Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 165 of 290
Found at i:56587037 original size:27 final size:27
Alignment explanation
Indices: 56587007--56587363 Score: 473
Period size: 27 Copynumber: 13.3 Consensus size: 27
56586997 CAATTTACAA
*
56587007 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
56587034 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
56587061 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
56587088 AATTACCAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
56587115 AATTACCGAAGTACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
56587142 AATTACCGAAATACCTCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
56587169 AATTACCGAAATACCCATGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
56587196 AATTTCTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
56587223 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
56587250 AATTATCGCAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
56587277 AATTAGCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
56587304 AATTACTAAAATACCCCTATAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
56587331 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
56587357 AATTACC
1 AATTACC
56587364 ATTTTGCCCC
Statistics
Matches: 288, Mismatches: 42, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
26 15 0.05
27 273 0.95
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:56587820 original size:22 final size:22
Alignment explanation
Indices: 56587793--56587854 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
56587783 AAGCCTTCTG
* *
56587793 ATTATGGCTTTGTGTCAACCTA
1 ATTATGGCTCTGTGCCAACCTA
56587815 CA-TATGGCTCTGTGCCAACCTA
1 -ATTATGGCTCTGTGCCAACCTA
*
56587837 ATTATGGCTGTGTGCCAA
1 ATTATGGCTCTGTGCCAA
56587855 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (22 bp):
ATTATGGCTCTGTGCCAACCTA
Found at i:56588049 original size:26 final size:27
Alignment explanation
Indices: 56588012--56588086 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
56588002 TATTCTGTTA
* *
56588012 AGTGGCTTTGCCACATTATCTGT-TCT
1 AGTGGCTCTGCCACAATATCTGTATCT
56588038 AGTGGCTCTGCCACAATATCTGTATCT
1 AGTGGCTCTGCCACAATATCTGTATCT
* *
56588065 GGTGGCTCTGTCACAATATCTG
1 AGTGGCTCTGCCACAATATCTG
56588087 ATAACTGAGC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 21 0.48
27 23 0.52
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
AGTGGCTCTGCCACAATATCTGTATCT
Found at i:56588263 original size:6 final size:6
Alignment explanation
Indices: 56588252--56588364 Score: 97
Period size: 6 Copynumber: 18.3 Consensus size: 6
56588242 TTACCTAATA
* * * *
56588252 CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT TTAATT
1 CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT
* *
56588301 CTG-TT ACCTGATA CTGATT CTGATT CTGATT CTG-TCAC CTGATT CTGATT
1 CTGATT --CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT
56588351 CTGATT CTGATT CT
1 CTGATT CTGATT CT
56588365 AGTTCTAATA
Statistics
Matches: 86, Mismatches: 12, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
5 5 0.06
6 69 0.80
7 9 0.10
8 3 0.03
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:56588278 original size:31 final size:31
Alignment explanation
Indices: 56588223--56588364 Score: 203
Period size: 31 Copynumber: 4.5 Consensus size: 31
56588213 TTGCATTCAC
* * *
56588223 ATTCTGATTTTTTATTATGTTACCTAATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
56588255 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
56588286 ATTCTGATTTTAATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * *
56588317 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
56588348 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
56588365 AGTTCTAATA
Statistics
Matches: 102, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
31 95 0.93
32 7 0.07
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:56588364 original size:62 final size:62
Alignment explanation
Indices: 56588240--56588389 Score: 196
Period size: 62 Copynumber: 2.4 Consensus size: 62
56588230 TTTTTTATTA
* * *
56588240 TGTTACCTAATACTGATTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTTTAATTC
1 TGTTACCTAATACTGATTCTGATTCTGATTCTGTCACCTGATACTGATTCTGATTCTAATTC
* * *
56588302 TGTTACCTGATACTGATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTGATTCTGATTC
1 TGTTACCTAATACTGATTCTGATTCTGATTCTGTCACCTGATACTGATTCTGATTCTAATTC
* * *
56588364 TAGTT--CTAATAATGTTTCTTATTCTG
1 T-GTTACCTAATACTGATTCTGATTCTG
56588390 TAATGGGTTA
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
61 17 0.22
62 57 0.74
63 3 0.04
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (62 bp):
TGTTACCTAATACTGATTCTGATTCTGATTCTGTCACCTGATACTGATTCTGATTCTAATTC
Found at i:56601088 original size:63 final size:65
Alignment explanation
Indices: 56601013--56601141 Score: 172
Period size: 63 Copynumber: 2.0 Consensus size: 65
56601003 AGACATTATG
* * * *
56601013 ATGTAGCTAGGTCGCATGGGTGATACTATGTG-TACA-CATGTAGACAAGAGAGCTACGAGATAT
1 ATGTAGCTAGGTCGCATGCGTGATACCAGGTGAGACACCATGTAGACAAGAGAGCTACGAGATAT
* *
56601076 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAAGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGCGTGATACCAGGTG--AGACACCATGTAGACAAGAGAGCTACGAGAT
56601141 A
64 A
56601142 AACTGGTTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
63 27 0.48
66 3 0.05
67 26 0.46
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.22
Consensus pattern (65 bp):
ATGTAGCTAGGTCGCATGCGTGATACCAGGTGAGACACCATGTAGACAAGAGAGCTACGAGATAT
Found at i:56605284 original size:34 final size:34
Alignment explanation
Indices: 56605237--56605312 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
56605227 TTTGCATTTT
* *
56605237 TGATACTGTTACTGTAACGAGCTAAGGCCCACAC
1 TGATACTGCTACTGTAACGAGCTAAGGCCAACAC
* * *
56605271 TGATATTGCTACTGTAATGGGCTAAGGCCAACAC
1 TGATACTGCTACTGTAACGAGCTAAGGCCAACAC
*
56605305 TAATACTG
1 TGATACTG
56605313 GACTGTCACT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (34 bp):
TGATACTGCTACTGTAACGAGCTAAGGCCAACAC
Found at i:56609083 original size:42 final size:43
Alignment explanation
Indices: 56609036--56609122 Score: 167
Period size: 42 Copynumber: 2.0 Consensus size: 43
56609026 TGTTTAATTA
56609036 AGCTCAAGGACAAAAAGGGGCACAAATTTCGGA-AAGGGAAAG
1 AGCTCAAGGACAAAAAGGGGCACAAATTTCGGATAAGGGAAAG
56609078 AGCTCAAGGACAAAAAGGGGCACAAATTTCGGATAAGGGAAAG
1 AGCTCAAGGACAAAAAGGGGCACAAATTTCGGATAAGGGAAAG
56609121 AG
1 AG
56609123 AAAGTAGCTG
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 33 0.75
43 11 0.25
ACGTcount: A:0.45, C:0.14, G:0.31, T:0.10
Consensus pattern (43 bp):
AGCTCAAGGACAAAAAGGGGCACAAATTTCGGATAAGGGAAAG
Found at i:56610122 original size:47 final size:47
Alignment explanation
Indices: 56610017--56610299 Score: 422
Period size: 47 Copynumber: 5.9 Consensus size: 47
56610007 TAGTATGGCG
*
56610017 TAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
56610066 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
56610113 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
* *
56610162 TAATAGCTGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
56610209 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
56610256 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
56610300 TCCCGAAGGG
Statistics
Matches: 217, Mismatches: 15, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
47 143 0.66
49 74 0.34
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:56610189 original size:96 final size:96
Alignment explanation
Indices: 56610025--56610299 Score: 437
Period size: 96 Copynumber: 2.9 Consensus size: 96
56610015 CGTAATGGCT
56610025 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
56610090 AAGTGTATATATGTGATAAGGCCTAATAGCC
66 AAGTGTATATATGTGATAAGGCCTAATAGCC
* *
56610121 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCTGATGTGATGAATGTGA
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
56610186 AAGTGTATATATGTGATAAGGCCTAATGGCC
66 AAGTGTATATATGTGATAAGGCCTAATAGCC
* * * * * * *
56610217 GATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGA
1 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
56610280 AAGTGTATAAATGTGATAAG
66 AAGTGTATATATGTGATAAG
56610300 TCCCGAAGGG
Statistics
Matches: 166, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
94 52 0.31
96 114 0.69
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
AAGTGTATATATGTGATAAGGCCTAATAGCC
Found at i:56610475 original size:37 final size:37
Alignment explanation
Indices: 56610417--56610495 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
56610407 TCCGAGCTCA
* * *
56610417 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACCTGTGGAG-ATTATGTCCGGGT
*
56610454 AAGACCCGATAACTTCCTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACCTGTGGAGATTATGTCCGGGT
56610491 AAGAC
1 AAGAC
56610496 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACCTGTGGAGATTATGTCCGGGT
Found at i:56615372 original size:20 final size:20
Alignment explanation
Indices: 56615325--56615362 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
56615315 ATCCACACAG
56615325 GTGTGTGGTAGGTTACACTA
1 GTGTGTGGTAGGTTACACTA
56615345 GTGTGTGGTAGGTTACAC
1 GTGTGTGGTAGGTTACAC
56615363 AGGCATGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.11, G:0.37, T:0.34
Consensus pattern (20 bp):
GTGTGTGGTAGGTTACACTA
Found at i:56615941 original size:9 final size:9
Alignment explanation
Indices: 56615922--56615977 Score: 55
Period size: 9 Copynumber: 6.3 Consensus size: 9
56615912 TTGGTTCCTC
56615922 TTTCATTTAT
1 TTTC-TTTAT
56615932 TTTCTTTAT
1 TTTCTTTAT
56615941 TTTCTTTA-
1 TTTCTTTAT
*
56615949 TTCCTTT-T
1 TTTCTTTAT
*
56615957 TAT-TTTAT
1 TTTCTTTAT
56615965 TTTACTTTAT
1 TTT-CTTTAT
56615975 TTT
1 TTT
56615978 AGTTTAATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
7 3 0.08
8 10 0.26
9 13 0.34
10 12 0.32
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTCTTTAT
Found at i:56617587 original size:45 final size:46
Alignment explanation
Indices: 56617531--56617625 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 46
56617521 TGCTGCCACC
* *
56617531 TTGACAGATATATCCGAGCGACTCACTCGCTTTGAGCAGCAGTGTT
1 TTGACAGATATATCCGAGCGACTCACTCGCTATGAACAGCAGTGTT
* *
56617577 TTGA-AGATATATCCGAGCGACTCGCTCGCTATGAACAGCGGTGTT
1 TTGACAGATATATCCGAGCGACTCACTCGCTATGAACAGCAGTGTT
56617622 TTGA
1 TTGA
56617626 GCGGTTCAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 41 0.91
46 4 0.09
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.28
Consensus pattern (46 bp):
TTGACAGATATATCCGAGCGACTCACTCGCTATGAACAGCAGTGTT
Found at i:56617761 original size:6 final size:6
Alignment explanation
Indices: 56617752--56617777 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
56617742 TTTATTATTA
56617752 TTAATT TTAATT TTAATT TTAATT TT
1 TTAATT TTAATT TTAATT TTAATT TT
56617778 CTTTTATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTAATT
Found at i:56623474 original size:79 final size:79
Alignment explanation
Indices: 56623341--56623498 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 79
56623331 TGAACAACAA
