Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 194 of 284
Found at i:65410870 original size:27 final size:27
Alignment explanation
Indices: 65410829--65410941 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
65410819 GAGGAAGCGT
*
65410829 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
65410856 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
65410883 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * * *
65410911 TTTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
65410937 TCTGG
1 TCTGG
65410942 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 4 0.05
27 55 0.75
28 14 0.19
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:65410934 original size:54 final size:54
Alignment explanation
Indices: 65410827--65410941 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
65410817 TGGAGGAAGC
*
65410827 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * * *
65410881 GTTCTGGTGGCTCTGCCACGATTATCTGTATTTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
65410935 GTTCTGG
1 GTTCTGG
65410942 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.69
55 17 0.31
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:65416502 original size:27 final size:27
Alignment explanation
Indices: 65416463--65416515 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
65416453 AACATTACAA
65416463 ATTAAAAGAAAATGTTACCAAATAACT
1 ATTAAAAGAAAATGTTACCAAATAACT
65416490 ATTAAAA-ATAAATGTTACCAAATAAC
1 ATTAAAAGA-AAATGTTACCAAATAAC
65416516 GTTACAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (27 bp):
ATTAAAAGAAAATGTTACCAAATAACT
Found at i:65416514 original size:14 final size:14
Alignment explanation
Indices: 65416472--65416514 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
65416462 AATTAAAAGA
65416472 AAATGTTACCAAAT
1 AAATGTTACCAAAT
* * *
65416486 AACTATTA-AAAAT
1 AAATGTTACCAAAT
65416499 AAATGTTACCAAAT
1 AAATGTTACCAAAT
65416513 AA
1 AA
65416515 CGTTACAAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.28
Consensus pattern (14 bp):
AAATGTTACCAAAT
Found at i:65417556 original size:98 final size:97
Alignment explanation
Indices: 65417454--65417633 Score: 236
Period size: 97 Copynumber: 1.8 Consensus size: 97
65417444 CAATAATTTC
* * ** *
65417454 TATTTGAA-TCATATAAATTAAATAAACTATATGATTGATATTGACAAAACACGTGTAATATTGA
1 TATTTGAACTC-TAAAAATCAAATAAACTATACAATTGATATTCAC-AAACACGTGTAATATTGA
*
65417518 GAACTGCATAAGAATAAATAAAGACGATGGTTTG
64 GAACTACATAAGAATAAATAAAGACGATGGTTTG
* * * *
65417552 TATTTGAACTCTAAAAATCAAATCAATTATACAATTGATCTTCACAAACATGTGTAATATTGAGA
1 TATTTGAACTCTAAAAATCAAATAAACTATACAATTGATATTCACAAACACGTGTAATATTGAGA
*
65417617 ACTACATATGAATAAAT
66 ACTACATAAGAATAAAT
65417634 GATGACAATA
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
97 34 0.49
98 34 0.49
99 2 0.03
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (97 bp):
TATTTGAACTCTAAAAATCAAATAAACTATACAATTGATATTCACAAACACGTGTAATATTGAGA
ACTACATAAGAATAAATAAAGACGATGGTTTG
Found at i:65417677 original size:97 final size:98
Alignment explanation
Indices: 65417403--65417710 Score: 284
Period size: 98 Copynumber: 3.2 Consensus size: 98
65417393 TGTTTGCACG
* * * *
65417403 AACACGTGTAAT-TTAAAGAACTACGTATGAATGAATGATGACAATAATTTCTATTTGAATCAT-
1 AACACGTGTAATATT-GAGAACTACATATGAATAAATGATGACAATAATTTATATTTGAAT-ATC
* ** *
65417466 ATAAATTAAATAAACTATATGATTGATATTGACAA
64 ATAAATTAAATAAATTATACAATTGATATTCACAA
* * * * * ** * *
65417501 AACACGTGTAATATTGAGAACTGCATAAGAATAAATAAAGACGATGGTTTGTATTTGAA-CTCTA
1 AACACGTGTAATATTGAGAACTACATATGAATAAATGATGACAATAATTTATATTTGAATATC-A
* * * *
65417565 AAAATCAAATCAATTATACAATTGATCTTCAC-A
65 TAAATTAAATAAATTATACAATTGATATTCACAA
* *
65417598 AACATGTGTAATATTGAGAACTACATATGAATAAATGATGACAATAATTTATATTTGAATTTCAT
1 AACACGTGTAATATTGAGAACTACATATGAATAAATGATGACAATAATTTATATTTGAATATCAT
* ** * **
65417663 AGATTAAATAAATTATA-ATATCCATCTTTGCAA
66 AAATTAAATAAATTATACA-ATTGATATTCACAA
65417696 AACACGTGTAATATT
1 AACACGTGTAATATT
65417711 AATAATTGTA
Statistics
Matches: 165, Mismatches: 39, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
96 2 0.01
97 74 0.45
98 87 0.53
99 2 0.01
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (98 bp):
AACACGTGTAATATTGAGAACTACATATGAATAAATGATGACAATAATTTATATTTGAATATCAT
AAATTAAATAAATTATACAATTGATATTCACAA
Found at i:65417732 original size:98 final size:95
Alignment explanation
Indices: 65417431--65417936 Score: 238
Period size: 98 Copynumber: 5.1 Consensus size: 95
65417421 AACTACGTAT
* * * * ** *
65417431 GAATGAATGATGACAATAATTTCTATTTGAATCATATAAATTAAATAAACTAT-ATGATTGATAT
1 GAATAAATGATGACAATAATTTATATTTGAATC--ATAGATTAAATAAATTATAAT-ATCCATCT
* * *
65417495 T-GACAAAACACGTGTAATATTGAGAACTGCATAA
63 TAG-CAAAACACGTGTAATATT-AAAATTGTATAA
* * * ** * * * * * **
65417529 GAATAAATAAAGACGATGGTTTGTATTTGAACTCTAAAAATCAAATCAATTATACA-ATTGATCT
1 GAATAAATGATGACAATAATTTATATTTGAA-TC-ATAGATTAAATAAATTATA-ATATCCATCT
* * * ** *
65417593 T--CACAAACATGTGTAATATTGAGAACTACATAT
63 TAGCA-AAACACGTGTAATATT-AAAATTGTATAA
65417626 GAATAAATGATGACAATAATTTATATTTGAATTTCATAGATTAAATAAATTATAATATCCATCTT
1 GAATAAATGATGACAATAATTTATATTTGAA--TCATAGATTAAATAAATTATAATATCCATCTT
*
65417691 TGCAAAACACGTGTAATATTAATAATTGTATAA
64 AGCAAAACACGTGTAATATTAA-AATTGTATAA
* * * * * * * ** * *
65417724 GAACAAATGAAGACTATGGCATGTAT-TTT-AA-CACTAGAAATCAAATCAATTATAGGAACAAT
1 GAATAAATGATGACAAT--AATTTATATTTGAATCA-TAG--ATTAAATAAATTATAATATCCAT
* * * *
65417786 CTTAAC-AAATATGTGTAACATTAAAACTTGCATAACTGCATA
61 CTTAGCAAAACACGTGTAATATTAAAA-TTG--T-A-T--A-A
* * *
65417828 TGAATACATGATGATAATAATTTATATTTGAAACTCATAAATTAAATAAATTATAATATCCATCT
1 -GAATAAATGATGACAATAATTTATATTTG-AA-TCATAGATTAAATAAATTATAATATCCATCT
* *
65417893 TCGCAAAACACGTGTAATATTAAGAATTGCATAA
63 TAGCAAAACACGTGTAATATTAA-AATTGTATAA
65417927 GAATAAATGA
1 GAATAAATGA
65417937 AGACGATGGC
Statistics
Matches: 307, Mismatches: 71, Indels: 60
0.70 0.16 0.14
Matches are distributed among these distances:
95 2 0.01
96 8 0.03
97 92 0.30
98 116 0.38
99 9 0.03
100 8 0.03
101 1 0.00
102 1 0.00
103 7 0.02
104 4 0.01
105 33 0.11
106 20 0.07
107 4 0.01
108 2 0.01
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (95 bp):
GAATAAATGATGACAATAATTTATATTTGAATCATAGATTAAATAAATTATAATATCCATCTTAG
CAAAACACGTGTAATATTAAAATTGTATAA
Found at i:65417890 original size:203 final size:193
Alignment explanation
Indices: 65417419--65418112 Score: 695
Period size: 195 Copynumber: 3.5 Consensus size: 193
65417409 TGTAATTTAA
* * *
65417419 AGAACTACGTATGAATGAATGATGACAATAATTTCTATTTGAATCAT-ATAAATTAAATAAACTA
1 AGAACTACATATGAAT-AATGATGACAATAATTTATATTTGAATC-TCATAAATTAAATAAATTA
** * * * *
65417483 T-ATGATTGAT-ATTGACAAAACACGTGTAATATTGAGAACTGCATAAGAATAAATAAAGACGAT
64 TAAT-ATCCATCTTTG-CAAAACACGTGTAATATTAAGAATTGCATAAGAATAAATGAAGACGAT
* * * ** *
65417546 GGTTTGTATTTGAACTCTAAAAATCAAATCAATTATACAATTGATCTTCACAAACATGTGTAATA
127 GGCTTGTATTTTAACACT-AAAATCAAATCAATTATACAATCAATCTTAACAAACATGTGTAATA
65417611 TTG
191 TTG
* *
65417614 AGAACTACATATGAATAAATGATGACAATAATTTATATTTGAATTTCATAGATTAAATAAATTAT
1 AGAACTACATATGAAT-AATGATGACAATAATTTATATTTGAATCTCATAAATTAAATAAATTAT
* * * *
65417679 AATATCCATCTTTGCAAAACACGTGTAATATTAATAATTGTATAAGAACAAATGAAGACTATGGC
65 AATATCCATCTTTGCAAAACACGTGTAATATTAAGAATTGCATAAGAATAAATGAAGACGATGGC
* * *
65417744 ATGTATTTTAACACTAGAAATCAAATCAATTATAGGAA-CAATCTTAACAAATATGTGTAACATT
130 TTGTATTTTAACACTA-AAATCAAATCAATTATA-CAATCAATCTTAACAAACATGTGT-A-A-T
65417808 AAAACTTG
190 ---A-TTG
* * * *
65417816 CATAACTGCATATGAATACATGATGATAATAATTTATATTTGAAACTCATAAATTAAATAAATTA
1 -AGAACTACATATGAATA-ATGATGACAATAATTTATATTTGAATCTCATAAATTAAATAAATTA
*
65417881 TAATATCCATCTTCGCAAAACACGTGTAATATTAAGAATTGCATAAGAATAAATGAAGACGATGG
64 TAATATCCATCTTTGCAAAACACGTGTAATATTAAGAATTGCATAAGAATAAATGAAGACGATGG
* * * *
65417946 CTTGTATTTTAACACTAAAACTCAAATCAATT-TTCTGATCAATCTTCAC-AACTACT-TGTAAC
129 CTTGTATTTTAACACTAAAA-TCAAATCAATTATAC-AATCAATCTTAACAAAC-A-TGTGTAAT
**
65418008 ATAA
190 ATTG
* *** ** * *
65418012 AGAATTGTGTATGAATGAATGAACACAATAATTTATATTTGAATCCCATAAATCAAATAAATTAT
1 AGAACTACATATGAAT-AATGATGACAATAATTTATATTTGAATCTCATAAATTAAATAAATTAT
* ** *
65418077 AATAT-TATTCTTT-TTAAACACATGTAATATTAAGAA
65 AATATCCA-TCTTTGCAAAACACGTGTAATATTAAGAA
65418113 CAGATAATTA
Statistics
Matches: 418, Mismatches: 60, Indels: 43
0.80 0.12 0.08
Matches are distributed among these distances:
194 23 0.06
195 211 0.50
196 10 0.02
197 2 0.00
198 1 0.00
201 2 0.00
202 12 0.03
203 156 0.37
204 1 0.00
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (193 bp):
AGAACTACATATGAATAATGATGACAATAATTTATATTTGAATCTCATAAATTAAATAAATTATA
ATATCCATCTTTGCAAAACACGTGTAATATTAAGAATTGCATAAGAATAAATGAAGACGATGGCT
TGTATTTTAACACTAAAATCAAATCAATTATACAATCAATCTTAACAAACATGTGTAATATTG
Found at i:65418715 original size:6 final size:6
Alignment explanation
Indices: 65418704--65418767 Score: 119
Period size: 6 Copynumber: 10.7 Consensus size: 6
65418694 TAGGTATATT
*
65418704 ATATAC ATATAC GTATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
65418752 ATATAC ATATAC ATAT
1 ATATAC ATATAC ATAT
65418768 CCTTTTTTTC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:65422747 original size:80 final size:80
Alignment explanation
Indices: 65422656--65422816 Score: 295
Period size: 80 Copynumber: 2.0 Consensus size: 80
65422646 GAAGCAGCAG
*
65422656 TTGACATCTCTCTCTAATAAACTATCATCTTTTGAACATGAAATATCTGAAGAACATGCTGATGA
1 TTGACATCTCTCTCTAATAAACTATCATCTTTTGAACATGAAATATCTAAAGAACATGCTGATGA
*
65422721 GCCACGGAAAAAGAA
66 GCCACGAAAAAAGAA
*
65422736 TTGACATCTCTCTCTAATAAACTATCATCTTTTGCACATGAAATATCTAAAGAACATGCTGATGA
1 TTGACATCTCTCTCTAATAAACTATCATCTTTTGAACATGAAATATCTAAAGAACATGCTGATGA
65422801 GCCACGAAAAAAGAA
66 GCCACGAAAAAAGAA
65422816 T
1 T
65422817 CTATCTCAAG
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (80 bp):
TTGACATCTCTCTCTAATAAACTATCATCTTTTGAACATGAAATATCTAAAGAACATGCTGATGA
GCCACGAAAAAAGAA
Found at i:65424345 original size:98 final size:98
Alignment explanation
Indices: 65424044--65424505 Score: 271
Period size: 97 Copynumber: 4.8 Consensus size: 98
65424034 GACCACAATA
* * * * **
65424044 ATTTTTATTTGAATCCCATAAAATAAATAAACTATAATATTC-ATA-TCGCAAAACATGTGTAAT
1 ATTTATATTTGAATCCCATAAATTAAATAAATTATAATA-TCGATATTTGCAAAACACATGTAAT
**
65424107 ATTAAGAACTGCATAAGAATAAATGAAGACGATG
65 ATTAAGAACTGCATAAGAATAAATGAAGAATATG
* ** * * * * ** * * *
65424141 GTTTCCATTTGAA-CTCTAAAAATCAAATCAATTATACGATCGAT-TTT-CACAAGCACCTATAA
1 ATTTATATTTGAATC-CCATAAATTAAATAAATTATAATATCGATATTTGCA-AAACACATGTAA
* ** * *
65424203 TATTGAGAACAACATATGATTAAATGAAGACAGTA--
64 TATTAAGAACTGCATAAGAATAAATGAAGA-A-TATG
*
65424238 ATTTATATTTGAATCCCATAAATTAAATAAATTACAATATCGATATTTGCAAAACACATGTAATA
1 ATTTATATTTGAATCCCATAAATTAAATAAATTATAATATCGATATTTGCAAAACACATGTAATA
**
65424303 TTAAGAGGTGCATAAGAATAAATGAAGAATATG
66 TTAAGAACTGCATAAGAATAAATGAAGAATATG
* * * * *
65424336 ATTTGTATTTGAA--CCATAGAAATCAAATCAATTATACA-ATCGAT-TTT-CACAAATACGTGT
1 ATTTATATTTGAATCCCAT--AAATTAAATAAATTATA-ATATCGATATTTGCA-AAACACATGT
* * *** * * *
65424396 AACATTAAGAATTATGTATGAATTAATGAAGACTA--
62 AATATTAAGAACTGCATAAGAATAAATGAAGAATATG
* * * * * *
65424431 ATTTATATTTG-A----ATAAATTAAATAAATTATAAGATAGATCTTTTCAAAGCACATGCAATA
1 ATTTATATTTGAATCCCATAAATTAAATAAATTATAATATCGATATTTGCAAAACACATGTAATA
65424491 TTAAGAAGC-GCATAA
66 TTAAGAA-CTGCATAA
65424506 AATTTAATGA
Statistics
Matches: 274, Mismatches: 72, Indels: 44
0.70 0.18 0.11
Matches are distributed among these distances:
89 1 0.00
90 20 0.07
91 21 0.08
92 4 0.01
94 1 0.00
95 10 0.04
96 13 0.05
97 132 0.48
98 68 0.25
99 4 0.01
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (98 bp):
