Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 134 of 198
Found at i:42753556 original size:75 final size:75
Alignment explanation
Indices: 42753498--42753661 Score: 222
Period size: 75 Copynumber: 2.2 Consensus size: 75
42753488 GTGCTAGTCT
* *
42753498 GATAAACCGACGAAATCATTAGTGAG-CACAACTCTAGTAGGATAAACCAACAATATTTGTGCCC
1 GATAAACCGACGAAATAATTAGTGAGTC-CAACTCTAGTAGGATAAACCAACAATATTTGCGCCC
*
42753562 AACGCTAGTAA
65 AGCGCTAGTAA
* * * * **
42753573 GATAAACCGATGAAATAATTAGTGAGTCCAGCTCTAGTTGGATAAATCAATGATATTTGCGCCCA
1 GATAAACCGACGAAATAATTAGTGAGTCCAACTCTAGTAGGATAAACCAACAATATTTGCGCCCA
*
42753638 GCGCTAATAA
66 GCGCTAGTAA
42753648 GATAAACCGACGAA
1 GATAAACCGACGAA
42753662 TGTGTGCCCC
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
75 76 0.99
76 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.23
Consensus pattern (75 bp):
GATAAACCGACGAAATAATTAGTGAGTCCAACTCTAGTAGGATAAACCAACAATATTTGCGCCCA
GCGCTAGTAA
Found at i:42756853 original size:36 final size:36
Alignment explanation
Indices: 42756801--42757217 Score: 428
Period size: 36 Copynumber: 11.4 Consensus size: 36
42756791 AAAGGGGAAC
* *
42756801 ACTGATTCTACT-AAAGTGCTCAAGGAGTAATATCT
1 ACTGATTCTACTGAAAGTGCTCAACGAGCAATATCT
* * *
42756836 ACTAATACTACTGAAAGTGCTCAACAAGCAATATCT
1 ACTGATTCTACTGAAAGTGCTCAACGAGCAATATCT
* * * * * *
42756872 ACTGATCCTATTGAATGTGATCAAACAAGCAATGTCT
1 ACTGATTCTACTGAAAGTGCTC-AACGAGCAATATCT
*
42756909 ACTGATTCTACTGAAAGTTCTCAAACGAGCAATATCT
1 ACTGATTCTACTGAAAGTGCTC-AACGAGCAATATCT
* * *
42756946 ATTGATTCTACTGAAAGCGCTCAACGAGAAATATCT
1 ACTGATTCTACTGAAAGTGCTCAACGAGCAATATCT
* *
42756982 ACTGATCCTACT-AAATGTGCTCAAACGAGCAATGTCT
1 ACTGATTCTACTGAAA-GTGCTC-AACGAGCAATATCT
42757019 ACTGATTCTACTG-AAGTGCTCAAACGAGCAATATCT
1 ACTGATTCTACTGAAAGTGCTC-AACGAGCAATATCT
* *
42757055 ACTGATTCTACTGAAAGTGCTCAACAATCAATATCT
1 ACTGATTCTACTGAAAGTGCTCAACGAGCAATATCT
* * * * *
42757091 ACTGATCCTATTGAACGTGCTCAAAAGAGCAATGTCT
1 ACTGATTCTACTGAAAGTGCTC-AACGAGCAATATCT
* * *
42757128 ACTGGTTCTACTG-AAGTGTTCAAACGAGCAATATTT
1 ACTGATTCTACTGAAAGTGCTC-AACGAGCAATATCT
* * * *
42757164 ACTAATTCTATTGAATAGTTGCTCAAACAAGCAATATCC
1 ACTGATTCTACTGAA-AG-TGCTC-AACGAGCAATATCT
*
42757203 ACTGATTATACTGAA
1 ACTGATTCTACTGAA
42757218 TGTTTGCTTA
Statistics
Matches: 316, Mismatches: 56, Indels: 16
0.81 0.14 0.04
Matches are distributed among these distances:
35 13 0.04
36 157 0.50
37 116 0.37
38 2 0.01
39 28 0.09
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.29
Consensus pattern (36 bp):
ACTGATTCTACTGAAAGTGCTCAACGAGCAATATCT
Found at i:42756983 original size:73 final size:74
Alignment explanation
Indices: 42756801--42757217 Score: 463
Period size: 73 Copynumber: 5.7 Consensus size: 74
42756791 AAAGGGGAAC
* * * * *
42756801 ACTGATTCTACT-AAAGTGCTC-AAGGAGTAATATCTACTAATACTACTGAAAGTGCTC-AACAA
1 ACTGATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAACGA
42756863 GCAATATCT
66 GCAATATCT
* * * * * * *
42756872 ACTGATCCTATTGAATGTGATCAAACAAGCAATGTCTACTGATTCTACTGAAAGTTCTCAAACGA
1 ACTGATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAACGA
42756937 GCAATATCT
66 GCAATATCT
* * * *
42756946 ATTGATTCTACTGAAAGCGCTC-AACGAGAAATATCTACTGATCCTACT-AAATGTGCTCAAACG
1 ACTGATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAA-GTGCTCAAACG
*
42757009 AGCAATGTCT
65 AGCAATATCT
*
42757019 ACTGATTCTACTG-AAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTC-AACAA
1 ACTGATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAACGA
*
42757082 TCAATATCT
66 GCAATATCT
* * * * * * *
42757091 ACTGATCCTATTGAACGTGCTCAAAAGAGCAATGTCTACTGGTTCTACTG-AAGTGTTCAAACGA
1 ACTGATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAACGA
*
42757155 GCAATATTT
66 GCAATATCT
* * * * *
42757164 ACTAATTCTATTGAATAGTTGCTCAAACAAGCAATATCCACTGATTATACTGAA
1 ACTGATTCTACTGAA-AG-TGCTCAAACGAGCAATATCTACTGATTCTACTGAA
42757218 TGTTTGCTTA
Statistics
Matches: 285, Mismatches: 50, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
71 10 0.04
72 46 0.16
73 168 0.59
74 33 0.12
75 27 0.09
76 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.29
Consensus pattern (74 bp):
ACTGATTCTACTGAAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAAACGA
GCAATATCT
Found at i:42757096 original size:109 final size:109
Alignment explanation
Indices: 42756801--42757208 Score: 566
Period size: 109 Copynumber: 3.7 Consensus size: 109
42756791 AAAGGGGAAC
* * * *
42756801 ACTGATTCTACTAAAGTGCTC-AAGGAGTAATATCTACTAATACTACTGAAAGTGCTCAACAAGC
1 ACTGATTCTACTGAAGTGCTCAAACGAGCAATATCTACTAATTCTACTGAAAGTGCTCAACAAGC
* *
42756865 AATATCTACTGATCCTATTGAATGTGATCAAACAAGCAATGTCT
66 AATATCTACTGATCCTATTGAATGTGCTCAAACGAGCAATGTCT
* * * * *
42756909 ACTGATTCTACTGAAAGTTCTCAAACGAGCAATATCTATTGATTCTACTGAAAGCGCTCAACGAG
1 ACTGATTCTACTG-AAGTGCTCAAACGAGCAATATCTACTAATTCTACTGAAAGTGCTCAACAAG
* * *
42756974 AAATATCTACTGATCCTACTAAATGTGCTCAAACGAGCAATGTCT
65 CAATATCTACTGATCCTATTGAATGTGCTCAAACGAGCAATGTCT
* *
42757019 ACTGATTCTACTGAAGTGCTCAAACGAGCAATATCTACTGATTCTACTGAAAGTGCTCAACAATC
1 ACTGATTCTACTGAAGTGCTCAAACGAGCAATATCTACTAATTCTACTGAAAGTGCTCAACAAGC
* *
42757084 AATATCTACTGATCCTATTGAACGTGCTCAAAAGAGCAATGTCT
66 AATATCTACTGATCCTATTGAATGTGCTCAAACGAGCAATGTCT
* * * *
42757128 ACTGGTTCTACTGAAGTGTTCAAACGAGCAATATTTACTAATTCTATTGAATAGTTGCTCAAACA
1 ACTGATTCTACTGAAGTGCTCAAACGAGCAATATCTACTAATTCTACTGAA-AG-TGCTC-AACA
*
42757193 AGCAATATCCACTGAT
63 AGCAATATCTACTGAT
42757209 TATACTGAAT
Statistics
Matches: 264, Mismatches: 31, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
108 12 0.05
109 139 0.53
110 90 0.34
111 5 0.02
112 18 0.07
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (109 bp):
ACTGATTCTACTGAAGTGCTCAAACGAGCAATATCTACTAATTCTACTGAAAGTGCTCAACAAGC
AATATCTACTGATCCTATTGAATGTGCTCAAACGAGCAATGTCT
Found at i:42757287 original size:39 final size:39
Alignment explanation
Indices: 42757175--42757288 Score: 113
Period size: 39 Copynumber: 2.9 Consensus size: 39
42757165 CTAATTCTAT
* * *
42757175 TGAATAGTTGCTCAAACA-AGCAATATCCACTGATTATAC
1 TGAATATTTGCTCAAA-AGAACGATATCCACTGATTATAC
* * * * * *
42757214 TGAATGTTTGCTTAAATGAGCGATACCCATTGATTATAC
1 TGAATATTTGCTCAAAAGAACGATATCCACTGATTATAC
* *
42757253 TGAATATTTTCTCAAAAGAATGATATCCACTGATTA
1 TGAATATTTGCTCAAAAGAACGATATCCACTGATTA
42757289 CTCGAAATGA
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (39 bp):
TGAATATTTGCTCAAAAGAACGATATCCACTGATTATAC
Found at i:42757924 original size:10 final size:10
Alignment explanation
Indices: 42757909--42757935 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
42757899 TTGTAAATGG
42757909 TATGTTTGAA
1 TATGTTTGAA
42757919 TATGTTTGAA
1 TATGTTTGAA
42757929 TATGTTT
1 TATGTTT
42757936 TGGTACTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.56
Consensus pattern (10 bp):
TATGTTTGAA
Found at i:42759477 original size:23 final size:23
Alignment explanation
Indices: 42759450--42759498 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
42759440 GAGAAAGTAT
42759450 GTGTTAAGATAAAAGACCATGTG
1 GTGTTAAGATAAAAGACCATGTG
42759473 GTGTTAAGATAAAAGACCATGTG
1 GTGTTAAGATAAAAGACCATGTG
42759496 GTG
1 GTG
42759499 GTGCTTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.29, T:0.27
Consensus pattern (23 bp):
GTGTTAAGATAAAAGACCATGTG
Found at i:42759921 original size:25 final size:25
Alignment explanation
Indices: 42759803--42759945 Score: 133
Period size: 25 Copynumber: 5.7 Consensus size: 25
42759793 AAACAAGACC
* *
42759803 AAGCCTTTGTGGTGAATTATTTAAA
1 AAGCCTTTGTGGTGAATTATCTGAA
* *
42759828 AAGCCTTTATGGTGAATTATCTAAA
1 AAGCCTTTGTGGTGAATTATCTGAA
* **
42759853 AAGCATTTGTGGCAAATTATCTGAA
1 AAGCCTTTGTGGTGAATTATCTGAA
* ** *
42759878 AATCCTTTACGGTAAATTATCTGAA
1 AAGCCTTTGTGGTGAATTATCTGAA
* * * *
42759903 AAGCCTTTGTGGCGTATTACCTGGA
1 AAGCCTTTGTGGTGAATTATCTGAA
* *
42759928 AAGCCTTTGAGGTAAATT
1 AAGCCTTTGTGGTGAATT
42759946 CTATAACGAC
Statistics
Matches: 94, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 94 1.00
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (25 bp):
AAGCCTTTGTGGTGAATTATCTGAA
Found at i:42768793 original size:18 final size:18
Alignment explanation
Indices: 42768772--42768811 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
42768762 GATTGAGAGT
* *
42768772 GAAAAGGAATGTGAAACA
1 GAAAAGAAAAGTGAAACA
42768790 GAAAAGAAAAGTGAAACA
1 GAAAAGAAAAGTGAAACA
42768808 GAAA
1 GAAA
42768812 TTGAAGAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.62, C:0.05, G:0.25, T:0.07
Consensus pattern (18 bp):
GAAAAGAAAAGTGAAACA
Found at i:42779793 original size:2 final size:2
Alignment explanation
Indices: 42779786--42779815 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
42779776 ACTGCCTCAC
42779786 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
42779816 CTTTTAATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42784172 original size:21 final size:22
Alignment explanation
Indices: 42784134--42784177 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
42784124 GCTTCATCGA
*
42784134 AAAGGTTGAGGCTTCAAGTCTT
1 AAAGGTTGAGGATTCAAGTCTT
42784156 AAAGGTTG-GGATTCAAGTCTT
1 AAAGGTTGAGGATTCAAGTCTT
42784177 A
1 A
42784178 TCATTTGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (22 bp):
AAAGGTTGAGGATTCAAGTCTT
Found at i:42785041 original size:16 final size:16
Alignment explanation
Indices: 42785009--42785042 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
42784999 AATTTAAAGA
*
42785009 TTTAATTTTTAATTTT
1 TTTAATTTTCAATTTT
42785025 TTTAATTTTCATATTTT
1 TTTAATTTTCA-ATTTT
42785042 T
1 T
42785043 AAATGTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTAATTTTCAATTTT
Found at i:42795907 original size:3 final size:3
Alignment explanation
Indices: 42795899--42795934 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
42795889 CACATTTTGT
42795899 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
42795935 CTTGACCCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:42797133 original size:13 final size:13
Alignment explanation
Indices: 42797115--42797146 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
42797105 CTATGAACTC
42797115 TGTTTTCAACTTA
1 TGTTTTCAACTTA
*
42797128 TGTTTTCAAGTTA
1 TGTTTTCAACTTA
42797141 TGTTTT
1 TGTTTT
42797147 ATATGTGCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.09, G:0.12, T:0.59
Consensus pattern (13 bp):
TGTTTTCAACTTA
Found at i:42810502 original size:7 final size:7
Alignment explanation
Indices: 42810482--42810515 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
42810472 TCATTGTAAA
42810482 GGTTTAG
1 GGTTTAG
42810489 GGTTTTAG
1 GG-TTTAG
*
42810497 AGTTTAG
1 GGTTTAG
42810504 GGTTTAG
1 GGTTTAG
42810511 GGTTT
1 GGTTT
42810516 TAGCCAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.47
Consensus pattern (7 bp):
GGTTTAG
Found at i:42817828 original size:38 final size:38
Alignment explanation
Indices: 42817772--42817878 Score: 142
Period size: 38 Copynumber: 2.8 Consensus size: 38
42817762 ATTTCCAATT
* ** *
42817772 ATAAATCTTATGAGCAAACTGGTGTATTATTGGATGGA
