Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 34 of 135
Found at i:13587859 original size:31 final size:31
Alignment explanation
Indices: 13587824--13587885 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
13587814 GAAATGGGCA
13587824 TGTGTCTGAACATCATTATTTAATGGAATAT
1 TGTGTCTGAACATCATTATTTAATGGAATAT
13587855 TGTGTCTGAACATCATTATTTAATGGAATAT
1 TGTGTCTGAACATCATTATTTAATGGAATAT
13587886 ATCTTTGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
TGTGTCTGAACATCATTATTTAATGGAATAT
Found at i:13593044 original size:92 final size:87
Alignment explanation
Indices: 13592929--13593098 Score: 207
Period size: 87 Copynumber: 1.9 Consensus size: 87
13592919 GATAGCGAAT
* * * * *
13592929 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAACTATAGATTACAGATCTTATC-CCACTGA
1 CTTATCTCCCTAAAGTTGCAGTGGAACAGATT-AAA-AATA-AAT-CA-ATCTTATCTCC-CAGA
13592993 AGTTGCAGTAGAGCAGATTATATCAAAC
60 AGTTGCAGTAGAGCAGATTATATCAAAC
* *
13593021 CTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAATCTTATCTCCCAGAAGTTGC
1 CTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAAATAAATCAATCTTATCTCCCAGAAGTTGC
*
13593086 AGTGGAGCAGATT
66 AGTAGAGCAGATT
13593099 GAAGACGGGT
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
87 29 0.42
88 4 0.06
89 2 0.03
90 3 0.04
91 3 0.04
92 28 0.41
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (87 bp):
CTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAAATAAATCAATCTTATCTCCCAGAAGTTGC
AGTAGAGCAGATTATATCAAAC
Found at i:13593252 original size:88 final size:87
Alignment explanation
Indices: 13592973--13593312 Score: 294
Period size: 88 Copynumber: 3.8 Consensus size: 87
13592963 AACTATAGAT
* * **
13592973 TACAGATCTTATC-CCACTGAAGTTGCAGTAGAGCAGATT-ATA-T-CAAACCTTATCTCCCTAA
1 TACA-ATCTTATCTCC-CTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGTCTTATCTCCCTAA
* * *
13593034 AGTTGCAGTGGAGCAGGTTAAAAA
64 AGTTGCAATGGAGCAGGTTGAAGA
* *
13593058 TAAATCAATCTTATCTCCCAGAAGTTGCAGTGGAGCAGATTGAAGACGGGTTACAAATCTTATCT
1 T--A-CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-A----TTACAAGTCTTATCT
* * * * *
13593123 CCCTGAAGTTGTAGTGGAGCAGATGGAAGCCA
58 CCCTAAAGTTGCAATGGAGCAGGTTGAAG--A
* * * * * * *
13593155 TA-AACCTTATCCCCCTGAAATTGCAATGGGGCAGGTTGAAATTACAAGTCTTATCTCCCCAAAG
1 TACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGTCTTATCTCCCTAAAG
13593219 TTGCAATGGAGCAGGTTGAAGA
66 TTGCAATGGAGCAGGTTGAAGA
* * ** *
13593241 TACCAATCTTATCTCCCTGAAGTTGCGGTGGAGCAGATTGAAGTTATTAGTCCTATCTCCCTAAA
1 TA-CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGTCTTATCTCCCTAAA
13593306 GTTGCAA
65 GTTGCAA
13593313 AAGAGTGGAT
Statistics
Matches: 203, Mismatches: 36, Indels: 29
0.76 0.13 0.11
Matches are distributed among these distances:
85 1 0.00
86 3 0.01
87 30 0.15
88 98 0.48
89 1 0.00
92 1 0.00
93 31 0.15
94 1 0.00
95 35 0.17
97 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (87 bp):
TACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGTCTTATCTCCCTAAAG
TTGCAATGGAGCAGGTTGAAGA
Found at i:13593298 original size:44 final size:44
Alignment explanation
Indices: 13593023--13593312 Score: 170
Period size: 44 Copynumber: 6.4 Consensus size: 44
13593013 TATCAAACCT
* * * * * * * *
13593023 TATCTCCCTAAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAATCT
1 TATCTCCCTGAAGTTGCAATGGAGCAGATT-GAAGTTACT-AATCC
* * * *
13593069 TATCTCCCAGAAGTTGCAGTGGAGCAGATTGAAGACGGGTTACAAATCT
1 TATCTCCCTGAAGTTGCAATGGAGCAGATTG-A-A---GTTACTAATCC
* * * ** *
13593118 TATCTCCCTGAAGTTGTAGTGGAGCAGATGGAAGCCA-TAAACC
1 TATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGTTACTAATCC
* * * * * *
13593161 TTATCCCCCTGAAATTGCAATGGGGCAGGTTGAAATTAC-AAGTCT
1 -TATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGTTACTAA-TCC
** * * * *
13593206 TATCTCCCCAAAGTTGCAATGGAGCAGGTTGAAGATACCAATCT
1 TATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGTTACTAATCC
** * *
13593250 TATCTCCCTGAAGTTGCGGTGGAGCAGATTGAAGTTATTAGTCC
1 TATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGTTACTAATCC
*
13593294 TATCTCCCTAAAGTTGCAA
1 TATCTCCCTGAAGTTGCAA
13593313 AAGAGTGGAT
Statistics
Matches: 187, Mismatches: 48, Indels: 20
0.73 0.19 0.08
Matches are distributed among these distances:
43 3 0.02
44 115 0.61
45 3 0.02
46 28 0.15
47 2 0.01
48 1 0.01
49 33 0.18
50 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGTTACTAATCC
Found at i:13593311 original size:132 final size:135
Alignment explanation
Indices: 13593017--13593312 Score: 336
Period size: 132 Copynumber: 2.2 Consensus size: 135
13593007 AGATTATATC
*
13593017 AAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTAAAAATAAATCAATCTTATCTCCCAGAAG
1 AAACCTTATCTCCCTAAAGTTGCAATGGAGCAGGTTAAAAATAAATCAATCTTATCTCCCAGAAG
* *
13593082 TTGCAGTGGAGCAGATTGAAGACGGGTTACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGAT
66 TTGCAATGGAGCAGATTGAAGA---G-TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
13593147 GGAAGCCAT
127 GGAAGCCAT
* * * *
13593156 AAACCTTATCCCCCTGAAA-TTGCAATGGGGCAGGTT-GAAAT-TA-CAAGTCTTATCTCCCCA-
1 AAACCTTATCTCCCT-AAAGTTGCAATGGAGCAGGTTAAAAATAAATCAA-TCTTATCT-CCCAG
* * * *
13593216 AAGTTGCAATGGAGCAGGTTGAAGA-TACCAATCTTATCTCCCTGAAGTTGCGGTGGAGCAGATT
63 AAGTTGCAATGGAGCAGATTGAAGAGTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATG
**
13593280 GAAGTTATT
128 GAAGCCA-T
**
13593289 AGTCC-TATCTCCCTAAAGTTGCAA
1 AAACCTTATCTCCCTAAAGTTGCAA
13593313 AAGAGTGGAT
Statistics
Matches: 136, Mismatches: 16, Indels: 17
0.80 0.09 0.10
Matches are distributed among these distances:
131 3 0.02
132 54 0.40
133 4 0.03
136 3 0.02
137 32 0.24
138 8 0.06
139 29 0.21
140 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (135 bp):
AAACCTTATCTCCCTAAAGTTGCAATGGAGCAGGTTAAAAATAAATCAATCTTATCTCCCAGAAG
TTGCAATGGAGCAGATTGAAGAGTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATGGAA
GCCAT
Found at i:13594445 original size:23 final size:23
Alignment explanation
Indices: 13594396--13594445 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
13594386 GAGCTTGGTT
* *
13594396 GTAATATCCCGAAAATTACTACT
1 GTAATACCCCGAAAATTACTACA
* *
13594419 GTAATACCCCGAAAGTTATTACA
1 GTAATACCCCGAAAATTACTACA
13594442 GTAA
1 GTAA
13594446 GAAAGTAGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (23 bp):
GTAATACCCCGAAAATTACTACA
Found at i:13597386 original size:23 final size:23
Alignment explanation
Indices: 13597355--13597407 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
13597345 TTTTGTTATG
* *
13597355 TATATATATGCATGCATATATTTT
1 TATA-ATATACATACATATATTTT
* *
13597379 TATAATATACGTACATATTTTTT
1 TATAATATACATACATATATTTT
13597402 TATAAT
1 TATAAT
13597408 TTATATATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.51
Consensus pattern (23 bp):
TATAATATACATACATATATTTT
Found at i:13597414 original size:2 final size:2
Alignment explanation
Indices: 13597409--13597484 Score: 52
Period size: 2 Copynumber: 39.5 Consensus size: 2
13597399 TTTTATAATT
* * *
13597409 TA TA TA TA TA CA TA CT- TA TA TA TA TA TT TA T- TA TA TC T- TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
13597449 TA -A TT TA TA TA TA TA TA TA TA TG TA CA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13597485 CTTTTTGCAT
Statistics
Matches: 56, Mismatches: 13, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
1 4 0.07
2 51 0.91
3 1 0.02
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13597420 original size:27 final size:27
Alignment explanation
Indices: 13597402--13597484 Score: 73
Period size: 27 Copynumber: 3.0 Consensus size: 27
13597392 CATATTTTTT
13597402 TATA-ATTTATATATATACATACTTATA
1 TATATATTTAT-TATATACATACTTATA
*
13597429 TATATATTTATTATAT-CTTATAATT-TA
1 TATATATTTATTATATAC--ATACTTATA
* * *
13597456 TATATATATATATATGTACATACATATA
1 TATATATTTAT-TATATACATACTTATA
13597484 T
1 T
13597485 CTTTTTGCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
26 1 0.02
27 25 0.56
28 18 0.40
29 1 0.02
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.51
Consensus pattern (27 bp):
TATATATTTATTATATACATACTTATA
Found at i:13597984 original size:72 final size:73
Alignment explanation
Indices: 13597867--13598009 Score: 243
Period size: 72 Copynumber: 2.0 Consensus size: 73
13597857 TCATTTCAAA
* *
13597867 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGA-TCC
1 CTCAAGTTTTAAACGATCTCGAGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATTCC
13597931 TTTTTTTT
66 TTTTTTTT
* *
13597939 CTCAAGTTTTAAATGATCTCGAGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGTATGATTCC
1 CTCAAGTTTTAAACGATCTCGAGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATTCC
13598004 TTTTTT
66 TTTTTT
13598010 AAATCCGAGA
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
72 57 0.86
73 9 0.14
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (73 bp):
CTCAAGTTTTAAACGATCTCGAGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATTCC
TTTTTTTT
Found at i:13598555 original size:18 final size:20
Alignment explanation
Indices: 13598516--13598555 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
13598506 CTAAATCTTT
13598516 ATTTTAATACTTTATATATAC
1 ATTTTAATA-TTTATATATAC
13598537 ATTTTAAT-TTTAT-TATAC
1 ATTTTAATATTTATATATAC
13598555 A
1 A
13598556 CAATTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
19 5 0.26
21 8 0.42
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTAATATTTATATATAC
Found at i:13598561 original size:21 final size:20
Alignment explanation
Indices: 13598516--13598568 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
13598506 CTAAATCTTT
*
13598516 ATTTTAATACTTTATATATAC
1 ATTTTAATA-TTTATATACAC
13598537 ATTTTAAT-TTTATTATACAC
1 ATTTTAATATTTA-TATACAC
* *
13598557 AATTTATTATTT
1 ATTTTAATATTT
13598569 TTATCAATCG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 4 0.15
20 12 0.44
21 11 0.41
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTTAATATTTATATACAC
Found at i:13606077 original size:19 final size:19
Alignment explanation
Indices: 13606053--13606108 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
13606043 AATTTTTGAG
13606053 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
13606072 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
**
13606091 GATATATAATCTTAGATA
1 GATATGCAATCTTAGATA
13606109 CGATTTTGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:13614592 original size:44 final size:44
Alignment explanation
Indices: 13614524--13614929 Score: 331
Period size: 44 Copynumber: 9.2 Consensus size: 44
13614514 NNNNNNATCC
* *
13614524 TGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGTAGATCT
1 TGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATGCAGATCT
* * * * * * *
13614568 TGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAAATAT
1 TGTCTTCCTATATTGGTAGCGAAGTAGATCGAAG-ATGCAGATCT
* * * * *
13614613 TGTCTTCATGTATT-G-ACGTGAAGTAGATCAAAGATAGCATG-TCC
1 TGTCTTCCTATATTGGTA-GCGAAGTAGATCGAAGAT-GCA-GATCT
*
13614657 TGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCT
1 TGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATGCAGATCT
* * * * *
13614700 TATCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCT
1 TGTCTTCCTATATTGGTAGCGAAGTAGATCGAAG-ATGCAGATCT
* * * * * * *
13614745 TGTCTTCATTTATTGG-CGTGAAGTAGATCGAAAATAGCAGGTCC
1 TGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT-GCAGATCT
* * *
13614789 TGTCTTCCTATATTGGTAG-GAAGTGGATCGACGATGCAAATCT
1 TGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATGCAGATCT
* * *
13614832 TGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCT
1 TGTCTTCCTATATTGGTAGCGAAGTAGATCGAAG-ATGCAGATCT
* * * * * *
13614877 TGTCTTCATTTATTGG-CGTGAAGTAGATCGAAAATAGCAGGTCT
1 TGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGAT-GCAGATCT
*
13614921 TGGCTTCCT
1 TGTCTTCCT
13614930 GCACCAACAG
Statistics
Matches: 282, Mismatches: 66, Indels: 28
0.75 0.18 0.07
Matches are distributed among these distances:
42 1 0.00
43 45 0.16
44 175 0.62
45 60 0.21
46 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (44 bp):
TGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATGCAGATCT
Found at i:13614759 original size:132 final size:132
Alignment explanation
Indices: 13614521--13614929 Score: 676
Period size: 132 Copynumber: 3.1 Consensus size: 132
13614511 NNNNNNNNNA
*
13614521 TCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGTAGATCTTGTCTTCCCATACTGGTG
1 TCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTG
* * * * *
13614586 GTGAAGTAGATCGAAGAAAGCAAATATTGTCTTCATGTATTGACGTGAAGTAGATC-AAAGATAG
65 GCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATTTATTGGCGTGAAGTAGATCGAAA-ATAG
*
13614650 CATG
129 CAGG
*
13614654 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTATCTTCCCATACTGGTGG
1 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGG
13614719 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATTTATTGGCGTGAAGTAGATCGAAAATAGCA
66 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATTTATTGGCGTGAAGTAGATCGAAAATAGCA
13614784 GG
131 GG
* * *
13614786 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGATGCAAATCTTGTCTTCCCATATTGGTGG
1 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGG
13614851 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATTTATTGGCGTGAAGTAGATCGAAAATAGCA
66 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATTTATTGGCGTGAAGTAGATCGAAAATAGCA
13614916 GG
131 GG
* *
13614918 TCTTGGCTTCCT
1 TCCTGTCTTCCT
13614930 GCACCAACAG
Statistics
Matches: 261, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
132 236 0.90
133 25 0.10
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (132 bp):
TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGG
CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATTTATTGGCGTGAAGTAGATCGAAAATAGCA
GG
Found at i:13615592 original size:40 final size:40
Alignment explanation
Indices: 13615547--13615777 Score: 462
Period size: 40 Copynumber: 5.8 Consensus size: 40
13615537 ATCTTCAAGG
13615547 ATATGCAATCTTGGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTGGATATGATATGCAATCTTAGATATGAT
13615587 ATATGCAATCTTGGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTGGATATGATATGCAATCTTAGATATGAT
13615627 ATATGCAATCTTGGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTGGATATGATATGCAATCTTAGATATGAT
13615667 ATATGCAATCTTGGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTGGATATGATATGCAATCTTAGATATGAT
13615707 ATATGCAATCTTGGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTGGATATGATATGCAATCTTAGATATGAT
13615747 ATATGCAATCTTGGATATGATATGCAATCTT
1 ATATGCAATCTTGGATATGATATGCAATCTT
13615778 GGAAGATATG
Statistics
Matches: 191, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 191 1.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (40 bp):
ATATGCAATCTTGGATATGATATGCAATCTTAGATATGAT
Found at i:13624394 original size:132 final size:132
Alignment explanation
Indices: 13624157--13624610 Score: 786
Period size: 132 Copynumber: 3.5 Consensus size: 132
13624147 NNNNNNNNNN
* * *
13624157 AATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTGAGCCACCAAGCCTTGTCCCCCTGAGCAGC
1 AATCTTATCTTTCCAAGATAATGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGC
* *
13624222 AGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCGG
66 AGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG
13624287 CG
131 CG
*
13624289 AATCTTATCTTTCCAAGATAATGGGAAGTAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGC
1 AATCTTATCTTTCCAAGATAATGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGC
*
13624354 AGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG
66 AGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG
13624419 CG
131 CG
*
13624421 AATCTTATCTTTCCAAGATAATGGGAAGCAGATTTGAGCCACCAAG-CTTG-CTCCCTGAGCAGC
1 AATCTTATCTTTCCAAGATAATGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGC
*
13624484 AGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGG
66 AGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG
13624549 CG
131 CG
* * *
13624551 AATCTCATCTTTTCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGA
1 AATCTTATCTTTCCAAGATAATGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGA
13624611 AGTGGCAGGG
Statistics
Matches: 305, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
130 120 0.39
131 8 0.03
132 177 0.58
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (132 bp):
AATCTTATCTTTCCAAGATAATGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGC
AGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG
CG
Found at i:13624644 original size:262 final size:263
Alignment explanation
Indices: 13624157--13624648 Score: 776
Period size: 262 Copynumber: 1.9 Consensus size: 263
13624147 NNNNNNNNNN
*
13624157 AATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTGAGCCACCAAGCCTTGTCCCCCTGAGCAGC
1 AATCTTATCTTTCCAAGATAATGGGAAGCAGATTTGAGCCACCAAGCCTTGTCCCCCTGAGCAGC
* * *
13624222 AGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGTCGG
66 AGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGG
* *
13624287 CGAATCTTATCTTTCCAAGATAATGGGAAGTAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCA
131 CGAATCTCATCTTTCCAAGATAATGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCA
****
13624352 GCAGCGGAGAAGGTTGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
196 GCAGCGGAGAA-GTTGAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
13624417 GGCG
260 GGCG
*
13624421 AATCTTATCTTTCCAAGATAATGGGAAGCAGATTTGAGCCACCAAG-CTTG-CTCCCTGAGCAGC
1 AATCTTATCTTTCCAAGATAATGGGAAGCAGATTTGAGCCACCAAGCCTTGTCCCCCTGAGCAGC
13624484 AGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGG
66 AGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGG
* * *
13624549 CGAATCTCATCTTTTCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAAGT
131 CGAATCTCATCTTTCCAAGATAATGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTG-AGC
* *
13624614 GGCAGGGGAGTGAA-TT-AAAACCACAGATCTTATCT
195 AGCAGCGGA--GAAGTTGAAAACCACAGATCTTATCT
13624649 TTCTGAAGTT
Statistics
Matches: 209, Mismatches: 16, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
262 146 0.70
263 15 0.07
264 45 0.22
265 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (263 bp):
AATCTTATCTTTCCAAGATAATGGGAAGCAGATTTGAGCCACCAAGCCTTGTCCCCCTGAGCAGC
AGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGG
CGAATCTCATCTTTCCAAGATAATGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCA
GCAGCGGAGAAGTTGAAAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
GCG
Found at i:13629831 original size:13 final size:13
Alignment explanation
Indices: 13629812--13629877 Score: 72
Period size: 13 Copynumber: 5.5 Consensus size: 13
13629802 TAGATTTTTC
13629812 CTAAATATTATCA
1 CTAAATATTATCA
*
13629825 ATAAATA--ATC-
1 CTAAATATTATCA
13629835 CTAAATATTATCA
1 CTAAATATTATCA
*
13629848 CTAAATA--AT-T
1 CTAAATATTATCA
13629858 CTAAATATTATCA
1 CTAAATATTATCA
13629871 CTAAATA
1 CTAAATA
13629878 ATTAAAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
10 13 0.30
11 5 0.12
12 5 0.12
13 20 0.47
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:13629838 original size:23 final size:23
Alignment explanation
Indices: 13629810--13629879 Score: 122
Period size: 23 Copynumber: 3.0 Consensus size: 23
13629800 GCTAGATTTT
*
13629810 TCCTAAATATTATCAATAAATAA
1 TCCTAAATATTATCACTAAATAA
13629833 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
*
13629856 TTCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
13629879 T
1 T
13629880 TAAAAATTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:13630033 original size:18 final size:18
Alignment explanation
Indices: 13630010--13630047 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
13630000 AATCTTTATC
*
13630010 CAGTCATCTTTTAGTCTT
1 CAGTCATCTTTGAGTCTT
13630028 CAGTCATCTTTGAGTCTT
1 CAGTCATCTTTGAGTCTT
13630046 CA
1 CA
13630048 TTCTTTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.24, G:0.13, T:0.45
Consensus pattern (18 bp):
CAGTCATCTTTGAGTCTT
Found at i:13635387 original size:26 final size:26
Alignment explanation
Indices: 13635351--13635402 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
13635341 TTTTTGTGCT
13635351 TCAAAACAATCCAAAAACATAAACTC
1 TCAAAACAATCCAAAAACATAAACTC
13635377 TCAAAACAATCCAAAAACATAAACTC
1 TCAAAACAATCCAAAAACATAAACTC
13635403 ATTCTTTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.58, C:0.27, G:0.00, T:0.15
Consensus pattern (26 bp):
TCAAAACAATCCAAAAACATAAACTC
Found at i:13642557 original size:29 final size:29
Alignment explanation
Indices: 13642515--13642586 Score: 135
Period size: 29 Copynumber: 2.5 Consensus size: 29
13642505 AATGGCAAAA
13642515 TTTTGAAATTATAAAAGTTTCAAGTATGG
1 TTTTGAAATTATAAAAGTTTCAAGTATGG
13642544 TTTTGAAATTATAAAAGTTTCAAGTATGG
1 TTTTGAAATTATAAAAGTTTCAAGTATGG
*
13642573 TCTTGAAATTATAA
1 TTTTGAAATTATAA
13642587 TTTTTTTATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.42
Consensus pattern (29 bp):
TTTTGAAATTATAAAAGTTTCAAGTATGG
Found at i:13666482 original size:12 final size:12
Alignment explanation
Indices: 13666457--13666495 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
13666447 ACTCGCTTCT
* *
13666457 TTACTTACTCAC
1 TTACTTGCTTAC
*
13666469 TTACTTGTTTAC
1 TTACTTGCTTAC
13666481 TTACTTGCTTAC
1 TTACTTGCTTAC
13666493 TTA
1 TTA
13666496 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:13666837 original size:50 final size:50
Alignment explanation
Indices: 13666744--13666885 Score: 169
Period size: 50 Copynumber: 2.8 Consensus size: 50
13666734 TTTTCTGTAC
* * * * * **
13666744 TGCCAATGTCATATCCTAGATATGGTCTTACATGGGAGTTCTCATAC-CGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAT-CTCGG
* *
13666794 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
13666844 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
13666886 TTACCCAAAT
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
49 1 0.01
50 77 0.99
ACGTcount: A:0.20, C:0.28, G:0.23, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:13675690 original size:27 final size:28
Alignment explanation
Indices: 13675672--13675724 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 28
13675662 GCAGCACCAG
* * *
13675672 TGGTGCCAGTGGCAGAGGCAGCACC-GA
1 TGGTGCCACTGCCACAGGCAGCACCAGA
*
13675699 TGGTGCCACTGCCACAGGCTGCACCA
1 TGGTGCCACTGCCACAGGCAGCACCA
13675725 CTCACCTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.21, C:0.32, G:0.34, T:0.13
Consensus pattern (28 bp):
TGGTGCCACTGCCACAGGCAGCACCAGA
Found at i:13675798 original size:4 final size:4
Alignment explanation
Indices: 13675789--13675847 Score: 50
Period size: 4 Copynumber: 14.0 Consensus size: 4
13675779 GAAAGGAGAG
13675789 GAAA GAAA GAAA G-AA -AAA GAAA GAAA GAAAA GGAAA GGAAA GGAGAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA -GAAA -GA-AA
*
13675836 GAAA AAAA GAAA
1 GAAA GAAA GAAA
13675848 AAGAAAGGAG
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
3 4 0.08
4 25 0.52
5 16 0.33
6 3 0.06
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:13675807 original size:14 final size:14
Alignment explanation
