Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 310 of 333
Found at i:101556751 original size:40 final size:39
Alignment explanation
Indices: 101556666--101556779 Score: 106
Period size: 40 Copynumber: 2.9 Consensus size: 39
101556656 CGTCAAATAG
* *
101556666 ACCG-AACACACCATACAGAAGCTCATAAGAGCTTATCCA
1 ACCGAAACACGCCA-ACAAAAGCTCATAAGAGCTTATCCA
* * *
101556705 ATCGAAATACGCCAAACAAAAGCTCATAAGAG-TTGGTCCA
1 ACCGAAACACGCC-AACAAAAGCTCATAAGAGCTT-ATCCA
* * * *
101556745 CCCGAAACACGTCAACAGAAGCTCATAAAAGCTTA
1 ACCGAAACACGCCAACAAAAGCTCATAAGAGCTTA
101556780 ATAGAAACTC
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
39 21 0.36
40 37 0.63
41 1 0.02
ACGTcount: A:0.42, C:0.27, G:0.15, T:0.16
Consensus pattern (39 bp):
ACCGAAACACGCCAACAAAAGCTCATAAGAGCTTATCCA
Found at i:101561780 original size:17 final size:17
Alignment explanation
Indices: 101561760--101561793 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
101561750 AGGCTTAGGT
*
101561760 TTAAAAATTTTGATTAA
1 TTAAAAATTTTAATTAA
*
101561777 TTAAAATTTTTAATTAA
1 TTAAAAATTTTAATTAA
101561794 AAATCTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:101570094 original size:21 final size:21
Alignment explanation
Indices: 101570064--101570108 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
101570054 GAAGGATCAA
101570064 ATGCTAGAGTC-CTAGAAAAAC
1 ATGCTAGAGTCAC-AGAAAAAC
* *
101570085 ATGCTGGAGTCACAGAACAAC
1 ATGCTAGAGTCACAGAAAAAC
101570106 ATG
1 ATG
101570109 ATGAGCCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (21 bp):
ATGCTAGAGTCACAGAAAAAC
Found at i:101578107 original size:135 final size:135
Alignment explanation
Indices: 101577865--101578577 Score: 1030
Period size: 135 Copynumber: 5.3 Consensus size: 135
101577855 AAAGACAGAT
* * * * * * *
101577865 ATCATCAGCCTTATCTTTACTGAGCAGAAGTGGAGCAGGTTAAACATACCCGATCTTATCTTCAC
1 ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAT
*
101577930 TGAGCAGGAGTGAAGCAGATCGAGTTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
66 TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
*
101577995 TTCTA
131 TTCCA
*
101578000 ATCATCAACCTTATCTTCACTGAGTAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAT
1 ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAT
*
101578065 TGAGCAAGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
66 TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
101578130 TTCCA
131 TTCCA
* *
101578135 ATCATCAACCTTATCTTCACTGAGCATGAGTGGAGTAGGCTAAATATACCAGATCTTATCTTCAT
1 ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAT
* *
101578200 TGAGCAGGAGTGAAGTAGATCGAATTTTGGAGAATCTTATCTCCATGTACCGGCGATGGAGCAGA
66 TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
101578265 TTCCA
131 TTCCA
101578270 ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAT
1 ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAT
* ** **
101578335 TGAGCAAGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATTAAATAGA
66 TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
101578400 TTCCA
131 TTCCA
* * * * **
101578405 ATCATCAGCTTTATCTTCGCTGAGCAGGAGTGGAGCAGGCTAAATATACCAGGTCTTATCTTCGC
1 ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAT
* * * * * * * * * * *
101578470 TGAGCAGGAGCGGAGCAGACCAAATTTCGGTGAATCTTATCTCCATGGATCGACAATGGAGCAGA
66 TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
*
101578535 TTTCA
131 TTCCA
** * * * *
101578540 GCCACCAATCTTATTTTCACTAAGCAGGAGTGGAGCAG
1 ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAG
101578578 ATCAGATTTC
Statistics
Matches: 520, Mismatches: 58, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
135 520 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (135 bp):
ATCATCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAT
TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
TTCCA
Found at i:101578331 original size:45 final size:46
Alignment explanation
Indices: 101577874--101578352 Score: 174
Period size: 45 Copynumber: 10.6 Consensus size: 46
101577864 TATCATCAGC
* * * * *
101577874 CTTATCTTTACTGAGCAGAAGTGGAGCAGG-TTAAACATACCCGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTCAAATATACCAGAT
* * * * * ***
101577919 CTTATCTTCACTGAGCAGGAGTGAAGCA-GATCGAGTTTTGGAGAAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTCAAATATACCAG-AT
* * * ** * *
101577965 CTTATCTCCAC-GTA-CCGGCGATGGAGCAGATTCTAATCAT--CA-AC
1 CTTATCTTCACTG-AGCAGGAG-TGGAGCAGGCTCAAAT-ATACCAGAT
*
101578009 CTTATCTTCACTGAGTAGGAGTGGAGCAGGCT-AAATATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTCAAATATACCAGAT
* * * * * * ***
101578054 CTTATCTTCATTGAGCAAGAGTGAAGCA-GATCGAATTTTGGAGAAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTCAAATATACCAG-AT
* * * ** * *
101578100 CTTATCTCCAC-GTA-CCGGCGATGGAGCAGATTCCAATCAT--CA-AC
1 CTTATCTTCACTG-AGCAGGAG-TGGAGCAGGCTCAAAT-ATACCAGAT
* *
101578144 CTTATCTTCACTGAGCATGAGTGGAGTAGGCT-AAATATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTCAAATATACCAGAT
* * * * * * ***
101578189 CTTATCTTCATTGAGCAGGAGTGAAGTA-GATCGAATTTTGGAGAAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTCAAATATACCAG-AT
* * * ** * *
101578235 CTTATCTCCA-TGTA-CCGGCGATGGAGCAGATTCCAATCAT--CA-AC
1 CTTATCTTCACTG-AGCAGGAG-TGGAGCAGGCTCAAAT-ATACCAGAT
101578279 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAATATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTCAAATATACCAGAT
* * *
101578324 CTTATCTTCATTGAGCAAGAGTGAAGCAG
1 CTTATCTTCACTGAGCAGGAGTGGAGCAG
101578353 ATCGAATTTT
Statistics
Matches: 309, Mismatches: 92, Indels: 66
0.66 0.20 0.14
Matches are distributed among these distances:
42 6 0.02
43 9 0.03
44 72 0.23
45 148 0.48
46 57 0.18
47 14 0.05
48 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (46 bp):
CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTCAAATATACCAGAT
Found at i:101580317 original size:46 final size:46
Alignment explanation
Indices: 101580267--101580442 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
101580257 TGGTTGAGCA
101580267 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
101580313 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
101580358 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
101580406 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
101580443 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:101580423 original size:93 final size:93
Alignment explanation
Indices: 101580264--101580435 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
101580254 GGATGGTTGA
* *
101580264 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
101580329 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
101580357 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
101580422 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
101580436 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:101582866 original size:17 final size:17
Alignment explanation
Indices: 101582844--101582886 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
101582834 GTTATATTAT
101582844 TATTTTTTACTAATAAG
1 TATTTTTTACTAATAAG
* *
101582861 TATTTTTATACTATTTAG
1 TATTTTT-TACTAATAAG
101582879 T-TTTTTTA
1 TATTTTTTA
101582887 AGCTCATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 2 0.09
17 12 0.52
18 9 0.39
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.63
Consensus pattern (17 bp):
TATTTTTTACTAATAAG
Found at i:101583166 original size:2 final size:2
Alignment explanation
Indices: 101583159--101583188 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
101583149 CATATTCTTT
101583159 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
101583189 TTTATTCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:101584886 original size:18 final size:17
Alignment explanation
Indices: 101584854--101584898 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
101584844 TATCATAGGG
**
101584854 TTTTAAAATTTTATAAA
1 TTTTAAAATAATATAAA
*
101584871 TATTTTAAATAATATAAA
1 T-TTTAAAATAATATAAA
101584889 TTTTAAAATA
1 TTTTAAAATA
101584899 TATTAGAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTTAAAATAATATAAA
Found at i:101584914 original size:27 final size:27
Alignment explanation
Indices: 101584859--101584915 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
101584849 TAGGGTTTTA
*
101584859 AAATTTTATAAATATTTTAAATAATAT
1 AAATTTTATAAATATTTGAAATAATAT
101584886 AAATTTTA-AAATATATTAGAAATAA-AT
1 AAATTTTATAAATAT-TT-GAAATAATAT
101584913 AAA
1 AAA
101584916 AAATATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 6 0.22
27 15 0.56
28 6 0.22
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
AAATTTTATAAATATTTGAAATAATAT
Found at i:101591424 original size:16 final size:16
Alignment explanation
Indices: 101591400--101591433 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
101591390 ACGCGATAAG
*
101591400 TAATATTACATTTCAA
1 TAATATTACATTCCAA
*
101591416 TAATTTTACATTCCAA
1 TAATATTACATTCCAA
101591432 TA
1 TA
101591434 GTCAAATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATATTACATTCCAA
Found at i:101595013 original size:37 final size:37
Alignment explanation
Indices: 101594928--101595013 Score: 95
Period size: 37 Copynumber: 2.3 Consensus size: 37
101594918 ACATGTCACT
* *
101594928 TTTTAATATATATTAAGTAAATACCATTTCCATGTCA
1 TTTTAATATATATCAAGTAAATACCATTTCCAAGTCA
* * *
101594965 TGTTTCA-ATATATCATGTAAATATCATTTCCAAGT-A
1 T-TTTAATATATATCAAGTAAATACCATTTCCAAGTCA
101595001 TTTTAAGTATATA
1 TTTTAA-TATATA
101595014 CCGATAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
35 4 0.10
36 2 0.05
37 30 0.75
38 4 0.10
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (37 bp):
TTTTAATATATATCAAGTAAATACCATTTCCAAGTCA
Found at i:101596851 original size:10 final size:10
Alignment explanation
Indices: 101596836--101596884 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
101596826 TCTTTCTCTT
101596836 TTTCTTTTTC
1 TTTCTTTTTC
101596846 TTTCTTTTTC
1 TTTCTTTTTC
**
101596856 GTTTGGTTTTC
1 -TTTCTTTTTC
*
101596867 TATTCTGTTTC
1 T-TTCTTTTTC
101596878 TTTCTTT
1 TTTCTTT
101596885 ATTTGTTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