1 ATAACTCTTATGAGCAAACTGGTGTATTATCAGATGAA
*
42817810 ATAACTCTTATGAGCAAACTGGTGTGTTATCAGATGAA
1 ATAACTCTTATGAGCAAACTGGTGTATTATCAGATGAA
* * *
42817848 ATAGCTCTTATGAGCAAACTGGCGTGTTATC
1 ATAACTCTTATGAGCAAACTGGTGTATTATC
42817879 GGTTGGTTAC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (38 bp):
ATAACTCTTATGAGCAAACTGGTGTATTATCAGATGAA
Found at i:42819292 original size:2 final size:2
Alignment explanation
Indices: 42819285--42819313 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
42819275 GGTCTTTAAA
42819285 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
42819314 ATGTCTCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:42825106 original size:29 final size:29
Alignment explanation
Indices: 42825064--42825121 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
42825054 TGTATATTGC
42825064 TTGTAAGTACACGTTTGAAATGGGTGAAG
1 TTGTAAGTACACGTTTGAAATGGGTGAAG
42825093 TTGTAAGTACACGTTTGAAATGGGTGAAG
1 TTGTAAGTACACGTTTGAAATGGGTGAAG
42825122 GAAATGGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.07, G:0.31, T:0.31
Consensus pattern (29 bp):
TTGTAAGTACACGTTTGAAATGGGTGAAG
Found at i:42827110 original size:34 final size:34
Alignment explanation
Indices: 42827062--42827126 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
42827052 AAAAAACCCC
* * *
42827062 TAAACCTTACTTTAAACAAATAAAAACCTAACCT
1 TAAACCCTAATTTAAACAAACAAAAACCTAACCT
* *
42827096 TAAACCCTAATTTAAATAAACAAAACCCTAA
1 TAAACCCTAATTTAAACAAACAAAAACCTAA
42827127 TCCTAAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.25
Consensus pattern (34 bp):
TAAACCCTAATTTAAACAAACAAAAACCTAACCT
Found at i:42831585 original size:24 final size:24
Alignment explanation
Indices: 42831547--42831796 Score: 150
Period size: 24 Copynumber: 10.7 Consensus size: 24
42831537 TGAATTGGAT
* * *
42831547 AATTTACAATAAATAATATATAATA
1 AATTTAAAAT-AATAATACATGATA
*
42831572 AATTTGAAATAATAATACAT-ATAA
1 AATTTAAAATAATAATACATGAT-A
**
42831596 AATTT-AAA-AATTTTA-ATGAT-
1 AATTTAAAATAATAATACATGATA
* * *
42831616 AATTCTAGAATAATCATACGTGATA
1 AATT-TAAAATAATAATACATGATA
** * * *
42831641 AATCCAAAATAATAGTATATAATA
1 AATTTAAAATAATAATACATGATA
*
42831665 AATTT-AAA-AATATTA-ATGATA
1 AATTTAAAATAATAATACATGATA
*
42831686 AATTTGAAATAGAT-ATACATGATA
1 AATTTAAAATA-ATAATACATGATA
** *
42831710 AATTTAAAATAATGTTAACA--ATG
1 AATTTAAAATAATAAT-ACATGATA
*
42831733 AATTTAAAATAATAATA-TTGATA
1 AATTTAAAATAATAATACATGATA
42831756 AA-TTACAAATAATAA-AGCATGATA
1 AATTTA-AAATAATAATA-CATGATA
*
42831780 AATCTAAAATAATAATA
1 AATTTAAAATAATAATA
42831797 TACAATACAC
Statistics
Matches: 174, Mismatches: 31, Indels: 40
0.71 0.13 0.16
Matches are distributed among these distances:
20 4 0.02
21 13 0.07
22 23 0.13
23 47 0.27
24 70 0.40
25 17 0.10
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (24 bp):
AATTTAAAATAATAATACATGATA
Found at i:42831643 original size:69 final size:69
Alignment explanation
Indices: 42831569--42831830 Score: 203
Period size: 69 Copynumber: 3.8 Consensus size: 69
42831559 ATAATATATA
* *
42831569 ATAAATTTGAAATAATAATACAT-ATAAAATTTAAAAATTTTAATGAT-AATTCT-AGAATA-AT
1 ATAAATTTAAAATAATAATACATAAT-AAATTTAAAAATATTAATGATAAATT-TGA-AATAGAT
*
42831630 CATACGTG
63 -ATACATG
** * *
42831638 ATAAATCCAAAATAATAGTATATAATAAATTTAAAAATATTAATGATAAATTTGAAATAGATATA
1 ATAAATTTAAAATAATAATACATAATAAATTTAAAAATATTAATGATAAATTTGAAATAGATATA
42831703 CATG
66 CATG
** * * * * **
42831707 ATAAATTTAAAATAATGTTA-ACAATGAATTTAAAATAATAATATTGATAAATTACAAATA-ATA
1 ATAAATTTAAAATAATAATACATAATAAATTT-AAA-AATATTAATGATAAATTTGAAATAGATA
*
42831770 AAGCATG
64 TA-CATG
* * * * * * *
42831777 ATAAATCTAAAATAATAATATACAATACACTTAGATAATATTAATGATTAATTT
1 ATAAATTTAAAATAATAATACATAATAAATTTA-AAAATATTAATGATAAATTT
42831831 AATAATAAGT
Statistics
Matches: 155, Mismatches: 29, Indels: 17
0.77 0.14 0.08
Matches are distributed among these distances:
68 9 0.06
69 72 0.46
70 65 0.42
71 9 0.06
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.35
Consensus pattern (69 bp):
ATAAATTTAAAATAATAATACATAATAAATTTAAAAATATTAATGATAAATTTGAAATAGATATA
CATG
Found at i:42831815 original size:70 final size:68
Alignment explanation
Indices: 42831636--42831829 Score: 176
Period size: 70 Copynumber: 2.8 Consensus size: 68
42831626 TAATCATACG
* * * * * **
42831636 TGATAAATCCAAAATAATAGTATATAATAAATTTAAAAATATTAATGATAAATTTGAAATAGATA
1 TGATAAATCTAAAATAATAATATACAAT-AATTTAATAATAATAATGATAAATTACAAATAGATA
*
42831701 TACA
65 AACA
* ** *
42831705 TGATAAATTTAAAATAATGTTA-ACAATGAATTTAAAATAATAATATTGATAAATTACAAATA-A
1 TGATAAATCTAAAATAATAATATACAAT-AATTT--AATAATAATAATGATAAATTACAAATAGA
42831768 TAAAGCA
63 TAAA-CA
* * *
42831775 TGATAAATCTAAAATAATAATATACAATACACTTAGATAATATTAATGATTAATT
1 TGATAAATCTAAAATAATAATATACAATA-ATTTA-ATAATAATAATGATAAATT
42831830 TAATAATAAG
Statistics
Matches: 100, Mismatches: 19, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
68 9 0.09
69 23 0.23
70 60 0.60
71 8 0.08
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (68 bp):
TGATAAATCTAAAATAATAATATACAATAATTTAATAATAATAATGATAAATTACAAATAGATAA
ACA
Found at i:42832644 original size:21 final size:23
Alignment explanation
Indices: 42832619--42832663 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
42832609 AAAGGGTATC
*
42832619 TACAAATTA-AATC-TCTAAGAT
1 TACAAAATATAATCTTCTAAGAT
*
42832640 TACAAAATATTATCTTCTAAGAT
1 TACAAAATATAATCTTCTAAGAT
42832663 T
1 T
42832664 GCATATCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 3 0.15
23 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.38
Consensus pattern (23 bp):
TACAAAATATAATCTTCTAAGAT
Found at i:42832998 original size:45 final size:44
Alignment explanation
Indices: 42832948--42833047 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 44
42832938 TGTAGGTTCG
*
42832948 GGGAGATAAGGCTCACT-TCCTTCAACCTACTCCACTGCAACTTCA
1 GGGAGATAAGGCTCA-TAT-CTTCAACCGACTCCACTGCAACTTCA
*** * * *
42832993 GGGAGATAAAATTGATATCTTCAACCGGCTCCACTGTAACTTCA
1 GGGAGATAAGGCTCATATCTTCAACCGACTCCACTGCAACTTCA
42833037 GGGAGATAAGG
1 GGGAGATAAGG
42833048 TTGGTTATCT
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
44 33 0.73
45 12 0.27
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (44 bp):
GGGAGATAAGGCTCATATCTTCAACCGACTCCACTGCAACTTCA
Found at i:42833326 original size:44 final size:44
Alignment explanation
Indices: 42833148--42833326 Score: 112
Period size: 44 Copynumber: 4.1 Consensus size: 44
42833138 AAGGAGATAA
* * * *
42833148 GATTCGCTACCTTCGATCTGCTCCACTACTACTTAGGGATACAG
1 GATTTGCTACCTTCGATCTACTCCACTACTGCTTAGGGAGACAG
* * * * * * * **
42833192 GATCTACAATCTTCGACCTACTCCACTGCTGCTAAGGGAGAGGG
1 GATTTGCTACCTTCGATCTACTCCACTACTGCTTAGGGAGACAG
* ** ** * * *
42833236 GATTAG-TGGCTTAAATCTGCTTCC-CTACTACCTT-GGGAAGATAG
1 GATTTGCTACCTTCGATCTAC-TCCACTACT-GCTTAGGG-AGACAG
*
42833280 GATTTGCTGCCTTCGATCTACTCCACTACTGCTTAGGGAGACAG
1 GATTTGCTACCTTCGATCTACTCCACTACTGCTTAGGGAGACAG
42833324 GAT
1 GAT
42833327 CTACAATCTT
Statistics
Matches: 94, Mismatches: 35, Indels: 12
0.67 0.25 0.09
Matches are distributed among these distances:
43 14 0.15
44 62 0.66
45 18 0.19
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (44 bp):
GATTTGCTACCTTCGATCTACTCCACTACTGCTTAGGGAGACAG
Found at i:42833345 original size:44 final size:44
Alignment explanation
Indices: 42833168--42833369 Score: 113
Period size: 44 Copynumber: 4.6 Consensus size: 44
42833158 CTTCGATCTG
* * *
42833168 CTCCACTACTACTTAGGGATACAGGATCTACAATCTTCGACCTA
1 CTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
* * ** **** * * *
42833212 CTCCACTGCTGCTAAGGGAGAGGGGAT-TAGTGGCTTAAATCTG
1 CTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
* * * * *** * *
42833255 CTTCC-CTACTACCTT-GGGAAGATAGGATTTGCTGCCTTCGATCTA
1 C-TCCACTACT-GCTTAGGG-AGACAGGATCTACAATCTTCAACCTA
42833300 CTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
** * *
42833344 CTCCACCGCTGCTCAGGGAGATAGGA
1 CTCCACTACTGCTTAGGGAGACAGGA
42833370 CTGGTGGCTT
Statistics
Matches: 114, Mismatches: 38, Indels: 12
0.70 0.23 0.07
Matches are distributed among these distances:
43 16 0.14
44 79 0.69
45 19 0.17
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
Found at i:42833355 original size:132 final size:132
Alignment explanation
Indices: 42833142--42833430 Score: 434
Period size: 132 Copynumber: 2.2 Consensus size: 132
42833132 AGCGCCAAGG
* * * *
42833142 AGATAAGATTCGCTACCTTCGATCTGCTCCACTACTACTTAGGGATACAGGATCTACAATCTTCG
1 AGATAAGATTTGCTACCTTCGATCTACTCCACTACTACTTAGGGAGACAGGATCTACAATCTTCA
* * *
42833207 ACCTACTCCACTGCTGCTAAGGGAGAGGGGATTAGTGGCTTAAATCTGCTTCCCTACTACCTTGG
66 ACCTACTCCACCGCTGCTAAGGGAGAGAGGACTAGTGGCTTAAATCTGCTTCCCTACTACCTTGG
42833272 GA
131 GA
* * *
42833274 AGATAGGATTTGCTGCCTTCGATCTACTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCA
1 AGATAAGATTTGCTACCTTCGATCTACTCCACTACTACTTAGGGAGACAGGATCTACAATCTTCA
* * *
42833339 ACCTACTCCACCGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGG
66 ACCTACTCCACCGCTGCTAAGGGAGAGAGGACTAGTGGCTTAAATCTGCTTCCCTACTACCTTGG
42833404 GA
131 GA
* * *
42833406 AGATAAGATTTACAATCTTCGATCT
1 AGATAAGATTTGCTACCTTCGATCT
42833431 GCTTCGCTGC
Statistics
Matches: 139, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
132 139 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (132 bp):
AGATAAGATTTGCTACCTTCGATCTACTCCACTACTACTTAGGGAGACAGGATCTACAATCTTCA
ACCTACTCCACCGCTGCTAAGGGAGAGAGGACTAGTGGCTTAAATCTGCTTCCCTACTACCTTGG
GA
Found at i:42833478 original size:35 final size:35
Alignment explanation
Indices: 42833432--42833506 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
42833422 CTTCGATCTG
*
42833432 CTTCGCTGCCAATACAGGAAGACAAGATTTGCTAT
1 CTTCGCTGCCAATACAGGAACACAAGATTTGCTAT
*
42833467 CTTCGCTGCCAATATAGGAACACAAGATTTGCTAT
1 CTTCGCTGCCAATACAGGAACACAAGATTTGCTAT
42833502 CTTCG
1 CTTCG
42833507 ATCTACTTCG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (35 bp):
CTTCGCTGCCAATACAGGAACACAAGATTTGCTAT
Found at i:42833572 original size:35 final size:35
Alignment explanation
Indices: 42833521--42833630 Score: 166
Period size: 35 Copynumber: 3.1 Consensus size: 35
42833511 ACTTCGCTGC
* *
42833521 CTTCGCTACCAATACAGGAAGACAAGATTTGCTAT
1 CTTCGCTGCCAGTACAGGAAGACAAGATTTGCTAT
* *
42833556 ATTCGCTGCCAGTACAGGAAAACAAGATTTGCTAT
1 CTTCGCTGCCAGTACAGGAAGACAAGATTTGCTAT
* *
42833591 CTTCGCTGCCAGTACAGGACGACAAGATTTACTAT
1 CTTCGCTGCCAGTACAGGAAGACAAGATTTGCTAT
42833626 CTTCG
1 CTTCG
42833631 ATCTACTTCA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (35 bp):
CTTCGCTGCCAGTACAGGAAGACAAGATTTGCTAT
Found at i:42833583 original size:89 final size:89
Alignment explanation
Indices: 42833432--42833595 Score: 283
Period size: 89 Copynumber: 1.8 Consensus size: 89
42833422 CTTCGATCTG
* * * *
42833432 CTTCGCTGCCAATACAGGAAGACAAGATTTGCTATCTTCGCTGCCAATATAGGAACACAAGATTT
1 CTTCGCTACCAATACAGGAAGACAAGATTTGCTATATTCGCTGCCAATACAGGAAAACAAGATTT
42833497 GCTATCTTCGATCTACTTCGCTGC
66 GCTATCTTCGATCTACTTCGCTGC
*
42833521 CTTCGCTACCAATACAGGAAGACAAGATTTGCTATATTCGCTGCCAGTACAGGAAAACAAGATTT