Indices: 13675790--13675854 Score: 85
Period size: 14 Copynumber: 4.6 Consensus size: 14
13675780 AAAGGAGAGG
13675790 AAAGAAAGAAAGAA
1 AAAGAAAGAAAGAA
13675804 AAAGAAAGAAAGAA
1 AAAGAAAGAAAGAA
* *
13675818 AAGGAAAGGAAAGGA
1 AAAGAAA-GAAAGAA
* *
13675833 GAAGAAAAAAAGAA
1 AAAGAAAGAAAGAA
13675847 AAAGAAAG
1 AAAGAAAG
13675855 GAGAAGAAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
14 31 0.74
15 11 0.26
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAAGAA
Found at i:13675825 original size:5 final size:5
Alignment explanation
Indices: 13675778--13675832 Score: 53
Period size: 5 Copynumber: 11.6 Consensus size: 5
13675768 AAATGGAGAG
* * * *
13675778 GGAAA GGAGA GGAAA -GAAA -GAAA GAAAA AGAAA -GAAA GAAAA GGAAA
1 GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA
13675825 GGAAA GGA
1 GGAAA GGA
13675833 GAAGAAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
4 12 0.29
5 29 0.71
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (5 bp):
GGAAA
Found at i:13675839 original size:29 final size:30
Alignment explanation
Indices: 13675790--13675867 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 30
13675780 AAAGGAGAGG
* *
13675790 AAAGAAA-GA-AAGAAAAAGAAAGAAAGAA
1 AAAGAAAGGAGAAGAAGAAGAAAAAAAGAA
* *
13675818 AAGGAAAGGA-AAGGAGAAGAAAAAAAGAA
1 AAAGAAAGGAGAAGAAGAAGAAAAAAAGAA
13675847 AAAGAAAGGAGAAGAAGAAGA
1 AAAGAAAGGAGAAGAAGAAGA
13675868 GGGAAGGAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 6 0.14
29 27 0.64
30 9 0.21
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (30 bp):
AAAGAAAGGAGAAGAAGAAGAAAAAAAGAA
Found at i:13675843 original size:24 final size:24
Alignment explanation
Indices: 13675778--13675876 Score: 94
Period size: 24 Copynumber: 4.2 Consensus size: 24
13675768 AAATGGAGAG
* *
13675778 GGAAAGGAGAGGAAAGAAA-GAAA
1 GGAAAGGAGAAGAAAAAAAGGAAA
* *
13675801 GAAAAAGA-AAGAAAGAAAAGGAAA
1 GGAAAGGAGAAGAAA-AAAAGGAAA
*
13675825 GGAAAGGAGAAGAAAAAAAGAAAA
1 GGAAAGGAGAAGAAAAAAAGGAAA
* * * *
13675849 AGAAAGGAGAAGAAGAAGAGGGAA
1 GGAAAGGAGAAGAAAAAAAGGAAA
13675873 GGAA
1 GGAA
13675877 GGAAAACGAA
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
22 5 0.08
23 9 0.15
24 40 0.67
25 6 0.10
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (24 bp):
GGAAAGGAGAAGAAAAAAAGGAAA
Found at i:13675862 original size:53 final size:53
Alignment explanation
Indices: 13675794--13675896 Score: 120
Period size: 53 Copynumber: 1.9 Consensus size: 53
13675784 GAGAGGAAAG
* *
13675794 AAAGAAAGAAAAAGAAAGAA-AGAAAAGGAAAGG-AAAGGAGAAGAAAAAAAGAA
1 AAAGAAAGAAAAAG-AAGAAGAGAAAAGG-AAGGAAAACGAAAAGAAAAAAAGAA
* * **
13675847 AAAGAAAGGAGAAGAAGAAGAGGGAAGGAAGGAAAACGAAAAGAAAAAAA
1 AAAGAAAGAAAAAGAAGAAGAGAAAAGGAAGGAAAACGAAAAGAAAAAAA
13675897 AGAACTAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
52 9 0.21
53 33 0.79
ACGTcount: A:0.70, C:0.01, G:0.29, T:0.00
Consensus pattern (53 bp):
AAAGAAAGAAAAAGAAGAAGAGAAAAGGAAGGAAAACGAAAAGAAAAAAAGAA
Found at i:13675873 original size:13 final size:13
Alignment explanation
Indices: 13675779--13675865 Score: 50
Period size: 10 Copynumber: 7.2 Consensus size: 13
13675769 AATGGAGAGG
*
13675779 GAAAGGAGAGGAAA
1 GAAAGGAGAAG-AA
13675793 GAAA-GA-AAGAA
1 GAAAGGAGAAGAA
13675804 -AAA-GA-AAGAAA
1 GAAAGGAGAAG-AA
13675815 GAAAAGGA-AAG--
1 G-AAAGGAGAAGAA
13675826 GAAAGGAGAAGAA
1 GAAAGGAGAAGAA
* *
13675839 -AAA-AAGAAAAA
1 GAAAGGAGAAGAA
13675850 GAAAGGAGAAGAA
1 GAAAGGAGAAGAA
13675863 GAA
1 GAA
13675866 GAGGGAAGGA
Statistics
Matches: 59, Mismatches: 5, Indels: 19
0.71 0.06 0.23
Matches are distributed among these distances:
10 14 0.24
11 14 0.24
12 8 0.14
13 14 0.24
14 9 0.15
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
GAAAGGAGAAGAA
Found at i:13676743 original size:154 final size:150
Alignment explanation
Indices: 13676234--13676977 Score: 708
Period size: 156 Copynumber: 5.0 Consensus size: 150
13676224 AAAAATTATA
*
13676234 TATTT-AAAAACACACTAAATTA-ATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
1 TATTTAAAAAACACACTAAATTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
* * * *
13676297 AAAATTCAAAAAT-ATGATATTTTTTAAAGTAATAAAATGCAGAGAAAAAAATACGAACAAA-TG
66 AAAATACGAAAATAAT-ATATTTTTTAAAGTAATAAAATTC-G-GGAAAAAATACGAACAAAGT-
* * *
13676360 GCCGAAGTAAAG-G-TTTTTTACTA
127 GCCGAA-AAAAGAGTTTTTTTAATT
* * * * * * * *
13676383 AATTTAAAAAAAATA-GAAATAATTAATACATTTAAAACATAATGTACTAAAATAATGTAAAAAA
1 TATTTAAAAAACACACTAAATTATT--TAAATTTCAAACATAATGTACTAAAATAATGTAAAATA
* * * *
13676447 ATAAAATACGAAAATAATATATTTTTATTGAAAGTAGTAAAAATAGGGAAAAAATACGAGCAAAG
64 ATAAAATACGAAAATAATATA-TTTT-TT-AAAGTAATAAAATTCGGGAAAAAATACGAACAAAG
* * ** *
13676512 GGTCGAAATGAGGGTTTTTTTTAAATT
126 TGCCGAAAAAAGAG-TTTTTTT-AATT
*
13676539 TATTTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAAAAA
1 TATTTAAAAAACACACTAAA-TTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
*
13676604 TAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAATACGAGCAAAGT
65 TAAAATACGAAAATAATATA-TTTT-TT-AAAGTAATAAAATTCGGGAAAAAATACGAACAAAGT
13676669 GCCGAAAAAAGAGTTTTTTTAATT
127 GCCGAAAAAAGAGTTTTTTTAATT
13676693 TATTTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
1 TATTTAAAAAACACACTAAA-TTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAA
** *
13676758 TAAAATTA-GAAAAT-ATGATA-TTTTTAAAGTAATAAAAGGC-GG---AGA-A--AA-AAA-T-
65 TAAAA-TACGAAAATAAT-ATATTTTTTAAAGTAATAAAATTCGGGAAAAAATACGAACAAAGTG
* *
13676810 ACGAATAAA-AGTTTTTTAGTAATT
128 CCGAAAAAAGAGTTTTTT--TAATT
** * * * * * *
13676834 T-TAAAAAAAAAAGAATTAATTA-ATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
1 TATTTAAAAAACACACTAAATTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
* * *
13676897 AAAATTA-GAAAATAGTCTATTTTTTAAAGTAATAAAATTCGGGGAAAAAATACGAACAAAGGGC
66 AAAA-TACGAAAATAATATATTTTTTAAAGTAATAAAATTC-GGGAAAAAATACGAACAAAGTGC
* *
13676961 CGAAATAAGGGTTTTTT
129 CGAAAAAAGAGTTTTTT
13676978 ACTAATTTTT
Statistics
Matches: 498, Mismatches: 64, Indels: 64
0.80 0.10 0.10
Matches are distributed among these distances:
138 54 0.11
139 30 0.06
140 19 0.04
141 9 0.02
142 3 0.01
143 1 0.00
144 2 0.00
145 2 0.00
146 2 0.00
147 2 0.00
148 3 0.01
149 11 0.02
150 26 0.05
151 9 0.02
152 56 0.11
153 30 0.06
154 85 0.17
155 26 0.05
156 121 0.24
157 3 0.01
158 4 0.01
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (150 bp):
TATTTAAAAAACACACTAAATTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
AAAATACGAAAATAATATATTTTTTAAAGTAATAAAATTCGGGAAAAAATACGAACAAAGTGCCG
AAAAAAGAGTTTTTTTAATT
Found at i:13678633 original size:12 final size:12
Alignment explanation
Indices: 13678612--13678658 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
13678602 AGATCATGAT
*
13678612 CCCGAACCAGAG
1 CCCGAGCCAGAG
*
13678624 CCCGAGCCAGAA
1 CCCGAGCCAGAG
*
13678636 CCCGAGTCAGAG
1 CCCGAGCCAGAG
13678648 CCCGAGCCAGA
1 CCCGAGCCAGA
13678659 TCCTGAGCAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.30, C:0.40, G:0.28, T:0.02
Consensus pattern (12 bp):
CCCGAGCCAGAG
Found at i:13679244 original size:77 final size:77
Alignment explanation
Indices: 13679158--13679733 Score: 990
Period size: 77 Copynumber: 7.4 Consensus size: 77
13679148 TTTTTATATC
*
13679158 ATTTTAATTATTCCAAATGAATTTTACTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGC
1 ATTTTAATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGC
*
13679223 ATAAGCTAAATA
66 ATAAGCTGAATA
13679235 ATTTTAATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGC
1 ATTTTAATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGC
*
13679300 ATAAACTGAATA
66 ATAAGCTGAATA
*
13679312 ATTTTAATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATAAAC
1 ATTTTAATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGC
*
13679377 ATAAGCTAAATA
66 ATAAGCTGAATA
* * *
13679389 GTTTTAATTTTTCCAAATGAATTATATTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGC
1 ATTTTAATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGC
*
13679454 ATAAACTGAATA
66 ATAAGCTGAATA
13679466 ATTTTAATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGC
1 ATTTTAATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGC
*
13679531 ATACGCTGAATA
66 ATAAGCTGAATA
*
13679543 ATTTTAATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGT
1 ATTTTAATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGC
*
13679608 ATAAACTGAATA
66 ATAAGCTGAATA
* *
13679620 ATTTTAATTATTCCAAATGAATTATATTTTTTATAACTTACTTAATTTGAATACAATTTAAGCAT
1 ATTTTAATTATTCCAAATGAATTATACTTTTTAT-A---ACTTAATTTGGATACAATTTAAGCAT
13679685 AAGCATAAGCTGAATA
62 AAGCATAAGCTGAATA
13679701 ATTTTAATTATTCCAAATGAATTATACTTTTTA
1 ATTTTAATTATTCCAAATGAATTATACTTTTTA
13679734 CAACATTACA
Statistics
Matches: 470, Mismatches: 25, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
77 398 0.85
78 1 0.00
81 71 0.15
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (77 bp):
ATTTTAATTATTCCAAATGAATTATACTTTTTATAACTTAATTTGGATACAATTTAAGCATAAGC
ATAAGCTGAATA
Found at i:13682758 original size:23 final size:23
Alignment explanation
Indices: 13682713--13682759 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
13682703 TAAAAATAAT
*
13682713 AACTAACAATAATATAATGTAAA
1 AACTAACAATAATATAATCTAAA
*
13682736 AACTAACAATCATACTAA-CTAAA
1 AACTAACAATAATA-TAATCTAAA
13682759 A
1 A
13682760 TAATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (23 bp):
AACTAACAATAATATAATCTAAA
Found at i:13682835 original size:41 final size:40
Alignment explanation
Indices: 13682737--13682851 Score: 110
Period size: 42 Copynumber: 2.8 Consensus size: 40
13682727 TAATGTAAAA
*
13682737 ACTAACAATCATACTAACTAAAATAATAATTAGGGTTTTT
1 ACTAACAATAATACTAACTAAAATAATAATTAGGGTTTTT
* *
13682777 ACTAATC-CTAATAACTAACCATAATAATAAT-ATTA-GTTTTTT
1 ACTAA-CAATAAT-ACTAA-C-TAA-AATAATAATTAGGGTTTTT
* *
13682819 ACTAACAATAATACTAAGTAACAATAATTATTA
1 ACTAACAATAATACTAACTAA-AATAATAATTA
13682852 ATAACTAAAC
Statistics
Matches: 62, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
39 9 0.15
40 12 0.19
41 12 0.19
42 16 0.26
43 7 0.11
44 6 0.10
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (40 bp):
ACTAACAATAATACTAACTAAAATAATAATTAGGGTTTTT
Found at i:13683091 original size:3 final size:3
Alignment explanation
Indices: 13683085--13683130 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
13683075 CCTCCTCCTC
13683085 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT -TT -TT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
13683131 TTCCTTCAGC
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 4 0.10
3 38 0.90
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
CTT
Found at i:13684074 original size:31 final size:30
Alignment explanation
Indices: 13684008--13684077 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 30
13683998 TAATTTTTTA
*
13684008 AAAAAATTATAAAAATTATTTTTAAAAATTT
1 AAAAAATTATAAAAAATATTTTT-AAAATTT
13684039 -AAAAATTATAAAAAACATATTTTT-AAATTT
1 AAAAAATTAT-AAAAA-ATATTTTTAAAATTT
13684069 AAAAAATTA
1 AAAAAATTA
13684078 ATTAATTTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
30 15 0.43
31 13 0.37
32 7 0.20
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (30 bp):
AAAAAATTATAAAAAATATTTTTAAAATTT
Found at i:13684744 original size:20 final size:22
Alignment explanation
Indices: 13684721--13684772 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 22
13684711 GCCCAAACTT
13684721 AATATATTATATA-TAAAC-CC
1 AATATATTATATACTAAACTCC
13684741 AATATGTATTATATATCTAAACTCC
1 AATA--TATTATATA-CTAAACTCC
13684766 AATATAT
1 AATATAT