ATTTATATTTGAATCCCATAAATTAAATAAATTATAATATCGATATTTGCAAAACACATGTAATA
TTAAGAACTGCATAAGAATAAATGAAGAATATG
Found at i:65424380 original size:195 final size:193
Alignment explanation
Indices: 65424042--65424505 Score: 523
Period size: 195 Copynumber: 2.4 Consensus size: 193
65424032 ATGACCACAA
* * * * **
65424042 TAATTTTTATTTGAATCCCATAAAATAAATAAACTATAATATTC-ATA-TCGCAAAACATGTGTA
1 TAATTTATATTTGAATCCCATAAATTAAATAAATTATAATA-TCGATATTTGCAAAACACATGTA
* * *
65424105 ATATTAAGAACTGCATAAGAATAAATGAAGACGATGGTTTCCATTTGAACTCTAAAAATCAAATC
65 ATATTAAGAAGTGCATAAGAATAAATGAAGAAGATGATTTCCATTTGAACTCTAAAAATCAAATC
* * * *
65424170 AATTATACGATCGATTTTCACAAGCACCTATAATATTGAGAACAACATATG-ATTAAATGAAGAC
130 AATTATACAATCGATTTTCACAAACACCTATAACATTAAGAACAACATATGAATT-AATGAAGAC
*
65424234 AGTAATTTATATTTGAATCCCATAAATTAAATAAATTACAATATCGATATTTGCAAAACACATGT
1 --TAATTTATATTTGAATCCCATAAATTAAATAAATTATAATATCGATATTTGCAAAACACATGT
* * ** *
65424299 AATATTAAGAGGTGCATAAGAATAAATGAAGAATATGATTTGTATTTGAAC-CATAGAAATCAAA
64 AATATTAAGAAGTGCATAAGAATAAATGAAGAAGATGATTTCCATTTGAACTC-TAAAAATCAAA
* * * ** **
65424363 TCAATTATACAATCGATTTTCACAAATACGTGTAACATTAAGAATTATGTATGAATTAATGAAGA
128 TCAATTATACAATCGATTTTCACAAACACCTATAACATTAAGAACAACATATGAATTAATGAAGA
65424428 C
193 C
* * * * * *
65424429 TAATTTATATTTG-A----ATAAATTAAATAAATTATAAGATAGATCTTTTCAAAGCACATGCAA
1 TAATTTATATTTGAATCCCATAAATTAAATAAATTATAATATCGATATTTGCAAAACACATGTAA
*
65424489 TATTAAGAAGCGCATAA
66 TATTAAGAAGTGCATAA
65424506 AATTTAATGA
Statistics
Matches: 231, Mismatches: 35, Indels: 14
0.82 0.12 0.05
Matches are distributed among these distances:
188 54 0.23
192 1 0.00
193 15 0.06
194 41 0.18
195 117 0.51
196 3 0.01
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (193 bp):
TAATTTATATTTGAATCCCATAAATTAAATAAATTATAATATCGATATTTGCAAAACACATGTAA
TATTAAGAAGTGCATAAGAATAAATGAAGAAGATGATTTCCATTTGAACTCTAAAAATCAAATCA
ATTATACAATCGATTTTCACAAACACCTATAACATTAAGAACAACATATGAATTAATGAAGAC
Found at i:65427053 original size:56 final size:57
Alignment explanation
Indices: 65426993--65427099 Score: 141
Period size: 56 Copynumber: 1.9 Consensus size: 57
65426983 TATATTGTAC
65426993 ATTA-TAAAATTATTTTAC-TATATATATTATTAT-TTATTATATCTTA-TTGTTCACAA
1 ATTATTAAAATTATTTTACAT-TAT-TATT-TTATATTATTATATCTTACTTGTTCACAA
**
65427049 ATTATTATTATTATTTTACATTATTATTTTATATTATTATATCTTACTTGT
1 ATTATTAAAATTATTTTACATTATTATTTTATATTATTATATCTTACTTGT
65427100 ATTATACATC
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
55 4 0.09
56 21 0.47
57 19 0.42
58 1 0.02
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.58
Consensus pattern (57 bp):
ATTATTAAAATTATTTTACATTATTATTTTATATTATTATATCTTACTTGTTCACAA
Found at i:65427073 original size:13 final size:13
Alignment explanation
Indices: 65427055--65427088 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
65427045 ACAAATTATT
65427055 ATTATTATTTTAC
1 ATTATTATTTTAC
*
65427068 ATTATTATTTTAT
1 ATTATTATTTTAC
65427081 ATTATTAT
1 ATTATTAT
65427089 ATCTTACTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (13 bp):
ATTATTATTTTAC
Found at i:65427087 original size:16 final size:17
Alignment explanation
Indices: 65427001--65427088 Score: 51
Period size: 17 Copynumber: 5.3 Consensus size: 17
65426991 ACATTATAAA
*
65427001 ATTATT-TTACTATATAT
1 ATTATTATTATTATAT-T
65427018 ATTATTATTTATTATA-T
1 ATTATTA-TTATTATATT
* * * *
65427035 CTTATTGTTCA-CAAATT
1 ATTATTATT-ATTATATT
* *
65427052 ATTATTATTATTTTA-C
1 ATTATTATTATTATATT
65427068 ATTATTATT-TTATATT
1 ATTATTATTATTATATT
65427084 ATTAT
1 ATTAT
65427089 ATCTTACTTG
Statistics
Matches: 52, Mismatches: 13, Indels: 13
0.67 0.17 0.17
Matches are distributed among these distances:
15 4 0.08
16 19 0.37
17 22 0.42
19 7 0.13
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (17 bp):
ATTATTATTATTATATT
Found at i:65427771 original size:32 final size:29
Alignment explanation
Indices: 65427708--65427764 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
65427698 GTAGTACTCT
*
65427708 TTTTTGTATGTCATGCATTATTTTATTAC
1 TTTTTGTATATCATGCATTATTTTATTAC
*
65427737 TTTTTGTATATCATGCATTATTTAATTA
1 TTTTTGTATATCATGCATTATTTTATTA
65427765 TTACTTTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.58
Consensus pattern (29 bp):
TTTTTGTATATCATGCATTATTTTATTAC
Found at i:65431246 original size:15 final size:15
Alignment explanation
Indices: 65431210--65431259 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
65431200 GATATTCTTT
65431210 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
65431224 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
*
65431240 TTT-CATCACAT-CA
1 TTTGCATCTCATGCA
65431253 TTTGCAT
1 TTTGCAT
65431260 TCAAAGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:65439663 original size:210 final size:210
Alignment explanation
Indices: 65439301--65440278 Score: 1398
Period size: 210 Copynumber: 4.7 Consensus size: 210
65439291 TTTATCGGGG
* *
65439301 CAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGTTGA
1 CAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAACAGATCGAAGATATAGCTGA
* *
65439366 TTTGGCTTTCATGTGTTTACGATGAAGTAAATCTAAGATGATTCGTCGTCTCTGTATTGTCAGAG
66 TTTGGCTTTCATGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
*
65439431 AACAAATCGAAGTCTGGCATTTCCACTTTGATGGGAGGCAGACACATAGCAGATCTCACCTTCAG
131 AACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCAG
*
65439496 ATTTTTACGCTGAAA
196 ATGTTTACGCTGAAA
*
65439511 CAGATCCAAGATGACAGATCTTATCTCTCTATATTCGGCGGGGAACAGATCGAAGATATAGCTGA
1 CAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAACAGATCGAAGATATAGCTGA
65439576 TTTGGCTTTCATGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
66 TTTGGCTTTCATGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
* *
65439641 AACAAATCGAAGTTTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAAATCTCACCTTCAG
131 AACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCAG
* *
65439706 ATGTTTACGGTGAAG
196 ATGTTTACGCTGAAA
* *
65439721 CAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAACAAATCGAAGAAATAGCTGA
1 CAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAACAGATCGAAGATATAGCTGA
* *
65439786 TTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
66 TTTGGCTTTCATGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
*
65439851 AACAAATCGAAGTTTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCAG
131 AACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCAG
* *
65439916 ATGTTTACGTTGAAC
196 ATGTTTACGCTGAAA
*
65439931 CAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAGCAGATCGAAGATATAGCTGA
1 CAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAACAGATCGAAGATATAGCTGA
*
65439996 TTTGACTTTCATGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
66 TTTGGCTTTCATGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
* * * ** * * * *
65440061 AACAAATCGAAGTCTAGCATCTCTACTTCAATAG-AGAGCATATACATAGCAGATCTGACCTTCA
131 AACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAG-GCAGACACATAGCAGATCTCACCTTCA
* *
65440125 GACGATTA-GACTGAAA
195 GATGTTTACG-CTGAAA
** * * * ** * *
65440141 CAAGATCCAAGATGATTTG-GC--ATC-CT-TGTGCTT--ACAAGGAACAAATCGAAGACATAGC
1 C-AGATCCAAGATGA-CAGATCTTATCTCTCTGT-ATTCGGCGGGGAACAGATCGAAGATATAGC
* * * * * * * * *
65440199 TAATTTAGTTTTCACGAGCTTATGATGAAGCAAATTTAAGATGATTTGTCATCTCTGTATTGTCA
63 TGATTTGGCTTTCATGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCA
*
65440264 AAGAACAAATCGAAG
128 GAGAACAAATCGAAG
65440279 AAGCAGATTT
Statistics
Matches: 703, Mismatches: 60, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
206 88 0.13
207 3 0.00
208 4 0.01
209 6 0.01
210 587 0.83
211 14 0.02
212 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (210 bp):
CAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCGGGGAACAGATCGAAGATATAGCTGA
TTTGGCTTTCATGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAG
AACAAATCGAAGTCTGGCATTTCCACTTTGATGGAAGGCAGACACATAGCAGATCTCACCTTCAG
ATGTTTACGCTGAAA
Found at i:65441990 original size:56 final size:57
Alignment explanation
Indices: 65441930--65442036 Score: 141
Period size: 56 Copynumber: 1.9 Consensus size: 57
65441920 TATATTGTAC
65441930 ATTA-TAAAATTATTTTAC-TATATATATTATTAT-TTATTATATCTTA-TTGTTCACAA
1 ATTATTAAAATTATTTTACAT-TAT-TATT-TTATATTATTATATCTTACTTGTTCACAA
**
65441986 ATTATTATTATTATTTTACATTATTATTTTATATTATTATATCTTACTTGT
1 ATTATTAAAATTATTTTACATTATTATTTTATATTATTATATCTTACTTGT
65442037 ATTATACATC
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
55 4 0.09
56 21 0.47
57 19 0.42
58 1 0.02
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.58
Consensus pattern (57 bp):
ATTATTAAAATTATTTTACATTATTATTTTATATTATTATATCTTACTTGTTCACAA
Found at i:65442010 original size:13 final size:13
Alignment explanation
Indices: 65441992--65442025 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
65441982 ACAAATTATT
65441992 ATTATTATTTTAC
1 ATTATTATTTTAC
*
65442005 ATTATTATTTTAT
1 ATTATTATTTTAC
65442018 ATTATTAT
1 ATTATTAT
65442026 ATCTTACTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (13 bp):
ATTATTATTTTAC
Found at i:65442024 original size:16 final size:17
Alignment explanation
Indices: 65441938--65442025 Score: 51
Period size: 17 Copynumber: 5.3 Consensus size: 17
65441928 ACATTATAAA
*
65441938 ATTATT-TTACTATATAT
1 ATTATTATTATTATAT-T
65441955 ATTATTATTTATTATA-T
1 ATTATTA-TTATTATATT
* * * *
65441972 CTTATTGTTCA-CAAATT
1 ATTATTATT-ATTATATT
* *
65441989 ATTATTATTATTTTA-C
1 ATTATTATTATTATATT
65442005 ATTATTATT-TTATATT
1 ATTATTATTATTATATT
65442021 ATTAT
1 ATTAT
65442026 ATCTTACTTG
Statistics
Matches: 52, Mismatches: 13, Indels: 13
0.67 0.17 0.17
Matches are distributed among these distances:
15 4 0.08
16 19 0.37
17 22 0.42
19 7 0.13
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (17 bp):
ATTATTATTATTATATT
Found at i:65442708 original size:32 final size:29
Alignment explanation
Indices: 65442645--65442701 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
65442635 GTAGTACTCT
*
65442645 TTTTTGTATGTCATGCATTATTTTATTAC
1 TTTTTGTATATCATGCATTATTTTATTAC
*
65442674 TTTTTGTATATCATGCATTATTTAATTA
1 TTTTTGTATATCATGCATTATTTTATTA
65442702 TTACTTTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.58
Consensus pattern (29 bp):
TTTTTGTATATCATGCATTATTTTATTAC
Found at i:65442757 original size:2 final size:2
Alignment explanation
Indices: 65442750--65442776 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
65442740 CAATACATGT
65442750 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
65442777 CTTTGTATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:65444078 original size:18 final size:18
Alignment explanation
Indices: 65444044--65444078 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
65444034 GTCATTTTCA
65444044 TTTTTATTATAATTTTTG
1 TTTTTATTATAATTTTTG
65444062 TTTTTAGTT-TAATTTTT
1 TTTTTA-TTATAATTTTT
65444079 ACTTTCTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (18 bp):
TTTTTATTATAATTTTTG
Found at i:65446560 original size:45 final size:44
Alignment explanation
Indices: 65446479--65446623 Score: 172
Period size: 43 Copynumber: 3.3 Consensus size: 44
65446469 GACCAGGACC
* * *
65446479 TTTAGTGGCGCTTTTAT-AAAAAACGTCGCTATAGACCTATACT
1 TTTAGCGGCGCTTTTGTAAAAAAACGCCGCTATAGACCTATACT
* * *
65446522 TTTAGCGGCACTTTTGTAAAAAAATCGCCGCTATAGACCAAGAAC-
1 TTTAGCGGCGCTTTTGTAAAAAAA-CGCCGCTATAGACCTA-TACT
* *
65446567 TTTAGC-G-GCTCTTGTAAAAAAACGCCGCTATAGACCTGTACT
1 TTTAGCGGCGCTTTTGTAAAAAAACGCCGCTATAGACCTATACT
65446609 TTTAGCGGCGCTTTT
1 TTTAGCGGCGCTTTT
65446624 TTTAAAAACG
Statistics
Matches: 84, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