56623341 CAGTTGGGTAACTTTGAAAAATCACCATAAATGGTGGAAAATGAATGGGAAGCTGAATAATATAT
1 CAGTTGGGTAACTTTGAAAAATCACCATAAATGGTGGAAAATGAATGGGAAGCTGAATAATATAT
56623406 GAAATTGAAGCTGG
66 GAAATTGAAGCTGG
*
56623420 CAGTTGGGTAACTTTGAAAAATCACCATAAATGGTGGAAAATGAATGGGTAGCTGAATAATATAT
1 CAGTTGGGTAACTTTGAAAAATCACCATAAATGGTGGAAAATGAATGGGAAGCTGAATAATATAT
56623485 GAAATTGAAGCTGG
66 GAAATTGAAGCTGG
56623499 ATGTGTCTGT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.26
Consensus pattern (79 bp):
CAGTTGGGTAACTTTGAAAAATCACCATAAATGGTGGAAAATGAATGGGAAGCTGAATAATATAT
GAAATTGAAGCTGG
Found at i:56627315 original size:63 final size:64
Alignment explanation
Indices: 56627108--56627446 Score: 335
Period size: 67 Copynumber: 5.2 Consensus size: 64
56627098 CATATAGTTC
* *
56627108 AGCTCTCTTGTAC-ACATGGTGAACACT-CAGTACCACCCATGTGACCTAGCTA-ATTTATCTCG
1 AGCTCTCTTGT-CTACATGGTGTACA-TATAGTACCACCCATGTGACCTAGCTACATTTATCTCG
56627170 T
64 T
* * * * * * * *
56627171 AGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACATATATCCC
1 AGCTCTCTTGTCTACATGGTGTACAT-A--TAGTACCACCCATGTGACCTAGCTACATTTATCTC
56627236 GT
63 GT
* *
56627238 AGCTCTCTTATCTACATGGTGTACATATAGTATCACCCATGTGACCTAGCTA-ATTTATCTCGT
1 AGCTCTCTTGTCTACATGGTGTACATATAGTACCACCCATGTGACCTAGCTACATTTATCTCGT
* * * * * * * *
56627301 AGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACATATATCCC
1 AGCTCTCTTGTCTACATGGTGTACAT-A--TAGTACCACCCATGTGACCTAGCTACATTTATCTC
56627366 GT
63 GT
* * *
56627368 AGCTCTCTTATCTACATGGTGTACATATAGTATCACCCATGTGACCTAGCTACATCATAATCTCT
1 AGCTCTCTTGTCTACATGGTGTACATATAGTACCACCCATGTGACCTAGCTACAT--TTATCTC-
56627433 TGT
63 -GT
56627436 AGCTCTCTTGT
1 AGCTCTCTTGT
56627447 ACACATGATG
Statistics
Matches: 220, Mismatches: 42, Indels: 23
0.77 0.15 0.08
Matches are distributed among these distances:
62 2 0.01
63 52 0.24
64 44 0.20
66 46 0.21
67 64 0.29
68 12 0.05
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (64 bp):
AGCTCTCTTGTCTACATGGTGTACATATAGTACCACCCATGTGACCTAGCTACATTTATCTCGT
Found at i:56627341 original size:130 final size:130
Alignment explanation
Indices: 56627136--56627446 Score: 559
Period size: 130 Copynumber: 2.4 Consensus size: 130
56627126 GTGAACACTC
*
56627136 AGTACCACCCATGTGACCTAGCTAATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACC
1 AGTATCACCCATGTGACCTAGCTAATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACC
56627201 TGGAACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTATCTACATGGTGTACATAT
66 TGGAACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTATCTACATGGTGTACATAT
56627266 AGTATCACCCATGTGACCTAGCTAATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACC
1 AGTATCACCCATGTGACCTAGCTAATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACC
56627331 TGGAACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTATCTACATGGTGTACATAT
66 TGGAACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTATCTACATGGTGTACATAT
*
56627396 AGTATCACCCATGTGACCTAGCTACATCATAATCTCTTGTAGCTCTCTTGT
1 AGTATCACCCATGTGACCTAGCTA-AT--TTATCTC--GTAGCTCTCTTGT
56627447 ACACATGATG
Statistics
Matches: 174, Mismatches: 2, Indels: 5
0.96 0.01 0.03
Matches are distributed among these distances:
130 153 0.88
131 2 0.01
133 6 0.03
135 13 0.07
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (130 bp):
AGTATCACCCATGTGACCTAGCTAATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACC
TGGAACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTATCTACATGGTGTACATAT
Found at i:56628190 original size:30 final size:30
Alignment explanation
Indices: 56628156--56628216 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
56628146 TCCTTAACTC
56628156 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
56628186 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
56628216 A
1 A
56628217 GTCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:56637828 original size:40 final size:40
Alignment explanation
Indices: 56637723--56638058 Score: 538
Period size: 40 Copynumber: 8.5 Consensus size: 40
56637713 CGGATGATAA
* * *
56637723 CCGGGCTAAGTCCCGAAGGCATCTGTGCAAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
56637763 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
56637802 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
56637842 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
56637882 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
56637922 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
56637962 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
56638002 CCGGGCTAAGTCCCGAAGGCATTTGAGC-AG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
**
56638041 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
56638059 TACTTGGTTG
Statistics
Matches: 281, Mismatches: 12, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
38 16 0.06
39 41 0.15
40 224 0.80
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:56646081 original size:40 final size:40
Alignment explanation
Indices: 56646024--56646201 Score: 193
Period size: 40 Copynumber: 4.5 Consensus size: 40
56646014 TGGATGATAA
* *
56646024 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA-TAT
*
56646064 CCGGGCTAAGTCTCGAAGGCATTTGTG-TGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTATAT
* * *
56646104 CCGGGCTAAGTCCCGAAGGCATTGGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
* * * *
56646144 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTATAT
* *
56646184 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
56646202 TACTTGGCTT
Statistics
Matches: 120, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
39 17 0.14
40 103 0.86
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
Found at i:56646298 original size:55 final size:55
Alignment explanation
Indices: 56646214--56646321 Score: 207
Period size: 55 Copynumber: 2.0 Consensus size: 55
56646204 CTTGGCTTGG
*
56646214 GAATGAGCGACCTTGCTGTAATAGTTTCAATTAATATGCTCGTAAAATCCCAGCA
1 GAATGAGCGACCTTGCTGTAATAGTTTCAATTAATACGCTCGTAAAATCCCAGCA
56646269 GAATGAGCGACCTTGCTGTAATAGTTTCAATTAATACGCTCGTAAAATCCCAG
1 GAATGAGCGACCTTGCTGTAATAGTTTCAATTAATACGCTCGTAAAATCCCAG
56646322 TGATGAGGTA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (55 bp):
GAATGAGCGACCTTGCTGTAATAGTTTCAATTAATACGCTCGTAAAATCCCAGCA
Found at i:56662604 original size:80 final size:80
Alignment explanation
Indices: 56662471--56662631 Score: 304
Period size: 80 Copynumber: 2.0 Consensus size: 80
56662461 GTACAGAAGG
56662471 AGACGACGAAACTGTATCTAGCTCAAGAAGAGGAGACAGATGATGAACCTAATGAAAATTCTTCA
1 AGACGACGAAACTGTATCTAGCTCAAGAAGAGGAGACAGATGATGAACCTAATGAAAATTCTTCA
56662536 AGACAAGTAGAATAT
66 AGACAAGTAGAATAT
**
56662551 AGACGACGAAACTGTATCTAGCTCAAGAAGAGGAGACAGATGATGAACCTAATGACCATTCTTCA
1 AGACGACGAAACTGTATCTAGCTCAAGAAGAGGAGACAGATGATGAACCTAATGAAAATTCTTCA
56662616 AGACAAGTAGAATAT
66 AGACAAGTAGAATAT
56662631 A
1 A
56662632 AGGGCATTAA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (80 bp):
AGACGACGAAACTGTATCTAGCTCAAGAAGAGGAGACAGATGATGAACCTAATGAAAATTCTTCA
AGACAAGTAGAATAT
Found at i:56690399 original size:20 final size:18
Alignment explanation
Indices: 56690369--56690411 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
56690359 TTTGTAAAGT
*
56690369 TTGTAAAATAAGTTGTAAA
1 TTGTGAAATAA-TTGTAAA
56690388 TGTGTGAAATAATTG-AAA
1 T-TGTGAAATAATTGTAAA
56690406 TTGTGA
1 TTGTGA
56690412 GTTGCTATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 4 0.18
20 9 0.41
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.37
Consensus pattern (18 bp):
TTGTGAAATAATTGTAAA
Found at i:56691171 original size:48 final size:48
Alignment explanation
Indices: 56691061--56691283 Score: 213
Period size: 46 Copynumber: 4.7 Consensus size: 48
56691051 TGATATGTGT
* * * * * * *
56691061 GCTAGCGTAAGACATGTTTAGGACATGCATCGGCATTGAGATA-A-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAA
*
56691107 GCTAGTGTAAGACATGTCTGGGACATGTATCAGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAA
* * * * ** *
56691155 GCCAGTGTAACACATGTCTGGGACATGCATCAGCATTGAGA-CGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAA
* * *
56691201 GCTAGTGTAAAACATGTCTAGGACATGCATC-GACCTCGAGGTATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CCTCGAGATATACAA
* *
56691249 GCTAGTGTAAGACCTTTCTGGGACATGGCATCAGC
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAGC
56691284 TTGTTGTGTG
Statistics
Matches: 141, Mismatches: 29, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
45 1 0.01
46 70 0.50
47 3 0.02
48 60 0.43
49 6 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAA
Found at i:56691216 original size:94 final size:94
Alignment explanation
Indices: 56691067--56691283 Score: 292
Period size: 94 Copynumber: 2.3 Consensus size: 94
56691057 GTGTGCTAGC
* * * * * *
56691067 GTAAGACATGTTTAGGACATGCATCGGCATTGAGATAAGAGCTAGTGTAAGACATGTCTGGGACA
1 GTAAGACATGTCTGGGACATGCATCAGCATTGAGACAAGAGCTAGTGTAAAACATGTCTAGGACA
*
56691132 TGTATC-AGCCTCGAGATATACAAGCCAGT
66 TGCATCGA-CCTCGAGATATACAAGCCAGT
* *
56691161 GTAACACATGTCTGGGACATGCATCAGCATTGAGACGAGAGCTAGTGTAAAACATGTCTAGGACA
1 GTAAGACATGTCTGGGACATGCATCAGCATTGAGACAAGAGCTAGTGTAAAACATGTCTAGGACA
* *
56691226 TGCATCGACCTCGAGGTATACAAGCTAGT
66 TGCATCGACCTCGAGATATACAAGCCAGT
* *
56691255 GTAAGACCTTTCTGGGACATGGCATCAGC
1 GTAAGACATGTCTGGGACAT-GCATCAGC
56691284 TTGTTGTGTG
Statistics
Matches: 107, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
94 98 0.92
95 9 0.08
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (94 bp):
GTAAGACATGTCTGGGACATGCATCAGCATTGAGACAAGAGCTAGTGTAAAACATGTCTAGGACA
TGCATCGACCTCGAGATATACAAGCCAGT
Found at i:56691356 original size:93 final size:97
Alignment explanation
Indices: 56691251--56691424 Score: 225
Period size: 93 Copynumber: 1.8 Consensus size: 97
56691241 GTATACAAGC
* * *
56691251 TAGTGTAAGACCT-TTCTGGGACATGGCATC-AGC-TTGTTGTG-T-GTCAGTGTAAGACC-TGT
1 TAGTGCAAGACCTATT-TGGGACATGGCATCGA-CTTTGATGTGTTAGCCAGTGTAAGACCATGT
*
56691310 CTGGGACACGGCATCAGCTTCGAAATATGAAAGT
64 CTGGAACACGGCATCAGCTTCGAAATATGAAAGT
* *
56691344 TAGTGCAAGACCTATTTGGGATATGGCATCGACTTTGATGTGTTAGCCAGTGTAAGACCATGTTT
1 TAGTGCAAGACCTATTTGGGACATGGCATCGACTTTGATGTGTTAGCCAGTGTAAGACCATGTCT
*
56691409 GGAACATGGCATCAGC
66 GGAACACGGCATCAGC
56691425 ATCGTATCCC
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
93 26 0.38
94 10 0.15
95 1 0.01
96 13 0.19
97 18 0.26
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (97 bp):
TAGTGCAAGACCTATTTGGGACATGGCATCGACTTTGATGTGTTAGCCAGTGTAAGACCATGTCT
GGAACACGGCATCAGCTTCGAAATATGAAAGT
Found at i:56693835 original size:17 final size:17
Alignment explanation
Indices: 56693815--56693896 Score: 74
Period size: 17 Copynumber: 4.8 Consensus size: 17
56693805 TGTTCATATG
*
56693815 AAATAACAATTCATACC
1 AAATAACAGTTCATACC
* * *
56693832 AAATGATAGTTCATTCC
1 AAATAACAGTTCATACC
* ** *
56693849 AATTAGTAGTTCATAAC
1 AAATAACAGTTCATACC
* *
56693866 AAATAACAGTTCATGCA
1 AAATAACAGTTCATACC
56693883 AAATAACAGTTCAT
1 AAATAACAGTTCAT
56693897 TCTTCGTCAT
Statistics
Matches: 50, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 50 1.00
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.29
Consensus pattern (17 bp):
