Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 172 of 325
Found at i:55885061 original size:24 final size:24
Alignment explanation
Indices: 55885016--55885061 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
55885006 TTATTCCCAA
* *
55885016 ATGGTGTGTAGGGTTGGTATGGAG
1 ATGGTGTGTAGGGCTAGTATGGAG
55885040 ATGGTGTGTAGAGGCTAG-ATGG
1 ATGGTGTGTAG-GGCTAGTATGG
55885062 GTAGGACCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.20, C:0.02, G:0.48, T:0.30
Consensus pattern (24 bp):
ATGGTGTGTAGGGCTAGTATGGAG
Found at i:55885115 original size:18 final size:18
Alignment explanation
Indices: 55885074--55885128 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
55885064 AGGACCTACA
55885074 TACTG-TTACT-TCTACTG
1 TACTGTTTACTGT-TACTG
* * *
55885091 CACTGTTTATTGTTATTG
1 TACTGTTTACTGTTACTG
55885109 TACTGTTTACTGTTACTG
1 TACTGTTTACTGTTACTG
55885127 TA
1 TA
55885129 ATGGGCCAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
17 4 0.13
18 25 0.83
19 1 0.03
ACGTcount: A:0.18, C:0.16, G:0.15, T:0.51
Consensus pattern (18 bp):
TACTGTTTACTGTTACTG
Found at i:55888997 original size:15 final size:15
Alignment explanation
Indices: 55888958--55889002 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
55888948 AAACCAGAAT
55888958 AAAGAAATCCAAGAC
1 AAAGAAATCCAAGAC
* *
55888973 AGAGGAAATCCAAGAG
1 A-AAGAAATCCAAGAC
55888989 AAAGAAATCCAAGA
1 AAAGAAATCCAAGA
55889003 TACCATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.58, C:0.16, G:0.20, T:0.07
Consensus pattern (15 bp):
AAAGAAATCCAAGAC
Found at i:55895643 original size:18 final size:18
Alignment explanation
Indices: 55895617--55895656 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
55895607 TGATGCCATA
*
55895617 ATAAACATAATCATAAAC
1 ATAAACATAAGCATAAAC
* *
55895635 ATAACCATAGGCATAAAC
1 ATAAACATAAGCATAAAC
55895653 ATAA
1 ATAA
55895657 GTTTATTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.17, G:0.05, T:0.20
Consensus pattern (18 bp):
ATAAACATAAGCATAAAC
Found at i:55897966 original size:27 final size:27
Alignment explanation
Indices: 55897918--55898105 Score: 216
Period size: 27 Copynumber: 7.0 Consensus size: 27
55897908 AAACATACAT
* * *
55897918 CACATAGGGGTAAAATAGTCATCTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* * *
55897945 CATAAAAGGGCAAAATAATCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* *
55897972 CATATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
*
55897999 CCCATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* *
55898026 CCCATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* *
55898053 CTCATAAGGG-TAAATCAGTCATTTTAC
1 CACATAAGGGCAAAAT-AGTCATTTTAC
* **
55898080 CTCATAAATGCAAAATAGTCATTTTA
1 CACATAAGGGCAAAATAGTCATTTTA
55898106 TCGATTAAGG
Statistics
Matches: 140, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 3 0.02
27 133 0.95
28 4 0.03
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATTTTAC
Found at i:55898116 original size:81 final size:81
Alignment explanation
Indices: 55897929--55898105 Score: 239
Period size: 81 Copynumber: 2.2 Consensus size: 81
55897919 ACATAGGGGT
* ** * *
55897929 AAAATAGTCATCTTACCATAAAAGGGCAAAATAATCATTTTACCATATAAGGGCAAAACAGTCAT
1 AAAATAGTCATTTTACCCCATAAGGGCAAAACAATCATTTTACCATATAAGGGCAAAACAGTCAT
*
55897994 TTTACCCCATAAGGGC
66 TTTACCCCATAAAGGC
* * *
55898010 AAAATAGTCATTTTACCCCATAAGGGCAAAACAGTCATTTTACC-TCATAAGGGTAAATCAGTCA
1 AAAATAGTCATTTTACCCCATAAGGGCAAAACAATCATTTTACCAT-ATAAGGGCAAAACAGTCA
* *
55898074 TTTTACCTCATAAATGC
65 TTTTACCCCATAAAGGC
55898091 AAAATAGTCATTTTA
1 AAAATAGTCATTTTA
55898106 TCGATTAAGG
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 1 0.01
81 83 0.99
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.28
Consensus pattern (81 bp):
AAAATAGTCATTTTACCCCATAAGGGCAAAACAATCATTTTACCATATAAGGGCAAAACAGTCAT
TTTACCCCATAAAGGC
Found at i:55900739 original size:28 final size:29
Alignment explanation
Indices: 55900674--55900772 Score: 116
Period size: 28 Copynumber: 3.5 Consensus size: 29
55900664 CATGAGATTG
* *
55900674 GCACTAAGTGTGCG-GGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGGTTC-GATTATATA
55900703 GCACTAAGTGTGCGAGGTT-GATTATATA
1 GCACTAAGTGTGCGAGGTTCGATTATATA
*
55900731 GCACTAAGTGTGCGA-GTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGGTTCGATTATAT-A
*
55900759 GAACTAAGTGTGCG
1 GCACTAAGTGTGCG
55900773 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
27 4 0.06
28 41 0.65
29 14 0.22
30 4 0.06
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGGTTCGATTATATA
Found at i:55908005 original size:49 final size:49
Alignment explanation
Indices: 55907948--55908177 Score: 207
Period size: 49 Copynumber: 4.7 Consensus size: 49
55907938 CTGGTACGCA
* * * *
55907948 TAGTAGCCTGAACTTAGTGCTACACATGCGACCAATTATCCAG-TACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGATACA-G
* * * ** * *
55907997 TAGTAGCCTGCACTCAGTACTATATACGTGACCTAACCAT-CTGATACAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCAGATACAG
* * *
55908046 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGAGATGCA-
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCAGATACAG
* * * * *
55908096 TAGTAGCCTGCACTTAGTACTACACATGAGACCAAATAT-CTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGATACA-G
*
55908145 TAGTAGCCTGTACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
55908178 TCACAATAGA
Statistics
Matches: 143, Mismatches: 31, Indels: 14
0.76 0.16 0.07
Matches are distributed among these distances:
47 4 0.03
48 3 0.02
49 91 0.64
50 40 0.28
51 5 0.03
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGATACAG
Found at i:55908115 original size:99 final size:99
Alignment explanation
Indices: 55907997--55908175 Score: 261
Period size: 99 Copynumber: 1.8 Consensus size: 99
55907987 CCAGTACATG
* * * *
55907997 TAGTAGCCTGCACTCAGTACTATATACGTGACCTAACCATCTGATACAC-TAGTAGCCTGCACTT
1 TAGTAGCCTGCACTCAGTACTACACACGAGACC-AAACATCTGATACACGTAGTAGCCTGCACTT
55908061 AGTACTACACACGTGATCGAAGTTATCGAGATGCA
65 AGTACTACACACGTGATCGAAGTTATCGAGATGCA
* * * * *
55908096 TAGTAGCCTGCACTTAGTACTACACATGAGACCAAATATCTGGTACACGTAGTAGCCTGTACTTA
1 TAGTAGCCTGCACTCAGTACTACACACGAGACCAAACATCTGATACACGTAGTAGCCTGCACTTA
55908161 GTACTACACACGTGA
66 GTACTACACACGTGA
55908176 CCTCACAATA
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
98 12 0.17
99 58 0.83
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTCAGTACTACACACGAGACCAAACATCTGATACACGTAGTAGCCTGCACTTA
GTACTACACACGTGATCGAAGTTATCGAGATGCA
Found at i:55908454 original size:27 final size:27
Alignment explanation
Indices: 55908424--55908477 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
55908414 TCATACAACC
* *
55908424 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
55908451 CATGTAACAATAATTTTCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
55908478 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:55922237 original size:40 final size:40
Alignment explanation
Indices: 55922160--55922291 Score: 146
Period size: 40 Copynumber: 3.3 Consensus size: 40
55922150 ACCCAAGTAT
*
55922160 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTAGCACAAATGC
*
55922199 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAA-CAACTAGCACAAATGC
* * * *
55922239 CTTCGGGACATAGCCCGGATATAGA-AACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATA-ACAACTAGCACAAATGC
*
55922279 CTTCGGATCTTAG
1 CTTCGGGTCTTAG
55922292 TTCGATTATC
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
38 1 0.01
39 11 0.14
40 64 0.82
41 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAATGC
Found at i:55925886 original size:16 final size:16
Alignment explanation
Indices: 55925879--55925910 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
55925869 GTGAAAGTGT
55925879 ATATATGTGATAAGGC
1 ATATATGTGATAAGGC
55925895 ATATATGTGATAAGGC
1 ATATATGTGATAAGGC
55925911 CGAATGGCCA
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:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (16 bp):
ATATATGTGATAAGGC
Found at i:55925888 original size:63 final size:63
Alignment explanation
Indices: 55925832--55925957 Score: 207
Period size: 63 Copynumber: 2.0 Consensus size: 63
55925822 GTGAATGTAT
* * *
55925832 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGAC
55925895 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAG
55925958 GCCTAATGGC
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
63 44 0.75
65 15 0.25
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (63 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGAC
Found at i:55925934 original size:47 final size:47
Alignment explanation
Indices: 55925895--55926243 Score: 518
Period size: 47 Copynumber: 7.3 Consensus size: 47
55925885 GTGATAAGGC
* *
55925895 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
*
55925944 ATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
55925991 ATATATTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATA-TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
55926041 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* *
55926088 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAGGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
55926135 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* * * * * * *
55926182 ATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
55926229 AATAAATGTGATAAG
1 -ATATATGTGATAAG
55926244 TCCCGAAGGG
Statistics
Matches: 278, Mismatches: 18, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
47 135 0.49
48 51 0.18
49 86 0.31
50 6 0.02
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
Found at i:55926008 original size:97 final size:96
Alignment explanation
Indices: 55925895--55926243 Score: 542
Period size: 97 Copynumber: 3.7 Consensus size: 96
55925885 GTGATAAGGC
55925895 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
*
55925960 CTAATGGCCAATGTGATGAATGTGAAAGTGT
66 CTAATGGCCGATGTGATGAATGTGAAAGTGT
* *
55925991 ATATATTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 ATATA-TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
55926056 CCTAATGGCCGATGTGATGAATGTGAAAGTGT
65 CCTAATGGCCGATGTGATGAATGTGAAAGTGT
* * * * *
55926088 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG-AAG-GTGTATATATGTGATGAGGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
55926151 CTAATGGCCGATGTGATGAATGTGAAAGTGT
66 CTAATGGCCGATGTGATGAATGTGAAAGTGT
* * * * * *
55926182 ATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTA-ATAAATGTGATAAG
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
55926244 TCCCGAAGGG
Statistics
Matches: 233, Mismatches: 17, Indels: 7
0.91 0.07 0.03
Matches are distributed among these distances:
94 81 0.35
95 18 0.08
96 41 0.18
97 93 0.40
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
CTAATGGCCGATGTGATGAATGTGAAAGTGT
Found at i:55934660 original size:40 final size:40
Alignment explanation