10 16 0.52
11 15 0.48
ACGTcount: A:0.02, C:0.16, G:0.08, T:0.73
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:101596903 original size:5 final size:5
Alignment explanation
Indices: 101596893--101596983 Score: 82
Period size: 5 Copynumber: 18.4 Consensus size: 5
101596883 TTATTTGTTT
* *
101596893 TATAA TATAA TATAA TATAA TATAA TATAG TATAA TATAG TATAA TAT-A
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
* * *
101596942 TATAC T-TAA -ACATT TATAA TAT-A TATAA TAATATA TATAA TA
1 TATAA TATAA TATA-A TATAA TATAA TATAA T-ATA-A TATAA TA
101596984 AACTTATAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
4 11 0.16
5 48 0.70
6 8 0.12
7 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:101599972 original size:42 final size:42
Alignment explanation
Indices: 101599851--101600016 Score: 124
Period size: 43 Copynumber: 3.9 Consensus size: 42
101599841 GGAATGTGAA
* * *
101599851 CATCG-ATCTGAGATATCGTGTAAGACCGTGTCTGGGATACAGG
1 CATCGTATCTGAG-TTTCGTGTAAGACCATGTCTGGGACAC-GG
* * * *
101599894 CCTC-TATTTGAGTTTACATGTAAGACCATGTTTGGGACATCGG
1 CATCGTATCTGAGTTT-CGTGTAAGACCATGTCTGGGACA-CGG
* *
101599937 CATCGTATCTGA-TTTCGTGTAAGACCCTGTCTGGGACAAAGG
1 CATCGTATCTGAGTTTCGTGTAAGACCATGTCTGGGAC-ACGG
* * * * *
101599979 CATCG-ATACTGAATTACATGTAAAACCACGTCTGGGAC
1 CATCGTAT-CTGAGTTTCGTGTAAGACCATGTCTGGGAC
101600017 GTCAGCATTG
Statistics
Matches: 98, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
41 2 0.02
42 32 0.33
43 57 0.58
44 7 0.07
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (42 bp):
CATCGTATCTGAGTTTCGTGTAAGACCATGTCTGGGACACGG
Found at i:101600015 original size:43 final size:42
Alignment explanation
Indices: 101599907--101600016 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
101599897 CTATTTGAGT
* * **
101599907 TTACATGTAAGACCATGTTTGGGACATCGGCATCGTATCTGA
1 TTACATGTAAGACCACGTCTGGGACAAAGGCATCGTATCTGA
* *
101599949 TTTCGTGTAAGACC-CTGTCTGGGACAAAGGCATCG-ATACTGAA
1 TTACATGTAAGACCAC-GTCTGGGACAAAGGCATCGTAT-CTG-A
*
101599992 TTACATGTAAAACCACGTCTGGGAC
1 TTACATGTAAGACCACGTCTGGGAC
101600017 GTCAGCATTG
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
41 2 0.04
42 31 0.56
43 21 0.38
44 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (42 bp):
TTACATGTAAGACCACGTCTGGGACAAAGGCATCGTATCTGA
Found at i:101602975 original size:31 final size:31
Alignment explanation
Indices: 101602916--101602979 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
101602906 AAACCTAGAG
* * *
101602916 TTGACAATTTTTCTCACATTAGGACTTGAAT
1 TTGACAATTATTCCCACATTAAGACTTGAAT
101602947 TTGACAATTATTCCCACATTAA-AGCTTGAAT
1 TTGACAATTATTCCCACATTAAGA-CTTGAAT
101602978 TT
1 TT
101602980 TAGGGTTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 1 0.03
31 28 0.97
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (31 bp):
TTGACAATTATTCCCACATTAAGACTTGAAT
Found at i:101603809 original size:6 final size:6
Alignment explanation
Indices: 101603798--101603830 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
101603788 GTTGGGGTCG
101603798 ATGATT ATGATT ATGATT ATGATT ATGAATT AT
1 ATGATT ATGATT ATGATT ATGATT ATG-ATT AT
101603831 TTTAATTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.48
Consensus pattern (6 bp):
ATGATT
Found at i:101604231 original size:20 final size:20
Alignment explanation
Indices: 101604208--101604246 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
101604198 TTTAATATTT
101604208 ATATT-TTTATAATTTTTAAA
1 ATATTATTTA-AATTTTTAAA
101604228 ATATTAATTTAAATTTTTA
1 ATATT-ATTTAAATTTTTA
101604247 TTATTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 8 0.47
22 4 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
ATATTATTTAAATTTTTAAA
Found at i:101605938 original size:5 final size:5
Alignment explanation
Indices: 101605928--101605960 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
101605918 TCTTAATTTC
101605928 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAA
101605961 CCCTAGTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:101608570 original size:14 final size:13
Alignment explanation
Indices: 101608536--101608572 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 13
101608526 TATAATAATA
101608536 TTTTAAATAATTT
1 TTTTAAATAATTT
101608549 TTTT--ATAATTT
1 TTTTAAATAATTT
101608560 TTTTCAAATAATT
1 TTTT-AAATAATT
101608573 AATAATGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 11 0.52
13 4 0.19
14 6 0.29
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTAAATAATTT
Found at i:101608885 original size:107 final size:108
Alignment explanation
Indices: 101608755--101608966 Score: 390
Period size: 107 Copynumber: 2.0 Consensus size: 108
101608745 AAAACGTGTC
*
101608755 AAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTGTTATTTAAAA
1 AAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTTAAAA
101608820 CTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAATCAA
66 CTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAATCAA
101608863 AAATTTTAT-AGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTTAAAA
1 AAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTTAAAA
* *
101608927 CTTATTCTAACTTAACATATCATTGTTTTGTTAAATTAAT
66 CTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAAT
101608967 TTTTTGTTTA
Statistics
Matches: 101, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 92 0.91
108 9 0.09
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.44
Consensus pattern (108 bp):
AAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTTAAAA
CTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAATCAA
Found at i:101609596 original size:19 final size:20
Alignment explanation
Indices: 101609552--101609597 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
101609542 TAATCAATTG
101609552 TAAA-AATTAATATATTTTT
1 TAAATAATTAATATATTTTT
* *
101609571 AATAATAATTTATAT-TTTTT
1 TA-AATAATTAATATATTTTT
101609591 TAAATAA
1 TAAATAA
101609598 GATAATTCGA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
19 6 0.27
20 8 0.36
21 8 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TAAATAATTAATATATTTTT
Found at i:101609823 original size:61 final size:61
Alignment explanation
Indices: 101609757--101609877 Score: 224
Period size: 61 Copynumber: 2.0 Consensus size: 61
101609747 TATTTAATAA
*
101609757 AATTTATATTCAAACTCCTTACCACTCACTTATTTTACTTACTTTTACAAGTGATTTTTTT
1 AATTTATATTCAAACTCCTTACCACCCACTTATTTTACTTACTTTTACAAGTGATTTTTTT
*
101609818 AATTTATATTCAAATTCCTTACCACCCACTTATTTTACTTACTTTTACAAGTGATTTTTT
1 AATTTATATTCAAACTCCTTACCACCCACTTATTTTACTTACTTTTACAAGTGATTTTTT
101609878 ATTTATTTAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.28, C:0.20, G:0.03, T:0.49
Consensus pattern (61 bp):
AATTTATATTCAAACTCCTTACCACCCACTTATTTTACTTACTTTTACAAGTGATTTTTTT
Found at i:101610700 original size:3 final size:3
Alignment explanation
Indices: 101610692--101610721 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
101610682 ATGCTGGTAT
101610692 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
101610722 GAGATGAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:101614407 original size:39 final size:40
Alignment explanation
Indices: 101614203--101614425 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
101614193 TTGAATGCTG
* * * * * *
101614203 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
** * * *
101614243 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATATTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
*
101614283 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
101614323 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
101614363 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
101614402 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
101614426 TGAACGAGGA
Statistics
Matches: 162, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 119 0.73
41 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:101614445 original size:79 final size:80
Alignment explanation
Indices: 101614279--101614460 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 80
101614269 TGCGAGATAT
** * *
101614279 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
** ** *
101614344 ATTCGTGCGAGTTGT
66 ATTCGAACGAGGAGC
* * *
101614359 TAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
*
101614423 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
* *
101614438 TATATCC-GGTTAAATCCCGAAGG
1 TAAATCCGGGTTAAGTCCCGAAGG
101614461 TACGTGATTT
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (80 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:101622249 original size:80 final size:79
Alignment explanation
Indices: 101622112--101622336 Score: 227
Period size: 80 Copynumber: 2.8 Consensus size: 79
101622102 TTGAATGCTG
* * * * * * * * * *
101622112 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTAC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
101622176 TGTGCGAGATATTAAA
64 TGTGCGAGATATTAAA
* ** * * *
101622192 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTACGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTT
* *
101622257 GTGCGAGTTGTTAAA
65 GTGCGAGATATTAAA
* * *
101622272 TCCGGGTTATGTCCCGAAGGCATTGTATGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTACGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
101622337 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
79 34 0.28
80 83 0.69
81 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTACGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATATTAAA
Found at i:101622316 original size:39 final size:40
Alignment explanation
Indices: 101622165--101622334 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
101622155 GGACTAAGAT
* * * *
101622165 CCGAAGGCCTTTGTGCGAGATATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
101622205 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
*
101622245 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
** ** * * *
101622285 CCGAAGGCATT-GTATGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
101622324 CCGAAGGCATT
1 CCGAAGGCATT
101622335 TGAACGAGGA