AAATAACAGTTCATACC
Found at i:56693894 original size:34 final size:34
Alignment explanation
Indices: 56693815--56693896 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 34
56693805 TGTTCATATG
* * * * * *
56693815 AAATAACAATTCATACCAAATGATAGTTCATTCC
1 AAATAACAGTTCATAACAAATAACAGTTCATGCA
* **
56693849 AATTAGTAGTTCATAACAAATAACAGTTCATGCA
1 AAATAACAGTTCATAACAAATAACAGTTCATGCA
56693883 AAATAACAGTTCAT
1 AAATAACAGTTCAT
56693897 TCTTCGTCAT
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.29
Consensus pattern (34 bp):
AAATAACAGTTCATAACAAATAACAGTTCATGCA
Found at i:56694594 original size:36 final size:36
Alignment explanation
Indices: 56694549--56694617 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
56694539 TACAGTTCGT
*
56694549 CATATTAATACAAATCACCAAATTAACATGGTTTGC
1 CATAATAATACAAATCACCAAATTAACATGGTTTGC
* * * *
56694585 CATAATAATATAATTCACCAAGTTCACATGGTT
1 CATAATAATACAAATCACCAAATTAACATGGTT
56694618 CACAATATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (36 bp):
CATAATAATACAAATCACCAAATTAACATGGTTTGC
Found at i:56696815 original size:46 final size:46
Alignment explanation
Indices: 56696668--56696890 Score: 156
Period size: 46 Copynumber: 4.8 Consensus size: 46
56696658 GGAGTAGGGT
* * *
56696668 GCCGATGCCATATCCCAGACATGGTCTTACACT-GACTATCATCTCATA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCCTA-CGTCTCA-AG
* *
56696716 GCC-AGTGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCAAG
1 GCCGA-TGCATGTCCCAGACATGTCTTACACTAGCCTACGTCTCAAG
* * *
56696762 GCCGATGCATCTCCCAGACATGTCTTACACTAGCACT-CGTCTCGAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-CTACGTCTCAAG
* * * *
56696808 GCTGATGCCATGTCCCAAACATCATCTTACA-TAGGCT-C-TCAT-AATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCCTACGTC-TCAA-G
* *
56696854 TAGTCGATGCATGTCCTAGACATGTCTTACACTAGCC
1 --GCCGATGCATGTCCCAGACATGTCTTACACTAGCC
56696891 CACAATAACT
Statistics
Matches: 141, Mismatches: 22, Indels: 25
0.75 0.12 0.13
Matches are distributed among these distances:
45 4 0.03
46 70 0.50
47 50 0.35
48 17 0.12
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCCTACGTCTCAAG
Found at i:56701733 original size:47 final size:46
Alignment explanation
Indices: 56701662--56701968 Score: 207
Period size: 47 Copynumber: 6.6 Consensus size: 46
56701652 TGATTTGTGT
56701662 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
* * * *
56701708 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCCA-GACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCTTCGGCCA--CATTATGAGA
* * * *
56701756 GCTAGTGTAAGACATGTCTGGGACATGCTTCAGCCATATTATGAGT
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
* * **
56701802 GCCAGAGTAAGACATGTCTGGGACATGCATT-GGCCTCAACA-GAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGC-TTCGGCCACATTATGAG--A
* * * * * * * * *
56701849 GCAAGTGTAAGACGTGTCTGGGACACGCATCAGCTA-A-GA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATG-AGA
* * * *
56701893 GCTAGTGTAAGACATGTTTGGGACATGCATT-AGCACGCATATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGC-TTCGGC-CACAT-TATGAGA
**
56701941 GAAAGTGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
56701969 GCATCTGCAA
Statistics
Matches: 200, Mismatches: 43, Indels: 33
0.72 0.16 0.12
Matches are distributed among these distances:
44 27 0.14
45 7 0.04
46 56 0.28
47 60 0.30
48 33 0.17
49 17 0.09
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
Found at i:56701822 original size:46 final size:45
Alignment explanation
Indices: 56701660--56701829 Score: 198
Period size: 46 Copynumber: 3.7 Consensus size: 45
56701650 GATGATTTGT
*
56701660 GTGCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCTTC-GCCATATTATGA
* * * * *
56701706 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCA-GACGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCTTCGCCAT--ATTATGA
* *
56701754 GGGCTAGTGTAAGACATGTCTGGGACATGCTTCAGCCATATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCTTC-GCCATATTATGA
*
56701800 GTGCCAGAGTAAGACATGTCTGGGACATGC
1 GTGCCAGTGTAAGACATGTCTGGGACATGC
56701830 ATTGGCCTCA
Statistics
Matches: 103, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
45 1 0.01
46 47 0.46
47 35 0.34
48 19 0.18
49 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (45 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCTTCGCCATATTATGA
Found at i:56701934 original size:140 final size:139
Alignment explanation
Indices: 56701660--56701968 Score: 337
Period size: 140 Copynumber: 2.2 Consensus size: 139
56701650 GATGATTTGT
** *
56701660 GTGCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACAACATGAGAGCAAGTGTAAGACCATG
* * *
56701725 TCTGGGACATGGCATCGGCATCCAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGCTTCAGC
66 TCTGGGACATCGCATCAGCATCAAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGCTTCAGC
56701790 CATATTATGA
131 CATA-TATGA
* *
56701800 GTGCCAGAGTAAGACATGTCTGGGACATGCATT-GGCCTCAACA-GAGATAGCAAGTGTAAGA-C
1 GTGCCAGTGTAAGACATGTCTGGGACATGC-TTCGGCCACAACATGAG--AGCAAGTGTAAGACC
* * * *
56701862 GTGTCTGGGACA-CGCATCAGC-T-AAGA-GTTGTGCTAGTGTAAGACATGTTTGGGACATGCAT
63 ATGTCTGGGACATCGCATCAGCATCAAGACG-AGGGCTAGTGTAAGACATGTCTGGGACATGC-T
56701923 T-AGCACGCATATATGA
126 TCAG--C-CATATATGA
* **
56701939 GAGAAAGTGTAAGACCATGTCTGGGACATG
1 GTGCCAGTGTAAGA-CATGTCTGGGACATG
56701969 GCATCTGCAA
Statistics
Matches: 144, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
136 1 0.01
137 33 0.23
138 3 0.02
139 26 0.18
140 67 0.47
141 14 0.10
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (139 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACAACATGAGAGCAAGTGTAAGACCATG
TCTGGGACATCGCATCAGCATCAAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGCTTCAGC
CATATATGA
Found at i:56711777 original size:47 final size:46
Alignment explanation
Indices: 56711706--56712016 Score: 195
Period size: 47 Copynumber: 6.7 Consensus size: 46
56711696 TATTTGTGCA
* * *
56711706 CCAGTGTAAAACATGTCTGAGACATGCTTCGGCCACATTATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAG
* * *
56711752 CCAGTGTAAGACCATGTCTGGGACATGGCATC-GACATCCA-GATGAGGG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CATTATGAGAG
* * * * *
56711800 CTAGTGTAAGACATGTCTGGGACATGCTTCAGCCATATTATG-GTG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAG
* * * * * *
56711845 CCAGAGTAAGACATGTTTGGGATATGCATTGGCCTCGACA-GA-GATAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGG-C-C-ACATTATGAGAG
* ** * *** * *
56711892 CCAGTGTAAGACGTGTCTGGGACACACATCGGCTA-AGCGT-TGTG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAG
** * *
56711936 CTGGTGTAAGACATGTCTGGGACATGCATCAGCACACATATATGAAAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGC-CACAT-TATGAGAG
*
56711984 CCAATGTAAGACCATGTCTGGGACATGGCATCG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
56712017 ACAATTTATG
Statistics
Matches: 194, Mismatches: 53, Indels: 32
0.70 0.19 0.11
Matches are distributed among these distances:
43 1 0.01
44 29 0.15
45 29 0.15
46 21 0.11
47 62 0.32
48 31 0.16
49 16 0.08
50 5 0.03
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (46 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAG
Found at i:56711909 original size:92 final size:94
Alignment explanation
Indices: 56711706--56711915 Score: 239
Period size: 92 Copynumber: 2.3 Consensus size: 94
56711696 TATTTGTGCA
* * * *
56711706 CCAGTGTAAAACATGTCTGAGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCT
1 CCAGTGTAAGACATGTCTGGGACATGCTTCAGCCACATTATGAGAGCCAGAGTAAGACCATGTCT
*
56711771 GGGACATGGCATCGACATCCAGATGAGGG
66 GGGACATGGCATCGACATCCAGATGAGAG
* * * *
56711800 CTAGTGTAAGACATGTCTGGGACATGCTTCAGCCATATTATG-GTGCCAGAGTAAGA-CATGTTT
1 CCAGTGTAAGACATGTCTGGGACATGCTTCAGCCACATTATGAGAGCCAGAGTAAGACCATGTCT
* * * * *
56711863 GGGATAT-GCATTGGCCTCGACAGA-GATAG
66 GGGACATGGCATCGACATC--CAGATGAGAG
*
56711892 CCAGTGTAAGACGTGTCTGGGACA
1 CCAGTGTAAGACATGTCTGGGACA
56711916 CACATCGGCT
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
91 8 0.08
92 37 0.38
93 16 0.16
94 37 0.38
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (94 bp):
CCAGTGTAAGACATGTCTGGGACATGCTTCAGCCACATTATGAGAGCCAGAGTAAGACCATGTCT
GGGACATGGCATCGACATCCAGATGAGAG
Found at i:56715885 original size:49 final size:49
Alignment explanation
Indices: 56715717--56715941 Score: 279
Period size: 49 Copynumber: 4.5 Consensus size: 49
56715707 TGAGGTCGCA
* * * * *
56715717 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * **
56715768 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
*
56715818 TGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* * * *
56715867 TGTGTAGTACTAAATGCAGGCTACTACGTGTACCGGATAATTAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* *
56715916 TGTGTAGTACTATGTGCAGACTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
56715942 TGCATACCAG
Statistics
Matches: 152, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 75 0.49
50 44 0.29
51 33 0.22
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:56715898 original size:99 final size:100
Alignment explanation
Indices: 56715715--56715941 Score: 305
Period size: 99 Copynumber: 2.3 Consensus size: 100
56715705 TGTGAGGTCG
*
56715715 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTAAGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTA
* * **
56715780 AGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCA
66 AATGCAGGCTACTACGTGTACCAGATAATTA-GTCA
* * * * *
56715816 CGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCGGATAA-T-TGGTCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTAAGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTA
* *
56715879 AATGCAGGCTACTACGTGTACCGGATAATTAGTCG
66 AATGCAGGCTACTACGTGTACCAGATAATTAGTCA
* *
56715914 CATGTGTAGTACTATGTGCAGACTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTA
56715942 TGCATACCAG
Statistics
Matches: 111, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 28 0.25
99 45 0.41
100 1 0.01
101 37 0.33
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (100 bp):
CATGTGTAGTACTAAGTGCAGGCTACTAAGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTA
AATGCAGGCTACTACGTGTACCAGATAATTAGTCA
Found at i:56718651 original size:7 final size:7
Alignment explanation
Indices: 56718641--56718680 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
56718631 TATATTATTT
56718641 ATTATAC
1 ATTATAC
56718648 ATTATAC
1 ATTATAC
56718655 ATTATAC
1 ATTATAC
56718662 ATTATAC
1 ATTATAC
56718669 ATTATAC
1 ATTATAC
56718676 ATTAT
1 ATTAT
56718681 CATCAGTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (7 bp):
ATTATAC
Found at i:56721679 original size:32 final size:33
Alignment explanation
Indices: 56721608--56721703 Score: 115
Period size: 32 Copynumber: 2.9 Consensus size: 33
56721598 TGAACAGTCC
* * * *
56721608 GGGCCTAAGCCCATTTCAGTCACAATATCAGTGT
1 GGGCCTTAGCCCAATTAAGT-ACAGTATCAGTGT
56721642 GGGCCTTAGCCCAA-TAAGTAGCAGTATC-GTGT
1 GGGCCTTAGCCCAATTAAGTA-CAGTATCAGTGT
*
56721674 GGGCCTTAGCCCAATTCAGTACAGTATCAG
1 GGGCCTTAGCCCAATTAAGTACAGTATCAG
56721704 AAATGCATAC
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
32 26 0.48
33 16 0.30
34 12 0.22