13684773 ATAAACTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 4 0.15
22 9 0.33
23 3 0.11
24 5 0.19
25 6 0.22
ACGTcount: A:0.46, C:0.13, G:0.02, T:0.38
Consensus pattern (22 bp):
AATATATTATATACTAAACTCC
Found at i:13684753 original size:22 final size:24
Alignment explanation
Indices: 13684725--13684770 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
13684715 AAACTTAATA
13684725 TATTATATA-TAAAC-CCAATATG
1 TATTATATACTAAACTCCAATATG
13684747 TATTATATATCTAAACTCCAATAT
1 TATTATATA-CTAAACTCCAATAT
13684771 ATATAAACTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 9 0.43
24 5 0.24
25 7 0.33
ACGTcount: A:0.43, C:0.15, G:0.02, T:0.39
Consensus pattern (24 bp):
TATTATATACTAAACTCCAATATG
Found at i:13684775 original size:22 final size:21
Alignment explanation
Indices: 13684721--13684775 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 21
13684711 GCCCAAACTT
13684721 AATATAT-TATATATAAACCC
1 AATATATATATATATAAACCC
*
13684741 AATATGTATTATATATCTAAACTCC
1 AATA--TA-TATATATATAAAC-CC
13684766 AATATATATA
1 AATATATATA
13684776 AACTGAATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
20 4 0.14
22 6 0.21
23 3 0.10
24 10 0.34
25 6 0.21
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (21 bp):
AATATATATATATATAAACCC
Found at i:13687403 original size:22 final size:23
Alignment explanation
Indices: 13687360--13687404 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
13687350 AAGTTGAATT
*
13687360 TAAAGTTATGAATTATATATATA
1 TAAAGTTATGAATTATAGATATA
13687383 TAAAGTT-TGAATGTAT-GATATA
1 TAAAGTTATGAAT-TATAGATATA
13687405 AGTTCTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.42
Consensus pattern (23 bp):
TAAAGTTATGAATTATAGATATA
Found at i:13687509 original size:65 final size:66
Alignment explanation
Indices: 13687439--13687654 Score: 216
Period size: 64 Copynumber: 3.4 Consensus size: 66
13687429 TATGAATTAT
* * * * * * *
13687439 ATATATATGCACATATGGTTCGAATATATATATT-TAAAGTTCTTGAGCTGTATTTAATGTATGA
1 ATATATATACATATGTGGTTCGAATATATAGATTACAAAGTTCTTGAGCGGAATTTAATGTATGA
13687503 A
66 A
* *
13687504 ATATATATACATATGTGGTTC-AA-ATATAGGTTACAAAGTTTTTGAGCGGAATTTAATGTATGA
1 ATATATATACATATGTGGTTCGAATATATAGATTACAAAGTTCTTGAGCGGAATTTAATGTATGA
13687567 A
66 A
* * * * *
13687568 TTTTACATACATATGTGGTTCG-A-ATATAGGTTACAAA-TTCTTTGAGCTGAAATTTAATGT-T
1 ATATATATACATATGTGGTTCGAATATATAGATTACAAAGTTC-TTGAGC-GGAATTTAATGTAT
*
13687629 GTA
64 GAA
13687632 A-AT-TATACATATGTGGTTCGAAT
1 ATATATATACATATGTGGTTCGAAT
13687655 GTTTGTTTGA
Statistics
Matches: 127, Mismatches: 18, Indels: 13
0.80 0.11 0.08
Matches are distributed among these distances:
62 16 0.13
63 11 0.09
64 71 0.56
65 29 0.23
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (66 bp):
ATATATATACATATGTGGTTCGAATATATAGATTACAAAGTTCTTGAGCGGAATTTAATGTATGA
A
Found at i:13687561 original size:64 final size:64
Alignment explanation
Indices: 13687474--13687650 Score: 227
Period size: 64 Copynumber: 2.8 Consensus size: 64
13687464 ATATATATTT
* * *
13687474 AAAGTTCTTGAGCTGTATTTAATGTATGAAATATATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTTTTGAGCGGAATTTAATGTATGAAATATATATACATATGTGGTTCAAATATAGGTTAC
* * * *
13687538 AAAGTTTTTGAGCGGAATTTAATGTATGAATTTTACATACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTTTTGAGCGGAATTTAATGTATGAAATATATATACATATGTGGTTCAAATATAGGTTAC
* *
13687602 AAA-TTCTTTGAGCTGAAATTTAATGT-TGTAA-AT-TATACATATGTGGTTC
1 AAAGTT-TTTGAGC-GGAATTTAATGTATGAAATATATATACATATGTGGTTC
13687651 GAATGTTTGT
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
62 15 0.15
63 3 0.03
64 70 0.71
65 11 0.11
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (64 bp):
AAAGTTTTTGAGCGGAATTTAATGTATGAAATATATATACATATGTGGTTCAAATATAGGTTAC
Found at i:13687873 original size:41 final size:41
Alignment explanation
Indices: 13687770--13687876 Score: 160
Period size: 41 Copynumber: 2.6 Consensus size: 41
13687760 ATCTGAGATT
* * * *
13687770 TTCAGGCTTAATGCCTAGCAGACTTGATGTCGGTGAATTAC
1 TTCAGACTTTATGTCTAGCAGGCTTGATGTCGGTGAATTAC
* *
13687811 TTCAGACTTTATGTCTAGCAGGCTTGATGTCGTTGAATTTC
1 TTCAGACTTTATGTCTAGCAGGCTTGATGTCGGTGAATTAC
13687852 TTCAGACTTTATGTCTAGCAGGCTT
1 TTCAGACTTTATGTCTAGCAGGCTT
13687877 TGTGCCGGTG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (41 bp):
TTCAGACTTTATGTCTAGCAGGCTTGATGTCGGTGAATTAC
Found at i:13695015 original size:22 final size:22
Alignment explanation
Indices: 13694989--13695032 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
13694979 TTACAATTCT
*
13694989 TGAATATATCTTAATAATCAAC
1 TGAATATATCTTAACAATCAAC
*
13695011 TGAATATATTTTAACAATCAAC
1 TGAATATATCTTAACAATCAAC
13695033 AGATCATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (22 bp):
TGAATATATCTTAACAATCAAC
Found at i:13696849 original size:103 final size:104
Alignment explanation
Indices: 13696717--13696923 Score: 407
Period size: 103 Copynumber: 2.0 Consensus size: 104
13696707 ACAGAGAAAG
13696717 CAAAACTTCCTTTTCTTTAAAATGGTGGACATGAGCTTGAAAGAAATATGGAGAATTTTCATTTA
1 CAAAACTTCCTTTTCTTTAAAATGGTGGACATGAGCTTGAAAGAAATATGGAGAATTTTCATTTA
13696782 TCTCTTCTTTTTATTTTCTTAACCATT-ATTAAATAATA
66 TCTCTTCTTTTTATTTTCTTAACCATTAATTAAATAATA
13696820 CAAAACTTCCTTTTCTTTAAAATGGTGGACATGAGCTTGAAAGAAATATGGAGAATTTTCATTTA
1 CAAAACTTCCTTTTCTTTAAAATGGTGGACATGAGCTTGAAAGAAATATGGAGAATTTTCATTTA
13696885 TCTCTTCTTTTTATTTTCTTAACCATTAATTAAATAATA
66 TCTCTTCTTTTTATTTTCTTAACCATTAATTAAATAATA
13696924 AAATATCTTA
Statistics
Matches: 103, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
103 92 0.89
104 11 0.11
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.43
Consensus pattern (104 bp):
CAAAACTTCCTTTTCTTTAAAATGGTGGACATGAGCTTGAAAGAAATATGGAGAATTTTCATTTA
TCTCTTCTTTTTATTTTCTTAACCATTAATTAAATAATA
Found at i:13712113 original size:54 final size:54
Alignment explanation
Indices: 13712054--13712221 Score: 207
Period size: 54 Copynumber: 3.1 Consensus size: 54
13712044 AATCATGAGT
* *
13712054 AAATGA-CTGAATTACCCTCGAAGGGTAAAATGATTGAATTACCCTTAAAGGGTA
1 AAATGATC-GAATTACCCCCGAAGGGTAAAATGATTGAATTACCCTCAAAGGGTA
* * *
13712108 AAATGATCGAATTACCCCCGAAGGGAAAAATGATCGAATTACCCCCGAAA-GGTA
1 AAATGATCGAATTACCCCCGAAGGGTAAAATGATTGAATTACCCTC-AAAGGGTA
* * * *
13712162 AAATGATCAAATTACCCCCGAAGGGTAAAATGACAT-AAATACCCTCATAGGGTA
1 AAATGATCGAATTACCCCCGAAGGGTAAAATGA-TTGAATTACCCTCAAAGGGTA
13712216 AAATGA
1 AAATGA
13712222 CTGTTATACC
Statistics
Matches: 98, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
53 2 0.02
54 92 0.94
55 4 0.04
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (54 bp):
AAATGATCGAATTACCCCCGAAGGGTAAAATGATTGAATTACCCTCAAAGGGTA
Found at i:13712205 original size:27 final size:27
Alignment explanation
Indices: 13712054--13712194 Score: 194
Period size: 27 Copynumber: 5.2 Consensus size: 27
13712044 AATCATGAGT
*
13712054 AAATGA-CTGAATTACCCTCGAAGGGTA
1 AAATGATC-GAATTACCCCCGAAGGGTA
* ***
13712081 AAATGATTGAATTACCCTTAAAGGGTA
1 AAATGATCGAATTACCCCCGAAGGGTA
*
13712108 AAATGATCGAATTACCCCCGAAGGGAA
1 AAATGATCGAATTACCCCCGAAGGGTA
*
13712135 AAATGATCGAATTACCCCCGAAAGGTA
1 AAATGATCGAATTACCCCCGAAGGGTA
*
13712162 AAATGATCAAATTACCCCCGAAGGGTA
1 AAATGATCGAATTACCCCCGAAGGGTA
13712189 AAATGA
1 AAATGA
13712195 CATAAATACC
Statistics
Matches: 101, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.21
Consensus pattern (27 bp):
AAATGATCGAATTACCCCCGAAGGGTA
Found at i:13712205 original size:81 final size:81
Alignment explanation
Indices: 13712054--13712224 Score: 195
Period size: 81 Copynumber: 2.1 Consensus size: 81
13712044 AATCATGAGT
* * ** **
13712054 AAATGACTGAATTACCCTCGAAGGGTAAAATGATTGAATTACCCTTAAAGGGTAAAATGATCGAA
1 AAATGACTGAATTACCCCCGAAAGGTAAAATGATCAAATTACCCCCAAAGGGTAAAATGATCGAA
*
13712119 TTACCCCCGAAGGGAA
66 ATACCCCCGAAGGGAA
* *
13712135 AAATGA-TCGAATTACCCCCGAAAGGTAAAATGATCAAATTACCCCCGAAGGGTAAAATGA-CAT
1 AAATGACT-GAATTACCCCCGAAAGGTAAAATGATCAAATTACCCCCAAAGGGTAAAATGATC-G
* *
13712198 AAATACCCTC-ATAGGGTA
64 AAATACCCCCGA-AGGGAA
13712216 AAATGACTG
1 AAATGACTG
13712225 TTATACCCCT
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
80 3 0.04
81 71 0.95
82 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (81 bp):
AAATGACTGAATTACCCCCGAAAGGTAAAATGATCAAATTACCCCCAAAGGGTAAAATGATCGAA
ATACCCCCGAAGGGAA
Found at i:13712213 original size:27 final size:26
Alignment explanation
Indices: 13712101--13712222 Score: 120
Period size: 27 Copynumber: 4.5 Consensus size: 26
13712091 ATTACCCTTA
* *
13712101 AAGGGTAAAATGATCGAATTACCCCCG
1 AAGGGTAAAATGA-CAAAATACCCCCG
* * *
13712128 AAGGGAAAAATGATCGAATTACCCCCG
1 AAGGGTAAAATGA-CAAAATACCCCCG
* *
13712155 AAAGGTAAAATGATCAAATTACCCCCG
1 AAGGGTAAAATGA-CAAAATACCCCCG
*
13712182 AAGGGTAAAATGACATAAATACCCTC-
1 AAGGGTAAAATGACA-AAATACCCCCG
13712208 ATAGGGTAAAATGAC
1 A-AGGGTAAAATGAC
13712223 TGTTATACCC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
26 3 0.03
27 83 0.97
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.18
Consensus pattern (26 bp):
AAGGGTAAAATGACAAAATACCCCCG
Found at i:13712397 original size:27 final size:26
Alignment explanation
Indices: 13712375--13712432 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
13712365 TGTACTGGTG
13712375 GCTTTACCACATATACTGTTACTGGCA
1 GCTTTACCACAT-TACTGTTACTGGCA
* * *
13712402 GCTTTGCTACATTACTGTTAATGGCA
1 GCTTTACCACATTACTGTTACTGGCA
13712428 GCTTT
1 GCTTT
13712433 GTTGCATCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 18 0.64
27 10 0.36
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.38
Consensus pattern (26 bp):
GCTTTACCACATTACTGTTACTGGCA
Found at i:13712426 original size:26 final size:26
Alignment explanation
Indices: 13712383--13712461 Score: 95
Period size: 26 Copynumber: 3.0 Consensus size: 26
13712373 TGGCTTTACC
13712383 ACATATACTGTTACTGGCAGCTTTGCT
1 ACAT-TACTGTTACTGGCAGCTTTGCT
* *
13712410 ACATTACTGTTAATGGCAGCTTTGTT
1 ACATTACTGTTACTGGCAGCTTTGCT
* * * *
13712436 GCATCACTATTACTAGCAGCTTTGCT
1 ACATTACTGTTACTGGCAGCTTTGCT
13712462 GCAATATTGG
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 40 0.91
27 4 0.09
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.38
Consensus pattern (26 bp):
ACATTACTGTTACTGGCAGCTTTGCT
Found at i:13712625 original size:15 final size:14
Alignment explanation
Indices: 13712605--13712646 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
13712595 GCCAAAAATT
13712605 TTAAAATTATAAAAA
1 TTAAAATTA-AAAAA
13712620 TTAAAAATTAAAAAA
1 TT-AAAATTAAAAAA
*
13712635 -TAAAAATAAAAA
1 TTAAAATTAAAAA
13712647 TATTTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 10 0.40
14 1 0.04
15 7 0.28
16 7 0.28
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
TTAAAATTAAAAAA
Found at i:13712632 original size:6 final size:7
Alignment explanation
Indices: 13712614--13712647 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
13712604 TTTAAAATTA
13712614 TAAAAAT
1 TAAAAAT
13712621 TAAAAAT
1 TAAAAAT
*
13712628 TAAAAAA
1 TAAAAAT
13712635 TAAAAA-
1 TAAAAAT
13712641 TAAAAAT
1 TAAAAAT
13712648 ATTTTTAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
TAAAAAT
Found at i:13712984 original size:28 final size:28
Alignment explanation
Indices: 13712942--13712996 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
13712932 ATTGTATTGA
*
13712942 TTACTGTATTAGGCTAAGGCCCACACTG
1 TTACTGTAATAGGCTAAGGCCCACACTG
*
13712970 TTACTGTAATGGGCTAAGGCCCACACT
1 TTACTGTAATAGGCTAAGGCCCACACT
13712997 ATACTGATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (28 bp):
TTACTGTAATAGGCTAAGGCCCACACTG
Found at i:13714837 original size:26 final size:25
Alignment explanation