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 33 0.28
40 86 0.72
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:101622354 original size:79 final size:80
Alignment explanation
Indices: 101622188--101622369 Score: 206
Period size: 79 Copynumber: 2.3 Consensus size: 80
101622178 TGCGAGATAT
* ** * *
101622188 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTACGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
** ** *
101622253 ATTCGTGCGAGTTGT
66 ATTCGAACGAGGAGC
* * *
101622268 TAAATCCGGGTTATGTCCCGAAGGCATT-GTATGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTACGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
*
101622332 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
* *
101622347 TATATCC-GGTTAAATCCCGAAGG
1 TAAATCCGGGTTAAGTCCCGAAGG
101622370 TACGTGATTT
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 44 0.52
80 27 0.32
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTACGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:101623812 original size:19 final size:20
Alignment explanation
Indices: 101623775--101623812 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
101623765 AAGTTAATAA
*
101623775 AAATTTTGATTAAGGTGGAC
1 AAATTTTGATTAAGATGGAC
*
101623795 AAATTTT-ATTACGATGGA
1 AAATTTTGATTAAGATGGA
101623813 TGACACTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (20 bp):
AAATTTTGATTAAGATGGAC
Found at i:101627887 original size:10 final size:9
Alignment explanation
Indices: 101627849--101627898 Score: 57
Period size: 10 Copynumber: 5.4 Consensus size: 9
101627839 TAAACACTAT
101627849 AAAATT-TA
1 AAAATTATA
101627857 AAAATTATTA
1 AAAATTA-TA
*
101627867 GAAATTATA
1 AAAATTATA
*
101627876 AAATATTGTA
1 AAA-ATTATA
101627886 AAAATTATA
1 AAAATTATA
101627895 AAAA
1 AAAA
101627899 AATTATTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
8 6 0.17
9 13 0.37
10 16 0.46
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (9 bp):
AAAATTATA
Found at i:101627890 original size:37 final size:34
Alignment explanation
Indices: 101627849--101627941 Score: 96
Period size: 37 Copynumber: 2.5 Consensus size: 34
101627839 TAAACACTAT
101627849 AAAATTTAAAAATTATTAGAAATTATAAAATATTGTA
1 AAAATTTAAAAATTATTAGAAA-TATAAAAT-TT-TA
* *
101627886 AAAATTATAAAAAAATTATTTGAAATATTAAATTTTA
1 AAAATT-T--AAAAATTATTAGAAATATAAAATTTTA
*
101627923 AAAATAGTAAAAATTATTA
1 AAAAT-TTAAAAATTATTA
101627942 TATTTTGAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
35 10 0.21
37 14 0.29
38 3 0.06
39 7 0.15
40 14 0.29
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (34 bp):
AAAATTTAAAAATTATTAGAAATATAAAATTTTA
Found at i:101627911 original size:40 final size:37
Alignment explanation
Indices: 101627856--101627935 Score: 99
Period size: 40 Copynumber: 2.1 Consensus size: 37
101627846 TATAAAATTT
101627856 AAAAATTATTAGAAATTATAAAATATTGTAAAAATTA-TAA
1 AAAAATTATTAGAAA-TATAAAAT-TT-TAAAAA-TAGTAA
* *
101627896 AAAAATTATTTGAAATATTAAATTTTAAAAATAGTAA
1 AAAAATTATTAGAAATATAAAATTTTAAAAATAGTAA
101627933 AAA
1 AAA
101627936 TTATTATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
36 2 0.05
37 12 0.32
38 2 0.05
39 7 0.19
40 14 0.38
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (37 bp):
AAAAATTATTAGAAATATAAAATTTTAAAAATAGTAA
Found at i:101628348 original size:20 final size:21
Alignment explanation
Indices: 101628311--101628353 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
101628301 CTTAAGATAG
101628311 TAAAAAATTATTTGAAATAAT
1 TAAAAAATTATTTGAAATAAT
*
101628332 TAAAAAATTATTT-AAATTAT
1 TAAAAAATTATTTGAAATAAT
101628352 TA
1 TA
101628354 TTTAATTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
TAAAAAATTATTTGAAATAAT
Found at i:101628601 original size:20 final size:20
Alignment explanation
Indices: 101628568--101628611 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
101628558 TAAAATTTCT
*
101628568 ATTTTTTAAATTTTTAGTAA
1 ATTTTATAAATTTTTAGTAA
* *
101628588 ATTTTATAATTTTTTTGTAA
1 ATTTTATAAATTTTTAGTAA
101628608 ATTT
1 ATTT
101628612 ACATTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
ATTTTATAAATTTTTAGTAA
Found at i:101628612 original size:19 final size:19
Alignment explanation
Indices: 101628571--101628621 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
101628561 AATTTCTATT
*
101628571 TTTTAAA-TTTTTAGTAAA
1 TTTTAAATTTTTTTGTAAA
101628589 TTTTATAATTTTTTTGTAAA
1 TTTTA-AATTTTTTTGTAAA
*
101628609 -TTTACATTTTTTT
1 TTTTAAATTTTTTT
101628622 ATATTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 13 0.45
19 6 0.21
20 10 0.34
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (19 bp):
TTTTAAATTTTTTTGTAAA
Found at i:101628675 original size:47 final size:46
Alignment explanation
Indices: 101628560--101628677 Score: 139
Period size: 47 Copynumber: 2.5 Consensus size: 46
101628550 TAAAATATTA
* * *
101628560 AAATTTCTATTTTTTAAATTTTTAGTAAATTTTATAATTTTTTTGT
1 AAATTTATATTTTTTAAATTTTTAATAAATTTTATAATTTTTTTAT
* * *
101628606 AAATTTACATTTTTTTATATTTTTAATAAGTTTTATAATTTTTTTAT
1 AAATTTATA-TTTTTTAAATTTTTAATAAATTTTATAATTTTTTTAT
*
101628653 AAATATT-TATTTTTAAAGATTTTTA
1 AAAT-TTATATTTTTTAA-ATTTTTA
101628678 TGTCTTTTTA
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
46 13 0.22
47 45 0.75
48 2 0.03
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (46 bp):
AAATTTATATTTTTTAAATTTTTAATAAATTTTATAATTTTTTTAT
Found at i:101637268 original size:18 final size:18
Alignment explanation
Indices: 101637245--101637319 Score: 114
Period size: 18 Copynumber: 4.2 Consensus size: 18
101637235 AGATAAATGC
*
101637245 ACTGAATGATTGATTGTT
1 ACTGAATGACTGATTGTT
101637263 ACTGAATGACTGATTGTT
1 ACTGAATGACTGATTGTT
* *
101637281 ATTGAATGATTGATTGTT
1 ACTGAATGACTGATTGTT
*
101637299 ACTAAATGACTGATTGTT
1 ACTGAATGACTGATTGTT
101637317 ACT
1 ACT
101637320 AAATAATGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (18 bp):
ACTGAATGACTGATTGTT
Found at i:101637287 original size:36 final size:36
Alignment explanation
Indices: 101637247--101637317 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
101637237 ATAAATGCAC
*
101637247 TGAATGATTGATTGTTACTGAATGACTGATTGTTAT
1 TGAATGATTGATTGTTACTAAATGACTGATTGTTAT
101637283 TGAATGATTGATTGTTACTAAATGACTGATTGTTA
1 TGAATGATTGATTGTTACTAAATGACTGATTGTTA
101637318 CTAAATAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.44
Consensus pattern (36 bp):
TGAATGATTGATTGTTACTAAATGACTGATTGTTAT
Found at i:101638289 original size:9 final size:9
Alignment explanation
Indices: 101638275--101638300 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
101638265 CTTTAGAATG
101638275 CCTCAAAAC
1 CCTCAAAAC
101638284 CCTCAAAAC
1 CCTCAAAAC
101638293 CCTCAAAA
1 CCTCAAAA
101638301 ATGCCCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.42, G:0.00, T:0.12
Consensus pattern (9 bp):
CCTCAAAAC
Found at i:101643995 original size:14 final size:14
Alignment explanation
Indices: 101643978--101644004 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
101643968 AACCCATTAC
101643978 AGAAACTCCATTTT
1 AGAAACTCCATTTT
101643992 AGAAACTCCATTT
1 AGAAACTCCATTT
101644005 CTGTCACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (14 bp):
AGAAACTCCATTTT
Found at i:101646044 original size:17 final size:19
Alignment explanation
Indices: 101646024--101646061 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
101646014 CAGGGGAAGG
101646024 AAGAAAG-A-AAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
101646041 AAGAAAGAAGAAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
101646060 AA
1 AA
101646062 TTAAAGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAAAAGAGAA
Found at i:101650353 original size:50 final size:49
Alignment explanation
Indices: 101650278--101650454 Score: 255
Period size: 50 Copynumber: 3.5 Consensus size: 49
101650268 CCATGGAAAC
101650278 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAATGA
* * *
101650328 AAGTGATAAGTAATAGTTTAGGCTACACTTATCTGATCAAGGAAAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAA-TGA
*
101650378 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAATGA
* * *
101650428 CAAGTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
101650455 CTGATCAGTG
Statistics
Matches: 114, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
49 3 0.03
50 85 0.75
51 26 0.23
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (49 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAATGA
Found at i:101650468 original size:31 final size:31
Alignment explanation
Indices: 101650430--101650578 Score: 219
Period size: 31 Copynumber: 4.8 Consensus size: 31
101650420 ACAAATGACA
*
101650430 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
101650461 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
101650492 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
101650523 AGTGAAAAATGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
101650554 AAG-GAATAGTGGTAGCTTCGGCTAC
1 -AGTGAAAAGTGGTAGCTTCGGCTAC
101650579 AAGTGAAAAG
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
31 107 0.98
32 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:101650674 original size:47 final size:46
Alignment explanation
Indices: 101650605--101650726 Score: 154
Period size: 47 Copynumber: 2.6 Consensus size: 46
101650595 GTGATTTCCG
* *
101650605 TATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTA
1 TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATAC-A
* * * *
101650652 TATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTCA
1 TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACA
* * *
101650698 TGTAAGACCATAGCTGGGCTATGGCATCG
1 TATAAGACCATATCTGGGATATGGCATCG
101650727 ATATATGAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
46 25 0.39
47 39 0.61
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (46 bp):
TATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACA
Found at i:101650754 original size:42 final size:43
Alignment explanation
Indices: 101650698--101650811 Score: 169
Period size: 42 Copynumber: 2.7 Consensus size: 43
101650688 ATGTGATTCA
*