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (33 bp):
GGGCCTTAGCCCAATTAAGTACAGTATCAGTGT
Found at i:56726626 original size:43 final size:42
Alignment explanation
Indices: 56726571--56726682 Score: 115
Period size: 41 Copynumber: 2.7 Consensus size: 42
56726561 ATATCGAACA
* * *
56726571 ATGCCAAC-GTCCCAGACGTGGTCTTACATGC-TATCTCATATCG
1 ATGCCAACTGTCCCAGACATGGTCTTACA--CAAATCTAATAT-G
*
56726614 ATGCC-ACTGTCCCAGACAAGGTCTTACACAAATCTAATATG
1 ATGCCAACTGTCCCAGACATGGTCTTACACAAATCTAATATG
* *
56726655 ATGCCGA-TGTCCCAGACATGGTATTACA
1 ATGCCAACTGTCCCAGACATGGTCTTACA
56726683 GATAACCACA
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
41 26 0.43
42 11 0.18
43 23 0.38
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (42 bp):
ATGCCAACTGTCCCAGACATGGTCTTACACAAATCTAATATG
Found at i:56726713 original size:45 final size:42
Alignment explanation
Indices: 56726608--56726713 Score: 115
Period size: 41 Copynumber: 2.5 Consensus size: 42
56726598 ATGCTATCTC
* * * *
56726608 ATATCGATGCCACTGTCCCAGACAAGGTCTTACACAAATCTA
1 ATATCGATGCCAATGTCCCAGACAAGGTATTACACAAACCCA
* * *
56726650 ATAT-GATGCCGATGTCCCAGACATGGTATTACAGATAACCACA
1 ATATCGATGCCAATGTCCCAGACAAGGTATTACACA-AACC-CA
56726693 TATATCGATGCCAATGTCCCA
1 -ATATCGATGCCAATGTCCCA
56726714 AATTTGGTCT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
41 26 0.50
42 7 0.13
43 1 0.02
44 4 0.08
45 14 0.27
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (42 bp):
ATATCGATGCCAATGTCCCAGACAAGGTATTACACAAACCCA
Found at i:56726727 original size:45 final size:44
Alignment explanation
Indices: 56726650--56726740 Score: 103
Period size: 45 Copynumber: 2.0 Consensus size: 44
56726640 CACAAATCTA
* * *
56726650 ATATGATGCCGATGTCCCAGACATGGTATTACA-GATAACCACAT
1 ATATGATGCCAATGTCCCAAACATGGTATTACATGAGAA-CACAT
** *
56726694 ATATCGATGCCAATGTCCCAAATTTGGTCTTACATGAGAACACAT
1 ATAT-GATGCCAATGTCCCAAACATGGTATTACATGAGAACACAT
56726739 AT
1 AT
56726741 CAAAAACCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
44 4 0.10
45 31 0.79
46 4 0.10
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.27
Consensus pattern (44 bp):
ATATGATGCCAATGTCCCAAACATGGTATTACATGAGAACACAT
Found at i:56731342 original size:126 final size:126
Alignment explanation
Indices: 56731134--56731820 Score: 1013
Period size: 126 Copynumber: 5.5 Consensus size: 126
56731124 AGTCTAAGGC
** * * *
56731134 TTTT-TCAGATATTACTGTAGCAACATAGCGTCCACGTGGGAGATTTTTTCCGTAATTTTGCTGA
1 TTTTATCAGATACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGA
*
56731198 AAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATTTTCTCAAAATTA
66 AAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
* * *
56731259 TATTATCAGATACCACTGTAGCAAAAGAGCGTCCACGTGAGAG-TTTATTTCCGTAATTTTGCTA
1 TTTTATCAGATACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTT-TTTCCGTAATTTTGCTG
* * * *
56731323 AAAGTACATCCTTTTTGAAGCGTTATTGACACTATTTGTTAAGAAACATCTTCTCAAAATTA
65 AAAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
* *
56731385 TTTTATCAGATACCACTGTAGCAAAAGAACGTCCACGTGGGAGCCTTTTTCCGTAATTTTGCTGA
1 TTTTATCAGATACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGA
* *
56731450 AAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAATAGCTTCTCAAAATTA
66 AAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
* *
56731511 TTTTATCAGATACCACTGTAGCAAAAGAGCGTCCACATGGGAGC-TTTTTCCGTAATTTTGCTAA
1 TTTTATCAGATACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGA
* * *
56731575 AAGTGCATCCTTCTTGAAGCGTTTTTTGACACTATTTGTTCAGAAACATCTTTTTAAATTTA
66 AAGTGCATCCTTCTTGAAGCG-TTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
* * * * *
56731637 TTTTTTCAAATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCTGTTATTTTGCTGA
1 TTTTATCAGATACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGA
* * * *
56731702 CAGTGCATCCTTCTTGAAGAGTTTTTTACACTATTTGTTCAGAAACATCTTCTCAAATTTA
66 AAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
* * *
56731763 TTTTTTCAGATACTACTGTAGCAAAAGAGAGTCCACGTGGGAGCTTTATTT-CGTAATT
1 TTTTATCAGATACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTT-TTTCCGTAATT
56731821 AATAGTTAAT
Statistics
Matches: 509, Mismatches: 47, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
125 46 0.09
126 422 0.83
127 41 0.08
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (126 bp):
TTTTATCAGATACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGA
AAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
Found at i:56731968 original size:17 final size:17
Alignment explanation
Indices: 56731946--56732018 Score: 87
Period size: 17 Copynumber: 4.4 Consensus size: 17
56731936 CCCTTAAAAA
*
56731946 CACTAAAAATCCTAAAC
1 CACTAAAAACCCTAAAC
56731963 CACTAAAAACCCTAAAC
1 CACTAAAAACCCTAAAC
* *
56731980 TACTAAAAACCCTAAAA
1 CACTAAAAACCCTAAAC
*
56731997 C-CT-TAAACCCTAAAC
1 CACTAAAAACCCTAAAC
*
56732012 TACTAAA
1 CACTAAA
56732019 CCCTAATTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
15 10 0.22
16 4 0.09
17 32 0.70
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.18
Consensus pattern (17 bp):
CACTAAAAACCCTAAAC
Found at i:56732010 original size:32 final size:34
Alignment explanation
Indices: 56731943--56732018 Score: 104
Period size: 32 Copynumber: 2.3 Consensus size: 34
56731933 TTTCCCTTAA
* *
56731943 AAAC-ACTAAAAATCCTAAACCACTAAAAACCCT
1 AAACTACTAAAAACCCTAAAACACTAAAAACCCT
*
56731976 AAACTACTAAAAACCCTAAAAC-CT-TAAACCCT
1 AAACTACTAAAAACCCTAAAACACTAAAAACCCT
56732008 AAACTACTAAA
1 AAACTACTAAA
56732019 CCCTAATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
32 18 0.46
33 6 0.15
34 15 0.38
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (34 bp):
AAACTACTAAAAACCCTAAAACACTAAAAACCCT
Found at i:56732018 original size:15 final size:15
Alignment explanation
Indices: 56731969--56732024 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 15
56731959 AAACCACTAA
56731969 AAACCCTAAACTACT
1 AAACCCTAAACTACT
56731984 AAAAACCCTAAA--ACCTT
1 --AAACCCTAAACTA-C-T
56732001 AAACCCTAAACTACT
1 AAACCCTAAACTACT
56732016 AAACCCTAA
1 AAACCCTAA
56732025 TTTAATTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
15 21 0.60
16 2 0.06
17 12 0.34
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (15 bp):
AAACCCTAAACTACT
Found at i:56732059 original size:161 final size:159
Alignment explanation
Indices: 56731841--56732318 Score: 617
Period size: 161 Copynumber: 3.0 Consensus size: 159
56731831 TTAATTAATA
56731841 AACCCTAAAAAACCCTAAACCCTAATTTAATTAATTTTTTTATTTTCATAGTTAATTTAATTAAT
1 AACCCTAAAAAA-CCTAAACCCTAATTTAATTAATTTTTTTATTTTCATAGTTAATTTAATTAAT
* * *
56731906 TAACCCTCAAATCTAA-TTAAATTAATTTTTCCCTT-AAAAACACTAAAAATCCTAAACCACTAA
65 TAACCCTCAACTCTAAGTTTAATTAATTTTTCCCTTAAAAAACACTAAAAACCCTAAACCACT-A
*
56731969 AAACCCTAAACTACTAAAAACCCTAAAACCTT
129 AAACCCTAAAC-ACTAAAAACCCTAAAACCCT
** * *
56732001 AAACCCTAAACTA-CTAAACCCTAATTTAATTGATTTTTTCTTATTTTCATAATTAATTTAATTA
1 -AACCCTAAAAAACCTAAACCCTAATTTAATT-AATTTTT-TTATTTTCATAGTTAATTTAATTA
* * * * *
56732065 ATTAACCCTCAACTCTAAGTGTTTATTAATTTTTCTCTTAAAAAATACTAAAAACCCTACACCAG
63 ATTAACCCTCAACTCTAAGT-TTAATTAATTTTTCCCTTAAAAAACACTAAAAACCCTAAACCAC
**
56732130 TAAAACCCT-AAC-CGTAAAATA-ATTAGAAACCCT
127 TAAAACCCTAAACAC-TAAAA-ACCCTA-AAACCCT
* *
56732163 AACCTTAAAAAACCCTAAACCCTAATTTAATTAATTTTTTTATTGTCATAGTTAATTTAATTAAT
1 AACCCTAAAAAA-CCTAAACCCTAATTTAATTAATTTTTTTATTTTCATAGTTAATTTAATTAAT
* *
56732228 TAACCCTCAACTCTAAGTTTTCATTAATTTTTCCCTTAAAAAACACTAAAAACCCTAAACCACCA
65 TAACCCTCAACTCTAAG-TTTAATTAATTTTTCCCTTAAAAAACACTAAAAACCCTAAACCACTA
*
56732293 AAACTCTAAACCACTAAAAACCCTAA
129 AAACCCTAAA-CACTAAAAACCCTAA
56732319 CCCTAAAAAA
Statistics
Matches: 272, Mismatches: 30, Indels: 29
0.82 0.09 0.09
Matches are distributed among these distances:
159 18 0.07
160 7 0.03
161 153 0.56
162 22 0.08
163 49 0.18
164 23 0.08
ACGTcount: A:0.42, C:0.22, G:0.02, T:0.34
Consensus pattern (159 bp):
AACCCTAAAAAACCTAAACCCTAATTTAATTAATTTTTTTATTTTCATAGTTAATTTAATTAATT
AACCCTCAACTCTAAGTTTAATTAATTTTTCCCTTAAAAAACACTAAAAACCCTAAACCACTAAA
ACCCTAAACACTAAAAACCCTAAAACCCT
Found at i:56732136 original size:16 final size:14
Alignment explanation
Indices: 56732115--56732148 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 14
56732105 AAAAATACTA
56732115 AAAACCCTACACCAGT
1 AAAACCCTA-ACC-GT
56732131 AAAACCCTAACCGT
1 AAAACCCTAACCGT
56732145 AAAA
1 AAAA
56732149 TAATTAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 3 0.17
16 9 0.50
ACGTcount: A:0.50, C:0.32, G:0.06, T:0.12
Consensus pattern (14 bp):
AAAACCCTAACCGT
Found at i:56732295 original size:16 final size:17
Alignment explanation
Indices: 56732271--56732327 Score: 75
Period size: 16 Copynumber: 3.5 Consensus size: 17
56732261 CCTTAAAAAA
56732271 CACTAAAAACCCTAAAC
1 CACTAAAAACCCTAAAC
* *
56732288 CAC-CAAAACTCTAAAC
1 CACTAAAAACCCTAAAC
56732304 CACTAAAAACCCT-AAC
1 CACTAAAAACCCTAAAC
56732320 C-CTAAAAA
1 CACTAAAAA
56732328 ACCCCAACCC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
15 7 0.20
16 18 0.51
17 10 0.29
ACGTcount: A:0.53, C:0.35, G:0.00, T:0.12
Consensus pattern (17 bp):
CACTAAAAACCCTAAAC
Found at i:56732328 original size:16 final size:17
Alignment explanation
Indices: 56732308--56732345 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
56732298 CTAAACCACT
*
56732308 AAAAACCCTAACCCTA-
1 AAAAACCCCAACCCTAC
56732324 AAAAACCCCAACCCTAC
1 AAAAACCCCAACCCTAC
56732341 AAAAA
1 AAAAA
56732346 GGGGCAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.55, C:0.37, G:0.00, T:0.08
Consensus pattern (17 bp):
AAAAACCCCAACCCTAC
Found at i:56733313 original size:26 final size:26
Alignment explanation
Indices: 56733280--56733332 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
56733270 ATGAACACTC
56733280 TTTTAAACCACTGCAGCTTGAGTTTT
1 TTTTAAACCACTGCAGCTTGAGTTTT
56733306 TTTTAAACCACTGCAGCTTGAGTTTT
1 TTTTAAACCACTGCAGCTTGAGTTTT
56733332 T
1 T
56733333 CTTGCATGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.43
Consensus pattern (26 bp):
TTTTAAACCACTGCAGCTTGAGTTTT
Found at i:56737912 original size:20 final size:20
Alignment explanation
Indices: 56737889--56737936 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
56737879 AAATCTAAAT
56737889 TAAAATACTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
*
56737909 TAAAATCCTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
56737929 TAAGAATA
1 TAA-AATA
56737937 ATGATGTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGA
Found at i:56739880 original size:16 final size:16
Alignment explanation
Indices: 56739849--56739882 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
56739839 TAGAATTGGG
* *
56739849 TTGAGAAATTATTTAA
1 TTGAGAAATAAATTAA
56739865 TTGAGAAATAAATTAA
1 TTGAGAAATAAATTAA
56739881 TT
1 TT
56739883 TAAGATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (16 bp):
TTGAGAAATAAATTAA
Found at i:56743794 original size:17 final size:17
Alignment explanation
Indices: 56743772--56743806 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
56743762 AGCCCGGTTT
56743772 TAGATAAATCAGAACAG
1 TAGATAAATCAGAACAG
56743789 TAGATAAATCAGAACAG
1 TAGATAAATCAGAACAG
56743806 T