Indices: 13714795--13714870 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 25
13714785 AATATTTTCT
*
13714795 CAAAATTTTACCAGGGGTAAAATCAC
1 CAAAATTTTA-CGGGGGTAAAATCAC
*
13714821 CAAATATTTTACGGGGGTAAAATCAT
1 CAAA-ATTTTACGGGGGTAAAATCAC
*
13714847 CAAAACTTTACTGGGGGGTAAAAT
1 CAAAATTTTAC--GGGGGTAAAAT
13714871 AGGGATGAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
25 6 0.14
26 21 0.48
27 17 0.39
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.26
Consensus pattern (25 bp):
CAAAATTTTACGGGGGTAAAATCAC
Found at i:13716532 original size:19 final size:20
Alignment explanation
Indices: 13716508--13716553 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
13716498 GTTGAAAAAG
13716508 TTTCAAT-TGTGTTAAACAT
1 TTTCAATGTGTGTTAAACAT
* *
13716527 TTTCAAATGTGTTTTAACCAT
1 TTTC-AATGTGTGTTAAACAT
13716548 TTTCAA
1 TTTCAA
13716554 ATAAGTCAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 4 0.17
20 5 0.22
21 14 0.61
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.48
Consensus pattern (20 bp):
TTTCAATGTGTGTTAAACAT
Found at i:13716640 original size:22 final size:22
Alignment explanation
Indices: 13716581--13716629 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
13716571 CAGAACAAAA
* *
13716581 AAGTACCGATACTTTTTTCTCT
1 AAGTATCGATATTTTTTTCTCT
*
13716603 AAGTATCGATATTTTTTTGTCT
1 AAGTATCGATATTTTTTTCTCT
13716625 AAGTA
1 AAGTA
13716630 ATTATATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (22 bp):
AAGTATCGATATTTTTTTCTCT
Found at i:13716754 original size:20 final size:20
Alignment explanation
Indices: 13716731--13716769 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13716721 TATCAATACT
*
13716731 TTTCTTAAAGTATCGATATA
1 TTTCCTAAAGTATCGATATA
*
13716751 TTTCCTAAGGTATCGATAT
1 TTTCCTAAAGTATCGATAT
13716770 TCTTGATCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (20 bp):
TTTCCTAAAGTATCGATATA
Found at i:13717995 original size:171 final size:171
Alignment explanation
Indices: 13717671--13718012 Score: 368
Period size: 171 Copynumber: 2.0 Consensus size: 171
13717661 AATTCACAGG
* * * * ***
13717671 CATCGGAAAAGTATAATATCGGGCCTCCGTCTTAGTAAATTGAGTTTGAAAATAATTATTAGAAA
1 CATCAGAAAAGTATAATATCGGGCATCCGTCTTAGAAAATTAAACCTGAAAATAATTATTAGAAA
* * *
13717736 TATTTACTAGACTAGTTGTGTGTTTAAATAGGTTTTAGATAGGTGAATTTAGTCTGATTAAGAAT
66 TATTTACTAGACTAGTTATGTGTTTAAATAGGTTTTAGATAGGTAAATTTAGTCTAATTAAGAAT
** ** *
13717801 AATTAGGGAAATTGATCAAATTGAATAAAGAGTGAAAGTTT
131 AATTAGCAAAAAGGATCAAATTGAATAAAGAGTAAAAGTTT
* * * * *
13717842 CATCAGAAAAGTGTAGTATCGGGCATCCGTCTTAGAAAATTAAACCTGTAGATAATTATTAGGAA
1 CATCAGAAAAGTATAATATCGGGCATCCGTCTTAGAAAATTAAACCTGAAAATAATTATTAGAAA
* * * *
13717907 TATTT-GTGAGTCTAGTTATGTGTTTAATTAGGTTTTA-ATTAGGTAAATTTAG-CTTAATTTAG
66 TATTTACT-AGACTAGTTATGTGTTTAAATAGGTTTTAGA-TAGGTAAATTTAGTC-TAATTAAG
** * *
13717969 GGTAATTAGCAAAAAGGAGT-AAATTGAGTAAAGGGTAAAAGTTT
128 AATAATTAGCAAAAAGGA-TCAAATTGAATAAAGAGTAAAAGTTT
13718013 AATTATAGAT
Statistics
Matches: 139, Mismatches: 28, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
170 3 0.02
171 135 0.97
172 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (171 bp):
CATCAGAAAAGTATAATATCGGGCATCCGTCTTAGAAAATTAAACCTGAAAATAATTATTAGAAA
TATTTACTAGACTAGTTATGTGTTTAAATAGGTTTTAGATAGGTAAATTTAGTCTAATTAAGAAT
AATTAGCAAAAAGGATCAAATTGAATAAAGAGTAAAAGTTT
Found at i:13718651 original size:19 final size:22
Alignment explanation
Indices: 13718613--13718652 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
13718603 TTGTGAATAA
13718613 AATATTATTATATGATTATTAT
1 AATATTATTATATGATTATTAT
13718635 AATA-TATTAT-T-ATTATTA
1 AATATTATTATATGATTATTA
13718653 ACTAATGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 6 0.33
22 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (22 bp):
AATATTATTATATGATTATTAT
Found at i:13719644 original size:24 final size:27
Alignment explanation
Indices: 13719607--13719670 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
13719597 AATTGCGGAT
*
13719607 TAATTATTG-ATTGAAAG-GTG-GAAA
1 TAATGATTGAATTGAAAGTGTGAGAAA
13719631 -AATGATTGAATTGAAAGTGTGAGAAA
1 TAATGATTGAATTGAAAGTGTGAGAAA
**
13719657 TTGTGATTGAATTG
1 TAATGATTGAATTG
13719671 GGATTATATG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 7 0.21
24 8 0.24
25 3 0.09
26 4 0.12
27 11 0.33
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.34
Consensus pattern (27 bp):
TAATGATTGAATTGAAAGTGTGAGAAA
Found at i:13719874 original size:37 final size:39
Alignment explanation
Indices: 13719815--13719910 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
13719805 CGGATAGATT
* * * *
13719815 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
13719852 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
13719891 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
13719911 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:13723739 original size:11 final size:12
Alignment explanation
Indices: 13723723--13723752 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
13723713 AAATTGTTTA
13723723 TAAACTA-TAAT
1 TAAACTATTAAT
13723734 TAAACTATTAAT
1 TAAACTATTAAT
13723746 TAAACTA
1 TAAACTA
13723753 ACTAAGCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (12 bp):
TAAACTATTAAT
Found at i:13726111 original size:27 final size:27
Alignment explanation
Indices: 13726073--13726195 Score: 124
Period size: 27 Copynumber: 4.6 Consensus size: 27
13726063 TCCAAAATTT
**
13726073 GTAAAATGACCGTAATGCCTTTGTAGA
1 GTAAAATGACCGTAATGCCCATGTAGA
*
13726100 GTAAAATGACCGTAATGCCCATGTAGG
1 GTAAAATGACCGTAATGCCCATGTAGA
* * *
13726127 GTAAAATGACTGTAATGCCCCTGCA-A
1 GTAAAATGACCGTAATGCCCATGTAGA
* * *
13726153 GGTAAAATGACTGTGATGCCCCTGTAG-
1 -GTAAAATGACCGTAATGCCCATGTAGA
* *
13726180 GTAAAATAACTGTAAT
1 GTAAAATGACCGTAAT
13726196 ACCCCTGTCA
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
26 14 0.17
27 69 0.83
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (27 bp):
GTAAAATGACCGTAATGCCCATGTAGA
Found at i:13726142 original size:54 final size:53
Alignment explanation
Indices: 13726073--13726202 Score: 154
Period size: 54 Copynumber: 2.4 Consensus size: 53
13726063 TCCAAAATTT
* ** *
13726073 GTAAAATGACCGTAATGCCTTTG-TAGAGTAAAATGACCGTAATGCCCATGTAGG
1 GTAAAATGACTGTAATGCCCCTGCAAG-GTAAAATGACCGTAATGCCCATGTA-G
* * *
13726127 GTAAAATGACTGTAATGCCCCTGCAAGGTAAAATGACTGTGATGCCCCTGTAG
1 GTAAAATGACTGTAATGCCCCTGCAAGGTAAAATGACCGTAATGCCCATGTAG
* *
13726180 GTAAAATAACTGTAATACCCCTG
1 GTAAAATGACTGTAATGCCCCTG
13726203 TCAGGTGAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
53 22 0.33
54 42 0.64
55 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.25
Consensus pattern (53 bp):
GTAAAATGACTGTAATGCCCCTGCAAGGTAAAATGACCGTAATGCCCATGTAG
Found at i:13726351 original size:24 final size:24
Alignment explanation
Indices: 13726262--13726353 Score: 96
Period size: 24 Copynumber: 3.8 Consensus size: 24
13726252 CCCTCGAGGT
** *
13726262 TAAATGATTGATTCATCTGTGATG
1 TAAATGATTGATTTGTCTGTAATG
* *
13726286 TAAGTGATTGATTTGTCCG-AGATG
1 TAAATGATTGATTTGTCTGTA-ATG
* * *
13726310 TAAATGACTAATTTGTCTGTAATT
1 TAAATGATTGATTTGTCTGTAATG
13726334 TAAATGATTGATTTGTCTGT
1 TAAATGATTGATTTGTCTGT
13726354 GATTGGTATA
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
24 53 0.98
25 1 0.02
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (24 bp):
TAAATGATTGATTTGTCTGTAATG
Found at i:13728375 original size:15 final size:14
Alignment explanation
Indices: 13728352--13728399 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
13728342 TTTTCAAGTT
13728352 AAAAAAATATTATA
1 AAAAAAATATTATA
13728366 AAAAAGAATATTATTA
1 AAAAA-AATATTA-TA
* *
13728382 TAAATAAATAATATA
1 -AAAAAAATATTATA
13728397 AAA
1 AAA
13728400 TTGCAATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 8 0.28
15 9 0.31
16 8 0.28
17 4 0.14
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (14 bp):
AAAAAAATATTATA
Found at i:13728382 original size:18 final size:19
Alignment explanation
Indices: 13728359--13728395 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
13728349 GTTAAAAAAA
13728359 TATTATAAA-AAAGAATAT
1 TATTATAAATAAAGAATAT
*
13728377 TATTATAAATAAATAATAT
1 TATTATAAATAAAGAATAT
13728396 AAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
TATTATAAATAAAGAATAT
Found at i:13733679 original size:17 final size:16
Alignment explanation
Indices: 13733659--13733693 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
13733649 GTTTAATATA
13733659 TAATTTTATATAAATTT
1 TAATTTTATAT-AATTT
*
13733676 TAATTTTATGTAATTT
1 TAATTTTATATAATTT
13733692 TA
1 TA
13733694 TATATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (16 bp):
TAATTTTATATAATTT
Found at i:13737267 original size:103 final size:103
Alignment explanation
Indices: 13737136--13737342 Score: 414
Period size: 103 Copynumber: 2.0 Consensus size: 103
13737126 AGATCACCTA
13737136 AGGTTTCCCTCATATCCTCTTGTAGCTCCTCTAAGCTCATCTCGAGACTCCATCATTGTTGAACT
1 AGGTTTCCCTCATATCCTCTTGTAGCTCCTCTAAGCTCATCTCGAGACTCCATCATTGTTGAACT
13737201 TGATCTCCTTAAGAGAATCCTCGGTATCCTCCACCCAC
66 TGATCTCCTTAAGAGAATCCTCGGTATCCTCCACCCAC
13737239 AGGTTTCCCTCATATCCTCTTGTAGCTCCTCTAAGCTCATCTCGAGACTCCATCATTGTTGAACT
1 AGGTTTCCCTCATATCCTCTTGTAGCTCCTCTAAGCTCATCTCGAGACTCCATCATTGTTGAACT
13737304 TGATCTCCTTAAGAGAATCCTCGGTATCCTCCACCCAC
66 TGATCTCCTTAAGAGAATCCTCGGTATCCTCCACCCAC
13737342 A
1 A
13737343 TAAGGACATC
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 104 1.00
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.32
Consensus pattern (103 bp):
AGGTTTCCCTCATATCCTCTTGTAGCTCCTCTAAGCTCATCTCGAGACTCCATCATTGTTGAACT
TGATCTCCTTAAGAGAATCCTCGGTATCCTCCACCCAC
Found at i:13747593 original size:26 final size:25
Alignment explanation
Indices: 13747505--13747595 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
13747495 TTAATATGTA
* *
13747505 TTTTTTTATTTTAGGGTGTTTCAAG
1 TTTTTTTATTTTAAGGTGTTTCAAT
*
13747530 TTTTTTTATTTTAAGTGATGTTTATAAT
1 TTTTTTTATTTTAAG-G-TGTTT-CAAT
*
13747558 TATGTATTTTAATTTTACGGTGTTTCAAT
1 T-T-T-TTTT-ATTTTAAGGTGTTTCAAT
13747587 TTGTTTTTA
1 TT-TTTTTA
13747596 ATTACACCAT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
25 14 0.26
26 2 0.04
27 9 0.17
28 6 0.11
29 5 0.09
30 6 0.11
31 5 0.09
32 7 0.13
ACGTcount: A:0.21, C:0.03, G:0.14, T:0.62
Consensus pattern (25 bp):
TTTTTTTATTTTAAGGTGTTTCAAT
Found at i:13748037 original size:17 final size:17
Alignment explanation
Indices: 13748015--13748048 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13748005 ATACTTAATG
*
13748015 TATACATCACTTGGGTA
1 TATACATCACTTAGGTA
13748032 TATACATCACTTAGGTA
1 TATACATCACTTAGGTA
13748049 CATGCCACGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (17 bp):
TATACATCACTTAGGTA
Found at i:13749481 original size:16 final size:17
Alignment explanation
Indices: 13749455--13749498 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
13749445 TATATATATC
*
13749455 TATTATAAAAA-ATGTG
1 TATTTTAAAAACATGTG
13749471 TATTTTGAAAAACATGTG
1 TATTTT-AAAAACATGTG
13749489 TATTTTAAAA
1 TATTTTAAAA
13749499 CGTGCATGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 5 0.20
17 9 0.36
18 11 0.44
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.41
Consensus pattern (17 bp):
TATTTTAAAAACATGTG
Found at i:13751710 original size:45 final size:46
Alignment explanation
Indices: 13751615--13751720 Score: 160
Period size: 45 Copynumber: 2.3 Consensus size: 46
13751605 AGCAGTGACA
* * *
13751615 GTAACAGTAACATTAACAGTATTTCAACACACAAAGTGCTGAATCT
1 GTAACAGTAACAGTAACAGTATTTCAACACACAAAGTGCCGAATCG
* *