Indices: 55934593--55934769 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
55934583 ACCCAAGTAT
*
55934593 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
55934632 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
55934672 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
55934712 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
55934752 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
55934770 TTATCATCCG
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 104 0.87
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:55953758 original size:18 final size:19
Alignment explanation
Indices: 55953724--55953767 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
55953714 GATACTAATT
55953724 ATATATGATGTAAATGAAA
1 ATATATGATGTAAATGAAA
*
55953743 ATATATG-TGTATATGAAA
1 ATATATGATGTAAATGAAA
55953761 AGTATAT
1 A-TATAT
55953768 TCGGCAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (19 bp):
ATATATGATGTAAATGAAA
Found at i:55954860 original size:28 final size:28
Alignment explanation
Indices: 55954820--55954907 Score: 149
Period size: 28 Copynumber: 3.1 Consensus size: 28
55954810 TGGGAAGTAG
* *
55954820 TTGGGCCTGATGGGCCATATGAATTTGA
1 TTGGGCCTGATGGGCCATGTGAATGTGA
55954848 TTGGGCCTGATGGGCCATGTGAATGTGA
1 TTGGGCCTGATGGGCCATGTGAATGTGA
*
55954876 TTGGGCTTGATGGGCCATGTGAATGTGA
1 TTGGGCCTGATGGGCCATGTGAATGTGA
55954904 TTGG
1 TTGG
55954908 TAACTAGTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.18, C:0.12, G:0.38, T:0.32
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATGTGAATGTGA
Found at i:55954923 original size:14 final size:14
Alignment explanation
Indices: 55954904--55954954 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
55954894 GTGAATGTGA
55954904 TTGGTAACTAGTTT
1 TTGGTAACTAGTTT
* * *
55954918 TTGGTAAATGGGTT
1 TTGGTAACTAGTTT
* *
55954932 GTGG-ACCTAGTTT
1 TTGGTAACTAGTTT
55954945 TTGGTAACTA
1 TTGGTAACTA
55954955 CTTAAGCAGA
Statistics
Matches: 26, Mismatches: 10, Indels: 2
0.68 0.26 0.05
Matches are distributed among these distances:
13 8 0.31
14 18 0.69
ACGTcount: A:0.22, C:0.08, G:0.27, T:0.43
Consensus pattern (14 bp):
TTGGTAACTAGTTT
Found at i:55955229 original size:27 final size:27
Alignment explanation
Indices: 55955205--55955704 Score: 510
Period size: 27 Copynumber: 18.4 Consensus size: 27
55955195 AGACATTATT
* * *
55955205 GAAACACCCTCAATTTGAAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
55955232 GAAATA-CCTCCGATTTGTAAAATTACC
1 GAAATACCCT-CGATTTGTAAAATTACC
** * * *
55955259 GAAATA-CCTTTAATTGTGAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
* *
55955285 GAAATATCCTCAATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
55955312 GAAATACCCTTGATTTGTAAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
* *
55955339 GAAATACCCTCGA-TTGTGAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
*
55955365 GAAAAACCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
55955392 GAAATACCGTCGA-TTGTGAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
55955418 GAAATACCTTCAATTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
55955445 AAAATACCCTCGATTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
55955472 GAAACACCCTCGATTTGTAAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
*
55955499 GAAATATCCC-CGATTTGTAAAATTATC
1 GAAATA-CCCTCGATTTGTAAAATTACC
* *
55955526 GAAATATCAAAATACCTCAATTTGTAAAATTACT
1 GAAATA-C------CCTCGATTTGTAAAATTACC
* * *
55955560 GAAATAACCTCGATTTGTAAATTTACT
1 GAAATACCCTCGATTTGTAAAATTACC
*
55955587 GAAATACCCTCGATTTGTAAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
* *
55955614 AAAATACCCTCAATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
55955641 AAAACACCC-CTGATTTGTAAAATTATC
1 GAAATACCCTC-GATTTGTAAAATTACC
* *
55955668 GAAATACCCT-TATAGTGTAAAATTACC
1 GAAATACCCTCGAT-TTGTAAAATTACC
55955695 GAAATACCCT
1 GAAATACCCT
55955705 TACAGTGTAA
Statistics
Matches: 400, Mismatches: 58, Indels: 30
0.82 0.12 0.06
Matches are distributed among these distances:
26 71 0.18
27 304 0.76
28 3 0.01
33 2 0.00
34 20 0.05
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
GAAATACCCTCGATTTGTAAAATTACC
Found at i:55955337 original size:80 final size:80
Alignment explanation
Indices: 55955199--55955730 Score: 520
Period size: 80 Copynumber: 6.5 Consensus size: 80
55955189 ATAAAGAGAC
* * *
55955199 ATTATTGAAACACCCTCAATTTGAAAAATTACCGAAATA-CCTCCGATTTGTAAAATTACCGAAA
1 ATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCT-CGATTTGTAAAATTACCGAAA
* * *
55955263 TACCTTTAATTGTGAA
65 TACCCTCAATTGTAAA
* * *
55955279 ATTACTGAAATATCCTCAATTTGTAAAATTACCGAAATACCCTTGATTTGTAAAATTACTGAAAT
1 ATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAAT
* *
55955344 ACCCTCGATTGTGAA
66 ACCCTCAATTGTAAA
* * * *
55955359 ATTACTGAAAAACCCTCGATTTGTAAAATTACCGAAATACCGTCGA-TTGTGAAATTACCGAAAT
1 ATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAAT
*
55955423 ACCTTCAATTTGTAAA
66 ACCCTCAA-TTGTAAA
* * * * *
55955439 ATTA-TCAAAATACCCTCGATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATTACTGAAA
1 ATTACT-GAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAA
*
55955503 TATCCC-CGATTTGTAAA
65 TA-CCCTC-AATTGTAAA
* * *
55955520 ATTA-TCGAAATATCAAAATACCTCAATTTGTAAAATTACTGAAATAACCTCGATTTGTAAATTT
1 ATTACT-GAAATA-C------CCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATT
* *
55955584 ACTGAAATACCCTCGATTTGTAAA
58 ACCGAAATACCCTC-AATTGTAAA
* * * *
55955608 ATTACTAAAATACCCTCAATTTGTAAAATTACCAAAACACCC-CTGATTTGTAAAATTATCGAAA
1 ATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTC-GATTTGTAAAATTACCGAAA
* *
55955672 TACCCTTATAGTGTAAA
65 TACCCTCA-ATTGTAAA
* * * * *
55955689 ATTACCGAAATACCCTTACA-GTGTAAAATGACCGACATACCC
1 ATTACTGAAATACCCTCA-ATTTGTAAAATTACCGAAATACCC
55955731 CTATAGGGTA
Statistics
Matches: 380, Mismatches: 54, Indels: 35
0.81 0.12 0.07
Matches are distributed among these distances:
79 23 0.06
80 155 0.41
81 125 0.33
82 5 0.01
87 4 0.01
88 67 0.18
89 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.31
Consensus pattern (80 bp):
ATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAAT
ACCCTCAATTGTAAA
Found at i:55955571 original size:88 final size:89
Alignment explanation
Indices: 55955441--55955700 Score: 287
Period size: 88 Copynumber: 3.0 Consensus size: 89
55955431 TTTGTAAAAT
* *
55955441 TATCAAAATACCCTCGATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATTACTGAAATAT
1 TATCAAAATACCCTCAATTTGTAAAATTATCGAAACAACCTCGATTTGTAAAATTACTGAAATA-
55955506 CCC-CGATTTGTAAAATTATCGAAA
65 CCCTCGATTTGTAAAATTATCGAAA
* *
55955530 TATCAAAATA-CCTCAATTTGTAAAATTA-CTGAAATAACCTCGATTTGTAAATTTACTGAAATA
1 TATCAAAATACCCTCAATTTGTAAAATTATC-GAAACAACCTCGATTTGTAAAATTACTGAAATA
55955593 CCCTCGATTTGTAAAATTA-C----
65 CCCTCGATTTGTAAAATTATCGAAA
* * *
55955613 --T-AAAATACCCTCAATTTGTAAAATTACCAAAAC-ACCCCTGATTTGTAAAATTA-TCGAAAT
1 TATCAAAATACCCTCAATTTGTAAAATTATCGAAACAACCTC-GATTTGTAAAATTACT-GAAAT
* * *
55955673 ACCCT-TATAGTGTAAAATTACCGAAA
64 ACCCTCGAT-TTGTAAAATTATCGAAA
55955699 TA
1 TA
55955701 CCCTTACAGT
Statistics
Matches: 147, Mismatches: 10, Indels: 29
0.79 0.05 0.16
Matches are distributed among these distances:
80 13 0.09
81 55 0.37
82 2 0.01
87 5 0.03
88 62 0.42
89 10 0.07
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (89 bp):
TATCAAAATACCCTCAATTTGTAAAATTATCGAAACAACCTCGATTTGTAAAATTACTGAAATAC
CCTCGATTTGTAAAATTATCGAAA
Found at i:55955580 original size:142 final size:142
Alignment explanation
Indices: 55955405--55955673 Score: 375
Period size: 142 Copynumber: 1.9 Consensus size: 142
55955395 ATACCGTCGA
*
55955405 TTGTGAAATTACCGAAATACCTTCAATTTGTAAAATTA-TCAAAATACCCTCGATTTGTAAAATT
1 TTGTAAAATTACCGAAATACCTTCAATTTGTAAAATTACT-AAAATACCCTCGATTTGTAAAATT
* * ** *
55955469 A-TCGAAACACCCTCGATTTGTAAAATTACTGAAATATCCCC-GATTTGTAAAATTATCGAAATA
65 ACT-AAAACACCCTCAATTTGTAAAATTACCAAAACA-CCCCTGATTTGTAAAATTATCGAAATA
55955532 TCAAAATACCTCAAT
128 TCAAAATACCTCAAT
* * * *
55955547 TTGTAAAATTACTGAAATAACC-TCGATTTGTAAATTTACTGAAATACCCTCGATTTGTAAAATT
1 TTGTAAAATTACCGAAAT-ACCTTCAATTTGTAAAATTACTAAAATACCCTCGATTTGTAAAATT
*
55955611 ACTAAAATACCCTCAATTTGTAAAATTACCAAAACACCCCTGATTTGTAAAATTATCGAAATA
65 ACTAAAACACCCTCAATTTGTAAAATTACCAAAACACCCCTGATTTGTAAAATTATCGAAATA
55955674 CCCTTATAGT
Statistics
Matches: 112, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
141 4 0.04
142 103 0.92
143 5 0.04
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.33
Consensus pattern (142 bp):
TTGTAAAATTACCGAAATACCTTCAATTTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTA
CTAAAACACCCTCAATTTGTAAAATTACCAAAACACCCCTGATTTGTAAAATTATCGAAATATCA
AAATACCTCAAT
Found at i:55955630 original size:115 final size:116
Alignment explanation
Indices: 55955419--55955638 Score: 331
Period size: 115 Copynumber: 1.9 Consensus size: 116
55955409 GAAATTACCG
*
55955419 AAATACCTTCAATTTGTAAAATTATCAAAATACCCTCGATTTGTAAAATTATCGAAACACCCTCG
1 AAATACCTTCAATTTGTAAAATTATCAAAATAACCTCGATTTGTAAAATTATCGAAACACCCTCG
* *
55955484 ATTTGTAAAATTACTGAAATATCCCCGATTTGTAAAATTATCGAAATATCA
66 ATTTGTAAAATTACTAAAATATCCCCAATTTGTAAAATTATCGAAATATCA
* * *
55955535 AAATACC-TCAATTTGTAAAATTA-CTGAAATAACCTCGATTTGTAAATTTA-CTGAAATACCCT
1 AAATACCTTCAATTTGTAAAATTATC-AAAATAACCTCGATTTGTAAAATTATC-GAAACACCCT
55955597 CGATTTGTAAAATTACTAAAATA-CCCTCAATTTGTAAAATTA
64 CGATTTGTAAAATTACTAAAATATCCC-CAATTTGTAAAATTA
55955639 CCAAAACACC
Statistics
Matches: 95, Mismatches: 6, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
114 5 0.05
115 83 0.87
116 7 0.07
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (116 bp):
AAATACCTTCAATTTGTAAAATTATCAAAATAACCTCGATTTGTAAAATTATCGAAACACCCTCG
ATTTGTAAAATTACTAAAATATCCCCAATTTGTAAAATTATCGAAATATCA
Found at i:55955706 original size:27 final size:27
Alignment explanation
Indices: 55955547--55955730 Score: 151
Period size: 27 Copynumber: 6.8 Consensus size: 27
55955537 ATACCTCAAT
* *
55955547 TTGTAAAATTACTGAAATAACCTCGAT-
1 TTGTAAAATTACCGAAATACCCT-GATA
* *
55955574 TTGTAAATTTACTGAAATACCCTCGAT-
1 TTGTAAAATTACCGAAATACCCT-GATA
** *
55955601 TTGTAAAATTACTAAAATACCCTCA-A
1 TTGTAAAATTACCGAAATACCCTGATA
* *
55955627 TTTGTAAAATTACCAAAACACCCCTGAT-
1 -TTGTAAAATTACCGAAATA-CCCTGATA
* *
55955655 TTGTAAAATTATCGAAATACCCTTATA
1 TTGTAAAATTACCGAAATACCCTGATA
* * *
55955682 GTGTAAAATTACCGAAATACCCTTACA
1 TTGTAAAATTACCGAAATACCCTGATA
* * *
55955709 GTGTAAAATGACCGACATACCC
1 TTGTAAAATTACCGAAATACCC
55955731 CTATAGGGTA
Statistics
Matches: 135, Mismatches: 17, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
26 7 0.05
27 123 0.91
28 5 0.04
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
TTGTAAAATTACCGAAATACCCTGATA
Found at i:55955741 original size:27 final size:27
Alignment explanation
Indices: 55955656--55955745 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
55955646 ACCCCTGATT
* *
55955656 TGTAAAATTATCGAAATACCCTTATAG
1 TGTAAAATGACCGAAATACCCTTATAG
* *