101650698 TGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATG
*
101650740 TGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATG
* **
101650782 TGTAAGACCATAGTTGAACTATGGCATCGA
1 TGTAAGACCATAGCTGGGCTATGGCATCGA
101650812 GAAAACGAAG
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 63 0.97
43 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATG
Found at i:101655279 original size:22 final size:22
Alignment explanation
Indices: 101655251--101655292 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
101655241 CTCTCACAAC
101655251 AATTCTCTCTAAA-TTCTTTCCA
1 AATTCTCTC-AAATTTCTTTCCA
101655273 AATTCTCTCAAATTTCTTTC
1 AATTCTCTCAAATTTCTTTC
101655293 AATTTTTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (22 bp):
AATTCTCTCAAATTTCTTTCCA
Found at i:101657109 original size:18 final size:18
Alignment explanation
Indices: 101657086--101657128 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
101657076 TACCAGGTGC
*
101657086 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
*
101657104 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTATAT
*
101657122 GTTTCCT
1 GTATCCT
101657129 TTTCCCAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:101660295 original size:93 final size:93
Alignment explanation
Indices: 101660183--101660355 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
101660173 TGCCCATAAG
* *
101660183 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGAACTCAACTCA
101660248 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * *
101660276 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGAACTCAACTCA
*
101660341 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
101660356 CAAATATCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:101660351 original size:46 final size:46
Alignment explanation
Indices: 101660176--101660351 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
101660166 TGTAACCTGC
* * *
101660176 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGTAT
* * * *
101660222 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGATGCCTAGT-T
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCGTAT
* * *
101660268 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGTAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGTAT
* *
101660315 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
101660352 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
45 2 0.02
46 71 0.66
47 33 0.31
48 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGTAT
Found at i:101660370 original size:46 final size:45
Alignment explanation
Indices: 101660227--101660370 Score: 130
Period size: 46 Copynumber: 3.1 Consensus size: 45
101660217 CGCATCCATA
* * * * *
101660227 AGTGAACTCGAACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ATATCCC
* * * * *
101660275 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GTATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATATCC--C
101660320 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AATATCCC
101660366 AGTGA
1 AGTGA
101660371 CATGTCACTT
Statistics
Matches: 76, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
43 3 0.04
45 1 0.01
46 37 0.49
47 29 0.38
48 6 0.08
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATATCCC
Found at i:101663727 original size:126 final size:126
Alignment explanation
Indices: 101663502--101664175 Score: 965
Period size: 126 Copynumber: 5.3 Consensus size: 126
101663492 AAATACTACA
* ** *
101663502 GTAGCAAAAGAGCGTCCACGTGAGAGCTTTTTTCTGTAATTTTGCTGAAAGTGCATCATTCTTGA
1 GTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTGCTGAAAGTGCATCCTTCTTGA
* *
101663567 AGCGTTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATCTTATTAGATACCACT
66 AGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTATTAGATACCACT
* *
101663628 GTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTGCTAAAAGTGCATCCTTCTTAA
1 GTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTGCTGAAAGTGCATCCTTCTTGA
*
101663693 AGCGTTTTTGACACTATTTGTTCAGAAACATCTTCACAAAATTATTTTATTAGATACCACT
66 AGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTATTAGATACCACT
* * * * *
101663754 ATAGCAAAAGAGCGTCCATGTGGGAGCTTTTTTCCGTAATTTTTCTGAAAGTGCATCATTCTTGA
1 GTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTGCTGAAAGTGCATCCTTCTTGA
** * * * **
101663819 AGTATTTTTGACACTATTTGTTCAGAAACATCTTTTAAAAATTATTTTATCAGATATTACT
66 AGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTATTAGATACCACT
* * *
101663880 GTAGCAAAAGAGCGTCCACGTGAGAGCTTTTTTCCATTATTTTACTGACAGAGTGCATCCTTCTT
1 GTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTGCTGA-A-AGTGCATCCTTCTT
* *
101663945 GAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTATCAGATATCACT
64 GAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTATTAGATACCACT
* * * * *
101664008 ATAGCAAAAAAGCGTCCACGTGTGAGCTTTTTTCCATTATTTTGCTGACAGTGCATCCTTCTTGA
1 GTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTGCTGAAAGTGCATCCTTCTTGA
* * * *
101664073 AGAG-TTTTGTACACTATTTGTTTAGAAACATCTTCTCAAATTTATTTT-TTCAGATACTACT
66 AGCGTTTTTG-ACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTATT-AGATACCACT
* *
101664134 GTAGTAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTT
1 GTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTT
101664176 AATTAATAAA
Statistics
Matches: 491, Mismatches: 53, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
125 6 0.01
126 369 0.75
127 1 0.00
128 115 0.23
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (126 bp):
GTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTGCTGAAAGTGCATCCTTCTTGA
AGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTATTAGATACCACT
Found at i:101664063 original size:254 final size:251
Alignment explanation
Indices: 101663503--101664175 Score: 1022
Period size: 254 Copynumber: 2.7 Consensus size: 251
101663493 AATACTACAG
*
101663503 TAGCAAAAGAGCGTCCACGTGAGAGCTTTTTTCTGTAATTTTGCTGAAAGTGCATCATTCTTGAA
1 TAGCAAAAGAGCGTCCACGTGAGAGCTTTTTTCCGTAATTTTGCTGAAAGTGCATCATTCTTGAA
* * * *
101663568 GCGTTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATCTTATTAGATACCACTGTAGC
66 G-ATTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTATCAGATACTACTGTAGC
*
101663633 AAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTGCTAAAAGTGCATCCTTCTTAAAGCGT
130 AAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTACTAAAAGTGCATCCTTCTTAAAGCGT
*
101663698 TTTTGACACTATTTGTTCAGAAACATCTTCACAAAATTATTTTATTAGATACCACTA
195 TTTTGACACTATTTGTTCAGAAACATCTTCACAAAATTATTTTATCAGATACCACTA
* * *
101663755 TAGCAAAAGAGCGTCCATGTGGGAGCTTTTTTCCGTAATTTTTCTGAAAGTGCATCATTCTTGAA
1 TAGCAAAAGAGCGTCCACGTGAGAGCTTTTTTCCGTAATTTTGCTGAAAGTGCATCATTCTTGAA
* * * *
101663820 GTATTTTTGACACTATTTGTTCAGAAACATCTTTTAAAAATTATTTTATCAGATATTACTGTAGC
66 G-ATTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTATCAGATACTACTGTAGC
* * * *
101663885 AAAAGAGCGTCCACGTGAGAGCTTTTTTCCATTATTTTACTGACAGAGTGCATCCTTCTTGAAGC
130 AAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTACT-A-AAAGTGCATCCTTCTTAAAGC
* *
101663950 GTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTATCAGATATCACTA
193 GTTTTTGACACTATTTGTTCAGAAACATCTTCACAAAATTATTTTATCAGATACCACTA
* * * * * *
101664009 TAGCAAAAAAGCGTCCACGTGTGAGCTTTTTTCCATTATTTTGCTGACAGTGCATCCTTCTTGAA
1 TAGCAAAAGAGCGTCCACGTGAGAGCTTTTTTCCGTAATTTTGCTGAAAGTGCATCATTCTTGAA
* * * *
101664074 GAGTTTTGTACACTATTTGTTTAGAAACATCTTCTCAAATTTATTTTTTCAGATACTACTGTAGT
66 GATTTTTG-ACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTATCAGATACTACTGTAGC
*
101664139 AAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTT
130 AAAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTT
101664176 AATTAATAAA
Statistics
Matches: 378, Mismatches: 40, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
252 155 0.41
253 7 0.02
254 216 0.57
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (251 bp):
TAGCAAAAGAGCGTCCACGTGAGAGCTTTTTTCCGTAATTTTGCTGAAAGTGCATCATTCTTGAA
GATTTTTGACACTATTTGTTTAGAAACATCTTCTCAAAATTATTTTATCAGATACTACTGTAGCA
AAAGAGCGTCCACGTGGGAGCTTTTTTCCATAATTTTACTAAAAGTGCATCCTTCTTAAAGCGTT
TTTGACACTATTTGTTCAGAAACATCTTCACAAAATTATTTTATCAGATACCACTA
Found at i:101664311 original size:17 final size:17
Alignment explanation
Indices: 101664289--101664343 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
101664279 CTTAAAAAAT
*
101664289 ACTAAAAATCCTAAACC
1 ACTAAAAAACCTAAACC
*
101664306 ACTAAAAACCCTAAACC
1 ACTAAAAAACCTAAACC
101664323 A-TAAAAAACTCTAAACC
1 ACTAAAAAAC-CTAAACC
101664340 ACTA
1 ACTA
101664344 CACCCTAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
16 7 0.21
17 25 0.74
18 2 0.06
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.16
Consensus pattern (17 bp):
ACTAAAAAACCTAAACC
Found at i:101664474 original size:17 final size:17
Alignment explanation
Indices: 101664452--101664509 Score: 82
Period size: 17 Copynumber: 3.4 Consensus size: 17
101664442 CCTTAAAAAA
101664452 CACTAAAAATCCTAAAC
1 CACTAAAAATCCTAAAC
101664469 CACTAAAAATCCTAAAC
1 CACTAAAAATCCTAAAC
*
101664486 CACCAAAAA-CTCTAAAC
1 CACTAAAAATC-CTAAAC
*
101664503 TACTAAA
1 CACTAAA
101664510 CCCTAAACTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
16 1 0.03
17 36 0.97
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.17
Consensus pattern (17 bp):
CACTAAAAATCCTAAAC
Found at i:101664485 original size:164 final size:161
Alignment explanation
Indices: 101664199--101664815 Score: 811
Period size: 164 Copynumber: 3.8 Consensus size: 161
101664189 TAAAAAACCC
*
101664199 TAAACCCTAATTTAATT-A--ATTTTTATTTTCATAGTTAATTTAATTAATTAACCCTCAACTCT
1 TAAACCCTAATTTAATTGATTTTTTTTATTTTCATAGTTAATTTAATTAATTAACCCTCAACTCT
** * *
101664261 AA-T-TAAATTAATTTTTCCCTTAAAAAATACTAAAAATCCTAAACCACTAAAAACCCTAAACCA
66 AAGTGTTCATTAAATTTTCCCTTAAAAAACACTAAAAATCCTAAACCACTAAAAACCCTAAACCA
101664324 TAAAAAACTCTAAACCACTACACCCTAAACTA
131 TAAAAAACTCTAAACCACTA-ACCCTAAACTA
*
101664356 TTAAACCCTAATTTAATTGATTTTTTCTTATTTTCATAGTTTATTTAATTAATTAACCCTCAACT
1 -TAAACCCTAATTTAATTGATTTTTT-TTATTTTCATAGTTAATTTAATTAATTAACCCTCAACT
*
