGC
Found at i:93046383 original size:22 final size:23
Alignment explanation
Indices: 93046331--93046387 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
93046321 TAATGGAAAC
*
93046331 ATGAATAGATAAGAAACATAATAG
1 ATGAATA-ATAAGAAACATAAAAG
93046355 ATGAATAATAAGAAA-ATAAAAG
1 ATGAATAATAAGAAACATAAAAG
93046377 TAT-AATAATAA
1 -ATGAATAATAA
93046388 TTATAATACA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 14 0.45
23 10 0.32
24 7 0.23
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.23
Consensus pattern (23 bp):
ATGAATAATAAGAAACATAAAAG
Found at i:93046763 original size:25 final size:24
Alignment explanation
Indices: 93046725--93046787 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
93046715 ATAATAATGG
* *
93046725 TAATAATATTTAAAATATATGTACA
1 TAATAATA-ATAAAAGATATGTACA
* *
93046750 TGAATAATAATAAAAGGTATGTATA
1 T-AATAATAATAAAAGATATGTACA
93046775 TATATAATAATAA
1 TA-ATAATAATAA
93046788 TAATGGTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 24 0.75
26 7 0.22
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.37
Consensus pattern (24 bp):
TAATAATAATAAAAGATATGTACA
Found at i:93046786 original size:3 final size:3
Alignment explanation
Indices: 93046778--93046918 Score: 63
Period size: 3 Copynumber: 47.3 Consensus size: 3
93046768 ATGTATATAT
* * * * * * * *
93046778 ATA ATA ATA ATA ATG GTA ATT AGA ATA ATA ATA GTA ATG ATA GT- ATC
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * ** *
93046825 A-A ATA ATC GTA ATA ATA ATA ATA ATA ATA ATG AGG ATA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
93046872 ACA ATA AT- ATA TTA AGCA ACAA ATA ATA ATG ATA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA A-TA A-TA ATA ATA ATA ATA ATA ATA ATA ATA
93046918 A
1 A
93046919 AGAAATGGGA
Statistics
Matches: 97, Mismatches: 37, Indels: 8
0.68 0.26 0.06
Matches are distributed among these distances:
2 4 0.04
3 89 0.92
4 4 0.04
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:93051153 original size:22 final size:25
Alignment explanation
Indices: 93051128--93051178 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 25
93051118 ATTTGAGGGG
*
93051128 TTAAAGTACAAATA-TG-AAA-ATT
1 TTAAAGGACAAATAGTGTAAATATT
*
93051150 TTAAAGGACCAATAGTGTAAATATT
1 TTAAAGGACAAATAGTGTAAATATT
93051175 TTAA
1 TTAA
93051179 GGATGGAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 12 0.50
23 2 0.08
24 3 0.12
25 7 0.29
ACGTcount: A:0.49, C:0.06, G:0.12, T:0.33
Consensus pattern (25 bp):
TTAAAGGACAAATAGTGTAAATATT
Found at i:93053924 original size:101 final size:101
Alignment explanation
Indices: 93053718--93053918 Score: 260
Period size: 101 Copynumber: 2.0 Consensus size: 101
93053708 ATTGACGGAG
* * * **
93053718 AAGACCATAAGTGGGTTATGGCATTATGAACTTAAGACCATGGTTGGACCATGGCAGTGTTTACA
1 AAGACCATAAATGGGTTATGGCATTATGAACGTAAGACCATGGTTAGACCATGGCAGTAATTACA
* * **
93053783 TGTAAGACCATAGCTGAGCTATGGCATTTTAATGAA
66 TGTAAGACCATAACTGAGCTATGACATACTAATGAA
*
93053819 AAGACCATAAATGGGTTATGGCACTT-TGAACGTAAGACCATGGTTAGACCATGGCAGTAATTAT
1 AAGACCATAAATGGGTTATGGCA-TTATGAACGTAAGACCATGGTTAGACCATGGCAGTAATTAC
* * *
93053883 ATGTAAGACCATAATTGGGTTATGACACTACTAATG
65 ATGTAAGACCATAACTGAGCTATGACA-TACTAATG
93053919 TAAGACTATG
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
101 77 0.91
102 8 0.09
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (101 bp):
AAGACCATAAATGGGTTATGGCATTATGAACGTAAGACCATGGTTAGACCATGGCAGTAATTACA
TGTAAGACCATAACTGAGCTATGACATACTAATGAA
Found at i:93055415 original size:26 final size:26
Alignment explanation
Indices: 93055379--93055514 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
93055369 TGATACAAAT
93055379 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
93055405 TGATAATAGGTTAGGTAAATGTCCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
93055431 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
93055457 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
93055483 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