1 CTTCGCTACCAATACAGGAAGACAAGATTTGCTATATTCGCTGCCAATACAGGAAAACAAGATTT
42833586 GCTATCTTCG
66 GCTATCTTCG
42833596 CTGCCAGTAC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 70 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (89 bp):
CTTCGCTACCAATACAGGAAGACAAGATTTGCTATATTCGCTGCCAATACAGGAAAACAAGATTT
GCTATCTTCGATCTACTTCGCTGC
Found at i:42833672 original size:45 final size:45
Alignment explanation
Indices: 42833591--42834712 Score: 1286
Period size: 45 Copynumber: 24.6 Consensus size: 45
42833581 GATTTGCTAT
* * * *
42833591 CTTCGCTGCCAGTACAGGACGACAAGATTTACTATCTTCGATCTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* * * *
42833636 CTTCACTGCCAATATAGGAAGACAGGATCTGCTATCTTTGATCTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* *
42833681 CTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCAATCTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* *
42833726 CTTTGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* * * * *
42833771 TTTCGATGCCAACACAAGAAGACAAGATTTGCTATCTTCGATCTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
*
42833816 CTTCGCTGCCAATACAGGAATACAAGATCTGCTATCTTCGATCTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* * *
42833861 CTTTGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCGATCTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* **
42833906 CTTCACTGTGAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
** * * * *
42833951 CTTCGCTGCCAATACAAAAAGACAAGATCTGCTAAC-TCAATATG
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
*
42833995 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTCTCTTCGATCTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* * * *
42834040 CTTAGCTGCCAATATAGGAAGACAAGATCTGCTATCTTTGATTTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* * * * * *
42834085 CTTTGCTGCCAAAACAGAAAGATAATATCTGCTAGCTTCGATCTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* *
42834130 CTTCGCTGCCAATACAGGAAGACAAGATTTGCTATCTTCGATTTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
** * *
42834175 CTTCGCTGTAAATACAGAAAGACAAGATCTTCTATCTTCGATCTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* *
42834220 CTTCGCTGCTAGTACAGGAAGACAAGATCTGCTATCTTCGATCTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* * * *
42834265 CTTCACTGCCACTACAAGAAGACAAGATCTGTTATCTTCGATCTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* *
42834310 CTTCGCTGCCAATACAGGAAGAGAAGATCTGCTAACTTC-ATTCTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGA-TCTA
* *
42834355 CTTCACTGCCACTACAGGAAGACAAGATCTGCTATCGTT-GATCTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC-TTCGATCTA
* * * ** *
42834400 CTTCGCTGCCAATGCAAGAAGACAAAATCTGCTATCAGACAAGATCTG
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC-TTC--GATCTA
* * * * * * *
42834448 CTAT--CT-TCAATCTACTTCGCTGCCAATACAGGAAGA-CAAGATCTGCTATCTTCAATCTA
1 CT-TCGCTGCCAA--TAC--AG--G--AAGAC---AAGATC-TGCTAT-CT-TC---GATCTA
* *
42834507 CTTCCCTGCCAATACAGGAAGACAAGATATGCTATCTTCGATCTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* * *
42834552 CTTCGCTGCCAATATAGGAAGACAAGATTTGCTATCTTGGATCTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
42834597 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
42834642 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
* * *
42834687 CTTTGCTGCCAATATAAGAAGACAAG
1 CTTCGCTGCCAATACAGGAAGACAAG
42834713 TGGTAGCTGT
Statistics
Matches: 905, Mismatches: 145, Indels: 54
0.82 0.13 0.05
Matches are distributed among these distances:
44 38 0.04
45 803 0.89
46 6 0.01
47 2 0.00
48 11 0.01
49 3 0.00
50 7 0.01
52 1 0.00
53 4 0.00
54 4 0.00
55 1 0.00
56 1 0.00
57 7 0.01
58 3 0.00
59 9 0.01
60 2 0.00
61 3 0.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (45 bp):
CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTA
Found at i:42833841 original size:135 final size:135
Alignment explanation
Indices: 42833591--42834712 Score: 1431
Period size: 135 Copynumber: 8.2 Consensus size: 135
42833581 GATTTGCTAT
* * * * * *
42833591 CTTCGCTGCCAGTACAGGACGACAAGATTTACTATCTTCGATCTACTTCACTGCCAATATAGGAA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAA
* * * *
42833656 GACAGGATCTGCTATCTTTGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCA
66 GACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCG
42833721 ATCTA
131 ATCTA
* * * * * *
42833726 CTTTGCTGCCAGTACAGGAAGACAAGATCTGCTATCTTCGATCTATTTCGATGCCAACACAAGAA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAA
* *
42833791 GACAAGATTTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAATACAAGATCTGCTATCTTCG
66 GACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCG
42833856 ATCTA
131 ATCTA
* * * * **
42833861 CTTTGCTGCCAGTACAGGAAGACAAGATCTGCTATTTTCGATCTACTTCACTGTGAATACAGGAA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAA
** * *
42833926 GACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAAAAAGACAAGATCTGCTAAC-TCA
66 GACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCG
* *
42833990 ATATG
131 ATCTA
* * *
42833995 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTCTCTTCGATCTACTTAGCTGCCAATATAGGAA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAA
* * * * * * * *
42834060 GACAAGATCTGCTATCTTTGATTTACTTTGCTGCCAAAACAGAAAGATAATATCTGCTAGCTTCG
66 GACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCG
42834125 ATCTA
131 ATCTA
* * ** *
42834130 CTTCGCTGCCAATACAGGAAGACAAGATTTGCTATCTTCGATTTACTTCGCTGTAAATACAGAAA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAA
* * *
42834195 GACAAGATCTTCTATCTTCGATCTACTTCGCTGCTAGTACAGGAAGACAAGATCTGCTATCTTCG
66 GACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCG
42834260 ATCTA
131 ATCTA
* * * *
42834265 CTTCACTGCCACTACAAGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTGCCAATACAGGAA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAA
* * * *
42834330 GAGAAGATCTGCTAACTTC-ATTCTACTTCACTGCCACTACAGGAAGACAAGATCTGCTATCGTT
66 GACAAGATCTGCTATCTTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC-TT
42834394 -GATCTA
129 CGATCTA
* * *
42834400 CTTCGCTGCCAATGCAAGAAGACAAAATCTGCTATCAGACAAGATCTGCTATCTTCAATCTACTT
1 CTTCGCTGCCAATACAGGAAGAC--AA---G--AT----C----T--GCTATCTTCGATCTACTT
* *
42834465 CGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAATCTACTTCCCTGCCAATACAGGAAGAC
49 CGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGAC
*
42834530 AAGATATGCTATCTTCGATCTA
114 AAGATCTGCTATCTTCGATCTA
* * *
42834552 CTTCGCTGCCAATATAGGAAGACAAGATTTGCTATCTTGGATCTACTTCGCTGCCAATACAGGAA
1 CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAA
42834617 GACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCG
66 GACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCG
42834682 ATCTA
131 ATCTA
* * *
42834687 CTTTGCTGCCAATATAAGAAGACAAG
1 CTTCGCTGCCAATACAGGAAGACAAG
42834713 TGGTAGCTGT
Statistics
Matches: 858, Mismatches: 107, Indels: 44
0.85 0.11 0.04
Matches are distributed among these distances:
134 115 0.13
135 612 0.71
136 2 0.00
137 3 0.00
140 1 0.00
142 2 0.00
145 2 0.00
146 1 0.00
147 1 0.00
150 3 0.00
151 2 0.00
152 113 0.13
153 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (135 bp):
CTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAA
GACAAGATCTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCG
ATCTA
Found at i:42834441 original size:17 final size:17
Alignment explanation
Indices: 42834419--42834452 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
42834409 CAATGCAAGA
42834419 AGACAAAATCTGCTATC
1 AGACAAAATCTGCTATC
*
42834436 AGACAAGATCTGCTATC
1 AGACAAAATCTGCTATC
42834453 TTCAATCTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.24
Consensus pattern (17 bp):
AGACAAAATCTGCTATC
Found at i:42834450 original size:62 final size:62
Alignment explanation
Indices: 42834374--42834497 Score: 196
Period size: 62 Copynumber: 2.0 Consensus size: 62
42834364 CACTACAGGA
* *
42834374 AGACAAGATCTGCTATCGTT-GATCTACTTCGCTGCCAATGCAAGAAGACAAAATCTGCTATC
1 AGACAAGATCTGCTATC-TTCAATCTACTTCGCTGCCAATACAAGAAGACAAAATCTGCTATC
* *
42834436 AGACAAGATCTGCTATCTTCAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
1 AGACAAGATCTGCTATCTTCAATCTACTTCGCTGCCAATACAAGAAGACAAAATCTGCTATC
42834498 TTCAATCTAC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
61 2 0.04
62 55 0.96
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (62 bp):
AGACAAGATCTGCTATCTTCAATCTACTTCGCTGCCAATACAAGAAGACAAAATCTGCTATC
Found at i:42834519 original size:107 final size:107
Alignment explanation
Indices: 42834333--42834542 Score: 314
Period size: 107 Copynumber: 2.0 Consensus size: 107
42834323 ACAGGAAGAG
* * *
42834333 AAGATCTGCTAACTTCATTCTACTTCACTGCCACTACAGGAAGACAAGATCTGCTATCGTTGATC
1 AAGATCTGCTAACTTCAATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCGTTAATC
* * *
42834398 TACTTCGCTGCCAATGCAAGAAGACAAAATCTGCTATCAGAC
66 TACTTCCCTGCCAATACAAGAAGACAAAATATGCTATCAGAC
* *
42834440 AAGATCTGCTATCTTCAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC-TTCAAT
1 AAGATCTGCTAACTTCAATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCGTT-AAT
* *
42834504 CTACTTCCCTGCCAATACAGGAAGACAAGATATGCTATC
65 CTACTTCCCTGCCAATACAAGAAGACAAAATATGCTATC
42834543 TTCGATCTAC
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
106 2 0.02
107 90 0.98
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (107 bp):
AAGATCTGCTAACTTCAATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCGTTAATC
TACTTCCCTGCCAATACAAGAAGACAAAATATGCTATCAGAC
Found at i:42834560 original size:152 final size:152
Alignment explanation
Indices: 42834284--42834587 Score: 475
Period size: 152 Copynumber: 2.0 Consensus size: 152
42834274 CACTACAAGA
* * *
42834284 AGACAAGATCTGTTATCTTCGATCTACTTCGCTGCCAATACAGGAAGAGAAGATCTGCTAACTTC
1 AGACAAGATCTGCTATCTTCAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAACTTC
* * * *
42834349 ATTCTACTTCACTGCCACTACAGGAAGACAAGATCTGCTATCGTTGATCTACTTCGCTGCCAATG
66 AATCTACTTCACTGCCAATACAGGAAGACAAGATATGCTATCGTTGATCTACTTCGCTGCCAATA
42834414 CAAGAAGACAAAATCTGCTATC
131 CAAGAAGACAAAATCTGCTATC
*
42834436 AGACAAGATCTGCTATCTTCAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
1 AGACAAGATCTGCTATCTTCAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAACTTC
*
42834501 AATCTACTTCCCTGCCAATACAGGAAGACAAGATATGCTATC-TTCGATCTACTTCGCTGCCAAT
66 AATCTACTTCACTGCCAATACAGGAAGACAAGATATGCTATCGTT-GATCTACTTCGCTGCCAAT
* * * *
42834565 ATAGGAAGACAAGATTTGCTATC
130 ACAAGAAGACAAAATCTGCTATC
42834588 TTGGATCTAC
Statistics
Matches: 138, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
151 2 0.01
152 136 0.99
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (152 bp):
AGACAAGATCTGCTATCTTCAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTAACTTC
AATCTACTTCACTGCCAATACAGGAAGACAAGATATGCTATCGTTGATCTACTTCGCTGCCAATA
CAAGAAGACAAAATCTGCTATC
Found at i:42834619 original size:242 final size:242
Alignment explanation
Indices: 42834194--42834677 Score: 756
Period size: 242 Copynumber: 2.0 Consensus size: 242
42834184 AAATACAGAA
* * * *