13751661 GTAACAGTAACGGTAACAGTA-TTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAGTATTTCAACACACAAAGTGCCGAATCG
13751706 GTAACAGTAACAGTA
1 GTAACAGTAACAGTA
13751721 GTCGGCACAT
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
45 35 0.65
46 19 0.35
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.22
Consensus pattern (46 bp):
GTAACAGTAACAGTAACAGTATTTCAACACACAAAGTGCCGAATCG
Found at i:13759605 original size:44 final size:44
Alignment explanation
Indices: 13759552--13759653 Score: 141
Period size: 44 Copynumber: 2.3 Consensus size: 44
13759542 ATTATTCAGT
* * *
13759552 TGTTAGGTTGAATGGAATGGAATAGATATATAATAGTATTCTTG
1 TGTTTGGTTGAATGCAATGGAATAGATATATAATAGTATTATTG
* * *
13759596 TGTTTGGTTGAATGCAATTGAATAGATCTGTAATAGTATTATTG
1 TGTTTGGTTGAATGCAATGGAATAGATATATAATAGTATTATTG
*
13759640 TATTTGGTTGAATG
1 TGTTTGGTTGAATG
13759654 AAATAAATGT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.30, C:0.03, G:0.25, T:0.42
Consensus pattern (44 bp):
TGTTTGGTTGAATGCAATGGAATAGATATATAATAGTATTATTG
Found at i:13759965 original size:13 final size:14
Alignment explanation
Indices: 13759924--13759965 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
13759914 AATCCAAGTC
* *
13759924 AAATAAAACAATTA
1 AAATAAAATAACTA
13759938 AAAT-AAATAACTA
1 AAATAAAATAACTA
13759951 AAATAAAATAA-TA
1 AAATAAAATAACTA
13759964 AA
1 AA
13759966 TCAAAGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAAAATAACTA
Found at i:13760421 original size:25 final size:22
Alignment explanation
Indices: 13760388--13760443 Score: 58
Period size: 25 Copynumber: 2.4 Consensus size: 22
13760378 ATAAAATTCC
*
13760388 TAAATAAATTAAAATACTTAATAA
1 TAAAAAAATTAAAATA--TAATAA
*
13760412 TTAAAAAAATTAGAATATAATAA
1 -TAAAAAAATTAAAATATAATAA
*
13760435 TAATAAAAT
1 TAAAAAAAT
13760444 AATAAGAGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.29
23 6 0.21
25 14 0.50
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (22 bp):
TAAAAAAATTAAAATATAATAA
Found at i:13766308 original size:43 final size:43
Alignment explanation
Indices: 13766255--13766346 Score: 175
Period size: 43 Copynumber: 2.1 Consensus size: 43
13766245 GAAGCGAATA
13766255 AAGAAGATAAATGGAAAGATAGAACGTGGAGTGTGGAAGTCCT
1 AAGAAGATAAATGGAAAGATAGAACGTGGAGTGTGGAAGTCCT
*
13766298 AAGAAGATAAATGGAAAGATAGAACGTGGCGTGTGGAAGTCCT
1 AAGAAGATAAATGGAAAGATAGAACGTGGAGTGTGGAAGTCCT
13766341 AAGAAG
1 AAGAAG
13766347 CCTTGGAAAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.42, C:0.08, G:0.33, T:0.17
Consensus pattern (43 bp):
AAGAAGATAAATGGAAAGATAGAACGTGGAGTGTGGAAGTCCT
Found at i:13770955 original size:27 final size:27
Alignment explanation
Indices: 13770915--13771204 Score: 269
Period size: 27 Copynumber: 10.7 Consensus size: 27
13770905 GATTCGTGGG
**
13770915 AAAATGACTAAAATACCCCCGAAGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
*
13770942 AGAATGACCGAAATACCCCCGAAGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
* **
13770969 AGAATGACTAAAATACCCCCGAAGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
* * *
13770996 AAAATGATCAAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
** *
13771023 AAAATGATTGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
** *
13771050 AAAATGATTGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
** *
13771077 AAAATGACTAAAATACCCCCAAAGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
* * *
13771104 AAAATAATC-AGAATACCCCTGAAGGGT
1 AAAATGACCGA-AATACCCCCGAAGGGT
** *
13771131 AAAATGACCGAAATACCCCTAAAGTGT
1 AAAATGACCGAAATACCCCCGAAGGGT
*** * *
13771158 AAAATGAAAAAAATA-CCCCTATATGGT
1 AAAATGACCGAAATACCCCCGA-AGGGT
* *
13771185 AAAATAACTGAAATACCCCC
1 AAAATGACCGAAATACCCCC
13771205 ATAGGATAGA
Statistics
Matches: 224, Mismatches: 35, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
26 5 0.02
27 214 0.96
28 5 0.02
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (27 bp):
AAAATGACCGAAATACCCCCGAAGGGT
Found at i:13771002 original size:54 final size:54
Alignment explanation
Indices: 13770915--13771204 Score: 323
Period size: 54 Copynumber: 5.4 Consensus size: 54
13770905 GATTCGTGGG
* *
13770915 AAAATGACTAAAATACCCCCGAAGGGTAGAATGACCGAAATACCCCCGAAGGGT
1 AAAATGACTAAAATACCCCCGAAGGGTAAAATGATCGAAATACCCCCGAAGGGT
* * *
13770969 AGAATGACTAAAATACCCCCGAAGGGTAAAATGATCAAAATACCCTCGAAGGGT
1 AAAATGACTAAAATACCCCCGAAGGGTAAAATGATCGAAATACCCCCGAAGGGT
* * * * *
13771023 AAAATGATTGAAATACCCTCGAAGGGTAAAATGATTGAAATACCCTCGAAGGGT
1 AAAATGACTAAAATACCCCCGAAGGGTAAAATGATCGAAATACCCCCGAAGGGT
* * *
13771077 AAAATGACTAAAATACCCCCAAAGGGTAAAATAATC-AGAATACCCCTGAAGGGT
1 AAAATGACTAAAATACCCCCGAAGGGTAAAATGATCGA-AATACCCCCGAAGGGT
** ** * *** * *
13771131 AAAATGACCGAAATACCCCTAAAGTGTAAAATGAAAAAAATA-CCCCTATATGGT
1 AAAATGACTAAAATACCCCCGAAGGGTAAAATGATCGAAATACCCCCGA-AGGGT
* *
13771185 AAAATAACTGAAATACCCCC
1 AAAATGACTAAAATACCCCC
13771205 ATAGGATAGA
Statistics
Matches: 201, Mismatches: 32, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
53 5 0.02
54 195 0.97
55 1 0.00
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (54 bp):
AAAATGACTAAAATACCCCCGAAGGGTAAAATGATCGAAATACCCCCGAAGGGT
Found at i:13771050 original size:81 final size:80
Alignment explanation
Indices: 13770915--13771221 Score: 323
Period size: 81 Copynumber: 3.8 Consensus size: 80
13770905 GATTCGTGGG
* * * *
13770915 AAAATGACTAAAATACCCCCGAAGGGTAGAATGACCGAAATACCCCCGAAGGGTAGAATGACTAA
1 AAAATGACTAAAATACCCCCGAAGGGTAAAATGACTGAAATA-CCCCGAAGGGTAAAATGACTGA
13770980 AATACCCCCGAAGGGT
65 AATACCCCCGAAGGGT
* * *
13770996 AAAATGA-TCAAAATACCCTCGAAGGGTAAAATGATTGAAATACCCTCGAAGGGTAAAATGATTG
1 AAAATGACT-AAAATACCCCCGAAGGGTAAAATGACTGAAATACCC-CGAAGGGTAAAATGACTG
*
13771060 AAATACCCTCGAAGGGT
64 AAATACCCCCGAAGGGT
* * * *
13771077 AAAATGACTAAAATACCCCCAAAGGGTAAAAT-AATCAGAATACCCCTGAAGGGTAAAATGACCG
1 AAAATGACTAAAATACCCCCGAAGGGTAAAATGACTGA-AATACCCC-GAAGGGTAAAATGACTG
** *
13771141 AAATACCCCTAAAGTGT
64 AAATACCCCCGAAGGGT
** * * * * * *
13771158 AAAATGAAAAAAATA-CCCCTATATGGTAAAATAACTGAAATACCCCCATAGGATAGAATGACTG
1 AAAATGACTAAAATACCCCCGA-AGGGTAAAATGACTGAAATACCCCGA-AGGGTAAAATGACTG
13771222 TTATATCCCA
Statistics
Matches: 190, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
80 14 0.07
81 172 0.91
82 4 0.02
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.18
Consensus pattern (80 bp):
AAAATGACTAAAATACCCCCGAAGGGTAAAATGACTGAAATACCCCGAAGGGTAAAATGACTGAA
ATACCCCCGAAGGGT
Found at i:13771429 original size:26 final size:26
Alignment explanation
Indices: 13771400--13771472 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
13771390 CATATATTGA
* *
13771400 TACTGGCAGCTTTGCTGTGATACTGT
1 TACTGGCAGCTTTGCTGCGATACTAT
13771426 TACTGGCAG-TTTCGCTGCGATACTAT
1 TACTGGCAGCTTT-GCTGCGATACTAT
*
13771452 TACTAGCAGCTTTGCTGCGAT
1 TACTGGCAGCTTTGCTGCGAT
13771473 GTTGGTGTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
25 3 0.07
26 36 0.86
27 3 0.07
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.36
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCGATACTAT
Found at i:13776819 original size:16 final size:16
Alignment explanation
Indices: 13776798--13776830 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
13776788 ACATTCTTTC
13776798 TGCTTATATTTTATAT
1 TGCTTATATTTTATAT
13776814 TGCTTATATTTTATAT
1 TGCTTATATTTTATAT
13776830 T
1 T
13776831 CTCTAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.64
Consensus pattern (16 bp):
TGCTTATATTTTATAT
Found at i:13778708 original size:15 final size:16
Alignment explanation
Indices: 13778688--13778727 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
13778678 AAAATAATTT
13778688 AAAACTT-AAATTTTG
1 AAAACTTAAAATTTTG
13778703 AAAACTTAAAAATTTTG
1 AAAACTT-AAAATTTTG
13778720 AGAAACTT
1 A-AAACTT
13778728 TGGAACTCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.32
17 9 0.41
18 6 0.27
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.35
Consensus pattern (16 bp):
AAAACTTAAAATTTTG
Found at i:13779134 original size:114 final size:114
Alignment explanation
Indices: 13778934--13779140 Score: 326
Period size: 114 Copynumber: 1.8 Consensus size: 114
13778924 ATACAAACTA
* *
13778934 CAGAGAATATTTACTATTCATGCGTCTTTTCTTGCAGGGAATATTTACTGTTTTCACCAGAGAAT
1 CAGAGAATATTTACTATTCATGCATCTTTTCTTGCAGGGAATATTTACTGTTTTCACCAAAGAAT
**
13778999 ATTTCCTGTTCACTTTTCTTTTCTTGCAAGGAATATTTACTTTTTTCGC
66 ATTTCCTGTTCACTCGTCTTTTCTTGCAAGGAATATTTACTTTTTTCGC
* * * *
13779048 CAGAGAATATTTCCTATTCACT-TATCTTTTCTTGCATGGAATATTTACTGTTTTCGCCAAAGAA
1 CAGAGAATATTTACTATTCA-TGCATCTTTTCTTGCAGGGAATATTTACTGTTTTCACCAAAGAA
13779112 TATTTCCTGTTCACTCGTCTTTTCTTGCA
65 TATTTCCTGTTCACTCGTCTTTTCTTGCA
13779141 TCATTTTTTC
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
114 83 0.99
115 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.44
Consensus pattern (114 bp):
CAGAGAATATTTACTATTCATGCATCTTTTCTTGCAGGGAATATTTACTGTTTTCACCAAAGAAT
ATTTCCTGTTCACTCGTCTTTTCTTGCAAGGAATATTTACTTTTTTCGC
Found at i:13779141 original size:57 final size:57
Alignment explanation
Indices: 13778934--13779141 Score: 292
Period size: 57 Copynumber: 3.6 Consensus size: 57
13778924 ATACAAACTA
* * *
13778934 CAGAGAATATTTACTATTCA-TGCGTCTTTTCTTGCAGGGAATATTTACTGTTTTCAC
1 CAGAGAATATTTCCTATTCACT-CGTCTTTTCTTGCATGGAATATTTACTGTTTTCGC
* ** * *
13778991 CAGAGAATATTTCCTGTTCACTTTTCTTTTCTTGCAAGGAATATTTACTTTTTTCGC
1 CAGAGAATATTTCCTATTCACTCGTCTTTTCTTGCATGGAATATTTACTGTTTTCGC
**
13779048 CAGAGAATATTTCCTATTCACTTATCTTTTCTTGCATGGAATATTTACTGTTTTCGC
1 CAGAGAATATTTCCTATTCACTCGTCTTTTCTTGCATGGAATATTTACTGTTTTCGC
* *
13779105 CAAAGAATATTTCCTGTTCACTCGTCTTTTCTTGCAT
1 CAGAGAATATTTCCTATTCACTCGTCTTTTCTTGCAT
13779142 CATTTTTTCT
Statistics
Matches: 135, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
57 134 0.99
58 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.45
Consensus pattern (57 bp):
CAGAGAATATTTCCTATTCACTCGTCTTTTCTTGCATGGAATATTTACTGTTTTCGC
Found at i:13790821 original size:57 final size:56
Alignment explanation
Indices: 13790733--13790936 Score: 275
Period size: 57 Copynumber: 3.6 Consensus size: 56
13790723 ATACAAACTA
*
13790733 CAGAGAATATTTACTATTCA-TGTGTCTTTTCTTGCAGGGAATATTTACTGTTTTCGC
1 CAGAGAATATTTCCTATTCACT-TGTCTTTTCTTGCAGGGAATATTTACT-TTTTCGC
* * *
13790790 CAGAGAATATTTCCTGTTCACTTATCTTTTCTTGCAGGGAATATTTACTATTTCTGC
1 CAGAGAATATTTCCTATTCACTTGTCTTTTCTTGCAGGGAATATTTACTTTTTC-GC
* * * *
13790847 CAGAGAATATTTCTTGTTCATTTGTCTTTTCTTGCAGAGAATATTTACTATTTTCGC
1 CAGAGAATATTTCCTATTCACTTGTCTTTTCTTGCAGGGAATATTTACT-TTTTCGC
* *
13790904 CAGAGAATATTTCTTATTCACTCGTCTTTTCTT
1 CAGAGAATATTTCCTATTCACTTGTCTTTTCTT
13790937 ACATCATTTT
Statistics
Matches: 132, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
56 4 0.03
57 123 0.93
58 5 0.04
ACGTcount: A:0.23, C:0.18, G:0.14, T:0.46
Consensus pattern (56 bp):
CAGAGAATATTTCCTATTCACTTGTCTTTTCTTGCAGGGAATATTTACTTTTTCGC
Found at i:13794738 original size:20 final size:20
Alignment explanation
Indices: 13794676--13794739 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
13794666 AAAAAACTAA
*
13794676 ATTTTTAACGTAATACAAAT
1 ATTTTTAATGTAATACAAAT
13794696 ATTTTTAATGTAATACCAAAT
1 ATTTTTAATGTAATA-CAAAT
* * *
13794717 -TTTCTAATG-GATACTAAT
1 ATTTTTAATGTAATACAAAT
13794735 ATTTT
1 ATTTT
13794740 AAAGGCAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
18 4 0.11
19 6 0.16
20 22 0.59
21 5 0.14
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.45
Consensus pattern (20 bp):
ATTTTTAATGTAATACAAAT
Found at i:13795453 original size:20 final size:20
Alignment explanation