93055509 TGATAA
1 TGATAA
93055515 GAATTTCATG
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:93056715 original size:16 final size:15
Alignment explanation
Indices: 93056689--93056718 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
93056679 ACTAGATTGG
93056689 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
93056704 CAAAATGCCGAAAAG
1 CAAAA-GCCGAAAAG
93056719 TCAGTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.23, G:0.20, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:93057175 original size:27 final size:27
Alignment explanation
Indices: 93057134--93057246 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
93057124 GAGGAAGCGT
*
93057134 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
93057161 TCTGGTGGCTCTGCCACAAATGTCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
93057188 TCTGGTAGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
93057216 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
93057242 TCTGG
1 TCTGG
93057247 CATCCATGCT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.07
27 54 0.74
28 14 0.19
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:93057241 original size:54 final size:54
Alignment explanation
Indices: 93057132--93057246 Score: 142
Period size: 54 Copynumber: 2.1 Consensus size: 54
93057122 TGGAGGAAGC
* * *
93057132 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATGTCT
1 GTTCTGGTAGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACAAATATCT
* * * * *
93057186 GTTCTGGTAGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCAC-ATTATCT
1 GTTCTGGTAGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACAAATATCT
93057240 GTTCTGG
1 GTTCTGG
93057247 CATCCATGCT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 36 0.69
55 16 0.31
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.36
Consensus pattern (54 bp):
GTTCTGGTAGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACAAATATCT
Found at i:93060430 original size:43 final size:43
Alignment explanation
Indices: 93060322--93060430 Score: 112
Period size: 43 Copynumber: 2.5 Consensus size: 43
93060312 TACCGAGATG
* * * *
93060322 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTATA
1 TGATAACATGTAAGACCATATCTGGGACAATGGCATCGATATA
** * * *
93060365 TGATTTCGTGTAAGACTC-TATCTGGGGCAATGGCATCGATATG
1 TGATAACATGTAAGAC-CATATCTGGGACAATGGCATCGATATA
*
93060408 TGGTAACATGTAAGACCATATCT
1 TGATAACATGTAAGACCATATCT
93060431 AGGATATGGC
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
42 1 0.02
43 51 0.96
44 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
TGATAACATGTAAGACCATATCTGGGACAATGGCATCGATATA
Found at i:93061604 original size:27 final size:27
Alignment explanation
Indices: 93061556--93061714 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
93061546 GCGAGGCTGC
* *
93061556 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
93061583 CAGATATTATGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
93061609 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
93061636 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
93061663 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
93061690 CAGATAATTTTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
93061715 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 10, Indels: 16
0.81 0.07 0.11
Matches are distributed among these distances:
26 10 0.09
27 99 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:93061715 original size:54 final size:54
Alignment explanation
Indices: 93061574--93061717 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
93061564 GTGACGAAGT
* *
93061574 CACCAGATACAGAT-ATTATGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTATGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
93061628 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTATGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
93061682 CACCAGATCAGATAATTTTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTATGGCATAGCCACCAGGAC
93061718 GCTTCCTCCA
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 5 0.06
54 80 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTATGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:93063341 original size:26 final size:26
Alignment explanation
Indices: 93063312--93063419 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
93063302 TAAAATGCCC
*
93063312 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
93063338 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
93063364 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
93063390 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93063416 ATCA
1 ATCA
93063420 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:93067135 original size:11 final size:11
Alignment explanation
Indices: 93067119--93067148 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
93067109 AATTGAATTG
93067119 GTATATATATT
1 GTATATATATT
93067130 GTATATATATT
1 GTATATATATT
*
93067141 GAATATAT
1 GTATATAT
93067149 TGATTATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (11 bp):
GTATATATATT
Found at i:93067148 original size:20 final size:17
Alignment explanation
Indices: 93067123--93067161 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 17
93067113 GAATTGGTAT
93067123 ATATATTGTATATATATTGA
1 ATATATTG-AT-TAT-TTGA
93067143 ATATATTGATTATTTGA
1 ATATATTGATTATTTGA
93067160 AT
1 AT
93067162 TGAAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 3 0.16
19 2 0.11
20 8 0.42
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.51
Consensus pattern (17 bp):
ATATATTGATTATTTGA
Found at i:93067348 original size:41 final size:39
Alignment explanation
Indices: 93067282--93067393 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 39
93067272 TTCGACTTCG
*
93067282 AGTCGATGAGACACTGAGTGTCAATTTACTACTTTGGATTA
1 AGTCGATGAGACACTGGGTGTCAATTTA-TACTTTGG-TTA
* * * *
93067323 ATTCGATGAGGCACTGGGTGCCAA-TT-TACTTTGGTTG
1 AGTCGATGAGACACTGGGTGTCAATTTATACTTTGGTTA
*
93067360 AGCCGATGAGACACTGGGTGTCAATTTATTACTT
1 AGTCGATGAGACACTGGGTGTCAATTTA-TACTT
93067394 CGAATTATCT
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
37 22 0.37
38 10 0.17
40 7 0.12
41 20 0.34
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (39 bp):
AGTCGATGAGACACTGGGTGTCAATTTATACTTTGGTTA
Found at i:93067557 original size:19 final size:19
Alignment explanation
Indices: 93067530--93067567 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
93067520 ATATTATATA
93067530 TGAAATGAAA-ATGAGATTG
1 TGAAATGAAATATG-GATTG
*
93067549 TGAATTGAAATATGGATTG
1 TGAAATGAAATATGGATTG
93067568 AGACACATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (19 bp):
TGAAATGAAATATGGATTG
Found at i:93087213 original size:21 final size:21
Alignment explanation
Indices: 93087197--93087276 Score: 58
Period size: 23 Copynumber: 3.7 Consensus size: 21
93087187 AGATAATTTT
93087197 TAAATATAATAATATAATTGA
1 TAAATATAATAATATAATTGA
* *
93087218 TAAA-AGT-AT-AGATAATCATGT
1 TAAATA-TAATAATATAAT--TGA
* *
93087239 TAAGTATAATAATATATATTTA
1 TAAATATAATAATATA-ATTGA
93087261 TAAATATAAATAATAT
1 TAAATAT-AATAATAT
93087277 TACTTAACTA
Statistics
Matches: 44, Mismatches: 7, Indels: 14
0.68 0.11 0.22
Matches are distributed among these distances:
19 6 0.14
20 3 0.07
21 11 0.25
22 10 0.23
23 12 0.27
24 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (21 bp):
TAAATATAATAATATAATTGA
Found at i:93087214 original size:40 final size:42
Alignment explanation
Indices: 93087170--93087276 Score: 100
Period size: 42 Copynumber: 2.6 Consensus size: 42
93087160 TTAATTTAAA
* * *
93087170 ATAATTTATTAAGA-TTTAGATAAT-TTTTAAATATAATAAT
1 ATAATTTATTAAAAGTATAGATAATATGTTAAATATAATAAT
* *
93087210 ATAATTGA-TAAAAGTATAGATAATCATGTTAAGTATAATAAT
1 ATAATTTATTAAAAGTATAGATAAT-ATGTTAAATATAATAAT
*
93087252 ATATATTTA-T-AAA-TATAAATAATAT
1 ATA-ATTTATTAAAAGTATAGATAATAT
93087277 TACTTAACTA
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 4 0.07
40 18 0.32
41 9 0.16
42 20 0.36
43 5 0.09
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.42