42834194 AGACAAGATCTTCTATCTTCGATCTACTTCGCTGCTAGTACAGGAAGACAAGATCTGCTATCTTC
1 AGACAAGATCTGCTATCTTCAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
* * * *
42834259 GATCTACTTCACTGCCACTACAAGAAGACAAGATCTGTTATCTTCGATCTACTTCGCTGCCAATA
66 AATCTACTTCACTGCCAATACAAGAAGACAAGATATGCTATCTTCGATCTACTTCGCTGCCAATA
* *
42834324 CAGGAAGAGAAGATCTGCTAACTTCATTCTACTTCACTGCCACTACAGGAAGACAAGATCTGCTA
131 CAGGAAGACAAGATCTGCTAACTTCATTCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
*
42834389 TCGTT-GATCTACTTCGCTGCCAATGCAAGAAGACAAAATCTGCTATC
196 TC-TTCGATCTACTTCGCTGCCAATACAAGAAGACAAAATCTGCTATC
42834436 AGACAAGATCTGCTATCTTCAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
1 AGACAAGATCTGCTATCTTCAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
* *
42834501 AATCTACTTCCCTGCCAATACAGGAAGACAAGATATGCTATCTTCGATCTACTTCGCTGCCAATA
66 AATCTACTTCACTGCCAATACAAGAAGACAAGATATGCTATCTTCGATCTACTTCGCTGCCAATA
* * * * *
42834566 TAGGAAGACAAGATTTGCTATCTTGGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
131 CAGGAAGACAAGATCTGCTAACTT-CATTCTACTTCACTGCCAATACAGGAAGACAAGATCTGCT
* *
42834630 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
195 ATCTTCGATCTACTTCGCTGCCAATACAAGAAGACAAAATCTGCTATC
42834678 TTCGATCTAC
Statistics
Matches: 220, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
241 2 0.01
242 217 0.99
243 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (242 bp):
AGACAAGATCTGCTATCTTCAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTC
AATCTACTTCACTGCCAATACAAGAAGACAAGATATGCTATCTTCGATCTACTTCGCTGCCAATA
CAGGAAGACAAGATCTGCTAACTTCATTCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
TCTTCGATCTACTTCGCTGCCAATACAAGAAGACAAAATCTGCTATC
Found at i:42837074 original size:45 final size:45
Alignment explanation
Indices: 42836285--42837059 Score: 1027
Period size: 45 Copynumber: 17.2 Consensus size: 45
42836275 CAACAATATT
* * *
42836285 TGCTATCTTGGATCTATTTTGCTGCCAATACAGGAAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC
* * *
42836330 TGTTATCTTTGATCTACTTCGCTGCCAATACAGGAAGAGAAGATC
1 TGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC
* * * *
42836375 TGCTAACTTCAATCTACTTCGCTGCCACTACAGGAATACAAGATC
1 TGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC
* *
42836420 TGCTATCTACGATCTACTTCGCTTCCAATACAGGAAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC
* * * *
42836465 TGCTAACTTTGATCTACTTCGCTGTCAATACAGGAAGACAAAATC
1 TGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC
* *
42836510 TGCTATCTTCGATCTACTTCGGTGCCAGTACAGGAAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC
* * * *
42836555 TGCTATCTTCAATCTACTTCACTGTCAATACAAGAAGATC-AGATC
1 TGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGA-CAAGATC
* *
42836600 TGCTATCTTCGATCTACTTCGCTGCCAATACATGAAGACAAGATT
1 TGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC
*
42836645 TGCTATCTTCGATCTACTTAGCTGCCAATACAGGAAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC
* * *
42836690 TGCTATCTTCGATTTATTTCGCTGCCAATACAGGAAGATAAGATC
1 TGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC
* *
42836735 TGCTAGCTTCGATCTACTTCGTTGCCAATACAGGAAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC
* * * *
42836780 TACTATCTTCGATCTACTTCGCTGCCAGTACAAGAAGACAAAAAT-
1 TGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGAC-AAGATC
* *
42836825 TGCTATATTCGATCTACTTCGTTGCCAATACAGGAAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC
* *
42836870 TGCTATGTTCGATCTACTTCGCTGCCAATACAGGAAGACAATATC
1 TGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC
* * * * *
42836915 TACTAACTT-GAATTTACTTCGCTGCCAATATAGAAAGACAAGATC
1 TGCTATCTTCG-ATCTACTTCGCTGCCAATACAGGAAGACAAGATC
* **
42836960 TGCTATCTTCGATCTACTTCACTGCCAATGTAGGAAGACAAGATC
1 TGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC
* * * * *
42837005 TGCTAACTTCGATCTACTGT-ACTGCCAATACAGGAGGACAAAATA
1 TGCTATCTTCGATCTACT-TCGCTGCCAATACAGGAAGACAAGATC
42837050 TGCTATCTTC
1 TGCTATCTTC
42837060 AACCTACTCC
Statistics
Matches: 635, Mismatches: 88, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
44 6 0.01
45 622 0.98
46 7 0.01
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (45 bp):
TGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC
Found at i:42839306 original size:18 final size:18
Alignment explanation
Indices: 42839259--42839307 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
42839249 CCTTGGCCTC
*
42839259 TCTTTTTCCTTTTCCTTT
1 TCTTTTTCTTTTTCCTTT
42839277 TCTTTTTCTTTTTCCTTT
1 TCTTTTTCTTTTTCCTTT
42839295 TC-TTTTCTTTTTC
1 TCTTTTTCTTTTTC
42839308 TATCATTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 11 0.37
18 19 0.63
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TCTTTTTCTTTTTCCTTT
Found at i:42839308 original size:6 final size:6
Alignment explanation
Indices: 42839259--42839308 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
42839249 CCTTGGCCTC
* * *
42839259 TCTTTT TCCTTT TCCTTT TCTTTT TCTTTT TCCTTT TC-TTT TCTTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
42839306 TCT
1 TCT
42839309 ATCATTTTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
5 5 0.12
6 35 0.88
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (6 bp):
TCTTTT
Found at i:42839319 original size:6 final size:6
Alignment explanation
Indices: 42839262--42839328 Score: 50
Period size: 6 Copynumber: 11.7 Consensus size: 6
42839252 TGGCCTCTCT
* * * * * *
42839262 TTTTCC TTTTCC TTTTCT TTTTCT TTTTCC TTTTC- TTTTCT TTTTC-
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA
*
42839308 -TATCA TTTTCA TTTTCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTT
42839329 TTTGATTTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
4 3 0.06
5 5 0.09
6 46 0.85
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (6 bp):
TTTTCA
Found at i:42841879 original size:16 final size:16
Alignment explanation
Indices: 42841854--42841888 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
42841844 TTCTATGATG
*
42841854 AAATGCCATGCAGTCA
1 AAATGCCATGCAGGCA
*
42841870 AAATGTCATGCAGGCA
1 AAATGCCATGCAGGCA
42841886 AAA
1 AAA
42841889 CAAAACATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (16 bp):
AAATGCCATGCAGGCA
Found at i:42843739 original size:24 final size:23
Alignment explanation
Indices: 42843712--42843906 Score: 85
Period size: 23 Copynumber: 8.4 Consensus size: 23
42843702 TGATAAATCC
*
42843712 AAAATAATAGTTTATAATAAATTT
1 AAAATAATA-TTAATAATAAATTT
*
42843736 -AAA-AATATTAATGATAAATTT
1 AAAATAATATTAATAATAAATTT
* **
42843757 GAAATAGATA-TACATGGTAAATTT
1 AAAATA-ATATTA-ATAATAAATTT
* * * *
42843781 AAAATAATGTTAACAGTGAATTT
1 AAAATAATATTAATAATAAATTT
* * *
42843804 AAAATAATAATATTGATAAA-TT
1 AAAATAATATTAATAATAAATTT
** * *
42843826 ACAAATAATAAAACATGATAAATCT
1 A-AAATAATATTA-ATAATAAATTT
* * * *
42843851 AAAATAATAATATACAATACACTT
1 AAAATAATATTA-ATAATAAATTT
* * *
42843875 -AGATAATATTAATGATTAATTT
1 AAAATAATATTAATAATAAATTT
42843897 AATAATAATA
1 AA-AATAATA
42843907 AGTATAAACA
Statistics
Matches: 128, Mismatches: 33, Indels: 20
0.71 0.18 0.11
Matches are distributed among these distances:
21 12 0.09
22 16 0.12
23 49 0.38
24 49 0.38
25 2 0.02
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (23 bp):
AAAATAATATTAATAATAAATTT
Found at i:42843778 original size:69 final size:69
Alignment explanation
Indices: 42843661--42843906 Score: 205
Period size: 70 Copynumber: 3.6 Consensus size: 69
42843651 AATACATATA
* * * * * *
42843661 AAATTTAAAAATTTTGATGAT-AATTCTGGAATAATCATACGTGATAAATCCAAAATAATAGTTT
1 AAATTTAAAAATATTAATGATAAATT-TGAAATAATAATACATGATAAATCTAAAATAATAGTTT
*
42843725 ATAAT
65 ACAAT
* * *
42843730 AAATTTAAAAATATTAATGATAAATTTGAAATAGAT-ATACATGGTAAATTTAAAATAAT-GTTA
1 AAATTTAAAAATATTAATGATAAATTTGAAATA-ATAATACATGATAAATCTAAAATAATAGTTT
*
42843793 ACAGT
65 ACAAT
* * * ** * * *
42843798 GAATTTAAAATAATAATATTGATAAATTACAAATAATAAAACATGATAAATCTAAAATAATAATA
1 AAATTT-AAA-AATATTAATGATAAATTTGAAATAATAATACATGATAAATCTAAAATAATAGTT
42843863 TACAAT
64 TACAAT
* * * *
42843869 ACACTTAGATAATATTAATGATTAATTT--AATAATAATA
1 AAATTTA-AAAATATTAATGATAAATTTGAAATAATAATA
42843907 AGTATAAACA
Statistics
Matches: 139, Mismatches: 31, Indels: 15
0.75 0.17 0.08
Matches are distributed among these distances:
68 20 0.14
69 49 0.35
70 61 0.44
71 9 0.06
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (69 bp):
AAATTTAAAAATATTAATGATAAATTTGAAATAATAATACATGATAAATCTAAAATAATAGTTTA
CAAT
Found at i:42844265 original size:25 final size:25
Alignment explanation
Indices: 42844219--42844266 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
42844209 ACATAATATT
* *
42844219 AAAAAAAAGTATATAATTAATGGAC
1 AAAAAAAAGAATATAATGAATGGAC
42844244 AAAAAAAAGAATGATAA-GAATGG
1 AAAAAAAAGAAT-ATAATGAATGG
42844267 TTAAATGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.62, C:0.02, G:0.17, T:0.19
Consensus pattern (25 bp):
AAAAAAAAGAATATAATGAATGGAC
Found at i:42844743 original size:19 final size:19
Alignment explanation
Indices: 42844719--42844772 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
42844709 AATCTTATTT
*
42844719 TCTAAGATTGCATATCTTA
1 TCTAAGATTGCATATCATA
42844738 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
42844757 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
42844773 CTTTTTCATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:42850912 original size:31 final size:31
Alignment explanation
Indices: 42850869--42850928 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
42850859 TGTAAGAAAA
* * *
42850869 TTTTCAAGGAAGACATGCCTTGTAGGACGTG
1 TTTTCAAGGAAGACACGCCCTATAGGACGTG
42850900 TTTTC-AGTGAAGACACGCCCTATAGGACG
1 TTTTCAAG-GAAGACACGCCCTATAGGACG
42850929 CACTTTCAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (31 bp):
TTTTCAAGGAAGACACGCCCTATAGGACGTG
Found at i:42852779 original size:49 final size:49
Alignment explanation
Indices: 42852667--42852779 Score: 136
Period size: 49 Copynumber: 2.3 Consensus size: 49
42852657 TATGTACCTT
* * ***
42852667 AGCCATTTTGATAAGTGTGTTAAGTGTTGGAACATATTTTATGTTTCTC
1 AGCCATTTTGATAAGTGCGTTAACTGCAAGAACATATTTTATGTTTCTC
** * * *
42852716 AATCGTTCTAATAAGTGCGTTAACTGCAAGAACATATTTTATGTTTCTC
1 AGCCATTTTGATAAGTGCGTTAACTGCAAGAACATATTTTATGTTTCTC
42852765 AGCCATTTTGATAAG
1 AGCCATTTTGATAAG
42852780 ATAAGTATTT
Statistics
Matches: 49, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (49 bp):
AGCCATTTTGATAAGTGCGTTAACTGCAAGAACATATTTTATGTTTCTC
Found at i:42857569 original size:42 final size:42
Alignment explanation
Indices: 42857510--42857597 Score: 140
Period size: 42 Copynumber: 2.1 Consensus size: 42
42857500 TACAAATTAT
* *
42857510 CTATCTTTAACTTTAATCACCCCGAATCAAAGGACGTACTCC
1 CTATCTTTAACTCTAATCACCCAGAATCAAAGGACGTACTCC
* *
42857552 CTATCTTTAACTCTAATCACCCAGAATCAAGGGACGTACTTC
1 CTATCTTTAACTCTAATCACCCAGAATCAAAGGACGTACTCC
42857594 CTAT
1 CTAT
42857598 AATCAATGCA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.30, G:0.10, T:0.30
Consensus pattern (42 bp):
CTATCTTTAACTCTAATCACCCAGAATCAAAGGACGTACTCC
Found at i:42860825 original size:24 final size:24