41 2 0.02
42 20 0.24
43 28 0.33
44 12 0.14
45 20 0.24
46 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
TTTAGCGGCGCTTTTGTAAAAAAACGCCGCTATAGACCTATACT
Found at i:65446599 original size:42 final size:42
Alignment explanation
Indices: 65446459--65446602 Score: 137
Period size: 43 Copynumber: 3.3 Consensus size: 42
65446449 TTTATAACAG
* * * * * * *
65446459 CGCCACTAAAGACCAGGACCTTTAGTGGCGCTTTTATAAAAAA
1 CGCCGCTATAGACCAAGAACTTTAGCGGCTCTTGTA-AAAAAA
* * * *
65446502 CGTCGCTATAGACCTA-TACTTTTAGCGGCACTTTTGTAAAAAAA
1 CGCCGCTATAGACCAAGAAC-TTTAGCGG--CTCTTGTAAAAAAA
65446546 TCGCCGCTATAGACCAAGAACTTTAGCGGCTCTTGTAAAAAAA
1 -CGCCGCTATAGACCAAGAACTTTAGCGGCTCTTGTAAAAAAA
65446589 CGCCGCTATAGACC
1 CGCCGCTATAGACC
65446603 TGTACTTTTA
Statistics
Matches: 81, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
42 15 0.19
43 31 0.38
44 6 0.07
45 27 0.33
46 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (42 bp):
CGCCGCTATAGACCAAGAACTTTAGCGGCTCTTGTAAAAAAA
Found at i:65446600 original size:87 final size:88
Alignment explanation
Indices: 65446459--65446641 Score: 237
Period size: 87 Copynumber: 2.1 Consensus size: 88
65446449 TTTATAACAG
* * * * *
65446459 CGCCACTAAAGACCAGGACCTTTAGTGGCGCTTTTATAAAAAACGTCGCTATAGACCTATACTTT
1 CGCCACTAAAGACCAAGAACTTTAGCGGCGCTTGTATAAAAAACGCCGCTATAGACCTATACTTT
65446524 TAGCGGCACTTTTGTAAAAAAAT
66 TAGCGGCACTTTTGTAAAAAAAT
* * * *
65446547 CGCCGCTATAGACCAAGAACTTTAGCGGCTCTTGTA-AAAAAACGCCGCTATAGACCTGTACTTT
1 CGCCACTAAAGACCAAGAACTTTAGCGGCGCTTGTATAAAAAACGCCGCTATAGACCTATACTTT
* **
65446611 TAGCGGCGCTTTT-TTTAAAAA-
66 TAGCGGCACTTTTGTAAAAAAAT
65446632 CGCCACTAAA
1 CGCCACTAAA
65446642 TGTCATGAAA
Statistics
Matches: 81, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
85 8 0.10
86 6 0.07
87 38 0.47
88 29 0.36
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.27
Consensus pattern (88 bp):
CGCCACTAAAGACCAAGAACTTTAGCGGCGCTTGTATAAAAAACGCCGCTATAGACCTATACTTT
TAGCGGCACTTTTGTAAAAAAAT
Found at i:65446613 original size:42 final size:42
Alignment explanation
Indices: 65446496--65446617 Score: 156
Period size: 42 Copynumber: 2.8 Consensus size: 42
65446486 GCGCTTTTAT
* * *
65446496 AAAAAACGTCGCTATAGACCTATACTTTTAGCGGCACTTTTGTA
1 AAAAAACGCCGCTATAGACCTGTACTTTTAGCGG--CTCTTGTA
* *
65446540 AAAAAATCGCCGCTATAGACCAAGAAC-TTTAGCGGCTCTTGTA
1 AAAAAA-CGCCGCTATAGACC-TGTACTTTTAGCGGCTCTTGTA
65446583 AAAAAACGCCGCTATAGACCTGTACTTTTAGCGGC
1 AAAAAACGCCGCTATAGACCTGTACTTTTAGCGGC
65446618 GCTTTTTTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
41 3 0.04
42 23 0.34
43 13 0.19
44 6 0.09
45 21 0.31
46 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (42 bp):
AAAAAACGCCGCTATAGACCTGTACTTTTAGCGGCTCTTGTA
Found at i:65446950 original size:18 final size:19
Alignment explanation
Indices: 65446913--65446953 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
65446903 ATTTAGAATC
65446913 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAATAATA
* *
65446932 AAAACTAGATTAAAT-ATA
1 AAAACTAAAATAAATAATA
65446950 AAAA
1 AAAA
65446954 TATTAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAACTAAAATAAATAATA
Found at i:65446955 original size:31 final size:32
Alignment explanation
Indices: 65446879--65446952 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 32
65446869 TCAAGTTATC
*
65446879 TTAAATATTAAAATAAA-AATAAAAATTTAGAA
1 TTAAATA-TAAAATAAATAATAAAAATCTAGAA
*
65446911 TCAAA-ACTAAAATAAATAATAAAAA-CTAG-A
1 TTAAATA-TAAAATAAATAATAAAAATCTAGAA
65446941 TTAAATATAAAA
1 TTAAATATAAAA
65446953 ATATTAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.28
31 14 0.39
32 12 0.33
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (32 bp):
TTAAATATAAAATAAATAATAAAAATCTAGAA
Found at i:65456352 original size:14 final size:14
Alignment explanation
Indices: 65456304--65456415 Score: 68
Period size: 14 Copynumber: 7.9 Consensus size: 14
65456294 ACTAATTAAT
*
65456304 CTAAACCTTAAACC
1 CTAAACCCTAAACC
* *
65456318 TCTTAACCCCT-ATCC
1 -C-TAAACCCTAAACC
*
65456333 CATAAACCCTTAACC
1 C-TAAACCCTAAACC
*
65456348 CTAAACCCCAAACC
1 CTAAACCCTAAACC
* *
65456362 CTTAACCCCAAACC
1 CTAAACCCTAAACC
* *
65456376 CTTACACCTTAAACTC
1 C-TAAACCCTAAAC-C
*
65456392 C--AACCCTAACCC
1 CTAAACCCTAAACC
65456404 CTAAACCCTAAA
1 CTAAACCCTAAA
65456416 TCATGATCCC
Statistics
Matches: 74, Mismatches: 17, Indels: 13
0.71 0.16 0.12
Matches are distributed among these distances:
12 2 0.03
13 7 0.09
14 41 0.55
15 16 0.22
16 8 0.11
ACGTcount: A:0.37, C:0.44, G:0.00, T:0.20
Consensus pattern (14 bp):
CTAAACCCTAAACC
Found at i:65456360 original size:21 final size:21
Alignment explanation
Indices: 65456313--65456376 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
65456303 TCTAAACCTT
* * *
65456313 AAACCTCTTAACCCCTATCCCAT
1 AAACC-CTTAACCCCAAACCC-C
*
65456336 AAACCCTTAACCCTAAACCCC
1 AAACCCTTAACCCCAAACCCC
65456357 AAACCCTTAACCCCAAACCC
1 AAACCCTTAACCCCAAACCC
65456377 TTACACCTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
21 19 0.53
22 12 0.33
23 5 0.14
ACGTcount: A:0.36, C:0.47, G:0.00, T:0.17
Consensus pattern (21 bp):
AAACCCTTAACCCCAAACCCC
Found at i:65456789 original size:40 final size:39
Alignment explanation
Indices: 65456706--65456842 Score: 168
Period size: 41 Copynumber: 3.4 Consensus size: 39
65456696 GTTATATGAC
*
65456706 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACTAAAAGCG-CGCTAATGCTCT-GT
* * *
65456747 TTTTAGCAGCGTTTTAATAAAAGCGCGCTAATACTCTAGT
1 TTTTAGCGGCGTTTTACTAAAAGCGCGCTAATGCTCT-GT
*
65456787 TTTTAGCGGCGTTTTTTACTAAAATGC-CGCTATTGCTCTGT
1 TTTTAGCGGCG--TTTTACTAAAA-GCGCGCTAATGCTCTGT
65456828 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
65456843 TGGTAAAACG
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
39 4 0.05
40 23 0.27
41 35 0.42
42 20 0.24
43 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (39 bp):
TTTTAGCGGCGTTTTACTAAAAGCGCGCTAATGCTCTGT
Found at i:65456856 original size:40 final size:40
Alignment explanation
Indices: 65456706--65456872 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
65456696 GTTATATGAC
* *
65456706 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACTAAAA-CGCCGCTAATGCTCTAGT
* * *
65456747 TTTTAGCAGCGTTTTAATAAAA-GCGCGCTAATACTCTAGT
1 TTTTAGCGGCGTTTTACTAAAACGC-CGCTAATGCTCTAGT
* *
65456787 TTTTAGCGGCGTTTTTTACTAAAATGCCGCTATTGCTCT-GT
1 TTTTAGCGGCG--TTTTACTAAAACGCCGCTAATGCTCTAGT
** *
65456828 TTTTAGCGGCGTTTTTGGTAAAACGCCGCTATTGCTCTATGT
1 TTTTAGCGGCG-TTTTACTAAAACGCCGCTAATGCTCTA-GT
65456870 TTT
1 TTT
65456873 ACAATTTTTG
Statistics
Matches: 108, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
39 2 0.02
40 47 0.44
41 32 0.30
42 25 0.23
43 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACTAAAACGCCGCTAATGCTCTAGT
Found at i:65462402 original size:22 final size:22
Alignment explanation
Indices: 65462363--65462404 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
65462353 ATAAGGGGAT
*
65462363 ATCAAATTTATTTCAAAATAAA
1 ATCAAATTTATTTAAAAATAAA
65462385 ATCAAATTT-TATTAAAAATA
1 ATCAAATTTAT-TTAAAAATA
65462405 GTTTTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (22 bp):
ATCAAATTTATTTAAAAATAAA
Found at i:65466949 original size:12 final size:13
Alignment explanation
Indices: 65466911--65467000 Score: 51
Period size: 14 Copynumber: 6.8 Consensus size: 13
65466901 CTATATATAT
*
65466911 TATAT-TTTATTG
1 TATATATTTATTA
*
65466923 TATAAAATTTATTA
1 TAT-ATATTTATTA
65466937 TATATATTT-TTA
1 TATATATTTATTA
* *
65466949 TATATTATCTATCA
1 TATA-TATTTATTA
* *
65466963 TATTATATATATTT
1 TA-TATATTTATTA
* *
65466977 TATATTACTCATTA
1 TATA-TATTTATTA
65466991 TAT-TATTTAT
1 TATATATTTAT
65467001 AATTTTAAAA
Statistics
Matches: 58, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
12 15 0.26
13 12 0.21
14 29 0.50
15 2 0.03
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (13 bp):
TATATATTTATTA
Found at i:65466952 original size:14 final size:15
Alignment explanation
Indices: 65466902--65466981 Score: 60
Period size: 14 Copynumber: 5.3 Consensus size: 15
65466892 ATTATTTTCC
65466902 TATATATATTATATTT
1 TATATATA-TATATTT
* * *
65466918 TAT-TGTATAAAATT
1 TATATATATATATTT
65466932 TAT-TATATATATTT
1 TATATATATATATTT
65466946 T-TATATAT-TATCTAT
1 TATATATATATAT-T-T
*
65466961 CATATTATATATATTT
1 TATA-TATATATATTT
65466977 TATAT
1 TATAT
65466982 TACTCATTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 13
0.70 0.11 0.18
Matches are distributed among these distances:
13 4 0.08
14 23 0.46
15 5 0.10
16 9 0.18
17 6 0.12
18 3 0.06
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.59
Consensus pattern (15 bp):
TATATATATATATTT
Found at i:65466954 original size:19 final size:21
Alignment explanation
Indices: 65466932--65466981 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
65466922 GTATAAAATT
*
65466932 TATTATATAT-AT-TTTTATA
1 TATTATATATCATATTATATA
*
65466951 TATTATCTATCATATTATATA
1 TATTATATATCATATTATATA
*
65466972 TATTTTATAT
1 TATTATATAT
65466982 TACTCATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 9 0.36
20 2 0.08
21 14 0.56
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTATATATCATATTATATA
Found at i:65467114 original size:20 final size:20
Alignment explanation
Indices: 65467073--65467114 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
65467063 TCATTATTAA
* *
65467073 TTATTTTTTATGTGATATTT
1 TTATTTATTATGTAATATTT
65467093 TTATTTATTATGTAATTATTT
1 TTATTTATTATGTAA-TATTT
65467114 T
1 T
65467115 GTAAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (20 bp):
TTATTTATTATGTAATATTT
Found at i:65489993 original size:205 final size:206
Alignment explanation
Indices: 65489626--65490327 Score: 1023
Period size: 205 Copynumber: 3.5 Consensus size: 206
65489616 CAGGGAATAG
* *
65489626 ATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCG
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
* * * * *
65489691 TCTCTGTATTG-CTAGAGAACAAGTTGAAGTCTGGCATTTCCACTTTGATGGA-AGGCAGACACA
66 TCTCTGTATTGTC-AGAGAACAAATCGAAGTCTGGCATCTCCACTTTAATGGAGA-GCAGATACA
* * *
65489754 TGGCAGATCTCACCTTCAGATGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGC
129 TAGCAGATCTGACCTTCAGACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGC
*
65489819 TTATAAGGAACAA
194 TTACAAGGAACAA
* *
65489832 ATCTAAGACATAGTTGATTTGGCTTTCACGTG-TTACGATGAAGCAAATCTAAGATGATTTGTCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
* *
65489896 TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACAAA
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTTAATGGAGAGCAGATACATA
* * *
65489961 GCAAATCTGACCTTCAGACGATTAGACTGAAGCAAGATCCAAGATGATTTGACATCCTTATGCTT
131 GCAGATCTGACCTTCAGACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTT
65490026 ACAAGGAACAA
196 ACAAGGAACAA
* *
65490037 ATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATATAAGATGATTTGTCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
* * *
65490102 TCTC-------T--GAGAACAAATCGAAGTCTGGCATCTCCGCTTTAATAGAGAGTAGATACATA
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTTAATGGAGAGCAGATACATA
* * *
65490158 GTAGATCTGACCTTCAAACGATTAGACTGAAGCAAGATCTAAGATGATTTGGCATCCTTGTGCTT
131 GCAGATCTGACCTTCAGACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTT
65490223 ACAAGGAACAA
196 ACAAGGAACAA
* * *
65490234 ATCGAAGGCATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATGTGTCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
* *
65490299 TCTCTGTATTGTCAAAGAACGAATCGAAG
66 TCTCTGTATTGTCAGAGAACAAATCGAAG
65490328 AAGCAGATTT
Statistics
Matches: 446, Mismatches: 38, Indels: 24
0.88 0.07 0.05
Matches are distributed among these distances:
197 180 0.40
199 1 0.00
204 1 0.00
205 185 0.41
206 79 0.18
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (206 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTTAATGGAGAGCAGATACATA
GCAGATCTGACCTTCAGACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTT
ACAAGGAACAA
Found at i:65490216 original size:197 final size:198
Alignment explanation
Indices: 65489626--65490303 Score: 921
Period size: 197 Copynumber: 3.4 Consensus size: 198
65489616 CAGGGAATAG
*
65489626 ATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCG
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTC-
* * * * * *
65489691 TCTCTGTATTGCTAGAGAACAAGTTGAAGTCTGGCATTTCCACTTTGATGGA-AGGCAGACACAT
65 -ATC-----T-CTAGAGAACAAATCGAAGTCTGGCATCTCCACTTTAATGGAGA-GCAGATACAT
* * *
65489755 GGCAGATCTCACCTTCAGATGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCT
122 AGCAGATCTGACCTTCAGACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCT
*
65489820 TATAAGGAACAA
187 TACAAGGAACAA
* *
65489832 ATCTAAGACATAGTTGATTTGGCTTTCACGTG-TTACGATGAAGCAAATCTAAGATGATTTGTCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
* *
65489896 TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACAAA
66 TCTC-------T-AGAGAACAAATCGAAGTCTGGCATCTCCACTTTAATGGAGAGCAGATACATA
* * *
65489961 GCAAATCTGACCTTCAGACGATTAGACTGAAGCAAGATCCAAGATGATTTGACATCCTTATGCTT
123 GCAGATCTGACCTTCAGACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTT
65490026 ACAAGGAACAA
188 ACAAGGAACAA
* *
65490037 ATCGAAGACATAGTTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATATAAGATGATTTGTCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
* * * *
65490102 TCTCT-GAGAACAAATCGAAGTCTGGCATCTCCGCTTTAATAGAGAGTAGATACATAGTAGATCT
66 TCTCTAGAGAACAAATCGAAGTCTGGCATCTCCACTTTAATGGAGAGCAGATACATAGCAGATCT
* *
65490166 GACCTTCAAACGATTAGACTGAAGCAAGATCTAAGATGATTTGGCATCCTTGTGCTTACAAGGAA
131 GACCTTCAGACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAA
65490231 CAA
196 CAA
* * *
65490234 ATCGAAGGCATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATGTGTCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
65490299 TCTCT
66 TCTCT
65490304 GTATTGTCAA
Statistics
Matches: 426, Mismatches: 36, Indels: 29
0.87 0.07 0.06
Matches are distributed among these distances:
197 182 0.43
198 1 0.00
199 1 0.00
203 2 0.00
204 1 0.00
205 174 0.41
206 65 0.15
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (198 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
TCTCTAGAGAACAAATCGAAGTCTGGCATCTCCACTTTAATGGAGAGCAGATACATAGCAGATCT
GACCTTCAGACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAA
CAA
Found at i:65492165 original size:24 final size:25
Alignment explanation
Indices: 65492138--65492186 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
65492128 TTATTTTCCT
65492138 ACATATATTATAT-TTTATTATATA
1 ACATATATTATATATTTATTATATA
* *
65492162 ACATTTATTATATATTTTTTATATA
1 ACATATATTATATATTTATTATATA
65492187 TTATCTATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (25 bp):
ACATATATTATATATTTATTATATA
Found at i:65492189 original size:32 final size:32
Alignment explanation
Indices: 65492153--65492217 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
65492143 TATTATATTT
*
65492153 TATTATATAACAT-TTATTATATATTTTTTATA
1 TATTATATAACATATTA-TATATATGTTTTATA
* *
65492185 TATTATCTATCATATTATATATATGTTTTATA
1 TATTATATAACATATTATATATATGTTTTATA
65492217 T
1 T
65492218 TACTCATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 26 0.90
33 3 0.10
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (32 bp):
TATTATATAACATATTATATATATGTTTTATA
Found at i:65492199 original size:25 final size:26
Alignment explanation
Indices: 65492146--65492199 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
65492136 CTACATATAT
* *
65492146 TATATTTTATTATATAACATTTATTA
1 TATATTTTATTATATAACATCTATCA
**
65492172 TATATTTT-TTATATATTATCTATCA
1 TATATTTTATTATATAACATCTATCA
65492197 TAT
1 TAT
65492200 TATATATATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (26 bp):
TATATTTTATTATATAACATCTATCA
Found at i:65492218 original size:30 final size:31
Alignment explanation
Indices: 65492167--65492237 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
65492157 ATATAACATT
*
65492167 TATTATATAT-TTTTTATATATTA-TCTATCA
1 TATTATATATATGTTTATATATTACTC-ATCA
*
65492197 TATTATATATATGTTT-TATATTACTCATTA
1 TATTATATATATGTTTATATATTACTCATCA
*
65492227 TATTATTTATA
1 TATTATATATA
65492238 ATTTTAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 30 0.83
31 6 0.17
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.59
Consensus pattern (31 bp):
TATTATATATATGTTTATATATTACTCATCA
Found at i:65492350 original size:20 final size:20
Alignment explanation
Indices: 65492309--65492350 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
65492299 TCATTATTAA
* *
65492309 TTATTTTTTATGTGATATTT
1 TTATTTATTATGTAATATTT
65492329 TTATTTATTATGTAATTATTT
1 TTATTTATTATGTAA-TATTT
65492350 T
1 T
65492351 GTAAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (20 bp):
TTATTTATTATGTAATATTT
Found at i:65495427 original size:3 final size:3
Alignment explanation
Indices: 65495419--65495467 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
65495409 GTATGTCCAT
* *
65495419 TTC TTC TTC TTC TTC TTC TTC TTT TTC TTT TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
65495467 T
1 T
65495468 ACTGCTCAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:65498684 original size:45 final size:43
Alignment explanation
Indices: 65498612--65498866 Score: 172
Period size: 44 Copynumber: 5.6 Consensus size: 43
65498602 TTTAATCTGT
* * * * *
65498612 TCCACTACTACTTCAGGGAAATGAGATTTGTAACTTTTGACTTGA-
1 TCCACTGCAACTTCAGGGAGATAAGATTCGTAAC-TTT-ACTT-AC
* *
65498657 TCCACTGCAACTTCAGGGAGATAAGATTCGTAACTTAAACCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTCGTAACTT-TACTTAC
* * ** *
65498701 TCTACTGCAACTTCAGGGAGATAATG-TTTGTGGCTTTAATCTAC
1 TCCACTGCAACTTCAGGGAGATAA-GATTCGTAACTTTACT-TAC
*
65498745 TCCACTGCAACTTCAGGGAGATAAGATTCGTAATTTGTAGCTTTAATC
1 TCCACTGCAACTTCAGGGAGATAAGATTCGTAACTT-TA-C-TT-A-C
* * * * * *
65498793 TATTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGC
1 ---TCCACTGCAACTTCAGGGAGATAAGATTCG-TAACTTTACT-TAC
*
65498841 TCCACTGCAACTTTAGGGAGATAAGA
1 TCCACTGCAACTTCAGGGAGATAAGA
65498867 ACTATAATTT
Statistics
Matches: 166, Mismatches: 29, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
43 3 0.02
44 67 0.40
45 56 0.34
46 1 0.01
47 2 0.01
48 2 0.01
49 1 0.01
50 1 0.01
51 29 0.17
52 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (43 bp):
TCCACTGCAACTTCAGGGAGATAAGATTCGTAACTTTACTTAC
Found at i:65498720 original size:44 final size:44
Alignment explanation
Indices: 65498657--65499050 Score: 207
Period size: 44 Copynumber: 8.6 Consensus size: 44
65498647 TTTGACTTGA
65498657 TCCACTGCAACTTCAGGGAGATAAGATTCGTAACTTAAACCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTCGTAACTTAAACCTAC
* * ** * *
65498701 TCTACTGCAACTTCAGGGAGATAATG-TTTGTGGCTTTAATCTAC
1 TCCACTGCAACTTCAGGGAGATAA-GATTCGTAACTTAAACCTAC
* * *
65498745 TCCACTGCAACTTCAGGGAGATAAGATTCGTAATTTGTAGCTTTAATCTAT
1 TCCACTGCAACTTCAGGGAGATAAGATTCGT-A-----A-CTTAAACCTAC
* * * * * *
65498796 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTCG-TAACTTAAACCTAC
* * * * * *
65498841 TCCACTGCAACTTTAGGGAGATAAGAACTATAATTTGTAGCTTTAATCTAT
1 TCCACTGCAACTTCAGGGAGATAAG-------ATTCGTAACTTAAACCTAC
* * * * * * ** *
65498892 TCCACTACAACTTCAAGGAAATAAGATTTGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTCG-TAACTTAAACCTAC
* * * *
65498937 TTCACTGCAACTTCAGGGATATAAGACTT-GTAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTCGTAACTTAAACCTAC
* * * * ** * * *
65498981 TCCATTGCAATTTTAGGGAGATAAGATTTGTGGCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTCGTAACTTAAACCTAC
* *
65499025 TCCACTACAACTTTAGGGAGATAAGA
1 TCCACTGCAACTTCAGGGAGATAAGA
65499051 CTTGCCATAA
Statistics
Matches: 280, Mismatches: 50, Indels: 40
0.76 0.14 0.11
Matches are distributed among these distances:
43 3 0.01
44 135 0.48
45 64 0.23
46 2 0.01
51 70 0.25
52 6 0.02
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGATTCGTAACTTAAACCTAC
Found at i:65498803 original size:51 final size:50
Alignment explanation
Indices: 65498697--65498918 Score: 198
Period size: 51 Copynumber: 4.6 Consensus size: 50
65498687 TAACTTAAAC
* * *
65498697 CTACTCTACTGCAACTTCAGGGAGAT-A-AT-G---TTTGTGGCTTTAAT
1 CTACTCCACTGCAACTTCAGGGAAATAAGATCGTAATTTGTAGCTTTAAT
*
65498741 CTACTCCACTGCAACTTCAGGGAGATAAGATTCGTAATTTGTAGCTTTAAT
1 CTACTCCACTGCAACTTCAGGGAAATAAGA-TCGTAATTTGTAGCTTTAAT
* * *
65498792 CTATTCCACTGCAACTTCAGGGAAAT-A-A--G--ATTTGCTATCTTCAAT
1 CTACTCCACTGCAACTTCAGGGAAATAAGATCGTAATTTG-TAGCTTTAAT
* * * * *
65498837 CTGCTCCACTGCAACTTTAGGGAGATAAGAACTATAATTTGTAGCTTTAAT
1 CTACTCCACTGCAACTTCAGGGAAATAAGATC-GTAATTTGTAGCTTTAAT
* * *
65498888 CTATTCCACTACAACTTCAAGGAAATAAGAT
1 CTACTCCACTGCAACTTCAGGGAAATAAGAT
65498919 TTGCTATCTT
Statistics
Matches: 143, Mismatches: 20, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
44 30 0.21
45 31 0.22
46 3 0.02
47 2 0.01
48 1 0.01
49 1 0.01
50 1 0.01
51 69 0.48
52 5 0.03
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (50 bp):
CTACTCCACTGCAACTTCAGGGAAATAAGATCGTAATTTGTAGCTTTAAT
Found at i:65498875 original size:96 final size:93
Alignment explanation
Indices: 65498598--65499053 Score: 396
Period size: 96 Copynumber: 4.9 Consensus size: 93
65498588 TTGTGACTTA
* * * * * ** *
65498598 TAGCTTTAATCTGTTCCACTACTACTTCAGGGAAATGAGATTTGTAACTTTTGA-CTTGATCCAC
1 TAGCTTTAATCTATTCCACTGCAACTTCAGGGAAATAAGATTTGTAGC-TTCAATC-TGCTCCAC
*
65498662 TGCAACTTCAGGGAGATAAG-----ATTCG
64 TGCAACTTCAGGGAGATAAGACTTAATTTG
* * * * * * * * *
65498687 TAACTTAAACCTACTCTACTGCAACTTCAGGGAGATAATG-TTTGTGGCTTTAATCTACTCCACT
1 TAGCTTTAATCTATTCCACTGCAACTTCAGGGAAATAA-GATTTGTAGCTTCAATCTGCTCCACT
*
65498751 GCAACTTCAGGGAGATAAGATTCGTAATTTG
65 GCAACTTCAGGGAGATAAGA--CTTAATTTG
*
65498782 TAGCTTTAATCTATTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGCTCCACT
1 TAGCTTTAATCTATTCCACTGCAACTTCAGGGAAATAAGATTTG-TAGCTTCAATCTGCTCCACT
*
65498847 GCAACTTTAGGGAGATAAGAACTATAATTTG
65 GCAACTTCAGGGAGATAAG-ACT-TAATTTG
* * * * *
65498878 TAGCTTTAATCTATTCCACTACAACTTCAAGGAAATAAGATTTGCTATCTTCAGTCTGCTTCACT
1 TAGCTTTAATCTATTCCACTGCAACTTCAGGGAAATAAGATTTG-TAGCTTCAATCTGCTCCACT
*
65498943 GCAACTTCAGGGATATAAGAC-----TTG
65 GCAACTTCAGGGAGATAAGACTTAATTTG
* * * ** * * * * * *
65498967 TAACTTCAACCTGCTCCATTGCAATTTTAGGGAGATAAGATTTGTGGCTTCAATCTGCTCCACTA
1 TAGCTTTAATCTATTCCACTGCAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTG
*
65499032 CAACTTTAGGGAGATAAGACTT
66 CAACTTCAGGGAGATAAGACTT
65499054 GCCATAATAA
Statistics
Matches: 300, Mismatches: 52, Indels: 29
0.79 0.14 0.08
Matches are distributed among these distances:
88 64 0.21
89 71 0.24
90 1 0.00
94 1 0.00
95 43 0.14
96 119 0.40
97 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (93 bp):
TAGCTTTAATCTATTCCACTGCAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTG
CAACTTCAGGGAGATAAGACTTAATTTG
Found at i:65501143 original size:23 final size:23
Alignment explanation
Indices: 65501113--65501160 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
65501103 CTAGATAGGT
65501113 TTCACATCCTCTTATTTATTTAC
1 TTCACATCCTCTTATTTATTTAC
*
65501136 TTCACATCTTCTTATTTATTTAC
1 TTCACATCCTCTTATTTATTTAC
65501159 TT
1 TT
65501161 TTATCATTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.23, G:0.00, T:0.56
Consensus pattern (23 bp):
TTCACATCCTCTTATTTATTTAC
Found at i:65505025 original size:19 final size:20
Alignment explanation