Consensus pattern (42 bp):
ATAATTTATTAAAAGTATAGATAATATGTTAAATATAATAAT
Found at i:93088558 original size:29 final size:30
Alignment explanation
Indices: 93088516--93088590 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
93088506 GAAAACATTT
*
93088516 TATTTTTCATTTACTAT-TA-AATGTATACA
1 TATTTTTTATTTACTATGTATAATGTATA-A
* * *
93088545 TATTTTTTTTTTACTTTGTATAATTTATAA
1 TATTTTTTATTTACTATGTATAATGTATAA
93088575 TATTTTGTTATTTACT
1 TATTTT-TTATTTACT
93088591 TTGTGTTGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
29 14 0.37
30 9 0.24
31 15 0.39
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (30 bp):
TATTTTTTATTTACTATGTATAATGTATAA
Found at i:93088803 original size:18 final size:18
Alignment explanation
Indices: 93088782--93088845 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
93088772 TAAATTATCA
93088782 TTATTAATGATATATAAT
1 TTATTAATGATATATAAT
* *
93088800 TTATTGAAT-TTAATATTAT
1 TTATT-AATGAT-ATATAAT
93088819 CATTATTAATGATATATAAT
1 --TTATTAATGATATATAAT
93088839 TTATTAA
1 TTATTAA
93088846 ATTTAATGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
18 13 0.35
19 9 0.24
20 9 0.24
21 6 0.16
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (18 bp):
TTATTAATGATATATAAT
Found at i:93088821 original size:39 final size:39
Alignment explanation
Indices: 93088775--93088852 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
93088765 TATAACCTAA
*
93088775 ATTATCATTATTAATGATATATAATTTATTGAATTTAAT
1 ATTATCATTATTAATGATATATAATTTATTAAATTTAAT
93088814 ATTATCATTATTAATGATATATAATTTATTAAATTTAAT
1 ATTATCATTATTAATGATATATAATTTATTAAATTTAAT
93088853 GATATGGAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (39 bp):
ATTATCATTATTAATGATATATAATTTATTAAATTTAAT
Found at i:93090771 original size:47 final size:47
Alignment explanation
Indices: 93090715--93090828 Score: 158
Period size: 47 Copynumber: 2.4 Consensus size: 47
93090705 GGTTTAGCCA
* *
93090715 CATATCTGTTCTAGTAGTTTGACTGCAATTATGGTGGCTCGACCATT
1 CATATCTGTTCTAGCAGTTTGACTGCAATTATGGTGGCTCGACCACT
* * *
93090762 CATATCTGTTCTGGCAGTTTGACTGCAATTATGGTGGCTTGACTACT
1 CATATCTGTTCTAGCAGTTTGACTGCAATTATGGTGGCTCGACCACT
*
93090809 CATATCTATTCT-GACAGTTT
1 CATATCTGTTCTAG-CAGTTT
93090829 ATCTGCGACT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
46 1 0.02
47 59 0.98
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.39
Consensus pattern (47 bp):
CATATCTGTTCTAGCAGTTTGACTGCAATTATGGTGGCTCGACCACT
Found at i:93104334 original size:45 final size:45
Alignment explanation
Indices: 93104232--93104402 Score: 215
Period size: 45 Copynumber: 3.9 Consensus size: 45
93104222 CGAATTCATC
* * **
93104232 CACCGGCATT-TCGCCTGCTAGGCTCGAA-GCATG-ATA-TCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATTT
* * *
93104274 CACCAGCATTATAGCCTGCAAGGCTCGAAGGCCCGAATAGTATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTT
* *
93104319 CACCGGCATTGTAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTT
*
93104364 CACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
93104403 TTACTGTACG
Statistics
Matches: 113, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
42 9 0.08
43 16 0.14
44 3 0.03
45 84 0.74
46 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (45 bp):
CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTT
Found at i:93107877 original size:49 final size:49
Alignment explanation
Indices: 93107809--93108054 Score: 285
Period size: 49 Copynumber: 5.0 Consensus size: 49
93107799 GTAGCCAAAG
* * * * *
93107809 CTATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAA
1 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAA
*
93107858 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAA
1 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAA
*
93107907 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC-AA
* * * * * *
93107957 CCATCTGATACACGTAGTAGCCTGTACTTAGTACTACACACGTGATCACAG
1 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAA
* * ** * * *