1 T
56743807 GGTTTTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.20
Consensus pattern (17 bp):
TAGATAAATCAGAACAG
Found at i:56751891 original size:40 final size:39
Alignment explanation
Indices: 56751854--56752031 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 39
56751844 ATATCCGGAC
56751854 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
56751894 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
56751934 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
56751974 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
56752013 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
56752032 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 33 0.27
40 85 0.70
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:56751944 original size:80 final size:79
Alignment explanation
Indices: 56751860--56752031 Score: 229
Period size: 80 Copynumber: 2.2 Consensus size: 79
56751850 GGACTAAGAT
*
56751860 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
56751924 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * *
56751940 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
56752005 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
56752019 CCGAAGGCATTTG
1 CCGAAGGCATTTG
56752032 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 38 0.47
80 39 0.49
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:56752049 original size:79 final size:80
Alignment explanation
Indices: 56751887--56752064 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
56751877 AGATACAAAT
* * * *
56751887 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
56751952 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
56751967 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
56752031 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
56752046 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
56752065 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:56759224 original size:39 final size:39
Alignment explanation
Indices: 56759060--56759242 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
56759050 TTGAATGCTG
* * * * * * *
56759060 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTATGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * * *
56759100 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTATG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
56759140 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTATGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
56759180 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
56759219 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATT
56759243 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.31
40 74 0.61
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:56759262 original size:79 final size:80
Alignment explanation
Indices: 56759096--56759277 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
56759086 GCTAAGTGAA
* * * *
56759096 TATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAG-TCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGG
** ** *
56759160 CATTCGTGCGAGTTGT
65 CATTCGAACGAGGAGC
* * * * *
56759176 TAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
*
56759240 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
*
56759255 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
56759278 TACGTGATTT
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 14 0.17
79 50 0.60
80 19 0.23
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:56763520 original size:48 final size:46
Alignment explanation
Indices: 56763408--56763528 Score: 145
Period size: 46 Copynumber: 2.6 Consensus size: 46
56763398 TGATATGTGT
* *
56763408 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACAATATGAAA
* * * *
56763454 GCCAGTGTAAGACATGTCTTGGACATGCATCGGCCTCGAGATAT-ACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCAC-A-ATATGA-AA
*
56763502 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
56763529 GCGTCAGCTT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 33 0.52
47 2 0.03
48 28 0.44
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACAATATGAAA
Found at i:56763615 original size:49 final size:49
Alignment explanation
Indices: 56763411--56763678 Score: 198
Period size: 49 Copynumber: 5.7 Consensus size: 49
56763401 TATGTGTGCT
* * * *
56763411 AGTGTAAGACATGTCTGGGACATG-CATCGACCAC-AT-TATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGACATCGACCTCGATAGATGAAAGCC
* * * * * *
56763457 AGTGTAAGACATGTCTTGGACATG-CATCGGCCTCGAGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGACATCGACCTCGATAGATGA-AAGCC
* * * * * *
56763505 AGTGTAAGACCTGTCTGGGACATGGCGTC-AGCTTG-TTG-TG--TGCC
1 AGTGTAAGACCTGTCTGGGACATGACATCGACCTCGATAGATGAAAGCC
* * **
56763549 AGTGTAAGACCTATCTGGGACATGGCATCGACAC-CGATAGATGGGAGCC
1 AGTGTAAGACCTGTCTGGGACATGACATCGAC-CTCGATAGATGAAAGCC
* * * * **
56763598 AATGTAAGACCTGTCTGGGACACGACATCGGCCTCGATATATGAAAGTT
1 AGTGTAAGACCTGTCTGGGACATGACATCGACCTCGATAGATGAAAGCC
*
56763647 AGTGTAAGACCTGTCTAGGACATGACATCGAC
1 AGTGTAAGACCTGTCTGGGACATGACATCGAC
56763679 TATGATGTGC
Statistics
Matches: 173, Mismatches: 37, Indels: 21
0.75 0.16 0.09
Matches are distributed among these distances:
44 29 0.17
45 2 0.01
46 35 0.20
47 4 0.02
48 32 0.18
49 71 0.41
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGACATCGACCTCGATAGATGAAAGCC
Found at i:56763661 original size:142 final size:140
Alignment explanation
Indices: 56763402--56763720 Score: 369
Period size: 142 Copynumber: 2.2 Consensus size: 140
56763392 ATTGGGTGAT
* * * * *
56763402 ATGTGTGCTAGTGTAAGACATGTCTGGGACAT-GCATCGACCACATTATGAGAGCCAGTGTAAGA
1 ATGTGTGCCAGTGTAAGACCTATCTGGGACATGGCATCGACCACATGATGAGAGCCAATGTAAGA
* * * *
56763466 CATGTCTTGGACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTGTCTGGGACATGGC
66 CATGTCTGGGACACGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTGTCTAGGACATGAC
*
56763531 GTC-AGCT-TG
131 ATCGA-CTATG
* *
56763540 TTGTGTGCCAGTGTAAGACCTATCTGGGACATGGCATCGA-CACCGATAGATGGGAGCCAATGTA
1 ATGTGTGCCAGTGTAAGACCTATCTGGGACATGGCATCGACCA-C-AT-GATGAGAGCCAATGTA
* * *
56763604 AGACCTGTCTGGGACACGACATCGGCCTCGATATATGA-AAGTTAGTGTAAGACCTGTCTAGGAC
63 AGACATGTCTGGGACACG-CATCGGCCTCGAGATAT-ACAAGCTAGTGTAAGACCTGTCTAGGAC
56763668 ATGACATCGACTATG
126 ATGACATCGACTATG
* *
56763683 ATGTGCTAGCCAGTGTATGACCATTTCTGGGACATGGC
1 ATGTG-T-GCCAGTGTAAGACC-TATCTGGGACATGGC
56763721 GTTGGCATCT
Statistics
Matches: 152, Mismatches: 18, Indels: 14
0.83 0.10 0.08
Matches are distributed among these distances:
138 30 0.20
139 8 0.05
140 2 0.01
141 28 0.18
142 48 0.32
143 8 0.05
144 1 0.01
145 13 0.09
146 14 0.09
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (140 bp):
ATGTGTGCCAGTGTAAGACCTATCTGGGACATGGCATCGACCACATGATGAGAGCCAATGTAAGA
CATGTCTGGGACACGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTGTCTAGGACATGAC
ATCGACTATG
Found at i:56765803 original size:61 final size:61
Alignment explanation
Indices: 56765705--56765879 Score: 191
Period size: 60 Copynumber: 2.9 Consensus size: 61
56765695 TCAAGCTTTA
* *
56765705 CTGGGCC-TAAGCCCTATTTAGAAATCAGAGT-TAACTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCAT-AGCCCTA-TTACAAATCAGAGTAT-ACTGGGCCTTAGCCCATATCAATATCAAT
* * *
56765767 CTGGGCCATAGCCC-CTTACAATATCAGAGTATACTGGGCC-TAGCTCATATCAGTATCAAT
1 CTGGGCCATAGCCCTATTACAA-ATCAGAGTATACTGGGCCTTAGCCCATATCAATATCAAT
* * *
56765827 CTGGGCCGTAGCCCTATTACAAGTC-GAGATATATTGGGCCTT-GCCCATATCAA
1 CTGGGCCATAGCCCTATTACAAATCAGAG-TATACTGGGCCTTAGCCCATATCAA
56765880 CATAGTTGGG
Statistics
Matches: 96, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
59 3 0.03
60 56 0.58
61 23 0.24
62 13 0.14
63 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (61 bp):
CTGGGCCATAGCCCTATTACAAATCAGAGTATACTGGGCCTTAGCCCATATCAATATCAAT
Found at i:56765912 original size:19 final size:20
Alignment explanation
Indices: 56765869--56765924 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
56765859 ATTGGGCCTT
*
56765869 GCCCATATCAACATAGTTGG
1 GCCCATATCAACACAGTTGG
* *
56765889 GCCCATTTCAATACAGTT-G
1 GCCCATATCAACACAGTTGG
* *
56765908 GCCCATAACAAAACAGT
1 GCCCATATCAACACAGT
56765925 ATCATATGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (20 bp):
GCCCATATCAACACAGTTGG
Found at i:56766772 original size:196 final size:196
Alignment explanation
Indices: 56766470--56766863 Score: 788
Period size: 196 Copynumber: 2.0 Consensus size: 196
56766460 CACTCTGCAA
56766470 TCTTACCATTGAAGTTACCAAAATTATCAATACAAACAATCCCACGAGCGTTCGCACGCTCGTAA
1 TCTTACCATTGAAGTTACCAAAATTATCAATACAAACAATCCCACGAGCGTTCGCACGCTCGTAA
56766535 ATTCTCGAAATGCCGGCTTTTTGGCATTTCAGTCTTTCAGCTTTTGCCGATCTAGTCTACTAGTG
66 ATTCTCGAAATGCCGGCTTTTTGGCATTTCAGTCTTTCAGCTTTTGCCGATCTAGTCTACTAGTG
56766600 GGTGTCGTTTACACACCTGATTTACGAAAATTGCTATCGAAATCTCCCACGATATCCTACAATCG
131 GGTGTCGTTTACACACCTGATTTACGAAAATTGCTATCGAAATCTCCCACGATATCCTACAATCG
56766665 C
196 C
56766666 TCTTACCATTGAAGTTACCAAAATTATCAATACAAACAATCCCACGAGCGTTCGCACGCTCGTAA
1 TCTTACCATTGAAGTTACCAAAATTATCAATACAAACAATCCCACGAGCGTTCGCACGCTCGTAA
56766731 ATTCTCGAAATGCCGGCTTTTTGGCATTTCAGTCTTTCAGCTTTTGCCGATCTAGTCTACTAGTG
66 ATTCTCGAAATGCCGGCTTTTTGGCATTTCAGTCTTTCAGCTTTTGCCGATCTAGTCTACTAGTG
56766796 GGTGTCGTTTACACACCTGATTTACGAAAATTGCTATCGAAATCTCCCACGATATCCTACAATCG
131 GGTGTCGTTTACACACCTGATTTACGAAAATTGCTATCGAAATCTCCCACGATATCCTACAATCG
56766861 C
196 C
56766862 TC
1 TC
56766864 ACTAGACATA
Statistics
Matches: 198, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
196 198 1.00
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (196 bp):
TCTTACCATTGAAGTTACCAAAATTATCAATACAAACAATCCCACGAGCGTTCGCACGCTCGTAA
ATTCTCGAAATGCCGGCTTTTTGGCATTTCAGTCTTTCAGCTTTTGCCGATCTAGTCTACTAGTG
GGTGTCGTTTACACACCTGATTTACGAAAATTGCTATCGAAATCTCCCACGATATCCTACAATCG
C
Found at i:56783580 original size:19 final size:19
Alignment explanation
Indices: 56783548--56783587 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
56783538 TGTTTTTTAC
*
56783548 AAAATAAATCAACTTAAAT
1 AAAATAAATCAACTCAAAT
* *
56783567 AAAATCAATGAACTCAAAT
1 AAAATAAATCAACTCAAAT
56783586 AA
1 AA
56783588 TTTAATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.23
Consensus pattern (19 bp):
AAAATAAATCAACTCAAAT
Found at i:56784146 original size:16 final size:17
Alignment explanation
Indices: 56784125--56784156 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
56784115 AAGAAATCAG
56784125 AAAAAACA-AATAACAC
1 AAAAAACATAATAACAC
56784141 AAAAAACATAATAACA
1 AAAAAACATAATAACA
56784157 AACGTTACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.75, C:0.16, G:0.00, T:0.09
Consensus pattern (17 bp):
AAAAAACATAATAACAC
Found at i:56785971 original size:22 final size:23
Alignment explanation
Indices: 56785938--56785983 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
56785928 TTAAAATGTT
* *
56785938 AAATAAAATTAAGTTTGAAGTAA
1 AAATAAAATTAAATTTGAAATAA
56785961 AAAT-AAATTAAATTTGAAATAA
1 AAATAAAATTAAATTTGAAATAA
56785983 A
1 A
56785984 TTTAGGTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (23 bp):
AAATAAAATTAAATTTGAAATAA
Found at i:56786657 original size:21 final size:21