Alignment explanation
Indices: 42860796--42860853 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
42860786 TCCTATAAAG
42860796 GAGAAATAAGGAATATGAGAGAAA
1 GAGAAATAAGGAATATGAGAGAAA
42860820 GAGAAATAAGGAATATGAGAGAAA
1 GAGAAATAAGGAATATGAGAGAAA
42860844 GAGAAATAAG
1 GAGAAATAAG
42860854 ACAGTGAGCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.59, C:0.00, G:0.29, T:0.12
Consensus pattern (24 bp):
GAGAAATAAGGAATATGAGAGAAA
Found at i:42864911 original size:29 final size:29
Alignment explanation
Indices: 42864877--42864934 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
42864867 AGAATTGAAG
42864877 ATACAACATTCAATCAAATTTATCCAACT
1 ATACAACATTCAATCAAATTTATCCAACT
42864906 ATACAACATTCAATCAAATTTATCCAACT
1 ATACAACATTCAATCAAATTTATCCAACT
42864935 CATTCATTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (29 bp):
ATACAACATTCAATCAAATTTATCCAACT
Found at i:42865157 original size:17 final size:17
Alignment explanation
Indices: 42865135--42865167 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
42865125 CACTAACATT
42865135 AAAATGCAATGACAATA
1 AAAATGCAATGACAATA
*
42865152 AAAATGCAGTGACAAT
1 AAAATGCAATGACAAT
42865168 GTGCACTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.12, G:0.15, T:0.18
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:42875397 original size:15 final size:16
Alignment explanation
Indices: 42875377--42875409 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
42875367 TTTTAGTTAA
42875377 TTAAATATTTTT-ATT
1 TTAAATATTTTTAATT
42875392 TTAAATATTTTTAATT
1 TTAAATATTTTTAATT
42875408 TT
1 TT
42875410 CCTAGTCGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTAAATATTTTTAATT
Found at i:42893744 original size:16 final size:18
Alignment explanation
Indices: 42893709--42893745 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
42893699 AGTGATCACT
*
42893709 ATGCAATTTCTAATCTAA
1 ATGCAATTTCTAACCTAA
42893727 ATGCAATTT-T-ACCTAA
1 ATGCAATTTCTAACCTAA
42893743 ATG
1 ATG
42893746 TATGAATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 1 0.06
18 9 0.50
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (18 bp):
ATGCAATTTCTAACCTAA
Found at i:42905248 original size:76 final size:76
Alignment explanation
Indices: 42905159--42905302 Score: 209
Period size: 76 Copynumber: 1.9 Consensus size: 76
42905149 TCGTCTGAGC
* *
42905159 TTAGTATACATATATATATCAAGTTACTCGTCCAAGCTAAACCTTTGCAATGACACATC-GAGTT
1 TTAGTATACATATATATATCAAGTTACCCGTCCAAGCTAAACCTTTACAATGACACATCAG-GTT
42905223 ACTCGACAGAGT
65 ACTCGACAGAGT
* * * * *
42905235 TTAGTATACATATATATATCGAGTTACCCTTTCGAGCTAAACCTTTATAATGACACATCAGGTTA
1 TTAGTATACATATATATATCAAGTTACCCGTCCAAGCTAAACCTTTACAATGACACATCAGGTTA
42905300 CTC
66 CTC
42905303 AACCGAGCTA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
76 59 0.98
77 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (76 bp):
TTAGTATACATATATATATCAAGTTACCCGTCCAAGCTAAACCTTTACAATGACACATCAGGTTA
CTCGACAGAGT
Found at i:42906667 original size:39 final size:38
Alignment explanation
Indices: 42906624--42907048 Score: 372
Period size: 39 Copynumber: 11.2 Consensus size: 38
42906614 AAAAGATCAT
*
42906624 ATTCAGTATAATCAGTGGATATCACTCGTTTGAGAAAAC
1 ATTCAGTATAATCAGTGGATATCGCTCGTTTGAG-AAAC
*
42906663 ATTCAGTATAATCAGTGGATATCGCTCGTTTCAGCAAAC
1 ATTCAGTATAATCAGTGGATATCGCTCGTTTGAG-AAAC
* *
42906702 ATTCAGTATGATCAGTGGATATCGCTCGTTGGAGAAAAC
1 ATTCAGTATAATCAGTGGATATCGCTCGTTTGAG-AAAC
* * *
42906741 ATTTAGTATGATCAGTGGATATCGCTCATTTGAGCAAAC
1 ATTCAGTATAATCAGTGGATATCGCTCGTTTGAG-AAAC
* *
42906780 ATTCAGTGTAATCAGTGGATATCGCTCATTTGAGCAAAC
1 ATTCAGTATAATCAGTGGATATCGCTCGTTTGAG-AAAC
* * * * *
42906819 ATTCAGTATAATAAGTGGATACCGCTCATTTAAGCAAC
1 ATTCAGTATAATCAGTGGATATCGCTCGTTTGAGAAAC
* * * * * * * * *
42906857 TTTTAGTATATTCAATAGACATTGCTCTTTTGAG-TAC
1 ATTCAGTATAATCAGTGGATATCGCTCGTTTGAGAAAC
* * * **
42906894 GTTCAGAATAATCAGTAGATATTACTCGTTTGAGAAAC
1 ATTCAGTATAATCAGTGGATATCGCTCGTTTGAGAAAC
* * * ** * *
42906932 TTTCAGTATAATCAGTAGACATTACTCTTTTGAG-CAC
1 ATTCAGTATAATCAGTGGATATCGCTCGTTTGAGAAAC
* * ** * *
42906969 ATTCAGTATAATCAATAGATATTTCTCATTTGAG-CAC
1 ATTCAGTATAATCAGTGGATATCGCTCGTTTGAGAAAC
* * * *
42907006 ATTCAGTATAATCAATAGATATTGCTCGTTTGAG-CAC
1 ATTCAGTATAATCAGTGGATATCGCTCGTTTGAGAAAC
42907043 ATTCAG
1 ATTCAG
42907049 GATTTAACTG
Statistics
Matches: 333, Mismatches: 52, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
37 103 0.31
38 58 0.17
39 172 0.52
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (38 bp):
ATTCAGTATAATCAGTGGATATCGCTCGTTTGAGAAAC
Found at i:42906933 original size:75 final size:74
Alignment explanation
Indices: 42906843--42907048 Score: 259
Period size: 75 Copynumber: 2.8 Consensus size: 74
42906833 GTGGATACCG
* * * * *
42906843 CTCATTTAAGCAACTTTTAGTATATTCAATAGACATTGCTCTTTTGAGTACGTTCAGAATAATCA
1 CTCATTTGAG-AACTTTCAGTATAATCAATAGACATTGCTCTTTTGAGCACATTCAGAATAATCA
*
42906908 GTAGATATTA
65 ATAGATATTA
* * * *
42906918 CTCGTTTGAGAAACTTTCAGTATAATCAGTAGACATTACTCTTTTGAGCACATTCAGTATAATCA
1 CTCATTTGAG-AACTTTCAGTATAATCAATAGACATTGCTCTTTTGAGCACATTCAGAATAATCA
*
42906983 ATAGATATTT
65 ATAGATATTA
* * * *
42906993 CTCATTTGAGCACATTCAGTATAATCAATAGATATTGCTCGTTTGAGCACATTCAG
1 CTCATTTGAGAACTTTCAGTATAATCAATAGACATTGCTCTTTTGAGCACATTCAG
42907049 GATTTAACTG
Statistics
Matches: 112, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
74 40 0.36
75 72 0.64
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.37
Consensus pattern (74 bp):
CTCATTTGAGAACTTTCAGTATAATCAATAGACATTGCTCTTTTGAGCACATTCAGAATAATCAA
TAGATATTA
Found at i:42911982 original size:39 final size:39
Alignment explanation
Indices: 42911931--42912195 Score: 272
Period size: 39 Copynumber: 6.9 Consensus size: 39
42911921 GATATTATTC
* *
42911931 AGTATAATCAGTGGATATCGCTCGTTTGAGCAAACATTC
1 AGTATAATCAGTGGATATCGCTTGTTTGAGCAAACATTT
** * *
42911970 AGTACGACCAGTGGATATTGCTTGTTTGAGCAAACATTT
1 AGTATAATCAGTGGATATCGCTTGTTTGAGCAAACATTT
*
42912009 AGTATAATCTGTGGATATCGCTTGTTTGAGCAAACATTT
1 AGTATAATCAGTGGATATCGCTTGTTTGAGCAAACATTT
* *
42912048 AGGATAATCAGTGGATATCGCTCGTTTGAGCAAACATTT
1 AGTATAATCAGTGGATATCGCTTGTTTGAGCAAACATTT
* * *
42912087 AGTAAAATCAGTGGGTATAGCTTGTTTGAGC-AAC-TTT
1 AGTATAATCAGTGGATATCGCTTGTTTGAGCAAACATTT
* * * * * *
42912124 CAATATATTCAGTAGACATTGCTCT-TTTGAGC--ACATTC
1 -AGTATAATCAGTGGATATCGCT-TGTTTGAGCAAACATTT
* * * *
42912162 AGTATAACCACTAGATATTGCTTGTTTGAG-AAAC
1 AGTATAATCAGTGGATATCGCTTGTTTGAGCAAAC
42912196 TTTCAATACA
Statistics
Matches: 188, Mismatches: 32, Indels: 13
0.81 0.14 0.06
Matches are distributed among these distances:
36 1 0.01
37 28 0.15
38 29 0.15
39 130 0.69
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.34
Consensus pattern (39 bp):
AGTATAATCAGTGGATATCGCTTGTTTGAGCAAACATTT
Found at i:42912153 original size:38 final size:38
Alignment explanation
Indices: 42912111--42912258 Score: 149
Period size: 37 Copynumber: 3.9 Consensus size: 38
42912101 GTATAGCTTG
*
42912111 TTTGAGCAACTTTCAATATATTCAGTAGACATTGCTCT
1 TTTGAGCAACTTTCAATATAATCAGTAGACATTGCTCT
* * * * *
42912149 TTTGAGC-ACATTCAGTATAACCACTAGATATTGCT-T
1 TTTGAGCAACTTTCAATATAATCAGTAGACATTGCTCT
* * *
42912185 GTTTGAGAAACTTTCAATACAATCAGTAGGCATTGCTCT
1 -TTTGAGCAACTTTCAATATAATCAGTAGACATTGCTCT
* * * *
42912224 TCTGAG-AACGTTCAGTATAATCAGTAGATATTGCT
1 TTTGAGCAACTTTCAATATAATCAGTAGACATTGCT
42912259 TGTATGAGCA
Statistics
Matches: 87, Mismatches: 20, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
36 1 0.01
37 52 0.60
38 33 0.38
39 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (38 bp):
TTTGAGCAACTTTCAATATAATCAGTAGACATTGCTCT
Found at i:42912189 original size:75 final size:74
Alignment explanation
Indices: 42912106--42912311 Score: 245
Period size: 75 Copynumber: 2.8 Consensus size: 74
42912096 AGTGGGTATA
*
42912106 GCTTGTTTGAGCAACTTTCAATATATTCAGTAGACATTGCTCTTTTGAGCACATTCAGTATAACC
1 GCTTGTTTGAGCAACTTTCAATA-ATTCAGTAGGCATTGCTCTTTTGAGCACATTCAGTATAACC
42912171 ACTAGATATT
65 ACTAGATATT
* * * * * *
42912181 GCTTGTTTGAGAAACTTTCAATACAATCAGTAGGCATTGCTCTTCTGAGAACGTTCAGTATAATC
1 GCTTGTTTGAGCAACTTTCAATA-ATTCAGTAGGCATTGCTCTTTTGAGCACATTCAGTATAACC
*
42912246 AGTAGATATT
65 ACTAGATATT
* * * * *
42912256 GCTTGTATGAGC-ACATTCAGCAGAATT-AGTAGGTATTGCTCATTTGAGCACATTCA
1 GCTTGTTTGAGCAACTTTCA--ATAATTCAGTAGGCATTGCTCTTTTGAGCACATTCA
42912312 ATATTTAACC
Statistics
Matches: 110, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
74 30 0.27
75 78 0.71
76 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (74 bp):
GCTTGTTTGAGCAACTTTCAATAATTCAGTAGGCATTGCTCTTTTGAGCACATTCAGTATAACCA
CTAGATATT
Found at i:42916683 original size:14 final size:14
Alignment explanation
Indices: 42916666--42916715 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
42916656 ATCTCGAACC
42916666 TCAAGGTTTGAGGT
1 TCAAGGTTTGAGGT
*
42916680 TCAAGGTTTAAGGT
1 TCAAGGTTTGAGGT
* * *
42916694 TCAATGTTCGA-AT
1 TCAAGGTTTGAGGT
42916707 TCAAGGTTT
1 TCAAGGTTT
42916716 AGGGTTTGAG
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
13 8 0.28
14 21 0.72
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.38
Consensus pattern (14 bp):
TCAAGGTTTGAGGT
Found at i:42918560 original size:23 final size:23
Alignment explanation
Indices: 42918516--42918560 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
42918506 AAAATATAAA
*
42918516 ATATATATTTTAATTGATATTTT
1 ATATATATTTTAATTGAAATTTT
*
42918539 ATATAT-TTTTATATTTAAATTT
1 ATATATATTTTA-ATTGAAATTT
42918561 AAATTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
ATATATATTTTAATTGAAATTTT
Found at i:42918737 original size:26 final size:25
Alignment explanation
Indices: 42918699--42918748 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
42918689 ATTCAAATTA
*
42918699 AATATAAAAATAAATTTAATTTTTAG
1 AATATAAAAATAAATAT-ATTTTTAG
* *
42918725 AATATTAATATAAATATATTTTTA
1 AATATAAAAATAAATATATTTTTA
42918749 ATATTTGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
AATATAAAAATAAATATATTTTTAG
Found at i:42926924 original size:36 final size:36
Alignment explanation
Indices: 42926840--42926946 Score: 115
Period size: 36 Copynumber: 3.0 Consensus size: 36
42926830 AAGCGGTGCA
* **
42926840 AAATCATTCATTGATGATATAAAATGCAAGAGGTGT
1 AAATCGTTCATTGATGATATAAAATGCAAGAAATGT
** * *
42926876 AGGTCGTCCATTGATGATATAAAATGGAAGAAATGT
1 AAATCGTTCATTGATGATATAAAATGCAAGAAATGT
* * * *
42926912 AAATTGTTCATTGGTGATATAAAATGTAAGTAATG
1 AAATCGTTCATTGATGATATAAAATGCAAGAAATG
42926947 AATATTTTCC
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (36 bp):
AAATCGTTCATTGATGATATAAAATGCAAGAAATGT
Found at i:42933439 original size:55 final size:55
Alignment explanation
Indices: 42933315--42933426 Score: 206
Period size: 55 Copynumber: 2.0 Consensus size: 55
42933305 CGTATAGGAT
*
42933315 TCCAATATAGAAAATGTAAAACAGAAAAATAAAACAAATAATAGTCTAGTTTTAA
1 TCCAATATAGAAAATGTAAAACAAAAAAATAAAACAAATAATAGTCTAGTTTTAA
*
42933370 TCCAATATAGAAAATGTAAAACAAAAAAATAAAACTAATAATAGTCTAGTTTTAA
1 TCCAATATAGAAAATGTAAAACAAAAAAATAAAACAAATAATAGTCTAGTTTTAA
42933425 TC
1 TC