93108008 TTTTTGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC
93108055 TCACAATAGA
Statistics
Matches: 170, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
49 89 0.52
50 44 0.26
51 36 0.21
52 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (49 bp):
CTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAA
Found at i:93116242 original size:21 final size:23
Alignment explanation
Indices: 93116218--93116274 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
93116208 CTAGTGTATC
*
93116218 AATAATTTTTT-CAA-TAATTGT
1 AATAATTTTTTAAAAGTAATTGT
93116239 AAT-ATTTTTTAAAAGTAATTGT
1 AATAATTTTTTAAAAGTAATTGT
93116261 AAT-ATTATTTTAAA
1 AATAATT-TTTTAAA
93116275 TCTAAGACTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 7 0.22
21 5 0.16
22 13 0.41
23 7 0.22
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (23 bp):
AATAATTTTTTAAAAGTAATTGT
Found at i:93116257 original size:22 final size:23
Alignment explanation
Indices: 93116232--93116274 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
93116222 ATTTTTTCAA
93116232 TAATTGTAATATT-TTTTAAAAG
1 TAATTGTAATATTATTTTAAAAG
93116254 TAATTGTAATATTATTTTAAA
1 TAATTGTAATATTATTTTAAA
93116275 TCTAAGACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (23 bp):
TAATTGTAATATTATTTTAAAAG
Found at i:93116357 original size:3 final size:3
Alignment explanation
Indices: 93116349--93116398 Score: 59
Period size: 3 Copynumber: 16.7 Consensus size: 3
93116339 AGTACTAACC
*
93116349 AAT AAT AAT AAT AAC AAT AA- AA- ACAT CAAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT
93116394 AAT AA
1 AAT AA
93116399 AGAAAATCTA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 3 0.07
3 36 0.86
4 2 0.05
5 1 0.02
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:93118198 original size:46 final size:46
Alignment explanation
Indices: 93118131--93118299 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 46
93118121 AACCCGCCCC
*
93118131 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* * *
93118177 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * ***
93118225 TCA-TGAACTCAGACTCAACTCAACAAGTTCAGAAATTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
93118270 TAAGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGTGAACTCAGACTCAACTCAACGAGTT
93118300 TGGATGCTCA
Statistics
Matches: 98, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
45 2 0.02
46 55 0.56
47 26 0.27
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:93118243 original size:93 final size:93
Alignment explanation
Indices: 93118135--93118306 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
93118125 CGCCCCTAAG
* * ***
93118135 TGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCAGACTCAACTCAACAAGCTCAGAAATTCGCATCCATAAGTGAACTCGGACTCAACTCA
93118200 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
*
93118228 TGAACTCAGACTCAACTCAACAAGTTCAGAAATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCAGACTCAACTCAACAAGCTCAGAAATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
93118293 ACGAGTTTGGATGC
66 ACGAGTTCGGATGC
93118307 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (93 bp):
TGAACTCAGACTCAACTCAACAAGCTCAGAAATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:93120991 original size:15 final size:15
Alignment explanation
Indices: 93120971--93121039 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
93120961 GTATCTTGGG
93120971 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
93120986 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
93121001 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
93121016 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
93121031 TTTCTTTAT
1 TTTCTTTAT
93121040 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:93121040 original size:30 final size:30
Alignment explanation
Indices: 93120962--93121049 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
93120952 CATAGTATCG
* * * *
93120962 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