55955683 TGTAAAATTACCGAAATACCCTTACAG
1 TGTAAAATGACCGAAATACCCTTATAG
* *
55955710 TGTAAAATGACCGACATACCCCTATAG
1 TGTAAAATGACCGAAATACCCTTATAG
*
55955737 GGTAAAATG
1 TGTAAAATG
55955746 GTTGTTTTGC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCTTATAG
Found at i:55958682 original size:20 final size:20
Alignment explanation
Indices: 55958582--55958717 Score: 69
Period size: 20 Copynumber: 6.8 Consensus size: 20
55958572 GTGAAATCAA
* *
55958582 GGGTACCGAAGTACAAATAG
1 GGGTACCGAAGTACAAACAT
* ** * * *
55958602 GGGCACATAAGTGCAATCAA
1 GGGTACCGAAGTACAAACAT
* * *
55958622 GGGTATCGAAGTATAAACAG
1 GGGTACCGAAGTACAAACAT
* * *
55958642 GGGCA-CGTAAGTGCAATCAT
1 GGGTACCG-AAGTACAAACAT
55958662 GGGTACCGAAGTACAAACAT
1 GGGTACCGAAGTACAAACAT
* * * *
55958682 GGGCA-TGTAAGTGCAATCAT
1 GGGTACCG-AAGTACAAACAT
*
55958702 GGGTACTGAAGTACAA
1 GGGTACCGAAGTACAA
55958718 TCAGGGGCAC
Statistics
Matches: 83, Mismatches: 29, Indels: 8
0.69 0.24 0.07
Matches are distributed among these distances:
19 3 0.04
20 76 0.92
21 4 0.05
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.18
Consensus pattern (20 bp):
GGGTACCGAAGTACAAACAT
Found at i:55958718 original size:20 final size:20
Alignment explanation
Indices: 55958650--55958720 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
55958640 AGGGGCACGT
* *
55958650 AAGTGCAATCATGGGTACCG
1 AAGTACAATCATGGGTACTG
* *
55958670 AAGTACAAACATGGGCA-TG
1 AAGTACAATCATGGGTACTG
*
55958689 TAAGTGCAATCATGGGTACTG
1 -AAGTACAATCATGGGTACTG
55958710 AAGTACAATCA
1 AAGTACAATCA
55958721 GGGGCACGCA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 1 0.02
20 38 0.93
21 2 0.05
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (20 bp):
AAGTACAATCATGGGTACTG
Found at i:55958724 original size:120 final size:120
Alignment explanation
Indices: 55958511--55958727 Score: 319
Period size: 120 Copynumber: 1.8 Consensus size: 120
55958501 GAGTTACCAG
* * * * *
55958511 AGTATAAAGAGGGGCACATAAGTGCATTCAGGGGTACCGGATTATAAACAGGGGCATGTAAGTGA
1 AGTATAAACAGGGGCACATAAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCATGTAAGTGA
55958576 AATCAAGGGTACCGAAGTACAAATAGGGGCACATAAGTGCAATCAAGGGTATCGA
66 AATCAAGGGTACCGAAGTACAAATAGGGGCACATAAGTGCAATCAAGGGTATCGA
* * * *
55958631 AGTATAAACAGGGGCACGTAAGTGCAATCATGGGTACCGAAGTACAAACATGGGCATGTAAGTGC
1 AGTATAAACAGGGGCACATAAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCATGTAAGTGA
* *
55958696 AATCATGGGTACTGAAGTAC-AATCAGGGGCAC
66 AATCAAGGGTACCGAAGTACAAAT-AGGGGCAC
55958728 GCAAATGTAA
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
119 3 0.04
120 82 0.96
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.18
Consensus pattern (120 bp):
AGTATAAACAGGGGCACATAAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCATGTAAGTGA
AATCAAGGGTACCGAAGTACAAATAGGGGCACATAAGTGCAATCAAGGGTATCGA
Found at i:55958741 original size:40 final size:40
Alignment explanation
Indices: 55958511--55958728 Score: 256
Period size: 40 Copynumber: 5.5 Consensus size: 40
55958501 GAGTTACCAG
* * * * * *
55958511 AGTATAAAGAGGGGCACATAAGTGCATTCAGGGGTACCGG
1 AGTACAAACAGGGGCACGTAAGTGCAATCATGGGTACCGA
* * * * *
55958551 ATTATAAACAGGGGCATGTAAGTGAAATCAAGGGTACCGA
1 AGTACAAACAGGGGCACGTAAGTGCAATCATGGGTACCGA
* * * *
55958591 AGTACAAATAGGGGCACATAAGTGCAATCAAGGGTATCGA
1 AGTACAAACAGGGGCACGTAAGTGCAATCATGGGTACCGA
*
55958631 AGTATAAACAGGGGCACGTAAGTGCAATCATGGGTACCGA
1 AGTACAAACAGGGGCACGTAAGTGCAATCATGGGTACCGA
* * *
55958671 AGTACAAACATGGGCATGTAAGTGCAATCATGGGTACTGA
1 AGTACAAACAGGGGCACGTAAGTGCAATCATGGGTACCGA
*
55958711 AGTACAATCAGGGGCACG
1 AGTACAAACAGGGGCACG
55958729 CAAATGTAAT
Statistics
Matches: 151, Mismatches: 27, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 151 1.00
ACGTcount: A:0.36, C:0.16, G:0.30, T:0.18
Consensus pattern (40 bp):
AGTACAAACAGGGGCACGTAAGTGCAATCATGGGTACCGA
Found at i:55960151 original size:19 final size:18
Alignment explanation
Indices: 55960125--55960163 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
55960115 CCCTTTCCCA
* *
55960125 CTCACTTCTTTATTTCTC
1 CTCACTTCCTTATGTCTC
55960143 CTCACCTTCCTTATGTCTC
1 CTCA-CTTCCTTATGTCTC
55960162 CT
1 CT
55960164 TATAGGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.10, C:0.38, G:0.03, T:0.49
Consensus pattern (18 bp):
CTCACTTCCTTATGTCTC
Found at i:55964798 original size:26 final size:26
Alignment explanation
Indices: 55964737--55964798 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
55964727 AGTACTATTG
* *
55964737 GGAAGTTCACAAAGAGCCAATTTAACA
1 GGAAGCTCACAAAGAGCC-ATATAACA
55964764 GGAAGCTCACAAAGAGCC-TATAATCA
1 GGAAGCTCACAAAGAGCCATATAA-CA
*
55964790 GGATGCTCA
1 GGAAGCTCA
55964799 TAAGAGCTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.13
26 10 0.32
27 17 0.55
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.18
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCATATAACA
Found at i:55965245 original size:20 final size:20
Alignment explanation
Indices: 55965195--55965246 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
55965185 TTGTGGTCTC
* *
55965195 ACACGCCCGTATGGCTCTAG
1 ACACGCCCGTGTGACTCTAG
55965215 ACACGCCCGTGTGACTCTAG
1 ACACGCCCGTGTGACTCTAG
55965235 ACACGCCCGTGT
1 ACACGCCCGTGT
55965247 CTTCAGCCCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.19, C:0.37, G:0.25, T:0.19
Consensus pattern (20 bp):
ACACGCCCGTGTGACTCTAG
Found at i:55965357 original size:13 final size:13
Alignment explanation
Indices: 55965339--55965373 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
55965329 CCGTGTCTTC
*
55965339 CACACGGCTGAGA
1 CACACGGCCGAGA
55965352 CACACGGCCGAGA
1 CACACGGCCGAGA
55965365 CACACGGCC
1 CACACGGCC
55965374 ATGTCTCTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.40, G:0.29, T:0.03
Consensus pattern (13 bp):
CACACGGCCGAGA
Found at i:55967007 original size:23 final size:23
Alignment explanation
Indices: 55966980--55967025 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
55966970 ATGCTCCTAG
55966980 GTTTTGAGAACATACCTGTGCTA
1 GTTTTGAGAACATACCTGTGCTA
55967003 GTTTTGAGAACATACCTGTGCTA
1 GTTTTGAGAACATACCTGTGCTA
55967026 TCTCTAAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (23 bp):
GTTTTGAGAACATACCTGTGCTA
Found at i:55969654 original size:40 final size:40
Alignment explanation
Indices: 55969580--55969801 Score: 301
Period size: 40 Copynumber: 5.6 Consensus size: 40
55969570 AACCCAAGTA
* *
55969580 CCTTCGGGAT-TTAG-CCGGATATAG-CAACTCGCACAAATA
1 CCTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATG
55969619 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
*
55969659 CCTTCGGGAT-TTAGCCCGGGTATAGTCACTAGCACAAATG
1 CCTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATG
* *
55969699 CCTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
55969739 CCTTTGGGACTTAGCCCAGATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
55969779 CCTTC-GGTACTTAGCCCGGATAT
1 CCTTCGGGT-CTTAGCCCGGATAT
55969802 CATTCAAATA
Statistics
Matches: 167, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
38 1 0.01
39 14 0.08
40 150 0.90
41 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:55969712 original size:80 final size:80
Alignment explanation
Indices: 55969580--55969801 Score: 340
Period size: 80 Copynumber: 2.8 Consensus size: 80
55969570 AACCCAAGTA
* * *
55969580 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGATTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
55969643 GTCACTAGCACAAATG
65 GTCACTAGCACAAATG
* *
55969659 CCTTCGGGATTTAGCCCGGGTATAGTCACTAGCACAAATGCCTTTGGGACTTAGCCCGGATATAG
1 CCTTCGGGATTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
55969724 TCACTAGCACAAATG
66 TCACTAGCACAAATG
* * * *
55969739 CCTTTGGGACTTAGCCCAGATATAGTCACTAGCACAAATGCCTTCGGTACTTAGCCCGGATAT
1 CCTTCGGGATTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
55969802 CATTCAAATA
Statistics
Matches: 130, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
79 14 0.11
80 115 0.88
81 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGGATTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTAGCACAAATG
Found at i:55973652 original size:21 final size:21
Alignment explanation
Indices: 55973628--55973669 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
55973618 AATAACATAG
55973628 GTTAACTATCAAAAATAAAAC
1 GTTAACTATCAAAAATAAAAC
55973649 GTTAACTATCAAAAATAAAAC
1 GTTAACTATCAAAAATAAAAC
55973670 ATAGCTAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (21 bp):
GTTAACTATCAAAAATAAAAC
Found at i:55974782 original size:25 final size:25
Alignment explanation
Indices: 55974732--55974789 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
55974722 ATAAAACCTA
*
55974732 AAAATGAAATAGTATTAAATGAAGAT
1 AAAAT-AAAAAGTATTAAATGAAGAT
*
55974758 AAAATAAAAAGTACTTAAA-GGAGAT
1 AAAATAAAAAGTA-TTAAATGAAGAT
55974783 -AAATAAA
1 AAAATAAA
55974790 GATAAAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 7 0.24
25 12 0.41
26 10 0.34
ACGTcount: A:0.62, C:0.02, G:0.14, T:0.22
Consensus pattern (25 bp):
AAAATAAAAAGTATTAAATGAAGAT
Found at i:55974812 original size:18 final size:17
Alignment explanation
Indices: 55974783--55974832 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
55974773 TAAAGGAGAT
* *
55974783 AAATAAAGATAAAAGTGA
1 AAATAAA-ATAAAAATAA
55974801 AAATGAAAATAAAAATAA
1 AAAT-AAAATAAAAATAA
55974819 AAATAAAATAAAAA
1 AAATAAAATAAAAA
55974833 GTCTTCAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 10 0.34
18 16 0.55
19 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (17 bp):
AAATAAAATAAAAATAA
Found at i:55974832 original size:6 final size:6
Alignment explanation
Indices: 55974783--55974832 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
55974773 TAAAGGAGAT
* * * *
55974783 AAATAA AGATAA AAGTGA AAATGA AAATAA AAATAA AAAT-A AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
55974830 AAA
1 AAA
55974833 GTCTTCAAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
5 5 0.14
6 32 0.86
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:55978993 original size:40 final size:39
Alignment explanation
Indices: 55978946--55979096 Score: 151
Period size: 40 Copynumber: 3.7 Consensus size: 39
55978936 TACTAGCTCA
* *
55978946 AAGCCTGCGGAACTCTAAGTCCGG-ATATAGTACCAGCACT
1 AAGCCTGCGGAACT-TAA-CCCGGAATATAGTACCAGCACG
* *
55978986 AAGCCTGCGGGACTTAACCCGGATATATATTACCAGCACG
1 AAGCCTGCGGAACTTAACCCGGA-ATATAGTACCAGCACG
* * *
55979026 AAGCCTGCGGGATTTAACCCGGATATATATATTACCAGCACG
1 AAGCCTGCGGAACTTAACCCGG--A-ATATAGTACCAGCACG
* *
55979068 AAGCCTGCGGGATTTAACCCGGATATATA
1 AAGCCTGCGGAACTTAACCCGGA-ATATA
55979097 TTATATCGAG
Statistics
Matches: 102, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
38 4 0.04
39 3 0.03
40 55 0.54
42 40 0.39
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (39 bp):
AAGCCTGCGGAACTTAACCCGGAATATAGTACCAGCACG
Found at i:55979067 original size:42 final size:42
Alignment explanation
Indices: 55978970--55979097 Score: 215