Indices: 65505001--65505047 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
65504991 TTGTGAAATT
*
65505001 TAATGCATATG-ATGCGATG
1 TAATGCAAATGCATGCGATG
*
65505020 TAATGCAAATGCATGGGATG
1 TAATGCAAATGCATGCGATG
65505040 -AATGCAAA
1 TAATGCAAA
65505048 AAGGGCTTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGCGATG
Found at i:65527427 original size:9 final size:9
Alignment explanation
Indices: 65527424--65527449 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
65527414 AAATAACAAT
65527424 AATAATAAC
1 AATAATAAC
65527433 AATAATAAC
1 AATAATAAC
65527442 AATAATAA
1 AATAATAA
65527450 GAAGAAGAAG
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:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (9 bp):
AATAATAAC
Found at i:65527449 original size:12 final size:12
Alignment explanation
Indices: 65527415--65527440 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
65527405 CGATAATATA
65527415 AATAACAATAAT
1 AATAACAATAAT
65527427 AATAACAATAAT
1 AATAACAATAAT
65527439 AA
1 AA
65527441 CAATAATAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AATAACAATAAT
Found at i:65527551 original size:21 final size:22
Alignment explanation
Indices: 65527509--65527558 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
65527499 GGTAAGAAAC
*
65527509 AAATAAATAATGGAATAAAATAA
1 AAAT-AATAAGGGAATAAAATAA
*
65527532 CAATAATAAGGGAA-AAAATAA
1 AAATAATAAGGGAATAAAATAA
65527553 AAATAA
1 AAATAA
65527559 AAATAAAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 12 0.50
22 9 0.38
23 3 0.12
ACGTcount: A:0.70, C:0.02, G:0.10, T:0.18
Consensus pattern (22 bp):
AAATAATAAGGGAATAAAATAA
Found at i:65527665 original size:12 final size:12
Alignment explanation
Indices: 65527636--65527682 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
65527626 AAAAAATGAA
65527636 ATTAAAT-AAAT
1 ATTAAATAAAAT
*
65527647 AAATAAATAAAAT
1 -ATTAAATAAAAT
**
65527660 ATTAAAGGAAAT
1 ATTAAATAAAAT
65527672 ATTAAATAAAA
1 ATTAAATAAAA
65527683 CATTTTTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
12 24 0.86
13 4 0.14
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (12 bp):
ATTAAATAAAAT
Found at i:65530003 original size:26 final size:26
Alignment explanation
Indices: 65529972--65530024 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
65529962 TTTTGGACAT
*
65529972 ATTCATAATCAAATATGTGATTTTGG
1 ATTCATAACCAAATATGTGATTTTGG
*
65529998 ATTCATAACCATATATGTGATTTTGG
1 ATTCATAACCAAATATGTGATTTTGG
65530024 A
1 A
65530025 CAACTCAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (26 bp):
ATTCATAACCAAATATGTGATTTTGG
Found at i:65530861 original size:97 final size:97
Alignment explanation
Indices: 65530708--65530887 Score: 213
Period size: 97 Copynumber: 1.9 Consensus size: 97
65530698 GACATTCGTA
* ** **
65530708 AAACACGTGTAATATTAAGAACAACATCAGAATAAATGAAGATAATGGTTTGTATTT-AAACTC-
1 AAACACGTGTAATATTAAGAACAACATCAGAATAAATGAAGACAATAATTCATATTTGAAACTCG
65530771 TAAAAATCAAATCAATTATATCATCGATCTTCAC
66 T--AAATCAAATCAATTATATCATCGATCTTCAC
* * * * *
65530805 AAACACGTGTATTATTGAGAACTACAT-ATGAATAAATGATGACAATAATTCATATTTGAATCTC
1 AAACACGTGTAATATTAAGAACAACATCA-GAATAAATGAAGACAATAATTCATATTTGAAACTC
*
65530869 GTAAATTAAATCAATTATA
65 GTAAATCAAATCAATTATA
65530888 ATACTTAAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
96 1 0.01
97 62 0.90
98 5 0.07
99 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.32
Consensus pattern (97 bp):
AAACACGTGTAATATTAAGAACAACATCAGAATAAATGAAGACAATAATTCATATTTGAAACTCG
TAAATCAAATCAATTATATCATCGATCTTCAC
Found at i:65534010 original size:21 final size:22
Alignment explanation
Indices: 65533981--65534027 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
65533971 CAGAAGGAGT
*
65533981 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
65534003 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
65534024 GAGT
1 GAGT
65534028 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:65538145 original size:10 final size:10
Alignment explanation
Indices: 65538129--65538167 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
65538119 AATTTTAGCT
65538129 TTTATCTTTA
1 TTTATCTTTA
*
65538139 ATTATCTTTA
1 TTTATCTTTA
65538149 TTTAT-TTGTA
1 TTTATCTT-TA
65538159 TTTATCTTT
1 TTTATCTTT
65538168 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:65543332 original size:5 final size:5
Alignment explanation
Indices: 65543322--65543410 Score: 78
Period size: 5 Copynumber: 17.6 Consensus size: 5
65543312 CCAACCCTAT
65543322 TTTTA TTTTA TTTT- TTTCT- TTCTTA TTTTTA TTTTTA TTTTA TTTT-
1 TTTTA TTTTA TTTTA TTT-TA TT-TTA -TTTTA -TTTTA TTTTA TTTTA
* * *
65543368 TTTTA CTTTA TTTTA TTTTA TTATT- TATTA CTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA TTT
65543411 GGATATTAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
4 9 0.13
5 48 0.68
6 12 0.17
7 2 0.03
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:65543393 original size:32 final size:32
Alignment explanation
Indices: 65543319--65543386 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
65543309 GAGCCAACCC
*
65543319 TATTTTTATTTTATTTTTTTCTTTCTTATTTT
1 TATTTTTATTTTATTTTTTTCTCTCTTATTTT
65543351 TATTTTTATTTTATTTTTTT-TACT-TTA-TTT
1 TATTTTTATTTTATTTTTTTCT-CTCTTATTTT
65543381 TATTTT
1 TATTTT
65543387 ATTATTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
30 9 0.26
31 4 0.12
32 21 0.62
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (32 bp):
TATTTTTATTTTATTTTTTTCTCTCTTATTTT
Found at i:65543593 original size:54 final size:55
Alignment explanation
Indices: 65543530--65543639 Score: 195
Period size: 54 Copynumber: 2.0 Consensus size: 55
65543520 GATAGCGCGT
* *
65543530 CCCTACTTTATACGAACCAAAACCTACAT-CAAAAAACCCCATCCTTCAGCCAAA
1 CCCTACTTTATACAAACCAAAACCTACATAAAAAAAACCCCATCCTTCAGCCAAA
65543584 CCCTACTTTATACAAACCAAAACCTACATAAAAAAAACCCCATCCTTCAGCCAAA
1 CCCTACTTTATACAAACCAAAACCTACATAAAAAAAACCCCATCCTTCAGCCAAA
65543639 C
1 C
65543640 ACTCTACCTA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
54 28 0.53
55 25 0.47
ACGTcount: A:0.43, C:0.36, G:0.03, T:0.18
Consensus pattern (55 bp):
CCCTACTTTATACAAACCAAAACCTACATAAAAAAAACCCCATCCTTCAGCCAAA
Found at i:65543662 original size:55 final size:54
Alignment explanation
Indices: 65543530--65543653 Score: 178
Period size: 54 Copynumber: 2.3 Consensus size: 54
65543520 GATAGCGCGT
* * *
65543530 CCCTACTTTATACGAACCAAAACCTACATCAAAAAACCCCATCCTTCAGCCAAA
1 CCCTACTCTATACAAACCAAAACCTACATAAAAAAACCCCATCCTTCAGCCAAA
*
65543584 CCCTACTTTATACAAACCAAAACCTACATAAAAAAAACCCCATCCTTCAGCCAAA
1 CCCTACTCTATACAAACCAAAACCTACAT-AAAAAAACCCCATCCTTCAGCCAAA
65543639 CACTCTAC-CTATACA
1 C-C-CTACTCTATACA
65543654 CCCCAAACCC
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
54 28 0.44
55 25 0.39
56 7 0.11
57 4 0.06
ACGTcount: A:0.42, C:0.36, G:0.02, T:0.19
Consensus pattern (54 bp):
CCCTACTCTATACAAACCAAAACCTACATAAAAAAACCCCATCCTTCAGCCAAA
Found at i:65545360 original size:13 final size:13
Alignment explanation
Indices: 65545342--65545366 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65545332 CAATTATCTT
65545342 AGGATTATTATTA
1 AGGATTATTATTA
65545355 AGGATTATTATT
1 AGGATTATTATT
65545367 TAGATTTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
AGGATTATTATTA
Found at i:65545400 original size:10 final size:10
Alignment explanation
Indices: 65545384--65545422 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
65545374 AATTTTAGCT
65545384 TTTATCTTTA
1 TTTATCTTTA
*
65545394 ATTATCTTTA
1 TTTATCTTTA
65545404 TTTAT-TTGTA
1 TTTATCTT-TA
65545414 TTTATCTTT
1 TTTATCTTT
65545423 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:65550594 original size:22 final size:23
Alignment explanation
Indices: 65550528--65550630 Score: 57
Period size: 25 Copynumber: 4.2 Consensus size: 23
65550518 AAAAATAGAT
*
65550528 AATACATATAAA-AATTTGAAATTGA
1 AATACATA-AAACAATTT-AAAGT-A
* * *
65550553 TAATATATAAAAAAAATTAAAGTA
1 -AATACATAAAACAATTTAAAGTA
*
65550577 AATA-ATAAAACAATTTAAAATGAA
1 AATACATAAAACAATTT-AAA-GTA
*
65550601 TAATACATAAAAACAAGTTTAAAATA
1 -AATACAT-AAAACAA-TTTAAAGTA
65550627 AATA
1 AATA
65550631 ATGTATAAAG
Statistics
Matches: 62, Mismatches: 8, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
22 10 0.16
23 7 0.11
24 3 0.05
25 15 0.24
26 14 0.23
27 10 0.16
28 3 0.05
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (23 bp):
AATACATAAAACAATTTAAAGTA
Found at i:65550979 original size:14 final size:14
Alignment explanation
Indices: 65550962--65551000 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
65550952 ATTCATATAT
65550962 ATATAATATAAAGA
1 ATATAATATAAAGA
* *
65550976 ATATAAAATAAATA
1 ATATAATATAAAGA
65550990 ATAT-ATATAAA
1 ATATAATATAAA
65551001 ATAGATTAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
ATATAATATAAAGA
Found at i:65551130 original size:23 final size:25
Alignment explanation
Indices: 65551098--65551144 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
65551088 GATGTAAAAT
*
65551098 AAATAACATA-AAA-AAAATGTTTG
1 AAATAACATATAAATAAAACGTTTG
*
65551121 AAATAGCATATAAATAAAACGTTT
1 AAATAACATATAAATAAAACGTTT
65551145 TTTTTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 3 0.15
25 8 0.40
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.28
Consensus pattern (25 bp):
AAATAACATATAAATAAAACGTTTG
Found at i:65553057 original size:47 final size:47
Alignment explanation
Indices: 65552988--65553082 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
65552978 TCGAGTAGCA
65552988 TTACGTGCAGGAGGGTGCATCTTTTTGCTGTACGTGCGTGGGAAGGG
1 TTACGTGCAGGAGGGTGCATCTTTTTGCTGTACGTGCGTGGGAAGGG
65553035 TTACGTGCAGGAGGGTGCATCTTTTTGCTGTACGTGCGTGGGAAGGG
1 TTACGTGCAGGAGGGTGCATCTTTTTGCTGTACGTGCGTGGGAAGGG
65553082 T
1 T
65553083 CGTACGGGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.15, C:0.15, G:0.40, T:0.31
Consensus pattern (47 bp):
TTACGTGCAGGAGGGTGCATCTTTTTGCTGTACGTGCGTGGGAAGGG
Found at i:65555487 original size:3 final size:3
Alignment explanation
Indices: 65555479--65555509 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
65555469 ATACTTTCTT
65555479 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
65555510 AGAGTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:65555675 original size:20 final size:21
Alignment explanation
Indices: 65555643--65555682 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
65555633 GAAACATTAC
65555643 TTTATTGTTTTACAGTTCATA
1 TTTATTGTTTTACAGTTCATA
*
65555664 TTTATT-TTTTACATTTCAT
1 TTTATTGTTTTACAGTTCAT
65555683 GTAGCATCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.23, C:0.10, G:0.05, T:0.62
Consensus pattern (21 bp):
TTTATTGTTTTACAGTTCATA
Found at i:65559194 original size:125 final size:127
Alignment explanation
Indices: 65559006--65559267 Score: 332
Period size: 125 Copynumber: 2.1 Consensus size: 127
65558996 GAGTATGAGC
* *
65559006 TTGCCTTCTATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGATATTCGGATATTTAGAT
1 TTGCCTT-TATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGATATTCAGATACTTAGAT
* * * *
65559071 CAAACGAATAATCAAAACCCAGTACATTAGGGCACAACTACTCGAATTTCTAAATACGGAATA
65 CAAACGAAAAACCAAAACCCAGTACATTAGGACACAACTACTCGAATTTCCAAATACGGAATA
* * *
65559134 TTGCCTTTATTTTATTTAAAACTCATGTATTTTAA-TTT-AAAAGGATAATT-AGTTACTTAGAT
1 TTGCCTTTATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGAT-ATTCAGATACTTAGAT
* * * * * * * *
65559196 CAAATGAAAAACCGAAACCCAGTACGTTAGGACACGATTTCTCGAATTTCCAAGTACTGAATA
65 CAAACGAAAAACCAAAACCCAGTACATTAGGACACAACTACTCGAATTTCCAAATACGGAATA
65559259 TTGCCTTTA
1 TTGCCTTTA
65559268 CTTGAAAAAT
Statistics