Alignment explanation
Indices: 56786633--56786675 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
56786623 CTCTCTATGA
56786633 GTACATTGTAAGGTCTGCGAG
1 GTACATTGTAAGGTCTGCGAG
56786654 GTACATTGTAAGGTCTGCGAG
1 GTACATTGTAAGGTCTGCGAG
56786675 G
1 G
56786676 CTCGCTAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.35, T:0.28
Consensus pattern (21 bp):
GTACATTGTAAGGTCTGCGAG
Found at i:56788460 original size:41 final size:42
Alignment explanation
Indices: 56788384--56788462 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 42
56788374 AGCAGGATAT
* * *
56788384 AATGCCGGTGAAATGATATCGGGCTTCAAGCCTAGCAGCCGA
1 AATGCCGGTGAAATGATATCAGACTTAAAGCCTAGCAGCCGA
*
56788426 AATGCCGGTG-AATGAGT-TCAGACTTAAAGTCTAGCAG
1 AATGCCGGTGAAATGA-TATCAGACTTAAAGCCTAGCAG
56788463 GCTTCGTGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 21 0.66
42 11 0.34
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (42 bp):
AATGCCGGTGAAATGATATCAGACTTAAAGCCTAGCAGCCGA
Found at i:56788518 original size:40 final size:41
Alignment explanation
Indices: 56788370--56788517 Score: 138
Period size: 40 Copynumber: 3.6 Consensus size: 41
56788360 AGGGCTTCGG
* *
56788370 GCCTAGCAGGATATAATGCCGGTGAAATG-ATATCGGGCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGGCTTAAA
* * * * *
56788413 GCCTAGCAGCCGAAATGCCGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
* *** *
56788454 GTCTAGCAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
*
56788494 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
56788518 TTTGATAAAA
Statistics
Matches: 81, Mismatches: 22, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
40 31 0.38
41 29 0.36
42 11 0.14
43 10 0.12
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
Found at i:56790612 original size:93 final size:93
Alignment explanation
Indices: 56790500--56790670 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
56790490 GCCCATAAGT
* *
56790500 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56790565 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
56790593 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56790658 CGAGTTCGGATGC
66 CGAGTTCGGATGC
56790671 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:56790667 original size:46 final size:46
Alignment explanation
Indices: 56790492--56790667 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
56790482 TGTAACCCGC
* * *
56790492 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
56790538 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
56790588 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56790631 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56790668 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:56793961 original size:27 final size:27
Alignment explanation
Indices: 56793931--56794108 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
56793921 ATATTGAGCC
* *
56793931 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
56793958 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
56793985 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
56794013 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
56794040 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
56794067 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
56794094 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56794109 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:56794070 original size:82 final size:81
Alignment explanation
Indices: 56793952--56794107 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
56793942 TGCTATATAA
* *
56793952 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
56794017 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
56794034 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
56794098 CACTTAGTGC
65 CACTTAGTGC
56794108 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:56797516 original size:22 final size:19
Alignment explanation
Indices: 56797490--56797532 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 19
56797480 CTTTATCTCT
56797490 TTTGGTCTTGGATTGTTGTTCA
1 TTTGG-CTT-GATT-TTGTTCA
*
56797512 TTTGGCTTTATTTTGTTCA
1 TTTGGCTTGATTTTGTTCA
56797531 TT
1 TT
56797533 CGTTTGGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
20 3 0.15
21 3 0.15
22 5 0.25
ACGTcount: A:0.09, C:0.09, G:0.21, T:0.60
Consensus pattern (19 bp):
TTTGGCTTGATTTTGTTCA
Found at i:56805815 original size:30 final size:30
Alignment explanation
Indices: 56805743--56805817 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
56805733 GTTTTTGACC
* *
56805743 CACACGGCCTGGACACAAAGGTGTTTGGAG
1 CACACGGCCTGGCCACAAAGGTGTGTGGAG
** *
56805773 CACACGGCCTGGCCACATGGGTGTGTGGAT
1 CACACGGCCTGGCCACAAAGGTGTGTGGAG
56805803 CACACGGCCTGGCCA
1 CACACGGCCTGGCCA
56805818 TACGGGCGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.21, C:0.29, G:0.33, T:0.16
Consensus pattern (30 bp):
CACACGGCCTGGCCACAAAGGTGTGTGGAG
Found at i:56805829 original size:30 final size:30
Alignment explanation
Indices: 56805743--56805830 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
56805733 GTTTTTGACC
* ** * *
56805743 CACACGGCCTGGACACAAAGGTGTTTGGAG
1 CACACGGCCTGGCCACACGGGCGTGTGGAG
* * *
56805773 CACACGGCCTGGCCACATGGGTGTGTGGAT
1 CACACGGCCTGGCCACACGGGCGTGTGGAG
*
56805803 CACACGGCCTGGCCATACGGGCGTGTGG
1 CACACGGCCTGGCCACACGGGCGTGTGG
56805831 GATCTCACAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.19, C:0.27, G:0.36, T:0.17
Consensus pattern (30 bp):
CACACGGCCTGGCCACACGGGCGTGTGGAG
Found at i:56806210 original size:8 final size:8
Alignment explanation
Indices: 56806191--56806228 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
56806181 ATTCTTATAC
56806191 TTATATTTT
1 TTATA-TTT
56806200 TTATATTT
1 TTATATTT
56806208 TTATATTT
1 TTATATTT
*
56806216 TAAT-TTT
1 TTATATTT
56806223 TTATAT
1 TTATAT
56806229 ATATTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 6 0.23
8 15 0.58
9 5 0.19
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATATTT
Found at i:56806211 original size:23 final size:23
Alignment explanation
Indices: 56806180--56806228 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
56806170 TTAATTAATT
56806180 TATTCTTATACTTAT-ATTTTTTA
1 TATTCTTATA-TTATAATTTTTTA
* *
56806203 TATTTTTATATTTTAATTTTTTA
1 TATTCTTATATTATAATTTTTTA
56806226 TAT
1 TAT
56806229 ATATTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (23 bp):
TATTCTTATATTATAATTTTTTA
Found at i:56806213 original size:17 final size:17
Alignment explanation
Indices: 56806191--56806241 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 17
56806181 ATTCTTATAC
56806191 TTATATTTTTTATATTT
1 TTATATTTTTTATATTT
*
56806208 TTATA-TTTTAAT-TTT
1 TTATATTTTTTATATTT
56806223 TTATATATATTTTA-ATTT
1 TTATAT-T-TTTTATATTT
56806241 T
1 T
56806242 AATTTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
15 8 0.29
16 6 0.21
17 6 0.21
18 8 0.29
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTATATTTTTTATATTT
Found at i:56806230 original size:25 final size:24
Alignment explanation
Indices: 56806196--56806247 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 24
56806186 TATACTTATA
56806196 TTTTTTATAT-TTTTATATTTTAAT
1 TTTTTTATATATTTTA-ATTTTAAT
56806220 TTTTTATATATATTTTAATTTTAAT
1 TTTTT-TATATATTTTAATTTTAAT
56806245 TTT
1 TTT
56806248 AATTTTGCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 5 0.19
25 16 0.62
26 5 0.19
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTTTATATATTTTAATTTTAAT
Found at i:56807916 original size:26 final size:26
Alignment explanation
Indices: 56807880--56807933 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
56807870 TAAATGTGTG
56807880 ATTATTTTTGAATTATGACAAAACAT
1 ATTATTTTTGAATTATGACAAAACAT
56807906 ATTATTTTTGAATTATGACAAAACAT
1 ATTATTTTTGAATTATGACAAAACAT
56807932 AT
1 AT
56807934 AAGAATTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (26 bp):
ATTATTTTTGAATTATGACAAAACAT
Found at i:56809296 original size:48 final size:48
Alignment explanation
Indices: 56809185--56809547 Score: 223
Period size: 48 Copynumber: 7.6 Consensus size: 48
56809175 TATGTGTGCT
* * *
56809185 AGTGTAAGATATGTCTGGGACATGCATCAGCCAT--AG-TATATGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGAGATATATAAGCC
* * *
56809231 TGTGTAAGACATGTCTGGGATATGCATCGGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATATAAGCC
* * * * ** *
56809279 AGTGTAAGATATGTCTGGGACATGCATCGACATTGAGA-CGAT-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATATAAGCC
* * * *
56809325 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGCGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATATAAGCC
* * * * * * *
56809373 AGTGTAAGACCTGTCTGGGACATGGCGTCAG-CT--TG-T-TGT-GGTTC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATATAAG-CC
* * *
56809417 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-C-A-ATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGC-CTCGAGATATAT-A-AGCC
* * ** **
56809466 AGTGTAAGACCTGTCTGGGACATATCATCGGCCTCGCTATATGGAAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATATAAGCC
* *
56809515 AGTGTAAGACCATGTATGGGATATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
56809548 ATCTTAACCC
Statistics
Matches: 243, Mismatches: 55, Indels: 34
0.73 0.17 0.10
Matches are distributed among these distances:
43 1 0.00
44 29 0.12
45 2 0.01
46 66 0.27
47 5 0.02
48 68 0.28
49 49 0.20
50 20 0.08
51 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATATAAGCC
Found at i:56809334 original size:94 final size:94
Alignment explanation
Indices: 56809185--56809396 Score: 270
Period size: 94 Copynumber: 2.3 Consensus size: 94
56809175 TATGTGTGCT
* * *
56809185 AGTGTAAGATATGTCTGGGACATGCATCAGCCATAGTATATGAGCCTGTGTAAGACATGTCTGGG
1 AGTGTAAGATATGTCTGGGACATGCATCAGACATAGTAGATGAGCCTGTGTAAGACATGTCTAGG
* **
56809250 ATATGCATCGGCCTCGAGATATTTAAGCC
66 ACATGCATCGGCCTCGAGATATACAAGCC
56809279 AGTGTAAGATATGTCTGGGACATGCATC-GACATTGAG-ACGAT-AG-CTAGTGTAAGACATGTC
1 AGTGTAAGATATGTCTGGGACATGCATCAGACA-T-AGTA-GATGAGCCT-GTGTAAGACATGTC
* *
56809340 TAGGACATGCATCGGCCTCGCGATATACAAGCT
62 TAGGACATGCATCGGCCTCGAGATATACAAGCC
**
56809373 AGTGTAAGACCTGTCTGGGACATG
1 AGTGTAAGATATGTCTGGGACATG
56809397 GCGTCAGCTT
Statistics
Matches: 104, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
93 5 0.05
94 95 0.91
95 4 0.04
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26
Consensus pattern (94 bp):
AGTGTAAGATATGTCTGGGACATGCATCAGACATAGTAGATGAGCCTGTGTAAGACATGTCTAGG
ACATGCATCGGCCTCGAGATATACAAGCC
Found at i:56809488 original size:49 final size:49
Alignment explanation
Indices: 56809416--56809545 Score: 147
Period size: 49 Copynumber: 2.6 Consensus size: 49
56809406 TGTTGTGGTT
56809416 CAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CAATAGAT-GAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCAATAGATGGA-AGC
** * ** *
56809465 CAGTGTAAGACCTGTCTGGGACATATCATCGGCCTCGCTATATGGAAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGGAAGC
* *
56809514 CAGTGTAAGACCATGTATGGGATATGGCATCG
1 CAGTGTAAGACC-TGTCTGGGACATGGCATCG
56809546 GCATCTTAAC
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