93120992 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
93121022 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
93121050 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:93124337 original size:3 final size:3
Alignment explanation
Indices: 93124331--93124371 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
93124321 AAACATAAGC
*
93124331 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAC TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
93124372 TTATAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:93126370 original size:16 final size:16
Alignment explanation
Indices: 93126349--93126380 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
93126339 GCAATGAGGG
93126349 TAAACAAGTACAATTA
1 TAAACAAGTACAATTA
93126365 TAAACAAGTACAATTA
1 TAAACAAGTACAATTA
93126381 GACGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.25
Consensus pattern (16 bp):
TAAACAAGTACAATTA
Found at i:93132399 original size:10 final size:9
Alignment explanation
Indices: 93132363--93132396 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
93132353 GAAATTATGC
93132363 TTAAATTAGA
1 TTAAATTA-A
93132373 TTAAATTAA
1 TTAAATTAA
93132382 CTTAAATTAA
1 -TTAAATTAA
93132392 TTAAA
1 TTAAA
93132397 ATTTGTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.26
10 17 0.74
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (9 bp):
TTAAATTAA
Found at i:93133524 original size:45 final size:45
Alignment explanation
Indices: 93133473--93133564 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
93133463 AAACCGGTCG
93133473 CAATGACATGCATTTCATTTGTCCTTAATTGATTATACGATGACT
1 CAATGACATGCATTTCATTTGTCCTTAATTGATTATACGATGACT
93133518 CAATGACATGCATTTCATTTGTCCTTAATTGATTATACGATGACT
1 CAATGACATGCATTTCATTTGTCCTTAATTGATTATACGATGACT
93133563 CA
1 CA
93133565 CTTCATTTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.39
Consensus pattern (45 bp):
CAATGACATGCATTTCATTTGTCCTTAATTGATTATACGATGACT
Found at i:93134553 original size:21 final size:21
Alignment explanation
Indices: 93134520--93134559 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
93134510 GGTGAGAAGT
93134520 AAAAGTTTAGGGAA-AAAATA
1 AAAAGTTTAGGGAATAAAATA
*
93134540 AAAAGGTTTGGGGAATAAAA
1 AAAA-GTTTAGGGAATAAAA
93134560 GTTTGAGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.55, C:0.00, G:0.25, T:0.20
Consensus pattern (21 bp):
AAAAGTTTAGGGAATAAAATA
Found at i:93135614 original size:47 final size:47
Alignment explanation
Indices: 93135545--93135649 Score: 174
Period size: 47 Copynumber: 2.2 Consensus size: 47
93135535 AAACCTTAAA
*
93135545 TGTTCAAACCCGAGTTTGGTCTATATTTTAAATGAGTCTAATTTTTT
1 TGTTCAAACCCGAGCTTGGTCTATATTTTAAATGAGTCTAATTTTTT
* *
93135592 TGTTCAAATCCGAGCTTGGTCTATATTTTAAATGAGTCTATTTTTTT
1 TGTTCAAACCCGAGCTTGGTCTATATTTTAAATGAGTCTAATTTTTT
*
93135639 TATTCAAACCC
1 TGTTCAAACCC
93135650 ATTTTAAGAC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (47 bp):
TGTTCAAACCCGAGCTTGGTCTATATTTTAAATGAGTCTAATTTTTT
Found at i:93138303 original size:11 final size:11
Alignment explanation
Indices: 93138289--93138329 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
93138279 TGTTTTCTCC
93138289 CTATTTTGCTA
1 CTATTTTGCTA
*
93138300 CTATTTTACTA
1 CTATTTTGCTA
* *
93138311 TTATGTTGCTA
1 CTATTTTGCTA
93138322 CTATTTTG
1 CTATTTTG
93138330 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:93138534 original size:18 final size:18
Alignment explanation
Indices: 93138513--93138551 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
93138503 GAAATATTTA
*
93138513 TTTGA-TGTTTTTAGTATT
1 TTTGATTGTTTATA-TATT
93138531 TTTGATTGTTTATATATT
1 TTTGATTGTTTATATATT
93138549 TTT
1 TTT
93138552 TAAAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.18, C:0.00, G:0.13, T:0.69
Consensus pattern (18 bp):
TTTGATTGTTTATATATT
Found at i:93138551 original size:19 final size:18
Alignment explanation
Indices: 93138506--93138552 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
93138496 TTGTTGAGAA
*
93138506 ATATTTATTTGATGTTTTT