Period size: 42 Copynumber: 3.1 Consensus size: 42
55978960 CTAAGTCCGG
* * *
55978970 ATATAGTACCAGCACTAAGCCTGCGGGACTTAACCCGG--AT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
55979010 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
55979052 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
55979094 ATAT
1 ATAT
55979098 TATATCGAGA
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
40 35 0.42
42 48 0.58
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (42 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
Found at i:55986890 original size:46 final size:45
Alignment explanation
Indices: 55986815--55986989 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
55986805 TGTAACCCGC
*
55986815 CCATAAGCGAACTCGGACTCAACTCAACGAGCTT-GGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGGCATT-GCAT
* * *
55986861 CCATGAGTGAACTTGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTGCAT
* * * *
55986911 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCA-TTGCAT
55986954 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
55986990 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 57 0.54
47 26 0.25
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTGCAT
Found at i:55986981 original size:93 final size:93
Alignment explanation
Indices: 55986822--55986993 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
55986812 CGCCCATAAG
* * * *
55986822 CGAACTCGGACTCAACTCAACGAGCTTGGGCATTCGCATCCATGAGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTTAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55986887 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
55986915 CGAACTCGGACTCAACTCAACGAG-TTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTT-AGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
55986979 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
55986994 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTTAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:55989503 original size:42 final size:41
Alignment explanation
Indices: 55989450--55989579 Score: 190
Period size: 42 Copynumber: 3.1 Consensus size: 41
55989440 CTAAGTCCGG
* * *
55989450 ATATA-ATACCAGCACTAAGCTTGCGAGATTTAACCCGGAT
1 ATATATATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
55989490 ATATATATCACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATATATAT-ACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
**
55989532 ATATATATTACCAGCACGAAGCCTGCGGGATTTAACCCTTAT
1 ATATATA-TACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
55989574 ATATAT
1 ATATAT
55989580 TATATCGAGA
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
40 5 0.06
41 2 0.02
42 74 0.90
43 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (41 bp):
ATATATATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:55996144 original size:27 final size:26
Alignment explanation
Indices: 55996100--55996150 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
55996090 CCTCACTGAA
*
55996100 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
55996127 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
55996151 GGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:55996218 original size:71 final size:66
Alignment explanation
Indices: 55996082--55996222 Score: 183
Period size: 71 Copynumber: 2.1 Consensus size: 66
55996072 GAGGAAGCGT
* * *
55996082 TCTGGCAGCCTCACTGAATCTGGTGGCCTCGCCACATATATCTATTCTGGTGACTTCGTCACAAT
1 TCTGGCAGCCTCACTGAATCTGGTGGCCTCGCCACATATATCTATTCTGGTGACCTAGCCACAAT
55996147 A
66 A
* * *
55996148 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATATCTATTCTGGTGCCCTAGCC
1 TCTGGCAGCCTCACTG-AATCTGGTGGCCTCGCCAC----ATATATCTATTCTGGTGACCTAGCC
55996213 ACAATA
61 ACAATA
55996219 TCTG
1 TCTG
55996223 TATCTGGTGA
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
66 15 0.23
67 18 0.28
71 31 0.48
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.30
Consensus pattern (66 bp):
TCTGGCAGCCTCACTGAATCTGGTGGCCTCGCCACATATATCTATTCTGGTGACCTAGCCACAAT
A
Found at i:55996230 original size:27 final size:26
Alignment explanation
Indices: 55996190--55996249 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
55996180 CCACATATAT
* *
55996190 ATATCTATTCTGGTGCCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
55996216 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
55996243 ATATCTG
1 ATATCTG
55996250 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:56002403 original size:39 final size:40
Alignment explanation
Indices: 56002282--56002502 Score: 265
Period size: 40 Copynumber: 5.6 Consensus size: 40
56002272 GCTACTCGTT
* *
56002282 CAAATGCCTTCGGGACATAGCCCGG-CTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
56002322 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
56002362 CAAATGCCTTCGGG-CTTAGCCTGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
56002401 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
56002440 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
56002481 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
56002503 AGACATCATT
Statistics
Matches: 161, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
38 2 0.01
39 72 0.45
40 75 0.47
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:56002451 original size:78 final size:80
Alignment explanation
Indices: 56002282--56002498 Score: 264
Period size: 79 Copynumber: 2.7 Consensus size: 80
56002272 GCTACTCGTT
*
56002282 CAAATGCCTTCGGGACATAGCCCGGCTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
56002347 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* * * *
56002362 CAAATGCCTTCGGG-CTTAGCCTGGA-ATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
56002424 GAATTAGTATCTCGCA
65 GAATTAGTAACTCGCA
* * * * *
56002440 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTA
56002499 GCCCAGACAT
Statistics
Matches: 118, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
77 2 0.02
78 34 0.29
79 55 0.47
80 27 0.23
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCA
Found at i:56002465 original size:118 final size:120
Alignment explanation
Indices: 56002282--56002501 Score: 297
Period size: 118 Copynumber: 1.9 Consensus size: 120
56002272 GCTACTCGTT
*
56002282 CAAATGCCTTCGGGACATAGCCCGGCTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
56002347 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCTGGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCTGGAATTAGTATCTCGCA
* * **
56002401 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
56002463 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
56002502 CAGACATCAT
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
117 4 0.05
118 55 0.62
119 29 0.33
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCTGGAATTAGTATCTCGCA
Found at i:56008909 original size:39 final size:40
Alignment explanation
Indices: 56008803--56009026 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
56008793 GCTACTCGTT
*
56008803 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
56008843 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
56008883 CAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
56008922 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
56008961 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
56009002 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56009027 CATCATTCAA
Statistics
Matches: 165, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.01
39 72 0.44
40 78 0.47
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:56008915 original size:79 final size:79
Alignment explanation
Indices: 56008803--56009026 Score: 301
Period size: 79 Copynumber: 2.8 Consensus size: 79
56008793 GCTACTCGTT
* *
56008803 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
56008867 GATTTAGTAACTCGCA
64 GAATTAGTAACTCGCA
*
56008883 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
56008947 ATTAGTATCTCGCA
66 ATTAGTAACTCGCA
* * * * *
56008961 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
56009025 GA
64 GA
56009027 CATCATTCAA
Statistics
Matches: 129, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
78 36 0.28
79 61 0.47
80 32 0.25
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:56014326 original size:67 final size:63
Alignment explanation
Indices: 56014128--56014385 Score: 225
Period size: 67 Copynumber: 3.9 Consensus size: 63
56014118 ATATAGTTCG
* * * *
56014128 GCTCTCTTGTAC-ACATGGTGAACACTCAGTACCACCCATGTGACCTAGCCA-ATTTATCTCGTA
1 GCTCTCTTGT-CTACATGGTGTACACT-AGTACCACCCATGCGACCTAGCTACATATATCTCGTA
* * * * *
56014191 GCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTG---TACA-CTAGTACCACCCATGCGACCTAGCTACATATATCTCG
56014256 TA
62 TA
* *
56014258 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATTCTTG
1 GCTCTCTTGTCTACATGGTGTACAC-TAGTACCACCCATGCGACCTAGCTACAT-AT-A-TCTCG
56014323 TA
62 TA
* * * ** *
56014325 GCTCTCTTGTAC-ACATGATGTGCACTCAGCACCATACATGTGACCTAGCTACATACTATCT
1 GCTCTCTTGT-CTACATGGTGTACACT-AGTACCACCCATGCGACCTAGCTACATA-TATCT
56014386 GTATCATCCA
Statistics
Matches: 159, Mismatches: 23, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 27 0.17
65 5 0.03
66 25 0.16
67 81 0.51
68 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (63 bp):
GCTCTCTTGTCTACATGGTGTACACTAGTACCACCCATGCGACCTAGCTACATATATCTCGTA
Found at i:56017043 original size:26 final size:27
Alignment explanation
Indices: 56017014--56017073 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
56017004 CCACATATAT
*
56017014 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
56017040 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
56017067 ATATCTG
1 ATATCTG
56017074 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:56018545 original size:46 final size:46
Alignment explanation
Indices: 56018478--56018649 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
56018468 AACCCGCCCC
*
56018478 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
* * *
56018524 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCATCCA
* * *
56018572 TCA-TGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
*
56018617 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGG
56018650 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 58 0.56
47 27 0.26
48 3 0.03
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCATTCGCATCCA
Found at i:56018590 original size:93 final size:93
Alignment explanation
Indices: 56018482--56018653 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
56018472 CGCCCCTAAG
* *
56018482 TGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
56018547 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
*
56018575 TGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
56018640 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
56018654 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (93 bp):
TGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:56021038 original size:31 final size:31
Alignment explanation
Indices: 56021000--56021062 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 31
56020990 ATCATGATAA
*
56021000 TATGATTGT-ATGAATATTTTATTAAGAAATT
1 TATGATTGTGA-GAAAATTTTATTAAGAAATT
56021031 TATGATTGTGAGAAAATTTTATTAAGAAATT
1 TATGATTGTGAGAAAATTTTATTAAGAAATT
56021062 T
1 T
56021063 TATCTTTTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 29 0.97
32 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (31 bp):
TATGATTGTGAGAAAATTTTATTAAGAAATT
Found at i:56033971 original size:40 final size:39
Alignment explanation
Indices: 56033887--56034070 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
56033877 TTGAATGATG
* * * *
56033887 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
56033927 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
56033967 TCCGGGCTAAG-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
56034005 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
56034046 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
56034071 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:56034022 original size:78 final size:80
Alignment explanation
Indices: 56033887--56034070 Score: 207
Period size: 78 Copynumber: 2.3 Consensus size: 80
56033877 TTGAATGATG
* *
56033887 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
56033951 TGTGCGAGATACTA-A
65 TGTGCGAGATACTATA
* * * **
56033966 TTCCGGGCTAAG-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAA
1 -TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAA
*
56034028 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* *
56034045 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
56034071 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
77 1 0.01
78 56 0.63
79 8 0.09
80 24 0.27
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTATA
Found at i:56034102 original size:78 final size:78
Alignment explanation
Indices: 56033940--56034095 Score: 183
Period size: 78 Copynumber: 2.0 Consensus size: 78
56033930 GGACTAAGAT
* * **
56033940 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCGAAGGCATTTGAACGAGTTACTAAA
*
56034005 TCCGGGTTAAGTC
66 TCCGGGTTAAATC
* *
56034018 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG--CCGAAGGCATTTGAACGAGTTA-C
*
56034081 TATATCC-GGTTAAAT
62 TAAATCCGGGTTAAAT
56034096 TCGAAGGTAC
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
77 2 0.03
78 31 0.47
79 9 0.14
80 24 0.36
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCGAAGGCATTTGAACGAGTTACTAAA
TCCGGGTTAAATC
Found at i:56036386 original size:47 final size:47
Alignment explanation
Indices: 56036334--56036706 Score: 514
Period size: 47 Copynumber: 8.1 Consensus size: 47
56036324 GAAATGATAG
*
56036334 TAAGGCCT-ATGGCCGATGTGATGAATGTGAAAGTGTTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-TATATATGTGA
* *
56036381 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTGTATGTGTG-
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56036427 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
56036472 T-AGGCCTAATGGCCGATGTGATG-ATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56036517 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56036564 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
56036611 T-AGGCCTAGGT-GCCGATGTGATG-ATGTGAAAGTGTATATATGTGA
1 TAAGGCCTA-ATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
56036656 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGT-TCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT-ATATATGTGA
56036703 TAAG
1 TAAG
56036707 TCCGAAGGGC
Statistics
Matches: 298, Mismatches: 17, Indels: 22
0.88 0.05 0.07
Matches are distributed among these distances:
43 11 0.04
44 28 0.09
45 34 0.11
46 92 0.31
47 107 0.36
48 26 0.09
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:56036655 original size:139 final size:136
Alignment explanation
Indices: 56036336--56036706 Score: 532
Period size: 139 Copynumber: 2.7 Consensus size: 136
56036326 AATGATAGTA
56036336 AGGCCTA-TGGCCGATGTGATGAATGTGAAAGTGTTATATATGTGATAAGGCCTAATAGCCGATG
1 AGGCCTAGT-GCCGATGTGATG-ATGTGAAAGTG-TATATATGTGATAAGGCCTAATAGCCGATG
* *
56036400 TGATGAATGTGAAAGTGTGTATGTGTG-TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
63 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
56036464 ATATGTGAT
128 ATATGTGAT
* *
56036473 AGGCCTAATGGCCGATGTGATGATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTG
1 AGGCCTAGT-GCCGATGTGATGATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
56036538 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
65 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--T
56036603 ATATGTGAT
128 ATATGTGAT
* * * * * * *
56036612 AGGCCTAGGTGCCGATGTGATGATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
1 AGGCCTA-GTGCCGATGTGATGATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
* *
56036677 ATGGATGTGAAAGT-TCATAAATGTGATAAG
65 ATGAATGTGAAAGTGT-ATATATGTGATAAG
56036707 TCCGAAGGGC
Statistics
Matches: 214, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
136 54 0.25
137 54 0.25
138 15 0.07
139 90 0.42
140 1 0.00
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.29
Consensus pattern (136 bp):
AGGCCTAGTGCCGATGTGATGATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA
TGTGAT
Found at i:56036879 original size:36 final size:36
Alignment explanation
Indices: 56036824--56036901 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 36
56036814 CCGAGCTCTA
* *
56036824 AAGACCCGATGACTACGTGTGG-GAATTTTGCCCGGGT
1 AAGA-CCGATAACTACGTGTGGAG-ATTATGCCCGGGT
* *
56036861 AAGACCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCGATAACTACGTGTGGAGATTATGCCCGGGT
56036897 AAGAC
1 AAGAC
56036902 TTCGTAATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 31 0.86
37 5 0.14
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (36 bp):
AAGACCGATAACTACGTGTGGAGATTATGCCCGGGT
Found at i:56039184 original size:40 final size:40
Alignment explanation
Indices: 56039032--56039177 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
56039022 TTGAATGATG
* * * *
56039032 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
56039072 TCCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56039112 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
56039153 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
56039178 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 81 0.89
41 9 0.10
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:56039184 original size:80 final size:80
Alignment explanation
Indices: 56039032--56039210 Score: 186
Period size: 80 Copynumber: 2.2 Consensus size: 80
56039022 TTGAATGATG
* *
56039032 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTG
**
56039097 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * *
56039112 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
* *
56039175 TTGAACGAGTAGCTATA
64 TGGAACGAGTAGCTAAA
* *
56039192 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
56039211 TATGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
79 17 0.20
80 59 0.71
81 7 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTG
GAACGAGTAGCTAAA
Found at i:56041972 original size:47 final size:47
Alignment explanation
Indices: 56041859--56042240 Score: 577
Period size: 47 Copynumber: 8.1 Consensus size: 47
56041849 GAAATGATAG
*
56041859 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
56041908 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTGTATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
56041955 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
56042002 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56042049 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56042096 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
56042143 TAAGGCCTAGTGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
56042190 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGT-TCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT-ATATATGTGA
56042237 TAAG
1 TAAG
56042241 TCCCGAAGGG
Statistics
Matches: 314, Mismatches: 18, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
46 1 0.00
47 278 0.89
49 35 0.11
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:56042415 original size:37 final size:37
Alignment explanation
Indices: 56042359--56042437 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
56042349 CCGAGCTCTA
* *
56042359 AAGACCCGATGACTACGTGTGG-GAATTTTGCCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGCCCGGGT
* *
56042396 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGCCCGGGT
56042433 AAGAC
1 AAGAC
56042438 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGCCCGGGT
Found at i:56049641 original size:27 final size:28
Alignment explanation
Indices: 56049604--56049716 Score: 119
Period size: 27 Copynumber: 4.2 Consensus size: 28
56049594 AGCATGGCTG
*
56049604 CCAGA-ACAGATA-TTGTGACAAAGTCA
1 CCAGATACAGATATTTGTGACAAAGCCA
*
56049630 CCAGATACAGATA-TTGT-AGCAGAGCCA
1 CCAGATACAGATATTTGTGA-CAAAGCCA
* * * *
56049657 TCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGACAAAGCCA
*
56049685 CCAGAT-CAGATATTTGTGGCAAAGCCA
1 CCAGATACAGATATTTGTGACAAAGCCA
56049712 CCAGA
1 CCAGA
56049717 ACGCTTCCTC
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.71
28 16 0.21
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATTTGTGACAAAGCCA
Found at i:56049695 original size:54 final size:55
Alignment explanation
Indices: 56049604--56049717 Score: 144
Period size: 55 Copynumber: 2.1 Consensus size: 55
56049594 AGCATGGCTG
* *
56049604 CCAG-AACAGATATTGTGACAAAGTCACCAGATACAGATA-TTGTAGCAGAGCCA
1 CCAGAAACAGATATTGTGACAAAGCCACCAGATACAGATATTTGTAGCAAAGCCA
* * * *
56049657 TCAGAAACAGATATTTGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCAAAGCCA
1 CCAGAAACAGATA-TTGTGACAAAGCCACCAGATACAGATATTTGTAGCAAAGCCA
56049712 CCAGAA
1 CCAGAA
56049718 CGCTTCCTCC
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
53 3 0.06
54 14 0.27
55 34 0.67
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (55 bp):
CCAGAAACAGATATTGTGACAAAGCCACCAGATACAGATATTTGTAGCAAAGCCA
Found at i:56049891 original size:27 final size:26
Alignment explanation
Indices: 56049820--56049883 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
56049810 CAAAATTAAC
* * *
56049820 CCTAAGGGTATAATGGTAATTTTACA
1 CCTAGGGGTATAGTAGTAATTTTACA
* *
56049846 CCTAGGGGTATAGTGGTAATTTTCATA
1 CCTAGGGGTATAGTAGTAATTTT-ACA
*
56049873 CTTAGGGGTAT
1 CCTAGGGGTAT
56049884 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 21 0.64
27 12 0.36
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (26 bp):
CCTAGGGGTATAGTAGTAATTTTACA
Found at i:56050161 original size:16 final size:15
Alignment explanation
Indices: 56050140--56050171 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