48 1 0.01
49 50 0.74
50 17 0.25
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGGAAGC
Found at i:56810438 original size:83 final size:83
Alignment explanation
Indices: 56810299--56810469 Score: 288
Period size: 83 Copynumber: 2.1 Consensus size: 83
56810289 CAGGTAGATA
* *
56810299 CACGGTCAGTTCCACGGGCGTGTGGTTCGACCGTGTGTCCCCTGCATATAAAAATTGCAAGTCAG
1 CACGGTCAGTTCCACGGGCGAGTGGATCGACCGTGTGTCCCCTGCATATAAAAATTGCAAGTCAG
56810364 AATGCATGGTAGTAAACG
66 AATGCATGGTAGTAAACG
* * * *
56810382 CACGGTTAGTTCCACGGGTGAGTGGATCGGCCGTGTGTCCCCTGCATGTAAAAATTGCAAGTCAG
1 CACGGTCAGTTCCACGGGCGAGTGGATCGACCGTGTGTCCCCTGCATATAAAAATTGCAAGTCAG
56810447 AATGCATGGTAGTAAACG
66 AATGCATGGTAGTAAACG
56810465 CACGG
1 CACGG
56810470 GCAGAGACAC
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.23
Consensus pattern (83 bp):
CACGGTCAGTTCCACGGGCGAGTGGATCGACCGTGTGTCCCCTGCATATAAAAATTGCAAGTCAG
AATGCATGGTAGTAAACG
Found at i:56810498 original size:83 final size:83
Alignment explanation
Indices: 56810329--56810501 Score: 222
Period size: 83 Copynumber: 2.1 Consensus size: 83
56810319 TGTGGTTCGA
** ***
56810329 CCGTGTGTCCCCTGCATATAAAAATTGCAAGTCAGAATGCATGGTAGTAAACGCACGGTTAGTTC
1 CCGTGTGTCCCCTGCATATAAAAATTGCAAGTCAGAATGCATGGTAGTAAACGCACGGGCAGAGA
* ** *
56810394 CACGGGTGAGTGGATCGG
66 CACGAGCCAGTGGATCAG
*
56810412 CCGTGTGTCCCCTGCATGTAAAAATTGCAAGTCAGAATGCATGGTAGTAAACGCACGGGCAGAGA
1 CCGTGTGTCCCCTGCATATAAAAATTGCAAGTCAGAATGCATGGTAGTAAACGCACGGGCAGAGA
**
56810477 CAC-AGCCATGTGTCTCAG
66 CACGAGCCA-GTGGATCAG
56810495 CCGTGTG
1 CCGTGTG
56810502 GAGGACACGG
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
82 2 0.03
83 75 0.97
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (83 bp):
CCGTGTGTCCCCTGCATATAAAAATTGCAAGTCAGAATGCATGGTAGTAAACGCACGGGCAGAGA
CACGAGCCAGTGGATCAG
Found at i:56817946 original size:40 final size:40
Alignment explanation
Indices: 56817863--56818245 Score: 565
Period size: 40 Copynumber: 9.6 Consensus size: 40
56817853 TTGAATGCTG
* * * * * *
56817863 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
56817903 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
56817943 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
56817983 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
56818023 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
56818063 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
56818103 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
56818143 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
56818183 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
56818222 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
56818246 TGAACGAGGA
Statistics
Matches: 321, Mismatches: 19, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
39 35 0.11
40 278 0.87
41 8 0.02
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:56825286 original size:40 final size:40
Alignment explanation
Indices: 56825203--56825505 Score: 405
Period size: 40 Copynumber: 7.6 Consensus size: 40
56825193 TTGAATGCTG
* * * * * *
56825203 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
56825243 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
56825283 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
56825323 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
56825363 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
56825403 TCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
56825443 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
56825482 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
56825506 TGAACGAGGA
Statistics
Matches: 243, Mismatches: 17, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
39 37 0.15
40 198 0.81
41 8 0.03
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:56849054 original size:27 final size:27
Alignment explanation
Indices: 56849024--56849114 Score: 92
Period size: 27 Copynumber: 3.4 Consensus size: 27
56849014 GGCGAACTAA
56849024 TATACGCCAATAGGTCTGGCAAGATGG
1 TATACGCCAATAGGTCTGGCAAGATGG
** * * * *
56849051 TATAATCCAACAAGTCAGGCAAGATAG
1 TATACGCCAATAGGTCTGGCAAGATGG
* ** *
56849078 TATATGCCAATAGGTCTACCGAGATGG
1 TATACGCCAATAGGTCTGGCAAGATGG
56849105 TATACGCCAA
1 TATACGCCAA
56849115 CAAGATTGAC
Statistics
Matches: 48, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (27 bp):
TATACGCCAATAGGTCTGGCAAGATGG
Found at i:56850605 original size:27 final size:27
Alignment explanation
Indices: 56850575--56850665 Score: 92
Period size: 27 Copynumber: 3.4 Consensus size: 27
56850565 GGCGAACTAA
56850575 TATACGCCAATAGGTCTGGCAAGATGG
1 TATACGCCAATAGGTCTGGCAAGATGG
** * * * *
56850602 TATAATCCAACAAGTCAGGCAAGATAG
1 TATACGCCAATAGGTCTGGCAAGATGG
* ** *
56850629 TATATGCCAATAGGTCTACCGAGATGG
1 TATACGCCAATAGGTCTGGCAAGATGG
56850656 TATACGCCAA
1 TATACGCCAA
56850666 CAAGATTGAC
Statistics
Matches: 48, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (27 bp):
TATACGCCAATAGGTCTGGCAAGATGG
Found at i:56855070 original size:40 final size:40
Alignment explanation
Indices: 56855005--56855191 Score: 257
Period size: 40 Copynumber: 4.7 Consensus size: 40
56854995 CAATTGAAAA
* *
56855005 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGAGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
56855045 TTATTTTCAAGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGAGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
56855085 TTATTTCCGAGTTACGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGAGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
56855125 CTATTTCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATTTCCGAGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
** * * *
56855165 TTACATCCGGGCTAAATCCCGAAGGCA
1 TTATTTCCGAGTTAAGTCCCGAAGGCA
56855192 ATTGGGTTGG
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 131 1.00
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.33
Consensus pattern (40 bp):
TTATTTCCGAGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:56860368 original size:6 final size:6
Alignment explanation
Indices: 56860351--56860394 Score: 79
Period size: 6 Copynumber: 7.2 Consensus size: 6
56860341 ATAAGTCTTC
56860351 AATAATA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA A
1 AATAA-A AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA A
56860395 GGACTCAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 32 0.86
7 5 0.14
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:56876881 original size:27 final size:27
Alignment explanation
Indices: 56876850--56877027 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
56876840 TAAATTGTAC
56876850 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
56876877 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56876903 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
56876931 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
56876959 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56876986 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
56877013 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56877028 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:56876964 original size:82 final size:81
Alignment explanation
Indices: 56876851--56877006 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
56876841 AAATTGTACA
* *
56876851 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
56876915 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
56876932 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
56876997 TGCGAGTTGA
65 TGCGAATTGA
56877007 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:56877018 original size:82 final size:81
Alignment explanation
Indices: 56876847--56877027 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
56876837 GATTAAATTG
* *
56876847 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
56876912 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
56876928 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
56876992 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
56877010 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56877028 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:56897292 original size:43 final size:43
Alignment explanation
Indices: 56897235--56897349 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 43
56897225 CAATGCCATA
* * * * **
56897235 TCCCAGATATGGTCTTACATGTTATCACATATCGATGCCTCTG
1 TCCCAGACAGGGTCTTACATGTAATCACATATCGACGCCAATG
* * *
56897278 TCCTAGACAGGGTCTTACACGTAATCTCATATCGACGCCAATG
1 TCCCAGACAGGGTCTTACATGTAATCACATATCGACGCCAATG
* * *
56897321 TCCCAGACATGGTGTTACATGAAATCACA
1 TCCCAGACAGGGTCTTACATGTAATCACA
56897350 CCTCGGAAGC
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (43 bp):
TCCCAGACAGGGTCTTACATGTAATCACATATCGACGCCAATG
Found at i:56905727 original size:197 final size:197
Alignment explanation
Indices: 56905392--56905785 Score: 788
Period size: 197 Copynumber: 2.0 Consensus size: 197
56905382 TCGATGACAA
56905392 AGCTATTGCAAAAAGATGTTAAGTTCGAGTGGTCAGAGAAGTGCCAGAAAAGCTTTGATCAATTG
1 AGCTATTGCAAAAAGATGTTAAGTTCGAGTGGTCAGAGAAGTGCCAGAAAAGCTTTGATCAATTG
56905457 AAAGCCTTTTTGACTAAAGCTCTAGTGCTAGTTTAGACAGAACAGGGTAAAGAATTTGTTATTTA
66 AAAGCCTTTTTGACTAAAGCTCTAGTGCTAGTTTAGACAGAACAGGGTAAAGAATTTGTTATTTA
56905522 TAGTGATGCATCTTTAAATGGTTTGGGCTGCATTTTGATGCAGGAAGGCAGAGTGATAGCTTATG
131 TAGTGATGCATCTTTAAATGGTTTGGGCTGCATTTTGATGCAGGAAGGCAGAGTGATAGCTTATG
56905587 CT
196 CT
56905589 AGCTATTGCAAAAAGATGTTAAGTTCGAGTGGTCAGAGAAGTGCCAGAAAAGCTTTGATCAATTG
1 AGCTATTGCAAAAAGATGTTAAGTTCGAGTGGTCAGAGAAGTGCCAGAAAAGCTTTGATCAATTG
56905654 AAAGCCTTTTTGACTAAAGCTCTAGTGCTAGTTTAGACAGAACAGGGTAAAGAATTTGTTATTTA
66 AAAGCCTTTTTGACTAAAGCTCTAGTGCTAGTTTAGACAGAACAGGGTAAAGAATTTGTTATTTA
56905719 TAGTGATGCATCTTTAAATGGTTTGGGCTGCATTTTGATGCAGGAAGGCAGAGTGATAGCTTATG
131 TAGTGATGCATCTTTAAATGGTTTGGGCTGCATTTTGATGCAGGAAGGCAGAGTGATAGCTTATG
56905784 CT
196 CT
56905786 TCGAGACAGT
Statistics
Matches: 197, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
197 197 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (197 bp):
AGCTATTGCAAAAAGATGTTAAGTTCGAGTGGTCAGAGAAGTGCCAGAAAAGCTTTGATCAATTG
AAAGCCTTTTTGACTAAAGCTCTAGTGCTAGTTTAGACAGAACAGGGTAAAGAATTTGTTATTTA
TAGTGATGCATCTTTAAATGGTTTGGGCTGCATTTTGATGCAGGAAGGCAGAGTGATAGCTTATG
CT
Found at i:56906580 original size:25 final size:25
Alignment explanation
Indices: 56906546--56906596 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
56906536 CTTCGCTCAA
*
56906546 TTTCCCTTCAGGAGTTTTGAGTTTT
1 TTTCCCTTCAGGAGTTTTGAGGTTT
56906571 TTTCCCTTCAGGAGTTTTGAGGTTT
1 TTTCCCTTCAGGAGTTTTGAGGTTT
56906596 T
1 T
56906597 CTTTATGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.51
Consensus pattern (25 bp):
TTTCCCTTCAGGAGTTTTGAGGTTT
Found at i:56906884 original size:42 final size:42
Alignment explanation
Indices: 56906824--56906916 Score: 177
Period size: 42 Copynumber: 2.2 Consensus size: 42
56906814 AATAGACCCT
56906824 ATCTAAGAGTAAATTTGTCATAATTAAGCGGGGTTGGTTGCAC
1 ATCT-AGAGTAAATTTGTCATAATTAAGCGGGGTTGGTTGCAC
56906867 ATCTAGAGTAAATTTGTCATAATTAAGCGGGGTTGGTTGCAC