Indices: 13795391--13795454 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
13795381 AAAAAACTAA
*
13795391 ATTTTTAACGTAATACAAAT
1 ATTTTTAATGTAATACAAAT
13795411 ATTTTTAATGTAATACCAAAT
1 ATTTTTAATGTAATA-CAAAT
* * *
13795432 -TTTCTAATG-GATACTAAT
1 ATTTTTAATGTAATACAAAT
13795450 ATTTT
1 ATTTT
13795455 AAAGGCAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
18 4 0.11
19 6 0.16
20 22 0.59
21 5 0.14
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.45
Consensus pattern (20 bp):
ATTTTTAATGTAATACAAAT
Found at i:13795897 original size:715 final size:715
Alignment explanation
Indices: 13794527--13795956 Score: 2842
Period size: 715 Copynumber: 2.0 Consensus size: 715
13794517 TGATTTGAGT
13794527 TTATGATACTATCATGTTTGATTCTCACATAATAAATACATTGTTCTTATCTTAAATTATCAATC
1 TTATGATACTATCATGTTTGATTCTCACATAATAAATACATTGTTCTTATCTTAAATTATCAATC
13794592 ATCATACTGATTTGGGGTTCCCATGCTTAGTACATATTATTCGAGTAATTAAAAAAATTCATATT
66 ATCATACTGATTTGGGGTTCCCATGCTTAGTACATATTATTCGAGTAATTAAAAAAATTCATATT
13794657 CTTTTAAGAAAAAAACTAAATTTTTAACGTAATACAAATATTTTTAATGTAATACCAAATTTTCT
131 CTTTTAAGAAAAAAACTAAATTTTTAACGTAATACAAATATTTTTAATGTAATACCAAATTTTCT
13794722 AATGGATACTAATATTTTAAAGGCAATACTAAAATACCACAATTTTTAACGAGATCCTCTTAAAA
196 AATGGATACTAATATTTTAAAGGCAATACTAAAATACCACAATTTTTAACGAGATCCTCTTAAAA
13794787 ATTTTACTACTTGATTAGAAAGTTTTGTATACCAAAATCCGGAATCTAACAACCTTTGCCAAGAA
261 ATTTTACTACTTGATTAGAAAGTTTTGTATACCAAAATCCGGAATCTAACAACCTTTGCCAAGAA
13794852 GGTCGTCACTCGGCACCATCGATTGTCGCTCTCCGACAATCAATCAACACAAAAAATCCACCTTA
326 GGTCGTCACTCGGCACCATCGATTGTCGCTCTCCGACAATCAATCAACACAAAAAATCCACCTTA
13794917 AAATTATTTTGACCTTTTTCAAACTTGACATCAATTTTATTATGCCCATGCAAGGTGTTAGGTGT
391 AAATTATTTTGACCTTTTTCAAACTTGACATCAATTTTATTATGCCCATGCAAGGTGTTAGGTGT
13794982 CTAGATCGGTTTTCAAGCTCAGGCTCGACCCAACCTGAAAAATGACTTTACTTTTTTGCCCAAGC
456 CTAGATCGGTTTTCAAGCTCAGGCTCGACCCAACCTGAAAAATGACTTTACTTTTTTGCCCAAGC
13795047 CCGACCCAATTTAAGAAAGGTACACTGGGGGACGACCTAGTCAGTCCATTTTTGTTTTTTTTAGA
521 CCGACCCAATTTAAGAAAGGTACACTGGGGGACGACCTAGTCAGTCCATTTTTGTTTTTTTTAGA
13795112 TTAGTTTTTATTTAAAAATAATTTTAAAAAAAATATTGTACACTAAATGCACTAAAAAAGTTAAA
586 TTAGTTTTTATTTAAAAATAATTTTAAAAAAAATATTGTACACTAAATGCACTAAAAAAGTTAAA
13795177 ATAAAAATTTTCTAACACATTAAAAATAAATTAAAAAGTATTTATATTAAAAAACATTACCATAA
651 ATAAAAATTTTCTAACACATTAAAAATAAATTAAAAAGTATTTATATTAAAAAACATTACCATAA
13795242 TTATGATACTATCATGTTTGATTCTCACATAATAAATACATTGTTCTTATCTTAAATTATCAATC
1 TTATGATACTATCATGTTTGATTCTCACATAATAAATACATTGTTCTTATCTTAAATTATCAATC
13795307 ATCATACTGATTTGGGGTTCCCATGCTTAGTACATATTATTCGAGTAATTAAAAAAATTCATATT
66 ATCATACTGATTTGGGGTTCCCATGCTTAGTACATATTATTCGAGTAATTAAAAAAATTCATATT
13795372 CTTTTAAGAAAAAAACTAAATTTTTAACGTAATACAAATATTTTTAATGTAATACCAAATTTTCT
131 CTTTTAAGAAAAAAACTAAATTTTTAACGTAATACAAATATTTTTAATGTAATACCAAATTTTCT
13795437 AATGGATACTAATATTTTAAAGGCAATACTAAAATACCACAATTTTTAACGAGATCCTCTTAAAA
196 AATGGATACTAATATTTTAAAGGCAATACTAAAATACCACAATTTTTAACGAGATCCTCTTAAAA
13795502 ATTTTACTACTTGATTAGAAAGTTTTGTATACCAAAATCCGGAATCTAACAACCTTTGCCAAGAA
261 ATTTTACTACTTGATTAGAAAGTTTTGTATACCAAAATCCGGAATCTAACAACCTTTGCCAAGAA
13795567 GGTCGTCACTCGGCACCATCGATTGTCGCTCTCCGACAATCAATCAACACAAAAAATCCACCTTA
326 GGTCGTCACTCGGCACCATCGATTGTCGCTCTCCGACAATCAATCAACACAAAAAATCCACCTTA
13795632 AAATTATTTTGACCTTTTTCAAACTTGACATCAATTTTATTATGCCCATGCAAGGTGTTAGGTGT
391 AAATTATTTTGACCTTTTTCAAACTTGACATCAATTTTATTATGCCCATGCAAGGTGTTAGGTGT
13795697 CTAGATCGGTTTTCAAGCTCAGGCTCGACCCAACCTGAAAAATGACTTTACTTTTTTGCCCAAGC
456 CTAGATCGGTTTTCAAGCTCAGGCTCGACCCAACCTGAAAAATGACTTTACTTTTTTGCCCAAGC
13795762 CCGACCCAATTTAAGAAAGGTACACTGGGGGACGACCTAGTCAGTCCATTTTTGTTTTTTTTAGA
521 CCGACCCAATTTAAGAAAGGTACACTGGGGGACGACCTAGTCAGTCCATTTTTGTTTTTTTTAGA
13795827 TTAGTTTTTATTTAAAAATAATTTTAAAAAAAATATTGTACACTAAATGCACTAAAAAAGTTAAA
586 TTAGTTTTTATTTAAAAATAATTTTAAAAAAAATATTGTACACTAAATGCACTAAAAAAGTTAAA
* *
13795892 ATAAAAATTTTCTAACACATTAAACATAAATTAAAAAGTATTTATATTAAAAGACATTACCATAA
651 ATAAAAATTTTCTAACACATTAAAAATAAATTAAAAAGTATTTATATTAAAAAACATTACCATAA
13795957 ATATAATAAA
Statistics
Matches: 713, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
715 713 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (715 bp):
TTATGATACTATCATGTTTGATTCTCACATAATAAATACATTGTTCTTATCTTAAATTATCAATC
ATCATACTGATTTGGGGTTCCCATGCTTAGTACATATTATTCGAGTAATTAAAAAAATTCATATT
CTTTTAAGAAAAAAACTAAATTTTTAACGTAATACAAATATTTTTAATGTAATACCAAATTTTCT
AATGGATACTAATATTTTAAAGGCAATACTAAAATACCACAATTTTTAACGAGATCCTCTTAAAA
ATTTTACTACTTGATTAGAAAGTTTTGTATACCAAAATCCGGAATCTAACAACCTTTGCCAAGAA
GGTCGTCACTCGGCACCATCGATTGTCGCTCTCCGACAATCAATCAACACAAAAAATCCACCTTA
AAATTATTTTGACCTTTTTCAAACTTGACATCAATTTTATTATGCCCATGCAAGGTGTTAGGTGT
CTAGATCGGTTTTCAAGCTCAGGCTCGACCCAACCTGAAAAATGACTTTACTTTTTTGCCCAAGC
CCGACCCAATTTAAGAAAGGTACACTGGGGGACGACCTAGTCAGTCCATTTTTGTTTTTTTTAGA
TTAGTTTTTATTTAAAAATAATTTTAAAAAAAATATTGTACACTAAATGCACTAAAAAAGTTAAA
ATAAAAATTTTCTAACACATTAAAAATAAATTAAAAAGTATTTATATTAAAAAACATTACCATAA
Found at i:13796000 original size:28 final size:29
Alignment explanation
Indices: 13795955--13796011 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
13795945 ACATTACCAT
13795955 AAATATAATAAATGTTTTATTATATTAAA
1 AAATATAATAAATGTTTTATTATATTAAA
*
13795984 AAATAT-ATAATAT-TTTTATTTTATTAAA
1 AAATATAATAA-ATGTTTTATTATATTAAA
13796012 TATAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (29 bp):
AAATATAATAAATGTTTTATTATATTAAA
Found at i:13797963 original size:17 final size:17
Alignment explanation
Indices: 13797943--13797976 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
13797933 GAGTCGAGGG
13797943 AAAGTGAAAGTCTCGAA
1 AAAGTGAAAGTCTCGAA
13797960 AAAGTGAAAGTCTCGAA
1 AAAGTGAAAGTCTCGAA
13797977 TTAGTTCTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.24, T:0.18
Consensus pattern (17 bp):
AAAGTGAAAGTCTCGAA
Found at i:13798763 original size:329 final size:329
Alignment explanation
Indices: 13798165--13798813 Score: 1298
Period size: 329 Copynumber: 2.0 Consensus size: 329
13798155 CAGTGTTACA
13798165 TGGTAGTGTGTTTGAAAACCATAGGTTGTGTTGGAAAACCGTAACTTTGCTTAAAGCAGTTTCCA
1 TGGTAGTGTGTTTGAAAACCATAGGTTGTGTTGGAAAACCGTAACTTTGCTTAAAGCAGTTTCCA
13798230 CTTAGAAACTTTTCATTATTACTTGTTAATTCTAAAGTCGTGTTAATGAATCAGTCGAAATTTTT
66 CTTAGAAACTTTTCATTATTACTTGTTAATTCTAAAGTCGTGTTAATGAATCAGTCGAAATTTTT
13798295 CAAAACGTTTATTCTATGCGGAAGCTTTTAAATCAGTTTGCATATTTGAGCGTATTTTGTTAAAA
131 CAAAACGTTTATTCTATGCGGAAGCTTTTAAATCAGTTTGCATATTTGAGCGTATTTTGTTAAAA
13798360 CGTTTGTTTCTTTTTAAAAACTCGAATATTCCTAGTACTAGCAGTTGTAATTCGAACAATAGAAA
196 CGTTTGTTTCTTTTTAAAAACTCGAATATTCCTAGTACTAGCAGTTGTAATTCGAACAATAGAAA
13798425 CCCCAAATTAAAATAAAAAAAATCCAAAGAGGCCATAATTACAATAAAATACCCCCAAAAAATAA
261 CCCCAAATTAAAATAAAAAAAATCCAAAGAGGCCATAATTACAATAAAATACCCCCAAAAAATAA
13798490 AAAT
326 AAAT
13798494 TGGTAGTGTGTTTGAAAACCATAGGTTGTGTTGGAAAACCGTAACTTTGCTTAAAGCAGTTTCCA
1 TGGTAGTGTGTTTGAAAACCATAGGTTGTGTTGGAAAACCGTAACTTTGCTTAAAGCAGTTTCCA
13798559 CTTAGAAACTTTTCATTATTACTTGTTAATTCTAAAGTCGTGTTAATGAATCAGTCGAAATTTTT
66 CTTAGAAACTTTTCATTATTACTTGTTAATTCTAAAGTCGTGTTAATGAATCAGTCGAAATTTTT
13798624 CAAAACGTTTATTCTATGCGGAAGCTTTTAAATCAGTTTGCATATTTGAGCGTATTTTGTTAAAA
131 CAAAACGTTTATTCTATGCGGAAGCTTTTAAATCAGTTTGCATATTTGAGCGTATTTTGTTAAAA
13798689 CGTTTGTTTCTTTTTAAAAACTCGAATATTCCTAGTACTAGCAGTTGTAATTCGAACAATAGAAA
196 CGTTTGTTTCTTTTTAAAAACTCGAATATTCCTAGTACTAGCAGTTGTAATTCGAACAATAGAAA
13798754 CCCCAAATTAAAATAAAAAAAATCCAAAGAGGCCATAATTACAATAAAATACCCCCAAAA
261 CCCCAAATTAAAATAAAAAAAATCCAAAGAGGCCATAATTACAATAAAATACCCCCAAAA
13798814 TAGAATAAAA
Statistics
Matches: 320, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
329 320 1.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.34
Consensus pattern (329 bp):
TGGTAGTGTGTTTGAAAACCATAGGTTGTGTTGGAAAACCGTAACTTTGCTTAAAGCAGTTTCCA
CTTAGAAACTTTTCATTATTACTTGTTAATTCTAAAGTCGTGTTAATGAATCAGTCGAAATTTTT
CAAAACGTTTATTCTATGCGGAAGCTTTTAAATCAGTTTGCATATTTGAGCGTATTTTGTTAAAA
CGTTTGTTTCTTTTTAAAAACTCGAATATTCCTAGTACTAGCAGTTGTAATTCGAACAATAGAAA
CCCCAAATTAAAATAAAAAAAATCCAAAGAGGCCATAATTACAATAAAATACCCCCAAAAAATAA
AAAT
Found at i:13804741 original size:28 final size:28
Alignment explanation
Indices: 13804685--13804744 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
13804675 ACCACCCTAT
*
13804685 TTTATTTTATATTTGAATTATGTTTGAA
1 TTTATTTTATATTTGAATTATGTTAGAA
*
13804713 TTTA-TTTATATGTTAGAATTGTG-TAGAA
1 TTTATTTTATAT-TT-GAATTATGTTAGAA
13804741 TTTA
1 TTTA
13804745 GTGATTTTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.25
28 14 0.50
29 7 0.25
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (28 bp):
TTTATTTTATATTTGAATTATGTTAGAA
Found at i:13805107 original size:30 final size:30
Alignment explanation
Indices: 13805073--13805129 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
13805063 GAGTAACATC
* * *
13805073 GATATACTGTTAGCTTGTGTGAGCAACCCT
1 GATATACTGTCAGCTTGTCTGAACAACCCT
*
13805103 GATATATTGTCAGCTTGTCTGAACAAC
1 GATATACTGTCAGCTTGTCTGAACAAC
13805130 TTTTTCCCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (30 bp):
GATATACTGTCAGCTTGTCTGAACAACCCT
Found at i:13805232 original size:10 final size:11
Alignment explanation
Indices: 13805213--13805241 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
13805203 TAAATGCAAA
13805213 TTTGATATATG
1 TTTGATATATG
13805224 TTT-ATATATG
1 TTTGATATATG
13805234 TTTGATAT
1 TTTGATAT
13805242 TTGATATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (11 bp):
TTTGATATATG
Found at i:13806396 original size:13 final size:11
Alignment explanation
Indices: 13806360--13806390 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
13806350 TCATCCGTAT
13806360 TAATTTTTATA
1 TAATTTTTATA
*
13806371 TTATTTTTATA
1 TAATTTTTATA
13806382 TAATTTTTA
1 TAATTTTTA
13806391 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:13806564 original size:30 final size:29
Alignment explanation
Indices: 13806512--13806591 Score: 128
Period size: 30 Copynumber: 2.8 Consensus size: 29
13806502 ACTTAACAAG
*
13806512 CAAATGCCTCTAAAATATAACAAAATTAA
1 CAAATGCCTTTAAAATATAACAAAATTAA
13806541 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTTTAAAAT-ATAACAAAATTAA
13806571 CAAATGCCTTT-AAAT-TAACAA
1 CAAATGCCTTTAAAATATAACAA
13806592 TAAAATAAGT
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
27 6 0.12
29 19 0.39
30 24 0.49
ACGTcount: A:0.54, C:0.16, G:0.04, T:0.26
Consensus pattern (29 bp):
CAAATGCCTTTAAAATATAACAAAATTAA
Found at i:13806646 original size:22 final size:22
Alignment explanation
Indices: 13806620--13806668 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
13806610 ATATCCAAAC
13806620 AATAACAATAAAATAGTAGCAA
1 AATAACAATAAAATAGTAGCAA
* * * *
13806642 CATAATAGTAAAATGGTAGCAA
1 AATAACAATAAAATAGTAGCAA
13806664 AATAA
1 AATAA
13806669 GGAGAAAACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.08, G:0.12, T:0.20
Consensus pattern (22 bp):
AATAACAATAAAATAGTAGCAA
Found at i:13809549 original size:13 final size:13
Alignment explanation
Indices: 13809533--13809565 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
13809523 AAAAACAAAA
13809533 AAATAAATAAGAT
1 AAATAAATAAGAT
*
13809546 AAATAAATAGGAT
1 AAATAAATAAGAT
13809559 -AATAAAT
1 AAATAAAT
13809566 CAAAGATTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (13 bp):
AAATAAATAAGAT
Found at i:13810537 original size:23 final size:23
Alignment explanation
Indices: 13810507--13810565 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
13810497 ACAATAGCAT
13810507 ATCAACATCATCATTTTT-AAAAA
1 ATCAACATCATC-TTTTTAAAAAA
13810530 ATCAACATCATCTTTTTAAAAAA
1 ATCAACATCATCTTTTTAAAAAA