42933427 TTACTCCTAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.27
Consensus pattern (55 bp):
TCCAATATAGAAAATGTAAAACAAAAAAATAAAACAAATAATAGTCTAGTTTTAA
Found at i:42944042 original size:18 final size:18
Alignment explanation
Indices: 42944014--42944063 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
42944004 CAAGGTAAAT
42944014 AAATGAAATAAAA-TAATA
1 AAAT-AAATAAAAGTAATA
42944032 ATAATAAATAAAAGTAATA
1 A-AATAAATAAAAGTAATA
42944051 AAATAAA-AAAAGT
1 AAATAAATAAAAGT
42944064 TAACACGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.20
18 15 0.50
19 9 0.30
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (18 bp):
AAATAAATAAAAGTAATA
Found at i:42944058 original size:14 final size:14
Alignment explanation
Indices: 42944010--42944058 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
42944000 TCAACAAGGT
* *
42944010 AAATAAATGAAATA
1 AAATAAAAGTAATA
42944024 AAATAATAA-TAAT-
1 AAATAA-AAGTAATA
42944037 AAATAAAAGTAATA
1 AAATAAAAGTAATA
42944051 AAATAAAA
1 AAATAAAA
42944059 AAAGTTAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 2 0.07
13 10 0.33
14 17 0.57
15 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (14 bp):
AAATAAAAGTAATA
Found at i:42946122 original size:26 final size:27
Alignment explanation
Indices: 42946078--42946136 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
42946068 CTGAATCTCT
42946078 TATTG-TGGATGTCTAAAAAAATTATC
1 TATTGTTGGATGTCTAAAAAAATTATC
42946104 TATTGTTGGATGTCTAAAAAAATTATC
1 TATTGTTGGATGTCTAAAAAAATTATC
42946131 TATTGT
1 TATTGT
42946137 ATTTGCCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 5 0.16
27 27 0.84
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (27 bp):
TATTGTTGGATGTCTAAAAAAATTATC
Found at i:42946432 original size:31 final size:28
Alignment explanation
Indices: 42946397--42946462 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
42946387 ATTAAACCTG
*
42946397 AATTTTGAAATGTGAAAACGTAAAGAGACTA
1 AATTTTGAAA-AT-AAAA-GTAAAGAGACTA
* *
42946428 AATTTTTTAAAATAAAAGTAAATAGACTA
1 AA-TTTTGAAAATAAAAGTAAAGAGACTA
42946457 AATTTT
1 AATTTT
42946463 ATCATATAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 4 0.13
29 13 0.42
30 4 0.13
31 3 0.10
32 7 0.23
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.33
Consensus pattern (28 bp):
AATTTTGAAAATAAAAGTAAAGAGACTA
Found at i:42956076 original size:49 final size:49
Alignment explanation
Indices: 42955944--42956089 Score: 141
Period size: 49 Copynumber: 3.0 Consensus size: 49
42955934 GTGGCATGAA
* * * * *
42955944 ACTTGAACCCATGACAGTATAATCACCATCAACTGGGGGCCCGAGTTAT
1 ACTTGAAACCGTGACAGTATAACCACCATCAACTGAGAGCCCGAGTTAT
** * *** *
42955993 ACTTG-AACCTGTGATTGCATAACCACTGCCAACTGAGAGCCCTAGTTAT
1 ACTTGAAACC-GTGACAGTATAACCACCATCAACTGAGAGCCCGAGTTAT
* * *
42956042 ACTTGAAACCGTGACCGTATAACCACCATAAACTGAAAGCCCGAGTTA
1 ACTTGAAACCGTGACAGTATAACCACCATCAACTGAGAGCCCGAGTTA
42956090 CAATGTGACA
Statistics
Matches: 74, Mismatches: 21, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
48 3 0.04
49 67 0.91
50 4 0.05
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (49 bp):
ACTTGAAACCGTGACAGTATAACCACCATCAACTGAGAGCCCGAGTTAT
Found at i:42966530 original size:2 final size:2
Alignment explanation
Indices: 42966523--42966549 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
42966513 TGTAACTTAA
42966523 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
42966550 GCAATTTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:42973961 original size:18 final size:18
Alignment explanation
Indices: 42973916--42973967 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
42973906 CAAGGTGAAT
* *
42973916 ATTTTGTAACCTTAGGAG
1 ATTTTGTAATCTTAGAAG
42973934 ATTTTGTAATCTTAGAAG
1 ATTTTGTAATCTTAGAAG
*
42973952 ATTTTGTAATATTAGA
1 ATTTTGTAATCTTAGA
42973968 GGATCTTGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (18 bp):
ATTTTGTAATCTTAGAAG
Found at i:42977330 original size:13 final size:13
Alignment explanation
Indices: 42977314--42977344 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
42977304 AAAAGGTGCA
*
42977314 AGAAATCGGGAAG
1 AGAAATCGAGAAG
42977327 AGAAATCGAGAAG
1 AGAAATCGAGAAG
42977340 AGAAA
1 AGAAA
42977345 CAGTGCTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.06, G:0.32, T:0.06
Consensus pattern (13 bp):
AGAAATCGAGAAG
Found at i:42977918 original size:41 final size:41
Alignment explanation
Indices: 42977862--42978060 Score: 260
Period size: 41 Copynumber: 4.8 Consensus size: 41
42977852 AAATATATTT
* *
42977862 ATTTTTTTTAATTTTAAAATATTTTTTACATAC-TTTTTTA
1 ATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
42977902 ATTTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTTTA
1 ATTTTTTTT-AATTTTAAAATATTTTTAAAATAC--TTTTTTTA
*
42977946 AATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
* **
42977987 ATTTTTTTTAATTTTAAAATATTTTAAAAATA-TTTTTAAA
1 ATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
*
42978027 ATACTTTTTTTAATTTTTTAAA-ATTTTTAAAATA
1 AT--TTTTTTTAA-TTTTAAAATATTTTTAAAATA
42978061 AAAATGGGCC
Statistics
Matches: 143, Mismatches: 9, Indels: 12
0.87 0.05 0.07
Matches are distributed among these distances:
40 17 0.12
41 60 0.42
42 20 0.14
43 31 0.22
44 15 0.10
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (41 bp):
ATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
Found at i:42977963 original size:84 final size:83
Alignment explanation
Indices: 42977864--42978023 Score: 268
Period size: 84 Copynumber: 1.9 Consensus size: 83
42977854 ATATATTTAT
* *
42977864 TTTTTTTAATTTTAAAATATTTTTTACATAC-TTTTTTAATTTTTTTTAAATTTTAAAATATTTT
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTTT-AATTTTAAAATATTTT
*
42977928 TAAAATACTTTTTTTTTAAA
65 AAAAATA-TTTTTTTTTAAA
42977948 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTTTAATTTTAAAATATTTTA
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTTTAATTTTAAAATATTTTA
42978013 AAAATATTTTT
66 AAAATATTTTT
42978024 AAAATACTTT
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
83 5 0.07
84 51 0.71
85 16 0.22
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (83 bp):
TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTTTAATTTTAAAATATTTTA
AAAATATTTTTTTTTAAA
Found at i:42978022 original size:52 final size:52
Alignment explanation
Indices: 42977913--42978060 Score: 181
Period size: 52 Copynumber: 3.0 Consensus size: 52
42977903 TTTTTTTTAA
**
42977913 ATTTTAAAATATTTTTAAAATAC----TTT--TTTTTT-AAATTTTT-TTA-
1 ATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTAAAATTTTTAAAAT
**
42977956 ATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTTTAA-TTTTAAAAT
1 ATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTAAAATTTTTAAAAT
42978007 ATTTTAAAAATATTTTTAAAATACTTTTTTTAATTTTTTAAAATTTTTAAAAT
1 ATTTT-AAAATATTTTTAAAATACTTTTTTTAATTTTTTAAAATTTTTAAAAT
42978060 A
1 A
42978061 AAAATGGGCC
Statistics
Matches: 89, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
43 23 0.26
47 3 0.03
49 10 0.11
50 3 0.03
51 5 0.06
52 35 0.39
53 10 0.11
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (52 bp):
ATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTAAAATTTTTAAAAT
Found at i:42978034 original size:12 final size:11
Alignment explanation
Indices: 42977957--42978060 Score: 78
Period size: 11 Copynumber: 9.9 Consensus size: 11
42977947 ATTTTTTTAA
42977957 TTTTAAAATAT
1 TTTTAAAATAT
42977968 TTTTAAAATACT
1 TTTTAAAATA-T
**
42977980 TTTTTTAAT-T
1 TTTTAAAATAT
* *
42977990 TTTT---TTAA
1 TTTTAAAATAT
42977998 TTTTAAAATAT
1 TTTTAAAATAT
*
42978009 TTTAAAAATAT
1 TTTTAAAATAT
42978020 TTTTAAAATACT
1 TTTTAAAATA-T
**
42978032 TTTTTTAAT-T
1 TTTTAAAATAT
42978042 TTTT-AAA-AT
1 TTTTAAAATAT
42978051 TTTTAAAATA
1 TTTTAAAATA
42978061 AAAATGGGCC
Statistics
Matches: 73, Mismatches: 11, Indels: 18
0.72 0.11 0.18
Matches are distributed among these distances:
7 1 0.01
8 4 0.05
9 7 0.10
10 13 0.18
11 32 0.44
12 16 0.22
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:42978036 original size:84 final size:83
Alignment explanation
Indices: 42977864--42978060 Score: 265
Period size: 84 Copynumber: 2.4 Consensus size: 83
42977854 ATATATTTAT
* * *
42977864 TTTTTTTAATTTTAAAATATTTTTTACATACTTTTTTAATTTTTTTTAAATTTTAAAATATTTTT
1 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAATTTTTTTTAAATTTTAAAATATTTTA
***
42977929 AAAATACTTTTTTTTTAAA
66 AAAATACTTTTTAAAT-AA
42977948 TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTTT-AATTTTAAAATATTTT
1 TTTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTTAATTTTTTTTAAATTTTAAAATATTTT
*
42978012 AAAAATA-TTTTTAAAATAC
65 AAAAATACTTTTT-AAATAA
*
42978031 TTTTTTTAATTTTTTAAA-ATTTTTAAAATA
1 TTTTTTTAA-TTTTAAAATATTTTTAAAATA
42978061 AAAATGGGCC
Statistics
Matches: 102, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
83 27 0.26
84 59 0.58
85 16 0.16
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (83 bp):
TTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAATTTTTTTTAAATTTTAAAATATTTTA
AAAATACTTTTTAAATAA
Found at i:42980966 original size:13 final size:13
Alignment explanation
Indices: 42980948--42980973 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42980938 CATATTGACT
42980948 TGCATTAATTAGG
1 TGCATTAATTAGG
42980961 TGCATTAATTAGG
1 TGCATTAATTAGG
42980974 CCGTGTGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
TGCATTAATTAGG
Found at i:42987586 original size:41 final size:41
Alignment explanation
Indices: 42987541--42987640 Score: 139
Period size: 41 Copynumber: 2.5 Consensus size: 41
42987531 AATTGATCTC
* *
42987541 AGTTTCGCACACTTAGTGCCCGTTATTTAACATCATTATTT
1 AGTTTCGCACACTTAGTGCCCGTTATTCAACATCATCATTT
* *
42987582 AGTTTCGCACACTTAGTGCTCGTTATTCAACCTCATCATTT
1 AGTTTCGCACACTTAGTGCCCGTTATTCAACATCATCATTT
* *
42987623 A-ATTCACACACTTAGTGC
1 AGTTTCGCACACTTAGTGC
42987641 TAATCATATA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 15 0.28
41 38 0.72
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (41 bp):
AGTTTCGCACACTTAGTGCCCGTTATTCAACATCATCATTT
Found at i:42994330 original size:2 final size:2
Alignment explanation
Indices: 42994323--42994355 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
42994313 AGACCAATCC
42994323 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
42994356 TTACTATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:42995527 original size:41 final size:41
Alignment explanation
Indices: 42995482--42995580 Score: 146
Period size: 41 Copynumber: 2.4 Consensus size: 41
42995472 ATTGATCTCG
* *
42995482 GTTTCGCACACTTAGTGCCCGTTATTTAACATCATTATTTA
1 GTTTCGCACACTTAGTGCCCGTTATTCAACATCATCATTTA
* *
42995523 GTTTCGCACACTTAGTGCTCGTTATTCAACCTCATCATTTA
1 GTTTCGCACACTTAGTGCCCGTTATTCAACATCATCATTTA
*
42995564 -ATTCGCACACTTAGTGC
1 GTTTCGCACACTTAGTGC
42995581 TAATCACATA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 16 0.30
41 37 0.70
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.38
Consensus pattern (41 bp):
GTTTCGCACACTTAGTGCCCGTTATTCAACATCATCATTTA
Found at i:42996899 original size:27 final size:27