1 ATCTAGAGTAAATTTGTCATAATTAAGCGGGGTTGGTTGCAC
56906909 ATCTAGAG
1 ATCTAGAG
56906917 ATAGGGTGAC
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 46 0.92
43 4 0.08
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (42 bp):
ATCTAGAGTAAATTTGTCATAATTAAGCGGGGTTGGTTGCAC
Found at i:56913289 original size:200 final size:200
Alignment explanation
Indices: 56912946--56913345 Score: 791
Period size: 200 Copynumber: 2.0 Consensus size: 200
56912936 TAATAAACCT
*
56912946 CTACCACCACCGGAGTGTCCTCCTCCACCCTCACGCTGATTATTCTCCAAAACTCCAGTTCAAGG
1 CTACCACCACCGGAGTATCCTCCTCCACCCTCACGCTGATTATTCTCCAAAACTCCAGTTCAAGG
56913011 AAATTCATTCATCACTCAAGAAGTTTCGCTTCTCTCCCTATCTTATATTTATATTTTTTTCTATA
66 AAATTCATTCATCACTCAAGAAGTTTCGCTTCTCTCCCTATCTTATATTTATATTTTTTTCTATA
56913076 TATCCATCTTTGTATATTGAGGGCAATGTACATCTTAAGTGTGGGGGGTATTCATTTCACTATTA
131 TATCCATCTTTGTATATTGAGGGCAATGTACATCTTAAGTGTGGGGGGTATTCATTTCACTATTA
56913141 GAAAA
196 GAAAA
56913146 CTACCACCACCGGAGTATCCTCCTCCACCCTCACGCTGATTATTCTCCAAAACTCCAGTTCAAGG
1 CTACCACCACCGGAGTATCCTCCTCCACCCTCACGCTGATTATTCTCCAAAACTCCAGTTCAAGG
56913211 AAATTCATTCATCACTCAAGAAGTTTCGCTTCTCTCCCTATCTTATATTTATATTTTTTTCTATA
66 AAATTCATTCATCACTCAAGAAGTTTCGCTTCTCTCCCTATCTTATATTTATATTTTTTTCTATA
56913276 TATCCATCTTTGTATATTGAGGGCAATGTACATCTTAAGTGTGGGGGGTATTCATTTCACTATTA
131 TATCCATCTTTGTATATTGAGGGCAATGTACATCTTAAGTGTGGGGGGTATTCATTTCACTATTA
56913341 GAAAA
196 GAAAA
56913346 ATCCCTGAAT
Statistics
Matches: 199, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 199 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.36
Consensus pattern (200 bp):
CTACCACCACCGGAGTATCCTCCTCCACCCTCACGCTGATTATTCTCCAAAACTCCAGTTCAAGG
AAATTCATTCATCACTCAAGAAGTTTCGCTTCTCTCCCTATCTTATATTTATATTTTTTTCTATA
TATCCATCTTTGTATATTGAGGGCAATGTACATCTTAAGTGTGGGGGGTATTCATTTCACTATTA
GAAAA
Found at i:56915164 original size:40 final size:40
Alignment explanation
Indices: 56915120--56915343 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
56915110 GCTACTCGTT
* * *
56915120 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
56915160 CAAATGCCTTCGCGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
56915200 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
56915240 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * *
56915279 CAAATGCCTT-TGGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGAT-TTAGTAAC-TCGCA
*
56915320 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
56915344 CAGCATTCAA
Statistics
Matches: 162, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
38 2 0.01
39 47 0.29
40 104 0.64
41 9 0.06
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:56915304 original size:79 final size:80
Alignment explanation
Indices: 56915120--56915343 Score: 253
Period size: 79 Copynumber: 2.8 Consensus size: 80
56915110 GCTACTCGTT
* * * * * *
56915120 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAATTCGCACAAATGCCTTCGCGACTTAACCCG
1 CAAATGCCTTCGGGACTTAACCCGGATATTAGTAACTCGCACAAATGCCTTCG-GGCTTAGCCCG
*
56915184 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
56915200 CAAATGCCTTCGGGACTTAACCCGGAT-TTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGG
*
56915264 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* ** * *
56915279 CAAATGCCTT-TGGATCTTAGTCCGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATATTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCC
56915340 CGGA
63 CGGA
56915344 CAGCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 12 0.10
79 60 0.48
80 54 0.43
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGATATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGG
AATTAGTAACTCGCA
Found at i:56924709 original size:7 final size:7
Alignment explanation
Indices: 56924697--56924737 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
56924687 TCTTATGCAT
56924697 CCTAAAG
1 CCTAAAG
56924704 CCTAAAG
1 CCTAAAG
56924711 CCTAAAG
1 CCTAAAG
56924718 CCTAAAG
1 CCTAAAG
56924725 CCTAAAG
1 CCTAAAG
56924732 CCTAAA
1 CCTAAA
56924738 CCCCATAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.44, C:0.29, G:0.12, T:0.15
Consensus pattern (7 bp):
CCTAAAG
Found at i:56925674 original size:21 final size:21
Alignment explanation
Indices: 56925624--56925667 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
56925614 ATAGGTAAAC
56925624 TTGCCTTCATCATGATAATAG
1 TTGCCTTCATCATGATAATAG
56925645 TTGCCTTCATCATGATAATAG
1 TTGCCTTCATCATGATAATAG
56925666 TT
1 TT
56925668 AGCTTCAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (21 bp):
TTGCCTTCATCATGATAATAG
Found at i:56928659 original size:43 final size:43
Alignment explanation
Indices: 56928596--56928683 Score: 110
Period size: 43 Copynumber: 2.0 Consensus size: 43
56928586 TTTGTGATTC
* *
56928596 TGATATGTGTTTACGAGTAAGGCC-CTGTCTGGGACAG-TGGCAT
1 TGATATGTGGTTACGAGTAAGACCAC-GTCTGGGAC-GTTGGCAT
56928639 TGATATGTGGTTAC-ATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGATATGTGGTTACGA-GTAAGACCACGTCTGGGACGTTGGCAT
56928682 TG
1 TG
56928684 TACAATTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
42 2 0.05
43 37 0.93
44 1 0.03
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.31
Consensus pattern (43 bp):
TGATATGTGGTTACGAGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:56930446 original size:16 final size:16
Alignment explanation
Indices: 56930425--56930455 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56930415 ATAAATTTGA
56930425 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
56930441 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
56930456 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:56936719 original size:8 final size:8
Alignment explanation
Indices: 56936706--56936737 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
56936696 CTAGATCGGC
56936706 AAAAGCCG
1 AAAAGCCG
56936714 AAAAGCCG
1 AAAAGCCG
*
56936722 AAATGCCG
1 AAAAGCCG
56936730 AAAAGCCG
1 AAAAGCCG
56936738 GTATTTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:56937016 original size:28 final size:28
Alignment explanation
Indices: 56936976--56937032 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
56936966 ATAGTTAGAT
*
56936976 TTACTATAATACCCCTATGTATGCAAAA
1 TTACCATAATACCCCTATGTATGCAAAA
56937004 TTACCATAATACCCCTATGTATGCAAAA
1 TTACCATAATACCCCTATGTATGCAAAA
56937032 T
1 T
56937033 GACCTTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.32
Consensus pattern (28 bp):
TTACCATAATACCCCTATGTATGCAAAA
Found at i:56937043 original size:28 final size:28
Alignment explanation
Indices: 56936981--56937045 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
56936971 TAGATTTACT
*
56936981 ATAATACCCCTATGTATGCAAAATTACC
1 ATAATACCCCTATGTATGCAAAATGACC
56937009 ATAATACCCCTATGTATGCAAAATGACC
1 ATAATACCCCTATGTATGCAAAATGACC
* *
56937037 TTTATACCC
1 ATAATACCC
56937046 TTAGAGTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.37, C:0.26, G:0.08, T:0.29
Consensus pattern (28 bp):
ATAATACCCCTATGTATGCAAAATGACC
Found at i:56937196 original size:28 final size:27
Alignment explanation
Indices: 56937155--56937244 Score: 92
Period size: 28 Copynumber: 3.2 Consensus size: 27
56937145 AGGAAGCGTC
*
56937155 CTGGTGGCTA-TGCCACAAATTATTTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* * *
56937183 CTGGTGGCCCTGCCACATATACCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
*
56937210 CTGGTGGCACTACCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
56937239 CTGGTG
1 CTGGTG
56937245 ACTCTATCAC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 20 0.39
28 24 0.47
29 7 0.14
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:56937217 original size:27 final size:28
Alignment explanation
Indices: 56937179--56937244 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 28
56937169 ACAAATTATT
* * *
56937179 TGTTCTGGTGGCCCTGCCAC-ATATACC
1 TGTTCTGGTGGCACTACCACAAAATACC
*
56937206 TGTTCTGGTGGCACTACCACAAAATATC
1 TGTTCTGGTGGCACTACCACAAAATACC
56937234 TGTATCTGGTG
1 TGT-TCTGGTG
56937245 ACTCTATCAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 18 0.55
28 8 0.24
29 7 0.21
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.32
Consensus pattern (28 bp):
TGTTCTGGTGGCACTACCACAAAATACC
Found at i:56945498 original size:28 final size:28
Alignment explanation
Indices: 56945458--56945523 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
56945448 ATGTACTATT
*
56945458 ATACCCCTATGTATGCAAAATTACCGTA
1 ATACCCCTATGTATGCAAAATGACCGTA
* *
56945486 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCGTA
56945514 ATACCCCTAT
1 ATACCCCTAT
56945524 AGTTAATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.33, C:0.27, G:0.09, T:0.30
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCGTA
Found at i:56945687 original size:27 final size:27
Alignment explanation
Indices: 56945629--56945718 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
56945619 AGGAAGCGTC
56945629 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
56945657 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
56945684 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
56945713 CTGGTG
1 CTGGTG
56945719 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:56945737 original size:55 final size:56
Alignment explanation
Indices: 56945629--56945743 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
56945619 AGGAAGCGTC
* *
56945629 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
56945684 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
56945740 CTGG
1 CTGG
56945744 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:56952275 original size:27 final size:27
Alignment explanation
Indices: 56952232--56952444 Score: 230
Period size: 27 Copynumber: 7.9 Consensus size: 27
56952222 AACATGTCAA
*
56952232 GAAAGAAAAAGCCTTTGTGATGAACTCT
1 GAAAG-AAAAGCCTTTGTGGTGAACTCT
* **
56952260 GAAAGAAAAACCTTTGTGGCAAACTCT
1 GAAAGAAAAGCCTTTGTGGTGAACTCT
* *
56952287 AAAAGAAAAGTCC-TTGTGGCGAACTCT
1 GAAAGAAAAG-CCTTTGTGGTGAACTCT
* * * *
56952314 AAAAGAAAAGCCTTTTTGATGAACTTT
1 GAAAGAAAAGCCTTTGTGGTGAACTCT
* * *
56952341 AAAAGAAAAGCCTTTGTGCTGAATTCT
1 GAAAGAAAAGCCTTTGTGGTGAACTCT
* * *
56952368 GAAAGAAGAGCCTTTATGGTGAACTTT
1 GAAAGAAAAGCCTTTGTGGTGAACTCT
* *
56952395 GAAAGAAAAGCCTTTGTGGCGAACTTT
1 GAAAGAAAAGCCTTTGTGGTGAACTCT
*
56952422 GAAAGAAGAGCCTTTGTGGTGAA
1 GAAAGAAAAGCCTTTGTGGTGAA
56952445 ATTTGGATGG
Statistics
Matches: 157, Mismatches: 26, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
26 2 0.01
27 148 0.94
28 7 0.04
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTGTGGTGAACTCT
Found at i:56955623 original size:39 final size:39
Alignment explanation
Indices: 56955579--56955699 Score: 224
Period size: 39 Copynumber: 3.1 Consensus size: 39
56955569 AATTATATTA
*
56955579 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
56955618 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
56955657 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
56955696 CCAG
1 CCAG
56955700 TGTCTTGCTT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.23, C:0.31, G:0.25, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Done.