56050130 ACAAAATGCA
56050140 GGCTTTTCGGCATTTT
1 GGCTTTTCGGC-TTTT
56050156 GGCTTTTCGGCTTTT
1 GGCTTTTCGGCTTTT
56050171 G
1 G
56050172 CTACTGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.03, C:0.19, G:0.28, T:0.50
Consensus pattern (15 bp):
GGCTTTTCGGCTTTT
Found at i:56065855 original size:50 final size:49
Alignment explanation
Indices: 56065792--56065985 Score: 217
Period size: 50 Copynumber: 3.9 Consensus size: 49
56065782 GACAAGGTTG
* * * **
56065792 TCTGGTACACGTAGTAGCCTGCACTTAGTATTACACATTTGACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTA
* *
56065842 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTA
* * * * * *
56065893 TCAGGTACGCATAGTTGCCTGCACTTAGTACTACACATGCGACCAATTA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAATTA
* * *
56065942 TCCGATACACGTAGTAGCCTGCACTTAGTGCTACACACGTGACC
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC
56065986 TCACTATAGA
Statistics
Matches: 119, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
49 39 0.33
50 43 0.36
51 37 0.31
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (49 bp):
TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAATTA
Found at i:56065921 original size:51 final size:49
Alignment explanation
Indices: 56065797--56065985 Score: 198
Period size: 49 Copynumber: 3.8 Consensus size: 49
56065787 GGTTGTCTGG
* * ** ** *
56065797 TACACGTAGTAGCCTGCACTTAGTATTACACATTTGACCTAACCATCTGA
1 TACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCAGA
* * *
56065847 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGG
1 TACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGA
* * * * *
56065898 TACGCATAGTTGCCTGCACTTAGTACTACACATGCGACCAATTATCCGA
1 TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGA
* *
56065947 TACACGTAGTAGCCTGCACTTAGTGCTACACACGTGACC
1 TACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
56065986 TCACTATAGA
Statistics
Matches: 115, Mismatches: 22, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
49 39 0.34
50 39 0.34
51 37 0.32
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGA
Found at i:56065970 original size:100 final size:101
Alignment explanation
Indices: 56065803--56065983 Score: 283
Period size: 100 Copynumber: 1.8 Consensus size: 101
56065793 CTGGTACACG
* ** *
56065803 TAGTAGCCTGCACTTAGTATTACACATTTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTAGTAGCCTGCACTT
56065868 AGTACTACACACGTGATCGAAGTTATCAGGTACGCA
66 AGTACTACACACGTGATCGAAGTTATCAGGTACGCA
* **
56065904 TAGTTGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTAGTAGCCTGCACTT
*
56065968 AGTGCTACACACGTGA
66 AGTACTACACACGTGA
56065984 CCTCACTATA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 43 0.60
101 29 0.40
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCGAAGTTATCAGGTACGCA
Found at i:56066263 original size:27 final size:27
Alignment explanation
Indices: 56066233--56066286 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
56066223 TCATACAACC
* *
56066233 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
56066260 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
56066287 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:56068207 original size:42 final size:43
Alignment explanation
Indices: 56068141--56068311 Score: 156
Period size: 42 Copynumber: 4.0 Consensus size: 43
56068131 AGCTCGTACA
* *
56068141 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCACTGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
* ** *
56068184 AT-CCACTGTCCCAGACAG-GGTCTTACACGGAATCATGTA-CA
1 ATGCCACTGTCCCAGAC-GTGGTCTTACACGTAATCAAATATCG
* *
56068225 ATGCCAATGTCCCAGACGTGGTCTTACACGTAGATCATAA-GTCG
1 ATGCCACTGTCCCAGACGTGGTCTTACACGTA-ATCA-AATATCG
* * *
56068269 ATGCCAAC-ATCCCAGACATGGTCTTACACGATAA-CACATATCG
1 ATGCC-ACTGTCCCAGACGTGGTCTTACACG-TAATCAAATATCG
56068312 GATCCTATGT
Statistics
Matches: 102, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
41 4 0.04
42 56 0.55
43 12 0.12
44 27 0.26
45 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
Found at i:56069153 original size:33 final size:33
Alignment explanation
Indices: 56069115--56069180 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
56069105 ATGGTGAATA
*
56069115 TGATAGCCAATTTAATGTTTTGTTTTATTTAAT
1 TGATAGCCAATTTAATGTTTTGGTTTATTTAAT
56069148 TGATAGCCAATTTAATGTTTTGGTTTATTTAAT
1 TGATAGCCAATTTAATGTTTTGGTTTATTTAAT
56069181 ATACGTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.06, G:0.14, T:0.53
Consensus pattern (33 bp):
TGATAGCCAATTTAATGTTTTGGTTTATTTAAT
Found at i:56086573 original size:49 final size:49
Alignment explanation
Indices: 56086448--56086877 Score: 732
Period size: 49 Copynumber: 8.9 Consensus size: 49
56086438 CCCTTCGGGA
* * * * *
56086448 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56086495 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56086542 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56086591 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56086638 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56086687 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56086736 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56086783 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56086832 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
56086878 CGCCATACTA
Statistics
Matches: 364, Mismatches: 11, Indels: 14
0.94 0.03 0.04
Matches are distributed among these distances:
46 1 0.00
47 136 0.37
49 227 0.62
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56086610 original size:96 final size:97
Alignment explanation
Indices: 56086448--56086877 Score: 728
Period size: 96 Copynumber: 4.5 Consensus size: 97
56086438 CCCTTCGGGA
* * * * * * *
56086448 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC-ATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATA
56086510 CACTTTCACATTCATCACATCGGCCATTAGGC
66 CACTTTCACATTCATCACATCGGCCATTAGGC
56086542 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATA
56086606 CACTTTCACATTCATCACATCGGCCATTAGGC
66 CACTTTCACATTCATCACATCGGCCATTAGGC
56086638 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATAT
*
56086703 ACACTTTCACATTCATCACATCGGCTATTAGGC
65 ACACTTTCACATTCATCACATCGGCCATTAGGC
56086736 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATAT
56086799 ACACTTTCACATTCATCACATCGGCCATTAGGC
65 ACACTTTCACATTCATCACATCGGCCATTAGGC
56086832 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
56086878 CGCCATACTA
Statistics
Matches: 321, Mismatches: 9, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
94 10 0.03
95 1 0.00
96 228 0.71
98 82 0.26
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (97 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATA
CACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56086709 original size:145 final size:145
Alignment explanation
Indices: 56086448--56086877 Score: 765
Period size: 145 Copynumber: 3.0 Consensus size: 145
56086438 CCCTTCGGGA
* * * * * * * *
56086448 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
56086511 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
56086576 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
56086591 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
56086656 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
*
56086721 CATCGGCTATTAGGC
131 CATCGGCCATTAGGC
56086736 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
56086801 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
56086866 CATCGGCCATTA
131 CATCGGCCATTA
56086878 CGCCATACTA
Statistics
Matches: 275, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
143 47 0.17
145 228 0.83
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (145 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
CATCGGCCATTAGGC
Found at i:56091546 original size:43 final size:42
Alignment explanation
Indices: 56091429--56091546 Score: 105
Period size: 42 Copynumber: 2.8 Consensus size: 42
56091419 GATTTAAGAT
* * * *
56091429 TTACGTGTAAGACCATGTCTGGGGCATCGCCATCATATCTGA
1 TTACGTGTAAGACCATGTCTGGGACGTAGGCATCATATCTGA
* * * *
56091471 TTTCGTGTAAGACCTTGTTTGGGATAG-AGGCATCAGTAT-TGAA
1 TTACGTGTAAGACCATGTCTGGGA-CGTAGGCATCA-TATCTG-A
* *
56091514 TTACATGTAAGACCATGTCTGGGACGTTGGCAT
1 TTACGTGTAAGACCATGTCTGGGACGTAGGCAT
56091547 TGTACTTGTT
Statistics
Matches: 58, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
42 29 0.50
43 29 0.50
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTGGGACGTAGGCATCATATCTGA
Found at i:56100482 original size:42 final size:42
Alignment explanation
Indices: 56100370--56100529 Score: 214
Period size: 42 Copynumber: 3.8 Consensus size: 42
56100360 GTACCAATGT
* * * *
56100370 CATATCCCAGATATTGTCTTACATGTAATCTCTTATCGATGC
1 CATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
* *
56100412 CAATAGCCCAGCTATGGTCTTACACGAAATCTCATATCGATGC
1 C-ATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
* *
56100455 CATATCCTAGATATGGTCTTACACGAAATCTCATATAGATGC
1 CATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
*
56100497 CATATCTCAGATATGGTCTTACAC-ATAATCTCA
1 CATATCCCAGATATGGTCTTACACGA-AATCTCA
56100530 GTAACCATAA
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
41 1 0.01
42 67 0.64
43 36 0.35
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGC
Found at i:56100496 original size:85 final size:84
Alignment explanation
Indices: 56100370--56100529 Score: 214
Period size: 85 Copynumber: 1.9 Consensus size: 84
56100360 GTACCAATGT
* * * * * *
56100370 CATATCCCAGATATTGTCTTACATGTAATCTCTTATCGATGCCAATAGCCCAGCTATGGTCTTAC
1 CATATCCCAGATATGGTCTTACACGAAATCTCATATAGATGCC-ATAGCCCAGATATGGTCTTAC
56100435 ACGA-AATCTCATATCGATGC
65 AC-ATAATCTCATATCGATGC
* * *
56100455 CATATCCTAGATATGGTCTTACACGAAATCTCATATAGATGCCATATCTCAGATATGGTCTTACA
1 CATATCCCAGATATGGTCTTACACGAAATCTCATATAGATGCCATAGCCCAGATATGGTCTTACA
56100520 CATAATCTCA
66 CATAATCTCA
56100530 GTAACCATAA
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
83 1 0.02
84 27 0.42
85 37 0.57
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (84 bp):
CATATCCCAGATATGGTCTTACACGAAATCTCATATAGATGCCATAGCCCAGATATGGTCTTACA
CATAATCTCATATCGATGC
Found at i:56108472 original size:24 final size:23
Alignment explanation
Indices: 56108429--56108474 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
56108419 TATATAAGTC
*
56108429 AAAGATTTCTTGATTAGAAACAT
1 AAAGATTTCTGGATTAGAAACAT
56108452 AAAGAGTTTCTGGAATT-GAAACA
1 AAAGA-TTTCTGG-ATTAGAAACA
56108475 AGACCGAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 12 0.60
25 3 0.15
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.30
Consensus pattern (23 bp):
AAAGATTTCTGGATTAGAAACAT
Found at i:56109879 original size:16 final size:17
Alignment explanation
Indices: 56109846--56109882 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
56109836 TATTATAAGT
56109846 TTTATTATATTAACATG
1 TTTATTATATTAACATG
*