Alignment explanation
Indices: 42996850--42996919 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
42996840 ATAATTCTCC
* *
42996850 CAAAGGCATTCTTTTCATATTGCGCCA
1 CAAAGGCGTTCCTTTCATATTGCGCCA
* * *
42996877 TAATGGCTTTCCTTTCATATTGCGCCA
1 CAAAGGCGTTCCTTTCATATTGCGCCA
42996904 CAAAGGCGTTCCTTTC
1 CAAAGGCGTTCCTTTC
42996920 CTGACTTGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.36
Consensus pattern (27 bp):
CAAAGGCGTTCCTTTCATATTGCGCCA
Found at i:42999340 original size:16 final size:16
Alignment explanation
Indices: 42999319--42999350 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
42999309 TTAACCATAC
42999319 AATACTTAATCATGCA
1 AATACTTAATCATGCA
42999335 AATACTTAATCATGCA
1 AATACTTAATCATGCA
42999351 GTTAAGGACT
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:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (16 bp):
AATACTTAATCATGCA
Found at i:43000456 original size:23 final size:23
Alignment explanation
Indices: 43000400--43000508 Score: 96
Period size: 23 Copynumber: 4.7 Consensus size: 23
43000390 TGAAGCTATC
* * * *
43000400 ACCCTCCAATCACAATCGATTAT
1 ACCCTCCAAACACAACCAAATAT
*
43000423 ACCCTCTAAACACAACCAAATAT
1 ACCCTCCAAACACAACCAAATAT
* *
43000446 -CTCTACCAAACACAACCATATAT
1 ACCCT-CCAAACACAACCAAATAT
*
43000469 ACCCTCCAAACACATA-CAAGTAT
1 ACCCTCCAAACACA-ACCAAATAT
* *
43000492 AGCCTTCAAACACAACC
1 ACCCTCCAAACACAACC
43000509 CAAAAAGTGA
Statistics
Matches: 69, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
22 4 0.06
23 61 0.88
24 4 0.06
ACGTcount: A:0.42, C:0.36, G:0.03, T:0.19
Consensus pattern (23 bp):
ACCCTCCAAACACAACCAAATAT
Found at i:43002168 original size:6 final size:6
Alignment explanation
Indices: 43002156--43002205 Score: 73
Period size: 6 Copynumber: 8.2 Consensus size: 6
43002146 TGGTTTTCCC
* *
43002156 AAAATG GAAATG GAAATG AAAATG AAAATG AAAATG AAAATG AGAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG
43002205 A
1 A
43002206 TTCATTTGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
6 35 0.85
7 6 0.15
ACGTcount: A:0.62, C:0.00, G:0.22, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:43006841 original size:28 final size:28
Alignment explanation
Indices: 43006810--43006943 Score: 128
Period size: 28 Copynumber: 4.8 Consensus size: 28
43006800 GCGTCCCATC
* *
43006810 AGACTTACCTCGTGATTACTGTCTTGGT
1 AGACTTACCTCGTGTTTACTGTCTCGGT
* *
43006838 AGACTTACCTCATGTTTACTATCTCGGT
1 AGACTTACCTCGTGTTTACTGTCTCGGT
* * * * *
43006866 -GAACATACCTCGTGTGTACTATCCCTGT
1 AG-ACTTACCTCGTGTTTACTGTCTCGGT
* **
43006894 AGACTTACCTCATGTTTACTGTCTCGAC
1 AGACTTACCTCGTGTTTACTGTCTCGGT
*
43006922 AGACTCACCT-GTGTTTACTGTC
1 AGACTTACCTCGTGTTTACTGTC
43006944 CCAATGGACT
Statistics
Matches: 85, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
27 12 0.14
28 72 0.85
29 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (28 bp):
AGACTTACCTCGTGTTTACTGTCTCGGT
Found at i:43008855 original size:18 final size:19
Alignment explanation
Indices: 43008834--43008870 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
43008824 TTTTTCATAT
43008834 TTTGG-AACTTTAATTAGG
1 TTTGGTAACTTTAATTAGG
*
43008852 TTTGGTAATTTTAATTAGG
1 TTTGGTAACTTTAATTAGG
43008871 ATAAGATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.27, C:0.03, G:0.22, T:0.49
Consensus pattern (19 bp):
TTTGGTAACTTTAATTAGG
Found at i:43019137 original size:23 final size:23
Alignment explanation
Indices: 43019068--43019140 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 23
43019058 CACTCCATAG
** * * *
43019068 AATGAATTGCATTGAAGTGCTAG
1 AATGAATTGCACAGTAGTGCCAA
* *
43019091 AATGAGTTGCACAGTAGTGGCAA
1 AATGAATTGCACAGTAGTGCCAA
*
43019114 AATGAATTGCACCGTAGTGCCAA
1 AATGAATTGCACAGTAGTGCCAA
43019137 AATG
1 AATG
43019141 CTCCCACCAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.25
Consensus pattern (23 bp):
AATGAATTGCACAGTAGTGCCAA
Found at i:43020505 original size:20 final size:21
Alignment explanation
Indices: 43020480--43020518 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
43020470 TACCATCCAT
43020480 AAAATGCTT-AACCATAATAA
1 AAAATGCTTAAACCATAATAA
43020500 AAAATGCTTAAACCATAAT
1 AAAATGCTTAAACCATAAT
43020519 TCACCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.26
Consensus pattern (21 bp):
AAAATGCTTAAACCATAATAA
Found at i:43023614 original size:23 final size:24
Alignment explanation
Indices: 43023588--43023644 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 24
43023578 AAATATGAGG
*
43023588 CATACTTAACACTTAATA-TTCAA
1 CATACTTAACACTTAAAACTTCAA
* *
43023611 CATAGTTCACACTTAAAACTTCAA
1 CATACTTAACACTTAAAACTTCAA
*
43023635 CA-ATTTAACA
1 CATACTTAACA
43023645 ATTTAATCTC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 21 0.75
24 7 0.25
ACGTcount: A:0.44, C:0.23, G:0.02, T:0.32
Consensus pattern (24 bp):
CATACTTAACACTTAAAACTTCAA
Found at i:43031356 original size:14 final size:15
Alignment explanation
Indices: 43031337--43031372 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
43031327 ATTTTGGATA
43031337 ATATATAATTT-TTT
1 ATATATAATTTCTTT
43031351 ATATATAATTTCTTT
1 ATATATAATTTCTTT
43031366 ATA-ATAA
1 ATATATAA
43031373 AATAATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
ATATATAATTTCTTT
Found at i:43035115 original size:27 final size:27
Alignment explanation
Indices: 43035049--43035115 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
43035039 TTCGCAACAA
*
43035049 AGGCATTTCTTTCATATTGTGCCACAT
1 AGGCATTTCTTTCATATTATGCCACAT
43035076 AGG--TGTTCATTTCATATTATGCCACAT
1 AGGCAT-TTC-TTTCATATTATGCCACAT
43035103 AGGCATTTCTTTC
1 AGGCATTTCTTTC
43035116 CTGATGTGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
25 1 0.03
26 3 0.09
27 27 0.77
28 3 0.09
29 1 0.03
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.42
Consensus pattern (27 bp):
AGGCATTTCTTTCATATTATGCCACAT
Found at i:43037561 original size:18 final size:18
Alignment explanation
Indices: 43037534--43037585 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
43037524 TCCAAGATCC
*
43037534 TCTAATATTACAAAATCT
1 TCTAAGATTACAAAATCT
43037552 TCTAAGATTACAAAATCT
1 TCTAAGATTACAAAATCT
* *
43037570 CCTAAGGTTACAAAAT
1 TCTAAGATTACAAAAT
43037586 ATTCACCTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (18 bp):
TCTAAGATTACAAAATCT
Found at i:43055041 original size:54 final size:54
Alignment explanation
Indices: 43054951--43055056 Score: 167
Period size: 54 Copynumber: 2.0 Consensus size: 54
43054941 GCAGTTCAAA
* *
43054951 ACTTCTAGATAGATCCTTCTCACAAAGTTCCTTTTTAGGAGAATCAATTGAAAC
1 ACTTCTAGATAAATCCTTCTCACAAAGTTCCGTTTTAGGAGAATCAATTGAAAC
* * *
43055005 ACTTGTAGATAAATCCTTCTCACAGATTTCCGTTTTAGGAGAATCAATTGAA
1 ACTTCTAGATAAATCCTTCTCACAAAGTTCCGTTTTAGGAGAATCAATTGAA
43055057 TCAGGTACAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (54 bp):
ACTTCTAGATAAATCCTTCTCACAAAGTTCCGTTTTAGGAGAATCAATTGAAAC
Found at i:43065791 original size:19 final size:19
Alignment explanation
Indices: 43065767--43065807 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
43065757 TATTTTAAAG
43065767 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
43065786 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
43065805 TTA
1 TTA
43065808 GAATAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.44
Consensus pattern (19 bp):
TTATTTAGGTAGATAAATC
Found at i:43065892 original size:41 final size:41
Alignment explanation
Indices: 43065846--43065924 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
43065836 TATTTTATTC
43065846 TATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTTCT
1 TATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTTCT
*
43065887 TATCTTTTAGTAGTTTATTAGAATAAGGGAATTGTTTT
1 TATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTT
43065925 CCCAATTAGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.51
Consensus pattern (41 bp):
TATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTTCT
Found at i:43074367 original size:27 final size:27
Alignment explanation
Indices: 43074337--43074398 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
43074327 CCTATCAGGT
43074337 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
* *
43074364 AGGCGCCAATGAAGGTGTCTTATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
43074391 AGGCGCCA
1 AGGCGCCA
43074399 TTACTAGACC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.29, C:0.21, G:0.34, T:0.16
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCATAGAG
Found at i:43074566 original size:21 final size:21
Alignment explanation
Indices: 43074542--43074585 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
43074532 AATAAACACC
43074542 AAAAAAT-TTTTAAAAATAAA
1 AAAAAATATTTTAAAAATAAA
*
43074562 AAAAAGTATTTTAAAAATAAA
1 AAAAAATATTTTAAAAATAAA
43074583 AAA
1 AAA
43074586 TAAAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAAAATATTTTAAAAATAAA
Found at i:43074838 original size:19 final size:19
Alignment explanation
Indices: 43074816--43074853 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
43074806 AATTTAATTT
*
43074816 ATTAGTAATAAATTACTAA
1 ATTACTAATAAATTACTAA
*
43074835 ATTACTAATAAGTTACTAA
1 ATTACTAATAAATTACTAA
43074854 TAAATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (19 bp):
ATTACTAATAAATTACTAA
Found at i:43074975 original size:19 final size:19
Alignment explanation
Indices: 43074975--43075023 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
43074965 AAATTATAAT
43074975 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
*
43074994 ATTACAATATTCATATAAA
1 ATTACAATATTCATACAAA
*
43075013 ATTGCAATATT
1 ATTACAATATT
43075024 TTTTGTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (19 bp):
ATTACAATATTCATACAAA
Found at i:43074983 original size:27 final size:27
Alignment explanation
Indices: 43074952--43075004 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
43074942 TACCGACATT
*
43074952 CAATATTCATACAAAATTATAATATTA
1 CAATATTCATACAAAATTACAATATTA
43074979 CAATATTCATACAAAATTACAATATT
1 CAATATTCATACAAAATTACAATATT
43075005 CATATAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (27 bp):
CAATATTCATACAAAATTACAATATTA
Found at i:43075002 original size:46 final size:45
Alignment explanation
Indices: 43074901--43075023 Score: 151
Period size: 46 Copynumber: 2.7 Consensus size: 45
43074891 ATTATAAAAT
*
43074901 AATTACAATATTCATACAAAAAATTACAATATTACAATATATACCGA
1 AATTACAATATTCATAC--AAAATTACAATATTACAATATATACCAA
* *
43074948 CATT-CAATATTCATACAAAATTATAATATTACAATATTCATA-CAA
1 AATTACAATATTCATACAAAATTACAATATTACAATA-T-ATACCAA
* *
43074993 AATTACAATATTCATATAAAATTGCAATATT
1 AATTACAATATTCATACAAAATTACAATATT
43075024 TTTTGTTATT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
44 19 0.29
45 6 0.09
46 38 0.58
47 3 0.05
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (45 bp):
AATTACAATATTCATACAAAATTACAATATTACAATATATACCAA
Found at i:43075088 original size:22 final size:24
Alignment explanation
Indices: 43075055--43075226 Score: 148
Period size: 27 Copynumber: 7.1 Consensus size: 24