1 ATATTT-TTTGATGTTTAT
93138525 AGTA-TTTTTGATTGTTTAT
1 A-TATTTTTTGA-TGTTTAT
93138544 ATATTTTTT
1 ATATTTTTT
93138553 AAAATTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 7 0.29
19 15 0.62
20 2 0.08
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.68
Consensus pattern (18 bp):
ATATTTTTTGATGTTTAT
Found at i:93144673 original size:3 final size:3
Alignment explanation
Indices: 93144665--93144690 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
93144655 AATCAAATTC
93144665 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
93144691 GACAACTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:93150929 original size:34 final size:34
Alignment explanation
Indices: 93150886--93150953 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
93150876 GGTAAAGTTG
*
93150886 GCATTATGCTACACTTGTAATACTCCATATCTTC
1 GCATTATGCTACACTTGTAACACTCCATATCTTC
93150920 GCATTATGCTACACTTGTAACACTCCATATCTTC
1 GCATTATGCTACACTTGTAACACTCCATATCTTC
93150954 AACTTAATCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.37
Consensus pattern (34 bp):
GCATTATGCTACACTTGTAACACTCCATATCTTC
Found at i:93152177 original size:146 final size:146
Alignment explanation
Indices: 93151911--93152194 Score: 401
Period size: 146 Copynumber: 1.9 Consensus size: 146
93151901 GGCTGCTGCA
* * **
93151911 ATTTTGCTATTCAATTGTTGGTTGTAGCTAAACAATTGTTGTTTTTCTTGGCACTTCTCTGCAAC
1 ATTTTGCTATTCAATTGTTAGTTGTAGCTAAACAATTGCTACTTTTCTTGGCACTTCTCTGCAAC
* *
93151976 TACTGGCTGCTGCTATTCATTCGTTGTTTTTCTGACAACTGCTGCCTGCACTATTTTGCTATTCA
66 TACTGGCTGCTACTATTCATTCGTTGTTTTTCTGACAACTGCTGACTGCACTATTTTGCTATTCA
93152041 ATTCTTGGTTGCCGTC
131 ATTCTTGGTTGCCGTC
* *
93152057 ATTTTGCTATTCATTTGTTAGTTGCT-GCTAAGCAATTGCTACTTTTCTTGGCACTTCTCTGCAA
1 ATTTTGCTATTCAATTGTTAGTTG-TAGCTAAACAATTGCTACTTTTCTTGGCACTTCTCTGCAA
* * * ***
93152121 CTGCTGGCTGCTACTATTCATTTGTTGTTTTTC-GACAATTGCTGACTGTTGTTATTTTGCTATT
65 CTACTGGCTGCTACTATTCATTCGTTGTTTTTCTGACAACTGCTGACTG-CACTATTTTGCTATT
*
93152185 CAATTGTTGG
129 CAATTCTTGG
93152195 ATGCTGCCAT
Statistics
Matches: 121, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
145 13 0.11
146 107 0.88
147 1 0.01
ACGTcount: A:0.17, C:0.20, G:0.18, T:0.46
Consensus pattern (146 bp):
ATTTTGCTATTCAATTGTTAGTTGTAGCTAAACAATTGCTACTTTTCTTGGCACTTCTCTGCAAC
TACTGGCTGCTACTATTCATTCGTTGTTTTTCTGACAACTGCTGACTGCACTATTTTGCTATTCA
ATTCTTGGTTGCCGTC
Found at i:93152630 original size:21 final size:22
Alignment explanation
Indices: 93152586--93152630 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
93152576 ATAATAGTGA
*
93152586 TTTAGTTGTGTTTTTATATTAT
1 TTTAGTTGTGTTTTTATATGAT
93152608 TTTAGTTGAT-TTTTTA-ATGAT
1 TTTAGTTG-TGTTTTTATATGAT
93152629 TT
1 TT
93152631 CTTGTATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 14 0.67
23 1 0.05
ACGTcount: A:0.20, C:0.00, G:0.13, T:0.67
Consensus pattern (22 bp):
TTTAGTTGTGTTTTTATATGAT
Found at i:93154441 original size:18 final size:18
Alignment explanation
Indices: 93154420--93154463 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
93154410 ATAATCAGTA
93154420 ATTCAGTAACAGTCAAAT
1 ATTCAGTAACAGTCAAAT
* *
93154438 ATTCAGTAGCAGTCAATT
1 ATTCAGTAACAGTCAAAT
93154456 ATTCAGTA
1 ATTCAGTA
93154464 CCTTTATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (18 bp):
ATTCAGTAACAGTCAAAT
Found at i:93154681 original size:51 final size:53
Alignment explanation
Indices: 93154572--93154681 Score: 143
Period size: 51 Copynumber: 2.1 Consensus size: 53
93154562 GAATACACTG
* * *
93154572 TAACAGTAACAGTAGCGGTACACAGAGTACCTCATCGGAACAAATCTGGAACAG
1 TAACAGTAACAGTAGAGGTA-ACAGAGTACCTCATCGGAACAAATCCGGAACAA
* * *
93154626 TAACAGTAACAGTA-AGGT-ACGGAGTACCTCTTCGGAACAAATCCGGAGCAA
1 TAACAGTAACAGTAGAGGTAACAGAGTACCTCATCGGAACAAATCCGGAACAA
93154677 TAACA
1 TAACA
93154682 ATAAGGCGAC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
51 33 0.66
53 3 0.06
54 14 0.28
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (53 bp):
TAACAGTAACAGTAGAGGTAACAGAGTACCTCATCGGAACAAATCCGGAACAA
Done.