101664421 CTAAGTGTTCATTAAATTTTCCCTTAAAAAACACTAAAAATCCTAAACCACTAAAAATCCTAAAC
64 CTAAGTGTTCATTAAATTTTCCCTTAAAAAACACTAAAAATCCTAAACCACTAAAAACCCTAAAC
** *
101664486 CACCAAAAACTCTAAACTACTAAACCCTAAACTA
129 CATAAAAAACTCTAAACCACT-AACCCTAAACTA
* *
101664520 CTAAACCCTAATTTAATTAATTTTTTTTCTTATTTTTATAGTTAATTTAATTAATTAACCCTCAA
1 -TAAACCCTAATTTAATTGA--TTTTTT-TTATTTTCATAGTTAATTTAATTAATTAACCCTCAA
* * * *
101664585 CTCTAGGTGTTCATTAATTTTTCCCTTAAAAAAACTCTAAAAACCCTAAACCCACT-AAAACCCT
62 CTCTAAGTGTTCATTAAATTTTCCCTT-AAAAAACACTAAAAATCCTAAA-CCACTAAAAACCCT
* * * *
101664649 -AACCTTAAAACAA-TCAAAAACC-CTAACCTTAAAAAACCA
125 AAACCATAAAA-AACTC-TAAACCACTAACCCT---AAACTA
* * *
101664688 TAAACCCTAATATAATTGATTTTTTTTATTTTCATAGTTAATTTAATTAATTAACCTTCAAATCT
1 TAAACCCTAATTTAATTGATTTTTTTTATTTTCATAGTTAATTTAATTAATTAACCCTCAACTCT
* *
101664753 AAGTGTTCGTTAAATTTTCCCTTAAAAAACACTAAAAATCCTAAACCGCTAAAAACCCTAAAC
66 AAGTGTTCATTAAATTTTCCCTTAAAAAACACTAAAAATCCTAAACCACTAAAAACCCTAAAC
101664816 TAGTAAAACC
Statistics
Matches: 404, Mismatches: 37, Indels: 30
0.86 0.08 0.06
Matches are distributed among these distances:
158 17 0.04
159 1 0.00
161 3 0.01
162 45 0.11
163 29 0.07
164 160 0.40
165 12 0.03
166 77 0.19
167 50 0.12
168 10 0.02
ACGTcount: A:0.41, C:0.21, G:0.02, T:0.35
Consensus pattern (161 bp):
TAAACCCTAATTTAATTGATTTTTTTTATTTTCATAGTTAATTTAATTAATTAACCCTCAACTCT
AAGTGTTCATTAAATTTTCCCTTAAAAAACACTAAAAATCCTAAACCACTAAAAACCCTAAACCA
TAAAAAACTCTAAACCACTAACCCTAAACTA
Found at i:101664515 original size:15 final size:15
Alignment explanation
Indices: 101664492--101664530 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
101664482 AAACCACCAA
*
101664492 AAACTCTAAACTACT
1 AAACCCTAAACTACT
101664507 AAACCCTAAACTACT
1 AAACCCTAAACTACT
101664522 AAACCCTAA
1 AAACCCTAA
101664531 TTTAATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.21
Consensus pattern (15 bp):
AAACCCTAAACTACT
Found at i:101664657 original size:23 final size:24
Alignment explanation
Indices: 101664641--101664697 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
101664631 TAAACCCACT
101664641 AAAACCCTAACCTTAAAACAATCA
1 AAAACCCTAACCTTAAAACAATCA
*
101664665 AAAACCCTAACCTTAAAA-AACCA
1 AAAACCCTAACCTTAAAACAATCA
*
101664688 TAAACCCTAA
1 AAAACCCTAA
101664698 TATAATTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 13 0.42
24 18 0.58
ACGTcount: A:0.54, C:0.30, G:0.00, T:0.16
Consensus pattern (24 bp):
AAAACCCTAACCTTAAAACAATCA
Found at i:101675399 original size:16 final size:17
Alignment explanation
Indices: 101675368--101675400 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
101675358 TTCATAAGTA
101675368 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
101675385 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
101675401 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:101675744 original size:46 final size:46
Alignment explanation
Indices: 101675682--101675955 Score: 361
Period size: 46 Copynumber: 6.0 Consensus size: 46
101675672 TTATCTTTGA
* * * *
101675682 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* *
101675728 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * * *
101675774 CACGCTGCCATGATATCTTTCAACCATGGTCTTATTCATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
101675820 CATGTTGCCATGATATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
101675866 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
101675912 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
101675956 ATCAGAGAGC
Statistics
Matches: 209, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 205 0.98
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:101675844 original size:92 final size:92
Alignment explanation
Indices: 101675697--101675959 Score: 400
Period size: 92 Copynumber: 2.9 Consensus size: 92
101675687 TGCCATAGTG
* * *
101675697 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTGTCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
*
101675762 TTCATTTCATGTCACGCTGCCATGATA
66 TTCATTTCATATCACGCTGCCATGATA
* *
101675789 TCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGATATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
* *
101675854 TTCATTTCATATCACGTTGCCATGGTA
66 TTCATTTCATATCACGCTGCCATGATA
* * * *
101675881 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
**
101675946 CACATTTCATATCA
66 TTCATTTCATATCA
101675960 GAGAGCACAC
Statistics
Matches: 155, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 155 1.00
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.41
Consensus pattern (92 bp):
TCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
TTCATTTCATATCACGCTGCCATGATA
Found at i:101679605 original size:26 final size:26
Alignment explanation
Indices: 101679575--101679629 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
101679565 GGAATCTCAC
101679575 ATTGTCTAAAAACAAGCTGCAAAACT
1 ATTGTCTAAAAACAAGCTGCAAAACT
** *
101679601 ATTGTCTAGGAATAAGCTGCAAAACT
1 ATTGTCTAAAAACAAGCTGCAAAACT
101679627 ATT
1 ATT
101679630 CATGAGTCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (26 bp):
ATTGTCTAAAAACAAGCTGCAAAACT
Found at i:101686327 original size:24 final size:24
Alignment explanation
Indices: 101686295--101686340 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
101686285 TGATTTAACT
*
101686295 TAATCGAACATGTTCATGAACATA
1 TAATCGAACATGTTCACGAACATA
*
101686319 TAATTGAACATGTTCACGAACA
1 TAATCGAACATGTTCACGAACA
101686341 ATGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.28
Consensus pattern (24 bp):
TAATCGAACATGTTCACGAACATA
Found at i:101686550 original size:24 final size:24
Alignment explanation
Indices: 101686523--101686580 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
101686513 TCATTAATAA
* *
101686523 ATAAACGAGTCAATAAACAAACTT
1 ATAAACAAGCCAATAAACAAACTT
*
101686547 ATAAACAAGCCAATAAATAAACTT
1 ATAAACAAGCCAATAAACAAACTT
*
101686571 TTAAACAAGC
1 ATAAACAAGC
101686581 TTGTTCGTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.55, C:0.17, G:0.07, T:0.21
Consensus pattern (24 bp):
ATAAACAAGCCAATAAACAAACTT
Found at i:101689587 original size:13 final size:14
Alignment explanation
Indices: 101689552--101689602 Score: 54
Period size: 13 Copynumber: 3.7 Consensus size: 14
101689542 TAAAAAATAG
*
101689552 AAATTAAAAAC-CA
1 AAATAAAAAACACA
101689565 AAA-AATAAAACA-A
1 AAATAA-AAAACACA
101689578 AAATAAAAAACACA
1 AAATAAAAAACACA
101689592 CAAATAAAAAA
1 -AAATAAAAAA
101689603 ATTCAAATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
12 1 0.03
13 18 0.56
14 3 0.09
15 10 0.31
ACGTcount: A:0.78, C:0.12, G:0.00, T:0.10
Consensus pattern (14 bp):
AAATAAAAAACACA
Found at i:101704006 original size:17 final size:17
Alignment explanation
Indices: 101703984--101704016 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
101703974 TGCAGGAGTT
101703984 CTATAA-AAATAATTTTG
1 CTATAATAAA-AATTTTG
101704001 CTATAATAAAAATTTT
1 CTATAATAAAAATTTT
101704017 AAATTAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (17 bp):
CTATAATAAAAATTTTG
Found at i:101708207 original size:14 final size:15
Alignment explanation
Indices: 101708190--101708229 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 15
101708180 TTTAATTTTT
101708190 TAAATTATAAAA-AA
1 TAAATTATAAAATAA
101708204 TAAATTATTAAAATAA
1 TAAATTA-TAAAATAA
101708220 TAAAATTATA
1 T-AAATTATA
101708230 TTTTTACTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.30
15 5 0.22
16 5 0.22
17 6 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
TAAATTATAAAATAA
Found at i:101712205 original size:17 final size:17
Alignment explanation
Indices: 101712183--101712223 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
101712173 TATTTTCTTT
101712183 CAAAGTTAACTAATAGA
1 CAAAGTTAACTAATAGA
**
101712200 CAAAGTTGGCTAATAGA
1 CAAAGTTAACTAATAGA
*
101712217 TAAAGTT
1 CAAAGTT
101712224 GGAGAAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (17 bp):
CAAAGTTAACTAATAGA
Found at i:101712224 original size:17 final size:17
Alignment explanation
Indices: 101712192--101712225 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
101712182 TCAAAGTTAA
101712192 CTAATAGACAAAGTTGG
1 CTAATAGACAAAGTTGG
*
101712209 CTAATAGATAAAGTTGG
1 CTAATAGACAAAGTTGG
101712226 AGAAGAAAAG
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:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (17 bp):
CTAATAGACAAAGTTGG
Found at i:101718862 original size:50 final size:50
Alignment explanation
Indices: 101718787--101718886 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
101718777 ACACGGTTCA
*
101718787 GGGCTTTTTACACAGTCCAGTCACACGACCACGTGTCCCTATAAGAATTT
1 GGGCTTTCTACACAGTCCAGTCACACGACCACGTGTCCCTATAAGAATTT
*
101718837 GGGCTTTCTACACAGTCCGGTCACACGACCACGTGTCCCTATAAGAATTT
1 GGGCTTTCTACACAGTCCAGTCACACGACCACGTGTCCCTATAAGAATTT
101718887 ATAATTTTGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (50 bp):
GGGCTTTCTACACAGTCCAGTCACACGACCACGTGTCCCTATAAGAATTT
Found at i:101723727 original size:3 final size:3
Alignment explanation
Indices: 101723721--101723761 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
101723711 AATAATAATA
101723721 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
101723762 TAAGAAGTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:101724354 original size:16 final size:16
Alignment explanation
Indices: 101724333--101724387 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
101724323 GTTTGGTTCA
*
101724333 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
*
101724349 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
*
101724365 CTGTAATGGAAAAGAG
1 CTGTAATGGAATAGAG
101724381 CTGTAAT
1 CTGTAAT
101724388 CAGTAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.36, C:0.07, G:0.29, T:0.27
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:101724457 original size:44 final size:46
Alignment explanation
Indices: 101724369--101724461 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 46
101724359 ATAGAGCTGT
*
101724369 AATGGAAAAGAGCTGTAATCAGTAATTCAGCTGTTTGGTTGAATGG
1 AATGGAAAAGAACTGTAATCAGTAATTCAGCTGTTTGGTTGAATGG
* *