43075045 ATAAATTATC
*
43075055 TATATTTAGTATGAATATTGTAAT
1 TATATTTTGTATGAATATTGTAAT
43075079 T-T-TTTTGTATGAATATTGTAATAT
1 TATATTTTGTATGAATATTGT-A-AT
*
43075103 TATAATTTTGTATGAATATTGCAAT
1 TAT-ATTTTGTATGAATATTGTAAT
43075128 T-T-TTTTGTATGAATATTGTAATAT
1 TATATTTTGTATGAATATTGT-A-AT
43075152 TATAATTTTGTATGAATATTGTAATGT
1 TAT-ATTTTGTATGAATATTGTAA--T
*
43075179 CGGTATATATTG--T-AATATTGTAA-
1 ---TATATTTTGTATGAATATTGTAAT
43075202 T-T-TTTTGTATGAATATTGTAAT
1 TATATTTTGTATGAATATTGTAAT
43075224 TAT
1 TAT
43075227 TTTATAATTA
Statistics
Matches: 123, Mismatches: 5, Indels: 41
0.73 0.03 0.24
Matches are distributed among these distances:
18 4 0.03
19 1 0.01
20 2 0.02
21 10 0.08
22 33 0.27
23 4 0.03
24 8 0.07
25 6 0.05
26 12 0.10
27 35 0.28
29 5 0.04
30 3 0.02
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (24 bp):
TATATTTTGTATGAATATTGTAAT
Found at i:43075117 original size:49 final size:49
Alignment explanation
Indices: 43075058--43075229 Score: 235
Period size: 49 Copynumber: 3.6 Consensus size: 49
43075048 AATTATCTAT
*
43075058 ATTTAGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
1 ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
*
43075107 ATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTATA
1 ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
* ** *
43075156 ATTTTGTATGAATATTGTAA--TGTCGGTAT--ATATTGTAATATTGTA
1 ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
*
43075201 ATTTTTTGTATGAATATTGTAATTATTTT
1 A--TTTTGTATGAATATTGTAATTTTTTT
43075230 ATAATTAATT
Statistics
Matches: 108, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
45 16 0.15
47 25 0.23
49 67 0.62
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.53
Consensus pattern (49 bp):
ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATA
Found at i:43075294 original size:19 final size:19
Alignment explanation
Indices: 43075272--43075309 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
43075262 TATAAATTTA
*
43075272 TTAGTAACTTATTAGTAAT
1 TTAGTAACTTATTACTAAT
*
43075291 TTAGTAATTTATTACTAAT
1 TTAGTAACTTATTACTAAT
43075310 AAATTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (19 bp):
TTAGTAACTTATTACTAAT
Found at i:43077108 original size:6 final size:6
Alignment explanation
Indices: 43077099--43077134 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
43077089 TAATTTTAAT
*
43077099 TAAATA TAAATA CAAATA TAAATA TAAATA TAAATA
1 TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA
43077135 ATATATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (6 bp):
TAAATA
Found at i:43083270 original size:18 final size:16
Alignment explanation
Indices: 43083245--43083288 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
43083235 TAGGTTTTTC
*
43083245 ATTAAATTATTTATGTA
1 ATTAAATTATTT-TATA
43083262 ATATAAATTAATTTTATA
1 AT-TAAATT-ATTTTATA
43083280 ATTAAATTA
1 ATTAAATTA
43083289 ACATTTGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 1 0.04
17 8 0.33
18 11 0.46
19 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
ATTAAATTATTTTATA
Found at i:43084280 original size:122 final size:121
Alignment explanation
Indices: 43084054--43084290 Score: 375
Period size: 122 Copynumber: 2.0 Consensus size: 121
43084044 GTGGCATAAC
* * *
43084054 CTATATGTTAACGTATATTTTACTATATATATCATGGGTTAAAATTCACTCATTACTTTTCCATC
1 CTATATGCTAACGTATATTTTACCATATATATCATGGGTTAAAATTCAATCATTACTTTTCCATC
*
43084119 CATTAATATTCAATACAATAATCATCACCATTTAAATGTGTAAGACCCATGAAAAT
66 CATTAATATTCAATACAATAATCATCACCATTCAAATGTGTAAGACCCATGAAAAT
*
43084175 CTATATGCTAACGTATATTTTACCATATATATCATGGGTTAAAATTCAATCCATTACTTTTTCAT
1 CTATATGCTAACGTATATTTTACCATATATATCATGGGTTAAAATTCAAT-CATTACTTTTCCAT
* * ** *
43084240 CCATTAATATTTAATACAATGATCATCATTATTCAAATGTGTAGGACCCAT
65 CCATTAATATTCAATACAATAATCATCACCATTCAAATGTGTAAGACCCAT
43084291 CTATTAAATG
Statistics
Matches: 105, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
121 47 0.45
122 58 0.55
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (121 bp):
CTATATGCTAACGTATATTTTACCATATATATCATGGGTTAAAATTCAATCATTACTTTTCCATC
CATTAATATTCAATACAATAATCATCACCATTCAAATGTGTAAGACCCATGAAAAT
Found at i:43084494 original size:26 final size:25
Alignment explanation
Indices: 43084441--43084498 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
43084431 CAATTAAAAT
43084441 ATATT-TAAA-TTATTTTATAATTG
1 ATATTATAAATTTATTTTATAATTG
*
43084464 -T-TTATAAATTTAATTTTATGATTG
1 ATATTATAAATTT-ATTTTATAATTG
43084488 ATATTATAAAT
1 ATATTATAAAT
43084499 AAATTTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 2 0.07
22 5 0.17
23 2 0.07
24 11 0.38
25 1 0.03
26 8 0.28
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (25 bp):
ATATTATAAATTTATTTTATAATTG
Found at i:43088161 original size:9 final size:9
Alignment explanation
Indices: 43088142--43088178 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
43088132 TGAGTTTTCG
43088142 AATTCGAAT
1 AATTCGAAT
43088151 AACTT-GAAT
1 AA-TTCGAAT
43088160 AATTCGAAT
1 AATTCGAAT
43088169 AATTCGAAT
1 AATTCGAAT
43088178 A
1 A
43088179 TCAAACTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:43090930 original size:15 final size:15
Alignment explanation
Indices: 43090912--43090968 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
43090902 TTAATCACTT
43090912 TAATATTAATTAATA
1 TAATATTAATTAATA
* * *
43090927 TAATATTTATCAAGA
1 TAATATTAATTAATA
*
43090942 TAAATATTAGATTAAATT
1 T-AATATTA-ATT-AATA
43090960 TAATATTAA
1 TAATATTAA
43090969 ATCTATTAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
15 13 0.41
16 7 0.22
17 9 0.28
18 3 0.09
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (15 bp):
TAATATTAATTAATA
Found at i:43094642 original size:101 final size:101
Alignment explanation
Indices: 43094533--43094755 Score: 256
Period size: 101 Copynumber: 2.2 Consensus size: 101
43094523 GCATGGACTG
* * *
43094533 TGTGTAGGCCACTATGTGAAAGTGAAAG-TGAT-GGTCATGTGTGTAGTACTATGTGCAGGCTAC
1 TGTGTAGGCTACTATGTGAAAG-GAAAGCT--TCGATCACGTGTGTAGTACTATGTGCAGGCTAC
* * *
43094596 TATGTGTACCAGA-A-TGATAGGTCGCATGTGTAGTACTA
63 TACGTGTACCAGATAGTGATA-GTCACATGTGTAATACTA
* ** *
43094634 TGTGTAGGCTACTATGCGTACCGGATAGCTTCGATCACGTGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGGCTACTATGTG-AAAGGAAAGCTTCGATCACGTGTGTAGTACTATGTGCAGGCTACTA
* *
43094699 CGTGTATCGGATAGTGATAGTCACATGTGTAATACTA
65 CGTGTACCAGATAGTGATAGTCACATGTGTAATACTA
*
43094736 TGTGCAGGCTACTATGTGAA
1 TGTGTAGGCTACTATGTGAA
43094756 CCGGTATCAT
Statistics
Matches: 102, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
100 1 0.01
101 60 0.59
102 36 0.35
103 5 0.05
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (101 bp):
TGTGTAGGCTACTATGTGAAAGGAAAGCTTCGATCACGTGTGTAGTACTATGTGCAGGCTACTAC
GTGTACCAGATAGTGATAGTCACATGTGTAATACTA
Found at i:43094688 original size:51 final size:49
Alignment explanation
Indices: 43094572--43094759 Score: 216
Period size: 51 Copynumber: 3.7 Consensus size: 49
43094562 GATGGTCATG
* * *
43094572 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGA-ATGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATA-GTTA-GTCACA
* * * *
43094622 TGTGTAGTACTATGTGTAGGCTACTATGCGTACCGGATAGCTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAG-TTAG-TCACA
* *
43094673 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATAGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGT--TAGTCACA
* *
43094724 TGTGTAATACTATGTGCAGGCTACTATGTGAACCGG
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGG
43094760 TATCATTAAT
Statistics
Matches: 116, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
50 37 0.32
51 77 0.66
52 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTTAGTCACA
Found at i:43094753 original size:26 final size:26
Alignment explanation
Indices: 43094673--43094753 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
43094663 TTCGATCACG
*
43094673 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAATACTATGTGCAGGCTACTA
* * * *
43094699 CGTGT-AT-CGGATAGTGATAGTC-AC-A
1 TGTGTAATAC-TAT-GTG-CAGGCTACTA
43094724 TGTGTAATACTATGTGCAGGCTACTA
1 TGTGTAATACTATGTGCAGGCTACTA
43094750 TGTG
1 TGTG
43094754 AACCGGTATC
Statistics
Matches: 39, Mismatches: 9, Indels: 14
0.63 0.15 0.23
Matches are distributed among these distances:
24 4 0.10
25 13 0.33
26 18 0.46
27 4 0.10
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (26 bp):
TGTGTAATACTATGTGCAGGCTACTA
Found at i:43094828 original size:46 final size:43
Alignment explanation
Indices: 43094755--43094853 Score: 119
Period size: 46 Copynumber: 2.2 Consensus size: 43
43094745 TACTATGTGA
*
43094755 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCT-AATCTC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATC-C
* *
43094798 ACCGGATATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGAATCC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
43094844 ACCGCGTATC
1 ACCG-GTATC
43094854 TGTTATTATT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
43 5 0.10
44 11 0.23
45 2 0.04
46 25 0.52
47 5 0.10
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:43094999 original size:16 final size:16
Alignment explanation
Indices: 43094978--43095008 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43094968 GATTGAAAGT
*
43094978 GAAAAAGTGAAATTAC
1 GAAAAAGTAAAATTAC
43094994 GAAAAAGTAAAATTA
1 GAAAAAGTAAAATTA
43095009 GCAACAAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.03, G:0.16, T:0.19
Consensus pattern (16 bp):
GAAAAAGTAAAATTAC
Found at i:43099613 original size:22 final size:22
Alignment explanation
Indices: 43099585--43099712 Score: 184
Period size: 22 Copynumber: 5.8 Consensus size: 22
43099575 AGGGTTGGAT
43099585 TACTAAGCTCTCATGTTTAACG
1 TACTAAGCTCTCATGTTTAACG
43099607 TACTAAGCTCTCATGTTTAACG
1 TACTAAGCTCTCATGTTTAACG
* * * **
43099629 AACTAAACCCTCATGGCTAACG
1 TACTAAGCTCTCATGTTTAACG
**
43099651 TACTAAGCTCTCATGGCTAACG
1 TACTAAGCTCTCATGTTTAACG
*
43099673 TACTAAGCTCTCATGTTTCACG
1 TACTAAGCTCTCATGTTTAACG
43099695 TACTAAGCTCTCATGTTT
1 TACTAAGCTCTCATGTTT
43099713 GAACAATAAA
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 95 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
TACTAAGCTCTCATGTTTAACG
Found at i:43106676 original size:11 final size:11
Alignment explanation
Indices: 43106660--43106687 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
43106650 GTCGCCTCTT
43106660 CCTTCGTTCTA
1 CCTTCGTTCTA
43106671 CCTTCGTTCTA
1 CCTTCGTTCTA
43106682 CCTTCG
1 CCTTCG
43106688 CCTCCCGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.07, C:0.39, G:0.11, T:0.43
Consensus pattern (11 bp):
CCTTCGTTCTA
Found at i:43109862 original size:16 final size:16
Alignment explanation
Indices: 43109841--43109882 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
43109831 TTATTAAATT
*
43109841 ATATATTTTAATTATA
1 ATATATTTTAATAATA
43109857 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
43109872 AT-TATGTTTAA
1 ATATAT-TTTAA
43109883 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Done.