Matches: 116, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
125 77 0.66
126 6 0.05
127 26 0.22
128 7 0.06
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (127 bp):
TTGCCTTTATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGATATTCAGATACTTAGATC
AAACGAAAAACCAAAACCCAGTACATTAGGACACAACTACTCGAATTTCCAAATACGGAATA
Found at i:65559305 original size:15 final size:16
Alignment explanation
Indices: 65559285--65559319 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
65559275 AATCCCGACA
*
65559285 AAAATAATAT-TAGAT
1 AAAATAATATAGAGAT
65559300 AAAATAATATAGAGAT
1 AAAATAATATAGAGAT
65559316 AAAA
1 AAAA
65559320 AAATGGAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (16 bp):
AAAATAATATAGAGAT
Found at i:65559462 original size:25 final size:23
Alignment explanation
Indices: 65559432--65559484 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 23
65559422 GACGGATAAT
65559432 AAAAATAATAGTAATAATAGTTTTA
1 AAAAATAATAGTAATAATA--TTTA
*
65559457 AAAAATAATGGTAATAATATTTA
1 AAAAATAATAGTAATAATATTTA
65559480 AAAAA
1 AAAAA
65559485 GTAAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 9 0.33
25 18 0.67
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (23 bp):
AAAAATAATAGTAATAATATTTA
Found at i:65559596 original size:15 final size:14
Alignment explanation
Indices: 65559578--65559629 Score: 54
Period size: 15 Copynumber: 3.7 Consensus size: 14
65559568 ATAACGGAAG
65559578 TAATGAAAATAATAA
1 TAAT-AAAATAATAA
* *
65559593 TAATAGAAACAATAG
1 TAATA-AAATAATAA
65559608 TAAT-AAA-AATAA
1 TAATAAAATAATAA
65559620 TAATAAAATA
1 TAATAAAATA
65559630 GAAAATAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
12 8 0.26
13 6 0.19
14 2 0.06
15 15 0.48
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (14 bp):
TAATAAAATAATAA
Found at i:65559610 original size:30 final size:28
Alignment explanation
Indices: 65559576--65559659 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 28
65559566 TAATAACGGA
65559576 AGTAATGAAAATAATAATAATAGAAACAAT
1 AGTAATGAAAATAATAATAATAG-AA-AAT
*
65559606 AGTAATAAAAATAATAATAAAATAGAAAAT
1 AGTAATGAAAATAATAAT--AATAGAAAAT
**
65559636 AACAATGAAACATTAATAATAATA
1 AGTAATGAAA-A-TAATAATAATA
65559660 TACGTGCTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
30 31 0.67
31 3 0.07
32 12 0.26
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.24
Consensus pattern (28 bp):
AGTAATGAAAATAATAATAATAGAAAAT
Found at i:65559636 original size:15 final size:17
Alignment explanation
Indices: 65559585--65559637 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 17
65559575 AAGTAATGAA
65559585 AATAATAATAATAGAAAC
1 AATAATAATAATAG-AAC
* *
65559603 AATAGTAATAA-A-AAT
1 AATAATAATAATAGAAC
65559618 AATAATAA-AATAGAA-
1 AATAATAATAATAGAAC
65559633 AATAA
1 AATAA
65559638 CAATGAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
14 2 0.07
15 15 0.50
16 2 0.07
17 1 0.03
18 10 0.33
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.23
Consensus pattern (17 bp):
AATAATAATAATAGAAC
Found at i:65559822 original size:15 final size:18
Alignment explanation
Indices: 65559804--65559841 Score: 55
Period size: 15 Copynumber: 2.3 Consensus size: 18
65559794 AAAAAAACAG
65559804 TAATAGTA-TA-TAG-AA
1 TAATAGTAGTAGTAGTAA
65559819 TAATAGTAGTAGTAGTAA
1 TAATAGTAGTAGTAGTAA
65559837 TAATA
1 TAATA
65559842 ATAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.40
16 2 0.10
17 3 0.15
18 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (18 bp):
TAATAGTAGTAGTAGTAA
Found at i:65560052 original size:18 final size:18
Alignment explanation
Indices: 65560031--65560065 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
65560021 TGTAAAAAAA
65560031 GAAAAACAAAATAAAATT
1 GAAAAACAAAATAAAATT
* *
65560049 GAAAGATAAAATAAAAT
1 GAAAAACAAAATAAAAT
65560066 AAACAAGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.03, G:0.09, T:0.17
Consensus pattern (18 bp):
GAAAAACAAAATAAAATT
Found at i:65560334 original size:12 final size:12
Alignment explanation
Indices: 65560317--65560342 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
65560307 TTGAGTTAAC
65560317 GGTTGGTTTAGT
1 GGTTGGTTTAGT
65560329 GGTTGGTTTAGT
1 GGTTGGTTTAGT
65560341 GG
1 GG
65560343 GGTGTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.46, T:0.46
Consensus pattern (12 bp):
GGTTGGTTTAGT
Found at i:65560693 original size:41 final size:41
Alignment explanation
Indices: 65560636--65560933 Score: 211
Period size: 41 Copynumber: 6.8 Consensus size: 41
65560626 TGTCGCCTTA
* *
65560636 ATCTGCTCCACTGCAACTTCAGAGAGATAGGATTTGTTTTG
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTTTTG
* *
65560677 ATCTGCTCTACTGCAACTTCAGATAAATAAGATTTGTTTTG
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTTTTG
* * * *
65560718 ATTTGCTCTACTGGAACTTCAGAGAGATAAGATCTGATATTGTA
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTG-T-TT-TG
* * * *
65560762 ACTTCAATCCATCCCACTGCAACTTCAG-GAAAATAAGATTTGTTTTT
1 A--TC--TGC-T-CTACTGCAACTTCAGAG-AGATAAGATTTGTTTTG
* *
65560809 ATCTGCTCTACTGCAACTTTAGAGAGATAAGATATGTAATTTATAG
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGAT-T-T-GTTT-T-G
* * * * * * * *
65560855 CTTCAATTTGTTCCACTACACCTTCAGGGAAATAAGATTTGTTTTT
1 -----ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTTTTG
65560901 ATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
65560934 CTATAATTTC
Statistics
Matches: 196, Mismatches: 40, Indels: 42
0.71 0.14 0.15
Matches are distributed among these distances:
41 115 0.59
42 4 0.02
43 5 0.03
44 5 0.03
45 3 0.02
46 1 0.01
47 3 0.02
48 7 0.04
49 4 0.02
50 24 0.12
51 25 0.13
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (41 bp):
ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTTTTG
Found at i:65560898 original size:92 final size:92
Alignment explanation
Indices: 65560677--65560988 Score: 396
Period size: 92 Copynumber: 3.4 Consensus size: 92
65560667 ATTTGTTTTG
* * ** * * *
65560677 ATCTGCTCTACTGCAACTTCAGATAAATAAGATTTGTTTTGATTTGCTCTACTGGAACTTCAGAG
1 ATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTTTTTATCTGCTCTACTGCAACTTCAGAG
65560742 AGATAAGATCTG-ATATTGTA-A-CTTCA
66 AGATAAGATCTGTA-ATT-TATAGCTTCA
** * * *
65560768 ATCCATCCCACTGCAACTTCAGGAAAATAAGATTTGTTTTTATCTGCTCTACTGCAACTTTAGAG
1 ATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTTTTTATCTGCTCTACTGCAACTTCAGAG
*
65560833 AGATAAGATATGTAATTTATAGCTTCA
66 AGATAAGATCTGTAATTTATAGCTTCA
* * *
65560860 ATTTGTTCCACTACACCTTCAGGGAAATAAGATTTGTTTTTATCTGCTCTACTGCAACTTCAGAG
1 ATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTTTTTATCTGCTCTACTGCAACTTCAGAG
* *
65560925 AGATAAGATCTATAATTTCTAGCTTCA
66 AGATAAGATCTGTAATTTATAGCTTCA
* * *
65560952 AGCTGTTCCACTGCAACTTTAGGGAAATAAGACTTGT
1 ATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGT
65560989 GGATTCACCG
Statistics
Matches: 189, Mismatches: 29, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
90 2 0.01
91 69 0.37
92 118 0.62
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (92 bp):
ATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGTTTTTATCTGCTCTACTGCAACTTCAGAG
AGATAAGATCTGTAATTTATAGCTTCA
Found at i:65562547 original size:21 final size:22
Alignment explanation
Indices: 65562509--65562562 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
65562499 CCAATTTTAC
*
65562509 ATAAAGATATA-CCTATATATA
1 ATAAAGATATATACTATATATA
* *
65562530 TTAAAGATATATAC-ATATGTA
1 ATAAAGATATATACTATATATA
65562551 ATAAA-ATATATA
1 ATAAAGATATATA
65562563 AATAACATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 7 0.25
21 20 0.71
22 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.35
Consensus pattern (22 bp):
ATAAAGATATATACTATATATA
Found at i:65562776 original size:21 final size:19
Alignment explanation
Indices: 65562746--65562789 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
65562736 AGAAATACTT
*
65562746 AATATATA-ATAAT-TTAA
1 AATATATACATAATATAAA
65562763 AATATATACATAATATAAA
1 AATATATACATAATATAAA
65562782 AATATATA
1 AATATATA
65562790 TAGAACGTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 5 0.21
19 11 0.46
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
AATATATACATAATATAAA
Found at i:65562840 original size:31 final size:31
Alignment explanation
Indices: 65562805--65562869 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
65562795 CGTAGTATTA
65562805 AAATATAAACCCAATATATACATGGAATAGT
1 AAATATAAACCCAATATATACATGGAATAGT
65562836 AAATATAAACCCAATATATACATGGAATAGT
1 AAATATAAACCCAATATATACATGGAATAGT
65562867 AAA
1 AAA
65562870 GAAATATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.54, C:0.12, G:0.09, T:0.25
Consensus pattern (31 bp):
AAATATAAACCCAATATATACATGGAATAGT
Found at i:65563059 original size:21 final size:21
Alignment explanation
Indices: 65563017--65563059 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
65563007 ATATATACTA
*
65563017 AAAATATACATAATAATATAT
1 AAAATATACATAATAAAATAT
*
65563038 AAAATATA-ATATTAAAAGTAT
1 AAAATATACATAATAAAA-TAT
65563059 A
1 A
65563060 TATAACGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAATATACATAATAAAATAT
Found at i:65563843 original size:25 final size:26
Alignment explanation
Indices: 65563814--65563862 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
65563804 TGGGGTATTT
65563814 GGGTT-TTGTAATGGGTTT-TGGGTAA
1 GGGTTATTGT-ATGGGTTTGTGGGTAA
*
65563839 GGGTTATTGTTTGGGTTTGTGGGT
1 GGGTTATTGTATGGGTTTGTGGGT
65563863 TAGTGGGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.10, C:0.00, G:0.43, T:0.47
Consensus pattern (26 bp):
GGGTTATTGTATGGGTTTGTGGGTAA
Found at i:65563877 original size:16 final size:18
Alignment explanation
Indices: 65563851--65563884 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
65563841 GTTATTGTTT
65563851 GGGTTTGTGGG-TTAGTG
1 GGGTTTGTGGGTTTAGTG
65563868 GGGTTT-TGGGTTTAGTG
1 GGGTTTGTGGGTTTAGTG
65563885 TAATGTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.06, C:0.00, G:0.50, T:0.44
Consensus pattern (18 bp):
GGGTTTGTGGGTTTAGTG
Found at i:65564202 original size:44 final size:44
Alignment explanation
Indices: 65564154--65564262 Score: 164
Period size: 44 Copynumber: 2.5 Consensus size: 44
65564144 TGGCTTCGAT
* *
65564154 CTGCTTCACTGTAACTTTAGAAAGACAAGACTTGCAACTTTGAC
1 CTGCTTCACTGCAACTTTAGAAAGACAAAACTTGCAACTTTGAC
* **
65564198 CTGCTTCACTGCAACTTCAGGGAGACAAAACTTGCAACTTTGAC
1 CTGCTTCACTGCAACTTTAGAAAGACAAAACTTGCAACTTTGAC
*
65564242 CTGCTTCGCTGCAACTTTAGA
1 CTGCTTCACTGCAACTTTAGA
65564263 GAGGCCAAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (44 bp):
CTGCTTCACTGCAACTTTAGAAAGACAAAACTTGCAACTTTGAC
Found at i:65564523 original size:80 final size:77
Alignment explanation
Indices: 65564419--65564594 Score: 196
Period size: 77 Copynumber: 2.2 Consensus size: 77
65564409 GCCAAAACTT
65564419 AACTCACCTCTCGCAATATAAGTT-A-GTTTT-GAAACTTAAAAAAAGATTTTAAAAATACCTCG
1 AACTCACCTCTCGCAATATAAGTTAACGTTTTCGAAA---AAAAAAA-A--TTAAAAATACCTCG
65564481 ACATGTGACCCGCGGCTC
60 ACATGTGACCCGCGGCTC
* * * * * * *
65564499 AACTCACTTCTCGTAATATGAGTTAACTTTTTCGAAAAATATAAATTGAAAATACCTCGACATGT
1 AACTCACCTCTCGCAATATAAGTTAACGTTTTCGAAAAAAAAAAATTAAAAATACCTCGACATGT
65564564 GACCCGCGGCTC
66 GACCCGCGGCTC
* *
65564576 AAATCACCTCTAGCAATAT
1 AACTCACCTCTCGCAATAT
65564595 GCATTGATTT
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
77 46 0.56
79 1 0.01
80 26 0.32
81 1 0.01
82 4 0.05
83 4 0.05
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (77 bp):
AACTCACCTCTCGCAATATAAGTTAACGTTTTCGAAAAAAAAAAATTAAAAATACCTCGACATGT
GACCCGCGGCTC
Found at i:65564563 original size:77 final size:75
Alignment explanation
Indices: 65564470--65564699 Score: 272