101724415 AATGGAATAGAACTGTAAT-AGT-ATTCTTG-TGTTTGGTTGAATGG
1 AATGGAAAAGAACTGTAATCAGTAATTC-AGCTGTTTGGTTGAATGG
101724459 AAT
1 AAT
101724462 AATGTTGTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
44 22 0.51
45 4 0.09
46 17 0.40
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.34
Consensus pattern (46 bp):
AATGGAAAAGAACTGTAATCAGTAATTCAGCTGTTTGGTTGAATGG
Found at i:101724642 original size:17 final size:17
Alignment explanation
Indices: 101724632--101724664 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
101724622 ATTTATTATT
101724632 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
101724649 AAATATAATTTAATAA
1 AAATATAATTTAATAA
101724665 CATTCTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:101724688 original size:58 final size:58
Alignment explanation
Indices: 101724565--101724686 Score: 148
Period size: 58 Copynumber: 2.2 Consensus size: 58
101724555 TTTTAATAAG
* *
101724565 ATTATTATTGAAAATAATTTAATAAAAATAATAAATAATTTAATCATATTTTAACATAT
1 ATTATTATTGAAAATAATTTAATAAAAATAAT-AATAATTTAATAACATTTTAACATAT
*
101724624 -TTATTATT-AAATATAATTTAAT-AAAA-AAT-ATAATTTAATAACATTCTTAATATA-
1 ATTATTATTGAAA-ATAATTTAATAAAAATAATAATAATTTAATAACATT-TTAACATAT
101724678 ATTATTATT
1 ATTATTATT
101724687 ATATGAATTA
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
54 14 0.25
55 15 0.26
56 3 0.05
57 7 0.12
58 18 0.32
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (58 bp):
ATTATTATTGAAAATAATTTAATAAAAATAATAATAATTTAATAACATTTTAACATAT
Found at i:101729452 original size:24 final size:23
Alignment explanation
Indices: 101729394--101729452 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 23
101729384 TTAGTCATTT
*
101729394 TTAT-TTTTATTTCAATTTAATC
1 TTATCTTTTATTTCAATTTAAAC
* *
101729416 TTGTCTTTAATTT-AATTTACTAAC
1 TTATCTTTTATTTCAATTTA--AAC
101729440 TTATCTTTTATTT
1 TTATCTTTTATTT
101729453 GCTTCTGACA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
22 9 0.31
23 7 0.24
24 13 0.45
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.63
Consensus pattern (23 bp):
TTATCTTTTATTTCAATTTAAAC
Found at i:101733612 original size:3 final size:3
Alignment explanation
Indices: 101733604--101733658 Score: 101
Period size: 3 Copynumber: 18.0 Consensus size: 3
101733594 TCCTCATTCA
101733604 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
101733652 ATCT ATT
1 AT-T ATT
101733659 TATTCTGTTG
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:101734781 original size:253 final size:253
Alignment explanation
Indices: 101734333--101734817 Score: 925
Period size: 253 Copynumber: 1.9 Consensus size: 253
101734323 TTTGACTTAC
101734333 AGAAGAGAGAGCACAGGAGTTGTGAGCACTACTGACGCGTACTATCTCTGGAGCATGGCAACTAG
1 AGAAGAGAGAGCACAGGAGTTGTGAGCACTACTGACGCGTACTATCTCTGGAGCATGGCAACTAG
*
101734398 CCACATATTCTACTTAGCTTATTTCATTGCTCTCGCCTTTCGCAACTAGAGAAATCGTCACAGGA
66 CCACATATTCTACTTAGCTTATTTCATTACTCTCGCCTTTCGCAACTAGAGAAATCGTCACAGGA
101734463 AGAGTCCCATCTGTCTAGGCCCTTATGTAACTCATCTCGCTCGACACTTCGATCTTCTCGACACA
131 AGAGTCCCATCTGTCTAGGCCCTTATGTAACTCATCTCGCTCGACACTTCGATCTTCTCGACACA
*
101734528 CCGGAGCAGTCATTGACACTTACCCTCGTCGGCCAGAGCACAGGAGTTGTGAGCATGG
196 CCGAAGCAGTCATTGACACTTACCCTCGTCGGCCAGAGCACAGGAGTTGTGAGCATGG
101734586 AGAAGAGAGAGCACAGGAGTTGTGAGCACTACTGACGCGTACTATCTCTGGAGCATGGCAACTAG
1 AGAAGAGAGAGCACAGGAGTTGTGAGCACTACTGACGCGTACTATCTCTGGAGCATGGCAACTAG
* *
101734651 CCATATATTTTACTTAGCTTATTTCATTACTCTCGCCTTTCGCAACTAGAGAAATCGTCACAGGA
66 CCACATATTCTACTTAGCTTATTTCATTACTCTCGCCTTTCGCAACTAGAGAAATCGTCACAGGA
*
101734716 AGAGTCCCATCTGTCTAGGCCCTTATGTAACTCATCTCGCTTGACACTTCGATCTTCTCGACACA
131 AGAGTCCCATCTGTCTAGGCCCTTATGTAACTCATCTCGCTCGACACTTCGATCTTCTCGACACA
101734781 CCGAAGCAGTCATTGACACTTACCCTCGTCGGCCAGA
196 CCGAAGCAGTCATTGACACTTACCCTCGTCGGCCAGA
101734818 TACCCCCTCA
Statistics
Matches: 227, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
253 227 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (253 bp):
AGAAGAGAGAGCACAGGAGTTGTGAGCACTACTGACGCGTACTATCTCTGGAGCATGGCAACTAG
CCACATATTCTACTTAGCTTATTTCATTACTCTCGCCTTTCGCAACTAGAGAAATCGTCACAGGA
AGAGTCCCATCTGTCTAGGCCCTTATGTAACTCATCTCGCTCGACACTTCGATCTTCTCGACACA
CCGAAGCAGTCATTGACACTTACCCTCGTCGGCCAGAGCACAGGAGTTGTGAGCATGG
Found at i:101735203 original size:8 final size:9
Alignment explanation
Indices: 101735189--101735280 Score: 55
Period size: 9 Copynumber: 9.4 Consensus size: 9
101735179 TTTATCTTTG
*
101735189 TTTTTTTTG
1 TTTTTTTTA
101735198 TTTTTTTTA
1 TTTTTTTTA
101735207 -TTTTTTTA
1 TTTTTTTTA
101735215 TTTTTATCTTTA
1 -TTTT-T-TTTA
101735227 TATTTATCTTTA
1 T-TTT-T-TTTA
101735239 TTTTTATTT-
1 TTTTT-TTTA
*
101735248 TTATTTTTA
1 TTTTTTTTA
101735257 TTTTTATATT-
1 TTTTT-T-TTA
101735267 TATTTTTTTA
1 T-TTTTTTTA
101735277 TTTT
1 TTTT
101735281 AAACTTTATT
Statistics
Matches: 69, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
8 11 0.16
9 21 0.30
10 11 0.16
11 11 0.16
12 15 0.22
ACGTcount: A:0.15, C:0.02, G:0.01, T:0.82
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:101735213 original size:12 final size:12
Alignment explanation
Indices: 101735189--101735280 Score: 76
Period size: 12 Copynumber: 7.3 Consensus size: 12
101735179 TTTATCTTTG
*
101735189 TTTTTTTTGTTTT
1 TTTTTTTT-TTTA
101735202 TTTTATTTTTTTA
1 TTTT-TTTTTTTA
* *
101735215 TTTTTATCTTTA
1 TTTTTTTTTTTA
* * *
101735227 TATTTATCTTTA
1 TTTTTTTTTTTA
*
101735239 TTTTTATTTTTA
1 TTTTTTTTTTTA
101735251 TTTTTATTTTTATA
1 TTTTT-TTTTT-TA
*
101735265 TTTATTTTTTTA
1 TTTTTTTTTTTA
101735277 TTTT
1 TTTT
101735281 AAACTTTATT
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
12 37 0.55
13 20 0.30
14 10 0.15
ACGTcount: A:0.15, C:0.02, G:0.01, T:0.82
Consensus pattern (12 bp):
TTTTTTTTTTTA
Found at i:101735219 original size:18 final size:19
Alignment explanation
Indices: 101735179--101735280 Score: 93
Period size: 18 Copynumber: 5.1 Consensus size: 19
101735169 ATTGAGTCTA
*
101735179 TTTATCTTTGTTTTTTT-TGT
1 TTTAT-TTTATTTTTTTAT-T
101735199 TTT-TTTTATTTTTTTATT
1 TTTATTTTATTTTTTTATT
101735217 TTTATCTTTATATTTATCTTTATT
1 TTTA--TTT-TATTT-T-TTTATT
*
101735241 TTTATTTT-TATTTTTATT
1 TTTATTTTATTTTTTTATT
101735259 TTTATATTTATTTTTTTATT
1 TTTAT-TTTATTTTTTTATT
101735279 TT
1 TT
101735281 AAACTTTATT
Statistics
Matches: 70, Mismatches: 3, Indels: 18
0.77 0.03 0.20
Matches are distributed among these distances:
18 25 0.36
19 6 0.09
20 16 0.23
21 4 0.06
22 8 0.11
23 1 0.01
24 10 0.14
ACGTcount: A:0.15, C:0.03, G:0.02, T:0.80
Consensus pattern (19 bp):
TTTATTTTATTTTTTTATT
Found at i:101735255 original size:50 final size:50
Alignment explanation
Indices: 101735177--101735301 Score: 139
Period size: 50 Copynumber: 2.5 Consensus size: 50
101735167 CTATTGAGTC
* * *
101735177 TATTTATCTTTGTTTTT-TTTGTTTTTTTTATTTTTTTATTT-TTATCTTTA
1 TATTTATCTTTATTTTTATTT-TTATTTTTATTTTTATATTTATT-TCTTTA
*
101735227 TATTTATCTTTATTTTTATTTTTATTTTTATTTTTATATTTATTTTTTTA
1 TATTTATCTTTATTTTTATTTTTATTTTTATTTTTATATTTATTTCTTTA
* * *
101735277 T-TTTAAACTTTATTTTAATTATTAT
1 TATTT-ATCTTTATTTTTATTTTTAT
101735302 GGTTGTTTCT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
49 3 0.05
50 57 0.88
51 5 0.08
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (50 bp):
TATTTATCTTTATTTTTATTTTTATTTTTATTTTTATATTTATTTCTTTA
Found at i:101735280 original size:6 final size:6
Alignment explanation
Indices: 101735192--101735273 Score: 96
Period size: 6 Copynumber: 13.8 Consensus size: 6
101735182 ATCTTTGTTT
* * * *
101735192 TTTTTG TTTTT- TTTATT- TTTTTA TTTTTA TCTTTA TATTTA TCTTTA
1 TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
101735239 TTTTTA TTTTTA TTTTTA TTTTTA TATTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
101735274 TTATTTTAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
5 5 0.07
6 63 0.93
ACGTcount: A:0.16, C:0.02, G:0.01, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:101735292 original size:18 final size:17
Alignment explanation
Indices: 101735211--101735292 Score: 65
Period size: 18 Copynumber: 4.5 Consensus size: 17
101735201 TTTTTATTTT
*
101735211 TTTATTTTTATCTTTATA
1 TTTATTTTTAT-TTTAAA
* **
101735229 TTTATCTTTATTTTTATT
1 TTTATTTTTA-TTTTAAA
*
101735247 TTTATTTTTATTTTTATA
1 TTTATTTTTA-TTTTAAA
101735265 TTTATTTTTTTATTTTAAA
1 TTTA--TTTTTATTTTAAA
101735284 CTTTATTTT
1 -TTTATTTT
101735293 AATTATTATG
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
18 38 0.69
19 7 0.13
20 10 0.18
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTTTATTTTAAA
Found at i:101735301 original size:12 final size:12
Alignment explanation
Indices: 101735209--101735301 Score: 71
Period size: 12 Copynumber: 7.6 Consensus size: 12
101735199 TTTTTTTATT
*
101735209 TTTTTATTTTTA
1 TTTTTATTTTAA
*
101735221 TCTTTATATTT-A
1 TTTTTAT-TTTAA
* *
101735233 TCTTTATTTTTA
1 TTTTTATTTTAA
*
101735245 TTTTTATTTTTA
1 TTTTTATTTTAA
*
101735257 TTTTTATATTTATT
1 TTTTTAT-TTTA-A
101735271 TTTTTATTTTAA
1 TTTTTATTTTAA
**
101735283 ACTTTATTTTAA
1 TTTTTATTTTAA
*
101735295 TTATTAT
1 TTTTTAT
101735302 GGTTGTTTCT
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
11 3 0.04
12 47 0.70
13 10 0.15
14 7 0.10
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTATTTTAA
Found at i:101738412 original size:80 final size:79
Alignment explanation
Indices: 101738263--101738492 Score: 379
Period size: 80 Copynumber: 2.9 Consensus size: 79
101738253 AAAATTTTTA
*
101738263 AGATTCTAGAGAATATGCTCATCAATTTAGAAGCAAGAAAATAGTAGATGAAAGTGGACAAAATG
1 AGATTCTAGAGAATATGCTCATCAATTTAGAAGCAAGAAAATAGTAGATGAAAGTGGAGAAAATG
101738328 AGAAGATGAAGTAG
66 AGAAGATGAAGTAG
* * *
101738342 AGATTTTAGAGAACATGCTCATCAATTTAGAAGCAAAGAAAATAGTAGATGAAAGTGGGGAAAAT
1 AGATTCTAGAGAATATGCTCATCAATTTAGAAGC-AAGAAAATAGTAGATGAAAGTGGAGAAAAT
101738407 GAGAAGATGAAGTAG
65 GAGAAGATGAAGTAG
* * **
101738422 AGATTCTAGAGAATATGCTCATCAATTTAGAAACAAGAAAATGGTATTTGAAAGTGGAGAAAATG
1 AGATTCTAGAGAATATGCTCATCAATTTAGAAGCAAGAAAATAGTAGATGAAAGTGGAGAAAATG
101738487 AGAAGA
66 AGAAGA
101738493 AAAAAATGAA
Statistics
Matches: 139, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
79 65 0.47
80 74 0.53