56109863 TTTATTAT-TTTACATG
1 TTTATTATATTAACATG
56109879 TTTA
1 TTTA
56109883 ACATTTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (17 bp):
TTTATTATATTAACATG
Found at i:56119197 original size:14 final size:13
Alignment explanation
Indices: 56119176--56119215 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 13
56119166 CACATTCGGC
56119176 TTTCACATATATA
1 TTTCACATATATA
56119189 TTATCACATTATATA
1 TT-TCACA-TATATA
56119204 TTTCAGCATATA
1 TTTCA-CATATA
56119216 ATTCATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.08
14 12 0.50
15 10 0.42
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.45
Consensus pattern (13 bp):
TTTCACATATATA
Found at i:56119965 original size:16 final size:17
Alignment explanation
Indices: 56119932--56119968 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
56119922 TATTATATGT
56119932 TTTATTATATTAACATG
1 TTTATTATATTAACATG
*
56119949 TTTATTAT-TTTACATG
1 TTTATTATATTAACATG
56119965 TTTA
1 TTTA
56119969 ACCTTTTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (17 bp):
TTTATTATATTAACATG
Found at i:56122635 original size:27 final size:27
Alignment explanation
Indices: 56122599--56122800 Score: 174
Period size: 27 Copynumber: 7.5 Consensus size: 27
56122589 AGTGGATAAG
* * *
56122599 TTGTAGAATTACTAAAATACCCTTGGT
1 TTGTAAAATTACCAAAATACCCTTGAT
* *
56122626 TTATAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCTTGAT
*
56122653 TTGTAAAATTACCAAAA-AACCTAT-AGT
1 TTGTAAAATTACCAAAATACCCT-TGA-T
*
56122680 TTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCTTGAT
* ** * ** *
56122707 TTGTGAAATTACTGAAATACTCTCAAC
1 TTGTAAAATTACCAAAATACCCTTGAT
* ** * *
56122734 CTGTAAAATTACTGAAATACCCTCGAA
1 TTGTAAAATTACCAAAATACCCTTGAT
*
56122761 TTGTAAAATTACCAAAGTACCCTTGAT
1 TTGTAAAATTACCAAAATACCCTTGAT
* *
56122788 TTATAGAATTACC
1 TTGTAAAATTACC
56122801 GCTTTACCCT
Statistics
Matches: 140, Mismatches: 31, Indels: 8
0.78 0.17 0.04
Matches are distributed among these distances:
26 4 0.03
27 132 0.94
28 4 0.03
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCTTGAT
Found at i:56123577 original size:27 final size:26
Alignment explanation
Indices: 56123533--56123584 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
56123523 CTCACTGTAA
* *
56123533 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGACACA-ATATCTGT
*
56123560 TCTGGTGACTTCGACACAATATCTG
1 TCTGGTGACCTCGACACAATATCTG
56123585 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.19, C:0.27, G:0.21, T:0.33
Consensus pattern (26 bp):
TCTGGTGACCTCGACACAATATCTGT
Found at i:56130371 original size:27 final size:27
Alignment explanation
Indices: 56130300--56130484 Score: 149
Period size: 27 Copynumber: 6.8 Consensus size: 27
56130290 AGTGGATAAG
* ** * *
56130300 TTGTAGAATTACTAAAATACCATTGGT
1 TTGTAAAATTACTAAAATACCCCTAGC
* *
56130327 TTGTAAAAATTACCAAAATACCCCTAGT
1 TTGT-AAAATTACTAAAATACCCCTAGC
*
56130355 TTGTAAAATTACTAAAAAACCCCTAGC
1 TTGTAAAATTACTAAAATACCCCTAGC
* * **
56130382 TTGTAAAATTTCCAAAATACCCCTAAT
1 TTGTAAAATTACTAAAATACCCCTAGC
* * * *
56130409 TTGTGAAATTATTGAAATA-CCCTCAAC
1 TTGTAAAATTACTAAAATACCCCT-AGC
* * *
56130436 CTGTAAAATTACTGAAATA-CCCTCGAC
1 TTGTAAAATTACTAAAATACCCCTAG-C
*
56130463 TTGTAAAATTACCAAAATACCC
1 TTGTAAAATTACTAAAATACCC
56130485 TCGATTTATA
Statistics
Matches: 127, Mismatches: 27, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
26 4 0.03
27 99 0.78
28 24 0.19
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
TTGTAAAATTACTAAAATACCCCTAGC
Found at i:56130485 original size:27 final size:27
Alignment explanation
Indices: 56130300--56130539 Score: 146
Period size: 27 Copynumber: 8.9 Consensus size: 27
56130290 AGTGGATAAG
* * * * *
56130300 TTGTAGAATTACTAAAATACCATTGGT
1 TTGTAAAATTACCAAAATACCCTCGAT
*
56130327 TTGTAAAAATTACCAAAATACCC-CTAGT
1 TTGT-AAAATTACCAAAATACCCTCGA-T
* * * *
56130355 TTGTAAAATTACTAAAAAACCC-CTAGC
1 TTGTAAAATTACCAAAATACCCTCGA-T
* *
56130382 TTGTAAAATTTCCAAAATACCC-CTAAT
1 TTGTAAAATTACCAAAATACCCTC-GAT
* *** * *
56130409 TTGTGAAATTATTGAAATACCCTCAAC
1 TTGTAAAATTACCAAAATACCCTCGAT
* ** *
56130436 CTGTAAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTACCAAAATACCCTCGAT
56130463 TTGTAAAATTACCAAAATACCCTCGAT
1 TTGTAAAATTACCAAAATACCCTCGAT
* * ****
56130490 TTATAGAATTACCGTTTTACCCTCGAT
1 TTGTAAAATTACCAAAATACCCTCGAT
*
56130517 TTATAAAATTA-CAGAAATACCCT
1 TTGTAAAATTACCA-AAATACCCT
56130540 TGTAAGGTAG
Statistics
Matches: 169, Mismatches: 39, Indels: 10
0.78 0.18 0.05
Matches are distributed among these distances:
26 1 0.01
27 146 0.86
28 22 0.13
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCTCGAT
Found at i:56130565 original size:54 final size:53
Alignment explanation
Indices: 56130442--56130565 Score: 126
Period size: 54 Copynumber: 2.3 Consensus size: 53
56130432 CAACCTGTAA
* * *
56130442 AATTACTGAAATACCCTCGACTTGTAAAATTACCAAAATACCCTCGATTTATAG
1 AATTACCGAAATACCCTCGACTTATAAAATTACCAAAATACCCTCGA-TAATAG
*** * *
56130496 AATTACCGTTTTACCCTCGATTTATAAAATTA-CAGAAATACCCTTG-TAAGGTAG
1 AATTACCGAAATACCCTCGACTTATAAAATTACCA-AAATACCCTCGATAA--TAG
56130550 AATTACCGAAATACCC
1 AATTACCGAAATACCC
56130566 CTATAGGGTA
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
52 2 0.04
53 2 0.04
54 52 0.93
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (53 bp):
AATTACCGAAATACCCTCGACTTATAAAATTACCAAAATACCCTCGATAATAG
Found at i:56130575 original size:27 final size:27
Alignment explanation
Indices: 56130523--56130576 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
56130513 CGATTTATAA
* *
56130523 AATTACAGAAATACCCTTGTAAGGTAG
1 AATTACAGAAATACCCCTATAAGGTAG
* *
56130550 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACAGAAATACCCCTATAAGGTAG
56130577 GGCTACCGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (27 bp):
AATTACAGAAATACCCCTATAAGGTAG
Found at i:56134102 original size:25 final size:25
Alignment explanation
Indices: 56134074--56134130 Score: 96
Period size: 25 Copynumber: 2.2 Consensus size: 25
56134064 TATTCTGATG
56134074 ATTGTTTAAGATTCAGAGGCCGAAC
1 ATTGTTTAAGATTCAGAGGCCGAAC
*
56134099 ATTGTTTAAGATTTAGAGGCCGAAC
1 ATTGTTTAAGATTCAGAGGCCGAAC
56134124 ATGTGTT
1 AT-TGTT
56134131 CCTAGAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 26 0.87
26 4 0.13
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (25 bp):
ATTGTTTAAGATTCAGAGGCCGAAC
Found at i:56136426 original size:27 final size:27
Alignment explanation
Indices: 56136396--56136456 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
56136386 TGAATACATA
56136396 TAGATC-AAGAAATAAAGAATTTGAATT
1 TAGATCGAAGAAA-AAAGAATTTGAATT
** *
56136423 TAGATCGGGGAAAATAGAATTTGAATT
1 TAGATCGAAGAAAAAAGAATTTGAATT
56136450 TAGATCG
1 TAGATCG
56136457 GGAAAAATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 26 0.87
28 4 0.13
ACGTcount: A:0.44, C:0.05, G:0.21, T:0.30
Consensus pattern (27 bp):
TAGATCGAAGAAAAAAGAATTTGAATT
Found at i:56136457 original size:27 final size:27
Alignment explanation
Indices: 56136411--56136464 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
56136401 CAAGAAATAA
*
56136411 AGAATTTGAATTTAGATCGGGGAAAAT
1 AGAATTTGAATTTAGATCGGGAAAAAT
56136438 AGAATTTGAATTTAGATCGGGAAAAAT
1 AGAATTTGAATTTAGATCGGGAAAAAT
56136465 CAAAGGTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.04, G:0.24, T:0.30
Consensus pattern (27 bp):
AGAATTTGAATTTAGATCGGGAAAAAT
Found at i:56143066 original size:22 final size:22
Alignment explanation
Indices: 56143024--56143067 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
56143014 AATTATTTAC
* *
56143024 GACTAAAGTATAGCATTCATAT
1 GACTAAAGAATAGCATGCATAT
56143046 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCATGCATAT
56143068 ACACATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCATGCATAT
Found at i:56143370 original size:40 final size:40
Alignment explanation
Indices: 56143294--56143395 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 40
56143284 AACCCAAGTA
* *
56143294 CCTTCGGGAT-TTAG-CCGGATATAGCAACTCGAACAAATG
1 CCTTCGGG-TCTTAGCCCGGATATAGCAACTAGAACAAAAG
*
56143333 CCTTCGGGTCTTAGCCCGGATATAGTCAA-TAGCACAAAAG
1 CCTTCGGGTCTTAGCCCGGATATAG-CAACTAGAACAAAAG
*
56143373 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGTCTTAGCCCGGATAT
56143396 CATTCGAATA
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 12 0.21
40 40 0.71
41 3 0.05
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATAGCAACTAGAACAAAAG
Found at i:56148434 original size:40 final size:40
Alignment explanation
Indices: 56148381--56148564 Score: 201
Period size: 40 Copynumber: 4.6 Consensus size: 40
56148371 TATTCAAATG
* * *
56148381 ATATCCGGGCTAAGTCTCGAAGGCTTTTATGCTAATGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
* * *
56148421 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAG-TGACT
* * * *
56148461 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
* * * *
56148501 ATATCCGGGCTAAGTCCCAAATGCATTTATGCTGGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
*
56148541 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
56148565 CTTGTGTGAG
Statistics
Matches: 118, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
39 1 0.01
40 114 0.97
41 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
Found at i:56156585 original size:40 final size:40
Alignment explanation
Indices: 56156522--56156705 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
56156512 TGTTCGAATG
*
56156522 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * * *
56156562 ATATCCGGACTAAGATCCAAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * *
56156602 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
56156642 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
56156682 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
56156706 CTTGTGCGAG
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
40 118 0.97
41 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:56156655 original size:80 final size:79
Alignment explanation
Indices: 56156522--56156736 Score: 258
Period size: 80 Copynumber: 2.7 Consensus size: 79
56156512 TGTTCGAATG
* * * *
56156522 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGATCCAAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCAAAGGCA
* *
56156587 TTTGTGCGAGTTG-CT
65 TTTATGCGAG-TGACC
* *
56156602 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAG-TCCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGAT-CCAAAGGC
*
56156666 ATTTATGCTAGTGACC
64 ATTTATGCGAGTGACC
* * *
56156682 ATATCCGGGCTAAGACCCGAAGGCCTTGTGCGAGTGGTTATATCC-GGCTAA-ATCC
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCC
56156737 CGAAGATACT
Statistics
Matches: 118, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
77 2 0.02
78 7 0.06
79 20 0.17
80 89 0.75
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCAAAGGCAT
TTATGCGAGTGACC
Found at i:56163072 original size:22 final size:22
Alignment explanation