13810553 ATCAACATCATCT
1 ATCAACATCATCT
13810566 CTCCCTTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
22 5 0.14
23 30 0.86
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (23 bp):
ATCAACATCATCTTTTTAAAAAA
Found at i:13815121 original size:20 final size:20
Alignment explanation
Indices: 13815098--13815177 Score: 108
Period size: 20 Copynumber: 4.0 Consensus size: 20
13815088 ATTACATATA
*
13815098 TTGGTATCCTGTCAGAAATT
1 TTGGTATCCTGTTAGAAATT
**
13815118 TTGGTATTTTGTTAGAAATT
1 TTGGTATCCTGTTAGAAATT
13815138 TTGGTAT-CTGTTAGAAATT
1 TTGGTATCCTGTTAGAAATT
* *
13815157 TTAGTATCGTGTTAGAAATT
1 TTGGTATCCTGTTAGAAATT
13815177 T
1 T
13815178 AGTACATGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
19 17 0.32
20 36 0.68
ACGTcount: A:0.26, C:0.06, G:0.20, T:0.47
Consensus pattern (20 bp):
TTGGTATCCTGTTAGAAATT
Found at i:13815170 original size:39 final size:40
Alignment explanation
Indices: 13815098--13815177 Score: 117
Period size: 39 Copynumber: 2.0 Consensus size: 40
13815088 ATTACATATA
* **
13815098 TTGGTATCCTGTCAGAAATTTTGGTATTTTGTTAGAAATT
1 TTGGTATCCTGTCAGAAATTTTAGTATCGTGTTAGAAATT
*
13815138 TTGGTAT-CTGTTAGAAATTTTAGTATCGTGTTAGAAATT
1 TTGGTATCCTGTCAGAAATTTTAGTATCGTGTTAGAAATT
13815177 T
1 T
13815178 AGTACATGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 29 0.81
40 7 0.19
ACGTcount: A:0.26, C:0.06, G:0.20, T:0.47
Consensus pattern (40 bp):
TTGGTATCCTGTCAGAAATTTTAGTATCGTGTTAGAAATT
Found at i:13815304 original size:19 final size:19
Alignment explanation
Indices: 13815271--13815322 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
13815261 ATTGGCATCA
*
13815271 CATTAAAAATTTTGGTATT
1 CATTAGAAATTTTGGTATT
*
13815290 CCA-TAGAATTTTTGGTATT
1 -CATTAGAAATTTTGGTATT
13815309 CATTAGAAATTTTG
1 CATTAGAAATTTTG
13815323 ATATACTAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 2 0.07
19 24 0.86
20 2 0.07
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.46
Consensus pattern (19 bp):
CATTAGAAATTTTGGTATT
Found at i:13815500 original size:20 final size:20
Alignment explanation
Indices: 13815462--13815500 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13815452 TAATGGTTTC
*
13815462 CATTAGAAATATTGTTATTG
1 CATTAGAAATATTGGTATTG
*
13815482 CATTAGAAATTTTGGTATT
1 CATTAGAAATATTGGTATT
13815501 AACTTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.46
Consensus pattern (20 bp):
CATTAGAAATATTGGTATTG
Found at i:13822318 original size:24 final size:24
Alignment explanation
Indices: 13822282--13822329 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
13822272 AGAGCAATCA
* *
13822282 TCCATCCATCCACCCGCCCGCCCG
1 TCCACCCAGCCACCCGCCCGCCCG
*
13822306 TCCACCCAGCCACCCGCCCTCCCG
1 TCCACCCAGCCACCCGCCCGCCCG
13822330 CCAATNNNNN
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.12, C:0.65, G:0.12, T:0.10
Consensus pattern (24 bp):
TCCACCCAGCCACCCGCCCGCCCG
Found at i:13847515 original size:50 final size:50
Alignment explanation
Indices: 13847400--13847591 Score: 258
Period size: 50 Copynumber: 3.8 Consensus size: 50
13847390 GATAATAACA
* * * ** *
13847400 TGCCAAAGGCATGTCCTAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
13847451 TGCCCATGTCATGTCTCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
13847501 TGACAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
13847551 TGCCAATGCCATGACCCAGACATGGTCTTACATGGGACCTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTC
13847592 ATTCCCTTAA
Statistics
Matches: 124, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 92 0.74
51 32 0.26
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:13863538 original size:27 final size:25
Alignment explanation
Indices: 13863484--13863538 Score: 58
Period size: 26 Copynumber: 2.1 Consensus size: 25
13863474 AATTCCTCTC
**
13863484 AAAGCTCTTTTTAATTTTTTTCGAA
1 AAAGCTCTTTTTAATTTTTTTAAAA
13863509 AAAGCTCTAATTTT-ATTTTTTTAAATA
1 AAAGCTCT--TTTTAATTTTTTTAAA-A
13863536 AAA
1 AAA
13863539 AAATTGATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 8 0.32
26 9 0.36
27 8 0.32
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.49
Consensus pattern (25 bp):
AAAGCTCTTTTTAATTTTTTTAAAA
Found at i:13865281 original size:18 final size:18
Alignment explanation
Indices: 13865258--13865301 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
13865248 ATGCCAGGTG
* *
13865258 TGTATCCTAGCCCTTTTA
1 TGTATCCTAACCCTTATA
13865276 TGTATCCTAACCCTTATA
1 TGTATCCTAACCCTTATA
*
13865294 TGTTTCCT
1 TGTATCCT
13865302 TTTTCTAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.27, G:0.09, T:0.45
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:13868979 original size:125 final size:125
Alignment explanation
Indices: 13868757--13869046 Score: 526
Period size: 125 Copynumber: 2.3 Consensus size: 125
13868747 TCAGGCCAAA
* * *
13868757 TAGGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACATTGC
1 TAGGAACTACTGTAGTAAAATAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGC
* *
13868822 ATCCTACTTGAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATTTTT
66 ATCCTACTTAAAACGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATTTTT
13868882 TAGGAACTACTGTAGTAAAATAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGC
1 TAGGAACTACTGTAGTAAAATAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGC
*
13868947 ATCCTGCTTAAAACGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATTTTT
66 ATCCTACTTAAAACGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATTTTT
13869007 TAGGAACTACTGTAGTAAAATAGCGTCCACGTGGGAGCTT
1 TAGGAACTACTGTAGTAAAATAGCGTCCACGTGGGAGCTT
13869047 TTTTAAATTA
Statistics
Matches: 159, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
125 159 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (125 bp):
TAGGAACTACTGTAGTAAAATAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGC
ATCCTACTTAAAACGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATTTTT
Found at i:13869289 original size:95 final size:96
Alignment explanation
Indices: 13869086--13869515 Score: 611
Period size: 95 Copynumber: 4.5 Consensus size: 96
13869076 CTAAACCCCA
* * * *
13869086 AACCCCAAACCTTAATTTATTTGATTTTTCCTTAAAAACCTTAAACACTAAACCCTAATCTAATT
1 AACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAAACCATAAACACTAAACCCTAATCTAA--
13869151 TTTTTTTAAAATTTATAATTAATTTACTCAAGT
64 TTTTTTTAAAATTTATAATTAATTTACTCAAGT
*
13869184 AACTCC-AAACCCTAATTTATTTGATTTTTTCTT-AAAACCCTAAACACTAAACCCTAATCTAAT
1 AAC-CCTAAACCCTAATTTATTTGATTTTTTCTTAAAAACCATAAACACTAAACCCTAATCTAAT
13869247 TTTTTTAAAATTTATAATTAATTTACTCAAGT
65 TTTTTTAAAATTTATAATTAATTTACTCAAGT
* * *
13869279 AACCCTAAACCTTAATTTATTTGATTTTTTTCTTAAAAAACC-TAAACCCTAAACTCTAATCTAA
1 AACCCTAAACCCTAATTTATTTGA-TTTTTTCTT-AAAAACCATAAACACTAAACCCTAATCTAA
13869343 TTTTTTTAAAAATTTATAATTAATTTACTCAAGT
64 TTTTTTT-AAAATTTATAATTAATTTACTCAAGT
* *
13869377 AACCCTAAACACTAATTTATTTGATTTTTTCTTAAAAACTATAAACACTAAACCCTAATCTAA-T
1 AACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAAACCATAAACACTAAACCCTAATCTAATT
* * * * *
13869441 TTTTTAAAATTTATAATTACTTGAATTAAGA
66 TTTTTAAAATTTATAATTAATTTACTCAAGT
*
13869472 AACCCTAAACCCTTATTTATTT-ATTTTTTCCTT-AAAACCATAAA
1 AACCCTAAACCCTAATTTATTTGATTTTTT-CTTAAAAACCATAAA
13869516 ATCTAAAAAC
Statistics
Matches: 305, Mismatches: 19, Indels: 20
0.89 0.06 0.06
Matches are distributed among these distances:
94 19 0.06
95 97 0.32
96 21 0.07
97 84 0.28
98 82 0.27
99 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.41
Consensus pattern (96 bp):
AACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAAACCATAAACACTAAACCCTAATCTAATT
TTTTTAAAATTTATAATTAATTTACTCAAGT
Found at i:13869397 original size:193 final size:195
Alignment explanation
Indices: 13869085--13869508 Score: 648
Period size: 193 Copynumber: 2.2 Consensus size: 195
13869075 CCTAAACCCC
*
13869085 AAACCCCAAACCTTAATTTATTTGA-TTTTTCCTT-AAAAACCTTAAACACTAAACCCTAATCTA
1 AAACCCTAAACCTTAATTTATTTGATTTTTTCCTTAAAAAACCTTAAACACTAAACCCTAATCTA
* *
13869148 ATTTTTTTTTAAAATTTATAATTAATTTACTCAAGTAACTCCAAACCCTAATTTATTTGATTTTT
66 ATTTTTTTTAAAAATTTATAATTAATTTACTCAAGTAACTCCAAACACTAATTTATTTGATTTTT
* * *
13869213 TCTT-AAAACCCTAAACACTAAACCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAA
131 TCTTAAAAACCATAAACACTAAACCCTAATCTAA-TTTTTTAAAATTTATAATTAATTGAATCAA
13869277 G
195 G
* * * *
13869278 TAACCCTAAACCTTAATTTATTTGATTTTTTTCTTAAAAAACC-TAAACCCTAAACTCTAATCTA
1 AAACCCTAAACCTTAATTTATTTGATTTTTTCCTTAAAAAACCTTAAACACTAAACCCTAATCTA
13869342 A-TTTTTTTAAAAATTTATAATTAATTTACTCAAGTAAC-CCTAAACACTAATTTATTTGATTTT
66 ATTTTTTTTAAAAATTTATAATTAATTTACTCAAGTAACTCC-AAACACTAATTTATTTGATTTT
* * *
13869405 TTCTTAAAAACTATAAACACTAAACCCTAATCTAATTTTTTAAAATTTATAATTACTTGAATTAA
130 TTCTTAAAAACCATAAACACTAAACCCTAATCTAATTTTTTAAAATTTATAATTAATTGAATCAA
13869470 G
195 G
13869471 AAACCCTAAACCCTT-ATTTATTT-ATTTTTTCCTTAAAA
1 AAACCCTAAA-CCTTAATTTATTTGATTTTTTCCTTAAAA
13869509 CCATAAAATC
Statistics
Matches: 211, Mismatches: 15, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
192 16 0.08
193 129 0.61
194 59 0.28
195 7 0.03
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.42
Consensus pattern (195 bp):
AAACCCTAAACCTTAATTTATTTGATTTTTTCCTTAAAAAACCTTAAACACTAAACCCTAATCTA
ATTTTTTTTAAAAATTTATAATTAATTTACTCAAGTAACTCCAAACACTAATTTATTTGATTTTT
TCTTAAAAACCATAAACACTAAACCCTAATCTAATTTTTTAAAATTTATAATTAATTGAATCAAG
Found at i:13869690 original size:40 final size:41
Alignment explanation
Indices: 13869589--13869690 Score: 129
Period size: 40 Copynumber: 2.5 Consensus size: 41
13869579 CAGGGAAAAT
13869589 GCTTCCTCAAGGAAGCG-TTT-TGTCTACGTGGACACAAAGC
1 GCTTCCTCAAGGAAGCGTTTTCTGTCTACGTGGA-ACAAAGC
** *
13869629 GCACCCTCAAGGACGCGTTTTCTGTCTACGTGG-ACAAAGC
1 GCTTCCTCAAGGAAGCGTTTTCTGTCTACGTGGAACAAAGC
* *
13869669 GCTTCCTTAATGAAGCGTTTTC
1 GCTTCCTCAAGGAAGCGTTTTC
13869691 CTACTTTATC
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
40 38 0.73
41 3 0.06
42 11 0.21
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (41 bp):
GCTTCCTCAAGGAAGCGTTTTCTGTCTACGTGGAACAAAGC
Found at i:13870674 original size:41 final size:42
Alignment explanation
Indices: 13870612--13870703 Score: 161
Period size: 41 Copynumber: 2.2 Consensus size: 42
13870602 TGAATATCAA
*
13870612 TCATGCAGTGAAGGCTTTTTGCTTTAAATTTCTAGGTTGATT
1 TCATGCAGTGAAGGCTGTTTGCTTTAAATTTCTAGGTTGATT
13870654 T-ATGCAGTGAAGGCTGTTTGCTTTAAATTTCTAGGTTGATT
1 TCATGCAGTGAAGGCTGTTTGCTTTAAATTTCTAGGTTGATT
13870695 TCATG-AGTG
1 TCATGCAGTG
13870704 TACATCATGC
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
41 44 0.92
42 4 0.08
ACGTcount: A:0.22, C:0.11, G:0.24, T:0.43
Consensus pattern (42 bp):
TCATGCAGTGAAGGCTGTTTGCTTTAAATTTCTAGGTTGATT
Found at i:13871139 original size:17 final size:17
Alignment explanation
Indices: 13871109--13871141 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13871099 ATTGTTACCC
13871109 TTGTTGATGATGATGAT
1 TTGTTGATGATGATGAT
13871126 TTGTGTGATG-TGATGA
1 TTGT-TGATGATGATGA
13871142 GGCAACGCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.45
Consensus pattern (17 bp):
TTGTTGATGATGATGAT
Found at i:13875444 original size:16 final size:16
Alignment explanation
Indices: 13875423--13875462 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
13875413 GCCTACTCCT
13875423 CCCAATTTAAACCCAG
1 CCCAATTTAAACCCAG
* *
13875439 CCCAATTTAAATCTAG
1 CCCAATTTAAACCCAG
13875455 CCCAATTT
1 CCCAATTT
13875463 TCACAACACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.35, C:0.33, G:0.05, T:0.28
Consensus pattern (16 bp):
CCCAATTTAAACCCAG
Done.