ACGTcount: A:0.47, C:0.07, G:0.24, T:0.22
Consensus pattern (79 bp):
AGATTCTAGAGAATATGCTCATCAATTTAGAAGCAAGAAAATAGTAGATGAAAGTGGAGAAAATG
AGAAGATGAAGTAG
Found at i:101739118 original size:19 final size:20
Alignment explanation
Indices: 101739082--101739119 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
101739072 CACGAATAGT
101739082 AGGGAAAGAAAGAAGAAAAA
1 AGGGAAAGAAAGAAGAAAAA
101739102 AGGGAAAGAAA-AAGAAAA
1 AGGGAAAGAAAGAAGAAAA
101739120 GGAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (20 bp):
AGGGAAAGAAAGAAGAAAAA
Found at i:101744543 original size:3 final size:3
Alignment explanation
Indices: 101744535--101744562 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
101744525 AATAACTTAA
101744535 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
101744563 ACAAATTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:101745766 original size:19 final size:19
Alignment explanation
Indices: 101745738--101745815 Score: 61
Period size: 19 Copynumber: 4.1 Consensus size: 19
101745728 TGAAAACAAT
101745738 AGAAATATTATAAAATTTTA
1 AGAAA-ATTATAAAATTTTA
** *
101745758 AGAAAATTATAAAAAATTG
1 AGAAAATTATAAAATTTTA
* *
101745777 AG-AATTTATAAAATTTATT
1 AGAAAATTATAAAATTT-TA
*
101745796 A-AATATTATAAAATATTTA
1 AGAAAATTATAAAAT-TTTA
101745815 A
1 A
101745816 ATATATTAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
18 11 0.24
19 27 0.60
20 7 0.16
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
AGAAAATTATAAAATTTTA
Found at i:101745791 original size:9 final size:10
Alignment explanation
Indices: 101745740--101745836 Score: 75
Period size: 10 Copynumber: 10.3 Consensus size: 10
101745730 AAAACAATAG
101745740 AAATATTATA
1 AAATATTATA
101745750 AAAT-TT-TA
1 AAATATTATA
*
101745758 AGAAAATTATA
1 A-AATATTATA
* *
101745769 AAAAATT-GA
1 AAATATTATA
*
101745778 GAAT-TTATA
1 AAATATTATA
*
101745787 AAAT-TTATT
1 AAATATTATA
101745796 AAATATTATA
1 AAATATTATA
101745806 AAATATT-TA
1 AAATATTATA
101745815 AATATATTA-A
1 AA-ATATTATA
101745825 AAA-ATTATA
1 AAATATTATA
101745834 AAA
1 AAA
101745837 GGAATTATAA
Statistics
Matches: 71, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
8 9 0.13
9 28 0.39
10 31 0.44
11 3 0.04
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (10 bp):
AAATATTATA
Found at i:101746225 original size:20 final size:21
Alignment explanation
Indices: 101746202--101746258 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 21
101746192 AAGCTTTTAG
101746202 AAATTATTAAAATATTATA-A
1 AAATTATTAAAATATTATAGA
101746222 AAATGTA--AAAA-ATTATAGA
1 AAAT-TATTAAAATATTATAGA
*
101746241 AAATTATATAAATTATTA
1 AAATTAT-TAAAATATTA
101746259 AAAGATTAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
18 8 0.27
19 9 0.30
20 4 0.13
21 5 0.17
22 4 0.13
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (21 bp):
AAATTATTAAAATATTATAGA
Found at i:101746236 original size:18 final size:19
Alignment explanation
Indices: 101746209--101746244 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
101746199 TAGAAATTAT
*
101746209 TAAAATATTATA-AAAATG
1 TAAAAAATTATAGAAAATG
101746227 TAAAAAATTATAGAAAAT
1 TAAAAAATTATAGAAAAT
101746245 TATATAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (19 bp):
TAAAAAATTATAGAAAATG
Found at i:101746243 original size:10 final size:9
Alignment explanation
Indices: 101746202--101746266 Score: 60
Period size: 10 Copynumber: 6.7 Consensus size: 9
101746192 AAGCTTTTAG
101746202 AAATTATTAA
1 AAATTA-TAA
101746212 AATATTATAA
1 AA-ATTATAA
101746222 AAATGTA-AA
1 AAAT-TATAA
101746231 AAATTATAGA
1 AAATTATA-A
*
101746241 AAATTATAT
1 AAATTATAA
101746250 AAATTATTAA
1 AAATTA-TAA
101746260 AAGATTA
1 AA-ATTA
101746267 GAAATTACTA
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
8 2 0.04
9 15 0.32
10 22 0.47
11 8 0.17
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (9 bp):
AAATTATAA
Found at i:101762861 original size:3 final size:3
Alignment explanation
Indices: 101762853--101762903 Score: 70
Period size: 3 Copynumber: 17.0 Consensus size: 3
101762843 GTCTCATTCA
101762853 ATT ATT ATT A-T ATT ATT ATT ATT ATT ATTT ATT ATT ATT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT
101762897 ATCT ATT
1 AT-T ATT
101762904 TATTCTGTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.09
3 34 0.77
4 6 0.14
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:101762907 original size:16 final size:14
Alignment explanation
Indices: 101762853--101762903 Score: 75
Period size: 14 Copynumber: 3.4 Consensus size: 14
101762843 GTCTCATTCA
101762853 ATTATTATTATATT
1 ATTATTATTATATT
101762867 ATTATTATTATTATTT
1 ATTATTATTA-TA-TT
101762883 ATTATTATTATATT
1 ATTATTATTATATT
101762897 ATCTATT
1 AT-TATT
101762904 TATTCTGTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
14 14 0.41
15 8 0.24
16 12 0.35
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
ATTATTATTATATT
Found at i:101764026 original size:254 final size:253
Alignment explanation
Indices: 101763520--101764000 Score: 855
Period size: 254 Copynumber: 1.9 Consensus size: 253
101763510 CTTTGATTAC
101763520 AGAAGAGAGAGCACAGGAGTTGTGAGCACTACTGACGCGTACTATCTCTGGAGCATGGCAACTAG
1 AGAAGAGAGAGCACAGGAGTTGTGAGCACTACTGACGCGTACTATCTCTGGAGCATGGCAACTAG
*
101763585 CCACATATTCTACTTAGCTTATTTCATTGCTCTCGCCTTTCGCAACTAGAGAAATCGTCACAGGA
66 CCACATATTCTACTTAGCTTATTTCATTACTCTCGCCTTTCGCAACTAGAGAAATCGTCACAGGA
101763650 AGAGTCCCATCTGTCTAGGCCCTTATGTAACTCATCTCGCTCGACACTTTCGATCTTCTCGACAC
131 AGAGTCCCATCTG-CTAGGCCCTTATGTAACTCATCTCGCTCGACACTTTCGATCTTCTCGACAC
* * * *
101763715 ACCGGAGCAGTCATTGACACTTACCCTCGTCGGCCAGAGCACAGGAGTTGTGAGCATGG
195 ACCGAAGCAGTCATTGACACTTACCCTCGTCGGCCAGACCACAGGAGATCTGAGCATGG
101763774 AGAAGAGAGAGCACAGGAGTTGTGAGCACTACTGACGCGTACTATCTCTGGAGCATGGCAACTAG
1 AGAAGAGAGAGCACAGGAGTTGTGAGCACTACTGACGCGTACTATCTCTGGAGCATGGCAACTAG
*
101763839 -C-CATATTTTACTTAGCTT-TTTCATTACTCTCGCCTTTCGCAACTAGAGAAATCGTCACAGGA
66 CCACATATTCTACTTAGCTTATTTCATTACTCTCGCCTTTCGCAACTAGAGAAATCGTCACAGGA
*
101763901 AGAGTCCCATCTG-TAGGCCCTTATGTAACTCATCTCGCTTGACAC-TTCGATCTTCTCGACACA
131 AGAGTCCCATCTGCTAGGCCCTTATGTAACTCATCTCGCTCGACACTTTCGATCTTCTCGACACA
101763964 CCGAAGCAGTCATTGACACTTACCCTCGTCGGCCAGA
196 CCGAAGCAGTCATTGACACTTACCCTCGTCGGCCAGA
101764001 TACCCCCTCA
Statistics
Matches: 223, Mismatches: 4, Indels: 6
0.96 0.02 0.03
Matches are distributed among these distances:
248 54 0.24
249 31 0.14
251 56 0.25
252 16 0.07
253 1 0.00
254 65 0.29
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (253 bp):
AGAAGAGAGAGCACAGGAGTTGTGAGCACTACTGACGCGTACTATCTCTGGAGCATGGCAACTAG
CCACATATTCTACTTAGCTTATTTCATTACTCTCGCCTTTCGCAACTAGAGAAATCGTCACAGGA
AGAGTCCCATCTGCTAGGCCCTTATGTAACTCATCTCGCTCGACACTTTCGATCTTCTCGACACA
CCGAAGCAGTCATTGACACTTACCCTCGTCGGCCAGACCACAGGAGATCTGAGCATGG
Found at i:101764367 original size:11 final size:11
Alignment explanation
Indices: 101764337--101764443 Score: 78
Period size: 11 Copynumber: 9.6 Consensus size: 11
101764327 ACTTTGAGTC
101764337 TTTTATTTTGTT
1 TTTTATTTT-TT
101764349 TTTT-TTTTTT
1 TTTTATTTTTT
101764359 TTTT-TTTTTT
1 TTTTATTTTTT
*
101764369 ATTTTATCTTTT
1 -TTTTATTTTTT
* *
101764381 ATTTA-TCTTT
1 TTTTATTTTTT
101764391 TTTTATTTTTAT
1 TTTTATTTTT-T
*
101764403 TTTTA-TTTTA
1 TTTTATTTTTT
*
101764413 TATTATTTTTT
1 TTTTATTTTTT
*
101764424 ATTTTAACTTTTT
1 -TTTT-ATTTTTT
*
101764437 TATTATT
1 TTTTATT
101764444 ATGGTTGTTT
Statistics
Matches: 75, Mismatches: 13, Indels: 15
0.73 0.13 0.15
Matches are distributed among these distances:
10 23 0.31
11 25 0.33
12 21 0.28
13 6 0.08
ACGTcount: A:0.15, C:0.03, G:0.01, T:0.81
Consensus pattern (11 bp):
TTTTATTTTTT
Found at i:101764412 original size:43 final size:43
Alignment explanation
Indices: 101764335--101764445 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 43
101764325 AGACTTTGAG
* * *
101764335 TCTTTTATTT-TGTTTTTTT-TTTTT-TTTTTTTTTTATTTTA
1 TCTTTTATTTATCTTTTTTTATTTTTATTTTTATTTTATATTA
101764375 TCTTTTATTTATCTTTTTTTATTTTTATTTTTATTTTATATTA
1 TCTTTTATTTATCTTTTTTTATTTTTATTTTTATTTTATATTA
* * *
101764418 TTTTTTATTTTAAC-TTTTTTATTATTAT
1 TCTTTTA-TTTATCTTTTTTTATTTTTAT
101764446 GGTTGTTTCT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
40 10 0.16
41 8 0.13
42 5 0.08
43 33 0.54
44 5 0.08
ACGTcount: A:0.15, C:0.04, G:0.01, T:0.80
Consensus pattern (43 bp):
TCTTTTATTTATCTTTTTTTATTTTTATTTTTATTTTATATTA
Found at i:101764423 original size:1 final size:1
Alignment explanation
Indices: 101764337--101764411 Score: 51
Period size: 1 Copynumber: 75.0 Consensus size: 1
101764327 ACTTTGAGTC
* * * * * * * * * *
101764337 TTTTATTTTGTTTTTTTTTTTTTTTTTTTTTTATTTTATCTTTTATTTATCTTTTTTTATTTTTA
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
101764402 TTTTTATTTT
1 TTTTTTTTTT
101764412 ATATTATTTT
Statistics
Matches: 52, Mismatches: 22, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.11, C:0.03, G:0.01, T:0.85
Consensus pattern (1 bp):
T
Found at i:101764428 original size:6 final size:6
Alignment explanation
Indices: 101764337--101764428 Score: 70
Period size: 6 Copynumber: 15.5 Consensus size: 6
101764327 ACTTTGAGTC
*
101764337 TTTTAT TTTGT-T TTTT-T TTTT-T TTTTTT TTTTA- TTTTAT CTTTTAT
1 TTTTAT TTT-TAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT -TTTTAT
* *
101764383 TTATCTTT TTTTAT TTTTAT TTTTA- TTTTA- TATTATT TTTTAT TTT
1 TT-T-TAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T TTTTAT TTT
101764429 AACTTTTTTA
Statistics
Matches: 73, Mismatches: 5, Indels: 16
0.78 0.05 0.17
Matches are distributed among these distances:
5 25 0.34
6 31 0.42
7 13 0.18
8 4 0.05
ACGTcount: A:0.13, C:0.02, G:0.01, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:101764429 original size:5 final size:5
Alignment explanation
Indices: 101764337--101764421 Score: 61
Period size: 5 Copynumber: 16.8 Consensus size: 5
101764327 ACTTTGAGTC
* * *
101764337 TTTTA TTTTG TTTT- TTTT- TTTTT TTTTT TTTTA TTTTA TCTTT- TATTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA T-TTTA
*
101764386 TCTTT- TTTTA TTTTTA TTTTTA TTTTA TATTA TTTT
1 T-TTTA TTTTA -TTTTA -TTTTA TTTTA TTTTA TTTT