Period size: 77 Copynumber: 3.1 Consensus size: 75
65564460 AAAGATTTTA
* *
65564470 AAAATACCTCGACATGTGACCCGCGGCTCAACTCACTTCTCGTAATATGAGTTAACTTTTTCGAA
1 AAAATACCTCGACATGTGACCCGCGGCTCAACTCACCTCTCGCAATATGAGTTAA-TTTTT-GAA
*
65564535 AAATATAAATTG
64 AAACATAAATTG
* * *
65564547 AAAATACCTCGACATGTGACCCGCGGCTCAAATCACCTCTAGCAATATGCA-TTGATTTTTGAAA
1 AAAATACCTCGACATGTGACCCGCGGCTCAACTCACCTCTCGCAATATG-AGTTAATTTTTGAAA
65564611 AACATAAATTG
65 AACATAAATTG
* * * *
65564622 AAAATACCTC-AGCA--TG-CCCTGAGGCTCAACTCACGTCTCGCAATATGAGTTGATTTTTGAC
1 AAAATACCTCGA-CATGTGACCC-GCGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAA
*
65564683 AAACAGAAATTTG
64 AAACATAAA-TTG
65564696 AAAA
1 AAAA
65564700 ACAGAAACTG
Statistics
Matches: 136, Mismatches: 12, Indels: 13
0.84 0.07 0.08
Matches are distributed among these distances:
72 4 0.03
73 44 0.32
74 8 0.06
75 26 0.19
76 5 0.04
77 48 0.35
78 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.27
Consensus pattern (75 bp):
AAAATACCTCGACATGTGACCCGCGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAA
ACATAAATTG
Found at i:65564701 original size:15 final size:15
Alignment explanation
Indices: 65564677--65564706 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
65564667 TGAGTTGATT
*
65564677 TTTGACAAACAGAAA
1 TTTGAAAAACAGAAA
65564692 TTTGAAAAACAGAAA
1 TTTGAAAAACAGAAA
65564707 CTGAAAATAC
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:0.57, C:0.10, G:0.13, T:0.20
Consensus pattern (15 bp):
TTTGAAAAACAGAAA
Found at i:65564761 original size:90 final size:88
Alignment explanation
Indices: 65564604--65564769 Score: 262
Period size: 90 Copynumber: 1.9 Consensus size: 88
65564594 TGCATTGATT
* * *
65564604 TTTGAAAAACATAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACGTCTCGCAATATG
1 TTTGAAAAACAGAAACTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATG
65564669 AGTTGATTTTTGACAAACAGAAA
66 AGTTGATTTTTGACAAACAGAAA
*
65564692 TTTGAAAAACAGAAACTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAACTGAAAATACCTCAGCA--TG-CCCTGAGGCTCAACTCACCTCTCGCAAT
65564756 ATGAGTTGATTTTT
63 ATGAGTTGATTTTT
65564770 TTTGAAAAGC
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
88 30 0.42
90 39 0.55
91 2 0.03
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (88 bp):
TTTGAAAAACAGAAACTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTGACAAACAGAAA
Found at i:65564832 original size:76 final size:77
Alignment explanation
Indices: 65564692--65564845 Score: 247
Period size: 76 Copynumber: 2.0 Consensus size: 77
65564682 CAAACAGAAA
*
65564692 TTTGAAAAACAGAAACTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATA
1 TTTGAAAAACAGAAACTGAAAATACCTCAG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
65564757 TGAGTTGATTTTT
65 TGAGTTGATTTTT
* * * *
65564770 TTTGAAAAGCAGAAATTGAAAATTCCTCAG-TGTGCCCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTTGAAAAACAGAAACTGAAAATACCTCAGATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
65564834 GAGTTGATTTTT
66 GAGTTGATTTTT
65564846 GAAAAACATA
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
76 44 0.62
78 27 0.38
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (77 bp):
TTTGAAAAACAGAAACTGAAAATACCTCAGATGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTT
Found at i:65564838 original size:166 final size:160
Alignment explanation
Indices: 65564545--65565029 Score: 612
Period size: 166 Copynumber: 2.9 Consensus size: 160
65564535 AAATATAAAT
* * * *
65564545 TGAAAATACCTC-GACATGTGACCCGCGGCTCAAATCACCTCTAGCAATATGCATTGATTTTTGA
1 TGAAAATACCTCAG-CATGTGAACCGAGGCTCAACTCACCTCTCGCAATATG-ATTGATTTTTGA
* * * *
65564609 AAAACATAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACGTCTCGCAATATGAGTTG
64 AAAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
65564674 ATTTTTGACAAACAGAAATTTGAAAAACAGAAAC
129 ATTTTTGA-AAACAGAAA-TTGAAAAAAAGAAAC
*
65564708 TGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT
1 TGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGA-TTGA---TTTTT
* * *
65564773 GAAAAGCAGAAATTGAAAATTCCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
62 GAAAAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
65564838 TGATTTTTGAAAAACATAAATTGAAAAAAAAAAAGAAAT
127 TGATTTTTG-AAAACAGAAATTG----AAAAAAAGAAAC
* * * *
65564877 TGAAAATACCTCAGTACGTGAACCCAGGTTCAACTCACCTCTCGCAATATGAATTGATTTTTGAA
1 TGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATG-ATTGATTTTTGAA
* * * *
65564942 AAATAGCATTTGAAAATACCTCAGCGTGCCCCGAGGCCCAACTCACCTCTCGCAATATGAGTTGA
65 AAACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
65565007 TTTTTGAAACATAGAAATTGAAA
130 TTTTTGAAA-ACAGAAATTGAAA
65565030 TTACCTCAGC
Statistics
Matches: 282, Mismatches: 28, Indels: 25
0.84 0.08 0.07
Matches are distributed among these distances:
162 4 0.01
163 49 0.17
164 1 0.00
165 6 0.02
166 160 0.57
167 1 0.00
169 60 0.21
170 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.26
Consensus pattern (160 bp):
TGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATGATTGATTTTTGAAA
AACAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGAAAACAGAAATTGAAAAAAAGAAAC
Found at i:65564994 original size:73 final size:73
Alignment explanation
Indices: 65564865--65565102 Score: 309
Period size: 73 Copynumber: 3.2 Consensus size: 73
65564855 AAATTGAAAA
* *
65564865 AAAAAAAGAAATTGAAAATACCTCAGTACGTGAACCC-AGGTTCAACTCACCTCTCGCAATATGA
1 AAAAATAGAAATTGAAAATACCTCAG--CGTG-ACCCGAGGCTCAACTCACCTCTCGCAATATGA
*
65564929 ATTGATTTTTG
63 GTTGATTTTTG
* * * *
65564940 AAAAATAGCATTTGAAAATACCTCAGCGTGCCCCGAGGCCCAACTCACCTCTCGCAATATGAGTT
1 AAAAATAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
65565005 GATTTTTG
66 GATTTTTG
* * ** *
65565013 AAACATAGAAATTGAAATTACCTCAGCGT-TTCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAATAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
65565077 GATTTTTG
66 GATTTTTG
**
65565085 AAAAGCAGAAATTGAAAA
1 AAAAATAGAAATTGAAAA
65565103 ACAGAAATTG
Statistics
Matches: 143, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
72 56 0.39
73 64 0.45
75 23 0.16
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (73 bp):
AAAAATAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTG
Found at i:65565101 original size:14 final size:14
Alignment explanation
Indices: 65565082--65565115 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
65565072 GAGTTGATTT
*
65565082 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
65565096 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
65565110 TTGAAA
1 TTGAAA
65565116 TTACCTCAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.59, C:0.06, G:0.18, T:0.18
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:65565200 original size:86 final size:86
Alignment explanation
Indices: 65565010--65565196 Score: 297
Period size: 87 Copynumber: 2.2 Consensus size: 86
65565000 GAGTTGATTT
* * *
65565010 TTGAAACATAGAAATTGAAATTACCTCAGCGTTTCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAAACAGAAATTGAAATTACCTCAGCGTTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
65565075 TTGATTTTTGAAAAGCAGAAA
66 TTGATTTTGGAAAAGCAGAAA
65565096 TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAATTACCTCAGCGT-TCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
65565161 GTTGATTTTGGAAAAGTAGGAA
65 GTTGATTTTGGAAAAGCAGAAA
65565183 TT-AAAAACA-AAATT
1 TTGAAAAACAGAAATT
65565197 TGAACAATAG
Statistics
Matches: 94, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
85 5 0.05
86 37 0.39
87 52 0.55
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (86 bp):
TTGAAAAACAGAAATTGAAATTACCTCAGCGTTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTGGAAAAGCAGAAA
Found at i:65568411 original size:72 final size:72
Alignment explanation
Indices: 65568186--65568437 Score: 414
Period size: 72 Copynumber: 3.4 Consensus size: 72
65568176 NNNNNNNNNN
65568186 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAATTACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCAAC
65568251 GTGTCTTG
65 GTGTCTTG
* *
65568259 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTGACAACAGAAATTGAAATTACCTCA
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGA---ATTTTGAAAACAGAAATTGAAATTACCTCA
*
65568324 GCGTGTCTTG
63 ACGTGTCTTG
*
65568334 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
65568399 TGTCTTG
66 TGTCTTG
* *
65568406 GGGCTCAACTTATTTCTCGCAATATGAGTTGA
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGA
65568438 TTCTTTCAAA
Statistics
Matches: 167, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
72 66 0.40
73 32 0.19
75 61 0.37
76 8 0.05
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
TGTCTTG
Found at i:65568657 original size:65 final size:68
Alignment explanation
Indices: 65568579--65568754 Score: 214
Period size: 74 Copynumber: 2.5 Consensus size: 68
65568569 ACGTGAGCCA
* ** *
65568579 AGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTT-TTGAAAGT-AAA-TACCTCAATGTGTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTACAGAAAGTGAAATTACCTCAACGTGTC
*
65568641 TTG
66 CTG
* *
65568644 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT------ACAGAAAGTGAAATTACCTCAA
65568709 CGTGTCCTG
60 CGTGTCCTG
65568718 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
65568755 GAAAAACATA
Statistics
Matches: 95, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
65 36 0.38
72 5 0.05
73 3 0.03
74 51 0.54
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (68 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTACAGAAAGTGAAATTACCTCAACGTGTC
CTG
Found at i:65568748 original size:74 final size:77
Alignment explanation
Indices: 65568624--65568836 Score: 290
Period size: 74 Copynumber: 2.7 Consensus size: 77
65568614 TTTTGAAAGT
*
65568624 AAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-A-AAA-
1 AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAATAAAT
65568686 AACAGAAATTGA
66 AACAGAAATTGA
* * *
65568698 AATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA
1 AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG----A-A
*
65568763 TAAATTGAACAGGAATTGA
61 TAAA-T-AACAGAAATTGA
65568782 AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC-CAATATGAGTTGATTTT
1 AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
65568837 GGTGTCCTGA
Statistics
Matches: 121, Mismatches: 8, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
74 54 0.45
80 1 0.01
81 3 0.02
83 17 0.14
84 46 0.38
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.30
Consensus pattern (77 bp):
AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAATAAAT
AACAGAAATTGA
Found at i:65568857 original size:44 final size:45
Alignment explanation
Indices: 65568794--65568881 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 45
65568784 ATACCTCAAC
*
65568794 GTGTCTTGAGGCTCAACTCACCTCTC-CAATATGAGTTGATTTTG
1 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG
* **
65568838 GTGTCCTGAGGCTCGACTCATTTCTCGCAATATGAGTTGATTTT
1 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
65568882 TTTTTTGACA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 22 0.56
45 17 0.44
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (45 bp):
GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTG
Found at i:65568998 original size:72 final size:72
Alignment explanation
Indices: 65568896--65569125 Score: 318
Period size: 72 Copynumber: 3.1 Consensus size: 72
65568886 TTGACAATAG
* *
65568896 AAATTGAAATTACCTCAGCGTGTTCTGAGGCCCAACTCACCTCTAGCAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGA
65568961 AAAACAA