Indices: 56163030--56163073 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
56163020 AATTATTTAC
* *
56163030 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
56163052 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
56163074 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:56163372 original size:40 final size:40
Alignment explanation
Indices: 56163298--56163478 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
56163288 AACCCAAGTA
* *
56163298 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* * *
56163337 CCTTCGGGTCTTAGCCCGAATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
56163377 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
56163417 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAA-G
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
56163456 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
56163479 CATTCGAATA
Statistics
Matches: 130, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 36 0.28
40 91 0.70
41 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:56168113 original size:49 final size:50
Alignment explanation
Indices: 56168060--56168186 Score: 157
Period size: 50 Copynumber: 2.6 Consensus size: 50
56168050 CTGGTACGCA
* ** * *
56168060 TAGTAGGCTGCACTTAGTACTACATATGCGACC-AAGAATCTGATACTCG
1 TAGTAGCCTGCACTTAGTACTACATACACGACCTAACAATCTGATACACG
** * * *
56168109 TAGTAGCCTATACTTAGTACTACACACATGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACATACACGACCTAACAATCTGATACACG
56168159 TAGTAGCCTGCACTTAGTACTACATACA
1 TAGTAGCCTGCACTTAGTACTACATACA
56168187 TGATTGAAGT
Statistics
Matches: 64, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
49 26 0.41
50 38 0.59
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACATACACGACCTAACAATCTGATACACG
Found at i:56177137 original size:52 final size:50
Alignment explanation
Indices: 56177010--56177139 Score: 145
Period size: 52 Copynumber: 2.6 Consensus size: 50
56177000 GTCGGGTACT
* * * ** *
56177010 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTGGTACA
1 CATAGTATCCTGCACTTAGTACTACACACGTGACCTAACCATCTGAAAAA
* *
56177060 CGTAGTAGT-CTGCACTTAGTACTACACACGTGACCTAAAACCATCTTAAAAA
1 CATAGTA-TCCTGCACTTAGTACTACACACGTGACCT--AACCATCTGAAAAA
*
56177112 CATAGTATCCTGCACATAGTACTACACA
1 CATAGTATCCTGCACTTAGTACTACACA
56177140 TGTGTTCTCA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
50 32 0.48
51 1 0.02
52 33 0.50
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (50 bp):
CATAGTATCCTGCACTTAGTACTACACACGTGACCTAACCATCTGAAAAA
Found at i:56186875 original size:42 final size:42
Alignment explanation
Indices: 56186826--56186957 Score: 124
Period size: 42 Copynumber: 3.1 Consensus size: 42
56186816 CATTACACGT
* *
56186826 GTGTCTCAGCCGTGTGTGCCACACGGACTAGAACACGGGCGA
1 GTGTCTCAGTCGTGTGTGCCACACAGACTAGAACACGGGCGA
* * * * * *
56186868 GTGTCTCAGTCATGTGTTCCATA-TGACCTAGAGCACGAGC-A
1 GTGTCTCAGTCGTGTGTGCCACACAGA-CTAGAACACGGGCGA
* ** *
56186909 TGTGTCTCAGTCGTGTGTGCCACACAGCCTAGAACTTGGGCGT
1 -GTGTCTCAGTCGTGTGTGCCACACAGACTAGAACACGGGCGA
56186952 GTGTCT
1 GTGTCT
56186958 TGGCCATGTG
Statistics
Matches: 69, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
41 3 0.04
42 65 0.94
43 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.25
Consensus pattern (42 bp):
GTGTCTCAGTCGTGTGTGCCACACAGACTAGAACACGGGCGA
Found at i:56188072 original size:71 final size:71
Alignment explanation
Indices: 56187981--56188116 Score: 227
Period size: 71 Copynumber: 1.9 Consensus size: 71
56187971 AAGGGGACCG
*
56187981 GGGTTTGATACCCTTGCCATAAGTATCAGACTAAAATAAGTAAGTAACTAAAATGCTACAATATA
1 GGGTTTGATACCCTTGCCATAAGTATCAAACTAAAATAAGTAAGTAACTAAAATGCTACAATATA
56188046 GGCCCA
66 GGCCCA
* * * *
56188052 GGGTTTGATACCCTTGCCATAAGTATCAAACTGAAATAAGTCAGTAGCTAAAATGCTACATTATA
1 GGGTTTGATACCCTTGCCATAAGTATCAAACTAAAATAAGTAAGTAACTAAAATGCTACAATATA
56188117 AAGACTAGGT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 60 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (71 bp):
GGGTTTGATACCCTTGCCATAAGTATCAAACTAAAATAAGTAAGTAACTAAAATGCTACAATATA
GGCCCA
Found at i:56190391 original size:25 final size:25
Alignment explanation
Indices: 56190357--56190405 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
56190347 GTAATTTATT
*
56190357 AATATATAAATTAATATTATATATA
1 AATATATAAATAAATATTATATATA
*
56190382 AATATTTAAATAAATATTATATAT
1 AATATATAAATAAATATTATATAT
56190406 TTTTTATGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
AATATATAAATAAATATTATATATA
Found at i:56190399 original size:12 final size:12
Alignment explanation
Indices: 56190357--56190399 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
56190347 GTAATTTATT
* *
56190357 AATATATAAATT
1 AATATTTAAATA
*
56190369 AATATTATATATA
1 AATATT-TAAATA
56190382 AATATTTAAATA
1 AATATTTAAATA
56190394 AATATT
1 AATATT
56190400 ATATATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AATATTTAAATA
Found at i:56191391 original size:21 final size:20
Alignment explanation
Indices: 56191357--56191423 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
56191347 CAAAACTTTT
* *
56191357 AAAAAATTTTAAAATTTAGA
1 AAAAAATTTAAAAAATTAGA
*
56191377 AAAAAAGTTTAAAAAATTATA
1 AAAAAA-TTTAAAAAATTAGA
* *
56191398 AAAACAATATT-TAAAAGTAGA
1 AAAA-AAT-TTAAAAAATTAGA
56191419 AAAAA
1 AAAAA
56191424 TATAAAATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 7 0.18
21 27 0.71
22 4 0.11
ACGTcount: A:0.66, C:0.01, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAAAATTTAAAAAATTAGA
Found at i:56191444 original size:19 final size:19
Alignment explanation
Indices: 56191418--56191459 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
56191408 TTAAAAGTAG
*
56191418 AAAA-AATATAAAATTACA
1 AAAATAATATAAAAATACA
*
56191436 AAAATAATATAAAAATATA
1 AAAATAATATAAAAATACA
56191455 AAAAT
1 AAAAT
56191460 TTTATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAATAATATAAAAATACA
Found at i:56191476 original size:20 final size:20
Alignment explanation
Indices: 56191453--56191491 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
56191443 TATAAAAATA
* *
56191453 TAAAAATTTTATTATTTTTT
1 TAAAAATATTAATATTTTTT
56191473 TAAAAATATTAATATTTTT
1 TAAAAATATTAATATTTTT
56191492 AGGTGATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TAAAAATATTAATATTTTTT
Found at i:56191614 original size:3 final size:3
Alignment explanation
Indices: 56191608--56191652 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
56191598 AGTAGTATAG
*
56191608 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
56191653 TAAGAGACCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:56212510 original size:43 final size:43
Alignment explanation
Indices: 56212457--56212542 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
56212447 GATCTATGAG
* *
56212457 GCATCCGAGCTCATTGAGAGGTTTGAGTTCATTATGGATGCGA
1 GCATCCGAGCTCATTGAGAGGTTCGAGTTCATAATGGATGCGA
* *
56212500 GCATCTGAGCTCGTTGAGAGGTTCGAGTTCATAATGGATGCGA
1 GCATCCGAGCTCATTGAGAGGTTCGAGTTCATAATGGATGCGA
56212543 TTCATGTAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.29
Consensus pattern (43 bp):
GCATCCGAGCTCATTGAGAGGTTCGAGTTCATAATGGATGCGA
Found at i:56224014 original size:47 final size:47
Alignment explanation
Indices: 56223945--56224039 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
56223935 TGCTATTGAT
*
56223945 TTAGTATCGGGGACTGTATTAGTATCGATAGCTTCGTATAGAATGGC
1 TTAGTATCGGGGACTGCATTAGTATCGATAGCTTCGTATAGAATGGC
56223992 TTAGTATCGGGGACTGCATTAGTATCGATAGCTTCGTATAGAATGGC
1 TTAGTATCGGGGACTGCATTAGTATCGATAGCTTCGTATAGAATGGC
56224039 T
1 T
56224040 CCAACCAAGC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (47 bp):
TTAGTATCGGGGACTGCATTAGTATCGATAGCTTCGTATAGAATGGC
Found at i:56241383 original size:56 final size:56
Alignment explanation
Indices: 56241323--56241581 Score: 349
Period size: 56 Copynumber: 4.6 Consensus size: 56
56241313 ACCTGGAAGT
* * *
56241323 ATATGTGACTCCGATATATGTGTGCGAGTAAGTCCACGTTTCATATGTTGGCATCG
1 ATATGTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTCATACGTTGGCATCG
* * **
56241379 ATATGTGACT-TCAATATATGTGTGCAAGTAAGTTCACGTTTCATACGTTGGCATCG
1 ATATGTGACTCT-GATATATGTGTGCGAGTAAGACCACGTTTCATACGTTGGCATCG
* * *
56241435 ATATGTGACTCTGATATACGTGTGGGAGTAAGACCACGTTTCATATGTTGGCATCG
1 ATATGTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTCATACGTTGGCATCG
* * *
56241491 ATATGTGACTCTGATATATGTGTGCGAGTAAGACCACATTTTATACGTTGGCATTG
1 ATATGTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTCATACGTTGGCATCG
* * * *
56241547 ATATGTGATTCTGATATGTGTTTACGAGTAAGACC
1 ATATGTGACTCTGATATATGTGTGCGAGTAAGACC
56241582 CTGTCTCGGA
Statistics
Matches: 179, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
56 178 0.99
57 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (56 bp):
ATATGTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTCATACGTTGGCATCG
Found at i:56241599 original size:112 final size:112
Alignment explanation
Indices: 56241323--56241610 Score: 314
Period size: 112 Copynumber: 2.6 Consensus size: 112
56241313 ACCTGGAAGT
* * * * * *
56241323 ATATGTGACTCCGATATATGTGTGCGAGTAAGTCCACGTTTCATATGTTGGCATCGATATGTGAC
1 ATATGTGACTCTGATATACGTGTACGAGTAAGACCACGTCTCACATGTTGGCATCGATATGTGAC
** *
56241388 TTCAATATATGTGTGCAAGTAAGTTCACGTTTCATACGTTGGCATCG
66 TTCAATATATGTGTGCAAGTAAGACCACATTTCATACGTTGGCATCG
** * *
56241435 ATATGTGACTCTGATATACGTGTGGGAGTAAGACCACGTTTCATATGTTGGCATCGATATGTGAC
1 ATATGTGACTCTGATATACGTGTACGAGTAAGACCACGTCTCACATGTTGGCATCGATATGTGAC
* * * *
56241500 -TCTGATATATGTGTGCGAGTAAGACCACATTTTATACGTTGGCATTG
66 TTC-AATATATGTGTGCAAGTAAGACCACATTTCATACGTTGGCATCG
* ** * *
56241547 ATATGTGATTCTGATATGTGTTTACGAGTAAGACC-CTGTCTCGGACA-G-TGGCATTGATATGT
1 ATATGTGACTCTGATATACGTGTACGAGTAAGACCAC-GTCTC--ACATGTTGGCATCGATATGT
56241609 GA
63 GA
56241611 TTACATGTAA
Statistics
Matches: 152, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
111 3 0.02
112 146 0.96
113 1 0.01
114 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (112 bp):
ATATGTGACTCTGATATACGTGTACGAGTAAGACCACGTCTCACATGTTGGCATCGATATGTGAC
TTCAATATATGTGTGCAAGTAAGACCACATTTCATACGTTGGCATCG
Found at i:56247552 original size:27 final size:27
Alignment explanation
Indices: 56247510--56247663 Score: 191
Period size: 27 Copynumber: 5.7 Consensus size: 27
56247500 TGGATAAGTT
**
56247510 GTAGAATTACCGAAATACCTTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
56247537 GTAGAAATACCAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
56247564 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* ** **
56247591 ATAGAATTACTAAAATACCTGTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
56247618 GTAGAAATATCGACATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
56247645 GTAGAATTACCGAGATACC
1 GTAGAATTACCGAAATACC
56247664 TAGGGTGTTA
Statistics
Matches: 105, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 105 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Done.