101764422 TTATTTTAAC
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
4 11 0.16
5 40 0.58
6 18 0.26
ACGTcount: A:0.13, C:0.02, G:0.01, T:0.84
Consensus pattern (5 bp):
TTTTA
Found at i:101764443 original size:27 final size:26
Alignment explanation
Indices: 101764351--101764445 Score: 84
Period size: 27 Copynumber: 3.5 Consensus size: 26
101764341 ATTTTGTTTT
* * *
101764351 TTTTTTTTTTTTTTTTTTATTTTATC
1 TTTTTTTTATTATTTTTTATTTTAAC
* **
101764377 TTTTATTTATCT-TTTTTTATTTTTATT
1 TTTTTTTTAT-TATTTTTTA-TTTTAAC
101764404 TTTATTTTATATTATTTTTTATTTTAAC
1 TTT-TTTT-TATTATTTTTTATTTTAAC
101764432 TTTTTTATTATTAT
1 TTTTTT-TTATTAT
101764446 GGTTGTTTCT
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
26 15 0.26
27 19 0.33
28 13 0.23
29 10 0.18
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (26 bp):
TTTTTTTTATTATTTTTTATTTTAAC
Found at i:101767554 original size:80 final size:79
Alignment explanation
Indices: 101767405--101767634 Score: 379
Period size: 80 Copynumber: 2.9 Consensus size: 79
101767395 AAAATTTTTA
*
101767405 AGATTCTAGAGAATATGCTCATCAATTTAGAAGCAAGAAAATAGTAGATGAAAGTGGACAAAATG
1 AGATTCTAGAGAATATGCTCATCAATTTAGAAGCAAGAAAATAGTAGATGAAAGTGGAGAAAATG
101767470 AGAAGATGAAGTAG
66 AGAAGATGAAGTAG
* * *
101767484 AGATTTTAGAGAACATGCTCATCAATTTAGAAGCAAAGAAAATAGTAGATGAAAGTGGGGAAAAT
1 AGATTCTAGAGAATATGCTCATCAATTTAGAAGC-AAGAAAATAGTAGATGAAAGTGGAGAAAAT
101767549 GAGAAGATGAAGTAG
65 GAGAAGATGAAGTAG
* * **
101767564 AGATTCTAGAGAATATGCTCATCAATTTAGAAACAAGAAAATGGTATTTGAAAGTGGAGAAAATG
1 AGATTCTAGAGAATATGCTCATCAATTTAGAAGCAAGAAAATAGTAGATGAAAGTGGAGAAAATG
101767629 AGAAGA
66 AGAAGA
101767635 AAAAAATGAA
Statistics
Matches: 139, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
79 65 0.47
80 74 0.53
ACGTcount: A:0.47, C:0.07, G:0.24, T:0.22
Consensus pattern (79 bp):
AGATTCTAGAGAATATGCTCATCAATTTAGAAGCAAGAAAATAGTAGATGAAAGTGGAGAAAATG
AGAAGATGAAGTAG
Found at i:101768260 original size:19 final size:20
Alignment explanation
Indices: 101768224--101768261 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
101768214 CACGAATAGT
101768224 AGGGAAAGAAAGAAGAAAAA
1 AGGGAAAGAAAGAAGAAAAA
101768244 AGGGAAAGAAA-AAGAAAA
1 AGGGAAAGAAAGAAGAAAA
101768262 GGAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (20 bp):
AGGGAAAGAAAGAAGAAAAA
Found at i:101773682 original size:3 final size:3
Alignment explanation
Indices: 101773674--101773701 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
101773664 AATAACTTAA
101773674 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
101773702 ACAAATTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:101774905 original size:19 final size:19
Alignment explanation
Indices: 101774877--101774954 Score: 61
Period size: 19 Copynumber: 4.1 Consensus size: 19
101774867 TGAAAACAAT
101774877 AGAAATATTATAAAATTTTA
1 AGAAA-ATTATAAAATTTTA
** *
101774897 AGAAAATTATAAAAAATTG
1 AGAAAATTATAAAATTTTA
* *
101774916 AG-AATTTATAAAATTTATT
1 AGAAAATTATAAAATTT-TA
*
101774935 A-AATATTATAAAATATTTA
1 AGAAAATTATAAAAT-TTTA
101774954 A
1 A
101774955 ATATATTAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
18 11 0.24
19 27 0.60
20 7 0.16
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
AGAAAATTATAAAATTTTA
Found at i:101774930 original size:9 final size:10
Alignment explanation
Indices: 101774879--101774975 Score: 75
Period size: 10 Copynumber: 10.3 Consensus size: 10
101774869 AAAACAATAG
101774879 AAATATTATA
1 AAATATTATA
101774889 AAAT-TT-TA
1 AAATATTATA
*
101774897 AGAAAATTATA
1 A-AATATTATA
* *
101774908 AAAAATT-GA
1 AAATATTATA
*
101774917 GAAT-TTATA
1 AAATATTATA
*
101774926 AAAT-TTATT
1 AAATATTATA
101774935 AAATATTATA
1 AAATATTATA
101774945 AAATATT-TA
1 AAATATTATA
101774954 AATATATTA-A
1 AA-ATATTATA
101774964 AAA-ATTATA
1 AAATATTATA
101774973 AAA
1 AAA
101774976 GGAATTATAA
Statistics
Matches: 71, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
8 9 0.13
9 28 0.39
10 31 0.44
11 3 0.04
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (10 bp):
AAATATTATA
Found at i:101775366 original size:20 final size:21
Alignment explanation
Indices: 101775343--101775399 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 21
101775333 AAGCTTTTAG
101775343 AAATTATTAAAATATTATA-A
1 AAATTATTAAAATATTATAGA
101775363 AAATGTA--AAAA-ATTATAGA
1 AAAT-TATTAAAATATTATAGA
*
101775382 AAATTATATAAATTATTA
1 AAATTAT-TAAAATATTA
101775400 AAAGATTAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
18 8 0.27
19 9 0.30
20 4 0.13
21 5 0.17
22 4 0.13
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (21 bp):
AAATTATTAAAATATTATAGA
Found at i:101775377 original size:18 final size:19
Alignment explanation
Indices: 101775350--101775385 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
101775340 TAGAAATTAT
*
101775350 TAAAATATTATA-AAAATG
1 TAAAAAATTATAGAAAATG
101775368 TAAAAAATTATAGAAAAT
1 TAAAAAATTATAGAAAAT
101775386 TATATAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (19 bp):
TAAAAAATTATAGAAAATG
Found at i:101775384 original size:10 final size:9
Alignment explanation
Indices: 101775343--101775407 Score: 60
Period size: 10 Copynumber: 6.7 Consensus size: 9
101775333 AAGCTTTTAG
101775343 AAATTATTAA
1 AAATTA-TAA
101775353 AATATTATAA
1 AA-ATTATAA
101775363 AAATGTA-AA
1 AAAT-TATAA
101775372 AAATTATAGA
1 AAATTATA-A
*
101775382 AAATTATAT
1 AAATTATAA
101775391 AAATTATTAA
1 AAATTA-TAA
101775401 AAGATTA
1 AA-ATTA
101775408 GAAATTACTA
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
8 2 0.04
9 15 0.32
10 22 0.47
11 8 0.17
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (9 bp):
AAATTATAA
Found at i:101783259 original size:15 final size:15
Alignment explanation
Indices: 101783236--101783265 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
101783226 TTATTTATAA
*
101783236 TAAATTTTAAAAAAT
1 TAAAATTTAAAAAAT
101783251 TAAAATTTAAAAAAT
1 TAAAATTTAAAAAAT
101783266 GGTCACTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAAATTTAAAAAAT
Found at i:101787765 original size:33 final size:33
Alignment explanation
Indices: 101787728--101787795 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
101787718 TTAACTCGGT
101787728 TTAGCTTAATCTACTTAGCTCGGGGGGGTTGAA
1 TTAGCTTAATCTACTTAGCTCGGGGGGGTTGAA
101787761 TTAGCTTAATCTACTTAGCTCGGGGGGGTTGAA
1 TTAGCTTAATCTACTTAGCTCGGGGGGGTTGAA
101787794 TT
1 TT
101787796 GTAAACTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.21, C:0.15, G:0.29, T:0.35
Consensus pattern (33 bp):
TTAGCTTAATCTACTTAGCTCGGGGGGGTTGAA
Found at i:101793120 original size:48 final size:49
Alignment explanation
Indices: 101793059--101793156 Score: 162
Period size: 48 Copynumber: 2.0 Consensus size: 49
101793049 GATTCAAAAG
* *
101793059 AACTGTTTTCAAAAAATCTGGATGATTTGAGAAA-TATGTAGTTTACTA
1 AACTATTTTCAAAAAATCTGGATGATTTGAGAAAGTATGTAGTTCACTA
*
101793107 AACTATTTTCAAAAAATCTGGATGATTTGAGAAAGTATGTGGTTCACTA
1 AACTATTTTCAAAAAATCTGGATGATTTGAGAAAGTATGTAGTTCACTA
101793156 A
1 A
101793157 GTCTCCGGCA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
48 33 0.72
49 13 0.28
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (49 bp):
AACTATTTTCAAAAAATCTGGATGATTTGAGAAAGTATGTAGTTCACTA
Found at i:101796692 original size:25 final size:26
Alignment explanation
Indices: 101796656--101796761 Score: 180
Period size: 25 Copynumber: 4.2 Consensus size: 26
101796646 TGAAATTCCC
101796656 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
101796682 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
101796707 ATCATGAAACATTTACCT-AGCCATT
1 ATCATGGAACATTTACCTAACCCATT
101796732 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
101796758 ATCA
1 ATCA
101796762 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 48 0.65
26 26 0.35
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:101796742 original size:51 final size:51
Alignment explanation
Indices: 101796656--101796761 Score: 178
Period size: 51 Copynumber: 2.1 Consensus size: 51
101796646 TGAAATTCCC
*
101796656 ATCATGGAACATTTACCTAACCCATTATCATGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCCATT
*
101796707 ATCATGAAACATTTACCT-AGCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATTATCAT-GAACATTTACCTAACCCATT
101796758 ATCA
1 ATCA
101796762 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
50 11 0.21
51 41 0.79
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (51 bp):
ATCATGAAACATTTACCTAACCCATTATCATGAACATTTACCTAACCCATT
Found at i:101803802 original size:26 final size:26
Alignment explanation
Indices: 101803772--101803878 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
101803762 TGAAATTCCC
101803772 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
101803798 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
101803824 ATCATGAAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
*
101803849 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
101803875 ATCA
1 ATCA
101803879 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 24 0.31
26 53 0.69
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:101803864 original size:51 final size:52
Alignment explanation
Indices: 101803772--101803878 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
101803762 TGAAATTCCC
*
101803772 ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
*
101803824 ATCATGAAACATTTACCTAA-CCATTATCATGGAACATTTACCTAACCTATT
1 ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
101803875 ATCA
1 ATCA
101803879 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 34 0.64
52 19 0.36
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (52 bp):
ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
Found at i:101815510 original size:21 final size:21
Alignment explanation
Indices: 101815467--101815506 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
101815457 TATATATGAT
*
101815467 AAAATAGTTAAATATAAAATA
1 AAAATAATTAAATATAAAATA
*
101815488 AAAATAATT-AATATTAAAT
1 AAAATAATTAAATATAAAAT
101815507 TAAATTTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (21 bp):
AAAATAATTAAATATAAAATA
Done.