66 AAAACAA
* ** *
65568968 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCGACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA------
* * *
65569033 TTTTG-ACAATAG
60 TTTTGAAAAACAA
65569045 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGA
65569110 AAAACAA
66 AAAACAA
65569117 AAATTGAAA
1 AAATTGAAA
65569126 AAGGCTTAAC
Statistics
Matches: 135, Mismatches: 16, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
71 5 0.04
72 66 0.49
77 59 0.44
78 5 0.04
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (72 bp):
AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGA
AAAACAA
Found at i:65569070 original size:77 final size:77
Alignment explanation
Indices: 65568838--65569107 Score: 372
Period size: 77 Copynumber: 3.6 Consensus size: 77
65568828 GTTGATTTTG
* ** *
65568838 GTGTCCTGAGGCTCGACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGACAATAGAAATTGA
1 GTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTTTTGACAATAGAAATTGA
65568903 AATTACCTCAGC
66 AATTACCTCAGC
* * * * *
65568915 GTGTTCTGAGGCCCAACTCACCTCTAGCAATATGAGTTGA------TTTTGAAAAACAAAAATTG
1 GTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTTTTG-ACAATAGAAATTG
65568974 AAATTACCTCAGC
65 AAATTACCTCAGC
* ** *
65568987 GTGTCCTGAGGCTCGACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGACAATAGAAATTGA
1 GTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTTTTGACAATAGAAATTGA
65569052 AATTACCTCAGC
66 AATTACCTCAGC
65569064 GTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 GTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
65569108 GAAAAACAAA
Statistics
Matches: 164, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
71 5 0.03
72 57 0.35
77 97 0.59
78 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (77 bp):
GTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTTTTTGACAATAGAAATTGA
AATTACCTCAGC
Found at i:65569108 original size:149 final size:149
Alignment explanation
Indices: 65568838--65569125 Score: 558
Period size: 149 Copynumber: 1.9 Consensus size: 149
65568828 GTTGATTTTG
65568838 GTGTCCTGAGGCTCGACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGACAATAGAAATTGA
1 GTGTCCTGAGGCTCGACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGACAATAGAAATTGA
*
65568903 AATTACCTCAGCGTGTTCTGAGGCCCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAA
66 AATTACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAA
65568968 AAATTGAAATTACCTCAGC
131 AAATTGAAATTACCTCAGC
65568987 GTGTCCTGAGGCTCGACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGACAATAGAAATTGA
1 GTGTCCTGAGGCTCGACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGACAATAGAAATTGA
*
65569052 AATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAA
66 AATTACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAA
65569117 AAATTGAAA
131 AAATTGAAA
65569126 AAGGCTTAAC
Statistics
Matches: 137, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 137 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Consensus pattern (149 bp):
GTGTCCTGAGGCTCGACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGACAATAGAAATTGA
AATTACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAA
AAATTGAAATTACCTCAGC
Found at i:65569223 original size:201 final size:194
Alignment explanation
Indices: 65568929--65569299 Score: 476
Period size: 192 Copynumber: 1.9 Consensus size: 194
65568919 TCTGAGGCCC
* * * * * * *
65568929 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTGAAATTACCTCAGCGTGTCCT
1 AACTCACCTCTAGCAATATGAGTTCAATTT-AAAAACAAAAACTAAAAATACCTCAGCGTGCCCC
* * * *
65568994 GAGGCTCGACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGACAATAGAAATTGAAATTACC
65 GAGGCTCAACTCACTTCTCGCAATATGAGTTGA------TTTTGA-AA-A-AAATTAAAAATACC
*
65569059 TCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTGA
121 TCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTGA
65569124 AAAAGGCTT
186 AAAAGGCTT
* * *
65569133 AACTCACCTCTCGCAATATGAG-TCAATTT-AAAACATAAACTAAAAATACCTCGGCGTGCCCCG
1 AACTCACCTCTAGCAATATGAGTTCAATTTAAAAACAAAAACTAAAAATACCTCAGCGTGCCCCG
65569196 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAAAATTAAAAATACCTCAACGTGTC
66 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAAAATTAAAAATACCTCAACGTGTC
* * *
65569261 TTGAGGCTCAACTCATCTCTTGCAATATGAGTTGATTTT
131 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
65569300 CCTTGGAAAG
Statistics
Matches: 149, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
192 57 0.38
193 1 0.01
194 2 0.01
195 6 0.04
201 57 0.38
203 5 0.03
204 21 0.14
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (194 bp):
AACTCACCTCTAGCAATATGAGTTCAATTTAAAAACAAAAACTAAAAATACCTCAGCGTGCCCCG
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAAAATTAAAAATACCTCAACGTGTC
CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTGAAAAAGGCTT
Found at i:65569272 original size:68 final size:70
Alignment explanation
Indices: 65569127--65569299 Score: 201
Period size: 68 Copynumber: 2.5 Consensus size: 70
65569117 AAATTGAAAA
* * * * **
65569127 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAACTAAAAATACCTCAACGTG
65569191 CCCCG
66 CCCCG
* *
65569196 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAA-A-AAATTAAAAATACCTCAACGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAACTAAAAATACCTCAACGTG
* **
65569259 TCTTG
66 CCCCG
*
65569264 AGGCTCAACTCA-TCTCTTGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
65569300 CCTTGGAAAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
67 1 0.01
68 54 0.60
69 27 0.30
70 8 0.09
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:65582121 original size:11 final size:12
Alignment explanation
Indices: 65582107--65582144 Score: 62
Period size: 11 Copynumber: 3.3 Consensus size: 12
65582097 AAGAAAAAAA
65582107 GAAGAGAG-AGG
1 GAAGAGAGAAGG
65582118 GAAGAGAGAAGG
1 GAAGAGAGAAGG
65582130 G-AGAGAGAAGG
1 GAAGAGAGAAGG
65582141 GAAG
1 GAAG
65582145 GGGAAGGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 19 0.76
12 6 0.24
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:65582134 original size:22 final size:22
Alignment explanation
Indices: 65582109--65582152 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
65582099 GAAAAAAAGA
65582109 AGAGAG-AGGGAAGAGAGAAGGG
1 AGAGAGAAGGGAAG-GAGAAGGG
*
65582131 AGAGAGAAGGGAAGGGGAAGGG
1 AGAGAGAAGGGAAGGAGAAGGG
65582153 GAATCCGGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (22 bp):
AGAGAGAAGGGAAGGAGAAGGG
Found at i:65582703 original size:35 final size:35
Alignment explanation
Indices: 65582658--65582726 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
65582648 GGGTGTGTGA
65582658 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
1 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
65582693 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
65582727 AGAGGCAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.20, C:0.12, G:0.51, T:0.17
Consensus pattern (35 bp):
TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
Found at i:65583008 original size:14 final size:14
Alignment explanation
Indices: 65582989--65583022 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
65582979 GAGTTGATTT
*
65582989 TTGAAAAATATAAA
1 TTGAAAAATAGAAA
*
65583003 TTGAAAAATAGAGA
1 TTGAAAAATAGAAA
65583017 TTGAAA
1 TTGAAA
65583023 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (14 bp):
TTGAAAAATAGAAA
Found at i:65583040 original size:86 final size:86
Alignment explanation
Indices: 65582865--65583084 Score: 262
Period size: 86 Copynumber: 2.5 Consensus size: 86
65582855 ATGTAAACCA
** * *
65582865 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAGCAGAGATTGAAAAGCAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTG-A--TTTTTGAAAAATAGAAATTGAAAAACAAAA
* *
65582930 ATGAAAATTCCTCAGCGTGCCCTG
63 ATGAAAATACCTCAGCGTACCCTG
* * * * *
65582954 AGGCTCAATTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAATAGAGATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTGAAAAACA-AAAAT
*
65583019 G-AAATACCTCAGCGTATCCTG
65 GAAAATACCTCAGCGTACCCTG
** *
65583040 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAATA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATA
65583085 AAAACATCAA
Statistics
Matches: 114, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
86 79 0.69
87 4 0.04
88 1 0.01
89 30 0.26
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (86 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTGAAAAACAAAAATG
AAAATACCTCAGCGTACCCTG
Found at i:65583677 original size:36 final size:36
Alignment explanation
Indices: 65583635--65583706 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
65583625 AAGAACAGTA
*
65583635 AAAGGTATCATAAAGAGGAAGGGGATCGCATTCAAC
1 AAAGGTATCATAAAGAGGAAAGGGATCGCATTCAAC
65583671 AAAGGTATCATAAAGAGGAAAGGGATCGCATTCAAC
1 AAAGGTATCATAAAGAGGAAAGGGATCGCATTCAAC
65583707 GGCTACAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.43, C:0.14, G:0.26, T:0.17
Consensus pattern (36 bp):
AAAGGTATCATAAAGAGGAAAGGGATCGCATTCAAC
Found at i:65591062 original size:21 final size:19
Alignment explanation
Indices: 65591032--65591075 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
65591022 AGAAATACTT
*
65591032 AATATATA-ATAAT-TTAA
1 AATATATACATAATATAAA
65591049 AATATATACATAATATAAA
1 AATATATACATAATATAAA
65591068 AATATATA
1 AATATATA
65591076 TAGAACGTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 5 0.21
19 11 0.46
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
AATATATACATAATATAAA
Found at i:65591189 original size:9 final size:9
Alignment explanation
Indices: 65591167--65591232 Score: 50
Period size: 9 Copynumber: 7.7 Consensus size: 9
65591157 ACATACAATG
*
65591167 TATATAAAA
1 TATATATAA
*
65591176 AATATATAA
1 TATATATAA
65591185 TATATATACA
1 TATATATA-A
65591195 -ATATAT-A
1 TATATATAA
* *
65591202 CATATCTAA
1 TATATATAA
65591211 TATA-ATAA
1 TATATATAA
*
65591219 TAAATAT-A
1 TATATATAA
65591227 TATATA
1 TATATA
65591233 AAAACTATTG
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
7 1 0.02
8 17 0.38
9 26 0.58
10 1 0.02
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.38
Consensus pattern (9 bp):
TATATATAA
Found at i:65591191 original size:11 final size:11
Alignment explanation
Indices: 65591167--65591232 Score: 50
Period size: 11 Copynumber: 6.4 Consensus size: 11
65591157 ACATACAATG
* *
65591167 TATATAAAAAA
1 TATATAATATA
65591178 TATATAATATA
1 TATATAATATA
*
65591189 TATACAATATA
1 TATATAATATA
* *
65591200 TACAT-ATCTA
1 TATATAATATA
65591210 -ATATAATA-A
1 TATATAATATA
*
65591219 TAAAT-ATATA
1 TATATAATATA
65591229 TATA
1 TATA
65591233 AAAACTATTG
Statistics
Matches: 42, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
9 7 0.17
10 13 0.31
11 22 0.52
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.38
Consensus pattern (11 bp):
TATATAATATA
Found at i:65591449 original size:3 final size:3
Alignment explanation
Indices: 65591441--65591469 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
65591431 ATGACAACAC
65591441 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
65591470 TAAAGTAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:65592139 original size:16 final size:18
Alignment explanation
Indices: 65592113--65592146 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
65592103 GTTATTGTTT
65592113 GGGTTTGTGGG-TTAGTG
1 GGGTTTGTGGGTTTAGTG
65592130 GGGTTT-TGGGTTTAGTG
1 GGGTTTGTGGGTTTAGTG
65592147 TAATGTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.06, C:0.00, G:0.50, T:0.44
Consensus pattern (18 bp):
GGGTTTGTGGGTTTAGTG
Done.